Query 032216
Match_columns 145
No_of_seqs 131 out of 1197
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 11:09:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032216.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032216hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK12419 riboflavin synthase s 100.0 3.4E-29 7.4E-34 197.4 10.3 77 69-145 4-80 (158)
2 PLN02404 6,7-dimethyl-8-ribity 100.0 3.7E-29 8.1E-34 193.8 10.2 75 71-145 3-77 (141)
3 COG0054 RibH Riboflavin syntha 100.0 7.5E-29 1.6E-33 194.7 10.0 82 63-145 1-82 (152)
4 TIGR00114 lumazine-synth 6,7-d 100.0 4.1E-28 8.9E-33 187.0 9.4 70 76-145 1-70 (138)
5 PRK00061 ribH 6,7-dimethyl-8-r 99.9 1E-27 2.3E-32 187.4 10.1 79 66-145 4-82 (154)
6 PF00885 DMRL_synthase: 6,7-di 99.9 5.4E-27 1.2E-31 181.0 9.8 72 74-145 2-73 (144)
7 KOG3243 6,7-dimethyl-8-ribityl 99.9 3.7E-26 8.1E-31 178.3 7.7 87 59-145 1-87 (158)
8 PRK06455 riboflavin synthase; 99.9 4.8E-22 1E-26 156.7 8.9 66 76-145 2-67 (155)
9 TIGR01506 ribC_arch riboflavin 99.8 5E-19 1.1E-23 139.0 6.5 65 77-145 1-65 (151)
10 COG1731 Archaeal riboflavin sy 98.6 4.6E-08 1E-12 77.0 5.5 65 76-144 2-66 (154)
11 PRK11041 DNA-binding transcrip 95.7 0.058 1.3E-06 42.9 7.6 69 72-143 32-100 (309)
12 PF04392 ABC_sub_bind: ABC tra 95.5 0.12 2.6E-06 42.5 8.8 66 77-143 1-68 (294)
13 cd06270 PBP1_GalS_like Ligand 94.7 0.15 3.3E-06 39.5 7.0 60 78-143 2-64 (268)
14 cd06271 PBP1_AglR_RafR_like Li 94.7 0.16 3.4E-06 39.0 6.9 63 78-143 2-68 (268)
15 cd01536 PBP1_ABC_sugar_binding 94.4 0.21 4.6E-06 37.9 7.1 63 77-143 1-64 (267)
16 cd01537 PBP1_Repressors_Sugar_ 94.4 0.26 5.6E-06 37.0 7.4 63 77-143 1-64 (264)
17 cd06297 PBP1_LacI_like_12 Liga 94.1 0.3 6.5E-06 38.4 7.6 63 78-143 2-64 (269)
18 cd06305 PBP1_methylthioribose_ 94.1 0.24 5.3E-06 38.3 6.9 60 77-142 1-63 (273)
19 PF13377 Peripla_BP_3: Peripla 94.0 0.29 6.2E-06 35.3 6.6 66 75-141 9-75 (160)
20 cd06292 PBP1_LacI_like_10 Liga 93.9 0.31 6.8E-06 37.8 7.2 62 78-143 2-64 (273)
21 TIGR01481 ccpA catabolite cont 93.8 0.41 8.8E-06 38.6 8.0 67 73-143 57-124 (329)
22 cd01541 PBP1_AraR Ligand-bindi 93.8 0.39 8.5E-06 37.4 7.6 61 78-142 2-63 (273)
23 cd06284 PBP1_LacI_like_6 Ligan 93.6 0.34 7.4E-06 37.1 6.9 63 78-143 2-64 (267)
24 cd01391 Periplasmic_Binding_Pr 93.5 0.39 8.6E-06 35.2 6.8 63 77-143 1-67 (269)
25 cd06310 PBP1_ABC_sugar_binding 93.4 0.38 8.3E-06 37.3 6.8 62 77-142 1-65 (273)
26 cd06281 PBP1_LacI_like_5 Ligan 93.3 0.42 9E-06 37.3 7.0 64 77-143 1-64 (269)
27 cd01575 PBP1_GntR Ligand-bindi 93.3 0.53 1.2E-05 36.1 7.5 62 78-143 2-64 (268)
28 cd06320 PBP1_allose_binding Pe 93.2 0.47 1E-05 37.0 7.1 62 77-142 1-65 (275)
29 cd06317 PBP1_ABC_sugar_binding 93.1 0.55 1.2E-05 36.3 7.3 61 78-143 2-65 (275)
30 cd06296 PBP1_CatR_like Ligand- 93.1 0.42 9.2E-06 36.9 6.7 62 78-143 2-64 (270)
31 cd06301 PBP1_rhizopine_binding 93.1 0.45 9.9E-06 36.9 6.9 61 77-143 1-65 (272)
32 cd06293 PBP1_LacI_like_11 Liga 93.0 0.43 9.3E-06 37.1 6.7 64 77-143 1-64 (269)
33 cd06319 PBP1_ABC_sugar_binding 93.0 0.5 1.1E-05 36.6 7.1 62 77-142 1-63 (277)
34 cd06273 PBP1_GntR_like_1 This 92.8 0.55 1.2E-05 36.2 7.0 62 78-143 2-64 (268)
35 PRK09492 treR trehalose repres 92.7 0.66 1.4E-05 37.2 7.6 66 73-142 60-126 (315)
36 cd06316 PBP1_ABC_sugar_binding 92.7 0.61 1.3E-05 37.1 7.3 62 77-142 1-64 (294)
37 cd01545 PBP1_SalR Ligand-bindi 92.7 0.67 1.5E-05 35.7 7.3 63 78-143 2-65 (270)
38 cd06286 PBP1_CcpB_like Ligand- 92.6 0.71 1.5E-05 35.5 7.3 63 78-143 2-64 (260)
39 cd06291 PBP1_Qymf_like Ligand 92.6 0.69 1.5E-05 35.7 7.3 62 78-143 2-64 (265)
40 cd06318 PBP1_ABC_sugar_binding 92.6 0.65 1.4E-05 36.2 7.1 62 77-142 1-63 (282)
41 cd06280 PBP1_LacI_like_4 Ligan 92.6 0.66 1.4E-05 36.0 7.2 63 78-143 2-64 (263)
42 PRK10423 transcriptional repre 92.5 0.63 1.4E-05 37.4 7.2 67 73-143 54-121 (327)
43 cd06315 PBP1_ABC_sugar_binding 92.5 0.61 1.3E-05 37.1 7.0 63 77-143 2-65 (280)
44 cd06290 PBP1_LacI_like_9 Ligan 92.5 0.77 1.7E-05 35.5 7.4 60 78-143 2-64 (265)
45 cd06267 PBP1_LacI_sugar_bindin 92.4 1 2.2E-05 33.9 7.8 68 75-142 116-185 (264)
46 cd01574 PBP1_LacI Ligand-bindi 92.0 0.98 2.1E-05 34.7 7.5 62 78-143 2-65 (264)
47 cd01538 PBP1_ABC_xylose_bindin 92.0 0.86 1.9E-05 36.4 7.3 63 77-143 1-64 (288)
48 cd06298 PBP1_CcpA_like Ligand- 91.9 1 2.3E-05 34.6 7.5 61 77-143 1-64 (268)
49 cd06300 PBP1_ABC_sugar_binding 91.8 0.89 1.9E-05 35.4 7.1 63 77-142 1-68 (272)
50 cd01542 PBP1_TreR_like Ligand- 91.8 1.1 2.4E-05 34.4 7.5 60 78-143 2-64 (259)
51 cd06277 PBP1_LacI_like_1 Ligan 91.7 0.93 2E-05 35.2 7.0 63 78-143 2-67 (268)
52 cd06275 PBP1_PurR Ligand-bindi 91.6 1.1 2.4E-05 34.6 7.3 62 78-143 2-64 (269)
53 PF00532 Peripla_BP_1: Peripla 91.4 0.7 1.5E-05 37.9 6.4 66 74-141 117-187 (279)
54 PRK14987 gluconate operon tran 91.4 1.1 2.3E-05 36.5 7.4 65 74-143 62-128 (331)
55 cd06267 PBP1_LacI_sugar_bindin 91.3 1.3 2.7E-05 33.4 7.3 61 77-143 1-64 (264)
56 cd06283 PBP1_RegR_EndR_KdgR_li 91.3 1 2.3E-05 34.4 6.9 60 78-143 2-64 (267)
57 PRK10014 DNA-binding transcrip 91.1 1.6 3.5E-05 35.4 8.2 67 73-143 62-129 (342)
58 cd01539 PBP1_GGBP Periplasmic 91.1 1.1 2.3E-05 36.4 7.1 60 77-142 1-65 (303)
59 cd06278 PBP1_LacI_like_2 Ligan 91.0 1.1 2.4E-05 34.3 6.8 62 78-143 2-63 (266)
60 cd06282 PBP1_GntR_like_2 Ligan 91.0 1.3 2.9E-05 33.8 7.3 59 78-142 2-63 (266)
61 PRK10703 DNA-binding transcrip 91.0 1.3 2.7E-05 36.1 7.4 67 73-142 57-123 (341)
62 cd06306 PBP1_TorT-like TorT-li 90.9 1.1 2.3E-05 35.4 6.8 62 77-142 1-65 (268)
63 cd06307 PBP1_uncharacterized_s 90.9 1.4 3E-05 34.4 7.4 64 77-142 1-66 (275)
64 cd06323 PBP1_ribose_binding Pe 90.8 1.1 2.3E-05 34.4 6.5 59 78-142 2-63 (268)
65 PRK09701 D-allose transporter 90.8 1.4 3.1E-05 36.0 7.6 66 74-142 23-90 (311)
66 cd06299 PBP1_LacI_like_13 Liga 90.8 1.2 2.6E-05 34.3 6.9 60 78-143 2-64 (265)
67 PRK11303 DNA-binding transcrip 90.7 1.5 3.3E-05 35.3 7.6 66 74-143 60-126 (328)
68 cd06274 PBP1_FruR Ligand bindi 90.6 1.5 3.2E-05 34.0 7.2 62 78-143 2-64 (264)
69 cd06272 PBP1_hexuronate_repres 90.6 1.3 2.9E-05 34.1 7.0 59 78-143 2-60 (261)
70 cd06271 PBP1_AglR_RafR_like Li 90.6 1.9 4.1E-05 33.0 7.8 68 75-142 120-189 (268)
71 TIGR02405 trehalos_R_Ecol treh 90.6 1.7 3.7E-05 35.1 7.9 67 73-143 57-124 (311)
72 cd06354 PBP1_BmpA_PnrA_like Pe 90.6 1.7 3.7E-05 34.5 7.7 63 77-143 1-66 (265)
73 cd06304 PBP1_BmpA_like Peripla 90.5 1.6 3.5E-05 34.3 7.4 63 77-143 1-65 (260)
74 TIGR02417 fruct_sucro_rep D-fr 90.5 1.5 3.3E-05 35.4 7.5 67 73-143 58-125 (327)
75 PRK10355 xylF D-xylose transpo 90.5 1.7 3.6E-05 36.4 7.9 65 73-143 23-90 (330)
76 cd06289 PBP1_MalI_like Ligand- 90.5 1.5 3.2E-05 33.6 7.0 60 78-143 2-64 (268)
77 TIGR02955 TMAO_TorT TMAO reduc 90.4 1.3 2.9E-05 35.6 7.1 62 77-142 1-65 (295)
78 cd06279 PBP1_LacI_like_3 Ligan 90.2 1.6 3.4E-05 34.5 7.2 59 78-143 2-65 (283)
79 cd06295 PBP1_CelR Ligand bindi 90.2 2 4.4E-05 33.4 7.7 63 76-143 4-73 (275)
80 cd06302 PBP1_LsrB_Quorum_Sensi 90.0 1.9 4.2E-05 34.7 7.7 61 77-142 1-64 (298)
81 cd06308 PBP1_sensor_kinase_lik 90.0 1.8 3.9E-05 33.7 7.3 61 77-142 1-64 (270)
82 PF00532 Peripla_BP_1: Peripla 89.9 2.1 4.6E-05 35.1 7.9 64 76-143 2-65 (279)
83 cd06293 PBP1_LacI_like_11 Liga 89.8 1.6 3.4E-05 33.9 6.8 69 74-142 115-185 (269)
84 cd06321 PBP1_ABC_sugar_binding 89.4 1.6 3.5E-05 33.9 6.6 63 77-142 1-65 (271)
85 cd06294 PBP1_ycjW_transcriptio 89.3 1.6 3.5E-05 33.6 6.5 62 78-142 2-68 (270)
86 PRK10727 DNA-binding transcrip 89.3 2.3 5E-05 34.8 7.7 67 73-143 57-124 (343)
87 TIGR02634 xylF D-xylose ABC tr 89.2 1.6 3.4E-05 35.6 6.7 61 78-142 1-62 (302)
88 cd06299 PBP1_LacI_like_13 Liga 89.2 2 4.3E-05 33.1 6.9 66 75-143 116-184 (265)
89 cd06285 PBP1_LacI_like_7 Ligan 89.0 2.2 4.8E-05 33.0 7.1 60 78-143 2-64 (265)
90 PRK10936 TMAO reductase system 88.9 2.6 5.7E-05 35.1 8.0 64 75-142 46-112 (343)
91 cd06322 PBP1_ABC_sugar_binding 88.7 2.5 5.3E-05 32.7 7.1 62 78-143 2-64 (267)
92 cd06307 PBP1_uncharacterized_s 88.7 2 4.4E-05 33.5 6.7 68 75-142 125-194 (275)
93 cd06273 PBP1_GntR_like_1 This 88.6 1.5 3.2E-05 33.9 5.8 67 75-142 116-186 (268)
94 cd06275 PBP1_PurR Ligand-bindi 88.6 1.2 2.6E-05 34.3 5.3 69 74-142 116-186 (269)
95 PF13407 Peripla_BP_4: Peripla 88.4 2 4.4E-05 33.1 6.5 60 78-141 1-62 (257)
96 cd06312 PBP1_ABC_sugar_binding 88.2 1.8 4E-05 33.8 6.2 61 77-142 1-65 (271)
97 cd06270 PBP1_GalS_like Ligand 88.2 2.9 6.2E-05 32.4 7.2 68 74-143 115-186 (268)
98 cd01540 PBP1_arabinose_binding 88.0 1.8 3.9E-05 34.0 6.0 62 77-142 1-62 (289)
99 PRK10014 DNA-binding transcrip 87.9 2.1 4.5E-05 34.8 6.5 68 75-142 182-251 (342)
100 cd06309 PBP1_YtfQ_like Peripla 87.8 2.2 4.7E-05 33.3 6.4 61 78-142 2-63 (273)
101 cd06284 PBP1_LacI_like_6 Ligan 87.8 3.5 7.6E-05 31.5 7.4 68 75-142 115-184 (267)
102 cd01544 PBP1_GalR Ligand-bindi 87.5 1.8 3.9E-05 33.9 5.8 55 77-142 1-60 (270)
103 PRK15408 autoinducer 2-binding 87.3 4.1 8.8E-05 34.6 8.2 65 73-142 21-88 (336)
104 PF00465 Fe-ADH: Iron-containi 87.3 1.8 4E-05 36.9 6.1 61 77-142 23-86 (366)
105 cd06288 PBP1_sucrose_transcrip 87.2 3.1 6.8E-05 31.9 6.9 62 78-143 2-65 (269)
106 cd06294 PBP1_ycjW_transcriptio 87.2 4.4 9.5E-05 31.1 7.7 66 75-142 122-191 (270)
107 cd06325 PBP1_ABC_uncharacteriz 87.1 3 6.5E-05 32.4 6.8 65 77-143 1-69 (281)
108 cd06287 PBP1_LacI_like_8 Ligan 87.0 2.7 5.9E-05 33.5 6.6 64 75-141 118-185 (269)
109 PRK10401 DNA-binding transcrip 86.9 3.6 7.8E-05 33.7 7.5 67 73-143 57-124 (346)
110 cd06298 PBP1_CcpA_like Ligand- 86.8 2.3 5.1E-05 32.6 6.0 69 74-142 115-185 (268)
111 PRK10653 D-ribose transporter 86.6 4.2 9.2E-05 32.5 7.6 65 74-142 25-90 (295)
112 PF03358 FMN_red: NADPH-depend 86.5 1.4 3.1E-05 32.3 4.5 45 76-124 1-46 (152)
113 cd06289 PBP1_MalI_like Ligand- 85.3 4.3 9.3E-05 31.1 6.7 68 75-142 117-186 (268)
114 PRK10727 DNA-binding transcrip 85.3 3.1 6.6E-05 34.1 6.2 66 75-142 176-245 (343)
115 PRK09526 lacI lac repressor; R 85.1 5.2 0.00011 32.4 7.4 64 74-141 62-127 (342)
116 PRK10703 DNA-binding transcrip 85.1 2.8 6.1E-05 34.0 5.9 66 75-142 178-247 (341)
117 PRK10401 DNA-binding transcrip 84.8 3 6.6E-05 34.1 6.0 67 74-142 175-245 (346)
118 PRK11041 DNA-binding transcrip 84.7 3.2 7E-05 32.9 6.0 66 75-142 152-221 (309)
119 cd06281 PBP1_LacI_like_5 Ligan 84.7 2.3 5.1E-05 33.0 5.1 67 75-142 116-184 (269)
120 cd01575 PBP1_GntR Ligand-bindi 84.6 4.4 9.6E-05 31.0 6.5 69 74-142 115-185 (268)
121 COG0715 TauA ABC-type nitrate/ 84.0 4.7 0.0001 33.0 6.8 58 70-139 131-189 (335)
122 cd06285 PBP1_LacI_like_7 Ligan 84.0 3.8 8.3E-05 31.7 6.0 67 75-143 114-184 (265)
123 PF09861 DUF2088: Domain of un 83.9 2.4 5.3E-05 34.5 5.1 45 74-120 53-100 (204)
124 cd08170 GlyDH Glycerol dehydro 83.8 6.4 0.00014 33.5 7.8 62 75-142 22-85 (351)
125 cd08183 Fe-ADH2 Iron-containin 83.6 5.4 0.00012 34.4 7.3 60 75-142 22-83 (374)
126 cd06292 PBP1_LacI_like_10 Liga 83.6 4.2 9.1E-05 31.5 6.1 65 75-142 122-189 (273)
127 PF02662 FlpD: Methyl-viologen 83.4 4.3 9.4E-05 30.5 5.9 35 108-144 26-62 (124)
128 cd01537 PBP1_Repressors_Sugar_ 83.4 4.1 8.9E-05 30.5 5.8 67 75-142 118-186 (264)
129 cd06311 PBP1_ABC_sugar_binding 83.3 6.4 0.00014 30.7 7.1 65 78-142 2-68 (274)
130 cd06274 PBP1_FruR Ligand bindi 83.2 7.7 0.00017 29.9 7.4 68 75-142 116-186 (264)
131 cd06295 PBP1_CelR Ligand bindi 82.9 5 0.00011 31.2 6.3 68 75-142 125-194 (275)
132 PRK10423 transcriptional repre 82.7 6.5 0.00014 31.6 7.0 67 74-142 173-243 (327)
133 COG1609 PurR Transcriptional r 82.6 5.7 0.00012 33.7 7.0 67 73-142 56-122 (333)
134 cd06319 PBP1_ABC_sugar_binding 82.4 8.4 0.00018 29.8 7.3 65 75-142 125-193 (277)
135 cd06272 PBP1_hexuronate_repres 82.1 3.5 7.7E-05 31.8 5.1 68 75-142 111-180 (261)
136 cd06303 PBP1_LuxPQ_Quorum_Sens 82.1 11 0.00024 29.8 8.1 60 77-142 1-68 (280)
137 cd06286 PBP1_CcpB_like Ligand- 82.0 6.2 0.00013 30.3 6.4 69 74-142 113-183 (260)
138 PF09084 NMT1: NMT1/THI5 like; 81.9 2.6 5.7E-05 32.0 4.3 58 71-140 89-146 (216)
139 cd06324 PBP1_ABC_sugar_binding 81.8 6.9 0.00015 31.6 6.9 29 78-106 2-31 (305)
140 cd06290 PBP1_LacI_like_9 Ligan 81.7 5.7 0.00012 30.6 6.2 66 75-142 115-184 (265)
141 PRK15395 methyl-galactoside AB 81.2 14 0.0003 30.7 8.6 65 73-142 22-89 (330)
142 cd06314 PBP1_tmGBP Periplasmic 81.1 8.5 0.00018 30.0 7.0 61 77-142 1-63 (271)
143 cd06278 PBP1_LacI_like_2 Ligan 80.9 4.5 9.7E-05 30.9 5.3 64 75-142 115-182 (266)
144 cd06341 PBP1_ABC_ligand_bindin 80.8 10 0.00022 30.9 7.6 65 75-142 132-196 (341)
145 cd06297 PBP1_LacI_like_12 Liga 80.7 8.8 0.00019 30.1 7.0 68 75-142 113-188 (269)
146 cd06291 PBP1_Qymf_like Ligand 80.5 9.8 0.00021 29.3 7.1 65 75-142 112-181 (265)
147 cd06306 PBP1_TorT-like TorT-li 80.5 7.3 0.00016 30.6 6.5 64 75-140 125-190 (268)
148 cd06339 PBP1_YraM_LppC_lipopro 80.4 11 0.00024 31.3 7.8 64 75-142 124-208 (336)
149 COG1609 PurR Transcriptional r 80.2 7.9 0.00017 32.8 7.0 67 73-141 173-244 (333)
150 cd06282 PBP1_GntR_like_2 Ligan 80.0 5.6 0.00012 30.4 5.6 66 75-142 116-184 (266)
151 cd08550 GlyDH-like Glycerol_de 79.9 5 0.00011 34.2 5.8 61 76-142 23-85 (349)
152 TIGR01481 ccpA catabolite cont 79.7 9.4 0.0002 30.8 7.0 66 74-142 175-244 (329)
153 TIGR02637 RhaS rhamnose ABC tr 79.2 11 0.00023 30.2 7.1 64 76-141 124-192 (302)
154 cd01391 Periplasmic_Binding_Pr 79.1 6.6 0.00014 28.7 5.5 65 75-142 124-190 (269)
155 cd08187 BDH Butanol dehydrogen 78.8 4.2 9.1E-05 35.2 5.0 64 75-142 28-94 (382)
156 COG1879 RbsB ABC-type sugar tr 78.7 14 0.00031 30.1 7.9 64 75-141 33-98 (322)
157 cd06283 PBP1_RegR_EndR_KdgR_li 78.5 11 0.00023 28.9 6.7 69 74-143 115-187 (267)
158 cd01536 PBP1_ABC_sugar_binding 78.1 19 0.00041 27.2 7.9 65 74-142 120-189 (267)
159 TIGR02417 fruct_sucro_rep D-fr 77.9 9.9 0.00022 30.7 6.7 66 75-142 178-246 (327)
160 cd06288 PBP1_sucrose_transcrip 77.9 10 0.00022 29.0 6.5 68 75-142 116-185 (269)
161 PF13458 Peripla_BP_6: Peripla 77.8 24 0.00053 28.2 8.8 63 75-142 135-198 (343)
162 PRK03708 ppnK inorganic polyph 77.4 4.7 0.0001 34.1 4.8 61 76-142 1-65 (277)
163 PF00731 AIRC: AIR carboxylase 77.4 11 0.00025 29.7 6.7 59 77-142 2-63 (150)
164 cd06313 PBP1_ABC_sugar_binding 77.1 9.8 0.00021 30.0 6.3 27 80-106 4-30 (272)
165 TIGR02637 RhaS rhamnose ABC tr 77.1 14 0.0003 29.6 7.2 62 78-142 1-64 (302)
166 cd06312 PBP1_ABC_sugar_binding 77.1 20 0.00042 28.0 7.9 65 75-142 125-191 (271)
167 PF01976 DUF116: Protein of un 76.9 7.4 0.00016 30.7 5.5 40 96-144 77-116 (158)
168 cd08191 HHD 6-hydroxyhexanoate 76.9 3.5 7.7E-05 35.8 4.0 59 76-142 23-87 (386)
169 COG1454 EutG Alcohol dehydroge 76.8 3.6 7.8E-05 36.8 4.1 64 75-142 29-94 (377)
170 PRK09526 lacI lac repressor; R 76.7 8.9 0.00019 31.1 6.1 65 74-142 180-248 (342)
171 cd01545 PBP1_SalR Ligand-bindi 76.4 20 0.00043 27.5 7.7 68 75-142 118-187 (270)
172 cd06354 PBP1_BmpA_PnrA_like Pe 76.2 15 0.00033 29.1 7.2 67 74-142 120-191 (265)
173 PRK14987 gluconate operon tran 76.1 11 0.00024 30.6 6.5 66 75-142 180-247 (331)
174 cd08171 GlyDH-like2 Glycerol d 76.0 8.9 0.00019 32.7 6.2 62 76-142 23-86 (345)
175 cd08551 Fe-ADH iron-containing 75.8 3.4 7.4E-05 35.3 3.6 62 76-142 24-88 (370)
176 cd06308 PBP1_sensor_kinase_lik 75.7 20 0.00044 27.8 7.6 65 74-142 121-190 (270)
177 PRK03767 NAD(P)H:quinone oxido 75.5 15 0.00031 28.9 6.9 39 76-118 2-41 (200)
178 PRK10624 L-1,2-propanediol oxi 75.2 4.1 8.8E-05 35.3 4.0 61 76-142 31-95 (382)
179 PRK11303 DNA-binding transcrip 75.1 8 0.00017 31.1 5.4 64 75-142 179-246 (328)
180 cd06296 PBP1_CatR_like Ligand- 74.8 10 0.00022 29.2 5.7 65 75-141 117-185 (270)
181 cd06317 PBP1_ABC_sugar_binding 74.8 14 0.0003 28.5 6.4 64 76-142 126-195 (275)
182 cd08190 HOT Hydroxyacid-oxoaci 74.5 5.2 0.00011 35.3 4.5 61 76-142 24-88 (414)
183 COG1597 LCB5 Sphingosine kinas 74.5 18 0.0004 30.7 7.7 62 76-142 3-66 (301)
184 cd06300 PBP1_ABC_sugar_binding 74.0 22 0.00047 27.6 7.4 65 74-142 124-193 (272)
185 PRK09701 D-allose transporter 73.7 13 0.00028 30.3 6.4 66 75-142 156-224 (311)
186 COG1908 FrhD Coenzyme F420-red 73.7 6.2 0.00013 31.0 4.2 35 108-144 27-63 (132)
187 cd01543 PBP1_XylR Ligand-bindi 73.6 13 0.00028 28.9 6.1 57 77-142 1-58 (265)
188 PRK13197 pyrrolidone-carboxyla 73.5 8.1 0.00018 31.6 5.1 40 104-143 30-70 (215)
189 cd06333 PBP1_ABC-type_HAAT_lik 73.5 20 0.00043 28.7 7.3 64 74-142 132-196 (312)
190 COG0655 WrbA Multimeric flavod 73.4 15 0.00032 29.0 6.5 41 76-119 1-42 (207)
191 cd08188 Fe-ADH4 Iron-containin 73.1 5.1 0.00011 34.7 4.0 62 76-142 29-93 (377)
192 cd06276 PBP1_FucR_like Ligand- 72.8 19 0.00041 28.4 6.9 59 78-143 2-61 (247)
193 PRK15454 ethanol dehydrogenase 72.7 8.7 0.00019 33.8 5.4 62 76-142 50-114 (395)
194 cd06350 PBP1_GPCR_family_C_lik 72.7 33 0.00071 27.8 8.4 63 75-142 160-225 (348)
195 PRK00002 aroB 3-dehydroquinate 72.6 18 0.00039 31.1 7.2 61 76-142 32-100 (358)
196 cd01574 PBP1_LacI Ligand-bindi 72.5 13 0.00029 28.4 5.9 65 74-142 115-182 (264)
197 cd06343 PBP1_ABC_ligand_bindin 72.2 34 0.00073 28.1 8.5 63 75-142 144-207 (362)
198 cd08189 Fe-ADH5 Iron-containin 72.1 4.7 0.0001 34.8 3.6 62 76-142 27-91 (374)
199 cd06311 PBP1_ABC_sugar_binding 72.0 18 0.00039 28.1 6.6 65 75-142 127-193 (274)
200 TIGR01755 flav_wrbA NAD(P)H:qu 71.8 23 0.00049 28.0 7.1 41 76-120 1-42 (197)
201 cd06360 PBP1_alkylbenzenes_lik 71.6 24 0.00053 28.3 7.4 63 75-142 134-197 (336)
202 cd06355 PBP1_FmdD_like Peripla 71.6 26 0.00056 29.1 7.8 63 75-142 133-196 (348)
203 PRK09492 treR trehalose repres 71.6 18 0.0004 28.9 6.7 65 74-142 174-240 (315)
204 TIGR03427 ABC_peri_uca ABC tra 71.6 8.1 0.00018 33.3 4.9 61 68-140 99-159 (328)
205 COG0683 LivK ABC-type branched 71.5 18 0.00038 30.7 6.9 63 76-142 149-211 (366)
206 cd06279 PBP1_LacI_like_3 Ligan 71.4 17 0.00038 28.6 6.4 68 74-142 115-203 (283)
207 cd06313 PBP1_ABC_sugar_binding 71.3 18 0.00039 28.5 6.5 64 75-142 123-191 (272)
208 cd08173 Gro1PDH Sn-glycerol-1- 71.2 26 0.00057 29.7 7.9 60 76-142 26-86 (339)
209 PRK11914 diacylglycerol kinase 71.1 30 0.00064 28.7 8.0 67 72-142 5-72 (306)
210 cd08182 HEPD Hydroxyethylphosp 70.2 8.1 0.00018 33.1 4.6 59 76-142 24-85 (367)
211 PRK15395 methyl-galactoside AB 69.2 30 0.00065 28.7 7.6 66 76-143 163-234 (330)
212 cd08194 Fe-ADH6 Iron-containin 68.9 6.1 0.00013 34.1 3.6 63 75-142 23-88 (375)
213 TIGR01729 taurine_ABC_bnd taur 68.7 15 0.00032 29.8 5.6 57 72-140 97-153 (300)
214 cd01543 PBP1_XylR Ligand-bindi 68.6 20 0.00043 27.8 6.1 67 75-142 109-179 (265)
215 cd06309 PBP1_YtfQ_like Peripla 68.4 37 0.00081 26.3 7.6 65 74-142 123-193 (273)
216 PRK13195 pyrrolidone-carboxyla 68.4 10 0.00023 31.6 4.7 43 101-143 27-70 (222)
217 cd06353 PBP1_BmpA_Med_like Per 68.4 28 0.00061 28.3 7.2 46 93-142 19-65 (258)
218 PRK09860 putative alcohol dehy 68.3 6.1 0.00013 34.5 3.5 62 76-142 32-96 (383)
219 TIGR02638 lactal_redase lactal 68.2 6.7 0.00015 34.0 3.7 59 76-142 30-94 (379)
220 PRK09423 gldA glycerol dehydro 68.1 34 0.00073 29.5 8.0 61 76-142 30-92 (366)
221 cd06268 PBP1_ABC_transporter_L 68.1 31 0.00067 26.2 6.9 63 75-142 135-198 (298)
222 cd06375 PBP1_mGluR_groupII Lig 68.0 25 0.00054 31.0 7.3 66 75-142 174-240 (458)
223 PRK11480 tauA taurine transpor 68.0 13 0.00029 30.9 5.3 58 71-140 118-175 (320)
224 cd06318 PBP1_ABC_sugar_binding 68.0 40 0.00086 26.2 7.7 68 75-142 123-198 (282)
225 cd08176 LPO Lactadehyde:propan 67.8 5.6 0.00012 34.4 3.2 62 76-142 29-93 (377)
226 cd08185 Fe-ADH1 Iron-containin 67.6 14 0.00029 32.0 5.5 63 76-142 26-91 (380)
227 cd08174 G1PDH-like Glycerol-1- 67.6 25 0.00054 29.7 6.9 58 75-142 25-83 (331)
228 TIGR01162 purE phosphoribosyla 67.4 22 0.00047 28.5 6.2 58 78-142 1-61 (156)
229 cd06326 PBP1_STKc_like Type I 67.3 30 0.00065 27.8 7.1 63 75-142 136-199 (336)
230 cd08175 G1PDH Glycerol-1-phosp 67.2 13 0.00029 31.5 5.3 60 76-142 24-88 (348)
231 cd06314 PBP1_tmGBP Periplasmic 67.0 27 0.00058 27.2 6.6 76 61-142 108-187 (271)
232 cd06324 PBP1_ABC_sugar_binding 66.5 45 0.00097 26.9 8.0 64 76-142 143-210 (305)
233 PF02776 TPP_enzyme_N: Thiamin 66.4 21 0.00046 27.1 5.8 40 95-139 5-44 (172)
234 cd06277 PBP1_LacI_like_1 Ligan 66.2 37 0.0008 26.2 7.2 66 75-142 118-185 (268)
235 PRK10653 D-ribose transporter 66.0 37 0.00081 27.1 7.4 63 76-142 149-215 (295)
236 cd01542 PBP1_TreR_like Ligand- 65.9 35 0.00077 26.0 7.0 67 74-142 113-181 (259)
237 TIGR03674 fen_arch flap struct 65.6 13 0.00027 32.4 4.9 45 89-140 127-171 (338)
238 PF03846 SulA: Cell division i 65.5 17 0.00037 28.1 5.1 44 97-140 73-116 (119)
239 cd07766 DHQ_Fe-ADH Dehydroquin 65.5 23 0.0005 29.6 6.3 60 76-142 24-86 (332)
240 cd06320 PBP1_allose_binding Pe 65.4 28 0.00061 27.0 6.4 64 75-142 122-190 (275)
241 cd08179 NADPH_BDH NADPH-depend 65.3 10 0.00023 32.7 4.3 61 76-142 24-89 (375)
242 cd06325 PBP1_ABC_uncharacteriz 65.3 39 0.00084 26.1 7.1 63 74-142 130-192 (281)
243 cd06303 PBP1_LuxPQ_Quorum_Sens 64.9 47 0.001 26.2 7.7 64 74-142 130-198 (280)
244 cd06310 PBP1_ABC_sugar_binding 64.9 25 0.00054 27.2 6.0 65 75-141 123-190 (273)
245 cd06362 PBP1_mGluR Ligand bind 64.6 27 0.00058 30.0 6.7 64 75-142 172-238 (452)
246 cd01539 PBP1_GGBP Periplasmic 64.3 27 0.00058 28.2 6.3 64 77-142 141-209 (303)
247 cd01541 PBP1_AraR Ligand-bindi 64.2 24 0.00051 27.4 5.8 67 75-142 121-191 (273)
248 cd08178 AAD_C C-terminal alcoh 63.8 16 0.00034 32.0 5.1 61 76-142 22-86 (398)
249 cd04509 PBP1_ABC_transporter_G 63.7 28 0.00061 26.4 6.0 63 75-142 136-199 (299)
250 cd01544 PBP1_GalR Ligand-bindi 63.7 29 0.00064 27.0 6.2 67 73-142 110-187 (270)
251 cd08193 HVD 5-hydroxyvalerate 63.6 10 0.00022 32.7 4.0 62 76-142 27-91 (376)
252 COG2518 Pcm Protein-L-isoaspar 63.5 8.8 0.00019 32.0 3.4 47 89-144 102-148 (209)
253 cd06323 PBP1_ribose_binding Pe 63.2 44 0.00096 25.4 7.0 64 75-142 121-189 (268)
254 KOG3857 Alcohol dehydrogenase, 63.0 11 0.00023 34.7 4.1 65 76-142 71-135 (465)
255 cd06345 PBP1_ABC_ligand_bindin 62.7 45 0.00097 27.3 7.4 64 74-142 143-207 (344)
256 PRK10595 SOS cell division inh 62.7 24 0.00052 28.4 5.6 58 74-140 55-112 (164)
257 cd06348 PBP1_ABC_ligand_bindin 62.6 34 0.00073 27.9 6.6 65 75-142 136-200 (344)
258 TIGR03407 urea_ABC_UrtA urea A 62.5 46 0.00099 27.8 7.5 62 76-142 135-197 (359)
259 cd08195 DHQS Dehydroquinate sy 62.4 57 0.0012 27.8 8.2 61 76-142 25-93 (345)
260 cd06316 PBP1_ABC_sugar_binding 62.4 33 0.00072 27.2 6.4 65 75-142 126-194 (294)
261 cd06356 PBP1_Amide_Urea_BP_lik 61.8 44 0.00095 27.5 7.2 63 75-142 132-195 (334)
262 cd01538 PBP1_ABC_xylose_bindin 61.6 26 0.00057 27.8 5.7 68 74-142 124-198 (288)
263 TIGR01357 aroB 3-dehydroquinat 61.3 56 0.0012 27.8 8.0 61 76-142 21-89 (344)
264 COG2984 ABC-type uncharacteriz 61.2 59 0.0013 29.0 8.2 71 72-143 27-97 (322)
265 cd06363 PBP1_Taste_receptor Li 61.1 32 0.0007 29.3 6.5 63 75-142 176-242 (410)
266 cd06361 PBP1_GPC6A_like Ligand 60.9 67 0.0015 27.8 8.5 64 75-142 172-242 (403)
267 COG0463 WcaA Glycosyltransfera 60.4 47 0.001 22.0 6.0 54 75-131 2-55 (291)
268 cd06334 PBP1_ABC_ligand_bindin 60.4 28 0.00062 29.2 6.0 64 75-142 140-203 (351)
269 TIGR00147 lipid kinase, YegS/R 60.1 71 0.0015 26.1 8.2 61 77-142 3-65 (293)
270 cd08197 DOIS 2-deoxy-scyllo-in 59.5 57 0.0012 28.4 7.9 61 76-142 24-92 (355)
271 cd06304 PBP1_BmpA_like Peripla 59.0 78 0.0017 24.7 7.9 65 74-142 119-187 (260)
272 cd06338 PBP1_ABC_ligand_bindin 58.7 42 0.0009 27.2 6.5 63 75-142 141-204 (345)
273 cd06305 PBP1_methylthioribose_ 58.3 44 0.00095 25.7 6.3 67 75-142 120-191 (273)
274 PRK13196 pyrrolidone-carboxyla 58.1 24 0.00052 28.9 5.0 38 106-143 32-70 (211)
275 cd03802 GT1_AviGT4_like This f 57.8 62 0.0014 25.4 7.2 17 126-142 79-95 (335)
276 cd06327 PBP1_SBP_like_1 Peripl 57.6 50 0.0011 26.9 6.8 64 75-142 135-198 (334)
277 PRK10569 NAD(P)H-dependent FMN 57.5 17 0.00036 28.9 3.9 64 76-140 1-72 (191)
278 PRK06756 flavodoxin; Provision 57.2 24 0.00053 26.0 4.5 31 76-107 2-32 (148)
279 PRK02645 ppnK inorganic polyph 57.0 29 0.00063 29.7 5.6 61 76-142 4-65 (305)
280 cd06301 PBP1_rhizopine_binding 56.8 46 0.00099 25.7 6.2 64 75-142 123-191 (272)
281 cd06328 PBP1_SBP_like_2 Peripl 56.4 51 0.0011 27.1 6.7 63 75-141 136-198 (333)
282 PRK03980 flap endonuclease-1; 56.2 23 0.0005 30.4 4.8 45 89-140 80-124 (292)
283 TIGR02405 trehalos_R_Ecol treh 55.8 57 0.0012 26.3 6.8 65 74-142 171-237 (311)
284 cd06302 PBP1_LsrB_Quorum_Sensi 55.7 76 0.0016 25.5 7.5 65 76-142 124-193 (298)
285 PLN02948 phosphoribosylaminoim 55.6 65 0.0014 30.1 8.0 66 69-141 404-472 (577)
286 COG1041 Predicted DNA modifica 55.5 15 0.00032 32.9 3.6 46 87-140 225-270 (347)
287 cd08192 Fe-ADH7 Iron-containin 55.2 15 0.00032 31.6 3.4 62 76-142 25-89 (370)
288 cd07039 TPP_PYR_POX Pyrimidine 55.1 42 0.00091 25.8 5.7 40 95-139 4-43 (164)
289 PRK10936 TMAO reductase system 54.8 76 0.0016 26.4 7.6 62 75-140 172-237 (343)
290 PLN02834 3-dehydroquinate synt 54.6 88 0.0019 28.2 8.4 64 75-142 100-171 (433)
291 cd08177 MAR Maleylacetate redu 54.5 19 0.00042 30.6 4.1 59 76-142 24-85 (337)
292 cd06346 PBP1_ABC_ligand_bindin 54.2 65 0.0014 26.0 6.9 64 75-142 137-200 (312)
293 TIGR03669 urea_ABC_arch urea A 53.9 74 0.0016 27.3 7.6 62 76-142 134-196 (374)
294 cd08181 PPD-like 1,3-propanedi 53.9 21 0.00045 30.7 4.2 63 76-142 26-91 (357)
295 PRK13054 lipid kinase; Reviewe 53.8 85 0.0018 26.1 7.7 44 95-142 21-64 (300)
296 PRK06065 acetyl-CoA acetyltran 53.7 34 0.00073 30.2 5.6 16 128-143 103-118 (392)
297 cd06376 PBP1_mGluR_groupIII Li 53.5 46 0.001 29.0 6.3 64 75-142 172-239 (463)
298 COG2984 ABC-type uncharacteriz 53.4 80 0.0017 28.1 7.8 59 76-140 160-218 (322)
299 PTZ00217 flap endonuclease-1; 53.4 25 0.00055 31.4 4.8 44 89-139 135-178 (393)
300 PRK15404 leucine ABC transport 53.4 64 0.0014 27.3 7.0 64 75-142 161-224 (369)
301 PF04392 ABC_sub_bind: ABC tra 53.2 1.2E+02 0.0027 24.8 8.5 60 76-141 132-191 (294)
302 cd06341 PBP1_ABC_ligand_bindin 53.1 64 0.0014 26.2 6.7 12 129-140 62-73 (341)
303 PF01470 Peptidase_C15: Pyrogl 52.8 18 0.00039 29.1 3.4 44 100-143 25-69 (202)
304 PF00781 DAGK_cat: Diacylglyce 52.5 83 0.0018 22.7 6.7 44 95-142 18-62 (130)
305 cd08186 Fe-ADH8 Iron-containin 52.2 26 0.00057 30.4 4.6 63 76-142 27-92 (383)
306 PLN02958 diacylglycerol kinase 52.0 94 0.002 28.3 8.2 65 73-142 109-176 (481)
307 TIGR03567 FMN_reduc_SsuE FMN r 51.7 18 0.00039 27.7 3.2 40 78-117 2-42 (171)
308 cd08199 EEVS 2-epi-5-epi-valio 51.1 1.2E+02 0.0026 26.3 8.5 62 75-142 26-96 (354)
309 PRK08190 bifunctional enoyl-Co 50.9 73 0.0016 28.8 7.3 68 72-140 173-256 (466)
310 cd06336 PBP1_ABC_ligand_bindin 50.7 60 0.0013 26.8 6.3 64 74-142 137-201 (347)
311 PRK07855 lipid-transfer protei 50.4 41 0.00089 29.5 5.5 41 102-143 64-108 (386)
312 TIGR01991 HscA Fe-S protein as 50.4 10 0.00022 35.1 1.9 57 88-144 290-355 (599)
313 PRK13944 protein-L-isoaspartat 50.3 21 0.00046 28.0 3.4 47 89-143 105-151 (205)
314 cd06342 PBP1_ABC_LIVBP_like Ty 50.2 90 0.0019 24.9 7.1 63 75-142 135-198 (334)
315 COG0521 MoaB Molybdopterin bio 50.2 53 0.0011 26.6 5.7 65 75-142 7-75 (169)
316 PRK13337 putative lipid kinase 50.1 66 0.0014 26.8 6.5 46 93-142 20-65 (304)
317 PF13685 Fe-ADH_2: Iron-contai 49.9 31 0.00068 29.0 4.5 63 75-143 19-84 (250)
318 TIGR03702 lip_kinase_YegS lipi 48.8 74 0.0016 26.3 6.6 45 94-142 16-60 (293)
319 TIGR00623 sula cell division i 48.6 43 0.00093 27.2 4.9 57 75-140 60-116 (168)
320 cd06371 PBP1_sensory_GC_DEF_li 48.6 1.1E+02 0.0024 26.0 7.7 64 75-142 132-196 (382)
321 cd06340 PBP1_ABC_ligand_bindin 48.6 88 0.0019 25.8 7.0 62 76-142 145-207 (347)
322 PTZ00400 DnaK-type molecular c 48.5 27 0.00059 32.9 4.4 55 91-145 348-411 (663)
323 PRK07449 2-succinyl-5-enolpyru 48.3 49 0.0011 29.9 5.8 49 83-140 5-53 (568)
324 PRK08199 thiamine pyrophosphat 48.1 44 0.00094 30.3 5.5 42 94-140 11-52 (557)
325 cd06364 PBP1_CaSR Ligand-bindi 48.1 57 0.0012 29.4 6.2 65 75-142 187-252 (510)
326 TIGR02955 TMAO_TorT TMAO reduc 47.1 1E+02 0.0022 24.7 7.0 61 75-139 125-189 (295)
327 PLN02470 acetolactate synthase 47.1 32 0.00069 31.4 4.5 53 83-140 5-57 (585)
328 PRK13194 pyrrolidone-carboxyla 47.0 48 0.001 27.2 5.1 40 104-143 29-69 (208)
329 PRK02155 ppnK NAD(+)/NADH kina 46.6 70 0.0015 27.3 6.2 31 76-107 6-36 (291)
330 cd06331 PBP1_AmiC_like Type I 46.6 1.2E+02 0.0026 24.6 7.4 63 75-142 132-195 (333)
331 cd00128 XPG Xeroderma pigmento 46.4 43 0.00093 28.2 4.9 45 89-140 125-169 (316)
332 PRK04155 chaperone protein Hch 46.3 20 0.00043 30.7 2.9 41 75-118 49-100 (287)
333 cd06280 PBP1_LacI_like_4 Ligan 46.1 58 0.0013 25.1 5.3 64 75-142 115-180 (263)
334 PRK13410 molecular chaperone D 45.6 17 0.00038 34.3 2.6 61 83-144 298-371 (668)
335 cd08184 Fe-ADH3 Iron-containin 45.6 46 0.00099 28.9 5.0 57 77-142 27-89 (347)
336 cd04387 RhoGAP_Bcr RhoGAP_Bcr: 45.4 57 0.0012 26.1 5.2 43 92-136 18-60 (196)
337 COG0594 RnpA RNase P protein c 45.4 72 0.0016 23.8 5.4 52 73-125 38-95 (117)
338 cd06379 PBP1_iGluR_NMDA_NR1 N- 45.1 89 0.0019 26.1 6.6 65 75-142 154-221 (377)
339 cd06321 PBP1_ABC_sugar_binding 45.1 1.4E+02 0.0031 23.0 8.0 64 75-142 121-189 (271)
340 PRK10339 DNA-binding transcrip 45.0 78 0.0017 25.6 6.1 65 75-142 174-242 (327)
341 PRK09417 mogA molybdenum cofac 44.5 77 0.0017 25.7 5.9 69 75-143 3-75 (193)
342 cd06332 PBP1_aromatic_compound 44.4 84 0.0018 25.0 6.1 61 75-142 134-194 (333)
343 PRK08155 acetolactate synthase 44.2 55 0.0012 29.7 5.5 42 94-140 16-57 (564)
344 PF13379 NMT1_2: NMT1-like fam 43.9 65 0.0014 25.5 5.3 56 74-141 120-177 (252)
345 cd06437 CESA_CaSu_A2 Cellulose 43.8 68 0.0015 24.5 5.3 27 77-106 2-28 (232)
346 PRK09107 acetolactate synthase 43.8 61 0.0013 29.9 5.8 42 94-140 14-55 (595)
347 TIGR00504 pyro_pdase pyrogluta 43.6 50 0.0011 27.0 4.7 34 110-143 33-67 (212)
348 cd00501 Peptidase_C15 Pyroglut 43.1 54 0.0012 25.8 4.7 35 109-143 34-69 (194)
349 PRK13411 molecular chaperone D 43.1 11 0.00024 35.3 1.0 55 91-145 308-372 (653)
350 PRK05183 hscA chaperone protei 42.8 21 0.00045 33.3 2.6 56 89-144 307-371 (616)
351 TIGR02690 resist_ArsH arsenica 42.7 51 0.0011 27.3 4.7 66 74-140 25-96 (219)
352 PLN02573 pyruvate decarboxylas 42.6 62 0.0014 29.7 5.7 42 94-140 19-60 (578)
353 PTZ00186 heat shock 70 kDa pre 42.3 18 0.00039 34.2 2.2 55 90-144 333-396 (657)
354 PRK10586 putative oxidoreducta 42.2 1.1E+02 0.0024 26.7 6.9 73 61-142 20-94 (362)
355 cd08180 PDD 1,3-propanediol de 42.2 59 0.0013 27.6 5.1 60 76-142 23-86 (332)
356 KOG1017 Predicted uracil phosp 42.1 66 0.0014 27.7 5.3 59 77-138 175-246 (267)
357 TIGR00118 acolac_lg acetolacta 42.0 63 0.0014 29.2 5.5 41 95-140 5-45 (558)
358 cd06335 PBP1_ABC_ligand_bindin 41.9 1.7E+02 0.0036 24.1 7.6 63 75-142 138-201 (347)
359 PRK07742 phosphate butyryltran 41.9 1.3E+02 0.0029 25.5 7.2 42 101-142 56-98 (299)
360 PRK14021 bifunctional shikimat 41.7 1.7E+02 0.0036 27.1 8.3 60 76-142 210-277 (542)
361 PF02601 Exonuc_VII_L: Exonucl 41.3 1.6E+02 0.0036 24.6 7.6 62 74-141 13-82 (319)
362 PF13407 Peripla_BP_4: Peripla 41.1 1.3E+02 0.0029 23.0 6.6 63 76-142 123-190 (257)
363 cd04395 RhoGAP_ARHGAP21 RhoGAP 41.0 71 0.0015 25.1 5.1 42 92-135 20-61 (196)
364 PRK06466 acetolactate synthase 40.6 67 0.0015 29.2 5.5 41 95-140 8-48 (574)
365 cd00886 MogA_MoaB MogA_MoaB fa 40.5 1E+02 0.0023 23.2 5.8 44 98-143 26-70 (152)
366 TIGR02667 moaB_proteo molybden 40.5 1.1E+02 0.0025 23.6 6.1 44 98-143 28-72 (163)
367 PRK11269 glyoxylate carboligas 40.4 69 0.0015 29.3 5.6 42 94-140 7-48 (591)
368 cd04104 p47_IIGP_like p47 (47- 40.3 1.7E+02 0.0037 22.5 7.2 56 75-130 107-180 (197)
369 PRK13942 protein-L-isoaspartat 40.2 39 0.00084 26.8 3.5 45 90-143 110-154 (212)
370 PF13649 Methyltransf_25: Meth 39.7 32 0.0007 23.4 2.6 46 89-144 32-77 (101)
371 cd08172 GlyDH-like1 Glycerol d 39.4 48 0.001 28.3 4.2 59 76-142 24-84 (347)
372 PF01135 PCMT: Protein-L-isoas 39.3 16 0.00035 29.7 1.2 45 91-144 107-151 (209)
373 cd01540 PBP1_arabinose_binding 39.2 1.4E+02 0.0031 23.2 6.5 65 76-142 130-202 (289)
374 PRK13193 pyrrolidone-carboxyla 39.1 84 0.0018 25.8 5.4 44 100-143 25-69 (209)
375 PRK14075 pnk inorganic polypho 39.0 1.1E+02 0.0024 25.5 6.2 49 76-142 1-49 (256)
376 cd06427 CESA_like_2 CESA_like_ 38.4 90 0.0019 24.2 5.3 35 77-114 2-36 (241)
377 PRK07979 acetolactate synthase 38.4 83 0.0018 28.6 5.7 41 95-140 8-48 (574)
378 PRK00290 dnaK molecular chaper 38.2 29 0.00063 32.1 2.9 55 90-144 306-369 (627)
379 PRK01231 ppnK inorganic polyph 38.2 1.2E+02 0.0025 26.1 6.3 30 77-107 6-35 (295)
380 PRK07586 hypothetical protein; 38.2 84 0.0018 28.0 5.6 41 95-140 5-45 (514)
381 PLN02204 diacylglycerol kinase 38.0 1.9E+02 0.004 27.9 8.1 67 73-142 157-226 (601)
382 TIGR00173 menD 2-succinyl-5-en 37.9 84 0.0018 27.6 5.5 40 95-139 4-43 (432)
383 PRK05752 uroporphyrinogen-III 37.6 1.3E+02 0.0028 24.3 6.3 60 73-140 128-188 (255)
384 PRK08979 acetolactate synthase 37.6 85 0.0019 28.6 5.7 41 95-140 8-48 (572)
385 PRK07064 hypothetical protein; 37.5 79 0.0017 28.3 5.4 42 94-140 6-47 (544)
386 cd06349 PBP1_ABC_ligand_bindin 37.4 1.9E+02 0.0041 23.5 7.2 64 76-143 136-199 (340)
387 PF02353 CMAS: Mycolic acid cy 37.3 68 0.0015 27.0 4.7 75 59-144 47-137 (273)
388 COG1852 Uncharacterized conser 37.0 81 0.0018 26.6 5.0 68 60-143 95-162 (209)
389 TIGR00600 rad2 DNA excision re 36.8 55 0.0012 33.3 4.7 50 84-140 764-813 (1034)
390 PF13712 Glyco_tranf_2_5: Glyc 36.8 89 0.0019 25.2 5.1 58 78-139 1-59 (217)
391 PRK11553 alkanesulfonate trans 36.7 70 0.0015 26.1 4.6 60 70-141 124-183 (314)
392 cd06374 PBP1_mGluR_groupI Liga 36.7 1.5E+02 0.0032 26.0 6.9 64 75-141 186-250 (472)
393 PTZ00009 heat shock 70 kDa pro 36.7 41 0.0009 31.5 3.6 54 92-145 314-377 (653)
394 cd04388 RhoGAP_p85 RhoGAP_p85: 36.4 85 0.0018 25.6 5.0 38 92-132 17-54 (200)
395 PRK08527 acetolactate synthase 36.3 88 0.0019 28.4 5.6 41 95-140 7-47 (563)
396 TIGR00288 conserved hypothetic 36.1 1.3E+02 0.0028 24.0 5.9 56 75-141 55-112 (160)
397 PRK06456 acetolactate synthase 36.0 95 0.0021 28.2 5.7 41 95-140 6-49 (572)
398 PRK06546 pyruvate dehydrogenas 35.9 90 0.002 28.6 5.6 42 94-140 6-47 (578)
399 TIGR02350 prok_dnaK chaperone 35.3 27 0.00058 32.0 2.1 54 91-144 305-367 (595)
400 cd06365 PBP1_Pheromone_recepto 35.2 2.1E+02 0.0046 25.2 7.7 63 75-142 172-239 (469)
401 cd04390 RhoGAP_ARHGAP22_24_25 35.1 99 0.0022 24.3 5.1 40 92-133 24-63 (199)
402 PRK07282 acetolactate synthase 34.6 97 0.0021 28.3 5.5 41 95-140 14-54 (566)
403 PRK10339 DNA-binding transcrip 34.5 1.4E+02 0.0031 24.1 6.0 56 76-143 64-123 (327)
404 KOG2836 Protein tyrosine phosp 34.3 72 0.0016 25.9 4.2 68 72-144 13-105 (173)
405 cd03799 GT1_amsK_like This is 33.9 1.8E+02 0.0038 22.9 6.3 39 77-119 1-39 (355)
406 cd06330 PBP1_Arsenic_SBP_like 33.9 2E+02 0.0044 23.3 6.8 65 75-142 138-203 (346)
407 cd04372 RhoGAP_chimaerin RhoGA 33.9 98 0.0021 24.3 4.9 38 92-131 18-55 (194)
408 PRK06882 acetolactate synthase 33.7 1.1E+02 0.0023 27.8 5.7 41 95-140 8-48 (574)
409 cd06357 PBP1_AmiC Periplasmic 33.5 2.2E+02 0.0048 23.7 7.2 62 76-142 133-197 (360)
410 PRK12474 hypothetical protein; 33.5 1.1E+02 0.0023 27.5 5.6 41 95-140 9-49 (518)
411 PRK06066 acetyl-CoA acetyltran 33.5 1.5E+02 0.0033 26.2 6.4 14 130-143 99-112 (385)
412 PF10672 Methyltrans_SAM: S-ad 33.4 98 0.0021 26.6 5.1 49 88-140 153-201 (286)
413 cd06322 PBP1_ABC_sugar_binding 33.3 2.2E+02 0.0048 21.8 7.7 61 76-142 122-187 (267)
414 PRK01911 ppnK inorganic polyph 33.2 1.5E+02 0.0033 25.4 6.2 31 76-107 1-31 (292)
415 cd08198 DHQS-like2 Dehydroquin 33.1 2.9E+02 0.0063 24.6 8.1 68 75-142 30-107 (369)
416 cd04409 RhoGAP_PARG1 RhoGAP_PA 33.0 1.1E+02 0.0023 24.7 5.0 39 92-132 18-56 (211)
417 PRK07789 acetolactate synthase 33.0 1.1E+02 0.0023 28.3 5.7 42 94-140 34-75 (612)
418 cd06366 PBP1_GABAb_receptor Li 33.0 1.5E+02 0.0033 24.1 6.0 63 75-142 135-200 (350)
419 PRK07524 hypothetical protein; 32.9 1.1E+02 0.0023 27.5 5.5 41 94-140 5-45 (535)
420 cd06337 PBP1_ABC_ligand_bindin 32.9 1.3E+02 0.0028 25.0 5.7 64 75-142 145-211 (357)
421 cd06347 PBP1_ABC_ligand_bindin 32.8 2.5E+02 0.0055 22.3 7.6 64 75-142 135-199 (334)
422 PRK03372 ppnK inorganic polyph 32.8 1.2E+02 0.0026 26.2 5.6 31 76-107 6-36 (306)
423 PRK13057 putative lipid kinase 32.7 1.4E+02 0.003 24.6 5.7 44 94-142 15-58 (287)
424 TIGR03393 indolpyr_decarb indo 32.4 94 0.002 28.1 5.1 28 95-126 5-32 (539)
425 cd02525 Succinoglycan_BP_ExoA 32.4 1.1E+02 0.0025 22.9 4.8 26 78-106 2-27 (249)
426 TIGR01504 glyox_carbo_lig glyo 32.1 1.1E+02 0.0024 28.2 5.5 41 95-140 7-47 (588)
427 cd08549 G1PDH_related Glycerol 32.0 2.9E+02 0.0062 23.6 7.7 59 76-142 25-88 (332)
428 cd04509 PBP1_ABC_transporter_G 32.0 2.2E+02 0.0049 21.4 7.3 21 111-131 68-88 (299)
429 PF00867 XPG_I: XPG I-region; 32.0 91 0.002 21.8 4.0 29 110-140 4-32 (94)
430 CHL00094 dnaK heat shock prote 31.8 54 0.0012 30.5 3.5 67 77-144 292-371 (621)
431 PF01425 Amidase: Amidase; In 31.7 1.7E+02 0.0037 24.2 6.1 50 72-124 234-287 (441)
432 TIGR01728 SsuA_fam ABC transpo 31.5 1.7E+02 0.0037 22.6 5.8 57 72-140 98-154 (288)
433 PRK05790 putative acyltransfer 31.3 1.4E+02 0.003 25.9 5.8 66 78-143 7-115 (393)
434 PF11181 YflT: Heat induced st 31.3 71 0.0015 22.8 3.4 22 94-115 12-33 (103)
435 cd04376 RhoGAP_ARHGAP6 RhoGAP_ 31.1 1.3E+02 0.0028 24.2 5.2 39 92-132 11-49 (206)
436 COG3875 Uncharacterized conser 31.0 1.1E+02 0.0025 28.1 5.3 105 3-119 6-111 (423)
437 TIGR03111 glyc2_xrt_Gpos1 puta 30.6 1.6E+02 0.0035 25.9 6.1 39 75-116 48-86 (439)
438 cd01743 GATase1_Anthranilate_S 30.6 1.2E+02 0.0026 23.1 4.8 45 85-142 6-50 (184)
439 cd04383 RhoGAP_srGAP RhoGAP_sr 30.5 1.3E+02 0.0028 23.7 5.0 39 92-132 20-58 (188)
440 PF01170 UPF0020: Putative RNA 30.5 53 0.0011 25.6 2.8 49 80-140 64-112 (179)
441 PRK06158 thiolase; Provisional 29.9 54 0.0012 28.5 3.0 28 89-116 28-55 (384)
442 PF02421 FeoB_N: Ferrous iron 29.9 41 0.00089 26.3 2.1 33 109-141 47-85 (156)
443 PRK15408 autoinducer 2-binding 29.8 2.7E+02 0.0058 23.6 7.2 66 74-142 147-217 (336)
444 PRK01175 phosphoribosylformylg 29.6 1.4E+02 0.003 25.2 5.3 53 75-142 3-56 (261)
445 TIGR03394 indol_phenyl_DC indo 29.6 1.2E+02 0.0026 27.6 5.3 32 95-131 4-35 (535)
446 PRK05647 purN phosphoribosylgl 29.5 1E+02 0.0022 24.8 4.3 61 76-143 29-89 (200)
447 PRK09124 pyruvate dehydrogenas 29.4 1.3E+02 0.0029 27.3 5.6 41 94-139 6-46 (574)
448 cd04408 RhoGAP_GMIP RhoGAP_GMI 29.4 1.4E+02 0.003 23.8 5.1 38 92-131 18-55 (200)
449 PRK06147 3-oxoacyl-(acyl carri 29.4 1.7E+02 0.0037 25.1 5.9 16 128-143 145-160 (348)
450 cd04381 RhoGap_RalBP1 RhoGap_R 29.2 1.4E+02 0.0031 23.2 5.1 38 92-131 22-59 (182)
451 PRK06203 aroB 3-dehydroquinate 28.8 3.4E+02 0.0074 24.1 7.9 68 75-142 42-119 (389)
452 cd00159 RhoGAP RhoGAP: GTPase- 28.5 1.7E+02 0.0038 21.2 5.2 40 93-134 3-42 (169)
453 PRK06965 acetolactate synthase 28.4 1.4E+02 0.0031 27.3 5.6 42 94-140 24-65 (587)
454 cd00578 L-fuc_L-ara-isomerases 28.3 2.9E+02 0.0062 24.5 7.3 61 76-141 1-70 (452)
455 cd06339 PBP1_YraM_LppC_lipopro 28.3 3.4E+02 0.0074 22.4 7.7 60 77-139 1-64 (336)
456 PRK06457 pyruvate dehydrogenas 28.2 1.5E+02 0.0033 26.8 5.6 29 95-127 6-34 (549)
457 cd04385 RhoGAP_ARAP RhoGAP_ARA 28.2 76 0.0016 24.8 3.3 30 91-122 16-45 (184)
458 cd06421 CESA_CelA_like CESA_Ce 28.1 1.5E+02 0.0032 22.2 4.8 9 78-86 3-11 (234)
459 cd04407 RhoGAP_myosin_IXB RhoG 28.1 1.5E+02 0.0033 23.3 5.1 37 93-131 18-54 (186)
460 cd04382 RhoGAP_MgcRacGAP RhoGA 28.1 76 0.0017 25.3 3.4 29 92-122 19-47 (193)
461 cd04403 RhoGAP_ARHGAP27_15_12_ 27.8 1.7E+02 0.0036 22.9 5.2 38 93-132 19-56 (187)
462 PF08003 Methyltransf_9: Prote 27.6 26 0.00056 31.1 0.7 26 119-144 167-192 (315)
463 PF14542 Acetyltransf_CG: GCN5 27.4 1.2E+02 0.0026 20.7 3.9 39 87-135 37-75 (78)
464 cd01741 GATase1_1 Subgroup of 27.3 1.1E+02 0.0023 23.3 4.0 10 133-142 45-54 (188)
465 TIGR02845 spore_V_AD stage V s 27.2 65 0.0014 28.7 3.1 20 124-143 113-132 (327)
466 PF14681 UPRTase: Uracil phosp 27.2 87 0.0019 25.1 3.6 54 73-132 119-172 (207)
467 PRK08266 hypothetical protein; 27.2 1.7E+02 0.0036 26.4 5.7 41 95-140 8-49 (542)
468 PF02142 MGS: MGS-like domain 27.1 67 0.0015 22.3 2.6 45 95-141 20-67 (95)
469 PRK08327 acetolactate synthase 27.0 1.2E+02 0.0027 27.6 4.9 30 94-127 10-39 (569)
470 TIGR00070 hisG ATP phosphoribo 26.8 86 0.0019 25.4 3.5 31 82-122 112-142 (182)
471 KOG0541 Alkyl hydroperoxide re 26.3 82 0.0018 25.9 3.3 33 110-142 45-86 (171)
472 PF00117 GATase: Glutamine ami 26.3 1.4E+02 0.003 22.6 4.4 38 98-143 14-51 (192)
473 COG0370 FeoB Fe2+ transport sy 26.2 71 0.0015 31.0 3.3 33 109-141 50-88 (653)
474 PRK06725 acetolactate synthase 26.2 1.7E+02 0.0037 26.9 5.7 41 94-140 18-58 (570)
475 PRK06289 acetyl-CoA acetyltran 26.1 1.3E+02 0.0029 26.2 4.8 16 128-143 102-117 (403)
476 COG0400 Predicted esterase [Ge 25.9 98 0.0021 25.3 3.7 52 72-126 143-194 (207)
477 PF02662 FlpD: Methyl-viologen 25.9 1.4E+02 0.003 22.4 4.3 35 87-121 72-106 (124)
478 TIGR02720 pyruv_oxi_spxB pyruv 25.7 1.8E+02 0.004 26.6 5.8 41 96-140 4-44 (575)
479 PRK04539 ppnK inorganic polyph 25.7 2E+02 0.0042 24.8 5.6 31 76-107 6-36 (296)
480 PRK03378 ppnK inorganic polyph 25.5 1.7E+02 0.0036 25.1 5.2 31 76-107 6-36 (292)
481 TIGR00080 pimt protein-L-isoas 25.4 99 0.0022 24.2 3.6 44 90-142 111-154 (215)
482 PLN03184 chloroplast Hsp70; Pr 25.4 58 0.0012 30.9 2.6 55 91-145 346-409 (673)
483 cd04386 RhoGAP_nadrin RhoGAP_n 25.4 1.9E+02 0.0041 22.8 5.2 41 93-135 23-63 (203)
484 cd06352 PBP1_NPR_GC_like Ligan 25.3 3.9E+02 0.0085 22.1 7.6 62 76-142 138-202 (389)
485 PRK08611 pyruvate oxidase; Pro 25.1 1.9E+02 0.0041 26.5 5.7 42 94-140 7-49 (576)
486 cd04374 RhoGAP_Graf RhoGAP_Gra 25.1 91 0.002 25.1 3.4 27 92-120 30-56 (203)
487 COG0678 AHP1 Peroxiredoxin [Po 25.0 75 0.0016 25.9 2.8 33 110-142 39-80 (165)
488 PRK00843 egsA NAD(P)-dependent 24.9 4.2E+02 0.0091 22.7 7.6 59 76-142 35-95 (350)
489 TIGR00322 diphth2_R diphthamid 24.9 2.5E+02 0.0055 24.5 6.3 61 76-144 233-293 (332)
490 PRK10964 ADP-heptose:LPS hepto 24.9 3.8E+02 0.0082 22.0 7.1 11 131-141 83-93 (322)
491 cd04398 RhoGAP_fRGD1 RhoGAP_fR 24.8 2E+02 0.0043 22.3 5.1 38 92-131 18-55 (192)
492 PRK01185 ppnK inorganic polyph 24.8 1.4E+02 0.003 25.4 4.5 29 76-106 1-29 (271)
493 cd01988 Na_H_Antiporter_C The 24.7 2.3E+02 0.005 19.2 6.2 48 88-140 52-100 (132)
494 PRK09620 hypothetical protein; 24.7 1.2E+02 0.0025 25.0 4.0 35 110-144 63-97 (229)
495 TIGR03566 FMN_reduc_MsuE FMN r 24.6 70 0.0015 24.4 2.5 31 77-107 1-33 (174)
496 cd08169 DHQ-like Dehydroquinat 24.5 3.9E+02 0.0084 23.1 7.3 59 76-142 24-91 (344)
497 PF00154 RecA: recA bacterial 24.4 1.4E+02 0.0031 26.2 4.7 56 75-140 81-137 (322)
498 PF15127 DUF4565: Protein of u 24.3 61 0.0013 24.1 2.0 40 75-114 47-86 (91)
499 cd00532 MGS-like MGS-like doma 24.1 1.1E+02 0.0023 22.0 3.3 42 95-141 32-75 (112)
500 PRK13805 bifunctional acetalde 24.1 1.3E+02 0.0027 29.3 4.6 66 75-142 480-547 (862)
No 1
>PRK12419 riboflavin synthase subunit beta; Provisional
Probab=99.96 E-value=3.4e-29 Score=197.36 Aligned_cols=77 Identities=27% Similarity=0.398 Sum_probs=73.7
Q ss_pred ccCCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeeeC
Q 032216 69 FLTKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAVV 145 (145)
Q Consensus 69 ~l~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~VI 145 (145)
+.++.+++|||||+||||++||++|++||+++|+++|+.+++|+++|||||||||+++++|+++++|||||||||||
T Consensus 4 ~~~~~~~~riaIV~srfn~~It~~Ll~gA~~~l~~~G~~~~~i~v~~VPGA~EiP~~a~~l~~~~~yDaiIaLG~VI 80 (158)
T PRK12419 4 SPRFATPQRIAFIQARWHADIVDQARKGFVAEIAARGGAASQVDIFDVPGAFEIPLHAQTLAKTGRYAAIVAAALVV 80 (158)
T ss_pred CCCCCCCCEEEEEEecCCHHHHHHHHHHHHHHHHHcCCCccceEEEECCcHHHHHHHHHHHHhcCCCCEEEEEEEEE
Confidence 34567889999999999999999999999999999999999999999999999999999999999999999999997
No 2
>PLN02404 6,7-dimethyl-8-ribityllumazine synthase
Probab=99.96 E-value=3.7e-29 Score=193.83 Aligned_cols=75 Identities=80% Similarity=1.242 Sum_probs=72.5
Q ss_pred CCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeeeC
Q 032216 71 TKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAVV 145 (145)
Q Consensus 71 ~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~VI 145 (145)
.+++++|||||+||||++|+++|++||+++|+++|+.+++|+++|||||||||+++|+|+++++|||||||||||
T Consensus 3 ~~~~~~ri~IV~s~fn~~I~~~Ll~ga~~~l~~~gv~~~~i~v~~VPGa~EiP~a~~~l~~s~~~DavIaLG~VI 77 (141)
T PLN02404 3 LDGEGLRFGVVVARFNEIITKNLLEGALETFKRYSVKEENIDVVWVPGSFEIPVVAQRLAKSGKYDAILCIGAVI 77 (141)
T ss_pred cCCCCCEEEEEEecCcHHHHHHHHHHHHHHHHHcCCCccceEEEEcCcHHHHHHHHHHHHhcCCCCEEEEEEEEE
Confidence 357789999999999999999999999999999999999999999999999999999999999999999999997
No 3
>COG0054 RibH Riboflavin synthase beta-chain [Coenzyme metabolism]
Probab=99.96 E-value=7.5e-29 Score=194.73 Aligned_cols=82 Identities=49% Similarity=0.826 Sum_probs=77.4
Q ss_pred hhhhccccCCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 63 VRHLTGFLTKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 63 ~~~~~g~l~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
|+.+++.+. .++.|||||++|||++|+++|++||+++|+++|+..+||+++|||||||||+++++|+++++||||||||
T Consensus 1 m~~~~g~~~-~~~~riaIV~arfn~~I~d~ll~gA~~~l~~~G~~~~~i~vv~VPGa~EiPl~a~~La~~~~yDAvv~lG 79 (152)
T COG0054 1 MNIIEGNLV-AKGLRIAIVVARFNDDITDALLEGAVDALKRHGADVDNIDVVRVPGAFEIPLAAKKLARTGKYDAVVALG 79 (152)
T ss_pred CCccCCCcC-CCCceEEEEEeehhHHHHHHHHHHHHHHHHHcCCCcccceEEEeCCcchhHHHHHHHHhcCCcceEEEEe
Confidence 455677774 7889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeC
Q 032216 143 AVV 145 (145)
Q Consensus 143 ~VI 145 (145)
|||
T Consensus 80 ~VI 82 (152)
T COG0054 80 AVI 82 (152)
T ss_pred eEE
Confidence 998
No 4
>TIGR00114 lumazine-synth 6,7-dimethyl-8-ribityllumazine synthase. Archaeal members of this family are considered putative, although included in the seed and scoring above the trusted cutoff.
Probab=99.95 E-value=4.1e-28 Score=186.96 Aligned_cols=70 Identities=43% Similarity=0.920 Sum_probs=68.6
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeeeC
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAVV 145 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~VI 145 (145)
+|||||+||||++|+++|++||+++|+++|+.+++|+++||||+||||+++|+|+++++|||||||||||
T Consensus 1 ~ri~IV~s~~n~~i~~~L~~ga~~~l~~~g~~~~~i~v~~VPGa~EiP~a~~~l~~~~~~DavI~LG~VI 70 (138)
T TIGR00114 1 VRVGIVIARFNRDITDMLLKGAIDALKRLGAEVDNIDVIWVPGAFELPLAVKKLAETGKYDAVIALGCVI 70 (138)
T ss_pred CEEEEEEecCCHHHHHHHHHHHHHHHHHcCCCccceEEEECCcHHHHHHHHHHHHhcCCCCEEEEEeeEE
Confidence 5999999999999999999999999999999999999999999999999999999999999999999997
No 5
>PRK00061 ribH 6,7-dimethyl-8-ribityllumazine synthase; Provisional
Probab=99.95 E-value=1e-27 Score=187.40 Aligned_cols=79 Identities=56% Similarity=0.925 Sum_probs=74.2
Q ss_pred hccccCCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeeeC
Q 032216 66 LTGFLTKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAVV 145 (145)
Q Consensus 66 ~~g~l~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~VI 145 (145)
+++.+. .++.|||||+||||++|++.|++||+++|+++|+.+++++++||||+||||+++|+|+++++|||||||||||
T Consensus 4 ~~~~~~-~~~~riaIV~s~~n~~i~~~l~~ga~~~l~~~gv~~~~i~v~~VPGa~EiP~a~~~l~~~~~~DavIalG~VI 82 (154)
T PRK00061 4 IEGNLV-AKGLRIGIVVARFNDFITDALLEGALDALKRHGVSEENIDVVRVPGAFEIPLAAKKLAESGKYDAVIALGAVI 82 (154)
T ss_pred cCCCcC-CCCCEEEEEEecCcHHHHHHHHHHHHHHHHHcCCCccceEEEECCCHHHHHHHHHHHHHcCCCCEEEEEeeEE
Confidence 445554 6788999999999999999999999999999999999999999999999999999999999999999999997
No 6
>PF00885 DMRL_synthase: 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 6,7-dimethyl-8-ribityllumazine synthase (riboflavin synthase) catalyses the biosynthesis of riboflavin according to the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine. The biosynthesis of one riboflavin molecule requires one molecule of GTP and two molecules of ribulose 5-phosphate as substrates. The final step in the biosynthesis of the vitamin involves the dismutation of 6,7-dimethyl-8-ribityllumazine catalyzed by riboflavin synthase. The second product, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, is recycled in the biosynthetic pathway by 6,7-dimethyl-8-ribityllumazine synthase []. N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives inhibit riboflavin synthase []. This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex; PDB: 2O6H_D 1C41_C 2OBX_H 1VSX_H 1VSW_3 3JV8_C 3MK3_r 3NQ4_G 2A58_A 2A57_D ....
Probab=99.94 E-value=5.4e-27 Score=181.02 Aligned_cols=72 Identities=54% Similarity=0.916 Sum_probs=70.2
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeeeC
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAVV 145 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~VI 145 (145)
+++|||||+||||++|+++|+++|+++|+++|+.+++|++++|||+||||+++|+|+++++|||||||||||
T Consensus 2 ~~~ri~IV~s~~n~~i~~~ll~~a~~~l~~~g~~~~~i~~~~VPGa~ElP~a~~~l~~~~~~Davi~lG~VI 73 (144)
T PF00885_consen 2 SGLRIAIVVSRFNEEITDRLLEGALEELKRHGVAEENIEVIRVPGAFELPLAAKRLAESGRYDAVIALGCVI 73 (144)
T ss_dssp TTEEEEEEEESTTHHHHHHHHHHHHHHHHHTTTTGGCEEEEEESSGGGHHHHHHHHHHCSTESEEEEEEEEE
T ss_pred CCCEEEEEEEeccHHHHHHHHHHHHHHHHHcCCCccceEEEEcCCHHHHHHHHHHHhcccCccEEEEecccc
Confidence 468999999999999999999999999999999999999999999999999999999999999999999997
No 7
>KOG3243 consensus 6,7-dimethyl-8-ribityllumazine synthase [Coenzyme transport and metabolism]
Probab=99.93 E-value=3.7e-26 Score=178.35 Aligned_cols=87 Identities=64% Similarity=1.058 Sum_probs=83.3
Q ss_pred hhhhhhhhccccCCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEE
Q 032216 59 QTEAVRHLTGFLTKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAV 138 (145)
Q Consensus 59 ~~~a~~~~~g~l~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAV 138 (145)
|++++++-++++-+++++||+||++|||+.+++.|++||++++++++|.++||++.||||+||||+.+|.+.++++||+|
T Consensus 1 ~~~gv~~p~~s~~~G~~lR~~IvhARwN~vvi~~LvkGAiEtm~~~~V~eenI~ie~VPGS~Elp~g~~~~~~r~~~daV 80 (158)
T KOG3243|consen 1 QTAGVRHPTGSLIRGEGLRFAIVHARWNEVVIKLLVKGAIETMKKYSVREENIEIEWVPGSFELPVGAQNLGKRGKFDAV 80 (158)
T ss_pred CccccCCCChhhccCCCeEEEEEeehhHHHHHHHHHHHHHHHHHHhCcchhceeEEEcCCceeccHHHHhhhhccCceEE
Confidence 45677888888889999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeeeeC
Q 032216 139 LCIGAVV 145 (145)
Q Consensus 139 IaLG~VI 145 (145)
||||++|
T Consensus 81 i~IGvlI 87 (158)
T KOG3243|consen 81 ICIGVLI 87 (158)
T ss_pred EEEEEEE
Confidence 9999987
No 8
>PRK06455 riboflavin synthase; Provisional
Probab=99.87 E-value=4.8e-22 Score=156.71 Aligned_cols=66 Identities=18% Similarity=0.279 Sum_probs=62.0
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeeeC
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAVV 145 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~VI 145 (145)
+|||||+|+||++ .|++||+++|+++| ...+|++++|||+||||+++|+|+++++||||||||||+
T Consensus 2 ~kigIV~s~fn~~---~L~~gAi~~L~~~g-~~~~I~v~~VPGa~ELP~aakkL~~~~~yDaVIaLG~VG 67 (155)
T PRK06455 2 MKIGIADTTFARV---DMGSAAIDELRKLD-PSAKIIRYTVPGIKDLPVAAKKLIEEEGCDIVMALGMPG 67 (155)
T ss_pred cEEEEEEEecchH---HHHHHHHHHHHhcC-CCCceEEEECCCHHHHHHHHHHHHhcCCCCEEEEeccee
Confidence 6999999999997 69999999999998 556899999999999999999999999999999999984
No 9
>TIGR01506 ribC_arch riboflavin synthase. This archaeal protein catalyzes the same reaction, the final step in riboflavin biosynthesis, as bacterial riboflavin biosynthesis alpha chain. However, it is more similar in sequence to 6,7-dimethyl-8-ribityllumazine synthase, which catalyzes the previous reaction and which (in bacteria) is called the riboflavin synthase beta chain.
Probab=99.77 E-value=5e-19 Score=139.00 Aligned_cols=65 Identities=20% Similarity=0.228 Sum_probs=60.1
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeeeC
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAVV 145 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~VI 145 (145)
||+|+.+.|-+. .|.+||+++|+++| ...+|++++|||+||||+++|+|+++++|||||||||||
T Consensus 1 ~~~~~~ttf~~~---~M~~gA~~~L~~~g-~g~~i~v~~VPGa~EiP~aak~l~~~~~~DaVIaLG~VI 65 (151)
T TIGR01506 1 KVGIADTTFARY---DMGGAAIDELRKHT-AGIKIIRRTVPGIKDLPVAAKKLLEEEGCEMVITLGWVG 65 (151)
T ss_pred Ccceecchhhhh---hHHHHHHHHHHhcC-CCCeEEEEECCcHhHHHHHHHHHHhcCCCCEEEEeceEE
Confidence 589999999998 89999999999966 345699999999999999999999999999999999997
No 10
>COG1731 Archaeal riboflavin synthase [Coenzyme metabolism]
Probab=98.65 E-value=4.6e-08 Score=77.04 Aligned_cols=65 Identities=22% Similarity=0.251 Sum_probs=58.9
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~V 144 (145)
.+|||+.+.|-+. .|-.-|+++|+++--. ..|..++|||.-++|+++++|++...+|+||+||.+
T Consensus 2 ~kvGiaDTTFaRv---dMg~vai~~lk~~~~~-~~i~R~TVPGIKdlpvaakrLieeeGCd~Vi~lG~~ 66 (154)
T COG1731 2 TKVGIADTTFARV---DMGSVAIDELKKLLPG-IKIKRYTVPGIKDLPVAAKRLIEEEGCDIVIALGWV 66 (154)
T ss_pred ceeeeeccceeee---cchHHHHHHHHhhCCC-CceEEeeCCCcccChHHHHHHHHhcCCcEEEEccCc
Confidence 4899999999987 7999999999988543 468999999999999999999999999999999986
No 11
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=95.73 E-value=0.058 Score=42.91 Aligned_cols=69 Identities=12% Similarity=0.059 Sum_probs=50.0
Q ss_pred CCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 72 KNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 72 ~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
.++..+||+|...+.......|++|+.++++++|.. +.+.+.....|....+-+.+.+.++||||..++
T Consensus 32 ~~~~~~ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~~ 100 (309)
T PRK11041 32 RNESRTILVIVPDICDPFFSEIIRGIEVTAAEHGYL---VLIGDCAHQNQQEKTFVNLIITKQIDGMLLLGS 100 (309)
T ss_pred cCCCcEEEEEeCCCcCccHHHHHHHHHHHHHHCCCE---EEEEeCCCChHHHHHHHHHHHHcCCCEEEEecC
Confidence 345579999999888778888999999999999973 555444444444444333344578999999865
No 12
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=95.46 E-value=0.12 Score=42.47 Aligned_cols=66 Identities=14% Similarity=0.214 Sum_probs=42.7
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHH--hhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQL--GKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~L--a~s~~yDAVIaLG~ 143 (145)
||||++.--|+.+.+ ..+|+++.|++.|..++++++..-..--+...+.+.+ +...++|.||++|.
T Consensus 1 ~v~i~~~~~~~~~~~-~~~gf~~~L~~~g~~~~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~gt 68 (294)
T PF04392_consen 1 KVGILQFISHPALDD-IVRGFKDGLKELGYDEKNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAIGT 68 (294)
T ss_dssp EEEEEESS--HHHHH-HHHHHHHHHHHTT--CCCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEESH
T ss_pred CeEEEEEeccHHHHH-HHHHHHHHHHHcCCccccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEeCc
Confidence 789999988888655 6899999999999987677765444444444333322 23579999999983
No 13
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=94.70 E-value=0.15 Score=39.55 Aligned_cols=60 Identities=17% Similarity=0.181 Sum_probs=42.9
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaLG~ 143 (145)
||+|...++...-..+.+|..++++++|+. +.+ +++-++... .++.+ .++++||||+.++
T Consensus 2 igvi~p~~~~~~~~~~~~g~~~~a~~~g~~---~~~--~~~~~~~~~~~~~i~~~-~~~~vdgii~~~~ 64 (268)
T cd06270 2 IGLVVSDLDGPFFGPLLSGVESVARKAGKH---LII--TAGHHSAEKEREAIEFL-LERRCDALILHSK 64 (268)
T ss_pred EEEEEccccCcchHHHHHHHHHHHHHCCCE---EEE--EeCCCchHHHHHHHHHH-HHcCCCEEEEecC
Confidence 788998888888888999999999999974 333 333343322 22333 3578999999875
No 14
>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=94.66 E-value=0.16 Score=39.04 Aligned_cols=63 Identities=17% Similarity=0.116 Sum_probs=43.9
Q ss_pred EEEEEee----ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVAR----FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvAr----fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
||+|..+ |+......|++|..+.++++|+. +.+......-+---.+.++..++++||+|..++
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~i~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~ 68 (268)
T cd06271 2 IGLVLPTGEREEGDPFFAEFLSGLSEALAEHGYD---LVLLPVDPDEDPLEVYRRLVESGLVDGVIISRT 68 (268)
T ss_pred eEEEeCCcccccCCccHHHHHHHHHHHHHHCCce---EEEecCCCcHHHHHHHHHHHHcCCCCEEEEecC
Confidence 5777766 56666778999999999999974 566655544333334555555678999998654
No 15
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=94.44 E-value=0.21 Score=37.88 Aligned_cols=63 Identities=16% Similarity=0.122 Sum_probs=43.3
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH-HHHHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI-GVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL-Plaak~La~s~~yDAVIaLG~ 143 (145)
|||+|...+....-..+++|+.+.++++|+. +.++...+.-+- --.+++|... ++||||..++
T Consensus 1 ~ig~i~p~~~~~~~~~~~~~~~~~a~~~g~~---~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~~ 64 (267)
T cd01536 1 KIGLVVPSLNNPFWQAMNKGAEAAAKELGVE---LIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISPV 64 (267)
T ss_pred CEEEEeccccCHHHHHHHHHHHHHHHhcCce---EEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCC
Confidence 6899998887777788999999999998863 444444432221 1334455544 8999997653
No 16
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=94.41 E-value=0.26 Score=37.00 Aligned_cols=63 Identities=10% Similarity=0.056 Sum_probs=44.4
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc-hHHHHHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF-EIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf-ELPlaak~La~s~~yDAVIaLG~ 143 (145)
|||+|....+......+.+|+.+.++++|+. +.+.+..+.. +.--.++++.+ .++|++|+.++
T Consensus 1 ~ig~v~~~~~~~~~~~~~~g~~~~~~~~g~~---l~~~~~~~~~~~~~~~~~~~~~-~~~d~ii~~~~ 64 (264)
T cd01537 1 TIGVLVPDLDNPFFAQVLKGIEEAAKAAGYQ---VLLANSQNDAEKQLSALENLIA-RGVDGIIIAPS 64 (264)
T ss_pred CeEEEEcCCCChHHHHHHHHHHHHHHHcCCe---EEEEeCCCCHHHHHHHHHHHHH-cCCCEEEEecC
Confidence 5788887766666778999999999998873 5555554433 23445566654 47999998765
No 17
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=94.14 E-value=0.3 Score=38.39 Aligned_cols=63 Identities=8% Similarity=0.001 Sum_probs=44.7
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
||+|+..+.......|++|..++++++|.. +.+......-+..-.+.+++.+.++||||..++
T Consensus 2 Igvi~p~~~~~~~~~~~~~i~~~~~~~gy~---~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~ 64 (269)
T cd06297 2 ISVLLPVVATEFYRRLLEGIEGALLEQRYD---LALFPLLSLARLKRYLESTTLAYLTDGLLLASY 64 (269)
T ss_pred EEEEeCCCcChhHHHHHHHHHHHHHHCCCE---EEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecC
Confidence 788898887777888999999999999974 445443332233334444455678999998764
No 18
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=94.12 E-value=0.24 Score=38.30 Aligned_cols=60 Identities=17% Similarity=0.041 Sum_probs=42.5
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHH---HHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQ---QLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak---~La~s~~yDAVIaLG 142 (145)
|||+|...+.......+++|..++++++|+. +.+ ++..++.....+ .+. +.++||+|...
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~--~~~~~~~~~~~~~l~~~~-~~~vdgii~~~ 63 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEALGGD---LRV--YDAGGDDAKQADQIDQAI-AQKVDAIIIQH 63 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHcCCE---EEE--ECCCCCHHHHHHHHHHHH-HcCCCEEEEec
Confidence 5889998888778888999999999999973 444 344455443333 233 45899999864
No 19
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=93.95 E-value=0.29 Score=35.26 Aligned_cols=66 Identities=23% Similarity=0.183 Sum_probs=47.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHH-HhhcCCCcEEEEe
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQ-LGKSGKYTAVLCI 141 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~-La~s~~yDAVIaL 141 (145)
-.||+++...-+.......++|+.+.++++|+... ...+...+..+-...... ++++.+.|||||-
T Consensus 9 ~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~pdaii~~ 75 (160)
T PF13377_consen 9 HRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFE-ELIFFSDDDSEDAREAQLLWLRRLRPDAIICS 75 (160)
T ss_dssp -SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEE-GEEEEESSSHHHHHHHHHHHHHTCSSSEEEES
T ss_pred CCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCC-eeEeecCCcchhHHHHHHHHHhcCCCcEEEEc
Confidence 45899999888888899999999999999999744 334444444444443332 3454578999994
No 20
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=93.92 E-value=0.31 Score=37.80 Aligned_cols=62 Identities=11% Similarity=0.082 Sum_probs=43.4
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH-HHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV-AQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla-ak~La~s~~yDAVIaLG~ 143 (145)
||+|...+.......+++|..+.++++|.. +.+..--..-|...- ++.|. +.++||+|.+++
T Consensus 2 Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~ 64 (273)
T cd06292 2 VGLLVPELSNPIFPAFAEAIEAALAQYGYT---VLLCNTYRGGVSEADYVEDLL-ARGVRGVVFISS 64 (273)
T ss_pred EEEEeCCCcCchHHHHHHHHHHHHHHCCCE---EEEEeCCCChHHHHHHHHHHH-HcCCCEEEEeCC
Confidence 789999888888888999999999999974 444433333343333 34444 468999998764
No 21
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=93.82 E-value=0.41 Score=38.64 Aligned_cols=67 Identities=13% Similarity=0.157 Sum_probs=47.3
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH-HHHHhhcCCCcEEEEeee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV-AQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla-ak~La~s~~yDAVIaLG~ 143 (145)
.+...||++...+....-..+++|+.+.++++|.. +.+.......+.-.. ++.+ ...++||||..+.
T Consensus 57 ~~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~g~~---~~i~~~~~~~~~~~~~~~~l-~~~~vdGiIi~~~ 124 (329)
T TIGR01481 57 KRTTTVGVIIPDISNIYYAELARGIEDIATMYKYN---IILSNSDEDPEKEVQVLNTL-LSKQVDGIIFMGG 124 (329)
T ss_pred CCCCEEEEEeCCCCchhHHHHHHHHHHHHHHcCCE---EEEEeCCCCHHHHHHHHHHH-HhCCCCEEEEeCC
Confidence 34568999998887677778999999999999973 555544544443332 2333 4578999998764
No 22
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=93.79 E-value=0.39 Score=37.36 Aligned_cols=61 Identities=5% Similarity=0.049 Sum_probs=43.1
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhcCCCcEEEEee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s~~yDAVIaLG 142 (145)
||+|...++...-..+++|+.++++++|.. +.+.....-.+... +++.|. +.++||+|..+
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~l~-~~~vdgii~~~ 63 (273)
T cd01541 2 IGVITTYISDYIFPSIIRGIESVLSEKGYS---LLLASTNNDPERERKCLENML-SQGIDGLIIEP 63 (273)
T ss_pred eEEEeCCccchhHHHHHHHHHHHHHHcCCE---EEEEeCCCCHHHHHHHHHHHH-HcCCCEEEEec
Confidence 788999999888889999999999999974 54544433333332 233443 46899999753
No 23
>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=93.65 E-value=0.34 Score=37.12 Aligned_cols=63 Identities=8% Similarity=0.023 Sum_probs=42.8
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
|++|...|+......+.+|..++++++|.. +.+......-+.-..+-..+.+.++||+|..++
T Consensus 2 i~~v~~~~~~~~~~~~~~~i~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~ 64 (267)
T cd06284 2 ILVLVPDIANPFFSEILKGIEDEAREAGYG---VLLGDTRSDPEREQEYLDLLRRKQADGIILLDG 64 (267)
T ss_pred EEEEECCCCCccHHHHHHHHHHHHHHcCCe---EEEecCCCChHHHHHHHHHHHHcCCCEEEEecC
Confidence 788888888888888999999999999873 444433222222222223445678999998654
No 24
>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=93.49 E-value=0.39 Score=35.24 Aligned_cols=63 Identities=8% Similarity=0.076 Sum_probs=42.3
Q ss_pred EEEEEEeee-cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch--HH-HHHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARF-NELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE--IG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArf-N~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE--LP-laak~La~s~~yDAVIaLG~ 143 (145)
|||++...+ +......+.+|+.+.+++.|. ++++..+....+ -. -++++++ ..++|++|..++
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~~~~~~~~~~g~---~~~~~~~~~~~~~~~~~~~~~~~~-~~~~d~ii~~~~ 67 (269)
T cd01391 1 KIGVLLPLSGSAPFGAQLLAGIELAAEEIGR---GLEVILADSQSDPERALEALRDLI-QQGVDGIIGPPS 67 (269)
T ss_pred CceEEeecCCCcHHHHHHHHHHHHHHHHhCC---ceEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEecCC
Confidence 578888877 677778888999999988422 245555555554 22 3334444 458999998775
No 25
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=93.36 E-value=0.38 Score=37.32 Aligned_cols=62 Identities=16% Similarity=0.071 Sum_probs=40.9
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH---HHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV---AQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla---ak~La~s~~yDAVIaLG 142 (145)
|||+|+.++.......+.+|+.+.++++|.. +.++......+.--. ++.+ .+.++||||..+
T Consensus 1 ~Igvi~~~~~~~~~~~~~~g~~~~~~~~g~~---~~~~~~~~~~~~~~~~~~i~~l-~~~~vdgvii~~ 65 (273)
T cd06310 1 KIALVPKGTTSDFWQAVKAGAEAAAKELGVK---VTFQGPASETDVAGQVNLLENA-IARGPDAILLAP 65 (273)
T ss_pred CeEEEecCCCcHHHHHHHHHHHHHHHHcCCE---EEEecCccCCCHHHHHHHHHHH-HHhCCCEEEEcC
Confidence 7999999886666678999999999999974 333322112232222 2333 345899999865
No 26
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=93.33 E-value=0.42 Score=37.25 Aligned_cols=64 Identities=8% Similarity=0.062 Sum_probs=41.3
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
.||+|...+....-..|++|..+.++++|.. +.+..-....+--..+-..+.+.++||||..++
T Consensus 1 ~Igvv~~~~~~~~~~~~~~~i~~~a~~~g~~---~~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~ 64 (269)
T cd06281 1 TIGCLVSDITNPLLAQLFSGAEDRLRAAGYS---LLIANSLNDPERELEILRSFEQRRMDGIIIAPG 64 (269)
T ss_pred CEEEEecCCccccHHHHHHHHHHHHHHcCCE---EEEEeCCCChHHHHHHHHHHHHcCCCEEEEecC
Confidence 3788888887677778999999999999873 333322222332222222234568999998764
No 27
>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=93.32 E-value=0.53 Score=36.08 Aligned_cols=62 Identities=16% Similarity=0.121 Sum_probs=41.1
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s~~yDAVIaLG~ 143 (145)
||+|+..+....-..+.+|..++++++|.. +.+......-+--. .++.+ .+.++||||..++
T Consensus 2 Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~l-~~~~vdgiii~~~ 64 (268)
T cd01575 2 VAVLVPSLSNSVFADVLQGISDVLEAAGYQ---LLLGNTGYSPEREEELLRTL-LSRRPAGLILTGL 64 (268)
T ss_pred EEEEeCCCcchhHHHHHHHHHHHHHHcCCE---EEEecCCCCchhHHHHHHHH-HHcCCCEEEEeCC
Confidence 788888887777788999999999999873 43433222222211 23333 3568999998774
No 28
>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=93.16 E-value=0.47 Score=36.97 Aligned_cols=62 Identities=19% Similarity=0.266 Sum_probs=42.7
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaLG 142 (145)
|||+|...+.......|++|+.+.++++|.. +.+...++.-+.-. +++++. +.++||+|..+
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~ 65 (275)
T cd06320 1 KYGVVLKTLSNEFWRSLKEGYENEAKKLGVS---VDIQAAPSEGDQQGQLSIAENMI-NKGYKGLLFSP 65 (275)
T ss_pred CeeEEEecCCCHHHHHHHHHHHHHHHHhCCe---EEEEccCCCCCHHHHHHHHHHHH-HhCCCEEEECC
Confidence 6899999888888889999999999999974 55554443322211 223333 35799988654
No 29
>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=93.12 E-value=0.55 Score=36.27 Aligned_cols=61 Identities=8% Similarity=0.013 Sum_probs=43.5
Q ss_pred EEEEEeee-cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHH--hhcCCCcEEEEeee
Q 032216 78 FALVVARF-NELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQL--GKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArf-N~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~L--a~s~~yDAVIaLG~ 143 (145)
||+|...+ +......+++|+.++++++|+. +.+ .+..++.....+.+ +.+.++||+|..++
T Consensus 2 i~vi~p~~~~~~~~~~~~~g~~~~~~~~g~~---~~~--~~~~~~~~~~~~~~~~l~~~~vdgiii~~~ 65 (275)
T cd06317 2 IGYTQNNVGSHSYQTTYNKAFQAAAEEDGVE---VIV--LDANGDVARQAAQVEDLIAQKVDGIILWPT 65 (275)
T ss_pred eEEEecccCCCHHHHHHHHHHHHHHHhcCCE---EEE--EcCCcCHHHHHHHHHHHHHcCCCEEEEecC
Confidence 78888888 7778889999999999999863 333 45555555444432 23457999988764
No 30
>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=93.11 E-value=0.42 Score=36.89 Aligned_cols=62 Identities=11% Similarity=0.081 Sum_probs=43.6
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG~ 143 (145)
||||...++......+.+|..+.++++|+. +.+....+.-|-- -+++.+. ++++||+|...+
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~ 64 (270)
T cd06296 2 IGLVFPDLDSPWASEVLRGVEEAAAAAGYD---VVLSESGRRTSPERQWVERLS-ARRTDGVILVTP 64 (270)
T ss_pred eEEEECCCCCccHHHHHHHHHHHHHHcCCe---EEEecCCCchHHHHHHHHHHH-HcCCCEEEEecC
Confidence 688888888777888999999999998873 5666555544322 3344443 468999987643
No 31
>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=93.06 E-value=0.45 Score=36.87 Aligned_cols=61 Identities=13% Similarity=0.209 Sum_probs=40.4
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHH-CCCCCCCeEEEEecccchHHHH---HHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKK-YSVKEENIDVVWVPGSFEIGVV---AQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~-~Gv~~e~I~vv~VPGAfELPla---ak~La~s~~yDAVIaLG~ 143 (145)
|||+|...++...-..+.+|+.+.+++ +|+ +++...+..+.--. ++.+. +.++||+|..++
T Consensus 1 ~igvi~~~~~~~~~~~~~~gi~~~~~~~~~~-----~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~ 65 (272)
T cd06301 1 KIGVSMANFDDNFLTLLRNAMKEHAKVLGGV-----ELQFEDAKNDVATQLSQVENFI-AQGVDAIIVVPV 65 (272)
T ss_pred CeeEeecccCCHHHHHHHHHHHHHHHHcCCc-----EEEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEecC
Confidence 688999888877788899999999998 775 33333443322222 22333 457999987653
No 32
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=93.05 E-value=0.43 Score=37.07 Aligned_cols=64 Identities=9% Similarity=0.041 Sum_probs=43.0
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
.||+|...+....-..+++|+.++++++|.. +.+....+..+--...-+.+.+.++||+|..++
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~gy~---v~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~ 64 (269)
T cd06293 1 TIGLVVPDIANPFFAELADAVEEEADARGLS---LVLCATRNRPERELTYLRWLDTNHVDGLIFVTN 64 (269)
T ss_pred CEEEEeCCCCCCcHHHHHHHHHHHHHHCCCE---EEEEeCCCCHHHHHHHHHHHHHCCCCEEEEeCC
Confidence 3788888877666677999999999999974 555544433332222222344678999998764
No 33
>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=93.03 E-value=0.5 Score=36.62 Aligned_cols=62 Identities=8% Similarity=-0.038 Sum_probs=41.0
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG 142 (145)
|||+|...+....-..+.+|+.+.++++|+. +.++.-.+.-+ ---+++.+. ..++||||..+
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~i~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~ 63 (277)
T cd06319 1 QIAYIVSDLRIPFWQIMGRGVKSKAKALGYD---AVELSAENSAKKELENLRTAI-DKGVSGIIISP 63 (277)
T ss_pred CeEEEeCCCCchHHHHHHHHHHHHHHhcCCe---EEEecCCCCHHHHHHHHHHHH-hcCCCEEEEcC
Confidence 5888888888778888999999999999863 33332232221 112334443 46799998655
No 34
>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=92.81 E-value=0.55 Score=36.22 Aligned_cols=62 Identities=13% Similarity=0.112 Sum_probs=41.8
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG~ 143 (145)
||+|...++...-..++++..++++++|.. +.+..-....|.- -.++.|. +.++||+|..++
T Consensus 2 i~vv~p~~~~~~~~~~~~~i~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~ 64 (268)
T cd06273 2 IGAIVPTLDNAIFARVIQAFQETLAAHGYT---LLVASSGYDLDREYAQARKLL-ERGVDGLALIGL 64 (268)
T ss_pred eEEEeCCCCCchHHHHHHHHHHHHHHCCCE---EEEecCCCCHHHHHHHHHHHH-hcCCCEEEEeCC
Confidence 788888887777788999999999999963 4443333323322 2234444 457999998764
No 35
>PRK09492 treR trehalose repressor; Provisional
Probab=92.75 E-value=0.66 Score=37.20 Aligned_cols=66 Identities=15% Similarity=0.068 Sum_probs=43.7
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhcCCCcEEEEee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s~~yDAVIaLG 142 (145)
.+...||+|...+....-..++++..+++.++|.. +.+.......+.-. .++. +.+.++||+|..+
T Consensus 60 ~~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~~gy~---~~~~~~~~~~~~~~~~~~~-l~~~~vdgiIi~~ 126 (315)
T PRK09492 60 QSDKVVGIIVSRLDSLSENQAVRTMLPAFYEQGYD---PIIMESQFSPEKVNEHLGV-LKRRNVDGVILFG 126 (315)
T ss_pred CCCCeEEEEecCCcCcccHHHHHHHHHHHHHcCCe---EEEEecCCChHHHHHHHHH-HHhcCCCEEEEeC
Confidence 34458999999876666677999999999999974 43333322222221 2233 3457899999876
No 36
>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=92.71 E-value=0.61 Score=37.14 Aligned_cols=62 Identities=16% Similarity=0.220 Sum_probs=42.8
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHH--hhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQL--GKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~L--a~s~~yDAVIaLG 142 (145)
|||+|+..++......+.+|..++++++|+. +.++ -++-++.....+.+ +..+++||||..+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~gi~~~a~~~g~~---~~~~-~~~~~~~~~~~~~l~~~~~~~~dgiii~~ 64 (294)
T cd06316 1 KAAIVMHTSGSDWSNAQVRGAKDEFAKLGIE---VVAT-TDAQFDPAKQVADIETTISQKPDIIISIP 64 (294)
T ss_pred CeEEEecCCCChHHHHHHHHHHHHHHHcCCE---EEEe-cCCCCCHHHHHHHHHHHHHhCCCEEEEcC
Confidence 6899999888778888999999999999973 3222 24444444333332 2246799998755
No 37
>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=92.69 E-value=0.67 Score=35.68 Aligned_cols=63 Identities=10% Similarity=0.058 Sum_probs=41.1
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG~ 143 (145)
|+++....+...-..+.+|+.+.++++|+. +.+.+..+..+ .-..+.+++.+.++||+|...+
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~ 65 (270)
T cd01545 2 IGLLYDNPSPGYVSEIQLGALDACRDTGYQ---LVIEPCDSGSPDLAERVRALLQRSRVDGVILTPP 65 (270)
T ss_pred EEEEEcCCCcccHHHHHHHHHHHHHhCCCe---EEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCC
Confidence 677777766666677888888988888863 55555554333 2223333344578999987643
No 38
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=92.62 E-value=0.71 Score=35.55 Aligned_cols=63 Identities=14% Similarity=0.083 Sum_probs=41.4
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
||++...++......|.+|+.+.++++|.. +.+......-+-....-..+.+.++||||..++
T Consensus 2 i~~i~~~~~~~~~~~i~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~ 64 (260)
T cd06286 2 IGVVLPYINHPYFSQLVDGIEKAALKHGYK---VVLLQTNYDKEKELEYLELLKTKQVDGLILCSR 64 (260)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHcCCE---EEEEeCCCChHHHHHHHHHHHHcCCCEEEEeCC
Confidence 788888888877888999999999999863 444333222222222222234568999998764
No 39
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=92.61 E-value=0.69 Score=35.71 Aligned_cols=62 Identities=10% Similarity=0.014 Sum_probs=42.3
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG~ 143 (145)
||+|...+.......+.+|+.++++++|.. +.+....+.-+ .--.++. +...++||||..++
T Consensus 2 I~vi~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~-~~~~~~dgiii~~~ 64 (265)
T cd06291 2 IGLIVPTISNPFFSELARAVEKELYKKGYK---LILCNSDNDPEKEREYLEM-LRQNQVDGIIAGTH 64 (265)
T ss_pred EEEEECCCCChhHHHHHHHHHHHHHHCCCe---EEEecCCccHHHHHHHHHH-HHHcCCCEEEEecC
Confidence 789998888888889999999999999974 44433332222 1122233 34568999998763
No 40
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=92.57 E-value=0.65 Score=36.21 Aligned_cols=62 Identities=11% Similarity=0.059 Sum_probs=40.6
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s~~yDAVIaLG 142 (145)
|||+|+..+....-..+.+|..++++++|+. +.+...-+..+-.. .++.+ .+.++||||..+
T Consensus 1 ~igv~~~~~~~~~~~~~~~~i~~~~~~~g~~---v~~~~~~~~~~~~~~~i~~~-~~~~~Dgiii~~ 63 (282)
T cd06318 1 KIGFSQYTLNSPFFAALTEAAKAHAKALGYE---LISTDAQGDLTKQIADVEDL-LTRGVNVLIINP 63 (282)
T ss_pred CeeEEeccccCHHHHHHHHHHHHHHHHcCCE---EEEEcCCCCHHHHHHHHHHH-HHcCCCEEEEec
Confidence 5888888888777888999999999999873 33332222222221 23333 356899998754
No 41
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=92.55 E-value=0.66 Score=35.98 Aligned_cols=63 Identities=11% Similarity=0.078 Sum_probs=42.2
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
||++...|....-..|+++..++++++|.. +.+......-+--..+-..+.+.++||+|..++
T Consensus 2 Ig~i~p~~~~~~~~~~~~~i~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~ 64 (263)
T cd06280 2 VGLIVADIRNPFFTAVSRAVEDAAYRAGLR---VILCNTDEDPEKEAMYLELMEEERVTGVIFAPT 64 (263)
T ss_pred EEEEecccccccHHHHHHHHHHHHHHCCCE---EEEEeCCCCHHHHHHHHHHHHhCCCCEEEEeCC
Confidence 788998888777788999999999999974 444332222222222223344668999998764
No 42
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=92.55 E-value=0.63 Score=37.40 Aligned_cols=67 Identities=9% Similarity=0.063 Sum_probs=45.6
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEeee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG~ 143 (145)
.+...||+|+..+....-..+++|..+.+.++|.. +.+....+..+-- -.++.| .+.++||||..+.
T Consensus 54 ~~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~l-~~~~vdGiI~~~~ 121 (327)
T PRK10423 54 NQTRTIGMLITASTNPFYSELVRGVERSCFERGYS---LVLCNTEGDEQRMNRNLETL-MQKRVDGLLLLCT 121 (327)
T ss_pred CCCCeEEEEeCCCCCCcHHHHHHHHHHHHHHcCCE---EEEEeCCCCHHHHHHHHHHH-HHcCCCEEEEeCC
Confidence 34568999998776555667999999999999974 4454444444332 233444 3568999998763
No 43
>cd06315 PBP1_ABC_sugar_binding_like_6 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=92.50 E-value=0.61 Score=37.07 Aligned_cols=63 Identities=16% Similarity=0.028 Sum_probs=43.1
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG~ 143 (145)
+||+|...++......+++|..++++++|.. +.+....+.-+-- -.++. +.+.++||||..+.
T Consensus 2 ~ig~i~~~~~~~~~~~~~~gi~~~a~~~gy~---~~~~~~~~~~~~~~~~i~~-l~~~~vdgiil~~~ 65 (280)
T cd06315 2 NIIFVASDLKNGGILGVGEGVREAAKAIGWN---LRILDGRGSEAGQAAALNQ-AIALKPDGIVLGGV 65 (280)
T ss_pred eEEEEecccCCcHHHHHHHHHHHHHHHcCcE---EEEECCCCCHHHHHHHHHH-HHHcCCCEEEEcCC
Confidence 6899999998888889999999999999973 3333222222211 12233 34578999998764
No 44
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=92.48 E-value=0.77 Score=35.47 Aligned_cols=60 Identities=15% Similarity=0.238 Sum_probs=39.9
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~s~~yDAVIaLG~ 143 (145)
||+|+..++...-..+.+|..+.++++|.. +.+ .+.-.+-. -.++.+ .+.++||+|..++
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~gy~---~~~--~~~~~~~~~~~~~i~~l-~~~~~dgiii~~~ 64 (265)
T cd06290 2 IGVLTQDFASPFYGRILKGMERGLNGSGYS---PII--ATGHWNQSRELEALELL-KSRRVDALILLGG 64 (265)
T ss_pred EEEEECCCCCchHHHHHHHHHHHHHHCCCE---EEE--EeCCCCHHHHHHHHHHH-HHCCCCEEEEeCC
Confidence 788888888777788999999999999863 333 33333322 112223 4567999998764
No 45
>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=92.41 E-value=1 Score=33.86 Aligned_cols=68 Identities=19% Similarity=0.052 Sum_probs=44.6
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHh-hcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLG-KSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La-~s~~yDAVIaLG 142 (145)
..||+++...-+....+...+|..+.++++|...+...+...+...+ ..-.++.++ +..+.|+|+|.+
T Consensus 116 ~~~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~ 185 (264)
T cd06267 116 HRRIAFIGGPPDLSTARERLEGYREALEEAGIPLDEELIVEGDFSEESGYEAARELLASGERPTAIFAAN 185 (264)
T ss_pred CceEEEecCCCccchHHHHHHHHHHHHHHcCCCCCcceEEecccchhhHHHHHHHHHhcCCCCcEEEEcC
Confidence 46999998877766677788999999999996433333433333322 233344444 445699999864
No 46
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=92.01 E-value=0.98 Score=34.74 Aligned_cols=62 Identities=8% Similarity=0.047 Sum_probs=41.9
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc-hHH-HHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF-EIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf-ELP-laak~La~s~~yDAVIaLG~ 143 (145)
||+|...++......+++|+.+.++++|.. +.+......- +-. -.++.+ .+.++||+|..++
T Consensus 2 i~vi~~~~~~~~~~~~~~gi~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~l-~~~~vdgiii~~~ 65 (264)
T cd01574 2 IGVVTTDLALHGPSSTLAAIESAAREAGYA---VTLSMLAEADEEALRAAVRRL-LAQRVDGVIVNAP 65 (264)
T ss_pred EEEEeCCCCcccHHHHHHHHHHHHHHCCCe---EEEEeCCCCchHHHHHHHHHH-HhcCCCEEEEeCC
Confidence 788888888777788999999999999874 4444333221 111 122333 4568999998764
No 47
>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=91.98 E-value=0.86 Score=36.35 Aligned_cols=63 Identities=8% Similarity=-0.065 Sum_probs=41.3
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG~ 143 (145)
.||+|+..+-...-..+++|..++++++|+. +.++.-.+.-|-. -.++.+. ..++||||..++
T Consensus 1 ~I~vi~~~~~~~~~~~~~~gi~~~a~~~g~~---~~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~ 64 (288)
T cd01538 1 KIGLSLPTKTEERWIRDRPNFEAALKELGAE---VIVQNANGDPAKQISQIENMI-AKGVDVLVIAPV 64 (288)
T ss_pred CeEEEEeCCCcHHHHHHHHHHHHHHHHcCCE---EEEECCCCCHHHHHHHHHHHH-HcCCCEEEEecC
Confidence 3788888877777788999999999998874 4443333222322 2233333 468999987653
No 48
>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=91.92 E-value=1 Score=34.57 Aligned_cols=61 Identities=10% Similarity=0.127 Sum_probs=42.0
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH---HHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV---AQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla---ak~La~s~~yDAVIaLG~ 143 (145)
.||+|...++...-..+.+|..+.++++|.. +.++ +...+..-. ++.+. ..++||||..++
T Consensus 1 ~i~vi~~~~~~~~~~~~~~~~~~~~~~~g~~---~~~~--~~~~~~~~~~~~i~~l~-~~~vdgiii~~~ 64 (268)
T cd06298 1 TVGVIIPDITNSYFAELARGIDDIATMYKYN---IILS--NSDNDKEKELKVLNNLL-AKQVDGIIFMGG 64 (268)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHHHcCCe---EEEE--eCCCCHHHHHHHHHHHH-HhcCCEEEEeCC
Confidence 3788998888878888999999999999873 4443 333333322 23333 468999998764
No 49
>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=91.85 E-value=0.89 Score=35.35 Aligned_cols=63 Identities=6% Similarity=0.007 Sum_probs=43.0
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHC---CCCCCCeEEEEecccchHHHHHHHH--hhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKY---SVKEENIDVVWVPGSFEIGVVAQQL--GKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~---Gv~~e~I~vv~VPGAfELPlaak~L--a~s~~yDAVIaLG 142 (145)
|||+|...+.......|.+|..+.++++ |. +++++..+...+-....+.+ +.+.++||||..+
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~~i~~~~~~~~~~g~---~~~l~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~ 68 (272)
T cd06300 1 KIGLSNSYAGNTWRAQMLDEFKAQAKELKKAGL---ISEFIVTSADGDVAQQIADIRNLIAQGVDAIIINP 68 (272)
T ss_pred CeEEeccccCChHHHHHHHHHHHHHHhhhccCC---eeEEEEecCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 6888888877777778889999998888 75 24455555555544433332 1235899998865
No 50
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=91.81 E-value=1.1 Score=34.39 Aligned_cols=60 Identities=15% Similarity=0.290 Sum_probs=41.3
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH---HHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI---GVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL---Plaak~La~s~~yDAVIaLG~ 143 (145)
||+|...|.......+++|..++++++|+. +.+ .+...+- --.+++|. +.++||+|..+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~--~~~~~~~~~~~~~i~~l~-~~~~dgii~~~~ 64 (259)
T cd01542 2 IGVIVPRLDSFSTSRTVKGILAALYENGYQ---MLL--MNTNFSIEKEIEALELLA-RQKVDGIILLAT 64 (259)
T ss_pred eEEEecCCccchHHHHHHHHHHHHHHCCCE---EEE--EeCCCCHHHHHHHHHHHH-hcCCCEEEEeCC
Confidence 688888888878888999999999999974 333 3333321 12234443 478999998753
No 51
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=91.69 E-value=0.93 Score=35.17 Aligned_cols=63 Identities=16% Similarity=0.223 Sum_probs=39.2
Q ss_pred EEEEEee---ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVAR---FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvAr---fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
||+++.. +....-..+.+|..+.++++|.. +.+......-+--..+...+.+.++||||..++
T Consensus 2 vgv~~~~~~~~~~~~~~~~~~~i~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~ 67 (268)
T cd06277 2 IGLIASKRILNSPAFYSEIYRAIEEEAKKYGYN---LILKFVSDEDEEEFELPSFLEDGKVDGIILLGG 67 (268)
T ss_pred eEEEEeccccccCCcHHHHHHHHHHHHHHcCCE---EEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCC
Confidence 7788877 56666677889999999998873 444443322222222222234578999997653
No 52
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=91.63 E-value=1.1 Score=34.59 Aligned_cols=62 Identities=10% Similarity=0.098 Sum_probs=40.8
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG~ 143 (145)
||+|...+.......+++|..++++++|.. +.+.......+ .--.++.+. ..++||||..++
T Consensus 2 igvi~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~ 64 (269)
T cd06275 2 IGMLVTTSTNPFFAEVVRGVEQYCYRQGYN---LILCNTEGDPERQRSYLRMLA-QKRVDGLLVMCS 64 (269)
T ss_pred EEEEeCCCCcchHHHHHHHHHHHHHHcCCE---EEEEeCCCChHHHHHHHHHHH-HcCCCEEEEecC
Confidence 788888887777778889999999998873 44443332222 222334443 468899998764
No 53
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=91.39 E-value=0.7 Score=37.89 Aligned_cols=66 Identities=18% Similarity=0.269 Sum_probs=47.7
Q ss_pred CCCE-EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcC-CCcEEEEe
Q 032216 74 EGLR-FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSG-KYTAVLCI 141 (145)
Q Consensus 74 ~~lR-IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~-~yDAVIaL 141 (145)
...| |+++...=+......-++|..+.|+++|...+...+. -|.+..+- ++++|++++ .+|||+|.
T Consensus 117 Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~--~~~~~~~~g~~~~~~ll~~~p~idai~~~ 187 (279)
T PF00532_consen 117 GHRRPIAFIGGPEDSSTSRERLQGYRDALKEAGLPIDEEWIF--EGDFDYESGYEAARELLESHPDIDAIFCA 187 (279)
T ss_dssp TCCSTEEEEEESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEE--ESSSSHHHHHHHHHHHHHTSTT-SEEEES
T ss_pred ccCCeEEEEecCcchHHHHHHHHHHHHHHHHcCCCCCccccc--ccCCCHHHHHHHHHHHHhhCCCCEEEEEe
Confidence 3468 9999998887788888899999999999953333333 35666663 345666655 68899985
No 54
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=91.38 E-value=1.1 Score=36.46 Aligned_cols=65 Identities=8% Similarity=-0.010 Sum_probs=43.5
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc--hHHHHHHHHhhcCCCcEEEEeee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF--EIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf--ELPlaak~La~s~~yDAVIaLG~ 143 (145)
....||+|...+....-..+++|+.++++++|.. +.+......- |.. .++.+ .+.++||||..++
T Consensus 62 ~~~~Igvi~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~-~~~~~-~~~~vdgiI~~~~ 128 (331)
T PRK14987 62 TSRAIGVLLPSLTNQVFAEVLRGIESVTDAHGYQ---TMLAHYGYKPEMEQE-RLESM-LSWNIDGLILTER 128 (331)
T ss_pred CCCEEEEEeCCCcchhHHHHHHHHHHHHHHCCCE---EEEecCCCCHHHHHH-HHHHH-HhcCCCEEEEcCC
Confidence 4458999998887767778999999999999973 3333222121 222 22333 4578999998764
No 55
>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=91.32 E-value=1.3 Score=33.37 Aligned_cols=61 Identities=11% Similarity=0.089 Sum_probs=43.1
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch---HHHHHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE---IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE---LPlaak~La~s~~yDAVIaLG~ 143 (145)
+||+|...++......+.+|+.+.++++|+. +. ..+..++ .--+++.+. ..++||||..+.
T Consensus 1 ~i~~v~~~~~~~~~~~~~~g~~~~~~~~g~~---~~--~~~~~~~~~~~~~~~~~~~-~~~~d~iii~~~ 64 (264)
T cd06267 1 TIGVIVPDISNPFFAELLRGIEEAAREAGYS---VL--LCNSDEDPEKEREALELLL-SRRVDGIILAPS 64 (264)
T ss_pred CEEEEECCCCCHHHHHHHHHHHHHHHHcCCE---EE--EEcCCCCHHHHHHHHHHHH-HcCcCEEEEecC
Confidence 4788888888888888999999999998863 33 3444454 223344454 458999998653
No 56
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=91.27 E-value=1 Score=34.44 Aligned_cols=60 Identities=12% Similarity=0.129 Sum_probs=39.8
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaLG~ 143 (145)
||+|...|.......+.+|+.++++++|.. +.+.. ..++-+. .++.+. +.++||||..+.
T Consensus 2 igvi~~~~~~~~~~~~~~~i~~~a~~~g~~---~~~~~--~~~~~~~~~~~~~~l~-~~~~dgiii~~~ 64 (267)
T cd06283 2 IGVIVADITNPFSSLVLKGIEDVCRAHGYQ---VLVCN--SDNDPEKEKEYLESLL-AYQVDGLIVNPT 64 (267)
T ss_pred EEEEecCCccccHHHHHHHHHHHHHHcCCE---EEEEc--CCCCHHHHHHHHHHHH-HcCcCEEEEeCC
Confidence 678888887777778999999999998863 43333 3333332 233333 468899987653
No 57
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=91.12 E-value=1.6 Score=35.40 Aligned_cols=67 Identities=15% Similarity=0.063 Sum_probs=45.1
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEeee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG~ 143 (145)
.....||++...|....-..+.+|..+.++++|.. +.+.......| ..-.++.|. ..++||||..+.
T Consensus 62 ~~~~~Igvv~~~~~~~~~~~i~~gi~~~a~~~g~~---~~~~~~~~~~~~~~~~~~~l~-~~~vdgiIi~~~ 129 (342)
T PRK10014 62 GQSGVIGLIVRDLSAPFYAELTAGLTEALEAQGRM---VFLLQGGKDGEQLAQRFSTLL-NQGVDGVVIAGA 129 (342)
T ss_pred CCCCEEEEEeCCCccchHHHHHHHHHHHHHHcCCE---EEEEeCCCCHHHHHHHHHHHH-hCCCCEEEEeCC
Confidence 44568999999887777778999999999999963 33333222222 223334443 467999998753
No 58
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=91.07 E-value=1.1 Score=36.40 Aligned_cols=60 Identities=7% Similarity=0.040 Sum_probs=40.4
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHH--CCCCCCCeEEEEecccchH--H-HHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKK--YSVKEENIDVVWVPGSFEI--G-VVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~--~Gv~~e~I~vv~VPGAfEL--P-laak~La~s~~yDAVIaLG 142 (145)
|||+|+.+++...-..+++|..+++++ +|+ ++...++..+. - -.++.+ ...++||||..+
T Consensus 1 ~Igviv~~~~~~~~~~~~~gi~~~a~~~~~g~-----~~~~~~~~~~~~~q~~~i~~l-~~~~vdgiii~~ 65 (303)
T cd01539 1 KIGVFLYKFDDTFISLVRKNLEDIQKENGGKV-----EFTFYDAKNNQSTQNEQIDTA-LAKGVDLLAVNL 65 (303)
T ss_pred CeEEEeeCCCChHHHHHHHHHHHHHHhhCCCe-----eEEEecCCCCHHHHHHHHHHH-HHcCCCEEEEec
Confidence 689999998888888899999999998 554 33434443322 2 223333 345899998764
No 59
>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=91.04 E-value=1.1 Score=34.26 Aligned_cols=62 Identities=15% Similarity=0.143 Sum_probs=42.0
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
||++...+....-..+.+|..+.++++|.. +.++.....-+.--.++.+. +.++||+|..++
T Consensus 2 I~~i~~~~~~~~~~~~~~~i~~~~~~~g~~---~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~ 63 (266)
T cd06278 2 IGVVVADLDNPFYSELLEALSRALQARGYQ---PLLINTDDDEDLDAALRQLL-QYRVDGVIVTSG 63 (266)
T ss_pred EEEEeCCCCCchHHHHHHHHHHHHHHCCCe---EEEEcCCCCHHHHHHHHHHH-HcCCCEEEEecC
Confidence 678888887777778889999999999974 44544443223333444444 467999997654
No 60
>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=91.00 E-value=1.3 Score=33.80 Aligned_cols=59 Identities=8% Similarity=0.108 Sum_probs=36.8
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaLG 142 (145)
||+|...+....-..+.+|+.+.++++|.. +.+... .++-.. +++.| .+.++||||...
T Consensus 2 igvv~~~~~~~~~~~~~~~i~~~~~~~g~~---~~~~~~--~~~~~~~~~~~~~l-~~~~vdgiii~~ 63 (266)
T cd06282 2 VGVVLPSLANPVFAECVQGIQEEARAAGYS---LLLATT--DYDAEREADAVETL-LRQRVDGLILTV 63 (266)
T ss_pred eEEEeCCCCcchHHHHHHHHHHHHHHCCCE---EEEeeC--CCCHHHHHHHHHHH-HhcCCCEEEEec
Confidence 678887776666667888888888888863 444332 233222 22333 346789988653
No 61
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=90.97 E-value=1.3 Score=36.08 Aligned_cols=67 Identities=7% Similarity=-0.004 Sum_probs=45.1
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
.+...||++...+....-..+++|..++++++|.. +.+..-.+..+--.-.-..+...++||||..+
T Consensus 57 ~~~~~i~vi~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~ 123 (341)
T PRK10703 57 NHTKSIGLLATSSEAPYFAEIIEAVEKNCYQKGYT---LILCNAWNNLEKQRAYLSMLAQKRVDGLLVMC 123 (341)
T ss_pred CCCCeEEEEeCCCCCchHHHHHHHHHHHHHHCCCE---EEEEeCCCCHHHHHHHHHHHHHcCCCEEEEec
Confidence 34468999999887777778999999999999974 44443333333222222223456899999765
No 62
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=90.95 E-value=1.1 Score=35.37 Aligned_cols=62 Identities=11% Similarity=0.109 Sum_probs=42.2
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc--cch-HHHHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG--SFE-IGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG--AfE-LPlaak~La~s~~yDAVIaLG 142 (145)
|||+|+.+++......++.|..++++++|+. +.+....+ ..+ .--.++.+. +.++||||..+
T Consensus 1 ~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~---~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiI~~~ 65 (268)
T cd06306 1 KLCVLYPHLKDAYWLSVNYGMVEEAKRLGVS---LKLLEAGGYPNLAKQIAQLEDCA-AWGADAILLGA 65 (268)
T ss_pred CeEEEcCCCCCHHHHHHHHHHHHHHHHcCCE---EEEecCCCCCCHHHHHHHHHHHH-HcCCCEEEEcC
Confidence 6899999988888888999999999999973 43332211 111 112344444 45899999764
No 63
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=90.94 E-value=1.4 Score=34.44 Aligned_cols=64 Identities=11% Similarity=0.138 Sum_probs=43.0
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHH--hhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQL--GKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~L--a~s~~yDAVIaLG 142 (145)
|||+|+..++......+++++.++++++|...-.+ ..+.+..++-....+.+ +.+ ++||+|..+
T Consensus 1 ~ig~v~~~~~~~~~~~~~~~i~~~~~~~g~~~~~~-~~~~~~~~~~~~~~~~i~~~~~-~vdgiii~~ 66 (275)
T cd06307 1 RLGFLLPKGSNAFYRELAAALEAAAAAFPDARIRV-RIHFVESFDPAALAAALLRLGA-RSDGVALVA 66 (275)
T ss_pred CeEEEeCCCCChHHHHHHHHHHHHHhhhhccCceE-EEEEccCCCHHHHHHHHHHHHh-cCCEEEEeC
Confidence 68999999988888999999999999998752222 22223333333333332 234 899999865
No 64
>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=90.84 E-value=1.1 Score=34.42 Aligned_cols=59 Identities=17% Similarity=0.179 Sum_probs=39.1
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaLG 142 (145)
||+|...+.......+.+++.+.++++|+. +.+ .+...+..- +++.+ .+.++||||..+
T Consensus 2 I~vv~~~~~~~~~~~~~~~i~~~~~~~g~~---v~~--~~~~~~~~~~~~~~~~~-~~~~~dgii~~~ 63 (268)
T cd06323 2 IGLSVSTLNNPFFVTLKDGAQKEAKELGYE---LTV--LDAQNDAAKQLNDIEDL-ITRGVDAIIINP 63 (268)
T ss_pred eeEecccccCHHHHHHHHHHHHHHHHcCce---EEe--cCCCCCHHHHHHHHHHH-HHcCCCEEEEcC
Confidence 688888888888888999999999998863 433 333332221 22222 345799988754
No 65
>PRK09701 D-allose transporter subunit; Provisional
Probab=90.83 E-value=1.4 Score=35.99 Aligned_cols=66 Identities=14% Similarity=0.170 Sum_probs=47.9
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHH--hhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQL--GKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~L--a~s~~yDAVIaLG 142 (145)
....||+|+..+....-..+.+|+.++++++|+. +.++..|+..+..-..+.+ +...++||||..+
T Consensus 23 ~~~~Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~---v~~~~~~~~~~~~~~~~~i~~l~~~~vDgiIi~~ 90 (311)
T PRK09701 23 AAAEYAVVLKTLSNPFWVDMKKGIEDEAKTLGVS---VDIFASPSEGDFQSQLQLFEDLSNKNYKGIAFAP 90 (311)
T ss_pred cCCeEEEEeCCCCCHHHHHHHHHHHHHHHHcCCe---EEEecCCCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 3459999998888777788999999999999974 4455457666665433332 2346799999865
No 66
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=90.82 E-value=1.2 Score=34.25 Aligned_cols=60 Identities=5% Similarity=-0.033 Sum_probs=38.0
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH---HHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV---AQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla---ak~La~s~~yDAVIaLG~ 143 (145)
||+|...+....-..+.+|..++++++|+. +.++ +...+-.-- ++. +...++||||..+.
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~--~~~~~~~~~~~~~~~-l~~~~vdgiIi~~~ 64 (265)
T cd06299 2 IGVIVPDIRNPYFASLATAIQDAASAAGYS---TIIG--NSDENPETENRYLDN-LLSQRVDGIIVVPH 64 (265)
T ss_pred EEEEecCCCCccHHHHHHHHHHHHHHcCCE---EEEE--eCCCCHHHHHHHHHH-HHhcCCCEEEEcCC
Confidence 678887765555567889999999988863 4433 333333222 222 33568999998753
No 67
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=90.71 E-value=1.5 Score=35.35 Aligned_cols=66 Identities=6% Similarity=0.036 Sum_probs=42.6
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEeee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG~ 143 (145)
+...||+|...|....-..+++|..++++++|.. +.+...-...+-- -.++.| ...++||||.++.
T Consensus 60 ~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~l-~~~~vdgiIi~~~ 126 (328)
T PRK11303 60 RTRSIGLIIPDLENTSYARIAKYLERQARQRGYQ---LLIACSDDQPDNEMRCAEHL-LQRQVDALIVSTS 126 (328)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHHcCCE---EEEEeCCCCHHHHHHHHHHH-HHcCCCEEEEcCC
Confidence 4457999998776555667999999999999974 4443321111211 123333 3568999998764
No 68
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=90.65 E-value=1.5 Score=33.99 Aligned_cols=62 Identities=8% Similarity=0.104 Sum_probs=36.4
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s~~yDAVIaLG~ 143 (145)
||+++..|-...-..|.++..+.++++|.. +.+...-+.-+--. .++.+ .+.++||||..++
T Consensus 2 igvi~~~~~~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~l-~~~~vdgiii~~~ 64 (264)
T cd06274 2 IGLIIPDLENRSFARIAKRLEALARERGYQ---LLIACSDDDPETERETVETL-IARQVDALIVAGS 64 (264)
T ss_pred EEEEeccccCchHHHHHHHHHHHHHHCCCE---EEEEeCCCCHHHHHHHHHHH-HHcCCCEEEEcCC
Confidence 677777766666677888888888888763 44443322211111 12222 3457888887653
No 69
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=90.65 E-value=1.3 Score=34.14 Aligned_cols=59 Identities=17% Similarity=0.303 Sum_probs=42.2
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
||+|..++.......+++|..+.++++|.. +.+...+ ..+ -..+. +.+.++||||..++
T Consensus 2 igvv~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~-~~~--~~~~~-l~~~~vdgii~~~~ 60 (261)
T cd06272 2 IGLIWPSVSRVALTELVTGINQAISKNGYN---MNVSITP-SLA--EAEDL-FKENRFDGVIIFGE 60 (261)
T ss_pred EEEEecCCCchhHHHHHHHHHHHHHHcCCE---EEEEecc-cHH--HHHHH-HHHcCcCEEEEeCC
Confidence 788888888888888999999999999863 5555554 211 12233 45568999998764
No 70
>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=90.64 E-value=1.9 Score=33.03 Aligned_cols=68 Identities=18% Similarity=0.080 Sum_probs=43.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s-~~yDAVIaLG 142 (145)
..||+++..+-+......-.+|..+.++++|+......+..-+...+-.. +++++++. .++|||+|.+
T Consensus 120 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 189 (268)
T cd06271 120 HRRIALLNPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCSS 189 (268)
T ss_pred CCcEEEecCccccchHHHHHHHHHHHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEcC
Confidence 46899998665544445567999999999998643333444343443322 34455444 4699999975
No 71
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=90.60 E-value=1.7 Score=35.13 Aligned_cols=67 Identities=15% Similarity=0.108 Sum_probs=43.5
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEeee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG~ 143 (145)
.....||++...+.......++++..+.+.++|.. +.+.......|-- -..+. +.+.++||+|.++.
T Consensus 57 ~~~~~Ig~i~~~~~~~~~~~~~~~i~~~~~~~gy~---~~i~~~~~~~~~~~~~~~~-l~~~~vdGvIi~~~ 124 (311)
T TIGR02405 57 GSDKVVAVIVSRLDSPSENLAVSGMLPVFYTAGYD---PIIMESQFSPQLTNEHLSV-LQKRNVDGVILFGF 124 (311)
T ss_pred CCCCEEEEEeCCcccccHHHHHHHHHHHHHHCCCe---EEEecCCCChHHHHHHHHH-HHhcCCCEEEEeCC
Confidence 34457999998776556667899999999999974 3333222222211 22333 34568999998863
No 72
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=90.57 E-value=1.7 Score=34.48 Aligned_cols=63 Identities=17% Similarity=0.182 Sum_probs=40.0
Q ss_pred EEEEEEee---ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVAR---FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvAr---fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
|||+|..+ +....-..+++|..++++++|+. +.+...-..-+.--.++.| ..+++||||.+++
T Consensus 1 ~I~~i~~~~~~~~~~f~~~~~~gi~~~~~~~gy~---~~i~~~~~~~~~~~~i~~l-~~~~vdgiI~~~~ 66 (265)
T cd06354 1 KVALVTDVGGLGDKSFNQSAWEGLERAAKELGIE---YKYVESKSDADYEPNLEQL-ADAGYDLIVGVGF 66 (265)
T ss_pred CEEEEeCCCCcCchhHHHHHHHHHHHHHHHcCCe---EEEEecCCHHHHHHHHHHH-HhCCCCEEEEcCc
Confidence 68888877 55566667999999999999974 3333221111111223333 4578999998764
No 73
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=90.52 E-value=1.6 Score=34.28 Aligned_cols=63 Identities=19% Similarity=0.186 Sum_probs=37.8
Q ss_pred EEEEEEee--ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVAR--FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvAr--fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
|||+|... +....-..|++|..+.++++|+. +.+......-+.--..+.| ...++||||..+.
T Consensus 1 ~Igvi~~~~~~~~~f~~~l~~gi~~~~~~~gy~---~~~~~~~~~~~~~~~~~~l-~~~~vdgiii~~~ 65 (260)
T cd06304 1 KVALVYDGGGGDKSFNQSAYEGLEKAEKELGVE---VKYVESVEDADYEPNLRQL-AAQGYDLIFGVGF 65 (260)
T ss_pred CEEEEecCCCCcchHHHHHHHHHHHHHHhcCce---EEEEecCCHHHHHHHHHHH-HHcCCCEEEECCc
Confidence 68888874 44555667888888888888873 4444333111111223333 3457899987653
No 74
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=90.48 E-value=1.5 Score=35.37 Aligned_cols=67 Identities=9% Similarity=0.126 Sum_probs=44.7
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEeee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG~ 143 (145)
.....||++...+....-..++++..++++++|.. +.+......-+-- -.++.+ .+.++||+|..+.
T Consensus 58 ~~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~---~~i~~~~~~~~~~~~~~~~l-~~~~vdgiIi~~~ 125 (327)
T TIGR02417 58 GRSRTIGLVIPDLENYSYARIAKELEQQCREAGYQ---LLIACSDDNPDQEKVVIENL-LARQVDALIVASC 125 (327)
T ss_pred CCCceEEEEeCCCCCccHHHHHHHHHHHHHHCCCE---EEEEeCCCCHHHHHHHHHHH-HHcCCCEEEEeCC
Confidence 34468999998877666778999999999999974 4444433322211 223333 3568999998753
No 75
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=90.45 E-value=1.7 Score=36.40 Aligned_cols=65 Identities=5% Similarity=-0.049 Sum_probs=47.9
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEeee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaLG~ 143 (145)
.+..+||+|....+..--..+++|..++++++|+. +..+++..+-.- .++.+. +.++||+|..++
T Consensus 23 ~~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~-----l~i~~~~~~~~~~~~~i~~l~-~~~vDGiIi~~~ 90 (330)
T PRK10355 23 AKEVKIGMAIDDLRLERWQKDRDIFVKKAESLGAK-----VFVQSANGNEETQMSQIENMI-NRGVDVLVIIPY 90 (330)
T ss_pred CCCceEEEEecCCCchHHHHHHHHHHHHHHHcCCE-----EEEECCCCCHHHHHHHHHHHH-HcCCCEEEEeCC
Confidence 45779999999998888899999999999999973 344555544322 233343 468999998764
No 76
>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=90.45 E-value=1.5 Score=33.63 Aligned_cols=60 Identities=10% Similarity=0.118 Sum_probs=39.9
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~s~~yDAVIaLG~ 143 (145)
||+|...|....-..+++|+.+.++++|+. + +..++..+.- -.++.+. +.++||+|..++
T Consensus 2 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~---~--~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~ 64 (268)
T cd06289 2 IGLVINDLTNPFFAELAAGLEEVLEEAGYT---V--FLANSGEDVERQEQLLSTML-EHGVAGIILCPA 64 (268)
T ss_pred EEEEecCCCcchHHHHHHHHHHHHHHcCCe---E--EEecCCCChHHHHHHHHHHH-HcCCCEEEEeCC
Confidence 678887777666777899999999998863 3 3344433321 2233343 468999998764
No 77
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=90.42 E-value=1.3 Score=35.56 Aligned_cols=62 Identities=18% Similarity=0.130 Sum_probs=40.6
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~s~~yDAVIaLG 142 (145)
||++|+..++...-..+.+|+.++++++|+. +.+....+-.+.. -.++.+ .+.++||||..+
T Consensus 1 ~igvvvp~~~n~f~~~~~~gi~~~a~~~g~~---v~~~~~~~~~~~~~~~~~i~~l-~~~~vDgiIi~~ 65 (295)
T TIGR02955 1 KLCALYPHLKDSYWLSINYGMVEQAKHLGVE---LKVLEAGGYPNLDKQLAQIEQC-KSWGADAILLGT 65 (295)
T ss_pred CeeEEecCCCcHHHHHHHHHHHHHHHHhCCE---EEEEcCCCCCCHHHHHHHHHHH-HHcCCCEEEEec
Confidence 5888888887777778889999999988873 4444333212211 233333 357899998754
No 78
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=90.19 E-value=1.6 Score=34.54 Aligned_cols=59 Identities=22% Similarity=0.308 Sum_probs=40.2
Q ss_pred EEEEEee-----ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVAR-----FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvAr-----fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
||+|+.. |.......+++|..+.++++|.. +.+ ++..+|.. ..+ .+...++||+|..++
T Consensus 2 igvi~p~~~~~~~~~~~~~~~~~gi~~~a~~~g~~---~~~--~~~~~~~~-~~~-~~~~~~~dgiii~~~ 65 (283)
T cd06279 2 VGVVLTDSLSYAFSDPVASQFLAGVAEVLDAAGVN---LLL--LPASSEDS-DSA-LVVSALVDGFIVYGV 65 (283)
T ss_pred EEEEeCCcccccccCccHHHHHHHHHHHHHHCCCE---EEE--ecCccHHH-HHH-HHHhcCCCEEEEeCC
Confidence 6777777 66666777999999999999973 333 34434432 222 344678999998764
No 79
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=90.16 E-value=2 Score=33.38 Aligned_cols=63 Identities=25% Similarity=0.354 Sum_probs=41.7
Q ss_pred CEEEEEEee-------ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 76 LRFALVVAR-------FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 76 lRIaIVvAr-------fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
..|||++.+ +....-..+++|+.+.++++|+. +.++..... +...+.+.+ .+.++||||..++
T Consensus 4 ~~i~vi~p~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~---~~v~~~~~~-~~~~~~~~l-~~~~~dgiii~~~ 73 (275)
T cd06295 4 DTIALVVPEPHERDQSFSDPFFLSLLGGIADALAERGYD---LLLSFVSSP-DRDWLARYL-ASGRADGVILIGQ 73 (275)
T ss_pred eEEEEEecCccccccccCCchHHHHHHHHHHHHHHcCCE---EEEEeCCch-hHHHHHHHH-HhCCCCEEEEeCC
Confidence 468888864 34445566889999999999974 555544333 444444433 4578999998764
No 80
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=90.03 E-value=1.9 Score=34.69 Aligned_cols=61 Identities=18% Similarity=0.143 Sum_probs=42.8
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHHHHHHHHh--hcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIGVVAQQLG--KSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELPlaak~La--~s~~yDAVIaLG 142 (145)
+|++|...++...-..+++|+.++++++|+. +.. .+.-.+-....+.+- .+.++||||..+
T Consensus 1 ~I~vi~~~~~~~f~~~i~~gi~~~a~~~g~~-----v~~~~~~~~d~~~~~~~i~~~~~~~~DgiIi~~ 64 (298)
T cd06302 1 TIAFVPKVTGIPYFNRMEEGAKEAAKELGVD-----AIYVGPTTADAAGQVQIIEDLIAQGVDAIAVVP 64 (298)
T ss_pred CEEEEEcCCCChHHHHHHHHHHHHHHHhCCe-----EEEECCCCCCHHHHHHHHHHHHhcCCCEEEEec
Confidence 5788887777666777999999999998863 443 366565554444332 245799999875
No 81
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=90.01 E-value=1.8 Score=33.71 Aligned_cols=61 Identities=3% Similarity=0.027 Sum_probs=35.2
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHC-CCCCCCeEEEEecccc--hHHHHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKY-SVKEENIDVVWVPGSF--EIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~-Gv~~e~I~vv~VPGAf--ELPlaak~La~s~~yDAVIaLG 142 (145)
+||+++..|.......++++..+.+.++ |+. +.+...++.. |.... +.+. ..++||||..+
T Consensus 1 ~ig~~~~~~~~~~~~~~~~~i~~~~~~~~g~~---~~~~~~~~~~~~~~~~i-~~~~-~~~vdgiii~~ 64 (270)
T cd06308 1 VIGFSQCNLADPWRAAMNDEIQREASNYPDVE---LIIADAADDNSKQVADI-ENFI-RQGVDLLIISP 64 (270)
T ss_pred CEEEEeeCCCCHHHHHHHHHHHHHHHhcCCcE---EEEEcCCCCHHHHHHHH-HHHH-HhCCCEEEEec
Confidence 4677777666666667777777777775 653 4444444443 22222 2222 35678777654
No 82
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=89.92 E-value=2.1 Score=35.09 Aligned_cols=64 Identities=6% Similarity=0.059 Sum_probs=51.9
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
..||+|+.......-..++.|..++++++|.. +-+....+.-|.--.++.| .+.++||+|..+.
T Consensus 2 ~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~---l~l~~t~~~~~~e~~i~~l-~~~~vDGiI~~s~ 65 (279)
T PF00532_consen 2 KTIGVIVPDISNPFFAEIIRGIEQEAREHGYQ---LLLCNTGDDEEKEEYIELL-LQRRVDGIILASS 65 (279)
T ss_dssp CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCE---EEEEEETTTHHHHHHHHHH-HHTTSSEEEEESS
T ss_pred CEEEEEECCCCCcHHHHHHHHHHHHHHHcCCE---EEEecCCCchHHHHHHHHH-HhcCCCEEEEecc
Confidence 37999999998777788999999999999984 6777888888887555544 5679999998753
No 83
>cd06293 PBP1_LacI_like_11 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=89.85 E-value=1.6 Score=33.92 Aligned_cols=69 Identities=20% Similarity=0.107 Sum_probs=41.6
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhc-CCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s-~~yDAVIaLG 142 (145)
...||+++...=+......-.+|.++.++++|.......+.+..-.+|-. -.++++.++ .++|||+|-.
T Consensus 115 G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 185 (269)
T cd06293 115 GHRRIAFVGGPDALISARERYAGYREALAEAHIPEVPEYVCFGDYTREFGRAAAAQLLARGDPPTAIFAAS 185 (269)
T ss_pred CCceEEEEecCcccccHHHHHHHHHHHHHHcCCCCChheEEecCCCHHHHHHHHHHHHcCCCCCCEEEEcC
Confidence 34699999765443333344699999999999864433443333333322 133444443 5689999864
No 84
>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=89.40 E-value=1.6 Score=33.86 Aligned_cols=63 Identities=17% Similarity=0.215 Sum_probs=40.6
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHH--hhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQL--GKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~L--a~s~~yDAVIaLG 142 (145)
+||+|+..+....-..|.+|..++++++|. +..++..++..+.....+.+ +...++||+|..+
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~~~---~~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiIi~~ 65 (271)
T cd06321 1 KIGVSVGDLGNPFFVALAKGAEAAAKKLNP---GVKVTVVSADYDLNKQVSQIDNFIAAKVDLILLNA 65 (271)
T ss_pred CeEEEecccCCHHHHHHHHHHHHHHHHhCC---CeEEEEccCCCCHHHHHHHHHHHHHhCCCEEEEeC
Confidence 478888887777777888999999998542 24455555555443332222 2346789988754
No 85
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=89.32 E-value=1.6 Score=33.57 Aligned_cols=62 Identities=10% Similarity=0.074 Sum_probs=35.6
Q ss_pred EEEEEee-----ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 78 FALVVAR-----FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 78 IaIVvAr-----fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
||+++.. |.......+.+++.+.++++|.. +.+..-.+.-+---.+..++.++++||||..+
T Consensus 2 igli~p~~~~~~~~~~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~ 68 (270)
T cd06294 2 IGVVLPPSADEAFQNPFFIEVLRGISAVANENGYD---ISLATGKNEEELLEEVKKMIQQKRVDGFILLY 68 (270)
T ss_pred EEEEeCCccccCcCCCCHHHHHHHHHHHHHHCCCE---EEEecCCCcHHHHHHHHHHHHHcCcCEEEEec
Confidence 4555543 44455567888888888888863 43333222222223344445567788888754
No 86
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=89.31 E-value=2.3 Score=34.80 Aligned_cols=67 Identities=9% Similarity=-0.049 Sum_probs=44.7
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEeee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG~ 143 (145)
.....||+|...+....-..|++|+.++++++|.. +.+.......|-- -.++.|. +.++||+|..+.
T Consensus 57 ~~~~~Igvi~~~~~~~f~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~~ 124 (343)
T PRK10727 57 QSTETVGLVVGDVSDPFFGAMVKAVEQVAYHTGNF---LLIGNGYHNEQKERQAIEQLI-RHRCAALVVHAK 124 (343)
T ss_pred CCCCeEEEEeCCCCcchHHHHHHHHHHHHHHcCCE---EEEEeCCCCHHHHHHHHHHHH-hcCCCEEEEecC
Confidence 34457999998887667778999999999999973 4333333322221 2234443 568999998753
No 87
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=89.24 E-value=1.6 Score=35.56 Aligned_cols=61 Identities=7% Similarity=-0.070 Sum_probs=33.8
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhcCCCcEEEEee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s~~yDAVIaLG 142 (145)
||++..+++...-+.+.++..++++++|+. +.+....+..+.-. .++. +...++||||..+
T Consensus 1 ig~~~~~~~~~~~~~~~~~i~~~a~~~g~~---v~~~~~~~~~~~q~~~i~~-l~~~~vDgIIi~~ 62 (302)
T TIGR02634 1 IGVSIDDLRLERWQKDRDIFVAAAESLGAK---VFVQSANGNEAKQISQIEN-LIARGVDVLVIIP 62 (302)
T ss_pred CeeecCccchhhHHHHHHHHHHHHHhcCCE---EEEEeCCCCHHHHHHHHHH-HHHcCCCEEEEeC
Confidence 466777777777777777777777777763 33332222222111 1122 2345677777654
No 88
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=89.22 E-value=2 Score=33.09 Aligned_cols=66 Identities=17% Similarity=0.162 Sum_probs=42.6
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH--H-HHHHHHhhcCCCcEEEEeee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI--G-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL--P-laak~La~s~~yDAVIaLG~ 143 (145)
..||+++...-+....+.-.+|..+.++++|...+...+ .+|.+.. . -.++.+.+++ +|||+|.+.
T Consensus 116 ~~~I~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~-~~av~~~~d 184 (265)
T cd06299 116 HKKIGYISGPQDTSTGRERLEAFRQACASLGLEVNEDLV--VLGGYSQESGYAGATKLLDQG-ATAIIAGDS 184 (265)
T ss_pred CCcEEEEeCCCCcccHHHHHHHHHHHHHHCCCCCChHhE--EecCcchHHHHHHHHHHHcCC-CCEEEEcCc
Confidence 459999987766556667779999999999974222222 2344332 1 1334455544 999999754
No 89
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=88.98 E-value=2.2 Score=33.01 Aligned_cols=60 Identities=13% Similarity=0.078 Sum_probs=40.7
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH---HHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV---AQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla---ak~La~s~~yDAVIaLG~ 143 (145)
||+|...|....-..+++|..+.++++|.. +.+ .++..+.... ++. +.+.++||||..++
T Consensus 2 igvi~p~~~~~~~~~~~~gi~~~~~~~~~~---~~~--~~~~~~~~~~~~~i~~-l~~~~~dgiii~~~ 64 (265)
T cd06285 2 IGVLVPRLTDTVMATMYEGIEEAAAERGYS---TFV--ANTGDNPDAQRRAIEM-LLDRRVDGLILGDA 64 (265)
T ss_pred EEEEeCCCCCccHHHHHHHHHHHHHHCCCE---EEE--EeCCCCHHHHHHHHHH-HHHcCCCEEEEecC
Confidence 788888887777788999999999999974 433 3333333221 222 34578999997654
No 90
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=88.93 E-value=2.6 Score=35.13 Aligned_cols=64 Identities=14% Similarity=0.101 Sum_probs=46.4
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch---HHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE---IGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE---LPlaak~La~s~~yDAVIaLG 142 (145)
..+||+|...++......+.+|..++++++|+. +.+...++..+ .--.++.+. ..++||||..+
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~---l~i~~~~~~~~~~~q~~~i~~l~-~~~vdgIIl~~ 112 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVD---LKVLEAGGYYNLAKQQQQLEQCV-AWGADAILLGA 112 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCE---EEEEcCCCCCCHHHHHHHHHHHH-HhCCCEEEEeC
Confidence 569999998887777888999999999999973 55555544343 223344444 45799999865
No 91
>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=88.68 E-value=2.5 Score=32.67 Aligned_cols=62 Identities=13% Similarity=0.042 Sum_probs=36.8
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH-HHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV-AQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla-ak~La~s~~yDAVIaLG~ 143 (145)
||+|....-......+++|+.+.++++|+. +.+....+..+.-.. ++.+ .+.++||+|..++
T Consensus 2 i~~~~~~~~~~~~~~~~~~i~~~~~~~g~~---~~i~~~~~~~~~~~~~~~~~-~~~~vdgiii~~~ 64 (267)
T cd06322 2 IGASLLTQQHPFYIELANAMKEEAKKQKVN---LIVSIANQDLNKQLSDVEDF-ITKKVDAIVLSPV 64 (267)
T ss_pred eeEeecCcccHHHHHHHHHHHHHHHhcCCE---EEEecCCCCHHHHHHHHHHH-HHcCCCEEEEcCC
Confidence 566666666667777888888888888863 333332222221111 2223 3457899887653
No 92
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=88.67 E-value=2 Score=33.50 Aligned_cols=68 Identities=6% Similarity=-0.118 Sum_probs=42.1
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH-HHHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI-GVVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL-Plaak~La~-s~~yDAVIaLG 142 (145)
..||+++..+-+....+.-.+|..+.++++|...+...+...+..+|- --.++++++ ..++|||+|-+
T Consensus 125 ~~~i~~i~~~~~~~~~~~R~~gf~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 194 (275)
T cd06307 125 PGKVAVLAGSHRFRGHEEREMGFRSVLREEFPGLRVLETLEGLDDPARAYEATRKLLARHPDLVGIYNAG 194 (275)
T ss_pred CCeEEEEecCCCCcchHHHHHHHHHHHHhhCCCcEEEeeccCCCChHHHHHHHHHHHHhCCCceEEEECC
Confidence 359999988766455667789999999998864221222222323322 124445543 45799999865
No 93
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=88.62 E-value=1.5 Score=33.87 Aligned_cols=67 Identities=18% Similarity=0.152 Sum_probs=42.3
Q ss_pred CCEEEEEEeee-cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH--HHHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARF-NELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI--GVVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArf-N~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL--Plaak~La~-s~~yDAVIaLG 142 (145)
..||+++...- +....+.-.+|..+.|+++|+......++..+..++- ..+ +.+++ ..++|||+|.+
T Consensus 116 ~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~ai~~~~ 186 (268)
T cd06273 116 HRRIAMIFGPTQGNDRARARRAGVRAALAEAGLELPELWQVEAPYSIADGRAAL-RQLLEQPPRPTAVICGN 186 (268)
T ss_pred CCeEEEEeccccCCccHHHHHHHHHHHHHHcCCCCCHHHeeeCCCcHHHHHHHH-HHHHcCCCCCCEEEEcC
Confidence 45999997543 2122345679999999999976444445555555542 333 34443 45799999865
No 94
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the purine transcription repressor undergoes a
Probab=88.56 E-value=1.2 Score=34.31 Aligned_cols=69 Identities=17% Similarity=0.079 Sum_probs=43.5
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhc-CCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s-~~yDAVIaLG 142 (145)
...||+++.++-+....+.-.+|..+.++++|+......++.-...++-.. .++.+.++ .++|||+|-.
T Consensus 116 G~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 186 (269)
T cd06275 116 GHRRIGCITGPLEKAPAQQRLAGFRRAMAEAGLPVNPGWIVEGDFECEGGYEAMQRLLAQPKRPTAVFCGN 186 (269)
T ss_pred CCceEEEEeCCCCCccHHHHHHHHHHHHHHcCCCCCHHHhccCCCChHHHHHHHHHHHcCCCCCcEEEECC
Confidence 346999998776666666667999999999997533222222233333322 34455544 4799999854
No 95
>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=88.38 E-value=2 Score=33.13 Aligned_cols=60 Identities=12% Similarity=0.207 Sum_probs=45.7
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHh--hcCCCcEEEEe
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLG--KSGKYTAVLCI 141 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La--~s~~yDAVIaL 141 (145)
||+|........-..+.+|+.+.++++|.. +.++ .++-+...-..+.+- -+.++||||..
T Consensus 1 I~vi~~~~~~~~~~~~~~g~~~~a~~~g~~---~~~~-~~~~~d~~~q~~~i~~~i~~~~d~Iiv~ 62 (257)
T PF13407_consen 1 IGVIVPSMDNPFWQQVIKGAKAAAKELGYE---VEIV-FDAQNDPEEQIEQIEQAISQGVDGIIVS 62 (257)
T ss_dssp EEEEESSSSSHHHHHHHHHHHHHHHHHTCE---EEEE-EESTTTHHHHHHHHHHHHHTTESEEEEE
T ss_pred cEEEeCCCCCHHHHHHHHHHHHHHHHcCCE---EEEe-CCCCCCHHHHHHHHHHHHHhcCCEEEec
Confidence 688888888889999999999999999973 3332 588777776655542 24579999964
No 96
>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=88.19 E-value=1.8 Score=33.77 Aligned_cols=61 Identities=15% Similarity=0.158 Sum_probs=37.9
Q ss_pred EEEEEEeee-cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHH---HHHhhcCCCcEEEEee
Q 032216 77 RFALVVARF-NELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVA---QQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArf-N~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaa---k~La~s~~yDAVIaLG 142 (145)
|||+|...+ .......+.+|..+.++++|+. +.+....+ ++..-.. ++|. ..++||+|..+
T Consensus 1 ~i~~i~~~~~~~~~~~~~~~g~~~~~~~~g~~---v~~~~~~~-~~~~~~~~~i~~l~-~~~vdgiii~~ 65 (271)
T cd06312 1 KIAFVTHGPAGDPFWTVVKNGAEDAAKDLGVD---VEYRGPET-FDVADMARLIEAAI-AAKPDGIVVTI 65 (271)
T ss_pred CEEEecCCCCCCcHHHHHHHHHHHHHHHhCCE---EEEECCCC-CCHHHHHHHHHHHH-HhCCCEEEEeC
Confidence 577888777 5666677888888888888863 44433333 2433222 2333 34788888765
No 97
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=88.16 E-value=2.9 Score=32.43 Aligned_cols=68 Identities=18% Similarity=0.284 Sum_probs=41.7
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhc-CCCcEEEEeee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKS-GKYTAVLCIGA 143 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s-~~yDAVIaLG~ 143 (145)
...||+++...........=.+|+++.++++|+..+...+. ++.++..- +++.++++ .++|||+|.+.
T Consensus 115 g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d 186 (268)
T cd06270 115 GHRKIACITGPLTKEDARLRLQGYRDALAEAGIALDESLII--EGDFTEEGGYAAMQELLARGAPFTAVFCAND 186 (268)
T ss_pred CCceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCCcceEE--ECCCCHHHHHHHHHHHHhCCCCCCEEEEcCc
Confidence 35689999876543334444589999999999864333333 33343322 33344444 46899999753
No 98
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=87.96 E-value=1.8 Score=33.95 Aligned_cols=62 Identities=13% Similarity=0.062 Sum_probs=37.8
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
+||+|...........+.+|+.++++++|+. +.++.....=+.=-.++.+. ..++||||..+
T Consensus 1 ~Ig~v~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~ 62 (289)
T cd01540 1 KIGFIVKQPEEPWFQTEWKFAKKAAKEKGFT---VVKIDVPDGEKVLSAIDNLG-AQGAKGFVICV 62 (289)
T ss_pred CeeeecCCCCCcHHHHHHHHHHHHHHHcCCE---EEEccCCCHHHHHHHHHHHH-HcCCCEEEEcc
Confidence 5788887766555667889999999998874 43332221101111223333 46789998765
No 99
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=87.88 E-value=2.1 Score=34.75 Aligned_cols=68 Identities=18% Similarity=0.137 Sum_probs=42.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s-~~yDAVIaLG 142 (145)
..||+++...-+..-...-.+|..+.|+++|+..+...++..+...+-.+ +++.+++. .++|||+|..
T Consensus 182 ~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~n 251 (342)
T PRK10014 182 HQRIAWLGGQSSSLTRAERVGGYCATLLKFGLPFHSEWVLECTSSQKQAAEAITALLRHNPTISAVVCYN 251 (342)
T ss_pred CCEEEEEcCCcccccHHHHHHHHHHHHHHcCCCCCcceEecCCCChHHHHHHHHHHHcCCCCCCEEEECC
Confidence 45999997654433334456899999999998644333334444444332 33445443 4799999964
No 100
>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=87.76 E-value=2.2 Score=33.29 Aligned_cols=61 Identities=3% Similarity=-0.090 Sum_probs=33.6
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG 142 (145)
||+|.-.+....-..++++..+.++++|+. +.+....+.-|.= -.++.|. +.++||||..+
T Consensus 2 ~g~~~~~~~~~~~~~~~~~~~~~a~~~g~~---~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~ 63 (273)
T cd06309 2 VGFSQVGAESPWRTAETKSIKDAAEKRGFD---LKFADAQQKQENQISAIRSFI-AQGVDVIILAP 63 (273)
T ss_pred eeeccCCCCCHHHHHHHHHHHHHHHhcCCE---EEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEcC
Confidence 556666555555566777778888877763 3333322222211 1233333 35688887654
No 101
>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=87.76 E-value=3.5 Score=31.52 Aligned_cols=68 Identities=21% Similarity=0.226 Sum_probs=40.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHh-hcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLG-KSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La-~s~~yDAVIaLG 142 (145)
..||+++...-+....+.-.+|+.+.++++|+......+...+..+|-. -.++.++ +..+.|||+|..
T Consensus 115 ~~~i~~l~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 184 (267)
T cd06284 115 HRRIALITGPRDNPLARDRLEGYRQALAEAGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCFS 184 (267)
T ss_pred CceEEEEcCCccchhHHHHHHHHHHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEcC
Confidence 4589999775444455666799999999999653322222222233321 1233444 344789999864
No 102
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=87.52 E-value=1.8 Score=33.89 Aligned_cols=55 Identities=11% Similarity=0.160 Sum_probs=37.7
Q ss_pred EEEEEEe-----eecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVA-----RFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvA-----rfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
|||+|.. .+....-..+++|..+.++++|+. +.+..-++. .. ....++||+|..+
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~gi~~~~~~~g~~---~~~~~~~~~--~~------~~~~~vdgii~~~ 60 (270)
T cd01544 1 RIAIVQWYSEEEELDDPYYLSIRLGIEKRAQELGIE---LTKFFRDDD--LL------EILEDVDGIIAIG 60 (270)
T ss_pred CeEEEEeccccccccCccHHHHHHHHHHHHHHcCCE---EEEEeccch--hH------HhccCcCEEEEec
Confidence 6888888 455566677889999999999974 444433321 11 1356899999875
No 103
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=87.34 E-value=4.1 Score=34.60 Aligned_cols=65 Identities=15% Similarity=0.072 Sum_probs=45.9
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHH---HHHhhcCCCcEEEEee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVA---QQLGKSGKYTAVLCIG 142 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaa---k~La~s~~yDAVIaLG 142 (145)
..+.+|++|...-+...-..+.+|+.+.++++|+. +. +..|...+..--+ +.+. +.++||||...
T Consensus 21 ~~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~---v~-~~~~~~~d~~~q~~~i~~li-~~~vdgIiv~~ 88 (336)
T PRK15408 21 QAAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVD---VT-YDGPTEPSVSGQVQLINNFV-NQGYNAIIVSA 88 (336)
T ss_pred cCCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCE---EE-EECCCCCCHHHHHHHHHHHH-HcCCCEEEEec
Confidence 45679999998776666668999999999999974 32 3357655544333 3333 46899999864
No 104
>PF00465 Fe-ADH: Iron-containing alcohol dehydrogenase ; InterPro: IPR001670 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD. Currently three, structurally and catalytically, different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Iron-containing ADH's have been found in yeast (gene ADH4) [], as well as in Zymomonas mobilis (gene adhB) []. These two iron-containing ADH's are closely related to the following enzymes: Escherichia coli propanediol oxidoreductase (1.1.1.77 from EC) (gene fucO) [], an enzyme involved in the metabolism of fucose and which also seems to contain ferrous ion(s). Clostridium acetobutylicum NADPH- and NADH-dependent butanol dehydrogenases (1.1.1 from EC) (genes adh1, bdhA and bdhB) [], an enzyme which has activity using butanol and ethanol as substrates. E. coli adhE [], an iron-dependent enzyme which harbor three different activities: alcohol dehydrogenase, acetaldehyde dehydrogenase (acetylating) (1.2.1.10 from EC) and pyruvate-formate-lyase deactivase. Bacterial glycerol dehydrogenase (1.1.1.6 from EC) (gene gldA or dhaD) []. Clostridium kluyveri NAD-dependent 4-hydroxybutyrate dehydrogenase (4hbd) (1.1.1.61 from EC). Citrobacter freundii and Klebsiella pneumoniae 1,3-propanediol dehydrogenase (1.1.1.202 from EC) (gene dhaT). Bacillus methanolicus NAD-dependent methanol dehydrogenase (1.1.1.244 from EC) []. E. coli and Salmonella typhimurium ethanolamine utilization protein eutG. E. coli hypothetical protein yiaY. ; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1RRM_A 2BL4_A 2BI4_A 3BFJ_R 1KQ3_A 1JQ5_A 1JPU_A 1JQA_A 3JZD_A 3UHJ_A ....
Probab=87.25 E-value=1.8 Score=36.89 Aligned_cols=61 Identities=18% Similarity=0.205 Sum_probs=41.2
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-eccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
|+.||..+. .-...+.+...+.|++.|+. +.++. +++- +|-=..+-..++..++|.||++|
T Consensus 23 r~lvVt~~~--~~~~~~~~~v~~~L~~~~i~---~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiG 86 (366)
T PF00465_consen 23 RVLVVTDPS--LSKSGLVDRVLDALEEAGIE---VQVFDGVGPNPTLEDVDEAAEQARKFGADCIIAIG 86 (366)
T ss_dssp EEEEEEEHH--HHHHTHHHHHHHHHHHTTCE---EEEEEEESSS-BHHHHHHHHHHHHHTTSSEEEEEE
T ss_pred CEEEEECch--HHhCccHHHHHHHHhhCceE---EEEEecCCCCCcHHHHHHHHHHHHhcCCCEEEEcC
Confidence 999999882 22223778888899999985 44444 4443 33333344456678999999998
No 105
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=87.24 E-value=3.1 Score=31.94 Aligned_cols=62 Identities=11% Similarity=0.093 Sum_probs=38.2
Q ss_pred EEEEEeee-cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc-hHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARF-NELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF-EIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArf-N~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf-ELPlaak~La~s~~yDAVIaLG~ 143 (145)
||+|.... ....-..+.+|..+.++++|+. +.++.....- +.--.++.+ .+.++||+|..++
T Consensus 2 ig~v~~~~~~~~~~~~~~~~i~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~l-~~~~~dgiii~~~ 65 (269)
T cd06288 2 IGLISDEIATTPFAVEIILGAQDAAREHGYL---LLVVNTGGDDELEAEAVEAL-LDHRVDGIIYATM 65 (269)
T ss_pred eEEEeCCCCCCccHHHHHHHHHHHHHHCCCE---EEEEeCCCCHHHHHHHHHHH-HHcCCCEEEEecC
Confidence 67777776 5566667888888888888863 4333322222 112223333 3568899988764
No 106
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=87.24 E-value=4.4 Score=31.14 Aligned_cols=66 Identities=17% Similarity=0.176 Sum_probs=40.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s-~~yDAVIaLG 142 (145)
..||+++.+.-+......-.+|..+.++++|.......+ +++-++.-- ++..++++ .++|||+|.+
T Consensus 122 ~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 191 (270)
T cd06294 122 HKKIAFVGGDLDLEVTQDRLQGYKQALEDHGIPDRNEVI--ISLDFSEEGGYKALKKLLEQHPRPTAIVATD 191 (270)
T ss_pred CccEEEecCCcccHHHHHHHHHHHHHHHHcCCCCCcceE--EecCCchHHHHHHHHHHHhCCCCCCEEEECC
Confidence 459999987666444455679999999999974222222 234343211 22334444 4699999964
No 107
>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=87.13 E-value=3 Score=32.35 Aligned_cols=65 Identities=11% Similarity=0.170 Sum_probs=42.6
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCC-CCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVK-EENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~-~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaLG~ 143 (145)
||||+.. ++......+++|..+++.++|.. ..++.++......+-.- .++++. ++++|+||.++.
T Consensus 1 ~igv~~~-~~~~~~~~~~~gi~~~~~~~g~~~g~~v~l~~~~~~~~~~~~~~~~~~l~-~~~vd~iI~~~~ 69 (281)
T cd06325 1 KVGILQL-VEHPALDAARKGFKDGLKEAGYKEGKNVKIDYQNAQGDQSNLPTIARKFV-ADKPDLIVAIAT 69 (281)
T ss_pred CeEEecC-CCCcchHHHHHHHHHHHHHhCccCCceEEEEEecCCCCHHHHHHHHHHHH-hcCCCEEEEcCc
Confidence 6888886 77767778999999999999862 12355544444333322 233443 468999998764
No 108
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=86.96 E-value=2.7 Score=33.48 Aligned_cols=64 Identities=13% Similarity=-0.073 Sum_probs=40.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhc-CCCcEEEEe
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKS-GKYTAVLCI 141 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s-~~yDAVIaL 141 (145)
..||+++.+.-+......-.+|..+.++++|+... .+.+.+.++..- +++++++. .++|||+|-
T Consensus 118 ~~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g~~~~---~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~ 185 (269)
T cd06287 118 ARQIALIVGSARRNSYLEAEAAYRAFAAEHGMPPV---VLRVDEAGGEEAGYAACAQLLAQHPDLDALCVP 185 (269)
T ss_pred CCcEEEEeCCcccccHHHHHHHHHHHHHHcCCCcc---eeEecCCCChHHHHHHHHHHHhCCCCCCEEEEc
Confidence 45899997654433344566899999999998643 233444444322 33445543 468999985
No 109
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=86.90 E-value=3.6 Score=33.67 Aligned_cols=67 Identities=9% Similarity=-0.041 Sum_probs=43.4
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEeee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG~ 143 (145)
.....||++...+....-..|++|..+.++++|.. +.+.......+ .--.++.+ .+.++||+|..+.
T Consensus 57 ~~~~~Igvi~~~~~~~f~~~l~~gi~~~~~~~gy~---~~~~~~~~~~~~~~~~i~~l-~~~~vdGiIi~~~ 124 (346)
T PRK10401 57 QVSDTIGVVVMDVSDAFFGALVKAVDLVAQQHQKY---VLIGNSYHEAEKERHAIEVL-IRQRCNALIVHSK 124 (346)
T ss_pred CCCCEEEEEeCCCCCccHHHHHHHHHHHHHHCCCE---EEEEcCCCChHHHHHHHHHH-HhcCCCEEEEeCC
Confidence 34457999998876666677999999999999973 33332222211 11233444 3568999998763
No 110
>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=86.82 E-value=2.3 Score=32.62 Aligned_cols=69 Identities=17% Similarity=0.201 Sum_probs=41.1
Q ss_pred CCCEEEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s~~yDAVIaLG 142 (145)
...||+++...=+ ....+.-.+|..+.++++|+..+...+.......|--. +++++.++.++|||+|-+
T Consensus 115 g~~~i~~l~~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ai~~~~ 185 (268)
T cd06298 115 GHKKIAFISGPLEDSINGDERLAGYKEALSEANIEFDESLIFEGDYTYESGYELAEELLEDGKPTAAFVTD 185 (268)
T ss_pred CCceEEEEeCCcccccchhHHHHHHHHHHHHcCCCCCHHHeEeCCCChhHHHHHHHHHhcCCCCCEEEEcC
Confidence 3468999975433 23344567999999999997532222222223334332 334555544499999864
No 111
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=86.62 E-value=4.2 Score=32.51 Aligned_cols=65 Identities=20% Similarity=0.065 Sum_probs=43.5
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc-hHHHHHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF-EIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf-ELPlaak~La~s~~yDAVIaLG 142 (145)
....||++...+.......++++..++++++|+. +.+....+.- +---.++.+. ..++||+|..+
T Consensus 25 ~~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~---~~~~~~~~d~~~~~~~~~~l~-~~~~dgiii~~ 90 (295)
T PRK10653 25 AKDTIALVVSTLNNPFFVSLKDGAQKEADKLGYN---LVVLDSQNNPAKELANVQDLT-VRGTKILLINP 90 (295)
T ss_pred cCCeEEEEecCCCChHHHHHHHHHHHHHHHcCCe---EEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcC
Confidence 4558999999888888889999999999999974 4343332211 1112333333 45899988654
No 112
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=86.49 E-value=1.4 Score=32.25 Aligned_cols=45 Identities=11% Similarity=0.201 Sum_probs=36.4
Q ss_pred CEEEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH
Q 032216 76 LRFALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV 124 (145)
Q Consensus 76 lRIaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl 124 (145)
|||+||.+.-+ +-.++.|.+.+.+.|++.|++ ++++++..- .+|.
T Consensus 1 Mkilii~gS~r~~~~t~~l~~~~~~~l~~~g~e---~~~i~l~~~-~~p~ 46 (152)
T PF03358_consen 1 MKILIINGSPRKNSNTRKLAEAVAEQLEEAGAE---VEVIDLADY-PLPC 46 (152)
T ss_dssp -EEEEEESSSSTTSHHHHHHHHHHHHHHHTTEE---EEEEECTTS-HCHH
T ss_pred CEEEEEECcCCCCCHHHHHHHHHHHHHHHcCCE---EEEEecccc-chhh
Confidence 68999999885 788999999999999999874 777776655 6774
No 113
>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=85.32 E-value=4.3 Score=31.06 Aligned_cols=68 Identities=19% Similarity=0.110 Sum_probs=41.4
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s-~~yDAVIaLG 142 (145)
..||+++...-+....+.-.+|+.+.++++|.......++..+...| .--.++.++++ .++|||+|.+
T Consensus 117 ~~~i~~l~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~ 186 (268)
T cd06289 117 HRRIAFIGGLEDSSTRRERLAGYRAALAEAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIVCFN 186 (268)
T ss_pred CCCEEEecCCccccchHHHHHHHHHHHHHcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEEEcC
Confidence 45899887654434455677999999999996433222332232222 22334455544 5799999875
No 114
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=85.26 E-value=3.1 Score=34.06 Aligned_cols=66 Identities=15% Similarity=0.171 Sum_probs=41.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~s-~~yDAVIaLG 142 (145)
..||+++...-+......=.+|+.+.|+++|+..+...+ ..|.++.- -+++.+++. .++|||+|..
T Consensus 176 ~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~n 245 (343)
T PRK10727 176 HTRIGYLCSNHSISDAEDRLQGYYDALAESGIPANDRLV--TFGEPDESGGEQAMTELLGRGRNFTAVACYN 245 (343)
T ss_pred CccEEEEeCCccccchHHHHHHHHHHHHHCCCCCChhhE--EeCCCChhHHHHHHHHHHhCCCCCCEEEEcC
Confidence 468999976554333344559999999999986432222 23544432 234555544 4689999953
No 115
>PRK09526 lacI lac repressor; Reviewed
Probab=85.09 E-value=5.2 Score=32.44 Aligned_cols=64 Identities=9% Similarity=0.106 Sum_probs=43.2
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEeccc-c-hHHHHHHHHhhcCCCcEEEEe
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGS-F-EIGVVAQQLGKSGKYTAVLCI 141 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGA-f-ELPlaak~La~s~~yDAVIaL 141 (145)
+...||+|...++...-..|++|..++++++|+. +.+...... . +.--.++.| .+.++||||..
T Consensus 62 ~~~~Igvv~~~~~~~~~~~~~~gi~~~a~~~g~~---~~i~~~~~~~~~~~~~~l~~l-~~~~vdGiii~ 127 (342)
T PRK09526 62 QSLTIGLATTSLALHAPSQIAAAIKSRADQLGYS---VVISMVERSGVEACQAAVNEL-LAQRVSGVIIN 127 (342)
T ss_pred CCceEEEEeCCCCcccHHHHHHHHHHHHHHCCCE---EEEEeCCCChHHHHHHHHHHH-HhcCCCEEEEe
Confidence 4457999998877665678999999999999974 555444321 1 112334444 35789999975
No 116
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=85.05 E-value=2.8 Score=34.04 Aligned_cols=66 Identities=21% Similarity=0.255 Sum_probs=42.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~-s~~yDAVIaLG 142 (145)
..||++|.+.-+....+.-.+|+.+.|+++|+......+ ..+.++..- .++.+.+ ..++|||+|.+
T Consensus 178 ~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~gi~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~n 247 (341)
T PRK10703 178 HRDIGVIPGPLERNTGAGRLAGFMKAMEEANIKVPEEWI--VQGDFEPESGYEAMQQILSQKHRPTAVFCGG 247 (341)
T ss_pred CCcEEEEeCCccccchHHHHHHHHHHHHHcCCCCChHHe--EeCCCCHHHHHHHHHHHHhCCCCCCEEEECC
Confidence 458999977655555566679999999999986332222 244444322 2334443 35789999964
No 117
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=84.81 E-value=3 Score=34.13 Aligned_cols=67 Identities=13% Similarity=0.058 Sum_probs=41.9
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc--hHHH-HHHHHhhc-CCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF--EIGV-VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf--ELPl-aak~La~s-~~yDAVIaLG 142 (145)
...||++|.+.-+....+.-.+|..+.|+++|+......+ ..|.+ |-.+ ++++++++ .++|||+|..
T Consensus 175 G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~n 245 (346)
T PRK10401 175 GHQRIGYLSSSHGIEDDAMRRAGWMSALKEQGIIPPESWI--GTGTPDMQGGEAAMVELLGRNLQLTAVFAYN 245 (346)
T ss_pred CCCeEEEEeCCCcCcchHHHHHHHHHHHHHcCCCCChhhe--ecCCCChHHHHHHHHHHHcCCCCCcEEEECC
Confidence 3469999976554444455669999999999986332222 23433 3222 34455544 4689999964
No 118
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=84.67 E-value=3.2 Score=32.94 Aligned_cols=66 Identities=18% Similarity=0.249 Sum_probs=42.1
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch--H-HHHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE--I-GVVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE--L-Plaak~La~s-~~yDAVIaLG 142 (145)
..||+++....+....+.-.+|..+.++++|+..+...+ +.|-++ - --++++++++ .++|||+|.+
T Consensus 152 ~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 221 (309)
T PRK11041 152 HKRIACIAGPEEMPLCHYRLQGYVQALRRCGITVDPQYI--ARGDFTFEAGAKALKQLLDLPQPPTAVFCHS 221 (309)
T ss_pred CceEEEEeCCccccchHHHHHHHHHHHHHcCCCCCHHHe--EeCCCCHHHHHHHHHHHHcCCCCCCEEEEcC
Confidence 359999987665555556789999999999985322112 233332 2 2344555554 3699999864
No 119
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=84.67 E-value=2.3 Score=33.03 Aligned_cols=67 Identities=21% Similarity=0.129 Sum_probs=40.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch--HHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE--IGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE--LPlaak~La~s~~yDAVIaLG 142 (145)
..||+++.++.+......-.+|..+.++++|+......+... +.++ ...+.+.|.+..++|||+|.+
T Consensus 116 ~~~i~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~ai~~~~ 184 (269)
T cd06281 116 HRRIALVGGGSNTRPGRERLEGYKAAFAAAGLPPDPALVRLS-TPAASGFDATRALLALPDRPTAIIAGG 184 (269)
T ss_pred CcEEEEecCccccccHHHHHHHHHHHHHHcCCCCCHHHeecC-cHHHHHHHHHHHHHcCCCCCcEEEEcC
Confidence 458999988766555556779999999999975321112221 1122 122333333445799999864
No 120
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=84.60 E-value=4.4 Score=30.98 Aligned_cols=69 Identities=20% Similarity=0.269 Sum_probs=43.0
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhc-CCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s-~~yDAVIaLG 142 (145)
...||+++...-+......-.+|..+.|+++|...+.+.....+-.++-. -+++.++++ .+.|||+|..
T Consensus 115 g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 185 (268)
T cd01575 115 GYRRIGFLGARMDDTRAQQRLEGFRAALRAAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFCSN 185 (268)
T ss_pred CCCcEEEecCCCCcccHHHHHHHHHHHHHHcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEECC
Confidence 34589999877653344456699999999999854333333233233322 244555544 5799999864
No 121
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=83.96 E-value=4.7 Score=32.96 Aligned_cols=58 Identities=14% Similarity=0.265 Sum_probs=41.5
Q ss_pred cCCCCCCEEEEEEeee-cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEE
Q 032216 70 LTKNEGLRFALVVARF-NELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVL 139 (145)
Q Consensus 70 l~~~~~lRIaIVvArf-N~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVI 139 (145)
+.+.+++|||+..... ... |+ ...|++.|+.++++.++.+|.+ +++ + .+..++.||++
T Consensus 131 ~adlkGk~vg~~~~~~~~~~----~l---~~~L~~~Gl~~~dv~~v~~~~~-~~~---~-al~~g~vda~~ 189 (335)
T COG0715 131 VADLKGKKVGVPFGGSTSDF----LL---RYALAKAGLDPDDVELVNLPPA-DAV---A-ALAAGQVDAFV 189 (335)
T ss_pred ccCCCCceEEEeCCCchHHH----HH---HHHHHHcCCCcccceEEeeCcH-HHH---H-HHhcCCcceEE
Confidence 3467889999998875 444 33 3457789999999999999988 222 2 23468999854
No 122
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=83.95 E-value=3.8 Score=31.68 Aligned_cols=67 Identities=16% Similarity=0.178 Sum_probs=42.1
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhh-cCCCcEEEEeee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGK-SGKYTAVLCIGA 143 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~-s~~yDAVIaLG~ 143 (145)
..||+++...-+....+.-.+|.++.++++|+.-+...+. .+.++..- +++.+++ ..++|||+|.+.
T Consensus 114 ~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d 184 (265)
T cd06285 114 HRRIAVLAGPDYASTARDRLAGFRAALAEAGIEVPPERIV--YSGFDIEGGEAAAEKLLRSDSPPTAIFAVND 184 (265)
T ss_pred CccEEEEeCCcccccHHHHHHHHHHHHHHcCCCCChhhEE--eCCCCHHHHHHHHHHHHcCCCCCCEEEEcCc
Confidence 4589999876554445556799999999999853222222 23334332 3344443 346899999753
No 123
>PF09861 DUF2088: Domain of unknown function (DUF2088); InterPro: IPR018657 This domain, found in various hypothetical proteins, has no known function. ; PDB: 2YJG_B.
Probab=83.88 E-value=2.4 Score=34.52 Aligned_cols=45 Identities=33% Similarity=0.544 Sum_probs=32.8
Q ss_pred CCCEEEEEE---eeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc
Q 032216 74 EGLRFALVV---ARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF 120 (145)
Q Consensus 74 ~~lRIaIVv---ArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf 120 (145)
.+.||+||+ +|... .+.|+...+++|++.|+.+++|.++---|.-
T Consensus 53 ~~~~V~Ivv~D~TRp~p--~~~il~~ll~~L~~~Gv~~~~i~ii~A~G~H 100 (204)
T PF09861_consen 53 PGKRVAIVVDDITRPTP--SDLILPALLEELEEAGVKDEDITIIIALGTH 100 (204)
T ss_dssp T-SEEEEEEE-TTS-----HHHHHHHHHHHHHT-T-TT-EEEEEEE-TTS
T ss_pred CCCeEEEEeCCCCCCCC--HHHHHHHHHHHHHhcCCCccCEEEEEeCCCC
Confidence 458999999 77743 3789999999999999999999999888884
No 124
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=83.81 E-value=6.4 Score=33.48 Aligned_cols=62 Identities=15% Similarity=0.178 Sum_probs=40.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHH--HHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVA--QQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaa--k~La~s~~yDAVIaLG 142 (145)
+.|+.||..+.-.. .+.+...+.|+++|+. +....++|--....+- -.+++..++|.||++|
T Consensus 22 ~~r~livt~~~~~~---~~~~~v~~~L~~~~i~---~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavG 85 (351)
T cd08170 22 GKRALIIADEFVLD---LVGAKIEESLAAAGID---ARFEVFGGECTRAEIERLAEIARDNGADVVIGIG 85 (351)
T ss_pred CCeEEEEECHHHHH---HHHHHHHHHHHhCCCe---EEEEEeCCcCCHHHHHHHHHHHhhcCCCEEEEec
Confidence 35888888654333 6777888888888874 3344566643333332 2345677999999998
No 125
>cd08183 Fe-ADH2 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases (Fe-ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is a member of the iron-activated alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown. They are mainly found in bacteria.
Probab=83.58 E-value=5.4 Score=34.43 Aligned_cols=60 Identities=22% Similarity=0.262 Sum_probs=38.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEeccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
+.|+.||..+.-. ..+...+.|++.|++ +.++.+++- +|.=.-+-.+++..++|.||++|
T Consensus 22 ~~r~livtd~~~~-----~~~~v~~~L~~~g~~---~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIaiG 83 (374)
T cd08183 22 GRRVLLVTGASSL-----RAAWLIEALRAAGIE---VTHVVVAGEPSVELVDAAVAEARNAGCDVVIAIG 83 (374)
T ss_pred CCcEEEEECCchH-----HHHHHHHHHHHcCCe---EEEecCCCCcCHHHHHHHHHHHHhcCCCEEEEec
Confidence 3589899876443 556677788888874 445545442 22222223345667999999998
No 126
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=83.56 E-value=4.2 Score=31.48 Aligned_cols=65 Identities=17% Similarity=0.174 Sum_probs=39.4
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaLG 142 (145)
..||+++...-...-...=.+|..+.++++|+......+ +++-+.... +++++++.+ +|||+|..
T Consensus 122 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~i--~~~~~~~~~~~~~~~~~l~~~-~~ai~~~~ 189 (273)
T cd06292 122 HRRIGFASGPGRTVPRRRKIAGFRAALEEAGLEPPEALV--ARGMFSVEGGQAAAVELLGSG-PTAIVAAS 189 (273)
T ss_pred CceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCChhhe--EeCCCCHHHHHHHHHHHhcCC-CCEEEEcC
Confidence 458999976543223334458999999999975332222 234444322 344555444 99999864
No 127
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=83.39 E-value=4.3 Score=30.51 Aligned_cols=35 Identities=20% Similarity=0.376 Sum_probs=29.0
Q ss_pred CCCeEEEEec--ccchHHHHHHHHhhcCCCcEEEEeeee
Q 032216 108 EENIDVVWVP--GSFEIGVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 108 ~e~I~vv~VP--GAfELPlaak~La~s~~yDAVIaLG~V 144 (145)
+.++.+++|| |..+.-++++.|. ...|+|+.+||-
T Consensus 26 p~~vriIrvpC~Grv~~~~il~Af~--~GADGV~V~gC~ 62 (124)
T PF02662_consen 26 PPNVRIIRVPCSGRVDPEFILRAFE--KGADGVLVAGCH 62 (124)
T ss_pred CCCeEEEEccCCCccCHHHHHHHHH--cCCCEEEEeCCC
Confidence 4578999998 7788888888876 369999999983
No 128
>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=83.39 E-value=4.1 Score=30.47 Aligned_cols=67 Identities=16% Similarity=0.047 Sum_probs=41.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc-hHHHHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF-EIGVVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf-ELPlaak~La~s-~~yDAVIaLG 142 (145)
..||+++...-+....+...+|..+.++++| ..+.+.++...... +.--.++.+.+. .+.|+++|.+
T Consensus 118 ~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~ 186 (264)
T cd01537 118 HRRIALLAGPLGSSTARERVAGFKDALKEAG-PIEIVLVQEGDWDAEKGYQAAEELLTAHPDPTAIFAAN 186 (264)
T ss_pred CCcEEEEECCCCCCcHHHHHHHHHHHHHHcC-CcChhhhccCCCCHHHHHHHHHHHHhcCCCCCEEEEcC
Confidence 4699999876554556678899999999998 21222333333222 222334444444 4599999875
No 129
>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=83.34 E-value=6.4 Score=30.67 Aligned_cols=65 Identities=15% Similarity=0.097 Sum_probs=35.0
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH--HHHHhhcCCCcEEEEee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV--AQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla--ak~La~s~~yDAVIaLG 142 (145)
||++...+.......|++|+.++++++|-...+++++...+..+-... ....+...++||||..+
T Consensus 2 Ig~i~~~~~~~f~~~~~~gi~~~a~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~ 68 (274)
T cd06311 2 IGVSIPAADHGWTAGIVWHAQAAAKKLEAAYPDVEFILVTASNDTEQQNAQQDLLINRKIDALVILP 68 (274)
T ss_pred eeeeccCCCCcHHHHHHHHHHHHHHHhhhhCCCeEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 566666655555666777777777776422123455555554332211 11112345678887654
No 130
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=83.20 E-value=7.7 Score=29.95 Aligned_cols=68 Identities=10% Similarity=-0.093 Sum_probs=42.1
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhc--CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKS--GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s--~~yDAVIaLG 142 (145)
..||+++.+.-.......-.+|..+.++++|+..+...+...+-..|-.. +++.++++ .++|||+|.+
T Consensus 116 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~~ 186 (264)
T cd06274 116 PEEVLFLGGLPELSPSRERLAGFRQALADAGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALFTTS 186 (264)
T ss_pred CCcEEEEeCCCcccchHHHHHHHHHHHHHcCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEEEcC
Confidence 45999998765544455667999999999997533333333332333221 23444444 4699999965
No 131
>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=82.90 E-value=5 Score=31.22 Aligned_cols=68 Identities=18% Similarity=0.059 Sum_probs=41.4
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~-s~~yDAVIaLG 142 (145)
..+|+++...-.......-.+|..+.++++|.......+...+..++-- -.++.+++ ..++|||+|.+
T Consensus 125 ~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 194 (275)
T cd06295 125 RRRIAFLGGPQDMPEGEERLEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAAS 194 (275)
T ss_pred CCeEEEEcCCCCcchhHHHHHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEECC
Confidence 4589998765442344566799999999999654333333333333321 23334443 35799999875
No 132
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=82.71 E-value=6.5 Score=31.56 Aligned_cols=67 Identities=24% Similarity=0.199 Sum_probs=42.3
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhhc-CCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~s-~~yDAVIaLG 142 (145)
...||+++.+.-+......-.+|..+.|+++|+.... .+...+.++.- -+++++++. .++|||+|..
T Consensus 173 G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 243 (327)
T PRK10423 173 GYTRIACITGPLDKTPARLRLEGYRAAMKRAGLNIPD--GYEVTGDFEFNGGFDAMQQLLALPLRPQAVFTGN 243 (327)
T ss_pred CCCeEEEEeCCccccchHHHHHHHHHHHHHcCCCCCc--ceEEeCCCChHHHHHHHHHHhcCCCCCCEEEEcC
Confidence 3469999976554444455679999999999975322 12234555432 234455544 4689999964
No 133
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=82.60 E-value=5.7 Score=33.67 Aligned_cols=67 Identities=12% Similarity=0.064 Sum_probs=47.9
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
.+..-||+|...+....-..+++|..+.+.++|.. +.+......-|---.+.....+.++||||.+|
T Consensus 56 ~~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~gy~---~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~ 122 (333)
T COG1609 56 GRTKTIGLVVPDITNPFFAEILKGIEEAAREAGYS---LLLANTDDDPEKEREYLETLLQKRVDGLILLG 122 (333)
T ss_pred CCCCEEEEEeCCCCCchHHHHHHHHHHHHHHcCCE---EEEECCCCCHHHHHHHHHHHHHcCCCEEEEec
Confidence 34456899988777667777999999999999983 44444444334444444455678999999987
No 134
>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=82.43 E-value=8.4 Score=29.80 Aligned_cols=65 Identities=12% Similarity=0.063 Sum_probs=40.5
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch--HH-HHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE--IG-VVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE--LP-laak~La~s-~~yDAVIaLG 142 (145)
..||+++...-+......-++|+.+.++++|.. +..+...+.+. .. -+++.++++ .++|+|+|.+
T Consensus 125 ~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 193 (277)
T cd06319 125 DGKVGMVAIPQKRKNGQKRTKGFKEAMKEAGCD---LAGIRQQKDFSYQETFDYTNDLLTANPDIRAIWLQG 193 (277)
T ss_pred CCcEEEEeccCCCccHHHHHHHHHHHHHhcCCc---eEeeccCCCCCHHHHHHHHHHHHHhCCCCCEEEECC
Confidence 458999975443334456789999999999975 22223334443 22 223445543 5689999875
No 135
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=82.14 E-value=3.5 Score=31.78 Aligned_cols=68 Identities=21% Similarity=0.118 Sum_probs=41.1
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s-~~yDAVIaLG 142 (145)
..||+++...-.....+.-.+|..+.++++|+......+...+..+|-. -++++++++ .++|||+|..
T Consensus 111 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 180 (261)
T cd06272 111 HKKIAYIGDLSLDRRQRKRFKGFLETCDENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTAIICGS 180 (261)
T ss_pred chhEEEeecccccccHHHHHHHHHHHHHHcCCCCCHHHeeeCCCCHHHHHHHHHHHHcCCCCCCEEEECC
Confidence 4589999765442233445699999999999742222233344444432 244555544 4699999864
No 136
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=82.08 E-value=11 Score=29.76 Aligned_cols=60 Identities=3% Similarity=0.019 Sum_probs=35.2
Q ss_pred EEEEEEeee--cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cc-----cchHHHHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARF--NELVTKLLLEGALETFKKYSVKEENIDVVWV-PG-----SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArf--N~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PG-----AfELPlaak~La~s~~yDAVIaLG 142 (145)
|||+|.... |... ..++++..++++++|+. +.+..+ ++ ..|.. .++.| .+.++||||..+
T Consensus 1 ~Igvi~~~~~~~~~~-~~~~~~i~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~-~i~~l-~~~~vDgiIv~~ 68 (280)
T cd06303 1 KIAVIYPGQQISDYW-VRNIASFTARLEELNIP---YELTQFSSRPGIDHRLQSQ-QLNEA-LQSKPDYLIFTL 68 (280)
T ss_pred CeeEEecCccHHHHH-HHHHHHHHHHHHHcCCc---EEEEEeccCcccCHHHHHH-HHHHH-HHcCCCEEEEcC
Confidence 578888775 4443 56888888888888863 333322 22 12221 22333 346788888754
No 137
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=82.02 E-value=6.2 Score=30.33 Aligned_cols=69 Identities=13% Similarity=0.058 Sum_probs=42.2
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhc-CCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s-~~yDAVIaLG 142 (145)
...||+++...=+......-.+|..+.|+++|.......+++-+-.++ .--+++.+++. .++|||+|..
T Consensus 113 g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 183 (260)
T cd06286 113 GYRKIAYCIGRKKSLNSQSRKKAYKDALEEYGLTPDEEWIFEGCFTIEDGERIGHQLLKMKDRPDAIFTGS 183 (260)
T ss_pred CCceEEEEcCCcccchhHHHHHHHHHHHHHcCCCCChHheEeCCCCHHHHHHHHHHHHcCCCCCCEEEEcc
Confidence 356999997654434455667999999999997533322333222321 12344555544 5799999863
No 138
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=81.86 E-value=2.6 Score=32.01 Aligned_cols=58 Identities=21% Similarity=0.259 Sum_probs=36.9
Q ss_pred CCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 71 TKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 71 ~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
.+.+++||++........ ++ ...|+++|+..++++.+.+++ .+ ..+. +.+++.|++++
T Consensus 89 ~DLkGK~i~v~~~s~~~~----~~---~~~l~~~g~~~~~v~~v~~~~-~~---~~~a-l~~g~vDa~~~ 146 (216)
T PF09084_consen 89 ADLKGKKIGVSRGSSSEY----FL---RALLKKNGIDPDDVKIVNLGP-PE---LAQA-LLSGQVDAAIL 146 (216)
T ss_dssp GGGTTSEEEESTTSHHHH----HH---HHHHHHTTT-GGGSEEEES-H-HH---HHHH-HHTTSSSEEEE
T ss_pred HHhCCCEEEEecCcchhH----HH---HHHHHHhccccccceeeeeeh-hh---hhhh-hhcCCCCEEEE
Confidence 356788999766434333 22 245788999999999887764 23 3332 34689999884
No 139
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=81.75 E-value=6.9 Score=31.59 Aligned_cols=29 Identities=3% Similarity=-0.079 Sum_probs=18.7
Q ss_pred EEEEEeee-cHHHHHHHHHHHHHHHHHCCC
Q 032216 78 FALVVARF-NELVTKLLLEGALETFKKYSV 106 (145)
Q Consensus 78 IaIVvArf-N~~It~~LleGA~~~L~~~Gv 106 (145)
||++...+ ....-..+++++.++++++|+
T Consensus 2 Igvi~~~~~~~~~~~~~~~gi~~~~~~~g~ 31 (305)
T cd06324 2 VVFLNPGKSDEPFWNSVARFMQAAADDLGI 31 (305)
T ss_pred eEEecCCCCCCcHHHHHHHHHHHHHHhcCC
Confidence 56666666 444445677777777777776
No 140
>cd06290 PBP1_LacI_like_9 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=81.68 E-value=5.7 Score=30.60 Aligned_cols=66 Identities=17% Similarity=0.170 Sum_probs=43.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH---HHHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI---GVVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL---Plaak~La~s-~~yDAVIaLG 142 (145)
..||+++...-+......-.+|..+.+.++|+...... .+++.++. --++++++++ .++|||+|..
T Consensus 115 ~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~aii~~~ 184 (265)
T cd06290 115 HRRIAHITGPRGHIDARDRLAGYRKALEEAGLEVQPDL--IVQGDFEEESGLEAVEELLQRGPDFTAIFAAN 184 (265)
T ss_pred CCeEEEEeCccccchhhHHHHHHHHHHHHcCCCCCHHH--EEecCCCHHHHHHHHHHHHcCCCCCCEEEEcC
Confidence 46999998765555555677999999999987533221 23444432 1245556554 4689999864
No 141
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=81.21 E-value=14 Score=30.70 Aligned_cols=65 Identities=6% Similarity=0.031 Sum_probs=43.3
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEee
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaLG 142 (145)
.++.+||+|...+-...-..+++|..+.++++|. ..++.+++.++--. .++.| .+.++||+|..+
T Consensus 22 ~~~~~Igvv~~~~~~~f~~~~~~gi~~~a~~~g~----~~~~~~~~~~~~~~~~~~i~~l-~~~~vdgiIi~~ 89 (330)
T PRK15395 22 AADTRIGVTIYKYDDNFMSVVRKAIEKDAKAAPD----VQLLMNDSQNDQSKQNDQIDVL-LAKGVKALAINL 89 (330)
T ss_pred cCCceEEEEEecCcchHHHHHHHHHHHHHHhcCC----eEEEEecCCCCHHHHHHHHHHH-HHcCCCEEEEec
Confidence 4567899999877666677899999999999863 23444444443332 22333 356899999864
No 142
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=81.08 E-value=8.5 Score=30.00 Aligned_cols=61 Identities=15% Similarity=0.061 Sum_probs=34.4
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH--HHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG--VVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP--laak~La~s~~yDAVIaLG 142 (145)
+||+|. .+....-..++.|..++++++|+. +.++ .+..++.- .-.-+.+.+.++||+|...
T Consensus 1 ~i~~v~-~~~~~~~~~~~~gi~~~~~~~g~~---~~~~-~~~~~~~~~~~~~i~~l~~~~vDgiIi~~ 63 (271)
T cd06314 1 TIAVVT-NGASPFWKIAEAGVKAAGKELGVD---VEFV-VPQQGTVNAQLRMLEDLIAEGVDGIAISP 63 (271)
T ss_pred CeEEEc-CCCcHHHHHHHHHHHHHHHHcCCe---EEEe-CCCCCCHHHHHHHHHHHHhcCCCEEEEec
Confidence 467666 344555667888888888888863 3333 12222222 1111223456888888764
No 143
>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=80.90 E-value=4.5 Score=30.93 Aligned_cols=64 Identities=16% Similarity=0.161 Sum_probs=42.5
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch---HHHHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE---IGVVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE---LPlaak~La~-s~~yDAVIaLG 142 (145)
..||+++..+-+....+.-.+|..+.++++|.. +... +.+.++ .--.++.+.+ ..++|||+|.+
T Consensus 115 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~ 182 (266)
T cd06278 115 CRRIAFIGGPADTSTSRERERGFRDALAAAGVP---VVVE-EAGDYSYEGGYEAARRLLASRPRPDAIFCAN 182 (266)
T ss_pred CceEEEEcCCCcccchHHHHHHHHHHHHHcCCC---hhhh-ccCCCCHHHHHHHHHHHHhcCCCCCEEEEcC
Confidence 459999998877767777889999999999875 2111 223332 2233344444 35799999865
No 144
>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=80.82 E-value=10 Score=30.86 Aligned_cols=65 Identities=17% Similarity=0.096 Sum_probs=45.5
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..|++++...-+ ...+.+.++..+.++++|+..... ...-|+.-+.--.++++.+ .+.|+|++.+
T Consensus 132 ~~~~~~i~~~~~-~~g~~~~~~~~~~~~~~G~~v~~~-~~~~~~~~d~~~~~~~i~~-~~pdaV~~~~ 196 (341)
T cd06341 132 GTRAVALVTALS-AAVSAAAALLARSLAAAGVSVAGI-VVITATAPDPTPQAQQAAA-AGADAIITVL 196 (341)
T ss_pred CcEEEEEEeCCc-HHHHHHHHHHHHHHHHcCCccccc-cccCCCCCCHHHHHHHHHh-cCCCEEEEec
Confidence 569998876533 356678899999999999863222 2223566788667777754 4799998765
No 145
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=80.72 E-value=8.8 Score=30.06 Aligned_cols=68 Identities=15% Similarity=-0.038 Sum_probs=41.9
Q ss_pred CCEEEEEEeeecHH------HHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNEL------VTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~------It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s-~~yDAVIaLG 142 (145)
..||+++....... ..+.-++|..+.++++|+......+....=.++-. -++++++++ .++|||+|-.
T Consensus 113 ~~~i~~i~~~~~~~~~~~~~~~~~R~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 188 (269)
T cd06297 113 PGRIGAITVEEEPDRAFRRTVFAERRAGFQQALKDAGRPFSPDLLAITDHSEEGGRLAMRHLLEKASPPLAVFASA 188 (269)
T ss_pred CCceEEEeCccccccccccccHHHHHHHHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHcCCCCCcEEEEcC
Confidence 35899997765444 45566799999999999863321222222122222 244555544 5689999864
No 146
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=80.51 E-value=9.8 Score=29.29 Aligned_cols=65 Identities=17% Similarity=0.133 Sum_probs=40.9
Q ss_pred CCEEEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHh-hcCCCcEEEEee
Q 032216 75 GLRFALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLG-KSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La-~s~~yDAVIaLG 142 (145)
..||+++...-+ ......-.+|..+.|+++|...+.+ ..++.++.. -.+++++ +..+.|||+|.+
T Consensus 112 ~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~---~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 181 (265)
T cd06291 112 CKHIAHIGGPNNTVSPTNLRYEGFLDVLKENGLEVRII---EIQENFDDAEKKEEIKELLEEYPDIDGIFASN 181 (265)
T ss_pred CcEEEEEccCcccccchHHHHHHHHHHHHHcCCCCChh---eeeccccchHHHHHHHHHHhCCCCCCEEEECC
Confidence 458999987665 3555566799999999999864322 233434322 1333444 345689999853
No 147
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=80.45 E-value=7.3 Score=30.60 Aligned_cols=64 Identities=6% Similarity=-0.005 Sum_probs=40.9
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhc-CCCcEEEE
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKS-GKYTAVLC 140 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s-~~yDAVIa 140 (145)
..||+++...-+...+..-.+|..+.++++|+.. ..+......+|-.. +++.++++ .++|+|+|
T Consensus 125 ~~~i~~l~g~~~~~~~~~R~~g~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~ 190 (268)
T cd06306 125 PAKVAWFPGPKGAGWVKAVEKGFRDALAGSAIEI--SAIKYGDTGKEVQRKLVEEALEAHPDIDYIVG 190 (268)
T ss_pred CceEEEEeCCCCCchHHHHHHHHHHHHhhcCcEE--eeeccCCccHHHHHHHHHHHHHhCCCcCEEee
Confidence 3699999877666566777899999999988742 11222223333332 33444543 57899986
No 148
>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=80.40 E-value=11 Score=31.29 Aligned_cols=64 Identities=6% Similarity=0.067 Sum_probs=47.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHHHHHHHHhhc--------------------C
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIGVVAQQLGKS--------------------G 133 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELPlaak~La~s--------------------~ 133 (145)
..||+|+.. |....+.+.++..+.+++.|+.. +...+ -||.-+.--.++++... .
T Consensus 124 ~k~vaii~~--~~~~g~~~~~~f~~~~~~~G~~v--v~~~~~~~~~~d~~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~ 199 (336)
T cd06339 124 KRRPLVLAP--DGAYGQRVADAFRQAWQQLGGTV--VAIESYDPSPTDLSDAIRRLLGVDDSEQRIAQLKSLESEPRRRQ 199 (336)
T ss_pred ccceEEEec--CChHHHHHHHHHHHHHHHcCCce--eeeEecCCCHHHHHHHHHHHhccccchhhhhhhhhcccCccccC
Confidence 468999986 45667889999999999999852 33333 35888887778777654 3
Q ss_pred CCcEEEEee
Q 032216 134 KYTAVLCIG 142 (145)
Q Consensus 134 ~yDAVIaLG 142 (145)
+.|+|+.++
T Consensus 200 ~~d~v~~~~ 208 (336)
T cd06339 200 DIDAIDAVA 208 (336)
T ss_pred CCCcEEEEe
Confidence 789998865
No 149
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=80.25 E-value=7.9 Score=32.82 Aligned_cols=67 Identities=19% Similarity=0.217 Sum_probs=44.8
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhhc-CC-CcEEEEe
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGKS-GK-YTAVLCI 141 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~s-~~-yDAVIaL 141 (145)
....||+++...-+......=++|.++.|+++|+... ....++|.|..- -++++++.. .+ .|||+|.
T Consensus 173 ~G~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~--~~~i~~~~~~~~~g~~~~~~ll~~~~~~ptAif~~ 244 (333)
T COG1609 173 LGHRRIAFIGGPLDSSASRERLEGYRAALREAGLPIN--PEWIVEGDFSEESGYEAAERLLARGEPRPTAIFCA 244 (333)
T ss_pred CCCceEEEEeCCCccccHhHHHHHHHHHHHHCCCCCC--cceEEecCCChHHHHHHHHHHHhcCCCCCcEEEEc
Confidence 3356899999996544545557999999999999742 334455665333 233445543 34 9999985
No 150
>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=80.01 E-value=5.6 Score=30.38 Aligned_cols=66 Identities=15% Similarity=0.136 Sum_probs=40.1
Q ss_pred CCEEEEEEeee-cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc-hHHHHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARF-NELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF-EIGVVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArf-N~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf-ELPlaak~La~s-~~yDAVIaLG 142 (145)
..||+++.++- |....+.-.+|..+.|+++|+.... .+..+-.. +..-.+..++++ .+.|||+|.+
T Consensus 116 ~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 184 (266)
T cd06282 116 HRRIAMLAGRLAASDRARQRYAGYRAAMRAAGLAPLP--PVEIPFNTAALPSALLALLTAHPAPTAIFCSN 184 (266)
T ss_pred cccEEEeccccccCchHHHHHHHHHHHHHHcCCCCCc--cccCCCcHHHHHHHHHHHhcCCCCCCEEEECC
Confidence 45899997653 3334555679999999999985222 22333221 122334444444 4789999864
No 151
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=79.88 E-value=5 Score=34.23 Aligned_cols=61 Identities=16% Similarity=0.061 Sum_probs=37.3
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEeccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..++-.. ...+...+.|++.|+. ++++..+|- +|-=..+-.+++..++|.||++|
T Consensus 23 ~~~liv~~~~~~~---~~~~~v~~~l~~~~i~---~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIavG 85 (349)
T cd08550 23 SKVAVVGGKTVLK---KSRPRFEAALAKSIIV---VDVIVFGGECSTEEVVKALCGAEEQEADVIIGVG 85 (349)
T ss_pred CeEEEEEChHHHH---HHHHHHHHHHHhcCCe---eEEEEcCCCCCHHHHHHHHHHHHhcCCCEEEEec
Confidence 5888887655433 4567788888888873 333333442 22111222334567999999998
No 152
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=79.75 E-value=9.4 Score=30.76 Aligned_cols=66 Identities=21% Similarity=0.142 Sum_probs=39.9
Q ss_pred CCCEEEEEEeeecHH-HHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNEL-VTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~-It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~s~~yDAVIaLG 142 (145)
...||+++...-+.. ..+.-.+|..+.|+++|+......+. .+.|..- -+++++.+. +.|||+|.+
T Consensus 175 G~~~I~~i~g~~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~--~~~~~~~~~~~~~~~ll~~-~p~ai~~~~ 244 (329)
T TIGR01481 175 GHKSIAFVGGPLSDSINGEDRLEGYKEALNKAGIQFGEDLVC--EGKYSYDAGYKAFAELKGS-LPTAVFVAS 244 (329)
T ss_pred CCCeEEEEecCcccccchHHHHHHHHHHHHHcCCCCCcceEE--ecCCChHHHHHHHHHHhCC-CCCEEEEcC
Confidence 345899997654332 23455699999999999864332222 3444322 233445543 579999964
No 153
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=79.25 E-value=11 Score=30.23 Aligned_cols=64 Identities=17% Similarity=0.086 Sum_probs=38.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-EecccchH--HH-HHHHHhh-cCCCcEEEEe
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGSFEI--GV-VAQQLGK-SGKYTAVLCI 141 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGAfEL--Pl-aak~La~-s~~yDAVIaL 141 (145)
.||+++...-.....+...+|+.+.++++|.. ++.++ ...+.+.. -+ .++.+++ ..++|||+|-
T Consensus 124 ~~I~~i~g~~~~~~~~~r~~g~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~ai~~~ 192 (302)
T TIGR02637 124 GEIAILSAASTATNQNAWIEIMKKELKDPKYP--KVKLVATVYGDDDAQKSYQEAQGLLKSYPNLKGIIAP 192 (302)
T ss_pred cEEEEEECCCCCccHHHHHHHHHHHHhhccCC--CCEEEeeecCCchHHHHHHHHHHHHHhCCCccEEEeC
Confidence 49999986544334455679999999988764 23332 23344432 22 2334443 4579999985
No 154
>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=79.07 E-value=6.6 Score=28.72 Aligned_cols=65 Identities=18% Similarity=0.130 Sum_probs=41.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc--hHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF--EIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf--ELPlaak~La~s~~yDAVIaLG 142 (145)
..||+++...-. .......++..+.++++|+. ...+...+..- ..-.+.+.+.+..+.|+|++.+
T Consensus 124 ~~~i~~i~~~~~-~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~ 190 (269)
T cd01391 124 WKRVALIYGDDG-AYGRERLEGFKAALKKAGIE--VVAIEYGDLDTEKGFQALLQLLKAAPKPDAIFACN 190 (269)
T ss_pred CceEEEEecCCc-chhhHHHHHHHHHHHhcCcE--EEeccccCCCccccHHHHHHHHhcCCCCCEEEEcC
Confidence 569999998775 55677889999999999853 12222333222 2333444444434799999875
No 155
>cd08187 BDH Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. The butanol dehydrogenase (BDH) is involved in the final step of the butanol formation pathway in anaerobic micro-organism. Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. Activity in the reverse direction was 50-fold lower than that in the forward direction. The NADH-BDH had higher activity with longer chained aldehydes and was inhibited by metabolites containing an adenine moiety. This protein family belongs to the so-called iron-containing alcohol dehydrogenase superfamily. Since members of this superfamily use different divalent ions, preferentially iron or zinc, it has been suggested to be renamed to family III metal-dependent polyol dehydrogenases.
Probab=78.77 E-value=4.2 Score=35.21 Aligned_cols=64 Identities=19% Similarity=0.175 Sum_probs=38.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecc--cchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPG--SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPG--AfELPlaak~La~s~~yDAVIaLG 142 (145)
+.|+.||..+....-+ .+++...+.|+++|+. +.++. |.. .+|.-..+-.+++..++|+||++|
T Consensus 28 ~~r~livt~~~~~~~~-~~~~~v~~~L~~~g~~---~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 94 (382)
T cd08187 28 GKKVLLVYGGGSIKKN-GLYDRVIASLKEAGIE---VVELGGVEPNPRLETVREGIELCKEEKVDFILAVG 94 (382)
T ss_pred CCEEEEEeCCcHHHhc-CcHHHHHHHHHHcCCe---EEEECCccCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 3699999875332211 3456667778888863 22221 211 234444445556778999999998
No 156
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=78.74 E-value=14 Score=30.10 Aligned_cols=64 Identities=19% Similarity=0.204 Sum_probs=52.4
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHh--hcCCCcEEEEe
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLG--KSGKYTAVLCI 141 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La--~s~~yDAVIaL 141 (145)
+.+|+++...-+......|.+|+.++.++.|+ ...+...++-...+--++.+- -..++|||+.-
T Consensus 33 ~~~i~~~~~~~~~~f~~~~~~g~~~~a~~~g~---~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~ 98 (322)
T COG1879 33 GKTIGVVVPTLGNPFFQAVRKGAEAAAKKLGV---VVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIIN 98 (322)
T ss_pred CceEEEEeccCCChHHHHHHHHHHHHHHHcCC---cEEEEecccccChHHHHHHHHHHHHcCCCEEEEc
Confidence 36899999999998999999999999999997 457788888888886555532 25799999864
No 157
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=78.51 E-value=11 Score=28.86 Aligned_cols=69 Identities=14% Similarity=0.121 Sum_probs=41.4
Q ss_pred CCCEEEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc-cch-HHHHHHHHhhcC-CCcEEEEeee
Q 032216 74 EGLRFALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVPG-SFE-IGVVAQQLGKSG-KYTAVLCIGA 143 (145)
Q Consensus 74 ~~lRIaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG-AfE-LPlaak~La~s~-~yDAVIaLG~ 143 (145)
...||+++...-+ ..-...-.+|.++.++++|...+. ..+..++ ..+ .--+++.+.++. ++|||+|-+.
T Consensus 115 g~~~i~~l~~~~~~~~~~~~r~~g~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d 187 (267)
T cd06283 115 GYERILFVTEPLDEISPRMERYEGFKEALAEHGIGVNE-ELIEIDDEDADELDERLRQLLNKPKKKTAIFAANG 187 (267)
T ss_pred CCCcEEEEecCccccccHHHHHHHHHHHHHHcCCCCCc-ceeEecccchHHHHHHHHHHHcCCCCCCEEEEcCc
Confidence 3468999976543 223345679999999999964322 2222222 232 334556665543 6999999753
No 158
>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=78.07 E-value=19 Score=27.18 Aligned_cols=65 Identities=14% Similarity=0.200 Sum_probs=40.0
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCC-CCCCCeEEEEecccch---HHHHHHHHhh-cCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYS-VKEENIDVVWVPGSFE---IGVVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~G-v~~e~I~vv~VPGAfE---LPlaak~La~-s~~yDAVIaLG 142 (145)
...||+++...-+....+.-.+|..+.++++| +. +..+ ..+.+. .--.++++.+ ..+.|+|+|..
T Consensus 120 g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~---~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~ 189 (267)
T cd01536 120 GKGKVAIIEGPPGSSNAQERVKGFRDALKEYPDIE---IVAV-QDGNWDREKALQAMEDLLQANPDIDAIFAAN 189 (267)
T ss_pred CCceEEEEEcccccchHHHHHHHHHHHHHhCCCcE---EEEE-ecCCCcHHHHHHHHHHHHHhCCCccEEEEec
Confidence 45799999875443456667899999999995 43 2222 233332 2223344443 45689999864
No 159
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=77.90 E-value=9.9 Score=30.67 Aligned_cols=66 Identities=21% Similarity=0.081 Sum_probs=40.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhc-C-CCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKS-G-KYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s-~-~yDAVIaLG 142 (145)
..||+++...-+....+.=.+|..+.|+++|+... .++......|-.+ +++.+++. + ++|||+|.+
T Consensus 178 ~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~--~~~~~~~~~~~~~~~~~~ll~~~~~~~~Ai~~~~ 246 (327)
T TIGR02417 178 ADEFWYLGAQPELSVSRDRLAGFRQALKQATLEVE--WVYGGNYSRESGYQMFAKLCARLGRLPQALFTTS 246 (327)
T ss_pred CCeEEEEeCcccchhHHHHHHHHHHHHHHcCCChH--hEEeCCCChHHHHHHHHHHHhcCCCCCcEEEEcC
Confidence 46999997654433344456999999999998522 2222233334332 34555554 3 589999964
No 160
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=77.86 E-value=10 Score=29.04 Aligned_cols=68 Identities=22% Similarity=0.113 Sum_probs=41.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s-~~yDAVIaLG 142 (145)
..||+++...=+....+.-.+|+.+.++++|+......+...+...+-- -.++.++++ .++|||+|..
T Consensus 116 ~~~i~~l~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 185 (269)
T cd06288 116 HRRIAFINGEPWMLAAKDRLKGYRQALAEAGIPFDPDLVVHGDWSADDGYEAAAALLDLDDRPTAIFCGN 185 (269)
T ss_pred CceEEEEeCCccchhHHHHHHHHHHHHHHcCCCCCHHHeEeCCCChHHHHHHHHHHHhCCCCCCEEEEeC
Confidence 4589999765554445566799999999999753322233333332211 234555544 4699999864
No 161
>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=77.83 E-value=24 Score=28.22 Aligned_cols=63 Identities=19% Similarity=0.240 Sum_probs=46.6
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-GAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||+||... ..-.+.+.+...+.+++.|++ .+..+++| |.-+.--.++++.+ .+.|+|+..+
T Consensus 135 ~~~v~iv~~~--~~~g~~~~~~~~~~~~~~G~~--vv~~~~~~~~~~d~~~~~~~l~~-~~~d~v~~~~ 198 (343)
T PF13458_consen 135 AKKVAIVYPD--DPYGRSLAEAFRKALEAAGGK--VVGEIRYPPGDTDFSALVQQLKS-AGPDVVVLAG 198 (343)
T ss_dssp TSEEEEEEES--SHHHHHHHHHHHHHHHHTTCE--EEEEEEE-TTSSHHHHHHHHHHH-TTTSEEEEES
T ss_pred CcEEEEEecC--chhhhHHHHHHHHHHhhcCce--eccceecccccccchHHHHHHhh-cCCCEEEEec
Confidence 5699999876 445577889999999999985 33445555 77777777787764 6889887764
No 162
>PRK03708 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=77.40 E-value=4.7 Score=34.12 Aligned_cols=61 Identities=20% Similarity=0.173 Sum_probs=36.3
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec----ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP----GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP----GAfELPlaak~La~s~~yDAVIaLG 142 (145)
|||+|| .+.++.-...+.+...+.|+++|+. +.+...- +.++-+ ....+ ...++|.||++|
T Consensus 1 m~v~iv-~~~~k~~~~~~~~~I~~~L~~~g~~---v~v~~~~~~~~~~~~~~-~~~~~-~~~~~d~vi~iG 65 (277)
T PRK03708 1 MRFGIV-ARRDKEEALKLAYRVYDFLKVSGYE---VVVDSETYEHLPEFSEE-DVLPL-EEMDVDFIIAIG 65 (277)
T ss_pred CEEEEE-ecCCCHHHHHHHHHHHHHHHHCCCE---EEEecchhhhcCccccc-ccccc-cccCCCEEEEEe
Confidence 689888 5555566667888889999999974 2222110 111110 00111 224799999998
No 163
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=77.37 E-value=11 Score=29.67 Aligned_cols=59 Identities=14% Similarity=0.239 Sum_probs=45.0
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh---cCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK---SGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~---s~~yDAVIaLG 142 (145)
||+||.+.-.+. .-.+.|.+.|++.|+. ..++|=++.-.|--+..+++ ...+|.+||..
T Consensus 2 ~V~Ii~gs~SD~---~~~~~a~~~L~~~gi~----~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~A 63 (150)
T PF00731_consen 2 KVAIIMGSTSDL---PIAEEAAKTLEEFGIP----YEVRVASAHRTPERLLEFVKEYEARGADVIIAVA 63 (150)
T ss_dssp EEEEEESSGGGH---HHHHHHHHHHHHTT-E----EEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEE
T ss_pred eEEEEeCCHHHH---HHHHHHHHHHHHcCCC----EEEEEEeccCCHHHHHHHHHHhccCCCEEEEEEC
Confidence 799999998877 6679999999999975 34689999999987777654 34689888864
No 164
>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=77.14 E-value=9.8 Score=30.03 Aligned_cols=27 Identities=15% Similarity=-0.104 Sum_probs=11.6
Q ss_pred EEEeeecHHHHHHHHHHHHHHHHHCCC
Q 032216 80 LVVARFNELVTKLLLEGALETFKKYSV 106 (145)
Q Consensus 80 IVvArfN~~It~~LleGA~~~L~~~Gv 106 (145)
++..++....-..+++|..++++++|+
T Consensus 4 ~~~~~~~~~f~~~~~~gi~~~~~~~G~ 30 (272)
T cd06313 4 FSNIGLQATWCAQGKQAADEAGKLLGV 30 (272)
T ss_pred eeecccCChHHHHHHHHHHHHHHHcCC
Confidence 333333333333444444454444443
No 165
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=77.09 E-value=14 Score=29.58 Aligned_cols=62 Identities=16% Similarity=0.032 Sum_probs=35.7
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHH--hhcCCCcEEEEee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQL--GKSGKYTAVLCIG 142 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~L--a~s~~yDAVIaLG 142 (145)
|++|........-..+++|+.+.++++|.. ..++..+...+.....+.+ +.+.++||||..+
T Consensus 1 Igvi~~~~~~~f~~~~~~gi~~~a~~~g~~---~~i~~~~~~~d~~~q~~~i~~l~~~~vdgiIi~~ 64 (302)
T TIGR02637 1 IGLVVKSLGNPFFEAANKGAEEAAKELGSV---YIIYTGPTGTTAEGQIEVVNSLIAQKVDAIAISA 64 (302)
T ss_pred CEEEeccCCCHHHHHHHHHHHHHHHHhCCe---eEEEECCCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 456666655556667888888888888841 1222234433333222221 2246789888764
No 166
>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=77.07 E-value=20 Score=27.97 Aligned_cols=65 Identities=12% Similarity=0.067 Sum_probs=41.1
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH-HHHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI-GVVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL-Plaak~La~-s~~yDAVIaLG 142 (145)
..||+++.+.-+......-++|..+.++++|+. +..+.....+|- --+++.+++ ..++|+|+|.+
T Consensus 125 ~~~i~~i~g~~~~~~~~~r~~g~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~l~~~~~~~aI~~~~ 191 (271)
T cd06312 125 GKNVLCVIHEPGNVTLEDRCAGFADGLGGAGIT---EEVIETGADPTEVASRIAAYLRANPDVDAVLTLG 191 (271)
T ss_pred CCeEEEEecCCCCccHHHHHHHHHHHHHhcCce---eeEeecCCCHHHHHHHHHHHHHhCCCccEEEEeC
Confidence 458999987555455556779999999999874 222322333332 234455544 45799999874
No 167
>PF01976 DUF116: Protein of unknown function DUF116; InterPro: IPR002829 These archaeal and bacterial proteins have no known function. Members of this family contain seven conserved cysteines and may also be an integral membrane protein.
Probab=76.89 E-value=7.4 Score=30.68 Aligned_cols=40 Identities=18% Similarity=0.228 Sum_probs=30.5
Q ss_pred HHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeee
Q 032216 96 GALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 96 GA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~V 144 (145)
...+..+++|+ .++-|||. -.+++..++.+.||||+++|.
T Consensus 77 ~l~~lae~~g~-----~v~i~~Gg----t~ar~~ik~~~p~~iigVAC~ 116 (158)
T PF01976_consen 77 DLKKLAEKYGY-----KVYIATGG----TLARKIIKEYRPKAIIGVACE 116 (158)
T ss_pred HHHHHHHHcCC-----EEEEEcCh----HHHHHHHHHhCCCEEEEEech
Confidence 34556677786 58889998 455667777899999999984
No 168
>cd08191 HHD 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. 6-hydroxyhexanoate dehydrogenase (HHD). The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate. Some bacteria can grow on cyclic ketones, cyclohexylamine, and alcohols as sole carbon source. Cyclohexylamine is an insecticide and antiseptic in various industries and is considered a possible environmental pollutant. The degradation of these chemical compounds are through the cyclohexanol and cyclohexanone biological oxidation pathway. The intermediates of this pathway include cyclohexanol, cyclohexanone, e-caprolactone, 6-hydroxyhexanoate, 6-oxohexanoate and adipate. The 6-hydroxyhexanoate dehydrogenase catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate.
Probab=76.85 E-value=3.5 Score=35.78 Aligned_cols=59 Identities=14% Similarity=0.183 Sum_probs=36.5
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc------hHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF------EIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf------ELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-.. ..+++...+.|++.|+. +.++ .|.- ++=-.+ .++++.++|.||++|
T Consensus 23 ~~~livt~~~~~~--~~~~~~v~~~L~~~~~~---~~~f--~~v~~~~~~~~v~~~~-~~~~~~~~D~IIaiG 87 (386)
T cd08191 23 SRALIVTDERMAG--TPVFAELVQALAAAGVE---VEVF--DGVLPDLPRSELCDAA-SAAARAGPDVIIGLG 87 (386)
T ss_pred CeEEEEECcchhh--cchHHHHHHHHHHcCCe---EEEE--CCCCCCcCHHHHHHHH-HHHHhcCCCEEEEeC
Confidence 5888888654332 35667777788888874 3333 3332 221222 234568999999998
No 169
>COG1454 EutG Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=76.76 E-value=3.6 Score=36.82 Aligned_cols=64 Identities=19% Similarity=0.182 Sum_probs=42.5
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH--HHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV--AQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla--ak~La~s~~yDAVIaLG 142 (145)
..|+.||..++ ..--.+++..++.|++.|+... ..-.|++-=.+=.+ +-...+..++|.||+||
T Consensus 29 ~~r~liVTd~~--~~~~g~~~~v~~~L~~~~i~~~--if~~v~p~P~~~~v~~~~~~~~~~~~D~iIalG 94 (377)
T COG1454 29 AKRALIVTDRG--LAKLGLLDKVLDSLDAAGIEYE--VFDEVEPEPTIETVEAGAEVAREFGPDTIIALG 94 (377)
T ss_pred CCceEEEECCc--cccchhHHHHHHHHHhcCCeEE--EecCCCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 36999999997 3334578888899999996411 12234444333333 33445778999999998
No 170
>PRK09526 lacI lac repressor; Reviewed
Probab=76.75 E-value=8.9 Score=31.06 Aligned_cols=65 Identities=22% Similarity=0.253 Sum_probs=41.1
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhh-cCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~-s~~yDAVIaLG 142 (145)
...||+++...-+....+.-.+|..+.|+++|+.. .. ...|.|+..- +++.+++ ..++|||+|.+
T Consensus 180 G~~~I~~l~g~~~~~~~~~R~~Gf~~al~~~gi~~--~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 248 (342)
T PRK09526 180 GHQRIALLAGPESSVSARLRLAGWLEYLTDYQLQP--IA--VREGDWSAMSGYQQTLQMLREGPVPSAILVAN 248 (342)
T ss_pred CCCeEEEEeCCCccccHHHHHHHHHHHHHHcCCCc--ce--EEeCCCchHHHHHHHHHHhcCCCCCcEEEEcC
Confidence 34699999875544344455699999999999852 12 2345554332 2344443 45799999864
No 171
>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=76.41 E-value=20 Score=27.51 Aligned_cols=68 Identities=19% Similarity=0.143 Sum_probs=39.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~-s~~yDAVIaLG 142 (145)
..||+++...-...-...-.+|..+.++++|+......+....-.++=. -.++++++ ..++|||+|..
T Consensus 118 ~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~ 187 (270)
T cd01545 118 HRRIAFIAGPPDHRASAERLEGYRDALAEAGLPLDPELVAQGDFTFESGLEAAEALLALPDRPTAIFASN 187 (270)
T ss_pred CceEEEEeCCCCchhHHHHHHHHHHHHHHcCCCCChhhEEeCCCChhhHHHHHHHHHhCCCCCCEEEEcC
Confidence 4699999754333333445699999999998764222233333222221 12344444 35799999853
No 172
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=76.20 E-value=15 Score=29.09 Aligned_cols=67 Identities=10% Similarity=-0.036 Sum_probs=39.4
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCC---CCCCCeEEEEeccc-chHH-HHHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYS---VKEENIDVVWVPGS-FEIG-VVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~G---v~~e~I~vv~VPGA-fELP-laak~La~s~~yDAVIaLG 142 (145)
...||+++.+.-. ...++..+|..+.++++| ...+...+...+.. ++-- -+++++.+++ .|||+|..
T Consensus 120 G~~~I~~i~~~~~-~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~~~-pdaI~~~n 191 (265)
T cd06354 120 KTGKVGFIGGMDI-PLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAGSFNDPAKGKEIAQAMYDQG-ADVIFAAA 191 (265)
T ss_pred CCCeEEEEecccC-hHHHHHHHHHHHHHHHHhccCCCceEEEEEcCcccCHHHHHHHHHHHHHCC-CcEEEECC
Confidence 3469999976432 223445589999999999 64222222222322 2322 3456666544 79999864
No 173
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=76.11 E-value=11 Score=30.59 Aligned_cols=66 Identities=18% Similarity=0.248 Sum_probs=39.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s-~~yDAVIaLG 142 (145)
..||+++...-+.. ...-.+|+.+.|+++|+....+ ++.....+|-. -++++++++ .++|||+|..
T Consensus 180 h~~I~~i~~~~~~~-~~~R~~Gf~~al~~~g~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~n 247 (331)
T PRK14987 180 HRHIAYLGARLDER-TIIKQKGYEQAMLDAGLVPYSV-MVEQSSSYSSGIELIRQARREYPQLDGVFCTN 247 (331)
T ss_pred CceEEEEcCCCccc-HHHHHHHHHHHHHHcCCCccce-eecCCCChhhHHHHHHHHHhcCCCCCEEEECC
Confidence 45899996554432 2345799999999999743221 22223334322 234555554 4689999853
No 174
>cd08171 GlyDH-like2 Glycerol dehydrogenase-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=76.02 E-value=8.9 Score=32.74 Aligned_cols=62 Identities=8% Similarity=0.182 Sum_probs=38.5
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc--cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG--SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG--AfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-. ....+...+.|+++|+.- .....++| .+|.=.-+-.+++..++|.||++|
T Consensus 23 ~r~liv~d~~~~---~~~~~~v~~~l~~~~~~~--~~~~~~~~~p~~~~v~~~~~~~~~~~~d~iiavG 86 (345)
T cd08171 23 KKVVVIGGKTAL---AAAKDKIKAALEQSGIEI--TDFIWYGGESTYENVERLKKNPAVQEADMIFAVG 86 (345)
T ss_pred CEEEEEeCHHHH---HHHHHHHHHHHHHCCCeE--EEEEecCCCCCHHHHHHHHHHHhhcCCCEEEEeC
Confidence 688888875322 234667777888888741 22334555 333333333455677999999998
No 175
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=75.77 E-value=3.4 Score=35.31 Aligned_cols=62 Identities=11% Similarity=0.089 Sum_probs=37.6
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecc--cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPG--SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPG--AfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-.. ....+...+.|++.|+. +.++. +++ .+|-=.-+-..++..++|+||++|
T Consensus 24 ~~~lvv~~~~~~~--~~~~~~v~~~L~~~~~~---~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IiaiG 88 (370)
T cd08551 24 RKALIVTDPGLVK--TGVLDKVIDSLKEAGIE---VVIFDGVEPNPTLSNVDAAVAAYREEGCDGVIAVG 88 (370)
T ss_pred CeEEEEeCcchhh--CccHHHHHHHHHHcCCe---EEEECCCCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 5898888764333 25566677788877763 33332 332 333323333345667899999998
No 176
>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=75.71 E-value=20 Score=27.80 Aligned_cols=65 Identities=14% Similarity=0.031 Sum_probs=39.2
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHC-CCCCCCeEEEEecccchH--H-HHHHHHhh-cCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKY-SVKEENIDVVWVPGSFEI--G-VVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~-Gv~~e~I~vv~VPGAfEL--P-laak~La~-s~~yDAVIaLG 142 (145)
...||+++.+.-.......-.+|..+.++++ |+. +.. .+-|.++. . ..++.+++ ..++|||+|.+
T Consensus 121 g~~~i~~l~~~~~~~~~~~R~~g~~~~l~~~~~~~---~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~aI~~~~ 190 (270)
T cd06308 121 GKGNILEIWGLEGSSPAIERHDGFKEALSKYPKIK---IVA-QQDGDWLKEKAEEKMEELLQANPDIDLVYAHN 190 (270)
T ss_pred CCceEEEEECCCCCchHHHHHHHHHHHHHHCCCCE---EEE-ecCCCccHHHHHHHHHHHHHhCCCCcEEEeCC
Confidence 3469999976443333344569999999999 753 111 12233332 1 34455554 45799999864
No 177
>PRK03767 NAD(P)H:quinone oxidoreductase; Provisional
Probab=75.53 E-value=15 Score=28.94 Aligned_cols=39 Identities=10% Similarity=0.127 Sum_probs=31.4
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHH-CCCCCCCeEEEEecc
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKK-YSVKEENIDVVWVPG 118 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~-~Gv~~e~I~vv~VPG 118 (145)
+||+||....+ --|+.|.+.+.+.+++ .|+ +++++++|-
T Consensus 2 ~kilIvy~S~~-G~T~~lA~~ia~g~~~~~G~---ev~~~~l~~ 41 (200)
T PRK03767 2 AKVLVLYYSMY-GHIETMAEAVAEGAREVAGA---EVTIKRVPE 41 (200)
T ss_pred CeEEEEEcCCC-CHHHHHHHHHHHHHhhcCCc---EEEEEeccc
Confidence 48999997776 5688899999999987 776 477888875
No 178
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=75.25 E-value=4.1 Score=35.35 Aligned_cols=61 Identities=11% Similarity=0.147 Sum_probs=38.1
Q ss_pred CEEEEEEeeecHHHHHH-HHHHHHHHHHHCCCCCCCeEEEE-eccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKL-LLEGALETFKKYSVKEENIDVVW-VPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~-LleGA~~~L~~~Gv~~e~I~vv~-VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+. +.+. +.+...+.|++.|+. +.++. |..- +|.-.-+-.+++..++|+||++|
T Consensus 31 ~~~lvvtd~~---~~~~g~~~~v~~~L~~~g~~---~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 95 (382)
T PRK10624 31 KKALIVTDKT---LVKCGVVAKVTDVLDAAGLA---YEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAIG 95 (382)
T ss_pred CEEEEEeCcc---hhhCcchHHHHHHHHHCCCe---EEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 5888888763 3333 677777888888874 44442 3222 23333333445677999999998
No 179
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=75.07 E-value=8 Score=31.14 Aligned_cols=64 Identities=14% Similarity=0.017 Sum_probs=40.4
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s-~~yDAVIaLG 142 (145)
..||+++...-+......-.+|..+.|+++|+.. ..+ ..+.|+..- +++.+++. .++|||+|..
T Consensus 179 ~r~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~---~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 246 (328)
T PRK11303 179 AESILLLGALPELSVSFEREQGFRQALKDDPREV---HYL-YANSFEREAGAQLFEKWLETHPMPDALFTTS 246 (328)
T ss_pred CCeEEEEeCccccccHHHHHHHHHHHHHHcCCCc---eEE-EeCCCChHHHHHHHHHHHcCCCCCCEEEEcC
Confidence 4689999865443334445689999999999842 222 334443322 34455544 4799999964
No 180
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=74.80 E-value=10 Score=29.17 Aligned_cols=65 Identities=17% Similarity=0.179 Sum_probs=41.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhc-CCCcEEEEe
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKS-GKYTAVLCI 141 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s-~~yDAVIaL 141 (145)
..||+++....+......-.+|..+.++++|+..+...+ +.|.+.--- .++.++++ .++|||+|-
T Consensus 117 ~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~ 185 (270)
T cd06296 117 HRRIGFITGPPDLLCSRARLDGYRAALAEAGIPVDPALV--REGDFSTESGFRAAAELLALPERPTAIFAG 185 (270)
T ss_pred CCcEEEEcCCCcchhHHHHHHHHHHHHHHcCCCCChHHh--eeCCCCHHHHHHHHHHHHhCCCCCcEEEEc
Confidence 458999988766555667789999999999875332212 234433221 23344433 568999985
No 181
>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=74.80 E-value=14 Score=28.49 Aligned_cols=64 Identities=11% Similarity=0.090 Sum_probs=37.4
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccc--hHH-HHHHHHhhc--CCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSF--EIG-VVAQQLGKS--GKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAf--ELP-laak~La~s--~~yDAVIaLG 142 (145)
.||+++.+.-.......-.+|..+.++++|.. +++.+ ..|-+ +-. -.++.++++ .++|||+|-+
T Consensus 126 ~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~~ 195 (275)
T cd06317 126 GQIVVIAGQPGNGTAIERQKGFEDELAEVCPG---VEVLDTQPADWDREKAQVAMEALITKFGDDIDGVYAGD 195 (275)
T ss_pred ceEEEEecCCCCchHHHHHHHHHHHHHhhCCC---CEEEeccCCCCCHHHHHHHHHHHHHhCCCCccEEEECC
Confidence 48999976332223344568999999999753 22222 23333 322 234555544 4689999853
No 182
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=74.46 E-value=5.2 Score=35.27 Aligned_cols=61 Identities=20% Similarity=0.190 Sum_probs=38.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE----ecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW----VPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~----VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.=.. ..+++...+.|++.|+. +.++. -|. +|.=.-+-.+++..++|.||++|
T Consensus 24 ~~vlivt~~~~~~--~g~~~~v~~~L~~~gi~---~~~f~~v~~~p~-~~~v~~~~~~~~~~~~D~IIaiG 88 (414)
T cd08190 24 RRVCLVTDPNLAQ--LPPVKVVLDSLEAAGIN---FEVYDDVRVEPT-DESFKDAIAFAKKGQFDAFVAVG 88 (414)
T ss_pred CeEEEEECcchhh--cchHHHHHHHHHHcCCc---EEEeCCCCCCcC-HHHHHHHHHHHHhcCCCEEEEeC
Confidence 5899998765222 23556677778888874 33332 343 34334444456778899999998
No 183
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=74.45 E-value=18 Score=30.70 Aligned_cols=62 Identities=18% Similarity=0.171 Sum_probs=42.5
Q ss_pred CEEEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc-hHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF-EIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf-ELPlaak~La~s~~yDAVIaLG 142 (145)
+|+.++.-... ....++.++.+.+.|+++|.. + ...+.... +.--.++++.. .+||.|||.|
T Consensus 3 ~~~~~i~Np~sG~~~~~~~~~~~~~~l~~~g~~---~-~~~~t~~~g~a~~~a~~a~~-~~~D~via~G 66 (301)
T COG1597 3 KKALLIYNPTSGKGKAKKLLREVEELLEEAGHE---L-SVRVTEEAGDAIEIAREAAV-EGYDTVIAAG 66 (301)
T ss_pred ceEEEEEcccccccchhhHHHHHHHHHHhcCCe---E-EEEEeecCccHHHHHHHHHh-cCCCEEEEec
Confidence 34555544444 356678899999999999985 2 22333333 67777777664 4999999998
No 184
>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=74.04 E-value=22 Score=27.58 Aligned_cols=65 Identities=18% Similarity=0.140 Sum_probs=39.6
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCC-CCCCCeEEEEecccchH---HHHHHHHhh-cCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYS-VKEENIDVVWVPGSFEI---GVVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~G-v~~e~I~vv~VPGAfEL---Plaak~La~-s~~yDAVIaLG 142 (145)
...||+++.+.-+....+.-.+|..+.+.++| +. +.. .+.+.++. --+++.+.+ ..+.|+|+|.+
T Consensus 124 g~~~i~~i~~~~~~~~~~~R~~g~~~a~~~~~~~~---~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~ 193 (272)
T cd06300 124 GKGNVLVVRGLAGHPVDEDRYAGAKEVLKEYPGIK---IVG-EVYGDWDQAVAQKAVADFLASNPDVDGIWTQG 193 (272)
T ss_pred CCceEEEEECCCCCcchHHHHHHHHHHHHHCCCcE---EEe-ecCCCCCHHHHHHHHHHHHHhCCCcCEEEecC
Confidence 34689999865444445566789999999987 53 111 23344432 223344444 35689999864
No 185
>PRK09701 D-allose transporter subunit; Provisional
Probab=73.68 E-value=13 Score=30.31 Aligned_cols=66 Identities=21% Similarity=0.200 Sum_probs=40.9
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCC-CCCCCeEEEEecccchHHH-HHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYS-VKEENIDVVWVPGSFEIGV-VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~G-v~~e~I~vv~VPGAfELPl-aak~La~s-~~yDAVIaLG 142 (145)
+.||+++.+.-+......-.+|+.+.|+++| +.. ......+...|-.. +++.++++ .++|+|+|.+
T Consensus 156 ~~~i~~l~g~~~~~~~~~R~~Gf~~al~~~~~~~~--~~~~~~~~~~~~~~~~~~~ll~~~~~~~~I~~~~ 224 (311)
T PRK09701 156 GGEVAIIEGKAGNASGEARRNGATEAFKKASQIKL--VASQPADWDRIKALDVATNVLQRNPNIKAIYCAN 224 (311)
T ss_pred CCEEEEEECCCCCccHHHHHHHHHHHHHhCCCcEE--EEecCCCCCHHHHHHHHHHHHHhCCCCCEEEECC
Confidence 4699999775555556677799999999987 531 11122333344332 33445544 5799999864
No 186
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=73.68 E-value=6.2 Score=31.04 Aligned_cols=35 Identities=23% Similarity=0.286 Sum_probs=29.7
Q ss_pred CCCeEEEEec--ccchHHHHHHHHhhcCCCcEEEEeeee
Q 032216 108 EENIDVVWVP--GSFEIGVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 108 ~e~I~vv~VP--GAfELPlaak~La~s~~yDAVIaLG~V 144 (145)
+.++.+++|| |.++.-++++.|. +..|||+.-||=
T Consensus 27 p~~vRiIrv~CsGrvn~~fvl~Al~--~GaDGV~v~GC~ 63 (132)
T COG1908 27 PPNVRIIRVMCSGRVNPEFVLKALR--KGADGVLVAGCK 63 (132)
T ss_pred CCceEEEEeeccCccCHHHHHHHHH--cCCCeEEEeccc
Confidence 4578888876 8999999999885 689999999994
No 187
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=73.62 E-value=13 Score=28.87 Aligned_cols=57 Identities=14% Similarity=0.017 Sum_probs=34.1
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHH-CCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKK-YSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~-~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
|||+|+. .-...-..|++|+.+++++ .|.. ++--++. +. -.++. +.+.++||+|..+
T Consensus 1 ~ig~i~~-~~~~~~~~~~~gi~~~~~~~~g~~-----~~~~~~~-~~-~~~~~-l~~~~vdGiI~~~ 58 (265)
T cd01543 1 RVALLVE-TSSSYGRGVLRGIARYAREHGPWS-----IYLEPRG-LQ-EPLRW-LKDWQGDGIIARI 58 (265)
T ss_pred CeEEEec-ccchhhHHHHHHHHHHHHhcCCeE-----EEEeccc-ch-hhhhh-ccccccceEEEEC
Confidence 6888886 3344556688999999999 5652 2222332 21 11122 3466899998754
No 188
>PRK13197 pyrrolidone-carboxylate peptidase; Provisional
Probab=73.54 E-value=8.1 Score=31.64 Aligned_cols=40 Identities=23% Similarity=0.277 Sum_probs=30.2
Q ss_pred CCCCCCCeEEEEecccc-hHHHHHHHHhhcCCCcEEEEeee
Q 032216 104 YSVKEENIDVVWVPGSF-EIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 104 ~Gv~~e~I~vv~VPGAf-ELPlaak~La~s~~yDAVIaLG~ 143 (145)
..+....|....+|=+| +..-.+..+.++.++|+||++|.
T Consensus 30 ~~~~~~~i~~~~lPV~y~~~~~~l~~~l~~~~Pd~vih~G~ 70 (215)
T PRK13197 30 KEIGGAEIIKRQLPTVFGKSAEVLKEAIEEVQPDAVICIGQ 70 (215)
T ss_pred cccCCcEEEEEEECCChHHHHHHHHHHHHHhCCCEEEEecc
Confidence 33444568888999998 55666667777778999999995
No 189
>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=73.52 E-value=20 Score=28.72 Aligned_cols=64 Identities=13% Similarity=0.043 Sum_probs=41.8
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
...||+++... ........++..+.+++.|+.. ...... ++.-+.--.+.++. ..+.|+|+|.+
T Consensus 132 g~~~vail~~~--~~~~~~~~~~~~~~~~~~G~~v--~~~~~~~~~~~d~~~~~~~l~-~~~pdaIi~~~ 196 (312)
T cd06333 132 GVKTVAFIGFS--DAYGESGLKELKALAPKYGIEV--VADERYGRTDTSVTAQLLKIR-AARPDAVLIWG 196 (312)
T ss_pred CCCEEEEEecC--cHHHHHHHHHHHHHHHHcCCEE--EEEEeeCCCCcCHHHHHHHHH-hCCCCEEEEec
Confidence 34699999764 3456678899999999999852 122223 56555444444443 34689999975
No 190
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=73.43 E-value=15 Score=29.02 Aligned_cols=41 Identities=15% Similarity=0.206 Sum_probs=31.7
Q ss_pred CEEEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEeccc
Q 032216 76 LRFALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVPGS 119 (145)
Q Consensus 76 lRIaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGA 119 (145)
+|+..|..-++ .--|..|++.+++.+++.|+. .++++||+-
T Consensus 1 mki~~I~gs~r~~G~t~~l~~~~~~g~~~~G~E---~~~i~v~~~ 42 (207)
T COG0655 1 MKILGINGSPRSNGNTAKLAEAVLEGAEEAGAE---VEIIRLPEK 42 (207)
T ss_pred CeeeEEEecCCCCCcHHHHHHHHHHHHHHcCCE---EEEEEecCC
Confidence 35555555555 677889999999999999984 788888864
No 191
>cd08188 Fe-ADH4 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=73.06 E-value=5.1 Score=34.68 Aligned_cols=62 Identities=13% Similarity=0.070 Sum_probs=37.1
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecc--cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPG--SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPG--AfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-.. ..+.+...+.|++.|+. +.++. |.. .+|--..+-.+++..++|.||++|
T Consensus 29 ~~~livt~~~~~~--~~~~~~v~~~L~~~~~~---~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiG 93 (377)
T cd08188 29 KKVLLVSDPGVIK--AGWVDRVIESLEEAGLE---YVVFSDVSPNPRDEEVMAGAELYLENGCDVIIAVG 93 (377)
T ss_pred CeEEEEeCcchhh--CccHHHHHHHHHHcCCe---EEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 5899998765222 12556677778877874 33332 222 233222333445677999999998
No 192
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=72.82 E-value=19 Score=28.38 Aligned_cols=59 Identities=12% Similarity=0.184 Sum_probs=38.9
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCC-CCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYS-VKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~G-v~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
|+|+...-|....+ |+.|..+.|+++| . ++.+..... +.-....++. +.++||+|.+++
T Consensus 2 ~~~~~~~~~~~~~~-~~~~i~~~l~~~g~~---~l~~~~~~~--~~~~~~~~~~-~~~vdGvIi~~~ 61 (247)
T cd06276 2 ILLLLNKLSSFKEI-IYNSFVNTLGKNAQV---DLYFHHYNE--DLFKNIISNT-KGKYSGYVVMPH 61 (247)
T ss_pred EEEEEecCchHHHH-HHHHHHHHHHhcCcE---EEEEEcCch--HHHHHHHHHH-hcCCCEEEEecC
Confidence 67788877777665 8899999999999 5 243333332 3222333333 578999998764
No 193
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=72.65 E-value=8.7 Score=33.79 Aligned_cols=62 Identities=10% Similarity=0.070 Sum_probs=36.7
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-eccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..++=.. ..+++...+.|++.|+. +.++. |.+- .|.=..+-.+++..++|.||++|
T Consensus 50 ~~~lvv~~~~~~~--~g~~~~v~~~L~~~gi~---~~~~~~v~~~P~~~~v~~~~~~~r~~~~D~IiavG 114 (395)
T PRK15454 50 KHLFVMADSFLHQ--AGMTAGLTRSLAVKGIA---MTLWPCPVGEPCITDVCAAVAQLRESGCDGVIAFG 114 (395)
T ss_pred CEEEEEcCcchhh--CccHHHHHHHHHHcCCe---EEEECCCCCCcCHHHHHHHHHHHHhcCcCEEEEeC
Confidence 4676666554221 24567778888888874 34442 3321 22222233345778999999998
No 194
>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=72.65 E-value=33 Score=27.79 Aligned_cols=63 Identities=17% Similarity=0.120 Sum_probs=44.6
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc---cchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG---SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG---AfELPlaak~La~s~~yDAVIaLG 142 (145)
-.||+++... ....+.+.+...+.+++.|+. -.....+|- .-+..-.++++.++ +.|+||..+
T Consensus 160 ~~~v~~l~~~--~~~g~~~~~~~~~~~~~~gi~--v~~~~~~~~~~~~~d~~~~l~~l~~~-~~~vvv~~~ 225 (348)
T cd06350 160 WTWVGLVYSD--DDYGRSGLSDLEEELEKNGIC--IAFVEAIPPSSTEEDIKRILKKLKSS-TARVIVVFG 225 (348)
T ss_pred CeEEEEEEec--chhHHHHHHHHHHHHHHCCCc--EEEEEEccCCCcHHHHHHHHHHHHhC-CCcEEEEEe
Confidence 4589999874 445678889999999999975 233445553 35666777777655 449998875
No 195
>PRK00002 aroB 3-dehydroquinate synthase; Reviewed
Probab=72.59 E-value=18 Score=31.14 Aligned_cols=61 Identities=20% Similarity=0.242 Sum_probs=36.3
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc-----cchHHHHHHHHhhcC---CCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG-----SFEIGVVAQQLGKSG---KYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG-----AfELPlaak~La~s~---~yDAVIaLG 142 (145)
.|+.||..+.= .+.+.+...+.|++.|+. +.++..|+ .+|-=.-+-..++.. +.|.||++|
T Consensus 32 ~~~livtd~~~---~~~~~~~v~~~L~~~gi~---~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIavG 100 (358)
T PRK00002 32 KKVAIVTDETV---APLYLEKLRASLEAAGFE---VDVVVLPDGEQYKSLETLEKIYDALLEAGLDRSDTLIALG 100 (358)
T ss_pred CeEEEEECCch---HHHHHHHHHHHHHhcCCc---eEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEEc
Confidence 58888886433 335667777888888874 44444554 233222222223333 569999998
No 196
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=72.52 E-value=13 Score=28.43 Aligned_cols=65 Identities=18% Similarity=0.190 Sum_probs=40.5
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaLG 142 (145)
...||+++...=+........+|..+.++++|+... .. +.+.+..-- .++.+.++.++|||+|..
T Consensus 115 g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~--~~--~~~~~~~~~~~~~~~~~l~~~~~~ai~~~~ 182 (264)
T cd01574 115 GHRTIAHVAGPEEWLSARARLAGWRAALEAAGIAPP--PV--LEGDWSAESGYRAGRELLREGDPTAVFAAN 182 (264)
T ss_pred CCCEEEEEecCCccchHHHHHHHHHHHHHHCCCCcc--ee--eecCCCHHHHHHHHHHHHhCCCCcEEEEcC
Confidence 356999997765544556677999999998887532 11 223333221 233444555599999864
No 197
>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=72.16 E-value=34 Score=28.11 Aligned_cols=63 Identities=11% Similarity=0.083 Sum_probs=45.9
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-GAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||+++.. +....+.+.+.+.+.++++|+. .+....+| |.-+.--.++++. ..+.|+|+..+
T Consensus 144 ~~~v~ii~~--~~~~g~~~~~~~~~~~~~~G~~--vv~~~~~~~~~~d~~~~v~~i~-~~~~d~v~~~~ 207 (362)
T cd06343 144 NAKIAVLYQ--NDDFGKDYLKGLKDGLGDAGLE--IVAETSYEVTEPDFDSQVAKLK-AAGADVVVLAT 207 (362)
T ss_pred CceEEEEEe--ccHHHHHHHHHHHHHHHHcCCe--EEEEeeecCCCccHHHHHHHHH-hcCCCEEEEEc
Confidence 469999986 4566778899999999999985 23334444 6666766677765 46789998765
No 198
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=72.06 E-value=4.7 Score=34.79 Aligned_cols=62 Identities=21% Similarity=0.195 Sum_probs=37.4
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-Eeccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.=.. ..+++...+.|++.|+. +.++ .|.+- +|.-.-+-.+++..++|.||++|
T Consensus 27 ~~~lvvt~~~~~~--~g~~~~v~~~L~~~g~~---~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiG 91 (374)
T cd08189 27 KKVLIVTDKGLVK--LGLLDKVLEALEGAGIE---YAVYDGVPPDPTIENVEAGLALYRENGCDAILAVG 91 (374)
T ss_pred CeEEEEeCcchhh--cccHHHHHHHHHhcCCe---EEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 5899888764222 13556677888888873 3333 23222 23223333445667999999998
No 199
>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=72.03 E-value=18 Score=28.14 Aligned_cols=65 Identities=15% Similarity=0.036 Sum_probs=39.5
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH-HHHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI-GVVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL-Plaak~La~-s~~yDAVIaLG 142 (145)
..||+++...-+ .....-.+|..+.|+++|+. .+.....+..++- .-.++.+++ ..++|||+|.+
T Consensus 127 ~~~i~~~~g~~~-~~~~~R~~gf~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 193 (274)
T cd06311 127 NGNIVVLRGIPT-PIDNERVDAFDAAIAKYPIK--ILDRQYANWNRDDAFSVMQDLLTKFPKIDAVWAHD 193 (274)
T ss_pred CCeEEEEECCCC-cchhHHHHHHHHHHhhCCcE--EEeccCCCCcHHHHHHHHHHHHHhCCCcCEEEECC
Confidence 459999976555 44455679999999999853 1222222223332 233445554 35699999865
No 200
>TIGR01755 flav_wrbA NAD(P)H:quinone oxidoreductase, type IV. This model represents a protein, WrbA, related to and slightly larger than flavodoxin. It was just shown, in E. coli and Archaeoglobus fulgidus (and previously for some eukaryotic homologs) to act as fourth type of NAD(P)H:quinone oxidoreductase. In E. coli, this protein was earlier reported to be produced during stationary phase, bind to the trp repressor, and make trp operon repression more efficient. WrbA does not interact with the trp operator by itself. Members are found in species in which homologs of the E. coli trp operon repressor TrpR are not detected.
Probab=71.76 E-value=23 Score=28.04 Aligned_cols=41 Identities=10% Similarity=0.149 Sum_probs=31.1
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHC-CCCCCCeEEEEecccc
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKY-SVKEENIDVVWVPGSF 120 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~-Gv~~e~I~vv~VPGAf 120 (145)
.||+||....+. -|+.|.+...+.+++. |+ .+++++||...
T Consensus 1 ~kilIiY~S~~G-~T~~lA~~ia~g~~~~~g~---ev~~~~v~~~~ 42 (197)
T TIGR01755 1 VKVLVLYYSMYG-HIETMARAVAEGAREVDGA---EVVVKRVPETV 42 (197)
T ss_pred CeEEEEEeCCCC-HHHHHHHHHHHHHHhcCCC---EEEEEeccccC
Confidence 478999988764 4677888888888775 76 37888898753
No 201
>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=71.65 E-value=24 Score=28.29 Aligned_cols=63 Identities=19% Similarity=0.170 Sum_probs=46.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||+++.. |....+.+.++..+.|++.|+.. .....+ +++-+..-.++++.+ .+.|+|+..+
T Consensus 134 ~~~v~~l~~--~~~~g~~~~~~~~~~~~~~G~~v--~~~~~~~~~~~d~~~~v~~~~~-~~pd~v~~~~ 197 (336)
T cd06360 134 YKKVVTVAW--DYAFGYEVVEGFKEAFTEAGGKI--VKELWVPFGTSDFASYLAQIPD-DVPDAVFVFF 197 (336)
T ss_pred CCeEEEEec--cchhhHHHHHHHHHHHHHcCCEE--EEEEecCCCCcchHHHHHHHHh-cCCCEEEEec
Confidence 468999975 44467778899999999999852 233333 477888888888765 4689988654
No 202
>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=71.64 E-value=26 Score=29.05 Aligned_cols=63 Identities=14% Similarity=0.197 Sum_probs=45.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-GAfELPlaak~La~s~~yDAVIaLG 142 (145)
..|++|+.. |....+.+.+.+.+.|++.|++ -+...++| |.-+.--.++++.+. +.|+|+..+
T Consensus 133 ~k~vaii~~--d~~~g~~~~~~~~~~~~~~G~~--vv~~~~~~~~~~D~~~~v~~l~~~-~pd~v~~~~ 196 (348)
T cd06355 133 GKRFYLVGS--DYVYPRTANKILKAQLESLGGE--VVGEEYLPLGHTDFQSIINKIKAA-KPDVVVSTV 196 (348)
T ss_pred CCeEEEECC--cchHHHHHHHHHHHHHHHcCCe--EEeeEEecCChhhHHHHHHHHHHh-CCCEEEEec
Confidence 469999866 3456677888899999999975 33344555 888887777777644 679988754
No 203
>PRK09492 treR trehalose repressor; Provisional
Probab=71.63 E-value=18 Score=28.90 Aligned_cols=65 Identities=12% Similarity=0.041 Sum_probs=39.1
Q ss_pred CCCEEEEEEee-ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH-HHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVAR-FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV-VAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvAr-fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl-aak~La~s~~yDAVIaLG 142 (145)
...||+++... .+......-.+|..+.|+++|+... ....+..+|-.+ +++++++ .++|||+|..
T Consensus 174 G~~~I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~~~~---~~~~~~~~~~~~~~~~~~l~-~~~~ai~~~~ 240 (315)
T PRK09492 174 GHRHISYLGVDHSDVTTGKRRHQAYLAFCKQHKLTPV---AALGGLSMQSGYELVAKVLT-PETTALVCAT 240 (315)
T ss_pred CCCeEEEEcCCcccchhHHHHHHHHHHHHHHcCCCce---eecCCCCchHHHHHHHHHhh-cCCCEEEEcC
Confidence 34599999642 2333334566999999999998532 222222333322 3445554 4799999953
No 204
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=71.60 E-value=8.1 Score=33.25 Aligned_cols=61 Identities=21% Similarity=0.223 Sum_probs=40.9
Q ss_pred cccCCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 68 GFLTKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 68 g~l~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
.++.+-+|+|||+....+... |+..+ |++.|+++++++++..+- +-+ .....+++.||.+.
T Consensus 99 ~svaDLKGKkIav~~gs~~~~----ll~~a---L~~aGL~~~DV~~v~~~~----~d~-~aAl~~G~VDAa~~ 159 (328)
T TIGR03427 99 KSLADLKGQKVNLVELSVSHY----LLARA---LESVGLSEKDVKVVNTSD----ADI-VAAFITKDVTAVVT 159 (328)
T ss_pred CCHHHcCCCEEeccCCChHHH----HHHHH---HHHcCCCHHHeEEEeCCh----HHH-HHHHhcCCCcEEEE
Confidence 444467889999866555443 44443 778899988899887763 222 23346789999875
No 205
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=71.54 E-value=18 Score=30.72 Aligned_cols=63 Identities=17% Similarity=0.262 Sum_probs=46.4
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
.|++||...+ ..-+.|.+...+.|++.|++ ........|+....--.+.++. ..+.|+|+..|
T Consensus 149 k~v~ii~~~~--~yg~~~~~~~~~~l~~~G~~-~~~~~~~~~~~~~~~~~v~~i~-~~~~d~v~~~~ 211 (366)
T COG0683 149 KRVAIIGDDY--AYGEGLADAFKAALKALGGE-VVVEEVYAPGDTDFSALVAKIK-AAGPDAVLVGG 211 (366)
T ss_pred cEEEEEeCCC--CcchhHHHHHHHHHHhCCCe-EEEEEeeCCCCCChHHHHHHHH-hcCCCEEEECC
Confidence 5899988643 34457889999999999997 5556788999998655555553 45788776654
No 206
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=71.42 E-value=17 Score=28.61 Aligned_cols=68 Identities=21% Similarity=0.292 Sum_probs=41.5
Q ss_pred CCCEEEEEEeee-----------------cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhc-
Q 032216 74 EGLRFALVVARF-----------------NELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKS- 132 (145)
Q Consensus 74 ~~lRIaIVvArf-----------------N~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s- 132 (145)
...||+++..+- +....+.-.+|..+.++++|+..+...++.+ +.+...- .+++++++
T Consensus 115 g~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~ 193 (283)
T cd06279 115 GHRRIGILGLRLGRDRNTGRVTDERLASATFSVARERLEGYLEALEEAGIDISDVPIWEI-PENDRASGEEAARELLDAS 193 (283)
T ss_pred CCCcEEEecCcccccccccccccccccccccccHHHHHHHHHHHHHHcCCCCChheEEec-CCCchHHHHHHHHHHHcCC
Confidence 345899997642 2234456779999999999975333333322 3343332 33455544
Q ss_pred CCCcEEEEee
Q 032216 133 GKYTAVLCIG 142 (145)
Q Consensus 133 ~~yDAVIaLG 142 (145)
.++|||+|-+
T Consensus 194 ~~~~ai~~~~ 203 (283)
T cd06279 194 PRPTAILCMS 203 (283)
T ss_pred CCCcEEEECC
Confidence 4699999854
No 207
>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=71.28 E-value=18 Score=28.55 Aligned_cols=64 Identities=16% Similarity=0.242 Sum_probs=40.2
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-EecccchHHHH---HHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGSFEIGVV---AQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGAfELPla---ak~La~-s~~yDAVIaLG 142 (145)
..||+++...-+......=.+|..+.++++| . +.+. ..++.++.--+ ++++++ ..++|||+|..
T Consensus 123 ~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~-~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~n 191 (272)
T cd06313 123 KGKIAMLQGALGHTGAQGRAQGFNDVIKKYP-D---IEVVDEQPANWDVSKAARIWETWLTKYPQLDGAFCHN 191 (272)
T ss_pred CceEEEEECCCCCcchhHHHHHHHHHHHhCC-C---CEEEeccCCCCCHHHHHHHHHHHHHhCCCCCEEEECC
Confidence 3599999876554444445699999999987 1 2222 24566664432 333443 45699999863
No 208
>cd08173 Gro1PDH Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH, EC 1.1.1.261) plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids. It catalyzes the reversible conversion between dihydroxyacetone phosphate and glycerol-1-phosphate using either NADH or NADPH as a coenzyme. The activity is zinc-dependent. One characteristic feature of archaea is that their cellular membrane has an ether linkage between the glycerol backbone and the hydrocarbon residues. The polar lipids of the members of Archaea consist of di- and tetraethers of glycerol with isoprenoid alcohols bound at the sn-2 and sn-3 positions of the glycerol moiety. The archaeal polar lipids have the enantiomeric configuration of a glycerophosph
Probab=71.16 E-value=26 Score=29.74 Aligned_cols=60 Identities=15% Similarity=0.134 Sum_probs=36.9
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-GAfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..++=. +.+.+...+.|+++| . +.++..| +.+|.=..+-..++..+.|.||++|
T Consensus 26 ~~~liv~d~~~~---~~~~~~v~~~l~~~~-~---~~~~~~~~~~~~~v~~~~~~~~~~~~d~iIaiG 86 (339)
T cd08173 26 GRVLVVTGPTTK---SIAGKKVEALLEDEG-E---VDVVIVEDATYEEVEKVESSARDIGADFVIGVG 86 (339)
T ss_pred CeEEEEECCchH---HHHHHHHHHHHHhcC-C---eEEEEeCCCCHHHHHHHHHHhhhcCCCEEEEeC
Confidence 588888866533 356677777888888 3 2222223 3444333333344566899999998
No 209
>PRK11914 diacylglycerol kinase; Reviewed
Probab=71.11 E-value=30 Score=28.74 Aligned_cols=67 Identities=9% Similarity=0.085 Sum_probs=39.9
Q ss_pred CCCCCEEEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 72 KNEGLRFALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 72 ~~~~lRIaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..+-+|+.||+-.-- ..-..+..+..++.|+++|.. ++++..-..-+....+++++ ..++|.||+.|
T Consensus 5 ~~~~~~~~iI~NP~sG~g~~~~~~~~~~~~l~~~g~~---~~~~~t~~~~~~~~~a~~~~-~~~~d~vvv~G 72 (306)
T PRK11914 5 RHEIGKVTVLTNPLSGHGAAPHAAERAIARLHHRGVD---VVEIVGTDAHDARHLVAAAL-AKGTDALVVVG 72 (306)
T ss_pred cCCCceEEEEECCCCCCCcHHHHHHHHHHHHHHcCCe---EEEEEeCCHHHHHHHHHHHH-hcCCCEEEEEC
Confidence 345568888763221 011224455566788888863 44444444446777777665 35789999987
No 210
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=70.16 E-value=8.1 Score=33.13 Aligned_cols=59 Identities=22% Similarity=0.165 Sum_probs=34.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-Eeccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-. ..++..+.|++.|+. +.++ .+.+. +|-=--+-.+++..++|.||++|
T Consensus 24 ~~~livtd~~~~-----~~~~~~~~l~~~~~~---~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavG 85 (367)
T cd08182 24 KRVLLVTGPRSA-----IASGLTDILKPLGTL---VVVFDDVQPNPDLEDLAAGIRLLREFGPDAVLAVG 85 (367)
T ss_pred CeEEEEeCchHH-----HHHHHHHHHHHcCCe---EEEEcCcCCCcCHHHHHHHHHHHHhcCcCEEEEeC
Confidence 588888766443 334456667777753 2333 23333 33323333455667899999998
No 211
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=69.22 E-value=30 Score=28.70 Aligned_cols=66 Identities=8% Similarity=0.086 Sum_probs=39.7
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhc---CCCcEEEEeee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKS---GKYTAVLCIGA 143 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s---~~yDAVIaLG~ 143 (145)
.+|+++.+.-+....+.-.+|..+.|+++|+.... .....|.++... +++.++++ .++|||+|-+.
T Consensus 163 ~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~~~~--~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~~~~d 234 (330)
T PRK15395 163 IQYVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQ--LQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVIANND 234 (330)
T ss_pred eEEEEEecCCCCchHHHHHHHHHHHHHhcCCCeee--eecccCCcCHHHHHHHHHHHHhhCcCCCeeEEEECCc
Confidence 45666766544344444568999999999985221 122346665443 33455544 36899999753
No 212
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=68.89 E-value=6.1 Score=34.12 Aligned_cols=63 Identities=19% Similarity=0.199 Sum_probs=38.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-Eeccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
..|+.||..+.=.. ...++...+.|++.|+. +.++ .+++- +|.-.-+-..++..++|.||++|
T Consensus 23 ~~r~livt~~~~~~--~g~~~~v~~~L~~~gi~---~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 88 (375)
T cd08194 23 GKRPLIVTDKVMVK--LGLVDKLTDSLKKEGIE---SAIFDDVVSEPTDESVEEGVKLAKEGGCDVIIALG 88 (375)
T ss_pred CCeEEEEcCcchhh--cchHHHHHHHHHHCCCe---EEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 35898888653221 12566777888888874 3333 23333 33333334455678999999998
No 213
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=68.71 E-value=15 Score=29.85 Aligned_cols=57 Identities=12% Similarity=0.184 Sum_probs=35.0
Q ss_pred CCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 72 KNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 72 ~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+.+|+|||+-... ..+.++. ..|+++|+.+++++++.++ -|-++.. +.+|+.||++.
T Consensus 97 DLkGK~Igv~~~s----~~~~~l~---~~L~~~Gl~~~dv~~v~~~----~~~~~~a-l~~G~vDa~~~ 153 (300)
T TIGR01729 97 DLKGKNVAVPFVS----TTHYSLL---AALKHWKTDPREVNILNLK----PPQIVAA-WQRGDIDAAYV 153 (300)
T ss_pred HcCCCEEEeCCCC----cHHHHHH---HHHHHcCCChhheEEEecC----cHHHHHH-HHcCCcCEEEE
Confidence 5678899884322 2233433 3467789988888777664 2233333 35789998865
No 214
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=68.64 E-value=20 Score=27.84 Aligned_cols=67 Identities=12% Similarity=-0.136 Sum_probs=39.2
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeE--EEEecccchHHH-HHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENID--VVWVPGSFEIGV-VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~--vv~VPGAfELPl-aak~La~s-~~yDAVIaLG 142 (145)
..||+++...-. .....-.+|..+.++++|+..+.+. ....+..++-.. ++++++++ .++|||+|.+
T Consensus 109 ~~~i~~i~~~~~-~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 179 (265)
T cd01543 109 FRHFAFYGLPGA-RWSDEREEAFRQLVAEAGYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFACT 179 (265)
T ss_pred CcEEEEEcCCCC-HHHHHHHHHHHHHHHHcCCccccccCccccccccHHHHHHHHHHHHhcCCCCcEEEecC
Confidence 458998854333 3334456899999999998631111 112233333332 34555544 5799999975
No 215
>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=68.44 E-value=37 Score=26.33 Aligned_cols=65 Identities=23% Similarity=0.207 Sum_probs=42.7
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHH---HHHHHHhhc-C-CCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIG---VVAQQLGKS-G-KYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELP---laak~La~s-~-~yDAVIaLG 142 (145)
...||+++.++.+....+.-.+|..+.|++++- +.+.. +-|.++.- -+++.++++ . ++|||+|.+
T Consensus 123 g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~----~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~aI~~~~ 193 (273)
T cd06309 123 GKGNIVELQGTVGSSVAIDRKKGFAEVIKKYPN----MKIVASQTGDFTRAKGKEVMEALLKAHGDDIDAVYAHN 193 (273)
T ss_pred CCceEEEEeCCCCCchHHHHHHHHHHHHHHCCC----CEEeeccCCcccHHHHHHHHHHHHHhCCCCccEEEECC
Confidence 346999999988866667778999999998741 22222 23444432 234555544 3 699999864
No 216
>PRK13195 pyrrolidone-carboxylate peptidase; Provisional
Probab=68.37 E-value=10 Score=31.61 Aligned_cols=43 Identities=19% Similarity=0.138 Sum_probs=29.5
Q ss_pred HHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEeee
Q 032216 101 FKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 101 L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG~ 143 (145)
|....+..-.+....+|-+|+ ..-++..+.+..++|+||++|.
T Consensus 27 L~~~~~~~~~v~~~~lPv~f~~~~~~l~~~i~~~~Pd~Vi~~G~ 70 (222)
T PRK13195 27 LDGRTIAGATVISRIVPNTFFESIAAAQQAIAEIEPALVIMLGE 70 (222)
T ss_pred ccccccCCeEEEEEEeCeEehHHHHHHHHHHHHHCCCEEEEeCc
Confidence 333333333567777999995 4456666667778999999995
No 217
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=68.36 E-value=28 Score=28.34 Aligned_cols=46 Identities=17% Similarity=0.130 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHCCCCCCCeEEEEec-ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 93 LLEGALETFKKYSVKEENIDVVWVP-GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 93 LleGA~~~L~~~Gv~~e~I~vv~VP-GAfELPlaak~La~s~~yDAVIaLG 142 (145)
..+|.++.-++.|++ +.++.-+ -.=+..-+++.++++ +||.||+.|
T Consensus 19 ~~~G~~~~~~~~gv~---~~~~e~~~~~~~~~~~i~~~~~~-g~dlIi~~g 65 (258)
T cd06353 19 HDEGRKAAEKALGVE---VTYVENVPEGADAERVLRELAAQ-GYDLIFGTS 65 (258)
T ss_pred HHHHHHHHHHhcCCe---EEEEecCCchHhHHHHHHHHHHc-CCCEEEECc
Confidence 456666666666773 3343333 223455666777654 699999866
No 218
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=68.34 E-value=6.1 Score=34.47 Aligned_cols=62 Identities=11% Similarity=0.050 Sum_probs=39.7
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecc--cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPG--SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPG--AfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-.. ..+++...+.|++.|+. +.++. |.. .+|-=..+-.+++..++|.||++|
T Consensus 32 ~~~livt~~~~~~--~g~~~~v~~~L~~~~i~---~~~f~~v~~np~~~~v~~~~~~~~~~~~D~IiaiG 96 (383)
T PRK09860 32 TRTLIVTDNMLTK--LGMAGDVQKALEERNIF---SVIYDGTQPNPTTENVAAGLKLLKENNCDSVISLG 96 (383)
T ss_pred CEEEEEcCcchhh--CccHHHHHHHHHHcCCe---EEEeCCCCCCcCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 5888887763322 24667778888888874 33332 211 344444455566778999999998
No 219
>TIGR02638 lactal_redase lactaldehyde reductase. This clade of genes encoding iron-containing alcohol dehydrogenase (pfam00465) proteins is generally found in apparent operons for the catabolism of rhamnose or fucose. Catabolism of both of these monosaccharides results in lactaldehyde which is reduced by this enzyme to 1,2 propanediol. This protein is alternatively known by the name 1,2 propanediol oxidoreductase. This enzyme is active under anaerobic conditions in E. coli while being inactivated by reactive oxygen species under aerobic conditions. Under aerobic conditions the lactaldehyde product of rhamnose and fucose catabolism is believed to be oxidized to lactate by a separate enzyme, lactaldehyde dehydrogenase.
Probab=68.18 E-value=6.7 Score=33.97 Aligned_cols=59 Identities=8% Similarity=0.123 Sum_probs=37.2
Q ss_pred CEEEEEEeeecHHHHHH-HHHHHHHHHHHCCCCCCCeEEEEeccc-----chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKL-LLEGALETFKKYSVKEENIDVVWVPGS-----FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~-LleGA~~~L~~~Gv~~e~I~vv~VPGA-----fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+. +.+. +.+...+.|++.|+. +.++ .|. +|.-.-+-.+++..++|+||++|
T Consensus 30 ~r~lvvt~~~---~~~~g~~~~v~~~L~~~~i~---~~~~--~~v~~~p~~~~v~~~~~~~~~~~~D~IiaiG 94 (379)
T TIGR02638 30 KKALVVTDKD---LIKFGVADKVTDLLDEAGIA---YELF--DEVKPNPTITVVKAGVAAFKASGADYLIAIG 94 (379)
T ss_pred CEEEEEcCcc---hhhccchHHHHHHHHHCCCe---EEEE--CCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 5888888764 2222 566677788888863 3333 333 33333334455677999999998
No 220
>PRK09423 gldA glycerol dehydrogenase; Provisional
Probab=68.13 E-value=34 Score=29.46 Aligned_cols=61 Identities=11% Similarity=0.170 Sum_probs=39.7
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHH--HhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQ--LGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~--La~s~~yDAVIaLG 142 (145)
.|+.||..+.= .+...+...+.|+++|+. +....++|-=....+-+. +++..++|.||++|
T Consensus 30 ~~~livtd~~~---~~~~~~~v~~~l~~~~~~---~~~~~~~~ep~~~~v~~~~~~~~~~~~d~IIavG 92 (366)
T PRK09423 30 KRALVIADEFV---LGIVGDRVEASLKEAGLT---VVFEVFNGECSDNEIDRLVAIAEENGCDVVIGIG 92 (366)
T ss_pred CEEEEEEChhH---HHHHHHHHHHHHHhCCCe---EEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEec
Confidence 58888886542 234667777788888874 334467765555533322 34566899999998
No 221
>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=68.06 E-value=31 Score=26.16 Aligned_cols=63 Identities=17% Similarity=0.189 Sum_probs=42.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-GAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||++|..... ..+.+.++..+.++++|.. .......| +.-+..-.++++.+ .+.|+|++.+
T Consensus 135 ~~~i~~v~~~~~--~~~~~~~~~~~~~~~~g~~--i~~~~~~~~~~~~~~~~~~~l~~-~~~~~vi~~~ 198 (298)
T cd06268 135 VKKVAIIYDDYA--YGRGLAAAFREALKKLGGE--VVAEETYPPGATDFSPLIAKLKA-AGPDAVFLAG 198 (298)
T ss_pred CCEEEEEEcCCc--hhHHHHHHHHHHHHHcCCE--EEEEeccCCCCccHHHHHHHHHh-cCCCEEEEcc
Confidence 469999987654 5567889999999999963 12222333 44456666677654 4678998875
No 222
>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=68.00 E-value=25 Score=31.02 Aligned_cols=66 Identities=9% Similarity=-0.063 Sum_probs=44.4
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeE-EEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENID-VVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~-vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
-.+|++|.. +++..+.+.+...+.+++.|+.-...+ +-..|+.-++--.+++|.+..+.|+||..|
T Consensus 174 W~~Vaii~~--~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~l~~~~~a~vVvl~~ 240 (458)
T cd06375 174 WTYVSTVAS--EGDYGETGIEAFEQEARLRNICIATSEKVGRSADRKSYDSVIRKLLQKPNARVVVLFT 240 (458)
T ss_pred CeEEEEEEe--CchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCCHHHHHHHHHHHhccCCCEEEEEec
Confidence 358999975 455566778888888999997411111 112446667777788876666889988765
No 223
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=67.97 E-value=13 Score=30.85 Aligned_cols=58 Identities=14% Similarity=0.218 Sum_probs=35.7
Q ss_pred CCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 71 TKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 71 ~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
.+-+|+|||+...... +.++. ..|++.|++.++++.+.++. +-+++.| .+|+.||++.
T Consensus 118 ~DLkGK~Iav~~~s~~----~~~l~---~~L~~~Gl~~~dv~~v~~~~----~~~~~Al-~~G~VDAa~~ 175 (320)
T PRK11480 118 EDLIGKRIAVPFISTT----HYSLL---AALKHWGIKPGQVEIVNLQP----PAIIAAW-QRGDIDGAYV 175 (320)
T ss_pred HHcCCCEEecCCCCch----HHHHH---HHHHHcCCCHhheEEEECCc----HHHHHHH-HcCCcCEEEE
Confidence 3567889998533322 22333 44778899988887766552 2333333 4788998764
No 224
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=67.96 E-value=40 Score=26.18 Aligned_cols=68 Identities=15% Similarity=0.138 Sum_probs=40.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCC---CeEEEE-ecccchHH---HHHHHHh-hcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEE---NIDVVW-VPGSFEIG---VVAQQLG-KSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e---~I~vv~-VPGAfELP---laak~La-~s~~yDAVIaLG 142 (145)
+.||+++.+.=+......-.+|..+.|+++|+... ...++. ..+.++.. -.++.++ +..++|||+|.+
T Consensus 123 ~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 198 (282)
T cd06318 123 PMKIILLSGDAGNLVGQARRDGFLLGVSEAQLRKYGKTNFTIVAQGYGDWTREGGLKAMEDLLVAHPDINVVYSEN 198 (282)
T ss_pred CceEEEEECCCCCchHhHHHHhHHHHHhhCcccccccCCeEEEecCCCCCCHHHHHHHHHHHHHhCCCcCEEEECC
Confidence 35899987654444445567999999999986421 233332 12333321 2334444 445799999964
No 225
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=67.81 E-value=5.6 Score=34.35 Aligned_cols=62 Identities=11% Similarity=0.011 Sum_probs=37.2
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-EecccchHH--HHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGSFEIG--VVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGAfELP--laak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-.. ....+...+.|++.|+. +.++ .|++-=.+. --+-.+++..++|+||++|
T Consensus 29 ~~~lvv~~~~~~~--~~~~~~v~~~L~~~~~~---~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavG 93 (377)
T cd08176 29 KKALIVTDKGLVK--IGVVEKVTDVLDEAGID---YVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIG 93 (377)
T ss_pred CeEEEECCchHhh--cCcHHHHHHHHHHcCCe---EEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 4888887653222 14667778888888874 3333 233322222 2233345667999999998
No 226
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=67.60 E-value=14 Score=31.98 Aligned_cols=63 Identities=16% Similarity=0.137 Sum_probs=38.7
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-Eeccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-.. ...+.+...+.|++.|+. +.++ .|++- +|-=.-+-.+++..++|.||++|
T Consensus 26 ~r~livt~~~~~~-~~g~~~~v~~~L~~~~~~---~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IiavG 91 (380)
T cd08185 26 KKALIVTGNGSSK-KTGYLDRVIELLKQAGVE---VVVFDKVEPNPTTTTVMEGAALAREEGCDFVVGLG 91 (380)
T ss_pred CeEEEEeCCCchh-hccHHHHHHHHHHHcCCe---EEEeCCccCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 6999999765311 135667777888888874 3333 23332 23222233345677999999998
No 227
>cd08174 G1PDH-like Glycerol-1-phosphate dehydrogenase-like. Glycerol-1-phosphate dehydrogenase-like. The proteins of this family have not been characterized. The protein sequences have high similarity with that of glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires Ni++ ion. This family is bacteria specific.
Probab=67.59 E-value=25 Score=29.72 Aligned_cols=58 Identities=19% Similarity=0.006 Sum_probs=32.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH-HHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV-AQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla-ak~La~s~~yDAVIaLG 142 (145)
+.|+.||....= .+...+.|++.++ ..+..+..|+ .+---- .+.+.+.++.|.||++|
T Consensus 25 ~~r~livtd~~~-------~~~~~~~L~~~~~--~~~~~~~~~~-~~~~~~i~~~~~~~~~~d~iIaiG 83 (331)
T cd08174 25 FGRVAVVSGPGV-------GEQVAESLKTSFS--AEVEAVEEVS-NSDAEEIGARARSIPNVDAVVGIG 83 (331)
T ss_pred CCceEEEECCcH-------HHHHHHHHHhccC--ceEEEecCCC-ccCHHHHHHHHHhccCCCEEEEeC
Confidence 358888886542 4556666766665 1233332222 222232 33333333799999998
No 228
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=67.43 E-value=22 Score=28.47 Aligned_cols=58 Identities=7% Similarity=0.153 Sum_probs=45.0
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh---cCCCcEEEEee
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK---SGKYTAVLCIG 142 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~---s~~yDAVIaLG 142 (145)
|+||.+.-.+. .-.+.|.+.|++.|++ ..++|-++.-.|--+.++++ ..+++.+||.+
T Consensus 1 V~IimGS~SD~---~~~~~a~~~L~~~gi~----~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~A 61 (156)
T TIGR01162 1 VGIIMGSDSDL---PTMKKAADILEEFGIP----YELRVVSAHRTPELMLEYAKEAEERGIKVIIAGA 61 (156)
T ss_pred CEEEECcHhhH---HHHHHHHHHHHHcCCC----eEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeC
Confidence 45666666655 5668999999999997 55789999999988888764 34689988864
No 229
>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=67.35 E-value=30 Score=27.76 Aligned_cols=63 Identities=17% Similarity=0.212 Sum_probs=42.4
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-GAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||+++... ....+...++..+.++++|+. .+....+| +.-+.--.++++.+. +.|+|++.+
T Consensus 136 ~~~v~~l~~~--~~~~~~~~~~~~~~~~~~G~~--~~~~~~~~~~~~d~~~~~~~l~~~-~~dav~~~~ 199 (336)
T cd06326 136 LKRIAVFYQD--DAFGKDGLAGVEKALAARGLK--PVATASYERNTADVAAAVAQLAAA-RPQAVIMVG 199 (336)
T ss_pred CceEEEEEec--CcchHHHHHHHHHHHHHcCCC--eEEEEeecCCcccHHHHHHHHHhc-CCCEEEEEc
Confidence 4699999654 345567889999999999985 23333344 434554556666554 579999875
No 230
>cd08175 G1PDH Glycerol-1-phosphate dehydrogenase (G1PDH) catalyzes the reversible reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in an NADH-dependent manner. Glycerol-1-phosphate dehydrogenase (G1PDH) plays a role in the synthesis of phosphoglycerolipids in Gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires a Ni++ ion. In Bacillus subtilis, it has been described as AraM gene in L-arabinose (ara) operon. AraM protein forms homodimer. This family is bacteria specific.
Probab=67.22 E-value=13 Score=31.55 Aligned_cols=60 Identities=8% Similarity=-0.013 Sum_probs=34.1
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-eccc----chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGS----FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGA----fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-. +...+...+.|++.|+. +.++. ++|- +|.=..+-..++. ++|.||++|
T Consensus 24 ~~~livtd~~~~---~~~~~~v~~~l~~~~i~---~~~~~~~~~~~~pt~~~v~~~~~~~~~-~~d~IIaIG 88 (348)
T cd08175 24 KKALIVADENTY---AAAGKKVEALLKRAGVV---VLLIVLPAGDLIADEKAVGRVLKELER-DTDLIIAVG 88 (348)
T ss_pred CcEEEEECCcHH---HHHHHHHHHHHHHCCCe---eEEeecCCCcccCCHHHHHHHHHHhhc-cCCEEEEEC
Confidence 578888765332 22346667778888874 23333 4342 2222222223334 899999998
No 231
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=67.01 E-value=27 Score=27.19 Aligned_cols=76 Identities=12% Similarity=0.059 Sum_probs=43.2
Q ss_pred hhhhhhccccCCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhh-cCCCc
Q 032216 61 EAVRHLTGFLTKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGK-SGKYT 136 (145)
Q Consensus 61 ~a~~~~~g~l~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~-s~~yD 136 (145)
.|.+++...+. .+.|++++.+.-.......-++|+.+.++++|+.. ... .-|.+... -+++.+++ ..++|
T Consensus 108 ~a~~~l~~~~~--~g~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~---~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ 181 (271)
T cd06314 108 TAGEIMKKALP--GGGKVAIFVGSLGADNAKERIQGIKDAIKDSKIEI---VDT-RGDEEDFAKAKSNAEDALNAHPDLK 181 (271)
T ss_pred HHHHHHHHHcC--CCCEEEEEecCCCCCCHHHHHHHHHHHHhcCCcEE---EEE-ecCccCHHHHHHHHHHHHHhCCCcc
Confidence 44455433331 24477676665333345567799999999998742 211 23444322 34455554 45689
Q ss_pred EEEEee
Q 032216 137 AVLCIG 142 (145)
Q Consensus 137 AVIaLG 142 (145)
+|+|..
T Consensus 182 ~i~~~~ 187 (271)
T cd06314 182 CMFGLY 187 (271)
T ss_pred EEEecC
Confidence 999864
No 232
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=66.49 E-value=45 Score=26.89 Aligned_cols=64 Identities=9% Similarity=0.007 Sum_probs=38.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhc-CCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s-~~yDAVIaLG 142 (145)
.+|+++...-.....+.-.+|+++.++++|. .+ +.. .+++.++.-- +++.++++ .++|||+|-+
T Consensus 143 ~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~g~-~~-~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 210 (305)
T cd06324 143 IDLLAISGDPTTPAAILREAGLRRALAEHPD-VR-LRQ-VVYAGWSEDEAYEQAENLLKRYPDVRLIWAAN 210 (305)
T ss_pred eeEEEEeCCCCChHHHHHHHHHHHHHHHCCC-ce-Eee-eecCCCCHHHHHHHHHHHHHHCCCccEEEECC
Confidence 3688887655444555667999999999982 11 211 2345554322 33445443 5799999854
No 233
>PF02776 TPP_enzyme_N: Thiamine pyrophosphate enzyme, N-terminal TPP binding domain; InterPro: IPR012001 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 represents the N-terminal TPP binding domain of TPP enzymes.; GO: 0030976 thiamine pyrophosphate binding; PDB: 3HWX_1 3FLM_B 3HWW_A 2JLC_A 2JLA_A 2VBG_A 2VBF_B 2Q29_A 2Q27_B 2Q28_B ....
Probab=66.39 E-value=21 Score=27.14 Aligned_cols=40 Identities=30% Similarity=0.290 Sum_probs=26.4
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVL 139 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVI 139 (145)
+.-.+.|+++|++ .++-|||....| ....|.+.++..-|.
T Consensus 5 ~~l~~~L~~~Gv~----~vfgvpG~~~~~-l~~al~~~~~i~~i~ 44 (172)
T PF02776_consen 5 EALAEALKANGVT----HVFGVPGSGNLP-LLDALEKSPGIRFIP 44 (172)
T ss_dssp HHHHHHHHHTT-S----EEEEE--GGGHH-HHHHHHHTTTSEEEE
T ss_pred HHHHHHHHHCCCe----EEEEEeChhHhH-HHHHhhhhcceeeec
Confidence 4456889999996 799999999999 446665554455443
No 234
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=66.19 E-value=37 Score=26.20 Aligned_cols=66 Identities=11% Similarity=-0.042 Sum_probs=37.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhc--CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKS--GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s--~~yDAVIaLG 142 (145)
..||+++...=.......-.+|+.+.++++|+......++ .+.-.---.++.+++. .++|||+|.+
T Consensus 118 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~ai~~~~ 185 (268)
T cd06277 118 HRKIGFVGDPLYSPSFEERYEGYKKALLDHGIPFNEDYDI--TEKEEDEEDIGKFIDELKPLPTAFFCSN 185 (268)
T ss_pred CCcEEEECCCCCCcchHHHHHHHHHHHHHcCCCCCcceEE--EcchhHHHHHHHHHhcCCCCCCEEEECC
Confidence 4589999765332223345589999999999864322222 2211111233444433 3589999875
No 235
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=66.00 E-value=37 Score=27.06 Aligned_cols=63 Identities=14% Similarity=0.058 Sum_probs=39.9
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhh-cCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~-s~~yDAVIaLG 142 (145)
.|++++.+..+....+.-.+|..+.++++|+. +.. ..++.+..- -+++++++ ..++|||+|-+
T Consensus 149 ~~i~~~~~~~~~~~~~~R~~gf~~al~~~g~~---~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 215 (295)
T PRK10653 149 AKVIQLEGIAGTSAARERGEGFKQAVAAHKFN---VLA-SQPADFDRTKGLNVMQNLLTAHPDVQAVFAQN 215 (295)
T ss_pred ceEEEEEccCCCccHHHHHHHHHHHHhhCCCE---EEE-ecCCCCCHHHHHHHHHHHHHhCCCcCEEEECC
Confidence 47888877766555667789999999999874 211 223444321 22334443 45689999864
No 236
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=65.93 E-value=35 Score=26.01 Aligned_cols=67 Identities=21% Similarity=0.183 Sum_probs=38.5
Q ss_pred CCCEEEEEEeeecH-HHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH-HHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNE-LVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV-AQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~-~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla-ak~La~s~~yDAVIaLG 142 (145)
...||+++...-.. .-...-.+|..+.++++|.. ...++..+..+|-..- ++.++++.++|||+|.+
T Consensus 113 g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~~~ 181 (259)
T cd01542 113 GHKNIAYLGVSESDIAVGILRKQGYLDALKEHGIC--PPNIVETDFSYESAYEAAQELLEPQPPDAIVCAT 181 (259)
T ss_pred CCCcEEEEcCCcccchhHHHHHHHHHHHHHHcCCC--hHHeeeccCchhhHHHHHHHHhcCCCCCEEEEcC
Confidence 34689998643211 12234569999999999972 2223333444444432 23444433389999865
No 237
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=65.56 E-value=13 Score=32.39 Aligned_cols=45 Identities=20% Similarity=0.200 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 89 VTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 89 It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+++.+++-+++.|+..|+ ..+..|| |-=..+..|.+.+..|+|+.
T Consensus 127 ~~~~~~~~~k~lL~~~Gi-----p~i~AP~--EAeaq~a~L~~~g~vd~v~S 171 (338)
T TIGR03674 127 LTSEIVESSKKLLDLMGI-----PYVQAPS--EGEAQAAYMAKKGDVDYVGS 171 (338)
T ss_pred CCHHHHHHHHHHHHHcCC-----eEEECCc--cHHHHHHHHHHCCCeeEEec
Confidence 456688899999999997 5788999 65567777888888888874
No 238
>PF03846 SulA: Cell division inhibitor SulA; InterPro: IPR004596 All proteins in this family for which the functions are known are cell division inhibitors. In Escherichia coli, SulA is one of the SOS regulated genes. Accumulation of SulA causes rapid cessation of cell division and the appearance of long, non-septate filaments. In the presence of GTP, SulA binds a polymerisation-competent form of ftsZ in a 1:1 ratio, thus inhibiting ftsZ polymerisation and therefore preventing it from participating in the assembly of the Z ring. This mechanism prevents the premature segregation of damaged DNA to daughter cells during cell division. The expression of SulA is repressed by LexA. The N terminus of SulA may be involved in recognising the cell division apparatus.; GO: 0009432 SOS response, 0051782 negative regulation of cell division, 0009276 Gram-negative-bacterium-type cell wall; PDB: 1OFU_X 1OFT_A.
Probab=65.52 E-value=17 Score=28.09 Aligned_cols=44 Identities=16% Similarity=0.130 Sum_probs=34.6
Q ss_pred HHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 97 ALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 97 A~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-...|++.|+..++|-.+.-....+-=-++.+.+++|+|.+||+
T Consensus 73 s~~wL~~aGl~~~kvl~l~~~~~~~tl~amekAL~sGn~s~Vl~ 116 (119)
T PF03846_consen 73 SRQWLQQAGLPLEKVLQLHPRNPQSTLEAMEKALRSGNYSAVLG 116 (119)
T ss_dssp -HHHHHHTT--CCCEEEE--SSTTHHHHHHHHHHHHT-EEEEEE
T ss_pred CHHHHHHcCCChhHeEEeCCCCcccHHHHHHHHHHhCCCeEEEE
Confidence 45788999999999999999999998888888889999999986
No 239
>cd07766 DHQ_Fe-ADH Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH). Dehydroquinate synthase-like. This superfamily divides into two subgroups: the dehydroquinate synthase-like, and a large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. Dehydroquinate synthase-like group includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. The alcohol dehydrogenases in this superfamily contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alc
Probab=65.45 E-value=23 Score=29.62 Aligned_cols=60 Identities=22% Similarity=0.195 Sum_probs=34.2
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc---cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG---SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG---AfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.=. +...+...+.|++. + ++.++..++ .+|-=.-+-..++..++|.||++|
T Consensus 24 ~~~liv~~~~~~---~~~~~~v~~~l~~~-~---~~~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiG 86 (332)
T cd07766 24 DRALVVSDEGVV---KGVGEKVADSLKKL-I---AVHIFDGVGPNPTFEEVKEAVERARAAEVDAVIAVG 86 (332)
T ss_pred CeEEEEeCCchh---hhHHHHHHHHHHhc-C---cEEEeCCcCCCcCHHHHHHHHHHHHhcCcCEEEEeC
Confidence 488888764322 24555566666665 4 244444333 333323333344557899999998
No 240
>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=65.43 E-value=28 Score=26.97 Aligned_cols=64 Identities=19% Similarity=0.297 Sum_probs=37.2
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHC-CCCCCCeEEEEecccchHH---HHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKY-SVKEENIDVVWVPGSFEIG---VVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~-Gv~~e~I~vv~VPGAfELP---laak~La~-s~~yDAVIaLG 142 (145)
..||+++...=+..-+..-.+|..+.++++ |.. +.. ...+.+..- -.++++++ ..++|||+|.+
T Consensus 122 ~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~---~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 190 (275)
T cd06320 122 GGKVAIIEGKAGAFAAEQRTEGFTEAIKKASGIE---VVA-SQPADWDREKAYDVATTILQRNPDLKAIYCNN 190 (275)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHhhCCCcE---EEE-ecCCCccHHHHHHHHHHHHHhCCCccEEEECC
Confidence 359999875333333445569999999998 753 111 122333221 23344443 45799999864
No 241
>cd08179 NADPH_BDH NADPH-dependent butanol dehydrogenase involved in the butanol and ethanol formation pathway in bacteria. NADPH-dependent butanol dehydrogenase (BDH) is involved in the butanol and ethanol formation pathway of some bacteria. The fermentation process is characterized by an acid producing growth phase, followed by a solvent producing phase. The latter phase is associated with the induction of solventogenic enzymes such as butanol dehydrogenase. The activity of the enzymes require NADPH as cofactor, as well as divalent ions zinc or iron. This family is a member of the iron-containing alcohol dehydrogenase superfamily. Protein structure has a dehydroquinate synthase-like fold.
Probab=65.35 E-value=10 Score=32.68 Aligned_cols=61 Identities=10% Similarity=0.038 Sum_probs=35.1
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEeccc-----chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGS-----FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGA-----fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+--.. ...+++...+.|++.|+. + ....|. +|.=..+-.+++..++|+||++|
T Consensus 24 ~r~livt~~~~~~-~~g~~~~v~~~L~~~g~~---~--~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavG 89 (375)
T cd08179 24 KKAFIVTGGGSMK-KFGFLDKVEAYLKEAGIE---V--EVFEGVEPDPSVETVLKGAEAMREFEPDWIIALG 89 (375)
T ss_pred CeEEEEeCchHHH-hCChHHHHHHHHHHcCCe---E--EEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 5888887652111 114556667777777763 2 233332 22222233345678999999998
No 242
>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=65.32 E-value=39 Score=26.14 Aligned_cols=63 Identities=13% Similarity=0.102 Sum_probs=37.2
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
...||+++...-+. ......++..+.++++|+. +........-+.=-+++++.+ +.|||+|.+
T Consensus 130 g~~~i~~l~~~~~~-~~~~r~~g~~~~~~~~g~~---~~~~~~~~~~~~~~~~~~~~~--~~dai~~~~ 192 (281)
T cd06325 130 DAKTVGVLYNPSEA-NSVVQVKELKKAAAKLGIE---VVEATVSSSNDVQQAAQSLAG--KVDAIYVPT 192 (281)
T ss_pred CCcEEEEEeCCCCc-cHHHHHHHHHHHHHhCCCE---EEEEecCCHHHHHHHHHHhcc--cCCEEEEcC
Confidence 45699999765442 2445679999999999874 221112332233234444543 369999853
No 243
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=64.91 E-value=47 Score=26.20 Aligned_cols=64 Identities=3% Similarity=-0.052 Sum_probs=39.2
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHC-CCCCCCeEEEEecccchHHH---HHHHHhhc-CCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKY-SVKEENIDVVWVPGSFEIGV---VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~-Gv~~e~I~vv~VPGAfELPl---aak~La~s-~~yDAVIaLG 142 (145)
...||+++...-+. ....-.+|.++.++++ |+. + ...+++.++.-- +++.+++. .++|||+|-+
T Consensus 130 g~~~i~~l~~~~~~-~~~~R~~gf~~al~~~~~~~---~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~n 198 (280)
T cd06303 130 NHARYAMLYFSPGY-ISTARGDTFIDCVHARNNWT---L-TSEFYTDATRQKAYQATSDILSNNPDVDFIYACS 198 (280)
T ss_pred CCcEEEEEECCCCc-chhHHHHHHHHHHHhCCCce---E-EEeecCCCCHHHHHHHHHHHHHhCCCCcEEEECC
Confidence 34699999764222 2334569999999998 653 2 223456665332 33444444 4699999864
No 244
>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=64.91 E-value=25 Score=27.18 Aligned_cols=65 Identities=14% Similarity=0.155 Sum_probs=38.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHC-CCCCCCeEEEEecccchHH-HHHHHHhh-cCCCcEEEEe
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKY-SVKEENIDVVWVPGSFEIG-VVAQQLGK-SGKYTAVLCI 141 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~-Gv~~e~I~vv~VPGAfELP-laak~La~-s~~yDAVIaL 141 (145)
..||+++...=+......-.+|+.+.++++ |+... .....+..+|-. -+++.+++ ..++|+|+|.
T Consensus 123 ~~~i~~i~~~~~~~~~~~r~~gf~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~ 190 (273)
T cd06310 123 KGKVAVISFVPGSSTTDQREEGFLEGLKEYPGIEIV--ATQYSDSDYAKALDITEDLLTANPDLKGIFGA 190 (273)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEE--ecccCCcCHHHHHHHHHHHHHhCCCceEEEec
Confidence 459999965333334455679999999998 76421 122223333332 23344444 3569999986
No 245
>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=64.64 E-value=27 Score=30.02 Aligned_cols=64 Identities=8% Similarity=-0.089 Sum_probs=44.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe---cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV---PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V---PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
-.||+||... ++..+.+.+...+.+++.|+.-. ....+ ++.-++--.++++.+..+.|.||..+
T Consensus 172 w~~vaii~~~--~~~G~~~~~~~~~~~~~~gi~i~--~~~~~~~~~~~~d~~~~l~~l~~~~~a~viil~~ 238 (452)
T cd06362 172 WTYVSTVASE--GNYGEKGIEAFEKLAAERGICIA--GSEKIPSSATEEEFDNIIRKLLSKPNARVVVLFC 238 (452)
T ss_pred CcEEEEEEeC--CHHHHHHHHHHHHHHHHCCeeEE--EEEEcCCCCCHHHHHHHHHHHhhcCCCeEEEEEc
Confidence 3589999774 34556788888999999997411 12233 46777777788876655688887765
No 246
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=64.29 E-value=27 Score=28.23 Aligned_cols=64 Identities=14% Similarity=0.142 Sum_probs=38.2
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH--H-HHHHHHhhc-C-CCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI--G-VVAQQLGKS-G-KYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL--P-laak~La~s-~-~yDAVIaLG 142 (145)
.++++...-+......-.+|+.+.++++|...+.. ..+++.+.. . -.++.++++ . +.|||+|.+
T Consensus 141 ~i~~~~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~L~~~~~~~~ai~~~~ 209 (303)
T cd01539 141 QYVMLKGEPGHPDAIARTKYSIETLNDAGIKTEEL--ASDTANWDRAQAKDKMDALLLKYGDKIEAVIANN 209 (303)
T ss_pred EEEEEEcCCCCchhhhhhhhHHHHHHhcCCCeEEE--EeecCCCCHHHHHHHHHHHHHhcCCCccEEEECC
Confidence 45666665444444555789999999999753222 223444432 2 245566544 3 589999964
No 247
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=64.25 E-value=24 Score=27.37 Aligned_cols=67 Identities=12% Similarity=0.113 Sum_probs=38.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-c-cchHHH-HHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-G-SFEIGV-VAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-G-AfELPl-aak~La~s-~~yDAVIaLG 142 (145)
..||+++...-+. ....-.+|..+.++++|.......+.... + .++-.. .++.++++ .++|||+|..
T Consensus 121 ~~~i~~l~~~~~~-~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av~~~~ 191 (273)
T cd01541 121 HRKIAGIFKADDL-QGVKRMKGFIKAYREHGIPFNPSNVITYTTEEKEEKLFEKIKEILKRPERPTAIVCYN 191 (273)
T ss_pred CcCEEEecCCCcc-cHHHHHHHHHHHHHHcCCCCChHHEEeccccchhhHHHHHHHHHHcCCCCCCEEEEcC
Confidence 4589888654332 33345699999999999753332222222 2 223222 34444443 5799999864
No 248
>cd08178 AAD_C C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD). Alcohol dehydrogenase domain located on the C-terminal of a bifunctional two-domain protein. The N-terminal of the protein contains an acetaldehyde-CoA dehydrogenase domain. This protein is involved in pyruvate metabolism. Pyruvate is converted to acetyl-CoA and formate by pyruvate formate-lysase (PFL). Under anaerobic condition, acetyl-CoA is reduced to acetaldehyde and ethanol by this two-domain protein. Acetyl-CoA is first converted into an enzyme-bound thiohemiacetal by the N-terminal acetaldehyde dehydrogenase domain. The enzyme-bound thiohemiacetal is subsequently reduced by the C-terminal NAD+-dependent alcohol dehydrogenase domain. In E. coli, this protein is called AdhE and was shown pyruvate formate-lysase (PFL) deactivase activity, which is involved in the inactivation of PFL, a key enzyme in anaerobic metabolism. In Escherichi
Probab=63.79 E-value=16 Score=31.96 Aligned_cols=61 Identities=25% Similarity=0.340 Sum_probs=36.5
Q ss_pred CEEEEEEeeecHHHHHH-HHHHHHHHHHHCCCCCCCeEEEE-eccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKL-LLEGALETFKKYSVKEENIDVVW-VPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~-LleGA~~~L~~~Gv~~e~I~vv~-VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+. +.+. ..+...+.|++.|+. +.++. |.+. +|.-.-+-.+++..++|+||++|
T Consensus 22 ~k~liVtd~~---~~~~g~~~~v~~~L~~~gi~---~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 86 (398)
T cd08178 22 KRAFIVTDRF---MVKLGYVDKVIDVLKRRGVE---TEVFSDVEPDPSLETVRKGLELMNSFKPDTIIALG 86 (398)
T ss_pred CeEEEEcChh---HHhCccHHHHHHHHHHCCCe---EEEecCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 5888887643 3333 666777888888863 33331 2222 22222333345677999999998
No 249
>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=63.72 E-value=28 Score=26.40 Aligned_cols=63 Identities=19% Similarity=0.181 Sum_probs=41.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||+++..... -...+.++..+.++++|+.. ...... ++.-+.--.++++.+ .+.|+|++.+
T Consensus 136 ~~~v~iv~~~~~--~~~~~~~~~~~~~~~~g~~i--~~~~~~~~~~~~~~~~~~~l~~-~~~~~v~~~~ 199 (299)
T cd04509 136 WKKVAILYDDDS--YGRGLLEAFKAAFKKKGGTV--VGEEYYPLGTTDFTSLLQKLKA-AKPDVIVLCG 199 (299)
T ss_pred CcEEEEEecCch--HHHHHHHHHHHHHHHcCCEE--EEEecCCCCCccHHHHHHHHHh-cCCCEEEEcc
Confidence 459999987665 45677899999999998641 222333 344444445556543 3589998865
No 250
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=63.70 E-value=29 Score=27.04 Aligned_cols=67 Identities=13% Similarity=0.058 Sum_probs=40.6
Q ss_pred CCCCEEEEEEeeecH-----HHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhhc---CCCcEEEEe
Q 032216 73 NEGLRFALVVARFNE-----LVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGKS---GKYTAVLCI 141 (145)
Q Consensus 73 ~~~lRIaIVvArfN~-----~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~s---~~yDAVIaL 141 (145)
....||+++...-+. ...+.-.+|..+.+.++|.. +...+ +.|.|+.- -+++.+.++ .++|||+|.
T Consensus 110 ~g~~~i~~i~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~ 186 (270)
T cd01544 110 LGHTRIGFIGGEEKTTDGHEYIEDPRETAFREYMKEKGLY-DPELI--YIGDFTVESGYQLMKEALKSLGDNLPTAFFIA 186 (270)
T ss_pred cCCCcEEEECCCcccccccchhhhHHHHHHHHHHHHcCCC-ChheE--eeCCCCHHHHHHHHHHHHhccCCCCCCEEEEc
Confidence 344589999765431 24455689999999999952 21112 34555432 234455544 358999986
Q ss_pred e
Q 032216 142 G 142 (145)
Q Consensus 142 G 142 (145)
.
T Consensus 187 ~ 187 (270)
T cd01544 187 S 187 (270)
T ss_pred C
Confidence 4
No 251
>cd08193 HVD 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. 5-hydroxyvalerate dehydrogenase (HVD) is an iron-containing (type III) NAD-dependent alcohol dehydrogenase. It plays a role in the cyclopentanol metabolism biochemical pathway. It catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor. This cyclopentanol (cpn) degradation pathway is present in some bacteria which can use cyclopentanol as sole carbon source. In Comamonas sp. strain NCIMB 9872, this enzyme is encoded by the CpnD gene.
Probab=63.58 E-value=10 Score=32.66 Aligned_cols=62 Identities=15% Similarity=0.109 Sum_probs=35.3
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-Eeccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.=.. ..+.+...+.|+++|+. +.++ .+.+- +|-=.-+-+.++..++|.||++|
T Consensus 27 ~~~livt~~~~~~--~~~~~~v~~~L~~~~~~---~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 91 (376)
T cd08193 27 KRVLVVTDPGILK--AGLIDPLLASLEAAGIE---VTVFDDVEADPPEAVVEAAVEAARAAGADGVIGFG 91 (376)
T ss_pred CeEEEEcCcchhh--CccHHHHHHHHHHcCCe---EEEECCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 5888888764211 12456667778888863 3332 12221 22112222334567999999998
No 252
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=63.55 E-value=8.8 Score=31.96 Aligned_cols=47 Identities=19% Similarity=0.198 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeee
Q 032216 89 VTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 89 It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~V 144 (145)
+.+.|.+-|.+.|+..|+. |+.++.=-|+.-.| +...||.|++=+++
T Consensus 102 r~~~L~~~A~~~L~~lg~~--nV~v~~gDG~~G~~-------~~aPyD~I~Vtaaa 148 (209)
T COG2518 102 RIEELAEQARRNLETLGYE--NVTVRHGDGSKGWP-------EEAPYDRIIVTAAA 148 (209)
T ss_pred EcHHHHHHHHHHHHHcCCC--ceEEEECCcccCCC-------CCCCcCEEEEeecc
Confidence 3456888999999999994 68888888885443 45689998876653
No 253
>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=63.24 E-value=44 Score=25.43 Aligned_cols=64 Identities=16% Similarity=0.131 Sum_probs=38.6
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHC-CCCCCCeEEEEecccchH---HHHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKY-SVKEENIDVVWVPGSFEI---GVVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~-Gv~~e~I~vv~VPGAfEL---Plaak~La~-s~~yDAVIaLG 142 (145)
..||+++.+.-+....+...+|..+.|+++ |+. + .....+.+.. -..+..+.+ ..++|||+|-+
T Consensus 121 ~~~i~~l~~~~~~~~~~~r~~g~~~~l~~~~~~~---~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 189 (268)
T cd06323 121 KGKVVELQGIPGASAARERGKGFHEVVDKYPGLK---V-VASQPADFDRAKGLNVMENILQAHPDIKGVFAQN 189 (268)
T ss_pred CceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcE---E-EecccCCCCHHHHHHHHHHHHHHCCCcCEEEEcC
Confidence 469999987544334556679999999985 653 1 1112333332 233444443 45699999864
No 254
>KOG3857 consensus Alcohol dehydrogenase, class IV [Energy production and conversion]
Probab=62.99 E-value=11 Score=34.74 Aligned_cols=65 Identities=18% Similarity=0.176 Sum_probs=39.5
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
.|..|| +.=|= +--.+++-|.+.|++.|+.-+-.|-+++-=..-==..+-..++++.||++|++|
T Consensus 71 Kk~llv-TDkni-~~~~~~~~a~~~L~~~~I~~~vyD~v~~ePtv~s~~~alefak~~~fDs~vaiG 135 (465)
T KOG3857|consen 71 KKTLLV-TDKNI-AKLGLVKVAQDSLEENGINVEVYDKVQPEPTVGSVTAALEFAKKKNFDSFVAIG 135 (465)
T ss_pred cceEEe-eCCCh-hhcccHHHHHHHHHHcCCceEEecCccCCCchhhHHHHHHHHHhcccceEEEEc
Confidence 345444 44442 122588999999999999644444343321111112333456889999999998
No 255
>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=62.75 E-value=45 Score=27.25 Aligned_cols=64 Identities=13% Similarity=0.085 Sum_probs=46.1
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-EecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
...||+++.. |....+.+.+...+.+++.|+. -+... ..++.-+.--.+.+|.+ .+.|+|+..+
T Consensus 143 ~~~~va~l~~--~~~~g~~~~~~~~~~~~~~G~~--vv~~~~~~~~~~d~~~~v~~l~~-~~~d~v~~~~ 207 (344)
T cd06345 143 GFKTAAIVAE--DAAWGKGIDAGIKALLPEAGLE--VVSVERFSPDTTDFTPILQQIKA-ADPDVIIAGF 207 (344)
T ss_pred CCceEEEEec--CchhhhHHHHHHHHHHHHcCCe--EEEEEecCCCCCchHHHHHHHHh-cCCCEEEEee
Confidence 3469999876 5667788999999999999974 23323 34566777777777754 4689998865
No 256
>PRK10595 SOS cell division inhibitor; Provisional
Probab=62.66 E-value=24 Score=28.38 Aligned_cols=58 Identities=9% Similarity=0.015 Sum_probs=45.2
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
.+..|..|...+- -....|...|++.+++-.+...-.-|-=.++.+.++++.|.+|++
T Consensus 55 ~~rwilwI~PP~~---------p~~~~L~~~Gl~l~rvl~v~~~~~~d~Lwa~EqaLrsG~~~aVL~ 112 (164)
T PRK10595 55 QSRWQLWLTPQQK---------LSREWLQASGLPLTKVMQLSQLSPCHTVEAMERALRTGNYSVVLG 112 (164)
T ss_pred cCceEEEECCCCC---------CCHHHHHHcCCCcccEEEEecCCcHHHHHHHHHHHhhCCCcEEEE
Confidence 3446777777662 234567788999998888887788888899999999999999987
No 257
>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=62.57 E-value=34 Score=27.89 Aligned_cols=65 Identities=9% Similarity=0.059 Sum_probs=44.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||+++... |+...+.+.++..+.+++.|+.-... ...-+|.-++.-.+.++. ..+.|+|+..+
T Consensus 136 ~~~v~~l~~~-~~~~g~~~~~~~~~~~~~~g~~v~~~-~~~~~~~~d~~~~v~~i~-~~~~d~vi~~~ 200 (344)
T cd06348 136 IKRVAVFYAQ-DDAFSVSETEIFQKALRDQGLNLVTV-QTFQTGDTDFQAQITAVL-NSKPDLIVISA 200 (344)
T ss_pred CeEEEEEEeC-CchHHHHHHHHHHHHHHHcCCEEEEE-EeeCCCCCCHHHHHHHHH-hcCCCEEEECC
Confidence 3589999765 34456778899999999999752211 222357777777777775 44689888654
No 258
>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=62.49 E-value=46 Score=27.81 Aligned_cols=62 Identities=13% Similarity=0.100 Sum_probs=44.5
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-GAfELPlaak~La~s~~yDAVIaLG 142 (145)
.|++++.. |....+...+.+.+.+++.|++ -+...++| |.-+.--.+++|.+ .+.|+|+..+
T Consensus 135 k~v~~l~~--d~~~g~~~~~~~~~~~~~~G~~--vv~~~~~~~~~~D~s~~v~~l~~-~~pDav~~~~ 197 (359)
T TIGR03407 135 KRFFLLGS--DYVFPRTANKIIKAYLKSLGGT--VVGEDYTPLGHTDFQTIINKIKA-FKPDVVFNTL 197 (359)
T ss_pred ceEEEecC--ccHHHHHHHHHHHHHHHHcCCE--EEeeEEecCChHhHHHHHHHHHH-hCCCEEEEec
Confidence 68999965 4455566788888999999975 23445555 88787777777764 4679988653
No 259
>cd08195 DHQS Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway, which involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds, is found in bacteria, microbial eukaryotes, and plants, but not in mammals. Therefore, enzymes of this pathway are attractive targets for the development of non-toxic antimicrobial compounds, herbicides and anti-parasitic agents. The activity of DHQS requires nicotinamide adenine dinucleotide (NAD) as cofactor. A single active site in DHQS catalyzes five sequential reactions involving alcohol oxidation, phosphate elimination, carbonyl reduction, ring opening, and intramolecular aldol
Probab=62.41 E-value=57 Score=27.85 Aligned_cols=61 Identities=13% Similarity=0.247 Sum_probs=36.4
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc---cchHHHHHHH--HhhcC---CCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG---SFEIGVVAQQ--LGKSG---KYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG---AfELPlaak~--La~s~---~yDAVIaLG 142 (145)
.|+.||..+.- .+...+...+.|++.|+. +.++.+|| .-.+-.+.+. .++.. +.|.||++|
T Consensus 25 ~~~livtd~~~---~~~~~~~l~~~L~~~g~~---~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIaiG 93 (345)
T cd08195 25 SKILIVTDENV---APLYLEKLKAALEAAGFE---VEVIVIPAGEASKSLETLEKLYDALLEAGLDRKSLIIALG 93 (345)
T ss_pred CeEEEEECCch---HHHHHHHHHHHHHhcCCc---eEEEEeCCCCCcCCHHHHHHHHHHHHHcCCCCCCeEEEEC
Confidence 58888875433 335667777888888874 45556676 2222222222 22333 449999998
No 260
>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=62.36 E-value=33 Score=27.18 Aligned_cols=65 Identities=18% Similarity=0.138 Sum_probs=40.2
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc-c-c-hHHHHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG-S-F-EIGVVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG-A-f-ELPlaak~La~-s~~yDAVIaLG 142 (145)
..||+++..+=+......-.+|..+.|++++. ++.++..++ . . +.--.++.+++ ..++|||+|-+
T Consensus 126 ~~~i~~l~~~~~~~~~~~R~~gf~~~l~~~~~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 194 (294)
T cd06316 126 KGKVGLIYHGADYFVTNQRDQGFKETIKKNYP---DITIVAEKGIDGPSKAEDIANAMLTQNPDLKGIYAVW 194 (294)
T ss_pred CceEEEEeCCCCcccHHHHHHHHHHHHHHhCC---CcEEEeecCCcchhHHHHHHHHHHHhCCCeeEEEeCC
Confidence 45999997654444556678999999998763 334443322 2 1 22234455554 45789999864
No 261
>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=61.80 E-value=44 Score=27.47 Aligned_cols=63 Identities=13% Similarity=0.080 Sum_probs=45.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
+.|++||.. |....+.+.+++.+.+++.|+. -+...+ -+|.-+.--.++++.+ .+.|+|+..+
T Consensus 132 ~~~vail~~--d~~~g~~~~~~~~~~~~~~G~~--vv~~~~~~~~~~d~~~~v~~l~~-~~pd~v~~~~ 195 (334)
T cd06356 132 GKKVYTIAA--DYNFGQISAEWVRKIVEENGGE--VVGEEFIPLDVSDFGSTIQKIQA-AKPDFVMSIL 195 (334)
T ss_pred CCeEEEECC--CchhhHHHHHHHHHHHHHcCCE--EEeeeecCCCchhHHHHHHHHHh-cCCCEEEEec
Confidence 368999984 5566778889999999999975 233333 4577777777777754 5689998754
No 262
>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=61.63 E-value=26 Score=27.82 Aligned_cols=68 Identities=16% Similarity=0.162 Sum_probs=39.4
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE--Eecccch--H-HHHHHHHhhc-C-CCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV--WVPGSFE--I-GVVAQQLGKS-G-KYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv--~VPGAfE--L-Plaak~La~s-~-~yDAVIaLG 142 (145)
...|++++...-+......-.+|+.+.++++|... .++.+ ...+.+. - --+++.++++ . ++|+|+|.+
T Consensus 124 g~~~i~~l~g~~~~~~~~~R~~gf~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~I~~~~ 198 (288)
T cd01538 124 PPGNIELIAGSPTDNNAKLFFNGAMSVLKPLIDSG-KITIVGEVATPDWDPETAQKRMENALTANYNKVDGVLAAN 198 (288)
T ss_pred CCceEEEEECCCCCchHHHHHHHHHHHHHhccccC-CeeEEeccccCCCCHHHHHHHHHHHHHhCCCCccEEEeCC
Confidence 44689999765443444556799999999998321 12211 1123332 1 2334455544 4 799999964
No 263
>TIGR01357 aroB 3-dehydroquinate synthase. This model represents 3-dehydroquinate synthase, the enzyme catalyzing the second of seven steps in the shikimate pathway of chorismate biosynthesis. Chorismate is the last common intermediate in the biosynthesis of all three aromatic amino acids.
Probab=61.31 E-value=56 Score=27.76 Aligned_cols=61 Identities=15% Similarity=0.280 Sum_probs=36.4
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch------HHHHHHHHhhc--CCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE------IGVVAQQLGKS--GKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE------LPlaak~La~s--~~yDAVIaLG 142 (145)
.|+.||..+.- .+...+...+.|++.|+. +.++..++.-+ +--+++.+.+. .+.|.||++|
T Consensus 21 ~~~livtd~~~---~~~~~~~v~~~L~~~g~~---~~~~~~~~~e~~~~~~~v~~~~~~~~~~~~~r~d~IIavG 89 (344)
T TIGR01357 21 SKLVIITDETV---ADLYADKLLEALQALGYN---VLKLTVPDGEESKSLETVQRLYDQLLEAGLDRSSTIIALG 89 (344)
T ss_pred CeEEEEECCch---HHHHHHHHHHHHHhcCCc---eeEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCEEEEEc
Confidence 58888875433 334667777888888874 33444655332 22223333332 3469999998
No 264
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=61.19 E-value=59 Score=28.97 Aligned_cols=71 Identities=15% Similarity=0.134 Sum_probs=46.4
Q ss_pred CCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 72 KNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 72 ~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
.....+|||...==|+-+.+ -.+|+++.|++.|...-.|+...--|..-.-..+.|-...++.|-||+++.
T Consensus 27 ~~~~~~VaI~~~veHpaLd~-~~~G~~~aLk~~G~~n~~i~~~na~~~~~~a~~iarql~~~~~dviv~i~t 97 (322)
T COG2984 27 AADQITVAITQFVEHPALDA-AREGVKEALKDAGYKNVKIDYQNAQGDLGTAAQIARQLVGDKPDVIVAIAT 97 (322)
T ss_pred cccceeEEEEEeecchhHHH-HHHHHHHHHHhcCccCeEEEeecCCCChHHHHHHHHHhhcCCCcEEEecCC
Confidence 35566899988888877665 569999999999996223444444444332222222234567799999875
No 265
>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=61.11 E-value=32 Score=29.33 Aligned_cols=63 Identities=10% Similarity=0.010 Sum_probs=43.6
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec----ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP----GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP----GAfELPlaak~La~s~~yDAVIaLG 142 (145)
-.||+|+.. |+.....+.+...+.|++.|+.- .....+| |..++--.++++. ..+.|+||..+
T Consensus 176 ~k~vaii~~--~~~~g~~~~~~~~~~l~~~gi~i--~~~~~~~~~~~~~~d~~~~l~~i~-~~~~dvIil~~ 242 (410)
T cd06363 176 WNWVAFLGS--DDEYGRDGLQLFSELIANTGICI--AYQGLIPLDTDPETDYQQILKQIN-QTKVNVIVVFA 242 (410)
T ss_pred CcEEEEEEe--CChhHHHHHHHHHHHHHHCCeEE--EEEEEecCCCchHHHHHHHHHHHh-cCCCeEEEEEc
Confidence 468999976 66677788899999999999741 1122333 5566666777764 45789988654
No 266
>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=60.91 E-value=67 Score=27.84 Aligned_cols=64 Identities=8% Similarity=-0.008 Sum_probs=41.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccc------hHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSF------EIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAf------ELPlaak~La~s~~yDAVIaLG 142 (145)
-.+|++|.. +++..+.+.+...+.++++|+.-. ..... ++.. .+--.+.++++..+.|+||..|
T Consensus 172 w~~Vaii~~--~d~yG~~~~~~f~~~~~~~GicIa--~~e~~~~~~~~~~~~~~~~~~~~~~ik~~~a~vVvv~~ 242 (403)
T cd06361 172 WNWVGIIIT--DDDYGRSALETFIIQAEANGVCIA--FKEILPASLSDNTKLNRIIRTTEKIIEENKVNVIVVFA 242 (403)
T ss_pred CcEEEEEEe--cCchHHHHHHHHHHHHHHCCeEEE--EEEEecCccCcchhHHHHHHHHHHHHhcCCCeEEEEEe
Confidence 358999964 677788899999999999997411 11222 3321 2222444555667899998765
No 267
>COG0463 WcaA Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]
Probab=60.44 E-value=47 Score=21.95 Aligned_cols=54 Identities=24% Similarity=0.198 Sum_probs=40.9
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK 131 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~ 131 (145)
.++|.||...||+. ..+..|++.+.+.......|-++.-...-+-+-.++.+..
T Consensus 2 ~~~~siiip~~n~~---~~l~~~l~s~~~q~~~~~eiivvddgs~d~t~~~~~~~~~ 55 (291)
T COG0463 2 MPKVSVVIPTYNEE---EYLPEALESLLNQTYKDFEIIVVDDGSTDGTTEIAIEYGA 55 (291)
T ss_pred CccEEEEEeccchh---hhHHHHHHHHHhhhhcceEEEEEeCCCCCChHHHHHHHhh
Confidence 46899999999988 7778888888887765422667766667777777777653
No 268
>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=60.41 E-value=28 Score=29.22 Aligned_cols=64 Identities=20% Similarity=0.152 Sum_probs=45.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..|++||... ....+.+.++..+.+++.|+.-- -+...-+|.-+.--.+.++.. .+.|+|+..+
T Consensus 140 ~~kvaiv~~~--~~~g~~~~~~~~~~~~~~G~~vv-~~~~~~~~~~D~~~~v~~i~~-~~pd~V~~~~ 203 (351)
T cd06334 140 GKKIALVYHD--SPFGKEPIEALKALAEKLGFEVV-LEPVPPPGPNDQKAQWLQIRR-SGPDYVILWG 203 (351)
T ss_pred CCeEEEEeCC--CccchhhHHHHHHHHHHcCCeee-eeccCCCCcccHHHHHHHHHH-cCCCEEEEec
Confidence 5799999884 55667888999999999998521 122224566777777777654 5789998765
No 269
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=60.11 E-value=71 Score=26.10 Aligned_cols=61 Identities=10% Similarity=-0.005 Sum_probs=34.8
Q ss_pred EEEEEEee--ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 77 RFALVVAR--FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvAr--fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
|++|++-. -+. -..+..+..++.|+++|+. +.++..-..-+....++..++ .++|.||++|
T Consensus 3 ~~~ii~Np~sg~~-~~~~~~~~i~~~l~~~~~~---~~~~~t~~~~~~~~~~~~~~~-~~~d~ivv~G 65 (293)
T TIGR00147 3 EAPAILNPTAGKS-NDNKPLREVIMLLREEGME---IHVRVTWEKGDAARYVEEARK-FGVDTVIAGG 65 (293)
T ss_pred eEEEEECCCccch-hhHHHHHHHHHHHHHCCCE---EEEEEecCcccHHHHHHHHHh-cCCCEEEEEC
Confidence 66666422 221 1334556667889999985 444443333234444554443 4699999987
No 270
>cd08197 DOIS 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes neomycin, kanamycin, gentamicin, and ribostamycin. They are important antibacterial agents. DOIS is a homologue of the dehydroquinate synthase which catalyzes the cyclization of 3-deoxy-D-arabino-heputulosonate-7-phosphate to dehydroquinate (DHQ) in the shikimate pathway.
Probab=59.50 E-value=57 Score=28.44 Aligned_cols=61 Identities=16% Similarity=0.245 Sum_probs=35.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc---hHHHHH--HHHhhcCCCc---EEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF---EIGVVA--QQLGKSGKYT---AVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf---ELPlaa--k~La~s~~yD---AVIaLG 142 (145)
.|+.||..+. +.+.+.+...+.|++.|+. +.++..|+.= .+-.+. -..+...++| .||++|
T Consensus 24 ~rvlvVtd~~---v~~~~~~~l~~~L~~~g~~---~~~~~~~~~e~~k~~~~v~~~~~~~~~~~~dr~~~IIAvG 92 (355)
T cd08197 24 DKYLLVTDSN---VEDLYGHRLLEYLREAGAP---VELLSVPSGEEHKTLSTLSDLVERALALGATRRSVIVALG 92 (355)
T ss_pred CeEEEEECcc---HHHHHHHHHHHHHHhcCCc---eEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEEC
Confidence 5888887654 3334566677888888874 4555556522 222222 2223345666 999998
No 271
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=58.95 E-value=78 Score=24.72 Aligned_cols=65 Identities=14% Similarity=0.080 Sum_probs=38.4
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc---hHH-HHHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF---EIG-VVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf---ELP-laak~La~s~~yDAVIaLG 142 (145)
...||+++...=.. ....-.+|..+.++++|...+...+. .+.+ +-- -+++.++++ +.|||+|-.
T Consensus 119 g~~~I~~i~~~~~~-~~~~R~~Gf~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~-~~~ai~~~~ 187 (260)
T cd06304 119 KTGKVGFVGGMPIP-EVNRFINGFAAGAKSVNPDITVLVIY--TGSFFDPAKGKEAALALIDQ-GADVIFAAA 187 (260)
T ss_pred cCCceEEEeccccH-HHHHHHHHHHHHHHHhCCCcEEEEEE--ecCccCcHHHHHHHHHHHhC-CCCEEEEcC
Confidence 34699999753222 33445689999999999853322222 3333 322 235555544 369998853
No 272
>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=58.68 E-value=42 Score=27.21 Aligned_cols=63 Identities=17% Similarity=0.218 Sum_probs=43.5
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||++|.. |..-.+.+.+...+.+++.|+. -+...+. ||.-+.--.+++|. +.+.|+|+..+
T Consensus 141 ~~~v~~v~~--~~~~g~~~~~~~~~~~~~~g~~--v~~~~~~~~~~~d~~~~v~~l~-~~~~d~i~~~~ 204 (345)
T cd06338 141 PKKVAILYA--DDPFSQDVAEGAREKAEAAGLE--VVYDETYPPGTADLSPLISKAK-AAGPDAVVVAG 204 (345)
T ss_pred CceEEEEec--CCcccHHHHHHHHHHHHHcCCE--EEEEeccCCCccchHHHHHHHH-hcCCCEEEECC
Confidence 569999975 4445567888888999999974 2222333 47667666777774 46789988654
No 273
>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=58.27 E-value=44 Score=25.71 Aligned_cols=67 Identities=12% Similarity=-0.117 Sum_probs=38.1
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCC-CCCCCeEEEEecccchH-HHHHHHHhh-cCCC--cEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYS-VKEENIDVVWVPGSFEI-GVVAQQLGK-SGKY--TAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~G-v~~e~I~vv~VPGAfEL-Plaak~La~-s~~y--DAVIaLG 142 (145)
..||+++... +....+.-.+|..+.+++++ ...............|- --+++.+++ ..+. |||+|.+
T Consensus 120 ~~~i~~i~~~-~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~ 191 (273)
T cd06305 120 KGNVGYVNVA-GFPPLDRRYDVWQAVLKAYPGIKEVAELGDVSNNTAQDAAAQVEAVLKKYPKGGIDAIWAAW 191 (273)
T ss_pred CCCEEEEEcc-CCchHHHHHHHHHHHHHHCCCcEEecccccccccchhHHHHHHHHHHHHCCCcccCeEEEcC
Confidence 3589999876 44455666789999999888 32111001111222222 234555554 4467 9999864
No 274
>PRK13196 pyrrolidone-carboxylate peptidase; Provisional
Probab=58.07 E-value=24 Score=28.89 Aligned_cols=38 Identities=16% Similarity=0.095 Sum_probs=27.4
Q ss_pred CCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEeee
Q 032216 106 VKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 106 v~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG~ 143 (145)
.....|....+|=+|+-- -.+..+.+..++|+||++|.
T Consensus 32 ~~~~~v~~~~LPV~~~~~~~~l~~~~~~~~Pd~vi~~G~ 70 (211)
T PRK13196 32 AGALRVHSALLPVEPRAAMAALSRLLDELQPSAVLLTGL 70 (211)
T ss_pred CCCcEEEEEEeCCChhHHHHHHHHHHHHhCCCEEEEecc
Confidence 333457888899998863 34455666678899999995
No 275
>cd03802 GT1_AviGT4_like This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant that accumulated a novel avilamycin derivative lacking the terminal eurekanate residue.
Probab=57.78 E-value=62 Score=25.37 Aligned_cols=17 Identities=18% Similarity=0.198 Sum_probs=11.5
Q ss_pred HHHHhhcCCCcEEEEee
Q 032216 126 AQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 126 ak~La~s~~yDAVIaLG 142 (145)
+.++.+..++|.|.+-+
T Consensus 79 ~~~~~~~~~~Divh~~~ 95 (335)
T cd03802 79 AERALAAGDFDIVHNHS 95 (335)
T ss_pred HHHHHhcCCCCEEEecC
Confidence 34455678899887643
No 276
>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=57.62 E-value=50 Score=26.86 Aligned_cols=64 Identities=14% Similarity=0.042 Sum_probs=45.9
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..|++++.. |....+.+.+...+.+++.|+..- .....-++.-+..-.++++.+ .+.|+|+..+
T Consensus 135 ~~~v~~i~~--~~~~g~~~~~~~~~~~~~~G~~vv-~~~~~~~~~~d~~~~v~~l~~-~~~d~v~~~~ 198 (334)
T cd06327 135 GKKWFFLTA--DYAFGHSLERDARKVVKANGGKVV-GSVRHPLGTSDFSSYLLQAQA-SGADVLVLAN 198 (334)
T ss_pred CCeEEEEec--chHHhHHHHHHHHHHHHhcCCEEc-CcccCCCCCccHHHHHHHHHh-CCCCEEEEec
Confidence 469998874 556677888999999999997532 122234566677777788754 5789998776
No 277
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=57.47 E-value=17 Score=28.93 Aligned_cols=64 Identities=13% Similarity=0.111 Sum_probs=40.0
Q ss_pred CEEEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc------cchHHHHHHHHhhc-CCCcEEEE
Q 032216 76 LRFALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVPG------SFEIGVVAQQLGKS-GKYTAVLC 140 (145)
Q Consensus 76 lRIaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG------AfELPlaak~La~s-~~yDAVIa 140 (145)
|||.+|.+.-+ .-.+..|++.+.+.|.+.|..-+.+++...|- .+.-| .++.+.+. ...|+||.
T Consensus 1 mkIl~I~GSpr~~S~t~~l~~~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~-~~~~~~~~i~~AD~iIi 72 (191)
T PRK10569 1 MRVITLAGSPRFPSRSSALLEYAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSP-ALKTFTEQLAQADGLIV 72 (191)
T ss_pred CEEEEEEcCCCCCChHHHHHHHHHHHHHhCCCEEEEEEccCCChHHHHhccCCCH-HHHHHHHHHHHCCEEEE
Confidence 57777776554 56788899999999999997655555544442 11123 33333322 46788874
No 278
>PRK06756 flavodoxin; Provisional
Probab=57.17 E-value=24 Score=25.99 Aligned_cols=31 Identities=6% Similarity=0.140 Sum_probs=21.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCC
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVK 107 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~ 107 (145)
+|+.||....+.. |+.|.+...+.|++.|+.
T Consensus 2 mkv~IiY~S~tGn-Te~vA~~ia~~l~~~g~~ 32 (148)
T PRK06756 2 SKLVMIFASMSGN-TEEMADHIAGVIRETENE 32 (148)
T ss_pred ceEEEEEECCCch-HHHHHHHHHHHHhhcCCe
Confidence 5888998765533 566767777778777874
No 279
>PRK02645 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=56.97 E-value=29 Score=29.65 Aligned_cols=61 Identities=10% Similarity=-0.013 Sum_probs=35.5
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc-cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG-SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG-AfELPlaak~La~s~~yDAVIaLG 142 (145)
.||++|.-. +..-...+++...+.|+++|+. +.+..... ..+.+...+. ...++|.||++|
T Consensus 4 kkv~lI~n~-~~~~~~~~~~~i~~~L~~~g~~---v~v~~~~~~~~~~~~~~~~--~~~~~d~vi~~G 65 (305)
T PRK02645 4 KQVIIAYKA-GSSQAKEAAERCAKQLEARGCK---VLMGPSGPKDNPYPVFLAS--ASELIDLAIVLG 65 (305)
T ss_pred CEEEEEEeC-CCHHHHHHHHHHHHHHHHCCCE---EEEecCchhhccccchhhc--cccCcCEEEEEC
Confidence 468888766 4344556778888999999974 22322211 1111111111 124799999998
No 280
>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=56.80 E-value=46 Score=25.67 Aligned_cols=64 Identities=19% Similarity=0.197 Sum_probs=40.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHH---HHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIG---VVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELP---laak~La~-s~~yDAVIaLG 142 (145)
..||+++.+.-+......=.+|..+.|+++| . +.+.. ..+-++-- -+++++++ ..++|||+|.+
T Consensus 123 ~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~-~---~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 191 (272)
T cd06301 123 KGNVAILMGPLGQSAQIDRTKGVEEVLAKYP-D---IKVVEEQTANWSRAEAMDLMENWLSSGGKIDAVVANN 191 (272)
T ss_pred CccEEEEECCCCCccHHHHHHHHHHHHHHCC-C---cEEEecCCCCccHHHHHHHHHHHHHhCCCCCEEEECC
Confidence 3599999887665555566699999999988 2 22222 22333321 13344443 45789999965
No 281
>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=56.44 E-value=51 Score=27.08 Aligned_cols=63 Identities=11% Similarity=0.042 Sum_probs=46.5
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEe
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCI 141 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaL 141 (145)
..||+++.. +....+.+.++..+.+++.|+..- -+...-||.-+..-.++++.+. +.|+|+..
T Consensus 136 ~~~v~~i~~--~~~~g~~~~~~~~~~~~~~G~~vv-~~~~~~~~~~d~~~~v~~l~~~-~pd~V~~~ 198 (333)
T cd06328 136 GKKIATLAQ--DYAFGRDGVAAFKAALEKLGAAIV-TEEYAPTDTTDFTPYAQRLLDA-LKKVLFVI 198 (333)
T ss_pred CCeEEEEec--CccccHHHHHHHHHHHHhCCCEEe-eeeeCCCCCcchHHHHHHHHhc-CCCEEEEE
Confidence 469999975 556777788899999999997522 2233457888888888888654 67998764
No 282
>PRK03980 flap endonuclease-1; Provisional
Probab=56.24 E-value=23 Score=30.37 Aligned_cols=45 Identities=22% Similarity=0.203 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 89 VTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 89 It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
++..+++.+++.|+..|+ ..+..||-=| .-+..|++.+..|+|+.
T Consensus 80 vt~~~~~~~k~lL~~~GI-----p~i~AP~EAE--Aq~A~L~~~g~vd~V~S 124 (292)
T PRK03980 80 LTDEIVEDSKKLLDLMGI-----PYVQAPSEGE--AQAAYMAKKGDAWAVGS 124 (292)
T ss_pred CCHHHHHHHHHHHHHCCC-----CEEecCchHH--HHHHHHHHCCCeEEEec
Confidence 566789999999999997 4788999434 33666777777788764
No 283
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=55.79 E-value=57 Score=26.31 Aligned_cols=65 Identities=14% Similarity=0.073 Sum_probs=38.3
Q ss_pred CCCEEEEEEee-ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVAR-FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvAr-fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIaLG 142 (145)
...||+++... .+......-.+|..+.++++|+.. .....+-.+|-. -+++++++ .++|||+|..
T Consensus 171 Ghr~I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi~~---~~~~~~~~~~~~~~~~~~~l~-~~~tAi~~~~ 237 (311)
T TIGR02405 171 GHRHISFLGVDPSDKTTGLMRHNAYLAYCESANLEP---IYQTGQLSHESGYVLTDKVLK-PETTALVCAT 237 (311)
T ss_pred CCCcEEEEccCcccchhHHHHHHHHHHHHHHcCCCc---eeeeCCCCHHHHHHHHHHHHh-cCCCEEEECC
Confidence 45689999643 222334456799999999999852 122212222322 23445554 4689999853
No 284
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=55.72 E-value=76 Score=25.47 Aligned_cols=65 Identities=15% Similarity=0.090 Sum_probs=39.0
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHH---HHHHHHhh-cCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIG---VVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELP---laak~La~-s~~yDAVIaLG 142 (145)
.||+++....+..-...=.+|+.+.|+++|.. +++++.+ .|-++.. -+++.+++ ..+.|||+|.+
T Consensus 124 ~~I~~l~g~~~~~~~~~R~~Gf~~~l~~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 193 (298)
T cd06302 124 GEYAIFVGSLTATNQNAWIDAAKAYQKEKYYP--MLELVDRQYGDDDADKSYQTAQELLKAYPDLKGIIGPT 193 (298)
T ss_pred CEEEEEeCCCCCcchHHHHHHHHHHHhhcCCC--CeEEeCcccCCCCHHHHHHHHHHHHHhCCCceEEEECC
Confidence 58999987655433333348999999999843 3333222 4444432 23444443 34689999863
No 285
>PLN02948 phosphoribosylaminoimidazole carboxylase
Probab=55.62 E-value=65 Score=30.07 Aligned_cols=66 Identities=9% Similarity=0.044 Sum_probs=53.3
Q ss_pred ccCCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh---cCCCcEEEEe
Q 032216 69 FLTKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK---SGKYTAVLCI 141 (145)
Q Consensus 69 ~l~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~---s~~yDAVIaL 141 (145)
+.......+|+|+.+.-.+. .-.+.|.++|++.|+. ..+.|-++--.|--+..+++ ..+++.|||.
T Consensus 404 ~~~~~~~~~v~i~~gs~sd~---~~~~~~~~~l~~~g~~----~~~~v~sahr~~~~~~~~~~~~~~~~~~v~i~~ 472 (577)
T PLN02948 404 DALPKGTPLVGIIMGSDSDL---PTMKDAAEILDSFGVP----YEVTIVSAHRTPERMFSYARSAHSRGLQVIIAG 472 (577)
T ss_pred CCCCCCCCeEEEEECchhhH---HHHHHHHHHHHHcCCC----eEEEEECCccCHHHHHHHHHHHHHCCCCEEEEE
Confidence 33345567899999999988 6779999999999997 44789999999988888753 3568888875
No 286
>COG1041 Predicted DNA modification methylase [DNA replication, recombination, and repair]
Probab=55.46 E-value=15 Score=32.90 Aligned_cols=46 Identities=13% Similarity=0.207 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 87 ELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 87 ~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+|-.+|++||..-|+.+|+. +..+..+==|-++| +....+|||+|
T Consensus 225 ~Did~~mv~gak~Nl~~y~i~--~~~~~~~~Da~~lp------l~~~~vdaIat 270 (347)
T COG1041 225 SDIDERMVRGAKINLEYYGIE--DYPVLKVLDATNLP------LRDNSVDAIAT 270 (347)
T ss_pred cchHHHHHhhhhhhhhhhCcC--ceeEEEecccccCC------CCCCccceEEe
Confidence 388999999999999999974 67777776788888 33446999986
No 287
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=55.20 E-value=15 Score=31.62 Aligned_cols=62 Identities=16% Similarity=0.104 Sum_probs=35.6
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-EecccchHHHH--HHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGSFEIGVV--AQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGAfELPla--ak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-.. ....+...+.|++.|+. +.++ .+++.=.+-.+ +-..++..++|.||++|
T Consensus 25 ~~~liv~~~~~~~--~~~~~~v~~~L~~~g~~---~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IIaiG 89 (370)
T cd08192 25 KRPLIVTDPGLAA--LGLVARVLALLEDAGLA---AALFDEVPPNPTEAAVEAGLAAYRAGGCDGVIAFG 89 (370)
T ss_pred CeEEEEcCcchhh--CccHHHHHHHHHHcCCe---EEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 4888887654221 12456667778887874 3333 24333222222 22234667999999998
No 288
>cd07039 TPP_PYR_POX Pyrimidine (PYR) binding domain of POX. Thiamine pyrophosphate (TPP family), pyrimidine (PYR) binding domain of pyruvate oxidase (POX) subfamily. The PYR domain is found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. TPP binds in the cleft formed by a PYR domain and a PP domain. The PYR domain, binds the aminopyrimidine ring of TPP, the PP domain binds the diphosphate residue. The PYR and PP domains have a common fold, but do not share strong sequence conservation. The PP domain is not included in this sub-family. Most TPP-dependent enzymes have the PYR and PP domains on the same subunit although these domains can be alternatively arranged in the primary structure. TPP-dependent enzymes are multisubunit proteins, the smallest catalytic unit being a dimer-of-active sites. Lactobacillus plantarum POX is a homotetramer (dimer-of-homodimers), having two active sites per homodimer lying between PYR and PP domains of differ
Probab=55.07 E-value=42 Score=25.80 Aligned_cols=40 Identities=28% Similarity=0.440 Sum_probs=27.5
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVL 139 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVI 139 (145)
+.-.+.|+++|++ .++-+||...+|+.- .+.+....+-|.
T Consensus 4 ~~l~~~L~~~Gv~----~vFgipG~~~~~l~~-al~~~~~i~~v~ 43 (164)
T cd07039 4 DVIVETLENWGVK----RVYGIPGDSINGLMD-ALRREGKIEFIQ 43 (164)
T ss_pred HHHHHHHHHCCCC----EEEEcCCCchHHHHH-HHhhcCCCeEEE
Confidence 3446789999997 789999999999853 333323344443
No 289
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=54.77 E-value=76 Score=26.44 Aligned_cols=62 Identities=16% Similarity=0.030 Sum_probs=38.1
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH--HH-HHHHHhh-cCCCcEEEE
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI--GV-VAQQLGK-SGKYTAVLC 140 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL--Pl-aak~La~-s~~yDAVIa 140 (145)
..||+++...-+......-.+|..+.++++|+. +.- .+.|-++. .. .++.+.+ ..++|||++
T Consensus 172 ~~~i~~i~g~~~~~~~~~R~~Gf~~~l~~~~i~---~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~ 237 (343)
T PRK10936 172 PLNVALLPGPEGAGGSKAVEQGFRAAIAGSDVR---IVD-IAYGDNDKELQRNLLQELLERHPDIDYIAG 237 (343)
T ss_pred CceEEEEECCCCCchHHHHHHHHHHHHhcCCCE---EEE-eecCCCcHHHHHHHHHHHHHhCCCccEEEe
Confidence 469999987544445555678999999888763 111 23444443 22 3444543 356899985
No 290
>PLN02834 3-dehydroquinate synthase
Probab=54.61 E-value=88 Score=28.24 Aligned_cols=64 Identities=20% Similarity=0.304 Sum_probs=35.9
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc-----cchHHHHH-HHHhhc--CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG-----SFEIGVVA-QQLGKS--GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG-----AfELPlaa-k~La~s--~~yDAVIaLG 142 (145)
+.|+.||..+. +.+.+.+...+.|++.|+.. .+..+.+|+ .+|-=..+ +.+.+. ++.|.||++|
T Consensus 100 g~rvlIVtD~~---v~~~~~~~v~~~L~~~g~~~-~v~~~v~~~gE~~ksl~~v~~~~~~l~~~~~dr~~~VIAiG 171 (433)
T PLN02834 100 GKRVLVVTNET---VAPLYLEKVVEALTAKGPEL-TVESVILPDGEKYKDMETLMKVFDKALESRLDRRCTFVALG 171 (433)
T ss_pred CCEEEEEECcc---HHHHHHHHHHHHHHhcCCce-EEEEEEecCCcCCCCHHHHHHHHHHHHhcCCCcCcEEEEEC
Confidence 36888887554 33446677788888888742 122133565 22222222 333332 2355999998
No 291
>cd08177 MAR Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes. Maleylacetate reductases (MAR) play an important role in the degradation of aromatic compounds in aerobic microbes. In fungi and yeasts, the enzymes are involved in the catabolism of compounds such as phenol, tyrosine, benzoate, 4-hydroxybenzoate and resorcinol. In bacteria, the enzymes contribute to the degradation of resorcinol, 2,4-dihydroxybenzoate ([beta]-resorcylate) and 2,6-dihydroxybenzoate ([gamma]-resorcylate) via hydroxyquinol and maleylacetate. Maleylacetate reductases catalyze NADH- or NADPH-dependent reduction, at the carbon-carbon double bond, of maleylacetate or 2-chloromaleylacetate to 3-oxoadipate. In the case of 2-chloromaleylacetate, Maleylacetate reductases initially catalyses the NAD(P)H-dependent dechlorination to maleylacetate, which is then reduced to 3-oxoadipate. This enzyme is a homodimer. It is inhibited by thiol-blocking reagents such as p-
Probab=54.50 E-value=19 Score=30.60 Aligned_cols=59 Identities=12% Similarity=0.084 Sum_probs=33.5
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecc--cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPG--SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPG--AfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+. +.+...+...+.|+++++ .++. +.. .+|.=..+..+++..++|.||++|
T Consensus 24 ~~~livt~~~---~~~~~~~~v~~~l~~~~~-----~~~~~~~~~p~~~~v~~~~~~~~~~~~d~IIaiG 85 (337)
T cd08177 24 SRALVLTTPS---LATKLAERVASALGDRVA-----GTFDGAVMHTPVEVTEAAVAAAREAGADGIVAIG 85 (337)
T ss_pred CeEEEEcChH---HHHHHHHHHHHHhccCCc-----EEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 5888887653 333355666667766533 2222 111 244333333344567999999998
No 292
>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=54.18 E-value=65 Score=26.05 Aligned_cols=64 Identities=17% Similarity=0.066 Sum_probs=46.6
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..|++|+.. +....+.+.+...+.+++.|+.-.. ....-||.-+.--.++++.+ .+.|+|+..+
T Consensus 137 ~~~vail~~--~~~~g~~~~~~~~~~~~~~G~~vv~-~~~~~~~~~d~~~~v~~l~~-~~pd~v~~~~ 200 (312)
T cd06346 137 YKSVATTYI--NNDYGVGLADAFTKAFEALGGTVTN-VVAHEEGKSSYSSEVAAAAA-GGPDALVVIG 200 (312)
T ss_pred CCeEEEEEc--cCchhhHHHHHHHHHHHHcCCEEEE-EEeeCCCCCCHHHHHHHHHh-cCCCEEEEec
Confidence 469999985 4556778889999999999985211 23345687788777788754 5789998765
No 293
>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=53.93 E-value=74 Score=27.29 Aligned_cols=62 Identities=11% Similarity=0.087 Sum_probs=45.4
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-GAfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+++|.. |....+.+.+.+.+.++++|+. -+...++| |.-+.--.+.++.. .+.|+|+..+
T Consensus 134 ~~va~l~~--d~~~g~~~~~~~~~~~~~~G~~--vv~~~~~~~g~~Df~~~l~~i~~-~~pD~V~~~~ 196 (374)
T TIGR03669 134 KKIYTIAA--DYNFGQLSADWVRVIAKENGAE--VVGEEFIPLSVSQFSSTIQNIQK-ADPDFVMSML 196 (374)
T ss_pred CeEEEEcC--CcHHHHHHHHHHHHHHHHcCCe--EEeEEecCCCcchHHHHHHHHHH-cCCCEEEEcC
Confidence 58999987 4456677888899999999974 23344454 88888877777764 5689998754
No 294
>cd08181 PPD-like 1,3-propanediol dehydrogenase-like (PPD). 1,3-propanediol dehydrogenase-like (PPD). This family is a member of the iron-containing alcohol dehydrogenase superfamily, and exhibits a dehydroquinate synthase-like fold. Protein sequence similarity search and other biochemical evidences suggest that they are close to the iron-containing 1,3-propanediol dehydrogenase (EC 1.1.1.202). 1,3-propanediol dehydrogenase catalyzes the oxidation of propane-1,3-diol to 3-hydroxypropanal with the simultaneous reduction of NADP+ to NADPH. The protein structure of Thermotoga maritima TM0920 gene contains one NADP+ and one iron ion.
Probab=53.87 E-value=21 Score=30.73 Aligned_cols=63 Identities=16% Similarity=0.171 Sum_probs=35.6
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-eccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.=..- ..+++...+.|++.|+. +.++. +..- +|-=.-+-.+++..++|.||++|
T Consensus 26 ~r~lvVt~~~~~~~-~g~~~~v~~~L~~~g~~---~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIavG 91 (357)
T cd08181 26 KRALIVTGKSSAKK-NGSLDDVTKALEELGIE---YEIFDEVEENPSLETIMEAVEIAKKFNADFVIGIG 91 (357)
T ss_pred CEEEEEeCCchHhh-cCcHHHHHHHHHHcCCe---EEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 68988887642111 13445666778888873 33332 3222 22212223345667899999998
No 295
>PRK13054 lipid kinase; Reviewed
Probab=53.80 E-value=85 Score=26.06 Aligned_cols=44 Identities=9% Similarity=-0.037 Sum_probs=28.2
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
...++.|+++|.+ +++....-+-+....++++++ .++|.||+.|
T Consensus 21 ~~~~~~l~~~g~~---~~v~~t~~~~~a~~~a~~~~~-~~~d~vvv~G 64 (300)
T PRK13054 21 REAVGLLREEGHT---LHVRVTWEKGDAARYVEEALA-LGVATVIAGG 64 (300)
T ss_pred HHHHHHHHHcCCE---EEEEEecCCCcHHHHHHHHHH-cCCCEEEEEC
Confidence 3456678888874 455544444445556666654 4689999987
No 296
>PRK06065 acetyl-CoA acetyltransferase; Provisional
Probab=53.72 E-value=34 Score=30.20 Aligned_cols=16 Identities=25% Similarity=0.210 Sum_probs=11.6
Q ss_pred HHhhcCCCcEEEEeee
Q 032216 128 QLGKSGKYTAVLCIGA 143 (145)
Q Consensus 128 ~La~s~~yDAVIaLG~ 143 (145)
...+++.+|-|+++|+
T Consensus 103 ~~I~sG~ad~vLVvg~ 118 (392)
T PRK06065 103 YHVASGLCQKVLAVAE 118 (392)
T ss_pred HHHhCCCCCEEEEEEe
Confidence 3456788888888775
No 297
>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=53.54 E-value=46 Score=29.02 Aligned_cols=64 Identities=11% Similarity=-0.001 Sum_probs=44.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeE----EEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENID----VVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~----vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
-.||+||.. +.+.....++...+.+++.|.. .|. +...|+.-++--.+++|.+..+.|+||..+
T Consensus 172 w~~Vaii~~--~~~yg~~~~~~~~~~~~~~g~~--~v~~~~~i~~~~~~~d~~~~l~~ik~~~~~~vIvl~~ 239 (463)
T cd06376 172 WNYVSTLAS--EGNYGESGVEAFTQISREAGGV--CIAQSIKIPREPRPGEFDKIIKRLLETPNARAVIIFA 239 (463)
T ss_pred CeEEEEEEe--CChHHHHHHHHHHHHHHHcCCc--eEEEEEecCCCCCHHHHHHHHHHHhccCCCeEEEEec
Confidence 458999974 5556667778888888887632 121 224667777777777776556789988765
No 298
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=53.42 E-value=80 Score=28.14 Aligned_cols=59 Identities=17% Similarity=0.088 Sum_probs=46.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
.||+++++.= +.=...+++--+..++..|+. +....||-+-|+|.+.+.|. ++.|+|..
T Consensus 160 k~Igv~Y~p~-E~ns~~l~eelk~~A~~~Gl~---vve~~v~~~ndi~~a~~~l~--g~~d~i~~ 218 (322)
T COG2984 160 KSIGVLYNPG-EANSVSLVEELKKEARKAGLE---VVEAAVTSVNDIPRAVQALL--GKVDVIYI 218 (322)
T ss_pred eeEEEEeCCC-CcccHHHHHHHHHHHHHCCCE---EEEEecCcccccHHHHHHhc--CCCcEEEE
Confidence 4899887542 212236788889999999985 77888999999999999987 78898865
No 299
>PTZ00217 flap endonuclease-1; Provisional
Probab=53.42 E-value=25 Score=31.38 Aligned_cols=44 Identities=32% Similarity=0.280 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEE
Q 032216 89 VTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVL 139 (145)
Q Consensus 89 It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVI 139 (145)
|+..+++.+++.|...|+. .+..|| |-=..+..|.+.+..|+|+
T Consensus 135 vt~~~~~~~~~lL~~~Gip-----~i~AP~--EAdaq~A~L~~~g~v~~Vi 178 (393)
T PTZ00217 135 VTKEQNEDAKKLLRLMGIP-----VIEAPC--EAEAQCAELVKKGKVYAVA 178 (393)
T ss_pred CCHHHHHHHHHHHHHcCCc-----eEECCc--CHHHHHHHHHHCCCeEEEe
Confidence 5577889999999999974 677898 7777888888888778775
No 300
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=53.37 E-value=64 Score=27.32 Aligned_cols=64 Identities=16% Similarity=0.095 Sum_probs=46.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..|++++... ....+.+.++..+.+++.|+... .+...-||.-+.--.+.++.+ .+.|+|+..|
T Consensus 161 ~k~va~i~~d--~~~g~~~~~~~~~~~~~~G~~v~-~~~~~~~g~~D~~~~v~~l~~-~~~d~v~~~~ 224 (369)
T PRK15404 161 PKRIAVLHDK--QQYGEGLARSVKDGLKKAGANVV-FFEGITAGDKDFSALIAKLKK-ENVDFVYYGG 224 (369)
T ss_pred CCEEEEEeCC--CchhHHHHHHHHHHHHHcCCEEE-EEEeeCCCCCchHHHHHHHHh-cCCCEEEECC
Confidence 4599999875 34567788999999999998521 123334688888877888764 6789988654
No 301
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=53.16 E-value=1.2e+02 Score=24.78 Aligned_cols=60 Identities=17% Similarity=0.175 Sum_probs=42.1
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEe
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCI 141 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaL 141 (145)
.||+++...-.. -.....+...+.++++|+. +..+.|+..=|++-+++.|. ++.|+++.+
T Consensus 132 k~igvl~~~~~~-~~~~~~~~~~~~a~~~g~~---l~~~~v~~~~~~~~~~~~l~--~~~da~~~~ 191 (294)
T PF04392_consen 132 KRIGVLYDPSEP-NSVAQIEQLRKAAKKLGIE---LVEIPVPSSEDLEQALEALA--EKVDALYLL 191 (294)
T ss_dssp -EEEEEEETT-H-HHHHHHHHHHHHHHHTT-E---EEEEEESSGGGHHHHHHHHC--TT-SEEEE-
T ss_pred CEEEEEecCCCc-cHHHHHHHHHHHHHHcCCE---EEEEecCcHhHHHHHHHHhh--ccCCEEEEE
Confidence 489988754332 2345677777888889984 77789999999999998874 567887754
No 302
>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=53.06 E-value=64 Score=26.16 Aligned_cols=12 Identities=33% Similarity=0.285 Sum_probs=5.1
Q ss_pred HhhcCCCcEEEE
Q 032216 129 LGKSGKYTAVLC 140 (145)
Q Consensus 129 La~s~~yDAVIa 140 (145)
|.+..++|+||.
T Consensus 62 li~~~~V~~iig 73 (341)
T cd06341 62 LVEDDKVVAVVG 73 (341)
T ss_pred HHHhcCceEEEe
Confidence 333334444444
No 303
>PF01470 Peptidase_C15: Pyroglutamyl peptidase This is family C15 in the peptidase classification. ; InterPro: IPR000816 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C15 (pyroglutamyl peptidase I, clan CF). The type example being pyroglutamyl peptidase I of Bacillus amyloliquefaciens. Pyroglutamyl/pyrrolidone carboxyl peptidase (Pcp or PYRase) is an exopeptidase that hydrolytically removes the pGlu from pGlu-peptides or pGlu-proteins [, ]. PYRase has been found in prokaryotes and eukaryotes where at least two different classes have been characterised: the first containing bacterial and animal type I PYRases, and the second containing animal type II and serum PYRases. Type I and bacterial PYRases are soluble enzymes, while type II PYRases are membrane-bound. The primary application of PYRase has been its utilisation for protein or peptide sequencing, and bacterial diagnosis []. The conserved residues Cys-144 and His-168 have been identified by inhibition and mutagenesis studies [, ].; GO: 0006508 proteolysis; PDB: 1A2Z_A 1IU8_A 3RNZ_A 3RO0_D 1AUG_D 2EBJ_A 3LAC_A 1X12_B 1Z8X_B 1X10_C ....
Probab=52.78 E-value=18 Score=29.11 Aligned_cols=44 Identities=14% Similarity=0.132 Sum_probs=27.6
Q ss_pred HHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEeee
Q 032216 100 TFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 100 ~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG~ 143 (145)
.|.+......+|....+|-+|+ ..-.+..+.+..++|.||.+|.
T Consensus 25 ~L~~~~~~~~~v~~~~lPV~~~~~~~~l~~~l~~~~PdlVIhlGv 69 (202)
T PF01470_consen 25 RLPGELIGGAEVHTRELPVSYEKAFEALEELLEEHQPDLVIHLGV 69 (202)
T ss_dssp HHTTSEETTEEEEEEEE-SSHHHHHHHHHHHHHHH--SEEEEEEE
T ss_pred HcCCCcCCCceEEEEEecCchHhHHHHHHHHHHhcCCcEEEEEee
Confidence 3333334445688888999988 4445556666678999999995
No 304
>PF00781 DAGK_cat: Diacylglycerol kinase catalytic domain; InterPro: IPR001206 The DAG-kinase catalytic domain or DAGKc domain is present in mammalian lipid kinases, such as diacylglycerol (DAG), ceramide and sphingosine kinases, as well as in related bacterial proteins [, ]. Eukaryotic DAG-kinase (2.7.1.107 from EC) catalyses the phosphorylation of DAG to phosphatidic acid, thus modulating the balance between the two signaling lipids. At least ten different isoforms have been identified in mammals, which form 5 groups characterised by different functional domains, such as the calcium-binding EF hand (see PDOC00018 from PROSITEDOC), PH (see PDOC50003 from PROSITEDOC), SAM (see PDOC50105 from PROSITEDOC) , DAG/PE-binding C1 domain (see PDOC00379 from PROSITEDOC) and ankyrin repeats (see PDOC50088 from PROSITEDOC) []. In bacteria, an integral membrane DAG kinase forms a homotrimeric protein that lacks the DAGKc domain (see PDOC00820 from PROSITEDOC). In contrast, the bacterial yegS protein is a soluble cytosolic protein that contains the DAGKc domain in the N-terminal part. YegS is a lipid kinase with two structural domains, wherein the active site is located in the interdomain cleft, C-terminal to the DAGKc domain which forms an alpha/beta fold []. The tertiary structure resembles that of NAD kinases and contains a metal-binding site in the C-terminal region [, ]. This domain is usually associated with an accessory domain (see IPR000756 from INTERPRO).; GO: 0004143 diacylglycerol kinase activity, 0007205 activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway; PDB: 2JGR_A 2BON_A 3T5P_D 3S40_A 2P1R_A 2QV7_A 2QVL_A.
Probab=52.51 E-value=83 Score=22.66 Aligned_cols=44 Identities=7% Similarity=0.155 Sum_probs=25.9
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCC-cEEEEee
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKY-TAVLCIG 142 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~y-DAVIaLG 142 (145)
+...+.|..++.. .+++..-. -+....+.+..+.+++ |.||+.|
T Consensus 18 ~~v~~~l~~~~~~---~~~~~t~~-~~~~~~~~~~~~~~~~~~~ivv~G 62 (130)
T PF00781_consen 18 KKVEPALRAAGID---YEVIETES-AGHAEALARILALDDYPDVIVVVG 62 (130)
T ss_dssp HHHHHHHHHTTCE---EEEEEESS-TTHHHHHHHHHHHTTS-SEEEEEE
T ss_pred HHHHHHHHHcCCc---eEEEEEec-cchHHHHHHHHhhccCccEEEEEc
Confidence 5566777777753 45555544 3333444434445565 8999887
No 305
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=52.22 E-value=26 Score=30.39 Aligned_cols=63 Identities=16% Similarity=0.103 Sum_probs=36.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecc--cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPG--SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPG--AfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.-.... .+++...+.|++.|+. +.++. +.. .+|.=..+-.+++..++|.||++|
T Consensus 27 kr~livtd~~~~~~~-g~~~~v~~~L~~~gi~---~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 92 (383)
T cd08186 27 SKVLLVTGKSAYKKS-GAWDKVEPALDEHGIE---YVLYNKVTPNPTVDQVDEAAKLGREFGAQAVIAIG 92 (383)
T ss_pred CEEEEEcCccHHhhc-ChHHHHHHHHHHcCCe---EEEeCCCCCCCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 589888876533221 3456667778888873 33332 211 223223333345667899999998
No 306
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=52.02 E-value=94 Score=28.35 Aligned_cols=65 Identities=11% Similarity=0.259 Sum_probs=38.3
Q ss_pred CCCCEEEEEEeeec--HHHHHHHH-HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 73 NEGLRFALVVARFN--ELVTKLLL-EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 73 ~~~lRIaIVvArfN--~~It~~Ll-eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
+...|+.|++-..- ..- .+.. +.....|+++|+. ++++..-.+-+.--.++.+. ..+||+|||+|
T Consensus 109 ~~~kr~lvIvNP~SGkg~a-~k~~~~~v~~~L~~~gi~---~~v~~T~~~ghA~~la~~~~-~~~~D~VV~vG 176 (481)
T PLN02958 109 GRPKRLLVFVNPFGGKKSA-SKIFFDVVKPLLEDADIQ---LTIQETKYQLHAKEVVRTMD-LSKYDGIVCVS 176 (481)
T ss_pred cCCcEEEEEEcCCCCCcch-hHHHHHHHHHHHHHcCCe---EEEEeccCccHHHHHHHHhh-hcCCCEEEEEc
Confidence 45678988875442 111 2333 3455688888874 44544444444444445443 35699999998
No 307
>TIGR03567 FMN_reduc_SsuE FMN reductase, SsuE family. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the homodimeric, NAD(P)H-dependent enzyme SsuE from Escherichia coli, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. It is induced by sulfate starvation. The NADH-dependent enzyme MsuE from Pseudomonas aeruginosa is outside the scope of this model (see model TIGR03566).
Probab=51.68 E-value=18 Score=27.70 Aligned_cols=40 Identities=15% Similarity=0.165 Sum_probs=23.1
Q ss_pred EEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEec
Q 032216 78 FALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVP 117 (145)
Q Consensus 78 IaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP 117 (145)
|.+|.+.-+ .-.+..|.+.+.+.+.+.|..-+.+++...|
T Consensus 2 il~I~gS~r~~S~t~~l~~~~~~~l~~~~~~~~~idl~~l~ 42 (171)
T TIGR03567 2 VLTLSGSPSTPSRSSALLRHVREALQEQGVEVDHLSVRDLP 42 (171)
T ss_pred EEEEECCCCCCChHHHHHHHHHHHHHHCCCeEEEEEecCCC
Confidence 444443332 3566677777778888777654444444444
No 308
>cd08199 EEVS 2-epi-5-epi-valiolone synthase (EEVS). 2-epi-5-epi-valiolone synthases catalyze the cyclization of sedoheptulose 7-phosphate to 2-epi-5-epi-valiolone in the biosynthesis of C(7)N-aminocyclitol-containing products. The cyclization product, 2-epi-5-epi-valiolone ((2S,3S,4S,5R)-5-(hydroxymethyl)cyclohexanon-2,3,4,5-tetrol), is a precursor of the valienamine moiety. The valienamine unit is responsible for their biological activities as various glycosidic hydrolases inhibitors. Two important microbial secondary metabolites, i.e., validamycin and acarbose, are used in agricultural and biomedical applications. Validamycine A is an antifungal antibiotic which has a strong trehalase inhibitory activity and has been used to control sheath blight disease in rice caused by Rhizoctonia solani. Acarbose is an alpha-glucosidase inhibitor used for the treatment of type II insulin-independent diabetes. Salbostatin produced by Streptomyces albus also belongs to this family. It exhibits s
Probab=51.05 E-value=1.2e+02 Score=26.35 Aligned_cols=62 Identities=18% Similarity=0.140 Sum_probs=34.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc-----cchHHHHHHHHhhcCC----CcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG-----SFEIGVVAQQLGKSGK----YTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG-----AfELPlaak~La~s~~----yDAVIaLG 142 (145)
..|+.||..+.=. +...+...+.|++.|+. +..+.+|+ .+|-=..+...+...+ +|.||++|
T Consensus 26 ~~~~lvVtd~~v~---~~~~~~v~~~l~~~g~~---~~~~v~~~~e~~~s~~~v~~~~~~l~~~~~~r~~d~IVaiG 96 (354)
T cd08199 26 SGRRFVVVDQNVD---KLYGKKLREYFAHHNIP---LTILVLRAGEAAKTMDTVLKIVDALDAFGISRRREPVLAIG 96 (354)
T ss_pred CCeEEEEECccHH---HHHHHHHHHHHHhcCCc---eEEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCCCEEEEEC
Confidence 3588787755332 23445666777777874 44444565 3333222222223333 49999998
No 309
>PRK08190 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated
Probab=50.85 E-value=73 Score=28.78 Aligned_cols=68 Identities=22% Similarity=0.190 Sum_probs=42.2
Q ss_pred CCCCCEEEEEEeeecHHHHHHHHHHHH----------------HHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCC
Q 032216 72 KNEGLRFALVVARFNELVTKLLLEGAL----------------ETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKY 135 (145)
Q Consensus 72 ~~~~lRIaIVvArfN~~It~~LleGA~----------------~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~y 135 (145)
....+|++|+.++ ++.+.+...+... +.++++|++.++++++..+-.=+-=..+-.|.+.++.
T Consensus 173 ~~~~~~~~v~~~e-d~~vl~Aa~~a~~~~~~~~iLvG~~~~I~~~~~~~g~~~~~~eIi~~~~~~~s~~~a~~lv~~G~a 251 (466)
T PRK08190 173 GLPPLRTAVVHPC-DAESLRGALEAAEAGLIEPVLVGPEAKIRAAAEEAGLDLSGVRIVDVPHSHAAAARAVALARAGEV 251 (466)
T ss_pred cCCCCceEEEcCC-CHHHHHHHHHHHHcCCeeEEEECCHHHHHHHHHHcCCCcCCCEEECCCCCHHHHHHHHHHHHCCCC
Confidence 3445689999998 7776555443221 2355667666678888776532221223346678999
Q ss_pred cEEEE
Q 032216 136 TAVLC 140 (145)
Q Consensus 136 DAVIa 140 (145)
|++|+
T Consensus 252 D~~v~ 256 (466)
T PRK08190 252 EALMK 256 (466)
T ss_pred CEEEe
Confidence 99985
No 310
>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=50.74 E-value=60 Score=26.77 Aligned_cols=64 Identities=14% Similarity=0.116 Sum_probs=45.1
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
...||+++...+ ...+.+.+++.+.|++.|+.. +...++ +|.-++--.++++. +.+.|+|+..+
T Consensus 137 ~~~~v~il~~d~--~~g~~~~~~~~~~l~~~G~~v--v~~~~~~~~~~D~s~~i~~i~-~~~~d~v~~~~ 201 (347)
T cd06336 137 GGKKVALLGPND--AYGQPWVAAYKAAWEAAGGKV--VSEEPYDPGTTDFSPIVTKLL-AEKPDVIFLGG 201 (347)
T ss_pred CCceEEEEccCC--chhHHHHHHHHHHHHHcCCEE--eeecccCCCCcchHHHHHHHH-hcCCCEEEEcC
Confidence 456999999753 467889999999999999752 233333 45666666677775 45789987654
No 311
>PRK07855 lipid-transfer protein; Provisional
Probab=50.38 E-value=41 Score=29.47 Aligned_cols=41 Identities=15% Similarity=0.041 Sum_probs=22.6
Q ss_pred HHCCCCCCCeEEEEecccchHHH----HHHHHhhcCCCcEEEEeee
Q 032216 102 KKYSVKEENIDVVWVPGSFEIGV----VAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 102 ~~~Gv~~e~I~vv~VPGAfELPl----aak~La~s~~yDAVIaLG~ 143 (145)
...|+.. .....+|+..-.=+. .+-...+++.+|.++++|.
T Consensus 64 ~~lGl~~-~~~~~~v~~gg~sg~~~~~~A~~~I~sG~~d~vLv~g~ 108 (386)
T PRK07855 64 RALGIGE-LKFFSRIHYGGGAACATVQQAAMAVATGVADVVVCYRA 108 (386)
T ss_pred HHCCCCC-CcceeeecCCcHHHHHHHHHHHHHHHCCCCCEEEEEee
Confidence 3446542 123345554444332 2333456899999999886
No 312
>TIGR01991 HscA Fe-S protein assembly chaperone HscA. The Heat Shock Cognate proteins HscA and HscB act together as chaperones. HscA resembles DnaK but belongs in a separate clade. The apparent function is to aid assembly of iron-sulfur cluster proteins. Homologs from Buchnera and Wolbachia are clearly in the same clade but are highly derived and score lower than some examples of DnaK.
Probab=50.38 E-value=10 Score=35.11 Aligned_cols=57 Identities=21% Similarity=0.262 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCe-EEEEecccchHHHHHHHHhh--------cCCCcEEEEeeee
Q 032216 88 LVTKLLLEGALETFKKYSVKEENI-DVVWVPGSFEIGVVAQQLGK--------SGKYTAVLCIGAV 144 (145)
Q Consensus 88 ~It~~LleGA~~~L~~~Gv~~e~I-~vv~VPGAfELPlaak~La~--------s~~yDAVIaLG~V 144 (145)
.+.+++.+-..+.|++.|+..++| .++-|=|+--+|.+-+.+.+ .-+.|-.||.||.
T Consensus 290 ~ll~~i~~~i~~~L~~a~~~~~~id~ViLvGGssriP~V~~~l~~~f~~~~~~~~npdeaVA~GAa 355 (599)
T TIGR01991 290 PLVQKTLSICRRALRDAGLSVEEIKGVVLVGGSTRMPLVRRAVAELFGQEPLTDIDPDQVVALGAA 355 (599)
T ss_pred HHHHHHHHHHHHHHHHcCCChhhCCEEEEECCcCCChHHHHHHHHHhCCCCCCCCCCcHHHHHHHH
Confidence 344455556667888889887777 46789999999999888753 2357888888874
No 313
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=50.27 E-value=21 Score=28.04 Aligned_cols=47 Identities=17% Similarity=0.196 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 89 VTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 89 It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
+.+.|++-|.+.+++.|+. +++.++.-.+.-.+| ..+.||+|++-++
T Consensus 105 ~~~~~~~~a~~~l~~~~~~-~~v~~~~~d~~~~~~-------~~~~fD~Ii~~~~ 151 (205)
T PRK13944 105 IVKELAIYAAQNIERLGYW-GVVEVYHGDGKRGLE-------KHAPFDAIIVTAA 151 (205)
T ss_pred CCHHHHHHHHHHHHHcCCC-CcEEEEECCcccCCc-------cCCCccEEEEccC
Confidence 3445788888899888874 346666545442222 1358999987654
No 314
>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=50.18 E-value=90 Score=24.93 Aligned_cols=63 Identities=13% Similarity=0.112 Sum_probs=43.1
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||+++.... ...+.+.+...+.+++.|+. -.....+ ||.-+.--.++++. ..+.|+||..|
T Consensus 135 ~~~v~~v~~~~--~~g~~~~~~~~~~~~~~g~~--v~~~~~~~~~~~d~~~~l~~i~-~~~~~~vi~~~ 198 (334)
T cd06342 135 AKKVAIIDDKT--AYGQGLADEFKKALKAAGGK--VVAREGTTDGATDFSAILTKIK-AANPDAVFFGG 198 (334)
T ss_pred CCEEEEEeCCc--chhhHHHHHHHHHHHHcCCE--EEEEecCCCCCccHHHHHHHHH-hcCCCEEEEcC
Confidence 45899998764 45667778888888988874 2223333 47777777777764 35788887654
No 315
>COG0521 MoaB Molybdopterin biosynthesis enzymes [Coenzyme metabolism]
Probab=50.17 E-value=53 Score=26.61 Aligned_cols=65 Identities=22% Similarity=0.115 Sum_probs=45.0
Q ss_pred CCEEEEEE---eeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVV---ARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVv---ArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG 142 (145)
..|++||. .||+.+-.|.--.-..+.|++.|... ++..-||=-+| |=..+..++... +|+|+..|
T Consensus 7 ~~~~~VvTVSd~r~~~~~~D~sG~~l~~~L~~ag~~~--~~~~iV~D~~~~I~~~l~~~~~~~-~DvvlttG 75 (169)
T COG0521 7 PLRIAVVTVSDRRSTGEYEDKSGPLLVELLEEAGHNV--AAYTIVPDDKEQIRATLIALIDED-VDVVLTTG 75 (169)
T ss_pred ceeEEEEEEecccccCCccccchhHHHHHHHHcCCcc--ceEEEeCCCHHHHHHHHHHHhcCC-CCEEEEcC
Confidence 46777775 45555543555566678888888853 57777888877 445556666666 99999887
No 316
>PRK13337 putative lipid kinase; Reviewed
Probab=50.12 E-value=66 Score=26.75 Aligned_cols=46 Identities=15% Similarity=0.215 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 93 LLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 93 LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..+.....|+++|.+ .+++.....-+....++++++ .++|.||+.|
T Consensus 20 ~~~~~~~~l~~~~~~---~~~~~t~~~~~a~~~a~~~~~-~~~d~vvv~G 65 (304)
T PRK13337 20 NLPDVLQKLEQAGYE---TSAHATTGPGDATLAAERAVE-RKFDLVIAAG 65 (304)
T ss_pred HHHHHHHHHHHcCCE---EEEEEecCCCCHHHHHHHHHh-cCCCEEEEEc
Confidence 344556678888873 667777777888888887764 4589999987
No 317
>PF13685 Fe-ADH_2: Iron-containing alcohol dehydrogenase; PDB: 3CE9_C.
Probab=49.91 E-value=31 Score=29.00 Aligned_cols=63 Identities=13% Similarity=0.110 Sum_probs=31.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHHHHHHHH--hhcCCCcEEEEeee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIGVVAQQL--GKSGKYTAVLCIGA 143 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELPlaak~L--a~s~~yDAVIaLG~ 143 (145)
..|+.+|..+-=..+ .-+.-.+.|++.|+. +.++. +++.-+.--+.+.. ++..++|.||++|-
T Consensus 19 ~~~~lvv~d~~t~~~---~g~~v~~~l~~~g~~---v~~~~~~~~~~~~~~~~~~~~~~~~~~~d~ii~vGg 84 (250)
T PF13685_consen 19 LKKVLVVTDENTYKA---AGEKVEESLKSAGIE---VAVIEEFVGDADEDEVEKLVEALRPKDADLIIGVGG 84 (250)
T ss_dssp -SEEEEEEETTHHHH---HHHHHHHHHHTTT-E---EEEEE-EE---BHHHHHHHHTTS--TT--EEEEEES
T ss_pred CCcEEEEEcCCHHHH---HHHHHHHHHHHcCCe---EEEEecCCCCCCHHHHHHHHHHhcccCCCEEEEeCC
Confidence 358888887764443 334555668888874 33332 33333444443332 23468999999983
No 318
>TIGR03702 lip_kinase_YegS lipid kinase YegS. Members of this protein family are designated YegS, an apparent lipid kinase family in the Proteobacteria. Bakali, et al. report phosphatidylglycerol kinase activity for the member from Escherichia coli, but refrain from calling that activity synonymous with its biological role. Note that a broader, subfamily-type model (TIGR00147), includes this family but also multiple paralogs in some species and varied functions.
Probab=48.84 E-value=74 Score=26.32 Aligned_cols=45 Identities=9% Similarity=0.011 Sum_probs=28.8
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
....++.|+++|++ ++++.....-+.-..++++++ .++|.||+.|
T Consensus 16 ~~~~~~~l~~~g~~---~~v~~t~~~~~a~~~a~~~~~-~~~d~vv~~G 60 (293)
T TIGR03702 16 VREAVGDLRDEGIQ---LHVRVTWEKGDAQRYVAEALA-LGVSTVIAGG 60 (293)
T ss_pred HHHHHHHHHHCCCe---EEEEEecCCCCHHHHHHHHHH-cCCCEEEEEc
Confidence 34456678888874 555555444455556666654 4589999987
No 319
>TIGR00623 sula cell division inhibitor SulA. All proteins in this family for which the functions are known are cell division inhibitors. In E. coli, SulA is one of the SOS regulated genes.
Probab=48.62 E-value=43 Score=27.16 Aligned_cols=57 Identities=7% Similarity=-0.017 Sum_probs=40.5
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+..+..|...+-. ....|...|++.+++-.+...-..+-=.++.+.+++|.|.+|++
T Consensus 60 ~Rwlv~IaPP~~~---------~~~~L~~~Gl~l~rvlli~~~~~~d~lwa~EQaLrSG~c~aVL~ 116 (168)
T TIGR00623 60 SRWQLWLTPQQKL---------SKEWVQSSGLPLTKVMQISQLSPCNTVESMIRALRTGNYSVVIG 116 (168)
T ss_pred CceEEEECCCCcc---------CHHHHHHcCCChhHEEEEecCCchhHHHHHHHHHHhCCCcEEEe
Confidence 4456666655541 24567888998888877766555555578888889999999987
No 320
>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=48.62 E-value=1.1e+02 Score=26.04 Aligned_cols=64 Identities=6% Similarity=-0.078 Sum_probs=41.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-ccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-GSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-GAfELPlaak~La~s~~yDAVIaLG 142 (145)
-.||+||... .+......++..+.|++.|+. ...+..+| +.-++=-.+++|-+.++.|.||.++
T Consensus 132 w~~vaii~~~--~~~~~~~~~~l~~~l~~~gi~--v~~~~~~~~~~~d~~~~L~~lk~~~~~~viv~~~ 196 (382)
T cd06371 132 WAHVAIVSSP--QDIWVETAQKLASALRAHGLP--VGLVTSMGPDEKGAREALKKVRSADRVRVVIMCM 196 (382)
T ss_pred CeEEEEEEec--ccchHHHHHHHHHHHHHCCCc--EEEEEEecCCHHHHHHHHHHHhcCCCcEEEEEEe
Confidence 3589999643 222334667777888888874 12223444 7766666777776556689888765
No 321
>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=48.60 E-value=88 Score=25.76 Aligned_cols=62 Identities=13% Similarity=0.066 Sum_probs=44.2
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+++|.. +....+.+.+...+.+++.|+. -+....+ +|.-+.--.++++. ..+.|+|+..+
T Consensus 145 ~~v~~l~~--~~~~g~~~~~~~~~~~~~~G~~--vv~~~~~~~~~~d~~~~i~~l~-~~~~d~v~~~~ 207 (347)
T cd06340 145 KTVALVHE--DTEFGTSVAEAIKKFAKERGFE--IVEDISYPANARDLTSEVLKLK-AANPDAILPAS 207 (347)
T ss_pred ceEEEEec--CchHhHHHHHHHHHHHHHcCCE--EEEeeccCCCCcchHHHHHHHH-hcCCCEEEEcc
Confidence 68999986 4566777888899999999974 2233334 46677777777774 45789887654
No 322
>PTZ00400 DnaK-type molecular chaperone; Provisional
Probab=48.52 E-value=27 Score=32.89 Aligned_cols=55 Identities=24% Similarity=0.347 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHCCCCCCCe-EEEEecccchHHHHHHHHhh--------cCCCcEEEEeeeeC
Q 032216 91 KLLLEGALETFKKYSVKEENI-DVVWVPGSFEIGVVAQQLGK--------SGKYTAVLCIGAVV 145 (145)
Q Consensus 91 ~~LleGA~~~L~~~Gv~~e~I-~vv~VPGAfELPlaak~La~--------s~~yDAVIaLG~VI 145 (145)
+++.+-+.+.|++.|+..++| .++-|=|+-.+|.+-+.+.+ .-+.|-.||.||-|
T Consensus 348 ~~~~~~i~~~L~~a~~~~~~i~~ViLvGGssriP~v~~~l~~~f~~~~~~~~npdeaVA~GAAi 411 (663)
T PTZ00400 348 KKTIEPCEKCIKDAGVKKDELNDVILVGGMTRMPKVSETVKKIFGKEPSKGVNPDEAVAMGAAI 411 (663)
T ss_pred HHHHHHHHHHHHHcCCCHHHCcEEEEECCccCChHHHHHHHHHhCCCcccCCCCccceeeccHH
Confidence 334445567788888876554 46788999999999887753 23689999999854
No 323
>PRK07449 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase; Validated
Probab=48.27 E-value=49 Score=29.87 Aligned_cols=49 Identities=22% Similarity=0.287 Sum_probs=33.9
Q ss_pred eeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 83 ARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 83 ArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+.|+..+.+ .-.+.|+++|+. .++-+||.+.+|+.-.. .+..+.+-|.|
T Consensus 5 ~~~~~~~a~----~l~~~L~~~GV~----~vFgvpG~~~~~l~~~l-~~~~~i~~v~~ 53 (568)
T PRK07449 5 SNFNTLWAA----VILEELTRLGVR----HVVIAPGSRSTPLTLAA-AEHPRLRLHTH 53 (568)
T ss_pred ccHHHHHHH----HHHHHHHHcCCC----EEEECCCCccHHHHHHH-HhCCCcEEEee
Confidence 345555444 446789999997 78999999999987554 33344565554
No 324
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=48.15 E-value=44 Score=30.25 Aligned_cols=42 Identities=19% Similarity=0.362 Sum_probs=30.7
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+.-.+.|+++|+. .++-+||..++|+.-. |.++.+..-|.|
T Consensus 11 ~~~l~~~L~~~GV~----~vFg~pG~~~~~l~~a-l~~~~~i~~v~~ 52 (557)
T PRK08199 11 GQILVDALRANGVE----RVFCVPGESYLAVLDA-LHDETDIRVIVC 52 (557)
T ss_pred HHHHHHHHHHcCCC----EEEeCCCcchhHHHHH-hhccCCCcEEEe
Confidence 35567889999997 8899999999998544 444434555554
No 325
>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=48.09 E-value=57 Score=29.42 Aligned_cols=65 Identities=9% Similarity=0.042 Sum_probs=41.6
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
-.+|++|.. ++...+...+...+.+++.|+.-...+.+. .++.-++.-++++| +..+.|+||..+
T Consensus 187 wk~VaiI~~--dd~yG~~~~~~~~~~~~~~Gi~I~~~~~i~~~~~~~d~~~~l~kl-k~~~a~vVvl~~ 252 (510)
T cd06364 187 WNWVGTIAA--DDDYGRPGIEKFREEAEERDICIDFSELISQYSDEEEIQRVVEVI-QNSTAKVIVVFS 252 (510)
T ss_pred CeEEEEEEe--cCcchHHHHHHHHHHHHHCCcEEEEEEEeCCCCCHHHHHHHHHHH-HhcCCeEEEEEe
Confidence 358999976 444566778888889999997411111111 13555666666666 346789988765
No 326
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=47.11 E-value=1e+02 Score=24.66 Aligned_cols=61 Identities=16% Similarity=0.071 Sum_probs=39.4
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhh-cCCCcEEE
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGK-SGKYTAVL 139 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~-s~~yDAVI 139 (145)
..||+++...-+......-.+|..+.|+++|+. +.. .++|.++.-- +++.+++ ..++|+|+
T Consensus 125 ~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~---~~~-~~~~~~~~~~~~~~~~~~L~~~~~~d~i~ 189 (295)
T TIGR02955 125 PTTLAWLPGPKNRGGTKPVTQGFRAALEGSDVE---ISA-ILWADNDKELQRNLLQDLLKKHPDIDYLV 189 (295)
T ss_pred CeeEEEEeCCCcCCchhHHHHHHHHHHhcCCcE---EEE-EecCCCcHHHHHHHHHHHHHhCCCcCEEE
Confidence 458999987766555666679999999998874 222 2455554332 3345554 45689864
No 327
>PLN02470 acetolactate synthase
Probab=47.10 E-value=32 Score=31.43 Aligned_cols=53 Identities=23% Similarity=0.307 Sum_probs=35.5
Q ss_pred eeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 83 ARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 83 ArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
++|+..-....-+.-.+.|+++|++ .++-+||...+|+.-. |.++.+..-|.|
T Consensus 5 ~~~~~~~~~~~a~~l~~~L~~~GV~----~vFg~pG~~~~~l~da-l~~~~~i~~i~~ 57 (585)
T PLN02470 5 SRFAPDEPRKGADILVEALEREGVD----TVFAYPGGASMEIHQA-LTRSNCIRNVLC 57 (585)
T ss_pred cCCCCCccccHHHHHHHHHHHcCCC----EEEEcCCcccHHHHHH-HhccCCceEEEe
Confidence 4555443334457778999999997 8999999999998643 333334444443
No 328
>PRK13194 pyrrolidone-carboxylate peptidase; Provisional
Probab=47.00 E-value=48 Score=27.16 Aligned_cols=40 Identities=13% Similarity=0.066 Sum_probs=26.2
Q ss_pred CCCCCCCeEEEEecccchH-HHHHHHHhhcCCCcEEEEeee
Q 032216 104 YSVKEENIDVVWVPGSFEI-GVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 104 ~Gv~~e~I~vv~VPGAfEL-Plaak~La~s~~yDAVIaLG~ 143 (145)
..+....+.....|-+|+- .-.+..+.++.++|+||++|.
T Consensus 29 ~~~~~~~v~~~~LPV~~~~~~~~l~~~l~~~~Pd~vlhlG~ 69 (208)
T PRK13194 29 KKIGDAKVFGRVLPVSFKRAREELEKVLDEIKPDITINLGL 69 (208)
T ss_pred cccCCcEEEEEEeCCchHhHHHHHHHHHHHhCCCEEEEeec
Confidence 3333335666778888875 333444555668999999995
No 329
>PRK02155 ppnK NAD(+)/NADH kinase family protein; Provisional
Probab=46.64 E-value=70 Score=27.26 Aligned_cols=31 Identities=19% Similarity=0.159 Sum_probs=22.2
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCC
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVK 107 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~ 107 (145)
.+|+|| .+.+..-...+++...+.|+++|+.
T Consensus 6 ~~v~iv-~~~~~~~~~e~~~~i~~~L~~~g~~ 36 (291)
T PRK02155 6 KTVALI-GRYQTPGIAEPLESLAAFLAKRGFE 36 (291)
T ss_pred CEEEEE-ecCCCHHHHHHHHHHHHHHHHCCCE
Confidence 358888 4555555555778888899999974
No 330
>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=46.58 E-value=1.2e+02 Score=24.62 Aligned_cols=63 Identities=16% Similarity=0.176 Sum_probs=41.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||+++.. +....+.+.+...+.+++.|.. -+...++ |+.-+.=-.++++. ..+.|+|+..|
T Consensus 132 ~~~v~il~~--d~~~g~~~~~~~~~~~~~~G~~--vv~~~~~~~~~~d~~~~v~~~~-~~~~d~v~~~~ 195 (333)
T cd06331 132 GKRFYLIGS--DYVWPRESNRIARALLEELGGE--VVGEEYLPLGTSDFGSVIEKIK-AAGPDVVLSTL 195 (333)
T ss_pred CCeEEEECC--CchhHHHHHHHHHHHHHHcCCE--EEEEEEecCCcccHHHHHHHHH-HcCCCEEEEec
Confidence 468999964 5567777889999999999974 2223333 46656544444443 45789988765
No 331
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=46.42 E-value=43 Score=28.23 Aligned_cols=45 Identities=24% Similarity=0.375 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 89 VTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 89 It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
++..+.+-+.+.|+..|+. ++..| +|-=..+..|++.+..|+|+.
T Consensus 125 ~~~~~~~~~~~lL~~~gi~-----~i~ap--~EAdaq~a~l~~~g~v~~i~S 169 (316)
T cd00128 125 VTPQMIEEAKELLRLMGIP-----YIVAP--YEAEAQCAYLAKKGLVDAIIT 169 (316)
T ss_pred CCHHHHHHHHHHHHHcCCC-----EEECC--cCHHHHHHHHHhCCCeeEEEe
Confidence 5567888999999999974 56678 477777778888887888775
No 332
>PRK04155 chaperone protein HchA; Provisional
Probab=46.33 E-value=20 Score=30.72 Aligned_cols=41 Identities=20% Similarity=0.212 Sum_probs=26.1
Q ss_pred CCEEEEEEeeecHHHH--HH-------HHH--HHHHHHHHCCCCCCCeEEEEecc
Q 032216 75 GLRFALVVARFNELVT--KL-------LLE--GALETFKKYSVKEENIDVVWVPG 118 (145)
Q Consensus 75 ~lRIaIVvArfN~~It--~~-------Lle--GA~~~L~~~Gv~~e~I~vv~VPG 118 (145)
++||+||++..+..-. .. ..| .-.+.|++.|+. ++++..=|
T Consensus 49 ~kkiL~v~t~~~~~~~~~g~~~~tG~~~~E~~~P~~~L~~AG~e---VdiAS~~G 100 (287)
T PRK04155 49 GKKILMIAADERYLPMDNGKLFSTGNHPVETLLPMYHLHKAGFE---FDVATLSG 100 (287)
T ss_pred CCeEEEEEcCcccccCCCCCcCCCCccHHHHHHHHHHHHHCCCE---EEEEecCC
Confidence 4499999997654310 01 122 347899999984 77777644
No 333
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=46.11 E-value=58 Score=25.11 Aligned_cols=64 Identities=8% Similarity=0.023 Sum_probs=37.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s-~~yDAVIaLG 142 (145)
..||+++.++-.. ....-++|..+.++++|...... +.+-..+ .--++++++++ .++|||+|.+
T Consensus 115 ~~~i~~~~~~~~~-~~~~R~~gf~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 180 (263)
T cd06280 115 YRRIGGLFGNAST-TGAERRAGYEDAMRRHGLAPDAR---FVAPTAEAAEAALAAWLAAPERPEALVASN 180 (263)
T ss_pred CceEEEEeCCCCC-CHHHHHHHHHHHHHHcCCCCChh---hcccCHHHHHHHHHHHhcCCCCCcEEEECC
Confidence 4589998775333 23345699999999999863321 1211111 11234455544 4789999864
No 334
>PRK13410 molecular chaperone DnaK; Provisional
Probab=45.64 E-value=17 Score=34.34 Aligned_cols=61 Identities=28% Similarity=0.363 Sum_probs=42.3
Q ss_pred eeecHHHHHHHHHHH----HHHHHHCCCCCCCeE-EEEecccchHHHHHHHHhh--------cCCCcEEEEeeee
Q 032216 83 ARFNELVTKLLLEGA----LETFKKYSVKEENID-VVWVPGSFEIGVVAQQLGK--------SGKYTAVLCIGAV 144 (145)
Q Consensus 83 ArfN~~It~~LleGA----~~~L~~~Gv~~e~I~-vv~VPGAfELPlaak~La~--------s~~yDAVIaLG~V 144 (145)
++|. .+++.|++.+ .+.|++.|+..++|+ ++-|=|+--||.+-+.+.+ +-+.|-.||+||-
T Consensus 298 ~~FE-~l~~~l~~r~~~~i~~~L~~ag~~~~dId~VvLVGGssRiP~V~~~l~~~fg~~~~~~~npdeaVA~GAA 371 (668)
T PRK13410 298 KQFE-SLCGDLLDRLLRPVKRALKDAGLSPEDIDEVVLVGGSTRMPMVQQLVRTLIPREPNQNVNPDEVVAVGAA 371 (668)
T ss_pred HHHH-HHHHHHHHHHHHHHHHHHHHcCCChhhCcEEEEECCccccHHHHHHHHHHcCCCcccCCCCchHHHHhHH
Confidence 4443 3444455554 577778888766665 7789999999999887753 2357878888874
No 335
>cd08184 Fe-ADH3 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and is belonged to the iron-containing alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron or zinc ions. Members of this family are mainly found in bacteria.
Probab=45.55 E-value=46 Score=28.95 Aligned_cols=57 Identities=12% Similarity=-0.056 Sum_probs=31.3
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE-EecccchHHH--HHHHHhhcC---CCcEEEEee
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV-WVPGSFEIGV--VAQQLGKSG---KYTAVLCIG 142 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv-~VPGAfELPl--aak~La~s~---~yDAVIaLG 142 (145)
++.||..++-.. ++..+.|++.|+. ..++ .|++-=.+-. .+.++++.. ++|.||++|
T Consensus 27 ~~lvvtd~~~~~------~~v~~~L~~~g~~---~~~f~~v~~nPt~~~v~~~~~~~~~~~~~~~D~IIaiG 89 (347)
T cd08184 27 PAVFFVDDVFQG------KDLISRLPVESED---MIIWVDATEEPKTDQIDALTAQVKSFDGKLPCAIVGIG 89 (347)
T ss_pred eEEEEECcchhh------hHHHHHHHhcCCc---EEEEcCCCCCcCHHHHHHHHHHHHhhCCCCCCEEEEeC
Confidence 565655443322 4556778877764 3343 2444333322 222344544 899999998
No 336
>cd04387 RhoGAP_Bcr RhoGAP_Bcr: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of Bcr (breakpoint cluster region protein)-like proteins. Bcr is a multidomain protein with a variety of enzymatic functions. It contains a RhoGAP and a Rho GEF domain, a Ser/Thr kinase domain, an N-terminal oligomerization domain, and a C-terminal PDZ binding domain, in addition to PH and C2 domains. Bcr is a negative regulator of: i) RacGTPase, via the Rho GAP domain, ii) the Ras-Raf-MEK-ERK pathway, via phosphorylation of the Ras binding protein AF-6, and iii) the Wnt signaling pathway through binding beta-catenin. Bcr can form a complex with beta-catenin and Tcf1. The Wnt signaling pathway is involved in cell proliferation, differentiation, and cell renewal. Bcr was discovered as a fusion partner of Abl. The Bcr-Abl fusion is characteristic for a large majority of chronic myelogenous leukemias (CML). Small GTPases cluster into distinct families, and all act as molecular switch
Probab=45.44 E-value=57 Score=26.05 Aligned_cols=43 Identities=7% Similarity=0.074 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCc
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYT 136 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yD 136 (145)
..+..|++.++++|...| -++++||+-.-=-.++...+++..|
T Consensus 18 ~iv~~ci~~l~~~gl~~E--GIFR~sG~~~~i~~l~~~~d~~~~~ 60 (196)
T cd04387 18 YIVRQCVEEVERRGMEEV--GIYRISGVATDIQALKAAFDTNNKD 60 (196)
T ss_pred hHHHHHHHHHHHhCCCCC--ceEEeCCcHHHHHHHHHHHhCCCcc
Confidence 356778888999998765 4588999875444444444444433
No 337
>COG0594 RnpA RNase P protein component [Translation, ribosomal structure and biogenesis]
Probab=45.35 E-value=72 Score=23.81 Aligned_cols=52 Identities=17% Similarity=0.122 Sum_probs=37.5
Q ss_pred CCCCEEEEEEee-ecH-----HHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH
Q 032216 73 NEGLRFALVVAR-FNE-----LVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV 125 (145)
Q Consensus 73 ~~~lRIaIVvAr-fN~-----~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla 125 (145)
....||||++|+ ... .-+.+++..+... ..+.....|+.++-=||+.|+++.
T Consensus 38 ~~~~RiGlsVsKkk~g~AV~RNRiKR~iRe~~r~-~~~~~~~~d~Viiar~~~~~~~~~ 95 (117)
T COG0594 38 LDHPRIGLTVSKKKVGNAVERNRIKRLIREAFRL-LQHLLPGFDIVIIARKGFLELDFS 95 (117)
T ss_pred CCCceEEEEEEchhccchhhHHHHHHHHHHHHHh-hhhhCCCceEEEEECCCCCCCCHH
Confidence 456799999999 543 3444555555555 335566788999999999998876
No 338
>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=45.14 E-value=89 Score=26.12 Aligned_cols=65 Identities=12% Similarity=0.075 Sum_probs=42.6
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCC--CCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKE--ENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~--e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
-.||+||.. +++.-+.+++...+.+++.|+.- +-.....+ ||.-+.--.++++. ..+.|.||..+
T Consensus 154 w~~vaii~~--~~~~g~~~~~~~~~~~~~~g~~~~~~v~~~~~~~~~~~d~~~~l~~ik-~~~~~vIvl~~ 221 (377)
T cd06379 154 WNKVILLVS--DDHEGRAAQKRFETLLEEREIEFKIKVEKVVEFEPGEKNVTSLLQEAK-ELTSRVILLSA 221 (377)
T ss_pred CeEEEEEEE--cCcchhHHHHHHHHHHHhcCCccceeeeEEEecCCchhhHHHHHHHHh-hcCCeEEEEEc
Confidence 468999976 34445667888899999999731 01112223 57666767777764 46788888654
No 339
>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=45.12 E-value=1.4e+02 Score=22.98 Aligned_cols=64 Identities=19% Similarity=0.050 Sum_probs=37.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHC-CCCCCCeEEEEecccchHH---HHHHHHhh-cCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKY-SVKEENIDVVWVPGSFEIG---VVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~-Gv~~e~I~vv~VPGAfELP---laak~La~-s~~yDAVIaLG 142 (145)
..||+++...-+.. ...-.+|+.+.++++ ++. +......+.++.- -+++++++ ..+.|||+|..
T Consensus 121 ~~~i~~i~g~~~~~-~~~R~~g~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 189 (271)
T cd06321 121 KGNVAILNGPPVSA-VLDRVAGCKAALAKYPGIK---LLSDDQNGKGSRDGGLRVMQGLLTRFPKLDGVFAIN 189 (271)
T ss_pred CceEEEEeCCCCch-HHHHHHHHHHHHHhCCCcE---EEeeecCCCCChhhHHHHHHHHHHhCCCCCEEEECC
Confidence 35999997754333 344569999999998 452 1111234433321 13344443 45799999853
No 340
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=45.01 E-value=78 Score=25.63 Aligned_cols=65 Identities=15% Similarity=0.052 Sum_probs=37.4
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH---HHHHHHhhc-CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG---VVAQQLGKS-GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP---laak~La~s-~~yDAVIaLG 142 (145)
..||+++...-+....+.-.+|..+.++.+|+..+. .++. |.|+.. -.+++++++ .++|||+|.+
T Consensus 174 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~g~~~~~-~~~~--~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 242 (327)
T PRK10339 174 VNRIGFIGGEDEPGKADIREVAFAEYGRLKQVVREE-DIWR--GGFSSSSGYELAKQMLAREDYPKALFVAS 242 (327)
T ss_pred CCeEEEeCCccccchhhHHHHHHHHHHHHcCCCChh-heee--cCcChhHHHHHHHHHHhCCCCCCEEEECC
Confidence 459999976433223333457888999999873221 1222 333322 234455543 4689999864
No 341
>PRK09417 mogA molybdenum cofactor biosynthesis protein MogA; Provisional
Probab=44.48 E-value=77 Score=25.68 Aligned_cols=69 Identities=16% Similarity=0.104 Sum_probs=38.6
Q ss_pred CCEEEEEEe-e--ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEeee
Q 032216 75 GLRFALVVA-R--FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 75 ~lRIaIVvA-r--fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG~ 143 (145)
.+|++|+.. . +...+.|.--....+.|++.|.....+....||=-.| |=-+++.++++.++|.||+-|-
T Consensus 3 ~~~~aIItvSd~~~~G~i~D~ng~~L~~~L~~~G~~g~~v~~~iVpDd~~~I~~aL~~a~~~~~~DlIITTGG 75 (193)
T PRK09417 3 TLKIGLVSISDRASSGVYEDKGIPALEEWLASALTSPFEIETRLIPDEQDLIEQTLIELVDEMGCDLVLTTGG 75 (193)
T ss_pred CcEEEEEEEcCcCCCCceeechHHHHHHHHHHcCCCCceEEEEECCCCHHHHHHHHHHHhhcCCCCEEEECCC
Confidence 468888742 2 3333444433344555677765322233456776555 3444555555568999999874
No 342
>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=44.40 E-value=84 Score=25.00 Aligned_cols=61 Identities=18% Similarity=0.139 Sum_probs=40.2
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||+++.. |....+.+.++..+.++ |.- .-+....+|..+.--.++++. ..+.|+|++.+
T Consensus 134 ~~~v~il~~--~~~~~~~~~~~~~~~~~--~~~--~~~~~~~~~~~d~~~~i~~l~-~~~~d~i~~~~ 194 (333)
T cd06332 134 YKKVVIIAP--DYAAGKDAVAGFKRTFK--GEV--VEEVYTPLGQLDFSAELAQIR-AAKPDAVFVFL 194 (333)
T ss_pred CceEEEEec--CcchhHHHHHHHHHhhc--EEE--eeEEecCCCCcchHHHHHHHH-hcCCCEEEEec
Confidence 458999974 44567778888888887 311 112233467777666777765 45789999864
No 343
>PRK08155 acetolactate synthase catalytic subunit; Validated
Probab=44.21 E-value=55 Score=29.66 Aligned_cols=42 Identities=17% Similarity=0.270 Sum_probs=30.5
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+.-.+.|+++|++ .++-+||..++|+. ..|.++.+..-|.+
T Consensus 16 ~~~l~~~L~~~GV~----~vFgvpG~~~~~l~-dal~~~~~i~~i~~ 57 (564)
T PRK08155 16 AELIVRLLERQGIR----IVTGIPGGAILPLY-DALSQSTQIRHILA 57 (564)
T ss_pred HHHHHHHHHHcCCC----EEEeCCCcccHHHH-HHHhccCCceEEEe
Confidence 45667889999997 78999999999985 44544444544443
No 344
>PF13379 NMT1_2: NMT1-like family; PDB: 2G29_A 3UN6_A 2I4C_A 2I49_A 2I4B_A 2I48_A 3QSL_A.
Probab=43.89 E-value=65 Score=25.54 Aligned_cols=56 Identities=18% Similarity=0.312 Sum_probs=32.3
Q ss_pred CCCEEEE-EEeeecHHHHHHHHHHHHHHHHHCCCCC-CCeEEEEecccchHHHHHHHHhhcCCCcEEEEe
Q 032216 74 EGLRFAL-VVARFNELVTKLLLEGALETFKKYSVKE-ENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCI 141 (145)
Q Consensus 74 ~~lRIaI-VvArfN~~It~~LleGA~~~L~~~Gv~~-e~I~vv~VPGAfELPlaak~La~s~~yDAVIaL 141 (145)
++.||++ ..+.-++.+ ....|+++|+++ ++++++.+|. |-+++.| ++++.||+++.
T Consensus 120 kGk~i~~~~~gs~~~~~-------l~~~l~~~Gl~~~~dv~~~~~~~----~~~~~al-~~g~iDa~~~~ 177 (252)
T PF13379_consen 120 KGKKIAVPFPGSTHDML-------LRYLLKKAGLDPKDDVTLVNVPP----PEMVAAL-RAGEIDAAVLW 177 (252)
T ss_dssp STEEEEESSTTSHHHHH-------HHHHHHHTT--TTTSSEEEE--G----HHHHHHH-HTTS-SEEEEE
T ss_pred CCcEEEEcCCCCHHHHH-------HHHHHHhCCCCcccceEEEecCH----HHHHHHH-hCCCcCEEEec
Confidence 6778877 333333332 234577899998 8999999988 3333333 46899998763
No 345
>cd06437 CESA_CaSu_A2 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex. Cellulose synthase (CESA) catalyzes the polymerization reaction of cellulose using UDP-glucose as the substrate. Cellulose is an aggregate of unbranched polymers of beta-1,4-linked glucose residues, which is an abundant polysaccharide produced by plants and in varying degrees by several other organisms including algae, bacteria, fungi, and even some animals. Genomes from higher plants harbor multiple CESA genes. There are ten in Arabidopsis. At least three different CESA proteins are required to form a functional complex. In Arabidopsis, CESA1, 3 and 6 and CESA4, 7 and 8, are required for cellulose biosynthesis during primary and secondary cell wall formation. CESA2 is very closely related to CESA6 and is viewed as a prime substitute for CESA6. They functionally compensate each other. The cesa2 and cesa6 double mutant plants we
Probab=43.84 E-value=68 Score=24.52 Aligned_cols=27 Identities=19% Similarity=0.219 Sum_probs=14.4
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCC
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSV 106 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv 106 (145)
+|.||..-||+. ..++.|++.+.+...
T Consensus 2 ~vSViIp~yNe~---~~l~~~L~sl~~q~~ 28 (232)
T cd06437 2 MVTVQLPVFNEK---YVVERLIEAACALDY 28 (232)
T ss_pred ceEEEEecCCcH---HHHHHHHHHHHhcCC
Confidence 355666666654 445555555555433
No 346
>PRK09107 acetolactate synthase 3 catalytic subunit; Validated
Probab=43.77 E-value=61 Score=29.89 Aligned_cols=42 Identities=14% Similarity=0.258 Sum_probs=31.3
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+.-.+.|+++|++ .++-+||..++|+. +.|.+..+.+-|.|
T Consensus 14 a~~l~~~L~~~GV~----~vFGvpG~~~~~l~-dal~~~~~i~~I~~ 55 (595)
T PRK09107 14 AEMVVQALKDQGVE----HIFGYPGGAVLPIY-DEIFQQDDIQHILV 55 (595)
T ss_pred HHHHHHHHHHCCCC----EEEEccCcchHHHH-HHHhhcCCCeEEEE
Confidence 46667899999997 78999999999984 44544445665554
No 347
>TIGR00504 pyro_pdase pyroglutamyl-peptidase I. Alternate names include pyroglutamate aminopeptidase, pyrrolidone-carboxylate peptidase, and 5-oxoprolyl-peptidase. It removes pyroglutamate (pyrrolidone-carboxylate, a modified glutamine) that can otherwise block hydrolysis of a polypeptide at the amino end, and so can be extremely useful in the biochemical studies of proteins. The biological role in the various species in which it is found is not fully understood. The enzyme appears to be a homodimer. It does not closely resemble any other peptidases.
Probab=43.60 E-value=50 Score=27.02 Aligned_cols=34 Identities=18% Similarity=0.081 Sum_probs=25.7
Q ss_pred CeEEEEecccchH-HHHHHHHhhcCCCcEEEEeee
Q 032216 110 NIDVVWVPGSFEI-GVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 110 ~I~vv~VPGAfEL-Plaak~La~s~~yDAVIaLG~ 143 (145)
.|....+|=+|+- .-.+..+.+..++|+||++|.
T Consensus 33 ~i~~~~lPV~~~~~~~~l~~~l~~~~Pd~vi~~G~ 67 (212)
T TIGR00504 33 TVVAEILPNTFFEAIEALQQAIDEIEPDIVIMLGL 67 (212)
T ss_pred EEEEEEeCCChHHHHHHHHHHHHHHCCCEEEEecc
Confidence 5777889999876 444455566678999999995
No 348
>cd00501 Peptidase_C15 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from proteolysis by other proteases until the pGlu is removed by a PGP. PGPs are cysteine proteases with a Cys-His-Glu/Asp catalytic triad. Type I PGPs are found in a wide variety of prokaryotes and eukaryotes. It is not clear whether the functional form is a monomer, a homodimer, or a homotetramer.
Probab=43.15 E-value=54 Score=25.83 Aligned_cols=35 Identities=20% Similarity=0.167 Sum_probs=22.8
Q ss_pred CCeEEEEecccchH-HHHHHHHhhcCCCcEEEEeee
Q 032216 109 ENIDVVWVPGSFEI-GVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 109 e~I~vv~VPGAfEL-Plaak~La~s~~yDAVIaLG~ 143 (145)
..|....+|-+|+- .-.+..+.+..+.|+||.+|.
T Consensus 34 ~~i~~~~lpv~y~~~~~~~~~~~~~~~pd~vlhlG~ 69 (194)
T cd00501 34 AEVVGLELPVVFQKAVEVLPELIEEHKPDLVIHVGL 69 (194)
T ss_pred cEEEEEEcCccHHHHHHHHHHHHHHhCCCEEEEecc
Confidence 45677777877743 233444555567899999884
No 349
>PRK13411 molecular chaperone DnaK; Provisional
Probab=43.14 E-value=11 Score=35.28 Aligned_cols=55 Identities=27% Similarity=0.378 Sum_probs=39.1
Q ss_pred HHHHHHHHHHHHHCCCCCCCeE-EEEecccchHHHHHHHHhhc---------CCCcEEEEeeeeC
Q 032216 91 KLLLEGALETFKKYSVKEENID-VVWVPGSFEIGVVAQQLGKS---------GKYTAVLCIGAVV 145 (145)
Q Consensus 91 ~~LleGA~~~L~~~Gv~~e~I~-vv~VPGAfELPlaak~La~s---------~~yDAVIaLG~VI 145 (145)
++..+-..+.|++.|+..++|+ ++-|-|+--+|.+-+.+.+. -+.|-.||+||.|
T Consensus 308 ~~~~~~i~~~L~~a~~~~~~id~ViLvGGssriP~v~~~l~~~f~~~~~~~~~npdeaVA~GAAi 372 (653)
T PRK13411 308 EATIEPMQQALKDAGLKPEDIDRVILVGGSTRIPAVQEAIQKFFGGKQPDRSVNPDEAVALGAAI 372 (653)
T ss_pred HHHHHHHHHHHHHcCCCHHHCcEEEEECCCCCcchHHHHHHHHcCCcCcCCCCCchHHHHHHHHH
Confidence 3334445567788888766665 88899999999998876531 2567788888753
No 350
>PRK05183 hscA chaperone protein HscA; Provisional
Probab=42.77 E-value=21 Score=33.33 Aligned_cols=56 Identities=27% Similarity=0.389 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCe-EEEEecccchHHHHHHHHhh--------cCCCcEEEEeeee
Q 032216 89 VTKLLLEGALETFKKYSVKEENI-DVVWVPGSFEIGVVAQQLGK--------SGKYTAVLCIGAV 144 (145)
Q Consensus 89 It~~LleGA~~~L~~~Gv~~e~I-~vv~VPGAfELPlaak~La~--------s~~yDAVIaLG~V 144 (145)
+.+++.+-+.+.|++.|+..++| .++-|=|+--+|.+-+.+.+ +-+.|-.||.||-
T Consensus 307 l~~~~~~~i~~~L~~a~~~~~~i~~ViLvGGssriP~v~~~l~~~fg~~~~~~~npdeaVA~GAA 371 (616)
T PRK05183 307 LVKRTLLACRRALRDAGVEADEVKEVVMVGGSTRVPLVREAVGEFFGRTPLTSIDPDKVVAIGAA 371 (616)
T ss_pred HHHHHHHHHHHHHHHcCCCcccCCEEEEECCcccChHHHHHHHHHhccCcCcCCCchHHHHHHHH
Confidence 33444444566777788876655 57789999999998877653 2357778888874
No 351
>TIGR02690 resist_ArsH arsenical resistance protein ArsH. Members of this protein family occur in arsenate resistance operons that include at least two different types of arsenate reductase. ArsH is not required for arsenate resistance in some systems. This family belongs to the larger family of NADPH-dependent FMN reductases (Pfam model pfam03358). The function of ArsH is not known.
Probab=42.72 E-value=51 Score=27.26 Aligned_cols=66 Identities=14% Similarity=0.037 Sum_probs=36.9
Q ss_pred CCCEEEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEeccc----chHHHHHHHHhhc-CCCcEEEE
Q 032216 74 EGLRFALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVPGS----FEIGVVAQQLGKS-GKYTAVLC 140 (145)
Q Consensus 74 ~~lRIaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGA----fELPlaak~La~s-~~yDAVIa 140 (145)
..+||++|.+.-. .-.+..|++-+.+.+...|+.-+.+++-..|-- -+.| .++.+.+. ...||+|-
T Consensus 25 ~~~kI~~I~GSlR~~S~n~~la~~~~~~~~~~g~~v~~idl~~lPl~~~d~~~~p-~v~~l~~~v~~ADgvii 96 (219)
T TIGR02690 25 HIPRILLLYGSLRERSYSRLLAEEAARLLGCEGRETRIFDPPGLPLPDAAHADHP-KVRELRQLSEWSEGQVW 96 (219)
T ss_pred CCCEEEEEECCCCCcchHHHHHHHHHHHHhhcCCEEEEeCcccCCCCCcCcccCH-HHHHHHHHHHhCCEEEE
Confidence 3478888885333 333445666777777766775443443334421 1345 55655432 46788874
No 352
>PLN02573 pyruvate decarboxylase
Probab=42.56 E-value=62 Score=29.74 Aligned_cols=42 Identities=21% Similarity=0.331 Sum_probs=30.3
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+--.+.|+++|++ .++-|||..++|+. ..|.+.++..-|.|
T Consensus 19 a~~l~~~L~~~Gv~----~vFGvpG~~~~~l~-dal~~~~~i~~i~~ 60 (578)
T PLN02573 19 GRHLARRLVEIGVT----DVFSVPGDFNLTLL-DHLIAEPGLNLIGC 60 (578)
T ss_pred HHHHHHHHHHcCCC----EEEECCCCchHHHH-HHHhhcCCceEEEe
Confidence 35557889999997 88999999999984 44444344555544
No 353
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=42.28 E-value=18 Score=34.24 Aligned_cols=55 Identities=22% Similarity=0.266 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHCCCCCCCe-EEEEecccchHHHHHHHHhh--------cCCCcEEEEeeee
Q 032216 90 TKLLLEGALETFKKYSVKEENI-DVVWVPGSFEIGVVAQQLGK--------SGKYTAVLCIGAV 144 (145)
Q Consensus 90 t~~LleGA~~~L~~~Gv~~e~I-~vv~VPGAfELPlaak~La~--------s~~yDAVIaLG~V 144 (145)
.+++++-+.+.|++.|+..++| .++-|=|+--||.+-+.+.+ .-+.|-.||+||-
T Consensus 333 ~~r~~~~v~~~L~~a~~~~~dId~VvLVGGssriP~V~~~l~~~fg~~~~~~~nPdeaVA~GAA 396 (657)
T PTZ00186 333 IERSIAPCKQCMKDAGVELKEINDVVLVGGMTRMPKVVEEVKKFFQKDPFRGVNPDEAVALGAA 396 (657)
T ss_pred HHHHHHHHHHHHHHcCCChhhCCEEEEECCcccChHHHHHHHHHhCCCccccCCCchHHHHhHH
Confidence 3444455566788888876555 47889999999998877653 2357888888874
No 354
>PRK10586 putative oxidoreductase; Provisional
Probab=42.20 E-value=1.1e+02 Score=26.71 Aligned_cols=73 Identities=19% Similarity=0.230 Sum_probs=42.1
Q ss_pred hhhhhhccccCCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh--cCCCcEE
Q 032216 61 EAVRHLTGFLTKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK--SGKYTAV 138 (145)
Q Consensus 61 ~a~~~~~g~l~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~--s~~yDAV 138 (145)
.+++++..-+......|+.||.....-+.+...+ .+.|++.|+ .+.+..|--..+-+- ++.+ ..++|.|
T Consensus 20 ga~~~l~~~~~~~g~~~~lvv~g~~~~~~~~~~~---~~~l~~~~~-----~~~~~~g~~~~~~v~-~l~~~~~~~~d~i 90 (362)
T PRK10586 20 GSIDHLHDFFTDEQLSRAVWIYGERAIAAAQPYL---PPAFELPGA-----KHILFRGHCSESDVA-QLAAASGDDRQVV 90 (362)
T ss_pred CHHHHHHHHHHhcCCCeEEEEEChHHHHHHHHHH---HHHHHHcCC-----eEEEeCCCCCHHHHH-HHHHHhccCCCEE
Confidence 4444443333222225899999887766664444 344676665 344555555555443 3321 2468999
Q ss_pred EEee
Q 032216 139 LCIG 142 (145)
Q Consensus 139 IaLG 142 (145)
|++|
T Consensus 91 iavG 94 (362)
T PRK10586 91 IGVG 94 (362)
T ss_pred EEec
Confidence 9998
No 355
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=42.18 E-value=59 Score=27.56 Aligned_cols=60 Identities=17% Similarity=0.220 Sum_probs=33.2
Q ss_pred CEEEEEEeeecHHHHHH-HHHHHHHHHHHCCCCCCCeEEE-Eeccc--chHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKL-LLEGALETFKKYSVKEENIDVV-WVPGS--FEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~-LleGA~~~L~~~Gv~~e~I~vv-~VPGA--fELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+. +.+. +.+...+.|++. +. +.++ .+.+- +|.=.-+-.+++..++|+||++|
T Consensus 23 ~~~lvv~~~~---~~~~g~~~~v~~~l~~~-~~---~~~~~~v~~~p~~~~v~~~~~~~~~~~~d~IiaiG 86 (332)
T cd08180 23 KRVLIVTDPF---MVKSGMLDKVTDHLDSS-IE---VEIFSDVVPDPPIEVVAKGIKKFLDFKPDIVIALG 86 (332)
T ss_pred CeEEEEeCch---hhhCccHHHHHHHHHhc-Cc---EEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEEC
Confidence 5888888652 2222 555566666655 42 3233 23322 22222233345667899999998
No 356
>KOG1017 consensus Predicted uracil phosphoribosyltransferase [General function prediction only]
Probab=42.13 E-value=66 Score=27.70 Aligned_cols=59 Identities=24% Similarity=0.248 Sum_probs=44.4
Q ss_pred EEEEEEeeecHHHHHH-------------HHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEE
Q 032216 77 RFALVVARFNELVTKL-------------LLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAV 138 (145)
Q Consensus 77 RIaIVvArfN~~It~~-------------LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAV 138 (145)
+--++.|||-++|+.+ -+-.|++.|+++||.+++|..+. -|--|..+|.+.+.-.|=-|
T Consensus 175 ~akV~YArfppDI~sR~VLLmYPi~stGnTV~~Av~VL~EhgVp~s~IiL~s---LF~tP~gak~i~~~fP~iti 246 (267)
T KOG1017|consen 175 EAKVLYARFPPDITSRRVLLMYPIISTGNTVCKAVEVLKEHGVPDSNIILVS---LFITPTGAKNITRKFPYITI 246 (267)
T ss_pred eeeEEEEecCCcccceeEEEEeeeecCCccHHHHHHHHHHcCCCcccEEEEE---eeecchhhHHHHHhCCeEEE
Confidence 3446889999888764 35679999999999999987765 47778888888765444333
No 357
>TIGR00118 acolac_lg acetolactate synthase, large subunit, biosynthetic type. Several isozymes of this enzyme are found in E. coli K12, one of which contains a frameshift in the large subunit gene and is not expressed.
Probab=42.02 E-value=63 Score=29.19 Aligned_cols=41 Identities=24% Similarity=0.310 Sum_probs=30.0
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+.-.+.|+++|++ .++-+||.+.+|+.-. |.++.+.+-|.|
T Consensus 5 ~~l~~~L~~~Gv~----~vFgvpG~~~~~l~~~-l~~~~~i~~i~~ 45 (558)
T TIGR00118 5 EAIIESLKDEGVK----TVFGYPGGAILPIYDA-LYNDSGIEHILV 45 (558)
T ss_pred HHHHHHHHHcCCC----EEEeCCCcchHHHHHH-hhccCCceEEEe
Confidence 3446789999997 7899999999998544 544455665554
No 358
>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=41.93 E-value=1.7e+02 Score=24.14 Aligned_cols=63 Identities=13% Similarity=0.132 Sum_probs=42.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||+|+...- ...+.+.+...+.|++.|+.. +....+ |+.-+.=-.++++.+ .+.|+|+..+
T Consensus 138 ~~~v~ii~~~~--~~g~~~~~~~~~~~~~~G~~v--~~~~~~~~~~~d~s~~i~~i~~-~~~d~v~~~~ 201 (347)
T cd06335 138 FKKVALLLDNT--GWGRSNRKDLTAALAARGLKP--VAVEWFNWGDKDMTAQLLRAKA-AGADAIIIVG 201 (347)
T ss_pred CCeEEEEeccC--chhhhHHHHHHHHHHHcCCee--EEEeeecCCCccHHHHHHHHHh-CCCCEEEEEe
Confidence 46999998663 345677888889999999752 223333 466676556666654 4678888765
No 359
>PRK07742 phosphate butyryltransferase; Validated
Probab=41.92 E-value=1.3e+02 Score=25.55 Aligned_cols=42 Identities=14% Similarity=0.241 Sum_probs=25.7
Q ss_pred HHHCCC-CCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 101 FKKYSV-KEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 101 L~~~Gv-~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
++++|+ ..++++++..+-.-|-=..+-+|.+.|+.|++|+=|
T Consensus 56 ~~~~~l~~~~~~~Ii~~~~~~~s~~~a~~lV~~G~aD~lvsG~ 98 (299)
T PRK07742 56 LQEHGLQTSEHIEIIHAQSSAEAAELAVKAVRNGEADVLMKGN 98 (299)
T ss_pred HHHCCCCCCCCcEEECCCCHHHHHHHHHHHHHCCCCCEEEECC
Confidence 555666 455778887755433112223366789999999643
No 360
>PRK14021 bifunctional shikimate kinase/3-dehydroquinate synthase; Provisional
Probab=41.66 E-value=1.7e+02 Score=27.06 Aligned_cols=60 Identities=18% Similarity=0.318 Sum_probs=36.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEeccc-----chHHHH-HHHHhhcC--CCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGS-----FEIGVV-AQQLGKSG--KYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGA-----fELPla-ak~La~s~--~yDAVIaLG 142 (145)
.|+.||+...-. ...+...+.|++.|+. +...-+|+. .|.--. ++.+.+.+ +.|.||++|
T Consensus 210 ~k~~iV~d~~v~----~~~~~l~~~L~~~g~~---v~~~v~p~~E~~ksl~~v~~~~~~l~~~~~~r~D~IIAIG 277 (542)
T PRK14021 210 VKVALIHTQPVQ----RHSDRARTLLRQGGYE---VSDIVIPDAEAGKTIEVANGIWQRLGNEGFTRSDAIVGLG 277 (542)
T ss_pred CeEEEEECccHH----HHHHHHHHHHHhCCCc---eEEEEeCCCcccCCHHHHHHHHHHHHhcCCCCCcEEEEEc
Confidence 577777764221 2567777888888873 333334543 333322 35565554 799999998
No 361
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=41.31 E-value=1.6e+02 Score=24.59 Aligned_cols=62 Identities=16% Similarity=0.204 Sum_probs=40.7
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec----c-cchHHHHHHHHhhcC---CCcEEEEe
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP----G-SFEIGVVAQQLGKSG---KYTAVLCI 141 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP----G-AfELPlaak~La~s~---~yDAVIaL 141 (145)
-..|||||.|.==.- +...+..+++++.. -++.++.++ | +-||--+++++.+.+ +||.||..
T Consensus 13 ~p~~I~vITs~~gAa-----~~D~~~~~~~r~~~-~~~~~~p~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~ 82 (319)
T PF02601_consen 13 FPKRIAVITSPTGAA-----IQDFLRTLKRRNPI-VEIILYPASVQGEGAAASIVSALRKANEMGQADDFDVIIII 82 (319)
T ss_pred CCCEEEEEeCCchHH-----HHHHHHHHHHhCCC-cEEEEEeccccccchHHHHHHHHHHHHhccccccccEEEEe
Confidence 356999999964433 34455666666543 346666665 2 456777888876655 79999864
No 362
>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=41.09 E-value=1.3e+02 Score=22.98 Aligned_cols=63 Identities=16% Similarity=0.184 Sum_probs=42.3
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE--ecccchHHHHHH---HHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW--VPGSFEIGVVAQ---QLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~--VPGAfELPlaak---~La~s~~yDAVIaLG 142 (145)
.+|+++...-+......-.+|+.+.|++++ +++++. .+..+...-+.+ .+++..+.|+|+|..
T Consensus 123 ~~v~~~~~~~~~~~~~~r~~g~~~~l~~~~----~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~i~~~~ 190 (257)
T PF13407_consen 123 GKVLILSGSPGNPNTQERLEGFRDALKEYP----GVEIVDEYEYTDWDPEDARQAIENLLQANPVDAIIACN 190 (257)
T ss_dssp EEEEEEESSTTSHHHHHHHHHHHHHHHHCT----TEEEEEEEEECTTSHHHHHHHHHHHHHHTTEEEEEESS
T ss_pred ceEEeccCCCCchHHHHHHHHHHHHHhhcc----eeeeeeeeeccCCCHHHHHHHHHHhhhcCCceEEEeCC
Confidence 699999888877777777899999999954 355554 243444444433 344444589998763
No 363
>cd04395 RhoGAP_ARHGAP21 RhoGAP_ARHGAP21: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP21-like proteins. ArhGAP21 is a multi-domain protein, containing RhoGAP, PH and PDZ domains, and is believed to play a role in the organization of the cell-cell junction complex. It has been shown to function as a GAP of Cdc42 and RhoA, and to interact with alpha-catenin and Arf6. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=41.02 E-value=71 Score=25.12 Aligned_cols=42 Identities=17% Similarity=0.205 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCC
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKY 135 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~y 135 (145)
.+++.|.+.+..+|...+ -++++||.-.-=-.++....++.+
T Consensus 20 ~iv~~~~~~l~~~g~~~e--GIFR~~g~~~~i~~l~~~l~~~~~ 61 (196)
T cd04395 20 LIVEVCCNIVEARGLETV--GIYRVPGNNAAISALQEELNRGGF 61 (196)
T ss_pred hHHHHHHHHHHHcCCCCc--cceeCCCcHHHHHHHHHHHhcCCC
Confidence 467788899999998654 568899986555555555555543
No 364
>PRK06466 acetolactate synthase 3 catalytic subunit; Validated
Probab=40.59 E-value=67 Score=29.24 Aligned_cols=41 Identities=20% Similarity=0.233 Sum_probs=30.0
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+--.+.|+++|++ .++-+||..++|+. +.|.++.+.+-|.|
T Consensus 8 ~~l~~~L~~~Gv~----~vFgipG~~~~~l~-~al~~~~~i~~i~~ 48 (574)
T PRK06466 8 EMLVRALRDEGVE----YIYGYPGGAVLHIY-DALFKQDKVEHILV 48 (574)
T ss_pred HHHHHHHHHcCCC----EEEECCCcchhHHH-HHhhccCCceEEEe
Confidence 5567889999996 78999999999985 44444344555544
No 365
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=40.55 E-value=1e+02 Score=23.24 Aligned_cols=44 Identities=14% Similarity=0.175 Sum_probs=28.2
Q ss_pred HHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEeee
Q 032216 98 LETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 98 ~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG~ 143 (145)
.+.|+++|.. -.....||-..| |--+++.+.+..++|.||+.|-
T Consensus 26 ~~~l~~~G~~--v~~~~~v~Dd~~~i~~~l~~~~~~~~~DlVittGG 70 (152)
T cd00886 26 VELLEEAGHE--VVAYEIVPDDKDEIREALIEWADEDGVDLILTTGG 70 (152)
T ss_pred HHHHHHcCCe--eeeEEEcCCCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 3457788874 345556777764 4444555554347999999884
No 366
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=40.46 E-value=1.1e+02 Score=23.64 Aligned_cols=44 Identities=14% Similarity=0.103 Sum_probs=28.6
Q ss_pred HHHHHHCCCCCCCeEEEEecccch-HHHHHHHHhhcCCCcEEEEeee
Q 032216 98 LETFKKYSVKEENIDVVWVPGSFE-IGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 98 ~~~L~~~Gv~~e~I~vv~VPGAfE-LPlaak~La~s~~yDAVIaLG~ 143 (145)
...|++.|.. -.....||--.| |--+++.+++..++|.||+.|-
T Consensus 28 ~~~L~~~G~~--v~~~~iv~Dd~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 28 VERLTEAGHR--LADRAIVKDDIYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred HHHHHHCCCe--EEEEEEcCCCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 3446777874 445566787665 4444555544568999999884
No 367
>PRK11269 glyoxylate carboligase; Provisional
Probab=40.45 E-value=69 Score=29.34 Aligned_cols=42 Identities=21% Similarity=0.277 Sum_probs=30.7
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+...+.|+++|++ .++-+||..++|+. ..|.++.+..-|.|
T Consensus 7 ~~~l~~~L~~~Gv~----~vFg~pG~~~~~l~-dal~~~~~i~~v~~ 48 (591)
T PRK11269 7 VDAAVLVLEKEGVT----TAFGVPGAAINPFY-SAMRKHGGIRHILA 48 (591)
T ss_pred HHHHHHHHHHcCCC----EEEeCCCcccHHHH-HHHhhcCCCcEEee
Confidence 35667899999997 88999999999975 44444444555544
No 368
>cd04104 p47_IIGP_like p47 (47-kDa) family. The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei
Probab=40.30 E-value=1.7e+02 Score=22.52 Aligned_cols=56 Identities=18% Similarity=0.269 Sum_probs=44.7
Q ss_pred CCEEEEEEeeecH----------------HHHHHHHHHHHHHHHHCCCCCCCeEEEEec--ccchHHHHHHHHh
Q 032216 75 GLRFALVVARFNE----------------LVTKLLLEGALETFKKYSVKEENIDVVWVP--GSFEIGVVAQQLG 130 (145)
Q Consensus 75 ~lRIaIVvArfN~----------------~It~~LleGA~~~L~~~Gv~~e~I~vv~VP--GAfELPlaak~La 130 (145)
+.++.+|.+++.. .+.+.+.+.+.+.+.+.|+..-.+-++..| |-|.+|-....|.
T Consensus 107 ~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p~v~~vS~~~~~~~~~~~l~~~~~ 180 (197)
T cd04104 107 GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGVSEPPVFLVSNFDPSDYDFPKLRETLL 180 (197)
T ss_pred CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeCCChhhcChHHHHHHHH
Confidence 4578888887764 456777888889999889887788888888 7899998877765
No 369
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=40.19 E-value=39 Score=26.83 Aligned_cols=45 Identities=24% Similarity=0.338 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 90 TKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 90 t~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
...|++-|.+.+++.|+. +++++.-.+.-.. ...+.||.|++-++
T Consensus 110 ~~~~~~~a~~~l~~~g~~--~v~~~~gd~~~~~-------~~~~~fD~I~~~~~ 154 (212)
T PRK13942 110 IPELAEKAKKTLKKLGYD--NVEVIVGDGTLGY-------EENAPYDRIYVTAA 154 (212)
T ss_pred CHHHHHHHHHHHHHcCCC--CeEEEECCcccCC-------CcCCCcCEEEECCC
Confidence 345888899999988873 6766655543211 12467998887543
No 370
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=39.68 E-value=32 Score=23.39 Aligned_cols=46 Identities=20% Similarity=0.350 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeee
Q 032216 89 VTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 89 It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~V 144 (145)
+...|++-|.+...+.+. +++. .+-=+-++|. ..++||.|++.|++
T Consensus 32 ~s~~~l~~~~~~~~~~~~---~~~~-~~~D~~~l~~------~~~~~D~v~~~~~~ 77 (101)
T PF13649_consen 32 ISPEMLELAKKRFSEDGP---KVRF-VQADARDLPF------SDGKFDLVVCSGLS 77 (101)
T ss_dssp S-HHHHHHHHHHSHHTTT---TSEE-EESCTTCHHH------HSSSEEEEEE-TTG
T ss_pred CCHHHHHHHHHhchhcCC---ceEE-EECCHhHCcc------cCCCeeEEEEcCCc
Confidence 344588888888888776 3443 3444455552 45699999997763
No 371
>cd08172 GlyDH-like1 Glycerol dehydrogenases-like. Glycerol dehydrogenases-like. The proteins in this family have not been characterized, but they show sequence homology with glycerol dehydrogenase. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=39.38 E-value=48 Score=28.26 Aligned_cols=59 Identities=14% Similarity=0.001 Sum_probs=30.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHH--HHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVV--AQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPla--ak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.- .+.+.+.-.+.|++.+ +.+...+|.-.+-.+ +-..++..++|.||++|
T Consensus 24 ~~~liv~d~~~---~~~~~~~l~~~L~~~~-----~~~~~~~~~p~~~~v~~~~~~~~~~~~D~iIavG 84 (347)
T cd08172 24 KRPLIVTGPRS---WAAAKPYLPESLAAGE-----AFVLRYDGECSEENIERLAAQAKENGADVIIGIG 84 (347)
T ss_pred CeEEEEECHHH---HHHHHHHHHHHHhcCe-----EEEEEeCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 58888886543 2233344444443223 344444454222222 22234567899999998
No 372
>PF01135 PCMT: Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2.1.1.77 from EC) (PCMT) [] (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyses the transfer of a methyl group from S-adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerisation of normal L-aspartyl and L-asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process; PDB: 3LBF_A 1DL5_B 1JG3_B 1JG2_A 1JG1_A 1JG4_A 2YXE_A 2PBF_B 1VBF_C 1R18_A ....
Probab=39.29 E-value=16 Score=29.66 Aligned_cols=45 Identities=22% Similarity=0.293 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeee
Q 032216 91 KLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 91 ~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~V 144 (145)
+.|.+.|.+.|++.|.. |+.++.-.|..-.| ..+.||.|++=+++
T Consensus 107 ~~l~~~A~~~l~~~~~~--nv~~~~gdg~~g~~-------~~apfD~I~v~~a~ 151 (209)
T PF01135_consen 107 PELAERARRNLARLGID--NVEVVVGDGSEGWP-------EEAPFDRIIVTAAV 151 (209)
T ss_dssp HHHHHHHHHHHHHHTTH--SEEEEES-GGGTTG-------GG-SEEEEEESSBB
T ss_pred HHHHHHHHHHHHHhccC--ceeEEEcchhhccc-------cCCCcCEEEEeecc
Confidence 35888999999999985 77777767654333 44689999886553
No 373
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=39.18 E-value=1.4e+02 Score=23.20 Aligned_cols=65 Identities=15% Similarity=0.132 Sum_probs=38.8
Q ss_pred CEEEEEEeee-cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEeccc---chHHH-HHHHHhh-cCCCc--EEEEee
Q 032216 76 LRFALVVARF-NELVTKLLLEGALETFKKYSVKEENIDVVWVPGS---FEIGV-VAQQLGK-SGKYT--AVLCIG 142 (145)
Q Consensus 76 lRIaIVvArf-N~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGA---fELPl-aak~La~-s~~yD--AVIaLG 142 (145)
.||+++.... +......-.+|+.+.|+++|+... .++.++.. +|-.. +++.+++ ..++| +|+|.+
T Consensus 130 ~~i~~i~~~~~~~~~~~~R~~G~~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~ 202 (289)
T cd01540 130 KEVGALRITYDELDTAKPRTDGALEALKAPGFPEA--NIFQAPQKTTDTEGAFDAAASTLTKNPNVKNWIIYGLN 202 (289)
T ss_pred cceEEEEecCCCCcchhhHHHHHHHHHhcCCCCcc--eEecccccCcchhhHHHHHHHHHHhCCCcCeeEEEeCC
Confidence 4899886322 222445567999999999998632 34445532 44332 3455554 45678 677653
No 374
>PRK13193 pyrrolidone-carboxylate peptidase; Provisional
Probab=39.07 E-value=84 Score=25.78 Aligned_cols=44 Identities=18% Similarity=0.120 Sum_probs=27.6
Q ss_pred HHHHCCCCCCCeEEEEecccchHHHH-HHHHhhcCCCcEEEEeee
Q 032216 100 TFKKYSVKEENIDVVWVPGSFEIGVV-AQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 100 ~L~~~Gv~~e~I~vv~VPGAfELPla-ak~La~s~~yDAVIaLG~ 143 (145)
.|.+......++.....|=+|+-..- +..+.++.++|.||++|.
T Consensus 25 ~L~~~~~~~~~v~~~~LPv~~~~~~~~l~~~~~~~~Pd~vl~~G~ 69 (209)
T PRK13193 25 ALNGSTILKEEVKGVILPVEYEKIEDLIVTKIREMKPILTLGIGV 69 (209)
T ss_pred HhhccccCCceEEEEEeCCcHHHHHHHHHHHHHHHCCCEEEEecc
Confidence 33333333345666778888775433 344556668999999995
No 375
>PRK14075 pnk inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=39.01 E-value=1.1e+02 Score=25.46 Aligned_cols=49 Identities=10% Similarity=0.119 Sum_probs=32.1
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
||++|+ .+++ ..+..+...+.|.++|.. +.+.+- .+ -...+.|.||++|
T Consensus 1 m~~~~~---~~~~-~~~~~~~~~~~l~~~~~~-----~~~~~~-~~--------~~~~~~d~vi~iG 49 (256)
T PRK14075 1 MKLGIF---YREE-KEKEAKFLKEKISKEHEV-----VEFCEA-SA--------SGKVTADLIIVVG 49 (256)
T ss_pred CEEEEE---eCcc-HHHHHHHHHHHHHHcCCe-----eEeecc-cc--------cccCCCCEEEEEC
Confidence 678888 4444 667888888999998863 222211 11 1235789999998
No 376
>cd06427 CESA_like_2 CESA_like_2 is a member of the cellulose synthase superfamily. The cellulose synthase (CESA) superfamily includes a wide variety of glycosyltransferase family 2 enzymes that share the common characteristic of catalyzing the elongation of polysaccharide chains. The members include cellulose synthase catalytic subunit, chitin synthase, Glucan Biosynthesis protein and other families of CESA-like proteins. Cellulose synthase catalyzes the polymerization reaction of cellulose, an aggregate of unbranched polymers of beta-1,4-linked glucose residues in plants, most algae, some bacteria and fungi, and even some animals. In bacteria, algae and lower eukaryotes, there is a second unrelated type of cellulose synthase (Type II), which produces acylated cellulose, a derivative of cellulose. Chitin synthase catalyzes the incorporation of GlcNAc from substrate UDP-GlcNAc into chitin, which is a linear homopolymer of beta-(1,4)-linked GlcNAc residues and Glucan Biosynthesis prot
Probab=38.43 E-value=90 Score=24.21 Aligned_cols=35 Identities=14% Similarity=0.323 Sum_probs=18.5
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV 114 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv 114 (145)
+|.||..-||++ ..+..+++.+.+.-...++++++
T Consensus 2 ~vsIiIp~~Ne~---~~l~~~l~sl~~~~y~~~~~eii 36 (241)
T cd06427 2 VYTILVPLYKEA---EVLPQLIASLSALDYPRSKLDVK 36 (241)
T ss_pred eEEEEEecCCcH---HHHHHHHHHHHhCcCCcccEEEE
Confidence 456666667765 34555666665544332334443
No 377
>PRK07979 acetolactate synthase 3 catalytic subunit; Validated
Probab=38.40 E-value=83 Score=28.64 Aligned_cols=41 Identities=24% Similarity=0.310 Sum_probs=29.4
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+--.+.|+++|++ .++-+||.+++|+. +.+.+..+.+-|.|
T Consensus 8 ~~l~~~L~~~Gv~----~vFgvpG~~~~~l~-d~l~~~~~i~~i~~ 48 (574)
T PRK07979 8 EMVVRSLIDQGVK----QVFGYPGGAVLDIY-DALHTVGGIDHVLV 48 (574)
T ss_pred HHHHHHHHHcCCC----EEEEccCcchHHHH-HHHHhcCCceEEEe
Confidence 5567889999996 78999999999985 44433234555443
No 378
>PRK00290 dnaK molecular chaperone DnaK; Provisional
Probab=38.22 E-value=29 Score=32.14 Aligned_cols=55 Identities=24% Similarity=0.320 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHHCCCCCCCeE-EEEecccchHHHHHHHHhh--------cCCCcEEEEeeee
Q 032216 90 TKLLLEGALETFKKYSVKEENID-VVWVPGSFEIGVVAQQLGK--------SGKYTAVLCIGAV 144 (145)
Q Consensus 90 t~~LleGA~~~L~~~Gv~~e~I~-vv~VPGAfELPlaak~La~--------s~~yDAVIaLG~V 144 (145)
.++..+-..+.|++.|+..++|+ ++-|=|+-.+|.+-+.+.+ .-+.|-.||+||.
T Consensus 306 ~~~~~~~i~~~l~~a~~~~~~id~ViLvGGssriP~v~~~l~~~fg~~~~~~~npdeava~GAa 369 (627)
T PRK00290 306 VERTIEPCKQALKDAGLSVSDIDEVILVGGSTRMPAVQELVKEFFGKEPNKGVNPDEVVAIGAA 369 (627)
T ss_pred HHHHHHHHHHHHHHcCCChhhCcEEEEECCcCCChHHHHHHHHHhCCCCCcCcCChHHHHHhHH
Confidence 33344445567778888766664 7789999999999887653 2356888888875
No 379
>PRK01231 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=38.22 E-value=1.2e+02 Score=26.05 Aligned_cols=30 Identities=7% Similarity=-0.071 Sum_probs=21.0
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCC
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVK 107 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~ 107 (145)
||+||.-.-+.. ...+.+...+.|+++|+.
T Consensus 6 ~v~iv~~~~k~~-a~e~~~~i~~~L~~~gie 35 (295)
T PRK01231 6 NIGLIGRLGSSS-VVETLRRLKDFLLDRGLE 35 (295)
T ss_pred EEEEEecCCCHH-HHHHHHHHHHHHHHCCCE
Confidence 698886555544 444667778889988874
No 380
>PRK07586 hypothetical protein; Validated
Probab=38.20 E-value=84 Score=28.02 Aligned_cols=41 Identities=27% Similarity=0.261 Sum_probs=28.4
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+--.+.|+++|++ .++-+||..++|+.=. |.++.+..-|.|
T Consensus 5 ~~l~~~L~~~Gv~----~vFG~pG~~~~~l~da-l~~~~~i~~i~~ 45 (514)
T PRK07586 5 ESLVRTLVDGGVD----VCFANPGTSEMHFVAA-LDRVPGMRCVLG 45 (514)
T ss_pred HHHHHHHHHCCCC----EEEECCCCchHHHHHH-HhccCCCeEEEe
Confidence 3456889999997 7899999999997633 333334444443
No 381
>PLN02204 diacylglycerol kinase
Probab=38.05 E-value=1.9e+02 Score=27.92 Aligned_cols=67 Identities=15% Similarity=0.127 Sum_probs=38.2
Q ss_pred CCCCEEEEEEeeec-HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHh--hcCCCcEEEEee
Q 032216 73 NEGLRFALVVARFN-ELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLG--KSGKYTAVLCIG 142 (145)
Q Consensus 73 ~~~lRIaIVvArfN-~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La--~s~~yDAVIaLG 142 (145)
...+|+.|++-.+- .--..+..+.....|++.|+. ++++.--.+-+.--.++.+. ..++||+|||.|
T Consensus 157 ~r~k~llVivNP~sGkg~~~~~~~~V~p~f~~a~i~---~~v~~T~~aghA~d~~~~~~~~~l~~~D~VVaVG 226 (601)
T PLN02204 157 GRPKNLLVFVHPLSGKGSGSRTWETVSPIFIRAKVK---TKVIVTERAGHAFDVMASISNKELKSYDGVIAVG 226 (601)
T ss_pred CCCceEEEEECCCCCCcchHHHHHHHHHHHHHcCCe---EEEEEecCcchHHHHHHHHhhhhccCCCEEEEEc
Confidence 34568888774442 112234556678888888985 33333333323333333333 246899999998
No 382
>TIGR00173 menD 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase. 2-oxoglutarate decarboxylase/SHCHC synthase (menD) is a thiamine pyrophosphate enzyme involved in menaquinone biosynthesis.
Probab=37.89 E-value=84 Score=27.59 Aligned_cols=40 Identities=18% Similarity=0.241 Sum_probs=27.8
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVL 139 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVI 139 (145)
+.-.+.|+++|++ .++-+||...+|+.-.. .+..+.+-|.
T Consensus 4 ~~l~~~L~~~GV~----~vFg~pG~~~~~l~dal-~~~~~i~~v~ 43 (432)
T TIGR00173 4 SVLVEELVRLGVR----HVVISPGSRSTPLALAA-AEHPRLRVHV 43 (432)
T ss_pred HHHHHHHHHcCCC----EEEECCCcccHHHHHHH-HhCCCcEEEE
Confidence 3446789999997 88999999999985432 2333444443
No 383
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=37.65 E-value=1.3e+02 Score=24.28 Aligned_cols=60 Identities=7% Similarity=0.113 Sum_probs=38.0
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHHHHHHHHhhcCCCcEEEE
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELPlaak~La~s~~yDAVIa 140 (145)
..+.||.|+.+.=-++. -.+.|++.|..-+.+.+++ +|-...-.-.. .+.+.+++|+|+-
T Consensus 128 ~~~~~vLi~rg~~~r~~-------L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~-~~~~~~~~d~v~f 188 (255)
T PRK05752 128 VPDPRVLIMRGEGGREL-------LAERLREQGASVDYLELYRRCLPDYPAGTLL-QRVEAERLNGLVV 188 (255)
T ss_pred CCCCEEEEEccCccHHH-------HHHHHHHCCCEEeEEEEEeecCCCCCHHHHH-HHHHhCCCCEEEE
Confidence 35679999998865553 3567788898767777775 34333322333 3345678888863
No 384
>PRK08979 acetolactate synthase 3 catalytic subunit; Validated
Probab=37.65 E-value=85 Score=28.61 Aligned_cols=41 Identities=15% Similarity=0.221 Sum_probs=30.0
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+.-.+.|+++|++ .++-+||...+|+. ..|.++.+.+-|.|
T Consensus 8 ~~l~~~L~~~Gv~----~vFgvpG~~~~~l~-~al~~~~~i~~v~~ 48 (572)
T PRK08979 8 SMIVRSLIDEGVK----HIFGYPGGSVLDIY-DALHEKSGIEHILV 48 (572)
T ss_pred HHHHHHHHHcCCC----EEEEcCCcchHHHH-HHHhhcCCCeEEEe
Confidence 4567889999997 78999999999985 44444344555544
No 385
>PRK07064 hypothetical protein; Provisional
Probab=37.54 E-value=79 Score=28.33 Aligned_cols=42 Identities=19% Similarity=0.189 Sum_probs=29.3
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+--.+.|+++|++ .++-|||...+|+.- .+.++++..-|.|
T Consensus 6 ~~~l~~~L~~~Gv~----~vFgvpG~~~~~l~~-al~~~~~i~~i~~ 47 (544)
T PRK07064 6 GELIAAFLEQCGVK----TAFGVISIHNMPILD-AIGRRGKIRFVPA 47 (544)
T ss_pred HHHHHHHHHHcCCC----EEEeCCCCcchHHHH-HHhccCCccEEee
Confidence 34557889999997 788999999999853 3433334444443
No 386
>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=37.38 E-value=1.9e+02 Score=23.48 Aligned_cols=64 Identities=13% Similarity=0.098 Sum_probs=43.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
.+|+++.... ...+.+.+...+.|++.|+.-. .....-||.-+.=-.++++. ..+.|+|+..|.
T Consensus 136 ~~v~ii~~~~--~~g~~~~~~~~~~~~~~g~~v~-~~~~~~~~~~d~~~~v~~l~-~~~~d~v~~~~~ 199 (340)
T cd06349 136 KKVAILSVNT--DWGRTSADIFVKAAEKLGGQVV-AHEEYVPGEKDFRPTITRLR-DANPDAIILISY 199 (340)
T ss_pred cEEEEEecCC--hHhHHHHHHHHHHHHHcCCEEE-EEEEeCCCCCcHHHHHHHHH-hcCCCEEEEccc
Confidence 5899999774 3566788999999999998511 11223467656555666664 458899988763
No 387
>PF02353 CMAS: Mycolic acid cyclopropane synthetase; InterPro: IPR003333 This entry represents mycolic acid cyclopropane synthases and related enzymes, including CmaA1, CmaA2 (cyclopropane mycolic acid synthase A1 and A2) and MmaA1-4 (methoxymycolic acid synthase A1-4). All are thought to be S-adenosyl-L-methionine (SAM) utilising methyltransferases []. Mycolic acid cyclopropane synthase or cyclopropane-fatty-acyl-phospholipid synthase (CFA synthase) 2.1.1.79 from EC catalyses the reaction: S-adenosyl-L-methionine + phospholipid olefinic fatty acid -> S-adenosyl-L-homocysteine + phospholipid cyclopropane fatty acid. The major mycolic acid produced by Mycobacterium tuberculosis contains two cis-cyclopropanes in the meromycolate chain. Cyclopropanation may contribute to the structural integrity of the cell wall complex [].; GO: 0008610 lipid biosynthetic process; PDB: 3HA5_A 2FK8_A 3HA7_A 3HA3_A 2FK7_A 1KPG_D 1KP9_B 1KPH_D 3VC2_E 3VC1_D ....
Probab=37.29 E-value=68 Score=27.00 Aligned_cols=75 Identities=17% Similarity=0.213 Sum_probs=39.5
Q ss_pred hhhhhhhhccccCCCCCCEEEEEEeeecHH----------------HHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH
Q 032216 59 QTEAVRHLTGFLTKNEGLRFALVVARFNEL----------------VTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI 122 (145)
Q Consensus 59 ~~~a~~~~~g~l~~~~~lRIaIVvArfN~~----------------It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL 122 (145)
|...++.+-.++.-..+.||.=+-.=|=.. +.+...+-|.+..++.|+. +.+++...- --++
T Consensus 47 Q~~k~~~~~~~~~l~~G~~vLDiGcGwG~~~~~~a~~~g~~v~gitlS~~Q~~~a~~~~~~~gl~-~~v~v~~~D-~~~~ 124 (273)
T PF02353_consen 47 QERKLDLLCEKLGLKPGDRVLDIGCGWGGLAIYAAERYGCHVTGITLSEEQAEYARERIREAGLE-DRVEVRLQD-YRDL 124 (273)
T ss_dssp HHHHHHHHHTTTT--TT-EEEEES-TTSHHHHHHHHHH--EEEEEES-HHHHHHHHHHHHCSTSS-STEEEEES--GGG-
T ss_pred HHHHHHHHHHHhCCCCCCEEEEeCCCccHHHHHHHHHcCcEEEEEECCHHHHHHHHHHHHhcCCC-CceEEEEee-cccc
Confidence 334444443443334555665554444322 2345667788899999985 566665431 2222
Q ss_pred HHHHHHHhhcCCCcEEEEeeee
Q 032216 123 GVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 123 Plaak~La~s~~yDAVIaLG~V 144 (145)
| ++||+||++|++
T Consensus 125 ~---------~~fD~IvSi~~~ 137 (273)
T PF02353_consen 125 P---------GKFDRIVSIEMF 137 (273)
T ss_dssp -----------S-SEEEEESEG
T ss_pred C---------CCCCEEEEEech
Confidence 2 399999999974
No 388
>COG1852 Uncharacterized conserved protein [Function unknown]
Probab=36.99 E-value=81 Score=26.62 Aligned_cols=68 Identities=22% Similarity=0.197 Sum_probs=45.8
Q ss_pred hhhhhhhccccCCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEE
Q 032216 60 TEAVRHLTGFLTKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVL 139 (145)
Q Consensus 60 ~~a~~~~~g~l~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVI 139 (145)
|-++++.+... +--.-|+..-+=|.=++..+.+.| +++|. .++-|||. -.+++..++.+.|+++
T Consensus 95 PhClR~~~CeA---~~t~~G~~Ck~CgkCvi~ei~e~a----e~~gy-----kvfIvpGg----s~vkkIlKe~k~e~vl 158 (209)
T COG1852 95 PHCLRNPKCEA---KLTPTGYECKKCGKCVIGEIKEIA----EKYGY-----KVFIVPGG----SFVKKILKEEKPEAVL 158 (209)
T ss_pred hhhhcCCCCcc---ccccccceecccCCeehHHHHHHH----HHhCc-----EEEEecCh----HHHHHHHhhcCCceEE
Confidence 45555554322 222347777777777666676554 45575 37889998 5678888889999998
Q ss_pred Eeee
Q 032216 140 CIGA 143 (145)
Q Consensus 140 aLG~ 143 (145)
.+.|
T Consensus 159 gVAC 162 (209)
T COG1852 159 GVAC 162 (209)
T ss_pred EEee
Confidence 8887
No 389
>TIGR00600 rad2 DNA excision repair protein (rad2). All proteins in this family for which functions are known are flap endonucleases that generate the 3' incision next to DNA damage as part of nucleotide excision repair. This family is related to many other flap endonuclease families including the fen1 family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=36.84 E-value=55 Score=33.28 Aligned_cols=50 Identities=14% Similarity=0.214 Sum_probs=40.3
Q ss_pred eecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 84 RFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 84 rfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
|-...||..|++.|++.|...|+. .+..| +|-=.-+..|.+.|..|||+.
T Consensus 764 r~~~~vt~~m~~~~~~LL~~~GIP-----~i~AP--~EAEAqcA~L~~~G~vd~V~T 813 (1034)
T TIGR00600 764 RIAAEVTGQMILESQELLRLFGIP-----YIVAP--MEAEAQCAILDLLDQTSGTIT 813 (1034)
T ss_pred cccccCCHHHHHHHHHHHHHCCCC-----eeeCC--ccHHHHHHHHHhCCCeEEEEc
Confidence 334678899999999999999985 55678 677777888888888888763
No 390
>PF13712 Glyco_tranf_2_5: Glycosyltransferase like family; PDB: 2QGI_A 2NXV_B.
Probab=36.81 E-value=89 Score=25.20 Aligned_cols=58 Identities=16% Similarity=0.218 Sum_probs=36.0
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHC-CCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEE
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKY-SVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVL 139 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~-Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVI 139 (145)
|+||.- .|++ .+.+.|++.+++. +.+.+.|+++.+.|+.-+.-+..+.++..++|-+|
T Consensus 1 isiI~c-~n~~---~~~~~~~~~i~~~~~~~~~~i~i~~~~~~~s~~~~yN~a~~~a~~~ylv 59 (217)
T PF13712_consen 1 ISIIIC-VNDE---ELYEECLRSIKRLIGPPGELIEIDNVRNAKSMAAAYNEAMEKAKAKYLV 59 (217)
T ss_dssp EEEEEE-ES-H---HHHHHHHHHHHHTT--TEEEEEEE-SSS-S-TTTHHHHHGGG--SSEEE
T ss_pred CEEEEE-ECCH---HHHHHHHHHHHhhCCCCceEEEEeccCCCcCHHHHHHHHHHhCCCCEEE
Confidence 344444 4444 4566677888877 45566889999999999999999988777777444
No 391
>PRK11553 alkanesulfonate transporter substrate-binding subunit; Provisional
Probab=36.74 E-value=70 Score=26.10 Aligned_cols=60 Identities=17% Similarity=0.206 Sum_probs=34.2
Q ss_pred cCCCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEe
Q 032216 70 LTKNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCI 141 (145)
Q Consensus 70 l~~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaL 141 (145)
+.+.++.+|++-.... .+.++ .+.|+++|+..+++.++..+.. |+ .+. +.+|++||+++-
T Consensus 124 ~~dL~Gk~I~~~~gs~----~~~~l---~~~l~~~g~~~~dv~~v~~~~~-~~---~~a-l~~G~vDa~~~~ 183 (314)
T PRK11553 124 VADLKGHKVAFQKGSS----SHNLL---LRALRKAGLKFTDIQPTYLTPA-DA---RAA-FQQGNVDAWAIW 183 (314)
T ss_pred HHHhCCCEEeecCCCc----HHHHH---HHHHHHcCCCHHHeEEEecChH-HH---HHH-HHcCCCCEEEEc
Confidence 3345677887633222 22233 2346678998777776655432 33 232 357899998763
No 392
>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=36.67 E-value=1.5e+02 Score=26.03 Aligned_cols=64 Identities=11% Similarity=-0.009 Sum_probs=40.1
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHHHHHHHHhhcCCCcEEEEe
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIGVVAQQLGKSGKYTAVLCI 141 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELPlaak~La~s~~yDAVIaL 141 (145)
-.||++|... ++..+...+...+.++++|+.-...+.+. .|+.-++--.+++|.+ .+.|++|.+
T Consensus 186 W~~Vaii~~~--~~yg~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~lk~-~~~da~vvv 250 (472)
T cd06374 186 WTYVSAVHTE--GNYGESGMEAFKELAAHEGLCIAHSDKIYSNAGEQSFDRLLRKLRS-RLPKARVVV 250 (472)
T ss_pred CcEEEEEEec--chHHHHHHHHHHHHHHHCCeeEEEEEEecCCCchHHHHHHHHHHHh-cCCCcEEEE
Confidence 3589999874 44567788888999999997421111122 3566666666777653 345665544
No 393
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=36.66 E-value=41 Score=31.53 Aligned_cols=54 Identities=24% Similarity=0.260 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHCCCCCCCe-EEEEecccchHHHHHHHHhh---------cCCCcEEEEeeeeC
Q 032216 92 LLLEGALETFKKYSVKEENI-DVVWVPGSFEIGVVAQQLGK---------SGKYTAVLCIGAVV 145 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I-~vv~VPGAfELPlaak~La~---------s~~yDAVIaLG~VI 145 (145)
+.++-..+.|++.|+..++| .++-|=|+--+|.+-+.+.+ +-+.|-.||+||.|
T Consensus 314 ~~~~~i~~~L~~a~~~~~~i~~ViLvGGssriP~v~~~i~~~f~~~~~~~~~npdeaVA~GAa~ 377 (653)
T PTZ00009 314 NTLQPVEKVLKDAGMDKRSVHEVVLVGGSTRIPKVQSLIKDFFNGKEPCKSINPDEAVAYGAAV 377 (653)
T ss_pred HHHHHHHHHHHHcCCCHHHCcEEEEECCCCCChhHHHHHHHHhCCCCCCCCCCcchHHhhhhhh
Confidence 34445566777788876655 56778999999999877642 22578889999853
No 394
>cd04388 RhoGAP_p85 RhoGAP_p85: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in the p85 isoforms of the regulatory subunit of the class IA PI3K (phosphatidylinositol 3'-kinase). This domain is also called Bcr (breakpoint cluster region protein) homology (BH) domain. Class IA PI3Ks are heterodimers, containing a regulatory subunit (p85) and a catalytic subunit (p110) and are activated by growth factor receptor tyrosine kinases (RTKs); this activation is mediated by the p85 subunit. p85 isoforms, alpha and beta, contain a C-terminal p110-binding domain flanked by two SH2 domains, an N-terminal SH3 domain, and a RhoGAP domain flanked by two proline-rich regions. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell p
Probab=36.37 E-value=85 Score=25.62 Aligned_cols=38 Identities=16% Similarity=0.139 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhc
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKS 132 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s 132 (145)
.++..|++.++++|...+ -+++++|+-++ ..+++..++
T Consensus 17 ~iv~~ci~~IE~~GL~~e--GIYRvsgs~~~-~~lk~~~d~ 54 (200)
T cd04388 17 PLLIKLVEAIEKKGLESS--TLYRTQSSSSL-TELRQILDC 54 (200)
T ss_pred HHHHHHHHHHHHhCCCCC--ceeeCCCccHH-HHHHHHHhc
Confidence 578899999999999766 45788998774 344554443
No 395
>PRK08527 acetolactate synthase 3 catalytic subunit; Validated
Probab=36.31 E-value=88 Score=28.41 Aligned_cols=41 Identities=22% Similarity=0.295 Sum_probs=29.5
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+--.+.|++.|++ .++-+||..++|+. ..|.+..+.+-|.|
T Consensus 7 ~~l~~~L~~~Gv~----~vFgipG~~~~~l~-~~l~~~~~i~~v~~ 47 (563)
T PRK08527 7 QMVCEALKEEGVK----VVFGYPGGAILNIY-DEIYKQNYFKHILT 47 (563)
T ss_pred HHHHHHHHHcCCC----EEEECCCcchHHHH-HHHhccCCCeEEEe
Confidence 4456789999996 78999999999995 44444344555544
No 396
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=36.08 E-value=1.3e+02 Score=24.04 Aligned_cols=56 Identities=11% Similarity=0.168 Sum_probs=40.2
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHH--hhcCCCcEEEEe
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQL--GKSGKYTAVLCI 141 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~L--a~s~~yDAVIaL 141 (145)
...++-+..+|... + +.++.|.+.|+. .+.+.|+.++-+++..| +-++++|+++-+
T Consensus 55 ~i~~~R~Y~~a~a~--~----~l~~~l~~~Gf~-----pv~~kG~~Dv~laIDame~~~~~~iD~~vLv 112 (160)
T TIGR00288 55 DIKIGKVLLNQYAS--D----KLIEAVVNQGFE-----PIIVAGDVDVRMAVEAMELIYNPNIDAVALV 112 (160)
T ss_pred CeEEEEEEechhcc--H----HHHHHHHHCCce-----EEEecCcccHHHHHHHHHHhccCCCCEEEEE
Confidence 34566666675432 2 347889999985 44689999999999887 445899998754
No 397
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=36.01 E-value=95 Score=28.15 Aligned_cols=41 Identities=20% Similarity=0.333 Sum_probs=29.5
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh---cCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK---SGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~---s~~yDAVIa 140 (145)
+.-.+.|+++|++ .++-+||..++|+. ..|.+ +++.+-|.|
T Consensus 6 ~~l~~~L~~~GV~----~vFg~pG~~~~~l~-dal~~~~~~~~i~~i~~ 49 (572)
T PRK06456 6 RILVDSLKREGVK----VIFGIPGLSNMQIY-DAFVEDLANGELRHVLM 49 (572)
T ss_pred HHHHHHHHHcCCC----EEEeCCCcchHHHH-HHHHhhccCCCCeEEEe
Confidence 4567889999997 78999999999985 33432 234555554
No 398
>PRK06546 pyruvate dehydrogenase; Provisional
Probab=35.85 E-value=90 Score=28.61 Aligned_cols=42 Identities=19% Similarity=0.170 Sum_probs=30.5
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+...+.|+++|++ .++-+||..++|+. ..|.++++..-|.|
T Consensus 6 ~~~l~~~L~~~GV~----~vFg~pG~~~~~l~-dal~~~~~i~~i~~ 47 (578)
T PRK06546 6 AEQLVEQLVAAGVK----RIYGIVGDSLNPIV-DAVRRTGGIEWVHV 47 (578)
T ss_pred HHHHHHHHHHcCCC----EEEECCCCchHHHH-HHHhccCCCeEEEe
Confidence 35567889999997 78999999999974 55555444554443
No 399
>TIGR02350 prok_dnaK chaperone protein DnaK. Members of this family are the chaperone DnaK, of the DnaK-DnaJ-GrpE chaperone system. All members of the seed alignment were taken from completely sequenced bacterial or archaeal genomes and (except for Mycoplasma sequence) found clustered with other genes of this systems. This model excludes DnaK homologs that are not DnaK itself, such as the heat shock cognate protein HscA (TIGR01991). However, it is not designed to distinguish among DnaK paralogs in eukaryotes. Note that a number of dnaK genes have shadow ORFs in the same reverse (relative to dnaK) reading frame, a few of which have been assigned glutamate dehydrogenase activity. The significance of this observation is unclear; lengths of such shadow ORFs are highly variable as if the presumptive protein product is not conserved.
Probab=35.33 E-value=27 Score=31.99 Aligned_cols=54 Identities=26% Similarity=0.308 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHCCCCCCCe-EEEEecccchHHHHHHHHhh--------cCCCcEEEEeeee
Q 032216 91 KLLLEGALETFKKYSVKEENI-DVVWVPGSFEIGVVAQQLGK--------SGKYTAVLCIGAV 144 (145)
Q Consensus 91 ~~LleGA~~~L~~~Gv~~e~I-~vv~VPGAfELPlaak~La~--------s~~yDAVIaLG~V 144 (145)
+++.+-..+.|++.|+..++| .++-|=|+--+|.+-+.+.+ .-+.|-.||+||.
T Consensus 305 ~~~~~~i~~~l~~a~~~~~~i~~V~LvGGssriP~v~~~i~~~f~~~~~~~~~pdeava~GAa 367 (595)
T TIGR02350 305 ERTKEPVRQALKDAGLSASDIDEVILVGGSTRIPAVQELVKDFFGKEPNKSVNPDEVVAIGAA 367 (595)
T ss_pred HHHHHHHHHHHHHcCCCHhHCcEEEEECCcccChHHHHHHHHHhCCcccCCcCcHHHHHHHHH
Confidence 333344456777888876665 57789999999999887653 2256777777764
No 400
>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=35.19 E-value=2.1e+02 Score=25.25 Aligned_cols=63 Identities=13% Similarity=0.125 Sum_probs=39.9
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc-----hHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF-----EIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf-----ELPlaak~La~s~~yDAVIaLG 142 (145)
=.+|++|.. ++.......+...+.+++.|+.- .....+|-.. ++--.++++ +..+.|.||..+
T Consensus 172 W~~Vaiv~~--d~~yg~~~~~~~~~~~~~~gi~I--~~~~~i~~~~~~~~~~~~~~l~~i-~~~~arvIvl~~ 239 (469)
T cd06365 172 WTWVGLVIS--DDDRGEQFLSDLREEMQRNGICL--AFVEKIPVNMQLYLTRAEKYYNQI-MTSSAKVIIIYG 239 (469)
T ss_pred CeEEEEEEe--cChhHHHHHHHHHHHHHHCCeEE--EEEEEecCCchhhHHHHHHHHHHh-hcCCCeEEEEEc
Confidence 358998877 55556677788888899888741 1223345333 334445555 456788888765
No 401
>cd04390 RhoGAP_ARHGAP22_24_25 RhoGAP_ARHGAP22_24_25: GTPase-activator protein (GAP) domain for Rho-like GTPases found in ARHGAP22, 24 and 25-like proteins; longer isoforms of these proteins contain an additional N-terminal pleckstrin homology (PH) domain. ARHGAP25 (KIA0053) has been identified as a GAP for Rac1 and Cdc42. Short isoforms (without the PH domain) of ARHGAP24, called RC-GAP72 and p73RhoGAP, and of ARHGAP22, called p68RacGAP, has been shown to be involved in angiogenesis and endothelial cell capillary formation. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the r
Probab=35.06 E-value=99 Score=24.30 Aligned_cols=40 Identities=23% Similarity=0.379 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcC
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSG 133 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~ 133 (145)
..++.|++.+.++|+..+- ++++||.-..=-.++....++
T Consensus 24 ~~i~~~i~~l~~~gl~~eG--IFR~~G~~~~i~~l~~~~d~~ 63 (199)
T cd04390 24 ILVEQCVDFIREHGLKEEG--LFRLPGQANLVKQLQDAFDAG 63 (199)
T ss_pred hHHHHHHHHHHHcCCCCCC--eeeCCCCHHHHHHHHHHHhCC
Confidence 4677888888888887654 488899865444444444433
No 402
>PRK07282 acetolactate synthase catalytic subunit; Reviewed
Probab=34.59 E-value=97 Score=28.29 Aligned_cols=41 Identities=17% Similarity=0.245 Sum_probs=30.0
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+--.+.|+++|++ .++-+||.+.+|+. +.|.+..+.+-|.|
T Consensus 14 ~~i~~~L~~~Gv~----~vFgipG~~~~~l~-dal~~~~~i~~i~~ 54 (566)
T PRK07282 14 DLVLETLRDLGVD----TIFGYPGGAVLPLY-DAIYNFEGIRHILA 54 (566)
T ss_pred HHHHHHHHHcCCC----EEEecCCcchHHHH-HHHhhcCCceEEEe
Confidence 4557889999996 78999999999975 44544444555544
No 403
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=34.54 E-value=1.4e+02 Score=24.12 Aligned_cols=56 Identities=13% Similarity=0.110 Sum_probs=34.4
Q ss_pred CEEEEEEe----eecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 76 LRFALVVA----RFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 76 lRIaIVvA----rfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
.-|+|+.. ..+...-..|++|..++++++|+. +.+..-.. .| ....++||+|.++.
T Consensus 64 ~~i~v~~~~~~~~~~~~f~~~l~~~i~~~~~~~g~~---~~~~~~~~-~~--------~~~~~vDgiI~~~~ 123 (327)
T PRK10339 64 HILAIYSYQQELEINDPYYLAIRHGIETQCEKLGIE---LTNCYEHS-GL--------PDIKNVTGILIVGK 123 (327)
T ss_pred cEEEEEEccccccccCchHHHHHHHHHHHHHHCCCE---EEEeeccc-cc--------cccccCCEEEEeCC
Confidence 34677653 444445557899999999999974 33221111 11 12467999998763
No 404
>KOG2836 consensus Protein tyrosine phosphatase IVA1 [Signal transduction mechanisms]
Probab=34.28 E-value=72 Score=25.94 Aligned_cols=68 Identities=24% Similarity=0.279 Sum_probs=42.9
Q ss_pred CCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCC----------------CCCeEEEEec---ccchHHHHHHHHh--
Q 032216 72 KNEGLRFALVVARFNELVTKLLLEGALETFKKYSVK----------------EENIDVVWVP---GSFEIGVVAQQLG-- 130 (145)
Q Consensus 72 ~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~----------------~e~I~vv~VP---GAfELPlaak~La-- 130 (145)
.-++|||.|-.-.=|.. ++..+++|+++|+. .+-|++.+-| |++--+.+++...
T Consensus 13 sy~~MrFLIThnPtnaT-----ln~fieELkKygvttvVRVCe~TYdt~~lek~GI~Vldw~f~dg~ppp~qvv~~w~~l 87 (173)
T KOG2836|consen 13 SYKNMRFLITHNPTNAT-----LNKFIEELKKYGVTTVVRVCEPTYDTTPLEKEGITVLDWPFDDGAPPPNQVVDDWLSL 87 (173)
T ss_pred eccceEEEEecCCCchh-----HHHHHHHHHhcCCeEEEEecccccCCchhhhcCceEeecccccCCCCchHHHHHHHHH
Confidence 46789999987666654 56788999999985 2345555555 4444444444322
Q ss_pred ----hcCCCcEEEEeeee
Q 032216 131 ----KSGKYTAVLCIGAV 144 (145)
Q Consensus 131 ----~s~~yDAVIaLG~V 144 (145)
-....+..||.-||
T Consensus 88 ~~~~f~e~p~~cvavhcv 105 (173)
T KOG2836|consen 88 VKTKFREEPGCCVAVHCV 105 (173)
T ss_pred HHHHHhhCCCCeEEEEee
Confidence 13466777777665
No 405
>cd03799 GT1_amsK_like This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor.
Probab=33.93 E-value=1.8e+02 Score=22.87 Aligned_cols=39 Identities=10% Similarity=0.261 Sum_probs=24.4
Q ss_pred EEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEeccc
Q 032216 77 RFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGS 119 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGA 119 (145)
||++++..|=.. ++.-+..-.+.|.+.|.+ +.++.+...
T Consensus 1 ki~~~~~~~~~~-~~~~~~~~~~~L~~~g~~---v~v~~~~~~ 39 (355)
T cd03799 1 KIAYLVKEFPRL-SETFILREILALEAAGHE---VEIFSLRPP 39 (355)
T ss_pred CEEEECCCCCCc-chHHHHHHHHHHHhCCCe---EEEEEecCc
Confidence 577777666433 555566667788888874 666654443
No 406
>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=33.89 E-value=2e+02 Score=23.30 Aligned_cols=65 Identities=14% Similarity=0.090 Sum_probs=39.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..|++++... ..-.+.+.++..+.+++.|..-+-+...+. ++.=+.--.+.++. ..+.|+|++.+
T Consensus 138 ~~~v~~l~~~--~~~g~~~~~~~~~~~~~~g~~~~~v~~~~~~~~~~d~~~~v~~i~-~~~~d~ii~~~ 203 (346)
T cd06330 138 AKTWATINPD--YAYGQDAWADFKAALKRLRPDVEVVSEQWPKLGAPDYGSEITALL-AAKPDAIFSSL 203 (346)
T ss_pred ccEEEEECCc--hHHHHHHHHHHHHHHHHhCCCCeecccccCCCCCcccHHHHHHHH-hcCCCEEEEec
Confidence 4589998744 445566778888888888643111222222 35555555555554 45789988764
No 407
>cd04372 RhoGAP_chimaerin RhoGAP_chimaerin: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of chimaerins. Chimaerins are a family of phorbolester- and diacylglycerol-responsive GAPs specific for the Rho-like GTPase Rac. Chimaerins exist in two alternative splice forms that each contain a C-terminal GAP domain, and a central C1 domain which binds phorbol esters, inducing a conformational change that activates the protein; one splice form is lacking the N-terminal Src homology-2 (SH2) domain. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GT
Probab=33.88 E-value=98 Score=24.33 Aligned_cols=38 Identities=11% Similarity=0.068 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK 131 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~ 131 (145)
..++.|++.++++|+..| -++++||.-.-=-.++....
T Consensus 18 ~iv~~ci~~l~~~gl~~E--GIFR~sG~~~~i~~l~~~~d 55 (194)
T cd04372 18 MVVDMCIREIEARGLQSE--GLYRVSGFAEEIEDVKMAFD 55 (194)
T ss_pred hHHHHHHHHHHHcCCCcC--ceeecCCcHHHHHHHHHHHc
Confidence 467888999999998765 46889998654444444443
No 408
>PRK06882 acetolactate synthase 3 catalytic subunit; Validated
Probab=33.68 E-value=1.1e+02 Score=27.82 Aligned_cols=41 Identities=20% Similarity=0.272 Sum_probs=29.5
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+.-.+.|+++|++ .++-+||...+|+.-. +.++++.+-|.|
T Consensus 8 ~~l~~~L~~~GV~----~vFg~pG~~~~~l~~a-l~~~~~i~~v~~ 48 (574)
T PRK06882 8 EMVVQSLRDEGVE----YVFGYPGGSVLDIYDA-IHTLGGIEHVLV 48 (574)
T ss_pred HHHHHHHHHcCCC----EEEeCCCcchHHHHHH-HhhcCCCeEEEe
Confidence 4557889999996 7899999999998644 333334555544
No 409
>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=33.53 E-value=2.2e+02 Score=23.74 Aligned_cols=62 Identities=10% Similarity=0.089 Sum_probs=40.6
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEec-c--cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVP-G--SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VP-G--AfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+++|.. |..-.+...+.+.+.+++.|++ -+...++| | +-+.--.+.++.+ .+.|+|+..+
T Consensus 133 ~~v~~i~~--d~~~g~~~~~~~~~~~~~~G~~--vv~~~~~~~~~~~~d~s~~v~~l~~-~~pd~V~~~~ 197 (360)
T cd06357 133 KRVFLVGS--NYIYPYESNRIMRDLLEQRGGE--VLGERYLPLGASDEDFARIVEEIRE-AQPDFIFSTL 197 (360)
T ss_pred cEEEEECC--CCcchHHHHHHHHHHHHHcCCE--EEEEEEecCCCchhhHHHHHHHHHH-cCCCEEEEeC
Confidence 58888864 3344556778888889988874 22222232 4 8887777777654 4779998654
No 410
>PRK12474 hypothetical protein; Provisional
Probab=33.53 E-value=1.1e+02 Score=27.54 Aligned_cols=41 Identities=27% Similarity=0.455 Sum_probs=29.1
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+--.+.|+++|++ .++-+||.+++|+.-. |.+..+..-|.|
T Consensus 9 ~~l~~~L~~~GV~----~vFGvpG~~~~~l~da-l~~~~~i~~i~~ 49 (518)
T PRK12474 9 DSVVDTLLNCGVE----VCFANPGTSEMHFVAA-LDRVPRMRPVLC 49 (518)
T ss_pred HHHHHHHHHCCCC----EEEECCCcchHHHHHH-hhccCCceEEEe
Confidence 4557889999997 8899999999998754 323334444433
No 411
>PRK06066 acetyl-CoA acetyltransferase; Provisional
Probab=33.50 E-value=1.5e+02 Score=26.25 Aligned_cols=14 Identities=21% Similarity=0.088 Sum_probs=11.4
Q ss_pred hhcCCCcEEEEeee
Q 032216 130 GKSGKYTAVLCIGA 143 (145)
Q Consensus 130 a~s~~yDAVIaLG~ 143 (145)
.+++.+|-|+++|.
T Consensus 99 V~sG~~d~vLv~g~ 112 (385)
T PRK06066 99 INSGLANVVVVEAH 112 (385)
T ss_pred HHcCCCCEEEEEEE
Confidence 46889999998885
No 412
>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.
Probab=33.42 E-value=98 Score=26.63 Aligned_cols=49 Identities=18% Similarity=0.219 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 88 LVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 88 ~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+..+..++-|.+-++-+|++.+.++.+ +-=+|+ ..+++.+.++||.||+
T Consensus 153 D~S~~al~~a~~N~~lNg~~~~~~~~~-~~Dvf~---~l~~~~~~~~fD~IIl 201 (286)
T PF10672_consen 153 DSSKRALEWAKENAALNGLDLDRHRFI-QGDVFK---FLKRLKKGGRFDLIIL 201 (286)
T ss_dssp ES-HHHHHHHHHHHHHTT-CCTCEEEE-ES-HHH---HHHHHHHTT-EEEEEE
T ss_pred eCCHHHHHHHHHHHHHcCCCccceEEE-ecCHHH---HHHHHhcCCCCCEEEE
Confidence 456788899999999999987776655 333444 2344556679999986
No 413
>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=33.29 E-value=2.2e+02 Score=21.77 Aligned_cols=61 Identities=16% Similarity=0.202 Sum_probs=36.4
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHC-CCCCCCeEEEEecccc--hHH-HHHHHHhh-cCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKY-SVKEENIDVVWVPGSF--EIG-VVAQQLGK-SGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~-Gv~~e~I~vv~VPGAf--ELP-laak~La~-s~~yDAVIaLG 142 (145)
.||+++...... ....-.+|+.+.++++ |+. +...+... |-. -.++.+++ ..+.|||+|.+
T Consensus 122 ~~i~~i~~~~~~-~~~~R~~gf~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~ 187 (267)
T cd06322 122 GQVAIIDYPTVQ-SVVDRVRGFKEALADYPNIK-----IVAVQPGITRAEALTAAQNILQANPDLDGIFAFG 187 (267)
T ss_pred ceEEEEecCCCc-cHHHHHHHHHHHHHhCCCcE-----EEEecCCCChHHHHHHHHHHHHhCCCCCEEEEcC
Confidence 489998754332 3445569999999998 764 12222222 222 22344443 45799999865
No 414
>PRK01911 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=33.23 E-value=1.5e+02 Score=25.42 Aligned_cols=31 Identities=6% Similarity=0.267 Sum_probs=23.4
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCC
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVK 107 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~ 107 (145)
|||+||.-...++. ..+++...+.|+++|+.
T Consensus 1 m~igii~~~~~~~~-~~~~~~i~~~l~~~g~~ 31 (292)
T PRK01911 1 MKIAIFGQTYQESA-SPYIQELFDELEERGAE 31 (292)
T ss_pred CEEEEEeCCCCHHH-HHHHHHHHHHHHHCCCE
Confidence 68999976666554 45778888899999974
No 415
>cd08198 DHQS-like2 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis. Dehydroquinate synthase-like proteins. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. The activity of DHQS requires NAD as cofactor. Proteins of this family share sequence similarity and functional motifs with that of dehydroquinate synthase, but the specific function has not been characterized.
Probab=33.08 E-value=2.9e+02 Score=24.58 Aligned_cols=68 Identities=12% Similarity=0.049 Sum_probs=37.3
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCC-CeEEEEecc-cchHH------HHHHHHhhc--CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEE-NIDVVWVPG-SFEIG------VVAQQLGKS--GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e-~I~vv~VPG-AfELP------laak~La~s--~~yDAVIaLG 142 (145)
..|+.||.-+.=...-..+.+...+.|+++|+.-+ ...++.+|. .-.=| -+++.+.+. .+.|.||+||
T Consensus 30 ~~r~lvVtD~~v~~~~~~~~~~l~~~L~~~g~~~~v~~~~~~~~~ge~~k~~~~~v~~i~~~l~~~~~~r~~~IIalG 107 (369)
T cd08198 30 RPKVLVVIDSGVAQANPQLASDIQAYAAAHADALRLVAPPHIVPGGEACKNDPDLVEALHAAINRHGIDRHSYVIAIG 107 (369)
T ss_pred CCeEEEEECcchHHhhhhHHHHHHHHHHhcCCceeeeeeeEecCCCccCCChHHHHHHHHHHHHHcCCCcCcEEEEEC
Confidence 35888887765444333466777778888886421 023344554 21111 233444332 3456999998
No 416
>cd04409 RhoGAP_PARG1 RhoGAP_PARG1: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of PARG1 (PTPL1-associated RhoGAP1). PARG1 was originally cloned as an interaction partner of PTPL1, an intracellular protein-tyrosine phosphatase. PARG1 interacts with Rap2, also a member of the Ras small GTPase superfamily whose exact function is unknown, and shows strong preference for Rho. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=33.05 E-value=1.1e+02 Score=24.69 Aligned_cols=39 Identities=10% Similarity=0.005 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhc
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKS 132 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s 132 (145)
..++.|.+.++++|...|.| +++||+-.-=-.++...++
T Consensus 18 ~il~~ci~~ie~~gl~~EGI--fRvsG~~~~i~~l~~~~d~ 56 (211)
T cd04409 18 FIIKKCTSEIESRALCLKGI--YRVNGAKSRVEKLCQAFEN 56 (211)
T ss_pred cHHHHHHHHHHHcCCCCCCe--eECCCcHHHHHHHHHHHHc
Confidence 36788889999999876644 8999985544444444433
No 417
>PRK07789 acetolactate synthase 1 catalytic subunit; Validated
Probab=33.03 E-value=1.1e+02 Score=28.26 Aligned_cols=42 Identities=24% Similarity=0.277 Sum_probs=30.6
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+.-.+.|+++|++ .++-+||..++|+.-. |.++.+.+-|.|
T Consensus 34 a~~l~~~L~~~GV~----~vFgipG~~~~~l~da-l~~~~~i~~v~~ 75 (612)
T PRK07789 34 AQAVVRSLEELGVD----VVFGIPGGAILPVYDP-LFDSTKVRHVLV 75 (612)
T ss_pred HHHHHHHHHHCCCC----EEEEcCCcchHHHHHH-HhccCCceEEEe
Confidence 45667889999996 7899999999998643 444445555554
No 418
>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=32.98 E-value=1.5e+02 Score=24.13 Aligned_cols=63 Identities=10% Similarity=-0.020 Sum_probs=41.7
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecc--cchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPG--SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPG--AfELPlaak~La~s~~yDAVIaLG 142 (145)
-.|++++..... ....+.+...+.+++.|+. -..... -|| .-++--.++++.+ .+.|+||..+
T Consensus 135 ~~~v~ii~~~~~--~g~~~~~~~~~~~~~~g~~--v~~~~~~~~~~~~~d~~~~l~~i~~-~~~dvvi~~~ 200 (350)
T cd06366 135 WRRVATIYEDDD--YGSGGLPDLVDALQEAGIE--ISYRAAFPPSANDDDITDALKKLKE-KDSRVIVVHF 200 (350)
T ss_pred CcEEEEEEEcCc--ccchhHHHHHHHHHHcCCE--EEEEeccCCCCChhHHHHHHHHHhc-CCCeEEEEEC
Confidence 359999987543 4566788899999999974 122222 344 3566666777654 3578888654
No 419
>PRK07524 hypothetical protein; Provisional
Probab=32.90 E-value=1.1e+02 Score=27.55 Aligned_cols=41 Identities=20% Similarity=0.279 Sum_probs=29.7
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+.-.+.|+++|+. .++-+||..++|+. +.|.+ .+..-|.|
T Consensus 5 a~~l~~~L~~~Gv~----~vFg~pG~~~~~~~-dal~~-~~i~~i~~ 45 (535)
T PRK07524 5 GEALVRLLEAYGVE----TVFGIPGVHTVELY-RGLAG-SGIRHVTP 45 (535)
T ss_pred HHHHHHHHHHcCCC----EEEeCCCcchHHHH-HHHhh-cCCcEEEe
Confidence 35567899999996 78999999999996 45533 34444443
No 420
>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=32.87 E-value=1.3e+02 Score=25.03 Aligned_cols=64 Identities=8% Similarity=0.009 Sum_probs=41.0
Q ss_pred CCEEEEEEeeecHHHHHHHH---HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLL---EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~Ll---eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..|++++..... -.+.+. ....+.|+++|+..- -++..-||.-+..-.++++.+ .+.|+|++.+
T Consensus 145 ~k~v~ii~~~~~--~g~~~~~~~~~~~~~~~~~G~~vv-~~~~~~~~~~D~~~~v~~ik~-a~pD~v~~~~ 211 (357)
T cd06337 145 NKKVGILYPNDP--DGNAFADPVIGLPAALADAGYKLV-DPGRFEPGTDDFSSQINAFKR-EGVDIVTGFA 211 (357)
T ss_pred CceEEEEeecCc--hhHHHHHhhhcccHHHHhCCcEEe-cccccCCCCCcHHHHHHHHHh-cCCCEEEeCC
Confidence 569999975432 233332 344567888897521 123446788888878888764 5689998764
No 421
>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=32.79 E-value=2.5e+02 Score=22.27 Aligned_cols=64 Identities=14% Similarity=0.153 Sum_probs=38.6
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe-cccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV-PGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V-PGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..||++|.....+. ...+.++..+.+++.|+. .+...+. +|.-+.--.++++. +.+.|+|+..+
T Consensus 135 ~~~v~ii~~~~~~~-~~~~~~~~~~~~~~~g~~--v~~~~~~~~~~~d~~~~~~~~~-~~~~d~i~~~~ 199 (334)
T cd06347 135 AKKAAVLYDNSSDY-SKGLAKAFKEAFKKLGGE--IVAEETFNAGDTDFSAQLTKIK-AKNPDVIFLPG 199 (334)
T ss_pred CcEEEEEEeCCCch-hHHHHHHHHHHHHHcCCE--EEEEEEecCCCCcHHHHHHHHH-hcCCCEEEEcC
Confidence 45899998543222 334567778888888874 2333333 55555544556664 45788887654
No 422
>PRK03372 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=32.77 E-value=1.2e+02 Score=26.23 Aligned_cols=31 Identities=13% Similarity=0.018 Sum_probs=22.5
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCC
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVK 107 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~ 107 (145)
.||+||.-..+++.. .+.+...+.|+++|+.
T Consensus 6 ~~I~iv~~~~~~~~~-~~~~~l~~~L~~~g~~ 36 (306)
T PRK03372 6 RRVLLVAHTGRDEAT-EAARRVAKQLGDAGIG 36 (306)
T ss_pred cEEEEEecCCCHHHH-HHHHHHHHHHHHCCCE
Confidence 369998666655544 4678888889999974
No 423
>PRK13057 putative lipid kinase; Reviewed
Probab=32.70 E-value=1.4e+02 Score=24.61 Aligned_cols=44 Identities=11% Similarity=0.080 Sum_probs=28.2
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
.+...+.|+++|.+ +++..-...-+..-+++.+ ..++|.||+.|
T Consensus 15 ~~~i~~~l~~~g~~---~~~~~t~~~~~a~~~~~~~--~~~~d~iiv~G 58 (287)
T PRK13057 15 LAAARAALEAAGLE---LVEPPAEDPDDLSEVIEAY--ADGVDLVIVGG 58 (287)
T ss_pred HHHHHHHHHHcCCe---EEEEecCCHHHHHHHHHHH--HcCCCEEEEEC
Confidence 34556778888873 5555554455555566653 35689999887
No 424
>TIGR03393 indolpyr_decarb indolepyruvate decarboxylase, Erwinia family. A family of closely related, thiamine pyrophosphate-dependent enzymes includes indolepyruvate decarboxylase (EC 4.1.1.74), phenylpyruvate decarboxylase (EC 4.1.1.43), pyruvate decarboxylase (EC 4.1.1.1), branched-chain alpha-ketoacid decarboxylase, etc.. Members of this group of homologs may overlap in specificity. Within the larger family, this model represents a clade of bacterial indolepyruvate decarboxylases, part of a pathway for biosynthesis of the plant hormone indole-3-acetic acid. Typically, these species interact with plants, as pathogens or as beneficial, root-associated bacteria.
Probab=32.41 E-value=94 Score=28.06 Aligned_cols=28 Identities=14% Similarity=0.426 Sum_probs=23.8
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHH
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVA 126 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaa 126 (145)
+.-.+.|+++|++ .++-+||..++|+.-
T Consensus 5 ~~l~~~L~~~Gv~----~vFG~pG~~~~~l~d 32 (539)
T TIGR03393 5 DYLLDRLTDIGID----HLFGVPGDYNLQFLD 32 (539)
T ss_pred HHHHHHHHHcCCC----EEEECCCCchHHHHH
Confidence 4567889999997 899999999999853
No 425
>cd02525 Succinoglycan_BP_ExoA ExoA is involved in the biosynthesis of succinoglycan. Succinoglycan Biosynthesis Protein ExoA catalyzes the formation of a beta-1,3 linkage of the second sugar (glucose) of the succinoglycan with the galactose on the lipid carrie. Succinoglycan is an acidic exopolysaccharide that is important for invasion of the nodules. Succinoglycan is a high-molecular-weight polymer composed of repeating octasaccharide units. These units are synthesized on membrane-bound isoprenoid lipid carriers, beginning with galactose followed by seven glucose molecules, and modified by the addition of acetate, succinate, and pyruvate. ExoA is a membrane protein with a transmembrance domain at c-terminus.
Probab=32.36 E-value=1.1e+02 Score=22.89 Aligned_cols=26 Identities=23% Similarity=0.276 Sum_probs=11.7
Q ss_pred EEEEEeeecHHHHHHHHHHHHHHHHHCCC
Q 032216 78 FALVVARFNELVTKLLLEGALETFKKYSV 106 (145)
Q Consensus 78 IaIVvArfN~~It~~LleGA~~~L~~~Gv 106 (145)
+.||..-||+. ..+..+++.|.+...
T Consensus 2 ~sIiip~~n~~---~~l~~~l~sl~~q~~ 27 (249)
T cd02525 2 VSIIIPVRNEE---KYIEELLESLLNQSY 27 (249)
T ss_pred EEEEEEcCCch---hhHHHHHHHHHhccC
Confidence 44555555543 233444444444433
No 426
>TIGR01504 glyox_carbo_lig glyoxylate carboligase. Glyoxylate carboligase, also called tartronate-semialdehyde synthase, releases CO2 while synthesizing a single molecule of tartronate semialdehyde from two molecules of glyoxylate. It is a thiamine pyrophosphate-dependent enzyme, closely related in sequence to the large subunit of acetolactate synthase. In the D-glycerate pathway, part of allantoin degradation in the Enterobacteriaceae, tartronate semialdehyde is converted to D-glycerate and then 3-phosphoglycerate, a product of glycolysis and entry point in the general metabolism.
Probab=32.05 E-value=1.1e+02 Score=28.17 Aligned_cols=41 Identities=20% Similarity=0.247 Sum_probs=29.2
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+.-.+.|+++|++ .++-+||...+|+. ..|.+..+..-|.|
T Consensus 7 ~~l~~~L~~~GV~----~vFGvpG~~~~~l~-dal~~~~~i~~V~~ 47 (588)
T TIGR01504 7 DAAVYVLEKEGIT----TAFGVPGAAINPFY-SALKAHGGIRHILA 47 (588)
T ss_pred HHHHHHHHHcCCC----EEEECCCCCcHHHH-HHHhhcCCCcEEee
Confidence 4456789999997 78999999999985 44443334554443
No 427
>cd08549 G1PDH_related Glycerol-1-phosphate_dehydrogenase and related proteins. Bacterial and archeal glycerol-1-phosphate dehydrogenase-like oxidoreductases. The proteins have similarity with glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays a role in the synthesis of phosphoglycerolipids in gram-positive bacterial species. It catalyzes the reversibly reduction of dihydroxyacetone phosphate (DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent manner. Its activity requires Ni++ ion. It also contains archaeal Sn-glycerol-1-phosphate dehydrogenase (Gro1PDH) that plays an important role in the formation of the enantiomeric configuration of the glycerophosphate backbone (sn-glycerol-1-phosphate) of archaeal ether lipids.
Probab=32.05 E-value=2.9e+02 Score=23.56 Aligned_cols=59 Identities=12% Similarity=-0.050 Sum_probs=32.3
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc-----cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG-----SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG-----AfELPlaak~La~s~~yDAVIaLG 142 (145)
.|+.||..+.=... ..+...+.|++.|+. +.++. ++ .+|-=..+-..++. ++|.||++|
T Consensus 25 ~kvlivtd~~~~~~---~~~~i~~~L~~~~~~---~~i~~-~~~~~~p~~~~v~~~~~~~~~-~~d~IIaiG 88 (332)
T cd08549 25 SKIMIVCGNNTYKV---AGKEIIERLESNNFT---KEVLE-RDSLLIPDEYELGEVLIKLDK-DTEFLLGIG 88 (332)
T ss_pred CcEEEEECCcHHHH---HHHHHHHHHHHcCCe---EEEEe-cCCCCCCCHHHHHHHHHHhhc-CCCEEEEEC
Confidence 58888876543332 236666778777863 33321 12 12211122222334 999999998
No 428
>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=32.01 E-value=2.2e+02 Score=21.44 Aligned_cols=21 Identities=14% Similarity=0.246 Sum_probs=9.7
Q ss_pred eEEEEecccchHHHHHHHHhh
Q 032216 111 IDVVWVPGSFEIGVVAQQLGK 131 (145)
Q Consensus 111 I~vv~VPGAfELPlaak~La~ 131 (145)
++.+-.|+.-+...++..+++
T Consensus 68 v~~iig~~~~~~~~~~~~~~~ 88 (299)
T cd04509 68 VDALVGPVSSGVALAVAPVAE 88 (299)
T ss_pred ceEEEcCCCcHHHHHHHHHHh
Confidence 345555655444333444443
No 429
>PF00867 XPG_I: XPG I-region; InterPro: IPR006086 This entry represents endonucleases that cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA. The endonuclease binds 2 magnesium ions per subunit. which probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding.; GO: 0004518 nuclease activity, 0006281 DNA repair; PDB: 1UL1_Z 3Q8K_A 3Q8M_A 3Q8L_A 2IZO_A 1A77_A 1A76_A 3QEA_Z 3QE9_Y 3QEB_Z ....
Probab=31.96 E-value=91 Score=21.79 Aligned_cols=29 Identities=21% Similarity=0.375 Sum_probs=20.1
Q ss_pred CeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 110 NIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 110 ~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+|..+..| ||-=..+..|.+++..|+|+.
T Consensus 4 gv~~i~AP--~EAeAq~A~L~~~g~vd~V~t 32 (94)
T PF00867_consen 4 GVPYIVAP--YEAEAQCAYLERNGLVDAVIT 32 (94)
T ss_dssp T-EEEE-S--S-HHHHHHHHHHTTSSSEEE-
T ss_pred CCeEEEcC--chHHHHHHHHHHhcceeEEEe
Confidence 35778888 666677778888899999985
No 430
>CHL00094 dnaK heat shock protein 70
Probab=31.77 E-value=54 Score=30.47 Aligned_cols=67 Identities=30% Similarity=0.388 Sum_probs=44.7
Q ss_pred EEEEEEeeecHHHHHHHHHHH----HHHHHHCCCCCCCe-EEEEecccchHHHHHHHHhh--------cCCCcEEEEeee
Q 032216 77 RFALVVARFNELVTKLLLEGA----LETFKKYSVKEENI-DVVWVPGSFEIGVVAQQLGK--------SGKYTAVLCIGA 143 (145)
Q Consensus 77 RIaIVvArfN~~It~~LleGA----~~~L~~~Gv~~e~I-~vv~VPGAfELPlaak~La~--------s~~yDAVIaLG~ 143 (145)
++-|-.++|++. ++.|++.+ .+.|++.|+..++| .++-|=|+--+|.+-+.+.+ +-+.|-.||+||
T Consensus 292 ~~~itR~~fe~l-~~~l~~~~~~~i~~~L~~a~~~~~~i~~ViLvGGssriP~v~~~l~~~fg~~~~~~~~pdeava~GA 370 (621)
T CHL00094 292 EKTLTRAKFEEL-CSDLINRCRIPVENALKDAKLDKSDIDEVVLVGGSTRIPAIQELVKKLLGKKPNQSVNPDEVVAIGA 370 (621)
T ss_pred EEEEcHHHHHHH-HHHHHHHHHHHHHHHHHHcCCChhhCcEEEEECCccCChHHHHHHHHHhCCCcCcCCCchhHHHhhh
Confidence 334555556543 33455555 46777888865555 57889999999999887653 224577788887
Q ss_pred e
Q 032216 144 V 144 (145)
Q Consensus 144 V 144 (145)
-
T Consensus 371 A 371 (621)
T CHL00094 371 A 371 (621)
T ss_pred H
Confidence 5
No 431
>PF01425 Amidase: Amidase; InterPro: IPR000120 Amidase signature (AS) enzymes are a large group of hydrolytic enzymes that contain a conserved stretch of approximately 130 amino acids known as the AS sequence. They are widespread, being found in both prokaryotes and eukaryotes. AS enzymes catalyse the hydrolysis of amide bonds (CO-NH2), although the family has diverged widely with regard to substrate specificity and function. Nonetheless, these enzymes maintain a core alpha/beta/alpha structure, where the topologies of the N- and C-terminal halves are similar. AS enzymes characteristically have a highly conserved C-terminal region rich in serine and glycine residues, but devoid of aspartic acid and histidine residues, therefore they differ from classical serine hydrolases. These enzymes posses a unique, highly conserved Ser-Ser-Lys catalytic triad used for amide hydrolysis, although the catalytic mechanism for acyl-enzyme intermediate formation can differ between enzymes []. Examples of AS enzymes include: Peptide amidase (Pam) [], which catalyses the hydrolysis of the C-terminal amide bond of peptides. Fatty acid amide hydrolases [], which hydrolyse fatty acid amid substrates (e.g. cannabinoid anandamide and sleep-inducing oleamide), thereby controlling the level and duration of signalling induced by this diverse class of lipid transmitters. Malonamidase E2 [], which catalyses the hydrolysis of malonamate into malonate and ammonia, and which is involved in the transport of fixed nitrogen from bacteroids to plant cells in symbiotic nitrogen metabolism. Subunit A of Glu-tRNA(Gln) amidotransferase [],a heterotrimeric enzyme that catalyses the formation of Gln-tRNA(Gln) by the transamidation of misacylated Glu-tRNA(Gln) via amidolysis of glutamine. ; GO: 0016884 carbon-nitrogen ligase activity, with glutamine as amido-N-donor; PDB: 1OCL_B 1OBK_A 1OBL_B 1OBJ_A 1OCM_B 1OCH_A 1OCK_B 1OBI_A 1O9Q_A 1O9N_B ....
Probab=31.72 E-value=1.7e+02 Score=24.24 Aligned_cols=50 Identities=18% Similarity=0.077 Sum_probs=33.2
Q ss_pred CCCCCEEEEEEeee----cHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHH
Q 032216 72 KNEGLRFALVVARF----NELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGV 124 (145)
Q Consensus 72 ~~~~lRIaIVvArf----N~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPl 124 (145)
..+++|||++...+ -+.-+.+.++.+++.|++.|.. +..+..|-..|.-.
T Consensus 234 ~~~~lrIGv~~~~~~~~~~~~~v~~a~~~a~~~L~~~G~~---vv~~~~p~~~~~~~ 287 (441)
T PF01425_consen 234 SLKGLRIGVPRDDGQWVPVDPEVRRAFEEAAEALEAAGAE---VVEVDLPDLDEAMD 287 (441)
T ss_dssp TTTT-EEEEEGGGG-SSTSSHHHHHHHHHHHHHHHHTT-E---EEEE--TTGGHHHH
T ss_pred cccCccccccccccccccccHHHHHHHHHHHHhhcccccc---cccccCchHHHHHH
Confidence 35679999999876 1555666779999999999963 55556666555443
No 432
>TIGR01728 SsuA_fam ABC transporter, substrate-binding protein, aliphatic sulfonates family. Members of this family are substrate-binding periplasmic proteins of ABC transporters. This subfamily includes SsuA, a member of a transporter operon needed to obtain sulfur from aliphatic sulfonates. Related proteins outside the scope of this model include taurine (NH2-CH2-CH2-S03H) binding proteins, the probable sulfate ester binding protein AtsR, and the probable aromatic sulfonate binding protein AsfC. All these families make sulfur available when Cys and sulfate levels are low. Please note that phylogenetic analysis by neighbor-joining suggests that a number of sequences belonging to this family have been excluded because of scoring lower than taurine-binding proteins.
Probab=31.47 E-value=1.7e+02 Score=22.61 Aligned_cols=57 Identities=14% Similarity=0.144 Sum_probs=31.3
Q ss_pred CCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 72 KNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 72 ~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
+-++.||++.... . .+.++. ..|++.|+..+++..+..+ . +-+. .+.++++.|+++.
T Consensus 98 dL~Gk~i~~~~~~---~-~~~~~~---~~l~~~G~~~~~v~~~~~~-~---~~~~-~al~~g~vda~~~ 154 (288)
T TIGR01728 98 DLKGKRIAVPKGG---S-GHDLLL---RALLKAGLSGDDVTILYLG-P---SDAR-AAFAAGQVDAWAI 154 (288)
T ss_pred HcCCCEEEecCCc---c-HHHHHH---HHHHHcCCCccceeEEecC-c---HHHH-HHHHCCCCCEEEe
Confidence 4567788864321 1 222332 2566779876666554332 2 2233 3446788998875
No 433
>PRK05790 putative acyltransferase; Provisional
Probab=31.32 E-value=1.4e+02 Score=25.85 Aligned_cols=66 Identities=17% Similarity=0.155 Sum_probs=0.0
Q ss_pred EEEEEeeecHH--------HHHHHHHHHHHHHHHCCCCCCCeEEEEe-----cccchHH---------------------
Q 032216 78 FALVVARFNEL--------VTKLLLEGALETFKKYSVKEENIDVVWV-----PGSFEIG--------------------- 123 (145)
Q Consensus 78 IaIVvArfN~~--------It~~LleGA~~~L~~~Gv~~e~I~vv~V-----PGAfELP--------------------- 123 (145)
+++..+.|.+. ..+-..+.+.+.|++.|+++++||-+.+ +|....|
T Consensus 7 vG~~~tp~~r~~g~~~~~~~~~La~~A~~~AL~dAgl~~~dID~vi~g~~~~~~~~~~~~~~~~~~~gl~~~~~~~~v~~ 86 (393)
T PRK05790 7 VSAARTPIGKFGGALKDVSAVELGAIVIKAALERAGVPPEQVDEVIMGQVLQAGAGQNPARQAALKAGLPVEVPALTINK 86 (393)
T ss_pred EeeecCCccCCCCCCCCCCHHHHHHHHHHHHHHHcCCCHHHCCeEEEEEecCCCCCCcHHHHHHHHcCCCCCCceeeecc
Q ss_pred ---------HHHHHHhhcCCCcEEEEeee
Q 032216 124 ---------VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 124 ---------laak~La~s~~yDAVIaLG~ 143 (145)
..+..+.+++.+|-+++.|+
T Consensus 87 ~Casg~~al~~A~~~I~sG~~d~vLv~G~ 115 (393)
T PRK05790 87 VCGSGLKAVALAAQAIRAGDADIVVAGGQ 115 (393)
T ss_pred cchHHHHHHHHHHHHHHcCCCCEEEEEee
No 434
>PF11181 YflT: Heat induced stress protein YflT
Probab=31.28 E-value=71 Score=22.78 Aligned_cols=22 Identities=32% Similarity=0.312 Sum_probs=19.6
Q ss_pred HHHHHHHHHHCCCCCCCeEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVW 115 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~ 115 (145)
+..+++.|++.|..+++|.++.
T Consensus 12 ~~~~I~~L~~~Gy~~ddI~Vva 33 (103)
T PF11181_consen 12 ALSAIEELKAQGYSEDDIYVVA 33 (103)
T ss_pred HHHHHHHHHHcCCCcccEEEEE
Confidence 4678999999999999999986
No 435
>cd04376 RhoGAP_ARHGAP6 RhoGAP_ARHGAP6: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of ArhGAP6-like proteins. ArhGAP6 shows GAP activity towards RhoA, but not towards Cdc42 and Rac1. ArhGAP6 is often deleted in microphthalmia with linear skin defects syndrome (MLS); MLS is a severe X-linked developmental disorder. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=31.05 E-value=1.3e+02 Score=24.19 Aligned_cols=39 Identities=13% Similarity=0.031 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhc
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKS 132 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s 132 (145)
..++.|++.|.++|+..|- ++++||+-.-=-.++....+
T Consensus 11 ~iv~~ci~~l~~~gl~~EG--IFR~~G~~~~i~~l~~~~d~ 49 (206)
T cd04376 11 RLVESCCQHLEKHGLQTVG--IFRVGSSKKRVRQLREEFDR 49 (206)
T ss_pred HHHHHHHHHHHHcCCCCCc--eeeCCCCHHHHHHHHHHHhc
Confidence 4678889999999987664 48999986543333433333
No 436
>COG3875 Uncharacterized conserved protein [Function unknown]
Probab=30.97 E-value=1.1e+02 Score=28.14 Aligned_cols=105 Identities=25% Similarity=0.257 Sum_probs=62.8
Q ss_pred ccccceeecCCccccccceeeccCCCCCCCccccCccccccccchhhhhhhcccchhhhhhhhhccccCCCCCCEEEEEE
Q 032216 3 LNLKTTIHHSPLASSSRQFINGFSPKPTSMSFSRSSSLKGFGTQIAIERKERLSFVQTEAVRHLTGFLTKNEGLRFALVV 82 (145)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~g~l~~~~~lRIaIVv 82 (145)
+|+.|.+..-|++-.|.-|..-.-+|.. +.+..++- + ....+|+.+.-..+. .++..+ .+..||+||+
T Consensus 6 ~~~~~~~k~ipl~f~~~~~~~~~v~k~~--~~~~~~sE-~---E~li~k~L~npI~sk----kLsElv--~~~k~ivvI~ 73 (423)
T COG3875 6 MNMDTNIKKIPLAFGSGVFELNIVEKNI--SDLILPSE-K---EKLIEKKLENPINSK----KLSELV--NPEKRIVVIV 73 (423)
T ss_pred CCCcccccccceeecCCchhhhhhhhcc--cccccccC-c---cHHHHHHHhCccchH----HHHHHh--CccceEEEEE
Confidence 5666777777888887777665555422 22222221 0 012344444443333 233322 3456999999
Q ss_pred eeecH-HHHHHHHHHHHHHHHHCCCCCCCeEEEEeccc
Q 032216 83 ARFNE-LVTKLLLEGALETFKKYSVKEENIDVVWVPGS 119 (145)
Q Consensus 83 ArfN~-~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGA 119 (145)
+.+-+ .-+.....--+++|...|+.++||.++-.-|.
T Consensus 74 sD~TRptpt~~Iap~L~reL~~gg~~d~ni~ii~A~G~ 111 (423)
T COG3875 74 SDVTRPTPTKKIAPNLLRELYLGGAKDENITIIFALGL 111 (423)
T ss_pred ccCcCCCchhhhhHHHHHHHHhcCCCcccEEEEEeccc
Confidence 98873 33444555557889999999999999777665
No 437
>TIGR03111 glyc2_xrt_Gpos1 putative glycosyltransferase TIGR03111. Members of this protein family probable glycosyltransferases of family 2, whose genes are near those for Gram-positive proteins (TIGR03110) related to the proposed exosortase (TIGR02602).
Probab=30.62 E-value=1.6e+02 Score=25.90 Aligned_cols=39 Identities=15% Similarity=0.188 Sum_probs=31.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEe
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWV 116 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~V 116 (145)
..+|.||..-||++ ..+..+++.+.+.....+.++++-|
T Consensus 48 ~P~vsVIIP~yNe~---~~l~~~l~sl~~q~yp~~~~eIiVV 86 (439)
T TIGR03111 48 LPDITIIIPVYNSE---DTLFNCIESIYNQTYPIELIDIILA 86 (439)
T ss_pred CCCEEEEEEeCCCh---HHHHHHHHHHHhcCCCCCCeEEEEE
Confidence 45799999999988 6778899999988887665655544
No 438
>cd01743 GATase1_Anthranilate_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase. Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase (ASase). This group contains proteins similar to para-aminobenzoate (PABA) synthase and ASase. These enzymes catalyze similar reactions and produce similar products, PABA and ortho-aminobenzoate (anthranilate). Each enzyme is composed of non-identical subunits: a glutamine amidotransferase subunit (component II) and a subunit that produces an aminobenzoate products (component I). ASase catalyses the synthesis of anthranilate from chorismate and glutamine and is a tetrameric protein comprising two copies each of components I and II. Component II of ASase belongs to the family of triad GTases which hydrolyze glutamine and transfer nascent ammonia between the active sites. In some bacteria, such as Escherichia coli, component II can be much larger than in other organisms, due to the prese
Probab=30.62 E-value=1.2e+02 Score=23.13 Aligned_cols=45 Identities=11% Similarity=-0.035 Sum_probs=27.4
Q ss_pred ecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 85 FNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 85 fN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
|++..+..+. +.|++.|+ +++++...-..|.|. .-.+|||||..|
T Consensus 6 ~~~~~~~~~~----~~l~~~G~---~~~~~~~~~~~~~~~------~~~~~dgvil~g 50 (184)
T cd01743 6 NYDSFTYNLV----QYLRELGA---EVVVVRNDEITLEEL------ELLNPDAIVISP 50 (184)
T ss_pred CCCccHHHHH----HHHHHcCC---ceEEEeCCCCCHHHH------hhcCCCEEEECC
Confidence 5555555443 34456677 467777766666542 124799988875
No 439
>cd04383 RhoGAP_srGAP RhoGAP_srGAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in srGAPs. srGAPs are components of the intracellular part of Slit-Robo signalling pathway that is important for axon guidance and cell migration. srGAPs contain an N-terminal FCH domain, a central RhoGAP domain and a C-terminal SH3 domain; this SH3 domain interacts with the intracellular proline-rich-tail of the Roundabout receptor (Robo). This interaction with Robo then activates the rhoGAP domain which in turn inhibits Cdc42 activity. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific group
Probab=30.50 E-value=1.3e+02 Score=23.72 Aligned_cols=39 Identities=15% Similarity=0.182 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhc
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKS 132 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s 132 (145)
..++.|++.|.++|...| -++++||+-.-=-.++...++
T Consensus 20 ~~v~~~i~~l~~~gl~~E--GIFRv~G~~~~i~~l~~~~d~ 58 (188)
T cd04383 20 LVVESCIRFINLYGLQHQ--GIFRVSGSQVEVNDIKNAFER 58 (188)
T ss_pred hHHHHHHHHHHHcCCCCC--CeeecCCCHHHHHHHHHHHhc
Confidence 467788999999998755 568999997654444444444
No 440
>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.
Probab=30.47 E-value=53 Score=25.59 Aligned_cols=49 Identities=20% Similarity=0.280 Sum_probs=32.1
Q ss_pred EEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 80 LVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 80 IVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
++-+..+.. ++++|.+-++..|+. +.|++. .-=+.++| ...+.+|.||+
T Consensus 64 ~~g~Di~~~----~v~~a~~N~~~ag~~-~~i~~~-~~D~~~l~------~~~~~~d~Ivt 112 (179)
T PF01170_consen 64 IIGSDIDPK----AVRGARENLKAAGVE-DYIDFI-QWDARELP------LPDGSVDAIVT 112 (179)
T ss_dssp EEEEESSHH----HHHHHHHHHHHTT-C-GGEEEE-E--GGGGG------GTTSBSCEEEE
T ss_pred EEecCCCHH----HHHHHHHHHHhcccC-CceEEE-ecchhhcc------cccCCCCEEEE
Confidence 555555554 789999999999996 334443 44567777 34568898886
No 441
>PRK06158 thiolase; Provisional
Probab=29.89 E-value=54 Score=28.52 Aligned_cols=28 Identities=14% Similarity=0.281 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCeEEEEe
Q 032216 89 VTKLLLEGALETFKKYSVKEENIDVVWV 116 (145)
Q Consensus 89 It~~LleGA~~~L~~~Gv~~e~I~vv~V 116 (145)
..+-+.+.+.+.|++.|+..++||.+.+
T Consensus 28 ~~eL~~eA~~~Al~dAgl~~~dID~iv~ 55 (384)
T PRK06158 28 AMELLAQAAHRALADAGLTMADVDGLFT 55 (384)
T ss_pred HHHHHHHHHHHHHHHcCCCHHHCCEEEE
Confidence 4445555555555555655555555544
No 442
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=29.87 E-value=41 Score=26.32 Aligned_cols=33 Identities=21% Similarity=0.404 Sum_probs=18.8
Q ss_pred CCeEEEEecccchHH------HHHHHHhhcCCCcEEEEe
Q 032216 109 ENIDVVWVPGSFEIG------VVAQQLGKSGKYTAVLCI 141 (145)
Q Consensus 109 e~I~vv~VPGAfELP------laak~La~s~~yDAVIaL 141 (145)
..+.+++.||.|.+- -++......+++|+||.+
T Consensus 47 ~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~ii~V 85 (156)
T PF02421_consen 47 QQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLIIVV 85 (156)
T ss_dssp EEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEEEEE
T ss_pred ceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEEEEE
Confidence 578999999988653 122223335789999875
No 443
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=29.77 E-value=2.7e+02 Score=23.61 Aligned_cols=66 Identities=11% Similarity=0.010 Sum_probs=38.2
Q ss_pred CCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHHHH---HHHHh-hcCCCcEEEEee
Q 032216 74 EGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIGVV---AQQLG-KSGKYTAVLCIG 142 (145)
Q Consensus 74 ~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELPla---ak~La-~s~~yDAVIaLG 142 (145)
.+-||+++.+.-+..-...-.+++.+.+++.+- +++++. .+|.++.--+ ++.++ +..+.|||+|.+
T Consensus 147 g~gki~il~g~~~~~~~~~r~~g~~~~l~~~~p---~~~vv~~~~~~~d~~~a~~~~~~lL~~~pdi~aI~~~~ 217 (336)
T PRK15408 147 DKAKVAFFYSSPTVTDQNQWVKEAKAKIAKEHP---GWEIVTTQFGYNDATKSLQTAEGILKAYPDLDAIIAPD 217 (336)
T ss_pred CCCEEEEEECCCCCccHHHHHHHHHHHHHhhCC---CCEEEeecCCCCcHHHHHHHHHHHHHHCCCCcEEEECC
Confidence 345999998654322223445788888765432 345544 3566655442 33444 346799999864
No 444
>PRK01175 phosphoribosylformylglycinamidine synthase I; Provisional
Probab=29.62 E-value=1.4e+02 Score=25.24 Aligned_cols=53 Identities=15% Similarity=0.229 Sum_probs=30.3
Q ss_pred CCEEEEEEe-eecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVA-RFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvA-rfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
.+||||++. -+|.+. ...+.|++.|+. ++++++-..-+.+ . .-.+||++|..|
T Consensus 3 ~~kvaVl~~pG~n~d~------e~~~Al~~aG~~---v~~v~~~~~~~~~---~---~l~~~DgLvipG 56 (261)
T PRK01175 3 SIRVAVLRMEGTNCED------ETVKAFRRLGVE---PEYVHINDLAAER---K---SVSDYDCLVIPG 56 (261)
T ss_pred CCEEEEEeCCCCCCHH------HHHHHHHHCCCc---EEEEeeccccccc---c---chhhCCEEEECC
Confidence 479999997 677552 335778788874 3344332111111 0 114688888776
No 445
>TIGR03394 indol_phenyl_DC indolepyruvate/phenylpyruvate decarboxylase, Azospirillum family. A family of closely related, thiamine pyrophosphate-dependent enzymes includes indolepyruvate decarboxylase (EC 4.1.1.74), phenylpyruvate decarboxylase (EC 4.1.1.43), pyruvate decarboxylase (EC 4.1.1.1), branched-chain alpha-ketoacid decarboxylase, etc.. Members of this group of homologs may overlap in specificity. This model represents a clade that includes a Azospirillum brasilense member active as both phenylpyruvate decarboxylase and indolepyruvate decarboxylase.
Probab=29.57 E-value=1.2e+02 Score=27.55 Aligned_cols=32 Identities=19% Similarity=0.455 Sum_probs=25.5
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK 131 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~ 131 (145)
+--.+.|+++|++ .++-|||..++|+. +.|.+
T Consensus 4 ~~l~~~L~~~Gv~----~vFGvpG~~~~~l~-~al~~ 35 (535)
T TIGR03394 4 EALLRALKDRGAQ----EMFGIPGDFALPFF-KVIEE 35 (535)
T ss_pred HHHHHHHHHcCCC----EEEECCCcccHHHH-HHHhh
Confidence 4456889999997 89999999999985 44433
No 446
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=29.54 E-value=1e+02 Score=24.83 Aligned_cols=61 Identities=11% Similarity=0.003 Sum_probs=30.9
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
..|.+|++...+. ++.+.+++.|+.-..++....+..-+-.-.+...++.-++|-+|+.|+
T Consensus 29 ~~I~~vvs~~~~~-------~~~~~a~~~gIp~~~~~~~~~~~~~~~~~~~~~~l~~~~~D~iv~~~~ 89 (200)
T PRK05647 29 AEIVAVISDRPDA-------YGLERAEAAGIPTFVLDHKDFPSREAFDAALVEALDAYQPDLVVLAGF 89 (200)
T ss_pred cEEEEEEecCccc-------hHHHHHHHcCCCEEEECccccCchhHhHHHHHHHHHHhCcCEEEhHHh
Confidence 4677666665422 356777888885211111112211111112223334567999988775
No 447
>PRK09124 pyruvate dehydrogenase; Provisional
Probab=29.44 E-value=1.3e+02 Score=27.26 Aligned_cols=41 Identities=20% Similarity=0.170 Sum_probs=28.8
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVL 139 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVI 139 (145)
-+.-.+.|+++|++ .++-+||...+|+.-. |.+..+..-|.
T Consensus 6 a~~l~~~L~~~GV~----~vFg~pG~~~~~l~da-l~~~~~i~~i~ 46 (574)
T PRK09124 6 ADYIAKTLEQAGVK----RIWGVTGDSLNGLSDS-LRRMGTIEWMH 46 (574)
T ss_pred HHHHHHHHHHcCCC----EEEECCCCchHHHHHH-HhccCCCcEEE
Confidence 34557889999996 7899999999998543 33333444443
No 448
>cd04408 RhoGAP_GMIP RhoGAP_GMIP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of GMIP (Gem interacting protein). GMIP plays important roles in neurite growth and axonal guidance, and interacts with Gem, a member of the RGK subfamily of the Ras small GTPase superfamily, through the N-terminal half of the protein. GMIP contains a C-terminal RhoGAP domain. GMIP inhibits RhoA function, but is inactive towards Rac1 and Cdc41. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=29.37 E-value=1.4e+02 Score=23.79 Aligned_cols=38 Identities=8% Similarity=-0.006 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK 131 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~ 131 (145)
..+..|++.++++|...|- ++++||+-.-=-.++....
T Consensus 18 ~iv~~ci~~i~~~gl~~eG--IfR~sG~~~~i~~l~~~~d 55 (200)
T cd04408 18 FVVVRCTAEIENRALGVQG--IYRISGSKARVEKLCQAFE 55 (200)
T ss_pred hHHHHHHHHHHHcCCCCcc--eeeCCCcHHHHHHHHHHHh
Confidence 4678889999999987664 5899998543333333333
No 449
>PRK06147 3-oxoacyl-(acyl carrier protein) synthase; Validated
Probab=29.37 E-value=1.7e+02 Score=25.09 Aligned_cols=16 Identities=31% Similarity=0.407 Sum_probs=12.5
Q ss_pred HHhhcCCCcEEEEeee
Q 032216 128 QLGKSGKYTAVLCIGA 143 (145)
Q Consensus 128 ~La~s~~yDAVIaLG~ 143 (145)
++++++++|.+++.|+
T Consensus 145 ~~i~~G~~~~~lvgg~ 160 (348)
T PRK06147 145 RLIAAGGCPRVLVAGV 160 (348)
T ss_pred HHHHcCCCCEEEEEee
Confidence 3456789999999886
No 450
>cd04381 RhoGap_RalBP1 RhoGap_RalBP1: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in RalBP1 proteins, also known as RLIP, RLIP76 or cytocentrin. RalBP1 plays an important role in endocytosis during interphase. During mitosis, RalBP1 transiently associates with the centromere and has been shown to play an essential role in the proper assembly of the mitotic apparatus. RalBP1 is an effector of the Ral GTPase which itself is an effector of Ras. RalBP1 contains a RhoGAP domain, which shows weak activity towards Rac1 and Cdc42, but not towards Ral, and a Ral effector domain binding motif. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low int
Probab=29.18 E-value=1.4e+02 Score=23.21 Aligned_cols=38 Identities=16% Similarity=0.086 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK 131 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~ 131 (145)
..++.|++.++++|...|- ++++||+-.-=-.++....
T Consensus 22 ~~v~~~i~~l~~~gl~~EG--IfR~~G~~~~i~~l~~~~~ 59 (182)
T cd04381 22 LVFRECIDYVEKHGMKCEG--IYKVSGIKSKVDELKAAYN 59 (182)
T ss_pred hHHHHHHHHHHHhCCCCCc--eeecCCcHHHHHHHHHHHc
Confidence 4567788888888987664 5888997544444444333
No 451
>PRK06203 aroB 3-dehydroquinate synthase; Reviewed
Probab=28.83 E-value=3.4e+02 Score=24.07 Aligned_cols=68 Identities=19% Similarity=0.172 Sum_probs=36.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCC-CeEEEEecccc------h-HHHHHHHHhhc--CCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEE-NIDVVWVPGSF------E-IGVVAQQLGKS--GKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e-~I~vv~VPGAf------E-LPlaak~La~s--~~yDAVIaLG 142 (145)
+.|+.||..++=......+++...+.|+++|+.-. ...++.+|+-- | +--+.+.+.+. .+.|.||++|
T Consensus 42 ~~r~liVtD~~v~~~~~~l~~~v~~~L~~~g~~~~~~~~~~~~~~ge~~k~~~~~v~~i~~~~~~~~~dr~d~IIaiG 119 (389)
T PRK06203 42 PKKVLVVIDSGVLRAHPDLLEQITAYFAAHADVLELVAEPLVVPGGEAAKNDPALVEALHAAINRHGIDRHSYVLAIG 119 (389)
T ss_pred CCeEEEEECchHHHhhhhHHHHHHHHHHhcCCceeeeeeEEEccCCccCCCcHHHHHHHHHHHHHcCCCCCceEEEeC
Confidence 46888888655444323467778888888886421 11233333321 2 22222333322 2456999998
No 452
>cd00159 RhoGAP RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when bound to GDP. The Rho family of small G proteins, which includes Cdc42Hs, activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. G proteins generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude. The RhoGAPs are one of the major classes of regulators of Rho G proteins.
Probab=28.52 E-value=1.7e+02 Score=21.19 Aligned_cols=40 Identities=20% Similarity=0.243 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCC
Q 032216 93 LLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGK 134 (145)
Q Consensus 93 LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~ 134 (145)
.+..|.+.|.++|...+ .++++||.-+--..++....++.
T Consensus 3 ~l~~~~~~l~~~~~~~~--giFR~~g~~~~~~~l~~~~~~~~ 42 (169)
T cd00159 3 IIEKCIEYLEKNGLNTE--GIFRVSGSASKIEELKKKFDRGE 42 (169)
T ss_pred HHHHHHHHHHHcCCCcC--CeeeCCCcHHHHHHHHHHHhcCC
Confidence 46778999999998766 45899999776444444444444
No 453
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=28.38 E-value=1.4e+02 Score=27.31 Aligned_cols=42 Identities=21% Similarity=0.168 Sum_probs=29.7
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+.-.+.|+++|++ .++-+||...+|+.-. |.+..+...|.|
T Consensus 24 a~~l~~~L~~~GV~----~vFgvpG~~~~~l~da-l~~~~~i~~i~~ 65 (587)
T PRK06965 24 AEILMKALAAEGVE----FIWGYPGGAVLYIYDE-LYKQDKIQHVLV 65 (587)
T ss_pred HHHHHHHHHHcCCC----EEEecCCcchHHHHHH-HhhcCCCeEEEe
Confidence 35567889999997 7899999999998544 444334554443
No 454
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=28.30 E-value=2.9e+02 Score=24.48 Aligned_cols=61 Identities=10% Similarity=0.066 Sum_probs=34.3
Q ss_pred CEEEEEEeeec---HHHHH---HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHH---HhhcCCCcEEEEe
Q 032216 76 LRFALVVARFN---ELVTK---LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQ---LGKSGKYTAVLCI 141 (145)
Q Consensus 76 lRIaIVvArfN---~~It~---~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~---La~s~~yDAVIaL 141 (145)
+||++|..... .+..+ ...+...+.|++. .+++++.|-.-|=+--+++ .++..++|+||+.
T Consensus 1 ~~ig~v~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-----~~~vv~~~~~~~~~~~~~~~~~~~~~~~~d~ii~~ 70 (452)
T cd00578 1 PKIGFVTGSQHLYGEELLEQVEEYAREVADLLNEL-----PVEVVDKPEVTGTPDEARKAAEEFNEANCDGLIVW 70 (452)
T ss_pred CEEEEEEecccccChhHHHHHHHHHHHHHHHHhcC-----CceEEecCcccCCHHHHHHHHHHHhhcCCcEEEEc
Confidence 36777766555 55544 4444444555444 3577777755433433443 3345689999863
No 455
>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=28.25 E-value=3.4e+02 Score=22.40 Aligned_cols=60 Identities=15% Similarity=0.113 Sum_probs=29.0
Q ss_pred EEEEEEeeec--HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccc--hHHHHHHHHhhcCCCcEEE
Q 032216 77 RFALVVARFN--ELVTKLLLEGALETFKKYSVKEENIDVVWVPGSF--EIGVVAQQLGKSGKYTAVL 139 (145)
Q Consensus 77 RIaIVvArfN--~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAf--ELPlaak~La~s~~yDAVI 139 (145)
|||++..-=. ...-..+.+|+...+++.+- ..++++..-... +.--++++|.+. ++|+||
T Consensus 1 kIG~l~plsG~~a~~g~~~~~g~~lA~~~inG--~~i~l~~~D~~~~~~a~~~~~~li~~-~V~~ii 64 (336)
T cd06339 1 RIALLLPLSGPLASVGQAIRNGFLAALYDLNG--ASIELRVYDTAGAAGAAAAARQAVAE-GADIIV 64 (336)
T ss_pred CeEEEEcCCCcchHHHHHHHHHHHHHHHhccC--CCceEEEEeCCCcccHHHHHHHHHHc-CCCEEE
Confidence 3555543222 35666677777777777431 123333222222 122344556543 677665
No 456
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=28.18 E-value=1.5e+02 Score=26.83 Aligned_cols=29 Identities=14% Similarity=0.224 Sum_probs=24.4
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHH
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQ 127 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak 127 (145)
+...+.|+++|++ .++-+||..++|+.-.
T Consensus 6 ~~l~~~L~~~GV~----~vFg~pG~~~~~l~da 34 (549)
T PRK06457 6 EVIIRVLEDNGIQ----RIYGIPGDSIDPLVDA 34 (549)
T ss_pred HHHHHHHHHcCCC----EEEEcCCcchHHHHHH
Confidence 4567899999997 7899999999998643
No 457
>cd04385 RhoGAP_ARAP RhoGAP_ARAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in ARAPs. ARAPs (also known as centaurin deltas) contain, besides the RhoGAP domain, an Arf GAP, ankyrin repeat ras-associating, and PH domains. Since their ArfGAP activity is PIP3-dependent, ARAPs are considered integration points for phosphoinositide, Arf and Rho signaling. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=28.15 E-value=76 Score=24.82 Aligned_cols=30 Identities=7% Similarity=0.181 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHCCCCCCCeEEEEecccchH
Q 032216 91 KLLLEGALETFKKYSVKEENIDVVWVPGSFEI 122 (145)
Q Consensus 91 ~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL 122 (145)
=..++-|++.+.++|+..+ -++++||+-.-
T Consensus 16 P~~v~~~i~~l~~~g~~~e--GIFR~sg~~~~ 45 (184)
T cd04385 16 PVIVDKCIDFITQHGLMSE--GIYRKNGKNSS 45 (184)
T ss_pred ChHHHHHHHHHHHhCCCCC--ceeeCCCcHHH
Confidence 3567788899999998655 46899998643
No 458
>cd06421 CESA_CelA_like CESA_CelA_like are involved in the elongation of the glucan chain of cellulose. Family of proteins related to Agrobacterium tumefaciens CelA and Gluconacetobacter xylinus BscA. These proteins are involved in the elongation of the glucan chain of cellulose, an aggregate of unbranched polymers of beta-1,4-linked glucose residues. They are putative catalytic subunit of cellulose synthase, which is a glycosyltransferase using UDP-glucose as the substrate. The catalytic subunit is an integral membrane protein with 6 transmembrane segments and it is postulated that the protein is anchored in the membrane at the N-terminal end.
Probab=28.13 E-value=1.5e+02 Score=22.17 Aligned_cols=9 Identities=11% Similarity=0.512 Sum_probs=3.6
Q ss_pred EEEEEeeec
Q 032216 78 FALVVARFN 86 (145)
Q Consensus 78 IaIVvArfN 86 (145)
|.||..-||
T Consensus 3 vsviip~~n 11 (234)
T cd06421 3 VDVFIPTYN 11 (234)
T ss_pred eEEEEecCC
Confidence 334444444
No 459
>cd04407 RhoGAP_myosin_IXB RhoGAP_myosin_IXB: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in myosins IXB. Class IX myosins contain a characteristic head domain, a neck domain and a tail domain which contains a C6H2-zinc binding motif and a Rho-GAP domain. Class IX myosins are single-headed, processive myosins that are partly cytoplasmic, and partly associated with membranes and the actin cytoskeleton. Class IX myosins are implicated in the regulation of neuronal morphogenesis and function of sensory systems, like the inner ear. There are two major isoforms, myosin IXA and IXB with several splice variants, which are both expressed in developing neurons Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell prolifer
Probab=28.12 E-value=1.5e+02 Score=23.28 Aligned_cols=37 Identities=24% Similarity=0.152 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh
Q 032216 93 LLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK 131 (145)
Q Consensus 93 LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~ 131 (145)
.++.|++.++++|...| -++++||+-.-=-.++...+
T Consensus 18 il~~~i~~l~~~gl~~E--GIfR~~Gs~~~i~~l~~~~~ 54 (186)
T cd04407 18 VLEKLLEHVEMHGLYTE--GIYRKSGSANRMKELHQLLQ 54 (186)
T ss_pred HHHHHHHHHHHcCCCCC--ceeecCCCHHHHHHHHHHHh
Confidence 56788889999998755 45899998654333333333
No 460
>cd04382 RhoGAP_MgcRacGAP RhoGAP_MgcRacGAP: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain present in MgcRacGAP proteins. MgcRacGAP plays an important dual role in cytokinesis: i) it is part of centralspindlin-complex, together with the mitotic kinesin MKLP1, which is critical for the structure of the central spindle by promoting microtuble bundling. ii) after phosphorylation by aurora B MgcRacGAP becomes an effective regulator of RhoA and plays an important role in the assembly of the contractile ring and the initiation of cytokinesis. MgcRacGAP-like proteins contain a N-terminal C1-like domain, and a C-terminal RhoGAP domain. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway
Probab=28.12 E-value=76 Score=25.28 Aligned_cols=29 Identities=21% Similarity=0.237 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchH
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEI 122 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL 122 (145)
..+..|++.++++|...| -++++||+-.-
T Consensus 19 ~~l~~ci~~ie~~gl~~E--GIFRv~G~~~~ 47 (193)
T cd04382 19 ALIVHCVNEIEARGLTEE--GLYRVSGSERE 47 (193)
T ss_pred HHHHHHHHHHHHcCCCCC--CeeecCCcHHH
Confidence 467889999999999766 45899998543
No 461
>cd04403 RhoGAP_ARHGAP27_15_12_9 RhoGAP_ARHGAP27_15_12_9: GTPase-activator protein (GAP) domain for Rho-like GTPases found in ARHGAP27 (also called CAMGAP1), ARHGAP15, 12 and 9-like proteins; This subgroup of ARHGAPs are multidomain proteins that contain RhoGAP, PH, SH3 and WW domains. Most members that are studied show GAP activity towards Rac1, some additionally show activity towards Cdc42. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=27.76 E-value=1.7e+02 Score=22.90 Aligned_cols=38 Identities=11% Similarity=0.144 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhc
Q 032216 93 LLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKS 132 (145)
Q Consensus 93 LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s 132 (145)
.+..|++.|.++|...| -++++||.-.---.++....+
T Consensus 19 ~l~~~i~~l~~~gl~~e--GIFR~sg~~~~v~~l~~~~d~ 56 (187)
T cd04403 19 FVRLCIEAVEKRGLDVD--GIYRVSGNLAVIQKLRFAVDH 56 (187)
T ss_pred HHHHHHHHHHHhCCCcC--ceeeecCcHHHHHHHHHHhcC
Confidence 56778888888888654 568888887655555555443
No 462
>PF08003 Methyltransf_9: Protein of unknown function (DUF1698); InterPro: IPR010017 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This entry represents a set of bacterial AdoMet-dependent tRNA (mo5U34)-methyltransferases. These enzymes catalyse the conversion of 5-hydroxyuridine (ho5U) to 5-methoxyuridine (mo5U) at the wobble position (34) of tRNA []. The 5-methoxyuridine is subsequently converted to uridine-5-oxyacetic acid, a modified nucleoside that is apparently necessary for the efficient decoding of G-ending Pro, Ala, and Val codons in these organisms [].; GO: 0016300 tRNA (uracil) methyltransferase activity, 0002098 tRNA wobble uridine modification
Probab=27.64 E-value=26 Score=31.07 Aligned_cols=26 Identities=23% Similarity=0.533 Sum_probs=19.0
Q ss_pred cchHHHHHHHHhhcCCCcEEEEeeee
Q 032216 119 SFEIGVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 119 AfELPlaak~La~s~~yDAVIaLG~V 144 (145)
.+++|+.+..|...+.||-|.|+|++
T Consensus 167 ~~~lplgvE~Lp~~~~FDtVF~MGVL 192 (315)
T PF08003_consen 167 VFELPLGVEDLPNLGAFDTVFSMGVL 192 (315)
T ss_pred EEEcCcchhhccccCCcCEEEEeeeh
Confidence 35556666666556789999999985
No 463
>PF14542 Acetyltransf_CG: GCN5-related N-acetyl-transferase; PDB: 2H5M_A 2Q44_A 1XMT_A 2Q4Y_A 2IL4_A 2EVN_A 1R57_A.
Probab=27.44 E-value=1.2e+02 Score=20.72 Aligned_cols=39 Identities=28% Similarity=0.411 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCC
Q 032216 87 ELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKY 135 (145)
Q Consensus 87 ~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~y 135 (145)
.-+...|++.|++.++++|.. -+|-+ |++.+.+.+...|
T Consensus 37 qGia~~L~~~~l~~a~~~~~k-------v~p~C---~y~~~~~~~hpey 75 (78)
T PF14542_consen 37 QGIAKKLVEAALDYARENGLK-------VVPTC---SYVAKYFRRHPEY 75 (78)
T ss_dssp TTHHHHHHHHHHHHHHHTT-E-------EEETS---HHHHHHHHH-GGG
T ss_pred CcHHHHHHHHHHHHHHHCCCE-------EEEEC---HHHHHHHHhCccc
Confidence 468899999999999999974 25665 8888888766555
No 464
>cd01741 GATase1_1 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain. This group contains a subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain. GATase activity catalyses the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. Glutamine amidotransferases (GATase) includes the triad family of amidotransferases which have a conserved Cys-His-Glu catalytic triad in the glutaminase active site. In this subgroup this triad is conserved. GATase activity can be found in a range of biosynthetic enzymes, including: glutamine amidotransferase, formylglycinamide ribonucleotide, GMP synthetase , anthranilate synthase component II, glutamine-dependent carbamoyl phosphate synthase, cytidine triphosphate synthetase, gamma-glutamyl hydrolase, imidazole glycerol phosphate synthase and, cobyric acid synthase. Glutamine amidotransferase (GATase) domains can occur either as single polypeptides, as in glutamine
Probab=27.28 E-value=1.1e+02 Score=23.33 Aligned_cols=10 Identities=20% Similarity=0.694 Sum_probs=6.3
Q ss_pred CCCcEEEEee
Q 032216 133 GKYTAVLCIG 142 (145)
Q Consensus 133 ~~yDAVIaLG 142 (145)
.+|||||--|
T Consensus 45 ~~~dgvil~G 54 (188)
T cd01741 45 DDYDGLVILG 54 (188)
T ss_pred ccCCEEEECC
Confidence 4677776655
No 465
>TIGR02845 spore_V_AD stage V sporulation protein AD. Bacillus and Clostridium species contain about 10 % dipicolinic acid (pyridine-2,6-dicarboxylic acid) by weight. This protein family, SpoVAD, belongs to the spoVA operon that is suggested to act in the transport of dipicolinic acid (DPA) from the mother cell, where DPA is synthesized, to the forespore, a process essential to sporulation. Members of this protein family are found, so far, in exactly those species believed capable of endospore formation.
Probab=27.22 E-value=65 Score=28.66 Aligned_cols=20 Identities=20% Similarity=0.175 Sum_probs=13.9
Q ss_pred HHHHHHhhcCCCcEEEEeee
Q 032216 124 VVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 124 laak~La~s~~yDAVIaLG~ 143 (145)
..+..+.+++.+|-++++|+
T Consensus 113 ~lAa~lI~SG~ad~VLVV~S 132 (327)
T TIGR02845 113 ALGAMLVDGGFADRVLAATS 132 (327)
T ss_pred HHHHHHHhCCCCCEEEEEEe
Confidence 34455567788888888874
No 466
>PF14681 UPRTase: Uracil phosphoribosyltransferase; PDB: 1V9S_B 1UPF_A 1UPU_D 1JLR_B 1BD4_A 1BD3_C 1JLS_D 1XTV_C 1XTU_H 3G6W_C ....
Probab=27.21 E-value=87 Score=25.13 Aligned_cols=54 Identities=30% Similarity=0.161 Sum_probs=40.9
Q ss_pred CCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhc
Q 032216 73 NEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKS 132 (145)
Q Consensus 73 ~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s 132 (145)
-+..++-++..--..- .-.-.|++.|+++|+.+++|.++.+=.+-| .++++.+.
T Consensus 119 i~~~~VillDpmlaTG---~s~~~ai~~L~~~G~~~~~I~~v~~ias~~---Gl~~l~~~ 172 (207)
T PF14681_consen 119 IENRKVILLDPMLATG---GSAIAAIEILKEHGVPEENIIIVSVIASPE---GLERLLKA 172 (207)
T ss_dssp GTTSEEEEEESEESSS---HHHHHHHHHHHHTTG-GGEEEEEEEEEEHH---HHHHHHHH
T ss_pred ccCCEEEEEeccccch---hhHHHHHHHHHHcCCCcceEEEEEEEecHH---HHHHHHHh
Confidence 3566788887777643 445678999999999999999998877755 88888754
No 467
>PRK08266 hypothetical protein; Provisional
Probab=27.19 E-value=1.7e+02 Score=26.35 Aligned_cols=41 Identities=17% Similarity=0.172 Sum_probs=28.6
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhc-CCCcEEEE
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKS-GKYTAVLC 140 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s-~~yDAVIa 140 (145)
+--.+.|++.|++ .++-+||..++|+.-. |.+. ++.+-|.|
T Consensus 8 ~~l~~~L~~~Gv~----~vFg~pG~~~~~l~~a-l~~~~~~i~~v~~ 49 (542)
T PRK08266 8 EAIVAGLVAHGVD----TVFGLPGAQLYWLFDA-LYKAGDRIRVIHT 49 (542)
T ss_pred HHHHHHHHHcCCC----EEEECCCcchHHHHHH-HHhcCCCCeEEee
Confidence 4456789999996 7899999999998533 4333 34554443
No 468
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=27.08 E-value=67 Score=22.28 Aligned_cols=45 Identities=27% Similarity=0.210 Sum_probs=27.0
Q ss_pred HHHHHHHHHCCCCCCCeEEEEecccchHHH---HHHHHhhcCCCcEEEEe
Q 032216 95 EGALETFKKYSVKEENIDVVWVPGSFEIGV---VAQQLGKSGKYTAVLCI 141 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv~VPGAfELPl---aak~La~s~~yDAVIaL 141 (145)
+|--+.|+++|+. ...+++.-+.=|.|- .+..+.+.+++|.||..
T Consensus 20 ~gTa~~L~~~Gi~--~~~v~~~~~~~~~~~g~~~i~~~i~~~~IdlVIn~ 67 (95)
T PF02142_consen 20 EGTAKFLKEHGIE--VTEVVNKIGEGESPDGRVQIMDLIKNGKIDLVINT 67 (95)
T ss_dssp HHHHHHHHHTT----EEECCEEHSTG-GGTHCHHHHHHHHTTSEEEEEEE
T ss_pred hHHHHHHHHcCCC--ceeeeeecccCccCCchhHHHHHHHcCCeEEEEEe
Confidence 4667888999985 234444455444444 24455578899988875
No 469
>PRK08327 acetolactate synthase catalytic subunit; Validated
Probab=26.96 E-value=1.2e+02 Score=27.63 Aligned_cols=30 Identities=20% Similarity=0.138 Sum_probs=24.9
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHH
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQ 127 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak 127 (145)
-+.-.+.|+++|++ .++-+||..++|+.-.
T Consensus 10 a~~l~~~L~~~GV~----~iFgvpG~~~~~l~da 39 (569)
T PRK08327 10 AELFLELLKELGVD----YIFINSGTDYPPIIEA 39 (569)
T ss_pred HHHHHHHHHHCCCC----EEEEcCCCCcHHHHHH
Confidence 35567889999997 7899999999999543
No 470
>TIGR00070 hisG ATP phosphoribosyltransferase. Members of this family from B. subtilis, Aquifex aeolicus, and Synechocystis PCC6803 (and related taxa) lack the C-terminal third of the sequence. The sole homolog from Archaeoglobus fulgidus lacks the N-terminal 50 residues (as reported) and is otherwise atypical of the rest of the family. This model excludes the C-terminal extension.
Probab=26.80 E-value=86 Score=25.38 Aligned_cols=31 Identities=19% Similarity=0.408 Sum_probs=24.9
Q ss_pred EeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchH
Q 032216 82 VARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEI 122 (145)
Q Consensus 82 vArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfEL 122 (145)
+|.++..++++ .|+++|+ +++++..-|+.|+
T Consensus 112 IATkyp~i~~~-------~f~~~Gi---~v~ii~l~GsvE~ 142 (182)
T TIGR00070 112 IATKYPNLARR-------YFEKKGI---DVEIIKLNGSVEL 142 (182)
T ss_pred EEECCHHHHHH-------HHHHcCC---eEEEEECcceeec
Confidence 35666666664 7889998 5999999999998
No 471
>KOG0541 consensus Alkyl hydroperoxide reductase/peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=26.29 E-value=82 Score=25.85 Aligned_cols=33 Identities=21% Similarity=0.410 Sum_probs=16.4
Q ss_pred CeEEEEecccch-------HHHHHHHH--hhcCCCcEEEEee
Q 032216 110 NIDVVWVPGSFE-------IGVVAQQL--GKSGKYTAVLCIG 142 (145)
Q Consensus 110 ~I~vv~VPGAfE-------LPlaak~L--a~s~~yDAVIaLG 142 (145)
...++-|||||- +|--+.++ ++++..|.|||+-
T Consensus 45 KvIifGvPgAFtPtCs~~HvPGyi~~a~elksKGVd~iicvS 86 (171)
T KOG0541|consen 45 KVILFGVPGAFTPTCSSSHVPGYIEKADELKSKGVDEIICVS 86 (171)
T ss_pred eEEEEcCCCccCCccccccCchHHHHHHHHHhcCCcEEEEEe
Confidence 455666666664 33222221 1235666666653
No 472
>PF00117 GATase: Glutamine amidotransferase class-I; InterPro: IPR017926 Glutamine amidotransferase (GATase) enzymes catalyse the removal of the ammonia group from glutamine and then transfer this group to a substrate to form a new carbon-nitrogen group []. The GATase domain exists either as a separate polypeptidic subunit or as part of a larger polypeptide fused in different ways to a synthase domain. Two classes of GATase domains have been identified [, ]: class-I (also known as trpG-type or triad) and class-II (also known as purF-type or Ntn). Class-I (or type 1) GATase domains have been found in the following enzymes: The second component of anthranilate synthase (AS) []. AS catalyzes the biosynthesis of anthranilate from chorismate and glutamine. AS is generally a dimeric enzyme: the first component can synthesize anthranilate using ammonia rather than glutamine, whereas component II provides the GATase activity []. In some bacteria and in fungi the GATase component of AS is part of a multifunctional protein that also catalyzes other steps of the biosynthesis of tryptophan. The second component of 4-amino-4-deoxychorismate (ADC) synthase, a dimeric prokaryotic enzyme that functions in the pathway that catalyzes the biosynthesis of para-aminobenzoate (PABA) from chorismate and glutamine. The second component (gene pabA) provides the GATase activity []. CTP synthase. CTP synthase catalyzes the final reaction in the biosynthesis of pyrimidine, the ATP-dependent formation of CTP from UTP and glutamine. CTP synthase is a single chain enzyme that contains two distinct domains; the GATase domain is in the C-terminal section []. GMP synthase (glutamine-hydrolyzing). GMP synthase catalyzes the ATP-dependent formation of GMP from xanthosine 5'-phosphate and glutamine. GMP synthase is a single chain enzyme that contains two distinct domains; the GATase domain is in the N-terminal section [, ]. Glutamine-dependent carbamoyl-phosphate synthase (GD-CPSase); an enzyme involved in both arginine and pyrimidine biosynthesis and which catalyzes the ATP-dependent formation of carbamoyl phosphate from glutamine and carbon dioxide. In bacteria GD-CPSase is composed of two subunits: the large chain (gene carB) provides the CPSase activity, while the small chain (gene carA) provides the GATase activity. In yeast the enzyme involved in arginine biosynthesis is also composed of two subunits: CPA1 (GATase), and CPA2 (CPSase). In most eukaryotes, the first three steps of pyrimidine biosynthesis are catalyzed by a large multifunctional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals). The GATase domain is located at the N-terminal extremity of this polyprotein []. Phosphoribosylformylglycinamidine synthase, an enzyme that catalyzes the fourth step in the de novo biosynthesis of purines. In some species of bacteria and rchaea, FGAM synthase II is composed of two subunits: a small chain (gene purQ) which provides the GATase activity and a large chain (gene purL) which provides the aminator activity. In eukaryotes and Gram-negative bacteria a single polypeptide (large type of purL) contains a FGAM synthethase domain and the GATase as the C-terminal domain []. Imidazole glycerol phosphate synthase subunit hisH, an enzyme that catalyzes the fifth step in the biosynthesis of histidine. A triad of conserved Cys-His-Glu forms the active site, wherein the catalytic cysteine is essential for the amidotransferase activity [, ]. Different structures show that the active site Cys of type 1 GATase is located at the tip of a nucleophile elbow.; PDB: 1I7S_D 1I7Q_D 3UOW_B 1GPM_C 1O1Y_A 2VXO_A 2VPI_B 1OX5_B 1OX6_B 1OX4_B ....
Probab=26.27 E-value=1.4e+02 Score=22.61 Aligned_cols=38 Identities=18% Similarity=0.462 Sum_probs=26.0
Q ss_pred HHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeee
Q 032216 98 LETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGA 143 (145)
Q Consensus 98 ~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~ 143 (145)
.+.|++.|+ +++++++.=..+.|.- .-.+||+||..|-
T Consensus 14 ~~~l~~~~~---~~~v~~~~~~~~~~~~-----~~~~~d~iii~Gg 51 (192)
T PF00117_consen 14 VRALRELGI---DVEVVRVDSDFEEPLE-----DLDDYDGIIISGG 51 (192)
T ss_dssp HHHHHHTTE---EEEEEETTGGHHHHHH-----HTTTSSEEEEECE
T ss_pred HHHHHHCCC---eEEEEECCCchhhhhh-----hhcCCCEEEECCc
Confidence 455666775 4788888765555532 2468999999874
No 473
>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]
Probab=26.20 E-value=71 Score=31.01 Aligned_cols=33 Identities=24% Similarity=0.483 Sum_probs=27.1
Q ss_pred CCeEEEEecccchHH------HHHHHHhhcCCCcEEEEe
Q 032216 109 ENIDVVWVPGSFEIG------VVAQQLGKSGKYTAVLCI 141 (145)
Q Consensus 109 e~I~vv~VPGAfELP------laak~La~s~~yDAVIaL 141 (145)
++|++++-||.|-+- .+++..+.++++|.||.+
T Consensus 50 ~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~ivnV 88 (653)
T COG0370 50 HEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLIVNV 88 (653)
T ss_pred ceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEEEEE
Confidence 468999999999875 566777778999999975
No 474
>PRK06725 acetolactate synthase 3 catalytic subunit; Validated
Probab=26.15 E-value=1.7e+02 Score=26.85 Aligned_cols=41 Identities=22% Similarity=0.249 Sum_probs=29.7
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
-+.-.+.|+++|++ .++-+||..++|+.-. |.+ .+.+-|.|
T Consensus 18 a~~l~~~L~~~GV~----~vFGipG~~~~~l~da-l~~-~~i~~i~~ 58 (570)
T PRK06725 18 AGHVIQCLKKLGVT----TVFGYPGGAILPVYDA-LYE-SGLKHILT 58 (570)
T ss_pred HHHHHHHHHHcCCC----EEEEcCCcchHHHHHH-HHh-cCCcEEEe
Confidence 46667899999996 7899999999998543 433 23454443
No 475
>PRK06289 acetyl-CoA acetyltransferase; Provisional
Probab=26.06 E-value=1.3e+02 Score=26.19 Aligned_cols=16 Identities=25% Similarity=0.549 Sum_probs=12.1
Q ss_pred HHhhcCCCcEEEEeee
Q 032216 128 QLGKSGKYTAVLCIGA 143 (145)
Q Consensus 128 ~La~s~~yDAVIaLG~ 143 (145)
.+.+++.+|-|+++|+
T Consensus 102 ~~I~sG~~~~VLvvg~ 117 (403)
T PRK06289 102 ADLRAGRYDVALVVGV 117 (403)
T ss_pred HHHHcCCCCEEEEEEE
Confidence 3446888999998874
No 476
>COG0400 Predicted esterase [General function prediction only]
Probab=25.93 E-value=98 Score=25.26 Aligned_cols=52 Identities=21% Similarity=0.256 Sum_probs=45.9
Q ss_pred CCCCCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHH
Q 032216 72 KNEGLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVA 126 (145)
Q Consensus 72 ~~~~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaa 126 (145)
+..+.+|.+.+..--+.+-..+-+.+.+.|+..|. +++..+.+|.-|||.--
T Consensus 143 ~~~~~pill~hG~~Dpvvp~~~~~~l~~~l~~~g~---~v~~~~~~~GH~i~~e~ 194 (207)
T COG0400 143 DLAGTPILLSHGTEDPVVPLALAEALAEYLTASGA---DVEVRWHEGGHEIPPEE 194 (207)
T ss_pred ccCCCeEEEeccCcCCccCHHHHHHHHHHHHHcCC---CEEEEEecCCCcCCHHH
Confidence 46678999999999998899999999999999998 48899999999998644
No 477
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=25.91 E-value=1.4e+02 Score=22.36 Aligned_cols=35 Identities=9% Similarity=0.262 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccch
Q 032216 87 ELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFE 121 (145)
Q Consensus 87 ~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfE 121 (145)
...+++-++.+.+.|++.|++++.+...|+...--
T Consensus 72 n~~a~~Rv~~~k~~L~~~Gi~~eRv~~~~~~~~~~ 106 (124)
T PF02662_consen 72 NYRAEKRVERLKKLLEELGIEPERVRLYWISAPEG 106 (124)
T ss_pred hHHHHHHHHHHHHHHHHcCCChhHeEEEEeCcccH
Confidence 35677788999999999999999999999877643
No 478
>TIGR02720 pyruv_oxi_spxB pyruvate oxidase. Members of this family are examples of pyruvate oxidase (EC 1.2.3.3), an enzyme with FAD and TPP as cofactors that catalyzes the reaction pyruvate + phosphate + O2 + H2O = acetyl phosphate + CO2 + H2O2. It should not be confused with pyruvate dehydrogenase [cytochrome] (EC 1.2.2.2) as in E. coli PoxB, although the E. coli enzyme is closely homologous and has pyruvate oxidase as an alternate name.
Probab=25.73 E-value=1.8e+02 Score=26.55 Aligned_cols=41 Identities=10% Similarity=0.197 Sum_probs=28.1
Q ss_pred HHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEE
Q 032216 96 GALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 96 GA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIa 140 (145)
.-.+.|+++|++ .++-+||..++|+.-......++.+-|.|
T Consensus 4 ~l~~~L~~~GV~----~vFgvpG~~~~~l~dal~~~~~~i~~v~~ 44 (575)
T TIGR02720 4 AVLKVLEAWGVD----HIYGIPGGSFNSTMDALSAERDRIHYIQV 44 (575)
T ss_pred HHHHHHHHcCCC----EEEECCCcchHHHHHHHHhcCCCCcEEEe
Confidence 346789999996 78999999999995432222233554443
No 479
>PRK04539 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=25.66 E-value=2e+02 Score=24.76 Aligned_cols=31 Identities=10% Similarity=0.015 Sum_probs=22.4
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCC
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVK 107 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~ 107 (145)
.||+|+.-. +..-...+.+...+.|+++|+.
T Consensus 6 ~~i~ii~~~-~~~~~~~~~~~l~~~L~~~g~~ 36 (296)
T PRK04539 6 HNIGIVTRP-NTPDIQDTAHTLITFLKQHGFT 36 (296)
T ss_pred CEEEEEecC-CCHHHHHHHHHHHHHHHHCCCE
Confidence 369888544 4444556788888899999974
No 480
>PRK03378 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=25.51 E-value=1.7e+02 Score=25.08 Aligned_cols=31 Identities=6% Similarity=-0.164 Sum_probs=22.1
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCC
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVK 107 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~ 107 (145)
.||+||.-... .-...+.+...+.|+++|+.
T Consensus 6 ~~i~iv~~~~~-~~~~~~~~~i~~~l~~~g~~ 36 (292)
T PRK03378 6 KCIGIVGHPRH-PTALTTHEMLYHWLTSKGYE 36 (292)
T ss_pred CEEEEEEeCCC-HHHHHHHHHHHHHHHHCCCE
Confidence 36888855544 44555778888899999974
No 481
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=25.39 E-value=99 Score=24.24 Aligned_cols=44 Identities=18% Similarity=0.215 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 90 TKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 90 t~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
...|++.|.+.++++|+ ++++++.-.+. +. +....+||.|++-+
T Consensus 111 ~~~~~~~A~~~~~~~g~--~~v~~~~~d~~-~~------~~~~~~fD~Ii~~~ 154 (215)
T TIGR00080 111 IPELAEKAERRLRKLGL--DNVIVIVGDGT-QG------WEPLAPYDRIYVTA 154 (215)
T ss_pred CHHHHHHHHHHHHHCCC--CCeEEEECCcc-cC------CcccCCCCEEEEcC
Confidence 34688889999999987 35665544442 11 11235788888654
No 482
>PLN03184 chloroplast Hsp70; Provisional
Probab=25.36 E-value=58 Score=30.87 Aligned_cols=55 Identities=22% Similarity=0.270 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHCCCCCCCe-EEEEecccchHHHHHHHHhh--------cCCCcEEEEeeeeC
Q 032216 91 KLLLEGALETFKKYSVKEENI-DVVWVPGSFEIGVVAQQLGK--------SGKYTAVLCIGAVV 145 (145)
Q Consensus 91 ~~LleGA~~~L~~~Gv~~e~I-~vv~VPGAfELPlaak~La~--------s~~yDAVIaLG~VI 145 (145)
+++.+-..+.|++.|+..++| .++-|=|+--||.+-+.+.+ +-+.|-.||+||.|
T Consensus 346 ~r~~~~i~~~L~~a~~~~~dId~ViLvGGssriP~V~~~i~~~fg~~~~~~~npdeaVA~GAAi 409 (673)
T PLN03184 346 DRCKTPVENALRDAKLSFKDIDEVILVGGSTRIPAVQELVKKLTGKDPNVTVNPDEVVALGAAV 409 (673)
T ss_pred HHHHHHHHHHHHHcCCChhHccEEEEECCccccHHHHHHHHHHhCCCcccccCcchHHHHHHHH
Confidence 333344566777888875555 46788999999999877653 23567788888753
No 483
>cd04386 RhoGAP_nadrin RhoGAP_nadrin: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of Nadrin-like proteins. Nadrin, also named Rich-1, has been shown to be involved in the regulation of Ca2+-dependent exocytosis in neurons and recently has been implicated in tight junction maintenance in mammalian epithelium. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=25.35 E-value=1.9e+02 Score=22.81 Aligned_cols=41 Identities=15% Similarity=0.152 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCC
Q 032216 93 LLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKY 135 (145)
Q Consensus 93 LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~y 135 (145)
.++.|++.|.++|...+ -++++||.-.-=-.++...+++.+
T Consensus 23 ~v~~~i~~L~~~gl~~e--GIFR~~g~~~~i~~l~~~~d~g~~ 63 (203)
T cd04386 23 PIEACVMCLLETGMNEE--GLFRVGGGASKLKRLKAALDAGTF 63 (203)
T ss_pred HHHHHHHHHHHcCCCCC--CeeeCCCcHHHHHHHHHHHhCCCC
Confidence 56788899999998755 468889985543344444445543
No 484
>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=25.33 E-value=3.9e+02 Score=22.09 Aligned_cols=62 Identities=13% Similarity=0.194 Sum_probs=37.2
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecc---cchHHHHHHHHhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPG---SFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPG---AfELPlaak~La~s~~yDAVIaLG 142 (145)
.|++|+...-.. -...+.+...+.+++.|+. -..+.+.|. .-+..-.++++.+. + |.||.++
T Consensus 138 ~~v~ii~~~~~~-~g~~~~~~~~~~~~~~G~~--v~~~~~~~~~~~~~d~~~~l~~i~~~-~-~vii~~~ 202 (389)
T cd06352 138 HVAVVVYSDDSE-NCFFTLEALEAALREFNLT--VSHVVFMEDNSGAEDLLEILQDIKRR-S-RIIIMCG 202 (389)
T ss_pred eEEEEEEecCCc-cHHHHHHHHHHHHHhcCCe--EEEEEEecCCccchhHHHHHHHhhhc-c-eEEEEEC
Confidence 467766543321 2334567777888888875 233344454 57777777777554 4 8777654
No 485
>PRK08611 pyruvate oxidase; Provisional
Probab=25.12 E-value=1.9e+02 Score=26.50 Aligned_cols=42 Identities=21% Similarity=0.276 Sum_probs=29.5
Q ss_pred HHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh-cCCCcEEEE
Q 032216 94 LEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK-SGKYTAVLC 140 (145)
Q Consensus 94 leGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~-s~~yDAVIa 140 (145)
-+.-.+.|+++|+. .++-+||...+|+.- .|.+ +.+.+-|.|
T Consensus 7 ~~~l~~~L~~~GV~----~vFgipG~~~~~l~d-al~~~~~~i~~i~~ 49 (576)
T PRK08611 7 GEALVKLLQDWGID----HVYGIPGDSIDAVVD-ALRKEQDKIKFIQV 49 (576)
T ss_pred HHHHHHHHHHcCCC----EEEecCCcchHHHHH-HHHhcCCCCeEEEe
Confidence 35567889999996 789999999999853 3332 234554443
No 486
>cd04374 RhoGAP_Graf RhoGAP_Graf: GTPase-activator protein (GAP) domain for Rho-like GTPases found in GRAF (GTPase regulator associated with focal adhesion kinase); Graf is a multi-domain protein, containing SH3 and PH domains, that binds focal adhesion kinase and influences cytoskeletal changes mediated by Rho proteins. Graf exhibits GAP activity toward RhoA and Cdc42, but only weakly activates Rac1. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=25.12 E-value=91 Score=25.12 Aligned_cols=27 Identities=15% Similarity=0.265 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccc
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSF 120 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAf 120 (145)
..++.|++.|+++|...|- ++++||+-
T Consensus 30 ~iv~~ci~~le~~gl~~EG--IFR~sGs~ 56 (203)
T cd04374 30 KFVRKCIEAVETRGINEQG--LYRVVGVN 56 (203)
T ss_pred HHHHHHHHHHHHcCCCCCC--eeeCCCcH
Confidence 5788999999999997664 58999974
No 487
>COG0678 AHP1 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=24.97 E-value=75 Score=25.93 Aligned_cols=33 Identities=15% Similarity=0.330 Sum_probs=17.8
Q ss_pred CeEEEEecccc-------hHHHHHHHH--hhcCCCcEEEEee
Q 032216 110 NIDVVWVPGSF-------EIGVVAQQL--GKSGKYTAVLCIG 142 (145)
Q Consensus 110 ~I~vv~VPGAf-------ELPlaak~L--a~s~~yDAVIaLG 142 (145)
.+.++-+|||| .||--.+.. .+.+..|.|+|+.
T Consensus 39 kVvlf~lPGAFTPTCS~~hlPgY~~~~d~f~~kGVD~I~cVS 80 (165)
T COG0678 39 KVVLFSLPGAFTPTCSSSHLPGYLELADEFKAKGVDEIYCVS 80 (165)
T ss_pred EEEEEeCCCccCCCcccccCccHHHHHHHHHHcCCceEEEEE
Confidence 46677777776 344222211 2345677777654
No 488
>PRK00843 egsA NAD(P)-dependent glycerol-1-phosphate dehydrogenase; Reviewed
Probab=24.93 E-value=4.2e+02 Score=22.72 Aligned_cols=59 Identities=14% Similarity=0.139 Sum_probs=31.8
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHH--HhhcCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQ--LGKSGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~--La~s~~yDAVIaLG 142 (145)
.|+.||..+.=... ..+...+.|++.| . +.++ +.+.-.+-.+.+. .++..+.|.||++|
T Consensus 35 ~~~livtd~~~~~~---~~~~l~~~l~~~~-~---~~~~-~~~~~t~~~v~~~~~~~~~~~~d~IIaiG 95 (350)
T PRK00843 35 GRALIVTGPTTKKI---AGDRVEENLEDAG-D---VEVV-IVDEATMEEVEKVEEKAKDVNAGFLIGVG 95 (350)
T ss_pred CeEEEEECCcHHHH---HHHHHHHHHHhcC-C---eeEE-eCCCCCHHHHHHHHHHhhccCCCEEEEeC
Confidence 58888887644332 2344555666666 3 3333 3333222222221 23345789999998
No 489
>TIGR00322 diphth2_R diphthamide biosynthesis protein 2-related domain. Because archaeal species are known to have the diphthamide modification to the conserved His of archaeal and eukaryotic EF-2, it may be that the lone homolog of YKL191W in M. jannaschii, A. fulgidus, and M. thermoautotrophicum is orthologous. However, each of these is considerably shorter than YKL191W and seems more closely related to the uncharacterized protein YIL103W than to YKL191W.
Probab=24.91 E-value=2.5e+02 Score=24.51 Aligned_cols=61 Identities=7% Similarity=0.052 Sum_probs=39.0
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEeeee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~V 144 (145)
.+||||++.=-..-...+++.-++.|+++|.. ..++.+----. .+|+.=..+|+.|-+||-
T Consensus 233 ~~vGIlvgTl~~q~~~~~~~~l~~ll~~~gkk---~y~i~~~~in~-----~kL~nf~eiD~fV~~aCP 293 (332)
T TIGR00322 233 KKFGVVLSSKGGQGRLRLAKNLKKNLEEAGKT---VLIILLSNVSP-----AKLLMFDQIDVFVQVACP 293 (332)
T ss_pred CEEEEEEecCccCCCHHHHHHHHHHHHHcCCc---EEEEEeCCCCH-----HHHhCCCCcCEEEEecCC
Confidence 47999997554443445556667778888975 34443332211 455555679999999983
No 490
>PRK10964 ADP-heptose:LPS heptosyl transferase I; Provisional
Probab=24.85 E-value=3.8e+02 Score=22.05 Aligned_cols=11 Identities=27% Similarity=0.477 Sum_probs=9.0
Q ss_pred hcCCCcEEEEe
Q 032216 131 KSGKYTAVLCI 141 (145)
Q Consensus 131 ~s~~yDAVIaL 141 (145)
+..+||.+|.+
T Consensus 83 r~~~yD~vidl 93 (322)
T PRK10964 83 QAEQYDAVIDA 93 (322)
T ss_pred hccCCCEEEEc
Confidence 56799999976
No 491
>cd04398 RhoGAP_fRGD1 RhoGAP_fRGD1: RhoGAP (GTPase-activator protein [GAP] for Rho-like small GTPases) domain of fungal RGD1-like proteins. Yeast Rgd1 is a GAP protein for Rho3 and Rho4 and plays a role in low-pH response. Small GTPases cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when GDP-bound. The Rho family of GTPases activates effectors involved in a wide variety of developmental processes, including regulation of cytoskeleton formation, cell proliferation and the JNK signaling pathway. GTPases generally have a low intrinsic GTPase hydrolytic activity but there are family-specific groups of GAPs that enhance the rate of GTP hydrolysis by several orders of magnitude.
Probab=24.83 E-value=2e+02 Score=22.30 Aligned_cols=38 Identities=8% Similarity=0.159 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHCCCCCCCeEEEEecccchHHHHHHHHhh
Q 032216 92 LLLEGALETFKKYSVKEENIDVVWVPGSFEIGVVAQQLGK 131 (145)
Q Consensus 92 ~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELPlaak~La~ 131 (145)
..++.|++.|.++|...+. ++++||.-.-=-.++....
T Consensus 18 ~~v~~~i~~l~~~gl~~eG--iFR~~g~~~~i~~l~~~~d 55 (192)
T cd04398 18 NIVYQCIQAIENFGLNLEG--IYRLSGNVSRVNKLKELFD 55 (192)
T ss_pred HHHHHHHHHHHHhCCCCCC--eeecCCcHHHHHHHHHHHc
Confidence 3566778888888887554 5888888654333333333
No 492
>PRK01185 ppnK inorganic polyphosphate/ATP-NAD kinase; Provisional
Probab=24.77 E-value=1.4e+02 Score=25.40 Aligned_cols=29 Identities=10% Similarity=0.126 Sum_probs=18.9
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHHCCC
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKKYSV 106 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~~Gv 106 (145)
|||+||.-...++. ..+.+...+.| ++|+
T Consensus 1 m~i~iv~~~~~~~~-~~~~~~i~~~l-~~g~ 29 (271)
T PRK01185 1 MKVAFVIRKDCKRC-IKIAKSIIELL-PPDW 29 (271)
T ss_pred CEEEEEecCCCHHH-HHHHHHHHHHH-hcCC
Confidence 68888866555544 44566677777 5665
No 493
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=24.68 E-value=2.3e+02 Score=19.20 Aligned_cols=48 Identities=13% Similarity=0.108 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCeEEEE-ecccchHHHHHHHHhhcCCCcEEEE
Q 032216 88 LVTKLLLEGALETFKKYSVKEENIDVVW-VPGSFEIGVVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 88 ~It~~LleGA~~~L~~~Gv~~e~I~vv~-VPGAfELPlaak~La~s~~yDAVIa 140 (145)
.-.+++++.+.+.+++.|+. ++... +.|. ..-.+-++++..++|-||.
T Consensus 52 ~~~~~~~~~~~~~~~~~g~~---~~~~~~~~~~--~~~~I~~~a~~~~~dlIV~ 100 (132)
T cd01988 52 QRARKLLRQAERIAASLGVP---VHTIIRIDHD--IASGILRTAKERQADLIIM 100 (132)
T ss_pred HHHHHHHHHHHHHhhhcCCc---eEEEEEecCC--HHHHHHHHHHhcCCCEEEE
Confidence 34567788888888888874 33333 4453 3344555666677877663
No 494
>PRK09620 hypothetical protein; Provisional
Probab=24.65 E-value=1.2e+02 Score=24.95 Aligned_cols=35 Identities=14% Similarity=0.129 Sum_probs=27.6
Q ss_pred CeEEEEecccchHHHHHHHHhhcCCCcEEEEeeee
Q 032216 110 NIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIGAV 144 (145)
Q Consensus 110 ~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG~V 144 (145)
.+....|.|+.|+--+++.+.+..++|+||-+.+|
T Consensus 63 ~~~~~~V~s~~d~~~~l~~~~~~~~~D~VIH~AAv 97 (229)
T PRK09620 63 QLELHPFEGIIDLQDKMKSIITHEKVDAVIMAAAG 97 (229)
T ss_pred ceeEEEEecHHHHHHHHHHHhcccCCCEEEECccc
Confidence 45667788888888888877766789999988775
No 495
>TIGR03566 FMN_reduc_MsuE FMN reductase, MsuE subfamily. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the NADH-dependent enzyme MsuE from Pseudomonas aeruginosa, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. The NADP-dependent enzyme from E. coli is outside the scope of this model.
Probab=24.63 E-value=70 Score=24.39 Aligned_cols=31 Identities=13% Similarity=0.180 Sum_probs=17.7
Q ss_pred EEEEEEeeec-HHHHHHHHHHHHHHHH-HCCCC
Q 032216 77 RFALVVARFN-ELVTKLLLEGALETFK-KYSVK 107 (145)
Q Consensus 77 RIaIVvArfN-~~It~~LleGA~~~L~-~~Gv~ 107 (145)
||.++.+.=. .-.+..|++.+.+.+. +.|..
T Consensus 1 kIl~i~GS~r~~s~t~~l~~~~~~~l~~~~g~e 33 (174)
T TIGR03566 1 KVVGVSGSLTRPSRTLALVEALVAELAARLGIS 33 (174)
T ss_pred CEEEEECCCCCCChHHHHHHHHHHHHHHhcCCe
Confidence 3455554433 3556677777777765 44653
No 496
>cd08169 DHQ-like Dehydroquinate synthase-like which includes dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. Dehydroquinate synthase-like. This group contains dehydroquinate synthase, 2-deoxy-scyllo-inosose synthase, and 2-epi-5-epi-valiolone synthase. They exhibit the dehydroquinate synthase structural fold. Dehydroquinate synthase (DHQS) catalyzes the conversion of 3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to dehydroquinate (DHQ) in the second step of the shikimate pathway. This pathway involves seven sequential enzymatic steps in the conversion of erythrose 4-phosphate and phosphoenolpyruvate into chorismate for subsequent synthesis of aromatic compounds. 2-deoxy-scyllo-inosose synthase (DOIS) catalyzes carbocycle formation from D-glucose-6-phosphate to 2-deoxy-scyllo-inosose through a multistep reaction in the biosynthesis of aminoglycoside antibiotics. 2-Deoxystreptamine (DOS)-containing aminoglycoside antibiotics includes ne
Probab=24.47 E-value=3.9e+02 Score=23.06 Aligned_cols=59 Identities=17% Similarity=0.269 Sum_probs=32.0
Q ss_pred CEEEEEEeeecHHHHHHHHHHHHHHHHH-CCCCCCCeEEEEecccch------HHHHHHHHhh--cCCCcEEEEee
Q 032216 76 LRFALVVARFNELVTKLLLEGALETFKK-YSVKEENIDVVWVPGSFE------IGVVAQQLGK--SGKYTAVLCIG 142 (145)
Q Consensus 76 lRIaIVvArfN~~It~~LleGA~~~L~~-~Gv~~e~I~vv~VPGAfE------LPlaak~La~--s~~yDAVIaLG 142 (145)
.|+.||..+. +.+...+.-.+.|++ .++ .++..|+.=+ +--+++.+.+ ..+.|.||++|
T Consensus 24 ~k~livtd~~---v~~~~~~~v~~~L~~~~~~-----~~~~~~~~e~~k~~~~v~~~~~~~~~~~~~r~d~IIaiG 91 (344)
T cd08169 24 DQYFFISDSG---VADLIAHYIAEYLSKILPV-----HILVIEGGEEYKTFETVTRILERAIALGANRRTAIVAVG 91 (344)
T ss_pred CeEEEEECcc---HHHHHHHHHHHHHHhhcCc-----eEEEeCCCCCCCCHHHHHHHHHHHHHcCCCCCcEEEEEC
Confidence 4787777543 233355555566655 343 3444555222 2233344443 24699999998
No 497
>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []. In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....
Probab=24.43 E-value=1.4e+02 Score=26.16 Aligned_cols=56 Identities=27% Similarity=0.214 Sum_probs=34.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEEEecccchHH-HHHHHHhhcCCCcEEEE
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVVWVPGSFEIG-VVAQQLGKSGKYTAVLC 140 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv~VPGAfELP-laak~La~s~~yDAVIa 140 (145)
+..++.|.++.-- ..+.+++.|++.+++-+++ |...|-- .++..|.+++.+|.||.
T Consensus 81 g~~~a~ID~e~~l---------d~~~a~~lGvdl~rllv~~-P~~~E~al~~~e~lirsg~~~lVVv 137 (322)
T PF00154_consen 81 GGICAFIDAEHAL---------DPEYAESLGVDLDRLLVVQ-PDTGEQALWIAEQLIRSGAVDLVVV 137 (322)
T ss_dssp T-EEEEEESSS------------HHHHHHTT--GGGEEEEE--SSHHHHHHHHHHHHHTTSESEEEE
T ss_pred cceeEEecCcccc---------hhhHHHhcCccccceEEec-CCcHHHHHHHHHHHhhcccccEEEE
Confidence 5577788776421 2345677799988876554 7776644 56778889999997763
No 498
>PF15127 DUF4565: Protein of unknown function (DUF4565)
Probab=24.28 E-value=61 Score=24.12 Aligned_cols=40 Identities=18% Similarity=0.293 Sum_probs=33.8
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHHHCCCCCCCeEEE
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFKKYSVKEENIDVV 114 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~~~Gv~~e~I~vv 114 (145)
+..+.+|+.+|-..+.+..+..|++.+....+.-.||-.+
T Consensus 47 ~~~a~~vvlEyA~rLSqEIl~dAlqQWA~~n~kY~DIPYI 86 (91)
T PF15127_consen 47 SPGASPVVLEYAHRLSQEILSDALQQWAENNIKYSDIPYI 86 (91)
T ss_pred CCCCCchhHHHHHHHHHHHHHHHHHHHHHhCccccCCCcc
Confidence 3457899999999999999999999999988876666444
No 499
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=24.15 E-value=1.1e+02 Score=21.97 Aligned_cols=42 Identities=14% Similarity=0.234 Sum_probs=25.1
Q ss_pred HHHHHHHHHCCCCCCCeEEE-EecccchHHHHHHHHhhc-CCCcEEEEe
Q 032216 95 EGALETFKKYSVKEENIDVV-WVPGSFEIGVVAQQLGKS-GKYTAVLCI 141 (145)
Q Consensus 95 eGA~~~L~~~Gv~~e~I~vv-~VPGAfELPlaak~La~s-~~yDAVIaL 141 (145)
+|.-+.|+++|+. ++.+ ..++. .-|-+...+ +. +++|.||.+
T Consensus 32 ~gTa~~L~~~Gi~---~~~v~~~~~~-g~~~i~~~i-~~~g~idlVIn~ 75 (112)
T cd00532 32 GGTSRVLADAGIP---VRAVSKRHED-GEPTVDAAI-AEKGKFDVVINL 75 (112)
T ss_pred cHHHHHHHHcCCc---eEEEEecCCC-CCcHHHHHH-hCCCCEEEEEEc
Confidence 4556677788875 3333 22221 236666665 45 899999864
No 500
>PRK13805 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional
Probab=24.11 E-value=1.3e+02 Score=29.34 Aligned_cols=66 Identities=18% Similarity=0.124 Sum_probs=0.0
Q ss_pred CCEEEEEEeeecHHHHHHHHHHHHHHHH--HCCCCCCCeEEEEecccchHHHHHHHHhhcCCCcEEEEee
Q 032216 75 GLRFALVVARFNELVTKLLLEGALETFK--KYSVKEENIDVVWVPGSFEIGVVAQQLGKSGKYTAVLCIG 142 (145)
Q Consensus 75 ~lRIaIVvArfN~~It~~LleGA~~~L~--~~Gv~~e~I~vv~VPGAfELPlaak~La~s~~yDAVIaLG 142 (145)
..|+.||..+.-.. ....+...+.|+ ..|+....++-+.--=.+|.-.-+-.+++..++|+||++|
T Consensus 480 ~~~~lvVtd~~~~~--~g~~~~v~~~L~~~~~~i~~~~~~~v~~np~~~~v~~~~~~~~~~~~D~IIaiG 547 (862)
T PRK13805 480 KKRAFIVTDRFMVE--LGYVDKVTDVLKKRENGVEYEVFSEVEPDPTLSTVRKGAELMRSFKPDTIIALG 547 (862)
T ss_pred CCEEEEEECcchhh--cchHHHHHHHHhcccCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Done!