Query psy2801
Match_columns 126
No_of_seqs 112 out of 624
Neff 7.1
Searched_HMMs 46136
Date Fri Aug 16 17:18:49 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2801.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2801hhsearch_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 99.9 1.2E-26 2.6E-31 187.6 8.0 102 2-112 46-149 (372)
2 cd06390 PBP1_iGluR_AMPA_GluR1 99.9 9.1E-26 2E-30 181.6 8.6 100 3-111 40-141 (364)
3 cd06392 PBP1_iGluR_delta_1 N-t 99.9 9.4E-25 2E-29 178.2 10.7 107 3-112 46-163 (400)
4 cd06389 PBP1_iGluR_AMPA_GluR2 99.9 4.6E-23 1E-27 165.7 7.8 95 2-102 40-136 (370)
5 cd06383 PBP1_iGluR_AMPA_Like N 99.9 2.8E-22 6.1E-27 161.5 10.8 92 3-98 49-147 (368)
6 cd06388 PBP1_iGluR_AMPA_GluR4 99.9 3.6E-22 7.7E-27 160.9 9.7 102 3-113 47-150 (371)
7 cd06394 PBP1_iGluR_Kainate_KA1 99.9 7.4E-22 1.6E-26 157.7 8.5 96 4-102 50-152 (333)
8 cd06377 PBP1_iGluR_NMDA_NR3 N- 99.8 6.8E-20 1.5E-24 149.0 10.7 95 3-99 64-166 (382)
9 cd06391 PBP1_iGluR_delta_2 N-t 99.8 2.1E-19 4.5E-24 146.4 10.9 106 3-112 46-163 (400)
10 cd06380 PBP1_iGluR_AMPA N-term 99.8 6.8E-19 1.5E-23 140.5 10.4 106 3-114 46-153 (382)
11 cd06381 PBP1_iGluR_delta_like 99.8 1.9E-18 4.2E-23 139.1 9.6 97 4-100 47-154 (363)
12 cd06393 PBP1_iGluR_Kainate_Glu 99.7 1.4E-17 3.1E-22 133.7 10.5 93 4-99 57-154 (384)
13 KOG1054|consensus 99.7 7.4E-18 1.6E-22 141.7 6.9 115 2-126 73-189 (897)
14 cd06378 PBP1_iGluR_NMDA_NR2 N- 99.7 7.1E-17 1.5E-21 130.0 9.8 95 3-98 45-149 (362)
15 cd06351 PBP1_iGluR_N_LIVBP_lik 99.7 1.1E-16 2.5E-21 123.4 9.1 91 7-98 52-146 (328)
16 cd06365 PBP1_Pheromone_recepto 99.6 4.3E-16 9.3E-21 128.8 7.1 100 8-112 95-198 (469)
17 cd06375 PBP1_mGluR_groupII Lig 99.6 8.5E-16 1.8E-20 126.8 8.7 94 13-110 101-198 (458)
18 cd06269 PBP1_glutamate_recepto 99.6 6.4E-15 1.4E-19 110.8 11.4 88 7-95 59-151 (298)
19 cd06367 PBP1_iGluR_NMDA N-term 99.6 2.6E-15 5.5E-20 119.2 8.9 88 7-95 52-147 (362)
20 cd06386 PBP1_NPR_C_like Ligand 99.6 7.7E-15 1.7E-19 118.3 11.2 103 7-112 60-166 (387)
21 PF01094 ANF_receptor: Recepto 99.6 8.7E-16 1.9E-20 118.9 5.4 105 7-113 41-148 (348)
22 cd06376 PBP1_mGluR_groupIII Li 99.6 4.4E-15 9.6E-20 122.1 9.4 95 14-112 100-198 (463)
23 cd06374 PBP1_mGluR_groupI Liga 99.6 4.1E-15 8.9E-20 122.7 8.7 88 10-98 110-201 (472)
24 cd06361 PBP1_GPC6A_like Ligand 99.6 7.1E-15 1.5E-19 119.6 8.6 92 16-111 102-197 (403)
25 cd06379 PBP1_iGluR_NMDA_NR1 N- 99.5 3.8E-14 8.2E-19 113.3 9.7 94 4-98 64-169 (377)
26 cd06382 PBP1_iGluR_Kainate N-t 99.5 6.2E-14 1.3E-18 109.6 10.5 86 7-96 53-141 (327)
27 cd06364 PBP1_CaSR Ligand-bindi 99.5 2.4E-14 5.2E-19 119.8 8.3 96 13-112 114-213 (510)
28 cd06371 PBP1_sensory_GC_DEF_li 99.5 4.4E-14 9.5E-19 113.8 9.3 102 7-112 54-158 (382)
29 cd06372 PBP1_GC_G_like Ligand- 99.5 1E-13 2.2E-18 111.2 11.1 88 7-95 57-148 (391)
30 cd06362 PBP1_mGluR Ligand bind 99.5 5E-14 1.1E-18 115.0 8.8 98 11-112 97-198 (452)
31 cd06368 PBP1_iGluR_non_NMDA_li 99.5 9.6E-14 2.1E-18 107.9 9.0 98 7-112 52-152 (324)
32 cd06370 PBP1_Speract_GC_like L 99.4 7.3E-13 1.6E-17 107.1 10.3 101 7-112 59-162 (404)
33 cd06373 PBP1_NPR_like Ligand b 99.4 6E-13 1.3E-17 106.9 9.7 87 9-96 65-154 (396)
34 cd06363 PBP1_Taste_receptor Li 99.4 8.6E-13 1.9E-17 106.9 8.9 99 10-112 98-202 (410)
35 cd06385 PBP1_NPR_A Ligand-bind 99.4 1.5E-12 3.3E-17 104.9 10.0 95 15-110 72-172 (405)
36 cd06350 PBP1_GPCR_family_C_lik 99.4 1.8E-12 3.9E-17 101.5 9.4 93 16-112 90-186 (348)
37 cd06366 PBP1_GABAb_receptor Li 99.4 7.6E-12 1.6E-16 98.5 11.2 102 7-112 55-161 (350)
38 KOG1056|consensus 99.3 1.2E-12 2.5E-17 114.8 6.2 86 17-103 125-214 (878)
39 cd06352 PBP1_NPR_GC_like Ligan 99.3 1.5E-11 3.3E-16 98.1 9.7 97 10-110 60-162 (389)
40 cd06384 PBP1_NPR_B Ligand-bind 99.3 1.7E-11 3.7E-16 98.9 9.0 80 15-94 71-154 (399)
41 cd06342 PBP1_ABC_LIVBP_like Ty 99.0 1.9E-09 4.2E-14 83.7 9.4 97 12-112 61-161 (334)
42 cd06345 PBP1_ABC_ligand_bindin 99.0 2.4E-09 5.2E-14 84.2 8.6 88 8-95 57-155 (344)
43 cd06346 PBP1_ABC_ligand_bindin 99.0 2.6E-09 5.6E-14 83.2 8.2 100 9-112 58-163 (312)
44 cd06348 PBP1_ABC_ligand_bindin 99.0 6.3E-09 1.4E-13 81.7 9.8 102 7-112 56-163 (344)
45 cd06347 PBP1_ABC_ligand_bindin 98.9 9.4E-09 2E-13 79.7 10.3 99 8-112 57-162 (334)
46 cd06338 PBP1_ABC_ligand_bindin 98.9 2.9E-09 6.3E-14 83.4 7.3 84 10-95 63-152 (345)
47 cd04509 PBP1_ABC_transporter_G 98.9 1.2E-08 2.6E-13 76.4 10.0 100 9-112 58-162 (299)
48 cd06340 PBP1_ABC_ligand_bindin 98.9 3E-09 6.4E-14 84.1 6.5 87 7-95 59-155 (347)
49 cd06344 PBP1_ABC_ligand_bindin 98.9 1.2E-08 2.5E-13 80.1 9.2 84 9-95 56-145 (332)
50 cd06335 PBP1_ABC_ligand_bindin 98.8 3.5E-08 7.6E-13 78.0 10.0 94 16-112 66-164 (347)
51 cd06330 PBP1_Arsenic_SBP_like 98.8 2.3E-08 5E-13 78.5 7.2 102 8-113 57-165 (346)
52 cd06329 PBP1_SBP_like_3 Peripl 98.7 4.4E-08 9.6E-13 77.2 6.9 101 8-112 57-169 (342)
53 cd06268 PBP1_ABC_transporter_L 98.7 1.6E-07 3.4E-12 70.3 9.3 100 9-112 58-161 (298)
54 cd06336 PBP1_ABC_ligand_bindin 98.6 2.3E-07 5E-12 73.3 8.6 98 9-112 62-164 (347)
55 cd06349 PBP1_ABC_ligand_bindin 98.6 3.9E-07 8.5E-12 71.4 9.4 93 15-112 65-161 (340)
56 cd06331 PBP1_AmiC_like Type I 98.6 1.7E-07 3.6E-12 73.4 7.0 83 8-95 57-143 (333)
57 cd06343 PBP1_ABC_ligand_bindin 98.6 1.7E-07 3.6E-12 74.1 6.9 97 12-112 68-170 (362)
58 PRK15404 leucine ABC transport 98.5 3.3E-07 7.2E-12 73.6 7.8 82 12-95 87-172 (369)
59 cd06359 PBP1_Nba_like Type I p 98.4 1.1E-06 2.3E-11 69.0 8.0 81 16-97 64-148 (333)
60 cd06327 PBP1_SBP_like_1 Peripl 98.4 1E-06 2.2E-11 69.0 6.4 93 16-112 65-161 (334)
61 cd06326 PBP1_STKc_like Type I 98.3 3.6E-06 7.7E-11 65.5 8.8 84 9-94 59-146 (336)
62 cd06332 PBP1_aromatic_compound 98.3 3.7E-06 7.9E-11 65.1 7.7 79 16-95 64-145 (333)
63 TIGR03863 PQQ_ABC_bind ABC tra 98.3 4.6E-06 9.9E-11 67.0 8.1 83 12-95 54-139 (347)
64 cd06360 PBP1_alkylbenzenes_lik 98.2 1E-05 2.3E-10 62.8 9.3 100 10-112 57-160 (336)
65 cd06339 PBP1_YraM_LppC_lipopro 98.2 6.3E-06 1.4E-10 65.2 7.7 80 11-95 53-135 (336)
66 cd06333 PBP1_ABC-type_HAAT_lik 98.2 1.5E-05 3.3E-10 61.6 9.0 80 13-95 61-144 (312)
67 cd06328 PBP1_SBP_like_2 Peripl 98.1 2.7E-05 5.8E-10 61.3 9.3 92 16-112 67-162 (333)
68 cd06337 PBP1_ABC_ligand_bindin 98.1 2E-05 4.3E-10 62.7 7.8 86 12-97 63-159 (357)
69 cd01391 Periplasmic_Binding_Pr 98.0 8.1E-05 1.8E-09 54.0 9.4 77 15-95 56-135 (269)
70 cd06358 PBP1_NHase Type I peri 97.9 8.2E-05 1.8E-09 58.3 8.7 91 13-112 62-158 (333)
71 cd06334 PBP1_ABC_ligand_bindin 97.8 0.00016 3.4E-09 57.7 9.2 96 12-112 61-166 (351)
72 COG0683 LivK ABC-type branched 97.8 7E-05 1.5E-09 60.2 6.9 82 15-97 76-162 (366)
73 PF13458 Peripla_BP_6: Peripla 97.8 3.6E-05 7.9E-10 59.8 5.1 75 16-95 68-146 (343)
74 cd06356 PBP1_Amide_Urea_BP_lik 97.6 0.00042 9E-09 54.5 8.3 78 15-97 65-146 (334)
75 cd06355 PBP1_FmdD_like Peripla 97.5 0.00055 1.2E-08 54.3 7.7 78 15-97 65-147 (348)
76 TIGR03407 urea_ABC_UrtA urea A 97.3 0.00093 2E-08 53.2 6.8 78 15-97 66-148 (359)
77 cd06341 PBP1_ABC_ligand_bindin 97.1 0.002 4.4E-08 50.3 7.4 78 13-95 62-143 (341)
78 KOG1053|consensus 97.1 0.0046 1E-07 55.6 9.6 92 5-97 87-186 (1258)
79 TIGR03669 urea_ABC_arch urea A 97.0 0.0027 5.8E-08 51.4 7.4 80 12-97 62-147 (374)
80 cd06369 PBP1_GC_C_enterotoxin_ 96.9 0.0025 5.5E-08 52.3 5.7 86 19-109 83-181 (380)
81 cd06357 PBP1_AmiC Periplasmic 96.6 0.0075 1.6E-07 48.0 6.9 79 12-95 61-143 (360)
82 KOG4440|consensus 95.5 0.02 4.3E-07 50.0 4.5 99 9-108 86-194 (993)
83 KOG1055|consensus 93.5 0.031 6.8E-07 49.6 1.0 75 19-95 115-192 (865)
84 PF04348 LppC: LppC putative l 92.0 0.18 3.9E-06 43.2 3.7 94 15-111 276-373 (536)
85 cd01537 PBP1_Repressors_Sugar_ 91.5 1.1 2.4E-05 32.5 7.0 91 15-112 53-146 (264)
86 cd06267 PBP1_LacI_sugar_bindin 90.1 2.7 5.9E-05 30.5 8.0 93 12-113 50-145 (264)
87 cd06320 PBP1_allose_binding Pe 88.4 2.9 6.3E-05 31.2 7.3 90 15-113 55-151 (275)
88 cd06323 PBP1_ribose_binding Pe 80.4 13 0.00029 27.2 7.6 90 15-112 53-149 (268)
89 cd01536 PBP1_ABC_sugar_binding 76.8 26 0.00056 25.4 8.9 91 15-112 53-149 (267)
90 cd06325 PBP1_ABC_uncharacteriz 76.7 16 0.00035 27.0 7.2 94 15-112 58-158 (281)
91 COG0563 Adk Adenylate kinase a 73.1 3.4 7.4E-05 30.3 2.6 29 19-47 3-31 (178)
92 cd06309 PBP1_YtfQ_like Peripla 71.5 39 0.00084 25.0 8.3 93 15-112 53-152 (273)
93 cd01545 PBP1_SalR Ligand-bindi 70.4 36 0.00077 24.9 7.7 71 15-94 54-128 (270)
94 cd06282 PBP1_GntR_like_2 Ligan 67.3 40 0.00086 24.6 7.3 69 15-93 53-125 (266)
95 cd06319 PBP1_ABC_sugar_binding 65.9 51 0.0011 24.3 8.6 92 15-113 53-154 (277)
96 PF13207 AAA_17: AAA domain; P 65.6 4.7 0.0001 26.5 1.8 32 18-49 1-32 (121)
97 cd02020 CMPK Cytidine monophos 63.9 7.9 0.00017 26.1 2.8 31 18-48 1-31 (147)
98 PRK14530 adenylate kinase; Pro 62.3 10 0.00022 28.0 3.3 32 16-47 3-34 (215)
99 PRK08118 topology modulation p 60.7 9.4 0.0002 27.4 2.8 31 18-48 3-33 (167)
100 PF13433 Peripla_BP_5: Peripla 55.5 28 0.0006 28.7 4.9 104 5-113 55-161 (363)
101 PF11492 Dicistro_VP4: Cricket 54.5 11 0.00024 22.8 1.8 40 28-84 15-56 (56)
102 cd06284 PBP1_LacI_like_6 Ligan 53.1 86 0.0019 22.8 8.2 91 13-112 51-143 (267)
103 TIGR01359 UMP_CMP_kin_fam UMP- 53.0 17 0.00037 25.7 3.1 31 18-48 1-31 (183)
104 PF02863 Arg_repressor_C: Argi 52.9 33 0.00071 21.2 4.0 48 65-112 18-69 (70)
105 COG4213 XylF ABC-type xylose t 49.9 35 0.00077 27.8 4.6 57 9-70 73-130 (341)
106 cd06300 PBP1_ABC_sugar_binding 49.7 1E+02 0.0022 22.6 8.6 71 14-93 57-134 (272)
107 TIGR01351 adk adenylate kinase 49.5 20 0.00042 26.4 3.0 30 19-48 2-31 (210)
108 cd06296 PBP1_CatR_like Ligand- 49.4 1E+02 0.0022 22.5 8.0 72 13-93 51-126 (270)
109 PTZ00088 adenylate kinase 1; P 49.4 19 0.00042 27.4 3.0 31 19-49 9-39 (229)
110 TIGR00315 cdhB CO dehydrogenas 49.3 51 0.0011 24.0 5.1 33 16-48 28-62 (162)
111 PRK07261 topology modulation p 48.7 23 0.0005 25.4 3.2 29 19-47 3-31 (171)
112 COG3172 NadR Predicted ATPase/ 48.4 14 0.00031 27.5 2.0 30 16-45 8-37 (187)
113 cd06409 PB1_MUG70 The MUG70 pr 46.8 44 0.00094 21.9 3.9 37 62-98 12-55 (86)
114 cd06317 PBP1_ABC_sugar_binding 46.3 1.1E+02 0.0025 22.2 7.4 73 15-93 54-134 (275)
115 PRK04182 cytidylate kinase; Pr 45.7 25 0.00055 24.5 3.0 29 18-46 2-30 (180)
116 PRK06217 hypothetical protein; 45.6 27 0.00058 25.0 3.1 29 19-47 4-32 (183)
117 TIGR02173 cyt_kin_arch cytidyl 45.3 26 0.00055 24.3 2.9 30 18-47 2-31 (171)
118 TIGR01360 aden_kin_iso1 adenyl 44.3 26 0.00057 24.6 2.9 31 17-47 4-34 (188)
119 cd06321 PBP1_ABC_sugar_binding 44.2 1.3E+02 0.0027 22.1 7.3 82 21-113 62-149 (271)
120 cd06273 PBP1_GntR_like_1 This 44.1 1.2E+02 0.0027 22.0 8.6 51 35-93 72-125 (268)
121 TIGR00333 nrdI ribonucleoside- 43.7 61 0.0013 22.5 4.5 52 17-86 64-125 (125)
122 PLN02165 adenylate isopentenyl 43.5 24 0.00052 28.7 2.8 39 8-46 35-73 (334)
123 cd06301 PBP1_rhizopine_binding 42.9 1.3E+02 0.0029 22.0 8.4 92 15-112 54-151 (272)
124 PF10566 Glyco_hydro_97: Glyco 42.0 62 0.0014 25.6 4.9 40 71-114 33-86 (273)
125 PRK10653 D-ribose transporter 42.0 1.5E+02 0.0032 22.3 8.8 71 15-92 80-156 (295)
126 PRK05057 aroK shikimate kinase 41.7 42 0.00091 24.0 3.6 33 16-48 4-36 (172)
127 cd06308 PBP1_sensor_kinase_lik 41.1 1.4E+02 0.0031 21.9 8.0 76 30-113 71-151 (270)
128 PRK00023 cmk cytidylate kinase 40.9 27 0.00059 26.3 2.6 35 14-48 2-36 (225)
129 COG1219 ClpX ATP-dependent pro 40.4 26 0.00056 29.0 2.5 68 18-94 99-170 (408)
130 cd06311 PBP1_ABC_sugar_binding 39.7 1.5E+02 0.0033 21.8 8.6 74 15-95 58-138 (274)
131 PF01745 IPT: Isopentenyl tran 39.0 18 0.0004 28.0 1.4 31 17-47 2-32 (233)
132 PF10850 DUF2653: Protein of u 38.9 45 0.00099 22.1 3.1 34 86-119 30-76 (91)
133 cd01428 ADK Adenylate kinase ( 38.2 39 0.00084 23.9 3.0 29 19-47 2-30 (194)
134 PLN02674 adenylate kinase 38.0 43 0.00092 25.9 3.3 32 17-48 32-63 (244)
135 PRK00091 miaA tRNA delta(2)-is 37.3 47 0.001 26.5 3.6 32 16-47 4-35 (307)
136 cd06313 PBP1_ABC_sugar_binding 36.3 1.8E+02 0.0039 21.6 9.6 92 15-112 53-151 (272)
137 PRK14528 adenylate kinase; Pro 35.9 47 0.001 24.0 3.2 31 18-48 3-33 (186)
138 COG1438 ArgR Arginine represso 35.8 57 0.0012 23.6 3.5 33 65-97 97-130 (150)
139 PF03096 Ndr: Ndr family; Int 35.7 28 0.00062 27.7 2.1 58 31-94 47-108 (283)
140 TIGR00017 cmk cytidylate kinas 35.7 42 0.00091 25.2 2.9 31 18-48 4-34 (217)
141 PF09657 Cas_Csx8: CRISPR-asso 34.6 14 0.00029 31.2 0.1 25 65-89 3-30 (441)
142 PRK14527 adenylate kinase; Pro 34.6 43 0.00093 24.1 2.8 31 17-47 7-37 (191)
143 PRK14532 adenylate kinase; Pro 34.5 53 0.0011 23.4 3.2 30 19-48 3-32 (188)
144 PRK14531 adenylate kinase; Pro 33.8 47 0.001 23.8 2.8 30 18-47 4-33 (183)
145 PLN02200 adenylate kinase fami 33.6 48 0.001 25.2 3.0 31 18-48 45-75 (234)
146 cd06278 PBP1_LacI_like_2 Ligan 33.0 1.9E+02 0.0041 20.9 8.3 72 14-95 51-126 (266)
147 cd06310 PBP1_ABC_sugar_binding 32.9 2E+02 0.0043 21.0 8.7 93 12-112 52-151 (273)
148 PRK00279 adk adenylate kinase; 32.7 56 0.0012 24.0 3.2 30 19-48 3-32 (215)
149 cd06295 PBP1_CelR Ligand bindi 32.1 2E+02 0.0044 21.0 8.3 72 32-112 79-153 (275)
150 TIGR00174 miaA tRNA isopenteny 31.9 62 0.0013 25.7 3.4 30 18-47 1-30 (287)
151 PRK03839 putative kinase; Prov 31.7 54 0.0012 23.2 2.9 31 18-48 2-32 (180)
152 PRK02496 adk adenylate kinase; 31.6 56 0.0012 23.2 2.9 29 19-47 4-32 (184)
153 PRK01184 hypothetical protein; 31.4 59 0.0013 23.0 3.0 30 18-48 3-32 (184)
154 cd06312 PBP1_ABC_sugar_binding 31.3 2.1E+02 0.0046 21.0 8.7 74 15-93 55-134 (271)
155 PF00004 AAA: ATPase family as 30.9 65 0.0014 20.8 3.0 32 19-50 1-32 (132)
156 PRK13947 shikimate kinase; Pro 30.6 62 0.0014 22.4 3.0 30 19-48 4-33 (171)
157 KOG3843|consensus 30.4 31 0.00067 27.9 1.5 26 20-45 166-191 (432)
158 cd00464 SK Shikimate kinase (S 30.3 63 0.0014 21.8 2.9 30 19-48 2-31 (154)
159 cd01786 STE50_RA Ubiquitin-lik 30.2 1.7E+02 0.0037 19.6 5.6 54 60-113 26-87 (98)
160 PRK15116 sulfur acceptor prote 30.0 2.6E+02 0.0057 21.9 6.6 70 20-95 124-209 (268)
161 PRK13949 shikimate kinase; Pro 29.9 61 0.0013 23.1 2.9 29 19-47 4-32 (169)
162 PRK00131 aroK shikimate kinase 29.8 83 0.0018 21.5 3.5 30 18-47 6-35 (175)
163 PRK06547 hypothetical protein; 29.8 97 0.0021 22.3 3.9 32 15-46 14-45 (172)
164 PF00205 TPP_enzyme_M: Thiamin 29.7 25 0.00055 23.8 0.8 37 16-52 12-50 (137)
165 PRK14730 coaE dephospho-CoA ki 29.5 69 0.0015 23.5 3.2 30 17-46 2-31 (195)
166 COG1117 PstB ABC-type phosphat 29.1 59 0.0013 25.4 2.7 25 15-40 32-56 (253)
167 cd06289 PBP1_MalI_like Ligand- 29.0 2.2E+02 0.0049 20.5 7.7 70 15-93 53-126 (268)
168 cd03264 ABC_drug_resistance_li 28.3 80 0.0017 22.8 3.3 26 15-40 24-49 (211)
169 PF13407 Peripla_BP_4: Peripla 28.3 1.8E+02 0.004 21.1 5.3 90 15-112 53-150 (257)
170 PF11735 CAP59_mtransfer: Cryp 26.7 1E+02 0.0022 23.9 3.7 36 72-107 20-56 (241)
171 PF10141 ssDNA-exonuc_C: Singl 26.3 1.3E+02 0.0027 22.2 4.1 50 69-118 61-115 (195)
172 PF00406 ADK: Adenylate kinase 26.2 39 0.00085 23.2 1.3 28 21-48 1-28 (151)
173 cd01575 PBP1_GntR Ligand-bindi 26.0 2.6E+02 0.0056 20.2 7.4 51 36-94 73-126 (268)
174 COG0324 MiaA tRNA delta(2)-iso 26.0 87 0.0019 25.2 3.3 32 16-47 3-34 (308)
175 PLN02821 1-hydroxy-2-methyl-2- 25.7 57 0.0012 27.8 2.3 29 17-45 364-392 (460)
176 cd00122 MBD MeCP2, MBD1, MBD2, 25.7 1.5E+02 0.0034 17.6 4.0 24 89-113 27-50 (62)
177 PRK10014 DNA-binding transcrip 25.3 3.1E+02 0.0068 20.9 8.4 51 35-93 138-191 (342)
178 PRK00945 acetyl-CoA decarbonyl 25.0 94 0.002 22.8 3.1 34 16-49 35-71 (171)
179 PRK14526 adenylate kinase; Pro 25.0 86 0.0019 23.4 3.0 30 19-48 3-32 (211)
180 PF09905 DUF2132: Uncharacteri 24.9 47 0.001 20.6 1.3 41 71-112 11-51 (64)
181 cd04163 Era Era subfamily. Er 24.9 88 0.0019 20.6 2.8 25 15-39 2-26 (168)
182 PF15088 NADH_dh_m_C1: NADH de 24.9 69 0.0015 18.7 1.9 27 83-118 13-39 (49)
183 cd06271 PBP1_AglR_RafR_like Li 24.9 2.7E+02 0.0059 20.1 6.7 51 36-94 77-130 (268)
184 PRK09825 idnK D-gluconate kina 24.8 1E+02 0.0022 22.1 3.3 32 15-46 2-33 (176)
185 PRK14529 adenylate kinase; Pro 24.7 64 0.0014 24.5 2.3 30 19-48 3-32 (223)
186 PRK00300 gmk guanylate kinase; 24.1 1E+02 0.0022 22.1 3.2 25 17-41 6-30 (205)
187 TIGR02189 GlrX-like_plant Glut 23.8 2.1E+02 0.0046 18.5 5.5 75 13-103 4-78 (99)
188 PRK13808 adenylate kinase; Pro 23.7 81 0.0018 25.6 2.8 29 19-47 3-31 (333)
189 PLN02748 tRNA dimethylallyltra 23.6 93 0.002 26.5 3.2 30 17-46 23-52 (468)
190 PF02571 CbiJ: Precorrin-6x re 23.6 3.5E+02 0.0075 20.9 6.2 59 15-78 64-125 (249)
191 PRK05066 arginine repressor; P 23.6 2.7E+02 0.0058 20.0 5.2 50 65-114 98-152 (156)
192 PRK05426 peptidyl-tRNA hydrola 23.4 1.2E+02 0.0025 22.6 3.4 48 65-112 59-125 (189)
193 PF04028 DUF374: Domain of unk 23.3 1.2E+02 0.0027 19.0 3.1 49 63-115 12-61 (74)
194 cd06305 PBP1_methylthioribose_ 23.2 3E+02 0.0065 20.0 7.3 70 15-93 53-129 (273)
195 COG1196 Smc Chromosome segrega 22.9 49 0.0011 31.1 1.6 38 6-43 14-51 (1163)
196 cd03273 ABC_SMC2_euk Eukaryoti 22.9 1E+02 0.0022 23.2 3.1 28 13-40 22-49 (251)
197 PLN02459 probable adenylate ki 22.8 99 0.0022 24.2 3.1 30 19-48 32-61 (261)
198 PF08854 DUF1824: Domain of un 22.8 70 0.0015 22.4 2.0 29 71-99 24-53 (125)
199 COG4148 ModC ABC-type molybdat 22.6 93 0.002 25.4 2.9 24 16-39 24-47 (352)
200 COG3919 Predicted ATP-grasp en 22.0 3.4E+02 0.0073 22.4 5.9 82 19-106 6-95 (415)
201 PRK13477 bifunctional pantoate 21.9 93 0.002 26.8 2.9 31 17-47 285-315 (512)
202 cd00755 YgdL_like Family of ac 21.8 3.6E+02 0.0079 20.4 6.6 70 20-95 105-183 (231)
203 PRK13602 putative ribosomal pr 21.8 2.2E+02 0.0047 18.0 4.1 30 19-48 30-60 (82)
204 cd01538 PBP1_ABC_xylose_bindin 21.7 3.5E+02 0.0076 20.2 8.3 91 15-113 53-154 (288)
205 PRK03731 aroL shikimate kinase 21.5 1.1E+02 0.0024 21.2 2.9 30 18-47 4-33 (171)
206 COG1102 Cmk Cytidylate kinase 21.5 92 0.002 23.2 2.5 29 18-46 2-30 (179)
207 PF09949 DUF2183: Uncharacteri 21.4 1.6E+02 0.0035 19.6 3.5 81 23-116 6-90 (100)
208 cd02406 CRS2 Chloroplast RNA s 21.4 99 0.0021 23.1 2.7 81 29-110 23-122 (191)
209 PRK13946 shikimate kinase; Pro 21.3 1.3E+02 0.0029 21.5 3.3 31 17-47 11-41 (184)
210 cd06316 PBP1_ABC_sugar_binding 21.1 3.6E+02 0.0078 20.1 8.7 70 21-94 61-136 (294)
211 PF04468 PSP1: PSP1 C-terminal 21.0 2.2E+02 0.0047 18.3 4.0 34 82-119 51-84 (88)
212 PRK13814 pyrB aspartate carbam 21.0 1.9E+02 0.004 23.2 4.3 81 2-84 142-226 (310)
213 cd06298 PBP1_CcpA_like Ligand- 20.6 3.4E+02 0.0073 19.6 8.3 89 13-112 51-145 (268)
214 PRK08099 bifunctional DNA-bind 20.6 1.4E+02 0.0031 24.6 3.7 37 9-45 212-248 (399)
215 cd06322 PBP1_ABC_sugar_binding 20.5 3.4E+02 0.0074 19.6 8.8 71 15-93 53-130 (267)
216 PF04131 NanE: Putative N-acet 20.5 2.5E+02 0.0055 21.1 4.7 71 29-114 20-92 (192)
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=99.93 E-value=1.2e-26 Score=187.60 Aligned_cols=102 Identities=29% Similarity=0.603 Sum_probs=89.8
Q ss_pred chhhh--HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHHHHHH
Q psy2801 2 IQNVF--FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAIIDTV 79 (126)
Q Consensus 2 ~~~~f--~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai~dli 79 (126)
..||| ++++|+++++||+|||||+++.++.+++++|+.++||||+++++.+ ...+|.++|+|++++||+|||
T Consensus 46 ~~dsf~~~~~~C~l~~~GV~AIfGp~~~~s~~~v~s~c~~~~iP~i~~~~~~~------~~~~~~l~l~P~l~~Ai~diI 119 (372)
T cd06387 46 SSNSFSVTNAFCSQFSRGVYAIFGFYDQMSMNTLTSFCGALHTSFITPSFPTD------ADVQFVIQMRPALKGAILSLL 119 (372)
T ss_pred CCChHHHHHHHHHHhhcccEEEEecCCHhHHHHHHHhhccccCCeeeeCCCCC------CCCceEEEEChhHHHHHHHHH
Confidence 36899 8999999999999999999999999999999999999999877632 355899999999999999999
Q ss_pred HHcCCcEEEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 80 KYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 80 ~~f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
++||||+|++|||+++|+.+ +|.|.+.+.+
T Consensus 120 ~~~~Wr~~~~iYd~d~gl~~---Lq~L~~~~~~ 149 (372)
T cd06387 120 AHYKWEKFVYLYDTERGFSI---LQAIMEAAVQ 149 (372)
T ss_pred HhcCCCEEEEEecCchhHHH---HHHHHHhhcc
Confidence 99999999999999999964 5555555544
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=99.93 E-value=9.1e-26 Score=181.61 Aligned_cols=100 Identities=24% Similarity=0.590 Sum_probs=87.0
Q ss_pred hhhh--HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHHHHHHH
Q psy2801 3 QNVF--FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAIIDTVK 80 (126)
Q Consensus 3 ~~~f--~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai~dli~ 80 (126)
.||| ++++|+++++||+|||||+++.++.+++++|+.++||+|+++++. ....+|+++|+|++++||+|||+
T Consensus 40 ~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v~sic~~~~vP~i~~~~~~------~~~~~~~i~~~P~~~~Ai~diI~ 113 (364)
T cd06390 40 SDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNMLTSFCGALHVCFITPSFPV------DTSNQFVLQLRPELQDALISVIE 113 (364)
T ss_pred ccHHHHHHHHHHHhhcCceEEEccCChhHHHHHHHhhcCCCCCceecCCCC------CCCCceEEEeChhHHHHHHHHHH
Confidence 5899 899999999999999999999999999999999999999987742 13457899999999999999999
Q ss_pred HcCCcEEEEEEeCCCccccCCChHHHHHHHH
Q psy2801 81 YYGWKNIIYMYDSHDEMFYEGSPEFLRVFCH 111 (126)
Q Consensus 81 ~f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~ 111 (126)
+|||++|++|||+|+|+.+. +.|.+.+.
T Consensus 114 ~~~W~~v~iIYd~d~g~~~l---q~l~~~~~ 141 (364)
T cd06390 114 HYKWQKFVYIYDADRGLSVL---QKVLDTAA 141 (364)
T ss_pred HcCCcEEEEEEeCCccHHHH---HHHHHhhh
Confidence 99999999999988887554 44444443
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=99.92 E-value=9.4e-25 Score=178.19 Aligned_cols=107 Identities=18% Similarity=0.347 Sum_probs=88.6
Q ss_pred hhhh--HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCC-------CCCCCCCCCceEEeeCC--H
Q psy2801 3 QNVF--FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKV-------LAPSSGFLDYAISMRPD--Y 71 (126)
Q Consensus 3 ~~~f--~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~-------~~~~~~~~~f~~~~~P~--~ 71 (126)
.|+| ++++|+++++||+|||||+++.++.+|+++|+.++||||++++.+.. ..++....+|.++|+|+ +
T Consensus 46 ~d~F~~~~~ac~l~~~gV~AI~Gp~s~~~a~~v~sic~~l~VP~is~~~~~~~~~~~~~~~~p~~~~~~~~~~lrp~~~~ 125 (400)
T cd06392 46 NNPFQAVQEACDLMTQGILALVTSTGCASANALQSLTDAMHIPHLFVQRNSGGSPRTACHLNPSPEGEEYTLAARPPVRL 125 (400)
T ss_pred CChhHHHHHHHHHHhcCeEEEECCCchhHHHHHHHHhccCcCCcEeecccccccccccccCCCCcCcCceeEEecCchHH
Confidence 4788 78999999999999999999999999999999999999998552210 01233566899999999 8
Q ss_pred HHHHHHHHHHcCCcEEEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 72 HQAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 72 ~~Ai~dli~~f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
.+||+|||+||+||+|++|||||+|+.+++ .|.+.+.+
T Consensus 126 ~~Ai~dlV~~~~W~~v~~iYD~d~gl~~lq---~L~~~~~~ 163 (400)
T cd06392 126 NDVMLKLVTELRWQKFIVFYDSEYDIRGLQ---SFLDQASR 163 (400)
T ss_pred HHHHHHHHHhCCCcEEEEEEECcccHHHHH---HHHHHHhh
Confidence 999999999999999999999889987754 44444444
No 4
>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=99.88 E-value=4.6e-23 Score=165.68 Aligned_cols=95 Identities=36% Similarity=0.746 Sum_probs=85.0
Q ss_pred chhhh--HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHHHHHH
Q psy2801 2 IQNVF--FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAIIDTV 79 (126)
Q Consensus 2 ~~~~f--~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai~dli 79 (126)
..||| ++++|+++++||+|||||.++.++.+++++|+.++||+|+++++. +....|.++++|++.+|++|++
T Consensus 40 ~~dsf~~~~~~C~~~~~GV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~~------~~~~~f~~~~~p~~~~ai~d~i 113 (370)
T cd06389 40 VANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNTITSFCGTLHVSFITPSFPT------DGTHPFVIQMRPDLKGALLSLI 113 (370)
T ss_pred ccchHHHHHHHHHHhhcCcEEEEecCCHHHHHHHHHhhccCCCCeeeecCCC------CCCCceEEEecchhhhHHHHHH
Confidence 35899 889999999999999999999999999999999999999987662 2356899999999999999999
Q ss_pred HHcCCcEEEEEEeCCCccccCCC
Q psy2801 80 KYYGWKNIIYMYDSHDEMFYEGS 102 (126)
Q Consensus 80 ~~f~W~~v~iiY~dd~gl~~~~~ 102 (126)
++|||++|++|||+|+|+.+.+.
T Consensus 114 ~~~~wk~vailYdsd~gl~~lq~ 136 (370)
T cd06389 114 EYYQWDKFAYLYDSDRGLSTLQA 136 (370)
T ss_pred HhcCCcEEEEEecCchHHHHHHH
Confidence 99999999999998778765444
No 5
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=99.88 E-value=2.8e-22 Score=161.55 Aligned_cols=92 Identities=21% Similarity=0.345 Sum_probs=81.5
Q ss_pred hhhh--HHHHhhccCCCc--EEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHH
Q psy2801 3 QNVF--FVSVCNQFSRGV--FSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAI 75 (126)
Q Consensus 3 ~~~f--~~~~C~~~~~gv--~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai 75 (126)
.|+| ++++|+++++|+ .|||||+++.++.+++++|+.++||+|+++++.. .+.+.+|+++++|+ +++||
T Consensus 49 ~d~~~~~~~~C~~~~~gv~~~AIiGp~ss~~a~~V~si~~~~~IP~Is~s~~~~----~~~~~p~~ir~~Ps~~~~~~Ai 124 (368)
T cd06383 49 NDVKVALIEVCDKADSAIVPHLVLDTTTCGDASEIKSVTGALGIPTFSASYGQE----GDLEQPYLIQLMPPADDIVEAI 124 (368)
T ss_pred CcHHHHHHHHHHHHHccCCcEEEECCCcchhHHHHHHHHhccCCCEEEccCCCc----CcccCceEEEEeCChHHHHHHH
Confidence 3677 678999999999 8999999999999999999999999999876532 22467899999998 69999
Q ss_pred HHHHHHcCCcEEEEEEeCCCccc
Q psy2801 76 IDTVKYYGWKNIIYMYDSHDEMF 98 (126)
Q Consensus 76 ~dli~~f~W~~v~iiY~dd~gl~ 98 (126)
+|||+||+|++|++||+|++|+.
T Consensus 125 ~dlI~~f~W~~v~iIYddd~gl~ 147 (368)
T cd06383 125 RDIVSYYNITNAAILYDDDFVMD 147 (368)
T ss_pred HHHHHHCCCcEEEEEEEcCchhh
Confidence 99999999999999999999863
No 6
>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=99.87 E-value=3.6e-22 Score=160.93 Aligned_cols=102 Identities=25% Similarity=0.589 Sum_probs=89.3
Q ss_pred hhhh--HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHHHHHHH
Q psy2801 3 QNVF--FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAIIDTVK 80 (126)
Q Consensus 3 ~~~f--~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai~dli~ 80 (126)
.||| ++++|+++++||+|||||.++.++.+++++|+.++||||+++++. .....|.++++|++..|++|+++
T Consensus 47 ~dsf~~~~~~C~~~~~gV~AI~Gp~ss~~~~~v~~i~~~~~IP~I~~~~~~------~~~~~f~i~~~p~~~~a~~~~i~ 120 (371)
T cd06388 47 ANSFAVTNAFCSQYSRGVFAIFGLYDKRSVHTLTSFCSALHISLITPSFPT------EGESQFVLQLRPSLRGALLSLLD 120 (371)
T ss_pred CChhHHHHHHHHHHhCCceEEEecCCHHHHHHHHHHhhCCCCCeeecCccc------cCCCceEEEeChhhhhHHHHHHH
Confidence 5889 789999999999999999999999999999999999999987652 23568999999999999999999
Q ss_pred HcCCcEEEEEEeCCCccccCCChHHHHHHHHhh
Q psy2801 81 YYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 81 ~f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~~ 113 (126)
+||||+|+++|++++|+.+ ++.+.+.+.++
T Consensus 121 ~~~wk~vaiiYd~~~~~~~---lq~l~~~~~~~ 150 (371)
T cd06388 121 HYEWNRFVFLYDTDRGYSI---LQAIMEKAGQN 150 (371)
T ss_pred hcCceEEEEEecCCccHHH---HHHHHHhhHhc
Confidence 9999999999998888844 66666655543
No 7
>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=99.86 E-value=7.4e-22 Score=157.67 Aligned_cols=96 Identities=14% Similarity=0.311 Sum_probs=80.0
Q ss_pred hhh--HHHHhhccCCCcEEEEcCCCcch-HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCc-eEEeeCC---HHHHHH
Q psy2801 4 NVF--FVSVCNQFSRGVFSMLGAVSPDS-FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDY-AISMRPD---YHQAII 76 (126)
Q Consensus 4 ~~f--~~~~C~~~~~gv~AIiGp~~s~~-~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f-~~~~~P~---~~~Ai~ 76 (126)
++| +.++|.++++||.|||||.++.. +.+++++|+.++||+|+++++.. +.....+| .++++|+ +++||+
T Consensus 50 ~~f~~~~~~~~~l~~gV~AIiGp~ss~~~~~~v~~i~~~~~VP~Is~~~~~~---~~~~~~~~~~i~l~P~~~~~~~Ai~ 126 (333)
T cd06394 50 SQYETTDTMCQILPKGVVSVLGPSSSPASSSIVSHICGEKEIPHFKVGPEET---PKLQYLRFASVNLHPSNEDISVAVA 126 (333)
T ss_pred ChHHHHHHHHHHHhcCeEEEECCCCchHHHHHHHHHhhccCCceEEeccccC---cccccccceEEEecCCHHHHHHHHH
Confidence 455 67899999999999999999965 68999999999999999876532 11223345 6999998 699999
Q ss_pred HHHHHcCCcEEEEEEeCCCccccCCC
Q psy2801 77 DTVKYYGWKNIIYMYDSHDEMFYEGS 102 (126)
Q Consensus 77 dli~~f~W~~v~iiY~dd~gl~~~~~ 102 (126)
|||++||||+|++||||++|+.++..
T Consensus 127 dli~~~~W~~v~~iYe~d~~l~~L~~ 152 (333)
T cd06394 127 GILNSFNYPTASLICAKAECLLRLEE 152 (333)
T ss_pred HHHHhcCCCEEEEEEeCcHHHHHHHH
Confidence 99999999999999999999766543
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=99.82 E-value=6.8e-20 Score=148.95 Aligned_cols=95 Identities=13% Similarity=0.217 Sum_probs=79.3
Q ss_pred hhhh--HHHHhhc-cCCCcEEEEc-CCCcchHHHHHHhhCcCCCCeeeecC-CCCCCCCCCCCCCceEEeeCC---HHHH
Q psy2801 3 QNVF--FVSVCNQ-FSRGVFSMLG-AVSPDSFDTFHSYSNTFQMPFITPWF-PEKVLAPSSGFLDYAISMRPD---YHQA 74 (126)
Q Consensus 3 ~~~f--~~~~C~~-~~~gv~AIiG-p~~s~~~~~v~si~~~~~IP~Is~~~-~~~~~~~~~~~~~f~~~~~P~---~~~A 74 (126)
.|+| ++++|++ +++||.|||| |++..++.+++++|+.++||+|++++ +.+. .++....+.++++|+ ++.|
T Consensus 64 ~dsf~~~~~vC~~ll~~GV~AIfg~p~s~~~~~~v~sic~~l~IP~I~~~~~~~~~--~~~~~~~l~L~l~P~~~~l~~a 141 (382)
T cd06377 64 RDPASLLRSVCQTVVVQGVSALLAFPQTRPELVQLDFVSAALEIPVVSIVRREFPR--GSQNPFHLQMSWASPLSTLLDV 141 (382)
T ss_pred CChHHHHHHHHHhHhhCCeEEEEecCCCHHHHHHHHHHhcCCCCCEEEecCCcccc--cCCCceeEEEEecCCHHHHHHH
Confidence 5788 7899999 5999999999 59889999999999999999999844 3221 122333445677999 6999
Q ss_pred HHHHHHHcCCcEEEEEEeCCCcccc
Q psy2801 75 IIDTVKYYGWKNIIYMYDSHDEMFY 99 (126)
Q Consensus 75 i~dli~~f~W~~v~iiY~dd~gl~~ 99 (126)
++|||++|+|++|++||++++|+.+
T Consensus 142 ~~~ll~~~~W~~f~~iy~~~~gl~~ 166 (382)
T cd06377 142 LLSVLQRNGWEDVSLVLCRERDPTG 166 (382)
T ss_pred HHHHHHHCCCcEEEEEEecCcCHHH
Confidence 9999999999999999999999876
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=99.81 E-value=2.1e-19 Score=146.44 Aligned_cols=106 Identities=19% Similarity=0.372 Sum_probs=85.0
Q ss_pred hhhh--HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeee----cC----CCCCCCCCCCCCCceEEeeCC--
Q psy2801 3 QNVF--FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITP----WF----PEKVLAPSSGFLDYAISMRPD-- 70 (126)
Q Consensus 3 ~~~f--~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~----~~----~~~~~~~~~~~~~f~~~~~P~-- 70 (126)
.|+| ++++|+++++||.|||||+++.++..++++|+.++||+|++ .+ +++.. .+..+.+|.++++|+
T Consensus 46 ~d~f~a~~~~c~l~~~gv~ai~Gp~~~~~~~~v~~~~~~~~vP~i~~~~~~~~t~~~~~~~~-~~~~~~~y~~~~rp~~~ 124 (400)
T cd06391 46 NNPFQAVQEACELMNQGILALVSSIGCTSAGSLQSLADAMHIPHLFIQRSTAGTPRSSCGLT-RSNRNDDYTLSVRPPVY 124 (400)
T ss_pred CCcHHHHHHHHHHHhCCeEEEECCCcchHHHHHHHHhccCcCCeEEeecccccCccccCCCC-CCCCcccceEEecChHH
Confidence 4677 78999999999999999999999999999999999999985 22 11111 123356799999998
Q ss_pred HHHHHHHHHHHcCCcEEEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 71 YHQAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 71 ~~~Ai~dli~~f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
+.+|++|||++|+|++++++|++++|+.+ ++.|.+.+++
T Consensus 125 ~~~ai~~li~~f~W~~v~i~~d~~~~~~~---l~~l~~~~~~ 163 (400)
T cd06391 125 LNDVILRVVTEYAWQKFIIFYDTDYDIRG---IQEFLDKVSQ 163 (400)
T ss_pred HHHHHHHHHHHcCCcEEEEEEeCCccHHH---HHHHHHHHHH
Confidence 69999999999999999999999989644 4445554444
No 10
>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=6.8e-19 Score=140.53 Aligned_cols=106 Identities=36% Similarity=0.740 Sum_probs=90.5
Q ss_pred hhhh--HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHHHHHHH
Q psy2801 3 QNVF--FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAIIDTVK 80 (126)
Q Consensus 3 ~~~f--~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai~dli~ 80 (126)
.|+| ++++|+++++||.|||||.++.++.+++++|+.++||+|+++++.+.+ ....+|.++++|++..|++++++
T Consensus 46 ~d~~~~~~~~c~ll~~~V~aiiGp~~s~~~~~~~~~~~~~~iP~i~~~~~~~~l---~~~~~~~fr~~p~~~~a~~~~~~ 122 (382)
T cd06380 46 SDSFALTNAICSQLSRGVFAIFGSYDKSSVNTLTSYSDALHVPFITPSFPTNDL---DDGNQFVLQMRPSLIQALVDLIE 122 (382)
T ss_pred cchHHHHHHHHHHHhcCcEEEEecCcHHHHHHHHHHHhcCCCCeEecCCCcccC---CCCCcEEEEeccchhHHHHHHHH
Confidence 3777 789999999999999999999999999999999999999988776522 34668999999998889999999
Q ss_pred HcCCcEEEEEEeCCCccccCCChHHHHHHHHhhc
Q psy2801 81 YYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKL 114 (126)
Q Consensus 81 ~f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~~~ 114 (126)
+|||++|++||++++|.. .++.+.+.++++-
T Consensus 123 ~~~wk~vaii~~~~~~~~---~~~~~~~~~~~~g 153 (382)
T cd06380 123 HYGWRKVVYLYDSDRGLL---RLQQLLDYLREKD 153 (382)
T ss_pred hcCCeEEEEEECCCcchH---HHHHHHHHHhccC
Confidence 999999999999887653 4666777766553
No 11
>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=99.77 E-value=1.9e-18 Score=139.07 Aligned_cols=97 Identities=18% Similarity=0.394 Sum_probs=80.5
Q ss_pred hhh--HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCC-------CCCCCCCCceEEeeCC--HH
Q psy2801 4 NVF--FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVL-------APSSGFLDYAISMRPD--YH 72 (126)
Q Consensus 4 ~~f--~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~-------~~~~~~~~f~~~~~P~--~~ 72 (126)
|+| .+++|+++++||+|||||.++.++.+++++|+.++||||++.++.... .+.+...+|.++++|+ +.
T Consensus 47 d~~~a~~~~c~Li~~gV~AI~G~~~s~~~~av~~i~~~~~IP~Is~~~~~~~~~~~~~~~~~~~~~~~~~f~~rp~~~~~ 126 (363)
T cd06381 47 NHFDAVQEACDLMNQGILALVTSTGCASAIALQSLTDAMHIPHLFIQRGYGGSPRTACGLNPSPRGQQYTLALRPPVRLN 126 (363)
T ss_pred ChHHHHHHHHHHHhcCcEEEEecCChhHHHHHHHHhhCCCCCEEEeecCcCCCcccccccCCCcccceeEEEEeccHHHH
Confidence 566 689999999999999999999999999999999999999876432100 0011244688899998 69
Q ss_pred HHHHHHHHHcCCcEEEEEEeCCCccccC
Q psy2801 73 QAIIDTVKYYGWKNIIYMYDSHDEMFYE 100 (126)
Q Consensus 73 ~Ai~dli~~f~W~~v~iiY~dd~gl~~~ 100 (126)
+|+++++++|||++|+++|++++|+.+.
T Consensus 127 ~ai~~lv~~~~wkkvavly~~d~g~~~l 154 (363)
T cd06381 127 DVMLRLVTEWRWQKFVYFYDNDYDIRGL 154 (363)
T ss_pred HHHHHHHHhCCCeEEEEEEECCchHHHH
Confidence 9999999999999999999999987554
No 12
>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=99.74 E-value=1.4e-17 Score=133.70 Aligned_cols=93 Identities=23% Similarity=0.501 Sum_probs=80.5
Q ss_pred hhh--HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHH
Q psy2801 4 NVF--FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDT 78 (126)
Q Consensus 4 ~~f--~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dl 78 (126)
|+| .+++|+++.+||+|||||.++..+.+++++|+.++||+|+++++.+.+ + .+..|++++.|+ ...|++++
T Consensus 57 d~~~~~~~~~~~l~~~V~AiiGp~~S~~~~av~~i~~~~~iP~Is~~~t~~~l--t-~~~~~~~~~~~~~~~~~~a~~~~ 133 (384)
T cd06393 57 DSFEATKKACDQLALGVVAIFGPSQGSCTNAVQSICNALEVPHIQLRWKHHPL--D-NKDTFYVNLYPDYASLSHAILDL 133 (384)
T ss_pred cchhHHHHhhcccccCcEEEECCCChHHHHHHHHHHhccCCCeEeccCCCccc--C-ccceeEEEeccCHHHHHHHHHHH
Confidence 455 678999998999999999999999999999999999999988876533 2 344688999887 48999999
Q ss_pred HHHcCCcEEEEEEeCCCcccc
Q psy2801 79 VKYYGWKNIIYMYDSHDEMFY 99 (126)
Q Consensus 79 i~~f~W~~v~iiY~dd~gl~~ 99 (126)
+++|||++|++||++++|+.+
T Consensus 134 ~~~~~wk~vaily~~~~g~~~ 154 (384)
T cd06393 134 VQYLKWRSATVVYDDSTGLIR 154 (384)
T ss_pred HHHcCCcEEEEEEeCchhHHH
Confidence 999999999999998877655
No 13
>KOG1054|consensus
Probab=99.72 E-value=7.4e-18 Score=141.68 Aligned_cols=115 Identities=30% Similarity=0.586 Sum_probs=104.6
Q ss_pred chhhh--HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHHHHHH
Q psy2801 2 IQNVF--FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAIIDTV 79 (126)
Q Consensus 2 ~~~~f--~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai~dli 79 (126)
.+||| +++.|+++++|+.||+|-.+..+...+.++|+.++||+|+++++. +...+|.++|+|++..|++++|
T Consensus 73 ~a~Sf~~tnafCsq~s~Gv~Aifg~yd~ks~~~ltsfc~aLh~~~vtpsfp~------~~~~~Fviq~RP~l~~al~s~i 146 (897)
T KOG1054|consen 73 SANSFAVTNAFCSQFSRGVYAIFGFYDKKSVNTLTSFCGALHVSFVTPSFPT------DGDNQFVIQMRPALKGALLSLI 146 (897)
T ss_pred hhhhHHHHHHHHHHHhhhHhhheecccccchhhhhhhccceeeeeecccCCc------CCCceEEEEeCchHHHHHHHHH
Confidence 37899 789999999999999999999999999999999999999998863 4566899999999999999999
Q ss_pred HHcCCcEEEEEEeCCCccccCCChHHHHHHHHhhcCccccccccccC
Q psy2801 80 KYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLNISVWNRNLCNI 126 (126)
Q Consensus 80 ~~f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~~~~~~~~~~~~~~~ 126 (126)
.||+|.+|+++||.+.|+. .||++.+.+.+| |-+|.+.|.-|+
T Consensus 147 ~hy~W~~fv~lyD~~rg~s---~Lqai~~~a~~~-nw~VtA~~v~~~ 189 (897)
T KOG1054|consen 147 DHYKWEKFVYLYDTDRGLS---ILQAIMEAAAQN-NWQVTAINVGNI 189 (897)
T ss_pred HhcccceEEEEEcccchHH---HHHHHHHHHHhc-CceEEEEEcCCc
Confidence 9999999999999988864 588999999999 999988887653
No 14
>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=99.70 E-value=7.1e-17 Score=130.05 Aligned_cols=95 Identities=9% Similarity=0.158 Sum_probs=75.2
Q ss_pred hhhh--HHHHhhccCCC-cEEEE-cCCCcc--hHHHHHHhhCcCCCCeeeecCCCC-CCCCCCCCCCceEEeeCC---HH
Q psy2801 3 QNVF--FVSVCNQFSRG-VFSML-GAVSPD--SFDTFHSYSNTFQMPFITPWFPEK-VLAPSSGFLDYAISMRPD---YH 72 (126)
Q Consensus 3 ~~~f--~~~~C~~~~~g-v~AIi-Gp~~s~--~~~~v~si~~~~~IP~Is~~~~~~-~~~~~~~~~~f~~~~~P~---~~ 72 (126)
.|+| .+++|+++.++ |.||| ||.++. .+..++.+++.++||+|+++..++ .+. .....+|++++.|+ ++
T Consensus 45 ~d~~~~~~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~~~~s~~~ls-~~~~~p~flr~~Psd~~q~ 123 (362)
T cd06378 45 TDPKSILTQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGIHGGSSMIMA-AKDSGSTFLQFGPSIEQQA 123 (362)
T ss_pred CCHHHHHHHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEeccccccccc-CCCCCceEEEeCCCHHHHH
Confidence 3566 78999999774 99755 999997 446777777779999999874433 221 22467899999998 59
Q ss_pred HHHHHHHHHcCCcEEEEEEeCCCccc
Q psy2801 73 QAIIDTVKYYGWKNIIYMYDSHDEMF 98 (126)
Q Consensus 73 ~Ai~dli~~f~W~~v~iiY~dd~gl~ 98 (126)
+||+|||+||+|++|++||++++|+.
T Consensus 124 ~Ai~~Ii~~f~W~~v~iV~~~~~g~~ 149 (362)
T cd06378 124 AVMLKIMEEYDWHAFSVVTSRFPGYD 149 (362)
T ss_pred HHHHHHHHHCCCeEEEEEEEcCCCHH
Confidence 99999999999999999999987653
No 15
>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=99.69 E-value=1.1e-16 Score=123.39 Aligned_cols=91 Identities=23% Similarity=0.491 Sum_probs=79.2
Q ss_pred HHHHhhcc-CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHc
Q psy2801 7 FVSVCNQF-SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYY 82 (126)
Q Consensus 7 ~~~~C~~~-~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f 82 (126)
.+.+|+++ .+||.|||||.++..+.+++++|+.++||+|++.+..+.+. .....+|++++.|+ +++|+++++.+|
T Consensus 52 ~~~~c~l~~~~~v~ai~G~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~a~~~~l~~~ 130 (328)
T cd06351 52 LRAVCDLLVSQGVAAIFGPTSSESASAVQSICDALEIPHISISGGSEGLS-DKEESSTTLQLYPSLEDLADALLDLLEYY 130 (328)
T ss_pred HHHHHHHHhccCcEEEECCCCHHHHHHHHHHhccCCCCeEEeecCccccc-ccccccceEEecCCHHHHHHHHHHHHHHc
Confidence 67899999 88999999999999999999999999999999877655331 12356799999998 499999999999
Q ss_pred CCcEEEEEEeCCCccc
Q psy2801 83 GWKNIIYMYDSHDEMF 98 (126)
Q Consensus 83 ~W~~v~iiY~dd~gl~ 98 (126)
+|++|++||+++++..
T Consensus 131 ~w~~v~iiy~~~~~~~ 146 (328)
T cd06351 131 NWTKFAIIYDSDEGLS 146 (328)
T ss_pred CCcEEEEEEeCchHHH
Confidence 9999999999998544
No 16
>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=99.63 E-value=4.3e-16 Score=128.82 Aligned_cols=100 Identities=14% Similarity=0.168 Sum_probs=80.2
Q ss_pred HHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCC
Q psy2801 8 VSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGW 84 (126)
Q Consensus 8 ~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W 84 (126)
+..|+. ..+++|||||.++..+.+++++++.++||+|+++++++.+. +..+++|++|+.|+ +++|+++|+++|||
T Consensus 95 ~~~C~~-~~~vvavIG~~~S~~s~~va~i~~~~~IP~Is~~sts~~ls-d~~~yp~ffRt~psd~~q~~ai~~li~~f~W 172 (469)
T cd06365 95 NYSCRR-QRKSVAVIGGPSWALSATIATLLGLYKFPQLTYGPFDPLLS-DRVQFPSLYQMAPKDTSLPLGMVSLMLHFSW 172 (469)
T ss_pred CccCCC-CCceEEEEcCCccHHHHHHHHHhhhhcccceeeccCCcccc-chhhCCcceEecCCchhHHHHHHHHHHhcCC
Confidence 456765 46799999999999999999999999999999988766442 22455789999997 59999999999999
Q ss_pred cEEEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 85 KNIIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 85 ~~v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
++|++||+|++ |..+ ++.+.+.+.+
T Consensus 173 ~~Vaiv~~d~~yg~~~---~~~~~~~~~~ 198 (469)
T cd06365 173 TWVGLVISDDDRGEQF---LSDLREEMQR 198 (469)
T ss_pred eEEEEEEecChhHHHH---HHHHHHHHHH
Confidence 99999998874 7643 4455555544
No 17
>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=99.63 E-value=8.5e-16 Score=126.83 Aligned_cols=94 Identities=14% Similarity=0.171 Sum_probs=76.5
Q ss_pred ccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEE
Q psy2801 13 QFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIY 89 (126)
Q Consensus 13 ~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~i 89 (126)
+.+.+|+|||||.+|..+.+++++++.++||+|+++++++.+. ...+++|++++.|+ .++|+++++++|||++|++
T Consensus 101 ~~~~~V~aVIG~~~S~~s~ava~~~~~~~IP~Is~~sts~~Ls-~~~~~~~ffRt~psd~~qa~ai~~ll~~~~W~~Vai 179 (458)
T cd06375 101 NSPLAIAGVIGGSYSSVSIQVANLLRLFQIPQISYASTSAKLS-DKSRYDYFARTVPPDFYQAKAMAEILRFFNWTYVST 179 (458)
T ss_pred cCCCCeEEEEcCCCchHHHHHHHHhhhccccceeeccCChhhc-ccccCCCeEEecCCcHHHHHHHHHHHHHCCCeEEEE
Confidence 3567999999999999999999999999999999988776552 22356788899886 5999999999999999999
Q ss_pred EEeCCC-ccccCCChHHHHHHH
Q psy2801 90 MYDSHD-EMFYEGSPEFLRVFC 110 (126)
Q Consensus 90 iY~dd~-gl~~~~~l~~l~~~l 110 (126)
||++++ |... ++.+.+.+
T Consensus 180 i~~~~~yG~~~---~~~~~~~~ 198 (458)
T cd06375 180 VASEGDYGETG---IEAFEQEA 198 (458)
T ss_pred EEeCchHHHHH---HHHHHHHH
Confidence 999875 7544 33444444
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=6.4e-15 Score=110.78 Aligned_cols=88 Identities=25% Similarity=0.450 Sum_probs=76.2
Q ss_pred HHHHhhcc--CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHH
Q psy2801 7 FVSVCNQF--SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKY 81 (126)
Q Consensus 7 ~~~~C~~~--~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~ 81 (126)
....|+.+ .+++.|||||.++..+.+++++|+.++||+|++.+..+.+. .....++++++.|+ +++|+++++++
T Consensus 59 ~~~~~~~~~~~~~v~aiiG~~~s~~~~~v~~~~~~~~iP~is~~~~~~~~~-~~~~~~~~~~~~p~~~~~~~a~~~~l~~ 137 (298)
T cd06269 59 ALDLCSLLEKSRGVVAVIGPSSSSSAEAVASLLGALHIPQISYSATSPLLS-DKEQFPSFLRTVPSDSSQAQAIVDLLKH 137 (298)
T ss_pred HHHHHhcCCCCCceEEEECCCCchHHHHHHHHhccCCCcEEecccCchhhc-ChhhCCCeEecCCCcHHHHHHHHHHHHH
Confidence 56899887 47999999999999999999999999999999877655332 12356799999987 49999999999
Q ss_pred cCCcEEEEEEeCCC
Q psy2801 82 YGWKNIIYMYDSHD 95 (126)
Q Consensus 82 f~W~~v~iiY~dd~ 95 (126)
|||++|+++|++++
T Consensus 138 ~~w~~v~~v~~~~~ 151 (298)
T cd06269 138 FGWTWVGLVYSDDD 151 (298)
T ss_pred CCCeEEEEEEecch
Confidence 99999999999987
No 19
>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=99.61 E-value=2.6e-15 Score=119.17 Aligned_cols=88 Identities=13% Similarity=0.252 Sum_probs=74.9
Q ss_pred HHHHhhccC-CCcEEEEcCCCcch---HHHHHHhhCcCCCCeeeecCCCCCC-CCCCCCCCceEEeeCC---HHHHHHHH
Q psy2801 7 FVSVCNQFS-RGVFSMLGAVSPDS---FDTFHSYSNTFQMPFITPWFPEKVL-APSSGFLDYAISMRPD---YHQAIIDT 78 (126)
Q Consensus 7 ~~~~C~~~~-~gv~AIiGp~~s~~---~~~v~si~~~~~IP~Is~~~~~~~~-~~~~~~~~f~~~~~P~---~~~Ai~dl 78 (126)
.+.+|+++. +++.+|+||.++.. +.+++.+|+.++||+|+++++++.+ . ....++|++++.|+ +++|++++
T Consensus 52 ~~~~~~~l~~~~v~~iig~~~s~~~~~~~~~~~v~~~~~iP~Is~~~~~~~~~s-~~~~~~~~~R~~p~~~~~~~ai~~l 130 (362)
T cd06367 52 LLSVCDLLVVQVVAGVVFSDPTDEEAVAQILDFTSAQTRIPVVGISGRESIFMS-DKNIHSLFLQTGPSLEQQADVMLEI 130 (362)
T ss_pred HHHHHHHhcccceEEEEecCCCCccchhhhhhhhhhhhcCcEEEeecccccccc-CCCcccceEeecCcHHHHHHHHHHH
Confidence 467999885 46888999999988 9999999999999999988776533 2 22456788999998 59999999
Q ss_pred HHHcCCcEEEEEEeCCC
Q psy2801 79 VKYYGWKNIIYMYDSHD 95 (126)
Q Consensus 79 i~~f~W~~v~iiY~dd~ 95 (126)
+++|||++|++||++++
T Consensus 131 l~~~~w~~vaii~~~~~ 147 (362)
T cd06367 131 LEEYDWHQFSVVTSRDP 147 (362)
T ss_pred HHHcCCeEEEEEEEcCc
Confidence 99999999999999886
No 20
>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=99.60 E-value=7.7e-15 Score=118.27 Aligned_cols=103 Identities=13% Similarity=0.184 Sum_probs=79.1
Q ss_pred HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC
Q psy2801 7 FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG 83 (126)
Q Consensus 7 ~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~ 83 (126)
.+..|+ +|+.|||||..+..+.+++++|+.++||+|+++.+++.+......++|++++.|+ +++++++++++|+
T Consensus 60 ~~~l~~---~~v~aiiGp~~s~~~~~va~ia~~~~iP~Is~~a~~~~~s~~~~~yp~~~R~~p~~~~~~~a~~~ll~~~~ 136 (387)
T cd06386 60 VDRSCA---RKPDLILGPVCEYAAAPVARLASHWNIPMISAGALAAGFSHKKSEYSHLTRVAPSYVKMGETFSALFERFH 136 (387)
T ss_pred HHHHHh---hCCCEEECCCCccHHHHHHHHHHhCCCcEEccccCchhhccCcccCCeeEEecCchHHHHHHHHHHHHhCC
Confidence 345675 4899999999999999999999999999999877655332112345668999987 5999999999999
Q ss_pred CcEEEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 84 WKNIIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 84 W~~v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
|++|++||++++ |......++.+...+++
T Consensus 137 W~~vaiiy~~~~~~~~~~~~~~~l~~~~~~ 166 (387)
T cd06386 137 WRSALLVYEDDKQERNCYFTLEGVHHVFQE 166 (387)
T ss_pred CeEEEEEEEcCCCCccceehHHHHHHHHHh
Confidence 999999999875 43222235566655544
No 21
>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=99.60 E-value=8.7e-16 Score=118.94 Aligned_cols=105 Identities=18% Similarity=0.365 Sum_probs=85.3
Q ss_pred HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC
Q psy2801 7 FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG 83 (126)
Q Consensus 7 ~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~ 83 (126)
....|....+|+.|||||..+.++..++++++.++||+|++..+.+.+.......++++++.|+ .++|+++++++|+
T Consensus 41 ~~~~~~~~~~~v~aviGp~~~~~~~~~~~~~~~~~ip~is~~~~~~~ls~~~~~~~~~~r~~p~~~~~~~a~~~~l~~~~ 120 (348)
T PF01094_consen 41 QAAICSLNKQGVVAVIGPSCSSSAEAVASLASEWNIPQISPGSTSPSLSDRKTRYPTFFRTVPSDSSQARALVDLLKHFG 120 (348)
T ss_dssp HHHHHHHHHHTECEEEETSSHHHHHHHHHHHHHTT-EEEESSGGSGGGGSTTTTTTTEEESSB-HHHHHHHHHHHHHHTT
T ss_pred cchhhhccCCCcEEEECCCcccccchhheeecccccceeeccccccccccchhhccccccccccHHHHHHHHHHhhhcCC
Confidence 5677888888999999999999999999999999999999977766553213567889999997 4999999999999
Q ss_pred CcEEEEEEeCCCccccCCChHHHHHHHHhh
Q psy2801 84 WKNIIYMYDSHDEMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 84 W~~v~iiY~dd~gl~~~~~l~~l~~~l~~~ 113 (126)
|++|++||+++++ +....+.+.+.+.++
T Consensus 121 w~~v~vv~~~~~~--~~~~~~~~~~~~~~~ 148 (348)
T PF01094_consen 121 WTRVSVVYSDDDY--GNSLADSFQDLLRER 148 (348)
T ss_dssp SSEEEEEEESSHH--HHHHHHHHHHHHHHH
T ss_pred Cceeeeecccccc--ccccchhhhhhhccc
Confidence 9999999999875 222366677777765
No 22
>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=99.60 E-value=4.4e-15 Score=122.14 Aligned_cols=95 Identities=20% Similarity=0.200 Sum_probs=75.5
Q ss_pred cCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEE
Q psy2801 14 FSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYM 90 (126)
Q Consensus 14 ~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~ii 90 (126)
.+.+|+|||||.++..+.+++++++.++||+|+++++++.+. ....++|++++.|+ .++|+++++++|||++|++|
T Consensus 100 ~~~~V~aviG~~~S~~t~ava~i~~~~~iP~Is~~ats~~ls-~~~~~~~ffR~~p~d~~~~~ai~~~i~~~~w~~Vaii 178 (463)
T cd06376 100 KPEKVVGVIGASASSVSIMVANILRLFQIPQISYASTAPELS-DDRRYDFFSRVVPPDSFQAQAMVDIVKALGWNYVSTL 178 (463)
T ss_pred CCCCeEEEECCCCchHHHHHHHHhccccCcccccccCChhhc-ccccCCceEEccCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence 457999999999999999999999999999999887765442 12345778888886 59999999999999999999
Q ss_pred EeCC-CccccCCChHHHHHHHHh
Q psy2801 91 YDSH-DEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 91 Y~dd-~gl~~~~~l~~l~~~l~~ 112 (126)
|+++ +|... ++.+.+.+.+
T Consensus 179 ~~~~~yg~~~---~~~~~~~~~~ 198 (463)
T cd06376 179 ASEGNYGESG---VEAFTQISRE 198 (463)
T ss_pred EeCChHHHHH---HHHHHHHHHH
Confidence 9765 46543 3444444444
No 23
>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=99.59 E-value=4.1e-15 Score=122.68 Aligned_cols=88 Identities=17% Similarity=0.253 Sum_probs=75.2
Q ss_pred HhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcE
Q psy2801 10 VCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKN 86 (126)
Q Consensus 10 ~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~ 86 (126)
.|...+.||.|||||.++..+.+++.+++.++||+|+++++++.+. ...+++|++++.|+ .++|+++++++|+|++
T Consensus 110 ~~~~~~~~V~aiiGp~~S~~~~ava~~~~~~~iP~Is~~ats~~ls-~~~~~p~~fRt~p~d~~~~~al~~l~~~~~W~~ 188 (472)
T cd06374 110 GPNKSKKPIVGVIGPGSSSVAIQVQNLLQLFNIPQIAYSATSIDLS-DKTLFKYFLRVVPSDTLQARAMLDIVKRYNWTY 188 (472)
T ss_pred ccccCCCCeEEEECCCcchHHHHHHHHhhhhcccccccccCchhhc-ccccCCceEEcCCChHHHHHHHHHHHHHCCCcE
Confidence 4666678999999999999999999999999999999887766442 22356789999987 5999999999999999
Q ss_pred EEEEEeCCC-ccc
Q psy2801 87 IIYMYDSHD-EMF 98 (126)
Q Consensus 87 v~iiY~dd~-gl~ 98 (126)
|++||++++ |..
T Consensus 189 Vaii~~~~~yg~~ 201 (472)
T cd06374 189 VSAVHTEGNYGES 201 (472)
T ss_pred EEEEEecchHHHH
Confidence 999999876 643
No 24
>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=99.58 E-value=7.1e-15 Score=119.62 Aligned_cols=92 Identities=13% Similarity=0.111 Sum_probs=75.6
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEe
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYD 92 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~ 92 (126)
.+|.|||||.+|..+.+++.+++.++||+|+++++++.+. +..+++|++|+.|+ .++|+++++++|||+||++||+
T Consensus 102 ~~V~aVIG~~~S~~s~ava~v~~~~~IP~IS~~ats~~Ls-~~~~~~~ffRt~p~D~~qa~ai~~li~~~~w~~Vaii~~ 180 (403)
T cd06361 102 PRIKAVIGAGYSEISMAVSRMLNLQLIPQVSYASTAEILS-DKIRFPSFLRTVPSDFYQTKAMAHLIKKSGWNWVGIIIT 180 (403)
T ss_pred CCeEEEECCCcchHHHHHHHHhccCCcceEecCcCCcccC-CcccCCCeeECCCchHhHHHHHHHHHHHcCCcEEEEEEe
Confidence 5899999999999999999999999999999998877552 22455789999986 4999999999999999999999
Q ss_pred CCC-ccccCCChHHHHHHHH
Q psy2801 93 SHD-EMFYEGSPEFLRVFCH 111 (126)
Q Consensus 93 dd~-gl~~~~~l~~l~~~l~ 111 (126)
+++ |... .+.+...+.
T Consensus 181 ~d~yG~~~---~~~f~~~~~ 197 (403)
T cd06361 181 DDDYGRSA---LETFIIQAE 197 (403)
T ss_pred cCchHHHH---HHHHHHHHH
Confidence 875 6543 334444443
No 25
>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=99.54 E-value=3.8e-14 Score=113.28 Aligned_cols=94 Identities=12% Similarity=0.289 Sum_probs=72.1
Q ss_pred hhh--HHHHhhc-cCCCcEEEEc--CCCcc---hHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HH
Q psy2801 4 NVF--FVSVCNQ-FSRGVFSMLG--AVSPD---SFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YH 72 (126)
Q Consensus 4 ~~f--~~~~C~~-~~~gv~AIiG--p~~s~---~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~ 72 (126)
|++ ...+|++ +++||+|||| +.++. .+..++++|+.++||+|+++++++.+. ....++|++++.|+ .+
T Consensus 64 ~~~~~a~~~~~~Li~~~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~~a~~~~ls-~~~~~~~~~R~~psd~~~~ 142 (377)
T cd06379 64 NPIQTALSVCEQLISNQVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGISTRDSIFS-DKNIHLSFLRTVPPYSHQA 142 (377)
T ss_pred ChhhHHHHHHHHHhhcceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEecccCCcccc-CccccccEEEecCCHHHHH
Confidence 445 4578975 5789999984 32332 477889999999999999887666442 22336788888886 39
Q ss_pred HHHHHHHHHcCCcEEEEEEeCCC-ccc
Q psy2801 73 QAIIDTVKYYGWKNIIYMYDSHD-EMF 98 (126)
Q Consensus 73 ~Ai~dli~~f~W~~v~iiY~dd~-gl~ 98 (126)
+|+++++++|||++|++||++++ |..
T Consensus 143 ~a~~~~l~~~~w~~vaii~~~~~~g~~ 169 (377)
T cd06379 143 DVWLEMLRSFKWNKVILLVSDDHEGRA 169 (377)
T ss_pred HHHHHHHHHcCCeEEEEEEEcCcchhH
Confidence 99999999999999999999986 543
No 26
>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=99.54 E-value=6.2e-14 Score=109.57 Aligned_cols=86 Identities=23% Similarity=0.476 Sum_probs=74.8
Q ss_pred HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC
Q psy2801 7 FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG 83 (126)
Q Consensus 7 ~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~ 83 (126)
.+.+|+++++||.|||||.++..+.+++.+++.++||+|++.++.+.+ + ..++.+++.|+ .++++++++++|+
T Consensus 53 ~~~~~~li~~~V~aiiG~~~S~~~~av~~~~~~~~vP~Is~~~~~~~~--~--~~~~~fr~~p~~~~~~~a~~~~~~~~~ 128 (327)
T cd06382 53 TKKVCDLLQQGVAAIFGPSSSEASSIVQSICDAKEIPHIQTRWDPEPK--S--NRQFTINLYPSNADLSRAYADIVKSFN 128 (327)
T ss_pred HHHhhhhhhcCcEEEECCCChhHHHHHHHHHhccCCCceeccCCcCcc--c--cccceEEeCCCHHHHHHHHHHHHHhcC
Confidence 578999988899999999999999999999999999999987665422 1 34677899987 4999999999999
Q ss_pred CcEEEEEEeCCCc
Q psy2801 84 WKNIIYMYDSHDE 96 (126)
Q Consensus 84 W~~v~iiY~dd~g 96 (126)
|++++++|+++++
T Consensus 129 w~~vavl~~~~~~ 141 (327)
T cd06382 129 WKSFTIIYESAEG 141 (327)
T ss_pred CcEEEEEecChHH
Confidence 9999999998874
No 27
>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=99.53 E-value=2.4e-14 Score=119.83 Aligned_cols=96 Identities=15% Similarity=0.216 Sum_probs=76.1
Q ss_pred ccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEE
Q psy2801 13 QFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIY 89 (126)
Q Consensus 13 ~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~i 89 (126)
....+++|||||.++..+.+++.+++.++||+|+++++++.+. ....+++++++.|+ .++|+++++++|||+||++
T Consensus 114 ~~~~~v~aVIG~~sS~~s~ava~~~~~~~IP~IS~~sss~~ls-~~~~yp~ffRt~psd~~q~~Ai~~l~~~f~wk~Vai 192 (510)
T cd06364 114 EHIPSTIAVVGATGSGVSTAVANLLGLFYIPQVSYASSSRLLS-NKNQFKSFLRTIPNDEHQATAMADIIEYFRWNWVGT 192 (510)
T ss_pred CCCCceEEEECCCchhHHHHHHHHhccccccccccccCCcccC-CccccCCeeEcCCChHHHHHHHHHHHHHcCCeEEEE
Confidence 3456799999999999999999999999999999888766442 22355678888886 4999999999999999999
Q ss_pred EEeCCC-ccccCCChHHHHHHHHh
Q psy2801 90 MYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 90 iY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
||+|++ |... ++.+.+.+.+
T Consensus 193 I~~dd~yG~~~---~~~~~~~~~~ 213 (510)
T cd06364 193 IAADDDYGRPG---IEKFREEAEE 213 (510)
T ss_pred EEecCcchHHH---HHHHHHHHHH
Confidence 998874 6544 4444555443
No 28
>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=99.53 E-value=4.4e-14 Score=113.82 Aligned_cols=102 Identities=9% Similarity=0.124 Sum_probs=81.1
Q ss_pred HHHHhhcc--CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHHHHHHHHcCC
Q psy2801 7 FVSVCNQF--SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAIIDTVKYYGW 84 (126)
Q Consensus 7 ~~~~C~~~--~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai~dli~~f~W 84 (126)
...+|..+ .++|.|||||.++..+.+++.+++.++||+|+++++.+.+. ....+++++++.|+..+++++++++|+|
T Consensus 54 ~~a~~~~~~~~~~V~aviGp~~S~~~~a~a~va~~~~iP~Is~~a~~~~lt-~~~~y~~f~r~~~~~~~~~~~~~~~~~w 132 (382)
T cd06371 54 SRALAAFLGYEGYASAFVGPVNPGYCEAAALLAKEWDKALFSWGCVNYELD-DVRSYPTFARTLPSPSRVLFTVLRYFRW 132 (382)
T ss_pred hHHHHHHHcccCCceEEECCCCchHHHHHHHHHHhcCceEEecccCchhhc-CcccCCCceecCCCcHHHHHHHHHHCCC
Confidence 45677666 46899999999999999999999999999999887765332 1134567788888888899999999999
Q ss_pred cEEEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 85 KNIIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 85 ~~v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
++|++||++++ |.. ..+.+...+.+
T Consensus 133 ~~vaii~~~~~~~~~---~~~~l~~~l~~ 158 (382)
T cd06371 133 AHVAIVSSPQDIWVE---TAQKLASALRA 158 (382)
T ss_pred eEEEEEEecccchHH---HHHHHHHHHHH
Confidence 99999999886 542 34555555544
No 29
>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=99.53 E-value=1e-13 Score=111.19 Aligned_cols=88 Identities=14% Similarity=0.284 Sum_probs=73.1
Q ss_pred HHHHhhccC-CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHc
Q psy2801 7 FVSVCNQFS-RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYY 82 (126)
Q Consensus 7 ~~~~C~~~~-~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f 82 (126)
....|+++. .||.|||||.++..+.+++++|+.++||+|+++++++.+. ....+++++++.|+ +++++++++++|
T Consensus 57 ~~~~~~l~~~~~v~aiiGp~~S~~~~av~~va~~~~iP~is~~s~s~~ls-~~~~~~~~~r~~p~~~~~~~a~~~l~~~~ 135 (391)
T cd06372 57 LAGFIDQVQKEHISALFGPACPEAAEVTGLLASQWNIPMFGFVGQTAKLD-NRFLYDTYVKLVPPKQKIGEVLQKSLQHF 135 (391)
T ss_pred HHHHHHHHHhcCceEEECCCCCcHHHHHHHHHhccCccEEEeecCCcccc-ccccCCceEEecCchhhHHHHHHHHHHHC
Confidence 457787775 5999999999999999999999999999999877665442 22345677888886 499999999999
Q ss_pred CCcEEEEEEeCCC
Q psy2801 83 GWKNIIYMYDSHD 95 (126)
Q Consensus 83 ~W~~v~iiY~dd~ 95 (126)
||++|++||++++
T Consensus 136 ~w~~vaii~~~~~ 148 (391)
T cd06372 136 GWKHIGLFGGSSR 148 (391)
T ss_pred CCeEEEEEEeccc
Confidence 9999999997654
No 30
>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=99.52 E-value=5e-14 Score=115.00 Aligned_cols=98 Identities=19% Similarity=0.193 Sum_probs=77.4
Q ss_pred hhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEE
Q psy2801 11 CNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNI 87 (126)
Q Consensus 11 C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v 87 (126)
|...+.+|.|||||.++..+.+++.+++.++||+|+++++++.+. ....++|++++.|+ .++|+++++++|+|++|
T Consensus 97 ~~~~~~~v~aviG~~~S~~~~av~~~~~~~~ip~Is~~sts~~ls-~~~~~~~~fR~~p~d~~~~~a~~~~l~~~~w~~v 175 (452)
T cd06362 97 PNNSPKPVAGVIGASYSSVSIQVANLLRLFKIPQISYASTSPELS-DKTRYDYFSRTVPPDSFQAQAMVDIVKAFNWTYV 175 (452)
T ss_pred cccCCCCeEEEECCCCCchHHHHHHHhccccCcccccccCchhhc-cccccCCEEEecCChHHHHHHHHHHHHHCCCcEE
Confidence 444567999999999999999999999999999999887766442 22355788888886 59999999999999999
Q ss_pred EEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 88 IYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 88 ~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
++||++++ |... .+.+.+.+.+
T Consensus 176 aii~~~~~~G~~~---~~~~~~~~~~ 198 (452)
T cd06362 176 STVASEGNYGEKG---IEAFEKLAAE 198 (452)
T ss_pred EEEEeCCHHHHHH---HHHHHHHHHH
Confidence 99999886 6433 3344444433
No 31
>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=99.50 E-value=9.6e-14 Score=107.91 Aligned_cols=98 Identities=26% Similarity=0.558 Sum_probs=79.0
Q ss_pred HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC
Q psy2801 7 FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG 83 (126)
Q Consensus 7 ~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~ 83 (126)
.+.+|+++++||.|||||.++..+.+++.+++..+||+|++.++.+.+ . .++.++++|+ .++++++++++|+
T Consensus 52 ~~~a~~li~~~V~aiiG~~~S~~~~av~~i~~~~~ip~is~~~~~~~~--~---~~~~~~~~~~~~~~~~a~~~~~~~~~ 126 (324)
T cd06368 52 TNKACDLLSQGVAAIFGPSSSSSANTVQSICDALEIPHITTSWSPNPK--P---RQFTINLYPSMRDLSDALLDLIKYFG 126 (324)
T ss_pred HHHHHHHHhcCcEEEECCCCHHHHHHHHHHHhccCCCcEEecCCcCCC--C---CcceEEecCCHHHHHHHHHHHHHhcC
Confidence 568999988999999999999999999999999999999988765522 1 2455666665 4999999999999
Q ss_pred CcEEEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 84 WKNIIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 84 W~~v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
|++++++|++++|.. .++.+.+.+.+
T Consensus 127 w~~vaii~~~~~~~~---~l~~~~~~~~~ 152 (324)
T cd06368 127 WRKFVYIYDSDEGLL---RLQELLDALSP 152 (324)
T ss_pred CCEEEEEECCcHhHH---HHHHHHHhhcc
Confidence 999999999877643 34555555544
No 32
>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=99.44 E-value=7.3e-13 Score=107.11 Aligned_cols=101 Identities=16% Similarity=0.277 Sum_probs=75.7
Q ss_pred HHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC
Q psy2801 7 FVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG 83 (126)
Q Consensus 7 ~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~ 83 (126)
.+.+|+++.+||.|||||..+.. +++.+++..+||+|+++++.+.+. ....+++++++.|+ +++++++++++|+
T Consensus 59 ~~~~~~li~~~v~aiiGp~~S~~--~~a~i~~~~~iP~Is~~a~~~~l~-~~~~~~~f~r~~~~~~~~~~a~~~~~~~~~ 135 (404)
T cd06370 59 IRAVSDWWKRGVVAFIGPECTCT--TEARLAAAWNLPMISYKCDEEPVS-DKSKYPTFARTVPPSIQVVKSVIALLKHFN 135 (404)
T ss_pred HHHHHHHHhcCceEEECCCchhH--HHHHHHhhcCCcEEecccCCcccc-ccccCCCeEEcCCCHHHHHHHHHHHHHHCC
Confidence 46789998889999999998743 456899999999999887765432 12344566788876 4899999999999
Q ss_pred CcEEEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 84 WKNIIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 84 W~~v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
|+++++||++++.. ....+.+...+.+
T Consensus 136 w~~vaii~~~~~~g--~~~~~~~~~~~~~ 162 (404)
T cd06370 136 WNKFSVVYENDSKY--SSVFETLKEEAEL 162 (404)
T ss_pred CcEEEEEEecCccc--HHHHHHHHHHHHH
Confidence 99999999988722 2233444444433
No 33
>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=99.44 E-value=6e-13 Score=106.89 Aligned_cols=87 Identities=11% Similarity=0.222 Sum_probs=71.9
Q ss_pred HHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCc
Q psy2801 9 SVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWK 85 (126)
Q Consensus 9 ~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~ 85 (126)
..|....+||.|||||.++..+.+++.+++.++||+|++.++.+.+.. ...++|++++.|+ .++++++++++|+|+
T Consensus 65 a~~~~~~~~v~aiiGp~~S~~~~av~~~~~~~~ip~Is~~as~~~lt~-~~~~~~~fr~~p~~~~~~~a~~~~~~~~~w~ 143 (396)
T cd06373 65 AVDLYFQHKPDAFLGPGCEYAAAPVARFAAHWNVPVLTAGAPAAGFSD-KSEYSTLTRTGPSYTKLGEFVLALHEHFNWS 143 (396)
T ss_pred HHHHHhccCCeEEECCCccchhHHHHHHHhcCCCceECccCCcccccc-chhcCceeeccccHHHHHHHHHHHHHHcCCe
Confidence 344444679999999999999999999999999999998877654421 2345678999986 499999999999999
Q ss_pred EEEEEEeCCCc
Q psy2801 86 NIIYMYDSHDE 96 (126)
Q Consensus 86 ~v~iiY~dd~g 96 (126)
++++||+++++
T Consensus 144 ~vaii~~~~~~ 154 (396)
T cd06373 144 RAALLYHDDKN 154 (396)
T ss_pred EEEEEEECCCC
Confidence 99999998763
No 34
>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=99.41 E-value=8.6e-13 Score=106.87 Aligned_cols=99 Identities=15% Similarity=0.281 Sum_probs=77.3
Q ss_pred Hhh--ccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCC
Q psy2801 10 VCN--QFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGW 84 (126)
Q Consensus 10 ~C~--~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W 84 (126)
.|+ ..+.||.|||||.++..+.+++.+++.++||+|+++++++.+. .....++++++.|+ ..+|+++++++|+|
T Consensus 98 ~c~~~~~~~~V~aIiGp~~S~~~~av~~i~~~~~vp~is~~~~~~~lt-~~~~~~~~fr~~~~~~~~~~al~~~l~~~~~ 176 (410)
T cd06363 98 QCNYTNYQPRVVAVIGPDSSTLALTVAPLFSFFLIPQISYGASSEVLS-NKELYPSFLRTVPSDKDQIEAMVQLLQEFGW 176 (410)
T ss_pred ccccccCCCCeEEEECCCccHHHHHHHHHhcccccccccccccCcccc-ccccCCCeeEecCCcHHHHHHHHHHHHHCCC
Confidence 464 2357999999999999999999999999999999887765442 12344678888886 49999999999999
Q ss_pred cEEEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 85 KNIIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 85 ~~v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
|+|+++|++++ |.. .++.+...+.+
T Consensus 177 k~vaii~~~~~~g~~---~~~~~~~~l~~ 202 (410)
T cd06363 177 NWVAFLGSDDEYGRD---GLQLFSELIAN 202 (410)
T ss_pred cEEEEEEeCChhHHH---HHHHHHHHHHH
Confidence 99999998774 643 34445555554
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=99.41 E-value=1.5e-12 Score=104.93 Aligned_cols=95 Identities=11% Similarity=0.185 Sum_probs=73.0
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEE-EE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNII-YM 90 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~-ii 90 (126)
.+++.|||||.++..+.+++++++.++||+|+++++++.+. ....++|++|+.|+ +++++++++++|+|++++ ++
T Consensus 72 ~~~v~aiiGp~~S~~~~~va~~a~~~~iP~Is~~a~~~~l~-~~~~~~~~~R~~p~~~~~~~a~~~~~~~~~w~~va~ii 150 (405)
T cd06385 72 THNPWAFIGPGCDYTASPVARFTTHWDVPLVTAGAPALGFG-VKDEYATITRTGPTHKKLGEFVLHIHQHFGWRSHAMLI 150 (405)
T ss_pred hcCCcEEECCCccchHHHHHHHHhccCCcEEccccChhhcC-CcccCcceEEecCchHHHHHHHHHHHHhCCCeEEEEEE
Confidence 35889999999999999999999999999999888765332 22456788899987 599999999999999988 57
Q ss_pred EeCCCcc--ccCCChHHHHHHH
Q psy2801 91 YDSHDEM--FYEGSPEFLRVFC 110 (126)
Q Consensus 91 Y~dd~gl--~~~~~l~~l~~~l 110 (126)
|+++++- ......+.+...+
T Consensus 151 ~~~~~~~~~~~~~~~~~l~~~~ 172 (405)
T cd06385 151 YSDNKVDDRPCYFAMEGLYMEL 172 (405)
T ss_pred EecCcccccchHHHHHHHHHHH
Confidence 7766432 1111245566666
No 36
>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=99.40 E-value=1.8e-12 Score=101.49 Aligned_cols=93 Identities=17% Similarity=0.181 Sum_probs=74.5
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEe
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYD 92 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~ 92 (126)
.++.||+||.++..+.+++.+++..+||+|++++.++.+. .....+|++++.|+ ..++++++++++||++++++|+
T Consensus 90 ~~v~aiiG~~~S~~~~a~~~~~~~~~vp~is~~~~~~~ls-~~~~~~~~fr~~p~~~~~~~a~~~~~~~~~~~~v~~l~~ 168 (348)
T cd06350 90 PKVVAVIGPGSSSVSMAVAELLGLFKIPQISYGATSPLLS-DKLQFPSFFRTVPSDTSQALAIVALLKHFGWTWVGLVYS 168 (348)
T ss_pred CceEEEECCCccHHHHHHHHHHhcCcCceecccCCChhhc-cccccCCeeEecCCcHHHHHHHHHHHHHCCCeEEEEEEe
Confidence 4899999999999999999999999999999887665331 22445788999987 4999999999999999999999
Q ss_pred CCC-ccccCCChHHHHHHHHh
Q psy2801 93 SHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 93 dd~-gl~~~~~l~~l~~~l~~ 112 (126)
+++ |.. ..+.+++.+.+
T Consensus 169 ~~~~g~~---~~~~~~~~~~~ 186 (348)
T cd06350 169 DDDYGRS---GLSDLEEELEK 186 (348)
T ss_pred cchhHHH---HHHHHHHHHHH
Confidence 875 433 34445555443
No 37
>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=99.37 E-value=7.6e-12 Score=98.48 Aligned_cols=102 Identities=17% Similarity=0.245 Sum_probs=81.4
Q ss_pred HHHHhhccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHc
Q psy2801 7 FVSVCNQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYY 82 (126)
Q Consensus 7 ~~~~C~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f 82 (126)
.+.+|+++.+ +|.|||||.++..+.+++.+++..+||+|++...++.+. .....+|.+++.|+ ..++++++++++
T Consensus 55 ~~~a~~l~~~~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l~-~~~~~~~~~r~~p~~~~~~~a~~~~~~~~ 133 (350)
T cd06366 55 ASAALDLLENKPVVAIIGPQCSSVAEFVAEVANEWNVPVLSFAATSPSLS-SRLQYPYFFRTTPSDSSQNPAIAALLKKF 133 (350)
T ss_pred HHHHHHHhccCCceEEECCCcHHHHHHHHHHhhcCCeeEEeccCCCcccc-ccccCCceEEcccchHhHHHHHHHHHHHC
Confidence 3578888876 999999999999999999999999999999877665331 22445788999987 489999999999
Q ss_pred CCcEEEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 83 GWKNIIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 83 ~W~~v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
+|+++++||++++ |.. ..+.+...+.+
T Consensus 134 ~~~~v~ii~~~~~~g~~---~~~~~~~~~~~ 161 (350)
T cd06366 134 GWRRVATIYEDDDYGSG---GLPDLVDALQE 161 (350)
T ss_pred CCcEEEEEEEcCcccch---hHHHHHHHHHH
Confidence 9999999999876 443 33455555544
No 38
>KOG1056|consensus
Probab=99.35 E-value=1.2e-12 Score=114.81 Aligned_cols=86 Identities=16% Similarity=0.163 Sum_probs=73.4
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEeC
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYDS 93 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~d 93 (126)
.|+|+|||+.++.+.+++.+...|+||||+|.++++.+. +..+++|+.++.|+ .++|++||+++|+|++|..++++
T Consensus 125 ~v~~VIG~s~Ssvsi~vanlLrlf~ipQisyaSts~~LS-dk~ry~~F~RtVP~D~~Qa~Am~~il~~f~W~yVstv~s~ 203 (878)
T KOG1056|consen 125 PVVAVIGPSYSSVSIAVANLLRLFLIPQISYASTSPDLS-DKTRYDYFLRTVPSDVFQAQAMVDILKKFNWNYVSTVASE 203 (878)
T ss_pred ceeEEeCCCCchHHHHHHHHHHhhcCceeccccCCcccc-cchhhhceeeecCChHHHHHHHHHHHHHhCeeEeeehhcC
Confidence 599999999999999999999999999999999888663 33567788888875 49999999999999999999997
Q ss_pred C-CccccCCCh
Q psy2801 94 H-DEMFYEGSP 103 (126)
Q Consensus 94 d-~gl~~~~~l 103 (126)
+ ||..+.+++
T Consensus 204 ~dYGE~Gieaf 214 (878)
T KOG1056|consen 204 GDYGESGIEAF 214 (878)
T ss_pred ccchhhhHHHH
Confidence 6 476554443
No 39
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=99.30 E-value=1.5e-11 Score=98.05 Aligned_cols=97 Identities=13% Similarity=0.269 Sum_probs=75.8
Q ss_pred Hhhcc-CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCc
Q psy2801 10 VCNQF-SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWK 85 (126)
Q Consensus 10 ~C~~~-~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~ 85 (126)
+.+++ +.||.|||||.++..+.+++.+++.++||+|++.++.+.+. .....+|.+++.|+ ...+++++++++|||
T Consensus 60 a~~l~~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~Is~~~~~~~~~-~~~~~~~~fr~~~~~~~~~~a~~~~l~~~~~~ 138 (389)
T cd06352 60 AVDLYWEHNVDAFIGPGCPYACAPVARLAAHWNIPMISWGCVALSLS-DKSEYPTLTRTLPPARKLGEAVLALLRWFNWH 138 (389)
T ss_pred HHHHHhhcCCcEEECCCChhHHHHHHHHHhcCCCCEecccccccccC-ccccCCceeecCCcHHHHHHHHHHHHHHcCce
Confidence 33343 56999999999999999999999999999998877655332 22355788999987 499999999999999
Q ss_pred EEEEEEeCCC--ccccCCChHHHHHHH
Q psy2801 86 NIIYMYDSHD--EMFYEGSPEFLRVFC 110 (126)
Q Consensus 86 ~v~iiY~dd~--gl~~~~~l~~l~~~l 110 (126)
+++++|++++ |... .+.+...+
T Consensus 139 ~v~ii~~~~~~~g~~~---~~~~~~~~ 162 (389)
T cd06352 139 VAVVVYSDDSENCFFT---LEALEAAL 162 (389)
T ss_pred EEEEEEecCCccHHHH---HHHHHHHH
Confidence 9999999876 5433 34444444
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=99.28 E-value=1.7e-11 Score=98.92 Aligned_cols=80 Identities=10% Similarity=0.182 Sum_probs=65.3
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCc-EEEEE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWK-NIIYM 90 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~-~v~ii 90 (126)
.+++.|||||.++..+.+++.+++.++||+|+++++.+.+......+++++++.|+ +++++.+++++|+|+ ++++|
T Consensus 71 ~~~v~aviGp~~S~~~~av~~i~~~~~iP~Is~~at~~~ls~~~~~y~~~fR~~p~~~~~~~~~~~i~~~~~w~~~vaii 150 (399)
T cd06384 71 YSDPDVFFGPGCVYPTASVARFATHWRLPLITAGAPAFGFSNKTDEYRTTVRTGPSTTKLGEFVNHLHEHFNWTSRAALL 150 (399)
T ss_pred hcCCCEEECCCCchHHHHHHHHHhhcCCcEEeeccchhhhccccccCCceEEecCcHHHHHHHHHHHHHhCCCcEEEEEE
Confidence 45788999999999999999999999999999988765332111244558999987 588899999999999 68899
Q ss_pred EeCC
Q psy2801 91 YDSH 94 (126)
Q Consensus 91 Y~dd 94 (126)
|+++
T Consensus 151 y~~~ 154 (399)
T cd06384 151 YLDL 154 (399)
T ss_pred EecC
Confidence 9764
No 41
>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=99.02 E-value=1.9e-09 Score=83.66 Aligned_cols=97 Identities=10% Similarity=0.074 Sum_probs=73.0
Q ss_pred hccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHH-HHcCCcEE
Q psy2801 12 NQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTV-KYYGWKNI 87 (126)
Q Consensus 12 ~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli-~~f~W~~v 87 (126)
++.+++|.||+||.++..+..++.+++..+||+|+++...+.+ .+...++.+++.|+ .++++++++ ++++|++|
T Consensus 61 ~li~~~v~aiiG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v 138 (334)
T cd06342 61 KLVDDGVVGVVGHLNSGVTIPASPIYADAGIVMISPAATNPKL--TERGYKNVFRVVARDDQQGPAAAKYAVETLKAKKV 138 (334)
T ss_pred HHHhCCceEEECCCccHhHHHhHHHHHhCCCeEEecCCCCchh--hcCCCceEEeccCCcHHHHHHHHHHHHHhcCCCEE
Confidence 3444599999999999999999999999999999987654322 22244677888886 488999975 57899999
Q ss_pred EEEEeCCCccccCCChHHHHHHHHh
Q psy2801 88 IYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 88 ~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
+++|++++ .+....+.++..+++
T Consensus 139 ~~v~~~~~--~g~~~~~~~~~~~~~ 161 (334)
T cd06342 139 AIIDDKTA--YGQGLADEFKKALKA 161 (334)
T ss_pred EEEeCCcc--hhhHHHHHHHHHHHH
Confidence 99998874 222334566666665
No 42
>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=98.99 E-value=2.4e-09 Score=84.20 Aligned_cols=88 Identities=17% Similarity=0.257 Sum_probs=70.5
Q ss_pred HHHhhccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCC--CCCCCCceEEeeCC---HHHHHHHHHHH
Q psy2801 8 VSVCNQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAP--SSGFLDYAISMRPD---YHQAIIDTVKY 81 (126)
Q Consensus 8 ~~~C~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~--~~~~~~f~~~~~P~---~~~Ai~dli~~ 81 (126)
+.++++..+ |+.||+||.++..+.+++.+++..+||+|++....+.+.. .....++.+++.|+ +..++++++.+
T Consensus 57 ~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~t~~~~~~~~~~~fr~~~~~~~~~~~~~~~~~~ 136 (344)
T cd06345 57 RAFERLVSQDKVDAVVGGYSSEVVLALQDVAAENKVPFIVTGAASPEITTADDYETYKYVFRAGPTNSSYAQSVADALKE 136 (344)
T ss_pred HHHHHHhccCCceEEECCcchHHHHHHHHHHHHcCCcEEeccCCCCcccccccccCCceEEecCCCcHHHHHHHHHHHHH
Confidence 467788765 9999999999999999999999999999987654442211 11355788999886 48888888876
Q ss_pred -----cCCcEEEEEEeCCC
Q psy2801 82 -----YGWKNIIYMYDSHD 95 (126)
Q Consensus 82 -----f~W~~v~iiY~dd~ 95 (126)
++|++|+++|++++
T Consensus 137 ~~~~~~~~~~va~l~~~~~ 155 (344)
T cd06345 137 TLVDKHGFKTAAIVAEDAA 155 (344)
T ss_pred hhcccCCCceEEEEecCch
Confidence 89999999999875
No 43
>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=98.97 E-value=2.6e-09 Score=83.20 Aligned_cols=100 Identities=15% Similarity=0.110 Sum_probs=75.0
Q ss_pred HHhhccCC-CcEEEEcCCCcchHHHH-HHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC
Q psy2801 9 SVCNQFSR-GVFSMLGAVSPDSFDTF-HSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG 83 (126)
Q Consensus 9 ~~C~~~~~-gv~AIiGp~~s~~~~~v-~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~ 83 (126)
.+-+++.+ +|.+|+||.++..+.++ +.++...+||+|++..+.+.+. .....+|++++.|+ ..+++++++..++
T Consensus 58 ~a~~li~~~~v~~viG~~~s~~~~a~~~~~~~~~~vp~i~~~~~~~~l~-~~~~~~~~fr~~~~~~~~~~~l~~~~~~~~ 136 (312)
T cd06346 58 AATKLVNVDGVPGIVGAACSGVTIAALTSVAVPNGVVMISPSSTSPTLT-TLDDNGLFFRTAPSDALQGQALAQLAAERG 136 (312)
T ss_pred HHHHHHhhcCCCEEEccccchhhHhhhhhhhccCCcEEEecCCCCccce-ecCCCceEEEecCCcHHHHHHHHHHHHHcC
Confidence 34455554 99999999999999999 9999999999998877655332 11234688888876 4899999999999
Q ss_pred CcEEEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 84 WKNIIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 84 W~~v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
|+++++||++++ |.. ....++..+.+
T Consensus 137 ~~~vail~~~~~~g~~---~~~~~~~~~~~ 163 (312)
T cd06346 137 YKSVATTYINNDYGVG---LADAFTKAFEA 163 (312)
T ss_pred CCeEEEEEccCchhhH---HHHHHHHHHHH
Confidence 999999998764 443 23344444443
No 44
>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=98.95 E-value=6.3e-09 Score=81.71 Aligned_cols=102 Identities=14% Similarity=0.208 Sum_probs=73.7
Q ss_pred HHHHhhccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC----HHHHHHHHHHH
Q psy2801 7 FVSVCNQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD----YHQAIIDTVKY 81 (126)
Q Consensus 7 ~~~~C~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~----~~~Ai~dli~~ 81 (126)
...+|+++.+ ||.+|+||..+..+.++..++...+||+|+++.+.+.+ ....+|.+++.|+ ...++..++++
T Consensus 56 ~~~~~~li~~~~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~---~~~~~~~fr~~~~~~~~~~~~~~~~~~~ 132 (344)
T cd06348 56 INAFQTLINKDRVLAIIGPTLSQQAFAADPIAERAGVPVVGPSNTAKGI---PEIGPYVFRVSAPEAVVAPAAIAAALKL 132 (344)
T ss_pred HHHHHHHhhhcCceEEECCCCcHHHHhhhHHHHhCCCCEEeccCCCCCc---CCCCCeEEEccCcHHHHHHHHHHHHHHH
Confidence 4567888876 89999999999999999999999999999977654422 1244677888654 25667788888
Q ss_pred c-CCcEEEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 82 Y-GWKNIIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 82 f-~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
+ |||+++++|+++++. +......++..+.+
T Consensus 133 ~~~~~~v~~l~~~~~~~-g~~~~~~~~~~~~~ 163 (344)
T cd06348 133 NPGIKRVAVFYAQDDAF-SVSETEIFQKALRD 163 (344)
T ss_pred hcCCeEEEEEEeCCchH-HHHHHHHHHHHHHH
Confidence 8 999999999876532 22223344444443
No 45
>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=98.94 E-value=9.4e-09 Score=79.66 Aligned_cols=99 Identities=13% Similarity=0.132 Sum_probs=73.2
Q ss_pred HHHhhccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHH-HHc
Q psy2801 8 VSVCNQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTV-KYY 82 (126)
Q Consensus 8 ~~~C~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli-~~f 82 (126)
..+++++++ ||.|||||.++..+..+..+++..+||+|++....+.+ . +...+.+++.|+ .++++++++ +++
T Consensus 57 ~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~~~ip~i~~~~~~~~~--~-~~~~~~fr~~~~~~~~~~~~~~~~~~~~ 133 (334)
T cd06347 57 NAATRLIDQDKVVAIIGPVTSGATLAAGPIAEDAKVPMITPSATNPKV--T-QGKDYVFRVCFIDPFQGTVMAKFATENL 133 (334)
T ss_pred HHHHHHhcccCeEEEEcCCccHhHHHhHHHHHHCCCeEEcCCCCCCCc--c-cCCCeEEEeeCCcHHHHHHHHHHHHHhc
Confidence 467788876 99999999999999999999999999999987654422 1 122367777664 488889986 678
Q ss_pred CCcEEEEEEeCC-C-ccccCCChHHHHHHHHh
Q psy2801 83 GWKNIIYMYDSH-D-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 83 ~W~~v~iiY~dd-~-gl~~~~~l~~l~~~l~~ 112 (126)
+|+++++||+++ + |.. ..+.++..+.+
T Consensus 134 ~~~~v~ii~~~~~~~~~~---~~~~~~~~~~~ 162 (334)
T cd06347 134 KAKKAAVLYDNSSDYSKG---LAKAFKEAFKK 162 (334)
T ss_pred CCcEEEEEEeCCCchhHH---HHHHHHHHHHH
Confidence 999999999875 3 322 23445555554
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=98.94 E-value=2.9e-09 Score=83.39 Aligned_cols=84 Identities=12% Similarity=0.174 Sum_probs=69.0
Q ss_pred HhhccC-CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC--
Q psy2801 10 VCNQFS-RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG-- 83 (126)
Q Consensus 10 ~C~~~~-~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~-- 83 (126)
+.++.. +||.|||||.++..+..+..+++..+||+|++....+.+ .....++.+++.|+ ...++++++.+++
T Consensus 63 ~~~li~~~~v~aviG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~ 140 (345)
T cd06338 63 YERLITQDKVDFLLGPYSSGLTLAAAPVAEKYGVPMVAGSGASDSI--FAQGFKYVFGTLPPASQYAKSLLEMLVALDPR 140 (345)
T ss_pred HHHHHhhcCccEEecCCcchhHHHHHHHHHHhCCcEEecCCCCchH--hhcCCceEEEecCchHHHHHHHHHHHHhcCCC
Confidence 344554 489999999999999999999999999999987665422 12455788999987 4999999999998
Q ss_pred CcEEEEEEeCCC
Q psy2801 84 WKNIIYMYDSHD 95 (126)
Q Consensus 84 W~~v~iiY~dd~ 95 (126)
|++++++|++++
T Consensus 141 ~~~v~~v~~~~~ 152 (345)
T cd06338 141 PKKVAILYADDP 152 (345)
T ss_pred CceEEEEecCCc
Confidence 999999999874
No 47
>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=98.92 E-value=1.2e-08 Score=76.44 Aligned_cols=100 Identities=21% Similarity=0.359 Sum_probs=73.7
Q ss_pred HHhhccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCC
Q psy2801 9 SVCNQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGW 84 (126)
Q Consensus 9 ~~C~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W 84 (126)
.+.++..+ ||.+|||+.++.....+..+++..+||+|++........ .....++.+++.|+ .++++++++.+++|
T Consensus 58 ~~~~l~~~~~v~~iig~~~~~~~~~~~~~~~~~~iP~i~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 136 (299)
T cd04509 58 AARRLCQQEGVDALVGPVSSGVALAVAPVAEALKIPLISPGATAPGLT-DKKGYPYLFRTGPSDEQQAEALADYIKEYNW 136 (299)
T ss_pred HHHHHhcccCceEEEcCCCcHHHHHHHHHHhhCCceEEeccCCCcccc-cccCCCCEEEecCCcHHHHHHHHHHHHHcCC
Confidence 34455555 899999999988888899999999999999776543221 11235678888886 48999999999999
Q ss_pred cEEEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 85 KNIIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 85 ~~v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
++++++|+++. |. ...+.++..+.+
T Consensus 137 ~~v~iv~~~~~~~~---~~~~~~~~~~~~ 162 (299)
T cd04509 137 KKVAILYDDDSYGR---GLLEAFKAAFKK 162 (299)
T ss_pred cEEEEEecCchHHH---HHHHHHHHHHHH
Confidence 99999998875 32 223444444443
No 48
>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=98.91 E-value=3e-09 Score=84.11 Aligned_cols=87 Identities=13% Similarity=0.277 Sum_probs=71.1
Q ss_pred HHHHhhccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHc
Q psy2801 7 FVSVCNQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYY 82 (126)
Q Consensus 7 ~~~~C~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f 82 (126)
...+++++++ +|.+|+||.++..+..++.+++..+||+|+++...+.+ .....+|.+++.|+ ...++++++.++
T Consensus 59 ~~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~l--~~~~~~~~fr~~p~~~~~~~~~~~~l~~~ 136 (347)
T cd06340 59 ATEAERLITEEGVVALVGAYQSAVTLAASQVAERYGVPFVVDGAVSDSI--TERGFKYTFRITPHDGMFTRDMFDFLKDL 136 (347)
T ss_pred HHHHHHHhccCCceEEecccchHhHHHHHHHHHHhCCCEEeccccchHH--hhcCCceEEecCCChHHHHHHHHHHHHHh
Confidence 3467788876 99999999999999999999999999999877655433 22345788999997 489999999887
Q ss_pred C------CcEEEEEEeCCC
Q psy2801 83 G------WKNIIYMYDSHD 95 (126)
Q Consensus 83 ~------W~~v~iiY~dd~ 95 (126)
+ |++++++|+++.
T Consensus 137 ~~~~~~~~~~v~~l~~~~~ 155 (347)
T cd06340 137 NEKTGKPLKTVALVHEDTE 155 (347)
T ss_pred hHhcCCCCceEEEEecCch
Confidence 4 599999999774
No 49
>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=98.89 E-value=1.2e-08 Score=80.09 Aligned_cols=84 Identities=18% Similarity=0.220 Sum_probs=68.2
Q ss_pred HHhhcc-C-CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC
Q psy2801 9 SVCNQF-S-RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG 83 (126)
Q Consensus 9 ~~C~~~-~-~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~ 83 (126)
..++.+ . .||.+|+|+.++..+.++..+++..+||+|+++..++.+ . ...+|.+++.|+ ..+++++.+.+++
T Consensus 56 ~~a~~li~~~~v~aiiG~~~s~~~~a~~~~~~~~~ip~i~~~a~~~~l--t-~~~~~~fr~~~~~~~~~~~~~~~~~~~~ 132 (332)
T cd06344 56 KVADELVKDPEILGVVGHYSSDATLAALDIYQKAKLVLISPTSTSVKL--S-NPGPYFFRTVPSNAVAARALAKYLKKKN 132 (332)
T ss_pred HHHHHHhcccCceEEEcCCCcHHHHHHHHHHhhcCceEEccCcCchhh--c-CCCCcEEEeCCCcHHHHHHHHHHHHhhc
Confidence 455444 3 389999999999999999999999999999977654433 1 345788999987 4999999999886
Q ss_pred -CcEEEEEEeCCC
Q psy2801 84 -WKNIIYMYDSHD 95 (126)
Q Consensus 84 -W~~v~iiY~dd~ 95 (126)
|+++++||++++
T Consensus 133 ~~~~v~~i~~~~~ 145 (332)
T cd06344 133 KIKKVAIFYNSTS 145 (332)
T ss_pred CCCeEEEEeCCCc
Confidence 999999999865
No 50
>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=98.82 E-value=3.5e-08 Score=78.00 Aligned_cols=94 Identities=16% Similarity=0.255 Sum_probs=68.6
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHH-HHcCCcEEEEEE
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTV-KYYGWKNIIYMY 91 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli-~~f~W~~v~iiY 91 (126)
+||.||+|+.++..+.+++.+++..+||+|+++++.+.+.......+|.+++.|. ...++++.+ ++++|++|+++|
T Consensus 66 ~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~l~~~~~~~~~~Fr~~~~~~~~~~~~a~~~~~~~~~~~v~ii~ 145 (347)
T cd06335 66 EKVVAVLGGLHTPVALANLEFIQQNKIPLIGPWAAGTPITRNGAPPNYIFRVSADDSIQAPFLVDEAVKRGGFKKVALLL 145 (347)
T ss_pred CCeEEEEcCCCCHHHHhhhHHHHhcCCcEEecCCCCcccccCCCCCCCEEEeccChHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 4899999999999999999999999999999776543221111234678888875 377888876 567799999999
Q ss_pred eCCC-ccccCCChHHHHHHHHh
Q psy2801 92 DSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 92 ~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
++++ |... ...++..+.+
T Consensus 146 ~~~~~g~~~---~~~~~~~~~~ 164 (347)
T cd06335 146 DNTGWGRSN---RKDLTAALAA 164 (347)
T ss_pred ccCchhhhH---HHHHHHHHHH
Confidence 9874 5433 3344444444
No 51
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=98.77 E-value=2.3e-08 Score=78.47 Aligned_cols=102 Identities=11% Similarity=-0.070 Sum_probs=76.7
Q ss_pred HHHhhccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC
Q psy2801 8 VSVCNQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG 83 (126)
Q Consensus 8 ~~~C~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~ 83 (126)
+.+++++.+ +|.|||||.++..+..+..+++..+||+|++....+.+. .....++.+++.|+ ..++++++++.++
T Consensus 57 ~~a~~li~~~~v~aiig~~~s~~~~~~~~~~~~~~ip~i~~~s~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 135 (346)
T cd06330 57 REARELVENEGVDMLIGLISSGVALAVAPVAEELKVFFIATDPGTPRLT-EEPDNPYVFRTRNSTIMDAVAGALYAAKLD 135 (346)
T ss_pred HHHHHHHhccCCcEEEcccchHHHHHHHHHHHHcCCeEEEcCCCCcccc-cCCCCCceEEecCChHHHHHHHHHHHHHhC
Confidence 467778776 999999999999999999999999999998765443221 12345788888886 4999999998874
Q ss_pred --CcEEEEEEeCCC-ccccCCChHHHHHHHHhh
Q psy2801 84 --WKNIIYMYDSHD-EMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 84 --W~~v~iiY~dd~-gl~~~~~l~~l~~~l~~~ 113 (126)
|++++++|.+++ |... .+.+...+.+.
T Consensus 136 ~~~~~v~~l~~~~~~g~~~---~~~~~~~~~~~ 165 (346)
T cd06330 136 KKAKTWATINPDYAYGQDA---WADFKAALKRL 165 (346)
T ss_pred cCccEEEEECCchHHHHHH---HHHHHHHHHHh
Confidence 999999998754 5433 33444555543
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=98.70 E-value=4.4e-08 Score=77.17 Aligned_cols=101 Identities=7% Similarity=-0.008 Sum_probs=75.0
Q ss_pred HHHhhccCCCcEEEEcCCCcchHHHH-------HHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHH
Q psy2801 8 VSVCNQFSRGVFSMLGAVSPDSFDTF-------HSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIID 77 (126)
Q Consensus 8 ~~~C~~~~~gv~AIiGp~~s~~~~~v-------~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~d 77 (126)
+.++++++++|.+|+||.++..+..+ +.++...+||+|++.+..+.+. .....++.+++.|+ ...++++
T Consensus 57 ~~a~~lv~~~v~aiiG~~~s~~~~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~~-~~~~~~~~fr~~~~~~~~~~~l~~ 135 (342)
T cd06329 57 RKAQKAIDDGVRLVVQGNSSSVALALTEAVRKHNQRNPGKEVLYLNYASVAPALT-GEKCSFWHFRTDANTDMKMEALAS 135 (342)
T ss_pred HHHHHHHHhCCeEEEcccchHHHHHhhhhhhhhhhhhccCCeEEEecCCCCchhh-hccCcceEEEecCChHHHHHHHHH
Confidence 45667777799999999999888888 7888999999998766544331 11234678888887 4899999
Q ss_pred HHHHcC-CcEEEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 78 TVKYYG-WKNIIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 78 li~~f~-W~~v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
++...+ ||+++++|.|+. |.. ..+.++..+.+
T Consensus 136 ~~~~~~~~k~v~i~~~~~~~g~~---~~~~~~~~~~~ 169 (342)
T cd06329 136 YIKKQPDGKKVYLINQDYSWGQD---VAAAFKAMLAA 169 (342)
T ss_pred HHHhcccCceEEEEeCChHHHHH---HHHHHHHHHHh
Confidence 998876 999999998763 543 23445555544
No 53
>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=98.69 E-value=1.6e-07 Score=70.35 Aligned_cols=100 Identities=18% Similarity=0.231 Sum_probs=73.6
Q ss_pred HHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC-C
Q psy2801 9 SVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG-W 84 (126)
Q Consensus 9 ~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~-W 84 (126)
.+.++.++++.+|+||.++.....+..++...+||+|++....+.. .+...++.+++.|+ ..+++++++..++ |
T Consensus 58 ~~~~l~~~~v~~iig~~~~~~~~~~~~~~~~~~ip~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 135 (298)
T cd06268 58 AARELVDDGVDAVIGPLSSGVALAAAPVAEEAGVPLISPGATSPAL--TGKGNPYVFRTAPSDAQQAAALADYLAEKGKV 135 (298)
T ss_pred HHHHHHhCCceEEEcCCcchhHHhhHHHHHhCCCcEEccCCCCccc--ccCCCceEEEcccCcHHHHHHHHHHHHHhcCC
Confidence 3445667799999999988888888999999999999877654322 11235677888876 4999999999988 9
Q ss_pred cEEEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 85 KNIIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 85 ~~v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
++++++|.+++ ......+.+...+.+
T Consensus 136 ~~i~~v~~~~~--~~~~~~~~~~~~~~~ 161 (298)
T cd06268 136 KKVAIIYDDYA--YGRGLAAAFREALKK 161 (298)
T ss_pred CEEEEEEcCCc--hhHHHHHHHHHHHHH
Confidence 99999998765 222334445444443
No 54
>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=98.61 E-value=2.3e-07 Score=73.32 Aligned_cols=98 Identities=10% Similarity=0.100 Sum_probs=73.0
Q ss_pred HHhhccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCC
Q psy2801 9 SVCNQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGW 84 (126)
Q Consensus 9 ~~C~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W 84 (126)
.+.++... +|.+|+|+.++..+.. ..++...+||+|++...++.+ .....+|.+++.|. ...++++++...+|
T Consensus 62 ~~~~li~~~~v~~iiG~~~s~~~~~-~~~~~~~~ip~i~~~~~~~~~--~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~ 138 (347)
T cd06336 62 NARRLVQQDGVKFILGPIGGGITAA-QQITERNKVLLLTAYSSDLSI--DTAGNPLTFRVPPIYNVYGVPFLAYAKKPGG 138 (347)
T ss_pred HHHHHHhhcCceEEEeCCCCchhhh-hhhhhhcCceEEeccCCcccc--cccCCceEEEecCCchhHHHHHHHHHhhcCC
Confidence 34455555 8999999999988888 999999999999887765533 12344678888886 48888999888999
Q ss_pred cEEEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 85 KNIIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 85 ~~v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
++++++|.|+. |. .....++..+.+
T Consensus 139 ~~v~il~~d~~~g~---~~~~~~~~~l~~ 164 (347)
T cd06336 139 KKVALLGPNDAYGQ---PWVAAYKAAWEA 164 (347)
T ss_pred ceEEEEccCCchhH---HHHHHHHHHHHH
Confidence 99999998865 43 234445555543
No 55
>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=98.59 E-value=3.9e-07 Score=71.43 Aligned_cols=93 Identities=12% Similarity=0.104 Sum_probs=70.3
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHH-HHcCCcEEEEE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTV-KYYGWKNIIYM 90 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli-~~f~W~~v~ii 90 (126)
+++|.+|+|+.++..+..+..++...+||+|++....+.+ . ...+|.++..|+ ...++++.+ +.++|++++++
T Consensus 65 ~~~V~~i~G~~~s~~~~a~~~~~~~~~vp~i~~~~~~~~~--~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~v~ii 141 (340)
T cd06349 65 DPRIVAVLGDFSSGVSMAASPIYQRAGLVQLSPTNSHPDF--T-KGGDFIFRNSTSQAIEAPLLADYAVKDLGFKKVAIL 141 (340)
T ss_pred cCCeEEEECCCccHhHHHhHHHHHhCCCeEEecCCCCCcc--c-cCCCeEEEccCCcHHHHHHHHHHHHHHcCCcEEEEE
Confidence 3579999999999999999999999999999876554422 2 235788888876 377888885 67899999999
Q ss_pred EeCCCccccCCChHHHHHHHHh
Q psy2801 91 YDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 91 Y~dd~gl~~~~~l~~l~~~l~~ 112 (126)
|.|++ .+....+.+.+.+.+
T Consensus 142 ~~~~~--~g~~~~~~~~~~~~~ 161 (340)
T cd06349 142 SVNTD--WGRTSADIFVKAAEK 161 (340)
T ss_pred ecCCh--HhHHHHHHHHHHHHH
Confidence 99875 223334556666654
No 56
>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=98.58 E-value=1.7e-07 Score=73.43 Aligned_cols=83 Identities=8% Similarity=-0.102 Sum_probs=65.2
Q ss_pred HHHhhccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC
Q psy2801 8 VSVCNQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG 83 (126)
Q Consensus 8 ~~~C~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~ 83 (126)
..++++..+ ||.||+|+.++..+..+..+++..+||+|++..... ....++.+++.|+ ..+++++.+...+
T Consensus 57 ~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~-----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~ 131 (333)
T cd06331 57 KAARRLIRDDKVDAVFGCYTSASRKAVLPVVERGRGLLFYPTQYEG-----GECSPNVFYTGATPNQQLLPLIPYLMEKY 131 (333)
T ss_pred HHHHHHHhccCCcEEEecccHHHHHHHHHHHHhcCceEEeCCCCCC-----CcCCCCeEEccCChHHhHHHHHHHHHHhc
Confidence 456777766 999999999999999999999999999998654321 1233577788876 3778888776656
Q ss_pred CcEEEEEEeCCC
Q psy2801 84 WKNIIYMYDSHD 95 (126)
Q Consensus 84 W~~v~iiY~dd~ 95 (126)
|+++++||+|+.
T Consensus 132 ~~~v~il~~d~~ 143 (333)
T cd06331 132 GKRFYLIGSDYV 143 (333)
T ss_pred CCeEEEECCCch
Confidence 999999998764
No 57
>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=98.57 E-value=1.7e-07 Score=74.13 Aligned_cols=97 Identities=14% Similarity=0.130 Sum_probs=70.9
Q ss_pred hccC-CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHH-HHHcCCcE
Q psy2801 12 NQFS-RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDT-VKYYGWKN 86 (126)
Q Consensus 12 ~~~~-~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dl-i~~f~W~~ 86 (126)
++.. ++|.+||||.++..+..+..++...+||+|++....+.+. .....++.+++.|+ ..+++++. +++++|++
T Consensus 68 ~li~~~~v~avvG~~~s~~~~~~~~~~~~~~ip~i~~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~ 146 (362)
T cd06343 68 KLVESDEVFAMVGGLGTPTNLAVQKYLNEKKVPQLFPASGASKWN-DPKPFPWTFGWQPSYQDEARIYAKYLVEEKPNAK 146 (362)
T ss_pred HHHhhcCeEEEEecCCcHHHHHhHHHHHhcCCceEecccccHhhh-CCCCCCceEecCCChHHHHHHHHHHHHHhCCCce
Confidence 4444 5899999999999999999999999999998765443221 11245688888887 37888884 56789999
Q ss_pred EEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 87 IIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 87 v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
+++||+++. |.. ..+.+++.+.+
T Consensus 147 v~ii~~~~~~g~~---~~~~~~~~~~~ 170 (362)
T cd06343 147 IAVLYQNDDFGKD---YLKGLKDGLGD 170 (362)
T ss_pred EEEEEeccHHHHH---HHHHHHHHHHH
Confidence 999998764 432 23444555544
No 58
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=98.54 E-value=3.3e-07 Score=73.60 Aligned_cols=82 Identities=12% Similarity=0.053 Sum_probs=64.5
Q ss_pred hccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHH-HHcCCcEE
Q psy2801 12 NQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTV-KYYGWKNI 87 (126)
Q Consensus 12 ~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli-~~f~W~~v 87 (126)
++.+++|.+|+|+.++..+..+..+++..+||+|++....+.+ .+...+|.+++.|. ..+++++.+ +.++|+++
T Consensus 87 ~Li~~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~s~~~~l--~~~~~~~~fr~~~~~~~~~~~~~~~~~~~~~~k~v 164 (369)
T PRK15404 87 KVVNDGIKYVIGHLCSSSTQPASDIYEDEGILMITPAATAPEL--TARGYQLIFRTIGLDSDQGPTAAKYILEKVKPKRI 164 (369)
T ss_pred HHHhCCceEEEcCCCchhHHHhHHHHHHCCCeEEecCCCCHHH--hcCCCceEEeCCCCcHHHHHHHHHHHHHhcCCCEE
Confidence 4456789999999999889999999999999999977665533 22345677777765 377888854 56799999
Q ss_pred EEEEeCCC
Q psy2801 88 IYMYDSHD 95 (126)
Q Consensus 88 ~iiY~dd~ 95 (126)
++||+|+.
T Consensus 165 a~i~~d~~ 172 (369)
T PRK15404 165 AVLHDKQQ 172 (369)
T ss_pred EEEeCCCc
Confidence 99999864
No 59
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=98.43 E-value=1.1e-06 Score=68.96 Aligned_cols=81 Identities=15% Similarity=0.046 Sum_probs=64.0
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEe
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYD 92 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~ 92 (126)
+||.+|+|+.++..+..+..++...+||+|++........ .....+|.+++.|. ...++++++...||++++++|+
T Consensus 64 ~~v~~viG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~g~~~vail~~ 142 (333)
T cd06359 64 DKVDFVTGVVFSNVLLAVVPPVLESGTFYISTNAGPSQLA-GKQCSPYFFSTSWQNDQVHEAMGKYAQDKGYKRVFLIAP 142 (333)
T ss_pred cCCcEEEccCCcHHHHHHHHHHHHcCCeEEecCCCccccc-cccCCCcEEEeeCChHhhHHHHHHHHHHhCCCeEEEEec
Confidence 4899999999999999999999999999998754332111 11224688888875 4899999999999999999999
Q ss_pred CCC-cc
Q psy2801 93 SHD-EM 97 (126)
Q Consensus 93 dd~-gl 97 (126)
|+. |.
T Consensus 143 ~~~~g~ 148 (333)
T cd06359 143 NYQAGK 148 (333)
T ss_pred CchhhH
Confidence 864 44
No 60
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=98.36 E-value=1e-06 Score=69.04 Aligned_cols=93 Identities=11% Similarity=0.033 Sum_probs=68.8
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEe
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYD 92 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~ 92 (126)
++|.+|+|+.++..+.++..++...+||+|++....+.+. .....++.+++.|+ .++++++.+...+|++++++|.
T Consensus 65 ~~V~aviG~~~s~~~~a~~~~~~~~~vp~i~~~s~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v~~i~~ 143 (334)
T cd06327 65 DGVDMIVGGPNSAVALAVQEVAREKKKIYIVTGAGSDDLT-GKDCSPYTFHWAYDTYMLANGTAPALVKAGGKKWFFLTA 143 (334)
T ss_pred cCceEEECCccHHHHHHHHHHHHHhCceEEecCCCccccc-cCCCCCceEEccCChHHHHHHHHHHHHHhcCCeEEEEec
Confidence 4899999999999999999999999999998776544331 11224677888876 3889999877777999999998
Q ss_pred CCC-ccccCCChHHHHHHHHh
Q psy2801 93 SHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 93 dd~-gl~~~~~l~~l~~~l~~ 112 (126)
++. |.. ....++..+.+
T Consensus 144 ~~~~g~~---~~~~~~~~~~~ 161 (334)
T cd06327 144 DYAFGHS---LERDARKVVKA 161 (334)
T ss_pred chHHhHH---HHHHHHHHHHh
Confidence 764 432 23444444443
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=98.33 E-value=3.6e-06 Score=65.48 Aligned_cols=84 Identities=17% Similarity=0.238 Sum_probs=63.4
Q ss_pred HHhhccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCC
Q psy2801 9 SVCNQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGW 84 (126)
Q Consensus 9 ~~C~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W 84 (126)
...++..+ +|.||||+.++..+..+..++...+||+|++....+.+ .....++.+++.|+ ...++++.+...||
T Consensus 59 ~~~~l~~~~~v~avig~~~s~~~~~~~~~~~~~~iP~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~l~~~g~ 136 (336)
T cd06326 59 NTRKLIEDDKVFALFGYVGTPTTAAALPLLEEAGVPLVGPFTGASSL--RDPPDRNVFNVRASYADEIAAIVRHLVTLGL 136 (336)
T ss_pred HHHHHHhhcCcEEEEeCCCchhHHHHHHHHHHcCCeEEEecCCcHHh--cCCCCCceEEeCCChHHHHHHHHHHHHHhCC
Confidence 45566664 99999999887777778899999999999875443211 11123567778877 38888888889999
Q ss_pred cEEEEEEeCC
Q psy2801 85 KNIIYMYDSH 94 (126)
Q Consensus 85 ~~v~iiY~dd 94 (126)
++++++++++
T Consensus 137 ~~v~~l~~~~ 146 (336)
T cd06326 137 KRIAVFYQDD 146 (336)
T ss_pred ceEEEEEecC
Confidence 9999999865
No 62
>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=98.28 E-value=3.7e-06 Score=65.11 Aligned_cols=79 Identities=14% Similarity=0.018 Sum_probs=62.0
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEe
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYD 92 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~ 92 (126)
++|.+|||+..+.....+..++...+||+|++....+.+. .....++.+++.|+ ..+.+++++...+|++++++++
T Consensus 64 ~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~l~~~g~~~v~il~~ 142 (333)
T cd06332 64 DKVDVVVGPVFSNVALAVVPSLTESGTFLISPNAGPSDLA-GKLCSPNFFRTSWQNDQVHEAMGKYAADKGYKKVVIIAP 142 (333)
T ss_pred cCCcEEEcCCccHHHHHHHHHHhhcCCeEEecCCCCcccc-ccCCCCcEEEeeCChHHhHHHHHHHHHHhCCceEEEEec
Confidence 3899999998887777888899999999998765433221 11225788888887 3999999999999999999997
Q ss_pred CCC
Q psy2801 93 SHD 95 (126)
Q Consensus 93 dd~ 95 (126)
++.
T Consensus 143 ~~~ 145 (333)
T cd06332 143 DYA 145 (333)
T ss_pred Ccc
Confidence 654
No 63
>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=98.26 E-value=4.6e-06 Score=67.05 Aligned_cols=83 Identities=10% Similarity=0.161 Sum_probs=66.7
Q ss_pred hccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEE
Q psy2801 12 NQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNII 88 (126)
Q Consensus 12 ~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~ 88 (126)
++..+||.+|+|+.+|..+.++..++...++|+|+++...+.+. .....+|.|++.|+ .++++++.+...+.+++.
T Consensus 54 ~Li~~~V~~vvG~~~S~~~~Av~~~a~~~~vp~i~~~a~~~~lt-~~~c~~~~Fr~~~~~~~~~~ala~~~~~~g~kkva 132 (347)
T TIGR03863 54 ALLAQGVRFFVLDLPAAALLALADAAKAKGALLFNAGAPDDALR-GADCRANLLHTLPSRAMLADALAQYLAAKRWRRIL 132 (347)
T ss_pred HHHHCCCCEEEecCChHHHHHHHHHHHhCCcEEEeCCCCChHHh-CCCCCCCEEEecCChHhHHHHHHHHHHHcCCCEEE
Confidence 34457899999999999999999999999999998876554221 11234688899987 489999988878999999
Q ss_pred EEEeCCC
Q psy2801 89 YMYDSHD 95 (126)
Q Consensus 89 iiY~dd~ 95 (126)
+||+|++
T Consensus 133 ii~~~~~ 139 (347)
T TIGR03863 133 LIQGPLP 139 (347)
T ss_pred EEeCCCc
Confidence 9998764
No 64
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=98.23 E-value=1e-05 Score=62.85 Aligned_cols=100 Identities=12% Similarity=0.004 Sum_probs=69.9
Q ss_pred HhhccC-CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCc
Q psy2801 10 VCNQFS-RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWK 85 (126)
Q Consensus 10 ~C~~~~-~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~ 85 (126)
.-++.. .++.+|||+..+..+..+..++...+||+|++....+.+. .....++.+++.|+ ...++++.+...+||
T Consensus 57 ~~~lv~~~~v~~iig~~~s~~~~~~~~~~~~~~ip~v~~~~~~~~~~-~~~~~~~~f~~~~~~~~~~~~~~~~l~~~~~~ 135 (336)
T cd06360 57 ARKLIEQDKVDVVVGPVHSGEALAMVKVLREPGTPLINPNAGADDLT-GRLCAPNFFRTSFSNAQWAAPMGKYAADDGYK 135 (336)
T ss_pred HHHHHHHhCCcEEEccCccHhHHHHHHHHHhcCceEEecCCCCcccc-ccCCCCcEEEEeCchHHHHHHHHHHHHHcCCC
Confidence 334444 5899999999888888888899999999998765543221 11224677888876 388899999999999
Q ss_pred EEEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 86 NIIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 86 ~v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
+++++|.++. .+....+.++..+.+
T Consensus 136 ~v~~l~~~~~--~g~~~~~~~~~~~~~ 160 (336)
T cd06360 136 KVVTVAWDYA--FGYEVVEGFKEAFTE 160 (336)
T ss_pred eEEEEeccch--hhHHHHHHHHHHHHH
Confidence 9999997653 222223344444443
No 65
>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=98.21 E-value=6.3e-06 Score=65.21 Aligned_cols=80 Identities=6% Similarity=0.059 Sum_probs=62.2
Q ss_pred hhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEE
Q psy2801 11 CNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNI 87 (126)
Q Consensus 11 C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v 87 (126)
-.+..++|.+||||..+..+.+++.++...+||+|++..... . . ..++.+++.++ ..+++++.+...||+++
T Consensus 53 ~~li~~~V~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~-~--~--~~~~~f~~~~~~~~~~~~~~~~~~~~g~k~v 127 (336)
T cd06339 53 RQAVAEGADIIVGPLLKENVAALAAAAAELGVPVLALNNDES-V--A--AGPNLFYFGLSPEDEARRAAEYARSQGKRRP 127 (336)
T ss_pred HHHHHcCCCEEEccCCHHHHHHHHhhhccCCCCEEEccCCcc-c--c--CCCCEEEecCChHHHHHHHHHHHHhcCccce
Confidence 344456899999999998888888999999999998765432 1 1 13566777765 38888888888899999
Q ss_pred EEEEeCCC
Q psy2801 88 IYMYDSHD 95 (126)
Q Consensus 88 ~iiY~dd~ 95 (126)
+++|++++
T Consensus 128 aii~~~~~ 135 (336)
T cd06339 128 LVLAPDGA 135 (336)
T ss_pred EEEecCCh
Confidence 99998664
No 66
>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=98.17 E-value=1.5e-05 Score=61.63 Aligned_cols=80 Identities=13% Similarity=0.156 Sum_probs=60.8
Q ss_pred ccC-CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEE
Q psy2801 13 QFS-RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNII 88 (126)
Q Consensus 13 ~~~-~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~ 88 (126)
+.. ++|.+|||+..+..+..+..++...+||+|++....... . ...++.+++.|+ .++++++.+..+||++++
T Consensus 61 li~~~~v~~vig~~~s~~~~~~~~~~~~~~vP~v~~~~~~~~~--~-~~~~~~~~~~~~~~~~~~~~~~~l~~~g~~~va 137 (312)
T cd06333 61 LIEEDKVDAIIGPSTTPATMAVAPVAEEAKTPMISLAPAAAIV--E-PKRKWVFKTPQNDRLMAEAILADMKKRGVKTVA 137 (312)
T ss_pred HHhhCCeEEEECCCCCHHHHHHHHHHHhcCCCEEEccCCcccc--C-CCCCcEEEcCCCcHHHHHHHHHHHHHcCCCEEE
Confidence 444 489999999877767777788999999999876543211 1 233567777776 388888888899999999
Q ss_pred EEEeCCC
Q psy2801 89 YMYDSHD 95 (126)
Q Consensus 89 iiY~dd~ 95 (126)
+++.++.
T Consensus 138 il~~~~~ 144 (312)
T cd06333 138 FIGFSDA 144 (312)
T ss_pred EEecCcH
Confidence 9998653
No 67
>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=98.10 E-value=2.7e-05 Score=61.31 Aligned_cols=92 Identities=10% Similarity=-0.010 Sum_probs=64.8
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEe
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYD 92 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~ 92 (126)
++|.||+|+.++..+.++..++...+||+|+++...+.+. .....+|.+++.|+ ...++++.+... +|+++++|+
T Consensus 67 ~~V~avvG~~~S~~~~a~~~~~~~~~ip~i~~~~~~~~l~-~~~~~~~~f~~~~~~~~~~~~~~~~~~~~-~~~v~~i~~ 144 (333)
T cd06328 67 DGVDILVGSTSSGVALAVLPVAEENKKILIVEPAAADSIT-GKNWNRYTFRTGRNSSQDAIAAAAALGKP-GKKIATLAQ 144 (333)
T ss_pred cCCeEEEccCCcHHHHHHHHHHHHhCCcEEecCCCCchhh-ccCCCCcEEEecCChHHHHHHHHHHHHhc-CCeEEEEec
Confidence 3899999999999999999999999999998765544321 11223688888664 255556666555 899999999
Q ss_pred CCC-ccccCCChHHHHHHHHh
Q psy2801 93 SHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 93 dd~-gl~~~~~l~~l~~~l~~ 112 (126)
|+. |... ...++..+.+
T Consensus 145 ~~~~g~~~---~~~~~~~~~~ 162 (333)
T cd06328 145 DYAFGRDG---VAAFKAALEK 162 (333)
T ss_pred CccccHHH---HHHHHHHHHh
Confidence 874 4333 3344444443
No 68
>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=98.05 E-value=2e-05 Score=62.70 Aligned_cols=86 Identities=12% Similarity=0.099 Sum_probs=62.3
Q ss_pred hccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCC--C---CCCCCCCCceEEeeCC---HHHHHHHHHHHc
Q psy2801 12 NQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKV--L---APSSGFLDYAISMRPD---YHQAIIDTVKYY 82 (126)
Q Consensus 12 ~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~--~---~~~~~~~~f~~~~~P~---~~~Ai~dli~~f 82 (126)
++..+ ||.+|+|+.++..+.+++.+++..+||+|+++.+.+. + .......+|.++++++ ..+++++.++..
T Consensus 63 ~li~~d~v~~iiG~~~s~~~~a~~~~~~~~~ip~i~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~ 142 (357)
T cd06337 63 ELILTDKVDLLLAGGTPDTTNPVSDQCEANGVPCISTMAPWQAWFFGRGGNPATGFKWTYHFFWGAEDVVATYVGMWKQL 142 (357)
T ss_pred HHHhccCccEEEecCCcchhhHHHHHHHHhCCCeEEeccchhhhhccCCCCcccCCceeEEecCCHHHHHHHHHHHHHhC
Confidence 34444 8999999999988899999999999999986543110 0 0011124567777765 377888887887
Q ss_pred C-CcEEEEEEeCCC-cc
Q psy2801 83 G-WKNIIYMYDSHD-EM 97 (126)
Q Consensus 83 ~-W~~v~iiY~dd~-gl 97 (126)
+ +++++++|+++. |.
T Consensus 143 ~~~k~v~ii~~~~~~g~ 159 (357)
T cd06337 143 ETNKKVGILYPNDPDGN 159 (357)
T ss_pred CCCceEEEEeecCchhH
Confidence 7 999999999874 54
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=97.98 E-value=8.1e-05 Score=54.01 Aligned_cols=77 Identities=19% Similarity=0.309 Sum_probs=59.6
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMY 91 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY 91 (126)
.+++-+|+|+........+...+...+||+|+.....+.. . ..+...++.|+ ..+++++++.+++|+++++++
T Consensus 56 ~~~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~i~ 131 (269)
T cd01391 56 QQGVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATAPDL--T--GYPYVFRVGPDNEQAGEAAAEYLAEKGWKRVALIY 131 (269)
T ss_pred HcCCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCCCcc--C--CCceEEEEcCCcHHHHHHHHHHHHHhCCceEEEEe
Confidence 4588899998887666657888899999999876654311 1 23456777776 399999999999999999999
Q ss_pred eCCC
Q psy2801 92 DSHD 95 (126)
Q Consensus 92 ~dd~ 95 (126)
.+.+
T Consensus 132 ~~~~ 135 (269)
T cd01391 132 GDDG 135 (269)
T ss_pred cCCc
Confidence 8764
No 70
>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=97.90 E-value=8.2e-05 Score=58.31 Aligned_cols=91 Identities=10% Similarity=-0.011 Sum_probs=63.0
Q ss_pred ccC-CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHH-HHcCCcEE
Q psy2801 13 QFS-RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTV-KYYGWKNI 87 (126)
Q Consensus 13 ~~~-~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli-~~f~W~~v 87 (126)
++. .+|.+|||+.++..+..+..+.+ .+||+|+++.... . ...++.+++.|. ...++++.+ +..+|++|
T Consensus 62 Li~~~~v~aviG~~~s~~a~a~~~~~~-~~vp~i~~~~~~~----~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v 135 (333)
T cd06358 62 LVDEGGVDAIIGWHTSAVRNAVAPVVA-GRVPYVYTSLYEG----G-ECNPGVFLTGETPEQQLAPAIPWLAEEKGARRW 135 (333)
T ss_pred HHHhCCCcEEEecCcHHHHHHHHHHHh-cCceEEeCCCcCC----C-CCCCCEEEcCCCcHHHHHHHHHHHHHhcCCCeE
Confidence 344 48999999999999999999999 9999998754322 1 233677788765 244555544 56899999
Q ss_pred EEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 88 IYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 88 ~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
+++++++. |.. ..+.+...+.+
T Consensus 136 ~i~~~~~~~g~~---~~~~~~~~~~~ 158 (333)
T cd06358 136 YLIGNDYVWPRG---SLAAAKRYIAE 158 (333)
T ss_pred EEEeccchhhHH---HHHHHHHHHHH
Confidence 99998764 432 23344444544
No 71
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=97.82 E-value=0.00016 Score=57.75 Aligned_cols=96 Identities=11% Similarity=0.195 Sum_probs=65.8
Q ss_pred hccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcC----
Q psy2801 12 NQFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYG---- 83 (126)
Q Consensus 12 ~~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~---- 83 (126)
++..+ +|.+|+ +.++..+.++..++...+||+|++....+... .....+|.+++.|+ ...++++++...+
T Consensus 61 ~Li~~~~V~~i~-~~~S~~~~a~~~~~~~~~vp~i~~~~~~~~~~-~~~~~~~~Fr~~~~~~~~~~~l~~~~~~~~~~~~ 138 (351)
T cd06334 61 RLKGEDGAVAFQ-GWSTGITEALIPKIAADKIPLMSGSYGATLAD-DGAVFPYNFPVGPTYSDQARALVQYIAEQEGGKL 138 (351)
T ss_pred HHhccCCcEEEe-cCcHHHHHHhhHHHhhcCCcEEecccchhhcc-CCCCCCeeeeCCCCHHHHHHHHHHHHHHhcccCC
Confidence 33444 677766 45667788889999999999998765443221 12335688899887 3888888887655
Q ss_pred -CcEEEEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 84 -WKNIIYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 84 -W~~v~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
-++|++||.++. |. .....+...+.+
T Consensus 139 ~~~kvaiv~~~~~~g~---~~~~~~~~~~~~ 166 (351)
T cd06334 139 KGKKIALVYHDSPFGK---EPIEALKALAEK 166 (351)
T ss_pred CCCeEEEEeCCCccch---hhHHHHHHHHHH
Confidence 699999999764 43 334445555543
No 72
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=97.80 E-value=7e-05 Score=60.15 Aligned_cols=82 Identities=17% Similarity=0.172 Sum_probs=63.6
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHH-HcCCcEEEEE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVK-YYGWKNIIYM 90 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~-~f~W~~v~ii 90 (126)
.+||.+|||+..|..+..+..+++..+||+|+++.+.+.+. ......+.+++.|. .+.++++.+. .++.+++++|
T Consensus 76 ~~~V~~vvG~~~S~~~~a~~~v~~~~~i~~i~p~st~~~~~-~~~~~~~vfr~~~~~~~q~~~~~~~l~~~~~~k~v~ii 154 (366)
T COG0683 76 QDGVDAVVGPTTSGVALAASPVAEEAGVPLISPSATAPQLT-GRGLKPNVFRTGPTDNQQAAAAADYLVKKGGKKRVAII 154 (366)
T ss_pred hcCceEEEEeccCcccccchhhHhhcCceEEeecCCCCccc-ccccccceEEecCChHHHHHHHHHHHHHhcCCcEEEEE
Confidence 37999999999999999999999999999999987665321 22232347888775 3788888777 5777799999
Q ss_pred EeCCC-cc
Q psy2801 91 YDSHD-EM 97 (126)
Q Consensus 91 Y~dd~-gl 97 (126)
|+|+. |.
T Consensus 155 ~~~~~yg~ 162 (366)
T COG0683 155 GDDYAYGE 162 (366)
T ss_pred eCCCCcch
Confidence 99873 54
No 73
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=97.80 E-value=3.6e-05 Score=59.77 Aligned_cols=75 Identities=19% Similarity=0.306 Sum_probs=59.8
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHH-HHcCCcEEEEEE
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTV-KYYGWKNIIYMY 91 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli-~~f~W~~v~iiY 91 (126)
+++.+|+|+.++..+..+..++...+||+|++..... ....++.+++.|+ ...++++.+ ++++.+++++||
T Consensus 68 ~~v~~vvg~~~s~~~~~~~~~~~~~~ip~i~~~~~~~-----~~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~~~v~iv~ 142 (343)
T PF13458_consen 68 DGVDAVVGPLSSAQAEAVAPIAEEAGIPYISPSASSP-----SPDSPNVFRLSPSDSQQAAALAEYLAKKLGAKKVAIVY 142 (343)
T ss_dssp STESEEEESSSHHHHHHHHHHHHHHT-EEEESSGGGG-----TTTHTTEEESS--HHHHHHHHHHHHHHTTTTSEEEEEE
T ss_pred cCcEEEEecCCcHHHHHHHHHHHhcCcEEEEeeccCC-----CCCCCcEEEEeccccHHHHHHHHHHHHHcCCcEEEEEe
Confidence 7999999999999999999999999999998553322 2455788999987 388889865 459999999999
Q ss_pred eCCC
Q psy2801 92 DSHD 95 (126)
Q Consensus 92 ~dd~ 95 (126)
.++.
T Consensus 143 ~~~~ 146 (343)
T PF13458_consen 143 PDDP 146 (343)
T ss_dssp ESSH
T ss_pred cCch
Confidence 9863
No 74
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=97.59 E-value=0.00042 Score=54.55 Aligned_cols=78 Identities=8% Similarity=-0.032 Sum_probs=58.4
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMY 91 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY 91 (126)
.++|.+|+|+.++..+.++..+++..+||+|....... ....++.+++.|+ .++++++.+...+=+++++||
T Consensus 65 ~~~V~aiiG~~~s~~~~a~~~~~~~~~vp~i~~~~~~~-----~~~~~~~F~~~~~~~~~~~~~~~~~~~~~~~~vail~ 139 (334)
T cd06356 65 QDKVDVVWGGISSASREAIRPIMDRTKQLYFYTTQYEG-----GVCDRNTFCTGATPAQQFSTLVPYMMEKYGKKVYTIA 139 (334)
T ss_pred hCCCCEEEeCcchHHHHHHHHHHHhcCceEEeCCCccC-----CcccCCEEEeCCCcHHHHHHHHHHHHHccCCeEEEEC
Confidence 35899999999999999999999999999997543321 1123577888765 388888877654227899999
Q ss_pred eCCC-cc
Q psy2801 92 DSHD-EM 97 (126)
Q Consensus 92 ~dd~-gl 97 (126)
+|+. |.
T Consensus 140 ~d~~~g~ 146 (334)
T cd06356 140 ADYNFGQ 146 (334)
T ss_pred CCchhhH
Confidence 8764 43
No 75
>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=97.48 E-value=0.00055 Score=54.26 Aligned_cols=78 Identities=10% Similarity=-0.064 Sum_probs=58.4
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHH-HcCCcEEEEE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVK-YYGWKNIIYM 90 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~-~f~W~~v~ii 90 (126)
+++|.+|+|+.++..+.++..++...++|+|++..... . ...++.+++.+. ...++++.+. ..++|+++++
T Consensus 65 ~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~~----~-~~~~~~f~~~~~~~~~~~~~~~~~~~~~g~k~vaii 139 (348)
T cd06355 65 QDKVAAVFGCWTSASRKAVLPVFERHNGLLFYPVQYEG----L-EQSPNVFYTGAAPNQQIIPAVDWLMSNKGGKRFYLV 139 (348)
T ss_pred hCCCcEEEeccchhhHHHHHHHHhccCCceecCCCccC----C-CCCCCEEEeCCChHHhHHHHHHHHHhccCCCeEEEE
Confidence 35899999999999999999999999999997653211 1 233566777654 3666777666 4689999999
Q ss_pred EeCCC-cc
Q psy2801 91 YDSHD-EM 97 (126)
Q Consensus 91 Y~dd~-gl 97 (126)
|+|++ |.
T Consensus 140 ~~d~~~g~ 147 (348)
T cd06355 140 GSDYVYPR 147 (348)
T ss_pred CCcchHHH
Confidence 99874 53
No 76
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=97.28 E-value=0.00093 Score=53.23 Aligned_cols=78 Identities=10% Similarity=-0.041 Sum_probs=58.4
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHH-cCCcEEEEE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKY-YGWKNIIYM 90 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~-f~W~~v~ii 90 (126)
+.||.+|+|+..+..+.++..+....++|++.+.... .....++.+++.|. ...++++.+.. .|.++++++
T Consensus 66 ~~~V~~iiG~~~S~~~~a~~~~~~~~~~~~i~~~~~~-----~~~~~~~~F~~~~~~~~~~~~~~~~~~~~~g~k~v~~l 140 (359)
T TIGR03407 66 QDKVAAVFGCWTSASRKAVLPVFEENNGLLFYPVQYE-----GEECSPNIFYTGAAPNQQIIPAVDYLLSKKGAKRFFLL 140 (359)
T ss_pred hCCCcEEEcCCcHHHHHHHHHHHhccCCceEeCCccc-----CcccCCCEEEcCCChHHHHHHHHHHHHhccCCceEEEe
Confidence 3589999999999999999999999999999754221 11234566777776 36677776655 699999999
Q ss_pred EeCCC-cc
Q psy2801 91 YDSHD-EM 97 (126)
Q Consensus 91 Y~dd~-gl 97 (126)
|+|++ |.
T Consensus 141 ~~d~~~g~ 148 (359)
T TIGR03407 141 GSDYVFPR 148 (359)
T ss_pred cCccHHHH
Confidence 98763 54
No 77
>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=97.15 E-value=0.002 Score=50.34 Aligned_cols=78 Identities=12% Similarity=0.002 Sum_probs=56.6
Q ss_pred ccCC-CcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEE
Q psy2801 13 QFSR-GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNII 88 (126)
Q Consensus 13 ~~~~-gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~ 88 (126)
+..+ +|.+|+|+..+....++ .+....+||.|+.....+.. . . .++.+++.|+ ...++++.+...+-++++
T Consensus 62 li~~~~V~~iig~~~s~~~~~~-~~~~~~~ip~v~~~~~~~~~--~-~-~~~~~~~~~~~~~~~~~~~~~l~~~g~~~~~ 136 (341)
T cd06341 62 LVEDDKVVAVVGGSSGAGGSAL-PYLAGAGIPVIGGAGTSAWE--L-T-SPNSFPFSGGTPASLTTWGDFAKDQGGTRAV 136 (341)
T ss_pred HHHhcCceEEEecccccchhHH-HHHhhcCCceecCCCCCchh--h-c-CCCeEEecCCCcchhHHHHHHHHHcCCcEEE
Confidence 4445 89999999988777666 77889999999876543311 1 1 2344455544 488899999998999999
Q ss_pred EEEeCCC
Q psy2801 89 YMYDSHD 95 (126)
Q Consensus 89 iiY~dd~ 95 (126)
+++.+++
T Consensus 137 ~i~~~~~ 143 (341)
T cd06341 137 ALVTALS 143 (341)
T ss_pred EEEeCCc
Confidence 9987653
No 78
>KOG1053|consensus
Probab=97.08 E-value=0.0046 Score=55.56 Aligned_cols=92 Identities=17% Similarity=0.284 Sum_probs=67.6
Q ss_pred hhHHHHhhccC-CCcEEE-EcCCCc--chHHHHHHhhCcCCCCeeeecCCCC-CCCCCCCCCCceEEeeCCH---HHHHH
Q psy2801 5 VFFVSVCNQFS-RGVFSM-LGAVSP--DSFDTFHSYSNTFQMPFITPWFPEK-VLAPSSGFLDYAISMRPDY---HQAII 76 (126)
Q Consensus 5 ~f~~~~C~~~~-~gv~AI-iGp~~s--~~~~~v~si~~~~~IP~Is~~~~~~-~~~~~~~~~~f~~~~~P~~---~~Ai~ 76 (126)
|+-..+|+++. ++|.+| |++.+. ..+..+--++...+||.|+...... ...+++ ..+.++++-|++ ++++.
T Consensus 87 Sll~~vC~lvs~~~V~glvf~d~s~~~avaq~LDfiSs~t~iPIisi~gg~a~~~~~kd-~gs~flQlg~Sieqqa~Vml 165 (1258)
T KOG1053|consen 87 SLLTQVCDLVSGARVHGLVFEDDSDTEAVAQILDFISSQTHIPIISIHGGAAMVLTPKD-LGSTFLQLGPSIEQQAQVML 165 (1258)
T ss_pred HHHHHHHhhhhhcceeEEEeecCccchHHHHHHHHHHHhcCCcEEEEecCccceecCCC-CcceEEEeCCcHHHHHHHHH
Confidence 44578999986 567665 466666 4556667778889999998654332 222232 335679999984 99999
Q ss_pred HHHHHcCCcEEEEEEeCCCcc
Q psy2801 77 DTVKYYGWKNIIYMYDSHDEM 97 (126)
Q Consensus 77 dli~~f~W~~v~iiY~dd~gl 97 (126)
.|++.|+|..|.+|.....|.
T Consensus 166 ~iL~~ydW~~Fs~vtt~~pg~ 186 (1258)
T KOG1053|consen 166 KILEEYDWYNFSLVTTQFPGN 186 (1258)
T ss_pred HHHHHcCcceeEEEEeecCch
Confidence 999999999999998876665
No 79
>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=97.04 E-value=0.0027 Score=51.38 Aligned_cols=80 Identities=10% Similarity=0.094 Sum_probs=59.4
Q ss_pred hccC-CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHH-HcCCcE
Q psy2801 12 NQFS-RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVK-YYGWKN 86 (126)
Q Consensus 12 ~~~~-~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~-~f~W~~ 86 (126)
+++. +||.+|||+.+|..+.++..++...++|+|....... ....+|.+++.|+ ...++++.+. ..+ ++
T Consensus 62 ~li~~d~v~~viG~~~S~~~~A~~~~~~~~~~~~i~~~~~~~-----~~~~~~~Fr~~~~~~~~~~~~~~~~~~~~g-~~ 135 (374)
T TIGR03669 62 RLLNRDKVDALWAGYSSATREAIRPIIDRNEQLYFYTNQYEG-----GVCDEYTFAVGATARQQLGTVVPYMVEEYG-KK 135 (374)
T ss_pred HHHHhCCCCEEEcCCchHHHHHHHHHHHhcCceEEcCccccc-----ccCCCCEEEcCCChHHHHHHHHHHHHHcCC-Ce
Confidence 3443 5899999999999999999999999999996432111 1124688888887 3778888775 467 56
Q ss_pred EEEEEeCCC-cc
Q psy2801 87 IIYMYDSHD-EM 97 (126)
Q Consensus 87 v~iiY~dd~-gl 97 (126)
++++++|++ |.
T Consensus 136 va~l~~d~~~g~ 147 (374)
T TIGR03669 136 IYTIAADYNFGQ 147 (374)
T ss_pred EEEEcCCcHHHH
Confidence 999998764 54
No 80
>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=96.86 E-value=0.0025 Score=52.28 Aligned_cols=86 Identities=15% Similarity=0.225 Sum_probs=62.3
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHH------HHcCCcEEEE
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTV------KYYGWKNIIY 89 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli------~~f~W~~v~i 89 (126)
=+++||+---++..+.++....+||.||-+.-. .+-+.....-|+.|+ ++..++++- ++++|+. ++
T Consensus 83 cv~lGP~CtYat~~~~~~~~~~~~P~ISaGsfg----lscd~k~~LTR~~pparK~~~~~~~f~~~~~~~~~~~W~~-ay 157 (380)
T cd06369 83 CVLLGPSCTYATFQMVDDEFNLSLPIISAGSFG----LSCDYKENLTRLLPPARKISDFFVDFWKEKNFPKKPKWET-AY 157 (380)
T ss_pred cEEEcCccceehhhhhhhhhcCCCceEeccccc----cCCCchhhhhhcCchHHHHHHHHHHHHhcccccCCCCCce-eE
Confidence 479999999999999999999999999855421 122334467788887 499999999 4899985 55
Q ss_pred EEeCCC----ccccCCChHHHHHH
Q psy2801 90 MYDSHD----EMFYEGSPEFLRVF 109 (126)
Q Consensus 90 iY~dd~----gl~~~~~l~~l~~~ 109 (126)
||.+++ +......+..-..+
T Consensus 158 vyk~~~~~edCf~~i~al~a~~~~ 181 (380)
T cd06369 158 VYKKQENTEDCFWYINALEAGVAY 181 (380)
T ss_pred EEcCCCCccceeeEhHhhhhhhhh
Confidence 999872 44444444444333
No 81
>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=96.63 E-value=0.0075 Score=48.04 Aligned_cols=79 Identities=11% Similarity=0.050 Sum_probs=56.1
Q ss_pred hcc-CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEE
Q psy2801 12 NQF-SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNI 87 (126)
Q Consensus 12 ~~~-~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v 87 (126)
+++ .++|.+|+|+.++..+..+..+++..++|++.++.... . ...++.++..|. ...++++.+...+=+++
T Consensus 61 ~li~~~~V~aiiG~~~s~~~~a~~~~~~~~~~~~~~~~~~~~-~----~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~v 135 (360)
T cd06357 61 RLLREDGVRVIFGCYTSSSRKAVLPVVERHDALLWYPTLYEG-F----EYSPNVIYTGAAPNQNSVPLADYLLRHYGKRV 135 (360)
T ss_pred HHHhhCCCcEEEeCccHHHHHHHHHHHHhcCceEEeCCCccC-C----cccCCEEEeCCCcHHHHHHHHHHHHhcCCcEE
Confidence 344 36899999999999999999999999999997654321 1 111334444443 26678887665434899
Q ss_pred EEEEeCCC
Q psy2801 88 IYMYDSHD 95 (126)
Q Consensus 88 ~iiY~dd~ 95 (126)
++||+|++
T Consensus 136 ~~i~~d~~ 143 (360)
T cd06357 136 FLVGSNYI 143 (360)
T ss_pred EEECCCCc
Confidence 99999875
No 82
>KOG4440|consensus
Probab=95.54 E-value=0.02 Score=50.03 Aligned_cols=99 Identities=13% Similarity=0.277 Sum_probs=62.7
Q ss_pred HHhhcc-CCCcEEEEcCCCcc-----hHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCH---HHHHHHHH
Q psy2801 9 SVCNQF-SRGVFSMLGAVSPD-----SFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDY---HQAIIDTV 79 (126)
Q Consensus 9 ~~C~~~-~~gv~AIiGp~~s~-----~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~---~~Ai~dli 79 (126)
.+|+++ +..+.||+=....+ +-..++--++-+.||.+-...-+..+.... -..-+++..|++ +..-..++
T Consensus 86 ~VC~~li~~~vyav~vSh~~Ts~d~f~p~~vSYT~gFY~iPV~G~~~Rda~fSdKn-Ih~sFlRtvpPyshqa~VwleMl 164 (993)
T KOG4440|consen 86 SVCEDLISSQVYAVLVSHPPTSNDHFTPTPVSYTAGFYRIPVLGLTTRDAIFSDKN-IHLSFLRTVPPYSHQASVWLEML 164 (993)
T ss_pred HHHHHHHhhheeEEEecCCCCCCcccccccceeeccceeeeeeeeeehhhhhccCc-eeeeEeecCCCccchhHHHHHHH
Confidence 588655 66788886322211 122344446668999994433222221122 222345555653 88889999
Q ss_pred HHcCCcEEEEEEeCC-CccccCCChHHHHH
Q psy2801 80 KYYGWKNIIYMYDSH-DEMFYEGSPEFLRV 108 (126)
Q Consensus 80 ~~f~W~~v~iiY~dd-~gl~~~~~l~~l~~ 108 (126)
.+|.|++|.++.+|| +|....+.+|++.+
T Consensus 165 ~~~~y~~vi~l~s~d~~gra~~~r~qt~~e 194 (993)
T KOG4440|consen 165 RVYSYNHVILLVSDDHEGRAAQKRLQTLLE 194 (993)
T ss_pred HHhhcceEEEEEcccccchhHHhHHHHHHH
Confidence 999999999999887 68887777777766
No 83
>KOG1055|consensus
Probab=93.46 E-value=0.031 Score=49.63 Aligned_cols=75 Identities=12% Similarity=0.255 Sum_probs=52.5
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCH---HHHHHHHHHHcCCcEEEEEEeCCC
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDY---HQAIIDTVKYYGWKNIIYMYDSHD 95 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~---~~Ai~dli~~f~W~~v~iiY~dd~ 95 (126)
+.++|+ -+.....++.-+.--+.=+++|..++|.+. ...+.+.+|+.+|+. ...+..+.++|+|++|+.++...+
T Consensus 115 ~mll~G-Cs~v~~~iaea~~~w~l~~lsy~~ssp~ls-~r~rfp~~frt~PS~~~~np~rl~l~~~~~w~rvgt~~q~e~ 192 (865)
T KOG1055|consen 115 LMLLGG-CSSVTTLIAEAAKMWNLIVLSYGASSPALS-NRKRFPTFFRTHPSANAHNPTRIKLLKKFGWKRVATLQQTEE 192 (865)
T ss_pred heeccC-CCCcchHHHhhccccceeeecccCCCcccc-chhhcchhhhcCCccccCCcceeeechhcCcceeeeeeeehh
Confidence 456777 444444444433333333558888888774 335677889999983 778899999999999999996554
No 84
>PF04348 LppC: LppC putative lipoprotein; InterPro: IPR007443 This entry includes several bacterial outer membrane antigens, whose molecular function is unknown.; PDB: 3CKM_A.
Probab=92.04 E-value=0.18 Score=43.18 Aligned_cols=94 Identities=7% Similarity=0.080 Sum_probs=53.8
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCc--CCCCeeeecCCCCCCCCCCCCCCceEEeeCC-HHHHHHHHHHHcCCcEEEEEE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNT--FQMPFITPWFPEKVLAPSSGFLDYAISMRPD-YHQAIIDTVKYYGWKNIIYMY 91 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~--~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~-~~~Ai~dli~~f~W~~v~iiY 91 (126)
.+|.-.||||-.......++..-.. ..||.+....++... ....-|.|.+.|+ -++.+++.+..-|+++..+++
T Consensus 276 ~~ga~~ViGPL~k~~V~~l~~~~~~~~~~vp~LaLN~~~~~~---~~~~l~~f~LspEdEA~q~A~~a~~~g~~~alvl~ 352 (536)
T PF04348_consen 276 ADGADFVIGPLLKSNVEALAQLPQLQAQPVPVLALNQPDNSQ---APPNLYQFGLSPEDEARQAAQKAFQDGYRRALVLA 352 (536)
T ss_dssp HTT--EEE---SHHHHHHHHH-GG-GGTT-EEEES---TT-------TTEEE----HHHHHHHHHHHHHHTT--S-EEEE
T ss_pred HcCCCEEEcCCCHHHHHHHHhcCcccccCCceeeccCCCccc---CccceEEEeCCcHHHHHHHHHHHHhcCCCCEEEEc
Confidence 5689999999999988888885442 499999876654311 1223477899997 499999999999999999999
Q ss_pred eCCC-ccccCCChHHHHHHHH
Q psy2801 92 DSHD-EMFYEGSPEFLRVFCH 111 (126)
Q Consensus 92 ~dd~-gl~~~~~l~~l~~~l~ 111 (126)
.+++ |..-.+.|..-+.-+.
T Consensus 353 p~~~~g~R~~~aF~~~W~~~g 373 (536)
T PF04348_consen 353 PQNAWGQRMAEAFNQQWQALG 373 (536)
T ss_dssp ESSHHHHHHHHHHHHHHHHHH
T ss_pred CCChHHHHHHHHHHHHHHHcC
Confidence 9875 6655455444444433
No 85
>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=91.48 E-value=1.1 Score=32.49 Aligned_cols=91 Identities=14% Similarity=-0.003 Sum_probs=54.5
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMY 91 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY 91 (126)
.+++-+||+.............+...++|.|......+ . ......+.++ .++.+++.+...+=++++++.
T Consensus 53 ~~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~~~~----~---~~~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~ 125 (264)
T cd01537 53 ARGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDRDIP----D---GDRVPSVGSDNEQAGYLAGEHLAEKGHRRIALLA 125 (264)
T ss_pred HcCCCEEEEecCCCcchhHHHHhhhcCCCEEEeccCCC----C---CcccceEecCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence 45676666544433333345667889999998765432 1 1222334443 378888888888889999998
Q ss_pred eCCCccccCCChHHHHHHHHh
Q psy2801 92 DSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 92 ~dd~gl~~~~~l~~l~~~l~~ 112 (126)
.+++........+.++..+.+
T Consensus 126 ~~~~~~~~~~~~~~~~~~~~~ 146 (264)
T cd01537 126 GPLGSSTARERVAGFKDALKE 146 (264)
T ss_pred CCCCCCcHHHHHHHHHHHHHH
Confidence 765533333334555555543
No 86
>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=90.07 E-value=2.7 Score=30.50 Aligned_cols=93 Identities=17% Similarity=0.016 Sum_probs=53.2
Q ss_pred hccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEE
Q psy2801 12 NQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNII 88 (126)
Q Consensus 12 ~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~ 88 (126)
...++++-+|+.......... ...+...+||.|......+ . .....+.++ ..+..++.+...|-++++
T Consensus 50 ~~~~~~~d~iii~~~~~~~~~-~~~~~~~~ipvv~~~~~~~------~--~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~ 120 (264)
T cd06267 50 LLLSRRVDGIILAPSRLDDEL-LEELAALGIPVVLVDRPLD------G--LGVDSVGIDNRAGAYLAVEHLIELGHRRIA 120 (264)
T ss_pred HHHHcCcCEEEEecCCcchHH-HHHHHHcCCCEEEeccccc------C--CCCCEEeeccHHHHHHHHHHHHHCCCceEE
Confidence 344567766664444333333 5557889999998765422 1 223334444 266666766677999999
Q ss_pred EEEeCCCccccCCChHHHHHHHHhh
Q psy2801 89 YMYDSHDEMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 89 iiY~dd~gl~~~~~l~~l~~~l~~~ 113 (126)
+++.+........-.+.+...+++.
T Consensus 121 ~i~~~~~~~~~~~r~~g~~~~~~~~ 145 (264)
T cd06267 121 FIGGPPDLSTARERLEGYREALEEA 145 (264)
T ss_pred EecCCCccchHHHHHHHHHHHHHHc
Confidence 9987654222222233444555443
No 87
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=88.45 E-value=2.9 Score=31.18 Aligned_cols=90 Identities=7% Similarity=-0.059 Sum_probs=49.2
Q ss_pred CCCcEE-EEcCCCcch-HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHc--CCcEE
Q psy2801 15 SRGVFS-MLGAVSPDS-FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYY--GWKNI 87 (126)
Q Consensus 15 ~~gv~A-IiGp~~s~~-~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f--~W~~v 87 (126)
.+++-| |++|..+.. ...+ ..+...+||.|....+.. .... + .+.++ .++..++.+... |.+++
T Consensus 55 ~~~vdgiIi~~~~~~~~~~~~-~~~~~~~iPvV~~~~~~~-----~~~~-~--~V~~d~~~~g~~~~~~l~~~~~g~~~i 125 (275)
T cd06320 55 NKGYKGLLFSPISDVNLVPAV-ERAKKKGIPVVNVNDKLI-----PNAT-A--FVGTDNKANGVRGAEWIIDKLAEGGKV 125 (275)
T ss_pred HhCCCEEEECCCChHHhHHHH-HHHHHCCCeEEEECCCCC-----Cccc-e--EEecCcHHHHHHHHHHHHHHhCCCceE
Confidence 456655 466655433 2333 445678999998765421 1111 1 23444 266666666655 89999
Q ss_pred EEEEeCCCccccCCChHHHHHHHHhh
Q psy2801 88 IYMYDSHDEMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 88 ~iiY~dd~gl~~~~~l~~l~~~l~~~ 113 (126)
++++...+......-.+.+...+.+.
T Consensus 126 ~~l~~~~~~~~~~~r~~g~~~~~~~~ 151 (275)
T cd06320 126 AIIEGKAGAFAAEQRTEGFTEAIKKA 151 (275)
T ss_pred EEEeCCCCCccHHHHHHHHHHHHhhC
Confidence 99986544222222234445555443
No 88
>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=80.38 E-value=13 Score=27.18 Aligned_cols=90 Identities=11% Similarity=0.116 Sum_probs=50.0
Q ss_pred CCCcEE-EEcCCCcch-HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC-H--HHHHHHHHHHc--CCcEE
Q psy2801 15 SRGVFS-MLGAVSPDS-FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD-Y--HQAIIDTVKYY--GWKNI 87 (126)
Q Consensus 15 ~~gv~A-IiGp~~s~~-~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~-~--~~Ai~dli~~f--~W~~v 87 (126)
.+++-| |+++..... ...++. +...+||.|....+.+ .. ...-.+..+ . +..+++.+... |=+++
T Consensus 53 ~~~~dgii~~~~~~~~~~~~l~~-l~~~~ipvv~~~~~~~------~~-~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i 124 (268)
T cd06323 53 TRGVDAIIINPTDSDAVVPAVKA-ANEAGIPVFTIDREAN------GG-EVVSQIASDNVAGGKMAAEYLVKLLGGKGKV 124 (268)
T ss_pred HcCCCEEEEcCCChHHHHHHHHH-HHHCCCcEEEEccCCC------CC-ceEEEEccCcHHHHHHHHHHHHHHhCCCceE
Confidence 345555 556544432 234444 4567999998765421 11 122234444 2 56666666666 77899
Q ss_pred EEEEeCCCccccCCChHHHHHHHHh
Q psy2801 88 IYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 88 ~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
++++.+.+......-.+.+++++.+
T Consensus 125 ~~l~~~~~~~~~~~r~~g~~~~l~~ 149 (268)
T cd06323 125 VELQGIPGASAARERGKGFHEVVDK 149 (268)
T ss_pred EEEeCCCCCccHHHHHHHHHHHHHh
Confidence 9998754433333334555666665
No 89
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=76.75 E-value=26 Score=25.41 Aligned_cols=91 Identities=11% Similarity=0.008 Sum_probs=51.1
Q ss_pred CCCcEEEEc-CCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHc--CCcEEE
Q psy2801 15 SRGVFSMLG-AVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYY--GWKNII 88 (126)
Q Consensus 15 ~~gv~AIiG-p~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f--~W~~v~ 88 (126)
.+++-+||+ +.+..........+...++|.|......+ . ......+.++ .++.+++.+... |=++++
T Consensus 53 ~~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~~~----~---~~~~~~v~~d~~~~~~~~~~~l~~~~~g~~~i~ 125 (267)
T cd01536 53 AQGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSDID----G---GNRLAYVGTDNYEAGRLAGEYLAKLLGGKGKVA 125 (267)
T ss_pred HcCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCCCC----c---cceeEEEecCHHHHHHHHHHHHHHHhCCCceEE
Confidence 446666654 43333322233445568999998765432 1 1122344555 266677777666 789999
Q ss_pred EEEeCCCccccCCChHHHHHHHHh
Q psy2801 89 YMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 89 iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
+++..++......-.+.+++.+.+
T Consensus 126 ~i~~~~~~~~~~~r~~gf~~~~~~ 149 (267)
T cd01536 126 IIEGPPGSSNAQERVKGFRDALKE 149 (267)
T ss_pred EEEcccccchHHHHHHHHHHHHHh
Confidence 998765422333344555555554
No 90
>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=76.71 E-value=16 Score=27.05 Aligned_cols=94 Identities=11% Similarity=0.018 Sum_probs=47.9
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCC---CCCC-CCceEEee-CCHHHHHHHHHHHc--CCcEE
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAP---SSGF-LDYAISMR-PDYHQAIIDTVKYY--GWKNI 87 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~---~~~~-~~f~~~~~-P~~~~Ai~dli~~f--~W~~v 87 (126)
++++-+||+..+. ...... ....++|.|....+.+.... .... ..+.+.+. +...+.+++++... |-+++
T Consensus 58 ~~~vd~iI~~~~~-~~~~~~--~~~~~iPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~~i 134 (281)
T cd06325 58 ADKPDLIVAIATP-AAQAAA--NATKDIPIVFTAVTDPVGAGLVKSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAKTV 134 (281)
T ss_pred hcCCCEEEEcCcH-HHHHHH--HcCCCCCEEEEecCCccccccccccccCCCceeCeecccchHHHHHHHHHHCCCCcEE
Confidence 4567777765433 222222 55679999977643220000 0000 11222222 22366677777765 99999
Q ss_pred EEEEeCCCccccCCChHHHHHHHHh
Q psy2801 88 IYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 88 ~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
++++++.+. ....-.+.+++.+.+
T Consensus 135 ~~l~~~~~~-~~~~r~~g~~~~~~~ 158 (281)
T cd06325 135 GVLYNPSEA-NSVVQVKELKKAAAK 158 (281)
T ss_pred EEEeCCCCc-cHHHHHHHHHHHHHh
Confidence 999875442 122223444455543
No 91
>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]
Probab=73.14 E-value=3.4 Score=30.28 Aligned_cols=29 Identities=10% Similarity=0.253 Sum_probs=23.5
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
+.|+||..+--+-.-+.+++.+++|||+.
T Consensus 3 iiilG~pGaGK~T~A~~La~~~~i~hlst 31 (178)
T COG0563 3 ILILGPPGAGKSTLAKKLAKKLGLPHLDT 31 (178)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEcH
Confidence 57899888866666688888899999984
No 92
>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=71.54 E-value=39 Score=25.03 Aligned_cols=93 Identities=13% Similarity=0.055 Sum_probs=50.1
Q ss_pred CCCcEEE-EcCCCcch-HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCH---HHHHHHHHHHc--CCcEE
Q psy2801 15 SRGVFSM-LGAVSPDS-FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDY---HQAIIDTVKYY--GWKNI 87 (126)
Q Consensus 15 ~~gv~AI-iGp~~s~~-~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~---~~Ai~dli~~f--~W~~v 87 (126)
.+++-+| +.|..... ...++. +...+||.|....... ......+...+.++. ++..++.+... |=+++
T Consensus 53 ~~~vdgiIi~~~~~~~~~~~i~~-~~~~~iPvV~~~~~~~----~~~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i 127 (273)
T cd06309 53 AQGVDVIILAPVVETGWDPVLKE-AKAAGIPVILVDRGVD----VKDDSLYVTFIGSDFVEEGRRAADWLAKATGGKGNI 127 (273)
T ss_pred HcCCCEEEEcCCccccchHHHHH-HHHCCCCEEEEecCcC----CccCcceeeEecCChHHHHHHHHHHHHHHcCCCceE
Confidence 3444433 45554432 344444 5678999998765421 101123445566662 56666666665 78899
Q ss_pred EEEEeCCCccccCCChHHHHHHHHh
Q psy2801 88 IYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 88 ~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
++++.+.+......-.+-++++|.+
T Consensus 128 ~~i~~~~~~~~~~~R~~Gf~~~l~~ 152 (273)
T cd06309 128 VELQGTVGSSVAIDRKKGFAEVIKK 152 (273)
T ss_pred EEEeCCCCCchHHHHHHHHHHHHHH
Confidence 9997643322222234455666654
No 93
>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=70.41 E-value=36 Score=24.94 Aligned_cols=71 Identities=10% Similarity=0.077 Sum_probs=40.7
Q ss_pred CCCcEEEEcCC-CcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEE
Q psy2801 15 SRGVFSMLGAV-SPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYM 90 (126)
Q Consensus 15 ~~gv~AIiGp~-~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~ii 90 (126)
..++-|||... .......+ ..+...+||++......+ . .... .+..+ .++..++.+...|.++++++
T Consensus 54 ~~~vdgiii~~~~~~~~~~~-~~~~~~~ipvv~i~~~~~----~-~~~~---~V~~d~~~~g~~a~~~l~~~g~~~i~~i 124 (270)
T cd01545 54 RSRVDGVILTPPLSDNPELL-DLLDEAGVPYVRIAPGTP----D-PDSP---CVRIDDRAAAREMTRHLIDLGHRRIAFI 124 (270)
T ss_pred HCCCCEEEEeCCCCCccHHH-HHHHhcCCCEEEEecCCC----C-CCCC---eEEeccHHHHHHHHHHHHHCCCceEEEE
Confidence 44666665432 22222333 345678999998765422 1 1111 23344 26667777777899999999
Q ss_pred EeCC
Q psy2801 91 YDSH 94 (126)
Q Consensus 91 Y~dd 94 (126)
..+.
T Consensus 125 ~~~~ 128 (270)
T cd01545 125 AGPP 128 (270)
T ss_pred eCCC
Confidence 7543
No 94
>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=67.26 E-value=40 Score=24.57 Aligned_cols=69 Identities=7% Similarity=0.127 Sum_probs=41.8
Q ss_pred CCCcEEEE-cCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEE
Q psy2801 15 SRGVFSML-GAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYM 90 (126)
Q Consensus 15 ~~gv~AIi-Gp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~ii 90 (126)
.+++-+|| .+.+..... ....+...+||.|....... ...+ .+ ..+ .++..++.+...|.++++++
T Consensus 53 ~~~vdgiii~~~~~~~~~-~~~~~~~~~ipvV~~~~~~~------~~~~-~v--~~d~~~~g~~~~~~l~~~g~~~i~~i 122 (266)
T cd06282 53 RQRVDGLILTVADAATSP-ALDLLDAERVPYVLAYNDPQ------PGRP-SV--SVDNRAAARDVAQALAALGHRRIAML 122 (266)
T ss_pred hcCCCEEEEecCCCCchH-HHHHHhhCCCCEEEEeccCC------CCCC-EE--eeCcHHHHHHHHHHHHHcCcccEEEe
Confidence 45565555 444433333 34557788999997654321 1112 22 344 27777888888899999999
Q ss_pred EeC
Q psy2801 91 YDS 93 (126)
Q Consensus 91 Y~d 93 (126)
+.+
T Consensus 123 ~~~ 125 (266)
T cd06282 123 AGR 125 (266)
T ss_pred ccc
Confidence 754
No 95
>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=65.87 E-value=51 Score=24.25 Aligned_cols=92 Identities=9% Similarity=0.030 Sum_probs=46.4
Q ss_pred CCCcEEE-EcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCH---HHHHHHHHHHc------CC
Q psy2801 15 SRGVFSM-LGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDY---HQAIIDTVKYY------GW 84 (126)
Q Consensus 15 ~~gv~AI-iGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~---~~Ai~dli~~f------~W 84 (126)
..++-+| ++|..+......-..+...++|.|....... ...+.-.+.++. .+.+++.+... |=
T Consensus 53 ~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~-------~~~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~ 125 (277)
T cd06319 53 DKGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIADIGAE-------GGDYVSYIKSDNYEGAYDLGKFLAAAMKAQGWAD 125 (277)
T ss_pred hcCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEEecCCC-------CCceEEEEeeccHHHHHHHHHHHHHHHHhhCCCC
Confidence 4455444 5665544333333556678999998654311 112333454552 44444433332 55
Q ss_pred cEEEEEEeCCCccccCCChHHHHHHHHhh
Q psy2801 85 KNIIYMYDSHDEMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 85 ~~v~iiY~dd~gl~~~~~l~~l~~~l~~~ 113 (126)
+++++++...+......-++.+++.+.+.
T Consensus 126 ~~i~~i~~~~~~~~~~~r~~gf~~~l~~~ 154 (277)
T cd06319 126 GKVGMVAIPQKRKNGQKRTKGFKEAMKEA 154 (277)
T ss_pred CcEEEEeccCCCccHHHHHHHHHHHHHhc
Confidence 89999985433222222344455555543
No 96
>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=65.59 E-value=4.7 Score=26.50 Aligned_cols=32 Identities=13% Similarity=0.096 Sum_probs=26.8
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeeecC
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPWF 49 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~ 49 (126)
+++|.|++.+--+-..+.+++.+++|+|+...
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 57899999998888889999999999986543
No 97
>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=63.95 E-value=7.9 Score=26.07 Aligned_cols=31 Identities=6% Similarity=0.244 Sum_probs=26.5
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
+++|.|+..+.-+.....++..+++|+++..
T Consensus 1 ~I~i~G~~GsGKst~a~~la~~~~~~~~~~~ 31 (147)
T cd02020 1 IIAIDGPAGSGKSTVAKLLAKKLGLPYLDTG 31 (147)
T ss_pred CEEEECCCCCCHHHHHHHHHHHhCCceeccc
Confidence 5789999999888888889999999999754
No 98
>PRK14530 adenylate kinase; Provisional
Probab=62.34 E-value=10 Score=28.04 Aligned_cols=32 Identities=16% Similarity=0.200 Sum_probs=26.5
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
...+.|+||..+--+-..+.++..+++|||+.
T Consensus 3 ~~~I~i~G~pGsGKsT~~~~La~~~~~~~i~~ 34 (215)
T PRK14530 3 QPRILLLGAPGAGKGTQSSNLAEEFGVEHVTT 34 (215)
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHhCCeEEec
Confidence 34678999988877777788899999999965
No 99
>PRK08118 topology modulation protein; Reviewed
Probab=60.69 E-value=9.4 Score=27.36 Aligned_cols=31 Identities=6% Similarity=0.080 Sum_probs=26.1
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
-+.|+||..+.-+-....+++.+++|+++..
T Consensus 3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD 33 (167)
T PRK08118 3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLD 33 (167)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCceecc
Confidence 3679999988777788999999999999754
No 100
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=55.55 E-value=28 Score=28.71 Aligned_cols=104 Identities=12% Similarity=0.099 Sum_probs=55.3
Q ss_pred hhHHHHhhcc-CCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC--HHHHHHHHHHH
Q psy2801 5 VFFVSVCNQF-SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD--YHQAIIDTVKY 81 (126)
Q Consensus 5 ~f~~~~C~~~-~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~--~~~Ai~dli~~ 81 (126)
.|..++-+++ +.||.+|||-.+|.+-..+..+....+-....+..-.. + .....-+..--.|. ...++-=++.+
T Consensus 55 ~ya~~A~~Li~~d~V~~ifGc~TSasRKaVlPvvE~~~~LL~Yp~~YEG-~--E~S~nviYtGa~PNQ~~~pl~~~~~~~ 131 (363)
T PF13433_consen 55 TYAEKAEKLIREDGVRAIFGCYTSASRKAVLPVVERHNALLFYPTQYEG-F--ECSPNVIYTGAAPNQQLLPLIDYLLEN 131 (363)
T ss_dssp HHHHHHHHHHHHS---EEEE--SHHHHHHHHHHHHHCT-EEEE-S-----------TTEEE-S--GGGTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCccEEEecchhhhHHHHHHHHHhcCceEEecccccc-c--cCCCceEEcCCCchhhHHHHHHHHHhc
Confidence 3444444453 57999999999999999999999999988885332111 1 11111233333476 36666667778
Q ss_pred cCCcEEEEEEeCCCccccCCChHHHHHHHHhh
Q psy2801 82 YGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 82 f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~~ 113 (126)
||=+++.+|.+|- ....+.=.-++.++.+.
T Consensus 132 ~G~~r~~lvGSdY--v~pre~Nri~r~~l~~~ 161 (363)
T PF13433_consen 132 FGAKRFYLVGSDY--VYPRESNRIIRDLLEAR 161 (363)
T ss_dssp S--SEEEEEEESS--HHHHHHHHHHHHHHHHT
T ss_pred cCCceEEEecCCc--cchHHHHHHHHHHHHHc
Confidence 9999999998853 33333333445554443
No 101
>PF11492 Dicistro_VP4: Cricket paralysis virus, VP4; InterPro: IPR024343 This domain represents VP4, a minor capsid protein from dicistroviridae which is processed from the capsid polyprotein. The dicistroviridae is a group of small, RNA-containing viruses that are closely structurally related to the picornaviridae. VP4 is a short, extended polypeptide chain found within the viral capsid, at the interface between the external protein shell and packaged RNA genome [].; PDB: 1B35_D.
Probab=54.51 E-value=11 Score=22.84 Aligned_cols=40 Identities=23% Similarity=0.377 Sum_probs=13.8
Q ss_pred chHHHHHHhhCc-CCCCeeeecCCCCCCCCCCCCCCceEEeeCC-HHHHHHHHHHHcCC
Q psy2801 28 DSFDTFHSYSNT-FQMPFITPWFPEKVLAPSSGFLDYAISMRPD-YHQAIIDTVKYYGW 84 (126)
Q Consensus 28 ~~~~~v~si~~~-~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~-~~~Ai~dli~~f~W 84 (126)
+.+..|+++++. -+||+|.+.+.. +. .+.++.++.+.|||
T Consensus 15 ~~a~~Vs~va~~ls~iPvig~~ak~-----------------~~wvs~~v~~vAkiFG~ 56 (56)
T PF11492_consen 15 KPASTVSRVANALSSIPVIGPIAKP-----------------TSWVSDAVSDVAKIFGF 56 (56)
T ss_dssp -S----GGG---TT----S--SSSS------------------TT----HHHHHHHTT-
T ss_pred hHHHHHHHHHHhhccCcccchhhch-----------------HHHHHHHHHHHHHHhCC
Confidence 344555555555 479999755431 23 37899999999998
No 102
>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=53.10 E-value=86 Score=22.76 Aligned_cols=91 Identities=12% Similarity=0.009 Sum_probs=45.5
Q ss_pred ccCCCcEEEEc-CCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC-HHHHHHHHHHHcCCcEEEEE
Q psy2801 13 QFSRGVFSMLG-AVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD-YHQAIIDTVKYYGWKNIIYM 90 (126)
Q Consensus 13 ~~~~gv~AIiG-p~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~-~~~Ai~dli~~f~W~~v~ii 90 (126)
...+++-|||. +...... ... ... .+||.|....... ...-..+..-.. .++..++.+..-|.++++++
T Consensus 51 ~~~~~vdgiii~~~~~~~~-~~~-~~~-~~ipvv~~~~~~~------~~~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~l 121 (267)
T cd06284 51 LRRKQADGIILLDGSLPPT-ALT-ALA-KLPPIVQACEYIP------GLAVPSVSIDNVAAARLAVDHLISLGHRRIALI 121 (267)
T ss_pred HHHcCCCEEEEecCCCCHH-HHH-HHh-cCCCEEEEecccC------CCCcceEEecccHHHHHHHHHHHHcCCceEEEE
Confidence 33456666554 2222222 333 333 4999997643211 111111222222 37777777777899999999
Q ss_pred EeCCCccccCCChHHHHHHHHh
Q psy2801 91 YDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 91 Y~dd~gl~~~~~l~~l~~~l~~ 112 (126)
+.+........-.+-++..+.+
T Consensus 122 ~~~~~~~~~~~r~~gf~~~~~~ 143 (267)
T cd06284 122 TGPRDNPLARDRLEGYRQALAE 143 (267)
T ss_pred cCCccchhHHHHHHHHHHHHHH
Confidence 7653322222223444445544
No 103
>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=53.04 E-value=17 Score=25.68 Aligned_cols=31 Identities=13% Similarity=0.150 Sum_probs=24.1
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
++.|+||..+--+-.-+.++..+++++|+.+
T Consensus 1 ~i~i~G~pGsGKst~a~~la~~~~~~~is~~ 31 (183)
T TIGR01359 1 VVFVLGGPGSGKGTQCAKIVENFGFTHLSAG 31 (183)
T ss_pred CEEEECCCCCCHHHHHHHHHHHcCCeEEECC
Confidence 4678897777666666778899999999853
No 104
>PF02863 Arg_repressor_C: Arginine repressor, C-terminal domain; InterPro: IPR020899 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 1B4B_B 1B4A_A 3V4G_A 1F9N_F 2P5M_A 1XXA_E 1XXC_C 1XXB_F 3LAJ_D 3BUE_D ....
Probab=52.93 E-value=33 Score=21.17 Aligned_cols=48 Identities=21% Similarity=0.169 Sum_probs=32.7
Q ss_pred EEeeCCHHHHHHHHHHHcCCcEEEEEEeCCCc-c---ccCCChHHHHHHHHh
Q psy2801 65 ISMRPDYHQAIIDTVKYYGWKNIIYMYDSHDE-M---FYEGSPEFLRVFCHE 112 (126)
Q Consensus 65 ~~~~P~~~~Ai~dli~~f~W~~v~iiY~dd~g-l---~~~~~l~~l~~~l~~ 112 (126)
+++.|..+++++.++...+|..+.=.-.+||. + ......+.+++++++
T Consensus 18 ikt~pG~A~~va~~iD~~~~~~I~GtIAgdDTilvi~~~~~~a~~l~~~l~~ 69 (70)
T PF02863_consen 18 IKTLPGNAQAVAAAIDQLNLPEIFGTIAGDDTILVICRSEEDAEELEEKLKE 69 (70)
T ss_dssp EEESTTCHHHHHHHHHHHCGTTEEEEEEESSEEEEEESTTSHHHHHHHHHHT
T ss_pred EEeCCCcHHHHHHHHHhcCCcccEEEEeCCCEEEEEeCCHHHHHHHHHHHHh
Confidence 67779899999999999999876544444443 2 223556666666653
No 105
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=49.87 E-value=35 Score=27.81 Aligned_cols=57 Identities=14% Similarity=0.177 Sum_probs=41.2
Q ss_pred HHhhccCCCc-EEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC
Q psy2801 9 SVCNQFSRGV-FSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD 70 (126)
Q Consensus 9 ~~C~~~~~gv-~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~ 70 (126)
++.++.++|+ +.||++.++.....+-..+..-+||+|+|.+.-. . ....|.+++-..
T Consensus 73 qien~i~qg~~vlvi~a~d~~~l~~~i~~A~~~gikViaYDRlI~----n-~dvd~YvsFDN~ 130 (341)
T COG4213 73 QIENMINQGVKVLVIGAIDGGVLSNAVEKAKSEGIKVIAYDRLIN----N-ADVDFYVSFDNE 130 (341)
T ss_pred HHHHHHhcCCCEEEEEeccchhHHHHHHHHHHcCCeEEEeecccc----c-CCccEEEEecch
Confidence 4556667886 6678999998777777778999999999877532 2 344577776654
No 106
>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=49.66 E-value=1e+02 Score=22.64 Aligned_cols=71 Identities=13% Similarity=0.114 Sum_probs=41.5
Q ss_pred cCCCcEEEEc-CCCcch-HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHc--CCcE
Q psy2801 14 FSRGVFSMLG-AVSPDS-FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYY--GWKN 86 (126)
Q Consensus 14 ~~~gv~AIiG-p~~s~~-~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f--~W~~ 86 (126)
..+++-+||. +.+... ...+.. +...+||+|......+ . .....+.++ .++.+++.+... |=++
T Consensus 57 ~~~~vdgiIi~~~~~~~~~~~l~~-~~~~~iPvv~~~~~~~------~--~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~ 127 (272)
T cd06300 57 IAQGVDAIIINPASPTALNPVIEE-ACEAGIPVVSFDGTVT------T--PCAYNVNEDQAEFGKQGAEWLVKELGGKGN 127 (272)
T ss_pred HHcCCCEEEEeCCChhhhHHHHHH-HHHCCCeEEEEecCCC------C--CceeEecCCHHHHHHHHHHHHHHHcCCCce
Confidence 3456666654 433332 334444 5568999998765421 1 223445665 266666666554 7789
Q ss_pred EEEEEeC
Q psy2801 87 IIYMYDS 93 (126)
Q Consensus 87 v~iiY~d 93 (126)
++++..+
T Consensus 128 i~~i~~~ 134 (272)
T cd06300 128 VLVVRGL 134 (272)
T ss_pred EEEEECC
Confidence 9999743
No 107
>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=49.46 E-value=20 Score=26.37 Aligned_cols=30 Identities=13% Similarity=0.270 Sum_probs=23.2
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
+.|+||..+.-+-.-+.++..+++|||+..
T Consensus 2 I~i~G~pGsGKsT~a~~La~~~g~~~is~g 31 (210)
T TIGR01351 2 LVLLGPPGSGKGTQAKRIAEKYGLPHISTG 31 (210)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCeeehh
Confidence 568888777666666778889999999853
No 108
>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=49.42 E-value=1e+02 Score=22.52 Aligned_cols=72 Identities=10% Similarity=-0.014 Sum_probs=40.5
Q ss_pred ccCCCcEEEE-cCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEE
Q psy2801 13 QFSRGVFSML-GAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNII 88 (126)
Q Consensus 13 ~~~~gv~AIi-Gp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~ 88 (126)
+.++++-+|| .+.... ...+.. +...+||.|....... .... + -.+.++ .++..++.+...|+++++
T Consensus 51 l~~~~~dgiii~~~~~~-~~~~~~-~~~~~ipvV~i~~~~~----~~~~--~-~~v~~d~~~~~~~a~~~l~~~g~~~i~ 121 (270)
T cd06296 51 LSARRTDGVILVTPELT-SAQRAA-LRRTGIPFVVVDPAGD----PDAD--V-PSVGATNWAGGLAATEHLLELGHRRIG 121 (270)
T ss_pred HHHcCCCEEEEecCCCC-hHHHHH-HhcCCCCEEEEecccC----CCCC--C-CEEEeCcHHHHHHHHHHHHHcCCCcEE
Confidence 3345555443 333322 233444 5668999998765421 1111 1 134455 266666666667999999
Q ss_pred EEEeC
Q psy2801 89 YMYDS 93 (126)
Q Consensus 89 iiY~d 93 (126)
++..+
T Consensus 122 ~i~~~ 126 (270)
T cd06296 122 FITGP 126 (270)
T ss_pred EEcCC
Confidence 99654
No 109
>PTZ00088 adenylate kinase 1; Provisional
Probab=49.40 E-value=19 Score=27.35 Aligned_cols=31 Identities=13% Similarity=-0.033 Sum_probs=25.1
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeecC
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPWF 49 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~ 49 (126)
+.|+||..+.-+-.-+.++..+++|||+...
T Consensus 9 Ivl~G~PGsGK~T~a~~La~~~g~~~is~gd 39 (229)
T PTZ00088 9 IVLFGAPGVGKGTFAEILSKKENLKHINMGN 39 (229)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEECCh
Confidence 6789998886666667888999999998653
No 110
>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=49.34 E-value=51 Score=23.97 Aligned_cols=33 Identities=9% Similarity=0.312 Sum_probs=27.2
Q ss_pred CCcEEEEcCCCc--chHHHHHHhhCcCCCCeeeec
Q psy2801 16 RGVFSMLGAVSP--DSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 16 ~gv~AIiGp~~s--~~~~~v~si~~~~~IP~Is~~ 48 (126)
+..+.|+|+.-. .....+..+++.+++|.++..
T Consensus 28 KRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~ 62 (162)
T TIGR00315 28 KRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATA 62 (162)
T ss_pred CCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcC
Confidence 467888887664 778999999999999999754
No 111
>PRK07261 topology modulation protein; Provisional
Probab=48.65 E-value=23 Score=25.36 Aligned_cols=29 Identities=10% Similarity=0.249 Sum_probs=24.0
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
++|+|++.+.-+-..+.++..+++|++..
T Consensus 3 i~i~G~~GsGKSTla~~l~~~~~~~~i~~ 31 (171)
T PRK07261 3 IAIIGYSGSGKSTLARKLSQHYNCPVLHL 31 (171)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCeEec
Confidence 67999998877777788899999999963
No 112
>COG3172 NadR Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]
Probab=48.40 E-value=14 Score=27.50 Aligned_cols=30 Identities=17% Similarity=0.200 Sum_probs=26.5
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCee
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFI 45 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~I 45 (126)
..+++|+||.|+.-+-.++.+++.|+-|..
T Consensus 8 ~K~VailG~ESsGKStLv~kLA~~fnt~~~ 37 (187)
T COG3172 8 VKTVAILGGESSGKSTLVNKLANIFNTTSA 37 (187)
T ss_pred heeeeeecCcccChHHHHHHHHHHhCCCch
Confidence 368999999999999999999999998776
No 113
>cd06409 PB1_MUG70 The MUG70 protein is a product of the meiotically up-regulated gene 70 which has a role in meiosis and harbors a PB1 domain. The PB1 domain is a modular domain mediating specific protein-protein interactions which play a role in many critical cell processes such as osteoclastogenesis, angiogenesis, early cardiovascular development, and cell polarity. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domains depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic amino acid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is
Probab=46.84 E-value=44 Score=21.87 Aligned_cols=37 Identities=11% Similarity=0.042 Sum_probs=28.0
Q ss_pred CceEEeeCC--HHHHHHHHHHHcCCc-----EEEEEEeCCCccc
Q psy2801 62 DYAISMRPD--YHQAIIDTVKYYGWK-----NIIYMYDSHDEMF 98 (126)
Q Consensus 62 ~f~~~~~P~--~~~Ai~dli~~f~W~-----~v~iiY~dd~gl~ 98 (126)
-..+++.|+ +.+-+..+.+.||=. .+.+.|.||||-.
T Consensus 12 vhRf~~~~s~~~~~L~~~I~~Rl~~d~~~~~~~~L~YlDDEgD~ 55 (86)
T cd06409 12 VHRFRLRPSESLEELRTLISQRLGDDDFETHLYALSYVDDEGDI 55 (86)
T ss_pred EEEEEecCCCCHHHHHHHHHHHhCCccccCCcccEEEEcCCCCE
Confidence 355777776 677777778888765 7899999999743
No 114
>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=46.30 E-value=1.1e+02 Score=22.24 Aligned_cols=73 Identities=11% Similarity=0.126 Sum_probs=37.5
Q ss_pred CCCcEEE-EcCCCcch-HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceE-EeeCC---HHHHHHHHH-HHc-CCcE
Q psy2801 15 SRGVFSM-LGAVSPDS-FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAI-SMRPD---YHQAIIDTV-KYY-GWKN 86 (126)
Q Consensus 15 ~~gv~AI-iGp~~s~~-~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~-~~~P~---~~~Ai~dli-~~f-~W~~ 86 (126)
.+++-+| +.+..... ...+.. +...+||.|....+.+ . ...++.. .+.++ .++..++.+ +++ |=++
T Consensus 54 ~~~vdgiii~~~~~~~~~~~l~~-~~~~~iPvV~~~~~~~----~-~~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~ 127 (275)
T cd06317 54 AQKVDGIILWPTDGQAYIPGLRK-AKQAGIPVVITNSNIS----E-KGFEFIKSFTGPDDISQGERSAEAMCKALGGKGQ 127 (275)
T ss_pred HcCCCEEEEecCCccccHHHHHH-HHHCCCcEEEeCCCCC----C-CccchhhhhccccHHHHHHHHHHHHHHHcCCCce
Confidence 4455554 44544432 344444 5678999998665421 1 1112221 12344 244444444 333 6679
Q ss_pred EEEEEeC
Q psy2801 87 IIYMYDS 93 (126)
Q Consensus 87 v~iiY~d 93 (126)
+++++..
T Consensus 128 i~~l~~~ 134 (275)
T cd06317 128 IVVIAGQ 134 (275)
T ss_pred EEEEecC
Confidence 9999754
No 115
>PRK04182 cytidylate kinase; Provisional
Probab=45.68 E-value=25 Score=24.46 Aligned_cols=29 Identities=3% Similarity=0.185 Sum_probs=25.7
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeee
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFIT 46 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is 46 (126)
+++|.|+..+.-+.....++..+++|++.
T Consensus 2 ~I~i~G~~GsGKstia~~la~~lg~~~id 30 (180)
T PRK04182 2 IITISGPPGSGKTTVARLLAEKLGLKHVS 30 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCcEec
Confidence 57889999998888889999999999997
No 116
>PRK06217 hypothetical protein; Validated
Probab=45.59 E-value=27 Score=25.03 Aligned_cols=29 Identities=10% Similarity=0.250 Sum_probs=23.9
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
+.|+|++.+--+-..+.++..+++|+++.
T Consensus 4 I~i~G~~GsGKSTla~~L~~~l~~~~~~~ 32 (183)
T PRK06217 4 IHITGASGSGTTTLGAALAERLDIPHLDT 32 (183)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCcEEEc
Confidence 67899888877777788888999999964
No 117
>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=45.28 E-value=26 Score=24.26 Aligned_cols=30 Identities=7% Similarity=0.232 Sum_probs=25.6
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
+++|.|+..+--+.+...+++.+++|+++.
T Consensus 2 iI~i~G~~GSGKstia~~la~~lg~~~~~~ 31 (171)
T TIGR02173 2 IITISGPPGSGKTTVAKILAEKLSLKLISA 31 (171)
T ss_pred EEEEECCCCCCHHHHHHHHHHHcCCceecH
Confidence 578889999988888888888999999974
No 118
>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=44.27 E-value=26 Score=24.61 Aligned_cols=31 Identities=3% Similarity=0.160 Sum_probs=25.9
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
.+++|+||..+.-+-....++..++.++++.
T Consensus 4 ~ii~i~G~~GsGKsTl~~~l~~~~g~~~~~~ 34 (188)
T TIGR01360 4 KIIFIVGGPGSGKGTQCEKIVEKYGFTHLST 34 (188)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCcEEeH
Confidence 4788999988877777788888899999975
No 119
>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=44.17 E-value=1.3e+02 Score=22.12 Aligned_cols=82 Identities=10% Similarity=-0.005 Sum_probs=45.7
Q ss_pred EEcCCCcc-hHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHc--CCcEEEEEEeCC
Q psy2801 21 MLGAVSPD-SFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYY--GWKNIIYMYDSH 94 (126)
Q Consensus 21 IiGp~~s~-~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f--~W~~v~iiY~dd 94 (126)
|+.|.+.. ....+..+ ...++|.|......+ .. . -.+.++ ..+.+++.+... |.++++++....
T Consensus 62 Ii~~~~~~~~~~~i~~~-~~~~ipvv~~~~~~~------~~-~--~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~g~~ 131 (271)
T cd06321 62 LLNAVDSKGIAPAVKRA-QAAGIVVVAVDVAAE------GA-D--ATVTTDNVQAGEISCQYLADRLGGKGNVAILNGPP 131 (271)
T ss_pred EEeCCChhHhHHHHHHH-HHCCCeEEEecCCCC------Cc-c--ceeeechHHHHHHHHHHHHHHhCCCceEEEEeCCC
Confidence 34454432 34555554 457899998765421 11 1 234555 266666666666 999999997643
Q ss_pred CccccCCChHHHHHHHHhh
Q psy2801 95 DEMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 95 ~gl~~~~~l~~l~~~l~~~ 113 (126)
. .....-.+.+++.+.+.
T Consensus 132 ~-~~~~~R~~g~~~~~~~~ 149 (271)
T cd06321 132 V-SAVLDRVAGCKAALAKY 149 (271)
T ss_pred C-chHHHHHHHHHHHHHhC
Confidence 3 21122244555556553
No 120
>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=44.10 E-value=1.2e+02 Score=22.01 Aligned_cols=51 Identities=10% Similarity=0.193 Sum_probs=32.7
Q ss_pred HhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEeC
Q psy2801 35 SYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYDS 93 (126)
Q Consensus 35 si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~d 93 (126)
..+...+||.|......+ . .... .+..+ .++.+++.+...|.+++++|...
T Consensus 72 ~~l~~~~iPvv~~~~~~~----~-~~~~---~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~ 125 (268)
T cd06273 72 DLLARRGVPYVATWNYSP----D-SPYP---CVGFDNREAGRLAARHLIALGHRRIAMIFGP 125 (268)
T ss_pred HHHHhCCCCEEEEcCCCC----C-CCCC---EEEeChHHHHHHHHHHHHHCCCCeEEEEecc
Confidence 345678999998764321 1 1112 23344 27777777776799999999754
No 121
>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=43.68 E-value=61 Score=22.51 Aligned_cols=52 Identities=8% Similarity=0.105 Sum_probs=35.9
Q ss_pred CcEEEEcCCCcch----HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC------HHHHHHHHHHHcCCcE
Q psy2801 17 GVFSMLGAVSPDS----FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD------YHQAIIDTVKYYGWKN 86 (126)
Q Consensus 17 gv~AIiGp~~s~~----~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~------~~~Ai~dli~~f~W~~ 86 (126)
-+.||+|..+..- +.++-.++..+++|.+- .+.++|. +.+.+.+.++.| |++
T Consensus 64 ~~~gV~gSGn~n~g~~fc~A~d~ia~~~~~p~l~-----------------k~El~gt~~Dv~~~~~~~~~~~~~~-~~~ 125 (125)
T TIGR00333 64 LLRGVAASGNKVWGDNFALAGDVISRKLNVPLLY-----------------KFELSGTKNDVELFTQEVQKIVTNF-FQK 125 (125)
T ss_pred cEEEEEEcCCCchHHHHHHHHHHHHHHhCCccEE-----------------EEecCCCHHHHHHHHHHHHHHHHHH-hcC
Confidence 5789998877754 67788888888887663 2444443 244777778778 753
No 122
>PLN02165 adenylate isopentenyltransferase
Probab=43.52 E-value=24 Score=28.70 Aligned_cols=39 Identities=15% Similarity=0.201 Sum_probs=29.9
Q ss_pred HHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeee
Q psy2801 8 VSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFIT 46 (126)
Q Consensus 8 ~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is 46 (126)
...|......+++|+||+.+--+.....++..++-+.|+
T Consensus 35 ~~~~~~~~g~iivIiGPTGSGKStLA~~LA~~l~~eIIs 73 (334)
T PLN02165 35 VAMEQNCKDKVVVIMGATGSGKSRLSVDLATRFPSEIIN 73 (334)
T ss_pred cccccCCCCCEEEEECCCCCcHHHHHHHHHHHcCCceec
Confidence 346666566689999999996666666788888888775
No 123
>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=42.94 E-value=1.3e+02 Score=21.98 Aligned_cols=92 Identities=10% Similarity=0.011 Sum_probs=47.2
Q ss_pred CCCcEEE-EcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCH---HHHHHHHHHHc--CCcEEE
Q psy2801 15 SRGVFSM-LGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDY---HQAIIDTVKYY--GWKNII 88 (126)
Q Consensus 15 ~~gv~AI-iGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~---~~Ai~dli~~f--~W~~v~ 88 (126)
++++-+| +.|........+...+...+||.|....... . .....-.+..+. ++.+++.+... +=++++
T Consensus 54 ~~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~~~~~~----~--~~~~~~~V~~d~~~~g~~~~~~l~~~~~~~~~i~ 127 (272)
T cd06301 54 AQGVDAIIVVPVDTAATAPIVKAANAAGIPLVYVNRRPE----N--APKGVAYVGSDEVVAGRLQAEYVADKLGGKGNVA 127 (272)
T ss_pred HcCCCEEEEecCchhhhHHHHHHHHHCCCeEEEecCCCC----C--CCCeeEEEecChHHHHHHHHHHHHHHhCCCccEE
Confidence 4455444 3555443333333446889999998654321 1 001223455552 55555555443 446999
Q ss_pred EEEeCCCccccCCChHHHHHHHHh
Q psy2801 89 YMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 89 iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
++....+......-.+-+++.+.+
T Consensus 128 ~i~~~~~~~~~~~R~~gf~~~l~~ 151 (272)
T cd06301 128 ILMGPLGQSAQIDRTKGVEEVLAK 151 (272)
T ss_pred EEECCCCCccHHHHHHHHHHHHHH
Confidence 997654322222334455556654
No 124
>PF10566 Glyco_hydro_97: Glycoside hydrolase 97 ; InterPro: IPR019563 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is the 97th family of glycosidases, in this case bacterial. The central part of the GH97 family protein sequences represents a typical and complete (beta/alpha)8-barrel or catalytic TIM-barrel type domain. The N- and C-terminal parts of the sequences, mainly consisting of beta-strands, most probably form two additional non-catalytic domains with as yet unknown functions. The non-catalytic domains of glycosidases from the alpha-galactosidase and alpha-glucosidase superfamilies are also predominantly composed of beta-strands, and at least some of these domains are involved in oligomerisation and carbohydrate binding. In all known glycosidases with the (beta-alpha)8-barrel fold, the amino acid residues at the active site are located on the C-termini of the beta-strands []. ; PDB: 2JKP_A 2JKE_A 2D73_B 2ZQ0_B 2JKA_A 3A24_A.
Probab=42.01 E-value=62 Score=25.57 Aligned_cols=40 Identities=15% Similarity=0.098 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHcCCcEEEEEEeCCCccc--------------cCCChHHHHHHHHhhc
Q psy2801 71 YHQAIIDTVKYYGWKNIIYMYDSHDEMF--------------YEGSPEFLRVFCHEKL 114 (126)
Q Consensus 71 ~~~Ai~dli~~f~W~~v~iiY~dd~gl~--------------~~~~l~~l~~~l~~~~ 114 (126)
-.+.++|+...+||..+.+ |+|.. ....++.|.+|.++|-
T Consensus 33 ~~k~yIDfAa~~G~eYvlv----D~GW~~~~~~~~~d~~~~~~~~dl~elv~Ya~~Kg 86 (273)
T PF10566_consen 33 TQKRYIDFAAEMGIEYVLV----DAGWYGWEKDDDFDFTKPIPDFDLPELVDYAKEKG 86 (273)
T ss_dssp HHHHHHHHHHHTT-SEEEE----BTTCCGS--TTT--TT-B-TT--HHHHHHHHHHTT
T ss_pred HHHHHHHHHHHcCCCEEEe----ccccccccccccccccccCCccCHHHHHHHHHHcC
Confidence 3899999999999999988 66765 5788999999999884
No 125
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=41.95 E-value=1.5e+02 Score=22.33 Aligned_cols=71 Identities=15% Similarity=0.133 Sum_probs=36.6
Q ss_pred CCCcE-EEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCH---HHHHHHHHH-HcCCc-EEE
Q psy2801 15 SRGVF-SMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDY---HQAIIDTVK-YYGWK-NII 88 (126)
Q Consensus 15 ~~gv~-AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~---~~Ai~dli~-~f~W~-~v~ 88 (126)
.+++- .|++|.........-..+...+||.|....... . ......+.++. ++.+++.+. ..+.+ ++.
T Consensus 80 ~~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~~~~~~-----~--~~~~~~V~~D~~~~g~~~~~~l~~~~~~~~~i~ 152 (295)
T PRK10653 80 VRGTKILLINPTDSDAVGNAVKMANQANIPVITLDRGAT-----K--GEVVSHIASDNVAGGKMAGDFIAKKLGEGAKVI 152 (295)
T ss_pred HcCCCEEEEcCCChHHHHHHHHHHHHCCCCEEEEccCCC-----C--CceeeEEccChHHHHHHHHHHHHHHhCCCceEE
Confidence 44553 456765544332333456678999998754311 1 12223456663 455555444 45654 555
Q ss_pred EEEe
Q psy2801 89 YMYD 92 (126)
Q Consensus 89 iiY~ 92 (126)
++..
T Consensus 153 ~~~~ 156 (295)
T PRK10653 153 QLEG 156 (295)
T ss_pred EEEc
Confidence 5543
No 126
>PRK05057 aroK shikimate kinase I; Reviewed
Probab=41.74 E-value=42 Score=23.99 Aligned_cols=33 Identities=9% Similarity=0.140 Sum_probs=27.3
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
...++++|+..+.-+.....+++.+++|++...
T Consensus 4 ~~~I~liG~~GaGKStl~~~La~~l~~~~vd~D 36 (172)
T PRK05057 4 KRNIFLVGPMGAGKSTIGRQLAQQLNMEFYDSD 36 (172)
T ss_pred CCEEEEECCCCcCHHHHHHHHHHHcCCcEEECC
Confidence 346889999999888888889999999999644
No 127
>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=41.13 E-value=1.4e+02 Score=21.86 Aligned_cols=76 Identities=11% Similarity=-0.014 Sum_probs=41.3
Q ss_pred HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHc--CCcEEEEEEeCCCccccCCChH
Q psy2801 30 FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYY--GWKNIIYMYDSHDEMFYEGSPE 104 (126)
Q Consensus 30 ~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f--~W~~v~iiY~dd~gl~~~~~l~ 104 (126)
...+.. +...+||.+......+ . ..+.-.+..+ .++..++.+... |=+++++++...+......-.+
T Consensus 71 ~~~~~~-~~~~~ipvV~~~~~~~-----~--~~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~ 142 (270)
T cd06308 71 TPVVEE-AYRAGIPVILLDRKIL-----S--DKYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHD 142 (270)
T ss_pred hHHHHH-HHHCCCCEEEeCCCCC-----C--ccceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHH
Confidence 344444 4568999998764321 1 1233345555 256666666554 7889999975433212222344
Q ss_pred HHHHHHHhh
Q psy2801 105 FLRVFCHEK 113 (126)
Q Consensus 105 ~l~~~l~~~ 113 (126)
.++..+.+.
T Consensus 143 g~~~~l~~~ 151 (270)
T cd06308 143 GFKEALSKY 151 (270)
T ss_pred HHHHHHHHC
Confidence 555556543
No 128
>PRK00023 cmk cytidylate kinase; Provisional
Probab=40.86 E-value=27 Score=26.27 Aligned_cols=35 Identities=6% Similarity=0.073 Sum_probs=28.6
Q ss_pred cCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 14 FSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 14 ~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
|..-+++|.||..+.-+....-++..+++|+++..
T Consensus 2 ~~~~~i~i~g~~gsGksti~~~la~~~~~~~~~~~ 36 (225)
T PRK00023 2 MKAIVIAIDGPAGSGKGTVAKILAKKLGFHYLDTG 36 (225)
T ss_pred CCceEEEEECCCCCCHHHHHHHHHHHhCCCcccCc
Confidence 34458899999999888888888899999999644
No 129
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=40.44 E-value=26 Score=29.01 Aligned_cols=68 Identities=10% Similarity=0.199 Sum_probs=42.9
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHHHHHHHHcCCc----EEEEEEeC
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAIIDTVKYYGWK----NIIYMYDS 93 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai~dli~~f~W~----~v~iiY~d 93 (126)
-+.++||+.|.-+...+.++..++||+--..++. + .. ..| +--|....+..|++.=+|. .=++||-|
T Consensus 99 NILLiGPTGsGKTlLAqTLAk~LnVPFaiADATt--L--TE--AGY---VGEDVENillkLlqaadydV~rAerGIIyID 169 (408)
T COG1219 99 NILLIGPTGSGKTLLAQTLAKILNVPFAIADATT--L--TE--AGY---VGEDVENILLKLLQAADYDVERAERGIIYID 169 (408)
T ss_pred cEEEECCCCCcHHHHHHHHHHHhCCCeeeccccc--h--hh--ccc---cchhHHHHHHHHHHHcccCHHHHhCCeEEEe
Confidence 3678999999999999999999999998534432 1 11 112 1123455666666654442 23566665
Q ss_pred C
Q psy2801 94 H 94 (126)
Q Consensus 94 d 94 (126)
.
T Consensus 170 E 170 (408)
T COG1219 170 E 170 (408)
T ss_pred c
Confidence 4
No 130
>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=39.65 E-value=1.5e+02 Score=21.76 Aligned_cols=74 Identities=9% Similarity=-0.025 Sum_probs=40.5
Q ss_pred CCCcEEE-EcCCCcc-hHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC-H--HHHHHHHHHHc--CCcEE
Q psy2801 15 SRGVFSM-LGAVSPD-SFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD-Y--HQAIIDTVKYY--GWKNI 87 (126)
Q Consensus 15 ~~gv~AI-iGp~~s~-~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~-~--~~Ai~dli~~f--~W~~v 87 (126)
.+++=|| +.|.+.. ....++.+ ...+||.|......+ . ...+...+.++ . .+..++.+... |-+++
T Consensus 58 ~~~vDgiii~~~~~~~~~~~i~~~-~~~gIpvV~~d~~~~----~--~~~~~~~V~~d~~~~g~~aa~~l~~~~~g~~~i 130 (274)
T cd06311 58 NRKIDALVILPFESAPLTQPVAKA-KKAGIFVVVVDRGLS----S--PGAQDLYVAGDNYGMGRVAGEYIATKLGGNGNI 130 (274)
T ss_pred HcCCCEEEEeCCCchhhHHHHHHH-HHCCCeEEEEcCCCC----C--CcccceEEcCCcHHHHHHHHHHHHHHhCCCCeE
Confidence 4455333 3444433 23455554 568999998765321 1 10112234555 2 56666666655 88999
Q ss_pred EEEEeCCC
Q psy2801 88 IYMYDSHD 95 (126)
Q Consensus 88 ~iiY~dd~ 95 (126)
.+++....
T Consensus 131 ~~~~g~~~ 138 (274)
T cd06311 131 VVLRGIPT 138 (274)
T ss_pred EEEECCCC
Confidence 99976543
No 131
>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=38.98 E-value=18 Score=27.97 Aligned_cols=31 Identities=13% Similarity=0.205 Sum_probs=23.0
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
++.+|+||+..--+..--.++..++.|.|+.
T Consensus 2 ~v~~i~GpT~tGKt~~ai~lA~~~g~pvI~~ 32 (233)
T PF01745_consen 2 KVYLIVGPTGTGKTALAIALAQKTGAPVISL 32 (233)
T ss_dssp EEEEEE-STTSSHHHHHHHHHHHH--EEEEE
T ss_pred cEEEEECCCCCChhHHHHHHHHHhCCCEEEe
Confidence 5889999999966666677899999999963
No 132
>PF10850 DUF2653: Protein of unknown function (DUF2653); InterPro: IPR020516 This entry contains proteins with no known function.
Probab=38.92 E-value=45 Score=22.14 Aligned_cols=34 Identities=24% Similarity=0.354 Sum_probs=26.1
Q ss_pred EEEEEEeCCCccccC-------------CChHHHHHHHHhhcCcccc
Q psy2801 86 NIIYMYDSHDEMFYE-------------GSPEFLRVFCHEKLNISVW 119 (126)
Q Consensus 86 ~v~iiY~dd~gl~~~-------------~~l~~l~~~l~~~~~~~~~ 119 (126)
.|-+.|+++.|..++ .-++.+++|+++-.+..+.
T Consensus 30 eVeL~yDdd~GFsAEv~~ngr~q~l~~~nlieAIr~~l~~~~~~~p~ 76 (91)
T PF10850_consen 30 EVELMYDDDYGFSAEVWVNGRSQYLIEANLIEAIRQYLEEEYNMDPF 76 (91)
T ss_pred EEEEEEecCCCeeEEEEECCeEEEEchhhHHHHHHHHHHHHhCCCcc
Confidence 477889998887653 4568899999998877654
No 133
>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=38.23 E-value=39 Score=23.92 Aligned_cols=29 Identities=14% Similarity=0.306 Sum_probs=23.1
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
+.|+||..+.-+-..+.++..+++++|+.
T Consensus 2 I~i~G~pGsGKst~a~~La~~~~~~~i~~ 30 (194)
T cd01428 2 ILLLGPPGSGKGTQAERLAKKYGLPHIST 30 (194)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEEC
Confidence 56888777766666688888999999975
No 134
>PLN02674 adenylate kinase
Probab=37.97 E-value=43 Score=25.92 Aligned_cols=32 Identities=3% Similarity=0.015 Sum_probs=24.2
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
..+.++||-.+--.-.-+.++..++++||+.+
T Consensus 32 ~~i~l~G~PGsGKgT~a~~La~~~~~~his~G 63 (244)
T PLN02674 32 KRLILIGPPGSGKGTQSPIIKDEYCLCHLATG 63 (244)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHcCCcEEchh
Confidence 44667887777555566888999999999753
No 135
>PRK00091 miaA tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed
Probab=37.30 E-value=47 Score=26.48 Aligned_cols=32 Identities=9% Similarity=0.142 Sum_probs=27.4
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
..+++|+||+.+.-+.....++..++.+.|+.
T Consensus 4 ~~~i~i~GptgsGKt~la~~la~~~~~~iis~ 35 (307)
T PRK00091 4 PKVIVIVGPTASGKTALAIELAKRLNGEIISA 35 (307)
T ss_pred ceEEEEECCCCcCHHHHHHHHHHhCCCcEEec
Confidence 35889999999988888889999999998864
No 136
>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=36.29 E-value=1.8e+02 Score=21.59 Aligned_cols=92 Identities=11% Similarity=0.055 Sum_probs=47.5
Q ss_pred CCCcE-EEEcCCCcc-hHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC-H--HHHHHHHHHHc--CCcEE
Q psy2801 15 SRGVF-SMLGAVSPD-SFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD-Y--HQAIIDTVKYY--GWKNI 87 (126)
Q Consensus 15 ~~gv~-AIiGp~~s~-~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~-~--~~Ai~dli~~f--~W~~v 87 (126)
.+++- .|+.|.... ....++. +...+||.|......+ . ......-.+.++ . ++.+++.+... |.+++
T Consensus 53 ~~~vdgiii~~~~~~~~~~~i~~-~~~~~iPvV~~~~~~~----~-~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i 126 (272)
T cd06313 53 SQGWDFIAVDPLGIGTLTEAVQK-AIARGIPVIDMGTLIA----P-LQINVHSFLAPDNYFMGASVAQALCNAMGGKGKI 126 (272)
T ss_pred HcCCCEEEEcCCChHHhHHHHHH-HHHCCCcEEEeCCCCC----C-CCCceEEEECCCcHHHHHHHHHHHHHHcCCCceE
Confidence 34443 234444332 3344544 4456999998765421 1 111212234455 2 66666766666 99999
Q ss_pred EEEEeCCCccccCCChHHHHHHHHh
Q psy2801 88 IYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 88 ~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
+++....+.....+-.+-+.+.+.+
T Consensus 127 ~~l~g~~~~~~~~~R~~gf~~~~~~ 151 (272)
T cd06313 127 AMLQGALGHTGAQGRAQGFNDVIKK 151 (272)
T ss_pred EEEECCCCCcchhHHHHHHHHHHHh
Confidence 9997653322222234445555544
No 137
>PRK14528 adenylate kinase; Provisional
Probab=35.90 E-value=47 Score=24.00 Aligned_cols=31 Identities=10% Similarity=0.118 Sum_probs=24.4
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
.+.|+||..+.-+...+.++..+++|+|+..
T Consensus 3 ~i~i~G~pGsGKtt~a~~la~~~~~~~is~~ 33 (186)
T PRK14528 3 NIIFMGPPGAGKGTQAKILCERLSIPQISTG 33 (186)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCeeeCC
Confidence 3678898888666667888899999999754
No 138
>COG1438 ArgR Arginine repressor [Transcription]
Probab=35.76 E-value=57 Score=23.57 Aligned_cols=33 Identities=9% Similarity=0.068 Sum_probs=25.6
Q ss_pred EEeeCCHHHHHHHHHHHcCCcE-EEEEEeCCCcc
Q psy2801 65 ISMRPDYHQAIIDTVKYYGWKN-IIYMYDSHDEM 97 (126)
Q Consensus 65 ~~~~P~~~~Ai~dli~~f~W~~-v~iiY~dd~gl 97 (126)
+++.|..+++++.++...+|.+ ++.|..||.-+
T Consensus 97 lkT~PG~A~~ia~~lD~~~~~eIlGTIaGdDTil 130 (150)
T COG1438 97 LKTSPGAAQLIARLLDSLAKDEILGTIAGDDTIL 130 (150)
T ss_pred EEeCCchHHHHHHHHHhcCchhhheeeeCCCeEE
Confidence 5555889999999999999994 56666666544
No 139
>PF03096 Ndr: Ndr family; InterPro: IPR004142 This family consists of proteins from different gene families: Ndr1/RTP/Drg1, Ndr2, and Ndr3. Their similarity was previously noted []. The precise molecular and cellular function of members of this family is still unknown, yet they are known to be involved in cellular differentiation events. The Ndr1 group was the first to be discovered. Their expression is repressed by the proto-oncogenes N-myc and c-myc, and in line with this observation, Ndr1 protein expression is down-regulated in neoplastic cells, and is reactivated when differentiation is induced by chemicals such as retinoic acid. Ndr2 and Ndr3 expression is not under the control of N-myc or c-myc. Ndr1 expression is also activated by several chemicals: tunicamycin and homocysteine induce Ndr1 in human umbilical endothelial cells; nickel induces Ndr1 in several cell types. Members of this family are found in wide variety of multicellular eukaryotes, including an Ndr1 type protein in Helianthus annuus (Common sunflower), known as Sf21. Interestingly, the highest scoring matches in the noise are all alpha/beta hydrolases (IPR000073 from INTERPRO), suggesting that this family may have an enzymatic function.; PDB: 2QMQ_A 2XMR_B 2XMQ_B 2XMS_A.
Probab=35.73 E-value=28 Score=27.68 Aligned_cols=58 Identities=16% Similarity=0.208 Sum_probs=34.3
Q ss_pred HHHHHhhCcCCCCeee-ecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEeCC
Q psy2801 31 DTFHSYSNTFQMPFIT-PWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYDSH 94 (126)
Q Consensus 31 ~~v~si~~~~~IP~Is-~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~dd 94 (126)
...+.+...|-|=||. |+.... ..+-...| .+|+ +++.|.++++|||+++|.-+.+..
T Consensus 47 ~~m~~i~~~f~i~Hi~aPGqe~g---a~~~p~~y---~yPsmd~LAe~l~~Vl~~f~lk~vIg~GvGA 108 (283)
T PF03096_consen 47 EDMQEILQNFCIYHIDAPGQEEG---AATLPEGY---QYPSMDQLAEMLPEVLDHFGLKSVIGFGVGA 108 (283)
T ss_dssp HHHHHHHTTSEEEEEE-TTTSTT--------TT--------HHHHHCTHHHHHHHHT---EEEEEETH
T ss_pred hhHHHHhhceEEEEEeCCCCCCC---cccccccc---cccCHHHHHHHHHHHHHhCCccEEEEEeecc
Confidence 5678899999999995 332221 01111122 4576 599999999999999999998753
No 140
>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=35.67 E-value=42 Score=25.19 Aligned_cols=31 Identities=3% Similarity=0.147 Sum_probs=27.0
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
+++|.||..+.-+.....++..+++|++...
T Consensus 4 ~i~i~G~~GsGKst~~~~la~~~~~~~~~~g 34 (217)
T TIGR00017 4 IIAIDGPSGAGKSTVAKAVAEKLGYAYLDSG 34 (217)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCceeeCc
Confidence 6899999999888888999999999999643
No 141
>PF09657 Cas_Csx8: CRISPR-associated protein Csx8 (Cas_Csx8); InterPro: IPR013487 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents the Cxs8 family of Cas proteins, whose funciton is unknown. These proteins are encoded in the midst of a cas gene operon [].
Probab=34.65 E-value=14 Score=31.21 Aligned_cols=25 Identities=24% Similarity=0.567 Sum_probs=21.1
Q ss_pred EEeeCC---HHHHHHHHHHHcCCcEEEE
Q psy2801 65 ISMRPD---YHQAIIDTVKYYGWKNIIY 89 (126)
Q Consensus 65 ~~~~P~---~~~Ai~dli~~f~W~~v~i 89 (126)
..+.|+ ++.||+.|+++|+|....+
T Consensus 3 ~~le~sDWRySAAivGl~~yf~~~~~~~ 30 (441)
T PF09657_consen 3 TALEPSDWRYSAAIVGLIRYFKELEKNY 30 (441)
T ss_pred cccCccchhHHHHHHHHHHHHHHhcccc
Confidence 345565 5999999999999999988
No 142
>PRK14527 adenylate kinase; Provisional
Probab=34.65 E-value=43 Score=24.08 Aligned_cols=31 Identities=10% Similarity=0.119 Sum_probs=25.5
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
.++.|+||..+.-+-..+.++..+++++++.
T Consensus 7 ~~i~i~G~pGsGKsT~a~~La~~~~~~~is~ 37 (191)
T PRK14527 7 KVVIFLGPPGAGKGTQAERLAQELGLKKLST 37 (191)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHhCCCCCCc
Confidence 4788899988877777788899999999964
No 143
>PRK14532 adenylate kinase; Provisional
Probab=34.51 E-value=53 Score=23.37 Aligned_cols=30 Identities=7% Similarity=0.008 Sum_probs=22.9
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
+.++||..+--+-.-+.++..++++||+..
T Consensus 3 i~~~G~pGsGKsT~a~~la~~~g~~~is~~ 32 (188)
T PRK14532 3 LILFGPPAAGKGTQAKRLVEERGMVQLSTG 32 (188)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCeEEeCc
Confidence 567887777555566888899999999863
No 144
>PRK14531 adenylate kinase; Provisional
Probab=33.83 E-value=47 Score=23.79 Aligned_cols=30 Identities=7% Similarity=0.074 Sum_probs=24.1
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
.+.++||..+--+-.-+.++..+++|||+.
T Consensus 4 ~i~i~G~pGsGKsT~~~~la~~~g~~~is~ 33 (183)
T PRK14531 4 RLLFLGPPGAGKGTQAARLCAAHGLRHLST 33 (183)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCCeEec
Confidence 366888888866666788889999999975
No 145
>PLN02200 adenylate kinase family protein
Probab=33.58 E-value=48 Score=25.16 Aligned_cols=31 Identities=13% Similarity=0.149 Sum_probs=24.4
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
++.|+|+..+.-+-.-+.++..++++||+.+
T Consensus 45 ii~I~G~PGSGKsT~a~~La~~~g~~his~g 75 (234)
T PLN02200 45 ITFVLGGPGSGKGTQCEKIVETFGFKHLSAG 75 (234)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCeEEEcc
Confidence 5778888887666666888889999999753
No 146
>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=33.02 E-value=1.9e+02 Score=20.88 Aligned_cols=72 Identities=10% Similarity=-0.008 Sum_probs=40.9
Q ss_pred cCCCcEEEE-cCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEE
Q psy2801 14 FSRGVFSML-GAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIY 89 (126)
Q Consensus 14 ~~~gv~AIi-Gp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~i 89 (126)
..+++-+|+ .+... ....+. .+...+||.|......+ . . ..-.+.++ .++.+++.+...|=+++++
T Consensus 51 ~~~~vdgiii~~~~~-~~~~~~-~~~~~~ipvV~~~~~~~----~-~---~~~~v~~d~~~~g~~~~~~l~~~g~~~i~~ 120 (266)
T cd06278 51 LQYRVDGVIVTSGTL-SSELAE-ECRRNGIPVVLINRYVD----G-P---GVDAVCSDNYEAGRLAAELLLAKGCRRIAF 120 (266)
T ss_pred HHcCCCEEEEecCCC-CHHHHH-HHhhcCCCEEEECCccC----C-C---CCCEEEEChHHHHHHHHHHHHHCCCceEEE
Confidence 345564444 33322 233333 45667999998754321 1 1 11234445 2677777777778899999
Q ss_pred EEeCCC
Q psy2801 90 MYDSHD 95 (126)
Q Consensus 90 iY~dd~ 95 (126)
+..+..
T Consensus 121 i~~~~~ 126 (266)
T cd06278 121 IGGPAD 126 (266)
T ss_pred EcCCCc
Confidence 976543
No 147
>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=32.89 E-value=2e+02 Score=21.04 Aligned_cols=93 Identities=10% Similarity=-0.015 Sum_probs=47.5
Q ss_pred hccCCCcEEEE-cCCCcch-HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCH---HHHHHHHHHHc--CC
Q psy2801 12 NQFSRGVFSML-GAVSPDS-FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDY---HQAIIDTVKYY--GW 84 (126)
Q Consensus 12 ~~~~~gv~AIi-Gp~~s~~-~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~---~~Ai~dli~~f--~W 84 (126)
....+++-+|| .+.+... ...++.+ ...++|.|....... . ...+ -.+.++. ++.+++.+... |.
T Consensus 52 ~l~~~~vdgvii~~~~~~~~~~~l~~~-~~~~ipvV~~~~~~~-----~-~~~~-~~v~~d~~~~~~~~~~~l~~~~~g~ 123 (273)
T cd06310 52 NAIARGPDAILLAPTDAKALVPPLKEA-KDAGIPVVLIDSGLN-----S-DIAV-SFVATDNVAAGKLAAEALAELLGKK 123 (273)
T ss_pred HHHHhCCCEEEEcCCChhhhHHHHHHH-HHCCCCEEEecCCCC-----C-Ccce-EEEeeChHHHHHHHHHHHHHHcCCC
Confidence 33444555444 3333322 3455554 468999998654321 1 1111 2345552 56666666665 89
Q ss_pred cEEEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 85 KNIIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 85 ~~v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
++++++....+......-.+-+++.+.+
T Consensus 124 ~~i~~i~~~~~~~~~~~r~~gf~~a~~~ 151 (273)
T cd06310 124 GKVAVISFVPGSSTTDQREEGFLEGLKE 151 (273)
T ss_pred ceEEEEeCCCCCccHHHHHHHHHHHHHh
Confidence 9999996443322212223444455544
No 148
>PRK00279 adk adenylate kinase; Reviewed
Probab=32.65 E-value=56 Score=23.99 Aligned_cols=30 Identities=13% Similarity=0.228 Sum_probs=23.4
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
+.|+||..+--+-....++..+++++|+..
T Consensus 3 I~v~G~pGsGKsT~a~~la~~~~~~~is~~ 32 (215)
T PRK00279 3 LILLGPPGAGKGTQAKFIAEKYGIPHISTG 32 (215)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEECC
Confidence 568888777666666778889999999853
No 149
>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=32.10 E-value=2e+02 Score=21.02 Aligned_cols=72 Identities=15% Similarity=0.011 Sum_probs=41.3
Q ss_pred HHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEeCCCccccCCChHHHHH
Q psy2801 32 TFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRV 108 (126)
Q Consensus 32 ~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~dd~gl~~~~~l~~l~~ 108 (126)
.++. +...+||.|......+ . ...-.+.++ .++..++.+...|.++++++..+........-.+-+.+
T Consensus 79 ~~~~-~~~~~ipvV~~~~~~~----~----~~~~~V~~d~~~~g~~~a~~l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~ 149 (275)
T cd06295 79 LPER-LAETGLPFVVWGRPLP----G----QPYCYVGSDNVGGGRLATEHLLARGRRRIAFLGGPQDMPEGEERLEGYRE 149 (275)
T ss_pred HHHH-HHhCCCCEEEECCccC----C----CCCCEEEECcHHHHHHHHHHHHHCCCCeEEEEcCCCCcchhHHHHHHHHH
Confidence 3444 5678999998765422 1 111234444 37777777778899999999754321222222344444
Q ss_pred HHHh
Q psy2801 109 FCHE 112 (126)
Q Consensus 109 ~l~~ 112 (126)
.+.+
T Consensus 150 ~~~~ 153 (275)
T cd06295 150 ALAE 153 (275)
T ss_pred HHHH
Confidence 5544
No 150
>TIGR00174 miaA tRNA isopentenyltransferase (miaA). Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.
Probab=31.93 E-value=62 Score=25.67 Aligned_cols=30 Identities=10% Similarity=0.158 Sum_probs=26.3
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
+++|+||+.+.-+.....++..++.+.|+.
T Consensus 1 vi~i~G~t~~GKs~la~~l~~~~~~~iis~ 30 (287)
T TIGR00174 1 VIFIMGPTAVGKSQLAIQLAKKLNAEIISV 30 (287)
T ss_pred CEEEECCCCCCHHHHHHHHHHhCCCcEEEe
Confidence 478999999988888899999999998864
No 151
>PRK03839 putative kinase; Provisional
Probab=31.68 E-value=54 Score=23.16 Aligned_cols=31 Identities=3% Similarity=0.098 Sum_probs=24.3
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
.+.|+|+..+--+-.-..++..+++|+++..
T Consensus 2 ~I~l~G~pGsGKsT~~~~La~~~~~~~id~d 32 (180)
T PRK03839 2 IIAITGTPGVGKTTVSKLLAEKLGYEYVDLT 32 (180)
T ss_pred EEEEECCCCCCHHHHHHHHHHHhCCcEEehh
Confidence 3678888887666667888889999999744
No 152
>PRK02496 adk adenylate kinase; Provisional
Probab=31.58 E-value=56 Score=23.17 Aligned_cols=29 Identities=14% Similarity=0.252 Sum_probs=23.8
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
+.|+||..+.-+...+.++..+++|+++.
T Consensus 4 i~i~G~pGsGKst~a~~la~~~~~~~i~~ 32 (184)
T PRK02496 4 LIFLGPPGAGKGTQAVVLAEHLHIPHIST 32 (184)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEEh
Confidence 67889988877777788888899999974
No 153
>PRK01184 hypothetical protein; Provisional
Probab=31.37 E-value=59 Score=23.02 Aligned_cols=30 Identities=10% Similarity=0.285 Sum_probs=21.8
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
++++.||..+--+- ++.++..+++|+++.+
T Consensus 3 ~i~l~G~~GsGKsT-~a~~~~~~g~~~i~~~ 32 (184)
T PRK01184 3 IIGVVGMPGSGKGE-FSKIAREMGIPVVVMG 32 (184)
T ss_pred EEEEECCCCCCHHH-HHHHHHHcCCcEEEhh
Confidence 67788877663332 4668999999999853
No 154
>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=31.34 E-value=2.1e+02 Score=20.97 Aligned_cols=74 Identities=14% Similarity=0.058 Sum_probs=41.4
Q ss_pred CCCcEEEEc-CCCcch-HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHH-cCCcEEE
Q psy2801 15 SRGVFSMLG-AVSPDS-FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKY-YGWKNII 88 (126)
Q Consensus 15 ~~gv~AIiG-p~~s~~-~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~-f~W~~v~ 88 (126)
.+++-+||. |..... ...++. +...+||.+....+.. ..........+..+ ..+++++.+.. -|=++++
T Consensus 55 ~~~vdgiii~~~~~~~~~~~l~~-~~~~~ipvV~~~~~~~----~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~g~~~i~ 129 (271)
T cd06312 55 AAKPDGIVVTIPDPDALDPAIKR-AVAAGIPVISFNAGDP----KYKELGALAYVGQDEYAAGEAAGERLAELKGGKNVL 129 (271)
T ss_pred HhCCCEEEEeCCChHHhHHHHHH-HHHCCCeEEEeCCCCC----ccccccceEEeccChHHHHHHHHHHHHHhcCCCeEE
Confidence 445554443 333322 334444 4567899998765421 10001122334444 37778888877 7889999
Q ss_pred EEEeC
Q psy2801 89 YMYDS 93 (126)
Q Consensus 89 iiY~d 93 (126)
++..+
T Consensus 130 ~i~g~ 134 (271)
T cd06312 130 CVIHE 134 (271)
T ss_pred EEecC
Confidence 98753
No 155
>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=30.86 E-value=65 Score=20.82 Aligned_cols=32 Identities=13% Similarity=0.105 Sum_probs=27.2
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeecCC
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPWFP 50 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~ 50 (126)
+.+.||..+--+..+..+++.+++|++.....
T Consensus 1 ill~G~~G~GKT~l~~~la~~l~~~~~~i~~~ 32 (132)
T PF00004_consen 1 ILLHGPPGTGKTTLARALAQYLGFPFIEIDGS 32 (132)
T ss_dssp EEEESSTTSSHHHHHHHHHHHTTSEEEEEETT
T ss_pred CEEECcCCCCeeHHHHHHHhhccccccccccc
Confidence 35789999988899999999999999876654
No 156
>PRK13947 shikimate kinase; Provisional
Probab=30.63 E-value=62 Score=22.44 Aligned_cols=30 Identities=13% Similarity=0.183 Sum_probs=24.3
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
++++|+..+--+..-..+++.+++|++...
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 678898888777777888899999999643
No 157
>KOG3843|consensus
Probab=30.35 E-value=31 Score=27.93 Aligned_cols=26 Identities=23% Similarity=0.496 Sum_probs=23.9
Q ss_pred EEEcCCCcchHHHHHHhhCcCCCCee
Q psy2801 20 SMLGAVSPDSFDTFHSYSNTFQMPFI 45 (126)
Q Consensus 20 AIiGp~~s~~~~~v~si~~~~~IP~I 45 (126)
..|.|.+....++++.+|...+||||
T Consensus 166 scfapr~pd~leaiaaica~~diphi 191 (432)
T KOG3843|consen 166 SCFAPRSPDNLEAIAAICAAHDIPHI 191 (432)
T ss_pred cccCCCCCchHHHHHHHHHccCchhh
Confidence 45789999999999999999999999
No 158
>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=30.33 E-value=63 Score=21.79 Aligned_cols=30 Identities=10% Similarity=0.242 Sum_probs=24.7
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
++++|+..+.-+.....++..+++|+++..
T Consensus 2 i~l~G~~GsGKstla~~la~~l~~~~~~~d 31 (154)
T cd00464 2 IVLIGMMGAGKTTVGRLLAKALGLPFVDLD 31 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHhCCCEEEch
Confidence 568898888888888888889999999643
No 159
>cd01786 STE50_RA Ubiquitin-like domain of STE50_RA. STE50_RA The fungal adaptor protein STE50 is an essential component of three MAPK-mediated signalling pathways, which control the mating response, invasive/filamentous growth and osmotolerance (HOG pathway), respectively. STE50 functions in cell signalling between the activated G protein and STE11. The domain architecture of STE50 includes an amino-terminal SAM (sterile alpha motif) domain in addition to the carboxy-terminal ubiquitin-like RA (RAS-associated) domain. While the SAM domain interacts with STE11, the RA domain interacts with CDC42 and RAS. Modulation of signal transduction by STE50 specifically affects the pheromone-response pathway in yeast.
Probab=30.20 E-value=1.7e+02 Score=19.58 Aligned_cols=54 Identities=9% Similarity=0.253 Sum_probs=33.2
Q ss_pred CCCceEEeeCCHHHHHHHHHHHc-----CCcEEEEE--EeCCC-ccccCCChHHHHHHHHhh
Q psy2801 60 FLDYAISMRPDYHQAIIDTVKYY-----GWKNIIYM--YDSHD-EMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 60 ~~~f~~~~~P~~~~Ai~dli~~f-----~W~~v~ii--Y~dd~-gl~~~~~l~~l~~~l~~~ 113 (126)
..+|.+++--+-.+.+-.-+++| .|+..+++ |.|.| .|--.++-.-|++.|.+.
T Consensus 26 ~K~~rvs~dDpC~kVL~~Alkry~I~~~dW~~Y~L~I~YgdqER~L~ldEKPl~lFk~L~~~ 87 (98)
T cd01786 26 LKQLRASKEDSCEKILKNAMKRHNLNDQDWRQYVLVICYGDQERILDLDEKPVIIFKNLKQQ 87 (98)
T ss_pred chheeeeccCcHHHHHHHHHHHcCCChhhhhheEEEEEeCCeeeeccccccHHHHHHHHHHc
Confidence 34566666655455555555554 59988765 77766 444456666777777654
No 160
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=29.97 E-value=2.6e+02 Score=21.88 Aligned_cols=70 Identities=11% Similarity=0.208 Sum_probs=45.4
Q ss_pred EEEcCCCc-chHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEee------CC-HHHHHHHHHHH-cCCc-----
Q psy2801 20 SMLGAVSP-DSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMR------PD-YHQAIIDTVKY-YGWK----- 85 (126)
Q Consensus 20 AIiGp~~s-~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~------P~-~~~Ai~dli~~-f~W~----- 85 (126)
.||-..+. ..-..+...|...+||+|+-......+ .+..+++. -+ +++.+..-++. +|-+
T Consensus 124 ~VIdaiD~~~~k~~L~~~c~~~~ip~I~~gGag~k~------dp~~~~~~di~~t~~~pla~~~R~~lr~~~~~~~~~~~ 197 (268)
T PRK15116 124 YVIDAIDSVRPKAALIAYCRRNKIPLVTTGGAGGQI------DPTQIQVVDLAKTIQDPLAAKLRERLKSDFGVVKNSKG 197 (268)
T ss_pred EEEEcCCCHHHHHHHHHHHHHcCCCEEEECCcccCC------CCCeEEEEeeecccCChHHHHHHHHHHHhhCCCcccCc
Confidence 44444433 556678999999999999754332211 12223332 22 79999999987 7875
Q ss_pred --EEEEEEeCCC
Q psy2801 86 --NIIYMYDSHD 95 (126)
Q Consensus 86 --~v~iiY~dd~ 95 (126)
.+.+||++..
T Consensus 198 ~~~~~~v~S~E~ 209 (268)
T PRK15116 198 KLGVDCVFSTEA 209 (268)
T ss_pred cCCeEEEeCCCc
Confidence 3999999764
No 161
>PRK13949 shikimate kinase; Provisional
Probab=29.94 E-value=61 Score=23.13 Aligned_cols=29 Identities=10% Similarity=0.196 Sum_probs=24.7
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
++|+|+..+.-+.....++..++.|+++.
T Consensus 4 I~liG~~GsGKstl~~~La~~l~~~~id~ 32 (169)
T PRK13949 4 IFLVGYMGAGKTTLGKALARELGLSFIDL 32 (169)
T ss_pred EEEECCCCCCHHHHHHHHHHHcCCCeecc
Confidence 67999888877777788899999999964
No 162
>PRK00131 aroK shikimate kinase; Reviewed
Probab=29.80 E-value=83 Score=21.54 Aligned_cols=30 Identities=10% Similarity=0.146 Sum_probs=24.7
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
.+.++|+..+--+.....++..+++|++..
T Consensus 6 ~i~l~G~~GsGKstla~~La~~l~~~~~d~ 35 (175)
T PRK00131 6 NIVLIGFMGAGKSTIGRLLAKRLGYDFIDT 35 (175)
T ss_pred eEEEEcCCCCCHHHHHHHHHHHhCCCEEEC
Confidence 577889888877777788888899999963
No 163
>PRK06547 hypothetical protein; Provisional
Probab=29.77 E-value=97 Score=22.32 Aligned_cols=32 Identities=3% Similarity=-0.058 Sum_probs=25.1
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeee
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFIT 46 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is 46 (126)
...+++|.|++.+--+.....++..+++|.++
T Consensus 14 ~~~~i~i~G~~GsGKTt~a~~l~~~~~~~~~~ 45 (172)
T PRK06547 14 GMITVLIDGRSGSGKTTLAGALAARTGFQLVH 45 (172)
T ss_pred CCEEEEEECCCCCCHHHHHHHHHHHhCCCeec
Confidence 34578888999887776778888888999885
No 164
>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=29.66 E-value=25 Score=23.84 Aligned_cols=37 Identities=8% Similarity=0.157 Sum_probs=28.6
Q ss_pred CCcEEEEcCCCc--chHHHHHHhhCcCCCCeeeecCCCC
Q psy2801 16 RGVFSMLGAVSP--DSFDTFHSYSNTFQMPFITPWFPEK 52 (126)
Q Consensus 16 ~gv~AIiGp~~s--~~~~~v~si~~~~~IP~Is~~~~~~ 52 (126)
+..+.++|.... .....++.+++.+++|+++......
T Consensus 12 ~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~kg 50 (137)
T PF00205_consen 12 KRPVILAGRGARRSGAAEELRELAEKLGIPVATTPMGKG 50 (137)
T ss_dssp SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGGTT
T ss_pred CCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecCcccc
Confidence 456778887766 7889999999999999997655433
No 165
>PRK14730 coaE dephospho-CoA kinase; Provisional
Probab=29.49 E-value=69 Score=23.46 Aligned_cols=30 Identities=7% Similarity=0.163 Sum_probs=22.1
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCCCCeee
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFIT 46 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~IP~Is 46 (126)
.+++|.|+..|.-+.....+...+++|+|+
T Consensus 2 ~~i~itG~~gsGKst~~~~l~~~~g~~~i~ 31 (195)
T PRK14730 2 RRIGLTGGIASGKSTVGNYLAQQKGIPILD 31 (195)
T ss_pred cEEEEECCCCCCHHHHHHHHHHhhCCeEee
Confidence 468888888776665556666666999996
No 166
>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=29.12 E-value=59 Score=25.45 Aligned_cols=25 Identities=12% Similarity=0.166 Sum_probs=18.3
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcC
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTF 40 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~ 40 (126)
++.|.|+|||+.|.-+-.+.. ++++
T Consensus 32 ~~~VTAlIGPSGcGKST~LR~-lNRm 56 (253)
T COG1117 32 KNKVTALIGPSGCGKSTLLRC-LNRM 56 (253)
T ss_pred CCceEEEECCCCcCHHHHHHH-HHhh
Confidence 456999999999977666555 4443
No 167
>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=29.00 E-value=2.2e+02 Score=20.50 Aligned_cols=70 Identities=13% Similarity=0.078 Sum_probs=38.9
Q ss_pred CCCcEEEEc-CCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEE
Q psy2801 15 SRGVFSMLG-AVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYM 90 (126)
Q Consensus 15 ~~gv~AIiG-p~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~ii 90 (126)
++++-|||. |........+ ..+...+||.|......+ . .. .-.+.++ .++..++.+...|=++++++
T Consensus 53 ~~~vdgiii~~~~~~~~~~~-~~~~~~~ipvV~~~~~~~----~-~~---~~~v~~d~~~~~~~~~~~l~~~g~~~i~~l 123 (268)
T cd06289 53 EHGVAGIILCPAAGTSPDLL-KRLAESGIPVVLVAREVA----G-AP---FDYVGPDNAAGARLATEHLISLGHRRIAFI 123 (268)
T ss_pred HcCCCEEEEeCCCCccHHHH-HHHHhcCCCEEEEeccCC----C-CC---CCEEeecchHHHHHHHHHHHHCCCCCEEEe
Confidence 455655543 3333233333 345678999998754321 1 11 1234455 26666666666788899988
Q ss_pred EeC
Q psy2801 91 YDS 93 (126)
Q Consensus 91 Y~d 93 (126)
..+
T Consensus 124 ~~~ 126 (268)
T cd06289 124 GGL 126 (268)
T ss_pred cCC
Confidence 654
No 168
>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=28.29 E-value=80 Score=22.84 Aligned_cols=26 Identities=12% Similarity=0.266 Sum_probs=21.6
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcC
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTF 40 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~ 40 (126)
..|++||+||+.+--+-.+.-+++..
T Consensus 24 ~~g~~~i~G~nGsGKSTLl~~l~Gl~ 49 (211)
T cd03264 24 GPGMYGLLGPNGAGKTTLMRILATLT 49 (211)
T ss_pred cCCcEEEECCCCCCHHHHHHHHhCCC
Confidence 45799999999998888888888754
No 169
>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=28.25 E-value=1.8e+02 Score=21.06 Aligned_cols=90 Identities=14% Similarity=0.048 Sum_probs=48.0
Q ss_pred CCCcEEE-EcCCCc-chHHHHHHhhCcCCCCeeeecCC-CCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCC--cE
Q psy2801 15 SRGVFSM-LGAVSP-DSFDTFHSYSNTFQMPFITPWFP-EKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGW--KN 86 (126)
Q Consensus 15 ~~gv~AI-iGp~~s-~~~~~v~si~~~~~IP~Is~~~~-~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W--~~ 86 (126)
.+|+=|| +.|.+. .....++. +..-+||.|+...+ .+ . .+....+.++ ..+.+++.+....= .+
T Consensus 53 ~~~~d~Iiv~~~~~~~~~~~l~~-~~~~gIpvv~~d~~~~~----~---~~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~ 124 (257)
T PF13407_consen 53 SQGVDGIIVSPVDPDSLAPFLEK-AKAAGIPVVTVDSDEAP----D---SPRAAYVGTDNYEAGKLAAEYLAEKLGAKGK 124 (257)
T ss_dssp HTTESEEEEESSSTTTTHHHHHH-HHHTTSEEEEESSTHHT----T---STSSEEEEE-HHHHHHHHHHHHHHHHTTTEE
T ss_pred HhcCCEEEecCCCHHHHHHHHHH-HhhcCceEEEEeccccc----c---ccceeeeeccHHHHHHHHHHHHHHHhccCce
Confidence 4555443 355555 44555555 67779999987655 11 1 1222334444 36666776665322 46
Q ss_pred EEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 87 IIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 87 v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
+.++....+......-..-++..+.+
T Consensus 125 v~~~~~~~~~~~~~~r~~g~~~~l~~ 150 (257)
T PF13407_consen 125 VLILSGSPGNPNTQERLEGFRDALKE 150 (257)
T ss_dssp EEEEESSTTSHHHHHHHHHHHHHHHH
T ss_pred EEeccCCCCchHHHHHHHHHHHHHhh
Confidence 77665544433322335555666666
No 170
>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=26.66 E-value=1e+02 Score=23.85 Aligned_cols=36 Identities=17% Similarity=0.282 Sum_probs=24.5
Q ss_pred HHHHHHHHHHcCCcEEEE-EEeCCCccccCCChHHHH
Q psy2801 72 HQAIIDTVKYYGWKNIIY-MYDSHDEMFYEGSPEFLR 107 (126)
Q Consensus 72 ~~Ai~dli~~f~W~~v~i-iY~dd~gl~~~~~l~~l~ 107 (126)
.++++++|+++|=..|.+ |||++.+-.....|..|.
T Consensus 20 ~~~ll~li~~LGp~nv~vSIyE~~S~D~T~~~L~~L~ 56 (241)
T PF11735_consen 20 GDALLELIRFLGPENVFVSIYESGSWDGTKEALRALD 56 (241)
T ss_pred HHHHHHHHHHhCcCeEEEEEEeCCCCccHHHHHHHHH
Confidence 779999999999988765 788764333333333343
No 171
>PF10141 ssDNA-exonuc_C: Single-strand DNA-specific exonuclease, C terminal domain; InterPro: IPR018779 This entry represents a domain found at the C terminus of a set of single-stranded DNA-specific exonucleases, including RecJ. Its function has not, as yet, been determined.
Probab=26.25 E-value=1.3e+02 Score=22.22 Aligned_cols=50 Identities=14% Similarity=0.149 Sum_probs=39.7
Q ss_pred CCHHHHHHHHHHHcCCcEEEEEEeCCC-----ccccCCChHHHHHHHHhhcCccc
Q psy2801 69 PDYHQAIIDTVKYYGWKNIIYMYDSHD-----EMFYEGSPEFLRVFCHEKLNISV 118 (126)
Q Consensus 69 P~~~~Ai~dli~~f~W~~v~iiY~dd~-----gl~~~~~l~~l~~~l~~~~~~~~ 118 (126)
|+-.+.+..++++-+..++.+++...+ |+-....+..+|+++.+.-+.++
T Consensus 61 P~~~~~l~~~l~~~~~~~Iyl~f~~~~~~y~~~~P~Re~F~~~Y~~l~~~~~~~l 115 (195)
T PF10141_consen 61 PPSLEQLKELLQQQQPERIYLLFYQQDSAYFEGMPTREQFKKLYKFLKQHPNFDL 115 (195)
T ss_pred CCCHHHHHHHHHhCCcceEEEEECCccchhhcCCCCHHHHHHHHHHHHhCCCCCH
Confidence 666788888889999999999986543 66667889999999988766544
No 172
>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=26.24 E-value=39 Score=23.22 Aligned_cols=28 Identities=11% Similarity=0.144 Sum_probs=20.7
Q ss_pred EEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 21 MLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 21 IiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
|+||-.|--...-..++..++++||+..
T Consensus 1 i~G~PgsGK~t~~~~la~~~~~~~is~~ 28 (151)
T PF00406_consen 1 ILGPPGSGKGTQAKRLAKRYGLVHISVG 28 (151)
T ss_dssp EEESTTSSHHHHHHHHHHHHTSEEEEHH
T ss_pred CcCCCCCChHHHHHHHHHhcCcceechH
Confidence 5666666555556778999999999853
No 173
>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=26.02 E-value=2.6e+02 Score=20.19 Aligned_cols=51 Identities=8% Similarity=0.057 Sum_probs=31.5
Q ss_pred hhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEeCC
Q psy2801 36 YSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYDSH 94 (126)
Q Consensus 36 i~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~dd 94 (126)
.+...+||.|......+ . . ..-.+..+ .++.+++.+...|=++++++....
T Consensus 73 ~~~~~~ipvv~~~~~~~----~-~---~~~~v~~d~~~~~~~~~~~l~~~g~~~i~~i~~~~ 126 (268)
T cd01575 73 LLRAAGIPVVEIMDLPP----D-P---IDMAVGFSHAEAGRAMARHLLARGYRRIGFLGARM 126 (268)
T ss_pred HHHhcCCCEEEEecCCC----C-C---CCCeEEeCcHHHHHHHHHHHHHCCCCcEEEecCCC
Confidence 34567999998654311 1 1 11123334 367777777777999999997654
No 174
>COG0324 MiaA tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]
Probab=25.99 E-value=87 Score=25.23 Aligned_cols=32 Identities=6% Similarity=0.059 Sum_probs=27.3
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
..+++|+||+.+--+..--.++..++.+.|+.
T Consensus 3 ~~~i~I~GPTAsGKT~lai~LAk~~~~eIIs~ 34 (308)
T COG0324 3 PKLIVIAGPTASGKTALAIALAKRLGGEIISL 34 (308)
T ss_pred ccEEEEECCCCcCHHHHHHHHHHHcCCcEEec
Confidence 35789999999977777778899999999974
No 175
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=25.71 E-value=57 Score=27.80 Aligned_cols=29 Identities=7% Similarity=0.194 Sum_probs=26.5
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCCCCee
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFI 45 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~IP~I 45 (126)
-++.|||+.+|+.+..++.+|...++|-.
T Consensus 364 DlmiVVGG~NSSNT~~L~eIa~~~g~~sy 392 (460)
T PLN02821 364 DLMLVVGGWNSSNTSHLQEIAEHKGIPSY 392 (460)
T ss_pred CEEEEECCCCCccHHHHHHHHHHhCCCEE
Confidence 57899999999999999999999999955
No 176
>cd00122 MBD MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1. The MBDs present in putative chromatin remodelling subunit, BAZ2A, and putative histone methyltransferase, CLLD8, represent two phylogenetically distinct groups within the MBD protein family.
Probab=25.70 E-value=1.5e+02 Score=17.55 Aligned_cols=24 Identities=13% Similarity=-0.090 Sum_probs=18.6
Q ss_pred EEEeCCCccccCCChHHHHHHHHhh
Q psy2801 89 YMYDSHDEMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 89 iiY~dd~gl~~~~~l~~l~~~l~~~ 113 (126)
+.|-...| -+.++..++.+||.++
T Consensus 27 v~Y~sP~G-k~~Rs~~ev~~yL~~~ 50 (62)
T cd00122 27 VYYYSPCG-KKLRSKPEVARYLEKT 50 (62)
T ss_pred EEEECCCC-ceecCHHHHHHHHHhC
Confidence 34665667 6779999999999985
No 177
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=25.27 E-value=3.1e+02 Score=20.92 Aligned_cols=51 Identities=16% Similarity=0.228 Sum_probs=32.0
Q ss_pred HhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEeC
Q psy2801 35 SYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYDS 93 (126)
Q Consensus 35 si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~d 93 (126)
..+...+||.|....... ....+ .+.++ -++.+++.+...|.++++++...
T Consensus 138 ~~l~~~~iPvV~~~~~~~-----~~~~~---~V~~D~~~~~~~a~~~L~~~G~~~I~~i~g~ 191 (342)
T PRK10014 138 EMAEEKGIPVVFASRASY-----LDDVD---TVRPDNMQAAQLLTEHLIRNGHQRIAWLGGQ 191 (342)
T ss_pred HHHhhcCCCEEEEecCCC-----CCCCC---EEEeCCHHHHHHHHHHHHHCCCCEEEEEcCC
Confidence 335567999998754321 11111 24555 26667777777899999999643
No 178
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=25.03 E-value=94 Score=22.83 Aligned_cols=34 Identities=12% Similarity=0.137 Sum_probs=26.7
Q ss_pred CCcEEEEcCCCcc---hHHHHHHhhCcCCCCeeeecC
Q psy2801 16 RGVFSMLGAVSPD---SFDTFHSYSNTFQMPFITPWF 49 (126)
Q Consensus 16 ~gv~AIiGp~~s~---~~~~v~si~~~~~IP~Is~~~ 49 (126)
+..+.++|..-.. ....+..+++.+++|.++...
T Consensus 35 KrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~~ 71 (171)
T PRK00945 35 KRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATGG 71 (171)
T ss_pred CCcEEEECcCccccchHHHHHHHHHHHHCCCEEEccc
Confidence 4567788876644 677899999999999997554
No 179
>PRK14526 adenylate kinase; Provisional
Probab=24.98 E-value=86 Score=23.42 Aligned_cols=30 Identities=17% Similarity=0.115 Sum_probs=23.3
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
+.++||..+.-+-..+.++..+++++|+.+
T Consensus 3 i~l~G~pGsGKsT~a~~La~~~~~~~is~G 32 (211)
T PRK14526 3 LVFLGPPGSGKGTIAKILSNELNYYHISTG 32 (211)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCceeecC
Confidence 567888888666666778889999999744
No 180
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=24.92 E-value=47 Score=20.60 Aligned_cols=41 Identities=15% Similarity=0.188 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHcCCcEEEEEEeCCCccccCCChHHHHHHHHh
Q psy2801 71 YHQAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 71 ~~~Ai~dli~~f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~ 112 (126)
+...+.+|+.+|||...+--- +-.+....+++.+=..+||+
T Consensus 11 Le~il~~Lv~~yGW~~L~~~i-~i~CF~~~PsikSSLkFLRk 51 (64)
T PF09905_consen 11 LETILTELVEHYGWEELGERI-NINCFKNNPSIKSSLKFLRK 51 (64)
T ss_dssp HHHHHHHHHHHT-HHHHHHHT-TSSSTTSS--HHHHHHHHHH
T ss_pred HHHHHHHHHHHhCHHHHHhhc-ccccCCCCCchHHHHHHHhc
Confidence 467888999999998654210 01345556666666666664
No 181
>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=24.88 E-value=88 Score=20.55 Aligned_cols=25 Identities=8% Similarity=0.205 Sum_probs=20.8
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCc
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNT 39 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~ 39 (126)
..+.++++|+..+.-+..+..+++.
T Consensus 2 ~~~~i~~~G~~g~GKttl~~~l~~~ 26 (168)
T cd04163 2 KSGFVAIVGRPNVGKSTLLNALVGQ 26 (168)
T ss_pred ceeEEEEECCCCCCHHHHHHHHhCC
Confidence 4578999999999888888888775
No 182
>PF15088 NADH_dh_m_C1: NADH dehydrogenase [ubiquinone] 1 subunit C1, mitochondrial
Probab=24.86 E-value=69 Score=18.67 Aligned_cols=27 Identities=22% Similarity=0.431 Sum_probs=20.1
Q ss_pred CCcEEEEEEeCCCccccCCChHHHHHHHHhhcCccc
Q psy2801 83 GWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLNISV 118 (126)
Q Consensus 83 ~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~~~~~~~ 118 (126)
+|-+|++- ..+.-+|+.||.+.+|.+|
T Consensus 13 nWlkVGLt---------lGts~flW~~L~kqHneDV 39 (49)
T PF15088_consen 13 NWLKVGLT---------LGTSVFLWIYLIKQHNEDV 39 (49)
T ss_pred Chhheeee---------cchHHHHHHHHHHhhchHH
Confidence 46666553 4466789999999999877
No 183
>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=24.86 E-value=2.7e+02 Score=20.06 Aligned_cols=51 Identities=14% Similarity=0.045 Sum_probs=30.9
Q ss_pred hhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEEEEEEeCC
Q psy2801 36 YSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNIIYMYDSH 94 (126)
Q Consensus 36 i~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v~iiY~dd 94 (126)
.+...++|.|......+ . ...+ .+.++ .++..++.+...|=++++++....
T Consensus 77 ~~~~~~ipvV~~~~~~~----~-~~~~---~V~~d~~~~~~~a~~~l~~~g~~~i~~i~~~~ 130 (268)
T cd06271 77 LLLERGFPFVTHGRTEL----G-DPHP---WVDFDNEAAAYQAVRRLIALGHRRIALLNPPE 130 (268)
T ss_pred HHHhcCCCEEEECCcCC----C-CCCC---eEeeCcHHHHHHHHHHHHHcCCCcEEEecCcc
Confidence 35568999998754321 1 1111 23344 256666666667899999997543
No 184
>PRK09825 idnK D-gluconate kinase; Provisional
Probab=24.83 E-value=1e+02 Score=22.13 Aligned_cols=32 Identities=13% Similarity=0.178 Sum_probs=25.4
Q ss_pred CCCcEEEEcCCCcchHHHHHHhhCcCCCCeee
Q psy2801 15 SRGVFSMLGAVSPDSFDTFHSYSNTFQMPFIT 46 (126)
Q Consensus 15 ~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is 46 (126)
...+++++|++.+.-+-....+++.++.++|.
T Consensus 2 ~ge~i~l~G~sGsGKSTl~~~la~~l~~~~i~ 33 (176)
T PRK09825 2 AGESYILMGVSGSGKSLIGSKIAALFSAKFID 33 (176)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHhcCCEEEC
Confidence 34578999999998887888888888877774
No 185
>PRK14529 adenylate kinase; Provisional
Probab=24.67 E-value=64 Score=24.54 Aligned_cols=30 Identities=7% Similarity=0.058 Sum_probs=24.3
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
+.++||-.+--+-..+.++..+++|||+..
T Consensus 3 I~l~G~PGsGK~T~a~~La~~~~~~~is~g 32 (223)
T PRK14529 3 ILIFGPNGSGKGTQGALVKKKYDLAHIESG 32 (223)
T ss_pred EEEECCCCCCHHHHHHHHHHHHCCCCcccc
Confidence 568888888777777888999999999644
No 186
>PRK00300 gmk guanylate kinase; Provisional
Probab=24.13 E-value=1e+02 Score=22.07 Aligned_cols=25 Identities=4% Similarity=-0.044 Sum_probs=19.4
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCC
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQ 41 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~ 41 (126)
.+++|+||+.+.-+.....+++.++
T Consensus 6 ~~i~i~G~sGsGKstl~~~l~~~~~ 30 (205)
T PRK00300 6 LLIVLSGPSGAGKSTLVKALLERDP 30 (205)
T ss_pred CEEEEECCCCCCHHHHHHHHHhhCc
Confidence 4789999998877777777777654
No 187
>TIGR02189 GlrX-like_plant Glutaredoxin-like family. This family of glutaredoxin-like proteins is aparrently limited to plants. Multiple isoforms are found in A. thaliana and O.sativa.
Probab=23.78 E-value=2.1e+02 Score=18.47 Aligned_cols=75 Identities=5% Similarity=-0.169 Sum_probs=49.3
Q ss_pred ccCCCcEEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHHHHHHHHcCCcEEEEEEe
Q psy2801 13 QFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAIIDTVKYYGWKNIIYMYD 92 (126)
Q Consensus 13 ~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai~dli~~f~W~~v~iiY~ 92 (126)
.+++.-+.|++-..+.-+..+..+++..+||+-...-. ..|+..+....+.+.-||+.|=.|+-
T Consensus 4 ~i~~~~Vvvysk~~Cp~C~~ak~~L~~~~i~~~~vdid----------------~~~~~~~~~~~l~~~tg~~tvP~Vfi 67 (99)
T TIGR02189 4 MVSEKAVVIFSRSSCCMCHVVKRLLLTLGVNPAVHEID----------------KEPAGKDIENALSRLGCSPAVPAVFV 67 (99)
T ss_pred hhccCCEEEEECCCCHHHHHHHHHHHHcCCCCEEEEcC----------------CCccHHHHHHHHHHhcCCCCcCeEEE
Confidence 34556678999999999999999999999887532211 12332233334445579999999998
Q ss_pred CCCccccCCCh
Q psy2801 93 SHDEMFYEGSP 103 (126)
Q Consensus 93 dd~gl~~~~~l 103 (126)
+++-+-+-..+
T Consensus 68 ~g~~iGG~ddl 78 (99)
T TIGR02189 68 GGKLVGGLENV 78 (99)
T ss_pred CCEEEcCHHHH
Confidence 87644443333
No 188
>PRK13808 adenylate kinase; Provisional
Probab=23.69 E-value=81 Score=25.64 Aligned_cols=29 Identities=7% Similarity=0.149 Sum_probs=23.2
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
+.|+||-.+--.-.-..++..++++||+.
T Consensus 3 Iiv~GpPGSGK~T~a~~LA~~ygl~~is~ 31 (333)
T PRK13808 3 LILLGPPGAGKGTQAQRLVQQYGIVQLST 31 (333)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCceecc
Confidence 56789877766666677889999999985
No 189
>PLN02748 tRNA dimethylallyltransferase
Probab=23.58 E-value=93 Score=26.52 Aligned_cols=30 Identities=13% Similarity=0.239 Sum_probs=26.5
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCCCCeee
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFIT 46 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~IP~Is 46 (126)
.+++|+||+.+--+.....++..++.+.|+
T Consensus 23 ~~i~i~GptgsGKs~la~~la~~~~~eii~ 52 (468)
T PLN02748 23 KVVVVMGPTGSGKSKLAVDLASHFPVEIIN 52 (468)
T ss_pred CEEEEECCCCCCHHHHHHHHHHhcCeeEEc
Confidence 479999999998888888999999999996
No 190
>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=23.57 E-value=3.5e+02 Score=20.85 Aligned_cols=59 Identities=14% Similarity=0.107 Sum_probs=38.9
Q ss_pred CCCcEEEEcCCCc---chHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHHHHH
Q psy2801 15 SRGVFSMLGAVSP---DSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAIIDT 78 (126)
Q Consensus 15 ~~gv~AIiGp~~s---~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai~dl 78 (126)
++|+-+||-.+.. ..+..+...|...+||++-+..+.... .. .-.+....++.+|...+
T Consensus 64 ~~~i~~vIDATHPfA~~is~na~~a~~~~~ipylR~eRp~~~~----~~-~~~~~~v~~~~eA~~~l 125 (249)
T PF02571_consen 64 ENGIDAVIDATHPFAAEISQNAIEACRELGIPYLRFERPSWQP----EP-DDNWHYVDSYEEAAELL 125 (249)
T ss_pred hCCCcEEEECCCchHHHHHHHHHHHHhhcCcceEEEEcCCccc----CC-CCeEEEeCCHHHHHHHH
Confidence 4589999987777 455778889999999999877764311 10 11255556665554444
No 191
>PRK05066 arginine repressor; Provisional
Probab=23.56 E-value=2.7e+02 Score=20.04 Aligned_cols=50 Identities=14% Similarity=-0.028 Sum_probs=35.8
Q ss_pred EEeeCCHHHHHHHHHHHcCCc--EEEEEEeCCCccccC---CChHHHHHHHHhhc
Q psy2801 65 ISMRPDYHQAIIDTVKYYGWK--NIIYMYDSHDEMFYE---GSPEFLRVFCHEKL 114 (126)
Q Consensus 65 ~~~~P~~~~Ai~dli~~f~W~--~v~iiY~dd~gl~~~---~~l~~l~~~l~~~~ 114 (126)
+.+.|..+++++.++...+|. -++.|..||.=+... ...+.+..++.+-+
T Consensus 98 IkT~pG~A~~va~~iD~~~~~~~IlGTIAGdDTilVi~~~~~~a~~l~~~l~~~l 152 (156)
T PRK05066 98 IHTSPGAAQLIARLLDSLGKAEGILGTIAGDDTIFITPASGFTIKELLEAILELF 152 (156)
T ss_pred EEcCCChHHHHHHHHHcCCCCCCeEEEEecCCEEEEEECCHHHHHHHHHHHHHHH
Confidence 666688999999999999993 788888877655443 33445555555543
No 192
>PRK05426 peptidyl-tRNA hydrolase; Provisional
Probab=23.39 E-value=1.2e+02 Score=22.58 Aligned_cols=48 Identities=17% Similarity=0.327 Sum_probs=36.4
Q ss_pred EEeeCC-H----HHHHHHHHHHcCC--cEEEEEEeCCC---cccc---------CCChHHHHHHHHh
Q psy2801 65 ISMRPD-Y----HQAIIDTVKYYGW--KNIIYMYDSHD---EMFY---------EGSPEFLRVFCHE 112 (126)
Q Consensus 65 ~~~~P~-~----~~Ai~dli~~f~W--~~v~iiY~dd~---gl~~---------~~~l~~l~~~l~~ 112 (126)
+-+.|. + .+++..++++|+. ..+.+||||=| |..+ =.++.++.+.|..
T Consensus 59 ~L~kP~TyMN~SG~~V~~~~~~~~i~~~~ilVihDdldl~~G~~r~k~gGs~~GHNGlkSI~~~lgt 125 (189)
T PRK05426 59 ILLKPQTYMNLSGKAVAALANFYKIPPEDILVIHDDLDLPPGKIRLKKGGGAGGHNGLKSIIAHLGT 125 (189)
T ss_pred EEEeCCcchhcCcHHHHHHHHHhCCCHHHEEEEEecCCCCCceEEEecCCCCCCcCCHHHHHHHhCC
Confidence 334476 3 8999999999999 66999999844 5544 3678888888875
No 193
>PF04028 DUF374: Domain of unknown function (DUF374); InterPro: IPR007172 This is a bacterial domain of unknown function.
Probab=23.31 E-value=1.2e+02 Score=18.99 Aligned_cols=49 Identities=10% Similarity=0.007 Sum_probs=33.9
Q ss_pred ceEEeeCCH-HHHHHHHHHHcCCcEEEEEEeCCCccccCCChHHHHHHHHhhcC
Q psy2801 63 YAISMRPDY-HQAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLN 115 (126)
Q Consensus 63 f~~~~~P~~-~~Ai~dli~~f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~~~~ 115 (126)
...=+.++. .+-+++++++||++-|-- + ...-+...+..|.++|++..+
T Consensus 12 ~~~lvS~s~DGe~ia~~~~~~G~~~iRG--S--s~rgg~~Alr~~~~~lk~G~~ 61 (74)
T PF04028_consen 12 IAALVSRSRDGELIARVLERFGFRTIRG--S--SSRGGARALREMLRALKEGYS 61 (74)
T ss_pred EEEEEccCcCHHHHHHHHHHcCCCeEEe--C--CCCcHHHHHHHHHHHHHCCCe
Confidence 333344554 899999999999987654 2 344456678888888886544
No 194
>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=23.19 E-value=3e+02 Score=19.98 Aligned_cols=70 Identities=10% Similarity=0.009 Sum_probs=38.5
Q ss_pred CCCcEEEEc-CCCcc-hHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHH--cCCcEE
Q psy2801 15 SRGVFSMLG-AVSPD-SFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKY--YGWKNI 87 (126)
Q Consensus 15 ~~gv~AIiG-p~~s~-~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~--f~W~~v 87 (126)
.+++-+||. +.+.. ....+.. +...+||.|......+ . ..+ -.+.++ .++.+++.+.. -|-+++
T Consensus 53 ~~~vdgii~~~~~~~~~~~~i~~-~~~~~ipvV~~~~~~~----~---~~~-~~V~~d~~~~g~~~~~~l~~~~~g~~~i 123 (273)
T cd06305 53 AQKVDAIIIQHGRAEVLKPWVKR-ALDAGIPVVAFDVDSD----N---PKV-NNTTQDDYSLARLSLDQLVKDLGGKGNV 123 (273)
T ss_pred HcCCCEEEEecCChhhhHHHHHH-HHHcCCCEEEecCCCC----C---Ccc-ceeeechHHHHHHHHHHHHHHhCCCCCE
Confidence 446655554 33322 3344444 5678999998765421 1 111 234444 25555555554 589999
Q ss_pred EEEEeC
Q psy2801 88 IYMYDS 93 (126)
Q Consensus 88 ~iiY~d 93 (126)
+++...
T Consensus 124 ~~i~~~ 129 (273)
T cd06305 124 GYVNVA 129 (273)
T ss_pred EEEEcc
Confidence 999754
No 195
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=22.91 E-value=49 Score=31.07 Aligned_cols=38 Identities=13% Similarity=0.144 Sum_probs=28.5
Q ss_pred hHHHHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCC
Q psy2801 6 FFVSVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMP 43 (126)
Q Consensus 6 f~~~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP 43 (126)
|...+--.+..|+.||+||..|.-++++..++=.++..
T Consensus 14 F~~~~~i~f~~~~t~IvGPNGSGKSNI~DAi~fVLG~~ 51 (1163)
T COG1196 14 FADPTEINFSPGFTAIVGPNGSGKSNIVDAIRFVLGEQ 51 (1163)
T ss_pred CCCCeeeecCCCCeEEECCCCCchHHHHHHHHHHhCcc
Confidence 33333344578999999999999998888887766665
No 196
>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=22.86 E-value=1e+02 Score=23.15 Aligned_cols=28 Identities=7% Similarity=0.106 Sum_probs=21.9
Q ss_pred ccCCCcEEEEcCCCcchHHHHHHhhCcC
Q psy2801 13 QFSRGVFSMLGAVSPDSFDTFHSYSNTF 40 (126)
Q Consensus 13 ~~~~gv~AIiGp~~s~~~~~v~si~~~~ 40 (126)
.+..|+.+|+||+.+--+.++..++..+
T Consensus 22 ~~~~~~~~IvG~NGsGKStll~Ai~~ll 49 (251)
T cd03273 22 GFDPQFNAITGLNGSGKSNILDAICFVL 49 (251)
T ss_pred cCCCCeEEEECCCCCCHHHHHHHHHHHh
Confidence 3467999999999997777777776543
No 197
>PLN02459 probable adenylate kinase
Probab=22.84 E-value=99 Score=24.24 Aligned_cols=30 Identities=17% Similarity=0.169 Sum_probs=22.7
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
+.|+||-.+.-.-.-+.++..++++||+.+
T Consensus 32 ii~~G~PGsGK~T~a~~la~~~~~~~is~g 61 (261)
T PLN02459 32 WVFLGCPGVGKGTYASRLSKLLGVPHIATG 61 (261)
T ss_pred EEEECCCCCCHHHHHHHHHHHhCCcEEeCc
Confidence 566787777555556788889999999854
No 198
>PF08854 DUF1824: Domain of unknown function (DUF1824); InterPro: IPR014953 This uncharacterised group of proteins are principally found in cyanobacteria. ; PDB: 2Q22_B.
Probab=22.79 E-value=70 Score=22.44 Aligned_cols=29 Identities=14% Similarity=0.061 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHcCCcEEEEEEeCCC-cccc
Q psy2801 71 YHQAIIDTVKYYGWKNIIYMYDSHD-EMFY 99 (126)
Q Consensus 71 ~~~Ai~dli~~f~W~~v~iiY~dd~-gl~~ 99 (126)
+-+++..++....|..++|+.++.+ |+.+
T Consensus 24 Lr~~L~~~~~~sd~~~lGIcA~s~~~ai~A 53 (125)
T PF08854_consen 24 LRQALRLLASNSDWFTLGICAPSAEEAIAA 53 (125)
T ss_dssp HHHHHHHHHHTSSEEEEEEEESSHHHHHHH
T ss_pred HHHHHHHHHhccCceEEEeecCCHHHHHHH
Confidence 4788888888899999999988763 5544
No 199
>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=22.59 E-value=93 Score=25.41 Aligned_cols=24 Identities=13% Similarity=0.311 Sum_probs=19.2
Q ss_pred CCcEEEEcCCCcchHHHHHHhhCc
Q psy2801 16 RGVFSMLGAVSPDSFDTFHSYSNT 39 (126)
Q Consensus 16 ~gv~AIiGp~~s~~~~~v~si~~~ 39 (126)
.||.|+||++.+--+..+.-+++.
T Consensus 24 ~GvTAlFG~SGsGKTslin~IaGL 47 (352)
T COG4148 24 RGITALFGPSGSGKTSLINMIAGL 47 (352)
T ss_pred CceEEEecCCCCChhhHHHHHhcc
Confidence 499999999999777766666654
No 200
>COG3919 Predicted ATP-grasp enzyme [General function prediction only]
Probab=22.05 E-value=3.4e+02 Score=22.44 Aligned_cols=82 Identities=11% Similarity=0.087 Sum_probs=50.1
Q ss_pred EEEEcCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCc-eEEee---CC---HHHHHHHHHHHcCCcEEEEEE
Q psy2801 19 FSMLGAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDY-AISMR---PD---YHQAIIDTVKYYGWKNIIYMY 91 (126)
Q Consensus 19 ~AIiGp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f-~~~~~---P~---~~~Ai~dli~~f~W~~v~iiY 91 (126)
+.|+|+.... .+++.=.+...||....+.+.+.. . ...| .++++ |+ ....+.|+...-|=+..-+|.
T Consensus 6 viilGgahgt--lalARSfg~~~vpv~~ls~d~plP--t--~Sr~vr~t~~w~gphd~gaiafLrd~Aekhglkg~LLva 79 (415)
T COG3919 6 VIILGGAHGT--LALARSFGEEFVPVLALSADGPLP--T--YSRIVRVTTHWNGPHDEGAIAFLRDFAEKHGLKGYLLVA 79 (415)
T ss_pred eEEEcccchh--HHHHHhhccccceEEEEecCCCCc--c--hhhhheeeeccCCCCcccHHHHHHHHHhhcCcCceEEEe
Confidence 3467765543 334444455559999776665421 1 2223 24555 55 477888888888999999888
Q ss_pred eCC-CccccCCChHHH
Q psy2801 92 DSH-DEMFYEGSPEFL 106 (126)
Q Consensus 92 ~dd-~gl~~~~~l~~l 106 (126)
..| +-+...+.-+.|
T Consensus 80 ~GDgev~lvSq~reeL 95 (415)
T COG3919 80 CGDGEVLLVSQYREEL 95 (415)
T ss_pred cCCceeeehHhhHHHH
Confidence 876 456665554444
No 201
>PRK13477 bifunctional pantoate ligase/cytidylate kinase; Provisional
Probab=21.94 E-value=93 Score=26.81 Aligned_cols=31 Identities=3% Similarity=0.186 Sum_probs=27.1
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
-++||.||+.+.-+.....++..+++++++.
T Consensus 285 ~ii~i~G~sgsGKst~a~~la~~l~~~~~d~ 315 (512)
T PRK13477 285 PIIAIDGPAGAGKSTVTRAVAKKLGLLYLDT 315 (512)
T ss_pred cEEEEECCCCCCHHHHHHHHHHHcCCeEecC
Confidence 4789999999988888899999999999863
No 202
>cd00755 YgdL_like Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=21.79 E-value=3.6e+02 Score=20.45 Aligned_cols=70 Identities=11% Similarity=0.108 Sum_probs=44.1
Q ss_pred EEEcC-CCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeC-------CHHHHHHHHHHHcCCc-EEEEE
Q psy2801 20 SMLGA-VSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRP-------DYHQAIIDTVKYYGWK-NIIYM 90 (126)
Q Consensus 20 AIiGp-~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P-------~~~~Ai~dli~~f~W~-~v~ii 90 (126)
.||.. .+...-..+...|...+||+|+....-. ...+..+++.. ++++.+..-++.-+=+ .+.+|
T Consensus 105 ~VvdaiD~~~~k~~L~~~c~~~~ip~I~s~g~g~------~~dp~~i~i~di~~t~~~pla~~~R~~Lrk~~~~~~~~~v 178 (231)
T cd00755 105 FVVDAIDSIRAKVALIAYCRKRKIPVISSMGAGG------KLDPTRIRVADISKTSGDPLARKVRKRLRKRGIFFGVPVV 178 (231)
T ss_pred EEEEcCCCHHHHHHHHHHHHHhCCCEEEEeCCcC------CCCCCeEEEccEeccccCcHHHHHHHHHHHcCCCCCeEEE
Confidence 34433 4445556788999999999996432211 01123333331 2688888888876554 69999
Q ss_pred EeCCC
Q psy2801 91 YDSHD 95 (126)
Q Consensus 91 Y~dd~ 95 (126)
|++..
T Consensus 179 ~S~E~ 183 (231)
T cd00755 179 YSTEP 183 (231)
T ss_pred eCCCC
Confidence 99764
No 203
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=21.76 E-value=2.2e+02 Score=18.01 Aligned_cols=30 Identities=10% Similarity=0.075 Sum_probs=22.6
Q ss_pred EEEE-cCCCcchHHHHHHhhCcCCCCeeeec
Q psy2801 19 FSML-GAVSPDSFDTFHSYSNTFQMPFITPW 48 (126)
Q Consensus 19 ~AIi-Gp~~s~~~~~v~si~~~~~IP~Is~~ 48 (126)
..|+ ...+......+..+|+..+||.+.+.
T Consensus 30 lViiA~D~~~~~~~~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 30 EVVVAEDADPRLTEKVEALANEKGVPVSKVD 60 (82)
T ss_pred EEEEECCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence 3344 55555667788999999999999765
No 204
>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=21.67 E-value=3.5e+02 Score=20.18 Aligned_cols=91 Identities=13% Similarity=-0.042 Sum_probs=43.9
Q ss_pred CCCcEEE-EcCCCcch-HHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHc------C
Q psy2801 15 SRGVFSM-LGAVSPDS-FDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYY------G 83 (126)
Q Consensus 15 ~~gv~AI-iGp~~s~~-~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f------~ 83 (126)
.+++-+| +.+.+... ...++. +...++|.|......+ .. ...+ .+..+ .++..++.+... |
T Consensus 53 ~~~vdgiii~~~~~~~~~~~l~~-l~~~~ipvV~~~~~~~----~~-~~~~--~v~~d~~~~g~~~~~~l~~~~~~~~~g 124 (288)
T cd01538 53 AKGVDVLVIAPVDGEALASAVEK-AADAGIPVIAYDRLIL----NS-NVDY--YVSFDNEKVGELQGQALVDGLGAKGKP 124 (288)
T ss_pred HcCCCEEEEecCChhhHHHHHHH-HHHCCCCEEEECCCCC----CC-Ccce--EEEeChHHHHHHHHHHHHHHHhhcCCC
Confidence 3444433 34444332 344444 5568999998765422 11 1122 23344 244444444444 7
Q ss_pred CcEEEEEEeCCCccccCCChHHHHHHHHhh
Q psy2801 84 WKNIIYMYDSHDEMFYEGSPEFLRVFCHEK 113 (126)
Q Consensus 84 W~~v~iiY~dd~gl~~~~~l~~l~~~l~~~ 113 (126)
=++++++..+.+......-.+.+++.+.+.
T Consensus 125 ~~~i~~l~g~~~~~~~~~R~~gf~~~l~~~ 154 (288)
T cd01538 125 PGNIELIAGSPTDNNAKLFFNGAMSVLKPL 154 (288)
T ss_pred CceEEEEECCCCCchHHHHHHHHHHHHHhc
Confidence 789999875433112222234445555543
No 205
>PRK03731 aroL shikimate kinase II; Reviewed
Probab=21.53 E-value=1.1e+02 Score=21.21 Aligned_cols=30 Identities=10% Similarity=0.129 Sum_probs=24.6
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
.+.++|+..+.-+..-..++..+++|++..
T Consensus 4 ~i~~~G~~GsGKst~~~~la~~lg~~~~d~ 33 (171)
T PRK03731 4 PLFLVGARGCGKTTVGMALAQALGYRFVDT 33 (171)
T ss_pred eEEEECCCCCCHHHHHHHHHHHhCCCEEEc
Confidence 467889888877777788888899999963
No 206
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=21.53 E-value=92 Score=23.21 Aligned_cols=29 Identities=7% Similarity=0.217 Sum_probs=24.2
Q ss_pred cEEEEcCCCcchHHHHHHhhCcCCCCeee
Q psy2801 18 VFSMLGAVSPDSFDTFHSYSNTFQMPFIT 46 (126)
Q Consensus 18 v~AIiGp~~s~~~~~v~si~~~~~IP~Is 46 (126)
+++|-||..|..+-.-..+++.++.|+++
T Consensus 2 ~ItIsG~pGsG~TTva~~lAe~~gl~~vs 30 (179)
T COG1102 2 VITISGLPGSGKTTVARELAEHLGLKLVS 30 (179)
T ss_pred EEEeccCCCCChhHHHHHHHHHhCCceee
Confidence 46788888887777778888999999998
No 207
>PF09949 DUF2183: Uncharacterized conserved protein (DUF2183); InterPro: IPR019236 This domain, found in various bacterial and fungal proteins, has no known function.
Probab=21.42 E-value=1.6e+02 Score=19.55 Aligned_cols=81 Identities=6% Similarity=-0.011 Sum_probs=48.8
Q ss_pred cCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeC---C-HHHHHHHHHHHcCCcEEEEEEeCCCccc
Q psy2801 23 GAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRP---D-YHQAIIDTVKYYGWKNIIYMYDSHDEMF 98 (126)
Q Consensus 23 Gp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P---~-~~~Ai~dli~~f~W~~v~iiY~dd~gl~ 98 (126)
..+.+.....+.++....+.|.=+.-..+- .....-.+.+ + ....|..|++.|-.+++++|.|+.+.-
T Consensus 6 S~SPwnly~~l~~Fl~~~~~P~G~~~Lr~~-------~~~~~~~~~~~~~~~K~~~i~~i~~~fP~~kfiLIGDsgq~D- 77 (100)
T PF09949_consen 6 SNSPWNLYPFLRDFLRRNGFPAGPLLLRDY-------GPSLSGLFKSGAEEHKRDNIERILRDFPERKFILIGDSGQHD- 77 (100)
T ss_pred cCCHHHHHHHHHHHHHhcCCCCCceEcccC-------CccccccccCCchhHHHHHHHHHHHHCCCCcEEEEeeCCCcC-
Confidence 344456667788888888787664322210 0011111111 1 378999999999999999999987532
Q ss_pred cCCChHHHHHHHHhhcCc
Q psy2801 99 YEGSPEFLRVFCHEKLNI 116 (126)
Q Consensus 99 ~~~~l~~l~~~l~~~~~~ 116 (126)
..+|.-+-++.+-
T Consensus 78 -----peiY~~ia~~~P~ 90 (100)
T PF09949_consen 78 -----PEIYAEIARRFPG 90 (100)
T ss_pred -----HHHHHHHHHHCCC
Confidence 2445555555543
No 208
>cd02406 CRS2 Chloroplast RNA splicing 2 (CRS2) is a nuclear-encoded protein required for the splicing of group II introns in the chloroplast. CRS2 forms stable complexes with two CRS2-associated factors, CAF1 and CAF2, which are required for the splicing of distinct subsets of CRS2-dependent introns. CRS2 is closely related to bacterial peptidyl-tRNA hydrolases (PTH).
Probab=21.40 E-value=99 Score=23.13 Aligned_cols=81 Identities=15% Similarity=0.206 Sum_probs=48.1
Q ss_pred hHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC-H----HHHHHHHHHHcCC--cEEEEEEeCCC---ccc
Q psy2801 29 SFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD-Y----HQAIIDTVKYYGW--KNIIYMYDSHD---EMF 98 (126)
Q Consensus 29 ~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~-~----~~Ai~dli~~f~W--~~v~iiY~dd~---gl~ 98 (126)
....+..+++.++++.=............-. ..-.+-+.|. + .+|+..++.+|+. ..+.+||||=| |..
T Consensus 23 Gf~vld~La~~~~~~~~~~k~~~~~~~~~~~-~~~v~L~kP~TyMN~SG~aV~~~~~~yki~~~~ilVihDdldl~~G~i 101 (191)
T cd02406 23 GFEMVDRIAEAEGITMNTIQFKSLLGIGSIG-DVPVLLAKPQTYMNYSGESVGPLAAYYKVPLRHILVIYDDMSLPNGVL 101 (191)
T ss_pred HHHHHHHHHHHcCCCccccccceEEEEEEEC-CeEEEEEeCCCchhcCHHHHHHHHHHhCCCHHHEEEEEECCCCCCCeE
Confidence 3466777888887763210000000000000 1123445576 2 9999999999998 46999999844 544
Q ss_pred c---------CCChHHHHHHH
Q psy2801 99 Y---------EGSPEFLRVFC 110 (126)
Q Consensus 99 ~---------~~~l~~l~~~l 110 (126)
+ =.++.++.+.|
T Consensus 102 rlk~gGs~gGHNGlkSI~~~L 122 (191)
T cd02406 102 RLQPKGGHGRHNGLQSVIEHL 122 (191)
T ss_pred EEcCCCCCCCcCCHHHHHHHh
Confidence 3 36788888888
No 209
>PRK13946 shikimate kinase; Provisional
Probab=21.33 E-value=1.3e+02 Score=21.45 Aligned_cols=31 Identities=10% Similarity=0.276 Sum_probs=26.0
Q ss_pred CcEEEEcCCCcchHHHHHHhhCcCCCCeeee
Q psy2801 17 GVFSMLGAVSPDSFDTFHSYSNTFQMPFITP 47 (126)
Q Consensus 17 gv~AIiGp~~s~~~~~v~si~~~~~IP~Is~ 47 (126)
..+.++|+..+--+..-+.++..+++|++..
T Consensus 11 ~~I~l~G~~GsGKsti~~~LA~~Lg~~~id~ 41 (184)
T PRK13946 11 RTVVLVGLMGAGKSTVGRRLATMLGLPFLDA 41 (184)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHcCCCeECc
Confidence 4578899888888888888899999999963
No 210
>cd06316 PBP1_ABC_sugar_binding_like_7 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=21.10 E-value=3.6e+02 Score=20.10 Aligned_cols=70 Identities=17% Similarity=0.118 Sum_probs=38.2
Q ss_pred EEcCCCcc-hHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC-H--HHHHHHHHHHc--CCcEEEEEEeCC
Q psy2801 21 MLGAVSPD-SFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD-Y--HQAIIDTVKYY--GWKNIIYMYDSH 94 (126)
Q Consensus 21 IiGp~~s~-~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~-~--~~Ai~dli~~f--~W~~v~iiY~dd 94 (126)
|+.|.+.. ....+.. +...+||.|......+.. . ....+.-.+.++ . .+.+++.+... |=++++++..+.
T Consensus 61 ii~~~~~~~~~~~i~~-~~~~~iPvV~~~~~~~~~--~-~~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~ 136 (294)
T cd06316 61 ISIPVDPVSTAAAYKK-VAEAGIKLVFMDNVPSGL--E-HGKDYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGA 136 (294)
T ss_pred EEcCCCchhhhHHHHH-HHHcCCcEEEecCCCccc--c-cCcceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCC
Confidence 34555443 2344555 456899999766542200 1 011233334555 2 66666666655 778999996543
No 211
>PF04468 PSP1: PSP1 C-terminal conserved region; InterPro: IPR007557 The yeast polymerase suppressor 1 (PSP1) protein partially suppresses mutations in DNA polymerases alpha and delta []. The C-terminal half of PSP1 contains a domain, which is also found in several hypothetical proteins from both eukaryotic and prokaryotic sources: Crithidia fasciculata RBP45 and RBP33, subunits of the cycling sequence binding protein (CSBP) II. RBP45 and RBP33 proteins bind specifically to the cycling sequences present in several mRNAs that accumulate periodically during the cell cycle. RBP45 and RBP33 are phosphoproteins, which are phosphorylated differentially during progression through the cell cycle. Hypothetical proteins with high sequence similarity have been identified in other kinetoplastid organisms []. Bacillus subtilis yaaT protein, which plays a significant role in phosphorelay during initiation of sporulation. It is possible that the yaaT protein is also related to DNA replication. The sequence of the yaaT protein is widely conserved in prokaryotes (bacteria and archaea), but the functions of the protein are unknown []. The actual biological significance of the PSP1 C-terminal domain has not yet been clearly established.
Probab=21.02 E-value=2.2e+02 Score=18.27 Aligned_cols=34 Identities=6% Similarity=0.050 Sum_probs=17.8
Q ss_pred cCCcEEEEEEeCCCccccCCChHHHHHHHHhhcCcccc
Q psy2801 82 YGWKNIIYMYDSHDEMFYEGSPEFLRVFCHEKLNISVW 119 (126)
Q Consensus 82 f~W~~v~iiY~dd~gl~~~~~l~~l~~~l~~~~~~~~~ 119 (126)
|+.+++++.|..++- ..+..|.+.|.+.+..-+|
T Consensus 51 ~D~~k~~fyy~a~~r----vDFR~Lvr~L~~~f~~RIe 84 (88)
T PF04468_consen 51 FDGSKLTFYYTAESR----VDFRELVRDLAREFKTRIE 84 (88)
T ss_pred cCCCEEEEEEEeCCc----CcHHHHHHHHHHHhCceEE
Confidence 555666666553321 3455555555555554444
No 212
>PRK13814 pyrB aspartate carbamoyltransferase catalytic subunit; Provisional
Probab=21.00 E-value=1.9e+02 Score=23.19 Aligned_cols=81 Identities=11% Similarity=0.178 Sum_probs=45.2
Q ss_pred chhhhHH-HHhhccCCCcEEEEcCCC-cchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCHHHHH--HH
Q psy2801 2 IQNVFFV-SVCNQFSRGVFSMLGAVS-PDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDYHQAI--ID 77 (126)
Q Consensus 2 ~~~~f~~-~~C~~~~~gv~AIiGp~~-s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~~~Ai--~d 77 (126)
|+|.|+- ..-..++.-.+|++|+.. +..+..+...+..+++..+....|.... +.. .....+....+..+|+ +|
T Consensus 142 LaDl~Ti~e~~g~l~g~~va~vGD~~~~rv~~Sl~~~~a~~g~~~v~~~~P~~~~-p~~-~~~~~~~~~~d~~ea~~~aD 219 (310)
T PRK13814 142 LIDLMTIKQHKPHWNKLCVTIIGDIRHSRVANSLMDGLVTMGVPEIRLVGPSSLL-PDK-VGNDSIKKFTELKPSLLNSD 219 (310)
T ss_pred HHHHHHHHHHhCCcCCcEEEEECCCCCCcHHHHHHHHHHHcCCCEEEEeCCcccC-cCc-cccceEEEEcCHHHHhCCCC
Confidence 5566632 222223334689999874 5666666777888998767655554322 111 1113466667776666 44
Q ss_pred HHHHcCC
Q psy2801 78 TVKYYGW 84 (126)
Q Consensus 78 li~~f~W 84 (126)
+|---.|
T Consensus 220 vvy~~~~ 226 (310)
T PRK13814 220 VIVTLRL 226 (310)
T ss_pred EEEECcc
Confidence 4443444
No 213
>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=20.57 E-value=3.4e+02 Score=19.59 Aligned_cols=89 Identities=11% Similarity=0.038 Sum_probs=47.7
Q ss_pred ccCCCcEEEE--cCCCcchHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCC---HHHHHHHHHHHcCCcEE
Q psy2801 13 QFSRGVFSML--GAVSPDSFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPD---YHQAIIDTVKYYGWKNI 87 (126)
Q Consensus 13 ~~~~gv~AIi--Gp~~s~~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~---~~~Ai~dli~~f~W~~v 87 (126)
....++-||| +.... ...+. .+...+||.|......+ . ... -.+.++ .++.+++.+...|=+++
T Consensus 51 l~~~~vdgiii~~~~~~--~~~~~-~l~~~~ipvV~~~~~~~----~-~~~---~~v~~d~~~~~~~~~~~l~~~g~~~i 119 (268)
T cd06298 51 LLAKQVDGIIFMGGKIS--EEHRE-EFKRSPTPVVLAGSVDE----D-NEL---PSVNIDYKKAAFEATELLIKNGHKKI 119 (268)
T ss_pred HHHhcCCEEEEeCCCCc--HHHHH-HHhcCCCCEEEEccccC----C-CCC---CEEEECcHHHHHHHHHHHHHcCCceE
Confidence 3345665555 43222 22333 35567999998765321 1 111 134555 26666777666788999
Q ss_pred EEEEeCCC-ccccCCChHHHHHHHHh
Q psy2801 88 IYMYDSHD-EMFYEGSPEFLRVFCHE 112 (126)
Q Consensus 88 ~iiY~dd~-gl~~~~~l~~l~~~l~~ 112 (126)
+++..... ......-.+-+++.+.+
T Consensus 120 ~~l~~~~~~~~~~~~r~~gf~~~~~~ 145 (268)
T cd06298 120 AFISGPLEDSINGDERLAGYKEALSE 145 (268)
T ss_pred EEEeCCcccccchhHHHHHHHHHHHH
Confidence 99975443 33333334445555544
No 214
>PRK08099 bifunctional DNA-binding transcriptional repressor/ NMN adenylyltransferase; Provisional
Probab=20.56 E-value=1.4e+02 Score=24.64 Aligned_cols=37 Identities=16% Similarity=0.198 Sum_probs=29.0
Q ss_pred HHhhccCCCcEEEEcCCCcchHHHHHHhhCcCCCCee
Q psy2801 9 SVCNQFSRGVFSMLGAVSPDSFDTFHSYSNTFQMPFI 45 (126)
Q Consensus 9 ~~C~~~~~gv~AIiGp~~s~~~~~v~si~~~~~IP~I 45 (126)
..|...-...++|+|+.++--+-.++.++..++.+.+
T Consensus 212 ~~vr~~~~~~IvI~G~~gsGKTTL~~~La~~~g~~~v 248 (399)
T PRK08099 212 TEVRPFFVRTVAILGGESSGKSTLVNKLANIFNTTSA 248 (399)
T ss_pred HHHhhCCCcEEEEEcCCCCCHHHHHHHHHHHhCCCee
Confidence 3455555567899999999888888999988888865
No 215
>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=20.48 E-value=3.4e+02 Score=19.63 Aligned_cols=71 Identities=11% Similarity=0.047 Sum_probs=38.4
Q ss_pred CCCcEEE-EcCCCcc-hHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCH---HHHHHHHHHHc--CCcEE
Q psy2801 15 SRGVFSM-LGAVSPD-SFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDY---HQAIIDTVKYY--GWKNI 87 (126)
Q Consensus 15 ~~gv~AI-iGp~~s~-~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~---~~Ai~dli~~f--~W~~v 87 (126)
++++-+| +.|.+.. ....+.. +...+||.|....+.+ .....-.+.++. +...++.+... |=+++
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~-~~~~~ipvV~~~~~~~-------~~~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i 124 (267)
T cd06322 53 TKKVDAIVLSPVDSKGIRAAIAK-AKKAGIPVITVDIAAE-------GVAVVSHVATDNYAGGVLAGELAAKVLNGKGQV 124 (267)
T ss_pred HcCCCEEEEcCCChhhhHHHHHH-HHHCCCCEEEEcccCC-------CCceEEEEecChHHHHHHHHHHHHHHhCCCceE
Confidence 4455444 3344433 2344555 4568999998754321 111223455652 45555555543 77899
Q ss_pred EEEEeC
Q psy2801 88 IYMYDS 93 (126)
Q Consensus 88 ~iiY~d 93 (126)
++++..
T Consensus 125 ~~i~~~ 130 (267)
T cd06322 125 AIIDYP 130 (267)
T ss_pred EEEecC
Confidence 999753
No 216
>PF04131 NanE: Putative N-acetylmannosamine-6-phosphate epimerase; InterPro: IPR007260 This family represents a putative ManNAc-6-P-to-GlcNAc-6P epimerase in the N-acetylmannosamine (ManNAc) utilization pathway found mainly in pathogenic bacteria for the reaction: N-acyl-D-glucosamine 6-phosphate = N-acyl-D-mannosamine 6-phosphate It is probably encoded by the yhcJ gene [].; GO: 0047465 N-acylglucosamine-6-phosphate 2-epimerase activity, 0006051 N-acetylmannosamine metabolic process; PDB: 1Y0E_B 3IGS_A 1YXY_A 3Q58_B.
Probab=20.47 E-value=2.5e+02 Score=21.12 Aligned_cols=71 Identities=13% Similarity=0.108 Sum_probs=43.0
Q ss_pred hHHHHHHhhCcCCCCeeeecCCCCCCCCCCCCCCceEEeeCCH--HHHHHHHHHHcCCcEEEEEEeCCCccccCCChHHH
Q psy2801 29 SFDTFHSYSNTFQMPFITPWFPEKVLAPSSGFLDYAISMRPDY--HQAIIDTVKYYGWKNIIYMYDSHDEMFYEGSPEFL 106 (126)
Q Consensus 29 ~~~~v~si~~~~~IP~Is~~~~~~~~~~~~~~~~f~~~~~P~~--~~Ai~dli~~f~W~~v~iiY~dd~gl~~~~~l~~l 106 (126)
+...+..+-...++|.|-.+-. +...+.+...|.+ .+++++- -.-+|+-|.....+-.++..|
T Consensus 20 ~~~dI~aik~~v~lPIIGi~K~--------~y~~~~V~ITPT~~ev~~l~~a-------GadIIAlDaT~R~Rp~~l~~l 84 (192)
T PF04131_consen 20 GVEDIRAIKKAVDLPIIGIIKR--------DYPDSDVYITPTLKEVDALAEA-------GADIIALDATDRPRPETLEEL 84 (192)
T ss_dssp SHHHHHHHHTTB-S-EEEE-B---------SBTTSS--BS-SHHHHHHHHHC-------T-SEEEEE-SSSS-SS-HHHH
T ss_pred CHHHHHHHHHhcCCCEEEEEec--------cCCCCCeEECCCHHHHHHHHHc-------CCCEEEEecCCCCCCcCHHHH
Confidence 4577788888899999975422 2234668888985 6666664 455666676665555899999
Q ss_pred HHHHHhhc
Q psy2801 107 RVFCHEKL 114 (126)
Q Consensus 107 ~~~l~~~~ 114 (126)
++.+|++.
T Consensus 85 i~~i~~~~ 92 (192)
T PF04131_consen 85 IREIKEKY 92 (192)
T ss_dssp HHHHHHCT
T ss_pred HHHHHHhC
Confidence 99999876
Done!