Query 024727
Match_columns 263
No_of_seqs 180 out of 1432
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 06:54:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024727.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024727hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK05752 uroporphyrinogen-III 100.0 5.1E-39 1.1E-43 283.0 24.0 209 48-263 1-218 (255)
2 PRK08811 uroporphyrinogen-III 100.0 5.1E-38 1.1E-42 278.0 22.9 209 46-263 14-227 (266)
3 COG1587 HemD Uroporphyrinogen- 100.0 8.5E-37 1.8E-41 267.9 23.8 204 50-263 1-212 (248)
4 PRK07239 bifunctional uroporph 100.0 1.8E-36 3.8E-41 281.1 24.9 212 44-263 5-244 (381)
5 PRK09189 uroporphyrinogen-III 100.0 5.7E-36 1.2E-40 261.1 21.9 201 51-263 1-208 (240)
6 PRK05928 hemD uroporphyrinogen 100.0 1.6E-34 3.4E-39 251.5 23.8 206 50-263 1-215 (249)
7 PRK06975 bifunctional uroporph 100.0 5.6E-34 1.2E-38 279.5 23.9 208 49-263 2-234 (656)
8 cd06578 HemD Uroporphyrinogen- 100.0 2.1E-32 4.6E-37 236.0 24.0 202 53-263 1-210 (239)
9 PF02602 HEM4: Uroporphyrinoge 100.0 1.1E-33 2.3E-38 244.6 15.2 192 63-263 1-204 (231)
10 PRK07168 bifunctional uroporph 100.0 7.2E-32 1.6E-36 255.1 17.4 200 26-263 235-444 (474)
11 KOG4132 Uroporphyrinogen III s 99.9 8.4E-26 1.8E-30 189.2 19.0 206 50-263 3-222 (260)
12 PRK05928 hemD uroporphyrinogen 99.7 2.7E-16 5.8E-21 136.7 14.1 120 48-174 123-247 (249)
13 cd06578 HemD Uroporphyrinogen- 99.6 3.6E-15 7.8E-20 128.4 14.8 118 47-171 119-239 (239)
14 PRK07239 bifunctional uroporph 99.6 1.1E-14 2.3E-19 135.4 14.4 121 47-175 139-276 (381)
15 PRK05752 uroporphyrinogen-III 99.6 2.8E-14 6.1E-19 125.6 14.0 121 48-175 128-251 (255)
16 PF02602 HEM4: Uroporphyrinoge 99.6 9.4E-15 2E-19 126.1 7.9 116 47-169 114-231 (231)
17 COG1587 HemD Uroporphyrinogen- 99.5 8.2E-14 1.8E-18 122.3 13.3 118 50-174 123-244 (248)
18 PRK09189 uroporphyrinogen-III 99.5 1.4E-13 3E-18 120.0 14.0 118 49-173 117-239 (240)
19 KOG4132 Uroporphyrinogen III s 99.5 8.2E-13 1.8E-17 111.4 13.1 120 50-175 133-255 (260)
20 PRK08811 uroporphyrinogen-III 99.5 8.2E-13 1.8E-17 117.1 13.6 121 48-175 136-260 (266)
21 PRK06975 bifunctional uroporph 99.2 2.8E-10 6E-15 112.6 13.6 118 48-174 137-265 (656)
22 PRK07168 bifunctional uroporph 98.7 6.7E-07 1.4E-11 85.4 16.6 171 51-263 164-338 (474)
23 cd06298 PBP1_CcpA_like Ligand- 96.8 0.052 1.1E-06 46.7 14.0 175 64-262 20-213 (268)
24 cd06295 PBP1_CelR Ligand bindi 96.8 0.041 8.8E-07 47.8 13.4 176 65-262 32-222 (275)
25 cd06299 PBP1_LacI_like_13 Liga 96.6 0.036 7.7E-07 47.8 11.6 177 64-262 20-211 (265)
26 cd01575 PBP1_GntR Ligand-bindi 96.6 0.052 1.1E-06 46.7 12.4 179 63-262 19-213 (268)
27 cd06273 PBP1_GntR_like_1 This 96.4 0.079 1.7E-06 45.7 12.7 176 63-262 19-214 (268)
28 cd06297 PBP1_LacI_like_12 Liga 96.4 0.098 2.1E-06 45.5 13.3 176 63-262 19-216 (269)
29 cd06270 PBP1_GalS_like Ligand 96.3 0.11 2.5E-06 44.8 12.8 178 63-262 19-213 (268)
30 cd06286 PBP1_CcpB_like Ligand- 96.2 0.12 2.6E-06 44.4 12.6 178 63-262 19-211 (260)
31 cd06271 PBP1_AglR_RafR_like Li 96.2 0.1 2.2E-06 44.9 11.9 179 63-262 23-217 (268)
32 cd06272 PBP1_hexuronate_repres 96.1 0.11 2.3E-06 44.8 12.0 174 64-262 20-208 (261)
33 cd06296 PBP1_CatR_like Ligand- 96.1 0.081 1.8E-06 45.7 11.1 180 64-262 20-214 (270)
34 cd06283 PBP1_RegR_EndR_KdgR_li 96.1 0.23 4.9E-06 42.6 13.8 178 63-262 19-214 (267)
35 cd06294 PBP1_ycjW_transcriptio 96.1 0.16 3.4E-06 43.8 12.6 180 63-262 24-219 (270)
36 cd06305 PBP1_methylthioribose_ 96.1 0.15 3.3E-06 44.0 12.6 180 63-262 19-217 (273)
37 COG1609 PurR Transcriptional r 96.0 0.14 3E-06 46.8 12.7 180 63-262 78-273 (333)
38 cd06301 PBP1_rhizopine_binding 96.0 0.13 2.7E-06 44.6 11.9 182 64-262 20-218 (272)
39 cd01542 PBP1_TreR_like Ligand- 96.0 0.16 3.4E-06 43.6 12.2 174 63-262 19-209 (259)
40 cd06274 PBP1_FruR Ligand bindi 95.9 0.33 7.1E-06 41.8 13.9 177 64-262 20-214 (264)
41 cd06288 PBP1_sucrose_transcrip 95.9 0.25 5.5E-06 42.4 13.1 178 64-262 21-213 (269)
42 cd06279 PBP1_LacI_like_3 Ligan 95.8 0.22 4.9E-06 43.6 12.8 175 63-262 24-231 (283)
43 cd06285 PBP1_LacI_like_7 Ligan 95.8 0.18 4E-06 43.4 11.9 176 63-262 19-211 (265)
44 cd01545 PBP1_SalR Ligand-bindi 95.8 0.25 5.4E-06 42.5 12.7 181 63-262 19-215 (270)
45 cd06292 PBP1_LacI_like_10 Liga 95.7 0.15 3.3E-06 44.1 11.0 180 63-262 19-217 (273)
46 cd06309 PBP1_YtfQ_like Peripla 95.7 0.13 2.8E-06 44.7 10.6 184 63-262 19-221 (273)
47 TIGR01481 ccpA catabolite cont 95.6 0.52 1.1E-05 42.2 14.6 176 65-262 81-272 (329)
48 cd06320 PBP1_allose_binding Pe 95.6 0.37 8E-06 41.8 13.2 177 63-261 19-215 (275)
49 cd06281 PBP1_LacI_like_5 Ligan 95.6 0.34 7.4E-06 41.9 12.9 175 64-262 20-212 (269)
50 cd06289 PBP1_MalI_like Ligand- 95.6 0.86 1.9E-05 39.0 15.2 176 64-262 20-214 (268)
51 cd01574 PBP1_LacI Ligand-bindi 95.5 0.31 6.8E-06 41.8 12.3 177 63-262 19-210 (264)
52 cd06275 PBP1_PurR Ligand-bindi 95.5 0.51 1.1E-05 40.6 13.6 178 64-262 20-214 (269)
53 cd06290 PBP1_LacI_like_9 Ligan 95.5 0.32 7E-06 41.8 12.3 176 64-262 20-212 (265)
54 cd06310 PBP1_ABC_sugar_binding 95.5 0.22 4.8E-06 43.1 11.3 179 63-262 19-217 (273)
55 PRK02261 methylaspartate mutas 95.5 0.54 1.2E-05 37.5 12.5 113 49-174 2-133 (137)
56 cd06316 PBP1_ABC_sugar_binding 95.5 0.3 6.5E-06 43.0 12.2 184 65-262 21-219 (294)
57 cd06313 PBP1_ABC_sugar_binding 95.4 0.21 4.6E-06 43.6 11.0 183 63-262 19-216 (272)
58 cd01537 PBP1_Repressors_Sugar_ 95.4 0.18 3.9E-06 42.7 10.3 179 63-262 19-214 (264)
59 PRK10423 transcriptional repre 95.4 0.73 1.6E-05 41.1 14.7 178 64-262 77-271 (327)
60 cd06284 PBP1_LacI_like_6 Ligan 95.3 0.5 1.1E-05 40.5 12.7 177 63-262 19-212 (267)
61 PRK10014 DNA-binding transcrip 95.2 0.89 1.9E-05 40.9 14.5 164 65-250 86-264 (342)
62 PRK10703 DNA-binding transcrip 95.2 0.32 7E-06 43.8 11.6 181 64-262 80-275 (341)
63 cd06293 PBP1_LacI_like_11 Liga 95.1 0.46 1E-05 41.0 12.2 178 64-262 20-213 (269)
64 cd01541 PBP1_AraR Ligand-bindi 95.1 0.57 1.2E-05 40.5 12.8 177 64-262 20-219 (273)
65 cd06278 PBP1_LacI_like_2 Ligan 95.1 0.38 8.3E-06 41.2 11.6 177 64-262 20-211 (266)
66 cd06267 PBP1_LacI_sugar_bindin 95.1 0.72 1.6E-05 39.0 13.1 179 64-262 20-213 (264)
67 PRK11303 DNA-binding transcrip 94.9 1.5 3.4E-05 39.0 15.1 175 64-262 82-274 (328)
68 cd06282 PBP1_GntR_like_2 Ligan 94.7 1.1 2.4E-05 38.3 13.2 175 64-262 20-212 (266)
69 cd06354 PBP1_BmpA_PnrA_like Pe 94.6 1 2.3E-05 39.1 13.1 176 63-261 22-212 (265)
70 cd06302 PBP1_LsrB_Quorum_Sensi 94.6 0.59 1.3E-05 41.4 11.6 182 63-262 19-219 (298)
71 PF04392 ABC_sub_bind: ABC tra 94.6 0.94 2E-05 40.4 12.9 187 62-260 17-216 (294)
72 PF00532 Peripla_BP_1: Peripla 94.6 0.12 2.6E-06 45.9 7.0 166 64-251 22-202 (279)
73 cd06318 PBP1_ABC_sugar_binding 94.5 1 2.2E-05 39.0 12.8 179 63-262 19-224 (282)
74 cd06314 PBP1_tmGBP Periplasmic 94.5 0.65 1.4E-05 40.2 11.4 177 63-262 18-213 (271)
75 cd06308 PBP1_sensor_kinase_lik 94.5 1.5 3.2E-05 37.9 13.6 180 64-262 20-216 (270)
76 PF13407 Peripla_BP_4: Peripla 94.4 0.71 1.5E-05 39.6 11.4 180 63-262 18-216 (257)
77 COG2185 Sbm Methylmalonyl-CoA 94.3 0.71 1.5E-05 37.1 10.0 102 49-162 11-125 (143)
78 TIGR00640 acid_CoA_mut_C methy 94.3 1.4 3.1E-05 34.8 11.8 110 51-173 3-125 (132)
79 cd06307 PBP1_uncharacterized_s 94.1 2.1 4.6E-05 37.0 13.8 183 64-262 20-219 (275)
80 cd02072 Glm_B12_BD B12 binding 94.1 1.2 2.5E-05 35.2 10.8 99 61-172 15-127 (128)
81 cd01536 PBP1_ABC_sugar_binding 93.9 1 2.2E-05 38.3 11.4 179 64-261 20-214 (267)
82 TIGR02853 spore_dpaA dipicolin 93.9 2.1 4.5E-05 38.5 13.6 175 50-240 1-221 (287)
83 cd06323 PBP1_ribose_binding Pe 93.8 1.4 3.1E-05 37.6 12.1 178 64-262 20-214 (268)
84 cd06321 PBP1_ABC_sugar_binding 93.8 1.9 4.1E-05 37.1 12.8 145 101-262 56-214 (271)
85 PRK10653 D-ribose transporter 93.7 2 4.3E-05 37.9 13.0 179 63-262 46-240 (295)
86 PRK09526 lacI lac repressor; R 93.6 1.4 3.1E-05 39.5 12.2 176 64-262 84-276 (342)
87 cd06312 PBP1_ABC_sugar_binding 93.6 0.82 1.8E-05 39.6 10.2 179 63-262 20-217 (271)
88 cd06291 PBP1_Qymf_like Ligand 93.6 1.1 2.5E-05 38.4 11.1 173 63-262 19-209 (265)
89 cd06276 PBP1_FucR_like Ligand- 93.5 0.93 2E-05 39.1 10.5 170 63-262 18-198 (247)
90 cd06287 PBP1_LacI_like_8 Ligan 93.5 1.7 3.7E-05 37.9 12.2 172 63-260 27-212 (269)
91 cd06319 PBP1_ABC_sugar_binding 93.4 0.99 2.1E-05 38.9 10.5 182 63-262 19-219 (277)
92 cd06277 PBP1_LacI_like_1 Ligan 93.2 3.1 6.7E-05 35.7 13.3 176 64-262 23-213 (268)
93 TIGR01501 MthylAspMutase methy 93.2 2.8 6E-05 33.4 11.6 110 52-174 3-131 (134)
94 cd06322 PBP1_ABC_sugar_binding 93.1 3.9 8.5E-05 35.0 13.8 178 63-262 19-212 (267)
95 cd01391 Periplasmic_Binding_Pr 93.1 2.8 6.1E-05 34.8 12.6 148 101-262 57-217 (269)
96 cd06280 PBP1_LacI_like_4 Ligan 93.1 1.4 3E-05 37.9 10.9 173 63-262 19-208 (263)
97 PRK08306 dipicolinate synthase 93.1 2.7 5.8E-05 37.8 12.9 175 50-239 2-221 (296)
98 cd02071 MM_CoA_mut_B12_BD meth 93.1 1.6 3.4E-05 33.8 10.1 97 63-172 17-121 (122)
99 cd01539 PBP1_GGBP Periplasmic 93.0 2.5 5.3E-05 37.5 12.6 182 64-262 20-240 (303)
100 cd01544 PBP1_GalR Ligand-bindi 92.9 4.2 9.2E-05 35.1 13.8 170 63-262 24-215 (270)
101 TIGR02417 fruct_sucro_rep D-fr 92.9 2.3 5E-05 37.9 12.3 175 64-262 81-273 (327)
102 PRK09492 treR trehalose repres 92.9 5.1 0.00011 35.4 14.5 171 63-262 82-265 (315)
103 cd06300 PBP1_ABC_sugar_binding 92.8 3.3 7.1E-05 35.7 12.9 144 101-262 59-217 (272)
104 PRK10401 DNA-binding transcrip 92.8 3.7 7.9E-05 37.1 13.7 177 64-262 80-273 (346)
105 PRK10727 DNA-binding transcrip 92.7 1.9 4.2E-05 38.8 11.6 174 64-262 80-273 (343)
106 cd01538 PBP1_ABC_xylose_bindin 92.2 1.4 3E-05 38.7 9.8 182 63-262 19-224 (288)
107 cd06317 PBP1_ABC_sugar_binding 92.1 2.3 5E-05 36.5 11.0 178 64-262 21-221 (275)
108 PRK14987 gluconate operon tran 91.1 4.1 8.9E-05 36.4 11.8 176 64-262 84-275 (331)
109 cd06304 PBP1_BmpA_like Peripla 90.9 4 8.7E-05 35.2 11.3 168 64-250 22-200 (260)
110 PRK09701 D-allose transporter 90.4 7.4 0.00016 34.7 12.8 184 63-262 44-250 (311)
111 COG4822 CbiK Cobalamin biosynt 90.4 6 0.00013 34.1 11.2 144 65-217 65-242 (265)
112 cd06324 PBP1_ABC_sugar_binding 90.2 8 0.00017 34.2 12.8 186 63-262 20-238 (305)
113 cd06306 PBP1_TorT-like TorT-li 90.0 5.7 0.00012 34.3 11.5 174 64-260 20-215 (268)
114 PRK15408 autoinducer 2-binding 90.0 5.1 0.00011 36.6 11.5 162 64-250 44-230 (336)
115 PRK11041 DNA-binding transcrip 89.7 5.6 0.00012 35.0 11.3 176 63-262 55-249 (309)
116 cd06303 PBP1_LuxPQ_Quorum_Sens 89.4 12 0.00025 32.6 13.0 186 63-262 20-224 (280)
117 PRK10339 DNA-binding transcrip 88.4 13 0.00028 33.2 12.8 168 64-262 88-270 (327)
118 COG2984 ABC-type uncharacteriz 88.3 20 0.00043 32.7 14.3 176 51-241 31-225 (322)
119 cd02067 B12-binding B12 bindin 87.8 6.1 0.00013 30.0 9.0 84 62-157 16-107 (119)
120 cd01543 PBP1_XylR Ligand-bindi 87.5 17 0.00037 31.1 12.8 172 64-262 19-207 (265)
121 PRK02910 light-independent pro 87.5 25 0.00055 34.2 15.0 143 60-212 175-328 (519)
122 PF10087 DUF2325: Uncharacteri 87.0 3 6.6E-05 30.8 6.6 60 180-241 1-61 (97)
123 PRK10569 NAD(P)H-dependent FMN 86.6 4.5 9.8E-05 34.0 8.2 70 191-261 21-105 (191)
124 cd06311 PBP1_ABC_sugar_binding 86.5 20 0.00043 30.8 14.8 145 101-260 59-217 (274)
125 TIGR03567 FMN_reduc_SsuE FMN r 86.3 5.1 0.00011 32.8 8.2 40 221-261 58-104 (171)
126 PF03358 FMN_red: NADPH-depend 86.0 3.3 7.1E-05 32.8 6.8 81 180-261 2-112 (152)
127 PRK06756 flavodoxin; Provision 86.0 4.4 9.6E-05 32.1 7.5 63 64-136 21-91 (148)
128 TIGR00853 pts-lac PTS system, 85.9 10 0.00023 28.0 9.0 75 178-263 3-83 (95)
129 PRK11790 D-3-phosphoglycerate 85.7 21 0.00045 33.7 13.0 173 46-240 6-215 (409)
130 cd01540 PBP1_arabinose_binding 85.6 10 0.00022 32.9 10.3 68 63-137 19-88 (289)
131 cd00316 Oxidoreductase_nitroge 85.3 31 0.00067 31.9 14.4 141 61-212 167-313 (399)
132 PRK15395 methyl-galactoside AB 84.7 30 0.00064 31.2 14.0 152 101-262 80-258 (330)
133 cd06341 PBP1_ABC_ligand_bindin 84.3 30 0.00065 30.9 13.4 136 101-251 66-211 (341)
134 PF03808 Glyco_tran_WecB: Glyc 84.0 15 0.00033 30.1 10.0 123 130-262 8-134 (172)
135 cd05564 PTS_IIB_chitobiose_lic 83.9 11 0.00023 27.9 8.3 74 180-263 1-79 (96)
136 TIGR02637 RhaS rhamnose ABC tr 83.8 19 0.0004 31.6 11.3 148 101-262 55-219 (302)
137 PRK15438 erythronate-4-phospha 83.7 6.8 0.00015 36.7 8.6 163 51-240 1-179 (378)
138 TIGR02955 TMAO_TorT TMAO reduc 83.1 21 0.00045 31.4 11.3 177 64-260 20-215 (295)
139 cd06325 PBP1_ABC_uncharacteriz 82.2 31 0.00067 29.5 12.6 150 101-261 59-217 (281)
140 PF06506 PrpR_N: Propionate ca 82.1 4.5 9.9E-05 33.3 6.2 75 128-209 34-108 (176)
141 PF03358 FMN_red: NADPH-depend 81.5 5.6 0.00012 31.4 6.4 71 63-134 21-112 (152)
142 PRK14191 bifunctional 5,10-met 80.0 22 0.00049 31.9 10.2 148 65-237 52-209 (285)
143 PRK00107 gidB 16S rRNA methylt 79.8 23 0.0005 29.6 9.8 55 162-216 122-176 (187)
144 PRK07825 short chain dehydroge 79.8 39 0.00085 29.1 12.4 81 48-135 3-87 (273)
145 PRK14719 bifunctional RNAse/5- 79.5 20 0.00044 33.3 10.1 80 118-205 14-99 (360)
146 PRK10569 NAD(P)H-dependent FMN 79.2 8.4 0.00018 32.3 6.9 69 64-132 22-103 (191)
147 TIGR02634 xylF D-xylose ABC tr 79.2 21 0.00046 31.6 10.0 179 62-261 17-217 (302)
148 PRK10537 voltage-gated potassi 78.7 23 0.0005 33.3 10.4 116 50-173 240-370 (393)
149 cd05565 PTS_IIB_lactose PTS_II 78.4 20 0.00044 26.9 8.0 72 180-262 2-79 (99)
150 TIGR03566 FMN_reduc_MsuE FMN r 78.3 12 0.00026 30.6 7.5 40 221-261 61-107 (174)
151 PRK00257 erythronate-4-phospha 77.7 31 0.00068 32.3 10.9 159 51-239 1-178 (381)
152 PRK10936 TMAO reductase system 77.3 32 0.0007 31.1 10.8 189 50-261 46-263 (343)
153 PLN02928 oxidoreductase family 77.2 30 0.00064 31.9 10.5 62 177-241 158-239 (347)
154 cd06268 PBP1_ABC_transporter_L 76.5 46 0.001 28.2 12.9 137 101-251 65-213 (298)
155 cd02070 corrinoid_protein_B12- 76.3 45 0.00098 28.0 11.0 90 50-145 82-182 (201)
156 PRK08339 short chain dehydroge 76.2 24 0.00052 30.6 9.3 74 47-124 5-83 (263)
157 PF02310 B12-binding: B12 bind 75.9 18 0.00039 27.2 7.5 89 61-161 16-113 (121)
158 cd00401 AdoHcyase S-adenosyl-L 75.7 74 0.0016 30.2 13.0 35 45-79 31-66 (413)
159 PRK12480 D-lactate dehydrogena 75.2 66 0.0014 29.4 14.7 171 51-240 2-210 (330)
160 cd06167 LabA_like LabA_like pr 75.1 9.8 0.00021 29.9 6.0 83 61-145 53-142 (149)
161 PF06180 CbiK: Cobalt chelatas 74.7 13 0.00028 33.0 7.1 141 63-205 61-237 (262)
162 PF13458 Peripla_BP_6: Peripla 74.6 61 0.0013 28.7 13.6 136 101-251 68-213 (343)
163 PRK04017 hypothetical protein; 74.2 24 0.00052 28.0 7.8 82 115-205 10-97 (132)
164 PRK05872 short chain dehydroge 73.7 63 0.0014 28.5 12.3 83 46-135 5-94 (296)
165 PRK14192 bifunctional 5,10-met 73.7 18 0.0004 32.4 7.9 147 65-237 54-211 (283)
166 PRK09426 methylmalonyl-CoA mut 73.7 25 0.00054 35.8 9.7 99 62-173 599-705 (714)
167 PRK13982 bifunctional SbtC-lik 73.4 12 0.00027 36.0 7.1 65 46-110 252-342 (475)
168 TIGR01285 nifN nitrogenase mol 72.6 51 0.0011 31.3 11.1 144 60-211 181-344 (432)
169 PRK09496 trkA potassium transp 72.3 87 0.0019 29.4 16.2 150 100-262 63-238 (453)
170 PF10087 DUF2325: Uncharacteri 70.9 31 0.00068 25.3 7.5 55 52-111 1-57 (97)
171 PRK14189 bifunctional 5,10-met 70.7 48 0.001 29.8 9.8 147 65-237 53-210 (285)
172 TIGR03567 FMN_reduc_SsuE FMN r 70.5 13 0.00029 30.3 5.9 70 65-134 22-104 (171)
173 TIGR01753 flav_short flavodoxi 70.4 14 0.0003 28.5 5.7 61 64-135 18-87 (140)
174 PRK14175 bifunctional 5,10-met 70.1 48 0.001 29.8 9.7 148 65-238 53-211 (286)
175 cd06533 Glyco_transf_WecG_TagA 69.9 56 0.0012 26.7 9.5 120 131-262 7-132 (171)
176 TIGR03427 ABC_peri_uca ABC tra 69.8 89 0.0019 28.5 12.1 140 64-241 25-166 (328)
177 PRK06756 flavodoxin; Provision 69.7 20 0.00044 28.3 6.7 16 158-173 9-24 (148)
178 PF03709 OKR_DC_1_N: Orn/Lys/A 69.7 38 0.00083 25.8 7.9 68 62-138 6-77 (115)
179 PF02310 B12-binding: B12 bind 69.3 17 0.00037 27.3 5.9 67 190-263 17-89 (121)
180 cd01080 NAD_bind_m-THF_DH_Cycl 68.8 22 0.00047 29.3 6.8 68 163-238 27-97 (168)
181 PLN02516 methylenetetrahydrofo 68.8 49 0.0011 30.0 9.5 150 66-238 61-220 (299)
182 PRK14179 bifunctional 5,10-met 68.5 76 0.0016 28.5 10.6 161 52-237 36-210 (284)
183 PRK01175 phosphoribosylformylg 67.7 55 0.0012 29.0 9.5 91 49-155 2-109 (261)
184 PRK09496 trkA potassium transp 67.5 56 0.0012 30.7 10.2 117 48-172 229-363 (453)
185 cd06289 PBP1_MalI_like Ligand- 67.3 47 0.001 28.0 9.0 89 50-138 117-217 (268)
186 PRK06703 flavodoxin; Provision 67.0 17 0.00037 28.8 5.7 66 60-136 13-90 (151)
187 COG0647 NagD Predicted sugar p 66.7 66 0.0014 28.7 9.8 84 58-155 25-113 (269)
188 cd06320 PBP1_allose_binding Pe 66.4 33 0.00072 29.3 7.9 86 51-136 123-217 (275)
189 PRK14176 bifunctional 5,10-met 66.3 71 0.0015 28.8 10.0 159 51-235 41-214 (287)
190 cd01972 Nitrogenase_VnfE_like 66.2 80 0.0017 29.8 10.9 138 61-209 180-325 (426)
191 cd01977 Nitrogenase_VFe_alpha 65.6 1E+02 0.0022 28.9 11.5 139 61-210 176-321 (415)
192 cd06353 PBP1_BmpA_Med_like Per 65.2 93 0.002 27.0 13.8 123 101-237 56-187 (258)
193 cd01976 Nitrogenase_MoFe_alpha 64.4 1.3E+02 0.0028 28.4 12.0 138 60-210 185-332 (421)
194 cd06386 PBP1_NPR_C_like Ligand 64.2 1.2E+02 0.0026 27.9 12.0 84 163-251 124-217 (387)
195 cd01391 Periplasmic_Binding_Pr 64.0 44 0.00095 27.4 8.0 74 63-136 143-218 (269)
196 PF00148 Oxidored_nitro: Nitro 64.0 24 0.00052 32.8 6.9 152 49-214 143-307 (398)
197 PF13344 Hydrolase_6: Haloacid 63.8 47 0.001 24.6 7.2 78 60-145 17-98 (101)
198 TIGR01282 nifD nitrogenase mol 63.7 1.1E+02 0.0023 29.5 11.4 137 60-209 220-366 (466)
199 PF04016 DUF364: Domain of unk 63.6 13 0.00027 29.9 4.3 80 177-263 10-96 (147)
200 PRK14188 bifunctional 5,10-met 63.4 89 0.0019 28.2 10.1 123 65-205 53-186 (296)
201 PRK06079 enoyl-(acyl carrier p 62.5 41 0.00089 28.8 7.7 72 44-123 1-79 (252)
202 smart00852 MoCF_biosynth Proba 62.4 13 0.00028 29.0 4.1 51 60-114 18-69 (135)
203 TIGR00288 conserved hypothetic 62.3 45 0.00097 27.3 7.3 76 62-145 68-148 (160)
204 cd01966 Nitrogenase_NifN_1 Nit 62.2 73 0.0016 30.1 9.8 143 61-210 172-332 (417)
205 PRK09271 flavodoxin; Provision 62.2 81 0.0018 25.3 10.0 38 99-136 48-93 (160)
206 cd01537 PBP1_Repressors_Sugar_ 62.0 37 0.00079 28.3 7.2 87 50-138 118-217 (264)
207 PRK08265 short chain dehydroge 62.0 92 0.002 26.7 9.9 71 46-123 2-76 (261)
208 PRK12742 oxidoreductase; Provi 61.9 55 0.0012 27.3 8.3 33 46-78 2-35 (237)
209 cd06282 PBP1_GntR_like_2 Ligan 61.8 22 0.00047 30.1 5.8 72 64-137 138-214 (266)
210 COG2185 Sbm Methylmalonyl-CoA 61.7 47 0.001 26.7 7.2 72 137-217 31-107 (143)
211 PRK09739 hypothetical protein; 61.4 25 0.00055 29.3 6.0 57 191-248 24-105 (199)
212 cd01974 Nitrogenase_MoFe_beta 61.1 87 0.0019 29.7 10.2 140 62-210 176-335 (435)
213 PRK07308 flavodoxin; Validated 61.1 27 0.00059 27.4 5.9 74 52-136 5-90 (146)
214 PRK14476 nitrogenase molybdenu 60.9 93 0.002 29.8 10.4 144 60-211 182-344 (455)
215 PRK06849 hypothetical protein; 60.8 66 0.0014 29.7 9.2 90 49-141 3-113 (389)
216 cd06341 PBP1_ABC_ligand_bindin 60.8 38 0.00083 30.2 7.4 68 63-133 151-220 (341)
217 TIGR01278 DPOR_BchB light-inde 60.3 1.7E+02 0.0037 28.4 13.7 135 61-211 176-329 (511)
218 PRK11303 DNA-binding transcrip 60.3 59 0.0013 28.7 8.6 86 50-137 179-276 (328)
219 PLN02409 serine--glyoxylate am 60.0 79 0.0017 29.4 9.6 61 175-237 81-146 (401)
220 cd00578 L-fuc_L-ara-isomerases 59.5 1.3E+02 0.0028 28.6 11.1 142 60-212 23-199 (452)
221 PF04273 DUF442: Putative phos 59.5 21 0.00046 27.2 4.7 71 50-120 28-105 (110)
222 PRK12481 2-deoxy-D-gluconate 3 59.4 1.1E+02 0.0024 26.0 12.6 72 46-123 4-79 (251)
223 TIGR00521 coaBC_dfp phosphopan 59.3 42 0.0009 31.6 7.5 34 46-79 181-231 (390)
224 cd01965 Nitrogenase_MoFe_beta_ 59.3 1.6E+02 0.0034 27.7 14.6 143 61-209 170-330 (428)
225 COG0075 Serine-pyruvate aminot 59.3 28 0.0006 32.7 6.3 60 49-109 79-138 (383)
226 PLN02891 IMP cyclohydrolase 59.1 1.3E+02 0.0028 29.5 10.8 130 104-250 25-179 (547)
227 PRK08594 enoyl-(acyl carrier p 59.0 1.1E+02 0.0024 26.3 9.8 74 46-123 3-83 (257)
228 PF02606 LpxK: Tetraacyldisacc 59.0 27 0.00058 32.0 6.1 71 46-117 223-294 (326)
229 PRK00170 azoreductase; Reviewe 59.0 17 0.00036 30.2 4.5 55 193-248 25-112 (201)
230 cd03129 GAT1_Peptidase_E_like 58.8 82 0.0018 26.4 8.8 61 177-241 28-93 (210)
231 TIGR02690 resist_ArsH arsenica 58.7 1E+02 0.0022 26.6 9.2 83 178-262 26-135 (219)
232 PRK05579 bifunctional phosphop 58.4 52 0.0011 31.0 8.0 34 46-79 184-234 (399)
233 PLN02616 tetrahydrofolate dehy 58.3 84 0.0018 29.3 9.1 68 162-237 213-283 (364)
234 PF13377 Peripla_BP_3: Peripla 58.1 46 0.001 25.8 6.8 83 179-262 10-104 (160)
235 TIGR01861 ANFD nitrogenase iro 57.9 1.9E+02 0.0042 28.2 12.5 137 60-207 215-358 (513)
236 PF04127 DFP: DNA / pantothena 57.9 22 0.00048 29.7 4.9 18 62-79 32-49 (185)
237 PRK05569 flavodoxin; Provision 57.7 33 0.00072 26.6 5.8 36 100-135 46-90 (141)
238 PRK10792 bifunctional 5,10-met 57.5 1.3E+02 0.0028 27.1 10.0 146 65-236 54-210 (285)
239 PF04016 DUF364: Domain of unk 57.5 5.7 0.00012 31.9 1.3 115 47-173 8-130 (147)
240 cd04509 PBP1_ABC_transporter_G 57.3 1.2E+02 0.0026 25.6 10.8 135 102-251 67-214 (299)
241 cd06315 PBP1_ABC_sugar_binding 57.3 1.3E+02 0.0027 26.0 14.3 174 64-251 21-211 (280)
242 cd00615 Orn_deC_like Ornithine 56.8 37 0.0008 30.1 6.5 62 49-112 98-164 (294)
243 PRK13556 azoreductase; Provisi 56.8 38 0.00083 28.5 6.3 25 224-249 85-116 (208)
244 PRK07765 para-aminobenzoate sy 56.8 1.2E+02 0.0027 25.7 10.0 93 51-156 1-98 (214)
245 PRK01355 azoreductase; Reviewe 56.5 31 0.00067 28.9 5.7 55 193-248 26-103 (199)
246 PRK14178 bifunctional 5,10-met 56.2 1.5E+02 0.0033 26.5 10.2 148 65-238 47-205 (279)
247 TIGR01283 nifE nitrogenase mol 56.2 1.9E+02 0.0041 27.6 14.1 139 61-210 211-358 (456)
248 cd06451 AGAT_like Alanine-glyo 56.0 1.2E+02 0.0026 27.2 10.0 60 176-237 72-133 (356)
249 TIGR01729 taurine_ABC_bnd taur 55.9 53 0.0012 28.9 7.4 67 42-113 92-158 (300)
250 cd06309 PBP1_YtfQ_like Peripla 55.9 1.3E+02 0.0027 25.6 9.7 53 93-145 175-233 (273)
251 PF05991 NYN_YacP: YacP-like N 55.7 22 0.00048 29.1 4.6 50 152-204 67-117 (166)
252 PRK10669 putative cation:proto 55.6 1.2E+02 0.0027 29.6 10.5 114 51-173 418-549 (558)
253 PRK12829 short chain dehydroge 55.4 57 0.0012 27.7 7.4 39 41-79 2-41 (264)
254 TIGR01140 L_thr_O3P_dcar L-thr 55.4 72 0.0016 28.6 8.3 86 135-238 49-135 (330)
255 cd06273 PBP1_GntR_like_1 This 55.3 41 0.00088 28.5 6.4 74 63-136 137-215 (268)
256 TIGR02405 trehalos_R_Ecol treh 55.2 1.5E+02 0.0032 26.1 14.4 171 63-262 79-262 (311)
257 PRK08415 enoyl-(acyl carrier p 55.0 1.4E+02 0.0031 25.9 11.6 71 48-123 3-79 (274)
258 PRK08410 2-hydroxyacid dehydro 54.7 1.6E+02 0.0036 26.5 11.9 62 177-241 144-209 (311)
259 PRK06490 glutamine amidotransf 54.7 91 0.002 27.0 8.5 54 49-111 6-61 (239)
260 PRK06139 short chain dehydroge 54.7 1E+02 0.0022 27.9 9.2 75 45-124 2-81 (330)
261 TIGR02690 resist_ArsH arsenica 54.2 87 0.0019 27.0 8.1 88 47-135 23-135 (219)
262 cd01740 GATase1_FGAR_AT Type 1 54.0 56 0.0012 28.2 7.1 78 58-145 8-98 (238)
263 PRK06895 putative anthranilate 53.9 1.3E+02 0.0027 24.9 9.2 87 51-155 2-93 (190)
264 PRK05476 S-adenosyl-L-homocyst 53.7 2.1E+02 0.0045 27.3 15.3 183 44-237 42-276 (425)
265 COG0623 FabI Enoyl-[acyl-carri 53.7 1.2E+02 0.0025 26.7 8.7 139 46-189 2-148 (259)
266 PF00266 Aminotran_5: Aminotra 53.6 69 0.0015 29.1 8.0 62 176-239 86-150 (371)
267 PRK14183 bifunctional 5,10-met 53.5 1.5E+02 0.0033 26.6 9.7 146 66-237 53-209 (281)
268 PRK05569 flavodoxin; Provision 53.2 75 0.0016 24.6 7.1 11 227-237 47-57 (141)
269 cd01575 PBP1_GntR Ligand-bindi 53.0 96 0.0021 26.1 8.4 74 64-137 137-215 (268)
270 PRK09590 celB cellobiose phosp 53.0 58 0.0013 24.5 6.1 73 179-262 2-82 (104)
271 cd06313 PBP1_ABC_sugar_binding 53.0 91 0.002 26.8 8.3 47 92-138 173-219 (272)
272 cd06288 PBP1_sucrose_transcrip 52.9 1E+02 0.0022 26.0 8.5 73 64-136 137-214 (269)
273 TIGR03590 PseG pseudaminic aci 52.9 70 0.0015 28.3 7.6 76 166-248 22-99 (279)
274 PF02670 DXP_reductoisom: 1-de 52.8 14 0.00031 29.1 2.8 86 133-236 9-98 (129)
275 KOG1610 Corticosteroid 11-beta 52.6 1.9E+02 0.0041 26.5 12.2 148 46-208 25-207 (322)
276 PRK03094 hypothetical protein; 52.6 27 0.00058 25.2 3.9 21 188-208 8-28 (80)
277 KOG2882 p-Nitrophenyl phosphat 52.5 82 0.0018 28.6 7.8 38 163-204 91-128 (306)
278 PRK08250 glutamine amidotransf 52.4 92 0.002 26.9 8.1 52 51-111 1-54 (235)
279 cd06310 PBP1_ABC_sugar_binding 52.3 83 0.0018 26.7 7.9 85 51-137 124-219 (273)
280 PRK05867 short chain dehydroge 52.3 1.4E+02 0.0031 25.1 9.8 85 47-135 6-95 (253)
281 PRK09739 hypothetical protein; 52.3 39 0.00085 28.1 5.7 50 63-112 24-89 (199)
282 cd01080 NAD_bind_m-THF_DH_Cycl 52.0 54 0.0012 26.9 6.3 58 46-113 40-98 (168)
283 PRK07453 protochlorophyllide o 51.9 1.7E+02 0.0037 25.9 10.5 71 47-124 3-80 (322)
284 PF11798 IMS_HHH: IMS family H 51.8 7.4 0.00016 22.8 0.8 16 130-145 15-30 (32)
285 PF13377 Peripla_BP_3: Peripla 51.7 68 0.0015 24.8 6.8 73 63-136 29-105 (160)
286 PRK06703 flavodoxin; Provision 51.4 73 0.0016 25.1 6.9 18 157-174 8-25 (151)
287 PF00389 2-Hacid_dh: D-isomer 51.4 1.1E+02 0.0024 23.5 7.9 95 53-171 1-101 (133)
288 PRK02842 light-independent pro 51.3 2.2E+02 0.0047 26.9 11.6 146 51-209 167-322 (427)
289 COG0431 Predicted flavoprotein 51.2 65 0.0014 26.6 6.7 39 222-261 61-106 (184)
290 cd01121 Sms Sms (bacterial rad 50.9 1.1E+02 0.0025 28.4 8.9 58 178-239 110-169 (372)
291 TIGR01459 HAD-SF-IIA-hyp4 HAD- 50.8 1.3E+02 0.0028 25.7 8.9 77 57-138 24-105 (242)
292 cd06308 PBP1_sensor_kinase_lik 50.6 51 0.0011 28.1 6.3 87 50-136 122-217 (270)
293 PLN02253 xanthoxin dehydrogena 50.5 1E+02 0.0022 26.5 8.3 74 46-123 14-90 (280)
294 PRK01045 ispH 4-hydroxy-3-meth 50.5 49 0.0011 30.0 6.2 62 128-209 30-96 (298)
295 PF03853 YjeF_N: YjeF-related 50.4 38 0.00082 27.6 5.1 45 167-211 12-62 (169)
296 PRK06128 oxidoreductase; Provi 50.3 1.8E+02 0.0038 25.6 10.5 76 46-123 51-130 (300)
297 cd01967 Nitrogenase_MoFe_alpha 50.3 1.9E+02 0.0041 26.9 10.5 137 61-210 174-318 (406)
298 COG2247 LytB Putative cell wal 50.3 73 0.0016 29.2 7.2 52 154-207 54-106 (337)
299 cd02071 MM_CoA_mut_B12_BD meth 50.3 48 0.001 25.4 5.5 80 48-127 25-104 (122)
300 TIGR00537 hemK_rel_arch HemK-r 50.1 40 0.00087 27.4 5.3 50 165-214 120-170 (179)
301 cd03145 GAT1_cyanophycinase Ty 50.1 82 0.0018 26.8 7.4 77 163-241 13-96 (217)
302 PRK00676 hemA glutamyl-tRNA re 50.0 38 0.00083 31.2 5.5 58 177-236 173-234 (338)
303 PRK06398 aldose dehydrogenase; 49.8 1E+02 0.0022 26.4 8.0 33 47-79 3-36 (258)
304 cd00615 Orn_deC_like Ornithine 49.5 1.8E+02 0.0038 25.6 9.8 29 177-207 98-126 (294)
305 TIGR03590 PseG pseudaminic aci 49.4 80 0.0017 27.9 7.4 71 50-124 31-102 (279)
306 PF02882 THF_DHG_CYH_C: Tetrah 49.4 66 0.0014 26.3 6.3 68 163-238 19-89 (160)
307 PLN02306 hydroxypyruvate reduc 49.3 2.3E+02 0.005 26.6 13.0 148 45-207 10-195 (386)
308 cd03129 GAT1_Peptidase_E_like 49.2 72 0.0016 26.8 6.8 68 50-124 29-101 (210)
309 TIGR01327 PGDH D-3-phosphoglyc 49.1 1.8E+02 0.0039 28.4 10.4 162 52-239 1-204 (525)
310 PLN02897 tetrahydrofolate dehy 49.0 1.4E+02 0.0031 27.6 9.0 68 162-237 196-266 (345)
311 PRK10310 PTS system galactitol 48.9 84 0.0018 23.0 6.3 26 179-204 3-34 (94)
312 cd06267 PBP1_LacI_sugar_bindin 48.9 1.5E+02 0.0033 24.4 9.1 87 50-136 116-214 (264)
313 PRK12360 4-hydroxy-3-methylbut 48.8 53 0.0011 29.5 6.1 64 128-209 31-99 (281)
314 PRK11480 tauA taurine transpor 48.8 64 0.0014 28.9 6.9 67 42-113 114-180 (320)
315 PRK02910 light-independent pro 48.5 1E+02 0.0023 30.0 8.6 49 29-81 276-325 (519)
316 cd06314 PBP1_tmGBP Periplasmic 48.4 70 0.0015 27.3 6.9 73 64-138 141-216 (271)
317 PRK05568 flavodoxin; Provision 48.3 43 0.00092 26.0 5.0 72 53-136 6-90 (142)
318 COG2358 Imp TRAP-type uncharac 48.3 96 0.0021 28.4 7.8 151 29-198 116-272 (321)
319 PRK00048 dihydrodipicolinate r 48.3 62 0.0013 28.3 6.5 21 227-248 59-80 (257)
320 PF02525 Flavodoxin_2: Flavodo 48.3 8.5 0.00018 32.1 0.9 57 191-248 22-104 (199)
321 PRK05568 flavodoxin; Provision 48.3 66 0.0014 24.9 6.1 17 157-173 8-24 (142)
322 cd06300 PBP1_ABC_sugar_binding 48.2 1.3E+02 0.0029 25.4 8.6 86 50-138 125-220 (272)
323 PRK03619 phosphoribosylformylg 48.2 1.2E+02 0.0026 25.9 8.1 79 52-145 2-95 (219)
324 PRK05866 short chain dehydroge 48.2 48 0.001 29.3 5.9 53 26-78 16-69 (293)
325 PF02502 LacAB_rpiB: Ribose/Ga 48.1 1E+02 0.0023 24.5 7.1 102 62-173 14-120 (140)
326 cd01743 GATase1_Anthranilate_S 48.1 1.2E+02 0.0026 24.8 7.9 86 55-156 4-93 (184)
327 PRK13394 3-hydroxybutyrate deh 47.9 1.1E+02 0.0024 25.9 7.9 33 46-78 3-36 (262)
328 cd01741 GATase1_1 Subgroup of 47.9 1.4E+02 0.003 24.4 8.2 50 54-113 5-57 (188)
329 PRK07206 hypothetical protein; 47.7 2.3E+02 0.005 26.2 10.8 68 50-118 2-86 (416)
330 cd06272 PBP1_hexuronate_repres 47.7 57 0.0012 27.6 6.1 78 64-142 132-215 (261)
331 cd06296 PBP1_CatR_like Ligand- 47.7 72 0.0016 27.0 6.8 75 63-137 137-216 (270)
332 PRK09082 methionine aminotrans 47.6 2.3E+02 0.0049 26.0 11.7 32 176-209 113-144 (386)
333 PRK14194 bifunctional 5,10-met 47.5 1.9E+02 0.004 26.3 9.4 147 66-238 55-212 (301)
334 PRK14190 bifunctional 5,10-met 47.5 2.1E+02 0.0046 25.7 10.4 148 65-237 53-210 (284)
335 TIGR00936 ahcY adenosylhomocys 47.5 2.5E+02 0.0055 26.6 14.0 34 46-79 28-62 (406)
336 cd01543 PBP1_XylR Ligand-bindi 47.5 1.7E+02 0.0038 24.7 9.7 89 49-137 108-209 (265)
337 PRK06463 fabG 3-ketoacyl-(acyl 47.5 1.2E+02 0.0026 25.7 8.2 70 46-123 3-75 (255)
338 cd06271 PBP1_AglR_RafR_like Li 47.3 84 0.0018 26.4 7.1 88 50-137 120-219 (268)
339 PF09822 ABC_transp_aux: ABC-t 47.2 55 0.0012 28.7 6.0 54 152-206 199-266 (271)
340 PRK04870 histidinol-phosphate 47.2 2.2E+02 0.0047 25.7 11.0 31 177-209 104-134 (356)
341 TIGR03566 FMN_reduc_MsuE FMN r 47.2 53 0.0011 26.7 5.5 63 71-133 29-106 (174)
342 PF02579 Nitro_FeMo-Co: Dinitr 47.1 35 0.00075 24.3 4.0 35 131-172 59-93 (94)
343 cd06385 PBP1_NPR_A Ligand-bind 47.0 2.3E+02 0.005 26.0 10.6 135 102-250 74-224 (405)
344 PLN03139 formate dehydrogenase 46.9 2.5E+02 0.0054 26.4 11.6 157 65-237 67-264 (386)
345 COG2604 Uncharacterized protei 46.9 1.4E+02 0.0031 29.5 9.1 133 104-262 226-360 (594)
346 PRK06550 fabG 3-ketoacyl-(acyl 46.9 1.3E+02 0.0027 25.1 8.1 33 47-79 2-35 (235)
347 PRK15424 propionate catabolism 46.7 2.2E+02 0.0047 28.1 10.5 18 228-246 173-190 (538)
348 COG0075 Serine-pyruvate aminot 46.6 1.7E+02 0.0036 27.6 9.2 63 171-235 73-138 (383)
349 cd01968 Nitrogenase_NifE_I Nit 46.5 2.5E+02 0.0054 26.2 14.7 142 60-211 171-320 (410)
350 PF00072 Response_reg: Respons 46.3 1.1E+02 0.0023 21.9 8.5 93 61-171 10-111 (112)
351 cd06350 PBP1_GPCR_family_C_lik 46.2 1.4E+02 0.0029 26.6 8.6 87 162-251 146-240 (348)
352 TIGR02667 moaB_proteo molybden 46.2 80 0.0017 25.7 6.4 50 61-114 23-75 (163)
353 cd06294 PBP1_ycjW_transcriptio 46.2 75 0.0016 26.8 6.7 46 92-137 173-221 (270)
354 cd06284 PBP1_LacI_like_6 Ligan 46.0 98 0.0021 26.0 7.3 74 64-137 136-214 (267)
355 PRK12360 4-hydroxy-3-methylbut 45.9 2E+02 0.0043 25.8 9.3 171 50-250 31-233 (281)
356 cd06316 PBP1_ABC_sugar_binding 45.9 1.5E+02 0.0032 25.7 8.6 48 92-139 176-223 (294)
357 cd06323 PBP1_ribose_binding Pe 45.8 70 0.0015 26.9 6.4 44 94-137 173-216 (268)
358 PF03698 UPF0180: Uncharacteri 45.6 36 0.00079 24.5 3.7 37 187-236 7-43 (80)
359 COG0655 WrbA Multimeric flavod 45.5 40 0.00087 28.3 4.7 27 220-247 67-100 (207)
360 COG0715 TauA ABC-type nitrate/ 45.4 66 0.0014 28.7 6.4 63 44-111 130-193 (335)
361 PRK06484 short chain dehydroge 45.4 2.8E+02 0.006 26.4 12.2 83 46-135 265-352 (520)
362 cd05564 PTS_IIB_chitobiose_lic 45.2 1.2E+02 0.0026 22.2 7.9 64 63-137 17-80 (96)
363 PRK05282 (alpha)-aspartyl dipe 44.9 1.1E+02 0.0024 26.5 7.4 75 164-249 17-98 (233)
364 cd06295 PBP1_CelR Ligand bindi 44.9 92 0.002 26.5 7.0 89 50-138 125-225 (275)
365 PRK07792 fabG 3-ketoacyl-(acyl 44.9 2E+02 0.0042 25.5 9.3 91 42-135 4-98 (306)
366 cd02068 radical_SAM_B12_BD B12 44.8 1.4E+02 0.003 22.7 9.4 76 62-144 5-84 (127)
367 cd06326 PBP1_STKc_like Type I 44.8 2.2E+02 0.0047 25.0 14.2 138 101-251 67-214 (336)
368 cd06167 LabA_like LabA_like pr 44.5 97 0.0021 24.1 6.6 28 178-205 100-127 (149)
369 TIGR02329 propionate_PrpR prop 44.4 2.3E+02 0.005 27.8 10.3 14 228-241 163-176 (526)
370 PRK07791 short chain dehydroge 44.3 2.2E+02 0.0047 24.9 11.9 33 47-79 3-36 (286)
371 TIGR00177 molyb_syn molybdenum 44.2 46 0.001 26.3 4.6 51 60-114 27-78 (144)
372 PRK06125 short chain dehydroge 44.1 1.7E+02 0.0037 24.8 8.6 33 47-79 4-37 (259)
373 cd06290 PBP1_LacI_like_9 Ligan 43.9 94 0.002 26.2 6.9 46 92-137 166-214 (265)
374 cd05212 NAD_bind_m-THF_DH_Cycl 43.8 1.2E+02 0.0026 24.1 6.9 70 162-239 10-82 (140)
375 TIGR01860 VNFD nitrogenase van 43.5 2.9E+02 0.0062 26.5 10.7 140 60-210 214-360 (461)
376 PRK07550 hypothetical protein; 43.4 2.1E+02 0.0045 26.1 9.5 32 177-210 113-144 (386)
377 PRK06567 putative bifunctional 43.4 1.4E+02 0.0031 31.7 9.0 98 129-249 857-955 (1028)
378 TIGR02069 cyanophycinase cyano 43.1 1.8E+02 0.0039 25.4 8.6 82 165-250 14-102 (250)
379 cd06270 PBP1_GalS_like Ligand 43.1 1.2E+02 0.0025 25.7 7.4 74 64-137 137-215 (268)
380 cd06274 PBP1_FruR Ligand bindi 43.1 1.4E+02 0.0029 25.2 7.8 89 50-138 116-217 (264)
381 cd03146 GAT1_Peptidase_E Type 43.1 1.9E+02 0.0041 24.4 8.5 79 163-250 16-100 (212)
382 cd03145 GAT1_cyanophycinase Ty 43.0 61 0.0013 27.6 5.5 65 50-117 29-98 (217)
383 PF09084 NMT1: NMT1/THI5 like; 42.9 22 0.00048 29.4 2.7 62 41-107 84-145 (216)
384 PF02887 PK_C: Pyruvate kinase 42.4 74 0.0016 24.0 5.4 57 127-188 38-103 (117)
385 PRK08105 flavodoxin; Provision 42.3 1.2E+02 0.0026 24.1 6.8 63 63-136 20-92 (149)
386 PRK10653 D-ribose transporter 42.0 82 0.0018 27.4 6.4 35 102-136 207-241 (295)
387 PRK12359 flavodoxin FldB; Prov 42.0 1.4E+02 0.0031 24.5 7.3 67 59-135 11-86 (172)
388 cd08187 BDH Butanol dehydrogen 41.9 75 0.0016 29.5 6.3 73 163-241 16-100 (382)
389 COG5426 Uncharacterized membra 41.5 21 0.00046 30.3 2.2 47 59-110 31-77 (254)
390 PRK05565 fabG 3-ketoacyl-(acyl 41.4 1.4E+02 0.0031 24.8 7.6 33 47-79 2-35 (247)
391 cd02067 B12-binding B12 bindin 41.4 72 0.0016 24.0 5.2 79 48-126 25-103 (119)
392 PLN02409 serine--glyoxylate am 41.4 75 0.0016 29.5 6.3 62 49-111 83-146 (401)
393 cd08551 Fe-ADH iron-containing 41.4 78 0.0017 29.1 6.3 73 164-241 11-94 (370)
394 PRK08248 O-acetylhomoserine am 41.2 1.7E+02 0.0038 27.6 8.8 108 135-260 62-184 (431)
395 COG1879 RbsB ABC-type sugar tr 41.2 2.5E+02 0.0055 24.8 14.0 130 100-241 89-232 (322)
396 COG0698 RpiB Ribose 5-phosphat 41.2 1.9E+02 0.0042 23.4 8.9 103 62-173 15-122 (151)
397 TIGR01141 hisC histidinol-phos 41.0 2.3E+02 0.005 25.2 9.3 58 176-237 93-151 (346)
398 PRK05166 histidinol-phosphate 41.0 2.4E+02 0.0051 25.7 9.5 15 195-209 127-141 (371)
399 TIGR01737 FGAM_synth_I phospho 41.0 1.5E+02 0.0033 25.3 7.7 80 51-145 1-94 (227)
400 PRK05784 phosphoribosylamine-- 41.0 3.4E+02 0.0075 26.2 11.1 73 51-124 1-92 (486)
401 cd02065 B12-binding_like B12 b 40.9 1.5E+02 0.0032 22.0 7.3 67 191-263 17-88 (125)
402 PRK07053 glutamine amidotransf 40.8 1.9E+02 0.0041 25.0 8.2 52 50-110 2-55 (234)
403 TIGR00288 conserved hypothetic 40.8 1.5E+02 0.0033 24.2 7.2 64 139-208 72-136 (160)
404 PRK07097 gluconate 5-dehydroge 40.8 2.3E+02 0.005 24.1 11.8 85 47-135 7-96 (265)
405 COG1066 Sms Predicted ATP-depe 40.7 42 0.00091 31.9 4.3 67 167-238 110-178 (456)
406 cd06384 PBP1_NPR_B Ligand-bind 40.6 2.9E+02 0.0063 25.3 11.9 139 101-251 72-225 (399)
407 PRK12827 short chain dehydroge 40.3 1.7E+02 0.0036 24.4 7.8 89 48-136 4-97 (249)
408 cd06278 PBP1_LacI_like_2 Ligan 40.1 1.5E+02 0.0033 24.8 7.6 84 50-137 115-213 (266)
409 PRK06395 phosphoribosylamine-- 40.0 3.3E+02 0.0072 25.8 11.0 61 50-111 2-74 (435)
410 PRK09701 D-allose transporter 39.8 1.5E+02 0.0033 26.1 7.9 45 93-137 207-252 (311)
411 COG2014 Uncharacterized conser 39.8 1.9E+02 0.004 25.1 7.6 112 131-263 80-198 (250)
412 PF11731 Cdd1: Pathogenicity l 39.7 23 0.00051 26.3 2.0 38 130-173 16-53 (93)
413 PRK07060 short chain dehydroge 39.7 2.1E+02 0.0046 23.7 8.4 33 46-78 5-38 (245)
414 PRK11921 metallo-beta-lactamas 39.7 1.1E+02 0.0023 28.6 7.0 77 181-263 252-341 (394)
415 CHL00073 chlN photochlorophyll 39.6 2.9E+02 0.0063 26.6 9.9 137 52-207 195-343 (457)
416 COG1909 Uncharacterized protei 39.6 65 0.0014 26.5 4.7 72 131-211 38-137 (167)
417 cd06311 PBP1_ABC_sugar_binding 39.6 83 0.0018 26.8 5.9 50 93-143 176-226 (274)
418 COG4635 HemG Flavodoxin [Energ 39.5 54 0.0012 27.0 4.2 66 62-138 18-91 (175)
419 cd06452 SepCysS Sep-tRNA:Cys-t 39.5 2.4E+02 0.0053 25.4 9.3 73 163-237 68-148 (361)
420 PRK11921 metallo-beta-lactamas 39.2 59 0.0013 30.3 5.2 37 100-136 298-341 (394)
421 PRK07681 aspartate aminotransf 39.1 2.4E+02 0.0051 26.0 9.2 32 176-209 115-146 (399)
422 cd06301 PBP1_rhizopine_binding 39.0 69 0.0015 27.2 5.3 44 93-136 174-219 (272)
423 cd00609 AAT_like Aspartate ami 38.8 2.7E+02 0.0058 24.3 9.9 61 176-238 81-142 (350)
424 PF08373 RAP: RAP domain; Int 38.8 21 0.00046 23.3 1.6 27 64-90 22-48 (58)
425 cd00886 MogA_MoaB MogA_MoaB fa 38.6 40 0.00086 27.0 3.5 49 62-114 22-73 (152)
426 PRK12748 3-ketoacyl-(acyl-carr 38.6 1.7E+02 0.0037 24.8 7.7 33 47-79 2-37 (256)
427 cd06312 PBP1_ABC_sugar_binding 38.6 1.4E+02 0.0031 25.3 7.3 45 93-137 174-219 (271)
428 cd06280 PBP1_LacI_like_4 Ligan 38.6 85 0.0018 26.6 5.8 75 63-138 134-211 (263)
429 cd06339 PBP1_YraM_LppC_lipopro 38.6 2.9E+02 0.0063 24.7 10.5 132 65-213 23-164 (336)
430 cd06268 PBP1_ABC_transporter_L 38.5 2.3E+02 0.005 23.8 8.5 31 102-133 190-221 (298)
431 CHL00073 chlN photochlorophyll 38.4 1.1E+02 0.0025 29.3 7.0 97 47-155 311-412 (457)
432 PRK05452 anaerobic nitric oxid 38.4 1.3E+02 0.0029 29.0 7.6 69 191-263 270-345 (479)
433 COG1663 LpxK Tetraacyldisaccha 38.4 51 0.0011 30.3 4.4 74 42-117 225-299 (336)
434 PRK14172 bifunctional 5,10-met 38.3 2.9E+02 0.0064 24.7 9.8 150 66-233 54-206 (278)
435 TIGR02026 BchE magnesium-proto 38.3 2.4E+02 0.0053 27.2 9.4 105 59-172 22-136 (497)
436 TIGR01284 alt_nitrog_alph nitr 38.3 3.6E+02 0.0079 25.7 13.0 133 61-210 213-358 (457)
437 PRK14187 bifunctional 5,10-met 38.2 2.3E+02 0.0049 25.6 8.5 149 65-237 53-212 (294)
438 COG1497 Predicted transcriptio 38.2 49 0.0011 29.0 4.0 63 130-204 190-252 (260)
439 PF04392 ABC_sub_bind: ABC tra 38.1 1E+02 0.0022 27.2 6.4 66 191-262 18-88 (294)
440 PF02882 THF_DHG_CYH_C: Tetrah 38.0 85 0.0019 25.6 5.3 57 46-112 32-89 (160)
441 PRK09276 LL-diaminopimelate am 37.9 3.1E+02 0.0067 24.9 9.8 33 176-210 115-147 (385)
442 PRK10014 DNA-binding transcrip 37.8 1.2E+02 0.0026 26.9 6.9 62 65-126 204-267 (342)
443 TIGR03427 ABC_peri_uca ABC tra 37.8 56 0.0012 29.8 4.7 67 44-115 100-166 (328)
444 cd01976 Nitrogenase_MoFe_alpha 37.8 3.2E+02 0.0068 25.8 9.9 97 46-157 296-392 (421)
445 TIGR03675 arCOG00543 arCOG0054 37.8 3.5E+02 0.0077 27.2 10.6 43 160-202 572-616 (630)
446 TIGR00640 acid_CoA_mut_C methy 37.8 1.6E+02 0.0034 23.1 6.7 94 49-144 29-122 (132)
447 PRK10727 DNA-binding transcrip 37.7 1.3E+02 0.0029 26.8 7.1 75 63-137 196-275 (343)
448 KOG0519 Sensory transduction h 37.5 2.2E+02 0.0048 29.4 9.4 130 27-174 646-783 (786)
449 cd06371 PBP1_sensory_GC_DEF_li 37.5 3.3E+02 0.0071 25.0 12.2 133 102-251 66-216 (382)
450 PRK10423 transcriptional repre 37.4 1.5E+02 0.0033 25.9 7.5 75 63-137 194-273 (327)
451 cd06333 PBP1_ABC-type_HAAT_lik 37.4 2.8E+02 0.006 24.1 11.9 137 101-250 65-210 (312)
452 cd03466 Nitrogenase_NifN_2 Nit 37.4 3.1E+02 0.0067 25.9 9.8 138 63-209 171-331 (429)
453 PRK03967 histidinol-phosphate 37.3 2.7E+02 0.0059 24.9 9.2 13 197-209 111-123 (337)
454 PRK08605 D-lactate dehydrogena 37.3 3.2E+02 0.007 24.8 11.0 61 177-240 145-212 (332)
455 PRK14180 bifunctional 5,10-met 37.2 3.1E+02 0.0067 24.6 9.8 148 65-237 52-210 (282)
456 PRK14186 bifunctional 5,10-met 37.2 3.2E+02 0.0069 24.7 9.4 147 65-237 53-210 (297)
457 PF02401 LYTB: LytB protein; 37.1 1.7E+02 0.0037 26.2 7.5 77 113-209 12-94 (281)
458 cd06334 PBP1_ABC_ligand_bindin 37.1 2.6E+02 0.0057 25.3 9.1 80 50-133 140-226 (351)
459 PF01936 NYN: NYN domain; Int 37.1 35 0.00077 26.3 2.9 81 63-145 50-138 (146)
460 PRK13371 4-hydroxy-3-methylbut 37.1 1.9E+02 0.004 27.3 7.9 118 61-209 18-140 (387)
461 PRK07392 threonine-phosphate d 37.0 2.5E+02 0.0055 25.3 8.9 12 132-143 77-88 (360)
462 PRK06841 short chain dehydroge 36.9 2E+02 0.0044 24.1 7.9 84 47-136 12-99 (255)
463 PF06283 ThuA: Trehalose utili 36.9 34 0.00073 28.9 2.9 51 180-238 1-62 (217)
464 PRK10703 DNA-binding transcrip 36.9 1.2E+02 0.0025 27.0 6.7 75 63-137 198-277 (341)
465 TIGR01501 MthylAspMutase methy 36.9 86 0.0019 24.8 5.0 65 139-212 22-91 (134)
466 COG0683 LivK ABC-type branched 36.8 3E+02 0.0065 25.1 9.4 137 101-250 77-225 (366)
467 cd06333 PBP1_ABC-type_HAAT_lik 36.8 2.1E+02 0.0045 25.0 8.1 60 64-126 152-213 (312)
468 PRK12359 flavodoxin FldB; Prov 36.7 2.4E+02 0.0052 23.2 9.0 70 129-204 30-115 (172)
469 TIGR01862 N2-ase-Ialpha nitrog 36.7 3.8E+02 0.0082 25.5 11.0 139 60-210 204-350 (443)
470 PTZ00110 helicase; Provisional 36.6 1.8E+02 0.0039 28.5 8.3 40 165-204 364-404 (545)
471 PLN03026 histidinol-phosphate 36.6 2.9E+02 0.0062 25.4 9.3 12 197-208 144-155 (380)
472 PRK05234 mgsA methylglyoxal sy 36.6 1.2E+02 0.0026 24.1 5.9 53 48-110 30-83 (142)
473 TIGR01279 DPOR_bchN light-inde 36.6 2.2E+02 0.0049 26.7 8.7 129 63-207 168-303 (407)
474 cd01979 Pchlide_reductase_N Pc 36.6 1.2E+02 0.0027 28.2 6.9 95 46-155 272-366 (396)
475 cd06367 PBP1_iGluR_NMDA N-term 36.4 2.7E+02 0.0059 25.0 9.0 65 62-126 153-219 (362)
476 cd06366 PBP1_GABAb_receptor Li 36.2 3.1E+02 0.0067 24.3 13.5 141 101-251 65-215 (350)
477 TIGR02539 SepCysS Sep-tRNA:Cys 36.2 2.6E+02 0.0057 25.5 8.9 61 176-238 88-156 (370)
478 PRK07856 short chain dehydroge 36.1 2.1E+02 0.0045 24.1 7.9 33 47-79 3-36 (252)
479 cd06281 PBP1_LacI_like_5 Ligan 35.9 83 0.0018 26.7 5.3 74 63-136 136-213 (269)
480 TIGR01286 nifK nitrogenase mol 35.8 3.1E+02 0.0067 26.8 9.7 139 60-209 234-394 (515)
481 COG2247 LytB Putative cell wal 35.8 90 0.002 28.6 5.5 70 133-213 87-162 (337)
482 PRK11776 ATP-dependent RNA hel 35.7 2.8E+02 0.0062 26.1 9.4 27 178-204 243-269 (460)
483 TIGR00853 pts-lac PTS system, 35.7 1.8E+02 0.0038 21.4 9.4 76 50-137 3-84 (95)
484 PRK07370 enoyl-(acyl carrier p 35.7 2.8E+02 0.0061 23.7 13.3 87 47-135 3-96 (258)
485 PRK05670 anthranilate synthase 35.6 2.5E+02 0.0054 23.0 10.7 82 58-155 8-93 (189)
486 TIGR02026 BchE magnesium-proto 35.3 1.6E+02 0.0035 28.4 7.6 46 189-237 24-72 (497)
487 PF00072 Response_reg: Respons 35.2 1.6E+02 0.0036 20.8 7.2 40 160-201 54-93 (112)
488 PRK14166 bifunctional 5,10-met 35.2 3.1E+02 0.0067 24.6 8.8 148 65-237 51-209 (282)
489 cd06321 PBP1_ABC_sugar_binding 35.2 1.7E+02 0.0037 24.7 7.2 45 92-136 171-215 (271)
490 PRK05942 aspartate aminotransf 35.2 2.8E+02 0.006 25.5 9.0 31 177-209 120-150 (394)
491 COG0426 FpaA Uncharacterized f 35.2 1.2E+02 0.0027 28.5 6.5 94 163-262 229-337 (388)
492 PRK09082 methionine aminotrans 35.0 2.9E+02 0.0062 25.3 9.1 72 49-124 114-195 (386)
493 PRK10874 cysteine sulfinate de 35.0 2.2E+02 0.0047 26.2 8.3 62 176-239 107-171 (401)
494 TIGR01282 nifD nitrogenase mol 34.9 2.6E+02 0.0056 26.9 8.9 96 46-156 331-426 (466)
495 cd05212 NAD_bind_m-THF_DH_Cycl 34.8 74 0.0016 25.3 4.4 78 46-137 24-102 (140)
496 TIGR01264 tyr_amTase_E tyrosin 34.8 3E+02 0.0066 25.2 9.2 31 177-209 118-148 (401)
497 PRK14182 bifunctional 5,10-met 34.7 3.4E+02 0.0074 24.4 10.3 43 127-175 31-84 (282)
498 PRK13525 glutamine amidotransf 34.7 2.6E+02 0.0057 23.1 8.1 48 51-113 2-49 (189)
499 TIGR02133 RPI_actino ribose 5- 34.6 2.4E+02 0.0053 22.7 7.6 103 62-173 15-122 (148)
500 cd08178 AAD_C C-terminal alcoh 34.6 59 0.0013 30.4 4.4 61 178-241 21-92 (398)
No 1
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=100.00 E-value=5.1e-39 Score=282.97 Aligned_cols=209 Identities=21% Similarity=0.171 Sum_probs=182.4
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC-
Q 024727 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT- 126 (263)
Q Consensus 48 l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~- 126 (263)
+.|++||||||.++.+++.+.|+++|++++.+|+++++|.++...++..+..+..||||||||+|||++|++.+.+.+.
T Consensus 1 ~~g~~vlvTRp~~~~~~l~~~l~~~G~~~~~~P~i~i~p~~~~~~~~~~l~~l~~~d~iifTS~naV~~~~~~l~~~~~~ 80 (255)
T PRK05752 1 MSGWRLLLTRPAEECAALAASLAEAGIFSSSLPLLAIEPLPETPEQRALLLELDRYCAVIVVSKPAARLGLELLDRYWPQ 80 (255)
T ss_pred CCCCEEEECCcHHHHHHHHHHHHHcCCCEEEcCcEEEeeCCCCHHHHHHHhcCCCCCEEEEECHHHHHHHHHHHHhhCCC
Confidence 4699999999999999999999999999999999999998776667777778899999999999999999999876654
Q ss_pred -CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHH--hccC-CCCCcEEEEEcCCCCchhHHHHHHhCCC
Q 024727 127 -PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASE--LPKN-GKKKCTVLYPASAKASNEIEEGLSNRGF 202 (263)
Q Consensus 127 -~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~--l~~~-~~~~~~vL~~~g~~~~~~L~~~L~~~G~ 202 (263)
.+.+++|||++|+++|+++ |+.++++|..+++++|++. +.+. ..++++||++||+++++.|.+.|++.|+
T Consensus 81 ~~~~~~~aVG~~Ta~al~~~------G~~~~~~p~~~~se~Ll~~~~l~~~~~~~~~~vLi~rg~~~r~~L~~~L~~~G~ 154 (255)
T PRK05752 81 PPQQPWFSVGAATAAILQDY------GLDVSYPEQGDDSEALLALPALRQALAVPDPRVLIMRGEGGRELLAERLREQGA 154 (255)
T ss_pred CcCCEEEEECHHHHHHHHHc------CCCcccCCCCCCcHHHHhChhhhccccCCCCEEEEEccCccHHHHHHHHHHCCC
Confidence 3689999999999999999 9999998999999999976 3332 2367899999999999999999999999
Q ss_pred eeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhccccC--CCCceEEEECC
Q 024727 203 EVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDTE--QWSNSVACIAG 263 (263)
Q Consensus 203 ~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~--~~~~~i~~IGp 263 (263)
+|.++++|++.......+.+.+.+ +.+|+|+|||+++++ +|+++++... +.+.+++||||
T Consensus 155 ~v~~~~vY~~~~~~~~~~~~~~~~~~~~~d~v~ftS~~~~~-~~~~~~~~~~~~~~~~~~~~ig~ 218 (255)
T PRK05752 155 SVDYLELYRRCLPDYPAGTLLQRVEAERLNGLVVSSGQGFE-HLQQLAGADWPELARLPLFVPSP 218 (255)
T ss_pred EEeEEEEEeecCCCCCHHHHHHHHHhCCCCEEEECCHHHHH-HHHHHhChhHHHhcCceEEEeCH
Confidence 999999999987766555544444 579999999999999 9999886532 35789999996
No 2
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=100.00 E-value=5.1e-38 Score=278.00 Aligned_cols=209 Identities=17% Similarity=0.175 Sum_probs=178.0
Q ss_pred CCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC
Q 024727 46 ASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG 125 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~ 125 (263)
.+|.|++||||||.++.+.+.+.|++.|++++.+|++++++..+ ..+...+..+.+||||||||+|||++|+.......
T Consensus 14 ~~l~g~~IlvTRp~~q~~~l~~~L~~~G~~~~~~P~i~i~~~~~-~~~~~~l~~l~~~d~iiftS~NAV~~~~~~~~~~~ 92 (266)
T PRK08811 14 TADAAWTLISLRPSGEHAPLRRAVARHGGRLLALSPWRLQRLDT-AQARDALRQALAAPIVVFTSPAAVRAAHRLLPLQR 92 (266)
T ss_pred cCCCCCEEEEeCCHHHHHHHHHHHHHCCCcEEEcCceeecCCCc-hhHHHHHhhcccCCEEEEECHHHHHHHHHHhcccC
Confidence 46999999999999999999999999999999999999998754 34456666788999999999999999986553333
Q ss_pred CCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeee
Q 024727 126 TPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVV 205 (263)
Q Consensus 126 ~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~ 205 (263)
..+.+++|||++|+++|+++ |+.++++|+.+++|+|++.. .....+++||+++|+++|++|.+.|+++|++|+
T Consensus 93 ~~~~~~~AVG~~TA~aL~~~------G~~~~~~P~~~~se~Ll~l~-~~~~~g~~vLi~rg~~gr~~L~~~L~~~G~~V~ 165 (266)
T PRK08811 93 PARAHWLSVGEGTARALQAC------GIDEVVRPTRMDSEGLLALP-LAQAPLQAVGLITAPGGRGLLAPTLQQRGARIL 165 (266)
T ss_pred ccCCeEEEECHHHHHHHHHc------CCCceeCCCCCCcHHHHhCh-hhhCCCCEEEEEeCCCcHHHHHHHHHHCCCEEe
Confidence 45899999999999999999 99999999999999999872 222367999999999999999999999999999
Q ss_pred EEeeeccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEECC
Q 024727 206 RLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIAG 263 (263)
Q Consensus 206 ~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IGp 263 (263)
++++|++.+.....+.+.... ..+|+++|||+++++ +|++.+++.. +.+.+++||||
T Consensus 166 ~~~vY~~~~~~~~~~~~~~l~~~~~~d~i~ftS~sav~-~f~~~l~~~~~~~l~~~~~v~is~ 227 (266)
T PRK08811 166 RADVYQRVPLRLRASTLAALSRAAPRSVLALSSAEALT-LILQQLPDALRRALQQRPVVASSD 227 (266)
T ss_pred EEEEEeeeCCCCCHHHHHHHHHhCCCCEEEEChHHHHH-HHHHHhhhhHHHHHhCCCEEEeCH
Confidence 999999988766543322221 479999999999999 9999886531 35788999996
No 3
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=100.00 E-value=8.5e-37 Score=267.87 Aligned_cols=204 Identities=33% Similarity=0.435 Sum_probs=183.5
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC--
Q 024727 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP-- 127 (263)
Q Consensus 50 g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~-- 127 (263)
||+|+|||++.+.+++...|++.|+++..+|++++.+..+ ++..+..+..||||+|||+|||++|++.+...+.+
T Consensus 1 ~~~vlvtR~~~~~~~~~~~l~~~G~~~~~~P~i~~~~~~~---l~~~l~~l~~~d~vvfTS~~av~~~~~~l~~~~~~~~ 77 (248)
T COG1587 1 GMRVLVTRPREQAEELAALLRKAGAEPLELPLIEIEPLPD---LEVALEDLDSADWVVFTSPNAVRFFFEALKEQGLDAL 77 (248)
T ss_pred CcEEEEeCchhhhHHHHHHHHhCCCcceeecceeeecchh---HHHHHhccccCCEEEEECHHHHHHHHHHHHhhccccc
Confidence 7899999999999999999999999999999999998654 55667677779999999999999999999887643
Q ss_pred -CcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeE
Q 024727 128 -NVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVR 206 (263)
Q Consensus 128 -~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~ 206 (263)
+.+++|||++|+++|+++ |+.++++|+++++++|+..+......+++|++++|+.+++.|.+.|.+.|++|.+
T Consensus 78 ~~~~i~aVG~~Ta~~l~~~------G~~~~~~p~~~~~~~l~~~l~~~~~~~~~vl~~~~~~~r~~l~~~L~~~G~~v~~ 151 (248)
T COG1587 78 KNKKIAAVGEKTAEALRKL------GIKVDFIPEDGDSEGLLEELPELLKGGKRVLILRGNGGREVLEEKLEERGAEVRE 151 (248)
T ss_pred ccCeEEEEcHHHHHHHHHh------CCCCCcCCCccchHHHHHHhhhhccCCCeEEEEcCCCchHHHHHHHHhCCCEEEE
Confidence 799999999999999999 9999999999999999999998876579999999999999999999999999999
Q ss_pred EeeeccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEECC
Q 024727 207 LNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIAG 263 (263)
Q Consensus 207 ~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IGp 263 (263)
+.+|++.+.....+.+...+ +++|+|+|||+++++ +|+++++... ..+.+++||||
T Consensus 152 ~~~Y~~~~~~~~~~~~~~~~~~~~~d~v~ftS~~~v~-~~~~~~~~~~~~~~~~~~v~~IG~ 212 (248)
T COG1587 152 VEVYRTEPPPLDEATLIELLKLGEVDAVVFTSSSAVR-ALLALAPESGIEFLERKRVASIGP 212 (248)
T ss_pred EeeeeecCCCccHHHHHHHHHhCCCCEEEEeCHHHHH-HHHHHccccchhHhhCceEEEecH
Confidence 99999999998844333333 699999999999999 9999998653 23699999997
No 4
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=100.00 E-value=1.8e-36 Score=281.08 Aligned_cols=212 Identities=19% Similarity=0.197 Sum_probs=181.2
Q ss_pred cCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC--CCccEEEEeCHHHHHHHHHHH
Q 024727 44 ASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD--TIFDWIIITSPEAGSVFLEAW 121 (263)
Q Consensus 44 ~~~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l--~~~d~IiFTS~~aV~~~~~~l 121 (263)
..+||.|++|+|||+. +.+.+.+.|+++|++++.+|+++++|..+...++..+..+ +.||||||||+|+|++|++.+
T Consensus 5 ~~~pL~g~rIlvtr~~-~a~~la~~L~~~G~~~~~~P~i~i~~~~~~~~~~~~~~~l~~~~~d~vvfTS~ngv~~~~~~l 83 (381)
T PRK07239 5 DSAPLAGFTVGVTAAR-RAEELAALLERRGARVVHAPALRIVPLADDDELRAATRALIAAPPDIVVATTGIGFRGWVEAA 83 (381)
T ss_pred CCCCCCCcEEEEeccC-CHHHHHHHHHHcCCeEEEecCEEEecCCCcHHHHHHHHHHHcCCCCEEEEeChHHHHHHHHHH
Confidence 3489999999999986 8999999999999999999999999987655566666555 689999999999999999988
Q ss_pred HHcCC--------CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCC-----C
Q 024727 122 KEAGT--------PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASA-----K 188 (263)
Q Consensus 122 ~~~~~--------~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~-----~ 188 (263)
.+.+. .+.+++|||++|+++|+++ |+.++++|+.+++++|++.+.....++++|++++++ .
T Consensus 84 ~~~~~~~~~~~~l~~~~i~aVG~~Ta~aL~~~------G~~~~~~p~~~~~e~L~~~l~~~~~~g~~vli~~~~~~~~~~ 157 (381)
T PRK07239 84 DGWGLADELLEALSSARLLARGPKATGAIRAA------GLREEWSPASESSAEVLEYLLEEGVAGKRIAVQLHGATDEWE 157 (381)
T ss_pred HHcCChHHHHHHHcCCeEEEECccHHHHHHHc------CCCCccCCCCCccHHHHHHHhcCCCCCCEEEEEcCCCccccC
Confidence 77653 3789999999999999999 999999999999999999998766678999998876 4
Q ss_pred CchhHHHHHHhCCCeeeEEeeeccccCCCCh--HHHHHHh--CCCCEEEEeCHHHHHHHHHHhccccC---------CCC
Q 024727 189 ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVD--QTVLKQA--LSIPVVAVASPSAVRSSWVNLISDTE---------QWS 255 (263)
Q Consensus 189 ~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~--~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~---------~~~ 255 (263)
.+++|.+.|++.|++|.++++|++.+..... +.+.+.+ +.+|+|+|||+++|+ +|++.+++.. ..+
T Consensus 158 ~~~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~~~~~l~~~~~d~v~FtS~stv~-~f~~~l~~~~~~~~~~~~~~~~ 236 (381)
T PRK07239 158 PLPEFLEALRAAGAEVVPVPVYRWVPPPDPGPLDRLVDAIASRGLDAVTFTSAPAVA-ALLERAREMGLLDQLLAALRTD 236 (381)
T ss_pred chHHHHHHHHHCCCEEEEeCcEEEcCCCChhHHHHHHHHHHcCCccEEEEcCHHHHH-HHHHHHHHcCChHHHHHhhccC
Confidence 4578999999999999999999998765433 2344444 479999999999999 9999886531 246
Q ss_pred ceEEEECC
Q 024727 256 NSVACIAG 263 (263)
Q Consensus 256 ~~i~~IGp 263 (263)
++++||||
T Consensus 237 ~~i~aIGp 244 (381)
T PRK07239 237 VLAACVGP 244 (381)
T ss_pred CEEEEECH
Confidence 78999997
No 5
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=100.00 E-value=5.7e-36 Score=261.14 Aligned_cols=201 Identities=19% Similarity=0.168 Sum_probs=168.1
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCc
Q 024727 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNV 129 (263)
Q Consensus 51 ~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-~~~~~ 129 (263)
|+||+|||..+.+.+.+.|+++|++++.+|++++++.++. ....+ ...||||||||+|||++|.+..... .+.+.
T Consensus 1 m~VLvTRp~~~~~~l~~~L~~~G~~~~~~P~i~i~~~~~~--~~~~l--~~~~d~iifTS~naV~~~~~~~~~~~~~~~~ 76 (240)
T PRK09189 1 MRVLVTRPEPAAERTAARLRAMGHEPVLLPLSRPVHDVAA--AFTAL--SEPHGAIAVTSAEAVRHLAALGERLLPHLAL 76 (240)
T ss_pred CeEEEECCCCchHHHHHHHHHCCCceEEecccccccChhh--hhhhh--cCCcCEEEEECHHHHHHHHhcchhhHHhcCC
Confidence 6899999999999999999999999999999999876431 11222 2468999999999999987642221 12478
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEee
Q 024727 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
+++|||++|+++|+++ |+.. +.|..+++++|++.+.....++++||++||+.++++|.+.|+++|+.|+++++
T Consensus 77 ~~~aVG~~Ta~~l~~~------G~~~-~~~~~~~~e~L~~~~~~~~~~~~~vL~~rg~~~r~~l~~~L~~~G~~v~~~~v 149 (240)
T PRK09189 77 PLFAVGEATAEAAREL------GFRH-VIEGGGDGVRLAETVAAALAPTARLLYLAGRPRAPVFEDRLAAAGIPFRVAEC 149 (240)
T ss_pred eEEEEcHHHHHHHHHc------CCCC-CcCCCCCHHHHHHHHHHhcCCCCcEEEeccCcccchhHHHHHhCCCeeEEEEE
Confidence 9999999999999999 9985 56778999999999876544679999999999999999999999999999999
Q ss_pred eccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhccccC----CCCceEEEECC
Q 024727 210 YTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDTE----QWSNSVACIAG 263 (263)
Q Consensus 210 Y~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~----~~~~~i~~IGp 263 (263)
|++.+.+...+++.+.+ .++|+|+||||++++ +|+++++... +.+.+++||||
T Consensus 150 Y~~~~~~~~~~~~~~~l~~~~~d~i~f~S~~~~~-~f~~~~~~~~~~~~l~~~~~v~Ig~ 208 (240)
T PRK09189 150 YDMLPVMYSPATLSAILGGAPFDAVLLYSRVAAR-RFFALMRLSIAPPADEKTRFLCLSA 208 (240)
T ss_pred EEeecCCCChHHHHHHHhcCCCCEEEEeCHHHHH-HHHHHHhhhcCcccccccCeEEeCH
Confidence 99998776665555544 479999999999999 9999986431 24788999996
No 6
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=100.00 E-value=1.6e-34 Score=251.48 Aligned_cols=206 Identities=26% Similarity=0.320 Sum_probs=178.1
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc---CC
Q 024727 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA---GT 126 (263)
Q Consensus 50 g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~---~~ 126 (263)
+|+||+||+....+.+.+.|+++|++++.+|++++++.+.... ...+..+..||+|||||+++|++|++.+++. .+
T Consensus 1 ~~~ilitr~~~~~~~l~~~l~~~G~~v~~~p~~~~~~~~~~~~-~~~~~~~~~~d~iiftS~~av~~~~~~~~~~~~~~~ 79 (249)
T PRK05928 1 MMKILVTRPSPKAEELVELLRELGFVALHFPLIEIEPGRQLPQ-LAAQLAALGADWVIFTSKNAVEFLLSALKKKKLKWP 79 (249)
T ss_pred CCEEEEeCCHHHHHHHHHHHHHcCCCEEEeccEEEecCCCcCh-HHHHhhCCCCCEEEEECHHHHHHHHHHHHhcCcCCC
Confidence 3799999999999999999999999999999999999865433 3444567899999999999999999988732 23
Q ss_pred CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeE
Q 024727 127 PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVR 206 (263)
Q Consensus 127 ~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~ 206 (263)
.+.+++|||++|+++|+++ |+.++++|+.++.+++++.|.+....|+++|++||++++++|.+.|++.|++|.+
T Consensus 80 ~~~~~~avG~~Ta~~l~~~------G~~~~~~~~~~~~~~l~~~l~~~~~~~~~ili~~~~~~~~~l~~~L~~~G~~v~~ 153 (249)
T PRK05928 80 KNKKYAAIGEKTALALKKL------GGKVVFVPEDGESSELLLELPELLLKGKRVLYLRGNGGREVLGDTLEERGAEVDE 153 (249)
T ss_pred CCCEEEEECHHHHHHHHHc------CCCccccCCCCcChHHHHhChhhhcCCCEEEEECCCCCHHHHHHHHHHCCCEEeE
Confidence 5889999999999999999 9999899999999999999988745689999999999999999999999999999
Q ss_pred EeeeccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhccccC----CCCceEEEECC
Q 024727 207 LNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDTE----QWSNSVACIAG 263 (263)
Q Consensus 207 ~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~----~~~~~i~~IGp 263 (263)
+++|++.+.+.........+ ..+|+|+|||+++|+ +|++.++... ..+.+++||||
T Consensus 154 ~~~Y~~~~~~~~~~~~~~~~~~~~~d~ivftS~~~v~-~~~~~~~~~~~~~~~~~~~~~aiG~ 215 (249)
T PRK05928 154 CEVYERVPPKLDGAELLARLQSGEVDAVIFTSPSTVR-AFFSLAPELGRREWLLSCKAVVIGE 215 (249)
T ss_pred EEEEEeeCCCCChHHHHHHHHhCCCCEEEECCHHHHH-HHHHHhcccchhHHHhCCeEEEeCH
Confidence 99999988765543333322 589999999999999 9999987643 24789999996
No 7
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=100.00 E-value=5.6e-34 Score=279.48 Aligned_cols=208 Identities=20% Similarity=0.195 Sum_probs=178.1
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCC
Q 024727 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPN 128 (263)
Q Consensus 49 ~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~ 128 (263)
.+++||||||..+.+++.+.|+++|++++.+|+++++|..+...++..+..+..||||||||+|||++|++.+...+..+
T Consensus 2 ~~~~VLVTRp~~qa~~la~~L~~~G~~vi~~Pli~i~p~~~~~~l~~~l~~L~~yd~iIFTS~nAV~~~~~~l~~~~~~~ 81 (656)
T PRK06975 2 RAFTVVVTRPDGQSAALAAQLAAAGLDVLDFPLLDIAPVADDAPLRAALARLSDYALVVFVSPNAVDRALARLDAIWPHA 81 (656)
T ss_pred CCCEEEEeCcHhHHHHHHHHHHHcCCCEEEcccEEeeCCCChHHHHHHHHhCCCCCEEEEECHHHHHHHHHHHHhhCccC
Confidence 47899999999999999999999999999999999999876666777787889999999999999999999887655568
Q ss_pred cEEEEeChhHHHHHHHhhhhcCCCCceeec------------CCCCCHHHHHHHhccCC--CCCcEEEEEcCCCCchhHH
Q 024727 129 VRIGVVGAGTASIFEEVIQSSKCSLDVAFS------------PSKATGKILASELPKNG--KKKCTVLYPASAKASNEIE 194 (263)
Q Consensus 129 ~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~------------p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~~~~~~L~ 194 (263)
++++|||++|+++|+++ |+.++++ |..+++++|++.+.... .+|++||++||+++++.|.
T Consensus 82 ~~i~AVG~~Ta~aL~~~------Gi~~~~~~~~~P~~~~~~p~~~~~se~Ll~~l~~~~~~~~g~rVLi~rG~~gr~~L~ 155 (656)
T PRK06975 82 LPVAVVGPGSVAALARH------GIAAPAHRVIAPDAPADGGEARYDSEALFAEIDAAFGALAGKRVLIVRGDGGREWLA 155 (656)
T ss_pred CeEEEECHHHHHHHHHc------CCCCceeeccccccccCCCCCccchHHHHHhHHHhccCCCCCEEEEEcCCCCcHHHH
Confidence 89999999999999999 9998876 46789999999998764 5789999999999999999
Q ss_pred HHHHhCCCeeeEEeeeccccCCCChH---HHHHHh-CCCCEEEEeCHHHHHHHHHHhccc----cC---CCCceEEEECC
Q 024727 195 EGLSNRGFEVVRLNTYTTEPVHHVDQ---TVLKQA-LSIPVVAVASPSAVRSSWVNLISD----TE---QWSNSVACIAG 263 (263)
Q Consensus 195 ~~L~~~G~~v~~~~vY~~~~~~~~~~---~~~~~l-~~~d~vvFtS~s~v~~~~~~~~~~----~~---~~~~~i~~IGp 263 (263)
+.|++.|+.|++++||++........ .+.+.+ +++|+|+|||+++|+ +|++++.+ .. ..+++++||||
T Consensus 156 ~~L~~~Ga~V~~v~vY~~~~~~~~~~~~~~~~~~l~~~idav~fTS~s~v~-~f~~la~~~l~~~~~~~l~~~~ivaIgp 234 (656)
T PRK06975 156 ERLREAGAEVELVEAYRRVVPEPSIGAWERVHALLSGAPHAWLLTSSEAVR-NLDELARAHLNPAEIDALKHAPLVAPHA 234 (656)
T ss_pred HHHHHCCCEEEEEeEEEeeCCCcchhHHHHHHHHHhCCCcEEEECCHHHHH-HHHHHHHhhcCHHHHHHHhCCeEEEeCH
Confidence 99999999999999999765433221 222223 479999999999999 99998432 11 35789999996
No 8
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=100.00 E-value=2.1e-32 Score=236.04 Aligned_cols=202 Identities=31% Similarity=0.429 Sum_probs=176.5
Q ss_pred EEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc---CCCCc
Q 024727 53 VVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA---GTPNV 129 (263)
Q Consensus 53 ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~---~~~~~ 129 (263)
||+||+..+.+.+.+.|++.|+++..+|+|++++. +...+...++.+..+|+|||||+++|++|++.+... .+.+.
T Consensus 1 iLi~r~~~~~~~l~~~L~~~G~~~~~~p~~~~~~~-~~~~~~~~~~~~~~~~~iiftS~~av~~~~~~~~~~~~~~~~~~ 79 (239)
T cd06578 1 VLVTRPRPQADELAALLEALGAEVLELPLIEIEPL-DDAELDAALADLDEYDWLIFTSPNAVEAFFEALEELGLRALAGL 79 (239)
T ss_pred CEecCchHHhHHHHHHHHHcCCcEEEeeeEEEecC-ChHHHHHHHHhcCCCCEEEEECHHHHHHHHHHHHhhCCccccCC
Confidence 68999998899999999999999999999999986 545556666677799999999999999999998864 34689
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEee
Q 024727 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
+++|||++|+++|+++ |+.+++.|+.+++++|++.|.+....+++|++++|+.+++.|.+.|+++|++|.++++
T Consensus 80 ~~~avG~~Ta~~l~~~------g~~~~~~~~~~~~~~L~~~i~~~~~~~~~il~~~g~~~~~~l~~~L~~~g~~v~~~~~ 153 (239)
T cd06578 80 KIAAVGPKTAEALREA------GLTADFVPEEGDSEGLLELLELQDGKGKRILRPRGGRAREDLAEALRERGAEVDEVEV 153 (239)
T ss_pred EEEEECHHHHHHHHHc------CCCceeCCCccCHHHHHHHHHhcCCCCCEEEEEcCcchhHHHHHHHHHCCCEEEEEEE
Confidence 9999999999999999 9999998899999999999998744689999999999999999999999999999999
Q ss_pred eccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhcccc---CCCCceEEEECC
Q 024727 210 YTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDT---EQWSNSVACIAG 263 (263)
Q Consensus 210 Y~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~---~~~~~~i~~IGp 263 (263)
|++.+.+.. +...+.+ ..+|+|+|||+++++ .|++.+.+. .+.+.+++|||+
T Consensus 154 Y~~~~~~~~-~~~~~~l~~~~~~~iiftS~~~v~-~f~~~~~~~~~~~~~~~~~~aig~ 210 (239)
T cd06578 154 YRTVPPDLD-AELLELLEEGAIDAVLFTSPSTVR-NLLELLGKEGRALLKNVKIAAIGP 210 (239)
T ss_pred EEEECCCCc-HHHHHHHHcCCCcEEEEeCHHHHH-HHHHHHhhhhhhhhcCCeEEEECH
Confidence 999987654 2233333 367899999999999 999988753 256899999996
No 9
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=100.00 E-value=1.1e-33 Score=244.56 Aligned_cols=192 Identities=29% Similarity=0.412 Sum_probs=163.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC--CccEEEEeCHHHHHHHHHHHHHcC-----CCCcEEEEeC
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT--IFDWIIITSPEAGSVFLEAWKEAG-----TPNVRIGVVG 135 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~--~~d~IiFTS~~aV~~~~~~l~~~~-----~~~~~i~aVG 135 (263)
+++.+.|+++|++++.+|+++++|..+...++..++.+. .||+|||||++||++|++.+...+ +.+++++|||
T Consensus 1 ~~l~~~l~~~G~~~~~~P~i~~~~~~~~~~l~~~l~~l~~~~~d~viftS~~av~~~~~~l~~~~~~~~~~~~~~i~avG 80 (231)
T PF02602_consen 1 SELAALLRALGAEVIELPLIEIEPLPDLASLEAALEQLPPGNYDWVIFTSPNAVRAFFKALQSAGADLRLLKNIKIFAVG 80 (231)
T ss_dssp -HHHHHHHHTTEEEEEEESEEEEECCHHHHHHHHHHHHTGCCSSEEEESSHHHHHHHHHHHHHTTHHHHHHHHSEEEESS
T ss_pred CHHHHHHHHCCCcEEEECCEEEEeCCCHHHHHHHHHhcccCCCCEEEEECHHHHHHHHHHHhhhhhhhhhccCCeEEEEc
Confidence 468899999999999999999999766666777776665 999999999999999999987332 2378999999
Q ss_pred hhHHHHHHHhhhhcCCCCceeecCC-CCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeecccc
Q 024727 136 AGTASIFEEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 136 ~~Ta~~L~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~ 214 (263)
++|+++|+++ |+.++++|. .+++++|++.|.+.. .++++|+++|+.++++|.+.|++.|++|.++.||++ .
T Consensus 81 ~~Ta~~l~~~------G~~~~~~~~~~~~s~~L~~~l~~~~-~~~~vl~~~g~~~~~~l~~~L~~~g~~v~~~~vY~~-~ 152 (231)
T PF02602_consen 81 PKTAEALREY------GFQPDFVPSSEGSSEGLAELLKEQL-RGKRVLILRGEGGRPDLPEKLREAGIEVTEVIVYET-P 152 (231)
T ss_dssp HHHHHHHHHT------T-EECEE-TTSSSHHHHHGGHHHCC-TTEEEEEEESSSSCHHHHHHHHHTTEEEEEEECEEE-E
T ss_pred HHHHHHHHHc------CCCccccCCCCCCHHHHHHHHHhhC-CCCeEEEEcCCCccHHHHHHHHHCCCeEEEEEEeec-c
Confidence 9999999999 999998998 899999999888754 458999999999999999999999999999999999 5
Q ss_pred CCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhcccc--CCCCceEEEECC
Q 024727 215 VHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDT--EQWSNSVACIAG 263 (263)
Q Consensus 215 ~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~--~~~~~~i~~IGp 263 (263)
......++.+.+ .++|+|+||||++++ .|++++++. .+.+.+++||||
T Consensus 153 ~~~~~~~~~~~l~~~~~~~v~ftS~~~~~-~~~~~~~~~~~~~~~~~~~~ig~ 204 (231)
T PF02602_consen 153 PEELSPELKEALDRGEIDAVVFTSPSAVR-AFLELLKKNGALLKRVPIVAIGP 204 (231)
T ss_dssp EHHHHHHHHHHHHHTTTSEEEESSHHHHH-HHHHHSSGHHHHHTTSEEEESSH
T ss_pred cccchHHHHHHHHcCCCCEEEECCHHHHH-HHHHHhHhhhhhhhCCEEEEECH
Confidence 444444444444 699999999999999 999999864 367999999996
No 10
>PRK07168 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed
Probab=99.98 E-value=7.2e-32 Score=255.12 Aligned_cols=200 Identities=10% Similarity=0.081 Sum_probs=167.6
Q ss_pred CCCCCCCccccccccccccCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccE
Q 024727 26 RPLPFQFSRIQASSDATSASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDW 105 (263)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~ 105 (263)
+.+|++++|||. +||+|++||+||+.++...+.+.|+++|++++.+|.+++.+.+.. +..+.++.+|||
T Consensus 235 v~~~~~~~~~~~--------~PL~G~~IlVtR~~~q~~~l~~~L~~~GA~v~~~P~i~~~~~~~~---~~~l~~l~~ydw 303 (474)
T PRK07168 235 VSLRNQIAWKER--------KPLHGKKVLFTSATNKTSVMKQKLQEAGAEIYQIPTFKKEEYTLT---LEQINEIFNVNR 303 (474)
T ss_pred hccccccchhhc--------ccccCceEEeeccHHHHHHHHHHHHHcCCEEEEeccEEeeCCCCc---HHHHHHhccCCE
Confidence 467889999999 999999999999999999999999999999999999998764432 345667789999
Q ss_pred EEEeCHHHHHHHHHHHHHcCCC----CcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEE
Q 024727 106 IIITSPEAGSVFLEAWKEAGTP----NVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTV 181 (263)
Q Consensus 106 IiFTS~~aV~~~~~~l~~~~~~----~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~v 181 (263)
|||||+|+|+.|++.+.+.+.| ..+|+|||++|+++|+++ |+.++ |+++++++++.. ... . +++
T Consensus 304 lvFTS~ngV~~Ff~~l~~~~~D~R~l~~kiaavG~~Ta~aL~~~------Gl~~d--p~~~~~e~~l~~-g~~--~-~~v 371 (474)
T PRK07168 304 LVFCSAESVEILMQSCSKYKKDIRSLQAELQHMNVATQEKLMQY------GLLSK--EAKFSSDTTVYL-GRN--I-NRI 371 (474)
T ss_pred EEEcCHHHHHHHHHHHHHcCCChHHhCCEEEEECHHHHHHHHhC------CCccC--CcccccceeEEe-ccc--c-cce
Confidence 9999999999999999998765 589999999999999999 99985 899999999855 221 2 799
Q ss_pred EEEcCCCCchhHHHHHHhCCCe-eeEEeeec--cccCCCChHHHHHHhCCCCEEEEeCHHHHHHHHHHhccccC---CCC
Q 024727 182 LYPASAKASNEIEEGLSNRGFE-VVRLNTYT--TEPVHHVDQTVLKQALSIPVVAVASPSAVRSSWVNLISDTE---QWS 255 (263)
Q Consensus 182 L~~~g~~~~~~L~~~L~~~G~~-v~~~~vY~--~~~~~~~~~~~~~~l~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~ 255 (263)
++++++ .|.. |.....|+ +...+.....+.+ .-+|.|+|||+++|+ +|++.+.... ...
T Consensus 372 l~~~~~------------~g~~~~~~~~~y~~~~~~~~~~~~~l~e--~~~d~iiFtS~ssV~-~f~~~~~~~~~~~~~~ 436 (474)
T PRK07168 372 AFIQEK------------IGAGSYMMTHKYTIDHRFDEVHSRMLSE--FLWDSIVFEGRASID-TFLAEVKRLGFIDIVT 436 (474)
T ss_pred eecccC------------CCCceEEEEEEeeccccccchhhhHHhh--ccCceEEECCHHHHH-HHHHHHHhhCchhhcc
Confidence 999966 5566 99999999 6664443333332 248999999999999 9999986543 367
Q ss_pred ceEEEECC
Q 024727 256 NSVACIAG 263 (263)
Q Consensus 256 ~~i~~IGp 263 (263)
++++||||
T Consensus 437 ~~~~~iGp 444 (474)
T PRK07168 437 LPFSYTDV 444 (474)
T ss_pred CceEEeCH
Confidence 89999997
No 11
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=99.94 E-value=8.4e-26 Score=189.22 Aligned_cols=206 Identities=17% Similarity=0.206 Sum_probs=174.5
Q ss_pred CCeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc----
Q 024727 50 NPKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA---- 124 (263)
Q Consensus 50 g~~ILitr~~~-~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~---- 124 (263)
.++|++..... ..+.+.+.|+.+|++++.+|++...... .+++.+.|++..+|-.|||||+..|+++-+.+.+.
T Consensus 3 ~~~vlllK~~s~~~D~Y~~~l~~~~~epifIP~l~f~f~~-l~~lr~kL~~p~kY~giIfTSpR~VEa~~eaL~q~~tel 81 (260)
T KOG4132|consen 3 KVTVLLLKNKSVPIDPYEEELRSYGLEPIFIPVLSFTFVN-LQQLRAKLNNPPKYAGIIFTSPRCVEALNEALIQTETEL 81 (260)
T ss_pred ceeEEEecCCCCCCCHHHHHHHhcCCCceeecceeeeecc-HHHHHHHhcCchhhceeEEeChHHHHHHHHHhccccchh
Confidence 34788887765 6789999999999999999999998763 57788999888999999999999999999998832
Q ss_pred --CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCCCCchhHHHHHHhC
Q 024727 125 --GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASAKASNEIEEGLSNR 200 (263)
Q Consensus 125 --~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~~~~~~L~~~L~~~ 200 (263)
.|....+|+||+.|..+++.. |+....--+..+++.|++.|.+.. .+...+|+++|+..|+.|+..|...
T Consensus 82 ~~~w~a~~vYtVG~aT~~si~~~------~~l~T~Ge~~gNa~~LaD~Ive~~~~~~alPLLfpcGn~~rdil~kkL~~~ 155 (260)
T KOG4132|consen 82 KAAWLAKHVYTVGPATHASIRRL------GFLNTHGEDAGNAEILADLIVETFTDKRALPLLFPCGNLRRDILPKKLHDK 155 (260)
T ss_pred hhHHhhcceeeeccccHHHHHHh------cCccccccccccHHHHhHhhhhcCCCcccCceEEEcccchhHHHHHHHHhC
Confidence 245789999999999999998 775433333478999999998853 3456899999999999999999999
Q ss_pred CCeeeEEeeeccccCCCChHHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC--CCCceEEEECC
Q 024727 201 GFEVVRLNTYTTEPVHHVDQTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE--QWSNSVACIAG 263 (263)
Q Consensus 201 G~~v~~~~vY~~~~~~~~~~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~--~~~~~i~~IGp 263 (263)
|+.|+.+.||+|+..++...++...+ +.+|+|+|+||+++. ...+.++... ..+.++++|||
T Consensus 156 G~~Vds~~VY~T~~hp~~~~~~~~alk~~~~~d~ivfFSPsgv~-~~lq~f~~~~~s~~~~k~aaIGP 222 (260)
T KOG4132|consen 156 GIRVDSCEVYETREHPDGFKQFIHALKECGFIDWIVFFSPSGVK-SSLQYFGDSNRSGDHLKLAAIGP 222 (260)
T ss_pred CceeeEEEEEeeeecccHHHHHHHHHHhcCCcceEEEECcchHH-HHHHHHHHhccchhheeEEEeCc
Confidence 99999999999999887665555554 489999999999999 9999887653 45789999998
No 12
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=99.70 E-value=2.7e-16 Score=136.69 Aligned_cols=120 Identities=22% Similarity=0.244 Sum_probs=102.7
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC-
Q 024727 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG- 125 (263)
Q Consensus 48 l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~- 125 (263)
+.|++|+++|+..+.+.+.+.|++.|+++..+|+|++++.... ......+ ..+.+|+|+|||+++|++|++.+...+
T Consensus 123 ~~~~~ili~~~~~~~~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~-~~~~~d~ivftS~~~v~~~~~~~~~~~~ 201 (249)
T PRK05928 123 LKGKRVLYLRGNGGREVLGDTLEERGAEVDECEVYERVPPKLDGAELLARL-QSGEVDAVIFTSPSTVRAFFSLAPELGR 201 (249)
T ss_pred cCCCEEEEECCCCCHHHHHHHHHHCCCEEeEEEEEEeeCCCCChHHHHHHH-HhCCCCEEEECCHHHHHHHHHHhcccch
Confidence 5799999999999999999999999999999999999876432 2222222 136899999999999999999887654
Q ss_pred ---CCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccC
Q 024727 126 ---TPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (263)
Q Consensus 126 ---~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (263)
..+.+++|||+.|+++|+++ |+.++++|++++.++|++.|.+.
T Consensus 202 ~~~~~~~~~~aiG~~Ta~~l~~~------G~~~~~~~~~~~~~~l~~~l~~~ 247 (249)
T PRK05928 202 REWLLSCKAVVIGERTAEALREL------GIKVIIVPDSADNEALLRALKEL 247 (249)
T ss_pred hHHHhCCeEEEeCHHHHHHHHHc------CCCcceecCCCChHHHHHHHHHh
Confidence 24789999999999999999 99999999999999999988754
No 13
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=99.65 E-value=3.6e-15 Score=128.40 Aligned_cols=118 Identities=21% Similarity=0.272 Sum_probs=102.5
Q ss_pred CCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc--
Q 024727 47 SNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-- 124 (263)
Q Consensus 47 ~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-- 124 (263)
.+.+++|+++|+......+.+.|++.|+++..+|+|++++.++.+.....+. ...+|+|+|||+++|+.|++.+.+.
T Consensus 119 ~~~~~~il~~~g~~~~~~l~~~L~~~g~~v~~~~~Y~~~~~~~~~~~~~~l~-~~~~~~iiftS~~~v~~f~~~~~~~~~ 197 (239)
T cd06578 119 DGKGKRILRPRGGRAREDLAEALRERGAEVDEVEVYRTVPPDLDAELLELLE-EGAIDAVLFTSPSTVRNLLELLGKEGR 197 (239)
T ss_pred CCCCCEEEEEcCcchhHHHHHHHHHCCCEEEEEEEEEEECCCCcHHHHHHHH-cCCCcEEEEeCHHHHHHHHHHHhhhhh
Confidence 3679999999999888999999999999999999999998765444555553 3578899999999999999998764
Q ss_pred -CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHh
Q 024727 125 -GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASEL 171 (263)
Q Consensus 125 -~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l 171 (263)
.+.+.+++|||+.|+++|++. |+.++++++.++.++|++.+
T Consensus 198 ~~~~~~~~~aig~~t~~~l~~~------g~~~~~~~~~~~~~~l~~~i 239 (239)
T cd06578 198 ALLKNVKIAAIGPRTAEALREL------GLKVVIVAESPTLEALLEAL 239 (239)
T ss_pred hhhcCCeEEEECHHHHHHHHHc------CCCceeeecCCChHHHHhhC
Confidence 346899999999999999999 99999999999999998754
No 14
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=99.61 E-value=1.1e-14 Score=135.37 Aligned_cols=121 Identities=21% Similarity=0.269 Sum_probs=99.1
Q ss_pred CCCCCeEEEeCCC-----CChHHHHHHHHhCCCcEEEeceEEeeeCCCch---HHHHHHhcCCCccEEEEeCHHHHHHHH
Q 024727 47 SNSNPKVVVTRER-----GKNGKLIKALAKHRIDCLELPLIQHAQGPDTD---RLSSVLNADTIFDWIIITSPEAGSVFL 118 (263)
Q Consensus 47 ~l~g~~ILitr~~-----~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~---~l~~~l~~l~~~d~IiFTS~~aV~~~~ 118 (263)
...|++|++.+.. ...+.+.+.|++.|++|..+|+|++++..+.+ .+...+ .-+.+|+|+|||+++|++|+
T Consensus 139 ~~~g~~vli~~~~~~~~~~~~~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~~~~~l-~~~~~d~v~FtS~stv~~f~ 217 (381)
T PRK07239 139 GVAGKRIAVQLHGATDEWEPLPEFLEALRAAGAEVVPVPVYRWVPPPDPGPLDRLVDAI-ASRGLDAVTFTSAPAVAALL 217 (381)
T ss_pred CCCCCEEEEEcCCCccccCchHHHHHHHHHCCCEEEEeCcEEEcCCCChhHHHHHHHHH-HcCCccEEEEcCHHHHHHHH
Confidence 4679999998765 34568999999999999999999998754332 233334 23579999999999999999
Q ss_pred HHHHHcCC---------CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC
Q 024727 119 EAWKEAGT---------PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG 175 (263)
Q Consensus 119 ~~l~~~~~---------~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~ 175 (263)
+.+.+.+. .+++++||||.|+++|+++ |+.+ .+|++++.++|++.|.+..
T Consensus 218 ~~l~~~~~~~~~~~~~~~~~~i~aIGp~Ta~al~~~------G~~~-~vp~~~t~~~Lv~~i~~~~ 276 (381)
T PRK07239 218 ERAREMGLLDQLLAALRTDVLAACVGPVTAAPLVRA------GVPT-SAPERMRLGALARHITEEL 276 (381)
T ss_pred HHHHHcCChHHHHHhhccCCEEEEECHHHHHHHHHc------CCCc-cCCCCCCHHHHHHHHHHHh
Confidence 99876432 3678999999999999999 9998 5799999999999997653
No 15
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=99.58 E-value=2.8e-14 Score=125.60 Aligned_cols=121 Identities=12% Similarity=0.111 Sum_probs=102.5
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCC-chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc--
Q 024727 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPD-TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-- 124 (263)
Q Consensus 48 l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~-~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-- 124 (263)
..|++||++|+..+++.+.+.|++.|++|..+++|++++... .+.+...+ ..+.+|+|+|||++++++|++.+...
T Consensus 128 ~~~~~vLi~rg~~~r~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~~-~~~~~d~v~ftS~~~~~~~~~~~~~~~~ 206 (255)
T PRK05752 128 VPDPRVLIMRGEGGRELLAERLREQGASVDYLELYRRCLPDYPAGTLLQRV-EAERLNGLVVSSGQGFEHLQQLAGADWP 206 (255)
T ss_pred CCCCEEEEEccCccHHHHHHHHHHCCCEEeEEEEEeecCCCCCHHHHHHHH-HhCCCCEEEECCHHHHHHHHHHhChhHH
Confidence 358899999999999999999999999999999999876543 33444444 34679999999999999999987542
Q ss_pred CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC
Q 024727 125 GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG 175 (263)
Q Consensus 125 ~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~ 175 (263)
.+.+.+++|||+.|++++++. |+....+++.+|.++|++.|.+..
T Consensus 207 ~~~~~~~~~ig~~ta~a~~~~------G~~~~~~a~~~t~~~L~~al~~~~ 251 (255)
T PRK05752 207 ELARLPLFVPSPRVAEQARAA------GAQTVVDCRGASAAALLAALRRQA 251 (255)
T ss_pred HhcCceEEEeCHHHHHHHHHc------CCCceeeCCCCChHHHHHHHHhcc
Confidence 135789999999999999999 999888899999999999988654
No 16
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=99.55 E-value=9.4e-15 Score=126.09 Aligned_cols=116 Identities=23% Similarity=0.294 Sum_probs=98.0
Q ss_pred CCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc--
Q 024727 47 SNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-- 124 (263)
Q Consensus 47 ~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-- 124 (263)
.+.+++||+.|+....+.+.+.|++.|++|..+++|++.+.+...++...+. .+.+|+|+|||+.+++.|++.+.+.
T Consensus 114 ~~~~~~vl~~~g~~~~~~l~~~L~~~g~~v~~~~vY~~~~~~~~~~~~~~l~-~~~~~~v~ftS~~~~~~~~~~~~~~~~ 192 (231)
T PF02602_consen 114 QLRGKRVLILRGEGGRPDLPEKLREAGIEVTEVIVYETPPEELSPELKEALD-RGEIDAVVFTSPSAVRAFLELLKKNGA 192 (231)
T ss_dssp CCTTEEEEEEESSSSCHHHHHHHHHTTEEEEEEECEEEEEHHHHHHHHHHHH-HTTTSEEEESSHHHHHHHHHHSSGHHH
T ss_pred hCCCCeEEEEcCCCccHHHHHHHHHCCCeEEEEEEeecccccchHHHHHHHH-cCCCCEEEECCHHHHHHHHHHhHhhhh
Confidence 4667899999999999999999999999999999999922222344455553 3789999999999999999987754
Q ss_pred CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHH
Q 024727 125 GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILAS 169 (263)
Q Consensus 125 ~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~ 169 (263)
.+.+.+++|+|+.|+++|+++ |+.++++|+.++.++|++
T Consensus 193 ~~~~~~~~~ig~~ta~~l~~~------g~~~~~va~~~~~~~lv~ 231 (231)
T PF02602_consen 193 LLKRVPIVAIGPRTAKALREL------GFKVDIVAERPTIEALVE 231 (231)
T ss_dssp HHTTSEEEESSHHHHHHHHHT------T-SCSEEESSSSHHHHHH
T ss_pred hhhCCEEEEECHHHHHHHHHc------CCCceEECCCCChhHhhC
Confidence 346899999999999999999 999999999999999974
No 17
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=99.54 E-value=8.2e-14 Score=122.27 Aligned_cols=118 Identities=24% Similarity=0.309 Sum_probs=103.2
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCch-HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC--
Q 024727 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTD-RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT-- 126 (263)
Q Consensus 50 g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~-~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~-- 126 (263)
|++|++.|+...++.+.+.|.+.|+++..+++|++++..... .+...+ ....+|+|+|||+.+|++|++.++..+.
T Consensus 123 ~~~vl~~~~~~~r~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~-~~~~~d~v~ftS~~~v~~~~~~~~~~~~~~ 201 (248)
T COG1587 123 GKRVLILRGNGGREVLEEKLEERGAEVREVEVYRTEPPPLDEATLIELL-KLGEVDAVVFTSSSAVRALLALAPESGIEF 201 (248)
T ss_pred CCeEEEEcCCCchHHHHHHHHhCCCEEEEEeeeeecCCCccHHHHHHHH-HhCCCCEEEEeCHHHHHHHHHHccccchhH
Confidence 799999999999999999999999999999999999876542 223333 5689999999999999999999887653
Q ss_pred -CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccC
Q 024727 127 -PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (263)
Q Consensus 127 -~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (263)
.+++++|||+.|++.++++ |+.+++.++..+.++|.+.+...
T Consensus 202 ~~~~~v~~IG~~Ta~~l~~~------G~~~~~~~~~~~~~~l~~al~~~ 244 (248)
T COG1587 202 LERKRVASIGPRTAETLKEL------GITVDIAAEKPTLEALADALAKL 244 (248)
T ss_pred hhCceEEEecHHHHHHHHHc------CCcceecccccchHHHHHHHHHH
Confidence 3689999999999999999 99998999999999999888754
No 18
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=99.54 E-value=1.4e-13 Score=120.03 Aligned_cols=118 Identities=18% Similarity=0.115 Sum_probs=98.1
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCC-chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC--
Q 024727 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPD-TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG-- 125 (263)
Q Consensus 49 ~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~-~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~-- 125 (263)
.|++||+.|+..+++.+.+.|++.|+++..+++|++++.+. .+.+...+ .-+.+|+|+|||+.++++|++.+....
T Consensus 117 ~~~~vL~~rg~~~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~~~d~i~f~S~~~~~~f~~~~~~~~~~ 195 (240)
T PRK09189 117 PTARLLYLAGRPRAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAIL-GGAPFDAVLLYSRVAARRFFALMRLSIAP 195 (240)
T ss_pred CCCcEEEeccCcccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHH-hcCCCCEEEEeCHHHHHHHHHHHhhhcCc
Confidence 68899999999999999999999999999999999987653 23444444 336799999999999999999886432
Q ss_pred --CCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhcc
Q 024727 126 --TPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (263)
Q Consensus 126 --~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (263)
+.+.+++|||+.|++++++. |.....+++.+|.++|++.+..
T Consensus 196 ~~l~~~~~v~Ig~~ta~al~~~------~~~~~~ia~~~t~~~l~~~l~~ 239 (240)
T PRK09189 196 PADEKTRFLCLSARVAAALPAS------LRAQALIAAMPDEKSLLSLLSK 239 (240)
T ss_pred ccccccCeEEeCHHHHHHHhhc------cccceeecCCCCHHHHHHHhhh
Confidence 35788999999999999987 6655567999999999987753
No 19
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=99.47 E-value=8.2e-13 Score=111.39 Aligned_cols=120 Identities=16% Similarity=0.257 Sum_probs=107.8
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC--C
Q 024727 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG--T 126 (263)
Q Consensus 50 g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~--~ 126 (263)
....|++.+...++.+.++|.+.|+.|..+.+|+++..++. .++..+++.-+..|||+|.||+++....++++... .
T Consensus 133 alPLLfpcGn~~rdil~kkL~~~G~~Vds~~VY~T~~hp~~~~~~~~alk~~~~~d~ivfFSPsgv~~~lq~f~~~~~s~ 212 (260)
T KOG4132|consen 133 ALPLLFPCGNLRRDILPKKLHDKGIRVDSCEVYETREHPDGFKQFIHALKECGFIDWIVFFSPSGVKSSLQYFGDSNRSG 212 (260)
T ss_pred cCceEEEcccchhHHHHHHHHhCCceeeEEEEEeeeecccHHHHHHHHHHhcCCcceEEEECcchHHHHHHHHHHhccch
Confidence 34488889888999999999999999999999999998874 57888887777899999999999999999998765 3
Q ss_pred CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC
Q 024727 127 PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG 175 (263)
Q Consensus 127 ~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~ 175 (263)
++.++++|||.|+++|++. |+.++.+.+.+|.+.|+..|....
T Consensus 213 ~~~k~aaIGPtT~kaL~~~------g~~~~~vs~~P~pe~L~~~I~~~~ 255 (260)
T KOG4132|consen 213 DHLKLAAIGPTTRKALEDL------GVKVDVVSPAPDPESLADAIELYQ 255 (260)
T ss_pred hheeEEEeCcchHHHHHHc------CCCcceecCCCCHHHHHHHHHhhh
Confidence 6899999999999999999 999999999999999998887654
No 20
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=99.47 E-value=8.2e-13 Score=117.14 Aligned_cols=121 Identities=12% Similarity=0.044 Sum_probs=102.0
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCch-HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc--
Q 024727 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTD-RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-- 124 (263)
Q Consensus 48 l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~-~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-- 124 (263)
..|++||+.|...+++.+.+.|++.|+.|..+++|+.++..... .+...+ .....|+++|||+.++++|++.+.+.
T Consensus 136 ~~g~~vLi~rg~~gr~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~~l~-~~~~~d~i~ftS~sav~~f~~~l~~~~~ 214 (266)
T PRK08811 136 APLQAVGLITAPGGRGLLAPTLQQRGARILRADVYQRVPLRLRASTLAALS-RAAPRSVLALSSAEALTLILQQLPDALR 214 (266)
T ss_pred CCCCEEEEEeCCCcHHHHHHHHHHCCCEEeEEEEEeeeCCCCCHHHHHHHH-HhCCCCEEEEChHHHHHHHHHHhhhhHH
Confidence 36899999999999999999999999999999999988654322 233332 23579999999999999999988653
Q ss_pred -CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC
Q 024727 125 -GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG 175 (263)
Q Consensus 125 -~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~ 175 (263)
.+.+.+++|+|+.|++.+++. |+...++++..+.++|++.+....
T Consensus 215 ~~l~~~~~v~is~rtA~~a~~~------G~~~v~vA~~~~~~~l~~a~~~~~ 260 (266)
T PRK08811 215 RALQQRPVVASSDRLLDAAHAA------GFIHVMRAAGPLPAQLAAAAAAIM 260 (266)
T ss_pred HHHhCCCEEEeCHHHHHHHHHc------CCCceeeCCCCCHHHHHHHHHhhc
Confidence 235788999999999999999 999988999999999999988754
No 21
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=99.18 E-value=2.8e-10 Score=112.57 Aligned_cols=118 Identities=14% Similarity=0.116 Sum_probs=94.4
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEee-eCCCc---hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH
Q 024727 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHA-QGPDT---DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE 123 (263)
Q Consensus 48 l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~-~~~~~---~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~ 123 (263)
+.|++||+.|+..+++.+.+.|++.|+.|..+++|+.. +.++. ..+...+ .+.+|+|+|||+.+|++|++.+.+
T Consensus 137 ~~g~rVLi~rG~~gr~~L~~~L~~~Ga~V~~v~vY~~~~~~~~~~~~~~~~~~l--~~~idav~fTS~s~v~~f~~la~~ 214 (656)
T PRK06975 137 LAGKRVLIVRGDGGREWLAERLREAGAEVELVEAYRRVVPEPSIGAWERVHALL--SGAPHAWLLTSSEAVRNLDELARA 214 (656)
T ss_pred CCCCEEEEEcCCCCcHHHHHHHHHCCCEEEEEeEEEeeCCCcchhHHHHHHHHH--hCCCcEEEECCHHHHHHHHHHHHh
Confidence 67899999999999999999999999999999999964 33222 2233333 246999999999999999997432
Q ss_pred c-------CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccC
Q 024727 124 A-------GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (263)
Q Consensus 124 ~-------~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (263)
+ .+.+++++|||+.|++.+++. |+... .+..++.++++..+.++
T Consensus 215 ~l~~~~~~~l~~~~ivaIgprtA~~a~~~------G~~~i-~~a~~~~e~ll~ai~~~ 265 (656)
T PRK06975 215 HLNPAEIDALKHAPLVAPHARIAEQARAL------GFDRI-TLTGAGDERIVRAFLTW 265 (656)
T ss_pred hcCHHHHHHHhCCeEEEeCHHHHHHHHHc------CCCee-ecCCCChHHHHHHHHHH
Confidence 1 134789999999999999999 99964 45668888888877764
No 22
>PRK07168 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed
Probab=98.71 E-value=6.7e-07 Score=85.43 Aligned_cols=171 Identities=10% Similarity=0.134 Sum_probs=112.7
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcE
Q 024727 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVR 130 (263)
Q Consensus 51 ~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~ 130 (263)
.++++..+.....++.+.|.++|.... .|+.-++..... + .-++.++-.. +.+.+.+.+.+..-
T Consensus 164 ~tlV~lm~~~~l~~I~~~L~~~G~~~~-tpvavv~~~t~~-----------~-Qri~~~tL~~---l~~~~~~~~~~~pa 227 (474)
T PRK07168 164 DTIAYYMGIKNLPTICENLRQAGKKED-TPVAVIEWGTTG-----------K-QRVVTGTLST---IVSIVKNENISNPS 227 (474)
T ss_pred CeEEEEcChhhHHHHHHHHHHcCcCCC-CeEEEEEECCCC-----------C-cEEEEEEHHH---HHHHHHhcCCCCCE
Confidence 356655555566788999988886422 344333332111 1 1233333333 33444455566788
Q ss_pred EEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeee
Q 024727 131 IGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 131 i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY 210 (263)
++.||+... +++. + ....+....|++||+.|..+....|.+.|++.|++|.+++.-
T Consensus 228 vivvG~vv~--~~~~-------~---------------~~~~~~PL~G~~IlVtR~~~q~~~l~~~L~~~GA~v~~~P~i 283 (474)
T PRK07168 228 MTIVGDVVS--LRNQ-------I---------------AWKERKPLHGKKVLFTSATNKTSVMKQKLQEAGAEIYQIPTF 283 (474)
T ss_pred EEEEChHhc--cccc-------c---------------chhhcccccCceEEeeccHHHHHHHHHHHHHcCCEEEEeccE
Confidence 999997432 2222 1 111122335899999999999999999999999999999998
Q ss_pred ccccCCCChHHHHHHhCCCCEEEEeCHHHHHHHHHHhccccCC----CCceEEEECC
Q 024727 211 TTEPVHHVDQTVLKQALSIPVVAVASPSAVRSSWVNLISDTEQ----WSNSVACIAG 263 (263)
Q Consensus 211 ~~~~~~~~~~~~~~~l~~~d~vvFtS~s~v~~~~~~~~~~~~~----~~~~i~~IGp 263 (263)
+....+.. +..++.+.++||++|||+.+|+ .|++.+.+... ...+|+|||+
T Consensus 284 ~~~~~~~~-~~~l~~l~~ydwlvFTS~ngV~-~Ff~~l~~~~~D~R~l~~kiaavG~ 338 (474)
T PRK07168 284 KKEEYTLT-LEQINEIFNVNRLVFCSAESVE-ILMQSCSKYKKDIRSLQAELQHMNV 338 (474)
T ss_pred EeeCCCCc-HHHHHHhccCCEEEEcCHHHHH-HHHHHHHHcCCChHHhCCEEEEECH
Confidence 85544333 3445557799999999999999 99998876431 1379999996
No 23
>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=96.79 E-value=0.052 Score=46.75 Aligned_cols=175 Identities=13% Similarity=0.049 Sum_probs=98.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta 139 (263)
.+.+.++++|+++...+.. .+.+ .++..+ ...+|++|+.+..........+.. .+++++++|...
T Consensus 20 ~~~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~--~~~vdgiii~~~~~~~~~~~~l~~---~~ipvV~~~~~~- 88 (268)
T cd06298 20 GIDDIATMYKYNIILSNSD-----NDKEKELKVLNNLL--AKQVDGIIFMGGKISEEHREEFKR---SPTPVVLAGSVD- 88 (268)
T ss_pred HHHHHHHHcCCeEEEEeCC-----CCHHHHHHHHHHHH--HhcCCEEEEeCCCCcHHHHHHHhc---CCCCEEEEcccc-
Confidence 4556777889888766421 1221 223322 257999999865433444444443 367889888532
Q ss_pred HHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCC-c-------hhHHHHHHhCCCeeeEEeee
Q 024727 140 SIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-S-------NEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~-~-------~~L~~~L~~~G~~v~~~~vY 210 (263)
... ++.. +.++.+ .+..+++.|.+. ..++|+++.|... . .-+.+.+++.|.++....++
T Consensus 89 ---~~~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~l~~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~ 156 (268)
T cd06298 89 ---EDN------ELPS-VNIDYKKAAFEATELLIKN--GHKKIAFISGPLEDSINGDERLAGYKEALSEANIEFDESLIF 156 (268)
T ss_pred ---CCC------CCCE-EEECcHHHHHHHHHHHHHc--CCceEEEEeCCcccccchhHHHHHHHHHHHHcCCCCCHHHeE
Confidence 112 2222 233333 345566667663 3588999987654 2 33456777888766443343
Q ss_pred ccccCCCChHH-HHHHhC--CCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 211 TTEPVHHVDQT-VLKQAL--SIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 211 ~~~~~~~~~~~-~~~~l~--~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
..........+ +.+.+. .+++|+.++...+. .+++.+.+.. ..++.+++++
T Consensus 157 ~~~~~~~~~~~~~~~~l~~~~~~ai~~~~d~~a~-~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 157 EGDYTYESGYELAEELLEDGKPTAAFVTDDELAI-GILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred eCCCChhHHHHHHHHHhcCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCccceEEEeec
Confidence 32222122222 223232 38999999988887 7777776543 2366777765
No 24
>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=96.79 E-value=0.041 Score=47.84 Aligned_cols=176 Identities=14% Similarity=0.105 Sum_probs=96.3
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHH
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEE 144 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~ 144 (263)
+.+.+++.|+++.....-.- ...++...+ ....+|.||+++...-...++.+.+ .+++++++|.... .
T Consensus 32 i~~~~~~~g~~~~v~~~~~~----~~~~~~~~l-~~~~~dgiii~~~~~~~~~~~~~~~---~~ipvV~~~~~~~----~ 99 (275)
T cd06295 32 IADALAERGYDLLLSFVSSP----DRDWLARYL-ASGRADGVILIGQHDQDPLPERLAE---TGLPFVVWGRPLP----G 99 (275)
T ss_pred HHHHHHHcCCEEEEEeCCch----hHHHHHHHH-HhCCCCEEEEeCCCCChHHHHHHHh---CCCCEEEECCccC----C
Confidence 56667788988876542111 122333434 2257999998765432333444433 3689999986421 1
Q ss_pred hhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccCC
Q 024727 145 VIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPVH 216 (263)
Q Consensus 145 ~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~~ 216 (263)
. .+.. +.++.+ .+..+++.|.+. ..++++++.+.... .-+.+.+++.|..+....++......
T Consensus 100 ~------~~~~-V~~d~~~~g~~~a~~l~~~--g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~ 170 (275)
T cd06295 100 Q------PYCY-VGSDNVGGGRLATEHLLAR--GRRRIAFLGGPQDMPEGEERLEGYREALAEAGLPLDPRLVAPGDFTE 170 (275)
T ss_pred C------CCCE-EEECcHHHHHHHHHHHHHC--CCCeEEEEcCCCCcchhHHHHHHHHHHHHHcCCCCChhhEEeccCCH
Confidence 2 3322 333333 345556666654 34789999876541 33556777777655433333322111
Q ss_pred CChH-HHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 217 HVDQ-TVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 217 ~~~~-~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.... .+.+.+ .++++|++++...+. .+.+.+.+.. ..++.++|++
T Consensus 171 ~~~~~~~~~~l~~~~~~~ai~~~~~~~a~-g~~~~l~~~g~~ip~~i~ii~~d 222 (275)
T cd06295 171 ESGRAAMRALLERGPDFDAVFAASDLMAL-GALRALREAGRRVPEDVAVVGFD 222 (275)
T ss_pred HHHHHHHHHHHhCCCCCCEEEECCcHHHH-HHHHHHHHhCCCCccceEEEeeC
Confidence 1111 222323 258999999988777 6666665432 2367777765
No 25
>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=96.60 E-value=0.036 Score=47.79 Aligned_cols=177 Identities=11% Similarity=0.042 Sum_probs=96.4
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
.+.+.+++.|+++...+.. .+.+.....++. -..+|.||+++.......++.+.+ .+++++++|....
T Consensus 20 gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~l~~---~~ipvV~~~~~~~-- 89 (265)
T cd06299 20 AIQDAASAAGYSTIIGNSD-----ENPETENRYLDNLLSQRVDGIIVVPHEQSAEQLEDLLK---RGIPVVFVDREIT-- 89 (265)
T ss_pred HHHHHHHHcCCEEEEEeCC-----CCHHHHHHHHHHHHhcCCCEEEEcCCCCChHHHHHHHh---CCCCEEEEecccC--
Confidence 4566778889888866432 121111122211 257999999875433323444443 3678999986432
Q ss_pred HHHhhhhcCCCCceeecCCCCCH-HHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSKATG-KILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~t~-e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
.. ++.. +..+.+.+ ..+++.|.+. ..++|+++.|.... .-+.+.++++|.++....++...
T Consensus 90 --~~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~I~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~ 158 (265)
T cd06299 90 --GS------PIPF-VTSDPQPGMTEAVSLLVAL--GHKKIGYISGPQDTSTGRERLEAFRQACASLGLEVNEDLVVLGG 158 (265)
T ss_pred --CC------CCCE-EEECcHHHHHHHHHHHHHc--CCCcEEEEeCCCCcccHHHHHHHHHHHHHHCCCCCChHhEEecC
Confidence 22 3332 22333322 3344555443 34789999776542 34566777888654433233222
Q ss_pred cCCCChHH-HHHHhC-CCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVDQT-VLKQAL-SIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~~~-~~~~l~-~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.......+ +.+.+. .+++|+.++...+. ...+.+.+.. ..++.|++++
T Consensus 159 ~~~~~~~~~~~~~l~~~~~av~~~~d~~a~-gv~~al~~~g~~vp~dv~v~g~d 211 (265)
T cd06299 159 YSQESGYAGATKLLDQGATAIIAGDSMMTI-GAIRAIHDAGLVIGEDISLIGFD 211 (265)
T ss_pred cchHHHHHHHHHHHcCCCCEEEEcCcHHHH-HHHHHHHHhCCCCCcceeEEEeC
Confidence 21111222 222233 48999999998887 7777766543 2467777775
No 26
>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=96.56 E-value=0.052 Score=46.68 Aligned_cols=179 Identities=10% Similarity=-0.001 Sum_probs=95.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
..+.+.+++.|+++...+...- + ... +.++..+ ...+|.||+++...-....+.+... ++++++++...
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~-~-~~~~~~~~~l~--~~~vdgiii~~~~~~~~~~~~~~~~---~ipvv~~~~~~--- 88 (268)
T cd01575 19 QGISDVLEAAGYQLLLGNTGYS-P-EREEELLRTLL--SRRPAGLILTGLEHTERTRQLLRAA---GIPVVEIMDLP--- 88 (268)
T ss_pred HHHHHHHHHcCCEEEEecCCCC-c-hhHHHHHHHHH--HcCCCEEEEeCCCCCHHHHHHHHhc---CCCEEEEecCC---
Confidence 3455677888988876553211 1 111 1223322 2579999998765333444444433 67888887532
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
... ... .+..+. ..+..+++.|.+. ..+++.++.+... ..-+.+.|++.|..+....++...
T Consensus 89 -~~~------~~~-~v~~d~~~~~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~ 158 (268)
T cd01575 89 -PDP------IDM-AVGFSHAEAGRAMARHLLAR--GYRRIGFLGARMDDTRAQQRLEGFRAALRAAGLDPPLVVTTPEP 158 (268)
T ss_pred -CCC------CCC-eEEeCcHHHHHHHHHHHHHC--CCCcEEEecCCCCcccHHHHHHHHHHHHHHcCCCCCceeEeccC
Confidence 111 121 122222 3345556666654 3478999887754 234556777887654333332221
Q ss_pred cCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.......+ +.+.+ ..+++|+..|...+. .+++.+.+.. ..++.+++++
T Consensus 159 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-~~~~~l~~~g~~~p~di~vig~d 213 (268)
T cd01575 159 SSFALGRELLAELLARWPDLDAVFCSNDDLAL-GALFECQRRGISVPEDIAIAGFG 213 (268)
T ss_pred CCHHHHHHHHHHHHhCCCCCCEEEECCcHHHH-HHHHHHHHhCCCCCcceEEEecC
Confidence 11111112 22223 268999999988777 6776665432 2356666654
No 27
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=96.42 E-value=0.079 Score=45.69 Aligned_cols=176 Identities=11% Similarity=0.046 Sum_probs=96.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGT 138 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~T 138 (263)
..+.+.+++.|+++.... .. .+.+ .++..+ -...|++|+++...-...++.+.+. +++++++|...
T Consensus 19 ~~i~~~~~~~g~~~~~~~---~~--~~~~~~~~~~~~l~--~~~vdgiii~~~~~~~~~~~~l~~~---~iPvv~~~~~~ 88 (268)
T cd06273 19 QAFQETLAAHGYTLLVAS---SG--YDLDREYAQARKLL--ERGVDGLALIGLDHSPALLDLLARR---GVPYVATWNYS 88 (268)
T ss_pred HHHHHHHHHCCCEEEEec---CC--CCHHHHHHHHHHHH--hcCCCEEEEeCCCCCHHHHHHHHhC---CCCEEEEcCCC
Confidence 346677788898887531 11 1222 122222 2468999998765444444444443 67888887532
Q ss_pred HHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC--------chhHHHHHHhCCCeeeEEee
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~~~v 209 (263)
. .. .+.. +..+. ..+..+++.|.+. ..+++.++.|... ..-+.+.|+++|+.+....+
T Consensus 89 ~----~~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~ 155 (268)
T cd06273 89 P----DS------PYPC-VGFDNREAGRLAARHLIAL--GHRRIAMIFGPTQGNDRARARRAGVRAALAEAGLELPELWQ 155 (268)
T ss_pred C----CC------CCCE-EEeChHHHHHHHHHHHHHC--CCCeEEEEeccccCCccHHHHHHHHHHHHHHcCCCCCHHHe
Confidence 1 12 2221 22333 2345556666664 3578999976431 23455677888876654444
Q ss_pred eccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 210 YTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 210 Y~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
+..........+ +.+.+ ..+++|+.++...+. .+++.+.+.. ..++.+++++
T Consensus 156 ~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~-~~~~~l~~~g~~~p~~i~vig~d 214 (268)
T cd06273 156 VEAPYSIADGRAALRQLLEQPPRPTAVICGNDVLAL-GALYEARRLGLSVPEDLSIVGFD 214 (268)
T ss_pred eeCCCcHHHHHHHHHHHHcCCCCCCEEEEcChHHHH-HHHHHHHHcCCCCCCceEEEecC
Confidence 432222111112 22223 358999999988787 7777665443 2356676654
No 28
>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=96.42 E-value=0.098 Score=45.52 Aligned_cols=176 Identities=13% Similarity=0.052 Sum_probs=97.6
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
..+.+.++++|+++...+.... .+. +.+...+ .....|+||+++...-...++.+.+ .+++++++|...
T Consensus 19 ~~i~~~~~~~gy~~~~~~~~~~---~~~~~~~~~~l-~~~~vdgvi~~~~~~~~~~~~~l~~---~~iPvv~~~~~~--- 88 (269)
T cd06297 19 EGIEGALLEQRYDLALFPLLSL---ARLKRYLESTT-LAYLTDGLLLASYDLTERLAERRLP---TERPVVLVDAEN--- 88 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCc---HHHHHHHHHHH-HhcCCCEEEEecCccChHHHHHHhh---cCCCEEEEccCC---
Confidence 4566777888988887643211 111 1222222 2357999999985432334344443 367899998631
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-------------chhHHHHHHhCCCeeeEE
Q 024727 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------------SNEIEEGLSNRGFEVVRL 207 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------------~~~L~~~L~~~G~~v~~~ 207 (263)
. ++.. +..+. ..+...++.|.+. .++++++.|... ..-+.+.+++.|.++...
T Consensus 89 ---~------~~~~-v~~d~~~~g~~a~~~L~~~---~~~i~~i~~~~~~~~~~~~~~~~~R~~gf~~~~~~~g~~~~~~ 155 (269)
T cd06297 89 ---P------RFDS-FYLDNRLGGRLAGAYLADF---PGRIGAITVEEEPDRAFRRTVFAERRAGFQQALKDAGRPFSPD 155 (269)
T ss_pred ---C------CCCE-EEECcHHHHHHHHHHHHHh---CCceEEEeCccccccccccccHHHHHHHHHHHHHHcCCCCChh
Confidence 2 3332 22333 3445556666664 377888866432 223455777888876543
Q ss_pred eeeccccCCCChH-HHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 208 NTYTTEPVHHVDQ-TVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 208 ~vY~~~~~~~~~~-~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.++.......... .+.+.+ ..+|+|+..+...+. .+++.+.+.. ..++.+++++
T Consensus 156 ~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~vP~di~vvg~d 216 (269)
T cd06297 156 LLAITDHSEEGGRLAMRHLLEKASPPLAVFASADQQAL-GALQEAVELGLTVGEDVRVVGFD 216 (269)
T ss_pred hEEeCCCChhhHHHHHHHHHcCCCCCcEEEEcCcHHHH-HHHHHHHHcCCCCCCceEEEEEC
Confidence 3333322122222 223323 257999999987777 7777665543 3477888775
No 29
>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=96.27 E-value=0.11 Score=44.82 Aligned_cols=178 Identities=7% Similarity=0.008 Sum_probs=95.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc--hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT--DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~--~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++|+++....... -.+. +.++..+ -..+|+||+++..-=...++.+.+ .++++++++...
T Consensus 19 ~g~~~~a~~~g~~~~~~~~~~---~~~~~~~~i~~~~--~~~vdgii~~~~~~~~~~~~~~~~---~~ipvV~~~~~~-- 88 (268)
T cd06270 19 SGVESVARKAGKHLIITAGHH---SAEKEREAIEFLL--ERRCDALILHSKALSDDELIELAA---QVPPLVLINRHI-- 88 (268)
T ss_pred HHHHHHHHHCCCEEEEEeCCC---chHHHHHHHHHHH--HcCCCEEEEecCCCCHHHHHHHhh---CCCCEEEEeccC--
Confidence 345566788899887543211 0111 1122222 257999999764211112333333 367899988532
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeecc
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
... +... +..+. ..+..+++.|.+. ..++++++.|.... .-+.+.+++.|..+....++..
T Consensus 89 --~~~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~ 157 (268)
T cd06270 89 --PGL------ADRC-IWLDNEQGGYLATEHLIEL--GHRKIACITGPLTKEDARLRLQGYRDALAEAGIALDESLIIEG 157 (268)
T ss_pred --CCC------CCCe-EEECcHHHHHHHHHHHHHC--CCceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCCcceEEEC
Confidence 112 2221 22332 3455666667654 35789988775432 2356677788876543333322
Q ss_pred ccCCCChHHH-HHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 213 EPVHHVDQTV-LKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 213 ~~~~~~~~~~-~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
........+. .+.+ ..+++|+.++...+. .+++.+.+.. ..++.++|+|
T Consensus 158 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~ip~di~v~g~d 213 (268)
T cd06270 158 DFTEEGGYAAMQELLARGAPFTAVFCANDEMAA-GAISALREHGISVPQDVSIIGFD 213 (268)
T ss_pred CCCHHHHHHHHHHHHhCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCCceeEEEec
Confidence 2211112222 2223 257999998888877 7777776543 2467788876
No 30
>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=96.22 E-value=0.12 Score=44.43 Aligned_cols=178 Identities=11% Similarity=0.018 Sum_probs=96.1
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (263)
..+.+.+++.|.++...+.... +....+.++. + .....|+||+.+...-...++.+.+ ..+++.++..+.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~-~~~~~~~i~~-l-~~~~vdgiii~~~~~~~~~~~~~~~----~~pvv~~~~~~~--- 88 (260)
T cd06286 19 DGIEKAALKHGYKVVLLQTNYD-KEKELEYLEL-L-KTKQVDGLILCSRENDWEVIEPYTK----YGPIVLCEEYDS--- 88 (260)
T ss_pred HHHHHHHHHcCCEEEEEeCCCC-hHHHHHHHHH-H-HHcCCCEEEEeCCCCCHHHHHHHhc----CCCEEEEecccC---
Confidence 3456667788988876533111 0000111222 2 1357899998764321122333332 237888886532
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeeecccc
Q 024727 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY~~~~ 214 (263)
. ++.. +..+. ..+...++.|.+. ..++++++.|... .+-+.+.|++.|+.+....+|....
T Consensus 89 --~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~i~~~~~ 157 (260)
T cd06286 89 --K------NISS-VYIDHYEAFYEALKYLIQK--GYRKIAYCIGRKKSLNSQSRKKAYKDALEEYGLTPDEEWIFEGCF 157 (260)
T ss_pred --C------CCCE-EEECChHHHHHHHHHHHHC--CCceEEEEcCCcccchhHHHHHHHHHHHHHcCCCCChHheEeCCC
Confidence 3 4433 33333 3445566667664 3578999988654 2345556778886654333333222
Q ss_pred CCCChHHHHHH-h---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 215 VHHVDQTVLKQ-A---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 215 ~~~~~~~~~~~-l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
......+..+. + ..+|+|+..+...+. .+++.+.+.. ..++.+++++
T Consensus 158 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-~~~~~l~~~g~~ip~di~v~g~d 211 (260)
T cd06286 158 TIEDGERIGHQLLKMKDRPDAIFTGSDEVAA-GIITEAKKQGIRVPEDLAIIGFD 211 (260)
T ss_pred CHHHHHHHHHHHHcCCCCCCEEEEcchHHHH-HHHHHHHHcCCCCCcceEEEeec
Confidence 11111222222 2 368999999999888 7877776543 2467777764
No 31
>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=96.17 E-value=0.1 Score=44.88 Aligned_cols=179 Identities=11% Similarity=0.049 Sum_probs=96.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCC-chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPD-TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~-~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
..+.+.++++|+++.......- .+ .+.+.+.+ ....+|+||+++.+.-......+.+ .+++++++|....
T Consensus 23 ~~i~~~~~~~g~~~~~~~~~~~---~~~~~~~~~~~-~~~~vdgiii~~~~~~~~~~~~~~~---~~ipvV~~~~~~~-- 93 (268)
T cd06271 23 SGLSEALAEHGYDLVLLPVDPD---EDPLEVYRRLV-ESGLVDGVIISRTRPDDPRVALLLE---RGFPFVTHGRTEL-- 93 (268)
T ss_pred HHHHHHHHHCCceEEEecCCCc---HHHHHHHHHHH-HcCCCCEEEEecCCCCChHHHHHHh---cCCCEEEECCcCC--
Confidence 3556667788988877654221 11 12233333 2257999999875432222333333 3678888885321
Q ss_pred HHHhhhhcCCCCceeecCCCCC-HHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSKAT-GKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
.. ++.. +..+.+. +...++.+.+. ..++++++.|.... .-+.+.+++.|..+....++...
T Consensus 94 --~~------~~~~-V~~d~~~~~~~a~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~ 162 (268)
T cd06271 94 --GD------PHPW-VDFDNEAAAYQAVRRLIAL--GHRRIALLNPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSGD 162 (268)
T ss_pred --CC------CCCe-EeeCcHHHHHHHHHHHHHc--CCCcEEEecCccccchHHHHHHHHHHHHHHhCCCCCCceEEeCC
Confidence 12 3322 2233332 34455566554 34789999775432 34556777777765433344332
Q ss_pred cCCCChHHHH-HHh---CCCCEEEEeCHHHHHHHHHHhccccCC---CCceEEEEC
Q 024727 214 PVHHVDQTVL-KQA---LSIPVVAVASPSAVRSSWVNLISDTEQ---WSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~~~~~-~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~---~~~~i~~IG 262 (263)
.......+.. +.+ ..+|+|+..+...+. .+.+.+.+... .++.+++++
T Consensus 163 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~al~~~g~~vp~~i~iig~d 217 (268)
T cd06271 163 MTEEGGYAAAAELLALPDRPTAIVCSSELMAL-GVLAALAEAGLRPGRDVSVVGFD 217 (268)
T ss_pred CChHHHHHHHHHHHhCCCCCCEEEEcCcHHHH-HHHHHHHHhCCCCCcceeEEEec
Confidence 2211111222 222 258999999987777 77776665432 356777664
No 32
>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=96.14 E-value=0.11 Score=44.78 Aligned_cols=174 Identities=9% Similarity=0.018 Sum_probs=93.4
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (263)
.+.+.++++|+++...... +.....+.+ ....+|+||+++...-...+..+.+ .+++++++|....
T Consensus 20 gi~~~~~~~g~~~~~~~~~------~~~~~~~~l-~~~~vdgii~~~~~~~~~~~~~~~~---~~ipvV~~~~~~~---- 85 (261)
T cd06272 20 GINQAISKNGYNMNVSITP------SLAEAEDLF-KENRFDGVIIFGESASDVEYLYKIK---LAIPVVSYGVDYD---- 85 (261)
T ss_pred HHHHHHHHcCCEEEEEecc------cHHHHHHHH-HHcCcCEEEEeCCCCChHHHHHHHH---cCCCEEEEcccCC----
Confidence 3456667889887776443 112222223 2357999998875433333333333 3678999986432
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccC
Q 024727 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
. ++.. +..+. ..+..+++.|.+. ..++++++.+.... .-+.+.+++.|..+....++.....
T Consensus 86 -~------~~~~-V~~d~~~~~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~ 155 (261)
T cd06272 86 -L------KYPI-VNVDNEKAMELAVLYLAEK--GHKKIAYIGDLSLDRRQRKRFKGFLETCDENGISISDSHIDVDGLS 155 (261)
T ss_pred -C------CCCE-EEEChHHHHHHHHHHHHHc--CchhEEEeecccccccHHHHHHHHHHHHHHcCCCCCHHHeeeCCCC
Confidence 3 3322 22232 3345566666654 34789998765431 2345567777764433223321111
Q ss_pred CCChHHH-HHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 216 HHVDQTV-LKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 216 ~~~~~~~-~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.....+. .+.+ ..+++|+.++...+. .++..+.+.. ..++.+++++
T Consensus 156 ~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-~~~~~l~~~g~~vp~dv~vvg~d 208 (261)
T cd06272 156 AEGGDNAAKKLLKESDLPTAIICGSYDIAL-GVLSALNKQGISIPEDIEIISYD 208 (261)
T ss_pred HHHHHHHHHHHHcCCCCCCEEEECCcHHHH-HHHHHHHHhCCCCCCceEEEeeC
Confidence 1111122 2222 248999999887776 6666665433 2467777765
No 33
>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=96.13 E-value=0.081 Score=45.66 Aligned_cols=180 Identities=11% Similarity=0.038 Sum_probs=95.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (263)
.+.+.+++.|+++.......... ...+.++..+ ...+|+||+++...-...++.+.+ .+++++++|.....
T Consensus 20 gi~~~~~~~g~~~~~~~~~~~~~-~~~~~i~~l~--~~~~dgiii~~~~~~~~~~~~~~~---~~ipvV~i~~~~~~--- 90 (270)
T cd06296 20 GVEEAAAAAGYDVVLSESGRRTS-PERQWVERLS--ARRTDGVILVTPELTSAQRAALRR---TGIPFVVVDPAGDP--- 90 (270)
T ss_pred HHHHHHHHcCCeEEEecCCCchH-HHHHHHHHHH--HcCCCEEEEecCCCChHHHHHHhc---CCCCEEEEecccCC---
Confidence 45566778888876653321110 0011122222 257999999876422222333332 46899999864311
Q ss_pred HhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccC
Q 024727 144 EVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
.. ++.. +.++.+ .+....+.+.+. ..+++.++.|.... .-+.+.+++.|+.+....++.....
T Consensus 91 ~~------~~~~-v~~d~~~~~~~a~~~l~~~--g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~ 161 (270)
T cd06296 91 DA------DVPS-VGATNWAGGLAATEHLLEL--GHRRIGFITGPPDLLCSRARLDGYRAALAEAGIPVDPALVREGDFS 161 (270)
T ss_pred CC------CCCE-EEeCcHHHHHHHHHHHHHc--CCCcEEEEcCCCcchhHHHHHHHHHHHHHHcCCCCChHHheeCCCC
Confidence 01 2221 223332 345555566554 34789999886542 3345566777766543223322222
Q ss_pred CCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 216 HHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 216 ~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.....+ +.+.+ ..+++|+..|...+. .+.+.+.+.. ..++.|++++
T Consensus 162 ~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 162 TESGFRAAAELLALPERPTAIFAGNDLMAL-GVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHHHHHHHHHHHhCCCCCcEEEEcCcHHHH-HHHHHHHHhCCCCCCceEEEEEC
Confidence 111111 22222 367999999988888 7777776543 2467777765
No 34
>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=96.10 E-value=0.23 Score=42.62 Aligned_cols=178 Identities=10% Similarity=0.062 Sum_probs=93.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++|+.+..... . .+.+.....++. ...+|.|++.....-...++.+.+ .+++++++|...
T Consensus 19 ~~i~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~l~~~~~---~~ipvV~~~~~~-- 88 (267)
T cd06283 19 KGIEDVCRAHGYQVLVCNS---D--NDPEKEKEYLESLLAYQVDGLIVNPTGNNKELYQRLAK---NGKPVVLVDRKI-- 88 (267)
T ss_pred HHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCcCEEEEeCCCCChHHHHHHhc---CCCCEEEEcCCC--
Confidence 4566777788988754321 1 122211222222 257999999875422222333333 367899998643
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC--------chhHHHHHHhCCCeeeEEeeec
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~~~vY~ 211 (263)
... ++.. +..+. ..+..+++.|.+. ..++++++.|... ..-+.+.+++.|..+....+..
T Consensus 89 --~~~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~l~~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~ 157 (267)
T cd06283 89 --PEL------GVDT-VTLDNYEAAKEAVDHLIEK--GYERILFVTEPLDEISPRMERYEGFKEALAEHGIGVNEELIEI 157 (267)
T ss_pred --CCC------CCCE-EEeccHHHHHHHHHHHHHc--CCCcEEEEecCccccccHHHHHHHHHHHHHHcCCCCCcceeEe
Confidence 123 3332 22222 3456666777654 3478888876543 1334566777775432222211
Q ss_pred cccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 212 TEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.........+ +.+.+ ..+++|+.++...+. .+++.+.+.. ..++.|++++
T Consensus 158 ~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~vp~di~v~g~d 214 (267)
T cd06283 158 DDEDADELDERLRQLLNKPKKKTAIFAANGLILL-EVLKALKELGIRIPEDVGLIGFD 214 (267)
T ss_pred cccchHHHHHHHHHHHcCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCccceEEEEeC
Confidence 1111111112 22222 258999999988777 7777665543 2356677665
No 35
>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=96.06 E-value=0.16 Score=43.79 Aligned_cols=180 Identities=8% Similarity=0.027 Sum_probs=93.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (263)
..+.+.+++.|+++.....-. .....+.+...+ ....+|.||+.+...-....+.+.+ .++++++++.....
T Consensus 24 ~~~~~~~~~~g~~~~~~~~~~--~~~~~~~~~~~~-~~~~~dgiii~~~~~~~~~~~~~~~---~~ipvV~~~~~~~~-- 95 (270)
T cd06294 24 RGISAVANENGYDISLATGKN--EEELLEEVKKMI-QQKRVDGFILLYSREDDPIIDYLKE---EKFPFVVIGKPEDD-- 95 (270)
T ss_pred HHHHHHHHHCCCEEEEecCCC--cHHHHHHHHHHH-HHcCcCEEEEecCcCCcHHHHHHHh---cCCCEEEECCCCCC--
Confidence 345667788898876432110 000012233333 2246899999865433344444443 36789999853211
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeE-Eeeeccc
Q 024727 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVR-LNTYTTE 213 (263)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~-~~vY~~~ 213 (263)
.. ++.. +..+. .....+++.|.+. ..++++++.|.... .-+.+.+++.|..... +..+. .
T Consensus 96 -~~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~-~ 164 (270)
T cd06294 96 -KE------NITY-VDNDNIQAGYDATEYLIKL--GHKKIAFVGGDLDLEVTQDRLQGYKQALEDHGIPDRNEVIISL-D 164 (270)
T ss_pred -CC------CCCe-EEECcHHHHHHHHHHHHHc--CCccEEEecCCcccHHHHHHHHHHHHHHHHcCCCCCcceEEec-C
Confidence 02 2221 22233 3345666667665 35799999886552 2345667777753322 11111 1
Q ss_pred cCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC---CCceEEEEC
Q 024727 214 PVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ---WSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~---~~~~i~~IG 262 (263)
.......+ +.+.+ .++|+|+..+...+. .++..+.+... .++.+++++
T Consensus 165 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~al~~~g~~iP~dv~vig~d 219 (270)
T cd06294 165 FSEEGGYKALKKLLEQHPRPTAIVATDDLLAL-GVLKVLNELGLKVPEDLSIIGFN 219 (270)
T ss_pred CchHHHHHHHHHHHhCCCCCCEEEECChHHHH-HHHHHHHHcCCCCCcceEEEeeC
Confidence 11111112 22323 258999999987777 77666654432 356666654
No 36
>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=96.05 E-value=0.15 Score=43.97 Aligned_cols=180 Identities=10% Similarity=0.001 Sum_probs=91.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGT 138 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~--~aV~~~~~~l~~~~~~~~~i~aVG~~T 138 (263)
..+.+.++++|+++...+. ..-++ .+.++..+ -..+|+||+.+. ......+..+.+. ++++++++...
T Consensus 19 ~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~l~~~~--~~~vdgii~~~~~~~~~~~~i~~~~~~---~ipvV~~~~~~ 90 (273)
T cd06305 19 AGTKAEAEALGGDLRVYDA---GGDDAKQADQIDQAI--AQKVDAIIIQHGRAEVLKPWVKRALDA---GIPVVAFDVDS 90 (273)
T ss_pred HHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHH--HcCCCEEEEecCChhhhHHHHHHHHHc---CCCEEEecCCC
Confidence 3456778889998776432 11111 12233333 247999999764 3444455555543 57888887543
Q ss_pred HHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc------hhHHHHHHhCC-CeeeEEeee
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS------NEIEEGLSNRG-FEVVRLNTY 210 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~------~~L~~~L~~~G-~~v~~~~vY 210 (263)
.. . ++.. +..+. ..+...++.|.+.....++|.++.|.... .-+.+.+++.| +.+......
T Consensus 91 ~~----~------~~~~-V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~ 159 (273)
T cd06305 91 DN----P------KVNN-TTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPLDRRYDVWQAVLKAYPGIKEVAELGD 159 (273)
T ss_pred CC----C------ccce-eeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchHHHHHHHHHHHHHHCCCcEEeccccc
Confidence 11 2 3322 22222 23444556666543234789988765221 24455666666 443221111
Q ss_pred ccccCCCCh-HHHHHHh---CCC--CEEEEeCHHHHHHHHHHhccccCCC-CceEEEEC
Q 024727 211 TTEPVHHVD-QTVLKQA---LSI--PVVAVASPSAVRSSWVNLISDTEQW-SNSVACIA 262 (263)
Q Consensus 211 ~~~~~~~~~-~~~~~~l---~~~--d~vvFtS~s~v~~~~~~~~~~~~~~-~~~i~~IG 262 (263)
......... +.+.+.+ .++ ++|+..+...+. ..+..+.+.... ++.+++++
T Consensus 160 ~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~~di~iig~d 217 (273)
T cd06305 160 VSNNTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAK-GAKQALDEAGRTDEIKIYGVD 217 (273)
T ss_pred ccccchhHHHHHHHHHHHHCCCcccCeEEEcChhhhH-HHHHHHHHcCCCCCceEEEec
Confidence 111111111 1222222 246 888888877777 666666554322 56666554
No 37
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=96.04 E-value=0.14 Score=46.83 Aligned_cols=180 Identities=9% Similarity=0.027 Sum_probs=106.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (263)
..+.+.++++|+++...+.-... +...+..+.+ ....+|.||+.+...-+.+.+.+.+. +++++.+|....
T Consensus 78 ~gi~~~~~~~gy~~~l~~~~~~~--~~e~~~~~~l-~~~~vdGiIi~~~~~~~~~~~~l~~~---~~P~V~i~~~~~--- 148 (333)
T COG1609 78 KGIEEAAREAGYSLLLANTDDDP--EKEREYLETL-LQKRVDGLILLGERPNDSLLELLAAA---GIPVVVIDRSPP--- 148 (333)
T ss_pred HHHHHHHHHcCCEEEEECCCCCH--HHHHHHHHHH-HHcCCCEEEEecCCCCHHHHHHHHhc---CCCEEEEeCCCc---
Confidence 44566777889998877665411 1111222223 23689999999855555555555554 689999997554
Q ss_pred HHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCee-eEEeeecccc
Q 024727 143 EEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEV-VRLNTYTTEP 214 (263)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v-~~~~vY~~~~ 214 (263)
.. ++.....-...-+..+++.|.+.. .+++.++.|... ..-+.+.|++.|+.+ .........
T Consensus 149 -~~------~~~~V~~Dn~~~~~~a~~~L~~~G--~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~i~~~~~- 218 (333)
T COG1609 149 -GL------GVPSVGIDNFAGAYLATEHLIELG--HRRIAFIGGPLDSSASRERLEGYRAALREAGLPINPEWIVEGDF- 218 (333)
T ss_pred -cC------CCCEEEEChHHHHHHHHHHHHHCC--CceEEEEeCCCccccHhHHHHHHHHHHHHCCCCCCcceEEecCC-
Confidence 33 454433222234455667776643 478999999742 245678888999886 333332222
Q ss_pred CCCCh-HHHHHHh---CC-CCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 215 VHHVD-QTVLKQA---LS-IPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 215 ~~~~~-~~~~~~l---~~-~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
..... +.+.+.+ .. +++|+..|-..+- ..++.+.+.. ..++.|++++
T Consensus 219 ~~~~g~~~~~~ll~~~~~~ptAif~~nD~~Al-g~l~~~~~~g~~vP~disviGfD 273 (333)
T COG1609 219 SEESGYEAAERLLARGEPRPTAIFCANDLMAL-GALRALRELGLRVPEDLSVIGFD 273 (333)
T ss_pred ChHHHHHHHHHHHhcCCCCCcEEEEcCcHHHH-HHHHHHHHcCCCCCCeeEEEEec
Confidence 22222 2233333 24 8999999998888 8877665443 2245565543
No 38
>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=96.02 E-value=0.13 Score=44.56 Aligned_cols=182 Identities=10% Similarity=0.051 Sum_probs=94.0
Q ss_pred HHHHHHHh-CCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 64 KLIKALAK-HRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 64 ~l~~~L~~-~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
.+.+.+++ .|+++........ +-...+.++..+ ....|++|+.+.. .....+..+.+ .+++++.+|.....
T Consensus 20 gi~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~~l~--~~~vdgiii~~~~~~~~~~~~~~l~~---~~iPvv~~~~~~~~ 93 (272)
T cd06301 20 AMKEHAKVLGGVELQFEDAKND-VATQLSQVENFI--AQGVDAIIVVPVDTAATAPIVKAANA---AGIPLVYVNRRPEN 93 (272)
T ss_pred HHHHHHHHcCCcEEEEeCCCCC-HHHHHHHHHHHH--HcCCCEEEEecCchhhhHHHHHHHHH---CCCeEEEecCCCCC
Confidence 45556667 7877776433110 000011223322 2478999987653 23444444444 36789998864321
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeecc
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
. .. ++.. +..+. ..+..+++.|.+.....++++++.|.... .-+.+.|++.| ++....++..
T Consensus 94 ~--~~------~~~~-V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~-~~~~~~~~~~ 163 (272)
T cd06301 94 A--PK------GVAY-VGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEEVLAKYP-DIKVVEEQTA 163 (272)
T ss_pred C--CC------eeEE-EecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHHHHHHCC-CcEEEecCCC
Confidence 1 12 3322 22232 33455666666642223689999886532 44566777777 3333333322
Q ss_pred ccCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC--CCceEEEEC
Q 024727 213 EPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ--WSNSVACIA 262 (263)
Q Consensus 213 ~~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~--~~~~i~~IG 262 (263)
....... +.+.+.+ .++++|+..+...+. ..++.+.+... .++.|++++
T Consensus 164 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 164 NWSRAEAMDLMENWLSSGGKIDAVVANNDEMAL-GAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred CccHHHHHHHHHHHHHhCCCCCEEEECCCchHH-HHHHHHHHcCCCCCCcEEEeeC
Confidence 2111111 1222222 357999888887777 66666654432 267777764
No 39
>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=95.99 E-value=0.16 Score=43.57 Aligned_cols=174 Identities=16% Similarity=0.116 Sum_probs=91.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++|+++...+.- ..++ .+.++..+ ...+|++|+++...-......+.+. +++++.+|....
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~---~~~~~~~~~i~~l~--~~~~dgii~~~~~~~~~~~~~~~~~---~ipvv~~~~~~~- 89 (259)
T cd01542 19 KGILAALYENGYQMLLMNTN---FSIEKEIEALELLA--RQKVDGIILLATTITDEHREAIKKL---NVPVVVVGQDYP- 89 (259)
T ss_pred HHHHHHHHHCCCEEEEEeCC---CCHHHHHHHHHHHH--hcCCCEEEEeCCCCCHHHHHHHhcC---CCCEEEEeccCC-
Confidence 34556777889887654321 1111 11233322 3689999998754333344444433 578999985321
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC--------chhHHHHHHhCCCeeeEEeeec
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~~~vY~ 211 (263)
. +.. +..+. ..+..+++.|.+. ..+++.++.+... ..-+.+.+++.|. ....++.
T Consensus 90 ----~-------~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~~~~~--~~~~~~~ 153 (259)
T cd01542 90 ----G-------ISS-VVYDDYGAGYELGEYLAQQ--GHKNIAYLGVSESDIAVGILRKQGYLDALKEHGI--CPPNIVE 153 (259)
T ss_pred ----C-------CCE-EEECcHHHHHHHHHHHHHc--CCCcEEEEcCCcccchhHHHHHHHHHHHHHHcCC--ChHHeee
Confidence 2 221 22222 3345566777663 3478998865421 1335567777776 1222332
Q ss_pred cccCCCChHH-HHHHhC-C-CCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 212 TEPVHHVDQT-VLKQAL-S-IPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~~~~-~~~~l~-~-~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.........+ +.+.+. . +++|+.++...+. .+++.+.+.. ..++.++++|
T Consensus 154 ~~~~~~~~~~~~~~~l~~~~~~~i~~~~d~~a~-g~~~~l~~~g~~vp~di~v~g~d 209 (259)
T cd01542 154 TDFSYESAYEAAQELLEPQPPDAIVCATDTIAL-GAMKYLQELGRRIPEDISVAGFG 209 (259)
T ss_pred ccCchhhHHHHHHHHhcCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCCceEEEecC
Confidence 2221122222 222232 3 7999999977777 7776665443 2356666655
No 40
>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=95.89 E-value=0.33 Score=41.79 Aligned_cols=177 Identities=9% Similarity=0.027 Sum_probs=96.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
.+.+.+++.|+++....... +.+...+.+. ....+|.|++.+.+.-......+.+ .++++++++....
T Consensus 20 ~~~~~~~~~g~~~~~~~~~~-----~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~---~~ipvV~~~~~~~-- 89 (264)
T cd06274 20 RLEALARERGYQLLIACSDD-----DPETERETVETLIARQVDALIVAGSLPPDDPYYLCQK---AGLPVVALDRPGD-- 89 (264)
T ss_pred HHHHHHHHCCCEEEEEeCCC-----CHHHHHHHHHHHHHcCCCEEEEcCCCCchHHHHHHHh---cCCCEEEecCccC--
Confidence 44566778898887654321 1111112221 1257999998875421111333333 3678999976532
Q ss_pred HHHhhhhcCCCCceeecCCCCC-HHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSKAT-GKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
.. ++.. +..+.+. +..+++.+.+. ..++++++.|.... .-+.+.++++|..+....++...
T Consensus 90 --~~------~~~~-V~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~ 158 (264)
T cd06274 90 --PS------RFPS-VVSDNRDGAAELTRELLAA--PPEEVLFLGGLPELSPSRERLAGFRQALADAGLPVQPDWIYAEG 158 (264)
T ss_pred --CC------CCCE-EEEccHHHHHHHHHHHHHC--CCCcEEEEeCCCcccchHHHHHHHHHHHHHcCCCCCcceeecCC
Confidence 22 3332 2233333 35556666653 34789999886542 33455677787665444444433
Q ss_pred cCCCChHH-HHHHh----CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVDQT-VLKQA----LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~~~-~~~~l----~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.......+ +.+.+ ..+++|+..+...+. .+.+.+.+.. ..++.|++++
T Consensus 159 ~~~~~~~~~~~~~l~~~~~~~~ai~~~~d~~A~-g~~~al~~~g~~ip~dv~v~g~d 214 (264)
T cd06274 159 YSPESGYQLMAELLARLGRLPRALFTTSYTLLE-GVLRFLRERPGLAPSDLRIATFD 214 (264)
T ss_pred CChHHHHHHHHHHHccCCCCCcEEEEcChHHHH-HHHHHHHHcCCCCCcceEEEEeC
Confidence 22222222 22222 247899999988887 7777776543 2467887776
No 41
>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=95.89 E-value=0.25 Score=42.45 Aligned_cols=178 Identities=10% Similarity=-0.021 Sum_probs=94.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (263)
.+.+.+++.|+++...+...-. ....+.++..+ ...+|.||+++...-. ....... .+.+++.+|..+..
T Consensus 21 ~i~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~l~--~~~~dgiii~~~~~~~-~~~~~~~---~~ipvv~~~~~~~~--- 90 (269)
T cd06288 21 GAQDAAREHGYLLLVVNTGGDD-ELEAEAVEALL--DHRVDGIIYATMYHRE-VTLPPEL---LSVPTVLLNCYDAD--- 90 (269)
T ss_pred HHHHHHHHCCCEEEEEeCCCCH-HHHHHHHHHHH--HcCCCEEEEecCCCCh-hHHHHHh---cCCCEEEEecccCC---
Confidence 4556677889887655322110 00001122222 2578999998753211 1111221 36789888865421
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccC
Q 024727 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
. .+.. +.++. ..+..+++.+.+. ..++++++.+.... .-+.+.+++.|.++....++.....
T Consensus 91 -~------~~~~-v~~d~~~~~~~a~~~l~~~--g~~~i~~l~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~ 160 (269)
T cd06288 91 -G------ALPS-VVPDEEQGGYDATRHLLAA--GHRRIAFINGEPWMLAAKDRLKGYRQALAEAGIPFDPDLVVHGDWS 160 (269)
T ss_pred -C------CCCe-EEEccHHHHHHHHHHHHHc--CCceEEEEeCCccchhHHHHHHHHHHHHHHcCCCCCHHHeEeCCCC
Confidence 2 3332 23333 3456666677664 34789999876542 2345567777766543333332222
Q ss_pred CCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 216 HHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 216 ~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.... ..+.+.+ .++|+|+.+|...+. .+++.+.+.. ..++.+++++
T Consensus 161 ~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-~~~~~l~~~g~~vp~di~v~g~d 213 (269)
T cd06288 161 ADDGYEAAAALLDLDDRPTAIFCGNDRMAM-GAYQALLERGLRIPQDVSVVGFD 213 (269)
T ss_pred hHHHHHHHHHHHhCCCCCCEEEEeCcHHHH-HHHHHHHHcCCCCcccceEEeeC
Confidence 1111 1222323 358999999998887 7777766543 2466777665
No 42
>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=95.85 E-value=0.22 Score=43.56 Aligned_cols=175 Identities=11% Similarity=0.063 Sum_probs=96.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (263)
..+.+.+++.|+++...+... +.+.++..+ ...+|++|+++.......++.+.. .+++++++|....
T Consensus 24 ~gi~~~a~~~g~~~~~~~~~~-----~~~~~~~~~--~~~~dgiii~~~~~~~~~~~~~~~---~~ipvV~~~~~~~--- 90 (283)
T cd06279 24 AGVAEVLDAAGVNLLLLPASS-----EDSDSALVV--SALVDGFIVYGVPRDDPLVAALLR---RGLPVVVVDQPLP--- 90 (283)
T ss_pred HHHHHHHHHCCCEEEEecCcc-----HHHHHHHHH--hcCCCEEEEeCCCCChHHHHHHHH---cCCCEEEEecCCC---
Confidence 345677888999988775432 122233222 367999999875332233444443 3678998885421
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC------------------------chhHHHHH
Q 024727 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA------------------------SNEIEEGL 197 (263)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~------------------------~~~L~~~L 197 (263)
. ++.. +..+. ..+...++.|.+. ..+++.++.+... ..-+.+.+
T Consensus 91 --~------~~~~-v~~d~~~~g~~~~~~L~~~--g~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~ 159 (283)
T cd06279 91 --P------GVPS-VGIDDRAAAREAARHLLDL--GHRRIGILGLRLGRDRNTGRVTDERLASATFSVARERLEGYLEAL 159 (283)
T ss_pred --C------CCCE-EeeCcHHHHHHHHHHHHHc--CCCcEEEecCcccccccccccccccccccccccHHHHHHHHHHHH
Confidence 2 3322 22332 3345556666654 3478898876421 13355677
Q ss_pred HhCCCeeeEEeeeccccCC-CChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 198 SNRGFEVVRLNTYTTEPVH-HVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 198 ~~~G~~v~~~~vY~~~~~~-~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
++.|..+....+|...... ....+ +.+.+ ..+++|+..+...+. ...+.+.+.. ..++.+++++
T Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-gv~~al~~~g~~ip~di~vig~d 231 (283)
T cd06279 160 EEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTAILCMSDVLAL-GALQVARELGLRVPEDLSVVGFD 231 (283)
T ss_pred HHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcEEEECCcHHHH-HHHHHHHHcCCCCCCceEEeeeC
Confidence 7888765554454321111 11112 22222 257888888877666 6666655433 2467777775
No 43
>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=95.79 E-value=0.18 Score=43.43 Aligned_cols=176 Identities=11% Similarity=0.046 Sum_probs=93.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++|+.+...+.. .+.+...+.++ ....+|.|++.+...-...+..+.+. +++++++|....
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~-----~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~~~~~~~~---~iPvv~~~~~~~- 89 (265)
T cd06285 19 EGIEEAAAERGYSTFVANTG-----DNPDAQRRAIEMLLDRRVDGLILGDARSDDHFLDELTRR---GVPFVLVLRHAG- 89 (265)
T ss_pred HHHHHHHHHCCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHc---CCCEEEEccCCC-
Confidence 35666778889876533221 12111112221 13579999987644322333434332 678999986431
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeecc
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
.. .. +..+. ..+...++.|.+. ..+++.++.|.... .-+.+.+++.|..+....++..
T Consensus 90 ---~~--------~~-V~~d~~~ag~~a~~~L~~~--g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~ 155 (265)
T cd06285 90 ---TS--------PA-VTGDDVLGGRLATRHLLDL--GHRRIAVLAGPDYASTARDRLAGFRAALAEAGIEVPPERIVYS 155 (265)
T ss_pred ---CC--------CE-EEeCcHHHHHHHHHHHHHC--CCccEEEEeCCcccccHHHHHHHHHHHHHHcCCCCChhhEEeC
Confidence 12 11 22222 3345556666654 34789999876542 3345566777776543222222
Q ss_pred ccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 213 EPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 213 ~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
........+ +.+.+ ..+++|+.++...+. .+++.+.+.. ..++.+++++
T Consensus 156 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~~p~di~iig~d 211 (265)
T cd06285 156 GFDIEGGEAAAEKLLRSDSPPTAIFAVNDFAAI-GVMGAARDRGLRVPDDVALVGYN 211 (265)
T ss_pred CCCHHHHHHHHHHHHcCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCcceEEEeec
Confidence 111111112 22222 257999999999888 7777776543 2356666654
No 44
>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=95.79 E-value=0.25 Score=42.51 Aligned_cols=181 Identities=10% Similarity=0.065 Sum_probs=93.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a-V~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
..+.+.+++.|+++.......... .....+.+.+ ....+|.||+++.+. ....++.+.+ .+++++.+|.....
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~~-~~~~~~~~~l-~~~~vdgiii~~~~~~~~~~~~~~~~---~~ipvv~i~~~~~~- 92 (270)
T cd01545 19 LGALDACRDTGYQLVIEPCDSGSP-DLAERVRALL-QRSRVDGVILTPPLSDNPELLDLLDE---AGVPYVRIAPGTPD- 92 (270)
T ss_pred HHHHHHHHhCCCeEEEEeCCCCch-HHHHHHHHHH-HHCCCCEEEEeCCCCCccHHHHHHHh---cCCCEEEEecCCCC-
Confidence 345566778898887654322110 0011222323 235789999987642 2333444433 36789988854211
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCch-------hHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKASN-------EIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~~-------~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
. .... +..+.+ .+...++.+.+. ..++++++.|..+.. -+.+.+++.|..+....++...
T Consensus 93 ---~------~~~~-V~~d~~~~g~~a~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~ 160 (270)
T cd01545 93 ---P------DSPC-VRIDDRAAAREMTRHLIDL--GHRRIAFIAGPPDHRASAERLEGYRDALAEAGLPLDPELVAQGD 160 (270)
T ss_pred ---C------CCCe-EEeccHHHHHHHHHHHHHC--CCceEEEEeCCCCchhHHHHHHHHHHHHHHcCCCCChhhEEeCC
Confidence 2 2221 222322 335555666554 357899988765432 2445566777665322222211
Q ss_pred cCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
...... +.+.+.+ .++++|+.++...+. .+++.+.+.. ..++.+++++
T Consensus 161 ~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~-~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 161 FTFESGLEAAEALLALPDRPTAIFASNDDMAA-GVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred CChhhHHHHHHHHHhCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCCceEEEEEC
Confidence 111111 2222223 358999988887777 7777665543 2345565553
No 45
>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=95.70 E-value=0.15 Score=44.09 Aligned_cols=180 Identities=11% Similarity=0.020 Sum_probs=94.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchH-HHHHHhcCCCccEEEEeCHH-----HHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDR-LSSVLNADTIFDWIIITSPE-----AGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~-l~~~l~~l~~~d~IiFTS~~-----aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
..+.+.+++.|+++...+...-. +...+ ++..+ ...+|+||+++.. +....+..+.+ .+++++++|.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~--~~~~~~i~~l~--~~~vdgiIi~~~~~~~~~~~~~~i~~~~~---~~ipvV~i~~ 91 (273)
T cd06292 19 EAIEAALAQYGYTVLLCNTYRGG--VSEADYVEDLL--ARGVRGVVFISSLHADTHADHSHYERLAE---RGLPVVLVNG 91 (273)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCh--HHHHHHHHHHH--HcCCCEEEEeCCCCCcccchhHHHHHHHh---CCCCEEEEcC
Confidence 35666777889887643321100 01111 22222 2579999987532 22233343433 3688999986
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEe
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLN 208 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~ 208 (263)
.... .. .+.. +..+. .....+++.|.+. ..++++++.|... ..-+.+.++++|..+....
T Consensus 92 ~~~~---~~------~~~~-V~~d~~~~~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~ 159 (273)
T cd06292 92 RAPP---PL------KVPH-VSTDDALAMRLAVRHLVAL--GHRRIGFASGPGRTVPRRRKIAGFRAALEEAGLEPPEAL 159 (273)
T ss_pred CCCC---CC------CCCE-EEECcHHHHHHHHHHHHHC--CCceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCChhh
Confidence 4321 12 3332 22222 3445556666654 3478998877543 2334556777776543322
Q ss_pred eeccccCCCChHHHHHH-h-CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 209 TYTTEPVHHVDQTVLKQ-A-LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 209 vY~~~~~~~~~~~~~~~-l-~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
++..........+..+. + ..+++|+..+...+. .+++.+.+.. ..++.+++++
T Consensus 160 i~~~~~~~~~~~~~~~~~l~~~~~ai~~~~d~~a~-g~~~~l~~~g~~ip~di~ii~~d 217 (273)
T cd06292 160 VARGMFSVEGGQAAAVELLGSGPTAIVAASDLMAL-GAIRAARRRGLRVPEDVSVVGYD 217 (273)
T ss_pred eEeCCCCHHHHHHHHHHHhcCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCcceEEEeeC
Confidence 32222211112222222 2 348998888887777 7777665543 2467777765
No 46
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=95.69 E-value=0.13 Score=44.65 Aligned_cols=184 Identities=14% Similarity=0.073 Sum_probs=94.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH--HHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA--GSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a--V~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++|+++...+...... ...+.++..+ ...+|+||+.+.+. ....++.+.+. +++++.++..-..
T Consensus 19 ~~~~~~a~~~g~~~~~~~~~~~~~-~~~~~i~~l~--~~~vdgiIi~~~~~~~~~~~i~~~~~~---~iPvV~~~~~~~~ 92 (273)
T cd06309 19 KSIKDAAEKRGFDLKFADAQQKQE-NQISAIRSFI--AQGVDVIILAPVVETGWDPVLKEAKAA---GIPVILVDRGVDV 92 (273)
T ss_pred HHHHHHHHhcCCEEEEeCCCCCHH-HHHHHHHHHH--HcCCCEEEEcCCccccchHHHHHHHHC---CCCEEEEecCcCC
Confidence 456677788999998765432100 0011233332 25799999976542 24445555443 6788888852110
Q ss_pred HHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCC-CeeeEEeeec
Q 024727 141 IFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRG-FEVVRLNTYT 211 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G-~~v~~~~vY~ 211 (263)
.... .....+..+.+ .+..+++.|.+.....++++++.|.... .-+.+.|++++ ..+. .++.
T Consensus 93 -~~~~------~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~--~~~~ 163 (273)
T cd06309 93 -KDDS------LYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAEVIKKYPNMKIV--ASQT 163 (273)
T ss_pred -ccCc------ceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHHHHHHCCCCEEe--eccC
Confidence 0001 11111233333 2344556666543335789999876542 34566777653 3322 2222
Q ss_pred cccCCCChHH-HHHHh---C-CCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 212 TEPVHHVDQT-VLKQA---L-SIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~~~~-~~~~l---~-~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.........+ +.+.+ . .+++|+.++...+. ...+.+.+.. ..++.+++++
T Consensus 164 ~~~~~~~~~~~~~~~l~~~~~~~~aI~~~~d~~a~-g~~~a~~~~g~~ip~di~iig~d 221 (273)
T cd06309 164 GDFTRAKGKEVMEALLKAHGDDIDAVYAHNDEMAL-GAIQAIKAAGKKPGKDIKIVSID 221 (273)
T ss_pred CcccHHHHHHHHHHHHHhCCCCccEEEECCcHHHH-HHHHHHHHcCCCCCCCeEEEecC
Confidence 2111111111 22222 2 57898888878777 6766665443 2467777765
No 47
>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=95.65 E-value=0.52 Score=42.17 Aligned_cols=176 Identities=14% Similarity=0.076 Sum_probs=92.8
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (263)
+.+.++++|+++.....- .+.+.....++ ....+|.||+.+...-......+.+. +++++.+|...
T Consensus 81 i~~~~~~~g~~~~i~~~~-----~~~~~~~~~~~~l~~~~vdGiIi~~~~~~~~~~~~l~~~---~iPvV~~~~~~---- 148 (329)
T TIGR01481 81 IEDIATMYKYNIILSNSD-----EDPEKEVQVLNTLLSKQVDGIIFMGGTITEKLREEFSRS---PVPVVLAGTVD---- 148 (329)
T ss_pred HHHHHHHcCCEEEEEeCC-----CCHHHHHHHHHHHHhCCCCEEEEeCCCCChHHHHHHHhc---CCCEEEEecCC----
Confidence 445566788877653211 12111112221 12579999987643223333434333 57888887532
Q ss_pred HHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc--------hhHHHHHHhCCCeeeEEeeeccc
Q 024727 143 EEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS--------NEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~--------~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
... ++.. +..+.+ .+..+++.|.+. ..++|.++.|.... .-+.+.|+++|..+....++...
T Consensus 149 ~~~------~~~~-V~~D~~~~~~~a~~~L~~~--G~~~I~~i~g~~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~~~ 219 (329)
T TIGR01481 149 KEN------ELPS-VNIDYKQATKEAVGELIAK--GHKSIAFVGGPLSDSINGEDRLEGYKEALNKAGIQFGEDLVCEGK 219 (329)
T ss_pred CCC------CCCE-EEECcHHHHHHHHHHHHHC--CCCeEEEEecCcccccchHHHHHHHHHHHHHcCCCCCcceEEecC
Confidence 122 3332 333333 234455666553 34789998765421 23456778888876544333322
Q ss_pred cCCCChHHHHHH-h-CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVDQTVLKQ-A-LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~~~~~~~-l-~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.......+..+. + ..+++|+..+-..+. .+++.+.+.. ..++.|++++
T Consensus 220 ~~~~~~~~~~~~ll~~~p~ai~~~~d~~A~-g~~~al~~~g~~vP~dvsvvgfd 272 (329)
T TIGR01481 220 YSYDAGYKAFAELKGSLPTAVFVASDEMAA-GILNAAMDAGIKVPEDLEVITSN 272 (329)
T ss_pred CChHHHHHHHHHHhCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCCceEEEeeC
Confidence 211112222222 2 357999998888777 6776665543 2467777664
No 48
>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=95.62 E-value=0.37 Score=41.75 Aligned_cols=177 Identities=8% Similarity=-0.017 Sum_probs=93.7
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc----hHHHHHHhcCCCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT----DRLSSVLNADTIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~----~~l~~~l~~l~~~d~IiFTS~--~aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
..+.+.++++|+++.....-. ..+. +.++..+ ...+|+||+... ..+...++.+.+. +++++.+|.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~---~~~~~~~~~~i~~l~--~~~vdgiIi~~~~~~~~~~~~~~~~~~---~iPvV~~~~ 90 (275)
T cd06320 19 EGYENEAKKLGVSVDIQAAPS---EGDQQGQLSIAENMI--NKGYKGLLFSPISDVNLVPAVERAKKK---GIPVVNVND 90 (275)
T ss_pred HHHHHHHHHhCCeEEEEccCC---CCCHHHHHHHHHHHH--HhCCCEEEECCCChHHhHHHHHHHHHC---CCeEEEECC
Confidence 345677788898877543211 0111 1122332 246899888653 2334444555443 678999986
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhC-CCeeeEE
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNR-GFEVVRL 207 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~-G~~v~~~ 207 (263)
... .. ... .+..+.+ .+..+++.+.+.....++++++.|... ..-+.+.+++. |+++...
T Consensus 91 ~~~----~~------~~~-~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~ 159 (275)
T cd06320 91 KLI----PN------ATA-FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTEAIKKASGIEVVAS 159 (275)
T ss_pred CCC----Cc------cce-EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHhhCCCcEEEEe
Confidence 421 11 221 1223333 345556666654323468999887433 14466778888 8776432
Q ss_pred eeeccccCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEE
Q 024727 208 NTYTTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACI 261 (263)
Q Consensus 208 ~vY~~~~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~I 261 (263)
..+. ...... +.+.+.+ .++++|+..+...+. .+.+.+.+... .++.++++
T Consensus 160 ~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-~~~~al~~~g~~~di~vig~ 215 (275)
T cd06320 160 QPAD--WDREKAYDVATTILQRNPDLKAIYCNNDTMAL-GVVEAVKNAGKQGKVLVVGT 215 (275)
T ss_pred cCCC--ccHHHHHHHHHHHHHhCCCccEEEECCchhHH-HHHHHHHhcCCCCCeEEEec
Confidence 2111 111111 1222222 368899888888777 77777654432 24555554
No 49
>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=95.61 E-value=0.34 Score=41.89 Aligned_cols=175 Identities=11% Similarity=0.057 Sum_probs=93.8
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~a-V~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
.+.+.+++.|.++...... .+.+.....++. -..+|++|+.+... ...+.+.+.+. +++++.+|....
T Consensus 20 ~i~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~---~ipvV~i~~~~~- 90 (269)
T cd06281 20 GAEDRLRAAGYSLLIANSL-----NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALASL---DLPIVLLDRDMG- 90 (269)
T ss_pred HHHHHHHHcCCEEEEEeCC-----CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhC---CCCEEEEecccC-
Confidence 4556778889887754321 122111122211 25789999877532 13344444443 678999986532
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeecc
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
. ++.. +..+. ..+..+++.|.+. ..++++++.|.... .-+.+.++++|..+....+|..
T Consensus 91 ----~------~~~~-V~~d~~~~g~~a~~~l~~~--G~~~i~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~ 157 (269)
T cd06281 91 ----G------GADA-VLFDHAAGMRQAVEYLISL--GHRRIALVGGGSNTRPGRERLEGYKAAFAAAGLPPDPALVRLS 157 (269)
T ss_pred ----C------CCCE-EEECcHHHHHHHHHHHHHC--CCcEEEEecCccccccHHHHHHHHHHHHHHcCCCCCHHHeecC
Confidence 2 3322 22233 2335556666654 34789999885431 3345677788876532222222
Q ss_pred ccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 213 EPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 213 ~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.. .....+ +.+.+ ..+|+|+.+|...+. .+++.+.+.. ..++.+++.|
T Consensus 158 ~~-~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~ip~dv~iig~d 212 (269)
T cd06281 158 TP-AASGFDATRALLALPDRPTAIIAGGTQVLV-GVLRALREAGLRIPRDLSVISIG 212 (269)
T ss_pred cH-HHHHHHHHHHHHcCCCCCcEEEEcCcHHHH-HHHHHHHHcCCCCCcceeEEEec
Confidence 11 111112 22223 258999988888777 7777665543 2356777765
No 50
>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=95.57 E-value=0.86 Score=38.99 Aligned_cols=176 Identities=11% Similarity=0.107 Sum_probs=92.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~Ta 139 (263)
.+.+.++++|+++...+. . .+.+...+.++. ...+|.+++.+.. ... .++.+.. .+++++.++....
T Consensus 20 g~~~~a~~~g~~~~~~~~---~--~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~-~~~~~~~---~~ipvV~~~~~~~ 90 (268)
T cd06289 20 GLEEVLEEAGYTVFLANS---G--EDVERQEQLLSTMLEHGVAGIILCPAAGTSPD-LLKRLAE---SGIPVVLVAREVA 90 (268)
T ss_pred HHHHHHHHcCCeEEEecC---C--CChHHHHHHHHHHHHcCCCEEEEeCCCCccHH-HHHHHHh---cCCCEEEEeccCC
Confidence 445667788887654321 1 122211122222 2578999987642 333 3343433 3678888874321
Q ss_pred HHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeeec
Q 024727 140 SIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY~ 211 (263)
. . ++.. +..+.+ .+...++.+.+. ..++++++.+... .+-+.+.+++.|.++....++.
T Consensus 91 ~----~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~l~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~ 157 (268)
T cd06289 91 G----A------PFDY-VGPDNAAGARLATEHLISL--GHRRIAFIGGLEDSSTRRERLAGYRAALAEAGLPFDSELVVE 157 (268)
T ss_pred C----C------CCCE-EeecchHHHHHHHHHHHHC--CCCCEEEecCCccccchHHHHHHHHHHHHHcCCCCCchhEEe
Confidence 1 2 2222 223332 345555666554 3478999877543 2445567777776544433332
Q ss_pred cccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC---CCceEEEEC
Q 024727 212 TEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ---WSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~---~~~~i~~IG 262 (263)
.........+ +.+.+ ..+|+|+.++...+. .+.+.+++... .++.+++++
T Consensus 158 ~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~-~~~~al~~~g~~~p~di~iig~d 214 (268)
T cd06289 158 GPPSRQGGAEAVAQLLDLPPRPTAIVCFNDLVAF-GAMSGLRRAGLTPGRDIAVVGFD 214 (268)
T ss_pred cCcchhhHHHHHHHHHcCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCcceEEEeec
Confidence 2221222222 22323 368999999998887 77777765432 356777664
No 51
>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=95.54 E-value=0.31 Score=41.81 Aligned_cols=177 Identities=11% Similarity=0.021 Sum_probs=92.7
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
..+.+.++++|+++.....-.- ..... +.++..+ -..+|++++.+...-........+ .+++++++|....
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~--~~~vdgiii~~~~~~~~~~~~~~~---~~ipvv~~~~~~~-- 90 (264)
T cd01574 19 AAIESAAREAGYAVTLSMLAEA-DEEALRAAVRRLL--AQRVDGVIVNAPLDDADAALAAAP---ADVPVVFVDGSPS-- 90 (264)
T ss_pred HHHHHHHHHCCCeEEEEeCCCC-chHHHHHHHHHHH--hcCCCEEEEeCCCCChHHHHHHHh---cCCCEEEEeccCC--
Confidence 3466677788888765522110 00111 1122222 257999998765432211222222 3688999986532
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
. ++.. +..+. ..+...++.|.+. ..++++++.|.... .-+.+.+++.|+++... +...
T Consensus 91 ---~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~--~~~~ 156 (264)
T cd01574 91 ---P------RVST-VSVDQEGGARLATEHLLEL--GHRTIAHVAGPEEWLSARARLAGWRAALEAAGIAPPPV--LEGD 156 (264)
T ss_pred ---C------CCCE-EEeCcHHHHHHHHHHHHHC--CCCEEEEEecCCccchHHHHHHHHHHHHHHCCCCccee--eecC
Confidence 2 3322 22332 3345566667664 35789999886542 23566777777765432 2111
Q ss_pred cCCCChHHH-HHHh--CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVDQTV-LKQA--LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~~~~-~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.......+. .+.+ .++|+|+.++...+. .+.+.+.+.. ..++.|+|++
T Consensus 157 ~~~~~~~~~~~~~l~~~~~~ai~~~~d~~a~-g~~~~~~~~g~~ip~~i~ii~~d 210 (264)
T cd01574 157 WSAESGYRAGRELLREGDPTAVFAANDQMAL-GVLRALHELGLRVPDDVSVVGFD 210 (264)
T ss_pred CCHHHHHHHHHHHHhCCCCcEEEEcCcHHHH-HHHHHHHHcCCCCccceEEeccc
Confidence 111111122 2222 248999888887777 6766665443 2366777765
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=95.51 E-value=0.51 Score=40.57 Aligned_cols=178 Identities=9% Similarity=0.018 Sum_probs=92.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
.+.+.+++.|+++...+ .. .+.+...+.++. ...+|+||+++...-......+.. ..+++++++|....
T Consensus 20 gi~~~~~~~g~~~~~~~---~~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~--~~~ipvV~i~~~~~-- 90 (269)
T cd06275 20 GVEQYCYRQGYNLILCN---TE--GDPERQRSYLRMLAQKRVDGLLVMCSEYDQPLLAMLER--YRHIPMVVMDWGPE-- 90 (269)
T ss_pred HHHHHHHHcCCEEEEEe---CC--CChHHHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHh--cCCCCEEEEecccC--
Confidence 34566677898876432 11 122211222221 257899999875322222222222 13688999986432
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
.. ++.. +..+.+ .++.+++.|.+. ..++++++.|.... .-+.+.+++.|.++.....+...
T Consensus 91 --~~------~~~~-V~~d~~~~~~~~~~~l~~~--G~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~ 159 (269)
T cd06275 91 --DD------FADK-IQDNSEEGGYLATRHLIEL--GHRRIGCITGPLEKAPAQQRLAGFRRAMAEAGLPVNPGWIVEGD 159 (269)
T ss_pred --CC------CCCe-EeeCcHHHHHHHHHHHHHC--CCceEEEEeCCCCCccHHHHHHHHHHHHHHcCCCCCHHHhccCC
Confidence 12 2221 222222 335555666654 34789999875542 33566777777765432222221
Q ss_pred cCCCChHH-HHHHhC---CCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVDQT-VLKQAL---SIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~~~-~~~~l~---~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.......+ +.+.+. .+++|+.++...+. .+++.+.+.. ..++.+++++
T Consensus 160 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~vp~di~vvg~d 214 (269)
T cd06275 160 FECEGGYEAMQRLLAQPKRPTAVFCGNDLMAM-GALCAAQEAGLRVPQDLSIIGYD 214 (269)
T ss_pred CChHHHHHHHHHHHcCCCCCcEEEECChHHHH-HHHHHHHHcCCCCCcceEEEEeC
Confidence 11111112 223232 58999999988887 7777665543 2366777765
No 53
>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=95.50 E-value=0.32 Score=41.82 Aligned_cols=176 Identities=10% Similarity=0.004 Sum_probs=93.8
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
.+.+.+++.|+++...+.. .+.+...+.++. -..+|.+|+.+...-......+. .+++++.+|....
T Consensus 20 gi~~~~~~~gy~~~~~~~~-----~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~~~~~~----~~iPvV~i~~~~~-- 88 (265)
T cd06290 20 GMERGLNGSGYSPIIATGH-----WNQSRELEALELLKSRRVDALILLGGDLPEEEILALA----EEIPVLAVGRRVP-- 88 (265)
T ss_pred HHHHHHHHCCCEEEEEeCC-----CCHHHHHHHHHHHHHCCCCEEEEeCCCCChHHHHHHh----cCCCEEEECCCcC--
Confidence 3456677889888765431 122211222222 25689999886432222222221 2688999986421
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
.. ++.. +..+. ..+...++.|.+. ..+++.++.|.... .-+.+.+++.|..+....++...
T Consensus 89 --~~------~~~~-V~~d~~~a~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~ 157 (265)
T cd06290 89 --GP------GAAS-IAVDNFQGGYLATQHLIDL--GHRRIAHITGPRGHIDARDRLAGYRKALEEAGLEVQPDLIVQGD 157 (265)
T ss_pred --CC------CCCE-EEECcHHHHHHHHHHHHHC--CCCeEEEEeCccccchhhHHHHHHHHHHHHcCCCCCHHHEEecC
Confidence 22 3322 22232 2345556666654 34789999876432 23455666777665432222221
Q ss_pred cCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
...... +.+.+.+ .++++|+.++...+. .+++.+.+.. ..++.+++++
T Consensus 158 ~~~~~~~~~~~~~l~~~~~~~aii~~~~~~a~-~~~~~l~~~g~~ip~di~vi~~d 212 (265)
T cd06290 158 FEEESGLEAVEELLQRGPDFTAIFAANDQTAY-GARLALYRRGLRVPEDVSLIGFD 212 (265)
T ss_pred CCHHHHHHHHHHHHcCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCcceEEeeec
Confidence 111111 1223323 257999999988887 7777776543 2467777765
No 54
>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=95.49 E-value=0.22 Score=43.07 Aligned_cols=179 Identities=15% Similarity=0.106 Sum_probs=94.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHHH--HHHHHHHHHHcCCCCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPEA--GSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~a--V~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
..+.+.++++|+++....... ..+.+ .++..+ ...+|++|+.+... ....+..+.. .+++++.++.
T Consensus 19 ~g~~~~~~~~g~~~~~~~~~~---~~~~~~~~~~i~~l~--~~~vdgvii~~~~~~~~~~~l~~~~~---~~ipvV~~~~ 90 (273)
T cd06310 19 AGAEAAAKELGVKVTFQGPAS---ETDVAGQVNLLENAI--ARGPDAILLAPTDAKALVPPLKEAKD---AGIPVVLIDS 90 (273)
T ss_pred HHHHHHHHHcCCEEEEecCcc---CCCHHHHHHHHHHHH--HhCCCEEEEcCCChhhhHHHHHHHHH---CCCCEEEecC
Confidence 345567788898887653211 11211 122222 25799999976432 2333343333 3678888875
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhC-CCeeeEE
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNR-GFEVVRL 207 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~-G~~v~~~ 207 (263)
.... .. .+.. +..+.+ .+..+++.+.+.....++++++.|.... .-+.+.+++. |+++..
T Consensus 91 ~~~~---~~------~~~~-v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~a~~~~~~~~~~~- 159 (273)
T cd06310 91 GLNS---DI------AVSF-VATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLEGLKEYPGIEIVA- 159 (273)
T ss_pred CCCC---Cc------ceEE-EeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEEe-
Confidence 3211 12 2322 233332 3455666666653234789999875432 3455677777 776543
Q ss_pred eeeccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 208 NTYTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 208 ~vY~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
.+..........+ +.+.+ ..+++|++.|...+. .+++.+.+... .++.|++++
T Consensus 160 -~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~-g~~~~l~~~g~~~di~vig~d 217 (273)
T cd06310 160 -TQYSDSDYAKALDITEDLLTANPDLKGIFGANEGSAV-GAARAVRQAGKAGKVKVVGFD 217 (273)
T ss_pred -cccCCcCHHHHHHHHHHHHHhCCCceEEEecCchhHH-HHHHHHHhcCCCCCeEEEEeC
Confidence 2221111111111 22222 257999999888777 77777655432 355666554
No 55
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=95.49 E-value=0.54 Score=37.45 Aligned_cols=113 Identities=21% Similarity=0.244 Sum_probs=74.5
Q ss_pred CCCeEEEeCCCCC-----hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeC-----HHHHHHHH
Q 024727 49 SNPKVVVTRERGK-----NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITS-----PEAGSVFL 118 (263)
Q Consensus 49 ~g~~ILitr~~~~-----~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS-----~~aV~~~~ 118 (263)
.+++|++...... ..-+...|+..|++|+++-.-.. .+++.+...+ .+.|.|..++ ...++.+.
T Consensus 2 ~~~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~vp-----~e~i~~~a~~-~~~d~V~lS~~~~~~~~~~~~~~ 75 (137)
T PRK02261 2 KKKTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGVMTS-----QEEFIDAAIE-TDADAILVSSLYGHGEIDCRGLR 75 (137)
T ss_pred CCCEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCCCC-----HHHHHHHHHH-cCCCEEEEcCccccCHHHHHHHH
Confidence 4667777765432 33567788999999998765321 2334444422 4677777665 33456666
Q ss_pred HHHHHcCCCCcEEEEeChh---------HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccC
Q 024727 119 EAWKEAGTPNVRIGVVGAG---------TASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (263)
Q Consensus 119 ~~l~~~~~~~~~i~aVG~~---------Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (263)
+.+++.+.+++++++-|.- ..+.|++. |+...|.|. .+.+.++..|.+.
T Consensus 76 ~~L~~~~~~~~~i~vGG~~~~~~~~~~~~~~~l~~~------G~~~vf~~~-~~~~~i~~~l~~~ 133 (137)
T PRK02261 76 EKCIEAGLGDILLYVGGNLVVGKHDFEEVEKKFKEM------GFDRVFPPG-TDPEEAIDDLKKD 133 (137)
T ss_pred HHHHhcCCCCCeEEEECCCCCCccChHHHHHHHHHc------CCCEEECcC-CCHHHHHHHHHHH
Confidence 7777776667888888864 22589999 998766554 5788888887764
No 56
>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=95.47 E-value=0.3 Score=43.00 Aligned_cols=184 Identities=10% Similarity=0.034 Sum_probs=91.3
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (263)
+.+.+++.|+++..+..-...+....+.+...+ ...+|.||+.+.. ..+..++.+.+. +++++.++.... ..
T Consensus 21 i~~~a~~~g~~~~~~~~~~~~~~~~~~~l~~~~--~~~~dgiii~~~~~~~~~~~i~~~~~~---~iPvV~~~~~~~-~~ 94 (294)
T cd06316 21 AKDEFAKLGIEVVATTDAQFDPAKQVADIETTI--SQKPDIIISIPVDPVSTAAAYKKVAEA---GIKLVFMDNVPS-GL 94 (294)
T ss_pred HHHHHHHcCCEEEEecCCCCCHHHHHHHHHHHH--HhCCCEEEEcCCCchhhhHHHHHHHHc---CCcEEEecCCCc-cc
Confidence 456677889888743111100000011233333 2578998885532 234445555443 678888875431 11
Q ss_pred HH-hhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccc
Q 024727 143 EE-VIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 143 ~~-~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
.. . ++...+..+.+ ....+++.|.+.....+++.++.|.... .-+.+.|++++..+..+.....
T Consensus 95 ~~~~------~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~- 167 (294)
T cd06316 95 EHGK------DYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKETIKKNYPDITIVAEKGI- 167 (294)
T ss_pred ccCc------ceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHHHHHhCCCcEEEeecCC-
Confidence 11 1 11111222322 3344556665543345799999875432 3344456555432222211111
Q ss_pred cCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 214 PVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
.......+ +.+.+ .++++|+.++-..+. ..++.+.+....++.++++|
T Consensus 168 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~di~vvg~d 219 (294)
T cd06316 168 DGPSKAEDIANAMLTQNPDLKGIYAVWDVPAE-GVIAALRAAGRDDIKVTTVD 219 (294)
T ss_pred cchhHHHHHHHHHHHhCCCeeEEEeCCCchhH-HHHHHHHHcCCCCceEEEeC
Confidence 10111112 22222 367888888888888 78887766544467777765
No 57
>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=95.43 E-value=0.21 Score=43.59 Aligned_cols=183 Identities=8% Similarity=-0.003 Sum_probs=93.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~--~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++|+++....... .+....+.++..+ ....|.||+.+. ......++.+.+ .+++++.++.....
T Consensus 19 ~gi~~~~~~~G~~~~~~~~~~-d~~~~~~~i~~~~--~~~vdgiii~~~~~~~~~~~i~~~~~---~~iPvV~~~~~~~~ 92 (272)
T cd06313 19 QAADEAGKLLGVDVTWYGGAL-DAVKQVAAIENMA--SQGWDFIAVDPLGIGTLTEAVQKAIA---RGIPVIDMGTLIAP 92 (272)
T ss_pred HHHHHHHHHcCCEEEEecCCC-CHHHHHHHHHHHH--HcCCCEEEEcCCChHHhHHHHHHHHH---CCCcEEEeCCCCCC
Confidence 345667778898888653221 0000011233333 357899999754 223333344433 36789999864321
Q ss_pred HHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCC-CeeeEEeeec
Q 024727 141 IFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRG-FEVVRLNTYT 211 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G-~~v~~~~vY~ 211 (263)
. .. +....+.++.+ .+..+++.|.+.....++++++.|... ..-+.+.++++| .++ +..+.
T Consensus 93 ~--~~------~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~--~~~~~ 162 (272)
T cd06313 93 L--QI------NVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEV--VDEQP 162 (272)
T ss_pred C--CC------ceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEE--EeccC
Confidence 0 11 21111223333 345556666654323468999987643 344556677765 433 22222
Q ss_pred cccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 212 TEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
+........+ +.+.+ .++|+|+.++...+. ..++.+.+....++.|++++
T Consensus 163 ~~~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~a~-g~~~al~~~g~~di~vvgfd 216 (272)
T cd06313 163 ANWDVSKAARIWETWLTKYPQLDGAFCHNDSMAL-AAYQIMKAAGRTKIVIGGVD 216 (272)
T ss_pred CCCCHHHHHHHHHHHHHhCCCCCEEEECCCcHHH-HHHHHHHHcCCCceEEEeec
Confidence 2221111112 22222 357999999888777 67666654333455666554
No 58
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=95.43 E-value=0.18 Score=42.74 Aligned_cols=179 Identities=11% Similarity=0.087 Sum_probs=92.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHH-HHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSV-FLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~-~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
..+...+++.|+++...+.-.. +-...+.++..+ ...+|.+|+.+...-.. .+..+.+ .+++++.+|.....
T Consensus 19 ~g~~~~~~~~g~~l~~~~~~~~-~~~~~~~~~~~~--~~~~d~ii~~~~~~~~~~~~~~l~~---~~ip~v~~~~~~~~- 91 (264)
T cd01537 19 KGIEEAAKAAGYQVLLANSQND-AEKQLSALENLI--ARGVDGIIIAPSDLTAPTIVKLARK---AGIPVVLVDRDIPD- 91 (264)
T ss_pred HHHHHHHHHcCCeEEEEeCCCC-HHHHHHHHHHHH--HcCCCEEEEecCCCcchhHHHHhhh---cCCCEEEeccCCCC-
Confidence 4455667778877665543211 000012233333 24789999876543322 2343333 36788888765433
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCC-CeeeEEeeecc
Q 024727 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRG-FEVVRLNTYTT 212 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G-~~v~~~~vY~~ 212 (263)
.. .+.. +..+. .....+++.+.+.. .++++++.+... ..-+.+.+++.| ..+.....|.
T Consensus 92 --~~------~~~~-v~~d~~~~~~~~~~~l~~~g--~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 159 (264)
T cd01537 92 --GD------RVPS-VGSDNEQAGYLAGEHLAEKG--HRRIALLAGPLGSSTARERVAGFKDALKEAGPIEIVLVQEGD- 159 (264)
T ss_pred --Cc------ccce-EecCcHHHHHHHHHHHHHhc--CCcEEEEECCCCCCcHHHHHHHHHHHHHHcCCcChhhhccCC-
Confidence 12 2221 22222 34556666676543 578999887644 355666777777 3322222222
Q ss_pred ccCCCCh-HHHHHHhC---CCCEEEEeCHHHHHHHHHHhccccCC---CCceEEEEC
Q 024727 213 EPVHHVD-QTVLKQAL---SIPVVAVASPSAVRSSWVNLISDTEQ---WSNSVACIA 262 (263)
Q Consensus 213 ~~~~~~~-~~~~~~l~---~~d~vvFtS~s~v~~~~~~~~~~~~~---~~~~i~~IG 262 (263)
...... +.+.+.+. ++|+++.++...+. .+.+.+.+... .++.+++.+
T Consensus 160 -~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~-~~~~~~~~~g~~i~~~i~i~~~d 214 (264)
T cd01537 160 -WDAEKGYQAAEELLTAHPDPTAIFAANDDMAL-GALRALREAGLRVPDDISVIGFD 214 (264)
T ss_pred -CCHHHHHHHHHHHHhcCCCCCEEEEcCcHHHH-HHHHHHHHhCCCCCCCeEEEeec
Confidence 111111 11222232 38999998877777 66666654332 356666553
No 59
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=95.42 E-value=0.73 Score=41.09 Aligned_cols=178 Identities=9% Similarity=0.036 Sum_probs=94.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
.+.+.+++.|+++...+. . .+.+...+.++. -..+|.||+++...-......+... .+++++.+|...
T Consensus 77 gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdGiI~~~~~~~~~~~~~l~~~--~~iPvV~i~~~~--- 146 (327)
T PRK10423 77 GVERSCFERGYSLVLCNT---E--GDEQRMNRNLETLMQKRVDGLLLLCTETHQPSREIMQRY--PSVPTVMMDWAP--- 146 (327)
T ss_pred HHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEeCCCcchhhHHHHHhc--CCCCEEEECCcc---
Confidence 455667788988764322 1 122211122221 2579999998754322222223221 367899998521
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
... +... +..+.+ .+...++.|.+. ..++|+++.|... ..-+.+.|+++|+.+....++...
T Consensus 147 -~~~------~~~~-v~~d~~~~~~~a~~~L~~~--G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~~~~~~ 216 (327)
T PRK10423 147 -FDG------DSDL-IQDNSLLGGDLATQYLIDK--GYTRIACITGPLDKTPARLRLEGYRAAMKRAGLNIPDGYEVTGD 216 (327)
T ss_pred -CCC------CCCE-EEEChHHHHHHHHHHHHHc--CCCeEEEEeCCccccchHHHHHHHHHHHHHcCCCCCcceEEeCC
Confidence 112 2222 223333 345666666654 3478999987543 234567788888766443232211
Q ss_pred cCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
...... +.+.+.+ ..+++|+.++-..+. .+++.+.+.. ..++.+++++
T Consensus 217 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~-g~~~~l~~~g~~vP~dvsvigfd 271 (327)
T PRK10423 217 FEFNGGFDAMQQLLALPLRPQAVFTGNDAMAV-GVYQALYQAGLSVPQDIAVIGYD 271 (327)
T ss_pred CChHHHHHHHHHHhcCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCCceEEEEeC
Confidence 111111 1222323 257999999988887 7777776543 2467777765
No 60
>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=95.26 E-value=0.5 Score=40.46 Aligned_cols=177 Identities=10% Similarity=-0.017 Sum_probs=92.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++|+++...... .+.+...+.++. ...+|+||+++...-......+. .+++++.++....
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~~----~~ipvv~~~~~~~- 88 (267)
T cd06284 19 KGIEDEAREAGYGVLLGDTR-----SDPEREQEYLDLLRRKQADGIILLDGSLPPTALTALA----KLPPIVQACEYIP- 88 (267)
T ss_pred HHHHHHHHHcCCeEEEecCC-----CChHHHHHHHHHHHHcCCCEEEEecCCCCHHHHHHHh----cCCCEEEEecccC-
Confidence 45667778889888654321 121111122211 25799999977532222222221 2678888864321
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeeecc
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
.. ++.. +..+. ..+..+++.+.+. ..++++++.+... ..-+.+.++++|+++....++..
T Consensus 89 ---~~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~l~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~ 156 (267)
T cd06284 89 ---GL------AVPS-VSIDNVAAARLAVDHLISL--GHRRIALITGPRDNPLARDRLEGYRQALAEAGLPADEELIQEG 156 (267)
T ss_pred ---CC------Ccce-EEecccHHHHHHHHHHHHc--CCceEEEEcCCccchhHHHHHHHHHHHHHHcCCCCCcceEEeC
Confidence 12 2221 22222 3445666676654 3478999887543 23455677888876544333332
Q ss_pred ccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 213 EPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 213 ~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
........+ +.+.+ ..+|+|+.+|...+. .+...+.+.. ..++.++|++
T Consensus 157 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~-g~~~al~~~g~~~p~~v~v~g~d 212 (267)
T cd06284 157 DFSLESGYAAARRLLALPDRPTAIFCFSDEMAI-GAISALKELGLRVPEDISVVGFD 212 (267)
T ss_pred CCChHHHHHHHHHHHhCCCCCcEEEEcCcHHHH-HHHHHHHHcCCCCccceeEEEeC
Confidence 221111112 22222 258999999987777 6666665433 2356677764
No 61
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=95.17 E-value=0.89 Score=40.87 Aligned_cols=164 Identities=12% Similarity=0.098 Sum_probs=86.8
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~a-V~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
+.+.++++|+.+...+. . .+.+.....++. ...+|.||+.+... ....++.+.+. +++++.++...
T Consensus 86 i~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~---~iPvV~~~~~~--- 154 (342)
T PRK10014 86 LTEALEAQGRMVFLLQG---G--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMAEEK---GIPVVFASRAS--- 154 (342)
T ss_pred HHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHHhhc---CCCEEEEecCC---
Confidence 44667778887654321 1 122211222222 25799999986542 23344444433 67888887532
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
... ++.. +..+.+ .+..+++.|.+. ..++|+++.|.... .-+.+.|++.|+.+....++...
T Consensus 155 -~~~------~~~~-V~~D~~~~~~~a~~~L~~~--G~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~ 224 (342)
T PRK10014 155 -YLD------DVDT-VRPDNMQAAQLLTEHLIRN--GHQRIAWLGGQSSSLTRAERVGGYCATLLKFGLPFHSEWVLECT 224 (342)
T ss_pred -CCC------CCCE-EEeCCHHHHHHHHHHHHHC--CCCEEEEEcCCcccccHHHHHHHHHHHHHHcCCCCCcceEecCC
Confidence 112 3332 233332 345556666664 34789999876432 23567788888876543333222
Q ss_pred cCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccc
Q 024727 214 PVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISD 250 (263)
Q Consensus 214 ~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~ 250 (263)
.......+ +.+.+ ..+++|+..+-..+. ..++.+.+
T Consensus 225 ~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~A~-g~~~~l~~ 264 (342)
T PRK10014 225 SSQKQAAEAITALLRHNPTISAVVCYNETIAM-GAWFGLLR 264 (342)
T ss_pred CChHHHHHHHHHHHcCCCCCCEEEECCcHHHH-HHHHHHHH
Confidence 11111112 22223 257999998888777 66665543
No 62
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=95.16 E-value=0.32 Score=43.80 Aligned_cols=181 Identities=9% Similarity=-0.013 Sum_probs=95.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (263)
.+.+.++++|+++...+...- +-...+.++..+ ....|+||+.....-...++.+.+. .+++++.+|... .
T Consensus 80 gi~~~~~~~g~~~~~~~~~~~-~~~~~~~i~~l~--~~~vdgiii~~~~~~~~~~~~l~~~--~~iPvV~~d~~~----~ 150 (341)
T PRK10703 80 AVEKNCYQKGYTLILCNAWNN-LEKQRAYLSMLA--QKRVDGLLVMCSEYPEPLLAMLEEY--RHIPMVVMDWGE----A 150 (341)
T ss_pred HHHHHHHHCCCEEEEEeCCCC-HHHHHHHHHHHH--HcCCCEEEEecCCCCHHHHHHHHhc--CCCCEEEEeccc----C
Confidence 455566778988765432110 000011222222 2578999887643223334444431 367888887432 1
Q ss_pred HhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccC
Q 024727 144 EVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
.. ++...+.++.+ .+...++.|.+. ..++++++.|.... .-+.+.|+++|+++....++.....
T Consensus 151 ~~------~~~~~v~~d~~~~g~~a~~~L~~~--G~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~gi~~~~~~~~~~~~~ 222 (341)
T PRK10703 151 KA------DFTDAIIDNAFEGGYLAGRYLIER--GHRDIGVIPGPLERNTGAGRLAGFMKAMEEANIKVPEEWIVQGDFE 222 (341)
T ss_pred Cc------CCCCeEEECcHHHHHHHHHHHHHC--CCCcEEEEeCCccccchHHHHHHHHHHHHHcCCCCChHHeEeCCCC
Confidence 12 21111233332 345566677654 24789999875442 3345677888877654333322111
Q ss_pred CCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 216 HHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 216 ~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.....+ +.+.+ ..+|+|++++...+. ..++.+.+.. ..++.+++++
T Consensus 223 ~~~~~~~~~~~l~~~~~~~ai~~~nd~~a~-g~~~al~~~g~~ip~dv~vvgfD 275 (341)
T PRK10703 223 PESGYEAMQQILSQKHRPTAVFCGGDIMAM-GAICAADEMGLRVPQDISVIGYD 275 (341)
T ss_pred HHHHHHHHHHHHhCCCCCCEEEECCcHHHH-HHHHHHHHcCCCCCCceEEEEEC
Confidence 111112 22223 268999999998888 7777776543 2466777764
No 63
>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=95.15 E-value=0.46 Score=40.99 Aligned_cols=178 Identities=8% Similarity=0.032 Sum_probs=93.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-HHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-AGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (263)
.+.+.++++|+++....... .+....+.++... ...+|.||+++.. .-..+.... . .+.+++++|....
T Consensus 20 gi~~~~~~~gy~v~~~~~~~-~~~~~~~~i~~~~--~~~~dgiii~~~~~~~~~~~~~~-~---~~~pvV~i~~~~~--- 89 (269)
T cd06293 20 AVEEEADARGLSLVLCATRN-RPERELTYLRWLD--TNHVDGLIFVTNRPDDGALAKLI-N---SYGNIVLVDEDVP--- 89 (269)
T ss_pred HHHHHHHHCCCEEEEEeCCC-CHHHHHHHHHHHH--HCCCCEEEEeCCCCCHHHHHHHH-h---cCCCEEEECCCCC---
Confidence 45567778898886543221 0000011122222 3579999997531 112222222 2 2578999996431
Q ss_pred HHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeecccc
Q 024727 143 EEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~ 214 (263)
.. .+.. +.++.+ .+...++.|.+. ..++++++.|.... .-+.+.|++.|..+....++....
T Consensus 90 -~~------~~~~-V~~d~~~~~~~~~~~L~~~--G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~~~~ 159 (269)
T cd06293 90 -GA------KVPK-VFCDNEQGGRLATRHLARA--GHRRIAFVGGPDALISARERYAGYREALAEAHIPEVPEYVCFGDY 159 (269)
T ss_pred -CC------CCCE-EEECCHHHHHHHHHHHHHC--CCceEEEEecCcccccHHHHHHHHHHHHHHcCCCCChheEEecCC
Confidence 11 2221 233333 345556667654 35789999875432 335567777877654333332221
Q ss_pred CCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 215 VHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 215 ~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
..... +.+.+.+ ..+++|+..+...+. ..++.+.+.. ..++.|+|++
T Consensus 160 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~al~~~g~~vp~di~i~g~d 213 (269)
T cd06293 160 TREFGRAAAAQLLARGDPPTAIFAASDEIAI-GLLEVLRERGLSIPGDMSLVGFD 213 (269)
T ss_pred CHHHHHHHHHHHHcCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCccceEEEeec
Confidence 11111 1222223 257999999988777 6666665543 2467888775
No 64
>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=95.14 E-value=0.57 Score=40.50 Aligned_cols=177 Identities=11% Similarity=0.054 Sum_probs=94.3
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHH-----HHHHHHHHHHcCCCCcEEEEeCh
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEA-----GSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~a-----V~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
.+.+.++++|+++..... ..-.+ .+.++..+ -..+|+||+++... ...+++.+.+. +++++.+|.
T Consensus 20 gi~~~~~~~g~~~~~~~~---~~~~~~~~~~i~~l~--~~~vdgii~~~~~~~~~~~~~~~~~~~~~~---~ipvV~~~~ 91 (273)
T cd01541 20 GIESVLSEKGYSLLLAST---NNDPERERKCLENML--SQGIDGLIIEPTKSALPNPNIDLYLKLEKL---GIPYVFINA 91 (273)
T ss_pred HHHHHHHHcCCEEEEEeC---CCCHHHHHHHHHHHH--HcCCCEEEEeccccccccccHHHHHHHHHC---CCCEEEEec
Confidence 456677888988875432 11111 12233333 25799999976432 22333444333 578999985
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc------hhHHHHHHhCCCeeeEEee
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS------NEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~------~~L~~~L~~~G~~v~~~~v 209 (263)
.. ... ++.. +..+.+ .+..+++.|.+. ..++++++.+.... .-+.+.|++.|..+....+
T Consensus 92 ~~----~~~------~~~~-V~~D~~~~g~~~~~~l~~~--G~~~i~~l~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~ 158 (273)
T cd01541 92 SY----EEL------NFPS-LVLDDEKGGYKATEYLIEL--GHRKIAGIFKADDLQGVKRMKGFIKAYREHGIPFNPSNV 158 (273)
T ss_pred CC----CCC------CCCE-EEECcHHHHHHHHHHHHHc--CCcCEEEecCCCcccHHHHHHHHHHHHHHcCCCCChHHE
Confidence 42 112 2221 223333 345566677664 24678877654321 2356677777775433323
Q ss_pred eccccCCC--ChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 210 YTTEPVHH--VDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 210 Y~~~~~~~--~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
+....... ...+ +.+.+ ..+|+|+.+|...+. .+++.+.+.. ..++.|++++
T Consensus 159 ~~~~~~~~~~~~~~~~~~~l~~~~~~~av~~~~d~~a~-g~~~al~~~g~~~p~dv~vvg~d 219 (273)
T cd01541 159 ITYTTEEKEEKLFEKIKEILKRPERPTAIVCYNDEIAL-RVIDLLKELGLKIPEDISVVGFD 219 (273)
T ss_pred EeccccchhhHHHHHHHHHHcCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCCcEEEEEcC
Confidence 22111111 1112 22223 258999999988887 7777776543 2366777764
No 65
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=95.14 E-value=0.38 Score=41.17 Aligned_cols=177 Identities=13% Similarity=0.087 Sum_probs=92.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (263)
.+.+.++++|+++..+..-... ...+.++..+ ...+|.||+.+...-...++.+.+ .+++++.+|..+..
T Consensus 20 ~i~~~~~~~g~~~~~~~~~~~~--~~~~~i~~~~--~~~vdgiii~~~~~~~~~~~~~~~---~~ipvV~~~~~~~~--- 89 (266)
T cd06278 20 ALSRALQARGYQPLLINTDDDE--DLDAALRQLL--QYRVDGVIVTSGTLSSELAEECRR---NGIPVVLINRYVDG--- 89 (266)
T ss_pred HHHHHHHHCCCeEEEEcCCCCH--HHHHHHHHHH--HcCCCEEEEecCCCCHHHHHHHhh---cCCCEEEECCccCC---
Confidence 4567778899888755432110 0012233333 257999998764322222343433 36789999865321
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccC
Q 024727 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
. .+.. +..+. ..+..+.+.|.+. ..++|+++.|.... .-+.+.+++.|..+.. ..+.....
T Consensus 90 -~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~-~~~~~~~~ 158 (266)
T cd06278 90 -P------GVDA-VCSDNYEAGRLAAELLLAK--GCRRIAFIGGPADTSTSRERERGFRDALAAAGVPVVV-EEAGDYSY 158 (266)
T ss_pred -C------CCCE-EEEChHHHHHHHHHHHHHC--CCceEEEEcCCCcccchHHHHHHHHHHHHHcCCChhh-hccCCCCH
Confidence 2 2221 22332 3345556666654 34799999886542 3456667777765321 11111000
Q ss_pred CCChHHHHHHh---CCCCEEEEeCHHHHHHHHHHhcccc-C---CCCceEEEEC
Q 024727 216 HHVDQTVLKQA---LSIPVVAVASPSAVRSSWVNLISDT-E---QWSNSVACIA 262 (263)
Q Consensus 216 ~~~~~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~-~---~~~~~i~~IG 262 (263)
....+.+.+.+ .++++|+.++...+. ..++.+.+. . ..++.+++++
T Consensus 159 ~~~~~~~~~~l~~~~~~~~i~~~~~~~a~-~~~~~l~~~~~~~~p~di~i~~~d 211 (266)
T cd06278 159 EGGYEAARRLLASRPRPDAIFCANDLLAI-GVMDAARQEGGLRVPEDVSVIGFD 211 (266)
T ss_pred HHHHHHHHHHHhcCCCCCEEEEcCcHHHH-HHHHHHHHhcCCCCccceEEEEeC
Confidence 00011222223 258999999888777 666666542 1 2356777664
No 66
>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=95.10 E-value=0.72 Score=39.04 Aligned_cols=179 Identities=11% Similarity=0.051 Sum_probs=90.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (263)
.+.+.++++|+++...+.-. .+....+.++..+ -..+|.|++.....-...+..+.+ .++++++++.....
T Consensus 20 g~~~~~~~~g~~~~~~~~~~-~~~~~~~~~~~~~--~~~~d~iii~~~~~~~~~~~~~~~---~~ipvv~~~~~~~~--- 90 (264)
T cd06267 20 GIEEAAREAGYSVLLCNSDE-DPEKEREALELLL--SRRVDGIILAPSRLDDELLEELAA---LGIPVVLVDRPLDG--- 90 (264)
T ss_pred HHHHHHHHcCCEEEEEcCCC-CHHHHHHHHHHHH--HcCcCEEEEecCCcchHHHHHHHH---cCCCEEEecccccC---
Confidence 44555667787776542210 0000012233333 257999998765432221443443 36788888764322
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeeeccccC
Q 024727 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
. .+.. +..+. .....+++.+.+. ..++++++.+... ..-+.+.+++.|..+....+......
T Consensus 91 -~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~ 160 (264)
T cd06267 91 -L------GVDS-VGIDNRAGAYLAVEHLIEL--GHRRIAFIGGPPDLSTARERLEGYREALEEAGIPLDEELIVEGDFS 160 (264)
T ss_pred -C------CCCE-EeeccHHHHHHHHHHHHHC--CCceEEEecCCCccchHHHHHHHHHHHHHHcCCCCCcceEEecccc
Confidence 2 3322 22232 2334455666654 3478999977654 24456677777754433333222221
Q ss_pred CCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC---CCceEEEEC
Q 024727 216 HHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ---WSNSVACIA 262 (263)
Q Consensus 216 ~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~---~~~~i~~IG 262 (263)
.... ..+.+.+ .++|+|+..+...+. .+.+.+.+... .++.+++++
T Consensus 161 ~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~-~~~~al~~~g~~~~~~i~i~~~d 213 (264)
T cd06267 161 EESGYEAARELLASGERPTAIFAANDLMAI-GALRALRELGLRVPEDVSVVGFD 213 (264)
T ss_pred hhhHHHHHHHHHhcCCCCcEEEEcCcHHHH-HHHHHHHHhCCCCCCceEEEeeC
Confidence 1211 1222323 248998888877666 66655544321 355666654
No 67
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=94.86 E-value=1.5 Score=39.03 Aligned_cols=175 Identities=11% Similarity=0.072 Sum_probs=92.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~a-V~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
.+.+.++++|+++...... .+.+...+.++ ....+|.||+.+... ...++..+.+ .+++++++|...
T Consensus 82 gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~---~~iPvV~v~~~~-- 151 (328)
T PRK11303 82 YLERQARQRGYQLLIACSD-----DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQRLQN---DGLPIIALDRAL-- 151 (328)
T ss_pred HHHHHHHHcCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHHHHh---cCCCEEEECCCC--
Confidence 3455667789887654321 12111111221 125799999975421 1233333433 267899998642
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeeecc
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
... ++.. +..+. ..+...++.|.+.. .++|+++.|... ..-+.+.|+++|..+.. +|..
T Consensus 152 --~~~------~~~~-V~~d~~~~~~~a~~~L~~~G--~r~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~~~--~~~~ 218 (328)
T PRK11303 152 --DRE------HFTS-VVSDDQDDAEMLAESLLKFP--AESILLLGALPELSVSFEREQGFRQALKDDPREVHY--LYAN 218 (328)
T ss_pred --CCC------CCCE-EEeCCHHHHHHHHHHHHHCC--CCeEEEEeCccccccHHHHHHHHHHHHHHcCCCceE--EEeC
Confidence 123 3433 23333 33455566666543 578999987543 13456778888876432 2322
Q ss_pred ccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 213 EPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 213 ~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
........+ +.+.+ ..+|+|+.++-..+. ..++.+.+.. ..++.|++++
T Consensus 219 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~-g~~~al~~~g~~vP~disv~gfd 274 (328)
T PRK11303 219 SFEREAGAQLFEKWLETHPMPDALFTTSYTLLQ-GVLDVLLERPGELPSDLAIATFG 274 (328)
T ss_pred CCChHHHHHHHHHHHcCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCCceEEEEeC
Confidence 111111112 22223 258999999987776 6666554432 3466777665
No 68
>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=94.67 E-value=1.1 Score=38.31 Aligned_cols=175 Identities=11% Similarity=0.026 Sum_probs=91.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~a-V~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
.+.+.++++|+++...+.- .+.+...+.++. -..+|+||+.+.+. ...+++.+.+. +++++.++....
T Consensus 20 ~i~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~---~ipvV~~~~~~~- 90 (266)
T cd06282 20 GIQEEARAAGYSLLLATTD-----YDAEREADAVETLLRQRVDGLILTVADAATSPALDLLDAE---RVPYVLAYNDPQ- 90 (266)
T ss_pred HHHHHHHHCCCEEEEeeCC-----CCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhC---CCCEEEEeccCC-
Confidence 4556677889888865431 121111112211 25799999876542 12244444443 678888864321
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC--------chhHHHHHHhCCCeeeEEeeec
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~~~vY~ 211 (263)
. ++.. +..+. ..+..+++.|.+. ..++++++.|... ..-+.+.|++.|.++.....+.
T Consensus 91 ----~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~ 157 (266)
T cd06282 91 ----P------GRPS-VSVDNRAAARDVAQALAAL--GHRRIAMLAGRLAASDRARQRYAGYRAAMRAAGLAPLPPVEIP 157 (266)
T ss_pred ----C------CCCE-EeeCcHHHHHHHHHHHHHc--CcccEEEeccccccCchHHHHHHHHHHHHHHcCCCCCccccCC
Confidence 2 3321 22333 2345556666654 3478998876432 1334556777877654322111
Q ss_pred cccCCCChHHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 212 TEPVHHVDQTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~~~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.. .....+.+.+.+ ..+|+|+.++...+. .+++.+.+.. ..++.+++.+
T Consensus 158 ~~-~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~al~~~g~~~p~di~v~g~d 212 (266)
T cd06282 158 FN-TAALPSALLALLTAHPAPTAIFCSNDLLAL-AVIRALRRLGLRVPDDLSVVGFD 212 (266)
T ss_pred Cc-HHHHHHHHHHHhcCCCCCCEEEECCcHHHH-HHHHHHHHcCCCCCCceEEEeec
Confidence 11 111112223323 257999999988777 7777665543 2355666654
No 69
>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=94.63 E-value=1 Score=39.12 Aligned_cols=176 Identities=13% Similarity=0.077 Sum_probs=90.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
..+.+.++++|+++...+... + .+. +.++. + ....+|.||+++...-....+.+... .+++++.+|...
T Consensus 22 ~gi~~~~~~~gy~~~i~~~~~--~-~~~~~~i~~-l-~~~~vdgiI~~~~~~~~~~~~~~~~~--~~~PiV~i~~~~--- 91 (265)
T cd06354 22 EGLERAAKELGIEYKYVESKS--D-ADYEPNLEQ-L-ADAGYDLIVGVGFLLADALKEVAKQY--PDQKFAIIDAVV--- 91 (265)
T ss_pred HHHHHHHHHcCCeEEEEecCC--H-HHHHHHHHH-H-HhCCCCEEEEcCcchHHHHHHHHHHC--CCCEEEEEeccc---
Confidence 345677788999988765431 1 111 11222 2 13689999998754333333433322 367899998642
Q ss_pred HHH-hhhhcCCCCceeecCCCCCH-HHHHHHhccCCCCCcEEEEEcCCCC-----c-hhHHHHHHhCC---CeeeEEeee
Q 024727 142 FEE-VIQSSKCSLDVAFSPSKATG-KILASELPKNGKKKCTVLYPASAKA-----S-NEIEEGLSNRG---FEVVRLNTY 210 (263)
Q Consensus 142 L~~-~~~~~~~G~~~~~~p~~~t~-e~L~~~l~~~~~~~~~vL~~~g~~~-----~-~~L~~~L~~~G---~~v~~~~vY 210 (263)
.. . ++.. +..+.+.+ ..+...+... ...+++.++.+... + .-+.+.+++.| ..+....++
T Consensus 92 -~~~~------~~~~-v~~d~~~a~~~a~~ll~~~-~G~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~ 162 (265)
T cd06354 92 -DDPP------NVAS-IVFKEEEGSFLAGYLAALM-TKTGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQY 162 (265)
T ss_pred -CCCC------cEEE-EEecchhHHHHHHHHHHhh-cCCCeEEEEecccChHHHHHHHHHHHHHHHHhccCCCceEEEEE
Confidence 11 2 3332 22333333 3333223221 13488999977542 1 34556666777 555444444
Q ss_pred ccccC-CCChHH-HHHHh-CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEE
Q 024727 211 TTEPV-HHVDQT-VLKQA-LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACI 261 (263)
Q Consensus 211 ~~~~~-~~~~~~-~~~~l-~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~I 261 (263)
..... .....+ +.+.+ ..+|+|+.++-..+- ..++.+.+.. +.|+++
T Consensus 163 ~~~~~~~~~~~~~~~~ll~~~pdaI~~~nd~~A~-gv~~al~~~g---isIvGf 212 (265)
T cd06354 163 AGSFNDPAKGKEIAQAMYDQGADVIFAAAGGTGN-GVFQAAKEAG---VYAIGV 212 (265)
T ss_pred cCcccCHHHHHHHHHHHHHCCCcEEEECCCCCch-HHHHHHHhcC---CeEEEe
Confidence 32221 112222 22223 357998888777666 6666555432 444444
No 70
>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=94.60 E-value=0.59 Score=41.41 Aligned_cols=182 Identities=9% Similarity=0.078 Sum_probs=92.0
Q ss_pred HHHHHHHHhCCCcEEEe-ceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChh
Q 024727 63 GKLIKALAKHRIDCLEL-PLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~-p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
..+.+.++++|+++..+ +.. .+.+...+.++. ...+|.||+++.. ++...++.+.+. +++++.++..
T Consensus 19 ~gi~~~a~~~g~~v~~~~~~~-----~d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~~---~iPvV~v~~~ 90 (298)
T cd06302 19 EGAKEAAKELGVDAIYVGPTT-----ADAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKAREA---GIKVVTHDSD 90 (298)
T ss_pred HHHHHHHHHhCCeEEEECCCC-----CCHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHHC---CCeEEEEcCC
Confidence 34556677889887754 322 122211222222 2478999998643 334444544443 6788888753
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCe-eeEEe
Q 024727 138 TASIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFE-VVRLN 208 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~-v~~~~ 208 (263)
... ... ++.+ ...+.+ ....+++.|.+.....++++++.|.... .-+.+.|+++|.. +..+.
T Consensus 91 ~~~--~~~------~~~~-v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~ 161 (298)
T cd06302 91 VQP--DNR------DYDI-EQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKAYQKEKYYPMLELVD 161 (298)
T ss_pred CCC--Ccc------eeEE-eccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHHHHhhcCCCCeEEeC
Confidence 211 011 2221 122322 3355566666653223689999875432 4456677777632 22222
Q ss_pred eeccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 209 TYTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 209 vY~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
++..........+ +.+.+ .++++|+.++-..+. ..++.+.+... .++.|+.++
T Consensus 162 ~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~D~~A~-g~~~al~~~g~~~dv~vvG~D 219 (298)
T cd06302 162 RQYGDDDADKSYQTAQELLKAYPDLKGIIGPTSVGIP-GAARAVEEAGLKGKVAVTGLG 219 (298)
T ss_pred cccCCCCHHHHHHHHHHHHHhCCCceEEEECCCcchh-HHHHHHHhcCCCCCEEEEEeC
Confidence 3222111111111 22222 257888888777777 67666655432 355566553
No 71
>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=94.58 E-value=0.94 Score=40.42 Aligned_cols=187 Identities=11% Similarity=0.089 Sum_probs=88.4
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeC-CCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeCh--
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQG-PDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGA-- 136 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~-~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~-- 136 (263)
.+-+.+.|++.|... .---|+.... .|.+.+...+++ ..++|.|+-+...+.....+.... +++|+..|-
T Consensus 17 ~~gf~~~L~~~g~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~gt~aa~~~~~~~~~----~iPVVf~~V~d 91 (294)
T PF04392_consen 17 VRGFKDGLKELGYDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAIGTPAAQALAKHLKD----DIPVVFCGVSD 91 (294)
T ss_dssp HHHHHHHHHHTT--C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEESHHHHHHHHHH-SS-----S-EEEECES-
T ss_pred HHHHHHHHHHcCCcc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEeCcHHHHHHHHhcCC----CcEEEEEeccC
Confidence 355788899999887 2222233322 244445555442 368999998888888777665332 277766654
Q ss_pred -hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCC-C-----chhHHHHHHhCCCeeeEEee
Q 024727 137 -GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAK-A-----SNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 137 -~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~-~-----~~~L~~~L~~~G~~v~~~~v 209 (263)
..+...... . ..|-++.-+.+....+..++.+.+....-+++.++-... . .+.+.+..++.|+++..+.+
T Consensus 92 p~~~~l~~~~-~--~~~~nvTGv~~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~~~v 168 (294)
T PF04392_consen 92 PVGAGLVDSL-D--RPGKNVTGVSERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVEIPV 168 (294)
T ss_dssp TTTTTS-S-S-S--S--SSEEEEEE---HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEEEEE
T ss_pred hhhhhccccc-c--CCCCCEEEEECCcCHHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHHHHHHHHHcCCEEEEEec
Confidence 111111111 0 001111112234556666777777654457875444332 2 34666777788998877666
Q ss_pred eccccCCCChHHHHHHh-CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEE
Q 024727 210 YTTEPVHHVDQTVLKQA-LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVAC 260 (263)
Q Consensus 210 Y~~~~~~~~~~~~~~~l-~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~ 260 (263)
-.. ...+...+.+ ++.|++++.....+.+.+..........++++++
T Consensus 169 ~~~----~~~~~~~~~l~~~~da~~~~~~~~~~~~~~~i~~~~~~~~iPv~~ 216 (294)
T PF04392_consen 169 PSS----EDLEQALEALAEKVDALYLLPDNLVDSNFEAILQLANEAKIPVFG 216 (294)
T ss_dssp SSG----GGHHHHHHHHCTT-SEEEE-S-HHHHHTHHHHHHHCCCTT--EEE
T ss_pred CcH----hHHHHHHHHhhccCCEEEEECCcchHhHHHHHHHHHHhcCCCEEE
Confidence 332 2222333334 5889888887777662333322221134566665
No 72
>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=94.56 E-value=0.12 Score=45.95 Aligned_cols=166 Identities=10% Similarity=0.086 Sum_probs=97.5
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHH-HHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAG-SVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV-~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
.+.+.++++|+.+.....-. +. +.++.++. -...|++|++|...= ..+..+. +. +.+++.+|.....
T Consensus 22 gIe~~a~~~Gy~l~l~~t~~-----~~-~~e~~i~~l~~~~vDGiI~~s~~~~~~~l~~~~-~~---~iPvV~~~~~~~~ 91 (279)
T PF00532_consen 22 GIEQEAREHGYQLLLCNTGD-----DE-EKEEYIELLLQRRVDGIILASSENDDEELRRLI-KS---GIPVVLIDRYIDN 91 (279)
T ss_dssp HHHHHHHHTTCEEEEEEETT-----TH-HHHHHHHHHHHTTSSEEEEESSSCTCHHHHHHH-HT---TSEEEEESS-SCT
T ss_pred HHHHHHHHcCCEEEEecCCC-----ch-HHHHHHHHHHhcCCCEEEEecccCChHHHHHHH-Hc---CCCEEEEEeccCC
Confidence 45667788899887643221 11 11133322 268999999977554 3333332 22 6899999975322
Q ss_pred HHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcE-EEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeecc
Q 024727 141 IFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCT-VLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~-vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
. . ++.....-....+....+.|.+.. .++ |+++.|.... .=+.+.|++.|+.+.+..++..
T Consensus 92 ~---~------~~~~V~~D~~~a~~~a~~~Li~~G--h~~~I~~i~~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~ 160 (279)
T PF00532_consen 92 P---E------GVPSVYIDNYEAGYEATEYLIKKG--HRRPIAFIGGPEDSSTSRERLQGYRDALKEAGLPIDEEWIFEG 160 (279)
T ss_dssp T---C------TSCEEEEEHHHHHHHHHHHHHHTT--CCSTEEEEEESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEEES
T ss_pred c---c------cCCEEEEcchHHHHHHHHHHHhcc--cCCeEEEEecCcchHHHHHHHHHHHHHHHHcCCCCCccccccc
Confidence 2 3 555433222233445667777654 477 9999997653 2356788999998877777665
Q ss_pred ccCCCChHHHH-HHh-C--CCCEEEEeCHHHHHHHHHHhcccc
Q 024727 213 EPVHHVDQTVL-KQA-L--SIPVVAVASPSAVRSSWVNLISDT 251 (263)
Q Consensus 213 ~~~~~~~~~~~-~~l-~--~~d~vvFtS~s~v~~~~~~~~~~~ 251 (263)
........+.. +.+ . .+|+|+.++-..+. ..++.+.+.
T Consensus 161 ~~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~-ga~~~l~~~ 202 (279)
T PF00532_consen 161 DFDYESGYEAARELLESHPDIDAIFCANDMMAI-GAIRALRER 202 (279)
T ss_dssp SSSHHHHHHHHHHHHHTSTT-SEEEESSHHHHH-HHHHHHHHT
T ss_pred CCCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHH-HHHHHHHHc
Confidence 33222222222 223 2 56699999988888 776666543
No 73
>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=94.50 E-value=1 Score=38.99 Aligned_cols=179 Identities=12% Similarity=0.084 Sum_probs=89.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
..+.+.++++|+++..... ..+.+ .++..+ ...+|+||+++.. ++...++.+.+ .+++++++|.
T Consensus 19 ~~i~~~~~~~g~~v~~~~~-----~~~~~~~~~~i~~~~--~~~~Dgiii~~~~~~~~~~~i~~~~~---~~iPvV~~~~ 88 (282)
T cd06318 19 EAAKAHAKALGYELISTDA-----QGDLTKQIADVEDLL--TRGVNVLIINPVDPEGLVPAVAAAKA---AGVPVVVVDS 88 (282)
T ss_pred HHHHHHHHHcCCEEEEEcC-----CCCHHHHHHHHHHHH--HcCCCEEEEecCCccchHHHHHHHHH---CCCCEEEecC
Confidence 3456677788988764321 11221 233322 3579999997642 32334444443 3678999985
Q ss_pred hHHHHHHH-hhhhcCCCCceeecCCCC-CHHHHHHHhccC-CCCCcEEEEEcCCCC-------chhHHHHHHhCCCeee-
Q 024727 137 GTASIFEE-VIQSSKCSLDVAFSPSKA-TGKILASELPKN-GKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVV- 205 (263)
Q Consensus 137 ~Ta~~L~~-~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~-~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~- 205 (263)
.. .. . ..+. .+..+.+ .+..+++.|.+. ..++++++++.|... ..-+.+.|+++|....
T Consensus 89 ~~----~~~~-----~~~~-~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~~~~~~ 158 (282)
T cd06318 89 SI----NLEA-----GVVT-QVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFLLGVSEAQLRKYG 158 (282)
T ss_pred CC----CCCc-----CeEE-EEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHHHHHhhCcccccc
Confidence 32 11 1 0111 1223322 345566666653 322458999877543 2335666777654211
Q ss_pred --EEeeeccccCCCCh----HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC-CCCceEEEEC
Q 024727 206 --RLNTYTTEPVHHVD----QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE-QWSNSVACIA 262 (263)
Q Consensus 206 --~~~vY~~~~~~~~~----~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~-~~~~~i~~IG 262 (263)
.+.++......... +.+.+.+ .++|+|+..+-..+. .+++.+.+.. ..++.|++++
T Consensus 159 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~al~~~g~~~dv~vvg~d 224 (282)
T cd06318 159 KTNFTIVAQGYGDWTREGGLKAMEDLLVAHPDINVVYSENDDMAL-GAMRVLAEAGKTDDVKVAAAD 224 (282)
T ss_pred cCCeEEEecCCCCCCHHHHHHHHHHHHHhCCCcCEEEECCcchHH-HHHHHHHHcCCCCCeEEEecC
Confidence 11111101111111 1122222 357899999877766 6666655443 2456666654
No 74
>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=94.48 E-value=0.65 Score=40.20 Aligned_cols=177 Identities=8% Similarity=0.001 Sum_probs=86.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc----hHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT----DRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~----~~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
..+.+.++++|+++..... . ..+. +.++..+ ...+|.+|+.+.. .....+..+. . +++++.+|.
T Consensus 18 ~gi~~~~~~~g~~~~~~~~---~-~~~~~~~~~~i~~l~--~~~vDgiIi~~~~~~~~~~~l~~~~---~-~ipvV~~~~ 87 (271)
T cd06314 18 AGVKAAGKELGVDVEFVVP---Q-QGTVNAQLRMLEDLI--AEGVDGIAISPIDPKAVIPALNKAA---A-GIKLITTDS 87 (271)
T ss_pred HHHHHHHHHcCCeEEEeCC---C-CCCHHHHHHHHHHHH--hcCCCEEEEecCChhHhHHHHHHHh---c-CCCEEEecC
Confidence 3455667788988775521 0 0111 1222222 3579999997642 2233333332 2 578898885
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEe
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLN 208 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~ 208 (263)
.... .. .+. .+..+.+ .+...++.|.+....+.+++++.|.... .-+.+.+++.|.++...
T Consensus 88 ~~~~---~~------~~~-~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~- 156 (271)
T cd06314 88 DAPD---SG------RYV-YIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKDAIKDSKIEIVDT- 156 (271)
T ss_pred CCCc---cc------eeE-EEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHHHHhcCCcEEEEE-
Confidence 3211 01 111 1222322 3345556665543345677777775431 34567788888766442
Q ss_pred eeccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 209 TYTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 209 vY~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
+..........+ +.+.+ ..+++|+..+...+. .+.+.+.+... .++.|++++
T Consensus 157 -~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~-~~~~al~~~g~~~di~vig~d 213 (271)
T cd06314 157 -RGDEEDFAKAKSNAEDALNAHPDLKCMFGLYAYNGP-AIAEAVKAAGKLGKVKIVGFD 213 (271)
T ss_pred -ecCccCHHHHHHHHHHHHHhCCCccEEEecCCccHH-HHHHHHHHcCCCCceEEEEeC
Confidence 111111111111 22222 357888776665555 55555544322 356666654
No 75
>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=94.46 E-value=1.5 Score=37.87 Aligned_cols=180 Identities=9% Similarity=0.051 Sum_probs=92.7
Q ss_pred HHHHHHHhC-CCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 64 KLIKALAKH-RIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 64 ~l~~~L~~~-G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
.+.+.+++. |+++....... .+....+.++..+ ...+|.||+.+.. .....+..+.+ .+++++.+|.....
T Consensus 20 ~i~~~~~~~~g~~~~~~~~~~-~~~~~~~~i~~~~--~~~vdgiii~~~~~~~~~~~~~~~~~---~~ipvV~~~~~~~~ 93 (270)
T cd06308 20 EIQREASNYPDVELIIADAAD-DNSKQVADIENFI--RQGVDLLIISPNEAAPLTPVVEEAYR---AGIPVILLDRKILS 93 (270)
T ss_pred HHHHHHHhcCCcEEEEEcCCC-CHHHHHHHHHHHH--HhCCCEEEEecCchhhchHHHHHHHH---CCCCEEEeCCCCCC
Confidence 344556665 77776542210 0000012233333 2478999987643 22333444433 36889999853211
Q ss_pred HHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhC-CCeeeEEeeec
Q 024727 141 IFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNR-GFEVVRLNTYT 211 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~-G~~v~~~~vY~ 211 (263)
. +....+..+.+ .+..+++.|.+.....++++++.|.... .-+.+.|+++ |+++.. ++.
T Consensus 94 ----~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~~l~~~~~~~~~~--~~~ 161 (270)
T cd06308 94 ----D------KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKEALSKYPKIKIVA--QQD 161 (270)
T ss_pred ----c------cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHHHHHHCCCCEEEE--ecC
Confidence 1 22222333333 3345556666543345799999875532 2344566777 765532 222
Q ss_pred cccCCCChH-HHHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 212 TEPVHHVDQ-TVLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~~~-~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
......... .+.+.+ .++++|+..+...+. ..++.+.+... .++.+++++
T Consensus 162 ~~~~~~~~~~~~~~~l~~~~~~~aI~~~~d~~a~-g~~~al~~~g~~~dv~vvg~d 216 (270)
T cd06308 162 GDWLKEKAEEKMEELLQANPDIDLVYAHNDPMAL-GAYLAAKRAGREKEIKFIGID 216 (270)
T ss_pred CCccHHHHHHHHHHHHHhCCCCcEEEeCCcHHHH-HHHHHHHHcCCCCCcEEEEec
Confidence 111111111 122222 358999999988887 77777765432 467777765
No 76
>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=94.42 E-value=0.71 Score=39.56 Aligned_cols=180 Identities=12% Similarity=0.099 Sum_probs=100.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHHH--HHHHHHHHHHcCCCCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPEA--GSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~a--V~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
..+.+.++++|+++..+ ... ..+.+ .++..+ ...+|.||++.... ...+++.+.+. +++++.+..
T Consensus 18 ~g~~~~a~~~g~~~~~~--~~~--~~d~~~q~~~i~~~i--~~~~d~Iiv~~~~~~~~~~~l~~~~~~---gIpvv~~d~ 88 (257)
T PF13407_consen 18 KGAKAAAKELGYEVEIV--FDA--QNDPEEQIEQIEQAI--SQGVDGIIVSPVDPDSLAPFLEKAKAA---GIPVVTVDS 88 (257)
T ss_dssp HHHHHHHHHHTCEEEEE--EES--TTTHHHHHHHHHHHH--HTTESEEEEESSSTTTTHHHHHHHHHT---TSEEEEESS
T ss_pred HHHHHHHHHcCCEEEEe--CCC--CCCHHHHHHHHHHHH--HhcCCEEEecCCCHHHHHHHHHHHhhc---CceEEEEec
Confidence 34667778889998877 111 12222 234443 25699999774443 55566666654 679999887
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCch-------hHHHHHHhCCCeeeEEe
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKASN-------EIEEGLSNRGFEVVRLN 208 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~-------~L~~~L~~~G~~v~~~~ 208 (263)
. ..... .....+.++. ..+..+.+.+.+....+.+++++.|..+.. -+.+.|++.+ .+..+.
T Consensus 89 ~--~~~~~-------~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~l~~~~-~~~~~~ 158 (257)
T PF13407_consen 89 D--EAPDS-------PRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDALKEYP-GVEIVD 158 (257)
T ss_dssp T--HHTTS-------TSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHHHHHCT-TEEEEE
T ss_pred c--ccccc-------cceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHHHhhcc-eeeeee
Confidence 6 11111 2222233322 234555666665544458999998877643 3455666644 454454
Q ss_pred eecc-ccCCCChHH-HHHHh--CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 209 TYTT-EPVHHVDQT-VLKQA--LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 209 vY~~-~~~~~~~~~-~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
.|.. ........+ +.+.+ .++++|+.++...+. ...+.+.+... ....++++|
T Consensus 159 ~~~~~~~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~-g~~~al~~~g~~~~~~v~g~d 216 (257)
T PF13407_consen 159 EYEYTDWDPEDARQAIENLLQANPVDAIIACNDGMAL-GAAQALQQAGRAGKVIVVGFD 216 (257)
T ss_dssp EEEECTTSHHHHHHHHHHHHHHTTEEEEEESSHHHHH-HHHHHHHHTTCTTTSEEEEEE
T ss_pred eeeccCCCHHHHHHHHHHhhhcCCceEEEeCCChHHH-HHHHHHHHcCCcccceeecCC
Confidence 3322 221111111 22222 248889888888888 88887766543 244566654
No 77
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=94.29 E-value=0.71 Score=37.09 Aligned_cols=102 Identities=24% Similarity=0.410 Sum_probs=72.4
Q ss_pred CCCeEEEeCCC-----CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH-----HHHH
Q 024727 49 SNPKVVVTRER-----GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG-----SVFL 118 (263)
Q Consensus 49 ~g~~ILitr~~-----~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV-----~~~~ 118 (263)
...||++.... .+..-+.+.|++.|++|++.++.++. .+.+..++ .++.|.|...|-.+- ....
T Consensus 11 ~rprvlvak~GlDgHd~gakvia~~l~d~GfeVi~~g~~~tp----~e~v~aA~--~~dv~vIgvSsl~g~h~~l~~~lv 84 (143)
T COG2185 11 ARPRVLVAKLGLDGHDRGAKVIARALADAGFEVINLGLFQTP----EEAVRAAV--EEDVDVIGVSSLDGGHLTLVPGLV 84 (143)
T ss_pred CCceEEEeccCccccccchHHHHHHHHhCCceEEecCCcCCH----HHHHHHHH--hcCCCEEEEEeccchHHHHHHHHH
Confidence 34578877653 35667999999999999999998763 23445555 367889998887664 3455
Q ss_pred HHHHHcCCCCcEEEE---eChhHHHHHHHhhhhcCCCCceeecCCCC
Q 024727 119 EAWKEAGTPNVRIGV---VGAGTASIFEEVIQSSKCSLDVAFSPSKA 162 (263)
Q Consensus 119 ~~l~~~~~~~~~i~a---VG~~Ta~~L~~~~~~~~~G~~~~~~p~~~ 162 (263)
+.+.+.+.+++.+++ +.+...+.|+++ |+.-.|.|...
T Consensus 85 e~lre~G~~~i~v~~GGvip~~d~~~l~~~------G~~~if~pgt~ 125 (143)
T COG2185 85 EALREAGVEDILVVVGGVIPPGDYQELKEM------GVDRIFGPGTP 125 (143)
T ss_pred HHHHHhCCcceEEeecCccCchhHHHHHHh------CcceeeCCCCC
Confidence 666677777777555 345556779999 99988877543
No 78
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=94.27 E-value=1.4 Score=34.81 Aligned_cols=110 Identities=17% Similarity=0.182 Sum_probs=72.2
Q ss_pred CeEEEeCCC-----CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-----HHHHHHHH
Q 024727 51 PKVVVTRER-----GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-----AGSVFLEA 120 (263)
Q Consensus 51 ~~ILitr~~-----~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-----aV~~~~~~ 120 (263)
.+|++.... .+..-....|+..|++|+........ .+-++.+. -.+.|.|+.+|-. .+..+.+.
T Consensus 3 ~~v~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi~lg~~~s~----e~~v~aa~--e~~adii~iSsl~~~~~~~~~~~~~~ 76 (132)
T TIGR00640 3 PRILVAKMGQDGHDRGAKVIATAYADLGFDVDVGPLFQTP----EEIARQAV--EADVHVVGVSSLAGGHLTLVPALRKE 76 (132)
T ss_pred CEEEEEeeCCCccHHHHHHHHHHHHhCCcEEEECCCCCCH----HHHHHHHH--HcCCCEEEEcCchhhhHHHHHHHHHH
Confidence 456655443 23456788899999999999887432 12234444 3589999998866 34556666
Q ss_pred HHHcCCCCcEEEEeC---hhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhcc
Q 024727 121 WKEAGTPNVRIGVVG---AGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (263)
Q Consensus 121 l~~~~~~~~~i~aVG---~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (263)
+++.+.+++++++=| +...+.|++. |+...+.| ..+..+.++.+.+
T Consensus 77 L~~~g~~~i~vivGG~~~~~~~~~l~~~------Gvd~~~~~-gt~~~~i~~~l~~ 125 (132)
T TIGR00640 77 LDKLGRPDILVVVGGVIPPQDFDELKEM------GVAEIFGP-GTPIPESAIFLLK 125 (132)
T ss_pred HHhcCCCCCEEEEeCCCChHhHHHHHHC------CCCEEECC-CCCHHHHHHHHHH
Confidence 666666566766643 3346778888 99875555 4577777777654
No 79
>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=94.07 E-value=2.1 Score=36.97 Aligned_cols=183 Identities=11% Similarity=-0.001 Sum_probs=88.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l-~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
.+.+.++++|.....+....... .+.+...+.+..+ ...|.||+.+.. ....+++.+.+. +++++.++.....
T Consensus 20 ~i~~~~~~~g~~~~~~~~~~~~~-~~~~~~~~~i~~~~~~vdgiii~~~~~~~~~~~i~~~~~~---~ipvV~~~~~~~~ 95 (275)
T cd06307 20 ALEAAAAAFPDARIRVRIHFVES-FDPAALAAALLRLGARSDGVALVAPDHPQVRAAVARLAAA---GVPVVTLVSDLPG 95 (275)
T ss_pred HHHHHHhhhhccCceEEEEEccC-CCHHHHHHHHHHHHhcCCEEEEeCCCcHHHHHHHHHHHHC---CCcEEEEeCCCCC
Confidence 34455666776655543332211 1221112222211 279999998864 223445555543 6788888754211
Q ss_pred HHHHhhhhcCCCCceeecCCCCC-HHHHHHHhccC-CCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeeec
Q 024727 141 IFEEVIQSSKCSLDVAFSPSKAT-GKILASELPKN-GKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~-~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY~ 211 (263)
.. .+. .+..+.+. +....+.|.+. ...+++++++.|... ..-+.+.+++.|..+....++.
T Consensus 96 ---~~------~~~-~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~~a~~~~~~~~~~~~~~~ 165 (275)
T cd06307 96 ---SP------RAG-YVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFRSVLREEFPGLRVLETLE 165 (275)
T ss_pred ---Cc------eee-EEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHHHHHHhhCCCcEEEeecc
Confidence 01 111 12222222 33344555554 222468999987543 1234556666766554433332
Q ss_pred cccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 212 TEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
.........+ +.+.+ ..+++|+.++... . .+++.+.+... .++.|++++
T Consensus 166 ~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~-~-g~~~al~~~g~~~di~Ivg~d 219 (275)
T cd06307 166 GLDDPARAYEATRKLLARHPDLVGIYNAGGGN-R-GVIRALREAGRAGKVVFVGHE 219 (275)
T ss_pred CCCChHHHHHHHHHHHHhCCCceEEEECCCCh-H-HHHHHHHHcCCCCCcEEEEec
Confidence 2221111112 22222 3578888887654 6 77776665432 255666554
No 80
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=94.07 E-value=1.2 Score=35.23 Aligned_cols=99 Identities=20% Similarity=0.267 Sum_probs=66.9
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-----HHHHHHHHHHHcCCCCcEEEEeC
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-----AGSVFLEAWKEAGTPNVRIGVVG 135 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-----aV~~~~~~l~~~~~~~~~i~aVG 135 (263)
+..-+...|+.+|++|+++.+-... .+-++.+. ..+.|.|..+|-+ .++...+.+++.++.++++++=|
T Consensus 15 Gkniv~~~L~~~GfeVidLG~~v~~----e~~v~aa~--~~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~~v~vivGG 88 (128)
T cd02072 15 GNKILDHAFTEAGFNVVNLGVLSPQ----EEFIDAAI--ETDADAILVSSLYGHGEIDCKGLREKCDEAGLKDILLYVGG 88 (128)
T ss_pred HHHHHHHHHHHCCCEEEECCCCCCH----HHHHHHHH--HcCCCEEEEeccccCCHHHHHHHHHHHHHCCCCCCeEEEEC
Confidence 3456788899999999998775321 12233333 2478888776633 35666777777777678888766
Q ss_pred hh---------HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhc
Q 024727 136 AG---------TASIFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (263)
Q Consensus 136 ~~---------Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (263)
.- ....|++. |+...|.|. .+.+.+++.|.
T Consensus 89 ~~~i~~~d~~~~~~~L~~~------Gv~~vf~pg-t~~~~i~~~l~ 127 (128)
T cd02072 89 NLVVGKQDFEDVEKRFKEM------GFDRVFAPG-TPPEEAIADLK 127 (128)
T ss_pred CCCCChhhhHHHHHHHHHc------CCCEEECcC-CCHHHHHHHHh
Confidence 42 23569999 999877665 47778877764
No 81
>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=93.94 E-value=1 Score=38.27 Aligned_cols=179 Identities=12% Similarity=0.095 Sum_probs=89.0
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH--HHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG--SVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV--~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
.+.+.++++|+++...+.-.. +....+.++..+ ...+|.||+.+...- ....+.+.. .+++++++|.....
T Consensus 20 ~~~~~a~~~g~~~~~~~~~~~-~~~~~~~~~~l~--~~~vdgvi~~~~~~~~~~~~~~~l~~---~~ip~V~~~~~~~~- 92 (267)
T cd01536 20 GAEAAAKELGVELIVLDAQND-VSKQIQQIEDLI--AQGVDGIIISPVDSAALTPALKKANA---AGIPVVTVDSDIDG- 92 (267)
T ss_pred HHHHHHHhcCceEEEECCCCC-HHHHHHHHHHHH--HcCCCEEEEeCCCchhHHHHHHHHHH---CCCcEEEecCCCCc-
Confidence 344556677877776544321 000011223323 237999998765422 224444444 36788888764321
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCC-CeeeEEeeecc
Q 024727 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRG-FEVVRLNTYTT 212 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G-~~v~~~~vY~~ 212 (263)
.. ++.. +.++. ..+..+++.+.+.....+++.++.+... .+-+.+.+++.| .++..+ +..
T Consensus 93 --~~------~~~~-v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~--~~~ 161 (267)
T cd01536 93 --GN------RLAY-VGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRDALKEYPDIEIVAV--QDG 161 (267)
T ss_pred --cc------eeEE-EecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHHHHHhCCCcEEEEE--ecC
Confidence 12 2221 22332 2345556666554323588998876542 245667777774 554322 211
Q ss_pred ccCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEE
Q 024727 213 EPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACI 261 (263)
Q Consensus 213 ~~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~I 261 (263)
....... +.+.+.+ .++++|+.++...+. .+.+.+.+... .++.+++.
T Consensus 162 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~-~~~~~l~~~g~~~~i~ivg~ 214 (267)
T cd01536 162 NWDREKALQAMEDLLQANPDIDAIFAANDSMAL-GAVAALKAAGRKGDVKIVGV 214 (267)
T ss_pred CCcHHHHHHHHHHHHHhCCCccEEEEecCCchH-HHHHHHHhcCCCCCceEEec
Confidence 1111111 1122222 247888888866666 66666554322 24555544
No 82
>TIGR02853 spore_dpaA dipicolinic acid synthetase, A subunit. This predicted Rossman fold-containing protein is the A subunit of dipicolinic acid synthetase as found in most, though not all, endospore-forming low-GC Gram-positive bacteria; it is absent in Clostridium. The B subunit is represented by TIGR02852. This protein is also known as SpoVFA.
Probab=93.93 E-value=2.1 Score=38.46 Aligned_cols=175 Identities=15% Similarity=0.078 Sum_probs=102.0
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeee-CCC--chHHHHHHhcCCCccEEEEeCH----HH---------
Q 024727 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQ-GPD--TDRLSSVLNADTIFDWIIITSP----EA--------- 113 (263)
Q Consensus 50 g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~-~~~--~~~l~~~l~~l~~~d~IiFTS~----~a--------- 113 (263)
|++|.+.-.+.+.-++.+.|.+.|++|..+-+=+... ... ...+.+. .+.+.|+||+-=| .+
T Consensus 1 ~~~~~v~ggd~r~~~~~~~l~~~g~~v~~~g~~~~~~~~~~~~~~~~~~~--~~~~~~~~i~p~~~~~~~~~i~~~~~~~ 78 (287)
T TIGR02853 1 GIHIAVIGGDARQLELIRKLEELDAKISLIGFDQLEDGFTGAVKCELLEL--DLTTLDVVILPVPGTSHDGKVATVFSNE 78 (287)
T ss_pred CcEEEEEcccHHHHHHHHHHHHCCCEEEEEeccccccccccceeecchhh--hhccCCEEEECCccccCCceEecccccC
Confidence 6788999888888899999999999987653311100 000 0111111 2466778776333 21
Q ss_pred ---H-HHHHHHHHHcCCCCcEEEEeCh---hHHHHHHHhhhhcCCCCcee------ecC---CCCCHHHHHHHhccC---
Q 024727 114 ---G-SVFLEAWKEAGTPNVRIGVVGA---GTASIFEEVIQSSKCSLDVA------FSP---SKATGKILASELPKN--- 174 (263)
Q Consensus 114 ---V-~~~~~~l~~~~~~~~~i~aVG~---~Ta~~L~~~~~~~~~G~~~~------~~p---~~~t~e~L~~~l~~~--- 174 (263)
+ +.+++.+. ...+++.|- ...+++++. |+.+. -++ ...++++-+..+.+.
T Consensus 79 ~~~l~~~~l~~~~-----~~~~~~~G~~~~~l~~~a~~~------gi~v~~~~~~~~va~~n~~~~Ae~ai~~al~~~~~ 147 (287)
T TIGR02853 79 KVVLTPELLESTK-----GHCTIYVGISNPYLEQLAADA------GVKLIELFERDDVAIYNSIPTAEGAIMMAIEHTDF 147 (287)
T ss_pred CccccHHHHHhcC-----CCCEEEEecCCHHHHHHHHHC------CCeEEEEEeccceEEEccHhHHHHHHHHHHHhcCC
Confidence 1 12222221 222333332 223377888 98875 222 224566665544432
Q ss_pred CCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCC-----------ChHHHHHHhCCCCEEEEeCHHHH
Q 024727 175 GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH-----------VDQTVLKQALSIPVVAVASPSAV 240 (263)
Q Consensus 175 ~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~-----------~~~~~~~~l~~~d~vvFtS~s~v 240 (263)
...+++++++....-...+...|...|++| .+|.+..... ...++.+.+.+.|+|+.+.|..+
T Consensus 148 ~l~gk~v~IiG~G~iG~avA~~L~~~G~~V---~v~~R~~~~~~~~~~~g~~~~~~~~l~~~l~~aDiVint~P~~i 221 (287)
T TIGR02853 148 TIHGSNVMVLGFGRTGMTIARTFSALGARV---FVGARSSADLARITEMGLIPFPLNKLEEKVAEIDIVINTIPALV 221 (287)
T ss_pred CCCCCEEEEEcChHHHHHHHHHHHHCCCEE---EEEeCCHHHHHHHHHCCCeeecHHHHHHHhccCCEEEECCChHH
Confidence 246789999998887788999999999754 4555543210 11123333478999999998765
No 83
>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=93.77 E-value=1.4 Score=37.57 Aligned_cols=178 Identities=13% Similarity=0.049 Sum_probs=89.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~Ta 139 (263)
.+.+.++++|+++...+. . .+.+...+.++. ...+|.||+.+.. .....+..+.. .+++++.++..-.
T Consensus 20 ~i~~~~~~~g~~v~~~~~---~--~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~---~~ipvv~~~~~~~ 91 (268)
T cd06323 20 GAQKEAKELGYELTVLDA---Q--NDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANE---AGIPVFTIDREAN 91 (268)
T ss_pred HHHHHHHHcCceEEecCC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHH---CCCcEEEEccCCC
Confidence 455677788888865432 1 122211122221 2479999987643 22334444443 3678888875311
Q ss_pred HHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhC-CCeeeEEeee
Q 024727 140 SIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNR-GFEVVRLNTY 210 (263)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~-G~~v~~~~vY 210 (263)
. .. .+. .+..+.+ .+..+++.|.+.....++++++.|.... .-+.+.|+++ |.++.....+
T Consensus 92 ~---~~------~~~-~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~ 161 (268)
T cd06323 92 G---GE------VVS-QIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEVVDKYPGLKVVASQPA 161 (268)
T ss_pred C---Cc------eEE-EEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEEecccC
Confidence 0 01 111 1223333 2455666666643234789998775432 3345667763 6654321111
Q ss_pred ccccCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 211 TTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 211 ~~~~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
. ...... +.+.+.+ .++++|+.++...+. ..++.+.+....++.|++++
T Consensus 162 ~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-~~~~~l~~~g~~di~iig~d 214 (268)
T cd06323 162 D--FDRAKGLNVMENILQAHPDIKGVFAQNDEMAL-GAIEALKAAGKDDVKVVGFD 214 (268)
T ss_pred C--CCHHHHHHHHHHHHHHCCCcCEEEEcCCchHH-HHHHHHHHcCCCCcEEEEeC
Confidence 1 111111 1222322 357899888888777 66666554322355665554
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=93.75 E-value=1.9 Score=37.15 Aligned_cols=145 Identities=8% Similarity=0.033 Sum_probs=76.4
Q ss_pred CCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCC
Q 024727 101 TIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKK 177 (263)
Q Consensus 101 ~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~ 177 (263)
..+|.||+.+.. +..-.++.+.+ .+++++.+|.... .. . ..+..+. .....+++.+.+....
T Consensus 56 ~~~dgiIi~~~~~~~~~~~i~~~~~---~~ipvv~~~~~~~----~~-------~-~~V~~d~~~~g~~~~~~l~~~~~g 120 (271)
T cd06321 56 AKVDLILLNAVDSKGIAPAVKRAQA---AGIVVVAVDVAAE----GA-------D-ATVTTDNVQAGEISCQYLADRLGG 120 (271)
T ss_pred hCCCEEEEeCCChhHhHHHHHHHHH---CCCeEEEecCCCC----Cc-------c-ceeeechHHHHHHHHHHHHHHhCC
Confidence 578999987643 23334444443 2678999986321 11 1 1122232 2345556666654323
Q ss_pred CcEEEEEcCCCC------chhHHHHHHhC-CCeeeEEeeeccccCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHH
Q 024727 178 KCTVLYPASAKA------SNEIEEGLSNR-GFEVVRLNTYTTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVN 246 (263)
Q Consensus 178 ~~~vL~~~g~~~------~~~L~~~L~~~-G~~v~~~~vY~~~~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~ 246 (263)
.+++.++.|... ..-+.+.+++. |.+..... +......... +.+.+.+ .++++|+..+...+. ...+
T Consensus 121 ~~~i~~i~g~~~~~~~~R~~g~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~ 198 (271)
T cd06321 121 KGNVAILNGPPVSAVLDRVAGCKAALAKYPGIKLLSDD-QNGKGSRDGGLRVMQGLLTRFPKLDGVFAINDPTAI-GADL 198 (271)
T ss_pred CceEEEEeCCCCchHHHHHHHHHHHHHhCCCcEEEeee-cCCCCChhhHHHHHHHHHHhCCCCCEEEECCchhHH-HHHH
Confidence 478999988643 13344455555 44322111 1111111111 1222222 368999998887777 7777
Q ss_pred hccccCCCCceEEEEC
Q 024727 247 LISDTEQWSNSVACIA 262 (263)
Q Consensus 247 ~~~~~~~~~~~i~~IG 262 (263)
.+.+....++.|++++
T Consensus 199 al~~~g~~di~v~g~d 214 (271)
T cd06321 199 AAKQAGRNDIKITSVD 214 (271)
T ss_pred HHHHcCCCCcEEEEec
Confidence 7765544566777664
No 85
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=93.68 E-value=2 Score=37.86 Aligned_cols=179 Identities=8% Similarity=0.065 Sum_probs=93.1
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGT 138 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~T 138 (263)
..+.+.++++|+++...... .+.+.....++. ...+|.+|+++.. .....+..+.+ .+++++.++...
T Consensus 46 ~~i~~~~~~~G~~~~~~~~~-----~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~~~~---~~ipvV~~~~~~ 117 (295)
T PRK10653 46 DGAQKEADKLGYNLVVLDSQ-----NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKMANQ---ANIPVITLDRGA 117 (295)
T ss_pred HHHHHHHHHcCCeEEEecCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHH---CCCCEEEEccCC
Confidence 34556778889888764321 121111222221 2478988887643 22233344443 367888888542
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCC-HHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeee
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSKAT-GKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY 210 (263)
.. .. .+. .+.++.+. +..+++.+.+....+.+++++.|..+ ..-+.+.+++.|.++.. .+
T Consensus 118 ~~---~~------~~~-~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf~~al~~~g~~~~~--~~ 185 (295)
T PRK10653 118 TK---GE------VVS-HIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEGFKQAVAAHKFNVLA--SQ 185 (295)
T ss_pred CC---Cc------eee-EEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHHHHHHHhhCCCEEEE--ec
Confidence 10 01 122 13344444 36666777764322246777766432 35567788888876532 22
Q ss_pred ccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 211 TTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 211 ~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
..........+ +.+.+ .++++++.++-..+. .+++.+.+....++.|++++
T Consensus 186 ~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~-g~l~al~~~G~~dv~vig~d 240 (295)
T PRK10653 186 PADFDRTKGLNVMQNLLTAHPDVQAVFAQNDEMAL-GALRALQTAGKSDVMVVGFD 240 (295)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcCEEEECCChhHH-HHHHHHHHcCCCceEEEEeC
Confidence 21111001111 22222 257899999888887 77776655434466666654
No 86
>PRK09526 lacI lac repressor; Reviewed
Probab=93.59 E-value=1.4 Score=39.52 Aligned_cols=176 Identities=10% Similarity=0.021 Sum_probs=91.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
.+.+.++++|+++.....-. .+.+.....++. ...+|.||+.++..-+........ ..+++++.++..
T Consensus 84 gi~~~a~~~g~~~~i~~~~~----~~~~~~~~~l~~l~~~~vdGiii~~~~~~~~~~~~~~~--~~~iPvV~~d~~---- 153 (342)
T PRK09526 84 AIKSRADQLGYSVVISMVER----SGVEACQAAVNELLAQRVSGVIINVPLEDADAEKIVAD--CADVPCLFLDVS---- 153 (342)
T ss_pred HHHHHHHHCCCEEEEEeCCC----ChHHHHHHHHHHHHhcCCCEEEEecCCCcchHHHHHhh--cCCCCEEEEecc----
Confidence 34566678898887643211 111111122221 257999998633221222121111 136788888742
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
... ++.. +..+.+ .+..+++.|.+. ..++|+++.|.... .-+.+.|++.|+.+.. ++...
T Consensus 154 -~~~------~~~~-V~~d~~~~~~~a~~~L~~~--G~~~I~~l~g~~~~~~~~~R~~Gf~~al~~~gi~~~~--~~~~~ 221 (342)
T PRK09526 154 -PQS------PVNS-VSFDPEDGTRLGVEHLVEL--GHQRIALLAGPESSVSARLRLAGWLEYLTDYQLQPIA--VREGD 221 (342)
T ss_pred -CCC------CCCE-EEECcHHHHHHHHHHHHHC--CCCeEEEEeCCCccccHHHHHHHHHHHHHHcCCCcce--EEeCC
Confidence 122 3322 333333 335566777664 35799999886532 3356777888876432 22211
Q ss_pred cCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
...... +.+.+.+ ..+++|+.++-..+. .+++.+.+.. ..++.|+.++
T Consensus 222 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~-g~~~al~~~g~~vP~disvig~d 276 (342)
T PRK09526 222 WSAMSGYQQTLQMLREGPVPSAILVANDQMAL-GVLRALHESGLRVPGQISVIGYD 276 (342)
T ss_pred CchHHHHHHHHHHhcCCCCCcEEEEcCcHHHH-HHHHHHHHcCCCCCCceEEEeeC
Confidence 111111 1223323 257999999988887 7777766543 2356666654
No 87
>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=93.58 E-value=0.82 Score=39.59 Aligned_cols=179 Identities=13% Similarity=0.064 Sum_probs=90.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
..+.+.++++|.++.....-. .+.+ .++..+ ...+|.+|+++.. .+...++.+.+. +++++.++.
T Consensus 20 ~g~~~~~~~~g~~v~~~~~~~----~~~~~~~~~i~~l~--~~~vdgiii~~~~~~~~~~~l~~~~~~---~ipvV~~~~ 90 (271)
T cd06312 20 NGAEDAAKDLGVDVEYRGPET----FDVADMARLIEAAI--AAKPDGIVVTIPDPDALDPAIKRAVAA---GIPVISFNA 90 (271)
T ss_pred HHHHHHHHHhCCEEEEECCCC----CCHHHHHHHHHHHH--HhCCCEEEEeCCChHHhHHHHHHHHHC---CCeEEEeCC
Confidence 345566777888877553321 0211 222222 2479999998753 233444444443 578999874
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEe
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLN 208 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~ 208 (263)
.-...=... ++.. +..+. ..+..+++.|.+. ...++++++.|... ..-+.+.+++.|+.+.
T Consensus 91 ~~~~~~~~~------~~~~-V~~d~~~~g~~~~~~l~~~-~g~~~i~~i~g~~~~~~~~~r~~g~~~~~~~~~~~~~--- 159 (271)
T cd06312 91 GDPKYKELG------ALAY-VGQDEYAAGEAAGERLAEL-KGGKNVLCVIHEPGNVTLEDRCAGFADGLGGAGITEE--- 159 (271)
T ss_pred CCCcccccc------ceEE-eccChHHHHHHHHHHHHHh-cCCCeEEEEecCCCCccHHHHHHHHHHHHHhcCceee---
Confidence 321100001 2211 22222 3345555666652 23478988887433 2334455666665432
Q ss_pred eeccccCCCChH-HHHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 209 TYTTEPVHHVDQ-TVLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 209 vY~~~~~~~~~~-~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
.+.......... .+.+.+ .++|+|+.++...+. ...+.+.+... .++.+++++
T Consensus 160 ~~~~~~~~~~~~~~~~~~l~~~~~~~aI~~~~d~~a~-g~~~al~~~g~~~di~vvg~d 217 (271)
T cd06312 160 VIETGADPTEVASRIAAYLRANPDVDAVLTLGAPSAA-PAAKALKQAGLKGKVKLGGFD 217 (271)
T ss_pred EeecCCCHHHHHHHHHHHHHhCCCccEEEEeCCccch-HHHHHHHhcCCCCCeEEEEec
Confidence 121111111111 122222 358999999888777 66666654432 466777765
No 88
>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=93.57 E-value=1.1 Score=38.35 Aligned_cols=173 Identities=12% Similarity=0.076 Sum_probs=91.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++|+++...+.- .+.+...+.++. ...+|.||+++...- ...+.+ .++++++++....
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~~~~~~~dgiii~~~~~~---~~~~~~---~gipvv~~~~~~~- 86 (265)
T cd06291 19 RAVEKELYKKGYKLILCNSD-----NDPEKEREYLEMLRQNQVDGIIAGTHNLG---IEEYEN---IDLPIVSFDRYLS- 86 (265)
T ss_pred HHHHHHHHHCCCeEEEecCC-----ccHHHHHHHHHHHHHcCCCEEEEecCCcC---HHHHhc---CCCCEEEEeCCCC-
Confidence 34556778889887754321 111111122211 257999999876422 122222 3678999986431
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC-c-------hhHHHHHHhCCCeeeEEeeec
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-S-------NEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~-~-------~~L~~~L~~~G~~v~~~~vY~ 211 (263)
. ++.. +..+. ..+..+++.|.+. ..++++++.|... . .-+.+.|+++|.++..+.+ .
T Consensus 87 ----~------~~~~-V~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~-~ 152 (265)
T cd06291 87 ----E------NIPI-VSSDNYEGGRLAAEELIER--GCKHIAHIGGPNNTVSPTNLRYEGFLDVLKENGLEVRIIEI-Q 152 (265)
T ss_pred ----C------CCCe-EeechHHHHHHHHHHHHHc--CCcEEEEEccCcccccchHHHHHHHHHHHHHcCCCCChhee-e
Confidence 2 3322 22222 2345556666654 3478999987654 1 3356677788876543222 1
Q ss_pred cccCCCC-hHHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 212 TEPVHHV-DQTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~-~~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
....... .+.+.+.+ .++++|+..+...+. .+++.+.+.. ..++.+++++
T Consensus 153 ~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-~~~~al~~~g~~vp~di~v~g~d 209 (265)
T cd06291 153 ENFDDAEKKEEIKELLEEYPDIDGIFASNDLTAI-LVLKEAQQRGIRVPEDLQIIGYD 209 (265)
T ss_pred ccccchHHHHHHHHHHhCCCCCCEEEECChHHHH-HHHHHHHHcCCCCCcceEEeccC
Confidence 1111111 12233333 256888887777776 6766665543 2356666654
No 89
>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=93.55 E-value=0.93 Score=39.10 Aligned_cols=170 Identities=8% Similarity=-0.009 Sum_probs=94.3
Q ss_pred HHHHHHHHhCC-CcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHH-HHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHR-IDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSV-FLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G-~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~-~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++| +++...+.-. ...+.+...+ ...+|.+|+.|...-.. ....+++ .+.+++.+|.....
T Consensus 18 ~~i~~~l~~~g~~~l~~~~~~~----~~~~~~~~~~--~~~vdGvIi~~~~~~~~~~~~~~~~---~~~PvV~i~~~~~~ 88 (247)
T cd06276 18 NSFVNTLGKNAQVDLYFHHYNE----DLFKNIISNT--KGKYSGYVVMPHFKNEIQYFLLKKI---PKEKLLILDHSIPE 88 (247)
T ss_pred HHHHHHHHhcCcEEEEEEcCch----HHHHHHHHHH--hcCCCEEEEecCCCCcHHHHHHhcc---CCCCEEEEcCcCCC
Confidence 45667777889 7666543322 1111222222 36799999987642222 2222221 25789999964311
Q ss_pred HHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCC------chhHHHHHHhCCCeeeEEeeecccc
Q 024727 141 IFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~------~~~L~~~L~~~G~~v~~~~vY~~~~ 214 (263)
.. ++..........+..+++.+.+.....+++.++.+... ..-+.+.|++.|+++... .+
T Consensus 89 ---~~------~~~~V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~~-~~---- 154 (247)
T cd06276 89 ---GG------EYSSVAQDFEKAIYNALQEGLEKLKKYKKLILVFPNKTAIPKEIKRGFERFCKDYNIETEII-ND---- 154 (247)
T ss_pred ---CC------CCCeEEEccHHHHHHHHHHHHHHhcCCCEEEEEecCccHhHHHHHHHHHHHHHHcCCCcccc-cc----
Confidence 12 33322222234455666777662123589999987642 233556777888765421 10
Q ss_pred CCCChHHHHHHhCCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 215 VHHVDQTVLKQALSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 215 ~~~~~~~~~~~l~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.. . ..+.+.|+|+.+|-..+. .+++.+.+.. ..++.|++++
T Consensus 155 --~~-~---~~~~~~~ai~~~~d~~A~-g~~~~l~~~g~~iP~disvigfd 198 (247)
T cd06276 155 --YE-N---REIEKGDLYIILSDTDLV-FLIKKARESGLLLGKDIGIISYN 198 (247)
T ss_pred --cc-h---hhccCCcEEEEeCHHHHH-HHHHHHHHcCCcCCceeEEEEec
Confidence 00 0 112356999999999888 8877776553 3467777765
No 90
>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=93.49 E-value=1.7 Score=37.88 Aligned_cols=172 Identities=12% Similarity=0.075 Sum_probs=92.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (263)
..+.+.++++|+.+...+..+ + + ..+ ....+|.+|+.+...-...++.+.+ .+++++.+|.....
T Consensus 27 ~~i~~~~~~~gy~~~~~~~~~-----~-~---~~l-~~~~vdgiIi~~~~~~~~~~~~l~~---~~iPvV~i~~~~~~-- 91 (269)
T cd06287 27 AAAAESALERGLALCLVPPHE-----A-D---SPL-DALDIDGAILVEPMADDPQVARLRQ---RGIPVVSIGRPPGD-- 91 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCC-----c-h---hhh-hccCcCeEEEecCCCCCHHHHHHHH---cCCCEEEeCCCCCC--
Confidence 456678888999888765431 1 1 123 2357999998765432223333333 36789999864210
Q ss_pred HHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeeeccccC
Q 024727 143 EEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
.. ++.....-.......+++.|.+. ..++++++.|... ..-+.+.+++.|.....+.+ .....
T Consensus 92 -~~------~~~~V~~d~~~~~~~a~~~L~~~--G~~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g~~~~~~~~-~~~~~ 161 (269)
T cd06287 92 -RT------DVPYVDLQSAATARMLLEHLRAQ--GARQIALIVGSARRNSYLEAEAAYRAFAAEHGMPPVVLRV-DEAGG 161 (269)
T ss_pred -CC------CCCeEeeCcHHHHHHHHHHHHHc--CCCcEEEEeCCcccccHHHHHHHHHHHHHHcCCCcceeEe-cCCCC
Confidence 12 33322222223345556666654 2478999976543 12355677788876542211 11111
Q ss_pred CCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEE
Q 024727 216 HHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVAC 260 (263)
Q Consensus 216 ~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~ 260 (263)
.....+ +.+.+ ..+|+|+.+|...+. ..++.+.+.. ..++.|++
T Consensus 162 ~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~-gvl~al~~~gl~vP~dvsvig 212 (269)
T cd06287 162 EEAGYAACAQLLAQHPDLDALCVPVDAFAV-GAVRAATELGRAVPDQLRVVT 212 (269)
T ss_pred hHHHHHHHHHHHhCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCCceEEEe
Confidence 111112 22222 257999999888887 7777666543 23555654
No 91
>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=93.42 E-value=0.99 Score=38.95 Aligned_cols=182 Identities=12% Similarity=0.098 Sum_probs=87.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.+++.|+++..+....- +....+.++..+ ...+|.||+.+.. .....+..+.+. ++++++++...
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~~~-~~~~~~~i~~~~--~~~~dgiii~~~~~~~~~~~l~~~~~~---~ipvV~~~~~~-- 90 (277)
T cd06319 19 RGVKSKAKALGYDAVELSAENS-AKKELENLRTAI--DKGVSGIIISPTNSSAAVTLLKLAAQA---KIPVVIADIGA-- 90 (277)
T ss_pred HHHHHHHHhcCCeEEEecCCCC-HHHHHHHHHHHH--hcCCCEEEEcCCchhhhHHHHHHHHHC---CCCEEEEecCC--
Confidence 3445666778988865433110 000011122222 2579999887633 233444444443 67888887532
Q ss_pred HHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCC----CCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEe
Q 024727 141 IFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNG----KKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLN 208 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~----~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~ 208 (263)
... .....+.++.+ ....+++.|.+.. ...+++.++.+... ..-+.+.|++.|..+..+.
T Consensus 91 --~~~------~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~ 162 (277)
T cd06319 91 --EGG------DYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTKGFKEAMKEAGCDLAGIR 162 (277)
T ss_pred --CCC------ceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHHHHHHHHHhcCCceEeec
Confidence 111 11111223332 2334444444432 13468888876433 2345677888887654321
Q ss_pred eeccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 209 TYTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 209 vY~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
+..........+ +.+.+ .++++|+..+...+. ..++.+.+... .++.+++++
T Consensus 163 -~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~al~~~g~~~di~vvg~d 219 (277)
T cd06319 163 -QQKDFSYQETFDYTNDLLTANPDIRAIWLQGSDRYQ-GALDAIATAGKTGKVLLICFD 219 (277)
T ss_pred -cCCCCCHHHHHHHHHHHHHhCCCCCEEEECCCccch-HHHHHHHHcCCCCCEEEEEcC
Confidence 111111111111 22222 357787777766555 56555544332 356666654
No 92
>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=93.22 E-value=3.1 Score=35.73 Aligned_cols=176 Identities=11% Similarity=0.055 Sum_probs=91.3
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (263)
.+.+.++++|+++...+.-... .....+...+. -..+|.||+.+...-. .++.+.+. +++++.++..- .
T Consensus 23 ~i~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~l~-~~~vdgiii~~~~~~~-~~~~l~~~---~ipvV~~~~~~----~ 91 (268)
T cd06277 23 AIEEEAKKYGYNLILKFVSDED--EEEFELPSFLE-DGKVDGIILLGGISTE-YIKEIKEL---GIPFVLVDHYI----P 91 (268)
T ss_pred HHHHHHHHcCCEEEEEeCCCCh--HHHHHHHHHHH-HCCCCEEEEeCCCChH-HHHHHhhc---CCCEEEEccCC----C
Confidence 4556677789887765431110 00111222231 2579999998854322 23434332 67888887531 1
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccC
Q 024727 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
.. ++.. +..+. ..+...++.+.+. ..++++++.+.... .-+.+.+++.|.++....++...
T Consensus 92 ~~------~~~~-V~~d~~~~~~~a~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~-- 160 (268)
T cd06277 92 NE------KADC-VLTDNYSGAYAATEYLIEK--GHRKIGFVGDPLYSPSFEERYEGYKKALLDHGIPFNEDYDITEK-- 160 (268)
T ss_pred CC------CCCE-EEecchHHHHHHHHHHHHC--CCCcEEEECCCCCCcchHHHHHHHHHHHHHcCCCCCcceEEEcc--
Confidence 22 3332 22222 2334444555543 34789999776531 23456777788766443332211
Q ss_pred CCChHHHHHH---h-CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 216 HHVDQTVLKQ---A-LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 216 ~~~~~~~~~~---l-~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
....+.+.+. . ..+++|+..+...+. .+...+.+.. ..++.+++++
T Consensus 161 ~~~~~~~~~~l~~~~~~~~ai~~~~d~~a~-g~~~a~~~~g~~~p~di~vig~d 213 (268)
T cd06277 161 EEDEEDIGKFIDELKPLPTAFFCSNDGVAF-LLIKVLKEMGIRVPEDVSVIGFD 213 (268)
T ss_pred hhHHHHHHHHHhcCCCCCCEEEECCcHHHH-HHHHHHHHcCCCCCCcceEEeec
Confidence 1111122222 2 247888888887777 6766655443 2466677665
No 93
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=93.17 E-value=2.8 Score=33.36 Aligned_cols=110 Identities=19% Similarity=0.286 Sum_probs=69.9
Q ss_pred eEEEeCCCC-----ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH-----HHHHHHHH
Q 024727 52 KVVVTRERG-----KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA-----GSVFLEAW 121 (263)
Q Consensus 52 ~ILitr~~~-----~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a-----V~~~~~~l 121 (263)
+|++..... +...+...|+++|++|+++..-... .+-++.+. -.+.|.|..+|-++ ++.+.+.+
T Consensus 3 ~vvigtv~~D~HdiGk~iv~~~l~~~GfeVi~LG~~v~~----e~~v~aa~--~~~adiVglS~l~~~~~~~~~~~~~~l 76 (134)
T TIGR01501 3 TIVLGVIGSDCHAVGNKILDHAFTNAGFNVVNLGVLSPQ----EEFIKAAI--ETKADAILVSSLYGHGEIDCKGLRQKC 76 (134)
T ss_pred eEEEEEecCChhhHhHHHHHHHHHHCCCEEEECCCCCCH----HHHHHHHH--HcCCCEEEEecccccCHHHHHHHHHHH
Confidence 455554432 3456788999999999998775421 12233333 24788887766443 45566677
Q ss_pred HHcCCCCcEEEEeCh-----h-H---HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccC
Q 024727 122 KEAGTPNVRIGVVGA-----G-T---ASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (263)
Q Consensus 122 ~~~~~~~~~i~aVG~-----~-T---a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (263)
++.++.+.++++=|. . . .+.|++. |+...|.|.. ..+.+++.|.+.
T Consensus 77 ~~~gl~~~~vivGG~~vi~~~d~~~~~~~l~~~------Gv~~vF~pgt-~~~~iv~~l~~~ 131 (134)
T TIGR01501 77 DEAGLEGILLYVGGNLVVGKQDFPDVEKRFKEM------GFDRVFAPGT-PPEVVIADLKKD 131 (134)
T ss_pred HHCCCCCCEEEecCCcCcChhhhHHHHHHHHHc------CCCEEECcCC-CHHHHHHHHHHH
Confidence 777776766555441 1 1 2468998 9988776654 778888887653
No 94
>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=93.14 E-value=3.9 Score=34.99 Aligned_cols=178 Identities=11% Similarity=0.069 Sum_probs=90.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGT 138 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~T 138 (263)
..+.+.+++.|+++...+.. .-.+ .+.++..+ ...+|++|+++.. .....++.+.+. +++++.++...
T Consensus 19 ~~i~~~~~~~g~~~~i~~~~---~~~~~~~~~~~~~~--~~~vdgiii~~~~~~~~~~~~~~~~~~---~ipvV~~~~~~ 90 (267)
T cd06322 19 NAMKEEAKKQKVNLIVSIAN---QDLNKQLSDVEDFI--TKKVDAIVLSPVDSKGIRAAIAKAKKA---GIPVITVDIAA 90 (267)
T ss_pred HHHHHHHHhcCCEEEEecCC---CCHHHHHHHHHHHH--HcCCCEEEEcCCChhhhHHHHHHHHHC---CCCEEEEcccC
Confidence 45666777889887654321 1111 11222322 2579999997643 234444545443 57888887431
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCC-HHHHHHHhccCCCCCcEEEEEcCCCC------chhHHHHHHhC-CCeeeEEeee
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSKAT-GKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNR-GFEVVRLNTY 210 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~~~~~~~vL~~~g~~~------~~~L~~~L~~~-G~~v~~~~vY 210 (263)
... +....+..+.+. +...++.|.+.....+++.++.+... ..-+.+.+++. |.++... +
T Consensus 91 ----~~~------~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~ 158 (267)
T cd06322 91 ----EGV------AVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEALADYPNIKIVAV--Q 158 (267)
T ss_pred ----CCC------ceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHHHHhCCCcEEEEe--c
Confidence 111 111123333333 23345556554223468888876432 13345667777 7765332 1
Q ss_pred ccccCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 211 TTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 211 ~~~~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
.. ...... +.+.+.+ .++++|+..+...+. ...+.+.+....++.+++++
T Consensus 159 ~~-~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-~~~~al~~~g~~di~vvg~d 212 (267)
T cd06322 159 PG-ITRAEALTAAQNILQANPDLDGIFAFGDDAAL-GAVSAIKAAGRDNVKVIGFD 212 (267)
T ss_pred CC-CChHHHHHHHHHHHHhCCCCCEEEEcCCcHHH-HHHHHHHHCCCCCeEEEEec
Confidence 11 111111 1122222 358999988888777 66666654333456666654
No 95
>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=93.13 E-value=2.8 Score=34.82 Aligned_cols=148 Identities=14% Similarity=0.102 Sum_probs=82.6
Q ss_pred CCccEEEEeCHHHHHH-HHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCC
Q 024727 101 TIFDWIIITSPEAGSV-FLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKK 178 (263)
Q Consensus 101 ~~~d~IiFTS~~aV~~-~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~ 178 (263)
..+|.|+......... ....+... +++++++|....... .. .....+.+.. .....+++.+.+.. .
T Consensus 57 ~~~d~ii~~~~~~~~~~~~~~~~~~---~ip~v~~~~~~~~~~-~~------~~~~~~~~~~~~~~~~~~~~l~~~~--~ 124 (269)
T cd01391 57 QGVDGIIGPPSSSSALAVVELAAAA---GIPVVSLDATAPDLT-GY------PYVFRVGPDNEQAGEAAAEYLAEKG--W 124 (269)
T ss_pred cCCCEEEecCCCHHHHHHHHHHHHc---CCcEEEecCCCCccC-CC------ceEEEEcCCcHHHHHHHHHHHHHhC--C
Confidence 4789999876643332 44444443 678888876543221 11 1112233333 23456666666654 5
Q ss_pred cEEEEEcCCCC------chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--C-CCCEEEEeCHHHHHHHHHHhcc
Q 024727 179 CTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--L-SIPVVAVASPSAVRSSWVNLIS 249 (263)
Q Consensus 179 ~~vL~~~g~~~------~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~-~~d~vvFtS~s~v~~~~~~~~~ 249 (263)
+++.++.+... ...+.+.+++.|.++.....+.... +...+.+.+.+ . ++++|++.+...+. .+++.+.
T Consensus 125 ~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~i~~~~~~~a~-~~~~~~~ 202 (269)
T cd01391 125 KRVALIYGDDGAYGRERLEGFKAALKKAGIEVVAIEYGDLDT-EKGFQALLQLLKAAPKPDAIFACNDEMAA-GALKAAR 202 (269)
T ss_pred ceEEEEecCCcchhhHHHHHHHHHHHhcCcEEEeccccCCCc-cccHHHHHHHHhcCCCCCEEEEcCchHHH-HHHHHHH
Confidence 78888887662 2455667777775554333333221 11223334434 2 58999999888888 7877766
Q ss_pred ccCC--CCceEEEEC
Q 024727 250 DTEQ--WSNSVACIA 262 (263)
Q Consensus 250 ~~~~--~~~~i~~IG 262 (263)
+... .+..+++++
T Consensus 203 ~~g~~~~~~~ii~~~ 217 (269)
T cd01391 203 EAGLTPGDISIIGFD 217 (269)
T ss_pred HcCCCCCCCEEEecc
Confidence 5432 356666553
No 96
>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=93.11 E-value=1.4 Score=37.87 Aligned_cols=173 Identities=8% Similarity=0.020 Sum_probs=92.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchH---HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDR---LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~---l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta 139 (263)
+.+.+.+++.|+++..... . .+.+. +...+ ....+|.||+++...-..... +.. .+.+++.+|....
T Consensus 19 ~~i~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l-~~~~~dgiii~~~~~~~~~~~-~~~---~~iPvV~~~~~~~ 88 (263)
T cd06280 19 RAVEDAAYRAGLRVILCNT---D--EDPEKEAMYLELM-EEERVTGVIFAPTRATLRRLA-ELR---LSFPVVLIDRAGP 88 (263)
T ss_pred HHHHHHHHHCCCEEEEEeC---C--CCHHHHHHHHHHH-HhCCCCEEEEeCCCCCchHHH-HHh---cCCCEEEECCCCC
Confidence 3456777888988864321 1 12221 11222 135799999988653322222 222 3678999986542
Q ss_pred HHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC------chhHHHHHHhCCCeeeEEeeecc
Q 024727 140 SIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~------~~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
.. .+.. +..+. ..+..+++.|.+. ..+++.++.|... ..-+.+.+++.|.......+
T Consensus 89 ----~~------~~~~-v~~d~~~~g~~a~~~L~~~--g~~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~--- 152 (263)
T cd06280 89 ----AG------RVDA-VVLDNRAAARTLVEHLVAQ--GYRRIGGLFGNASTTGAERRAGYEDAMRRHGLAPDARFV--- 152 (263)
T ss_pred ----CC------CCCE-EEECcHHHHHHHHHHHHHC--CCceEEEEeCCCCCCHHHHHHHHHHHHHHcCCCCChhhc---
Confidence 12 2332 22222 3345556666654 2468888877533 23345566777765432111
Q ss_pred ccCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 213 EPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 213 ~~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
....... +.+.+.+ ..+++|+.++...+. .+++.+.+.. ..++.|++++
T Consensus 153 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~~p~di~iig~d 208 (263)
T cd06280 153 APTAEAAEAALAAWLAAPERPEALVASNGLLLL-GALRAVRAAGLRIPQDLALAGFD 208 (263)
T ss_pred ccCHHHHHHHHHHHhcCCCCCcEEEECCcHHHH-HHHHHHHHcCCCCCCcEEEEEeC
Confidence 1111111 2233333 257899999998887 7777776543 2466666654
No 97
>PRK08306 dipicolinate synthase subunit A; Reviewed
Probab=93.07 E-value=2.7 Score=37.84 Aligned_cols=175 Identities=14% Similarity=0.100 Sum_probs=100.9
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCC-C---chHHHHHHhcCCCccEEEEeCHH--------HH---
Q 024727 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGP-D---TDRLSSVLNADTIFDWIIITSPE--------AG--- 114 (263)
Q Consensus 50 g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~-~---~~~l~~~l~~l~~~d~IiFTS~~--------aV--- 114 (263)
|+++.+.-.+.+.-++.+.|.+.|++|...-+-.-.... . ....++. +.+.|.|++--|- +.
T Consensus 2 ~~~~~v~ggd~r~~~~~~~l~~~G~~v~~~g~~~~~~~~~g~~~~~~~~~~---~~~ad~ii~~~p~~~~~~~i~~~~~~ 78 (296)
T PRK08306 2 GKHIAVIGGDARQLELIRKLVELGAKVSLVGFDQLDHGFTGATKSSSLEEA---LSDVDVIILPVPGTNDEGNVDTVFSN 78 (296)
T ss_pred CcEEEEEcCcHHHHHHHHHHHHCCCEEEEEeccccccccCCceeeccHHHH---hccCCEEEECCccccCCceeeccccc
Confidence 788999988888889999999999999973221111100 0 0011222 4678999977332 11
Q ss_pred ------HHHHHHHHHcCCCCcEE-EEeChhHHHHHHHhhhhcCCCCceeecCC---------CCCHHHHH-HHhccCC--
Q 024727 115 ------SVFLEAWKEAGTPNVRI-GVVGAGTASIFEEVIQSSKCSLDVAFSPS---------KATGKILA-SELPKNG-- 175 (263)
Q Consensus 115 ------~~~~~~l~~~~~~~~~i-~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~---------~~t~e~L~-~~l~~~~-- 175 (263)
+..++.+.+ ...-+ .++-+...+.+++. |+.+.-.++ ..+.++-+ ..+....
T Consensus 79 ~~~~~~~~~l~~l~~---~~~v~~G~~~~~~~~~~~~~------gi~~~~~~~~~~~~~~ns~~~aegav~~a~~~~~~~ 149 (296)
T PRK08306 79 EKLVLTEELLELTPE---HCTIFSGIANPYLKELAKET------NRKLVELFERDDVAILNSIPTAEGAIMMAIEHTPIT 149 (296)
T ss_pred cCCcchHHHHHhcCC---CCEEEEecCCHHHHHHHHHC------CCeEEEEeccchhhhhccHhHHHHHHHHHHHhCCCC
Confidence 223332221 12122 23346666777777 998742221 13444433 3333322
Q ss_pred CCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCC-----------ChHHHHHHhCCCCEEEEeCHHH
Q 024727 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH-----------VDQTVLKQALSIPVVAVASPSA 239 (263)
Q Consensus 176 ~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~-----------~~~~~~~~l~~~d~vvFtS~s~ 239 (263)
..+++++++........+...|+..|++ +.+|.+.+... ..+.+.+.+.+.|+|+-|.|..
T Consensus 150 l~g~kvlViG~G~iG~~~a~~L~~~Ga~---V~v~~r~~~~~~~~~~~G~~~~~~~~l~~~l~~aDiVI~t~p~~ 221 (296)
T PRK08306 150 IHGSNVLVLGFGRTGMTLARTLKALGAN---VTVGARKSAHLARITEMGLSPFHLSELAEEVGKIDIIFNTIPAL 221 (296)
T ss_pred CCCCEEEEECCcHHHHHHHHHHHHCCCE---EEEEECCHHHHHHHHHcCCeeecHHHHHHHhCCCCEEEECCChh
Confidence 3578999998877677788899999975 45555443210 0112333346899999998854
No 98
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=93.07 E-value=1.6 Score=33.82 Aligned_cols=97 Identities=11% Similarity=0.097 Sum_probs=62.7
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-----HHHHHHHHHHHcCCCCcEEEEeChh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-----AGSVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-----aV~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
.-....|+..|++++++... .| .+++.+... -.++|.|++++.. .++.+.+.+++.+.+++++++-|..
T Consensus 17 ~~~~~~l~~~G~~vi~lG~~--vp---~e~~~~~a~-~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~ 90 (122)
T cd02071 17 KVIARALRDAGFEVIYTGLR--QT---PEEIVEAAI-QEDVDVIGLSSLSGGHMTLFPEVIELLRELGAGDILVVGGGII 90 (122)
T ss_pred HHHHHHHHHCCCEEEECCCC--CC---HHHHHHHHH-HcCCCEEEEcccchhhHHHHHHHHHHHHhcCCCCCEEEEECCC
Confidence 34667788999999988765 22 123333332 3578888877543 3456666677766667788777644
Q ss_pred HH---HHHHHhhhhcCCCCceeecCCCCCHHHHHHHhc
Q 024727 138 TA---SIFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (263)
Q Consensus 138 Ta---~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (263)
.. +.+++. |++. +.....+.+..+..|.
T Consensus 91 ~~~~~~~~~~~------G~d~-~~~~~~~~~~~~~~~~ 121 (122)
T cd02071 91 PPEDYELLKEM------GVAE-IFGPGTSIEEIIDKIR 121 (122)
T ss_pred CHHHHHHHHHC------CCCE-EECCCCCHHHHHHHHh
Confidence 33 346677 9986 4455677788776664
No 99
>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=93.01 E-value=2.5 Score=37.55 Aligned_cols=182 Identities=9% Similarity=0.049 Sum_probs=87.4
Q ss_pred HHHHHHHh--CCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeC--HHHHHHHHHHHHHcCCCCcEEEEeC
Q 024727 64 KLIKALAK--HRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITS--PEAGSVFLEAWKEAGTPNVRIGVVG 135 (263)
Q Consensus 64 ~l~~~L~~--~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS--~~aV~~~~~~l~~~~~~~~~i~aVG 135 (263)
.+.+.+++ .|+++...+.- .+.+ .++..+ ...+|.||+.. +.++...++.+... ++++++++
T Consensus 20 gi~~~a~~~~~g~~~~~~~~~-----~~~~~q~~~i~~l~--~~~vdgiii~~~~~~~~~~~~~~~~~~---giPvV~~~ 89 (303)
T cd01539 20 NLEDIQKENGGKVEFTFYDAK-----NNQSTQNEQIDTAL--AKGVDLLAVNLVDPTAAQTVINKAKQK---NIPVIFFN 89 (303)
T ss_pred HHHHHHHhhCCCeeEEEecCC-----CCHHHHHHHHHHHH--HcCCCEEEEecCchhhHHHHHHHHHHC---CCCEEEeC
Confidence 45556666 56666554331 1211 233333 25799988864 33445555544443 67899998
Q ss_pred hhHHHH-HHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCC---------c--EEEEEcCCCCc-------hhHHH
Q 024727 136 AGTASI-FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKK---------C--TVLYPASAKAS-------NEIEE 195 (263)
Q Consensus 136 ~~Ta~~-L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~---------~--~vL~~~g~~~~-------~~L~~ 195 (263)
...... ....- .+. .+..+. .....+++.|.+....+ + .++++.|.... .-+.+
T Consensus 90 ~~~~~~~~~~~~-----~~~-~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~~~~~R~~gf~~ 163 (303)
T cd01539 90 REPEEEDIKSYD-----KAY-YVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHPDAIARTKYSIE 163 (303)
T ss_pred CCCccccccccc-----ccc-eeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCchhhhhhhhHHH
Confidence 643211 11110 111 122232 23344445554431111 2 35667775432 23566
Q ss_pred HHHhCCCeeeEEeeeccccCCCChH-HHHHHh---C-CCCEEEEeCHHHHHHHHHHhccccC--C----CCceEEEEC
Q 024727 196 GLSNRGFEVVRLNTYTTEPVHHVDQ-TVLKQA---L-SIPVVAVASPSAVRSSWVNLISDTE--Q----WSNSVACIA 262 (263)
Q Consensus 196 ~L~~~G~~v~~~~vY~~~~~~~~~~-~~~~~l---~-~~d~vvFtS~s~v~~~~~~~~~~~~--~----~~~~i~~IG 262 (263)
.|+++|.++....+........... .+.+.+ . .+++|+..+...+. ...+.+.+.. . .++.+++++
T Consensus 164 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~ai~~~~d~~a~-g~~~al~~~g~~~p~~~~di~iig~d 240 (303)
T cd01539 164 TLNDAGIKTEELASDTANWDRAQAKDKMDALLLKYGDKIEAVIANNDAMAL-GAIEALQKYGYNKGDKSKNIPVVGVD 240 (303)
T ss_pred HHHhcCCCeEEEEeecCCCCHHHHHHHHHHHHHhcCCCccEEEECCchHHH-HHHHHHHHcCCCcCCCCCceEEEccC
Confidence 7878887765444332222111111 122222 1 37888888777665 5555554432 1 256666554
No 100
>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=92.93 E-value=4.2 Score=35.07 Aligned_cols=170 Identities=12% Similarity=-0.007 Sum_probs=92.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (263)
..+.+.++++|+++..... .... . . ....+|.+|+.+...- ..+..+.+. +++++.+|....
T Consensus 24 ~gi~~~~~~~g~~~~~~~~------~~~~--~--~-~~~~vdgii~~~~~~~-~~~~~~~~~---~~pvV~~~~~~~--- 85 (270)
T cd01544 24 LGIEKRAQELGIELTKFFR------DDDL--L--E-ILEDVDGIIAIGKFSQ-EQLAKLAKL---NPNLVFVDSNPA--- 85 (270)
T ss_pred HHHHHHHHHcCCEEEEEec------cchh--H--H-hccCcCEEEEecCCCH-HHHHHHHhh---CCCEEEECCCCC---
Confidence 3556778888988876543 1111 1 1 2467899998654322 223333332 578999986432
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC------------chhHHHHHHhCCCeeeEEee
Q 024727 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA------------SNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~------------~~~L~~~L~~~G~~v~~~~v 209 (263)
+. ++.. +..+. ..+..+++.+.+. ..++++++.+... ..-+.+.+.++|. .....+
T Consensus 86 -~~------~~~~-v~~D~~~a~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~-~~~~~~ 154 (270)
T cd01544 86 -PD------GFDS-VVPDFEQAVEKALDYLLEL--GHTRIGFIGGEEKTTDGHEYIEDPRETAFREYMKEKGL-YDPELI 154 (270)
T ss_pred -CC------CCCE-EEECHHHHHHHHHHHHHHc--CCCcEEEECCCcccccccchhhhHHHHHHHHHHHHcCC-CChheE
Confidence 12 3332 22333 3345556666653 3478999987642 2234567777773 222223
Q ss_pred eccccCCCChHH-HHHHh-----CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 210 YTTEPVHHVDQT-VLKQA-----LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 210 Y~~~~~~~~~~~-~~~~l-----~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
+..........+ +.+.+ ..+|+|+..+...+. .+++.+.+.. ..++.|++.+
T Consensus 155 ~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~vp~di~v~g~d 215 (270)
T cd01544 155 YIGDFTVESGYQLMKEALKSLGDNLPTAFFIASDPMAI-GALRALQEAGIKVPEDVSVISFN 215 (270)
T ss_pred eeCCCCHHHHHHHHHHHHhccCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCCceEEEEEC
Confidence 332221111112 22222 247899999988888 7877776543 2467777765
No 101
>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=92.88 E-value=2.3 Score=37.94 Aligned_cols=175 Identities=10% Similarity=0.055 Sum_probs=89.8
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~a-V~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
.+.+.++++|+.+....... +.+.....+.. ...+|.||+.+... ....+..+.+. +++++.+|....
T Consensus 81 ~i~~~~~~~gy~~~i~~~~~-----~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~---~iPvV~~~~~~~- 151 (327)
T TIGR02417 81 ELEQQCREAGYQLLIACSDD-----NPDQEKVVIENLLARQVDALIVASCMPPEDAYYQKLQNE---GLPVVALDRSLD- 151 (327)
T ss_pred HHHHHHHHCCCEEEEEeCCC-----CHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHHHHhc---CCCEEEEccccC-
Confidence 45556678898887654311 11111112211 25799999876432 22333444332 578999986421
Q ss_pred HHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeecc
Q 024727 141 IFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
.. ++.. +..+.+ .+..+++.|.+.. .++|.++.|.... .-+.+.|++.|..+. .++..
T Consensus 152 ---~~------~~~~-V~~dn~~~~~~~~~~L~~~G--~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~--~~~~~ 217 (327)
T TIGR02417 152 ---DE------HFCS-VISDDVDAAAELIERLLSQH--ADEFWYLGAQPELSVSRDRLAGFRQALKQATLEVE--WVYGG 217 (327)
T ss_pred ---CC------CCCE-EEeCcHHHHHHHHHHHHHCC--CCeEEEEeCcccchhHHHHHHHHHHHHHHcCCChH--hEEeC
Confidence 22 3332 233333 3345556665543 4789999876531 335567777876532 12221
Q ss_pred ccCCCChHH-HHHHh---C-CCCEEEEeCHHHHHHHHHHhccccC--CCCceEEEEC
Q 024727 213 EPVHHVDQT-VLKQA---L-SIPVVAVASPSAVRSSWVNLISDTE--QWSNSVACIA 262 (263)
Q Consensus 213 ~~~~~~~~~-~~~~l---~-~~d~vvFtS~s~v~~~~~~~~~~~~--~~~~~i~~IG 262 (263)
........+ +.+.+ . .+++|+..+-..+. .+++.+.+.. ..++.|++++
T Consensus 218 ~~~~~~~~~~~~~ll~~~~~~~~Ai~~~~D~~A~-g~~~al~~~g~vP~dvsvigfd 273 (327)
T TIGR02417 218 NYSRESGYQMFAKLCARLGRLPQALFTTSYTLLE-GVLDYMLERPLLDSQLHLATFG 273 (327)
T ss_pred CCChHHHHHHHHHHHhcCCCCCcEEEEcCcHHHH-HHHHHHHHcCCCCCcceEEEEC
Confidence 111111212 22322 2 37888888866665 5555544332 3467777765
No 102
>PRK09492 treR trehalose repressor; Provisional
Probab=92.86 E-value=5.1 Score=35.40 Aligned_cols=171 Identities=9% Similarity=0.031 Sum_probs=90.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++|+++..... . .+.+.....++ ....+|.+|+.+..... .+.+... +.+++++|..
T Consensus 82 ~~i~~~~~~~gy~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~--~~~l~~~---~~pvv~i~~~--- 148 (315)
T PRK09492 82 RTMLPAFYEQGYDPIIMES---Q--FSPEKVNEHLGVLKRRNVDGVILFGFTGIT--EEMLAPW---QDKLVLLARD--- 148 (315)
T ss_pred HHHHHHHHHcCCeEEEEec---C--CChHHHHHHHHHHHhcCCCEEEEeCCCccc--HHHHHhc---CCCEEEEecc---
Confidence 3456677788988764322 1 12111112222 12569999987632211 1222222 3568888752
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC--------chhHHHHHHhCCCeeeEEeeec
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~~~vY~ 211 (263)
.. ++.. +..+. .....+++.|.+. ..++|.++.+... ..-+.+.|++.|+.+.. +.
T Consensus 149 ---~~------~~~~-V~~D~~~~~~~a~~~L~~~--G~~~I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~~~~~---~~ 213 (315)
T PRK09492 149 ---AK------GFSS-VCYDDEGAIKLLMQRLYDQ--GHRHISYLGVDHSDVTTGKRRHQAYLAFCKQHKLTPVA---AL 213 (315)
T ss_pred ---CC------CCcE-EEECcHHHHHHHHHHHHHc--CCCeEEEEcCCcccchhHHHHHHHHHHHHHHcCCCcee---ec
Confidence 12 3332 23333 3345566777654 3478999975321 23456778888876532 11
Q ss_pred cccCCCChHHHH-HHh-CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 212 TEPVHHVDQTVL-KQA-LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~~~~~~-~~l-~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
.........+.. +.+ .++|+|+..|-..+. .+++.+.+....++.|++++
T Consensus 214 ~~~~~~~~~~~~~~~l~~~~~ai~~~~D~~A~-g~~~al~~~g~~disvig~d 265 (315)
T PRK09492 214 GGLSMQSGYELVAKVLTPETTALVCATDTLAL-GASKYLQEQGRDDIQVAGVG 265 (315)
T ss_pred CCCCchHHHHHHHHHhhcCCCEEEEcCcHHHH-HHHHHHHHcCCCceEEEeeC
Confidence 111111111222 222 478999999988777 77777665444566666654
No 103
>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=92.84 E-value=3.3 Score=35.65 Aligned_cols=144 Identities=17% Similarity=0.023 Sum_probs=76.0
Q ss_pred CCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCC
Q 024727 101 TIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKK 177 (263)
Q Consensus 101 ~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~ 177 (263)
.++|.||+.+.. .....+..+.+ .+++++.++..... . ++. .+.++.+ .+..+++.|.+....
T Consensus 59 ~~vdgiIi~~~~~~~~~~~l~~~~~---~~iPvv~~~~~~~~----~------~~~-~v~~d~~~~g~~~~~~l~~~~~g 124 (272)
T cd06300 59 QGVDAIIINPASPTALNPVIEEACE---AGIPVVSFDGTVTT----P------CAY-NVNEDQAEFGKQGAEWLVKELGG 124 (272)
T ss_pred cCCCEEEEeCCChhhhHHHHHHHHH---CCCeEEEEecCCCC----C------cee-EecCCHHHHHHHHHHHHHHHcCC
Confidence 489999997643 33434444444 36789888753211 2 221 1223332 345556666665434
Q ss_pred CcEEEEEcCCCC-------chhHHHHHHhCC-CeeeEEeeeccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHH
Q 024727 178 KCTVLYPASAKA-------SNEIEEGLSNRG-FEVVRLNTYTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWV 245 (263)
Q Consensus 178 ~~~vL~~~g~~~-------~~~L~~~L~~~G-~~v~~~~vY~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~ 245 (263)
.++++++.|... ..-+.+.+++.| +++.. ++..........+ +.+.+ .++++|+..+.. +. ...
T Consensus 125 ~~~i~~i~~~~~~~~~~~R~~g~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~-A~-g~~ 200 (272)
T cd06300 125 KGNVLVVRGLAGHPVDEDRYAGAKEVLKEYPGIKIVG--EVYGDWDQAVAQKAVADFLASNPDVDGIWTQGGD-AV-GAV 200 (272)
T ss_pred CceEEEEECCCCCcchHHHHHHHHHHHHHCCCcEEEe--ecCCCCCHHHHHHHHHHHHHhCCCcCEEEecCCC-cH-HHH
Confidence 578999987532 234566777776 66542 2221111111111 22222 257999998888 76 677
Q ss_pred HhccccCCCCceEEEEC
Q 024727 246 NLISDTEQWSNSVACIA 262 (263)
Q Consensus 246 ~~~~~~~~~~~~i~~IG 262 (263)
+.+.+.......++++|
T Consensus 201 ~al~~~g~~~p~v~g~d 217 (272)
T cd06300 201 QAFEQAGRDIPPVTGED 217 (272)
T ss_pred HHHHHcCCCCcEEEeeC
Confidence 76655433222444443
No 104
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=92.83 E-value=3.7 Score=37.06 Aligned_cols=177 Identities=10% Similarity=0.043 Sum_probs=90.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
.+.+.++++|+.+...... .+.+.....++. ...+|.||+.+...-...+..+... ..+++.+|...
T Consensus 80 gi~~~~~~~gy~~~~~~~~-----~~~~~~~~~i~~l~~~~vdGiIi~~~~~~~~~~~~~~~~---~p~vV~i~~~~--- 148 (346)
T PRK10401 80 AVDLVAQQHQKYVLIGNSY-----HEAEKERHAIEVLIRQRCNALIVHSKALSDDELAQFMDQ---IPGMVLINRVV--- 148 (346)
T ss_pred HHHHHHHHCCCEEEEEcCC-----CChHHHHHHHHHHHhcCCCEEEEeCCCCChHHHHHHHhc---CCCEEEEeccc---
Confidence 3455677789887643321 111111122221 2579999998632111111112111 12377787532
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeeeccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
... ++.. +..+.+ .....++.|.+. ..+++.++.|... ..-+.+.|++.|+.+....++...
T Consensus 149 -~~~------~~~~-V~~D~~~~~~~a~~~L~~~--G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~ 218 (346)
T PRK10401 149 -PGY------AHRC-VCLDNVSGARMATRMLLNN--GHQRIGYLSSSHGIEDDAMRRAGWMSALKEQGIIPPESWIGTGT 218 (346)
T ss_pred -CCC------CCCE-EEECcHHHHHHHHHHHHHC--CCCeEEEEeCCCcCcchHHHHHHHHHHHHHcCCCCChhheecCC
Confidence 112 3322 223332 234445666554 3478999977543 133567788888765543333322
Q ss_pred cCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 214 PVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 214 ~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
...... +.+.+.+ ..+++|+..+-..+. .+++.+.+.. ..++.|++++
T Consensus 219 ~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~A~-g~~~al~~~G~~vP~disvigfD 273 (346)
T PRK10401 219 PDMQGGEAAMVELLGRNLQLTAVFAYNDNMAA-GALTALKDNGIAIPLHLSIIGFD 273 (346)
T ss_pred CChHHHHHHHHHHHcCCCCCcEEEECCcHHHH-HHHHHHHHcCCCCCCceEEEEeC
Confidence 211111 1222323 257999999988887 7777776543 2466777664
No 105
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=92.69 E-value=1.9 Score=38.85 Aligned_cols=174 Identities=8% Similarity=0.007 Sum_probs=88.8
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcE-EEEeChhH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVR-IGVVGAGT 138 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~-i~aVG~~T 138 (263)
.+.+.++++|+.+...... .+.+ .++..+ ...+|.||+.+...-...+..+.+ +.+ +++++...
T Consensus 80 gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~--~~~vdgiIi~~~~~~~~~~~~~~~----~~p~vV~i~~~~ 148 (343)
T PRK10727 80 AVEQVAYHTGNFLLIGNGY-----HNEQKERQAIEQLI--RHRCAALVVHAKMIPDAELASLMK----QIPGMVLINRIL 148 (343)
T ss_pred HHHHHHHHcCCEEEEEeCC-----CCHHHHHHHHHHHH--hcCCCEEEEecCCCChHHHHHHHh----cCCCEEEEecCC
Confidence 3445667788876543221 1211 122222 257999999764211111222222 344 77887532
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCC-HHHHHHHhccCCCCCcEEEEEcCCCC-------chhHHHHHHhCCCeeeEEeee
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSKAT-GKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~~~~~~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~~~vY 210 (263)
... ++.. +..+++. ....++.|.+. ..++|.++.|... ..-+.+.|++.|+.+....++
T Consensus 149 ----~~~------~~~~-V~~Dn~~~~~~a~~~L~~~--G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~ 215 (343)
T PRK10727 149 ----PGF------ENRC-IALDDRYGAWLATRHLIQQ--GHTRIGYLCSNHSISDAEDRLQGYYDALAESGIPANDRLVT 215 (343)
T ss_pred ----CCC------CCCE-EEECcHHHHHHHHHHHHHC--CCccEEEEeCCccccchHHHHHHHHHHHHHCCCCCChhhEE
Confidence 112 3322 3334333 33445556554 3478999987543 234567788888876543333
Q ss_pred ccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 211 TTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 211 ~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
..........+ +.+.+ ..+++|+..+-..+- ..++.+.+.. ..++.|++++
T Consensus 216 ~~~~~~~~~~~~~~~~l~~~~~~~ai~~~nD~~A~-g~~~al~~~G~~vP~disVigfD 273 (343)
T PRK10727 216 FGEPDESGGEQAMTELLGRGRNFTAVACYNDSMAA-GAMGVLNDNGIDVPGEISLIGFD 273 (343)
T ss_pred eCCCChhHHHHHHHHHHhCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCcceeEEeec
Confidence 22221111112 22223 257899888877776 6666665443 2466777664
No 106
>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=92.20 E-value=1.4 Score=38.72 Aligned_cols=182 Identities=12% Similarity=0.059 Sum_probs=90.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~--~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.++++|+++.......- +....+.++..+ -..+|.||+++. ..+...++.+.. .++++++++.....
T Consensus 19 ~gi~~~a~~~g~~~~~~~~~~~-~~~~~~~i~~~~--~~~vdgiii~~~~~~~~~~~l~~l~~---~~ipvV~~~~~~~~ 92 (288)
T cd01538 19 PNFEAALKELGAEVIVQNANGD-PAKQISQIENMI--AKGVDVLVIAPVDGEALASAVEKAAD---AGIPVIAYDRLILN 92 (288)
T ss_pred HHHHHHHHHcCCEEEEECCCCC-HHHHHHHHHHHH--HcCCCEEEEecCChhhHHHHHHHHHH---CCCCEEEECCCCCC
Confidence 3456677888999887544210 000012233333 257999999764 334445554444 36789998864311
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccC----CCCCcEEEEEcCCCCc-------hhHHHHHHhCC----Cee
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKN----GKKKCTVLYPASAKAS-------NEIEEGLSNRG----FEV 204 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~----~~~~~~vL~~~g~~~~-------~~L~~~L~~~G----~~v 204 (263)
. .....+..+. ..+..+.+.|.+. ....++++++.|.... .-+.+.|++.| +++
T Consensus 93 ----~------~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~ 162 (288)
T cd01538 93 ----S------NVDYYVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFNGAMSVLKPLIDSGKITI 162 (288)
T ss_pred ----C------CcceEEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHHHHHHHHHhccccCCeeE
Confidence 1 1111122222 2334444555544 1234789999776542 22345666666 332
Q ss_pred eEEeeeccccCCCCh-HHHHHHh---C-CCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 205 VRLNTYTTEPVHHVD-QTVLKQA---L-SIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 205 ~~~~vY~~~~~~~~~-~~~~~~l---~-~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
.. ..|......... +.+.+.+ . ++|+|+..+...+. ..++.+.+... .++.+++++
T Consensus 163 ~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~I~~~~d~~a~-g~~~al~~~g~~~dv~vvg~d 224 (288)
T cd01538 163 VG-EVATPDWDPETAQKRMENALTANYNKVDGVLAANDGTAG-GAIAALKAAGLAGKPPVTGQD 224 (288)
T ss_pred Ee-ccccCCCCHHHHHHHHHHHHHhCCCCccEEEeCCcHHHH-HHHHHHHHcCCCCCceEEecC
Confidence 21 111111110111 1122222 2 57899988888887 77777765432 245555543
No 107
>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=92.08 E-value=2.3 Score=36.50 Aligned_cols=178 Identities=15% Similarity=0.098 Sum_probs=88.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChh
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
.+.+.++++|+++...+.. .+.+ .++..+ -...|+||+.... .....+..+.+ .+++++.+|..
T Consensus 21 g~~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~--~~~vdgiii~~~~~~~~~~~l~~~~~---~~iPvV~~~~~ 90 (275)
T cd06317 21 AFQAAAEEDGVEVIVLDAN-----GDVARQAAQVEDLI--AQKVDGIILWPTDGQAYIPGLRKAKQ---AGIPVVITNSN 90 (275)
T ss_pred HHHHHHHhcCCEEEEEcCC-----cCHHHHHHHHHHHH--HcCCCEEEEecCCccccHHHHHHHHH---CCCcEEEeCCC
Confidence 4555667789887654321 1211 122222 2479999887643 22334444444 36788888753
Q ss_pred HHHHHHHhhhhcCCCCc---eeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeE
Q 024727 138 TASIFEEVIQSSKCSLD---VAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVR 206 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~---~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~ 206 (263)
.. .. +.. .....+. ..+...++.+.+.....++|+++.|.... .-+.+.++++|..+..
T Consensus 91 ~~----~~------~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~ 160 (275)
T cd06317 91 IS----EK------GFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGFEDELAEVCPGVEV 160 (275)
T ss_pred CC----CC------ccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHHHHHHHhhCCCCEE
Confidence 21 11 111 0011222 12344455565543234689999764321 3345677777655544
Q ss_pred EeeeccccCCCChH-HHHHHh----CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 207 LNTYTTEPVHHVDQ-TVLKQA----LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 207 ~~vY~~~~~~~~~~-~~~~~l----~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
+..+.......... .+.+.+ .++++|+..+-..+. .+++.+.+... .++.|++++
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~~dv~v~g~d 221 (275)
T cd06317 161 LDTQPADWDREKAQVAMEALITKFGDDIDGVYAGDDNMAR-GALNAAKEAGLAGGIVIVGAN 221 (275)
T ss_pred EeccCCCCCHHHHHHHHHHHHHhCCCCccEEEECCCcHHH-HHHHHHHhcCCcCCcEEEEeC
Confidence 43333211111111 122222 247888887776666 66666655432 366777654
No 108
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=91.11 E-value=4.1 Score=36.42 Aligned_cols=176 Identities=11% Similarity=0.081 Sum_probs=89.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCc--hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDT--DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~--~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
.+.+.++++|+++...+... -.+. +.++... ...+|.||+.+...-...++.+.+. +++++.++....
T Consensus 84 gi~~~~~~~g~~~~~~~~~~---~~~~~~~~~~~~~--~~~vdgiI~~~~~~~~~~~~~l~~~---~iPvV~~~~~~~-- 153 (331)
T PRK14987 84 GIESVTDAHGYQTMLAHYGY---KPEMEQERLESML--SWNIDGLILTERTHTPRTLKMIEVA---GIPVVELMDSQS-- 153 (331)
T ss_pred HHHHHHHHCCCEEEEecCCC---CHHHHHHHHHHHH--hcCCCEEEEcCCCCCHHHHHHHHhC---CCCEEEEecCCC--
Confidence 45566677898876543211 0111 1122222 3579999987533222233333333 577887753210
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCC------chhHHHHHHhCCCeeeEEeeecccc
Q 024727 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~------~~~L~~~L~~~G~~v~~~~vY~~~~ 214 (263)
. +....+..+.+ .+...++.|.+. ..++|.++.+... ..-+.+.|++.|.....+ ++....
T Consensus 154 ---~------~~~~~V~~Dn~~~~~~a~~~L~~~--Gh~~I~~i~~~~~~~~~~R~~Gf~~al~~~g~~~~~~-~~~~~~ 221 (331)
T PRK14987 154 ---P------CLDIAVGFDNFEAARQMTTAIIAR--GHRHIAYLGARLDERTIIKQKGYEQAMLDAGLVPYSV-MVEQSS 221 (331)
T ss_pred ---C------CCCceEEeCcHHHHHHHHHHHHHC--CCceEEEEcCCCcccHHHHHHHHHHHHHHcCCCccce-eecCCC
Confidence 1 11111333433 344555666654 3478999976532 133556777888643222 222111
Q ss_pred CCCChHHHHHH-h---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 215 VHHVDQTVLKQ-A---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 215 ~~~~~~~~~~~-l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
......+..+. + ..+++|+.++-..+- ..++.+.+.. ..++.|++++
T Consensus 222 ~~~~~~~~~~~~l~~~~~~~ai~~~nD~~A~-g~~~al~~~g~~vP~disvigfD 275 (331)
T PRK14987 222 SYSSGIELIRQARREYPQLDGVFCTNDDLAV-GAAFECQRLGLKVPDDMAIAGFH 275 (331)
T ss_pred ChhhHHHHHHHHHhcCCCCCEEEECCcHHHH-HHHHHHHHcCCCCCCccEEEeeC
Confidence 11111122222 2 257999999988777 6766665443 2467777664
No 109
>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=90.94 E-value=4 Score=35.16 Aligned_cols=168 Identities=14% Similarity=0.102 Sum_probs=83.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
.+.+.+++.|+++...... +.+...+.++. ...+|.||+++...-..+.+.+.+. .+.+++.++..+..
T Consensus 22 gi~~~~~~~gy~~~~~~~~------~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~--~~ipvv~~~~~~~~- 92 (260)
T cd06304 22 GLEKAEKELGVEVKYVESV------EDADYEPNLRQLAAQGYDLIFGVGFGFMDAVEKVAKEY--PDVKFAIIDGVVDA- 92 (260)
T ss_pred HHHHHHHhcCceEEEEecC------CHHHHHHHHHHHHHcCCCEEEECCcchhHHHHHHHHHC--CCCEEEEecCccCC-
Confidence 4456677788887764322 11111122222 2568999998866334444433321 25688988864321
Q ss_pred HHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCC------chhHHHHHHhCCCeeeEEeeeccccC
Q 024727 142 FEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~------~~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
+. .+.. +..+.+.+...+-.+.......+++.++.|... ..-+.+.+++.|..+....++.....
T Consensus 93 --~~------~~~~-v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~ 163 (260)
T cd06304 93 --PP------NVAS-YVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAKSVNPDITVLVIYTGSFF 163 (260)
T ss_pred --CC------Ceee-eecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHHHhCCCcEEEEEEecCcc
Confidence 12 2322 222333222222233332113478999977432 22345577778876655444332221
Q ss_pred -CCChHH-HHHHh-CCCCEEEEeCHHHHHHHHHHhccc
Q 024727 216 -HHVDQT-VLKQA-LSIPVVAVASPSAVRSSWVNLISD 250 (263)
Q Consensus 216 -~~~~~~-~~~~l-~~~d~vvFtS~s~v~~~~~~~~~~ 250 (263)
.....+ +.+.+ ..+|+|+.++-..+. ...+.+.+
T Consensus 164 ~~~~~~~~~~~~l~~~~~ai~~~~d~~A~-gv~~al~~ 200 (260)
T cd06304 164 DPAKGKEAALALIDQGADVIFAAAGGTGP-GVIQAAKE 200 (260)
T ss_pred CcHHHHHHHHHHHhCCCCEEEEcCCCCch-HHHHHHHH
Confidence 111222 22323 357998888766666 56665544
No 110
>PRK09701 D-allose transporter subunit; Provisional
Probab=90.44 E-value=7.4 Score=34.67 Aligned_cols=184 Identities=9% Similarity=-0.007 Sum_probs=91.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc----hHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT----DRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~----~~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
..+.+.++++|.++..+..- ...+. +.++..+ ...+|.||+.... .....+..+.+ .+++++++|.
T Consensus 44 ~gi~~~a~~~g~~v~~~~~~---~~~~~~~~~~~i~~l~--~~~vDgiIi~~~~~~~~~~~l~~~~~---~giPvV~~~~ 115 (311)
T PRK09701 44 KGIEDEAKTLGVSVDIFASP---SEGDFQSQLQLFEDLS--NKNYKGIAFAPLSSVNLVMPVARAWK---KGIYLVNLDE 115 (311)
T ss_pred HHHHHHHHHcCCeEEEecCC---CCCCHHHHHHHHHHHH--HcCCCEEEEeCCChHHHHHHHHHHHH---CCCcEEEeCC
Confidence 34556677889888765211 11121 2233333 2569999997643 22222333333 3688999986
Q ss_pred hHHH-HHHHhhhhcCCCCceeec-CCCC-CHHHHHHHhccC-CCCCcEEEEEcCCCCc-------hhHHHHHHhCC-Cee
Q 024727 137 GTAS-IFEEVIQSSKCSLDVAFS-PSKA-TGKILASELPKN-GKKKCTVLYPASAKAS-------NEIEEGLSNRG-FEV 204 (263)
Q Consensus 137 ~Ta~-~L~~~~~~~~~G~~~~~~-p~~~-t~e~L~~~l~~~-~~~~~~vL~~~g~~~~-------~~L~~~L~~~G-~~v 204 (263)
.... .+... .+-...++ .+.+ ..+...+.|.+. ..+++++.++.|.... .-+.+.|+++| +++
T Consensus 116 ~~~~~~~~~~-----~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~Gf~~al~~~~~~~~ 190 (311)
T PRK09701 116 KIDMDNLKKA-----GGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNGATEAFKKASQIKL 190 (311)
T ss_pred CCCccccccc-----CCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHHHHHHHHhCCCcEE
Confidence 4321 11100 01111122 2222 345556666554 2224789998775542 34566777776 543
Q ss_pred eEEeeeccccCCCChHHH-HHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 205 VRLNTYTTEPVHHVDQTV-LKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 205 ~~~~vY~~~~~~~~~~~~-~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
.. .+..........+. .+.+ .++|+|+..+...+. ...+.+.+... .++.+++++
T Consensus 191 ~~--~~~~~~~~~~~~~~~~~ll~~~~~~~~I~~~~d~~A~-g~~~al~~~G~~~dv~vvg~d 250 (311)
T PRK09701 191 VA--SQPADWDRIKALDVATNVLQRNPNIKAIYCANDTMAM-GVAQAVANAGKTGKVLVVGTD 250 (311)
T ss_pred EE--ecCCCCCHHHHHHHHHHHHHhCCCCCEEEECCcchHH-HHHHHHHHcCCCCCEEEEEeC
Confidence 22 11111111111122 2222 368999999887777 77766654332 456677665
No 111
>COG4822 CbiK Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]
Probab=90.41 E-value=6 Score=34.10 Aligned_cols=144 Identities=19% Similarity=0.279 Sum_probs=95.6
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCccEE-----EEeCHHHHHHHHHHHHHcCC---CCcEEEEeC
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWI-----IITSPEAGSVFLEAWKEAGT---PNVRIGVVG 135 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l-~~~d~I-----iFTS~~aV~~~~~~l~~~~~---~~~~i~aVG 135 (263)
--+.|+++|++=+.+..+.+.|....+.+....+.. ..++-| +..|.+-.+.+++.++..-+ .+-.++-+|
T Consensus 65 aL~klk~~gy~eviiQ~lhiIpG~EyEklvr~V~~~~~dF~~lkig~PlLy~k~DYe~~v~aik~~~ppl~k~e~~vlmg 144 (265)
T COG4822 65 ALNKLKDQGYEEVIIQPLHIIPGIEYEKLVREVNKYSNDFKRLKIGRPLLYYKNDYEICVEAIKDQIPPLNKDEILVLMG 144 (265)
T ss_pred HHHHHHHccchheeeeeeeecCchHHHHHHHHHHHHhhhhheeecCCceeechhhHHHHHHHHHHhcCCcCcCeEEEEEe
Confidence 345678899988888888887765555554444322 233333 45677888888888877544 244556667
Q ss_pred hhHHH-----------HHHHhhhhcCCCCceeecCC--C-CCHHHHHHHhccCCCCC---cEEEEEcCCCCchhHH----
Q 024727 136 AGTAS-----------IFEEVIQSSKCSLDVAFSPS--K-ATGKILASELPKNGKKK---CTVLYPASAKASNEIE---- 194 (263)
Q Consensus 136 ~~Ta~-----------~L~~~~~~~~~G~~~~~~p~--~-~t~e~L~~~l~~~~~~~---~~vL~~~g~~~~~~L~---- 194 (263)
.+|.. .+.++ |+...++.. . +..+.+++.|.+...++ -++++..|++...+++
T Consensus 145 HGt~h~s~~~YacLd~~~~~~------~f~~v~v~~ve~yP~~d~vi~~l~~~~~~~v~L~PlMlvAG~Ha~nDMasdde 218 (265)
T COG4822 145 HGTDHHSNAAYACLDHVLDEY------GFDNVFVAAVEGYPLVDTVIEYLRKNGIKEVHLIPLMLVAGDHAKNDMASDDE 218 (265)
T ss_pred cCCCccHHHHHHHHHHHHHhc------CCCceEEEEecCCCcHHHHHHHHHHcCCceEEEeeeEEeechhhhhhhcccch
Confidence 66643 45667 885555542 2 56788999998875433 3678889998876665
Q ss_pred ----HHHHhCCCeeeEEeeeccccCCC
Q 024727 195 ----EGLSNRGFEVVRLNTYTTEPVHH 217 (263)
Q Consensus 195 ----~~L~~~G~~v~~~~vY~~~~~~~ 217 (263)
+.|++.|++| .+|..-.-+.
T Consensus 219 dswk~il~~~G~~v---~~~l~GLGE~ 242 (265)
T COG4822 219 DSWKNILEKNGFKV---EVYLHGLGEN 242 (265)
T ss_pred HHHHHHHHhCCcee---EEEeecCCCc
Confidence 7899999977 5666544443
No 112
>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=90.25 E-value=8 Score=34.24 Aligned_cols=186 Identities=11% Similarity=0.095 Sum_probs=89.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCC--CccEEEEeCHH-HHHHHHHHHHHcCCCCcEEEEeC
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADT--IFDWIIITSPE-AGSVFLEAWKEAGTPNVRIGVVG 135 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~--~~d~IiFTS~~-aV~~~~~~l~~~~~~~~~i~aVG 135 (263)
..+.+.++++|+++..... . .+.+ .++..+ .. .+|+||+++.. ......+.+.+ .+++++.++
T Consensus 20 ~gi~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~--~~~~~vdgiIi~~~~~~~~~~~~~~~~---~giPvV~~~ 89 (305)
T cd06324 20 RFMQAAADDLGIELEVLYA---E--RDRFLMLQQARTIL--QRPDKPDALIFTNEKSVAPELLRLAEG---AGVKLFLVN 89 (305)
T ss_pred HHHHHHHHhcCCeEEEEeC---C--CCHHHHHHHHHHHH--HhccCCCEEEEcCCccchHHHHHHHHh---CCCeEEEEe
Confidence 3456677788988766422 1 1221 223333 24 79999998654 23444444444 367899998
Q ss_pred hhHHH-HHHHhhhhcC---CCCceeecCCCC-CHHHHHHHhccCCCC------CcEEEEEcCCCCc-------hhHHHHH
Q 024727 136 AGTAS-IFEEVIQSSK---CSLDVAFSPSKA-TGKILASELPKNGKK------KCTVLYPASAKAS-------NEIEEGL 197 (263)
Q Consensus 136 ~~Ta~-~L~~~~~~~~---~G~~~~~~p~~~-t~e~L~~~l~~~~~~------~~~vL~~~g~~~~-------~~L~~~L 197 (263)
..... ..+.. +++. ++....+.++.+ .++.+++.|.+..-+ ..+++++.|..+. .-+.+.+
T Consensus 90 ~~~~~~~~~~~-~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~ 168 (305)
T cd06324 90 SGLTEAQAREL-GPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGDPTTPAAILREAGLRRAL 168 (305)
T ss_pred cCCCcchhhcc-cccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCCCCChHHHHHHHHHHHHH
Confidence 64322 11111 0000 011111223333 335555666554211 1258888776542 2345566
Q ss_pred HhCC-CeeeEEeeeccccCCCChH-HHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 198 SNRG-FEVVRLNTYTTEPVHHVDQ-TVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 198 ~~~G-~~v~~~~vY~~~~~~~~~~-~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
+++| +.+.. .+|. ........ .+.+.+ .++|+|+..+...+. ..++.+.+.. ..++.+++++
T Consensus 169 ~~~g~~~~~~-~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~-g~~~al~~~g~~vp~di~vig~D 238 (305)
T cd06324 169 AEHPDVRLRQ-VVYA-GWSEDEAYEQAENLLKRYPDVRLIWAANDQMAF-GALRAAKEAGRKPGRDVLFGGVN 238 (305)
T ss_pred HHCCCceEee-eecC-CCCHHHHHHHHHHHHHHCCCccEEEECCchHHH-HHHHHHHHcCCCcCCCEEEEecC
Confidence 6776 33321 2231 11111111 222323 358988888777666 6666655432 1355665543
No 113
>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=90.05 E-value=5.7 Score=34.29 Aligned_cols=174 Identities=11% Similarity=0.083 Sum_probs=86.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCc----hHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChh
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDT----DRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~----~~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
.+.+.++++|+++.....-. ..+. +.++..+ -..+|.||+++.. ... .+..+.. .++++++++..
T Consensus 20 gi~~~a~~~g~~~~~~~~~~---~~~~~~~~~~i~~~~--~~~vdgiI~~~~~~~~~~-~~~~~~~---~giPvV~~~~~ 90 (268)
T cd06306 20 GMVEEAKRLGVSLKLLEAGG---YPNLAKQIAQLEDCA--AWGADAILLGAVSPDGLN-EILQQVA---ASIPVIALVND 90 (268)
T ss_pred HHHHHHHHcCCEEEEecCCC---CCCHHHHHHHHHHHH--HcCCCEEEEcCCChhhHH-HHHHHHH---CCCCEEEeccC
Confidence 45566778898877653211 0111 1233333 2579999998643 222 2333433 36788888643
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCC---CCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeE
Q 024727 138 TASIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGK---KKCTVLYPASAKAS-------NEIEEGLSNRGFEVVR 206 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~---~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~ 206 (263)
.. .. +....+..+.+ .+..+++.|.+... ..++++++.|.... +-+.+.|++.|+++..
T Consensus 91 ~~----~~------~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g~~~~~~~~~~~~~~ 160 (268)
T cd06306 91 IN----SP------DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKGFRDALAGSAIEISA 160 (268)
T ss_pred CC----Cc------ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHHHHHHHHHhhcCcEEee
Confidence 21 12 32211223332 23445555655431 12799999886542 3355677778776644
Q ss_pred EeeeccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEE
Q 024727 207 LNTYTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVAC 260 (263)
Q Consensus 207 ~~vY~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~ 260 (263)
. .+. ........+ +.+.+ .++|+|+.+ ...+. ..++.+.+... .++.|++
T Consensus 161 ~-~~~-~~~~~~~~~~~~~~l~~~~~~~~i~~~-d~~a~-~~~~~l~~~g~p~di~vig 215 (268)
T cd06306 161 I-KYG-DTGKEVQRKLVEEALEAHPDIDYIVGS-AVAAE-AAVGILRQRGLTDQIKIVS 215 (268)
T ss_pred e-ccC-CccHHHHHHHHHHHHHhCCCcCEEeec-chhhh-HHHHHHHhcCCCCCeEEEe
Confidence 1 121 111111111 22222 367888764 55555 56555554332 3455554
No 114
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=90.02 E-value=5.1 Score=36.58 Aligned_cols=162 Identities=12% Similarity=0.099 Sum_probs=78.4
Q ss_pred HHHHHHHhCCCcEEEe-ceEEeeeCCCc-h---HHHHHHhcCCCccEEEEeC--HHHHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 64 KLIKALAKHRIDCLEL-PLIQHAQGPDT-D---RLSSVLNADTIFDWIIITS--PEAGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~-p~~~~~~~~~~-~---~l~~~l~~l~~~d~IiFTS--~~aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
-+.+..+++|+++... |. . .+. . .++..+ -..+|.|+++. ++++...++.+.+. +++++++..
T Consensus 44 Gi~~aa~~~G~~v~~~~~~---~--~d~~~q~~~i~~li--~~~vdgIiv~~~d~~al~~~l~~a~~~---gIpVV~~d~ 113 (336)
T PRK15408 44 GAKEAGKELGVDVTYDGPT---E--PSVSGQVQLINNFV--NQGYNAIIVSAVSPDGLCPALKRAMQR---GVKVLTWDS 113 (336)
T ss_pred HHHHHHHHhCCEEEEECCC---C--CCHHHHHHHHHHHH--HcCCCEEEEecCCHHHHHHHHHHHHHC---CCeEEEeCC
Confidence 3456667889887642 21 1 121 1 233333 26799999974 44445555555443 678888875
Q ss_pred hHHHHHHHhhhhcCCCCceeecC-CC--CCHHHHHHHhccCCC-CCcEEEEEcCCCCc-------hhHHHHHHhCCCeee
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSP-SK--ATGKILASELPKNGK-KKCTVLYPASAKAS-------NEIEEGLSNRGFEVV 205 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p-~~--~t~e~L~~~l~~~~~-~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~ 205 (263)
.... .. ... ++. .. ..+..+.+.+.+... .+++++++.|.... +.+.+.+++.+-++.
T Consensus 114 ~~~~---~~-------~~~-~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g~~~~l~~~~p~~~ 182 (336)
T PRK15408 114 DTKP---EC-------RSY-YINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKEAKAKIAKEHPGWE 182 (336)
T ss_pred CCCC---cc-------ceE-EEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHHHHHHHHhhCCCCE
Confidence 4211 11 111 221 11 123333344544433 45789999885431 234445543332332
Q ss_pred EEeeeccccCCCChHH----HHHHh---CCCCEEEEeCHHHHHHHHHHhccc
Q 024727 206 RLNTYTTEPVHHVDQT----VLKQA---LSIPVVAVASPSAVRSSWVNLISD 250 (263)
Q Consensus 206 ~~~vY~~~~~~~~~~~----~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~ 250 (263)
.+.. ....+..+. ..+.+ .++|+|+.++..++. ...+.+++
T Consensus 183 vv~~---~~~~~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~-Ga~~Al~~ 230 (336)
T PRK15408 183 IVTT---QFGYNDATKSLQTAEGILKAYPDLDAIIAPDANALP-AAAQAAEN 230 (336)
T ss_pred EEee---cCCCCcHHHHHHHHHHHHHHCCCCcEEEECCCccHH-HHHHHHHh
Confidence 2322 111222211 22223 478888877766554 44444443
No 115
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=89.67 E-value=5.6 Score=34.95 Aligned_cols=176 Identities=9% Similarity=-0.062 Sum_probs=87.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc----hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT----DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGT 138 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~----~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~T 138 (263)
..+.+.++++|.++...+. . .+. +.++..+ -..+|+||+.+...-........ . ...+++.+|...
T Consensus 55 ~gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~--~~~vDgiIi~~~~~~~~~~~~~~-~--~~~pvv~~~~~~ 124 (309)
T PRK11041 55 RGIEVTAAEHGYLVLIGDC---A--HQNQQEKTFVNLII--TKQIDGMLLLGSRLPFDASKEEQ-R--NLPPMVMANEFA 124 (309)
T ss_pred HHHHHHHHHCCCEEEEEeC---C--CChHHHHHHHHHHH--HcCCCEEEEecCCCChHHHHHHH-h--cCCCEEEEcccc
Confidence 3456667777887765321 1 111 1122222 25799999976431111111111 1 123577777542
Q ss_pred HHHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeee
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY 210 (263)
... ++.. +..+.+ .+...++.|.+. ..++|.++.|.... .-+.+.+++.|.++.....+
T Consensus 125 ----~~~------~~~~-V~~Dn~~~g~~a~~~l~~~--G~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~ 191 (309)
T PRK11041 125 ----PEL------ELPT-VHIDNLTAAFEAVNYLHEL--GHKRIACIAGPEEMPLCHYRLQGYVQALRRCGITVDPQYIA 191 (309)
T ss_pred ----CCC------CCCE-EEECcHHHHHHHHHHHHHc--CCceEEEEeCCccccchHHHHHHHHHHHHHcCCCCCHHHeE
Confidence 112 3332 223333 335555666654 34789998775431 23455677777765322222
Q ss_pred ccccCCCChHHH-HHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 211 TTEPVHHVDQTV-LKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 211 ~~~~~~~~~~~~-~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
..........+. .+.+ ..+++|+.++...+. .+++.+.+.. ..++.|++++
T Consensus 192 ~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-gv~~al~~~g~~ip~di~vvg~D 249 (309)
T PRK11041 192 RGDFTFEAGAKALKQLLDLPQPPTAVFCHSDVMAL-GALSQAKRMGLRVPQDLSIIGFD 249 (309)
T ss_pred eCCCCHHHHHHHHHHHHcCCCCCCEEEEcCcHHHH-HHHHHHHHcCCCCCcceEEEEeC
Confidence 211111111222 2223 247899999888776 6666665443 2356777665
No 116
>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=89.37 E-value=12 Score=32.59 Aligned_cols=186 Identities=10% Similarity=0.045 Sum_probs=89.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCH-HHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSP-EAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~-~aV~~~~~~l~~~~~~~~~i~aVG~~Ta 139 (263)
..+.+.++++|+++...+...-.. .+.+.-...++. -..+|.||++.. ......++.+.+. +.+++.++..+.
T Consensus 20 ~~i~~~~~~~g~~~~~~~~~~~~~-~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l~~~---~~p~V~i~~~~~ 95 (280)
T cd06303 20 ASFTARLEELNIPYELTQFSSRPG-IDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERVLAS---GKTKIILQNITT 95 (280)
T ss_pred HHHHHHHHHcCCcEEEEEeccCcc-cCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHHHhC---CCCeEEEeCCCC
Confidence 456677888898887654331110 011111122211 257999999753 3233333333332 334445532211
Q ss_pred H--HH-HHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCC------chhHHHHHHhC-CCeeeEEe
Q 024727 140 S--IF-EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNR-GFEVVRLN 208 (263)
Q Consensus 140 ~--~L-~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~------~~~L~~~L~~~-G~~v~~~~ 208 (263)
. .. ... +.. .+..+. ..+..+++.|.+.....+++.++.|... ..-+.+.++++ |+++. .
T Consensus 96 ~~~~~~~~~------~~~-~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~gf~~al~~~~~~~~~--~ 166 (280)
T cd06303 96 PVKAWLKHQ------PLL-YVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDTFIDCVHARNNWTLT--S 166 (280)
T ss_pred CccccccCC------Cce-EeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHHHHHHHHhCCCceEE--E
Confidence 0 00 001 221 122232 2345556666653223578999977542 23455667776 55432 2
Q ss_pred eeccccCCCChH-HHHHHh---CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEEC
Q 024727 209 TYTTEPVHHVDQ-TVLKQA---LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACIA 262 (263)
Q Consensus 209 vY~~~~~~~~~~-~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~IG 262 (263)
++.......... .+.+.+ .++++|+.++...+- ..++.+.+... .++.|++++
T Consensus 167 ~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~A~-g~l~al~~~G~~~dv~vvg~d 224 (280)
T cd06303 167 EFYTDATRQKAYQATSDILSNNPDVDFIYACSTDIAL-GASDALKELGREDDILINGWG 224 (280)
T ss_pred eecCCCCHHHHHHHHHHHHHhCCCCcEEEECCcHHHH-HHHHHHHHcCCCCCcEEEecC
Confidence 222222111111 222222 258999999888777 66666655433 356666554
No 117
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=88.39 E-value=13 Score=33.19 Aligned_cols=168 Identities=10% Similarity=-0.043 Sum_probs=88.4
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (263)
.+.+.++++|+++.... . .+.+ .....+|.+|+++... ......+... +.+++.++....
T Consensus 88 ~i~~~~~~~g~~~~~~~--~----~~~~------~~~~~vDgiI~~~~~~-~~~~~~l~~~---~~pvV~~~~~~~---- 147 (327)
T PRK10339 88 GIETQCEKLGIELTNCY--E----HSGL------PDIKNVTGILIVGKPT-PALRAAASAL---TDNICFIDFHEP---- 147 (327)
T ss_pred HHHHHHHHCCCEEEEee--c----cccc------cccccCCEEEEeCCCC-HHHHHHHHhc---CCCEEEEeCCCC----
Confidence 34556778898876431 1 1111 1246799999987432 2233444433 467888875421
Q ss_pred HhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccC
Q 024727 144 EVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
.. ++.. +..+.+ .+..+++.|.+. ..+++.++.|.... .-+.+.++..|+ +....+|.....
T Consensus 148 ~~------~~~~-V~~D~~~~~~~a~~~l~~~--G~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~g~-~~~~~~~~~~~~ 217 (327)
T PRK10339 148 GS------GYDA-VDIDLARISKEIIDFYINQ--GVNRIGFIGGEDEPGKADIREVAFAEYGRLKQV-VREEDIWRGGFS 217 (327)
T ss_pred CC------CCCE-EEECHHHHHHHHHHHHHHC--CCCeEEEeCCccccchhhHHHHHHHHHHHHcCC-CChhheeecCcC
Confidence 12 3332 333333 335556666654 34689999775431 223345666665 222223332221
Q ss_pred CCChHHH-HHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 216 HHVDQTV-LKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 216 ~~~~~~~-~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
.....+. .+.+ ..+++|++++-..+. .++..+.+.. ..++.|++++
T Consensus 218 ~~~~~~~~~~~l~~~~~~~ai~~~~D~~A~-g~~~al~~~g~~vP~di~vigfD 270 (327)
T PRK10339 218 SSSGYELAKQMLAREDYPKALFVASDSIAI-GVLRAIHERGLNIPQDISLISVN 270 (327)
T ss_pred hhHHHHHHHHHHhCCCCCCEEEECCcHHHH-HHHHHHHHcCCCCCCceEEEeeC
Confidence 1112222 2223 257899999988887 7777776543 2466776654
No 118
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=88.30 E-value=20 Score=32.71 Aligned_cols=176 Identities=11% Similarity=0.056 Sum_probs=93.9
Q ss_pred CeEEEeCCCC------ChHHHHHHHHhCCCcEEEeceEEeeeCCC-c---hHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024727 51 PKVVVTRERG------KNGKLIKALAKHRIDCLELPLIQHAQGPD-T---DRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (263)
Q Consensus 51 ~~ILitr~~~------~~~~l~~~L~~~G~~v~~~p~~~~~~~~~-~---~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~ 120 (263)
.+|-|+..-+ -.+-..+.|++.|.. .+.|...-..+ . .++-+.+ ..+..|.|+-++.-+.+...+.
T Consensus 31 ~~VaI~~~veHpaLd~~~~G~~~aLk~~G~~---n~~i~~~na~~~~~~a~~iarql-~~~~~dviv~i~tp~Aq~~~s~ 106 (322)
T COG2984 31 ITVAITQFVEHPALDAAREGVKEALKDAGYK---NVKIDYQNAQGDLGTAAQIARQL-VGDKPDVIVAIATPAAQALVSA 106 (322)
T ss_pred eeEEEEEeecchhHHHHHHHHHHHHHhcCcc---CeEEEeecCCCChHHHHHHHHHh-hcCCCcEEEecCCHHHHHHHHh
Confidence 3466665432 234567889999986 23333332222 1 2333444 3467799999998888888775
Q ss_pred HHHcCCCCcEEEEeC---hhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCC--C----ch
Q 024727 121 WKEAGTPNVRIGVVG---AGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAK--A----SN 191 (263)
Q Consensus 121 l~~~~~~~~~i~aVG---~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~--~----~~ 191 (263)
.. ++++++-| +..++-..+. .+-|-.+.-+.+....+.-++.++.....-++|-++.+.+ . -+
T Consensus 107 ~~-----~iPVV~aavtd~v~a~Lv~~~---~~pg~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~~l~e 178 (322)
T COG2984 107 TK-----TIPVVFAAVTDPVGAKLVKSL---EQPGGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSVSLVE 178 (322)
T ss_pred cC-----CCCEEEEccCchhhccCCccc---cCCCCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccHHHHH
Confidence 43 35554433 2222222211 1113333223333344555556665554446763433332 2 35
Q ss_pred hHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHHHHH
Q 024727 192 EIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVR 241 (263)
Q Consensus 192 ~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s~v~ 241 (263)
.|.+.+++.|++|.+..+=.....+. .+....++.|+|.+.-...+.
T Consensus 179 elk~~A~~~Gl~vve~~v~~~ndi~~---a~~~l~g~~d~i~~p~dn~i~ 225 (322)
T COG2984 179 ELKKEARKAGLEVVEAAVTSVNDIPR---AVQALLGKVDVIYIPTDNLIV 225 (322)
T ss_pred HHHHHHHHCCCEEEEEecCcccccHH---HHHHhcCCCcEEEEecchHHH
Confidence 67777889999997766644332221 223323799998886655555
No 119
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=87.82 E-value=6.1 Score=30.04 Aligned_cols=84 Identities=20% Similarity=0.290 Sum_probs=54.4
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH-----HHHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP-----EAGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~-----~aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
..-+...|+..|++|+++... . + .+++.+.+. -.++|.|.+++. ..+..+.+.+++...++++|++-|.
T Consensus 16 ~~~~~~~l~~~G~~V~~lg~~--~--~-~~~l~~~~~-~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~ 89 (119)
T cd02067 16 KNIVARALRDAGFEVIDLGVD--V--P-PEEIVEAAK-EEDADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGA 89 (119)
T ss_pred HHHHHHHHHHCCCEEEECCCC--C--C-HHHHHHHHH-HcCCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECC
Confidence 345778889999999776622 1 1 234444442 357899888875 3345556666665444788888887
Q ss_pred hHHH---HHHHhhhhcCCCCceee
Q 024727 137 GTAS---IFEEVIQSSKCSLDVAF 157 (263)
Q Consensus 137 ~Ta~---~L~~~~~~~~~G~~~~~ 157 (263)
.... .+++. |+...+
T Consensus 90 ~~~~~~~~~~~~------G~D~~~ 107 (119)
T cd02067 90 IVTRDFKFLKEI------GVDAYF 107 (119)
T ss_pred CCChhHHHHHHc------CCeEEE
Confidence 6554 67777 886533
No 120
>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=87.51 E-value=17 Score=31.06 Aligned_cols=172 Identities=11% Similarity=0.047 Sum_probs=87.3
Q ss_pred HHHHHHHh-CCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024727 64 KLIKALAK-HRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (263)
Q Consensus 64 ~l~~~L~~-~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (263)
.+.+.+++ .|+.+....-. +.+.++. + .-...|++|+++.+ ......+.+ .+++++.+|....
T Consensus 19 gi~~~~~~~~g~~~~~~~~~------~~~~~~~-l-~~~~vdGiI~~~~~--~~~~~~l~~---~~~PvV~~~~~~~--- 82 (265)
T cd01543 19 GIARYAREHGPWSIYLEPRG------LQEPLRW-L-KDWQGDGIIARIDD--PEMAEALQK---LGIPVVDVSGSRE--- 82 (265)
T ss_pred HHHHHHHhcCCeEEEEeccc------chhhhhh-c-cccccceEEEECCC--HHHHHHHhh---CCCCEEEEeCccC---
Confidence 45566677 67776553211 1122222 2 23578999987532 122233333 2678988886431
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc------hhHHHHHHhCCCeeeEEeeeccccC
Q 024727 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS------NEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~------~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
.. ++.. +..+. ..+...++.+.+. ..++++++.+.... .-+.+.+++.|..+..+..+.....
T Consensus 83 -~~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~ 152 (265)
T cd01543 83 -KP------GIPR-VTTDNAAIGRMAAEHFLER--GFRHFAFYGLPGARWSDEREEAFRQLVAEAGYECSFFYRGLSTDA 152 (265)
T ss_pred -CC------CCCE-EeeCHHHHHHHHHHHHHHC--CCcEEEEEcCCCCHHHHHHHHHHHHHHHHcCCccccccCcccccc
Confidence 12 3322 22332 2334455566554 34788888765442 3355667788876522111111111
Q ss_pred -C-CChH-HHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC---CCCceEEEEC
Q 024727 216 -H-HVDQ-TVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE---QWSNSVACIA 262 (263)
Q Consensus 216 -~-~~~~-~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~---~~~~~i~~IG 262 (263)
. .... .+.+.+ .++++|+.+|...+. .+++.+.+.. ..++.+++++
T Consensus 153 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 153 QSWEEEQEELAQWLQSLPKPVGIFACTDARAR-QLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred ccHHHHHHHHHHHHhcCCCCcEEEecChHHHH-HHHHHHHHhCCCCCCceEEEeeC
Confidence 0 1111 222323 257999999988887 7777665443 2356666654
No 121
>PRK02910 light-independent protochlorophyllide reductase subunit B; Provisional
Probab=87.45 E-value=25 Score=34.22 Aligned_cols=143 Identities=22% Similarity=0.146 Sum_probs=81.9
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeC-hh
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVG-AG 137 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-~~~~~~i~aVG-~~ 137 (263)
....++.+.|++.|+++..++... ...+ .+.++.+.+.-|..++..-..+.+.+++. +.+-+...=+| ..
T Consensus 175 ~D~~EikrlL~~~Gi~vn~v~p~g----~s~~----di~~l~~A~~nivl~~~~g~~~A~~Lee~fGiP~i~~~PiG~~~ 246 (519)
T PRK02910 175 DDLTELRRLLATLGIDVNVVAPLG----ASPA----DLKRLPAAWFNVVLYREIGESAARYLEREFGQPYVKTVPIGVGA 246 (519)
T ss_pred hHHHHHHHHHHHcCCeEEEEeCCC----CCHH----HHHhcccCcEEEEeCHHHHHHHHHHHHHHhCCcccccccccHHH
Confidence 455789999999999998764311 1222 23456778888888887666777777653 33323334456 34
Q ss_pred HHHHHHHhhhhcCCCCceeec----CCC-CCHHHH--HHHhcc-CCCCCcEEEEEcCCCCchhHHHHHH-hCCCeeeEEe
Q 024727 138 TASIFEEVIQSSKCSLDVAFS----PSK-ATGKIL--ASELPK-NGKKKCTVLYPASAKASNEIEEGLS-NRGFEVVRLN 208 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~----p~~-~t~e~L--~~~l~~-~~~~~~~vL~~~g~~~~~~L~~~L~-~~G~~v~~~~ 208 (263)
|.+.|++.. ...|...... .+. .....+ ...+.+ ....|+++.+..+....--+...|. +.|.+|..+.
T Consensus 247 T~~fL~~la--~~~g~~~~~~e~~i~~~~~~~~~l~~~~~~~d~~~l~Gkrv~I~gd~~~a~~l~~~L~~ElGm~vv~~g 324 (519)
T PRK02910 247 TARFIREVA--ELLNLDGADLEAFILDGLSAPSRLPWFSRSVDSTYLTGKRVFVFGDATHAVAAARILSDELGFEVVGAG 324 (519)
T ss_pred HHHHHHHHH--HHhCCChhhhHHHHHHHHhhhhhhhHHHHhhhhHhhcCCEEEEEcCcHHHHHHHHHHHHhcCCeEEEEe
Confidence 666666651 1125432100 000 000000 111111 1236789888876655566788887 7999997776
Q ss_pred eecc
Q 024727 209 TYTT 212 (263)
Q Consensus 209 vY~~ 212 (263)
.|..
T Consensus 325 t~~~ 328 (519)
T PRK02910 325 TYLR 328 (519)
T ss_pred cCCc
Confidence 6654
No 122
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=86.97 E-value=3 Score=30.82 Aligned_cols=60 Identities=10% Similarity=0.026 Sum_probs=37.1
Q ss_pred EEEEEcC-CCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHHHHH
Q 024727 180 TVLYPAS-AKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVR 241 (263)
Q Consensus 180 ~vL~~~g-~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s~v~ 241 (263)
+||++.| +.....+.+.+++.|++.... .+..........+...+++.|+|++.....=+
T Consensus 1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~h--g~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH 61 (97)
T PF10087_consen 1 SVLIVGGREDRERRYKRILEKYGGKLIHH--GRDGGDEKKASRLPSKIKKADLVIVFTDYVSH 61 (97)
T ss_pred CEEEEcCCcccHHHHHHHHHHcCCEEEEE--ecCCCCccchhHHHHhcCCCCEEEEEeCCcCh
Confidence 4788888 444577888999999876554 22222222222355556788977776554444
No 123
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=86.63 E-value=4.5 Score=33.98 Aligned_cols=70 Identities=21% Similarity=0.228 Sum_probs=43.6
Q ss_pred hhHHHHHHhCCCeeeEEeeeccccC-----CC---ChHHHHHHhCCCCEEEEeCH-------HHHHHHHHHhccccCCCC
Q 024727 191 NEIEEGLSNRGFEVVRLNTYTTEPV-----HH---VDQTVLKQALSIPVVAVASP-------SAVRSSWVNLISDTEQWS 255 (263)
Q Consensus 191 ~~L~~~L~~~G~~v~~~~vY~~~~~-----~~---~~~~~~~~l~~~d~vvFtS~-------s~v~~~~~~~~~~~~~~~ 255 (263)
+.+.+.|++.|.+++.+.+|+-... .. ....+.+.+...|.|+|.|| ..++ +|++.+....+.+
T Consensus 21 ~~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~~~~~~~~~i~~AD~iIi~tP~Y~~s~pg~LK-n~iD~l~~~~l~~ 99 (191)
T PRK10569 21 EYAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSPALKTFTEQLAQADGLIVATPVYKASFSGALK-TLLDLLPERALEH 99 (191)
T ss_pred HHHHHHHHhCCCEEEEEEccCCChHHHHhccCCCHHHHHHHHHHHHCCEEEEECCccCCCCCHHHH-HHHHhCChhhhCC
Confidence 3455667778888888888752211 00 11234444578999999998 5778 8888775422445
Q ss_pred ceEEEE
Q 024727 256 NSVACI 261 (263)
Q Consensus 256 ~~i~~I 261 (263)
+++..|
T Consensus 100 K~v~ii 105 (191)
T PRK10569 100 KVVLPL 105 (191)
T ss_pred CEEEEE
Confidence 555544
No 124
>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=86.47 E-value=20 Score=30.76 Aligned_cols=145 Identities=9% Similarity=0.034 Sum_probs=74.9
Q ss_pred CCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCC-HHHHHHHhccCCCC
Q 024727 101 TIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKAT-GKILASELPKNGKK 177 (263)
Q Consensus 101 ~~~d~IiFTS~--~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~~~~ 177 (263)
..+|.||+.+. .++...++.+.+ .+++++.++..... .. .....+.++.+. +...++.|.+....
T Consensus 59 ~~vDgiii~~~~~~~~~~~i~~~~~---~gIpvV~~d~~~~~---~~------~~~~~V~~d~~~~g~~aa~~l~~~~~g 126 (274)
T cd06311 59 RKIDALVILPFESAPLTQPVAKAKK---AGIFVVVVDRGLSS---PG------AQDLYVAGDNYGMGRVAGEYIATKLGG 126 (274)
T ss_pred cCCCEEEEeCCCchhhHHHHHHHHH---CCCeEEEEcCCCCC---Cc------ccceEEcCCcHHHHHHHHHHHHHHhCC
Confidence 46899999864 334444444443 36789888743211 00 011112233332 34445556654334
Q ss_pred CcEEEEEcCCCC------chhHHHHHHhCCCeeeEEeeeccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHh
Q 024727 178 KCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNL 247 (263)
Q Consensus 178 ~~~vL~~~g~~~------~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~ 247 (263)
.++++++.|... ..-+.+.|++.|+++.. .+..........+ +.+.+ .++++|+..+...+. ...+.
T Consensus 127 ~~~i~~~~g~~~~~~~~R~~gf~~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~-g~~~a 203 (274)
T cd06311 127 NGNIVVLRGIPTPIDNERVDAFDAAIAKYPIKILD--RQYANWNRDDAFSVMQDLLTKFPKIDAVWAHDDDMAV-GVLAA 203 (274)
T ss_pred CCeEEEEECCCCcchhHHHHHHHHHHhhCCcEEEe--ccCCCCcHHHHHHHHHHHHHhCCCcCEEEECCCcHHH-HHHHH
Confidence 578999987543 23455667777755433 2211111111112 22223 358999998888777 67776
Q ss_pred ccccCCC-CceEEE
Q 024727 248 ISDTEQW-SNSVAC 260 (263)
Q Consensus 248 ~~~~~~~-~~~i~~ 260 (263)
+.+.... ++.+++
T Consensus 204 l~~~g~~~~~~ivg 217 (274)
T cd06311 204 IKQAGRTDIKFVVG 217 (274)
T ss_pred HHHcCCCCCceEEE
Confidence 6554322 455554
No 125
>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=86.32 E-value=5.1 Score=32.78 Aligned_cols=40 Identities=20% Similarity=0.267 Sum_probs=27.4
Q ss_pred HHHHHhCCCCEEEEeCH-------HHHHHHHHHhccccCCCCceEEEE
Q 024727 221 TVLKQALSIPVVAVASP-------SAVRSSWVNLISDTEQWSNSVACI 261 (263)
Q Consensus 221 ~~~~~l~~~d~vvFtS~-------s~v~~~~~~~~~~~~~~~~~i~~I 261 (263)
++.+.+...|.++|.|| ..++ +|++.+....+.+.+++.+
T Consensus 58 ~l~~~i~~AD~iI~~sP~Y~~sip~~LK-~~iD~~~~~~l~~K~v~~~ 104 (171)
T TIGR03567 58 AATAQVAQADGVVVATPVYKASYSGVLK-ALLDLLPQRALRGKVVLPI 104 (171)
T ss_pred HHHHHHHHCCEEEEECCcccCCCCHHHH-HHHHhCChhhhCCCEEEEE
Confidence 45555679999999998 5778 8888775333445555444
No 126
>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=86.03 E-value=3.3 Score=32.81 Aligned_cols=81 Identities=17% Similarity=0.218 Sum_probs=50.8
Q ss_pred EEEEEcCCCC--------chhHHHHHHhCCCeeeEEeeecccc------------CCCChHHHHHHhCCCCEEEEeCH--
Q 024727 180 TVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYTTEP------------VHHVDQTVLKQALSIPVVAVASP-- 237 (263)
Q Consensus 180 ~vL~~~g~~~--------~~~L~~~L~~~G~~v~~~~vY~~~~------------~~~~~~~~~~~l~~~d~vvFtS~-- 237 (263)
||+++.|... -+.+.+.|++.|++++.+.+.+... .++..+++.+.+...|.++|.||
T Consensus 2 kilii~gS~r~~~~t~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD~iI~~sP~y 81 (152)
T PF03358_consen 2 KILIINGSPRKNSNTRKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEADGIIFASPVY 81 (152)
T ss_dssp EEEEEESSSSTTSHHHHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSSEEEEEEEEB
T ss_pred EEEEEECcCCCCCHHHHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCCeEEEeecEE
Confidence 4555555542 2456667777788888887776411 11112334555679999999996
Q ss_pred -----HHHHHHHHHhcc---ccCCCCceEEEE
Q 024727 238 -----SAVRSSWVNLIS---DTEQWSNSVACI 261 (263)
Q Consensus 238 -----s~v~~~~~~~~~---~~~~~~~~i~~I 261 (263)
..++ +|++.+. ...+.+.+++.|
T Consensus 82 ~~~~s~~lK-~~lD~~~~~~~~~~~~K~~~~i 112 (152)
T PF03358_consen 82 NGSVSGQLK-NFLDRLSCWFRRALRGKPVAII 112 (152)
T ss_dssp TTBE-HHHH-HHHHTHHHTHTTTTTTSEEEEE
T ss_pred cCcCChhhh-HHHHHhccccccccCCCEEEEE
Confidence 5788 8888885 322456655555
No 127
>PRK06756 flavodoxin; Provisional
Probab=86.01 E-value=4.4 Score=32.14 Aligned_cols=63 Identities=11% Similarity=0.161 Sum_probs=38.4
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--------HHHHHHHHHHHcCCCCcEEEEeC
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--------AGSVFLEAWKEAGTPNVRIGVVG 135 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--------aV~~~~~~l~~~~~~~~~i~aVG 135 (263)
.+.+.|++.|..+...++.+.. .. ..+.++|.|+|-|+. .+..|++.+....+.+.+++++|
T Consensus 21 ~ia~~l~~~g~~v~~~~~~~~~---~~-------~~~~~~d~vi~gspt~~~g~~p~~~~~fl~~l~~~~l~~k~~~~fg 90 (148)
T PRK06756 21 HIAGVIRETENEIEVIDIMDSP---EA-------SILEQYDGIILGAYTWGDGDLPDDFLDFYDAMDSIDLTGKKAAVFG 90 (148)
T ss_pred HHHHHHhhcCCeEEEeehhccC---CH-------HHHhcCCeEEEEeCCCCCCCCcHHHHHHHHHHhcCCCCCCEEEEEe
Confidence 3444555667777655443221 11 134689999998755 36666666654455678888887
Q ss_pred h
Q 024727 136 A 136 (263)
Q Consensus 136 ~ 136 (263)
-
T Consensus 91 t 91 (148)
T PRK06756 91 S 91 (148)
T ss_pred C
Confidence 6
No 128
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=85.95 E-value=10 Score=28.04 Aligned_cols=75 Identities=15% Similarity=0.156 Sum_probs=42.0
Q ss_pred CcEEEEEcCCCCc-----hhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHHHHHHHHHHhcccc-
Q 024727 178 KCTVLYPASAKAS-----NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVRSSWVNLISDT- 251 (263)
Q Consensus 178 ~~~vL~~~g~~~~-----~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s~v~~~~~~~~~~~- 251 (263)
.++||++||.+-. ..+.+.++++|+++. ++.... .++.+...++|+ ++.+|.-.. . ++.+++.
T Consensus 3 ~~~ILl~C~~G~sSS~l~~k~~~~~~~~gi~~~---v~a~~~-----~~~~~~~~~~Dv-ill~pqi~~-~-~~~i~~~~ 71 (95)
T TIGR00853 3 ETNILLLCAAGMSTSLLVNKMNKAAEEYGVPVK---IAAGSY-----GAAGEKLDDADV-VLLAPQVAY-M-LPDLKKET 71 (95)
T ss_pred ccEEEEECCCchhHHHHHHHHHHHHHHCCCcEE---EEEecH-----HHHHhhcCCCCE-EEECchHHH-H-HHHHHHHh
Confidence 4789999998753 456677888988642 222211 122222357784 445554333 3 3333322
Q ss_pred CCCCceEEEECC
Q 024727 252 EQWSNSVACIAG 263 (263)
Q Consensus 252 ~~~~~~i~~IGp 263 (263)
...+++++.|.|
T Consensus 72 ~~~~ipv~~I~~ 83 (95)
T TIGR00853 72 DKKGIPVEVING 83 (95)
T ss_pred hhcCCCEEEeCh
Confidence 124678888864
No 129
>PRK11790 D-3-phosphoglycerate dehydrogenase; Provisional
Probab=85.75 E-value=21 Score=33.71 Aligned_cols=173 Identities=12% Similarity=0.040 Sum_probs=95.1
Q ss_pred CCCCCCeEEEeCCCCChHHHHHHHHhCCC-cEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHH-HHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGKNGKLIKALAKHRI-DCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGS-VFLEAWKE 123 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~~~~l~~~L~~~G~-~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~-~~~~~l~~ 123 (263)
.|...++|+++.+- .++..+.|++.|+ ++...+. . .+.+++ .+.+.++|.+++.+...+. .+++.
T Consensus 6 ~~~~~~~ili~~~~--~~~~~~~l~~~~~~~v~~~~~----~-~~~~~~---~~~~~~~d~l~~~~~~~~~~~~l~~--- 72 (409)
T PRK11790 6 LPKDKIKFLLLEGV--HQSAVEVLRAAGYTNIEYHKG----A-LDEEEL---IEAIKDAHFIGIRSRTQLTEEVLAA--- 72 (409)
T ss_pred CCCCCeEEEEECCC--CHHHHHHHHhcCCceEEECCC----C-CCHHHH---HHHcCCCCEEEEeCCCCCCHHHHhh---
Confidence 45556789998653 3555677887776 5544321 1 122223 3346789988776542222 22222
Q ss_pred cCCCCcEEEE---eChh--HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhc--------c-----------------
Q 024727 124 AGTPNVRIGV---VGAG--TASIFEEVIQSSKCSLDVAFSPSKATGKILASELP--------K----------------- 173 (263)
Q Consensus 124 ~~~~~~~i~a---VG~~--Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~--------~----------------- 173 (263)
.++.++++ +|-- -.+++++. |+.+...|. ++++.+++... +
T Consensus 73 --~~~Lk~I~~~~~G~d~id~~~~~~~------gI~V~n~pg-~~~~aVAE~~i~l~L~~~R~~~~~~~~~~~g~w~~~~ 143 (409)
T PRK11790 73 --AEKLVAIGCFCIGTNQVDLDAAAKR------GIPVFNAPF-SNTRSVAELVIGEIILLLRGIPEKNAKAHRGGWNKSA 143 (409)
T ss_pred --CCCCeEEEECceecccccHHHHHhC------CCEEEeCCC-CChHHHHHHHHHHHHHHHcChHHHHHHHHcCcccccc
Confidence 13455553 3432 23567788 998866654 33433332211 0
Q ss_pred ---CCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCC--CChHHHHHHhCCCCEEEEeCHHHH
Q 024727 174 ---NGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVH--HVDQTVLKQALSIPVVAVASPSAV 240 (263)
Q Consensus 174 ---~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~--~~~~~~~~~l~~~d~vvFtS~s~v 240 (263)
....|+++.++.-..-...+.+.++.-|.+|..+..+...... .....+.+.+...|+|++.-|.+-
T Consensus 144 ~~~~~L~gktvGIiG~G~IG~~vA~~~~~fGm~V~~~d~~~~~~~~~~~~~~~l~ell~~sDiVslh~Plt~ 215 (409)
T PRK11790 144 AGSFEVRGKTLGIVGYGHIGTQLSVLAESLGMRVYFYDIEDKLPLGNARQVGSLEELLAQSDVVSLHVPETP 215 (409)
T ss_pred cCcccCCCCEEEEECCCHHHHHHHHHHHHCCCEEEEECCCcccccCCceecCCHHHHHhhCCEEEEcCCCCh
Confidence 0125678888876665667889999999876544433211101 001124444568999999888654
No 130
>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=85.55 E-value=10 Score=32.88 Aligned_cols=68 Identities=12% Similarity=0.096 Sum_probs=38.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
..+.+.+++.|+++...... .+-...+.++..+ ....|.||+.+.. .....++.+.+. ++++++++..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~--~~~~~~~~i~~~~--~~~~dgiii~~~~~~~~~~~~~~~~~~---~iPvV~~~~~ 88 (289)
T cd01540 19 KFAKKAAKEKGFTVVKIDVP--DGEKVLSAIDNLG--AQGAKGFVICVPDVKLGPAIVAKAKAY---NMKVVAVDDR 88 (289)
T ss_pred HHHHHHHHHcCCEEEEccCC--CHHHHHHHHHHHH--HcCCCEEEEccCchhhhHHHHHHHHhC---CCeEEEecCC
Confidence 34567778899887754332 1100011223322 2578999998753 334444544443 6789888743
No 131
>cd00316 Oxidoreductase_nitrogenase The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase) and, both subunits of Protochlorophyllide (Pchlide) reductase and chlorophyllide (chlide) reductase. The nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized nitrogenase is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers whose alpha and beta subunits are similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molec
Probab=85.31 E-value=31 Score=31.86 Aligned_cols=141 Identities=16% Similarity=0.091 Sum_probs=80.7
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeCh-hH
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGA-GT 138 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-~~~~~~i~aVG~-~T 138 (263)
...++.+.|++.|+++..++.... +.++ ++++.+.+..+..++..-..+.+.+++. +.+-....-+|. .|
T Consensus 167 d~~el~~ll~~~G~~v~~~~~~~~----s~~~----i~~~~~A~~nlv~~~~~g~~~a~~l~~~~g~p~~~~~p~G~~~t 238 (399)
T cd00316 167 DLRELKRLLEEMGIRVNALFDGGT----TVEE----LRELGNAKLNLVLCRESGLYLARYLEEKYGIPYILINPIGLEAT 238 (399)
T ss_pred hHHHHHHHHHHcCCcEEEEcCCCC----CHHH----HHhhccCcEEEEecHhHHHHHHHHHHHHhCCCeEEeCCcCHHHH
Confidence 558999999999999998876522 1222 3456778888888885556666767654 333222224563 45
Q ss_pred HHHHHHhhhhcCCCCceeecCCCC--CHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeecc
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSKA--TGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~--t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
.+.|++.. ...|... -.++.. --+.+.+.+.+. ...|+++++..+....-.+...|.+.|.++..+..+..
T Consensus 239 ~~~l~~i~--~~~g~~~-~~~~~i~~~~~~~~~~~~~~~~~l~g~~~~i~~~~~~~~~~~~~l~e~G~~v~~~~~~~~ 313 (399)
T cd00316 239 DAFLRKLA--ELFGIEK-EVPEVIARERARLLDALADYHEYLGGKKVAIFGDGDLLLALARFLLELGMEVVAAGTTFG 313 (399)
T ss_pred HHHHHHHH--HHhCCCc-chHHHHHHHHHHHHHHHHHHHHHhcCCEEEEECCCcHHHHHHHHHHHCCCEEEEEEeCCC
Confidence 56665551 1124310 011000 001112222221 13578887776655455677899999999877776543
No 132
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=84.70 E-value=30 Score=31.16 Aligned_cols=152 Identities=12% Similarity=0.072 Sum_probs=73.8
Q ss_pred CCccEEEEe--CHHHHHHHHHHHHHcCCCCcEEEEeChhHH-HHHHHhhhhcCCCCceeecCCCCCH-HHHHHHhccCC-
Q 024727 101 TIFDWIIIT--SPEAGSVFLEAWKEAGTPNVRIGVVGAGTA-SIFEEVIQSSKCSLDVAFSPSKATG-KILASELPKNG- 175 (263)
Q Consensus 101 ~~~d~IiFT--S~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta-~~L~~~~~~~~~G~~~~~~p~~~t~-e~L~~~l~~~~- 175 (263)
..+|.+|+. ........++.+.. .+++++++|.... ..++.. .....+..+.+.+ ....+.+.++.
T Consensus 80 ~~vdgiIi~~~~~~~~~~~l~~l~~---~giPvV~vd~~~~~~~~~~~------~~~~~V~~D~~~ag~~a~~~l~~~~~ 150 (330)
T PRK15395 80 KGVKALAINLVDPAAAPTVIEKARG---QDVPVVFFNKEPSRKALDSY------DKAYYVGTDSKESGIIQGDLIAKHWK 150 (330)
T ss_pred cCCCEEEEeccCHHHHHHHHHHHHH---CCCcEEEEcCCccccccccc------cceeEEccChHHHHHHHHHHHHHHHh
Confidence 579999986 44444545555444 3678999986321 111111 1111122333322 22222233221
Q ss_pred --------CCC-cEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccCCCCh-HHHHHHhC-----CCCEEE
Q 024727 176 --------KKK-CTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPVHHVD-QTVLKQAL-----SIPVVA 233 (263)
Q Consensus 176 --------~~~-~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~~~~~-~~~~~~l~-----~~d~vv 233 (263)
..| .+++++.|.... .-+.+.|++.|..+....++......... +.+.+.+. ++++|+
T Consensus 151 ~~~~~~~~~~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~ 230 (330)
T PRK15395 151 ANPAWDLNKDGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVI 230 (330)
T ss_pred hccccccCCCCceEEEEEecCCCCchHHHHHHHHHHHHHhcCCCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEE
Confidence 122 345667665432 23456677788776553322221111111 12222222 468888
Q ss_pred EeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 234 VASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 234 FtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
..|...+. ..++.+.+....++++++++
T Consensus 231 ~~~d~~A~-gvl~al~~~Gl~~vpVvg~D 258 (330)
T PRK15395 231 ANNDAMAM-GAVEALKAHNKSSIPVFGVD 258 (330)
T ss_pred ECCchHHH-HHHHHHHhcCCCCCeEEeeC
Confidence 88877777 67776665433356666654
No 133
>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=84.30 E-value=30 Score=30.88 Aligned_cols=136 Identities=13% Similarity=0.025 Sum_probs=76.3
Q ss_pred CCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecC-CCCCHHHHHHHhccCCCCCc
Q 024727 101 TIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSP-SKATGKILASELPKNGKKKC 179 (263)
Q Consensus 101 ~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p-~~~t~e~L~~~l~~~~~~~~ 179 (263)
.+.+.|+-............+.+. +++++..+... ..+... .++- .+.+ .......+++.+.+.. .+
T Consensus 66 ~~V~~iig~~~s~~~~~~~~~~~~---~ip~v~~~~~~-~~~~~~-----~~~~-~~~~~~~~~~~~~~~~l~~~g--~~ 133 (341)
T cd06341 66 DKVVAVVGGSSGAGGSALPYLAGA---GIPVIGGAGTS-AWELTS-----PNSF-PFSGGTPASLTTWGDFAKDQG--GT 133 (341)
T ss_pred cCceEEEecccccchhHHHHHhhc---CCceecCCCCC-chhhcC-----CCeE-EecCCCcchhHHHHHHHHHcC--Cc
Confidence 478888876555444443544443 45555554322 222211 0111 1222 2345677777777653 46
Q ss_pred EEEEEcCCCC------chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCHH-HHHHHHHHhccc
Q 024727 180 TVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPS-AVRSSWVNLISD 250 (263)
Q Consensus 180 ~vL~~~g~~~------~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s-~v~~~~~~~~~~ 250 (263)
++.++..+.. ...+.+.+++.|+++.....|.... .+.......+ .++|+|++.+.. .+- .+++.+.+
T Consensus 134 ~~~~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~--~d~~~~~~~i~~~~pdaV~~~~~~~~a~-~~~~~~~~ 210 (341)
T cd06341 134 RAVALVTALSAAVSAAAALLARSLAAAGVSVAGIVVITATA--PDPTPQAQQAAAAGADAIITVLDAAVCA-SVLKAVRA 210 (341)
T ss_pred EEEEEEeCCcHHHHHHHHHHHHHHHHcCCccccccccCCCC--CCHHHHHHHHHhcCCCEEEEecChHHHH-HHHHHHHH
Confidence 6666644332 3557788899999887776766531 2222223333 489999999877 666 77777765
Q ss_pred c
Q 024727 251 T 251 (263)
Q Consensus 251 ~ 251 (263)
.
T Consensus 211 ~ 211 (341)
T cd06341 211 A 211 (341)
T ss_pred c
Confidence 4
No 134
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=83.96 E-value=15 Score=30.11 Aligned_cols=123 Identities=9% Similarity=0.076 Sum_probs=74.2
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC-CCCcEEEEEcCCCC-chhHHHHHHhCCCeeeEE
Q 024727 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG-KKKCTVLYPASAKA-SNEIEEGLSNRGFEVVRL 207 (263)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~-~~~~~vL~~~g~~~-~~~L~~~L~~~G~~v~~~ 207 (263)
-+++=|.....+++-. |... |+..+.-+|+..+.+.. ..+.++.++.|... .+.+.+.|++..-.+.-+
T Consensus 8 lv~~DG~~i~~~~~~~------g~~~---~~rv~g~dl~~~l~~~~~~~~~~ifllG~~~~~~~~~~~~l~~~yP~l~iv 78 (172)
T PF03808_consen 8 LVLPDGMPIVWAARLL------GRPL---PERVTGSDLFPDLLRRAEQRGKRIFLLGGSEEVLEKAAANLRRRYPGLRIV 78 (172)
T ss_pred EEecCCHHHHHHHHHc------CCCC---CcccCHHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEE
Confidence 3566688788888877 8653 46677778877777654 34578888888765 356677888774334333
Q ss_pred eeeccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 208 NTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 208 ~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
-.|.--..+...+++.+.+ .++|+|+..-++-=+..|+...... .....++|+|
T Consensus 79 g~~~g~f~~~~~~~i~~~I~~~~pdiv~vglG~PkQE~~~~~~~~~-l~~~v~i~vG 134 (172)
T PF03808_consen 79 GYHHGYFDEEEEEAIINRINASGPDIVFVGLGAPKQERWIARHRQR-LPAGVIIGVG 134 (172)
T ss_pred EecCCCCChhhHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHH-CCCCEEEEEC
Confidence 3343322223334455555 4788777665554442455544332 3444778887
No 135
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=83.93 E-value=11 Score=27.93 Aligned_cols=74 Identities=15% Similarity=0.204 Sum_probs=41.5
Q ss_pred EEEEEcCCCCc-----hhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHHHHHHHHHHhccccCCC
Q 024727 180 TVLYPASAKAS-----NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVRSSWVNLISDTEQW 254 (263)
Q Consensus 180 ~vL~~~g~~~~-----~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s~v~~~~~~~~~~~~~~ 254 (263)
+||++||.+-. +.+.+.++++|.++ ++..+.. .++.....++| +++++|.-.. .+-+.-+.....
T Consensus 1 kIl~~Cg~G~sTS~~~~ki~~~~~~~~~~~-~v~~~~~-------~~~~~~~~~~D-iil~~Pqv~~-~~~~i~~~~~~~ 70 (96)
T cd05564 1 KILLVCSAGMSTSILVKKMKKAAEKRGIDA-EIEAVPE-------SELEEYIDDAD-VVLLGPQVRY-MLDEVKKKAAEY 70 (96)
T ss_pred CEEEEcCCCchHHHHHHHHHHHHHHCCCce-EEEEecH-------HHHHHhcCCCC-EEEEChhHHH-HHHHHHHHhccC
Confidence 47788887753 45677788888863 2222221 11222235777 6667776554 444432222235
Q ss_pred CceEEEECC
Q 024727 255 SNSVACIAG 263 (263)
Q Consensus 255 ~~~i~~IGp 263 (263)
++++..|+|
T Consensus 71 ~~pv~~I~~ 79 (96)
T cd05564 71 GIPVAVIDM 79 (96)
T ss_pred CCcEEEcCh
Confidence 788888875
No 136
>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=83.75 E-value=19 Score=31.65 Aligned_cols=148 Identities=10% Similarity=0.081 Sum_probs=66.5
Q ss_pred CCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecC-CCCC-HHHHHHHhccCCC
Q 024727 101 TIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSP-SKAT-GKILASELPKNGK 176 (263)
Q Consensus 101 ~~~d~IiFTS~--~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p-~~~t-~e~L~~~l~~~~~ 176 (263)
..+|.||+.+. ..+...++.+.+ .+++++.++..... . +..+.+.. +... ....++.+.++..
T Consensus 55 ~~vdgiIi~~~~~~~~~~~l~~~~~---~giPvV~~~~~~~~----~------~~~~~v~~~Dn~~~g~~aa~~l~~~l~ 121 (302)
T TIGR02637 55 QKVDAIAISANDPDALVPALKKAMK---RGIKVVTWDSGVAP----E------GRNLFLNQASADLIGRTQVQLAAEQIG 121 (302)
T ss_pred cCCCEEEEeCCChHHHHHHHHHHHH---CCCEEEEeCCCCCC----C------ceeEEEecCCHHHHHHHHHHHHHHHcC
Confidence 57999999764 233333444443 36788888743211 1 11111111 2111 1222333333333
Q ss_pred CCcEEEEEcCCCCc-------hhHHHHHHhCCCe-eeEEeeeccccCCCChH-HHHHHh---CCCCEEEEeCHHHHHHHH
Q 024727 177 KKCTVLYPASAKAS-------NEIEEGLSNRGFE-VVRLNTYTTEPVHHVDQ-TVLKQA---LSIPVVAVASPSAVRSSW 244 (263)
Q Consensus 177 ~~~~vL~~~g~~~~-------~~L~~~L~~~G~~-v~~~~vY~~~~~~~~~~-~~~~~l---~~~d~vvFtS~s~v~~~~ 244 (263)
.+++|+++.|.... +-+.+.++++|.. +..+.+........... .+.+.+ .++++|+..+...+. ..
T Consensus 122 ~~~~I~~i~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~ai~~~~d~~a~-ga 200 (302)
T TIGR02637 122 NGGEIAILSAASTATNQNAWIEIMKKELKDPKYPKVKLVATVYGDDDAQKSYQEAQGLLKSYPNLKGIIAPTTVGIK-AA 200 (302)
T ss_pred CCcEEEEEECCCCCccHHHHHHHHHHHHhhccCCCCEEEeeecCCchHHHHHHHHHHHHHhCCCccEEEeCCCchHH-HH
Confidence 34799999886432 2233334443321 22111111111111111 122223 367888887766666 55
Q ss_pred HHhccccC-CCCceEEEEC
Q 024727 245 VNLISDTE-QWSNSVACIA 262 (263)
Q Consensus 245 ~~~~~~~~-~~~~~i~~IG 262 (263)
.+.+.+.. ..++.+++++
T Consensus 201 ~~al~~~g~~~~i~vvg~d 219 (302)
T TIGR02637 201 AQAVSDAKLIGKVKLTGLG 219 (302)
T ss_pred HHHHHhcCCCCCEEEEEcC
Confidence 55554332 2355666654
No 137
>PRK15438 erythronate-4-phosphate dehydrogenase PdxB; Provisional
Probab=83.66 E-value=6.8 Score=36.66 Aligned_cols=163 Identities=10% Similarity=0.062 Sum_probs=91.5
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcE
Q 024727 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVR 130 (263)
Q Consensus 51 ~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~ 130 (263)
|+|++...- ....+.|++.| ++...|-. .. .. + .+.++|.++..|...+..-+ +. . .+++
T Consensus 1 mkIl~d~~~---~~~~~~~~~~~-ev~~~~~~---~~--~~---~---~l~daD~liv~s~t~v~~~l--l~--~-~~Lk 60 (378)
T PRK15438 1 MKILVDENM---PYARELFSRLG-EVKAVPGR---PI--PV---A---QLADADALMVRSVTKVNESL--LA--G-KPIK 60 (378)
T ss_pred CEEEEeCCc---chHHHHHhhcC-cEEEeCCC---CC--CH---H---HhCCCcEEEEcCCCCCCHHH--hc--C-CCCe
Confidence 467877433 24445666554 77665521 11 11 1 24789999887765443322 21 1 3556
Q ss_pred EEE-eChhH----HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhc-------c---CCCCCcEEEEEcCCCCchhHHH
Q 024727 131 IGV-VGAGT----ASIFEEVIQSSKCSLDVAFSPSKATGKILASELP-------K---NGKKKCTVLYPASAKASNEIEE 195 (263)
Q Consensus 131 i~a-VG~~T----a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~-------~---~~~~~~~vL~~~g~~~~~~L~~ 195 (263)
++. .|-.+ .+++++. |+.+.-.|. .++..+++... + ....|+++.++.-..-...+.+
T Consensus 61 ~I~~~~~G~D~iD~~~~~~~------gI~v~napg-~na~aVAE~~~~~lL~l~r~~g~~L~gktvGIIG~G~IG~~vA~ 133 (378)
T PRK15438 61 FVGTATAGTDHVDEAWLKQA------GIGFSAAPG-CNAIAVVEYVFSSLLMLAERDGFSLHDRTVGIVGVGNVGRRLQA 133 (378)
T ss_pred EEEECcccccccCHHHHHHC------CCEEEECCC-cCchHHHHHHHHHHHHHhccCCCCcCCCEEEEECcCHHHHHHHH
Confidence 543 23333 3577888 998766553 44444443322 1 1236789988887776677999
Q ss_pred HHHhCCCeeeEEeeeccccCCC-ChHHHHHHhCCCCEEEEeCHHHH
Q 024727 196 GLSNRGFEVVRLNTYTTEPVHH-VDQTVLKQALSIPVVAVASPSAV 240 (263)
Q Consensus 196 ~L~~~G~~v~~~~vY~~~~~~~-~~~~~~~~l~~~d~vvFtS~s~v 240 (263)
.|+..|++|..+.-+....... ....+.+.+...|+|++..|.+-
T Consensus 134 ~l~a~G~~V~~~dp~~~~~~~~~~~~~L~ell~~sDiI~lh~PLt~ 179 (378)
T PRK15438 134 RLEALGIKTLLCDPPRADRGDEGDFRSLDELVQEADILTFHTPLFK 179 (378)
T ss_pred HHHHCCCEEEEECCcccccccccccCCHHHHHhhCCEEEEeCCCCC
Confidence 9999999775443222111111 11123443468999999888543
No 138
>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=83.05 E-value=21 Score=31.40 Aligned_cols=177 Identities=10% Similarity=0.032 Sum_probs=81.3
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC-chHHHHHHhcCCCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPD-TDRLSSVLNADTIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~-~~~l~~~l~~l~~~d~IiFTS~--~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
.+.+.++++|+++.....-....... .+.++..+ -..+|.||+.+. ..+...+..+. .+++++.++.....
T Consensus 20 gi~~~a~~~g~~v~~~~~~~~~~~~~~~~~i~~l~--~~~vDgiIi~~~~~~~~~~~l~~~~----~~iPvV~~~~~~~~ 93 (295)
T TIGR02955 20 GMVEQAKHLGVELKVLEAGGYPNLDKQLAQIEQCK--SWGADAILLGTVSPEALNHDLAQLT----KSIPVFALVNQIDS 93 (295)
T ss_pred HHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHH--HcCCCEEEEecCChhhhhHHHHHHh----cCCCEEEEecCCCc
Confidence 34556677898887653211000000 11223222 367999999764 22222222221 25788877433211
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCC---CcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEee
Q 024727 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKK---KCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~---~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~v 209 (263)
. . .+. .+..+. ..+..+.+.|.+.... .++++++.|.... .-+.+.|++.|+.+.. ..
T Consensus 94 ~---~------~~~-~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~-~~ 162 (295)
T TIGR02955 94 N---Q------VKG-RVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQGFRAALEGSDVEISA-IL 162 (295)
T ss_pred c---c------eeE-EEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHHHHHHHHhcCCcEEEE-Ee
Confidence 1 1 111 122222 2334455555552211 3579999876542 3456677778876643 22
Q ss_pred eccccCCCChHH-HHHHh---CCCCEEEEeCHHHHHHHHHHhccccC-CCCceEEE
Q 024727 210 YTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSSWVNLISDTE-QWSNSVAC 260 (263)
Q Consensus 210 Y~~~~~~~~~~~-~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~-~~~~~i~~ 260 (263)
+ .........+ +.+.+ .++|+| +.+...+. ..++.+.+.. ..++.+++
T Consensus 163 ~-~~~~~~~~~~~~~~~L~~~~~~d~i-~~~d~~a~-g~l~al~~~g~~~dv~vvg 215 (295)
T TIGR02955 163 W-ADNDKELQRNLLQDLLKKHPDIDYL-VGSAVAAE-AAISELRSLHMTQQIKLVS 215 (295)
T ss_pred c-CCCcHHHHHHHHHHHHHhCCCcCEE-EeccHHHH-HHHHHHHhhCccCCeEEEE
Confidence 2 1111111111 22222 357877 55555555 5555543322 23555554
No 139
>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=82.15 E-value=31 Score=29.50 Aligned_cols=150 Identities=16% Similarity=0.031 Sum_probs=73.0
Q ss_pred CCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhc-CCCCceeecCCCCCHHHHHHHhccCCCCCc
Q 024727 101 TIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSS-KCSLDVAFSPSKATGKILASELPKNGKKKC 179 (263)
Q Consensus 101 ~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~-~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~ 179 (263)
..+|.||..+..+.... . +. ..+++++.+|.......... ... ..+..............+++.+.+.....+
T Consensus 59 ~~vd~iI~~~~~~~~~~-~-~~---~~~iPvV~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~ 132 (281)
T cd06325 59 DKPDLIVAIATPAAQAA-A-NA---TKDIPIVFTAVTDPVGAGLV-KSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAK 132 (281)
T ss_pred cCCCEEEEcCcHHHHHH-H-Hc---CCCCCEEEEecCCccccccc-cccccCCCceeCeecccchHHHHHHHHHHCCCCc
Confidence 57999998765433222 1 21 23678888873211110000 000 001111111223345666667766433457
Q ss_pred EEEEEcCCCC------chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHH-hCCCCEEEEeCHHHHHHHHHHhccccC
Q 024727 180 TVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQ-ALSIPVVAVASPSAVRSSWVNLISDTE 252 (263)
Q Consensus 180 ~vL~~~g~~~------~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~-l~~~d~vvFtS~s~v~~~~~~~~~~~~ 252 (263)
++.++.+... .+.+.+.+++.|+++.....+ ......+..+. +...|+|++.+-..+. ...+.+.+..
T Consensus 133 ~i~~l~~~~~~~~~~r~~g~~~~~~~~g~~~~~~~~~----~~~~~~~~~~~~~~~~dai~~~~d~~a~-~~~~~~~~~~ 207 (281)
T cd06325 133 TVGVLYNPSEANSVVQVKELKKAAAKLGIEVVEATVS----SSNDVQQAAQSLAGKVDAIYVPTDNTVA-SAMEAVVKVA 207 (281)
T ss_pred EEEEEeCCCCccHHHHHHHHHHHHHhCCCEEEEEecC----CHHHHHHHHHHhcccCCEEEEcCchhHH-hHHHHHHHHH
Confidence 8888754321 255667788888876543211 11111122222 2467998888776665 5555544322
Q ss_pred -CCCceEEEE
Q 024727 253 -QWSNSVACI 261 (263)
Q Consensus 253 -~~~~~i~~I 261 (263)
..+++++++
T Consensus 208 ~~~~ipvig~ 217 (281)
T cd06325 208 NEAKIPVIAS 217 (281)
T ss_pred HHcCCCEEEc
Confidence 135666665
No 140
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=82.08 E-value=4.5 Score=33.31 Aligned_cols=75 Identities=15% Similarity=0.102 Sum_probs=46.4
Q ss_pred CcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEE
Q 024727 128 NVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRL 207 (263)
Q Consensus 128 ~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~ 207 (263)
+..++.-...|++.|++++ ++++ +.-..|..++++.|.+....+.++.++....--+.+...-+-.|.++...
T Consensus 34 g~dViIsRG~ta~~lr~~~-----~iPV--V~I~~s~~Dil~al~~a~~~~~~Iavv~~~~~~~~~~~~~~ll~~~i~~~ 106 (176)
T PF06506_consen 34 GADVIISRGGTAELLRKHV-----SIPV--VEIPISGFDILRALAKAKKYGPKIAVVGYPNIIPGLESIEELLGVDIKIY 106 (176)
T ss_dssp T-SEEEEEHHHHHHHHCC------SS-E--EEE---HHHHHHHHHHCCCCTSEEEEEEESS-SCCHHHHHHHHT-EEEEE
T ss_pred CCeEEEECCHHHHHHHHhC-----CCCE--EEECCCHhHHHHHHHHHHhcCCcEEEEecccccHHHHHHHHHhCCceEEE
Confidence 4555544446999999984 5654 33457888999999887766789998888776555554444447766554
Q ss_pred ee
Q 024727 208 NT 209 (263)
Q Consensus 208 ~v 209 (263)
.+
T Consensus 107 ~~ 108 (176)
T PF06506_consen 107 PY 108 (176)
T ss_dssp EE
T ss_pred EE
Confidence 44
No 141
>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=81.54 E-value=5.6 Score=31.41 Aligned_cols=71 Identities=15% Similarity=0.175 Sum_probs=46.1
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCC-----------CchHHHHHHhcCCCccEEEEeCH-------HHHHHHHHHHH--
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGP-----------DTDRLSSVLNADTIFDWIIITSP-------EAGSVFLEAWK-- 122 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~-----------~~~~l~~~l~~l~~~d~IiFTS~-------~aV~~~~~~l~-- 122 (263)
+.+.+.+++.|+++..+.+-+. +.+ ..+.++...+.+...|.|||-|| ..++.|++.+.
T Consensus 21 ~~~~~~l~~~g~e~~~i~l~~~-~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD~iI~~sP~y~~~~s~~lK~~lD~~~~~ 99 (152)
T PF03358_consen 21 EAVAEQLEEAGAEVEVIDLADY-PLPCCDGDFECPCYIPDDVQELYDKLKEADGIIFASPVYNGSVSGQLKNFLDRLSCW 99 (152)
T ss_dssp HHHHHHHHHTTEEEEEEECTTS-HCHHHHHHHHHTGCTSHHHHHHHHHHHHSSEEEEEEEEBTTBE-HHHHHHHHTHHHT
T ss_pred HHHHHHHHHcCCEEEEEecccc-chhhcccccccccCCcHHHHHHHhceecCCeEEEeecEEcCcCChhhhHHHHHhccc
Confidence 3455566667888887776654 111 12345555666678999999996 57788888886
Q ss_pred -HcCCCCcEEEEe
Q 024727 123 -EAGTPNVRIGVV 134 (263)
Q Consensus 123 -~~~~~~~~i~aV 134 (263)
...+.+++++.+
T Consensus 100 ~~~~~~~K~~~~i 112 (152)
T PF03358_consen 100 FRRALRGKPVAII 112 (152)
T ss_dssp HTTTTTTSEEEEE
T ss_pred cccccCCCEEEEE
Confidence 333456666554
No 142
>PRK14191 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=79.97 E-value=22 Score=31.91 Aligned_cols=148 Identities=20% Similarity=0.158 Sum_probs=81.9
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHHH--H--HHHHHHHHHcCCCCcEEEEeChh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPEA--G--SVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~a--V--~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
-.+..++.|+++..+-+-+. ...+++.+.++ +....|.|+.--|-- + +..++.+. +.+.+=++.+.
T Consensus 52 k~k~a~~~Gi~~~~~~l~~~---~~~~el~~~I~~lN~D~~V~GIlvq~PlP~~i~~~~i~~~I~----p~KDVDGl~~~ 124 (285)
T PRK14191 52 KIKACERVGMDSDLHTLQEN---TTEAELLSLIKDLNTDQNIDGILVQLPLPRHIDTKMVLEAID----PNKDVDGFHPL 124 (285)
T ss_pred HHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhcCC----ccccccccChh
Confidence 34556677988776544221 12344545544 346789999887732 1 11222111 12223333333
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCC-CCchhHHHHHHhCCCeeeEEeeecccc
Q 024727 138 TASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASA-KASNEIEEGLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~-~~~~~L~~~L~~~G~~v~~~~vY~~~~ 214 (263)
-...|- . |-. .+.| -|+.+.++.|..+. ..|++++++... .-..-+...|.++|++|.-+.-.
T Consensus 125 n~g~l~-~------g~~-~~~P--cTp~avi~lL~~~~i~l~Gk~vvVvGrs~~VG~Pla~lL~~~gAtVtv~hs~---- 190 (285)
T PRK14191 125 NIGKLC-S------QLD-GFVP--ATPMGVMRLLKHYHIEIKGKDVVIIGASNIVGKPLAMLMLNAGASVSVCHIL---- 190 (285)
T ss_pred hHHHHh-c------CCC-CCCC--CcHHHHHHHHHHhCCCCCCCEEEEECCCchhHHHHHHHHHHCCCEEEEEeCC----
Confidence 333332 2 332 2444 57888887777553 468998888776 44555788888999988654211
Q ss_pred CCCChHHHHHHhCCCCEEEEeCH
Q 024727 215 VHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 215 ~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
...+.+.+...|+|+-.-+
T Consensus 191 ----t~~l~~~~~~ADIvV~AvG 209 (285)
T PRK14191 191 ----TKDLSFYTQNADIVCVGVG 209 (285)
T ss_pred ----cHHHHHHHHhCCEEEEecC
Confidence 1123333468888887654
No 143
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=79.80 E-value=23 Score=29.58 Aligned_cols=55 Identities=18% Similarity=-0.043 Sum_probs=45.4
Q ss_pred CCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCC
Q 024727 162 ATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVH 216 (263)
Q Consensus 162 ~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~ 216 (263)
.+.+.+++.+.+...+|+.++++.+......+.+..+..|..+.+..+|+....+
T Consensus 122 ~~~~~~l~~~~~~LkpGG~lv~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 176 (187)
T PRK00107 122 ASLSDLVELCLPLLKPGGRFLALKGRDPEEEIAELPKALGGKVEEVIELTLPGLD 176 (187)
T ss_pred cCHHHHHHHHHHhcCCCeEEEEEeCCChHHHHHHHHHhcCceEeeeEEEecCCCC
Confidence 3456677777777778999999999998889999989999999999999865543
No 144
>PRK07825 short chain dehydrogenase; Provisional
Probab=79.78 E-value=39 Score=29.12 Aligned_cols=81 Identities=17% Similarity=0.056 Sum_probs=47.3
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE--EeCHHHHHHHHHHHHHc
Q 024727 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII--ITSPEAGSVFLEAWKEA 124 (263)
Q Consensus 48 l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~Ii--FTS~~aV~~~~~~l~~~ 124 (263)
+.|++||||....+ ...+.+.|.+.|+++...- .+.+.++.....+....++. ++++.+++.+++.+.+.
T Consensus 3 ~~~~~ilVtGasggiG~~la~~l~~~G~~v~~~~-------r~~~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~ 75 (273)
T PRK07825 3 LRGKVVAITGGARGIGLATARALAALGARVAIGD-------LDEALAKETAAELGLVVGGPLDVTDPASFAAFLDAVEAD 75 (273)
T ss_pred CCCCEEEEeCCCchHHHHHHHHHHHCCCEEEEEE-------CCHHHHHHHHHHhccceEEEccCCCHHHHHHHHHHHHHH
Confidence 56889999987654 4678888889998865321 12222333222223233332 47888888888877653
Q ss_pred -CCCCcEEEEeC
Q 024727 125 -GTPNVRIGVVG 135 (263)
Q Consensus 125 -~~~~~~i~aVG 135 (263)
+.-+.-|.+.|
T Consensus 76 ~~~id~li~~ag 87 (273)
T PRK07825 76 LGPIDVLVNNAG 87 (273)
T ss_pred cCCCCEEEECCC
Confidence 21234444444
No 145
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=79.48 E-value=20 Score=33.30 Aligned_cols=80 Identities=18% Similarity=0.239 Sum_probs=50.5
Q ss_pred HHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceee-cCCCCCHHHHHHHhccCCCCCcEEEEEc-----CCCCch
Q 024727 118 LEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAF-SPSKATGKILASELPKNGKKKCTVLYPA-----SAKASN 191 (263)
Q Consensus 118 ~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~-~p~~~t~e~L~~~l~~~~~~~~~vL~~~-----g~~~~~ 191 (263)
+..+.+..-.+..|++=|++-.++|++. |++-.+ .-.....-+.++.|.+.. -++|++.. |++...
T Consensus 14 ~~~l~~~~~~~~~ilveg~~d~~~l~~l------gi~g~~i~~s~~p~~~cad~ii~~g--i~rVVi~~D~d~~G~~~~~ 85 (360)
T PRK14719 14 IDDLKLLAEKGIPILVEGPNDILSLKNL------KINANFITVSNTPVFQIADDLIAEN--ISEVILLTDFDRAGRVYAK 85 (360)
T ss_pred HHHHHHhhhCCCEEEEEcchHHHHHHHc------CCCCcEEEEeCCchHHHHHHHHHcC--CCEEEEEECCCCCCCccch
Confidence 3334433334789999999999999999 995322 222222233556665532 26777776 222223
Q ss_pred hHHHHHHhCCCeee
Q 024727 192 EIEEGLSNRGFEVV 205 (263)
Q Consensus 192 ~L~~~L~~~G~~v~ 205 (263)
.+.+.|+++|++|.
T Consensus 86 ~~~~~L~~aGi~V~ 99 (360)
T PRK14719 86 NIMEEFQSRGIKVN 99 (360)
T ss_pred HHHHHHHHCCCEEE
Confidence 56799999999994
No 146
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=79.24 E-value=8.4 Score=32.35 Aligned_cols=69 Identities=16% Similarity=0.102 Sum_probs=42.0
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeC------CCchHHHHHHhcCCCccEEEEeCH-------HHHHHHHHHHHHcCCCCcE
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQG------PDTDRLSSVLNADTIFDWIIITSP-------EAGSVFLEAWKEAGTPNVR 130 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~------~~~~~l~~~l~~l~~~d~IiFTS~-------~aV~~~~~~l~~~~~~~~~ 130 (263)
...+.+++.|.++..+.+++..+. ...+.+....+.+...|.|||-|| ...++|+..+....+.+++
T Consensus 22 ~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~~~~~~~~~i~~AD~iIi~tP~Y~~s~pg~LKn~iD~l~~~~l~~K~ 101 (191)
T PRK10569 22 YAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSPALKTFTEQLAQADGLIVATPVYKASFSGALKTLLDLLPERALEHKV 101 (191)
T ss_pred HHHHHHHhCCCEEEEEEccCCChHHHHhccCCCHHHHHHHHHHHHCCEEEEECCccCCCCCHHHHHHHHhCChhhhCCCE
Confidence 445556668999988877653220 012345555566788999999998 4556676655332233444
Q ss_pred EE
Q 024727 131 IG 132 (263)
Q Consensus 131 i~ 132 (263)
++
T Consensus 102 v~ 103 (191)
T PRK10569 102 VL 103 (191)
T ss_pred EE
Confidence 43
No 147
>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=79.20 E-value=21 Score=31.56 Aligned_cols=179 Identities=8% Similarity=0.063 Sum_probs=87.9
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChh
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
.+.+.+.+++.|+++...+.- .+.+...+.++. ...+|.||+.+.. .....++.+.+. +++++.++..
T Consensus 17 ~~~i~~~a~~~g~~v~~~~~~-----~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~---~iPvV~~d~~ 88 (302)
T TIGR02634 17 RDIFVAAAESLGAKVFVQSAN-----GNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDE---GIKVVAYDRL 88 (302)
T ss_pred HHHHHHHHHhcCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHC---CCeEEEecCc
Confidence 456778888999888654321 121111122222 2579999998743 344555555543 6789998864
Q ss_pred HHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhC----CCeee
Q 024727 138 TASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNR----GFEVV 205 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~----G~~v~ 205 (263)
.. .. .....+..+. ..+..+++.|.+.. ..++++++.|.... .-+.+.+++. ++.+.
T Consensus 89 ~~----~~------~~~~~V~~d~~~~g~~~~~~L~~~g-~~~~i~~i~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~ 157 (302)
T TIGR02634 89 IN----DA------DIDFYLSFDNEKVGEMQARAVLEAA-PKGNYFLMGGSPTDNNAKLLRGGQMKVLQPAIDSGDIKIV 157 (302)
T ss_pred CC----CC------CccEEEecCHHHHHHHHHHHHHhhC-CCCCEEEEeCCCCCcchHHHHHHHHHHHhhhccCCCeEEe
Confidence 31 11 2211222332 33455566666543 22478887775432 1222334432 23221
Q ss_pred EEeeeccccCCCCh-HHHHHHh----CCCCEEEEeCHHHHHHHHHHhccccCC-CCceEEEE
Q 024727 206 RLNTYTTEPVHHVD-QTVLKQA----LSIPVVAVASPSAVRSSWVNLISDTEQ-WSNSVACI 261 (263)
Q Consensus 206 ~~~vY~~~~~~~~~-~~~~~~l----~~~d~vvFtS~s~v~~~~~~~~~~~~~-~~~~i~~I 261 (263)
. ..|......... +.+.+.+ ..+++|+..+-..+. ...+.+.+... .++.|+++
T Consensus 158 ~-~~~~~~~~~~~~~~~~~~ll~~~~~~~~aI~~~~D~~A~-g~~~al~~~g~~~di~Vvg~ 217 (302)
T TIGR02634 158 G-DQWVDGWLPENALRIMENALTANDNKVDAVVASNDATAG-GAIQALTAQGLAGKVPISGQ 217 (302)
T ss_pred c-CcCCCCCCHHHHHHHHHHHHHhCCCCccEEEECCCchHH-HHHHHHHHCCCCCCeEEEcC
Confidence 1 111110100111 1222222 258999998877777 66666654432 34555544
No 148
>PRK10537 voltage-gated potassium channel; Provisional
Probab=78.71 E-value=23 Score=33.30 Aligned_cols=116 Identities=15% Similarity=0.113 Sum_probs=73.9
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeee-C--------CCchHHHHHHh--cCCCccEEEEeCHHHHHHHH
Q 024727 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQ-G--------PDTDRLSSVLN--ADTIFDWIIITSPEAGSVFL 118 (263)
Q Consensus 50 g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~-~--------~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~~~ 118 (263)
..+|+|.....-...+.+.|++.|.++..+---+.+. . -|..+ ++.|+ .+++.+.++.++.+-.+...
T Consensus 240 k~HvII~G~g~lg~~v~~~L~~~g~~vvVId~d~~~~~~~~g~~vI~GD~td-~e~L~~AgI~~A~aVI~~t~dD~~Nl~ 318 (393)
T PRK10537 240 KDHFIICGHSPLAINTYLGLRQRGQAVTVIVPLGLEHRLPDDADLIPGDSSD-SAVLKKAGAARARAILALRDNDADNAF 318 (393)
T ss_pred CCeEEEECCChHHHHHHHHHHHCCCCEEEEECchhhhhccCCCcEEEeCCCC-HHHHHhcCcccCCEEEEcCCChHHHHH
Confidence 5679998877777889999999888765432100000 0 01000 12232 35788999998887666654
Q ss_pred HHH--HHcCCCCcEEEE--eChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhcc
Q 024727 119 EAW--KEAGTPNVRIGV--VGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (263)
Q Consensus 119 ~~l--~~~~~~~~~i~a--VG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (263)
-.+ ++.+ ++.++++ -.+...+.+++. |.+..+.|....++.+++.+..
T Consensus 319 ivL~ar~l~-p~~kIIa~v~~~~~~~~L~~~------GaD~VIsp~~l~g~~la~~l~g 370 (393)
T PRK10537 319 VVLAAKEMS-SDVKTVAAVNDSKNLEKIKRV------HPDMIFSPQLLGSELLARTLNG 370 (393)
T ss_pred HHHHHHHhC-CCCcEEEEECCHHHHHHHHhc------CCCEEECHHHHHHHHHHHHhcC
Confidence 433 2333 3555654 477788889998 9998888877777777766654
No 149
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=78.42 E-value=20 Score=26.85 Aligned_cols=72 Identities=11% Similarity=0.220 Sum_probs=41.1
Q ss_pred EEEEEcCCCCc-----hhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHHHHHHHHHHhcccc-CC
Q 024727 180 TVLYPASAKAS-----NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVRSSWVNLISDT-EQ 253 (263)
Q Consensus 180 ~vL~~~g~~~~-----~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s~v~~~~~~~~~~~-~~ 253 (263)
+|++.||.+.. +.+.+.++++|+++.-..+ .. .++.+...++|+ ++.+|. ++ +.++.+++. ..
T Consensus 2 ~Ill~C~~GaSSs~la~km~~~a~~~gi~~~i~a~-~~-------~e~~~~~~~~Dv-ill~PQ-v~-~~~~~i~~~~~~ 70 (99)
T cd05565 2 NVLVLCAGGGTSGLLANALNKGAKERGVPLEAAAG-AY-------GSHYDMIPDYDL-VILAPQ-MA-SYYDELKKDTDR 70 (99)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEe-eH-------HHHHHhccCCCE-EEEcCh-HH-HHHHHHHHHhhh
Confidence 58888877753 5567788899987642222 21 122333467884 445554 44 455544432 23
Q ss_pred CCceEEEEC
Q 024727 254 WSNSVACIA 262 (263)
Q Consensus 254 ~~~~i~~IG 262 (263)
.++++..|-
T Consensus 71 ~~ipv~~I~ 79 (99)
T cd05565 71 LGIKLVTTT 79 (99)
T ss_pred cCCCEEEeC
Confidence 467887773
No 150
>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=78.25 E-value=12 Score=30.58 Aligned_cols=40 Identities=18% Similarity=0.265 Sum_probs=26.2
Q ss_pred HHHHHhCCCCEEEEeCH-------HHHHHHHHHhccccCCCCceEEEE
Q 024727 221 TVLKQALSIPVVAVASP-------SAVRSSWVNLISDTEQWSNSVACI 261 (263)
Q Consensus 221 ~~~~~l~~~d~vvFtS~-------s~v~~~~~~~~~~~~~~~~~i~~I 261 (263)
++.+.+...|+|+|.|| ..++ +|++.+....+.+.+++.+
T Consensus 61 ~~~~~i~~AD~iIi~tP~Y~~s~~~~LK-n~lD~~~~~~l~~K~~~~v 107 (174)
T TIGR03566 61 RILQAIESADLLVVGSPVYRGSYTGLFK-HLFDLVDPNALIGKPVLLA 107 (174)
T ss_pred HHHHHHHHCCEEEEECCcCcCcCcHHHH-HHHHhcCHhHhCCCEEEEE
Confidence 34555679999999998 5677 8888765322444444433
No 151
>PRK00257 erythronate-4-phosphate dehydrogenase; Validated
Probab=77.66 E-value=31 Score=32.28 Aligned_cols=159 Identities=13% Similarity=0.089 Sum_probs=87.9
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcE
Q 024727 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVR 130 (263)
Q Consensus 51 ~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~ 130 (263)
|+|++.... ....+.+++.| ++...|--. . . .+ .+.++|.++..|..-+.. ..+.. .+++
T Consensus 1 mkI~~d~~~---p~~~~~~~~~~-~v~~~~~~~---~--~---~~---~l~daD~liv~~~t~v~~--~ll~~---~~Lk 60 (381)
T PRK00257 1 MKIVADENI---PLLDAFFAGFG-EIRRLPGRA---F--D---RA---AVRDADVLLVRSVTRVDR--ALLEG---SRVR 60 (381)
T ss_pred CEEEEecCc---hhHHHHHhhCC-cEEEcCCcc---c--C---HH---HhCCceEEEEeCCCCCCH--HHhcC---CCCe
Confidence 467777554 33455565554 555544211 1 0 11 357899988776533322 11221 3556
Q ss_pred EEE---eChh--HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhc-------cC---CCCCcEEEEEcCCCCchhHHH
Q 024727 131 IGV---VGAG--TASIFEEVIQSSKCSLDVAFSPSKATGKILASELP-------KN---GKKKCTVLYPASAKASNEIEE 195 (263)
Q Consensus 131 i~a---VG~~--Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~-------~~---~~~~~~vL~~~g~~~~~~L~~ 195 (263)
+++ +|-- -.+.+++. |+.+.-.| ..++..+++... +. ...|+++.++....-...+.+
T Consensus 61 ~I~~~~~G~D~iD~~~~~~~------gI~v~nap-g~na~aVAE~v~~~lL~l~r~~g~~l~gktvGIIG~G~IG~~va~ 133 (381)
T PRK00257 61 FVGTCTIGTDHLDLDYFAEA------GITWSSAP-GCNARGVVDYVLGSLLTLAEREGVDLAERTYGVVGAGHVGGRLVR 133 (381)
T ss_pred EEEECCccccccCHHHHHHC------CCEEEECC-CcChHHHHHHHHHHHHHHhcccCCCcCcCEEEEECCCHHHHHHHH
Confidence 553 3321 24677888 99876555 355555554322 11 236788988876655566889
Q ss_pred HHHhCCCeeeEEeeeccccCC-C---ChHHHHHHhCCCCEEEEeCHHH
Q 024727 196 GLSNRGFEVVRLNTYTTEPVH-H---VDQTVLKQALSIPVVAVASPSA 239 (263)
Q Consensus 196 ~L~~~G~~v~~~~vY~~~~~~-~---~~~~~~~~l~~~d~vvFtS~s~ 239 (263)
.|+..|++|. +|+..... . ....+.+.+...|+|++.-|.+
T Consensus 134 ~l~a~G~~V~---~~Dp~~~~~~~~~~~~~l~ell~~aDiV~lh~Plt 178 (381)
T PRK00257 134 VLRGLGWKVL---VCDPPRQEAEGDGDFVSLERILEECDVISLHTPLT 178 (381)
T ss_pred HHHHCCCEEE---EECCcccccccCccccCHHHHHhhCCEEEEeCcCC
Confidence 9999999774 44421111 0 0112333346899999988864
No 152
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=77.34 E-value=32 Score=31.12 Aligned_cols=189 Identities=11% Similarity=0.055 Sum_probs=85.9
Q ss_pred CCeEEEeCCCCCh-------HHHHHHHHhCCCcEEEeceEEeeeCCCc----hHHHHHHhcCCCccEEEEeCH--HHHHH
Q 024727 50 NPKVVVTRERGKN-------GKLIKALAKHRIDCLELPLIQHAQGPDT----DRLSSVLNADTIFDWIIITSP--EAGSV 116 (263)
Q Consensus 50 g~~ILitr~~~~~-------~~l~~~L~~~G~~v~~~p~~~~~~~~~~----~~l~~~l~~l~~~d~IiFTS~--~aV~~ 116 (263)
.++|.+.-+.... ..+.+.++++|+++.....- ...+. +.++..+ ...+|.||+.+. ..+..
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~---~~~~~~~q~~~i~~l~--~~~vdgIIl~~~~~~~~~~ 120 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAG---GYYNLAKQQQQLEQCV--AWGADAILLGAVTPDGLNP 120 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCC---CCCCHHHHHHHHHHHH--HhCCCEEEEeCCChHHhHH
Confidence 4556555444222 23455566788776654321 01121 1233322 257999998753 22222
Q ss_pred HHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCC---CCCcEEEEEcCCCCc--
Q 024727 117 FLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNG---KKKCTVLYPASAKAS-- 190 (263)
Q Consensus 117 ~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~---~~~~~vL~~~g~~~~-- 190 (263)
.+ .+.+ .++++++++.... .. +....+..+.+ .+...++.|.+.. ...++++++.|....
T Consensus 121 ~l-~~~~---~giPvV~~~~~~~----~~------~~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~ 186 (343)
T PRK10936 121 DL-ELQA---ANIPVIALVNGID----SP------QVTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGG 186 (343)
T ss_pred HH-HHHH---CCCCEEEecCCCC----Cc------cceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCch
Confidence 22 2333 3578887753221 11 11111223322 2233344444432 124689999886532
Q ss_pred -----hhHHHHHHhCCCeeeEEeeeccccCCCCh-HHHHHHh---CCCCEEEEeCHHHHHHHHHHhccccC-CCCceEEE
Q 024727 191 -----NEIEEGLSNRGFEVVRLNTYTTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSSWVNLISDTE-QWSNSVAC 260 (263)
Q Consensus 191 -----~~L~~~L~~~G~~v~~~~vY~~~~~~~~~-~~~~~~l---~~~d~vvFtS~s~v~~~~~~~~~~~~-~~~~~i~~ 260 (263)
.-+.+.+++.|+++.. .++. ....... +.+.+.+ .++|+|+ .+...+. ...+.+.+.. ..++.|++
T Consensus 187 ~~~R~~Gf~~~l~~~~i~~~~-~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~-~~d~~A~-ga~~al~~~g~~~di~Vvg 262 (343)
T PRK10936 187 SKAVEQGFRAAIAGSDVRIVD-IAYG-DNDKELQRNLLQELLERHPDIDYIA-GSAVAAE-AAIGELRGRNLTDKIKLVS 262 (343)
T ss_pred HHHHHHHHHHHHhcCCCEEEE-eecC-CCcHHHHHHHHHHHHHhCCCccEEE-eCCHHHH-HHHHHHHhcCCCCCeEEEE
Confidence 2245566677776543 1221 1111111 1122222 3578887 4445555 5555554432 23455554
Q ss_pred E
Q 024727 261 I 261 (263)
Q Consensus 261 I 261 (263)
+
T Consensus 263 ~ 263 (343)
T PRK10936 263 F 263 (343)
T ss_pred e
Confidence 3
No 153
>PLN02928 oxidoreductase family protein
Probab=77.25 E-value=30 Score=31.89 Aligned_cols=62 Identities=11% Similarity=0.021 Sum_probs=39.6
Q ss_pred CCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCC--------------------ChHHHHHHhCCCCEEEEeC
Q 024727 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH--------------------VDQTVLKQALSIPVVAVAS 236 (263)
Q Consensus 177 ~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~--------------------~~~~~~~~l~~~d~vvFtS 236 (263)
.|+++.++.-..-...+.+.|+..|.+| .+|++..... ....+.+.+...|+|+..-
T Consensus 158 ~gktvGIiG~G~IG~~vA~~l~afG~~V---~~~dr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~ell~~aDiVvl~l 234 (347)
T PLN02928 158 FGKTVFILGYGAIGIELAKRLRPFGVKL---LATRRSWTSEPEDGLLIPNGDVDDLVDEKGGHEDIYEFAGEADIVVLCC 234 (347)
T ss_pred CCCEEEEECCCHHHHHHHHHHhhCCCEE---EEECCCCChhhhhhhccccccccccccccCcccCHHHHHhhCCEEEECC
Confidence 5788888887665667889999999866 4454431110 1112334446899999988
Q ss_pred HHHHH
Q 024727 237 PSAVR 241 (263)
Q Consensus 237 ~s~v~ 241 (263)
|.+-+
T Consensus 235 Plt~~ 239 (347)
T PLN02928 235 TLTKE 239 (347)
T ss_pred CCChH
Confidence 75543
No 154
>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=76.52 E-value=46 Score=28.19 Aligned_cols=137 Identities=19% Similarity=0.120 Sum_probs=73.5
Q ss_pred CCccEEEEeCH-HHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHH--hhhhcCCCCceeecCCC-CCHHHHHHHhccCCC
Q 024727 101 TIFDWIIITSP-EAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEE--VIQSSKCSLDVAFSPSK-ATGKILASELPKNGK 176 (263)
Q Consensus 101 ~~~d~IiFTS~-~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~--~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~ 176 (263)
.+.|.|+.... ..+......+.+. +++++..+... ..+.. . .....+.+.. .....+++.+.+..
T Consensus 65 ~~v~~iig~~~~~~~~~~~~~~~~~---~ip~i~~~~~~-~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~- 133 (298)
T cd06268 65 DGVDAVIGPLSSGVALAAAPVAEEA---GVPLISPGATS-PALTGKGN------PYVFRTAPSDAQQAAALADYLAEKG- 133 (298)
T ss_pred CCceEEEcCCcchhHHhhHHHHHhC---CCcEEccCCCC-cccccCCC------ceEEEcccCcHHHHHHHHHHHHHhc-
Confidence 36788876543 3344455555553 56676665432 22221 1 1111123322 34566666666543
Q ss_pred CCcEEEEEcCCCC-----chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCH-HHHHHHHHHhc
Q 024727 177 KKCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASP-SAVRSSWVNLI 248 (263)
Q Consensus 177 ~~~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~-s~v~~~~~~~~ 248 (263)
..+++.++.++.. .+.+.+.+++.|+++.....|.... .........+ ...|+|++.+. ..+. .+++.+
T Consensus 134 ~~~~i~~v~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~~--~~~~~~~~~l~~~~~~~vi~~~~~~~~~-~~~~~~ 210 (298)
T cd06268 134 KVKKVAIIYDDYAYGRGLAAAFREALKKLGGEVVAEETYPPGA--TDFSPLIAKLKAAGPDAVFLAGYGGDAA-LFLKQA 210 (298)
T ss_pred CCCEEEEEEcCCchhHHHHHHHHHHHHHcCCEEEEEeccCCCC--ccHHHHHHHHHhcCCCEEEEccccchHH-HHHHHH
Confidence 2478888876543 3566678888998876665555322 2222222223 36787777765 5556 666665
Q ss_pred ccc
Q 024727 249 SDT 251 (263)
Q Consensus 249 ~~~ 251 (263)
.+.
T Consensus 211 ~~~ 213 (298)
T cd06268 211 REA 213 (298)
T ss_pred HHc
Confidence 543
No 155
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=76.30 E-value=45 Score=27.97 Aligned_cols=90 Identities=20% Similarity=0.272 Sum_probs=56.0
Q ss_pred CCeEEEeCCCCC-----hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH-----HHHHHHHH
Q 024727 50 NPKVVVTRERGK-----NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP-----EAGSVFLE 119 (263)
Q Consensus 50 g~~ILitr~~~~-----~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~-----~aV~~~~~ 119 (263)
+.+|++...... ..-+...|+..|++|+++.. -.| .+++.+.+. ..++|.|.+++. ..+..+.+
T Consensus 82 ~~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG~--~~p---~~~l~~~~~-~~~~d~v~lS~~~~~~~~~~~~~i~ 155 (201)
T cd02070 82 KGKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLGR--DVP---PEEFVEAVK-EHKPDILGLSALMTTTMGGMKEVIE 155 (201)
T ss_pred CCeEEEEecCCccchHHHHHHHHHHHHCCCEEEECCC--CCC---HHHHHHHHH-HcCCCEEEEeccccccHHHHHHHHH
Confidence 457777765432 33467788999999987762 111 234444442 357888777652 34455566
Q ss_pred HHHHcCC-CCcEEEEeChhHHHHHHHh
Q 024727 120 AWKEAGT-PNVRIGVVGAGTASIFEEV 145 (263)
Q Consensus 120 ~l~~~~~-~~~~i~aVG~~Ta~~L~~~ 145 (263)
.+++.+. ++++|++-|+.....+.+.
T Consensus 156 ~lr~~~~~~~~~i~vGG~~~~~~~~~~ 182 (201)
T cd02070 156 ALKEAGLRDKVKVMVGGAPVNQEFADE 182 (201)
T ss_pred HHHHCCCCcCCeEEEECCcCCHHHHHH
Confidence 6666543 4789999997766556555
No 156
>PRK08339 short chain dehydrogenase; Provisional
Probab=76.20 E-value=24 Score=30.56 Aligned_cols=74 Identities=14% Similarity=0.115 Sum_probs=44.2
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE----EeCHHHHHHHHHHH
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII----ITSPEAGSVFLEAW 121 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~Ii----FTS~~aV~~~~~~l 121 (263)
.+.|+++|||....+ ...+++.|.+.|++|...- +.. ...+++...+......+..+ +++..+++.+++.+
T Consensus 5 ~l~~k~~lItGas~gIG~aia~~l~~~G~~V~~~~--r~~--~~~~~~~~~~~~~~~~~~~~~~~Dv~~~~~i~~~~~~~ 80 (263)
T PRK08339 5 DLSGKLAFTTASSKGIGFGVARVLARAGADVILLS--RNE--ENLKKAREKIKSESNVDVSYIVADLTKREDLERTVKEL 80 (263)
T ss_pred CCCCCEEEEeCCCCcHHHHHHHHHHHCCCEEEEEe--CCH--HHHHHHHHHHHhhcCCceEEEEecCCCHHHHHHHHHHH
Confidence 367999999987654 5679999999999876431 110 11122222232211222222 48888999888877
Q ss_pred HHc
Q 024727 122 KEA 124 (263)
Q Consensus 122 ~~~ 124 (263)
.+.
T Consensus 81 ~~~ 83 (263)
T PRK08339 81 KNI 83 (263)
T ss_pred Hhh
Confidence 543
No 157
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=75.94 E-value=18 Score=27.18 Aligned_cols=89 Identities=21% Similarity=0.082 Sum_probs=55.1
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeC--HHHHHHHHHHHHHc--CCCCcEEEEeCh
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITS--PEAGSVFLEAWKEA--GTPNVRIGVVGA 136 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS--~~aV~~~~~~l~~~--~~~~~~i~aVG~ 136 (263)
+-..++..|++.|+++..+.... +.+++.+.+.+ .++|.|.|++ ........+..+.. ..++.++++-|+
T Consensus 16 Gl~~la~~l~~~G~~v~~~d~~~-----~~~~l~~~~~~-~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv~GG~ 89 (121)
T PF02310_consen 16 GLLYLAAYLRKAGHEVDILDANV-----PPEELVEALRA-ERPDVVGISVSMTPNLPEAKRLARAIKERNPNIPIVVGGP 89 (121)
T ss_dssp HHHHHHHHHHHTTBEEEEEESSB------HHHHHHHHHH-TTCSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEEEEES
T ss_pred HHHHHHHHHHHCCCeEEEECCCC-----CHHHHHHHHhc-CCCcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEEEECC
Confidence 45678899999999888663321 12455555544 4899999976 33444444444332 235789999897
Q ss_pred h-HH---HHHHH-hhhhcCCCCceeecCCC
Q 024727 137 G-TA---SIFEE-VIQSSKCSLDVAFSPSK 161 (263)
Q Consensus 137 ~-Ta---~~L~~-~~~~~~~G~~~~~~p~~ 161 (263)
. |. ..|++ . |+...+..+.
T Consensus 90 ~~t~~~~~~l~~~~------~~D~vv~Geg 113 (121)
T PF02310_consen 90 HATADPEEILREYP------GIDYVVRGEG 113 (121)
T ss_dssp SSGHHHHHHHHHHH------TSEEEEEETT
T ss_pred chhcChHHHhccCc------CcceecCCCh
Confidence 6 32 34445 5 8776555544
No 158
>cd00401 AdoHcyase S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and Hyc is sufficiently fast, so that the net reaction is in the direction of hydrolysis. Since AdoHyc is a potent inhibitor of S-adenosyl-L-methionine dependent methyltransferases, AdoHycase plays a critical role in the modulation of the activity of various methyltransferases. The enzyme forms homooligomers of 45-50kDa subunits, each binding one molecule of NAD+.
Probab=75.66 E-value=74 Score=30.16 Aligned_cols=35 Identities=11% Similarity=0.024 Sum_probs=29.2
Q ss_pred CCCCCCCeEEEeCCCC-ChHHHHHHHHhCCCcEEEe
Q 024727 45 SASNSNPKVVVTRERG-KNGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 45 ~~~l~g~~ILitr~~~-~~~~l~~~L~~~G~~v~~~ 79 (263)
.+|+.|.+|...-.-. +...+.+.|.+.|++|...
T Consensus 31 ~~p~~g~~i~~~~hl~~~ta~l~~~L~~~GA~v~~~ 66 (413)
T cd00401 31 SKPLKGARIAGCLHMTVQTAVLIETLVALGAEVRWS 66 (413)
T ss_pred cCCCCCCEEEEEEcchHHHHHHHHHHHHcCCEEEEE
Confidence 3999999999987754 5678999999999998754
No 159
>PRK12480 D-lactate dehydrogenase; Provisional
Probab=75.19 E-value=66 Score=29.36 Aligned_cols=171 Identities=9% Similarity=0.071 Sum_probs=90.1
Q ss_pred CeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH-HHHHHHHHHHHHcCCCC
Q 024727 51 PKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP-EAGSVFLEAWKEAGTPN 128 (263)
Q Consensus 51 ~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~-~aV~~~~~~l~~~~~~~ 128 (263)
++|++...++. .+...+.++++|.++...+. +++ ++. +..+.++|.+++... .--+.++..+.+. +
T Consensus 2 ~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~~~----~~~--~~~---~~~~~~~d~ii~~~~~~~~~~~l~~~~~~---~ 69 (330)
T PRK12480 2 TKIMFFGTRDYEKEMALNWGKKNNVEVTTSKE----LLS--SAT---VDQLKDYDGVTTMQFGKLENDVYPKLESY---G 69 (330)
T ss_pred cEEEEEeCcHHHHHHHHHHHHhcCeEEEEcCC----CCC--HHH---HHHhCCCCEEEEecCCCCCHHHHHhhhhc---C
Confidence 67777766543 34455666777766665432 221 222 334678998876432 2222233433321 3
Q ss_pred cEEEE---eChhH--HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHh------------------cc----C-------
Q 024727 129 VRIGV---VGAGT--ASIFEEVIQSSKCSLDVAFSPSKATGKILASEL------------------PK----N------- 174 (263)
Q Consensus 129 ~~i~a---VG~~T--a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l------------------~~----~------- 174 (263)
+|+++ +|--. .+++++. |+.+...|. ++++.+++.. .+ +
T Consensus 70 Lk~I~~~~~G~d~id~~~~~~~------gI~v~n~~~-~~~~~vAE~~~~l~L~~~R~~~~~~~~~~~~~~~w~~~~~~~ 142 (330)
T PRK12480 70 IKQIAQRTAGFDMYDLDLAKKH------NIVISNVPS-YSPETIAEYSVSIALQLVRRFPDIERRVQAHDFTWQAEIMSK 142 (330)
T ss_pred ceEEEecccccchhhHHHHHHC------CCEEEeCCC-CChHHHHHHHHHHHHHHHHhHHHHHHHHHhCCcccccccCcc
Confidence 44443 23222 3455677 888766553 3433333211 00 0
Q ss_pred CCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCC--ChHHHHHHhCCCCEEEEeCHHHH
Q 024727 175 GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH--VDQTVLKQALSIPVVAVASPSAV 240 (263)
Q Consensus 175 ~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~--~~~~~~~~l~~~d~vvFtS~s~v 240 (263)
...|+++.++....-...+...|...|.+|..+..+....... ....+.+.+...|+|++.-|.+-
T Consensus 143 ~l~g~~VgIIG~G~IG~~vA~~L~~~G~~V~~~d~~~~~~~~~~~~~~~l~ell~~aDiVil~lP~t~ 210 (330)
T PRK12480 143 PVKNMTVAIIGTGRIGAATAKIYAGFGATITAYDAYPNKDLDFLTYKDSVKEAIKDADIISLHVPANK 210 (330)
T ss_pred ccCCCEEEEECCCHHHHHHHHHHHhCCCEEEEEeCChhHhhhhhhccCCHHHHHhcCCEEEEeCCCcH
Confidence 1245678887766656678899999998765444332111110 00123333468999999988765
No 160
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=75.07 E-value=9.8 Score=29.94 Aligned_cols=83 Identities=19% Similarity=0.258 Sum_probs=49.2
Q ss_pred ChHHHHHHHHhCCCcEEEeceEE--ee-eCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeC
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQ--HA-QGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVG 135 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~--~~-~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG 135 (263)
....+.+.|++.|+++...|... .. ...|..-....+.. ...+|.+|+.|.-+ -|...++...-.++++.++|
T Consensus 53 ~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~--Df~~~i~~lr~~G~~V~v~~ 130 (149)
T cd06167 53 RQRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLVSGDS--DFVPLVERLRELGKRVIVVG 130 (149)
T ss_pred hHHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEEECCc--cHHHHHHHHHHcCCEEEEEc
Confidence 56789999999999999998874 22 12232211112211 13688888777765 33333333222356777666
Q ss_pred h--hHHHHHHHh
Q 024727 136 A--GTASIFEEV 145 (263)
Q Consensus 136 ~--~Ta~~L~~~ 145 (263)
. .+...|++.
T Consensus 131 ~~~~~s~~L~~~ 142 (149)
T cd06167 131 FEAKTSRELRKA 142 (149)
T ss_pred cCccChHHHHHh
Confidence 6 577777765
No 161
>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]. Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.
Probab=74.67 E-value=13 Score=33.02 Aligned_cols=141 Identities=22% Similarity=0.299 Sum_probs=77.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc-CCCccEEEEe-----------CHHHHHHHHHHHHHcCC---C
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA-DTIFDWIIIT-----------SPEAGSVFLEAWKEAGT---P 127 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~-l~~~d~IiFT-----------S~~aV~~~~~~l~~~~~---~ 127 (263)
.+.-+.|.+.|++=+.+..+.+.|....+.+.+.++. ...++-|.+. +..-++.+.+.+.+.-. .
T Consensus 61 ~eaL~~L~~~G~~~V~VQplhiipG~Ey~~l~~~v~~~~~~F~~i~~g~PLL~~~g~~~~~~D~~~va~aL~~~~~~~~~ 140 (262)
T PF06180_consen 61 EEALAKLADEGYTEVVVQPLHIIPGEEYEKLRATVEAYKHDFKKIVLGRPLLYTMGQENSPEDYEAVAEALAEEFPKKRK 140 (262)
T ss_dssp HHHHHHHHHCT--EEEEEE--SCSSHHHHHHHHHHHHHCCCSSEEEEE--SCSS-----SHHHHHHHHHHHHCCS-TT-T
T ss_pred HHHHHHHHHCCCCEEEEeecceeCcHhHHHHHHHHHHhhccCCeEEecccccccccccCChHHHHHHHHHHHHhccccCC
Confidence 4455667788998888888888776555666555543 2346666554 56677778887765432 4
Q ss_pred CcEEEEeChhHH-------HHHHHhhhhcCCCCceeecC---CCCCHHHHHHHhccCCCCC---cEEEEEcCCCCc----
Q 024727 128 NVRIGVVGAGTA-------SIFEEVIQSSKCSLDVAFSP---SKATGKILASELPKNGKKK---CTVLYPASAKAS---- 190 (263)
Q Consensus 128 ~~~i~aVG~~Ta-------~~L~~~~~~~~~G~~~~~~p---~~~t~e~L~~~l~~~~~~~---~~vL~~~g~~~~---- 190 (263)
+-.++-+|..|. ..|+..++ ..|..-.++. ..++.+++++.|.+...+. .+++++.|++..
T Consensus 141 ~~a~vlmGHGt~h~an~~Y~~l~~~l~--~~~~~~v~vgtvEG~P~~~~vi~~L~~~g~k~V~L~PlMlVAGdHa~nDma 218 (262)
T PF06180_consen 141 DEAVVLMGHGTPHPANAAYSALQAMLK--KHGYPNVFVGTVEGYPSLEDVIARLKKKGIKKVHLIPLMLVAGDHAKNDMA 218 (262)
T ss_dssp TEEEEEEE---SCHHHHHHHHHHHHHH--CCT-TTEEEEETTSSSBHHHHHHHHHHHT-SEEEEEEESSS--HHHHCCCC
T ss_pred CCEEEEEeCCCCCCccHHHHHHHHHHH--hCCCCeEEEEEeCCCCCHHHHHHHHHhcCCCeEEEEecccccchhhhhhhc
Confidence 667778887764 23333321 1253322332 2367899998888754221 234445665544
Q ss_pred ----hhHHHHHHhCCCeee
Q 024727 191 ----NEIEEGLSNRGFEVV 205 (263)
Q Consensus 191 ----~~L~~~L~~~G~~v~ 205 (263)
+.....|++.|++|+
T Consensus 219 Gde~dSWks~L~~~G~~v~ 237 (262)
T PF06180_consen 219 GDEEDSWKSRLEAAGFEVT 237 (262)
T ss_dssp SSSTTSHHHHHHHTT-EEE
T ss_pred CCCcchHHHHHHHCCCEEE
Confidence 345889999999773
No 162
>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=74.64 E-value=61 Score=28.65 Aligned_cols=136 Identities=18% Similarity=0.138 Sum_probs=75.8
Q ss_pred CCccEEEEe-CHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCC
Q 024727 101 TIFDWIIIT-SPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKK 178 (263)
Q Consensus 101 ~~~d~IiFT-S~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~ 178 (263)
.+.+.|+-. +..........+.+. +++++.....+.. ... ...-.+.|.. .....+++.+.+.. ..
T Consensus 68 ~~v~~vvg~~~s~~~~~~~~~~~~~---~ip~i~~~~~~~~--~~~------~~~f~~~~~~~~~~~~~~~~~~~~~-g~ 135 (343)
T PF13458_consen 68 DGVDAVVGPLSSAQAEAVAPIAEEA---GIPYISPSASSPS--PDS------PNVFRLSPSDSQQAAALAEYLAKKL-GA 135 (343)
T ss_dssp STESEEEESSSHHHHHHHHHHHHHH---T-EEEESSGGGGT--TTH------TTEEESS--HHHHHHHHHHHHHHTT-TT
T ss_pred cCcEEEEecCCcHHHHHHHHHHHhc---CcEEEEeeccCCC--CCC------CcEEEEeccccHHHHHHHHHHHHHc-CC
Confidence 678888875 666677777777775 4566664433322 122 2221222322 34566666665432 35
Q ss_pred cEEEEEcCCCC-----chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEe-CHHHHHHHHHHhccc
Q 024727 179 CTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVA-SPSAVRSSWVNLISD 250 (263)
Q Consensus 179 ~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFt-S~s~v~~~~~~~~~~ 250 (263)
+++.++..+.. .+.+.+.+++.|.++....-|.... .+...+...+ .++|+|++. .+...- .|++.+.+
T Consensus 136 ~~v~iv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~--~d~~~~~~~l~~~~~d~v~~~~~~~~~~-~~~~~~~~ 212 (343)
T PF13458_consen 136 KKVAIVYPDDPYGRSLAEAFRKALEAAGGKVVGEIRYPPGD--TDFSALVQQLKSAGPDVVVLAGDPADAA-AFLRQLRQ 212 (343)
T ss_dssp SEEEEEEESSHHHHHHHHHHHHHHHHTTCEEEEEEEE-TTS--SHHHHHHHHHHHTTTSEEEEESTHHHHH-HHHHHHHH
T ss_pred cEEEEEecCchhhhHHHHHHHHHHhhcCceeccceeccccc--ccchHHHHHHhhcCCCEEEEeccchhHH-HHHHHHHh
Confidence 78888876642 3567888999999865444444222 2222233333 588987665 444455 77776654
Q ss_pred c
Q 024727 251 T 251 (263)
Q Consensus 251 ~ 251 (263)
.
T Consensus 213 ~ 213 (343)
T PF13458_consen 213 L 213 (343)
T ss_dssp T
T ss_pred h
Confidence 3
No 163
>PRK04017 hypothetical protein; Provisional
Probab=74.21 E-value=24 Score=27.96 Aligned_cols=82 Identities=15% Similarity=0.168 Sum_probs=50.0
Q ss_pred HHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcC-CCC---
Q 024727 115 SVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPAS-AKA--- 189 (263)
Q Consensus 115 ~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g-~~~--- 189 (263)
..++..+.+..-.+..|++=|..-.++|++. |+.+++.... .....+.+.+.. .++.|+++.- +..
T Consensus 10 ~e~i~~L~e~s~~g~vIVVEGk~D~~~L~~l------Gv~~~iI~t~g~~~~~~~e~ia~---~~r~VIILTD~D~~Gek 80 (132)
T PRK04017 10 EEIIEELKEFSEAGAPIIVEGKRDVESLRKL------GVEGEIIKVSRTPLAEIAELIAS---RGKEVIILTDFDRKGEE 80 (132)
T ss_pred HHHHHHHHHhcCCCCEEEEeCccHHHHHHHc------CCCccEEEECCeecchHHHHHHh---cCCeEEEEECCCcchHH
Confidence 3455555555545678888899999999999 9976554322 222333344422 3455655543 322
Q ss_pred -chhHHHHHHhCCCeee
Q 024727 190 -SNEIEEGLSNRGFEVV 205 (263)
Q Consensus 190 -~~~L~~~L~~~G~~v~ 205 (263)
+..+.+.|+..|+.|+
T Consensus 81 Ir~~l~~~l~~~G~~vd 97 (132)
T PRK04017 81 LAKKLSEYLQGYGIKVD 97 (132)
T ss_pred HHHHHHHHHHhCCCCcc
Confidence 4556777888887663
No 164
>PRK05872 short chain dehydrogenase; Provisional
Probab=73.72 E-value=63 Score=28.45 Aligned_cols=83 Identities=18% Similarity=0.078 Sum_probs=49.0
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEE----EEeCHHHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWI----IITSPEAGSVFLE 119 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~-~~d~I----iFTS~~aV~~~~~ 119 (263)
.++.|++||||....+ ...+++.|.+.|+++...- + +.+.+++....++ ..++. =+|+..+++.+++
T Consensus 5 ~~l~gk~vlItGas~gIG~~ia~~l~~~G~~V~~~~--r-----~~~~l~~~~~~l~~~~~~~~~~~Dv~d~~~v~~~~~ 77 (296)
T PRK05872 5 TSLAGKVVVVTGAARGIGAELARRLHARGAKLALVD--L-----EEAELAALAAELGGDDRVLTVVADVTDLAAMQAAAE 77 (296)
T ss_pred CCCCCCEEEEECCCchHHHHHHHHHHHCCCEEEEEe--C-----CHHHHHHHHHHhcCCCcEEEEEecCCCHHHHHHHHH
Confidence 5678999999987654 5678999999998765431 1 1223333322232 22222 2478888888877
Q ss_pred HHHHc-CCCCcEEEEeC
Q 024727 120 AWKEA-GTPNVRIGVVG 135 (263)
Q Consensus 120 ~l~~~-~~~~~~i~aVG 135 (263)
.+.+. +.-+.-|.+.|
T Consensus 78 ~~~~~~g~id~vI~nAG 94 (296)
T PRK05872 78 EAVERFGGIDVVVANAG 94 (296)
T ss_pred HHHHHcCCCCEEEECCC
Confidence 66543 22244444445
No 165
>PRK14192 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=73.67 E-value=18 Score=32.36 Aligned_cols=147 Identities=16% Similarity=0.097 Sum_probs=83.3
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHH---hcCCCccEEEEeCHHH--HHH--HHHHHHHc-CCCCcEEEEeCh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVL---NADTIFDWIIITSPEA--GSV--FLEAWKEA-GTPNVRIGVVGA 136 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l---~~l~~~d~IiFTS~~a--V~~--~~~~l~~~-~~~~~~i~aVG~ 136 (263)
-.+.+++.|++..+.++-+... .+++...+ ++.++++.++.|-|.- +.. +++.+... ..++..-+-.|.
T Consensus 54 ~~~~~~~~Gi~~~~~~l~~~~~---~~~l~~~i~~Ln~d~~v~Gi~VqlPlp~~i~~~~~ld~I~~aKDVdg~n~~n~G~ 130 (283)
T PRK14192 54 KGNACRRVGMDSLKVELPQETT---TEQLLAKIEELNANPDVHGILLQHPVPAQIDERACFDAISLAKDVDGVTCLGFGR 130 (283)
T ss_pred HHHHHHHcCCeEEEEECCCCCC---HHHHHHHHHHHhCCCCCCEEEEeCCCccccCHHHHHhccCHHHhcCCCCccccCc
Confidence 3456678899999887733221 23344444 3445789999999943 322 33333111 112222222332
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCCC-CchhHHHHHHhCCCeeeEEeeeccc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASAK-ASNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~~-~~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
-. . |-. .+.| .|..++++.|.... ..|++++++...+ ...-+...|.+.|++| .++.+.
T Consensus 131 l~------~------~~~-~~~p--~T~~gii~~L~~~~i~l~Gk~vvViG~gg~vGkpia~~L~~~gatV---tv~~~~ 192 (283)
T PRK14192 131 MA------M------GEA-AYGS--ATPAGIMRLLKAYNIELAGKHAVVVGRSAILGKPMAMMLLNANATV---TICHSR 192 (283)
T ss_pred cc------c------CCC-cccC--CcHHHHHHHHHHcCCCCCCCEEEEECCcHHHHHHHHHHHHhCCCEE---EEEeCC
Confidence 10 1 211 1223 35588888777643 4688988888776 5566778888898854 333331
Q ss_pred cCCCChHHHHHHhCCCCEEEEeCH
Q 024727 214 PVHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
...+.+.+.+.|+|+-+.+
T Consensus 193 -----t~~L~~~~~~aDIvI~AtG 211 (283)
T PRK14192 193 -----TQNLPELVKQADIIVGAVG 211 (283)
T ss_pred -----chhHHHHhccCCEEEEccC
Confidence 1234444578999998884
No 166
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=73.67 E-value=25 Score=35.76 Aligned_cols=99 Identities=17% Similarity=0.151 Sum_probs=63.3
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-----HHHHHHHHHHHcCCCCcEEEEeC-
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-----AGSVFLEAWKEAGTPNVRIGVVG- 135 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-----aV~~~~~~l~~~~~~~~~i~aVG- 135 (263)
..-....|+..|++|+.-..+.. . .+-++.++ ..+.|.|+++|.. .+..+.+.+++.+.+++++++=|
T Consensus 599 a~fv~~~l~~~GfeV~~~~~~~s--~--e~~v~aa~--~~~a~ivvlcs~d~~~~e~~~~l~~~Lk~~G~~~v~vl~GG~ 672 (714)
T PRK09426 599 AKVIATAFADLGFDVDIGPLFQT--P--EEAARQAV--ENDVHVVGVSSLAAGHKTLVPALIEALKKLGREDIMVVVGGV 672 (714)
T ss_pred HHHHHHHHHhCCeeEecCCCCCC--H--HHHHHHHH--HcCCCEEEEeccchhhHHHHHHHHHHHHhcCCCCcEEEEeCC
Confidence 44577788999999954333311 1 12233343 3678999998866 45566777777775567777554
Q ss_pred --hhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhcc
Q 024727 136 --AGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (263)
Q Consensus 136 --~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (263)
+...+.+++. |+...+ ....+..++++.+.+
T Consensus 673 ~~~~~~~~l~~a------GvD~~i-~~g~d~~~~L~~l~~ 705 (714)
T PRK09426 673 IPPQDYDFLYEA------GVAAIF-GPGTVIADAAIDLLE 705 (714)
T ss_pred CChhhHHHHHhC------CCCEEE-CCCCCHHHHHHHHHH
Confidence 4445688888 998644 445677777666654
No 167
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=73.40 E-value=12 Score=36.03 Aligned_cols=65 Identities=11% Similarity=0.087 Sum_probs=41.1
Q ss_pred CCCCCCeEEEeCCC-----------------CChHHHHHHHHhCCCcEEEec-------e--EEeeeCCCchHHHHHHhc
Q 024727 46 ASNSNPKVVVTRER-----------------GKNGKLIKALAKHRIDCLELP-------L--IQHAQGPDTDRLSSVLNA 99 (263)
Q Consensus 46 ~~l~g~~ILitr~~-----------------~~~~~l~~~L~~~G~~v~~~p-------~--~~~~~~~~~~~l~~~l~~ 99 (263)
++|.|++||||.+. ...-.+++.+..+|++|..+. . +++.+.+..+++.+.+.+
T Consensus 252 ~~l~gkkvLITaGpT~E~IDpVR~ItN~SSGkmG~alA~aa~~~GA~VtlI~Gp~~~~~p~~v~~i~V~ta~eM~~av~~ 331 (475)
T PRK13982 252 KPLAGRRVLITAGPTHEPIDPVRYIANRSSGKQGFAIAAAAAAAGAEVTLISGPVDLADPQGVKVIHVESARQMLAAVEA 331 (475)
T ss_pred cccCCCEEEEecCCccccCCcceeeCCCCchHHHHHHHHHHHHCCCcEEEEeCCcCCCCCCCceEEEecCHHHHHHHHHh
Confidence 57999999999753 123468888889999998763 1 122333344445455544
Q ss_pred CCCccEEEEeC
Q 024727 100 DTIFDWIIITS 110 (263)
Q Consensus 100 l~~~d~IiFTS 110 (263)
.-.+|++|++-
T Consensus 332 ~~~~Di~I~aA 342 (475)
T PRK13982 332 ALPADIAIFAA 342 (475)
T ss_pred hCCCCEEEEec
Confidence 33478777654
No 168
>TIGR01285 nifN nitrogenase molybdenum-iron cofactor biosynthesis protein NifN. This protein forms a complex with NifE, and appears as a NifEN in some species. NifEN is a required for producing the molybdenum-iron cofactor of molybdenum-requiring nitrogenases. NifN is closely related to the nitrogenase molybdenum-iron protein beta chain NifK. This model describes most examples of NifN but excludes some cases, such as the putative NifN of Chlorobium tepidum, for which a separate model may be created.
Probab=72.57 E-value=51 Score=31.31 Aligned_cols=144 Identities=12% Similarity=0.108 Sum_probs=82.1
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEe-------------eeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-C
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQH-------------AQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-G 125 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~-------------~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-~ 125 (263)
....++.+.|++.|+++..+|-+.. .+..+ ..+++ ++...+...-+..++.+ ....+.+++. +
T Consensus 181 ~d~~elk~lL~~~Gl~~~~l~d~s~~ld~~~~~~~~~~~~~gg-~t~ee-i~~~~~A~lniv~~~~~-~~~a~~Lee~~g 257 (432)
T TIGR01285 181 GDIEELRRMVEAFGLKPIILPDLSRSLDGHLADDDFSPITQGG-TTLEQ-IRQIGQSCCTLAIGESM-RRAASLLADRCG 257 (432)
T ss_pred cCHHHHHHHHHHcCCceEEecccccccCCCCCCCccceeCCCC-CcHHH-HHhhccCcEEEEEChhH-HHHHHHHHHHHC
Confidence 4578999999999999987763321 11111 11222 23455556655567765 5667777653 3
Q ss_pred CCCcEE-EEeCh-hHHHHHHHhhhhcCCCCceeecCCCC--CHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHh
Q 024727 126 TPNVRI-GVVGA-GTASIFEEVIQSSKCSLDVAFSPSKA--TGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSN 199 (263)
Q Consensus 126 ~~~~~i-~aVG~-~Ta~~L~~~~~~~~~G~~~~~~p~~~--t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~ 199 (263)
.+-... .-+|- .|.+.|++.. .+.|..+ |+.. .-+-+.+.|.+. ...|+|+.+..+....-.+...|.+
T Consensus 258 iP~~~~~~p~G~~~t~~~l~~l~--~~~g~~~---~~~~~~~r~~~~~~l~~~~~~l~Gkrvai~~~~~~~~~l~~~l~e 332 (432)
T TIGR01285 258 VPYIVFPSLMGLEAVDAFLHVLM--KISGRAV---PERFERQRRQLQDAMLDTHFFLGGKKVAIAAEPDLLAAWATFFTS 332 (432)
T ss_pred CCeEecCCCcChHHHHHHHHHHH--HHHCCCc---cHHHHHHHHHHHHHHHHHHHhhCCCEEEEEcCHHHHHHHHHHHHH
Confidence 332221 12565 5666666651 2225432 2111 111233444432 2357898877766555778899999
Q ss_pred CCCeeeEEeeec
Q 024727 200 RGFEVVRLNTYT 211 (263)
Q Consensus 200 ~G~~v~~~~vY~ 211 (263)
.|+++..+.++.
T Consensus 333 lGm~v~~~~~~~ 344 (432)
T TIGR01285 333 MGAQIVAAVTTT 344 (432)
T ss_pred CCCEEEEEEeCC
Confidence 999998887764
No 169
>PRK09496 trkA potassium transporter peripheral membrane component; Reviewed
Probab=72.26 E-value=87 Score=29.38 Aligned_cols=150 Identities=10% Similarity=0.040 Sum_probs=73.4
Q ss_pred CCCccEEEEeCHHHHHHH-HH-HHHHcCCCCcEEEEe--ChhH--HHHH---HHhhhhcCCCCceeecCCCCCHHHHHHH
Q 024727 100 DTIFDWIIITSPEAGSVF-LE-AWKEAGTPNVRIGVV--GAGT--ASIF---EEVIQSSKCSLDVAFSPSKATGKILASE 170 (263)
Q Consensus 100 l~~~d~IiFTS~~aV~~~-~~-~l~~~~~~~~~i~aV--G~~T--a~~L---~~~~~~~~~G~~~~~~p~~~t~e~L~~~ 170 (263)
+.++|.++.++++-.... .. .++.. .+..++++. .+.. ...+ ++. |....+.|....+..++..
T Consensus 63 ~~~a~~vi~~~~~~~~n~~~~~~~r~~-~~~~~ii~~~~~~~~~~~~~l~~~~~~------G~~~vi~p~~~~a~~l~~~ 135 (453)
T PRK09496 63 AEDADLLIAVTDSDETNMVACQIAKSL-FGAPTTIARVRNPEYAEYDKLFSKEAL------GIDLLISPELLVAREIARL 135 (453)
T ss_pred CCcCCEEEEecCChHHHHHHHHHHHHh-cCCCeEEEEECCccccchhhhhhhhcC------CccEEECHHHHHHHHHHHH
Confidence 568999999876643333 22 22222 134455543 2322 2333 566 9887677776677777765
Q ss_pred hccCCC------CCc--EEE--EEcCC--CCchhHHHHH---HhCCCeeeEEeeeccccC-CCChHHHHHHhCCCC-EEE
Q 024727 171 LPKNGK------KKC--TVL--YPASA--KASNEIEEGL---SNRGFEVVRLNTYTTEPV-HHVDQTVLKQALSIP-VVA 233 (263)
Q Consensus 171 l~~~~~------~~~--~vL--~~~g~--~~~~~L~~~L---~~~G~~v~~~~vY~~~~~-~~~~~~~~~~l~~~d-~vv 233 (263)
+..-.. .+. .+. .+..+ -....+.+.- ...|+.+ +.+++.... ....+. .+..-| .++
T Consensus 136 l~~~~~~~~~~~~~~~~~i~e~~V~~~s~~~g~~l~~l~~~~~~~~~~v--i~i~r~~~~~~p~~~~---~l~~gD~l~v 210 (453)
T PRK09496 136 IEYPGALDVEEFADGRVQLVEVKVYEGSPLVGKPLSDLREHFPDIDVRV--VAIFRGGRLIIPRGDT---VIEAGDEVYF 210 (453)
T ss_pred hcCCCceEeeeecCCeEEEEEEEeCCCCccCCcCHHHhhhhcCCCceEE--EEEEECCEEEcCCCCc---EecCCCEEEE
Confidence 543210 111 111 11111 0012232221 2355555 444442211 011111 133445 556
Q ss_pred EeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 234 VASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 234 FtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
...+..++ .+.+.++.......+++.+|
T Consensus 211 ~g~~~~l~-~~~~~~~~~~~~~~~iiIiG 238 (453)
T PRK09496 211 IGAREHIR-AVMSEFGRLEKPVKRVMIVG 238 (453)
T ss_pred EeCHHHHH-HHHHHhCccCCCCCEEEEEC
Confidence 67788888 88888775444467788777
No 170
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=70.87 E-value=31 Score=25.27 Aligned_cols=55 Identities=15% Similarity=0.158 Sum_probs=33.5
Q ss_pred eEEEeCC-CCChHHHHHHHHhCCCcEEEeceEEeeeCCC-chHHHHHHhcCCCccEEEEeCH
Q 024727 52 KVVVTRE-RGKNGKLIKALAKHRIDCLELPLIQHAQGPD-TDRLSSVLNADTIFDWIIITSP 111 (263)
Q Consensus 52 ~ILitr~-~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~-~~~l~~~l~~l~~~d~IiFTS~ 111 (263)
+||+.-. ......+.+.++++|++.... -+-..... ...++. .+...|.||+...
T Consensus 1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~h--g~~~~~~~~~~~l~~---~i~~aD~VIv~t~ 57 (97)
T PF10087_consen 1 SVLIVGGREDRERRYKRILEKYGGKLIHH--GRDGGDEKKASRLPS---KIKKADLVIVFTD 57 (97)
T ss_pred CEEEEcCCcccHHHHHHHHHHcCCEEEEE--ecCCCCccchhHHHH---hcCCCCEEEEEeC
Confidence 3677766 345678999999999999988 11111111 112333 3577898876543
No 171
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=70.69 E-value=48 Score=29.81 Aligned_cols=147 Identities=14% Similarity=0.116 Sum_probs=82.7
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HHH--HHHHHHHH-cCCCCcEEEEeCh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AGS--VFLEAWKE-AGTPNVRIGVVGA 136 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV~--~~~~~l~~-~~~~~~~i~aVG~ 136 (263)
-.+..++.|+++..+-+-+.. ..+++.+.++ +..+.|.|+.--|- .++ .+++.+.. ...|+..-.-.|
T Consensus 53 k~k~~~~~Gi~~~~~~l~~~~---~~~~l~~~I~~lN~d~~V~GIlvq~Plp~~i~~~~i~~~I~p~KDVDGl~~~n~g- 128 (285)
T PRK14189 53 KVKACEDNGFHSLKDRYPADL---SEAELLARIDELNRDPKIHGILVQLPLPKHIDSHKVIEAIAPEKDVDGFHVANAG- 128 (285)
T ss_pred HHHHHHHcCCEEEEEECCCCC---CHHHHHHHHHHHcCCCCCCeEEEeCCCCCCCCHHHHHhhcCcccCcccCChhhhh-
Confidence 345567789888766553221 2344444444 44678899888773 222 12222211 112344333333
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCCCC-chhHHHHHHhCCCeeeEEeeeccc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASAKA-SNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~~~-~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
.|- . |-. .+.| -|+.+.++.|..+. ..|++++++....- ..-|...|.++|++|.-+.-.
T Consensus 129 ----~l~-~------~~~-~~~P--cTp~aii~lL~~~~i~l~Gk~vvViGrs~iVGkPla~lL~~~~atVt~~hs~--- 191 (285)
T PRK14189 129 ----ALM-T------GQP-LFRP--CTPYGVMKMLESIGIPLRGAHAVVIGRSNIVGKPMAMLLLQAGATVTICHSK--- 191 (285)
T ss_pred ----Hhh-C------CCC-CCcC--CCHHHHHHHHHHcCCCCCCCEEEEECCCCccHHHHHHHHHHCCCEEEEecCC---
Confidence 221 1 322 2444 47888888777653 46788777765544 566888999999988654211
Q ss_pred cCCCChHHHHHHhCCCCEEEEeCH
Q 024727 214 PVHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
+. ++.+.++..|+|+-..+
T Consensus 192 --t~---~l~~~~~~ADIVV~avG 210 (285)
T PRK14189 192 --TR---DLAAHTRQADIVVAAVG 210 (285)
T ss_pred --CC---CHHHHhhhCCEEEEcCC
Confidence 11 23333468899888877
No 172
>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=70.51 E-value=13 Score=30.30 Aligned_cols=70 Identities=10% Similarity=0.111 Sum_probs=41.1
Q ss_pred HHHHHHhCCCcEEEeceEEeee--C----CCchHHHHHHhcCCCccEEEEeCH-------HHHHHHHHHHHHcCCCCcEE
Q 024727 65 LIKALAKHRIDCLELPLIQHAQ--G----PDTDRLSSVLNADTIFDWIIITSP-------EAGSVFLEAWKEAGTPNVRI 131 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~--~----~~~~~l~~~l~~l~~~d~IiFTS~-------~aV~~~~~~l~~~~~~~~~i 131 (263)
+.+.+++.|.++..+.+.+... . ...+.++...+.+...|.|||.|| ...+.|+..+....+.++++
T Consensus 22 ~~~~l~~~~~~~~~idl~~l~~~~~~~~~~~~~~~~~l~~~i~~AD~iI~~sP~Y~~sip~~LK~~iD~~~~~~l~~K~v 101 (171)
T TIGR03567 22 VREALQEQGVEVDHLSVRDLPAEDLLFARFDSPAIKAATAQVAQADGVVVATPVYKASYSGVLKALLDLLPQRALRGKVV 101 (171)
T ss_pred HHHHHHHCCCeEEEEEecCCChHHhhhcCCCCHHHHHHHHHHHHCCEEEEECCcccCCCCHHHHHHHHhCChhhhCCCEE
Confidence 4555566788777666554211 0 012345566666788999999998 45566666553323345555
Q ss_pred EEe
Q 024727 132 GVV 134 (263)
Q Consensus 132 ~aV 134 (263)
+.+
T Consensus 102 ~~~ 104 (171)
T TIGR03567 102 LPI 104 (171)
T ss_pred EEE
Confidence 433
No 173
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=70.36 E-value=14 Score=28.49 Aligned_cols=61 Identities=10% Similarity=0.171 Sum_probs=35.3
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH---------HHHHHHHHHHHcCCCCcEEEEe
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE---------AGSVFLEAWKEAGTPNVRIGVV 134 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~---------aV~~~~~~l~~~~~~~~~i~aV 134 (263)
.+.+.+.+.|+++..+++-+.. . .++..+|.|||-||. .+..|++.+....+.+.+++++
T Consensus 18 ~i~~~~~~~g~~v~~~~~~~~~----~-------~~l~~~d~iilgspty~~g~~p~~~~~~f~~~l~~~~~~gk~~~vf 86 (140)
T TIGR01753 18 IIAEGLKEAGAEVDLLEVADAD----A-------EDLLSYDAVLLGCSTWGDEDLEQDDFEPFFEELEDIDLGGKKVALF 86 (140)
T ss_pred HHHHHHHhcCCeEEEEEcccCC----H-------HHHhcCCEEEEEcCCCCCCCCCcchHHHHHHHhhhCCCCCCEEEEE
Confidence 3445555667777655543221 1 123568999998866 2245666655544556777766
Q ss_pred C
Q 024727 135 G 135 (263)
Q Consensus 135 G 135 (263)
|
T Consensus 87 g 87 (140)
T TIGR01753 87 G 87 (140)
T ss_pred e
Confidence 6
No 174
>PRK14175 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=70.06 E-value=48 Score=29.82 Aligned_cols=148 Identities=15% Similarity=0.108 Sum_probs=83.4
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HH--HHHHHHHHH-cCCCCcEEEEeCh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AG--SVFLEAWKE-AGTPNVRIGVVGA 136 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV--~~~~~~l~~-~~~~~~~i~aVG~ 136 (263)
-.+..++.|+++..+-+-+. ...+++...++ +..+.|.|+.--|- .+ +..++.+.. ...|+..-.-.|.
T Consensus 53 k~k~a~~~Gi~~~~~~l~~~---~~~~~l~~~I~~lN~d~~V~GIivq~Plp~~i~~~~i~~~I~p~KDVDGl~~~n~g~ 129 (286)
T PRK14175 53 KKKAAEKIGMISEIVHLEET---ATEEEVLNELNRLNNDDSVSGILVQVPLPKQVSEQKILEAINPEKDVDGFHPINIGK 129 (286)
T ss_pred HHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhccCcccCcccCCccchHh
Confidence 34456677988876655322 12334444443 44678899988772 22 112222211 1123333333332
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCCC-CchhHHHHHHhCCCeeeEEeeeccc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASAK-ASNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~~-~~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
|- . |-. .+.| -|+.+.++.|.... ..|++++++.... -..-+...|.++|++|..+.-+.
T Consensus 130 -----l~-~------~~~-~~~P--cTp~ai~~ll~~~~i~l~Gk~vvVIGrs~~VG~pla~lL~~~gatVtv~~s~t-- 192 (286)
T PRK14175 130 -----LY-I------DEQ-TFVP--CTPLGIMEILKHADIDLEGKNAVVIGRSHIVGQPVSKLLLQKNASVTILHSRS-- 192 (286)
T ss_pred -----Hh-c------CCC-CCCC--CcHHHHHHHHHHcCCCCCCCEEEEECCCchhHHHHHHHHHHCCCeEEEEeCCc--
Confidence 21 1 321 2344 37888887777653 5789999998855 55668889999998886443211
Q ss_pred cCCCChHHHHHHhCCCCEEEEeCHH
Q 024727 214 PVHHVDQTVLKQALSIPVVAVASPS 238 (263)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~vvFtS~s 238 (263)
..+.+.+.+.|+|+-+-+.
T Consensus 193 ------~~l~~~~~~ADIVIsAvg~ 211 (286)
T PRK14175 193 ------KDMASYLKDADVIVSAVGK 211 (286)
T ss_pred ------hhHHHHHhhCCEEEECCCC
Confidence 1233345688988877665
No 175
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=69.89 E-value=56 Score=26.69 Aligned_cols=120 Identities=14% Similarity=0.128 Sum_probs=65.2
Q ss_pred EEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC-CCCcEEEEEcCCCC-chhHHHHHHhC--CCeeeE
Q 024727 131 IGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG-KKKCTVLYPASAKA-SNEIEEGLSNR--GFEVVR 206 (263)
Q Consensus 131 i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~-~~~~~vL~~~g~~~-~~~L~~~L~~~--G~~v~~ 206 (263)
+++=|.....+++.. |.. .++..+.-+|+..+.+.. .++.++.++.+... .+.+.+.|++. |+++.-
T Consensus 7 ~~~DG~~l~~~~~~~------~~~---~~~r~~g~dl~~~ll~~~~~~~~~v~llG~~~~~~~~~~~~l~~~yp~l~i~g 77 (171)
T cd06533 7 VLPDGIGVVWAARLL------GGP---LPERVTGSDLMPALLELAAQKGLRVFLLGAKPEVLEKAAERLRARYPGLKIVG 77 (171)
T ss_pred EecCcHHHHHHHHHc------CCC---CCcccCcHHHHHHHHHHHHHcCCeEEEECCCHHHHHHHHHHHHHHCCCcEEEE
Confidence 456677777777776 764 345566667776666543 34688999987765 34444567665 333322
Q ss_pred EeeeccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 207 LNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 207 ~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
.|.--......+++.+.+ .++|+|++.=++==+..|....... .....++|+|
T Consensus 78 --~~~g~~~~~~~~~i~~~I~~~~pdiv~vglG~PkQE~~~~~~~~~-l~~~v~~~vG 132 (171)
T cd06533 78 --YHHGYFGPEEEEEIIERINASGADILFVGLGAPKQELWIARHKDR-LPVPVAIGVG 132 (171)
T ss_pred --ecCCCCChhhHHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHH-CCCCEEEEec
Confidence 112111111122234444 4788776654443332455444332 3456677777
No 176
>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=69.84 E-value=89 Score=28.51 Aligned_cols=140 Identities=14% Similarity=0.079 Sum_probs=82.8
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (263)
.+.+.|++.|.+|...++- ...+.+.. + ..+..|...+++..++..... .+. ..++++++...
T Consensus 25 ~fe~~l~~~Gl~Ve~~~f~-----~~~~~l~A-l-~aG~iD~~~~g~~~~~~~~~a----~g~-~~~iv~v~~~~----- 87 (328)
T TIGR03427 25 IVDKWADKYGITIEVVQIN-----DYVESINQ-Y-TAGKFDGCTMTNMDALTIPAA----GGV-DTTALIVGDFS----- 87 (328)
T ss_pred chhhhHHHcCCeEEEEECC-----ChHHHHHH-H-HcCCCCEEeecCHHHHHHHHh----CCC-CeEEEEEEccC-----
Confidence 4555677778777655331 11233333 3 247889887777666532221 222 35676666421
Q ss_pred HhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHH
Q 024727 144 EVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVL 223 (263)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~ 223 (263)
. |-...+++. ++.+.+ .+|++|.+.+|..+--.|...|++.|.+...+.+-...+ .+..
T Consensus 88 -~------g~~~ivv~~-------i~svaD--LKGKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~~~-----~d~~ 146 (328)
T TIGR03427 88 -N------GNDGIVLKG-------GKSLAD--LKGQKVNLVELSVSHYLLARALESVGLSEKDVKVVNTSD-----ADIV 146 (328)
T ss_pred -C------CceEEEECC-------CCCHHH--cCCCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeCCh-----HHHH
Confidence 2 323323332 133333 268999999998887888899999999865555544322 1222
Q ss_pred HHh--CCCCEEEEeCHHHHH
Q 024727 224 KQA--LSIPVVAVASPSAVR 241 (263)
Q Consensus 224 ~~l--~~~d~vvFtS~s~v~ 241 (263)
..+ +++|+++..-|...+
T Consensus 147 aAl~~G~VDAa~~~eP~~s~ 166 (328)
T TIGR03427 147 AAFITKDVTAVVTWNPQLSE 166 (328)
T ss_pred HHHhcCCCcEEEEcCchHHH
Confidence 223 699999998887554
No 177
>PRK06756 flavodoxin; Provisional
Probab=69.73 E-value=20 Score=28.26 Aligned_cols=16 Identities=6% Similarity=0.142 Sum_probs=8.1
Q ss_pred cCCCCCHHHHHHHhcc
Q 024727 158 SPSKATGKILASELPK 173 (263)
Q Consensus 158 ~p~~~t~e~L~~~l~~ 173 (263)
.....+.+.+++.|.+
T Consensus 9 ~S~tGnTe~vA~~ia~ 24 (148)
T PRK06756 9 ASMSGNTEEMADHIAG 24 (148)
T ss_pred ECCCchHHHHHHHHHH
Confidence 3344555555555543
No 178
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=69.69 E-value=38 Score=25.75 Aligned_cols=68 Identities=13% Similarity=0.207 Sum_probs=51.0
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH----HHHHHHHHHHHHcCCCCcEEEEeChh
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP----EAGSVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~----~aV~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
..++...|++.|.+++.. .+.+.....+++...+++|+++-- .....+++.+...+ .++|++.++..
T Consensus 6 ~~~l~~~L~~~~~~vv~~--------~~~dd~~~~i~~~~~i~avvi~~d~~~~~~~~~ll~~i~~~~-~~iPVFl~~~~ 76 (115)
T PF03709_consen 6 SRELAEALEQRGREVVDA--------DSTDDALAIIESFTDIAAVVISWDGEEEDEAQELLDKIRERN-FGIPVFLLAER 76 (115)
T ss_dssp HHHHHHHHHHTTTEEEEE--------SSHHHHHHHHHCTTTEEEEEEECHHHHHHHHHHHHHHHHHHS-TT-EEEEEESC
T ss_pred HHHHHHHHHHCCCEEEEe--------CChHHHHHHHHhCCCeeEEEEEcccccchhHHHHHHHHHHhC-CCCCEEEEecC
Confidence 467889999999888755 334555667777889999999987 66667777777665 47999999884
Q ss_pred H
Q 024727 138 T 138 (263)
Q Consensus 138 T 138 (263)
+
T Consensus 77 ~ 77 (115)
T PF03709_consen 77 D 77 (115)
T ss_dssp C
T ss_pred C
Confidence 4
No 179
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=69.26 E-value=17 Score=27.32 Aligned_cols=67 Identities=12% Similarity=0.041 Sum_probs=35.9
Q ss_pred chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeC--HHHHHHHHHHhcccc--CCCCceEEEECC
Q 024727 190 SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVAS--PSAVRSSWVNLISDT--EQWSNSVACIAG 263 (263)
Q Consensus 190 ~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS--~s~v~~~~~~~~~~~--~~~~~~i~~IGp 263 (263)
-..+...|++.|++|..+..... .+++.+.+ .++|+|.|++ ..... ...++++.. ..+++++++=|+
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~~------~~~l~~~~~~~~pd~V~iS~~~~~~~~-~~~~l~~~~k~~~p~~~iv~GG~ 89 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANVP------PEELVEALRAERPDVVGISVSMTPNLP-EAKRLARAIKERNPNIPIVVGGP 89 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB-------HHHHHHHHHHTTCSEEEEEESSSTHHH-HHHHHHHHHHTTCTTSEEEEEES
T ss_pred HHHHHHHHHHCCCeEEEECCCCC------HHHHHHHHhcCCCcEEEEEccCcCcHH-HHHHHHHHHHhcCCCCEEEEECC
Confidence 45677788888887754433221 13333333 4888888875 44444 444444321 134566666553
No 180
>cd01080 NAD_bind_m-THF_DH_Cyclohyd NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NADP binding domain of the Methylene-Tetrahydrofolate Dehydrogenase/cyclohydrolase (m-THF DH/cyclohydrolase) bifunctional enzyme. Tetrahydrofolate is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional DH/cyclodrolase form. In bacteria, monofucntional DH, as well a
Probab=68.82 E-value=22 Score=29.26 Aligned_cols=68 Identities=16% Similarity=0.136 Sum_probs=45.5
Q ss_pred CHHHHHHHhccCC--CCCcEEEEEcCCCC-chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHH
Q 024727 163 TGKILASELPKNG--KKKCTVLYPASAKA-SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (263)
Q Consensus 163 t~e~L~~~l~~~~--~~~~~vL~~~g~~~-~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s 238 (263)
++...++.+.+.. ..+++++++.+.+- ...+...|.++|++| .+..+.. +++.+.+...|+|+-+.++
T Consensus 27 ~~~a~v~l~~~~~~~l~gk~vlViG~G~~~G~~~a~~L~~~g~~V---~v~~r~~-----~~l~~~l~~aDiVIsat~~ 97 (168)
T cd01080 27 TPAGILELLKRYGIDLAGKKVVVVGRSNIVGKPLAALLLNRNATV---TVCHSKT-----KNLKEHTKQADIVIVAVGK 97 (168)
T ss_pred hHHHHHHHHHHcCCCCCCCEEEEECCcHHHHHHHHHHHhhCCCEE---EEEECCc-----hhHHHHHhhCCEEEEcCCC
Confidence 5555665555543 46899999999873 566889999999864 3333321 2344446789988887765
No 181
>PLN02516 methylenetetrahydrofolate dehydrogenase (NADP+)
Probab=68.81 E-value=49 Score=29.99 Aligned_cols=150 Identities=17% Similarity=0.070 Sum_probs=80.9
Q ss_pred HHHHHhCCCcEEEeceEEeeeCCCchHHHHHH---hcCCCccEEEEeCHH--HHH--HHHHHHHHcCCCCcEEEEeChhH
Q 024727 66 IKALAKHRIDCLELPLIQHAQGPDTDRLSSVL---NADTIFDWIIITSPE--AGS--VFLEAWKEAGTPNVRIGVVGAGT 138 (263)
Q Consensus 66 ~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l---~~l~~~d~IiFTS~~--aV~--~~~~~l~~~~~~~~~i~aVG~~T 138 (263)
.+..++.|+++..+.+-+.. ..+++.+.+ ++....|.|+.--|- .++ ..++.+. +.+.+=++.+.-
T Consensus 61 ~k~a~~~Gi~~~~~~l~~~~---s~~el~~~I~~lN~D~~V~GIlvq~PlP~~id~~~i~~~I~----p~KDVDGl~~~n 133 (299)
T PLN02516 61 RKACAEVGIKSFDVDLPENI---SEAELISKVHELNANPDVHGILVQLPLPKHINEEKILNEIS----LEKDVDGFHPLN 133 (299)
T ss_pred HHHHHHcCCEEEEEECCCCC---CHHHHHHHHHHHhCCCCCCeEEEecCCCCCcCHHHHHhccC----cccccCccCHhh
Confidence 34467789888766553221 223344444 345678899988772 222 1222111 123333334443
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEc-CCCCchhHHHHHHhCCCeeeEEeeeccccC
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPA-SAKASNEIEEGLSNRGFEVVRLNTYTTEPV 215 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~-g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~ 215 (263)
...|-.- |....+.| -|+.+.++.|..+. ..|++++++. ++.-..-|...|.++|+.|+-+.-..
T Consensus 134 ~g~l~~~------~~~~~~~P--cTp~avi~lL~~~~i~l~Gk~vvVIGRS~iVGkPla~lL~~~~ATVtvchs~T---- 201 (299)
T PLN02516 134 IGKLAMK------GREPLFLP--CTPKGCLELLSRSGIPIKGKKAVVVGRSNIVGLPVSLLLLKADATVTVVHSRT---- 201 (299)
T ss_pred HhhHhcC------CCCCCCCC--CCHHHHHHHHHHhCCCCCCCEEEEECCCccchHHHHHHHHHCCCEEEEeCCCC----
Confidence 3333211 11122444 47788887777553 4678877664 45555668888989998886553321
Q ss_pred CCChHHHHHHhCCCCEEEEeCHH
Q 024727 216 HHVDQTVLKQALSIPVVAVASPS 238 (263)
Q Consensus 216 ~~~~~~~~~~l~~~d~vvFtS~s 238 (263)
.. +.+...+.|+|+-.-+-
T Consensus 202 -~n---l~~~~~~ADIvv~AvGk 220 (299)
T PLN02516 202 -PD---PESIVREADIVIAAAGQ 220 (299)
T ss_pred -CC---HHHHHhhCCEEEEcCCC
Confidence 12 22223578888876554
No 182
>PRK14179 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=68.47 E-value=76 Score=28.53 Aligned_cols=161 Identities=10% Similarity=0.059 Sum_probs=84.4
Q ss_pred eEEEeCCCCChHHH----HHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HH--HHHHHH
Q 024727 52 KVVVTRERGKNGKL----IKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AG--SVFLEA 120 (263)
Q Consensus 52 ~ILitr~~~~~~~l----~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV--~~~~~~ 120 (263)
-++.......+..+ .+..++.|+++..+-+-+. ...+++.+.++ +..+.|.|+.--|- .+ +..++.
T Consensus 36 aii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~---~~~~~l~~~I~~lN~d~~V~GIivqlPlp~~i~~~~i~~~ 112 (284)
T PRK14179 36 VVILVGDNPASQVYVRNKERSALAAGFKSEVVRLPET---ISQEELLDLIERYNQDPTWHGILVQLPLPKHINEEKILLA 112 (284)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEcCCCCCCCCHHHHHhc
Confidence 34444444333333 4566788988876655322 12334444443 44678899887662 22 112221
Q ss_pred HHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcC-CCCchhHHHHH
Q 024727 121 WKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPAS-AKASNEIEEGL 197 (263)
Q Consensus 121 l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g-~~~~~~L~~~L 197 (263)
+. +.+.+=++.+.-...|- . |-. .+.| -|+.+.++.|..+. ..|+++.++.- +.-..-|...|
T Consensus 113 I~----p~KDVDGl~~~N~g~l~-~------~~~-~~~P--cTp~avi~lL~~~~i~l~Gk~v~vIG~S~ivG~Pla~lL 178 (284)
T PRK14179 113 ID----PKKDVDGFHPMNTGHLW-S------GRP-VMIP--CTPAGIMEMFREYNVELEGKHAVVIGRSNIVGKPMAQLL 178 (284)
T ss_pred cC----ccccccccCHhhHHHHh-C------CCC-CCcC--CCHHHHHHHHHHhCCCCCCCEEEEECCCCcCcHHHHHHH
Confidence 11 12222223332222221 1 221 1344 47888887777653 47899888876 44445688888
Q ss_pred HhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCH
Q 024727 198 SNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 198 ~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
.++|++|.-+ ... ... +.+.....|+|+..-+
T Consensus 179 ~~~gatVtv~---~s~--t~~---l~~~~~~ADIVI~avg 210 (284)
T PRK14179 179 LDKNATVTLT---HSR--TRN---LAEVARKADILVVAIG 210 (284)
T ss_pred HHCCCEEEEE---CCC--CCC---HHHHHhhCCEEEEecC
Confidence 8999987544 211 122 2222357787776544
No 183
>PRK01175 phosphoribosylformylglycinamidine synthase I; Provisional
Probab=67.75 E-value=55 Score=28.95 Aligned_cols=91 Identities=15% Similarity=0.149 Sum_probs=55.1
Q ss_pred CCCeEEEeCCCC--ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH-H----------
Q 024727 49 SNPKVVVTRERG--KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG-S---------- 115 (263)
Q Consensus 49 ~g~~ILitr~~~--~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV-~---------- 115 (263)
.+++|+|.+... ...++...|++.|+++..+++.+... .. ..+.+||.|++.-..+. +
T Consensus 2 ~~~kvaVl~~pG~n~d~e~~~Al~~aG~~v~~v~~~~~~~--~~-------~~l~~~DgLvipGGfs~gD~l~~g~~~~~ 72 (261)
T PRK01175 2 ESIRVAVLRMEGTNCEDETVKAFRRLGVEPEYVHINDLAA--ER-------KSVSDYDCLVIPGGFSAGDYIRAGAIFAA 72 (261)
T ss_pred CCCEEEEEeCCCCCCHHHHHHHHHHCCCcEEEEeeccccc--cc-------cchhhCCEEEECCCCCcccccccchhhHH
Confidence 356788777643 24568899999999998887643211 00 12568999999886211 1
Q ss_pred HH----HHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCce
Q 024727 116 VF----LEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDV 155 (263)
Q Consensus 116 ~~----~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~ 155 (263)
.+ .+.+++....+++++.|.-. .+.|-+. |+-+
T Consensus 73 ~l~~~l~~~Ik~f~~~gkpVLGICnG-~QlLa~~------GlLp 109 (261)
T PRK01175 73 RLKAVLRKDIEEFIDEGYPIIGICNG-FQVLVEL------GLLP 109 (261)
T ss_pred HHHHHHHHHHHHHHHCCCeEEEECHH-HHHHHHC------CCCC
Confidence 11 12222222246788877754 3678887 8754
No 184
>PRK09496 trkA potassium transporter peripheral membrane component; Reviewed
Probab=67.54 E-value=56 Score=30.67 Aligned_cols=117 Identities=19% Similarity=0.177 Sum_probs=66.8
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEece--------------EEeeeCC--CchHHHHHHhcCCCccEEEEeCH
Q 024727 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPL--------------IQHAQGP--DTDRLSSVLNADTIFDWIIITSP 111 (263)
Q Consensus 48 l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~--------------~~~~~~~--~~~~l~~~l~~l~~~d~IiFTS~ 111 (263)
+..++|+|.....-...+.+.|.+.|.++..+-. +.+.... +.+.+++. .+.++|+++.+++
T Consensus 229 ~~~~~iiIiG~G~~g~~l~~~L~~~~~~v~vid~~~~~~~~~~~~~~~~~~i~gd~~~~~~L~~~--~~~~a~~vi~~~~ 306 (453)
T PRK09496 229 KPVKRVMIVGGGNIGYYLAKLLEKEGYSVKLIERDPERAEELAEELPNTLVLHGDGTDQELLEEE--GIDEADAFIALTN 306 (453)
T ss_pred CCCCEEEEECCCHHHHHHHHHHHhCCCeEEEEECCHHHHHHHHHHCCCCeEEECCCCCHHHHHhc--CCccCCEEEECCC
Confidence 4578899888766677899999999988865511 1111111 11112111 3568899998877
Q ss_pred HHHHHHHHHH--HHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhc
Q 024727 112 EAGSVFLEAW--KEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (263)
Q Consensus 112 ~aV~~~~~~l--~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (263)
+.-....-.+ ++.+...+-+-+--+.-.+.++.. |....+.|+...+..+++.+.
T Consensus 307 ~~~~n~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~------g~~~vi~p~~~~~~~~~~~~~ 363 (453)
T PRK09496 307 DDEANILSSLLAKRLGAKKVIALVNRPAYVDLVEGL------GIDIAISPRQATASEILRHVR 363 (453)
T ss_pred CcHHHHHHHHHHHHhCCCeEEEEECCcchHHHHHhc------CCCEEECHHHHHHHHHHHHhh
Confidence 5443333322 333332222223355556778887 988766666555555555444
No 185
>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=67.32 E-value=47 Score=28.02 Aligned_cols=89 Identities=8% Similarity=0.041 Sum_probs=51.4
Q ss_pred CCeEEEeCCCC-------ChHHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024727 50 NPKVVVTRERG-------KNGKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (263)
Q Consensus 50 g~~ILitr~~~-------~~~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~ 120 (263)
.++|++..+.. ..+-+.+.++++|.+......+......+ .+.+...+..-..+|+|+.++...+..+++.
T Consensus 117 ~~~i~~l~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~a 196 (268)
T cd06289 117 HRRIAFIGGLEDSSTRRERLAGYRAALAEAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIVCFNDLVAFGAMSG 196 (268)
T ss_pred CCCEEEecCCccccchHHHHHHHHHHHHHcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHH
Confidence 44677654321 12445667777775432211111111111 1334555543356899999999888888888
Q ss_pred HHHcCC---CCcEEEEeChhH
Q 024727 121 WKEAGT---PNVRIGVVGAGT 138 (263)
Q Consensus 121 l~~~~~---~~~~i~aVG~~T 138 (263)
+++.+. +++.+++.+...
T Consensus 197 l~~~g~~~p~di~iig~d~~~ 217 (268)
T cd06289 197 LRRAGLTPGRDIAVVGFDDVA 217 (268)
T ss_pred HHHcCCCCCcceEEEeecCch
Confidence 888775 367788887643
No 186
>PRK06703 flavodoxin; Provisional
Probab=67.05 E-value=17 Score=28.82 Aligned_cols=66 Identities=17% Similarity=0.204 Sum_probs=37.9
Q ss_pred CChHHHHHH----HHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH--------HHHHHHHHHHHHcCCC
Q 024727 60 GKNGKLIKA----LAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP--------EAGSVFLEAWKEAGTP 127 (263)
Q Consensus 60 ~~~~~l~~~----L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~--------~aV~~~~~~l~~~~~~ 127 (263)
...+.+++. |++.|.++....+-+. +. ..+.++|.|+|-|+ ..+..|+..+....+.
T Consensus 13 GnT~~iA~~ia~~l~~~g~~v~~~~~~~~----~~-------~~l~~~d~viigspt~~~g~~p~~~~~f~~~l~~~~l~ 81 (151)
T PRK06703 13 GNTEDIADLIKVSLDAFDHEVVLQEMDGM----DA-------EELLAYDGIILGSYTWGDGDLPYEAEDFHEDLENIDLS 81 (151)
T ss_pred chHHHHHHHHHHHHHhcCCceEEEehhhC----CH-------HHHhcCCcEEEEECCCCCCcCcHHHHHHHHHHhcCCCC
Confidence 344555544 5556766655443221 11 12467899999553 3467777766654455
Q ss_pred CcEEEEeCh
Q 024727 128 NVRIGVVGA 136 (263)
Q Consensus 128 ~~~i~aVG~ 136 (263)
+.+++++|-
T Consensus 82 ~k~~~vfg~ 90 (151)
T PRK06703 82 GKKVAVFGS 90 (151)
T ss_pred CCEEEEEcc
Confidence 677877763
No 187
>COG0647 NagD Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]
Probab=66.66 E-value=66 Score=28.66 Aligned_cols=84 Identities=18% Similarity=0.202 Sum_probs=54.6
Q ss_pred CCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC----CccEEEEeCHHHHHHHHHHHHHcCCCCcEEEE
Q 024727 58 ERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT----IFDWIIITSPEAGSVFLEAWKEAGTPNVRIGV 133 (263)
Q Consensus 58 ~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~----~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~a 133 (263)
+-.+..+..+.|+++|..++.+ ...+....+.+.+.|..+. ..| -|+||..+...++.... +..+++.
T Consensus 25 ~ipga~e~l~~L~~~g~~~ifl---TNn~~~s~~~~~~~L~~~~~~~~~~~-~i~TS~~at~~~l~~~~----~~~kv~v 96 (269)
T COG0647 25 AIPGAAEALKRLKAAGKPVIFL---TNNSTRSREVVAARLSSLGGVDVTPD-DIVTSGDATADYLAKQK----PGKKVYV 96 (269)
T ss_pred cCchHHHHHHHHHHcCCeEEEE---eCCCCCCHHHHHHHHHhhcCCCCCHH-HeecHHHHHHHHHHhhC----CCCEEEE
Confidence 3457788889999999877755 2333333343555554422 233 46699998887766321 2479999
Q ss_pred eChhHH-HHHHHhhhhcCCCCce
Q 024727 134 VGAGTA-SIFEEVIQSSKCSLDV 155 (263)
Q Consensus 134 VG~~Ta-~~L~~~~~~~~~G~~~ 155 (263)
+|+.-- +.|+.. |+..
T Consensus 97 iG~~~l~~~l~~~------G~~~ 113 (269)
T COG0647 97 IGEEGLKEELEGA------GFEL 113 (269)
T ss_pred ECCcchHHHHHhC------CcEE
Confidence 997665 777777 8765
No 188
>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=66.38 E-value=33 Score=29.33 Aligned_cols=86 Identities=16% Similarity=0.176 Sum_probs=49.6
Q ss_pred CeEEEeCCCC-------ChHHHHHHHHhC-CCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHH
Q 024727 51 PKVVVTRERG-------KNGKLIKALAKH-RIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWK 122 (263)
Q Consensus 51 ~~ILitr~~~-------~~~~l~~~L~~~-G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~ 122 (263)
++|++..+.. ..+-+.+.++++ |.++.........+....+.+.+.++...++|+|++.+-..+..+.+.++
T Consensus 123 ~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~ 202 (275)
T cd06320 123 GKVAIIEGKAGAFAAEQRTEGFTEAIKKASGIEVVASQPADWDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVK 202 (275)
T ss_pred ceEEEEeCCCCCccHHHHHHHHHHHHhhCCCcEEEEecCCCccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHH
Confidence 4777654321 124467778888 77665321111111001234455554445688988888888888888888
Q ss_pred HcCCC-CcEEEEeCh
Q 024727 123 EAGTP-NVRIGVVGA 136 (263)
Q Consensus 123 ~~~~~-~~~i~aVG~ 136 (263)
+.+.. ++.+++.+.
T Consensus 203 ~~g~~~di~vig~d~ 217 (275)
T cd06320 203 NAGKQGKVLVVGTDG 217 (275)
T ss_pred hcCCCCCeEEEecCC
Confidence 87763 566666654
No 189
>PRK14176 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=66.30 E-value=71 Score=28.76 Aligned_cols=159 Identities=15% Similarity=0.135 Sum_probs=85.0
Q ss_pred CeEEEeCCCCChHH----HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHH---hcCCCccEEEEeCHH--HHH--HHHH
Q 024727 51 PKVVVTRERGKNGK----LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVL---NADTIFDWIIITSPE--AGS--VFLE 119 (263)
Q Consensus 51 ~~ILitr~~~~~~~----l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l---~~l~~~d~IiFTS~~--aV~--~~~~ 119 (263)
.-++.......+.. -.+..++.|+++..+-+-+.. ..+++...+ ++..+.|.|+.--|- .++ ..++
T Consensus 41 Laii~vg~d~aS~~Yv~~k~k~~~~~Gi~~~~~~l~~~~---~~~el~~~I~~LN~D~~V~GIlvqlPLP~~i~~~~i~~ 117 (287)
T PRK14176 41 LATILVGDDPASKMYVRLKHKACERVGIRAEDQFLPADT---TQEELLELIDSLNKRKDVHGILLQLPLPKHLDPQEAME 117 (287)
T ss_pred EEEEEECCCcchHHHHHHHHHHHHHcCCEEEEEECCCCC---CHHHHHHHHHHHhCCCCCCeEEEcCCCCCCCCHHHHHh
Confidence 33444444443333 345567779888766553221 223444444 345678999988773 221 1122
Q ss_pred HHHH-cCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCCC-CchhHHH
Q 024727 120 AWKE-AGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASAK-ASNEIEE 195 (263)
Q Consensus 120 ~l~~-~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~~-~~~~L~~ 195 (263)
.+.. ...|+..-+-.| .|. . |-. .+.| -|+.+.++.|..+. ..|++++++.... -..-|..
T Consensus 118 ~I~p~KDVDGl~~~N~g-----~l~-~------g~~-~~~P--cTp~av~~ll~~~~i~l~Gk~vvViGrs~iVGkPla~ 182 (287)
T PRK14176 118 AIDPAKDADGFHPYNMG-----KLM-I------GDE-GLVP--CTPHGVIRALEEYGVDIEGKNAVIVGHSNVVGKPMAA 182 (287)
T ss_pred ccCccccccccChhhhh-----hHh-c------CCC-CCCC--CcHHHHHHHHHHcCCCCCCCEEEEECCCcccHHHHHH
Confidence 1111 112233333333 221 2 322 2444 48888988887653 4688888776554 4556888
Q ss_pred HHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEe
Q 024727 196 GLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVA 235 (263)
Q Consensus 196 ~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFt 235 (263)
.|.++|+.|.-+.... . .+.+...+.|+|+-.
T Consensus 183 lL~~~~atVtv~hs~T-----~---~l~~~~~~ADIvv~A 214 (287)
T PRK14176 183 MLLNRNATVSVCHVFT-----D---DLKKYTLDADILVVA 214 (287)
T ss_pred HHHHCCCEEEEEeccC-----C---CHHHHHhhCCEEEEc
Confidence 9999999885555322 1 122223578877753
No 190
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=66.17 E-value=80 Score=29.81 Aligned_cols=138 Identities=12% Similarity=0.096 Sum_probs=78.9
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCCCcEE-EEeCh-h
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTPNVRI-GVVGA-G 137 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~-~~~~~~~i-~aVG~-~ 137 (263)
.-.++.+.|++.|+++..++... .+.++ +++..+...-+..++..-..+.+.+++ .+.+-+.. +-+|. .
T Consensus 180 d~~ei~~lL~~~Gi~v~~~~~~~----~~~~e----i~~~~~A~lniv~~~~~g~~~a~~Lee~~GiP~~~~~~P~G~~~ 251 (426)
T cd01972 180 DVDEFKRLLNELGLRVNAIIAGG----CSVEE----LERASEAAANVTLCLDLGYYLGAALEQRFGVPEIKAPQPYGIEA 251 (426)
T ss_pred cHHHHHHHHHHcCCeEEEEeCCC----CCHHH----HHhcccCCEEEEEChhHHHHHHHHHHHHhCCCeEecCCccCHHH
Confidence 35889999999999998653321 12222 335677777777777655666676765 44332222 12554 5
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCC--CHHHHHHHhcc--CCCCCcEEEEEcCCCCchhHHHHHHhCC-CeeeEEee
Q 024727 138 TASIFEEVIQSSKCSLDVAFSPSKA--TGKILASELPK--NGKKKCTVLYPASAKASNEIEEGLSNRG-FEVVRLNT 209 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~--t~e~L~~~l~~--~~~~~~~vL~~~g~~~~~~L~~~L~~~G-~~v~~~~v 209 (263)
|.+.|++.. ...|.... .++.. .-+.+.+.|.+ ....|+++.+..+....--+...|.+.| .++..+.+
T Consensus 252 T~~~l~~ia--~~~g~~~~-~e~~i~~e~~~~~~~l~~~~~~l~Gk~~~i~~~~~~~~~~~~~l~elG~~~v~~~~~ 325 (426)
T cd01972 252 TDKWLREIA--KVLGMEAE-AEAVIEREHERVAPEIEELRKALKGKKAIVETGAAYGHLLIAVLRELGFGEVPVVLV 325 (426)
T ss_pred HHHHHHHHH--HHhCCcHH-HHHHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCccHHHHHHHHHHcCCceEEEEEe
Confidence 666666551 11254211 11000 00112222222 1136889988888877778889999999 88766554
No 191
>cd01977 Nitrogenase_VFe_alpha Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V- and Fe- nitrogenases there is a molybdenum (Mo)-dependent nitrogenase which is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha sub
Probab=65.56 E-value=1e+02 Score=28.93 Aligned_cols=139 Identities=12% Similarity=0.052 Sum_probs=74.4
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeChh-H
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGAG-T 138 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-~~~~~~i~aVG~~-T 138 (263)
..+++.+.|++.|.++...-. .-...++ ++...+...-+..++.....+.+.+++. +.+-..+-.+|.. |
T Consensus 176 d~~ei~~lL~~~Gl~v~~~~~----~~~t~~e----i~~~~~A~lnlv~~~~~~~~~A~~L~er~GiP~~~~~~~G~~~t 247 (415)
T cd01977 176 DTEVLQKYFERMGIQVLSTFT----GNGTYDD----LRWMHRAKLNVVNCARSAGYIANELKKRYGIPRLDVDGFGFEYC 247 (415)
T ss_pred cHHHHHHHHHHcCCeEEEEEC----CCCCHHH----HHhcccCCEEEEEchhHHHHHHHHHHHHhCCCeEEeccCCHHHH
Confidence 457899999999999972110 1112222 3456777776666655445666666653 4432222236654 5
Q ss_pred HHHHHHhhhhcCCCCceee---cCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHH-hCCCeeeEEeee
Q 024727 139 ASIFEEVIQSSKCSLDVAF---SPSKA-TGKILASELPKNGKKKCTVLYPASAKASNEIEEGLS-NRGFEVVRLNTY 210 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~---~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~-~~G~~v~~~~vY 210 (263)
.+.|++.. ...|...+. .|+.. ....-++.... ...|+++.+..+....--+...|. +.|++|..+..+
T Consensus 248 ~~~l~~la--~~~g~~~~~e~~i~~~~~~~r~~l~~~~~-~l~Gk~vai~~~~~~~~~la~~l~~elG~~v~~i~~~ 321 (415)
T cd01977 248 AESLRKIG--AFFGIEDRAEAVIAEEMAKWKPELDWYKE-RLKGKKVCIWTGGPKLWHWTKVIEDELGMQVVAMSSK 321 (415)
T ss_pred HHHHHHHH--HHhCcchhHHHHHHHHHHHHHHHHHHHHH-HcCCCEEEEECCCchHHHHHHHHHHhcCCEEEEEEEE
Confidence 56665541 111443210 11100 01111111111 136799988776666667778885 899999766444
No 192
>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=65.19 E-value=93 Score=27.04 Aligned_cols=123 Identities=15% Similarity=0.071 Sum_probs=64.5
Q ss_pred CCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcE
Q 024727 101 TIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCT 180 (263)
Q Consensus 101 ~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~ 180 (263)
..+|.||.++..-.+.+.+...+. ++.+++.++..... - .+.. +......+.=|+-.+.....+.++
T Consensus 56 ~g~dlIi~~g~~~~~~~~~vA~~~--p~~~F~~~d~~~~~----~------Nv~~-~~~~~~e~~ylaG~~Aa~~t~t~k 122 (258)
T cd06353 56 QGYDLIFGTSFGFMDAALKVAKEY--PDVKFEHCSGYKTA----P------NVGS-YFARIYEGRYLAGVVAGKMTKTNK 122 (258)
T ss_pred cCCCEEEECchhhhHHHHHHHHHC--CCCEEEECCCCCCC----C------Ceee-EechhhHHHHHHHHHHHHhhcCCc
Confidence 579999998888888888877665 47888887542211 1 2322 222222222333333322234578
Q ss_pred EEEEcCCCCch------hHHHHHHhCCCeeeEEeeeccccCCCCh-HHHHHHh--CCCCEEEEeCH
Q 024727 181 VLYPASAKASN------EIEEGLSNRGFEVVRLNTYTTEPVHHVD-QTVLKQA--LSIPVVAVASP 237 (263)
Q Consensus 181 vL~~~g~~~~~------~L~~~L~~~G~~v~~~~vY~~~~~~~~~-~~~~~~l--~~~d~vvFtS~ 237 (263)
|-++.|..... -+.+.++..+-+++.+..|-....+... .++.+.+ +.+| |+|...
T Consensus 123 VG~I~g~~~~~~~~~~~gF~~G~~~~~p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~D-vI~~~~ 187 (258)
T cd06353 123 VGYVAAFPIPEVVRGINAFALGARSVNPDATVKVIWTGSWFDPAKEKEAALALIDQGAD-VIYQHT 187 (258)
T ss_pred EEEEcCcccHHHHHHHHHHHHHHHHHCCCcEEEEEEecCCCCcHHHHHHHHHHHHCCCc-EEEecC
Confidence 99999985432 2333444444445545555533322221 2222222 5788 556554
No 193
>cd01976 Nitrogenase_MoFe_alpha Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Mo-nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=64.45 E-value=1.3e+02 Score=28.43 Aligned_cols=138 Identities=12% Similarity=0.079 Sum_probs=78.3
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCCCcEEEEeCh-h
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTPNVRIGVVGA-G 137 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~-~~~~~~~i~aVG~-~ 137 (263)
....++.+.|++.|+++.... ......++ +.+..+..+-+..++.+...+.+.+++ .+.+-+..--+|. .
T Consensus 185 ~d~~el~~lL~~~Gi~v~~~~----~~~~t~ee----i~~~~~A~lniv~~~~~~~~~a~~Le~~fGiP~~~~~p~Gi~~ 256 (421)
T cd01976 185 GDAWASRILLEEMGLRVVAQW----SGDGTLNE----MENAHKAKLNLIHCYRSMNYIARMMEEKYGIPWMEYNFFGPTK 256 (421)
T ss_pred ccHHHHHHHHHHcCCeEEEEe----CCCCCHHH----HHhcccCCEEEEECcHHHHHHHHHHHHHhCCcEEecccCCHHH
Confidence 355789999999999998322 11112233 335567777777777666666677765 3332111112453 4
Q ss_pred HHHHHHHhhhhcCCCCceeecCCC------CCHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEee
Q 024727 138 TASIFEEVIQSSKCSLDVAFSPSK------ATGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~------~t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
|.+.|++.. ...|... |+. ..-+.+.+.|.+. ...|+++.+..|......+...|++.|.+|...-.
T Consensus 257 t~~~l~~ia--~~~g~~~---~~~~e~~i~~e~~~~~~~l~~~~~~L~Gkrv~i~~g~~~~~~~~~~l~elGmevv~~g~ 331 (421)
T cd01976 257 IAESLRKIA--AYFDDEI---TAKTEEVIAEYKPAMEAVIAKYRPRLEGKTVMLYVGGLRPRHYIGAYEDLGMEVVGTGY 331 (421)
T ss_pred HHHHHHHHH--HHhCchH---HHHHHHHHHHHHHHHHHHHHHHHHHcCCCEEEEECCCCcHHHHHHHHHHCCCEEEEEEe
Confidence 666666551 1114321 111 0011223333322 23689999888766667778899999999876555
Q ss_pred e
Q 024727 210 Y 210 (263)
Q Consensus 210 Y 210 (263)
+
T Consensus 332 ~ 332 (421)
T cd01976 332 E 332 (421)
T ss_pred e
Confidence 3
No 194
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=64.22 E-value=1.2e+02 Score=27.92 Aligned_cols=84 Identities=11% Similarity=0.099 Sum_probs=47.0
Q ss_pred CHHHHHHHhccCCCCCcEEEEEcCCCC--------chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh-CCCCEEE
Q 024727 163 TGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVA 233 (263)
Q Consensus 163 t~e~L~~~l~~~~~~~~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~d~vv 233 (263)
-+..+++.+ +.... +++.++-.+.. .+.|.+.+++.|++|.....|... +.....+++.+ ..-++|+
T Consensus 124 ~~~a~~~ll-~~~~W-~~vaiiy~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~~~--~~d~~~~l~~ik~~~rvii 199 (387)
T cd06386 124 MGETFSALF-ERFHW-RSALLVYEDDKQERNCYFTLEGVHHVFQEEGYHMSIYPFDETK--DLDLDEIIRAIQASERVVI 199 (387)
T ss_pred HHHHHHHHH-HhCCC-eEEEEEEEcCCCCccceehHHHHHHHHHhcCceEEEEecCCCC--cccHHHHHHHHHhcCcEEE
Confidence 345555544 43333 55554433221 567788899999888665544322 12223344434 2226555
Q ss_pred Ee-CHHHHHHHHHHhcccc
Q 024727 234 VA-SPSAVRSSWVNLISDT 251 (263)
Q Consensus 234 Ft-S~s~v~~~~~~~~~~~ 251 (263)
+. ++..+. .++..+.+.
T Consensus 200 ~~~~~~~~~-~ll~~A~~~ 217 (387)
T cd06386 200 MCAGADTIR-SIMLAAHRR 217 (387)
T ss_pred EecCHHHHH-HHHHHHHHc
Confidence 55 888888 888876543
No 195
>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=64.00 E-value=44 Score=27.44 Aligned_cols=74 Identities=22% Similarity=0.156 Sum_probs=37.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC--CCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT--PNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~--~~~~i~aVG~ 136 (263)
..+.+.+++.|.++............+.+.+...++...+.++|++.+......+++.+.+.+. ++..+++.+.
T Consensus 143 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~~~~~~g~~~~~~~ii~~~~ 218 (269)
T cd01391 143 EGFKAALKKAGIEVVAIEYGDLDTEKGFQALLQLLKAAPKPDAIFACNDEMAAGALKAAREAGLTPGDISIIGFDG 218 (269)
T ss_pred HHHHHHHHhcCcEEEeccccCCCccccHHHHHHHHhcCCCCCEEEEcCchHHHHHHHHHHHcCCCCCCCEEEeccc
Confidence 3455556666644433222211110122333444433225677777777667777777777665 3566665543
No 196
>PF00148 Oxidored_nitro: Nitrogenase component 1 type Oxidoreductase; InterPro: IPR000510 Enzymes belonging to this family include cofactor-requiring nitrogenases and protochlorophyllide reductase. The key enzymatic reactions in nitrogen fixation are catalysed by the nitrogenase complex, which has two components, the iron protein (component 2), and a component (component 1) which is either a molybdenum-iron, vanadium-iron or iron-iron protein. The enzyme (1.18.6.1 from EC) forms a hexamer of two alpha, two beta and two delta chains. Protochlorophyllide reductase (1.3.1.33 from EC) is involved in the light-dependent accumulation of chlorophyll, probably at the step of reduction of protochlorophyllide to chlorophyllide.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QH1_C 1QH8_A 1H1L_C 1QGU_A 3AEK_C 3AET_C 3AER_C 3AEU_A 3AES_C 3AEQ_C ....
Probab=63.98 E-value=24 Score=32.75 Aligned_cols=152 Identities=14% Similarity=0.106 Sum_probs=85.9
Q ss_pred CCCeEEEeCC---C-CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc
Q 024727 49 SNPKVVVTRE---R-GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA 124 (263)
Q Consensus 49 ~g~~ILitr~---~-~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~ 124 (263)
...+|-+.-. . ....++.+.|++.|+++..++.-.. +.++ ++++.+.+..+..++.+-..+.+.+++.
T Consensus 143 ~~~~VNiiG~~~~~~~d~~el~~lL~~~Gi~v~~~~~~~~----t~~e----~~~~~~A~lniv~~~~~~~~~a~~L~e~ 214 (398)
T PF00148_consen 143 KPRSVNIIGGSPLGPGDLEELKRLLEELGIEVNAVFPGGT----TLEE----IRKAPEAALNIVLCPEGGPYAAEWLEER 214 (398)
T ss_dssp SSSEEEEEEESTBTHHHHHHHHHHHHHTTEEEEEEEETTB----CHHH----HHHGGGSSEEEESSCCHHHHHHHHHHHH
T ss_pred CCCceEEecCcCCCcccHHHHHHHHHHCCCceEEEeCCCC----CHHH----HHhCCcCcEEEEeccchhhHHHHHHHHH
Confidence 3445555422 2 3567999999999997776542111 2233 3356778888888888777777777764
Q ss_pred CCCCcEEEE----eCh-hHHHHHHHhhhhcCCCCceeecCCC--CCHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHH
Q 024727 125 GTPNVRIGV----VGA-GTASIFEEVIQSSKCSLDVAFSPSK--ATGKILASELPKN--GKKKCTVLYPASAKASNEIEE 195 (263)
Q Consensus 125 ~~~~~~i~a----VG~-~Ta~~L~~~~~~~~~G~~~~~~p~~--~t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~ 195 (263)
. +++++. +|. .|.+.+++.. ...|... .++. ..-+...+.+.+. ...|+++++..+....-.|..
T Consensus 215 ~--giP~~~~~~p~G~~~t~~~l~~i~--~~lg~~~--~~~~i~~~~~~~~~~l~~~~~~l~g~~v~i~~~~~~~~~l~~ 288 (398)
T PF00148_consen 215 F--GIPYLYFPSPYGIEGTDAWLRAIA--EALGKPI--AEAEIAEERERAEDALADYRERLGGKRVAIYGDPDRALGLAR 288 (398)
T ss_dssp H--T-EEEEEC-SBSHHHHHHHHHHHH--HHHTHHH--HHHHHHHHHHHHHHHHHHHHHHHTT-EEEEESSHHHHHHHHH
T ss_pred h--CCCeeeccccccHHHHHHHHHHHH--HHhCCch--hhHHHHHHHHHHHHHHHhhHHhhcCceEEEEcCchhHHHHHH
Confidence 1 334443 454 3455555441 0113111 0110 0001122222221 124789998877766778899
Q ss_pred HHHhCCCeeeEEeeecccc
Q 024727 196 GLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 196 ~L~~~G~~v~~~~vY~~~~ 214 (263)
.|.+.|.++..+.++....
T Consensus 289 ~L~elG~~v~~v~~~~~~~ 307 (398)
T PF00148_consen 289 FLEELGMEVVAVGCDDKSP 307 (398)
T ss_dssp HHHHTT-EEEEEEESSGGH
T ss_pred HHHHcCCeEEEEEEccCch
Confidence 9999999998888877643
No 197
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=63.77 E-value=47 Score=24.61 Aligned_cols=78 Identities=18% Similarity=0.149 Sum_probs=42.4
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC---CccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT---IFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~---~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
.++.+..+.|++.|..+..+ ...+....+++.+.|+.++ ..| =|+||..+...+++.- ....+++++|+
T Consensus 17 pga~e~l~~L~~~g~~~~~l---TNns~~s~~~~~~~L~~~Gi~~~~~-~i~ts~~~~~~~l~~~----~~~~~v~vlG~ 88 (101)
T PF13344_consen 17 PGAVEALDALRERGKPVVFL---TNNSSRSREEYAKKLKKLGIPVDED-EIITSGMAAAEYLKEH----KGGKKVYVLGS 88 (101)
T ss_dssp TTHHHHHHHHHHTTSEEEEE---ES-SSS-HHHHHHHHHHTTTT--GG-GEEEHHHHHHHHHHHH----TTSSEEEEES-
T ss_pred cCHHHHHHHHHHcCCCEEEE---eCCCCCCHHHHHHHHHhcCcCCCcC-EEEChHHHHHHHHHhc----CCCCEEEEEcC
Confidence 45667777777777544433 2222222234444444332 122 3568888877776642 24689999986
Q ss_pred hH-HHHHHHh
Q 024727 137 GT-ASIFEEV 145 (263)
Q Consensus 137 ~T-a~~L~~~ 145 (263)
.. .+.|++.
T Consensus 89 ~~l~~~l~~~ 98 (101)
T PF13344_consen 89 DGLREELREA 98 (101)
T ss_dssp HHHHHHHHHT
T ss_pred HHHHHHHHHc
Confidence 54 4666776
No 198
>TIGR01282 nifD nitrogenase molybdenum-iron protein alpha chain. Nitrogenase consists of alpha (NifD) and beta (NifK) subunits of the molybdenum-iron protein and an ATP-binding iron-sulfur protein (NifH). This model describes a large clade of NifD proteins, but excludes a lineage that contains putative NifD and NifD homologs from species with vanadium-dependent nitrogenases.
Probab=63.67 E-value=1.1e+02 Score=29.46 Aligned_cols=137 Identities=11% Similarity=0.057 Sum_probs=77.2
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeCh-h
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGA-G 137 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-~~~~~~i~aVG~-~ 137 (263)
....++.+.|++.|+++..... .....++ +....+..+-+..++.+.....+.+++. +.+-..+--+|. .
T Consensus 220 gd~~eik~lL~~~Gi~v~~~~s----g~~t~~~----i~~~~~A~lniv~~~~~~~~~A~~Le~~fGiP~~~~~~~Gi~~ 291 (466)
T TIGR01282 220 GDAWESRILLEEIGLRVVAQWS----GDGTLNE----MENAPKAKLNLIHCYRSMNYISRHMEEKYGIPWMEYNFFGPTK 291 (466)
T ss_pred ccHHHHHHHHHHcCCeEEEEEC----CCCCHHH----HHhcccCCEEEEEChHHHHHHHHHHHHHhCCceEeCCCCCHHH
Confidence 3557899999999999873221 1112222 3355677777777777666677777653 433111112554 4
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCC-----CHHHHHHHhcc---CCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEee
Q 024727 138 TASIFEEVIQSSKCSLDVAFSPSKA-----TGKILASELPK---NGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~-----t~e~L~~~l~~---~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
|.+.|++.. .+.|.. .|++. .-++++..+.+ ....|+|+.+..|......+...|++.|.++...-.
T Consensus 292 T~~~Lr~ia--~~~g~~---i~~~~e~~I~~e~~~~~~~ld~~~~~L~GKrv~i~~g~~~~~~~~~~l~ELGmevv~~g~ 366 (466)
T TIGR01282 292 IAESLRKIA--EFFDDE---IKEKAEEVIAKYQPAVDAVIAKYRPRLEGKTVMLYVGGLRPRHVIGAFEDLGMEVIGTGY 366 (466)
T ss_pred HHHHHHHHH--HHHCch---hHHHHHHHHHHHHHHHHHHHHHHHHhcCCCEEEEECCCCcHHHHHHHHHHCCCEEEEEee
Confidence 667777651 111321 12110 00112222222 123689998888776667777899999999864433
No 199
>PF04016 DUF364: Domain of unknown function (DUF364); InterPro: IPR007161 This is a entry represents of bacterial and archaeal proteins of unknown function.; PDB: 3L5O_B 3NPG_A.
Probab=63.57 E-value=13 Score=29.93 Aligned_cols=80 Identities=14% Similarity=0.111 Sum_probs=46.2
Q ss_pred CCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeecccc-----CCC--ChHHHHHHhCCCCEEEEeCHHHHHHHHHHhcc
Q 024727 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEP-----VHH--VDQTVLKQALSIPVVAVASPSAVRSSWVNLIS 249 (263)
Q Consensus 177 ~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~-----~~~--~~~~~~~~l~~~d~vvFtS~s~v~~~~~~~~~ 249 (263)
++++|.++..-.. +.+.|++.+. ++.+++..+ ... ...+..+.+...|+++.|.++-+.-.+-+++.
T Consensus 10 ~~~~V~~VG~f~P---~~~~l~~~~~---~v~v~d~~~~~~~~~~~~~~~~~~~~~l~~aD~viiTGsTlvN~Ti~~iL~ 83 (147)
T PF04016_consen 10 PGDKVGMVGYFQP---LVEKLKERGA---EVRVFDLNPDNIGEEPGDVPDEDAEEILPWADVVIITGSTLVNGTIDDILE 83 (147)
T ss_dssp TTSEEEEES--HC---CHHHHCCCCS---EEEEEESSGGG--SSCT-EEGGGHHHHGGG-SEEEEECHHCCTTTHHHHHH
T ss_pred CCCEEEEEcCcHH---HHHHHhcCCC---CEEEEECCCCCCCCCCCcCCHHHHHHHHccCCEEEEEeeeeecCCHHHHHH
Confidence 5789998887543 6677776555 556667666 221 12234444679999999999865522222332
Q ss_pred ccCCCCceEEEECC
Q 024727 250 DTEQWSNSVACIAG 263 (263)
Q Consensus 250 ~~~~~~~~i~~IGp 263 (263)
.. .....++-+||
T Consensus 84 ~~-~~~~~vil~Gp 96 (147)
T PF04016_consen 84 LA-RNAREVILYGP 96 (147)
T ss_dssp HT-TTSSEEEEESC
T ss_pred hC-ccCCeEEEEec
Confidence 21 13567777776
No 200
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=63.43 E-value=89 Score=28.24 Aligned_cols=123 Identities=14% Similarity=0.079 Sum_probs=68.6
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HHH--HHHHHHHH-cCCCCcEEEEeCh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AGS--VFLEAWKE-AGTPNVRIGVVGA 136 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV~--~~~~~l~~-~~~~~~~i~aVG~ 136 (263)
-.+..++.|+++..+-+-+. ...+++.+.+. +..+.|.|+.--|- .++ ..++.+.. ...|+..-+-.|
T Consensus 53 k~k~a~~~Gi~~~~~~l~~~---~~~~el~~~i~~lN~d~~V~GIlvq~Plp~~~~~~~i~~~I~p~KDVDGl~~~n~g- 128 (296)
T PRK14188 53 KGKQTKEAGMASFEHKLPAD---TSQAELLALIARLNADPAIHGILVQLPLPKHLDSEAVIQAIDPEKDVDGLHVVNAG- 128 (296)
T ss_pred HHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCcEEEEeCCCCCCCCHHHHHhccCcccccccCChhhHH-
Confidence 34456777988765544222 12334444443 44678899988773 221 12221111 112333333233
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEc-CCCCchhHHHHHHhCCCeee
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPA-SAKASNEIEEGLSNRGFEVV 205 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~-g~~~~~~L~~~L~~~G~~v~ 205 (263)
.|- . |-. .+.| -|+.+.++.|..+. ..|++++++. +..-..-+...|.+.|++|.
T Consensus 129 ----~l~-~------~~~-~~~P--cTp~ai~~ll~~~~i~~~Gk~V~viGrs~~mG~PmA~~L~~~g~tVt 186 (296)
T PRK14188 129 ----RLA-T------GET-ALVP--CTPLGCMMLLRRVHGDLSGLNAVVIGRSNLVGKPMAQLLLAANATVT 186 (296)
T ss_pred ----HHh-C------CCC-CCcC--CCHHHHHHHHHHhCCCCCCCEEEEEcCCcchHHHHHHHHHhCCCEEE
Confidence 221 2 322 2444 47888887777653 4789999998 55555668888989998664
No 201
>PRK06079 enoyl-(acyl carrier protein) reductase; Provisional
Probab=62.47 E-value=41 Score=28.82 Aligned_cols=72 Identities=19% Similarity=0.077 Sum_probs=45.4
Q ss_pred cCCCCCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC--CccEEE--EeCHHHHHH
Q 024727 44 ASASNSNPKVVVTRER---GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT--IFDWII--ITSPEAGSV 116 (263)
Q Consensus 44 ~~~~l~g~~ILitr~~---~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~--~~d~Ii--FTS~~aV~~ 116 (263)
|+..+.|++++||... .=...+++.|.+.|++|+.. .+. ++....+.++. ....+- +|+..+++.
T Consensus 1 ~~~~l~~k~~lItGas~~~gIG~a~a~~la~~G~~Vi~~--~r~------~~~~~~~~~~~~~~~~~~~~Dl~~~~~v~~ 72 (252)
T PRK06079 1 MSGILSGKKIVVMGVANKRSIAWGCAQAIKDQGATVIYT--YQN------DRMKKSLQKLVDEEDLLVECDVASDESIER 72 (252)
T ss_pred CccccCCCEEEEeCCCCCCchHHHHHHHHHHCCCEEEEe--cCc------hHHHHHHHhhccCceeEEeCCCCCHHHHHH
Confidence 3466889999999875 34678999999999997743 221 11122222221 111211 588889988
Q ss_pred HHHHHHH
Q 024727 117 FLEAWKE 123 (263)
Q Consensus 117 ~~~~l~~ 123 (263)
+++.+.+
T Consensus 73 ~~~~~~~ 79 (252)
T PRK06079 73 AFATIKE 79 (252)
T ss_pred HHHHHHH
Confidence 8887654
No 202
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=62.41 E-value=13 Score=28.99 Aligned_cols=51 Identities=16% Similarity=0.204 Sum_probs=35.4
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc-CCCccEEEEeCHHHH
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA-DTIFDWIIITSPEAG 114 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~-l~~~d~IiFTS~~aV 114 (263)
.....+.+.|++.|+++....+.. .|.+.+.+.+++ ...+|.||.|...++
T Consensus 18 ~~~~~l~~~l~~~G~~~~~~~~v~----Dd~~~I~~~l~~~~~~~dliittGG~g~ 69 (135)
T smart00852 18 SNGPALAELLTELGIEVTRYVIVP----DDKEAIKEALREALERADLVITTGGTGP 69 (135)
T ss_pred CcHHHHHHHHHHCCCeEEEEEEeC----CCHHHHHHHHHHHHhCCCEEEEcCCCCC
Confidence 345679999999999988766542 445556666543 256898888876663
No 203
>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=62.35 E-value=45 Score=27.35 Aligned_cols=76 Identities=17% Similarity=0.198 Sum_probs=46.8
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC--CCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeC-h-
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD--TIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVG-A- 136 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l--~~~d~IiFTS~~a-V~~~~~~l~~~~~~~~~i~aVG-~- 136 (263)
.+.+.+.|...|+++... .-..|..-.-.++.-+ +.+|.++..|+.+ ...+...+++. +++++++| +
T Consensus 68 ~~~l~~~l~~~Gf~pv~~-----kG~~Dv~laIDame~~~~~~iD~~vLvSgD~DF~~Lv~~lre~---G~~V~v~g~~~ 139 (160)
T TIGR00288 68 SDKLIEAVVNQGFEPIIV-----AGDVDVRMAVEAMELIYNPNIDAVALVTRDADFLPVINKAKEN---GKETIVIGAEP 139 (160)
T ss_pred cHHHHHHHHHCCceEEEe-----cCcccHHHHHHHHHHhccCCCCEEEEEeccHhHHHHHHHHHHC---CCEEEEEeCCC
Confidence 346888999999996521 1112322222223222 6788877666654 55566666654 67888888 4
Q ss_pred hHHHHHHHh
Q 024727 137 GTASIFEEV 145 (263)
Q Consensus 137 ~Ta~~L~~~ 145 (263)
.|+..|++.
T Consensus 140 ~ts~~L~~a 148 (160)
T TIGR00288 140 GFSTALQNS 148 (160)
T ss_pred CChHHHHHh
Confidence 588888887
No 204
>cd01966 Nitrogenase_NifN_1 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The nifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this nifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=62.24 E-value=73 Score=30.09 Aligned_cols=143 Identities=13% Similarity=0.107 Sum_probs=79.8
Q ss_pred ChHHHHHHHHhCCCcEEEeceEE----------eeeCC-CchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCC
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQ----------HAQGP-DTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPN 128 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~----------~~~~~-~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-~~~~ 128 (263)
.-.++.+.|++.|+++..+|-+. ..+.. -...+++ +.+..+...-+..++.+ ..+.+.+++. +.+-
T Consensus 172 D~~eik~lL~~~Gl~v~~l~d~s~~~d~~~~~~~~~~~~ggt~lee-i~~~~~A~lniv~~~~~-~~~a~~Lee~~GiP~ 249 (417)
T cd01966 172 DVEELKDIIEAFGLEPIILPDLSGSLDGHLADDWSPTTTGGTTLED-IRQMGRSAATLAIGESM-RKAAEALEERTGVPY 249 (417)
T ss_pred HHHHHHHHHHHcCCceEEecCcccccCCCCCCCccccCCCCCcHHH-HHhhccCeEEEEECHHH-HHHHHHHHHHHCCCe
Confidence 45799999999999998887532 01110 0111222 33456666766677765 5666666653 3321
Q ss_pred cEE-EEeCh-hHHHHHHHhhhhcCCCCceeecCCCCC--HHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHhCCC
Q 024727 129 VRI-GVVGA-GTASIFEEVIQSSKCSLDVAFSPSKAT--GKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGF 202 (263)
Q Consensus 129 ~~i-~aVG~-~Ta~~L~~~~~~~~~G~~~~~~p~~~t--~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~~G~ 202 (263)
... .-+|- .|.+.|++.. .+.|..+ |+... -+.+.+.|.+. ...|+++.+..+..-.--+.+.|.+.|.
T Consensus 250 ~~~~~p~G~~~T~~~L~~la--~~~g~~~---~~~i~~er~~~~~~~~d~~~~l~gkrvai~~~~~~~~~l~~~L~ElG~ 324 (417)
T cd01966 250 YVFPSLTGLEAVDALIATLA--KLSGRPV---PEKIRRQRAQLQDAMLDGHFYLGGKRVAIALEPDLLAALSSFLAEMGA 324 (417)
T ss_pred eecCCCcchHHHHHHHHHHH--HHHCCCc---CHHHHHHHHHHHHHHHHHHHHhCCcEEEEEeCHHHHHHHHHHHHHCCC
Confidence 111 12554 5777777651 2225432 32211 11233444332 1357888777665545668888999999
Q ss_pred eeeEEeee
Q 024727 203 EVVRLNTY 210 (263)
Q Consensus 203 ~v~~~~vY 210 (263)
++..+.+.
T Consensus 325 ~~~~~~~~ 332 (417)
T cd01966 325 EIVAAVAT 332 (417)
T ss_pred EEEEEEEC
Confidence 98766553
No 205
>PRK09271 flavodoxin; Provisional
Probab=62.17 E-value=81 Score=25.29 Aligned_cols=38 Identities=13% Similarity=0.156 Sum_probs=24.3
Q ss_pred cCCCccEEEEeCHH--------HHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 99 ADTIFDWIIITSPE--------AGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 99 ~l~~~d~IiFTS~~--------aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
.+.++|.|+|-|+. .+..|++.+......+.+++++|-
T Consensus 48 ~~~~~d~vilgt~T~~~G~~p~~~~~f~~~l~~~~~~~k~~avfgs 93 (160)
T PRK09271 48 DPEDYDLYLLGTWTDNAGRTPPEMKRFIAELAETIGKPPNVAVFGT 93 (160)
T ss_pred CcccCCEEEEECcccCCCcCCHHHHHHHHHHHHHhccCCeEEEEec
Confidence 34678999998842 477788777653333445655554
No 206
>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=62.04 E-value=37 Score=28.28 Aligned_cols=87 Identities=13% Similarity=0.100 Sum_probs=46.6
Q ss_pred CCeEEEeCCCC-------ChHHHHHHHHhCC-CcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHH
Q 024727 50 NPKVVVTRERG-------KNGKLIKALAKHR-IDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLE 119 (263)
Q Consensus 50 g~~ILitr~~~-------~~~~l~~~L~~~G-~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~ 119 (263)
.++|++..... ....+.+.+++.| ..+... +......+ .+.+.+.+....+.|.+++++......+..
T Consensus 118 ~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~ 195 (264)
T cd01537 118 HRRIALLAGPLGSSTARERVAGFKDALKEAGPIEIVLV--QEGDWDAEKGYQAAEELLTAHPDPTAIFAANDDMALGALR 195 (264)
T ss_pred CCcEEEEECCCCCCcHHHHHHHHHHHHHHcCCcChhhh--ccCCCCHHHHHHHHHHHHhcCCCCCEEEEcCcHHHHHHHH
Confidence 45677654321 1355666777777 222211 11111001 123444443334588999888666666777
Q ss_pred HHHHcCC---CCcEEEEeChhH
Q 024727 120 AWKEAGT---PNVRIGVVGAGT 138 (263)
Q Consensus 120 ~l~~~~~---~~~~i~aVG~~T 138 (263)
.+.+.+. .++.+++.+...
T Consensus 196 ~~~~~g~~i~~~i~i~~~d~~~ 217 (264)
T cd01537 196 ALREAGLRVPDDISVIGFDGTP 217 (264)
T ss_pred HHHHhCCCCCCCeEEEeecCcc
Confidence 7777765 366777766443
No 207
>PRK08265 short chain dehydrogenase; Provisional
Probab=62.02 E-value=92 Score=26.67 Aligned_cols=71 Identities=15% Similarity=0.026 Sum_probs=41.4
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEE--EEeCHHHHHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWI--IITSPEAGSVFLEAW 121 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~-~~d~I--iFTS~~aV~~~~~~l 121 (263)
..+.+++++||....+ ...+++.|.+.|++|...- + +.+.+++....++ ....+ =+++...++.+++.+
T Consensus 2 ~~~~~k~vlItGas~gIG~~ia~~l~~~G~~V~~~~--r-----~~~~~~~~~~~~~~~~~~~~~Dl~~~~~~~~~~~~~ 74 (261)
T PRK08265 2 IGLAGKVAIVTGGATLIGAAVARALVAAGARVAIVD--I-----DADNGAAVAASLGERARFIATDITDDAAIERAVATV 74 (261)
T ss_pred CCCCCCEEEEECCCChHHHHHHHHHHHCCCEEEEEe--C-----CHHHHHHHHHHhCCeeEEEEecCCCHHHHHHHHHHH
Confidence 3467899999987544 5689999999999776441 1 1112222222221 11111 136777887777765
Q ss_pred HH
Q 024727 122 KE 123 (263)
Q Consensus 122 ~~ 123 (263)
.+
T Consensus 75 ~~ 76 (261)
T PRK08265 75 VA 76 (261)
T ss_pred HH
Confidence 44
No 208
>PRK12742 oxidoreductase; Provisional
Probab=61.90 E-value=55 Score=27.30 Aligned_cols=33 Identities=9% Similarity=0.119 Sum_probs=25.9
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEE
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLE 78 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~ 78 (263)
.++.|++||||....+ ...+++.|.+.|+++..
T Consensus 2 ~~~~~k~vlItGasggIG~~~a~~l~~~G~~v~~ 35 (237)
T PRK12742 2 GAFTGKKVLVLGGSRGIGAAIVRRFVTDGANVRF 35 (237)
T ss_pred CCCCCCEEEEECCCChHHHHHHHHHHHCCCEEEE
Confidence 3577999999987544 46789999999998763
No 209
>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=61.78 E-value=22 Score=30.12 Aligned_cols=72 Identities=11% Similarity=0.039 Sum_probs=42.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCC--CchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGP--DTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~--~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
-+.+.|+++|.++.. .+...... ..+.+.+.++.....|+|++++......+++.+.+.+. +++.+++.+..
T Consensus 138 gf~~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~~p~di~v~g~d~~ 214 (266)
T cd06282 138 GYRAAMRAAGLAPLP--PVEIPFNTAALPSALLALLTAHPAPTAIFCSNDLLALAVIRALRRLGLRVPDDLSVVGFDGI 214 (266)
T ss_pred HHHHHHHHcCCCCCc--cccCCCcHHHHHHHHHHHhcCCCCCCEEEECCcHHHHHHHHHHHHcCCCCCCceEEEeecch
Confidence 345677778865432 11111111 12334444433346899999998887788888888875 36667777653
No 210
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=61.71 E-value=47 Score=26.69 Aligned_cols=72 Identities=14% Similarity=0.049 Sum_probs=51.3
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCC-----chhHHHHHHhCCCeeeEEeeec
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~~~vY~ 211 (263)
..+.+|++. ||.+++.+...+.++.+....+. +-.++.+++-.+ -+.+.+.|++.|.+-..+.+=-
T Consensus 31 via~~l~d~------GfeVi~~g~~~tp~e~v~aA~~~---dv~vIgvSsl~g~h~~l~~~lve~lre~G~~~i~v~~GG 101 (143)
T COG2185 31 VIARALADA------GFEVINLGLFQTPEEAVRAAVEE---DVDVIGVSSLDGGHLTLVPGLVEALREAGVEDILVVVGG 101 (143)
T ss_pred HHHHHHHhC------CceEEecCCcCCHHHHHHHHHhc---CCCEEEEEeccchHHHHHHHHHHHHHHhCCcceEEeecC
Confidence 467888998 99998888888888888776543 356666666554 3667888999998765555545
Q ss_pred cccCCC
Q 024727 212 TEPVHH 217 (263)
Q Consensus 212 ~~~~~~ 217 (263)
.+++++
T Consensus 102 vip~~d 107 (143)
T COG2185 102 VIPPGD 107 (143)
T ss_pred ccCchh
Confidence 555444
No 211
>PRK09739 hypothetical protein; Provisional
Probab=61.45 E-value=25 Score=29.32 Aligned_cols=57 Identities=14% Similarity=0.286 Sum_probs=37.6
Q ss_pred hhHHHHHHhCCCeeeEEeeeccccC------------------CCChHHHHHHhCCCCEEEEeCH-------HHHHHHHH
Q 024727 191 NEIEEGLSNRGFEVVRLNTYTTEPV------------------HHVDQTVLKQALSIPVVAVASP-------SAVRSSWV 245 (263)
Q Consensus 191 ~~L~~~L~~~G~~v~~~~vY~~~~~------------------~~~~~~~~~~l~~~d~vvFtS~-------s~v~~~~~ 245 (263)
+.+.+.+++.|.+|+.+.+|+.... .....++.+.+...|.|+|.+| ..++ .|+
T Consensus 24 ~~~~~~~~~~g~~v~~~dL~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~AD~iV~~~P~y~~~~Pa~LK-~~i 102 (199)
T PRK09739 24 EAIHQRAQERGHQVEELDLYRSGFDPVLTPEDEPDWKNPDKRYSPEVHQLYSELLEHDALVFVFPLWWYSFPAMLK-GYI 102 (199)
T ss_pred HHHHHHHHHCCCEEEEEEhhhhCCCCCCCHHHhhhhcccCCCCCHHHHHHHHHHHhCCEEEEECchhhhcchHHHH-HHH
Confidence 4456677778888888888874321 0111234455679999999997 5677 777
Q ss_pred Hhc
Q 024727 246 NLI 248 (263)
Q Consensus 246 ~~~ 248 (263)
+.+
T Consensus 103 D~v 105 (199)
T PRK09739 103 DRV 105 (199)
T ss_pred HHH
Confidence 764
No 212
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=61.12 E-value=87 Score=29.66 Aligned_cols=140 Identities=13% Similarity=0.051 Sum_probs=73.6
Q ss_pred hHHHHHHHHhCCCcEEEeceEE------------eee-CCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCC
Q 024727 62 NGKLIKALAKHRIDCLELPLIQ------------HAQ-GPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTP 127 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~------------~~~-~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~-~~~~ 127 (263)
.+++.+.|++.|+++..+|-+. ..+ -...++ +++..+...-+..++..-..+.+.+++ .+.+
T Consensus 176 ~~el~~lL~~~Gl~~~~~~d~s~~~d~~~~~~~~~~~gg~~~~~----i~~~~~A~~niv~~~~~~~~~a~~Le~~~giP 251 (435)
T cd01974 176 MREIKRLLELMGVDYTILPDTSDVLDTPADGEYRMYPGGTTLEE----LKDAGNAKATLALQEYATEKTAKFLEKKCKVP 251 (435)
T ss_pred HHHHHHHHHHcCCCEEEecccccccCCCCCCCccccCCCCCHHH----HHhhccCcEEEEECccccHHHHHHHHHHhCCC
Confidence 6899999999999998664211 111 111222 234556666666666544455556655 4332
Q ss_pred CcEE-EEeC-hhHHHHHHHhhhhcCCCCceeecCCCC--CHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHhCC
Q 024727 128 NVRI-GVVG-AGTASIFEEVIQSSKCSLDVAFSPSKA--TGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRG 201 (263)
Q Consensus 128 ~~~i-~aVG-~~Ta~~L~~~~~~~~~G~~~~~~p~~~--t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~~G 201 (263)
-... +-+| ..|.+.+++.. ...|..+ |+.. .-+.+.+.+.+. ...|+++.+..+..-.--+.+.|.+.|
T Consensus 252 ~~~~~~p~G~~~t~~~l~~l~--~~~g~~~---~~~i~~er~~~~~~~~~~~~~l~gkrv~i~g~~~~~~~la~~L~elG 326 (435)
T cd01974 252 VETLNMPIGVAATDEFLMALS--ELTGKPI---PEELEEERGRLVDAMTDSHQYLHGKKFALYGDPDFLIGLTSFLLELG 326 (435)
T ss_pred eeecCCCcChHHHHHHHHHHH--HHhCCCC---CHHHHHHHHHHHHHHHHHHHhcCCCEEEEEcChHHHHHHHHHHHHCC
Confidence 1111 1233 23455555441 1115432 1111 111233444432 135788887765544455678899999
Q ss_pred CeeeEEeee
Q 024727 202 FEVVRLNTY 210 (263)
Q Consensus 202 ~~v~~~~vY 210 (263)
.++..+.++
T Consensus 327 m~v~~~~~~ 335 (435)
T cd01974 327 MEPVHVLTG 335 (435)
T ss_pred CEEEEEEeC
Confidence 999666553
No 213
>PRK07308 flavodoxin; Validated
Probab=61.11 E-value=27 Score=27.45 Aligned_cols=74 Identities=19% Similarity=0.130 Sum_probs=42.2
Q ss_pred eEEEeCCCCChHHHHH----HHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--------HHHHHHH
Q 024727 52 KVVVTRERGKNGKLIK----ALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--------AGSVFLE 119 (263)
Q Consensus 52 ~ILitr~~~~~~~l~~----~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--------aV~~~~~ 119 (263)
.|+........+++++ .|++.|..+...++-.. +. ..+.++|.|+|-|+. .+..|++
T Consensus 5 ~IvY~S~tGnTe~iA~~ia~~l~~~g~~~~~~~~~~~----~~-------~~l~~~d~vi~g~~t~g~G~~p~~~~~fl~ 73 (146)
T PRK07308 5 KIVYASMTGNTEEIADIVADKLRELGHDVDVDECTTV----DA-------SDFEDADIAIVATYTYGDGELPDEIVDFYE 73 (146)
T ss_pred EEEEECCCchHHHHHHHHHHHHHhCCCceEEEecccC----CH-------hHhccCCEEEEEeCccCCCCCCHHHHHHHH
Confidence 4555544445555554 45566776553322111 11 124678888887754 3566777
Q ss_pred HHHHcCCCCcEEEEeCh
Q 024727 120 AWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 120 ~l~~~~~~~~~i~aVG~ 136 (263)
.+....+.+.+++++|-
T Consensus 74 ~l~~~~l~~k~~~vfG~ 90 (146)
T PRK07308 74 DLADLDLSGKIYGVVGS 90 (146)
T ss_pred HHhcCCCCCCEEEEEee
Confidence 66665556778877776
No 214
>PRK14476 nitrogenase molybdenum-cofactor biosynthesis protein NifN; Provisional
Probab=60.89 E-value=93 Score=29.79 Aligned_cols=144 Identities=16% Similarity=0.108 Sum_probs=81.0
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEe------------eeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CC
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQH------------AQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GT 126 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~------------~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-~~ 126 (263)
..-+++.+.|+..|+++..+|-+.- .+.-+ ..+++ +++..+...-|..++.+ ..+.+.+++. +.
T Consensus 182 ~D~~elk~lL~~~Gl~v~~lpd~s~~ld~~l~~~~~~~~~gg-~t~ee-i~~~~~A~lniv~~~~~-~~~a~~Lee~~Gi 258 (455)
T PRK14476 182 GDIEELREIIEAFGLEPIILPDLSGSLDGHLPDDWTPTTLGG-TTLEE-IRELGRSAATIAIGESM-RKAAEALEARTGV 258 (455)
T ss_pred ccHHHHHHHHHHcCCceEEecCccccccCCCCCcccccCCCC-CCHHH-HHhhccCcEEEEecHHH-HHHHHHHHHHhCC
Confidence 4568999999999999988875431 11111 12222 23456666766677764 4666667653 33
Q ss_pred CCcEE-EEeCh-hHHHHHHHhhhhcCCCCceeecCCCCC--HHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHhC
Q 024727 127 PNVRI-GVVGA-GTASIFEEVIQSSKCSLDVAFSPSKAT--GKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNR 200 (263)
Q Consensus 127 ~~~~i-~aVG~-~Ta~~L~~~~~~~~~G~~~~~~p~~~t--~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~~ 200 (263)
+-... .-+|- .|.+.|++.. .+.|..+ |+... -..+.+.|.+. ...|+++.+..+....--|.+.|.+.
T Consensus 259 P~~~~~~p~G~~~t~~~l~~l~--~~~g~~~---~~~i~~er~~~~~~~~d~~~~l~gkrvai~~~~~~~~~la~~L~el 333 (455)
T PRK14476 259 PYLVFPSLTGLEAVDRFIATLA--QISGRPV---PAKYRRQRAQLQDAMLDGHFYFGGKRVAIAAEPDLLLALGSFLAEM 333 (455)
T ss_pred CeEecCCCcChHHHHHHHHHHH--HHHCCCC---cHHHHHHHHHHHHHHHHHHHHhcCCEEEEEeCHHHHHHHHHHHHHC
Confidence 21111 11554 5666666651 1225322 21110 11233333332 13578888776665556688899999
Q ss_pred CCeeeEEeeec
Q 024727 201 GFEVVRLNTYT 211 (263)
Q Consensus 201 G~~v~~~~vY~ 211 (263)
|.++..+.++.
T Consensus 334 G~~v~~~~~~~ 344 (455)
T PRK14476 334 GAEIVAAVTTT 344 (455)
T ss_pred CCEEEEEEeCC
Confidence 99998777654
No 215
>PRK06849 hypothetical protein; Provisional
Probab=60.79 E-value=66 Score=29.72 Aligned_cols=90 Identities=16% Similarity=0.133 Sum_probs=52.4
Q ss_pred CCCeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEE--------------ee--eCCCc----hHHHHHHhcCCCccEEE
Q 024727 49 SNPKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQ--------------HA--QGPDT----DRLSSVLNADTIFDWII 107 (263)
Q Consensus 49 ~g~~ILitr~~~-~~~~l~~~L~~~G~~v~~~p~~~--------------~~--~~~~~----~~l~~~l~~l~~~d~Ii 107 (263)
.+++||||.... ..-.+++.|.++|++|+.+-.-. .. |..+. +.+.+.++ -.++|.||
T Consensus 3 ~~~~VLI~G~~~~~~l~iar~l~~~G~~Vi~~d~~~~~~~~~s~~~d~~~~~p~p~~d~~~~~~~L~~i~~-~~~id~vI 81 (389)
T PRK06849 3 TKKTVLITGARAPAALELARLFHNAGHTVILADSLKYPLSRFSRAVDGFYTIPSPRWDPDAYIQALLSIVQ-RENIDLLI 81 (389)
T ss_pred CCCEEEEeCCCcHHHHHHHHHHHHCCCEEEEEeCCchHHHHHHHhhhheEEeCCCCCCHHHHHHHHHHHHH-HcCCCEEE
Confidence 468999998765 35689999999999998653221 11 11121 22333332 25689999
Q ss_pred EeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024727 108 ITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (263)
Q Consensus 108 FTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (263)
-|+... .+.....+.-.+...+.+-++.+.+.
T Consensus 82 P~~e~~--~~~a~~~~~l~~~~~v~~~~~~~~~~ 113 (389)
T PRK06849 82 PTCEEV--FYLSHAKEELSAYCEVLHFDFELLLL 113 (389)
T ss_pred ECChHH--HhHHhhhhhhcCCcEEEcCCHHHHHH
Confidence 998754 33333222222355666666665544
No 216
>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=60.76 E-value=38 Score=30.19 Aligned_cols=68 Identities=21% Similarity=0.190 Sum_probs=41.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHH-HHHHHHHHHHHcCCCCcEEEE
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPE-AGSVFLEAWKEAGTPNVRIGV 133 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~-aV~~~~~~l~~~~~~~~~i~a 133 (263)
+.+.+.++++|+++.....+... ..+. ..+.+.. . .++|+|++.+.. ....+++.+.+.+++...+..
T Consensus 151 ~~~~~~~~~~G~~v~~~~~~~~~-~~d~~~~~~~i~-~-~~pdaV~~~~~~~~a~~~~~~~~~~G~~~~~~~~ 220 (341)
T cd06341 151 ALLARSLAAAGVSVAGIVVITAT-APDPTPQAQQAA-A-AGADAIITVLDAAVCASVLKAVRAAGLTPKVVLS 220 (341)
T ss_pred HHHHHHHHHcCCccccccccCCC-CCCHHHHHHHHH-h-cCCCEEEEecChHHHHHHHHHHHHcCCCCCEEEe
Confidence 45677888889887665444332 1232 3333332 2 468999888766 667777888887765333333
No 217
>TIGR01278 DPOR_BchB light-independent protochlorophyllide reductase, B subunit. This enzyme describes the B subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme. This subunit shows homology to the nitrogenase molybdenum-iron protein. It catalyzes a step in bacteriochlorophyll biosynthesis.
Probab=60.34 E-value=1.7e+02 Score=28.43 Aligned_cols=135 Identities=18% Similarity=0.126 Sum_probs=78.0
Q ss_pred ChHHHHHHHHhCCCcEEEe-ceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCCCcEEEEeC-hh
Q 024727 61 KNGKLIKALAKHRIDCLEL-PLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTPNVRIGVVG-AG 137 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~-p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~-~~~~~~~i~aVG-~~ 137 (263)
...++.+.|++.|+++..+ |. -...++ +.++.+.+.-|..++..-....+.+++ .+.+-+...=+| ..
T Consensus 176 D~~elkrlL~~lGi~vn~v~p~-----g~s~~d----l~~l~~A~~NIv~~~~~g~~~A~~Le~~fGiP~i~~~PiG~~~ 246 (511)
T TIGR01278 176 DLIELRRLLKTLGIEVNVVAPW-----GASIAD----LARLPAAWLNICPYREIGLMAAEYLKEKFGQPYITTTPIGVNA 246 (511)
T ss_pred HHHHHHHHHHHCCCeEEEEeCC-----CCCHHH----HHhcccCcEEEEechHHHHHHHHHHHHHhCCCcccccccCHHH
Confidence 4579999999999999765 42 112232 334566677676676555556666654 344323234456 45
Q ss_pred HHHHHHHhhhh-cCCCCceeecCCCCCHHHHHH----------H---hcc-CCCCCcEEEEEcCCCCchhHHHHHH-hCC
Q 024727 138 TASIFEEVIQS-SKCSLDVAFSPSKATGKILAS----------E---LPK-NGKKKCTVLYPASAKASNEIEEGLS-NRG 201 (263)
Q Consensus 138 Ta~~L~~~~~~-~~~G~~~~~~p~~~t~e~L~~----------~---l~~-~~~~~~~vL~~~g~~~~~~L~~~L~-~~G 201 (263)
|.+.|++..+. ...|..+. .+.+++ . +.+ ....|+++.+..+..-.--+...|. +.|
T Consensus 247 T~~fL~~l~~~~~~~g~~~~-------~e~~i~~e~~~~~~~~~~~r~~d~~~l~Gkrv~I~gd~~~a~~l~~~L~~ElG 319 (511)
T TIGR01278 247 TRRFIREIAALLNQAGADPY-------YESFILDGLSAVSQAAWFARSIDSQSLTGKRAFVFGDATHAVGMTKILARELG 319 (511)
T ss_pred HHHHHHHHHHHHhhcCCCCc-------HHHHHHhhhhhhhhHHHHHhhhhhHHhcCCeEEEEcCcHHHHHHHHHHHHhCC
Confidence 77777776210 00133221 111110 0 111 1235789988887766667788897 899
Q ss_pred CeeeEEeeec
Q 024727 202 FEVVRLNTYT 211 (263)
Q Consensus 202 ~~v~~~~vY~ 211 (263)
++|.....|.
T Consensus 320 ~~vv~~gt~~ 329 (511)
T TIGR01278 320 IHIVGAGTYC 329 (511)
T ss_pred CEEEecCCch
Confidence 9986665554
No 218
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=60.29 E-value=59 Score=28.70 Aligned_cols=86 Identities=13% Similarity=0.112 Sum_probs=48.8
Q ss_pred CCeEEEeCCCC-------ChHHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024727 50 NPKVVVTRERG-------KNGKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (263)
Q Consensus 50 g~~ILitr~~~-------~~~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~ 120 (263)
.++|++..+.. ...-+.+.++++|..+.. .+......+ .+.++..+.....+|+|++++-......++.
T Consensus 179 ~r~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~~~a 256 (328)
T PRK11303 179 AESILLLGALPELSVSFEREQGFRQALKDDPREVHY--LYANSFEREAGAQLFEKWLETHPMPDALFTTSYTLLQGVLDV 256 (328)
T ss_pred CCeEEEEeCccccccHHHHHHHHHHHHHHcCCCceE--EEeCCCChHHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHH
Confidence 45677664321 124466788888875422 111110001 1234445533346899999887777677777
Q ss_pred HHHcCC---CCcEEEEeChh
Q 024727 121 WKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 121 l~~~~~---~~~~i~aVG~~ 137 (263)
+.+.+. +++.|++.+..
T Consensus 257 l~~~g~~vP~disv~gfd~~ 276 (328)
T PRK11303 257 LLERPGELPSDLAIATFGDN 276 (328)
T ss_pred HHHcCCCCCCceEEEEeCCh
Confidence 777764 36777777654
No 219
>PLN02409 serine--glyoxylate aminotransaminase
Probab=59.98 E-value=79 Score=29.37 Aligned_cols=61 Identities=11% Similarity=-0.063 Sum_probs=35.9
Q ss_pred CCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhC-----CCCEEEEeCH
Q 024727 175 GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL-----SIPVVAVASP 237 (263)
Q Consensus 175 ~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~-----~~d~vvFtS~ 237 (263)
..+|++|++.....-...+.+.++..|+++..++.-.... .+.+++.+.+. +..+|+++++
T Consensus 81 ~~~Gd~Vlv~~~~~~~~~~~~~~~~~g~~v~~v~~~~~~~--~~~~~l~~~l~~~~~~~~k~v~~~~~ 146 (401)
T PLN02409 81 LSPGDKVVSFRIGQFSLLWIDQMQRLNFDVDVVESPWGQG--ADLDILKSKLRQDTNHKIKAVCVVHN 146 (401)
T ss_pred CCCCCEEEEeCCCchhHHHHHHHHHcCCceEEEECCCCCC--CCHHHHHHHHhhCcCCCccEEEEEee
Confidence 3467888888854444444566777888887776532111 22344444442 4677888765
No 220
>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=59.54 E-value=1.3e+02 Score=28.64 Aligned_cols=142 Identities=10% Similarity=0.064 Sum_probs=78.8
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHH---HHhcCCCccEEEEeCHHHH--HHHHHHHHHcCC-------C
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSS---VLNADTIFDWIIITSPEAG--SVFLEAWKEAGT-------P 127 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~---~l~~l~~~d~IiFTS~~aV--~~~~~~l~~~~~-------~ 127 (263)
....++.+.|++.|++++..|... .+.+..++ .++. .+.|.||+.-.+-- +.+...++..+. .
T Consensus 23 ~~~~~~~~~l~~~~~~vv~~~~~~----~~~~~~~~~~~~~~~-~~~d~ii~~~~tf~~~~~~~~~~~~~~~Pvll~a~~ 97 (452)
T cd00578 23 EYAREVADLLNELPVEVVDKPEVT----GTPDEARKAAEEFNE-ANCDGLIVWMHTFGPAKMWIAGLSELRKPVLLLATQ 97 (452)
T ss_pred HHHHHHHHHHhcCCceEEecCccc----CCHHHHHHHHHHHhh-cCCcEEEEcccccccHHHHHHHHHhcCCCEEEEeCC
Confidence 346778888988899999988664 22233333 3323 37898887333221 223333333221 1
Q ss_pred C---------cEEEEeC-hhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccC--------CCCCcEEEEEcCCCC
Q 024727 128 N---------VRIGVVG-AGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN--------GKKKCTVLYPASAKA 189 (263)
Q Consensus 128 ~---------~~i~aVG-~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~--------~~~~~~vL~~~g~~~ 189 (263)
. ..-...| ..+...|++. |+...++-.....+...+.|.++ ..++.||..+.+.-.
T Consensus 98 ~~~~~~~~~~~~~s~~g~~~~~~~l~r~------gi~~~~v~g~~~d~~~~~~i~~~~raa~~~~~lr~~rig~iG~~~~ 171 (452)
T cd00578 98 FNREIPDFMNLNQSACGLREFGNILARL------GIPFKVVYGHWKDEDVLRKIESWARAAAAVATLRGLRVGRFGDRMR 171 (452)
T ss_pred CCCCCCchhhhhcchhhhHHHHHHHHHc------CCceeEEECCCCCHHHHHHHHHHHHHHHHHHHhhcCceEEECCCcC
Confidence 1 0112223 3467888888 99876543222224444444443 135788988876522
Q ss_pred -----chhHHHHHHhCCCeeeEEeeecc
Q 024727 190 -----SNEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 190 -----~~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
..+..+.++.-|++|..+.+.+-
T Consensus 172 ~~~~~~~d~~~~~~~fG~~v~~i~~~el 199 (452)
T cd00578 172 GMAVTEGDKVLAQIKFGVSVEYLEVGEL 199 (452)
T ss_pred CcEEecCCHHHHHHhhCeEEEEEcHHHH
Confidence 11223456777999999988753
No 221
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=59.47 E-value=21 Score=27.22 Aligned_cols=71 Identities=14% Similarity=0.094 Sum_probs=36.5
Q ss_pred CCeEEEeCCCCC------hHHHHHHHHhCCCcEEEeceEEeeeCC-CchHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024727 50 NPKVVVTRERGK------NGKLIKALAKHRIDCLELPLIQHAQGP-DTDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (263)
Q Consensus 50 g~~ILitr~~~~------~~~l~~~L~~~G~~v~~~p~~~~~~~~-~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~ 120 (263)
=++|+..||... .+.+.+..+++|...+++|+-.-.+.. +.+.+.+.+..+...-++.+-|.+=+..++.+
T Consensus 28 fktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra~~l~~l 105 (110)
T PF04273_consen 28 FKTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGAITEEDVEAFADALESLPKPVLAHCRSGTRASALWAL 105 (110)
T ss_dssp --EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT--HHHHHHHHHHHHTTTTSEEEE-SCSHHHHHHHHH
T ss_pred CcEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEECCCChhHHHHHHH
Confidence 357888898742 234678889999999999997543221 12344555655555666666666655555543
No 222
>PRK12481 2-deoxy-D-gluconate 3-dehydrogenase; Provisional
Probab=59.37 E-value=1.1e+02 Score=26.00 Aligned_cols=72 Identities=11% Similarity=0.055 Sum_probs=44.7
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccE--EEEeCHHHHHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDW--IIITSPEAGSVFLEAW 121 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~-~~d~--IiFTS~~aV~~~~~~l 121 (263)
..+.|+++|||....+ ...+++.|.+.|+++...- + ...+.....++..+ ++.+ +=+++...++.+++.+
T Consensus 4 ~~l~~k~~lItGas~gIG~aia~~l~~~G~~vv~~~--~----~~~~~~~~~~~~~~~~~~~~~~Dl~~~~~~~~~~~~~ 77 (251)
T PRK12481 4 FDLNGKVAIITGCNTGLGQGMAIGLAKAGADIVGVG--V----AEAPETQAQVEALGRKFHFITADLIQQKDIDSIVSQA 77 (251)
T ss_pred cccCCCEEEEeCCCchHHHHHHHHHHHCCCEEEEec--C----chHHHHHHHHHHcCCeEEEEEeCCCCHHHHHHHHHHH
Confidence 3577999999987654 5679999999999987531 1 11122233332222 2222 2247888898888776
Q ss_pred HH
Q 024727 122 KE 123 (263)
Q Consensus 122 ~~ 123 (263)
.+
T Consensus 78 ~~ 79 (251)
T PRK12481 78 VE 79 (251)
T ss_pred HH
Confidence 54
No 223
>TIGR00521 coaBC_dfp phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase, prokaryotic. This model represents a bifunctional enzyme that catalyzes the second and third steps (cysteine ligation, EC 6.3.2.5, and decarboxylation, EC 4.1.1.36) in the biosynthesis of coenzyme A (CoA) from pantothenate in bacteria. In early descriptions of this flavoprotein, a ts mutation in one region of the protein appeared to cause a defect in DNA metaobolism rather than an increased need for the pantothenate precursor beta-alanine. This protein was then called dfp, for DNA/pantothenate metabolism flavoprotein. The authors responsible for detecting phosphopantothenate--cysteine ligase activity suggest renaming this bifunctional protein coaBC for its role in CoA biosynthesis. This enzyme contains the FMN cofactor, but no FAD or pyruvoyl group. The amino-terminal region contains the phosphopantothenoylcysteine decarboxylase activity.
Probab=59.32 E-value=42 Score=31.56 Aligned_cols=34 Identities=18% Similarity=0.106 Sum_probs=27.3
Q ss_pred CCCCCCeEEEeCCCC-----------------ChHHHHHHHHhCCCcEEEe
Q 024727 46 ASNSNPKVVVTRERG-----------------KNGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 46 ~~l~g~~ILitr~~~-----------------~~~~l~~~L~~~G~~v~~~ 79 (263)
+++.|++||||.... -...+++.|..+|++|..+
T Consensus 181 ~~~~~~~vlit~g~t~E~iD~VR~itN~SSG~~g~~~a~~~~~~Ga~V~~~ 231 (390)
T TIGR00521 181 EDLEGKRVLITAGPTREPIDPVRFISNLSSGKMGLALAEAAYKRGADVTLI 231 (390)
T ss_pred cccCCceEEEecCCccCCCCceeeecCCCcchHHHHHHHHHHHCCCEEEEe
Confidence 458899999997732 3568999999999998864
No 224
>cd01965 Nitrogenase_MoFe_beta_like Nitrogenase_MoFe_beta_like: Nitrogenase MoFe protein, beta subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. This group contains the beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (Fe
Probab=59.30 E-value=1.6e+02 Score=27.75 Aligned_cols=143 Identities=14% Similarity=0.102 Sum_probs=79.2
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEe----------eeCC-CchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCCC
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQH----------AQGP-DTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTPN 128 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~~----------~~~~-~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~-~~~~~ 128 (263)
..+++.+.|++.|+++..+|.+.. .+.+ ....+++ ++++.+...-+..++..-..+.+.+++ .+.+-
T Consensus 170 d~~el~~lL~~~Gl~v~~~~~~s~~~d~~~~~~~~~~~~gg~~~e~-i~~~~~A~lniv~~~~~~~~~a~~L~e~~GiP~ 248 (428)
T cd01965 170 DVREIKRILEAFGLEPIILPDLSDSLDGHLTDGYSPLTKGGTTLEE-IRDAGNAKATIALGEYSGRKAAKALEEKFGVPY 248 (428)
T ss_pred CHHHHHHHHHHcCCCEEEecCcccccCCCCCCCccccCCCCCcHHH-HHHhccCcEEEEEChhhhHHHHHHHHHHHCCCe
Confidence 468999999999999998876511 0000 0112222 335677778888888444555666665 43331
Q ss_pred cEEE-EeC-hhHHHHHHHhhhhcCCCCceeecCCCCC--HHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHhCCC
Q 024727 129 VRIG-VVG-AGTASIFEEVIQSSKCSLDVAFSPSKAT--GKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGF 202 (263)
Q Consensus 129 ~~i~-aVG-~~Ta~~L~~~~~~~~~G~~~~~~p~~~t--~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~~G~ 202 (263)
...- -+| ..|.+.|++.. ...|... |+... -+.+++.+.+. ...|+++.+..+....--+...|.+.|.
T Consensus 249 ~~~~~p~G~~~t~~~l~~l~--~~~g~~~---~~~~~~~r~~~~~~~~~~~~~l~gk~v~i~~~~~~~~~l~~~L~e~G~ 323 (428)
T cd01965 249 ILFPTPIGLKATDEFLRALS--KLSGKPI---PEELERERGRLLDAMLDSHFYLGGKRVAIAGDPDLLLGLSRFLLEMGA 323 (428)
T ss_pred eecCCCcChHHHHHHHHHHH--HHHCCCC---CHHHHHHHHHHHHHHHHHHHHhcCCEEEEEcChHHHHHHHHHHHHcCC
Confidence 2111 355 34556665541 1114432 21110 01122222221 2367899888665555568889999999
Q ss_pred eeeEEee
Q 024727 203 EVVRLNT 209 (263)
Q Consensus 203 ~v~~~~v 209 (263)
.+..+.+
T Consensus 324 ~v~~v~~ 330 (428)
T cd01965 324 EPVAAVT 330 (428)
T ss_pred cceEEEE
Confidence 9876655
No 225
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=59.27 E-value=28 Score=32.70 Aligned_cols=60 Identities=12% Similarity=0.148 Sum_probs=47.2
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEe
Q 024727 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIIT 109 (263)
Q Consensus 49 ~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFT 109 (263)
.|.+||+.....-.+.+.+.++.+|+++..+-.=--++ .+.+++++.|.+.++++.|.+|
T Consensus 79 pgdkVLv~~nG~FG~R~~~ia~~~g~~v~~~~~~wg~~-v~p~~v~~~L~~~~~~~~V~~v 138 (383)
T COG0075 79 PGDKVLVVVNGKFGERFAEIAERYGAEVVVLEVEWGEA-VDPEEVEEALDKDPDIKAVAVV 138 (383)
T ss_pred CCCeEEEEeCChHHHHHHHHHHHhCCceEEEeCCCCCC-CCHHHHHHHHhcCCCccEEEEE
Confidence 48899999988888999999999999998765432222 2467788888766788888886
No 226
>PLN02891 IMP cyclohydrolase
Probab=59.06 E-value=1.3e+02 Score=29.54 Aligned_cols=130 Identities=17% Similarity=0.188 Sum_probs=77.0
Q ss_pred cEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCH-HHHH----HHhccCCCCC
Q 024727 104 DWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATG-KILA----SELPKNGKKK 178 (263)
Q Consensus 104 d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~-e~L~----~~l~~~~~~~ 178 (263)
-.|=.+-..++.-|.+.|.+. +..|++-| .|++.|++. |+.+.-+.+ +|. .+++ +.|-- .-.
T Consensus 25 ALISVsDKtgi~~fAk~L~~~---gveIiSTg-GTak~L~e~------Gi~v~~Vsd-~TgfPEiL~GRVKTLHP--kIh 91 (547)
T PLN02891 25 ALISLSDKTDLALLANGLQEL---GYTIVSTG-GTASALEAA------GVSVTKVEE-LTNFPEMLDGRVKTLHP--AVH 91 (547)
T ss_pred EEEEEecccCHHHHHHHHHHC---CCEEEEcc-hHHHHHHHc------CCceeeHHh-ccCCchhhCCcccccCc--hhh
Confidence 345567788999999988876 67899998 699999999 998855443 322 2222 11110 001
Q ss_pred cEEEEEcCCCCchhHHHHHHhCCCeee---EEeeec---cccC-CCChHHHHHHh------------C-CCCEEEEeCHH
Q 024727 179 CTVLYPASAKASNEIEEGLSNRGFEVV---RLNTYT---TEPV-HHVDQTVLKQA------------L-SIPVVAVASPS 238 (263)
Q Consensus 179 ~~vL~~~g~~~~~~L~~~L~~~G~~v~---~~~vY~---~~~~-~~~~~~~~~~l------------~-~~d~vvFtS~s 238 (263)
+-||.-|.+ +.=.+.|+++|+.-. .+..|- ++.. ....+++++.+ + .-++.+.++|.
T Consensus 92 gGILa~r~~---~~h~~~l~~~~I~~IDlVvVNLYPF~~tv~~~~~~~ee~IEnIDIGGpsmlRAAAKN~~~V~Vv~dP~ 168 (547)
T PLN02891 92 GGILARRDQ---EHHMEALNEHGIGTIDVVVVNLYPFYDTVTSGGISFEDGVENIDIGGPAMIRAAAKNHKDVLVVVDPA 168 (547)
T ss_pred hhhhcCCCC---HHHHHHHHHcCCCceeeEEEeccChHHHHhcCCCCHHHHHHhccCCcHHHHHHHHhCCCCeEEECCHH
Confidence 223333332 223356788887543 444563 2221 11223333332 2 45899999999
Q ss_pred HHHHHHHHhccc
Q 024727 239 AVRSSWVNLISD 250 (263)
Q Consensus 239 ~v~~~~~~~~~~ 250 (263)
..+ .+++.+..
T Consensus 169 DY~-~vl~el~~ 179 (547)
T PLN02891 169 DYP-ALLEYLKG 179 (547)
T ss_pred HHH-HHHHHHHc
Confidence 999 88876653
No 227
>PRK08594 enoyl-(acyl carrier protein) reductase; Provisional
Probab=59.04 E-value=1.1e+02 Score=26.27 Aligned_cols=74 Identities=14% Similarity=0.030 Sum_probs=46.6
Q ss_pred CCCCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE----EeCHHHHHHHH
Q 024727 46 ASNSNPKVVVTRER---GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII----ITSPEAGSVFL 118 (263)
Q Consensus 46 ~~l~g~~ILitr~~---~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~Ii----FTS~~aV~~~~ 118 (263)
.++.|++++||... .-...+++.|.+.|++++..- +... +.+.+++....+......+ +++..+++.++
T Consensus 3 ~~~~~k~~lItGa~~s~GIG~aia~~la~~G~~v~~~~--r~~~--~~~~~~~~~~~~~~~~~~~~~~Dv~d~~~v~~~~ 78 (257)
T PRK08594 3 LSLEGKTYVVMGVANKRSIAWGIARSLHNAGAKLVFTY--AGER--LEKEVRELADTLEGQESLLLPCDVTSDEEITACF 78 (257)
T ss_pred cccCCCEEEEECCCCCCCHHHHHHHHHHHCCCEEEEec--Cccc--chHHHHHHHHHcCCCceEEEecCCCCHHHHHHHH
Confidence 56789999999864 456789999999999887542 2111 1223333332222112211 58899999998
Q ss_pred HHHHH
Q 024727 119 EAWKE 123 (263)
Q Consensus 119 ~~l~~ 123 (263)
+.+.+
T Consensus 79 ~~~~~ 83 (257)
T PRK08594 79 ETIKE 83 (257)
T ss_pred HHHHH
Confidence 87765
No 228
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=59.00 E-value=27 Score=31.97 Aligned_cols=71 Identities=14% Similarity=0.151 Sum_probs=49.7
Q ss_pred CCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEE-eceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGKNGKLIKALAKHRIDCLE-LPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVF 117 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~-~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~ 117 (263)
.++.|++|+....-...+.+.+.|++.|+++.. ..+=+.... ...+++.........++|+.|-.-+|+.-
T Consensus 223 ~~l~~~~v~a~sGIg~P~~F~~~L~~~G~~~~~~~~f~DHh~y-t~~dl~~l~~~a~~~~~iltTeKDaVKl~ 294 (326)
T PF02606_consen 223 EPLKGKPVLAFSGIGNPERFFDTLESLGIEVVGTLAFPDHHRY-TEQDLEKLEAEAKAAGIILTTEKDAVKLP 294 (326)
T ss_pred hhccCCeeEEEEEcCChHHHHHHHHHcCCeEEEeeECCCCCCC-CHHHHHHHHHhhcccceEEecHHHHhhCh
Confidence 458899999999988899999999999999884 333333221 23445444433333348999999998865
No 229
>PRK00170 azoreductase; Reviewed
Probab=58.96 E-value=17 Score=30.17 Aligned_cols=55 Identities=16% Similarity=0.244 Sum_probs=34.0
Q ss_pred HHHHHHhC--CCeeeEEeeeccccCCCC------------------------hHHHHHHhCCCCEEEEeCH-------HH
Q 024727 193 IEEGLSNR--GFEVVRLNTYTTEPVHHV------------------------DQTVLKQALSIPVVAVASP-------SA 239 (263)
Q Consensus 193 L~~~L~~~--G~~v~~~~vY~~~~~~~~------------------------~~~~~~~l~~~d~vvFtS~-------s~ 239 (263)
+.+.|++. |.+|..+.+|+...+... ..++.+.+...|.|||.|| ..
T Consensus 25 ~~~~l~~~~~~~~v~~~dL~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~l~~~i~~AD~iV~~sP~y~~~~pa~ 104 (201)
T PRK00170 25 FIEAYKEAHPDDEVTVRDLAAEPIPVLDGEVVGALGKSAETLTPRQQEAVALSDELLEEFLAADKIVIAAPMYNFSIPTQ 104 (201)
T ss_pred HHHHHHHhCCCCeEEEEECCCCCCCCCCHHHHHhhcCCcccCCHHHHHHHHHHHHHHHHHHHCCEEEEeecccccCCcHH
Confidence 34556666 777877777764332110 1123344568999999998 56
Q ss_pred HHHHHHHhc
Q 024727 240 VRSSWVNLI 248 (263)
Q Consensus 240 v~~~~~~~~ 248 (263)
++ .|++.+
T Consensus 105 LK-~~iDrv 112 (201)
T PRK00170 105 LK-AYIDLI 112 (201)
T ss_pred HH-HHHHhh
Confidence 67 777765
No 230
>cd03129 GAT1_Peptidase_E_like Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E and, extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Peptidase E and cyanophycinases are thought to have a Ser-His-Glu catalytic triad which differs from
Probab=58.80 E-value=82 Score=26.42 Aligned_cols=61 Identities=25% Similarity=0.305 Sum_probs=43.8
Q ss_pred CCcEEEEEcCCC-----CchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHHHHH
Q 024727 177 KKCTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVR 241 (263)
Q Consensus 177 ~~~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s~v~ 241 (263)
.+.+|+++.... .-+.+.+.+++.|+++..+.+.+. .. .+++.+.+...|+|+|+-+.+.+
T Consensus 28 ~~~~i~~iptA~~~~~~~~~~~~~~~~~lG~~~~~~~~~~~---~~-~~~~~~~l~~ad~I~~~GG~~~~ 93 (210)
T cd03129 28 AGARVLFIPTASGDRDEYGEEYRAAFERLGVEVVHLLLIDT---AN-DPDVVARLLEADGIFVGGGNQLR 93 (210)
T ss_pred CCCeEEEEeCCCCChHHHHHHHHHHHHHcCCceEEEeccCC---CC-CHHHHHHHhhCCEEEEcCCcHHH
Confidence 457777775543 235577788999999988887665 12 23455557899999999988877
No 231
>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=58.73 E-value=1e+02 Score=26.61 Aligned_cols=83 Identities=11% Similarity=0.035 Sum_probs=49.5
Q ss_pred CcEEEEEcCCCCc--------hhHHHHHHhCCCeeeEEe-----eeccccCCCCh--HHHHHHhCCCCEEEEeCH-----
Q 024727 178 KCTVLYPASAKAS--------NEIEEGLSNRGFEVVRLN-----TYTTEPVHHVD--QTVLKQALSIPVVAVASP----- 237 (263)
Q Consensus 178 ~~~vL~~~g~~~~--------~~L~~~L~~~G~~v~~~~-----vY~~~~~~~~~--~~~~~~l~~~d~vvFtS~----- 237 (263)
--+|+++.|.... +.+.+.+...|+++..+. .|.-... ..+ ..+.+.+...|+++|.||
T Consensus 26 ~~kI~~I~GSlR~~S~n~~la~~~~~~~~~~g~~v~~idl~~lPl~~~d~~-~~p~v~~l~~~v~~ADgvii~TPEYn~s 104 (219)
T TIGR02690 26 IPRILLLYGSLRERSYSRLLAEEAARLLGCEGRETRIFDPPGLPLPDAAHA-DHPKVRELRQLSEWSEGQVWCSPERHGA 104 (219)
T ss_pred CCEEEEEECCCCCcchHHHHHHHHHHHHhhcCCEEEEeCcccCCCCCcCcc-cCHHHHHHHHHHHhCCEEEEeCCccccC
Confidence 3588888886542 445556666788776554 3432111 111 123343468999999998
Q ss_pred --HHHHHHHHHhcccc-----CCCCceEEEEC
Q 024727 238 --SAVRSSWVNLISDT-----EQWSNSVACIA 262 (263)
Q Consensus 238 --s~v~~~~~~~~~~~-----~~~~~~i~~IG 262 (263)
..++ ++++.+... .+.++++.++|
T Consensus 105 ipg~LK-NaiDwls~~~~~~~~~~~Kpvaivg 135 (219)
T TIGR02690 105 ITGSQK-DQIDWIPLSVGPVRPTQGKTLAVMQ 135 (219)
T ss_pred cCHHHH-HHHHhcccCcccccccCCCcEEEEE
Confidence 4677 777777542 13456666555
No 232
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=58.36 E-value=52 Score=31.00 Aligned_cols=34 Identities=24% Similarity=0.287 Sum_probs=28.0
Q ss_pred CCCCCCeEEEeCC----------------CCC-hHHHHHHHHhCCCcEEEe
Q 024727 46 ASNSNPKVVVTRE----------------RGK-NGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 46 ~~l~g~~ILitr~----------------~~~-~~~l~~~L~~~G~~v~~~ 79 (263)
+++.|++||||.+ ... ...+++.|.++|++|..+
T Consensus 184 ~~l~gk~vlITgG~T~E~ID~VR~isN~SSG~~G~aiA~~l~~~Ga~V~~v 234 (399)
T PRK05579 184 KDLAGKRVLITAGPTREPIDPVRYITNRSSGKMGYALARAAARRGADVTLV 234 (399)
T ss_pred cccCCCEEEEeCCCccccccceeeeccCCcchHHHHHHHHHHHCCCEEEEe
Confidence 5688999999987 332 678999999999999764
No 233
>PLN02616 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=58.32 E-value=84 Score=29.31 Aligned_cols=68 Identities=12% Similarity=-0.073 Sum_probs=42.5
Q ss_pred CCHHHHHHHhccCC--CCCcEEEEEc-CCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCH
Q 024727 162 ATGKILASELPKNG--KKKCTVLYPA-SAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 162 ~t~e~L~~~l~~~~--~~~~~vL~~~-g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
-|+.+.++.|..+. ..|++++++. ++.-..-|...|.++|+.|.-+--. +.. +.+...+.|+|+-.-+
T Consensus 213 CTp~avielL~~y~i~l~GK~vvVIGRS~iVGkPLa~LL~~~~ATVTicHs~-----T~n---l~~~~r~ADIVIsAvG 283 (364)
T PLN02616 213 CTPKGCIELLHRYNVEIKGKRAVVIGRSNIVGMPAALLLQREDATVSIVHSR-----TKN---PEEITREADIIISAVG 283 (364)
T ss_pred CCHHHHHHHHHHhCCCCCCCEEEEECCCccccHHHHHHHHHCCCeEEEeCCC-----CCC---HHHHHhhCCEEEEcCC
Confidence 47888888887653 4677766664 4444566888898999888554221 112 2222357888876554
No 234
>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=58.05 E-value=46 Score=25.81 Aligned_cols=83 Identities=12% Similarity=0.144 Sum_probs=52.3
Q ss_pred cEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhcc
Q 024727 179 CTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLIS 249 (263)
Q Consensus 179 ~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~ 249 (263)
++++++.+.... .-+.+.+++.|..+....+................+ ..+|+|+..+...+. .++..+.
T Consensus 10 r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~pdaii~~~~~~a~-~~~~~l~ 88 (160)
T PF13377_consen 10 RRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDDDSEDAREAQLLWLRRLRPDAIICSNDRLAL-GVLRALR 88 (160)
T ss_dssp SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESSSHHHHHHHHHHHHHTCSSSEEEESSHHHHH-HHHHHHH
T ss_pred CeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCCcchhHHHHHHHHHhcCCCcEEEEcCHHHHH-HHHHHHH
Confidence 678888855442 335667889998866555544322111111111111 267999999999999 8888877
Q ss_pred ccC---CCCceEEEEC
Q 024727 250 DTE---QWSNSVACIA 262 (263)
Q Consensus 250 ~~~---~~~~~i~~IG 262 (263)
+.. ..++.|+++|
T Consensus 89 ~~g~~vP~di~vv~~~ 104 (160)
T PF13377_consen 89 ELGIRVPQDISVVSFD 104 (160)
T ss_dssp HTTSCTTTTSEEEEES
T ss_pred HcCCcccccccEEEec
Confidence 654 3578888886
No 235
>TIGR01861 ANFD nitrogenase iron-iron protein, alpha chain. This model represents the all-iron variant of the nitrogenase component I alpha chain. Molybdenum-iron and vanadium iron forms are also found. The complete complex contains two alpha chains, two beta chains and two delta chains. The component I associates with component II also known as the iron protein which serves to provide electrons for component I.
Probab=57.91 E-value=1.9e+02 Score=28.24 Aligned_cols=137 Identities=12% Similarity=0.082 Sum_probs=75.7
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCCCcEEEEeCh-h
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTPNVRIGVVGA-G 137 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~-~~~~~~~i~aVG~-~ 137 (263)
....++.+.|++.|+++...+.- -...++ +....+...-+.-+..+.....+.|++ .+.+-..+--+|- .
T Consensus 215 gD~~eik~lLe~~Gl~v~~~~~g----g~t~~e----i~~~~~A~lniv~~~~~~~~~A~~Leer~GiP~~~~~~~Gi~~ 286 (513)
T TIGR01861 215 GDQEVMVDYFQRMGIQVLSTFTG----NGSYDD----LRGMHRAHLNVLECARSAEYICNELRKRYGIPRLDIDGFGFEP 286 (513)
T ss_pred cCHHHHHHHHHHCCCeEEEEeCC----CCCHHH----HHhhccCCEEEEECHHHHHHHHHHHHHHhCCCeEecCcCCHHH
Confidence 34678999999999999854321 112233 334566666555556656677777765 3433222212463 4
Q ss_pred HHHHHHHhhhhcCCCCcee---ecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHH-hCCCeeeEE
Q 024727 138 TASIFEEVIQSSKCSLDVA---FSPSKA-TGKILASELPKNGKKKCTVLYPASAKASNEIEEGLS-NRGFEVVRL 207 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~---~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~-~~G~~v~~~ 207 (263)
|.+.|++.. .+.|+... ++|++. -..+-++..... ..|+|+.+..|....--+...|. +.|+++..+
T Consensus 287 Td~~Lr~la--~~~g~~~~~e~~I~~e~~~~r~~Ld~~~~~-L~GKrvai~~gg~~~~~~~~~l~~ElGmevv~~ 358 (513)
T TIGR01861 287 LAASLRKVA--MFFGIEDEAQAIIDEETARWKPELDWYKER-LKGKKVCLWPGGSKLWHWAHVIEEEMGLKVVSV 358 (513)
T ss_pred HHHHHHHHH--HHhCCChhHhHhhHHHHHHHHHHHHHHHHh-cCCCEEEEECCchHHHHHHHHHHHhCCCEEEEE
Confidence 667777651 12254321 122110 001111212122 36899999887776677888888 699988444
No 236
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=57.90 E-value=22 Score=29.73 Aligned_cols=18 Identities=11% Similarity=0.169 Sum_probs=14.0
Q ss_pred hHHHHHHHHhCCCcEEEe
Q 024727 62 NGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~ 79 (263)
...+++.+..+|++|..+
T Consensus 32 G~~lA~~~~~~Ga~V~li 49 (185)
T PF04127_consen 32 GAALAEEAARRGAEVTLI 49 (185)
T ss_dssp HHHHHHHHHHTT-EEEEE
T ss_pred HHHHHHHHHHCCCEEEEE
Confidence 457889999999999865
No 237
>PRK05569 flavodoxin; Provisional
Probab=57.67 E-value=33 Score=26.63 Aligned_cols=36 Identities=22% Similarity=0.225 Sum_probs=25.4
Q ss_pred CCCccEEEEeCHH---------HHHHHHHHHHHcCCCCcEEEEeC
Q 024727 100 DTIFDWIIITSPE---------AGSVFLEAWKEAGTPNVRIGVVG 135 (263)
Q Consensus 100 l~~~d~IiFTS~~---------aV~~~~~~l~~~~~~~~~i~aVG 135 (263)
+.++|.|+|-||. .+..|++.+......+.+++.+|
T Consensus 46 ~~~~d~iilgsPty~~~~~~~~~~~~~~~~l~~~~~~~K~v~~f~ 90 (141)
T PRK05569 46 VLEADAVAFGSPSMDNNNIEQEEMAPFLDQFKLTPNENKKCILFG 90 (141)
T ss_pred HhhCCEEEEECCCcCCCcCChHHHHHHHHHhhccCcCCCEEEEEe
Confidence 4689999999984 25666666654444577888877
No 238
>PRK10792 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=57.54 E-value=1.3e+02 Score=27.10 Aligned_cols=146 Identities=15% Similarity=0.127 Sum_probs=80.3
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HH--HHHHHHHHH-cCCCCcEEEEeCh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AG--SVFLEAWKE-AGTPNVRIGVVGA 136 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV--~~~~~~l~~-~~~~~~~i~aVG~ 136 (263)
-.+..++.|+++..+-+-+. ...+++.+.++ +..+.|.|+.--|- .+ +..++.+.. ...|+..-+-.|
T Consensus 54 k~k~a~~~Gi~~~~~~l~~~---~s~~el~~~I~~lN~d~~V~GIlvqlPLP~~~~~~~i~~~I~p~KDVDGl~~~n~g- 129 (285)
T PRK10792 54 KRKACEEVGFVSRSYDLPET---TSEAELLALIDELNADPTIDGILVQLPLPAHIDNVKVLERIHPDKDVDGFHPYNVG- 129 (285)
T ss_pred HHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhccCcccccCccChhhHh-
Confidence 34556777988776655221 12234444443 44678899988772 22 112221111 112344333333
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCCC-CchhHHHHHHhCCCeeeEEeeeccc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASAK-ASNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~~-~~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
.|. . |-. .+.| -|+.+.++.|..+. ..|++++++.... -..-|...|.++|++|.-+. ...
T Consensus 130 ----~l~-~------~~~-~~~P--cTp~av~~ll~~~~i~l~Gk~vvViGrs~iVG~Pla~lL~~~~atVtv~h--s~T 193 (285)
T PRK10792 130 ----RLA-Q------RIP-LLRP--CTPRGIMTLLERYGIDTYGLNAVVVGASNIVGRPMSLELLLAGCTVTVCH--RFT 193 (285)
T ss_pred ----HHh-C------CCC-CCCC--CCHHHHHHHHHHcCCCCCCCEEEEECCCcccHHHHHHHHHHCCCeEEEEE--CCC
Confidence 221 2 322 2444 48888988887653 4678888776554 45568888989998885443 211
Q ss_pred cCCCChHHHHHHhCCCCEEEEeC
Q 024727 214 PVHHVDQTVLKQALSIPVVAVAS 236 (263)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~vvFtS 236 (263)
. .+.+.....|+|+-+-
T Consensus 194 ---~---~l~~~~~~ADIvi~av 210 (285)
T PRK10792 194 ---K---NLRHHVRNADLLVVAV 210 (285)
T ss_pred ---C---CHHHHHhhCCEEEEcC
Confidence 1 2233346888888777
No 239
>PF04016 DUF364: Domain of unknown function (DUF364); InterPro: IPR007161 This is a entry represents of bacterial and archaeal proteins of unknown function.; PDB: 3L5O_B 3NPG_A.
Probab=57.46 E-value=5.7 Score=31.94 Aligned_cols=115 Identities=10% Similarity=0.067 Sum_probs=64.9
Q ss_pred CCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEee--eCC---CchHHHHHHhcCCCccEEEEeCHHHHHHHHHHH
Q 024727 47 SNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHA--QGP---DTDRLSSVLNADTIFDWIIITSPEAGSVFLEAW 121 (263)
Q Consensus 47 ~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~--~~~---~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l 121 (263)
-..|++|.+.-.- ..+.+.|++.+.++..+.+-... ..+ .....+.. +...|.++.|...-+..-+..+
T Consensus 8 ~~~~~~V~~VG~f---~P~~~~l~~~~~~v~v~d~~~~~~~~~~~~~~~~~~~~~---l~~aD~viiTGsTlvN~Ti~~i 81 (147)
T PF04016_consen 8 IGPGDKVGMVGYF---QPLVEKLKERGAEVRVFDLNPDNIGEEPGDVPDEDAEEI---LPWADVVIITGSTLVNGTIDDI 81 (147)
T ss_dssp TTTTSEEEEES-----HCCHHHHCCCCSEEEEEESSGGG--SSCT-EEGGGHHHH---GGG-SEEEEECHHCCTTTHHHH
T ss_pred hcCCCEEEEEcCc---HHHHHHHhcCCCCEEEEECCCCCCCCCCCcCCHHHHHHH---HccCCEEEEEeeeeecCCHHHH
Confidence 3458888887532 23667777667766654332200 011 11222333 5789999999998776555554
Q ss_pred HHcCCCCcEEEEeChhHHH---HHHHhhhhcCCCCceeecCCCCCHHHHHHHhcc
Q 024727 122 KEAGTPNVRIGVVGAGTAS---IFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (263)
Q Consensus 122 ~~~~~~~~~i~aVG~~Ta~---~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (263)
-+.......++.+||.|.- .|.++ |++..--...-+.+.+++.+.+
T Consensus 82 L~~~~~~~~vil~GpS~~~~P~~l~~~------Gv~~v~g~~v~d~~~~~~~i~~ 130 (147)
T PF04016_consen 82 LELARNAREVILYGPSAPLHPEALFDY------GVTYVGGSRVVDPEKVLRAISE 130 (147)
T ss_dssp HHHTTTSSEEEEESCCGGS-GGGGCCT------T-SEEEEEEES-HHHHHHHHCT
T ss_pred HHhCccCCeEEEEecCchhhHHHHHhC------CCCEEEEEEEeCHHHHHHHHHc
Confidence 4443346789999998763 33444 7765322223577888877764
No 240
>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=57.27 E-value=1.2e+02 Score=25.61 Aligned_cols=135 Identities=10% Similarity=0.073 Sum_probs=74.5
Q ss_pred CccEEEEeCHH-HHHHHHHHHHHcCCCCcEEEEeChhHHHHHHH---hhhhcCCCCceeecCCC-CCHHHHHHHhccCCC
Q 024727 102 IFDWIIITSPE-AGSVFLEAWKEAGTPNVRIGVVGAGTASIFEE---VIQSSKCSLDVAFSPSK-ATGKILASELPKNGK 176 (263)
Q Consensus 102 ~~d~IiFTS~~-aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~---~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~ 176 (263)
..+.||-.... ........+... +++++..+.... .+.. . .....+.|.. .....+++.+.+..
T Consensus 67 ~v~~iig~~~~~~~~~~~~~~~~~---~iP~i~~~~~~~-~~~~~~~~------~~~~~~~~~~~~~~~~~~~~l~~~~- 135 (299)
T cd04509 67 GVDALVGPVSSGVALAVAPVAEAL---KIPLISPGATAP-GLTDKKGY------PYLFRTGPSDEQQAEALADYIKEYN- 135 (299)
T ss_pred CceEEEcCCCcHHHHHHHHHHhhC---CceEEeccCCCc-ccccccCC------CCEEEecCCcHHHHHHHHHHHHHcC-
Confidence 68887765433 333344444333 678888775432 2221 1 2222233433 34566666776543
Q ss_pred CCcEEEEEcCCCC-----chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCH-HHHHHHHHHhc
Q 024727 177 KKCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASP-SAVRSSWVNLI 248 (263)
Q Consensus 177 ~~~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~-s~v~~~~~~~~ 248 (263)
.+++.++..+.. ...+.+.+++.|.++.....|.... .......+.+ ..+|+|++.+. ..+. .+++.+
T Consensus 136 -~~~v~iv~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~~--~~~~~~~~~l~~~~~~~v~~~~~~~~~~-~~~~~~ 211 (299)
T cd04509 136 -WKKVAILYDDDSYGRGLLEAFKAAFKKKGGTVVGEEYYPLGT--TDFTSLLQKLKAAKPDVIVLCGSGEDAA-TILKQA 211 (299)
T ss_pred -CcEEEEEecCchHHHHHHHHHHHHHHHcCCEEEEEecCCCCC--ccHHHHHHHHHhcCCCEEEEcccchHHH-HHHHHH
Confidence 367777766543 3557778888988775544443221 2222333333 35788888776 7788 787776
Q ss_pred ccc
Q 024727 249 SDT 251 (263)
Q Consensus 249 ~~~ 251 (263)
...
T Consensus 212 ~~~ 214 (299)
T cd04509 212 AEA 214 (299)
T ss_pred HHc
Confidence 543
No 241
>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=57.26 E-value=1.3e+02 Score=25.97 Aligned_cols=174 Identities=11% Similarity=-0.013 Sum_probs=81.3
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~~~~~l~~~~~~~~~i~aVG~~Ta 139 (263)
.+.+.++++|+++...... .+.+...+.++. ...+|.||+++.. .....++.+.+ .+++++.+|....
T Consensus 21 gi~~~a~~~gy~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~~~---~~iPvV~~d~~~~ 92 (280)
T cd06315 21 GVREAAKAIGWNLRILDGR-----GSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELELAQK---AGIPVVGWHAGPE 92 (280)
T ss_pred HHHHHHHHcCcEEEEECCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHHHH---CCCCEEEecCCCC
Confidence 3456677889887654321 122211122221 3679999998753 22334444443 2678888885321
Q ss_pred HHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCCc------hhHHHHHHhC-CCeeeEEeeec
Q 024727 140 SIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKAS------NEIEEGLSNR-GFEVVRLNTYT 211 (263)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~~------~~L~~~L~~~-G~~v~~~~vY~ 211 (263)
..-... -..+. .+..+.+ .+..+.+.|.+.....++++++.+.... .-+...++.. +..+....-+.
T Consensus 93 ~~~~~~----~~~~~-~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~~~~~a~~~~~~~~~~~~~ 167 (280)
T cd06315 93 PGPIEE----PGIFY-NVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMKEIIEACKGCTVLSIEDVP 167 (280)
T ss_pred CCcccC----CceeE-EecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHHHHHHhCCCCEEEEecccC
Confidence 100000 00021 1223332 3355666666652234788888765331 1223333332 33331111111
Q ss_pred cccCCC-ChHHHHHHh----CCCCEEEEeCHHHHHHHHHHhcccc
Q 024727 212 TEPVHH-VDQTVLKQA----LSIPVVAVASPSAVRSSWVNLISDT 251 (263)
Q Consensus 212 ~~~~~~-~~~~~~~~l----~~~d~vvFtS~s~v~~~~~~~~~~~ 251 (263)
...... ..+...+.+ ..+|+|+..+-..+. ..+..+.+.
T Consensus 168 ~~~~~~~~~~~~~~~l~~~~~~~~ai~~~~D~~A~-g~~~~l~~~ 211 (280)
T cd06315 168 ISRTATRMPALTARLLQRYGDKWTHSLAINDLYFD-YMAPPLASA 211 (280)
T ss_pred cchhhhhhHHHHHHHHHhcCcccceecccchhhhH-HhHHHHHHh
Confidence 110000 011122222 247999999998777 777666554
No 242
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=56.79 E-value=37 Score=30.06 Aligned_cols=62 Identities=18% Similarity=0.191 Sum_probs=41.9
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeee-----CCCchHHHHHHhcCCCccEEEEeCHH
Q 024727 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQ-----GPDTDRLSSVLNADTIFDWIIITSPE 112 (263)
Q Consensus 49 ~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~-----~~~~~~l~~~l~~l~~~d~IiFTS~~ 112 (263)
.|.+|+++|+...+ ....+...|+++++++.-.... ..+.+.+++.+++-.+...+++|+++
T Consensus 98 ~gd~Vlv~~~~h~s--~~~~~~~~g~~~~~v~~~~~~~~~~~~~i~~~~l~~~l~~~~~~k~v~l~~p~ 164 (294)
T cd00615 98 PGDKILIDRNCHKS--VINGLVLSGAVPVYLKPERNPYYGIAGGIPPETFKKALIEHPDAKAAVITNPT 164 (294)
T ss_pred CCCEEEEeCCchHH--HHHHHHHCCCEEEEecCccCcccCcCCCCCHHHHHHHHHhCCCceEEEEECCC
Confidence 47899999987543 4556677899988887642211 22456677777544567889999874
No 243
>PRK13556 azoreductase; Provisional
Probab=56.77 E-value=38 Score=28.47 Aligned_cols=25 Identities=20% Similarity=0.417 Sum_probs=18.2
Q ss_pred HHhCCCCEEEEeCH-------HHHHHHHHHhcc
Q 024727 224 KQALSIPVVAVASP-------SAVRSSWVNLIS 249 (263)
Q Consensus 224 ~~l~~~d~vvFtS~-------s~v~~~~~~~~~ 249 (263)
+.+...|.|||.+| ..++ .|++.+-
T Consensus 85 ~~l~~AD~iVi~~P~yn~~~Pa~LK-~~iD~v~ 116 (208)
T PRK13556 85 NQFLEADKVVFAFPLWNFTIPAVLH-TYIDYLN 116 (208)
T ss_pred HHHHHCCEEEEeccccccCCcHHHH-HHHHHHh
Confidence 33468999999997 4567 7777553
No 244
>PRK07765 para-aminobenzoate synthase component II; Provisional
Probab=56.75 E-value=1.2e+02 Score=25.68 Aligned_cols=93 Identities=11% Similarity=0.119 Sum_probs=52.6
Q ss_pred CeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEe----CHHHHHHHHHHHHHcC
Q 024727 51 PKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIIT----SPEAGSVFLEAWKEAG 125 (263)
Q Consensus 51 ~~ILitr~~~-~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFT----S~~aV~~~~~~l~~~~ 125 (263)
++|++..... ....+.+.|++.|+.+..+|..... .+.... .+..+|.||++ ++.....-.+.++...
T Consensus 1 ~~ilv~d~~~~~~~~~~~~l~~~G~~~~~~~~~~~~----~~~~~~---~~~~~dgliisGGp~~~~~~~~~~~~i~~~~ 73 (214)
T PRK07765 1 MRILVVDNYDSFVFNLVQYLGQLGVEAEVWRNDDPR----LADEAA---VAAQFDGVLLSPGPGTPERAGASIDMVRACA 73 (214)
T ss_pred CeEEEEECCCcHHHHHHHHHHHcCCcEEEEECCCcC----HHHHHH---hhcCCCEEEECCCCCChhhcchHHHHHHHHH
Confidence 4666665433 3457888999999999988775311 111111 13579999998 5554333333333322
Q ss_pred CCCcEEEEeChhHHHHHHHhhhhcCCCCcee
Q 024727 126 TPNVRIGVVGAGTASIFEEVIQSSKCSLDVA 156 (263)
Q Consensus 126 ~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~ 156 (263)
..+++++.|.-.- +.|-..+ |-++.
T Consensus 74 ~~~~PiLGIC~G~-Qlla~a~-----GG~v~ 98 (214)
T PRK07765 74 AAGTPLLGVCLGH-QAIGVAF-----GATVD 98 (214)
T ss_pred hCCCCEEEEccCH-HHHHHHh-----CCEEe
Confidence 2367886555443 3333333 76653
No 245
>PRK01355 azoreductase; Reviewed
Probab=56.48 E-value=31 Score=28.86 Aligned_cols=55 Identities=18% Similarity=0.307 Sum_probs=32.5
Q ss_pred HHHHHHh--CCCeeeEEeeeccccC--------------CCChHHHHHHhCCCCEEEEeCH-------HHHHHHHHHhc
Q 024727 193 IEEGLSN--RGFEVVRLNTYTTEPV--------------HHVDQTVLKQALSIPVVAVASP-------SAVRSSWVNLI 248 (263)
Q Consensus 193 L~~~L~~--~G~~v~~~~vY~~~~~--------------~~~~~~~~~~l~~~d~vvFtS~-------s~v~~~~~~~~ 248 (263)
+.+.+++ .|.+|..+.+|+...+ +....++.+.+...|.|||.|| ..++ .|++.+
T Consensus 26 ~~~~~~~~~~~~~v~~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~AD~iV~~sP~y~~~ipa~LK-~~iDrv 103 (199)
T PRK01355 26 FVEEYKKVNPNDEIIILDLNETKVGSVTLTSENFKTFFKEEVSDKYINQLKSVDKVVISCPMTNFNVPATLK-NYLDHI 103 (199)
T ss_pred HHHHHHHhCCCCeEEEEeCCCCCCCcccCCHHHHHhhcCchhHHHHHHHHHhCCEEEEEcCccccCChHHHH-HHHHHH
Confidence 4444555 3467777777764331 1111234454579999999998 4566 666654
No 246
>PRK14178 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=56.23 E-value=1.5e+02 Score=26.55 Aligned_cols=148 Identities=13% Similarity=0.093 Sum_probs=82.4
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HHH--HHHHHHHH-cCCCCcEEEEeCh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AGS--VFLEAWKE-AGTPNVRIGVVGA 136 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV~--~~~~~l~~-~~~~~~~i~aVG~ 136 (263)
-.+..++.|+++..+-+-+. ...+++.+.++ +..+.|.|+.--|- .++ ..++.+.. ...|+..-.-.|.
T Consensus 47 k~k~~~~~Gi~~~~~~l~~~---~~~~el~~~I~~lN~D~~V~GIlvqlPLp~~i~~~~v~~~I~p~KDVDGl~~~n~g~ 123 (279)
T PRK14178 47 KHRACERVGIGSVGIELPGD---ATTRTVLERIRRLNEDPDINGILVQLPLPKGVDTERVIAAILPEKDVDGFHPLNLGR 123 (279)
T ss_pred HHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCeEEEcCCCCCCCCHHHHHhccCcccCcccCChhhHHH
Confidence 34556777988876544222 12234444443 45678999988772 221 12222211 1123443333332
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCC-CCchhHHHHHHhCCCeeeEEeeeccc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASA-KASNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~-~~~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
|. . |-. .+.| -|+.+.++.|.... ..|++++++... .....|...|...|+.|..+.-+.
T Consensus 124 -----l~-~------~~~-~~~P--cTp~av~~ll~~~~i~l~Gk~V~ViGrs~~vGrpla~lL~~~~atVtv~hs~t-- 186 (279)
T PRK14178 124 -----LV-S------GLP-GFAP--CTPNGIMTLLHEYKISIAGKRAVVVGRSIDVGRPMAALLLNADATVTICHSKT-- 186 (279)
T ss_pred -----Hh-C------CCC-CCCC--CCHHHHHHHHHHcCCCCCCCEEEEECCCccccHHHHHHHHhCCCeeEEEecCh--
Confidence 21 2 322 2444 47888988887653 468888888766 445567778888998875543211
Q ss_pred cCCCChHHHHHHhCCCCEEEEeCHH
Q 024727 214 PVHHVDQTVLKQALSIPVVAVASPS 238 (263)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~vvFtS~s 238 (263)
..+.+.+.+.|+|+-+-+.
T Consensus 187 ------~~L~~~~~~ADIvI~Avgk 205 (279)
T PRK14178 187 ------ENLKAELRQADILVSAAGK 205 (279)
T ss_pred ------hHHHHHHhhCCEEEECCCc
Confidence 2234445688988887763
No 247
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=56.18 E-value=1.9e+02 Score=27.60 Aligned_cols=139 Identities=13% Similarity=0.050 Sum_probs=74.1
Q ss_pred ChHHHHHHHHhCCCcEEEe-ceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCCCcEEEEeC-hh
Q 024727 61 KNGKLIKALAKHRIDCLEL-PLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTPNVRIGVVG-AG 137 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~-p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~-~~~~~~~i~aVG-~~ 137 (263)
...++.+.|++.|+++... |-- .+.++ +....+...-+..++.....+.+.+++ .+.+-+...-+| ..
T Consensus 211 d~~el~~lL~~~Gl~v~~~~~~~-----~s~ee----i~~~~~A~lniv~~~~~~~~~a~~L~e~~GiP~~~~~~~G~~~ 281 (456)
T TIGR01283 211 EFWHVKPLLEKLGIRVLATITGD-----SRYAE----VQTAHRAKLNMVQCSKSMINLARKMEEKYGIPYFEGSFYGIED 281 (456)
T ss_pred cHHHHHHHHHHcCCeEEEEeCCC-----CcHHH----HHhcccCcEEEEECHhHHHHHHHHHHHHcCCCEEecCCCcHHH
Confidence 4568999999999999862 111 12232 234566677666666555667777754 343311111255 34
Q ss_pred HHHHHHHhhhhcCCCCce--eecCCC--CCHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeee
Q 024727 138 TASIFEEVIQSSKCSLDV--AFSPSK--ATGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~--~~~p~~--~t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY 210 (263)
|.+.|++.. ...|... +..++. ..-+.+.+.|.+. ...|+++.+..|....-.+...|.+.|++|..+.++
T Consensus 282 T~~~L~~Ia--~~lg~~~~~~~~~~~i~~e~~~~~~~l~~~~~~L~Gkrv~i~~g~~~~~~l~~~l~elGmevv~~~t~ 358 (456)
T TIGR01283 282 TSKALRDIA--DLFGDEELLKRTEELIAREEAKIRPALEPYRERLKGKKAAIYTGGVKSWSLVSALQDLGMEVVATGTQ 358 (456)
T ss_pred HHHHHHHHH--HHhCChHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCCchHHHHHHHHHHCCCEEEEEeee
Confidence 777777661 1113210 000000 0001122233222 135788887666544455888999999998665443
No 248
>cd06451 AGAT_like Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-glyoxylate aminotransferase (SGAT), and 3-hydroxykynurenine transaminase (HKT). AGAT is a homodimeric protein, which catalyses the transamination of glyoxylate to glycine, and SGAT converts serine and glyoxylate to hydroxypyruvate and glycine. HKT catalyzes the PLP-dependent transamination of 3-hydroxykynurenine, a potentially toxic metabolite of the kynurenine pathway.
Probab=56.00 E-value=1.2e+02 Score=27.17 Aligned_cols=60 Identities=10% Similarity=0.012 Sum_probs=32.4
Q ss_pred CCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh-C-CCCEEEEeCH
Q 024727 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-L-SIPVVAVASP 237 (263)
Q Consensus 176 ~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~-~~d~vvFtS~ 237 (263)
.+|++|++.........+...++..|+++..+++... ...+.+++.+.+ . +...|+++++
T Consensus 72 ~~g~~vl~~~~~~~~~~~~~~~~~~g~~~~~v~~~~~--~~~~~~~l~~~i~~~~~~~v~i~~~ 133 (356)
T cd06451 72 EPGDKVLVGVNGVFGDRWADMAERYGADVDVVEKPWG--EAVSPEEIAEALEQHDIKAVTLTHN 133 (356)
T ss_pred CCCCEEEEecCCchhHHHHHHHHHhCCCeEEeecCCC--CCCCHHHHHHHHhccCCCEEEEecc
Confidence 4567777765332222244566777887777765422 112234444444 3 5667777665
No 249
>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=55.88 E-value=53 Score=28.92 Aligned_cols=67 Identities=13% Similarity=0.112 Sum_probs=43.8
Q ss_pred cccCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH
Q 024727 42 TSASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA 113 (263)
Q Consensus 42 ~~~~~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a 113 (263)
+.....|.|++|.++........+.+.|++.|.+...+.+... ...+ .-..+ ..+..|+++...+..
T Consensus 92 I~s~~DLkGK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~~---~~~~-~~~al-~~G~vDa~~~~~p~~ 158 (300)
T TIGR01729 92 IEKPEDLKGKNVAVPFVSTTHYSLLAALKHWKTDPREVNILNL---KPPQ-IVAAW-QRGDIDAAYVWPPAL 158 (300)
T ss_pred CCChhHcCCCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEec---CcHH-HHHHH-HcCCcCEEEEecHHH
Confidence 3344689999999987665556677889999987654433322 2222 23344 358899988877754
No 250
>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=55.87 E-value=1.3e+02 Score=25.65 Aligned_cols=53 Identities=17% Similarity=0.229 Sum_probs=34.9
Q ss_pred HHHHHhcCC-CccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhHHH--HHHHh
Q 024727 93 LSSVLNADT-IFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGTAS--IFEEV 145 (263)
Q Consensus 93 l~~~l~~l~-~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~Ta~--~L~~~ 145 (263)
+...++... ..|.|+.++-.......+.+.+.++ +++.+++.+..... .+..-
T Consensus 175 ~~~~l~~~~~~~~aI~~~~d~~a~g~~~a~~~~g~~ip~di~iig~d~~~~~~~~~~~~ 233 (273)
T cd06309 175 MEALLKAHGDDIDAVYAHNDEMALGAIQAIKAAGKKPGKDIKIVSIDGTKDAFQAMADG 233 (273)
T ss_pred HHHHHHhCCCCccEEEECCcHHHHHHHHHHHHcCCCCCCCeEEEecCCCHHHHHHHHcC
Confidence 444453333 6899988888887778888877765 37788888765432 44443
No 251
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=55.74 E-value=22 Score=29.08 Aligned_cols=50 Identities=20% Similarity=0.246 Sum_probs=39.9
Q ss_pred CCceeecCCCCCHHHHHHHhccCCCC-CcEEEEEcCCCCchhHHHHHHhCCCee
Q 024727 152 SLDVAFSPSKATGKILASELPKNGKK-KCTVLYPASAKASNEIEEGLSNRGFEV 204 (263)
Q Consensus 152 G~~~~~~p~~~t~e~L~~~l~~~~~~-~~~vL~~~g~~~~~~L~~~L~~~G~~v 204 (263)
|+.+.|.++..+++++++.+...... +.+|.++.++.. +.......|+.+
T Consensus 67 gi~Vvft~~~~tAD~~Ie~~v~~~~~~~~~v~VVTSD~~---iq~~~~~~GA~~ 117 (166)
T PF05991_consen 67 GIEVVFTKEGETADDYIERLVRELKNRPRQVTVVTSDRE---IQRAARGRGAKR 117 (166)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhccCCCeEEEEeCCHH---HHHHHhhCCCEE
Confidence 99999998889999999888876543 689999999864 555666777754
No 252
>PRK10669 putative cation:proton antiport protein; Provisional
Probab=55.63 E-value=1.2e+02 Score=29.57 Aligned_cols=114 Identities=11% Similarity=0.153 Sum_probs=68.8
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEE------------eeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHH
Q 024727 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQ------------HAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSV 116 (263)
Q Consensus 51 ~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~------------~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~ 116 (263)
.+|+|.....-...+.+.|+++|.++..+.-=+ .... |..+ ++.++ .++++|.++.+.++..+.
T Consensus 418 ~hiiI~G~G~~G~~la~~L~~~g~~vvvId~d~~~~~~~~~~g~~~i~G-D~~~-~~~L~~a~i~~a~~viv~~~~~~~~ 495 (558)
T PRK10669 418 NHALLVGYGRVGSLLGEKLLAAGIPLVVIETSRTRVDELRERGIRAVLG-NAAN-EEIMQLAHLDCARWLLLTIPNGYEA 495 (558)
T ss_pred CCEEEECCChHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHCCCeEEEc-CCCC-HHHHHhcCccccCEEEEEcCChHHH
Confidence 467777766667889999999998775442100 0000 0000 11222 346889888876654332
Q ss_pred --HHHHHHHcCCCCcEEEEe--ChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhcc
Q 024727 117 --FLEAWKEAGTPNVRIGVV--GAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (263)
Q Consensus 117 --~~~~l~~~~~~~~~i~aV--G~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (263)
......+.. ++.++++. .+...+.+++. |.+..+.|+...++.+.+.+..
T Consensus 496 ~~iv~~~~~~~-~~~~iiar~~~~~~~~~l~~~------Gad~vv~p~~~~a~~i~~~l~~ 549 (558)
T PRK10669 496 GEIVASAREKR-PDIEIIARAHYDDEVAYITER------GANQVVMGEREIARTMLELLET 549 (558)
T ss_pred HHHHHHHHHHC-CCCeEEEEECCHHHHHHHHHc------CCCEEEChHHHHHHHHHHHhcC
Confidence 333333333 45667654 55566778887 9998888887777777766654
No 253
>PRK12829 short chain dehydrogenase; Provisional
Probab=55.44 E-value=57 Score=27.68 Aligned_cols=39 Identities=15% Similarity=0.065 Sum_probs=29.7
Q ss_pred ccccCCCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024727 41 ATSASASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 41 ~~~~~~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~ 79 (263)
++.+...+.+++||||..... ...+.+.|.+.|++|..+
T Consensus 2 ~~~~~~~~~~~~vlItGa~g~iG~~~a~~L~~~g~~V~~~ 41 (264)
T PRK12829 2 AIDLLKPLDGLRVLVTGGASGIGRAIAEAFAEAGARVHVC 41 (264)
T ss_pred hhhHhhccCCCEEEEeCCCCcHHHHHHHHHHHCCCEEEEE
Confidence 345667788999999988654 467888888999876543
No 254
>TIGR01140 L_thr_O3P_dcar L-threonine-O-3-phosphate decarboxylase. This family contains pyridoxal phosphate-binding class II aminotransferases (see PFAM:PF00222) closely related to, yet distinct from, histidinol-phosphate aminotransferase (HisC). It is found in cobalamin biosynthesis operons in Salmonella typhimurium and Bacillus halodurans (each of which also has HisC) and has been shown to have L-threonine-O-3-phosphate decarboxylase activity in Salmonella. Although the gene symbol cobD was assigned in Salmonella, cobD in other contexts refers to a different cobalamin biosynthesis enzyme, modeled by pfam03186 and called cbiB in Salmonella.
Probab=55.38 E-value=72 Score=28.62 Aligned_cols=86 Identities=17% Similarity=0.154 Sum_probs=48.2
Q ss_pred ChhHHHHHHHhhhhcCCCCce-eecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccc
Q 024727 135 GAGTASIFEEVIQSSKCSLDV-AFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 135 G~~Ta~~L~~~~~~~~~G~~~-~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
|+.-.+.+.+++ |+.+ .+.....+.+++. .+.....+| ++++... .-..+...++..|+++..++
T Consensus 49 ~~~lr~~la~~~-----~~~~~~i~~t~G~~~~i~-~~~~~l~~g-~vl~~~p--~y~~~~~~~~~~g~~~~~~~----- 114 (330)
T TIGR01140 49 YDELRAAAAAYY-----GLPAASVLPVNGAQEAIY-LLPRLLAPG-RVLVLAP--TYSEYARAWRAAGHEVVELP----- 114 (330)
T ss_pred HHHHHHHHHHHh-----CCChhhEEECCCHHHHHH-HHHHHhCCC-eEEEeCC--CcHHHHHHHHHcCCEEEEeC-----
Confidence 466777777765 6542 2222334444443 333333344 6766643 33456777888888876665
Q ss_pred cCCCChHHHHHHhCCCCEEEEeCHH
Q 024727 214 PVHHVDQTVLKQALSIPVVAVASPS 238 (263)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~vvFtS~s 238 (263)
+.+.+.+.+.+...|++++|.
T Consensus 115 ----d~~~l~~~~~~~~~v~i~~p~ 135 (330)
T TIGR01140 115 ----DLDRLPAALEELDVLVLCNPN 135 (330)
T ss_pred ----CHHHHHhhcccCCEEEEeCCC
Confidence 233444444566678788764
No 255
>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=55.31 E-value=41 Score=28.51 Aligned_cols=74 Identities=15% Similarity=0.042 Sum_probs=43.1
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~ 136 (263)
.-+.+.++++|..+.....+......+ .+.+...++....+|+|++++......+++.+.+.++ +++.+++.+.
T Consensus 137 ~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~~~~~~l~~~g~~~p~~i~vig~d~ 215 (268)
T cd06273 137 AGVRAALAEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAVICGNDVLALGALYEARRLGLSVPEDLSIVGFDD 215 (268)
T ss_pred HHHHHHHHHcCCCCCHHHeeeCCCcHHHHHHHHHHHHcCCCCCCEEEEcChHHHHHHHHHHHHcCCCCCCceEEEecCC
Confidence 345667777776543322222111111 1234444433356899999998878788888888765 3566777664
No 256
>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=55.22 E-value=1.5e+02 Score=26.07 Aligned_cols=171 Identities=9% Similarity=0.040 Sum_probs=89.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
..+.+.+.++|+++...+... +.+.....+. ....+|++|+.+..... ...+... +.+++++|...
T Consensus 79 ~~i~~~~~~~gy~~~i~~~~~-----~~~~~~~~~~~l~~~~vdGvIi~~~~~~~--~~~l~~~---~~p~V~i~~~~-- 146 (311)
T TIGR02405 79 SGMLPVFYTAGYDPIIMESQF-----SPQLTNEHLSVLQKRNVDGVILFGFTGCD--EEILESW---NHKAVVIARDT-- 146 (311)
T ss_pred HHHHHHHHHCCCeEEEecCCC-----ChHHHHHHHHHHHhcCCCEEEEeCCCCCC--HHHHHhc---CCCEEEEecCC--
Confidence 345666778898877553221 1111112221 12568999987532111 0122222 35788888521
Q ss_pred HHHHhhhhcCCCCceeecCCCC-CHHHHHHHhccCCCCCcEEEEEcCCCC--------chhHHHHHHhCCCeeeEEeeec
Q 024727 141 IFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~~~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~~~vY~ 211 (263)
. ++.. +..+.+ .+..+++.|.+. ..++|.++.+... ..-+.+.+++.|+.. ...+.
T Consensus 147 ----~------~~~~-V~~D~~~~~~~a~~~L~~~--Ghr~I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi~~--~~~~~ 211 (311)
T TIGR02405 147 ----G------GFSS-VCYDDYGAIELLMANLYQQ--GHRHISFLGVDPSDKTTGLMRHNAYLAYCESANLEP--IYQTG 211 (311)
T ss_pred ----C------CccE-EEeCcHHHHHHHHHHHHHc--CCCcEEEEccCcccchhHHHHHHHHHHHHHHcCCCc--eeeeC
Confidence 2 2322 333433 345566677664 3478999975321 133567788888763 11121
Q ss_pred cccCCCChHH-HHHHh-CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 212 TEPVHHVDQT-VLKQA-LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 212 ~~~~~~~~~~-~~~~l-~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
........+ +.+.+ .++++|+..+-..+. .+++.+.+....++.|++++
T Consensus 212 -~~~~~~~~~~~~~~l~~~~tAi~~~~D~~A~-g~~~~l~~~g~~dvsvvgfd 262 (311)
T TIGR02405 212 -QLSHESGYVLTDKVLKPETTALVCATDTLAL-GAAKYLQELDRSDVQVSSVG 262 (311)
T ss_pred -CCCHHHHHHHHHHHHhcCCCEEEECCcHHHH-HHHHHHHHcCCCCeEEEeeC
Confidence 111111112 22222 368999998888888 77777765444566676665
No 257
>PRK08415 enoyl-(acyl carrier protein) reductase; Provisional
Probab=54.96 E-value=1.4e+02 Score=25.93 Aligned_cols=71 Identities=11% Similarity=0.047 Sum_probs=43.6
Q ss_pred CCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE---EeCHHHHHHHHHHH
Q 024727 48 NSNPKVVVTRER---GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII---ITSPEAGSVFLEAW 121 (263)
Q Consensus 48 l~g~~ILitr~~---~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~Ii---FTS~~aV~~~~~~l 121 (263)
+.|+.+|||... .=...+++.|.+.|++++.. .+... ..+.+++..+.++.- ..+ +++..+++.+++.+
T Consensus 3 l~~k~~lItGas~~~GIG~aiA~~la~~G~~Vil~--~r~~~--~~~~~~~~~~~~~~~-~~~~~Dv~d~~~v~~~~~~i 77 (274)
T PRK08415 3 MKGKKGLIVGVANNKSIAYGIAKACFEQGAELAFT--YLNEA--LKKRVEPIAQELGSD-YVYELDVSKPEHFKSLAESL 77 (274)
T ss_pred cCCcEEEEECCCCCCCHHHHHHHHHHHCCCEEEEE--ecCHH--HHHHHHHHHHhcCCc-eEEEecCCCHHHHHHHHHHH
Confidence 568999999874 34678999999999987643 22111 112233332222221 222 57888999988887
Q ss_pred HH
Q 024727 122 KE 123 (263)
Q Consensus 122 ~~ 123 (263)
.+
T Consensus 78 ~~ 79 (274)
T PRK08415 78 KK 79 (274)
T ss_pred HH
Confidence 65
No 258
>PRK08410 2-hydroxyacid dehydrogenase; Provisional
Probab=54.72 E-value=1.6e+02 Score=26.49 Aligned_cols=62 Identities=11% Similarity=0.077 Sum_probs=39.2
Q ss_pred CCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCC----ChHHHHHHhCCCCEEEEeCHHHHH
Q 024727 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH----VDQTVLKQALSIPVVAVASPSAVR 241 (263)
Q Consensus 177 ~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~----~~~~~~~~l~~~d~vvFtS~s~v~ 241 (263)
.|+++.++.-..-...+.+.++.-|.+|. .|++..... ....+.+.+...|+|++.-|.+-+
T Consensus 144 ~gktvGIiG~G~IG~~vA~~~~~fgm~V~---~~d~~~~~~~~~~~~~~l~ell~~sDvv~lh~Plt~~ 209 (311)
T PRK08410 144 KGKKWGIIGLGTIGKRVAKIAQAFGAKVV---YYSTSGKNKNEEYERVSLEELLKTSDIISIHAPLNEK 209 (311)
T ss_pred CCCEEEEECCCHHHHHHHHHHhhcCCEEE---EECCCccccccCceeecHHHHhhcCCEEEEeCCCCch
Confidence 56788888766555678888988887664 455422111 011244445789999998886543
No 259
>PRK06490 glutamine amidotransferase; Provisional
Probab=54.71 E-value=91 Score=27.03 Aligned_cols=54 Identities=11% Similarity=-0.015 Sum_probs=36.0
Q ss_pred CCCeEEEeCCC--CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH
Q 024727 49 SNPKVVVTRER--GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP 111 (263)
Q Consensus 49 ~g~~ILitr~~--~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~ 111 (263)
..++|++.+.. +....+.+.|++.|.++.....+.-.+.++ .+.+||.+|+|-+
T Consensus 6 ~~~~vlvi~h~~~~~~g~l~~~l~~~g~~~~v~~~~~~~~~p~---------~l~~~dgvii~Gg 61 (239)
T PRK06490 6 DKRPVLIVLHQERSTPGRVGQLLQERGYPLDIRRPRLGDPLPD---------TLEDHAGAVIFGG 61 (239)
T ss_pred CCceEEEEecCCCCCChHHHHHHHHCCCceEEEeccCCCCCCC---------cccccCEEEEECC
Confidence 36788888654 356789999999999888654442222221 3567999888843
No 260
>PRK06139 short chain dehydrogenase; Provisional
Probab=54.69 E-value=1e+02 Score=27.94 Aligned_cols=75 Identities=9% Similarity=0.041 Sum_probs=45.3
Q ss_pred CCCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE----EeCHHHHHHHHH
Q 024727 45 SASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII----ITSPEAGSVFLE 119 (263)
Q Consensus 45 ~~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~Ii----FTS~~aV~~~~~ 119 (263)
++++.+++||||....+ ...+++.|.+.|++++.. -+.. +..+++...++..+ .+..+ +++..+++.+++
T Consensus 2 ~~~l~~k~vlITGAs~GIG~aia~~la~~G~~Vvl~--~R~~--~~l~~~~~~~~~~g-~~~~~~~~Dv~d~~~v~~~~~ 76 (330)
T PRK06139 2 MGPLHGAVVVITGASSGIGQATAEAFARRGARLVLA--ARDE--EALQAVAEECRALG-AEVLVVPTDVTDADQVKALAT 76 (330)
T ss_pred CcCCCCCEEEEcCCCCHHHHHHHHHHHHCCCEEEEE--ECCH--HHHHHHHHHHHhcC-CcEEEEEeeCCCHHHHHHHHH
Confidence 46788999999987654 467899999999987632 1110 01122222232221 22222 478889998888
Q ss_pred HHHHc
Q 024727 120 AWKEA 124 (263)
Q Consensus 120 ~l~~~ 124 (263)
.+.+.
T Consensus 77 ~~~~~ 81 (330)
T PRK06139 77 QAASF 81 (330)
T ss_pred HHHHh
Confidence 77654
No 261
>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=54.23 E-value=87 Score=26.96 Aligned_cols=88 Identities=11% Similarity=0.073 Sum_probs=43.7
Q ss_pred CCCCCeEEEeCC----CCChHHHH----HHHHhCCCcEEEeceEEeeeCCC-----chHHHHHHhcCCCccEEEEeCH--
Q 024727 47 SNSNPKVVVTRE----RGKNGKLI----KALAKHRIDCLELPLIQHAQGPD-----TDRLSSVLNADTIFDWIIITSP-- 111 (263)
Q Consensus 47 ~l~g~~ILitr~----~~~~~~l~----~~L~~~G~~v~~~p~~~~~~~~~-----~~~l~~~l~~l~~~d~IiFTS~-- 111 (263)
+.+.++|++.-+ ...+..+. +.+.+.|+++..+.+ .-.|+.+ ...+....+.....|++||.||
T Consensus 23 ~~~~~kI~~I~GSlR~~S~n~~la~~~~~~~~~~g~~v~~idl-~~lPl~~~d~~~~p~v~~l~~~v~~ADgvii~TPEY 101 (219)
T TIGR02690 23 KPHIPRILLLYGSLRERSYSRLLAEEAARLLGCEGRETRIFDP-PGLPLPDAAHADHPKVRELRQLSEWSEGQVWCSPER 101 (219)
T ss_pred CCCCCEEEEEECCCCCcchHHHHHHHHHHHHhhcCCEEEEeCc-ccCCCCCcCcccCHHHHHHHHHHHhCCEEEEeCCcc
Confidence 344456665432 23333333 344546888876653 2122221 1122333334567899999998
Q ss_pred -----HHHHHHHHHHHHc-----CCCCcEEEEeC
Q 024727 112 -----EAGSVFLEAWKEA-----GTPNVRIGVVG 135 (263)
Q Consensus 112 -----~aV~~~~~~l~~~-----~~~~~~i~aVG 135 (263)
.+.++++..+... .+.++++.++|
T Consensus 102 n~sipg~LKNaiDwls~~~~~~~~~~~Kpvaivg 135 (219)
T TIGR02690 102 HGAITGSQKDQIDWIPLSVGPVRPTQGKTLAVMQ 135 (219)
T ss_pred ccCcCHHHHHHHHhcccCcccccccCCCcEEEEE
Confidence 3444444444321 23456666554
No 262
>cd01740 GATase1_FGAR_AT Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase. Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase (FGAR-AT). FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP, Pi, and glutamate in the fourth step of the purine biosynthetic pathway. FGAR-AT is a glutamine amidotransferase. Glutamine amidotransferase activity catalyses the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. FGAR-AT belongs to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site
Probab=53.99 E-value=56 Score=28.24 Aligned_cols=78 Identities=12% Similarity=0.027 Sum_probs=47.3
Q ss_pred CCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH------------HH-HHHHHHHc
Q 024727 58 ERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG------------SV-FLEAWKEA 124 (263)
Q Consensus 58 ~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV------------~~-~~~~l~~~ 124 (263)
......++...|++.|+++..++.-+.. .. ...+.+||.||+.-.... +. +.+.+++.
T Consensus 8 G~n~~~~~~~al~~aG~~v~~v~~~~~~--~~-------~~~l~~~d~liipGG~~~~d~l~~~~~~~~~~~~~~~l~~~ 78 (238)
T cd01740 8 GSNCDRDMAYAFELAGFEAEDVWHNDLL--AG-------RKDLDDYDGVVLPGGFSYGDYLRAGAIAAASPLLMEEVKEF 78 (238)
T ss_pred CcCCHHHHHHHHHHcCCCEEEEeccCCc--cc-------cCCHhhCCEEEECCCCCcccccccccccccChhHHHHHHHH
Confidence 3344567899999999999987764321 11 012467999999876321 11 23333333
Q ss_pred CCCCcEEEEeChhHHHHHHHh
Q 024727 125 GTPNVRIGVVGAGTASIFEEV 145 (263)
Q Consensus 125 ~~~~~~i~aVG~~Ta~~L~~~ 145 (263)
...++++++|.-. .+.|-+.
T Consensus 79 ~~~g~pvlGIC~G-~QlL~~~ 98 (238)
T cd01740 79 AERGGLVLGICNG-FQILVEL 98 (238)
T ss_pred HhCCCeEEEECcH-HHHHHHc
Confidence 2247888877744 4677776
No 263
>PRK06895 putative anthranilate synthase component II; Provisional
Probab=53.92 E-value=1.3e+02 Score=24.90 Aligned_cols=87 Identities=14% Similarity=0.152 Sum_probs=50.2
Q ss_pred CeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEe-CHH---HHHHHHHHHHHcC
Q 024727 51 PKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIIT-SPE---AGSVFLEAWKEAG 125 (263)
Q Consensus 51 ~~ILitr~~~-~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFT-S~~---aV~~~~~~l~~~~ 125 (263)
|+||+....+ -.-.+.+.|++.|.++..++..+.. . ..+..+|.||++ ++. ........++..
T Consensus 2 ~~iliid~~dsf~~~i~~~l~~~g~~~~v~~~~~~~----~-------~~l~~~d~iIi~gGp~~~~~~~~~~~~i~~~- 69 (190)
T PRK06895 2 TKLLIINNHDSFTFNLVDLIRKLGVPMQVVNVEDLD----L-------DEVENFSHILISPGPDVPRAYPQLFAMLERY- 69 (190)
T ss_pred cEEEEEeCCCchHHHHHHHHHHcCCcEEEEECCccC----h-------hHhccCCEEEECCCCCChHHhhHHHHHHHHh-
Confidence 6788887644 3456999999999988877654321 1 124578999988 443 222233334331
Q ss_pred CCCcEEEEeChhHHHHHHHhhhhcCCCCce
Q 024727 126 TPNVRIGVVGAGTASIFEEVIQSSKCSLDV 155 (263)
Q Consensus 126 ~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~ 155 (263)
..+++++.|-=.- +.|...+ |-++
T Consensus 70 ~~~~PiLGIClG~-Qlla~~~-----Gg~V 93 (190)
T PRK06895 70 HQHKSILGVCLGH-QTLCEFF-----GGEL 93 (190)
T ss_pred cCCCCEEEEcHHH-HHHHHHh-----CCeE
Confidence 2366775443332 3444443 6555
No 264
>PRK05476 S-adenosyl-L-homocysteine hydrolase; Provisional
Probab=53.72 E-value=2.1e+02 Score=27.33 Aligned_cols=183 Identities=13% Similarity=0.057 Sum_probs=93.3
Q ss_pred cCCCCCCCeEEEeCCC-CChHHHHHHHHhCCCcEEEece--EEeeeCCCchHHHHHHhcC--------------------
Q 024727 44 ASASNSNPKVVVTRER-GKNGKLIKALAKHRIDCLELPL--IQHAQGPDTDRLSSVLNAD-------------------- 100 (263)
Q Consensus 44 ~~~~l~g~~ILitr~~-~~~~~l~~~L~~~G~~v~~~p~--~~~~~~~~~~~l~~~l~~l-------------------- 100 (263)
..+|+.|.+|...-.- .+...+.+.|.+.|++|...-. +.++ +.+-..|.+.
T Consensus 42 ~~~pl~G~~i~~~~Hl~~~Ta~l~~~L~~~GA~v~~~~~np~Stq-----d~vaaaL~~~gi~v~a~~~~~~~ey~~~~~ 116 (425)
T PRK05476 42 AEKPLKGARIAGCLHMTIQTAVLIETLKALGAEVRWASCNPFSTQ-----DDVAAALAAAGIPVFAWKGETLEEYWECIE 116 (425)
T ss_pred ccCCCCCCEEEEEEeccccHHHHHHHHHHcCCEEEEEeCCCcccC-----HHHHHHHHHCCceEEecCCCCHHHHHHHHH
Confidence 3499999999988774 3678899999999999874321 2222 2233333221
Q ss_pred -----CCccEEEEeCHHHHHHHHHHHHHcCCCCcEEE-EeChhHHH--HHHHhhhhcCCCCceeecCCC----------C
Q 024727 101 -----TIFDWIIITSPEAGSVFLEAWKEAGTPNVRIG-VVGAGTAS--IFEEVIQSSKCSLDVAFSPSK----------A 162 (263)
Q Consensus 101 -----~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~-aVG~~Ta~--~L~~~~~~~~~G~~~~~~p~~----------~ 162 (263)
..++.|+=.-..-+..+.....+. ..++. ++=+.|.. .|++.......++.+.-++.. .
T Consensus 117 ~~l~~~~p~iiiDdGgdl~~~~~~~~~~~---~~~i~G~~EeTttGv~rl~~~~~~~~l~~Pv~~vn~s~~K~~~dn~~g 193 (425)
T PRK05476 117 RALDGHGPNMILDDGGDLTLLVHTERPEL---LANIKGVTEETTTGVHRLYAMAKDGALKFPAINVNDSVTKSKFDNRYG 193 (425)
T ss_pred HHhcCCCCCEEEecccHHHHHHHHHhhHh---HhccEeeeecchHHHHHHHHHHHcCCCCCCEEecCCcccCccccccHH
Confidence 112222211111111111100000 12333 33333332 333321112236665433321 1
Q ss_pred CHHHHHHHhccC---CCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCC--------hHHHHHHhCCCCE
Q 024727 163 TGKILASELPKN---GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHV--------DQTVLKQALSIPV 231 (263)
Q Consensus 163 t~e~L~~~l~~~---~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~--------~~~~~~~l~~~d~ 231 (263)
+.++.+..+.+. ...|++++++....-...+...|+..|++| .+|++.+.... ...+.+.+...|+
T Consensus 194 t~~s~~~ai~rat~~~l~Gk~VlViG~G~IG~~vA~~lr~~Ga~V---iV~d~dp~ra~~A~~~G~~v~~l~eal~~aDV 270 (425)
T PRK05476 194 TGESLLDGIKRATNVLIAGKVVVVAGYGDVGKGCAQRLRGLGARV---IVTEVDPICALQAAMDGFRVMTMEEAAELGDI 270 (425)
T ss_pred HHhhhHHHHHHhccCCCCCCEEEEECCCHHHHHHHHHHHhCCCEE---EEEcCCchhhHHHHhcCCEecCHHHHHhCCCE
Confidence 456666555533 236889999888776677888999999864 55554332210 0012222457898
Q ss_pred EEEeCH
Q 024727 232 VAVASP 237 (263)
Q Consensus 232 vvFtS~ 237 (263)
|+-+.+
T Consensus 271 VI~aTG 276 (425)
T PRK05476 271 FVTATG 276 (425)
T ss_pred EEECCC
Confidence 877653
No 265
>COG0623 FabI Enoyl-[acyl-carrier-protein]
Probab=53.70 E-value=1.2e+02 Score=26.73 Aligned_cols=139 Identities=12% Similarity=0.059 Sum_probs=78.1
Q ss_pred CCCCCCeEEEeCCCCChH---HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE---EeCHHHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGKNG---KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII---ITSPEAGSVFLE 119 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~~~---~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~Ii---FTS~~aV~~~~~ 119 (263)
..|.||++||+.-.+.+. -+++.|.++|++...- |..+.+ ..+++...+.++. ++++ .|+-..++..+.
T Consensus 2 g~L~GK~~lI~Gvan~rSIAwGIAk~l~~~GAeL~fT--y~~e~l--~krv~~la~~~~s-~~v~~cDV~~d~~i~~~f~ 76 (259)
T COG0623 2 GLLEGKRILIMGVANNRSIAWGIAKALAEQGAELAFT--YQGERL--EKRVEELAEELGS-DLVLPCDVTNDESIDALFA 76 (259)
T ss_pred CccCCceEEEEEecccccHHHHHHHHHHHcCCEEEEE--eccHHH--HHHHHHHHhhccC-CeEEecCCCCHHHHHHHHH
Confidence 458899999997544332 4889999999987642 222211 2334443333332 3333 378888999999
Q ss_pred HHHHcCC-CCcEEEEeChhHHHHHHHhh-hhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCC
Q 024727 120 AWKEAGT-PNVRIGVVGAGTASIFEEVI-QSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA 189 (263)
Q Consensus 120 ~l~~~~~-~~~~i~aVG~~Ta~~L~~~~-~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~ 189 (263)
.+++.+- -+.-+=|||=.-++.|.-.+ .-+..||.....-..|+--.|++........|..++-+..-++
T Consensus 77 ~i~~~~g~lD~lVHsIaFa~k~el~G~~~dtsre~f~~a~~IS~YS~~~lak~a~~lM~~ggSiltLtYlgs 148 (259)
T COG0623 77 TIKKKWGKLDGLVHSIAFAPKEELKGDYLDTSREGFLIAMDISAYSFTALAKAARPLMNNGGSILTLTYLGS 148 (259)
T ss_pred HHHHhhCcccEEEEEeccCChHHhCCcccccCHHHHHhHhhhhHhhHHHHHHHHHHhcCCCCcEEEEEeccc
Confidence 8887532 14445566655555554220 0000122221222345666677776666666777776665543
No 266
>PF00266 Aminotran_5: Aminotransferase class-V; InterPro: IPR000192 Aminotransferases share certain mechanistic features with other pyridoxal- phosphate dependent enzymes, such as the covalent binding of the pyridoxal- phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into subfamilies. This entry represents the class V aminotransferases and the related, though functionally distinct, cysteine desulfurases.; GO: 0008152 metabolic process; PDB: 3FFR_A 1N2T_B 1ELQ_A 1N31_A 1ELU_B 1QZ9_A 1VJO_A 3ISL_B 1BJO_B 1BJN_B ....
Probab=53.56 E-value=69 Score=29.13 Aligned_cols=62 Identities=18% Similarity=0.142 Sum_probs=41.7
Q ss_pred CCCcEEEEEcCCCCchh--HHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh-CCCCEEEEeCHHH
Q 024727 176 KKKCTVLYPASAKASNE--IEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAVASPSA 239 (263)
Q Consensus 176 ~~~~~vL~~~g~~~~~~--L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~d~vvFtS~s~ 239 (263)
.++.+|++...+..... +...-+..|++|..+++......+ .+++.+.+ .+.+.|+|+-.+.
T Consensus 86 ~~g~~vl~~~~~~~s~~~~~~~~~~~~g~~v~~i~~~~~~~~~--~~~~~~~l~~~~~lv~~~~~~~ 150 (371)
T PF00266_consen 86 KPGDEVLVTSNEHPSNRYPWEEIAKRKGAEVRVIPADPGGSLD--LEDLEEALNPDTRLVSISHVEN 150 (371)
T ss_dssp TTTCEEEEEESSHHHHHHHHHHHHHHTTEEEEEEEEGTTSSCS--HHHHHHHHHTTESEEEEESBET
T ss_pred ccccccccccccccccccccccccccchhhhccccccccchhh--hhhhhhhhccccceEEeecccc
Confidence 46788988888876554 455555889999988886543322 34455555 6888888875543
No 267
>PRK14183 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=53.49 E-value=1.5e+02 Score=26.60 Aligned_cols=146 Identities=17% Similarity=0.091 Sum_probs=79.8
Q ss_pred HHHHHhCCCcEEEeceEEeeeCCCchHHHHHH---hcCCCccEEEEeCHH--HHH--HHHHHHHH-cCCCCcEEEEeChh
Q 024727 66 IKALAKHRIDCLELPLIQHAQGPDTDRLSSVL---NADTIFDWIIITSPE--AGS--VFLEAWKE-AGTPNVRIGVVGAG 137 (263)
Q Consensus 66 ~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l---~~l~~~d~IiFTS~~--aV~--~~~~~l~~-~~~~~~~i~aVG~~ 137 (263)
.+..++.|+++..+.+-+. .+.+++.+.+ ++..+.|.|+.--|- .++ ..++.+.. ...|+..-+-.|
T Consensus 53 ~k~a~~~Gi~~~~~~l~~~---~~~~~l~~~I~~lN~D~~V~GIlvq~PlP~~i~~~~i~~~I~p~KDVDGl~~~n~g-- 127 (281)
T PRK14183 53 AKACDRVGIYSITHEMPST---ISQKEILETIAMMNNNPNIDGILVQLPLPKHIDTTKILEAIDPKKDVDGFHPYNVG-- 127 (281)
T ss_pred HHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCccCeEEEeCCCCCCCCHHHHHhccCchhcccccChhhhh--
Confidence 4456677988765544221 1223344444 344678999988773 221 12222211 112344334344
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCC-CCchhHHHHHHhCCCeeeEEeeecccc
Q 024727 138 TASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASA-KASNEIEEGLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~-~~~~~L~~~L~~~G~~v~~~~vY~~~~ 214 (263)
.|. . |-. .+.| -|+.+.++.|..+. ..|++++++... .-..-+...|.++|+.|+- |....
T Consensus 128 ---~l~-~------g~~-~~~P--cTp~avi~lL~~~~i~l~Gk~vvViGrS~~VG~Pla~lL~~~~AtVti--~hs~T- 191 (281)
T PRK14183 128 ---RLV-T------GLD-GFVP--CTPLGVMELLEEYEIDVKGKDVCVVGASNIVGKPMAALLLNANATVDI--CHIFT- 191 (281)
T ss_pred ---HHh-c------CCC-CCCC--CcHHHHHHHHHHcCCCCCCCEEEEECCCCcchHHHHHHHHHCCCEEEE--eCCCC-
Confidence 221 2 422 2444 47888988887653 468888877655 4455588889899998853 32211
Q ss_pred CCCChHHHHHHhCCCCEEEEeCH
Q 024727 215 VHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 215 ~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
.. +.+..+..|+|+-.-+
T Consensus 192 --~~---l~~~~~~ADIvV~AvG 209 (281)
T PRK14183 192 --KD---LKAHTKKADIVIVGVG 209 (281)
T ss_pred --cC---HHHHHhhCCEEEEecC
Confidence 11 2223457888876654
No 268
>PRK05569 flavodoxin; Provisional
Probab=53.16 E-value=75 Score=24.56 Aligned_cols=11 Identities=45% Similarity=0.576 Sum_probs=6.3
Q ss_pred CCCCEEEEeCH
Q 024727 227 LSIPVVAVASP 237 (263)
Q Consensus 227 ~~~d~vvFtS~ 237 (263)
.+.|.|+|-||
T Consensus 47 ~~~d~iilgsP 57 (141)
T PRK05569 47 LEADAVAFGSP 57 (141)
T ss_pred hhCCEEEEECC
Confidence 35566666655
No 269
>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=53.02 E-value=96 Score=26.07 Aligned_cols=74 Identities=14% Similarity=0.064 Sum_probs=42.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
-+.+.++++|..+............. .+.+...++.....++|++.+-.....+++.+.+.+. +++.+++.+..
T Consensus 137 gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~~p~di~vig~d~~ 215 (268)
T cd01575 137 GFRAALRAAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFCSNDDLALGALFECQRRGISVPEDIAIAGFGDL 215 (268)
T ss_pred HHHHHHHHcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHhCCCCCcceEEEecCCc
Confidence 45667777776433222211111000 1234445544346899998888777778888887764 36677777754
No 270
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=52.96 E-value=58 Score=24.54 Aligned_cols=73 Identities=15% Similarity=0.150 Sum_probs=39.3
Q ss_pred cEEEEEcCCCCc-----hhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhcccc
Q 024727 179 CTVLYPASAKAS-----NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDT 251 (263)
Q Consensus 179 ~~vL~~~g~~~~-----~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~ 251 (263)
++||++||.+-. ..+.+.++++|+++. +...-. .++.+.. .++|+|+ +.| .++ +..+.+++.
T Consensus 2 kkILlvCg~G~STSlla~k~k~~~~e~gi~~~---i~a~~~-----~e~~~~~~~~~~DvIl-l~P-Qi~-~~~~~i~~~ 70 (104)
T PRK09590 2 KKALIICAAGMSSSMMAKKTTEYLKEQGKDIE---VDAITA-----TEGEKAIAAAEYDLYL-VSP-QTK-MYFKQFEEA 70 (104)
T ss_pred cEEEEECCCchHHHHHHHHHHHHHHHCCCceE---EEEecH-----HHHHHhhccCCCCEEE-ECh-HHH-HHHHHHHHH
Confidence 478999998763 445677788888642 222111 1122222 3578544 444 355 445444432
Q ss_pred -CCCCceEEEEC
Q 024727 252 -EQWSNSVACIA 262 (263)
Q Consensus 252 -~~~~~~i~~IG 262 (263)
...++++.+|.
T Consensus 71 ~~~~~ipv~~I~ 82 (104)
T PRK09590 71 GAKVGKPVVQIP 82 (104)
T ss_pred hhhcCCCEEEeC
Confidence 13477888774
No 271
>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=52.96 E-value=91 Score=26.75 Aligned_cols=47 Identities=17% Similarity=0.132 Sum_probs=32.2
Q ss_pred HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhH
Q 024727 92 RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGT 138 (263)
Q Consensus 92 ~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~T 138 (263)
.++..+..-.++|+|+.++-......++.+++.+..++.++..+...
T Consensus 173 ~~~~~l~~~~~~~ai~~~nd~~a~g~~~al~~~g~~di~vvgfd~~~ 219 (272)
T cd06313 173 IWETWLTKYPQLDGAFCHNDSMALAAYQIMKAAGRTKIVIGGVDGDP 219 (272)
T ss_pred HHHHHHHhCCCCCEEEECCCcHHHHHHHHHHHcCCCceEEEeecCCH
Confidence 34455544345788888888877777788877776567777776543
No 272
>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=52.90 E-value=1e+02 Score=26.01 Aligned_cols=73 Identities=15% Similarity=0.051 Sum_probs=41.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCC--CchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeCh
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGP--DTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGA 136 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~--~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~ 136 (263)
-+.+.++++|.++.....+...... ....+...++....+|+|+++|-.....+++.+.+.+. .++.+++.+.
T Consensus 137 gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~vp~di~v~g~d~ 214 (269)
T cd06288 137 GYRQALAEAGIPFDPDLVVHGDWSADDGYEAAAALLDLDDRPTAIFCGNDRMAMGAYQALLERGLRIPQDVSVVGFDN 214 (269)
T ss_pred HHHHHHHHcCCCCCHHHeEeCCCChHHHHHHHHHHHhCCCCCCEEEEeCcHHHHHHHHHHHHcCCCCcccceEEeeCC
Confidence 3456666777654322122111111 12334455544446899999988877777788887765 3666777764
No 273
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=52.86 E-value=70 Score=28.25 Aligned_cols=76 Identities=17% Similarity=0.221 Sum_probs=38.0
Q ss_pred HHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhC--CCCEEEEeCHHHHHHH
Q 024727 166 ILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--SIPVVAVASPSAVRSS 243 (263)
Q Consensus 166 ~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~--~~d~vvFtS~s~v~~~ 243 (263)
.|++++.+ .|.++.|++-+... .+.+.+++.|+.|..++--. . ...+..++.+.+. ++|+|+.++...-. .
T Consensus 22 ~LA~~l~~---~g~~v~f~~~~~~~-~~~~~i~~~g~~v~~~~~~~-~-~~~d~~~~~~~l~~~~~d~vV~D~y~~~~-~ 94 (279)
T TIGR03590 22 TLARALHA---QGAEVAFACKPLPG-DLIDLLLSAGFPVYELPDES-S-RYDDALELINLLEEEKFDILIVDHYGLDA-D 94 (279)
T ss_pred HHHHHHHH---CCCEEEEEeCCCCH-HHHHHHHHcCCeEEEecCCC-c-hhhhHHHHHHHHHhcCCCEEEEcCCCCCH-H
Confidence 45555533 34666666655433 45567777777665443211 0 1111222333332 67888888764333 4
Q ss_pred HHHhc
Q 024727 244 WVNLI 248 (263)
Q Consensus 244 ~~~~~ 248 (263)
+.+.+
T Consensus 95 ~~~~~ 99 (279)
T TIGR03590 95 WEKLI 99 (279)
T ss_pred HHHHH
Confidence 44444
No 274
>PF02670 DXP_reductoisom: 1-deoxy-D-xylulose 5-phosphate reductoisomerase; InterPro: IPR013512 1-deoxy-D-xylulose 5-phosphate reductoisomerase synthesises 2-C-methyl-D-erythritol 4-phosphate from 1-deoxy-D-xylulose 5-phosphate in a single step by intramolecular rearrangement and reduction and is responsible for terpenoid biosynthesis in some organisms []. In Arabidopsis thaliana 1-deoxy-D-xylulose 5-phosphate reductoisomerase is the first committed enzyme of the non-mevalonate pathway for isoprenoid biosynthesis. The enzyme requires Mn2+, Co2+ or Mg2+ for activity, with the first being most effective. This domain is found at the N terminus of bacterial and plant 1-deoxy-D-xylulose 5-phosphate reductoisomerases.; GO: 0070402 NADPH binding, 0055114 oxidation-reduction process; PDB: 1R0K_D 1R0L_C 3A14_A 3A06_A 3AUA_A 3AU9_B 3AU8_B 3IIE_A 2Y1D_B 4AIC_A ....
Probab=52.78 E-value=14 Score=29.09 Aligned_cols=86 Identities=15% Similarity=0.176 Sum_probs=57.4
Q ss_pred EeChhHHHHHHHhhhhcCCC--CceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeee
Q 024727 133 VVGAGTASIFEEVIQSSKCS--LDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 133 aVG~~Ta~~L~~~~~~~~~G--~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY 210 (263)
+||..|-+.++++ . |++.-.....+.+.|.+.+.++. -+.+++..+...+.+.+.|...+..+ .+|
T Consensus 9 SIG~qtLdVi~~~------~d~f~v~~Lsa~~n~~~L~~q~~~f~---p~~v~i~~~~~~~~l~~~~~~~~~~~---~v~ 76 (129)
T PF02670_consen 9 SIGTQTLDVIRKH------PDKFEVVALSAGSNIEKLAEQAREFK---PKYVVIADEEAYEELKKALPSKGPGI---EVL 76 (129)
T ss_dssp HHHHHHHHHHHHC------TTTEEEEEEEESSTHHHHHHHHHHHT----SEEEESSHHHHHHHHHHHHHTTSSS---EEE
T ss_pred HHHHHHHHHHHhC------CCceEEEEEEcCCCHHHHHHHHHHhC---CCEEEEcCHHHHHHHHHHhhhcCCCC---EEE
Confidence 5899999999998 7 66655556788999998888874 56777777777788888886555533 222
Q ss_pred ccccCCCChHHHHHHh--CCCCEEEEeC
Q 024727 211 TTEPVHHVDQTVLKQA--LSIPVVAVAS 236 (263)
Q Consensus 211 ~~~~~~~~~~~~~~~l--~~~d~vvFtS 236 (263)
. -.+.+.+.. .++|+++...
T Consensus 77 ~------G~~~l~~~~~~~~~D~vv~Ai 98 (129)
T PF02670_consen 77 S------GPEGLEELAEEPEVDIVVNAI 98 (129)
T ss_dssp E------SHHHHHHHHTHTT-SEEEE--
T ss_pred e------ChHHHHHHhcCCCCCEEEEeC
Confidence 2 122344433 4899888764
No 275
>KOG1610 consensus Corticosteroid 11-beta-dehydrogenase and related short chain-type dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism; General function prediction only]
Probab=52.59 E-value=1.9e+02 Score=26.52 Aligned_cols=148 Identities=17% Similarity=0.160 Sum_probs=86.2
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCcc--EEEEeCHHHHHHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFD--WIIITSPEAGSVFLEAWK 122 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d--~IiFTS~~aV~~~~~~l~ 122 (263)
.++.++-|+||.-+.+ ...++..|.+.|+.|..-= + +++ ..+.+....+ .+... -+=.|++..|+...+.++
T Consensus 25 ~~~~~k~VlITGCDSGfG~~LA~~L~~~Gf~V~Agc-l-~~~--gae~L~~~~~-s~rl~t~~LDVT~~esi~~a~~~V~ 99 (322)
T KOG1610|consen 25 DSLSDKAVLITGCDSGFGRLLAKKLDKKGFRVFAGC-L-TEE--GAESLRGETK-SPRLRTLQLDVTKPESVKEAAQWVK 99 (322)
T ss_pred cccCCcEEEEecCCcHHHHHHHHHHHhcCCEEEEEe-e-cCc--hHHHHhhhhc-CCcceeEeeccCCHHHHHHHHHHHH
Confidence 5677888999988765 5689999999999988543 1 111 1233333321 11111 344699999999999888
Q ss_pred HcCCCCcE---------EEEeChhH---HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCc
Q 024727 123 EAGTPNVR---------IGVVGAGT---ASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKAS 190 (263)
Q Consensus 123 ~~~~~~~~---------i~aVG~~T---a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~ 190 (263)
+.-.++.- ..+.|+.- .+..++. +++++...-.-..+++..+++ ..+||+.+.+-.||
T Consensus 100 ~~l~~~gLwglVNNAGi~~~~g~~ewl~~~d~~~~-------l~vNllG~irvT~~~lpLlr~---arGRvVnvsS~~GR 169 (322)
T KOG1610|consen 100 KHLGEDGLWGLVNNAGISGFLGPDEWLTVEDYRKV-------LNVNLLGTIRVTKAFLPLLRR---ARGRVVNVSSVLGR 169 (322)
T ss_pred HhcccccceeEEeccccccccCccccccHHHHHHH-------HhhhhhhHHHHHHHHHHHHHh---ccCeEEEecccccC
Confidence 75332212 22344432 2222322 333333222222334444433 35899998887765
Q ss_pred --------------------hhHHHHHHhCCCeeeEEe
Q 024727 191 --------------------NEIEEGLSNRGFEVVRLN 208 (263)
Q Consensus 191 --------------------~~L~~~L~~~G~~v~~~~ 208 (263)
+.|..+|..-|.+|.-++
T Consensus 170 ~~~p~~g~Y~~SK~aVeaf~D~lR~EL~~fGV~Vsiie 207 (322)
T KOG1610|consen 170 VALPALGPYCVSKFAVEAFSDSLRRELRPFGVKVSIIE 207 (322)
T ss_pred ccCcccccchhhHHHHHHHHHHHHHHHHhcCcEEEEec
Confidence 455678889999887665
No 276
>PRK03094 hypothetical protein; Provisional
Probab=52.58 E-value=27 Score=25.22 Aligned_cols=21 Identities=29% Similarity=0.732 Sum_probs=16.9
Q ss_pred CCchhHHHHHHhCCCeeeEEe
Q 024727 188 KASNEIEEGLSNRGFEVVRLN 208 (263)
Q Consensus 188 ~~~~~L~~~L~~~G~~v~~~~ 208 (263)
.+..++.+.|+++|.+|..+.
T Consensus 8 ~~Ls~i~~~L~~~GYeVv~l~ 28 (80)
T PRK03094 8 QSLTDVQQALKQKGYEVVQLR 28 (80)
T ss_pred cCcHHHHHHHHHCCCEEEecC
Confidence 456789999999999886554
No 277
>KOG2882 consensus p-Nitrophenyl phosphatase [Inorganic ion transport and metabolism]
Probab=52.46 E-value=82 Score=28.57 Aligned_cols=38 Identities=26% Similarity=0.244 Sum_probs=23.8
Q ss_pred CHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCee
Q 024727 163 TGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEV 204 (263)
Q Consensus 163 t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v 204 (263)
++-.++..+.+....+++|.++.+++ +.+.|++.|++.
T Consensus 91 sa~~~a~ylk~~~~~~k~Vyvig~~g----i~~eL~~aG~~~ 128 (306)
T KOG2882|consen 91 SAYAIADYLKKRKPFGKKVYVIGEEG----IREELDEAGFEY 128 (306)
T ss_pred hHHHHHHHHHHhCcCCCeEEEecchh----hhHHHHHcCcee
Confidence 34556666655544567787777776 445667777544
No 278
>PRK08250 glutamine amidotransferase; Provisional
Probab=52.44 E-value=92 Score=26.90 Aligned_cols=52 Identities=15% Similarity=0.128 Sum_probs=35.0
Q ss_pred CeEEEeCCC--CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH
Q 024727 51 PKVVVTRER--GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP 111 (263)
Q Consensus 51 ~~ILitr~~--~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~ 111 (263)
|+|++.+.. +....+...+++.|+++....+++-.+.+. ...+||.||++-+
T Consensus 1 m~i~vi~h~~~e~~g~~~~~~~~~g~~~~~~~~~~g~~~p~---------~~~~~d~vii~GG 54 (235)
T PRK08250 1 MRVHFIIHESFEAPGAYLKWAENRGYDISYSRVYAGEALPE---------NADGFDLLIVMGG 54 (235)
T ss_pred CeEEEEecCCCCCchHHHHHHHHCCCeEEEEEccCCCCCCC---------CccccCEEEECCC
Confidence 467777654 466788999999998887755554322211 2467999999755
No 279
>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=52.29 E-value=83 Score=26.70 Aligned_cols=85 Identities=16% Similarity=0.136 Sum_probs=48.9
Q ss_pred CeEEEeCCCC-------ChHHHHHHHHhC-CCcEEEeceEEeeeC-CC-chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024727 51 PKVVVTRERG-------KNGKLIKALAKH-RIDCLELPLIQHAQG-PD-TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (263)
Q Consensus 51 ~~ILitr~~~-------~~~~l~~~L~~~-G~~v~~~p~~~~~~~-~~-~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~ 120 (263)
++|++..+.. ...-+.+.++++ |..+.. .+..... .+ .+.+...+.....+|+|++.|-.....+.+.
T Consensus 124 ~~i~~i~~~~~~~~~~~r~~gf~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~ 201 (273)
T cd06310 124 GKVAVISFVPGSSTTDQREEGFLEGLKEYPGIEIVA--TQYSDSDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARA 201 (273)
T ss_pred ceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEEe--cccCCcCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHH
Confidence 4677664321 123455677777 665543 1111100 01 1233444433346899999988888888888
Q ss_pred HHHcCCC-CcEEEEeChh
Q 024727 121 WKEAGTP-NVRIGVVGAG 137 (263)
Q Consensus 121 l~~~~~~-~~~i~aVG~~ 137 (263)
+++.+.. ++.+++.+..
T Consensus 202 l~~~g~~~di~vig~d~~ 219 (273)
T cd06310 202 VRQAGKAGKVKVVGFDAS 219 (273)
T ss_pred HHhcCCCCCeEEEEeCCC
Confidence 8887763 6777777654
No 280
>PRK05867 short chain dehydrogenase; Provisional
Probab=52.29 E-value=1.4e+02 Score=25.15 Aligned_cols=85 Identities=8% Similarity=0.114 Sum_probs=48.0
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEEE--EeCHHHHHHHHHHHH
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWII--ITSPEAGSVFLEAWK 122 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~-~~d~Ii--FTS~~aV~~~~~~l~ 122 (263)
++.|+++|||-...+ ...+.+.|.+.|+++...- +. .+..+.+...++..+ +...+. +++..+++.+++.+.
T Consensus 6 ~~~~k~vlVtGas~gIG~~ia~~l~~~G~~V~~~~--r~--~~~~~~~~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~ 81 (253)
T PRK05867 6 DLHGKRALITGASTGIGKRVALAYVEAGAQVAIAA--RH--LDALEKLADEIGTSGGKVVPVCCDVSQHQQVTSMLDQVT 81 (253)
T ss_pred cCCCCEEEEECCCchHHHHHHHHHHHCCCEEEEEc--CC--HHHHHHHHHHHHhcCCeEEEEEccCCCHHHHHHHHHHHH
Confidence 467999999987654 5789999999999875431 11 111122222232211 122222 478888888887665
Q ss_pred Hc-CCCCcEEEEeC
Q 024727 123 EA-GTPNVRIGVVG 135 (263)
Q Consensus 123 ~~-~~~~~~i~aVG 135 (263)
+. +.-+.-|.+.|
T Consensus 82 ~~~g~id~lv~~ag 95 (253)
T PRK05867 82 AELGGIDIAVCNAG 95 (253)
T ss_pred HHhCCCCEEEECCC
Confidence 43 22234444444
No 281
>PRK09739 hypothetical protein; Provisional
Probab=52.25 E-value=39 Score=28.14 Aligned_cols=50 Identities=10% Similarity=0.030 Sum_probs=31.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeee--CC--------------CchHHHHHHhcCCCccEEEEeCHH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQ--GP--------------DTDRLSSVLNADTIFDWIIITSPE 112 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~--~~--------------~~~~l~~~l~~l~~~d~IiFTS~~ 112 (263)
+.+.+.+++.|.++..+-+++... .. ..++++...+.+...|.|||-+|.
T Consensus 24 ~~~~~~~~~~g~~v~~~dL~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~AD~iV~~~P~ 89 (199)
T PRK09739 24 EAIHQRAQERGHQVEELDLYRSGFDPVLTPEDEPDWKNPDKRYSPEVHQLYSELLEHDALVFVFPL 89 (199)
T ss_pred HHHHHHHHHCCCEEEEEEhhhhCCCCCCCHHHhhhhcccCCCCCHHHHHHHHHHHhCCEEEEECch
Confidence 445566677888888887776421 10 012345555566788888888874
No 282
>cd01080 NAD_bind_m-THF_DH_Cyclohyd NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NADP binding domain of the Methylene-Tetrahydrofolate Dehydrogenase/cyclohydrolase (m-THF DH/cyclohydrolase) bifunctional enzyme. Tetrahydrofolate is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional DH/cyclodrolase form. In bacteria, monofucntional DH, as well a
Probab=52.03 E-value=54 Score=26.91 Aligned_cols=58 Identities=17% Similarity=0.113 Sum_probs=39.2
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA 113 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a 113 (263)
..+.|++|+|.-..+- ...+++.|.+.|+++....- ..+++.+. +.++|.||.+++..
T Consensus 40 ~~l~gk~vlViG~G~~~G~~~a~~L~~~g~~V~v~~r-------~~~~l~~~---l~~aDiVIsat~~~ 98 (168)
T cd01080 40 IDLAGKKVVVVGRSNIVGKPLAALLLNRNATVTVCHS-------KTKNLKEH---TKQADIVIVAVGKP 98 (168)
T ss_pred CCCCCCEEEEECCcHHHHHHHHHHHhhCCCEEEEEEC-------CchhHHHH---HhhCCEEEEcCCCC
Confidence 5689999999987653 55599999999986442221 12333333 46789888776654
No 283
>PRK07453 protochlorophyllide oxidoreductase; Validated
Probab=51.93 E-value=1.7e+02 Score=25.92 Aligned_cols=71 Identities=13% Similarity=0.154 Sum_probs=42.5
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC----CCccEE--EEeCHHHHHHHHH
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD----TIFDWI--IITSPEAGSVFLE 119 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l----~~~d~I--iFTS~~aV~~~~~ 119 (263)
.+.+++|+||....+ ...+.+.|.+.|++|+..- + +.+..+...+.+ ....++ =+++..+++.+++
T Consensus 3 ~~~~k~vlVTGas~gIG~~~a~~L~~~G~~V~~~~--r-----~~~~~~~~~~~l~~~~~~~~~~~~Dl~~~~~v~~~~~ 75 (322)
T PRK07453 3 QDAKGTVIITGASSGVGLYAAKALAKRGWHVIMAC--R-----NLKKAEAAAQELGIPPDSYTIIHIDLGDLDSVRRFVD 75 (322)
T ss_pred CCCCCEEEEEcCCChHHHHHHHHHHHCCCEEEEEE--C-----CHHHHHHHHHHhhccCCceEEEEecCCCHHHHHHHHH
Confidence 346889999987654 4678889999998775431 1 112222222222 122222 2488899998888
Q ss_pred HHHHc
Q 024727 120 AWKEA 124 (263)
Q Consensus 120 ~l~~~ 124 (263)
.+.+.
T Consensus 76 ~~~~~ 80 (322)
T PRK07453 76 DFRAL 80 (322)
T ss_pred HHHHh
Confidence 76543
No 284
>PF11798 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 This helix-hairpin-helix motif is found in proteins belonging to the type-Y family of DNA polymerases []. This type of polymerases are thought to be involved in UV protection and mutation [, ]. ; PDB: 3PZP_B 2OH2_B 2W7O_B 3IN5_B 1T94_A 2W7P_B 2W8K_A 2AGQ_A 1RYR_A 3RAX_A ....
Probab=51.78 E-value=7.4 Score=22.77 Aligned_cols=16 Identities=19% Similarity=0.281 Sum_probs=13.0
Q ss_pred EEEEeChhHHHHHHHh
Q 024727 130 RIGVVGAGTASIFEEV 145 (263)
Q Consensus 130 ~i~aVG~~Ta~~L~~~ 145 (263)
++.-||++|++.|++.
T Consensus 15 ~~~GIG~kt~~kL~~~ 30 (32)
T PF11798_consen 15 KFWGIGKKTAKKLNKL 30 (32)
T ss_dssp GSTTS-HHHHHHHHCT
T ss_pred hhCCccHHHHHHHHHc
Confidence 5667999999999988
No 285
>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=51.72 E-value=68 Score=24.82 Aligned_cols=73 Identities=21% Similarity=0.188 Sum_probs=48.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~ 136 (263)
+.+.+.++++|..+.............. ......++.. .+|.|++.+......+...+.+.+. +++.+++.|.
T Consensus 29 ~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~pdaii~~~~~~a~~~~~~l~~~g~~vP~di~vv~~~~ 105 (160)
T PF13377_consen 29 EGFREALKEHGIEFEELIFFSDDDSEDAREAQLLWLRRL-RPDAIICSNDRLALGVLRALRELGIRVPQDISVVSFDD 105 (160)
T ss_dssp HHHHHHHHHTTSEEEGEEEEESSSHHHHHHHHHHHHHTC-SSSEEEESSHHHHHHHHHHHHHTTSCTTTTSEEEEESS
T ss_pred HHHHHHHHHCCCCCCeeEeecCCcchhHHHHHHHHHhcC-CCcEEEEcCHHHHHHHHHHHHHcCCcccccccEEEecC
Confidence 3466788888988655433332211111 1111223333 6799999999999999999999876 4899999985
No 286
>PRK06703 flavodoxin; Provisional
Probab=51.44 E-value=73 Score=25.09 Aligned_cols=18 Identities=6% Similarity=0.130 Sum_probs=10.6
Q ss_pred ecCCCCCHHHHHHHhccC
Q 024727 157 FSPSKATGKILASELPKN 174 (263)
Q Consensus 157 ~~p~~~t~e~L~~~l~~~ 174 (263)
+.....+.+.+++.|.+.
T Consensus 8 Y~S~tGnT~~iA~~ia~~ 25 (151)
T PRK06703 8 YASMSGNTEDIADLIKVS 25 (151)
T ss_pred EECCCchHHHHHHHHHHH
Confidence 444456667777666543
No 287
>PF00389 2-Hacid_dh: D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; InterPro: IPR006139 A number of NAD-dependent 2-hydroxyacid dehydrogenases which seem to be specific for the D-isomer of their substrate have been shown to be functionally and structurally related. The catalytic domain contains a number of conserved charged residues which may play a role in the catalytic mechanism. The NAD-binding domain is described in IPR006140 from INTERPRO ; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0008152 metabolic process, 0055114 oxidation-reduction process; PDB: 2DLD_A 2G76_B 3DC2_B 1YGY_B 3DDN_A 3KB6_B 3K5P_A 3EVT_A 1WWK_B 1GDH_A ....
Probab=51.36 E-value=1.1e+02 Score=23.46 Aligned_cols=95 Identities=22% Similarity=0.245 Sum_probs=56.6
Q ss_pred EEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-HHHHHHHHHHHcCCCCcEE
Q 024727 53 VVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-AGSVFLEAWKEAGTPNVRI 131 (263)
Q Consensus 53 ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-aV~~~~~~l~~~~~~~~~i 131 (263)
||++.+- .++..+.|++ |+++...+ ..+.+++.+. +.++|.++..+.. --+.+++.+ +++|+
T Consensus 1 ili~~~~--~~~~~~~l~~-~~~v~~~~------~~~~~~~~~~---l~~~d~ii~~~~~~~~~~~l~~~-----~~Lk~ 63 (133)
T PF00389_consen 1 ILITDPL--PDEEIERLEE-GFEVEFCD------SPSEEELAER---LKDADAIIVGSGTPLTAEVLEAA-----PNLKL 63 (133)
T ss_dssp EEESSS---SHHHHHHHHH-TSEEEEES------SSSHHHHHHH---HTTESEEEESTTSTBSHHHHHHH-----TT-SE
T ss_pred eEEeccC--CHHHHHHHHC-CceEEEeC------CCCHHHHHHH---hCCCeEEEEcCCCCcCHHHHhcc-----ceeEE
Confidence 6778654 5677788888 77776665 1233444443 4789999987766 224444444 24454
Q ss_pred EE-eChh----HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHh
Q 024727 132 GV-VGAG----TASIFEEVIQSSKCSLDVAFSPSKATGKILASEL 171 (263)
Q Consensus 132 ~a-VG~~----Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l 171 (263)
++ .|-+ --+++++. |+.+.-.|. ++++.+++..
T Consensus 64 I~~~~~G~d~id~~~a~~~------gI~V~n~~g-~~~~aVAE~a 101 (133)
T PF00389_consen 64 ISTAGAGVDNIDLEAAKER------GIPVTNVPG-YNAEAVAEHA 101 (133)
T ss_dssp EEESSSSCTTB-HHHHHHT------TSEEEE-TT-TTHHHHHHHH
T ss_pred EEEcccccCcccHHHHhhC------eEEEEEeCC-cCCcchhccc
Confidence 43 2222 25778888 998866654 6777777554
No 288
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=51.30 E-value=2.2e+02 Score=26.91 Aligned_cols=146 Identities=18% Similarity=0.147 Sum_probs=75.6
Q ss_pred CeEEEeCC--CCChHHHHHHHHhCCCcEE-EeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC
Q 024727 51 PKVVVTRE--RGKNGKLIKALAKHRIDCL-ELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP 127 (263)
Q Consensus 51 ~~ILitr~--~~~~~~l~~~L~~~G~~v~-~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~ 127 (263)
.+|.+.-. .....++.+.|++.|+++. .+|- .+..+ +.....-..++..++.+- ...+.+++.+.+
T Consensus 167 ~~VniiG~~~~~d~~el~~lL~~~Gi~v~~~lp~------~~~~d----~~~~~~~~~~~~~~~~~~-~~A~~L~~~GiP 235 (427)
T PRK02842 167 PSLVLVGSLADVVEDQLTLEFKKLGIGVVGFLPA------RRFTE----LPAIGPGTVVALAQPFLS-DTARALRERGAK 235 (427)
T ss_pred CcEEEEEeCCcchHHHHHHHHHHcCCeeEEEeCC------ccHHH----HhhcCcCcEEEEeCHHHH-HHHHHHHHcCCc
Confidence 34444332 2334789999999999986 4442 11122 123334445566777654 356666555433
Q ss_pred CcEE-EEeC-hhHHHHHHHhhhhcCCCCceeecCCC--CCHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHh-C
Q 024727 128 NVRI-GVVG-AGTASIFEEVIQSSKCSLDVAFSPSK--ATGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSN-R 200 (263)
Q Consensus 128 ~~~i-~aVG-~~Ta~~L~~~~~~~~~G~~~~~~p~~--~t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~-~ 200 (263)
-... +-+| ..|.+.|++.. .+.|......-+. ..-..+.+.|.+. ...|+++.+..+...--.+...|.+ .
T Consensus 236 ~~~~~~P~G~~~T~~~L~~la--~~~g~~~~~~~~~~~~er~~~~~~l~~~~~~l~Gkrvai~g~~~~~~~la~~L~eel 313 (427)
T PRK02842 236 VLTAPFPLGPEGTRAWLEAAA--AAFGIDPDGLEEREAPAWERARKALEPYRELLRGKRVFFLPDSQLEIPLARFLSREC 313 (427)
T ss_pred cccCCCCcChHHHHHHHHHHH--HHhCcCHhHHHHHHHHHHHHHHHHHHHhhhhcCCcEEEEECCchhHHHHHHHHHHhC
Confidence 2211 2255 35666666651 1124432100000 0111222333332 1368898887655444558889988 9
Q ss_pred CCeeeEEee
Q 024727 201 GFEVVRLNT 209 (263)
Q Consensus 201 G~~v~~~~v 209 (263)
|+++..+..
T Consensus 314 Gm~~v~v~t 322 (427)
T PRK02842 314 GMELVEVGT 322 (427)
T ss_pred CCEEEEeCC
Confidence 998855543
No 289
>COG0431 Predicted flavoprotein [General function prediction only]
Probab=51.15 E-value=65 Score=26.65 Aligned_cols=39 Identities=13% Similarity=0.204 Sum_probs=25.9
Q ss_pred HHHHhCCCCEEEEeCHH-------HHHHHHHHhccccCCCCceEEEE
Q 024727 222 VLKQALSIPVVAVASPS-------AVRSSWVNLISDTEQWSNSVACI 261 (263)
Q Consensus 222 ~~~~l~~~d~vvFtS~s-------~v~~~~~~~~~~~~~~~~~i~~I 261 (263)
+.+.+...|+++|.||. .++ +.++.+....+.+.+++.+
T Consensus 61 ~~~~i~~aD~li~~tPeYn~s~pg~lK-naiD~l~~~~~~~Kpv~~~ 106 (184)
T COG0431 61 LREAIAAADGLIIATPEYNGSYPGALK-NAIDWLSREALGGKPVLLL 106 (184)
T ss_pred HHHHHHhCCEEEEECCccCCCCCHHHH-HHHHhCCHhHhCCCcEEEE
Confidence 45555799999999975 666 7777766543445664443
No 290
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=50.89 E-value=1.1e+02 Score=28.43 Aligned_cols=58 Identities=17% Similarity=0.196 Sum_probs=37.9
Q ss_pred CcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCHHH
Q 024727 178 KCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSA 239 (263)
Q Consensus 178 ~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~ 239 (263)
+++++|+.+++..+.+....+..|+....+.++.. ...+++.+.+ .+++.|++-|-.+
T Consensus 110 g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e----~~le~I~~~i~~~~~~lVVIDSIq~ 169 (372)
T cd01121 110 GGKVLYVSGEESPEQIKLRADRLGISTENLYLLAE----TNLEDILASIEELKPDLVIIDSIQT 169 (372)
T ss_pred CCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEcc----CcHHHHHHHHHhcCCcEEEEcchHH
Confidence 47899999988877777766777776666665542 2233444433 3778888777543
No 291
>TIGR01459 HAD-SF-IIA-hyp4 HAD-superfamily class IIA hydrolase, TIGR01459. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram negative and primarily alpha proteobacteria. Only one sequence hase been annotated as other than "hypothetical." That one, from Brucella, is annotated as related to NagD, but only by sequence similarity and should be treated with some skepticism. (See comments for Class IIA subfamily)
Probab=50.81 E-value=1.3e+02 Score=25.69 Aligned_cols=77 Identities=16% Similarity=0.056 Sum_probs=43.7
Q ss_pred CCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC----CccEEEEeCHHHHHH-HHHHHHHcCCCCcEE
Q 024727 57 RERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT----IFDWIIITSPEAGSV-FLEAWKEAGTPNVRI 131 (263)
Q Consensus 57 r~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~----~~d~IiFTS~~aV~~-~~~~l~~~~~~~~~i 131 (263)
++-.+..++.+.|+++|..+..+.= .. ....++.+.++.++ .+| .|+||...... +...+++.+.+..++
T Consensus 24 ~~~pga~e~L~~L~~~G~~~~ivTN-~~---~~~~~~~~~L~~~gl~~~~~~-~Ii~s~~~~~~~l~~~~~~~~~~~~~~ 98 (242)
T TIGR01459 24 HTYPGAVQNLNKIIAQGKPVYFVSN-SP---RNIFSLHKTLKSLGINADLPE-MIISSGEIAVQMILESKKRFDIRNGII 98 (242)
T ss_pred ccCccHHHHHHHHHHCCCEEEEEeC-CC---CChHHHHHHHHHCCCCccccc-eEEccHHHHHHHHHhhhhhccCCCceE
Confidence 4456788899999999988776533 11 11222223344332 234 56677765443 433334444445678
Q ss_pred EEeChhH
Q 024727 132 GVVGAGT 138 (263)
Q Consensus 132 ~aVG~~T 138 (263)
+.+|...
T Consensus 99 ~~vGd~~ 105 (242)
T TIGR01459 99 YLLGHLE 105 (242)
T ss_pred EEeCCcc
Confidence 9999854
No 292
>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=50.55 E-value=51 Score=28.11 Aligned_cols=87 Identities=13% Similarity=0.122 Sum_probs=50.2
Q ss_pred CCeEEEeCCCC-------ChHHHHHHHHhC-CCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHH
Q 024727 50 NPKVVVTRERG-------KNGKLIKALAKH-RIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAW 121 (263)
Q Consensus 50 g~~ILitr~~~-------~~~~l~~~L~~~-G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l 121 (263)
.++|++..+.. +.+-+.+.++++ |.++.........+......+...++....+|+|+.++-..+..+++.+
T Consensus 122 ~~~i~~l~~~~~~~~~~~R~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aI~~~~d~~a~g~~~al 201 (270)
T cd06308 122 KGNILEIWGLEGSSPAIERHDGFKEALSKYPKIKIVAQQDGDWLKEKAEEKMEELLQANPDIDLVYAHNDPMALGAYLAA 201 (270)
T ss_pred CceEEEEECCCCCchHHHHHHHHHHHHHHCCCCEEEEecCCCccHHHHHHHHHHHHHhCCCCcEEEeCCcHHHHHHHHHH
Confidence 45677664321 123345567777 6654422110000000013355556444568999998888888888888
Q ss_pred HHcCC-CCcEEEEeCh
Q 024727 122 KEAGT-PNVRIGVVGA 136 (263)
Q Consensus 122 ~~~~~-~~~~i~aVG~ 136 (263)
.+.+. +++.+++.+.
T Consensus 202 ~~~g~~~dv~vvg~d~ 217 (270)
T cd06308 202 KRAGREKEIKFIGIDG 217 (270)
T ss_pred HHcCCCCCcEEEEecC
Confidence 88876 4677777754
No 293
>PLN02253 xanthoxin dehydrogenase
Probab=50.54 E-value=1e+02 Score=26.54 Aligned_cols=74 Identities=11% Similarity=0.071 Sum_probs=41.7
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEE--EEeCHHHHHHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWI--IITSPEAGSVFLEAWK 122 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~I--iFTS~~aV~~~~~~l~ 122 (263)
..+.|+++|||....+ ...+++.|.+.|+++..+-. . . ...+++...+..-..+.++ =+++...++.++..+.
T Consensus 14 ~~l~~k~~lItGas~gIG~~la~~l~~~G~~v~~~~~--~-~-~~~~~~~~~~~~~~~~~~~~~Dl~d~~~~~~~~~~~~ 89 (280)
T PLN02253 14 QRLLGKVALVTGGATGIGESIVRLFHKHGAKVCIVDL--Q-D-DLGQNVCDSLGGEPNVCFFHCDVTVEDDVSRAVDFTV 89 (280)
T ss_pred cccCCCEEEEECCCchHHHHHHHHHHHcCCEEEEEeC--C-H-HHHHHHHHHhcCCCceEEEEeecCCHHHHHHHHHHHH
Confidence 3467899999987654 46788999999998765411 1 0 0111122222110112222 1477788877777654
Q ss_pred H
Q 024727 123 E 123 (263)
Q Consensus 123 ~ 123 (263)
+
T Consensus 90 ~ 90 (280)
T PLN02253 90 D 90 (280)
T ss_pred H
Confidence 4
No 294
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=50.45 E-value=49 Score=29.95 Aligned_cols=62 Identities=15% Similarity=0.134 Sum_probs=42.8
Q ss_pred CcEEEEeCh-----hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCC
Q 024727 128 NVRIGVVGA-----GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGF 202 (263)
Q Consensus 128 ~~~i~aVG~-----~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~ 202 (263)
+.++|+.|+ ..-+.|++. |+... . + ++.+ +.+..+++|+=+..+...+.|+++|.
T Consensus 30 ~~~iytlG~iIHN~~vv~~L~~~------GV~~v--~-~------~~~v-----~~~~~ViirAHGv~~~~~~~~~~~g~ 89 (298)
T PRK01045 30 GAPIYVRHEIVHNRYVVERLEKK------GAIFV--E-E------LDEV-----PDGAIVIFSAHGVSPAVREEAKERGL 89 (298)
T ss_pred CCCeEEEecCccCHHHHHHHHHC------CCEEe--c-C------cccC-----CCCCEEEEeCCCCCHHHHHHHHHCCC
Confidence 467999887 456789999 99752 1 1 1122 22457777777777888899999998
Q ss_pred eeeEEee
Q 024727 203 EVVRLNT 209 (263)
Q Consensus 203 ~v~~~~v 209 (263)
+|....|
T Consensus 90 ~viDaTC 96 (298)
T PRK01045 90 TVIDATC 96 (298)
T ss_pred eEEeCCC
Confidence 7755544
No 295
>PF03853 YjeF_N: YjeF-related protein N-terminus; InterPro: IPR004443 The YjeF N-terminal domains occur either as single proteins or fusions with other domains and are commonly associated with enzymes. In bacteria and archaea, YjeF N-terminal domains are often fused to a YjeF C-terminal domain with high structural homology to the members of a ribokinase-like superfamily (see PDOC00806 from PROSITEDOC)and/or belong to operons that encode enzymes of diverse functions: pyridoxal phosphate biosynthetic protein PdxJ; phosphopanteine-protein transferase; ATP/GTP hydrolase; and pyruvate-formate lyase 1-activating enzyme. In plants, the YjeF N-terminal domain is fused to a C-terminal putative pyridoxamine 5'-phosphate oxidase. In eukaryotes, proteins that consist of (Sm)-FDF-YjeF N-terminal domains may be involved in RNA processing [, ]. The YjeF N-terminal domains represent a novel version of the Rossmann fold, one of the most common protein folds in nature observed in numerous enzyme families, that has acquired a set of catalytic residues and structural features that distinguish them from the conventional dehydrogenases. The YjeF N-terminal domain is comprised of a three-layer alpha-beta-alpha sandwich with a central beta-sheet surrounded by helices. The conservation of the acidic residues in the predicted active site of the YjeF N-terminal domains is reminiscent of the presence of such residues in the active sites of diverse hydrolases [, ].; PDB: 3K5W_A 2O8N_A 2DG2_F 3RNO_A 1JZT_B 3D3K_A 3D3J_A 3RSG_A 3RT9_A 3RRF_A ....
Probab=50.39 E-value=38 Score=27.64 Aligned_cols=45 Identities=22% Similarity=0.126 Sum_probs=28.0
Q ss_pred HHHHhccCC--CCCcEEEEEcCCCCc----hhHHHHHHhCCCeeeEEeeec
Q 024727 167 LASELPKNG--KKKCTVLYPASAKAS----NEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 167 L~~~l~~~~--~~~~~vL~~~g~~~~----~~L~~~L~~~G~~v~~~~vY~ 211 (263)
+++.+.+.. .+..+|++++|.+.+ =.+...|.++|++|.-+.++.
T Consensus 12 ~a~~i~~~~~~~~~~~v~il~G~GnNGgDgl~~AR~L~~~G~~V~v~~~~~ 62 (169)
T PF03853_consen 12 IAELIRKLFGSPKGPRVLILCGPGNNGGDGLVAARHLANRGYNVTVYLVGP 62 (169)
T ss_dssp HHHHHHHHSTCCTT-EEEEEE-SSHHHHHHHHHHHHHHHTTCEEEEEEEES
T ss_pred HHHHHHHHhcccCCCeEEEEECCCCChHHHHHHHHHHHHCCCeEEEEEEec
Confidence 334444333 456899999998753 345668889999976644444
No 296
>PRK06128 oxidoreductase; Provisional
Probab=50.34 E-value=1.8e+02 Score=25.58 Aligned_cols=76 Identities=11% Similarity=0.028 Sum_probs=43.5
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEE--EEeCHHHHHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWI--IITSPEAGSVFLEAW 121 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~-~~d~I--iFTS~~aV~~~~~~l 121 (263)
..+.|++||||....+ ...+++.|.+.|++|... +......+.+.+...++..+ +..++ =+++...++.+++.+
T Consensus 51 ~~l~~k~vlITGas~gIG~~~a~~l~~~G~~V~i~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dl~~~~~v~~~~~~~ 128 (300)
T PRK06128 51 GRLQGRKALITGADSGIGRATAIAFAREGADIALN--YLPEEEQDAAEVVQLIQAEGRKAVALPGDLKDEAFCRQLVERA 128 (300)
T ss_pred cccCCCEEEEecCCCcHHHHHHHHHHHcCCEEEEE--eCCcchHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHH
Confidence 4578999999987654 467899999999987532 11100011122333332221 12221 146788888887765
Q ss_pred HH
Q 024727 122 KE 123 (263)
Q Consensus 122 ~~ 123 (263)
.+
T Consensus 129 ~~ 130 (300)
T PRK06128 129 VK 130 (300)
T ss_pred HH
Confidence 44
No 297
>cd01967 Nitrogenase_MoFe_alpha_like Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). This group contains the alpha subunit of component 1 of all three different forms. The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. The role of the delta subunit is unknown. For MoFe, each alphabeta pair of subunits contains one
Probab=50.31 E-value=1.9e+02 Score=26.86 Aligned_cols=137 Identities=13% Similarity=0.028 Sum_probs=71.8
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEE---eCh-
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGV---VGA- 136 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~a---VG~- 136 (263)
...++.+.|++.|+++..+..- -.+.++ ++.+.+...-+..++..-..+.+.|++.. ++++.. +|.
T Consensus 174 d~~el~~lL~~~Gi~~~~~~~~----~~~~~~----i~~~~~A~~niv~~~~~~~~~a~~L~~r~--GiP~~~~~p~G~~ 243 (406)
T cd01967 174 DAWVIKPLLEELGIRVNATFTG----DGTVDE----LRRAHRAKLNLVHCSRSMNYLAREMEERY--GIPYMEVNFYGFE 243 (406)
T ss_pred hHHHHHHHHHHcCCEEEEEeCC----CCCHHH----HhhCccCCEEEEEChHHHHHHHHHHHHhh--CCCEEEecCCcHH
Confidence 4589999999999999853211 112232 33566677666655543344455555431 233332 343
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCC--CCHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeee
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSK--ATGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~--~t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY 210 (263)
.|.+.+++.. ...|.... .++. ..-+.+.+.+.+. ...|+++.+..+......+...|.+.|++|..+..+
T Consensus 244 ~t~~~l~~l~--~~lg~~~~-~~~~i~~~~~~~~~~l~~~~~~l~gkrv~I~~~~~~~~~~~~~l~elG~~v~~~~~~ 318 (406)
T cd01967 244 DTSESLRKIA--KFFGDEEK-AEEVIAEEEARIKPELEKYRERLKGKKVIIYTGGARSWHVIAALRELGMEVVAAGYE 318 (406)
T ss_pred HHHHHHHHHH--HHhCCHHH-HHHHHHHHHHHHHHHHHHHHHhccCCEEEEEccCcchHHHHHHHHHcCCEEEEEEEe
Confidence 4555555541 11143110 0000 0011122222221 135788888777665666678999999998666554
No 298
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=50.31 E-value=73 Score=29.17 Aligned_cols=52 Identities=23% Similarity=0.201 Sum_probs=34.8
Q ss_pred ceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCC-chhHHHHHHhCCCeeeEE
Q 024727 154 DVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-SNEIEEGLSNRGFEVVRL 207 (263)
Q Consensus 154 ~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~-~~~L~~~L~~~G~~v~~~ 207 (263)
++...|=+--.+.+..++.+... +.||+++|..+ .++..+.|+..|+.|.++
T Consensus 54 ~Vlttpwg~ynes~~~eI~~lnp--d~VLIIGGp~AVs~~yE~~Lks~GitV~Ri 106 (337)
T COG2247 54 PVLTTPWGIYNESVLDEIIELNP--DLVLIIGGPIAVSPNYENALKSLGITVKRI 106 (337)
T ss_pred eeEecCcccccHHHHHHHHhhCC--ceEEEECCCCcCChhHHHHHHhCCcEEEEe
Confidence 33334423334556667766542 78999999876 677888999999877544
No 299
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=50.30 E-value=48 Score=25.37 Aligned_cols=80 Identities=15% Similarity=0.133 Sum_probs=55.5
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC
Q 024727 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP 127 (263)
Q Consensus 48 l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~ 127 (263)
..|..|....+....+++.+...+.+.+++.+........+...++-..+++....+..++...+..+.-.+.+.+.+.+
T Consensus 25 ~~G~~vi~lG~~vp~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~~~~~~~~~~~~G~d 104 (122)
T cd02071 25 DAGFEVIYTGLRQTPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGAGDILVVGGGIIPPEDYELLKEMGVA 104 (122)
T ss_pred HCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCC
Confidence 46889999988888899999999999999999887654443333444445444333777777766555555666666653
No 300
>TIGR00537 hemK_rel_arch HemK-related putative methylase. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. This model represents an archaeal and eukaryotic protein family that lacks an N-terminal domain found in HemK and its eubacterial homologs. It is found in a single copy in the first six completed archaeal and eukaryotic genomes.
Probab=50.13 E-value=40 Score=27.37 Aligned_cols=50 Identities=20% Similarity=0.124 Sum_probs=36.2
Q ss_pred HHHHHHhccCCCCCcEEEEEcC-CCCchhHHHHHHhCCCeeeEEeeecccc
Q 024727 165 KILASELPKNGKKKCTVLYPAS-AKASNEIEEGLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 165 e~L~~~l~~~~~~~~~vL~~~g-~~~~~~L~~~L~~~G~~v~~~~vY~~~~ 214 (263)
+.+++.+.+...+|+++++... ..+.+.+.+.|++.|+++..+.-|+.-.
T Consensus 120 ~~~l~~~~~~Lk~gG~~~~~~~~~~~~~~~~~~l~~~gf~~~~~~~~~~~~ 170 (179)
T TIGR00537 120 DRFLDELPEILKEGGRVQLIQSSLNGEPDTFDKLDERGFRYEIVAERGLFF 170 (179)
T ss_pred HHHHHhHHHhhCCCCEEEEEEeccCChHHHHHHHHhCCCeEEEEEEeecCc
Confidence 4455566666667788766544 4447788899999999999988888543
No 301
>cd03145 GAT1_cyanophycinase Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. This group contains proteins similar to the extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Cyanophycinase is believed to be a serine-type exopeptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow.
Probab=50.13 E-value=82 Score=26.77 Aligned_cols=77 Identities=12% Similarity=0.120 Sum_probs=48.3
Q ss_pred CHHHHHHHhccCC-CCCcEEEEEcCCC-----CchhHHHHHHhCCCe-eeEEeeeccccCCCChHHHHHHhCCCCEEEEe
Q 024727 163 TGKILASELPKNG-KKKCTVLYPASAK-----ASNEIEEGLSNRGFE-VVRLNTYTTEPVHHVDQTVLKQALSIPVVAVA 235 (263)
Q Consensus 163 t~e~L~~~l~~~~-~~~~~vL~~~g~~-----~~~~L~~~L~~~G~~-v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFt 235 (263)
...++.+.+.+.. ..+.+|+++.... ..+.+.+.+++.|++ +..+.+.++.. ...+++.+.+.+.|+|+|+
T Consensus 13 ~~~~i~~~~~~~ag~~~~~i~~iptA~~~~~~~~~~~~~~~~~lG~~~v~~~~~~~~~~--a~~~~~~~~l~~ad~I~~~ 90 (217)
T cd03145 13 DNRAILQRFVARAGGAGARIVVIPAASEEPAEVGEEYRDVFERLGAREVEVLVIDSREA--ANDPEVVARLRDADGIFFT 90 (217)
T ss_pred CHHHHHHHHHHHcCCCCCcEEEEeCCCcChhHHHHHHHHHHHHcCCceeEEeccCChHH--cCCHHHHHHHHhCCEEEEe
Confidence 4445555555543 2456777775542 345577788888985 66655554332 1223455556799999999
Q ss_pred CHHHHH
Q 024727 236 SPSAVR 241 (263)
Q Consensus 236 S~s~v~ 241 (263)
-+.+.+
T Consensus 91 GG~~~~ 96 (217)
T cd03145 91 GGDQLR 96 (217)
T ss_pred CCcHHH
Confidence 998877
No 302
>PRK00676 hemA glutamyl-tRNA reductase; Validated
Probab=49.96 E-value=38 Score=31.21 Aligned_cols=58 Identities=17% Similarity=0.261 Sum_probs=38.3
Q ss_pred CCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHH----HHhCCCCEEEEeC
Q 024727 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVL----KQALSIPVVAVAS 236 (263)
Q Consensus 177 ~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~----~~l~~~d~vvFtS 236 (263)
.++++|+++..+-.....+.|.++|.. .+.+..+.......++.. .....+|+|+..|
T Consensus 173 ~~k~vLvIGaGem~~l~a~~L~~~g~~--~i~v~nRt~~~~~~~~~~~~~~~~~~~~DvVIs~t 234 (338)
T PRK00676 173 KKASLLFIGYSEINRKVAYYLQRQGYS--RITFCSRQQLTLPYRTVVREELSFQDPYDVIFFGS 234 (338)
T ss_pred cCCEEEEEcccHHHHHHHHHHHHcCCC--EEEEEcCCccccchhhhhhhhhhcccCCCEEEEcC
Confidence 578999999988888888999999863 455555443222222221 2235899999853
No 303
>PRK06398 aldose dehydrogenase; Validated
Probab=49.82 E-value=1e+02 Score=26.43 Aligned_cols=33 Identities=9% Similarity=0.171 Sum_probs=27.0
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~ 79 (263)
++.|++||||....+ ...+++.|.+.|++|+..
T Consensus 3 ~l~gk~vlItGas~gIG~~ia~~l~~~G~~Vi~~ 36 (258)
T PRK06398 3 GLKDKVAIVTGGSQGIGKAVVNRLKEEGSNVINF 36 (258)
T ss_pred CCCCCEEEEECCCchHHHHHHHHHHHCCCeEEEE
Confidence 577999999987654 567999999999988753
No 304
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=49.53 E-value=1.8e+02 Score=25.64 Aligned_cols=29 Identities=24% Similarity=0.209 Sum_probs=12.4
Q ss_pred CCcEEEEEcCCCCchhHHHHHHhCCCeeeEE
Q 024727 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRL 207 (263)
Q Consensus 177 ~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~ 207 (263)
+|++|++.+..... ....+...|+++..+
T Consensus 98 ~gd~Vlv~~~~h~s--~~~~~~~~g~~~~~v 126 (294)
T cd00615 98 PGDKILIDRNCHKS--VINGLVLSGAVPVYL 126 (294)
T ss_pred CCCEEEEeCCchHH--HHHHHHHCCCEEEEe
Confidence 34555555443321 233344445544333
No 305
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=49.38 E-value=80 Score=27.87 Aligned_cols=71 Identities=21% Similarity=0.225 Sum_probs=43.8
Q ss_pred CCe-EEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc
Q 024727 50 NPK-VVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA 124 (263)
Q Consensus 50 g~~-ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~ 124 (263)
|.. +.+++.. ...+.+.+++.|+.+..+|-... ...|.+++.+.+++ .++|+||.++.+.-..+.+.++..
T Consensus 31 g~~v~f~~~~~--~~~~~~~i~~~g~~v~~~~~~~~-~~~d~~~~~~~l~~-~~~d~vV~D~y~~~~~~~~~~k~~ 102 (279)
T TIGR03590 31 GAEVAFACKPL--PGDLIDLLLSAGFPVYELPDESS-RYDDALELINLLEE-EKFDILIVDHYGLDADWEKLIKEF 102 (279)
T ss_pred CCEEEEEeCCC--CHHHHHHHHHcCCeEEEecCCCc-hhhhHHHHHHHHHh-cCCCEEEEcCCCCCHHHHHHHHHh
Confidence 444 4455543 34567788999998887653321 11233345555543 378999999986666666666653
No 306
>PF02882 THF_DHG_CYH_C: Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain; InterPro: IPR020631 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the NAD(P)-binding domain found in these enzymes.; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 1B0A_A 2C2X_B 2C2Y_A 3NGL_C 3NGX_A 4A26_B 1EDZ_A 1EE9_A 3P2O_B 1DIA_A ....
Probab=49.35 E-value=66 Score=26.27 Aligned_cols=68 Identities=16% Similarity=0.081 Sum_probs=43.7
Q ss_pred CHHHHHHHhccCC--CCCcEEEEEcCC-CCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHH
Q 024727 163 TGKILASELPKNG--KKKCTVLYPASA-KASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (263)
Q Consensus 163 t~e~L~~~l~~~~--~~~~~vL~~~g~-~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s 238 (263)
|+.++++.|..+. ..|++++++... .-..-|...|.++|+.|+-+..|. . .+.+.+...|+|+-..+.
T Consensus 19 Tp~aii~lL~~~~~~l~Gk~v~VvGrs~~VG~Pla~lL~~~~atVt~~h~~T-----~---~l~~~~~~ADIVVsa~G~ 89 (160)
T PF02882_consen 19 TPLAIIELLEYYGIDLEGKKVVVVGRSNIVGKPLAMLLLNKGATVTICHSKT-----K---NLQEITRRADIVVSAVGK 89 (160)
T ss_dssp HHHHHHHHHHHTT-STTT-EEEEE-TTTTTHHHHHHHHHHTT-EEEEE-TTS-----S---SHHHHHTTSSEEEE-SSS
T ss_pred CHHHHHHHHHhcCCCCCCCEEEEECCcCCCChHHHHHHHhCCCeEEeccCCC-----C---cccceeeeccEEeeeecc
Confidence 7788887777653 467887777655 345668889999999987766654 1 123334689999877764
No 307
>PLN02306 hydroxypyruvate reductase
Probab=49.25 E-value=2.3e+02 Score=26.57 Aligned_cols=148 Identities=13% Similarity=0.072 Sum_probs=75.9
Q ss_pred CCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH-HHHHHHHHH
Q 024727 45 SASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG-SVFLEAWKE 123 (263)
Q Consensus 45 ~~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV-~~~~~~l~~ 123 (263)
+.|....+|+++.+-.. +...+.|++.|+++.... ......+.+++.+.+ ...+|.++......+ +.+++.+..
T Consensus 10 ~~~~~~~~v~~~~~~~~-~~~~~~L~~~~~~v~~~~--~~~~~~~~~~~~~~~--~~~~d~vi~~~~~~i~~~~l~~~~~ 84 (386)
T PLN02306 10 YNPNGKYRVVSTKPMPG-TRWINLLVDQDCRVEICT--EKKTILSVEDIIALI--GDKCDGVIGQLTEDWGETLFSALSK 84 (386)
T ss_pred eCCCCCceEEEeCCCCc-HHHHHHHHhcCceEEecC--CcCCCCCHHHHHHHh--hcCCcEEEEcCCCCcCHHHHHhCCc
Confidence 45666678999887532 224567777777765221 001111233333332 145888776543222 333333221
Q ss_pred cCCCCcEEE-EeChhH----HHHHHHhhhhcCCCCceeecCCCCCHHHHHHH------------------hcc-------
Q 024727 124 AGTPNVRIG-VVGAGT----ASIFEEVIQSSKCSLDVAFSPSKATGKILASE------------------LPK------- 173 (263)
Q Consensus 124 ~~~~~~~i~-aVG~~T----a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~------------------l~~------- 173 (263)
. +.+++ +.|-.+ -+++++. |+.+.-.|. ..++.+++. +.+
T Consensus 85 l---~lk~I~~~~~G~D~iD~~aa~~~------gI~V~n~pg-~~~~~VAE~al~liLal~R~i~~~~~~~~~g~w~~~~ 154 (386)
T PLN02306 85 A---GGKAFSNMAVGYNNVDVEAANKY------GIAVGNTPG-VLTETTAELAASLSLAAARRIVEADEFMRAGLYEGWL 154 (386)
T ss_pred C---CceEEEECCcccccccHHHHHHC------CCEEEECCC-cCHHHHHHHHHHHHHHHHhChHHHHHHHHcCCCcccc
Confidence 1 23444 333333 4677888 998866653 344444321 110
Q ss_pred ------CCCCCcEEEEEcCCCCchhHHHHHH-hCCCeeeEE
Q 024727 174 ------NGKKKCTVLYPASAKASNEIEEGLS-NRGFEVVRL 207 (263)
Q Consensus 174 ------~~~~~~~vL~~~g~~~~~~L~~~L~-~~G~~v~~~ 207 (263)
....|+++.++.-..-...+.+.|. .-|.+|..+
T Consensus 155 ~~~~~g~~L~gktvGIiG~G~IG~~vA~~l~~~fGm~V~~~ 195 (386)
T PLN02306 155 PHLFVGNLLKGQTVGVIGAGRIGSAYARMMVEGFKMNLIYY 195 (386)
T ss_pred ccccCCcCCCCCEEEEECCCHHHHHHHHHHHhcCCCEEEEE
Confidence 0124677877776665556777774 667766433
No 308
>cd03129 GAT1_Peptidase_E_like Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E and, extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Peptidase E and cyanophycinases are thought to have a Ser-His-Glu catalytic triad which differs from
Probab=49.21 E-value=72 Score=26.79 Aligned_cols=68 Identities=12% Similarity=0.126 Sum_probs=45.7
Q ss_pred CCeEEEeCCC-----CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc
Q 024727 50 NPKVVVTRER-----GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA 124 (263)
Q Consensus 50 g~~ILitr~~-----~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~ 124 (263)
+.+|++.... ...+.+.+.+++.|+++..++.+.. .+.+++.+ .+.+.|.|+|+-.+..+..-. +++.
T Consensus 29 ~~~i~~iptA~~~~~~~~~~~~~~~~~lG~~~~~~~~~~~---~~~~~~~~---~l~~ad~I~~~GG~~~~~~~~-l~~t 101 (210)
T cd03129 29 GARVLFIPTASGDRDEYGEEYRAAFERLGVEVVHLLLIDT---ANDPDVVA---RLLEADGIFVGGGNQLRLLSV-LRET 101 (210)
T ss_pred CCeEEEEeCCCCChHHHHHHHHHHHHHcCCceEEEeccCC---CCCHHHHH---HHhhCCEEEEcCCcHHHHHHH-HHhC
Confidence 5666655433 2456788899999999998887764 22233333 457899999999998765533 4443
No 309
>TIGR01327 PGDH D-3-phosphoglycerate dehydrogenase. This model represents a long form of D-3-phosphoglycerate dehydrogenase, the serA gene of one pathway of serine biosynthesis. Shorter forms, scoring between trusted and noise cutoff, include SerA from E. coli.
Probab=49.10 E-value=1.8e+02 Score=28.41 Aligned_cols=162 Identities=14% Similarity=0.122 Sum_probs=86.5
Q ss_pred eEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHH-HHHHHHHHcCCCCcE
Q 024727 52 KVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGS-VFLEAWKEAGTPNVR 130 (263)
Q Consensus 52 ~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~-~~~~~l~~~~~~~~~ 130 (263)
+|+++.+- .+...+.|++.++++...+ ..+.+++ .+.+.++|.++..+...+. .+++. .++.+
T Consensus 1 ~vli~~~~--~~~~~~~l~~~~~~~~~~~------~~~~~~~---~~~~~~~d~li~~~~~~~~~~~l~~-----~~~Lk 64 (525)
T TIGR01327 1 KVLIADPI--SPDGIDILEDVGVEVDVQT------GLSREEL---LEIIPDYDALIVRSATKVTEEVIAA-----APKLK 64 (525)
T ss_pred CEEEeCCC--CHHHHHHHHhcCcEEEeCC------CCCHHHH---HHHhcCCCEEEEcCCCCcCHHHHhh-----CCCce
Confidence 36777654 3455567777666655321 1122333 3345789988775542222 22221 13566
Q ss_pred EEE-eChhH----HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhc--------c------------C--------CCC
Q 024727 131 IGV-VGAGT----ASIFEEVIQSSKCSLDVAFSPSKATGKILASELP--------K------------N--------GKK 177 (263)
Q Consensus 131 i~a-VG~~T----a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~--------~------------~--------~~~ 177 (263)
+++ .|-.+ .+++.+. |+.+.-.|. +++..+++... + + ...
T Consensus 65 ~I~~~~~G~d~id~~~~~~~------gI~V~n~pg-~~~~~vAE~~~~l~L~~~R~~~~~~~~~~~g~W~~~~~~g~~l~ 137 (525)
T TIGR01327 65 VIGRAGVGVDNIDIEAATAR------GILVVNAPT-GNTISAAEHALAMLLAAARNIPQADASLKEGEWDRKAFMGTELY 137 (525)
T ss_pred EEEECCcccchhcHHHHHHC------CCEEEeCCC-cChHHHHHHHHHHHHHHhcCHHHHHHHHHcCCccccccCccccC
Confidence 553 23332 3567777 998766553 33333332111 0 1 124
Q ss_pred CcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCC--------hHHHHHHhCCCCEEEEeCHHH
Q 024727 178 KCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHV--------DQTVLKQALSIPVVAVASPSA 239 (263)
Q Consensus 178 ~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~--------~~~~~~~l~~~d~vvFtS~s~ 239 (263)
|+++.++.-..-...+.+.|+..|.+|. .|+....... ...+.+.+...|+|++.-|.+
T Consensus 138 gktvgIiG~G~IG~~vA~~l~~fG~~V~---~~d~~~~~~~~~~~g~~~~~~l~ell~~aDvV~l~lPlt 204 (525)
T TIGR01327 138 GKTLGVIGLGRIGSIVAKRAKAFGMKVL---AYDPYISPERAEQLGVELVDDLDELLARADFITVHTPLT 204 (525)
T ss_pred CCEEEEECCCHHHHHHHHHHHhCCCEEE---EECCCCChhHHHhcCCEEcCCHHHHHhhCCEEEEccCCC
Confidence 6788887766555668889998988654 4543211100 012333346889999888754
No 310
>PLN02897 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=48.97 E-value=1.4e+02 Score=27.63 Aligned_cols=68 Identities=15% Similarity=0.028 Sum_probs=42.8
Q ss_pred CCHHHHHHHhccCC--CCCcEEEEE-cCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCH
Q 024727 162 ATGKILASELPKNG--KKKCTVLYP-ASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 162 ~t~e~L~~~l~~~~--~~~~~vL~~-~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
-|..+.++.|..+. ..|++++++ |++.-..-|...|.++|+.|.-+.-.. .. +.+...+.|+|+-.-+
T Consensus 196 CTp~avi~LL~~~~i~l~GK~vvVIGRS~iVGkPla~LL~~~~ATVTicHs~T-----~n---l~~~~~~ADIvIsAvG 266 (345)
T PLN02897 196 CTPKGCVELLIRSGVEIAGKNAVVIGRSNIVGLPMSLLLQRHDATVSTVHAFT-----KD---PEQITRKADIVIAAAG 266 (345)
T ss_pred CCHHHHHHHHHHhCCCCCCCEEEEECCCccccHHHHHHHHHCCCEEEEEcCCC-----CC---HHHHHhhCCEEEEccC
Confidence 47888988887653 467876666 455555668888999999885443221 11 2222357787776544
No 311
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=48.91 E-value=84 Score=23.00 Aligned_cols=26 Identities=15% Similarity=0.240 Sum_probs=20.3
Q ss_pred cEEEEEcCCCC------chhHHHHHHhCCCee
Q 024727 179 CTVLYPASAKA------SNEIEEGLSNRGFEV 204 (263)
Q Consensus 179 ~~vL~~~g~~~------~~~L~~~L~~~G~~v 204 (263)
.++|+.||.+- ...+.+.|+++|+++
T Consensus 3 ~kILvvCgsG~~TS~m~~~ki~~~l~~~gi~~ 34 (94)
T PRK10310 3 RKIIVACGGAVATSTMAAEEIKELCQSHNIPV 34 (94)
T ss_pred CeEEEECCCchhHHHHHHHHHHHHHHHCCCeE
Confidence 47999999986 456668888899864
No 312
>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=48.89 E-value=1.5e+02 Score=24.44 Aligned_cols=87 Identities=13% Similarity=0.040 Sum_probs=47.6
Q ss_pred CCeEEEeCCCCC-------hHHHHHHHHhCCCcEEEeceEEeeeC-CC-chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024727 50 NPKVVVTRERGK-------NGKLIKALAKHRIDCLELPLIQHAQG-PD-TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (263)
Q Consensus 50 g~~ILitr~~~~-------~~~l~~~L~~~G~~v~~~p~~~~~~~-~~-~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~ 120 (263)
.++|++..+... ...+.+.+++.|..+........... .+ ...+.+.+..-.+.|.|+.++......+...
T Consensus 116 ~~~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~a 195 (264)
T cd06267 116 HRRIAFIGGPPDLSTARERLEGYREALEEAGIPLDEELIVEGDFSEESGYEAARELLASGERPTAIFAANDLMAIGALRA 195 (264)
T ss_pred CceEEEecCCCccchHHHHHHHHHHHHHHcCCCCCcceEEecccchhhHHHHHHHHHhcCCCCcEEEEcCcHHHHHHHHH
Confidence 457777644322 23455677777753322211111111 11 1334455544456899998877766677777
Q ss_pred HHHcCC---CCcEEEEeCh
Q 024727 121 WKEAGT---PNVRIGVVGA 136 (263)
Q Consensus 121 l~~~~~---~~~~i~aVG~ 136 (263)
+.+.+. +++.+++.+.
T Consensus 196 l~~~g~~~~~~i~i~~~d~ 214 (264)
T cd06267 196 LRELGLRVPEDVSVVGFDD 214 (264)
T ss_pred HHHhCCCCCCceEEEeeCC
Confidence 777765 3566777654
No 313
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=48.83 E-value=53 Score=29.48 Aligned_cols=64 Identities=19% Similarity=0.276 Sum_probs=44.2
Q ss_pred CcEEEEeCh-----hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCC
Q 024727 128 NVRIGVVGA-----GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGF 202 (263)
Q Consensus 128 ~~~i~aVG~-----~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~ 202 (263)
+.++|+.|+ ..-+.|++. |+.. +++ .+ ++.++ .+..+++|+=+..+...+.|+++|.
T Consensus 31 ~~~vy~lG~iVHN~~Vv~~L~~~------Gv~~--v~~-~~----~~~v~-----~~~~ViirAHGv~~~~~~~~~~~g~ 92 (281)
T PRK12360 31 GKKIYTLGPLIHNNQVVSDLEEK------GVKT--IEE-SE----IDSLK-----EGDVVIIRSHGVSKKVYKDLKDKGL 92 (281)
T ss_pred CCCeEEecCCcCCHHHHHHHHHC------cCEE--ECc-Cc----hhhCC-----CCCEEEEeCCCCCHHHHHHHHHCCC
Confidence 578999987 556789999 9975 322 11 22332 2457788888888888999999998
Q ss_pred eeeEEee
Q 024727 203 EVVRLNT 209 (263)
Q Consensus 203 ~v~~~~v 209 (263)
+|....|
T Consensus 93 ~viDaTC 99 (281)
T PRK12360 93 EIIDATC 99 (281)
T ss_pred eEEeCCC
Confidence 7755444
No 314
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=48.77 E-value=64 Score=28.92 Aligned_cols=67 Identities=12% Similarity=0.050 Sum_probs=44.4
Q ss_pred cccCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH
Q 024727 42 TSASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA 113 (263)
Q Consensus 42 ~~~~~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a 113 (263)
+.....|.||+|.++........+...|++.|.+...+-+ ..... .+....+ .-+..|+++...+..
T Consensus 114 I~s~~DLkGK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~~---v~~~~-~~~~~Al-~~G~VDAa~~~~p~~ 180 (320)
T PRK11480 114 ISKPEDLIGKRIAVPFISTTHYSLLAALKHWGIKPGQVEI---VNLQP-PAIIAAW-QRGDIDGAYVWAPAV 180 (320)
T ss_pred CCChHHcCCCEEecCCCCchHHHHHHHHHHcCCCHhheEE---EECCc-HHHHHHH-HcCCcCEEEEcchHH
Confidence 4445678999999987655555678889999998765433 33322 2233444 347899988777754
No 315
>PRK02910 light-independent protochlorophyllide reductase subunit B; Provisional
Probab=48.53 E-value=1e+02 Score=29.98 Aligned_cols=49 Identities=12% Similarity=0.135 Sum_probs=36.7
Q ss_pred CCCCccccccccccccCCCCCCCeEEEeCCCCChHHHHHHHH-hCCCcEEEece
Q 024727 29 PFQFSRIQASSDATSASASNSNPKVVVTRERGKNGKLIKALA-KHRIDCLELPL 81 (263)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~l~g~~ILitr~~~~~~~l~~~L~-~~G~~v~~~p~ 81 (263)
+.++.|+..+-+. ..+.|++|.|.-.....-.+.+.|. +.|+++...-.
T Consensus 276 ~~~l~~~~~~~d~----~~l~Gkrv~I~gd~~~a~~l~~~L~~ElGm~vv~~gt 325 (519)
T PRK02910 276 PSRLPWFSRSVDS----TYLTGKRVFVFGDATHAVAAARILSDELGFEVVGAGT 325 (519)
T ss_pred hhhhhHHHHhhhh----HhhcCCEEEEEcCcHHHHHHHHHHHHhcCCeEEEEec
Confidence 4567788774433 5678999999977666778889997 79999985543
No 316
>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=48.45 E-value=70 Score=27.27 Aligned_cols=73 Identities=18% Similarity=0.181 Sum_probs=39.4
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC-CCcEEEEeChhH
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT-PNVRIGVVGAGT 138 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~-~~~~i~aVG~~T 138 (263)
-+.+.++++|..+... .......+ .+.+...++.-..+|.|++.+-.....+.+.+.+.+. +++.++..+...
T Consensus 141 gf~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~~~~~al~~~g~~~di~vig~d~~~ 216 (271)
T cd06314 141 GIKDAIKDSKIEIVDT--RGDEEDFAKAKSNAEDALNAHPDLKCMFGLYAYNGPAIAEAVKAAGKLGKVKIVGFDEDP 216 (271)
T ss_pred HHHHHHhcCCcEEEEE--ecCccCHHHHHHHHHHHHHhCCCccEEEecCCccHHHHHHHHHHcCCCCceEEEEeCCCH
Confidence 3566677777654431 11110000 1234455543345788877665555566677777665 356777776643
No 317
>PRK05568 flavodoxin; Provisional
Probab=48.35 E-value=43 Score=25.99 Aligned_cols=72 Identities=11% Similarity=0.177 Sum_probs=39.6
Q ss_pred EEEeCCCCChHHHHHHH----HhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH---------HHHHHHH
Q 024727 53 VVVTRERGKNGKLIKAL----AKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE---------AGSVFLE 119 (263)
Q Consensus 53 ILitr~~~~~~~l~~~L----~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~---------aV~~~~~ 119 (263)
|+........+.+++.+ ++.|.++..+++-+. +. .++.++|.|+|-||. .+..|++
T Consensus 6 IvY~S~~GnT~~~a~~i~~~~~~~g~~v~~~~~~~~----~~-------~~~~~~d~iilgsp~y~~~~~~~~~~~~f~~ 74 (142)
T PRK05568 6 IIYWSGTGNTEAMANLIAEGAKENGAEVKLLNVSEA----SV-------DDVKGADVVALGSPAMGDEVLEEGEMEPFVE 74 (142)
T ss_pred EEEECCCchHHHHHHHHHHHHHHCCCeEEEEECCCC----CH-------HHHHhCCEEEEECCccCcccccchhHHHHHH
Confidence 44444444455555555 445666554433211 11 134689999999974 3666666
Q ss_pred HHHHcCCCCcEEEEeCh
Q 024727 120 AWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 120 ~l~~~~~~~~~i~aVG~ 136 (263)
.+... ..+.+++++|.
T Consensus 75 ~~~~~-~~~k~~~~f~t 90 (142)
T PRK05568 75 SISSL-VKGKKLVLFGS 90 (142)
T ss_pred Hhhhh-hCCCEEEEEEc
Confidence 55432 34667777764
No 318
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=48.33 E-value=96 Score=28.41 Aligned_cols=151 Identities=12% Similarity=0.081 Sum_probs=88.8
Q ss_pred CCCCccccccccccccCCCCCCCeEEEeCCCCCh-HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE
Q 024727 29 PFQFSRIQASSDATSASASNSNPKVVVTRERGKN-GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII 107 (263)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~l~g~~ILitr~~~~~-~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~Ii 107 (263)
++.+.|+.+-.+.+....+|.||||-+--+..+. -.....|+.+|++.....+- ....+.+..+ .+ ..+..|..+
T Consensus 116 pe~~~vv~r~d~~Ikti~DL~GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~--~~~~~a~~~~-~l-~~g~iDA~~ 191 (321)
T COG2358 116 PEPFHVVTRKDAGIKTIADLKGKRVAIGPPGSGTEATARQILEALGITYDDYELD--LGLGDAESAD-AL-KNGTIDAAF 191 (321)
T ss_pred cceEEEEEecCCCcceehhcCCCEEeecCCCCccHHHHHHHHHHcCCCCcchhhh--hhcCchhhHH-Hh-hCCcccEEE
Confidence 4566677775555666678999999999887654 46778889999999988774 1222222222 33 357899999
Q ss_pred EeCHHHHHHHHHHHHHcCCCCcEEEEe-ChhHHHHHHHhhhhcCCC--CceeecCCC-CCH-HHHHHHhccCCCCCcEEE
Q 024727 108 ITSPEAGSVFLEAWKEAGTPNVRIGVV-GAGTASIFEEVIQSSKCS--LDVAFSPSK-ATG-KILASELPKNGKKKCTVL 182 (263)
Q Consensus 108 FTS~~aV~~~~~~l~~~~~~~~~i~aV-G~~Ta~~L~~~~~~~~~G--~~~~~~p~~-~t~-e~L~~~l~~~~~~~~~vL 182 (263)
++++.-.-...+..... +++++-+ |+.- +.|.+. + +.....|.. |.. ++-+..+ .-..+|
T Consensus 192 ~~~G~p~~ai~el~~~~---~i~lv~i~~e~i-~kl~~~------~~~y~~~~IpagtY~g~~~~i~tv-----~v~a~l 256 (321)
T COG2358 192 YVAGVPNPAISELATTC---DIVLVPISGEEI-DKLEEK------YPYYAKATIPAGTYPGIDEDIPTV-----AVAAIL 256 (321)
T ss_pred EecCCCCccHHHHHhhC---CeEEEeCCHHHH-HHHHhc------cccceeeecccccCCCCCCCccee-----EEEEEE
Confidence 99987766664433222 5677766 5544 444443 2 333344432 211 1111111 124566
Q ss_pred EEcCCCCchhHHHHHH
Q 024727 183 YPASAKASNEIEEGLS 198 (263)
Q Consensus 183 ~~~g~~~~~~L~~~L~ 198 (263)
+-+.+-..+...+..+
T Consensus 257 vt~~~v~ed~vY~~tK 272 (321)
T COG2358 257 VTSDDVSEDLVYKLTK 272 (321)
T ss_pred EecCCCCHHHHHHHHH
Confidence 6676666555554444
No 319
>PRK00048 dihydrodipicolinate reductase; Provisional
Probab=48.28 E-value=62 Score=28.30 Aligned_cols=21 Identities=14% Similarity=0.207 Sum_probs=14.0
Q ss_pred CCCCEEE-EeCHHHHHHHHHHhc
Q 024727 227 LSIPVVA-VASPSAVRSSWVNLI 248 (263)
Q Consensus 227 ~~~d~vv-FtS~s~v~~~~~~~~ 248 (263)
.++|+|+ ||+|.... .....+
T Consensus 59 ~~~DvVid~t~p~~~~-~~~~~a 80 (257)
T PRK00048 59 ADADVLIDFTTPEATL-ENLEFA 80 (257)
T ss_pred cCCCEEEECCCHHHHH-HHHHHH
Confidence 4788888 77777766 544443
No 320
>PF02525 Flavodoxin_2: Flavodoxin-like fold; InterPro: IPR003680 This family consists of a domain with a flavodoxin-like fold. The family includes bacterial and eukaryotic NAD(P)H dehydrogenase (quinone) 1.6.99.2 from EC. These enzymes catalyse the NAD(P)H-dependent two-electron reductions of quinones and protect cells against damage by free radicals and reactive oxygen species []. This enzyme uses a FAD cofactor. The equation for this reaction is NAD(P)H + acceptor = NAD(P)(+) + reduced acceptor. This enzyme is also involved in the bioactivation of prodrugs used in chemotherapy []. The family also includes acyl carrier protein phosphodiesterase 3.1.4.14 from EC. This enzyme converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine residue from ACP []. This family is related to FMN_red IPR005025 from INTERPRO and Flavodoxin_1 IPR008254 from INTERPRO.; GO: 0009055 electron carrier activity, 0016491 oxidoreductase activity, 0050662 coenzyme binding; PDB: 1T5B_B 1DXQ_B 2B3D_A 2Z9D_B 2Z9C_A 2Z98_A 2D5I_A 2Z9B_A 1TIK_A 1V4B_A ....
Probab=48.28 E-value=8.5 Score=32.06 Aligned_cols=57 Identities=21% Similarity=0.335 Sum_probs=38.0
Q ss_pred hhHHHHHHhCC-CeeeEEeeeccccCCCCh-----------------HHH-HHHhCCCCEEEEeC-------HHHHHHHH
Q 024727 191 NEIEEGLSNRG-FEVVRLNTYTTEPVHHVD-----------------QTV-LKQALSIPVVAVAS-------PSAVRSSW 244 (263)
Q Consensus 191 ~~L~~~L~~~G-~~v~~~~vY~~~~~~~~~-----------------~~~-~~~l~~~d~vvFtS-------~s~v~~~~ 244 (263)
+.+.+.|++.| .+|..+.+|+.-.+.... ... .+.+...|.|||.. |..++ .|
T Consensus 22 ~~~~~~~~~~~~~~v~~~dL~~~~~p~l~~~~~~~~~~~~~~~~~d~~~~~~~~l~~AD~iV~~~Pl~~~~~Pa~lK-~~ 100 (199)
T PF02525_consen 22 DAFLEGLQEAGPHEVEIRDLYEEFLPVLDSECFAAFRTYEQGPAIDVQSEQIEELLWADHIVFAFPLYWFSMPAQLK-GW 100 (199)
T ss_dssp HHHHHHHHHHTTSEEEEEETTTTT--SSSHHHHHHHHHHHHTHHHHHHHHHHHHHHHSSEEEEEEEEBTTBC-HHHH-HH
T ss_pred HHHHHHHHHcCCCEEEEEECcccccccchHHHHHhhhhhhhhhhhhHHHHHHHHHHHcCcceEeccceecccChhHH-HH
Confidence 56778889999 899999999971111110 001 24456899999876 57888 88
Q ss_pred HHhc
Q 024727 245 VNLI 248 (263)
Q Consensus 245 ~~~~ 248 (263)
++.+
T Consensus 101 iD~v 104 (199)
T PF02525_consen 101 IDRV 104 (199)
T ss_dssp HHHH
T ss_pred HHHh
Confidence 8865
No 321
>PRK05568 flavodoxin; Provisional
Probab=48.26 E-value=66 Score=24.88 Aligned_cols=17 Identities=6% Similarity=0.210 Sum_probs=7.9
Q ss_pred ecCCCCCHHHHHHHhcc
Q 024727 157 FSPSKATGKILASELPK 173 (263)
Q Consensus 157 ~~p~~~t~e~L~~~l~~ 173 (263)
+.....+.+.+++.|.+
T Consensus 8 Y~S~~GnT~~~a~~i~~ 24 (142)
T PRK05568 8 YWSGTGNTEAMANLIAE 24 (142)
T ss_pred EECCCchHHHHHHHHHH
Confidence 33344455555554443
No 322
>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=48.24 E-value=1.3e+02 Score=25.44 Aligned_cols=86 Identities=13% Similarity=0.100 Sum_probs=47.2
Q ss_pred CCeEEEeCCCC-------ChHHHHHHHHhCC-CcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHH
Q 024727 50 NPKVVVTRERG-------KNGKLIKALAKHR-IDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLE 119 (263)
Q Consensus 50 g~~ILitr~~~-------~~~~l~~~L~~~G-~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~ 119 (263)
.++|++..+.. ...-+.+.++++| .++.. ........+ .+.+...++.-.+.|.|++.+-. .....+
T Consensus 125 ~~~i~~i~~~~~~~~~~~R~~g~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~-A~g~~~ 201 (272)
T cd06300 125 KGNVLVVRGLAGHPVDEDRYAGAKEVLKEYPGIKIVG--EVYGDWDQAVAQKAVADFLASNPDVDGIWTQGGD-AVGAVQ 201 (272)
T ss_pred CceEEEEECCCCCcchHHHHHHHHHHHHHCCCcEEEe--ecCCCCCHHHHHHHHHHHHHhCCCcCEEEecCCC-cHHHHH
Confidence 45676664321 1234677777776 55432 111111000 12344444333467888888888 777788
Q ss_pred HHHHcCCCCcEEEEeChhH
Q 024727 120 AWKEAGTPNVRIGVVGAGT 138 (263)
Q Consensus 120 ~l~~~~~~~~~i~aVG~~T 138 (263)
.+.+.+++-..+++.|...
T Consensus 202 al~~~g~~~p~v~g~d~~~ 220 (272)
T cd06300 202 AFEQAGRDIPPVTGEDENG 220 (272)
T ss_pred HHHHcCCCCcEEEeeCCcH
Confidence 8888877544566666543
No 323
>PRK03619 phosphoribosylformylglycinamidine synthase I; Provisional
Probab=48.23 E-value=1.2e+02 Score=25.89 Aligned_cols=79 Identities=19% Similarity=0.077 Sum_probs=47.5
Q ss_pred eEEEeCCCCCh--HHHHHHHH-hCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH------------HH
Q 024727 52 KVVVTRERGKN--GKLIKALA-KHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG------------SV 116 (263)
Q Consensus 52 ~ILitr~~~~~--~~l~~~L~-~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV------------~~ 116 (263)
+|.|.+-.... .++.+.|+ ..|+++..++.-+ ..+.++|+||+.-.... ..
T Consensus 2 ~v~Vl~~~G~n~~~d~~~a~~~~~G~~~~~v~~~~--------------~~l~~~D~lvipGG~~~~d~l~~~~~~~~~~ 67 (219)
T PRK03619 2 KVAVIVFPGSNCDRDMARALRDLLGAEPEYVWHKE--------------TDLDGVDAVVLPGGFSYGDYLRCGAIAAFSP 67 (219)
T ss_pred EEEEEecCCcChHHHHHHHHHhcCCCeEEEEecCc--------------CCCCCCCEEEECCCCchhhhhccchhhhchH
Confidence 55655544333 45789998 8899887664311 12567899998875221 12
Q ss_pred HHHHHHHcCCCCcEEEEeChhHHHHHHHh
Q 024727 117 FLEAWKEAGTPNVRIGVVGAGTASIFEEV 145 (263)
Q Consensus 117 ~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~ 145 (263)
+.+.+++....+.++++|.... +.|-+.
T Consensus 68 ~~~~l~~~~~~g~~ilgIC~G~-qlLa~~ 95 (219)
T PRK03619 68 IMKAVKEFAEKGKPVLGICNGF-QILTEA 95 (219)
T ss_pred HHHHHHHHHHCCCEEEEECHHH-HHHHHc
Confidence 2233333222478898888765 677776
No 324
>PRK05866 short chain dehydrogenase; Provisional
Probab=48.22 E-value=48 Score=29.29 Aligned_cols=53 Identities=6% Similarity=0.048 Sum_probs=38.4
Q ss_pred CCCCCCCccccccccccccCCCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEE
Q 024727 26 RPLPFQFSRIQASSDATSASASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLE 78 (263)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~ 78 (263)
..+|.+.+--+...+.......+.|++|+||....+ ...+++.|.+.|+++..
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~k~vlItGasggIG~~la~~La~~G~~Vi~ 69 (293)
T PRK05866 16 AGMRPPISPQLLINRPPRQPVDLTGKRILLTGASSGIGEAAAEQFARRGATVVA 69 (293)
T ss_pred hccCCCCCchhhcCCCCCCCcCCCCCEEEEeCCCcHHHHHHHHHHHHCCCEEEE
Confidence 345556666666555555667788999999987654 46788999999988764
No 325
>PF02502 LacAB_rpiB: Ribose/Galactose Isomerase; InterPro: IPR003500 This entry represents the sugar isomerase enzymes ribose 5-phosphate isomerase B (rpiB), galactose isomerase subunit A (LacA) and galactose isomerase subunit B (LacB). Galactose-6-phosphate isomerase (5.3.1.26 from EC) is a heteromultimeric protein consisting of subunits LacA and LacB, and catalyses the conversion of D-galactose 6-phosphate to D-tagatose and 6-phosphate in the tagatose 6-phosphate pathway of lactose catabolism []. Galactose-6-phosphate isomerase is induced by galactose or lactose. This entry represents the LacB subunit. Ribose 5-phosphate isomerase (5.3.1.6 from EC) forms a homodimer and catalyses the interconversion of D-ribose 5-phosphate and D-ribulose 5-phosphate in the non-oxidative branch of the pentose phosphate pathway. This reaction permits the synthesis of ribose from other sugars, as well as the recycling of sugars from nucleotide breakdown. Two unrelated enzymes can catalyse this reaction: RpiA (found in most organisms) and RpiB (found in some bacteria and eukaryotes). RpiB is also involved in metabolism of the rare sugar, allose, in addition to ribose sugars. The structures of RpiA and RpiB are distinct, RpiB having a Rossmann-type alpha/beta/alpha sandwich topology [].; GO: 0005975 carbohydrate metabolic process; PDB: 3HEE_A 3HE8_A 3PH3_B 3PH4_B 3ONO_A 4EM8_B 3S5P_B 1O1X_A 2BES_D 2VVP_D ....
Probab=48.15 E-value=1e+02 Score=24.54 Aligned_cols=102 Identities=14% Similarity=0.160 Sum_probs=60.6
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEE-EeCh
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIG-VVGA 136 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~-aVG~ 136 (263)
.+.+.+.|++.|++|+.+-.+...+ .|+. .+-..+. -+++|.-|+-..+++-..+.. ...++++.+ |--+
T Consensus 14 K~~i~~~L~~~g~eV~D~G~~~~~~-~dy~~~a~~va~~V~-~~~~d~GIliCgtGiG~~iaA---NK~~GIrAa~~~d~ 88 (140)
T PF02502_consen 14 KEAIKEYLEEKGYEVIDFGTYSEDS-VDYPDFAEKVAEAVA-SGEADRGILICGTGIGMSIAA---NKVPGIRAALCSDP 88 (140)
T ss_dssp HHHHHHHHHHTTEEEEEESESSTST---HHHHHHHHHHHHH-TTSSSEEEEEESSSHHHHHHH---HTSTT--EEE-SSH
T ss_pred HHHHHHHHHHCCCEEEEeCCCCCCC-CCHHHHHHHHHHHHH-cccCCeEEEEcCCChhhhhHh---hcCCCEEEEeeCCH
Confidence 4678889999999999999887653 2332 2233332 245555444444444444331 223566664 5688
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhcc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (263)
.|++..+++- +-++..++.....+.++..|.+
T Consensus 89 ~~A~~ar~hN-----daNVL~lG~~~~~~~~a~~i~~ 120 (140)
T PF02502_consen 89 YSAKMAREHN-----DANVLCLGARVIGEELAKEIVD 120 (140)
T ss_dssp HHHHHHHHTT-------SEEEEETTTSHHHHHHHHHH
T ss_pred HHHHHHHHhc-----CCcEEEechhhccHHHHHHHHH
Confidence 8888888872 4455556778888888777654
No 326
>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=48.11 E-value=1.2e+02 Score=24.76 Aligned_cols=86 Identities=19% Similarity=0.084 Sum_probs=50.3
Q ss_pred EeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEe----CHHHHHHHHHHHHHcCCCCcE
Q 024727 55 VTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIIT----SPEAGSVFLEAWKEAGTPNVR 130 (263)
Q Consensus 55 itr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFT----S~~aV~~~~~~l~~~~~~~~~ 130 (263)
+-....-...+.+.|++.|+++..+|..... +.+ ..+..+|.||.+ |+.....+....+.. ..+++
T Consensus 4 ~~~~~~~~~~~~~~l~~~G~~~~~~~~~~~~-----~~~----~~~~~~dgvil~gG~~~~~~~~~~~~i~~~~-~~~~P 73 (184)
T cd01743 4 IDNYDSFTYNLVQYLRELGAEVVVVRNDEIT-----LEE----LELLNPDAIVISPGPGHPEDAGISLEIIRAL-AGKVP 73 (184)
T ss_pred EeCCCccHHHHHHHHHHcCCceEEEeCCCCC-----HHH----HhhcCCCEEEECCCCCCcccchhHHHHHHHH-hcCCC
Confidence 4455667788999999999999888773321 111 134679998875 433222222222211 23578
Q ss_pred EEEeChhHHHHHHHhhhhcCCCCcee
Q 024727 131 IGVVGAGTASIFEEVIQSSKCSLDVA 156 (263)
Q Consensus 131 i~aVG~~Ta~~L~~~~~~~~~G~~~~ 156 (263)
++.|.-.-.-..... |-++.
T Consensus 74 vlGIC~G~Qlla~~~------Gg~v~ 93 (184)
T cd01743 74 ILGVCLGHQAIAEAF------GGKVV 93 (184)
T ss_pred EEEECHhHHHHHHHh------CCEEE
Confidence 887776554444555 76553
No 327
>PRK13394 3-hydroxybutyrate dehydrogenase; Provisional
Probab=47.93 E-value=1.1e+02 Score=25.87 Aligned_cols=33 Identities=15% Similarity=0.099 Sum_probs=25.7
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEE
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLE 78 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~ 78 (263)
..+.|++||||..... ...+.+.|.++|+++..
T Consensus 3 ~~~~~~~vlItGasg~iG~~la~~l~~~G~~v~~ 36 (262)
T PRK13394 3 SNLNGKTAVVTGAASGIGKEIALELARAGAAVAI 36 (262)
T ss_pred ccCCCCEEEEECCCChHHHHHHHHHHHCCCeEEE
Confidence 3467899999987654 45789999999998753
No 328
>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=47.89 E-value=1.4e+02 Score=24.37 Aligned_cols=50 Identities=10% Similarity=0.020 Sum_probs=29.8
Q ss_pred EEeCCCCChHHHHHHHHhCCC---cEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH
Q 024727 54 VVTRERGKNGKLIKALAKHRI---DCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA 113 (263)
Q Consensus 54 Litr~~~~~~~l~~~L~~~G~---~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a 113 (263)
+.+........+.+.|++.|. ++...+...... ...+..+|.||++-+..
T Consensus 5 l~~~~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~----------~~~~~~~dgvil~Gg~~ 57 (188)
T cd01741 5 LQHDTPEGPGLFEDLLREAGAETIEIDVVDVYAGEL----------LPDLDDYDGLVILGGPM 57 (188)
T ss_pred EECCCCCCcchHHHHHHhcCCCCceEEEEecCCCCC----------CCCcccCCEEEECCCCc
Confidence 334444346788999999985 443333222111 12467899999997643
No 329
>PRK07206 hypothetical protein; Provisional
Probab=47.74 E-value=2.3e+02 Score=26.20 Aligned_cols=68 Identities=19% Similarity=0.068 Sum_probs=41.2
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEE-----------------eeeCCCchHHHHHHhcCCCccEEEEeCHH
Q 024727 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQ-----------------HAQGPDTDRLSSVLNADTIFDWIIITSPE 112 (263)
Q Consensus 50 g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~-----------------~~~~~~~~~l~~~l~~l~~~d~IiFTS~~ 112 (263)
++++++.-+......+.+.+++.|++++.+-.-. .....+.+.+.+.++. ..+|.|+-.+-.
T Consensus 2 ~k~~liv~~~~~~~~~~~a~~~~G~~~v~v~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~-~~~d~vi~~~e~ 80 (416)
T PRK07206 2 MKKVVIVDPFSSGKFLAPAFKKRGIEPIAVTSSCLLDPYYYASFDTSDFIEVIINGDIDDLVEFLRK-LGPEAIIAGAES 80 (416)
T ss_pred CCeEEEEcCCchHHHHHHHHHHcCCeEEEEEcCCCCchhhhcccCcccchhhhcCCCHHHHHHHHHH-cCCCEEEECCCc
Confidence 4678888877667789999999999887542110 0011112333344433 468988877766
Q ss_pred HHHHHH
Q 024727 113 AGSVFL 118 (263)
Q Consensus 113 aV~~~~ 118 (263)
.+....
T Consensus 81 ~~~~~a 86 (416)
T PRK07206 81 GVELAD 86 (416)
T ss_pred cHHHHH
Confidence 565443
No 330
>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=47.67 E-value=57 Score=27.56 Aligned_cols=78 Identities=12% Similarity=0.057 Sum_probs=44.5
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC---chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPD---TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~---~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
-+.+.++++|..+.....+ ...... .+.+...+..-..+|+|++++-......+..+.+.+. +++.+++.+..
T Consensus 132 gf~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~vp~dv~vvg~d~~ 210 (261)
T cd06272 132 GFLETCDENGISISDSHID-VDGLSAEGGDNAAKKLLKESDLPTAIICGSYDIALGVLSALNKQGISIPEDIEIISYDNI 210 (261)
T ss_pred HHHHHHHHcCCCCCHHHee-eCCCCHHHHHHHHHHHHcCCCCCCEEEECCcHHHHHHHHHHHHhCCCCCCceEEEeeCCh
Confidence 3556777777533221121 111111 1233444433345789888887777777777877775 47888888875
Q ss_pred HHHHH
Q 024727 138 TASIF 142 (263)
Q Consensus 138 Ta~~L 142 (263)
....+
T Consensus 211 ~~~~~ 215 (261)
T cd06272 211 PQMAI 215 (261)
T ss_pred hHHhh
Confidence 44443
No 331
>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=47.66 E-value=72 Score=26.98 Aligned_cols=75 Identities=13% Similarity=-0.024 Sum_probs=44.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
+-+.+.++++|..+....++......+ .+.+++.++....+|+|++.+...+..+.+.+.+.+. +++.+++.+..
T Consensus 137 ~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d~~ 216 (270)
T cd06296 137 DGYRAALAEAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIFAGNDLMALGVYEAARERGLRIPEDLSVVGFDDL 216 (270)
T ss_pred HHHHHHHHHcCCCCChHHheeCCCCHHHHHHHHHHHHhCCCCCcEEEEcCcHHHHHHHHHHHHhCCCCCCceEEEEECCh
Confidence 345667777776654322222211111 1234455544456899999888888888888888775 36777777643
No 332
>PRK09082 methionine aminotransferase; Validated
Probab=47.56 E-value=2.3e+02 Score=25.99 Aligned_cols=32 Identities=13% Similarity=0.100 Sum_probs=17.0
Q ss_pred CCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEee
Q 024727 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 176 ~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
.+|++|++..-.- ..+...++..|.++..+++
T Consensus 113 ~~gd~Vli~~p~y--~~~~~~~~~~g~~~~~~~~ 144 (386)
T PRK09082 113 RPGDEVIVFDPSY--DSYAPAIELAGGRAVRVAL 144 (386)
T ss_pred CCCCEEEEeCCCc--hhhHHHHHHcCCEEEEEec
Confidence 3456666654322 2244455566666666655
No 333
>PRK14194 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=47.53 E-value=1.9e+02 Score=26.30 Aligned_cols=147 Identities=16% Similarity=0.102 Sum_probs=78.5
Q ss_pred HHHHHhCCCcEEEeceEEeeeCCCchHHHHHH---hcCCCccEEEEeCHH--HHH--HHHHHHHH-cCCCCcEEEEeChh
Q 024727 66 IKALAKHRIDCLELPLIQHAQGPDTDRLSSVL---NADTIFDWIIITSPE--AGS--VFLEAWKE-AGTPNVRIGVVGAG 137 (263)
Q Consensus 66 ~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l---~~l~~~d~IiFTS~~--aV~--~~~~~l~~-~~~~~~~i~aVG~~ 137 (263)
.+..++.|++...+-+-+. ...+++.+.+ ++..+.|.|+.--|- .++ ..++.+.. ...|+..-.-.|
T Consensus 55 ~k~a~~~Gi~~~~~~l~~~---~t~~~l~~~I~~lN~D~~V~GIlvqlPLP~~i~~~~i~~~I~p~KDVDGl~~~N~g-- 129 (301)
T PRK14194 55 ILRAEEAGIRSLEHRLPAD---TSQARLLALIAELNADPSVNGILLQLPLPAHIDEARVLQAINPLKDVDGFHSENVG-- 129 (301)
T ss_pred HHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHcCCCCCCeEEEeCCCCCCCCHHHHHhccCchhccCccChhhhh--
Confidence 3456677988776544221 1233444444 344678899988762 221 12222111 112333333333
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCC-CCchhHHHHHHhCCCeeeEEeeecccc
Q 024727 138 TASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASA-KASNEIEEGLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~-~~~~~L~~~L~~~G~~v~~~~vY~~~~ 214 (263)
.|- . |-. .+.| -|+.+.++.|.... ..|+++.++.-. .-..-+...|.++|++|.. |.+..
T Consensus 130 ---~l~-~------~~~-~~~P--cTp~aii~lL~~~~i~l~Gk~V~vIG~s~ivG~PmA~~L~~~gatVtv---~~~~t 193 (301)
T PRK14194 130 ---GLS-Q------GRD-VLTP--CTPSGCLRLLEDTCGDLTGKHAVVIGRSNIVGKPMAALLLQAHCSVTV---VHSRS 193 (301)
T ss_pred ---HHh-c------CCC-CCCC--CcHHHHHHHHHHhCCCCCCCEEEEECCCCccHHHHHHHHHHCCCEEEE---ECCCC
Confidence 221 2 322 2444 47888888887653 478999888764 4445588888899986643 43222
Q ss_pred CCCChHHHHHHhCCCCEEEEeCHH
Q 024727 215 VHHVDQTVLKQALSIPVVAVASPS 238 (263)
Q Consensus 215 ~~~~~~~~~~~l~~~d~vvFtS~s 238 (263)
....+ .....|+|+-.-+.
T Consensus 194 --~~l~e---~~~~ADIVIsavg~ 212 (301)
T PRK14194 194 --TDAKA---LCRQADIVVAAVGR 212 (301)
T ss_pred --CCHHH---HHhcCCEEEEecCC
Confidence 12222 23467777665543
No 334
>PRK14190 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=47.53 E-value=2.1e+02 Score=25.68 Aligned_cols=148 Identities=16% Similarity=0.113 Sum_probs=79.7
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HHH--HHHHHHHHcCCCCcEEEEeChh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AGS--VFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV~--~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
-.+..++.|+++..+-+-+.. ..+++.+.+. +..+.|.|+.--|- .++ ..++.+. +.+.+=++-+.
T Consensus 53 k~k~a~~~Gi~~~~~~l~~~~---~~~el~~~I~~lN~D~~V~GIlvq~PLp~~i~~~~i~~~I~----p~KDVDGl~~~ 125 (284)
T PRK14190 53 KKKAAEKVGIYSELYEFPADI---TEEELLALIDRLNADPRINGILVQLPLPKHIDEKAVIERIS----PEKDVDGFHPI 125 (284)
T ss_pred HHHHHHHcCCEEEEEECCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhcCC----ccccccccCHh
Confidence 345567779888766553221 2234444443 44678888887763 221 1122111 12233333333
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcC-CCCchhHHHHHHhCCCeeeEEeeecccc
Q 024727 138 TASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPAS-AKASNEIEEGLSNRGFEVVRLNTYTTEP 214 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g-~~~~~~L~~~L~~~G~~v~~~~vY~~~~ 214 (263)
-...|. . |-. .+.| -|+.+.++.|..+. ..|++++++.. +.-..-|...|.++|+.|.-+.-+.
T Consensus 126 n~g~l~-~------~~~-~~~P--cTp~av~~lL~~~~i~l~Gk~vvViGrS~iVG~Pla~lL~~~~atVt~chs~t--- 192 (284)
T PRK14190 126 NVGRMM-L------GQD-TFLP--CTPHGILELLKEYNIDISGKHVVVVGRSNIVGKPVGQLLLNENATVTYCHSKT--- 192 (284)
T ss_pred hHHHHh-c------CCC-CCCC--CCHHHHHHHHHHcCCCCCCCEEEEECCCCccHHHHHHHHHHCCCEEEEEeCCc---
Confidence 333332 2 322 2445 48888987777653 46788776654 4445568888989999886543211
Q ss_pred CCCChHHHHHHhCCCCEEEEeCH
Q 024727 215 VHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 215 ~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
..+.+.....|+|+-.-+
T Consensus 193 -----~~l~~~~~~ADIvI~AvG 210 (284)
T PRK14190 193 -----KNLAELTKQADILIVAVG 210 (284)
T ss_pred -----hhHHHHHHhCCEEEEecC
Confidence 123333457888776543
No 335
>TIGR00936 ahcY adenosylhomocysteinase. This enzyme hydrolyzes adenosylhomocysteine as part of a cycle for the regeneration of the methyl donor S-adenosylmethionine. Species that lack this enzyme are likely to have adenosylhomocysteine nucleosidase (EC 3.2.2.9), an enzyme which also acts as 5'-methyladenosine nucleosidase (see TIGR01704).
Probab=47.52 E-value=2.5e+02 Score=26.56 Aligned_cols=34 Identities=9% Similarity=0.053 Sum_probs=29.2
Q ss_pred CCCCCCeEEEeCCCC-ChHHHHHHHHhCCCcEEEe
Q 024727 46 ASNSNPKVVVTRERG-KNGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 46 ~~l~g~~ILitr~~~-~~~~l~~~L~~~G~~v~~~ 79 (263)
+|+.|.+|...-.-. +...+.+.|.+.|++|...
T Consensus 28 ~pl~G~~i~~~~hl~~~Ta~l~~~L~~~GA~v~~~ 62 (406)
T TIGR00936 28 KPLKGARIAACLHVTVETAVLIETLVAGGAEVAWT 62 (406)
T ss_pred CCCCCCEEEEEEechHHHHHHHHHHHHcCCEEEEE
Confidence 999999999987754 5678999999999998765
No 336
>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=47.49 E-value=1.7e+02 Score=24.67 Aligned_cols=89 Identities=15% Similarity=0.086 Sum_probs=51.2
Q ss_pred CCCeEEEeCCCCC------hHHHHHHHHhCCCcEEEeceEEeeeCCC----chHHHHHHhcCCCccEEEEeCHHHHHHHH
Q 024727 49 SNPKVVVTRERGK------NGKLIKALAKHRIDCLELPLIQHAQGPD----TDRLSSVLNADTIFDWIIITSPEAGSVFL 118 (263)
Q Consensus 49 ~g~~ILitr~~~~------~~~l~~~L~~~G~~v~~~p~~~~~~~~~----~~~l~~~l~~l~~~d~IiFTS~~aV~~~~ 118 (263)
..++|++..+... ..-+.+.++++|..+...+........+ .+.+.+.++....+|+|++++-.....+.
T Consensus 108 g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~ 187 (265)
T cd01543 108 GFRHFAFYGLPGARWSDEREEAFRQLVAEAGYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFACTDARARQLL 187 (265)
T ss_pred CCcEEEEEcCCCCHHHHHHHHHHHHHHHHcCCccccccCccccccccHHHHHHHHHHHHhcCCCCcEEEecChHHHHHHH
Confidence 3456776654322 1335566777887653222211111111 22345555433468899998888888888
Q ss_pred HHHHHcCC---CCcEEEEeChh
Q 024727 119 EAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 119 ~~l~~~~~---~~~~i~aVG~~ 137 (263)
+.+++.+. +++.+++.+..
T Consensus 188 ~~l~~~g~~vp~di~vigfd~~ 209 (265)
T cd01543 188 EACRRAGIAVPEEVAVLGVDND 209 (265)
T ss_pred HHHHHhCCCCCCceEEEeeCCc
Confidence 88887765 36777777753
No 337
>PRK06463 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=47.46 E-value=1.2e+02 Score=25.65 Aligned_cols=70 Identities=9% Similarity=-0.005 Sum_probs=41.1
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEE--EEeCHHHHHHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWI--IITSPEAGSVFLEAWK 122 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~I--iFTS~~aV~~~~~~l~ 122 (263)
..+.|++++||-...+ ...+++.|.+.|+++... .+ ...+. .+.+... ...++ =+++..+++.+++.+.
T Consensus 3 ~~l~~k~~lItGas~gIG~~~a~~l~~~G~~v~~~--~~----~~~~~-~~~l~~~-~~~~~~~Dl~~~~~~~~~~~~~~ 74 (255)
T PRK06463 3 MRFKGKVALITGGTRGIGRAIAEAFLREGAKVAVL--YN----SAENE-AKELREK-GVFTIKCDVGNRDQVKKSKEVVE 74 (255)
T ss_pred CCcCCCEEEEeCCCChHHHHHHHHHHHCCCEEEEE--eC----CcHHH-HHHHHhC-CCeEEEecCCCHHHHHHHHHHHH
Confidence 4567899999987554 567899999999987632 11 11111 1222111 22222 2467888877777655
Q ss_pred H
Q 024727 123 E 123 (263)
Q Consensus 123 ~ 123 (263)
+
T Consensus 75 ~ 75 (255)
T PRK06463 75 K 75 (255)
T ss_pred H
Confidence 4
No 338
>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=47.28 E-value=84 Score=26.42 Aligned_cols=88 Identities=14% Similarity=0.088 Sum_probs=49.9
Q ss_pred CCeEEEeCCCC-------ChHHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024727 50 NPKVVVTRERG-------KNGKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (263)
Q Consensus 50 g~~ILitr~~~-------~~~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~ 120 (263)
.++|++..+.. ..+-+.+.++++|........+......+ .+.+++.++....+|+|+..+-.....+.+.
T Consensus 120 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~a 199 (268)
T cd06271 120 HRRIALLNPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCSSELMALGVLAA 199 (268)
T ss_pred CCcEEEecCccccchHHHHHHHHHHHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHH
Confidence 45677654321 12345667777776642222222111111 1234455543345899999988777777788
Q ss_pred HHHcCC---CCcEEEEeChh
Q 024727 121 WKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 121 l~~~~~---~~~~i~aVG~~ 137 (263)
+++.+. +++.+++.+..
T Consensus 200 l~~~g~~vp~~i~iig~d~~ 219 (268)
T cd06271 200 LAEAGLRPGRDVSVVGFDDS 219 (268)
T ss_pred HHHhCCCCCcceeEEEecCc
Confidence 888775 36778888754
No 339
>PF09822 ABC_transp_aux: ABC-type uncharacterized transport system; InterPro: IPR019196 This domain is found in various eukaryotic and prokaryotic intra-flagellar transport proteins involved in gliding motility, as well as in several hypothetical proteins.
Probab=47.24 E-value=55 Score=28.67 Aligned_cols=54 Identities=13% Similarity=0.105 Sum_probs=36.6
Q ss_pred CCceeecCCC-CCHHHHHHHhccCCCCCcEEEEEcCCCCc-------------hhHHHHHHhCCCeeeE
Q 024727 152 SLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------------NEIEEGLSNRGFEVVR 206 (263)
Q Consensus 152 G~~~~~~p~~-~t~e~L~~~l~~~~~~~~~vL~~~g~~~~-------------~~L~~~L~~~G~~v~~ 206 (263)
.+-+..-|.. ++.+++ ..|.++...|++++++-..... ..|.+.|.+.|+.+..
T Consensus 199 d~Lvi~~P~~~ls~~e~-~~l~~yl~~GG~ll~~~d~~~~~~~~~~~~~~~~~~~L~~lL~~~Gi~~~~ 266 (271)
T PF09822_consen 199 DVLVIAGPKTDLSEEEL-YALDQYLMNGGKLLILLDPFSVELQGLWAGGAQRDSNLNDLLEEYGIRINP 266 (271)
T ss_pred CEEEEECCCCCCCHHHH-HHHHHHHHcCCeEEEEECCcccccccccccccccccCHHHHHHHcCCEeCC
Confidence 4444445655 566665 5777777778898887776543 3788888888887643
No 340
>PRK04870 histidinol-phosphate aminotransferase; Provisional
Probab=47.23 E-value=2.2e+02 Score=25.67 Aligned_cols=31 Identities=23% Similarity=0.171 Sum_probs=14.2
Q ss_pred CCcEEEEEcCCCCchhHHHHHHhCCCeeeEEee
Q 024727 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 177 ~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
+|++|++.... -.......+..|+++..+++
T Consensus 104 ~gd~vlv~~P~--y~~~~~~~~~~g~~~~~i~~ 134 (356)
T PRK04870 104 PGATVLAPEPG--FVMYRMSAKLAGLEFVGVPL 134 (356)
T ss_pred CCCEEEECCCC--HHHHHHHHHHcCCEEEEecC
Confidence 34555554332 22333444555555555544
No 341
>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=47.16 E-value=53 Score=26.71 Aligned_cols=63 Identities=13% Similarity=0.054 Sum_probs=35.7
Q ss_pred hCCCcEEEeceEEeeeCC--------CchHHHHHHhcCCCccEEEEeCH-------HHHHHHHHHHHHcCCCCcEEEE
Q 024727 71 KHRIDCLELPLIQHAQGP--------DTDRLSSVLNADTIFDWIIITSP-------EAGSVFLEAWKEAGTPNVRIGV 133 (263)
Q Consensus 71 ~~G~~v~~~p~~~~~~~~--------~~~~l~~~l~~l~~~d~IiFTS~-------~aV~~~~~~l~~~~~~~~~i~a 133 (263)
+.|.++..+-+.+..+.. ..+.+....+.+.+.|.|||.|| ...+.|+..+....+.+++++.
T Consensus 29 ~~g~ev~~idL~~~~~~~~~~~~~~~~~~~~~~~~~~i~~AD~iIi~tP~Y~~s~~~~LKn~lD~~~~~~l~~K~~~~ 106 (174)
T TIGR03566 29 RLGISPRTIDLADLAPSLGGALWRSQLPPDAERILQAIESADLLVVGSPVYRGSYTGLFKHLFDLVDPNALIGKPVLL 106 (174)
T ss_pred hcCCeEEEEEhhhcChhhccccccCCCCHHHHHHHHHHHHCCEEEEECCcCcCcCcHHHHHHHHhcCHhHhCCCEEEE
Confidence 457887776665542110 12345555556788999999998 3456666654322233444443
No 342
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=47.07 E-value=35 Score=24.33 Aligned_cols=35 Identities=14% Similarity=0.130 Sum_probs=26.7
Q ss_pred EEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhc
Q 024727 131 IGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (263)
Q Consensus 131 i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (263)
+..||+.....|++. |+.+.. ....+.++.++.+.
T Consensus 59 ~~~iG~~~~~~L~~~------gI~v~~-~~~~~i~~~l~~~~ 93 (94)
T PF02579_consen 59 CGGIGEGAFRALKEA------GIKVYQ-GAGGDIEEALEAYL 93 (94)
T ss_dssp ESCSCHHHHHHHHHT------TSEEEE-STSSBHHHHHHHHH
T ss_pred EeCCCHHHHHHHHHC------CCEEEE-cCCCCHHHHHHHHh
Confidence 345799999999999 999844 36678877776653
No 343
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=47.05 E-value=2.3e+02 Score=25.99 Aligned_cols=135 Identities=17% Similarity=0.002 Sum_probs=64.8
Q ss_pred CccEEEE-eCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCce--eecCC-CCCHHHHHHHhccCCCC
Q 024727 102 IFDWIII-TSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDV--AFSPS-KATGKILASELPKNGKK 177 (263)
Q Consensus 102 ~~d~IiF-TS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~--~~~p~-~~t~e~L~~~l~~~~~~ 177 (263)
+.+.|+= .++............. +++.++.|. |...+... .++.- -..|. ..-...+++.+.. ...
T Consensus 74 ~v~aiiGp~~S~~~~~va~~a~~~---~iP~Is~~a-~~~~l~~~-----~~~~~~~R~~p~~~~~~~a~~~~~~~-~~w 143 (405)
T cd06385 74 NPWAFIGPGCDYTASPVARFTTHW---DVPLVTAGA-PALGFGVK-----DEYATITRTGPTHKKLGEFVLHIHQH-FGW 143 (405)
T ss_pred CCcEEECCCccchHHHHHHHHhcc---CCcEEcccc-ChhhcCCc-----ccCcceEEecCchHHHHHHHHHHHHh-CCC
Confidence 4444441 2333344444444333 567777765 44444322 02211 12332 2344556654433 333
Q ss_pred CcEEE-EE-cCCC--------CchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh-CCCCEEEE-eCHHHHHHHHH
Q 024727 178 KCTVL-YP-ASAK--------ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAV-ASPSAVRSSWV 245 (263)
Q Consensus 178 ~~~vL-~~-~g~~--------~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~d~vvF-tS~s~v~~~~~ 245 (263)
+++. ++ ..+. ..+.+.+.|++.|++|.....+.. . ..+....+..+ ...++|++ .++..+. .++
T Consensus 144 -~~va~ii~~~~~~~~~~~~~~~~~l~~~~~~~gi~v~~~~~~~~-~-~~d~~~~l~~ik~~~~iii~~~~~~~~~-~i~ 219 (405)
T cd06385 144 -RSHAMLIYSDNKVDDRPCYFAMEGLYMELKKNNITVVDLVFEED-D-LINYTTLLQDIKQKGRVIYVCCSPDIFR-RLM 219 (405)
T ss_pred -eEEEEEEEecCcccccchHHHHHHHHHHHHhCCeEEEEeeccCC-c-hhhHHHHHHHHhhcceEEEEeCCHHHHH-HHH
Confidence 3433 32 2221 136788899999998866543311 1 11222233333 23355555 7888888 787
Q ss_pred Hhccc
Q 024727 246 NLISD 250 (263)
Q Consensus 246 ~~~~~ 250 (263)
..+.+
T Consensus 220 ~~a~~ 224 (405)
T cd06385 220 LQFWR 224 (405)
T ss_pred HHHHH
Confidence 66544
No 344
>PLN03139 formate dehydrogenase; Provisional
Probab=46.94 E-value=2.5e+02 Score=26.35 Aligned_cols=157 Identities=13% Similarity=0.094 Sum_probs=0.0
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEe-ChhHH----
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVV-GAGTA---- 139 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aV-G~~Ta---- 139 (263)
+.+.|++.|++++..+ ....+.+++.+.+ .++|.+|.+.......-.+.+... ++.++++. |-.+-
T Consensus 67 ~~~~l~~~g~~~v~~~----~~~~~~~~~~~~l---~dadili~~~~~~~~~~~e~l~~a--p~LK~I~~~g~G~D~iDl 137 (386)
T PLN03139 67 IRDWLESQGHQYIVTD----DKEGPDCELEKHI---PDLHVLITTPFHPAYVTAERIKKA--KNLELLLTAGIGSDHIDL 137 (386)
T ss_pred HHHHHHhcCCeEEEeC----CCCCCHHHHHHHh---CCCeEEEEcCccCCCCCHHHHhhC--CCccEEEECCccccccCH
Q ss_pred HHHHHhhhhcCCCCceeecCCCCCHHHHHHH------------------------------hccCCCCCcEEEEEcCCCC
Q 024727 140 SIFEEVIQSSKCSLDVAFSPSKATGKILASE------------------------------LPKNGKKKCTVLYPASAKA 189 (263)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~------------------------------l~~~~~~~~~vL~~~g~~~ 189 (263)
+++.+. |+.+ .-....+++.+++. .......|+++.++.-..-
T Consensus 138 ~aa~~~------gI~V-~n~~g~na~sVAE~al~liL~l~R~~~~~~~~~~~g~W~~~~~~~~~~~L~gktVGIVG~G~I 210 (386)
T PLN03139 138 PAAAAA------GLTV-AEVTGSNVVSVAEDELMRILILLRNFLPGYHQVVSGEWNVAGIAYRAYDLEGKTVGTVGAGRI 210 (386)
T ss_pred HHHHHC------CeEE-EECCCcCcHHHHHHHHHHHHHHHcCcHHHHHHHHhCCCccccccCCCcCCCCCEEEEEeecHH
Q ss_pred chhHHHHHHhCCCeeeEEeeeccccCCCChH------HHHHHhCCCCEEEEeCH
Q 024727 190 SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQ------TVLKQALSIPVVAVASP 237 (263)
Q Consensus 190 ~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~------~~~~~l~~~d~vvFtS~ 237 (263)
...+.+.|+..|.+|..+.-+.......... .+.+.+...|+|+..-|
T Consensus 211 G~~vA~~L~afG~~V~~~d~~~~~~~~~~~~g~~~~~~l~ell~~sDvV~l~lP 264 (386)
T PLN03139 211 GRLLLQRLKPFNCNLLYHDRLKMDPELEKETGAKFEEDLDAMLPKCDVVVINTP 264 (386)
T ss_pred HHHHHHHHHHCCCEEEEECCCCcchhhHhhcCceecCCHHHHHhhCCEEEEeCC
No 345
>COG2604 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.91 E-value=1.4e+02 Score=29.54 Aligned_cols=133 Identities=11% Similarity=-0.019 Sum_probs=76.1
Q ss_pred cEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHH-HHhccCCCCCcEEE
Q 024727 104 DWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILA-SELPKNGKKKCTVL 182 (263)
Q Consensus 104 d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~-~~l~~~~~~~~~vL 182 (263)
.+||..++-+.+--+..+++.. +.+.|+|.| +|...|.++ |+.||++-. -+..+++ +.+.... ++.+.
T Consensus 226 ~aiIVSaGPSL~Kql~lLK~y~-~k~~IFcad-sal~~L~k~------GIkPDyVc~-ld~~di~~e~~~n~~--~k~ip 294 (594)
T COG2604 226 PAIIVSAGPSLEKQLPLLKKYQ-DKATIFCAD-SALPILAKH------GIKPDYVCS-LDPDDIAYEFFQNDF--NKDIP 294 (594)
T ss_pred ceEEEcCCcChhhccHHHHhcc-cceEEEECC-CcchHHHhc------CCCCCeEEE-ecchHHHHHHHhccc--CCCcc
Confidence 5666667777777777777653 577888888 578999999 999998753 2333343 3444433 35555
Q ss_pred EEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh-CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEE
Q 024727 183 YPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACI 261 (263)
Q Consensus 183 ~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~I 261 (263)
+......-+...+.++ |-+. +..++. . +.+.+ ..-...+.+-++.+. .-+.++.. ....+|+-|
T Consensus 295 ~~~~~~~h~~vv~~~k--g~k~--~~~~~~-~-------~~~~~~l~d~gyi~~G~SVah-~~~~LA~~--lg~k~IIfI 359 (594)
T COG2604 295 LILASITHPRVVEYLK--GNKI--FFFRDG-G-------FSARFNLNDFGYIDTGGSVAH-MCYELAVY--LGFKNIIFI 359 (594)
T ss_pred eeeeccccHHHHHhhc--cCcE--EEEecc-h-------HHHHhccCCcceeeccccHHH-HHHHHHHH--hCCCcEEEE
Confidence 5555555555667776 3221 222221 1 11222 233445666666666 55555432 345566666
Q ss_pred C
Q 024727 262 A 262 (263)
Q Consensus 262 G 262 (263)
|
T Consensus 360 G 360 (594)
T COG2604 360 G 360 (594)
T ss_pred e
Confidence 6
No 346
>PRK06550 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=46.89 E-value=1.3e+02 Score=25.06 Aligned_cols=33 Identities=9% Similarity=0.045 Sum_probs=25.4
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~ 79 (263)
++.|++++||..... ...+.+.|.+.|++++..
T Consensus 2 ~l~~k~~lVtGas~~iG~~ia~~l~~~G~~v~~~ 35 (235)
T PRK06550 2 EFMTKTVLITGAASGIGLAQARAFLAQGAQVYGV 35 (235)
T ss_pred CCCCCEEEEcCCCchHHHHHHHHHHHCCCEEEEE
Confidence 367899999976543 467889999999987654
No 347
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=46.72 E-value=2.2e+02 Score=28.09 Aligned_cols=18 Identities=17% Similarity=0.211 Sum_probs=11.4
Q ss_pred CCCEEEEeCHHHHHHHHHH
Q 024727 228 SIPVVAVASPSAVRSSWVN 246 (263)
Q Consensus 228 ~~d~vvFtS~s~v~~~~~~ 246 (263)
....++.+|..++. ..++
T Consensus 173 g~~g~~~~s~e~i~-~a~~ 190 (538)
T PRK15424 173 GMTGIFIYSAATVR-QAFE 190 (538)
T ss_pred CCceEEecCHHHHH-HHHH
Confidence 45666777887777 4433
No 348
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=46.61 E-value=1.7e+02 Score=27.59 Aligned_cols=63 Identities=22% Similarity=0.074 Sum_probs=40.8
Q ss_pred hccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh---CCCCEEEEe
Q 024727 171 LPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA---LSIPVVAVA 235 (263)
Q Consensus 171 l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l---~~~d~vvFt 235 (263)
+.+...+|++||++....=.+-+.+.++..|.+|..+.+=-- ..-+++++.+.+ .++++|.++
T Consensus 73 v~sl~~pgdkVLv~~nG~FG~R~~~ia~~~g~~v~~~~~~wg--~~v~p~~v~~~L~~~~~~~~V~~v 138 (383)
T COG0075 73 VASLVEPGDKVLVVVNGKFGERFAEIAERYGAEVVVLEVEWG--EAVDPEEVEEALDKDPDIKAVAVV 138 (383)
T ss_pred HHhccCCCCeEEEEeCChHHHHHHHHHHHhCCceEEEeCCCC--CCCCHHHHHHHHhcCCCccEEEEE
Confidence 334445789999998887777799999999998866655211 112234455544 367777764
No 349
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=46.49 E-value=2.5e+02 Score=26.23 Aligned_cols=142 Identities=15% Similarity=0.110 Sum_probs=74.8
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCCCcEEEEeC-hh
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTPNVRIGVVG-AG 137 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~-~~~~~~~i~aVG-~~ 137 (263)
....++.+.|++.|+++..... .....+++ +...+...-+..++..-..+.+.+++ .+.+-....=+| +.
T Consensus 171 ~d~~el~~lL~~~Gl~v~~~~~----~~~s~eei----~~~~~A~lniv~~~~~~~~~a~~L~~~fGip~~~~~p~G~~~ 242 (410)
T cd01968 171 GELWGVKPLLEKLGIRVLASIT----GDSRVDEI----RRAHRAKLNVVQCSKSMIYLARKMEEKYGIPYIEVSFYGIRD 242 (410)
T ss_pred ccHHHHHHHHHHcCCeEEEEeC----CCCCHHHH----HhhhhCcEEEEEchhHHHHHHHHHHHHhCCCeEecCcCcHHH
Confidence 3457999999999999875311 11122332 24456666665555444445666654 333211111144 35
Q ss_pred HHHHHHHhhhhcCCCCce--eecCCC--CCHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeec
Q 024727 138 TASIFEEVIQSSKCSLDV--AFSPSK--ATGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~--~~~p~~--~t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~ 211 (263)
|.+.|++.. ...|... +..++. ..-..+.+.+.+. ...|+++.+..+....-.+.+.|.+.|++|..+.++.
T Consensus 243 t~~~l~~ia--~~~g~~~~~~~~~~~i~~e~~~~~~~l~~~~~~l~gkrv~i~~~~~~~~~la~~l~elGm~v~~~~~~~ 320 (410)
T cd01968 243 TSKSLRNIA--ELLGDEELIERTEELIAREEARLRPELAPYRARLEGKKAALYTGGVKSWSLVSALQDLGMEVVATGTQK 320 (410)
T ss_pred HHHHHHHHH--HHhCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhCCCEEEEEcCCchHHHHHHHHHHCCCEEEEEeccc
Confidence 666666551 1124421 000100 0001122333321 1357898887766666778899999999987775443
No 350
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=46.29 E-value=1.1e+02 Score=21.88 Aligned_cols=93 Identities=17% Similarity=0.162 Sum_probs=54.8
Q ss_pred ChHHHHHHHHhCCC-cEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEe----CHHHHHHHHHHHHHcCCCCcEEEEeC
Q 024727 61 KNGKLIKALAKHRI-DCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIIT----SPEAGSVFLEAWKEAGTPNVRIGVVG 135 (263)
Q Consensus 61 ~~~~l~~~L~~~G~-~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFT----S~~aV~~~~~~l~~~~~~~~~i~aVG 135 (263)
....+.+.|+..|+ .+.. ..+.++....+.. ..+|.++.- -.++. .+++.+...+ ++.++++++
T Consensus 10 ~~~~l~~~l~~~~~~~v~~--------~~~~~~~~~~~~~-~~~d~iiid~~~~~~~~~-~~~~~i~~~~-~~~~ii~~t 78 (112)
T PF00072_consen 10 IRELLEKLLERAGYEEVTT--------ASSGEEALELLKK-HPPDLIIIDLELPDGDGL-ELLEQIRQIN-PSIPIIVVT 78 (112)
T ss_dssp HHHHHHHHHHHTTEEEEEE--------ESSHHHHHHHHHH-STESEEEEESSSSSSBHH-HHHHHHHHHT-TTSEEEEEE
T ss_pred HHHHHHHHHHhCCCCEEEE--------ECCHHHHHHHhcc-cCceEEEEEeeecccccc-cccccccccc-ccccEEEec
Confidence 35667788887776 4331 1334444455533 468998865 23333 3444455554 578888776
Q ss_pred hhHH----HHHHHhhhhcCCCCceeecCCCCCHHHHHHHh
Q 024727 136 AGTA----SIFEEVIQSSKCSLDVAFSPSKATGKILASEL 171 (263)
Q Consensus 136 ~~Ta----~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l 171 (263)
.... ..+.+. |+. .+..+..+.+.|.+.+
T Consensus 79 ~~~~~~~~~~~~~~------g~~-~~l~kp~~~~~l~~~i 111 (112)
T PF00072_consen 79 DEDDSDEVQEALRA------GAD-DYLSKPFSPEELRAAI 111 (112)
T ss_dssp SSTSHHHHHHHHHT------TES-EEEESSSSHHHHHHHH
T ss_pred CCCCHHHHHHHHHC------CCC-EEEECCCCHHHHHHhh
Confidence 3322 333444 765 3677778888887765
No 351
>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=46.25 E-value=1.4e+02 Score=26.57 Aligned_cols=87 Identities=13% Similarity=0.056 Sum_probs=49.8
Q ss_pred CCHHHHHHHhccCCCCCcEEEEEcCCCC-----chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEE
Q 024727 162 ATGKILASELPKNGKKKCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAV 234 (263)
Q Consensus 162 ~t~e~L~~~l~~~~~~~~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvF 234 (263)
.....+++.+... ..+++.++..+.. .+.+.+.+++.|++|.....|...............+ .+.|+|++
T Consensus 146 ~~~~a~~~~~~~~--~~~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~ 223 (348)
T cd06350 146 SQALAIVALLKHF--GWTWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVV 223 (348)
T ss_pred HHHHHHHHHHHHC--CCeEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEE
Confidence 3456666666543 2367777664432 4678888999999886655554322111112223333 35676665
Q ss_pred e-CHHHHHHHHHHhcccc
Q 024727 235 A-SPSAVRSSWVNLISDT 251 (263)
Q Consensus 235 t-S~s~v~~~~~~~~~~~ 251 (263)
. ++..+. .++..+.+.
T Consensus 224 ~~~~~~~~-~~~~~a~~~ 240 (348)
T cd06350 224 FGDEDDAL-RLFCEAYKL 240 (348)
T ss_pred EeCcHHHH-HHHHHHHHh
Confidence 4 566677 777766554
No 352
>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=46.23 E-value=80 Score=25.67 Aligned_cols=50 Identities=14% Similarity=0.104 Sum_probs=33.9
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC---CCccEEEEeCHHHH
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD---TIFDWIIITSPEAG 114 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l---~~~d~IiFTS~~aV 114 (263)
....+...|++.|+++..... .+ .|.+.+.+.+++. .++|.|+.|-..++
T Consensus 23 n~~~l~~~L~~~G~~v~~~~i---v~-Dd~~~i~~~l~~~~~~~~~DlVIttGGtg~ 75 (163)
T TIGR02667 23 SGQYLVERLTEAGHRLADRAI---VK-DDIYQIRAQVSAWIADPDVQVILITGGTGF 75 (163)
T ss_pred cHHHHHHHHHHCCCeEEEEEE---cC-CCHHHHHHHHHHHHhcCCCCEEEECCCcCC
Confidence 455788889999998765433 22 3445566666542 57999998877664
No 353
>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=46.22 E-value=75 Score=26.82 Aligned_cols=46 Identities=17% Similarity=0.102 Sum_probs=31.5
Q ss_pred HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 92 RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 92 ~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
.+...++...++|+|+.++......++..+.+.+. +++.+++.+..
T Consensus 173 ~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~iP~dv~vig~d~~ 221 (270)
T cd06294 173 ALKKLLEQHPRPTAIVATDDLLALGVLKVLNELGLKVPEDLSIIGFNNS 221 (270)
T ss_pred HHHHHHhCCCCCCEEEECChHHHHHHHHHHHHcCCCCCcceEEEeeCCh
Confidence 34455543346889988888777777777777775 46777777654
No 354
>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=46.03 E-value=98 Score=26.00 Aligned_cols=74 Identities=16% Similarity=0.017 Sum_probs=42.0
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
-+.+.++++|.++.....+......+ .+.+...+......|+|+.+|......+...+.+.+. +++.+++++..
T Consensus 136 gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~g~~~al~~~g~~~p~~v~v~g~d~~ 214 (267)
T cd06284 136 GYRQALAEAGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCFSDEMAIGAISALKELGLRVPEDISVVGFDDI 214 (267)
T ss_pred HHHHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEcCcHHHHHHHHHHHHcCCCCccceeEEEeCCH
Confidence 34567777775543222222111111 1234445533346788888888777777787877764 36677777644
No 355
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=45.95 E-value=2e+02 Score=25.82 Aligned_cols=171 Identities=12% Similarity=0.101 Sum_probs=84.1
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---
Q 024727 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT--- 126 (263)
Q Consensus 50 g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~--- 126 (263)
|++|...-+---+....+.|++.|..++.. .+ +..+.+-+.+||.+=-.-....+.+.+.+.
T Consensus 31 ~~~vy~lG~iVHN~~Vv~~L~~~Gv~~v~~--------~~-------~~~v~~~~~ViirAHGv~~~~~~~~~~~g~~vi 95 (281)
T PRK12360 31 GKKIYTLGPLIHNNQVVSDLEEKGVKTIEE--------SE-------IDSLKEGDVVIIRSHGVSKKVYKDLKDKGLEII 95 (281)
T ss_pred CCCeEEecCCcCCHHHHHHHHHCcCEEECc--------Cc-------hhhCCCCCEEEEeCCCCCHHHHHHHHHCCCeEE
Confidence 567777766556778888899999876621 11 011233345555543333444444444443
Q ss_pred C-CcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-------------------CCHHHHHHHhccCCCCCcEEEEEc-
Q 024727 127 P-NVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-------------------ATGKILASELPKNGKKKCTVLYPA- 185 (263)
Q Consensus 127 ~-~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-------------------~t~e~L~~~l~~~~~~~~~vL~~~- 185 (263)
| .++++.--...++.+.+. |..+.+..+. .+.+++ +.|. . .+++.++.
T Consensus 96 DaTCP~V~k~~~~v~~~~~~------Gy~iviiG~~~HpEv~gi~g~~~~~~~vv~~~~d~-~~l~---~-~~kv~~vsQ 164 (281)
T PRK12360 96 DATCPFVKKIQNIVEEYYNK------GYSIIIVGDKNHPEVIGINGWCDNSAYIVNSIEEV-ENIP---F-LDKACVVAQ 164 (281)
T ss_pred eCCCccchHHHHHHHHHHhC------CCEEEEEcCCCCceeeEeccCcCCCeEEECCHHHH-hhCc---c-ccCEEEEEC
Confidence 1 344444444444444444 5554443322 122222 2221 1 14444332
Q ss_pred CCCCc---hhHHHHHHhCCCeeeEEeeeccccCCCCh-H-HHHHHhCCCCEEEEeC---HHHHHHHHHHhccc
Q 024727 186 SAKAS---NEIEEGLSNRGFEVVRLNTYTTEPVHHVD-Q-TVLKQALSIPVVAVAS---PSAVRSSWVNLISD 250 (263)
Q Consensus 186 g~~~~---~~L~~~L~~~G~~v~~~~vY~~~~~~~~~-~-~~~~~l~~~d~vvFtS---~s~v~~~~~~~~~~ 250 (263)
--... ..+.+.|+++ +.++.+++|++..... + .+.++.+..|++++-- ++.-+ .+++...+
T Consensus 165 TT~~~~~~~~iv~~l~~~---~~~~~v~~TIC~aT~~RQ~a~~~La~~vD~miVVGg~~SsNT~-rL~eia~~ 233 (281)
T PRK12360 165 TTIIPELWEDILNVIKLK---SKELVFFNTICSATKKRQESAKELSKEVDVMIVIGGKHSSNTQ-KLVKICEK 233 (281)
T ss_pred CCCcHHHHHHHHHHHHHh---CcccccCCCcchhhhhHHHHHHHHHHhCCEEEEecCCCCccHH-HHHHHHHH
Confidence 22222 3455566554 3455567777755432 1 2333336899888742 34455 67776654
No 356
>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=45.89 E-value=1.5e+02 Score=25.69 Aligned_cols=48 Identities=15% Similarity=0.198 Sum_probs=35.2
Q ss_pred HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024727 92 RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (263)
Q Consensus 92 ~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta 139 (263)
.++..|..-.+.|+|+.++-......++.+.+.+.+++.+++.|..+.
T Consensus 176 ~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~di~vvg~d~~~~ 223 (294)
T cd06316 176 IANAMLTQNPDLKGIYAVWDVPAEGVIAALRAAGRDDIKVTTVDLGLN 223 (294)
T ss_pred HHHHHHHhCCCeeEEEeCCCchhHHHHHHHHHcCCCCceEEEeCCCcH
Confidence 445555444567888888878888888888888876788888876543
No 357
>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=45.80 E-value=70 Score=26.93 Aligned_cols=44 Identities=20% Similarity=0.220 Sum_probs=26.9
Q ss_pred HHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChh
Q 024727 94 SSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 94 ~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
.+.+....++++|+.++.......++.+.+.+.+++.|++.+..
T Consensus 173 ~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~di~iig~d~~ 216 (268)
T cd06323 173 ENILQAHPDIKGVFAQNDEMALGAIEALKAAGKDDVKVVGFDGT 216 (268)
T ss_pred HHHHHHCCCcCEEEEcCCchHHHHHHHHHHcCCCCcEEEEeCCC
Confidence 33343334577777777766666667777666555666666553
No 358
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=45.57 E-value=36 Score=24.51 Aligned_cols=37 Identities=22% Similarity=0.459 Sum_probs=25.4
Q ss_pred CCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeC
Q 024727 187 AKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVAS 236 (263)
Q Consensus 187 ~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS 236 (263)
+.+..++.+.|+++|++|..+.-+. .++++|+++.|-
T Consensus 7 E~~Ls~v~~~L~~~GyeVv~l~~~~-------------~~~~~daiVvtG 43 (80)
T PF03698_consen 7 EEGLSNVKEALREKGYEVVDLENEQ-------------DLQNVDAIVVTG 43 (80)
T ss_pred cCCchHHHHHHHHCCCEEEecCCcc-------------ccCCcCEEEEEC
Confidence 3456789999999999886655222 134777777764
No 359
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=45.49 E-value=40 Score=28.34 Aligned_cols=27 Identities=11% Similarity=0.375 Sum_probs=20.2
Q ss_pred HHHHHHhCCCCEEEEeCH-------HHHHHHHHHh
Q 024727 220 QTVLKQALSIPVVAVASP-------SAVRSSWVNL 247 (263)
Q Consensus 220 ~~~~~~l~~~d~vvFtS~-------s~v~~~~~~~ 247 (263)
+++.+.+.+.|+|+|.|| +..+ +|++.
T Consensus 67 ~~i~~~l~~aD~iI~gsPvy~g~vsa~~K-~fiDR 100 (207)
T COG0655 67 NEIYEKLLEADGIIFGSPVYFGNVSAQMK-AFIDR 100 (207)
T ss_pred HHHHHHHHHCCEEEEeCCeecCCchHHHH-HHHhh
Confidence 455555678999999997 4666 77776
No 360
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=45.44 E-value=66 Score=28.65 Aligned_cols=63 Identities=24% Similarity=0.168 Sum_probs=44.0
Q ss_pred cCCCCCCCeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH
Q 024727 44 ASASNSNPKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP 111 (263)
Q Consensus 44 ~~~~l~g~~ILitr~~~-~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~ 111 (263)
...++.|++|.++++.. ..--+...|++.|.+...+.+...-+ .++...+ ..+..|..+..=|
T Consensus 130 ~~adlkGk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~----~~~~~al-~~g~vda~~~~ep 193 (335)
T COG0715 130 SVADLKGKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPP----ADAVAAL-AAGQVDAFVVWEP 193 (335)
T ss_pred cccCCCCceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCc----HHHHHHH-hcCCcceEEecCC
Confidence 35789999999999986 67789999999999999888443322 1233444 3467777443333
No 361
>PRK06484 short chain dehydrogenase; Validated
Probab=45.42 E-value=2.8e+02 Score=26.44 Aligned_cols=83 Identities=16% Similarity=0.076 Sum_probs=47.9
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEE--EEeCHHHHHHHHHHH
Q 024727 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWI--IITSPEAGSVFLEAW 121 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~-~~d~I--iFTS~~aV~~~~~~l 121 (263)
.++.|+++|||....+ ...+++.|.+.|++|+..- + +.+.++...+.++ +..++ =+++..+++.+++.+
T Consensus 265 ~~~~~k~~lItGas~gIG~~~a~~l~~~G~~V~~~~--r-----~~~~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~ 337 (520)
T PRK06484 265 LAESPRVVAITGGARGIGRAVADRFAAAGDRLLIID--R-----DAEGAKKLAEALGDEHLSVQADITDEAAVESAFAQI 337 (520)
T ss_pred cccCCCEEEEECCCcHHHHHHHHHHHHCCCEEEEEe--C-----CHHHHHHHHHHhCCceeEEEccCCCHHHHHHHHHHH
Confidence 3567999999987654 5679999999999876541 1 1122222222222 22111 257888888888766
Q ss_pred HHc-CCCCcEEEEeC
Q 024727 122 KEA-GTPNVRIGVVG 135 (263)
Q Consensus 122 ~~~-~~~~~~i~aVG 135 (263)
.+. +.-+.-|.+.|
T Consensus 338 ~~~~g~id~li~nAg 352 (520)
T PRK06484 338 QARWGRLDVLVNNAG 352 (520)
T ss_pred HHHcCCCCEEEECCC
Confidence 543 22234444444
No 362
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=45.20 E-value=1.2e+02 Score=22.19 Aligned_cols=64 Identities=22% Similarity=0.250 Sum_probs=36.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
..+.+.++++|.++ ++.... ..+++. ...++| +|+++|.-...+-+.-+.....++++..|++.
T Consensus 17 ~ki~~~~~~~~~~~------~v~~~~-~~~~~~---~~~~~D-iil~~Pqv~~~~~~i~~~~~~~~~pv~~I~~~ 80 (96)
T cd05564 17 KKMKKAAEKRGIDA------EIEAVP-ESELEE---YIDDAD-VVLLGPQVRYMLDEVKKKAAEYGIPVAVIDMM 80 (96)
T ss_pred HHHHHHHHHCCCce------EEEEec-HHHHHH---hcCCCC-EEEEChhHHHHHHHHHHHhccCCCcEEEcChH
Confidence 46677777888863 232221 222222 246788 66677776655544332233357888888874
No 363
>PRK05282 (alpha)-aspartyl dipeptidase; Validated
Probab=44.93 E-value=1.1e+02 Score=26.55 Aligned_cols=75 Identities=9% Similarity=0.099 Sum_probs=46.4
Q ss_pred HHHHHHHhccCCCCCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeC
Q 024727 164 GKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVAS 236 (263)
Q Consensus 164 ~e~L~~~l~~~~~~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS 236 (263)
-+...+.+.+....+++|+|+--.... +...+.+++.|+++..+...+ +..+.+...|+|.++-
T Consensus 17 l~~~~~~~~~~~~~~~~v~fIPtAs~~~~~~~y~~~~~~af~~lG~~v~~l~~~~---------d~~~~l~~ad~I~v~G 87 (233)
T PRK05282 17 LEHALPLIAELLAGRRKAVFIPYAGVTQSWDDYTAKVAEALAPLGIEVTGIHRVA---------DPVAAIENAEAIFVGG 87 (233)
T ss_pred HHHHHHHHHHHHcCCCeEEEECCCCCCCCHHHHHHHHHHHHHHCCCEEEEeccch---------hhHHHHhcCCEEEECC
Confidence 344555555543345777776654421 336678889999987775542 1233456899888888
Q ss_pred HHHHHHHHHHhcc
Q 024727 237 PSAVRSSWVNLIS 249 (263)
Q Consensus 237 ~s~v~~~~~~~~~ 249 (263)
+.+.. +.+.+.
T Consensus 88 Gnt~~--l~~~l~ 98 (233)
T PRK05282 88 GNTFQ--LLKQLY 98 (233)
T ss_pred ccHHH--HHHHHH
Confidence 88776 444443
No 364
>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=44.89 E-value=92 Score=26.50 Aligned_cols=89 Identities=15% Similarity=0.069 Sum_probs=49.6
Q ss_pred CCeEEEeCCCCC-------hHHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024727 50 NPKVVVTRERGK-------NGKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (263)
Q Consensus 50 g~~ILitr~~~~-------~~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~ 120 (263)
.++|++...... ..-+.+.++++|..+.....+......+ ...+...++....+++|++++......+++.
T Consensus 125 ~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~g~~~~ 204 (275)
T cd06295 125 RRRIAFLGGPQDMPEGEERLEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAASDLMALGALRA 204 (275)
T ss_pred CCeEEEEcCCCCcchhHHHHHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHH
Confidence 346776543221 2346667777775443222221111001 1234455544456899999887766677777
Q ss_pred HHHcCC---CCcEEEEeChhH
Q 024727 121 WKEAGT---PNVRIGVVGAGT 138 (263)
Q Consensus 121 l~~~~~---~~~~i~aVG~~T 138 (263)
+++.+. .++.+++.+...
T Consensus 205 l~~~g~~ip~~i~ii~~d~~~ 225 (275)
T cd06295 205 LREAGRRVPEDVAVVGFDDIP 225 (275)
T ss_pred HHHhCCCCccceEEEeeCCch
Confidence 777665 367788887544
No 365
>PRK07792 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=44.88 E-value=2e+02 Score=25.49 Aligned_cols=91 Identities=13% Similarity=0.079 Sum_probs=50.5
Q ss_pred cccCCCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEEE--EeCHHHHHHH
Q 024727 42 TSASASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWII--ITSPEAGSVF 117 (263)
Q Consensus 42 ~~~~~~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~-~~d~Ii--FTS~~aV~~~ 117 (263)
+++...+.|++++||....+ ...+++.|.+.|+.++..-.- .....+++...+...+ ...++- +++..+++.+
T Consensus 4 ~~~~~~l~~k~~lVTGas~gIG~~ia~~L~~~Ga~Vv~~~~~---~~~~~~~~~~~i~~~g~~~~~~~~Dv~d~~~~~~~ 80 (306)
T PRK07792 4 TTNTTDLSGKVAVVTGAAAGLGRAEALGLARLGATVVVNDVA---SALDASDVLDEIRAAGAKAVAVAGDISQRATADEL 80 (306)
T ss_pred ccCCcCCCCCEEEEECCCChHHHHHHHHHHHCCCEEEEecCC---chhHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHH
Confidence 45557789999999987654 467899999999987643211 0011122223332221 122221 4677788888
Q ss_pred HHHHHHcCCCCcEEEEeC
Q 024727 118 LEAWKEAGTPNVRIGVVG 135 (263)
Q Consensus 118 ~~~l~~~~~~~~~i~aVG 135 (263)
++...+.+.-+.-|.+.|
T Consensus 81 ~~~~~~~g~iD~li~nAG 98 (306)
T PRK07792 81 VATAVGLGGLDIVVNNAG 98 (306)
T ss_pred HHHHHHhCCCCEEEECCC
Confidence 776654332233344444
No 366
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=44.83 E-value=1.4e+02 Score=22.71 Aligned_cols=76 Identities=20% Similarity=0.088 Sum_probs=44.8
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH----HHHHHHHHHHcCCCCcEEEEeChh
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA----GSVFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a----V~~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
...++..|+++|+++...... ..++.-+.+....++|.|.||+... +..+.+.+++.+ ++.++++-|+.
T Consensus 5 l~~~aa~l~~~g~~v~~~~~~------~~~~~~~~~~~~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~-p~~~iv~GG~~ 77 (127)
T cd02068 5 LAYLAAVLEDAGFIVAEHDVL------SADDIVEDIKELLKPDVVGISLMTSAIYEALELAKIAKEVL-PNVIVVVGGPH 77 (127)
T ss_pred HHHHHHHHHHCCCeeeecCCC------CHHHHHHHHHHhcCCCEEEEeeccccHHHHHHHHHHHHHHC-CCCEEEECCcc
Confidence 456788899999776665432 1222222332226899999887543 333445555443 47888888877
Q ss_pred HHHHHHH
Q 024727 138 TASIFEE 144 (263)
Q Consensus 138 Ta~~L~~ 144 (263)
....-+.
T Consensus 78 ~t~~p~~ 84 (127)
T cd02068 78 ATFFPEE 84 (127)
T ss_pred hhhCHHH
Confidence 6544333
No 367
>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=44.78 E-value=2.2e+02 Score=25.02 Aligned_cols=138 Identities=14% Similarity=0.078 Sum_probs=72.6
Q ss_pred CCccEEEEeC-HHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCC
Q 024727 101 TIFDWIIITS-PEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKK 178 (263)
Q Consensus 101 ~~~d~IiFTS-~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~ 178 (263)
+..|.||... ..........+.+. +++++..+..+ ..+... .. .....+.+.. .....+++.+.+.. .
T Consensus 67 ~~v~avig~~~s~~~~~~~~~~~~~---~iP~i~~~~~~-~~~~~~---~~-~~~~~~~~~~~~~~~~~~~~l~~~g--~ 136 (336)
T cd06326 67 DKVFALFGYVGTPTTAAALPLLEEA---GVPLVGPFTGA-SSLRDP---PD-RNVFNVRASYADEIAAIVRHLVTLG--L 136 (336)
T ss_pred cCcEEEEeCCCchhHHHHHHHHHHc---CCeEEEecCCc-HHhcCC---CC-CceEEeCCChHHHHHHHHHHHHHhC--C
Confidence 4788888643 22233444545443 56777765332 223211 00 1111122222 23455666666543 4
Q ss_pred cEEEEEcCCCC-----chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCH-HHHHHHHHHhccc
Q 024727 179 CTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASP-SAVRSSWVNLISD 250 (263)
Q Consensus 179 ~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~-s~v~~~~~~~~~~ 250 (263)
+++.++..+.. .+.+.+.+++.|.++.....|.... .........+ ..+|+|++++. ..+- .+++.+.+
T Consensus 137 ~~v~~l~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~--~d~~~~~~~l~~~~~dav~~~~~~~~a~-~~i~~~~~ 213 (336)
T cd06326 137 KRIAVFYQDDAFGKDGLAGVEKALAARGLKPVATASYERNT--ADVAAAVAQLAAARPQAVIMVGAYKAAA-AFIRALRK 213 (336)
T ss_pred ceEEEEEecCcchHHHHHHHHHHHHHcCCCeEEEEeecCCc--ccHHHHHHHHHhcCCCEEEEEcCcHHHH-HHHHHHHh
Confidence 78888855432 3557788889998876655555321 1222222223 36899999874 4566 67777665
Q ss_pred c
Q 024727 251 T 251 (263)
Q Consensus 251 ~ 251 (263)
.
T Consensus 214 ~ 214 (336)
T cd06326 214 A 214 (336)
T ss_pred c
Confidence 4
No 368
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=44.54 E-value=97 Score=24.08 Aligned_cols=28 Identities=18% Similarity=0.145 Sum_probs=24.3
Q ss_pred CcEEEEEcCCCCchhHHHHHHhCCCeee
Q 024727 178 KCTVLYPASAKASNEIEEGLSNRGFEVV 205 (263)
Q Consensus 178 ~~~vL~~~g~~~~~~L~~~L~~~G~~v~ 205 (263)
-..+++++|+..--.+.+.|++.|.+|.
T Consensus 100 ~d~ivLvSgD~Df~~~i~~lr~~G~~V~ 127 (149)
T cd06167 100 IDTIVLVSGDSDFVPLVERLRELGKRVI 127 (149)
T ss_pred CCEEEEEECCccHHHHHHHHHHcCCEEE
Confidence 4789999999988888899999998773
No 369
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=44.41 E-value=2.3e+02 Score=27.79 Aligned_cols=14 Identities=29% Similarity=0.280 Sum_probs=11.3
Q ss_pred CCCEEEEeCHHHHH
Q 024727 228 SIPVVAVASPSAVR 241 (263)
Q Consensus 228 ~~d~vvFtS~s~v~ 241 (263)
+...|+.+|..+++
T Consensus 163 gl~~ili~s~esi~ 176 (526)
T TIGR02329 163 GLHGVFLYSADSVR 176 (526)
T ss_pred CCceEEEecHHHHH
Confidence 67788888887777
No 370
>PRK07791 short chain dehydrogenase; Provisional
Probab=44.31 E-value=2.2e+02 Score=24.88 Aligned_cols=33 Identities=18% Similarity=0.052 Sum_probs=26.4
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~ 79 (263)
.+.|+++|||....+ ...+++.|.+.|++++..
T Consensus 3 ~l~~k~~lITGas~GIG~aia~~la~~G~~vii~ 36 (286)
T PRK07791 3 LLDGRVVIVTGAGGGIGRAHALAFAAEGARVVVN 36 (286)
T ss_pred ccCCCEEEEECCCchHHHHHHHHHHHCCCEEEEe
Confidence 467899999987654 467889999999987654
No 371
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=44.25 E-value=46 Score=26.33 Aligned_cols=51 Identities=14% Similarity=0.198 Sum_probs=35.4
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCccEEEEeCHHHH
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWIIITSPEAG 114 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l-~~~d~IiFTS~~aV 114 (263)
....-+...|++.|+++....... .+.+++.+.+++. ..+|.||.|-..++
T Consensus 27 ~n~~~l~~~l~~~G~~v~~~~~v~----Dd~~~i~~~l~~~~~~~DliIttGG~g~ 78 (144)
T TIGR00177 27 SNGPLLAALLEEAGFNVSRLGIVP----DDPEEIREILRKAVDEADVVLTTGGTGV 78 (144)
T ss_pred CcHHHHHHHHHHCCCeEEEEeecC----CCHHHHHHHHHHHHhCCCEEEECCCCCC
Confidence 345688999999998887654432 2345566666543 57999999987775
No 372
>PRK06125 short chain dehydrogenase; Provisional
Probab=44.09 E-value=1.7e+02 Score=24.80 Aligned_cols=33 Identities=12% Similarity=0.085 Sum_probs=25.3
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~ 79 (263)
.+.|++|+|+....+ ...+.+.|.++|++|...
T Consensus 4 ~~~~k~vlItG~~~giG~~ia~~l~~~G~~V~~~ 37 (259)
T PRK06125 4 HLAGKRVLITGASKGIGAAAAEAFAAEGCHLHLV 37 (259)
T ss_pred CCCCCEEEEeCCCchHHHHHHHHHHHcCCEEEEE
Confidence 467899999987543 467888898999876543
No 373
>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=43.86 E-value=94 Score=26.23 Aligned_cols=46 Identities=13% Similarity=0.022 Sum_probs=30.1
Q ss_pred HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 92 RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 92 ~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
.+.+.++.-..+|+|+.++......+++.+.+.+. +++.+++.+..
T Consensus 166 ~~~~~l~~~~~~~aii~~~~~~a~~~~~~l~~~g~~ip~di~vi~~d~~ 214 (265)
T cd06290 166 AVEELLQRGPDFTAIFAANDQTAYGARLALYRRGLRVPEDVSLIGFDDL 214 (265)
T ss_pred HHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCcceEEeeecCc
Confidence 34455533345788888887777777777777664 36677777644
No 374
>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional
Probab=43.77 E-value=1.2e+02 Score=24.08 Aligned_cols=70 Identities=21% Similarity=0.171 Sum_probs=45.8
Q ss_pred CCHHHHHHHhccCC--CCCcEEEEEcCC-CCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHH
Q 024727 162 ATGKILASELPKNG--KKKCTVLYPASA-KASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (263)
Q Consensus 162 ~t~e~L~~~l~~~~--~~~~~vL~~~g~-~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s 238 (263)
-+.+++++.+..+. ..|++++++.-. ....-|...|.++|++|.-+.... .. +.+.....|+|+-..+.
T Consensus 10 ~t~~a~~~ll~~~~~~~~gk~v~VvGrs~~vG~pla~lL~~~gatV~~~~~~t-----~~---l~~~v~~ADIVvsAtg~ 81 (140)
T cd05212 10 PVAKAVKELLNKEGVRLDGKKVLVVGRSGIVGAPLQCLLQRDGATVYSCDWKT-----IQ---LQSKVHDADVVVVGSPK 81 (140)
T ss_pred cHHHHHHHHHHHcCCCCCCCEEEEECCCchHHHHHHHHHHHCCCEEEEeCCCC-----cC---HHHHHhhCCEEEEecCC
Confidence 36777777776553 467887776554 446779999999998885554321 11 22334688988887775
Q ss_pred H
Q 024727 239 A 239 (263)
Q Consensus 239 ~ 239 (263)
.
T Consensus 82 ~ 82 (140)
T cd05212 82 P 82 (140)
T ss_pred C
Confidence 4
No 375
>TIGR01860 VNFD nitrogenase vanadium-iron protein, alpha chain. This model represents the alpha chain of the vanadium-containing component of the vanadium-iron nitrogenase compound I. The complex also includes a second alpha chain, two beta chains and two delta chains. Compount I interacts with compound II also known as the iron-protein which transfers electrons to compound I where the catalysis occurs.
Probab=43.51 E-value=2.9e+02 Score=26.49 Aligned_cols=140 Identities=12% Similarity=0.102 Sum_probs=0.0
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCCCcEEEEeC-hh
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTPNVRIGVVG-AG 137 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~-~~~~~~~i~aVG-~~ 137 (263)
....++.+.|++.|+++. ........+++.- .......-+..++.....+.+.+++ .+.+-..+--+| ..
T Consensus 214 gd~~el~~lL~~~Gi~v~-------~~~~g~~t~~ei~-~~~~A~lnlv~~~~~~~~~A~~Leer~GiP~~~~~p~Gi~~ 285 (461)
T TIGR01860 214 GDTQVLQKYWDKMGIQVI-------AHFTGNGTYDDLR-CMHRAQLNVVNCARSAGYIANELKKRYGIPRLDVDTWGFNY 285 (461)
T ss_pred ccHHHHHHHHHHcCCcEE-------EEeCCCCCHHHHH-hcccCcEEEEECchHHHHHHHHHHHHhCCCeecCCcCCHHH
Q ss_pred HHHHHHHhhhhcCCCCc----eeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHH-hCCCeeeEEeee
Q 024727 138 TASIFEEVIQSSKCSLD----VAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLS-NRGFEVVRLNTY 210 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~----~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~-~~G~~v~~~~vY 210 (263)
|.+.|++. ..+.|+. ..+..+.....+-++...... .|+|+.+..+....-.+...|. +.|.++..+..+
T Consensus 286 T~~~L~~l--a~~~g~~~~~e~~I~~e~~~~~~~Ld~~~~~L-~GkrvaI~~~~~~~~~~~~~l~~ElGmevv~~~~~ 360 (461)
T TIGR01860 286 MAEALRKI--GAFFGIEDKAEEVIAEEYAKYKPKLDWYKERL-QGKKMCIWTGGPRLWHWTKALEDDLGMQVVAMSSK 360 (461)
T ss_pred HHHHHHHH--HHHhCCcHHHHHHHHHHHHHHHHHHHHHHHHc-CCCEEEEECCCchHHHHHHHHHHhCCCEEEEEeee
No 376
>PRK07550 hypothetical protein; Provisional
Probab=43.44 E-value=2.1e+02 Score=26.15 Aligned_cols=32 Identities=19% Similarity=0.013 Sum_probs=17.5
Q ss_pred CCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeee
Q 024727 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 177 ~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY 210 (263)
+|++|++....- ......++..|.++..+++.
T Consensus 113 ~gd~Vlv~~p~y--~~~~~~~~~~g~~~~~v~~~ 144 (386)
T PRK07550 113 AGDEVILPLPWY--FNHKMWLDMLGIRPVYLPCD 144 (386)
T ss_pred CCCEEEEcCCCC--cchHHHHHhcCCEEEEEecC
Confidence 456666665332 22344556667766666654
No 377
>PRK06567 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated
Probab=43.39 E-value=1.4e+02 Score=31.71 Aligned_cols=98 Identities=17% Similarity=0.170 Sum_probs=60.1
Q ss_pred cEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEe
Q 024727 129 VRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLN 208 (263)
Q Consensus 129 ~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~ 208 (263)
.-+-.||..|...-+-. .|=.+++...-. .++ .+. .+++++++.|..|...|.+.|++.|.+|..+.
T Consensus 857 ~i~rvVGkgT~~Ls~l~-----~Gd~v~v~GPLG--~pF--~i~----~~k~vLLVgGGVGiApLak~Lk~~G~~V~~~~ 923 (1028)
T PRK06567 857 FIVFEVGKSTSLCKTLS-----ENEKVVLMGPTG--SPL--EIP----QNKKIVIVDFEVGNIGLLKVLKENNNEVIFVT 923 (1028)
T ss_pred EEEEEEChHHHHHhcCC-----CCCEEEEEcccC--CCC--CCC----CCCeEEEEEccccHHHHHHHHHHCCCeEEEEE
Confidence 34457898886554422 155444443211 111 111 23689999999998889999999999998888
Q ss_pred eeccccCCCChHHHHHHhCCCC-EEEEeCHHHHHHHHHHhcc
Q 024727 209 TYTTEPVHHVDQTVLKQALSIP-VVAVASPSAVRSSWVNLIS 249 (263)
Q Consensus 209 vY~~~~~~~~~~~~~~~l~~~d-~vvFtS~s~v~~~~~~~~~ 249 (263)
|-.. .. ..+.++| +|+..|....+ .+....+
T Consensus 924 -~~d~--~~------~~l~~vD~vi~iGs~~mm~-~~~~~~~ 955 (1028)
T PRK06567 924 -YPDI--KI------RKLVSVDIVIINASPEIIE-ELQSLKN 955 (1028)
T ss_pred -cCCC--Cc------ccchhccEEEEeCCHHHHH-HHHHHHh
Confidence 7411 11 1245677 55666766666 6666553
No 378
>TIGR02069 cyanophycinase cyanophycinase. This model describes both cytosolic and extracellular cyanophycinases. The former are part of a system in many Cyanobacteria and a few other species of generating and later utilizing a storage polymer for nitrogen, carbon, and energy, called cyanophycin. The latter are found in species such as Pseudomonas anguilliseptica that can use external cyanophycin. The polymer has a backbone of L-aspartic acid, with most Asp side chain carboxyl groups attached to L-arginine.
Probab=43.12 E-value=1.8e+02 Score=25.40 Aligned_cols=82 Identities=15% Similarity=0.156 Sum_probs=50.4
Q ss_pred HHHHHHhccCC-CCCcEEEEEcCCCC-----chhHHHHHHhCCC-eeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCH
Q 024727 165 KILASELPKNG-KKKCTVLYPASAKA-----SNEIEEGLSNRGF-EVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 165 e~L~~~l~~~~-~~~~~vL~~~g~~~-----~~~L~~~L~~~G~-~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
..+.+.+.+.. ....+|+++....+ -+...+.|++.|+ +|..+.++.+... .. ++..+.+...|.|.|+-+
T Consensus 14 ~~i~~~~~~lag~~~~rI~~iptAS~~~~~~~~~~~~~~~~lG~~~v~~l~i~~r~~a-~~-~~~~~~l~~ad~I~~~GG 91 (250)
T TIGR02069 14 REILREFVSRAGGEDAIIVIITSASEEPREVGERYITIFSRLGVKEVKILDVREREDA-SD-ENAIALLSNATGIFFTGG 91 (250)
T ss_pred HHHHHHHHHHhCCCCceEEEEeCCCCChHHHHHHHHHHHHHcCCceeEEEecCChHHc-cC-HHHHHHHhhCCEEEEeCC
Confidence 34666665543 22347777753222 2356678889999 4777888654322 11 234455679999999999
Q ss_pred HHHHHHHHHhccc
Q 024727 238 SAVRSSWVNLISD 250 (263)
Q Consensus 238 s~v~~~~~~~~~~ 250 (263)
.+.+ +.+.+++
T Consensus 92 nq~~--l~~~l~~ 102 (250)
T TIGR02069 92 DQLR--ITSLLGD 102 (250)
T ss_pred CHHH--HHHHHcC
Confidence 9877 4444443
No 379
>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=43.11 E-value=1.2e+02 Score=25.73 Aligned_cols=74 Identities=19% Similarity=0.144 Sum_probs=43.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
-+.+.++++|......-.+......+ .+.++..++.-..+|+|+.++......+++.+++.+. .++.++++|..
T Consensus 137 gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~ip~di~v~g~d~~ 215 (268)
T cd06270 137 GYRDALAEAGIALDESLIIEGDFTEEGGYAAMQELLARGAPFTAVFCANDEMAAGAISALREHGISVPQDVSIIGFDDV 215 (268)
T ss_pred HHHHHHHHcCCCCCcceEEECCCCHHHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceeEEEecCc
Confidence 35667777776542111111111101 1234444533346799998888888888888888775 36788888864
No 380
>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=43.10 E-value=1.4e+02 Score=25.24 Aligned_cols=89 Identities=13% Similarity=0.070 Sum_probs=48.2
Q ss_pred CCeEEEeCCCC-------ChHHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcC-CCccEEEEeCHHHHHHHHH
Q 024727 50 NPKVVVTRERG-------KNGKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNAD-TIFDWIIITSPEAGSVFLE 119 (263)
Q Consensus 50 g~~ILitr~~~-------~~~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l-~~~d~IiFTS~~aV~~~~~ 119 (263)
.++|++..+.. ..+-+.+.++++|..+.....+......+ .+.+.+.+... ..+|+|+..+-..+..+.+
T Consensus 116 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~~d~~A~g~~~ 195 (264)
T cd06274 116 PEEVLFLGGLPELSPSRERLAGFRQALADAGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALFTTSYTLLEGVLR 195 (264)
T ss_pred CCcEEEEeCCCcccchHHHHHHHHHHHHHcCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEEEcChHHHHHHHH
Confidence 35666654322 12345667777775432221111110011 12234445333 3578888888777777778
Q ss_pred HHHHcCC---CCcEEEEeChhH
Q 024727 120 AWKEAGT---PNVRIGVVGAGT 138 (263)
Q Consensus 120 ~l~~~~~---~~~~i~aVG~~T 138 (263)
.+++.+. +++.+++++...
T Consensus 196 al~~~g~~ip~dv~v~g~d~~~ 217 (264)
T cd06274 196 FLRERPGLAPSDLRIATFDDHP 217 (264)
T ss_pred HHHHcCCCCCcceEEEEeCCHH
Confidence 8887765 367788887643
No 381
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=43.06 E-value=1.9e+02 Score=24.35 Aligned_cols=79 Identities=16% Similarity=0.199 Sum_probs=48.9
Q ss_pred CHHHHHHHhccCCCCCcEEEEEcCCCC-c----hhHHHHHHhC-CCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeC
Q 024727 163 TGKILASELPKNGKKKCTVLYPASAKA-S----NEIEEGLSNR-GFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVAS 236 (263)
Q Consensus 163 t~e~L~~~l~~~~~~~~~vL~~~g~~~-~----~~L~~~L~~~-G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS 236 (263)
..+.|.+.+.+....+.+++|+..... . ....+.+++. |+++..+.+.. . ++..+.+...|+|+++-
T Consensus 16 ~~~~l~~~l~~~~~~~~~i~~IptAs~~~~~~~~~~~~a~~~l~G~~~~~~~~~~----~---~~~~~~l~~ad~I~l~G 88 (212)
T cd03146 16 ALPAIDDLLLSLTKARPKVLFVPTASGDRDEYTARFYAAFESLRGVEVSHLHLFD----T---EDPLDALLEADVIYVGG 88 (212)
T ss_pred chHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHhhccCcEEEEEeccC----c---ccHHHHHhcCCEEEECC
Confidence 344555555544334578888776654 2 2356678888 99888777755 1 12234456999999999
Q ss_pred HHHHHHHHHHhccc
Q 024727 237 PSAVRSSWVNLISD 250 (263)
Q Consensus 237 ~s~v~~~~~~~~~~ 250 (263)
+.+.+ +++.+++
T Consensus 89 G~~~~--~~~~l~~ 100 (212)
T cd03146 89 GNTFN--LLAQWRE 100 (212)
T ss_pred chHHH--HHHHHHH
Confidence 75544 5554544
No 382
>cd03145 GAT1_cyanophycinase Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. This group contains proteins similar to the extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Cyanophycinase is believed to be a serine-type exopeptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow.
Probab=42.95 E-value=61 Score=27.59 Aligned_cols=65 Identities=11% Similarity=0.097 Sum_probs=40.0
Q ss_pred CCeEEEeCCC-----CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHH
Q 024727 50 NPKVVVTRER-----GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVF 117 (263)
Q Consensus 50 g~~ILitr~~-----~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~ 117 (263)
+.+|++.... ...+++.+.+++.|+.....+........+.+++.+ .+.+.|.|+|+-.+.....
T Consensus 29 ~~~i~~iptA~~~~~~~~~~~~~~~~~lG~~~v~~~~~~~~~~a~~~~~~~---~l~~ad~I~~~GG~~~~~~ 98 (217)
T cd03145 29 GARIVVIPAASEEPAEVGEEYRDVFERLGAREVEVLVIDSREAANDPEVVA---RLRDADGIFFTGGDQLRIT 98 (217)
T ss_pred CCcEEEEeCCCcChhHHHHHHHHHHHHcCCceeEEeccCChHHcCCHHHHH---HHHhCCEEEEeCCcHHHHH
Confidence 5566665443 346678888999998754444333221122233333 3578999999999996654
No 383
>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=42.91 E-value=22 Score=29.42 Aligned_cols=62 Identities=21% Similarity=0.177 Sum_probs=39.4
Q ss_pred ccccCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE
Q 024727 41 ATSASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII 107 (263)
Q Consensus 41 ~~~~~~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~Ii 107 (263)
.+.....|.||+|.+++.......+...|+++|+....+..... . ...+...+ .-++.|+++
T Consensus 84 ~i~~~~DLkGK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~v~~---~-~~~~~~al-~~g~vDa~~ 145 (216)
T PF09084_consen 84 GIKSPADLKGKKIGVSRGSSSEYFLRALLKKNGIDPDDVKIVNL---G-PPELAQAL-LSGQVDAAI 145 (216)
T ss_dssp S-SSGGGGTTSEEEESTTSHHHHHHHHHHHHTTT-GGGSEEEES-----HHHHHHHH-HTTSSSEEE
T ss_pred CCCCHHHhCCCEEEEecCcchhHHHHHHHHHhccccccceeeee---e-hhhhhhhh-hcCCCCEEE
Confidence 34555678999999999554556788899999996654443332 2 22233344 347888887
No 384
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=42.42 E-value=74 Score=24.04 Aligned_cols=57 Identities=18% Similarity=0.046 Sum_probs=36.8
Q ss_pred CCcEEEEe--ChhHHHHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhcc----C--CCCCcEEEEEcCCC
Q 024727 127 PNVRIGVV--GAGTASIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPK----N--GKKKCTVLYPASAK 188 (263)
Q Consensus 127 ~~~~i~aV--G~~Ta~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~----~--~~~~~~vL~~~g~~ 188 (263)
+..+|+++ -+.+++.|.=+ .|+.+.+.++.. +.+.+++...+ . ..+|+++++..|..
T Consensus 38 P~~pIiavt~~~~~~r~l~l~-----~GV~p~~~~~~~~~~~~~~~~a~~~~~~~g~~~~gd~vVv~~g~~ 103 (117)
T PF02887_consen 38 PKVPIIAVTPNESVARQLSLY-----WGVYPVLIEEFDKDTEELIAEALEYAKERGLLKPGDKVVVVAGMP 103 (117)
T ss_dssp TSSEEEEEESSHHHHHHGGGS-----TTEEEEECSSHSHSHHHHHHHHHHHHHHTTSS-TTSEEEEEEESS
T ss_pred CCCeEEEEcCcHHHHhhhhcc-----cceEEEEeccccccHHHHHHHHHHHHHHcCCCCCCCEEEEEeCCC
Confidence 36788877 55666666644 388886665555 67777655443 2 35788999999944
No 385
>PRK08105 flavodoxin; Provisional
Probab=42.31 E-value=1.2e+02 Score=24.10 Aligned_cols=63 Identities=16% Similarity=0.129 Sum_probs=33.6
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCC-ccEEEEeCHH-------HHHHHHHHHHHc--CCCCcEEE
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTI-FDWIIITSPE-------AGSVFLEAWKEA--GTPNVRIG 132 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~-~d~IiFTS~~-------aV~~~~~~l~~~--~~~~~~i~ 132 (263)
+.+.+.|.+.|+.+..+++..... + .+.. --+|++||.. .+..|+..+++. .+.++++.
T Consensus 20 ~~l~~~l~~~g~~~~~~~~~~~~~----------~-~~~~~~~vi~~~sT~G~Ge~p~~~~~f~~~l~~~~~~l~~~~~a 88 (149)
T PRK08105 20 EEAEAILTAQGHEVTLFEDPELSD----------W-QPYQDELVLVVTSTTGQGDLPDSIVPLFQALKDTAGYQPNLRYG 88 (149)
T ss_pred HHHHHHHHhCCCceEEechhhCCc----------h-hcccCCeEEEEECCCCCCCCChhHHHHHHHHHhcCcccCCCEEE
Confidence 345566667788887776533211 1 1122 2456666653 245566666654 34466665
Q ss_pred EeCh
Q 024727 133 VVGA 136 (263)
Q Consensus 133 aVG~ 136 (263)
+.|-
T Consensus 89 vfGl 92 (149)
T PRK08105 89 VIAL 92 (149)
T ss_pred EEee
Confidence 5553
No 386
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=42.05 E-value=82 Score=27.43 Aligned_cols=35 Identities=17% Similarity=0.106 Sum_probs=20.3
Q ss_pred CccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 102 IFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 102 ~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
.+++|++++-.....+++.+++.+..++.+++.+.
T Consensus 207 ~~~ai~~~~d~~A~g~l~al~~~G~~dv~vig~d~ 241 (295)
T PRK10653 207 DVQAVFAQNDEMALGALRALQTAGKSDVMVVGFDG 241 (295)
T ss_pred CcCEEEECCChhHHHHHHHHHHcCCCceEEEEeCC
Confidence 45666666666665566666665554555555543
No 387
>PRK12359 flavodoxin FldB; Provisional
Probab=42.01 E-value=1.4e+02 Score=24.53 Aligned_cols=67 Identities=9% Similarity=0.063 Sum_probs=38.9
Q ss_pred CCChHHHHHHHHh-CCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--------HHHHHHHHHHHcCCCCc
Q 024727 59 RGKNGKLIKALAK-HRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--------AGSVFLEAWKEAGTPNV 129 (263)
Q Consensus 59 ~~~~~~l~~~L~~-~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--------aV~~~~~~l~~~~~~~~ 129 (263)
....+.+++.+.+ .|... +.+. +..+.. ...+..||.|||-+|. ....|+..+.+..+.++
T Consensus 11 TGNTe~vAe~I~~~lg~~~--v~v~---~i~~~~-----~~~l~~yD~iIlG~pTw~~Gel~~d~~~~~~~l~~~dl~gK 80 (172)
T PRK12359 11 TCYTEMAAEKIRDIIGEEL--VDLH---NLKDDP-----PKLMEQYDVLILGIPTWDFGEIQEDWEAVWDQLDDLNLEGK 80 (172)
T ss_pred CCHHHHHHHHHHHHhCCCe--EEEE---EcccCC-----hhHHccCCEEEEEecccCCCcCcHHHHHHHHHHhhCCCCCC
Confidence 3456778888754 34432 1222 222211 0135689999998887 23445555666666788
Q ss_pred EEEEeC
Q 024727 130 RIGVVG 135 (263)
Q Consensus 130 ~i~aVG 135 (263)
+++..|
T Consensus 81 ~vAlFG 86 (172)
T PRK12359 81 IVALYG 86 (172)
T ss_pred EEEEEe
Confidence 888877
No 388
>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=41.86 E-value=75 Score=29.47 Aligned_cols=73 Identities=21% Similarity=0.180 Sum_probs=43.9
Q ss_pred CHHHHHHHhccCCCCCcEEEEEcCCCC------chhHHHHHHhCCCeeeEEeeeccccCCCChHHH---HHHh--CCCCE
Q 024727 163 TGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTV---LKQA--LSIPV 231 (263)
Q Consensus 163 t~e~L~~~l~~~~~~~~~vL~~~g~~~------~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~---~~~l--~~~d~ 231 (263)
..+.+.+.+.+. ++|++++.+... .+.+.+.|+..|+++ .+|.-.......+.+ .+.. .++|+
T Consensus 16 ~~~~l~~~~~~~---~~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~---~~~~~v~~~p~~~~v~~~~~~~~~~~~D~ 89 (382)
T cd08187 16 TESELGKELKKY---GKKVLLVYGGGSIKKNGLYDRVIASLKEAGIEV---VELGGVEPNPRLETVREGIELCKEEKVDF 89 (382)
T ss_pred HHHHHHHHHHHh---CCEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeE---EEECCccCCCCHHHHHHHHHHHHHcCCCE
Confidence 345555555543 489999988632 356888999888754 456544433333322 2222 47887
Q ss_pred EE-EeCHHHHH
Q 024727 232 VA-VASPSAVR 241 (263)
Q Consensus 232 vv-FtS~s~v~ 241 (263)
|+ +-.++..+
T Consensus 90 IIaiGGGS~iD 100 (382)
T cd08187 90 ILAVGGGSVID 100 (382)
T ss_pred EEEeCChHHHH
Confidence 77 76666665
No 389
>COG5426 Uncharacterized membrane protein [Function unknown]
Probab=41.50 E-value=21 Score=30.31 Aligned_cols=47 Identities=17% Similarity=0.280 Sum_probs=34.9
Q ss_pred CCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeC
Q 024727 59 RGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITS 110 (263)
Q Consensus 59 ~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS 110 (263)
.++++.|.+.|++-++++.++|.-..+.. +.+.+..+..||+||...
T Consensus 31 ~~GAd~Ll~~Lr~g~~dv~yMpAH~~q~~-----FPqtme~L~~YDaivlSD 77 (254)
T COG5426 31 HEGADPLLKALRGGEYDVTYMPAHDAQEK-----FPQTMEGLDAYDAIVLSD 77 (254)
T ss_pred ccCchHHHHHHhCCCcceEEechHHHHHh-----cchhhhhhcccceEEEee
Confidence 45789999999999999999998654421 223344578899999764
No 390
>PRK05565 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=41.42 E-value=1.4e+02 Score=24.76 Aligned_cols=33 Identities=18% Similarity=0.152 Sum_probs=24.8
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~ 79 (263)
.+.+++|||+..... ...+.+.|.+.|+++..+
T Consensus 2 ~~~~~~ilI~Gasg~iG~~la~~l~~~g~~v~~~ 35 (247)
T PRK05565 2 KLMGKVAIVTGASGGIGRAIAELLAKEGAKVVIA 35 (247)
T ss_pred CCCCCEEEEeCCCcHHHHHHHHHHHHCCCEEEEE
Confidence 367889999987543 467888888889877643
No 391
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=41.41 E-value=72 Score=23.96 Aligned_cols=79 Identities=11% Similarity=0.069 Sum_probs=53.5
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC
Q 024727 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT 126 (263)
Q Consensus 48 l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~ 126 (263)
..|..|+...+....+++.+.+.+.+.+++-+............++-+.+++....+..|+-.........+.+.+.+.
T Consensus 25 ~~G~~V~~lg~~~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~~~~~~~~~~~~~G~ 103 (119)
T cd02067 25 DAGFEVIDLGVDVPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGAIVTRDFKFLKEIGV 103 (119)
T ss_pred HCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECCCCChhHHHHHHcCC
Confidence 4688898887777788999999999999999988765544433444455555432266666666666655455665553
No 392
>PLN02409 serine--glyoxylate aminotransaminase
Probab=41.41 E-value=75 Score=29.54 Aligned_cols=62 Identities=21% Similarity=0.125 Sum_probs=43.0
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC--CCccEEEEeCH
Q 024727 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD--TIFDWIIITSP 111 (263)
Q Consensus 49 ~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l--~~~d~IiFTS~ 111 (263)
.|.+|+++.+..-...+.+.++..|+++..+|.-.-. ..+.+++++.+... .+...|++++.
T Consensus 83 ~Gd~Vlv~~~~~~~~~~~~~~~~~g~~v~~v~~~~~~-~~~~~~l~~~l~~~~~~~~k~v~~~~~ 146 (401)
T PLN02409 83 PGDKVVSFRIGQFSLLWIDQMQRLNFDVDVVESPWGQ-GADLDILKSKLRQDTNHKIKAVCVVHN 146 (401)
T ss_pred CCCEEEEeCCCchhHHHHHHHHHcCCceEEEECCCCC-CCCHHHHHHHHhhCcCCCccEEEEEee
Confidence 4779999997666666778888899999988853211 12456677776431 26788888765
No 393
>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=41.39 E-value=78 Score=29.11 Aligned_cols=73 Identities=14% Similarity=0.088 Sum_probs=42.8
Q ss_pred HHHHHHHhccCCCCCcEEEEEcCCCCc-----hhHHHHHHhCCCeeeEEeeeccccCCCChHH---HHHHh--CCCCEEE
Q 024727 164 GKILASELPKNGKKKCTVLYPASAKAS-----NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQT---VLKQA--LSIPVVA 233 (263)
Q Consensus 164 ~e~L~~~l~~~~~~~~~vL~~~g~~~~-----~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~---~~~~l--~~~d~vv 233 (263)
.+.+.+.+.+. ..++++++.+.... +.+.+.|++.|+++ .+|.........+. ..+.+ .++|.|+
T Consensus 11 l~~l~~~l~~~--~~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~---~~~~~~~~~p~~~~v~~~~~~~~~~~~d~Ii 85 (370)
T cd08551 11 IEKLGEEIKNL--GGRKALIVTDPGLVKTGVLDKVIDSLKEAGIEV---VIFDGVEPNPTLSNVDAAVAAYREEGCDGVI 85 (370)
T ss_pred HHHHHHHHHHc--CCCeEEEEeCcchhhCccHHHHHHHHHHcCCeE---EEECCCCCCCCHHHHHHHHHHHHhcCCCEEE
Confidence 45565555543 23789999887543 47888898888765 45554333333332 23222 3788777
Q ss_pred -EeCHHHHH
Q 024727 234 -VASPSAVR 241 (263)
Q Consensus 234 -FtS~s~v~ 241 (263)
+-.++..+
T Consensus 86 aiGGGs~~D 94 (370)
T cd08551 86 AVGGGSVLD 94 (370)
T ss_pred EeCCchHHH
Confidence 55555544
No 394
>PRK08248 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=41.21 E-value=1.7e+02 Score=27.64 Aligned_cols=108 Identities=7% Similarity=0.047 Sum_probs=0.0
Q ss_pred ChhHHHHHHH-----hhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCC--CCchhHHHHHHhCCCeeeEE
Q 024727 135 GAGTASIFEE-----VIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASA--KASNEIEEGLSNRGFEVVRL 207 (263)
Q Consensus 135 G~~Ta~~L~~-----~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~--~~~~~L~~~L~~~G~~v~~~ 207 (263)
|..|.+.|++ . | ..+.+.......++...+.....+|++|++.... .....+.+.++..|+++..+
T Consensus 62 ~~p~~~~Le~~lA~le------g-~~~al~~~sG~~Ai~~al~~ll~~GD~Vlv~~~~y~~t~~~~~~~~~~~Gv~v~~v 134 (431)
T PRK08248 62 MNPTTDVFEKRIAALE------G-GIGALAVSSGQAAITYSILNIASAGDEIVSSSSLYGGTYNLFAHTLPKLGITVKFV 134 (431)
T ss_pred CCchHHHHHHHHHHHh------C-CCcEEEECCHHHHHHHHHHHHhCCCCEEEEccCchhhHHHHHHHHHHhCCEEEEEE
Q ss_pred eeeccccCCCChHHHHHHh-CCCCEEEEeCHH-------HHHHHHHHhccccCCCCceEEE
Q 024727 208 NTYTTEPVHHVDQTVLKQA-LSIPVVAVASPS-------AVRSSWVNLISDTEQWSNSVAC 260 (263)
Q Consensus 208 ~vY~~~~~~~~~~~~~~~l-~~~d~vvFtS~s-------~v~~~~~~~~~~~~~~~~~i~~ 260 (263)
.+ .+.+++.+.+ .+..+|++.++. .++ .+.+.++++ ++.+++
T Consensus 135 d~-------~d~e~l~~ai~~~tklV~l~sp~NPtG~v~di~-~I~~la~~~---gi~vIv 184 (431)
T PRK08248 135 DP-------SDPENFEAAITDKTKALFAETIGNPKGDVLDIE-AVAAIAHEH---GIPLIV 184 (431)
T ss_pred CC-------CCHHHHHHhcCCCCeEEEEECCCCCCCcccCHH-HHHHHHHHc---CCEEEE
No 395
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=41.20 E-value=2.5e+02 Score=24.75 Aligned_cols=130 Identities=15% Similarity=0.043 Sum_probs=67.2
Q ss_pred CCCccEEEE--eCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHH-HHHHhccCCC
Q 024727 100 DTIFDWIII--TSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKI-LASELPKNGK 176 (263)
Q Consensus 100 l~~~d~IiF--TS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~-L~~~l~~~~~ 176 (263)
...+|.|++ .++.++.-.++...+. +++++++....... . .....+..+.+.... ..+.+.+...
T Consensus 89 a~~~daIiv~~~d~~~~~~~v~~a~~a---GIpVv~~d~~~~~~---~------~~~~~vg~dn~~~G~~~a~~l~~~~~ 156 (322)
T COG1879 89 AQGVDAIIINPVDPDALTPAVKKAKAA---GIPVVTVDSDIPGP---G------DRVAYVGSDNYKAGRLAAEYLAKALG 156 (322)
T ss_pred HcCCCEEEEcCCChhhhHHHHHHHHHC---CCcEEEEecCCCCC---C------ceeEEEecCcHHHHHHHHHHHHHHhC
Confidence 368999998 5666666666665554 57788776543322 2 233323334433322 3455555443
Q ss_pred CCcEEEEEcCCCCc-------hhHHHHHHhCCCeeeEEeeeccccCCCChHHH-HHHh---CCCCEEEEeCHHHHH
Q 024727 177 KKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTV-LKQA---LSIPVVAVASPSAVR 241 (263)
Q Consensus 177 ~~~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~-~~~l---~~~d~vvFtS~s~v~ 241 (263)
.+++++++.|..+. .-+.+.|++.+-.+..+..+............ .+.+ .+++.|+-.+...+.
T Consensus 157 ~~g~v~~~~g~~~~~~~~~R~~G~~~~l~~~~~~~~v~~~~~~~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ 232 (322)
T COG1879 157 GKGKVVVLVGSPGNSSAEERVKGFRDALKEHPPDIEVVDVQTGDWDRDKALEVMEDLLAANPDIDGIYAANDGMAL 232 (322)
T ss_pred CCCeEEEEecCCCCchHHHHHhhHHHHHHhCCCcEEEeeccCCcccHHHHHHHHHHHHHhCCCceEEEECCchhHH
Confidence 33668888877653 33456666665333333333333333222222 2223 356666666555554
No 396
>COG0698 RpiB Ribose 5-phosphate isomerase RpiB [Carbohydrate transport and metabolism]
Probab=41.16 E-value=1.9e+02 Score=23.42 Aligned_cols=103 Identities=15% Similarity=0.184 Sum_probs=67.2
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEE-EeCh
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIG-VVGA 136 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~-aVG~ 136 (263)
.+.+.+.|++.|++|+..-.+..+...++. .+-..+ ..++.|.-|.....++=.++.. ...++++.+ |.-+
T Consensus 15 K~~I~~~Lk~~g~~v~D~G~~~~~~~~dyp~~a~~va~~v-~~~~~d~GIliCGTGiG~~iaA---NKv~GiraAl~~D~ 90 (151)
T COG0698 15 KEIIIDHLKSKGYEVIDFGTYTDEGSVDYPDYAKKVAEAV-LNGEADLGILICGTGIGMSIAA---NKVPGIRAALVSDP 90 (151)
T ss_pred HHHHHHHHHHCCCEEEeccccCCCCCcchHHHHHHHHHHH-HcCCCCeeEEEecCChhHHHHh---hccCCeEEEEecCH
Confidence 467889999999999998777665322322 222223 2347888888877777766653 234567665 6678
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhcc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (263)
.||...+++- +-++...+.......|+..+.+
T Consensus 91 ~sA~~ar~hN-----naNvl~~G~riig~~lA~~ivd 122 (151)
T COG0698 91 TSAKLAREHN-----NANVLCLGARIIGPELAEDIVD 122 (151)
T ss_pred HHHHHHHhcC-----CCcEEEechhhccHHHHHHHHH
Confidence 8888888872 4444456676666777666654
No 397
>TIGR01141 hisC histidinol-phosphate aminotransferase. Histidinol-phosphate aminotransferase is a pyridoxal-phosphate dependent enzyme.
Probab=41.05 E-value=2.3e+02 Score=25.21 Aligned_cols=58 Identities=21% Similarity=0.138 Sum_probs=27.8
Q ss_pred CCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh-CCCCEEEEeCH
Q 024727 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAVASP 237 (263)
Q Consensus 176 ~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~d~vvFtS~ 237 (263)
.+|++|++.... -..+....+..|+++..+++... -..+.+++.+.+ .+..+|++++|
T Consensus 93 ~~gd~v~~~~p~--y~~~~~~~~~~g~~~~~~~~~~~--~~~d~~~l~~~~~~~~~~v~l~~p 151 (346)
T TIGR01141 93 EPGDAVLVPPPT--YSMYEISAKIHGAEVVKVPLDED--GQLDLEDILVAIDDKPKLVFLCSP 151 (346)
T ss_pred CCCCEEEEcCCC--HHHHHHHHHHcCCeEEEeccCCC--CCCCHHHHHHhcCCCCCEEEEeCC
Confidence 345666666543 22344455666777766665432 112223333332 24555555433
No 398
>PRK05166 histidinol-phosphate aminotransferase; Provisional
Probab=41.03 E-value=2.4e+02 Score=25.70 Aligned_cols=15 Identities=20% Similarity=0.162 Sum_probs=7.8
Q ss_pred HHHHhCCCeeeEEee
Q 024727 195 EGLSNRGFEVVRLNT 209 (263)
Q Consensus 195 ~~L~~~G~~v~~~~v 209 (263)
..++..|+++..+++
T Consensus 127 ~~~~~~g~~~~~v~~ 141 (371)
T PRK05166 127 DYPTMMGARVERVTV 141 (371)
T ss_pred HHHHHcCCeEEEeec
Confidence 344555555555544
No 399
>TIGR01737 FGAM_synth_I phosphoribosylformylglycinamidine synthase I. In some species, phosphoribosylformylglycinamidine synthase is composed of a single polypeptide chain. This model describes the PurQ protein of Bacillus subtilis (where PurL, PurQ, and PurS are required for phosphoribosylformylglycinamidine synthase activity) and functionally equivalent proteins from other bacteria and archaea.
Probab=40.99 E-value=1.5e+02 Score=25.32 Aligned_cols=80 Identities=20% Similarity=0.149 Sum_probs=48.3
Q ss_pred CeEEEeCCCCC--hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH------------HH
Q 024727 51 PKVVVTRERGK--NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG------------SV 116 (263)
Q Consensus 51 ~~ILitr~~~~--~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV------------~~ 116 (263)
++|+|.+-... ..++.+.|++.|+.+..++.- +. .+.++|.||+...... ..
T Consensus 1 ~~v~Vl~~~G~n~~~~~~~al~~~G~~~~~i~~~------~~--------~l~~~d~lilpGG~~~~d~~~~~~~~~~~~ 66 (227)
T TIGR01737 1 MKVAVIRFPGTNCDRDTVYALRLLGVDAEIVWYE------DG--------SLPDYDGVVLPGGFSYGDYLRAGAIAAASP 66 (227)
T ss_pred CeEEEEeCCCcCcHHHHHHHHHHCCCeEEEEecC------CC--------CCCCCCEEEECCCCcccccccccchhcchH
Confidence 36777765433 356899999999998877431 11 1457899999885321 11
Q ss_pred HHHHHHHcCCCCcEEEEeChhHHHHHHHh
Q 024727 117 FLEAWKEAGTPNVRIGVVGAGTASIFEEV 145 (263)
Q Consensus 117 ~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~ 145 (263)
+.+.+.+....+.++++|.-.. +.|.+.
T Consensus 67 ~~~~l~~~~~~g~pvlgIC~G~-QlLa~~ 94 (227)
T TIGR01737 67 IMQEVREFAEKGVPVLGICNGF-QILVEA 94 (227)
T ss_pred HHHHHHHHHHcCCEEEEECHHH-HHHHHc
Confidence 2233333222467888887654 456654
No 400
>PRK05784 phosphoribosylamine--glycine ligase; Provisional
Probab=40.99 E-value=3.4e+02 Score=26.24 Aligned_cols=73 Identities=18% Similarity=0.188 Sum_probs=43.7
Q ss_pred CeEEEeCCCCChHHHHHHHHhC--CCcEEEece-----E-Ee--------ee--CCCchHHHHHHhcCCCccEEEEeCHH
Q 024727 51 PKVVVTRERGKNGKLIKALAKH--RIDCLELPL-----I-QH--------AQ--GPDTDRLSSVLNADTIFDWIIITSPE 112 (263)
Q Consensus 51 ~~ILitr~~~~~~~l~~~L~~~--G~~v~~~p~-----~-~~--------~~--~~~~~~l~~~l~~l~~~d~IiFTS~~ 112 (263)
++||+.-+......+...|++. |.+++.+|- . .+ .. ..|.+.+.+..+ ....|.||...-.
T Consensus 1 mkVLviG~Ggrehal~~~l~~s~~g~~v~~~~g~~Npg~~~~~~~~~~~~~~~~~~d~~~l~~~a~-~~~id~Vi~g~E~ 79 (486)
T PRK05784 1 MKVLLVGDGAREHALAEALEKSTKGYKVYALSSYLNPGINSVVKATGGEYFIGNINSPEEVKKVAK-EVNPDLVVIGPEE 79 (486)
T ss_pred CEEEEECCchhHHHHHHHHHhCCCCCEEEEEECCCChhheeecccccCceEecCCCCHHHHHHHHH-HhCCCEEEECCch
Confidence 5899998877778899889887 888887764 1 11 11 123344444442 2468888865544
Q ss_pred HH-HHHHHHHHHc
Q 024727 113 AG-SVFLEAWKEA 124 (263)
Q Consensus 113 aV-~~~~~~l~~~ 124 (263)
.. ......+...
T Consensus 80 ~l~~glad~l~~~ 92 (486)
T PRK05784 80 PLFAGVADVLREE 92 (486)
T ss_pred HHHHHHHHHHHhC
Confidence 32 2344445444
No 401
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.
Probab=40.86 E-value=1.5e+02 Score=22.01 Aligned_cols=67 Identities=21% Similarity=0.264 Sum_probs=34.4
Q ss_pred hhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhcccc--CCC-CceEEEECC
Q 024727 191 NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLISDT--EQW-SNSVACIAG 263 (263)
Q Consensus 191 ~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~--~~~-~~~i~~IGp 263 (263)
..+...|++.|+++..+-. ....+++.+.+ .++|+|.|++...-.....+.+... ... ++++++=|+
T Consensus 17 ~~~~~~l~~~G~~v~~l~~------~~~~~~~~~~i~~~~pdiV~iS~~~~~~~~~~~~~~~~~~~~p~~~~ivvGG~ 88 (125)
T cd02065 17 NIVAIALRDNGFEVIDLGV------DVPPEEIVEAAKEEDADVVGLSALSTTHMEAMKLVIEALKELGIDIPVVVGGA 88 (125)
T ss_pred HHHHHHHHHCCCEEEEcCC------CCCHHHHHHHHHHcCCCEEEEecchHhHHHHHHHHHHHHHhcCCCCeEEEeCC
Confidence 4455667888887654421 12222333322 4888888887665441122222111 123 677777664
No 402
>PRK07053 glutamine amidotransferase; Provisional
Probab=40.84 E-value=1.9e+02 Score=24.97 Aligned_cols=52 Identities=10% Similarity=0.008 Sum_probs=35.4
Q ss_pred CCeEEEeCCC--CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeC
Q 024727 50 NPKVVVTRER--GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITS 110 (263)
Q Consensus 50 g~~ILitr~~--~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS 110 (263)
+++|++.+.. +.-..+.+.|++.|..+..+..+.-.... ..+.+||.||++-
T Consensus 2 m~~ilviqh~~~e~~g~i~~~L~~~g~~~~v~~~~~~~~~~---------~~~~~~d~lii~G 55 (234)
T PRK07053 2 MKTAVAIRHVAFEDLGSFEQVLGARGYRVRYVDVGVDDLET---------LDALEPDLLVVLG 55 (234)
T ss_pred CceEEEEECCCCCCChHHHHHHHHCCCeEEEEecCCCccCC---------CCccCCCEEEECC
Confidence 4678888754 45667999999999888776655322111 1245789999876
No 403
>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=40.77 E-value=1.5e+02 Score=24.22 Aligned_cols=64 Identities=5% Similarity=-0.024 Sum_probs=43.9
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC-CCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEe
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG-KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLN 208 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~-~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~ 208 (263)
.++|... |+.+......-+.+-.++.|.-.. ..-..++++.|+..=.-|.+.|++.|..|.-+-
T Consensus 72 ~~~l~~~------Gf~pv~~kG~~Dv~laIDame~~~~~~iD~~vLvSgD~DF~~Lv~~lre~G~~V~v~g 136 (160)
T TIGR00288 72 IEAVVNQ------GFEPIIVAGDVDVRMAVEAMELIYNPNIDAVALVTRDADFLPVINKAKENGKETIVIG 136 (160)
T ss_pred HHHHHHC------CceEEEecCcccHHHHHHHHHHhccCCCCEEEEEeccHhHHHHHHHHHHCCCEEEEEe
Confidence 3577777 998755444445544455554321 233789999999988889999999998764443
No 404
>PRK07097 gluconate 5-dehydrogenase; Provisional
Probab=40.76 E-value=2.3e+02 Score=24.13 Aligned_cols=85 Identities=12% Similarity=0.030 Sum_probs=47.5
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEEE--EeCHHHHHHHHHHHH
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWII--ITSPEAGSVFLEAWK 122 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~-~~d~Ii--FTS~~aV~~~~~~l~ 122 (263)
.+.+++++||..... ...+.+.|.++|++++..- ......+++...++..+ +..++. .++..+++.++..+.
T Consensus 7 ~~~~k~~lItGa~~~iG~~ia~~l~~~G~~vv~~~----~~~~~~~~~~~~~~~~~~~~~~~~~Dl~~~~~~~~~~~~~~ 82 (265)
T PRK07097 7 SLKGKIALITGASYGIGFAIAKAYAKAGATIVFND----INQELVDKGLAAYRELGIEAHGYVCDVTDEDGVQAMVSQIE 82 (265)
T ss_pred CCCCCEEEEeCCCchHHHHHHHHHHHCCCeEEEEe----CCHHHHHHHHHHHHhcCCceEEEEcCCCCHHHHHHHHHHHH
Confidence 457899999987654 4578899999999876541 11011122222232211 122221 478888888887765
Q ss_pred Hc-CCCCcEEEEeC
Q 024727 123 EA-GTPNVRIGVVG 135 (263)
Q Consensus 123 ~~-~~~~~~i~aVG 135 (263)
+. +.-+.-|.+.|
T Consensus 83 ~~~~~id~li~~ag 96 (265)
T PRK07097 83 KEVGVIDILVNNAG 96 (265)
T ss_pred HhCCCCCEEEECCC
Confidence 43 22234444544
No 405
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=40.66 E-value=42 Score=31.92 Aligned_cols=67 Identities=15% Similarity=0.168 Sum_probs=40.7
Q ss_pred HHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCHH
Q 024727 167 LASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPS 238 (263)
Q Consensus 167 L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s 238 (263)
|++...+.... +++||+.|+++..-+.-.-+..|+.-..+.+|.-.. .+++.+.+ .++|.++.-|-.
T Consensus 110 LLQva~~lA~~-~~vLYVsGEES~~QiklRA~RL~~~~~~l~l~aEt~----~e~I~~~l~~~~p~lvVIDSIQ 178 (456)
T COG1066 110 LLQVAARLAKR-GKVLYVSGEESLQQIKLRADRLGLPTNNLYLLAETN----LEDIIAELEQEKPDLVVIDSIQ 178 (456)
T ss_pred HHHHHHHHHhc-CcEEEEeCCcCHHHHHHHHHHhCCCccceEEehhcC----HHHHHHHHHhcCCCEEEEeccc
Confidence 34444443333 499999999998777666667776666666665332 23344333 478888775543
No 406
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=40.64 E-value=2.9e+02 Score=25.33 Aligned_cols=139 Identities=10% Similarity=-0.040 Sum_probs=66.1
Q ss_pred CCccEEE-EeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCC--ceeecCCCC-CHHHHHHHhccCCC
Q 024727 101 TIFDWII-ITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSL--DVAFSPSKA-TGKILASELPKNGK 176 (263)
Q Consensus 101 ~~~d~Ii-FTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~--~~~~~p~~~-t~e~L~~~l~~~~~ 176 (263)
...+.|+ =.++.+.......+... +++.++.|.. ...+.+.. ..+ -....|.+. -+.. +..+.+...
T Consensus 72 ~~v~aviGp~~S~~~~av~~i~~~~---~iP~Is~~at-~~~ls~~~----~~y~~~fR~~p~~~~~~~~-~~~i~~~~~ 142 (399)
T cd06384 72 SDPDVFFGPGCVYPTASVARFATHW---RLPLITAGAP-AFGFSNKT----DEYRTTVRTGPSTTKLGEF-VNHLHEHFN 142 (399)
T ss_pred cCCCEEECCCCchHHHHHHHHHhhc---CCcEEeeccc-hhhhcccc----ccCCceEEecCcHHHHHHH-HHHHHHhCC
Confidence 3455544 23334444455555444 5667766643 33343210 022 111234322 2233 334444443
Q ss_pred CCcEEEEEcCC----C-----CchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh-CCCCEEEE-eCHHHHHHHHH
Q 024727 177 KKCTVLYPASA----K-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAV-ASPSAVRSSWV 245 (263)
Q Consensus 177 ~~~~vL~~~g~----~-----~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~d~vvF-tS~s~v~~~~~ 245 (263)
..+++.++..+ . ....+.+.|++.|++|.....|... ..+...++..+ .+.++|++ .....+. .++
T Consensus 143 w~~~vaiiy~~~~~~~~~~~~~~~~~~~~~~~~gi~v~~~~~~~~~--~~d~~~~l~~ik~~~~vIi~~~~~~~~~-~i~ 219 (399)
T cd06384 143 WTSRAALLYLDLKTDDRPHYFISEGVFLALQEENANVSAHPYHIEK--NSDIIEIIQFIKQNGRIVYICGPLETFL-EIM 219 (399)
T ss_pred CcEEEEEEEecCCccCCcceEehHHHHHHHHhcCceEEEEEEeccc--hhhHHHHHHHHhhcccEEEEeCCchHHH-HHH
Confidence 43355555321 1 1345788899999877543222211 12222233333 47888885 5556677 787
Q ss_pred Hhcccc
Q 024727 246 NLISDT 251 (263)
Q Consensus 246 ~~~~~~ 251 (263)
..+.+.
T Consensus 220 ~qa~~~ 225 (399)
T cd06384 220 LQAQRE 225 (399)
T ss_pred HHHHHc
Confidence 766544
No 407
>PRK12827 short chain dehydrogenase; Provisional
Probab=40.35 E-value=1.7e+02 Score=24.37 Aligned_cols=89 Identities=17% Similarity=0.173 Sum_probs=46.7
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCccEEE--EeCHHHHHHHHHHHHH
Q 024727 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWII--ITSPEAGSVFLEAWKE 123 (263)
Q Consensus 48 l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l-~~~d~Ii--FTS~~aV~~~~~~l~~ 123 (263)
+.+++|+||..... ...+++.|.++|++++.+-.......+..+++...+... ..+.++. ++...+++..++.+.+
T Consensus 4 ~~~~~ilItGasg~iG~~la~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dl~~~~~~~~~~~~~~~ 83 (249)
T PRK12827 4 LDSRRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVAAGIEAAGGKALGLAFDVRDFAATRAALDAGVE 83 (249)
T ss_pred cCCCEEEEECCCChHHHHHHHHHHHCCCeEEEEcCcccccHHHHHHHHHHHHhcCCcEEEEEccCCCHHHHHHHHHHHHH
Confidence 56889999987654 467899999999987654322111101111222222111 1222221 3667777777665544
Q ss_pred c-CCCCcEEEEeCh
Q 024727 124 A-GTPNVRIGVVGA 136 (263)
Q Consensus 124 ~-~~~~~~i~aVG~ 136 (263)
. +.-+.-|.+.|.
T Consensus 84 ~~~~~d~vi~~ag~ 97 (249)
T PRK12827 84 EFGRLDILVNNAGI 97 (249)
T ss_pred HhCCCCEEEECCCC
Confidence 3 222445555554
No 408
>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=40.10 E-value=1.5e+02 Score=24.79 Aligned_cols=84 Identities=12% Similarity=0.051 Sum_probs=48.2
Q ss_pred CCeEEEeCCCCC-------hHHHHHHHHhCCCcEEEeceEEeeeCCC----chHHHHHHhcCCCccEEEEeCHHHHHHHH
Q 024727 50 NPKVVVTRERGK-------NGKLIKALAKHRIDCLELPLIQHAQGPD----TDRLSSVLNADTIFDWIIITSPEAGSVFL 118 (263)
Q Consensus 50 g~~ILitr~~~~-------~~~l~~~L~~~G~~v~~~p~~~~~~~~~----~~~l~~~l~~l~~~d~IiFTS~~aV~~~~ 118 (263)
..+|++...... .+-+.+.+++.|..+... . ....+ .+.+...++.-.+.|+|+.++.......+
T Consensus 115 ~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~---~-~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~ 190 (266)
T cd06278 115 CRRIAFIGGPADTSTSRERERGFRDALAAAGVPVVVE---E-AGDYSYEGGYEAARRLLASRPRPDAIFCANDLLAIGVM 190 (266)
T ss_pred CceEEEEcCCCcccchHHHHHHHHHHHHHcCCChhhh---c-cCCCCHHHHHHHHHHHHhcCCCCCEEEEcCcHHHHHHH
Confidence 347777654321 234666777777763211 1 11111 12344555443468999988887777777
Q ss_pred HHHHHc-CC---CCcEEEEeChh
Q 024727 119 EAWKEA-GT---PNVRIGVVGAG 137 (263)
Q Consensus 119 ~~l~~~-~~---~~~~i~aVG~~ 137 (263)
+.+++. +. +++.+++.+..
T Consensus 191 ~~l~~~~~~~~p~di~i~~~d~~ 213 (266)
T cd06278 191 DAARQEGGLRVPEDVSVIGFDDI 213 (266)
T ss_pred HHHHHhcCCCCccceEEEEeCCh
Confidence 878764 33 46777887643
No 409
>PRK06395 phosphoribosylamine--glycine ligase; Provisional
Probab=40.02 E-value=3.3e+02 Score=25.80 Aligned_cols=61 Identities=13% Similarity=0.145 Sum_probs=38.7
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEece-----E---Ee--eeC--CCchHHHHHHhcCCCccEEEEeCH
Q 024727 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPL-----I---QH--AQG--PDTDRLSSVLNADTIFDWIIITSP 111 (263)
Q Consensus 50 g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~-----~---~~--~~~--~~~~~l~~~l~~l~~~d~IiFTS~ 111 (263)
.++||+.-.......+...|++.|.++...|. . .. ... .|.+.+.+..+ ..+.|.||.++-
T Consensus 2 ~~kVLvlG~G~re~al~~~l~~~g~~v~~~~~~~Npg~~~~a~~~~~~~~~d~e~l~~~~~-~~~id~Vi~~~d 74 (435)
T PRK06395 2 TMKVMLVGSGGREDAIARAIKRSGAILFSVIGHENPSIKKLSKKYLFYDEKDYDLIEDFAL-KNNVDIVFVGPD 74 (435)
T ss_pred ceEEEEECCcHHHHHHHHHHHhCCCeEEEEECCCChhhhhcccceeecCCCCHHHHHHHHH-HhCCCEEEECCC
Confidence 46899998877677888899999987776654 1 10 111 23344444442 256888887654
No 410
>PRK09701 D-allose transporter subunit; Provisional
Probab=39.83 E-value=1.5e+02 Score=26.08 Aligned_cols=45 Identities=16% Similarity=0.055 Sum_probs=30.9
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC-CCcEEEEeChh
Q 024727 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT-PNVRIGVVGAG 137 (263)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~-~~~~i~aVG~~ 137 (263)
++..+..-..+|+|++.+-.......+.+++.+. +++.+++++..
T Consensus 207 ~~~ll~~~~~~~~I~~~~d~~A~g~~~al~~~G~~~dv~vvg~d~~ 252 (311)
T PRK09701 207 ATNVLQRNPNIKAIYCANDTMAMGVAQAVANAGKTGKVLVVGTDGI 252 (311)
T ss_pred HHHHHHhCCCCCEEEECCcchHHHHHHHHHHcCCCCCEEEEEeCCC
Confidence 3444544346788888888777778888877766 36677777654
No 411
>COG2014 Uncharacterized conserved protein [Function unknown]
Probab=39.80 E-value=1.9e+02 Score=25.12 Aligned_cols=112 Identities=13% Similarity=0.141 Sum_probs=59.1
Q ss_pred EEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeee
Q 024727 131 IGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 131 i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY 210 (263)
--++|-+|.+++.++ ++.-. +.++-++++.+++.. +-++|.++.- -......|++. +.||
T Consensus 80 e~tlGvAaiNAvsq~------~~dl~----~~~~~Dil~li~~~d-~IkmI~~fg~---m~p~v~~l~ek------~~v~ 139 (250)
T COG2014 80 ERTLGVAAINAVSQY------YIDLE----EANWFDILDLIQRDD-KIKMIAEFGN---MPPVVRTLKEK------FEVY 139 (250)
T ss_pred HHhhhHHHHHHHHHH------hhhHH----hcchHHHHHHHcCCC-ceeEEEecCC---CChHHHHhhhh------eEEE
Confidence 347899999999999 77531 356666666665421 2244555433 33344566533 4555
Q ss_pred ccccCCCC------hHHHHHH-hCCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEECC
Q 024727 211 TTEPVHHV------DQTVLKQ-ALSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIAG 263 (263)
Q Consensus 211 ~~~~~~~~------~~~~~~~-l~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IGp 263 (263)
.-...... ++.+..+ +...|+|+.+-+.-+. .-++.+-...-...-++-+||
T Consensus 140 ~~er~~~~pkr~t~~d~~e~~iLP~~Dvii~SaStlvN-~T~d~~Ld~ak~ak~vvl~GP 198 (250)
T COG2014 140 VFERNPKLPKRGTLSDTLEYQILPEVDVIIASASTLVN-GTLDMILDRAKKAKLVVLTGP 198 (250)
T ss_pred EeccCccCcccccccchhhhhhcccccEEEEechhhhc-CcHHHHHhhhccCcEEEEeCC
Confidence 43222211 1122222 4688988877666665 444433211112345555665
No 412
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria []. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=39.70 E-value=23 Score=26.28 Aligned_cols=38 Identities=16% Similarity=0.079 Sum_probs=25.7
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhcc
Q 024727 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (263)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (263)
.|=-||++|++-|... |+...-.-...+.+.|-+.+.+
T Consensus 16 ~iP~IG~a~a~DL~~L------Gi~s~~~L~g~dP~~Ly~~lc~ 53 (93)
T PF11731_consen 16 DIPNIGKATAEDLRLL------GIRSPADLKGRDPEELYERLCA 53 (93)
T ss_pred cCCCccHHHHHHHHHc------CCCCHHHHhCCCHHHHHHHHHH
Confidence 3456999999999999 9975322234566666655544
No 413
>PRK07060 short chain dehydrogenase; Provisional
Probab=39.69 E-value=2.1e+02 Score=23.73 Aligned_cols=33 Identities=21% Similarity=0.113 Sum_probs=25.1
Q ss_pred CCCCCCeEEEeCCCC-ChHHHHHHHHhCCCcEEE
Q 024727 46 ASNSNPKVVVTRERG-KNGKLIKALAKHRIDCLE 78 (263)
Q Consensus 46 ~~l~g~~ILitr~~~-~~~~l~~~L~~~G~~v~~ 78 (263)
.++.|++++|+-... -...+.+.|.+.|+++..
T Consensus 5 ~~~~~~~~lItGa~g~iG~~~a~~l~~~g~~V~~ 38 (245)
T PRK07060 5 FDFSGKSVLVTGASSGIGRACAVALAQRGARVVA 38 (245)
T ss_pred cccCCCEEEEeCCcchHHHHHHHHHHHCCCEEEE
Confidence 457789999998754 356788888899987553
No 414
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=39.69 E-value=1.1e+02 Score=28.62 Aligned_cols=77 Identities=14% Similarity=0.280 Sum_probs=42.5
Q ss_pred EEEEcCCCCchhH----HHHHH--hCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHHH-------HHHHHHHh
Q 024727 181 VLYPASAKASNEI----EEGLS--NRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSA-------VRSSWVNL 247 (263)
Q Consensus 181 vL~~~g~~~~~~L----~~~L~--~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s~-------v~~~~~~~ 247 (263)
|+|-..-+..+.+ .+.++ ..|++| .+|+... ...+++.+.+.+.|+++|-||.- +. .|++.
T Consensus 252 IvY~S~~GnTe~mA~~ia~g~~~~~~g~~v---~~~~~~~--~~~~~i~~~~~~~d~ii~GspT~~~~~~~~~~-~~l~~ 325 (394)
T PRK11921 252 ILYDTMWNSTRRMAEAIAEGIKKANKDVTV---KLYNSAK--SDKNDIITEVFKSKAILVGSSTINRGILSSTA-AILEE 325 (394)
T ss_pred EEEECCchHHHHHHHHHHHHHhhcCCCCeE---EEEECCC--CCHHHHHHHHHhCCEEEEECCCcCccccHHHH-HHHHH
Confidence 3344433444444 44554 445544 4444322 22344554456899999999983 44 45555
Q ss_pred ccccCCCCceEEEECC
Q 024727 248 ISDTEQWSNSVACIAG 263 (263)
Q Consensus 248 ~~~~~~~~~~i~~IGp 263 (263)
+....+.+.+++++|.
T Consensus 326 l~~~~~~~K~~a~FGs 341 (394)
T PRK11921 326 IKGLGFKNKKAAAFGS 341 (394)
T ss_pred hhccCcCCCEEEEEec
Confidence 5443356778888873
No 415
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=39.64 E-value=2.9e+02 Score=26.62 Aligned_cols=137 Identities=12% Similarity=0.088 Sum_probs=75.4
Q ss_pred eEEEeCC--CCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeC---HHHHHHHHHHHHHcCC
Q 024727 52 KVVVTRE--RGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITS---PEAGSVFLEAWKEAGT 126 (263)
Q Consensus 52 ~ILitr~--~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS---~~aV~~~~~~l~~~~~ 126 (263)
.|.+..+ ......+...|++.|++|..... ....+++ ..++.-..++.+| ..+.+++.+.+ +.
T Consensus 195 ~vnl~G~~~~~~~~~i~~lL~~lGI~v~~~lp-----~~~~~eL----~~~~~~~~~c~~~P~ls~aa~~Le~~~---gv 262 (457)
T CHL00073 195 PLVLFGSLPSTVASQLTLELKRQGIKVSGWLP-----SQRYTDL----PSLGEGVYVCGVNPFLSRTATTLMRRR---KC 262 (457)
T ss_pred cEEEEEecCcccHHHHHHHHHHcCCeEeEEeC-----CCCHHHH----HhhCcccEEEEcCcchHHHHHHHHHHh---CC
Confidence 4555543 33457899999999999973211 1123333 2344556677677 34555554433 31
Q ss_pred C--CcEEEEeCh-hHHHHHHHhhhhcCCCCceeecCCCC--CHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHHHh
Q 024727 127 P--NVRIGVVGA-GTASIFEEVIQSSKCSLDVAFSPSKA--TGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSN 199 (263)
Q Consensus 127 ~--~~~i~aVG~-~Ta~~L~~~~~~~~~G~~~~~~p~~~--t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L~~ 199 (263)
+ ..+ +-+|. .|.+.|++.. .+.|+. |+.. .-..+.+.|.+. ...|+|+.+..+..-.=-|...|.+
T Consensus 263 p~~~~P-~PiGi~~Td~fLr~Ia--~~~G~~----pe~l~~Er~rl~dal~d~~~~L~GKrvai~Gdp~~~i~LarfL~e 335 (457)
T CHL00073 263 KLIGAP-FPIGPDGTRAWIEKIC--SVFGIE----PQGLEEREEQIWESLKDYLDLVRGKSVFFMGDNLLEISLARFLIR 335 (457)
T ss_pred ceeecC-CcCcHHHHHHHHHHHH--HHhCcC----HHHHHHHHHHHHHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHH
Confidence 1 222 22664 4667776651 122542 2211 111222333332 1368999977765666678899999
Q ss_pred CCCeeeEE
Q 024727 200 RGFEVVRL 207 (263)
Q Consensus 200 ~G~~v~~~ 207 (263)
.|.++..+
T Consensus 336 lGmevV~v 343 (457)
T CHL00073 336 CGMIVYEI 343 (457)
T ss_pred CCCEEEEE
Confidence 99998766
No 416
>COG1909 Uncharacterized protein conserved in archaea [Function unknown]
Probab=39.60 E-value=65 Score=26.51 Aligned_cols=72 Identities=13% Similarity=0.021 Sum_probs=44.5
Q ss_pred EEEeChhHHHHHHHhhhhcCCCCceeecCC---------------------------CCCHHHHHHHhccCCCCC-cEEE
Q 024727 131 IGVVGAGTASIFEEVIQSSKCSLDVAFSPS---------------------------KATGKILASELPKNGKKK-CTVL 182 (263)
Q Consensus 131 i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~---------------------------~~t~e~L~~~l~~~~~~~-~~vL 182 (263)
+++||..|.+.+.+. |+.++..-- ..=+.++++.|.+....+ +..+
T Consensus 38 litVGDvvT~n~~~~------gl~P~l~ivD~KT~R~~~~~~~~~~~~~~i~V~NpPGtIt~el~~ai~~a~~~~k~~~I 111 (167)
T COG1909 38 LITVGDVVTRNLIEV------GLIPDLAIVDGKTKRREPVDQNRIVFKRVIKVRNPPGTITFELIKAIEKALEDGKRVRI 111 (167)
T ss_pred EEEEchHHHHHHHHh------CCCCcEEEeeccccccccchhcccccceEEEEeCCCcEeEHHHHHHHHHHHhcCCcEEE
Confidence 999999999999999 887753210 011244555665544333 4567
Q ss_pred EEcCCCCchhHHHHHHhCCCeeeEEeeec
Q 024727 183 YPASAKASNEIEEGLSNRGFEVVRLNTYT 211 (263)
Q Consensus 183 ~~~g~~~~~~L~~~L~~~G~~v~~~~vY~ 211 (263)
++.|++..-.|+-.|-+ ....+.+|-
T Consensus 112 ~V~GEEDLa~lp~i~~a---p~~tvV~YG 137 (167)
T COG1909 112 FVDGEEDLAVLPAILYA---PLGTVVLYG 137 (167)
T ss_pred EEeChhHHHHhHHHhhc---CCCCEEEeC
Confidence 77777776666666653 233466665
No 417
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=39.60 E-value=83 Score=26.82 Aligned_cols=50 Identities=18% Similarity=0.152 Sum_probs=31.1
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC-CcEEEEeChhHHHHHH
Q 024727 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP-NVRIGVVGAGTASIFE 143 (263)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~-~~~i~aVG~~Ta~~L~ 143 (263)
+...|....+.++|++.+-.......+.+++.+.. ++.+++. ..+...++
T Consensus 176 ~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~~~~~ivg~-d~~~~~~~ 226 (274)
T cd06311 176 MQDLLTKFPKIDAVWAHDDDMAVGVLAAIKQAGRTDIKFVVGG-AGSKDMIK 226 (274)
T ss_pred HHHHHHhCCCcCEEEECCCcHHHHHHHHHHHcCCCCCceEEEe-CCCHHHHH
Confidence 44455444567888888877777777888877764 3444443 33444443
No 418
>COG4635 HemG Flavodoxin [Energy production and conversion / Coenzyme metabolism]
Probab=39.54 E-value=54 Score=27.03 Aligned_cols=66 Identities=17% Similarity=0.020 Sum_probs=42.2
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc--------CCCCcEEEE
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA--------GTPNVRIGV 133 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~--------~~~~~~i~a 133 (263)
.+.++..|++.|++|...|+-+... + ++++||.||+-++-=-.+|-+.+++. .-...-++|
T Consensus 18 A~~iA~~L~e~g~qvdi~dl~~~~~----------~-~l~~ydavVIgAsI~~~h~~~~~~~Fv~k~~e~L~~kP~A~f~ 86 (175)
T COG4635 18 AEYIASHLRESGIQVDIQDLHAVEE----------P-ALEDYDAVVIGASIRYGHFHEAVQSFVKKHAEALSTKPSAFFS 86 (175)
T ss_pred HHHHHHHhhhcCCeeeeeehhhhhc----------c-ChhhCceEEEecchhhhhhHHHHHHHHHHHHHHHhcCCceEEE
Confidence 3567777888999998776644332 1 46899999999886555555444332 112445677
Q ss_pred eChhH
Q 024727 134 VGAGT 138 (263)
Q Consensus 134 VG~~T 138 (263)
|+...
T Consensus 87 vnl~a 91 (175)
T COG4635 87 VNLTA 91 (175)
T ss_pred eehhh
Confidence 77543
No 419
>cd06452 SepCysS Sep-tRNA:Cys-tRNA synthase. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Cys-tRNA(Cys) is produced by O-phosphoseryl-tRNA synthetase which ligates O-phosphoserine (Sep) to tRNA(Cys), and Sep-tRNA:Cys-tRNA synthase (SepCysS) converts Sep-tRNA(Cys) to Cys-tRNA(Cys), in methanogenic archaea. SepCysS forms a dimer, each monomer is composed of a large and small domain; the larger, a typical pyridoxal 5'-phosphate (PLP)-dependent-like enzyme fold. In the active site of each monomer, PLP is covalently bound to a conserved Lys residue near the dimer interface.
Probab=39.52 E-value=2.4e+02 Score=25.41 Aligned_cols=73 Identities=8% Similarity=-0.052 Sum_probs=37.1
Q ss_pred CHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhC--------CCCEEEE
Q 024727 163 TGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--------SIPVVAV 234 (263)
Q Consensus 163 t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~--------~~d~vvF 234 (263)
..+++...+.....+|++|++........ ...++..|+++..+++-....-..+.+++.+.+. +...|++
T Consensus 68 ~t~al~~~l~~~~~~gd~Vl~~~~~~~~~--~~~~~~~g~~~~~v~~~~~~~~~~d~~~l~~~l~~~~~~~~~~~~lv~l 145 (361)
T cd06452 68 AREGKFAVMHSLCEKGDWVVVDGLAHYTS--YVAAERAGLNVREVPNTGHPEYHITPEGYAEVIEEVKDEFGKPPALALL 145 (361)
T ss_pred HHHHHHHHHHHhcCCCCEEEEcCCcchHH--HHHHHhcCCEEEEEecCCCCCcccCHHHHHHHHHHHhhccCCCceEEEE
Confidence 33444434433344667777775544332 2456778888877765321100122333333221 4567777
Q ss_pred eCH
Q 024727 235 ASP 237 (263)
Q Consensus 235 tS~ 237 (263)
++|
T Consensus 146 ~~p 148 (361)
T cd06452 146 THV 148 (361)
T ss_pred ECC
Confidence 776
No 420
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=39.15 E-value=59 Score=30.33 Aligned_cols=37 Identities=22% Similarity=0.197 Sum_probs=27.2
Q ss_pred CCCccEEEEeCHHH-------HHHHHHHHHHcCCCCcEEEEeCh
Q 024727 100 DTIFDWIIITSPEA-------GSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 100 l~~~d~IiFTS~~a-------V~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
+.++|.|+|-||.- +..|+..+....+.+.++++.|.
T Consensus 298 ~~~~d~ii~GspT~~~~~~~~~~~~l~~l~~~~~~~K~~a~FGs 341 (394)
T PRK11921 298 VFKSKAILVGSSTINRGILSSTAAILEEIKGLGFKNKKAAAFGS 341 (394)
T ss_pred HHhCCEEEEECCCcCccccHHHHHHHHHhhccCcCCCEEEEEec
Confidence 45799999999872 45566666655566888888885
No 421
>PRK07681 aspartate aminotransferase; Provisional
Probab=39.08 E-value=2.4e+02 Score=25.99 Aligned_cols=32 Identities=16% Similarity=0.194 Sum_probs=14.6
Q ss_pred CCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEee
Q 024727 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 176 ~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
.+|++|++..-.= ......++..|+++..+++
T Consensus 115 ~~Gd~Vlv~~P~y--~~~~~~~~~~G~~~~~v~~ 146 (399)
T PRK07681 115 NPGDIILVPDPGY--TAYETGIQMAGATSYYMPL 146 (399)
T ss_pred CCCCEEEECCCCc--cchHHHHHhcCCEEEEEec
Confidence 3445555543321 2233344455555555544
No 422
>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=38.97 E-value=69 Score=27.18 Aligned_cols=44 Identities=18% Similarity=0.244 Sum_probs=30.2
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC--CcEEEEeCh
Q 024727 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP--NVRIGVVGA 136 (263)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~--~~~i~aVG~ 136 (263)
+.+.+......++|+..+-......++.+.+.+.. ++.|++.+.
T Consensus 174 ~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d~ 219 (272)
T cd06301 174 MENWLSSGGKIDAVVANNDEMALGAIMALKAAGKSDKDVPVAGIDG 219 (272)
T ss_pred HHHHHHhCCCCCEEEECCCchHHHHHHHHHHcCCCCCCcEEEeeCC
Confidence 44455444567888888877777788888877753 567777753
No 423
>cd00609 AAT_like Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary hi
Probab=38.80 E-value=2.7e+02 Score=24.33 Aligned_cols=61 Identities=15% Similarity=0.068 Sum_probs=37.2
Q ss_pred CCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh-CCCCEEEEeCHH
Q 024727 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAVASPS 238 (263)
Q Consensus 176 ~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~d~vvFtS~s 238 (263)
.+|++|++....... ....++..|.++..++...........+.+.... .++.+|+++++.
T Consensus 81 ~~g~~vl~~~~~~~~--~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~ 142 (350)
T cd00609 81 NPGDEVLVPDPTYPG--YEAAARLAGAEVVPVPLDEEGGFLLDLELLEAAKTPKTKLLYLNNPN 142 (350)
T ss_pred CCCCEEEEcCCCchh--HHHHHHHCCCEEEEEecccccCCccCHHHHHhhcCccceEEEEECCC
Confidence 346788888776543 6677888888888887765443332212222222 367788887754
No 424
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=38.80 E-value=21 Score=23.32 Aligned_cols=27 Identities=7% Similarity=0.073 Sum_probs=21.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCc
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDT 90 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~ 90 (263)
-=.+.|++.|+.|+.+|.++...+.+.
T Consensus 22 lk~r~L~~~G~~Vi~Ip~~eW~~l~~~ 48 (58)
T PF08373_consen 22 LKHRHLKALGYKVISIPYYEWNKLKSR 48 (58)
T ss_pred HHHHHHHHCCCEEEEecHHHHHhcCCH
Confidence 345677899999999999998776443
No 425
>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=38.63 E-value=40 Score=26.96 Aligned_cols=49 Identities=16% Similarity=0.190 Sum_probs=32.7
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-C--CccEEEEeCHHHH
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-T--IFDWIIITSPEAG 114 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l-~--~~d~IiFTS~~aV 114 (263)
..-+...|++.|+++....... .|.+++.+.+++. . .+|.||.|-..++
T Consensus 22 ~~~l~~~l~~~G~~v~~~~~v~----Dd~~~i~~~l~~~~~~~~~DlVittGG~s~ 73 (152)
T cd00886 22 GPALVELLEEAGHEVVAYEIVP----DDKDEIREALIEWADEDGVDLILTTGGTGL 73 (152)
T ss_pred HHHHHHHHHHcCCeeeeEEEcC----CCHHHHHHHHHHHHhcCCCCEEEECCCcCC
Confidence 4578888999998877654432 2345566665432 3 6998888876664
No 426
>PRK12748 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=38.61 E-value=1.7e+02 Score=24.78 Aligned_cols=33 Identities=21% Similarity=0.189 Sum_probs=26.2
Q ss_pred CCCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEe
Q 024727 47 SNSNPKVVVTRER---GKNGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 47 ~l~g~~ILitr~~---~~~~~l~~~L~~~G~~v~~~ 79 (263)
++.|++||||-.. .-...+.+.|.++|++++..
T Consensus 2 ~l~~k~vlItGas~~~giG~~la~~l~~~G~~vi~~ 37 (256)
T PRK12748 2 PLMKKIALVTGASRLNGIGAAVCRRLAAKGIDIFFT 37 (256)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHHHcCCcEEEE
Confidence 4678999999875 34678999999999987654
No 427
>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=38.59 E-value=1.4e+02 Score=25.31 Aligned_cols=45 Identities=20% Similarity=0.285 Sum_probs=31.0
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC-CCcEEEEeChh
Q 024727 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT-PNVRIGVVGAG 137 (263)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~-~~~~i~aVG~~ 137 (263)
++..+....++|+|+.++........+.+.+.+. +++.+++++..
T Consensus 174 ~~~~l~~~~~~~aI~~~~d~~a~g~~~al~~~g~~~di~vvg~d~~ 219 (271)
T cd06312 174 IAAYLRANPDVDAVLTLGAPSAAPAAKALKQAGLKGKVKLGGFDLS 219 (271)
T ss_pred HHHHHHhCCCccEEEEeCCccchHHHHHHHhcCCCCCeEEEEecCC
Confidence 4444544446789888888877777777777765 46777777643
No 428
>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=38.56 E-value=85 Score=26.57 Aligned_cols=75 Identities=12% Similarity=0.042 Sum_probs=42.4
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhH
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGT 138 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~T 138 (263)
.-+.+.++++|......- +...+....+.+.+.+..-..+++|+.++-..+..+++.+.+.+. +++.+++++...
T Consensus 134 ~gf~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~p~di~iig~d~~~ 211 (263)
T cd06280 134 AGYEDAMRRHGLAPDARF-VAPTAEAAEAALAAWLAAPERPEALVASNGLLLLGALRAVRAAGLRIPQDLALAGFDNDP 211 (263)
T ss_pred HHHHHHHHHcCCCCChhh-cccCHHHHHHHHHHHhcCCCCCcEEEECCcHHHHHHHHHHHHcCCCCCCcEEEEEeCChh
Confidence 345566677776543211 111110012344455533235788888888877777787877765 467777776644
No 429
>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=38.55 E-value=2.9e+02 Score=24.68 Aligned_cols=132 Identities=17% Similarity=0.134 Sum_probs=66.1
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCc--hHHHHHHhcCCCccEEE--EeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDT--DRLSSVLNADTIFDWII--ITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~--~~l~~~l~~l~~~d~Ii--FTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~ 140 (263)
+...+++.+..-+.+-+..... +.. ..++..+ . ...+.|| ++|..+ ......+.+ .++++++.+... .
T Consensus 23 ~~lA~~~inG~~i~l~~~D~~~-~~~a~~~~~~li-~-~~V~~iiG~~~s~~~-~a~~~~~~~---~~ip~i~~~~~~-~ 94 (336)
T cd06339 23 FLAALYDLNGASIELRVYDTAG-AAGAAAAARQAV-A-EGADIIVGPLLKENV-AALAAAAAE---LGVPVLALNNDE-S 94 (336)
T ss_pred HHHHHHhccCCCceEEEEeCCC-cccHHHHHHHHH-H-cCCCEEEccCCHHHH-HHHHhhhcc---CCCCEEEccCCc-c
Confidence 3344555322333344445544 322 2233333 2 4788777 556543 233343333 256676665322 1
Q ss_pred HHHHhhhhcCCCCceeecCC-CCCHHHHHHHhccCCCCCcEEEEEcCCCC-----chhHHHHHHhCCCeeeEEeeeccc
Q 024727 141 IFEEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~~~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
... . ...-.+.+. ......+++.+.+. ..+++.++..+.. .+.+.+.+++.|.+|.....|...
T Consensus 95 ~~~-~------~~~f~~~~~~~~~~~~~~~~~~~~--g~k~vaii~~~~~~g~~~~~~f~~~~~~~G~~vv~~~~~~~~ 164 (336)
T cd06339 95 VAA-G------PNLFYFGLSPEDEARRAAEYARSQ--GKRRPLVLAPDGAYGQRVADAFRQAWQQLGGTVVAIESYDPS 164 (336)
T ss_pred ccC-C------CCEEEecCChHHHHHHHHHHHHhc--CccceEEEecCChHHHHHHHHHHHHHHHcCCceeeeEecCCC
Confidence 111 1 111112222 23345566666654 2477888765432 355667888999998877777643
No 430
>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=38.45 E-value=2.3e+02 Score=23.77 Aligned_cols=31 Identities=26% Similarity=0.249 Sum_probs=15.2
Q ss_pred CccEEEEeCH-HHHHHHHHHHHHcCCCCcEEEE
Q 024727 102 IFDWIIITSP-EAGSVFLEAWKEAGTPNVRIGV 133 (263)
Q Consensus 102 ~~d~IiFTS~-~aV~~~~~~l~~~~~~~~~i~a 133 (263)
..|.|++.+. .....+++.+.+.++ +.+++.
T Consensus 190 ~~~~vi~~~~~~~~~~~~~~~~~~g~-~~~~~~ 221 (298)
T cd06268 190 GPDAVFLAGYGGDAALFLKQAREAGL-KVPIVG 221 (298)
T ss_pred CCCEEEEccccchHHHHHHHHHHcCC-CCcEEe
Confidence 3455555543 444445555555544 344443
No 431
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=38.43 E-value=1.1e+02 Score=29.35 Aligned_cols=97 Identities=11% Similarity=0.082 Sum_probs=57.3
Q ss_pred CCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhc----CCCccEEEEeCHHHHHHHHHHH
Q 024727 47 SNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNA----DTIFDWIIITSPEAGSVFLEAW 121 (263)
Q Consensus 47 ~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~----l~~~d~IiFTS~~aV~~~~~~l 121 (263)
-+.||++.++-.....-.+.+.|.+.|++++.+-. .. ...+. +...+.+.. .+..+.++...++ ...+.+.+
T Consensus 311 ~L~GKrvai~Gdp~~~i~LarfL~elGmevV~vgt-~~-~~~~~~~~d~~~l~~~~~~~~~~~~vive~~D-~~el~~~i 387 (457)
T CHL00073 311 LVRGKSVFFMGDNLLEISLARFLIRCGMIVYEIGI-PY-MDKRYQAAELALLEDTCRKMNVPMPRIVEKPD-NYNQIQRI 387 (457)
T ss_pred HHCCCEEEEECCCcHHHHHHHHHHHCCCEEEEEEe-CC-CChhhhHHHHHHHHHHhhhcCCCCcEEEeCCC-HHHHHHHH
Confidence 47899999887767788899999999999998821 11 01111 111222322 2223456666665 44444555
Q ss_pred HHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCce
Q 024727 122 KEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDV 155 (263)
Q Consensus 122 ~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~ 155 (263)
++.. ..++.-|-..+.-|... |+..
T Consensus 388 ~~~~---pDLlIgG~~~~~Pl~~~------G~p~ 412 (457)
T CHL00073 388 RELQ---PDLAITGMAHANPLEAR------GINT 412 (457)
T ss_pred hhCC---CCEEEccccccCchhhc------CCcc
Confidence 5543 33444444666777777 7765
No 432
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=38.39 E-value=1.3e+02 Score=28.95 Aligned_cols=69 Identities=12% Similarity=0.210 Sum_probs=40.1
Q ss_pred hhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHH-------HHHHHHHHhccccCCCCceEEEECC
Q 024727 191 NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS-------AVRSSWVNLISDTEQWSNSVACIAG 263 (263)
Q Consensus 191 ~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s-------~v~~~~~~~~~~~~~~~~~i~~IGp 263 (263)
+.+.+.|++.|..+ ++.+|+... ....++.+.+.+.|+|+|-||. .+. .|++.+....+.+.+++++|.
T Consensus 270 ~~ia~gl~~~g~gv-~v~~~~v~~--~~~~~i~~~~~~ad~vilGspT~~~~~~p~~~-~fl~~l~~~~l~gK~~~vFGS 345 (479)
T PRK05452 270 DAIAQGIAEVDPRV-AVKIFNVAR--SDKNEILTNVFRSKGVLVGSSTMNNVMMPKIA-GLLEEITGLRFRNKRASAFGS 345 (479)
T ss_pred HHHHHHHHhhCCCc-eEEEEECCC--CCHHHHHhHHhhCCEEEEECCccCCcchHHHH-HHHHHhhccCcCCCEEEEEEC
Confidence 44455666554333 445565322 2233445444579999999976 244 555555443356788888873
No 433
>COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]
Probab=38.38 E-value=51 Score=30.34 Aligned_cols=74 Identities=18% Similarity=0.162 Sum_probs=50.2
Q ss_pred cccCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceE-EeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHH
Q 024727 42 TSASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLI-QHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVF 117 (263)
Q Consensus 42 ~~~~~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~-~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~ 117 (263)
++...++.+++++....-...+.+-+.|++.|+++...-.+ +.... ..++++.... ....+.++.|.+-+|+.=
T Consensus 225 ~~~~~~~~~~~v~afaGIg~P~rFf~tL~~~g~~~~~~~~FpDH~~f-~~~~l~~l~~-~~~~~~Ll~TeKDaVKl~ 299 (336)
T COG1663 225 RSDVADLKGKRVVAFAGIGNPQRFFATLRNLGIQVVETLAFPDHYDF-SAADLEDLAK-KAQADGLLTTEKDAVKLR 299 (336)
T ss_pred ecchhhcCCceEEEEEecCChHHHHHHHHHcCcceeeeecCCchhhc-cHHHHHHHHh-hhccceEEeeccceeecc
Confidence 44456777899999998888999999999999887753322 22211 2244544442 233388999999998754
No 434
>PRK14172 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=38.32 E-value=2.9e+02 Score=24.70 Aligned_cols=150 Identities=13% Similarity=0.056 Sum_probs=0.0
Q ss_pred HHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHh
Q 024727 66 IKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEV 145 (263)
Q Consensus 66 ~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~ 145 (263)
.+..++.|+++..+-+-+...-++....-..+++..+.|.|+.--|---+.-.+.+.+.-.+.+.+=++.+.-...|. .
T Consensus 54 ~k~a~~~Gi~~~~~~l~~~~~~~el~~~I~~lN~d~~V~GIlvqlPLP~~~~~~~i~~~I~p~KDVDGl~~~n~g~l~-~ 132 (278)
T PRK14172 54 EKVANSLGIDFKKIKLDESISEEDLINEIEELNKDNNVHGIMLQLPLPKHLDEKKITNKIDANKDIDCLTFISVGKFY-K 132 (278)
T ss_pred HHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHhCCCCCCeEEEcCCCCCCCCHHHHHhccCcccccCccCHhhHHHHh-C
Q ss_pred hhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcCCCC-chhHHHHHHhCCCeeeEEeeeccccCCCChHHH
Q 024727 146 IQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASAKA-SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTV 222 (263)
Q Consensus 146 ~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g~~~-~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~ 222 (263)
|-.. +.| -|+.+.++.|..+. ..|++++++....- ..-|...|.++|+.|+-+. .....+
T Consensus 133 ------g~~~-~~P--cTp~av~~lL~~~~i~l~Gk~vvViGrS~~VGkPla~lL~~~~AtVt~ch--------s~T~~l 195 (278)
T PRK14172 133 ------GEKC-FLP--CTPNSVITLIKSLNIDIEGKEVVVIGRSNIVGKPVAQLLLNENATVTICH--------SKTKNL 195 (278)
T ss_pred ------CCCC-CcC--CCHHHHHHHHHHhCCCCCCCEEEEECCCccchHHHHHHHHHCCCEEEEeC--------CCCCCH
Q ss_pred HHHhCCCCEEE
Q 024727 223 LKQALSIPVVA 233 (263)
Q Consensus 223 ~~~l~~~d~vv 233 (263)
.+...+.|+|+
T Consensus 196 ~~~~~~ADIvI 206 (278)
T PRK14172 196 KEVCKKADILV 206 (278)
T ss_pred HHHHhhCCEEE
No 435
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=38.31 E-value=2.4e+02 Score=27.18 Aligned_cols=105 Identities=20% Similarity=0.106 Sum_probs=59.6
Q ss_pred CCChHHHHHHHHhCC-CcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH----HHHHHHHHHHcCCCCcEEEE
Q 024727 59 RGKNGKLIKALAKHR-IDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA----GSVFLEAWKEAGTPNVRIGV 133 (263)
Q Consensus 59 ~~~~~~l~~~L~~~G-~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a----V~~~~~~l~~~~~~~~~i~a 133 (263)
..+-..++..|++.| .+|..+-.. ..+.. .+.+.+.+.. ..+|.|.||+... +..+.+.+++. .++.++++
T Consensus 22 Plgl~~lAa~L~~~G~~~V~iiD~~-~~~~~-~~~~~~~l~~-~~pdvVgis~~t~~~~~a~~~~~~~k~~-~P~~~iV~ 97 (497)
T TIGR02026 22 PLWVAYIGGALLDAGYHDVTFLDAM-TGPLT-DEKLVERLRA-HCPDLVLITAITPAIYIACETLKFARER-LPNAIIVL 97 (497)
T ss_pred CHHHHHHHHHHHhcCCcceEEeccc-ccCCC-HHHHHHHHHh-cCcCEEEEecCcccHHHHHHHHHHHHHH-CCCCEEEE
Confidence 345678888899999 688777553 22222 3445555533 5799999987532 22233334433 25788888
Q ss_pred eChhHH----HHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhc
Q 024727 134 VGAGTA----SIFEEVIQSSKCSLDVAFSPSK-ATGKILASELP 172 (263)
Q Consensus 134 VG~~Ta----~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~ 172 (263)
-|+... +.|.+. .+++..+..+. .+..+|++.+.
T Consensus 98 GG~h~t~~~~~~l~~~-----p~vD~Vv~GEGE~~~~~Ll~~l~ 136 (497)
T TIGR02026 98 GGIHPTFMFHQVLTEA-----PWIDFIVRGEGEETVVKLIAALE 136 (497)
T ss_pred cCCCcCcCHHHHHhcC-----CCccEEEeCCcHHHHHHHHHHHH
Confidence 887533 334332 14555555543 34455665554
No 436
>TIGR01284 alt_nitrog_alph nitrogenase alpha chain. This model represents the alpha chains of various forms of the nitrogen-fixing enzyme nitrogenase: vanadium-iron, iron-iron, and molybdenum-iron. Most examples of NifD, the molybdenum-iron type nitrogenase alpha chain, are excluded from this model and described instead by equivalog model TIGR01282. It appears by phylogenetic and UPGMA trees that this model represents a distinct clade of NifD homologs, in which arose several molybdenum-independent forms.
Probab=38.28 E-value=3.6e+02 Score=25.74 Aligned_cols=133 Identities=16% Similarity=0.093 Sum_probs=73.4
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeCh-hH
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGA-GT 138 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-~~~~~~i~aVG~-~T 138 (263)
...++.+.|++.|+++...-. .....++ ++...+.+.-+..++.....+.+.|++. +.+-..+-.+|- .|
T Consensus 213 d~~el~~lL~~~Gl~v~~~~~----g~~s~~e----i~~~~~A~lniv~~~~~~~~~A~~Le~~~GiP~~~~~~~G~~~T 284 (457)
T TIGR01284 213 DLWVLKKYFERMGIQVLSTFT----GNGCYDE----LRWMHRAKLNVVRCARSANYIANELEERYGIPRLDIDFFGFEYC 284 (457)
T ss_pred hHHHHHHHHHHcCCeEEEEEC----CCCCHHH----HHhccccCEEEEEChHHHHHHHHHHHHHhCCCeEecccCCHHHH
Confidence 346799999999999973111 1112232 3356677776666666556677777654 433222223664 46
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCCHHHHHH--------Hhcc--CCCCCcEEEEEcCCCCchhHHHHHH-hCCCeeeEE
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSKATGKILAS--------ELPK--NGKKKCTVLYPASAKASNEIEEGLS-NRGFEVVRL 207 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~--------~l~~--~~~~~~~vL~~~g~~~~~~L~~~L~-~~G~~v~~~ 207 (263)
.+.|++.. .+.|+. ...+.+++ .+.. ....|+|+.+..+....--+...|. +.|.++..+
T Consensus 285 ~~~l~~ia--~~~g~~-------~~~e~~i~~~~~~~~~~ld~~~~~L~GkrvaI~~~~~~~~~l~~~l~~ElGmevv~~ 355 (457)
T TIGR01284 285 AKNLRKIG--EFFGIE-------ERAERVIEEEMAKWKPELDWYKERLRGKKVWVWSGGPKLWHWPRPLEDELGMEVVAV 355 (457)
T ss_pred HHHHHHHH--HHhCCc-------hhHHHHHHHHHHHHHHHHHHHHHHcCCCEEEEECCCcHHHHHHHHHHHhCCCEEEEE
Confidence 66666551 111432 11222221 1111 1236899988766644445777886 799998775
Q ss_pred eee
Q 024727 208 NTY 210 (263)
Q Consensus 208 ~vY 210 (263)
..+
T Consensus 356 ~~~ 358 (457)
T TIGR01284 356 STK 358 (457)
T ss_pred EEE
Confidence 443
No 437
>PRK14187 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=38.24 E-value=2.3e+02 Score=25.63 Aligned_cols=149 Identities=9% Similarity=0.022 Sum_probs=78.1
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHH---hcCCCccEEEEeCHH--HHH--HHHHHHHHcCCCCcEEEEeChh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVL---NADTIFDWIIITSPE--AGS--VFLEAWKEAGTPNVRIGVVGAG 137 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l---~~l~~~d~IiFTS~~--aV~--~~~~~l~~~~~~~~~i~aVG~~ 137 (263)
-.+..++.|+++..+-+-+. ...+++.+.+ ++....|.|+.--|- .++ ..++.+. +.+.+=++.+.
T Consensus 53 k~k~a~~~Gi~~~~~~l~~~---~~e~~l~~~I~~lN~d~~V~GIlvqlPLP~~i~~~~i~~~I~----p~KDVDGl~~~ 125 (294)
T PRK14187 53 KQRKAEMLGLRSETILLPST---ISESSLIEKINELNNDDSVHGILVQLPVPNHIDKNLIINTID----PEKDVDGFHNE 125 (294)
T ss_pred HHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhccC----cccCcccCChh
Confidence 34556777988876654221 1223444444 344677899988773 221 1122111 12223233333
Q ss_pred HHHHHHHhhhhcCCCCc-eeecCCCCCHHHHHHHhccCC--CCCcEEEEEcC-CCCchhHHHHHHhCCCeeeEEeeeccc
Q 024727 138 TASIFEEVIQSSKCSLD-VAFSPSKATGKILASELPKNG--KKKCTVLYPAS-AKASNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~-~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g-~~~~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
-...|- . |-. ..+.| -|+.+.++.|..+. ..|++++++.. +.-..-|...|.++|+.|.-+.-+.
T Consensus 126 n~g~l~-~------g~~~~~~~P--cTp~avi~lL~~~~i~l~Gk~vvViGrS~iVGkPla~lL~~~~aTVt~chs~T-- 194 (294)
T PRK14187 126 NVGRLF-T------GQKKNCLIP--CTPKGCLYLIKTITRNLSGSDAVVIGRSNIVGKPMACLLLGENCTVTTVHSAT-- 194 (294)
T ss_pred hHHHHh-C------CCCCCCccC--cCHHHHHHHHHHhCCCCCCCEEEEECCCccchHHHHHHHhhCCCEEEEeCCCC--
Confidence 333332 1 321 12444 47888887777543 46788766654 4445568888989998886433221
Q ss_pred cCCCChHHHHHHhCCCCEEEEeCH
Q 024727 214 PVHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
.. +.....+.|+|+-.-+
T Consensus 195 ---~~---l~~~~~~ADIvVsAvG 212 (294)
T PRK14187 195 ---RD---LADYCSKADILVAAVG 212 (294)
T ss_pred ---CC---HHHHHhhCCEEEEccC
Confidence 11 2222357787776544
No 438
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=38.22 E-value=49 Score=29.05 Aligned_cols=63 Identities=13% Similarity=0.152 Sum_probs=48.7
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCee
Q 024727 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEV 204 (263)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v 204 (263)
.|+++|...--++++. |+.+++.= .+.++.+++. .+|.++|+++...-...+.+.|.+.|...
T Consensus 190 ~iaAmG~~a~va~rkl------giePdi~F--g~~~a~ieAa----~rGl~vlvv~t~~ml~~~~~~l~~~~~eY 252 (260)
T COG1497 190 IIAAMGTEALVALRKL------GIEPDIEF--GTLEAAIEAA----VRGLSVLVVITRRMLRYLLRKLEEEGLEY 252 (260)
T ss_pred hhhhhhHHHHHHHHHc------CCCCCeee--cccHHHHHHH----hcCCcEEEEEeHHHHHHHHHHHHhcCCcc
Confidence 5889999999999999 99997642 2334444333 36889999988888888889999998765
No 439
>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=38.07 E-value=1e+02 Score=27.22 Aligned_cols=66 Identities=9% Similarity=0.174 Sum_probs=34.1
Q ss_pred hhHHHHHHhCCCeeeEEeeeccccCCCChH---HHHHHh--CCCCEEEEeCHHHHHHHHHHhccccCCCCceEEEEC
Q 024727 191 NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQ---TVLKQA--LSIPVVAVASPSAVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 191 ~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~---~~~~~l--~~~d~vvFtS~s~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
+-+.+.|++.|... +-..|+....+.+.+ .+.+.+ .++|.|+-+...++. .+.+.... +++|+..|
T Consensus 18 ~gf~~~L~~~g~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~gt~aa~-~~~~~~~~----~iPVVf~~ 88 (294)
T PF04392_consen 18 RGFKDGLKELGYDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAIGTPAAQ-ALAKHLKD----DIPVVFCG 88 (294)
T ss_dssp HHHHHHHHHTT--C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEESHHHHH-HHHHH-SS-----S-EEEEC
T ss_pred HHHHHHHHHcCCcc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEeCcHHHH-HHHHhcCC----CcEEEEEe
Confidence 34677888888765 222222222222232 233333 489999988888888 77776532 26776554
No 440
>PF02882 THF_DHG_CYH_C: Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain; InterPro: IPR020631 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the NAD(P)-binding domain found in these enzymes.; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 1B0A_A 2C2X_B 2C2Y_A 3NGL_C 3NGX_A 4A26_B 1EDZ_A 1EE9_A 3P2O_B 1DIA_A ....
Probab=38.05 E-value=85 Score=25.61 Aligned_cols=57 Identities=16% Similarity=0.053 Sum_probs=36.7
Q ss_pred CCCCCCeEEEe-CCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH
Q 024727 46 ASNSNPKVVVT-RERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE 112 (263)
Q Consensus 46 ~~l~g~~ILit-r~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~ 112 (263)
-++.|++|++. |+..-...++..|.+.|+.|....... .++++.+ ...|.||-..+.
T Consensus 32 ~~l~Gk~v~VvGrs~~VG~Pla~lL~~~~atVt~~h~~T-------~~l~~~~---~~ADIVVsa~G~ 89 (160)
T PF02882_consen 32 IDLEGKKVVVVGRSNIVGKPLAMLLLNKGATVTICHSKT-------KNLQEIT---RRADIVVSAVGK 89 (160)
T ss_dssp -STTT-EEEEE-TTTTTHHHHHHHHHHTT-EEEEE-TTS-------SSHHHHH---TTSSEEEE-SSS
T ss_pred CCCCCCEEEEECCcCCCChHHHHHHHhCCCeEEeccCCC-------Cccccee---eeccEEeeeecc
Confidence 36899998877 555567889999999999998654332 2334444 578888865543
No 441
>PRK09276 LL-diaminopimelate aminotransferase; Provisional
Probab=37.94 E-value=3.1e+02 Score=24.95 Aligned_cols=33 Identities=18% Similarity=0.020 Sum_probs=17.0
Q ss_pred CCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeee
Q 024727 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (263)
Q Consensus 176 ~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY 210 (263)
.+|++|+++...-. ......+..|.++..++++
T Consensus 115 ~~gd~Vl~~~P~y~--~~~~~~~~~g~~~~~v~~~ 147 (385)
T PRK09276 115 NPGDVVLVPDPGYP--VYKIGTIFAGGEPYFMPLK 147 (385)
T ss_pred CCCCEEEEcCCCCc--ChHHHHHHcCCEEEEEecC
Confidence 34566666554322 2333445566666665554
No 442
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=37.81 E-value=1.2e+02 Score=26.88 Aligned_cols=62 Identities=8% Similarity=0.077 Sum_probs=31.2
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT 126 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~ 126 (263)
+.+.|+++|..+.....+......+ .+.+...++....+++|++.+-...-..++.+.+.+.
T Consensus 204 f~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~A~g~~~~l~~~g~ 267 (342)
T PRK10014 204 YCATLLKFGLPFHSEWVLECTSSQKQAAEAITALLRHNPTISAVVCYNETIAMGAWFGLLRAGR 267 (342)
T ss_pred HHHHHHHcCCCCCcceEecCCCChHHHHHHHHHHHcCCCCCCEEEECCcHHHHHHHHHHHHcCC
Confidence 5666777776543222221111001 1233444433345678777776666666666666553
No 443
>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=37.80 E-value=56 Score=29.83 Aligned_cols=67 Identities=10% Similarity=0.110 Sum_probs=46.8
Q ss_pred cCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHH
Q 024727 44 ASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGS 115 (263)
Q Consensus 44 ~~~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~ 115 (263)
....|.||+|.+++.....--+.+.|++.|.+...+-+..+.+ .+...++ .-+..|+.+...|....
T Consensus 100 svaDLKGKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~~~----~d~~aAl-~~G~VDAa~~~eP~~s~ 166 (328)
T TIGR03427 100 SLADLKGQKVNLVELSVSHYLLARALESVGLSEKDVKVVNTSD----ADIVAAF-ITKDVTAVVTWNPQLSE 166 (328)
T ss_pred CHHHcCCCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeCCh----HHHHHHH-hcCCCcEEEEcCchHHH
Confidence 3467999999999887666678899999999865444443332 2234455 35789999877776543
No 444
>cd01976 Nitrogenase_MoFe_alpha Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Mo-nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=37.80 E-value=3.2e+02 Score=25.81 Aligned_cols=97 Identities=8% Similarity=-0.005 Sum_probs=56.8
Q ss_pred CCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC
Q 024727 46 ASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG 125 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~ 125 (263)
.-|.|++|++.-.......+...+++.|.++...-. .. .+....+..+..+. .+.++...++ ...+.+.+.+.
T Consensus 296 ~~L~Gkrv~i~~g~~~~~~~~~~l~elGmevv~~g~---~~-~~~~~~~~~~~~~~-~~~~i~~~~d-~~e~~~~i~~~- 368 (421)
T cd01976 296 PRLEGKTVMLYVGGLRPRHYIGAYEDLGMEVVGTGY---EF-AHRDDYERTEVIPK-EGTLLYDDVT-HYELEEFVKRL- 368 (421)
T ss_pred HHcCCCEEEEECCCCcHHHHHHHHHHCCCEEEEEEe---ec-CCHHHHhhHHhhcC-CceEEEcCCC-HHHHHHHHHHh-
Confidence 468899999987665677888899999999996333 11 12222333333333 2555544433 22333444443
Q ss_pred CCCcEEEEeChhHHHHHHHhhhhcCCCCceee
Q 024727 126 TPNVRIGVVGAGTASIFEEVIQSSKCSLDVAF 157 (263)
Q Consensus 126 ~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~ 157 (263)
+..++.-|..-+...++. |+..+.
T Consensus 369 --~pDliig~~~~~~~a~k~------giP~~~ 392 (421)
T cd01976 369 --KPDLIGSGIKEKYVFQKM------GIPFRQ 392 (421)
T ss_pred --CCCEEEecCcchhhhhhc------CCCeEe
Confidence 344555555655666666 887643
No 445
>TIGR03675 arCOG00543 arCOG00543 universal archaeal KH-domain/beta-lactamase-domain protein. This family of proteins is universal in the archaea and consistsof an N-terminal type-1 KH-domain (pfam00013) a central beta-lactamase-domain (pfam00753) with a C-terminal motif associated with RNA metabolism (pfam07521). KH-domains are associated with RNA-binding, so taken together, this protein is a likely metal-dependent RNAase. This family was defined in as arCOG01782.
Probab=37.80 E-value=3.5e+02 Score=27.17 Aligned_cols=43 Identities=7% Similarity=0.128 Sum_probs=31.7
Q ss_pred CCCCHHHHHHHhccCCCCCcEEEEEcCCCC-chhHHHHHHhC-CC
Q 024727 160 SKATGKILASELPKNGKKKCTVLYPASAKA-SNEIEEGLSNR-GF 202 (263)
Q Consensus 160 ~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~-~~~L~~~L~~~-G~ 202 (263)
...+-++|++.+.....+-++|++..|+.. ...|.+.|++. |+
T Consensus 572 aHaD~~~L~~~v~~~~p~p~~v~lvHGe~~~~~~la~~l~~~~~~ 616 (630)
T TIGR03675 572 GHSDRRQLMNYVRRMQPKPEKILLNHGEPSKILDLASSIYKKFNI 616 (630)
T ss_pred ccCCHHHHHHHHHhcCCCCCEEEEEcCCHHHHHHHHHHHHHHhCC
Confidence 356788999888876544478999999865 57788888654 44
No 446
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=37.75 E-value=1.6e+02 Score=23.08 Aligned_cols=94 Identities=11% Similarity=-0.018 Sum_probs=59.7
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCC
Q 024727 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPN 128 (263)
Q Consensus 49 ~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~ 128 (263)
.|..|+-.......+++.+...+.+++++-+..+.....+....+-+.|++.+.-+..++.-.+..+.-+..+.+.+.+
T Consensus 29 ~GfeVi~lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG~~~~~~~~~l~~~Gvd- 107 (132)
T TIGR00640 29 LGFDVDVGPLFQTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVGGVIPPQDFDELKEMGVA- 107 (132)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeCCCChHhHHHHHHCCCC-
Confidence 5778888877777788999999999999998887754433334444455443333677777654455445556666653
Q ss_pred cEEEEeChhHHHHHHH
Q 024727 129 VRIGVVGAGTASIFEE 144 (263)
Q Consensus 129 ~~i~aVG~~Ta~~L~~ 144 (263)
.++-.|....+.++.
T Consensus 108 -~~~~~gt~~~~i~~~ 122 (132)
T TIGR00640 108 -EIFGPGTPIPESAIF 122 (132)
T ss_pred -EEECCCCCHHHHHHH
Confidence 455555544444443
No 447
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=37.70 E-value=1.3e+02 Score=26.76 Aligned_cols=75 Identities=9% Similarity=0.059 Sum_probs=42.7
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
.-+.+.|+++|..+............+ .+.+++.+..-..+|+|++.+-...-..++.+.+.++ +++.|++.+..
T Consensus 196 ~Gf~~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~nD~~A~g~~~al~~~G~~vP~disVigfD~~ 275 (343)
T PRK10727 196 QGYYDALAESGIPANDRLVTFGEPDESGGEQAMTELLGRGRNFTAVACYNDSMAAGAMGVLNDNGIDVPGEISLIGFDDV 275 (343)
T ss_pred HHHHHHHHHCCCCCChhhEEeCCCChhHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCcceeEEeecCc
Confidence 346677788886543211111111101 1234445533345788888877766677777877775 46777777654
No 448
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=37.54 E-value=2.2e+02 Score=29.37 Aligned_cols=130 Identities=15% Similarity=0.057 Sum_probs=79.6
Q ss_pred CCCCCCccccccccccccCCCCCCCeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccE
Q 024727 27 PLPFQFSRIQASSDATSASASNSNPKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDW 105 (263)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~~~l~g~~ILitr~~~-~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~ 105 (263)
+...+..|-+. .+...+.+.|.+||+.-... ........|+++|+++...+ - ..+. ...++....||.
T Consensus 646 ~~~~~~~e~~~---~~~~~~~l~g~~iLlvddn~vn~~Va~~~l~~~g~~~~~~~-s------g~e~-l~~~~~~~~y~~ 714 (786)
T KOG0519|consen 646 SKLSGNPEKLA---EPRDSKLLTGPKILLVDDNPVNRKVATGMLKKLGAEVTEVN-S------GQEA-LDKLKPPHSYDV 714 (786)
T ss_pred cccCCCccccc---CccccccccCCceEEEecccchHHHHHHHHHHhCCeeEeec-C------cHHH-HHhcCCCCcccE
Confidence 34444444444 22245789999999997654 45567778899999998776 1 1222 233433467777
Q ss_pred EEEeCHHHHHHHHHHH---HHcCCCCcEEEE----eChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccC
Q 024727 106 IIITSPEAGSVFLEAW---KEAGTPNVRIGV----VGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (263)
Q Consensus 106 IiFTS~~aV~~~~~~l---~~~~~~~~~i~a----VG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (263)
|+--=.--+-=-.+.. .+.-.-..+|+| +.+.|.+.+.+. |++. |..+-.+-+.|...+.+.
T Consensus 715 ifmD~qMP~mDG~e~~~~irk~~~~~~pIvAlTa~~~~~~~~~c~~~------Gmd~-yl~KP~~~~~l~~~l~~~ 783 (786)
T KOG0519|consen 715 IFMDLQMPEMDGYEATREIRKKERWHLPIVALTADADPSTEEECLEV------GMDG-YLSKPFTLEKLVKILREF 783 (786)
T ss_pred EEEEcCCcccchHHHHHHHHHhhcCCCCEEEEecCCcHHHHHHHHHh------CCce-EEcccccHHHHHHHHHHH
Confidence 7654322110001111 111112567777 588899999999 9986 777778888888777654
No 449
>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=37.52 E-value=3.3e+02 Score=24.97 Aligned_cols=133 Identities=14% Similarity=0.115 Sum_probs=67.8
Q ss_pred CccEEE-EeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHH-hhhhcCCCCcee--ecCCCCCHHHHHHHhccCCCC
Q 024727 102 IFDWII-ITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEE-VIQSSKCSLDVA--FSPSKATGKILASELPKNGKK 177 (263)
Q Consensus 102 ~~d~Ii-FTS~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~-~~~~~~~G~~~~--~~p~~~t~e~L~~~l~~~~~~ 177 (263)
+.+.|| -.++..+......+... +++.++-|. |...+-+ . ++..- ..|. ....++..+ +....
T Consensus 66 ~V~aviGp~~S~~~~a~a~va~~~---~iP~Is~~a-~~~~lt~~~------~y~~f~r~~~~--~~~~~~~~~-~~~~w 132 (382)
T cd06371 66 YASAFVGPVNPGYCEAAALLAKEW---DKALFSWGC-VNYELDDVR------SYPTFARTLPS--PSRVLFTVL-RYFRW 132 (382)
T ss_pred CceEEECCCCchHHHHHHHHHHhc---CceEEeccc-CchhhcCcc------cCCCceecCCC--cHHHHHHHH-HHCCC
Confidence 444444 23334555556655554 566666664 3333332 2 22221 1232 245565444 43333
Q ss_pred CcEEEEEcCCCC-----chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhC--C-CCEEEEeCH------HHHHHH
Q 024727 178 KCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--S-IPVVAVASP------SAVRSS 243 (263)
Q Consensus 178 ~~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~--~-~d~vvFtS~------s~v~~~ 243 (263)
+++.++..+.. .+.+.+.|++.|++|....-|.... .+...++..++ + .++|++... ..+. .
T Consensus 133 -~~vaii~~~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~~~~--~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~-~ 208 (382)
T cd06371 133 -AHVAIVSSPQDIWVETAQKLASALRAHGLPVGLVTSMGPDE--KGAREALKKVRSADRVRVVIMCMHSVLIGGEEQR-L 208 (382)
T ss_pred -eEEEEEEecccchHHHHHHHHHHHHHCCCcEEEEEEecCCH--HHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHH-H
Confidence 66666654433 4778889999998876554444211 12222333342 3 588777543 4556 6
Q ss_pred HHHhcccc
Q 024727 244 WVNLISDT 251 (263)
Q Consensus 244 ~~~~~~~~ 251 (263)
+++.+.+.
T Consensus 209 i~~qa~~~ 216 (382)
T cd06371 209 LLETALEM 216 (382)
T ss_pred HHHHHHHc
Confidence 76666543
No 450
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=37.38 E-value=1.5e+02 Score=25.94 Aligned_cols=75 Identities=8% Similarity=-0.029 Sum_probs=42.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
.-+.+.|+++|..+.....+......+ .+.+...+.....+++|++++-.....+++.+.+.+. +++.+++.+..
T Consensus 194 ~Gf~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~~~~l~~~g~~vP~dvsvigfd~~ 273 (327)
T PRK10423 194 EGYRAAMKRAGLNIPDGYEVTGDFEFNGGFDAMQQLLALPLRPQAVFTGNDAMAVGVYQALYQAGLSVPQDIAVIGYDDI 273 (327)
T ss_pred HHHHHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHhcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEEeCCh
Confidence 345677777776543211111110000 1234444433345788888887777777777877764 37777777764
No 451
>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=37.38 E-value=2.8e+02 Score=24.14 Aligned_cols=137 Identities=16% Similarity=0.102 Sum_probs=70.9
Q ss_pred CCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhccCCCCC
Q 024727 101 TIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKK 178 (263)
Q Consensus 101 ~~~d~IiFTS~~a-V~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~~ 178 (263)
.+.+.||..+... .......+.+. +++++.++... ..+.... ..-....+.. .....+++.+.+. ..
T Consensus 65 ~~v~~vig~~~s~~~~~~~~~~~~~---~vP~v~~~~~~-~~~~~~~-----~~~~~~~~~~~~~~~~~~~~l~~~--g~ 133 (312)
T cd06333 65 DKVDAIIGPSTTPATMAVAPVAEEA---KTPMISLAPAA-AIVEPKR-----KWVFKTPQNDRLMAEAILADMKKR--GV 133 (312)
T ss_pred CCeEEEECCCCCHHHHHHHHHHHhc---CCCEEEccCCc-cccCCCC-----CcEEEcCCCcHHHHHHHHHHHHHc--CC
Confidence 4688888654332 23344544443 56777776532 1111110 1111112222 2344555566543 34
Q ss_pred cEEEEEcCCCC-----chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh-CCCCEEEEeC-HHHHHHHHHHhccc
Q 024727 179 CTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAVAS-PSAVRSSWVNLISD 250 (263)
Q Consensus 179 ~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~d~vvFtS-~s~v~~~~~~~~~~ 250 (263)
++|.++.++.. .+.+.+.+++.|+++.....|.... ......+.+.. .++|+|++.+ ...+- .+++.+.+
T Consensus 134 ~~vail~~~~~~~~~~~~~~~~~~~~~G~~v~~~~~~~~~~-~d~~~~~~~l~~~~pdaIi~~~~~~~~~-~~~~~l~~ 210 (312)
T cd06333 134 KTVAFIGFSDAYGESGLKELKALAPKYGIEVVADERYGRTD-TSVTAQLLKIRAARPDAVLIWGSGTPAA-LPAKNLRE 210 (312)
T ss_pred CEEEEEecCcHHHHHHHHHHHHHHHHcCCEEEEEEeeCCCC-cCHHHHHHHHHhCCCCEEEEecCCcHHH-HHHHHHHH
Confidence 78888866543 2456778889999886655564322 12222333332 4689888876 33444 56665544
No 452
>cd03466 Nitrogenase_NifN_2 Nitrogenase_nifN_2: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The nifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this nifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco). This group also contains the Clostidium fused NifN-NifB protein.
Probab=37.36 E-value=3.1e+02 Score=25.90 Aligned_cols=138 Identities=12% Similarity=-0.026 Sum_probs=0.0
Q ss_pred HHHHHHHHhCCCcEEEeceEE-----------eeeCCCchHHHHHHhcCCCccEEEEeCH--HHHHHHHHHHHHcCCCCc
Q 024727 63 GKLIKALAKHRIDCLELPLIQ-----------HAQGPDTDRLSSVLNADTIFDWIIITSP--EAGSVFLEAWKEAGTPNV 129 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~-----------~~~~~~~~~l~~~l~~l~~~d~IiFTS~--~aV~~~~~~l~~~~~~~~ 129 (263)
+++.+.|++.|.++..+|-+. ..-......+++.- +..+.+.-|..++ ..-..+.+.+++.. ++
T Consensus 171 ~ei~~lL~~~Gl~~~~~~d~s~~~~~~~~~~~~~~~~~g~~~~~i~-~~~~A~lniv~~~~~~~g~~~A~~L~e~~--gi 247 (429)
T cd03466 171 REIKEILREFGIEYILLPDTSETLDGPFWGEYHRLPSGGTPISEIK-GMGGAKATIELGMFVDHGLSAGSYLEEEF--GI 247 (429)
T ss_pred HHHHHHHHHcCCCeEEecCccccccCCCCCCcceeCCCCCCHHHHH-hhccCcEEEEEccCccchHHHHHHHHHHH--CC
Q ss_pred EEEEeCh-----hHHHHHHHhhhhcCCCCceeecCCC---CCHHHHHHHhccCC--CCCcEEEEEcCCCCchhHHHHHHh
Q 024727 130 RIGVVGA-----GTASIFEEVIQSSKCSLDVAFSPSK---ATGKILASELPKNG--KKKCTVLYPASAKASNEIEEGLSN 199 (263)
Q Consensus 130 ~i~aVG~-----~Ta~~L~~~~~~~~~G~~~~~~p~~---~t~e~L~~~l~~~~--~~~~~vL~~~g~~~~~~L~~~L~~ 199 (263)
+++..+. .|.+.|++. +=.......+ ..-+.+++.+.+.. ..|+|+.+..+....-.+.+.|.+
T Consensus 248 P~~~~~~P~G~~~t~~~l~~l------~~~~g~~~~~~i~~~~~~~~~~~~d~~~~l~gkrv~v~g~~~~~~~l~~~L~e 321 (429)
T cd03466 248 PNYRLPLPIGLRATDEFMSLL------SKLTGKPIPEKYTRERGRLLDAMIDAHKYNFGRKAAIYGEPDFVVAITRFVLE 321 (429)
T ss_pred CeeecCCCcChHHHHHHHHHH------HHHHCCCcCHHHHHHHHHHHHHHHHHHHhcCCCEEEEEcCHHHHHHHHHHHHH
Q ss_pred CCCeeeEEee
Q 024727 200 RGFEVVRLNT 209 (263)
Q Consensus 200 ~G~~v~~~~v 209 (263)
.|.++..+..
T Consensus 322 lG~~~~~v~~ 331 (429)
T cd03466 322 NGMVPVLIAT 331 (429)
T ss_pred CCCEEEEEEe
No 453
>PRK03967 histidinol-phosphate aminotransferase; Provisional
Probab=37.31 E-value=2.7e+02 Score=24.93 Aligned_cols=13 Identities=15% Similarity=0.235 Sum_probs=5.8
Q ss_pred HHhCCCeeeEEee
Q 024727 197 LSNRGFEVVRLNT 209 (263)
Q Consensus 197 L~~~G~~v~~~~v 209 (263)
.+..|+++..+++
T Consensus 111 ~~~~g~~~~~v~~ 123 (337)
T PRK03967 111 AKLNGIPVIDVPL 123 (337)
T ss_pred HHHcCCeEEEeec
Confidence 3444554444443
No 454
>PRK08605 D-lactate dehydrogenase; Validated
Probab=37.27 E-value=3.2e+02 Score=24.82 Aligned_cols=61 Identities=15% Similarity=0.201 Sum_probs=35.9
Q ss_pred CCcEEEEEcCCCCchhHHHHH-HhCCCeeeEEeeeccccCCCC------hHHHHHHhCCCCEEEEeCHHHH
Q 024727 177 KKCTVLYPASAKASNEIEEGL-SNRGFEVVRLNTYTTEPVHHV------DQTVLKQALSIPVVAVASPSAV 240 (263)
Q Consensus 177 ~~~~vL~~~g~~~~~~L~~~L-~~~G~~v~~~~vY~~~~~~~~------~~~~~~~l~~~d~vvFtS~s~v 240 (263)
.|++|.++....-...+...| +..|.+| ..|+....... ...+.+.+...|+|++.-|.+.
T Consensus 145 ~g~~VgIIG~G~IG~~vA~~L~~~~g~~V---~~~d~~~~~~~~~~~~~~~~l~ell~~aDvIvl~lP~t~ 212 (332)
T PRK08605 145 KDLKVAVIGTGRIGLAVAKIFAKGYGSDV---VAYDPFPNAKAATYVDYKDTIEEAVEGADIVTLHMPATK 212 (332)
T ss_pred CCCEEEEECCCHHHHHHHHHHHhcCCCEE---EEECCCccHhHHhhccccCCHHHHHHhCCEEEEeCCCCc
Confidence 467788877666556677887 5556654 45654332110 0123333468999999877654
No 455
>PRK14180 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=37.19 E-value=3.1e+02 Score=24.61 Aligned_cols=148 Identities=17% Similarity=0.168 Sum_probs=78.8
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHH---hcCCCccEEEEeCHH--HHH--HHHHHHHHc-CCCCcEEEEeCh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVL---NADTIFDWIIITSPE--AGS--VFLEAWKEA-GTPNVRIGVVGA 136 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l---~~l~~~d~IiFTS~~--aV~--~~~~~l~~~-~~~~~~i~aVG~ 136 (263)
-.+..++.|+++..+-+-+.. ..+++.+.+ ++..+.|.|+.--|- .++ .+++.+... ..|+..-.-.|.
T Consensus 52 k~k~~~~~Gi~~~~~~l~~~~---~~~el~~~I~~lN~D~~V~GIivq~PlP~~i~~~~i~~~I~p~KDVDGl~~~n~g~ 128 (282)
T PRK14180 52 KEKACAQVGIDSQVITLPEHT---TESELLELIDQLNNDSSVHAILVQLPLPAHINKNNVIYSIKPEKDVDGFHPTNVGR 128 (282)
T ss_pred HHHHHHHcCCEEEEEECCCCC---CHHHHHHHHHHHhCCCCCCeEEEcCCCCCCCCHHHHHhhcCccccccccChhhHHH
Confidence 445567789888766442221 223344444 445678899988773 222 122222111 123333333332
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcC-CCCchhHHHHHHhCCCeeeEEeeeccc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPAS-AKASNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g-~~~~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
|. . |-...+.| -|+.+.++.|..+. ..|++++++.. ..-..-|...|.++|+.|+-+.-..
T Consensus 129 -----l~-~------g~~~~~~P--cTp~aii~lL~~y~i~l~Gk~vvViGrS~~VGkPla~lL~~~~ATVt~chs~T-- 192 (282)
T PRK14180 129 -----LQ-L------RDKKCLES--CTPKGIMTMLREYGIKTEGAYAVVVGASNVVGKPVSQLLLNAKATVTTCHRFT-- 192 (282)
T ss_pred -----Hh-c------CCCCCcCC--CCHHHHHHHHHHhCCCCCCCEEEEECCCCcchHHHHHHHHHCCCEEEEEcCCC--
Confidence 21 2 31112444 48888988887653 46788777754 4445568888989999885443211
Q ss_pred cCCCChHHHHHHhCCCCEEEEeCH
Q 024727 214 PVHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
. .+....+..|+|+-.-+
T Consensus 193 ---~---dl~~~~k~ADIvIsAvG 210 (282)
T PRK14180 193 ---T---DLKSHTTKADILIVAVG 210 (282)
T ss_pred ---C---CHHHHhhhcCEEEEccC
Confidence 1 12222357787776544
No 456
>PRK14186 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=37.18 E-value=3.2e+02 Score=24.74 Aligned_cols=147 Identities=12% Similarity=0.035 Sum_probs=79.3
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHH---hcCCCccEEEEeCHH--HH--HHHHHHHHHc-CCCCcEEEEeCh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVL---NADTIFDWIIITSPE--AG--SVFLEAWKEA-GTPNVRIGVVGA 136 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l---~~l~~~d~IiFTS~~--aV--~~~~~~l~~~-~~~~~~i~aVG~ 136 (263)
-.+..++.|+++..+-+-+.. ..+++.+.+ ++..+.|.|+.--|- .+ +.+++.+... ..|+..-.-.|
T Consensus 53 k~k~a~~~Gi~~~~~~l~~~~---~~~el~~~I~~lN~D~~V~GIivq~PLP~~i~~~~i~~~I~p~KDVDGl~~~n~g- 128 (297)
T PRK14186 53 KEKACARVGIASFGKHLPADT---SQAEVEALIAQLNQDERVDGILLQLPLPKHLDEVPLLHAIDPDKDADGLHPLNLG- 128 (297)
T ss_pred HHHHHHHcCCEEEEEECCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhccCcccCcccCChhhHH-
Confidence 345567779888766552221 223344444 344678999988773 22 2222222111 12333333333
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEcC-CCCchhHHHHHHhCCCeeeEEeeeccc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPAS-AKASNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~g-~~~~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
.|. . |-. .+.| -|+.+.++.|..+. ..|++++++.- +.-..-|...|.++|+.|..+.-.
T Consensus 129 ----~l~-~------~~~-~~~P--cTp~aii~lL~~~~i~l~Gk~vvVIGrS~iVGkPla~lL~~~~atVtv~hs~--- 191 (297)
T PRK14186 129 ----RLV-K------GEP-GLRS--CTPAGVMRLLRSQQIDIAGKKAVVVGRSILVGKPLALMLLAANATVTIAHSR--- 191 (297)
T ss_pred ----HHh-C------CCC-CCCC--CCHHHHHHHHHHhCCCCCCCEEEEECCCccchHHHHHHHHHCCCEEEEeCCC---
Confidence 222 1 322 2444 57889988887653 46788777654 444556888899999888544221
Q ss_pred cCCCChHHHHHHhCCCCEEEEeCH
Q 024727 214 PVHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
+.. +.+...+.|+|+-.-+
T Consensus 192 --T~~---l~~~~~~ADIvIsAvG 210 (297)
T PRK14186 192 --TQD---LASITREADILVAAAG 210 (297)
T ss_pred --CCC---HHHHHhhCCEEEEccC
Confidence 111 2222357888876655
No 457
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=37.13 E-value=1.7e+02 Score=26.21 Aligned_cols=77 Identities=18% Similarity=0.178 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHcCCC-CcEEEEeCh-----hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcC
Q 024727 113 AGSVFLEAWKEAGTP-NVRIGVVGA-----GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPAS 186 (263)
Q Consensus 113 aV~~~~~~l~~~~~~-~~~i~aVG~-----~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g 186 (263)
+|+..++...+..-. +.++|+.|+ ..-+.|++. |+.+ +.+ .+.+ +.+..+++|+
T Consensus 12 GV~rAi~~a~~~~~~~~~~vy~lG~iIHN~~vv~~L~~~------Gv~~--v~~-------~~~~-----~~g~~ViirA 71 (281)
T PF02401_consen 12 GVKRAIEIAEEALEEYPGPVYTLGPIIHNPQVVERLEKR------GVKV--VDD-------IDEV-----PEGDTVIIRA 71 (281)
T ss_dssp HHHHHHHHHHHHCCCHSS-EEECS-SSS-HHHHHHHHHC------TEEE--ESS-------GCGS------TTEEEEE-T
T ss_pred cHHHHHHHHHHHHHhcCCCEEEecCcccCHHHHHHHHHC------CCEE--ecC-------cccc-----CCCCEEEEeC
Confidence 555566655554222 349999986 667889999 9975 221 0122 2467888888
Q ss_pred CCCchhHHHHHHhCCCeeeEEee
Q 024727 187 AKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 187 ~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
=+..+...+.|+++|.+|....|
T Consensus 72 HGv~~~~~~~l~~~g~~viDaTC 94 (281)
T PF02401_consen 72 HGVPPEVYEELKERGLEVIDATC 94 (281)
T ss_dssp T---HHHHHHHHHTTEEEEE---
T ss_pred CCCCHHHHHHHHHcCCEEEECCC
Confidence 88888899999999987766555
No 458
>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=37.09 E-value=2.6e+02 Score=25.26 Aligned_cols=80 Identities=13% Similarity=0.058 Sum_probs=48.7
Q ss_pred CCeEEEeCCCC-----ChHHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEe-CHHHHHHHHHHHH
Q 024727 50 NPKVVVTRERG-----KNGKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIIT-SPEAGSVFLEAWK 122 (263)
Q Consensus 50 g~~ILitr~~~-----~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~l~~~d~IiFT-S~~aV~~~~~~l~ 122 (263)
.++|.+..... ..+.+.+.+++.|.++.....+..- ..|. ..+.+.. ..+.|.|++. .......|++.+.
T Consensus 140 ~~kvaiv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~-~~D~~~~v~~i~--~~~pd~V~~~~~~~~~~~~~~~~~ 216 (351)
T cd06334 140 GKKIALVYHDSPFGKEPIEALKALAEKLGFEVVLEPVPPPG-PNDQKAQWLQIR--RSGPDYVILWGWGVMNPVAIKEAK 216 (351)
T ss_pred CCeEEEEeCCCccchhhHHHHHHHHHHcCCeeeeeccCCCC-cccHHHHHHHHH--HcCCCEEEEecccchHHHHHHHHH
Confidence 57777765432 3456778889999988765444321 1232 2333322 2568888654 5556777888888
Q ss_pred HcCCCCcEEEE
Q 024727 123 EAGTPNVRIGV 133 (263)
Q Consensus 123 ~~~~~~~~i~a 133 (263)
+.+++ .+++.
T Consensus 217 ~~G~~-~~~~~ 226 (351)
T cd06334 217 RVGLD-DKFIG 226 (351)
T ss_pred HcCCC-ceEEE
Confidence 88874 45543
No 459
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=37.07 E-value=35 Score=26.28 Aligned_cols=81 Identities=21% Similarity=0.263 Sum_probs=0.0
Q ss_pred HHHHHHHHhCCCcEEEeceEE----eeeCCCchHHHHHHhcC--CCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeC-
Q 024727 63 GKLIKALAKHRIDCLELPLIQ----HAQGPDTDRLSSVLNAD--TIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVG- 135 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~----~~~~~~~~~l~~~l~~l--~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG- 135 (263)
..+.+.|++.|+.+...|... .+...|..-....+... ..+|.+++-|+- .-|...+....-.+.++.++|
T Consensus 50 ~~~~~~L~~~g~~v~~~~~~~~~~~~k~~~D~~l~~d~~~~~~~~~~d~ivLvSgD--~Df~~~v~~l~~~g~~V~v~~~ 127 (146)
T PF01936_consen 50 KSFQEALQRAGIKVRHFPLRKRGGGGKKGVDVALAVDILELAYENPPDTIVLVSGD--SDFAPLVRKLRERGKRVIVVGA 127 (146)
T ss_dssp HHHHHHHHHHT-EEEE------S---S---HHHHHHHHHHHG--GG-SEEEEE-----GGGHHHHHHHHHH--EEEEEE-
T ss_pred hhHHHHHHhCeeeEEeeecccccccccCCcHHHHHHHHHHHhhccCCCEEEEEECc--HHHHHHHHHHHHcCCEEEEEEe
Q ss_pred -hhHHHHHHHh
Q 024727 136 -AGTASIFEEV 145 (263)
Q Consensus 136 -~~Ta~~L~~~ 145 (263)
..+.+.|++.
T Consensus 128 ~~~~s~~L~~~ 138 (146)
T PF01936_consen 128 EDSASEALRSA 138 (146)
T ss_dssp GGGS-HHHHHH
T ss_pred CCCCCHHHHHh
No 460
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=37.05 E-value=1.9e+02 Score=27.29 Aligned_cols=118 Identities=13% Similarity=0.027 Sum_probs=65.5
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeCh----
Q 024727 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGA---- 136 (263)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~---- 136 (263)
....+.+.+++.|.....=+ +++.. .+.-..+|==..|++...+.+.. ..+.++|+.|+
T Consensus 18 ~~~~~~~~~~~~~~~~~~~~-m~I~l--------------A~~~GFC~GV~RAI~~a~~~~~~--~~~~~vytlG~IIHN 80 (387)
T PRK13371 18 YQSSLIQSIRENGYVLQFGD-VTIKL--------------ARAFGFCWGVERAVAMAYETRRH--FPDERIWITNEIIHN 80 (387)
T ss_pred HhHHHHHHHHhCCCeeeeCC-eEEEE--------------eCCCCCCccHHHHHHHHHHHHhh--cCCCCeEEecCCcCC
Confidence 34567777777664443333 33321 11222333233444444443222 13568999886
Q ss_pred -hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEee
Q 024727 137 -GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 137 -~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
..-+.|++. |+...--.+. .+. ++.+ +.+.++++++=+..+...+.|+++|+++....|
T Consensus 81 p~Vv~~L~~~------Gv~~v~~~~~--~~~-~~~v-----~~~~~VIIrAHGv~~~v~~~~~~rgl~iiDATC 140 (387)
T PRK13371 81 PSVNQHLREM------GVRFIPVEKG--VKD-FSVV-----TPGDVVILPAFGATVQEMQLLNEKGCHIVDTTC 140 (387)
T ss_pred HHHHHHHHhC------CCEEEcCcCc--ccc-hhcC-----CCCCEEEEeCCCCCHHHHHHHHHCCCeEEecCC
Confidence 556789999 9975211110 001 1222 224577888888888889999999987765544
No 461
>PRK07392 threonine-phosphate decarboxylase; Validated
Probab=36.99 E-value=2.5e+02 Score=25.34 Aligned_cols=12 Identities=25% Similarity=0.454 Sum_probs=5.3
Q ss_pred EEeChhHHHHHH
Q 024727 132 GVVGAGTASIFE 143 (263)
Q Consensus 132 ~aVG~~Ta~~L~ 143 (263)
++++.++.+.+.
T Consensus 77 I~it~G~~~~i~ 88 (360)
T PRK07392 77 ILPGNGAAELLT 88 (360)
T ss_pred EEECCCHHHHHH
Confidence 334444444444
No 462
>PRK06841 short chain dehydrogenase; Provisional
Probab=36.91 E-value=2e+02 Score=24.12 Aligned_cols=84 Identities=14% Similarity=0.098 Sum_probs=45.8
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCcc--EEEEeCHHHHHHHHHHHHH
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFD--WIIITSPEAGSVFLEAWKE 123 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d--~IiFTS~~aV~~~~~~l~~ 123 (263)
++.|++||||....+ ...+++.|.+.|++++..- +. .+.......+.. .... ..=+++..+++.+++.+.+
T Consensus 12 ~~~~k~vlItGas~~IG~~la~~l~~~G~~Vi~~~--r~---~~~~~~~~~~~~-~~~~~~~~Dl~~~~~~~~~~~~~~~ 85 (255)
T PRK06841 12 DLSGKVAVVTGGASGIGHAIAELFAAKGARVALLD--RS---EDVAEVAAQLLG-GNAKGLVCDVSDSQSVEAAVAAVIS 85 (255)
T ss_pred CCCCCEEEEECCCChHHHHHHHHHHHCCCEEEEEe--CC---HHHHHHHHHhhC-CceEEEEecCCCHHHHHHHHHHHHH
Confidence 467999999987543 5678899999998765431 11 111111111111 1111 1224678888887776654
Q ss_pred c-CCCCcEEEEeCh
Q 024727 124 A-GTPNVRIGVVGA 136 (263)
Q Consensus 124 ~-~~~~~~i~aVG~ 136 (263)
. +.-+.-|.+.|.
T Consensus 86 ~~~~~d~vi~~ag~ 99 (255)
T PRK06841 86 AFGRIDILVNSAGV 99 (255)
T ss_pred HhCCCCEEEECCCC
Confidence 3 112444555553
No 463
>PF06283 ThuA: Trehalose utilisation; PDB: 4E5V_A 1T0B_A.
Probab=36.91 E-value=34 Score=28.92 Aligned_cols=51 Identities=20% Similarity=0.179 Sum_probs=24.5
Q ss_pred EEEEEcCCC----------CchhHHHHHH-hCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEEeCHH
Q 024727 180 TVLYPASAK----------ASNEIEEGLS-NRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (263)
Q Consensus 180 ~vL~~~g~~----------~~~~L~~~L~-~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvFtS~s 238 (263)
|||++.|.. ..+.|.+.|+ ..|++|+...-.. .... +.++++|+|||.+..
T Consensus 1 kvLi~~g~~~~~~h~~~~~~~~~l~~ll~~~~~~~v~~~~~~~----~~~~----~~L~~~Dvvv~~~~~ 62 (217)
T PF06283_consen 1 KVLIFSGGWSGYRHDSIPAAKKALAQLLEESEGFEVTVTEDPD----DLTP----ENLKGYDVVVFYNTG 62 (217)
T ss_dssp EEEEEES-SHHHCSHHHHHHHHHHHHHHHHTTCEEEEECCSGG----CTSH----HCHCT-SEEEEE-SS
T ss_pred CEEEEeCCcCCccCccHHHHHHHHHHHhccCCCEEEEEEeCcc----cCCh----hHhcCCCEEEEECCC
Confidence 567777761 2355666676 5666553222211 1111 124678888776553
No 464
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=36.91 E-value=1.2e+02 Score=26.97 Aligned_cols=75 Identities=13% Similarity=0.096 Sum_probs=45.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~~ 137 (263)
+-+.+.|+++|.++............+ .+.++..+..-..+|+|++++-..+...++.+.+.+. +++.+++.+..
T Consensus 198 ~Gf~~~l~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~a~g~~~al~~~g~~ip~dv~vvgfD~~ 277 (341)
T PRK10703 198 AGFMKAMEEANIKVPEEWIVQGDFEPESGYEAMQQILSQKHRPTAVFCGGDIMAMGAICAADEMGLRVPQDISVIGYDNV 277 (341)
T ss_pred HHHHHHHHHcCCCCChHHeEeCCCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHcCCCCCCceEEEEECCC
Confidence 345667788887654322222111111 1234455544446899999988888788888888774 36778888654
No 465
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=36.87 E-value=86 Score=24.84 Aligned_cols=65 Identities=9% Similarity=0.074 Sum_probs=42.0
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCCCCCcEEEEEcCCC-----CchhHHHHHHhCCCeeeEEeeecc
Q 024727 139 ASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTT 212 (263)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~~~vY~~ 212 (263)
+..|++. |+.+...+...+.+.+++...+.. -.++-+.+-. .-..+.+.|+++|..-..+.+=-.
T Consensus 22 ~~~l~~~------GfeVi~LG~~v~~e~~v~aa~~~~---adiVglS~l~~~~~~~~~~~~~~l~~~gl~~~~vivGG~ 91 (134)
T TIGR01501 22 DHAFTNA------GFNVVNLGVLSPQEEFIKAAIETK---ADAILVSSLYGHGEIDCKGLRQKCDEAGLEGILLYVGGN 91 (134)
T ss_pred HHHHHHC------CCEEEECCCCCCHHHHHHHHHHcC---CCEEEEecccccCHHHHHHHHHHHHHCCCCCCEEEecCC
Confidence 4577777 898888888888888888887653 3344444422 235567788888875433444443
No 466
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=36.80 E-value=3e+02 Score=25.09 Aligned_cols=137 Identities=16% Similarity=0.099 Sum_probs=73.7
Q ss_pred CCccEEEEeC-HHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCce--ee-cCC-CCCHHHHHHHhccCC
Q 024727 101 TIFDWIIITS-PEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDV--AF-SPS-KATGKILASELPKNG 175 (263)
Q Consensus 101 ~~~d~IiFTS-~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~--~~-~p~-~~t~e~L~~~l~~~~ 175 (263)
...+.|+=.. +.........+.+. ++..+..+..+.. +... |... -. .|. ......+++.+.+..
T Consensus 77 ~~V~~vvG~~~S~~~~a~~~v~~~~---~i~~i~p~st~~~-~~~~------~~~~~vfr~~~~~~~q~~~~~~~l~~~~ 146 (366)
T COG0683 77 DGVDAVVGPTTSGVALAASPVAEEA---GVPLISPSATAPQ-LTGR------GLKPNVFRTGPTDNQQAAAAADYLVKKG 146 (366)
T ss_pred cCceEEEEeccCcccccchhhHhhc---CceEEeecCCCCc-cccc------ccccceEEecCChHHHHHHHHHHHHHhc
Confidence 5566666433 33333344444432 3444444432333 5544 4432 22 232 244566777777655
Q ss_pred CCCcEEEEEcCCCC-----chhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCHHHHHHHHHHhc
Q 024727 176 KKKCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSSWVNLI 248 (263)
Q Consensus 176 ~~~~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~s~v~~~~~~~~ 248 (263)
.+ +++.++..+.. .+.+.+.|++.|.++..-..|.....+ ...+...+ .++|+|++++...--..|++.+
T Consensus 147 ~~-k~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~~--~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~ 223 (366)
T COG0683 147 GK-KRVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDTD--FSALVAKIKAAGPDAVLVGGYGPDAALFLRQA 223 (366)
T ss_pred CC-cEEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCCC--hHHHHHHHHhcCCCEEEECCCCccchHHHHHH
Confidence 33 57777776543 678889999999985444667655544 22233333 4889777766543322455555
Q ss_pred cc
Q 024727 249 SD 250 (263)
Q Consensus 249 ~~ 250 (263)
.+
T Consensus 224 ~~ 225 (366)
T COG0683 224 RE 225 (366)
T ss_pred HH
Confidence 43
No 467
>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=36.76 E-value=2.1e+02 Score=25.00 Aligned_cols=60 Identities=13% Similarity=0.097 Sum_probs=27.4
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeC-HHHHHHHHHHHHHcCC
Q 024727 64 KLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITS-PEAGSVFLEAWKEAGT 126 (263)
Q Consensus 64 ~l~~~L~~~G~~v~~~p~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS-~~aV~~~~~~l~~~~~ 126 (263)
.+.+.+++.|.++.....+.... .+. ..+.+.+ ....|.|++.+ ....-.+++.+.+.++
T Consensus 152 ~~~~~~~~~G~~v~~~~~~~~~~-~d~~~~~~~l~--~~~pdaIi~~~~~~~~~~~~~~l~~~g~ 213 (312)
T cd06333 152 ELKALAPKYGIEVVADERYGRTD-TSVTAQLLKIR--AARPDAVLIWGSGTPAALPAKNLRERGY 213 (312)
T ss_pred HHHHHHHHcCCEEEEEEeeCCCC-cCHHHHHHHHH--hCCCCEEEEecCCcHHHHHHHHHHHcCC
Confidence 45566667777665432222110 111 1222211 13467776665 3333446666666554
No 468
>PRK12359 flavodoxin FldB; Provisional
Probab=36.69 E-value=2.4e+02 Score=23.18 Aligned_cols=70 Identities=10% Similarity=0.089 Sum_probs=41.1
Q ss_pred cEEEEeChhHHHHHHHhhhhcCCCCceeecCCC------CCHHHHHHHhccCCCCCcEEEEEcCCCCc----------hh
Q 024727 129 VRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK------ATGKILASELPKNGKKKCTVLYPASAKAS----------NE 192 (263)
Q Consensus 129 ~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~------~t~e~L~~~l~~~~~~~~~vL~~~g~~~~----------~~ 192 (263)
..+.-+...+...+.++ .+-..-.|.- .+...++..|.+...+|+++.++.-.... ..
T Consensus 30 v~v~~i~~~~~~~l~~y------D~iIlG~pTw~~Gel~~d~~~~~~~l~~~dl~gK~vAlFG~Gd~~~y~~~f~~a~~~ 103 (172)
T PRK12359 30 VDLHNLKDDPPKLMEQY------DVLILGIPTWDFGEIQEDWEAVWDQLDDLNLEGKIVALYGMGDQLGYGEWFLDALGM 103 (172)
T ss_pred EEEEEcccCChhHHccC------CEEEEEecccCCCcCcHHHHHHHHHHhhCCCCCCEEEEEeCCCCccchHHHHHHHHH
Confidence 45666666666666665 4333223321 13455666676655567887766533321 35
Q ss_pred HHHHHHhCCCee
Q 024727 193 IEEGLSNRGFEV 204 (263)
Q Consensus 193 L~~~L~~~G~~v 204 (263)
|.+.|++.|+++
T Consensus 104 l~~~l~~~Ga~i 115 (172)
T PRK12359 104 LHDKLAPKGVKF 115 (172)
T ss_pred HHHHHHhCCCeE
Confidence 888888888875
No 469
>TIGR01862 N2-ase-Ialpha nitrogenase component I, alpha chain. This model represents the alpha chain of all three varieties (Mo-Fe, V-Fe, and Fe-Fe) of component I of nitrogenase.
Probab=36.68 E-value=3.8e+02 Score=25.47 Aligned_cols=139 Identities=13% Similarity=0.067 Sum_probs=73.5
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeCh-h
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGA-G 137 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~-~~~~~~i~aVG~-~ 137 (263)
...+++.+.|++.|+++.... ..-...++ ++++.+...-|..++.......+.|++. +.+-...--+|. .
T Consensus 204 ~d~~el~~lL~~~Gl~v~~~~----~~~~t~ee----i~~~~~A~lniv~~~~~~~~~A~~L~er~GiP~~~~~p~G~~~ 275 (443)
T TIGR01862 204 GDAWVMRIYLEEMGIQVVATF----TGDGTYDE----IRLMHKAKLNLVHCARSANYIANELEERYGIPWMKIDFFGFTY 275 (443)
T ss_pred ccHHHHHHHHHHcCCeEEEEE----CCCCCHHH----HHhcccCCEEEEEChHHHHHHHHHHHHHhCCCeEecccCCHHH
Confidence 456799999999999987421 11112232 3355666676666766656666666653 333111112454 3
Q ss_pred HHHHHHHhhhhcCCCCcee---ecCCCCCHHHHHHHhccC--CCCCcEEEEEcCCCCchhHHH-HHHhCCCeeeEEeee
Q 024727 138 TASIFEEVIQSSKCSLDVA---FSPSKATGKILASELPKN--GKKKCTVLYPASAKASNEIEE-GLSNRGFEVVRLNTY 210 (263)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~---~~p~~~t~e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~-~L~~~G~~v~~~~vY 210 (263)
|.+.|++.. .+.|+... +.++ .-+...+.+.+. ...|+++.+..+....-.+.. .|.+.|.++..+..+
T Consensus 276 t~~~l~~la--~~~gi~~~~e~~i~~--~~~~~~~~l~~~~~~l~gkrvai~~~~~~~~~~~~~ll~elGm~v~~~~~~ 350 (443)
T TIGR01862 276 TAESLRAIA--AFFGIEKRAEEVIAE--EKAKWKPELDYYKERLQGKRVCLYIGGSRLWHWIGSAEEDLGMEVVAVGYE 350 (443)
T ss_pred HHHHHHHHH--HHhCCcHHHHHHHHH--HHHHHHHHHHHHHHHhcCCeEEEECCchhHHHHHHHHHHHCCCEEEEeccc
Confidence 556665541 11253221 0010 001111222221 135788888766554445666 788999998777554
No 470
>PTZ00110 helicase; Provisional
Probab=36.64 E-value=1.8e+02 Score=28.52 Aligned_cols=40 Identities=15% Similarity=0.122 Sum_probs=23.3
Q ss_pred HHHHHHhccCCCCCcEEEEEcC-CCCchhHHHHHHhCCCee
Q 024727 165 KILASELPKNGKKKCTVLYPAS-AKASNEIEEGLSNRGFEV 204 (263)
Q Consensus 165 e~L~~~l~~~~~~~~~vL~~~g-~~~~~~L~~~L~~~G~~v 204 (263)
..|.+.+......+.++|+++. ...-+.|.+.|+..|+.+
T Consensus 364 ~~L~~ll~~~~~~~~k~LIF~~t~~~a~~l~~~L~~~g~~~ 404 (545)
T PTZ00110 364 GKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPA 404 (545)
T ss_pred HHHHHHHHHhcccCCeEEEEecChHHHHHHHHHHHHcCCcE
Confidence 3344444433323455555554 455678888998888765
No 471
>PLN03026 histidinol-phosphate aminotransferase; Provisional
Probab=36.61 E-value=2.9e+02 Score=25.37 Aligned_cols=12 Identities=25% Similarity=0.445 Sum_probs=5.2
Q ss_pred HHhCCCeeeEEe
Q 024727 197 LSNRGFEVVRLN 208 (263)
Q Consensus 197 L~~~G~~v~~~~ 208 (263)
.+..|+++..++
T Consensus 144 ~~~~g~~~~~v~ 155 (380)
T PLN03026 144 AAVNGAEVIKVP 155 (380)
T ss_pred HHHcCCEEEEee
Confidence 344454444433
No 472
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=36.59 E-value=1.2e+02 Score=24.14 Aligned_cols=53 Identities=11% Similarity=0.139 Sum_probs=0.0
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhC-CCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeC
Q 024727 48 NSNPKVVVTRERGKNGKLIKALAKH-RIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITS 110 (263)
Q Consensus 48 l~g~~ILitr~~~~~~~l~~~L~~~-G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS 110 (263)
|.|-+|.-|... .+.|++. |+.+..+ ...+.....++...+ .-+++|.||+|.
T Consensus 30 l~Gf~l~AT~gT------a~~L~~~~Gi~v~~v---i~~~~gg~~~i~~~I-~~g~i~lVInt~ 83 (142)
T PRK05234 30 LEQHELYATGTT------GGLIQEATGLDVTRL---LSGPLGGDQQIGALI-AEGKIDMLIFFR 83 (142)
T ss_pred hcCCEEEEeChH------HHHHHhccCCeeEEE---EcCCCCCchhHHHHH-HcCceeEEEEec
No 473
>TIGR01279 DPOR_bchN light-independent protochlorophyllide reductase, N subunit. This enzyme describes the N subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme involved in bacteriochlorophyll biosynthesis. This subunit shows homology to the nitrogenase molybdenum-iron protein NifN.
Probab=36.57 E-value=2.2e+02 Score=26.66 Aligned_cols=129 Identities=14% Similarity=0.101 Sum_probs=0.0
Q ss_pred HHHHHHHHhCCCcEE-EeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeCh-----
Q 024727 63 GKLIKALAKHRIDCL-ELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGA----- 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~-~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~----- 136 (263)
.++.+.|++.|.++. .+|-..+...+. ......++-.++.+-. ..+.+++.. +++++..+-
T Consensus 168 ~elk~lL~~~Gi~v~~~lpd~~~~e~~~----------~~~~~~~~~~~~~~~~-~A~~Le~~~--GiP~~~~~~PiGi~ 234 (407)
T TIGR01279 168 DQLRLELKQLGIPVVGFLPASHFTELPV----------IGPGTVVAPLQPYLSD-TATTLRRER--GAKVLSAPFPFGPD 234 (407)
T ss_pred HHHHHHHHHcCCeEEEEeCCCCcchhhh----------cCCCeEEEEechHHHH-HHHHHHHHh--CCccccCCCCcCHH
Q ss_pred hHHHHHHHhhhhcCCCCcee-ecCCCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCCCeeeEE
Q 024727 137 GTASIFEEVIQSSKCSLDVA-FSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRL 207 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~-~~p~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~ 207 (263)
.|.+.|++. ..+.|..++ +..+..-...-+....... .|+++++..+..-.--+...|.+.|+++..+
T Consensus 235 ~T~~~l~~l--a~~~g~~~~~~~~e~~~~~~~l~~~~~~l-~Gkrv~i~gd~~~~~~l~~~L~elGm~~v~~ 303 (407)
T TIGR01279 235 GTRRFLEAI--AAEFGIEVDKLSEREAQAWRALEPHTQLL-RGKKIFFFGDNLLELPLARFLKRCGMEVVEC 303 (407)
T ss_pred HHHHHHHHH--HHHhCcCHHHHHHHHHHHHHHHHHHHHhc-CCCEEEEECCchHHHHHHHHHHHCCCEEEEe
No 474
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=36.56 E-value=1.2e+02 Score=28.20 Aligned_cols=95 Identities=15% Similarity=0.070 Sum_probs=55.4
Q ss_pred CCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC
Q 024727 46 ASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG 125 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~ 125 (263)
..+.|++|.+.-.....-.+.+.|.+.|+++...-. +..+.+.....++.+. .+..|....+. .-+.+.+.+..
T Consensus 272 ~~l~Gkrv~i~g~~~~~~~la~~L~elGm~vv~~~t----~~~~~~~~~~~~~~l~-~~~~v~~~~d~-~~l~~~i~~~~ 345 (396)
T cd01979 272 DLLRGKSIFFMGDNLLEIPLARFLTRCGMIVVEVGT----PYLDKRFQAAELELLP-PMVRIVEKPDN-YRQLDRIRELR 345 (396)
T ss_pred HhhcCCEEEEECCchHHHHHHHHHHHCCCEEEeeCC----CcCChHHHHHHHHhcC-CCCeEEECCCH-HHHHHHHHhcC
Confidence 357899999886665677899999999999987521 1112222223333333 34545443333 22334444443
Q ss_pred CCCcEEEEeChhHHHHHHHhhhhcCCCCce
Q 024727 126 TPNVRIGVVGAGTASIFEEVIQSSKCSLDV 155 (263)
Q Consensus 126 ~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~ 155 (263)
..++.-|...+.-|... |+.+
T Consensus 346 ---pDlli~~~~~a~pl~r~------G~P~ 366 (396)
T cd01979 346 ---PDLVVTGLGLANPLEAR------GITT 366 (396)
T ss_pred ---CCEEEecccccCcHHhC------CCcc
Confidence 33444466666778888 8865
No 475
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=36.37 E-value=2.7e+02 Score=24.99 Aligned_cols=65 Identities=14% Similarity=0.073 Sum_probs=32.6
Q ss_pred hHHHHHHHHhCCCc--EEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC
Q 024727 62 NGKLIKALAKHRID--CLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT 126 (263)
Q Consensus 62 ~~~l~~~L~~~G~~--v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~ 126 (263)
.+.+.+.+++.|.. +...-.+......+...+...++..+.--.|++.+......++..+.+.++
T Consensus 153 ~~~l~~~l~~~g~~~~i~~~~~~~~~~~~~~~~~l~~l~~~~~~vivl~~~~~~~~~il~~a~~~g~ 219 (362)
T cd06367 153 LDRVETTLEESFVGWEFQLVLTLDLSDDDGDARLLRQLKKLESRVILLYCSKEEAERIFEAAASLGL 219 (362)
T ss_pred HHHHHHHHHhcccceeeeeeEEeccCCCcchHHHHHHHHhcCCcEEEEeCCHHHHHHHHHHHHHcCC
Confidence 45677777777776 333222222111122333334433333333455666666777777776665
No 476
>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=36.20 E-value=3.1e+02 Score=24.35 Aligned_cols=141 Identities=16% Similarity=0.090 Sum_probs=71.6
Q ss_pred CCccEEEEe-CHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCC-CCCHHHHHHHhccCCCCC
Q 024727 101 TIFDWIIIT-SPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKK 178 (263)
Q Consensus 101 ~~~d~IiFT-S~~aV~~~~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~~ 178 (263)
++.++|+=. ++.........+.+. +++++..|..+ ..+...- ....-....|. ......+++.+.+. .-
T Consensus 65 ~~v~~viG~~~s~~~~a~~~~~~~~---~ip~i~~~~~~-~~l~~~~---~~~~~~r~~p~~~~~~~a~~~~~~~~--~~ 135 (350)
T cd06366 65 KPVVAIIGPQCSSVAEFVAEVANEW---NVPVLSFAATS-PSLSSRL---QYPYFFRTTPSDSSQNPAIAALLKKF--GW 135 (350)
T ss_pred CCceEEECCCcHHHHHHHHHHhhcC---CeeEEeccCCC-ccccccc---cCCceEEcccchHhHHHHHHHHHHHC--CC
Confidence 356666642 334444444544433 56666666433 3331110 00111112232 23456666666543 23
Q ss_pred cEEEEEcCCC-----CchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh--CCCCEEEE-eCHHHHHHHHHHhccc
Q 024727 179 CTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAV-ASPSAVRSSWVNLISD 250 (263)
Q Consensus 179 ~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvF-tS~s~v~~~~~~~~~~ 250 (263)
+++.++..+. ..+.+.+.+++.|++|.....|.......+.......+ .+.|+|++ .++..+. .|++.+.+
T Consensus 136 ~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~-~~~~~a~~ 214 (350)
T cd06366 136 RRVATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLAR-RVFCEAYK 214 (350)
T ss_pred cEEEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHH-HHHHHHHH
Confidence 6777665433 24678888999999887666665432112222223333 36887775 4445566 67776654
Q ss_pred c
Q 024727 251 T 251 (263)
Q Consensus 251 ~ 251 (263)
.
T Consensus 215 ~ 215 (350)
T cd06366 215 L 215 (350)
T ss_pred c
Confidence 3
No 477
>TIGR02539 SepCysS Sep-tRNA:Cys-tRNA synthase. Aminoacylation of tRNA(Cys) with Cys, and cysteine biosynthesis in the process, happens in Methanocaldococcus jannaschii and several other archaea by misacylation of tRNA(Cys) with O-phosphoserine (Sep), followed by modification of the phosphoserine to cysteine. In some species, direct tRNA-cys aminoacylation also occurs but this pathway is required for Cys biosynthesis. Members of this protein catalyze the second step in this two step pathway, using pyridoxal phosphate and a sulfur donor to synthesize Cys from Sep while attached to the tRNA.
Probab=36.17 E-value=2.6e+02 Score=25.46 Aligned_cols=61 Identities=8% Similarity=-0.063 Sum_probs=31.1
Q ss_pred CCCcEEEEEcCCCCchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhC--------CCCEEEEeCHH
Q 024727 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--------SIPVVAVASPS 238 (263)
Q Consensus 176 ~~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~--------~~d~vvFtS~s 238 (263)
.+|++|++........ .+.++..|+++..++......-..+.+++.+.+. +...|++++|.
T Consensus 88 ~~gd~Vl~~~~~h~s~--~~~~~~~g~~~~~~~~~~~~~~~~d~~~l~~~l~~~~~~~~~~~~lv~~~~p~ 156 (370)
T TIGR02539 88 KEGDWVVLDGLAHYTS--YVAAERAGLNVKEVPHTGHPEYKVDPEGYGEVIEEVEDESGKPPVLALLTHVD 156 (370)
T ss_pred CCCCEEEECCcccHHH--HHHHHHcCCEEEEEecCCcccCCcCHHHHHHHHHHhhhccCCCcEEEEEECCC
Confidence 4567777755554332 2566777887766664211111123334433331 45577776664
No 478
>PRK07856 short chain dehydrogenase; Provisional
Probab=36.08 E-value=2.1e+02 Score=24.11 Aligned_cols=33 Identities=12% Similarity=0.072 Sum_probs=26.0
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024727 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (263)
Q Consensus 47 ~l~g~~ILitr~~~~-~~~l~~~L~~~G~~v~~~ 79 (263)
++.|++++||....+ ...+++.|.+.|++++.+
T Consensus 3 ~~~~k~~lItGas~gIG~~la~~l~~~g~~v~~~ 36 (252)
T PRK07856 3 DLTGRVVLVTGGTRGIGAGIARAFLAAGATVVVC 36 (252)
T ss_pred CCCCCEEEEeCCCchHHHHHHHHHHHCCCEEEEE
Confidence 477999999987654 467899999999877543
No 479
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=35.87 E-value=83 Score=26.73 Aligned_cols=74 Identities=16% Similarity=0.071 Sum_probs=42.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCC-CchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeCh
Q 024727 63 GKLIKALAKHRIDCLELPLIQHAQGP-DTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGA 136 (263)
Q Consensus 63 ~~l~~~L~~~G~~v~~~p~~~~~~~~-~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~---~~~~i~aVG~ 136 (263)
.-+.+.++++|..+...-.+...... ..+.+++.+..-..+|+|+++|-......++.+.+.+. +++.+++.|.
T Consensus 136 ~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~ip~dv~iig~d~ 213 (269)
T cd06281 136 EGYKAAFAAAGLPPDPALVRLSTPAASGFDATRALLALPDRPTAIIAGGTQVLVGVLRALREAGLRIPRDLSVISIGD 213 (269)
T ss_pred HHHHHHHHHcCCCCCHHHeecCcHHHHHHHHHHHHHcCCCCCcEEEEcCcHHHHHHHHHHHHcCCCCCcceeEEEecC
Confidence 34567777888654211111111001 12334455543346899998887777777788887765 3677788774
No 480
>TIGR01286 nifK nitrogenase molybdenum-iron protein beta chain. This model represents the majority of known sequences of the nitrogenase molybdenum-iron protein beta subunit. A distinct clade in a phylogenetic tree contains molybdenum-iron, vanadium-iron, and iron-iron forms of nitrogenase beta subunit and is excluded from this model. Nitrogenase, also called dinitrogenase, is responsible for nitrogen fixation. Note: the trusted cutoff score has recently been lowered to include an additional family in which the beta subunit is shorter by about 50 amino acids at the N-terminus. In species with the shorter form of the beta subunit, the alpha subunit has a novel insert of similar length.
Probab=35.83 E-value=3.1e+02 Score=26.80 Aligned_cols=139 Identities=12% Similarity=0.066 Sum_probs=74.4
Q ss_pred CChHHHHHHHHhCCCcEEEeceEE------------eee-CCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC
Q 024727 60 GKNGKLIKALAKHRIDCLELPLIQ------------HAQ-GPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT 126 (263)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~p~~~------------~~~-~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~ 126 (263)
..-.++.+.|+..|+++..+|=+. +.+ ....+++. +..+...-+..++..-....+.+++..
T Consensus 234 gd~~eikrlL~~~Gi~~~~l~d~s~~~d~p~~g~~~~~~ggttleei~----~a~~A~~~ivl~~~~~~~~a~~l~~~~- 308 (515)
T TIGR01286 234 GNFREIKRILSLMGVGYTLLSDPEEVLDTPADGEFRMYAGGTTLEEMK----DAPNAEATVLLQPYTLRKTKEYIEKTW- 308 (515)
T ss_pred hhHHHHHHHHHHcCCCeEEccCccccccCCCCCCccccCCCCCHHHHH----HhhhCcEEEEEchhhhHHHHHHHHHHh-
Confidence 346899999999999999876321 111 11123332 344555555556654444555555421
Q ss_pred CCcEEEE----eC-hhHHHHHHHhhhhcCCCCceeecCCCCCH--HHHHHHhccC--CCCCcEEEEEcCCCCchhHHHHH
Q 024727 127 PNVRIGV----VG-AGTASIFEEVIQSSKCSLDVAFSPSKATG--KILASELPKN--GKKKCTVLYPASAKASNEIEEGL 197 (263)
Q Consensus 127 ~~~~i~a----VG-~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~--e~L~~~l~~~--~~~~~~vL~~~g~~~~~~L~~~L 197 (263)
+.+.+. +| ..|.+.|++. ....|..+ |+.... ..+++.|.+. ...|+|+.+..+..----+...|
T Consensus 309 -g~p~~~~~~PiGi~~Td~fL~~l--a~~~g~~i---p~~i~~eR~rl~dam~d~~~~l~GKrvaI~gdpd~~~~l~~fL 382 (515)
T TIGR01286 309 -KQETPKLNIPLGVKGTDEFLMKV--SEISGQPI---PAELTKERGRLVDAMTDSHAWLHGKRFAIYGDPDFVMGLVRFV 382 (515)
T ss_pred -CCCcccCCCCccHHHHHHHHHHH--HHHHCCCC---CHHHHHHHHHHHHHHHHHHHHhcCceEEEECCHHHHHHHHHHH
Confidence 122222 44 3466666655 12225432 221111 1244455432 13678988876555555567788
Q ss_pred HhCCCeeeEEee
Q 024727 198 SNRGFEVVRLNT 209 (263)
Q Consensus 198 ~~~G~~v~~~~v 209 (263)
.+.|.++..+.+
T Consensus 383 ~ElGmepv~v~~ 394 (515)
T TIGR01286 383 LELGCEPVHILC 394 (515)
T ss_pred HHCCCEEEEEEe
Confidence 899998855544
No 481
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=35.79 E-value=90 Score=28.57 Aligned_cols=70 Identities=11% Similarity=0.116 Sum_probs=47.7
Q ss_pred EeChhHHHHHHHhhhhcCCCCceeecCCC---CCHHHHHHHhccCCC---CCcEEEEEcCCCCchhHHHHHHhCCCeeeE
Q 024727 133 VVGAGTASIFEEVIQSSKCSLDVAFSPSK---ATGKILASELPKNGK---KKCTVLYPASAKASNEIEEGLSNRGFEVVR 206 (263)
Q Consensus 133 aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~---~t~e~L~~~l~~~~~---~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~ 206 (263)
||-+...+.|+.+ |+++.-.... .|++.++..+.+... ++-+++++.|-.--+.+.+.+++ |+
T Consensus 87 AVs~~yE~~Lks~------GitV~RigG~nR~ETa~~v~~~~~~~yp~af~n~kvvvv~GwDy~~~~~e~~k~-~~---- 155 (337)
T COG2247 87 AVSPNYENALKSL------GITVKRIGGANRYETAEKVAKFFREDYPNAFKNVKVVVVYGWDYADALMELMKE-GI---- 155 (337)
T ss_pred cCChhHHHHHHhC------CcEEEEecCcchHHHHHHHHHHHHhhchhhhcCeEEEEEeccccHHHHHHHHhc-Cc----
Confidence 5667888999998 9987654322 577888888875432 23478888887766567777766 65
Q ss_pred Eeeeccc
Q 024727 207 LNTYTTE 213 (263)
Q Consensus 207 ~~vY~~~ 213 (263)
+++|-+.
T Consensus 156 ~p~~~~n 162 (337)
T COG2247 156 VPVILKN 162 (337)
T ss_pred ceeEecc
Confidence 6666543
No 482
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=35.75 E-value=2.8e+02 Score=26.15 Aligned_cols=27 Identities=22% Similarity=0.528 Sum_probs=19.1
Q ss_pred CcEEEEEcCCCCchhHHHHHHhCCCee
Q 024727 178 KCTVLYPASAKASNEIEEGLSNRGFEV 204 (263)
Q Consensus 178 ~~~vL~~~g~~~~~~L~~~L~~~G~~v 204 (263)
+..++|......-+.+.+.|.+.|..+
T Consensus 243 ~~~lVF~~t~~~~~~l~~~L~~~~~~v 269 (460)
T PRK11776 243 ESCVVFCNTKKECQEVADALNAQGFSA 269 (460)
T ss_pred CceEEEECCHHHHHHHHHHHHhCCCcE
Confidence 345666666666788888888888765
No 483
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=35.74 E-value=1.8e+02 Score=21.36 Aligned_cols=76 Identities=13% Similarity=0.175 Sum_probs=41.3
Q ss_pred CCeEEEeCCCCC-----hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc
Q 024727 50 NPKVVVTRERGK-----NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA 124 (263)
Q Consensus 50 g~~ILitr~~~~-----~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~ 124 (263)
.++||+....+- ...+.+.++++|.++. +.... ..++... ..++|. |+++|.-...+ +.+++.
T Consensus 3 ~~~ILl~C~~G~sSS~l~~k~~~~~~~~gi~~~------v~a~~-~~~~~~~---~~~~Dv-ill~pqi~~~~-~~i~~~ 70 (95)
T TIGR00853 3 ETNILLLCAAGMSTSLLVNKMNKAAEEYGVPVK------IAAGS-YGAAGEK---LDDADV-VLLAPQVAYML-PDLKKE 70 (95)
T ss_pred ccEEEEECCCchhHHHHHHHHHHHHHHCCCcEE------EEEec-HHHHHhh---cCCCCE-EEECchHHHHH-HHHHHH
Confidence 468887776532 2456667778888743 22221 2223322 467884 45555544433 334433
Q ss_pred C-CCCcEEEEeChh
Q 024727 125 G-TPNVRIGVVGAG 137 (263)
Q Consensus 125 ~-~~~~~i~aVG~~ 137 (263)
. ..++++..|.+.
T Consensus 71 ~~~~~ipv~~I~~~ 84 (95)
T TIGR00853 71 TDKKGIPVEVINGA 84 (95)
T ss_pred hhhcCCCEEEeChh
Confidence 2 226788888764
No 484
>PRK07370 enoyl-(acyl carrier protein) reductase; Validated
Probab=35.66 E-value=2.8e+02 Score=23.66 Aligned_cols=87 Identities=9% Similarity=0.006 Sum_probs=47.3
Q ss_pred CCCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEeceEEeee-CCCchHHHHHHhcCCCccE--EEEeCHHHHHHHHHH
Q 024727 47 SNSNPKVVVTRER---GKNGKLIKALAKHRIDCLELPLIQHAQ-GPDTDRLSSVLNADTIFDW--IIITSPEAGSVFLEA 120 (263)
Q Consensus 47 ~l~g~~ILitr~~---~~~~~l~~~L~~~G~~v~~~p~~~~~~-~~~~~~l~~~l~~l~~~d~--IiFTS~~aV~~~~~~ 120 (263)
.+.|++++||... .=...+++.|.+.|++|... ++-.. ....+.+++.-.......+ .=+++..+++.+++.
T Consensus 3 ~l~~k~~lItGas~~~GIG~aia~~la~~G~~v~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dl~d~~~v~~~~~~ 80 (258)
T PRK07370 3 DLTGKKALVTGIANNRSIAWGIAQQLHAAGAELGIT--YLPDEKGRFEKKVRELTEPLNPSLFLPCDVQDDAQIEETFET 80 (258)
T ss_pred ccCCcEEEEeCCCCCCchHHHHHHHHHHCCCEEEEE--ecCcccchHHHHHHHHHhccCcceEeecCcCCHHHHHHHHHH
Confidence 4678999999853 44678999999999998543 11110 0111112221111111111 114788899988887
Q ss_pred HHHc-CCCCcEEEEeC
Q 024727 121 WKEA-GTPNVRIGVVG 135 (263)
Q Consensus 121 l~~~-~~~~~~i~aVG 135 (263)
+.+. +.-+.-|.+.|
T Consensus 81 ~~~~~g~iD~lv~nag 96 (258)
T PRK07370 81 IKQKWGKLDILVHCLA 96 (258)
T ss_pred HHHHcCCCCEEEEccc
Confidence 7553 22234444444
No 485
>PRK05670 anthranilate synthase component II; Provisional
Probab=35.60 E-value=2.5e+02 Score=23.03 Aligned_cols=82 Identities=20% Similarity=0.129 Sum_probs=49.6
Q ss_pred CCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEe----CHHHHHHHHHHHHHcCCCCcEEEE
Q 024727 58 ERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIIT----SPEAGSVFLEAWKEAGTPNVRIGV 133 (263)
Q Consensus 58 ~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFT----S~~aV~~~~~~l~~~~~~~~~i~a 133 (263)
...-...+.+.|+++|+++..+|.... +.+. +..+ ++|.||++ |+.......+.+... ..+++++.
T Consensus 8 ~d~f~~~i~~~l~~~g~~~~v~~~~~~----~~~~----~~~~-~~dglIlsgGpg~~~d~~~~~~~l~~~-~~~~PvLG 77 (189)
T PRK05670 8 YDSFTYNLVQYLGELGAEVVVYRNDEI----TLEE----IEAL-NPDAIVLSPGPGTPAEAGISLELIREF-AGKVPILG 77 (189)
T ss_pred CCchHHHHHHHHHHCCCcEEEEECCCC----CHHH----HHhC-CCCEEEEcCCCCChHHcchHHHHHHHh-cCCCCEEE
Confidence 344567899999999999988775432 1111 2233 48999997 665444444444432 24678887
Q ss_pred eChhHHHHHHHhhhhcCCCCce
Q 024727 134 VGAGTASIFEEVIQSSKCSLDV 155 (263)
Q Consensus 134 VG~~Ta~~L~~~~~~~~~G~~~ 155 (263)
|.-.-.-..... |-++
T Consensus 78 IClG~Qlla~al------Gg~v 93 (189)
T PRK05670 78 VCLGHQAIGEAF------GGKV 93 (189)
T ss_pred ECHHHHHHHHHh------CCEE
Confidence 766544444444 7665
No 486
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=35.25 E-value=1.6e+02 Score=28.41 Aligned_cols=46 Identities=15% Similarity=0.143 Sum_probs=26.4
Q ss_pred CchhHHHHHHhCC-CeeeEEeeeccccCCCChHHHHHHh--CCCCEEEEeCH
Q 024727 189 ASNEIEEGLSNRG-FEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASP 237 (263)
Q Consensus 189 ~~~~L~~~L~~~G-~~v~~~~vY~~~~~~~~~~~~~~~l--~~~d~vvFtS~ 237 (263)
+-..|...|++.| .+|.-+. ........+++.+.+ .++|+|.||+.
T Consensus 24 gl~~lAa~L~~~G~~~V~iiD---~~~~~~~~~~~~~~l~~~~pdvVgis~~ 72 (497)
T TIGR02026 24 WVAYIGGALLDAGYHDVTFLD---AMTGPLTDEKLVERLRAHCPDLVLITAI 72 (497)
T ss_pred HHHHHHHHHHhcCCcceEEec---ccccCCCHHHHHHHHHhcCcCEEEEecC
Confidence 3456777788888 4554443 333333334444433 37888888864
No 487
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=35.19 E-value=1.6e+02 Score=20.84 Aligned_cols=40 Identities=18% Similarity=0.326 Sum_probs=29.9
Q ss_pred CCCCHHHHHHHhccCCCCCcEEEEEcCCCCchhHHHHHHhCC
Q 024727 160 SKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRG 201 (263)
Q Consensus 160 ~~~t~e~L~~~l~~~~~~~~~vL~~~g~~~~~~L~~~L~~~G 201 (263)
.+.++.++++.|.+.. ++.+++++.+........+.+ +.|
T Consensus 54 ~~~~~~~~~~~i~~~~-~~~~ii~~t~~~~~~~~~~~~-~~g 93 (112)
T PF00072_consen 54 PDGDGLELLEQIRQIN-PSIPIIVVTDEDDSDEVQEAL-RAG 93 (112)
T ss_dssp SSSBHHHHHHHHHHHT-TTSEEEEEESSTSHHHHHHHH-HTT
T ss_pred cccccccccccccccc-ccccEEEecCCCCHHHHHHHH-HCC
Confidence 3478888888888766 568889888877767666666 565
No 488
>PRK14166 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=35.18 E-value=3.1e+02 Score=24.63 Aligned_cols=148 Identities=18% Similarity=0.133 Sum_probs=78.5
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HHH--HHHHHHHH-cCCCCcEEEEeCh
Q 024727 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AGS--VFLEAWKE-AGTPNVRIGVVGA 136 (263)
Q Consensus 65 l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV~--~~~~~l~~-~~~~~~~i~aVG~ 136 (263)
-.+..++.|+++..+.+-+. ...+++.+.++ +..+.|.|+.--|- .++ ..++.+.. ...|+..-+-.|
T Consensus 51 k~k~a~~~Gi~~~~~~l~~~---~t~~~l~~~I~~lN~D~~V~GIivq~PLP~~i~~~~i~~~I~p~KDVDGl~~~N~g- 126 (282)
T PRK14166 51 KAKACEECGIKSLVYHLNEN---TTQNELLALINTLNHDDSVHGILVQLPLPDHICKDLILESIISSKDVDGFHPINVG- 126 (282)
T ss_pred HHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhccCcccCcccCChhhhH-
Confidence 34456677988776655321 12234444443 44678899988772 221 12222211 112344333333
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhccCC--CCCcEEEEEc-CCCCchhHHHHHHhCCCeeeEEeeeccc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPA-SAKASNEIEEGLSNRGFEVVRLNTYTTE 213 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~~~~vL~~~-g~~~~~~L~~~L~~~G~~v~~~~vY~~~ 213 (263)
.|- . |....+.| -|+.+.++.|..+. ..|++++++. |.....-|...|.++|+.|+-+.-+.
T Consensus 127 ----~l~-~------g~~~~~~P--cTp~avi~lL~~y~i~l~Gk~vvVvGrS~iVGkPla~lL~~~~atVt~chs~T-- 191 (282)
T PRK14166 127 ----YLN-L------GLESGFLP--CTPLGVMKLLKAYEIDLEGKDAVIIGASNIVGRPMATMLLNAGATVSVCHIKT-- 191 (282)
T ss_pred ----HHh-c------CCCCCCcC--CCHHHHHHHHHHhCCCCCCCEEEEECCCCcchHHHHHHHHHCCCEEEEeCCCC--
Confidence 221 2 42222444 47888987777653 4678877664 44445568888988998886443222
Q ss_pred cCCCChHHHHHHhCCCCEEEEeCH
Q 024727 214 PVHHVDQTVLKQALSIPVVAVASP 237 (263)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~vvFtS~ 237 (263)
.. +.+.....|+++-.-+
T Consensus 192 ---~n---l~~~~~~ADIvIsAvG 209 (282)
T PRK14166 192 ---KD---LSLYTRQADLIIVAAG 209 (282)
T ss_pred ---CC---HHHHHhhCCEEEEcCC
Confidence 11 2222357777775544
No 489
>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=35.17 E-value=1.7e+02 Score=24.69 Aligned_cols=45 Identities=18% Similarity=0.136 Sum_probs=33.2
Q ss_pred HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeCh
Q 024727 92 RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGA 136 (263)
Q Consensus 92 ~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~aVG~ 136 (263)
.+.+.+....+.++|++++-.....+.+.+++.+.+++.+++.+.
T Consensus 171 ~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~di~v~g~d~ 215 (271)
T cd06321 171 VMQGLLTRFPKLDGVFAINDPTAIGADLAAKQAGRNDIKITSVDG 215 (271)
T ss_pred HHHHHHHhCCCCCEEEECCchhHHHHHHHHHHcCCCCcEEEEecC
Confidence 455555444568999998888887888888888877777777753
No 490
>PRK05942 aspartate aminotransferase; Provisional
Probab=35.16 E-value=2.8e+02 Score=25.48 Aligned_cols=31 Identities=19% Similarity=0.121 Sum_probs=13.7
Q ss_pred CCcEEEEEcCCCCchhHHHHHHhCCCeeeEEee
Q 024727 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 177 ~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
+|++|++....-.. ....++..|+++..+++
T Consensus 120 ~gd~Vlv~~P~y~~--~~~~~~~~g~~~~~v~~ 150 (394)
T PRK05942 120 PGDVVLVPSPAYPA--HFRGPLIAGAQIYPIIL 150 (394)
T ss_pred CCCEEEEcCCCCcc--hHHHHHHcCCEEEEeec
Confidence 44555555443221 22233445555555544
No 491
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=35.15 E-value=1.2e+02 Score=28.48 Aligned_cols=94 Identities=15% Similarity=0.178 Sum_probs=56.3
Q ss_pred CHHHHHHHhccCCC--CCcEEEEEcCCC------CchhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHhCCCCEEEE
Q 024727 163 TGKILASELPKNGK--KKCTVLYPASAK------ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAV 234 (263)
Q Consensus 163 t~e~L~~~l~~~~~--~~~~vL~~~g~~------~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l~~~d~vvF 234 (263)
+...+++.-.++.. ..++|.++-... -...+.+.|.+.|..|..+.+-.. ..+++.+.+.+.+++++
T Consensus 229 ~~~~i~~~Y~~W~~~~~~~~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~-----~~~eI~~~i~~a~~~vv 303 (388)
T COG0426 229 NPKEIVEAYRDWAEGQPKGKVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDA-----DPSEIVEEILDAKGLVV 303 (388)
T ss_pred CHHHHHHHHHHHHccCCcceEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccC-----CHHHHHHHHhhcceEEE
Confidence 45556655555431 223555554422 135677888999988755555433 34566776789999999
Q ss_pred eCHH-------HHHHHHHHhccccCCCCceEEEEC
Q 024727 235 ASPS-------AVRSSWVNLISDTEQWSNSVACIA 262 (263)
Q Consensus 235 tS~s-------~v~~~~~~~~~~~~~~~~~i~~IG 262 (263)
-||. .+. .++..+......+..+.+.|
T Consensus 304 GsPT~~~~~~p~i~-~~l~~v~~~~~~~k~~~vfg 337 (388)
T COG0426 304 GSPTINGGAHPPIQ-TALGYVLALAPKNKLAGVFG 337 (388)
T ss_pred ecCcccCCCCchHH-HHHHHHHhccCcCceEEEEe
Confidence 9996 355 55444433334556666665
No 492
>PRK09082 methionine aminotransferase; Validated
Probab=35.02 E-value=2.9e+02 Score=25.29 Aligned_cols=72 Identities=13% Similarity=0.115 Sum_probs=45.1
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH----------HHHHHHH
Q 024727 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP----------EAGSVFL 118 (263)
Q Consensus 49 ~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~----------~aV~~~~ 118 (263)
.|.+|++..|.- ..+...++..|.++..+|+-......+.+.+++.+. .+.+.++++++ .-++.+.
T Consensus 114 ~gd~Vli~~p~y--~~~~~~~~~~g~~~~~~~~~~~~~~~d~~~l~~~~~--~~~~~v~l~~p~NPtG~~~~~~~~~~i~ 189 (386)
T PRK09082 114 PGDEVIVFDPSY--DSYAPAIELAGGRAVRVALQPPDFRVDWQRFAAAIS--PRTRLIILNTPHNPSGTVWSAADMRALW 189 (386)
T ss_pred CCCEEEEeCCCc--hhhHHHHHHcCCEEEEEecCcccccCCHHHHHHhcC--ccceEEEEeCCCCCCCcCCCHHHHHHHH
Confidence 367888887753 345666677899999998742222224455555552 35678888654 4456666
Q ss_pred HHHHHc
Q 024727 119 EAWKEA 124 (263)
Q Consensus 119 ~~l~~~ 124 (263)
+.+++.
T Consensus 190 ~~a~~~ 195 (386)
T PRK09082 190 QLIAGT 195 (386)
T ss_pred HHHHHC
Confidence 666654
No 493
>PRK10874 cysteine sulfinate desulfinase; Provisional
Probab=34.95 E-value=2.2e+02 Score=26.17 Aligned_cols=62 Identities=11% Similarity=0.015 Sum_probs=35.8
Q ss_pred CCCcEEEEEcCCCCch--hHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHh-CCCCEEEEeCHHH
Q 024727 176 KKKCTVLYPASAKASN--EIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAVASPSA 239 (263)
Q Consensus 176 ~~~~~vL~~~g~~~~~--~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~d~vvFtS~s~ 239 (263)
.+|++|++...+.... .+....+..|+++..+++-.. -..+.+++.+.+ .+...|+++++..
T Consensus 107 ~~gd~vl~~~~~~~s~~~~~~~~~~~~g~~v~~v~~~~~--~~~d~~~l~~~i~~~t~lv~i~~~~n 171 (401)
T PRK10874 107 QPGDEIIVSEAEHHANLVPWLMVAQQTGAKVVKLPLGAD--RLPDVDLLPELITPRTRILALGQMSN 171 (401)
T ss_pred CCcCEEEECCcchHHHHHHHHHHHHHhCCEEEEEecCCC--CcCCHHHHHHhcCcCcEEEEEeCCcc
Confidence 3567888887765432 234445677888887776321 112334455544 3556777776543
No 494
>TIGR01282 nifD nitrogenase molybdenum-iron protein alpha chain. Nitrogenase consists of alpha (NifD) and beta (NifK) subunits of the molybdenum-iron protein and an ATP-binding iron-sulfur protein (NifH). This model describes a large clade of NifD proteins, but excludes a lineage that contains putative NifD and NifD homologs from species with vanadium-dependent nitrogenases.
Probab=34.95 E-value=2.6e+02 Score=26.89 Aligned_cols=96 Identities=9% Similarity=0.047 Sum_probs=57.9
Q ss_pred CCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC
Q 024727 46 ASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG 125 (263)
Q Consensus 46 ~~l~g~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~ 125 (263)
.-|.|+++.+.-.......+...|++.|.++...-. ... ..+.....++.+.. +.+++..++-.+ +.+.+.+.
T Consensus 331 ~~L~GKrv~i~~g~~~~~~~~~~l~ELGmevv~~g~---~~~-~~~~~~~~~~~~~~-~~~i~~~~d~~e-l~~~i~~~- 403 (466)
T TIGR01282 331 PRLEGKTVMLYVGGLRPRHVIGAFEDLGMEVIGTGY---EFA-HNDDYERTTKYMKD-GTLIYDDVTHYE-FEEFVEKL- 403 (466)
T ss_pred HhcCCCEEEEECCCCcHHHHHHHHHHCCCEEEEEee---ecC-CHHHHHHHHHhcCC-CeEEeeCCCHHH-HHHHHHHh-
Confidence 468899999987666778888899999999973322 211 12333444444433 666665554332 22334443
Q ss_pred CCCcEEEEeChhHHHHHHHhhhhcCCCCcee
Q 024727 126 TPNVRIGVVGAGTASIFEEVIQSSKCSLDVA 156 (263)
Q Consensus 126 ~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~ 156 (263)
+..++.-|.+-+-..++. |+..+
T Consensus 404 --~pDl~ig~~~~~~~a~k~------gIP~~ 426 (466)
T TIGR01282 404 --KPDLVGSGIKEKYVFQKM------GVPFR 426 (466)
T ss_pred --CCCEEEecCCccceeeec------CCCcc
Confidence 345666666666666666 87653
No 495
>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional
Probab=34.82 E-value=74 Score=25.29 Aligned_cols=78 Identities=18% Similarity=0.089 Sum_probs=51.2
Q ss_pred CCCCCCeEEEe-CCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc
Q 024727 46 ASNSNPKVVVT-RERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA 124 (263)
Q Consensus 46 ~~l~g~~ILit-r~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~ 124 (263)
.++.|++|++. |+......++..|.+.|+++...... ...+++. ....|.||-..+.. . ++. .++
T Consensus 24 ~~~~gk~v~VvGrs~~vG~pla~lL~~~gatV~~~~~~-------t~~l~~~---v~~ADIVvsAtg~~-~-~i~--~~~ 89 (140)
T cd05212 24 VRLDGKKVLVVGRSGIVGAPLQCLLQRDGATVYSCDWK-------TIQLQSK---VHDADVVVVGSPKP-E-KVP--TEW 89 (140)
T ss_pred CCCCCCEEEEECCCchHHHHHHHHHHHCCCEEEEeCCC-------CcCHHHH---HhhCCEEEEecCCC-C-ccC--HHH
Confidence 47889998877 66667889999999999998876521 1123333 36788888777766 3 322 112
Q ss_pred CCCCcEEEEeChh
Q 024727 125 GTPNVRIGVVGAG 137 (263)
Q Consensus 125 ~~~~~~i~aVG~~ 137 (263)
-.++..++-+|..
T Consensus 90 ikpGa~Vidvg~~ 102 (140)
T cd05212 90 IKPGATVINCSPT 102 (140)
T ss_pred cCCCCEEEEcCCC
Confidence 2246667767754
No 496
>TIGR01264 tyr_amTase_E tyrosine aminotransferase, eukaryotic. This model describes tyrosine aminotransferase as found in animals and Trypanosoma cruzi. It is the first enzyme of a pathway of tyrosine degradation via homogentisate. Several plant enzyme designated as probable tyrosine aminotransferases are very closely related to an experimentally demonstrated nicotianamine aminotransferase, an enzyme in a siderophore (iron uptake chelator) biosynthesis pathway. These plant sequences are excluded from the model seed and score between the trusted an noise cutoffs.
Probab=34.76 E-value=3e+02 Score=25.23 Aligned_cols=31 Identities=23% Similarity=0.150 Sum_probs=16.5
Q ss_pred CCcEEEEEcCCCCchhHHHHHHhCCCeeeEEee
Q 024727 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (263)
Q Consensus 177 ~~~~vL~~~g~~~~~~L~~~L~~~G~~v~~~~v 209 (263)
+|++|++.... -......++..|+++..+++
T Consensus 118 ~gd~v~i~~P~--y~~~~~~~~~~g~~v~~~~~ 148 (401)
T TIGR01264 118 AGQNILVPRPG--FPLYETLAESMGIEVKLYNL 148 (401)
T ss_pred CCCEEEEeCCC--ChhHHHHHHHcCCEEEEeec
Confidence 45566666432 22344555666666655554
No 497
>PRK14182 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=34.71 E-value=3.4e+02 Score=24.36 Aligned_cols=43 Identities=21% Similarity=0.236 Sum_probs=30.2
Q ss_pred CCcEEEEeCh---------hHHHHHHHhhhhcCCCCceee--cCCCCCHHHHHHHhccCC
Q 024727 127 PNVRIGVVGA---------GTASIFEEVIQSSKCSLDVAF--SPSKATGKILASELPKNG 175 (263)
Q Consensus 127 ~~~~i~aVG~---------~Ta~~L~~~~~~~~~G~~~~~--~p~~~t~e~L~~~l~~~~ 175 (263)
+..-++-+|+ ...+++++. |+.... .|++.+-++|.+.|.+..
T Consensus 31 P~LaiI~vg~d~as~~Yv~~k~k~a~~~------Gi~~~~~~l~~~~t~~~l~~~I~~lN 84 (282)
T PRK14182 31 TGLTVVRVGDDPASAIYVRGKRKDCEEV------GITSVEHHLPATTTQAELLALIARLN 84 (282)
T ss_pred CeEEEEEeCCCHHHHHHHHHHHHHHHHc------CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence 4667777883 445677777 998754 466677788888887653
No 498
>PRK13525 glutamine amidotransferase subunit PdxT; Provisional
Probab=34.69 E-value=2.6e+02 Score=23.06 Aligned_cols=48 Identities=19% Similarity=0.181 Sum_probs=32.6
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH
Q 024727 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA 113 (263)
Q Consensus 51 ~~ILitr~~~~~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a 113 (263)
++|.|.--...-....+.|+..|+++..++. .+ .+.+||.||++-+..
T Consensus 2 m~~~i~~~~g~~~~~~~~l~~~g~~~~~~~~--------~~-------~l~~~dgiii~GG~~ 49 (189)
T PRK13525 2 MKIGVLALQGAVREHLAALEALGAEAVEVRR--------PE-------DLDEIDGLILPGGES 49 (189)
T ss_pred CEEEEEEcccCHHHHHHHHHHCCCEEEEeCC--------hh-------HhccCCEEEECCCCh
Confidence 3455444444556667889999998887752 11 246799999998754
No 499
>TIGR02133 RPI_actino ribose 5-phosphate isomerase. This family is a member of the RpiB/LacA/LacB subfamily (TIGR00689) but lies outside the RpiB equivalog (TIGR01120) which is also a member of that subfamily. Ribose 5-phosphate isomerase is an essential enzyme of the pentose phosphate pathway; a pathway that appears to be present in the actinobacteria. The only candidates for ribose 5-phosphate isomerase in the Actinobacteria are members of this family.
Probab=34.60 E-value=2.4e+02 Score=22.66 Aligned_cols=103 Identities=15% Similarity=0.055 Sum_probs=63.1
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEE-EeCh
Q 024727 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIG-VVGA 136 (263)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~p~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~aV~~~~~~l~~~~~~~~~i~-aVG~ 136 (263)
.+.+.+.|++.|++|..+-.+...+..++. .+-+.+ .-+++|.=|....+++-..+.. ...++++.+ |--+
T Consensus 15 K~~l~~~L~~~g~eV~D~G~~~~~~~~dYpd~a~~va~~V-~~~~~~~GIliCGtGiG~siaA---NK~~GiRAA~~~d~ 90 (148)
T TIGR02133 15 KEALWLDLAAHEPEVCDVGVYDADDDDDYPCFCIAAAEAV-ARDAADLGIVIGGSGNGEAIAA---NKVKGARAALAWDT 90 (148)
T ss_pred HHHHHHHHHHCCCEEEECCCCCCCCCCCchHHHHHHHHHH-hcCCCceEEEEcCCChhheeee---cccCCeEEEEECCH
Confidence 456788899999999998876655333332 233333 2255666555566665444331 223567775 4467
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhcc
Q 024727 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (263)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (263)
.|++..+++- +-++...+.....++++..|.+
T Consensus 91 ~sA~~ar~hN-----naNVl~lG~r~ig~~~a~~iv~ 122 (148)
T TIGR02133 91 ASAGRARLHN-----NANVVGAGMRMHGLEEAFRLVF 122 (148)
T ss_pred HHHHHHHHHc-----CCcEEEECCcccCHHHHHHHHH
Confidence 8888888882 4455556777777777666654
No 500
>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=34.60 E-value=59 Score=30.40 Aligned_cols=61 Identities=11% Similarity=0.104 Sum_probs=36.6
Q ss_pred CcEEEEEcCCC-----CchhHHHHHHhCCCeeeEEeeeccccCCCChH---HHHHHh--CCCCEEE-EeCHHHHH
Q 024727 178 KCTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQ---TVLKQA--LSIPVVA-VASPSAVR 241 (263)
Q Consensus 178 ~~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~---~~~~~l--~~~d~vv-FtS~s~v~ 241 (263)
.+++|++.+.. ..+.+.+.|++.|+++. +|.-.......+ +..+.+ .++|+|+ +--++..+
T Consensus 21 ~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~~---~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiGGGS~iD 92 (398)
T cd08178 21 KKRAFIVTDRFMVKLGYVDKVIDVLKRRGVETE---VFSDVEPDPSLETVRKGLELMNSFKPDTIIALGGGSPMD 92 (398)
T ss_pred CCeEEEEcChhHHhCccHHHHHHHHHHCCCeEE---EecCCCCCcCHHHHHHHHHHHHhcCCCEEEEeCCccHHH
Confidence 37899998753 23457788998987654 555433333332 233323 4889887 66555544
Done!