Query psy16262
Match_columns 222
No_of_seqs 109 out of 1074
Neff 6.1
Searched_HMMs 46136
Date Fri Aug 16 16:55:45 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16262.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/16262hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00254 40S ribosomal protein 100.0 1.1E-69 2.3E-74 473.0 20.9 201 1-201 1-201 (249)
2 TIGR01012 Sa_S2_E_A ribosomal 100.0 5.1E-68 1.1E-72 449.6 19.4 189 11-200 2-190 (196)
3 PRK04020 rps2P 30S ribosomal p 100.0 1.3E-65 2.8E-70 437.2 19.7 185 13-198 10-194 (204)
4 COG0052 RpsB Ribosomal protein 100.0 2E-63 4.2E-68 430.7 17.6 179 11-190 2-228 (252)
5 TIGR01011 rpsB_bact ribosomal 100.0 3.1E-59 6.6E-64 404.4 18.3 174 13-187 2-224 (225)
6 PRK05299 rpsB 30S ribosomal pr 100.0 5E-59 1.1E-63 410.1 17.8 178 12-190 3-229 (258)
7 PRK12311 rpsB 30S ribosomal pr 100.0 1.8E-58 3.9E-63 417.1 17.6 172 15-187 1-221 (326)
8 CHL00067 rps2 ribosomal protei 100.0 3E-57 6.5E-62 393.1 17.9 176 10-186 5-229 (230)
9 cd01425 RPS2 Ribosomal protein 100.0 2.8E-56 6E-61 377.6 16.9 166 18-184 1-193 (193)
10 PF00318 Ribosomal_S2: Ribosom 100.0 4.7E-54 1E-58 368.5 16.3 168 18-186 1-211 (211)
11 KOG0832|consensus 100.0 9.1E-53 2E-57 359.3 16.0 182 5-187 39-242 (251)
12 KOG0830|consensus 100.0 5.6E-45 1.2E-49 312.4 12.8 171 31-201 2-173 (254)
13 PRK05441 murQ N-acetylmuramic 95.6 0.4 8.8E-06 43.3 13.6 138 52-189 42-219 (299)
14 cd05007 SIS_Etherase N-acetylm 95.5 0.34 7.4E-06 42.8 12.6 136 55-190 32-207 (257)
15 PRK12570 N-acetylmuramic acid- 94.7 1.1 2.4E-05 40.5 13.5 137 55-191 41-217 (296)
16 cd05006 SIS_GmhA Phosphoheptos 94.3 2 4.4E-05 35.1 13.4 109 55-163 16-152 (177)
17 PRK13938 phosphoheptose isomer 94.3 1.6 3.4E-05 37.2 13.0 126 56-182 29-187 (196)
18 PRK00414 gmhA phosphoheptose i 94.0 2.6 5.6E-05 35.5 13.6 107 56-165 28-164 (192)
19 TIGR03127 RuMP_HxlB 6-phospho 94.0 2.5 5.4E-05 34.6 13.2 82 68-154 27-112 (179)
20 cd05005 SIS_PHI Hexulose-6-pho 93.7 2.6 5.6E-05 34.6 12.8 90 68-165 30-130 (179)
21 PRK10886 DnaA initiator-associ 92.8 3.6 7.8E-05 35.0 12.7 127 56-182 25-186 (196)
22 PRK10892 D-arabinose 5-phospha 92.7 3.3 7.2E-05 37.2 13.0 137 51-190 25-184 (326)
23 PF13580 SIS_2: SIS domain; PD 92.5 1.3 2.8E-05 35.1 9.1 93 55-148 18-137 (138)
24 TIGR00274 N-acetylmuramic acid 91.8 3.7 7.9E-05 37.1 12.1 138 53-190 38-215 (291)
25 PRK13936 phosphoheptose isomer 91.8 4.2 9E-05 34.3 11.8 52 116-167 109-169 (197)
26 PF10087 DUF2325: Uncharacteri 91.6 1.1 2.4E-05 33.4 7.2 75 73-147 1-81 (97)
27 PRK11557 putative DNA-binding 90.6 4.4 9.5E-05 35.4 11.2 90 68-162 125-225 (278)
28 PRK15482 transcriptional regul 90.4 5.5 0.00012 35.1 11.7 114 69-185 133-265 (285)
29 PRK11302 DNA-binding transcrip 90.0 5.9 0.00013 34.6 11.5 117 68-188 125-260 (284)
30 cd05013 SIS_RpiR RpiR-like pro 89.0 8.2 0.00018 29.1 11.6 94 70-164 12-112 (139)
31 cd05008 SIS_GlmS_GlmD_1 SIS (S 87.8 5.9 0.00013 30.0 8.8 39 116-154 44-86 (126)
32 cd05014 SIS_Kpsf KpsF-like pro 87.5 3.9 8.5E-05 31.1 7.7 47 116-162 45-97 (128)
33 cd06295 PBP1_CelR Ligand bindi 87.4 2.2 4.8E-05 36.2 6.9 47 117-164 63-109 (275)
34 PRK11337 DNA-binding transcrip 87.4 12 0.00027 32.9 11.8 50 115-164 184-241 (292)
35 COG0279 GmhA Phosphoheptose is 86.2 19 0.00041 30.4 11.4 111 55-165 24-164 (176)
36 PF04007 DUF354: Protein of un 86.0 4.9 0.00011 37.1 8.7 99 49-154 5-116 (335)
37 cd05710 SIS_1 A subgroup of th 85.5 4 8.7E-05 31.4 6.8 50 117-166 46-101 (120)
38 PRK13937 phosphoheptose isomer 85.4 20 0.00044 29.8 13.9 92 56-153 22-145 (188)
39 TIGR00441 gmhA phosphoheptose 85.1 18 0.00039 29.0 12.9 51 116-166 77-133 (154)
40 PF01380 SIS: SIS domain SIS d 84.7 7.9 0.00017 29.2 8.1 95 68-167 2-110 (131)
41 PRK00331 glucosamine--fructose 84.5 7.9 0.00017 38.0 9.9 94 68-164 286-388 (604)
42 PRK14101 bifunctional glucokin 84.5 16 0.00035 36.2 12.1 116 68-186 465-598 (638)
43 PRK02947 hypothetical protein; 84.0 18 0.00038 31.6 11.0 95 56-151 24-143 (246)
44 cd06278 PBP1_LacI_like_2 Ligan 83.9 3.9 8.4E-05 34.2 6.6 60 117-180 53-112 (266)
45 TIGR00393 kpsF KpsF/GutQ famil 83.4 16 0.00035 31.4 10.5 47 116-162 45-97 (268)
46 PRK11382 frlB fructoselysine-6 80.8 34 0.00073 31.2 12.0 51 117-167 91-147 (340)
47 PRK11543 gutQ D-arabinose 5-ph 80.0 13 0.00027 33.2 8.7 47 115-161 86-138 (321)
48 cd06271 PBP1_AglR_RafR_like Li 79.1 8.4 0.00018 32.1 7.0 58 117-178 58-115 (268)
49 cd05009 SIS_GlmS_GlmD_2 SIS (S 78.6 28 0.00062 26.9 11.6 116 69-189 11-141 (153)
50 PRK07765 para-aminobenzoate sy 78.5 9.9 0.00021 32.5 7.3 76 73-149 2-84 (214)
51 cd06294 PBP1_ycjW_transcriptio 78.4 8.6 0.00019 32.2 6.9 60 117-180 59-119 (270)
52 cd06283 PBP1_RegR_EndR_KdgR_li 78.4 8.4 0.00018 32.1 6.8 59 117-179 54-112 (267)
53 cd06325 PBP1_ABC_uncharacteriz 78.3 7.4 0.00016 32.9 6.5 92 60-151 119-221 (281)
54 cd06274 PBP1_FruR Ligand bindi 77.6 8.8 0.00019 32.3 6.7 60 117-180 54-113 (264)
55 cd06273 PBP1_GntR_like_1 This 76.7 10 0.00022 31.8 6.8 60 117-180 54-113 (268)
56 PTZ00295 glucosamine-fructose- 76.6 76 0.0016 31.6 13.8 128 68-201 493-637 (640)
57 COG1737 RpiR Transcriptional r 76.5 54 0.0012 29.1 11.7 72 115-186 174-261 (281)
58 TIGR01135 glmS glucosamine--fr 76.3 21 0.00046 35.0 9.8 93 69-164 289-390 (607)
59 cd06279 PBP1_LacI_like_3 Ligan 73.8 14 0.00029 31.7 7.0 59 117-180 55-113 (283)
60 cd06292 PBP1_LacI_like_10 Liga 72.6 14 0.0003 31.1 6.7 60 117-180 54-119 (273)
61 PLN02335 anthranilate synthase 72.4 15 0.00033 31.5 6.9 77 69-148 16-98 (222)
62 cd06299 PBP1_LacI_like_13 Liga 71.6 16 0.00034 30.6 6.7 59 116-178 53-111 (265)
63 cd06270 PBP1_GalS_like Ligand 70.6 16 0.00035 30.7 6.6 60 116-179 53-112 (268)
64 cd06285 PBP1_LacI_like_7 Ligan 70.3 17 0.00037 30.5 6.7 58 116-179 53-110 (265)
65 cd06267 PBP1_LacI_sugar_bindin 70.2 18 0.0004 29.6 6.7 60 117-180 54-113 (264)
66 PRK15408 autoinducer 2-binding 70.2 9.9 0.00021 34.5 5.5 90 69-161 21-124 (336)
67 cd06318 PBP1_ABC_sugar_binding 69.9 19 0.00042 30.4 7.0 59 117-179 54-116 (282)
68 cd05017 SIS_PGI_PMI_1 The memb 69.2 11 0.00024 28.7 4.9 54 116-170 41-105 (119)
69 cd06300 PBP1_ABC_sugar_binding 67.8 19 0.00041 30.3 6.5 60 117-180 59-120 (272)
70 cd06311 PBP1_ABC_sugar_binding 67.6 24 0.00052 29.8 7.1 61 117-181 59-123 (274)
71 PTZ00394 glucosamine-fructose- 67.2 90 0.0019 31.5 12.0 126 69-201 524-667 (670)
72 PRK06774 para-aminobenzoate sy 66.5 32 0.0007 28.4 7.5 70 74-148 2-79 (191)
73 cd06307 PBP1_uncharacterized_s 66.0 21 0.00045 30.2 6.4 60 118-181 58-120 (275)
74 cd06306 PBP1_TorT-like TorT-li 65.9 23 0.00049 30.1 6.6 63 117-182 56-119 (268)
75 cd06272 PBP1_hexuronate_repres 65.6 23 0.00049 29.6 6.5 59 117-180 50-108 (261)
76 COG1879 RbsB ABC-type sugar tr 65.3 51 0.0011 29.0 9.0 96 85-183 53-156 (322)
77 cd06289 PBP1_MalI_like Ligand- 65.1 29 0.00062 28.9 7.0 59 117-179 54-113 (268)
78 CHL00101 trpG anthranilate syn 65.0 38 0.00083 28.1 7.6 73 74-149 2-80 (190)
79 TIGR00566 trpG_papA glutamine 65.0 29 0.00062 28.9 6.9 71 74-148 2-79 (188)
80 cd06277 PBP1_LacI_like_1 Ligan 63.9 25 0.00054 29.5 6.5 57 117-178 57-113 (268)
81 PRK08674 bifunctional phosphog 62.5 19 0.00041 32.7 5.8 72 117-190 77-159 (337)
82 PRK05670 anthranilate synthase 62.5 26 0.00057 28.9 6.2 71 74-148 2-79 (189)
83 cd01575 PBP1_GntR Ligand-bindi 62.2 37 0.00081 28.2 7.2 36 116-151 53-88 (268)
84 PRK15484 lipopolysaccharide 1, 61.8 85 0.0018 28.6 10.0 96 57-156 210-315 (380)
85 cd06305 PBP1_methylthioribose_ 61.7 28 0.0006 29.2 6.3 60 117-180 54-115 (273)
86 cd06296 PBP1_CatR_like Ligand- 61.1 35 0.00076 28.5 6.9 59 117-179 54-113 (270)
87 cd06282 PBP1_GntR_like_2 Ligan 60.2 36 0.00077 28.3 6.7 58 117-179 54-112 (266)
88 cd03812 GT1_CapH_like This fam 59.3 1.2E+02 0.0025 26.2 10.5 86 58-147 210-296 (358)
89 cd01574 PBP1_LacI Ligand-bindi 59.1 37 0.00079 28.3 6.6 36 117-153 55-90 (264)
90 cd01748 GATase1_IGP_Synthase T 58.5 32 0.00069 28.6 6.1 67 75-150 2-80 (198)
91 TIGR03088 stp2 sugar transfera 58.4 72 0.0016 28.3 8.7 99 53-156 207-310 (374)
92 cd06301 PBP1_rhizopine_binding 58.2 37 0.0008 28.5 6.5 61 116-180 54-118 (272)
93 cd06319 PBP1_ABC_sugar_binding 57.8 49 0.0011 27.7 7.2 62 117-182 54-118 (277)
94 PRK13566 anthranilate synthase 57.6 96 0.0021 31.7 10.2 74 71-149 526-606 (720)
95 cd06317 PBP1_ABC_sugar_binding 57.3 31 0.00066 28.9 5.8 35 117-152 55-91 (275)
96 cd06287 PBP1_LacI_like_8 Ligan 56.8 47 0.001 28.4 7.0 59 117-179 55-114 (269)
97 PTZ00295 glucosamine-fructose- 56.5 1.5E+02 0.0032 29.6 11.2 47 118-164 369-421 (640)
98 PRK10014 DNA-binding transcrip 56.4 45 0.00096 29.3 7.0 59 116-178 118-177 (342)
99 cd06308 PBP1_sensor_kinase_lik 56.3 46 0.001 28.0 6.8 59 117-179 55-116 (270)
100 cd06302 PBP1_LsrB_Quorum_Sensi 55.9 29 0.00062 30.2 5.6 63 117-181 55-119 (298)
101 PRK07649 para-aminobenzoate/an 55.6 66 0.0014 27.0 7.5 71 74-148 2-79 (195)
102 TIGR02417 fruct_sucro_rep D-fr 55.1 46 0.001 29.0 6.8 46 116-162 114-160 (327)
103 PRK11070 ssDNA exonuclease Rec 55.0 1.1E+02 0.0025 30.3 10.1 95 56-151 53-160 (575)
104 cd01538 PBP1_ABC_xylose_bindin 54.8 44 0.00095 28.7 6.5 62 117-181 54-117 (288)
105 cd05844 GT1_like_7 Glycosyltra 54.5 1.3E+02 0.0029 26.1 9.7 94 57-154 205-306 (367)
106 TIGR01815 TrpE-clade3 anthrani 54.1 1.2E+02 0.0027 30.9 10.4 74 71-148 516-595 (717)
107 cd06297 PBP1_LacI_like_12 Liga 54.1 52 0.0011 27.8 6.8 59 117-181 54-112 (269)
108 cd06298 PBP1_CcpA_like Ligand- 54.1 28 0.0006 29.1 5.0 60 117-180 54-113 (268)
109 cd01743 GATase1_Anthranilate_S 53.6 53 0.0011 26.8 6.5 73 74-149 1-79 (184)
110 PRK05749 3-deoxy-D-manno-octul 53.6 1.1E+02 0.0025 28.0 9.4 89 57-147 248-350 (425)
111 PRK14987 gluconate operon tran 53.4 53 0.0011 28.8 6.9 36 116-151 117-152 (331)
112 PRK08007 para-aminobenzoate sy 53.2 50 0.0011 27.4 6.4 71 74-148 2-79 (187)
113 cd06293 PBP1_LacI_like_11 Liga 52.5 61 0.0013 27.1 6.9 61 116-180 53-113 (269)
114 cd06314 PBP1_tmGBP Periplasmic 52.2 51 0.0011 27.8 6.4 60 117-181 54-116 (271)
115 cd04949 GT1_gtfA_like This fam 52.1 1.1E+02 0.0023 27.1 8.7 86 57-147 221-308 (372)
116 PF01973 MAF_flag10: Protein o 51.0 66 0.0014 25.9 6.7 73 71-146 24-98 (170)
117 PF00117 GATase: Glutamine ami 50.9 47 0.001 27.0 5.8 72 75-148 1-79 (192)
118 cd06320 PBP1_allose_binding Pe 50.8 55 0.0012 27.5 6.4 61 117-181 56-118 (275)
119 TIGR00888 guaA_Nterm GMP synth 50.7 72 0.0016 26.2 6.9 71 75-149 2-78 (188)
120 cd01545 PBP1_SalR Ligand-bindi 50.4 67 0.0015 26.7 6.8 60 117-180 55-115 (270)
121 COG2103 Predicted sugar phosph 50.2 75 0.0016 28.9 7.2 140 51-190 39-218 (298)
122 cd06312 PBP1_ABC_sugar_binding 50.1 52 0.0011 27.7 6.1 60 117-180 56-121 (271)
123 cd01542 PBP1_TreR_like Ligand- 50.1 59 0.0013 26.9 6.4 58 117-180 54-111 (259)
124 cd01141 TroA_d Periplasmic bin 49.6 24 0.00052 28.5 3.8 32 116-147 67-98 (186)
125 cd06310 PBP1_ABC_sugar_binding 49.4 58 0.0013 27.3 6.3 60 117-180 56-118 (273)
126 PF13407 Peripla_BP_4: Peripla 49.0 34 0.00074 28.6 4.8 77 85-162 18-102 (257)
127 PRK08857 para-aminobenzoate sy 48.5 1.2E+02 0.0026 25.1 8.0 71 74-148 2-79 (193)
128 cd01541 PBP1_AraR Ligand-bindi 47.9 73 0.0016 26.7 6.7 44 117-161 54-102 (273)
129 TIGR01481 ccpA catabolite cont 47.9 69 0.0015 27.9 6.7 58 117-178 114-171 (329)
130 PF04413 Glycos_transf_N: 3-De 47.8 72 0.0016 26.6 6.5 86 60-150 36-126 (186)
131 PLN02846 digalactosyldiacylgly 47.4 1.3E+02 0.0028 29.0 9.0 94 51-150 239-333 (462)
132 COG4069 Uncharacterized protei 46.3 19 0.00042 33.1 2.9 33 121-153 269-301 (367)
133 TIGR02634 xylF D-xylose ABC tr 46.2 65 0.0014 28.1 6.3 60 117-180 53-115 (302)
134 cd01544 PBP1_GalR Ligand-bindi 46.1 67 0.0015 27.1 6.2 44 116-161 50-93 (270)
135 TIGR01470 cysG_Nterm siroheme 45.7 48 0.001 28.1 5.2 66 70-145 31-98 (205)
136 cd01540 PBP1_arabinose_binding 45.6 73 0.0016 27.0 6.4 62 117-182 53-122 (289)
137 cd06323 PBP1_ribose_binding Pe 45.3 75 0.0016 26.3 6.3 61 117-180 54-116 (268)
138 cd03818 GT1_ExpC_like This fam 45.0 2.4E+02 0.0051 25.5 10.4 100 53-156 225-338 (396)
139 PRK15427 colanic acid biosynth 45.0 2.1E+02 0.0045 26.5 9.7 98 55-156 237-342 (406)
140 cd04795 SIS SIS domain. SIS (S 44.2 1E+02 0.0022 21.1 7.1 34 115-148 44-81 (87)
141 cd03819 GT1_WavL_like This fam 44.2 1.4E+02 0.0031 25.7 8.1 93 58-155 203-301 (355)
142 cd03420 SirA_RHOD_Pry_redox Si 44.2 63 0.0014 22.4 4.8 48 62-109 17-64 (69)
143 PRK11303 DNA-binding transcrip 43.6 90 0.002 27.1 6.8 46 116-162 115-161 (328)
144 TIGR01823 PabB-fungal aminodeo 43.4 1E+02 0.0023 31.5 8.0 80 70-149 4-94 (742)
145 cd01543 PBP1_XylR Ligand-bindi 43.0 85 0.0018 26.3 6.4 56 117-178 49-104 (265)
146 cd06313 PBP1_ABC_sugar_binding 42.9 73 0.0016 27.1 6.0 36 117-153 54-91 (272)
147 cd01742 GATase1_GMP_Synthase T 42.9 1E+02 0.0022 24.9 6.6 72 75-150 2-79 (181)
148 cd01536 PBP1_ABC_sugar_binding 42.1 1.9E+02 0.0041 23.6 9.1 90 60-150 109-217 (267)
149 PRK14089 ipid-A-disaccharide s 41.9 36 0.00078 31.5 4.1 33 116-148 74-109 (347)
150 COG1817 Uncharacterized protei 41.8 94 0.002 28.9 6.7 98 49-152 5-115 (346)
151 cd03822 GT1_ecORF704_like This 41.6 2.2E+02 0.0047 24.3 8.8 76 71-147 216-299 (366)
152 PRK06895 putative anthranilate 41.5 1.4E+02 0.003 24.6 7.3 71 72-148 2-79 (190)
153 PRK10936 TMAO reductase system 41.5 96 0.0021 27.7 6.8 60 117-181 103-165 (343)
154 cd06281 PBP1_LacI_like_5 Ligan 41.3 98 0.0021 25.9 6.5 43 117-161 54-97 (269)
155 PLN02275 transferase, transfer 41.2 1.5E+02 0.0033 26.8 8.1 79 73-155 263-346 (371)
156 cd06284 PBP1_LacI_like_6 Ligan 41.0 1.2E+02 0.0027 25.0 7.0 58 117-179 54-111 (267)
157 PF13241 NAD_binding_7: Putati 40.9 9.5 0.00021 28.6 0.1 43 117-163 59-103 (103)
158 cd06321 PBP1_ABC_sugar_binding 40.2 87 0.0019 26.2 6.0 34 117-151 56-91 (271)
159 PRK10703 DNA-binding transcrip 39.9 1.1E+02 0.0024 26.8 6.8 44 117-161 114-159 (341)
160 cd01537 PBP1_Repressors_Sugar_ 39.7 1.6E+02 0.0034 23.9 7.3 33 118-150 178-216 (264)
161 cd06309 PBP1_YtfQ_like Peripla 39.6 1.2E+02 0.0026 25.4 6.8 32 117-148 54-87 (273)
162 cd06280 PBP1_LacI_like_4 Ligan 39.4 1.3E+02 0.0027 25.2 6.8 57 117-178 54-110 (263)
163 TIGR01855 IMP_synth_hisH imida 39.2 1.1E+02 0.0024 25.4 6.4 66 75-149 2-79 (196)
164 PRK00421 murC UDP-N-acetylmura 39.2 1.4E+02 0.003 28.1 7.8 61 117-178 65-129 (461)
165 PF01206 TusA: Sulfurtransfera 39.1 76 0.0016 21.7 4.5 41 60-100 16-56 (70)
166 cd01391 Periplasmic_Binding_Pr 39.0 90 0.002 24.9 5.7 34 118-151 58-92 (269)
167 cd00291 SirA_YedF_YeeD SirA, Y 38.8 83 0.0018 21.2 4.7 41 60-100 15-55 (69)
168 COG0608 RecJ Single-stranded D 38.7 2.8E+02 0.0061 26.6 9.8 95 54-151 18-122 (491)
169 PRK05637 anthranilate synthase 38.3 1.6E+02 0.0035 25.0 7.3 71 72-148 2-80 (208)
170 PRK00331 glucosamine--fructose 38.0 4E+02 0.0087 26.1 13.4 126 70-201 460-601 (604)
171 cd01149 HutB Hemin binding pro 37.9 41 0.00088 28.3 3.6 33 116-148 56-88 (235)
172 PF01497 Peripla_BP_2: Peripla 37.8 30 0.00065 28.6 2.7 38 116-153 58-95 (238)
173 COG0449 GlmS Glucosamine 6-pho 37.6 97 0.0021 31.0 6.5 74 120-193 332-420 (597)
174 cd03786 GT1_UDP-GlcNAc_2-Epime 37.5 2.8E+02 0.0062 24.3 10.7 49 103-155 262-310 (363)
175 cd06322 PBP1_ABC_sugar_binding 37.5 1.2E+02 0.0026 25.2 6.4 36 116-152 53-90 (267)
176 PRK15395 methyl-galactoside AB 37.4 97 0.0021 27.5 6.1 34 117-151 80-115 (330)
177 TIGR00644 recJ single-stranded 37.3 3.1E+02 0.0067 26.8 9.9 92 58-150 40-143 (539)
178 PF01075 Glyco_transf_9: Glyco 36.9 2.3E+02 0.005 23.7 8.1 78 66-150 131-211 (247)
179 COG1519 KdtA 3-deoxy-D-manno-o 36.6 1.4E+02 0.003 28.7 7.1 74 72-150 79-154 (419)
180 PRK12319 acetyl-CoA carboxylas 36.2 28 0.00061 30.9 2.4 22 131-152 88-109 (256)
181 cd03811 GT1_WabH_like This fam 36.1 2.5E+02 0.0054 23.2 8.3 73 71-147 220-293 (353)
182 TIGR00315 cdhB CO dehydrogenas 36.0 2.5E+02 0.0055 23.2 8.4 77 73-151 30-136 (162)
183 COG1954 GlpP Glycerol-3-phosph 35.8 1.8E+02 0.0038 24.8 6.9 79 60-146 66-149 (181)
184 cd03796 GT1_PIG-A_like This fa 35.8 2.6E+02 0.0057 25.3 8.8 92 51-146 204-298 (398)
185 KOG1401|consensus 35.6 31 0.00068 33.0 2.7 52 44-96 87-141 (433)
186 PF06258 Mito_fiss_Elm1: Mitoc 35.6 3.4E+02 0.0074 24.6 9.7 104 38-147 152-255 (311)
187 PF14336 DUF4392: Domain of un 35.5 2.3E+02 0.005 25.5 8.2 22 131-152 165-186 (291)
188 COG1880 CdhB CO dehydrogenase/ 35.5 1.8E+02 0.004 24.4 6.8 85 71-162 36-153 (170)
189 cd03820 GT1_amsD_like This fam 35.4 2.6E+02 0.0056 23.2 8.9 87 57-147 195-282 (348)
190 PRK05562 precorrin-2 dehydroge 35.1 79 0.0017 27.6 5.0 32 118-149 85-118 (223)
191 cd01147 HemV-2 Metal binding p 35.0 53 0.0011 27.8 3.9 35 115-149 71-106 (262)
192 PF00534 Glycos_transf_1: Glyc 34.9 1.2E+02 0.0025 23.6 5.6 92 55-148 30-123 (172)
193 COG1515 Nfi Deoxyinosine 3'end 34.7 37 0.0008 29.6 2.8 52 103-154 72-136 (212)
194 PF10740 DUF2529: Protein of u 34.4 1.9E+02 0.0041 24.4 6.9 87 57-148 23-115 (172)
195 PLN02347 GMP synthetase 34.4 1.4E+02 0.003 29.5 7.0 73 72-148 11-93 (536)
196 PF13433 Peripla_BP_5: Peripla 34.2 1.3E+02 0.0027 28.3 6.4 82 70-152 132-229 (363)
197 PTZ00394 glucosamine-fructose- 34.0 94 0.002 31.3 5.9 94 68-164 351-453 (670)
198 PRK05724 acetyl-CoA carboxylas 33.6 33 0.00071 31.7 2.4 22 131-152 141-162 (319)
199 PRK00994 F420-dependent methyl 33.5 63 0.0014 28.9 4.1 37 116-152 58-98 (277)
200 cd01542 PBP1_TreR_like Ligand- 33.5 2.3E+02 0.0049 23.3 7.4 32 119-150 174-211 (259)
201 PRK01021 lpxB lipid-A-disaccha 33.4 45 0.00098 33.4 3.5 32 117-148 309-343 (608)
202 cd03422 YedF YedF is a bacteri 33.3 1.2E+02 0.0027 20.9 4.9 36 65-100 20-55 (69)
203 smart00481 POLIIIAc DNA polyme 33.0 46 0.001 22.5 2.6 22 131-152 18-39 (67)
204 cd01143 YvrC Periplasmic bindi 32.7 53 0.0011 26.3 3.3 31 116-147 58-88 (195)
205 PF10609 ParA: ParA/MinD ATPas 32.5 55 0.0012 24.2 3.0 33 118-150 25-62 (81)
206 TIGR02637 RhaS rhamnose ABC tr 32.4 76 0.0017 27.4 4.5 35 116-151 54-90 (302)
207 PRK13181 hisH imidazole glycer 32.4 1.8E+02 0.0039 24.1 6.6 34 117-150 36-81 (199)
208 CHL00198 accA acetyl-CoA carbo 32.1 36 0.00078 31.4 2.4 22 131-152 144-165 (322)
209 PF08795 DUF1796: Putative pap 31.9 2.8E+02 0.0062 22.6 9.5 78 1-78 25-125 (167)
210 cd06275 PBP1_PurR Ligand-bindi 31.8 1.8E+02 0.004 24.0 6.6 58 117-178 54-112 (269)
211 PRK12362 germination protease; 31.5 50 0.0011 30.5 3.2 44 116-164 170-239 (318)
212 cd01537 PBP1_Repressors_Sugar_ 31.4 2.3E+02 0.0049 22.9 7.0 33 117-149 54-87 (264)
213 PRK13170 hisH imidazole glycer 30.9 2E+02 0.0044 23.9 6.7 15 134-148 63-77 (196)
214 TIGR00513 accA acetyl-CoA carb 30.9 38 0.00083 31.1 2.4 22 131-152 141-162 (316)
215 PF01993 MTD: methylene-5,6,7, 30.6 62 0.0013 29.0 3.5 35 117-151 58-96 (276)
216 PRK00299 sulfur transfer prote 30.6 1.3E+02 0.0029 21.6 4.8 36 65-100 30-65 (81)
217 cd03801 GT1_YqgM_like This fam 30.4 3.1E+02 0.0068 22.6 8.9 74 72-148 231-306 (374)
218 cd04951 GT1_WbdM_like This fam 30.3 3.4E+02 0.0074 23.2 8.3 94 56-154 204-298 (360)
219 TIGR02149 glgA_Coryne glycogen 30.1 3.8E+02 0.0083 23.6 9.5 46 102-147 263-310 (388)
220 PF13419 HAD_2: Haloacid dehal 30.0 2.3E+02 0.0049 21.5 6.5 80 64-147 85-176 (176)
221 PRK00074 guaA GMP synthase; Re 29.8 2.1E+02 0.0047 27.8 7.5 75 71-149 3-83 (511)
222 CHL00197 carA carbamoyl-phosph 29.7 2.6E+02 0.0057 26.3 7.8 72 72-149 193-271 (382)
223 PF01976 DUF116: Protein of un 29.5 1.1E+02 0.0024 25.1 4.7 65 86-153 77-142 (158)
224 cd06288 PBP1_sucrose_transcrip 29.4 1.3E+02 0.0028 24.9 5.3 58 117-179 55-112 (269)
225 PF06925 MGDG_synth: Monogalac 28.7 66 0.0014 25.9 3.2 32 117-148 88-123 (169)
226 cd01539 PBP1_GGBP Periplasmic 28.7 63 0.0014 28.1 3.4 32 116-147 55-88 (303)
227 PF11238 DUF3039: Protein of u 28.5 41 0.00089 23.4 1.6 19 132-150 15-33 (58)
228 PF04493 Endonuclease_5: Endon 28.2 1.1E+02 0.0023 26.4 4.6 64 103-166 66-142 (206)
229 cd03816 GT1_ALG1_like This fam 28.2 4.8E+02 0.01 24.0 9.5 99 52-154 244-353 (415)
230 PF00532 Peripla_BP_1: Peripla 28.2 1.4E+02 0.0031 26.0 5.5 45 117-161 55-99 (279)
231 PRK06490 glutamine amidotransf 28.0 2.2E+02 0.0048 24.6 6.6 74 71-148 7-93 (239)
232 cd01144 BtuF Cobalamin binding 27.9 80 0.0017 26.4 3.8 32 116-147 55-86 (245)
233 COG2071 Predicted glutamine am 27.9 37 0.0008 30.2 1.7 25 125-149 88-115 (243)
234 PRK13143 hisH imidazole glycer 27.6 2.5E+02 0.0054 23.4 6.7 20 131-150 61-80 (200)
235 PLN02981 glucosamine:fructose- 27.3 6.6E+02 0.014 25.4 12.0 92 68-162 360-460 (680)
236 PRK10355 xylF D-xylose transpo 27.1 2E+02 0.0044 25.6 6.4 32 116-147 79-112 (330)
237 PLN03230 acetyl-coenzyme A car 26.9 49 0.0011 31.8 2.4 22 131-152 211-232 (431)
238 TIGR02009 PGMB-YQAB-SF beta-ph 26.9 1.7E+02 0.0036 23.1 5.3 29 117-147 157-185 (185)
239 cd01536 PBP1_ABC_sugar_binding 26.9 3.5E+02 0.0075 22.0 9.1 34 117-150 54-89 (267)
240 cd03423 SirA SirA (also known 26.8 1.7E+02 0.0037 20.1 4.7 46 63-108 18-63 (69)
241 TIGR02918 accessory Sec system 26.8 3.1E+02 0.0068 26.4 8.0 108 50-164 329-444 (500)
242 cd03794 GT1_wbuB_like This fam 26.6 3.9E+02 0.0084 22.5 8.9 40 112-151 288-333 (394)
243 cd03813 GT1_like_3 This family 26.3 4.6E+02 0.0099 24.7 8.9 86 56-146 309-399 (475)
244 PRK10423 transcriptional repre 26.3 2.5E+02 0.0053 24.3 6.7 34 116-150 110-144 (327)
245 PLN02501 digalactosyldiacylgly 26.1 3.8E+02 0.0083 27.9 8.6 93 51-149 557-650 (794)
246 cd03821 GT1_Bme6_like This fam 25.9 4E+02 0.0086 22.4 8.8 75 71-147 234-311 (375)
247 PRK03379 vitamin B12-transport 25.8 91 0.002 26.9 3.8 32 116-147 70-101 (260)
248 PRK10637 cysG siroheme synthas 25.8 1.3E+02 0.0029 28.6 5.2 27 118-144 72-100 (457)
249 PRK10339 DNA-binding transcrip 25.8 2.1E+02 0.0046 24.9 6.2 43 117-161 113-155 (327)
250 PF02684 LpxB: Lipid-A-disacch 25.8 76 0.0016 29.8 3.4 32 116-147 80-114 (373)
251 cd06324 PBP1_ABC_sugar_binding 25.7 2.3E+02 0.0051 24.4 6.4 32 118-150 58-90 (305)
252 cd06290 PBP1_LacI_like_9 Ligan 25.7 2.8E+02 0.0062 22.9 6.8 58 117-179 54-111 (265)
253 cd03800 GT1_Sucrose_synthase T 25.3 4.6E+02 0.0099 22.9 9.3 36 112-147 296-332 (398)
254 cd03809 GT1_mtfB_like This fam 25.3 3.5E+02 0.0076 22.9 7.4 81 72-155 227-309 (365)
255 cd03421 SirA_like_N SirA_like_ 25.1 2.1E+02 0.0046 19.3 4.9 32 67-98 21-52 (67)
256 PRK15490 Vi polysaccharide bio 25.1 5.1E+02 0.011 26.0 9.2 79 71-155 429-509 (578)
257 TIGR02955 TMAO_TorT TMAO reduc 25.0 2.3E+02 0.0049 24.4 6.2 60 117-180 56-117 (295)
258 cd06315 PBP1_ABC_sugar_binding 24.9 75 0.0016 27.1 3.1 34 116-150 54-89 (280)
259 TIGR00215 lpxB lipid-A-disacch 24.8 77 0.0017 29.2 3.3 30 117-147 88-119 (385)
260 PRK14573 bifunctional D-alanyl 24.8 2.9E+02 0.0063 28.3 7.7 63 117-179 62-127 (809)
261 cd03808 GT1_cap1E_like This fa 24.6 4.1E+02 0.0089 22.0 10.2 81 71-156 219-301 (359)
262 COG0512 PabA Anthranilate/para 24.5 3.5E+02 0.0076 23.2 7.0 73 72-149 2-82 (191)
263 TIGR01135 glmS glucosamine--fr 24.5 6.8E+02 0.015 24.6 12.7 127 69-202 461-605 (607)
264 PRK12564 carbamoyl phosphate s 24.4 3.5E+02 0.0076 25.2 7.6 72 72-149 178-256 (360)
265 cd04946 GT1_AmsK_like This fam 24.3 5.3E+02 0.011 23.6 8.8 76 75-155 267-347 (407)
266 PRK10653 D-ribose transporter 24.2 4.5E+02 0.0098 22.4 8.3 120 59-178 135-277 (295)
267 cd01744 GATase1_CPSase Small c 24.0 1E+02 0.0023 25.1 3.6 20 131-150 59-78 (178)
268 cd04962 GT1_like_5 This family 23.9 4.8E+02 0.01 22.6 8.8 71 71-146 227-299 (371)
269 PRK09922 UDP-D-galactose:(gluc 23.9 5.1E+02 0.011 22.9 8.9 74 71-149 210-288 (359)
270 cd06271 PBP1_AglR_RafR_like Li 23.8 4.1E+02 0.0089 21.8 8.0 26 117-142 180-205 (268)
271 TIGR02128 G6PI_arch bifunction 23.7 1.9E+02 0.0042 26.2 5.6 55 117-172 65-130 (308)
272 cd06316 PBP1_ABC_sugar_binding 23.6 98 0.0021 26.5 3.6 35 116-151 54-90 (294)
273 KOG1687|consensus 23.1 1.7E+02 0.0036 24.1 4.5 70 103-186 76-160 (168)
274 PRK09065 glutamine amidotransf 23.0 1E+02 0.0022 26.7 3.5 31 118-148 54-95 (237)
275 cd08166 MPP_Cdc1_like_1 unchar 23.0 64 0.0014 27.5 2.2 46 117-168 41-93 (195)
276 TIGR01082 murC UDP-N-acetylmur 22.8 3.6E+02 0.0077 25.3 7.4 63 117-179 57-122 (448)
277 COG0825 AccA Acetyl-CoA carbox 22.8 64 0.0014 29.6 2.3 21 132-152 141-161 (317)
278 PRK10307 putative glycosyl tra 22.8 5.7E+02 0.012 23.1 8.7 75 72-150 260-340 (412)
279 COG0028 IlvB Thiamine pyrophos 22.7 5.7E+02 0.012 25.1 9.0 73 56-130 188-278 (550)
280 PRK10966 exonuclease subunit S 22.6 2E+02 0.0043 27.1 5.7 20 159-178 78-97 (407)
281 PF00205 TPP_enzyme_M: Thiamin 22.4 2E+02 0.0044 22.0 4.9 57 74-130 15-89 (137)
282 COG0859 RfaF ADP-heptose:LPS h 22.2 5.8E+02 0.012 22.9 8.5 70 72-150 209-279 (334)
283 cd03805 GT1_ALG2_like This fam 22.1 5.4E+02 0.012 22.6 9.2 97 53-153 224-334 (392)
284 COG1609 PurR Transcriptional r 22.1 3.2E+02 0.0069 24.6 6.8 48 116-164 112-159 (333)
285 COG0215 CysS Cysteinyl-tRNA sy 22.1 45 0.00097 32.4 1.2 34 167-205 176-212 (464)
286 cd00636 TroA-like Helical back 22.0 1.2E+02 0.0026 22.0 3.4 32 117-149 60-91 (148)
287 COG0614 FepB ABC-type Fe3+-hyd 22.0 1.4E+02 0.0031 25.7 4.4 33 117-150 114-146 (319)
288 COG2984 ABC-type uncharacteriz 22.0 5.8E+02 0.013 23.7 8.3 99 37-146 135-244 (322)
289 PRK06456 acetolactate synthase 21.8 4.5E+02 0.0097 25.5 8.1 70 58-129 197-284 (572)
290 PF00072 Response_reg: Respons 21.8 2.8E+02 0.0061 19.4 5.3 73 74-152 1-82 (112)
291 PF01866 Diphthamide_syn: Puta 21.7 4.4E+02 0.0095 23.7 7.5 85 58-146 196-286 (307)
292 cd05010 SIS_AgaS_like AgaS-lik 21.7 4.2E+02 0.0091 21.2 9.3 66 132-199 68-143 (151)
293 PF13528 Glyco_trans_1_3: Glyc 21.6 97 0.0021 26.9 3.2 35 117-154 93-127 (318)
294 PRK13608 diacylglycerol glucos 21.5 61 0.0013 29.8 2.0 35 117-152 103-137 (391)
295 cd01745 GATase1_2 Subgroup of 21.5 3.4E+02 0.0073 22.3 6.3 20 131-150 90-109 (189)
296 COG1648 CysG Siroheme synthase 21.3 2.9E+02 0.0063 23.7 6.0 42 119-164 73-116 (210)
297 PLN02981 glucosamine:fructose- 21.3 8.6E+02 0.019 24.6 12.7 127 69-202 532-678 (680)
298 COG0560 SerB Phosphoserine pho 21.2 2E+02 0.0042 24.5 4.9 90 70-168 92-190 (212)
299 COG4213 XylF ABC-type xylose t 21.1 2.1E+02 0.0045 26.7 5.2 88 87-182 47-140 (341)
300 PRK09522 bifunctional glutamin 20.9 4.4E+02 0.0095 25.9 7.8 74 73-149 3-85 (531)
301 cd06831 PLPDE_III_ODC_like_AZI 20.9 6.2E+02 0.013 23.6 8.6 103 44-155 13-115 (394)
302 PF11895 DUF3415: Domain of un 20.7 73 0.0016 23.6 1.8 17 198-214 22-38 (80)
303 PRK11018 hypothetical protein; 20.7 2.9E+02 0.0063 19.6 5.0 36 65-100 29-64 (78)
304 cd06303 PBP1_LuxPQ_Quorum_Sens 20.4 3.7E+02 0.008 22.7 6.5 62 116-180 58-126 (280)
No 1
>PTZ00254 40S ribosomal protein SA; Provisional
Probab=100.00 E-value=1.1e-69 Score=472.96 Aligned_cols=201 Identities=65% Similarity=1.040 Sum_probs=196.5
Q ss_pred CCCCcccccCCHHHHHHHHHcCceecCCcCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHHhhCCCcEEEEecC
Q psy16262 1 MSGGLDILSLKEDDVTKMLGAQTHIGSENSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVAIEHPADVFVISSR 80 (222)
Q Consensus 1 ~~~~~~~~~~~~~~~~~ll~a~~HlG~~~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~i~~~~~ILfv~t~ 80 (222)
||+++|+++++++++++||++|+||||++|||+|++||||+|+||+|||||++||++|++|++++..+.++++|||||||
T Consensus 1 ~~~~~~~~~~~~~~i~~lL~agvHlG~~~~np~M~~YIy~~r~dGi~IIdL~kT~~~L~~Aa~~i~~i~~~~~Il~Vstr 80 (249)
T PTZ00254 1 VSSGPKVLTPKEDDIKKMLACKCHIGTKNLENAMKKYVYKRTKEGVHIINLAKTWEKLKLAARVIAAIENPADVVVVSSR 80 (249)
T ss_pred CCCCcccCCCCHHHHHHHHhcCceeccCcCCCcccccEecccCCCCEEEcHHHHHHHHHHHHHHHHHHhCCCcEEEEEcC
Confidence 78999999999999999999999999999999999999998559999999999999999999999999899999999999
Q ss_pred hhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEE
Q psy16262 81 PIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIA 160 (222)
Q Consensus 81 ~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~Idyp 160 (222)
++++++|+++|+++|++||++||+||+||||+++.+++||+|||+||..|++||+||+++||||||||||||||++||||
T Consensus 81 ~~~~~~V~k~A~~tg~~~i~~Rw~pGtlTN~~~~~f~~P~llIV~Dp~~d~qAI~EA~~lnIPvIal~DTds~p~~VDy~ 160 (249)
T PTZ00254 81 PYGQRAVLKFAQYTGASAIAGRFTPGTFTNQIQKKFMEPRLLIVTDPRTDHQAIREASYVNIPVIALCDTDSPLEYVDIA 160 (249)
T ss_pred HHHHHHHHHHHHHhCCeEECCcccCCCCCCccccccCCCCEEEEeCCCcchHHHHHHHHhCCCEEEEecCCCCcccCcee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCchhHHHHHHHHHHHHHhhhCCCCCCCCccccccc
Q psy16262 161 IPCNNKSPHSIGLMWWLLAREVLRFRGVIGPDYLTILGTYI 201 (222)
Q Consensus 161 IP~Ndds~~si~li~~lL~~ai~~~~g~~~~~~~~~~~~~~ 201 (222)
|||||||.+||.|++|+|+|+|+++||+++++.||+++.-.
T Consensus 161 IP~Ndds~~SI~li~~lLar~Vl~~rG~~~r~~~~~v~~d~ 201 (249)
T PTZ00254 161 IPCNNRGKESIALMYWLLAREVLRLRGTLPRDEEWDVMVDL 201 (249)
T ss_pred eCCCCchHHHHHHHHHHHHHHHHHhhCccccCCCCCcCcee
Confidence 99999999999999999999999999999999999998754
No 2
>TIGR01012 Sa_S2_E_A ribosomal protein Sa(cytosolic)/S2(archaeal). TIGR01011 describes the related protein of organelles and bacteria.
Probab=100.00 E-value=5.1e-68 Score=449.57 Aligned_cols=189 Identities=53% Similarity=0.870 Sum_probs=183.9
Q ss_pred CHHHHHHHHHcCceecCCcCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHH
Q psy16262 11 KEDDVTKMLGAQTHIGSENSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKF 90 (222)
Q Consensus 11 ~~~~~~~ll~a~~HlG~~~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~ 90 (222)
+++++++|++||+|+||+.|||+|++||||+|+||+|||||+||+++|++|++++..+. +++||||||+++++++|+++
T Consensus 2 ~~~~i~~ll~agvH~Gh~~~np~M~~yI~~~r~~gi~IIdL~kT~~~L~~A~~~i~~i~-~~~ILfVgtk~~~~~~V~~~ 80 (196)
T TIGR01012 2 KLVPVDKYLAAGVHIGTQNKTKDMEKFIYKVRSDGLYVLDLRKTDERLRVAAKFLVRIE-PEDILVVSARIYGQKPVLKF 80 (196)
T ss_pred ccccHHHHHhCCeecCCCcCCCCCccceeeecCCCCEEEcHHHHHHHHHHHHHHHHHhh-CCeEEEEecCHHHHHHHHHH
Confidence 45789999999999999999999999999999779999999999999999999999987 99999999999999999999
Q ss_pred HHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchh
Q psy16262 91 ASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHS 170 (222)
Q Consensus 91 a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~s 170 (222)
|+++|++|+++||+||+||||.++.+++||+|||+||..|++|++||+++||||||+|||||||++|||||||||||.+|
T Consensus 81 A~~~g~~~v~~RWlgGtLTN~~~~~~~~Pdlliv~dp~~~~~Av~EA~~l~IP~Iai~DTn~dp~~vdypIP~Ndds~~S 160 (196)
T TIGR01012 81 AKVTGARAIAGRFTPGTFTNPMQKAFREPEVVVVTDPRADHQALKEASEVGIPIVALCDTDNPLRYVDLVIPTNNKGRHS 160 (196)
T ss_pred HHHhCCceECCeeCCCCCCCccccccCCCCEEEEECCccccHHHHHHHHcCCCEEEEeeCCCCCccCCEEECCCCchHHH
Confidence 99999999999999999999998889999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhCCCCCCCCcccccc
Q psy16262 171 IGLMWWLLAREVLRFRGVIGPDYLTILGTY 200 (222)
Q Consensus 171 i~li~~lL~~ai~~~~g~~~~~~~~~~~~~ 200 (222)
+.+++|+|+++|+++||+++++++|+++.-
T Consensus 161 i~li~~lla~ail~~~g~~~~~~~~~~~~d 190 (196)
T TIGR01012 161 LALIYWLLAREILRMRGTISRDQDWDVMYE 190 (196)
T ss_pred HHHHHHHHHHHHHHhhCccCCCCCCccChh
Confidence 999999999999999999999999998764
No 3
>PRK04020 rps2P 30S ribosomal protein S2; Provisional
Probab=100.00 E-value=1.3e-65 Score=437.23 Aligned_cols=185 Identities=42% Similarity=0.710 Sum_probs=180.6
Q ss_pred HHHHHHHHcCceecCCcCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHH
Q psy16262 13 DDVTKMLGAQTHIGSENSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFAS 92 (222)
Q Consensus 13 ~~~~~ll~a~~HlG~~~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~ 92 (222)
.++++|++||+|+||+.|||+|++||||+|+||+|||||++|+++|++|++++..+ ++++||||||+++++++|+++|+
T Consensus 10 v~i~~ll~ag~H~Gh~~~np~Mk~yIyg~r~~gi~IIdL~kT~~~L~~A~~~i~~~-~~~~ILfVgTk~~~~~~v~k~A~ 88 (204)
T PRK04020 10 VPLEEYLAAGVHIGTQQKTKDMERFIYRVRPDGLYVLDVRKTDERIRIAAKFLSRY-EPEKILVVSSRQYGQKPVQKFAE 88 (204)
T ss_pred eeHHHHHhCCeEcCCCcCCCCCcccEeeecCCCCEEEcHHHHHHHHHHHHHHHHHh-cCCeEEEEeCCHHHHHHHHHHHH
Confidence 67999999999999999999999999999977999999999999999999999987 78999999999999999999999
Q ss_pred HcCCccccccccCCccchHHHhhccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHH
Q psy16262 93 YTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIG 172 (222)
Q Consensus 93 ~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~ 172 (222)
++|++|+++||+||+||||....+.+||+|||+||..|++||+||+++||||||||||||||++|||||||||||.+||+
T Consensus 89 ~~g~~~v~~RWlgG~LTN~~~~~~~~Pdliiv~dp~~~~~AI~EA~kl~IP~IaivDTn~dp~~VdypIP~Ndds~~SI~ 168 (204)
T PRK04020 89 VVGAKAITGRFIPGTLTNPSLKGYIEPDVVVVTDPRGDAQAVKEAIEVGIPVVALCDTDNLTSNVDLVIPTNNKGRKALA 168 (204)
T ss_pred HhCCeeecCccCCCcCcCcchhccCCCCEEEEECCcccHHHHHHHHHhCCCEEEEEeCCCCcccCceeECCCCchHHHHH
Confidence 99999999999999999999888899999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhhCCCCCCCCcccc
Q psy16262 173 LMWWLLAREVLRFRGVIGPDYLTILG 198 (222)
Q Consensus 173 li~~lL~~ai~~~~g~~~~~~~~~~~ 198 (222)
+++|+|+++|+++||+++++++|.+.
T Consensus 169 li~~ll~~aIl~~kg~~~~~~~~~v~ 194 (204)
T PRK04020 169 LVYWLLAREILRERGEIKPDEDLPVP 194 (204)
T ss_pred HHHHHHHHHHHHhhCccCCCCCCCcC
Confidence 99999999999999999999999875
No 4
>COG0052 RpsB Ribosomal protein S2 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2e-63 Score=430.72 Aligned_cols=179 Identities=31% Similarity=0.506 Sum_probs=168.8
Q ss_pred CHHHHHHHHHcCceecCC--cCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHHhh-CCCcEEEEecChhhHHHH
Q psy16262 11 KEDDVTKMLGAQTHIGSE--NSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVAIE-HPADVFVISSRPIGQRAV 87 (222)
Q Consensus 11 ~~~~~~~ll~a~~HlG~~--~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~i~-~~~~ILfv~t~~~~~~~v 87 (222)
+.+++++||+||+||||+ +|||+|++|||+.| ||+|||||.||+++|..|++++..+. ++|+|||||||.+++++|
T Consensus 2 ~~vsm~~lLeAGvHfGhqtr~wnpkm~~fIf~~R-ngihIIDL~kT~~~l~~A~~~v~~~~~~~g~ILfVgTK~~a~~~V 80 (252)
T COG0052 2 AVVSMKQLLEAGVHFGHQTRRWNPKMKPFIFGER-NGIHIIDLQKTLERLREAYKFLRRIAANGGKILFVGTKKQAQEPV 80 (252)
T ss_pred CcCCHHHHHHcCccccccccccCCcccccceeec-CCcEEEEHHHHHHHHHHHHHHHHHHHcCCCEEEEEechHHHHHHH
Confidence 447899999999999996 89999999999999 99999999999999999999999865 699999999999999999
Q ss_pred HHHHHHcCCccccccccCCccchHH---------------------------------------------HhhccCCcEE
Q psy16262 88 LKFASYTGATPIAGRFTPGAFTNQI---------------------------------------------QAAFREPRLL 122 (222)
Q Consensus 88 ~~~a~~~g~~yv~~rW~gG~LTN~i---------------------------------------------~~~~~~P~lv 122 (222)
+++|+++|++||++||+||+||||. +.|.++||++
T Consensus 81 ~~~A~r~g~~yV~~RwLgG~LTN~~ti~~si~rl~~lE~~~~~~~~~~tKkE~l~l~re~~kL~k~lgGIk~m~~~Pd~l 160 (252)
T COG0052 81 KEFAERTGAYYVNGRWLGGMLTNFKTIRKSIKRLKELEKMEEDGFDGLTKKEALMLTRELEKLEKSLGGIKDMKGLPDVL 160 (252)
T ss_pred HHHHHHhCCceecCcccCccccCchhHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHhhcchhhccCCCCEE
Confidence 9999999999999999999999961 1245679999
Q ss_pred EEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHHHHhhhCCCC
Q psy16262 123 VVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAREVLRFRGVIG 190 (222)
Q Consensus 123 ii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ai~~~~g~~~ 190 (222)
||+||..|++||+||+++||||||+|||||+|+.||||||||||+.+|+.|++|+|+++|+++||...
T Consensus 161 ~ViDp~~e~iAv~EA~klgIPVvAlvDTn~dpd~VD~~IP~Ndda~rsi~Li~~~lA~ai~e~r~~~~ 228 (252)
T COG0052 161 FVIDPRKEKIAVKEANKLGIPVVALVDTNCDPDGVDYVIPGNDDAIRSIALIYWLLARAILEGRGGAL 228 (252)
T ss_pred EEeCCcHhHHHHHHHHHcCCCEEEEecCCCCCccCceeecCCChHHHHHHHHHHHHHHHHHHHhcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999998554
No 5
>TIGR01011 rpsB_bact ribosomal protein S2, bacterial type. TIGR01012 describes the archaeal and cytosolic forms.
Probab=100.00 E-value=3.1e-59 Score=404.36 Aligned_cols=174 Identities=25% Similarity=0.398 Sum_probs=165.1
Q ss_pred HHHHHHHHcCceecCC--cCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHH
Q psy16262 13 DDVTKMLGAQTHIGSE--NSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLK 89 (222)
Q Consensus 13 ~~~~~ll~a~~HlG~~--~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~ 89 (222)
.++++|+++|+|+||+ +|||+|++||||+| +|+|||||++|+.+|++|++++.. .+++|+||||+|+++.+++|++
T Consensus 2 ~~~~~ll~ag~H~Gh~~~~wnp~m~~yIyg~r-~g~~IIdL~~T~~~L~~A~~~i~~~~~~~g~iLfV~tk~~~~~~v~~ 80 (225)
T TIGR01011 2 VSMKDLLEAGVHFGHQTRRWNPKMKPFIFGER-NGIHIIDLQKTLQLLKEAYNFVKDVAANGGKILFVGTKKQAKEIIKE 80 (225)
T ss_pred cCHHHHHHcCcccccccCcCCcccccceeeee-CCeEEEcHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHH
Confidence 4689999999999996 79999999999999 999999999999999999999997 5689999999999999999999
Q ss_pred HHHHcCCccccccccCCccchHHH----------------------------------------------hhccCCcEEE
Q psy16262 90 FASYTGATPIAGRFTPGAFTNQIQ----------------------------------------------AAFREPRLLV 123 (222)
Q Consensus 90 ~a~~~g~~yv~~rW~gG~LTN~i~----------------------------------------------~~~~~P~lvi 123 (222)
+|+++|++||++||+||+||||.. .|.++||+||
T Consensus 81 ~a~~~~~~yv~~rWlgG~LTN~~~i~~~i~~l~~l~~~~~~~~f~~~~kke~~~~~k~~~kl~k~~~Gi~~m~~~Pd~vi 160 (225)
T TIGR01011 81 EAERCGMFYVNQRWLGGMLTNFKTIRKSIKKLKKLEKMEEDGTFDDLTKKEALMLSREKEKLEKSLGGIKDMKKLPDLLF 160 (225)
T ss_pred HHHHhCCcccCCeecCeeccCHHHHHHHHHHHHHHHHHHhcCccccccHHHHHHHHHHHHHHHHhccCccccccCCCEEE
Confidence 999999999999999999999832 1236899999
Q ss_pred EeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHHHHhhhC
Q psy16262 124 VTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAREVLRFRG 187 (222)
Q Consensus 124 i~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ai~~~~g 187 (222)
|+||..|++|++||.++||||||+|||||||+.|||||||||||.+|++|++++|++||++|++
T Consensus 161 i~d~~~~~~ai~Ea~~l~IP~I~ivDTn~~p~~idypIP~Ndds~~si~li~~~l~~ai~~g~~ 224 (225)
T TIGR01011 161 VIDPVKEKIAVAEARKLGIPVVAIVDTNCDPDLVDYPIPGNDDAIRSIRLLTNLIADAVLEGKQ 224 (225)
T ss_pred EeCCCccHHHHHHHHHcCCCEEEEeeCCCCCcccceeeecCCchHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999999999999999999999999999999999999985
No 6
>PRK05299 rpsB 30S ribosomal protein S2; Provisional
Probab=100.00 E-value=5e-59 Score=410.10 Aligned_cols=178 Identities=26% Similarity=0.346 Sum_probs=168.7
Q ss_pred HHHHHHHHHcCceecCC--cCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHH
Q psy16262 12 EDDVTKMLGAQTHIGSE--NSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVA-IEHPADVFVISSRPIGQRAVL 88 (222)
Q Consensus 12 ~~~~~~ll~a~~HlG~~--~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~ 88 (222)
..++++|+++|+|+||+ +|||+|++||||.| +|+|||||++|+.+|++|++++.. .+++|+||||+|+++.+++|+
T Consensus 3 ~~~i~~Ll~agvH~Gh~~~~wnp~m~~yIyg~r-~gi~IIdL~kT~~~L~~A~~~i~~~~~~~g~iLfVgTk~~~~~~V~ 81 (258)
T PRK05299 3 VVSMKQLLEAGVHFGHQTRRWNPKMKPYIFGER-NGIHIIDLQKTVPMLDEAYNFVRDVAANGGKILFVGTKKQAQEAIA 81 (258)
T ss_pred cCCHHHHHhcCcccccccCcCCCccccceeccc-CCeEEEcHHHHHHHHHHHHHHHHHHHhCCCEEEEEECcHHHHHHHH
Confidence 46799999999999996 69999999999999 999999999999999999999997 578999999999999999999
Q ss_pred HHHHHcCCccccccccCCccchHHH----------------------------------------------hhccCCcEE
Q psy16262 89 KFASYTGATPIAGRFTPGAFTNQIQ----------------------------------------------AAFREPRLL 122 (222)
Q Consensus 89 ~~a~~~g~~yv~~rW~gG~LTN~i~----------------------------------------------~~~~~P~lv 122 (222)
++|+++|++||++||+||+||||.. .|.++||+|
T Consensus 82 ~~A~~~~~~yv~~rWlgG~LTN~~ti~~~i~~l~~l~~~~~~~~~~~~~kke~~~~~k~~~kl~k~~~Gi~~m~~~Pd~i 161 (258)
T PRK05299 82 EEAERCGMPYVNHRWLGGMLTNFKTIRKSIKRLKELEKMEEDGTFEKLTKKEALMLTRELEKLEKSLGGIKDMGGLPDAL 161 (258)
T ss_pred HHHHHhCCeeeCCeecCeeccCHHHHHHHHHHHHHHHHHHhcCcccccCHHHHHHHHHHHHHHHHhccCccccccCCCEE
Confidence 9999999999999999999999832 133689999
Q ss_pred EEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHHHHhhhCCCC
Q psy16262 123 VVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAREVLRFRGVIG 190 (222)
Q Consensus 123 ii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ai~~~~g~~~ 190 (222)
||+||..|++|++||.++||||||+|||||||++|||||||||||.+||+|++++|++||++++|...
T Consensus 162 ii~d~~~~~~ai~Ea~kl~IPiIaivDTn~dp~~IdypIP~Ndds~~si~li~~~l~~ai~~g~~~~~ 229 (258)
T PRK05299 162 FVVDPNKEHIAVKEARKLGIPVVAIVDTNCDPDGVDYPIPGNDDAIRSIKLYTSKIADAILEGRQGRL 229 (258)
T ss_pred EEeCCCccHHHHHHHHHhCCCEEEEeeCCCCCcccceeeecCCchHHHHHHHHHHHHHHHHHHhhchh
Confidence 99999999999999999999999999999999999999999999999999999999999999998665
No 7
>PRK12311 rpsB 30S ribosomal protein S2/unknown domain fusion protein; Provisional
Probab=100.00 E-value=1.8e-58 Score=417.11 Aligned_cols=172 Identities=25% Similarity=0.354 Sum_probs=162.9
Q ss_pred HHHHHHcCceecCC--cCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHH
Q psy16262 15 VTKMLGAQTHIGSE--NSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFA 91 (222)
Q Consensus 15 ~~~ll~a~~HlG~~--~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a 91 (222)
+++||++|+||||+ +|||+|++||||.| +|+|||||++|+.+|++|++++.. .+++|+||||+|+++.+++|+++|
T Consensus 1 ~~~Ll~agvH~Gh~~~~wnpkM~~yIyg~R-~gihIIDL~kT~~~L~~A~~~i~~~~~~gg~iLfVgTk~~~~~~V~~~A 79 (326)
T PRK12311 1 MRQLLEAGVHFGHQSHRWNPKMAPYIFGTR-NNIHIIDLAQTVPLLHRALQAVSDTVAKGGRVLFVGTKRQAQDAVADAA 79 (326)
T ss_pred ChhHHhCCeecccCCCCCCCcccCceeccc-CCcEEEcHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCcHHHHHHHHHHH
Confidence 46899999999996 79999999999999 999999999999999999999997 578999999999999999999999
Q ss_pred HHcCCccccccccCCccchHHH----------------------------------------------hhccCCcEEEEe
Q psy16262 92 SYTGATPIAGRFTPGAFTNQIQ----------------------------------------------AAFREPRLLVVT 125 (222)
Q Consensus 92 ~~~g~~yv~~rW~gG~LTN~i~----------------------------------------------~~~~~P~lvii~ 125 (222)
+++|++||++||+||+||||.. .|.++||+|||+
T Consensus 80 ~~~g~~yV~~RWlgG~LTN~~ti~~si~~l~~l~~~~~~~~~~~~~kke~~~~~r~~~kl~k~l~Gi~~m~~~Pd~viv~ 159 (326)
T PRK12311 80 KRSAQYFVNSRWLGGTLTNWKTISGSIQRLRKLDEVLSSGEANGYTKKERLTLQRERDKLDRALGGIKDMGGLPDLLFVI 159 (326)
T ss_pred HHhCCeeeCCeecCcccCCHHHHHHHHHHHHHHHHHhhcCccccCCHHHHHHHHHHHHHHHHhccchhhcccCCCEEEEe
Confidence 9999999999999999999831 123589999999
Q ss_pred CCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHHHHhhhC
Q psy16262 126 DPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAREVLRFRG 187 (222)
Q Consensus 126 dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ai~~~~g 187 (222)
||..|++||+||+++||||||||||||||+.|||||||||||.+||+|++++|+++|++++.
T Consensus 160 d~~~e~~AI~EA~kl~IPvIaivDTn~dp~~IdypIP~NDds~~si~li~~~la~ai~~g~~ 221 (326)
T PRK12311 160 DTNKEDIAIQEAQRLGIPVAAIVDTNCDPDGITYPVPGNDDAGRAIALYCDLIARAAIDGIS 221 (326)
T ss_pred CCccchHHHHHHHHcCCCEEEEeeCCCCccccceeecCCCchHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999984
No 8
>CHL00067 rps2 ribosomal protein S2
Probab=100.00 E-value=3e-57 Score=393.07 Aligned_cols=176 Identities=23% Similarity=0.345 Sum_probs=166.4
Q ss_pred CCHHHHHHHHHcCceecCC--cCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHHh-hCCCcEEEEecChhhHHH
Q psy16262 10 LKEDDVTKMLGAQTHIGSE--NSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVAI-EHPADVFVISSRPIGQRA 86 (222)
Q Consensus 10 ~~~~~~~~ll~a~~HlG~~--~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~i-~~~~~ILfv~t~~~~~~~ 86 (222)
|...++++|+++|+|+||+ .|||+|++||||.| ||+|||||++|+.+|++|+.++..+ +++|+||||+|+++.+++
T Consensus 5 ~~~~~i~~Ll~a~~h~Gh~~~~~np~m~~yIyg~r-~g~~IIdl~~T~~~L~~A~~~i~~i~~~~g~ILfV~t~~~~~~~ 83 (230)
T CHL00067 5 MWNINLEEMLEAGVHFGHQTRKWNPKMAPYIYAER-NGIHIINLVQTARFLSEACDLVFDAASKGKKFLFVGTKKQAADL 83 (230)
T ss_pred ccccCHHHHHhcCeEeccCcCcCCCchhhhhhccc-CCcEEEcHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHH
Confidence 4457899999999999997 89999999999999 9999999999999999999999974 689999999999999999
Q ss_pred HHHHHHHcCCccccccccCCccchHHH----------------------------------------------hhccCCc
Q psy16262 87 VLKFASYTGATPIAGRFTPGAFTNQIQ----------------------------------------------AAFREPR 120 (222)
Q Consensus 87 v~~~a~~~g~~yv~~rW~gG~LTN~i~----------------------------------------------~~~~~P~ 120 (222)
|+++|+++|++||++||+||+||||.. .|.++||
T Consensus 84 v~~~a~~~~~~yv~~rWigG~LTN~~~i~~~i~~~~~l~~~~~~~~~~~~~kk~~~~~~~~~~kl~k~~~Gi~~m~~~P~ 163 (230)
T CHL00067 84 VASAAIRARCHYVNKRWLGGMLTNWSTTKTRLQKLRDLRMEEKTGLFNRLPKKEAAILKRQLSRLEKYLGGIKYMTKLPD 163 (230)
T ss_pred HHHHHHHhCCcCccCcccCCcccCHHHHHHHHHHHHHHHHHhhccchhcccHhHHHHHHHHHHHHHHhhccccccccCCC
Confidence 999999999999999999999999842 1236899
Q ss_pred EEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHHHHhhh
Q psy16262 121 LLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAREVLRFR 186 (222)
Q Consensus 121 lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ai~~~~ 186 (222)
+|||+||..|++|++||.++||||||+||||+||+.|||||||||||.+|+++++++|++||++|+
T Consensus 164 ~iiv~d~~~~~~ai~Ea~~l~IPvIaivDTn~~p~~idypIP~Ndds~~si~li~~~l~~ai~~G~ 229 (230)
T CHL00067 164 IVIIIDQQEEYTALRECRKLGIPTISILDTNCDPDLADIPIPANDDAIASIKLILNKLTTAICEGR 229 (230)
T ss_pred EEEEeCCcccHHHHHHHHHcCCCEEEEEeCCCCccccceeeecCCchHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999999999999999999999875
No 9
>cd01425 RPS2 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of ribosomal protein S1 to the 30s ribosomal subunit. In humans, most likely in all vertebrates, and perhaps in all metazoans, the protein also functions as the 67 kDa laminin receptor (LAMR1 or 67LR), which is formed from a 37 kDa precursor, and is overexpressed in many tumors. 67LR is a cell surface receptor which interacts with a variety of ligands, laminin-1 and others. It is assumed that the ligand interactions are mediated via the conserved C-terminus, which becomes extracellular as the protein undergoes conformational changes which are not well understood. Specifically, a conserved palindromic motif, LMWWML, may participate in the interactions. 67LR plays essential roles in the adhesion of cells to the basement membrane an
Probab=100.00 E-value=2.8e-56 Score=377.56 Aligned_cols=166 Identities=40% Similarity=0.683 Sum_probs=158.7
Q ss_pred HHHcCceecCC--cCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHHh-hCCCcEEEEecChhhHHHHHHHHHHc
Q psy16262 18 MLGAQTHIGSE--NSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVAI-EHPADVFVISSRPIGQRAVLKFASYT 94 (222)
Q Consensus 18 ll~a~~HlG~~--~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~i-~~~~~ILfv~t~~~~~~~v~~~a~~~ 94 (222)
|++||+|+||+ .|||+|++||||+| ||+|||||++|+.+|++|++++..+ +++|+||||+|+++.+++|+++|+++
T Consensus 1 ll~ag~h~G~~~~~wnp~m~~yiyg~r-~~~~Iidl~~T~~~L~~A~~~i~~i~~~~g~iLfV~t~~~~~~~v~~~a~~~ 79 (193)
T cd01425 1 LLEAGVHLGHKTRRWNPKMKPYIYGER-NGIHIIDLEKTLEKLRLALNFIANIAAKGGKILFVGTKPQAQRAVKKFAERT 79 (193)
T ss_pred CCccceEeCCCcCCCCccchhheeccc-CCeEEEeHHHHHHHHHHHHHHHHHHHhCCCEEEEEECCHHHHHHHHHHHHHc
Confidence 57999999997 68999999999999 9999999999999999999999985 56999999999999999999999999
Q ss_pred CCccccccccCCccchHHHh------------------------hccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecC
Q psy16262 95 GATPIAGRFTPGAFTNQIQA------------------------AFREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 95 g~~yv~~rW~gG~LTN~i~~------------------------~~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDT 150 (222)
|++|+++||+||+||||.+. ++++||+||++||..|++|++||.++||||||+|||
T Consensus 80 ~~~~i~~rw~~G~LTN~~~~~~~~~~~~~~~~~~~~k~~~g~~~~~~~Pdlviv~~~~~~~~ai~Ea~~l~IP~I~i~Dt 159 (193)
T cd01425 80 GSFYVNGRWLGGTLTNWKTIRKSIKRLKKLEKEKLEKNLGGIKDMFRLPDLVIVLDPRKEHQAIREASKLGIPVIAIVDT 159 (193)
T ss_pred CCeeecCeecCCcCCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCCCEEEEeCCccchHHHHHHHHcCCCEEEEecC
Confidence 99999999999999999532 778999999999999999999999999999999999
Q ss_pred CCCCCcceEEccCCCCCchhHHHHHHHHHHHHHh
Q psy16262 151 ESPLRFVDIAIPCNNKSPHSIGLMWWLLAREVLR 184 (222)
Q Consensus 151 d~~~~~IdypIP~Ndds~~si~li~~lL~~ai~~ 184 (222)
|+||+.|||||||||||.+|+++++++|+++|++
T Consensus 160 n~~~~~i~ypIP~Nd~s~~si~li~~~l~~ai~~ 193 (193)
T cd01425 160 NCDPDLIDYPIPANDDSIRSIALILWLLARAILE 193 (193)
T ss_pred CCCCccceEEeecCCchHHHHHHHHHHHHHHHhC
Confidence 9999999999999999999999999999999974
No 10
>PF00318 Ribosomal_S2: Ribosomal protein S2; InterPro: IPR001865 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal S2 proteins have been shown to belong to a family that includes 40S ribosomal subunit 40kDa proteins, putative laminin-binding proteins, NAB-1 protein and 29.3kDa protein from Haloarcula marismortui [, ]. The laminin-receptor proteins are thus predicted to be the eukaryotic homologue of the eubacterial S2 risosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2QNH_c 3MR8_B 3PYS_B 3MS0_B 3PYN_B 1VOZ_B 2OW8_c 3PYQ_B 3D5C_B 3PYU_B ....
Probab=100.00 E-value=4.7e-54 Score=368.55 Aligned_cols=168 Identities=33% Similarity=0.549 Sum_probs=155.9
Q ss_pred HHHcCceecCC--cCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHHh-hCCCcEEEEecChhhHHHHHHHHHHc
Q psy16262 18 MLGAQTHIGSE--NSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVAI-EHPADVFVISSRPIGQRAVLKFASYT 94 (222)
Q Consensus 18 ll~a~~HlG~~--~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~i-~~~~~ILfv~t~~~~~~~v~~~a~~~ 94 (222)
|+++|+|+||+ .|||+|++||||+| +|+|||||++|+.+|++|++++..+ +++|+||||+|+++.+++|+++|+++
T Consensus 1 Ll~a~~HlG~~~~~~n~~m~~yI~g~r-~g~~IidL~kT~~~L~~A~~~i~~i~~~~~~ILfV~t~~~~~~~v~~~a~~~ 79 (211)
T PF00318_consen 1 LLKAGVHLGHKKSRWNPKMKPYIYGKR-NGIHIIDLEKTLEQLRKALKFIKSIAKNGGKILFVGTKPQASKIVKKFAKRT 79 (211)
T ss_dssp HHHHTTTSCBSSSSSSGGGGGGEEEEE-TTEEEETHHHHHHHHHHHHHHHHHHHTTTGGEEEEECSTTHHHHHHHHHHHH
T ss_pred CcccceecCCCcCCCCCCcccceeccc-CceEEEEHHHHHHHHHHHHHHHHHhhcCCCeEEEEEcchHHHHHHHHHHHHh
Confidence 78999999997 69999999999999 9999999999999999999999986 68899999999999999999999999
Q ss_pred CCccccccccCCccchHHH----------------------------------------hhccCCcEEEEeCCCCCchhh
Q psy16262 95 GATPIAGRFTPGAFTNQIQ----------------------------------------AAFREPRLLVVTDPHTDHQPI 134 (222)
Q Consensus 95 g~~yv~~rW~gG~LTN~i~----------------------------------------~~~~~P~lvii~dp~~d~~aI 134 (222)
|++|+++||+||+||||.+ .+.+.||+||++||..|++|+
T Consensus 80 ~~~yi~~rWi~G~LTN~~~i~~~i~~l~~l~~~~~~~kk~~~~~~~~~~kl~k~~~Gi~~l~~~P~~vii~~~~~~~~~i 159 (211)
T PF00318_consen 80 GSFYINERWIGGTLTNWKTIKKSIKKLKKLEKLFKLTKKENAKLKKKYQKLKKYFGGIKNLKKLPDLVIILDPNKNKNAI 159 (211)
T ss_dssp TCEEEESS-STTTTTTTTHCHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHCTTTTTCSSSBSEEEESSTTTTHHHH
T ss_pred CCCccCceecCcccCcHHHHHHHHHHHHHHHHhhhccchhhhhhHHHHHHhhhhhHhhhcccccCcEEEEecccccchhH
Confidence 9999999999999999831 134679999999999999999
Q ss_pred hHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHHHHhhh
Q psy16262 135 TEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAREVLRFR 186 (222)
Q Consensus 135 ~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ai~~~~ 186 (222)
+||.++||||||+|||||||+.|||||||||||.+|+++++++|+++|++||
T Consensus 160 ~Ea~~l~IP~i~i~Dtn~~~~~i~ypIp~N~~s~~si~~i~~~l~~ai~~g~ 211 (211)
T PF00318_consen 160 REANKLNIPTIAIVDTNCNPSLIDYPIPANDDSIKSIYLILNLLAKAILEGK 211 (211)
T ss_dssp HHHHHTTS-EEEEESTTS-GTTSSEEEES-SSSHHHHHHHHHHHHHHHHHTC
T ss_pred HHHHhcCceEEEeecCCCCccccceEeecCCccHHHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999875
No 11
>KOG0832|consensus
Probab=100.00 E-value=9.1e-53 Score=359.29 Aligned_cols=182 Identities=25% Similarity=0.404 Sum_probs=170.3
Q ss_pred cccccCCH-HHHHHHHHcCceecCC--cCCCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHHhh-CCCcEEEEecC
Q psy16262 5 LDILSLKE-DDVTKMLGAQTHIGSE--NSDYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVAIE-HPADVFVISSR 80 (222)
Q Consensus 5 ~~~~~~~~-~~~~~ll~a~~HlG~~--~~np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~i~-~~~~ILfv~t~ 80 (222)
.|++++++ .++++|+.||+||||+ .||+.|++||||+| +|+|||||+||..+|++|++|.+.++ .+|.||||+|+
T Consensus 39 ~d~fn~~~~~~v~~L~~agvHlGh~t~~wn~~m~pyiyG~R-~Gi~IIdLdqT~~~Lr~A~~fVa~vA~r~GiILFv~tn 117 (251)
T KOG0832|consen 39 KDYFNVPELISVEELFNAGVHLGHKTGKWNPRMKPYIYGKR-LGIHIIDLDQTASYLRRALNFVAHVAHRGGIILFVGTN 117 (251)
T ss_pred hhhhcchhhccHHHHHhccccccccccccCcccchhhcccc-cCcEEEecHHHHHHHHHHHHHHHHHHhcCCeEEEEecC
Confidence 58888777 9999999999999997 79999999999999 99999999999999999999999876 47899999999
Q ss_pred hhhHHHHHHHHHHcCCccccccccCCccchHHH------h------------hccCCcEEEEeCCCCCchhhhHhhhcCC
Q psy16262 81 PIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQ------A------------AFREPRLLVVTDPHTDHQPITEAAYVNI 142 (222)
Q Consensus 81 ~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~------~------------~~~~P~lvii~dp~~d~~aI~Ea~~l~I 142 (222)
+.....|+++|++++++|++.+|.||+|||+-. + ....||+|||+|+.+++.|+.||.|++|
T Consensus 118 ~~~~~~ve~aA~r~~gy~~~~~w~~G~lTN~~~l~g~~~~~~~~~pd~~~f~~t~~~D~vvvln~~e~~sAilEA~K~~I 197 (251)
T KOG0832|consen 118 NGFKDLVERAARRAGGYSHNRKWLGGLLTNARELFGALVRKFLSLPDALCFLPTLTPDLVVVLNPEENHSAILEAAKMAI 197 (251)
T ss_pred cchHHHHHHHHHHhcCceeeeeeccceeecchhhcccccccccCCCcceeecccCCcceeEecCcccccHHHHHHHHhCC
Confidence 999999999999999999999999999999721 0 1235899999999999999999999999
Q ss_pred CEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHHHHhhhC
Q psy16262 143 PVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAREVLRFRG 187 (222)
Q Consensus 143 P~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ai~~~~g 187 (222)
|||||+||||+|++|||||||||||..|+.|++.++.++|.+++.
T Consensus 198 PTIgIVDtN~~P~liTYpVPaNDDs~~sv~f~~~l~k~ai~~g~~ 242 (251)
T KOG0832|consen 198 PTIGIVDTNCNPELITYPVPANDDSPASVEFILNLLKRAIARGKQ 242 (251)
T ss_pred CeEEEecCCCCccceeeccCCCCCcHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999998863
No 12
>KOG0830|consensus
Probab=100.00 E-value=5.6e-45 Score=312.41 Aligned_cols=171 Identities=74% Similarity=1.178 Sum_probs=167.7
Q ss_pred CCcccccceeeccCCceeeeHHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccch
Q psy16262 31 DYQMEQYVYKRRNDGVHILNLRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTN 110 (222)
Q Consensus 31 np~M~~yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN 110 (222)
+.+|.+|+|++|++|+|||||.+||++|..|++.|+.+++++.|.++|+++.++++|.|||..+|...|.||+.||+|||
T Consensus 2 ~~~~~~y~~~~~~d~~~i~~~~~twekl~~aar~i~aienp~dv~v~ssr~~gqravlkfa~~tgatpiag~ftpg~ftn 81 (254)
T KOG0830|consen 2 NFQMEQYIYKRRSDGIYIINLGRTWEKLLLAARAIVAIENPADVSVISSRNTGQRAVLKFAAATGATPIAGRFTPGTFTN 81 (254)
T ss_pred CcccccccccccCCceEEeeccccHHHHHHHHHHHhhccCccceEEEccCCcchhHHHHHHHhhCCCcccccccccccch
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHHHHhhhCCCC
Q psy16262 111 QIQAAFREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAREVLRFRGVIG 190 (222)
Q Consensus 111 ~i~~~~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ai~~~~g~~~ 190 (222)
++++.|++|.++||+||+.|||+|+|++..|+|||+|||||+++++||+.|||||++.+||.+++|+|+|+|+++||+++
T Consensus 82 ~iq~~f~epr~lvvtdpr~d~q~~~E~s~~n~p~ialcnTDSpL~~VDIAIPcNNKG~hSVgl~ww~LareVLrmrgtis 161 (254)
T KOG0830|consen 82 QIQAAFREPRLLVVTDPRADHQPLTEASYVNLPTIALCNTDSPLCYVDIAIPCNNKGAHSVGVMWWMLAREVLRMRGTIS 161 (254)
T ss_pred HHHHhhcCCceeeecCcccccchhhhhhhcCCceEEEecCCCccceeeeeeecCCCCcccchhhhhhhhHHHHHHHhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred C-CCCccccccc
Q psy16262 191 P-DYLTILGTYI 201 (222)
Q Consensus 191 ~-~~~~~~~~~~ 201 (222)
+ ..||++++..
T Consensus 162 ~~~~~~~~m~dl 173 (254)
T KOG0830|consen 162 RLQHPWEVMPDL 173 (254)
T ss_pred hhccchhhcCCc
Confidence 6 9999999655
No 13
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=95.59 E-value=0.4 Score=43.33 Aligned_cols=138 Identities=14% Similarity=0.146 Sum_probs=85.3
Q ss_pred HHHHHHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccc-----------h---------
Q psy16262 52 RRTWEKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFT-----------N--------- 110 (222)
Q Consensus 52 ~~T~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LT-----------N--------- 110 (222)
.+..+.+..++..+.. ++++|+|.+++....+.-++..+++...-+-....++.|.+. +
T Consensus 42 ~~~l~~I~~av~~~~~~l~~ggrI~~~GaGtSg~la~~da~e~~~tfg~~~~~v~~iiagG~~a~~~a~e~~ed~~~~~~ 121 (299)
T PRK05441 42 EKALPQIAAAVDAAAAALRQGGRLIYIGAGTSGRLGVLDASECPPTFGVPPELVVGLIAGGEKALTKAVEGAEDDAELGA 121 (299)
T ss_pred HHhHHHHHHHHHHHHHHHHCCCEEEEEcCcHHHHHHHHHHHhCcCccCCCchhceeeecCCcHHHHhcccccCChHHHHH
Confidence 3344555556655553 678999999999987765555555544332121112222211 1
Q ss_pred -HHHh-hccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCC-C-cceEEccCCC-----------CCchhH
Q psy16262 111 -QIQA-AFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPL-R-FVDIAIPCNN-----------KSPHSI 171 (222)
Q Consensus 111 -~i~~-~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~-~-~IdypIP~Nd-----------ds~~si 171 (222)
.++. ....-|++|.+...-. ..+++.|+..|.|+|+|++...++ . ..|++|.... .+..+.
T Consensus 122 ~~l~~~~l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tI~IT~~~~s~La~~aD~~I~~~~g~E~~~~st~~~s~taq 201 (299)
T PRK05441 122 ADLKAINLTAKDVVVGIAASGRTPYVIGALEYARERGALTIGISCNPGSPLSKEADIAIEVVVGPEVLTGSTRMKAGTAQ 201 (299)
T ss_pred HHHHhcCCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhhHhCCEEEEcCCCCccccccccccchhHH
Confidence 1112 2456788888864332 678999999999999999754333 2 3666664332 245578
Q ss_pred HHHHHHHHHHHHhhhCCC
Q psy16262 172 GLMWWLLAREVLRFRGVI 189 (222)
Q Consensus 172 ~li~~lL~~ai~~~~g~~ 189 (222)
.+++.+|+..+....|.+
T Consensus 202 k~iLn~lst~~~~~~gkv 219 (299)
T PRK05441 202 KLVLNMISTGVMIRLGKV 219 (299)
T ss_pred HHHHHHHHHHHHHHccHH
Confidence 888899988887776654
No 14
>cd05007 SIS_Etherase N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid carries a unique D-lactyl ether substituent at the C3 position. The etherase catalyzes the cleavage of the lactyl ether bond of N-acetylmuramic acid 6-phosphate.
Probab=95.54 E-value=0.34 Score=42.80 Aligned_cols=136 Identities=15% Similarity=0.140 Sum_probs=83.3
Q ss_pred HHHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHcCCcc-----ccccccCCcc------chH----------H
Q psy16262 55 WEKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYTGATP-----IAGRFTPGAF------TNQ----------I 112 (222)
Q Consensus 55 ~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~y-----v~~rW~gG~L------TN~----------i 112 (222)
.+.+..++..+.. ++++|++.++|....+.-++...++...-+- +.+--.||.- -|. +
T Consensus 32 l~~I~~av~~~~~~l~~ggrl~~~GaGtSg~la~~da~e~~~tfg~~~~~v~~~iagg~~a~~~a~~~~edd~~~~~~~l 111 (257)
T cd05007 32 LPQIARAVDAAAERLRAGGRLIYVGAGTSGRLGVLDASELPPTFGTPPERVVGLIAGGEPALTRAVEGAEDDEEAGAADL 111 (257)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEcCcHHHHHHHHHHHhccccccCCcccceEEEeCCHHHHHhhccccCChHHHHHHHH
Confidence 3456666666664 7889999999999877655554444442221 1111122211 010 1
Q ss_pred Hh-hccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCC-C-cceEEccCCC-----------CCchhHHHH
Q psy16262 113 QA-AFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPL-R-FVDIAIPCNN-----------KSPHSIGLM 174 (222)
Q Consensus 113 ~~-~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~-~-~IdypIP~Nd-----------ds~~si~li 174 (222)
+. ...+-|++|.+...-+ ..+++.|++.|.|+|+|+....++ . ..|+.|.... .+..+..++
T Consensus 112 ~a~~l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~I~It~~~~s~L~~~aD~~I~~~~g~E~~~~st~~~s~~aqk~v 191 (257)
T cd05007 112 QAINLTERDVVIGIAASGRTPYVLGALRYARARGALTIGIACNPGSPLLQLADIAIALITGPEVVAGSTRLKAGTAQKLA 191 (257)
T ss_pred HHcCCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEEcCCCCccccCccccccHHHHHHH
Confidence 11 2357788888874333 678899999999999999654333 2 2566664332 244677888
Q ss_pred HHHHHHHHHhhhCCCC
Q psy16262 175 WWLLAREVLRFRGVIG 190 (222)
Q Consensus 175 ~~lL~~ai~~~~g~~~ 190 (222)
+.+|+-.+....|.+-
T Consensus 192 Ln~L~t~~~~~~g~v~ 207 (257)
T cd05007 192 LNMLSTAVMIRLGKVY 207 (257)
T ss_pred HHHHHHHHHHHcchHH
Confidence 8888888877666553
No 15
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=94.67 E-value=1.1 Score=40.51 Aligned_cols=137 Identities=15% Similarity=0.169 Sum_probs=84.9
Q ss_pred HHHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCcc-------ch--------------HH
Q psy16262 55 WEKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAF-------TN--------------QI 112 (222)
Q Consensus 55 ~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~L-------TN--------------~i 112 (222)
...+..++..+.. ++++|+|++++....+.-.+...+.....+-+...-+.|.+ .+ .+
T Consensus 41 ~~~I~~a~~~~~~~l~~ggrl~~~GaG~Sg~la~~dA~e~~~tf~~~~~~~~~~iagg~~a~~~a~~~~ed~~~~~~~~l 120 (296)
T PRK12570 41 LPQIAQAVDKIVAAFKKGGRLIYMGAGTSGRLGVLDASECPPTFSVSPEMVIGLIAGGPEAMFTAVEGAEDDPELGAQDL 120 (296)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEECCchhHHHHHHHHHhCcchhcCCcccceeeeecCchHhhhcccccCCcHHHHHHHH
Confidence 3455555665553 78899999999988765444444444333222111111111 11 01
Q ss_pred Hh-hccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCC--CcceEEcc---CCC--------CCchhHHHH
Q psy16262 113 QA-AFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPL--RFVDIAIP---CNN--------KSPHSIGLM 174 (222)
Q Consensus 113 ~~-~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~--~~IdypIP---~Nd--------ds~~si~li 174 (222)
+. ...+-|++|++...-+ ..+++.|+..|.++|++......+ +..|+.|. +.. .+..+..++
T Consensus 121 ~a~~l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~IaIT~~~~s~La~~aD~~I~~~~g~E~~~~st~~~s~taqk~v 200 (296)
T PRK12570 121 KAIGLTADDVVVGIAASGRTPYVIGALEYAKQIGATTIALSCNPDSPIAKIADIAISPVVGPEVLTGSTRLKSGTAQKMV 200 (296)
T ss_pred HHcCCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEeeCcCCccccccchHHHHHHHHHH
Confidence 11 2356799888876544 478999999999999999764433 24677764 222 245688888
Q ss_pred HHHHHHHHHhhhCCCCC
Q psy16262 175 WWLLAREVLRFRGVIGP 191 (222)
Q Consensus 175 ~~lL~~ai~~~~g~~~~ 191 (222)
+.+|+..+....|.+-.
T Consensus 201 Ld~L~t~~~~r~Gk~~~ 217 (296)
T PRK12570 201 LNMLSTASMIRLGKSYQ 217 (296)
T ss_pred HHHHHHHHHHhcchhhc
Confidence 89998888877777653
No 16
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=94.33 E-value=2 Score=35.13 Aligned_cols=109 Identities=13% Similarity=0.122 Sum_probs=61.9
Q ss_pred HHHHHHHHHHHHH-hhCCCcEEEEecChhhH---HHHHHHHHHcCCc--cccccccCC------ccch----------HH
Q psy16262 55 WEKLLLAARAIVA-IEHPADVFVISSRPIGQ---RAVLKFASYTGAT--PIAGRFTPG------AFTN----------QI 112 (222)
Q Consensus 55 ~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~---~~v~~~a~~~g~~--yv~~rW~gG------~LTN----------~i 112 (222)
.+++.+++..+.. +.+.++|.+++...... .+..++..+.+.. -+...+..+ ...| +.
T Consensus 16 ~~~i~~a~~~i~~~i~~~~~I~i~G~G~S~~~A~~~~~~l~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (177)
T cd05006 16 AEAIEQAAQLLAEALLNGGKILICGNGGSAADAQHFAAELVKRFEKERPGLPAIALTTDTSILTAIANDYGYEEVFSRQV 95 (177)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEeCcHHHHHHHHHHHHHhchhccCCCCCceEeccCCHHHHHHHhccCCHHHHHHHHH
Confidence 4567778887875 56778898988885432 2222232221000 011112221 1111 11
Q ss_pred HhhccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCC-C-cceEEccC
Q psy16262 113 QAAFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPL-R-FVDIAIPC 163 (222)
Q Consensus 113 ~~~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~-~-~IdypIP~ 163 (222)
......-|++|++...-+ ..+++.|+..|+|+|+|.+...++ . ..|+.|..
T Consensus 96 ~~~~~~~Dv~I~iS~SG~t~~~i~~~~~ak~~Ga~vI~IT~~~~s~La~~aD~~l~~ 152 (177)
T cd05006 96 EALGQPGDVLIGISTSGNSPNVLKALEAAKERGMKTIALTGRDGGKLLELADIEIHV 152 (177)
T ss_pred HHhCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEe
Confidence 223577899998875333 578899999999999999875544 2 24444433
No 17
>PRK13938 phosphoheptose isomerase; Provisional
Probab=94.31 E-value=1.6 Score=37.20 Aligned_cols=126 Identities=16% Similarity=0.198 Sum_probs=70.9
Q ss_pred HHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHcCCcccccc--------ccCC-ccc-------------hHH
Q psy16262 56 EKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYTGATPIAGR--------FTPG-AFT-------------NQI 112 (222)
Q Consensus 56 ~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~r--------W~gG-~LT-------------N~i 112 (222)
+.+..++..+.. ++++++|++.+....+.- -..++.+..-.|-.+| ..++ .++ .+.
T Consensus 29 ~~~~~~a~~~~~~l~~g~rI~i~G~G~S~~~-A~~fa~~L~~~~~~~r~~lg~~~l~~~~~~~~a~~nd~~~~~~~~~~~ 107 (196)
T PRK13938 29 EAARAIGDRLIAGYRAGARVFMCGNGGSAAD-AQHFAAELTGHLIFDRPPLGAEALHANSSHLTAVANDYDYDTVFARAL 107 (196)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEeCcHHHHH-HHHHHHHcCCCccCCcCccceEEEeCChHHHHHhhccccHHHHHHHHH
Confidence 344455555553 778899999887766533 3334444321111111 0111 111 123
Q ss_pred HhhccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCC--CcceEEccCCCCCchhHH----HHHHHHHHHH
Q psy16262 113 QAAFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPL--RFVDIAIPCNNKSPHSIG----LMWWLLAREV 182 (222)
Q Consensus 113 ~~~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~--~~IdypIP~Ndds~~si~----li~~lL~~ai 182 (222)
.....+-|++|++...-+ ..+++.|++.|+|+|+|.+...++ +..|+.|....+...-+. +++++|...|
T Consensus 108 ~~~~~~~DllI~iS~SG~t~~vi~a~~~Ak~~G~~vI~iT~~~~s~La~~aD~~l~v~~~e~~~v~e~h~~~~h~l~~~v 187 (196)
T PRK13938 108 EGSARPGDTLFAISTSGNSMSVLRAAKTARELGVTVVAMTGESGGQLAEFADFLINVPSRDTGRIQESHIVFIHAISEHV 187 (196)
T ss_pred HhcCCCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCChhhhhCCEEEEeCCCchhhHHHHHHHHHHHHHHHH
Confidence 345678899999975433 578899999999999999865544 235665544444333333 2344454444
No 18
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=94.00 E-value=2.6 Score=35.50 Aligned_cols=107 Identities=19% Similarity=0.176 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHc---------CCccccccccCC-ccc-------------hH
Q psy16262 56 EKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYT---------GATPIAGRFTPG-AFT-------------NQ 111 (222)
Q Consensus 56 ~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~---------g~~yv~~rW~gG-~LT-------------N~ 111 (222)
+.+.+|+..+.. +.++++|.++|...... ..+.+|... |-..+.. ... .++ .+
T Consensus 28 ~~i~~a~~~i~~al~~~~rI~i~G~G~S~~-~A~~~a~~l~~~~~~~r~g~~~~~~--~d~~~~~~~~~d~~~~~~~~~~ 104 (192)
T PRK00414 28 HAIQRAAVLIADSFKAGGKVLSCGNGGSHC-DAMHFAEELTGRYRENRPGYPAIAI--SDVSHLSCVSNDFGYDYVFSRY 104 (192)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEeCcHHHH-HHHHHHHHhcccccCCCCCceEEec--CcHHHHhhhhccCCHHHHHHHH
Confidence 557778887875 67889999888876543 222333221 2111110 000 111 11
Q ss_pred HHhhccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCC--CcceEEccCCC
Q psy16262 112 IQAAFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPL--RFVDIAIPCNN 165 (222)
Q Consensus 112 i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~--~~IdypIP~Nd 165 (222)
.....++-|++|++...-+ ..+++.|+..|+|+|+|+....++ +..|+.|....
T Consensus 105 ~~~~~~~~Dv~I~iS~SG~t~~~i~~~~~ak~~g~~iI~iT~~~~s~l~~~ad~~l~~~~ 164 (192)
T PRK00414 105 VEAVGREGDVLLGISTSGNSGNIIKAIEAARAKGMKVITLTGKDGGKMAGLADIEIRVPH 164 (192)
T ss_pred HHHhCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCCEEEEeCC
Confidence 2233467799998874433 578889999999999999764433 23566665555
No 19
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=93.96 E-value=2.5 Score=34.56 Aligned_cols=82 Identities=15% Similarity=0.092 Sum_probs=47.5
Q ss_pred hhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCCC----chhhhHhhhcCCC
Q psy16262 68 IEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD----HQPITEAAYVNIP 143 (222)
Q Consensus 68 i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP 143 (222)
+.+.++|.++|..... -+...++.+....-..-.+...... ....+-|++|+++-..+ ..+++.|+..|+|
T Consensus 27 l~~a~~I~i~G~G~S~-~~A~~~~~~l~~~g~~~~~~~~~~~----~~~~~~Dv~I~iS~sG~t~~~i~~~~~ak~~g~~ 101 (179)
T TIGR03127 27 IIKAKRIFVAGAGRSG-LVGKAFAMRLMHLGFNVYVVGETTT----PSIKKGDLLIAISGSGETESLVTVAKKAKEIGAT 101 (179)
T ss_pred HHhCCEEEEEecCHHH-HHHHHHHHHHHhCCCeEEEeCCccc----CCCCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCe
Confidence 3456788888887543 2223333332111111112222221 23467788888874322 4677789999999
Q ss_pred EEEEecCCCCC
Q psy16262 144 VIAFCNTESPL 154 (222)
Q Consensus 144 ~IalvDTd~~~ 154 (222)
+|+|+|...+|
T Consensus 102 ii~IT~~~~s~ 112 (179)
T TIGR03127 102 VAAITTNPEST 112 (179)
T ss_pred EEEEECCCCCc
Confidence 99999976555
No 20
>cd05005 SIS_PHI Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with formadelhyde to become hexulose-6-phosphate, which is then isomerized to fructose-6-phosphate by PHI.
Probab=93.67 E-value=2.6 Score=34.59 Aligned_cols=90 Identities=18% Similarity=0.171 Sum_probs=52.5
Q ss_pred hhCCCcEEEEecChhhHHHHHHHHHHc---CCccccccccCCccchHHHhhccCCcEEEEeCCCCC----chhhhHhhhc
Q psy16262 68 IEHPADVFVISSRPIGQRAVLKFASYT---GATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD----HQPITEAAYV 140 (222)
Q Consensus 68 i~~~~~ILfv~t~~~~~~~v~~~a~~~---g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l 140 (222)
+.+.++|.++|.+... -+...++.+. |.... ..+.... ....+-|++|++....+ ..+++.|+..
T Consensus 30 i~~a~~I~i~G~G~S~-~~A~~~~~~l~~~g~~~~---~~~~~~~----~~~~~~D~vI~iS~sG~t~~~i~~~~~ak~~ 101 (179)
T cd05005 30 ILNAKRIFVYGAGRSG-LVAKAFAMRLMHLGLNVY---VVGETTT----PAIGPGDLLIAISGSGETSSVVNAAEKAKKA 101 (179)
T ss_pred HHhCCeEEEEecChhH-HHHHHHHHHHHhCCCeEE---EeCCCCC----CCCCCCCEEEEEcCCCCcHHHHHHHHHHHHC
Confidence 4455789888887543 2222333322 32211 1222221 23456788888874333 4578889999
Q ss_pred CCCEEEEecCCCCCC----cceEEccCCC
Q psy16262 141 NIPVIAFCNTESPLR----FVDIAIPCNN 165 (222)
Q Consensus 141 ~IP~IalvDTd~~~~----~IdypIP~Nd 165 (222)
|+|+|+|.|+..+|- .+.+.+|...
T Consensus 102 g~~iI~IT~~~~s~la~~ad~~l~~~~~~ 130 (179)
T cd05005 102 GAKVVLITSNPDSPLAKLADVVVVIPAAT 130 (179)
T ss_pred CCeEEEEECCCCCchHHhCCEEEEeCCcc
Confidence 999999999866553 2444556544
No 21
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=92.82 E-value=3.6 Score=35.02 Aligned_cols=127 Identities=13% Similarity=0.170 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHH-hhCCCcEEEEecChhh---HHHHHHHHH-----HcCCcccc----ccccC---------CccchHHH
Q psy16262 56 EKLLLAARAIVA-IEHPADVFVISSRPIG---QRAVLKFAS-----YTGATPIA----GRFTP---------GAFTNQIQ 113 (222)
Q Consensus 56 ~~L~~a~~~i~~-i~~~~~ILfv~t~~~~---~~~v~~~a~-----~~g~~yv~----~rW~g---------G~LTN~i~ 113 (222)
+.+..|+..+.. +.++++|+++|....+ +.+..++.. +.|...+. .-|.. -.|..+++
T Consensus 25 ~~i~~a~~~l~~~l~~~~rI~~~G~GgSa~~A~~~a~~l~~~~~~~r~gl~a~~l~~d~~~~ta~and~~~~~~f~~ql~ 104 (196)
T PRK10886 25 DAISRAAMTLVQSLLNGNKILCCGNGTSAANAQHFAASMINRFETERPSLPAIALNTDNVVLTAIANDRLHDEVYAKQVR 104 (196)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEECcHHHHHHHHHHHHHhccccccCCCcceEEecCcHHHHHHHhccccHHHHHHHHHH
Confidence 556677777775 6788999999887643 233323321 22222111 00110 01111234
Q ss_pred hhccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCC-CCCCcc----eEEccCCCCCchhHH----HHHHHHHH
Q psy16262 114 AAFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTE-SPLRFV----DIAIPCNNKSPHSIG----LMWWLLAR 180 (222)
Q Consensus 114 ~~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd-~~~~~I----dypIP~Ndds~~si~----li~~lL~~ 180 (222)
....+-|++|++...-+ ..+++.|+..|.|+|+|.-.+ ++.... |+.|.-+.++..=+. +++.+|..
T Consensus 105 ~~~~~gDvli~iS~SG~s~~v~~a~~~Ak~~G~~vI~IT~~~~s~l~~l~~~~D~~i~ip~~~~~~v~e~h~~i~H~l~~ 184 (196)
T PRK10886 105 ALGHAGDVLLAISTRGNSRDIVKAVEAAVTRDMTIVALTGYDGGELAGLLGPQDVEIRIPSHRSARIQEMHMLTVNCLCD 184 (196)
T ss_pred HcCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCChhhhccccCCEEEEcCCCchHHHHHHHHHHHHHHHH
Confidence 55678899998875443 567888999999999999643 333332 555555555544333 23444444
Q ss_pred HH
Q psy16262 181 EV 182 (222)
Q Consensus 181 ai 182 (222)
.|
T Consensus 185 ~v 186 (196)
T PRK10886 185 LI 186 (196)
T ss_pred HH
Confidence 44
No 22
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=92.69 E-value=3.3 Score=37.16 Aligned_cols=137 Identities=15% Similarity=0.120 Sum_probs=69.6
Q ss_pred HHHHHHHHHHHHHHHHH-hhCC-CcEEEEecChhhHHHHHHHHHHc---CCccccccccCCccchHHHhhccCCcEEEEe
Q psy16262 51 LRRTWEKLLLAARAIVA-IEHP-ADVFVISSRPIGQRAVLKFASYT---GATPIAGRFTPGAFTNQIQAAFREPRLLVVT 125 (222)
Q Consensus 51 L~~T~~~L~~a~~~i~~-i~~~-~~ILfv~t~~~~~~~v~~~a~~~---g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~ 125 (222)
+++|...+...+..+.. +.+. ++|.|.+...... +...++.+. |..... ..+..+....-....+-|++|++
T Consensus 25 ~~~t~~~~~~~l~~~~~~l~~a~~~I~i~G~G~S~~-~a~~~~~~l~~~g~~~~~--~~~~~~~~~~~~~~~~~d~~I~i 101 (326)
T PRK10892 25 LAELDQYINQDFTLACEKMFWCKGKVVVMGMGKSGH-IGRKMAATFASTGTPSFF--VHPGEAAHGDLGMVTPQDVVIAI 101 (326)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCeEEEEeCcHhHH-HHHHHHHHHhcCCceeEE--eChHHhhccccccCCCCCEEEEE
Confidence 44554444433333333 3343 6898888885432 333344332 332111 01111111111234567888888
Q ss_pred CCCCC----chhhhHhhhcCCCEEEEecCCCCCC--cceEEc--cC-------CC---CCchhHHHHHHHHHHHHHhhhC
Q psy16262 126 DPHTD----HQPITEAAYVNIPVIAFCNTESPLR--FVDIAI--PC-------NN---KSPHSIGLMWWLLAREVLRFRG 187 (222)
Q Consensus 126 dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~~--~IdypI--P~-------Nd---ds~~si~li~~lL~~ai~~~~g 187 (222)
...-+ ..+++.|+..|+|+|+|.+...++- .-|+.+ +. +. .|.-+..++...|+...++.+|
T Consensus 102 S~sG~t~~~~~~~~~ak~~g~~vi~iT~~~~s~la~~ad~~l~~~~~~~~~~~~~~~~~s~ia~~~~~dsL~~~~l~~~g 181 (326)
T PRK10892 102 SNSGESSEILALIPVLKRLHVPLICITGRPESSMARAADIHLCVKVPKEACPLGLAPTSSTTATLVMGDALAVALLKARG 181 (326)
T ss_pred eCCCCCHHHHHHHHHHHHCCCcEEEEECCCCCcccccCCEEEEeCCCcccCCCCCCchHHHHHHHHHHHHHHHHHHHHhC
Confidence 74332 6788999999999999999764442 244443 31 11 2222334444455555555555
Q ss_pred CCC
Q psy16262 188 VIG 190 (222)
Q Consensus 188 ~~~ 190 (222)
...
T Consensus 182 ~~~ 184 (326)
T PRK10892 182 FTA 184 (326)
T ss_pred CCH
Confidence 544
No 23
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=92.54 E-value=1.3 Score=35.11 Aligned_cols=93 Identities=24% Similarity=0.264 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHc-CCccccccccC-----C----ccchH----------HH
Q psy16262 55 WEKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYT-GATPIAGRFTP-----G----AFTNQ----------IQ 113 (222)
Q Consensus 55 ~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~-g~~yv~~rW~g-----G----~LTN~----------i~ 113 (222)
.+.+.+|+..+.. ++++|+|++.++......+ ..++.+. +...+...-.+ . ...|. +.
T Consensus 18 ~~~i~~aa~~i~~~~~~gg~i~~~G~G~S~~~a-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 96 (138)
T PF13580_consen 18 AEAIEKAADLIAEALRNGGRIFVCGNGHSAAIA-SHFAADLGGLFGVNRILLPAIALNDDALTAISNDLEYDEGFARQLL 96 (138)
T ss_dssp HHHHHHHHHHHHHHHHTT--EEEEESTHHHHHH-HHHHHHHHCHSSSTSSS-SEEETTSTHHHHHHHHTTGGGTHHHHHH
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEcCchhhhHH-HHHHHHHhcCcCCCcccccccccccchHhhhhcccchhhHHHHHHH
Confidence 3566777888875 7889999999988765433 3333333 33222211111 1 12222 22
Q ss_pred hh--ccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEe
Q psy16262 114 AA--FREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFC 148 (222)
Q Consensus 114 ~~--~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~Ialv 148 (222)
+. .+.-|++|++...-+ ..++++|++.|.+||||.
T Consensus 97 ~~~~~~~gDvli~iS~SG~s~~vi~a~~~Ak~~G~~vIalT 137 (138)
T PF13580_consen 97 ALYDIRPGDVLIVISNSGNSPNVIEAAEEAKERGMKVIALT 137 (138)
T ss_dssp HHTT--TT-EEEEEESSS-SHHHHHHHHHHHHTT-EEEEEE
T ss_pred HHcCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEEe
Confidence 33 578899988865333 457899999999999985
No 24
>TIGR00274 N-acetylmuramic acid 6-phosphate etherase. This protein, MurQ, is involved in recycling components of the bacterial murein sacculus turned over during cell growth. The cell wall metabolite anhydro-N-acetylmuramic acid (anhMurNAc) is converted by a kinase, AnmK, to MurNAc-phosphate, then converted to N-acetylglucosamine-phosphate by this etherase, called MurQ. This family of proteins is similar to the C-terminal half of a number of vertebrate glucokinase regulator proteins and contains a Prosite pattern which is shared by this group of proteins in a region of local similarity.
Probab=91.83 E-value=3.7 Score=37.08 Aligned_cols=138 Identities=17% Similarity=0.204 Sum_probs=82.7
Q ss_pred HHHHHHHHHHHHHH-HhhCCCcEEEEecChhhHHHHHHHHHH---cCCcc--ccccccCCc---cch-------------
Q psy16262 53 RTWEKLLLAARAIV-AIEHPADVFVISSRPIGQRAVLKFASY---TGATP--IAGRFTPGA---FTN------------- 110 (222)
Q Consensus 53 ~T~~~L~~a~~~i~-~i~~~~~ILfv~t~~~~~~~v~~~a~~---~g~~y--v~~rW~gG~---LTN------------- 110 (222)
..++.+.+++..+. .++++|+|.++|....+.-.+...++. .|... +.+-..||- +.+
T Consensus 38 ~~l~~I~~av~~~~~~l~~gGrl~~~G~G~Sg~l~~~DA~e~~~t~g~~~~~~~~~iaGg~~a~~~~~e~~Ed~~~~~~~ 117 (291)
T TIGR00274 38 SVLPDIAAAVEQIVQAFQQGGRLIYIGAGTSGRLGVLDASECPPTFGVSPELVKGIIAGGECAILHAVEGAEDSTEAGAN 117 (291)
T ss_pred HHHHHHHHHHHHHHHHHhcCCEEEEECCcHHHHHHHHHHHHhhhhcCCCHHHhhHHhcCChHHHhccchhhhcchHHHHH
Confidence 33455566666665 367899999999887664333433322 24322 112223331 111
Q ss_pred HHH-hhccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCC--CcceEEccCC-----------CCCchhHH
Q psy16262 111 QIQ-AAFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPL--RFVDIAIPCN-----------NKSPHSIG 172 (222)
Q Consensus 111 ~i~-~~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~--~~IdypIP~N-----------dds~~si~ 172 (222)
.++ .....=|++|++...-+ ..++++|++.|.|+|+|+....++ +..|+.|... -.|..+..
T Consensus 118 dl~~~~l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tIaIT~~~~s~La~~aD~~I~~~~g~E~~~~st~~~s~~aqk 197 (291)
T TIGR00274 118 DLQNIHLTKNDVVVGIAASGRTPYVIAGLQYARSLGALTISIACNPKSAASEIADIAIETIVGPEILTGSSRLKAGTAQK 197 (291)
T ss_pred HHHhcCCCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEecCCCCccccccchhhHHHHHH
Confidence 011 12456788888875433 578899999999999998643322 3466666432 13456677
Q ss_pred HHHHHHHHHHHhhhCCCC
Q psy16262 173 LMWWLLAREVLRFRGVIG 190 (222)
Q Consensus 173 li~~lL~~ai~~~~g~~~ 190 (222)
+++.+|+..+....|.+-
T Consensus 198 ~iLd~L~t~~~~~~gk~~ 215 (291)
T TIGR00274 198 MVLNMLSTASMIKLGKVY 215 (291)
T ss_pred HHHHHHHHHHHHhcchhh
Confidence 788888888887777665
No 25
>PRK13936 phosphoheptose isomerase; Provisional
Probab=91.77 E-value=4.2 Score=34.30 Aligned_cols=52 Identities=15% Similarity=0.174 Sum_probs=34.5
Q ss_pred ccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCC-CCc----ceEEccCCCCC
Q psy16262 116 FREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESP-LRF----VDIAIPCNNKS 167 (222)
Q Consensus 116 ~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~-~~~----IdypIP~Ndds 167 (222)
.+.=|++|++...-+ ..+++.|++.|.|+|+|.+.+.+ +.. .|+.+....+.
T Consensus 109 ~~~~Dv~i~iS~sG~t~~~~~~~~~ak~~g~~iI~IT~~~~s~l~~l~~~ad~~l~v~~~~ 169 (197)
T PRK13936 109 GQPGDVLLAISTSGNSANVIQAIQAAHEREMHVVALTGRDGGKMASLLLPEDVEIRVPAER 169 (197)
T ss_pred CCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhhhhhccCCEEEEeCCCc
Confidence 357788888875433 34788999999999999995443 222 35555444433
No 26
>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=91.56 E-value=1.1 Score=33.43 Aligned_cols=75 Identities=17% Similarity=0.224 Sum_probs=51.1
Q ss_pred cEEEEecChhhHHHHHHHHHHcCCccccccccCCccchH--HHhhccCCcEEEEeCCCCCc----hhhhHhhhcCCCEEE
Q psy16262 73 DVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQ--IQAAFREPRLLVVTDPHTDH----QPITEAAYVNIPVIA 146 (222)
Q Consensus 73 ~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~--i~~~~~~P~lvii~dp~~d~----~aI~Ea~~l~IP~Ia 146 (222)
+||+||.......-+++..++.|...+...=-+|.-.+. +......+|+||++--.-+| .+-++|++.++|++-
T Consensus 1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~ 80 (97)
T PF10087_consen 1 SVLIVGGREDRERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIY 80 (97)
T ss_pred CEEEEcCCcccHHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEE
Confidence 478899877666678888888887755430013333333 56677889999988644443 456778888999875
Q ss_pred E
Q psy16262 147 F 147 (222)
Q Consensus 147 l 147 (222)
.
T Consensus 81 ~ 81 (97)
T PF10087_consen 81 S 81 (97)
T ss_pred E
Confidence 4
No 27
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=90.60 E-value=4.4 Score=35.44 Aligned_cols=90 Identities=14% Similarity=0.143 Sum_probs=53.7
Q ss_pred hhCCCcEEEEecChhhHHHHHHHHHHc---CCccccccccCCc--cchHHHhhccCCcEEEEeCCCCC----chhhhHhh
Q psy16262 68 IEHPADVFVISSRPIGQRAVLKFASYT---GATPIAGRFTPGA--FTNQIQAAFREPRLLVVTDPHTD----HQPITEAA 138 (222)
Q Consensus 68 i~~~~~ILfv~t~~~~~~~v~~~a~~~---g~~yv~~rW~gG~--LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea~ 138 (222)
+.+.++|.++|.+... .+.+.++.+. |-.... .+.. +.... ....+.|++|++.-..+ ..+++.|+
T Consensus 125 i~~a~~I~i~G~G~s~-~~A~~~~~~l~~~g~~~~~---~~d~~~~~~~~-~~~~~~Dv~I~iS~sg~~~~~~~~~~~ak 199 (278)
T PRK11557 125 LRSARRIILTGIGASG-LVAQNFAWKLMKIGINAVA---ERDMHALLATV-QALSPDDLLLAISYSGERRELNLAADEAL 199 (278)
T ss_pred HhcCCeEEEEecChhH-HHHHHHHHHHhhCCCeEEE---cCChHHHHHHH-HhCCCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence 4566789888888543 2333344332 322111 1111 11111 23468999999975433 36789999
Q ss_pred hcCCCEEEEecCCCCCC--cceEEcc
Q psy16262 139 YVNIPVIAFCNTESPLR--FVDIAIP 162 (222)
Q Consensus 139 ~l~IP~IalvDTd~~~~--~IdypIP 162 (222)
..|+|+|+|.|...+|- ..|+.++
T Consensus 200 ~~ga~iI~IT~~~~s~la~~ad~~l~ 225 (278)
T PRK11557 200 RVGAKVLAITGFTPNALQQRASHCLY 225 (278)
T ss_pred HcCCCEEEEcCCCCCchHHhCCEEEE
Confidence 99999999999865553 3566664
No 28
>PRK15482 transcriptional regulator MurR; Provisional
Probab=90.38 E-value=5.5 Score=35.14 Aligned_cols=114 Identities=7% Similarity=-0.022 Sum_probs=60.6
Q ss_pred hCCCcEEEEecChhhHHHHHHHHHHc---CCccccccccCCccchHHHhhccCCcEEEEeCCCCC----chhhhHhhhcC
Q psy16262 69 EHPADVFVISSRPIGQRAVLKFASYT---GATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD----HQPITEAAYVN 141 (222)
Q Consensus 69 ~~~~~ILfv~t~~~~~~~v~~~a~~~---g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l~ 141 (222)
.+-++|.++|.+... .+...++.+. |-.... ..++...-.......+-|++|++.-..+ ..+++.|+..|
T Consensus 133 ~~A~~I~i~G~G~S~-~~A~~l~~~l~~~g~~~~~--~~d~~~~~~~~~~~~~~Dv~i~iS~sg~t~~~~~~~~~a~~~g 209 (285)
T PRK15482 133 SKAPFIQITGLGGSA-LVGRDLSFKLMKIGYRVAC--EADTHVQATVSQALKKGDVQIAISYSGSKKEIVLCAEAARKQG 209 (285)
T ss_pred HhCCeeEEEEeChhH-HHHHHHHHHHHhCCCeeEE--eccHhHHHHHHhcCCCCCEEEEEeCCCCCHHHHHHHHHHHHCC
Confidence 455678888887543 2333333332 322111 0111111111123356689888874333 57788899999
Q ss_pred CCEEEEecCCCCCC--cceEEc--cCCCCC--------chhHHHHHHHHHHHHHhh
Q psy16262 142 IPVIAFCNTESPLR--FVDIAI--PCNNKS--------PHSIGLMWWLLAREVLRF 185 (222)
Q Consensus 142 IP~IalvDTd~~~~--~IdypI--P~Ndds--------~~si~li~~lL~~ai~~~ 185 (222)
.|+|+|.|...+|- ..|+.+ |..... .-+..+++.+|...+...
T Consensus 210 ~~iI~IT~~~~s~la~~ad~~l~~~~~~~~~~~~~~ss~~~~~~~id~L~~~~~~~ 265 (285)
T PRK15482 210 ATVIAITSLADSPLRRLAHFTLDTVSGETEWRSSSMSTRTAQNSVTDLLFVGLVQL 265 (285)
T ss_pred CEEEEEeCCCCCchHHhCCEEEEcCCCccchhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999866543 345444 444332 223344555555555433
No 29
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=89.96 E-value=5.9 Score=34.57 Aligned_cols=117 Identities=11% Similarity=0.059 Sum_probs=63.5
Q ss_pred hhCCCcEEEEecChhhHHHHHHHHH---HcCCccccccccCCccchHHH-hhccCCcEEEEeCCCCC----chhhhHhhh
Q psy16262 68 IEHPADVFVISSRPIGQRAVLKFAS---YTGATPIAGRFTPGAFTNQIQ-AAFREPRLLVVTDPHTD----HQPITEAAY 139 (222)
Q Consensus 68 i~~~~~ILfv~t~~~~~~~v~~~a~---~~g~~yv~~rW~gG~LTN~i~-~~~~~P~lvii~dp~~d----~~aI~Ea~~ 139 (222)
+.+.++|.|+|......- ...++. +.|...+ +.+........ ....+-|++|++.-..+ ..+++.|+.
T Consensus 125 i~~a~~I~i~G~G~S~~~-a~~~~~~l~~~g~~~~---~~~~~~~~~~~~~~~~~~D~vI~iS~sG~t~~~~~~~~~ak~ 200 (284)
T PRK11302 125 LTQAKKISFFGLGASAAV-AHDAQNKFFRFNVPVV---YFDDIVMQRMSCMNSSDGDVVVLISHTGRTKSLVELAQLARE 200 (284)
T ss_pred HHcCCeEEEEEcchHHHH-HHHHHHHHHhcCCceE---ecCCHHHHHHHHHhCCCCCEEEEEeCCCCCHHHHHHHHHHHH
Confidence 345678989988754322 122222 2343321 22221111111 23356788888874332 568889999
Q ss_pred cCCCEEEEecCCCCCC-cceEEccC--CCCC--------chhHHHHHHHHHHHHHhhhCC
Q psy16262 140 VNIPVIAFCNTESPLR-FVDIAIPC--NNKS--------PHSIGLMWWLLAREVLRFRGV 188 (222)
Q Consensus 140 l~IP~IalvDTd~~~~-~IdypIP~--Ndds--------~~si~li~~lL~~ai~~~~g~ 188 (222)
.|.|||+|.+.+++.. ..|+.+.. ..+. ..+..+++.+|.-.+...+|.
T Consensus 201 ~g~~vI~IT~~~s~l~~~ad~~l~~~~~~~~~~~~~~~s~~~~~~l~d~L~~~l~~~~~~ 260 (284)
T PRK11302 201 NGATVIAITSAGSPLAREATLALTLDVPEDTDIYMPMVSRIAQLTVIDVLATGFTLRRGA 260 (284)
T ss_pred cCCeEEEECCCCChhHHhCCEEEecCCCccchhcchHHHHHHHHHHHHHHHHHHHHHhhH
Confidence 9999999999665543 24555543 2221 122334566666666655543
No 30
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=88.97 E-value=8.2 Score=29.07 Aligned_cols=94 Identities=10% Similarity=0.032 Sum_probs=51.4
Q ss_pred CCCcEEEEecChhhHHHHHHHHHHcCCcccccccc-CCccchHHHhhccCCcEEEEeCCCCC----chhhhHhhhcCCCE
Q psy16262 70 HPADVFVISSRPIGQRAVLKFASYTGATPIAGRFT-PGAFTNQIQAAFREPRLLVVTDPHTD----HQPITEAAYVNIPV 144 (222)
Q Consensus 70 ~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~-gG~LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~ 144 (222)
+.++|.++++.... .+...++......-..-.-. +.............-|++|+++...+ ..+++.|+..|+++
T Consensus 12 ~~~~i~i~g~g~s~-~~a~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~iS~~g~~~~~~~~~~~a~~~g~~i 90 (139)
T cd05013 12 KARRIYIFGVGSSG-LVAEYLAYKLLRLGKPVVLLSDPHLQLMSAANLTPGDVVIAISFSGETKETVEAAEIAKERGAKV 90 (139)
T ss_pred hCCEEEEEEcCchH-HHHHHHHHHHHHcCCceEEecCHHHHHHHHHcCCCCCEEEEEeCCCCCHHHHHHHHHHHHcCCeE
Confidence 44788888888643 23333443331110000111 11111111122356788888886544 44788999999999
Q ss_pred EEEecCCCCCC--cceEEccCC
Q psy16262 145 IAFCNTESPLR--FVDIAIPCN 164 (222)
Q Consensus 145 IalvDTd~~~~--~IdypIP~N 164 (222)
|++.+...++- ..|+.|+..
T Consensus 91 v~iT~~~~~~l~~~~d~~i~~~ 112 (139)
T cd05013 91 IAITDSANSPLAKLADIVLLVS 112 (139)
T ss_pred EEEcCCCCChhHHhcCEEEEcC
Confidence 99999765432 355555443
No 31
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=87.79 E-value=5.9 Score=30.02 Aligned_cols=39 Identities=13% Similarity=0.143 Sum_probs=29.9
Q ss_pred ccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCC
Q psy16262 116 FREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPL 154 (222)
Q Consensus 116 ~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~ 154 (222)
..+.|++|++...-+ ..++++|+..|.|+|++.|...+|
T Consensus 44 ~~~~d~~I~iS~sG~t~e~~~~~~~a~~~g~~vi~iT~~~~s~ 86 (126)
T cd05008 44 LDEDTLVIAISQSGETADTLAALRLAKEKGAKTVAITNVVGST 86 (126)
T ss_pred CCCCcEEEEEeCCcCCHHHHHHHHHHHHcCCeEEEEECCCCCh
Confidence 457788888864322 567899999999999999986554
No 32
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=87.50 E-value=3.9 Score=31.10 Aligned_cols=47 Identities=9% Similarity=0.147 Sum_probs=33.7
Q ss_pred ccCCcEEEEeCCCC----CchhhhHhhhcCCCEEEEecCCCCC-C-cceEEcc
Q psy16262 116 FREPRLLVVTDPHT----DHQPITEAAYVNIPVIAFCNTESPL-R-FVDIAIP 162 (222)
Q Consensus 116 ~~~P~lvii~dp~~----d~~aI~Ea~~l~IP~IalvDTd~~~-~-~IdypIP 162 (222)
..+-|++|++.-.. -..+++.|+..|+|+|+|+|....+ . ..|+.+.
T Consensus 45 ~~~~d~vi~iS~sG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la~~ad~~l~ 97 (128)
T cd05014 45 VTPGDVVIAISNSGETDELLNLLPHLKRRGAPIIAITGNPNSTLAKLSDVVLD 97 (128)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCCchhhhCCEEEE
Confidence 35678888887432 2678899999999999999975433 2 2555553
No 33
>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=87.42 E-value=2.2 Score=36.19 Aligned_cols=47 Identities=11% Similarity=0.072 Sum_probs=34.8
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCC
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCN 164 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~N 164 (222)
..+|.|++.+...+..+++++...|||+|.+ |++.+-....+.-+-|
T Consensus 63 ~~~dgiii~~~~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~V~~d~ 109 (275)
T cd06295 63 GRADGVILIGQHDQDPLPERLAETGLPFVVW-GRPLPGQPYCYVGSDN 109 (275)
T ss_pred CCCCEEEEeCCCCChHHHHHHHhCCCCEEEE-CCccCCCCCCEEEECc
Confidence 5799999987766667799999999999966 7765444455555433
No 34
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=87.38 E-value=12 Score=32.89 Aligned_cols=50 Identities=12% Similarity=0.130 Sum_probs=35.2
Q ss_pred hccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCCC--cceEE--ccCC
Q psy16262 115 AFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPLR--FVDIA--IPCN 164 (222)
Q Consensus 115 ~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~~--~Idyp--IP~N 164 (222)
...+-|++|++.-..+ ..+++.|+..|.|+|+|.|...++- ..|+. +|.+
T Consensus 184 ~~~~~Dl~I~iS~sG~t~~~~~~~~~ak~~g~~ii~IT~~~~s~la~~ad~~l~~~~~ 241 (292)
T PRK11337 184 LLQEGDVVLVVSHSGRTSDVIEAVELAKKNGAKIICITNSYHSPIAKLADYVICSTAQ 241 (292)
T ss_pred cCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCCEEEEcCCC
Confidence 3467888888864332 5677888999999999999877663 24444 4544
No 35
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=86.18 E-value=19 Score=30.40 Aligned_cols=111 Identities=19% Similarity=0.177 Sum_probs=76.6
Q ss_pred HHHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCcc-c-hH-------------------H
Q psy16262 55 WEKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAF-T-NQ-------------------I 112 (222)
Q Consensus 55 ~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~L-T-N~-------------------i 112 (222)
.+.+.+|+..+.. ++++++||..++.-...++..-.|+.+|-+.-..+=+|+.. | |. .
T Consensus 24 ~~~I~~aa~~i~~~l~~G~Kvl~cGNGgSaadAqHfaael~gRf~~eR~~lpaIaLt~dsS~lTai~NDy~yd~vFsRqv 103 (176)
T COG0279 24 IEAIERAAQLLVQSLLNGNKVLACGNGGSAADAQHFAAELTGRFEKERPSLPAIALSTDSSVLTAIANDYGYDEVFSRQV 103 (176)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEECCCcchhhHHHHHHHHhhHHHhcCCCCCeeEeecccHHHhhhhccccHHHHHHHHH
Confidence 4455677777774 78899999888877666665556666777655555566542 2 31 2
Q ss_pred HhhccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCC----CCCcceEEccCCC
Q psy16262 113 QAAFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTES----PLRFVDIAIPCNN 165 (222)
Q Consensus 113 ~~~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~----~~~~IdypIP~Nd 165 (222)
++.-++=|.++=+.+.-| ..|++.|..+++-||++.-.|- ....+.+.||..+
T Consensus 104 eA~g~~GDvLigISTSGNS~nVl~Ai~~Ak~~gm~vI~ltG~~GG~~~~~~D~~i~VPs~~ 164 (176)
T COG0279 104 EALGQPGDVLIGISTSGNSKNVLKAIEAAKEKGMTVIALTGKDGGKLAGLLDVEIRVPSTD 164 (176)
T ss_pred HhcCCCCCEEEEEeCCCCCHHHHHHHHHHHHcCCEEEEEecCCCcccccccceEEecCCCc
Confidence 344467788888877655 5789999999999999986554 3345667778773
No 36
>PF04007 DUF354: Protein of unknown function (DUF354); InterPro: IPR007152 Members of this family are around 350 amino acids in length. They are found in archaea and some bacteria and have no known function.
Probab=85.99 E-value=4.9 Score=37.07 Aligned_cols=99 Identities=15% Similarity=0.241 Sum_probs=62.6
Q ss_pred eeHHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccc-cccccCCccchHHH----------h--h
Q psy16262 49 LNLRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPI-AGRFTPGAFTNQIQ----------A--A 115 (222)
Q Consensus 49 InL~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv-~~rW~gG~LTN~i~----------~--~ 115 (222)
||+..+ .+......++..+++.|+=.+|.+|... .+.++++.-|..|+ .|+.- +++..+.. + .
T Consensus 5 iDi~~p-~hvhfFk~~I~eL~~~GheV~it~R~~~--~~~~LL~~yg~~y~~iG~~g-~~~~~Kl~~~~~R~~~l~~~~~ 80 (335)
T PF04007_consen 5 IDITHP-AHVHFFKNIIRELEKRGHEVLITARDKD--ETEELLDLYGIDYIVIGKHG-DSLYGKLLESIERQYKLLKLIK 80 (335)
T ss_pred EECCCc-hHHHHHHHHHHHHHhCCCEEEEEEeccc--hHHHHHHHcCCCeEEEcCCC-CCHHHHHHHHHHHHHHHHHHHH
Confidence 344433 2333344555567777766677777654 45677888888875 35544 44444321 1 1
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCC
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPL 154 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~ 154 (222)
...||+++-.. ...|.+=|.-+|||+|.+.||....
T Consensus 81 ~~~pDv~is~~---s~~a~~va~~lgiP~I~f~D~e~a~ 116 (335)
T PF04007_consen 81 KFKPDVAISFG---SPEAARVAFGLGIPSIVFNDTEHAI 116 (335)
T ss_pred hhCCCEEEecC---cHHHHHHHHHhCCCeEEEecCchhh
Confidence 24799998433 3567778899999999999996543
No 37
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=85.53 E-value=4 Score=31.37 Aligned_cols=50 Identities=14% Similarity=0.141 Sum_probs=35.7
Q ss_pred cCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCCC--cceEEccCCCC
Q psy16262 117 REPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPLR--FVDIAIPCNNK 166 (222)
Q Consensus 117 ~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~~--~IdypIP~Ndd 166 (222)
.+-|++|++...-+ ..+++.|++.|.|+|++++...++- ..|+.+.....
T Consensus 46 ~~~dl~I~iS~SG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la~~ad~~l~~~~~ 101 (120)
T cd05710 46 TEKSVVILASHSGNTKETVAAAKFAKEKGATVIGLTDDEDSPLAKLADYVIVYGFE 101 (120)
T ss_pred CCCcEEEEEeCCCCChHHHHHHHHHHHcCCeEEEEECCCCCcHHHhCCEEEEccCC
Confidence 45688888864333 6788889999999999999765442 35666655544
No 38
>PRK13937 phosphoheptose isomerase; Provisional
Probab=85.39 E-value=20 Score=29.80 Aligned_cols=92 Identities=11% Similarity=0.152 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHH-hhCCCcEEEEecChhhHH---HHHHHHHHcCCccccccccCCccch---------------------
Q psy16262 56 EKLLLAARAIVA-IEHPADVFVISSRPIGQR---AVLKFASYTGATPIAGRFTPGAFTN--------------------- 110 (222)
Q Consensus 56 ~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~---~v~~~a~~~g~~yv~~rW~gG~LTN--------------------- 110 (222)
..+..|+..+.. +++.++|.+++......- ...++..+.+. . .+|.-..
T Consensus 22 ~~l~~aa~~i~~~l~~a~rI~i~G~G~S~~~A~~~a~~~~~~~~~----~--r~g~~~~~~~~d~~~~~~~~~d~~~~~~ 95 (188)
T PRK13937 22 EAIAKVAEALIEALANGGKILLCGNGGSAADAQHIAAELVGRFKK----E--RPALPAIALTTDTSALTAIGNDYGFERV 95 (188)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEeCcHhHHHHHHHHHHhhccccC----C--CCCcceEeccCcHHHHHHHhccCCHHHH
Confidence 445566666664 678899999998875532 21222211110 0 1121111
Q ss_pred ---HHHhhccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCC
Q psy16262 111 ---QIQAAFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESP 153 (222)
Q Consensus 111 ---~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~ 153 (222)
+.....++-|++|++...-+ ..+++.|++.|+|+|+|.+...+
T Consensus 96 ~~~~~~~~~~~~Dl~i~iS~sG~t~~~~~~~~~ak~~g~~~I~iT~~~~s 145 (188)
T PRK13937 96 FSRQVEALGRPGDVLIGISTSGNSPNVLAALEKARELGMKTIGLTGRDGG 145 (188)
T ss_pred HHHHHHhhCCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEeCCCCC
Confidence 11123467799988874322 56888999999999999986443
No 39
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=85.12 E-value=18 Score=29.03 Aligned_cols=51 Identities=12% Similarity=0.168 Sum_probs=35.3
Q ss_pred ccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCC-CC-cceEEccCCCC
Q psy16262 116 FREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESP-LR-FVDIAIPCNNK 166 (222)
Q Consensus 116 ~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~-~~-~IdypIP~Ndd 166 (222)
.++-|++|++...-+ ..+++.|++.|+|+|+|++...+ .. ..|+.|...+.
T Consensus 77 ~~~~D~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~s~l~~~ad~~l~~~~~ 133 (154)
T TIGR00441 77 GQKGDVLLGISTSGNSKNVLKAIEAAKDKGMKTITLAGKDGGKMAGLADIELRVPHF 133 (154)
T ss_pred CCCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEeCCC
Confidence 467799998874433 57788999999999999986443 32 35555544443
No 40
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=84.71 E-value=7.9 Score=29.19 Aligned_cols=95 Identities=20% Similarity=0.244 Sum_probs=54.1
Q ss_pred hhCCCcEEEEecChhh---HHHHHHHHHHcCCcc---ccccccCCccchHHHhhccCCcEEEEeCCCCC----chhhhHh
Q psy16262 68 IEHPADVFVISSRPIG---QRAVLKFASYTGATP---IAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD----HQPITEA 137 (222)
Q Consensus 68 i~~~~~ILfv~t~~~~---~~~v~~~a~~~g~~y---v~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea 137 (222)
+.+.++|.++++.... ..+-.++.+..+..+ -.+.+.++.+.+ ...=|++|++....+ ...+++|
T Consensus 2 i~~~~~i~i~G~G~s~~~A~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-----~~~~d~vi~is~sg~~~~~~~~~~~a 76 (131)
T PF01380_consen 2 IAKAKRIYIYGSGSSYGVAQYAALKLQKLGRIVVISYEAGEFFHGPLEN-----LDPDDLVIIISYSGETRELIELLRFA 76 (131)
T ss_dssp HTTSSEEEEEESTHHHHHHHHHHHHHHHHHSSEEEEEEHHHHHTTGGGG-----CSTTEEEEEEESSSTTHHHHHHHHHH
T ss_pred CCCCCEEEEEEcchHHHHHHHHHHHHHHhcCcceeccchHHHhhhhccc-----ccccceeEeeeccccchhhhhhhHHH
Confidence 3466789899988643 233334422222221 111122222211 233477777764333 5678899
Q ss_pred hhcCCCEEEEecCCCCCC----cceEEccCCCCC
Q psy16262 138 AYVNIPVIAFCNTESPLR----FVDIAIPCNNKS 167 (222)
Q Consensus 138 ~~l~IP~IalvDTd~~~~----~IdypIP~Ndds 167 (222)
++.|.|+|+|++...++- .+.+.+|.++..
T Consensus 77 k~~g~~vi~iT~~~~~~l~~~ad~~l~~~~~~~~ 110 (131)
T PF01380_consen 77 KERGAPVILITSNSESPLARLADIVLYIPTGEES 110 (131)
T ss_dssp HHTTSEEEEEESSTTSHHHHHSSEEEEEESSCGS
T ss_pred HhcCCeEEEEeCCCCCchhhhCCEEEEecCCCcc
Confidence 999999999998765543 255666666665
No 41
>PRK00331 glucosamine--fructose-6-phosphate aminotransferase; Reviewed
Probab=84.53 E-value=7.9 Score=38.00 Aligned_cols=94 Identities=10% Similarity=0.182 Sum_probs=54.1
Q ss_pred hhCCCcEEEEecChhh--HHHHHHHHHHcCCcccccccc-CCccchHHHhhccCCcEEEEeCCCCC----chhhhHhhhc
Q psy16262 68 IEHPADVFVISSRPIG--QRAVLKFASYTGATPIAGRFT-PGAFTNQIQAAFREPRLLVVTDPHTD----HQPITEAAYV 140 (222)
Q Consensus 68 i~~~~~ILfv~t~~~~--~~~v~~~a~~~g~~yv~~rW~-gG~LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l 140 (222)
+.+.++|.|+++.... ....+.+..+.+...+. .. +..+.. ........|++|++...-+ ..+++.|+..
T Consensus 286 l~~a~~I~~~G~GsS~~aa~~a~~~~~~~~~~~~~--~~~~~~~~~-~~~~~~~~dlvI~iS~SG~T~e~i~a~~~ak~~ 362 (604)
T PRK00331 286 LKKIDRIYIVACGTSYHAGLVAKYLIESLAGIPVE--VEIASEFRY-RDPVLSPKTLVIAISQSGETADTLAALRLAKEL 362 (604)
T ss_pred HhcCCEEEEEEeecHHHHHHHHHHHHHHHcCCCEE--EEehhhhhc-cCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHHC
Confidence 3455678888888542 23333344443222111 11 222221 1122356788888865433 5788899999
Q ss_pred CCCEEEEecCCCCC--CcceEEccCC
Q psy16262 141 NIPVIAFCNTESPL--RFVDIAIPCN 164 (222)
Q Consensus 141 ~IP~IalvDTd~~~--~~IdypIP~N 164 (222)
|+|+|+|.+...++ ...|+.|+..
T Consensus 363 ga~~IaIT~~~~S~La~~aD~~l~~~ 388 (604)
T PRK00331 363 GAKTLAICNVPGSTIARESDAVLYTH 388 (604)
T ss_pred CCCEEEEECCCCChhHHhcCcEEEec
Confidence 99999999875444 3466766654
No 42
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=84.50 E-value=16 Score=36.25 Aligned_cols=116 Identities=16% Similarity=0.122 Sum_probs=62.5
Q ss_pred hhCCCcEEEEecChhhHHHHHHHHHH---cCCccccccccCCccchHHHhhccCCcEEEEeCCCCC----chhhhHhhhc
Q psy16262 68 IEHPADVFVISSRPIGQRAVLKFASY---TGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD----HQPITEAAYV 140 (222)
Q Consensus 68 i~~~~~ILfv~t~~~~~~~v~~~a~~---~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l 140 (222)
+.+.++|.+++...... +...++.+ .|...+. .....+.-.......+-|++|++....+ ..+++.|+..
T Consensus 465 L~~a~rI~i~G~G~S~~-~A~~~~~~l~~lg~~~~~--~~d~~~~~~~~~~l~~~DvvI~iS~sG~t~e~i~~~~~Ak~~ 541 (638)
T PRK14101 465 LNNARRIEFYGLGNSNI-VAQDAHYKFFRFGIPTIA--YGDLYMQAASAALLGKGDVIVAVSKSGRAPELLRVLDVAMQA 541 (638)
T ss_pred HhcCCEEEEEEccHHHH-HHHHHHHHHhcCCceEEE--cCCHHHHHHHHhcCCCCCEEEEEeCCCCCHHHHHHHHHHHHC
Confidence 34567788888875432 22223332 2322111 1010010011123456788888874333 5788889999
Q ss_pred CCCEEEEecCCCCCC-cceEEccCCC----CCchhHH------HHHHHHHHHHHhhh
Q psy16262 141 NIPVIAFCNTESPLR-FVDIAIPCNN----KSPHSIG------LMWWLLAREVLRFR 186 (222)
Q Consensus 141 ~IP~IalvDTd~~~~-~IdypIP~Nd----ds~~si~------li~~lL~~ai~~~~ 186 (222)
|+|+|+|.|.+++.. ..|+.++... ++..++. +++.+|.-.+...+
T Consensus 542 Ga~vIaIT~~~spLa~~aD~~L~~~~~~~~~s~~~~~s~~~~l~lid~L~~~l~~~~ 598 (638)
T PRK14101 542 GAKVIAITSSNTPLAKRATVALETDHIEMRESQLSMISRILHLVMIDILAVGVAIRR 598 (638)
T ss_pred CCeEEEEcCCCChhHhhCCEEEEcCCccchhccccHHHHHHHHHHHHHHHHHHHHhc
Confidence 999999999765543 3566665432 3333333 35555655555444
No 43
>PRK02947 hypothetical protein; Provisional
Probab=84.02 E-value=18 Score=31.63 Aligned_cols=95 Identities=19% Similarity=0.169 Sum_probs=55.6
Q ss_pred HHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHcCCc-cccc------cccCCc--cc---h-------HH-Hh
Q psy16262 56 EKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYTGAT-PIAG------RFTPGA--FT---N-------QI-QA 114 (222)
Q Consensus 56 ~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~-yv~~------rW~gG~--LT---N-------~i-~~ 114 (222)
+.+.+++..+.. +.+.++|.+++...... +...+..+.|.. .+.. -+.++. .| + .+ ..
T Consensus 24 e~i~~aa~lla~~i~~a~~I~i~G~G~S~~-vA~~~~~rlg~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 (246)
T PRK02947 24 EAIEKAADLIADSIRNGGLIYVFGTGHSHI-LAEEVFYRAGGLAPVNPILEPSLMLHEGAVASSYLERVEGYAKAILDRY 102 (246)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEcCcHHHH-HHHHhccccccCcccCCCCCHHHhccccHHHHHHhhhcccHHHHHHHHc
Confidence 456777777775 67888999888886543 223333333211 0000 011110 00 1 01 12
Q ss_pred hccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCC
Q psy16262 115 AFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 115 ~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd 151 (222)
....-|++|++...-+ ..++++|++.|+|+|+|.+..
T Consensus 103 ~~~~~Dv~i~iS~sG~t~~~i~~~~~a~~~g~~vI~iT~~~ 143 (246)
T PRK02947 103 DIRPGDVLIVVSNSGRNPVPIEMALEAKERGAKVIAVTSLA 143 (246)
T ss_pred CCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEcCCc
Confidence 3456789888875433 457889999999999999975
No 44
>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=83.86 E-value=3.9 Score=34.17 Aligned_cols=60 Identities=20% Similarity=0.047 Sum_probs=40.3
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.+++.....+...++++...|||+|.+ |++.+...+++..+ |...+.......|.+
T Consensus 53 ~~vdgiii~~~~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~v~~---d~~~~g~~~~~~l~~ 112 (266)
T cd06278 53 YRVDGVIVTSGTLSSELAEECRRNGIPVVLI-NRYVDGPGVDAVCS---DNYEAGRLAAELLLA 112 (266)
T ss_pred cCCCEEEEecCCCCHHHHHHHhhcCCCEEEE-CCccCCCCCCEEEE---ChHHHHHHHHHHHHH
Confidence 5799999887655667789999999999987 66554445666554 334444444454443
No 45
>TIGR00393 kpsF KpsF/GutQ family protein. This model describes a number of closely related proteins with the phosphosugar-binding domain SIS (Sugar ISomerase) followed by two copies of the CBS (named after Cystathionine Beta Synthase) domain. One is GutQ, a protein of the glucitol operon. Another is KpsF, a virulence factor involved in capsular polysialic acid biosynthesis in some pathogenic strains of E. coli.
Probab=83.44 E-value=16 Score=31.44 Aligned_cols=47 Identities=11% Similarity=0.143 Sum_probs=34.0
Q ss_pred ccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCCC--cceEEcc
Q psy16262 116 FREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPLR--FVDIAIP 162 (222)
Q Consensus 116 ~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~~--~IdypIP 162 (222)
...-|++|++....+ ..+++.|+..|+|+|+|++...++- ..|+.+.
T Consensus 45 ~~~~d~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~s~l~~~~d~~l~ 97 (268)
T TIGR00393 45 VEPNDVVLMISYSGESLELLNLIPHLKRLSHKIIAFTGSPNSSLARAADYVLD 97 (268)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHcCCcEEEEECCCCCcccccCCEEEE
Confidence 456789988875433 5788999999999999999754432 2455544
No 46
>PRK11382 frlB fructoselysine-6-P-deglycase; Provisional
Probab=80.79 E-value=34 Score=31.21 Aligned_cols=51 Identities=6% Similarity=0.033 Sum_probs=36.3
Q ss_pred cCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCC--CcceEEccCCCCC
Q psy16262 117 REPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPL--RFVDIAIPCNNKS 167 (222)
Q Consensus 117 ~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~--~~IdypIP~Ndds 167 (222)
.+-|++|.+...-+ ..+++.|++.|.|||+|.+...++ +..|+.|+.+-..
T Consensus 91 ~~~~lvI~iS~SGeT~e~i~al~~ak~~Ga~~I~IT~~~~S~L~~~ad~~l~~~ag~ 147 (340)
T PRK11382 91 DDRCAVIGVSDYGKTEEVIKALELGRACGALTAAFTKRADSPITSAAEFSIDYQADC 147 (340)
T ss_pred CCCCEEEEEcCCCCCHHHHHHHHHHHHcCCeEEEEECCCCChHHHhCCEEEEeCCCc
Confidence 34467777764322 678888999999999999875444 4578888777433
No 47
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=79.97 E-value=13 Score=33.21 Aligned_cols=47 Identities=6% Similarity=0.058 Sum_probs=34.0
Q ss_pred hccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCCC--cceEEc
Q psy16262 115 AFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPLR--FVDIAI 161 (222)
Q Consensus 115 ~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~~--~IdypI 161 (222)
...+-|++|++...-+ ..+++.|++.|+|+|+|.+...++- .-|+.+
T Consensus 86 ~~~~~d~~i~iS~sG~t~~~~~~~~~ak~~g~~vI~iT~~~~s~la~~ad~~l 138 (321)
T PRK11543 86 MIESRDVMLFISYSGGAKELDLIIPRLEDKSIALLAMTGKPTSPLGLAAKAVL 138 (321)
T ss_pred ccCCCCEEEEEeCCCCcHHHHHHHHHHHHcCCeEEEEECCCCChhHHhCCEEE
Confidence 3467789998875433 6788999999999999999755442 244444
No 48
>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=79.13 E-value=8.4 Score=32.14 Aligned_cols=58 Identities=5% Similarity=-0.115 Sum_probs=37.1
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLL 178 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL 178 (222)
+.+|.+|+.....+...++++...+||+|.+ |++......++.-+ |...+.......|
T Consensus 58 ~~vdgiii~~~~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~V~~---d~~~~~~~a~~~l 115 (268)
T cd06271 58 GLVDGVIISRTRPDDPRVALLLERGFPFVTH-GRTELGDPHPWVDF---DNEAAAYQAVRRL 115 (268)
T ss_pred CCCCEEEEecCCCCChHHHHHHhcCCCEEEE-CCcCCCCCCCeEee---CcHHHHHHHHHHH
Confidence 4689999877655556788888999999976 66544334555443 3344444444444
No 49
>cd05009 SIS_GlmS_GlmD_2 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=78.64 E-value=28 Score=26.88 Aligned_cols=116 Identities=20% Similarity=0.246 Sum_probs=66.1
Q ss_pred hCCCcEEEEecChhh---HHHHHHHHHHcC---CccccccccCCccchHHHhhccCCcEEEEeCCCCC-----chhhhHh
Q psy16262 69 EHPADVFVISSRPIG---QRAVLKFASYTG---ATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD-----HQPITEA 137 (222)
Q Consensus 69 ~~~~~ILfv~t~~~~---~~~v~~~a~~~g---~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d-----~~aI~Ea 137 (222)
.+-.+|.|++..... .+.-.++.+..+ ..|-.+.|..|.+.+ ..+-+++|++.+..+ ..+++.+
T Consensus 11 ~~~~~i~~~G~G~s~~~a~e~~~kl~e~~~i~~~~~~~~e~~hg~~~~-----~~~~~~vi~is~~g~t~~~~~~~~~~~ 85 (153)
T cd05009 11 KEAKSFYVLGRGPNYGTALEGALKLKETSYIHAEAYSAGEFKHGPIAL-----VDEGTPVIFLAPEDRLEEKLESLIKEV 85 (153)
T ss_pred hccCcEEEEcCCCCHHHHHHHHHHHHHHHhhcceeccHHHhccChhhh-----ccCCCcEEEEecCChhHHHHHHHHHHH
Confidence 345678888887532 333334444432 223345566664433 345667777764322 3578888
Q ss_pred hhcCCCEEEEecCCCCCCcceE--EccCCCC--CchhHHHHHHHHHHHHHhhhCCC
Q psy16262 138 AYVNIPVIAFCNTESPLRFVDI--AIPCNNK--SPHSIGLMWWLLAREVLRFRGVI 189 (222)
Q Consensus 138 ~~l~IP~IalvDTd~~~~~Idy--pIP~Ndd--s~~si~li~~lL~~ai~~~~g~~ 189 (222)
++.|.|+++|.+.+.+....|+ .+|.-.+ ++-..-+.+++|+..+...+|..
T Consensus 86 ~~~~~~vi~it~~~~s~~~~d~~i~~~~~~~~~~~~~~~~~~q~la~~~a~~~g~~ 141 (153)
T cd05009 86 KARGAKVIVITDDGDAKDLADVVIRVPATVEELSPLLYIVPLQLLAYHLAVARGID 141 (153)
T ss_pred HHcCCEEEEEecCCcccccCCeEEECCCCchhHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 9999999999887643233344 4443222 23344455577777777666554
No 50
>PRK07765 para-aminobenzoate synthase component II; Provisional
Probab=78.46 E-value=9.9 Score=32.51 Aligned_cols=76 Identities=11% Similarity=0.148 Sum_probs=45.6
Q ss_pred cEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC----CC---CCchhhhHhhhcCCCEE
Q psy16262 73 DVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD----PH---TDHQPITEAAYVNIPVI 145 (222)
Q Consensus 73 ~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d----p~---~d~~aI~Ea~~l~IP~I 145 (222)
+|+++.........+..+....|.....-++--+.+. ........+|.||++. |. .+...+++|...++|+.
T Consensus 2 ~ilv~d~~~~~~~~~~~~l~~~G~~~~~~~~~~~~~~-~~~~~~~~~dgliisGGp~~~~~~~~~~~~i~~~~~~~~PiL 80 (214)
T PRK07765 2 RILVVDNYDSFVFNLVQYLGQLGVEAEVWRNDDPRLA-DEAAVAAQFDGVLLSPGPGTPERAGASIDMVRACAAAGTPLL 80 (214)
T ss_pred eEEEEECCCcHHHHHHHHHHHcCCcEEEEECCCcCHH-HHHHhhcCCCEEEECCCCCChhhcchHHHHHHHHHhCCCCEE
Confidence 4677777766555566666667766443222111111 1112234699999983 32 22468899988899999
Q ss_pred EEec
Q psy16262 146 AFCN 149 (222)
Q Consensus 146 alvD 149 (222)
|+|=
T Consensus 81 GIC~ 84 (214)
T PRK07765 81 GVCL 84 (214)
T ss_pred EEcc
Confidence 9983
No 51
>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=78.44 E-value=8.6 Score=32.19 Aligned_cols=60 Identities=7% Similarity=-0.064 Sum_probs=39.2
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCC-CcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPL-RFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~-~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
..+|.+|+..+..+...++++...+||+|.+ |++... ..+.|.-+ |...+.......|.+
T Consensus 59 ~~~dgiii~~~~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~~v~~---d~~~~g~~~~~~l~~ 119 (270)
T cd06294 59 KRVDGFILLYSREDDPIIDYLKEEKFPFVVI-GKPEDDKENITYVDN---DNIQAGYDATEYLIK 119 (270)
T ss_pred cCcCEEEEecCcCCcHHHHHHHhcCCCEEEE-CCCCCCCCCCCeEEE---CcHHHHHHHHHHHHH
Confidence 4599999987666677889999999999987 554432 33444443 334555555554443
No 52
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=78.42 E-value=8.4 Score=32.12 Aligned_cols=59 Identities=15% Similarity=0.023 Sum_probs=39.1
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
+.+|.|++..+..+..+++++...+||+|.+ |++.+...+.+.- .|..++-......|.
T Consensus 54 ~~~dgiii~~~~~~~~~l~~~~~~~ipvV~~-~~~~~~~~~~~v~---~d~~~~g~~~~~~l~ 112 (267)
T cd06283 54 YQVDGLIVNPTGNNKELYQRLAKNGKPVVLV-DRKIPELGVDTVT---LDNYEAAKEAVDHLI 112 (267)
T ss_pred cCcCEEEEeCCCCChHHHHHHhcCCCCEEEE-cCCCCCCCCCEEE---eccHHHHHHHHHHHH
Confidence 5789999987666666789999999999997 5554433455544 233455555555443
No 53
>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=78.26 E-value=7.4 Score=32.88 Aligned_cols=92 Identities=14% Similarity=0.091 Sum_probs=48.1
Q ss_pred HHHHHHHHh-hCCCcEEEEecCh--h---hHHHHHHHHHHcCCccccc-cccCCccchHHHhhccCCcEEEEeCCCCCch
Q psy16262 60 LAARAIVAI-EHPADVFVISSRP--I---GQRAVLKFASYTGATPIAG-RFTPGAFTNQIQAAFREPRLLVVTDPHTDHQ 132 (222)
Q Consensus 60 ~a~~~i~~i-~~~~~ILfv~t~~--~---~~~~v~~~a~~~g~~yv~~-rW~gG~LTN~i~~~~~~P~lvii~dp~~d~~ 132 (222)
.++..+... ...++|.+++... . ..+.+++.++..|...+.. .+....+...++.....||.|++.+...-.-
T Consensus 119 ~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~dai~~~~d~~a~~ 198 (281)
T cd06325 119 TQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELKKAAAKLGIEVVEATVSSSNDVQQAAQSLAGKVDAIYVPTDNTVAS 198 (281)
T ss_pred HHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHHHHHHhCCCEEEEEecCCHHHHHHHHHHhcccCCEEEEcCchhHHh
Confidence 344444443 3556787775432 1 2234455566666543321 1211223344444445589988876433223
Q ss_pred hhhHhhh----cCCCEEEEecCC
Q psy16262 133 PITEAAY----VNIPVIAFCNTE 151 (222)
Q Consensus 133 aI~Ea~~----l~IP~IalvDTd 151 (222)
+++++.. .+||++|+-|+.
T Consensus 199 ~~~~~~~~~~~~~ipvig~d~~~ 221 (281)
T cd06325 199 AMEAVVKVANEAKIPVIASDDDM 221 (281)
T ss_pred HHHHHHHHHHHcCCCEEEcCHHH
Confidence 4444444 379999998875
No 54
>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=77.59 E-value=8.8 Score=32.25 Aligned_cols=60 Identities=13% Similarity=0.156 Sum_probs=39.2
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.+++.....+...++++...|+|+|.+ |.+.+...+.+... |...+.+.....|.+
T Consensus 54 ~~vdgiii~~~~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~V~~---d~~~~g~~~~~~l~~ 113 (264)
T cd06274 54 RQVDALIVAGSLPPDDPYYLCQKAGLPVVAL-DRPGDPSRFPSVVS---DNRDGAAELTRELLA 113 (264)
T ss_pred cCCCEEEEcCCCCchHHHHHHHhcCCCEEEe-cCccCCCCCCEEEE---ccHHHHHHHHHHHHH
Confidence 5789999887655555588888899999987 66654334556443 445555554554443
No 55
>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=76.67 E-value=10 Score=31.76 Aligned_cols=60 Identities=15% Similarity=-0.058 Sum_probs=39.6
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+..|.++++.+..+...++++...|||+|.+ |+..+...+.|.. .|...+.......|.+
T Consensus 54 ~~vdgiii~~~~~~~~~~~~l~~~~iPvv~~-~~~~~~~~~~~v~---~d~~~~~~~~~~~l~~ 113 (268)
T cd06273 54 RGVDGLALIGLDHSPALLDLLARRGVPYVAT-WNYSPDSPYPCVG---FDNREAGRLAARHLIA 113 (268)
T ss_pred cCCCEEEEeCCCCCHHHHHHHHhCCCCEEEE-cCCCCCCCCCEEE---eChHHHHHHHHHHHHH
Confidence 4689999988776778889999999999987 4443333355544 3444555555554443
No 56
>PTZ00295 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=76.57 E-value=76 Score=31.60 Aligned_cols=128 Identities=18% Similarity=0.189 Sum_probs=69.4
Q ss_pred hhCCCcEEEEecChhhH---HHHHHHHHHcC---CccccccccCCccchHHHhhcc--CCcEEEEeCCCCC-----chhh
Q psy16262 68 IEHPADVFVISSRPIGQ---RAVLKFASYTG---ATPIAGRFTPGAFTNQIQAAFR--EPRLLVVTDPHTD-----HQPI 134 (222)
Q Consensus 68 i~~~~~ILfv~t~~~~~---~~v~~~a~~~g---~~yv~~rW~gG~LTN~i~~~~~--~P~lvii~dp~~d-----~~aI 134 (222)
+.+..++.|++...... +.-.|+.+... ..|-.+.+..|-+ .+.. +-+.+|++.+..+ ..++
T Consensus 493 l~~a~~i~~lGrG~~~~iA~E~ALKLkEi~~i~ae~~~~~E~~HGp~-----ali~~~~~~~VI~i~~~~~~~~~~~~~~ 567 (640)
T PTZ00295 493 LKNAKSMFILGKGLGYPIALEGALKIKEITYIHAEGFSGGALKHGPF-----ALIDKEKNTPVILIILDDEHKELMINAA 567 (640)
T ss_pred HhCCCcEEEEECCCCHHHHHHHHHHHHHHhhhhhhhcChHHhhhhHH-----HHhcCCCCCeEEEEEcCCccHHHHHHHH
Confidence 34567788888886442 22223333221 1233344455522 2222 2345555544322 4789
Q ss_pred hHhhhcCCCEEEEecCCCCC---CcceEEccCCC-CCchhHHHHHHHHHHHHHhhhCCCCCCCCccccccc
Q psy16262 135 TEAAYVNIPVIAFCNTESPL---RFVDIAIPCNN-KSPHSIGLMWWLLAREVLRFRGVIGPDYLTILGTYI 201 (222)
Q Consensus 135 ~Ea~~l~IP~IalvDTd~~~---~~IdypIP~Nd-ds~~si~li~~lL~~ai~~~~g~~~~~~~~~~~~~~ 201 (222)
+|++..|-++|+|.+..... ....+++|.+. -++-..-.-+++|+..+...||- +++.|+.|..-+
T Consensus 568 ~~lk~rga~vi~It~~~~~l~~~ad~~i~ip~~~~l~p~~~~ip~Qllay~la~~~G~-dpD~pr~LaK~v 637 (640)
T PTZ00295 568 EQVKARGAYIIVITDDEDLVKDFADEIILIPSNGPLTALLAVIPLQLLAYEIAILRGI-NPDKPRGLAKTV 637 (640)
T ss_pred HHHHHcCCEEEEEecCCccccccCCeEEEeCCcccchHHHHHHHHHHHHHHHHHHcCC-CCCCCCCCCccE
Confidence 99999999999998764311 12455666642 11122223346677777766654 467777766544
No 57
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=76.52 E-value=54 Score=29.07 Aligned_cols=72 Identities=18% Similarity=0.144 Sum_probs=43.2
Q ss_pred hccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecC-CCCCCc-ce--EEccCCCCC--------chhHHHHHHHH
Q psy16262 115 AFREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNT-ESPLRF-VD--IAIPCNNKS--------PHSIGLMWWLL 178 (222)
Q Consensus 115 ~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDT-d~~~~~-Id--ypIP~Ndds--------~~si~li~~lL 178 (222)
....=|++|+++-..+ ..+++.|+..|.|+|+|.|+ +++... .| +..|.++.+ .-+.-+++.+|
T Consensus 174 ~~~~~Dv~i~iS~sG~t~e~i~~a~~ak~~ga~vIaiT~~~~spla~~Ad~~L~~~~~~~~~~~~~~~s~~a~l~l~d~L 253 (281)
T COG1737 174 LLTPGDVVIAISFSGYTREIVEAAELAKERGAKVIAITDSADSPLAKLADIVLLVPVAEESFFRSPISSRIAQLALIDAL 253 (281)
T ss_pred hCCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCcEEEEcCCCCCchhhhhceEEeccCccccchhhhHHHHHHHHHHHHHH
Confidence 3455568888874333 56778889999999999999 555432 33 333333322 22334455566
Q ss_pred HHHHHhhh
Q psy16262 179 AREVLRFR 186 (222)
Q Consensus 179 ~~ai~~~~ 186 (222)
..++...+
T Consensus 254 ~~~~~~~~ 261 (281)
T COG1737 254 ITAVAQRR 261 (281)
T ss_pred HHHHHHHh
Confidence 66665444
No 58
>TIGR01135 glmS glucosamine--fructose-6-phosphate aminotransferase (isomerizing). The member from Methanococcus jannaschii contains an intein.
Probab=76.32 E-value=21 Score=35.04 Aligned_cols=93 Identities=8% Similarity=0.064 Sum_probs=51.5
Q ss_pred hCCCcEEEEecChhh--HHHHHHHHHHc-CCccccccccCCccchHHHhhccCCcEEEEeCCCCC----chhhhHhhhcC
Q psy16262 69 EHPADVFVISSRPIG--QRAVLKFASYT-GATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD----HQPITEAAYVN 141 (222)
Q Consensus 69 ~~~~~ILfv~t~~~~--~~~v~~~a~~~-g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l~ 141 (222)
.+.++|.|+++.... ....+.+..+. +... ................+.|++|++...-+ ..+++.|+..|
T Consensus 289 ~~~~~I~~~G~GsS~~aa~~a~~~~~~~~~i~~---~~~~~~~~~~~~~~~~~~dlvI~iS~SG~T~e~v~a~~~ak~~g 365 (607)
T TIGR01135 289 KNVDRIQIVACGTSYHAGLVAKYLIERLAGIPV---EVEIASEFRYRKPVVDKDTLVIAISQSGETADTLAALRLAKELG 365 (607)
T ss_pred ccCCEEEEEEeechHHHHHHHHHHHHHhcCCCE---EEecHHHHhhcCCCCCCCCEEEEEeCCCCCHHHHHHHHHHHHcC
Confidence 345678888888542 22333333332 3221 11111111111122356788888865433 56888889999
Q ss_pred CCEEEEecCCCCC--CcceEEccCC
Q psy16262 142 IPVIAFCNTESPL--RFVDIAIPCN 164 (222)
Q Consensus 142 IP~IalvDTd~~~--~~IdypIP~N 164 (222)
.|+|+|.+...++ +..|+.|+..
T Consensus 366 a~~IaIT~~~~S~La~~ad~~l~~~ 390 (607)
T TIGR01135 366 AKTLGICNVPGSTLVRESDHTLYTR 390 (607)
T ss_pred CcEEEEECCCCChHHhhcCceEEec
Confidence 9999999864444 2456666544
No 59
>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=73.79 E-value=14 Score=31.71 Aligned_cols=59 Identities=12% Similarity=-0.015 Sum_probs=38.7
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
..+|.+++.....+...++++...|+|+|.+ |++.+ ..+++.-+ |...+-......|.+
T Consensus 55 ~~~dgiii~~~~~~~~~~~~~~~~~ipvV~~-~~~~~-~~~~~v~~---d~~~~g~~~~~~L~~ 113 (283)
T cd06279 55 ALVDGFIVYGVPRDDPLVAALLRRGLPVVVV-DQPLP-PGVPSVGI---DDRAAAREAARHLLD 113 (283)
T ss_pred cCCCEEEEeCCCCChHHHHHHHHcCCCEEEE-ecCCC-CCCCEEee---CcHHHHHHHHHHHHH
Confidence 5789999886555556899999999999976 66554 33555443 334444444454443
No 60
>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=72.57 E-value=14 Score=31.11 Aligned_cols=60 Identities=20% Similarity=0.163 Sum_probs=36.1
Q ss_pred cCCcEEEEeCCCCC-----chhhhHhhhcCCCEEEEecCCCCC-CcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD-----HQPITEAAYVNIPVIAFCNTESPL-RFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d-----~~aI~Ea~~l~IP~IalvDTd~~~-~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.+|++.+..+ ..+++++.+.++|+|.+ |++.+. ..+++.. .|..++.......|.+
T Consensus 54 ~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i-~~~~~~~~~~~~V~---~d~~~~~~~~~~~l~~ 119 (273)
T cd06292 54 RGVRGVVFISSLHADTHADHSHYERLAERGLPVVLV-NGRAPPPLKVPHVS---TDDALAMRLAVRHLVA 119 (273)
T ss_pred cCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEE-cCCCCCCCCCCEEE---ECcHHHHHHHHHHHHH
Confidence 57999999764332 23588999999999986 554432 2244444 2444444444444443
No 61
>PLN02335 anthranilate synthase
Probab=72.37 E-value=15 Score=31.54 Aligned_cols=77 Identities=12% Similarity=0.216 Sum_probs=46.0
Q ss_pred hCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC-C---CCCchhhhHhhhc--CC
Q psy16262 69 EHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD-P---HTDHQPITEAAYV--NI 142 (222)
Q Consensus 69 ~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d-p---~~d~~aI~Ea~~l--~I 142 (222)
...++||+|.........+.+..+..|.....-++-...+ ..+ ....||.||+.. | ......+++...+ ++
T Consensus 16 ~~~~~ilviD~~dsft~~i~~~L~~~g~~~~v~~~~~~~~-~~~--~~~~~d~iVisgGPg~p~d~~~~~~~~~~~~~~~ 92 (222)
T PLN02335 16 KQNGPIIVIDNYDSFTYNLCQYMGELGCHFEVYRNDELTV-EEL--KRKNPRGVLISPGPGTPQDSGISLQTVLELGPLV 92 (222)
T ss_pred CccCcEEEEECCCCHHHHHHHHHHHCCCcEEEEECCCCCH-HHH--HhcCCCEEEEcCCCCChhhccchHHHHHHhCCCC
Confidence 4568899998877666666666677787655445422221 111 123599999986 3 2222234433344 59
Q ss_pred CEEEEe
Q psy16262 143 PVIAFC 148 (222)
Q Consensus 143 P~Ialv 148 (222)
|+.|+|
T Consensus 93 PiLGIC 98 (222)
T PLN02335 93 PLFGVC 98 (222)
T ss_pred CEEEec
Confidence 999988
No 62
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=71.65 E-value=16 Score=30.60 Aligned_cols=59 Identities=12% Similarity=0.101 Sum_probs=38.1
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHH
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLL 178 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL 178 (222)
...+|.||+.....+...++++...|||+|.+ |++.....+++... | ...+.......|
T Consensus 53 ~~~vdgiIi~~~~~~~~~~~~l~~~~ipvV~~-~~~~~~~~~~~v~~-d--~~~~~~~~~~~l 111 (265)
T cd06299 53 SQRVDGIIVVPHEQSAEQLEDLLKRGIPVVFV-DREITGSPIPFVTS-D--PQPGMTEAVSLL 111 (265)
T ss_pred hcCCCEEEEcCCCCChHHHHHHHhCCCCEEEE-ecccCCCCCCEEEE-C--cHHHHHHHHHHH
Confidence 35799999987665667799999999999965 55443344556543 2 234444444444
No 63
>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=70.62 E-value=16 Score=30.70 Aligned_cols=60 Identities=15% Similarity=-0.025 Sum_probs=38.0
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
.+.+|.+|+.....+...++++...|+|+|.+ |++.+....++. ..|...+.......|.
T Consensus 53 ~~~vdgii~~~~~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~v---~~d~~~~~~~~~~~l~ 112 (268)
T cd06270 53 ERRCDALILHSKALSDDELIELAAQVPPLVLI-NRHIPGLADRCI---WLDNEQGGYLATEHLI 112 (268)
T ss_pred HcCCCEEEEecCCCCHHHHHHHhhCCCCEEEE-eccCCCCCCCeE---EECcHHHHHHHHHHHH
Confidence 46899999987654444589999999999988 554433223332 2345555555555554
No 64
>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=70.34 E-value=17 Score=30.51 Aligned_cols=58 Identities=14% Similarity=0.059 Sum_probs=37.9
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
...+|.+++..+..+...++|+...+||+|.+ |.+.+ ...+.- .|..++.......|.
T Consensus 53 ~~~~dgiii~~~~~~~~~~~~~~~~~iPvv~~-~~~~~--~~~~V~---~d~~~ag~~a~~~L~ 110 (265)
T cd06285 53 DRRVDGLILGDARSDDHFLDELTRRGVPFVLV-LRHAG--TSPAVT---GDDVLGGRLATRHLL 110 (265)
T ss_pred HcCCCEEEEecCCCChHHHHHHHHcCCCEEEE-ccCCC--CCCEEE---eCcHHHHHHHHHHHH
Confidence 35799999987766777889999999999776 54432 233332 344455555555443
No 65
>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=70.23 E-value=18 Score=29.63 Aligned_cols=60 Identities=18% Similarity=0.082 Sum_probs=38.9
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.+++.....+...++++...+||+|++ |++.+...+.+.- .|...+..+....|.+
T Consensus 54 ~~~d~iii~~~~~~~~~~~~~~~~~ipvv~~-~~~~~~~~~~~v~---~d~~~~g~~~~~~l~~ 113 (264)
T cd06267 54 RRVDGIILAPSRLDDELLEELAALGIPVVLV-DRPLDGLGVDSVG---IDNRAGAYLAVEHLIE 113 (264)
T ss_pred cCcCEEEEecCCcchHHHHHHHHcCCCEEEe-cccccCCCCCEEe---eccHHHHHHHHHHHHH
Confidence 5799999987665555589999999999997 4443323344432 2344555555555543
No 66
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=70.16 E-value=9.9 Score=34.51 Aligned_cols=90 Identities=11% Similarity=0.062 Sum_probs=52.7
Q ss_pred hCCCcEEEEec---ChhhH---HHHHHHHHHcCCccccccccCCccch--H---HHhh-ccCCcEEEEeCCCCC--chhh
Q psy16262 69 EHPADVFVISS---RPIGQ---RAVLKFASYTGATPIAGRFTPGAFTN--Q---IQAA-FREPRLLVVTDPHTD--HQPI 134 (222)
Q Consensus 69 ~~~~~ILfv~t---~~~~~---~~v~~~a~~~g~~yv~~rW~gG~LTN--~---i~~~-~~~P~lvii~dp~~d--~~aI 134 (222)
..+.+|-||.. .++.. .-+++.|++.|...+. ..+..-.. + ++.+ .+.+|.|++.....+ ..++
T Consensus 21 ~~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~--~~~~~~d~~~q~~~i~~li~~~vdgIiv~~~d~~al~~~l 98 (336)
T PRK15408 21 QAAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTY--DGPTEPSVSGQVQLINNFVNQGYNAIIVSAVSPDGLCPAL 98 (336)
T ss_pred cCCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEE--ECCCCCCHHHHHHHHHHHHHcCCCEEEEecCCHHHHHHHH
Confidence 45667765543 24443 3456778877754322 12222111 1 2222 367999999754444 6899
Q ss_pred hHhhhcCCCEEEEecCCCCCCcceEEc
Q psy16262 135 TEAAYVNIPVIAFCNTESPLRFVDIAI 161 (222)
Q Consensus 135 ~Ea~~l~IP~IalvDTd~~~~~IdypI 161 (222)
++|...|||+|. +|++.+.....+-|
T Consensus 99 ~~a~~~gIpVV~-~d~~~~~~~~~~~V 124 (336)
T PRK15408 99 KRAMQRGVKVLT-WDSDTKPECRSYYI 124 (336)
T ss_pred HHHHHCCCeEEE-eCCCCCCccceEEE
Confidence 999999999998 55655444444444
No 67
>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=69.94 E-value=19 Score=30.38 Aligned_cols=59 Identities=14% Similarity=0.209 Sum_probs=36.4
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCCC--CcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESPL--RFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~~--~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
..+|.||+.....+ ...++++...|||+|.+ |++.+. ..++|.-+ |...+.......|.
T Consensus 54 ~~~Dgiii~~~~~~~~~~~i~~~~~~~iPvV~~-~~~~~~~~~~~~~v~~---d~~~~g~~~~~~l~ 116 (282)
T cd06318 54 RGVNVLIINPVDPEGLVPAVAAAKAAGVPVVVV-DSSINLEAGVVTQVQS---SNAKNGNLVGEWVV 116 (282)
T ss_pred cCCCEEEEecCCccchHHHHHHHHHCCCCEEEe-cCCCCCCcCeEEEEec---CcHHHHHHHHHHHH
Confidence 57999998765444 35689999999999987 554332 33555554 33344444444443
No 68
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=69.17 E-value=11 Score=28.70 Aligned_cols=54 Identities=13% Similarity=0.154 Sum_probs=37.3
Q ss_pred ccCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCCC-c------ceEEccCCCCCchh
Q psy16262 116 FREPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPLR-F------VDIAIPCNNKSPHS 170 (222)
Q Consensus 116 ~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~~-~------IdypIP~Ndds~~s 170 (222)
..+.|++|++...-+ ..+++.|+..|+|+|++.+ +.+.. . ..+++|.+.-.+.|
T Consensus 41 ~~~~dl~I~iS~SG~t~e~i~~~~~a~~~g~~iI~IT~-~~~l~~~~~~~~~~~~~~p~~~~~r~s 105 (119)
T cd05017 41 VDRKTLVIAVSYSGNTEETLSAVEQAKERGAKIVAITS-GGKLLEMAREHGVPVIIIPKGLQPRAA 105 (119)
T ss_pred CCCCCEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEeC-CchHHHHHHHcCCcEEECCCCCCCcee
Confidence 356788888875433 5678889999999999995 33333 1 34777877755544
No 69
>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=67.83 E-value=19 Score=30.34 Aligned_cols=60 Identities=13% Similarity=0.083 Sum_probs=36.3
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.||+.....+ ...++++...|||+|.+ |+..+...+.+.-+ |...+-+.....|.+
T Consensus 59 ~~vdgiIi~~~~~~~~~~~l~~~~~~~iPvv~~-~~~~~~~~~~~v~~---d~~~~g~~~~~~l~~ 120 (272)
T cd06300 59 QGVDAIIINPASPTALNPVIEEACEAGIPVVSF-DGTVTTPCAYNVNE---DQAEFGKQGAEWLVK 120 (272)
T ss_pred cCCCEEEEeCCChhhhHHHHHHHHHCCCeEEEE-ecCCCCCceeEecC---CHHHHHHHHHHHHHH
Confidence 47999999765443 45688999999999998 44433233444433 333344444444433
No 70
>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=67.60 E-value=24 Score=29.79 Aligned_cols=61 Identities=15% Similarity=0.018 Sum_probs=36.8
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCCCC--cceEEccCCCCCchhHHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESPLR--FVDIAIPCNNKSPHSIGLMWWLLARE 181 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~~~--~IdypIP~Ndds~~si~li~~lL~~a 181 (222)
+.+|.|++.....+ ..+++++...|||+|.+ |+..+.. ...|.- . |...+-.+....|.+.
T Consensus 59 ~~vDgiii~~~~~~~~~~~i~~~~~~gIpvV~~-d~~~~~~~~~~~~V~-~--d~~~~g~~aa~~l~~~ 123 (274)
T cd06311 59 RKIDALVILPFESAPLTQPVAKAKKAGIFVVVV-DRGLSSPGAQDLYVA-G--DNYGMGRVAGEYIATK 123 (274)
T ss_pred cCCCEEEEeCCCchhhHHHHHHHHHCCCeEEEE-cCCCCCCcccceEEc-C--CcHHHHHHHHHHHHHH
Confidence 57999998854433 36789999999999986 5543322 223432 2 3344445555555544
No 71
>PTZ00394 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=67.22 E-value=90 Score=31.49 Aligned_cols=126 Identities=13% Similarity=0.122 Sum_probs=71.8
Q ss_pred hCCCcEEEEecChhhHHHHH---HH---HHHcCCccccccccCCccchHHHhhccCCc-EEEEeCCCC-----CchhhhH
Q psy16262 69 EHPADVFVISSRPIGQRAVL---KF---ASYTGATPIAGRFTPGAFTNQIQAAFREPR-LLVVTDPHT-----DHQPITE 136 (222)
Q Consensus 69 ~~~~~ILfv~t~~~~~~~v~---~~---a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~-lvii~dp~~-----d~~aI~E 136 (222)
.+...++|++......-+.+ |+ +-..-..|-.+.|..|-+ .+. .++ .||++.+.. ...+++|
T Consensus 524 ~~~~~~~~lGrG~~y~~A~EgALKlkE~syi~ae~y~~~EfkHGP~-----ali-d~~~pVi~l~~~~~~~e~~~~~~~e 597 (670)
T PTZ00394 524 KESSSILVLGRGYDLATAMEAALKVKELSYVHTEGIHSGELKHGPL-----ALI-DETSPVLAMCTHDKHFGLSKSAVQQ 597 (670)
T ss_pred hCCCcEEEEeCCCCHHHHHHHHHHHHHHHHHHhCcCChhhccCCcH-----HHh-cCCceEEEEEcCCchHHHHHHHHHH
Confidence 45578899998875432222 22 222233344556666622 111 233 344444322 2458999
Q ss_pred hhhcCCCEEEEecCCC-C---CCcceEEccCCCCCchhHHH--HHHHHHHHHHhhhCCCCCCCCccccccc
Q psy16262 137 AAYVNIPVIAFCNTES-P---LRFVDIAIPCNNKSPHSIGL--MWWLLAREVLRFRGVIGPDYLTILGTYI 201 (222)
Q Consensus 137 a~~l~IP~IalvDTd~-~---~~~IdypIP~Ndds~~si~l--i~~lL~~ai~~~~g~~~~~~~~~~~~~~ 201 (222)
.+..+=.++.|.+.+. . .....+.+|..++-...+-+ .+.+|+..+...||. +++.|+.|..-+
T Consensus 598 vk~~g~~vi~I~~~~~~~~~~~~~~~i~vp~~~~~l~pll~~iplQllAy~~A~~rG~-dpD~PRnLaKsV 667 (670)
T PTZ00394 598 VKARGGAVVVFATEVDAELKAAASEIVLVPKTVDCLQCVVNVIPFQLLAYYMALLRGN-NVDCPRNLAKSV 667 (670)
T ss_pred HHHcCCeEEEEECCCcchhcccCCcEEECCCCchhHhHHHHHHHHHHHHHHHHHHcCC-CCCCCCCCCceE
Confidence 9999999999976431 1 12356678876554444333 246777777777765 567777766544
No 72
>PRK06774 para-aminobenzoate synthase component II; Provisional
Probab=66.49 E-value=32 Score=28.45 Aligned_cols=70 Identities=19% Similarity=0.279 Sum_probs=40.4
Q ss_pred EEEEecChhhHH-HHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC-C---CC---CchhhhHhhhcCCCEE
Q psy16262 74 VFVISSRPIGQR-AVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD-P---HT---DHQPITEAAYVNIPVI 145 (222)
Q Consensus 74 ILfv~t~~~~~~-~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d-p---~~---d~~aI~Ea~~l~IP~I 145 (222)
||+|.+...... ++.-+ ++.|.....-+|-...+.. +++ ..||.||+.. | .+ ....+++ ...++|+.
T Consensus 2 il~id~~dsf~~nl~~~l-~~~~~~~~v~~~~~~~~~~-~~~--~~~~~iilsgGP~~~~~~~~~~~~i~~-~~~~~PiL 76 (191)
T PRK06774 2 LLLIDNYDSFTYNLYQYF-CELGTEVMVKRNDELQLTD-IEQ--LAPSHLVISPGPCTPNEAGISLAVIRH-FADKLPIL 76 (191)
T ss_pred EEEEECCCchHHHHHHHH-HHCCCcEEEEeCCCCCHHH-HHh--cCCCeEEEcCCCCChHhCCCchHHHHH-hcCCCCEE
Confidence 788888876544 44444 4456554333443333322 222 3699999885 2 11 2345554 35599999
Q ss_pred EEe
Q psy16262 146 AFC 148 (222)
Q Consensus 146 alv 148 (222)
|+|
T Consensus 77 GIC 79 (191)
T PRK06774 77 GVC 79 (191)
T ss_pred EEC
Confidence 998
No 73
>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=66.02 E-value=21 Score=30.21 Aligned_cols=60 Identities=12% Similarity=0.165 Sum_probs=37.3
Q ss_pred CCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCC-CCCcceEEccCCCCCchhHHHHHHHHHHH
Q psy16262 118 EPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTES-PLRFVDIAIPCNNKSPHSIGLMWWLLARE 181 (222)
Q Consensus 118 ~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~-~~~~IdypIP~Ndds~~si~li~~lL~~a 181 (222)
.+|.+++.....+ ..+++++.+.|||+|.+- .+. +...+.|.-. |...+-+.....|.+.
T Consensus 58 ~vdgiii~~~~~~~~~~~i~~~~~~~ipvV~~~-~~~~~~~~~~~V~~---d~~~~g~~~~~~l~~~ 120 (275)
T cd06307 58 RSDGVALVAPDHPQVRAAVARLAAAGVPVVTLV-SDLPGSPRAGYVGI---DNRAAGRTAAWLIGRF 120 (275)
T ss_pred cCCEEEEeCCCcHHHHHHHHHHHHCCCcEEEEe-CCCCCCceeeEEcc---ChHHHHHHHHHHHHHH
Confidence 7999998875533 356899999999999774 332 2233555432 3344555555555554
No 74
>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=65.86 E-value=23 Score=30.10 Aligned_cols=63 Identities=16% Similarity=-0.003 Sum_probs=38.2
Q ss_pred cCCcEEEEeCCCCCch-hhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQ-PITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAREV 182 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~-aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ai 182 (222)
+.+|.||+.....+.. .++++...|||+|.+-+...++..+.+.- .|...+-+.....|.+..
T Consensus 56 ~~vdgiI~~~~~~~~~~~~~~~~~~giPvV~~~~~~~~~~~~~~V~---~d~~~~g~~~~~~l~~~g 119 (268)
T cd06306 56 WGADAILLGAVSPDGLNEILQQVAASIPVIALVNDINSPDITAKVG---VSWYEMGYQAGEYLAQRH 119 (268)
T ss_pred cCCCEEEEcCCChhhHHHHHHHHHCCCCEEEeccCCCCcceeEEec---CChHHHHHHHHHHHHHHh
Confidence 5799999876444332 58999999999998833212222234433 344555555556555544
No 75
>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=65.61 E-value=23 Score=29.64 Aligned_cols=59 Identities=12% Similarity=0.107 Sum_probs=37.9
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.+++.....+...++++...+||+|.+ |++.+ ..+++.-. |...+.......|.+
T Consensus 50 ~~vdgii~~~~~~~~~~~~~~~~~~ipvV~~-~~~~~-~~~~~V~~---d~~~~~~~~~~~l~~ 108 (261)
T cd06272 50 NRFDGVIIFGESASDVEYLYKIKLAIPVVSY-GVDYD-LKYPIVNV---DNEKAMELAVLYLAE 108 (261)
T ss_pred cCcCEEEEeCCCCChHHHHHHHHcCCCEEEE-cccCC-CCCCEEEE---ChHHHHHHHHHHHHH
Confidence 4699999987766666678888899999966 55543 33444432 334455555555543
No 76
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=65.26 E-value=51 Score=28.98 Aligned_cols=96 Identities=15% Similarity=0.095 Sum_probs=54.8
Q ss_pred HHHHHHHHHcCC-ccccccccCCccchHH---Hh-hccCCcEEEEe--CCCCCchhhhHhhhcCCCEEEEecCCCCC-Cc
Q psy16262 85 RAVLKFASYTGA-TPIAGRFTPGAFTNQI---QA-AFREPRLLVVT--DPHTDHQPITEAAYVNIPVIAFCNTESPL-RF 156 (222)
Q Consensus 85 ~~v~~~a~~~g~-~yv~~rW~gG~LTN~i---~~-~~~~P~lvii~--dp~~d~~aI~Ea~~l~IP~IalvDTd~~~-~~ 156 (222)
+.+++.|+..|. ..+..---.+....++ .. ..+.+|.|++. |+..-.-++++|..-|||+|.+-..-... ..
T Consensus 53 ~g~~~~a~~~g~~~~~~~~~~~~d~~~Q~~~i~~~ia~~~daIiv~~~d~~~~~~~v~~a~~aGIpVv~~d~~~~~~~~~ 132 (322)
T COG1879 53 KGAEAAAKKLGVVVAVVIADAQNDVAKQIAQIEDLIAQGVDAIIINPVDPDALTPAVKKAKAAGIPVVTVDSDIPGPGDR 132 (322)
T ss_pred HHHHHHHHHcCCcEEEEecccccChHHHHHHHHHHHHcCCCEEEEcCCChhhhHHHHHHHHHCCCcEEEEecCCCCCCce
Confidence 456677777775 1111111112222232 22 34789999995 66666889999999999999875443332 23
Q ss_pred ceEEccCCCCCchhHHHHHHHHHHHHH
Q psy16262 157 VDIAIPCNNKSPHSIGLMWWLLAREVL 183 (222)
Q Consensus 157 IdypIP~Ndds~~si~li~~lL~~ai~ 183 (222)
..|.-. |+..+=......+.+..-
T Consensus 133 ~~~vg~---dn~~~G~~~a~~l~~~~~ 156 (322)
T COG1879 133 VAYVGS---DNYKAGRLAAEYLAKALG 156 (322)
T ss_pred eEEEec---CcHHHHHHHHHHHHHHhC
Confidence 444443 344443444455555553
No 77
>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=65.10 E-value=29 Score=28.87 Aligned_cols=59 Identities=17% Similarity=0.059 Sum_probs=37.0
Q ss_pred cCCcEEEEeCCCCC-chhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD-HQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp~~d-~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
+.+|.+++.....+ ..+++++...|||+|.+ |++.+...++|.-+-| ..+.......|.
T Consensus 54 ~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~v~~d~---~~~~~~~~~~l~ 113 (268)
T cd06289 54 HGVAGIILCPAAGTSPDLLKRLAESGIPVVLV-AREVAGAPFDYVGPDN---AAGARLATEHLI 113 (268)
T ss_pred cCCCEEEEeCCCCccHHHHHHHHhcCCCEEEE-eccCCCCCCCEEeecc---hHHHHHHHHHHH
Confidence 56899999865443 34789999999999987 4443333455555433 344444444443
No 78
>CHL00101 trpG anthranilate synthase component 2
Probab=64.99 E-value=38 Score=28.12 Aligned_cols=73 Identities=8% Similarity=0.067 Sum_probs=42.8
Q ss_pred EEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCC------CchhhhHhhhcCCCEEEE
Q psy16262 74 VFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHT------DHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 74 ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~------d~~aI~Ea~~l~IP~Ial 147 (222)
||++....+....+.+..++.|.....-+.-.. +...-....||.||++.-.. ....+.++...++|+.|+
T Consensus 2 iliid~~dsft~~l~~~l~~~g~~~~v~~~~~~---~~~~~~~~~~dgiiisgGpg~~~~~~~~~~i~~~~~~~~PiLGI 78 (190)
T CHL00101 2 ILIIDNYDSFTYNLVQSLGELNSDVLVCRNDEI---DLSKIKNLNIRHIIISPGPGHPRDSGISLDVISSYAPYIPILGV 78 (190)
T ss_pred EEEEECCCchHHHHHHHHHhcCCCEEEEECCCC---CHHHHhhCCCCEEEECCCCCChHHCcchHHHHHHhcCCCcEEEE
Confidence 788888877666666666666655333222111 11111224699999886221 134455666679999999
Q ss_pred ec
Q psy16262 148 CN 149 (222)
Q Consensus 148 vD 149 (222)
|=
T Consensus 79 Cl 80 (190)
T CHL00101 79 CL 80 (190)
T ss_pred ch
Confidence 83
No 79
>TIGR00566 trpG_papA glutamine amidotransferase of anthranilate synthase or aminodeoxychorismate synthase. This model describes the glutamine amidotransferase domain or peptide of the tryptophan-biosynthetic pathway enzyme anthranilate synthase or of the folate biosynthetic pathway enzyme para-aminobenzoate synthase. In at least one case, a single polypeptide from Bacillus subtilis was shown to have both functions. This model covers a subset of the sequences described by the pfam model GATase.
Probab=64.96 E-value=29 Score=28.88 Aligned_cols=71 Identities=18% Similarity=0.325 Sum_probs=39.8
Q ss_pred EEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC-C---C---CCchhhhHhhhcCCCEEE
Q psy16262 74 VFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD-P---H---TDHQPITEAAYVNIPVIA 146 (222)
Q Consensus 74 ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d-p---~---~d~~aI~Ea~~l~IP~Ia 146 (222)
||+|........-+..+.+..|...+.-++-.-.+ ..+. ...||.||++. | . .+...++++ ..++|+.|
T Consensus 2 il~id~~dsft~~~~~~l~~~g~~v~v~~~~~~~~-~~~~--~~~~d~iilsgGpg~p~~~~~~~~~i~~~-~~~~PvLG 77 (188)
T TIGR00566 2 VLMIDNYDSFTYNLVQYFCELGAEVVVKRNDSLTL-QEIE--ALLPLLIVISPGPCTPNEAGISLEAIRHF-AGKLPILG 77 (188)
T ss_pred EEEEECCcCHHHHHHHHHHHcCCceEEEECCCCCH-HHHH--hcCCCEEEEcCCCCChhhcchhHHHHHHh-ccCCCEEE
Confidence 67777777655545545455555433222211111 1121 23599988885 3 1 124577777 56999999
Q ss_pred Ee
Q psy16262 147 FC 148 (222)
Q Consensus 147 lv 148 (222)
+|
T Consensus 78 IC 79 (188)
T TIGR00566 78 VC 79 (188)
T ss_pred EC
Confidence 98
No 80
>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=63.93 E-value=25 Score=29.53 Aligned_cols=57 Identities=12% Similarity=0.059 Sum_probs=36.0
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLL 178 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL 178 (222)
..+|.||+..... ...++++...+||+|. +|.+.+...+.|.-. |...+.......|
T Consensus 57 ~~vdgiii~~~~~-~~~~~~l~~~~ipvV~-~~~~~~~~~~~~V~~---d~~~~~~~a~~~l 113 (268)
T cd06277 57 GKVDGIILLGGIS-TEYIKEIKELGIPFVL-VDHYIPNEKADCVLT---DNYSGAYAATEYL 113 (268)
T ss_pred CCCCEEEEeCCCC-hHHHHHHhhcCCCEEE-EccCCCCCCCCEEEe---cchHHHHHHHHHH
Confidence 5799999887543 3458888899999995 576655444555332 3334444444433
No 81
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=62.52 E-value=19 Score=32.73 Aligned_cols=72 Identities=18% Similarity=0.278 Sum_probs=47.9
Q ss_pred cCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCCCcc-------eEEccCCCCCchhHHHHHHHHHHHHHhh
Q psy16262 117 REPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPLRFV-------DIAIPCNNKSPHSIGLMWWLLAREVLRF 185 (222)
Q Consensus 117 ~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~~~I-------dypIP~Ndds~~si~li~~lL~~ai~~~ 185 (222)
.+-|++|++...-+ ..+++.|+..|.++|++.+ ++++... .++||++.-+..|..+++..+. .++..
T Consensus 77 ~~~dlvI~iS~SG~T~e~~~a~~~a~~~ga~vIaIT~-~~~L~~~a~~~~~~~i~ip~~~~~r~s~~~ll~~l~-~~l~~ 154 (337)
T PRK08674 77 DEKTLVIAVSYSGNTEETLSAVEQALKRGAKIIAITS-GGKLKEMAKEHGLPVIIVPGGYQPRAALGYLFTPLL-KILEK 154 (337)
T ss_pred CCCcEEEEEcCCCCCHHHHHHHHHHHHCCCeEEEECC-CchHHHHHHhcCCeEEEeCCCCcchhhHHHHHHHHH-HHHHH
Confidence 56788888875433 4778899999999999996 3444333 6788888766666655555444 34444
Q ss_pred hCCCC
Q psy16262 186 RGVIG 190 (222)
Q Consensus 186 ~g~~~ 190 (222)
.|.+.
T Consensus 155 ~Gl~~ 159 (337)
T PRK08674 155 LGLIP 159 (337)
T ss_pred cCCCc
Confidence 44433
No 82
>PRK05670 anthranilate synthase component II; Provisional
Probab=62.50 E-value=26 Score=28.93 Aligned_cols=71 Identities=18% Similarity=0.326 Sum_probs=44.4
Q ss_pred EEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC----CC---CCchhhhHhhhcCCCEEE
Q psy16262 74 VFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD----PH---TDHQPITEAAYVNIPVIA 146 (222)
Q Consensus 74 ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d----p~---~d~~aI~Ea~~l~IP~Ia 146 (222)
||++.........+.++..+.|..+..-+|-.... ..+.+ ..||.||++. +. .....+++. ..++|+.|
T Consensus 2 iliid~~d~f~~~i~~~l~~~g~~~~v~~~~~~~~-~~~~~--~~~dglIlsgGpg~~~d~~~~~~~l~~~-~~~~PvLG 77 (189)
T PRK05670 2 ILLIDNYDSFTYNLVQYLGELGAEVVVYRNDEITL-EEIEA--LNPDAIVLSPGPGTPAEAGISLELIREF-AGKVPILG 77 (189)
T ss_pred EEEEECCCchHHHHHHHHHHCCCcEEEEECCCCCH-HHHHh--CCCCEEEEcCCCCChHHcchHHHHHHHh-cCCCCEEE
Confidence 78888888777777777777787765545532211 11222 2499999973 21 123445543 45799999
Q ss_pred Ee
Q psy16262 147 FC 148 (222)
Q Consensus 147 lv 148 (222)
+|
T Consensus 78 IC 79 (189)
T PRK05670 78 VC 79 (189)
T ss_pred EC
Confidence 98
No 83
>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=62.20 E-value=37 Score=28.16 Aligned_cols=36 Identities=19% Similarity=0.243 Sum_probs=28.9
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCC
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd 151 (222)
...+|.+++.....+..+++++...|||+|.+-+..
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~~~~ipvv~~~~~~ 88 (268)
T cd01575 53 SRRPAGLILTGLEHTERTRQLLRAAGIPVVEIMDLP 88 (268)
T ss_pred HcCCCEEEEeCCCCCHHHHHHHHhcCCCEEEEecCC
Confidence 357999999887666678888889999999986643
No 84
>PRK15484 lipopolysaccharide 1,2-N-acetylglucosaminetransferase; Provisional
Probab=61.75 E-value=85 Score=28.58 Aligned_cols=96 Identities=19% Similarity=0.206 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHhhCCCcEEEEecChh--------hHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCC
Q psy16262 57 KLLLAARAIVAIEHPADVFVISSRPI--------GQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPH 128 (222)
Q Consensus 57 ~L~~a~~~i~~i~~~~~ILfv~t~~~--------~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~ 128 (222)
.|.+|+..+..-...-+++++|..+. ..+.+++.++..+.. + .|+|..=.+.+...+..-|++++....
T Consensus 210 ~Li~A~~~l~~~~p~~~lvivG~g~~~~~~~~~~~~~~l~~~~~~l~~~-v--~~~G~~~~~~l~~~~~~aDv~v~pS~~ 286 (380)
T PRK15484 210 LLMQAFEKLATAHSNLKLVVVGDPTASSKGEKAAYQKKVLEAAKRIGDR-C--IMLGGQPPEKMHNYYPLADLVVVPSQV 286 (380)
T ss_pred HHHHHHHHHHHhCCCeEEEEEeCCccccccchhHHHHHHHHHHHhcCCc-E--EEeCCCCHHHHHHHHHhCCEEEeCCCC
Confidence 34455444432212335667775432 223445555555432 1 355543234455566777887775533
Q ss_pred CC--chhhhHhhhcCCCEEEEecCCCCCCc
Q psy16262 129 TD--HQPITEAAYVNIPVIAFCNTESPLRF 156 (222)
Q Consensus 129 ~d--~~aI~Ea~~l~IP~IalvDTd~~~~~ 156 (222)
.+ -.++-||...|.|+|+ .|....++.
T Consensus 287 ~E~f~~~~lEAma~G~PVI~-s~~gg~~Ei 315 (380)
T PRK15484 287 EEAFCMVAVEAMAAGKPVLA-STKGGITEF 315 (380)
T ss_pred ccccccHHHHHHHcCCCEEE-eCCCCcHhh
Confidence 33 3678899999999999 444444543
No 85
>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=61.70 E-value=28 Score=29.18 Aligned_cols=60 Identities=17% Similarity=0.154 Sum_probs=36.2
Q ss_pred cCCcEEEEeCCCC--CchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHT--DHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~--d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.+|+..+.. ....++++...|||+|.+ |++.+...+.+..+ |....-......|.+
T Consensus 54 ~~vdgii~~~~~~~~~~~~i~~~~~~~ipvV~~-~~~~~~~~~~~V~~---d~~~~g~~~~~~l~~ 115 (273)
T cd06305 54 QKVDAIIIQHGRAEVLKPWVKRALDAGIPVVAF-DVDSDNPKVNNTTQ---DDYSLARLSLDQLVK 115 (273)
T ss_pred cCCCEEEEecCChhhhHHHHHHHHHcCCCEEEe-cCCCCCCccceeee---chHHHHHHHHHHHHH
Confidence 4799999975432 356789999999999966 55443333444443 223444444444443
No 86
>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=61.13 E-value=35 Score=28.49 Aligned_cols=59 Identities=12% Similarity=-0.026 Sum_probs=37.8
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCC-CcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPL-RFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~-~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
+.+|.+++..+..+...++++...++|+|.+ |+..+. ..+.+.-+-| ..+.+.....|.
T Consensus 54 ~~~dgiii~~~~~~~~~~~~~~~~~ipvV~i-~~~~~~~~~~~~v~~d~---~~~~~~a~~~l~ 113 (270)
T cd06296 54 RRTDGVILVTPELTSAQRAALRRTGIPFVVV-DPAGDPDADVPSVGATN---WAGGLAATEHLL 113 (270)
T ss_pred cCCCEEEEecCCCChHHHHHHhcCCCCEEEE-ecccCCCCCCCEEEeCc---HHHHHHHHHHHH
Confidence 5689999887665667799999999999987 554322 3355544333 334444444443
No 87
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=60.24 E-value=36 Score=28.26 Aligned_cols=58 Identities=9% Similarity=-0.045 Sum_probs=35.1
Q ss_pred cCCcEEEEeCCCCC-chhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD-HQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp~~d-~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
+.+|.+|+.....+ ...++++...|||+|.+ |++.+ ...++.- .|...+.......|.
T Consensus 54 ~~vdgiii~~~~~~~~~~~~~~~~~~ipvV~~-~~~~~-~~~~~v~---~d~~~~g~~~~~~l~ 112 (266)
T cd06282 54 QRVDGLILTVADAATSPALDLLDAERVPYVLA-YNDPQ-PGRPSVS---VDNRAAARDVAQALA 112 (266)
T ss_pred cCCCEEEEecCCCCchHHHHHHhhCCCCEEEE-eccCC-CCCCEEe---eCcHHHHHHHHHHHH
Confidence 57999998654322 34689999999999988 44433 2344432 334455555555444
No 88
>cd03812 GT1_CapH_like This family is most closely related to the GT1 family of glycosyltransferases. capH in Staphylococcus aureus has been shown to be required for the biosynthesis of the type 1 capsular polysaccharide (CP1).
Probab=59.32 E-value=1.2e+02 Score=26.23 Aligned_cols=86 Identities=12% Similarity=0.108 Sum_probs=49.3
Q ss_pred HHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCC-CCchhhhH
Q psy16262 58 LLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPH-TDHQPITE 136 (222)
Q Consensus 58 L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~-~d~~aI~E 136 (222)
+..|+..+..-...-++.++|..+... .+++.++..+..- .=.|.|. ...+......-|+++...-. .-...+-|
T Consensus 210 li~a~~~l~~~~~~~~l~ivG~g~~~~-~~~~~~~~~~~~~-~v~~~g~--~~~~~~~~~~adi~v~ps~~E~~~~~~lE 285 (358)
T cd03812 210 LIEIFAELLKKNPNAKLLLVGDGELEE-EIKKKVKELGLED-KVIFLGV--RNDVPELLQAMDVFLFPSLYEGLPLVLIE 285 (358)
T ss_pred HHHHHHHHHHhCCCeEEEEEeCCchHH-HHHHHHHhcCCCC-cEEEecc--cCCHHHHHHhcCEEEecccccCCCHHHHH
Confidence 444444443222244677888766543 3455555544321 1134543 44455566677877765422 22677899
Q ss_pred hhhcCCCEEEE
Q psy16262 137 AAYVNIPVIAF 147 (222)
Q Consensus 137 a~~l~IP~Ial 147 (222)
|...|.|+|+-
T Consensus 286 Ama~G~PvI~s 296 (358)
T cd03812 286 AQASGLPCILS 296 (358)
T ss_pred HHHhCCCEEEE
Confidence 99999999983
No 89
>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=59.11 E-value=37 Score=28.28 Aligned_cols=36 Identities=19% Similarity=0.314 Sum_probs=26.5
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCC
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESP 153 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~ 153 (222)
..+|.+++..+..+..++.++...|||+|.+ |+..+
T Consensus 55 ~~vdgiii~~~~~~~~~~~~~~~~~ipvv~~-~~~~~ 90 (264)
T cd01574 55 QRVDGVIVNAPLDDADAALAAAPADVPVVFV-DGSPS 90 (264)
T ss_pred cCCCEEEEeCCCCChHHHHHHHhcCCCEEEE-eccCC
Confidence 5799999887655554667777889999997 55433
No 90
>cd01748 GATase1_IGP_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS). Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS). IGPS incorporates ammonia derived from glutamine into N1-[(5'-phosphoribulosyl)-formimino]-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to form 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR) and imidazole glycerol phosphate (IGP). The glutamine amidotransferase domain generates the ammonia nucleophile which is channeled from the glutaminase active site to the PRFAR active site. IGPS belong to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site.
Probab=58.49 E-value=32 Score=28.56 Aligned_cols=67 Identities=16% Similarity=0.116 Sum_probs=40.3
Q ss_pred EEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCC------------CchhhhHhhhcCC
Q psy16262 75 FVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHT------------DHQPITEAAYVNI 142 (222)
Q Consensus 75 Lfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~------------d~~aI~Ea~~l~I 142 (222)
++++...+.-..+.+..++.|.....-+. . .....+|.||+..+.. -...++++...++
T Consensus 2 ~i~d~g~~~~~~~~~~l~~~g~~v~v~~~-------~--~~l~~~d~iiipG~~~~~~~~~~~~~~~~~~~i~~~~~~~~ 72 (198)
T cd01748 2 AIIDYGMGNLRSVANALERLGAEVIITSD-------P--EEILSADKLILPGVGAFGDAMANLRERGLIEALKEAIASGK 72 (198)
T ss_pred EEEeCCCChHHHHHHHHHHCCCeEEEEcC-------h--HHhccCCEEEECCCCcHHHHHHHHHHcChHHHHHHHHHCCC
Confidence 45666665555566666666654322121 0 1124578888766421 2467888888899
Q ss_pred CEEEEecC
Q psy16262 143 PVIAFCNT 150 (222)
Q Consensus 143 P~IalvDT 150 (222)
|+.|+|--
T Consensus 73 pilGiC~G 80 (198)
T cd01748 73 PFLGICLG 80 (198)
T ss_pred cEEEECHH
Confidence 99999853
No 91
>TIGR03088 stp2 sugar transferase, PEP-CTERM/EpsH1 system associated. Members of this family include a match to the pfam00534 Glycosyl transferases group 1 domain. Nearly all are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria. In particular, these transferases are found proximal to a particular variant of exosortase, EpsH1, which appears to travel with a conserved group of genes summarized by Genome Property GenProp0652. The nature of the sugar transferase reaction catalyzed by members of this clade is unknown and may conceivably be variable with respect to substrate by species, but we hypothesize a conserved substrate.
Probab=58.36 E-value=72 Score=28.29 Aligned_cols=99 Identities=18% Similarity=0.238 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHHHh-hC---CCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCC
Q psy16262 53 RTWEKLLLAARAIVAI-EH---PADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPH 128 (222)
Q Consensus 53 ~T~~~L~~a~~~i~~i-~~---~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~ 128 (222)
+-...|.+|+..+..- .. +-+++++|..+.. +.+++.++..+.... -|..|...+ +......-|+++...-.
T Consensus 207 Kg~~~li~a~~~l~~~~~~~~~~~~l~i~G~g~~~-~~~~~~~~~~~~~~~--v~~~g~~~~-~~~~~~~adi~v~pS~~ 282 (374)
T TIGR03088 207 KDQPTLVRAFALLVRQLPEGAERLRLVIVGDGPAR-GACEQMVRAAGLAHL--VWLPGERDD-VPALMQALDLFVLPSLA 282 (374)
T ss_pred cCHHHHHHHHHHHHHhCcccccceEEEEecCCchH-HHHHHHHHHcCCcce--EEEcCCcCC-HHHHHHhcCEEEecccc
Confidence 3334455555544431 11 3356778866543 345666676665422 255664333 33444566776654422
Q ss_pred -CCchhhhHhhhcCCCEEEEecCCCCCCc
Q psy16262 129 -TDHQPITEAAYVNIPVIAFCNTESPLRF 156 (222)
Q Consensus 129 -~d~~aI~Ea~~l~IP~IalvDTd~~~~~ 156 (222)
.=..++-||...|+|+|+ .|....++.
T Consensus 283 Eg~~~~~lEAma~G~Pvv~-s~~~g~~e~ 310 (374)
T TIGR03088 283 EGISNTILEAMASGLPVIA-TAVGGNPEL 310 (374)
T ss_pred ccCchHHHHHHHcCCCEEE-cCCCCcHHH
Confidence 125689999999999999 555444443
No 92
>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=58.18 E-value=37 Score=28.46 Aligned_cols=61 Identities=15% Similarity=0.043 Sum_probs=36.9
Q ss_pred ccCCcEEEEeCCCC--CchhhhHhhhcCCCEEEEecCCCCC--CcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 116 FREPRLLVVTDPHT--DHQPITEAAYVNIPVIAFCNTESPL--RFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 116 ~~~P~lvii~dp~~--d~~aI~Ea~~l~IP~IalvDTd~~~--~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
.+.+|.+|+..... ....++++...+||+|.+ |++.+. ..+.+.-. |...+.......|.+
T Consensus 54 ~~~vdgiii~~~~~~~~~~~~~~l~~~~iPvv~~-~~~~~~~~~~~~~V~~---d~~~~g~~~~~~l~~ 118 (272)
T cd06301 54 AQGVDAIIVVPVDTAATAPIVKAANAAGIPLVYV-NRRPENAPKGVAYVGS---DEVVAGRLQAEYVAD 118 (272)
T ss_pred HcCCCEEEEecCchhhhHHHHHHHHHCCCeEEEe-cCCCCCCCCeeEEEec---ChHHHHHHHHHHHHH
Confidence 35789998875443 356789999999999965 554433 34555443 333344444444443
No 93
>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=57.78 E-value=49 Score=27.74 Aligned_cols=62 Identities=13% Similarity=0.113 Sum_probs=37.4
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCCCC-cceEEccCCCCCchhHHHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESPLR-FVDIAIPCNNKSPHSIGLMWWLLAREV 182 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~~~-~IdypIP~Ndds~~si~li~~lL~~ai 182 (222)
..+|.+++.....+ ...++++...++|+|.+ |...+.. ...+.. .|...+-+.....|.+..
T Consensus 54 ~~~dgiii~~~~~~~~~~~l~~~~~~~ipvV~~-~~~~~~~~~~~~v~---~d~~~~g~~~~~~l~~~~ 118 (277)
T cd06319 54 KGVSGIIISPTNSSAAVTLLKLAAQAKIPVVIA-DIGAEGGDYVSYIK---SDNYEGAYDLGKFLAAAM 118 (277)
T ss_pred cCCCEEEEcCCchhhhHHHHHHHHHCCCCEEEE-ecCCCCCceEEEEe---eccHHHHHHHHHHHHHHH
Confidence 57999987653332 45788999999999975 5543222 233433 244455555555555543
No 94
>PRK13566 anthranilate synthase; Provisional
Probab=57.59 E-value=96 Score=31.69 Aligned_cols=74 Identities=19% Similarity=0.302 Sum_probs=51.8
Q ss_pred CCcEEEEecChhhHHHHHHHHHHcCCccccccc-cCCccchHHHhhccCCcEEEEeC-CC-----CCchhhhHhhhcCCC
Q psy16262 71 PADVFVISSRPIGQRAVLKFASYTGATPIAGRF-TPGAFTNQIQAAFREPRLLVVTD-PH-----TDHQPITEAAYVNIP 143 (222)
Q Consensus 71 ~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW-~gG~LTN~i~~~~~~P~lvii~d-p~-----~d~~aI~Ea~~l~IP 143 (222)
+.+|++|.........+.++.+..|.....-++ .+. ..+. ...||.||++. |. .....+++|...++|
T Consensus 526 g~~IlvID~~dsf~~~l~~~Lr~~G~~v~vv~~~~~~---~~~~--~~~~DgVVLsgGpgsp~d~~~~~lI~~a~~~~iP 600 (720)
T PRK13566 526 GKRVLLVDHEDSFVHTLANYFRQTGAEVTTVRYGFAE---EMLD--RVNPDLVVLSPGPGRPSDFDCKATIDAALARNLP 600 (720)
T ss_pred CCEEEEEECCCchHHHHHHHHHHCCCEEEEEECCCCh---hHhh--hcCCCEEEECCCCCChhhCCcHHHHHHHHHCCCc
Confidence 357999998877777788888888876544443 221 1111 24799999873 21 347889999999999
Q ss_pred EEEEec
Q psy16262 144 VIAFCN 149 (222)
Q Consensus 144 ~IalvD 149 (222)
+.|+|=
T Consensus 601 ILGICl 606 (720)
T PRK13566 601 IFGVCL 606 (720)
T ss_pred EEEEeh
Confidence 999983
No 95
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=57.27 E-value=31 Score=28.89 Aligned_cols=35 Identities=14% Similarity=0.193 Sum_probs=26.0
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCC
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
+.+|.+++.....+ ...++++...+||+|.+ |++.
T Consensus 55 ~~vdgiii~~~~~~~~~~~l~~~~~~~iPvV~~-~~~~ 91 (275)
T cd06317 55 QKVDGIILWPTDGQAYIPGLRKAKQAGIPVVIT-NSNI 91 (275)
T ss_pred cCCCEEEEecCCccccHHHHHHHHHCCCcEEEe-CCCC
Confidence 57999988765443 36779999999999954 5544
No 96
>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=56.78 E-value=47 Score=28.44 Aligned_cols=59 Identities=14% Similarity=0.132 Sum_probs=36.8
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCC-CCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESP-LRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~-~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
+..|.+|+..+..+...+++..+.++|+|.+ |.+.. ...+++... |...+.......|.
T Consensus 55 ~~vdgiIi~~~~~~~~~~~~l~~~~iPvV~i-~~~~~~~~~~~~V~~---d~~~~~~~a~~~L~ 114 (269)
T cd06287 55 LDIDGAILVEPMADDPQVARLRQRGIPVVSI-GRPPGDRTDVPYVDL---QSAATARMLLEHLR 114 (269)
T ss_pred cCcCeEEEecCCCCCHHHHHHHHcCCCEEEe-CCCCCCCCCCCeEee---CcHHHHHHHHHHHH
Confidence 4699999887665556778888889999988 44332 233454442 34445454444443
No 97
>PTZ00295 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=56.53 E-value=1.5e+02 Score=29.60 Aligned_cols=47 Identities=23% Similarity=0.290 Sum_probs=34.6
Q ss_pred CCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCC--CcceEEccCC
Q psy16262 118 EPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPL--RFVDIAIPCN 164 (222)
Q Consensus 118 ~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~--~~IdypIP~N 164 (222)
.-|++|++...-+ ..+++.|+..|+|||+|++...++ +..|+.|+..
T Consensus 369 ~~~lvI~ISqSGeT~d~i~al~~ak~~Ga~~IaITn~~~S~La~~ad~~l~~~ 421 (640)
T PTZ00295 369 EDAGVIFISQSGETLDVVRALNLADELNLPKISVVNTVGSLIARSTDCGVYLN 421 (640)
T ss_pred CCCEEEEEeCCCCcHHHHHHHHHHHHCCCCEEEEECCCCChhHHhcCEEEEeC
Confidence 4578887764433 678899999999999999876555 3567776653
No 98
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=56.43 E-value=45 Score=29.29 Aligned_cols=59 Identities=20% Similarity=0.103 Sum_probs=37.5
Q ss_pred ccCCcEEEEeCCCC-CchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHH
Q psy16262 116 FREPRLLVVTDPHT-DHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLL 178 (222)
Q Consensus 116 ~~~P~lvii~dp~~-d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL 178 (222)
.+.+|.+|+..... ....++++...++|+|.+ |...+...+++.-+ |...+.+.....|
T Consensus 118 ~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~~-~~~~~~~~~~~V~~---D~~~~~~~a~~~L 177 (342)
T PRK10014 118 NQGVDGVVIAGAAGSSDDLREMAEEKGIPVVFA-SRASYLDDVDTVRP---DNMQAAQLLTEHL 177 (342)
T ss_pred hCCCCEEEEeCCCCCcHHHHHHHhhcCCCEEEE-ecCCCCCCCCEEEe---CCHHHHHHHHHHH
Confidence 35799999986543 356788889999999976 65444444566443 3344444444444
No 99
>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=56.26 E-value=46 Score=27.96 Aligned_cols=59 Identities=15% Similarity=0.126 Sum_probs=34.8
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCC-CCCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTES-PLRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~-~~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
+.+|.|++.....+ ...++++...+||+|.+ |++. +.....+.-. |...+-......|.
T Consensus 55 ~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~~V~~---d~~~~g~~~~~~l~ 116 (270)
T cd06308 55 QGVDLLIISPNEAAPLTPVVEEAYRAGIPVILL-DRKILSDKYTAYIGA---DNYEIGRQAGEYIA 116 (270)
T ss_pred hCCCEEEEecCchhhchHHHHHHHHCCCCEEEe-CCCCCCccceEEeec---CcHHHHHHHHHHHH
Confidence 57999988765444 45688888999999966 4433 2222233332 34444444444444
No 100
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=55.87 E-value=29 Score=30.17 Aligned_cols=63 Identities=14% Similarity=0.089 Sum_probs=37.5
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLARE 181 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~a 181 (222)
+.+|.||+.....+ ..+++++...+||+|.+ |+..+.....+..-+ .|...+-++....|.+.
T Consensus 55 ~~~DgiIi~~~~~~~~~~~~~~~~~~~iPvV~v-~~~~~~~~~~~~~v~-~D~~~~g~~a~~~l~~~ 119 (298)
T cd06302 55 QGVDAIAVVPNDPDALEPVLKKAREAGIKVVTH-DSDVQPDNRDYDIEQ-ADNKAIGETLMDSLAEQ 119 (298)
T ss_pred cCCCEEEEecCCHHHHHHHHHHHHHCCCeEEEE-cCCCCCCcceeEEec-cCHHHHHHHHHHHHHHH
Confidence 57999999865544 56789999999998876 544322112222222 23445555555555443
No 101
>PRK07649 para-aminobenzoate/anthranilate synthase glutamine amidotransferase component II; Validated
Probab=55.58 E-value=66 Score=26.98 Aligned_cols=71 Identities=17% Similarity=0.310 Sum_probs=41.1
Q ss_pred EEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC-CCC------CchhhhHhhhcCCCEEE
Q psy16262 74 VFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD-PHT------DHQPITEAAYVNIPVIA 146 (222)
Q Consensus 74 ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d-p~~------d~~aI~Ea~~l~IP~Ia 146 (222)
||+|.+......-+....++.|.....-++-...+-. +. ...||.||+.. |.. ....++ ....++|+.|
T Consensus 2 il~idn~dsft~nl~~~l~~~g~~v~v~~~~~~~~~~-~~--~~~~d~iIlsgGP~~p~~~~~~~~~i~-~~~~~~PvLG 77 (195)
T PRK07649 2 ILMIDNYDSFTFNLVQFLGELGQELVVKRNDEVTISD-IE--NMKPDFLMISPGPCSPNEAGISMEVIR-YFAGKIPIFG 77 (195)
T ss_pred EEEEeCCCccHHHHHHHHHHCCCcEEEEeCCCCCHHH-Hh--hCCCCEEEECCCCCChHhCCCchHHHH-HhcCCCCEEE
Confidence 7888888766555555556667655444443232211 11 23699999986 321 123333 2345899999
Q ss_pred Ee
Q psy16262 147 FC 148 (222)
Q Consensus 147 lv 148 (222)
+|
T Consensus 78 IC 79 (195)
T PRK07649 78 VC 79 (195)
T ss_pred Ec
Confidence 98
No 102
>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=55.14 E-value=46 Score=29.05 Aligned_cols=46 Identities=15% Similarity=0.127 Sum_probs=31.2
Q ss_pred ccCCcEEEEeCCCC-CchhhhHhhhcCCCEEEEecCCCCCCcceEEcc
Q psy16262 116 FREPRLLVVTDPHT-DHQPITEAAYVNIPVIAFCNTESPLRFVDIAIP 162 (222)
Q Consensus 116 ~~~P~lvii~dp~~-d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP 162 (222)
.+..|.+|+..... +...++++...++|+|. +|.+.+...+++..+
T Consensus 114 ~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~-~~~~~~~~~~~~V~~ 160 (327)
T TIGR02417 114 ARQVDALIVASCMPPEDAYYQKLQNEGLPVVA-LDRSLDDEHFCSVIS 160 (327)
T ss_pred HcCCCEEEEeCCCCCChHHHHHHHhcCCCEEE-EccccCCCCCCEEEe
Confidence 35799988876443 45667888888999995 566543334566554
No 103
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=55.03 E-value=1.1e+02 Score=30.29 Aligned_cols=95 Identities=18% Similarity=0.273 Sum_probs=61.2
Q ss_pred HHHHHHHHHHH-HhhCCCcEEEEecCh----hhHHHHHHHHHHcCC----ccccccccCC--ccchHHHhhc-cCCcEEE
Q psy16262 56 EKLLLAARAIV-AIEHPADVFVISSRP----IGQRAVLKFASYTGA----TPIAGRFTPG--AFTNQIQAAF-REPRLLV 123 (222)
Q Consensus 56 ~~L~~a~~~i~-~i~~~~~ILfv~t~~----~~~~~v~~~a~~~g~----~yv~~rW~gG--~LTN~i~~~~-~~P~lvi 123 (222)
.-+.+|+..+. ++.++.+|++.+--. .+..++.++.++.|. +|+-.|...| .=...+.... ..+++||
T Consensus 53 ~~m~~a~~ri~~ai~~~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~IP~R~~eGYGl~~~~i~~~~~~~~~LiI 132 (575)
T PRK11070 53 SGIEKAVELLYNALREGTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYLVPNRFEDGYGLSPEVVDQAHARGAQLIV 132 (575)
T ss_pred hCHHHHHHHHHHHHHCCCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEEeCCCCcCCCCCCHHHHHHHHhcCCCEEE
Confidence 44555666565 477888888776543 233455567777776 3566665553 3333344433 4579999
Q ss_pred EeCC-CCCchhhhHhhhcCCCEEEEecCC
Q psy16262 124 VTDP-HTDHQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 124 i~dp-~~d~~aI~Ea~~l~IP~IalvDTd 151 (222)
.+|. ..+..+++.|+.+|+.+| +.|=.
T Consensus 133 tvD~Gi~~~e~i~~a~~~gidvI-VtDHH 160 (575)
T PRK11070 133 TVDNGISSHAGVAHAHALGIPVL-VTDHH 160 (575)
T ss_pred EEcCCcCCHHHHHHHHHCCCCEE-EECCC
Confidence 9985 556789999999999887 44543
No 104
>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=54.81 E-value=44 Score=28.73 Aligned_cols=62 Identities=21% Similarity=0.178 Sum_probs=36.8
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLARE 181 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~a 181 (222)
..+|.+++.....+ ...++|+...|||+|.+ |.+.+....++.+. .|...+-+.....|.+.
T Consensus 54 ~~vdgiii~~~~~~~~~~~l~~l~~~~ipvV~~-~~~~~~~~~~~~v~--~d~~~~g~~~~~~l~~~ 117 (288)
T cd01538 54 KGVDVLVIAPVDGEALASAVEKAADAGIPVIAY-DRLILNSNVDYYVS--FDNEKVGELQGQALVDG 117 (288)
T ss_pred cCCCEEEEecCChhhHHHHHHHHHHCCCCEEEE-CCCCCCCCcceEEE--eChHHHHHHHHHHHHHH
Confidence 57999998754333 46788999999999987 44432222232232 34445545455555444
No 105
>cd05844 GT1_like_7 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homology. The large cleft that separates the two domains includes the catalytic center
Probab=54.52 E-value=1.3e+02 Score=26.09 Aligned_cols=94 Identities=18% Similarity=0.199 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccch-HHHhhccCCcEEEEeCCC-----CC
Q psy16262 57 KLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTN-QIQAAFREPRLLVVTDPH-----TD 130 (222)
Q Consensus 57 ~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN-~i~~~~~~P~lvii~dp~-----~d 130 (222)
.+.+|+..+..-...-+++++|..+.. +.+++.++..|..--. +|.| ...+ .+......-|++++.... .+
T Consensus 205 ~li~a~~~l~~~~~~~~l~ivG~g~~~-~~~~~~~~~~~~~~~v-~~~g-~~~~~~l~~~~~~ad~~v~ps~~~~~~~~E 281 (367)
T cd05844 205 LLLEAFARLARRVPEVRLVIIGDGPLL-AALEALARALGLGGRV-TFLG-AQPHAEVRELMRRARIFLQPSVTAPSGDAE 281 (367)
T ss_pred HHHHHHHHHHHhCCCeEEEEEeCchHH-HHHHHHHHHcCCCCeE-EECC-CCCHHHHHHHHHhCCEEEECcccCCCCCcc
Confidence 344554444322223467788876544 3466666665532111 3443 3333 344556677877664321 11
Q ss_pred --chhhhHhhhcCCCEEEEecCCCCC
Q psy16262 131 --HQPITEAAYVNIPVIAFCNTESPL 154 (222)
Q Consensus 131 --~~aI~Ea~~l~IP~IalvDTd~~~ 154 (222)
...+-||...|+|+|+- |.....
T Consensus 282 ~~~~~~~EA~a~G~PvI~s-~~~~~~ 306 (367)
T cd05844 282 GLPVVLLEAQASGVPVVAT-RHGGIP 306 (367)
T ss_pred CCchHHHHHHHcCCCEEEe-CCCCch
Confidence 46899999999999973 443333
No 106
>TIGR01815 TrpE-clade3 anthranilate synthase, alpha proteobacterial clade. This model represents a small clade of anthranilate synthases from alpha proteobacteria and Nostoc (a cyanobacterium). This enzyme is the first step in the pathway for the biosynthesis of tryprophan from chorismate.
Probab=54.13 E-value=1.2e+02 Score=30.93 Aligned_cols=74 Identities=19% Similarity=0.302 Sum_probs=48.8
Q ss_pred CCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC-C---C--CCchhhhHhhhcCCCE
Q psy16262 71 PADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD-P---H--TDHQPITEAAYVNIPV 144 (222)
Q Consensus 71 ~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d-p---~--~d~~aI~Ea~~l~IP~ 144 (222)
+.+|++|.........+.++.+..|.....-++-.+ -... ....||.||++. | . .....++++...++|+
T Consensus 516 ~~~IlVID~gds~~~~l~~~L~~~G~~v~vv~~~~~--~~~~--~~~~~DgLILsgGPGsp~d~~~~~~I~~~~~~~iPv 591 (717)
T TIGR01815 516 GRRILLVDHEDSFVHTLANYLRQTGASVTTLRHSHA--EAAF--DERRPDLVVLSPGPGRPADFDVAGTIDAALARGLPV 591 (717)
T ss_pred CCEEEEEECCChhHHHHHHHHHHCCCeEEEEECCCC--hhhh--hhcCCCEEEEcCCCCCchhcccHHHHHHHHHCCCCE
Confidence 457999998876666677777778876533333211 0011 124699999963 2 1 2366888888899999
Q ss_pred EEEe
Q psy16262 145 IAFC 148 (222)
Q Consensus 145 Ialv 148 (222)
.|||
T Consensus 592 LGIC 595 (717)
T TIGR01815 592 FGVC 595 (717)
T ss_pred EEEC
Confidence 9998
No 107
>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=54.12 E-value=52 Score=27.83 Aligned_cols=59 Identities=14% Similarity=-0.038 Sum_probs=39.6
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLARE 181 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~a 181 (222)
+.+|.|++.....+...++++...|+|+|.+ |+.. ..+++.- .|...+-......|.+.
T Consensus 54 ~~vdgvi~~~~~~~~~~~~~l~~~~iPvv~~-~~~~--~~~~~v~---~d~~~~g~~a~~~L~~~ 112 (269)
T cd06297 54 YLTDGLLLASYDLTERLAERRLPTERPVVLV-DAEN--PRFDSFY---LDNRLGGRLAGAYLADF 112 (269)
T ss_pred cCCCEEEEecCccChHHHHHHhhcCCCEEEE-ccCC--CCCCEEE---ECcHHHHHHHHHHHHHh
Confidence 4699999987666677888889999999988 5532 2234333 24555556555666555
No 108
>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=54.12 E-value=28 Score=29.05 Aligned_cols=60 Identities=8% Similarity=-0.092 Sum_probs=36.8
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
..+|.+|+.....+...++++...+||+|.+ |.......+.+.-+- ...+.......|.+
T Consensus 54 ~~vdgiii~~~~~~~~~~~~l~~~~ipvV~~-~~~~~~~~~~~v~~d---~~~~~~~~~~~l~~ 113 (268)
T cd06298 54 KQVDGIIFMGGKISEEHREEFKRSPTPVVLA-GSVDEDNELPSVNID---YKKAAFEATELLIK 113 (268)
T ss_pred hcCCEEEEeCCCCcHHHHHHHhcCCCCEEEE-ccccCCCCCCEEEEC---cHHHHHHHHHHHHH
Confidence 4689999886554556788888889999888 333222235555433 33444444454443
No 109
>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=53.59 E-value=53 Score=26.84 Aligned_cols=73 Identities=15% Similarity=0.234 Sum_probs=43.9
Q ss_pred EEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC----CCCC--chhhhHhhhcCCCEEEE
Q psy16262 74 VFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD----PHTD--HQPITEAAYVNIPVIAF 147 (222)
Q Consensus 74 ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d----p~~d--~~aI~Ea~~l~IP~Ial 147 (222)
||+++...+....+.++.++.|.....-+|-.+ ..- . .....+|.||++. +..+ ...+.++...++|+.|+
T Consensus 1 il~~~~~~~~~~~~~~~l~~~G~~~~~~~~~~~-~~~-~-~~~~~~dgvil~gG~~~~~~~~~~~~i~~~~~~~~PvlGI 77 (184)
T cd01743 1 ILLIDNYDSFTYNLVQYLRELGAEVVVVRNDEI-TLE-E-LELLNPDAIVISPGPGHPEDAGISLEIIRALAGKVPILGV 77 (184)
T ss_pred CEEEeCCCccHHHHHHHHHHcCCceEEEeCCCC-CHH-H-HhhcCCCEEEECCCCCCcccchhHHHHHHHHhcCCCEEEE
Confidence 467776666666677777777776554455222 111 1 1125799988872 2222 34566666668999999
Q ss_pred ec
Q psy16262 148 CN 149 (222)
Q Consensus 148 vD 149 (222)
|=
T Consensus 78 C~ 79 (184)
T cd01743 78 CL 79 (184)
T ss_pred CH
Confidence 83
No 110
>PRK05749 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed
Probab=53.59 E-value=1.1e+02 Score=27.97 Aligned_cols=89 Identities=17% Similarity=0.148 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccc------------hHHHhhccCCcEEEE
Q psy16262 57 KLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFT------------NQIQAAFREPRLLVV 124 (222)
Q Consensus 57 ~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LT------------N~i~~~~~~P~lvii 124 (222)
.|..|+..+..-..+-++++++..+...+.+++.++..|..+ ..|.+|... ..+...+..-|++++
T Consensus 248 ~ll~A~~~l~~~~~~~~liivG~g~~r~~~l~~~~~~~gl~~--~~~~~~~~~~~~~~v~l~~~~~el~~~y~~aDi~~v 325 (425)
T PRK05749 248 LVLDAHRALLKQFPNLLLILVPRHPERFKEVEELLKKAGLSY--VRRSQGEPPSADTDVLLGDTMGELGLLYAIADIAFV 325 (425)
T ss_pred HHHHHHHHHHHhCCCcEEEEcCCChhhHHHHHHHHHhCCCcE--EEccCCCCCCCCCcEEEEecHHHHHHHHHhCCEEEE
Confidence 344554443322123456677776654345777777777653 234443322 234455667788777
Q ss_pred eCCC--CCchhhhHhhhcCCCEEEE
Q psy16262 125 TDPH--TDHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 125 ~dp~--~d~~aI~Ea~~l~IP~Ial 147 (222)
.... .--+.+-||...|.|+|+-
T Consensus 326 ~~S~~e~~g~~~lEAma~G~PVI~g 350 (425)
T PRK05749 326 GGSLVKRGGHNPLEPAAFGVPVISG 350 (425)
T ss_pred CCCcCCCCCCCHHHHHHhCCCEEEC
Confidence 5332 2345689999999999984
No 111
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=53.43 E-value=53 Score=28.78 Aligned_cols=36 Identities=14% Similarity=0.246 Sum_probs=28.4
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCC
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd 151 (222)
.+..|.+|+.....+...++++...+||+|.+.|..
T Consensus 117 ~~~vdgiI~~~~~~~~~~~~~l~~~~iPvV~~~~~~ 152 (331)
T PRK14987 117 SWNIDGLILTERTHTPRTLKMIEVAGIPVVELMDSQ 152 (331)
T ss_pred hcCCCEEEEcCCCCCHHHHHHHHhCCCCEEEEecCC
Confidence 357999999865555667888889999999987754
No 112
>PRK08007 para-aminobenzoate synthase component II; Provisional
Probab=53.15 E-value=50 Score=27.40 Aligned_cols=71 Identities=15% Similarity=0.301 Sum_probs=39.2
Q ss_pred EEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC-C---CCC---chhhhHhhhcCCCEEE
Q psy16262 74 VFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD-P---HTD---HQPITEAAYVNIPVIA 146 (222)
Q Consensus 74 ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d-p---~~d---~~aI~Ea~~l~IP~Ia 146 (222)
||+|.+......-+....++.|.....-+|-...+.. +. ...||.||+.. | ..+ ...++. ...++|+.|
T Consensus 2 il~idn~Dsft~nl~~~l~~~g~~v~v~~~~~~~~~~-~~--~~~~d~iils~GPg~p~~~~~~~~~~~~-~~~~~PiLG 77 (187)
T PRK08007 2 ILLIDNYDSFTWNLYQYFCELGADVLVKRNDALTLAD-ID--ALKPQKIVISPGPCTPDEAGISLDVIRH-YAGRLPILG 77 (187)
T ss_pred EEEEECCCccHHHHHHHHHHCCCcEEEEeCCCCCHHH-HH--hcCCCEEEEcCCCCChHHCCccHHHHHH-hcCCCCEEE
Confidence 6788877655444444444456654443443222211 11 13699999885 2 222 233433 456899999
Q ss_pred Ee
Q psy16262 147 FC 148 (222)
Q Consensus 147 lv 148 (222)
+|
T Consensus 78 IC 79 (187)
T PRK08007 78 VC 79 (187)
T ss_pred EC
Confidence 98
No 113
>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=52.47 E-value=61 Score=27.13 Aligned_cols=61 Identities=13% Similarity=0.046 Sum_probs=36.5
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
.+.+|.+|+.....+...++|..+.++|+|.+ |...+-..+.+.-+ |...+.......|.+
T Consensus 53 ~~~~dgiii~~~~~~~~~~~~~~~~~~pvV~i-~~~~~~~~~~~V~~---d~~~~~~~~~~~L~~ 113 (269)
T cd06293 53 TNHVDGLIFVTNRPDDGALAKLINSYGNIVLV-DEDVPGAKVPKVFC---DNEQGGRLATRHLAR 113 (269)
T ss_pred HCCCCEEEEeCCCCCHHHHHHHHhcCCCEEEE-CCCCCCCCCCEEEE---CCHHHHHHHHHHHHH
Confidence 35799999986444445578878889999987 44322112444443 444555555555544
No 114
>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=52.21 E-value=51 Score=27.78 Aligned_cols=60 Identities=8% Similarity=0.010 Sum_probs=37.3
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCC-CCcceEEccCCCCCchhHHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESP-LRFVDIAIPCNNKSPHSIGLMWWLLARE 181 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~-~~~IdypIP~Ndds~~si~li~~lL~~a 181 (222)
+.+|.+|+.....+ ...++++.. +||+|.+ |.+.+ ...+.|.- .|...+-......|.+.
T Consensus 54 ~~vDgiIi~~~~~~~~~~~l~~~~~-~ipvV~~-~~~~~~~~~~~~V~---~D~~~~g~~a~~~l~~~ 116 (271)
T cd06314 54 EGVDGIAISPIDPKAVIPALNKAAA-GIKLITT-DSDAPDSGRYVYIG---TDNYAAGRTAGEIMKKA 116 (271)
T ss_pred cCCCEEEEecCChhHhHHHHHHHhc-CCCEEEe-cCCCCccceeEEEc---cChHHHHHHHHHHHHHH
Confidence 57999998754333 467888888 9999987 44432 22345543 34455656555555444
No 115
>cd04949 GT1_gtfA_like This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In general glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltra
Probab=52.09 E-value=1.1e+02 Score=27.11 Aligned_cols=86 Identities=16% Similarity=0.251 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCc-cccccccCCccchHHHhhccCCcEEEEeCCC-CCchhh
Q psy16262 57 KLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGAT-PIAGRFTPGAFTNQIQAAFREPRLLVVTDPH-TDHQPI 134 (222)
Q Consensus 57 ~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~-yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~-~d~~aI 134 (222)
.+..|+..+..-...-++.+++....... +.+..+..+.. .| .+. | ....+...+..-|+++..... .-..++
T Consensus 221 ~li~a~~~l~~~~~~~~l~i~G~g~~~~~-~~~~~~~~~~~~~v--~~~-g-~~~~~~~~~~~ad~~v~~S~~Eg~~~~~ 295 (372)
T cd04949 221 QLIKAFAKVVKQVPDATLDIYGYGDEEEK-LKELIEELGLEDYV--FLK-G-YTRDLDEVYQKAQLSLLTSQSEGFGLSL 295 (372)
T ss_pred HHHHHHHHHHHhCCCcEEEEEEeCchHHH-HHHHHHHcCCcceE--EEc-C-CCCCHHHHHhhhhEEEecccccccChHH
Confidence 34444443332222345667776655433 34444444432 12 133 3 344455666777887777642 236789
Q ss_pred hHhhhcCCCEEEE
Q psy16262 135 TEAAYVNIPVIAF 147 (222)
Q Consensus 135 ~Ea~~l~IP~Ial 147 (222)
-||...|+|+|+.
T Consensus 296 lEAma~G~PvI~~ 308 (372)
T cd04949 296 MEALSHGLPVISY 308 (372)
T ss_pred HHHHhCCCCEEEe
Confidence 9999999999983
No 116
>PF01973 MAF_flag10: Protein of unknown function DUF115; InterPro: IPR002826 The prokaryotic proteins in this family have no known function.
Probab=51.04 E-value=66 Score=25.93 Aligned_cols=73 Identities=12% Similarity=0.172 Sum_probs=46.8
Q ss_pred CCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCCCc-hhhhHhhhc-CCCEEE
Q psy16262 71 PADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTDH-QPITEAAYV-NIPVIA 146 (222)
Q Consensus 71 ~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d~-~aI~Ea~~l-~IP~Ia 146 (222)
+..++++++.|...+.+....+.-+..++ ..-|+......+.-..||+++.+|+.... ...+|.... .+|.+.
T Consensus 24 ~~~~~IvgaGPSL~~~i~~lk~~~~~~~i---ia~~sa~~~L~~~gI~Pd~~v~~D~~~~~~~~~~~~~~~~~i~l~~ 98 (170)
T PF01973_consen 24 GKPAIIVGAGPSLDKNIELLKENRNKAII---IAVNSALKALLKNGIKPDFVVSIDPQFWNYEHFKEINKEFDIPLFF 98 (170)
T ss_pred CCeEEEEecCCCHHHHHHHHHhcccCcEE---EEecHHHHHHHHcCceEEEEEEcCCCcchHHHHhhcccccceEEEE
Confidence 37889999999887776655444333322 22355555555666799999999984443 336666665 565554
No 117
>PF00117 GATase: Glutamine amidotransferase class-I; InterPro: IPR017926 Glutamine amidotransferase (GATase) enzymes catalyse the removal of the ammonia group from glutamine and then transfer this group to a substrate to form a new carbon-nitrogen group []. The GATase domain exists either as a separate polypeptidic subunit or as part of a larger polypeptide fused in different ways to a synthase domain. Two classes of GATase domains have been identified [, ]: class-I (also known as trpG-type or triad) and class-II (also known as purF-type or Ntn). Class-I (or type 1) GATase domains have been found in the following enzymes: The second component of anthranilate synthase (AS) []. AS catalyzes the biosynthesis of anthranilate from chorismate and glutamine. AS is generally a dimeric enzyme: the first component can synthesize anthranilate using ammonia rather than glutamine, whereas component II provides the GATase activity []. In some bacteria and in fungi the GATase component of AS is part of a multifunctional protein that also catalyzes other steps of the biosynthesis of tryptophan. The second component of 4-amino-4-deoxychorismate (ADC) synthase, a dimeric prokaryotic enzyme that functions in the pathway that catalyzes the biosynthesis of para-aminobenzoate (PABA) from chorismate and glutamine. The second component (gene pabA) provides the GATase activity []. CTP synthase. CTP synthase catalyzes the final reaction in the biosynthesis of pyrimidine, the ATP-dependent formation of CTP from UTP and glutamine. CTP synthase is a single chain enzyme that contains two distinct domains; the GATase domain is in the C-terminal section []. GMP synthase (glutamine-hydrolyzing). GMP synthase catalyzes the ATP-dependent formation of GMP from xanthosine 5'-phosphate and glutamine. GMP synthase is a single chain enzyme that contains two distinct domains; the GATase domain is in the N-terminal section [, ]. Glutamine-dependent carbamoyl-phosphate synthase (GD-CPSase); an enzyme involved in both arginine and pyrimidine biosynthesis and which catalyzes the ATP-dependent formation of carbamoyl phosphate from glutamine and carbon dioxide. In bacteria GD-CPSase is composed of two subunits: the large chain (gene carB) provides the CPSase activity, while the small chain (gene carA) provides the GATase activity. In yeast the enzyme involved in arginine biosynthesis is also composed of two subunits: CPA1 (GATase), and CPA2 (CPSase). In most eukaryotes, the first three steps of pyrimidine biosynthesis are catalyzed by a large multifunctional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals). The GATase domain is located at the N-terminal extremity of this polyprotein []. Phosphoribosylformylglycinamidine synthase, an enzyme that catalyzes the fourth step in the de novo biosynthesis of purines. In some species of bacteria and rchaea, FGAM synthase II is composed of two subunits: a small chain (gene purQ) which provides the GATase activity and a large chain (gene purL) which provides the aminator activity. In eukaryotes and Gram-negative bacteria a single polypeptide (large type of purL) contains a FGAM synthethase domain and the GATase as the C-terminal domain []. Imidazole glycerol phosphate synthase subunit hisH, an enzyme that catalyzes the fifth step in the biosynthesis of histidine. A triad of conserved Cys-His-Glu forms the active site, wherein the catalytic cysteine is essential for the amidotransferase activity [, ]. Different structures show that the active site Cys of type 1 GATase is located at the tip of a nucleophile elbow.; PDB: 1I7S_D 1I7Q_D 3UOW_B 1GPM_C 1O1Y_A 2VXO_A 2VPI_B 1OX5_B 1OX6_B 1OX4_B ....
Probab=50.95 E-value=47 Score=27.01 Aligned_cols=72 Identities=15% Similarity=0.252 Sum_probs=43.2
Q ss_pred EEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCCC-------chhhhHhhhcCCCEEEE
Q psy16262 75 FVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD-------HQPITEAAYVNIPVIAF 147 (222)
Q Consensus 75 Lfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d-------~~aI~Ea~~l~IP~Ial 147 (222)
|++..-......+.+..++.|..+-.-++-. ..-.... ....+|.+||..-..+ ..+++++...++|++|+
T Consensus 1 lviD~~~~~~~~l~~~l~~~~~~~~v~~~~~-~~~~~~~-~~~~~d~iii~Gg~~~~~d~~~~~~~i~~~~~~~~PilGI 78 (192)
T PF00117_consen 1 LVIDNGDSFTHSLVRALRELGIDVEVVRVDS-DFEEPLE-DLDDYDGIIISGGPGSPYDIEGLIELIREARERKIPILGI 78 (192)
T ss_dssp EEEESSHTTHHHHHHHHHHTTEEEEEEETTG-GHHHHHH-HTTTSSEEEEECESSSTTSHHHHHHHHHHHHHTTSEEEEE
T ss_pred CEEeCCHHHHHHHHHHHHHCCCeEEEEECCC-chhhhhh-hhcCCCEEEECCcCCccccccccccccccccccceEEEEE
Confidence 3555565566667777777775432222211 1001011 2467899999863222 45678888899999999
Q ss_pred e
Q psy16262 148 C 148 (222)
Q Consensus 148 v 148 (222)
|
T Consensus 79 C 79 (192)
T PF00117_consen 79 C 79 (192)
T ss_dssp T
T ss_pred e
Confidence 8
No 118
>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=50.79 E-value=55 Score=27.49 Aligned_cols=61 Identities=10% Similarity=-0.049 Sum_probs=35.4
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLARE 181 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~a 181 (222)
+.+|.+|+.....+ ...++++...+||+|.+ |+..+.....|.- .|..++.......|.+.
T Consensus 56 ~~vdgiIi~~~~~~~~~~~~~~~~~~~iPvV~~-~~~~~~~~~~~V~---~d~~~~g~~~~~~l~~~ 118 (275)
T cd06320 56 KGYKGLLFSPISDVNLVPAVERAKKKGIPVVNV-NDKLIPNATAFVG---TDNKANGVRGAEWIIDK 118 (275)
T ss_pred hCCCEEEECCCChHHhHHHHHHHHHCCCeEEEE-CCCCCCccceEEe---cCcHHHHHHHHHHHHHH
Confidence 46898877643222 35688989999999965 6544333344432 24444445555555443
No 119
>TIGR00888 guaA_Nterm GMP synthase (glutamine-hydrolyzing), N-terminal domain or A subunit. separate polypeptide chains in most of the Archaea. This N-terminal region would be the smaller subunit.
Probab=50.66 E-value=72 Score=26.18 Aligned_cols=71 Identities=11% Similarity=0.190 Sum_probs=39.0
Q ss_pred EEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCC------CCchhhhHhhhcCCCEEEEe
Q psy16262 75 FVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPH------TDHQPITEAAYVNIPVIAFC 148 (222)
Q Consensus 75 Lfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~------~d~~aI~Ea~~l~IP~Ialv 148 (222)
++|.........+....++.|..+..-+|--. . ..+.+ ..||.||+.... .....++++...++|+.|+|
T Consensus 2 ~iiD~g~~~~~~l~~~l~~~g~~~~~~~~~~~-~-~~~~~--~~~~glii~Gg~~~~~~~~~~~~i~~~~~~~~PilGIC 77 (188)
T TIGR00888 2 LVLDFGSQYTQLIARRLRELGVYSELVPNTTP-L-EEIRE--KNPKGIILSGGPSSVYAENAPRADEKIFELGVPVLGIC 77 (188)
T ss_pred EEEECCchHHHHHHHHHHHcCCEEEEEeCCCC-H-HHHhh--cCCCEEEECCCCCCcCcCCchHHHHHHHhCCCCEEEEC
Confidence 44555555555555555666655433333210 0 00111 235677776521 23567888888899999997
Q ss_pred c
Q psy16262 149 N 149 (222)
Q Consensus 149 D 149 (222)
=
T Consensus 78 ~ 78 (188)
T TIGR00888 78 Y 78 (188)
T ss_pred H
Confidence 4
No 120
>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=50.40 E-value=67 Score=26.70 Aligned_cols=60 Identities=10% Similarity=0.028 Sum_probs=36.1
Q ss_pred cCCcEEEEeCCC-CCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPH-TDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~-~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
...|.+|+.... .+..+++++...+||+|.+ |++.+.....+.- .|..++.......|.+
T Consensus 55 ~~vdgiii~~~~~~~~~~~~~~~~~~ipvv~i-~~~~~~~~~~~V~---~d~~~~g~~a~~~l~~ 115 (270)
T cd01545 55 SRVDGVILTPPLSDNPELLDLLDEAGVPYVRI-APGTPDPDSPCVR---IDDRAAAREMTRHLID 115 (270)
T ss_pred CCCCEEEEeCCCCCccHHHHHHHhcCCCEEEE-ecCCCCCCCCeEE---eccHHHHHHHHHHHHH
Confidence 568999887554 2456688888899999988 4443222233332 2444555555554443
No 121
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=50.17 E-value=75 Score=28.90 Aligned_cols=140 Identities=16% Similarity=0.163 Sum_probs=92.8
Q ss_pred HHHHHHHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchH------------------
Q psy16262 51 LRRTWEKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQ------------------ 111 (222)
Q Consensus 51 L~~T~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~------------------ 111 (222)
.++.+..+-.|...+.. ++++|++++++-...++--|...++...-|-+...-+=|.+---
T Consensus 39 V~~alp~Ia~Av~~~~~~l~~GGRLiY~GAGTSGRLGvlDAsEcPPTfgv~~e~ViglIAGG~~A~~~avEGaED~~~~g 118 (298)
T COG2103 39 VEAALPQIAAAVDIIAAALKQGGRLIYIGAGTSGRLGVLDASECPPTFGVPPELVIGLIAGGEEAILKAVEGAEDDEELG 118 (298)
T ss_pred HHHHhHHHHHHHHHHHHHHHcCCeEEEEcCCcccchhccchhhCCCCcCCChhHeeeeecCCHHHHHHhhcCccccHHHH
Confidence 45666677777777764 78899999999998888777777777765544433333333321
Q ss_pred ---HHh-hccCCcEEEEeC----CCCCchhhhHhhhcCCCEEEEe-cCCCCCC-cceEEccC-----------CCCCchh
Q psy16262 112 ---IQA-AFREPRLLVVTD----PHTDHQPITEAAYVNIPVIAFC-NTESPLR-FVDIAIPC-----------NNKSPHS 170 (222)
Q Consensus 112 ---i~~-~~~~P~lvii~d----p~~d~~aI~Ea~~l~IP~Ialv-DTd~~~~-~IdypIP~-----------Ndds~~s 170 (222)
+++ ....=|+||=+- +..=.-++++|++.|..||+|. +-++... ..|++|-- =-++..+
T Consensus 119 ~~dl~~~~lt~~DvvvgIaASGrTPYvigal~yAr~~Ga~Ti~iacNp~s~i~~~Ad~~I~~~vGPEvltGSTRlKaGTA 198 (298)
T COG2103 119 EADLKNIGLTAKDVVVGIAASGRTPYVIGALEYARQRGATTIGIACNPGSAISRIADIAIEPVVGPEVLTGSTRLKAGTA 198 (298)
T ss_pred HHHHHHcCCCcCCEEEEEecCCCCchhhHHHHHHHhcCCeEEEeecCCCchhhhhcCcceeeccCccccccccccccchH
Confidence 111 134566666554 2334678999999999999995 4555444 36666631 1246677
Q ss_pred HHHHHHHHHHHHHhhhCCCC
Q psy16262 171 IGLMWWLLAREVLRFRGVIG 190 (222)
Q Consensus 171 i~li~~lL~~ai~~~~g~~~ 190 (222)
-.+.+++|+..+.-.-|.+=
T Consensus 199 QKlvLNMlST~~Mi~lGKvy 218 (298)
T COG2103 199 QKLVLNMLSTGVMIKLGKVY 218 (298)
T ss_pred HHHHHHHHHHHHHHHhcccc
Confidence 88999999988876666553
No 122
>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=50.07 E-value=52 Score=27.74 Aligned_cols=60 Identities=28% Similarity=0.263 Sum_probs=36.1
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCCC----CcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESPL----RFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~~----~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+..|.+|+.....+ ...++++...|||+|.+ |.+.+. ..+.+.-. |...+-+.....|.+
T Consensus 56 ~~vdgiii~~~~~~~~~~~l~~~~~~~ipvV~~-~~~~~~~~~~~~~~~V~~---d~~~~g~~~~~~l~~ 121 (271)
T cd06312 56 AKPDGIVVTIPDPDALDPAIKRAVAAGIPVISF-NAGDPKYKELGALAYVGQ---DEYAAGEAAGERLAE 121 (271)
T ss_pred hCCCEEEEeCCChHHhHHHHHHHHHCCCeEEEe-CCCCCccccccceEEecc---ChHHHHHHHHHHHHH
Confidence 57899988765443 35689999999999987 443321 33444332 333444444454444
No 123
>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=50.06 E-value=59 Score=26.93 Aligned_cols=58 Identities=10% Similarity=0.082 Sum_probs=36.1
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.+|+.....+...++++...+||+|.+ |.+.+ .+.+..+ |...........|.+
T Consensus 54 ~~~dgii~~~~~~~~~~~~~~~~~~ipvv~~-~~~~~--~~~~v~~---d~~~~~~~~~~~l~~ 111 (259)
T cd01542 54 QKVDGIILLATTITDEHREAIKKLNVPVVVV-GQDYP--GISSVVY---DDYGAGYELGEYLAQ 111 (259)
T ss_pred cCCCEEEEeCCCCCHHHHHHHhcCCCCEEEE-eccCC--CCCEEEE---CcHHHHHHHHHHHHH
Confidence 5799999987655556677878889999998 43322 3455443 333444444444443
No 124
>cd01141 TroA_d Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=49.57 E-value=24 Score=28.54 Aligned_cols=32 Identities=16% Similarity=0.298 Sum_probs=23.4
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEE
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~Ial 147 (222)
.-.||+||......+...+..-.+.|||++.+
T Consensus 67 ~l~PDlii~~~~~~~~~~~~~l~~~gIpvv~i 98 (186)
T cd01141 67 ALKPDLVILYGGFQAQTILDKLEQLGIPVLYV 98 (186)
T ss_pred ccCCCEEEEecCCCchhHHHHHHHcCCCEEEe
Confidence 45899998865333323667778999999987
No 125
>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=49.38 E-value=58 Score=27.28 Aligned_cols=60 Identities=20% Similarity=0.211 Sum_probs=35.7
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCC-CCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESP-LRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~-~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.+|+.....+ ..+++++...++|+|.+ |++.+ ...+.+.. . |.....+.....|.+
T Consensus 56 ~~vdgvii~~~~~~~~~~~l~~~~~~~ipvV~~-~~~~~~~~~~~~v~-~--d~~~~~~~~~~~l~~ 118 (273)
T cd06310 56 RGPDAILLAPTDAKALVPPLKEAKDAGIPVVLI-DSGLNSDIAVSFVA-T--DNVAAGKLAAEALAE 118 (273)
T ss_pred hCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEe-cCCCCCCcceEEEe-e--ChHHHHHHHHHHHHH
Confidence 47899998765443 35778888999999998 44322 22344433 2 333344444444443
No 126
>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=49.02 E-value=34 Score=28.55 Aligned_cols=77 Identities=14% Similarity=0.013 Sum_probs=43.6
Q ss_pred HHHHHHHHHcCCccccccccCCccchHH----HhhccCCcEEEEeCCCC--CchhhhHhhhcCCCEEEEecCC--CCCCc
Q psy16262 85 RAVLKFASYTGATPIAGRFTPGAFTNQI----QAAFREPRLLVVTDPHT--DHQPITEAAYVNIPVIAFCNTE--SPLRF 156 (222)
Q Consensus 85 ~~v~~~a~~~g~~yv~~rW~gG~LTN~i----~~~~~~P~lvii~dp~~--d~~aI~Ea~~l~IP~IalvDTd--~~~~~ 156 (222)
+-+++.|+..|..+..----.+.-..+. +...+.||.|++.-... -...+++|..-|||+|. +|++ .+...
T Consensus 18 ~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~~~~~~~~~l~~~~~~gIpvv~-~d~~~~~~~~~ 96 (257)
T PF13407_consen 18 KGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAISQGVDGIIVSPVDPDSLAPFLEKAKAAGIPVVT-VDSDEAPDSPR 96 (257)
T ss_dssp HHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHHTTESEEEEESSSTTTTHHHHHHHHHTTSEEEE-ESSTHHTTSTS
T ss_pred HHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHHhcCCEEEecCCCHHHHHHHHHHHhhcCceEEE-Eeccccccccc
Confidence 3455666666665433101112222221 12346799999875443 46789999999999998 5555 33443
Q ss_pred ceEEcc
Q psy16262 157 VDIAIP 162 (222)
Q Consensus 157 IdypIP 162 (222)
..+.=+
T Consensus 97 ~~~v~~ 102 (257)
T PF13407_consen 97 AAYVGT 102 (257)
T ss_dssp SEEEEE
T ss_pred eeeeec
Confidence 444443
No 127
>PRK08857 para-aminobenzoate synthase component II; Provisional
Probab=48.50 E-value=1.2e+02 Score=25.09 Aligned_cols=71 Identities=17% Similarity=0.210 Sum_probs=44.2
Q ss_pred EEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCC----C---CchhhhHhhhcCCCEEE
Q psy16262 74 VFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPH----T---DHQPITEAAYVNIPVIA 146 (222)
Q Consensus 74 ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~----~---d~~aI~Ea~~l~IP~Ia 146 (222)
||+|........-+.++.+..|.....-++-.+.+-. +. ...||.+++..-. + ....+++ .+.++|+.|
T Consensus 2 il~id~~dsft~~~~~~l~~~g~~~~~~~~~~~~~~~-~~--~~~~~~iilsgGp~~~~~~~~~~~~i~~-~~~~~PiLG 77 (193)
T PRK08857 2 LLMIDNYDSFTYNLYQYFCELGAQVKVVRNDEIDIDG-IE--ALNPTHLVISPGPCTPNEAGISLQAIEH-FAGKLPILG 77 (193)
T ss_pred EEEEECCCCcHHHHHHHHHHCCCcEEEEECCCCCHHH-Hh--hCCCCEEEEeCCCCChHHCcchHHHHHH-hcCCCCEEE
Confidence 7888888877666666777777765444443233211 11 2359999988622 1 2344444 467999999
Q ss_pred Ee
Q psy16262 147 FC 148 (222)
Q Consensus 147 lv 148 (222)
+|
T Consensus 78 IC 79 (193)
T PRK08857 78 VC 79 (193)
T ss_pred Ec
Confidence 98
No 128
>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=47.91 E-value=73 Score=26.71 Aligned_cols=44 Identities=9% Similarity=0.060 Sum_probs=28.9
Q ss_pred cCCcEEEEeCCCC-----CchhhhHhhhcCCCEEEEecCCCCCCcceEEc
Q psy16262 117 REPRLLVVTDPHT-----DHQPITEAAYVNIPVIAFCNTESPLRFVDIAI 161 (222)
Q Consensus 117 ~~P~lvii~dp~~-----d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypI 161 (222)
+.+|.+++..... +...++++...+||+|.+ |++.+....++.-
T Consensus 54 ~~vdgii~~~~~~~~~~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~V~ 102 (273)
T cd01541 54 QGIDGLIIEPTKSALPNPNIDLYLKLEKLGIPYVFI-NASYEELNFPSLV 102 (273)
T ss_pred cCCCEEEEeccccccccccHHHHHHHHHCCCCEEEE-ecCCCCCCCCEEE
Confidence 5789998864322 335678898899999987 5543322345544
No 129
>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=47.86 E-value=69 Score=27.91 Aligned_cols=58 Identities=9% Similarity=-0.063 Sum_probs=34.6
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLL 178 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL 178 (222)
...|.+|+..+..+...+++....++|+|.+ |...+....++.-+ |...+.......|
T Consensus 114 ~~vdGiIi~~~~~~~~~~~~l~~~~iPvV~~-~~~~~~~~~~~V~~---D~~~~~~~a~~~L 171 (329)
T TIGR01481 114 KQVDGIIFMGGTITEKLREEFSRSPVPVVLA-GTVDKENELPSVNI---DYKQATKEAVGEL 171 (329)
T ss_pred CCCCEEEEeCCCCChHHHHHHHhcCCCEEEE-ecCCCCCCCCEEEE---CcHHHHHHHHHHH
Confidence 5799999987655555667777889999966 54333223444443 2334444444433
No 130
>PF04413 Glycos_transf_N: 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); InterPro: IPR007507 This is a domain found in proteins that transfer activated sugars to a variety of substrates, including glycogen, fructose-6-phosphate and lipopolysaccharides. Proteins bearing this domain transfer UDP, ADP, GDP or CMP linked sugars. This region is flanked at the N terminus by a signal peptide and at the C terminus by a glycosyl transferase group 1 domain (IPR001296 from INTERPRO). The eukaryotic glycogen synthases may be distant members of this bacterial family [].; GO: 0005529 sugar binding, 0016740 transferase activity, 0005975 carbohydrate metabolic process; PDB: 2XCI_A 2XCU_B.
Probab=47.75 E-value=72 Score=26.62 Aligned_cols=86 Identities=19% Similarity=0.279 Sum_probs=37.5
Q ss_pred HHHHHHHHhhC---CCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhh--ccCCcEEEEeCCCCCchhh
Q psy16262 60 LAARAIVAIEH---PADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAA--FREPRLLVVTDPHTDHQPI 134 (222)
Q Consensus 60 ~a~~~i~~i~~---~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~--~~~P~lvii~dp~~d~~aI 134 (222)
.+..++..++. +..|++..+.+.+.+..++.... -+...+.|=-+--.+++. ...||++|++...-=...|
T Consensus 36 a~~~Li~~l~~~~p~~~illT~~T~tg~~~~~~~~~~----~v~~~~~P~D~~~~~~rfl~~~~P~~~i~~EtElWPnll 111 (186)
T PF04413_consen 36 AARPLIKRLRKQRPDLRILLTTTTPTGREMARKLLPD----RVDVQYLPLDFPWAVRRFLDHWRPDLLIWVETELWPNLL 111 (186)
T ss_dssp HHHHHHHHHTT---TS-EEEEES-CCHHHHHHGG-GG----G-SEEE---SSHHHHHHHHHHH--SEEEEES----HHHH
T ss_pred HHHHHHHHHHHhCCCCeEEEEecCCchHHHHHHhCCC----CeEEEEeCccCHHHHHHHHHHhCCCEEEEEccccCHHHH
Confidence 34455555543 45676666666776654433211 122334443222222221 2579999999977778999
Q ss_pred hHhhhcCCCEEEEecC
Q psy16262 135 TEAAYVNIPVIAFCNT 150 (222)
Q Consensus 135 ~Ea~~l~IP~IalvDT 150 (222)
++|++.|||++- +|.
T Consensus 112 ~~a~~~~ip~~L-vNa 126 (186)
T PF04413_consen 112 REAKRRGIPVVL-VNA 126 (186)
T ss_dssp HH-----S-EEE-EEE
T ss_pred HHHhhcCCCEEE-Eee
Confidence 999999999874 444
No 131
>PLN02846 digalactosyldiacylglycerol synthase
Probab=47.41 E-value=1.3e+02 Score=29.03 Aligned_cols=94 Identities=14% Similarity=0.065 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCC-C
Q psy16262 51 LRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPH-T 129 (222)
Q Consensus 51 L~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~-~ 129 (222)
-+|=+..|.+|+..+..-...-+++++|..+...+ +++.++..+.. .++.+|..... .....-|+.+..... .
T Consensus 239 ~eK~~~~Li~a~~~l~~~~~~~~l~ivGdGp~~~~-L~~~a~~l~l~---~~vf~G~~~~~--~~~~~~DvFv~pS~~Et 312 (462)
T PLN02846 239 WSKGYKELLKLLHKHQKELSGLEVDLYGSGEDSDE-VKAAAEKLELD---VRVYPGRDHAD--PLFHDYKVFLNPSTTDV 312 (462)
T ss_pred ccCCHHHHHHHHHHHHhhCCCeEEEEECCCccHHH-HHHHHHhcCCc---EEEECCCCCHH--HHHHhCCEEEECCCccc
Confidence 34444555566554433223346788999988654 67777777643 33456643322 233344755554432 2
Q ss_pred CchhhhHhhhcCCCEEEEecC
Q psy16262 130 DHQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 130 d~~aI~Ea~~l~IP~IalvDT 150 (222)
--.++-||...|.|+||.=+.
T Consensus 313 ~g~v~lEAmA~G~PVVa~~~~ 333 (462)
T PLN02846 313 VCTTTAEALAMGKIVVCANHP 333 (462)
T ss_pred chHHHHHHHHcCCcEEEecCC
Confidence 256788999999999998443
No 132
>COG4069 Uncharacterized protein conserved in archaea [Function unknown]
Probab=46.25 E-value=19 Score=33.11 Aligned_cols=33 Identities=18% Similarity=0.221 Sum_probs=21.3
Q ss_pred EEEEeCCCCCchhhhHhhhcCCCEEEEecCCCC
Q psy16262 121 LLVVTDPHTDHQPITEAAYVNIPVIAFCNTESP 153 (222)
Q Consensus 121 lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~ 153 (222)
+++-+.-..-..|-.=-.++|||+|||.|-|||
T Consensus 269 lvvTvGDDTT~vagdIl~RfgipiiGItDgD~D 301 (367)
T COG4069 269 LVVTVGDDTTEVAGDILYRFGIPIIGITDGDCD 301 (367)
T ss_pred eEEEEcCcchhHHHHHHHhcCCcEEecccCChH
Confidence 333333333334444456889999999999987
No 133
>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=46.24 E-value=65 Score=28.13 Aligned_cols=60 Identities=13% Similarity=0.035 Sum_probs=37.3
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCCCC-cceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESPLR-FVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~~~-~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.|++.....+ ...++++...+||+|.+ |+..+.. ..++.-. |...+-......|.+
T Consensus 53 ~~vDgIIi~~~~~~~~~~~l~~~~~~~iPvV~~-d~~~~~~~~~~~V~~---d~~~~g~~~~~~L~~ 115 (302)
T TIGR02634 53 RGVDVLVIIPQNGQVLSNAVQEAKDEGIKVVAY-DRLINDADIDFYLSF---DNEKVGEMQARAVLE 115 (302)
T ss_pred cCCCEEEEeCCChhHHHHHHHHHHHCCCeEEEe-cCcCCCCCccEEEec---CHHHHHHHHHHHHHh
Confidence 56999998865433 57789999999999976 6654322 2344432 334544444444443
No 134
>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=46.12 E-value=67 Score=27.07 Aligned_cols=44 Identities=7% Similarity=0.150 Sum_probs=29.6
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEc
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAI 161 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypI 161 (222)
.+..|.+|+..+..+ ..++++...++|+|.+ |++.+-..+++..
T Consensus 50 ~~~vdgii~~~~~~~-~~~~~~~~~~~pvV~~-~~~~~~~~~~~v~ 93 (270)
T cd01544 50 LEDVDGIIAIGKFSQ-EQLAKLAKLNPNLVFV-DSNPAPDGFDSVV 93 (270)
T ss_pred ccCcCEEEEecCCCH-HHHHHHHhhCCCEEEE-CCCCCCCCCCEEE
Confidence 356798888865433 7788888999999987 5543323344433
No 135
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=45.66 E-value=48 Score=28.12 Aligned_cols=66 Identities=17% Similarity=0.206 Sum_probs=37.0
Q ss_pred CCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEe--CCCCCchhhhHhhhcCCCEE
Q psy16262 70 HPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVT--DPHTDHQPITEAAYVNIPVI 145 (222)
Q Consensus 70 ~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~--dp~~d~~aI~Ea~~l~IP~I 145 (222)
.+.+|.+++.... +.++++++..+. +|+.|.+.-. .....++||+. |+..+..+..+|...|||+-
T Consensus 31 ~ga~VtVvsp~~~--~~l~~l~~~~~i-----~~~~~~~~~~---dl~~~~lVi~at~d~~ln~~i~~~a~~~~ilvn 98 (205)
T TIGR01470 31 AGAQLRVIAEELE--SELTLLAEQGGI-----TWLARCFDAD---ILEGAFLVIAATDDEELNRRVAHAARARGVPVN 98 (205)
T ss_pred CCCEEEEEcCCCC--HHHHHHHHcCCE-----EEEeCCCCHH---HhCCcEEEEECCCCHHHHHHHHHHHHHcCCEEE
Confidence 4556666654332 223334433222 3655555522 23456666655 23356899999999999873
No 136
>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=45.58 E-value=73 Score=26.96 Aligned_cols=62 Identities=15% Similarity=0.031 Sum_probs=37.4
Q ss_pred cCCcEEEEeCCC--CCchhhhHhhhcCCCEEEEecCCCCC------CcceEEccCCCCCchhHHHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPH--TDHQPITEAAYVNIPVIAFCNTESPL------RFVDIAIPCNNKSPHSIGLMWWLLAREV 182 (222)
Q Consensus 117 ~~P~lvii~dp~--~d~~aI~Ea~~l~IP~IalvDTd~~~------~~IdypIP~Ndds~~si~li~~lL~~ai 182 (222)
+.+|.+|+.... ....+++++...|||+|.+ |++... ..+.|.-. |...+-......|++..
T Consensus 53 ~~~dgiii~~~~~~~~~~~~~~~~~~~iPvV~~-~~~~~~~~~~~~~~~~~V~~---d~~~~g~~~~~~l~~~~ 122 (289)
T cd01540 53 QGAKGFVICVPDVKLGPAIVAKAKAYNMKVVAV-DDRLVDADGKPMEDVPHVGM---SATKIGEQVGEAIADEM 122 (289)
T ss_pred cCCCEEEEccCchhhhHHHHHHHHhCCCeEEEe-cCCCcccCCCccccceEecC---CHHHHHHHHHHHHHHHH
Confidence 569999987543 3456789999999999987 433211 12444332 34444455555555443
No 137
>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=45.33 E-value=75 Score=26.31 Aligned_cols=61 Identities=13% Similarity=0.126 Sum_probs=34.7
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.+++.....+ ...++++...++|+|.+-....+...+.+.-. |...+.......|.+
T Consensus 54 ~~~dgii~~~~~~~~~~~~l~~l~~~~ipvv~~~~~~~~~~~~~~v~~---d~~~~~~~~~~~l~~ 116 (268)
T cd06323 54 RGVDAIIINPTDSDAVVPAVKAANEAGIPVFTIDREANGGEVVSQIAS---DNVAGGKMAAEYLVK 116 (268)
T ss_pred cCCCEEEEcCCChHHHHHHHHHHHHCCCcEEEEccCCCCCceEEEEcc---CcHHHHHHHHHHHHH
Confidence 46899888754333 34688888899999998433222222344333 233344444444443
No 138
>cd03818 GT1_ExpC_like This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II).
Probab=45.05 E-value=2.4e+02 Score=25.49 Aligned_cols=100 Identities=14% Similarity=0.140 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHHHHHhhCCCcEEEEecCh------------hhHHHHHHHHHHcCCccccccccCCccc-hHHHhhccCC
Q psy16262 53 RTWEKLLLAARAIVAIEHPADVFVISSRP------------IGQRAVLKFASYTGATPIAGRFTPGAFT-NQIQAAFREP 119 (222)
Q Consensus 53 ~T~~~L~~a~~~i~~i~~~~~ILfv~t~~------------~~~~~v~~~a~~~g~~yv~~rW~gG~LT-N~i~~~~~~P 119 (222)
|=+..|.+|+..+..-...-+++++|... ....++++.+...+..-| .|+ |... ..+......-
T Consensus 225 Kg~~~ll~a~~~l~~~~~~~~lvivG~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~V--~f~-G~v~~~~~~~~l~~a 301 (396)
T cd03818 225 RGFHVFMRALPRLLRARPDARVVIVGGDGVSYGAPPPDGESWKQHMLDELGGRLDLSRV--HFL-GRVPYDQYLALLQVS 301 (396)
T ss_pred cCHHHHHHHHHHHHHHCCCcEEEEEcCCCcccCCCCCCcccHHHHHHHHhhcccCcceE--EEe-CCCCHHHHHHHHHhC
Confidence 33444555655444332345677887521 122333333332222212 244 3333 2344455566
Q ss_pred cEEEEeCC-CCCchhhhHhhhcCCCEEEEecCCCCCCc
Q psy16262 120 RLLVVTDP-HTDHQPITEAAYVNIPVIAFCNTESPLRF 156 (222)
Q Consensus 120 ~lvii~dp-~~d~~aI~Ea~~l~IP~IalvDTd~~~~~ 156 (222)
|+.+...- ..-...+-||...|.|+|+ .|.....+.
T Consensus 302 dv~v~~s~~e~~~~~llEAmA~G~PVIa-s~~~g~~e~ 338 (396)
T cd03818 302 DVHVYLTYPFVLSWSLLEAMACGCLVVG-SDTAPVREV 338 (396)
T ss_pred cEEEEcCcccccchHHHHHHHCCCCEEE-cCCCCchhh
Confidence 77666542 2223578999999999998 454443443
No 139
>PRK15427 colanic acid biosynthesis glycosyltransferase WcaL; Provisional
Probab=45.00 E-value=2.1e+02 Score=26.49 Aligned_cols=98 Identities=11% Similarity=0.152 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccch-HHHhhccCCcEEEEeCCC-----
Q psy16262 55 WEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTN-QIQAAFREPRLLVVTDPH----- 128 (222)
Q Consensus 55 ~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN-~i~~~~~~P~lvii~dp~----- 128 (222)
+..+.+|+..+..-...-++.++|..+... .+++.++..|..-.. .|. |..+. .+......-|+.++..-.
T Consensus 237 ~~~ll~a~~~l~~~~~~~~l~ivG~G~~~~-~l~~~~~~~~l~~~V-~~~-G~~~~~el~~~l~~aDv~v~pS~~~~~g~ 313 (406)
T PRK15427 237 LHVAIEACRQLKEQGVAFRYRILGIGPWER-RLRTLIEQYQLEDVV-EMP-GFKPSHEVKAMLDDADVFLLPSVTGADGD 313 (406)
T ss_pred HHHHHHHHHHHHhhCCCEEEEEEECchhHH-HHHHHHHHcCCCCeE-EEe-CCCCHHHHHHHHHhCCEEEECCccCCCCC
Confidence 344555554443211223567888776543 466667776643111 244 55544 355566778888765421
Q ss_pred CC--chhhhHhhhcCCCEEEEecCCCCCCc
Q psy16262 129 TD--HQPITEAAYVNIPVIAFCNTESPLRF 156 (222)
Q Consensus 129 ~d--~~aI~Ea~~l~IP~IalvDTd~~~~~ 156 (222)
.| ...+-||...|.|+|+- |....++.
T Consensus 314 ~Eg~p~~llEAma~G~PVI~t-~~~g~~E~ 342 (406)
T PRK15427 314 MEGIPVALMEAMAVGIPVVST-LHSGIPEL 342 (406)
T ss_pred ccCccHHHHHHHhCCCCEEEe-CCCCchhh
Confidence 12 36789999999999985 44444443
No 140
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=44.23 E-value=1e+02 Score=21.14 Aligned_cols=34 Identities=21% Similarity=0.237 Sum_probs=25.9
Q ss_pred hccCCcEEEEeCCCC----CchhhhHhhhcCCCEEEEe
Q psy16262 115 AFREPRLLVVTDPHT----DHQPITEAAYVNIPVIAFC 148 (222)
Q Consensus 115 ~~~~P~lvii~dp~~----d~~aI~Ea~~l~IP~Ialv 148 (222)
...+=|++++++... -..++++|+..|.|+|+++
T Consensus 44 ~~~~~d~~i~iS~sg~t~~~~~~~~~a~~~g~~ii~it 81 (87)
T cd04795 44 LLRKGDVVIALSYSGRTEELLAALEIAKELGIPVIAIT 81 (87)
T ss_pred cCCCCCEEEEEECCCCCHHHHHHHHHHHHcCCeEEEEe
Confidence 345668888886433 3567889999999999998
No 141
>cd03819 GT1_WavL_like This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core.
Probab=44.19 E-value=1.4e+02 Score=25.69 Aligned_cols=93 Identities=14% Similarity=0.209 Sum_probs=50.3
Q ss_pred HHHHHHHHHHhhCCCcEEEEecChhh---HHHHHHHHHHcCCc-cccccccCCccchHHHhhccCCcEEEEeCCCCC--c
Q psy16262 58 LLLAARAIVAIEHPADVFVISSRPIG---QRAVLKFASYTGAT-PIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD--H 131 (222)
Q Consensus 58 L~~a~~~i~~i~~~~~ILfv~t~~~~---~~~v~~~a~~~g~~-yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d--~ 131 (222)
+..|+..+.....+-++.++|..+.. .+.+.+.++..+.. .| +|.|. ..-+......-|+++......+ .
T Consensus 203 li~~~~~l~~~~~~~~l~ivG~~~~~~~~~~~~~~~~~~~~~~~~v--~~~g~--~~~~~~~l~~ad~~i~ps~~~e~~~ 278 (355)
T cd03819 203 FIEALARLKKDDPDVHLLIVGDAQGRRFYYAELLELIKRLGLQDRV--TFVGH--CSDMPAAYALADIVVSASTEPEAFG 278 (355)
T ss_pred HHHHHHHHHhcCCCeEEEEEECCcccchHHHHHHHHHHHcCCcceE--EEcCC--cccHHHHHHhCCEEEecCCCCCCCc
Confidence 44444444332223456778766432 23334445554432 11 24443 3334455566888776652222 4
Q ss_pred hhhhHhhhcCCCEEEEecCCCCCC
Q psy16262 132 QPITEAAYVNIPVIAFCNTESPLR 155 (222)
Q Consensus 132 ~aI~Ea~~l~IP~IalvDTd~~~~ 155 (222)
..+-||...|.|+|+- |.....+
T Consensus 279 ~~l~EA~a~G~PvI~~-~~~~~~e 301 (355)
T cd03819 279 RTAVEAQAMGRPVIAS-DHGGARE 301 (355)
T ss_pred hHHHHHHhcCCCEEEc-CCCCcHH
Confidence 6899999999999974 4444333
No 142
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=44.19 E-value=63 Score=22.38 Aligned_cols=48 Identities=21% Similarity=0.179 Sum_probs=33.1
Q ss_pred HHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccc
Q psy16262 62 ARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFT 109 (222)
Q Consensus 62 ~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LT 109 (222)
...+..+..+..+.++.+.+....-+.++|+..|..++...=-+|.+.
T Consensus 17 kkal~~l~~G~~l~V~~d~~~a~~di~~~~~~~G~~~~~~~~~~~~~~ 64 (69)
T cd03420 17 KKEIDKLQDGEQLEVKASDPGFARDAQAWCKSTGNTLISLETEKGKVK 64 (69)
T ss_pred HHHHHcCCCCCEEEEEECCccHHHHHHHHHHHcCCEEEEEEecCCEEE
Confidence 333444555666678888888888899999999998865333455543
No 143
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=43.64 E-value=90 Score=27.13 Aligned_cols=46 Identities=15% Similarity=0.229 Sum_probs=30.7
Q ss_pred ccCCcEEEEeCCC-CCchhhhHhhhcCCCEEEEecCCCCCCcceEEcc
Q psy16262 116 FREPRLLVVTDPH-TDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIP 162 (222)
Q Consensus 116 ~~~P~lvii~dp~-~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP 162 (222)
...+|.+|+.... .+...++++...+||+|.+ |...+...+++..+
T Consensus 115 ~~~vdgiIi~~~~~~~~~~~~~l~~~~iPvV~v-~~~~~~~~~~~V~~ 161 (328)
T PRK11303 115 QRQVDALIVSTSLPPEHPFYQRLQNDGLPIIAL-DRALDREHFTSVVS 161 (328)
T ss_pred HcCCCEEEEcCCCCCChHHHHHHHhcCCCEEEE-CCCCCCCCCCEEEe
Confidence 3579999987543 2345678888899999875 66554444555543
No 144
>TIGR01823 PabB-fungal aminodeoxychorismate synthase, fungal clade. This model represents the fungal clade of a para-aminobenzoate synthesis enzyme, aminodeoxychorismate synthase, which acts on chorismate in a pathway that yields PABA, a precursor of folate.
Probab=43.36 E-value=1e+02 Score=31.50 Aligned_cols=80 Identities=20% Similarity=0.203 Sum_probs=45.0
Q ss_pred CCCcEEEEecChhh-HHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC-CC-----CCchhhhHhhhcC-
Q psy16262 70 HPADVFVISSRPIG-QRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD-PH-----TDHQPITEAAYVN- 141 (222)
Q Consensus 70 ~~~~ILfv~t~~~~-~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d-p~-----~d~~aI~Ea~~l~- 141 (222)
.+.+||+|.+-... ..++..+.+..|..+-..-.....+..-.......+|.|||.. |. .+...++|+...+
T Consensus 4 ~~~~iL~ID~~DSft~nl~~~l~~~~g~~~~v~vv~~d~~~~~~~~~l~~~D~VVIspGPG~p~~~~~~~i~~~i~~~~~ 83 (742)
T TIGR01823 4 QRLHVLFIDSYDSFTYNVVRLLEQQTDISVHVTTVHSDTFQDQLLELLPLFDAIVVGPGPGNPNNAQDMGIISELWELAN 83 (742)
T ss_pred CCceEEEEeCCcchHHHHHHHHHHhcCCCcEEEEEeCCCCchhhhhhhcCCCEEEECCCCCCccchhhhHHHHHHHHhcc
Confidence 45678999888544 4566666665553210000111222221222345789999973 32 2244677777765
Q ss_pred ---CCEEEEec
Q psy16262 142 ---IPVIAFCN 149 (222)
Q Consensus 142 ---IP~IalvD 149 (222)
+|+.|+|=
T Consensus 84 ~~~iPvLGICl 94 (742)
T TIGR01823 84 LDEVPVLGICL 94 (742)
T ss_pred cCCCcEEEEch
Confidence 99999984
No 145
>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=43.03 E-value=85 Score=26.31 Aligned_cols=56 Identities=9% Similarity=-0.041 Sum_probs=34.5
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLL 178 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL 178 (222)
+.+|.+|+.. . +...+++....++|+|.+ |...+...+++...-| .++.......|
T Consensus 49 ~~vdGiI~~~-~-~~~~~~~l~~~~~PvV~~-~~~~~~~~~~~v~~d~---~~~g~~~~~~l 104 (265)
T cd01543 49 WQGDGIIARI-D-DPEMAEALQKLGIPVVDV-SGSREKPGIPRVTTDN---AAIGRMAAEHF 104 (265)
T ss_pred cccceEEEEC-C-CHHHHHHHhhCCCCEEEE-eCccCCCCCCEEeeCH---HHHHHHHHHHH
Confidence 4799998863 2 445668888889999888 6554434456655333 33444444444
No 146
>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=42.87 E-value=73 Score=27.07 Aligned_cols=36 Identities=22% Similarity=0.192 Sum_probs=25.9
Q ss_pred cCCcEEEEeCC--CCCchhhhHhhhcCCCEEEEecCCCC
Q psy16262 117 REPRLLVVTDP--HTDHQPITEAAYVNIPVIAFCNTESP 153 (222)
Q Consensus 117 ~~P~lvii~dp--~~d~~aI~Ea~~l~IP~IalvDTd~~ 153 (222)
+.+|.||+... ......++++...+||+|.+ |+..+
T Consensus 54 ~~vdgiii~~~~~~~~~~~i~~~~~~~iPvV~~-~~~~~ 91 (272)
T cd06313 54 QGWDFIAVDPLGIGTLTEAVQKAIARGIPVIDM-GTLIA 91 (272)
T ss_pred cCCCEEEEcCCChHHhHHHHHHHHHCCCcEEEe-CCCCC
Confidence 56898888532 22356688998899999987 66543
No 147
>cd01742 GATase1_GMP_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase. Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase. GMP synthetase is a glutamine amidotransferase from the de novo purine biosynthetic pathway. Glutamine amidotransferase (GATase) activity catalyse the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. GMP synthetase catalyses the amination of the nucleotide precursor xanthosine 5'-monophospahte to form GMP. GMP synthetase belongs to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site.
Probab=42.86 E-value=1e+02 Score=24.87 Aligned_cols=72 Identities=10% Similarity=0.131 Sum_probs=37.5
Q ss_pred EEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCC------CchhhhHhhhcCCCEEEEe
Q psy16262 75 FVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHT------DHQPITEAAYVNIPVIAFC 148 (222)
Q Consensus 75 Lfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~------d~~aI~Ea~~l~IP~Ialv 148 (222)
+++.........+....++.|.....-+|-.+ .-.......|.||+..-.. .....+|....++|+.|+|
T Consensus 2 ~~iD~g~~~~~~~~~~l~~~G~~~~~~~~~~~----~~~~~~~~~dgvIl~Gg~~~~~~~~~~~~~~~~~~~~~PilGIC 77 (181)
T cd01742 2 LILDFGSQYTHLIARRVRELGVYSEILPNTTP----LEEIKLKNPKGIILSGGPSSVYEEDAPRVDPEIFELGVPVLGIC 77 (181)
T ss_pred EEEECCCchHHHHHHHHHhcCceEEEecCCCC----hhhhcccCCCEEEECCCcccccccccchhhHHHHhcCCCEEEEc
Confidence 34444444444455555556655443334321 0011234567777765311 1234577777799999998
Q ss_pred cC
Q psy16262 149 NT 150 (222)
Q Consensus 149 DT 150 (222)
=-
T Consensus 78 ~G 79 (181)
T cd01742 78 YG 79 (181)
T ss_pred HH
Confidence 53
No 148
>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=42.09 E-value=1.9e+02 Score=23.60 Aligned_cols=90 Identities=6% Similarity=0.022 Sum_probs=46.3
Q ss_pred HHHHHHHHh-hCCCcEEEEecChh---h---HHHHHHHHHHcC-CccccccccCCc----cchHHHhh---ccCCcEEEE
Q psy16262 60 LAARAIVAI-EHPADVFVISSRPI---G---QRAVLKFASYTG-ATPIAGRFTPGA----FTNQIQAA---FREPRLLVV 124 (222)
Q Consensus 60 ~a~~~i~~i-~~~~~ILfv~t~~~---~---~~~v~~~a~~~g-~~yv~~rW~gG~----LTN~i~~~---~~~P~lvii 124 (222)
.++..+... ...++|.+++.... . .+..++.++..+ .... ..+.++. .+-.+++. ...|+.+++
T Consensus 109 ~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 187 (267)
T cd01536 109 LAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRDALKEYPDIEIV-AVQDGNWDREKALQAMEDLLQANPDIDAIFA 187 (267)
T ss_pred HHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHHHHHhCCCcEEE-EEecCCCcHHHHHHHHHHHHHhCCCccEEEE
Confidence 445555443 25678888765432 2 233445555553 3321 1122221 11122222 234788888
Q ss_pred eCCCCCchhhhHhhhcC----CCEEEEecC
Q psy16262 125 TDPHTDHQPITEAAYVN----IPVIAFCNT 150 (222)
Q Consensus 125 ~dp~~d~~aI~Ea~~l~----IP~IalvDT 150 (222)
.+...-.-+++.+...| +.++|+-|+
T Consensus 188 ~~d~~a~~~~~~l~~~g~~~~i~ivg~d~~ 217 (267)
T cd01536 188 ANDSMALGAVAALKAAGRKGDVKIVGVDGS 217 (267)
T ss_pred ecCCchHHHHHHHHhcCCCCCceEEecCCC
Confidence 87655566777777776 567777665
No 149
>PRK14089 ipid-A-disaccharide synthase; Provisional
Probab=41.95 E-value=36 Score=31.48 Aligned_cols=33 Identities=6% Similarity=0.097 Sum_probs=28.6
Q ss_pred ccCCcEEEEeC-CCCCchhhhHhhhc--CCCEEEEe
Q psy16262 116 FREPRLLVVTD-PHTDHQPITEAAYV--NIPVIAFC 148 (222)
Q Consensus 116 ~~~P~lvii~d-p~~d~~aI~Ea~~l--~IP~Ialv 148 (222)
...||++|++| |.-|....+.+++. |||++=.+
T Consensus 74 ~~~pd~~i~iD~p~Fnl~lak~~k~~~~~i~viyyi 109 (347)
T PRK14089 74 AKQADKVLLMDSSSFNIPLAKKIKKAYPKKEIIYYI 109 (347)
T ss_pred hcCCCEEEEeCCCCCCHHHHHHHHhcCCCCCEEEEE
Confidence 36899999999 77888999999999 79998665
No 150
>COG1817 Uncharacterized protein conserved in archaea [Function unknown]
Probab=41.76 E-value=94 Score=28.93 Aligned_cols=98 Identities=16% Similarity=0.225 Sum_probs=65.4
Q ss_pred eeHHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCcc-ccccccCCccchHHH------------hh
Q psy16262 49 LNLRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATP-IAGRFTPGAFTNQIQ------------AA 115 (222)
Q Consensus 49 InL~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~y-v~~rW~gG~LTN~i~------------~~ 115 (222)
||+-.+ .+.......+..++++|.-..+.++... .+-++....|..| +.|+--+++|+-... ..
T Consensus 5 iDI~n~-~hvhfFk~lI~elekkG~ev~iT~rd~~--~v~~LLd~ygf~~~~Igk~g~~tl~~Kl~~~~eR~~~L~ki~~ 81 (346)
T COG1817 5 IDIGNP-PHVHFFKNLIWELEKKGHEVLITCRDFG--VVTELLDLYGFPYKSIGKHGGVTLKEKLLESAERVYKLSKIIA 81 (346)
T ss_pred EEcCCc-chhhHHHHHHHHHHhCCeEEEEEEeecC--cHHHHHHHhCCCeEeecccCCccHHHHHHHHHHHHHHHHHHHh
Confidence 444433 2233444555567778877777777764 3556677778776 457777788885321 12
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCC
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
...||+.+= ..+..+=|=|.-+|||.|.++|+-.
T Consensus 82 ~~kpdv~i~---~~s~~l~rvafgLg~psIi~~D~eh 115 (346)
T COG1817 82 EFKPDVAIG---KHSPELPRVAFGLGIPSIIFVDNEH 115 (346)
T ss_pred hcCCceEee---cCCcchhhHHhhcCCceEEecCChh
Confidence 357888774 4466778888999999999999954
No 151
>cd03822 GT1_ecORF704_like This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides.
Probab=41.64 E-value=2.2e+02 Score=24.26 Aligned_cols=76 Identities=13% Similarity=0.108 Sum_probs=41.3
Q ss_pred CCcEEEEecChhhHHHHHH----HHHHcCCccccccccCCccc-hHHHhhccCCcEEEEeCCCC---CchhhhHhhhcCC
Q psy16262 71 PADVFVISSRPIGQRAVLK----FASYTGATPIAGRFTPGAFT-NQIQAAFREPRLLVVTDPHT---DHQPITEAAYVNI 142 (222)
Q Consensus 71 ~~~ILfv~t~~~~~~~v~~----~a~~~g~~yv~~rW~gG~LT-N~i~~~~~~P~lvii~dp~~---d~~aI~Ea~~l~I 142 (222)
.-+++++|........... .++..+..-- =.|.||.+. ..+....+.-|+++.....+ -...+-||...|+
T Consensus 216 ~~~l~i~G~~~~~~~~~~~~~~~~i~~~~~~~~-v~~~~~~~~~~~~~~~~~~ad~~v~ps~~e~~~~~~~~~Ea~a~G~ 294 (366)
T cd03822 216 DVRLLVAGETHPDLERYRGEAYALAERLGLADR-VIFINRYLPDEELPELFSAADVVVLPYRSADQTQSGVLAYAIGFGK 294 (366)
T ss_pred CeEEEEeccCccchhhhhhhhHhHHHhcCCCCc-EEEecCcCCHHHHHHHHhhcCEEEecccccccccchHHHHHHHcCC
Confidence 3456677765432222211 1344443211 136666443 33445556677776544322 2467889999999
Q ss_pred CEEEE
Q psy16262 143 PVIAF 147 (222)
Q Consensus 143 P~Ial 147 (222)
|+|+-
T Consensus 295 PvI~~ 299 (366)
T cd03822 295 PVIST 299 (366)
T ss_pred CEEec
Confidence 99973
No 152
>PRK06895 putative anthranilate synthase component II; Provisional
Probab=41.49 E-value=1.4e+02 Score=24.64 Aligned_cols=71 Identities=6% Similarity=0.117 Sum_probs=43.2
Q ss_pred CcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC-CCC--C----chhhhHhhhcCCCE
Q psy16262 72 ADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD-PHT--D----HQPITEAAYVNIPV 144 (222)
Q Consensus 72 ~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d-p~~--d----~~aI~Ea~~l~IP~ 144 (222)
.+||+|........-+.+..++.|..+..-++-.+.. ......|.||++. |.. + ...|++ -..++|+
T Consensus 2 ~~iliid~~dsf~~~i~~~l~~~g~~~~v~~~~~~~~-----~~l~~~d~iIi~gGp~~~~~~~~~~~~i~~-~~~~~Pi 75 (190)
T PRK06895 2 TKLLIINNHDSFTFNLVDLIRKLGVPMQVVNVEDLDL-----DEVENFSHILISPGPDVPRAYPQLFAMLER-YHQHKSI 75 (190)
T ss_pred cEEEEEeCCCchHHHHHHHHHHcCCcEEEEECCccCh-----hHhccCCEEEECCCCCChHHhhHHHHHHHH-hcCCCCE
Confidence 3688888888666557777788887654444433321 1123578888884 431 1 223443 3448999
Q ss_pred EEEe
Q psy16262 145 IAFC 148 (222)
Q Consensus 145 Ialv 148 (222)
.|+|
T Consensus 76 LGIC 79 (190)
T PRK06895 76 LGVC 79 (190)
T ss_pred EEEc
Confidence 9997
No 153
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=41.48 E-value=96 Score=27.73 Aligned_cols=60 Identities=17% Similarity=-0.007 Sum_probs=36.4
Q ss_pred cCCcEEEEeCCCCCc--hhhhHhhhcCCCEEEEecCCCCCC-cceEEccCCCCCchhHHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDH--QPITEAAYVNIPVIAFCNTESPLR-FVDIAIPCNNKSPHSIGLMWWLLARE 181 (222)
Q Consensus 117 ~~P~lvii~dp~~d~--~aI~Ea~~l~IP~IalvDTd~~~~-~IdypIP~Ndds~~si~li~~lL~~a 181 (222)
+.+|.|++.....+. ..+ |+...+||+|.+- ++.++. .+++.-+ |...+-+.....|.+.
T Consensus 103 ~~vdgIIl~~~~~~~~~~~l-~~~~~giPvV~~~-~~~~~~~~~~~V~~---D~~~~g~~aa~~L~~~ 165 (343)
T PRK10936 103 WGADAILLGAVTPDGLNPDL-ELQAANIPVIALV-NGIDSPQVTTRVGV---SWYQMGYQAGRYLAQW 165 (343)
T ss_pred hCCCEEEEeCCChHHhHHHH-HHHHCCCCEEEec-CCCCCccceEEEec---ChHHHHHHHHHHHHHH
Confidence 579999987654444 455 8888999999883 333332 2345432 4445555555555544
No 154
>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=41.33 E-value=98 Score=25.92 Aligned_cols=43 Identities=9% Similarity=0.233 Sum_probs=28.4
Q ss_pred cCCcEEEEeCCCCC-chhhhHhhhcCCCEEEEecCCCCCCcceEEc
Q psy16262 117 REPRLLVVTDPHTD-HQPITEAAYVNIPVIAFCNTESPLRFVDIAI 161 (222)
Q Consensus 117 ~~P~lvii~dp~~d-~~aI~Ea~~l~IP~IalvDTd~~~~~IdypI 161 (222)
...|.+|+.....+ ...++++...+||+|.+ |+..+ ..+++..
T Consensus 54 ~~vdgii~~~~~~~~~~~~~~~~~~~ipvV~i-~~~~~-~~~~~V~ 97 (269)
T cd06281 54 RRMDGIIIAPGDERDPELVDALASLDLPIVLL-DRDMG-GGADAVL 97 (269)
T ss_pred cCCCEEEEecCCCCcHHHHHHHHhCCCCEEEE-ecccC-CCCCEEE
Confidence 46888888765433 34567778889999987 55444 3455543
No 155
>PLN02275 transferase, transferring glycosyl groups
Probab=41.19 E-value=1.5e+02 Score=26.78 Aligned_cols=79 Identities=10% Similarity=-0.024 Sum_probs=49.0
Q ss_pred cEEEEecChhhHHHHHHHHHHcCCccccccccCCcc-chHHHhhccCCcEEEEeCCCC--C--chhhhHhhhcCCCEEEE
Q psy16262 73 DVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAF-TNQIQAAFREPRLLVVTDPHT--D--HQPITEAAYVNIPVIAF 147 (222)
Q Consensus 73 ~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~L-TN~i~~~~~~P~lvii~dp~~--d--~~aI~Ea~~l~IP~Ial 147 (222)
+++++|..+.. +.+++.++..|..- -.+.+|.+ .+.+......-|+.++..+.. + ...+-||...|.|+|+-
T Consensus 263 ~l~ivG~G~~~-~~l~~~~~~~~l~~--v~~~~~~~~~~~~~~~l~~aDv~v~~~~s~~~e~~p~~llEAmA~G~PVVa~ 339 (371)
T PLN02275 263 LFIITGKGPQK-AMYEEKISRLNLRH--VAFRTMWLEAEDYPLLLGSADLGVSLHTSSSGLDLPMKVVDMFGCGLPVCAV 339 (371)
T ss_pred EEEEEeCCCCH-HHHHHHHHHcCCCc--eEEEcCCCCHHHHHHHHHhCCEEEEeccccccccccHHHHHHHHCCCCEEEe
Confidence 46788887764 34666777766542 13455533 344555667788887643221 1 35689999999999994
Q ss_pred ecCCCCCC
Q psy16262 148 CNTESPLR 155 (222)
Q Consensus 148 vDTd~~~~ 155 (222)
|.....+
T Consensus 340 -~~gg~~e 346 (371)
T PLN02275 340 -SYSCIGE 346 (371)
T ss_pred -cCCChHH
Confidence 4434333
No 156
>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=40.98 E-value=1.2e+02 Score=24.97 Aligned_cols=58 Identities=12% Similarity=0.035 Sum_probs=32.1
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
+.+|.+++..+..+.... ++...+||+|.+-+.... ...+|.- .|...+.......|.
T Consensus 54 ~~vdgiii~~~~~~~~~~-~~~~~~ipvv~~~~~~~~-~~~~~v~---~d~~~~g~~~~~~l~ 111 (267)
T cd06284 54 KQADGIILLDGSLPPTAL-TALAKLPPIVQACEYIPG-LAVPSVS---IDNVAAARLAVDHLI 111 (267)
T ss_pred cCCCEEEEecCCCCHHHH-HHHhcCCCEEEEecccCC-CCcceEE---ecccHHHHHHHHHHH
Confidence 579999987765444433 444569999987543222 2344433 233444444444443
No 157
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=40.90 E-value=9.5 Score=28.57 Aligned_cols=43 Identities=19% Similarity=0.261 Sum_probs=26.0
Q ss_pred cCCcEEEEeC--CCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccC
Q psy16262 117 REPRLLVVTD--PHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPC 163 (222)
Q Consensus 117 ~~P~lvii~d--p~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~ 163 (222)
..-++|++.. +..+..+.++|+..|+|+ +.-.+|+.-||..|+
T Consensus 59 ~~~~lV~~at~d~~~n~~i~~~a~~~~i~v----n~~D~p~~~dF~~Pa 103 (103)
T PF13241_consen 59 DGADLVFAATDDPELNEAIYADARARGILV----NVVDDPELCDFIFPA 103 (103)
T ss_dssp TTESEEEE-SS-HHHHHHHHHHHHHTTSEE----EETT-CCCCSEE--E
T ss_pred hhheEEEecCCCHHHHHHHHHHHhhCCEEE----EECCCcCCCeEEcCC
Confidence 3456666553 445678888999999975 333457777777774
No 158
>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=40.23 E-value=87 Score=26.20 Aligned_cols=34 Identities=15% Similarity=0.261 Sum_probs=24.9
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCC
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd 151 (222)
+.+|.+|+.....+ ...++++...++|+|.+ |.+
T Consensus 56 ~~~dgiIi~~~~~~~~~~~i~~~~~~~ipvv~~-~~~ 91 (271)
T cd06321 56 AKVDLILLNAVDSKGIAPAVKRAQAAGIVVVAV-DVA 91 (271)
T ss_pred hCCCEEEEeCCChhHhHHHHHHHHHCCCeEEEe-cCC
Confidence 57999888643322 46789999999999998 443
No 159
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=39.88 E-value=1.1e+02 Score=26.79 Aligned_cols=44 Identities=16% Similarity=0.182 Sum_probs=29.4
Q ss_pred cCCcEEEEeCCCCCchhhhHhhh-cCCCEEEEecCCCC-CCcceEEc
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAY-VNIPVIAFCNTESP-LRFVDIAI 161 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~-l~IP~IalvDTd~~-~~~IdypI 161 (222)
+.+|.+|++....+...++++.. .+||+|.+ |+..+ ....++..
T Consensus 114 ~~vdgiii~~~~~~~~~~~~l~~~~~iPvV~~-d~~~~~~~~~~~v~ 159 (341)
T PRK10703 114 KRVDGLLVMCSEYPEPLLAMLEEYRHIPMVVM-DWGEAKADFTDAII 159 (341)
T ss_pred cCCCEEEEecCCCCHHHHHHHHhcCCCCEEEE-ecccCCcCCCCeEE
Confidence 57999998876555566777777 79999955 66542 33345543
No 160
>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=39.71 E-value=1.6e+02 Score=23.88 Aligned_cols=33 Identities=15% Similarity=0.277 Sum_probs=22.2
Q ss_pred CCcEEEEeCCCCCchhhhHhhhcCC------CEEEEecC
Q psy16262 118 EPRLLVVTDPHTDHQPITEAAYVNI------PVIAFCNT 150 (222)
Q Consensus 118 ~P~lvii~dp~~d~~aI~Ea~~l~I------P~IalvDT 150 (222)
.||.+++.+......+++.+...|+ +++|+-++
T Consensus 178 ~~~~i~~~~~~~a~~~~~~~~~~g~~i~~~i~i~~~d~~ 216 (264)
T cd01537 178 DPTAIFAANDDMALGALRALREAGLRVPDDISVIGFDGT 216 (264)
T ss_pred CCCEEEEcCcHHHHHHHHHHHHhCCCCCCCeEEEeecCc
Confidence 4899998876555557777777765 45555444
No 161
>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=39.61 E-value=1.2e+02 Score=25.40 Aligned_cols=32 Identities=19% Similarity=0.252 Sum_probs=25.1
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEe
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAFC 148 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~Ialv 148 (222)
+.+|.+|+.....+ ...++++...+||+|.+-
T Consensus 54 ~~vdgiIi~~~~~~~~~~~i~~~~~~~iPvV~~~ 87 (273)
T cd06309 54 QGVDVIILAPVVETGWDPVLKEAKAAGIPVILVD 87 (273)
T ss_pred cCCCEEEEcCCccccchHHHHHHHHCCCCEEEEe
Confidence 56999998765544 467899999999999864
No 162
>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=39.45 E-value=1.3e+02 Score=25.16 Aligned_cols=57 Identities=11% Similarity=0.113 Sum_probs=33.3
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLL 178 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL 178 (222)
+.+|.+|+.....+.. ..++...++|+|.+ |++.+....++.- .|...+.......|
T Consensus 54 ~~~dgiii~~~~~~~~-~~~~~~~~iPvV~~-~~~~~~~~~~~v~---~d~~~~g~~a~~~L 110 (263)
T cd06280 54 ERVTGVIFAPTRATLR-RLAELRLSFPVVLI-DRAGPAGRVDAVV---LDNRAAARTLVEHL 110 (263)
T ss_pred CCCCEEEEeCCCCCch-HHHHHhcCCCEEEE-CCCCCCCCCCEEE---ECcHHHHHHHHHHH
Confidence 4689998877544433 45666779999876 5554433344432 24455555554444
No 163
>TIGR01855 IMP_synth_hisH imidazole glycerol phosphate synthase, glutamine amidotransferase subunit. This model represents the glutamine amidotransferase subunit (or domain, in eukaryotic systems) of imidazole glycerol phosphate synthase. This subunit catalyzes step 5 of histidine biosynthesis from PRPP. The other subunit, the cyclase, catalyzes step 6.
Probab=39.23 E-value=1.1e+02 Score=25.45 Aligned_cols=66 Identities=14% Similarity=0.156 Sum_probs=36.8
Q ss_pred EEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCC------------CchhhhHhhhcCC
Q psy16262 75 FVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHT------------DHQPITEAAYVNI 142 (222)
Q Consensus 75 Lfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~------------d~~aI~Ea~~l~I 142 (222)
++|+.....-.++.+..+..|.....-+ |. .....+|.||+..+.. ...+++++...+.
T Consensus 2 ~~~~~~~gn~~~l~~~l~~~g~~v~v~~-------~~--~~l~~~d~lii~G~~~~~~~~~~l~~~~~~~l~~~~~~~~~ 72 (196)
T TIGR01855 2 VIIDYGVGNLGSVKRALKRVGAEPVVVK-------DS--KEAELADKLILPGVGAFGAAMARLRENGLDLFVELVVRLGK 72 (196)
T ss_pred EEEecCCcHHHHHHHHHHHCCCcEEEEc-------CH--HHhccCCEEEECCCCCHHHHHHHHHHcCcHHHHHHHHhCCC
Confidence 3455555555556666666555432212 11 1124677777766432 1233377777899
Q ss_pred CEEEEec
Q psy16262 143 PVIAFCN 149 (222)
Q Consensus 143 P~IalvD 149 (222)
|+.|+|=
T Consensus 73 pvlGiC~ 79 (196)
T TIGR01855 73 PVLGICL 79 (196)
T ss_pred CEEEECH
Confidence 9999985
No 164
>PRK00421 murC UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=39.22 E-value=1.4e+02 Score=28.11 Aligned_cols=61 Identities=18% Similarity=0.263 Sum_probs=35.9
Q ss_pred cCCcEEEEeC-CCCCchhhhHhhhcCCCEEEEecCCCCC--CcceEEccCCCCCchhH-HHHHHHH
Q psy16262 117 REPRLLVVTD-PHTDHQPITEAAYVNIPVIAFCNTESPL--RFVDIAIPCNNKSPHSI-GLMWWLL 178 (222)
Q Consensus 117 ~~P~lvii~d-p~~d~~aI~Ea~~l~IP~IalvDTd~~~--~~IdypIP~Ndds~~si-~li~~lL 178 (222)
..+|+||+.. -..++-.+++|++.|||+++-.+--... ..-.+.|=|= ++..+. .++.++|
T Consensus 65 ~~~d~vv~spgi~~~~~~~~~a~~~~i~i~~~~e~~~~~~~~~~~I~ITGT-nGKTTTt~ll~~iL 129 (461)
T PRK00421 65 KDADVVVYSSAIPDDNPELVAARELGIPVVRRAEMLAELMRFRTSIAVAGT-HGKTTTTSLLAHVL 129 (461)
T ss_pred CCCCEEEECCCCCCCCHHHHHHHHCCCcEEeHHHHHHHHHccCcEEEEECC-CCHHHHHHHHHHHH
Confidence 3588877664 2456778999999999999865541111 1124556554 444444 3443333
No 165
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=39.11 E-value=76 Score=21.65 Aligned_cols=41 Identities=12% Similarity=0.191 Sum_probs=29.1
Q ss_pred HHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCcccc
Q psy16262 60 LAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIA 100 (222)
Q Consensus 60 ~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~ 100 (222)
++.+.+..+..+..+.++.+.+...+-+.++|+..|..++.
T Consensus 16 ~~~~~l~~l~~G~~l~v~~d~~~~~~di~~~~~~~g~~~~~ 56 (70)
T PF01206_consen 16 KAKKALKELPPGEVLEVLVDDPAAVEDIPRWCEENGYEVVE 56 (70)
T ss_dssp HHHHHHHTSGTT-EEEEEESSTTHHHHHHHHHHHHTEEEEE
T ss_pred HHHHHHHhcCCCCEEEEEECCccHHHHHHHHHHHCCCEEEE
Confidence 34444445555566668888888888899999999987554
No 166
>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=39.03 E-value=90 Score=24.91 Aligned_cols=34 Identities=18% Similarity=0.161 Sum_probs=25.6
Q ss_pred CCcEEEEeCCCCCch-hhhHhhhcCCCEEEEecCC
Q psy16262 118 EPRLLVVTDPHTDHQ-PITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 118 ~P~lvii~dp~~d~~-aI~Ea~~l~IP~IalvDTd 151 (222)
.+|.+++.....+.. +..++...+||+|.+--+.
T Consensus 58 ~~d~ii~~~~~~~~~~~~~~~~~~~ip~v~~~~~~ 92 (269)
T cd01391 58 GVDGIIGPPSSSSALAVVELAAAAGIPVVSLDATA 92 (269)
T ss_pred CCCEEEecCCCHHHHHHHHHHHHcCCcEEEecCCC
Confidence 588888876554444 7888899999999985443
No 167
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=38.85 E-value=83 Score=21.17 Aligned_cols=41 Identities=15% Similarity=0.168 Sum_probs=29.0
Q ss_pred HHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCcccc
Q psy16262 60 LAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIA 100 (222)
Q Consensus 60 ~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~ 100 (222)
++...+..+..+..+.++.+.+....-+.++++..|..++.
T Consensus 15 ~~~~~l~~l~~g~~l~v~~d~~~~~~~i~~~~~~~g~~~~~ 55 (69)
T cd00291 15 KTKKALEKLKSGEVLEVLLDDPGAVEDIPAWAKETGHEVLE 55 (69)
T ss_pred HHHHHHhcCCCCCEEEEEecCCcHHHHHHHHHHHcCCEEEE
Confidence 34444445555666777888888788899999999887654
No 168
>COG0608 RecJ Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]
Probab=38.67 E-value=2.8e+02 Score=26.58 Aligned_cols=95 Identities=20% Similarity=0.257 Sum_probs=61.9
Q ss_pred HHHHHHHHHHHHH-HhhCCCcEEEEecCh----hhHHHHHHHHHHcCCccccccccCCccchH---H-HhhccCCcEEEE
Q psy16262 54 TWEKLLLAARAIV-AIEHPADVFVISSRP----IGQRAVLKFASYTGATPIAGRFTPGAFTNQ---I-QAAFREPRLLVV 124 (222)
Q Consensus 54 T~~~L~~a~~~i~-~i~~~~~ILfv~t~~----~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~---i-~~~~~~P~lvii 124 (222)
.+..+.+|+..+. +++++.+|++++-.. .+.-+..++.++.|.. ...++|..++-. + +......+++|.
T Consensus 18 ~l~~~~~a~~~i~~ai~~~~~I~I~~d~DaDGitS~ail~~~L~~~g~~--~~~~ip~~~~~~~g~~~~~~~~~~~liIt 95 (491)
T COG0608 18 LLKDMEKAAARIAEAIEKGEKILIYGDYDADGITSAAILAKALRRLGAD--VDYYIPNRFEEGYGAIRKLKEEGADLIIT 95 (491)
T ss_pred HHhhHHHHHHHHHHHHHcCCEEEEEEecCcccHHHHHHHHHHHHHcCCc--eEEEeCCCccccchHHHHHHhcCCCEEEE
Confidence 3455667777777 478889999888764 2345566777778843 334555555542 2 234467889999
Q ss_pred eCC-CCCchhhhHhhhcCCCEEEEecCC
Q psy16262 125 TDP-HTDHQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 125 ~dp-~~d~~aI~Ea~~l~IP~IalvDTd 151 (222)
+|. ......++.|+..|+.+| +.|=-
T Consensus 96 vD~G~~~~~~i~~~~~~g~~vI-VtDHH 122 (491)
T COG0608 96 VDNGSGSLEEIARAKELGIDVI-VTDHH 122 (491)
T ss_pred ECCCcccHHHHHHHHhCCCcEE-EECCC
Confidence 985 445677888887788776 44544
No 169
>PRK05637 anthranilate synthase component II; Provisional
Probab=38.29 E-value=1.6e+02 Score=24.97 Aligned_cols=71 Identities=18% Similarity=0.263 Sum_probs=38.1
Q ss_pred CcEEEEecChhhHHHHHHHHHHcCCccccccccCCccc-hHHHhhccCCcEEEEeC-CCCCc------hhhhHhhhcCCC
Q psy16262 72 ADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFT-NQIQAAFREPRLLVVTD-PHTDH------QPITEAAYVNIP 143 (222)
Q Consensus 72 ~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LT-N~i~~~~~~P~lvii~d-p~~d~------~aI~Ea~~l~IP 143 (222)
.+|+++.........+....++.|.....-+|- .+ ..+. ...||.||+.. |..-. ..++++ .-++|
T Consensus 2 ~~il~iD~~dsf~~nl~~~l~~~g~~~~v~~~~---~~~~~l~--~~~~~~iIlsgGPg~~~d~~~~~~li~~~-~~~~P 75 (208)
T PRK05637 2 THVVLIDNHDSFVYNLVDAFAVAGYKCTVFRNT---VPVEEIL--AANPDLICLSPGPGHPRDAGNMMALIDRT-LGQIP 75 (208)
T ss_pred CEEEEEECCcCHHHHHHHHHHHCCCcEEEEeCC---CCHHHHH--hcCCCEEEEeCCCCCHHHhhHHHHHHHHH-hCCCC
Confidence 357888887665555555555666654332331 11 1121 24789988874 32211 123222 23799
Q ss_pred EEEEe
Q psy16262 144 VIAFC 148 (222)
Q Consensus 144 ~Ialv 148 (222)
+.|+|
T Consensus 76 iLGIC 80 (208)
T PRK05637 76 LLGIC 80 (208)
T ss_pred EEEEc
Confidence 99987
No 170
>PRK00331 glucosamine--fructose-6-phosphate aminotransferase; Reviewed
Probab=38.00 E-value=4e+02 Score=26.14 Aligned_cols=126 Identities=17% Similarity=0.137 Sum_probs=70.5
Q ss_pred CCCcEEEEecChhhH---HHHHHHHHH---cCCccccccccCCccchHHHhhccCCcEEEEeCCCCC-----chhhhHhh
Q psy16262 70 HPADVFVISSRPIGQ---RAVLKFASY---TGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD-----HQPITEAA 138 (222)
Q Consensus 70 ~~~~ILfv~t~~~~~---~~v~~~a~~---~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d-----~~aI~Ea~ 138 (222)
....+.|++...... +.-.|+.+. .-..|-.+.|..|-+. +..+-..+|++.+..+ ..+++|..
T Consensus 460 ~~~~~~~lG~G~~~~~A~E~aLKl~E~~~i~a~~~~~~Ef~HGP~~-----~i~~~~~vi~l~~~~~~~~~~~~~~~~~~ 534 (604)
T PRK00331 460 DARNALFLGRGVDYPVALEGALKLKEISYIHAEGYAAGELKHGPIA-----LIDEGMPVVAIAPNDELYEKTKSNIQEVK 534 (604)
T ss_pred CCCcEEEEeCCCCHHHHHHHHHHHHHHhhhcccccchhhhccCcHh-----hhcCCceEEEEEcCchHHHHHHHHHHHHH
Confidence 456788899886532 222233333 2334556677777432 2223335566655332 14667878
Q ss_pred hcCCCEEEEecCCC---CCCcceEEccCCCCCchhHHH--HHHHHHHHHHhhhCCCCCCCCccccccc
Q psy16262 139 YVNIPVIAFCNTES---PLRFVDIAIPCNNKSPHSIGL--MWWLLAREVLRFRGVIGPDYLTILGTYI 201 (222)
Q Consensus 139 ~l~IP~IalvDTd~---~~~~IdypIP~Ndds~~si~l--i~~lL~~ai~~~~g~~~~~~~~~~~~~~ 201 (222)
..|-.++.|.+.+. .....++.+|..++-...+.+ .+.+|+..+...+|- +++.|+.|..-+
T Consensus 535 ~~g~~v~~I~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~ip~Qlla~~~A~~~G~-~pd~pr~l~K~v 601 (604)
T PRK00331 535 ARGARVIVIADEGDEVAEEADDVIEVPEVHELLAPLLYVVPLQLLAYHVALARGT-DVDKPRNLAKSV 601 (604)
T ss_pred hCCCEEEEEEcCCccccccCCceEECCCCccchhHHHHHHHHHHHHHHHHHHcCC-CCCCCCCCCCeE
Confidence 78999999977542 122356777866443343332 346677666666653 467777665544
No 171
>cd01149 HutB Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains.
Probab=37.94 E-value=41 Score=28.26 Aligned_cols=33 Identities=15% Similarity=0.329 Sum_probs=23.2
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEe
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFC 148 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~Ialv 148 (222)
.-.||+|+..+...+...+..-.++|||++.+-
T Consensus 56 ~l~PDlIi~~~~~~~~~~~~~l~~~gipvv~~~ 88 (235)
T cd01149 56 SLKPTLVIASDEAGPPEALDQLRAAGVPVVTVP 88 (235)
T ss_pred ccCCCEEEEcCCCCCHHHHHHHHHcCCeEEEec
Confidence 357999987664444445666678999998664
No 172
>PF01497 Peripla_BP_2: Periplasmic binding protein; InterPro: IPR002491 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These 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. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Most bacterial importers employ a periplasmic substrate-binding protein (PBP) that delivers the ligand to the extracellular gate of the TM domains. These proteins bind their substrates selectively and with high affinity, which is thought to ensure the specificity of the transport reaction. Binding proteins in Gram-negative bacteria are present within the periplasm, whereas those in Gram-positive bacteria are tethered to the cell membrane via the acylation of a cysteine residue that is an integral component of a lipoprotein signal sequence. In planta expression of a high-affinity iron-uptake system involving the siderophore chrysobactin in Erwinia chrysanthemi 3937 contributes greatly to invasive growth of this pathogen on its natural host, African violets []. The cobalamin (vitamin B12) and the iron transport systems share many common attributes and probably evolved from the same origin [, ]. The periplasmic-binding domain is composed of two subdomains, each consisting of a central beta-sheet and surrounding alpha-helices, linked by a rigid alpha-helix. The substrate binding site is located in a cleft between the two alpha/beta subdomains [].; GO: 0005488 binding; PDB: 2X4L_A 1N4A_B 1N2Z_B 1N4D_B 4DBL_J 2QI9_F 3EIW_A 3EIX_A 3MWG_A 3MWF_A ....
Probab=37.85 E-value=30 Score=28.64 Aligned_cols=38 Identities=18% Similarity=0.257 Sum_probs=28.5
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCC
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESP 153 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~ 153 (222)
.-+||+||..+.........+....+||++.+-..+..
T Consensus 58 ~l~PDlIi~~~~~~~~~~~~~~~~~~ip~~~~~~~~~~ 95 (238)
T PF01497_consen 58 ALKPDLIIGSSFYGQSEEIEKLLEAGIPVVVFDSSSPF 95 (238)
T ss_dssp HT--SEEEEETTSSCHHHHHHHHHTTSEEEEESSTTCS
T ss_pred hCCCCEEEEeccccchHHHHHHhcccceEEEeecccch
Confidence 35799999998765677888888899999997666543
No 173
>COG0449 GlmS Glucosamine 6-phosphate synthetase, contains amidotransferase and phosphosugar isomerase domains [Cell envelope biogenesis, outer membrane]
Probab=37.60 E-value=97 Score=31.05 Aligned_cols=74 Identities=18% Similarity=0.160 Sum_probs=0.0
Q ss_pred cEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCCCc--ceEEccCC---------CCCchhHHHHHHHHHHHHHh
Q psy16262 120 RLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPLRF--VDIAIPCN---------NKSPHSIGLMWWLLAREVLR 184 (222)
Q Consensus 120 ~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~~~--IdypIP~N---------dds~~si~li~~lL~~ai~~ 184 (222)
+++|.+.+.-+ ..|+++|++.|.+++|+|+..-++-- .|++++-+ .+...+--+.+++|+-.+.+
T Consensus 332 ~L~I~ISQSGETaDTl~ALr~ak~~G~~tlaItNv~gSti~Resd~~l~~~AGpEigVAsTKaftaQl~~L~lLal~~a~ 411 (597)
T COG0449 332 TLVIAISQSGETADTLAALRLAKEQGAKTLAITNVPGSTIARESDHTLLIRAGPEIGVASTKAFTAQVLALYLLALYLAK 411 (597)
T ss_pred cEEEEEccCcccHHHHHHHHHHHHcCCCEEEEEecCCChhhcccceEEEeccCCceeeecchhHHHHHHHHHHHHHHHhH
Q ss_pred hhCCCCCCC
Q psy16262 185 FRGVIGPDY 193 (222)
Q Consensus 185 ~~g~~~~~~ 193 (222)
.+|.++.+.
T Consensus 412 ~~g~i~~~~ 420 (597)
T COG0449 412 QRGTISEEE 420 (597)
T ss_pred hhCccchhH
No 174
>cd03786 GT1_UDP-GlcNAc_2-Epimerase Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues (UDP-ManNAc) for use in the biosynthesis of a variety of cell surface polysaccharides; The mammalian enzyme is bifunctional, catalyzing both the inversion of stereochemistry at C-2 and the hydrolysis of the UDP-sugar linkage to generate free ManNAc. It also catalyzes the phosphorylation of ManNAc to generate ManNAc 6-phosphate, a precursor to salic acids. In mammals, sialic acids are found at the termini of oligosaccharides in a large variety of cell surface glycoconjugates and are key mediators of cell-cell recognition events. Mutations in human members of this family have been associated with Sialuria, a rare disease caused by the disorders of sialic acid metabolism. This family belongs to the GT-B st
Probab=37.54 E-value=2.8e+02 Score=24.29 Aligned_cols=49 Identities=14% Similarity=0.193 Sum_probs=32.3
Q ss_pred ccCCccchHHHhhccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCC
Q psy16262 103 FTPGAFTNQIQAAFREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLR 155 (222)
Q Consensus 103 W~gG~LTN~i~~~~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~ 155 (222)
+.+-...+.+..+...-|+++ +++. -++.||...|+|+|.+-+...-++
T Consensus 262 ~~~~~~~~~~~~l~~~ad~~v-~~Sg---gi~~Ea~~~g~PvI~~~~~~~~~~ 310 (363)
T cd03786 262 LISPLGYLYFLLLLKNADLVL-TDSG---GIQEEASFLGVPVLNLRDRTERPE 310 (363)
T ss_pred EECCcCHHHHHHHHHcCcEEE-EcCc---cHHhhhhhcCCCEEeeCCCCccch
Confidence 444334455556566677766 5544 468899999999999876544444
No 175
>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=37.46 E-value=1.2e+02 Score=25.19 Aligned_cols=36 Identities=19% Similarity=0.345 Sum_probs=26.2
Q ss_pred ccCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCCC
Q psy16262 116 FREPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 116 ~~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
.+.+|.+|+.....+ ...++++...+||+|.+ |+..
T Consensus 53 ~~~vdgiii~~~~~~~~~~~~~~~~~~~ipvV~~-~~~~ 90 (267)
T cd06322 53 TKKVDAIVLSPVDSKGIRAAIAKAKKAGIPVITV-DIAA 90 (267)
T ss_pred HcCCCEEEEcCCChhhhHHHHHHHHHCCCCEEEE-cccC
Confidence 357999998765433 34578888899999987 5543
No 176
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=37.39 E-value=97 Score=27.54 Aligned_cols=34 Identities=29% Similarity=0.503 Sum_probs=25.9
Q ss_pred cCCcEEEEe--CCCCCchhhhHhhhcCCCEEEEecCC
Q psy16262 117 REPRLLVVT--DPHTDHQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 117 ~~P~lvii~--dp~~d~~aI~Ea~~l~IP~IalvDTd 151 (222)
+.+|.+|+. +...+...++++...+||+|.+ |+.
T Consensus 80 ~~vdgiIi~~~~~~~~~~~l~~l~~~giPvV~v-d~~ 115 (330)
T PRK15395 80 KGVKALAINLVDPAAAPTVIEKARGQDVPVVFF-NKE 115 (330)
T ss_pred cCCCEEEEeccCHHHHHHHHHHHHHCCCcEEEE-cCC
Confidence 579999997 3333456789999999999987 543
No 177
>TIGR00644 recJ single-stranded-DNA-specific exonuclease RecJ. All proteins in this family are 5'-3' single-strand DNA exonucleases. These proteins are used in some aspects of mismatch repair, recombination, and recombinational repair.
Probab=37.25 E-value=3.1e+02 Score=26.79 Aligned_cols=92 Identities=22% Similarity=0.304 Sum_probs=53.1
Q ss_pred HHHHHHHHH-HhhCCCcEEEEecCh-h---hHHHHHHHHHHcCCc---cccccccC--CccchHHHhh-ccCCcEEEEeC
Q psy16262 58 LLLAARAIV-AIEHPADVFVISSRP-I---GQRAVLKFASYTGAT---PIAGRFTP--GAFTNQIQAA-FREPRLLVVTD 126 (222)
Q Consensus 58 L~~a~~~i~-~i~~~~~ILfv~t~~-~---~~~~v~~~a~~~g~~---yv~~rW~g--G~LTN~i~~~-~~~P~lvii~d 126 (222)
+.+|+..+. .++++.+|++++... . +.-+..++.++.|.. |+..|... |.....++.. ...+|++|++|
T Consensus 40 ~~~a~~~i~~~i~~~~~I~I~gh~D~DGi~S~~~L~~~L~~~g~~v~~~ip~r~~~~yg~~~~~i~~~~~~~~~LiI~vD 119 (539)
T TIGR00644 40 MEKAVERIIEAIENNEKILIFGDYDVDGITSTAILVEFLKDLGVNVDYYIPNRITEGYGLSPEALREAIENGVSLIITVD 119 (539)
T ss_pred HHHHHHHHHHHHhcCCeEEEEEccCCCcHHHHHHHHHHHHHCCCceEEEeCCCCcccCCCCHHHHHHHHhcCCCEEEEeC
Confidence 344444454 366778888776653 1 233444556666643 34444433 4333334332 24689999999
Q ss_pred CC-CCchhhhHhhhcCCCEEEEecC
Q psy16262 127 PH-TDHQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 127 p~-~d~~aI~Ea~~l~IP~IalvDT 150 (222)
.. .++..+.++...++.+|- +|=
T Consensus 120 ~G~~~~~~~~~~~~~g~~vIv-iDH 143 (539)
T TIGR00644 120 NGISAHEEIDYAKELGIDVIV-TDH 143 (539)
T ss_pred CCcccHHHHHHHHhcCCCEEE-ECC
Confidence 64 446677777778888754 564
No 178
>PF01075 Glyco_transf_9: Glycosyltransferase family 9 (heptosyltransferase); InterPro: IPR002201 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 9 GT9 from CAZY comprises enzymes with two known activity; lipopolysaccharide N-acetylglucosaminyltransferase (2.4.1.56 from EC), heptosyltransferase (2.4 from EC). Heptosyltransferase I is thought to add L-glycero-D-manno-heptose to the inner 3-deoxy-D-manno-octulosonic acid (Kdo) residue of the lipopolysaccharide core []. Heptosyltransferase II is a glycosyltransferase involved in the synthesis of the inner core region of lipopolysaccharide []. Lipopolysaccharide is a major component of the outer leaflet of the outer membrane in Gram-negative bacteria. It is composed of three domains; lipid A, Core oligosaccharide and the O-antigen. These enzymes transfer heptose to the lipopolysaccharide core [].; GO: 0016757 transferase activity, transferring glycosyl groups, 0008152 metabolic process; PDB: 1PSW_A 2H1F_A 2GT1_A 3TOV_A 2H1H_A.
Probab=36.93 E-value=2.3e+02 Score=23.66 Aligned_cols=78 Identities=15% Similarity=0.224 Sum_probs=44.7
Q ss_pred HHhhCCC-cEEEEecChh-hHHHHHHHHHHcCCccccccccCCcc-chHHHhhccCCcEEEEeCCCCCchhhhHhhhcCC
Q psy16262 66 VAIEHPA-DVFVISSRPI-GQRAVLKFASYTGATPIAGRFTPGAF-TNQIQAAFREPRLLVVTDPHTDHQPITEAAYVNI 142 (222)
Q Consensus 66 ~~i~~~~-~ILfv~t~~~-~~~~v~~~a~~~g~~yv~~rW~gG~L-TN~i~~~~~~P~lvii~dp~~d~~aI~Ea~~l~I 142 (222)
..+.+.+ .|++++.... ......+.++......++ .. |.+ -..+-+..+.-|++|-.|. -+++=|.-+|+
T Consensus 131 ~~l~~~~~~vvl~g~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~l~e~~ali~~a~~~I~~Dt----g~~HlA~a~~~ 203 (247)
T PF01075_consen 131 ERLKERGYRVVLLGGPEEQEKEIADQIAAGLQNPVIN--LA-GKTSLRELAALISRADLVIGNDT----GPMHLAAALGT 203 (247)
T ss_dssp HHHCCCT-EEEE--SSHHHHHHHHHHHHTTHTTTTEE--ET-TTS-HHHHHHHHHTSSEEEEESS----HHHHHHHHTT-
T ss_pred HHHHhhCceEEEEccchHHHHHHHHHHHHhcccceEe--ec-CCCCHHHHHHHHhcCCEEEecCC----hHHHHHHHHhC
Confidence 3454444 6777777776 445555555554322111 22 322 1123456688999997764 78888999999
Q ss_pred CEEEEecC
Q psy16262 143 PVIAFCNT 150 (222)
Q Consensus 143 P~IalvDT 150 (222)
|+|||--.
T Consensus 204 p~v~lfg~ 211 (247)
T PF01075_consen 204 PTVALFGP 211 (247)
T ss_dssp -EEEEESS
T ss_pred CEEEEecC
Confidence 99999744
No 179
>COG1519 KdtA 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]
Probab=36.55 E-value=1.4e+02 Score=28.73 Aligned_cols=74 Identities=19% Similarity=0.360 Sum_probs=47.4
Q ss_pred CcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHh--hccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEec
Q psy16262 72 ADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQA--AFREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCN 149 (222)
Q Consensus 72 ~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~--~~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvD 149 (222)
-.+++....+.+.+.+ +++.+.. +..+++|=-+-=++.. ....||++|++...-=...|.||.+.|+|++ ++|
T Consensus 79 ~~ilvTt~T~Tg~e~a---~~~~~~~-v~h~YlP~D~~~~v~rFl~~~~P~l~Ii~EtElWPnli~e~~~~~~p~~-LvN 153 (419)
T COG1519 79 LRILVTTMTPTGAERA---AALFGDS-VIHQYLPLDLPIAVRRFLRKWRPKLLIIMETELWPNLINELKRRGIPLV-LVN 153 (419)
T ss_pred CCEEEEecCccHHHHH---HHHcCCC-eEEEecCcCchHHHHHHHHhcCCCEEEEEeccccHHHHHHHHHcCCCEE-EEe
Confidence 3566666566665543 3344433 5556666333222221 2468999999997766789999999999987 444
Q ss_pred C
Q psy16262 150 T 150 (222)
Q Consensus 150 T 150 (222)
.
T Consensus 154 a 154 (419)
T COG1519 154 A 154 (419)
T ss_pred e
Confidence 3
No 180
>PRK12319 acetyl-CoA carboxylase subunit alpha; Provisional
Probab=36.24 E-value=28 Score=30.94 Aligned_cols=22 Identities=27% Similarity=0.415 Sum_probs=19.1
Q ss_pred chhhhHhhhcCCCEEEEecCCC
Q psy16262 131 HQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
...++-|.+.++|+|.|+||--
T Consensus 88 ~R~~~lA~~~~lPvV~lvDtpG 109 (256)
T PRK12319 88 LRLMKQAEKFGRPVVTFINTAG 109 (256)
T ss_pred HHHHHHHHHcCCCEEEEEECCC
Confidence 4678889999999999999954
No 181
>cd03811 GT1_WabH_like This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core.
Probab=36.10 E-value=2.5e+02 Score=23.23 Aligned_cols=73 Identities=18% Similarity=0.221 Sum_probs=41.2
Q ss_pred CCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCC-CchhhhHhhhcCCCEEEE
Q psy16262 71 PADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHT-DHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 71 ~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~-d~~aI~Ea~~l~IP~Ial 147 (222)
.-++.+++..+... ..++.++..+..- +-.|.| ...+ +......-|+++.....+ -...+-||...|.|+|+-
T Consensus 220 ~~~l~i~G~~~~~~-~~~~~~~~~~~~~-~v~~~g-~~~~-~~~~~~~~d~~i~ps~~e~~~~~~~Ea~~~G~PvI~~ 293 (353)
T cd03811 220 DARLVILGDGPLRE-ELEALAKELGLAD-RVHFLG-FQSN-PYPYLKAADLFVLSSRYEGFPNVLLEAMALGTPVVAT 293 (353)
T ss_pred CceEEEEcCCccHH-HHHHHHHhcCCCc-cEEEec-ccCC-HHHHHHhCCEEEeCcccCCCCcHHHHHHHhCCCEEEc
Confidence 44566777655443 3445555554321 112433 2333 334455667766554321 256788999999999984
No 182
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=35.99 E-value=2.5e+02 Score=23.22 Aligned_cols=77 Identities=14% Similarity=0.118 Sum_probs=48.6
Q ss_pred cEEEEecCh---hhHHHHHHHHHHcCCcccccccc------CCcc---------chHHHh----hc---cCCcEEEEeCC
Q psy16262 73 DVFVISSRP---IGQRAVLKFASYTGATPIAGRFT------PGAF---------TNQIQA----AF---REPRLLVVTDP 127 (222)
Q Consensus 73 ~ILfv~t~~---~~~~~v~~~a~~~g~~yv~~rW~------gG~L---------TN~i~~----~~---~~P~lvii~dp 127 (222)
-+++++..- ...+.+.+++++.|.+.+..-.- .|.. ++...+ .. ...|+|+++..
T Consensus 30 PvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~kgv~~~~~~lg~~g~~~~~p~~e~~~g~g~~DlvlfvG~ 109 (162)
T TIGR00315 30 PLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIEAGIESEEMNLHEITQFLADPSWEGFDGEGNYDLVLFLGI 109 (162)
T ss_pred cEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCccccccccCCeecCCCCHHHHHHhccCchhhhccCCCCcCEEEEeCC
Confidence 355566543 56788999999999987664432 2333 222211 12 68999999987
Q ss_pred CCC-----chhhhHhhhcCCCEEEEecCC
Q psy16262 128 HTD-----HQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 128 ~~d-----~~aI~Ea~~l~IP~IalvDTd 151 (222)
+.. ...+|.-+ ++-+|+||.--
T Consensus 110 ~~y~~~~~ls~lk~f~--~~~~i~l~~~y 136 (162)
T TIGR00315 110 IYYYLSQMLSSLKHFS--HIVTIAIDKYY 136 (162)
T ss_pred cchHHHHHHHHHHhhc--CcEEEEecCCC
Confidence 654 22333222 79999999655
No 183
>COG1954 GlpP Glycerol-3-phosphate responsive antiterminator (mRNA-binding) [Transcription]
Probab=35.83 E-value=1.8e+02 Score=24.78 Aligned_cols=79 Identities=27% Similarity=0.281 Sum_probs=44.8
Q ss_pred HHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccC--CccchHHHh-hccCCcEEEEeCCCCCchhhh
Q psy16262 60 LAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTP--GAFTNQIQA-AFREPRLLVVTDPHTDHQPIT 135 (222)
Q Consensus 60 ~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~g--G~LTN~i~~-~~~~P~lvii~dp~~d~~aI~ 135 (222)
-+..|+.. ++..| ++||+... .+.|++.|...+-.-|+= ..|-+.+.. ...+||+|=++---- ..+++
T Consensus 66 ~~i~fi~~~~~pdG---IISTk~~~----i~~Akk~~~~aIqR~FilDS~Al~~~~~~i~~~~pD~iEvLPGv~-Pkvi~ 137 (181)
T COG1954 66 VAIEFIKEVIKPDG---IISTKSNV----IKKAKKLGILAIQRLFILDSIALEKGIKQIEKSEPDFIEVLPGVM-PKVIK 137 (181)
T ss_pred HHHHHHHHhccCCe---eEEccHHH----HHHHHHcCCceeeeeeeecHHHHHHHHHHHHHcCCCEEEEcCccc-HHHHH
Confidence 45666664 44444 56777763 335777777755533432 222222221 236899998886433 34444
Q ss_pred H-hhhcCCCEEE
Q psy16262 136 E-AAYVNIPVIA 146 (222)
Q Consensus 136 E-a~~l~IP~Ia 146 (222)
| ..+.++|+||
T Consensus 138 ~i~~~t~~piIA 149 (181)
T COG1954 138 EITEKTHIPIIA 149 (181)
T ss_pred HHHHhcCCCEEe
Confidence 4 4677999986
No 184
>cd03796 GT1_PIG-A_like This family is most closely related to the GT1 family of glycosyltransferases. Phosphatidylinositol glycan-class A (PIG-A), an X-linked gene in humans, is necessary for the synthesis of N-acetylglucosaminyl-phosphatidylinositol, a very early intermediate in glycosyl phosphatidylinositol (GPI)-anchor biosynthesis. The GPI-anchor is an important cellular structure that facilitates the attachment of many proteins to cell surfaces. Somatic mutations in PIG-A have been associated with Paroxysmal Nocturnal Hemoglobinuria (PNH), an acquired hematological disorder.
Probab=35.76 E-value=2.6e+02 Score=25.26 Aligned_cols=92 Identities=13% Similarity=0.152 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCc-cccccccCCccc-hHHHhhccCCcEEEEeCCC
Q psy16262 51 LRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGAT-PIAGRFTPGAFT-NQIQAAFREPRLLVVTDPH 128 (222)
Q Consensus 51 L~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~-yv~~rW~gG~LT-N~i~~~~~~P~lvii~dp~ 128 (222)
-+|=.+.|..|+..+..-...-++++++..+.. +.+++.+++.|.. .| +++ |..+ ..+......-|+.++....
T Consensus 204 ~~Kg~~~li~a~~~l~~~~~~~~l~i~G~g~~~-~~l~~~~~~~~l~~~v--~~~-G~~~~~~~~~~l~~ad~~v~pS~~ 279 (398)
T cd03796 204 YRKGIDLLVGIIPEICKKHPNVRFIIGGDGPKR-ILLEEMREKYNLQDRV--ELL-GAVPHERVRDVLVQGHIFLNTSLT 279 (398)
T ss_pred hhcCHHHHHHHHHHHHhhCCCEEEEEEeCCchH-HHHHHHHHHhCCCCeE--EEe-CCCCHHHHHHHHHhCCEEEeCChh
Confidence 334344455555544332234566788876543 3455666665532 12 244 4444 3344555566777665432
Q ss_pred CC-chhhhHhhhcCCCEEE
Q psy16262 129 TD-HQPITEAAYVNIPVIA 146 (222)
Q Consensus 129 ~d-~~aI~Ea~~l~IP~Ia 146 (222)
+. -..+-||-..|.|+|+
T Consensus 280 E~~g~~~~EAma~G~PVI~ 298 (398)
T cd03796 280 EAFCIAIVEAASCGLLVVS 298 (398)
T ss_pred hccCHHHHHHHHcCCCEEE
Confidence 11 3588999999999988
No 185
>KOG1401|consensus
Probab=35.64 E-value=31 Score=32.95 Aligned_cols=52 Identities=25% Similarity=0.177 Sum_probs=38.6
Q ss_pred CCceeeeHHHHHHHHHHHHHHHHH-hhC--CCcEEEEecChhhHHHHHHHHHHcCC
Q psy16262 44 DGVHILNLRRTWEKLLLAARAIVA-IEH--PADVFVISSRPIGQRAVLKFASYTGA 96 (222)
Q Consensus 44 ngi~IInL~~T~~~L~~a~~~i~~-i~~--~~~ILfv~t~~~~~~~v~~~a~~~g~ 96 (222)
..-|..|+..|.+.+.. ...+.. +.+ -.+|.|.++...+.+...|||.+.+.
T Consensus 87 k~~hs~~~~~t~eav~l-~~~l~~~~~~~~~~rvff~nsGTeAne~ALK~Ark~~~ 141 (433)
T KOG1401|consen 87 KLGHSSNGYFTLEAVEL-EEVLSAVLGKGSAERVFFCNSGTEANETALKFARKFTG 141 (433)
T ss_pred hheeccCccccHHHHHH-HHHHHhcccCCCccEEEEecCCcHHHHHHHHHHHHhhc
Confidence 34588999999986544 444444 433 46899999999999999999998643
No 186
>PF06258 Mito_fiss_Elm1: Mitochondrial fission ELM1; InterPro: IPR009367 This family consists of several hypothetical eukaryotic and prokaryotic proteins. The function of this family is unknown.
Probab=35.63 E-value=3.4e+02 Score=24.61 Aligned_cols=104 Identities=18% Similarity=0.130 Sum_probs=66.5
Q ss_pred ceeeccCCceeeeHHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhcc
Q psy16262 38 VYKRRNDGVHILNLRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFR 117 (222)
Q Consensus 38 Iyg~r~ngi~IInL~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~ 117 (222)
+.|=- ++-|-+|-+... +|...+..+.. ..++.+++..++....++...+.+..+...-..-| .|.=-|++..+..
T Consensus 152 LIGG~-s~~~~~~~~~~~-~l~~~l~~~~~-~~~~~~~vttSRRTp~~~~~~L~~~~~~~~~~~~~-~~~~~nPy~~~La 227 (311)
T PF06258_consen 152 LIGGD-SKHYRWDEEDAE-RLLDQLAALAA-AYGGSLLVTTSRRTPPEAEAALRELLKDNPGVYIW-DGTGENPYLGFLA 227 (311)
T ss_pred EECcC-CCCcccCHHHHH-HHHHHHHHHHH-hCCCeEEEEcCCCCcHHHHHHHHHhhcCCCceEEe-cCCCCCcHHHHHH
Confidence 34434 566777776542 23222222221 23467888888877766666666665332112235 7777888888888
Q ss_pred CCcEEEEeCCCCCchhhhHhhhcCCCEEEE
Q psy16262 118 EPRLLVVTDPHTDHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 118 ~P~lvii~dp~~d~~aI~Ea~~l~IP~Ial 147 (222)
.-|.++|+.- ...-+-||...|-||.-+
T Consensus 228 ~ad~i~VT~D--SvSMvsEA~~tG~pV~v~ 255 (311)
T PF06258_consen 228 AADAIVVTED--SVSMVSEAAATGKPVYVL 255 (311)
T ss_pred hCCEEEEcCc--cHHHHHHHHHcCCCEEEe
Confidence 8999999853 368899999999998765
No 187
>PF14336 DUF4392: Domain of unknown function (DUF4392)
Probab=35.52 E-value=2.3e+02 Score=25.48 Aligned_cols=22 Identities=18% Similarity=0.197 Sum_probs=18.3
Q ss_pred chhhhHhhhcCCCEEEEecCCC
Q psy16262 131 HQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
.....+|++.|||||||-|--+
T Consensus 165 D~lf~~a~~~gi~tigIGDGGN 186 (291)
T PF14336_consen 165 DDLFLAAKEPGIPTIGIGDGGN 186 (291)
T ss_pred HHHHHHhhcCCCCEEEECCCch
Confidence 4567888889999999999753
No 188
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=35.52 E-value=1.8e+02 Score=24.38 Aligned_cols=85 Identities=15% Similarity=0.148 Sum_probs=54.4
Q ss_pred CCcEEEEecChh---hHHHHHHHHHHcCCccccccccCCccchHH------------------Hh-------hccCCcEE
Q psy16262 71 PADVFVISSRPI---GQRAVLKFASYTGATPIAGRFTPGAFTNQI------------------QA-------AFREPRLL 122 (222)
Q Consensus 71 ~~~ILfv~t~~~---~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i------------------~~-------~~~~P~lv 122 (222)
+.-+|+||.+-. ..+.+.|++++-+.+-+. .++...|.+ +. ...-+|+|
T Consensus 36 krPLlivGp~~~dee~~E~~vKi~ekfnipiva---Ta~~~~~~~~~~i~~~~~~lh~it~~l~Dp~w~G~dg~g~yDlv 112 (170)
T COG1880 36 KRPLLIVGPLALDEELLELAVKIIEKFNIPIVA---TASSMGNLIGRGIGSEYINLHAITQYLTDPNWPGFDGNGNYDLV 112 (170)
T ss_pred CCceEEecccccCHHHHHHHHHHHHhcCCceEe---cchhhcchhhcccccchhHHHHHHHHhcCCCCCCcCCCCCcceE
Confidence 455888988754 455666777777776554 233333321 11 12479999
Q ss_pred EEeCCCCC-----chhhhHhhhcCCCEEEEecCCCCCCcceEEcc
Q psy16262 123 VVTDPHTD-----HQPITEAAYVNIPVIAFCNTESPLRFVDIAIP 162 (222)
Q Consensus 123 ii~dp~~d-----~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP 162 (222)
+++..... .+.+|..+ +|-+|||+-.-++- .||.-|
T Consensus 113 iflG~~~yy~sq~Ls~lKhFs--~i~tiaId~~Y~pn--Ad~SFp 153 (170)
T COG1880 113 IFLGSIYYYLSQVLSGLKHFS--NIKTIAIDRYYQPN--ADYSFP 153 (170)
T ss_pred EEEeccHHHHHHHHHHhhhhh--cceEEEeccccCcC--ccccCC
Confidence 99996544 45677666 99999999887755 344443
No 189
>cd03820 GT1_amsD_like This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be responsible for the formation of galactose alpha-1,6 linkages in amylovoran.
Probab=35.42 E-value=2.6e+02 Score=23.17 Aligned_cols=87 Identities=18% Similarity=0.193 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCC-Cchhhh
Q psy16262 57 KLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHT-DHQPIT 135 (222)
Q Consensus 57 ~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~-d~~aI~ 135 (222)
.+..|+..+.....+-++++++...... .+++.++..+..... .+.| . ...+......-|+++.....+ -...+-
T Consensus 195 ~l~~~~~~l~~~~~~~~l~i~G~~~~~~-~~~~~~~~~~~~~~v-~~~g-~-~~~~~~~~~~ad~~i~ps~~e~~~~~~~ 270 (348)
T cd03820 195 LLIEAWAKIAKKHPDWKLRIVGDGPERE-ALEALIKELGLEDRV-ILLG-F-TKNIEEYYAKASIFVLTSRFEGFPMVLL 270 (348)
T ss_pred HHHHHHHHHHhcCCCeEEEEEeCCCCHH-HHHHHHHHcCCCCeE-EEcC-C-cchHHHHHHhCCEEEeCccccccCHHHH
Confidence 3444444443322234566777655433 344445554432111 2333 2 334445556677766554221 157899
Q ss_pred HhhhcCCCEEEE
Q psy16262 136 EAAYVNIPVIAF 147 (222)
Q Consensus 136 Ea~~l~IP~Ial 147 (222)
||...|.|+|+-
T Consensus 271 Ea~a~G~Pvi~~ 282 (348)
T cd03820 271 EAMAFGLPVISF 282 (348)
T ss_pred HHHHcCCCEEEe
Confidence 999999999974
No 190
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=35.15 E-value=79 Score=27.55 Aligned_cols=32 Identities=13% Similarity=0.200 Sum_probs=23.2
Q ss_pred CCcEEEEe--CCCCCchhhhHhhhcCCCEEEEec
Q psy16262 118 EPRLLVVT--DPHTDHQPITEAAYVNIPVIAFCN 149 (222)
Q Consensus 118 ~P~lvii~--dp~~d~~aI~Ea~~l~IP~IalvD 149 (222)
-.++||.. |+.-|..+-++|...++++....|
T Consensus 85 g~~LViaATdD~~vN~~I~~~a~~~~~lvn~vd~ 118 (223)
T PRK05562 85 DKHLIVIATDDEKLNNKIRKHCDRLYKLYIDCSD 118 (223)
T ss_pred CCcEEEECCCCHHHHHHHHHHHHHcCCeEEEcCC
Confidence 35666665 456678889999999998876544
No 191
>cd01147 HemV-2 Metal binding protein HemV-2. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=35.03 E-value=53 Score=27.76 Aligned_cols=35 Identities=14% Similarity=0.229 Sum_probs=22.7
Q ss_pred hccCCcEEEEeCCCCCchhhhHhhh-cCCCEEEEec
Q psy16262 115 AFREPRLLVVTDPHTDHQPITEAAY-VNIPVIAFCN 149 (222)
Q Consensus 115 ~~~~P~lvii~dp~~d~~aI~Ea~~-l~IP~IalvD 149 (222)
..-.||+||..+.........+... +|||++.+-.
T Consensus 71 ~~l~PDLIi~~~~~~~~~~~~~l~~~~gipvv~~~~ 106 (262)
T cd01147 71 AALKPDVVIDVGSDDPTSIADDLQKKTGIPVVVLDG 106 (262)
T ss_pred HhcCCCEEEEecCCccchhHHHHHHhhCCCEEEEec
Confidence 3457999998765433223444444 8999998853
No 192
>PF00534 Glycos_transf_1: Glycosyl transferases group 1; InterPro: IPR001296 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Proteins containign this domain transfer UDP, ADP, GDP or CMP linked sugars to a variety of substrates, including glycogen, fructose-6-phosphate and lipopolysaccharides. The bacterial enzymes are involved in various biosynthetic processes that include exopolysaccharide biosynthesis, lipopolysaccharide core biosynthesis and the biosynthesis of the slime polysaccaride colanic acid. Mutations in this domain of the human N-acetylglucosaminyl-phosphatidylinositol biosynthetic protein are the cause of paroxysmal nocturnal hemoglobinuria (PNH), an acquired hemolytic blood disorder characterised by venous thrombosis, erythrocyte hemolysis, infections and defective hematopoiesis.; GO: 0009058 biosynthetic process; PDB: 2L7C_A 2IV3_B 2IUY_B 2XA9_A 2XA1_B 2X6R_A 2XMP_B 2XA2_B 2X6Q_A 3QHP_B ....
Probab=34.89 E-value=1.2e+02 Score=23.56 Aligned_cols=92 Identities=11% Similarity=0.084 Sum_probs=52.1
Q ss_pred HHHHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCC-CCch
Q psy16262 55 WEKLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPH-TDHQ 132 (222)
Q Consensus 55 ~~~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~-~d~~ 132 (222)
...+..|+..+.. ....-.++++|...... .++..++..+.. -.-+|++..-.+.+...++.-|+++..... .-..
T Consensus 30 ~~~li~a~~~l~~~~~~~~~l~i~G~~~~~~-~~~~~~~~~~~~-~~i~~~~~~~~~~l~~~~~~~di~v~~s~~e~~~~ 107 (172)
T PF00534_consen 30 IDLLIEAFKKLKEKKNPNYKLVIVGDGEYKK-ELKNLIEKLNLK-ENIIFLGYVPDDELDELYKSSDIFVSPSRNEGFGL 107 (172)
T ss_dssp HHHHHHHHHHHHHHHHTTEEEEEESHCCHHH-HHHHHHHHTTCG-TTEEEEESHSHHHHHHHHHHTSEEEE-BSSBSS-H
T ss_pred HHHHHHHHHHHHhhcCCCeEEEEEccccccc-cccccccccccc-ccccccccccccccccccccceecccccccccccc
Confidence 3444455544443 23444566777444433 355555555432 112366555545566777778888887543 2367
Q ss_pred hhhHhhhcCCCEEEEe
Q psy16262 133 PITEAAYVNIPVIAFC 148 (222)
Q Consensus 133 aI~Ea~~l~IP~Ialv 148 (222)
.+-||...|+|+|+--
T Consensus 108 ~~~Ea~~~g~pvI~~~ 123 (172)
T PF00534_consen 108 SLLEAMACGCPVIASD 123 (172)
T ss_dssp HHHHHHHTT-EEEEES
T ss_pred ccccccccccceeecc
Confidence 8999999999999744
No 193
>COG1515 Nfi Deoxyinosine 3'endonuclease (endonuclease V) [DNA replication, recombination, and repair]
Probab=34.70 E-value=37 Score=29.56 Aligned_cols=52 Identities=17% Similarity=0.305 Sum_probs=39.5
Q ss_pred ccCCccchH--------HHhhccCCcEEEEeC-----CCCCchhhhHhhhcCCCEEEEecCCCCC
Q psy16262 103 FTPGAFTNQ--------IQAAFREPRLLVVTD-----PHTDHQPITEAAYVNIPVIAFCNTESPL 154 (222)
Q Consensus 103 W~gG~LTN~--------i~~~~~~P~lvii~d-----p~~d~~aI~Ea~~l~IP~IalvDTd~~~ 154 (222)
++||.|.=. +.++..+||+++|=. |+.-=.|-+.+-.++.||||+.-+----
T Consensus 72 YIPGfLaFRE~p~~l~a~~~l~~~~d~ilVDG~GiaHPR~~GlAsH~Gv~l~~PtIGVAK~~L~g 136 (212)
T COG1515 72 YIPGFLAFRELPLLLKALEKLSVKPDLLLVDGHGIAHPRRLGLASHIGVLLDVPTIGVAKSRLCG 136 (212)
T ss_pred cccchhhhhhhHHHHHHHHhcCCCCCEEEEcCcceecCcccChhheeeeeeCCCceeEehhhhcC
Confidence 678877653 345667899998754 6666789999999999999998764433
No 194
>PF10740 DUF2529: Protein of unknown function (DUF2529); InterPro: IPR019676 This entry represents a protein family conserved in the Bacillales. Their function is not known. ; PDB: 3JX9_A.
Probab=34.37 E-value=1.9e+02 Score=24.39 Aligned_cols=87 Identities=18% Similarity=0.268 Sum_probs=39.9
Q ss_pred HHHHHHHHHHH-hhCCCcEEEEecChhhHHHHHHHHHHcCCc-cccccccCCccchHHHhhccCCcEEEEeCCCCCc-hh
Q psy16262 57 KLLLAARAIVA-IEHPADVFVISSRPIGQRAVLKFASYTGAT-PIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTDH-QP 133 (222)
Q Consensus 57 ~L~~a~~~i~~-i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~-yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d~-~a 133 (222)
.+..||+.++. +-..|+|-+-+.+. .+ .+..+|...... .-..+|.. ..+|+ .-...-|-|+++.|..+. .+
T Consensus 23 ~iedaARlLAQA~vgeG~IYi~G~~E-m~-~v~~~Al~g~E~l~~~k~l~~-~~~~~--~~lt~~DRVllfs~~~~~~e~ 97 (172)
T PF10740_consen 23 SIEDAARLLAQAIVGEGTIYIYGFGE-ME-AVEAEALYGAEPLPSAKRLSE-DLENF--DELTETDRVLLFSPFSTDEEA 97 (172)
T ss_dssp HHHHHHHHHHHHHHTT--EEEEE-GG-GG-GGHHHHHCSTT--TTEEE--T-T----------TT-EEEEEES-S--HHH
T ss_pred hHHHHHHHHHHHHhcCCEEEEEecCh-HH-HHHHHHHcCCCCCchhhcCcc-ccccc--ccccccceEEEEeCCCCCHHH
Confidence 45677888874 55677885555443 22 244444443332 33446662 22221 123467888888876665 44
Q ss_pred hh---HhhhcCCCEEEEe
Q psy16262 134 IT---EAAYVNIPVIAFC 148 (222)
Q Consensus 134 I~---Ea~~l~IP~Ialv 148 (222)
++ .....|||.++++
T Consensus 98 ~~~a~~L~~~gi~~v~Vs 115 (172)
T PF10740_consen 98 VALAKQLIEQGIPFVGVS 115 (172)
T ss_dssp HHHHHHHHHHT--EEEEE
T ss_pred HHHHHHHHHCCCCEEEEE
Confidence 44 4455599999999
No 195
>PLN02347 GMP synthetase
Probab=34.37 E-value=1.4e+02 Score=29.46 Aligned_cols=73 Identities=12% Similarity=0.179 Sum_probs=44.1
Q ss_pred CcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCC-----C-----chhhhHhhhcC
Q psy16262 72 ADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHT-----D-----HQPITEAAYVN 141 (222)
Q Consensus 72 ~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~-----d-----~~aI~Ea~~l~ 141 (222)
.+|+++....+....+.+.-+..|.+...-.|-. . ...+. ...||.||+..-.. + ...++.+...+
T Consensus 11 ~~IlIID~G~~~t~~I~r~lrelgv~~~v~p~~~-~-~~~i~--~~~~dgIILsGGP~sv~~~~~p~~~~~i~~~~~~~~ 86 (536)
T PLN02347 11 DVVLILDYGSQYTHLITRRVRELGVYSLLLSGTA-S-LDRIA--SLNPRVVILSGGPHSVHVEGAPTVPEGFFDYCRERG 86 (536)
T ss_pred CEEEEEECCCcHHHHHHHHHHHCCCeEEEEECCC-C-HHHHh--cCCCCEEEECCCCCcccccCCchhhHHHHHHHHhcC
Confidence 4688898888877777776777777644333331 1 11121 13689999886211 1 12344444568
Q ss_pred CCEEEEe
Q psy16262 142 IPVIAFC 148 (222)
Q Consensus 142 IP~Ialv 148 (222)
+|+.|+|
T Consensus 87 iPILGIC 93 (536)
T PLN02347 87 VPVLGIC 93 (536)
T ss_pred CcEEEEC
Confidence 9999987
No 196
>PF13433 Peripla_BP_5: Periplasmic binding protein domain; PDB: 1QNL_A 1QO0_A 1PEA_A.
Probab=34.19 E-value=1.3e+02 Score=28.34 Aligned_cols=82 Identities=17% Similarity=0.264 Sum_probs=43.9
Q ss_pred CC-CcEEEEecCh----hhHHHHHHHHHHcCCccccccccC-CccchHHH---h-hccCCcEEEEeCC-CCCchhhhHhh
Q psy16262 70 HP-ADVFVISSRP----IGQRAVLKFASYTGATPIAGRFTP-GAFTNQIQ---A-AFREPRLLVVTDP-HTDHQPITEAA 138 (222)
Q Consensus 70 ~~-~~ILfv~t~~----~~~~~v~~~a~~~g~~yv~~rW~g-G~LTN~i~---~-~~~~P~lvii~dp-~~d~~aI~Ea~ 138 (222)
.+ +++.+|++.- ...++++++.+..|..-+.++++| |. |++-. + ....||+|+=+=- ..+..-.++..
T Consensus 132 ~G~~r~~lvGSdYv~pre~Nri~r~~l~~~GgevvgE~Y~plg~-td~~~ii~~I~~~~Pd~V~stlvG~s~~aF~r~~~ 210 (363)
T PF13433_consen 132 FGAKRFYLVGSDYVYPRESNRIIRDLLEARGGEVVGERYLPLGA-TDFDPIIAEIKAAKPDFVFSTLVGDSNVAFYRAYA 210 (363)
T ss_dssp S--SEEEEEEESSHHHHHHHHHHHHHHHHTT-EEEEEEEE-S-H-HHHHHHHHHHHHHT-SEEEEE--TTCHHHHHHHHH
T ss_pred cCCceEEEecCCccchHHHHHHHHHHHHHcCCEEEEEEEecCCc-hhHHHHHHHHHhhCCCEEEEeCcCCcHHHHHHHHH
Confidence 35 7899999995 346777888888888888889887 44 76621 1 2248997765422 22222233333
Q ss_pred hc-----CCCEEEEecCCC
Q psy16262 139 YV-----NIPVIAFCNTES 152 (222)
Q Consensus 139 ~l-----~IP~IalvDTd~ 152 (222)
.. .+|+.++.=|..
T Consensus 211 ~aG~~~~~~Pi~S~~~~E~ 229 (363)
T PF13433_consen 211 AAGLDPERIPIASLSTSEA 229 (363)
T ss_dssp HHH-SSS---EEESS--HH
T ss_pred HcCCCcccCeEEEEecCHH
Confidence 22 478888765543
No 197
>PTZ00394 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=34.02 E-value=94 Score=31.34 Aligned_cols=94 Identities=11% Similarity=0.054 Sum_probs=51.8
Q ss_pred hhCCCcEEEEecChhhH--HHHHHHHHHc-CCccccccccCCccchHHHhhccCCcEEEEeCCCCC----chhhhHhhhc
Q psy16262 68 IEHPADVFVISSRPIGQ--RAVLKFASYT-GATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD----HQPITEAAYV 140 (222)
Q Consensus 68 i~~~~~ILfv~t~~~~~--~~v~~~a~~~-g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l 140 (222)
+++-.+|.|+++..... ...+.+..+. +.... -..+..+... .....+-+++|++...-+ ..|++.|+..
T Consensus 351 l~~a~rI~ivG~GtS~~aa~~ak~~~~kl~~i~v~--v~~asef~~~-~~~~~~~dlvI~ISqSGeT~dtl~Al~~Ak~~ 427 (670)
T PTZ00394 351 ILTSRRILFIACGTSLNSCLAVRPLFEELVPLPIS--VENASDFLDR-RPRIQRDDVCFFVSQSGETADTLMALQLCKEA 427 (670)
T ss_pred HhCCCEEEEEEechHHHHHHHHHHHHHHhcCCCEE--Eeccchhhhh-ccCCCCCCEEEEEECCcCcHHHHHHHHHHHHC
Confidence 34557788888885431 2222233332 22210 1112222111 112234578887764333 5688999999
Q ss_pred CCCEEEEecCCCCC--CcceEEccCC
Q psy16262 141 NIPVIAFCNTESPL--RFVDIAIPCN 164 (222)
Q Consensus 141 ~IP~IalvDTd~~~--~~IdypIP~N 164 (222)
|.|+|+|++...++ +..|+.|+.+
T Consensus 428 Ga~tIaITn~~~S~La~~AD~~l~~~ 453 (670)
T PTZ00394 428 GAMCVGITNVVGSSISRLTHYAIHLN 453 (670)
T ss_pred CCcEEEEECCCCCHHHHhcCeEEEec
Confidence 99999999875554 4567776643
No 198
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=33.62 E-value=33 Score=31.65 Aligned_cols=22 Identities=23% Similarity=0.415 Sum_probs=19.0
Q ss_pred chhhhHhhhcCCCEEEEecCCC
Q psy16262 131 HQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
...++-|.+.++|+|.|+||--
T Consensus 141 ~R~m~lA~~f~lPIVtlvDTpG 162 (319)
T PRK05724 141 LRLMKMAEKFGLPIITFIDTPG 162 (319)
T ss_pred HHHHHHHHHcCCCEEEEEeCCC
Confidence 4678889999999999999944
No 199
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=33.53 E-value=63 Score=28.94 Aligned_cols=37 Identities=19% Similarity=0.343 Sum_probs=26.9
Q ss_pred ccCCcEEEEeCCCCC---chhhhHhh-hcCCCEEEEecCCC
Q psy16262 116 FREPRLLVVTDPHTD---HQPITEAA-YVNIPVIAFCNTES 152 (222)
Q Consensus 116 ~~~P~lvii~dp~~d---~~aI~Ea~-~l~IP~IalvDTd~ 152 (222)
.+.||++|++.|+.- ...-||.. ..|||+|-|-|.-+
T Consensus 58 ~~~pDf~i~isPN~a~PGP~~ARE~l~~~~iP~IvI~D~p~ 98 (277)
T PRK00994 58 EWKPDFVIVISPNPAAPGPKKAREILKAAGIPCIVIGDAPG 98 (277)
T ss_pred hhCCCEEEEECCCCCCCCchHHHHHHHhcCCCEEEEcCCCc
Confidence 368999999998743 33445543 46999999998754
No 200
>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=33.47 E-value=2.3e+02 Score=23.32 Aligned_cols=32 Identities=13% Similarity=0.117 Sum_probs=17.6
Q ss_pred CcEEEEeCCCCCchhhhHhhhcCC------CEEEEecC
Q psy16262 119 PRLLVVTDPHTDHQPITEAAYVNI------PVIAFCNT 150 (222)
Q Consensus 119 P~lvii~dp~~d~~aI~Ea~~l~I------P~IalvDT 150 (222)
|+.|++.+...-.-+++.+...|+ .++|+-|+
T Consensus 174 ~~~i~~~~d~~a~g~~~~l~~~g~~vp~di~v~g~d~~ 211 (259)
T cd01542 174 PDAIVCATDTIALGAMKYLQELGRRIPEDISVAGFGGY 211 (259)
T ss_pred CCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEecCCc
Confidence 899998874322334444444443 35665444
No 201
>PRK01021 lpxB lipid-A-disaccharide synthase; Reviewed
Probab=33.36 E-value=45 Score=33.42 Aligned_cols=32 Identities=16% Similarity=0.334 Sum_probs=28.0
Q ss_pred cCCcEEEEeC-CCCCchhhhHhhhcCC--CEEEEe
Q psy16262 117 REPRLLVVTD-PHTDHQPITEAAYVNI--PVIAFC 148 (222)
Q Consensus 117 ~~P~lvii~d-p~~d~~aI~Ea~~l~I--P~Ialv 148 (222)
..||++|++| |.=|....+.+++.|| |+|=.+
T Consensus 309 ~kPD~vIlID~PgFNlrLAK~lkk~Gi~ipviyYV 343 (608)
T PRK01021 309 TNPRTVICIDFPDFHFLLIKKLRKRGYKGKIVHYV 343 (608)
T ss_pred cCCCEEEEeCCCCCCHHHHHHHHhcCCCCCEEEEE
Confidence 5899999999 7888899999999996 988655
No 202
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=33.29 E-value=1.2e+02 Score=20.90 Aligned_cols=36 Identities=19% Similarity=0.115 Sum_probs=27.1
Q ss_pred HHHhhCCCcEEEEecChhhHHHHHHHHHHcCCcccc
Q psy16262 65 IVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIA 100 (222)
Q Consensus 65 i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~ 100 (222)
+..+..+..+.++.+.+.+..-|.++|+..|..++.
T Consensus 20 l~~l~~G~~l~V~~d~~~s~~ni~~~~~~~g~~v~~ 55 (69)
T cd03422 20 LPSLKPGEILEVISDCPQSINNIPIDARNHGYKVLA 55 (69)
T ss_pred HHcCCCCCEEEEEecCchHHHHHHHHHHHcCCEEEE
Confidence 434445555678888888888899999999988753
No 203
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=33.01 E-value=46 Score=22.48 Aligned_cols=22 Identities=14% Similarity=0.246 Sum_probs=19.8
Q ss_pred chhhhHhhhcCCCEEEEecCCC
Q psy16262 131 HQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
...++.|...|+..+|+.|.++
T Consensus 18 ~~~~~~a~~~g~~~v~iTDh~~ 39 (67)
T smart00481 18 EELVKRAKELGLKAIAITDHGN 39 (67)
T ss_pred HHHHHHHHHcCCCEEEEeeCCc
Confidence 5789999999999999999973
No 204
>cd01143 YvrC Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains.
Probab=32.66 E-value=53 Score=26.34 Aligned_cols=31 Identities=19% Similarity=0.359 Sum_probs=22.4
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEE
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~Ial 147 (222)
.-.||+||..... .........+.|||++.+
T Consensus 58 ~l~PDlii~~~~~-~~~~~~~l~~~gi~v~~~ 88 (195)
T cd01143 58 ALKPDLVIVSSSS-LAELLEKLKDAGIPVVVL 88 (195)
T ss_pred ccCCCEEEEcCCc-CHHHHHHHHHcCCcEEEe
Confidence 3579999875533 334677788899998765
No 205
>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []. It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.
Probab=32.55 E-value=55 Score=24.15 Aligned_cols=33 Identities=21% Similarity=0.353 Sum_probs=22.4
Q ss_pred CCcEEEEeCCCCC-----chhhhHhhhcCCCEEEEecC
Q psy16262 118 EPRLLVVTDPHTD-----HQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 118 ~P~lvii~dp~~d-----~~aI~Ea~~l~IP~IalvDT 150 (222)
....|+|+.|++= +.++.=++++++|++|++--
T Consensus 25 ~~g~ivVTTPq~la~~dv~r~~~~~~~~~vpilGvVEN 62 (81)
T PF10609_consen 25 IDGAIVVTTPQELALADVRRAIDMFRKLNVPILGVVEN 62 (81)
T ss_dssp -SEEEEEE-CCC--HHHHHHHHHHHHCTT-EEEEEEEC
T ss_pred CCeEEEEeCCHHHHHHHHHHHHHHHHhcCCCcEEEEEC
Confidence 4557788877654 45677788999999999864
No 206
>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=32.39 E-value=76 Score=27.35 Aligned_cols=35 Identities=11% Similarity=0.247 Sum_probs=25.1
Q ss_pred ccCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecCC
Q psy16262 116 FREPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 116 ~~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd 151 (222)
.+.+|.|++.....+ ..+++++...+||+|.+ |++
T Consensus 54 ~~~vdgiIi~~~~~~~~~~~l~~~~~~giPvV~~-~~~ 90 (302)
T TIGR02637 54 AQKVDAIAISANDPDALVPALKKAMKRGIKVVTW-DSG 90 (302)
T ss_pred HcCCCEEEEeCCChHHHHHHHHHHHHCCCEEEEe-CCC
Confidence 357999998754322 34588889999999976 443
No 207
>PRK13181 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=32.38 E-value=1.8e+02 Score=24.10 Aligned_cols=34 Identities=12% Similarity=0.219 Sum_probs=23.4
Q ss_pred cCCcEEEEeCCCC------------CchhhhHhhhcCCCEEEEecC
Q psy16262 117 REPRLLVVTDPHT------------DHQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 117 ~~P~lvii~dp~~------------d~~aI~Ea~~l~IP~IalvDT 150 (222)
..+|.||+-.+.. -..+++++...++|+.|+|=-
T Consensus 36 ~~~d~lilpG~g~~~~~~~~l~~~~~~~~i~~~~~~~~PvlGiC~G 81 (199)
T PRK13181 36 AGADKVILPGVGAFGQAMRSLRESGLDEALKEHVEKKQPVLGICLG 81 (199)
T ss_pred ccCCEEEECCCCCHHHHHHHHHHCChHHHHHHHHHCCCCEEEECHh
Confidence 4577777655322 135677777889999999964
No 208
>CHL00198 accA acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional
Probab=32.15 E-value=36 Score=31.45 Aligned_cols=22 Identities=18% Similarity=0.428 Sum_probs=18.9
Q ss_pred chhhhHhhhcCCCEEEEecCCC
Q psy16262 131 HQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
..+++-|.+.++|+|.|+||--
T Consensus 144 ~Rlm~lA~~f~lPIItlvDTpG 165 (322)
T CHL00198 144 LRLMKHANKFGLPILTFIDTPG 165 (322)
T ss_pred HHHHHHHHHcCCCEEEEEeCCC
Confidence 4678889999999999999944
No 209
>PF08795 DUF1796: Putative papain-like cysteine peptidase (DUF1796); InterPro: IPR014903 The proteins in this entry are uncharacterised; but are related to papain-like cysteine peptidases.
Probab=31.85 E-value=2.8e+02 Score=22.60 Aligned_cols=78 Identities=17% Similarity=0.196 Sum_probs=45.0
Q ss_pred CCCCcccccCCHHHHHHHHHcCceecCC--cC-----------CCcccccceeeccCC-ceeeeH--H------HHHHHH
Q psy16262 1 MSGGLDILSLKEDDVTKMLGAQTHIGSE--NS-----------DYQMEQYVYKRRNDG-VHILNL--R------RTWEKL 58 (222)
Q Consensus 1 ~~~~~~~~~~~~~~~~~ll~a~~HlG~~--~~-----------np~M~~yIyg~r~ng-i~IInL--~------~T~~~L 58 (222)
.|+|+|.+.-+-..+.++++.+.-=.-. .. ......+++..+..| ....|. . ...+++
T Consensus 25 ~s~PfDW~~ssl~~V~~ll~n~F~~f~~~~~l~~~~~~~~~~~~~~~~~~~~~d~~y~~~~~hdf~~~~~~~d~~~~~k~ 104 (167)
T PF08795_consen 25 FSGPFDWMFSSLSDVNDLLENRFAGFMDPENLKYSPESFRPFPDEPVSRHIVRDKRYGIIFHHDFHDPNPEEDPEFKEKY 104 (167)
T ss_pred CCCCceeccCCHHHHHHHHHhccchhcChhhccccccccccccccccceEEEEecCcCceEEeecCCCCCccCHHHHHHH
Confidence 3789999988889999999998432221 11 112334444433233 233344 1 222333
Q ss_pred -HHHHHHHHHhhCCCcEEEEe
Q psy16262 59 -LLAARAIVAIEHPADVFVIS 78 (222)
Q Consensus 59 -~~a~~~i~~i~~~~~ILfv~ 78 (222)
++..+++..++...+||||-
T Consensus 105 ~rRi~Rf~~~l~~~~~ilFvr 125 (167)
T PF08795_consen 105 DRRIDRFLKKLESSKRILFVR 125 (167)
T ss_pred HHHHHHHHHHHhCCCcEEEEE
Confidence 33445555577788999999
No 210
>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=31.83 E-value=1.8e+02 Score=24.04 Aligned_cols=58 Identities=19% Similarity=0.156 Sum_probs=30.9
Q ss_pred cCCcEEEEeCCCCCchhhhHh-hhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEA-AYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLL 178 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea-~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL 178 (222)
+.+|.|++.....+...+... ...+||+|.+ |.+.+....++.- .|...+.......|
T Consensus 54 ~~vdgiii~~~~~~~~~~~~l~~~~~ipvV~i-~~~~~~~~~~~V~---~d~~~~~~~~~~~l 112 (269)
T cd06275 54 KRVDGLLVMCSEYDQPLLAMLERYRHIPMVVM-DWGPEDDFADKIQ---DNSEEGGYLATRHL 112 (269)
T ss_pred cCCCEEEEecCCCChHHHHHHHhcCCCCEEEE-ecccCCCCCCeEe---eCcHHHHHHHHHHH
Confidence 579999998755443332332 2359999965 5544322344432 23444444444444
No 211
>PRK12362 germination protease; Provisional
Probab=31.49 E-value=50 Score=30.48 Aligned_cols=44 Identities=30% Similarity=0.364 Sum_probs=31.6
Q ss_pred ccCCcEEEEeCC--------------------------CCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCC
Q psy16262 116 FREPRLLVVTDP--------------------------HTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCN 164 (222)
Q Consensus 116 ~~~P~lvii~dp--------------------------~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~N 164 (222)
...||+||.+|. .+++..|.| ..+|+|+||+-= |.-||-+.-+|
T Consensus 170 k~kpd~IIAIDALaar~~~Rl~~tIQisdtGI~PGSGVGN~R~~l~~-etLGVPVIAIGV----PTVVdAatI~~ 239 (318)
T PRK12362 170 KIKPDLVIAIDALAARSVERVNTTIQISDTGISPGSGVGNKRMGINE-ETLGVPVIAIGV----PTVVDAATIAN 239 (318)
T ss_pred hcCCCEEEEEeccccCCHHHccCeEEECCCCCCCCccCCCcccccCH-HHcCCCEEEEcC----CeeechHHHHH
Confidence 458999999984 245778887 567999999852 44566666666
No 212
>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=31.39 E-value=2.3e+02 Score=22.91 Aligned_cols=33 Identities=15% Similarity=0.173 Sum_probs=25.1
Q ss_pred cCCcEEEEeCCCCCch-hhhHhhhcCCCEEEEec
Q psy16262 117 REPRLLVVTDPHTDHQ-PITEAAYVNIPVIAFCN 149 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~-aI~Ea~~l~IP~IalvD 149 (222)
+.+|.+|+.....+.. .+.++...++|+|.+-.
T Consensus 54 ~~~d~ii~~~~~~~~~~~~~~l~~~~ip~v~~~~ 87 (264)
T cd01537 54 RGVDGIIIAPSDLTAPTIVKLARKAGIPVVLVDR 87 (264)
T ss_pred cCCCEEEEecCCCcchhHHHHhhhcCCCEEEecc
Confidence 5799999887554443 38898899999999743
No 213
>PRK13170 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=30.93 E-value=2e+02 Score=23.91 Aligned_cols=15 Identities=27% Similarity=0.516 Sum_probs=10.6
Q ss_pred hhHhhhcCCCEEEEe
Q psy16262 134 ITEAAYVNIPVIAFC 148 (222)
Q Consensus 134 I~Ea~~l~IP~Ialv 148 (222)
++.+...++|+.|+|
T Consensus 63 ~~~i~~~~~PilGIC 77 (196)
T PRK13170 63 IDLIKACTQPVLGIC 77 (196)
T ss_pred HHHHHHcCCCEEEEC
Confidence 444455689999987
No 214
>TIGR00513 accA acetyl-CoA carboxylase, carboxyl transferase, alpha subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the alpha chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=30.92 E-value=38 Score=31.15 Aligned_cols=22 Identities=23% Similarity=0.421 Sum_probs=19.0
Q ss_pred chhhhHhhhcCCCEEEEecCCC
Q psy16262 131 HQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
...++-|.+.|+|+|.|+||--
T Consensus 141 ~R~m~lA~~f~iPvVtlvDTpG 162 (316)
T TIGR00513 141 LRLMKMAERFKMPIITFIDTPG 162 (316)
T ss_pred HHHHHHHHHcCCCEEEEEECCC
Confidence 4578889999999999999954
No 215
>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1.5.99.9 from EC. The enzyme requires coenzyme F420 [].; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis, 0055114 oxidation-reduction process; PDB: 1U6I_D 3IQF_G 1QV9_C 3IQE_F 1U6J_G 3IQZ_D 1U6K_B.
Probab=30.61 E-value=62 Score=29.01 Aligned_cols=35 Identities=20% Similarity=0.405 Sum_probs=22.7
Q ss_pred cCCcEEEEeCCCCCch---hhhHhh-hcCCCEEEEecCC
Q psy16262 117 REPRLLVVTDPHTDHQ---PITEAA-YVNIPVIAFCNTE 151 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~---aI~Ea~-~l~IP~IalvDTd 151 (222)
+.||++|++.|+.-.- .-||.. ..+||+|-|-|.-
T Consensus 58 ~~pdf~I~isPN~~~PGP~~ARE~l~~~~iP~IvI~D~p 96 (276)
T PF01993_consen 58 WDPDFVIVISPNAAAPGPTKAREMLSAKGIPCIVISDAP 96 (276)
T ss_dssp H--SEEEEE-S-TTSHHHHHHHHHHHHSSS-EEEEEEGG
T ss_pred hCCCEEEEECCCCCCCCcHHHHHHHHhCCCCEEEEcCCC
Confidence 5799999999987643 456654 4699999999963
No 216
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=30.59 E-value=1.3e+02 Score=21.59 Aligned_cols=36 Identities=14% Similarity=0.366 Sum_probs=28.2
Q ss_pred HHHhhCCCcEEEEecChhhHHHHHHHHHHcCCcccc
Q psy16262 65 IVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIA 100 (222)
Q Consensus 65 i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~ 100 (222)
+..+..++.+.++.+.+.+.+-+..+|+..|..++.
T Consensus 30 l~~l~~G~~l~V~~dd~~~~~di~~~~~~~G~~~~~ 65 (81)
T PRK00299 30 VRNMQPGETLLIIADDPATTRDIPSFCRFMDHELLA 65 (81)
T ss_pred HHcCCCCCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 444555666778888888888999999999988764
No 217
>cd03801 GT1_YqgM_like This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold.
Probab=30.42 E-value=3.1e+02 Score=22.65 Aligned_cols=74 Identities=16% Similarity=0.237 Sum_probs=40.8
Q ss_pred CcEEEEecChhhHHHHHHHHHHcCCccccccccCCccc-hHHHhhccCCcEEEEeCCC-CCchhhhHhhhcCCCEEEEe
Q psy16262 72 ADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFT-NQIQAAFREPRLLVVTDPH-TDHQPITEAAYVNIPVIAFC 148 (222)
Q Consensus 72 ~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LT-N~i~~~~~~P~lvii~dp~-~d~~aI~Ea~~l~IP~Ialv 148 (222)
-++.+++..... ..+++.++..+..--. .|. |.++ ..+......-|+++..... .-...+-||...|.|+|+--
T Consensus 231 ~~l~i~G~~~~~-~~~~~~~~~~~~~~~v-~~~-g~~~~~~~~~~~~~~di~i~~~~~~~~~~~~~Ea~~~g~pvI~~~ 306 (374)
T cd03801 231 VRLVIVGDGPLR-EELEALAAELGLGDRV-TFL-GFVPDEDLPALYAAADVFVLPSLYEGFGLVLLEAMAAGLPVVASD 306 (374)
T ss_pred eEEEEEeCcHHH-HHHHHHHHHhCCCcce-EEE-eccChhhHHHHHHhcCEEEecchhccccchHHHHHHcCCcEEEeC
Confidence 456677744443 3344555444332100 133 3333 3344455667777655432 22567999999999999743
No 218
>cd04951 GT1_WbdM_like This family is most closely related to the GT1 family of glycosyltransferases and is named after WbdM in Escherichia coli. In general glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have
Probab=30.35 E-value=3.4e+02 Score=23.17 Aligned_cols=94 Identities=16% Similarity=0.230 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCC-CCchhh
Q psy16262 56 EKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPH-TDHQPI 134 (222)
Q Consensus 56 ~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~-~d~~aI 134 (222)
..+.+|+..+..-..+-++++++..+... .+++.++..+... +=.+. |.. ..+......-|++++..-. .-...+
T Consensus 204 ~~li~a~~~l~~~~~~~~l~i~G~g~~~~-~~~~~~~~~~~~~-~v~~~-g~~-~~~~~~~~~ad~~v~~s~~e~~~~~~ 279 (360)
T cd04951 204 PNLLKAFAKLLSDYLDIKLLIAGDGPLRA-TLERLIKALGLSN-RVKLL-GLR-DDIAAYYNAADLFVLSSAWEGFGLVV 279 (360)
T ss_pred HHHHHHHHHHHhhCCCeEEEEEcCCCcHH-HHHHHHHhcCCCC-cEEEe-ccc-ccHHHHHHhhceEEecccccCCChHH
Confidence 33444444333211234667777666543 3455555544321 01233 332 2334455666775554321 115678
Q ss_pred hHhhhcCCCEEEEecCCCCC
Q psy16262 135 TEAAYVNIPVIAFCNTESPL 154 (222)
Q Consensus 135 ~Ea~~l~IP~IalvDTd~~~ 154 (222)
-||...|.|+|+ .|.....
T Consensus 280 ~Ea~a~G~PvI~-~~~~~~~ 298 (360)
T cd04951 280 AEAMACELPVVA-TDAGGVR 298 (360)
T ss_pred HHHHHcCCCEEE-ecCCChh
Confidence 899999999997 4443333
No 219
>TIGR02149 glgA_Coryne glycogen synthase, Corynebacterium family. This model describes Corynebacterium glutamicum GlgA and closely related proteins in several other species. This enzyme is required for glycogen biosynthesis and appears to replace the distantly related TIGR02095 family of ADP-glucose type glycogen synthase in Corynebacterium glutamicum, Mycobacterium tuberculosis, Bifidobacterium longum, and Streptomyces coelicolor.
Probab=30.15 E-value=3.8e+02 Score=23.55 Aligned_cols=46 Identities=13% Similarity=0.093 Sum_probs=31.6
Q ss_pred cccCCccchH-HHhhccCCcEEEEeCCC-CCchhhhHhhhcCCCEEEE
Q psy16262 102 RFTPGAFTNQ-IQAAFREPRLLVVTDPH-TDHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 102 rW~gG~LTN~-i~~~~~~P~lvii~dp~-~d~~aI~Ea~~l~IP~Ial 147 (222)
.|.+|.+... +......-|++++.... .--.++-||...|.|+|+-
T Consensus 263 ~~~~~~~~~~~~~~~~~~aDv~v~ps~~e~~g~~~lEA~a~G~PvI~s 310 (388)
T TIGR02149 263 IWINKMLPKEELVELLSNAEVFVCPSIYEPLGIVNLEAMACGTPVVAS 310 (388)
T ss_pred EEecCCCCHHHHHHHHHhCCEEEeCCccCCCChHHHHHHHcCCCEEEe
Confidence 3677766653 44556678887765432 2256779999999999983
No 220
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=30.03 E-value=2.3e+02 Score=21.46 Aligned_cols=80 Identities=8% Similarity=0.086 Sum_probs=43.2
Q ss_pred HHHHhh-CCCcEEEEecChhhHHHHHHHHHHcCCc-cccccccCCccch----------HHHhhccCCcEEEEeCCCCCc
Q psy16262 64 AIVAIE-HPADVFVISSRPIGQRAVLKFASYTGAT-PIAGRFTPGAFTN----------QIQAAFREPRLLVVTDPHTDH 131 (222)
Q Consensus 64 ~i~~i~-~~~~ILfv~t~~~~~~~v~~~a~~~g~~-yv~~rW~gG~LTN----------~i~~~~~~P~lvii~dp~~d~ 131 (222)
++..++ ++..+.++++... ..+....+..|.. ++..-+..+...- -++++.-.|+-+++++-..
T Consensus 85 ~L~~l~~~~~~~~i~Sn~~~--~~~~~~l~~~~~~~~f~~i~~~~~~~~~Kp~~~~~~~~~~~~~~~p~~~~~vgD~~-- 160 (176)
T PF13419_consen 85 LLERLKAKGIPLVIVSNGSR--ERIERVLERLGLDDYFDEIISSDDVGSRKPDPDAYRRALEKLGIPPEEILFVGDSP-- 160 (176)
T ss_dssp HHHHHHHTTSEEEEEESSEH--HHHHHHHHHTTHGGGCSEEEEGGGSSSSTTSHHHHHHHHHHHTSSGGGEEEEESSH--
T ss_pred hhhhcccccceeEEeecCCc--ccccccccccccccccccccccchhhhhhhHHHHHHHHHHHcCCCcceEEEEeCCH--
Confidence 333444 4556666666643 3455566666654 2221121111110 0223334676666666433
Q ss_pred hhhhHhhhcCCCEEEE
Q psy16262 132 QPITEAAYVNIPVIAF 147 (222)
Q Consensus 132 ~aI~Ea~~l~IP~Ial 147 (222)
.-++.|+..|+++|.+
T Consensus 161 ~d~~~A~~~G~~~i~v 176 (176)
T PF13419_consen 161 SDVEAAKEAGIKTIWV 176 (176)
T ss_dssp HHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHcCCeEEeC
Confidence 7888899999999875
No 221
>PRK00074 guaA GMP synthase; Reviewed
Probab=29.82 E-value=2.1e+02 Score=27.77 Aligned_cols=75 Identities=11% Similarity=0.198 Sum_probs=46.7
Q ss_pred CCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCC------CchhhhHhhhcCCCE
Q psy16262 71 PADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHT------DHQPITEAAYVNIPV 144 (222)
Q Consensus 71 ~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~------d~~aI~Ea~~l~IP~ 144 (222)
..+|+++....+....+.+..++.|.+...-.|-. .. ..+.+ ..||.||+..-.. .....++....++|+
T Consensus 3 ~~~i~vlD~Gsq~~~li~r~lrelg~~~~v~p~~~-~~-~~l~~--~~~dgIIlsGGp~sv~~~~~p~~~~~i~~~~~Pv 78 (511)
T PRK00074 3 HDKILILDFGSQYTQLIARRVRELGVYSEIVPYDI-SA-EEIRA--FNPKGIILSGGPASVYEEGAPRADPEIFELGVPV 78 (511)
T ss_pred CCEEEEEECCCCcHHHHHHHHHHCCCeEEEEECCC-CH-HHHhc--cCCCEEEECCCCcccccCCCccccHHHHhCCCCE
Confidence 35688888888887778877777887643322221 11 11222 2688888886321 123446667779999
Q ss_pred EEEec
Q psy16262 145 IAFCN 149 (222)
Q Consensus 145 IalvD 149 (222)
.|+|=
T Consensus 79 LGIC~ 83 (511)
T PRK00074 79 LGICY 83 (511)
T ss_pred EEECH
Confidence 99874
No 222
>CHL00197 carA carbamoyl-phosphate synthase arginine-specific small subunit; Provisional
Probab=29.66 E-value=2.6e+02 Score=26.34 Aligned_cols=72 Identities=17% Similarity=0.209 Sum_probs=38.4
Q ss_pred CcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCCC----c---hhhhHhhhcCCCE
Q psy16262 72 ADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD----H---QPITEAAYVNIPV 144 (222)
Q Consensus 72 ~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d----~---~aI~Ea~~l~IP~ 144 (222)
.+|+++...-. .-+.+..++.|+..+.-.|- .+ .-.-....||.||+.+-..+ . ..++++...++|+
T Consensus 193 ~~I~viD~g~k--~ni~~~L~~~G~~v~vvp~~---~~-~~~i~~~~~dgIilSgGPg~p~~~~~~i~~i~~~~~~~~Pi 266 (382)
T CHL00197 193 LKIIVIDFGVK--YNILRRLKSFGCSITVVPAT---SP-YQDILSYQPDGILLSNGPGDPSAIHYGIKTVKKLLKYNIPI 266 (382)
T ss_pred CEEEEEECCcH--HHHHHHHHHCCCeEEEEcCC---CC-HHHHhccCCCEEEEcCCCCChhHHHHHHHHHHHHHhCCCCE
Confidence 46888877433 23444555556653322331 11 11111236999999863222 1 1344444458999
Q ss_pred EEEec
Q psy16262 145 IAFCN 149 (222)
Q Consensus 145 IalvD 149 (222)
+|+|=
T Consensus 267 lGICl 271 (382)
T CHL00197 267 FGICM 271 (382)
T ss_pred EEEcH
Confidence 99983
No 223
>PF01976 DUF116: Protein of unknown function DUF116; InterPro: IPR002829 These archaeal and bacterial proteins have no known function. Members of this family contain seven conserved cysteines and may also be an integral membrane protein.
Probab=29.47 E-value=1.1e+02 Score=25.11 Aligned_cols=65 Identities=18% Similarity=0.172 Sum_probs=46.2
Q ss_pred HHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCCC-chhhhHhhhcCCCEEEEecCCCC
Q psy16262 86 AVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD-HQPITEAAYVNIPVIAFCNTESP 153 (222)
Q Consensus 86 ~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d-~~aI~Ea~~l~IP~IalvDTd~~ 153 (222)
-+.+.|++.|..... -.||++.-.+-+ ...|+.+|=+-...| ...+..+..+|+|+.|+......
T Consensus 77 ~l~~lae~~g~~v~i--~~Ggt~ar~~ik-~~~p~~iigVAC~~dL~~g~~~~~~~~ip~~gV~l~~~g 142 (158)
T PF01976_consen 77 DLKKLAEKYGYKVYI--ATGGTLARKIIK-EYRPKAIIGVACERDLISGIQDLKPLGIPVQGVLLDRPG 142 (158)
T ss_pred HHHHHHHHcCCEEEE--EcChHHHHHHHH-HhCCCEEEEEechHHHHHHHHHHhhcCCCeeEEEeCCCC
Confidence 355677777764211 357877765433 357998888876555 78899999999999999876555
No 224
>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=29.36 E-value=1.3e+02 Score=24.90 Aligned_cols=58 Identities=7% Similarity=-0.030 Sum_probs=33.3
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
+.+|.+++.....+.. .......++|+|.+ |...+...+++..+-| ..+.......|.
T Consensus 55 ~~~dgiii~~~~~~~~-~~~~~~~~ipvv~~-~~~~~~~~~~~v~~d~---~~~~~~a~~~l~ 112 (269)
T cd06288 55 HRVDGIIYATMYHREV-TLPPELLSVPTVLL-NCYDADGALPSVVPDE---EQGGYDATRHLL 112 (269)
T ss_pred cCCCEEEEecCCCChh-HHHHHhcCCCEEEE-ecccCCCCCCeEEEcc---HHHHHHHHHHHH
Confidence 4789999876433322 22334569999998 5544444466666544 344444444443
No 225
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=28.74 E-value=66 Score=25.92 Aligned_cols=32 Identities=25% Similarity=0.516 Sum_probs=24.5
Q ss_pred cCCcEEEEeCCCCCch---hhhHhhhc-CCCEEEEe
Q psy16262 117 REPRLLVVTDPHTDHQ---PITEAAYV-NIPVIAFC 148 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~---aI~Ea~~l-~IP~Ialv 148 (222)
..||+||.+-|..... .+++...+ ++|+++++
T Consensus 88 ~~PD~IIsThp~~~~~~l~~lk~~~~~~~~p~~tvv 123 (169)
T PF06925_consen 88 FQPDLIISTHPFPAQVPLSRLKRRGRLPNIPVVTVV 123 (169)
T ss_pred cCCCEEEECCcchhhhHHHHHHHhhcccCCcEEEEE
Confidence 5899999999875544 35676767 79988776
No 226
>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=28.73 E-value=63 Score=28.11 Aligned_cols=32 Identities=34% Similarity=0.367 Sum_probs=24.3
Q ss_pred ccCCcEEEEeCCCC--CchhhhHhhhcCCCEEEE
Q psy16262 116 FREPRLLVVTDPHT--DHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 116 ~~~P~lvii~dp~~--d~~aI~Ea~~l~IP~Ial 147 (222)
...+|.+++..... ...+++++...|||+|.+
T Consensus 55 ~~~vdgiii~~~~~~~~~~~~~~~~~~giPvV~~ 88 (303)
T cd01539 55 AKGVDLLAVNLVDPTAAQTVINKAKQKNIPVIFF 88 (303)
T ss_pred HcCCCEEEEecCchhhHHHHHHHHHHCCCCEEEe
Confidence 35799998874332 257889999999999976
No 227
>PF11238 DUF3039: Protein of unknown function (DUF3039); InterPro: IPR021400 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=28.49 E-value=41 Score=23.40 Aligned_cols=19 Identities=37% Similarity=0.751 Sum_probs=16.0
Q ss_pred hhhhHhhhcCCCEEEEecC
Q psy16262 132 QPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 132 ~aI~Ea~~l~IP~IalvDT 150 (222)
--|.|+...|.|++|||=-
T Consensus 15 ~kI~esav~G~pVvALCGk 33 (58)
T PF11238_consen 15 DKIAESAVMGTPVVALCGK 33 (58)
T ss_pred hHHHHHHhcCceeEeeeCc
Confidence 4578999999999999954
No 228
>PF04493 Endonuclease_5: Endonuclease V; InterPro: IPR007581 Endonuclease V is specific for single-stranded DNA, for duplex DNA that contains uracil, or that is damaged []. Matrix metalloproteinase-1 (MMP-1) is the major enzyme responsible for collagen 1 digestion. It is induced by exposure to sunlight, but is reduced with treatment of DNA repair enzyme endonuclease V []. This family consequently has potential medical importance []. This endonuclease also appears in bifunctional enzymes, such as the bifunctional methyltransferase/endonuclease in Thermoplasma acidophilum.; GO: 0004519 endonuclease activity, 0006281 DNA repair; PDB: 3GA2_A 2W36_A 3HD0_A 2W35_B 3GOC_B.
Probab=28.22 E-value=1.1e+02 Score=26.39 Aligned_cols=64 Identities=14% Similarity=0.240 Sum_probs=34.9
Q ss_pred ccCCccchH--------HHhhccCCcEEEEeC-----CCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCC
Q psy16262 103 FTPGAFTNQ--------IQAAFREPRLLVVTD-----PHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNK 166 (222)
Q Consensus 103 W~gG~LTN~--------i~~~~~~P~lvii~d-----p~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndd 166 (222)
++||.|-=. +++...+||+++|=. |+.==.|-+-+-.+++||||+.-+----+..++..|.+..
T Consensus 66 YiPG~LafRE~P~~l~~l~~l~~~~dvilvDG~G~~HpR~~GlA~HlGv~l~iPtIGVAK~~l~g~~~~~~~~~~~~ 142 (206)
T PF04493_consen 66 YIPGFLAFRELPCILEALEKLKNKPDVILVDGHGILHPRRFGLASHLGVLLDIPTIGVAKSLLYGDGEEFEEPGRKR 142 (206)
T ss_dssp SSTT-GGGGTHHHHHHHHHTSSS--SCEEEES-SSSSTTS--HHHHHHHHHTS-EEEEESS-TTSTT-EE----SST
T ss_pred ccCCceehhhHHHHHHHHHHhcccCCEEEEeCceeecCCCcChhheeeeccCCCEEEEeCcccccCCcccchhcccc
Confidence 678887664 344557899666543 4444566777888999999999886544444566665543
No 229
>cd03816 GT1_ALG1_like This family is most closely related to the GT1 family of glycosyltransferases. The yeast gene ALG1 has been shown to function as a mannosyltransferase that catalyzes the formation of dolichol pyrophosphate (Dol-PP)-GlcNAc2Man from GDP-Man and Dol-PP-Glc-NAc2, and participates in the formation of the lipid-linked precursor oligosaccharide for N-glycosylation. In humans ALG1 has been associated with the congenital disorders of glycosylation (CDG) designated as subtype CDG-Ik.
Probab=28.18 E-value=4.8e+02 Score=24.01 Aligned_cols=99 Identities=11% Similarity=0.007 Sum_probs=58.0
Q ss_pred HHHHHHHHHHHHHHHHhh-----C-CCcEEEEecChhhHHHHHHHHHHcCCccccccccCCcc-chHHHhhccCCcEEEE
Q psy16262 52 RRTWEKLLLAARAIVAIE-----H-PADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAF-TNQIQAAFREPRLLVV 124 (222)
Q Consensus 52 ~~T~~~L~~a~~~i~~i~-----~-~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~L-TN~i~~~~~~P~lvii 124 (222)
.|-+..|..|+..+.... . .-+++++|..+. .+.+++.++..|.. +-.+.+|.+ .+.+......-|+.+.
T Consensus 244 ~K~~~~li~A~~~l~~~~~~~~~~~~i~l~ivG~G~~-~~~l~~~~~~~~l~--~~~~~~g~~~~~~~~~~l~~aDv~v~ 320 (415)
T cd03816 244 DEDFGILLDALVAYEKSAATGPKLPKLLCIITGKGPL-KEKYLERIKELKLK--KVTIRTPWLSAEDYPKLLASADLGVS 320 (415)
T ss_pred CCCHHHHHHHHHHHHHhhcccccCCCEEEEEEecCcc-HHHHHHHHHHcCCC--cEEEEcCcCCHHHHHHHHHhCCEEEE
Confidence 344455667766665321 1 235567787665 34566677766643 223566654 3445555667788765
Q ss_pred eCCCC----CchhhhHhhhcCCCEEEEecCCCCC
Q psy16262 125 TDPHT----DHQPITEAAYVNIPVIAFCNTESPL 154 (222)
Q Consensus 125 ~dp~~----d~~aI~Ea~~l~IP~IalvDTd~~~ 154 (222)
..+.. -...+-||...|+|+|+ .|.....
T Consensus 321 ~~~~~~~~~~p~~~~Eama~G~PVI~-s~~~~~~ 353 (415)
T cd03816 321 LHTSSSGLDLPMKVVDMFGCGLPVCA-LDFKCID 353 (415)
T ss_pred ccccccccCCcHHHHHHHHcCCCEEE-eCCCCHH
Confidence 43321 14468999999999999 4443333
No 230
>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=28.17 E-value=1.4e+02 Score=25.98 Aligned_cols=45 Identities=13% Similarity=0.124 Sum_probs=31.1
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEc
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAI 161 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypI 161 (222)
+.+|.+|++....+...+++..+.++|+|.+-.....+..+++..
T Consensus 55 ~~vDGiI~~s~~~~~~~l~~~~~~~iPvV~~~~~~~~~~~~~~V~ 99 (279)
T PF00532_consen 55 RRVDGIILASSENDDEELRRLIKSGIPVVLIDRYIDNPEGVPSVY 99 (279)
T ss_dssp TTSSEEEEESSSCTCHHHHHHHHTTSEEEEESS-SCTTCTSCEEE
T ss_pred cCCCEEEEecccCChHHHHHHHHcCCCEEEEEeccCCcccCCEEE
Confidence 568889999777775666666666999987766644443566555
No 231
>PRK06490 glutamine amidotransferase; Provisional
Probab=28.01 E-value=2.2e+02 Score=24.63 Aligned_cols=74 Identities=12% Similarity=0.092 Sum_probs=43.9
Q ss_pred CCcEEEE-ecChhhHHHHHHHHHHcCCcccccc-ccCCccchHHHhhccCCcEEEEeCCC----CC-------chhhhHh
Q psy16262 71 PADVFVI-SSRPIGQRAVLKFASYTGATPIAGR-FTPGAFTNQIQAAFREPRLLVVTDPH----TD-------HQPITEA 137 (222)
Q Consensus 71 ~~~ILfv-~t~~~~~~~v~~~a~~~g~~yv~~r-W~gG~LTN~i~~~~~~P~lvii~dp~----~d-------~~aI~Ea 137 (222)
..+|+++ ......-..+.+..+..|..+-..+ +.++.+-. -....|.+||+.-. .+ ...|++|
T Consensus 7 ~~~vlvi~h~~~~~~g~l~~~l~~~g~~~~v~~~~~~~~~p~----~l~~~dgvii~Ggp~~~~d~~~wi~~~~~~i~~~ 82 (239)
T PRK06490 7 KRPVLIVLHQERSTPGRVGQLLQERGYPLDIRRPRLGDPLPD----TLEDHAGAVIFGGPMSANDPDDFIRREIDWISVP 82 (239)
T ss_pred CceEEEEecCCCCCChHHHHHHHHCCCceEEEeccCCCCCCC----cccccCEEEEECCCCCCCCCchHHHHHHHHHHHH
Confidence 4567776 4444555667777777776544333 22322211 12357888888521 11 3567777
Q ss_pred hhcCCCEEEEe
Q psy16262 138 AYVNIPVIAFC 148 (222)
Q Consensus 138 ~~l~IP~Ialv 148 (222)
...++|++|+|
T Consensus 83 ~~~~~PvLGIC 93 (239)
T PRK06490 83 LKENKPFLGIC 93 (239)
T ss_pred HHCCCCEEEEC
Confidence 88899999998
No 232
>cd01144 BtuF Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=27.94 E-value=80 Score=26.45 Aligned_cols=32 Identities=19% Similarity=0.240 Sum_probs=23.4
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEE
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~Ial 147 (222)
.-.||+||..+...+...+.+.++++||++.+
T Consensus 55 ~l~PDlIi~~~~~~~~~~~~~l~~~gi~v~~~ 86 (245)
T cd01144 55 ALKPDLVIAWDDCNVCAVVDQLRAAGIPVLVS 86 (245)
T ss_pred hCCCCEEEEecCCCHHHHHHHHHHcCCcEEEe
Confidence 45799998765444444477888899998775
No 233
>COG2071 Predicted glutamine amidotransferases [General function prediction only]
Probab=27.88 E-value=37 Score=30.17 Aligned_cols=25 Identities=32% Similarity=0.566 Sum_probs=20.7
Q ss_pred eCCCCC---chhhhHhhhcCCCEEEEec
Q psy16262 125 TDPHTD---HQPITEAAYVNIPVIAFCN 149 (222)
Q Consensus 125 ~dp~~d---~~aI~Ea~~l~IP~IalvD 149 (222)
.||.+| ...|++|...|||+.|||=
T Consensus 88 ~~p~RD~~E~aLi~~ALe~~iPILgICR 115 (243)
T COG2071 88 YDPERDAFELALIRAALERGIPILGICR 115 (243)
T ss_pred CCccccHHHHHHHHHHHHcCCCEEEEcc
Confidence 455555 6799999999999999994
No 234
>PRK13143 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=27.58 E-value=2.5e+02 Score=23.35 Aligned_cols=20 Identities=30% Similarity=0.429 Sum_probs=16.7
Q ss_pred chhhhHhhhcCCCEEEEecC
Q psy16262 131 HQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~IalvDT 150 (222)
...++++...++|+.|+|-.
T Consensus 61 ~~~i~~~~~~~~PilgIC~G 80 (200)
T PRK13143 61 RDVILEAARSGKPFLGICLG 80 (200)
T ss_pred HHHHHHHHHcCCCEEEECHH
Confidence 45688888889999999975
No 235
>PLN02981 glucosamine:fructose-6-phosphate aminotransferase
Probab=27.34 E-value=6.6e+02 Score=25.37 Aligned_cols=92 Identities=10% Similarity=0.046 Sum_probs=50.9
Q ss_pred hhCCCcEEEEecChhhH--HHHHHHHHH-cCCccccccccCCccchHHHhhccCCcEEEEeCCCCC----chhhhHhhhc
Q psy16262 68 IEHPADVFVISSRPIGQ--RAVLKFASY-TGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD----HQPITEAAYV 140 (222)
Q Consensus 68 i~~~~~ILfv~t~~~~~--~~v~~~a~~-~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l 140 (222)
+.+..+|.|+++..... ...+.+..+ .+..... ..+..|.+.. .....-|++|++...-+ ..|++.|+..
T Consensus 360 l~~~~~I~~~G~GsS~~aa~~a~~~l~kl~~i~v~~--~~~sef~~~~-~~~~~~~lvI~ISqSGeT~eti~Al~~Ak~~ 436 (680)
T PLN02981 360 IRRSRRIVFIGCGTSYNAALAARPILEELSGVPVTM--ELASDLLDRQ-GPIYREDTAVFVSQSGETADTLRALEYAKEN 436 (680)
T ss_pred HhcCCEEEEEEecHHHHHHHHHHHHHHHHhCCCEEE--ecchHHHhcc-ccCCCCCeEEEEeCCcCCHHHHHHHHHHHHC
Confidence 35567898988886432 222333333 2333111 1223333221 11223567777764333 6788999999
Q ss_pred CCCEEEEecC-CCCCC-cceEEcc
Q psy16262 141 NIPVIAFCNT-ESPLR-FVDIAIP 162 (222)
Q Consensus 141 ~IP~IalvDT-d~~~~-~IdypIP 162 (222)
|.|+|+|++. ++.+. ..|+.|+
T Consensus 437 Ga~~IaITn~~~S~La~~ad~~i~ 460 (680)
T PLN02981 437 GALCVGITNTVGSAISRGTHCGVH 460 (680)
T ss_pred CCcEEEEECCCCChhHhccCeeEE
Confidence 9999999876 44442 3456544
No 236
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=27.06 E-value=2e+02 Score=25.63 Aligned_cols=32 Identities=28% Similarity=0.313 Sum_probs=25.2
Q ss_pred ccCCcEEEEeCCCCC--chhhhHhhhcCCCEEEE
Q psy16262 116 FREPRLLVVTDPHTD--HQPITEAAYVNIPVIAF 147 (222)
Q Consensus 116 ~~~P~lvii~dp~~d--~~aI~Ea~~l~IP~Ial 147 (222)
.+.+|.+|+.....+ ...++++...++|+|.+
T Consensus 79 ~~~vDGiIi~~~~~~~~~~~l~~~~~~~iPvV~i 112 (330)
T PRK10355 79 NRGVDVLVIIPYNGQVLSNVIKEAKQEGIKVLAY 112 (330)
T ss_pred HcCCCEEEEeCCChhhHHHHHHHHHHCCCeEEEE
Confidence 358999999865433 35688888999999998
No 237
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=26.94 E-value=49 Score=31.78 Aligned_cols=22 Identities=18% Similarity=0.395 Sum_probs=18.9
Q ss_pred chhhhHhhhcCCCEEEEecCCC
Q psy16262 131 HQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
...++-|.+.++|+|.|+||--
T Consensus 211 lR~mklAekf~lPIVtLVDTpG 232 (431)
T PLN03230 211 LRFMRHAEKFGFPILTFVDTPG 232 (431)
T ss_pred HHHHHHHHHcCCCEEEEEeCCC
Confidence 3578889999999999999954
No 238
>TIGR02009 PGMB-YQAB-SF beta-phosphoglucomutase family hydrolase. All of these are members of the larger Haloacid dehalogenase (HAD) subfamily IA and include the "variant 3" glu-asp version of the third conserved HAD domain (TIGR01509).
Probab=26.88 E-value=1.7e+02 Score=23.14 Aligned_cols=29 Identities=17% Similarity=0.134 Sum_probs=19.7
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEE
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~Ial 147 (222)
..|+-.++++-. ..-++.|+..|+++|++
T Consensus 157 ~~~~~~v~IgD~--~~di~aA~~~G~~~i~v 185 (185)
T TIGR02009 157 VSPNECVVFEDA--LAGVQAARAAGMFAVAV 185 (185)
T ss_pred CCHHHeEEEeCc--HhhHHHHHHCCCeEeeC
Confidence 346655555422 46788888899999874
No 239
>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=26.86 E-value=3.5e+02 Score=22.00 Aligned_cols=34 Identities=12% Similarity=0.238 Sum_probs=25.1
Q ss_pred cCCcEEEEeCCCCCc--hhhhHhhhcCCCEEEEecC
Q psy16262 117 REPRLLVVTDPHTDH--QPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 117 ~~P~lvii~dp~~d~--~aI~Ea~~l~IP~IalvDT 150 (222)
+.+|.||+.....+. ..++++...++|+|.+-.+
T Consensus 54 ~~vdgvi~~~~~~~~~~~~~~~l~~~~ip~V~~~~~ 89 (267)
T cd01536 54 QGVDGIIISPVDSAALTPALKKANAAGIPVVTVDSD 89 (267)
T ss_pred cCCCEEEEeCCCchhHHHHHHHHHHCCCcEEEecCC
Confidence 478999887654332 3678889999999998443
No 240
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=26.80 E-value=1.7e+02 Score=20.12 Aligned_cols=46 Identities=15% Similarity=0.374 Sum_probs=30.8
Q ss_pred HHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCcc
Q psy16262 63 RAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAF 108 (222)
Q Consensus 63 ~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~L 108 (222)
..+..+..+..+-++.+.+...+-|.++++..|..++...=-+|.+
T Consensus 18 ~~l~~l~~G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~~~~~~~~ 63 (69)
T cd03423 18 KKVRKMKPGDTLLVLATDPSTTRDIPKFCTFLGHELLAQETEDEPY 63 (69)
T ss_pred HHHHcCCCCCEEEEEeCCCchHHHHHHHHHHcCCEEEEEEEcCCEE
Confidence 3344454555667788888888889999999998876422234544
No 241
>TIGR02918 accessory Sec system glycosylation protein GtfA. Members of this protein family are found only in Gram-positive bacteria of the Firmicutes lineage, including several species of Staphylococcus, Streptococcus, and Lactobacillus. Members are associated with glycosylation of serine-rich glycoproteins exported by the accessory Sec system.
Probab=26.80 E-value=3.1e+02 Score=26.43 Aligned_cols=108 Identities=13% Similarity=0.145 Sum_probs=60.5
Q ss_pred eHHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCc-cccccccCCccchHHHhhccCCcEEEEeCCC
Q psy16262 50 NLRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGAT-PIAGRFTPGAFTNQIQAAFREPRLLVVTDPH 128 (222)
Q Consensus 50 nL~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~-yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~ 128 (222)
..+|=...|.+|+..+..-...-++.++|..+.. +.+++.++..+.. +|. |.| ..+ ....+..-|+++...-.
T Consensus 329 ~~~Kg~~~li~A~~~l~~~~p~~~l~i~G~G~~~-~~l~~~i~~~~l~~~V~--f~G--~~~-~~~~~~~adv~v~pS~~ 402 (500)
T TIGR02918 329 AKEKHIDWLVKAVVKAKKSVPELTFDIYGEGGEK-QKLQKIINENQAQDYIH--LKG--HRN-LSEVYKDYELYLSASTS 402 (500)
T ss_pred ccccCHHHHHHHHHHHHhhCCCeEEEEEECchhH-HHHHHHHHHcCCCCeEE--EcC--CCC-HHHHHHhCCEEEEcCcc
Confidence 3444445555565544422223345678877654 3466666665542 232 443 233 33445566776665533
Q ss_pred CC-chhhhHhhhcCCCEEEEecCC-CCCCcc-----eEEccCC
Q psy16262 129 TD-HQPITEAAYVNIPVIAFCNTE-SPLRFV-----DIAIPCN 164 (222)
Q Consensus 129 ~d-~~aI~Ea~~l~IP~IalvDTd-~~~~~I-----dypIP~N 164 (222)
+. ..++-||...|.|+|+- |.. ..++.| -|.+|.+
T Consensus 403 Egfgl~~lEAma~G~PVI~~-dv~~G~~eiI~~g~nG~lv~~~ 444 (500)
T TIGR02918 403 EGFGLTLMEAVGSGLGMIGF-DVNYGNPTFIEDNKNGYLIPID 444 (500)
T ss_pred ccccHHHHHHHHhCCCEEEe-cCCCCCHHHccCCCCEEEEeCC
Confidence 22 57899999999999993 433 334433 4777743
No 242
>cd03794 GT1_wbuB_like This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase.
Probab=26.64 E-value=3.9e+02 Score=22.49 Aligned_cols=40 Identities=15% Similarity=0.103 Sum_probs=26.6
Q ss_pred HHhhccCCcEEEEeCCCCC------chhhhHhhhcCCCEEEEecCC
Q psy16262 112 IQAAFREPRLLVVTDPHTD------HQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 112 i~~~~~~P~lvii~dp~~d------~~aI~Ea~~l~IP~IalvDTd 151 (222)
+......-|+++....... ...+-||...|+|+|+-=...
T Consensus 288 ~~~~~~~~di~i~~~~~~~~~~~~~p~~~~Ea~~~G~pvi~~~~~~ 333 (394)
T cd03794 288 LPELLAAADVGLVPLKPGPAFEGVSPSKLFEYMAAGKPVLASVDGE 333 (394)
T ss_pred HHHHHHhhCeeEEeccCcccccccCchHHHHHHHCCCcEEEecCCC
Confidence 4445566787776654332 234789999999999964443
No 243
>cd03813 GT1_like_3 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=26.29 E-value=4.6e+02 Score=24.65 Aligned_cols=86 Identities=21% Similarity=0.228 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHhhCCCcEEEEecCh---hhHHHHHHHHHHcCCc-cccccccCCccchHHHhhccCCcEEEEeCCC-CC
Q psy16262 56 EKLLLAARAIVAIEHPADVFVISSRP---IGQRAVLKFASYTGAT-PIAGRFTPGAFTNQIQAAFREPRLLVVTDPH-TD 130 (222)
Q Consensus 56 ~~L~~a~~~i~~i~~~~~ILfv~t~~---~~~~~v~~~a~~~g~~-yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~-~d 130 (222)
..+.+|+..+..-..+-+++++|..+ ...+.+++.++..|.. .| ++.| ...+......-|++++..-. .-
T Consensus 309 ~~li~a~~~l~~~~p~~~l~IvG~g~~~~~~~~e~~~li~~l~l~~~V--~f~G---~~~v~~~l~~aDv~vlpS~~Eg~ 383 (475)
T cd03813 309 KTFIRAAAIVRKKIPDAEGWVIGPTDEDPEYAEECRELVESLGLEDNV--KFTG---FQNVKEYLPKLDVLVLTSISEGQ 383 (475)
T ss_pred HHHHHHHHHHHHhCCCeEEEEECCCCcChHHHHHHHHHHHHhCCCCeE--EEcC---CccHHHHHHhCCEEEeCchhhcC
Confidence 33444544443322334567777653 2234455666666542 11 2444 23344555667777665422 22
Q ss_pred chhhhHhhhcCCCEEE
Q psy16262 131 HQPITEAAYVNIPVIA 146 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~Ia 146 (222)
...+-||...|.|+|+
T Consensus 384 p~~vlEAma~G~PVVa 399 (475)
T cd03813 384 PLVILEAMAAGIPVVA 399 (475)
T ss_pred ChHHHHHHHcCCCEEE
Confidence 5689999999999999
No 244
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=26.27 E-value=2.5e+02 Score=24.29 Aligned_cols=34 Identities=9% Similarity=0.066 Sum_probs=21.0
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhh-cCCCEEEEecC
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAY-VNIPVIAFCNT 150 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~-l~IP~IalvDT 150 (222)
.+..|.+|+.....+......... .++|+|.+ |.
T Consensus 110 ~~~vdGiI~~~~~~~~~~~~~l~~~~~iPvV~i-~~ 144 (327)
T PRK10423 110 QKRVDGLLLLCTETHQPSREIMQRYPSVPTVMM-DW 144 (327)
T ss_pred HcCCCEEEEeCCCcchhhHHHHHhcCCCCEEEE-CC
Confidence 357999999865544333222223 38999887 44
No 245
>PLN02501 digalactosyldiacylglycerol synthase
Probab=26.07 E-value=3.8e+02 Score=27.86 Aligned_cols=93 Identities=10% Similarity=0.047 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCCC
Q psy16262 51 LRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD 130 (222)
Q Consensus 51 L~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d 130 (222)
-+|=+..|..|+..+..-..+-+++++|..+... .+++.+...+.. + .++||. .+ ....+..-|+.+.....+.
T Consensus 557 ~EKGld~LLeAla~L~~~~pnvrLvIVGDGP~re-eLe~la~eLgL~-V--~FLG~~-dd-~~~lyasaDVFVlPS~sEg 630 (794)
T PLN02501 557 WAKGYRELIDLLAKHKNELDGFNLDVFGNGEDAH-EVQRAAKRLDLN-L--NFLKGR-DH-ADDSLHGYKVFINPSISDV 630 (794)
T ss_pred ccCCHHHHHHHHHHHHhhCCCeEEEEEcCCccHH-HHHHHHHHcCCE-E--EecCCC-CC-HHHHHHhCCEEEECCCccc
Confidence 3444555555555443211234677888887654 456667766653 2 356552 21 2234455675555443222
Q ss_pred -chhhhHhhhcCCCEEEEec
Q psy16262 131 -HQPITEAAYVNIPVIAFCN 149 (222)
Q Consensus 131 -~~aI~Ea~~l~IP~IalvD 149 (222)
-.++-||...|+|+|+--.
T Consensus 631 FGlVlLEAMA~GlPVVATd~ 650 (794)
T PLN02501 631 LCTATAEALAMGKFVVCADH 650 (794)
T ss_pred chHHHHHHHHcCCCEEEecC
Confidence 6788999999999999743
No 246
>cd03821 GT1_Bme6_like This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide.
Probab=25.92 E-value=4e+02 Score=22.36 Aligned_cols=75 Identities=17% Similarity=0.181 Sum_probs=40.3
Q ss_pred CCcEEEEecChh-hHHHHHHHHHHcCCccccccccCCccch-HHHhhccCCcEEEEeCCC-CCchhhhHhhhcCCCEEEE
Q psy16262 71 PADVFVISSRPI-GQRAVLKFASYTGATPIAGRFTPGAFTN-QIQAAFREPRLLVVTDPH-TDHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 71 ~~~ILfv~t~~~-~~~~v~~~a~~~g~~yv~~rW~gG~LTN-~i~~~~~~P~lvii~dp~-~d~~aI~Ea~~l~IP~Ial 147 (222)
.-++.++|.... .....+..++..+..--. +|. |.... .+......-|+++..... .-...+-||...|+|+|+-
T Consensus 234 ~~~l~i~G~~~~~~~~~~~~~~~~~~~~~~v-~~~-g~~~~~~~~~~~~~adv~v~ps~~e~~~~~~~Eama~G~PvI~~ 311 (375)
T cd03821 234 DWHLVIAGPDEGGYRAELKQIAAALGLEDRV-TFT-GMLYGEDKAAALADADLFVLPSHSENFGIVVAEALACGTPVVTT 311 (375)
T ss_pred CeEEEEECCCCcchHHHHHHHHHhcCccceE-EEc-CCCChHHHHHHHhhCCEEEeccccCCCCcHHHHHHhcCCCEEEc
Confidence 345667776543 233333343444432100 233 33332 233445567777665432 1256788999999999984
No 247
>PRK03379 vitamin B12-transporter protein BtuF; Provisional
Probab=25.78 E-value=91 Score=26.92 Aligned_cols=32 Identities=16% Similarity=0.199 Sum_probs=22.8
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEE
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAF 147 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~Ial 147 (222)
.-.||+|+..........+....++|||++.+
T Consensus 70 ~l~PDlVi~~~~~~~~~~~~~L~~~gi~v~~~ 101 (260)
T PRK03379 70 ALKPDLVLAWRGGNAERQVDQLASLGIKVMWV 101 (260)
T ss_pred hcCCCEEEEecCCCcHHHHHHHHHCCCCEEEe
Confidence 35799998764322234667778899999987
No 248
>PRK10637 cysG siroheme synthase; Provisional
Probab=25.76 E-value=1.3e+02 Score=28.58 Aligned_cols=27 Identities=15% Similarity=0.063 Sum_probs=19.5
Q ss_pred CCcEEEEe--CCCCCchhhhHhhhcCCCE
Q psy16262 118 EPRLLVVT--DPHTDHQPITEAAYVNIPV 144 (222)
Q Consensus 118 ~P~lvii~--dp~~d~~aI~Ea~~l~IP~ 144 (222)
-.++||.. |+.-|.++.++|...||++
T Consensus 72 ~~~lv~~at~d~~~n~~i~~~a~~~~~lv 100 (457)
T PRK10637 72 TCWLAIAATDDDAVNQRVSEAAEARRIFC 100 (457)
T ss_pred CCEEEEECCCCHHHhHHHHHHHHHcCcEE
Confidence 35555544 4566789999999999974
No 249
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=25.75 E-value=2.1e+02 Score=24.90 Aligned_cols=43 Identities=7% Similarity=-0.027 Sum_probs=28.5
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEc
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAI 161 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypI 161 (222)
+..|.+|++.. .+...+++....++|+|.+ |...+...+++..
T Consensus 113 ~~vDgiI~~~~-~~~~~~~~l~~~~~pvV~~-~~~~~~~~~~~V~ 155 (327)
T PRK10339 113 KNVTGILIVGK-PTPALRAAASALTDNICFI-DFHEPGSGYDAVD 155 (327)
T ss_pred ccCCEEEEeCC-CCHHHHHHHHhcCCCEEEE-eCCCCCCCCCEEE
Confidence 56899998864 3456678888889998865 6544332344433
No 250
>PF02684 LpxB: Lipid-A-disaccharide synthetase; InterPro: IPR003835 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. These enzymes belong to the glycosyltransferase family 19 GT19 from CAZY. Lipid-A-disaccharide synthetase 2.4.1.182 from EC is involved with acyl-[acyl-carrier-protein]--UDP-N-acetylglucosamine O-acyltransferase 2.3.1.129 from EC and tetraacyldisaccharide 4'-kinase 2.7.1.130 from EC in the biosynthesis of the phosphorylated glycolipid, lipid A, in the outer membrane of Escherichia coli and other bacteria. These enzymes catalyse the first disaccharide step in the synthesis of lipid-A-disaccharide.; GO: 0008915 lipid-A-disaccharide synthase activity, 0009245 lipid A biosynthetic process
Probab=25.75 E-value=76 Score=29.76 Aligned_cols=32 Identities=22% Similarity=0.399 Sum_probs=27.4
Q ss_pred ccCCcEEEEeC-CCCCchhhhHhhhcCCC--EEEE
Q psy16262 116 FREPRLLVVTD-PHTDHQPITEAAYVNIP--VIAF 147 (222)
Q Consensus 116 ~~~P~lvii~d-p~~d~~aI~Ea~~l~IP--~Ial 147 (222)
...||++|++| |.-|....+.+++.|+| +|=.
T Consensus 80 ~~~pd~vIlID~pgFNlrlak~lk~~~~~~~viyY 114 (373)
T PF02684_consen 80 EEKPDVVILIDYPGFNLRLAKKLKKRGIPIKVIYY 114 (373)
T ss_pred HcCCCEEEEeCCCCccHHHHHHHHHhCCCceEEEE
Confidence 46899999999 78899999999999998 5433
No 251
>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=25.70 E-value=2.3e+02 Score=24.45 Aligned_cols=32 Identities=16% Similarity=0.267 Sum_probs=24.5
Q ss_pred CCcEEEEeCCC-CCchhhhHhhhcCCCEEEEecC
Q psy16262 118 EPRLLVVTDPH-TDHQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 118 ~P~lvii~dp~-~d~~aI~Ea~~l~IP~IalvDT 150 (222)
.+|.||+.... .....++++...|||+|.+ |+
T Consensus 58 ~vdgiIi~~~~~~~~~~~~~~~~~giPvV~~-~~ 90 (305)
T cd06324 58 KPDALIFTNEKSVAPELLRLAEGAGVKLFLV-NS 90 (305)
T ss_pred CCCEEEEcCCccchHHHHHHHHhCCCeEEEE-ec
Confidence 79999987533 2456789999999999987 44
No 252
>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=25.70 E-value=2.8e+02 Score=22.86 Aligned_cols=58 Identities=17% Similarity=0.040 Sum_probs=30.9
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
+..|.+++.....+...+.. ...+||+|.+ |++.+...+.+.- .|...+.......|.
T Consensus 54 ~~~dgiii~~~~~~~~~~~~-~~~~iPvV~i-~~~~~~~~~~~V~---~d~~~a~~~~~~~l~ 111 (265)
T cd06290 54 RRVDALILLGGDLPEEEILA-LAEEIPVLAV-GRRVPGPGAASIA---VDNFQGGYLATQHLI 111 (265)
T ss_pred CCCCEEEEeCCCCChHHHHH-HhcCCCEEEE-CCCcCCCCCCEEE---ECcHHHHHHHHHHHH
Confidence 45888888865444433433 3458999866 4443322333433 244445555544443
No 253
>cd03800 GT1_Sucrose_synthase This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose 6-phosphate and uridine 5'-diphosphate-glucose, a key regulatory step of sucrose metabolism. The activity of this enzyme is regulated by phosphorylation and moderated by the concentration of various metabolites and light.
Probab=25.34 E-value=4.6e+02 Score=22.87 Aligned_cols=36 Identities=22% Similarity=0.267 Sum_probs=23.8
Q ss_pred HHhhccCCcEEEEeCCCCC-chhhhHhhhcCCCEEEE
Q psy16262 112 IQAAFREPRLLVVTDPHTD-HQPITEAAYVNIPVIAF 147 (222)
Q Consensus 112 i~~~~~~P~lvii~dp~~d-~~aI~Ea~~l~IP~Ial 147 (222)
+......-|+++...-.+. ...+-||...|+|+|+-
T Consensus 296 ~~~~~~~adi~l~ps~~e~~~~~l~Ea~a~G~Pvi~s 332 (398)
T cd03800 296 LPALYRAADVFVNPALYEPFGLTALEAMACGLPVVAT 332 (398)
T ss_pred HHHHHHhCCEEEecccccccCcHHHHHHhcCCCEEEC
Confidence 3445566777765432211 35689999999999873
No 254
>cd03809 GT1_mtfB_like This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the previously synthesized polysaccharide.
Probab=25.26 E-value=3.5e+02 Score=22.92 Aligned_cols=81 Identities=23% Similarity=0.262 Sum_probs=39.5
Q ss_pred CcEEEEecChhhHHHHHHHHHHcCCccccccccCCccch-HHHhhccCCcEEEEeCCC-CCchhhhHhhhcCCCEEEEec
Q psy16262 72 ADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTN-QIQAAFREPRLLVVTDPH-TDHQPITEAAYVNIPVIAFCN 149 (222)
Q Consensus 72 ~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN-~i~~~~~~P~lvii~dp~-~d~~aI~Ea~~l~IP~IalvD 149 (222)
-++.+++..........+..+..+..-. =.|. |.+.. .+......-|+++..... .-...+-||...|+|+|+ .|
T Consensus 227 ~~l~i~G~~~~~~~~~~~~~~~~~~~~~-v~~~-g~~~~~~~~~~~~~~d~~l~ps~~e~~~~~~~Ea~a~G~pvI~-~~ 303 (365)
T cd03809 227 PKLVIVGKRGWLNEELLARLRELGLGDR-VRFL-GYVSDEELAALYRGARAFVFPSLYEGFGLPVLEAMACGTPVIA-SN 303 (365)
T ss_pred CCEEEecCCccccHHHHHHHHHcCCCCe-EEEC-CCCChhHHHHHHhhhhhhcccchhccCCCCHHHHhcCCCcEEe-cC
Confidence 4566777654433322222222222211 1243 33332 233444556655443211 124568999999999998 44
Q ss_pred CCCCCC
Q psy16262 150 TESPLR 155 (222)
Q Consensus 150 Td~~~~ 155 (222)
.....+
T Consensus 304 ~~~~~e 309 (365)
T cd03809 304 ISSLPE 309 (365)
T ss_pred CCCccc
Confidence 444333
No 255
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=25.13 E-value=2.1e+02 Score=19.25 Aligned_cols=32 Identities=19% Similarity=0.325 Sum_probs=25.1
Q ss_pred HhhCCCcEEEEecChhhHHHHHHHHHHcCCcc
Q psy16262 67 AIEHPADVFVISSRPIGQRAVLKFASYTGATP 98 (222)
Q Consensus 67 ~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~y 98 (222)
....++.+.++.+.+...+-|..+|+..|..+
T Consensus 21 ~~~~g~~l~v~~d~~~s~~~i~~~~~~~G~~~ 52 (67)
T cd03421 21 ELEAGGEIEVLVDNEVAKENVSRFAESRGYEV 52 (67)
T ss_pred hcCCCCEEEEEEcChhHHHHHHHHHHHcCCEE
Confidence 44556667788888888888999999988776
No 256
>PRK15490 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=25.13 E-value=5.1e+02 Score=25.96 Aligned_cols=79 Identities=14% Similarity=0.197 Sum_probs=48.5
Q ss_pred CCcEEEEecChhhHHHHHHHHHHcCCc-cccccccCCccchHHHhhccCCcEEEEeCCCCC-chhhhHhhhcCCCEEEEe
Q psy16262 71 PADVFVISSRPIGQRAVLKFASYTGAT-PIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD-HQPITEAAYVNIPVIAFC 148 (222)
Q Consensus 71 ~~~ILfv~t~~~~~~~v~~~a~~~g~~-yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d-~~aI~Ea~~l~IP~Ialv 148 (222)
.-+++++|..+.. +.+++.++..|.. .| +|.|. ...+.......|+.++..-.+. ...+-||...|+|+|+-
T Consensus 429 dirLvIVGdG~~~-eeLk~la~elgL~d~V--~FlG~--~~Dv~~~LaaADVfVlPS~~EGfp~vlLEAMA~GlPVVAT- 502 (578)
T PRK15490 429 ATRFVLVGDGDLR-AEAQKRAEQLGILERI--LFVGA--SRDVGYWLQKMNVFILFSRYEGLPNVLIEAQMVGVPVIST- 502 (578)
T ss_pred CeEEEEEeCchhH-HHHHHHHHHcCCCCcE--EECCC--hhhHHHHHHhCCEEEEcccccCccHHHHHHHHhCCCEEEe-
Confidence 3467788876654 3466667766642 12 24443 2334455567788877653322 67899999999999954
Q ss_pred cCCCCCC
Q psy16262 149 NTESPLR 155 (222)
Q Consensus 149 DTd~~~~ 155 (222)
|....++
T Consensus 503 dvGG~~E 509 (578)
T PRK15490 503 PAGGSAE 509 (578)
T ss_pred CCCCcHH
Confidence 4444444
No 257
>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=25.02 E-value=2.3e+02 Score=24.39 Aligned_cols=60 Identities=12% Similarity=-0.001 Sum_probs=33.3
Q ss_pred cCCcEEEEeCCCCCc--hhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 117 REPRLLVVTDPHTDH--QPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 117 ~~P~lvii~dp~~d~--~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
+.+|.+|+.....+. ..++++. .+||+|.+.+-..+...+.+.-. |...+-+.....|.+
T Consensus 56 ~~vDgiIi~~~~~~~~~~~l~~~~-~~iPvV~~~~~~~~~~~~~~V~~---D~~~~g~~~~~~L~~ 117 (295)
T TIGR02955 56 WGADAILLGTVSPEALNHDLAQLT-KSIPVFALVNQIDSNQVKGRVGV---DWYQMGYQAGEYLAQ 117 (295)
T ss_pred cCCCEEEEecCChhhhhHHHHHHh-cCCCEEEEecCCCccceeEEEee---cHHHHHHHHHHHHHH
Confidence 578998887543332 4456553 49999987443222323444332 444555555555554
No 258
>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=24.93 E-value=75 Score=27.12 Aligned_cols=34 Identities=18% Similarity=0.301 Sum_probs=26.0
Q ss_pred ccCCcEEEEeCCCCC--chhhhHhhhcCCCEEEEecC
Q psy16262 116 FREPRLLVVTDPHTD--HQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 116 ~~~P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvDT 150 (222)
.+.+|.+|++....+ ...++++...+||+|.+ |.
T Consensus 54 ~~~vdgiil~~~~~~~~~~~~~~~~~~~iPvV~~-d~ 89 (280)
T cd06315 54 ALKPDGIVLGGVDAAELQAELELAQKAGIPVVGW-HA 89 (280)
T ss_pred HcCCCEEEEcCCCHHHHHHHHHHHHHCCCCEEEe-cC
Confidence 367999999875443 45678888899999976 54
No 259
>TIGR00215 lpxB lipid-A-disaccharide synthase. Lipid-A precursor biosynthesis producing lipid A disaccharide in a condensation reaction. transcribed as part of an operon including lpxA
Probab=24.84 E-value=77 Score=29.21 Aligned_cols=30 Identities=27% Similarity=0.316 Sum_probs=23.3
Q ss_pred cCCcEEEEeCCCCC--chhhhHhhhcCCCEEEE
Q psy16262 117 REPRLLVVTDPHTD--HQPITEAAYVNIPVIAF 147 (222)
Q Consensus 117 ~~P~lvii~dp~~d--~~aI~Ea~~l~IP~Ial 147 (222)
..||+|+.+|- .+ ....+-|+.+|||++=.
T Consensus 88 ~kPd~vi~~g~-~~~~~~~a~aa~~~gip~v~~ 119 (385)
T TIGR00215 88 AKPDLLVGIDA-PDFNLTKELKKKDPGIKIIYY 119 (385)
T ss_pred cCCCEEEEeCC-CCccHHHHHHHhhCCCCEEEE
Confidence 47999999994 44 34666889999999843
No 260
>PRK14573 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=24.76 E-value=2.9e+02 Score=28.28 Aligned_cols=63 Identities=10% Similarity=0.065 Sum_probs=38.6
Q ss_pred cCCcEEEEeCC-CCCchhhhHhhhcCCCEEEEecCCCC--CCcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTDP-HTDHQPITEAAYVNIPVIAFCNTESP--LRFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~dp-~~d~~aI~Ea~~l~IP~IalvDTd~~--~~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
..+|+||+... ..++..+++|++.|||+++=.+--.. ...-.+.|-|=+=-..--.++..+|.
T Consensus 62 ~~~d~vV~SpgI~~~~p~~~~a~~~gi~v~~~~el~~~~~~~~~~IaITGTnGKTTTt~li~~iL~ 127 (809)
T PRK14573 62 PEDAVVVYSSSISKDNVEYLSAKSRGNRLVHRAELLAELMQEQISILVSGSHGKTTVSSLITAIFQ 127 (809)
T ss_pred CCCCEEEECCCcCCCCHHHHHHHHCCCcEEeHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHHH
Confidence 35788877652 45677899999999999975553111 11124677776444444455555443
No 261
>cd03808 GT1_cap1E_like This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides.
Probab=24.63 E-value=4.1e+02 Score=22.05 Aligned_cols=81 Identities=11% Similarity=0.109 Sum_probs=42.9
Q ss_pred CCcEEEEecChhhHHHHHH-HHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCC-CchhhhHhhhcCCCEEEEe
Q psy16262 71 PADVFVISSRPIGQRAVLK-FASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHT-DHQPITEAAYVNIPVIAFC 148 (222)
Q Consensus 71 ~~~ILfv~t~~~~~~~v~~-~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~-d~~aI~Ea~~l~IP~Ialv 148 (222)
.-++.+++........-.. ..+......| +|.|. ...+......-|+++...-.+ -...+-||...|+|+|+ .
T Consensus 219 ~~~l~i~G~~~~~~~~~~~~~~~~~~~~~v--~~~g~--~~~~~~~~~~adi~i~ps~~e~~~~~~~Ea~~~G~Pvi~-s 293 (359)
T cd03808 219 NVRLLLVGDGDEENPAAILEIEKLGLEGRV--EFLGF--RDDVPELLAAADVFVLPSYREGLPRVLLEAMAMGRPVIA-T 293 (359)
T ss_pred CeEEEEEcCCCcchhhHHHHHHhcCCcceE--EEeec--cccHHHHHHhccEEEecCcccCcchHHHHHHHcCCCEEE-e
Confidence 3456677776644332221 2222222212 24433 233445556678776554321 25678899999999998 4
Q ss_pred cCCCCCCc
Q psy16262 149 NTESPLRF 156 (222)
Q Consensus 149 DTd~~~~~ 156 (222)
|.....+.
T Consensus 294 ~~~~~~~~ 301 (359)
T cd03808 294 DVPGCREA 301 (359)
T ss_pred cCCCchhh
Confidence 54444443
No 262
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=24.52 E-value=3.5e+02 Score=23.16 Aligned_cols=73 Identities=18% Similarity=0.229 Sum_probs=41.1
Q ss_pred CcEEEEecChhh-HHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC-CCC--C----chhhhHhhhcCCC
Q psy16262 72 ADVFVISSRPIG-QRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD-PHT--D----HQPITEAAYVNIP 143 (222)
Q Consensus 72 ~~ILfv~t~~~~-~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d-p~~--d----~~aI~Ea~~l~IP 143 (222)
.+||+|.+-... ..+++-+ ...|+.-.. +....++... -....||.|++.- |.. | ..+|+++ .-++|
T Consensus 2 ~~IL~IDNyDSFtyNLv~yl-~~lg~~v~V--~rnd~~~~~~-~~~~~pd~iviSPGPG~P~d~G~~~~~i~~~-~~~~P 76 (191)
T COG0512 2 MMILLIDNYDSFTYNLVQYL-RELGAEVTV--VRNDDISLEL-IEALKPDAIVISPGPGTPKDAGISLELIRRF-AGRIP 76 (191)
T ss_pred ceEEEEECccchHHHHHHHH-HHcCCceEE--EECCccCHHH-HhhcCCCEEEEcCCCCChHHcchHHHHHHHh-cCCCC
Confidence 368888887644 3444444 444433222 3344444431 1223599998873 321 2 3456666 55799
Q ss_pred EEEEec
Q psy16262 144 VIAFCN 149 (222)
Q Consensus 144 ~IalvD 149 (222)
+.|+|=
T Consensus 77 iLGVCL 82 (191)
T COG0512 77 ILGVCL 82 (191)
T ss_pred EEEECc
Confidence 999983
No 263
>TIGR01135 glmS glucosamine--fructose-6-phosphate aminotransferase (isomerizing). The member from Methanococcus jannaschii contains an intein.
Probab=24.51 E-value=6.8e+02 Score=24.55 Aligned_cols=127 Identities=16% Similarity=0.156 Sum_probs=70.3
Q ss_pred hCCCcEEEEecChhhH---HHHHHHHH---HcCCccccccccCCccchHHHhhccCCc-EEEEeCCCCC-----chhhhH
Q psy16262 69 EHPADVFVISSRPIGQ---RAVLKFAS---YTGATPIAGRFTPGAFTNQIQAAFREPR-LLVVTDPHTD-----HQPITE 136 (222)
Q Consensus 69 ~~~~~ILfv~t~~~~~---~~v~~~a~---~~g~~yv~~rW~gG~LTN~i~~~~~~P~-lvii~dp~~d-----~~aI~E 136 (222)
.+..++.|++...... +.-.|+.+ ..-..|-.+.|..|-+- +. .++ .+|++.+..+ ...++|
T Consensus 461 ~~~~~~~~lG~G~~~g~A~E~aLKl~E~~~~~a~~~~~~Ef~HGP~~-----~i-~~~~~vi~l~~~~~~~~~~~~~~~~ 534 (607)
T TIGR01135 461 ADKHNFLFLGRGLGYPIALEGALKLKEISYIHAEGYPAGELKHGPIA-----LI-DEGLPVVAIAPKDSLFEKTKSNVEE 534 (607)
T ss_pred hCCCcEEEEeCCCCHHHHHHHHHHHHHHHHHhccccchhhhccCcHh-----hh-CCCCCEEEEEeCchHHHHHHHHHHH
Confidence 3456788999886432 22223333 23344556677777332 12 233 4455544332 236888
Q ss_pred hhhcCCCEEEEecCCCC----CCcceEEccCCCCCchhHHHH--HHHHHHHHHhhhCCCCCCCCcccccccc
Q psy16262 137 AAYVNIPVIAFCNTESP----LRFVDIAIPCNNKSPHSIGLM--WWLLAREVLRFRGVIGPDYLTILGTYID 202 (222)
Q Consensus 137 a~~l~IP~IalvDTd~~----~~~IdypIP~Ndds~~si~li--~~lL~~ai~~~~g~~~~~~~~~~~~~~~ 202 (222)
.+..+-.++.|.+.+.. ....++.+|..++-...+-++ +++|+-.+...+| ++++.|+.|..-++
T Consensus 535 ~~~~g~~v~~I~~~~~~~~~~~~~~~i~~p~~~~~l~pl~~~~p~Qlla~~~A~~~G-~dpd~pr~L~K~v~ 605 (607)
T TIGR01135 535 VKARGARVIVFADEDDEFLESVADDVIKLPEVEELLAPIVYTVPLQLLAYHIALAKG-TDVDKPRNLAKSVT 605 (607)
T ss_pred HHHcCCeEEEEECCCcccccccCCcEEECCCCCccchHHHHHHHHHHHHHHHHHHcC-CCCCCCCCCCCeEe
Confidence 88889999888654321 223566777665544443332 3667777666665 44677777665443
No 264
>PRK12564 carbamoyl phosphate synthase small subunit; Reviewed
Probab=24.44 E-value=3.5e+02 Score=25.22 Aligned_cols=72 Identities=18% Similarity=0.200 Sum_probs=40.5
Q ss_pred CcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeC-C---CC---CchhhhHhhhcCCCE
Q psy16262 72 ADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTD-P---HT---DHQPITEAAYVNIPV 144 (222)
Q Consensus 72 ~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~d-p---~~---d~~aI~Ea~~l~IP~ 144 (222)
.+|+++...-.. -+.+...+.|+..+.=.|-. .+ ..+ ....||.||+.+ | .. ...+++++...++|+
T Consensus 178 ~~I~viD~G~k~--nivr~L~~~G~~v~vvp~~~-~~-~~i--~~~~~DGIvLSgGPgdp~~~~~~~~~i~~~~~~~~Pi 251 (360)
T PRK12564 178 YKVVAIDFGVKR--NILRELAERGCRVTVVPATT-TA-EEI--LALNPDGVFLSNGPGDPAALDYAIEMIRELLEKKIPI 251 (360)
T ss_pred CEEEEEeCCcHH--HHHHHHHHCCCEEEEEeCCC-CH-HHH--HhcCCCEEEEeCCCCChHHHHHHHHHHHHHHHcCCeE
Confidence 367787765432 24444444565533323321 11 112 123699999986 2 11 135678887789999
Q ss_pred EEEec
Q psy16262 145 IAFCN 149 (222)
Q Consensus 145 IalvD 149 (222)
.|+|=
T Consensus 252 lGICl 256 (360)
T PRK12564 252 FGICL 256 (360)
T ss_pred EEECH
Confidence 99984
No 265
>cd04946 GT1_AmsK_like This family is most closely related to the GT1 family of glycosyltransferases. AmsK is involved in the biosynthesis of amylovoran, which functions as a virulence factor. It functions as a glycosyl transferase which transfers galactose from UDP-galactose to a lipid-linked amylovoran-subunit precursor. The members of this family are found mainly in bacteria and Archaea.
Probab=24.31 E-value=5.3e+02 Score=23.63 Aligned_cols=76 Identities=22% Similarity=0.335 Sum_probs=40.5
Q ss_pred EEEecChhhHHHHHHHHHHcCCccccccccCCccchH-HHhhccC--CcEEEEeCCCCC--chhhhHhhhcCCCEEEEec
Q psy16262 75 FVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQ-IQAAFRE--PRLLVVTDPHTD--HQPITEAAYVNIPVIAFCN 149 (222)
Q Consensus 75 Lfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~-i~~~~~~--P~lvii~dp~~d--~~aI~Ea~~l~IP~IalvD 149 (222)
.+++..+... .+++.++..+...-. .| -|.+.+. +.+.... -|+++... ..+ ..++-||...|+|+|+ .|
T Consensus 267 ~iiG~g~~~~-~l~~~~~~~~~~~~V-~f-~G~v~~~e~~~~~~~~~~~v~v~~S-~~Eg~p~~llEAma~G~PVIa-s~ 341 (407)
T cd04946 267 THIGGGPLED-TLKELAESKPENISV-NF-TGELSNSEVYKLYKENPVDVFVNLS-ESEGLPVSIMEAMSFGIPVIA-TN 341 (407)
T ss_pred EEEeCchHHH-HHHHHHHhcCCCceE-EE-ecCCChHHHHHHHhhcCCCEEEeCC-ccccccHHHHHHHHcCCCEEe-CC
Confidence 4577665543 355555543332101 13 3666653 3333333 34433333 222 4568999999999999 45
Q ss_pred CCCCCC
Q psy16262 150 TESPLR 155 (222)
Q Consensus 150 Td~~~~ 155 (222)
....++
T Consensus 342 vgg~~e 347 (407)
T cd04946 342 VGGTPE 347 (407)
T ss_pred CCCcHH
Confidence 544444
No 266
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=24.17 E-value=4.5e+02 Score=22.40 Aligned_cols=120 Identities=11% Similarity=0.028 Sum_probs=0.0
Q ss_pred HHHHHHHHHh-hCCCcEEEEecCh------hhHHHHHHHHHHcCCccccccccCCccchH------HHhhccCCcEEEEe
Q psy16262 59 LLAARAIVAI-EHPADVFVISSRP------IGQRAVLKFASYTGATPIAGRFTPGAFTNQ------IQAAFREPRLLVVT 125 (222)
Q Consensus 59 ~~a~~~i~~i-~~~~~ILfv~t~~------~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~------i~~~~~~P~lvii~ 125 (222)
..++..+... ..+++++++.... ...+...+.++..|................ +......|+.++..
T Consensus 135 ~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~ 214 (295)
T PRK10653 135 KMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEGFKQAVAAHKFNVLASQPADFDRTKGLNVMQNLLTAHPDVQAVFAQ 214 (295)
T ss_pred HHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHHHHHHHhhCCCEEEEecCCCCCHHHHHHHHHHHHHhCCCcCEEEEC
Q ss_pred CCCCCchhhhHhhhcC---CCEEEEecCC------CCCCc-ceEEccCCCCCchhHHHHHHHH
Q psy16262 126 DPHTDHQPITEAAYVN---IPVIAFCNTE------SPLRF-VDIAIPCNNKSPHSIGLMWWLL 178 (222)
Q Consensus 126 dp~~d~~aI~Ea~~l~---IP~IalvDTd------~~~~~-IdypIP~Ndds~~si~li~~lL 178 (222)
+...-.-++++++..| ++++|+-|++ .++.. .++-.|.-.-...++.++..++
T Consensus 215 ~d~~A~g~l~al~~~G~~dv~vig~d~~~~~~~~~~~~~~~tti~~~~~~~g~~a~~~l~~~l 277 (295)
T PRK10653 215 NDEMALGALRALQTAGKSDVMVVGFDGTPDGIKAVNRGKLAATIAQQPDQIGAIGVETADKVL 277 (295)
T ss_pred CChhHHHHHHHHHHcCCCceEEEEeCCCHHHHHHHHcCCceEEeecCHHHHHHHHHHHHHHHh
No 267
>cd01744 GATase1_CPSase Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II. This group of sequences represents the small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II. CPSase II catalyzes the production of carbomyl phosphate (CP) from bicarbonate, glutamine and two molecules of MgATP. The reaction is believed to proceed by a series of four biochemical reactions involving a minimum of three discrete highly reactive intermediates. The synthesis of CP is critical for the initiation of two separate biosynthetic pathways. In one CP is coupled to aspartate, its carbon and nitrogen nuclei ultimately incorporated into the aromatic moieties of pyrimidine nucleotides. In the second pathway CP is condensed with ornithine at the start of the urea cycle and is utilized for the detoxification of ammonia and biosynthesis of arginine. CPSases may be encoded by one or by several genes, depending on the species. The E.coli enzyme is
Probab=23.97 E-value=1e+02 Score=25.09 Aligned_cols=20 Identities=15% Similarity=0.348 Sum_probs=16.9
Q ss_pred chhhhHhhhcCCCEEEEecC
Q psy16262 131 HQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~IalvDT 150 (222)
...++++...++|+.|+|--
T Consensus 59 ~~~~~~~~~~~~PvlGIC~G 78 (178)
T cd01744 59 IKTVRKLLGKKIPIFGICLG 78 (178)
T ss_pred HHHHHHHHhCCCCEEEECHH
Confidence 46788999999999999864
No 268
>cd04962 GT1_like_5 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate residue. This group of glycosyltransferases is most closely related to the previously defined glycosyltransferase family 1 (GT1). The members of this family may transfer UDP, ADP, GDP, or CMP linked sugars. The diverse enzymatic activities among members of this family reflect a wide range of biological functions. The protein structure available for this family has the GTB topology, one of the two protein topologies observed for nucleotide-sugar-dependent glycosyltransferases. GTB proteins have distinct N- and C- terminal domains each containing a typical Rossmann fold. The two domains have high structural homology despite minimal sequence homolog
Probab=23.95 E-value=4.8e+02 Score=22.59 Aligned_cols=71 Identities=17% Similarity=0.295 Sum_probs=43.4
Q ss_pred CCcEEEEecChhhHHHHHHHHHHcCCc-cccccccCCccchHHHhhccCCcEEEEeCCCCC-chhhhHhhhcCCCEEE
Q psy16262 71 PADVFVISSRPIGQRAVLKFASYTGAT-PIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTD-HQPITEAAYVNIPVIA 146 (222)
Q Consensus 71 ~~~ILfv~t~~~~~~~v~~~a~~~g~~-yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d-~~aI~Ea~~l~IP~Ia 146 (222)
+-++++++..+... .+++.++..+.. .| ++.| ... .+......-|+++.....+. -..+-||-..|+|+|+
T Consensus 227 ~~~l~i~G~g~~~~-~~~~~~~~~~~~~~v--~~~g-~~~-~~~~~~~~~d~~v~ps~~E~~~~~~~EAma~g~PvI~ 299 (371)
T cd04962 227 PARLLLVGDGPERS-PAERLARELGLQDDV--LFLG-KQD-HVEELLSIADLFLLPSEKESFGLAALEAMACGVPVVA 299 (371)
T ss_pred CceEEEEcCCcCHH-HHHHHHHHcCCCceE--EEec-Ccc-cHHHHHHhcCEEEeCCCcCCCccHHHHHHHcCCCEEE
Confidence 34677777766543 355566665532 11 2443 233 34455566788777653222 5679999999999999
No 269
>PRK09922 UDP-D-galactose:(glucosyl)lipopolysaccharide-1,6-D-galactosyltransferase; Provisional
Probab=23.93 E-value=5.1e+02 Score=22.94 Aligned_cols=74 Identities=16% Similarity=0.189 Sum_probs=44.4
Q ss_pred CCcEEEEecChhhHHHHHHHHHHcCCc-cccccccCCccch---HHHhhccCCcEEEEeCCCC-CchhhhHhhhcCCCEE
Q psy16262 71 PADVFVISSRPIGQRAVLKFASYTGAT-PIAGRFTPGAFTN---QIQAAFREPRLLVVTDPHT-DHQPITEAAYVNIPVI 145 (222)
Q Consensus 71 ~~~ILfv~t~~~~~~~v~~~a~~~g~~-yv~~rW~gG~LTN---~i~~~~~~P~lvii~dp~~-d~~aI~Ea~~l~IP~I 145 (222)
+-+++++|..+... .+++.++..+.. -| .|. |..++ .+......-|++++....+ =-..+-||...|.|+|
T Consensus 210 ~~~l~ivG~g~~~~-~l~~~~~~~~l~~~v--~f~-G~~~~~~~~~~~~~~~~d~~v~~s~~Egf~~~~lEAma~G~Pvv 285 (359)
T PRK09922 210 EWQLHIIGDGSDFE-KCKAYSRELGIEQRI--IWH-GWQSQPWEVVQQKIKNVSALLLTSKFEGFPMTLLEAMSYGIPCI 285 (359)
T ss_pred CeEEEEEeCCccHH-HHHHHHHHcCCCCeE--EEe-cccCCcHHHHHHHHhcCcEEEECCcccCcChHHHHHHHcCCCEE
Confidence 45678888776643 356666665532 11 233 44444 2334444556666544321 2678999999999999
Q ss_pred EEec
Q psy16262 146 AFCN 149 (222)
Q Consensus 146 alvD 149 (222)
+ .|
T Consensus 286 ~-s~ 288 (359)
T PRK09922 286 S-SD 288 (359)
T ss_pred E-eC
Confidence 8 45
No 270
>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=23.78 E-value=4.1e+02 Score=21.76 Aligned_cols=26 Identities=12% Similarity=0.152 Sum_probs=18.0
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCC
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNI 142 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~I 142 (222)
..|+.|++.+...-..+++.+...|+
T Consensus 180 ~~~~ai~~~~d~~a~g~~~al~~~g~ 205 (268)
T cd06271 180 DRPTAIVCSSELMALGVLAALAEAGL 205 (268)
T ss_pred CCCCEEEEcCcHHHHHHHHHHHHhCC
Confidence 35899999875444456677777665
No 271
>TIGR02128 G6PI_arch bifunctional phosphoglucose/phosphomannose isomerase. This bifunctional isomerase is a member of the larger PGI superfamily and only distantly related to other glucose-6-phosphate isomerases. The family is limited to the archaea.
Probab=23.66 E-value=1.9e+02 Score=26.15 Aligned_cols=55 Identities=20% Similarity=0.188 Sum_probs=39.3
Q ss_pred cCCcEEEEeCCCCC----chhhhHhhhcCCCEEEEecCCCCCC-------cceEEccCCCCCchhHH
Q psy16262 117 REPRLLVVTDPHTD----HQPITEAAYVNIPVIAFCNTESPLR-------FVDIAIPCNNKSPHSIG 172 (222)
Q Consensus 117 ~~P~lvii~dp~~d----~~aI~Ea~~l~IP~IalvDTd~~~~-------~IdypIP~Ndds~~si~ 172 (222)
...|++|++...-+ ..++++|...|.++|++++. .++. ...+.||.+.-...+.-
T Consensus 65 ~~~dlvI~iS~SG~t~e~~~a~~~A~~~g~~ii~iT~~-g~L~~~a~~~~~~~i~vP~~~~~R~s~~ 130 (308)
T TIGR02128 65 DGKTLLIAVSYSGNTEETLSAVEEAKKKGAKVIAITSG-GRLEEMAKERGLDVIKIPKGLQPRAAFP 130 (308)
T ss_pred CCCeEEEEEcCCCCCHHHHHHHHHHHHcCCEEEEECCC-cHHHHHHHhcCCeEEEcCCCCCCeeeHH
Confidence 46778888864333 56788999999999999963 2221 25577899987777773
No 272
>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=23.59 E-value=98 Score=26.48 Aligned_cols=35 Identities=9% Similarity=0.201 Sum_probs=25.3
Q ss_pred ccCCcEEEEeCCCC--CchhhhHhhhcCCCEEEEecCC
Q psy16262 116 FREPRLLVVTDPHT--DHQPITEAAYVNIPVIAFCNTE 151 (222)
Q Consensus 116 ~~~P~lvii~dp~~--d~~aI~Ea~~l~IP~IalvDTd 151 (222)
.+.+|.+|+..... ....++++...|||+|.+ |..
T Consensus 54 ~~~~dgiii~~~~~~~~~~~i~~~~~~~iPvV~~-~~~ 90 (294)
T cd06316 54 SQKPDIIISIPVDPVSTAAAYKKVAEAGIKLVFM-DNV 90 (294)
T ss_pred HhCCCEEEEcCCCchhhhHHHHHHHHcCCcEEEe-cCC
Confidence 35799998865332 246789999999999955 543
No 273
>KOG1687|consensus
Probab=23.14 E-value=1.7e+02 Score=24.09 Aligned_cols=70 Identities=21% Similarity=0.349 Sum_probs=46.1
Q ss_pred ccCCccchHHHhh-------ccCCcEEEEeCCCCC--------chhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCC
Q psy16262 103 FTPGAFTNQIQAA-------FREPRLLVVTDPHTD--------HQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKS 167 (222)
Q Consensus 103 W~gG~LTN~i~~~-------~~~P~lvii~dp~~d--------~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds 167 (222)
.+.||+||++... --||+.||-...-.+ ...++.|.++ | -||+-+||=--.
T Consensus 76 ivAGTlTnKMAPalrkvYdQMPEpr~VisMGsCangGGyyhysYSvvRGcDri-i-------------PVDiYvPGCPPt 141 (168)
T KOG1687|consen 76 IVAGTLTNKMAPALRKVYDQMPEPRWVISMGSCANGGGYYHYSYSVVRGCDRI-I-------------PVDIYVPGCPPT 141 (168)
T ss_pred EEeccchhhhcHHHHHHHhhCCCCeeEEEecccccCCceEEEEehhhccccce-e-------------eeeeecCCCCCC
Confidence 5679999986322 248999988764322 4556655542 1 278889988777
Q ss_pred chhHHHHHHHHHHHHHhhh
Q psy16262 168 PHSIGLMWWLLAREVLRFR 186 (222)
Q Consensus 168 ~~si~li~~lL~~ai~~~~ 186 (222)
..++-.-..-|-+.|.|.|
T Consensus 142 aEAllygilqLqkKi~R~r 160 (168)
T KOG1687|consen 142 AEALLYGILQLQKKIKRIR 160 (168)
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 7776655555667776665
No 274
>PRK09065 glutamine amidotransferase; Provisional
Probab=23.02 E-value=1e+02 Score=26.66 Aligned_cols=31 Identities=16% Similarity=0.344 Sum_probs=23.2
Q ss_pred CCcEEEEeCCCCC-----------chhhhHhhhcCCCEEEEe
Q psy16262 118 EPRLLVVTDPHTD-----------HQPITEAAYVNIPVIAFC 148 (222)
Q Consensus 118 ~P~lvii~dp~~d-----------~~aI~Ea~~l~IP~Ialv 148 (222)
..|.||++.-..+ ...|++|...++|+.|+|
T Consensus 54 ~~dgvvi~Gg~~~~~d~~~w~~~~~~~i~~~~~~~~PvlGIC 95 (237)
T PRK09065 54 DFAGVIITGSWAMVTDRLDWSERTADWLRQAAAAGMPLLGIC 95 (237)
T ss_pred hcCEEEEeCCCcccCCCchhHHHHHHHHHHHHHCCCCEEEEC
Confidence 5678888863221 456788888899999998
No 275
>cd08166 MPP_Cdc1_like_1 uncharacterized subgroup related to Saccharomyces cerevisiae CDC1, metallophosphatase domain. A functionally uncharacterized subgroup related to the metallophosphatase domain of Saccharomyces cerevisiae Cdc1, S. cerevisiae Ted1 and human MPPE1. Cdc1 is an endoplasmic reticulum-localized transmembrane lipid phosphatase and is a subunit of DNA polymerase delta. TED1 (trafficking of Emp24p/Erv25p-dependent cargo disrupted 1), acts together with Emp24p and Erv25p in cargo exit from the ER. The MPPE1 gene is a candidate susceptibility gene for Bipolar disorder. Proteins in this uncharacterized subgroup belong to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like R
Probab=23.01 E-value=64 Score=27.54 Aligned_cols=46 Identities=11% Similarity=0.112 Sum_probs=27.0
Q ss_pred cCCcEEEEeCCCC-------CchhhhHhhhcCCCEEEEecCCCCCCcceEEccCCCCCc
Q psy16262 117 REPRLLVVTDPHT-------DHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCNNKSP 168 (222)
Q Consensus 117 ~~P~lvii~dp~~-------d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~Ndds~ 168 (222)
..||+||++.--- +.....+-.+.+ ++.+. +. ..=.|-+|||+|=.
T Consensus 41 l~PD~Vi~lGDL~D~G~~~~~~e~~e~l~Rf~-~If~~-~~----~~~~~~VpGNHDIG 93 (195)
T cd08166 41 VQPDIVIFLGDLMDEGSIANDDEYYSYVQRFI-NIFEV-PN----GTKIIYLPGDNDIG 93 (195)
T ss_pred cCCCEEEEeccccCCCCCCCHHHHHHHHHHHH-HHhcC-CC----CCcEEEECCCCCcC
Confidence 4799999996222 222444455555 45544 22 22356789998855
No 276
>TIGR01082 murC UDP-N-acetylmuramate--alanine ligase. UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase (murein tripeptide ligase) is described by TIGR01081.
Probab=22.83 E-value=3.6e+02 Score=25.27 Aligned_cols=63 Identities=22% Similarity=0.254 Sum_probs=38.4
Q ss_pred cCCcEEEEeC-CCCCchhhhHhhhcCCCEEEEecCCCCC--CcceEEccCCCCCchhHHHHHHHHH
Q psy16262 117 REPRLLVVTD-PHTDHQPITEAAYVNIPVIAFCNTESPL--RFVDIAIPCNNKSPHSIGLMWWLLA 179 (222)
Q Consensus 117 ~~P~lvii~d-p~~d~~aI~Ea~~l~IP~IalvDTd~~~--~~IdypIP~Ndds~~si~li~~lL~ 179 (222)
..+|+||+.. -..++..+++|++.|||+++=.+--... ..-.+.|-|-+=-.....++.++|.
T Consensus 57 ~~~d~vV~spgi~~~~p~~~~a~~~~i~v~~~~el~~~~~~~~~~IaITGTnGKTTTt~ll~~iL~ 122 (448)
T TIGR01082 57 DDADVVVVSAAIKDDNPEIVEAKERGIPVIRRAEMLAELMRFRHSIAVAGTHGKTTTTAMIAVILK 122 (448)
T ss_pred CCCCEEEECCCCCCCCHHHHHHHHcCCceEeHHHHHHHHHhcCcEEEEECCCChHHHHHHHHHHHH
Confidence 4588877764 2456788999999999999755542111 1134667776444444445554443
No 277
>COG0825 AccA Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]
Probab=22.79 E-value=64 Score=29.63 Aligned_cols=21 Identities=24% Similarity=0.452 Sum_probs=17.2
Q ss_pred hhhhHhhhcCCCEEEEecCCC
Q psy16262 132 QPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 132 ~aI~Ea~~l~IP~IalvDTd~ 152 (222)
...+-|.+.|+|+|.|+||--
T Consensus 141 Rlm~~AekF~lPiitfIDT~G 161 (317)
T COG0825 141 RLMKLAEKFGLPIITFIDTPG 161 (317)
T ss_pred HHHHHHHHhCCCEEEEecCCC
Confidence 445678899999999999943
No 278
>PRK10307 putative glycosyl transferase; Provisional
Probab=22.79 E-value=5.7e+02 Score=23.06 Aligned_cols=75 Identities=11% Similarity=0.033 Sum_probs=43.6
Q ss_pred CcEEEEecChhhHHHHHHHHHHcCCccccccccCCccch-HHHhhccCCcEEEEeCCCCC-----chhhhHhhhcCCCEE
Q psy16262 72 ADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTN-QIQAAFREPRLLVVTDPHTD-----HQPITEAAYVNIPVI 145 (222)
Q Consensus 72 ~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN-~i~~~~~~P~lvii~dp~~d-----~~aI~Ea~~l~IP~I 145 (222)
-+++++|..+.. +.+++.++..|.. +=+|. |.... .+......-|+.++....+. ...+-||-..|.|+|
T Consensus 260 ~~l~ivG~g~~~-~~l~~~~~~~~l~--~v~f~-G~~~~~~~~~~~~~aDi~v~ps~~e~~~~~~p~kl~eama~G~PVi 335 (412)
T PRK10307 260 LIFVICGQGGGK-ARLEKMAQCRGLP--NVHFL-PLQPYDRLPALLKMADCHLLPQKAGAADLVLPSKLTNMLASGRNVV 335 (412)
T ss_pred eEEEEECCChhH-HHHHHHHHHcCCC--ceEEe-CCCCHHHHHHHHHhcCEeEEeeccCcccccCcHHHHHHHHcCCCEE
Confidence 456778766543 3456666655543 11344 33332 34445566777766543322 234689999999999
Q ss_pred EEecC
Q psy16262 146 AFCNT 150 (222)
Q Consensus 146 alvDT 150 (222)
+--..
T Consensus 336 ~s~~~ 340 (412)
T PRK10307 336 ATAEP 340 (412)
T ss_pred EEeCC
Confidence 97544
No 279
>COG0028 IlvB Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=22.68 E-value=5.7e+02 Score=25.15 Aligned_cols=73 Identities=19% Similarity=0.236 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHhhCCCcEEEEecCh---hhHHHHHHHHHHcCCccccccccCCccchH---------------HHhhcc
Q psy16262 56 EKLLLAARAIVAIEHPADVFVISSRP---IGQRAVLKFASYTGATPIAGRFTPGAFTNQ---------------IQAAFR 117 (222)
Q Consensus 56 ~~L~~a~~~i~~i~~~~~ILfv~t~~---~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~---------------i~~~~~ 117 (222)
+++.+|+.+|..-++ -+++++..- ...+.+.+||+++|.+.+++-+--|.+-.. -.....
T Consensus 188 ~~i~~aa~~L~~Akr--PvIl~G~G~~~a~a~~~l~~lae~~~~Pv~~t~~gkg~~p~~hp~~lG~~g~~g~~~a~~~~~ 265 (550)
T COG0028 188 EAIRKAAELLAEAKR--PVILAGGGVRRAGASEELRELAEKLGAPVVTTLMGKGAVPEDHPLSLGMLGMHGTKAANEALE 265 (550)
T ss_pred HHHHHHHHHHHhCCC--CEEEECCCccccccHHHHHHHHHHHCCCEEEccCcCccCCCCCccccccccccccHHHHHHhh
Confidence 456777777764433 355665553 244788899999999987765555555432 012346
Q ss_pred CCcEEEEeCCCCC
Q psy16262 118 EPRLLVVTDPHTD 130 (222)
Q Consensus 118 ~P~lvii~dp~~d 130 (222)
+-|+|+++..+-+
T Consensus 266 ~aDlll~vG~rf~ 278 (550)
T COG0028 266 EADLLLAVGARFD 278 (550)
T ss_pred cCCEEEEecCCCc
Confidence 7999999986544
No 280
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=22.64 E-value=2e+02 Score=27.11 Aligned_cols=20 Identities=20% Similarity=0.187 Sum_probs=14.5
Q ss_pred EEccCCCCCchhHHHHHHHH
Q psy16262 159 IAIPCNNKSPHSIGLMWWLL 178 (222)
Q Consensus 159 ypIP~Ndds~~si~li~~lL 178 (222)
|.|+||.|+...+.....++
T Consensus 78 ~~I~GNHD~~~~l~~~~~~l 97 (407)
T PRK10966 78 VVLAGNHDSVATLNESRDLL 97 (407)
T ss_pred EEEcCCCCChhhhhhHHHHH
Confidence 66899999988766554444
No 281
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=22.44 E-value=2e+02 Score=22.00 Aligned_cols=57 Identities=11% Similarity=0.159 Sum_probs=36.1
Q ss_pred EEEEecCh---hhHHHHHHHHHHcCCccccccccCCccc--------------hH-HHhhccCCcEEEEeCCCCC
Q psy16262 74 VFVISSRP---IGQRAVLKFASYTGATPIAGRFTPGAFT--------------NQ-IQAAFREPRLLVVTDPHTD 130 (222)
Q Consensus 74 ILfv~t~~---~~~~~v~~~a~~~g~~yv~~rW~gG~LT--------------N~-i~~~~~~P~lvii~dp~~d 130 (222)
+++++..- ...+.+.++|+++|.++++.-.-.|.+- +. ........|+|+++...-+
T Consensus 15 ~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~~~kg~i~~~hp~~~G~~g~~~~~~~~~~l~~aDlvl~iG~~~~ 89 (137)
T PF00205_consen 15 VILAGRGARRSGAAEELRELAEKLGIPVATTPMGKGVIPEDHPLFLGYLGLFGSPAANEALEQADLVLAIGTRLS 89 (137)
T ss_dssp EEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEGGGTTSSTTTSTTEEEESCGGSCHHHHHHHHHSSEEEEESSSSS
T ss_pred EEEEcCCcChhhHHHHHHHHHHHHCCCEEecCccccccCCCCchhcccCCccCCHHHHHHhcCCCEEEEECCCCc
Confidence 45555542 4678899999999998765433333332 21 2344578999999986543
No 282
>COG0859 RfaF ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=22.22 E-value=5.8e+02 Score=22.90 Aligned_cols=70 Identities=19% Similarity=0.206 Sum_probs=41.9
Q ss_pred CcEEEEecChhhHHHHHHHHHHcCCccccccccCCccch-HHHhhccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecC
Q psy16262 72 ADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTN-QIQAAFREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 72 ~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN-~i~~~~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDT 150 (222)
-+|++.+.+ .-.+..++.++.++.... +-|..+= .+..+...-|++|- .|.-+.+=|.-+|.|+|||.=.
T Consensus 209 ~~Vvl~g~~-~e~e~~~~i~~~~~~~~~----l~~k~sL~e~~~li~~a~l~I~----~DSg~~HlAaA~~~P~I~iyg~ 279 (334)
T COG0859 209 YQVVLFGGP-DEEERAEEIAKGLPNAVI----LAGKTSLEELAALIAGADLVIG----NDSGPMHLAAALGTPTIALYGP 279 (334)
T ss_pred CEEEEecCh-HHHHHHHHHHHhcCCccc----cCCCCCHHHHHHHHhcCCEEEc----cCChHHHHHHHcCCCEEEEECC
Confidence 366666766 444556666666654432 2222221 12233345677663 4568888999999999999943
No 283
>cd03805 GT1_ALG2_like This family is most closely related to the GT1 family of glycosyltransferases. ALG2, a 1,3-mannosyltransferase, in yeast catalyzes the mannosylation of Man(2)GlcNAc(2)-dolichol diphosphate and Man(1)GlcNAc(2)-dolichol diphosphate to form Man(3)GlcNAc(2)-dolichol diphosphate. A deficiency of this enzyme causes an abnormal accumulation of Man1GlcNAc2-PP-dolichol and Man2GlcNAc2-PP-dolichol, which is associated with a type of congenital disorders of glycosylation (CDG), designated CDG-Ii, in humans.
Probab=22.14 E-value=5.4e+02 Score=22.60 Aligned_cols=97 Identities=14% Similarity=0.105 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHHHHhh---CCCcEEEEecChhh-------HHHHHHHHHH-cCCccccccccCCccchH-HHhhccCCc
Q psy16262 53 RTWEKLLLAARAIVAIE---HPADVFVISSRPIG-------QRAVLKFASY-TGATPIAGRFTPGAFTNQ-IQAAFREPR 120 (222)
Q Consensus 53 ~T~~~L~~a~~~i~~i~---~~~~ILfv~t~~~~-------~~~v~~~a~~-~g~~yv~~rW~gG~LTN~-i~~~~~~P~ 120 (222)
+=...+.+|+..+..-. .+-+++++|..+.. .+.+++.++. .+.. ..-..-|.+.+. +......-|
T Consensus 224 Kg~~~ll~a~~~l~~~~~~~~~~~l~i~G~~~~~~~~~~~~~~~l~~~~~~~~~l~--~~V~f~g~~~~~~~~~~l~~ad 301 (392)
T cd03805 224 KNIALAIEAFAILKDKLAEFKNVRLVIAGGYDPRVAENVEYLEELQRLAEELLLLE--DQVIFLPSISDSQKELLLSSAR 301 (392)
T ss_pred CChHHHHHHHHHHHhhcccccCeEEEEEcCCCCCCchhHHHHHHHHHHHHHhcCCC--ceEEEeCCCChHHHHHHHhhCe
Confidence 33344555555443321 23456778765431 2345555555 3322 111233556664 234456778
Q ss_pred EEEEeCCCCC--chhhhHhhhcCCCEEEEecCCCC
Q psy16262 121 LLVVTDPHTD--HQPITEAAYVNIPVIAFCNTESP 153 (222)
Q Consensus 121 lvii~dp~~d--~~aI~Ea~~l~IP~IalvDTd~~ 153 (222)
++++... .+ -.++-||...|.|+|+- |....
T Consensus 302 ~~l~~s~-~E~~g~~~lEAma~G~PvI~s-~~~~~ 334 (392)
T cd03805 302 ALLYTPS-NEHFGIVPLEAMYAGKPVIAC-NSGGP 334 (392)
T ss_pred EEEECCC-cCCCCchHHHHHHcCCCEEEE-CCCCc
Confidence 8776533 33 46778999999999995 44433
No 284
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=22.14 E-value=3.2e+02 Score=24.59 Aligned_cols=48 Identities=15% Similarity=0.018 Sum_probs=38.0
Q ss_pred ccCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCC
Q psy16262 116 FREPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCN 164 (222)
Q Consensus 116 ~~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~N 164 (222)
.+..|.+|++....+...+......++|+|.+-.+.. ...+++..+-|
T Consensus 112 ~~~vdGiIi~~~~~~~~~~~~l~~~~~P~V~i~~~~~-~~~~~~V~~Dn 159 (333)
T COG1609 112 QKRVDGLILLGERPNDSLLELLAAAGIPVVVIDRSPP-GLGVPSVGIDN 159 (333)
T ss_pred HcCCCEEEEecCCCCHHHHHHHHhcCCCEEEEeCCCc-cCCCCEEEECh
Confidence 3679999999977788888888899999998877666 44577777555
No 285
>COG0215 CysS Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=22.10 E-value=45 Score=32.37 Aligned_cols=34 Identities=21% Similarity=0.255 Sum_probs=23.0
Q ss_pred CchhHHHHHHHHHHHHHhhhCCCCCCCCcccccc---cccCC
Q psy16262 167 SPHSIGLMWWLLAREVLRFRGVIGPDYLTILGTY---IDCSP 205 (222)
Q Consensus 167 s~~si~li~~lL~~ai~~~~g~~~~~~~~~~~~~---~~~~~ 205 (222)
-.....|.+|= + ...|+.+|++||+.|+| +-||-
T Consensus 176 Krnp~DFvLWK---~--sk~gEp~W~SPWG~GRPGWHIECSa 212 (464)
T COG0215 176 KRNPLDFVLWK---A--AKPGEPSWDSPWGKGRPGWHIECSA 212 (464)
T ss_pred cCCchhheeec---c--CCCCCCCCCCCCCCCCCchhHHHHH
Confidence 33444566552 1 34688999999999996 67763
No 286
>cd00636 TroA-like Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between two globular domains linked by a single helix. Many of these proteins also possess a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence). The TroA-like proteins differ in their fold and ligand-binding mechanism from the PBPI and PBPII proteins, but are structurally similar, however, to the beta-subunit of the nitrogenase molybdenum-iron protein MoFe. Most TroA-like proteins are encoded by ABC-type operons and appear to function as periplasmic components of ABC transporters in metal ion uptake.
Probab=22.03 E-value=1.2e+02 Score=22.05 Aligned_cols=32 Identities=16% Similarity=0.336 Sum_probs=22.0
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEec
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCN 149 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvD 149 (222)
-.||+||..+-..+. .......++||++.+..
T Consensus 60 l~pDlvi~~~~~~~~-~~~~l~~~~i~~~~~~~ 91 (148)
T cd00636 60 LKPDLIIANGSGLEA-WLDKLSKIAIPVVVVDE 91 (148)
T ss_pred cCCCEEEEecccchh-HHHHHHHhCCCEEEECC
Confidence 489999987743322 45556777899987744
No 287
>COG0614 FepB ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=21.99 E-value=1.4e+02 Score=25.71 Aligned_cols=33 Identities=15% Similarity=0.295 Sum_probs=26.1
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecC
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDT 150 (222)
-.||+|+..+. .....+.+-...++|++.+-..
T Consensus 114 lkPDlIi~~~~-~~~~~~~~~~~~~~pvv~~~~~ 146 (319)
T COG0614 114 LKPDLIIASSS-SQDDLIYKLLSLGAPVVVVDYG 146 (319)
T ss_pred cCCCEEEEecc-cchhHHHHHHhcCCCEEEECCc
Confidence 46999999886 4456677778889999988665
No 288
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=21.95 E-value=5.8e+02 Score=23.66 Aligned_cols=99 Identities=16% Similarity=0.107 Sum_probs=57.8
Q ss_pred cceeeccCCceeeeHHHHHHHHHHHHHHHHHhh-CCCcE-EEEecCh-h---hHHHHHHHHHHcCCccccccccCCccch
Q psy16262 37 YVYKRRNDGVHILNLRRTWEKLLLAARAIVAIE-HPADV-FVISSRP-I---GQRAVLKFASYTGATPIAGRFTPGAFTN 110 (222)
Q Consensus 37 yIyg~r~ngi~IInL~~T~~~L~~a~~~i~~i~-~~~~I-Lfv~t~~-~---~~~~v~~~a~~~g~~yv~~rW~gG~LTN 110 (222)
.++|.- |-. +++|+++. +..+. +-++| ++-+... . ..+.+++.|++.|..-+.---....--.
T Consensus 135 NvTGvs-D~~---~v~q~i~l-------ik~~~Pnak~Igv~Y~p~E~ns~~l~eelk~~A~~~Gl~vve~~v~~~ndi~ 203 (322)
T COG2984 135 NVTGVS-DLL---PVAQQIEL-------IKALLPNAKSIGVLYNPGEANSVSLVEELKKEARKAGLEVVEAAVTSVNDIP 203 (322)
T ss_pred ceeecC-Ccc---hHHHHHHH-------HHHhCCCCeeEEEEeCCCCcccHHHHHHHHHHHHHCCCEEEEEecCcccccH
Confidence 777877 543 56676542 33332 33455 3333332 1 2355667777888764331111111111
Q ss_pred -HHHhhccCCcEEEEeCCCCC----chhhhHhhhcCCCEEE
Q psy16262 111 -QIQAAFREPRLLVVTDPHTD----HQPITEAAYVNIPVIA 146 (222)
Q Consensus 111 -~i~~~~~~P~lvii~dp~~d----~~aI~Ea~~l~IP~Ia 146 (222)
.++.+...+|.+++..-+.- ..++++|.+.+||+++
T Consensus 204 ~a~~~l~g~~d~i~~p~dn~i~s~~~~l~~~a~~~kiPli~ 244 (322)
T COG2984 204 RAVQALLGKVDVIYIPTDNLIVSAIESLLQVANKAKIPLIA 244 (322)
T ss_pred HHHHHhcCCCcEEEEecchHHHHHHHHHHHHHHHhCCCeec
Confidence 24567789999998864332 6788999999999987
No 289
>PRK06456 acetolactate synthase catalytic subunit; Reviewed
Probab=21.82 E-value=4.5e+02 Score=25.48 Aligned_cols=70 Identities=14% Similarity=0.122 Sum_probs=40.6
Q ss_pred HHHHHHHHHHhhCCCcEEEEecC---hhhHHHHHHHHHHcCCccccccccCCccch--------------H-HHhhccCC
Q psy16262 58 LLLAARAIVAIEHPADVFVISSR---PIGQRAVLKFASYTGATPIAGRFTPGAFTN--------------Q-IQAAFREP 119 (222)
Q Consensus 58 L~~a~~~i~~i~~~~~ILfv~t~---~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN--------------~-i~~~~~~P 119 (222)
+..++..|..- +.-+++++.. ....+.+.++|+++|..++++-.-.|.+-. . ......+.
T Consensus 197 ~~~~~~~L~~A--~rPvil~G~g~~~~~a~~~l~~lae~~~~pv~tt~~gkg~i~~~hp~~~G~~g~~~~~~~~~~~~~a 274 (572)
T PRK06456 197 LKKAAEILINA--ERPIILVGTGVVWSNATPEVLELAELLHIPIVSTFPGKTAIPHDHPLYFGPMGYYGRAEASMAALES 274 (572)
T ss_pred HHHHHHHHHhC--CCcEEEECCCCcccchHHHHHHHHHHhCCCEEEcCccCcCCCCCCccccccCCCCCCHHHHHHHHhC
Confidence 33444444322 3335566643 345678899999999987654222233321 1 11234589
Q ss_pred cEEEEeCCCC
Q psy16262 120 RLLVVTDPHT 129 (222)
Q Consensus 120 ~lvii~dp~~ 129 (222)
|+|+++...-
T Consensus 275 Dlvl~lG~~~ 284 (572)
T PRK06456 275 DAMLVVGARF 284 (572)
T ss_pred CEEEEECCCC
Confidence 9999999754
No 290
>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=21.80 E-value=2.8e+02 Score=19.40 Aligned_cols=73 Identities=12% Similarity=0.230 Sum_probs=38.9
Q ss_pred EEEEecChhhHHHHHHHHHHcCCccccccccCCccchHH---Hh-hccCCcEEEEeCCCCC---chhhhHhhh--cCCCE
Q psy16262 74 VFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQI---QA-AFREPRLLVVTDPHTD---HQPITEAAY--VNIPV 144 (222)
Q Consensus 74 ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i---~~-~~~~P~lvii~dp~~d---~~aI~Ea~~--l~IP~ 144 (222)
||++...+...+.+.+..+..|.. .. +...+.. .. ....||++++=-...+ ...+++.+. -++|+
T Consensus 1 Ilivd~~~~~~~~l~~~l~~~~~~-~v-----~~~~~~~~~~~~~~~~~~d~iiid~~~~~~~~~~~~~~i~~~~~~~~i 74 (112)
T PF00072_consen 1 ILIVDDDPEIRELLEKLLERAGYE-EV-----TTASSGEEALELLKKHPPDLIIIDLELPDGDGLELLEQIRQINPSIPI 74 (112)
T ss_dssp EEEEESSHHHHHHHHHHHHHTTEE-EE-----EEESSHHHHHHHHHHSTESEEEEESSSSSSBHHHHHHHHHHHTTTSEE
T ss_pred cEEEECCHHHHHHHHHHHHhCCCC-EE-----EEECCHHHHHHHhcccCceEEEEEeeeccccccccccccccccccccE
Confidence 567777887777777777744431 11 1222321 11 1245888876532222 222333333 36888
Q ss_pred EEEecCCC
Q psy16262 145 IAFCNTES 152 (222)
Q Consensus 145 IalvDTd~ 152 (222)
|.+.+.+.
T Consensus 75 i~~t~~~~ 82 (112)
T PF00072_consen 75 IVVTDEDD 82 (112)
T ss_dssp EEEESSTS
T ss_pred EEecCCCC
Confidence 88886544
No 291
>PF01866 Diphthamide_syn: Putative diphthamide synthesis protein; InterPro: IPR002728 Members of this family include Q16439 from SWISSPROT, a candidate tumour suppressor gene [], and DPH2 from yeast P32461 from SWISSPROT [], which confers resistance to diphtheria toxin and has been found to be involved in diphthamide synthesis. Diphtheria toxin inhibits eukaryotic protein synthesis by ADP-ribosylating diphthamide, a posttranslationally modified histidine residue present in EF2. The exact function of the members of this family is unknown.; GO: 0017183 peptidyl-diphthamide biosynthetic process from peptidyl-histidine, 0005737 cytoplasm; PDB: 3LZD_B 3LZC_A.
Probab=21.74 E-value=4.4e+02 Score=23.65 Aligned_cols=85 Identities=15% Similarity=0.171 Sum_probs=38.5
Q ss_pred HHHHHHHHHHhhCCCcE-EEEecCh-hh----HHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEEEeCCCCCc
Q psy16262 58 LLLAARAIVAIEHPADV-FVISSRP-IG----QRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLVVTDPHTDH 131 (222)
Q Consensus 58 L~~a~~~i~~i~~~~~I-Lfv~t~~-~~----~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvii~dp~~d~ 131 (222)
|++....+.+.++.+.+ +++||+. +. -+.+++.+++.|-.+.. +.-|-+|-..-+++.+-|+.|++.+. +
T Consensus 196 l~~R~~~i~ka~~a~~~GIiv~tl~~q~~~~~~~~l~~~l~~~gkk~y~--~~~~~i~~~kL~nf~eid~fV~~aCP--r 271 (307)
T PF01866_consen 196 LRRRYALIEKAKDAKTFGIIVGTLGGQGYLELIKRLKKLLKKAGKKSYT--LSVGEINPAKLANFPEIDAFVQIACP--R 271 (307)
T ss_dssp HHHHHHHHHHHTT--EEEEEEE-STTT--HHHHHHHHHHHHHTT-EEEE--EEESS--GGGGTTS---SEEEE-S-T--H
T ss_pred HHHHHHHHHHHhcCCEEEEEEecCCCCCCHHHHHHHHHHHHHcCCEEEE--EEECCCCHHHHhcCcccCEEEEecCC--C
Confidence 33444444455555555 4677764 22 23445566666655332 44455655555566678888888754 4
Q ss_pred hhhhHhhhcCCCEEE
Q psy16262 132 QPITEAAYVNIPVIA 146 (222)
Q Consensus 132 ~aI~Ea~~l~IP~Ia 146 (222)
.++-+......|++.
T Consensus 272 ~~idd~~~f~kPvlt 286 (307)
T PF01866_consen 272 LSIDDSKDFYKPVLT 286 (307)
T ss_dssp HHHT--S--SS-EE-
T ss_pred cccCchhhcCCcccC
Confidence 677777888888864
No 292
>cd05010 SIS_AgaS_like AgaS-like protein. AgaS contains a SIS (Sugar ISomerase) domain which is found in many phosphosugar isomerases and phosphosugar binding proteins. AgaS is a putative isomerase in Escherichia coli. It is similar to the glucosamine-6-phosphate synthases (GlmS) which catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source.
Probab=21.74 E-value=4.2e+02 Score=21.15 Aligned_cols=66 Identities=18% Similarity=-0.021 Sum_probs=36.6
Q ss_pred hhhhHhhhc--CCCEEEEecCCCCCC---cce---EEccCCCCCchhHHHH--HHHHHHHHHhhhCCCCCCCCccccc
Q psy16262 132 QPITEAAYV--NIPVIAFCNTESPLR---FVD---IAIPCNNKSPHSIGLM--WWLLAREVLRFRGVIGPDYLTILGT 199 (222)
Q Consensus 132 ~aI~Ea~~l--~IP~IalvDTd~~~~---~Id---ypIP~Ndds~~si~li--~~lL~~ai~~~~g~~~~~~~~~~~~ 199 (222)
.+++|.... |=.++++.+. .+.. .-+ ..+|..++-...+.++ +.+|+..+...+|- +++.|+..|.
T Consensus 68 ~~~~ei~~~~~g~~vi~i~~~-~~~~~~~~~~~~l~~~~~~~~~l~p~~~iip~Qlla~~~A~~~G~-dpD~Pr~~~~ 143 (151)
T cd05010 68 DLLKELRRDGIAARVIAISPE-SDAGIEDNSHYYLPGSRDLDDVYLAFPYILYAQLFALFNSIALGL-TPDNPCPSGT 143 (151)
T ss_pred HHHHHHHhccCCCeEEEEEcC-CccccccccceeecccCCcccHHHHHHHHHHHHHHHHHHHHHcCC-CCCCCCCCCe
Confidence 678998887 5777777543 1111 012 3344555434444333 35666666655554 4677777664
No 293
>PF13528 Glyco_trans_1_3: Glycosyl transferase family 1
Probab=21.63 E-value=97 Score=26.92 Aligned_cols=35 Identities=29% Similarity=0.276 Sum_probs=26.5
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCCCC
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTESPL 154 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~ 154 (222)
..||+|| .| .+..+..-|+..|+|+|++.|-....
T Consensus 93 ~~pDlVI-sD--~~~~~~~aa~~~giP~i~i~~~~~~~ 127 (318)
T PF13528_consen 93 FRPDLVI-SD--FYPLAALAARRAGIPVIVISNQYWFL 127 (318)
T ss_pred cCCCEEE-Ec--ChHHHHHHHHhcCCCEEEEEehHHcc
Confidence 4799987 44 34456788899999999999876544
No 294
>PRK13608 diacylglycerol glucosyltransferase; Provisional
Probab=21.54 E-value=61 Score=29.75 Aligned_cols=35 Identities=31% Similarity=0.447 Sum_probs=26.1
Q ss_pred cCCcEEEEeCCCCCchhhhHhhhcCCCEEEEecCCC
Q psy16262 117 REPRLLVVTDPHTDHQPITEAAYVNIPVIAFCNTES 152 (222)
Q Consensus 117 ~~P~lvii~dp~~d~~aI~Ea~~l~IP~IalvDTd~ 152 (222)
..||+|+.+-|......++.+..++||++.+ -||.
T Consensus 103 ~kPDvVi~~~p~~~~~~l~~~~~~~iP~~~v-~td~ 137 (391)
T PRK13608 103 EKPDLILLTFPTPVMSVLTEQFNINIPVATV-MTDY 137 (391)
T ss_pred hCcCEEEECCcHHHHHHHHHhcCCCCCEEEE-eCCC
Confidence 5899999987765556667777889999754 4554
No 295
>cd01745 GATase1_2 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=21.45 E-value=3.4e+02 Score=22.32 Aligned_cols=20 Identities=15% Similarity=0.313 Sum_probs=16.8
Q ss_pred chhhhHhhhcCCCEEEEecC
Q psy16262 131 HQPITEAAYVNIPVIAFCNT 150 (222)
Q Consensus 131 ~~aI~Ea~~l~IP~IalvDT 150 (222)
..+++++...++|+.|+|--
T Consensus 90 ~~~~~~~~~~~~PilgiC~G 109 (189)
T cd01745 90 LALLRAALERGKPILGICRG 109 (189)
T ss_pred HHHHHHHHHCCCCEEEEcch
Confidence 46777888889999999976
No 296
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=21.31 E-value=2.9e+02 Score=23.68 Aligned_cols=42 Identities=17% Similarity=0.175 Sum_probs=27.4
Q ss_pred CcEEEEe--CCCCCchhhhHhhhcCCCEEEEecCCCCCCcceEEccCC
Q psy16262 119 PRLLVVT--DPHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIAIPCN 164 (222)
Q Consensus 119 P~lvii~--dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~~IdypIP~N 164 (222)
+++||+. |+.-|..+.+.|+..+||+=.. .+|+.-|+.+|+-
T Consensus 73 ~~lviaAt~d~~ln~~i~~~a~~~~i~vNv~----D~p~~~~f~~Pa~ 116 (210)
T COG1648 73 AFLVIAATDDEELNERIAKAARERRILVNVV----DDPELCDFIFPAI 116 (210)
T ss_pred ceEEEEeCCCHHHHHHHHHHHHHhCCceecc----CCcccCceeccee
Confidence 6666665 3456688999999999976433 3344455555554
No 297
>PLN02981 glucosamine:fructose-6-phosphate aminotransferase
Probab=21.28 E-value=8.6e+02 Score=24.56 Aligned_cols=127 Identities=16% Similarity=0.163 Sum_probs=70.5
Q ss_pred hCCCcEEEEecChhhH---HHHHHHHHHc---CCccccccccCCccchHHHhhccCCc-EEEEeCCCC-----CchhhhH
Q psy16262 69 EHPADVFVISSRPIGQ---RAVLKFASYT---GATPIAGRFTPGAFTNQIQAAFREPR-LLVVTDPHT-----DHQPITE 136 (222)
Q Consensus 69 ~~~~~ILfv~t~~~~~---~~v~~~a~~~---g~~yv~~rW~gG~LTN~i~~~~~~P~-lvii~dp~~-----d~~aI~E 136 (222)
.+..++.|++...... +.-.|+-+.+ -..|-.+.|..|-+ .+. .|+ .||++.+.. ....++|
T Consensus 532 ~~~~~~~~lG~G~~yg~A~EgALKlkE~s~i~a~gy~~~Ef~HGP~-----ali-~~~t~vi~l~~~~~~~~~~~~~~~e 605 (680)
T PLN02981 532 IDEQSLLVFGRGYNYATALEGALKVKEVALMHSEGILAGEMKHGPL-----ALV-DETLPIIVIATRDACFSKQQSVIQQ 605 (680)
T ss_pred hCCCcEEEEeCCCCHHHHHHHHHHHHHHHHhhhccEEhhhcccChH-----Hhc-cCCceEEEEEcCCchHHHHHHHHHH
Confidence 3557888999886542 2222333322 33455566776732 222 333 455555433 2467899
Q ss_pred hhhcCCCEEEEecCCC------CCCcceEEccCCCCCchhHH--HHHHHHHHHHHhhhCCCCCCCCcccccccc
Q psy16262 137 AAYVNIPVIAFCNTES------PLRFVDIAIPCNNKSPHSIG--LMWWLLAREVLRFRGVIGPDYLTILGTYID 202 (222)
Q Consensus 137 a~~l~IP~IalvDTd~------~~~~IdypIP~Ndds~~si~--li~~lL~~ai~~~~g~~~~~~~~~~~~~~~ 202 (222)
.+..+-.+++|.+.+. +.....+.+|..++-...+- ..+.+|+..+...+|- +++.|+.|..-++
T Consensus 606 l~~~g~~vi~I~~~~~~~~~~~~~~~~~i~~p~~~~~l~pll~iiplQllAy~~A~~~G~-dpD~PRnLaK~vt 678 (680)
T PLN02981 606 LRARKGRLIVICSKGDASSVCPSGGCRVIEVPQVEDCLQPVINIVPLQLLAYHLTVLRGH-NVDQPRNLAKSVT 678 (680)
T ss_pred HHHcCCEEEEEEcCCcchhccccCCCeEEEEeccchHHhHHHHHHHHHHHHHHHHHHhCC-CCCCCCCCCccEE
Confidence 9999999999876532 11123466776544233332 2346666666665654 4677777765443
No 298
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=21.22 E-value=2e+02 Score=24.52 Aligned_cols=90 Identities=20% Similarity=0.229 Sum_probs=58.7
Q ss_pred CCCcEEEEecChhhHHHHHHHHHHcCCcccc-ccc--cCCccchHHHhhccCCcEEEEeCCCCCchhhhHhhhcCCC---
Q psy16262 70 HPADVFVISSRPIGQRAVLKFASYTGATPIA-GRF--TPGAFTNQIQAAFREPRLLVVTDPHTDHQPITEAAYVNIP--- 143 (222)
Q Consensus 70 ~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~-~rW--~gG~LTN~i~~~~~~P~lvii~dp~~d~~aI~Ea~~l~IP--- 143 (222)
.+.++.+||.... ..+..+|++.|..++. .+. ..|.||-++.. .++....+...+-+-+.++|++
T Consensus 92 ~G~~v~iiSgg~~--~lv~~ia~~lg~d~~~an~l~~~dG~ltG~v~g-------~~~~~~~K~~~l~~~~~~~g~~~~~ 162 (212)
T COG0560 92 AGAKVVIISGGFT--FLVEPIAERLGIDYVVANELEIDDGKLTGRVVG-------PICDGEGKAKALRELAAELGIPLEE 162 (212)
T ss_pred CCCEEEEEcCChH--HHHHHHHHHhCCchheeeEEEEeCCEEeceeee-------eecCcchHHHHHHHHHHHcCCCHHH
Confidence 4567878877776 4788899999887533 221 22445554311 1222233334444666778999
Q ss_pred EEEEecCCCCCC---cceEEccCCCCCc
Q psy16262 144 VIAFCNTESPLR---FVDIAIPCNNKSP 168 (222)
Q Consensus 144 ~IalvDTd~~~~---~IdypIP~Ndds~ 168 (222)
++|.-|+..|.. .++.||--|-+..
T Consensus 163 ~~a~gDs~nDlpml~~ag~~ia~n~~~~ 190 (212)
T COG0560 163 TVAYGDSANDLPMLEAAGLPIAVNPKPK 190 (212)
T ss_pred eEEEcCchhhHHHHHhCCCCeEeCcCHH
Confidence 999999999876 4888998887744
No 299
>COG4213 XylF ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=21.09 E-value=2.1e+02 Score=26.71 Aligned_cols=88 Identities=20% Similarity=0.161 Sum_probs=56.9
Q ss_pred HHHHHHHcCCccccccccCCccchHHH---hh-ccCCcEEEEeC--CCCCchhhhHhhhcCCCEEEEecCCCCCCcceEE
Q psy16262 87 VLKFASYTGATPIAGRFTPGAFTNQIQ---AA-FREPRLLVVTD--PHTDHQPITEAAYVNIPVIAFCNTESPLRFVDIA 160 (222)
Q Consensus 87 v~~~a~~~g~~yv~~rW~gG~LTN~i~---~~-~~~P~lvii~d--p~~d~~aI~Ea~~l~IP~IalvDTd~~~~~Idyp 160 (222)
+.+.++..|..+.. ..-.|.-+|++. +| .+-|+.++|.- ...=..+|++|..-|||+||- |.-..-..+||-
T Consensus 47 ~~~~~e~~g~k~~~-q~A~~~~~~Q~~qien~i~qg~~vlvi~a~d~~~l~~~i~~A~~~gikViaY-DRlI~n~dvd~Y 124 (341)
T COG4213 47 FVKKAEALGAKVDV-QSADGDEEKQLAQIENMINQGVKVLVIGAIDGGVLSNAVEKAKSEGIKVIAY-DRLINNADVDFY 124 (341)
T ss_pred HHHHHHhccchhhh-hhhccChhHHHHHHHHHHhcCCCEEEEEeccchhHHHHHHHHHHcCCeEEEe-ecccccCCccEE
Confidence 33445555665433 566788888753 33 46799999885 444478999999999999994 443333567777
Q ss_pred ccCCCCCchhHHHHHHHHHHHH
Q psy16262 161 IPCNNKSPHSIGLMWWLLAREV 182 (222)
Q Consensus 161 IP~Ndds~~si~li~~lL~~ai 182 (222)
+--+|...- .+-+.++
T Consensus 125 vsFDN~~VG------~lQa~~l 140 (341)
T COG4213 125 VSFDNEKVG------ELQAKAL 140 (341)
T ss_pred EEecchhHH------HHHHHHH
Confidence 765554433 3445566
No 300
>PRK09522 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=20.92 E-value=4.4e+02 Score=25.91 Aligned_cols=74 Identities=14% Similarity=0.220 Sum_probs=38.7
Q ss_pred cEEEEecChhhHHHHHHHHHHcCCcccccccc-C-CccchHHHhh-ccCCcEEEEeC-CCCCc-----hhhhHhhhcCCC
Q psy16262 73 DVFVISSRPIGQRAVLKFASYTGATPIAGRFT-P-GAFTNQIQAA-FREPRLLVVTD-PHTDH-----QPITEAAYVNIP 143 (222)
Q Consensus 73 ~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~-g-G~LTN~i~~~-~~~P~lvii~d-p~~d~-----~aI~Ea~~l~IP 143 (222)
+||+|....+....+....+..|.....-++. + +.. .... ...||.||+.. |.... ..+-|....++|
T Consensus 3 ~iLiIDn~dsft~nl~~~lr~~g~~v~V~~~~~~~~~~---~~~l~~~~~~~IIlSpGPg~p~d~~~~~~i~~~~~~~iP 79 (531)
T PRK09522 3 DILLLDNIDSFTYNLADQLRSNGHNVVIYRNHIPAQTL---IERLATMSNPVLMLSPGPGVPSEAGCMPELLTRLRGKLP 79 (531)
T ss_pred eEEEEeCCChHHHHHHHHHHHCCCCEEEEECCCCCccC---HHHHHhcCcCEEEEcCCCCChhhCCCCHHHHHHHhcCCC
Confidence 58888888766555555545566543332321 1 111 1111 23588877773 32211 122332345899
Q ss_pred EEEEec
Q psy16262 144 VIAFCN 149 (222)
Q Consensus 144 ~IalvD 149 (222)
+.|+|=
T Consensus 80 ILGICl 85 (531)
T PRK09522 80 IIGICL 85 (531)
T ss_pred EEEEcH
Confidence 999984
No 301
>cd06831 PLPDE_III_ODC_like_AZI Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase-like Antizyme Inhibitor. Antizyme inhibitor (AZI) is homologous to the fold type III PLP-dependent enzyme ODC but does not retain any decarboxylase activity. Like ODC, AZI is presumed to exist as a homodimer. Antizyme is a regulatory protein that binds directly to the ODC monomer to block its active site, leading to its degradation by the 26S proteasome. AZI binds to Antizyme with a higher affinity than ODC, preventing the formation of the Antizyme-ODC complex. Thus, AZI blocks the ability of Antizyme to promote ODC degradation, which leads to increased ODC enzymatic activity and polyamine levels. AZI also prevents the degradation of other proteins regulated by Antizyme, such as cyclin D1.
Probab=20.91 E-value=6.2e+02 Score=23.57 Aligned_cols=103 Identities=17% Similarity=0.180 Sum_probs=60.5
Q ss_pred CCceeeeHHHHHHHHHHHHHHHHHhhCCCcEEEEecChhhHHHHHHHHHHcCCccccccccCCccchHHHhhccCCcEEE
Q psy16262 44 DGVHILNLRRTWEKLLLAARAIVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIAGRFTPGAFTNQIQAAFREPRLLV 123 (222)
Q Consensus 44 ngi~IInL~~T~~~L~~a~~~i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~~rW~gG~LTN~i~~~~~~P~lvi 123 (222)
.-+++.|++...+++ ..+...-.+-++ +-.-|......+.++....|..+=. =-+|-+---. +.-..|+-|+
T Consensus 13 ~p~yv~d~~~i~~~~----~~l~~~lp~~~~-~YAvKaN~~~~il~~l~~~G~g~Dv--aS~gEl~~al-~~G~~~~~Ii 84 (394)
T cd06831 13 NAFFVGDLGKIVKKH----SQWQTVMAQIKP-FYTVRCNSTPAVLEILAALGTGFAC--SSKNEMALVQ-ELGVSPENII 84 (394)
T ss_pred CCeEEEEHHHHHHHH----HHHHHHCCCCeE-EeeeccCCCHHHHHHHHHcCCCeEe--CCHHHHHHHH-hcCCCcCCEE
Confidence 678999998765443 333321122233 3344444334566666666654311 1122222222 2224788899
Q ss_pred EeCCCCCchhhhHhhhcCCCEEEEecCCCCCC
Q psy16262 124 VTDPHTDHQPITEAAYVNIPVIAFCNTESPLR 155 (222)
Q Consensus 124 i~dp~~d~~aI~Ea~~l~IP~IalvDTd~~~~ 155 (222)
..+|.+...-|++|.+.|+.++ .+||-..++
T Consensus 85 f~gp~K~~~~l~~a~~~Gv~~i-~vDS~~El~ 115 (394)
T cd06831 85 YTNPCKQASQIKYAAKVGVNIM-TCDNEIELK 115 (394)
T ss_pred EeCCCCCHHHHHHHHHCCCCEE-EECCHHHHH
Confidence 9999999999999999999877 467654443
No 302
>PF11895 DUF3415: Domain of unknown function (DUF3415); InterPro: IPR024589 Peroxidases are haem-containing enzymes that use hydrogen peroxide as the electron acceptor to catalyse a number of oxidative reactions. Peroxidases are found in bacteria, fungi, plants and animals. Fungal ligninases are extracellular haem enzymes involved in the degradation of lignin. They include lignin peroxidases (LiPs), manganese-dependent peroxidases (MnPs) and versatile peroxidases, which combine the substrate-specificity characteristics of the other two []. In MnP, Mn2+ serves as the reducing substrate []. It is commonly thought that the plant polymer lignin is the second most abundant organic compound on Earth, exceeded only by cellulose. Higher plants synthesise vast quantities of insoluble macromolecules, including lignins. Lignin is an amorphous three-dimensional aromatic biopolymer composed of oxyphenylpropane units. Biodegradation of lignins is slow - it is probable that their decomposition is the rate-limiting step in the biospheric carbon-oxygen cycle, which is mediated almost entirely by the catabolic activities of microorganisms. The white-rot fungi are able extensively to decompose all the important structural components of wood, including both cellulose and lignin. Under the proper environmental conditions, white-rot fungi completely degrade all structural components of lignin, with ultimate formation of CO2 and H2O. The first step in lignin degradation is depolymerisation, catalysed by the LiPs (ligninases). LiPs are secreted, along with hydrogen peroxide (H2O2), by white-rot fungi under conditions of nutrient limitation. The enzymes are not only important in lignin biodegradation, but are also potentially valuable in chemical waste disposal because of their ability to degrade environmental pollutants []. To date, 3D structures have been determined for LiP [] and MnP [] from Phanerochaete chrysosporium (White-rot fungus), and for the fungal peroxidase from Arthromyces ramosus []. All these proteins share the same architecture and consist of 2 all-alpha domains, between which is embedded the haem group. The helical topography of LiPs is nearly identical to that of yeast cytochrome c peroxidase (CCP) [], despite the former having 4 disulphide bonds, which are absent in CCP (MnP has an additional disulphide bond at the C terminus). This uncharacterised C-terminal domain is found in fungal ligninases. It is about 80 amino acids in length and associated with Pfam:PF00141.; PDB: 1B85_B 1B82_A 1B80_A 1YYG_A 1YZP_A 1MNP_A 1MN1_A 1YZR_A 1MN2_A 3M8M_A ....
Probab=20.66 E-value=73 Score=23.57 Aligned_cols=17 Identities=35% Similarity=0.526 Sum_probs=9.1
Q ss_pred ccccccCCCCCCCCCCc
Q psy16262 198 GTYIDCSPYIPTYPNAV 214 (222)
Q Consensus 198 ~~~~~~~~~~~~~~~~~ 214 (222)
...+|||+-+|+++.+.
T Consensus 22 ~~LiDCSdVIP~p~p~~ 38 (80)
T PF11895_consen 22 SDLIDCSDVIPVPKPLT 38 (80)
T ss_dssp GGSEE-GGGS----S-S
T ss_pred hhcccchhhccCCCCCC
Confidence 67899999999987543
No 303
>PRK11018 hypothetical protein; Provisional
Probab=20.65 E-value=2.9e+02 Score=19.58 Aligned_cols=36 Identities=17% Similarity=0.108 Sum_probs=26.2
Q ss_pred HHHhhCCCcEEEEecChhhHHHHHHHHHHcCCcccc
Q psy16262 65 IVAIEHPADVFVISSRPIGQRAVLKFASYTGATPIA 100 (222)
Q Consensus 65 i~~i~~~~~ILfv~t~~~~~~~v~~~a~~~g~~yv~ 100 (222)
+..+..+..+.++.+.+....-+..+++..|...+.
T Consensus 29 l~~l~~G~~L~V~~d~~~a~~di~~~~~~~G~~v~~ 64 (78)
T PRK11018 29 LPQLKKGEILEVVSDCPQSINNIPLDARNHGYTVLD 64 (78)
T ss_pred HHhCCCCCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 444444555667888888888899999999987654
No 304
>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=20.41 E-value=3.7e+02 Score=22.72 Aligned_cols=62 Identities=13% Similarity=0.059 Sum_probs=36.4
Q ss_pred ccCCcEEEEeCCCC-CchhhhHhhhcCCCEEEEecCCCCC------CcceEEccCCCCCchhHHHHHHHHHH
Q psy16262 116 FREPRLLVVTDPHT-DHQPITEAAYVNIPVIAFCNTESPL------RFVDIAIPCNNKSPHSIGLMWWLLAR 180 (222)
Q Consensus 116 ~~~P~lvii~dp~~-d~~aI~Ea~~l~IP~IalvDTd~~~------~~IdypIP~Ndds~~si~li~~lL~~ 180 (222)
.+.+|.||+..... ....++++...++|.|.+.|...+. ..++|.- .|...+.......|.+
T Consensus 58 ~~~vDgiIv~~~~~~~~~~~~~l~~~~~p~V~i~~~~~~~~~~~~~~~~~~V~---~d~~~~g~~~~~~L~~ 126 (280)
T cd06303 58 QSKPDYLIFTLDSLRHRKLIERVLASGKTKIILQNITTPVKAWLKHQPLLYVG---FDHAAGARLLADYFIK 126 (280)
T ss_pred HcCCCEEEEcCCchhhHHHHHHHHhCCCCeEEEeCCCCCccccccCCCceEeC---CCHHHHHHHHHHHHHH
Confidence 36799888764322 2356788888899999888854321 1234433 2444555555554443
Done!