Query psy17128
Match_columns 124
No_of_seqs 104 out of 419
Neff 5.2
Searched_HMMs 46136
Date Fri Aug 16 22:37:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17128.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17128hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06387 PBP1_iGluR_AMPA_GluR3 100.0 3.2E-29 6.9E-34 208.7 10.0 98 4-124 38-135 (372)
2 cd06390 PBP1_iGluR_AMPA_GluR1 99.9 9.1E-28 2E-32 198.4 10.6 97 4-123 31-127 (364)
3 cd06392 PBP1_iGluR_delta_1 N-t 99.9 7.6E-27 1.6E-31 196.8 10.9 101 4-124 37-149 (400)
4 cd06394 PBP1_iGluR_Kainate_KA1 99.9 1.5E-24 3.2E-29 178.4 11.1 101 5-124 41-145 (333)
5 cd06389 PBP1_iGluR_AMPA_GluR2 99.9 2E-24 4.3E-29 177.8 10.3 97 4-123 32-128 (370)
6 cd06383 PBP1_iGluR_AMPA_Like N 99.9 3.1E-24 6.7E-29 177.6 11.0 101 5-124 41-144 (368)
7 cd06388 PBP1_iGluR_AMPA_GluR4 99.9 3E-24 6.4E-29 177.5 10.0 98 4-124 38-135 (371)
8 cd06377 PBP1_iGluR_NMDA_NR3 N- 99.9 2.4E-23 5.2E-28 175.5 11.4 102 4-124 55-162 (382)
9 cd06391 PBP1_iGluR_delta_2 N-t 99.8 1E-20 2.3E-25 158.5 11.9 101 4-124 37-149 (400)
10 cd06381 PBP1_iGluR_delta_like 99.8 2.3E-20 5.1E-25 154.3 12.2 100 5-124 38-149 (363)
11 cd06378 PBP1_iGluR_NMDA_NR2 N- 99.8 4E-19 8.6E-24 147.1 11.4 102 4-124 36-146 (362)
12 cd06351 PBP1_iGluR_N_LIVBP_lik 99.8 1.3E-18 2.8E-23 135.5 11.7 101 5-124 38-143 (328)
13 cd06380 PBP1_iGluR_AMPA N-term 99.8 8.9E-19 1.9E-23 142.2 10.8 98 5-124 38-137 (382)
14 cd06393 PBP1_iGluR_Kainate_Glu 99.8 5.8E-18 1.3E-22 138.8 10.6 99 6-123 49-149 (384)
15 cd06367 PBP1_iGluR_NMDA N-term 99.6 2.1E-15 4.5E-20 121.8 11.7 101 5-124 37-147 (362)
16 KOG1054|consensus 99.6 3.8E-16 8.3E-21 138.4 6.3 98 4-124 65-162 (897)
17 cd06382 PBP1_iGluR_Kainate N-t 99.6 3.2E-15 7E-20 118.7 10.8 93 13-124 47-140 (327)
18 cd06269 PBP1_glutamate_recepto 99.6 2.8E-15 6E-20 113.3 9.6 93 13-124 53-151 (298)
19 cd06368 PBP1_iGluR_non_NMDA_li 99.6 1.3E-14 2.9E-19 114.3 11.3 93 12-123 45-137 (324)
20 PF01094 ANF_receptor: Recepto 99.5 3E-14 6.6E-19 111.2 7.2 93 13-124 35-132 (348)
21 cd06379 PBP1_iGluR_NMDA_NR1 N- 99.5 3.8E-13 8.2E-18 109.5 12.1 93 13-124 63-165 (377)
22 cd06386 PBP1_NPR_C_like Ligand 99.5 2.2E-13 4.8E-18 112.2 9.7 84 20-124 60-148 (387)
23 cd06372 PBP1_GC_G_like Ligand- 99.5 6.3E-13 1.4E-17 108.5 11.1 91 14-123 52-147 (391)
24 cd06371 PBP1_sensory_GC_DEF_li 99.4 1.2E-12 2.5E-17 108.0 9.9 97 6-124 41-143 (382)
25 cd06376 PBP1_mGluR_groupIII Li 99.4 1.1E-12 2.5E-17 110.3 9.7 80 27-124 100-183 (463)
26 cd06370 PBP1_Speract_GC_like L 99.4 2.4E-12 5.2E-17 106.3 11.4 91 13-124 53-147 (404)
27 cd06373 PBP1_NPR_like Ligand b 99.4 3.2E-12 6.9E-17 104.6 10.1 91 16-124 59-153 (396)
28 cd06374 PBP1_mGluR_groupI Liga 99.4 1.6E-12 3.5E-17 109.8 7.4 83 24-124 111-197 (472)
29 cd06365 PBP1_Pheromone_recepto 99.3 3.9E-12 8.5E-17 108.0 9.2 78 29-124 102-183 (469)
30 cd06375 PBP1_mGluR_groupII Lig 99.3 5.7E-12 1.2E-16 106.8 9.8 80 27-124 102-185 (458)
31 cd06366 PBP1_GABAb_receptor Li 99.3 1.3E-11 2.9E-16 98.6 10.1 99 7-124 40-146 (350)
32 cd06350 PBP1_GPCR_family_C_lik 99.3 3.4E-11 7.5E-16 95.5 11.2 89 18-124 65-171 (348)
33 cd06362 PBP1_mGluR Ligand bind 99.3 1.6E-11 3.5E-16 102.1 7.9 79 28-124 101-183 (452)
34 cd06361 PBP1_GPC6A_like Ligand 99.3 6.7E-11 1.5E-15 98.9 11.4 78 29-124 102-183 (403)
35 cd06385 PBP1_NPR_A Ligand-bind 99.2 3.9E-11 8.4E-16 98.6 8.5 79 27-123 71-154 (405)
36 cd06363 PBP1_Taste_receptor Li 99.2 2.8E-11 6.1E-16 100.1 7.3 79 28-124 105-187 (410)
37 cd06352 PBP1_NPR_GC_like Ligan 99.2 2.3E-10 4.9E-15 92.7 11.0 101 6-124 41-148 (389)
38 cd06364 PBP1_CaSR Ligand-bindi 99.1 1.4E-10 3.1E-15 99.9 7.6 78 29-124 117-198 (510)
39 cd06342 PBP1_ABC_LIVBP_like Ty 99.1 6E-10 1.3E-14 87.6 10.1 101 7-124 41-146 (334)
40 cd06384 PBP1_NPR_B Ligand-bind 99.1 3.5E-10 7.6E-15 93.1 8.6 79 27-123 70-154 (399)
41 cd06345 PBP1_ABC_ligand_bindin 99.1 2.2E-09 4.8E-14 85.8 11.4 100 7-124 41-155 (344)
42 cd06347 PBP1_ABC_ligand_bindin 99.0 3.1E-09 6.8E-14 83.3 11.1 99 7-123 41-145 (334)
43 cd04509 PBP1_ABC_transporter_G 99.0 4.6E-09 1E-13 79.1 11.2 89 17-123 53-146 (299)
44 cd06331 PBP1_AmiC_like Type I 99.0 2.9E-09 6.3E-14 84.8 10.3 100 6-123 40-142 (333)
45 cd06348 PBP1_ABC_ligand_bindin 99.0 2.7E-09 5.9E-14 85.1 10.2 87 19-123 55-146 (344)
46 cd06338 PBP1_ABC_ligand_bindin 99.0 4E-09 8.8E-14 83.8 10.9 100 6-123 44-151 (345)
47 cd06340 PBP1_ABC_ligand_bindin 99.0 4.3E-09 9.3E-14 84.7 9.9 98 7-123 44-154 (347)
48 cd06344 PBP1_ABC_ligand_bindin 99.0 9.3E-09 2E-13 82.0 10.9 99 7-123 40-144 (332)
49 cd06335 PBP1_ABC_ligand_bindin 98.9 1.8E-08 3.8E-13 81.2 11.3 101 7-124 41-149 (347)
50 cd06346 PBP1_ABC_ligand_bindin 98.9 1.6E-08 3.6E-13 80.1 10.5 100 7-124 41-148 (312)
51 cd06268 PBP1_ABC_transporter_L 98.9 3.3E-08 7.1E-13 74.4 11.0 99 7-123 41-145 (298)
52 cd06329 PBP1_SBP_like_3 Peripl 98.8 4E-08 8.7E-13 78.8 9.6 99 7-123 41-153 (342)
53 cd06330 PBP1_Arsenic_SBP_like 98.8 6.3E-08 1.4E-12 77.2 9.9 87 19-123 55-148 (346)
54 cd06359 PBP1_Nba_like Type I p 98.7 2.6E-07 5.7E-12 73.7 10.3 100 7-124 39-145 (333)
55 cd06343 PBP1_ABC_ligand_bindin 98.6 3.6E-07 7.8E-12 73.4 10.7 100 7-123 48-154 (362)
56 cd06336 PBP1_ABC_ligand_bindin 98.6 6.3E-07 1.4E-11 72.2 10.3 99 6-123 44-148 (347)
57 cd06339 PBP1_YraM_LppC_lipopro 98.6 6.7E-07 1.5E-11 72.3 10.4 89 17-123 46-134 (336)
58 cd06349 PBP1_ABC_ligand_bindin 98.5 1.3E-06 2.9E-11 69.6 11.3 102 6-124 40-146 (340)
59 PF13458 Peripla_BP_6: Peripla 98.5 5.6E-07 1.2E-11 70.8 8.4 100 7-123 43-145 (343)
60 PRK15404 leucine ABC transport 98.5 1.6E-06 3.5E-11 71.3 10.7 100 7-123 67-171 (369)
61 cd06326 PBP1_STKc_like Type I 98.5 3.3E-06 7.2E-11 66.6 11.7 99 7-123 42-146 (336)
62 cd06358 PBP1_NHase Type I peri 98.4 3E-06 6.5E-11 67.6 10.7 100 6-123 40-142 (333)
63 cd06327 PBP1_SBP_like_1 Peripl 98.4 2.2E-06 4.8E-11 68.3 9.6 99 7-123 40-145 (334)
64 cd06332 PBP1_aromatic_compound 98.4 4E-06 8.7E-11 65.7 10.7 99 7-123 39-144 (333)
65 cd06337 PBP1_ABC_ligand_bindin 98.3 1.3E-05 2.9E-10 65.0 11.7 100 6-123 42-155 (357)
66 TIGR03863 PQQ_ABC_bind ABC tra 98.3 4.3E-06 9.3E-11 69.1 8.9 86 20-123 49-138 (347)
67 cd06333 PBP1_ABC-type_HAAT_lik 98.3 1.6E-05 3.5E-10 62.4 11.3 86 20-123 55-143 (312)
68 cd06360 PBP1_alkylbenzenes_lik 98.3 1.4E-05 3E-10 63.1 10.6 99 7-123 39-144 (336)
69 cd01391 Periplasmic_Binding_Pr 98.2 3.8E-05 8.3E-10 55.9 11.6 86 20-123 48-134 (269)
70 cd06355 PBP1_FmdD_like Peripla 98.2 1.5E-05 3.2E-10 64.5 10.2 100 7-123 41-143 (348)
71 cd06356 PBP1_Amide_Urea_BP_lik 98.2 1.4E-05 3.1E-10 64.1 10.0 100 6-123 40-142 (334)
72 COG0683 LivK ABC-type branched 98.2 1.9E-05 4.2E-10 64.9 10.3 103 3-123 49-158 (366)
73 KOG1056|consensus 98.1 7E-06 1.5E-10 76.0 6.8 77 30-124 125-205 (878)
74 cd06328 PBP1_SBP_like_2 Peripl 98.1 5.6E-05 1.2E-09 60.7 10.7 100 6-124 41-147 (333)
75 TIGR03407 urea_ABC_UrtA urea A 98.0 6.5E-05 1.4E-09 61.1 9.7 101 6-123 41-144 (359)
76 TIGR03669 urea_ABC_arch urea A 97.9 9.1E-05 2E-09 61.5 10.0 99 7-123 42-143 (374)
77 cd06334 PBP1_ABC_ligand_bindin 97.8 0.00024 5.2E-09 58.1 9.9 99 7-124 41-151 (351)
78 cd06341 PBP1_ABC_ligand_bindin 97.7 0.00046 1E-08 54.8 9.7 90 15-123 51-142 (341)
79 cd06357 PBP1_AmiC Periplasmic 97.6 0.00091 2E-08 54.4 10.6 100 6-123 40-142 (360)
80 KOG1053|consensus 97.1 0.0046 1E-07 58.3 10.3 98 5-121 75-181 (1258)
81 cd06369 PBP1_GC_C_enterotoxin_ 96.5 0.0055 1.2E-07 52.6 5.7 81 31-124 82-163 (380)
82 cd01537 PBP1_Repressors_Sugar_ 94.9 0.62 1.3E-05 34.2 10.3 97 6-122 31-127 (264)
83 cd06267 PBP1_LacI_sugar_bindin 94.6 0.66 1.4E-05 34.2 10.0 95 7-123 32-126 (264)
84 cd06320 PBP1_allose_binding Pe 92.2 2.3 5.1E-05 32.2 9.7 81 20-121 47-130 (275)
85 PF04348 LppC: LppC putative l 90.8 1.4 3E-05 39.1 8.1 98 4-123 254-355 (536)
86 cd06300 PBP1_ABC_sugar_binding 90.1 6.7 0.00015 29.6 11.1 78 7-88 37-116 (272)
87 cd06282 PBP1_GntR_like_2 Ligan 89.1 7.7 0.00017 28.9 10.5 79 20-121 45-124 (266)
88 cd01536 PBP1_ABC_sugar_binding 87.9 9 0.00019 28.3 11.8 96 7-122 32-130 (267)
89 KOG4440|consensus 86.3 2.4 5.2E-05 39.6 6.6 91 15-123 79-179 (993)
90 cd01545 PBP1_SalR Ligand-bindi 85.3 14 0.00029 27.7 10.7 81 20-122 45-127 (270)
91 PF13433 Peripla_BP_5: Peripla 84.0 5.3 0.00012 34.3 7.3 95 10-121 47-142 (363)
92 PF13407 Peripla_BP_4: Peripla 83.8 16 0.00035 27.4 10.6 77 11-89 36-114 (257)
93 cd06284 PBP1_LacI_like_6 Ligan 80.5 21 0.00046 26.5 10.7 93 6-121 31-123 (267)
94 cd06273 PBP1_GntR_like_1 This 79.7 23 0.0005 26.5 11.3 88 10-121 35-124 (268)
95 cd06311 PBP1_ABC_sugar_binding 79.6 24 0.00053 26.7 11.1 80 6-88 36-118 (274)
96 TIGR00333 nrdI ribonucleoside- 76.9 9 0.00019 28.0 5.6 59 29-115 63-125 (125)
97 cd06309 PBP1_YtfQ_like Peripla 76.6 30 0.00065 26.1 11.7 77 11-88 36-115 (273)
98 cd06323 PBP1_ribose_binding Pe 75.6 31 0.00066 25.7 10.8 80 6-88 31-112 (268)
99 cd06313 PBP1_ABC_sugar_binding 74.8 35 0.00077 26.1 11.5 98 6-121 31-131 (272)
100 cd06321 PBP1_ABC_sugar_binding 72.4 39 0.00084 25.4 9.9 71 13-88 40-112 (271)
101 PF13207 AAA_17: AAA domain; P 70.4 4.4 9.6E-05 27.3 2.5 32 31-62 1-32 (121)
102 cd06305 PBP1_methylthioribose_ 69.0 46 0.001 24.9 10.1 91 10-121 35-128 (273)
103 cd06289 PBP1_MalI_like Ligand- 68.8 45 0.00098 24.7 10.4 56 6-62 31-87 (268)
104 cd06301 PBP1_rhizopine_binding 68.0 49 0.0011 24.8 11.3 76 11-88 37-114 (272)
105 COG1879 RbsB ABC-type sugar tr 67.8 59 0.0013 25.7 9.6 74 14-88 75-149 (322)
106 cd06296 PBP1_CatR_like Ligand- 66.4 52 0.0011 24.6 10.8 93 6-120 31-124 (270)
107 COG0563 Adk Adenylate kinase a 65.5 6.5 0.00014 29.9 2.8 29 32-60 3-31 (178)
108 cd06319 PBP1_ABC_sugar_binding 65.2 56 0.0012 24.5 11.3 73 13-88 38-112 (277)
109 PRK08118 topology modulation p 64.8 7.4 0.00016 28.9 2.9 30 32-61 4-33 (167)
110 cd06278 PBP1_LacI_like_2 Ligan 64.3 56 0.0012 24.2 10.7 80 20-122 44-124 (266)
111 cd06317 PBP1_ABC_sugar_binding 63.3 60 0.0013 24.2 10.2 50 13-63 39-90 (275)
112 cd06325 PBP1_ABC_uncharacteriz 62.4 64 0.0014 24.2 9.4 38 22-62 51-89 (281)
113 PF07905 PucR: Purine cataboli 60.3 30 0.00064 24.4 5.3 42 22-63 64-108 (123)
114 PRK10653 D-ribose transporter 60.3 78 0.0017 24.5 11.5 66 20-88 72-139 (295)
115 cd02020 CMPK Cytidine monophos 58.8 12 0.00026 25.8 3.0 31 31-61 1-31 (147)
116 cd01541 PBP1_AraR Ligand-bindi 57.3 80 0.0017 23.7 10.8 51 12-63 37-92 (273)
117 cd06275 PBP1_PurR Ligand-bindi 56.7 80 0.0017 23.5 11.5 94 6-121 31-125 (269)
118 KOG1055|consensus 54.8 7.4 0.00016 36.9 1.7 81 20-122 101-190 (865)
119 cd06312 PBP1_ABC_sugar_binding 52.1 1E+02 0.0022 23.3 11.3 73 15-88 42-117 (271)
120 COG4213 XylF ABC-type xylose t 51.5 37 0.00079 29.1 5.2 63 8-72 61-124 (341)
121 PRK10014 DNA-binding transcrip 51.5 1.2E+02 0.0025 23.8 11.0 76 23-120 113-189 (342)
122 KOG3843|consensus 51.0 21 0.00045 30.6 3.6 53 7-59 130-192 (432)
123 PLN02881 tetrahydrofolylpolygl 49.5 47 0.001 29.9 5.8 47 15-61 199-245 (530)
124 PF02698 DUF218: DUF218 domain 48.9 66 0.0014 22.8 5.6 74 20-122 26-107 (155)
125 cd06308 PBP1_sensor_kinase_lik 47.9 1.2E+02 0.0025 22.8 11.2 75 11-88 37-113 (270)
126 TIGR01359 UMP_CMP_kin_fam UMP- 47.3 25 0.00054 25.5 3.2 31 31-61 1-31 (183)
127 PRK07261 topology modulation p 45.7 27 0.00058 25.9 3.2 29 32-60 3-31 (171)
128 PF00004 AAA: ATPase family as 45.4 39 0.00085 22.5 3.8 31 33-63 2-32 (132)
129 PRK14530 adenylate kinase; Pro 45.0 27 0.00058 26.5 3.2 30 31-60 5-34 (215)
130 COG1703 ArgK Putative periplas 44.8 1.1E+02 0.0024 26.1 7.0 22 82-118 128-149 (323)
131 COG1560 HtrB Lauroyl/myristoyl 44.1 1.2E+02 0.0027 25.2 7.2 84 20-110 184-284 (308)
132 TIGR00315 cdhB CO dehydrogenas 42.5 45 0.00097 25.4 4.0 42 21-62 18-63 (162)
133 PRK05057 aroK shikimate kinase 41.1 38 0.00081 25.1 3.4 35 28-62 3-37 (172)
134 TIGR01351 adk adenylate kinase 40.8 33 0.00071 25.9 3.1 29 32-60 2-30 (210)
135 cd06295 PBP1_CelR Ligand bindi 40.4 1.6E+02 0.0034 22.1 10.3 79 21-122 54-134 (275)
136 PRK06217 hypothetical protein; 40.4 37 0.00081 25.0 3.3 30 32-61 4-33 (183)
137 PRK08057 cobalt-precorrin-6x r 39.3 1.2E+02 0.0027 24.3 6.3 43 21-63 55-101 (248)
138 cd06310 PBP1_ABC_sugar_binding 38.9 1.6E+02 0.0035 21.9 10.0 86 15-120 42-130 (273)
139 TIGR02173 cyt_kin_arch cytidyl 38.5 38 0.00083 23.9 3.0 30 31-60 2-31 (171)
140 PTZ00088 adenylate kinase 1; P 38.5 36 0.00079 26.8 3.1 30 32-61 9-38 (229)
141 PLN02165 adenylate isopentenyl 37.3 22 0.00048 30.2 1.8 43 18-60 32-74 (334)
142 TIGR01360 aden_kin_iso1 adenyl 36.6 44 0.00095 24.0 3.1 30 31-60 5-34 (188)
143 PRK15408 autoinducer 2-binding 36.4 2.4E+02 0.0052 23.1 9.1 43 20-63 70-114 (336)
144 cd06299 PBP1_LacI_like_13 Liga 36.1 1.8E+02 0.0039 21.5 11.4 42 21-64 46-88 (265)
145 PF00205 TPP_enzyme_M: Thiamin 35.6 23 0.0005 24.8 1.4 41 22-62 3-47 (137)
146 PF02571 CbiJ: Precorrin-6x re 35.2 1.9E+02 0.0041 23.2 6.8 65 21-85 56-124 (249)
147 cd01428 ADK Adenylate kinase ( 34.9 49 0.0011 24.0 3.1 30 32-61 2-31 (194)
148 PRK04182 cytidylate kinase; Pr 34.8 49 0.0011 23.5 3.1 30 31-60 2-31 (180)
149 cd06270 PBP1_GalS_like Ligand 34.5 2E+02 0.0042 21.5 11.5 62 23-88 48-109 (268)
150 COG1440 CelA Phosphotransferas 33.9 25 0.00053 25.3 1.3 36 26-61 45-80 (102)
151 PF03129 HGTP_anticodon: Antic 33.8 58 0.0013 21.1 3.1 46 15-61 13-59 (94)
152 cd01542 PBP1_TreR_like Ligand- 32.6 2E+02 0.0044 21.1 10.3 76 7-88 32-107 (259)
153 KOG1575|consensus 31.9 1.2E+02 0.0025 25.9 5.3 57 6-62 133-218 (336)
154 PRK00023 cmk cytidylate kinase 31.1 42 0.00091 26.1 2.3 35 27-61 2-36 (225)
155 TIGR00174 miaA tRNA isopenteny 31.0 67 0.0015 26.5 3.6 31 31-61 1-31 (287)
156 PF00406 ADK: Adenylate kinase 30.9 35 0.00076 24.2 1.7 27 34-60 1-27 (151)
157 TIGR01501 MthylAspMutase methy 30.9 46 0.001 24.5 2.4 27 26-53 106-132 (134)
158 PRK13600 putative ribosomal pr 30.8 1.1E+02 0.0023 20.9 4.1 42 20-61 18-62 (84)
159 PRK14531 adenylate kinase; Pro 30.7 60 0.0013 24.0 3.1 30 31-60 4-33 (183)
160 PF06506 PrpR_N: Propionate ca 30.7 1.1E+02 0.0025 22.6 4.6 48 6-60 102-149 (176)
161 PF01745 IPT: Isopentenyl tran 30.3 44 0.00095 27.3 2.4 32 30-61 2-33 (233)
162 PRK03839 putative kinase; Prov 30.2 59 0.0013 23.7 2.9 31 31-61 2-32 (180)
163 PRK02496 adk adenylate kinase; 30.0 63 0.0014 23.6 3.0 29 32-60 4-32 (184)
164 PRK14528 adenylate kinase; Pro 29.9 63 0.0014 24.1 3.0 30 32-61 4-33 (186)
165 PRK13810 orotate phosphoribosy 29.7 1.7E+02 0.0037 22.4 5.5 61 3-64 39-106 (187)
166 PRK13949 shikimate kinase; Pro 29.1 65 0.0014 23.8 3.0 30 32-61 4-33 (169)
167 PF11735 CAP59_mtransfer: Cryp 29.0 1.6E+02 0.0034 23.8 5.4 21 103-123 22-43 (241)
168 PRK00091 miaA tRNA delta(2)-is 29.0 66 0.0014 26.6 3.3 32 30-61 5-36 (307)
169 COG4148 ModC ABC-type molybdat 28.8 51 0.0011 28.3 2.6 25 29-53 24-48 (352)
170 cd03264 ABC_drug_resistance_li 28.6 68 0.0015 23.9 3.0 26 28-53 24-49 (211)
171 cd05565 PTS_IIB_lactose PTS_II 28.4 52 0.0011 23.0 2.2 31 31-61 49-79 (99)
172 PRK14527 adenylate kinase; Pro 28.0 55 0.0012 24.2 2.5 31 30-60 7-37 (191)
173 cd06322 PBP1_ABC_sugar_binding 28.0 2.5E+02 0.0055 20.8 11.2 71 15-88 40-112 (267)
174 PRK00945 acetyl-CoA decarbonyl 28.0 1.1E+02 0.0023 23.6 4.1 42 21-62 25-71 (171)
175 cd00464 SK Shikimate kinase (S 27.9 78 0.0017 21.9 3.1 30 32-61 2-31 (154)
176 cd01538 PBP1_ABC_xylose_bindin 27.8 2.8E+02 0.0061 21.2 11.6 52 11-63 36-89 (288)
177 PRK04207 glyceraldehyde-3-phos 27.7 2E+02 0.0043 24.0 5.9 86 30-118 78-163 (341)
178 PRK00279 adk adenylate kinase; 27.6 75 0.0016 24.0 3.2 29 32-60 3-31 (215)
179 cd06306 PBP1_TorT-like TorT-li 27.6 2.7E+02 0.0059 21.0 9.9 72 14-88 41-113 (268)
180 cd04163 Era Era subfamily. Er 27.6 63 0.0014 21.7 2.5 25 28-52 2-26 (168)
181 TIGR00017 cmk cytidylate kinas 27.5 70 0.0015 24.9 3.0 30 31-60 4-33 (217)
182 cd06281 PBP1_LacI_like_5 Ligan 27.2 2.7E+02 0.0058 20.8 10.6 49 13-63 38-88 (269)
183 cd06298 PBP1_CcpA_like Ligand- 27.2 2.6E+02 0.0056 20.6 11.4 73 12-88 37-109 (268)
184 COG3172 NadR Predicted ATPase/ 26.7 56 0.0012 25.8 2.3 29 30-58 9-37 (187)
185 COG1126 GlnQ ABC-type polar am 26.6 62 0.0013 26.5 2.6 61 28-89 26-102 (240)
186 cd06290 PBP1_LacI_like_9 Ligan 26.6 2.7E+02 0.0058 20.6 11.3 54 7-63 32-86 (265)
187 COG1117 PstB ABC-type phosphat 26.2 62 0.0013 26.7 2.5 25 28-53 32-56 (253)
188 cd06271 PBP1_AglR_RafR_like Li 26.2 2.7E+02 0.0058 20.5 9.8 42 21-63 49-91 (268)
189 PF12444 Sox_N: Sox developmen 26.0 58 0.0013 22.5 2.0 19 99-117 61-79 (84)
190 PRK03600 nrdI ribonucleotide r 26.0 1.7E+02 0.0036 21.4 4.6 43 30-84 74-120 (134)
191 PLN02200 adenylate kinase fami 25.5 82 0.0018 24.7 3.1 30 31-60 45-74 (234)
192 cd01575 PBP1_GntR Ligand-bindi 25.1 2.8E+02 0.0061 20.4 10.6 78 22-122 47-125 (268)
193 PRK14532 adenylate kinase; Pro 24.9 95 0.0021 22.6 3.2 29 32-60 3-31 (188)
194 PF07085 DRTGG: DRTGG domain; 24.5 86 0.0019 21.1 2.7 36 26-61 57-92 (105)
195 TIGR01532 E4PD_g-proteo D-eryt 24.4 83 0.0018 26.3 3.1 26 93-118 150-175 (325)
196 TIGR01745 asd_gamma aspartate- 23.7 88 0.0019 26.9 3.2 26 94-119 133-158 (366)
197 PRK13947 shikimate kinase; Pro 23.5 1.1E+02 0.0023 21.9 3.2 30 32-61 4-33 (171)
198 PRK13535 erythrose 4-phosphate 23.3 95 0.0021 26.2 3.3 26 93-118 152-177 (336)
199 PRK09825 idnK D-gluconate kina 23.3 1E+02 0.0022 22.9 3.2 32 28-59 2-33 (176)
200 cd03273 ABC_SMC2_euk Eukaryoti 23.2 86 0.0019 24.3 2.8 27 26-52 22-48 (251)
201 cd06288 PBP1_sucrose_transcrip 22.9 3.2E+02 0.0069 20.2 10.4 93 6-122 32-125 (269)
202 PRK02304 adenine phosphoribosy 22.9 1.6E+02 0.0035 21.8 4.1 46 16-62 36-82 (175)
203 COG1929 Glycerate kinase [Carb 22.4 77 0.0017 27.6 2.6 25 28-52 201-225 (378)
204 cd03278 ABC_SMC_barmotin Barmo 22.4 93 0.002 23.5 2.8 26 27-52 20-45 (197)
205 PRK13602 putative ribosomal pr 21.9 1.9E+02 0.0041 19.2 4.0 41 21-61 17-60 (82)
206 PRK05805 phosphate butyryltran 21.8 4.5E+02 0.0098 21.5 9.6 97 7-120 68-178 (301)
207 PF09905 DUF2132: Uncharacteri 21.4 54 0.0012 21.7 1.1 15 101-115 12-26 (64)
208 cd03801 GT1_YqgM_like This fam 21.1 3.1E+02 0.0066 20.2 5.3 65 52-116 297-365 (374)
209 TIGR01285 nifN nitrogenase mol 20.9 2.7E+02 0.0058 24.0 5.6 85 23-121 229-319 (432)
210 PRK00300 gmk guanylate kinase; 20.8 1.1E+02 0.0023 22.6 2.8 25 30-54 6-30 (205)
211 COG0324 MiaA tRNA delta(2)-iso 20.8 1.1E+02 0.0024 25.7 3.2 32 30-61 4-35 (308)
212 PRK07524 hypothetical protein; 20.5 1.4E+02 0.0031 25.9 3.9 41 20-60 191-233 (535)
213 cd06293 PBP1_LacI_like_11 Liga 20.4 3.7E+02 0.008 20.0 11.5 76 9-88 34-109 (269)
214 cd06318 PBP1_ABC_sugar_binding 20.2 3.8E+02 0.0082 20.0 12.5 80 7-88 32-113 (282)
215 cd06279 PBP1_LacI_like_3 Ligan 20.2 3.9E+02 0.0086 20.2 8.0 77 22-121 48-124 (283)
216 cd00009 AAA The AAA+ (ATPases 20.1 1.9E+02 0.0041 18.7 3.7 34 29-62 19-55 (151)
217 cd06291 PBP1_Qymf_like Ligand 20.1 3.7E+02 0.008 19.9 10.4 70 25-121 50-120 (265)
No 1
>cd06387 PBP1_iGluR_AMPA_GluR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR3 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=99.96 E-value=3.2e-29 Score=208.69 Aligned_cols=98 Identities=19% Similarity=0.458 Sum_probs=91.5
Q ss_pred CCeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH
Q psy17128 4 QPSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 4 ~~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~ 83 (124)
.|+|++++.+|+|++ ++++|+||++||+|||||+++.++++|+|+|+++|||||+++|+.. ...+|++||+|+ ++
T Consensus 38 ~~~i~~~~~~dsf~~-~~~~C~l~~~GV~AIfGp~~~~s~~~v~s~c~~~~iP~i~~~~~~~-~~~~~~l~l~P~---l~ 112 (372)
T cd06387 38 NYHVDHLDSSNSFSV-TNAFCSQFSRGVYAIFGFYDQMSMNTLTSFCGALHTSFITPSFPTD-ADVQFVIQMRPA---LK 112 (372)
T ss_pred EEeeEEecCCChHHH-HHHHHHHhhcccEEEEecCCHhHHHHHHHhhccccCCeeeeCCCCC-CCCceEEEEChh---HH
Confidence 588999999999998 9999999999999999999999999999999999999999988643 566899999999 78
Q ss_pred HHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 84 AAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 84 ~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
+|++| ||++||||+|+++||+++
T Consensus 113 ~Ai~d------------------iI~~~~Wr~~~~iYd~d~ 135 (372)
T cd06387 113 GAILS------------------LLAHYKWEKFVYLYDTER 135 (372)
T ss_pred HHHHH------------------HHHhcCCCEEEEEecCch
Confidence 99999 999999999999998864
No 2
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=99.95 E-value=9.1e-28 Score=198.44 Aligned_cols=97 Identities=30% Similarity=0.506 Sum_probs=90.4
Q ss_pred CCeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH
Q psy17128 4 QPSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 4 ~~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~ 83 (124)
.|+|++++.+|+|++ ++++|+||++||+|||||+++.++++|+|+|+++||||++++++ .....+|+|||+|+ ++
T Consensus 31 ~~~~~~~~~~dsf~~-~~~~C~~~~~gV~AI~Gp~s~~~a~~v~sic~~~~vP~i~~~~~-~~~~~~~~i~~~P~---~~ 105 (364)
T cd06390 31 LPQIDIVNISDSFEM-TYTFCSQFSKGVYAIFGFYDRKTVNMLTSFCGALHVCFITPSFP-VDTSNQFVLQLRPE---LQ 105 (364)
T ss_pred ccceEEeccccHHHH-HHHHHHHhhcCceEEEccCChhHHHHHHHhhcCCCCCceecCCC-CCCCCceEEEeChh---HH
Confidence 489999999999998 99999999999999999999999999999999999999998874 33566889999998 88
Q ss_pred HHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 84 AAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 84 ~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
+|++| ||++|||++|++|||+|
T Consensus 106 ~Ai~d------------------iI~~~~W~~v~iIYd~d 127 (364)
T cd06390 106 DALIS------------------VIEHYKWQKFVYIYDAD 127 (364)
T ss_pred HHHHH------------------HHHHcCCcEEEEEEeCC
Confidence 99999 99999999999999876
No 3
>cd06392 PBP1_iGluR_delta_1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the delta1 receptor of an orphan glutamate receptor family. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 may be closer related to non-NMDA receptors. In contrast to GluRdelta2, GluRdel
Probab=99.94 E-value=7.6e-27 Score=196.82 Aligned_cols=101 Identities=19% Similarity=0.398 Sum_probs=90.7
Q ss_pred CCeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC------------CCCCCCce
Q psy17128 4 QPSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD------------LELNSKEF 71 (124)
Q Consensus 4 ~~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~------------~~~~~~~f 71 (124)
.++|++++..|+|++ ++++|+||++||+|||||+++.++++|+|+|+++|||||+++++ +..+..+|
T Consensus 37 ~~~~~~~~~~d~F~~-~~~ac~l~~~gV~AI~Gp~s~~~a~~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~ 115 (400)
T cd06392 37 TYSIKSIEANNPFQA-VQEACDLMTQGILALVTSTGCASANALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEY 115 (400)
T ss_pred EEEEEecCCCChhHH-HHHHHHHHhcCeEEEECCCchhHHHHHHHHhccCcCCcEeecccccccccccccCCCCcCcCce
Confidence 367889999999998 99999999999999999999999999999999999999998542 23356789
Q ss_pred EEEeecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 72 SVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 72 ~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
.++|+|+ ..++.|++| ||++|+|++|+++||+|+
T Consensus 116 ~~~lrp~-~~~~~Ai~d------------------lV~~~~W~~v~~iYD~d~ 149 (400)
T cd06392 116 TLAARPP-VRLNDVMLK------------------LVTELRWQKFIVFYDSEY 149 (400)
T ss_pred eEEecCc-hHHHHHHHH------------------HHHhCCCcEEEEEEECcc
Confidence 9999998 578889999 999999999999998763
No 4
>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=99.92 E-value=1.5e-24 Score=178.44 Aligned_cols=101 Identities=25% Similarity=0.472 Sum_probs=89.3
Q ss_pred CeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCC-cHHHHHHhhccCCCceEEeeCCCC--CCCCce-EEEeecCHH
Q psy17128 5 PSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDAL-LGPHVQSICEALDVPHMESRLDLE--LNSKEF-SVNLYPSQK 80 (124)
Q Consensus 5 ~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~-~~~~vqsic~~~~IP~i~~~~~~~--~~~~~f-~vnl~P~~~ 80 (124)
++++..+.+++|++ +.++|+++++||+|||||+++. ++.+++++|++++||+|+++|+.. .+..+| ++|++|+++
T Consensus 41 ~~~~d~~~d~~f~~-~~~~~~~l~~gV~AIiGp~ss~~~~~~v~~i~~~~~VP~Is~~~~~~~~~~~~~~~~i~l~P~~~ 119 (333)
T cd06394 41 VDIFELLRDSQYET-TDTMCQILPKGVVSVLGPSSSPASSSIVSHICGEKEIPHFKVGPEETPKLQYLRFASVNLHPSNE 119 (333)
T ss_pred EEEeeccccChHHH-HHHHHHHHhcCeEEEECCCCchHHHHHHHHHhhccCCceEEeccccCcccccccceEEEecCCHH
Confidence 56777788999998 9999999999999999999986 578999999999999999987632 233445 799999999
Q ss_pred HHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 81 LLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 81 ~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
.+++|++| ||++||||+|+++||+|+
T Consensus 120 ~~~~Ai~d------------------li~~~~W~~v~~iYe~d~ 145 (333)
T cd06394 120 DISVAVAG------------------ILNSFNYPTASLICAKAE 145 (333)
T ss_pred HHHHHHHH------------------HHHhcCCCEEEEEEeCcH
Confidence 99999999 999999999999999985
No 5
>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=99.91 E-value=2e-24 Score=177.76 Aligned_cols=97 Identities=25% Similarity=0.548 Sum_probs=89.7
Q ss_pred CCeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH
Q psy17128 4 QPSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 4 ~~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~ 83 (124)
.|+|++++.+|+|++ ++++|+||++||+|||||.++.++.+++++|++++||||+++++.. ....|+++++|+ ++
T Consensus 32 ~~~~~~~~~~dsf~~-~~~~C~~~~~GV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~~~-~~~~f~~~~~p~---~~ 106 (370)
T cd06389 32 TPHIDNLEVANSFAV-TNAFCSQFSRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPTD-GTHPFVIQMRPD---LK 106 (370)
T ss_pred eeeeEEecccchHHH-HHHHHHHhhcCcEEEEecCCHHHHHHHHHhhccCCCCeeeecCCCC-CCCceEEEecch---hh
Confidence 589999999999998 9999999999999999999999999999999999999999887633 466899999999 78
Q ss_pred HHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 84 AAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 84 ~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
+|++| +|++|||++|+|+||+|
T Consensus 107 ~ai~d------------------~i~~~~wk~vailYdsd 128 (370)
T cd06389 107 GALLS------------------LIEYYQWDKFAYLYDSD 128 (370)
T ss_pred hHHHH------------------HHHhcCCcEEEEEecCc
Confidence 88888 99999999999999965
No 6
>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=99.91 E-value=3.1e-24 Score=177.63 Aligned_cols=101 Identities=20% Similarity=0.347 Sum_probs=91.5
Q ss_pred CeeEEEecCCchHHHHHHHHHhhccCc--EEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-CCCCceEEEeecCHHH
Q psy17128 5 PSLVEVNVNTGLEEEESVMCRQLQNGV--QALFGPSDALLGPHVQSICEALDVPHMESRLDLE-LNSKEFSVNLYPSQKL 81 (124)
Q Consensus 5 ~~I~~i~~~~~f~~~~~~~C~ll~~GV--~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~~~~~f~vnl~P~~~~ 81 (124)
|++++++++|+|.+ .+++|++|++|+ +|||||+++.++.+|+++|+.++||+|+++++.. ....+|+++++|++..
T Consensus 41 ~~~~~~~~~d~~~~-~~~~C~~~~~gv~~~AIiGp~ss~~a~~V~si~~~~~IP~Is~s~~~~~~~~~p~~ir~~Ps~~~ 119 (368)
T cd06383 41 ETNAEVNRNDVKVA-LIEVCDKADSAIVPHLVLDTTTCGDASEIKSVTGALGIPTFSASYGQEGDLEQPYLIQLMPPADD 119 (368)
T ss_pred cccccccCCcHHHH-HHHHHHHHHccCCcEEEECCCcchhHHHHHHHHhccCCCEEEccCCCcCcccCceEEEEeCChHH
Confidence 56677799999998 999999999999 9999999999999999999999999999877532 2366899999999999
Q ss_pred HHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 82 LNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 82 ~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
+++|++| ||++|||++|++|||+|+
T Consensus 120 ~~~Ai~d------------------lI~~f~W~~v~iIYddd~ 144 (368)
T cd06383 120 IVEAIRD------------------IVSYYNITNAAILYDDDF 144 (368)
T ss_pred HHHHHHH------------------HHHHCCCcEEEEEEEcCc
Confidence 9999999 999999999999999874
No 7
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=99.91 E-value=3e-24 Score=177.49 Aligned_cols=98 Identities=23% Similarity=0.502 Sum_probs=89.5
Q ss_pred CCeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH
Q psy17128 4 QPSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 4 ~~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~ 83 (124)
.|+|++++.+|+|++ .+++|+||++||+|||||.++.++.+++++|++++||||+++++.. ....|.++++|+ +.
T Consensus 38 ~~~~~~~~~~dsf~~-~~~~C~~~~~gV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~~~-~~~~f~i~~~p~---~~ 112 (371)
T cd06388 38 VPHVDNIETANSFAV-TNAFCSQYSRGVFAIFGLYDKRSVHTLTSFCSALHISLITPSFPTE-GESQFVLQLRPS---LR 112 (371)
T ss_pred eeeeeecCCCChhHH-HHHHHHHHhCCceEEEecCCHHHHHHHHHHhhCCCCCeeecCcccc-CCCceEEEeChh---hh
Confidence 578999999999998 9999999999999999999999999999999999999999987633 456889999999 57
Q ss_pred HHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 84 AAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 84 ~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
.|++| ++++||||+|+|+||+++
T Consensus 113 ~a~~~------------------~i~~~~wk~vaiiYd~~~ 135 (371)
T cd06388 113 GALLS------------------LLDHYEWNRFVFLYDTDR 135 (371)
T ss_pred hHHHH------------------HHHhcCceEEEEEecCCc
Confidence 78888 999999999999998664
No 8
>cd06377 PBP1_iGluR_NMDA_NR3 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR3 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=99.90 E-value=2.4e-23 Score=175.48 Aligned_cols=102 Identities=16% Similarity=0.246 Sum_probs=89.0
Q ss_pred CCeeEEEecCCchHHHHHHHHHh-hccCcEEEEc-CCCCCcHHHHHHhhccCCCceEEe-eCCCC---CCCCceEEEeec
Q psy17128 4 QPSLVEVNVNTGLEEEESVMCRQ-LQNGVQALFG-PSDALLGPHVQSICEALDVPHMES-RLDLE---LNSKEFSVNLYP 77 (124)
Q Consensus 4 ~~~I~~i~~~~~f~~~~~~~C~l-l~~GV~AI~G-P~s~~~~~~vqsic~~~~IP~i~~-~~~~~---~~~~~f~vnl~P 77 (124)
.|+|++++..|+|++ ++++|++ +++||+|||| |++..++.+|+|+|+.++||||++ +++.. .....+++|++|
T Consensus 55 ~~~~~~~~~~dsf~~-~~~vC~~ll~~GV~AIfg~p~s~~~~~~v~sic~~l~IP~I~~~~~~~~~~~~~~~~l~L~l~P 133 (382)
T cd06377 55 EVVAAAAPSRDPASL-LRSVCQTVVVQGVSALLAFPQTRPELVQLDFVSAALEIPVVSIVRREFPRGSQNPFHLQMSWAS 133 (382)
T ss_pred EEeEEEcCCCChHHH-HHHHHHhHhhCCeEEEEecCCCHHHHHHHHHHhcCCCCCEEEecCCcccccCCCceeEEEEecC
Confidence 478999999999998 9999999 5999999999 599899999999999999999999 44322 123334667799
Q ss_pred CHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 78 SQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 78 ~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
+++.++.|+.| ||++|||++|++||++++
T Consensus 134 ~~~~l~~a~~~------------------ll~~~~W~~f~~iy~~~~ 162 (382)
T cd06377 134 PLSTLLDVLLS------------------VLQRNGWEDVSLVLCRER 162 (382)
T ss_pred CHHHHHHHHHH------------------HHHHCCCcEEEEEEecCc
Confidence 99999999999 999999999999999874
No 9
>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=99.85 E-value=1e-20 Score=158.47 Aligned_cols=101 Identities=23% Similarity=0.417 Sum_probs=87.3
Q ss_pred CCeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEe--------eCC--C--CCCCCce
Q psy17128 4 QPSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMES--------RLD--L--ELNSKEF 71 (124)
Q Consensus 4 ~~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~--------~~~--~--~~~~~~f 71 (124)
+++++.++..|+|.+ .+++|+++++||+|||||+++.++.+|+++|+.++||||++ +|+ + .....+|
T Consensus 37 ~~~~~~~d~~d~f~a-~~~~c~l~~~gv~ai~Gp~~~~~~~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~~~~~~~~y 115 (400)
T cd06391 37 TVSVTFVDGNNPFQA-VQEACELMNQGILALVSSIGCTSAGSLQSLADAMHIPHLFIQRSTAGTPRSSCGLTRSNRNDDY 115 (400)
T ss_pred eEEEEEeeCCCcHHH-HHHHHHHHhCCeEEEECCCcchHHHHHHHHhccCcCCeEEeecccccCccccCCCCCCCCcccc
Confidence 467789999999998 99999999999999999999999999999999999999985 222 1 1125579
Q ss_pred EEEeecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 72 SVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 72 ~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
.++++|+ ..+++|++| ||++|+|++|+++||+++
T Consensus 116 ~~~~rp~-~~~~~ai~~------------------li~~f~W~~v~i~~d~~~ 149 (400)
T cd06391 116 TLSVRPP-VYLNDVILR------------------VVTEYAWQKFIIFYDTDY 149 (400)
T ss_pred eEEecCh-HHHHHHHHH------------------HHHHcCCcEEEEEEeCCc
Confidence 9999997 567788888 999999999999998863
No 10
>cd06381 PBP1_iGluR_delta_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. This CD represents the N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of an orphan family of delta receptors, GluRdelta1 and GluRdelta2. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Although the delta receptors are a member of the ionotropic glutamate receptor family, they cannot be activated by AMPA, kainate, NMDA, glutamate, or any other ligands. Phylogenetic analysis shows that both GluRdelta1 and GluRalpha2 are more homologous to non-NMDA receptors. G
Probab=99.84 E-value=2.3e-20 Score=154.29 Aligned_cols=100 Identities=19% Similarity=0.390 Sum_probs=88.3
Q ss_pred CeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC------------CCCCceE
Q psy17128 5 PSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE------------LNSKEFS 72 (124)
Q Consensus 5 ~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~------------~~~~~f~ 72 (124)
+.|.+.+..|+|++ ++++|+|+++||+|||||.++.++.+++++|++++||||++.++.. +...+|.
T Consensus 38 ~~v~~dd~~d~~~a-~~~~c~Li~~gV~AI~G~~~s~~~~av~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~ 116 (363)
T cd06381 38 LSISFIDLNNHFDA-VQEACDLMNQGILALVTSTGCASAIALQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYT 116 (363)
T ss_pred eeeEeecCCChHHH-HHHHHHHHhcCcEEEEecCChhHHHHHHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeE
Confidence 47889999999998 9999999999999999999999999999999999999999765321 1245689
Q ss_pred EEeecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 73 VNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 73 vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|+. .+.+|+++ +|++|||++|+++||+++
T Consensus 117 f~~rp~~-~~~~ai~~------------------lv~~~~wkkvavly~~d~ 149 (363)
T cd06381 117 LALRPPV-RLNDVMLR------------------LVTEWRWQKFVYFYDNDY 149 (363)
T ss_pred EEEeccH-HHHHHHHH------------------HHHhCCCeEEEEEEECCc
Confidence 9999995 68889999 999999999999999874
No 11
>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=99.80 E-value=4e-19 Score=147.10 Aligned_cols=102 Identities=14% Similarity=0.145 Sum_probs=86.1
Q ss_pred CCeeEEEecCCchHHHHHHHHHhhcc-CcEE-EEcCCCCC--cHHHHHHhhccCCCceEEeeC----CCC-CCCCceEEE
Q psy17128 4 QPSLVEVNVNTGLEEEESVMCRQLQN-GVQA-LFGPSDAL--LGPHVQSICEALDVPHMESRL----DLE-LNSKEFSVN 74 (124)
Q Consensus 4 ~~~I~~i~~~~~f~~~~~~~C~ll~~-GV~A-I~GP~s~~--~~~~vqsic~~~~IP~i~~~~----~~~-~~~~~f~vn 74 (124)
+|+|++|+..|+|+. .+++|++|++ ||+| ||||+++. .+.+++.+|+.++||+|+++. ..+ ....+|+++
T Consensus 36 ~~~~~~~~~~d~~~~-~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls~~~~~p~flr 114 (362)
T cd06378 36 NVVTLLVNETDPKSI-LTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMAAKDSGSTFLQ 114 (362)
T ss_pred cceeeecCCCCHHHH-HHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEecccccccccCCCCCceEEE
Confidence 578999999999998 9999999977 5997 55999987 556776666679999999862 211 245678999
Q ss_pred eecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 75 LYPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 75 l~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
+.|+++.+++|+++ ||++|+|++|++||++++
T Consensus 115 ~~Psd~~q~~Ai~~------------------Ii~~f~W~~v~iV~~~~~ 146 (362)
T cd06378 115 FGPSIEQQAAVMLK------------------IMEEYDWHAFSVVTSRFP 146 (362)
T ss_pred eCCCHHHHHHHHHH------------------HHHHCCCeEEEEEEEcCC
Confidence 99999999999999 999999999999999863
No 12
>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=99.79 E-value=1.3e-18 Score=135.50 Aligned_cols=101 Identities=38% Similarity=0.660 Sum_probs=89.1
Q ss_pred CeeEEEecCCchHHHHHHHHHhh-ccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCC----CCCceEEEeecCH
Q psy17128 5 PSLVEVNVNTGLEEEESVMCRQL-QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLEL----NSKEFSVNLYPSQ 79 (124)
Q Consensus 5 ~~I~~i~~~~~f~~~~~~~C~ll-~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~----~~~~f~vnl~P~~ 79 (124)
+.+..++.+|++.+ .+++|+++ .+||.|||||.++..+.+++++|+.++||+|++.+.... ...++.+++.|+.
T Consensus 38 ~~~~~~~~~d~~~~-~~~~c~l~~~~~v~ai~G~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~ 116 (328)
T cd06351 38 VEVVEVNTNDPFSL-LRAVCDLLVSQGVAAIFGPTSSESASAVQSICDALEIPHISISGGSEGLSDKEESSTTLQLYPSL 116 (328)
T ss_pred EEEEEeCCCChHHH-HHHHHHHHhccCcEEEECCCCHHHHHHHHHHhccCCCCeEEeecCcccccccccccceEEecCCH
Confidence 45666666889998 99999999 789999999999999999999999999999998765432 2457899999999
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
..+.+|+++ ++++|+|++|+++|++++
T Consensus 117 ~~~~~a~~~------------------~l~~~~w~~v~iiy~~~~ 143 (328)
T cd06351 117 EDLADALLD------------------LLEYYNWTKFAIIYDSDE 143 (328)
T ss_pred HHHHHHHHH------------------HHHHcCCcEEEEEEeCch
Confidence 999999999 889999999999999874
No 13
>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=99.79 E-value=8.9e-19 Score=142.22 Aligned_cols=98 Identities=28% Similarity=0.525 Sum_probs=85.2
Q ss_pred CeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC--CCCCceEEEeecCHHHH
Q psy17128 5 PSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE--LNSKEFSVNLYPSQKLL 82 (124)
Q Consensus 5 ~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~--~~~~~f~vnl~P~~~~~ 82 (124)
+++..++..|+|++ ++++|+++++||+||+||.++.++.+++++|+..+||+|+++++.. ....+|.++++|+ +
T Consensus 38 ~~~~~~~~~d~~~~-~~~~c~ll~~~V~aiiGp~~s~~~~~~~~~~~~~~iP~i~~~~~~~~l~~~~~~~fr~~p~---~ 113 (382)
T cd06380 38 PHVDNLDTSDSFAL-TNAICSQLSRGVFAIFGSYDKSSVNTLTSYSDALHVPFITPSFPTNDLDDGNQFVLQMRPS---L 113 (382)
T ss_pred eeeeEecccchHHH-HHHHHHHHhcCcEEEEecCcHHHHHHHHHHHhcCCCCeEecCCCcccCCCCCcEEEEeccc---h
Confidence 56777888999998 9999999999999999999999999999999999999999876533 2456789999997 4
Q ss_pred HHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 83 NAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 83 ~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
..|+++ ++++||||+|+++||+++
T Consensus 114 ~~a~~~------------------~~~~~~wk~vaii~~~~~ 137 (382)
T cd06380 114 IQALVD------------------LIEHYGWRKVVYLYDSDR 137 (382)
T ss_pred hHHHHH------------------HHHhcCCeEEEEEECCCc
Confidence 567777 889999999999998764
No 14
>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=99.75 E-value=5.8e-18 Score=138.77 Aligned_cols=99 Identities=37% Similarity=0.713 Sum_probs=86.3
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-C-CCCceEEEeecCHHHHH
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-L-NSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~-~~~~f~vnl~P~~~~~~ 83 (124)
++..+...|+|.+ ++++|+++.+||+|||||.++.++.+++++|+.++||+|++.+..+ . ....|+++++|++..++
T Consensus 49 ~~~~~~~~d~~~~-~~~~~~~l~~~V~AiiGp~~S~~~~av~~i~~~~~iP~Is~~~t~~~lt~~~~~~~~~~~~~~~~~ 127 (384)
T cd06393 49 DIQRIHFHDSFEA-TKKACDQLALGVVAIFGPSQGSCTNAVQSICNALEVPHIQLRWKHHPLDNKDTFYVNLYPDYASLS 127 (384)
T ss_pred EEEecccccchhH-HHHhhcccccCcEEEECCCChHHHHHHHHHHhccCCCeEeccCCCcccCccceeEEEeccCHHHHH
Confidence 5566666788887 8999999999999999999999999999999999999999865422 2 34568899999998899
Q ss_pred HHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 84 AAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 84 ~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
+|+++ ++++|||++|+++||++
T Consensus 128 ~a~~~------------------~~~~~~wk~vaily~~~ 149 (384)
T cd06393 128 HAILD------------------LVQYLKWRSATVVYDDS 149 (384)
T ss_pred HHHHH------------------HHHHcCCcEEEEEEeCc
Confidence 99999 89999999999999975
No 15
>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=99.64 E-value=2.1e-15 Score=121.76 Aligned_cols=101 Identities=13% Similarity=0.106 Sum_probs=85.0
Q ss_pred CeeEEE-ecCCchHHHHHHHHHhhcc-CcEEEEcCCCCCc---HHHHHHhhccCCCceEEeeCCC----C-CCCCceEEE
Q psy17128 5 PSLVEV-NVNTGLEEEESVMCRQLQN-GVQALFGPSDALL---GPHVQSICEALDVPHMESRLDL----E-LNSKEFSVN 74 (124)
Q Consensus 5 ~~I~~i-~~~~~f~~~~~~~C~ll~~-GV~AI~GP~s~~~---~~~vqsic~~~~IP~i~~~~~~----~-~~~~~f~vn 74 (124)
+.++.. +..|+++. .+++|+++.+ +|.||+||.++.. +.+++++|+.++||+|++.... . ....++.++
T Consensus 37 ~~l~~~d~~~d~~~~-~~~~~~~l~~~~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~~~~~~~~~s~~~~~~~~~R 115 (362)
T cd06367 37 LEAVAVSNDTDPISL-LLSVCDLLVVQVVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGISGRESIFMSDKNIHSLFLQ 115 (362)
T ss_pred eEEEEEecCCCHHHH-HHHHHHHhcccceEEEEecCCCCccchhhhhhhhhhhhcCcEEEeeccccccccCCCcccceEe
Confidence 455666 67788887 8999999964 7889999999887 8999999999999999975432 1 134467899
Q ss_pred eecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 75 LYPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 75 l~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
+.|++..+.+|+++ ++++|||++|++||++++
T Consensus 116 ~~p~~~~~~~ai~~------------------ll~~~~w~~vaii~~~~~ 147 (362)
T cd06367 116 TGPSLEQQADVMLE------------------ILEEYDWHQFSVVTSRDP 147 (362)
T ss_pred ecCcHHHHHHHHHH------------------HHHHcCCeEEEEEEEcCc
Confidence 99999999999999 999999999999999874
No 16
>KOG1054|consensus
Probab=99.63 E-value=3.8e-16 Score=138.43 Aligned_cols=98 Identities=23% Similarity=0.505 Sum_probs=88.2
Q ss_pred CCeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH
Q psy17128 4 QPSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 4 ~~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~ 83 (124)
.|||+.++..++|.+ +.+.|+++++||.||||.-+..+.+.+.|+|+++|+|+|+++.+.+ ...+|.++|+|. +.
T Consensus 65 ~~~~d~~e~a~Sf~~-tnafCsq~s~Gv~Aifg~yd~ks~~~ltsfc~aLh~~~vtpsfp~~-~~~~Fviq~RP~---l~ 139 (897)
T KOG1054|consen 65 NPHVDNLESANSFAV-TNAFCSQFSRGVYAIFGFYDKKSVNTLTSFCGALHVSFVTPSFPTD-GDNQFVIQMRPA---LK 139 (897)
T ss_pred ccccchhhhhhhHHH-HHHHHHHHhhhHhhheecccccchhhhhhhccceeeeeecccCCcC-CCceEEEEeCch---HH
Confidence 589999999999998 9999999999999999999999999999999999999999887443 455799999999 55
Q ss_pred HHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 84 AAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 84 ~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
.|+++ +|.||+|.+|+++||.|.
T Consensus 140 ~al~s------------------~i~hy~W~~fv~lyD~~r 162 (897)
T KOG1054|consen 140 GALLS------------------LIDHYKWEKFVYLYDTDR 162 (897)
T ss_pred HHHHH------------------HHHhcccceEEEEEcccc
Confidence 55555 999999999999999863
No 17
>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=99.62 E-value=3.2e-15 Score=118.65 Aligned_cols=93 Identities=39% Similarity=0.793 Sum_probs=81.3
Q ss_pred CCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-CCCCceEEEeecCHHHHHHHHHhHHH
Q psy17128 13 NTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-LNSKEFSVNLYPSQKLLNAAFKDVIR 91 (124)
Q Consensus 13 ~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~~~~~f~vnl~P~~~~~~~Ai~d~~~ 91 (124)
++++++ .+++|+++++||.||+||.++..+..++++++..+||+|++.+... ....++.+++.|++..+.+|+++
T Consensus 47 ~~~~~a-~~~~~~li~~~V~aiiG~~~S~~~~av~~~~~~~~vP~Is~~~~~~~~~~~~~~fr~~p~~~~~~~a~~~--- 122 (327)
T cd06382 47 DDSFET-TKKVCDLLQQGVAAIFGPSSSEASSIVQSICDAKEIPHIQTRWDPEPKSNRQFTINLYPSNADLSRAYAD--- 122 (327)
T ss_pred CCcHHH-HHHhhhhhhcCcEEEECCCChhHHHHHHHHHhccCCCceeccCCcCccccccceEEeCCCHHHHHHHHHH---
Confidence 678887 9999999988999999999999999999999999999998764332 12345788999999999999999
Q ss_pred hhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 92 FLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 92 ~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
+++++||++++++|++++
T Consensus 123 ---------------~~~~~~w~~vavl~~~~~ 140 (327)
T cd06382 123 ---------------IVKSFNWKSFTIIYESAE 140 (327)
T ss_pred ---------------HHHhcCCcEEEEEecChH
Confidence 889999999999999874
No 18
>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=99.62 E-value=2.8e-15 Score=113.29 Aligned_cols=93 Identities=26% Similarity=0.440 Sum_probs=80.2
Q ss_pred CCchHHHHHHHHHhh--ccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCC----CCCceEEEeecCHHHHHHHH
Q psy17128 13 NTGLEEEESVMCRQL--QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLEL----NSKEFSVNLYPSQKLLNAAF 86 (124)
Q Consensus 13 ~~~f~~~~~~~C~ll--~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~----~~~~f~vnl~P~~~~~~~Ai 86 (124)
.+.+.. ++.+|+.+ +.|+.|||||.++..+..++++|+..+||+|++.+.... ...++++++.|+...+.+|+
T Consensus 53 ~~~~~~-~~~~~~~~~~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~~~~~~~~~~~~~p~~~~~~~a~ 131 (298)
T cd06269 53 SDAFSA-ALDLCSLLEKSRGVVAVIGPSSSSSAEAVASLLGALHIPQISYSATSPLLSDKEQFPSFLRTVPSDSSQAQAI 131 (298)
T ss_pred HHHHHH-HHHHHhcCCCCCceEEEECCCCchHHHHHHHHhccCCCcEEecccCchhhcChhhCCCeEecCCCcHHHHHHH
Confidence 344565 88899988 589999999999999999999999999999998764322 24578999999999999999
Q ss_pred HhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 87 KDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 87 ~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
++ ++++++|++|+++|++++
T Consensus 132 ~~------------------~l~~~~w~~v~~v~~~~~ 151 (298)
T cd06269 132 VD------------------LLKHFGWTWVGLVYSDDD 151 (298)
T ss_pred HH------------------HHHHCCCeEEEEEEecch
Confidence 99 999999999999999874
No 19
>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=99.59 E-value=1.3e-14 Score=114.29 Aligned_cols=93 Identities=37% Similarity=0.753 Sum_probs=79.5
Q ss_pred cCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHH
Q psy17128 12 VNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIR 91 (124)
Q Consensus 12 ~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~ 91 (124)
..+++.+ .+++|+++++||.||+||.++..+..++.+++..+||+|++.........++.+.++|+...+.+|+++
T Consensus 45 ~~~~~~a-~~~a~~li~~~V~aiiG~~~S~~~~av~~i~~~~~ip~is~~~~~~~~~~~~~~~~~~~~~~~~~a~~~--- 120 (324)
T cd06368 45 TNDSFEL-TNKACDLLSQGVAAIFGPSSSSSANTVQSICDALEIPHITTSWSPNPKPRQFTINLYPSMRDLSDALLD--- 120 (324)
T ss_pred CCChHHH-HHHHHHHHhcCcEEEECCCCHHHHHHHHHHHhccCCCcEEecCCcCCCCCcceEEecCCHHHHHHHHHH---
Confidence 4677887 899999999999999999999999999999999999999876543222235667788998888888888
Q ss_pred hhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 92 FLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 92 ~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
++++++|++++++|+++
T Consensus 121 ---------------~~~~~~w~~vaii~~~~ 137 (324)
T cd06368 121 ---------------LIKYFGWRKFVYIYDSD 137 (324)
T ss_pred ---------------HHHhcCCCEEEEEECCc
Confidence 88999999999999876
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=99.52 E-value=3e-14 Score=111.20 Aligned_cols=93 Identities=22% Similarity=0.429 Sum_probs=78.1
Q ss_pred CCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-C----CCCCceEEEeecCHHHHHHHHH
Q psy17128 13 NTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-E----LNSKEFSVNLYPSQKLLNAAFK 87 (124)
Q Consensus 13 ~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~----~~~~~f~vnl~P~~~~~~~Ai~ 87 (124)
++.+.. ....|.+.++||.||+||..+.++..++++++..+||+|++.... . ....++++++.|+...+.+|++
T Consensus 35 ~~~~~~-~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~ 113 (348)
T PF01094_consen 35 DDSFAL-QAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQISPGSTSPSLSDRKTRYPTFFRTVPSDSSQARALV 113 (348)
T ss_dssp TTHHHH-HHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEESSGGSGGGGSTTTTTTTEEESSB-HHHHHHHHH
T ss_pred CCcccc-cchhhhccCCCcEEEECCCcccccchhheeecccccceeeccccccccccchhhccccccccccHHHHHHHHH
Confidence 455665 888999999999999999999999999999999999999984322 1 1245678999999999999999
Q ss_pred hHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 88 DVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 88 d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
+ ++++|+|++|++||++++
T Consensus 114 ~------------------~l~~~~w~~v~vv~~~~~ 132 (348)
T PF01094_consen 114 D------------------LLKHFGWTRVSVVYSDDD 132 (348)
T ss_dssp H------------------HHHHTTSSEEEEEEESSH
T ss_pred H------------------hhhcCCCceeeeeccccc
Confidence 9 999999999999999873
No 21
>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=99.49 E-value=3.8e-13 Score=109.53 Aligned_cols=93 Identities=16% Similarity=0.259 Sum_probs=74.2
Q ss_pred CCchHHHHHHHHHh-hccCcEEEEc--CCCC-C--cHHHHHHhhccCCCceEEeeCCCC-C---CCCceEEEeecCHHHH
Q psy17128 13 NTGLEEEESVMCRQ-LQNGVQALFG--PSDA-L--LGPHVQSICEALDVPHMESRLDLE-L---NSKEFSVNLYPSQKLL 82 (124)
Q Consensus 13 ~~~f~~~~~~~C~l-l~~GV~AI~G--P~s~-~--~~~~vqsic~~~~IP~i~~~~~~~-~---~~~~f~vnl~P~~~~~ 82 (124)
.++++. +..+|+. +++||+||+| |.++ . .+..++++|+.++||+|++....+ . ...+|.+++.|+...+
T Consensus 63 ~~~~~~-a~~~~~~Li~~~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls~~~~~~~~~R~~psd~~~ 141 (377)
T cd06379 63 PNPIQT-ALSVCEQLISNQVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFSDKNIHLSFLRTVPPYSHQ 141 (377)
T ss_pred CChhhH-HHHHHHHHhhcceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEecccCCccccCccccccEEEecCCHHHH
Confidence 478887 8889975 5889999983 3233 2 578899999999999998764322 1 2246778888999999
Q ss_pred HHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 83 NAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 83 ~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
.+|+++ ++++|||++|+++|++++
T Consensus 142 ~~a~~~------------------~l~~~~w~~vaii~~~~~ 165 (377)
T cd06379 142 ADVWLE------------------MLRSFKWNKVILLVSDDH 165 (377)
T ss_pred HHHHHH------------------HHHHcCCeEEEEEEEcCc
Confidence 999999 889999999999999874
No 22
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=99.47 E-value=2.2e-13 Score=112.18 Aligned_cols=84 Identities=15% Similarity=0.353 Sum_probs=69.9
Q ss_pred HHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeC-CCCC-C---CCceEEEeecCHHHHHHHHHhHHHhhh
Q psy17128 20 ESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRL-DLEL-N---SKEFSVNLYPSQKLLNAAFKDVIRFLN 94 (124)
Q Consensus 20 ~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~-~~~~-~---~~~f~vnl~P~~~~~~~Ai~d~~~~~~ 94 (124)
.+.+|+ +||.|||||.++..+..++++|+..+||+|++.. .+.. . ..++.+++.|++..+++|+++
T Consensus 60 ~~~l~~---~~v~aiiGp~~s~~~~~va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~------ 130 (387)
T cd06386 60 VDRSCA---RKPDLILGPVCEYAAAPVARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSA------ 130 (387)
T ss_pred HHHHHh---hCCCEEECCCCccHHHHHHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHH------
Confidence 444453 5999999999999999999999999999998743 2222 1 234589999999999999999
Q ss_pred hHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 95 WTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 95 ~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|||++|++||++++
T Consensus 131 ------------ll~~~~W~~vaiiy~~~~ 148 (387)
T cd06386 131 ------------LFERFHWRSALLVYEDDK 148 (387)
T ss_pred ------------HHHhCCCeEEEEEEEcCC
Confidence 889999999999999764
No 23
>cd06372 PBP1_GC_G_like Ligand-binding domain of membrane guanylyl cyclase G. This group includes the ligand-binding domain of membrane guanylyl cyclase G (GC-G) which is a sperm surface receptor and might function, similar to its sea urchin counterpart, in the early signaling event that regulates the Ca2+ influx/efflux and subsequent motility response in sperm. GC-G appears to be a pseudogene in human. Furthermore, in contrast to the other orphan receptor GCs, GC-G has a broad tissue distribution in rat, including lung, intestine, kidney, and skeletal muscle.
Probab=99.46 E-value=6.3e-13 Score=108.54 Aligned_cols=91 Identities=15% Similarity=0.272 Sum_probs=76.5
Q ss_pred CchHHHHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC-CCC---CCCceEEEeecCHHHHHHHHHh
Q psy17128 14 TGLEEEESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LEL---NSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 14 ~~f~~~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~-~~~---~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
++..+ ...+|+++. .||.|||||.++..+..++++|+..+||+|++... +.. ...++.+++.|+...+.+|+++
T Consensus 52 ~~~~a-~~~~~~l~~~~~v~aiiGp~~S~~~~av~~va~~~~iP~is~~s~s~~ls~~~~~~~~~r~~p~~~~~~~a~~~ 130 (391)
T cd06372 52 SAKES-LAGFIDQVQKEHISALFGPACPEAAEVTGLLASQWNIPMFGFVGQTAKLDNRFLYDTYVKLVPPKQKIGEVLQK 130 (391)
T ss_pred CccHH-HHHHHHHHHhcCceEEECCCCCcHHHHHHHHHhccCccEEEeecCCccccccccCCceEEecCchhhHHHHHHH
Confidence 45676 889999996 59999999999999999999999999999987432 222 2235678899999888999999
Q ss_pred HHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 89 VIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 89 ~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
++++|||++|+++|+++
T Consensus 131 ------------------l~~~~~w~~vaii~~~~ 147 (391)
T cd06372 131 ------------------SLQHFGWKHIGLFGGSS 147 (391)
T ss_pred ------------------HHHHCCCeEEEEEEecc
Confidence 99999999999999653
No 24
>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=99.41 E-value=1.2e-12 Score=107.97 Aligned_cols=97 Identities=20% Similarity=0.202 Sum_probs=78.4
Q ss_pred eeEEEecCCchHHHHHHHHHhhc--cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCH
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQ--NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQ 79 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~--~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~ 79 (124)
.|+-+..+++... .+++|.++. +||.|||||.++.++.+++++|+..+||+|++.... .. ...++.+++.|+.
T Consensus 41 ~l~~~~~d~~~~~-~~a~~~~~~~~~~V~aviGp~~S~~~~a~a~va~~~~iP~Is~~a~~~~lt~~~~y~~f~r~~~~~ 119 (382)
T cd06371 41 WFDYVLLPEPCET-SRALAAFLGYEGYASAFVGPVNPGYCEAAALLAKEWDKALFSWGCVNYELDDVRSYPTFARTLPSP 119 (382)
T ss_pred eEEEEEecCCCCh-hHHHHHHHcccCCceEEECCCCchHHHHHHHHHHhcCceEEecccCchhhcCcccCCCceecCCCc
Confidence 5777788888886 788999984 699999999999999999999999999999875432 21 1234456777763
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
.+++++ ++++|+|++|++||++++
T Consensus 120 ---~~~~~~------------------~~~~~~w~~vaii~~~~~ 143 (382)
T cd06371 120 ---SRVLFT------------------VLRYFRWAHVAIVSSPQD 143 (382)
T ss_pred ---HHHHHH------------------HHHHCCCeEEEEEEeccc
Confidence 566777 899999999999999874
No 25
>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=99.41 E-value=1.1e-12 Score=110.28 Aligned_cols=80 Identities=21% Similarity=0.370 Sum_probs=68.1
Q ss_pred hccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC-CCC---CCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhH
Q psy17128 27 LQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LEL---NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNA 102 (124)
Q Consensus 27 l~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~-~~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~ 102 (124)
.+.||+||+||.++..+..++++|+.++||+|++... +.. ...++.+++.|++..+.+|+++
T Consensus 100 ~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls~~~~~~~ffR~~p~d~~~~~ai~~-------------- 165 (463)
T cd06376 100 KPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELSDDRRYDFFSRVVPPDSFQAQAMVD-------------- 165 (463)
T ss_pred CCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhcccccCCceEEccCCHHHHHHHHHH--------------
Confidence 4569999999999999999999999999999997432 222 2246689999999999999999
Q ss_pred HHHHHHhhcCceEEEEEeecCC
Q psy17128 103 AFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 103 a~~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|||++|++||++++
T Consensus 166 ----~i~~~~w~~Vaii~~~~~ 183 (463)
T cd06376 166 ----IVKALGWNYVSTLASEGN 183 (463)
T ss_pred ----HHHHcCCeEEEEEEeCCh
Confidence 889999999999998763
No 26
>cd06370 PBP1_Speract_GC_like Ligand-binding domain of membrane bound guanylyl cyclases. Ligand-binding domain of membrane bound guanylyl cyclases (GCs), which are known to be activated by sperm-activating peptides (SAPs), such as speract or resact. These ligand peptides are released by a range of invertebrates to stimulate the metabolism and motility of spermatozoa and are also potent chemoattractants. These GCs contain a single transmembrane segment, an extracellular ligand binding domain, and intracellular protein kinase-like and cyclase catalytic domains. GCs of insect and nematodes, which exhibit high sequence similarity to the speract receptor are also included in this model.
Probab=99.41 E-value=2.4e-12 Score=106.29 Aligned_cols=91 Identities=19% Similarity=0.340 Sum_probs=74.3
Q ss_pred CCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-C---CCCceEEEeecCHHHHHHHHHh
Q psy17128 13 NTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-L---NSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 13 ~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~---~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
.+++++ .+++|+++++||.|||||.++. ..+..+++..+||+|++....+ . ...++.+++.|+...+.+|+++
T Consensus 53 ~~~~~a-~~~~~~li~~~v~aiiGp~~S~--~~~a~i~~~~~iP~Is~~a~~~~l~~~~~~~~f~r~~~~~~~~~~a~~~ 129 (404)
T cd06370 53 GDEVLS-IRAVSDWWKRGVVAFIGPECTC--TTEARLAAAWNLPMISYKCDEEPVSDKSKYPTFARTVPPSIQVVKSVIA 129 (404)
T ss_pred CChHHH-HHHHHHHHhcCceEEECCCchh--HHHHHHHhhcCCcEEecccCCccccccccCCCeEEcCCCHHHHHHHHHH
Confidence 456776 8999999999999999999863 3466899999999998765422 1 2234567899999888899998
Q ss_pred HHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 89 VIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 89 ~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|+|++++++|++++
T Consensus 130 ------------------~~~~~~w~~vaii~~~~~ 147 (404)
T cd06370 130 ------------------LLKHFNWNKFSVVYENDS 147 (404)
T ss_pred ------------------HHHHCCCcEEEEEEecCc
Confidence 899999999999999874
No 27
>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=99.38 E-value=3.2e-12 Score=104.56 Aligned_cols=91 Identities=18% Similarity=0.260 Sum_probs=73.6
Q ss_pred hHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCHHHHHHHHHhHHH
Q psy17128 16 LEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQKLLNAAFKDVIR 91 (124)
Q Consensus 16 f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~~~~~~Ai~d~~~ 91 (124)
-.+...+.|.+.+.||.||+||.++..+..++.+|+..+||+|++.... .. ...+|.+++.|+...+++|+++
T Consensus 59 ~~a~~~a~~~~~~~~v~aiiGp~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~~~~~~~~fr~~p~~~~~~~a~~~--- 135 (396)
T cd06373 59 SEAPLVAVDLYFQHKPDAFLGPGCEYAAAPVARFAAHWNVPVLTAGAPAAGFSDKSEYSTLTRTGPSYTKLGEFVLA--- 135 (396)
T ss_pred hhhHHHHHHHHhccCCeEEECCCccchhHHHHHHHhcCCCceECccCCccccccchhcCceeeccccHHHHHHHHHH---
Confidence 3442444555557899999999999999999999999999999875432 22 2335589999999999999999
Q ss_pred hhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 92 FLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 92 ~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
++++++|++++++|++++
T Consensus 136 ---------------~~~~~~w~~vaii~~~~~ 153 (396)
T cd06373 136 ---------------LHEHFNWSRAALLYHDDK 153 (396)
T ss_pred ---------------HHHHcCCeEEEEEEECCC
Confidence 889999999999999864
No 28
>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=99.36 E-value=1.6e-12 Score=109.77 Aligned_cols=83 Identities=22% Similarity=0.413 Sum_probs=70.4
Q ss_pred HHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCHHHHHHHHHhHHHhhhhHHHH
Q psy17128 24 CRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKL 99 (124)
Q Consensus 24 C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~ 99 (124)
|.+.+.||.||+||.++..+..++++++..+||+|++.... .. ...++.+++.|++..+.+|+++
T Consensus 111 ~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls~~~~~p~~fRt~p~d~~~~~al~~----------- 179 (472)
T cd06374 111 PNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLSDKTLFKYFLRVVPSDTLQARAMLD----------- 179 (472)
T ss_pred cccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhcccccCCceEEcCCChHHHHHHHHH-----------
Confidence 33345699999999999999999999999999999875432 11 2346789999999999999999
Q ss_pred hhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 100 LNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 100 l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|+|++|++||++++
T Consensus 180 -------l~~~~~W~~Vaii~~~~~ 197 (472)
T cd06374 180 -------IVKRYNWTYVSAVHTEGN 197 (472)
T ss_pred -------HHHHCCCcEEEEEEecch
Confidence 889999999999999874
No 29
>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=99.35 E-value=3.9e-12 Score=107.96 Aligned_cols=78 Identities=15% Similarity=0.209 Sum_probs=67.9
Q ss_pred cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC-CCC---CCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhHHH
Q psy17128 29 NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LEL---NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAF 104 (124)
Q Consensus 29 ~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~-~~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~ 104 (124)
.+++||+||.++..+..++++++.++||+|++... +.. ...+|.+++.|++..+.+|+++
T Consensus 102 ~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~lsd~~~yp~ffRt~psd~~q~~ai~~---------------- 165 (469)
T cd06365 102 RKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLSDRVQFPSLYQMAPKDTSLPLGMVS---------------- 165 (469)
T ss_pred CceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCccccchhhCCcceEecCCchhHHHHHHH----------------
Confidence 57999999999999999999999999999998653 222 2336789999999999999999
Q ss_pred HHHHhhcCceEEEEEeecCC
Q psy17128 105 KDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 105 ~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|||++|++||++++
T Consensus 166 --li~~f~W~~Vaiv~~d~~ 183 (469)
T cd06365 166 --LMLHFSWTWVGLVISDDD 183 (469)
T ss_pred --HHHhcCCeEEEEEEecCh
Confidence 899999999999999874
No 30
>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=99.34 E-value=5.7e-12 Score=106.81 Aligned_cols=80 Identities=19% Similarity=0.362 Sum_probs=69.3
Q ss_pred hccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhH
Q psy17128 27 LQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNA 102 (124)
Q Consensus 27 l~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~ 102 (124)
.+.+|+||+||.++..+..++++++..+||+|++.... .. ...++.+++.|++..+.+|+++
T Consensus 102 ~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls~~~~~~~ffRt~psd~~qa~ai~~-------------- 167 (458)
T cd06375 102 SPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLSDKSRYDYFARTVPPDFYQAKAMAE-------------- 167 (458)
T ss_pred CCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhcccccCCCeEEecCCcHHHHHHHHH--------------
Confidence 55699999999999999999999999999999885432 22 2346789999999999999999
Q ss_pred HHHHHHhhcCceEEEEEeecCC
Q psy17128 103 AFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 103 a~~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|||++|++||++++
T Consensus 168 ----ll~~~~W~~Vaii~~~~~ 185 (458)
T cd06375 168 ----ILRFFNWTYVSTVASEGD 185 (458)
T ss_pred ----HHHHCCCeEEEEEEeCch
Confidence 899999999999999864
No 31
>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=99.32 E-value=1.3e-11 Score=98.57 Aligned_cols=99 Identities=23% Similarity=0.371 Sum_probs=81.0
Q ss_pred eEEEecCCc---hHHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecC
Q psy17128 7 LVEVNVNTG---LEEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPS 78 (124)
Q Consensus 7 I~~i~~~~~---f~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~ 78 (124)
|+-+..++. ..+ .+.+|+++.+ ||.|||||.++..+..+..+++..+||+|++.... .. ...++.+++.|+
T Consensus 40 i~~~~~D~~~~~~~a-~~~a~~l~~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~~r~~p~ 118 (350)
T cd06366 40 LVLHVRDSKCDPVQA-ASAALDLLENKPVVAIIGPQCSSVAEFVAEVANEWNVPVLSFAATSPSLSSRLQYPYFFRTTPS 118 (350)
T ss_pred EEEEecCCCCCHHHH-HHHHHHHhccCCceEEECCCcHHHHHHHHHHhhcCCeeEEeccCCCccccccccCCceEEcccc
Confidence 444444443 444 7889999986 99999999999999999999999999999875432 11 234678999999
Q ss_pred HHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 79 QKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 79 ~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
...+.+++++ ++++++|++++++|++++
T Consensus 119 ~~~~~~a~~~------------------~~~~~~~~~v~ii~~~~~ 146 (350)
T cd06366 119 DSSQNPAIAA------------------LLKKFGWRRVATIYEDDD 146 (350)
T ss_pred hHhHHHHHHH------------------HHHHCCCcEEEEEEEcCc
Confidence 9999999999 889999999999999864
No 32
>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=99.29 E-value=3.4e-11 Score=95.54 Aligned_cols=89 Identities=19% Similarity=0.270 Sum_probs=76.0
Q ss_pred HHHHHHHHhhcc--------------CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCH
Q psy17128 18 EEESVMCRQLQN--------------GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQ 79 (124)
Q Consensus 18 ~~~~~~C~ll~~--------------GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~ 79 (124)
.+.+++++++.+ ||.||+||.++..+..++.+++..+||+|++.... .. ...++.+++.|++
T Consensus 65 ~a~~~a~~li~~~~~~~~~~~~~~~~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls~~~~~~~~fr~~p~~ 144 (348)
T cd06350 65 VALRAALDLLLSGEGTTPPYSCRKQPKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLSDKLQFPSFFRTVPSD 144 (348)
T ss_pred HHHHHHHHHHhcCCCCCCCCcCCCCCceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhccccccCCeeEecCCc
Confidence 348889999975 99999999999999999999999999999875432 21 2346789999999
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
..+.+|+++ +++++||++++++|++++
T Consensus 145 ~~~~~a~~~------------------~~~~~~~~~v~~l~~~~~ 171 (348)
T cd06350 145 TSQALAIVA------------------LLKHFGWTWVGLVYSDDD 171 (348)
T ss_pred HHHHHHHHH------------------HHHHCCCeEEEEEEecch
Confidence 999999999 889999999999999763
No 33
>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=99.26 E-value=1.6e-11 Score=102.13 Aligned_cols=79 Identities=22% Similarity=0.381 Sum_probs=67.8
Q ss_pred ccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhHH
Q psy17128 28 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAA 103 (124)
Q Consensus 28 ~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a 103 (124)
+.||.||+||.++..+..++.+++..+||+|++.... .. ...++.+++.|++..+.+|+++
T Consensus 101 ~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls~~~~~~~~fR~~p~d~~~~~a~~~--------------- 165 (452)
T cd06362 101 PKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELSDKTRYDYFSRTVPPDSFQAQAMVD--------------- 165 (452)
T ss_pred CCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhccccccCCEEEecCChHHHHHHHHH---------------
Confidence 3699999999999999999999999999999874322 11 2346788999999999999999
Q ss_pred HHHHHhhcCceEEEEEeecCC
Q psy17128 104 FKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 104 ~~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|+|+++++||++++
T Consensus 166 ---~l~~~~w~~vaii~~~~~ 183 (452)
T cd06362 166 ---IVKAFNWTYVSTVASEGN 183 (452)
T ss_pred ---HHHHCCCcEEEEEEeCCH
Confidence 889999999999999874
No 34
>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=99.25 E-value=6.7e-11 Score=98.86 Aligned_cols=78 Identities=17% Similarity=0.216 Sum_probs=67.9
Q ss_pred cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhHHH
Q psy17128 29 NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAF 104 (124)
Q Consensus 29 ~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~ 104 (124)
.+|+||+||.++..+..++.+++..+||.|++.... .. .+.+|.+++.|++..+.+|+++
T Consensus 102 ~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls~~~~~~~ffRt~p~D~~qa~ai~~---------------- 165 (403)
T cd06361 102 PRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILSDKIRFPSFLRTVPSDFYQTKAMAH---------------- 165 (403)
T ss_pred CCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccCCcccCCCeeECCCchHhHHHHHHH----------------
Confidence 389999999999999999999999999999975432 22 2336789999999999999999
Q ss_pred HHHHhhcCceEEEEEeecCC
Q psy17128 105 KDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 105 ~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|||+++++||++++
T Consensus 166 --li~~~~w~~Vaii~~~d~ 183 (403)
T cd06361 166 --LIKKSGWNWVGIIITDDD 183 (403)
T ss_pred --HHHHcCCcEEEEEEecCc
Confidence 999999999999999874
No 35
>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=99.23 E-value=3.9e-11 Score=98.61 Aligned_cols=79 Identities=16% Similarity=0.300 Sum_probs=66.6
Q ss_pred hccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhH
Q psy17128 27 LQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNA 102 (124)
Q Consensus 27 l~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~ 102 (124)
+.+||.|||||.++.++..++++|+..+||+|++.... .. ...+|.+++.|++..+++|+++
T Consensus 71 ~~~~v~aiiGp~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~~~~~~~~~~R~~p~~~~~~~a~~~-------------- 136 (405)
T cd06385 71 FTHNPWAFIGPGCDYTASPVARFTTHWDVPLVTAGAPALGFGVKDEYATITRTGPTHKKLGEFVLH-------------- 136 (405)
T ss_pred HhcCCcEEECCCccchHHHHHHHHhccCCcEEccccChhhcCCcccCcceEEecCchHHHHHHHHH--------------
Confidence 45799999999999999999999999999999875532 22 2345788999999999999999
Q ss_pred HHHHHHhhcCceEEE-EEeecC
Q psy17128 103 AFKDVIRFLNWTKVA-IVYEED 123 (124)
Q Consensus 103 a~~~li~~~~W~~v~-ivYe~d 123 (124)
++++|+|++++ ++|+++
T Consensus 137 ----~~~~~~w~~va~ii~~~~ 154 (405)
T cd06385 137 ----IHQHFGWRSHAMLIYSDN 154 (405)
T ss_pred ----HHHhCCCeEEEEEEEecC
Confidence 89999999988 577654
No 36
>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=99.22 E-value=2.8e-11 Score=100.08 Aligned_cols=79 Identities=23% Similarity=0.300 Sum_probs=67.6
Q ss_pred ccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-C---CCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhHH
Q psy17128 28 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-L---NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAA 103 (124)
Q Consensus 28 ~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a 103 (124)
+.||.||+||.++..+..++.+|+..+||+|++..... . ...++.+++.|++..+..|+++
T Consensus 105 ~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt~~~~~~~~fr~~~~~~~~~~al~~--------------- 169 (410)
T cd06363 105 QPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLSNKELYPSFLRTVPSDKDQIEAMVQ--------------- 169 (410)
T ss_pred CCCeEEEECCCccHHHHHHHHHhcccccccccccccCccccccccCCCeeEecCCcHHHHHHHHH---------------
Confidence 46999999999999999999999999999998765321 1 2335688999999999999999
Q ss_pred HHHHHhhcCceEEEEEeecCC
Q psy17128 104 FKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 104 ~~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|+||+++++|++++
T Consensus 170 ---~l~~~~~k~vaii~~~~~ 187 (410)
T cd06363 170 ---LLQEFGWNWVAFLGSDDE 187 (410)
T ss_pred ---HHHHCCCcEEEEEEeCCh
Confidence 888999999999998763
No 37
>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=99.19 E-value=2.3e-10 Score=92.71 Aligned_cols=101 Identities=18% Similarity=0.274 Sum_probs=79.3
Q ss_pred eeEEEecCCchH--HHHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-C---CCCceEEEeecC
Q psy17128 6 SLVEVNVNTGLE--EEESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-L---NSKEFSVNLYPS 78 (124)
Q Consensus 6 ~I~~i~~~~~f~--~~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~---~~~~f~vnl~P~ 78 (124)
.|+-+..++... .+.+.+.+++. .||.||+||.++..+..++.+++..+||+|++....+ . ...++.+++.|+
T Consensus 41 ~l~~~~~D~~~~~~~a~~~a~~l~~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~Is~~~~~~~~~~~~~~~~~fr~~~~ 120 (389)
T cd06352 41 DFTFVYLDTECSESVALLAAVDLYWEHNVDAFIGPGCPYACAPVARLAAHWNIPMISWGCVALSLSDKSEYPTLTRTLPP 120 (389)
T ss_pred eEEEEEecCCCchhhhHHHHHHHHhhcCCcEEECCCChhHHHHHHHHHhcCCCCEecccccccccCccccCCceeecCCc
Confidence 355555555542 23566677775 6999999999999999999999999999998654321 1 244678999999
Q ss_pred HHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 79 QKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 79 ~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
...+..|+++ +++++||++++++|+++.
T Consensus 121 ~~~~~~a~~~------------------~l~~~~~~~v~ii~~~~~ 148 (389)
T cd06352 121 ARKLGEAVLA------------------LLRWFNWHVAVVVYSDDS 148 (389)
T ss_pred HHHHHHHHHH------------------HHHHcCceEEEEEEecCC
Confidence 9989999999 888999999999998763
No 38
>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=99.13 E-value=1.4e-10 Score=99.90 Aligned_cols=78 Identities=17% Similarity=0.309 Sum_probs=66.3
Q ss_pred cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhHHH
Q psy17128 29 NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAF 104 (124)
Q Consensus 29 ~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~ 104 (124)
.+|+||+||.++..+..++.+++.++||.|++.... .. ...++.+++.|++..+.+|+++
T Consensus 117 ~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls~~~~yp~ffRt~psd~~q~~Ai~~---------------- 180 (510)
T cd06364 117 PSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLSNKNQFKSFLRTIPNDEHQATAMAD---------------- 180 (510)
T ss_pred CceEEEECCCchhHHHHHHHHhccccccccccccCCcccCCccccCCeeEcCCChHHHHHHHHH----------------
Confidence 357899999999999999999999999999875532 21 2335588999999999999999
Q ss_pred HHHHhhcCceEEEEEeecCC
Q psy17128 105 KDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 105 ~~li~~~~W~~v~ivYe~d~ 124 (124)
++++|||++|++||++++
T Consensus 181 --l~~~f~wk~VaiI~~dd~ 198 (510)
T cd06364 181 --IIEYFRWNWVGTIAADDD 198 (510)
T ss_pred --HHHHcCCeEEEEEEecCc
Confidence 899999999999998874
No 39
>cd06342 PBP1_ABC_LIVBP_like Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup includes the type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine). This subgroup also includes a leucine-specific binding protein (or LivK), which is very similar in sequence and structure to leucine-isoleucine-valine binding protein (LIVBP). ABC-type active transport systems are transmembrane proteins that function in the transport of diverse sets of substrates across extra- and intracellular membranes, including carbohydrates, amino acids, inorganic ions, dipeptides and oligopeptides, metabolic products, lipids and sterols, and heme, to name a few.
Probab=99.12 E-value=6e-10 Score=87.59 Aligned_cols=101 Identities=14% Similarity=0.120 Sum_probs=76.4
Q ss_pred eEEEecCCchHH--HHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-C--CCCceEEEeecCHHH
Q psy17128 7 LVEVNVNTGLEE--EESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-L--NSKEFSVNLYPSQKL 81 (124)
Q Consensus 7 I~~i~~~~~f~~--~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~--~~~~f~vnl~P~~~~ 81 (124)
|+-+..++.... +.+.+.+++++||.||+||.++..+..++.+++..+||+|.+....+ . ...++.+++.|++..
T Consensus 41 i~~~~~D~~~~~~~~~~~~~~li~~~v~aiiG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 120 (334)
T cd06342 41 LELVVEDDQADPKQAVAVAQKLVDDGVVGVVGHLNSGVTIPASPIYADAGIVMISPAATNPKLTERGYKNVFRVVARDDQ 120 (334)
T ss_pred EEEEEecCCCChHHHHHHHHHHHhCCceEEECCCccHhHHHhHHHHHhCCCeEEecCCCCchhhcCCCceEEeccCCcHH
Confidence 444444444322 24556677777999999999999999999999999999998764321 1 233578899999998
Q ss_pred HHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 82 LNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 82 ~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
+.++++++ +.+.++|++++++|++++
T Consensus 121 ~~~~~~~~-----------------~~~~~~~~~v~~v~~~~~ 146 (334)
T cd06342 121 QGPAAAKY-----------------AVETLKAKKVAIIDDKTA 146 (334)
T ss_pred HHHHHHHH-----------------HHHhcCCCEEEEEeCCcc
Confidence 99999983 346889999999998863
No 40
>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=99.10 E-value=3.5e-10 Score=93.12 Aligned_cols=79 Identities=22% Similarity=0.383 Sum_probs=65.5
Q ss_pred hccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC-CC-Cce--EEEeecCHHHHHHHHHhHHHhhhhHHHHhh
Q psy17128 27 LQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL-NS-KEF--SVNLYPSQKLLNAAFKDVIRFLNWTKKLLN 101 (124)
Q Consensus 27 l~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~-~~-~~f--~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~ 101 (124)
+.+++.|||||.++.++..++++|+..+||+|++.... .. .. ..| .+++.|++..+..++.+
T Consensus 70 ~~~~v~aviGp~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~------------- 136 (399)
T cd06384 70 LYSDPDVFFGPGCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNH------------- 136 (399)
T ss_pred hhcCCCEEECCCCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHH-------------
Confidence 45789999999999999999999999999999986542 11 11 244 89999999988888777
Q ss_pred HHHHHHHhhcCce-EEEEEeecC
Q psy17128 102 AAFKDVIRFLNWT-KVAIVYEED 123 (124)
Q Consensus 102 ~a~~~li~~~~W~-~v~ivYe~d 123 (124)
++++|+|+ +++++|+++
T Consensus 137 -----i~~~~~w~~~vaiiy~~~ 154 (399)
T cd06384 137 -----LHEHFNWTSRAALLYLDL 154 (399)
T ss_pred -----HHHhCCCcEEEEEEEecC
Confidence 89999999 788999753
No 41
>cd06345 PBP1_ABC_ligand_binding_like_10 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=99.06 E-value=2.2e-09 Score=85.81 Aligned_cols=100 Identities=17% Similarity=0.203 Sum_probs=77.2
Q ss_pred eEEEecCCc--hHHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeC-CCC------CCCCceEEEee
Q psy17128 7 LVEVNVNTG--LEEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRL-DLE------LNSKEFSVNLY 76 (124)
Q Consensus 7 I~~i~~~~~--f~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~-~~~------~~~~~f~vnl~ 76 (124)
|+-+..++. -..+.+.+++++.+ ||.||+||.++..+..+..+++..+||.|++.. .+. ....++.+++.
T Consensus 41 v~l~~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~ 120 (344)
T cd06345 41 VELVFEDTEGSPEDAVRAFERLVSQDKVDAVVGGYSSEVVLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAG 120 (344)
T ss_pred EEEEEecCCCCHHHHHHHHHHHhccCCceEEECCcchHHHHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecC
Confidence 444444444 44457788999976 999999999999999999999999999998642 221 12356789999
Q ss_pred cCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhh-----cCceEEEEEeecCC
Q psy17128 77 PSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRF-----LNWTKVAIVYEEDN 124 (124)
Q Consensus 77 P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~-----~~W~~v~ivYe~d~ 124 (124)
|++..+..++++ ++++ ++|++++++|++++
T Consensus 121 ~~~~~~~~~~~~------------------~~~~~~~~~~~~~~va~l~~~~~ 155 (344)
T cd06345 121 PTNSSYAQSVAD------------------ALKETLVDKHGFKTAAIVAEDAA 155 (344)
T ss_pred CCcHHHHHHHHH------------------HHHHhhcccCCCceEEEEecCch
Confidence 998888888888 5554 89999999999863
No 42
>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=99.04 E-value=3.1e-09 Score=83.33 Aligned_cols=99 Identities=16% Similarity=0.224 Sum_probs=74.9
Q ss_pred eEEEecCCc---hHHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-C-CCCceEEEeecCHH
Q psy17128 7 LVEVNVNTG---LEEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-L-NSKEFSVNLYPSQK 80 (124)
Q Consensus 7 I~~i~~~~~---f~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~-~~~~f~vnl~P~~~ 80 (124)
|+.+..++. ... .+.+++++++ ||.||+||.++..+..+..+++..+||+|++..... . ....+.+++.|++.
T Consensus 41 l~~~~~D~~~~~~~~-~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~i~~~~~~~~~~~~~~~~fr~~~~~~ 119 (334)
T cd06347 41 IELVVEDNKSDKEEA-ANAATRLIDQDKVVAIIGPVTSGATLAAGPIAEDAKVPMITPSATNPKVTQGKDYVFRVCFIDP 119 (334)
T ss_pred EEEEEecCCCChHHH-HHHHHHHhcccCeEEEEcCCccHhHHHhHHHHHHCCCeEEcCCCCCCCcccCCCeEEEeeCCcH
Confidence 444444443 444 6778999987 999999999988899999999999999998754322 1 22336777888777
Q ss_pred HHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 81 LLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 81 ~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.+..+++++ +.+.++|+++++||+++
T Consensus 120 ~~~~~~~~~-----------------~~~~~~~~~v~ii~~~~ 145 (334)
T cd06347 120 FQGTVMAKF-----------------ATENLKAKKAAVLYDNS 145 (334)
T ss_pred HHHHHHHHH-----------------HHHhcCCcEEEEEEeCC
Confidence 778888883 34778999999999874
No 43
>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=99.03 E-value=4.6e-09 Score=79.10 Aligned_cols=89 Identities=29% Similarity=0.434 Sum_probs=73.5
Q ss_pred HHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCC----CCCceEEEeecCHHHHHHHHHhHHH
Q psy17128 17 EEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLEL----NSKEFSVNLYPSQKLLNAAFKDVIR 91 (124)
Q Consensus 17 ~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~----~~~~f~vnl~P~~~~~~~Ai~d~~~ 91 (124)
....+.+.+++++ ||.+|+||.+......+..+++..+||+|.+...... ...++.+++.|+...+.+++++
T Consensus 53 ~~~~~~~~~l~~~~~v~~iig~~~~~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--- 129 (299)
T cd04509 53 ARALAAARRLCQQEGVDALVGPVSSGVALAVAPVAEALKIPLISPGATAPGLTDKKGYPYLFRTGPSDEQQAEALAD--- 129 (299)
T ss_pred HHHHHHHHHHhcccCceEEEcCCCcHHHHHHHHHHhhCCceEEeccCCCcccccccCCCCEEEecCCcHHHHHHHHH---
Confidence 3336677888887 9999999999888888999999999999998653321 1245789999999888888888
Q ss_pred hhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 92 FLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 92 ~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
+++.++|++++++|+++
T Consensus 130 ---------------~l~~~~~~~v~iv~~~~ 146 (299)
T cd04509 130 ---------------YIKEYNWKKVAILYDDD 146 (299)
T ss_pred ---------------HHHHcCCcEEEEEecCc
Confidence 88899999999999876
No 44
>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=99.02 E-value=2.9e-09 Score=84.77 Aligned_cols=100 Identities=9% Similarity=-0.089 Sum_probs=75.8
Q ss_pred eeEEEecCCc--hHHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHH
Q psy17128 6 SLVEVNVNTG--LEEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLL 82 (124)
Q Consensus 6 ~I~~i~~~~~--f~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~ 82 (124)
.|+-+..++. -..+.+.+++|+.+ ||.||+||.++..+..+..++++.+||+|.+.........++.+++.|+....
T Consensus 40 ~i~l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~f~~~~~~~~~ 119 (333)
T cd06331 40 PLELVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSASRKAVLPVVERGRGLLFYPTQYEGGECSPNVFYTGATPNQQ 119 (333)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHHHHHHHHHHHhcCceEEeCCCCCCCcCCCCeEEccCChHHh
Confidence 3555555554 33446778999987 99999999999999999999999999999865422222345678889998887
Q ss_pred HHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 83 NAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 83 ~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
..++++ .+...+|+++++||+++
T Consensus 120 ~~~~~~------------------~~~~~~~~~v~il~~d~ 142 (333)
T cd06331 120 LLPLIP------------------YLMEKYGKRFYLIGSDY 142 (333)
T ss_pred HHHHHH------------------HHHHhcCCeEEEECCCc
Confidence 888877 44444499999999875
No 45
>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=99.02 E-value=2.7e-09 Score=85.11 Aligned_cols=87 Identities=16% Similarity=0.243 Sum_probs=67.3
Q ss_pred HHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC--CCCCceEEEeecCHH-HHHHHHHhHHHhhh
Q psy17128 19 EESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE--LNSKEFSVNLYPSQK-LLNAAFKDVIRFLN 94 (124)
Q Consensus 19 ~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~--~~~~~f~vnl~P~~~-~~~~Ai~d~~~~~~ 94 (124)
+.+++++++.+ ||.+|+||.++..+..+..++++.+||+|++..... ....+|.+++.|+.. ....++..
T Consensus 55 a~~~~~~li~~~~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~fr~~~~~~~~~~~~~~~------ 128 (344)
T cd06348 55 AINAFQTLINKDRVLAIIGPTLSQQAFAADPIAERAGVPVVGPSNTAKGIPEIGPYVFRVSAPEAVVAPAAIAA------ 128 (344)
T ss_pred HHHHHHHHhhhcCceEEECCCCcHHHHhhhHHHHhCCCCEEeccCCCCCcCCCCCeEEEccCcHHHHHHHHHHH------
Confidence 37788999976 999999999988888899999999999998754322 133457777765544 34455555
Q ss_pred hHHHHhhHHHHHHHhhc-CceEEEEEeecC
Q psy17128 95 WTKKLLNAAFKDVIRFL-NWTKVAIVYEED 123 (124)
Q Consensus 95 ~~~~~l~~a~~~li~~~-~W~~v~ivYe~d 123 (124)
+++.+ |||+++++|+++
T Consensus 129 ------------~~~~~~~~~~v~~l~~~~ 146 (344)
T cd06348 129 ------------ALKLNPGIKRVAVFYAQD 146 (344)
T ss_pred ------------HHHHhcCCeEEEEEEeCC
Confidence 77888 999999999764
No 46
>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=99.01 E-value=4e-09 Score=83.79 Aligned_cols=100 Identities=17% Similarity=0.250 Sum_probs=78.9
Q ss_pred eeEEEecCCchH--HHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC---CCCCceEEEeecCH
Q psy17128 6 SLVEVNVNTGLE--EEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE---LNSKEFSVNLYPSQ 79 (124)
Q Consensus 6 ~I~~i~~~~~f~--~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~---~~~~~f~vnl~P~~ 79 (124)
.|+-+..++... .+.+.+.+++++ ||.||+||.++..+..+..++++.+||+|++..... ....++.+++.|+.
T Consensus 44 ~i~l~~~D~~~~~~~a~~~~~~li~~~~v~aviG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~f~~~~~~ 123 (345)
T cd06338 44 PVELIYYDDQSNPARAARAYERLITQDKVDFLLGPYSSGLTLAAAPVAEKYGVPMVAGSGASDSIFAQGFKYVFGTLPPA 123 (345)
T ss_pred eEEEEEecCCCCHHHHHHHHHHHHhhcCccEEecCCcchhHHHHHHHHHHhCCcEEecCCCCchHhhcCCceEEEecCch
Confidence 355555555543 335667888875 999999999999999999999999999998754321 13446789999999
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcC--ceEEEEEeecC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLN--WTKVAIVYEED 123 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~--W~~v~ivYe~d 123 (124)
..+..++++ +++.++ |++++++|+++
T Consensus 124 ~~~~~~~~~------------------~~~~~~~~~~~v~~v~~~~ 151 (345)
T cd06338 124 SQYAKSLLE------------------MLVALDPRPKKVAILYADD 151 (345)
T ss_pred HHHHHHHHH------------------HHHhcCCCCceEEEEecCC
Confidence 999999999 778777 99999999886
No 47
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=98.98 E-value=4.3e-09 Score=84.74 Aligned_cols=98 Identities=18% Similarity=0.206 Sum_probs=76.7
Q ss_pred eEEEecCCc---hHHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC-CC--CCCCceEEEeecCH
Q psy17128 7 LVEVNVNTG---LEEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LE--LNSKEFSVNLYPSQ 79 (124)
Q Consensus 7 I~~i~~~~~---f~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~-~~--~~~~~f~vnl~P~~ 79 (124)
|+-+..++. ..+ .+.+++++++ +|.||+||.++..+..+..++++.+||+|.+... +. ....++.+++.|+.
T Consensus 44 v~lv~~D~~~~~~~a-~~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~fr~~p~~ 122 (347)
T cd06340 44 LELVFGDSQGNPDIG-ATEAERLITEEGVVALVGAYQSAVTLAASQVAERYGVPFVVDGAVSDSITERGFKYTFRITPHD 122 (347)
T ss_pred EEEEEecCCCCHHHH-HHHHHHHhccCCceEEecccchHhHHHHHHHHHHhCCCEEeccccchHHhhcCCceEEecCCCh
Confidence 444444443 444 7789999987 9999999999999999999999999999987542 11 12346789999999
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhc------CceEEEEEeecC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFL------NWTKVAIVYEED 123 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~------~W~~v~ivYe~d 123 (124)
..+..++++ +++.+ +|++++++|+++
T Consensus 123 ~~~~~~~~~------------------~l~~~~~~~~~~~~~v~~l~~~~ 154 (347)
T cd06340 123 GMFTRDMFD------------------FLKDLNEKTGKPLKTVALVHEDT 154 (347)
T ss_pred HHHHHHHHH------------------HHHHhhHhcCCCCceEEEEecCc
Confidence 999999999 66655 569999999876
No 48
>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=98.95 E-value=9.3e-09 Score=82.00 Aligned_cols=99 Identities=19% Similarity=0.202 Sum_probs=75.1
Q ss_pred eEEEecCCc--hHHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC-CCCceEEEeecCHHH
Q psy17128 7 LVEVNVNTG--LEEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL-NSKEFSVNLYPSQKL 81 (124)
Q Consensus 7 I~~i~~~~~--f~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~-~~~~f~vnl~P~~~~ 81 (124)
|+-+..++. -..+.+.+=+++++ ||.||+||.++..+..+..++++.+||+|++.... .. ...+|.+++.|++..
T Consensus 40 ielv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~a~~~~lt~~~~~~fr~~~~~~~ 119 (332)
T cd06344 40 LKVVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDATLAALDIYQKAKLVLISPTSTSVKLSNPGPYFFRTVPSNAV 119 (332)
T ss_pred EEEEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHHHHHHHHHhhcCceEEccCcCchhhcCCCCcEEEeCCCcHH
Confidence 555555554 45423344445555 99999999998888888999999999999875322 21 345688999999999
Q ss_pred HHHHHHhHHHhhhhHHHHhhHHHHHHHhhcC-ceEEEEEeecC
Q psy17128 82 LNAAFKDVIRFLNWTKKLLNAAFKDVIRFLN-WTKVAIVYEED 123 (124)
Q Consensus 82 ~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~-W~~v~ivYe~d 123 (124)
+.+++++ .++..+ |++++++|+++
T Consensus 120 ~~~~~~~------------------~~~~~~~~~~v~~i~~~~ 144 (332)
T cd06344 120 AARALAK------------------YLKKKNKIKKVAIFYNST 144 (332)
T ss_pred HHHHHHH------------------HHHhhcCCCeEEEEeCCC
Confidence 9999999 666665 99999999875
No 49
>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=98.91 E-value=1.8e-08 Score=81.18 Aligned_cols=101 Identities=10% Similarity=0.092 Sum_probs=76.3
Q ss_pred eEEEecCCchH--HHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC----CCCceEEEeecC
Q psy17128 7 LVEVNVNTGLE--EEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL----NSKEFSVNLYPS 78 (124)
Q Consensus 7 I~~i~~~~~f~--~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~----~~~~f~vnl~P~ 78 (124)
|+-+..++... .+.+.+=+|+.+ ||.||+||.++..+..++.++++.+||+|++.... .. ...+|.+++.|+
T Consensus 41 i~lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~ 120 (347)
T cd06335 41 LELVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPVALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSAD 120 (347)
T ss_pred EEEEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHHHHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccC
Confidence 56666666542 225556677765 99999999999999999999999999999864321 11 223578889999
Q ss_pred HHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 79 QKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 79 ~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
+..+.++++++ +.+.++|++++++|++++
T Consensus 121 ~~~~~~~~a~~-----------------~~~~~~~~~v~ii~~~~~ 149 (347)
T cd06335 121 DSIQAPFLVDE-----------------AVKRGGFKKVALLLDNTG 149 (347)
T ss_pred hHHHHHHHHHH-----------------HHHhcCCCeEEEEeccCc
Confidence 88888888883 346778999999999863
No 50
>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=98.90 E-value=1.6e-08 Score=80.10 Aligned_cols=100 Identities=15% Similarity=0.173 Sum_probs=78.0
Q ss_pred eEEEecCCch--HHHHHHHHHhhcc-CcEEEEcCCCCCcHHHH-HHhhccCCCceEEeeCC-CCC---CCCceEEEeecC
Q psy17128 7 LVEVNVNTGL--EEEESVMCRQLQN-GVQALFGPSDALLGPHV-QSICEALDVPHMESRLD-LEL---NSKEFSVNLYPS 78 (124)
Q Consensus 7 I~~i~~~~~f--~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~v-qsic~~~~IP~i~~~~~-~~~---~~~~f~vnl~P~ 78 (124)
|+-+..++.. ..+.+.+-+++.+ +|.+|+||.++..+..+ +.++++.+||+|++... +.. ...++.++..|+
T Consensus 41 iel~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~~~a~~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~fr~~~~ 120 (312)
T cd06346 41 VTLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGVTIAALTSVAVPNGVVMISPSSTSPTLTTLDDNGLFFRTAPS 120 (312)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchhhHhhhhhhhccCCcEEEecCCCCccceecCCCceEEEecCC
Confidence 5555555543 3336678889875 99999999998888888 99999999999986532 211 224578899999
Q ss_pred HHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 79 QKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 79 ~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
+..+..++++ +++.++|++++++|++++
T Consensus 121 ~~~~~~~l~~------------------~~~~~~~~~vail~~~~~ 148 (312)
T cd06346 121 DALQGQALAQ------------------LAAERGYKSVATTYINND 148 (312)
T ss_pred cHHHHHHHHH------------------HHHHcCCCeEEEEEccCc
Confidence 8888888888 778889999999998863
No 51
>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=98.88 E-value=3.3e-08 Score=74.42 Aligned_cols=99 Identities=22% Similarity=0.292 Sum_probs=75.2
Q ss_pred eEEEecCCc--hHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-CC--CCceEEEeecCHHH
Q psy17128 7 LVEVNVNTG--LEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-LN--SKEFSVNLYPSQKL 81 (124)
Q Consensus 7 I~~i~~~~~--f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~~--~~~f~vnl~P~~~~ 81 (124)
|+-+..++. -+...+.+.+++++||.+|+||.++.....+..++.+.+||+|.+..... .. ..++.+++.|+...
T Consensus 41 v~~~~~d~~~~~~~~~~~~~~l~~~~v~~iig~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 120 (298)
T cd06268 41 IELVVEDTQGDPEAAAAAARELVDDGVDAVIGPLSSGVALAAAPVAEEAGVPLISPGATSPALTGKGNPYVFRTAPSDAQ 120 (298)
T ss_pred EEEEEecCCCCHHHHHHHHHHHHhCCceEEEcCCcchhHHhhHHHHHhCCCcEEccCCCCcccccCCCceEEEcccCcHH
Confidence 333433443 45545567778888999999999888888889999999999998754322 11 34678889999988
Q ss_pred HHHHHHhHHHhhhhHHHHhhHHHHHHHhhcC-ceEEEEEeecC
Q psy17128 82 LNAAFKDVIRFLNWTKKLLNAAFKDVIRFLN-WTKVAIVYEED 123 (124)
Q Consensus 82 ~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~-W~~v~ivYe~d 123 (124)
..+++++ .+...+ |++++++|+++
T Consensus 121 ~~~~~~~------------------~~~~~~~~~~i~~v~~~~ 145 (298)
T cd06268 121 QAAALAD------------------YLAEKGKVKKVAIIYDDY 145 (298)
T ss_pred HHHHHHH------------------HHHHhcCCCEEEEEEcCC
Confidence 8899988 666666 99999999875
No 52
>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=98.80 E-value=4e-08 Score=78.82 Aligned_cols=99 Identities=10% Similarity=0.065 Sum_probs=75.9
Q ss_pred eEEEecCCc--hHHHHHHHHHhhccCcEEEEcCCCCCcHHHH-------HHhhccCCCceEEeeCC-CCC---CCCceEE
Q psy17128 7 LVEVNVNTG--LEEEESVMCRQLQNGVQALFGPSDALLGPHV-------QSICEALDVPHMESRLD-LEL---NSKEFSV 73 (124)
Q Consensus 7 I~~i~~~~~--f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~v-------qsic~~~~IP~i~~~~~-~~~---~~~~f~v 73 (124)
|+-+..++. -..+.+.+.++++++|.+|+||.++..+..+ ..+.+..+||+|++... +.. ...++.+
T Consensus 41 i~l~~~D~~~~p~~a~~~a~~lv~~~v~aiiG~~~s~~~~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f 120 (342)
T cd06329 41 IELVEEDNKGSPQEALRKAQKAIDDGVRLVVQGNSSSVALALTEAVRKHNQRNPGKEVLYLNYASVAPALTGEKCSFWHF 120 (342)
T ss_pred EEEEeccCCCChHHHHHHHHHHHHhCCeEEEcccchHHHHHhhhhhhhhhhhhccCCeEEEecCCCCchhhhccCcceEE
Confidence 444444443 3334678899998899999999998888888 78888999999987432 111 2346788
Q ss_pred EeecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcC-ceEEEEEeecC
Q psy17128 74 NLYPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLN-WTKVAIVYEED 123 (124)
Q Consensus 74 nl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~-W~~v~ivYe~d 123 (124)
++.|++..+..++++ .+...+ ||+++++|+++
T Consensus 121 r~~~~~~~~~~~l~~------------------~~~~~~~~k~v~i~~~~~ 153 (342)
T cd06329 121 RTDANTDMKMEALAS------------------YIKKQPDGKKVYLINQDY 153 (342)
T ss_pred EecCChHHHHHHHHH------------------HHHhcccCceEEEEeCCh
Confidence 999999999999999 666655 99999999875
No 53
>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=98.77 E-value=6.3e-08 Score=77.15 Aligned_cols=87 Identities=16% Similarity=0.074 Sum_probs=71.7
Q ss_pred HHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC-CCC---CCCceEEEeecCHHHHHHHHHhHHHhh
Q psy17128 19 EESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LEL---NSKEFSVNLYPSQKLLNAAFKDVIRFL 93 (124)
Q Consensus 19 ~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~-~~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~ 93 (124)
+.+.+++++.+ +|.||+||.++..+..+..+++..+||.|.+... +.. ...++.+++.|++..+..++++
T Consensus 55 a~~~a~~li~~~~v~aiig~~~s~~~~~~~~~~~~~~ip~i~~~s~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~----- 129 (346)
T cd06330 55 AIREARELVENEGVDMLIGLISSGVALAVAPVAEELKVFFIATDPGTPRLTEEPDNPYVFRTRNSTIMDAVAGAL----- 129 (346)
T ss_pred HHHHHHHHHhccCCcEEEcccchHHHHHHHHHHHHcCCeEEEcCCCCcccccCCCCCceEEecCChHHHHHHHHH-----
Confidence 36789999986 9999999999999999999999999999986442 111 2346788999999999999999
Q ss_pred hhHHHHhhHHHHHHHhhc--CceEEEEEeecC
Q psy17128 94 NWTKKLLNAAFKDVIRFL--NWTKVAIVYEED 123 (124)
Q Consensus 94 ~~~~~~l~~a~~~li~~~--~W~~v~ivYe~d 123 (124)
.++.+ +|+++.++|.++
T Consensus 130 -------------~~~~~~~~~~~v~~l~~~~ 148 (346)
T cd06330 130 -------------YAAKLDKKAKTWATINPDY 148 (346)
T ss_pred -------------HHHHhCcCccEEEEECCch
Confidence 66665 599999999764
No 54
>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=98.66 E-value=2.6e-07 Score=73.71 Aligned_cols=100 Identities=10% Similarity=0.029 Sum_probs=75.6
Q ss_pred eEEEecCCchH--HHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCH
Q psy17128 7 LVEVNVNTGLE--EEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQ 79 (124)
Q Consensus 7 I~~i~~~~~f~--~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~ 79 (124)
|+-+..++... .+.+.+=+++.+ ||.+|+||.++..+..+..+++..+||+|++.... .. ...++.+++.|+.
T Consensus 39 i~l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~ 118 (333)
T cd06359 39 VEVVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNVLLAVVPPVLESGTFYISTNAGPSQLAGKQCSPYFFSTSWQN 118 (333)
T ss_pred EEEEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHHHHHHHHHHHHcCCeEEecCCCccccccccCCCcEEEeeCCh
Confidence 55555665544 223445566655 99999999999889999999999999999874322 11 1246788899998
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
..+..++++ .++..+||+++++|++++
T Consensus 119 ~~~~~~~~~------------------~~~~~g~~~vail~~~~~ 145 (333)
T cd06359 119 DQVHEAMGK------------------YAQDKGYKRVFLIAPNYQ 145 (333)
T ss_pred HhhHHHHHH------------------HHHHhCCCeEEEEecCch
Confidence 888888888 667789999999998763
No 55
>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=98.64 E-value=3.6e-07 Score=73.41 Aligned_cols=100 Identities=14% Similarity=0.175 Sum_probs=77.0
Q ss_pred eEEEecCCchH--HHHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCH
Q psy17128 7 LVEVNVNTGLE--EEESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQ 79 (124)
Q Consensus 7 I~~i~~~~~f~--~~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~ 79 (124)
|+-+..++... .+.+.+-+++. .||.||+||.++..+..+..++...+||+|++.... .. ...++.+++.|+.
T Consensus 48 i~l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~f~~~~~~ 127 (362)
T cd06343 48 IELIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGLGTPTNLAVQKYLNEKKVPQLFPASGASKWNDPKPFPWTFGWQPSY 127 (362)
T ss_pred EEEEEecCCCChHHHHHHHHHHHhhcCeEEEEecCCcHHHHHhHHHHHhcCCceEecccccHhhhCCCCCCceEecCCCh
Confidence 55555566543 33556677886 599999999999999999999999999999864321 11 2356788899998
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.....+++++ +++.++|++++++|+++
T Consensus 128 ~~~~~~~~~~-----------------~~~~~g~~~v~ii~~~~ 154 (362)
T cd06343 128 QDEARIYAKY-----------------LVEEKPNAKIAVLYQND 154 (362)
T ss_pred HHHHHHHHHH-----------------HHHhCCCceEEEEEecc
Confidence 8888888884 56788999999999876
No 56
>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=98.57 E-value=6.3e-07 Score=72.18 Aligned_cols=99 Identities=17% Similarity=0.200 Sum_probs=77.4
Q ss_pred eeEEEecCCchHH--HHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC--CCCceEEEeecCH
Q psy17128 6 SLVEVNVNTGLEE--EESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL--NSKEFSVNLYPSQ 79 (124)
Q Consensus 6 ~I~~i~~~~~f~~--~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~--~~~~f~vnl~P~~ 79 (124)
.|+-+..++.... +.+.+-+++.. +|.+|+||.++..+.. ..++++.+||+|...... .. ...++.+++.|+.
T Consensus 44 ~iel~~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~~~-~~~~~~~~ip~i~~~~~~~~~~~~~~~~~fr~~~~~ 122 (347)
T cd06336 44 KVEIVSYDDKYDPAEAAANARRLVQQDGVKFILGPIGGGITAA-QQITERNKVLLLTAYSSDLSIDTAGNPLTFRVPPIY 122 (347)
T ss_pred eEEEEEecCCCCHHHHHHHHHHHHhhcCceEEEeCCCCchhhh-hhhhhhcCceEEeccCCcccccccCCceEEEecCCc
Confidence 4666667775442 35667888876 9999999999888877 899999999999875432 11 2346788899998
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
..+..++.+ +++..+|++++++|.|+
T Consensus 123 ~~~~~~~~~------------------~~~~~~~~~v~il~~d~ 148 (347)
T cd06336 123 NVYGVPFLA------------------YAKKPGGKKVALLGPND 148 (347)
T ss_pred hhHHHHHHH------------------HHhhcCCceEEEEccCC
Confidence 888888888 66778999999999875
No 57
>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=98.57 E-value=6.7e-07 Score=72.26 Aligned_cols=89 Identities=10% Similarity=0.038 Sum_probs=69.3
Q ss_pred HHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhH
Q psy17128 17 EEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWT 96 (124)
Q Consensus 17 ~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~ 96 (124)
..+.+.+-++++++|.+|+||.++..+..+..++.+.+||+|.+.........++.+++.+++....++++.
T Consensus 46 ~~a~~~~~~li~~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~-------- 117 (336)
T cd06339 46 AGAAAAARQAVAEGADIIVGPLLKENVAALAAAAAELGVPVLALNNDESVAAGPNLFYFGLSPEDEARRAAE-------- 117 (336)
T ss_pred ccHHHHHHHHHHcCCCEEEccCCHHHHHHHHhhhccCCCCEEEccCCccccCCCCEEEecCChHHHHHHHHH--------
Confidence 333556777788899999999988888888889999999999876433222245678888998888888888
Q ss_pred HHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 97 KKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 97 ~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.+...|||+++++|+++
T Consensus 118 ----------~~~~~g~k~vaii~~~~ 134 (336)
T cd06339 118 ----------YARSQGKRRPLVLAPDG 134 (336)
T ss_pred ----------HHHhcCccceEEEecCC
Confidence 44556999999999865
No 58
>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=98.54 E-value=1.3e-06 Score=69.57 Aligned_cols=102 Identities=14% Similarity=0.180 Sum_probs=76.7
Q ss_pred eeEEEecCCchHH--HHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC-CCC-CCCceEEEeecCHH
Q psy17128 6 SLVEVNVNTGLEE--EESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LEL-NSKEFSVNLYPSQK 80 (124)
Q Consensus 6 ~I~~i~~~~~f~~--~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~-~~~-~~~~f~vnl~P~~~ 80 (124)
.|+-+..++.... +.+.+-+++++ +|.+|+||.++..+..+..+.++.+||.|.+... +.. ...+|.++..|++.
T Consensus 40 ~i~l~~~D~~~~~~~a~~~a~~li~~~~V~~i~G~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~f~~~~~~~ 119 (340)
T cd06349 40 PLNIVFEDSKSDPRQAVTIAQKFVADPRIVAVLGDFSSGVSMAASPIYQRAGLVQLSPTNSHPDFTKGGDFIFRNSTSQA 119 (340)
T ss_pred EEEEEEeCCCCChHHHHHHHHHHhccCCeEEEECCCccHhHHHhHHHHHhCCCeEEecCCCCCccccCCCeEEEccCCcH
Confidence 3555555655443 24456677764 7999999999998889999999999999986532 221 34567888899888
Q ss_pred HHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 81 LLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 81 ~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
....+++++ +++.++|++++++|.+++
T Consensus 120 ~~~~~~~~~-----------------~~~~~~~~~v~ii~~~~~ 146 (340)
T cd06349 120 IEAPLLADY-----------------AVKDLGFKKVAILSVNTD 146 (340)
T ss_pred HHHHHHHHH-----------------HHHHcCCcEEEEEecCCh
Confidence 888888883 357889999999998863
No 59
>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=98.51 E-value=5.6e-07 Score=70.83 Aligned_cols=100 Identities=24% Similarity=0.315 Sum_probs=73.5
Q ss_pred eEEEecCCch--HHHHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH
Q psy17128 7 LVEVNVNTGL--EEEESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 7 I~~i~~~~~f--~~~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~ 83 (124)
|+-+..++.. +.+.+.+=+++. +||.+|+||.++..+..+..++...+||+|.+.........++.+++.|+.....
T Consensus 43 i~l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~~~~~f~~~~~~~~~~ 122 (343)
T PF13458_consen 43 IELVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSSAQAEAVAPIAEEAGIPYISPSASSPSPDSPNVFRLSPSDSQQA 122 (343)
T ss_dssp EEEEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSHHHHHHHHHHHHHHT-EEEESSGGGGTTTHTTEEESS--HHHHH
T ss_pred ceeeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCcHHHHHHHHHHHhcCcEEEEeeccCCCCCCCcEEEEeccccHHH
Confidence 4444444444 553445556666 7999999999999999999999999999998643223345567899999999999
Q ss_pred HHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 84 AAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 84 ~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.+++++ +.+.++.+++++||.++
T Consensus 123 ~~~~~~-----------------~~~~~g~~~v~iv~~~~ 145 (343)
T PF13458_consen 123 AALAEY-----------------LAKKLGAKKVAIVYPDD 145 (343)
T ss_dssp HHHHHH-----------------HHHTTTTSEEEEEEESS
T ss_pred HHHHHH-----------------HHHHcCCcEEEEEecCc
Confidence 999984 45679999999999875
No 60
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=98.48 E-value=1.6e-06 Score=71.28 Aligned_cols=100 Identities=10% Similarity=0.121 Sum_probs=75.0
Q ss_pred eEEEecCCchHH--HHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeC-CCCC--CCCceEEEeecCHHH
Q psy17128 7 LVEVNVNTGLEE--EESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRL-DLEL--NSKEFSVNLYPSQKL 81 (124)
Q Consensus 7 I~~i~~~~~f~~--~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~-~~~~--~~~~f~vnl~P~~~~ 81 (124)
|+-+..++.... +.+.+=+++++||.+|+||.++..+..+..++++.+||+|++.. .+.. ...+|.++..|.+..
T Consensus 67 ielv~~D~~~~p~~a~~~~~~Li~~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l~~~~~~~~fr~~~~~~~ 146 (369)
T PRK15404 67 LEGVEYDDACDPKQAVAVANKVVNDGIKYVIGHLCSSSTQPASDIYEDEGILMITPAATAPELTARGYQLIFRTIGLDSD 146 (369)
T ss_pred EEEEeecCCCCHHHHHHHHHHHHhCCceEEEcCCCchhHHHhHHHHHHCCCeEEecCCCCHHHhcCCCceEEeCCCCcHH
Confidence 555555554433 24455667788999999999888888889999999999998643 2222 234577888898888
Q ss_pred HHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 82 LNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 82 ~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
+.++++++ +.+.++|++++++|+++
T Consensus 147 ~~~~~~~~-----------------~~~~~~~k~va~i~~d~ 171 (369)
T PRK15404 147 QGPTAAKY-----------------ILEKVKPKRIAVLHDKQ 171 (369)
T ss_pred HHHHHHHH-----------------HHHhcCCCEEEEEeCCC
Confidence 88888884 45678999999999985
No 61
>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=98.47 E-value=3.3e-06 Score=66.56 Aligned_cols=99 Identities=19% Similarity=0.185 Sum_probs=72.7
Q ss_pred eEEEecCCc--hHHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC---CCCCceEEEeecCHH
Q psy17128 7 LVEVNVNTG--LEEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE---LNSKEFSVNLYPSQK 80 (124)
Q Consensus 7 I~~i~~~~~--f~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~---~~~~~f~vnl~P~~~ 80 (124)
|+-+..++. =..+.+.+.+++++ +|.||+|+.++..+..+..++.+.+||+|.+..... ....++.+++.|+..
T Consensus 42 v~l~~~D~~~d~~~~~~~~~~l~~~~~v~avig~~~s~~~~~~~~~~~~~~iP~i~~~~~~~~~~~~~~~~~~~~~~~~~ 121 (336)
T cd06326 42 IELVTLDDGYEPERTVANTRKLIEDDKVFALFGYVGTPTTAAALPLLEEAGVPLVGPFTGASSLRDPPDRNVFNVRASYA 121 (336)
T ss_pred EEEEEeCCCCChHHHHHHHHHHHhhcCcEEEEeCCCchhHHHHHHHHHHcCCeEEEecCCcHHhcCCCCCceEEeCCChH
Confidence 444444443 33335678888885 999999998776666777899999999998743211 112356678889988
Q ss_pred HHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 81 LLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 81 ~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
....++++ .+...||++++++|+++
T Consensus 122 ~~~~~~~~------------------~l~~~g~~~v~~l~~~~ 146 (336)
T cd06326 122 DEIAAIVR------------------HLVTLGLKRIAVFYQDD 146 (336)
T ss_pred HHHHHHHH------------------HHHHhCCceEEEEEecC
Confidence 88888888 66778999999999864
No 62
>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=98.43 E-value=3e-06 Score=67.61 Aligned_cols=100 Identities=13% Similarity=0.025 Sum_probs=73.5
Q ss_pred eeEEEecCCchHH--HHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHH
Q psy17128 6 SLVEVNVNTGLEE--EESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLL 82 (124)
Q Consensus 6 ~I~~i~~~~~f~~--~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~ 82 (124)
.|+-+.+++.... +.+.+=+++.+ ||.||+||.++..+..+..+.+ .+||+|++.........++.+++.|++...
T Consensus 40 ~i~l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~a~a~~~~~~-~~vp~i~~~~~~~~~~~~~~f~~~~~~~~~ 118 (333)
T cd06358 40 EVELVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAVRNAVAPVVA-GRVPYVYTSLYEGGECNPGVFLTGETPEQQ 118 (333)
T ss_pred EEEEEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHHHHHHHHHHh-cCceEEeCCCcCCCCCCCCEEEcCCCcHHH
Confidence 4667777777643 23445567765 9999999999888888889999 999999874322222345778888887777
Q ss_pred HHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 83 NAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 83 ~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
..+.++. +.+..+|++++++|+++
T Consensus 119 ~~~~~~~-----------------~~~~~g~~~v~i~~~~~ 142 (333)
T cd06358 119 LAPAIPW-----------------LAEEKGARRWYLIGNDY 142 (333)
T ss_pred HHHHHHH-----------------HHHhcCCCeEEEEeccc
Confidence 6666663 55778999999999875
No 63
>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=98.42 E-value=2.2e-06 Score=68.26 Aligned_cols=99 Identities=9% Similarity=0.060 Sum_probs=74.4
Q ss_pred eEEEecCCchH--HHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC-CCC---CCCceEEEeecCH
Q psy17128 7 LVEVNVNTGLE--EEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LEL---NSKEFSVNLYPSQ 79 (124)
Q Consensus 7 I~~i~~~~~f~--~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~-~~~---~~~~f~vnl~P~~ 79 (124)
|+-+..++... .+.+.+=+++++ ||.||+||.++..+..+..++++.+||+|++... +.. ...++.+++.|++
T Consensus 40 v~l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~~~~a~~~~~~~~~vp~i~~~s~~~~~~~~~~~~~~f~~~~~~ 119 (334)
T cd06327 40 IELVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSAVALAVQEVAREKKKIYIVTGAGSDDLTGKDCSPYTFHWAYDT 119 (334)
T ss_pred EEEEEecCCCCchHHHHHHHHHHhhcCceEEECCccHHHHHHHHHHHHHhCceEEecCCCccccccCCCCCceEEccCCh
Confidence 55555565543 335556666665 9999999999888999999999999999986432 121 1246788999999
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
..+.+++++ .+...+|++++++|+++
T Consensus 120 ~~~~~~~~~------------------~~~~~~~~~v~~i~~~~ 145 (334)
T cd06327 120 YMLANGTAP------------------ALVKAGGKKWFFLTADY 145 (334)
T ss_pred HHHHHHHHH------------------HHHHhcCCeEEEEecch
Confidence 988899998 45555699999999875
No 64
>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=98.40 E-value=4e-06 Score=65.70 Aligned_cols=99 Identities=11% Similarity=0.036 Sum_probs=70.8
Q ss_pred eEEEecCCch--HHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCH
Q psy17128 7 LVEVNVNTGL--EEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQ 79 (124)
Q Consensus 7 I~~i~~~~~f--~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~ 79 (124)
|+-+..+++. +.+.+.+=+++.+ ||.+|+||.++.....+..+.++.+||+|.+.... .. ...++.+++.|+.
T Consensus 39 i~l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~ 118 (333)
T cd06332 39 VEVVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNVALAVVPSLTESGTFLISPNAGPSDLAGKLCSPNFFRTSWQN 118 (333)
T ss_pred EEEEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHHHHHHHHHHhhcCCeEEecCCCCccccccCCCCcEEEeeCCh
Confidence 3334444443 3323444556665 99999999877667777788899999999875321 11 1246778899998
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
....+.+++ .+...+|++++++|+++
T Consensus 119 ~~~~~~~~~------------------~l~~~g~~~v~il~~~~ 144 (333)
T cd06332 119 DQVHEAMGK------------------YAADKGYKKVVIIAPDY 144 (333)
T ss_pred HHhHHHHHH------------------HHHHhCCceEEEEecCc
Confidence 888888888 67778899999999764
No 65
>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=98.30 E-value=1.3e-05 Score=65.01 Aligned_cols=100 Identities=16% Similarity=0.189 Sum_probs=74.4
Q ss_pred eeEEEecCCchHH--HHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC---------CC-CCCceE
Q psy17128 6 SLVEVNVNTGLEE--EESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL---------EL-NSKEFS 72 (124)
Q Consensus 6 ~I~~i~~~~~f~~--~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~---------~~-~~~~f~ 72 (124)
.|+-+..+|.... +.+.+=+++++ ||.+|+||.++..+..++.++++.+||+|...... .+ ...++.
T Consensus 42 ~i~lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~ 121 (357)
T cd06337 42 EVEIIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTPDTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWT 121 (357)
T ss_pred EEEEEEecCCCCHHHHHHHHHHHHhccCccEEEecCCcchhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCcee
Confidence 4666677775544 34456678876 99999999998888888999999999999864211 11 124567
Q ss_pred EEeecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcC-ceEEEEEeecC
Q psy17128 73 VNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLN-WTKVAIVYEED 123 (124)
Q Consensus 73 vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~-W~~v~ivYe~d 123 (124)
++++++...+.+++++ .++..+ ++++.++|+++
T Consensus 122 f~~~~~~~~~~~~~~~------------------~~~~~~~~k~v~ii~~~~ 155 (357)
T cd06337 122 YHFFWGAEDVVATYVG------------------MWKQLETNKKVGILYPND 155 (357)
T ss_pred EEecCCHHHHHHHHHH------------------HHHhCCCCceEEEEeecC
Confidence 7888887777777777 667677 99999999886
No 66
>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=98.29 E-value=4.3e-06 Score=69.15 Aligned_cols=86 Identities=13% Similarity=0.140 Sum_probs=69.6
Q ss_pred HHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC-CCC---CCCceEEEeecCHHHHHHHHHhHHHhhhh
Q psy17128 20 ESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LEL---NSKEFSVNLYPSQKLLNAAFKDVIRFLNW 95 (124)
Q Consensus 20 ~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~-~~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~ 95 (124)
.+.+=+++++||.+|+||.++..+..+..++.+.+||+|.+... +.. .-.+|.++..|+...+.+++++
T Consensus 49 ~~~a~~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i~~~a~~~~lt~~~c~~~~Fr~~~~~~~~~~ala~------- 121 (347)
T TIGR03863 49 VAALKALLAQGVRFFVLDLPAAALLALADAAKAKGALLFNAGAPDDALRGADCRANLLHTLPSRAMLADALAQ------- 121 (347)
T ss_pred HHHHHHHHHCCCCEEEecCChHHHHHHHHHHHhCCcEEEeCCCCChHHhCCCCCCCEEEecCChHhHHHHHHH-------
Confidence 55566777889999999999999999999999999999987432 211 2236889999999999999999
Q ss_pred HHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 96 TKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 96 ~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.+...++|++++||+++
T Consensus 122 -----------~~~~~g~kkvaii~~~~ 138 (347)
T TIGR03863 122 -----------YLAAKRWRRILLIQGPL 138 (347)
T ss_pred -----------HHHHcCCCEEEEEeCCC
Confidence 44445999999999775
No 67
>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=98.27 E-value=1.6e-05 Score=62.44 Aligned_cols=86 Identities=15% Similarity=0.194 Sum_probs=64.5
Q ss_pred HHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-C-CCCceEEEeecCHHHHHHHHHhHHHhhhhH
Q psy17128 20 ESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-L-NSKEFSVNLYPSQKLLNAAFKDVIRFLNWT 96 (124)
Q Consensus 20 ~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~-~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~ 96 (124)
.+.+-+++.+ ||.+|+|+.++.....+..+....+||+|.+..... . ...++.+++.|+......++++
T Consensus 55 ~~~~~~li~~~~v~~vig~~~s~~~~~~~~~~~~~~vP~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------- 126 (312)
T cd06333 55 VTNARKLIEEDKVDAIIGPSTTPATMAVAPVAEEAKTPMISLAPAAAIVEPKRKWVFKTPQNDRLMAEAILA-------- 126 (312)
T ss_pred HHHHHHHHhhCCeEEEECCCCCHHHHHHHHHHHhcCCCEEEccCCccccCCCCCcEEEcCCCcHHHHHHHHH--------
Confidence 3445557765 999999998766565677788999999998754321 1 2234667888998888888888
Q ss_pred HHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 97 KKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 97 ~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.+...|||+++++|+++
T Consensus 127 ----------~l~~~g~~~vail~~~~ 143 (312)
T cd06333 127 ----------DMKKRGVKTVAFIGFSD 143 (312)
T ss_pred ----------HHHHcCCCEEEEEecCc
Confidence 66778999999999764
No 68
>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=98.25 E-value=1.4e-05 Score=63.08 Aligned_cols=99 Identities=11% Similarity=0.025 Sum_probs=72.6
Q ss_pred eEEEecCCch--HHHHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC-CCCC---CCceEEEeecCH
Q psy17128 7 LVEVNVNTGL--EEEESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD-LELN---SKEFSVNLYPSQ 79 (124)
Q Consensus 7 I~~i~~~~~f--~~~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~-~~~~---~~~f~vnl~P~~ 79 (124)
|+-+..++.. +.+.+.+-+++. .+|.+|+||.++..+..+..+.++.+||+|.+... .... ..++.+++.|+.
T Consensus 39 i~l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~f~~~~~~ 118 (336)
T cd06360 39 VEFVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGEALAMVKVLREPGTPLINPNAGADDLTGRLCAPNFFRTSFSN 118 (336)
T ss_pred EEEEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHhHHHHHHHHHhcCceEEecCCCCccccccCCCCcEEEEeCch
Confidence 4555455443 333556778876 59999999998777767788899999999987532 2211 135678889998
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.....++++ .+...+||+++++|+++
T Consensus 119 ~~~~~~~~~------------------~l~~~~~~~v~~l~~~~ 144 (336)
T cd06360 119 AQWAAPMGK------------------YAADDGYKKVVTVAWDY 144 (336)
T ss_pred HHHHHHHHH------------------HHHHcCCCeEEEEeccc
Confidence 888888888 66677899999999764
No 69
>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=98.22 E-value=3.8e-05 Score=55.89 Aligned_cols=86 Identities=17% Similarity=0.327 Sum_probs=66.5
Q ss_pred HHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCC-CCCceEEEeecCHHHHHHHHHhHHHhhhhHHH
Q psy17128 20 ESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLEL-NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKK 98 (124)
Q Consensus 20 ~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~-~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~ 98 (124)
.+.+-++.++|+.+|+|+........+...+...+||+|.+...... ...+....+.|+.....+++++
T Consensus 48 ~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------- 117 (269)
T cd01391 48 LEALRDLIQQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATAPDLTGYPYVFRVGPDNEQAGEAAAE---------- 117 (269)
T ss_pred HHHHHHHHHcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCCCccCCCceEEEEcCCcHHHHHHHHH----------
Confidence 44556666779999999988766665778889999999988654321 1224567888998888888888
Q ss_pred HhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 99 LLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 99 ~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.+...+|+++.+++.+.
T Consensus 118 --------~l~~~~~~~i~~i~~~~ 134 (269)
T cd01391 118 --------YLAEKGWKRVALIYGDD 134 (269)
T ss_pred --------HHHHhCCceEEEEecCC
Confidence 88888999999999765
No 70
>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=98.21 E-value=1.5e-05 Score=64.50 Aligned_cols=100 Identities=11% Similarity=-0.059 Sum_probs=71.7
Q ss_pred eEEEecCCchHH--HHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH
Q psy17128 7 LVEVNVNTGLEE--EESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 7 I~~i~~~~~f~~--~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~ 83 (124)
|+-+..+|.... +.+.+=+|++ +||.+|+||.++..+..+..++++.++|.+.+.........++.+++.+.+....
T Consensus 41 ielv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~f~~~~~~~~~~ 120 (348)
T cd06355 41 IEAVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSASRKAVLPVFERHNGLLFYPVQYEGLEQSPNVFYTGAAPNQQI 120 (348)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhhHHHHHHHHhccCCceecCCCccCCCCCCCEEEeCCChHHhH
Confidence 666666776543 2345566665 5899999999998888999999999999987542111123356677888877666
Q ss_pred HHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 84 AAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 84 ~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.+++++ +.+..++|+++++|+|+
T Consensus 121 ~~~~~~-----------------~~~~~g~k~vaii~~d~ 143 (348)
T cd06355 121 IPAVDW-----------------LMSNKGGKRFYLVGSDY 143 (348)
T ss_pred HHHHHH-----------------HHhccCCCeEEEECCcc
Confidence 666663 33456899999999886
No 71
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=98.21 E-value=1.4e-05 Score=64.13 Aligned_cols=100 Identities=8% Similarity=-0.013 Sum_probs=73.2
Q ss_pred eeEEEecCCchHH--HHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHH
Q psy17128 6 SLVEVNVNTGLEE--EESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLL 82 (124)
Q Consensus 6 ~I~~i~~~~~f~~--~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~ 82 (124)
-|+-+..+|.... ..+.+=+|+. .||.||+|+.++..+..+..++++.+||+|...........++.+++.|++..+
T Consensus 40 ~v~lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~F~~~~~~~~~ 119 (334)
T cd06356 40 EVELVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSASREAIRPIMDRTKQLYFYTTQYEGGVCDRNTFCTGATPAQQ 119 (334)
T ss_pred eEEEEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHHHHHHHHHHHhcCceEEeCCCccCCcccCCEEEeCCCcHHH
Confidence 3555666665443 2345567776 599999999999999999999999999999753322112346788899998888
Q ss_pred HHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 83 NAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 83 ~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.++++++ +++..+ +++++||+++
T Consensus 120 ~~~~~~~-----------------~~~~~~-~~vail~~d~ 142 (334)
T cd06356 120 FSTLVPY-----------------MMEKYG-KKVYTIAADY 142 (334)
T ss_pred HHHHHHH-----------------HHHccC-CeEEEECCCc
Confidence 8888884 344456 7899999875
No 72
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=98.18 E-value=1.9e-05 Score=64.94 Aligned_cols=103 Identities=18% Similarity=0.216 Sum_probs=78.5
Q ss_pred CCCeeEEEecCC--chHHHHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC---CC-CCCceEEEe
Q psy17128 3 GQPSLVEVNVNT--GLEEEESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDL---EL-NSKEFSVNL 75 (124)
Q Consensus 3 ~~~~I~~i~~~~--~f~~~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~---~~-~~~~f~vnl 75 (124)
|.+ |+-+..++ +=..+.+.+=+++. +||.+||||.++.++..+..+.++.+||.|++.... .. ...++.+++
T Consensus 49 G~~-velv~~D~~~dp~~a~~~A~~li~~~~V~~vvG~~~S~~~~a~~~v~~~~~i~~i~p~st~~~~~~~~~~~~vfr~ 127 (366)
T COG0683 49 GRK-VELVVEDDASDPATAAAVARKLITQDGVDAVVGPTTSGVALAASPVAEEAGVPLISPSATAPQLTGRGLKPNVFRT 127 (366)
T ss_pred Cce-EEEEEecCCCChHHHHHHHHHHHhhcCceEEEEeccCcccccchhhHhhcCceEEeecCCCCcccccccccceEEe
Confidence 454 66666664 33333445666676 799999999999999999999999999999985321 11 222337899
Q ss_pred ecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 76 YPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 76 ~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.|.+..+..+++++ +.+.++.|+++++|+++
T Consensus 128 ~~~~~~q~~~~~~~-----------------l~~~~~~k~v~ii~~~~ 158 (366)
T COG0683 128 GPTDNQQAAAAADY-----------------LVKKGGKKRVAIIGDDY 158 (366)
T ss_pred cCChHHHHHHHHHH-----------------HHHhcCCcEEEEEeCCC
Confidence 99999999999995 56788889999999886
No 73
>KOG1056|consensus
Probab=98.09 E-value=7e-06 Score=76.04 Aligned_cols=77 Identities=22% Similarity=0.381 Sum_probs=67.2
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC-CC---CCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhHHHH
Q psy17128 30 GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL-EL---NSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAFK 105 (124)
Q Consensus 30 GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~-~~---~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~ 105 (124)
.|+|++||+.+..+-.|+++=.-++||.|+++... .. .+.+|+++.-|++..+.+|++|
T Consensus 125 ~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LSdk~ry~~F~RtVP~D~~Qa~Am~~----------------- 187 (878)
T KOG1056|consen 125 PVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLSDKTRYDYFLRTVPSDVFQAQAMVD----------------- 187 (878)
T ss_pred ceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccccchhhhceeeecCChHHHHHHHHH-----------------
Confidence 49999999999999999999999999999986532 21 4556789999999998899998
Q ss_pred HHHhhcCceEEEEEeecCC
Q psy17128 106 DVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 106 ~li~~~~W~~v~ivYe~d~ 124 (124)
|+++|+|.-|..+++++|
T Consensus 188 -il~~f~W~yVstv~s~~d 205 (878)
T KOG1056|consen 188 -ILKKFNWNYVSTVASEGD 205 (878)
T ss_pred -HHHHhCeeEeeehhcCcc
Confidence 999999999999999875
No 74
>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=98.07 E-value=5.6e-05 Score=60.70 Aligned_cols=100 Identities=11% Similarity=0.050 Sum_probs=69.9
Q ss_pred eeEEEecCCchHH--HHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeC-CCCC---CCCceEEEeecC
Q psy17128 6 SLVEVNVNTGLEE--EESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRL-DLEL---NSKEFSVNLYPS 78 (124)
Q Consensus 6 ~I~~i~~~~~f~~--~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~-~~~~---~~~~f~vnl~P~ 78 (124)
.|+-+..++.... +...+=+++.+ +|.||+||.++..+..+..++++.+||+|+... .+.. ...+|.+++.|+
T Consensus 41 ~i~lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~~~~a~~~~~~~~~ip~i~~~~~~~~l~~~~~~~~~f~~~~~ 120 (333)
T cd06328 41 PIEVIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSGVALAVLPVAEENKKILIVEPAAADSITGKNWNRYTFRTGRN 120 (333)
T ss_pred EEEEEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcHHHHHHHHHHHHhCCcEEecCCCCchhhccCCCCcEEEecCC
Confidence 3555555555443 24456677776 999999999999999999999999999997532 2221 123577888777
Q ss_pred HHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecCC
Q psy17128 79 QKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEEDN 124 (124)
Q Consensus 79 ~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d~ 124 (124)
......++++ .+... +|+++++|+++.
T Consensus 121 ~~~~~~~~~~------------------~~~~~-~~~v~~i~~~~~ 147 (333)
T cd06328 121 SSQDAIAAAA------------------ALGKP-GKKIATLAQDYA 147 (333)
T ss_pred hHHHHHHHHH------------------HHHhc-CCeEEEEecCcc
Confidence 6665666555 33333 899999999863
No 75
>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=97.98 E-value=6.5e-05 Score=61.13 Aligned_cols=101 Identities=8% Similarity=-0.090 Sum_probs=73.6
Q ss_pred eeEEEecCCchHH--HHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHH
Q psy17128 6 SLVEVNVNTGLEE--EESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLL 82 (124)
Q Consensus 6 ~I~~i~~~~~f~~--~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~ 82 (124)
-|+-+..+|.... +...+=++++ .||.+|+||.++..+..+..+.++.++|.+.+.........++.+++.|++..+
T Consensus 41 ~i~l~~~Dd~~~p~~a~~~a~~Lv~~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~F~~~~~~~~~ 120 (359)
T TIGR03407 41 KIEPVVEDGASDWPTFAEKARKLITQDKVAAVFGCWTSASRKAVLPVFEENNGLLFYPVQYEGEECSPNIFYTGAAPNQQ 120 (359)
T ss_pred EEEEEEeCCCCCHHHHHHHHHHHHhhCCCcEEEcCCcHHHHHHHHHHHhccCCceEeCCcccCcccCCCEEEcCCChHHH
Confidence 3677777887753 2345566775 589999999998888888889999999998653211112335667888988877
Q ss_pred HHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 83 NAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 83 ~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
..+++++ +++..|.|+++++|+++
T Consensus 121 ~~~~~~~-----------------~~~~~g~k~v~~l~~d~ 144 (359)
T TIGR03407 121 IIPAVDY-----------------LLSKKGAKRFFLLGSDY 144 (359)
T ss_pred HHHHHHH-----------------HHhccCCceEEEecCcc
Confidence 7777773 44557999999999875
No 76
>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=97.94 E-value=9.1e-05 Score=61.53 Aligned_cols=99 Identities=8% Similarity=0.067 Sum_probs=71.4
Q ss_pred eEEEecCCchH--HHHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH
Q psy17128 7 LVEVNVNTGLE--EEESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 7 I~~i~~~~~f~--~~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~ 83 (124)
|+-+..++... .+.+.+=++++ .||.+|+||.++..+..+..++.+.++|+|...........++.+++.|+...+.
T Consensus 42 ielv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~~~~A~~~~~~~~~~~~i~~~~~~~~~~~~~~Fr~~~~~~~~~ 121 (374)
T TIGR03669 42 IELIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSATREAIRPIIDRNEQLYFYTNQYEGGVCDEYTFAVGATARQQL 121 (374)
T ss_pred eEEEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchHHHHHHHHHHHhcCceEEcCcccccccCCCCEEEcCCChHHHH
Confidence 55555565443 33456667886 5999999999999999999999999999996432111122467889999988888
Q ss_pred HHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 84 AAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 84 ~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.+++++ +.+.++ ++++++|+++
T Consensus 122 ~~~~~~-----------------~~~~~g-~~va~l~~d~ 143 (374)
T TIGR03669 122 GTVVPY-----------------MVEEYG-KKIYTIAADY 143 (374)
T ss_pred HHHHHH-----------------HHHcCC-CeEEEEcCCc
Confidence 888883 334566 4688888875
No 77
>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=97.79 E-value=0.00024 Score=58.07 Aligned_cols=99 Identities=18% Similarity=0.126 Sum_probs=70.0
Q ss_pred eEEEecCCchHH--HHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC----CCCCceEEEeecCH
Q psy17128 7 LVEVNVNTGLEE--EESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE----LNSKEFSVNLYPSQ 79 (124)
Q Consensus 7 I~~i~~~~~f~~--~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~----~~~~~f~vnl~P~~ 79 (124)
|+-+..+|.... +.+.+=+++.+ +|.+|+| .++..+..+..++.+.+||+|.+..... ....++.+++.|+.
T Consensus 41 ielv~~D~~~~p~~a~~~a~~Li~~~~V~~i~~-~~S~~~~a~~~~~~~~~vp~i~~~~~~~~~~~~~~~~~~Fr~~~~~ 119 (351)
T cd06334 41 LEWEECDTGYEVPRGVECYERLKGEDGAVAFQG-WSTGITEALIPKIAADKIPLMSGSYGATLADDGAVFPYNFPVGPTY 119 (351)
T ss_pred EEEEEecCCCCcHHHHHHHHHHhccCCcEEEec-CcHHHHHHhhHHHhhcCCcEEecccchhhccCCCCCCeeeeCCCCH
Confidence 566666665543 24455667766 7888765 4556667788899999999998754321 12346789999999
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhh-c----CceEEEEEeecCC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRF-L----NWTKVAIVYEEDN 124 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~-~----~W~~v~ivYe~d~ 124 (124)
..+..++++ .+.. . +.+++++||++++
T Consensus 120 ~~~~~~l~~------------------~~~~~~~~~~~~~kvaiv~~~~~ 151 (351)
T cd06334 120 SDQARALVQ------------------YIAEQEGGKLKGKKIALVYHDSP 151 (351)
T ss_pred HHHHHHHHH------------------HHHHhcccCCCCCeEEEEeCCCc
Confidence 988888888 4444 3 4699999999863
No 78
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=97.67 E-value=0.00046 Score=54.85 Aligned_cols=90 Identities=10% Similarity=0.019 Sum_probs=63.0
Q ss_pred chHHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCC-CCCCceEEEeecCHHHHHHHHHhHHHh
Q psy17128 15 GLEEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLE-LNSKEFSVNLYPSQKLLNAAFKDVIRF 92 (124)
Q Consensus 15 ~f~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~-~~~~~f~vnl~P~~~~~~~Ai~d~~~~ 92 (124)
+-+.+.+.+=+++.+ +|.+|+||.++.....+ .+..+.+||.|....... ....++.+.+.|++.....++++
T Consensus 51 ~~~~~~~~~~~li~~~~V~~iig~~~s~~~~~~-~~~~~~~ip~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---- 125 (341)
T cd06341 51 DPASAAACARDLVEDDKVVAVVGGSSGAGGSAL-PYLAGAGIPVIGGAGTSAWELTSPNSFPFSGGTPASLTTWGD---- 125 (341)
T ss_pred ChhHHHHHHHHHHHhcCceEEEecccccchhHH-HHHhhcCCceecCCCCCchhhcCCCeEEecCCCcchhHHHHH----
Confidence 344435556667777 99999999987777776 778899999998754322 11134455667777667777777
Q ss_pred hhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 93 LNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 93 ~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
.+...+-++++++|.++
T Consensus 126 --------------~l~~~g~~~~~~i~~~~ 142 (341)
T cd06341 126 --------------FAKDQGGTRAVALVTAL 142 (341)
T ss_pred --------------HHHHcCCcEEEEEEeCC
Confidence 55666789999987654
No 79
>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=97.59 E-value=0.00091 Score=54.45 Aligned_cols=100 Identities=17% Similarity=0.165 Sum_probs=68.1
Q ss_pred eeEEEecCCchHH--HHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHH
Q psy17128 6 SLVEVNVNTGLEE--EESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLL 82 (124)
Q Consensus 6 ~I~~i~~~~~f~~--~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~ 82 (124)
.|+-+..++.... +...+=++++ ++|.||+||.++..+..+..+.++.++|++.+.........++.+...|.+...
T Consensus 40 ~ielv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~ 119 (360)
T cd06357 40 ELEPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSSRKAVLPVVERHDALLWYPTLYEGFEYSPNVIYTGAAPNQN 119 (360)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHHHHHHHHHHHhcCceEEeCCCccCCcccCCEEEeCCCcHHH
Confidence 3666677776543 3445677786 699999999999888889999999999999754321111223345556666555
Q ss_pred HHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 83 NAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 83 ~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
..+++++ +.+..+ ++++++|+++
T Consensus 120 ~~~~~~~-----------------~~~~~~-~~v~~i~~d~ 142 (360)
T cd06357 120 SVPLADY-----------------LLRHYG-KRVFLVGSNY 142 (360)
T ss_pred HHHHHHH-----------------HHhcCC-cEEEEECCCC
Confidence 6677773 334444 7899998875
No 80
>KOG1053|consensus
Probab=97.11 E-value=0.0046 Score=58.32 Aligned_cols=98 Identities=13% Similarity=0.200 Sum_probs=74.3
Q ss_pred CeeEEEecCCchHHHHHHHHHhhc-cCcEEEE-cCCCC--CcHHHHHHhhccCCCceEEeeCCCC----C-CCCceEEEe
Q psy17128 5 PSLVEVNVNTGLEEEESVMCRQLQ-NGVQALF-GPSDA--LLGPHVQSICEALDVPHMESRLDLE----L-NSKEFSVNL 75 (124)
Q Consensus 5 ~~I~~i~~~~~f~~~~~~~C~ll~-~GV~AI~-GP~s~--~~~~~vqsic~~~~IP~i~~~~~~~----~-~~~~f~vnl 75 (124)
|.+--++..|.+.. -..+|+++. ++|.+|+ ++.+. +.+.++.-+....+||+|++..... . ......++|
T Consensus 75 ~~~l~~N~tdPkSl-l~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd~gs~flQl 153 (1258)
T KOG1053|consen 75 PVLLPMNTTDPKSL-LTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKDLGSTFLQL 153 (1258)
T ss_pred eeEeecCCCCHHHH-HHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCCCcceEEEe
Confidence 34445566778887 779999997 6888765 77775 7778888889999999999865321 1 122346899
Q ss_pred ecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEee
Q psy17128 76 YPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYE 121 (124)
Q Consensus 76 ~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe 121 (124)
-|+-+.+.+++.. |++.|+|.+|.+|-.
T Consensus 154 g~Sieqqa~Vml~------------------iL~~ydW~~Fs~vtt 181 (1258)
T KOG1053|consen 154 GPSIEQQAQVMLK------------------ILEEYDWYNFSLVTT 181 (1258)
T ss_pred CCcHHHHHHHHHH------------------HHHHcCcceeEEEEe
Confidence 9998877777777 999999999999854
No 81
>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=96.52 E-value=0.0055 Score=52.58 Aligned_cols=81 Identities=20% Similarity=0.271 Sum_probs=57.7
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEee-CCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHh
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMESR-LDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIR 109 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~~-~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~ 109 (124)
==+|+||+-.-++..+......++||.|+.. ...+-+.+...-++.|+..-++..+.++.++- +..+
T Consensus 82 gcv~lGP~CtYat~~~~~~~~~~~~P~ISaGsfglscd~k~~LTR~~pparK~~~~~~~f~~~~------------~~~~ 149 (380)
T cd06369 82 GCVLLGPSCTYATFQMVDDEFNLSLPIISAGSFGLSCDYKENLTRLLPPARKISDFFVDFWKEK------------NFPK 149 (380)
T ss_pred CcEEEcCccceehhhhhhhhhcCCCceEeccccccCCCchhhhhhcCchHHHHHHHHHHHHhcc------------cccC
Confidence 3478999999999999999999999999863 22232344456788899888888888822110 1225
Q ss_pred hcCceEEEEEeecCC
Q psy17128 110 FLNWTKVAIVYEEDN 124 (124)
Q Consensus 110 ~~~W~~v~ivYe~d~ 124 (124)
+++|++. +||++++
T Consensus 150 ~~~W~~a-yvyk~~~ 163 (380)
T cd06369 150 KPKWETA-YVYKKQE 163 (380)
T ss_pred CCCCcee-EEEcCCC
Confidence 8999855 4999874
No 82
>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=94.86 E-value=0.62 Score=34.24 Aligned_cols=97 Identities=10% Similarity=0.138 Sum_probs=56.1
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHH
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAA 85 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~A 85 (124)
.+.....+.+-+...+.+=+++++|+-+|++.............+...++|.|.+...... . .....+.++.......
T Consensus 31 ~l~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~~~-~-~~~~~v~~d~~~~~~~ 108 (264)
T cd01537 31 QVLLANSQNDAEKQLSALENLIARGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDIPD-G-DRVPSVGSDNEQAGYL 108 (264)
T ss_pred eEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCCCC-C-cccceEecCcHHHHHH
Confidence 3444444444444233344455678888887655433333445568899999987654331 1 2223445555556666
Q ss_pred HHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeec
Q psy17128 86 FKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEE 122 (124)
Q Consensus 86 i~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~ 122 (124)
.++ .+...+=+++.++..+
T Consensus 109 ~~~------------------~l~~~g~~~i~~i~~~ 127 (264)
T cd01537 109 AGE------------------HLAEKGHRRIALLAGP 127 (264)
T ss_pred HHH------------------HHHHhcCCcEEEEECC
Confidence 666 4455567788888654
No 83
>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=94.63 E-value=0.66 Score=34.20 Aligned_cols=95 Identities=14% Similarity=0.031 Sum_probs=53.6
Q ss_pred eEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHH
Q psy17128 7 LVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAF 86 (124)
Q Consensus 7 I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai 86 (124)
+.....+.+-+...+.+-+++.+|+-+|+.......+.. .......+||+|.+...... .......++.....+..
T Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~~~~---~~~~~v~~d~~~~g~~~ 107 (264)
T cd06267 32 VLLCNSDEDPEKEREALELLLSRRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRPLDG---LGVDSVGIDNRAGAYLA 107 (264)
T ss_pred EEEEcCCCCHHHHHHHHHHHHHcCcCEEEEecCCcchHH-HHHHHHcCCCEEEecccccC---CCCCEEeeccHHHHHHH
Confidence 333333333333244555666789888886544434433 44578899999988654321 12233445544444544
Q ss_pred HhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 87 KDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 87 ~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
++. ++ ..|-+++.+++.+.
T Consensus 108 ~~~-----------------l~-~~g~~~i~~i~~~~ 126 (264)
T cd06267 108 VEH-----------------LI-ELGHRRIAFIGGPP 126 (264)
T ss_pred HHH-----------------HH-HCCCceEEEecCCC
Confidence 451 33 34788999988653
No 84
>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=92.22 E-value=2.3 Score=32.24 Aligned_cols=81 Identities=22% Similarity=0.237 Sum_probs=47.2
Q ss_pred HHHHHHhhccCcEE-EEcCCCCC-cHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHH
Q psy17128 20 ESVMCRQLQNGVQA-LFGPSDAL-LGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTK 97 (124)
Q Consensus 20 ~~~~C~ll~~GV~A-I~GP~s~~-~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~ 97 (124)
.+.+-.++++||-+ |++|.... ..+.++. ..+.+||.|.+......... -.+.++.....+..++.
T Consensus 47 ~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~-~~~~~iPvV~~~~~~~~~~~---~~V~~d~~~~g~~~~~~-------- 114 (275)
T cd06320 47 LSIAENMINKGYKGLLFSPISDVNLVPAVER-AKKKGIPVVNVNDKLIPNAT---AFVGTDNKANGVRGAEW-------- 114 (275)
T ss_pred HHHHHHHHHhCCCEEEECCCChHHhHHHHHH-HHHCCCeEEEECCCCCCccc---eEEecCcHHHHHHHHHH--------
Confidence 34445566778877 45775433 2344444 46789999987653321111 13466766666666663
Q ss_pred HHhhHHHHHHHhhc-CceEEEEEee
Q psy17128 98 KLLNAAFKDVIRFL-NWTKVAIVYE 121 (124)
Q Consensus 98 ~~l~~a~~~li~~~-~W~~v~ivYe 121 (124)
+++.. |.+++.+++.
T Consensus 115 ---------l~~~~~g~~~i~~l~~ 130 (275)
T cd06320 115 ---------IIDKLAEGGKVAIIEG 130 (275)
T ss_pred ---------HHHHhCCCceEEEEeC
Confidence 33333 7888888774
No 85
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=90.84 E-value=1.4 Score=39.12 Aligned_cols=98 Identities=10% Similarity=0.147 Sum_probs=52.5
Q ss_pred CCeeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhcc--CCCceEEeeCCCC--CCCCceEEEeecCH
Q psy17128 4 QPSLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEA--LDVPHMESRLDLE--LNSKEFSVNLYPSQ 79 (124)
Q Consensus 4 ~~~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~--~~IP~i~~~~~~~--~~~~~f~vnl~P~~ 79 (124)
.|.|..++.+.. .. ....-+....|+-.|+||-.....+.+...-.. ..||.+....... ....-|.+.|.|.+
T Consensus 254 ~~~l~~~Dt~~~-~~-~~~~~~a~~~ga~~ViGPL~k~~V~~l~~~~~~~~~~vp~LaLN~~~~~~~~~~l~~f~LspEd 331 (536)
T PF04348_consen 254 RPELRFYDTNAD-SA-DALYQQAVADGADFVIGPLLKSNVEALAQLPQLQAQPVPVLALNQPDNSQAPPNLYQFGLSPED 331 (536)
T ss_dssp -S-EEEEETTTS--H-HHHHHHHHHTT--EEE---SHHHHHHHHH-GG-GGTT-EEEES---TT----TTEEE----HHH
T ss_pred CCceEEecCCCC-CH-HHHHHHHHHcCCCEEEcCCCHHHHHHHHhcCcccccCCceeeccCCCcccCccceEEEeCCcHH
Confidence 578888886654 22 334445557899999999998888888775542 4899998743222 12234678888865
Q ss_pred HHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 80 KLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 80 ~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
+ .+.+|+ .+..-|+++..|++-++
T Consensus 332 E--A~q~A~------------------~a~~~g~~~alvl~p~~ 355 (536)
T PF04348_consen 332 E--ARQAAQ------------------KAFQDGYRRALVLAPQN 355 (536)
T ss_dssp H--HHHHHH------------------HHHHTT--S-EEEEESS
T ss_pred H--HHHHHH------------------HHHhcCCCCEEEEcCCC
Confidence 5 455666 66778999999998765
No 86
>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=90.07 E-value=6.7 Score=29.64 Aligned_cols=78 Identities=10% Similarity=0.173 Sum_probs=47.1
Q ss_pred eEEEecCCchHHHHHHHHHhhccCcEEEEc-CCCCCc-HHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHH
Q psy17128 7 LVEVNVNTGLEEEESVMCRQLQNGVQALFG-PSDALL-GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNA 84 (124)
Q Consensus 7 I~~i~~~~~f~~~~~~~C~ll~~GV~AI~G-P~s~~~-~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~ 84 (124)
+.-.+.+++-+...+.+=+++++++-+|+. |.+... ...++. +...+||+|.+....+. .....+.+++....+
T Consensus 37 l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~~~~~~~~l~~-~~~~~iPvv~~~~~~~~---~~~~~v~~d~~~~g~ 112 (272)
T cd06300 37 FIVTSADGDVAQQIADIRNLIAQGVDAIIINPASPTALNPVIEE-ACEAGIPVVSFDGTVTT---PCAYNVNEDQAEFGK 112 (272)
T ss_pred EEEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCChhhhHHHHHH-HHHCCCeEEEEecCCCC---CceeEecCCHHHHHH
Confidence 333444445555345566667788888876 444332 345555 55689999998654321 223456778777777
Q ss_pred HHHh
Q psy17128 85 AFKD 88 (124)
Q Consensus 85 Ai~d 88 (124)
..++
T Consensus 113 ~~~~ 116 (272)
T cd06300 113 QGAE 116 (272)
T ss_pred HHHH
Confidence 6666
No 87
>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=89.07 E-value=7.7 Score=28.90 Aligned_cols=79 Identities=15% Similarity=0.187 Sum_probs=48.0
Q ss_pred HHHHHHhhccCcEEEEc-CCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHHH
Q psy17128 20 ESVMCRQLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKK 98 (124)
Q Consensus 20 ~~~~C~ll~~GV~AI~G-P~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~ 98 (124)
.+.+-.++++++-+|+. |.+...... ...+.+.+||++.+..+.. .... +...++....+..++
T Consensus 45 ~~~~~~l~~~~vdgiii~~~~~~~~~~-~~~~~~~~ipvV~~~~~~~-~~~~---~v~~d~~~~g~~~~~---------- 109 (266)
T cd06282 45 ADAVETLLRQRVDGLILTVADAATSPA-LDLLDAERVPYVLAYNDPQ-PGRP---SVSVDNRAAARDVAQ---------- 109 (266)
T ss_pred HHHHHHHHhcCCCEEEEecCCCCchHH-HHHHhhCCCCEEEEeccCC-CCCC---EEeeCcHHHHHHHHH----------
Confidence 34455666778887774 555433343 3557788999998754332 1111 234565556666666
Q ss_pred HhhHHHHHHHhhcCceEEEEEee
Q psy17128 99 LLNAAFKDVIRFLNWTKVAIVYE 121 (124)
Q Consensus 99 ~l~~a~~~li~~~~W~~v~ivYe 121 (124)
.+...|.+++.+++.
T Consensus 110 --------~l~~~g~~~i~~i~~ 124 (266)
T cd06282 110 --------ALAALGHRRIAMLAG 124 (266)
T ss_pred --------HHHHcCcccEEEecc
Confidence 333458999999864
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=87.94 E-value=9 Score=28.30 Aligned_cols=96 Identities=15% Similarity=0.190 Sum_probs=50.9
Q ss_pred eEEEecCCchHHHHHHHHHhhccCcEEEEc-CCCCCcH-HHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHH
Q psy17128 7 LVEVNVNTGLEEEESVMCRQLQNGVQALFG-PSDALLG-PHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNA 84 (124)
Q Consensus 7 I~~i~~~~~f~~~~~~~C~ll~~GV~AI~G-P~s~~~~-~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~ 84 (124)
+......++-....+.+=+++.+++-+|++ +.+.... ..+. .....++|.|.+....+. . ...-...+++...++
T Consensus 32 ~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~~~~~~~~~~-~l~~~~ip~V~~~~~~~~-~-~~~~~v~~d~~~~~~ 108 (267)
T cd01536 32 LIVLDAQNDVSKQIQQIEDLIAQGVDGIIISPVDSAALTPALK-KANAAGIPVVTVDSDIDG-G-NRLAYVGTDNYEAGR 108 (267)
T ss_pred EEEECCCCCHHHHHHHHHHHHHcCCCEEEEeCCCchhHHHHHH-HHHHCCCcEEEecCCCCc-c-ceeEEEecCHHHHHH
Confidence 344444444444233344455668887774 4433322 2333 356789999987653321 1 122334566666666
Q ss_pred HHHhHHHhhhhHHHHhhHHHHHHHhhc-CceEEEEEeec
Q psy17128 85 AFKDVIRFLNWTKKLLNAAFKDVIRFL-NWTKVAIVYEE 122 (124)
Q Consensus 85 Ai~d~~~~~~~~~~~l~~a~~~li~~~-~W~~v~ivYe~ 122 (124)
.+++. +++.. |=+++.+++++
T Consensus 109 ~~~~~-----------------l~~~~~g~~~i~~i~~~ 130 (267)
T cd01536 109 LAGEY-----------------LAKLLGGKGKVAIIEGP 130 (267)
T ss_pred HHHHH-----------------HHHHhCCCceEEEEEcc
Confidence 66662 23322 66888888764
No 89
>KOG4440|consensus
Probab=86.32 E-value=2.4 Score=39.58 Aligned_cols=91 Identities=13% Similarity=0.232 Sum_probs=58.0
Q ss_pred chHHHHHHHHHhh-ccCcEEEEcCCCCC----cHHHHHHhhcc-CCCceEEeeC-CCCCCC---CceEEEeecCHHHHHH
Q psy17128 15 GLEEEESVMCRQL-QNGVQALFGPSDAL----LGPHVQSICEA-LDVPHMESRL-DLELNS---KEFSVNLYPSQKLLNA 84 (124)
Q Consensus 15 ~f~~~~~~~C~ll-~~GV~AI~GP~s~~----~~~~vqsic~~-~~IP~i~~~~-~~~~~~---~~f~vnl~P~~~~~~~ 84 (124)
.-..++.-+|+.| ++.|.||+=..... -.++.-|+... ..||++-+.. +...+. ..-+++..|...+++.
T Consensus 79 n~i~t~~~VC~~li~~~vyav~vSh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKnIh~sFlRtvpPyshqa~ 158 (993)
T KOG4440|consen 79 NAIQTALSVCEDLISSQVYAVLVSHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKNIHLSFLRTVPPYSHQAS 158 (993)
T ss_pred cHHHHHHHHHHHHHhhheeEEEecCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCceeeeEeecCCCccchhH
Confidence 3333467789877 67899988322222 34445556555 4799987642 211111 1224777777776666
Q ss_pred HHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeecC
Q psy17128 85 AFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEED 123 (124)
Q Consensus 85 Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~d 123 (124)
-... ++++|+|++++++..||
T Consensus 159 Vwle------------------Ml~~~~y~~vi~l~s~d 179 (993)
T KOG4440|consen 159 VWLE------------------MLRVYSYNHVILLVSDD 179 (993)
T ss_pred HHHH------------------HHHHhhcceEEEEEccc
Confidence 6666 99999999999999776
No 90
>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=85.27 E-value=14 Score=27.71 Aligned_cols=81 Identities=7% Similarity=0.001 Sum_probs=46.2
Q ss_pred HHHHHHhh-ccCcEEEEcCC-CCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHH
Q psy17128 20 ESVMCRQL-QNGVQALFGPS-DALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTK 97 (124)
Q Consensus 20 ~~~~C~ll-~~GV~AI~GP~-s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~ 97 (124)
.+.+.+++ +.++-||+.-. +......++ ...+.+||++.+.......... ....++....+..++
T Consensus 45 ~~~~~~~l~~~~vdgiii~~~~~~~~~~~~-~~~~~~ipvv~i~~~~~~~~~~---~V~~d~~~~g~~a~~--------- 111 (270)
T cd01545 45 AERVRALLQRSRVDGVILTPPLSDNPELLD-LLDEAGVPYVRIAPGTPDPDSP---CVRIDDRAAAREMTR--------- 111 (270)
T ss_pred HHHHHHHHHHCCCCEEEEeCCCCCccHHHH-HHHhcCCCEEEEecCCCCCCCC---eEEeccHHHHHHHHH---------
Confidence 45666655 56888877533 222333343 4567899999886543211111 233455555555555
Q ss_pred HHhhHHHHHHHhhcCceEEEEEeec
Q psy17128 98 KLLNAAFKDVIRFLNWTKVAIVYEE 122 (124)
Q Consensus 98 ~~l~~a~~~li~~~~W~~v~ivYe~ 122 (124)
.+...|.++++++..+
T Consensus 112 ---------~l~~~g~~~i~~i~~~ 127 (270)
T cd01545 112 ---------HLIDLGHRRIAFIAGP 127 (270)
T ss_pred ---------HHHHCCCceEEEEeCC
Confidence 2333599999988743
No 91
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=84.01 E-value=5.3 Score=34.26 Aligned_cols=95 Identities=9% Similarity=0.043 Sum_probs=52.9
Q ss_pred EecCCchHHHHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 10 VNVNTGLEEEESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 10 i~~~~~f~~~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
.+..++-...++++-+|+. .||.+|||-.++++-..|--+-++.+-....+..-......+..+.+-..+..+...+++
T Consensus 47 ~Dp~Sd~~~ya~~A~~Li~~d~V~~ifGc~TSasRKaVlPvvE~~~~LL~Yp~~YEG~E~S~nviYtGa~PNQ~~~pl~~ 126 (363)
T PF13433_consen 47 YDPASDPSTYAEKAEKLIREDGVRAIFGCYTSASRKAVLPVVERHNALLFYPTQYEGFECSPNVIYTGAAPNQQLLPLID 126 (363)
T ss_dssp E--TT-HHHHHHHHHHHHHHS---EEEE--SHHHHHHHHHHHHHCT-EEEE-S--------TTEEE-S--GGGTHHHHHH
T ss_pred ECCCCCHHHHHHHHHHHHHhCCccEEEecchhhhHHHHHHHHHhcCceEEeccccccccCCCceEEcCCCchhhHHHHHH
Confidence 3444555555666777765 799999999999999999999999998887654322223334456666666666666666
Q ss_pred HHHhhhhHHHHhhHHHHHHHhhcCceEEEEEee
Q psy17128 89 VIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYE 121 (124)
Q Consensus 89 ~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe 121 (124)
+ ++++||=++|.+|=.
T Consensus 127 ~-----------------~~~~~G~~r~~lvGS 142 (363)
T PF13433_consen 127 Y-----------------LLENFGAKRFYLVGS 142 (363)
T ss_dssp H-----------------HHHHS--SEEEEEEE
T ss_pred H-----------------HHhccCCceEEEecC
Confidence 5 778888888877643
No 92
>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=83.75 E-value=16 Score=27.37 Aligned_cols=77 Identities=14% Similarity=0.217 Sum_probs=47.7
Q ss_pred ecCCchHHHHHHHHHhhccCcEEEE-cCCCC-CcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 11 NVNTGLEEEESVMCRQLQNGVQALF-GPSDA-LLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 11 ~~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~-~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
....+-+...+.+-+++++|+=||+ .|.++ .....++. +...+||++.+..+.. ...+....+-+++....+.+++
T Consensus 36 ~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~-~~~~gIpvv~~d~~~~-~~~~~~~~v~~d~~~~G~~~a~ 113 (257)
T PF13407_consen 36 DAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEK-AKAAGIPVVTVDSDEA-PDSPRAAYVGTDNYEAGKLAAE 113 (257)
T ss_dssp ESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHH-HHHTTSEEEEESSTHH-TTSTSSEEEEE-HHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHH-HhhcCceEEEEecccc-ccccceeeeeccHHHHHHHHHH
Confidence 4455556656667777788877766 66665 45566666 7778999999876501 1112223455667777777777
Q ss_pred H
Q psy17128 89 V 89 (124)
Q Consensus 89 ~ 89 (124)
.
T Consensus 114 ~ 114 (257)
T PF13407_consen 114 Y 114 (257)
T ss_dssp H
T ss_pred H
Confidence 3
No 93
>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=80.46 E-value=21 Score=26.50 Aligned_cols=93 Identities=9% Similarity=0.012 Sum_probs=48.7
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHH
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAA 85 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~A 85 (124)
.+..+..+++-+...+.+..+++++|-||+............. . ..+||.+.+..... . .. .-....++....+.
T Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~-~-~~~ipvv~~~~~~~-~-~~-~~~v~~d~~~~g~~ 105 (267)
T cd06284 31 GVLLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPTALTA-L-AKLPPIVQACEYIP-G-LA-VPSVSIDNVAAARL 105 (267)
T ss_pred eEEEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHHHHHH-H-hcCCCEEEEecccC-C-CC-cceEEecccHHHHH
Confidence 4445555555544233445555678888775322222223333 3 34999998753222 1 11 11234455555566
Q ss_pred HHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEee
Q psy17128 86 FKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYE 121 (124)
Q Consensus 86 i~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe 121 (124)
.++ .+..-|.+++++++.
T Consensus 106 ~~~------------------~l~~~g~~~i~~l~~ 123 (267)
T cd06284 106 AVD------------------HLISLGHRRIALITG 123 (267)
T ss_pred HHH------------------HHHHcCCceEEEEcC
Confidence 666 233347888888765
No 94
>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=79.69 E-value=23 Score=26.47 Aligned_cols=88 Identities=14% Similarity=0.130 Sum_probs=48.1
Q ss_pred EecCCchHHHHHHHHHhhccCcEEEE--cCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHH
Q psy17128 10 VNVNTGLEEEESVMCRQLQNGVQALF--GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFK 87 (124)
Q Consensus 10 i~~~~~f~~~~~~~C~ll~~GV~AI~--GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~ 87 (124)
....++-+...+.+-.+++++|-||+ |+.. ....+. ...+.+||.+.+.......... ....+.....+.++
T Consensus 35 ~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~--~~~~~~-~l~~~~iPvv~~~~~~~~~~~~---~v~~d~~~~~~~~~ 108 (268)
T cd06273 35 ASSGYDLDREYAQARKLLERGVDGLALIGLDH--SPALLD-LLARRGVPYVATWNYSPDSPYP---CVGFDNREAGRLAA 108 (268)
T ss_pred ecCCCCHHHHHHHHHHHHhcCCCEEEEeCCCC--CHHHHH-HHHhCCCCEEEEcCCCCCCCCC---EEEeChHHHHHHHH
Confidence 33444445423334455566765544 4432 234444 4577899999875422211212 24456666666666
Q ss_pred hHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEee
Q psy17128 88 DVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYE 121 (124)
Q Consensus 88 d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe 121 (124)
+. |++ .|.+++.++..
T Consensus 109 ~~-----------------l~~-~g~~~i~~i~~ 124 (268)
T cd06273 109 RH-----------------LIA-LGHRRIAMIFG 124 (268)
T ss_pred HH-----------------HHH-CCCCeEEEEec
Confidence 62 344 48899999874
No 95
>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=79.62 E-value=24 Score=26.66 Aligned_cols=80 Identities=10% Similarity=0.065 Sum_probs=41.9
Q ss_pred eeEEEecCCchHHHHHHHHH-hhccCcEEEE-cCCCC-CcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHH
Q psy17128 6 SLVEVNVNTGLEEEESVMCR-QLQNGVQALF-GPSDA-LLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLL 82 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~-ll~~GV~AI~-GP~s~-~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~ 82 (124)
.+...+.+++-+. .....+ ++++|+-||+ .|.+. ...+.++.+ .+.+||++.+....... ........+++...
T Consensus 36 ~~~~~~~~~~~~~-~~~~~~~l~~~~vDgiii~~~~~~~~~~~i~~~-~~~gIpvV~~d~~~~~~-~~~~~~V~~d~~~~ 112 (274)
T cd06311 36 EFILVTASNDTEQ-QNAQQDLLINRKIDALVILPFESAPLTQPVAKA-KKAGIFVVVVDRGLSSP-GAQDLYVAGDNYGM 112 (274)
T ss_pred EEEEEcCCCCHHH-HHHHHHHHHHcCCCEEEEeCCCchhhHHHHHHH-HHCCCeEEEEcCCCCCC-cccceEEcCCcHHH
Confidence 3444444444444 445555 5567776555 45443 334556554 56899999886432211 11122345665555
Q ss_pred HHHHHh
Q psy17128 83 NAAFKD 88 (124)
Q Consensus 83 ~~Ai~d 88 (124)
.+..++
T Consensus 113 g~~aa~ 118 (274)
T cd06311 113 GRVAGE 118 (274)
T ss_pred HHHHHH
Confidence 555555
No 96
>TIGR00333 nrdI ribonucleoside-diphosphate reductase 2, operon protein nrdI. Ribonucleotide reductases (RNRs) are enzymes that provide the precursors of DNA synthesis. The three characterized classes of RNRs differ by their metal cofactor and their stable organic radical. The exact function of nrdI within the ribonucleotide reductases has not yet been fully characterised.
Probab=76.92 E-value=9 Score=27.95 Aligned_cols=59 Identities=12% Similarity=0.254 Sum_probs=40.6
Q ss_pred cCcEEEEcCCCCCc----HHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhHHH
Q psy17128 29 NGVQALFGPSDALL----GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAF 104 (124)
Q Consensus 29 ~GV~AI~GP~s~~~----~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~ 104 (124)
+-+.||+|.-+..- +.++..|+..+++|.+ +.+.++|+.+++.+-+.. +
T Consensus 63 n~~~gV~gSGn~n~g~~fc~A~d~ia~~~~~p~l------------~k~El~gt~~Dv~~~~~~---------------~ 115 (125)
T TIGR00333 63 NLLRGVAASGNKVWGDNFALAGDVISRKLNVPLL------------YKFELSGTKNDVELFTQE---------------V 115 (125)
T ss_pred hcEEEEEEcCCCchHHHHHHHHHHHHHHhCCccE------------EEEecCCCHHHHHHHHHH---------------H
Confidence 35789998877554 5667778888888765 368888987766543333 3
Q ss_pred HHHHhhcCceE
Q psy17128 105 KDVIRFLNWTK 115 (124)
Q Consensus 105 ~~li~~~~W~~ 115 (124)
.+.|+.+ |+|
T Consensus 116 ~~~~~~~-~~~ 125 (125)
T TIGR00333 116 QKIVTNF-FQK 125 (125)
T ss_pred HHHHHHH-hcC
Confidence 4477777 864
No 97
>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=76.64 E-value=30 Score=26.13 Aligned_cols=77 Identities=12% Similarity=0.157 Sum_probs=42.1
Q ss_pred ecCCchHHHHHHHHHhhccCcEEEE-cCCCCCc-HHHHHHhhccCCCceEEeeCCCCC-CCCceEEEeecCHHHHHHHHH
Q psy17128 11 NVNTGLEEEESVMCRQLQNGVQALF-GPSDALL-GPHVQSICEALDVPHMESRLDLEL-NSKEFSVNLYPSQKLLNAAFK 87 (124)
Q Consensus 11 ~~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~~~-~~~vqsic~~~~IP~i~~~~~~~~-~~~~f~vnl~P~~~~~~~Ai~ 87 (124)
..+++-+...+.+=+++.+++-+|+ .|.+... ...++. ..+.+||.+.+...... ....+.-.+.+++...++..+
T Consensus 36 ~~~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~i~~-~~~~~iPvV~~~~~~~~~~~~~~~~~v~~d~~~~g~~~~ 114 (273)
T cd06309 36 DAQQKQENQISAIRSFIAQGVDVIILAPVVETGWDPVLKE-AKAAGIPVILVDRGVDVKDDSLYVTFIGSDFVEEGRRAA 114 (273)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCEEEEcCCccccchHHHHH-HHHCCCCEEEEecCcCCccCcceeeEecCChHHHHHHHH
Confidence 3333444423445556667776664 5655332 345554 56789999988754321 112333446677666665555
Q ss_pred h
Q psy17128 88 D 88 (124)
Q Consensus 88 d 88 (124)
+
T Consensus 115 ~ 115 (273)
T cd06309 115 D 115 (273)
T ss_pred H
Confidence 5
No 98
>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=75.56 E-value=31 Score=25.66 Aligned_cols=80 Identities=11% Similarity=0.195 Sum_probs=41.6
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEE-EEcCCCCC-cHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQA-LFGPSDAL-LGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~A-I~GP~s~~-~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~ 83 (124)
++......++-+...+.+-+++++++-| |++|.... ....++.+ .+.+||.+.+..+.. ....+ -....++....
T Consensus 31 ~v~~~~~~~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l-~~~~ipvv~~~~~~~-~~~~~-~~v~~d~~~~~ 107 (268)
T cd06323 31 ELTVLDAQNDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAA-NEAGIPVFTIDREAN-GGEVV-SQIASDNVAGG 107 (268)
T ss_pred eEEecCCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHH-HHCCCcEEEEccCCC-CCceE-EEEccCcHHHH
Confidence 4444444444444244455556777777 55665432 23445554 567999998865322 11111 23445555555
Q ss_pred HHHHh
Q psy17128 84 AAFKD 88 (124)
Q Consensus 84 ~Ai~d 88 (124)
+..++
T Consensus 108 ~~~~~ 112 (268)
T cd06323 108 KMAAE 112 (268)
T ss_pred HHHHH
Confidence 55555
No 99
>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=74.83 E-value=35 Score=26.06 Aligned_cols=98 Identities=12% Similarity=0.094 Sum_probs=51.3
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEEEE-cCCCC-CcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQALF-GPSDA-LLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN 83 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~-~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~ 83 (124)
++.....+++-....+.+-+++++++-+|+ .|.+. ...+.++. +...+||++.+............-...+++..-.
T Consensus 31 ~~~~~~~~~d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~-~~~~~iPvV~~~~~~~~~~~~~~~~v~~d~~~~g 109 (272)
T cd06313 31 DVTWYGGALDAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQK-AIARGIPVIDMGTLIAPLQINVHSFLAPDNYFMG 109 (272)
T ss_pred EEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHH-HHHCCCcEEEeCCCCCCCCCceEEEECCCcHHHH
Confidence 344444444555423344455567765444 45443 23445555 4556999998865332111121123556666666
Q ss_pred HHHHhHHHhhhhHHHHhhHHHHHHHhhc-CceEEEEEee
Q psy17128 84 AAFKDVIRFLNWTKKLLNAAFKDVIRFL-NWTKVAIVYE 121 (124)
Q Consensus 84 ~Ai~d~~~~~~~~~~~l~~a~~~li~~~-~W~~v~ivYe 121 (124)
+..++. |++.. |.+++.++..
T Consensus 110 ~~~~~~-----------------l~~~~~g~~~i~~l~g 131 (272)
T cd06313 110 ASVAQA-----------------LCNAMGGKGKIAMLQG 131 (272)
T ss_pred HHHHHH-----------------HHHHcCCCceEEEEEC
Confidence 666662 33322 7778887764
No 100
>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=72.38 E-value=39 Score=25.42 Aligned_cols=71 Identities=11% Similarity=0.148 Sum_probs=37.1
Q ss_pred CCchHHHHHHHHHhhccCcEEE-EcCCCC-CcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 13 NTGLEEEESVMCRQLQNGVQAL-FGPSDA-LLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 13 ~~~f~~~~~~~C~ll~~GV~AI-~GP~s~-~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
..+.+...+.+-.+.++|+-|| +.|.+. ...+.+..+ .+.++|+|.+..+.. .. . -.+.+++....+..++
T Consensus 40 ~~~~~~~~~~i~~~~~~~~dgiIi~~~~~~~~~~~i~~~-~~~~ipvv~~~~~~~-~~-~--~~V~~d~~~~g~~~~~ 112 (271)
T cd06321 40 DYDLNKQVSQIDNFIAAKVDLILLNAVDSKGIAPAVKRA-QAAGIVVVAVDVAAE-GA-D--ATVTTDNVQAGEISCQ 112 (271)
T ss_pred CCCHHHHHHHHHHHHHhCCCEEEEeCCChhHhHHHHHHH-HHCCCeEEEecCCCC-Cc-c--ceeeechHHHHHHHHH
Confidence 3344432333344456666444 455543 235666665 457999999876432 11 1 2345565555555555
No 101
>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A ....
Probab=70.39 E-value=4.4 Score=27.33 Aligned_cols=32 Identities=19% Similarity=0.247 Sum_probs=28.0
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEeeC
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMESRL 62 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~ 62 (124)
+++|.||+.+-=+.+.+.+++.+++|++....
T Consensus 1 vI~I~G~~gsGKST~a~~La~~~~~~~i~~d~ 32 (121)
T PF13207_consen 1 VIIISGPPGSGKSTLAKELAERLGFPVISMDD 32 (121)
T ss_dssp EEEEEESTTSSHHHHHHHHHHHHTCEEEEEHH
T ss_pred CEEEECCCCCCHHHHHHHHHHHHCCeEEEecc
Confidence 57899999988888999999999999997653
No 102
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=69.03 E-value=46 Score=24.90 Aligned_cols=91 Identities=13% Similarity=0.094 Sum_probs=50.3
Q ss_pred EecCCchHHHHHHHHHhhccCcEEEEc-CCC-CCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHH
Q psy17128 10 VNVNTGLEEEESVMCRQLQNGVQALFG-PSD-ALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFK 87 (124)
Q Consensus 10 i~~~~~f~~~~~~~C~ll~~GV~AI~G-P~s-~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~ 87 (124)
.....+.+...+.+-.++.+++-+|+. |.+ ....+.+.. +.+.+||.|.+..+... ..+ -.+.+++....+..+
T Consensus 35 ~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~~~~~~~~i~~-~~~~~ipvV~~~~~~~~--~~~-~~V~~d~~~~g~~~~ 110 (273)
T cd06305 35 YDAGGDDAKQADQIDQAIAQKVDAIIIQHGRAEVLKPWVKR-ALDAGIPVVAFDVDSDN--PKV-NNTTQDDYSLARLSL 110 (273)
T ss_pred ECCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhhHHHHHH-HHHcCCCEEEecCCCCC--Ccc-ceeeechHHHHHHHH
Confidence 333334444234445566778887775 333 233455555 56789999988654321 111 234556555665555
Q ss_pred hHHHhhhhHHHHhhHHHHHHHhh-cCceEEEEEee
Q psy17128 88 DVIRFLNWTKKLLNAAFKDVIRF-LNWTKVAIVYE 121 (124)
Q Consensus 88 d~~~~~~~~~~~l~~a~~~li~~-~~W~~v~ivYe 121 (124)
+. |++. -|-+++.++..
T Consensus 111 ~~-----------------l~~~~~g~~~i~~i~~ 128 (273)
T cd06305 111 DQ-----------------LVKDLGGKGNVGYVNV 128 (273)
T ss_pred HH-----------------HHHHhCCCCCEEEEEc
Confidence 52 4443 36778777753
No 103
>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=68.83 E-value=45 Score=24.73 Aligned_cols=56 Identities=13% Similarity=0.159 Sum_probs=31.5
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEEEEcCC-CCCcHHHHHHhhccCCCceEEeeC
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQALFGPS-DALLGPHVQSICEALDVPHMESRL 62 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~-s~~~~~~vqsic~~~~IP~i~~~~ 62 (124)
.+......++.+...+.+-+++++|+-||+... .......++ .....+||.|.+..
T Consensus 31 ~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~-~~~~~~ipvV~~~~ 87 (268)
T cd06289 31 TVFLANSGEDVERQEQLLSTMLEHGVAGIILCPAAGTSPDLLK-RLAESGIPVVLVAR 87 (268)
T ss_pred eEEEecCCCChHHHHHHHHHHHHcCCCEEEEeCCCCccHHHHH-HHHhcCCCEEEEec
Confidence 333333344445434445556677887776533 333334444 45678999998754
No 104
>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=68.04 E-value=49 Score=24.82 Aligned_cols=76 Identities=16% Similarity=0.191 Sum_probs=41.9
Q ss_pred ecCCchHHHHHHHHHhhccCcEEEE-cCCCCC-cHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 11 NVNTGLEEEESVMCRQLQNGVQALF-GPSDAL-LGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 11 ~~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~~-~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
....+.....+.+-.++++++-+|+ .|.... ....++. +...+||+|.+.......... .-....++....+..++
T Consensus 37 ~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~-l~~~~iPvv~~~~~~~~~~~~-~~~V~~d~~~~g~~~~~ 114 (272)
T cd06301 37 DAKNDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKA-ANAAGIPLVYVNRRPENAPKG-VAYVGSDEVVAGRLQAE 114 (272)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHH-HHHCCCeEEEecCCCCCCCCe-eEEEecChHHHHHHHHH
Confidence 3333444424445555677777665 565533 3344444 688999999876543211022 23466776666666666
No 105
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=67.78 E-value=59 Score=25.68 Aligned_cols=74 Identities=11% Similarity=0.085 Sum_probs=45.9
Q ss_pred CchHHHHHHHHHhhccCcEEEE-cCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 14 TGLEEEESVMCRQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 14 ~~f~~~~~~~C~ll~~GV~AI~-GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
.+.....+.+-+++.+|+-||+ .|.++....-.-.-....+||.|.+..+.... ......+-.++....+..++
T Consensus 75 ~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~~~~~-~~~~~~vg~dn~~~G~~~a~ 149 (322)
T COG1879 75 NDVAKQIAQIEDLIAQGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSDIPGP-GDRVAYVGSDNYKAGRLAAE 149 (322)
T ss_pred cChHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecCCCCC-CceeEEEecCcHHHHHHHHH
Confidence 4444435566777888886655 77776665555566788899999987654322 22334444465555555555
No 106
>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=66.35 E-value=52 Score=24.55 Aligned_cols=93 Identities=6% Similarity=0.035 Sum_probs=49.2
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEEEE-cCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHH
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNA 84 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~ 84 (124)
++.....+++-+...+....++++++-+|+ .|.... ...+.. +...+||.+.+....... ..+ -...+++...++
T Consensus 31 ~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~-~~~~~~-~~~~~ipvV~i~~~~~~~-~~~-~~v~~d~~~~~~ 106 (270)
T cd06296 31 DVVLSESGRRTSPERQWVERLSARRTDGVILVTPELT-SAQRAA-LRRTGIPFVVVDPAGDPD-ADV-PSVGATNWAGGL 106 (270)
T ss_pred eEEEecCCCchHHHHHHHHHHHHcCCCEEEEecCCCC-hHHHHH-HhcCCCCEEEEecccCCC-CCC-CEEEeCcHHHHH
Confidence 333344443334323344555567777665 444432 344444 577899999987543211 111 235566655555
Q ss_pred HHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEe
Q psy17128 85 AFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVY 120 (124)
Q Consensus 85 Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivY 120 (124)
..++. ++ ..|+++++++-
T Consensus 107 ~a~~~-----------------l~-~~g~~~i~~i~ 124 (270)
T cd06296 107 AATEH-----------------LL-ELGHRRIGFIT 124 (270)
T ss_pred HHHHH-----------------HH-HcCCCcEEEEc
Confidence 55552 33 34788888774
No 107
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=65.46 E-value=6.5 Score=29.89 Aligned_cols=29 Identities=21% Similarity=0.497 Sum_probs=23.0
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
+.|+||+.+-=+-.-+.+++.+++||++.
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 57899999655555577788899999985
No 108
>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=65.23 E-value=56 Score=24.49 Aligned_cols=73 Identities=8% Similarity=0.157 Sum_probs=37.7
Q ss_pred CCchHHHHHHHHHhhccCcEEE-EcCCCCCc-HHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 13 NTGLEEEESVMCRQLQNGVQAL-FGPSDALL-GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 13 ~~~f~~~~~~~C~ll~~GV~AI-~GP~s~~~-~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
..+-+...+.+=+++.+++-+| ++|..... ...+ ..+.+.++|.|.+...... ..+.-.+.+++....+..+.
T Consensus 38 ~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~l-~~~~~~~ipvV~~~~~~~~--~~~~~~v~~d~~~~g~~~~~ 112 (277)
T cd06319 38 ENSAKKELENLRTAIDKGVSGIIISPTNSSAAVTLL-KLAAQAKIPVVIADIGAEG--GDYVSYIKSDNYEGAYDLGK 112 (277)
T ss_pred CCCHHHHHHHHHHHHhcCCCEEEEcCCchhhhHHHH-HHHHHCCCCEEEEecCCCC--CceEEEEeeccHHHHHHHHH
Confidence 3333332333445566777776 47655432 3344 4466789999987643221 12222344555544444444
No 109
>PRK08118 topology modulation protein; Reviewed
Probab=64.75 E-value=7.4 Score=28.88 Aligned_cols=30 Identities=17% Similarity=0.228 Sum_probs=26.4
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+.|+||+.+.=+-.-+.+++.+++|++++.
T Consensus 4 I~I~G~~GsGKSTlak~L~~~l~~~~~~lD 33 (167)
T PRK08118 4 IILIGSGGSGKSTLARQLGEKLNIPVHHLD 33 (167)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCCceecc
Confidence 689999998888888999999999999764
No 110
>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=64.29 E-value=56 Score=24.18 Aligned_cols=80 Identities=8% Similarity=0.071 Sum_probs=45.0
Q ss_pred HHHHHHhhccCcEEEE-cCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHHH
Q psy17128 20 ESVMCRQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKK 98 (124)
Q Consensus 20 ~~~~C~ll~~GV~AI~-GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~ 98 (124)
.+.+..++++|+-+|+ .+.+. ....+.. +...+||.|.+......... -...+++...++..++
T Consensus 44 ~~~i~~~~~~~vdgiii~~~~~-~~~~~~~-~~~~~ipvV~~~~~~~~~~~---~~v~~d~~~~g~~~~~---------- 108 (266)
T cd06278 44 DAALRQLLQYRVDGVIVTSGTL-SSELAEE-CRRNGIPVVLINRYVDGPGV---DAVCSDNYEAGRLAAE---------- 108 (266)
T ss_pred HHHHHHHHHcCCCEEEEecCCC-CHHHHHH-HhhcCCCEEEECCccCCCCC---CEEEEChHHHHHHHHH----------
Confidence 4445556677886666 34332 2344443 56689999998654321111 2345566666666666
Q ss_pred HhhHHHHHHHhhcCceEEEEEeec
Q psy17128 99 LLNAAFKDVIRFLNWTKVAIVYEE 122 (124)
Q Consensus 99 ~l~~a~~~li~~~~W~~v~ivYe~ 122 (124)
.+...|=+++.++..+
T Consensus 109 --------~l~~~g~~~i~~i~~~ 124 (266)
T cd06278 109 --------LLLAKGCRRIAFIGGP 124 (266)
T ss_pred --------HHHHCCCceEEEEcCC
Confidence 2233366788877643
No 111
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=63.30 E-value=60 Score=24.21 Aligned_cols=50 Identities=12% Similarity=0.252 Sum_probs=28.9
Q ss_pred CCchHHHHHHHHHhhccCcEEEE-cCCCCC-cHHHHHHhhccCCCceEEeeCC
Q psy17128 13 NTGLEEEESVMCRQLQNGVQALF-GPSDAL-LGPHVQSICEALDVPHMESRLD 63 (124)
Q Consensus 13 ~~~f~~~~~~~C~ll~~GV~AI~-GP~s~~-~~~~vqsic~~~~IP~i~~~~~ 63 (124)
..+.+...+.+=.++.+++-+|+ .|.+.. ..+.++. ....+||+|.+..+
T Consensus 39 ~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~-~~~~~iPvV~~~~~ 90 (275)
T cd06317 39 NGDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRK-AKQAGIPVVITNSN 90 (275)
T ss_pred CcCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHH-HHHCCCcEEEeCCC
Confidence 33444423334445567887774 554432 3456655 46799999987643
No 112
>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=62.37 E-value=64 Score=24.21 Aligned_cols=38 Identities=5% Similarity=0.128 Sum_probs=23.6
Q ss_pred HHH-HhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeC
Q psy17128 22 VMC-RQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRL 62 (124)
Q Consensus 22 ~~C-~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~ 62 (124)
... .+.++++-+|++..+.. ...+. ....++|+|.+..
T Consensus 51 ~~~~~l~~~~vd~iI~~~~~~-~~~~~--~~~~~iPvV~~~~ 89 (281)
T cd06325 51 TIARKFVADKPDLIVAIATPA-AQAAA--NATKDIPIVFTAV 89 (281)
T ss_pred HHHHHHHhcCCCEEEEcCcHH-HHHHH--HcCCCCCEEEEec
Confidence 344 44467898888865432 22332 4567999998753
No 113
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=60.33 E-value=30 Score=24.41 Aligned_cols=42 Identities=14% Similarity=0.228 Sum_probs=31.9
Q ss_pred HHHHhhccCcEEEE---cCCCCCcHHHHHHhhccCCCceEEeeCC
Q psy17128 22 VMCRQLQNGVQALF---GPSDALLGPHVQSICEALDVPHMESRLD 63 (124)
Q Consensus 22 ~~C~ll~~GV~AI~---GP~s~~~~~~vqsic~~~~IP~i~~~~~ 63 (124)
-+=++.+.|+.|+. |+.-...-..+-..|++.++|.+...++
T Consensus 64 ~i~~L~~~~~agL~i~~~~~~~~iP~~~i~~A~~~~lPli~ip~~ 108 (123)
T PF07905_consen 64 FIRELAEKGAAGLGIKTGRYLDEIPEEIIELADELGLPLIEIPWE 108 (123)
T ss_pred HHHHHHHCCCeEEEEeccCccccCCHHHHHHHHHcCCCEEEeCCC
Confidence 34444557877775 6666777788889999999999998764
No 114
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=60.26 E-value=78 Score=24.47 Aligned_cols=66 Identities=12% Similarity=0.086 Sum_probs=37.2
Q ss_pred HHHHHHhhccCcE-EEEcCCCCCcH-HHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 20 ESVMCRQLQNGVQ-ALFGPSDALLG-PHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 20 ~~~~C~ll~~GV~-AI~GP~s~~~~-~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
.+.+-.++.+++- .|++|.+.... +.+ ..+.+.++|.|.+...... ....-.+.++...-++..++
T Consensus 72 ~~~~~~l~~~~~dgiii~~~~~~~~~~~l-~~~~~~~ipvV~~~~~~~~--~~~~~~V~~D~~~~g~~~~~ 139 (295)
T PRK10653 72 LANVQDLTVRGTKILLINPTDSDAVGNAV-KMANQANIPVITLDRGATK--GEVVSHIASDNVAGGKMAGD 139 (295)
T ss_pred HHHHHHHHHcCCCEEEEcCCChHHHHHHH-HHHHHCCCCEEEEccCCCC--CceeeEEccChHHHHHHHHH
Confidence 3445556667774 45577654332 344 4566789999988643211 12223456776665565555
No 115
>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.
Probab=58.79 E-value=12 Score=25.77 Aligned_cols=31 Identities=16% Similarity=0.338 Sum_probs=27.0
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+++|.||..+.-+.+-..++..+++|++...
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~~~~~~~~~ 31 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKLGLPYLDTG 31 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence 5789999998888888889999999999754
No 116
>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=57.28 E-value=80 Score=23.70 Aligned_cols=51 Identities=20% Similarity=0.238 Sum_probs=31.1
Q ss_pred cCCchHHHHHHHHHhhccCcEEEE-cCCCCC----cHHHHHHhhccCCCceEEeeCC
Q psy17128 12 VNTGLEEEESVMCRQLQNGVQALF-GPSDAL----LGPHVQSICEALDVPHMESRLD 63 (124)
Q Consensus 12 ~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~~----~~~~vqsic~~~~IP~i~~~~~ 63 (124)
..++.....+.+..+++++|-+|+ .|.... ....++. +.+.+||.|.+...
T Consensus 37 ~~~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~-~~~~~ipvV~~~~~ 92 (273)
T cd01541 37 TNNDPERERKCLENMLSQGIDGLIIEPTKSALPNPNIDLYLK-LEKLGIPYVFINAS 92 (273)
T ss_pred CCCCHHHHHHHHHHHHHcCCCEEEEeccccccccccHHHHHH-HHHCCCCEEEEecC
Confidence 344454434556677778887775 554321 2245555 47789999988654
No 117
>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=56.73 E-value=80 Score=23.52 Aligned_cols=94 Identities=13% Similarity=0.046 Sum_probs=47.5
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEEEE-cCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHH
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNA 84 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~ 84 (124)
.+.....+++.+...+.+-.+..+++-+|+ -|.... ...+..+-...++|++.+..........+ ...++....+
T Consensus 31 ~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~-~~~~~~l~~~~~ipvV~i~~~~~~~~~~~---V~~d~~~~~~ 106 (269)
T cd06275 31 NLILCNTEGDPERQRSYLRMLAQKRVDGLLVMCSEYD-QPLLAMLERYRHIPMVVMDWGPEDDFADK---IQDNSEEGGY 106 (269)
T ss_pred EEEEEeCCCChHHHHHHHHHHHHcCCCEEEEecCCCC-hHHHHHHHhcCCCCEEEEecccCCCCCCe---EeeCcHHHHH
Confidence 333444455555534445556666665544 333322 23333333456999998876432111112 3345444555
Q ss_pred HHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEee
Q psy17128 85 AFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYE 121 (124)
Q Consensus 85 Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe 121 (124)
..++ .+...|=++++++..
T Consensus 107 ~~~~------------------~l~~~G~~~i~~i~~ 125 (269)
T cd06275 107 LATR------------------HLIELGHRRIGCITG 125 (269)
T ss_pred HHHH------------------HHHHCCCceEEEEeC
Confidence 5555 233346677777753
No 118
>KOG1055|consensus
Probab=54.82 E-value=7.4 Score=36.86 Aligned_cols=81 Identities=21% Similarity=0.244 Sum_probs=50.1
Q ss_pred HHHHHHhhccC--cEEEEcCCCCCcHHHHHHhhccCCCceEEe-eCC---CCC-CCC--ceEEEeecCHHHHHHHHHhHH
Q psy17128 20 ESVMCRQLQNG--VQALFGPSDALLGPHVQSICEALDVPHMES-RLD---LEL-NSK--EFSVNLYPSQKLLNAAFKDVI 90 (124)
Q Consensus 20 ~~~~C~ll~~G--V~AI~GP~s~~~~~~vqsic~~~~IP~i~~-~~~---~~~-~~~--~f~vnl~P~~~~~~~Ai~d~~ 90 (124)
++.+-+++-.| -+.++|. -+.-... ++.....|++.. ++. +-. ++. +..++.+|+....+....-
T Consensus 101 ~k~~fdll~~~p~k~mll~G-Cs~v~~~---iaea~~~w~l~~lsy~~ssp~ls~r~rfp~~frt~PS~~~~np~rl~-- 174 (865)
T KOG1055|consen 101 TKALYDLLYNGPNKLMLLGG-CSSVTTL---IAEAAKMWNLIVLSYGASSPALSNRKRFPTFFRTHPSANAHNPTRIK-- 174 (865)
T ss_pred HHHHHHHHHcCCchheeccC-CCCcchH---HHhhccccceeeecccCCCccccchhhcchhhhcCCccccCCcceee--
Confidence 56677788776 4555665 2222222 466777786643 332 111 233 3478999996654444444
Q ss_pred HhhhhHHHHhhHHHHHHHhhcCceEEEEEeec
Q psy17128 91 RFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEE 122 (124)
Q Consensus 91 ~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~ 122 (124)
+.+.|+|+++..++..
T Consensus 175 ----------------l~~~~~w~rvgt~~q~ 190 (865)
T KOG1055|consen 175 ----------------LLKKFGWKRVATLQQT 190 (865)
T ss_pred ----------------echhcCcceeeeeeee
Confidence 8899999999999854
No 119
>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=52.10 E-value=1e+02 Score=23.26 Aligned_cols=73 Identities=8% Similarity=0.040 Sum_probs=40.1
Q ss_pred chHHHHHHHHHhhccCcEEEEc-CCCCC-cHHHHHHhhccCCCceEEeeCCCCC-CCCceEEEeecCHHHHHHHHHh
Q psy17128 15 GLEEEESVMCRQLQNGVQALFG-PSDAL-LGPHVQSICEALDVPHMESRLDLEL-NSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 15 ~f~~~~~~~C~ll~~GV~AI~G-P~s~~-~~~~vqsic~~~~IP~i~~~~~~~~-~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
+.+...+.+=+++++|+-+|+. |.+.. ....++. +.+.+||++.+..+... ......-....++....+++++
T Consensus 42 ~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~-~~~~~ipvV~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~ 117 (271)
T cd06312 42 DVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKR-AVAAGIPVISFNAGDPKYKELGALAYVGQDEYAAGEAAGE 117 (271)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHH-HHHCCCeEEEeCCCCCccccccceEEeccChHHHHHHHHH
Confidence 4444233344455678777774 43322 2345555 46679999988653321 0112223455677777777777
No 120
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=51.53 E-value=37 Score=29.14 Aligned_cols=63 Identities=10% Similarity=0.099 Sum_probs=41.4
Q ss_pred EEEecCCchHHHHHHHHHhhccCcEEE-EcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceE
Q psy17128 8 VEVNVNTGLEEEESVMCRQLQNGVQAL-FGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFS 72 (124)
Q Consensus 8 ~~i~~~~~f~~~~~~~C~ll~~GV~AI-~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~ 72 (124)
..-+.+.+++. ..+-.++++|+-++ ++|.++....-+-.-+...+||+|.+.+--......|.
T Consensus 61 q~A~~~~~~Q~--~qien~i~qg~~vlvi~a~d~~~l~~~i~~A~~~gikViaYDRlI~n~dvd~Y 124 (341)
T COG4213 61 QSADGDEEKQL--AQIENMINQGVKVLVIGAIDGGVLSNAVEKAKSEGIKVIAYDRLINNADVDFY 124 (341)
T ss_pred hhhccChhHHH--HHHHHHHhcCCCEEEEEeccchhHHHHHHHHHHcCCeEEEeecccccCCccEE
Confidence 33444555554 45778899997554 59988666665556688999999998764332333343
No 121
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=51.46 E-value=1.2e+02 Score=23.84 Aligned_cols=76 Identities=11% Similarity=0.097 Sum_probs=40.3
Q ss_pred HHHhhccCcEEEE-cCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhh
Q psy17128 23 MCRQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLN 101 (124)
Q Consensus 23 ~C~ll~~GV~AI~-GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~ 101 (124)
+-.++.+++-+|+ -|........++. +...+||.|.+..........+ ..+++..-.+..++
T Consensus 113 ~~~l~~~~vdgiIi~~~~~~~~~~~~~-l~~~~iPvV~~~~~~~~~~~~~---V~~D~~~~~~~a~~------------- 175 (342)
T PRK10014 113 FSTLLNQGVDGVVIAGAAGSSDDLREM-AEEKGIPVVFASRASYLDDVDT---VRPDNMQAAQLLTE------------- 175 (342)
T ss_pred HHHHHhCCCCEEEEeCCCCCcHHHHHH-HhhcCCCEEEEecCCCCCCCCE---EEeCCHHHHHHHHH-------------
Confidence 3344566766655 3333333344444 5567999998865322111122 44555544555555
Q ss_pred HHHHHHHhhcCceEEEEEe
Q psy17128 102 AAFKDVIRFLNWTKVAIVY 120 (124)
Q Consensus 102 ~a~~~li~~~~W~~v~ivY 120 (124)
.+...|.+++.++-
T Consensus 176 -----~L~~~G~~~I~~i~ 189 (342)
T PRK10014 176 -----HLIRNGHQRIAWLG 189 (342)
T ss_pred -----HHHHCCCCEEEEEc
Confidence 23335888887773
No 122
>KOG3843|consensus
Probab=50.97 E-value=21 Score=30.56 Aligned_cols=53 Identities=19% Similarity=0.342 Sum_probs=36.6
Q ss_pred eEEEecCCchHHHHHHHHHhhcc-C---cE------EEEcCCCCCcHHHHHHhhccCCCceEE
Q psy17128 7 LVEVNVNTGLEEEESVMCRQLQN-G---VQ------ALFGPSDALLGPHVQSICEALDVPHME 59 (124)
Q Consensus 7 I~~i~~~~~f~~~~~~~C~ll~~-G---V~------AI~GP~s~~~~~~vqsic~~~~IP~i~ 59 (124)
|++|.-.|+...--+++-..+++ | +. ..|.|.++.-.+.++.||...+|||+-
T Consensus 130 ie~i~d~d~l~tdleav~~~iee~g~dcilci~sttscfapr~pd~leaiaaica~~diphiv 192 (432)
T KOG3843|consen 130 IENILDGDELITDLEAVEAIIEELGEDCILCIHSTTSCFAPRSPDNLEAIAAICAAHDIPHIV 192 (432)
T ss_pred eeccccchHHHHhHHHHHHHHHHhCCceEEEEeecccccCCCCCchHHHHHHHHHccCchhhh
Confidence 45566666655433344333332 3 33 347899999999999999999999994
No 123
>PLN02881 tetrahydrofolylpolyglutamate synthase
Probab=49.52 E-value=47 Score=29.91 Aligned_cols=47 Identities=17% Similarity=0.106 Sum_probs=40.0
Q ss_pred chHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 15 GLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 15 ~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+.+..+..=..+++.|+-++.+|+.+...+.++..|.++++|...+.
T Consensus 199 Tle~IA~~KagI~k~g~p~vt~~q~~ea~~vl~~~A~e~~a~l~~v~ 245 (530)
T PLN02881 199 TLGKIAGEKAGIFKPGVPAFTVPQPDEAMRVLEERASELGVPLQVVE 245 (530)
T ss_pred CHHHHHHHHHHHHhcCCCEEEeCCChHHHHHHHHHHHHhCCcEEEec
Confidence 56666667788899999999999998888999999999999977553
No 124
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=48.88 E-value=66 Score=22.78 Aligned_cols=74 Identities=14% Similarity=0.125 Sum_probs=36.5
Q ss_pred HHHHHHhhccC---cEEEEcCCC----CCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHH-HHHHhHHH
Q psy17128 20 ESVMCRQLQNG---VQALFGPSD----ALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLN-AAFKDVIR 91 (124)
Q Consensus 20 ~~~~C~ll~~G---V~AI~GP~s----~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~-~Ai~d~~~ 91 (124)
...++++.++| .+.+-|... ..+++.++.++-..+||--.+. +.-.+.++..+ +..++
T Consensus 26 ~~~a~~L~~~g~~~~il~SGg~~~~~~~~ea~~~~~~l~~~gvp~~~I~-----------~e~~s~~T~ena~~~~~--- 91 (155)
T PF02698_consen 26 LDEAARLYKAGYAPRILFSGGYGHGDGRSEAEAMRDYLIELGVPEERII-----------LEPKSTNTYENARFSKR--- 91 (155)
T ss_dssp HHHHHHHHH-HHT--EEEE--SSTTHTS-HHHHHHHHHHHT---GGGEE-----------EE----SHHHHHHHHHH---
T ss_pred HHHHHHHHhcCCCCeEEECCCCCCCCCCCHHHHHHHHHHhcccchheeE-----------ccCCCCCHHHHHHHHHH---
Confidence 67889999865 333335333 4689999999999999922211 11112222222 22333
Q ss_pred hhhhHHHHhhHHHHHHHhhcCceEEEEEeec
Q psy17128 92 FLNWTKKLLNAAFKDVIRFLNWTKVAIVYEE 122 (124)
Q Consensus 92 ~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~ 122 (124)
+++..||+++.+|-+.
T Consensus 92 ---------------~~~~~~~~~iilVT~~ 107 (155)
T PF02698_consen 92 ---------------LLKERGWQSIILVTSP 107 (155)
T ss_dssp ---------------HHHT-SSS-EEEE--C
T ss_pred ---------------HHHhhcCCeEEEECCH
Confidence 8899999999988654
No 125
>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=47.94 E-value=1.2e+02 Score=22.82 Aligned_cols=75 Identities=13% Similarity=0.213 Sum_probs=39.0
Q ss_pred ecCCchHHHHHHHHHhhccCcEEEE-cCCCC-CcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 11 NVNTGLEEEESVMCRQLQNGVQALF-GPSDA-LLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 11 ~~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~-~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
...++.+...+.+-+++.+++-+|+ .|... .....+.. +.+.+||.+.+..... ...+.-...+++....+..++
T Consensus 37 ~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~~~~-~~~~~ipvV~~~~~~~--~~~~~~~V~~d~~~~g~~~~~ 113 (270)
T cd06308 37 DAADDNSKQVADIENFIRQGVDLLIISPNEAAPLTPVVEE-AYRAGIPVILLDRKIL--SDKYTAYIGADNYEIGRQAGE 113 (270)
T ss_pred cCCCCHHHHHHHHHHHHHhCCCEEEEecCchhhchHHHHH-HHHCCCCEEEeCCCCC--CccceEEeecCcHHHHHHHHH
Confidence 3344455434445555666655543 44332 22444555 4568999998864322 112223455666555555555
No 126
>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family. This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.
Probab=47.26 E-value=25 Score=25.50 Aligned_cols=31 Identities=19% Similarity=0.324 Sum_probs=24.8
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
|+.|+||..+-=+-.-+.+++.++++|++..
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~~~~~is~~ 31 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENFGFTHLSAG 31 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCCeEEECC
Confidence 5688998886666666788999999999863
No 127
>PRK07261 topology modulation protein; Provisional
Probab=45.68 E-value=27 Score=25.86 Aligned_cols=29 Identities=14% Similarity=0.205 Sum_probs=25.0
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
++|+||+.+.=+-..+.++..+++|++..
T Consensus 3 i~i~G~~GsGKSTla~~l~~~~~~~~i~~ 31 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQHYNCPVLHL 31 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCeEec
Confidence 68999999777777888999999999975
No 128
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=45.37 E-value=39 Score=22.45 Aligned_cols=31 Identities=19% Similarity=0.280 Sum_probs=27.3
Q ss_pred EEEcCCCCCcHHHHHHhhccCCCceEEeeCC
Q psy17128 33 ALFGPSDALLGPHVQSICEALDVPHMESRLD 63 (124)
Q Consensus 33 AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~ 63 (124)
.+.||...-=+..++.+++.+++|++.+...
T Consensus 2 ll~G~~G~GKT~l~~~la~~l~~~~~~i~~~ 32 (132)
T PF00004_consen 2 LLHGPPGTGKTTLARALAQYLGFPFIEIDGS 32 (132)
T ss_dssp EEESSTTSSHHHHHHHHHHHTTSEEEEEETT
T ss_pred EEECcCCCCeeHHHHHHHhhccccccccccc
Confidence 5789999888899999999999999988754
No 129
>PRK14530 adenylate kinase; Provisional
Probab=44.95 E-value=27 Score=26.48 Aligned_cols=30 Identities=23% Similarity=0.369 Sum_probs=26.1
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
.+.|+||..+-=+-..+.++..+++|||+.
T Consensus 5 ~I~i~G~pGsGKsT~~~~La~~~~~~~i~~ 34 (215)
T PRK14530 5 RILLLGAPGAGKGTQSSNLAEEFGVEHVTT 34 (215)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence 578899999887778888999999999976
No 130
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=44.81 E-value=1.1e+02 Score=26.09 Aligned_cols=22 Identities=14% Similarity=0.357 Sum_probs=14.6
Q ss_pred HHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEE
Q psy17128 82 LNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAI 118 (124)
Q Consensus 82 ~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~i 118 (124)
++++..+.+ .+++.+|...+.|
T Consensus 128 lS~at~~~i---------------~~ldAaG~DvIIV 149 (323)
T COG1703 128 LSRATREAI---------------KLLDAAGYDVIIV 149 (323)
T ss_pred hhHHHHHHH---------------HHHHhcCCCEEEE
Confidence 677777743 3677777776654
No 131
>COG1560 HtrB Lauroyl/myristoyl acyltransferase [Cell envelope biogenesis, outer membrane]
Probab=44.11 E-value=1.2e+02 Score=25.24 Aligned_cols=84 Identities=10% Similarity=0.145 Sum_probs=47.4
Q ss_pred HHHHHHhhccC-cEEEE-----cCCCC----------CcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHH-H
Q psy17128 20 ESVMCRQLQNG-VQALF-----GPSDA----------LLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKL-L 82 (124)
Q Consensus 20 ~~~~C~ll~~G-V~AI~-----GP~s~----------~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~-~ 82 (124)
.+.+++.+++| ++.++ ||..+ .+...+..++...+.|++-+..........|.+.++|..++ .
T Consensus 184 ir~li~~Lk~G~~v~~lpDqd~~~~~~vfvpFFg~~a~T~t~~~~LA~~~~a~vip~~~~r~~~g~~y~l~i~p~~~~~~ 263 (308)
T COG1560 184 IRQLIKALKQGEAVGYLPDQDYGPGESVFVPFFGVPAATTTGPAKLARLTGAAVVPVFPVRNPDGSGYTLHIHPPMTDDP 263 (308)
T ss_pred HHHHHHHHhcCCeEEEecCcccCCCCCeEeccCCCcccccchHHHHHHHhCCCEEEEEEEEeCCCCeEEEEEeccccCCC
Confidence 67789999875 66565 33333 33445556666666666654433223455689999993221 1
Q ss_pred HHHHHhHHHhhhhHHHHhhHHHHHHHhh
Q psy17128 83 NAAFKDVIRFLNWTKKLLNAAFKDVIRF 110 (124)
Q Consensus 83 ~~Ai~d~~~~~~~~~~~l~~a~~~li~~ 110 (124)
+.=+.. ++..++.-+.+.|+.
T Consensus 264 ~~D~~~-------~a~~mn~~~E~~I~~ 284 (308)
T COG1560 264 SEDVEA-------DAQRMNDFVEKWIRA 284 (308)
T ss_pred CCCHHH-------HHHHHHHHHHHHHHc
Confidence 110111 234577778888764
No 132
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=42.55 E-value=45 Score=25.41 Aligned_cols=42 Identities=12% Similarity=0.219 Sum_probs=33.1
Q ss_pred HHHHHhhc--cCcEEEEcCCCC--CcHHHHHHhhccCCCceEEeeC
Q psy17128 21 SVMCRQLQ--NGVQALFGPSDA--LLGPHVQSICEALDVPHMESRL 62 (124)
Q Consensus 21 ~~~C~ll~--~GV~AI~GP~s~--~~~~~vqsic~~~~IP~i~~~~ 62 (124)
+.+.++++ +..+.|+|+... ...+.+..+++.+++|+++...
T Consensus 18 ~~aa~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~ 63 (162)
T TIGR00315 18 KLVAMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATAD 63 (162)
T ss_pred HHHHHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCc
Confidence 34455564 579999998774 7889999999999999997654
No 133
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=41.14 E-value=38 Score=25.08 Aligned_cols=35 Identities=17% Similarity=0.188 Sum_probs=29.5
Q ss_pred ccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeC
Q psy17128 28 QNGVQALFGPSDALLGPHVQSICEALDVPHMESRL 62 (124)
Q Consensus 28 ~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~ 62 (124)
+...++++||..+.=+.+-+.+++.+++|++....
T Consensus 3 ~~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D~ 37 (172)
T PRK05057 3 EKRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSDQ 37 (172)
T ss_pred CCCEEEEECCCCcCHHHHHHHHHHHcCCcEEECCc
Confidence 44578999999988888889999999999997653
No 134
>TIGR01351 adk adenylate kinases. Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.
Probab=40.83 E-value=33 Score=25.90 Aligned_cols=29 Identities=28% Similarity=0.581 Sum_probs=23.6
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
+.|+||..+--+-.-+.++..+++|||+.
T Consensus 2 I~i~G~pGsGKsT~a~~La~~~g~~~is~ 30 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEKYGLPHIST 30 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCeeeh
Confidence 46889888766666777899999999986
No 135
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=40.41 E-value=1.6e+02 Score=22.12 Aligned_cols=79 Identities=8% Similarity=0.000 Sum_probs=43.9
Q ss_pred HHHHHhh-ccCcEEEE-cCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHHH
Q psy17128 21 SVMCRQL-QNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKK 98 (124)
Q Consensus 21 ~~~C~ll-~~GV~AI~-GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~ 98 (124)
+.+.+.+ ++++-+|+ -|.... ...++. +...+||.+.+..+.+. ..+ -...+++....+..+.
T Consensus 54 ~~~~~~l~~~~~dgiii~~~~~~-~~~~~~-~~~~~ipvV~~~~~~~~--~~~-~~V~~d~~~~g~~~a~---------- 118 (275)
T cd06295 54 DWLARYLASGRADGVILIGQHDQ-DPLPER-LAETGLPFVVWGRPLPG--QPY-CYVGSDNVGGGRLATE---------- 118 (275)
T ss_pred HHHHHHHHhCCCCEEEEeCCCCC-hHHHHH-HHhCCCCEEEECCccCC--CCC-CEEEECcHHHHHHHHH----------
Confidence 3445555 35666554 232222 244554 57789999988654321 122 2355666666666666
Q ss_pred HhhHHHHHHHhhcCceEEEEEeec
Q psy17128 99 LLNAAFKDVIRFLNWTKVAIVYEE 122 (124)
Q Consensus 99 ~l~~a~~~li~~~~W~~v~ivYe~ 122 (124)
.+...|.+++.++..+
T Consensus 119 --------~l~~~g~~~i~~i~~~ 134 (275)
T cd06295 119 --------HLLARGRRRIAFLGGP 134 (275)
T ss_pred --------HHHHCCCCeEEEEcCC
Confidence 3334578888887643
No 136
>PRK06217 hypothetical protein; Validated
Probab=40.40 E-value=37 Score=25.03 Aligned_cols=30 Identities=23% Similarity=0.397 Sum_probs=25.5
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+.|+|++.+-=+.+-+.++..+++||++..
T Consensus 4 I~i~G~~GsGKSTla~~L~~~l~~~~~~~D 33 (183)
T PRK06217 4 IHITGASGSGTTTLGAALAERLDIPHLDTD 33 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCcEEEcC
Confidence 678999887777788889999999999764
No 137
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=39.31 E-value=1.2e+02 Score=24.27 Aligned_cols=43 Identities=14% Similarity=0.386 Sum_probs=32.8
Q ss_pred HHHHHhh-ccCcEEEEcCCCCC---cHHHHHHhhccCCCceEEeeCC
Q psy17128 21 SVMCRQL-QNGVQALFGPSDAL---LGPHVQSICEALDVPHMESRLD 63 (124)
Q Consensus 21 ~~~C~ll-~~GV~AI~GP~s~~---~~~~vqsic~~~~IP~i~~~~~ 63 (124)
..+.+.+ ++++-+|+--+.+- .+..+...|.+++||++-+.++
T Consensus 55 ~~l~~~l~~~~i~~VIDATHPfA~~is~~a~~ac~~~~ipyiR~eR~ 101 (248)
T PRK08057 55 EGLAAYLREEGIDLVIDATHPYAAQISANAAAACRALGIPYLRLERP 101 (248)
T ss_pred HHHHHHHHHCCCCEEEECCCccHHHHHHHHHHHHHHhCCcEEEEeCC
Confidence 4455666 47999999877754 4556778899999999988654
No 138
>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=38.94 E-value=1.6e+02 Score=21.93 Aligned_cols=86 Identities=14% Similarity=0.195 Sum_probs=49.7
Q ss_pred chHHHHHHHHHhhccCcEEEEc-CCCCCc-HHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHh
Q psy17128 15 GLEEEESVMCRQLQNGVQALFG-PSDALL-GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRF 92 (124)
Q Consensus 15 ~f~~~~~~~C~ll~~GV~AI~G-P~s~~~-~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~ 92 (124)
+-....+.+..++.+++-+|+- |.+... .+.++.+ .+.++|.|.+..... ....+ -.+.+++...++..++.
T Consensus 42 ~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~-~~~~ipvV~~~~~~~-~~~~~-~~v~~d~~~~~~~~~~~--- 115 (273)
T cd06310 42 DVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKEA-KDAGIPVVLIDSGLN-SDIAV-SFVATDNVAAGKLAAEA--- 115 (273)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHH-HHCCCCEEEecCCCC-CCcce-EEEeeChHHHHHHHHHH---
Confidence 3344345566777777776663 433222 3466655 468999998864322 11122 23556665556666662
Q ss_pred hhhHHHHhhHHHHHHHhhc-CceEEEEEe
Q psy17128 93 LNWTKKLLNAAFKDVIRFL-NWTKVAIVY 120 (124)
Q Consensus 93 ~~~~~~~l~~a~~~li~~~-~W~~v~ivY 120 (124)
|++.+ |.+++.++-
T Consensus 116 --------------l~~~~~g~~~i~~i~ 130 (273)
T cd06310 116 --------------LAELLGKKGKVAVIS 130 (273)
T ss_pred --------------HHHHcCCCceEEEEe
Confidence 45554 799999884
No 139
>TIGR02173 cyt_kin_arch cytidylate kinase, putative. Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.
Probab=38.51 E-value=38 Score=23.93 Aligned_cols=30 Identities=13% Similarity=0.246 Sum_probs=26.2
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
++.|.|+..+--+.+.+.+++.+++|++..
T Consensus 2 iI~i~G~~GSGKstia~~la~~lg~~~~~~ 31 (171)
T TIGR02173 2 IITISGPPGSGKTTVAKILAEKLSLKLISA 31 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence 578889999888888888999999999875
No 140
>PTZ00088 adenylate kinase 1; Provisional
Probab=38.48 E-value=36 Score=26.82 Aligned_cols=30 Identities=17% Similarity=0.314 Sum_probs=25.3
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+.|+||..+--+-.-+-++..+++|||++.
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~~g~~~is~g 38 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKKENLKHINMG 38 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEECC
Confidence 788999887777777778999999999874
No 141
>PLN02165 adenylate isopentenyltransferase
Probab=37.27 E-value=22 Score=30.16 Aligned_cols=43 Identities=9% Similarity=0.101 Sum_probs=33.4
Q ss_pred HHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 18 EEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 18 ~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
..+.++|.-.+..+++|+||+.+-=+.....++..++-++|+.
T Consensus 32 ~~~~~~~~~~~g~iivIiGPTGSGKStLA~~LA~~l~~eIIsa 74 (334)
T PLN02165 32 MTSVAMEQNCKDKVVVIMGATGSGKSRLSVDLATRFPSEIINS 74 (334)
T ss_pred ccccccccCCCCCEEEEECCCCCcHHHHHHHHHHHcCCceecC
Confidence 3355678666677999999999777777777999988777764
No 142
>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily. Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.
Probab=36.59 E-value=44 Score=24.02 Aligned_cols=30 Identities=17% Similarity=0.330 Sum_probs=25.4
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
+++|+||..+-=+.....+++.++.++++.
T Consensus 5 ii~i~G~~GsGKsTl~~~l~~~~g~~~~~~ 34 (188)
T TIGR01360 5 IIFIVGGPGSGKGTQCEKIVEKYGFTHLST 34 (188)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence 688999988777777788898899999976
No 143
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=36.36 E-value=2.4e+02 Score=23.05 Aligned_cols=43 Identities=12% Similarity=0.101 Sum_probs=28.2
Q ss_pred HHHHHHhhccCcEEEE-cCCCCCc-HHHHHHhhccCCCceEEeeCC
Q psy17128 20 ESVMCRQLQNGVQALF-GPSDALL-GPHVQSICEALDVPHMESRLD 63 (124)
Q Consensus 20 ~~~~C~ll~~GV~AI~-GP~s~~~-~~~vqsic~~~~IP~i~~~~~ 63 (124)
.+.+-+++++|+-||+ .|.+... ...++. +...+||.|.+..+
T Consensus 70 ~~~i~~li~~~vdgIiv~~~d~~al~~~l~~-a~~~gIpVV~~d~~ 114 (336)
T PRK15408 70 VQLINNFVNQGYNAIIVSAVSPDGLCPALKR-AMQRGVKVLTWDSD 114 (336)
T ss_pred HHHHHHHHHcCCCEEEEecCCHHHHHHHHHH-HHHCCCeEEEeCCC
Confidence 3456677788887766 4555332 344444 66779999998764
No 144
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=36.09 E-value=1.8e+02 Score=21.54 Aligned_cols=42 Identities=10% Similarity=0.190 Sum_probs=25.3
Q ss_pred HHHHHhhccCcEEEE-cCCCCCcHHHHHHhhccCCCceEEeeCCC
Q psy17128 21 SVMCRQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDL 64 (124)
Q Consensus 21 ~~~C~ll~~GV~AI~-GP~s~~~~~~vqsic~~~~IP~i~~~~~~ 64 (124)
..+-.+++.|+-+|+ -|.+ .....++.+ ...+||+|.+..+.
T Consensus 46 ~~~~~l~~~~vdgiIi~~~~-~~~~~~~~l-~~~~ipvV~~~~~~ 88 (265)
T cd06299 46 RYLDNLLSQRVDGIIVVPHE-QSAEQLEDL-LKRGIPVVFVDREI 88 (265)
T ss_pred HHHHHHHhcCCCEEEEcCCC-CChHHHHHH-HhCCCCEEEEeccc
Confidence 344556677776665 3332 223456555 45799999887653
No 145
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=35.57 E-value=23 Score=24.83 Aligned_cols=41 Identities=15% Similarity=0.189 Sum_probs=31.8
Q ss_pred HHHHhhc--cCcEEEEcCCCC--CcHHHHHHhhccCCCceEEeeC
Q psy17128 22 VMCRQLQ--NGVQALFGPSDA--LLGPHVQSICEALDVPHMESRL 62 (124)
Q Consensus 22 ~~C~ll~--~GV~AI~GP~s~--~~~~~vqsic~~~~IP~i~~~~ 62 (124)
++-++++ +..+.++|.... ...+.++.+++.+++|+++...
T Consensus 3 ~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~ 47 (137)
T PF00205_consen 3 EAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTPM 47 (137)
T ss_dssp HHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGG
T ss_pred HHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCc
Confidence 4555664 468888888765 8999999999999999997643
No 146
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=35.16 E-value=1.9e+02 Score=23.19 Aligned_cols=65 Identities=12% Similarity=0.180 Sum_probs=40.5
Q ss_pred HHHHHhhc-cCcEEEEcCCCCC---cHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHH
Q psy17128 21 SVMCRQLQ-NGVQALFGPSDAL---LGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAA 85 (124)
Q Consensus 21 ~~~C~ll~-~GV~AI~GP~s~~---~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~A 85 (124)
..+-+.+. +|+-+|+--+.+- .+..+...|.+++||++-+.++.......-.+....+.++..+.
T Consensus 56 ~~l~~~l~~~~i~~vIDATHPfA~~is~na~~a~~~~~ipylR~eRp~~~~~~~~~~~~v~~~~eA~~~ 124 (249)
T PF02571_consen 56 EGLAEFLRENGIDAVIDATHPFAAEISQNAIEACRELGIPYLRFERPSWQPEPDDNWHYVDSYEEAAEL 124 (249)
T ss_pred HHHHHHHHhCCCcEEEECCCchHHHHHHHHHHHHhhcCcceEEEEcCCcccCCCCeEEEeCCHHHHHHH
Confidence 34555554 6999999877754 45567788999999999886543321111125555664443333
No 147
>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.
Probab=34.88 E-value=49 Score=23.97 Aligned_cols=30 Identities=20% Similarity=0.495 Sum_probs=24.0
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+.|+||..+--+-.-+.+++.++++|++..
T Consensus 2 I~i~G~pGsGKst~a~~La~~~~~~~i~~~ 31 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKKYGLPHISTG 31 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEECc
Confidence 568898876666677888999999999863
No 148
>PRK04182 cytidylate kinase; Provisional
Probab=34.84 E-value=49 Score=23.54 Aligned_cols=30 Identities=17% Similarity=0.316 Sum_probs=26.6
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
+++|.|+..+.-+.+-+.+++.+++|++..
T Consensus 2 ~I~i~G~~GsGKstia~~la~~lg~~~id~ 31 (180)
T PRK04182 2 IITISGPPGSGKTTVARLLAEKLGLKHVSA 31 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCcEecH
Confidence 578899999888889999999999999974
No 149
>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=34.48 E-value=2e+02 Score=21.50 Aligned_cols=62 Identities=13% Similarity=0.019 Sum_probs=32.1
Q ss_pred HHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 23 MCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 23 ~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
+-.++++++-+|+--........++.+ ...++|++.+....+..... .+..++..-.+..++
T Consensus 48 i~~~~~~~vdgii~~~~~~~~~~~~~~-~~~~ipvV~~~~~~~~~~~~---~v~~d~~~~~~~~~~ 109 (268)
T cd06270 48 IEFLLERRCDALILHSKALSDDELIEL-AAQVPPLVLINRHIPGLADR---CIWLDNEQGGYLATE 109 (268)
T ss_pred HHHHHHcCCCEEEEecCCCCHHHHHHH-hhCCCCEEEEeccCCCCCCC---eEEECcHHHHHHHHH
Confidence 344566777766632222223335554 56799999886543211111 134555555555555
No 150
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=33.89 E-value=25 Score=25.26 Aligned_cols=36 Identities=17% Similarity=0.237 Sum_probs=29.4
Q ss_pred hhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 26 QLQNGVQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 26 ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
.+.+==+.++||+-...-..++..++..+||.-...
T Consensus 45 ~~~~~DvvLlGPQv~y~~~~~~~~~~~~giPV~vI~ 80 (102)
T COG1440 45 YIDNADVVLLGPQVRYMLKQLKEAAEEKGIPVEVID 80 (102)
T ss_pred hhhcCCEEEEChHHHHHHHHHHHHhcccCCCeEEeC
Confidence 333445778999999999999999999999977553
No 151
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=33.82 E-value=58 Score=21.06 Aligned_cols=46 Identities=20% Similarity=0.364 Sum_probs=36.2
Q ss_pred chHHHHHHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 15 GLEEEESVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 15 ~f~~~~~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+....+..+++.+. .|..+.+-........-+.. ++..++|++-+-
T Consensus 13 ~~~~~a~~l~~~L~~~gi~v~~d~~~~~~~k~~~~-a~~~g~p~~iii 59 (94)
T PF03129_consen 13 EIIEYAQELANKLRKAGIRVELDDSDKSLGKQIKY-ADKLGIPFIIII 59 (94)
T ss_dssp HHHHHHHHHHHHHHHTTSEEEEESSSSTHHHHHHH-HHHTTESEEEEE
T ss_pred HHHHHHHHHHHHHHHCCCEEEEECCCCchhHHHHH-HhhcCCeEEEEE
Confidence 45556788888886 58988888877777777766 899999999763
No 152
>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=32.60 E-value=2e+02 Score=21.15 Aligned_cols=76 Identities=13% Similarity=0.132 Sum_probs=39.0
Q ss_pred eEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHH
Q psy17128 7 LVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAF 86 (124)
Q Consensus 7 I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai 86 (124)
+.....+++-+...+.+-++.++++-+|+.-........+ ....+.++|.|.+..+.+ ... .+.+++....+..
T Consensus 32 ~~~~~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~~~~~-~~~~~~~ipvv~~~~~~~--~~~---~v~~d~~~~~~~~ 105 (259)
T cd01542 32 MLLMNTNFSIEKEIEALELLARQKVDGIILLATTITDEHR-EAIKKLNVPVVVVGQDYP--GIS---SVVYDDYGAGYEL 105 (259)
T ss_pred EEEEeCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCCHHHH-HHHhcCCCCEEEEeccCC--CCC---EEEECcHHHHHHH
Confidence 3333333333442334555667788888753332233333 334566899998864321 111 2344555555555
Q ss_pred Hh
Q psy17128 87 KD 88 (124)
Q Consensus 87 ~d 88 (124)
++
T Consensus 106 ~~ 107 (259)
T cd01542 106 GE 107 (259)
T ss_pred HH
Confidence 55
No 153
>KOG1575|consensus
Probab=31.89 E-value=1.2e+02 Score=25.95 Aligned_cols=57 Identities=12% Similarity=0.167 Sum_probs=44.5
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHH-----------------------------HHHhhccCCCc
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPH-----------------------------VQSICEALDVP 56 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~-----------------------------vqsic~~~~IP 56 (124)
.+++++.+.+-++..+++=+++++|.+=-+|-|...+..+ |-.+|..++|+
T Consensus 133 q~Hr~D~~~piee~m~aL~~lve~Gki~yiGlSe~sa~~I~~a~~~~~~p~~s~Q~eysl~~Rd~ee~~i~~~c~~~Gi~ 212 (336)
T KOG1575|consen 133 QVHRWDPMVPIEETMRALTDLVEQGKIRYWGLSEWSAEEIREAHAVAPIPIVAVQVEYSLLSRDKEERGIIPLCRELGIG 212 (336)
T ss_pred EEcccCCCCCHHHHHHHHHHHHhcCceEEEEeccCCHHHHHHHHHhcCCCceEeeeechhhhcchhhhhHHHHHHHcCcc
Confidence 3567788888888888999999999999999887554333 33489999999
Q ss_pred eEEeeC
Q psy17128 57 HMESRL 62 (124)
Q Consensus 57 ~i~~~~ 62 (124)
.|..++
T Consensus 213 li~ysP 218 (336)
T KOG1575|consen 213 LIAWSP 218 (336)
T ss_pred eEEecc
Confidence 997664
No 154
>PRK00023 cmk cytidylate kinase; Provisional
Probab=31.05 E-value=42 Score=26.13 Aligned_cols=35 Identities=17% Similarity=0.261 Sum_probs=29.1
Q ss_pred hccCcEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 27 LQNGVQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 27 l~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
|..-+++|.||..+.-+.+-+-++..+++|++...
T Consensus 2 ~~~~~i~i~g~~gsGksti~~~la~~~~~~~~~~~ 36 (225)
T PRK00023 2 MKAIVIAIDGPAGSGKGTVAKILAKKLGFHYLDTG 36 (225)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHhCCCcccCc
Confidence 44568999999998888888889999999998643
No 155
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=31.01 E-value=67 Score=26.48 Aligned_cols=31 Identities=13% Similarity=0.200 Sum_probs=27.3
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+++|.||+.+-=+.....++..++.++|+..
T Consensus 1 vi~i~G~t~~GKs~la~~l~~~~~~~iis~D 31 (287)
T TIGR00174 1 VIFIMGPTAVGKSQLAIQLAKKLNAEIISVD 31 (287)
T ss_pred CEEEECCCCCCHHHHHHHHHHhCCCcEEEec
Confidence 5789999999889999999999999988764
No 156
>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells. Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....
Probab=30.88 E-value=35 Score=24.20 Aligned_cols=27 Identities=15% Similarity=0.434 Sum_probs=21.9
Q ss_pred EEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 34 LFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 34 I~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
|+||..+-=...-..++++.+++||++
T Consensus 1 i~G~PgsGK~t~~~~la~~~~~~~is~ 27 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRYGLVHISV 27 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHHTSEEEEH
T ss_pred CcCCCCCChHHHHHHHHHhcCcceech
Confidence 678777776777788899999999986
No 157
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=30.86 E-value=46 Score=24.50 Aligned_cols=27 Identities=15% Similarity=0.259 Sum_probs=16.1
Q ss_pred hhccCcEEEEcCCCCCcHHHHHHhhccC
Q psy17128 26 QLQNGVQALFGPSDALLGPHVQSICEAL 53 (124)
Q Consensus 26 ll~~GV~AI~GP~s~~~~~~vqsic~~~ 53 (124)
+.+.|+-++|||.++. ..++..+-..+
T Consensus 106 l~~~Gv~~vF~pgt~~-~~iv~~l~~~~ 132 (134)
T TIGR01501 106 FKEMGFDRVFAPGTPP-EVVIADLKKDL 132 (134)
T ss_pred HHHcCCCEEECcCCCH-HHHHHHHHHHh
Confidence 4456888888888743 44444444433
No 158
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=30.77 E-value=1.1e+02 Score=20.94 Aligned_cols=42 Identities=12% Similarity=0.049 Sum_probs=30.5
Q ss_pred HHHHHHhhccC---cEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 20 ESVMCRQLQNG---VQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 20 ~~~~C~ll~~G---V~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
.+.....+++| .+-|=+=-++....++-.+|++++||++.+.
T Consensus 18 ~kqt~Kai~kg~~~~v~iA~Da~~~vv~~l~~lceek~Ip~v~V~ 62 (84)
T PRK13600 18 LKETLKALKKDQVTSLIIAEDVEVYLMTRVLSQINQKNIPVSFFK 62 (84)
T ss_pred HHHHHHHHhcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence 45666777654 3333366667788899999999999999764
No 159
>PRK14531 adenylate kinase; Provisional
Probab=30.70 E-value=60 Score=23.95 Aligned_cols=30 Identities=23% Similarity=0.486 Sum_probs=24.8
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
-+.|+||..+-=+-.-+.+++.++++||+.
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~g~~~is~ 33 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAHGLRHLST 33 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCeEec
Confidence 367889988777777788899999999976
No 160
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=30.68 E-value=1.1e+02 Score=22.60 Aligned_cols=48 Identities=17% Similarity=0.208 Sum_probs=30.2
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
+|.....++.=+. ...+-++..+|+-+|+|. ..+.+++.+.++|.+-+
T Consensus 102 ~i~~~~~~~~~e~-~~~i~~~~~~G~~viVGg------~~~~~~A~~~gl~~v~i 149 (176)
T PF06506_consen 102 DIKIYPYDSEEEI-EAAIKQAKAEGVDVIVGG------GVVCRLARKLGLPGVLI 149 (176)
T ss_dssp EEEEEEESSHHHH-HHHHHHHHHTT--EEEES------HHHHHHHHHTTSEEEES
T ss_pred ceEEEEECCHHHH-HHHHHHHHHcCCcEEECC------HHHHHHHHHcCCcEEEE
Confidence 4455555544433 444555557899999994 45678899999998754
No 161
>PF01745 IPT: Isopentenyl transferase; InterPro: IPR002648 Isopentenyl transferase / dimethylallyl transferase synthesizes isopentenyladensosine 5'-monophosphate, a cytokinin that induces shoot formation on host plants infected with the Ti plasmid [].; GO: 0004161 dimethylallyltranstransferase activity, 0009058 biosynthetic process; PDB: 2ZE8_C 2ZE5_A 2ZE7_A 2ZE6_A.
Probab=30.35 E-value=44 Score=27.26 Aligned_cols=32 Identities=13% Similarity=0.191 Sum_probs=23.0
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 30 GVQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 30 GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+|.+|+||+..-=++.--.++..++.|.|..+
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~D 33 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQKTGAPVISLD 33 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHHHH--EEEEE-
T ss_pred cEEEEECCCCCChhHHHHHHHHHhCCCEEEec
Confidence 57899999996666666678999999999864
No 162
>PRK03839 putative kinase; Provisional
Probab=30.16 E-value=59 Score=23.66 Aligned_cols=31 Identities=13% Similarity=0.101 Sum_probs=25.0
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
.+.|+||..+-=+-.-..+++.+++||+...
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d 32 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLT 32 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence 3678898887777777888999999999764
No 163
>PRK02496 adk adenylate kinase; Provisional
Probab=30.04 E-value=63 Score=23.59 Aligned_cols=29 Identities=28% Similarity=0.565 Sum_probs=24.3
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
+.|+||..+.=+...+.+++.+++||++.
T Consensus 4 i~i~G~pGsGKst~a~~la~~~~~~~i~~ 32 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHLHIPHIST 32 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEEh
Confidence 57889988777777788888899999975
No 164
>PRK14528 adenylate kinase; Provisional
Probab=29.86 E-value=63 Score=24.13 Aligned_cols=30 Identities=27% Similarity=0.624 Sum_probs=24.7
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+.|+||..+.-+.+.+-+++.+++||++..
T Consensus 4 i~i~G~pGsGKtt~a~~la~~~~~~~is~~ 33 (186)
T PRK14528 4 IIFMGPPGAGKGTQAKILCERLSIPQISTG 33 (186)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCCeeeCC
Confidence 578899887777777888999999999753
No 165
>PRK13810 orotate phosphoribosyltransferase; Provisional
Probab=29.73 E-value=1.7e+02 Score=22.39 Aligned_cols=61 Identities=11% Similarity=0.145 Sum_probs=39.7
Q ss_pred CCCeeEEEecCC------chHHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCC
Q psy17128 3 GQPSLVEVNVNT------GLEEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRLDL 64 (124)
Q Consensus 3 ~~~~I~~i~~~~------~f~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~ 64 (124)
|.++...++-.. -++..++.+.+.+.. ++-+|+||...... +-..++..+++|.+.++...
T Consensus 39 G~~s~~yiD~~~~~~~p~~~~~i~~~la~~~~~~~~d~I~g~~~~Gip-lA~~vA~~l~~p~v~vRK~~ 106 (187)
T PRK13810 39 GKKSKYYIDIKKASTDPKTLKLIARQAALRIKEMDVDTVAGVELGGVP-LATAVSLETGLPLLIVRKSV 106 (187)
T ss_pred CCcCCEEEECchhcCCHHHHHHHHHHHHHHhccCCCCEEEEEccchHH-HHHHHHHHhCCCEEEEecCC
Confidence 455555555422 245455666666653 78899998885433 44556778999999887653
No 166
>PRK13949 shikimate kinase; Provisional
Probab=29.07 E-value=65 Score=23.82 Aligned_cols=30 Identities=13% Similarity=0.081 Sum_probs=26.1
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
++|+||..+.=+.+-..+|..++.|++...
T Consensus 4 I~liG~~GsGKstl~~~La~~l~~~~id~D 33 (169)
T PRK13949 4 IFLVGYMGAGKTTLGKALARELGLSFIDLD 33 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCeeccc
Confidence 678999998888888889999999999764
No 167
>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=29.05 E-value=1.6e+02 Score=23.79 Aligned_cols=21 Identities=38% Similarity=0.661 Sum_probs=16.8
Q ss_pred HHHHHHhhcCceEEEE-EeecC
Q psy17128 103 AFKDVIRFLNWTKVAI-VYEED 123 (124)
Q Consensus 103 a~~~li~~~~W~~v~i-vYe~d 123 (124)
++++||+.+|=.++.+ |||++
T Consensus 22 ~ll~li~~LGp~nv~vSIyE~~ 43 (241)
T PF11735_consen 22 ALLELIRFLGPENVFVSIYESG 43 (241)
T ss_pred HHHHHHHHhCcCeEEEEEEeCC
Confidence 5666999999988765 88874
No 168
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=29.03 E-value=66 Score=26.63 Aligned_cols=32 Identities=13% Similarity=0.176 Sum_probs=27.9
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 30 GVQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 30 GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
-+++|.||+.+.=+.....++..++.++|+.+
T Consensus 5 ~~i~i~GptgsGKt~la~~la~~~~~~iis~D 36 (307)
T PRK00091 5 KVIVIVGPTASGKTALAIELAKRLNGEIISAD 36 (307)
T ss_pred eEEEEECCCCcCHHHHHHHHHHhCCCcEEecc
Confidence 58899999998888888999999999988653
No 169
>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=28.82 E-value=51 Score=28.31 Aligned_cols=25 Identities=32% Similarity=0.474 Sum_probs=21.0
Q ss_pred cCcEEEEcCCCCCcHHHHHHhhccC
Q psy17128 29 NGVQALFGPSDALLGPHVQSICEAL 53 (124)
Q Consensus 29 ~GV~AI~GP~s~~~~~~vqsic~~~ 53 (124)
.||.|+||+|.+--.+.|.-|+.-.
T Consensus 24 ~GvTAlFG~SGsGKTslin~IaGL~ 48 (352)
T COG4148 24 RGITALFGPSGSGKTSLINMIAGLT 48 (352)
T ss_pred CceEEEecCCCCChhhHHHHHhccC
Confidence 5999999999988888888777643
No 170
>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.
Probab=28.56 E-value=68 Score=23.90 Aligned_cols=26 Identities=19% Similarity=0.275 Sum_probs=21.7
Q ss_pred ccCcEEEEcCCCCCcHHHHHHhhccC
Q psy17128 28 QNGVQALFGPSDALLGPHVQSICEAL 53 (124)
Q Consensus 28 ~~GV~AI~GP~s~~~~~~vqsic~~~ 53 (124)
..|++||+||+.+-=+..++-++...
T Consensus 24 ~~g~~~i~G~nGsGKSTLl~~l~Gl~ 49 (211)
T cd03264 24 GPGMYGLLGPNGAGKTTLMRILATLT 49 (211)
T ss_pred cCCcEEEECCCCCCHHHHHHHHhCCC
Confidence 45799999999988888888888754
No 171
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=28.40 E-value=52 Score=22.98 Aligned_cols=31 Identities=10% Similarity=0.114 Sum_probs=27.0
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
=+.++||+-...-+-++.+++..+||+....
T Consensus 49 Dvill~PQv~~~~~~i~~~~~~~~ipv~~I~ 79 (99)
T cd05565 49 DLVILAPQMASYYDELKKDTDRLGIKLVTTT 79 (99)
T ss_pred CEEEEcChHHHHHHHHHHHhhhcCCCEEEeC
Confidence 3677899999999999999999999998654
No 172
>PRK14527 adenylate kinase; Provisional
Probab=28.02 E-value=55 Score=24.21 Aligned_cols=31 Identities=19% Similarity=0.426 Sum_probs=26.0
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 30 GVQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 30 GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
.++.|+||..+.-+-..+.+++..+++|++.
T Consensus 7 ~~i~i~G~pGsGKsT~a~~La~~~~~~~is~ 37 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQAERLAQELGLKKLST 37 (191)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCCCCCc
Confidence 3788889988777777788999999999975
No 173
>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=28.02 E-value=2.5e+02 Score=20.80 Aligned_cols=71 Identities=11% Similarity=0.155 Sum_probs=38.0
Q ss_pred chHHHHHHHHHhhccCcEEEE-cCCCCC-cHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 15 GLEEEESVMCRQLQNGVQALF-GPSDAL-LGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 15 ~f~~~~~~~C~ll~~GV~AI~-GP~s~~-~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
+.+...+.+=+++++++-+|+ .|.+.. ..+.++. +...+||+|.+..+.. .. ...-++.++...-.+..++
T Consensus 40 ~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~-~~~~~ipvV~~~~~~~-~~-~~~~~v~~d~~~~g~~~~~ 112 (267)
T cd06322 40 DLNKQLSDVEDFITKKVDAIVLSPVDSKGIRAAIAK-AKKAGIPVITVDIAAE-GV-AVVSHVATDNYAGGVLAGE 112 (267)
T ss_pred CHHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHH-HHHCCCCEEEEcccCC-CC-ceEEEEecChHHHHHHHHH
Confidence 344323344455677777665 354433 3455655 4568999998865322 11 1123456666555555555
No 174
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=27.98 E-value=1.1e+02 Score=23.59 Aligned_cols=42 Identities=10% Similarity=0.060 Sum_probs=32.1
Q ss_pred HHHHHhhc--cCcEEEEcCCCC---CcHHHHHHhhccCCCceEEeeC
Q psy17128 21 SVMCRQLQ--NGVQALFGPSDA---LLGPHVQSICEALDVPHMESRL 62 (124)
Q Consensus 21 ~~~C~ll~--~GV~AI~GP~s~---~~~~~vqsic~~~~IP~i~~~~ 62 (124)
+.+.+++. +..+.++|.... ...+.+..+++++++|++....
T Consensus 25 ~~aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~ 71 (171)
T PRK00945 25 KIAAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGG 71 (171)
T ss_pred HHHHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccc
Confidence 34555664 578889998764 3677899999999999997654
No 175
>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.
Probab=27.89 E-value=78 Score=21.90 Aligned_cols=30 Identities=20% Similarity=0.194 Sum_probs=25.8
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
++++||..+.-+.+...++..++.|++...
T Consensus 2 i~l~G~~GsGKstla~~la~~l~~~~~~~d 31 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKALGLPFVDLD 31 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence 578899998888888899999999999764
No 176
>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=27.85 E-value=2.8e+02 Score=21.24 Aligned_cols=52 Identities=21% Similarity=0.279 Sum_probs=28.3
Q ss_pred ecCCchHHHHHHHHHhhccCcEEEE-cCCCCC-cHHHHHHhhccCCCceEEeeCC
Q psy17128 11 NVNTGLEEEESVMCRQLQNGVQALF-GPSDAL-LGPHVQSICEALDVPHMESRLD 63 (124)
Q Consensus 11 ~~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~~-~~~~vqsic~~~~IP~i~~~~~ 63 (124)
...++-+...+.+=+++.+++-+|+ .|.+.. ....++. ..+.++|++.+..+
T Consensus 36 ~~~~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~l~~-l~~~~ipvV~~~~~ 89 (288)
T cd01538 36 NANGDPAKQISQIENMIAKGVDVLVIAPVDGEALASAVEK-AADAGIPVIAYDRL 89 (288)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCEEEEecCChhhHHHHHHH-HHHCCCCEEEECCC
Confidence 3333334323334445566766655 454432 2455555 44679999988654
No 177
>PRK04207 glyceraldehyde-3-phosphate dehydrogenase; Provisional
Probab=27.71 E-value=2e+02 Score=23.98 Aligned_cols=86 Identities=14% Similarity=0.098 Sum_probs=51.0
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHh
Q psy17128 30 GVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIR 109 (124)
Q Consensus 30 GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~ 109 (124)
++=+++-.+....+.-....+-+.+.|.|.-+.... .-...++...=.++.+.. .++++--||||.+|..++.-|-+
T Consensus 78 ~vDVVIdaT~~~~~~e~a~~~~~aGk~VI~~~~~~~-~~~~~~~v~~vN~~~~~~--~~~v~~~sCtT~~l~~~l~~L~~ 154 (341)
T PRK04207 78 KADIVVDATPGGVGAKNKELYEKAGVKAIFQGGEKA-EVAGVSFNALANYEEALG--KDYVRVVSCNTTGLCRTLCALDR 154 (341)
T ss_pred cCCEEEECCCchhhHHHHHHHHHCCCEEEEcCCCCC-CCCCCcEEeeECHHHhCC--CCcEEccChHHHHHHHHHHHHHH
Confidence 444555444444455555667777888886554321 111112222222222211 23566679999999999999988
Q ss_pred hcCceEEEE
Q psy17128 110 FLNWTKVAI 118 (124)
Q Consensus 110 ~~~W~~v~i 118 (124)
.||=+++.+
T Consensus 155 ~fgI~~~~v 163 (341)
T PRK04207 155 AFGVKKVRA 163 (341)
T ss_pred hcCceEEEE
Confidence 999888765
No 178
>PRK00279 adk adenylate kinase; Reviewed
Probab=27.64 E-value=75 Score=24.03 Aligned_cols=29 Identities=31% Similarity=0.571 Sum_probs=23.6
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
+.|+||..+--+-.-..++..++++|++.
T Consensus 3 I~v~G~pGsGKsT~a~~la~~~~~~~is~ 31 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEKYGIPHIST 31 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEEC
Confidence 57889877666666677899999999986
No 179
>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=27.57 E-value=2.7e+02 Score=21.00 Aligned_cols=72 Identities=11% Similarity=0.050 Sum_probs=37.4
Q ss_pred CchHHHHHHHHHhhccCcEEEE-cCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 14 TGLEEEESVMCRQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 14 ~~f~~~~~~~C~ll~~GV~AI~-GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
++.+...+.+=.++++++-+|+ .|........+.. ....+||.|.+...... ..+.-....++....+..++
T Consensus 41 ~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~~~~~-~~~~giPvV~~~~~~~~--~~~~~~V~~d~~~~g~~~~~ 113 (268)
T cd06306 41 PNLAKQIAQLEDCAAWGADAILLGAVSPDGLNEILQ-QVAASIPVIALVNDINS--PDITAKVGVSWYEMGYQAGE 113 (268)
T ss_pred CCHHHHHHHHHHHHHcCCCEEEEcCCChhhHHHHHH-HHHCCCCEEEeccCCCC--cceeEEecCChHHHHHHHHH
Confidence 3455434455556677776654 4444332223444 56799999987432221 12222345565555555555
No 180
>cd04163 Era Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.
Probab=27.56 E-value=63 Score=21.69 Aligned_cols=25 Identities=12% Similarity=0.252 Sum_probs=21.5
Q ss_pred ccCcEEEEcCCCCCcHHHHHHhhcc
Q psy17128 28 QNGVQALFGPSDALLGPHVQSICEA 52 (124)
Q Consensus 28 ~~GV~AI~GP~s~~~~~~vqsic~~ 52 (124)
..+.++++|+....=+.+++.+++.
T Consensus 2 ~~~~i~~~G~~g~GKttl~~~l~~~ 26 (168)
T cd04163 2 KSGFVAIVGRPNVGKSTLLNALVGQ 26 (168)
T ss_pred ceeEEEEECCCCCCHHHHHHHHhCC
Confidence 4678999999998888899998765
No 181
>TIGR00017 cmk cytidylate kinase. This family consists of cytidylate kinase, which catalyzes the phosphorylation of cytidine 5-monophosphate (dCMP) to cytidine 5 -diphosphate (dCDP) in the presence of ATP or GTP. UMP and dCMP can also act as acceptors.
Probab=27.48 E-value=70 Score=24.88 Aligned_cols=30 Identities=27% Similarity=0.347 Sum_probs=26.9
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
+++|.||+.+.=+.+...++..++++++..
T Consensus 4 ~i~i~G~~GsGKst~~~~la~~~~~~~~~~ 33 (217)
T TIGR00017 4 IIAIDGPSGAGKSTVAKAVAEKLGYAYLDS 33 (217)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCceeeC
Confidence 689999999998889999999999999864
No 182
>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=27.23 E-value=2.7e+02 Score=20.81 Aligned_cols=49 Identities=20% Similarity=0.217 Sum_probs=27.0
Q ss_pred CCchHHHHHHHH-HhhccCcEEEEc-CCCCCcHHHHHHhhccCCCceEEeeCC
Q psy17128 13 NTGLEEEESVMC-RQLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLD 63 (124)
Q Consensus 13 ~~~f~~~~~~~C-~ll~~GV~AI~G-P~s~~~~~~vqsic~~~~IP~i~~~~~ 63 (124)
.++-+. ..... .+.+++|-+|+- |.... ...+...+.+.+||.+.+...
T Consensus 38 ~~~~~~-~~~~i~~l~~~~vdgii~~~~~~~-~~~~~~~~~~~~ipvV~i~~~ 88 (269)
T cd06281 38 LNDPER-ELEILRSFEQRRMDGIIIAPGDER-DPELVDALASLDLPIVLLDRD 88 (269)
T ss_pred CCChHH-HHHHHHHHHHcCCCEEEEecCCCC-cHHHHHHHHhCCCCEEEEecc
Confidence 334443 33333 344567766663 33222 233445577789999988653
No 183
>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=27.16 E-value=2.6e+02 Score=20.63 Aligned_cols=73 Identities=14% Similarity=0.030 Sum_probs=37.3
Q ss_pred cCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 12 VNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 12 ~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
..++-+...+.+..+++.++-||+=.........+.. ....++|+|.+......... -...+++....+..+.
T Consensus 37 ~~~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~-l~~~~ipvV~~~~~~~~~~~---~~v~~d~~~~~~~~~~ 109 (268)
T cd06298 37 SDNDKEKELKVLNNLLAKQVDGIIFMGGKISEEHREE-FKRSPTPVVLAGSVDEDNEL---PSVNIDYKKAAFEATE 109 (268)
T ss_pred CCCCHHHHHHHHHHHHHhcCCEEEEeCCCCcHHHHHH-HhcCCCCEEEEccccCCCCC---CEEEECcHHHHHHHHH
Confidence 3333443244556666778777762111112234443 45679999988653221111 1345565555555555
No 184
>COG3172 NadR Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]
Probab=26.70 E-value=56 Score=25.78 Aligned_cols=29 Identities=10% Similarity=0.169 Sum_probs=25.1
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccCCCceE
Q psy17128 30 GVQALFGPSDALLGPHVQSICEALDVPHM 58 (124)
Q Consensus 30 GV~AI~GP~s~~~~~~vqsic~~~~IP~i 58 (124)
-++||+||.|+.-+-.++.+++.++-|..
T Consensus 9 K~VailG~ESsGKStLv~kLA~~fnt~~~ 37 (187)
T COG3172 9 KTVAILGGESSGKSTLVNKLANIFNTTSA 37 (187)
T ss_pred eeeeeecCcccChHHHHHHHHHHhCCCch
Confidence 47999999998888899999999988754
No 185
>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]
Probab=26.60 E-value=62 Score=26.50 Aligned_cols=61 Identities=18% Similarity=0.272 Sum_probs=36.0
Q ss_pred cc-CcEEEEcCCCCCcHHHHHHhhccCCCc---eEEeeCCCCC---------CC--Cce-EEEeecCHHHHHHHHHhH
Q psy17128 28 QN-GVQALFGPSDALLGPHVQSICEALDVP---HMESRLDLEL---------NS--KEF-SVNLYPSQKLLNAAFKDV 89 (124)
Q Consensus 28 ~~-GV~AI~GP~s~~~~~~vqsic~~~~IP---~i~~~~~~~~---------~~--~~f-~vnl~P~~~~~~~Ai~d~ 89 (124)
++ .|++|+|||.+-=+-++..+ +.++-| .|.+.-.... .. --| .+||+|+-+.+--....+
T Consensus 26 ~~Gevv~iiGpSGSGKSTlLRcl-N~LE~~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap 102 (240)
T COG1126 26 EKGEVVVIIGPSGSGKSTLLRCL-NGLEEPDSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAP 102 (240)
T ss_pred cCCCEEEEECCCCCCHHHHHHHH-HCCcCCCCceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhh
Confidence 44 49999999998777776653 555555 2333321000 00 123 689999977665555553
No 186
>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=26.59 E-value=2.7e+02 Score=20.63 Aligned_cols=54 Identities=13% Similarity=0.052 Sum_probs=28.3
Q ss_pred eEEEecCCchHHHHHHHHHhhccCcEEEE-cCCCCCcHHHHHHhhccCCCceEEeeCC
Q psy17128 7 LVEVNVNTGLEEEESVMCRQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLD 63 (124)
Q Consensus 7 I~~i~~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~~~~~~vqsic~~~~IP~i~~~~~ 63 (124)
+......++-+...+..-.+.++|+-+|+ .|.+. ....++.+ ..++|+|.+..+
T Consensus 32 ~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~-~~~~~~~~--~~~iPvV~i~~~ 86 (265)
T cd06290 32 PIIATGHWNQSRELEALELLKSRRVDALILLGGDL-PEEEILAL--AEEIPVLAVGRR 86 (265)
T ss_pred EEEEeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCC-ChHHHHHH--hcCCCEEEECCC
Confidence 33333344444422334445566776665 44432 22445555 348999988654
No 187
>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=26.23 E-value=62 Score=26.69 Aligned_cols=25 Identities=28% Similarity=0.389 Sum_probs=19.5
Q ss_pred ccCcEEEEcCCCCCcHHHHHHhhccC
Q psy17128 28 QNGVQALFGPSDALLGPHVQSICEAL 53 (124)
Q Consensus 28 ~~GV~AI~GP~s~~~~~~vqsic~~~ 53 (124)
++.|.|++|||.+.-+-++.. ++++
T Consensus 32 ~~~VTAlIGPSGcGKST~LR~-lNRm 56 (253)
T COG1117 32 KNKVTALIGPSGCGKSTLLRC-LNRM 56 (253)
T ss_pred CCceEEEECCCCcCHHHHHHH-HHhh
Confidence 467999999999887777766 4554
No 188
>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=26.20 E-value=2.7e+02 Score=20.49 Aligned_cols=42 Identities=14% Similarity=0.112 Sum_probs=23.7
Q ss_pred HHHHHhhc-cCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCC
Q psy17128 21 SVMCRQLQ-NGVQALFGPSDALLGPHVQSICEALDVPHMESRLD 63 (124)
Q Consensus 21 ~~~C~ll~-~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~ 63 (124)
+.+-+++. +++-+|+..........++ .+...++|+|.+...
T Consensus 49 ~~~~~~~~~~~vdgiii~~~~~~~~~~~-~~~~~~ipvV~~~~~ 91 (268)
T cd06271 49 EVYRRLVESGLVDGVIISRTRPDDPRVA-LLLERGFPFVTHGRT 91 (268)
T ss_pred HHHHHHHHcCCCCEEEEecCCCCChHHH-HHHhcCCCEEEECCc
Confidence 34445554 4677776432222223344 456789999988643
No 189
>PF12444 Sox_N: Sox developmental protein N terminal ; InterPro: IPR022151 This domain family is found in eukaryotes, and is typically between 69 and 88 amino acids in length. The family is found in association with PF00505 from PFAM. There are two conserved sequence motifs: YDW and PVR. This family contains Sox8, Sox9 and Sox10 proteins which have structural similarity. Sox proteins are involved in developmental processes.
Probab=25.99 E-value=58 Score=22.47 Aligned_cols=19 Identities=26% Similarity=0.510 Sum_probs=14.0
Q ss_pred HhhHHHHHHHhhcCceEEE
Q psy17128 99 LLNAAFKDVIRFLNWTKVA 117 (124)
Q Consensus 99 ~l~~a~~~li~~~~W~~v~ 117 (124)
|+..|+-.+++-|.|+-|-
T Consensus 61 ~IrdAVsqVLkGYDWtLVP 79 (84)
T PF12444_consen 61 CIRDAVSQVLKGYDWTLVP 79 (84)
T ss_pred HHHHHHHHHhccCCceeee
Confidence 4455666699999998663
No 190
>PRK03600 nrdI ribonucleotide reductase stimulatory protein; Reviewed
Probab=25.96 E-value=1.7e+02 Score=21.35 Aligned_cols=43 Identities=9% Similarity=0.167 Sum_probs=30.3
Q ss_pred CcEEEEcCCCCCc----HHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHH
Q psy17128 30 GVQALFGPSDALL----GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNA 84 (124)
Q Consensus 30 GV~AI~GP~s~~~----~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~ 84 (124)
-+.||+|.-+..- ..+...+...++||.+ +.+.++|++++..+
T Consensus 74 ~~~gV~gsGnr~~g~~f~~a~~~i~~~~~vp~l------------~k~El~gt~~Dv~~ 120 (134)
T PRK03600 74 LLRGVIASGNRNFGDAFALAGDVISAKCQVPLL------------YRFELSGTNEDVEN 120 (134)
T ss_pred cEEEEEEecCchHHHHHHHHHHHHHHHhCCCeE------------EEEecCCCHHHHHH
Confidence 4788888776543 4566677778888887 35778888776543
No 191
>PLN02200 adenylate kinase family protein
Probab=25.49 E-value=82 Score=24.73 Aligned_cols=30 Identities=17% Similarity=0.382 Sum_probs=24.9
Q ss_pred cEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 31 VQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 31 V~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
++.|+||..+-=+-.-+.++..++++|++.
T Consensus 45 ii~I~G~PGSGKsT~a~~La~~~g~~his~ 74 (234)
T PLN02200 45 ITFVLGGPGSGKGTQCEKIVETFGFKHLSA 74 (234)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCeEEEc
Confidence 678889988776666678899999999986
No 192
>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=25.13 E-value=2.8e+02 Score=20.37 Aligned_cols=78 Identities=10% Similarity=-0.000 Sum_probs=41.0
Q ss_pred HHHHhhccCcEEEEc-CCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHh
Q psy17128 22 VMCRQLQNGVQALFG-PSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLL 100 (124)
Q Consensus 22 ~~C~ll~~GV~AI~G-P~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l 100 (124)
.+=.++++++-||+- |... ....++ .....+||++.+....... ..-.+..++....+..++
T Consensus 47 ~~~~l~~~~vdgiii~~~~~-~~~~~~-~~~~~~ipvv~~~~~~~~~---~~~~v~~d~~~~~~~~~~------------ 109 (268)
T cd01575 47 LLRTLLSRRPAGLILTGLEH-TERTRQ-LLRAAGIPVVEIMDLPPDP---IDMAVGFSHAEAGRAMAR------------ 109 (268)
T ss_pred HHHHHHHcCCCEEEEeCCCC-CHHHHH-HHHhcCCCEEEEecCCCCC---CCCeEEeCcHHHHHHHHH------------
Confidence 334445667776653 3322 234444 3556799999875422111 111244555555555555
Q ss_pred hHHHHHHHhhcCceEEEEEeec
Q psy17128 101 NAAFKDVIRFLNWTKVAIVYEE 122 (124)
Q Consensus 101 ~~a~~~li~~~~W~~v~ivYe~ 122 (124)
.+...|=++++++..+
T Consensus 110 ------~l~~~g~~~i~~i~~~ 125 (268)
T cd01575 110 ------HLLARGYRRIGFLGAR 125 (268)
T ss_pred ------HHHHCCCCcEEEecCC
Confidence 2333467778777654
No 193
>PRK14532 adenylate kinase; Provisional
Probab=24.91 E-value=95 Score=22.65 Aligned_cols=29 Identities=24% Similarity=0.437 Sum_probs=22.7
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
+.++||..+-=+..-+.++..++.+||++
T Consensus 3 i~~~G~pGsGKsT~a~~la~~~g~~~is~ 31 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEERGMVQLST 31 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEeC
Confidence 56788877666666677888999999987
No 194
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=24.50 E-value=86 Score=21.11 Aligned_cols=36 Identities=11% Similarity=0.285 Sum_probs=21.3
Q ss_pred hhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 26 QLQNGVQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 26 ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
.+..|+.+|+=.......+-+..+++.++||.+.+.
T Consensus 57 a~~~~i~~iIltg~~~~~~~v~~la~~~~i~vi~t~ 92 (105)
T PF07085_consen 57 AIEAGIACIILTGGLEPSEEVLELAKELGIPVISTP 92 (105)
T ss_dssp HCCTTECEEEEETT----HHHHHHHHHHT-EEEE-S
T ss_pred HHHhCCCEEEEeCCCCCCHHHHHHHHHCCCEEEEEC
Confidence 445666666644455566778888889999988764
No 195
>TIGR01532 E4PD_g-proteo D-erythrose-4-phosphate dehydrogenase. Accordingly, this model is very close to the corresponding models for GAPDH, and those sequences which hit above trusted here invariably hit between trusted and noise to the GAPDH model (TIGR01534). Similarly, it may be found that there are species outside of the gamma proteobacteria which synthesize pyridoxine and have more than one aparrent GAPDH gene of which one may have E4PD activity - this may necessitate a readjustment of these models. Alternatively, some of the GAPDH enzymes may prove to be bifunctional in certain species.
Probab=24.41 E-value=83 Score=26.34 Aligned_cols=26 Identities=12% Similarity=-0.015 Sum_probs=22.8
Q ss_pred hhhHHHHhhHHHHHHHhhcCceEEEE
Q psy17128 93 LNWTKKLLNAAFKDVIRFLNWTKVAI 118 (124)
Q Consensus 93 ~~~~~~~l~~a~~~li~~~~W~~v~i 118 (124)
=||||.||..+++-|=+.||-++..+
T Consensus 150 asCtTn~lap~lk~L~~~fgI~~~~~ 175 (325)
T TIGR01532 150 ASCTTNCIVPLIKLLDDAIGIESGTI 175 (325)
T ss_pred CCcHHHHHHHHHHHHHHhcCeeEEEE
Confidence 47999999999999989999998754
No 196
>TIGR01745 asd_gamma aspartate-semialdehyde dehydrogenase, gamma-proteobacterial.
Probab=23.66 E-value=88 Score=26.87 Aligned_cols=26 Identities=15% Similarity=0.035 Sum_probs=23.9
Q ss_pred hhHHHHhhHHHHHHHhhcCceEEEEE
Q psy17128 94 NWTKKLLNAAFKDVIRFLNWTKVAIV 119 (124)
Q Consensus 94 ~~~~~~l~~a~~~li~~~~W~~v~iv 119 (124)
||||..+.-++.-|.+.++.+++.+-
T Consensus 133 NCst~~l~~aL~pL~~~~~i~~v~Vs 158 (366)
T TIGR01745 133 NCTVSLMLMSLGGLFANDLVEWVSVA 158 (366)
T ss_pred CHHHHHHHHHHHHHHhccCccEEEEE
Confidence 89999999999999999999998774
No 197
>PRK13947 shikimate kinase; Provisional
Probab=23.51 E-value=1.1e+02 Score=21.86 Aligned_cols=30 Identities=10% Similarity=0.082 Sum_probs=25.0
Q ss_pred EEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 32 QALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 32 ~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
++|.||..+-=+.+-..+++.++.|++...
T Consensus 4 I~l~G~~GsGKst~a~~La~~lg~~~id~d 33 (171)
T PRK13947 4 IVLIGFMGTGKTTVGKRVATTLSFGFIDTD 33 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCEEECc
Confidence 678898887777777888999999999754
No 198
>PRK13535 erythrose 4-phosphate dehydrogenase; Provisional
Probab=23.32 E-value=95 Score=26.25 Aligned_cols=26 Identities=8% Similarity=-0.028 Sum_probs=22.6
Q ss_pred hhhHHHHhhHHHHHHHhhcCceEEEE
Q psy17128 93 LNWTKKLLNAAFKDVIRFLNWTKVAI 118 (124)
Q Consensus 93 ~~~~~~~l~~a~~~li~~~~W~~v~i 118 (124)
=||||.||..+++=|=+.||-++..+
T Consensus 152 asCTTn~Lap~lk~L~~~fgI~~~~m 177 (336)
T PRK13535 152 ASCTTNCIIPVIKLLDDAFGIESGTV 177 (336)
T ss_pred CchHHHHHHHHHHHHHHhcCeeEEEE
Confidence 37999999999999989999998754
No 199
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=23.28 E-value=1e+02 Score=22.93 Aligned_cols=32 Identities=13% Similarity=0.070 Sum_probs=26.1
Q ss_pred ccCcEEEEcCCCCCcHHHHHHhhccCCCceEE
Q psy17128 28 QNGVQALFGPSDALLGPHVQSICEALDVPHME 59 (124)
Q Consensus 28 ~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~ 59 (124)
...+++|+||+.+.=+.+.+.++..+..+++.
T Consensus 2 ~ge~i~l~G~sGsGKSTl~~~la~~l~~~~i~ 33 (176)
T PRK09825 2 AGESYILMGVSGSGKSLIGSKIAALFSAKFID 33 (176)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHhcCCEEEC
Confidence 34588999999988888888889888877664
No 200
>cd03273 ABC_SMC2_euk Eukaryotic SMC2 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo
Probab=23.15 E-value=86 Score=24.29 Aligned_cols=27 Identities=15% Similarity=0.206 Sum_probs=22.0
Q ss_pred hhccCcEEEEcCCCCCcHHHHHHhhcc
Q psy17128 26 QLQNGVQALFGPSDALLGPHVQSICEA 52 (124)
Q Consensus 26 ll~~GV~AI~GP~s~~~~~~vqsic~~ 52 (124)
-+..|+.+|+||+.+-=+.++..++.-
T Consensus 22 ~~~~~~~~IvG~NGsGKStll~Ai~~l 48 (251)
T cd03273 22 GFDPQFNAITGLNGSGKSNILDAICFV 48 (251)
T ss_pred cCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence 346899999999998888888888744
No 201
>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=22.88 E-value=3.2e+02 Score=20.16 Aligned_cols=93 Identities=15% Similarity=0.049 Sum_probs=46.6
Q ss_pred eeEEEecCCchHHHHHHHHHhhccCcEEEEcCCC-CCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHH
Q psy17128 6 SLVEVNVNTGLEEEESVMCRQLQNGVQALFGPSD-ALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNA 84 (124)
Q Consensus 6 ~I~~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s-~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~ 84 (124)
++.....+++-+...+.+-.+.+.++-||+-... ..... ......++|.+.+......... -.+.+++..-.+
T Consensus 32 ~~~~~~~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~---~~~~~~~ipvv~~~~~~~~~~~---~~v~~d~~~~~~ 105 (269)
T cd06288 32 LLLVVNTGGDDELEAEAVEALLDHRVDGIIYATMYHREVT---LPPELLSVPTVLLNCYDADGAL---PSVVPDEEQGGY 105 (269)
T ss_pred EEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCChhH---HHHHhcCCCEEEEecccCCCCC---CeEEEccHHHHH
Confidence 3333333333333233445556667776665332 22111 1234578999987643221111 234566665555
Q ss_pred HHHhHHHhhhhHHHHhhHHHHHHHhhcCceEEEEEeec
Q psy17128 85 AFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKVAIVYEE 122 (124)
Q Consensus 85 Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v~ivYe~ 122 (124)
..++. |++ .|=+++.++..+
T Consensus 106 ~a~~~-----------------l~~-~g~~~i~~l~~~ 125 (269)
T cd06288 106 DATRH-----------------LLA-AGHRRIAFINGE 125 (269)
T ss_pred HHHHH-----------------HHH-cCCceEEEEeCC
Confidence 55552 333 377788888643
No 202
>PRK02304 adenine phosphoribosyltransferase; Provisional
Probab=22.85 E-value=1.6e+02 Score=21.78 Aligned_cols=46 Identities=9% Similarity=0.156 Sum_probs=33.9
Q ss_pred hHHHHHHHHHhhcc-CcEEEEcCCCCCcHHHHHHhhccCCCceEEeeC
Q psy17128 16 LEEEESVMCRQLQN-GVQALFGPSDALLGPHVQSICEALDVPHMESRL 62 (124)
Q Consensus 16 f~~~~~~~C~ll~~-GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~ 62 (124)
++...+.+++.+.+ ++-+|+||..... .....++..+++|++..+.
T Consensus 36 ~~~~~~~la~~~~~~~~d~Ivgv~~~Gi-~~a~~la~~l~~p~~~~rk 82 (175)
T PRK02304 36 FREVIDALVERYKDADIDKIVGIEARGF-IFGAALAYKLGIGFVPVRK 82 (175)
T ss_pred HHHHHHHHHHHhccCCCCEEEEEccchH-HHHHHHHHHhCCCEEEEEc
Confidence 44456677777764 7899999876543 6667788999999987643
No 203
>COG1929 Glycerate kinase [Carbohydrate transport and metabolism]
Probab=22.40 E-value=77 Score=27.59 Aligned_cols=25 Identities=28% Similarity=0.495 Sum_probs=20.4
Q ss_pred ccCcEEEEcCCCCCcHHHHHHhhcc
Q psy17128 28 QNGVQALFGPSDALLGPHVQSICEA 52 (124)
Q Consensus 28 ~~GV~AI~GP~s~~~~~~vqsic~~ 52 (124)
.+|..++|||+..++.+.|+.+-+.
T Consensus 201 ~~GAs~vFGPQKGat~~~v~~lD~~ 225 (378)
T COG1929 201 PQGASAVFGPQKGATPEMVEELDQA 225 (378)
T ss_pred CCCceeeecCccCCCHHHHHHHHHH
Confidence 4799999999999988887765543
No 204
>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w
Probab=22.37 E-value=93 Score=23.51 Aligned_cols=26 Identities=19% Similarity=0.314 Sum_probs=21.4
Q ss_pred hccCcEEEEcCCCCCcHHHHHHhhcc
Q psy17128 27 LQNGVQALFGPSDALLGPHVQSICEA 52 (124)
Q Consensus 27 l~~GV~AI~GP~s~~~~~~vqsic~~ 52 (124)
+..|+.+|+||+.+-=+.++..++.-
T Consensus 20 ~~~g~~~i~G~nGsGKStll~al~~l 45 (197)
T cd03278 20 FPPGLTAIVGPNGSGKSNIIDAIRWV 45 (197)
T ss_pred cCCCcEEEECCCCCCHHHHHHHHHHH
Confidence 45689999999998888888888744
No 205
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=21.94 E-value=1.9e+02 Score=19.20 Aligned_cols=41 Identities=20% Similarity=0.349 Sum_probs=25.9
Q ss_pred HHHHHhhccC-c-EEEEcC-CCCCcHHHHHHhhccCCCceEEee
Q psy17128 21 SVMCRQLQNG-V-QALFGP-SDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 21 ~~~C~ll~~G-V-~AI~GP-~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
+.....+++| + ..|+.. .++.....+..+|+..+||++.+.
T Consensus 17 ~~v~kai~~gkaklViiA~D~~~~~~~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 17 KQTVKALKRGSVKEVVVAEDADPRLTEKVEALANEKGVPVSKVD 60 (82)
T ss_pred HHHHHHHHcCCeeEEEEECCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence 3455556543 3 333333 334566678888999999998764
No 206
>PRK05805 phosphate butyryltransferase; Validated
Probab=21.79 E-value=4.5e+02 Score=21.53 Aligned_cols=97 Identities=9% Similarity=0.096 Sum_probs=54.1
Q ss_pred eEEEecCCchHHHHHHHHHhhccC-cEEEEcCCCCCcHHHHHHhhc-cC----C--CceEEeeCCCCCCC----CceEEE
Q psy17128 7 LVEVNVNTGLEEEESVMCRQLQNG-VQALFGPSDALLGPHVQSICE-AL----D--VPHMESRLDLELNS----KEFSVN 74 (124)
Q Consensus 7 I~~i~~~~~f~~~~~~~C~ll~~G-V~AI~GP~s~~~~~~vqsic~-~~----~--IP~i~~~~~~~~~~----~~f~vn 74 (124)
++-+...+..++ ...+++++++| +-|++..... ++.++..+-+ .. + +-|++.-..+..+. ..-.+|
T Consensus 68 ieIi~a~d~i~a-~~~A~~lVk~GeADa~v~G~~~-t~~~lr~~l~~~~g~~~~~~~s~~~~~~~p~~~~~l~~tD~~vn 145 (301)
T PRK05805 68 FEIIDEKDNRKA-ALKAVELVSSGKADMVMKGLVD-TANFLRAVLNKEIGLRTGKTMSHVAVFEVPKYDRLLFLTDAAFN 145 (301)
T ss_pred cEEECCCCcHHH-HHHHHHHHHCCCCCEEecCccC-HHHHHHHHHHHHhCCCCCCeEEEEEEEEecCCCceEEEECCEec
Confidence 444555555555 67889999875 7788855543 4466654222 21 2 22222211111111 123689
Q ss_pred eecCHHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCce--EEEEEe
Q psy17128 75 LYPSQKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWT--KVAIVY 120 (124)
Q Consensus 75 l~P~~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~--~v~ivY 120 (124)
..|+.+.+..-+.. -+++++.||++ ||+++-
T Consensus 146 ~~P~~~q~~~I~~~---------------a~~~~~~lG~e~PkVA~LS 178 (301)
T PRK05805 146 IAPDLKEKIDIINN---------------AVTVAHAIGIENPKVAPIC 178 (301)
T ss_pred cCcCHHHHHHHHHH---------------HHHHHHHcCCCCCeEEEEe
Confidence 99997765533322 23488999995 888873
No 207
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=21.36 E-value=54 Score=21.71 Aligned_cols=15 Identities=7% Similarity=0.587 Sum_probs=9.8
Q ss_pred hHHHHHHHhhcCceE
Q psy17128 101 NAAFKDVIRFLNWTK 115 (124)
Q Consensus 101 ~~a~~~li~~~~W~~ 115 (124)
..-+-.|+.+|||+.
T Consensus 12 e~il~~Lv~~yGW~~ 26 (64)
T PF09905_consen 12 ETILTELVEHYGWEE 26 (64)
T ss_dssp HHHHHHHHHHT-HHH
T ss_pred HHHHHHHHHHhCHHH
Confidence 344555999999974
No 208
>cd03801 GT1_YqgM_like This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold.
Probab=21.12 E-value=3.1e+02 Score=20.19 Aligned_cols=65 Identities=22% Similarity=0.289 Sum_probs=32.9
Q ss_pred cCCCceEEeeCCC--CC-CCCceEEEeecC-HHHHHHHHHhHHHhhhhHHHHhhHHHHHHHhhcCceEE
Q psy17128 52 ALDVPHMESRLDL--EL-NSKEFSVNLYPS-QKLLNAAFKDVIRFLNWTKKLLNAAFKDVIRFLNWTKV 116 (124)
Q Consensus 52 ~~~IP~i~~~~~~--~~-~~~~f~vnl~P~-~~~~~~Ai~d~~~~~~~~~~~l~~a~~~li~~~~W~~v 116 (124)
..++|.|...... +. ......+-..+. .+++..++..++.=-+.-......+...+.+.|.|+++
T Consensus 297 ~~g~pvI~~~~~~~~~~~~~~~~g~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 365 (374)
T cd03801 297 AAGLPVVASDVGGIPEVVEDGETGLLVPPGDPEALAEAILRLLDDPELRRRLGEAARERVAERFSWDRV 365 (374)
T ss_pred HcCCcEEEeCCCChhHHhcCCcceEEeCCCCHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHhcCHHHH
Confidence 4588999765421 11 112223333444 56777777774321111222233344456778888764
No 209
>TIGR01285 nifN nitrogenase molybdenum-iron cofactor biosynthesis protein NifN. This protein forms a complex with NifE, and appears as a NifEN in some species. NifEN is a required for producing the molybdenum-iron cofactor of molybdenum-requiring nitrogenases. NifN is closely related to the nitrogenase molybdenum-iron protein beta chain NifK. This model describes most examples of NifN but excludes some cases, such as the putative NifN of Chlorobium tepidum, for which a separate model may be created.
Probab=20.89 E-value=2.7e+02 Score=23.97 Aligned_cols=85 Identities=19% Similarity=0.144 Sum_probs=46.0
Q ss_pred HHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCC-CCceEEEeecCHHHHHHHHHhHH-----HhhhhH
Q psy17128 23 MCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELN-SKEFSVNLYPSQKLLNAAFKDVI-----RFLNWT 96 (124)
Q Consensus 23 ~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~-~~~f~vnl~P~~~~~~~Ai~d~~-----~~~~~~ 96 (124)
++++-+..+-.++||+....+ +.+-++++||++......... ... .-+.++++. ..+...
T Consensus 229 i~~~~~A~lniv~~~~~~~~a---~~Lee~~giP~~~~~~p~G~~~t~~-----------~l~~l~~~~g~~~~~~~~~~ 294 (432)
T TIGR01285 229 IRQIGQSCCTLAIGESMRRAA---SLLADRCGVPYIVFPSLMGLEAVDA-----------FLHVLMKISGRAVPERFERQ 294 (432)
T ss_pred HHhhccCcEEEEEChhHHHHH---HHHHHHHCCCeEecCCCcChHHHHH-----------HHHHHHHHHCCCccHHHHHH
Confidence 333334445555687654334 445668899999754322111 111 112222211 123345
Q ss_pred HHHhhHHHHHHHhhcCceEEEEEee
Q psy17128 97 KKLLNAAFKDVIRFLNWTKVAIVYE 121 (124)
Q Consensus 97 ~~~l~~a~~~li~~~~W~~v~ivYe 121 (124)
.+++..++.|.-.+++=++|+|..+
T Consensus 295 r~~~~~~l~~~~~~l~Gkrvai~~~ 319 (432)
T TIGR01285 295 RRQLQDAMLDTHFFLGGKKVAIAAE 319 (432)
T ss_pred HHHHHHHHHHHHHhhCCCEEEEEcC
Confidence 5667788888878888888877654
No 210
>PRK00300 gmk guanylate kinase; Provisional
Probab=20.84 E-value=1.1e+02 Score=22.57 Aligned_cols=25 Identities=28% Similarity=0.181 Sum_probs=19.7
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccCC
Q psy17128 30 GVQALFGPSDALLGPHVQSICEALD 54 (124)
Q Consensus 30 GV~AI~GP~s~~~~~~vqsic~~~~ 54 (124)
.+++|.||+.+.=+.....++..++
T Consensus 6 ~~i~i~G~sGsGKstl~~~l~~~~~ 30 (205)
T PRK00300 6 LLIVLSGPSGAGKSTLVKALLERDP 30 (205)
T ss_pred CEEEEECCCCCCHHHHHHHHHhhCc
Confidence 4899999999777777777777664
No 211
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=20.80 E-value=1.1e+02 Score=25.66 Aligned_cols=32 Identities=9% Similarity=0.089 Sum_probs=27.1
Q ss_pred CcEEEEcCCCCCcHHHHHHhhccCCCceEEee
Q psy17128 30 GVQALFGPSDALLGPHVQSICEALDVPHMESR 61 (124)
Q Consensus 30 GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~ 61 (124)
-+++|+||+.+-=+..--.++.+++.++|+.+
T Consensus 4 ~~i~I~GPTAsGKT~lai~LAk~~~~eIIs~D 35 (308)
T COG0324 4 KLIVIAGPTASGKTALAIALAKRLGGEIISLD 35 (308)
T ss_pred cEEEEECCCCcCHHHHHHHHHHHcCCcEEecc
Confidence 47899999997767777788999999999875
No 212
>PRK07524 hypothetical protein; Provisional
Probab=20.48 E-value=1.4e+02 Score=25.87 Aligned_cols=41 Identities=17% Similarity=0.195 Sum_probs=34.2
Q ss_pred HHHHHHhhc--cCcEEEEcCCCCCcHHHHHHhhccCCCceEEe
Q psy17128 20 ESVMCRQLQ--NGVQALFGPSDALLGPHVQSICEALDVPHMES 60 (124)
Q Consensus 20 ~~~~C~ll~--~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~ 60 (124)
.+++++++. +..+.+.|.......+.+..+++.+++|++++
T Consensus 191 i~~~~~~L~~AkrPvil~G~g~~~a~~~l~~lae~l~~pV~tt 233 (535)
T PRK07524 191 LAQAAERLAAARRPLILAGGGALAAAAALRALAERLDAPVALT 233 (535)
T ss_pred HHHHHHHHHhCCCcEEEECCChHHHHHHHHHHHHHHCCCEEEc
Confidence 567788886 46888888887667889999999999999976
No 213
>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=20.37 E-value=3.7e+02 Score=19.97 Aligned_cols=76 Identities=8% Similarity=-0.110 Sum_probs=37.0
Q ss_pred EEecCCchHHHHHHHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHh
Q psy17128 9 EVNVNTGLEEEESVMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKD 88 (124)
Q Consensus 9 ~i~~~~~f~~~~~~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d 88 (124)
....+++.+...+.+..+.++++-+|+--......+.+..+- ..++|.|.+....+.... -...++...-....++
T Consensus 34 ~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~~~~~~~~-~~~~pvV~i~~~~~~~~~---~~V~~d~~~~~~~~~~ 109 (269)
T cd06293 34 LCATRNRPERELTYLRWLDTNHVDGLIFVTNRPDDGALAKLI-NSYGNIVLVDEDVPGAKV---PKVFCDNEQGGRLATR 109 (269)
T ss_pred EEeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCHHHHHHHH-hcCCCEEEECCCCCCCCC---CEEEECCHHHHHHHHH
Confidence 333344455423334455566777777422222233344433 357999988654321111 1244565555555555
No 214
>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=20.19 E-value=3.8e+02 Score=20.02 Aligned_cols=80 Identities=19% Similarity=0.228 Sum_probs=40.3
Q ss_pred eEEEecCCchHHHHHHHHHhhccCcEEEE-cCCCCCc-HHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHH
Q psy17128 7 LVEVNVNTGLEEEESVMCRQLQNGVQALF-GPSDALL-GPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNA 84 (124)
Q Consensus 7 I~~i~~~~~f~~~~~~~C~ll~~GV~AI~-GP~s~~~-~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~ 84 (124)
+.....+.+.+...+.+-.++++++-+|+ .|..... .+.++.+ ...+||+|.+....... ....-...+++....+
T Consensus 32 v~~~~~~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~-~~~~iPvV~~~~~~~~~-~~~~~~v~~d~~~~g~ 109 (282)
T cd06318 32 LISTDAQGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAA-KAAGVPVVVVDSSINLE-AGVVTQVQSSNAKNGN 109 (282)
T ss_pred EEEEcCCCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHH-HHCCCCEEEecCCCCCC-cCeEEEEecCcHHHHH
Confidence 33334444555423334445567764444 5544332 3555554 57899999886432211 1112235556555555
Q ss_pred HHHh
Q psy17128 85 AFKD 88 (124)
Q Consensus 85 Ai~d 88 (124)
..++
T Consensus 110 ~~~~ 113 (282)
T cd06318 110 LVGE 113 (282)
T ss_pred HHHH
Confidence 5555
No 215
>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=20.17 E-value=3.9e+02 Score=20.22 Aligned_cols=77 Identities=9% Similarity=-0.057 Sum_probs=44.9
Q ss_pred HHHHhhccCcEEEEcCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhh
Q psy17128 22 VMCRQLQNGVQALFGPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLN 101 (124)
Q Consensus 22 ~~C~ll~~GV~AI~GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~ 101 (124)
..-.+..+++-+|+--......+.++. +...+||.+.+..+.. .. .-++.+++....+..++
T Consensus 48 ~~~~~~~~~~dgiii~~~~~~~~~~~~-~~~~~ipvV~~~~~~~-~~---~~~v~~d~~~~g~~~~~------------- 109 (283)
T cd06279 48 DSALVVSALVDGFIVYGVPRDDPLVAA-LLRRGLPVVVVDQPLP-PG---VPSVGIDDRAAAREAAR------------- 109 (283)
T ss_pred HHHHHHhcCCCEEEEeCCCCChHHHHH-HHHcCCCEEEEecCCC-CC---CCEEeeCcHHHHHHHHH-------------
Confidence 344455677777764222223345555 4678999998865322 11 12355666666666666
Q ss_pred HHHHHHHhhcCceEEEEEee
Q psy17128 102 AAFKDVIRFLNWTKVAIVYE 121 (124)
Q Consensus 102 ~a~~~li~~~~W~~v~ivYe 121 (124)
.+...|=++++++..
T Consensus 110 -----~L~~~g~~~i~~i~~ 124 (283)
T cd06279 110 -----HLLDLGHRRIGILGL 124 (283)
T ss_pred -----HHHHcCCCcEEEecC
Confidence 334457788888754
No 216
>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.
Probab=20.10 E-value=1.9e+02 Score=18.66 Aligned_cols=34 Identities=18% Similarity=0.246 Sum_probs=27.4
Q ss_pred cCcEEEEcCCCCCcHHHHHHhhccC---CCceEEeeC
Q psy17128 29 NGVQALFGPSDALLGPHVQSICEAL---DVPHMESRL 62 (124)
Q Consensus 29 ~GV~AI~GP~s~~~~~~vqsic~~~---~IP~i~~~~ 62 (124)
.+.+.|.||....=+.++..+++.. +.+++.+..
T Consensus 19 ~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~ 55 (151)
T cd00009 19 PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNA 55 (151)
T ss_pred CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEeh
Confidence 4678899999987788889999887 777776654
No 217
>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=20.05 E-value=3.7e+02 Score=19.86 Aligned_cols=70 Identities=13% Similarity=0.052 Sum_probs=38.2
Q ss_pred HhhccCcEEEE-cCCCCCcHHHHHHhhccCCCceEEeeCCCCCCCCceEEEeecCHHHHHHHHHhHHHhhhhHHHHhhHH
Q psy17128 25 RQLQNGVQALF-GPSDALLGPHVQSICEALDVPHMESRLDLELNSKEFSVNLYPSQKLLNAAFKDVIRFLNWTKKLLNAA 103 (124)
Q Consensus 25 ~ll~~GV~AI~-GP~s~~~~~~vqsic~~~~IP~i~~~~~~~~~~~~f~vnl~P~~~~~~~Ai~d~~~~~~~~~~~l~~a 103 (124)
.+..+++-+|+ .|.+.. .+ .....+||.+.+..+.. .... .+.+++....+..++
T Consensus 50 ~~~~~~~dgiii~~~~~~----~~-~~~~~gipvv~~~~~~~-~~~~---~V~~d~~~~g~~~~~--------------- 105 (265)
T cd06291 50 MLRQNQVDGIIAGTHNLG----IE-EYENIDLPIVSFDRYLS-ENIP---IVSSDNYEGGRLAAE--------------- 105 (265)
T ss_pred HHHHcCCCEEEEecCCcC----HH-HHhcCCCCEEEEeCCCC-CCCC---eEeechHHHHHHHHH---------------
Confidence 34455665555 444322 22 23467999998876433 1112 244554445555555
Q ss_pred HHHHHhhcCceEEEEEee
Q psy17128 104 FKDVIRFLNWTKVAIVYE 121 (124)
Q Consensus 104 ~~~li~~~~W~~v~ivYe 121 (124)
.+...|.+++.++..
T Consensus 106 ---~l~~~g~~~i~~i~~ 120 (265)
T cd06291 106 ---ELIERGCKHIAHIGG 120 (265)
T ss_pred ---HHHHcCCcEEEEEcc
Confidence 333458889888854
Done!