Query psy13427
Match_columns 268
No_of_seqs 132 out of 1355
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 19:11:44 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy13427.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/13427hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0832|consensus 100.0 1.8E-63 3.8E-68 441.3 17.9 214 39-256 20-249 (251)
2 COG0052 RpsB Ribosomal protein 100.0 1.3E-63 2.8E-68 448.2 15.1 183 67-253 4-228 (252)
3 TIGR01012 Sa_S2_E_A ribosomal 100.0 9.4E-62 2E-66 426.5 18.0 176 65-251 2-178 (196)
4 PRK05299 rpsB 30S ribosomal pr 100.0 7.7E-61 1.7E-65 436.9 18.4 188 66-257 3-233 (258)
5 TIGR01011 rpsB_bact ribosomal 100.0 1.8E-60 4E-65 426.8 18.0 180 67-250 2-224 (225)
6 PRK04020 rps2P 30S ribosomal p 100.0 2E-60 4.3E-65 420.4 17.8 177 64-251 7-184 (204)
7 PRK12311 rpsB 30S ribosomal pr 100.0 2.7E-60 5.9E-65 444.8 16.9 181 69-253 1-224 (326)
8 PTZ00254 40S ribosomal protein 100.0 3.7E-59 8E-64 422.0 18.3 182 59-251 6-188 (249)
9 CHL00067 rps2 ribosomal protei 100.0 2E-58 4.2E-63 414.9 17.9 181 65-249 6-229 (230)
10 cd01425 RPS2 Ribosomal protein 100.0 6.6E-57 1.4E-61 394.8 16.9 172 72-247 1-193 (193)
11 PF00318 Ribosomal_S2: Ribosom 100.0 1.4E-55 3E-60 391.4 16.1 174 72-249 1-211 (211)
12 KOG0830|consensus 100.0 2.2E-36 4.8E-41 269.4 11.1 155 87-249 2-157 (254)
13 cd05007 SIS_Etherase N-acetylm 95.7 0.14 3.1E-06 46.9 11.4 141 107-247 29-201 (257)
14 TIGR03127 RuMP_HxlB 6-phospho 95.7 0.16 3.5E-06 43.2 10.8 43 175-217 70-112 (179)
15 PRK05441 murQ N-acetylmuramic 95.5 0.2 4.3E-06 47.1 11.7 143 106-248 41-215 (299)
16 PRK12570 N-acetylmuramic acid- 95.1 0.26 5.6E-06 46.3 10.9 141 107-247 38-210 (296)
17 cd05005 SIS_PHI Hexulose-6-pho 95.0 0.44 9.5E-06 40.7 11.4 54 175-228 73-130 (179)
18 PRK00414 gmhA phosphoheptose i 94.8 0.61 1.3E-05 40.9 12.0 118 109-228 26-164 (192)
19 cd05006 SIS_GmhA Phosphoheptos 94.0 1 2.3E-05 38.3 11.3 116 110-228 16-156 (177)
20 PRK11557 putative DNA-binding 93.8 1.2 2.6E-05 40.5 12.1 93 125-225 126-225 (278)
21 PRK10886 DnaA initiator-associ 93.8 0.82 1.8E-05 40.5 10.6 106 109-215 23-147 (196)
22 PF13580 SIS_2: SIS domain; PD 93.2 0.22 4.8E-06 41.1 5.7 101 110-211 18-137 (138)
23 PRK13938 phosphoheptose isomer 93.2 1.5 3.4E-05 38.7 11.3 118 107-225 25-163 (196)
24 PRK11302 DNA-binding transcrip 93.0 1.9 4E-05 39.2 12.0 50 175-224 173-223 (284)
25 PRK13936 phosphoheptose isomer 92.7 1.2 2.6E-05 39.0 10.0 101 110-216 26-150 (197)
26 COG0279 GmhA Phosphoheptose is 92.7 1.2 2.6E-05 39.1 9.5 122 107-228 21-164 (176)
27 PF10087 DUF2325: Uncharacteri 92.6 0.26 5.6E-06 38.3 5.0 79 129-210 1-81 (97)
28 PRK13937 phosphoheptose isomer 92.3 3.1 6.7E-05 36.1 11.9 102 110-217 21-146 (188)
29 TIGR00274 N-acetylmuramic acid 92.2 1.3 2.8E-05 41.5 10.0 142 106-247 36-209 (291)
30 TIGR00441 gmhA phosphoheptose 92.0 2.2 4.8E-05 35.8 10.3 52 175-226 77-130 (154)
31 PRK15482 transcriptional regul 91.8 4.2 9.1E-05 37.2 12.8 55 175-229 180-238 (285)
32 PRK10892 D-arabinose 5-phospha 91.4 2.9 6.3E-05 38.9 11.5 104 106-217 25-134 (326)
33 PRK11337 DNA-binding transcrip 91.4 4.6 9.9E-05 37.0 12.6 54 175-228 185-242 (292)
34 cd05013 SIS_RpiR RpiR-like pro 90.2 1.8 3.9E-05 34.0 7.7 51 176-226 59-111 (139)
35 PRK02947 hypothetical protein; 89.6 4 8.7E-05 37.1 10.4 104 110-214 23-143 (246)
36 PRK11382 frlB fructoselysine-6 88.6 8.1 0.00018 36.6 12.1 112 111-228 30-145 (340)
37 PF01380 SIS: SIS domain SIS d 88.5 0.99 2.1E-05 35.5 5.0 98 125-230 3-110 (131)
38 PRK08674 bifunctional phosphog 87.5 12 0.00026 35.4 12.4 127 110-246 12-153 (337)
39 PRK14101 bifunctional glucokin 87.1 5.9 0.00013 40.8 10.9 52 175-226 513-565 (638)
40 cd05014 SIS_Kpsf KpsF-like pro 86.8 2.3 5E-05 33.6 6.2 50 175-224 45-96 (128)
41 PRK00331 glucosamine--fructose 86.6 7.4 0.00016 39.7 11.2 97 125-227 287-388 (604)
42 PRK11543 gutQ D-arabinose 5-ph 86.6 12 0.00026 34.6 11.7 43 175-217 87-129 (321)
43 cd05710 SIS_1 A subgroup of th 84.0 1.6 3.5E-05 35.0 4.0 54 176-229 46-101 (120)
44 PLN02335 anthranilate synthase 82.5 3.8 8.3E-05 36.7 6.3 82 124-211 15-98 (222)
45 PRK06774 para-aminobenzoate sy 81.5 3.9 8.5E-05 35.3 5.8 76 130-212 2-80 (191)
46 PRK11070 ssDNA exonuclease Rec 80.7 11 0.00024 38.8 9.5 105 105-214 48-160 (575)
47 cd05009 SIS_GlmS_GlmD_2 SIS (S 80.6 13 0.00028 29.9 8.4 113 126-247 12-136 (153)
48 TIGR03088 stp2 sugar transfera 80.1 31 0.00067 31.8 11.7 101 108-219 207-310 (374)
49 cd05008 SIS_GlmS_GlmD_1 SIS (S 78.7 4.8 0.0001 31.7 5.1 43 175-217 44-86 (126)
50 PF13241 NAD_binding_7: Putati 78.2 0.78 1.7E-05 36.0 0.3 95 126-226 6-103 (103)
51 COG1737 RpiR Transcriptional r 77.5 36 0.00078 31.4 11.2 73 175-247 175-259 (281)
52 PRK07649 para-aminobenzoate/an 76.4 6.9 0.00015 34.3 5.9 76 130-211 2-79 (195)
53 TIGR00393 kpsF KpsF/GutQ famil 75.4 22 0.00048 31.7 9.0 51 175-225 45-97 (268)
54 PTZ00295 glucosamine-fructose- 74.1 25 0.00055 36.3 10.1 49 177-226 369-420 (640)
55 CHL00101 trpG anthranilate syn 74.0 7.5 0.00016 33.7 5.4 77 130-212 2-80 (190)
56 PRK09922 UDP-D-galactose:(gluc 73.4 41 0.00089 31.2 10.6 113 127-248 210-329 (359)
57 PRK07765 para-aminobenzoate sy 71.2 13 0.00027 33.1 6.3 79 129-212 2-84 (214)
58 PRK15408 autoinducer 2-binding 71.1 34 0.00074 32.2 9.5 103 115-224 11-124 (336)
59 TIGR00566 trpG_papA glutamine 70.1 9.9 0.00022 32.9 5.3 75 130-211 2-79 (188)
60 PRK05670 anthranilate synthase 70.0 9.7 0.00021 32.8 5.2 76 129-211 1-79 (189)
61 COG2103 Predicted sugar phosph 67.5 22 0.00048 33.5 7.2 142 106-247 39-212 (298)
62 TIGR01470 cysG_Nterm siroheme 66.8 13 0.00027 33.0 5.3 29 177-207 69-97 (205)
63 PRK08007 para-aminobenzoate sy 66.4 16 0.00035 31.6 5.9 76 130-211 2-79 (187)
64 cd06295 PBP1_CelR Ligand bindi 65.7 9.2 0.0002 33.5 4.3 46 176-226 63-108 (275)
65 PRK08857 para-aminobenzoate sy 64.6 16 0.00034 31.7 5.4 76 130-211 2-79 (193)
66 cd05017 SIS_PGI_PMI_1 The memb 64.1 5 0.00011 31.9 2.1 58 175-233 41-105 (119)
67 PLN02981 glucosamine:fructose- 62.5 85 0.0018 32.9 11.2 95 125-225 361-460 (680)
68 TIGR02815 agaS_fam putative su 60.1 1.6E+02 0.0034 28.4 11.9 116 127-246 42-175 (372)
69 cd06325 PBP1_ABC_uncharacteriz 59.8 43 0.00092 29.2 7.4 104 115-224 119-232 (281)
70 PF04007 DUF354: Protein of un 59.2 35 0.00075 32.7 7.1 100 104-215 5-114 (335)
71 TIGR01815 TrpE-clade3 anthrani 58.5 60 0.0013 34.4 9.3 79 126-211 515-595 (717)
72 cd03812 GT1_CapH_like This fam 56.4 1.3E+02 0.0027 27.0 10.0 89 111-210 208-296 (358)
73 cd03796 GT1_PIG-A_like This fa 55.0 1.8E+02 0.004 27.3 11.3 94 107-210 205-299 (398)
74 cd06267 PBP1_LacI_sugar_bindin 54.7 62 0.0013 27.4 7.4 61 175-243 53-113 (264)
75 cd01743 GATase1_Anthranilate_S 53.8 37 0.00081 28.8 5.8 77 130-212 1-79 (184)
76 PLN02846 digalactosyldiacylgly 53.1 62 0.0013 32.4 8.0 91 107-210 240-330 (462)
77 PF13528 Glyco_trans_1_3: Glyc 52.6 26 0.00056 31.7 4.9 34 176-216 93-126 (318)
78 cd06294 PBP1_ycjW_transcriptio 52.2 38 0.00083 29.2 5.8 60 176-243 59-119 (270)
79 TIGR01135 glmS glucosamine--fr 52.1 35 0.00076 34.8 6.3 52 176-227 337-390 (607)
80 TIGR00644 recJ single-stranded 51.8 92 0.002 31.6 9.2 100 110-213 37-143 (539)
81 TIGR00888 guaA_Nterm GMP synth 51.8 33 0.00072 29.3 5.2 76 130-212 1-78 (188)
82 PTZ00394 glucosamine-fructose- 51.3 1.3E+02 0.0028 31.6 10.3 51 176-226 400-452 (670)
83 cd03819 GT1_WavL_like This fam 51.1 1.8E+02 0.0039 25.9 12.1 96 111-217 201-300 (355)
84 cd01427 HAD_like Haloacid deha 50.2 40 0.00086 25.3 5.0 36 115-152 28-63 (139)
85 COG1879 RbsB ABC-type sugar tr 50.1 52 0.0011 30.0 6.6 67 174-246 88-156 (322)
86 PRK13566 anthranilate synthase 50.0 34 0.00074 36.2 5.9 79 126-212 525-606 (720)
87 cd06278 PBP1_LacI_like_2 Ligan 49.9 24 0.00053 30.3 4.1 60 175-242 52-111 (266)
88 COG0794 GutQ Predicted sugar p 48.2 1.3E+02 0.0027 27.2 8.4 102 120-229 32-142 (202)
89 cd06300 PBP1_ABC_sugar_binding 47.5 1.2E+02 0.0025 26.4 8.1 60 176-243 59-120 (272)
90 TIGR00315 cdhB CO dehydrogenas 47.4 1.8E+02 0.0039 25.1 9.0 109 93-214 5-136 (162)
91 PF13419 HAD_2: Haloacid dehal 46.3 60 0.0013 25.7 5.7 86 117-210 83-176 (176)
92 PRK06895 putative anthranilate 44.2 39 0.00084 29.1 4.5 75 128-211 2-79 (190)
93 cd01536 PBP1_ABC_sugar_binding 43.0 1.6E+02 0.0035 25.0 8.2 61 177-241 181-252 (267)
94 PF01497 Peripla_BP_2: Peripla 42.6 47 0.001 28.5 4.8 37 175-215 58-94 (238)
95 cd03816 GT1_ALG1_like This fam 42.5 3.1E+02 0.0068 26.2 11.2 101 106-214 243-350 (415)
96 cd01748 GATase1_IGP_Synthase T 42.4 53 0.0011 28.3 5.1 71 130-212 1-79 (198)
97 COG0518 GuaA GMP synthase - Gl 42.3 71 0.0015 28.3 5.9 77 128-211 2-86 (198)
98 cd04795 SIS SIS domain. SIS (S 42.3 14 0.0003 26.8 1.2 37 175-211 45-81 (87)
99 PF10740 DUF2529: Protein of u 42.2 87 0.0019 27.5 6.3 90 111-211 22-115 (172)
100 COG0608 RecJ Single-stranded D 41.9 1.3E+02 0.0028 30.0 8.4 102 107-214 16-122 (491)
101 cd06271 PBP1_AglR_RafR_like Li 41.9 44 0.00096 28.7 4.5 59 176-242 58-116 (268)
102 cd06305 PBP1_methylthioribose_ 41.4 64 0.0014 27.9 5.5 63 175-243 53-115 (273)
103 TIGR02919 accessory Sec system 41.3 74 0.0016 31.6 6.5 38 191-228 358-397 (438)
104 PRK06490 glutamine amidotransf 41.2 95 0.0021 28.1 6.7 79 126-211 6-93 (239)
105 PF02421 FeoB_N: Ferrous iron 40.7 20 0.00042 30.7 2.0 80 129-212 2-113 (156)
106 cd06273 PBP1_GntR_like_1 This 40.5 75 0.0016 27.4 5.8 60 176-243 54-113 (268)
107 cd06299 PBP1_LacI_like_13 Liga 40.5 77 0.0017 27.3 5.8 60 175-242 53-112 (265)
108 cd06274 PBP1_FruR Ligand bindi 40.1 70 0.0015 27.7 5.5 61 175-243 53-113 (264)
109 TIGR02128 G6PI_arch bifunction 39.1 3.4E+02 0.0073 25.6 11.3 58 176-234 65-129 (308)
110 PF00117 GATase: Glutamine ami 38.3 49 0.0011 28.0 4.2 76 131-211 1-79 (192)
111 cd06283 PBP1_RegR_EndR_KdgR_li 38.3 83 0.0018 27.0 5.7 61 175-243 53-113 (267)
112 cd01742 GATase1_GMP_Synthase T 38.0 1.1E+02 0.0024 25.6 6.3 77 130-213 1-79 (181)
113 PTZ00295 glucosamine-fructose- 37.9 2.3E+02 0.005 29.3 9.7 115 125-247 494-621 (640)
114 cd06306 PBP1_TorT-like TorT-li 37.9 82 0.0018 27.6 5.7 63 175-245 55-119 (268)
115 PRK09697 protein secretion pro 37.8 22 0.00048 29.4 1.8 11 15-25 75-85 (139)
116 cd04946 GT1_AmsK_like This fam 37.8 3.7E+02 0.008 25.6 11.8 24 194-218 324-347 (407)
117 PF06258 Mito_fiss_Elm1: Mitoc 36.9 1.8E+02 0.0039 27.5 8.1 104 93-210 151-255 (311)
118 TIGR00661 MJ1255 conserved hyp 36.3 1.4E+02 0.0031 27.4 7.3 89 112-213 13-122 (321)
119 PRK05749 3-deoxy-D-manno-octul 36.2 2.1E+02 0.0046 27.2 8.6 95 111-210 247-350 (425)
120 PRK05637 anthranilate synthase 36.2 87 0.0019 27.7 5.5 77 128-211 2-80 (208)
121 PRK00421 murC UDP-N-acetylmura 36.1 1.1E+02 0.0023 30.0 6.7 62 177-242 66-130 (461)
122 PRK15179 Vi polysaccharide bio 35.5 4.6E+02 0.01 27.8 11.5 112 105-229 527-644 (694)
123 cd06277 PBP1_LacI_like_1 Ligan 35.5 78 0.0017 27.4 5.1 58 175-241 56-113 (268)
124 cd03822 GT1_ecORF704_like This 35.1 3.2E+02 0.0068 24.1 10.8 33 175-210 265-299 (366)
125 PF01075 Glyco_transf_9: Glyco 34.9 1E+02 0.0022 26.9 5.7 83 117-212 127-210 (247)
126 TIGR02634 xylF D-xylose ABC tr 34.3 1.7E+02 0.0036 26.5 7.3 64 175-244 52-116 (302)
127 COG1648 CysG Siroheme synthase 34.2 1.2E+02 0.0026 27.1 6.1 31 178-210 73-103 (210)
128 cd06270 PBP1_GalS_like Ligand 33.7 77 0.0017 27.5 4.8 61 175-243 53-113 (268)
129 PRK00994 F420-dependent methyl 33.5 44 0.00096 31.1 3.2 40 175-215 58-98 (277)
130 cd01575 PBP1_GntR Ligand-bindi 33.0 3.1E+02 0.0067 23.4 8.5 35 175-213 53-87 (268)
131 COG0614 FepB ABC-type Fe3+-hyd 32.5 99 0.0021 27.8 5.4 34 175-213 113-146 (319)
132 cd06289 PBP1_MalI_like Ligand- 32.4 77 0.0017 27.2 4.5 61 176-243 54-114 (268)
133 PRK14607 bifunctional glutamin 32.1 1.2E+02 0.0026 30.8 6.4 77 129-212 1-81 (534)
134 cd03808 GT1_cap1E_like This fa 31.8 3.4E+02 0.0073 23.4 10.7 41 176-220 262-302 (359)
135 cd06285 PBP1_LacI_like_7 Ligan 31.4 1.5E+02 0.0032 25.6 6.2 58 175-242 53-110 (265)
136 COG4069 Uncharacterized protei 30.9 20 0.00043 34.4 0.5 46 200-251 285-340 (367)
137 cd06318 PBP1_ABC_sugar_binding 30.9 82 0.0018 27.5 4.5 60 175-242 53-116 (282)
138 COG0859 RfaF ADP-heptose:LPS h 30.9 3.1E+02 0.0066 25.7 8.6 77 120-211 201-277 (334)
139 cd06317 PBP1_ABC_sugar_binding 30.8 1.9E+02 0.0042 24.8 6.8 38 175-215 54-91 (275)
140 cd03420 SirA_RHOD_Pry_redox Si 30.2 1.3E+02 0.0029 21.6 4.8 41 115-156 15-55 (69)
141 PLN02347 GMP synthetase 30.0 1.8E+02 0.004 29.7 7.3 77 128-211 11-93 (536)
142 PRK00074 guaA GMP synthase; Re 29.9 1.3E+02 0.0029 30.4 6.3 79 127-212 3-83 (511)
143 cd01141 TroA_d Periplasmic bin 29.8 1.2E+02 0.0026 25.3 5.1 32 175-210 67-98 (186)
144 cd06323 PBP1_ribose_binding Pe 29.8 3.3E+02 0.0071 23.2 8.1 123 114-241 108-251 (268)
145 PF11238 DUF3039: Protein of u 29.6 27 0.00059 25.4 0.9 19 195-213 15-33 (58)
146 cd03813 GT1_like_3 This family 29.6 5E+02 0.011 25.4 10.2 87 111-209 309-399 (475)
147 cd01538 PBP1_ABC_xylose_bindin 29.5 2.3E+02 0.0051 25.1 7.3 65 175-244 53-117 (288)
148 cd03807 GT1_WbnK_like This fam 29.2 3.8E+02 0.0082 23.2 11.8 63 175-242 266-331 (365)
149 COG0449 GlmS Glucosamine 6-pho 29.2 1.3E+02 0.0028 31.4 6.1 68 179-247 332-411 (597)
150 cd06292 PBP1_LacI_like_10 Liga 29.2 81 0.0018 27.3 4.2 65 175-243 53-119 (273)
151 TIGR02193 heptsyl_trn_I lipopo 29.0 3.6E+02 0.0078 24.5 8.6 82 118-214 202-283 (319)
152 cd06298 PBP1_CcpA_like Ligand- 28.8 1.5E+02 0.0032 25.4 5.7 60 176-243 54-113 (268)
153 PRK10637 cysG siroheme synthas 28.6 1.2E+02 0.0026 30.1 5.6 53 188-241 81-143 (457)
154 cd06279 PBP1_LacI_like_3 Ligan 28.5 94 0.002 27.4 4.5 60 175-243 54-113 (283)
155 PRK15427 colanic acid biosynth 28.4 5.3E+02 0.012 24.7 13.0 127 108-242 235-369 (406)
156 cd06308 PBP1_sensor_kinase_lik 28.4 1.7E+02 0.0037 25.4 6.1 63 175-243 54-117 (270)
157 COG2222 AgaS Predicted phospho 28.2 5.5E+02 0.012 24.7 11.0 111 112-230 22-144 (340)
158 COG0771 MurD UDP-N-acetylmuram 28.2 1.6E+02 0.0035 29.5 6.4 66 177-245 69-136 (448)
159 PF01408 GFO_IDH_MocA: Oxidore 28.1 1.4E+02 0.0031 22.7 5.0 51 144-208 40-90 (120)
160 PHA02530 pseT polynucleotide k 27.9 2.1E+02 0.0046 25.8 6.8 107 99-211 158-296 (300)
161 COG2984 ABC-type uncharacteriz 27.9 1.5E+02 0.0033 28.5 5.9 140 93-251 135-282 (322)
162 TIGR03639 cas1_NMENI CRISPR-as 27.7 1.5E+02 0.0032 27.5 5.8 80 177-259 34-121 (278)
163 cd01143 YvrC Periplasmic bindi 27.7 2.5E+02 0.0054 23.2 6.7 31 175-210 58-88 (195)
164 cd00291 SirA_YedF_YeeD SirA, Y 27.6 1.5E+02 0.0033 20.7 4.7 42 114-156 14-55 (69)
165 TIGR03590 PseG pseudaminic aci 27.2 4.8E+02 0.01 23.7 9.6 106 113-228 17-127 (279)
166 COG0560 SerB Phosphoserine pho 27.1 86 0.0019 27.8 4.0 99 116-231 82-190 (212)
167 PF04413 Glycos_transf_N: 3-De 27.1 36 0.00077 29.6 1.5 92 112-215 33-128 (186)
168 cd06319 PBP1_ABC_sugar_binding 27.0 1.8E+02 0.004 25.1 6.0 64 175-244 53-117 (277)
169 PF01206 TusA: Sulfurtransfera 26.9 1.5E+02 0.0033 21.0 4.6 40 115-155 16-55 (70)
170 cd06282 PBP1_GntR_like_2 Ligan 26.5 1.8E+02 0.0038 24.9 5.8 60 176-243 54-113 (266)
171 PRK13181 hisH imidazole glycer 26.1 1.8E+02 0.0039 25.1 5.7 20 194-213 62-81 (199)
172 PF11019 DUF2608: Protein of u 26.0 1.6E+02 0.0035 26.9 5.6 91 118-210 88-208 (252)
173 TIGR02009 PGMB-YQAB-SF beta-ph 26.0 1.9E+02 0.0041 23.7 5.7 17 194-210 169-185 (185)
174 cd06272 PBP1_hexuronate_repres 25.7 1.4E+02 0.003 25.8 4.9 59 176-243 50-108 (261)
175 TIGR01823 PabB-fungal aminodeo 25.5 2.1E+02 0.0046 30.5 7.1 82 125-212 3-94 (742)
176 TIGR02195 heptsyl_trn_II lipop 24.9 3.4E+02 0.0075 24.9 7.7 81 120-214 200-280 (334)
177 TIGR01081 mpl UDP-N-acetylmura 24.9 3.5E+02 0.0077 26.3 8.1 62 177-242 60-125 (448)
178 COG0028 IlvB Thiamine pyrophos 24.7 6.7E+02 0.014 25.7 10.3 73 111-186 188-275 (550)
179 PF01973 MAF_flag10: Protein o 24.6 2E+02 0.0043 24.0 5.6 74 127-209 24-98 (170)
180 TIGR02918 accessory Sec system 24.3 7.3E+02 0.016 24.9 13.3 108 105-226 329-443 (500)
181 cd06302 PBP1_LsrB_Quorum_Sensi 24.3 1.4E+02 0.003 26.8 4.8 64 175-244 54-119 (298)
182 PF13407 Peripla_BP_4: Peripla 24.2 67 0.0015 27.7 2.7 98 141-246 18-120 (257)
183 PRK11009 aphA acid phosphatase 24.1 5.5E+02 0.012 23.3 10.0 113 104-227 96-224 (237)
184 PF08484 Methyltransf_14: C-me 24.0 3E+02 0.0064 23.4 6.5 71 113-186 54-135 (160)
185 cd00636 TroA-like Helical back 23.8 3.2E+02 0.0069 20.5 7.8 53 175-245 59-111 (148)
186 PRK10936 TMAO reductase system 23.8 1.7E+02 0.0036 27.2 5.4 61 175-244 102-165 (343)
187 cd06301 PBP1_rhizopine_binding 23.8 2E+02 0.0043 24.8 5.6 62 175-242 54-117 (272)
188 cd01537 PBP1_Repressors_Sugar_ 23.7 2.4E+02 0.0052 23.6 6.0 33 177-213 178-216 (264)
189 PRK10653 D-ribose transporter 23.5 4E+02 0.0087 23.6 7.7 33 177-214 207-243 (295)
190 PF12138 Spherulin4: Spherulat 23.4 82 0.0018 29.0 3.2 50 166-215 17-78 (253)
191 PRK12319 acetyl-CoA carboxylas 23.4 43 0.00094 31.0 1.3 21 195-215 89-109 (256)
192 cd01147 HemV-2 Metal binding p 23.3 3.5E+02 0.0075 23.6 7.1 40 165-211 65-105 (262)
193 cd06307 PBP1_uncharacterized_s 22.9 2.2E+02 0.0047 24.8 5.7 60 177-244 58-120 (275)
194 cd06297 PBP1_LacI_like_12 Liga 22.8 2.5E+02 0.0053 24.5 6.1 59 176-244 54-112 (269)
195 cd06311 PBP1_ABC_sugar_binding 22.7 2.7E+02 0.0058 24.2 6.2 63 176-244 59-123 (274)
196 PRK13143 hisH imidazole glycer 22.7 1.4E+02 0.0031 25.8 4.5 20 194-213 61-80 (200)
197 COG1519 KdtA 3-deoxy-D-manno-o 22.6 3.1E+02 0.0068 27.4 7.2 89 115-213 64-154 (419)
198 PF04392 ABC_sub_bind: ABC tra 22.6 1E+02 0.0022 28.2 3.6 129 117-252 121-255 (294)
199 smart00481 POLIIIAc DNA polyme 22.6 56 0.0012 23.0 1.5 23 193-215 17-39 (67)
200 TIGR02149 glgA_Coryne glycogen 22.6 5.9E+02 0.013 23.2 12.7 79 127-210 229-310 (388)
201 COG2071 Predicted glutamine am 22.6 2.5E+02 0.0055 26.0 6.1 89 115-212 27-115 (243)
202 TIGR01855 IMP_synth_hisH imida 22.5 2.3E+02 0.005 24.4 5.7 70 130-212 1-79 (196)
203 TIGR02417 fruct_sucro_rep D-fr 22.5 1.2E+02 0.0025 27.5 4.0 114 107-225 31-160 (327)
204 cd03422 YedF YedF is a bacteri 22.4 2.4E+02 0.0052 20.3 4.9 40 115-155 15-54 (69)
205 COG0112 GlyA Glycine/serine hy 22.2 1.3E+02 0.0029 29.8 4.5 72 73-154 120-197 (413)
206 TIGR02201 heptsyl_trn_III lipo 22.1 4.2E+02 0.0091 24.4 7.8 22 192-213 267-288 (344)
207 PF04493 Endonuclease_5: Endon 22.1 1.7E+02 0.0036 26.3 4.8 69 158-227 65-140 (206)
208 TIGR00287 cas1 CRISPR-associat 22.0 3.2E+02 0.0069 25.6 6.9 74 177-254 34-115 (323)
209 cd01540 PBP1_arabinose_binding 21.7 2.1E+02 0.0046 25.0 5.4 34 175-210 52-85 (289)
210 PRK14573 bifunctional D-alanyl 21.7 2.5E+02 0.0054 29.9 6.7 64 177-243 63-128 (809)
211 COG1518 CRISPR-associated prot 21.7 2.1E+02 0.0045 27.4 5.6 72 177-252 38-117 (327)
212 cd06314 PBP1_tmGBP Periplasmic 21.3 1.9E+02 0.004 25.2 4.9 63 175-244 53-116 (271)
213 PRK14089 ipid-A-disaccharide s 21.2 78 0.0017 30.4 2.6 34 175-211 74-109 (347)
214 PF03345 DDOST_48kD: Oligosacc 21.2 1.5E+02 0.0032 29.6 4.6 82 70-154 19-104 (423)
215 cd06287 PBP1_LacI_like_8 Ligan 20.7 3E+02 0.0065 24.3 6.2 59 176-242 55-114 (269)
216 cd06360 PBP1_alkylbenzenes_lik 20.7 5.6E+02 0.012 22.9 8.1 90 111-205 120-214 (336)
217 PRK05724 acetyl-CoA carboxylas 20.7 53 0.0011 31.5 1.4 21 195-215 142-162 (319)
218 PRK10537 voltage-gated potassi 20.6 3.2E+02 0.0069 26.8 6.8 90 126-218 239-343 (393)
219 PRK09522 bifunctional glutamin 20.6 2.5E+02 0.0053 28.7 6.2 81 128-212 2-85 (531)
220 cd06296 PBP1_CatR_like Ligand- 20.4 1.5E+02 0.0032 25.6 4.1 60 175-242 53-113 (270)
221 CHL00197 carA carbamoyl-phosph 20.4 3E+02 0.0065 27.0 6.5 77 127-212 192-271 (382)
222 PRK00299 sulfur transfer prote 20.3 2.5E+02 0.0054 21.0 4.8 38 118-156 28-65 (81)
223 PRK11303 DNA-binding transcrip 20.2 1.5E+02 0.0033 26.7 4.2 114 107-225 32-161 (328)
224 PRK07567 glutamine amidotransf 20.2 88 0.0019 28.3 2.7 36 177-212 51-101 (242)
225 cd03805 GT1_ALG2_like This fam 20.1 4.9E+02 0.011 23.8 7.7 98 110-215 226-333 (392)
226 cd03798 GT1_wlbH_like This fam 20.1 5.7E+02 0.012 22.0 9.8 76 127-210 233-308 (377)
227 PRK01438 murD UDP-N-acetylmura 20.1 6.6E+02 0.014 24.5 9.0 71 125-210 37-108 (480)
228 COG0800 Eda 2-keto-3-deoxy-6-p 20.0 4.4E+02 0.0095 23.9 7.0 89 114-213 25-115 (211)
No 1
>KOG0832|consensus
Probab=100.00 E-value=1.8e-63 Score=441.32 Aligned_cols=214 Identities=49% Similarity=0.815 Sum_probs=200.7
Q ss_pred cCCCCCCCCCCCCCCCCCCCccccccccccHHHHHhcCceeccccCCCCCCCCCCcccccCCeEEecHHHHHHHHHHHHH
Q psy13427 39 NTESKDTSQEPEVPNPLRYHDYFQVRNLVKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALN 118 (268)
Q Consensus 39 ~~~~~~~~~~~~~~~~l~~~d~f~~~~lv~l~~Ll~a~vHlGh~~~~~np~M~~yIyg~R~gi~IInL~~T~~~L~~A~~ 118 (268)
..++..++.+++++.+|.|+|+||+.+++++++|+.||+|+||++++||+.|+|||||.|+|+|||||++|..+|++|++
T Consensus 20 ~~~d~~~~~~~~~~~~l~h~d~fn~~~~~~v~~L~~agvHlGh~t~~wn~~m~pyiyG~R~Gi~IIdLdqT~~~Lr~A~~ 99 (251)
T KOG0832|consen 20 KIEDWPHVIQAIVAPHLPHKDYFNVPELISVEELFNAGVHLGHKTGKWNPRMKPYIYGKRLGIHIIDLDQTASYLRRALN 99 (251)
T ss_pred ccccchhhhhHHhcccCCchhhhcchhhccHHHHHhccccccccccccCcccchhhcccccCcEEEecHHHHHHHHHHHH
Confidence 45566668889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccC---------------CCceeee
Q psy13427 119 FVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTR---------------LPDLVIL 183 (268)
Q Consensus 119 ~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~---------------~Pdlviv 183 (268)
|+++++.++|.||||||++.++.+|+++|.++|+++++.+|.||+||||...++...+ .||+|||
T Consensus 100 fVa~vA~r~GiILFv~tn~~~~~~ve~aA~r~~gy~~~~~w~~G~lTN~~~l~g~~~~~~~~~pd~~~f~~t~~~D~vvv 179 (251)
T KOG0832|consen 100 FVAHVAHRGGIILFVGTNNGFKDLVERAARRAGGYSHNRKWLGGLLTNARELFGALVRKFLSLPDALCFLPTLTPDLVVV 179 (251)
T ss_pred HHHHHHhcCCeEEEEecCcchHHHHHHHHHHhcCceeeeeeccceeecchhhcccccccccCCCcceeecccCCcceeEe
Confidence 9999999999999999999999999999999999999999999999999988754433 4677777
Q ss_pred ecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHHHHhhhhhh-HhHH
Q psy13427 184 TNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGKKAK-QDTL 256 (268)
Q Consensus 184 ld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~aIl~gk~~r-~~~~ 256 (268)
+| +.+++.|+.||.|++|||||||||||+|++|||||||||||+.|+.|++.++..||.+|+.+| +|..
T Consensus 180 ln----~~e~~sAilEA~K~~IPTIgIVDtN~~P~liTYpVPaNDDs~~sv~f~~~l~k~ai~~g~~~ri~q~~ 249 (251)
T KOG0832|consen 180 LN----PEENHSAILEAAKMAIPTIGIVDTNCNPELITYPVPANDDSPASVEFILNLLKRAIARGKQKRIQQGS 249 (251)
T ss_pred cC----cccccHHHHHHHHhCCCeEEEecCCCCccceeeccCCCCCcHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 77 589999999999999999999999999999999999999999999999999999999999999 4443
No 2
>COG0052 RpsB Ribosomal protein S2 [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-63 Score=448.23 Aligned_cols=183 Identities=34% Similarity=0.618 Sum_probs=175.2
Q ss_pred ccHHHHHhcCceeccccCCCCCCCCCCcccccCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHH
Q psy13427 67 VKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKT 146 (268)
Q Consensus 67 v~l~~Ll~a~vHlGh~~~~~np~M~~yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~ 146 (268)
+++++|++||+|+||+++.|||+|++||||.|+|+|||||.+|+++|+.|++++..++.++|+||||||+.+++++|+++
T Consensus 4 vsm~~lLeAGvHfGhqtr~wnpkm~~fIf~~RngihIIDL~kT~~~l~~A~~~v~~~~~~~g~ILfVgTK~~a~~~V~~~ 83 (252)
T COG0052 4 VSMKQLLEAGVHFGHQTRRWNPKMKPFIFGERNGIHIIDLQKTLERLREAYKFLRRIAANGGKILFVGTKKQAQEPVKEF 83 (252)
T ss_pred CCHHHHHHcCccccccccccCCcccccceeecCCcEEEEHHHHHHHHHHHHHHHHHHHcCCCEEEEEechHHHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHcCCceecCCcccCcccchhhhh------------------------------------------ccccCCCceeeee
Q psy13427 147 AQDCQEFAHTRFWRQGMFTNSEKLF------------------------------------------RAVTRLPDLVILT 184 (268)
Q Consensus 147 A~~~g~~~i~~rW~gG~LTN~~~~~------------------------------------------~~~~~~Pdlvivl 184 (268)
|++||++|+++||+|||||||.++. +.|.++||++||+
T Consensus 84 A~r~g~~yV~~RwLgG~LTN~~ti~~si~rl~~lE~~~~~~~~~~tKkE~l~l~re~~kL~k~lgGIk~m~~~Pd~l~Vi 163 (252)
T COG0052 84 AERTGAYYVNGRWLGGMLTNFKTIRKSIKRLKELEKMEEDGFDGLTKKEALMLTRELEKLEKSLGGIKDMKGLPDVLFVI 163 (252)
T ss_pred HHHhCCceecCcccCccccCchhHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHhhcchhhccCCCCEEEEe
Confidence 9999999999999999999988631 1356789999999
Q ss_pred cCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHHHHhhhhhhH
Q psy13427 185 NTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGKKAKQ 253 (268)
Q Consensus 185 d~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~aIl~gk~~r~ 253 (268)
|| .+|++||+||.++||||||+|||||+|+.||||||||||+++||.|++|+|++||++|+....
T Consensus 164 Dp----~~e~iAv~EA~klgIPVvAlvDTn~dpd~VD~~IP~Ndda~rsi~Li~~~lA~ai~e~r~~~~ 228 (252)
T COG0052 164 DP----RKEKIAVKEANKLGIPVVALVDTNCDPDGVDYVIPGNDDAIRSIALIYWLLARAILEGRGGAL 228 (252)
T ss_pred CC----cHhHHHHHHHHHcCCCEEEEecCCCCCccCceeecCCChHHHHHHHHHHHHHHHHHHHhcccc
Confidence 96 799999999999999999999999999999999999999999999999999999999998654
No 3
>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=9.4e-62 Score=426.52 Aligned_cols=176 Identities=26% Similarity=0.386 Sum_probs=169.0
Q ss_pred ccccHHHHHhcCceeccccCCCCCCCCCCccccc-CCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHH
Q psy13427 65 NLVKVKDMFDAKVHLGHKIGSLDERMKPYIYGVR-QGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLI 143 (268)
Q Consensus 65 ~lv~l~~Ll~a~vHlGh~~~~~np~M~~yIyg~R-~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V 143 (268)
.++++++|++||+|+||+. |||+|+|||||.| +|+|||||++|+++|++|++++.+++ +|+||||||+++++++|
T Consensus 2 ~~~~i~~ll~agvH~Gh~~--~np~M~~yI~~~r~~gi~IIdL~kT~~~L~~A~~~i~~i~--~~~ILfVgtk~~~~~~V 77 (196)
T TIGR01012 2 KLVPVDKYLAAGVHIGTQN--KTKDMEKFIYKVRSDGLYVLDLRKTDERLRVAAKFLVRIE--PEDILVVSARIYGQKPV 77 (196)
T ss_pred ccccHHHHHhCCeecCCCc--CCCCCccceeeecCCCCEEEcHHHHHHHHHHHHHHHHHhh--CCeEEEEecCHHHHHHH
Confidence 5789999999999999984 8999999999999 59999999999999999999999997 99999999999999999
Q ss_pred HHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeee
Q psy13427 144 EKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYP 223 (268)
Q Consensus 144 ~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~Idyp 223 (268)
+++|+++|++|+++||+||+||||.+ ..+++||+|||+|| ..|++||+||+++||||||+|||||||++||||
T Consensus 78 ~~~A~~~g~~~v~~RWlgGtLTN~~~---~~~~~Pdlliv~dp----~~~~~Av~EA~~l~IP~Iai~DTn~dp~~vdyp 150 (196)
T TIGR01012 78 LKFAKVTGARAIAGRFTPGTFTNPMQ---KAFREPEVVVVTDP----RADHQALKEASEVGIPIVALCDTDNPLRYVDLV 150 (196)
T ss_pred HHHHHHhCCceECCeeCCCCCCCccc---cccCCCCEEEEECC----ccccHHHHHHHHcCCCEEEEeeCCCCCccCCEE
Confidence 99999999999999999999999997 34789999999996 789999999999999999999999999999999
Q ss_pred ccCCCCchhHHHHHHHHHHHHHHhhhhh
Q psy13427 224 VPGNDDTPSAIQYYCQVFKTAILKGKKA 251 (268)
Q Consensus 224 IP~NddS~~SI~li~~lL~~aIl~gk~~ 251 (268)
|||||||.+||++++|+|+++|++|+..
T Consensus 151 IP~Ndds~~Si~li~~lla~ail~~~g~ 178 (196)
T TIGR01012 151 IPTNNKGRHSLALIYWLLAREILRMRGT 178 (196)
T ss_pred ECCCCchHHHHHHHHHHHHHHHHHhhCc
Confidence 9999999999999999999999999865
No 4
>PRK05299 rpsB 30S ribosomal protein S2; Provisional
Probab=100.00 E-value=7.7e-61 Score=436.89 Aligned_cols=188 Identities=36% Similarity=0.654 Sum_probs=178.2
Q ss_pred cccHHHHHhcCceeccccCCCCCCCCCCcccccCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHH
Q psy13427 66 LVKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEK 145 (268)
Q Consensus 66 lv~l~~Ll~a~vHlGh~~~~~np~M~~yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~ 145 (268)
.+++++|++||+|+||+++.|||.|+|||||.|+|+|||||++|+.+|++|++++..++.++|+||||||+++++++|++
T Consensus 3 ~~~i~~Ll~agvH~Gh~~~~wnp~m~~yIyg~r~gi~IIdL~kT~~~L~~A~~~i~~~~~~~g~iLfVgTk~~~~~~V~~ 82 (258)
T PRK05299 3 VVSMKQLLEAGVHFGHQTRRWNPKMKPYIFGERNGIHIIDLQKTVPMLDEAYNFVRDVAANGGKILFVGTKKQAQEAIAE 82 (258)
T ss_pred cCCHHHHHhcCcccccccCcCCCccccceecccCCeEEEcHHHHHHHHHHHHHHHHHHHhCCCEEEEEECcHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCceecCCcccCcccchhhhh-------------------------------------------ccccCCCceee
Q psy13427 146 TAQDCQEFAHTRFWRQGMFTNSEKLF-------------------------------------------RAVTRLPDLVI 182 (268)
Q Consensus 146 ~A~~~g~~~i~~rW~gG~LTN~~~~~-------------------------------------------~~~~~~Pdlvi 182 (268)
+|+++|++|+++||+||+||||.+.. +.+.++||+||
T Consensus 83 ~A~~~~~~yv~~rWlgG~LTN~~ti~~~i~~l~~l~~~~~~~~~~~~~kke~~~~~k~~~kl~k~~~Gi~~m~~~Pd~ii 162 (258)
T PRK05299 83 EAERCGMPYVNHRWLGGMLTNFKTIRKSIKRLKELEKMEEDGTFEKLTKKEALMLTRELEKLEKSLGGIKDMGGLPDALF 162 (258)
T ss_pred HHHHhCCeeeCCeecCeeccCHHHHHHHHHHHHHHHHHHhcCcccccCHHHHHHHHHHHHHHHHhccCccccccCCCEEE
Confidence 99999999999999999999998631 12457999999
Q ss_pred eecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHHHHhhhhhhHhHHH
Q psy13427 183 LTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGKKAKQDTLK 257 (268)
Q Consensus 183 vld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~aIl~gk~~r~~~~~ 257 (268)
|+|| ..|++||+||.++||||||+|||||||++|||||||||||.+||+|++++|++||++|+..|.+..+
T Consensus 163 i~d~----~~~~~ai~Ea~kl~IPiIaivDTn~dp~~IdypIP~Ndds~~si~li~~~l~~ai~~g~~~~~~~~~ 233 (258)
T PRK05299 163 VVDP----NKEHIAVKEARKLGIPVVAIVDTNCDPDGVDYPIPGNDDAIRSIKLYTSKIADAILEGRQGRLAEAA 233 (258)
T ss_pred EeCC----CccHHHHHHHHHhCCCEEEEeeCCCCCcccceeeecCCchHHHHHHHHHHHHHHHHHHhhchhhccc
Confidence 9996 7899999999999999999999999999999999999999999999999999999999999887553
No 5
>TIGR01011 rpsB_bact ribosomal protein S2, bacterial type. TIGR01012 describes the archaeal and cytosolic forms.
Probab=100.00 E-value=1.8e-60 Score=426.80 Aligned_cols=180 Identities=39% Similarity=0.759 Sum_probs=172.0
Q ss_pred ccHHHHHhcCceeccccCCCCCCCCCCcccccCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHH
Q psy13427 67 VKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKT 146 (268)
Q Consensus 67 v~l~~Ll~a~vHlGh~~~~~np~M~~yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~ 146 (268)
+++++|++||+|+||+++.|||.|+|||||.|+|+|||||++|+.+|++|++++.++++++|+||||||+++++++|+++
T Consensus 2 ~~~~~ll~ag~H~Gh~~~~wnp~m~~yIyg~r~g~~IIdL~~T~~~L~~A~~~i~~~~~~~g~iLfV~tk~~~~~~v~~~ 81 (225)
T TIGR01011 2 VSMKDLLEAGVHFGHQTRRWNPKMKPFIFGERNGIHIIDLQKTLQLLKEAYNFVKDVAANGGKILFVGTKKQAKEIIKEE 81 (225)
T ss_pred cCHHHHHHcCcccccccCcCCcccccceeeeeCCeEEEcHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHHHHHH
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHcCCceecCCcccCcccchhhhh-------------------------------------------ccccCCCceeee
Q psy13427 147 AQDCQEFAHTRFWRQGMFTNSEKLF-------------------------------------------RAVTRLPDLVIL 183 (268)
Q Consensus 147 A~~~g~~~i~~rW~gG~LTN~~~~~-------------------------------------------~~~~~~Pdlviv 183 (268)
|+++|++|+++||+||+||||.+.. +.+.++||+|||
T Consensus 82 a~~~~~~yv~~rWlgG~LTN~~~i~~~i~~l~~l~~~~~~~~f~~~~kke~~~~~k~~~kl~k~~~Gi~~m~~~Pd~vii 161 (225)
T TIGR01011 82 AERCGMFYVNQRWLGGMLTNFKTIRKSIKKLKKLEKMEEDGTFDDLTKKEALMLSREKEKLEKSLGGIKDMKKLPDLLFV 161 (225)
T ss_pred HHHhCCcccCCeecCeeccCHHHHHHHHHHHHHHHHHHhcCccccccHHHHHHHHHHHHHHHHhccCccccccCCCEEEE
Confidence 9999999999999999999998631 124579999999
Q ss_pred ecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHHHHhhhh
Q psy13427 184 TNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGKK 250 (268)
Q Consensus 184 ld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~aIl~gk~ 250 (268)
+|| .+|++||+||.++||||||+|||||||++|||||||||||.+|++|++++|++||++|+.
T Consensus 162 ~d~----~~~~~ai~Ea~~l~IP~I~ivDTn~~p~~idypIP~Ndds~~si~li~~~l~~ai~~g~~ 224 (225)
T TIGR01011 162 IDP----VKEKIAVAEARKLGIPVVAIVDTNCDPDLVDYPIPGNDDAIRSIRLLTNLIADAVLEGKQ 224 (225)
T ss_pred eCC----CccHHHHHHHHHcCCCEEEEeeCCCCCcccceeeecCCchHHHHHHHHHHHHHHHHHHhc
Confidence 996 789999999999999999999999999999999999999999999999999999999974
No 6
>PRK04020 rps2P 30S ribosomal protein S2; Provisional
Probab=100.00 E-value=2e-60 Score=420.43 Aligned_cols=177 Identities=24% Similarity=0.349 Sum_probs=168.8
Q ss_pred cccccHHHHHhcCceeccccCCCCCCCCCCccccc-CCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHH
Q psy13427 64 RNLVKVKDMFDAKVHLGHKIGSLDERMKPYIYGVR-QGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLL 142 (268)
Q Consensus 64 ~~lv~l~~Ll~a~vHlGh~~~~~np~M~~yIyg~R-~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~ 142 (268)
+.++++++|++||+|+||+. |||+|++||||.| +|+|||||++|+++|++|++++.++ ++|+||||||+++++++
T Consensus 7 ~~~v~i~~ll~ag~H~Gh~~--~np~Mk~yIyg~r~~gi~IIdL~kT~~~L~~A~~~i~~~--~~~~ILfVgTk~~~~~~ 82 (204)
T PRK04020 7 ELLVPLEEYLAAGVHIGTQQ--KTKDMERFIYRVRPDGLYVLDVRKTDERIRIAAKFLSRY--EPEKILVVSSRQYGQKP 82 (204)
T ss_pred cceeeHHHHHhCCeEcCCCc--CCCCCcccEeeecCCCCEEEcHHHHHHHHHHHHHHHHHh--cCCeEEEEeCCHHHHHH
Confidence 45799999999999999986 7999999999999 5999999999999999999999996 79999999999999999
Q ss_pred HHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceee
Q psy13427 143 IEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITY 222 (268)
Q Consensus 143 V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~Idy 222 (268)
|+++|+++|++|+++||+||+||||.. ..+.+||+|||+|| ..|++||+||+++||||||||||||||++|||
T Consensus 83 v~k~A~~~g~~~v~~RWlgG~LTN~~~---~~~~~Pdliiv~dp----~~~~~AI~EA~kl~IP~IaivDTn~dp~~Vdy 155 (204)
T PRK04020 83 VQKFAEVVGAKAITGRFIPGTLTNPSL---KGYIEPDVVVVTDP----RGDAQAVKEAIEVGIPVVALCDTDNLTSNVDL 155 (204)
T ss_pred HHHHHHHhCCeeecCccCCCcCcCcch---hccCCCCEEEEECC----cccHHHHHHHHHhCCCEEEEEeCCCCcccCce
Confidence 999999999999999999999999996 34679999999996 78999999999999999999999999999999
Q ss_pred eccCCCCchhHHHHHHHHHHHHHHhhhhh
Q psy13427 223 PVPGNDDTPSAIQYYCQVFKTAILKGKKA 251 (268)
Q Consensus 223 pIP~NddS~~SI~li~~lL~~aIl~gk~~ 251 (268)
||||||||.+||++++|+|+++|++|+.+
T Consensus 156 pIP~Ndds~~SI~li~~ll~~aIl~~kg~ 184 (204)
T PRK04020 156 VIPTNNKGRKALALVYWLLAREILRERGE 184 (204)
T ss_pred eECCCCchHHHHHHHHHHHHHHHHHhhCc
Confidence 99999999999999999999999998866
No 7
>PRK12311 rpsB 30S ribosomal protein S2/unknown domain fusion protein; Provisional
Probab=100.00 E-value=2.7e-60 Score=444.78 Aligned_cols=181 Identities=36% Similarity=0.646 Sum_probs=171.8
Q ss_pred HHHHHhcCceeccccCCCCCCCCCCcccccCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHH
Q psy13427 69 VKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQ 148 (268)
Q Consensus 69 l~~Ll~a~vHlGh~~~~~np~M~~yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~ 148 (268)
+++||+||+|+||+++.|||+|++||||.|+|+|||||++|+.+|++|++||.+++.++|+||||||+++++++|+++|+
T Consensus 1 ~~~Ll~agvH~Gh~~~~wnpkM~~yIyg~R~gihIIDL~kT~~~L~~A~~~i~~~~~~gg~iLfVgTk~~~~~~V~~~A~ 80 (326)
T PRK12311 1 MRQLLEAGVHFGHQSHRWNPKMAPYIFGTRNNIHIIDLAQTVPLLHRALQAVSDTVAKGGRVLFVGTKRQAQDAVADAAK 80 (326)
T ss_pred ChhHHhCCeecccCCCCCCCcccCceecccCCcEEEcHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCcHHHHHHHHHHHH
Confidence 36899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HcCCceecCCcccCcccchhhhh-------------------------------------------ccccCCCceeeeec
Q psy13427 149 DCQEFAHTRFWRQGMFTNSEKLF-------------------------------------------RAVTRLPDLVILTN 185 (268)
Q Consensus 149 ~~g~~~i~~rW~gG~LTN~~~~~-------------------------------------------~~~~~~Pdlvivld 185 (268)
++|++||++||+||+||||.++. +.+.++||+|||+|
T Consensus 81 ~~g~~yV~~RWlgG~LTN~~ti~~si~~l~~l~~~~~~~~~~~~~kke~~~~~r~~~kl~k~l~Gi~~m~~~Pd~viv~d 160 (326)
T PRK12311 81 RSAQYFVNSRWLGGTLTNWKTISGSIQRLRKLDEVLSSGEANGYTKKERLTLQRERDKLDRALGGIKDMGGLPDLLFVID 160 (326)
T ss_pred HhCCeeeCCeecCcccCCHHHHHHHHHHHHHHHHHhhcCccccCCHHHHHHHHHHHHHHHHhccchhhcccCCCEEEEeC
Confidence 99999999999999999998631 02346999999999
Q ss_pred CCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHHHHhhhhhhH
Q psy13427 186 TLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGKKAKQ 253 (268)
Q Consensus 186 ~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~aIl~gk~~r~ 253 (268)
| ..|++||+||.++||||||||||||||++|||||||||||.+||+|+|++|+++|++|+..+.
T Consensus 161 ~----~~e~~AI~EA~kl~IPvIaivDTn~dp~~IdypIP~NDds~~si~li~~~la~ai~~g~~~~~ 224 (326)
T PRK12311 161 T----NKEDIAIQEAQRLGIPVAAIVDTNCDPDGITYPVPGNDDAGRAIALYCDLIARAAIDGISRAQ 224 (326)
T ss_pred C----ccchHHHHHHHHcCCCEEEEeeCCCCccccceeecCCCchHHHHHHHHHHHHHHHHHHHhhcc
Confidence 6 689999999999999999999999999999999999999999999999999999999998665
No 8
>PTZ00254 40S ribosomal protein SA; Provisional
Probab=100.00 E-value=3.7e-59 Score=422.03 Aligned_cols=182 Identities=24% Similarity=0.348 Sum_probs=169.6
Q ss_pred ccccccccccHHHHHhcCceeccccCCCCCCCCCCcccc-cCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCCh
Q psy13427 59 DYFQVRNLVKVKDMFDAKVHLGHKIGSLDERMKPYIYGV-RQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSA 137 (268)
Q Consensus 59 d~f~~~~lv~l~~Ll~a~vHlGh~~~~~np~M~~yIyg~-R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~ 137 (268)
|.+.+++ .++++||+||+|+||+ .|||+|++||||+ |+|+|||||++|+++|++|+++|.++ .++++||||||++
T Consensus 6 ~~~~~~~-~~i~~lL~agvHlG~~--~~np~M~~YIy~~r~dGi~IIdL~kT~~~L~~Aa~~i~~i-~~~~~Il~Vstr~ 81 (249)
T PTZ00254 6 KVLTPKE-DDIKKMLACKCHIGTK--NLENAMKKYVYKRTKEGVHIINLAKTWEKLKLAARVIAAI-ENPADVVVVSSRP 81 (249)
T ss_pred ccCCCCH-HHHHHHHhcCceeccC--cCCCcccccEecccCCCCEEEcHHHHHHHHHHHHHHHHHH-hCCCcEEEEEcCH
Confidence 3444333 8899999999999996 4999999999997 58999999999999999999999998 6799999999999
Q ss_pred hhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC
Q psy13427 138 QNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP 217 (268)
Q Consensus 138 ~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p 217 (268)
+++++|+++|+++|++|+++||+||+||||.+ ..+++||+|||+|| ..|++||+||+++||||||||||||||
T Consensus 82 ~~~~~V~k~A~~tg~~~i~~Rw~pGtlTN~~~---~~f~~P~llIV~Dp----~~d~qAI~EA~~lnIPvIal~DTds~p 154 (249)
T PTZ00254 82 YGQRAVLKFAQYTGASAIAGRFTPGTFTNQIQ---KKFMEPRLLIVTDP----RTDHQAIREASYVNIPVIALCDTDSPL 154 (249)
T ss_pred HHHHHHHHHHHHhCCeEECCcccCCCCCCccc---cccCCCCEEEEeCC----CcchHHHHHHHHhCCCEEEEecCCCCc
Confidence 99999999999999999999999999999987 35789999999996 789999999999999999999999999
Q ss_pred CceeeeccCCCCchhHHHHHHHHHHHHHHhhhhh
Q psy13427 218 NLITYPVPGNDDTPSAIQYYCQVFKTAILKGKKA 251 (268)
Q Consensus 218 ~~IdypIP~NddS~~SI~li~~lL~~aIl~gk~~ 251 (268)
++|||||||||||.+||+|++|+|+++|+++++.
T Consensus 155 ~~VDy~IP~Ndds~~SI~li~~lLar~Vl~~rG~ 188 (249)
T PTZ00254 155 EYVDIAIPCNNRGKESIALMYWLLAREVLRLRGT 188 (249)
T ss_pred ccCceeeCCCCchHHHHHHHHHHHHHHHHHhhCc
Confidence 9999999999999999999999999999987765
No 9
>CHL00067 rps2 ribosomal protein S2
Probab=100.00 E-value=2e-58 Score=414.91 Aligned_cols=181 Identities=34% Similarity=0.586 Sum_probs=172.7
Q ss_pred ccccHHHHHhcCceeccccCCCCCCCCCCcccccCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHH
Q psy13427 65 NLVKVKDMFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIE 144 (268)
Q Consensus 65 ~lv~l~~Ll~a~vHlGh~~~~~np~M~~yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~ 144 (268)
..+++++|++||+|+||++..|||.|++||||.|+|+|||||++|+.+|++|++++.++++++|+||||||+++++++|+
T Consensus 6 ~~~~i~~Ll~a~~h~Gh~~~~~np~m~~yIyg~r~g~~IIdl~~T~~~L~~A~~~i~~i~~~~g~ILfV~t~~~~~~~v~ 85 (230)
T CHL00067 6 WNINLEEMLEAGVHFGHQTRKWNPKMAPYIYAERNGIHIINLVQTARFLSEACDLVFDAASKGKKFLFVGTKKQAADLVA 85 (230)
T ss_pred cccCHHHHHhcCeEeccCcCcCCCchhhhhhcccCCcEEEcHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCcHHHHHHHH
Confidence 35899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCceecCCcccCcccchhhhh-------------------------------------------ccccCCCcee
Q psy13427 145 KTAQDCQEFAHTRFWRQGMFTNSEKLF-------------------------------------------RAVTRLPDLV 181 (268)
Q Consensus 145 ~~A~~~g~~~i~~rW~gG~LTN~~~~~-------------------------------------------~~~~~~Pdlv 181 (268)
++|+++|++|+++||+||+||||.+.. +.+.++||+|
T Consensus 86 ~~a~~~~~~yv~~rWigG~LTN~~~i~~~i~~~~~l~~~~~~~~~~~~~kk~~~~~~~~~~kl~k~~~Gi~~m~~~P~~i 165 (230)
T CHL00067 86 SAAIRARCHYVNKRWLGGMLTNWSTTKTRLQKLRDLRMEEKTGLFNRLPKKEAAILKRQLSRLEKYLGGIKYMTKLPDIV 165 (230)
T ss_pred HHHHHhCCcCccCcccCCcccCHHHHHHHHHHHHHHHHHhhccchhcccHhHHHHHHHHHHHHHHhhccccccccCCCEE
Confidence 999999999999999999999999631 1245799999
Q ss_pred eeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHHHHhhh
Q psy13427 182 ILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGK 249 (268)
Q Consensus 182 ivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~aIl~gk 249 (268)
||+|| ..|++||+||.++||||||+|||||||+.|||||||||||.+||+|++++|++||.+|+
T Consensus 166 iv~d~----~~~~~ai~Ea~~l~IPvIaivDTn~~p~~idypIP~Ndds~~si~li~~~l~~ai~~G~ 229 (230)
T CHL00067 166 IIIDQ----QEEYTALRECRKLGIPTISILDTNCDPDLADIPIPANDDAIASIKLILNKLTTAICEGR 229 (230)
T ss_pred EEeCC----cccHHHHHHHHHcCCCEEEEEeCCCCccccceeeecCCchHHHHHHHHHHHHHHHHHhc
Confidence 99996 78899999999999999999999999999999999999999999999999999999996
No 10
>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=6.6e-57 Score=394.76 Aligned_cols=172 Identities=43% Similarity=0.719 Sum_probs=165.1
Q ss_pred HHhcCceeccccCCCCCCCCCCcccccCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcC
Q psy13427 72 MFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQ 151 (268)
Q Consensus 72 Ll~a~vHlGh~~~~~np~M~~yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g 151 (268)
|++||+|+||+...|||+|++||||.|+|+|||||++|+.+|++|++++.+++.++|+||||||+++++++|+++|+++|
T Consensus 1 ll~ag~h~G~~~~~wnp~m~~yiyg~r~~~~Iidl~~T~~~L~~A~~~i~~i~~~~g~iLfV~t~~~~~~~v~~~a~~~~ 80 (193)
T cd01425 1 LLEAGVHLGHKTRRWNPKMKPYIYGERNGIHIIDLEKTLEKLRLALNFIANIAAKGGKILFVGTKPQAQRAVKKFAERTG 80 (193)
T ss_pred CCccceEeCCCcCCCCccchhheecccCCeEEEeHHHHHHHHHHHHHHHHHHHhCCCEEEEEECCHHHHHHHHHHHHHcC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceecCCcccCcccchhhhh---------------------ccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCcccc
Q psy13427 152 EFAHTRFWRQGMFTNSEKLF---------------------RAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 152 ~~~i~~rW~gG~LTN~~~~~---------------------~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIal 210 (268)
++|+++||+||+||||.+.. +.+.++||+|||+|| ..|++|++||.++||||||+
T Consensus 81 ~~~i~~rw~~G~LTN~~~~~~~~~~~~~~~~~~~~k~~~g~~~~~~~Pdlviv~~~----~~~~~ai~Ea~~l~IP~I~i 156 (193)
T cd01425 81 SFYVNGRWLGGTLTNWKTIRKSIKRLKKLEKEKLEKNLGGIKDMFRLPDLVIVLDP----RKEHQAIREASKLGIPVIAI 156 (193)
T ss_pred CeeecCeecCCcCCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCCCEEEEeCC----ccchHHHHHHHHcCCCEEEE
Confidence 99999999999999998752 136889999999996 78899999999999999999
Q ss_pred ccCCCCCCceeeeccCCCCchhHHHHHHHHHHHHHHh
Q psy13427 211 VDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILK 247 (268)
Q Consensus 211 vDTn~~p~~IdypIP~NddS~~SI~li~~lL~~aIl~ 247 (268)
|||||||+.|||||||||||.+|+++++++|++||++
T Consensus 157 ~Dtn~~~~~i~ypIP~Nd~s~~si~li~~~l~~ai~~ 193 (193)
T cd01425 157 VDTNCDPDLIDYPIPANDDSIRSIALILWLLARAILE 193 (193)
T ss_pred ecCCCCCccceEEeecCCchHHHHHHHHHHHHHHHhC
Confidence 9999999999999999999999999999999999874
No 11
>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=1.4e-55 Score=391.37 Aligned_cols=174 Identities=44% Similarity=0.736 Sum_probs=162.7
Q ss_pred HHhcCceeccccCCCCCCCCCCcccccCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcC
Q psy13427 72 MFDAKVHLGHKIGSLDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQ 151 (268)
Q Consensus 72 Ll~a~vHlGh~~~~~np~M~~yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g 151 (268)
|++||+|+||+++.|||.|++||||.|+|+|||||++|+.+|++|++++.+++.++|+||||||+++..++|+++|+++|
T Consensus 1 Ll~a~~HlG~~~~~~n~~m~~yI~g~r~g~~IidL~kT~~~L~~A~~~i~~i~~~~~~ILfV~t~~~~~~~v~~~a~~~~ 80 (211)
T PF00318_consen 1 LLKAGVHLGHKKSRWNPKMKPYIYGKRNGIHIIDLEKTLEQLRKALKFIKSIAKNGGKILFVGTKPQASKIVKKFAKRTG 80 (211)
T ss_dssp HHHHTTTSCBSSSSSSGGGGGGEEEEETTEEEETHHHHHHHHHHHHHHHHHHHTTTGGEEEEECSTTHHHHHHHHHHHHT
T ss_pred CcccceecCCCcCCCCCCcccceecccCceEEEEHHHHHHHHHHHHHHHHHhhcCCCeEEEEEcchHHHHHHHHHHHHhC
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceecCCcccCcccchhhhh-------------------------------------ccccCCCceeeeecCCCCCCCCC
Q psy13427 152 EFAHTRFWRQGMFTNSEKLF-------------------------------------RAVTRLPDLVILTNTLTTVLEPN 194 (268)
Q Consensus 152 ~~~i~~rW~gG~LTN~~~~~-------------------------------------~~~~~~Pdlvivld~~~~~~~d~ 194 (268)
++|+++||+||+||||.+.. +.+.++||+||++|| .+|+
T Consensus 81 ~~yi~~rWi~G~LTN~~~i~~~i~~l~~l~~~~~~~kk~~~~~~~~~~kl~k~~~Gi~~l~~~P~~vii~~~----~~~~ 156 (211)
T PF00318_consen 81 SFYINERWIGGTLTNWKTIKKSIKKLKKLEKLFKLTKKENAKLKKKYQKLKKYFGGIKNLKKLPDLVIILDP----NKNK 156 (211)
T ss_dssp CEEEESS-STTTTTTTTHCHHHHHHHHHHHHHTTSSHHHHHHHHHHHHHHHHHCTTTTTCSSSBSEEEESST----TTTH
T ss_pred CCccCceecCcccCcHHHHHHHHHHHHHHHHhhhccchhhhhhHHHHHHhhhhhHhhhcccccCcEEEEecc----cccc
Confidence 99999999999999999531 135678999999996 7899
Q ss_pred chHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHHHHhhh
Q psy13427 195 PAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAILKGK 249 (268)
Q Consensus 195 ~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~aIl~gk 249 (268)
.|++||.++||||||+|||||||+.|||||||||||..|+++++++|++||.+||
T Consensus 157 ~~i~Ea~~l~IP~i~i~Dtn~~~~~i~ypIp~N~~s~~si~~i~~~l~~ai~~g~ 211 (211)
T PF00318_consen 157 NAIREANKLNIPTIAIVDTNCNPSLIDYPIPANDDSIKSIYLILNLLAKAILEGK 211 (211)
T ss_dssp HHHHHHHHTTS-EEEEESTTS-GTTSSEEEES-SSSHHHHHHHHHHHHHHHHHTC
T ss_pred hhHHHHHhcCceEEEeecCCCCccccceEeecCCccHHHHHHHHHHHHHHHHhcC
Confidence 9999999999999999999999999999999999999999999999999999996
No 12
>KOG0830|consensus
Probab=100.00 E-value=2.2e-36 Score=269.37 Aligned_cols=155 Identities=20% Similarity=0.290 Sum_probs=149.7
Q ss_pred CCCCCCCcccccC-CeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCccc
Q psy13427 87 DERMKPYIYGVRQ-GQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFT 165 (268)
Q Consensus 87 np~M~~yIyg~R~-gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LT 165 (268)
+.+|.+|+|++|. |++||||.+||++|..|++.|..| ++++.|.++|+++.++++|.|||..+|++.|+||+.||+||
T Consensus 2 ~~~~~~y~~~~~~d~~~i~~~~~twekl~~aar~i~ai-enp~dv~v~ssr~~gqravlkfa~~tgatpiag~ftpg~ft 80 (254)
T KOG0830|consen 2 NFQMEQYIYKRRSDGIYIINLGRTWEKLLLAARAIVAI-ENPADVSVISSRNTGQRAVLKFAAATGATPIAGRFTPGTFT 80 (254)
T ss_pred CcccccccccccCCceEEeeccccHHHHHHHHHHHhhc-cCccceEEEccCCcchhHHHHHHHhhCCCcccccccccccc
Confidence 6799999999988 999999999999999999999999 89999999999999999999999999999999999999999
Q ss_pred chhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHHH
Q psy13427 166 NSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAI 245 (268)
Q Consensus 166 N~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~aI 245 (268)
|+.+ ..+++|.++||+|| ..|||+++|++..|+|||+|||||++.++||+.|||||+|..||.+++|+|++++
T Consensus 81 n~iq---~~f~epr~lvvtdp----r~d~q~~~E~s~~n~p~ialcnTDSpL~~VDIAIPcNNKG~hSVgl~ww~LareV 153 (254)
T KOG0830|consen 81 NQIQ---AAFREPRLLVVTDP----RADHQPLTEASYVNLPTIALCNTDSPLCYVDIAIPCNNKGAHSVGVMWWMLAREV 153 (254)
T ss_pred hHHH---HhhcCCceeeecCc----ccccchhhhhhhcCCceEEEecCCCccceeeeeeecCCCCcccchhhhhhhhHHH
Confidence 9998 67999999999996 7899999999999999999999999999999999999999999999999999999
Q ss_pred Hhhh
Q psy13427 246 LKGK 249 (268)
Q Consensus 246 l~gk 249 (268)
++-+
T Consensus 154 Lrmr 157 (254)
T KOG0830|consen 154 LRMR 157 (254)
T ss_pred HHHH
Confidence 9644
No 13
>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=95.74 E-value=0.14 Score=46.88 Aligned_cols=141 Identities=16% Similarity=0.124 Sum_probs=84.4
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCccc-----------chh-------
Q psy13427 107 DQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFT-----------NSE------- 168 (268)
Q Consensus 107 ~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LT-----------N~~------- 168 (268)
.+....+.+|+..+.....++|+|.++|....+.-.+..+++...-+-.....+.|.+. |..
T Consensus 29 ~~~l~~I~~av~~~~~~l~~ggrl~~~GaGtSg~la~~da~e~~~tfg~~~~~v~~~iagg~~a~~~a~~~~edd~~~~~ 108 (257)
T cd05007 29 EAALPQIARAVDAAAERLRAGGRLIYVGAGTSGRLGVLDASELPPTFGTPPERVVGLIAGGEPALTRAVEGAEDDEEAGA 108 (257)
T ss_pred HHhHHHHHHHHHHHHHHHHcCCEEEEEcCcHHHHHHHHHHHhccccccCCcccceEEEeCCHHHHHhhccccCChHHHHH
Confidence 34456788888888888899999999999887765544444443322111112222211 110
Q ss_pred hhhc-cccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccCCC-----------CchhHH
Q psy13427 169 KLFR-AVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGND-----------DTPSAI 234 (268)
Q Consensus 169 ~~~~-~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~Nd-----------dS~~SI 234 (268)
+.+. .....-|++|++..-..-.+-..+++.|++.|.|||+|+....++ ...|++|.... .+..+.
T Consensus 109 ~~l~a~~l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~I~It~~~~s~L~~~aD~~I~~~~g~E~~~~st~~~s~~aq 188 (257)
T cd05007 109 ADLQAINLTERDVVIGIAASGRTPYVLGALRYARARGALTIGIACNPGSPLLQLADIAIALITGPEVVAGSTRLKAGTAQ 188 (257)
T ss_pred HHHHHcCCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEEcCCCCccccCccccccHHHH
Confidence 1111 123567888877632221233578999999999999998654433 23455554321 245678
Q ss_pred HHHHHHHHHHHHh
Q psy13427 235 QYYCQVFKTAILK 247 (268)
Q Consensus 235 ~li~~lL~~aIl~ 247 (268)
.+++.+|...+..
T Consensus 189 k~vLn~L~t~~~~ 201 (257)
T cd05007 189 KLALNMLSTAVMI 201 (257)
T ss_pred HHHHHHHHHHHHH
Confidence 8888888877664
No 14
>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=95.69 E-value=0.16 Score=43.24 Aligned_cols=43 Identities=12% Similarity=0.046 Sum_probs=30.1
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP 217 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p 217 (268)
...-|++|++.--....+--.+++.|+..|+|||+|+|...+|
T Consensus 70 ~~~~Dv~I~iS~sG~t~~~i~~~~~ak~~g~~ii~IT~~~~s~ 112 (179)
T TIGR03127 70 IKKGDLLIAISGSGETESLVTVAKKAKEIGATVAAITTNPEST 112 (179)
T ss_pred CCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCCc
Confidence 4567888888721111122467788999999999999987666
No 15
>PRK05441 murQ N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=95.53 E-value=0.2 Score=47.07 Aligned_cols=143 Identities=13% Similarity=0.113 Sum_probs=87.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCccc-----------c---hh---
Q psy13427 106 LDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFT-----------N---SE--- 168 (268)
Q Consensus 106 L~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LT-----------N---~~--- 168 (268)
+......+..++..+.....++|+|.++|....+.-.+..+++...-+-....++.|.+. + ..
T Consensus 41 v~~~l~~I~~av~~~~~~l~~ggrI~~~GaGtSg~la~~da~e~~~tfg~~~~~v~~iiagG~~a~~~a~e~~ed~~~~~ 120 (299)
T PRK05441 41 VEKALPQIAAAVDAAAAALRQGGRLIYIGAGTSGRLGVLDASECPPTFGVPPELVVGLIAGGEKALTKAVEGAEDDAELG 120 (299)
T ss_pred HHHhHHHHHHHHHHHHHHHHCCCEEEEEcCcHHHHHHHHHHHhCcCccCCCchhceeeecCCcHHHHhcccccCChHHHH
Confidence 455667788888888888899999999999887765555555544322221122333211 1 00
Q ss_pred -hhhcc-ccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccCCC-----------CchhH
Q psy13427 169 -KLFRA-VTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGND-----------DTPSA 233 (268)
Q Consensus 169 -~~~~~-~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~Nd-----------dS~~S 233 (268)
..+.. ....-|++|++..-..-.+-..+++.|+..|.|||+|++...++ ...|++|.... .+..+
T Consensus 121 ~~~l~~~~l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tI~IT~~~~s~La~~aD~~I~~~~g~E~~~~st~~~s~ta 200 (299)
T PRK05441 121 AADLKAINLTAKDVVVGIAASGRTPYVIGALEYARERGALTIGISCNPGSPLSKEADIAIEVVVGPEVLTGSTRMKAGTA 200 (299)
T ss_pred HHHHHhcCCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhhHhCCEEEEcCCCCccccccccccchhH
Confidence 01111 24567888887632211223578999999999999998654333 33566654321 24567
Q ss_pred HHHHHHHHHHHHHhh
Q psy13427 234 IQYYCQVFKTAILKG 248 (268)
Q Consensus 234 I~li~~lL~~aIl~g 248 (268)
..+++.+|...+..-
T Consensus 201 qk~iLn~lst~~~~~ 215 (299)
T PRK05441 201 QKLVLNMISTGVMIR 215 (299)
T ss_pred HHHHHHHHHHHHHHH
Confidence 888888888776643
No 16
>PRK12570 N-acetylmuramic acid-6-phosphate etherase; Reviewed
Probab=95.07 E-value=0.26 Score=46.27 Aligned_cols=141 Identities=13% Similarity=0.175 Sum_probs=84.4
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcc-----cC---ccc---c---hh----
Q psy13427 107 DQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWR-----QG---MFT---N---SE---- 168 (268)
Q Consensus 107 ~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~-----gG---~LT---N---~~---- 168 (268)
......|..|+..+.....++|+|.++|....+.-.+...++....+.+...-. +| +++ | ..
T Consensus 38 ~~~~~~I~~a~~~~~~~l~~ggrl~~~GaG~Sg~la~~dA~e~~~tf~~~~~~~~~~iagg~~a~~~a~~~~ed~~~~~~ 117 (296)
T PRK12570 38 EKVLPQIAQAVDKIVAAFKKGGRLIYMGAGTSGRLGVLDASECPPTFSVSPEMVIGLIAGGPEAMFTAVEGAEDDPELGA 117 (296)
T ss_pred HHhHHHHHHHHHHHHHHHHcCCeEEEECCchhHHHHHHHHHhCcchhcCCcccceeeeecCchHhhhcccccCCcHHHHH
Confidence 445577888888888888999999999998766544444444433332221111 11 111 1 00
Q ss_pred hhhc-cccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--Cceeeecc---CCC--------CchhHH
Q psy13427 169 KLFR-AVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVP---GND--------DTPSAI 234 (268)
Q Consensus 169 ~~~~-~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP---~Nd--------dS~~SI 234 (268)
+.+. .....-|++|++..-..-.+--.+++.|+..|.|+|+++.....+ +..|+.|. +.. .+..|.
T Consensus 118 ~~l~a~~l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~~IaIT~~~~s~La~~aD~~I~~~~g~E~~~~st~~~s~taq 197 (296)
T PRK12570 118 QDLKAIGLTADDVVVGIAASGRTPYVIGALEYAKQIGATTIALSCNPDSPIAKIADIAISPVVGPEVLTGSTRLKSGTAQ 197 (296)
T ss_pred HHHHHcCCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEeeCcCCccccccchHHHHHHH
Confidence 0111 123466888887742211222468999999999999998654443 34666663 222 256678
Q ss_pred HHHHHHHHHHHHh
Q psy13427 235 QYYCQVFKTAILK 247 (268)
Q Consensus 235 ~li~~lL~~aIl~ 247 (268)
.+++.+|...+..
T Consensus 198 k~vLd~L~t~~~~ 210 (296)
T PRK12570 198 KMVLNMLSTASMI 210 (296)
T ss_pred HHHHHHHHHHHHH
Confidence 8888888877664
No 17
>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=95.03 E-value=0.44 Score=40.68 Aligned_cols=54 Identities=19% Similarity=0.098 Sum_probs=36.0
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC----CceeeeccCCC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP----NLITYPVPGND 228 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p----~~IdypIP~Nd 228 (268)
...-|++|++..-....+-..+++.|+..|+|+|+|.|+..+| ..+.+.+|+..
T Consensus 73 ~~~~D~vI~iS~sG~t~~~i~~~~~ak~~g~~iI~IT~~~~s~la~~ad~~l~~~~~~ 130 (179)
T cd05005 73 IGPGDLLIAISGSGETSSVVNAAEKAKKAGAKVVLITSNPDSPLAKLADVVVVIPAAT 130 (179)
T ss_pred CCCCCEEEEEcCCCCcHHHHHHHHHHHHCCCeEEEEECCCCCchHHhCCEEEEeCCcc
Confidence 3567888888732211222468889999999999999987665 23445566644
No 18
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=94.84 E-value=0.61 Score=40.86 Aligned_cols=118 Identities=14% Similarity=0.040 Sum_probs=66.9
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHH---------cCCceecCCcccCcccc------hhhh---
Q psy13427 109 SAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQD---------CQEFAHTRFWRQGMFTN------SEKL--- 170 (268)
Q Consensus 109 T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~---------~g~~~i~~rW~gG~LTN------~~~~--- 170 (268)
-.+.|.+|+..+.....++++|.++|....+.- -+.+|.. .|-..+.-.. ...++. +...
T Consensus 26 ~~~~i~~a~~~i~~al~~~~rI~i~G~G~S~~~-A~~~a~~l~~~~~~~r~g~~~~~~~d-~~~~~~~~~d~~~~~~~~~ 103 (192)
T PRK00414 26 NIHAIQRAAVLIADSFKAGGKVLSCGNGGSHCD-AMHFAEELTGRYRENRPGYPAIAISD-VSHLSCVSNDFGYDYVFSR 103 (192)
T ss_pred hHHHHHHHHHHHHHHHHCCCEEEEEeCcHHHHH-HHHHHHHhcccccCCCCCceEEecCc-HHHHhhhhccCCHHHHHHH
Confidence 446789999999998899999999998765431 1223322 1211111000 001110 0001
Q ss_pred -hccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccCCC
Q psy13427 171 -FRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGND 228 (268)
Q Consensus 171 -~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~Nd 228 (268)
.....+.-|++|++..-..-..-..+++.|+..|+|||+|+....++ +..|+.|....
T Consensus 104 ~~~~~~~~~Dv~I~iS~SG~t~~~i~~~~~ak~~g~~iI~iT~~~~s~l~~~ad~~l~~~~ 164 (192)
T PRK00414 104 YVEAVGREGDVLLGISTSGNSGNIIKAIEAARAKGMKVITLTGKDGGKMAGLADIEIRVPH 164 (192)
T ss_pred HHHHhCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCCEEEEeCC
Confidence 11234677899888742211222478889999999999998764444 33455554444
No 19
>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=93.96 E-value=1 Score=38.27 Aligned_cols=116 Identities=18% Similarity=0.196 Sum_probs=66.1
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEeCChhhH---HHHHHHHHHc-----CCceecCCcccC------cccc---hhhh--
Q psy13427 110 AELLRDALNFVAHIAYRDGIVLFVGQSAQNS---LLIEKTAQDC-----QEFAHTRFWRQG------MFTN---SEKL-- 170 (268)
Q Consensus 110 ~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~---~~V~~~A~~~-----g~~~i~~rW~gG------~LTN---~~~~-- 170 (268)
.+.+.+|+..+.....+.++|.++|...... .+..++..+. |... .+.++ ...| +...
T Consensus 16 ~~~i~~a~~~i~~~i~~~~~I~i~G~G~S~~~A~~~~~~l~~~~~~~~~g~~~---~~~~~~~~~~~~~~~~~~~~~~~~ 92 (177)
T cd05006 16 AEAIEQAAQLLAEALLNGGKILICGNGGSAADAQHFAAELVKRFEKERPGLPA---IALTTDTSILTAIANDYGYEEVFS 92 (177)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEeCcHHHHHHHHHHHHHhchhccCCCCCce---EeccCCHHHHHHHhccCCHHHHHH
Confidence 6778889999988777889999999875432 2222232221 2111 11121 0001 0000
Q ss_pred --hccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC----CceeeeccCCC
Q psy13427 171 --FRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP----NLITYPVPGND 228 (268)
Q Consensus 171 --~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p----~~IdypIP~Nd 228 (268)
.....+.-|++|++..-..-.+-..+++.|+..|+|||+|++...+| ..+.+.+|..+
T Consensus 93 ~~~~~~~~~~Dv~I~iS~SG~t~~~i~~~~~ak~~Ga~vI~IT~~~~s~La~~aD~~l~~~~~~ 156 (177)
T cd05006 93 RQVEALGQPGDVLIGISTSGNSPNVLKALEAAKERGMKTIALTGRDGGKLLELADIEIHVPSDD 156 (177)
T ss_pred HHHHHhCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEeCCCC
Confidence 01234678898888732221223478899999999999999876555 22444455443
No 20
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=93.82 E-value=1.2 Score=40.52 Aligned_cols=93 Identities=15% Similarity=0.023 Sum_probs=52.3
Q ss_pred hCCCeEEEEeCChhhHHHHHHHHH---HcCCceecCCcccCcccchhhh--hccccCCCceeeeecCCCCCCCCCchHHH
Q psy13427 125 YRDGIVLFVGQSAQNSLLIEKTAQ---DCQEFAHTRFWRQGMFTNSEKL--FRAVTRLPDLVILTNTLTTVLEPNPAIGE 199 (268)
Q Consensus 125 ~~~g~ILfV~t~~~~~~~V~~~A~---~~g~~~i~~rW~gG~LTN~~~~--~~~~~~~Pdlvivld~~~~~~~d~~aI~E 199 (268)
.+-++|.|+|...... +.+.++. +.|-.... ..+.... .-......|++|++.--....+-..+++.
T Consensus 126 ~~a~~I~i~G~G~s~~-~A~~~~~~l~~~g~~~~~-------~~d~~~~~~~~~~~~~~Dv~I~iS~sg~~~~~~~~~~~ 197 (278)
T PRK11557 126 RSARRIILTGIGASGL-VAQNFAWKLMKIGINAVA-------ERDMHALLATVQALSPDDLLLAISYSGERRELNLAADE 197 (278)
T ss_pred hcCCeEEEEecChhHH-HHHHHHHHHhhCCCeEEE-------cCChHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHH
Confidence 4557899999875322 2223333 33432221 0111110 01134678999888731111111368899
Q ss_pred hhhhCCCccccccCCCCC--Cceeeecc
Q psy13427 200 AAKMCIPTVGIVDSNCNP--NLITYPVP 225 (268)
Q Consensus 200 A~~l~IPtIalvDTn~~p--~~IdypIP 225 (268)
|+..|+|||+|+|...+| ...|+.++
T Consensus 198 ak~~ga~iI~IT~~~~s~la~~ad~~l~ 225 (278)
T PRK11557 198 ALRVGAKVLAITGFTPNALQQRASHCLY 225 (278)
T ss_pred HHHcCCCEEEEcCCCCCchHHhCCEEEE
Confidence 999999999999987666 34555554
No 21
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=93.78 E-value=0.82 Score=40.48 Aligned_cols=106 Identities=11% Similarity=0.087 Sum_probs=63.2
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEeCChhh---HHHHHHHHH-----HcCCceec----CCcccCcccc---hhhh---
Q psy13427 109 SAELLRDALNFVAHIAYRDGIVLFVGQSAQN---SLLIEKTAQ-----DCQEFAHT----RFWRQGMFTN---SEKL--- 170 (268)
Q Consensus 109 T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~---~~~V~~~A~-----~~g~~~i~----~rW~gG~LTN---~~~~--- 170 (268)
..+.+.+|+..+.....++++|+|+|....+ +.+..++.. +.|-..+. .-|.. ..+| +.+.
T Consensus 23 ~~~~i~~a~~~l~~~l~~~~rI~~~G~GgSa~~A~~~a~~l~~~~~~~r~gl~a~~l~~d~~~~t-a~and~~~~~~f~~ 101 (196)
T PRK10886 23 LPDAISRAAMTLVQSLLNGNKILCCGNGTSAANAQHFAASMINRFETERPSLPAIALNTDNVVLT-AIANDRLHDEVYAK 101 (196)
T ss_pred hHHHHHHHHHHHHHHHHcCCEEEEEECcHHHHHHHHHHHHHhccccccCCCcceEEecCcHHHHH-HHhccccHHHHHHH
Confidence 3477889999999998999999999987543 333333322 22222111 00110 0111 1121
Q ss_pred -hccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCC
Q psy13427 171 -FRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNC 215 (268)
Q Consensus 171 -~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~ 215 (268)
+.+..+.-|++|++..-.....=..+++.|+..|+|||+|.-.+.
T Consensus 102 ql~~~~~~gDvli~iS~SG~s~~v~~a~~~Ak~~G~~vI~IT~~~~ 147 (196)
T PRK10886 102 QVRALGHAGDVLLAISTRGNSRDIVKAVEAAVTRDMTIVALTGYDG 147 (196)
T ss_pred HHHHcCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCC
Confidence 234467889999887422212224678889999999999986433
No 22
>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=93.24 E-value=0.22 Score=41.09 Aligned_cols=101 Identities=17% Similarity=0.233 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHc-CCceecCCcccCc-ccc--------hhh-------hhc
Q psy13427 110 AELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDC-QEFAHTRFWRQGM-FTN--------SEK-------LFR 172 (268)
Q Consensus 110 ~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~-g~~~i~~rW~gG~-LTN--------~~~-------~~~ 172 (268)
.+.+.+|+..+.....++|+|.++|+.....-+ ..++.+. +.+.+...-.+.+ +.+ ... .+.
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 678899999999999999999999998764432 2333333 3222222222221 111 110 011
Q ss_pred cc--cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccc
Q psy13427 173 AV--TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIV 211 (268)
Q Consensus 173 ~~--~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalv 211 (268)
.. .+.-|++|++..-.+-..--.|+++|++.|.+||||.
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 22 5778999888742211122368899999999999985
No 23
>PRK13938 phosphoheptose isomerase; Provisional
Probab=93.15 E-value=1.5 Score=38.71 Aligned_cols=118 Identities=11% Similarity=0.041 Sum_probs=68.0
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCC-cc-------cC-ccc---c---hhh--
Q psy13427 107 DQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRF-WR-------QG-MFT---N---SEK-- 169 (268)
Q Consensus 107 ~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~r-W~-------gG-~LT---N---~~~-- 169 (268)
+...+.+..++..+.+...++++|.++|....+.-+ +.++.+....+-.++ =+ ++ .++ | +.+
T Consensus 25 ~~~~~~~~~~a~~~~~~l~~g~rI~i~G~G~S~~~A-~~fa~~L~~~~~~~r~~lg~~~l~~~~~~~~a~~nd~~~~~~~ 103 (196)
T PRK13938 25 RVLLEAARAIGDRLIAGYRAGARVFMCGNGGSAADA-QHFAAELTGHLIFDRPPLGAEALHANSSHLTAVANDYDYDTVF 103 (196)
T ss_pred hhhHHHHHHHHHHHHHHHHCCCEEEEEeCcHHHHHH-HHHHHHcCCCccCCcCccceEEEeCChHHHHHhhccccHHHHH
Confidence 345567777788887778999999999987655322 234443321111111 00 01 111 1 111
Q ss_pred --hhccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--Cceeeecc
Q psy13427 170 --LFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVP 225 (268)
Q Consensus 170 --~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP 225 (268)
........-|++|++..-..-.+--.+++.|++.|+|||+|++...+| +..|+.|.
T Consensus 104 ~~~~~~~~~~~DllI~iS~SG~t~~vi~a~~~Ak~~G~~vI~iT~~~~s~La~~aD~~l~ 163 (196)
T PRK13938 104 ARALEGSARPGDTLFAISTSGNSMSVLRAAKTARELGVTVVAMTGESGGQLAEFADFLIN 163 (196)
T ss_pred HHHHHhcCCCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCChhhhhCCEEEE
Confidence 112446788999988742221222478899999999999999865555 33455443
No 24
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=93.05 E-value=1.9 Score=39.16 Aligned_cols=50 Identities=12% Similarity=0.024 Sum_probs=33.0
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC-Cceeeec
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP-NLITYPV 224 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p-~~IdypI 224 (268)
...-|++|++.--....+-..+++.|+..|.|||+|.+.+++. ...|+.+
T Consensus 173 ~~~~D~vI~iS~sG~t~~~~~~~~~ak~~g~~vI~IT~~~s~l~~~ad~~l 223 (284)
T PRK11302 173 SSDGDVVVLISHTGRTKSLVELAQLARENGATVIAITSAGSPLAREATLAL 223 (284)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHcCCeEEEECCCCChhHHhCCEEE
Confidence 3567888888732211223468899999999999999865544 2344444
No 25
>PRK13936 phosphoheptose isomerase; Provisional
Probab=92.75 E-value=1.2 Score=39.03 Aligned_cols=101 Identities=15% Similarity=0.209 Sum_probs=58.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEeCChhh---HHHHHHHHHHcCCceecCCcccCccc-----c------------hhh
Q psy13427 110 AELLRDALNFVAHIAYRDGIVLFVGQSAQN---SLLIEKTAQDCQEFAHTRFWRQGMFT-----N------------SEK 169 (268)
Q Consensus 110 ~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~---~~~V~~~A~~~g~~~i~~rW~gG~LT-----N------------~~~ 169 (268)
.+.+..|+..+.....++++|.+.|..... ..+..++..+.|. ..+|.-. | +..
T Consensus 26 ~~~i~~a~~~~~~~l~~a~~I~i~G~G~S~~~A~~~~~~l~~r~~~------~r~g~~~~~~~~~~~~~~~~~~d~~~~~ 99 (197)
T PRK13936 26 APPIAQAVELMVQALLNEGKILACGNGGSAADAQHFSAELLNRFER------ERPSLPAIALTTDTSTLTAIANDYSYNE 99 (197)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEeCcHhHHHHHHHHHHccCccCC------CCccceeEecCCcHHHHHHHhhcCCHHH
Confidence 356778888899888999999999987543 2232333322221 1112111 1 111
Q ss_pred hh----ccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCC
Q psy13427 170 LF----RAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCN 216 (268)
Q Consensus 170 ~~----~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~ 216 (268)
.+ ....+.-|++|++..-.+-..-..+++.|++.|+|+|+|.+.+.+
T Consensus 100 ~~~~~~a~~~~~~Dv~i~iS~sG~t~~~~~~~~~ak~~g~~iI~IT~~~~s 150 (197)
T PRK13936 100 VFSKQVRALGQPGDVLLAISTSGNSANVIQAIQAAHEREMHVVALTGRDGG 150 (197)
T ss_pred HHHHHHHHhCCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCC
Confidence 11 122356788888763111111235788999999999999985543
No 26
>COG0279 GmhA Phosphoheptose isomerase [Carbohydrate transport and metabolism]
Probab=92.70 E-value=1.2 Score=39.08 Aligned_cols=122 Identities=17% Similarity=0.166 Sum_probs=86.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCc-cc-chhhh------------h-
Q psy13427 107 DQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGM-FT-NSEKL------------F- 171 (268)
Q Consensus 107 ~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~-LT-N~~~~------------~- 171 (268)
+.-.+.+.+|...+..-..++++||.+|+.-....+--=.|+.+|-|...++=.|+. || |.... |
T Consensus 21 ~~l~~~I~~aa~~i~~~l~~G~Kvl~cGNGgSaadAqHfaael~gRf~~eR~~lpaIaLt~dsS~lTai~NDy~yd~vFs 100 (176)
T COG0279 21 EALIEAIERAAQLLVQSLLNGNKVLACGNGGSAADAQHFAAELTGRFEKERPSLPAIALSTDSSVLTAIANDYGYDEVFS 100 (176)
T ss_pred HHhHHHHHHHHHHHHHHHHcCCEEEEECCCcchhhHHHHHHHHhhHHHhcCCCCCeeEeecccHHHhhhhccccHHHHHH
Confidence 555678888999999888999999999987655555444666677776666667774 44 54421 2
Q ss_pred ---ccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCC----CCCceeeeccCCC
Q psy13427 172 ---RAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNC----NPNLITYPVPGND 228 (268)
Q Consensus 172 ---~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~----~p~~IdypIP~Nd 228 (268)
.+.-+.=|+++=+.|..+...=-.|++.|..+++-|||+.-.|- ....+.+.||..+
T Consensus 101 RqveA~g~~GDvLigISTSGNS~nVl~Ai~~Ak~~gm~vI~ltG~~GG~~~~~~D~~i~VPs~~ 164 (176)
T COG0279 101 RQVEALGQPGDVLIGISTSGNSKNVLKAIEAAKEKGMTVIALTGKDGGKLAGLLDVEIRVPSTD 164 (176)
T ss_pred HHHHhcCCCCCEEEEEeCCCCCHHHHHHHHHHHHcCCEEEEEecCCCcccccccceEEecCCCc
Confidence 34567788888888754422224789999999999999975543 3345777788874
No 27
>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=92.58 E-value=0.26 Score=38.32 Aligned_cols=79 Identities=19% Similarity=0.120 Sum_probs=49.6
Q ss_pred eEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCC--CchHHHhhhhCCC
Q psy13427 129 IVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEP--NPAIGEAAKMCIP 206 (268)
Q Consensus 129 ~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d--~~aI~EA~~l~IP 206 (268)
+||+||.......-+++.+++.|...+.. =..|-.+.....+......+|+||++--. ++.+ ..+-++|.+.+||
T Consensus 1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~h-g~~~~~~~~~~~l~~~i~~aD~VIv~t~~--vsH~~~~~vk~~akk~~ip 77 (97)
T PF10087_consen 1 SVLIVGGREDRERRYKRILEKYGGKLIHH-GRDGGDEKKASRLPSKIKKADLVIVFTDY--VSHNAMWKVKKAAKKYGIP 77 (97)
T ss_pred CEEEEcCCcccHHHHHHHHHHcCCEEEEE-ecCCCCccchhHHHHhcCCCCEEEEEeCC--cChHHHHHHHHHHHHcCCc
Confidence 48999997777677788888888765432 11233343332334556789998876421 2222 3466778888999
Q ss_pred cccc
Q psy13427 207 TVGI 210 (268)
Q Consensus 207 tIal 210 (268)
++-.
T Consensus 78 ~~~~ 81 (97)
T PF10087_consen 78 IIYS 81 (97)
T ss_pred EEEE
Confidence 8643
No 28
>PRK13937 phosphoheptose isomerase; Provisional
Probab=92.35 E-value=3.1 Score=36.10 Aligned_cols=102 Identities=15% Similarity=0.199 Sum_probs=60.5
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEeCChhhH---HHHHHHHHHcCCceecCCcccCcccc-----h------------hh
Q psy13427 110 AELLRDALNFVAHIAYRDGIVLFVGQSAQNS---LLIEKTAQDCQEFAHTRFWRQGMFTN-----S------------EK 169 (268)
Q Consensus 110 ~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~---~~V~~~A~~~g~~~i~~rW~gG~LTN-----~------------~~ 169 (268)
...|..|+.-+.....+.++|.++|...... .....+..+.+ . ..+|.-.. + ..
T Consensus 21 ~~~l~~aa~~i~~~l~~a~rI~i~G~G~S~~~A~~~a~~~~~~~~----~--~r~g~~~~~~~~d~~~~~~~~~d~~~~~ 94 (188)
T PRK13937 21 LEAIAKVAEALIEALANGGKILLCGNGGSAADAQHIAAELVGRFK----K--ERPALPAIALTTDTSALTAIGNDYGFER 94 (188)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEeCcHhHHHHHHHHHHhhcccc----C--CCCCcceEeccCcHHHHHHHhccCCHHH
Confidence 4778888888888889999999999877543 22122221111 0 11222111 1 10
Q ss_pred h----hccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC
Q psy13427 170 L----FRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP 217 (268)
Q Consensus 170 ~----~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p 217 (268)
. .....+.-|++|++.--..-.+-..+++.|++.|+|||+|++...++
T Consensus 95 ~~~~~~~~~~~~~Dl~i~iS~sG~t~~~~~~~~~ak~~g~~~I~iT~~~~s~ 146 (188)
T PRK13937 95 VFSRQVEALGRPGDVLIGISTSGNSPNVLAALEKARELGMKTIGLTGRDGGK 146 (188)
T ss_pred HHHHHHHhhCCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEeCCCCCh
Confidence 0 11134567898888732211223468899999999999999865443
No 29
>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=92.21 E-value=1.3 Score=41.51 Aligned_cols=142 Identities=10% Similarity=0.063 Sum_probs=81.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHH---cCCce--ecCCcccCc---ccchh---------
Q psy13427 106 LDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQD---CQEFA--HTRFWRQGM---FTNSE--------- 168 (268)
Q Consensus 106 L~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~---~g~~~--i~~rW~gG~---LTN~~--------- 168 (268)
+...+..+.+|...+.....++|+|.++|....+.-.+...++. .|..+ +.+-..||- +.+..
T Consensus 36 v~~~l~~I~~av~~~~~~l~~gGrl~~~G~G~Sg~l~~~DA~e~~~t~g~~~~~~~~~iaGg~~a~~~~~e~~Ed~~~~~ 115 (291)
T TIGR00274 36 IESVLPDIAAAVEQIVQAFQQGGRLIYIGAGTSGRLGVLDASECPPTFGVSPELVKGIIAGGECAILHAVEGAEDSTEAG 115 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCEEEEECCcHHHHHHHHHHHHhhhhcCCCHHHhhHHhcCChHHHhccchhhhcchHHH
Confidence 34556777888888887778999999999887654333333332 23211 112223331 11111
Q ss_pred -hhhc-cccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccCC-----------CCchhH
Q psy13427 169 -KLFR-AVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGN-----------DDTPSA 233 (268)
Q Consensus 169 -~~~~-~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~N-----------ddS~~S 233 (268)
.... .....-|++|++..-..-.+-..+++.|++.|.|+|+|+....++ +..|+.|... -.|..+
T Consensus 116 ~~dl~~~~l~~~DvvI~IS~SG~T~~vi~al~~Ak~~Ga~tIaIT~~~~s~La~~aD~~I~~~~g~E~~~~st~~~s~~a 195 (291)
T TIGR00274 116 ANDLQNIHLTKNDVVVGIAASGRTPYVIAGLQYARSLGALTISIACNPKSAASEIADIAIETIVGPEILTGSSRLKAGTA 195 (291)
T ss_pred HHHHHhcCCCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCeEEEEECCCCChhHHhCCEEEecCCCCccccccchhhHHHH
Confidence 0011 124466888877642221223478899999999999997543222 3455555432 135667
Q ss_pred HHHHHHHHHHHHHh
Q psy13427 234 IQYYCQVFKTAILK 247 (268)
Q Consensus 234 I~li~~lL~~aIl~ 247 (268)
..+++.+|+..+..
T Consensus 196 qk~iLd~L~t~~~~ 209 (291)
T TIGR00274 196 QKMVLNMLSTASMI 209 (291)
T ss_pred HHHHHHHHHHHHHH
Confidence 77788888877653
No 30
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=91.99 E-value=2.2 Score=35.76 Aligned_cols=52 Identities=13% Similarity=0.067 Sum_probs=33.9
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPG 226 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~ 226 (268)
.+.-|++|++..-..-.+-..+++.|++.|+|+|+|++...+| +..|+.|..
T Consensus 77 ~~~~D~~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~~s~l~~~ad~~l~~ 130 (154)
T TIGR00441 77 GQKGDVLLGISTSGNSKNVLKAIEAAKDKGMKTITLAGKDGGKMAGLADIELRV 130 (154)
T ss_pred CCCCCEEEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchhhhCCEEEEe
Confidence 4667898888732211223478889999999999999865443 234444433
No 31
>PRK15482 transcriptional regulator MurR; Provisional
Probab=91.84 E-value=4.2 Score=37.22 Aligned_cols=55 Identities=15% Similarity=0.053 Sum_probs=36.2
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC----CceeeeccCCCC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP----NLITYPVPGNDD 229 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p----~~IdypIP~Ndd 229 (268)
...-|++|++.--..-.+-..+++.|+..|.|+|+|+|...+| +.+.+.+|..+.
T Consensus 180 ~~~~Dv~i~iS~sg~t~~~~~~~~~a~~~g~~iI~IT~~~~s~la~~ad~~l~~~~~~~ 238 (285)
T PRK15482 180 LKKGDVQIAISYSGSKKEIVLCAEAARKQGATVIAITSLADSPLRRLAHFTLDTVSGET 238 (285)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEeCCCCCchHHhCCEEEEcCCCcc
Confidence 3456888888732221223478889999999999999987665 334444555433
No 32
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=91.44 E-value=2.9 Score=38.93 Aligned_cols=104 Identities=13% Similarity=0.133 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhC-CCeEEEEeCChhhHHHHHHHHHH---cCCcee--cCCcccCcccchhhhhccccCCCc
Q psy13427 106 LDQSAELLRDALNFVAHIAYR-DGIVLFVGQSAQNSLLIEKTAQD---CQEFAH--TRFWRQGMFTNSEKLFRAVTRLPD 179 (268)
Q Consensus 106 L~~T~~~L~~A~~~I~~i~~~-~g~ILfV~t~~~~~~~V~~~A~~---~g~~~i--~~rW~gG~LTN~~~~~~~~~~~Pd 179 (268)
++.|...|...+.-+.....+ .++|.|+|...... +.+.++.+ .|...+ ...+.. .... .....-|
T Consensus 25 ~~~t~~~~~~~l~~~~~~l~~a~~~I~i~G~G~S~~-~a~~~~~~l~~~g~~~~~~~~~~~~----~~~~---~~~~~~d 96 (326)
T PRK10892 25 LAELDQYINQDFTLACEKMFWCKGKVVVMGMGKSGH-IGRKMAATFASTGTPSFFVHPGEAA----HGDL---GMVTPQD 96 (326)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCeEEEEeCcHhHH-HHHHHHHHHhcCCceeEEeChHHhh----cccc---ccCCCCC
Confidence 455555555544444444334 47899999885432 22233332 343211 111110 0000 1234578
Q ss_pred eeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC
Q psy13427 180 LVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP 217 (268)
Q Consensus 180 lvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p 217 (268)
++|++..-....+=..+++.|+..|+|||+|++...++
T Consensus 97 ~~I~iS~sG~t~~~~~~~~~ak~~g~~vi~iT~~~~s~ 134 (326)
T PRK10892 97 VVIAISNSGESSEILALIPVLKRLHVPLICITGRPESS 134 (326)
T ss_pred EEEEEeCCCCCHHHHHHHHHHHHCCCcEEEEECCCCCc
Confidence 88888732222223478999999999999999876555
No 33
>PRK11337 DNA-binding transcriptional repressor RpiR; Provisional
Probab=91.38 E-value=4.6 Score=36.98 Aligned_cols=54 Identities=15% Similarity=0.076 Sum_probs=35.6
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--C--ceeeeccCCC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--N--LITYPVPGND 228 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~--~IdypIP~Nd 228 (268)
...-|++|++.--..-.+-..+++.|+..|+|+|+|+|...+| . .+.+.+|.+.
T Consensus 185 ~~~~Dl~I~iS~sG~t~~~~~~~~~ak~~g~~ii~IT~~~~s~la~~ad~~l~~~~~~ 242 (292)
T PRK11337 185 LQEGDVVLVVSHSGRTSDVIEAVELAKKNGAKIICITNSYHSPIAKLADYVICSTAQG 242 (292)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCChhHHhCCEEEEcCCCC
Confidence 4568888887631111222467788899999999999988776 2 2444555543
No 34
>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=90.16 E-value=1.8 Score=33.98 Aligned_cols=51 Identities=22% Similarity=0.114 Sum_probs=32.7
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccC
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPG 226 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~ 226 (268)
..-|++|++..-.+...-..+++.|+..|+++|++.+...++ +..|+.|+.
T Consensus 59 ~~~~~~i~iS~~g~~~~~~~~~~~a~~~g~~iv~iT~~~~~~l~~~~d~~i~~ 111 (139)
T cd05013 59 TPGDVVIAISFSGETKETVEAAEIAKERGAKVIAITDSANSPLAKLADIVLLV 111 (139)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHcCCeEEEEcCCCCChhHHhcCEEEEc
Confidence 456888888742221112357888999999999999876554 234444443
No 35
>PRK02947 hypothetical protein; Provisional
Probab=89.59 E-value=4 Score=37.07 Aligned_cols=104 Identities=16% Similarity=0.172 Sum_probs=60.2
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCce-ecCCcccCc--------cc---c---hhhhh--c
Q psy13427 110 AELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFA-HTRFWRQGM--------FT---N---SEKLF--R 172 (268)
Q Consensus 110 ~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~-i~~rW~gG~--------LT---N---~~~~~--~ 172 (268)
.+.+.+|+..+.....++++|.++|...... +...+..+.|... +..-+.+.. .| + +...+ .
T Consensus 23 ~e~i~~aa~lla~~i~~a~~I~i~G~G~S~~-vA~~~~~rlg~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 101 (246)
T PRK02947 23 AEAIEKAADLIADSIRNGGLIYVFGTGHSHI-LAEEVFYRAGGLAPVNPILEPSLMLHEGAVASSYLERVEGYAKAILDR 101 (246)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEcCcHHHH-HHHHhccccccCcccCCCCCHHHhccccHHHHHHhhhcccHHHHHHHH
Confidence 3678899999999889999999999886543 2223333332110 000011110 00 0 00000 1
Q ss_pred cccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCC
Q psy13427 173 AVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSN 214 (268)
Q Consensus 173 ~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn 214 (268)
.....-|++|++..-....+--.+++.|++.|+|+|+|++..
T Consensus 102 ~~~~~~Dv~i~iS~sG~t~~~i~~~~~a~~~g~~vI~iT~~~ 143 (246)
T PRK02947 102 YDIRPGDVLIVVSNSGRNPVPIEMALEAKERGAKVIAVTSLA 143 (246)
T ss_pred cCCCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCEEEEEcCCc
Confidence 234567888888742221222467889999999999999874
No 36
>PRK11382 frlB fructoselysine-6-P-deglycase; Provisional
Probab=88.57 E-value=8.1 Score=36.63 Aligned_cols=112 Identities=10% Similarity=-0.006 Sum_probs=56.7
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEeCChhh--HHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCC
Q psy13427 111 ELLRDALNFVAHIAYRDGIVLFVGQSAQN--SLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLT 188 (268)
Q Consensus 111 ~~L~~A~~~I~~i~~~~g~ILfV~t~~~~--~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~ 188 (268)
+.+.+++..+.+ .+-++|.|+++.... ....+.+..+.....+. -..+.-+..+.. .....-|++|++.--.
T Consensus 30 ~~l~~~~~~l~~--~~~~~I~~~g~GsS~~aa~~~~~~~~k~~~i~v~-~~~~~~~~~~~~---~~~~~~~lvI~iS~SG 103 (340)
T PRK11382 30 PLVHAIVEEMVK--RDIDRIYFVACGSPLNAAQTAKHLADRFSDLQVY-AISGWEFCDNTP---YRLDDRCAVIGVSDYG 103 (340)
T ss_pred HHHHHHHHHHHh--CCCCEEEEEEechHHHHHHHHHHHHHHHcCCCeE-EeccHHHHhcCC---cCCCCCCEEEEEcCCC
Confidence 444555555543 245778898876543 22223232332211111 111111211111 0122346666665211
Q ss_pred CCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccCCC
Q psy13427 189 TVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGND 228 (268)
Q Consensus 189 ~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~Nd 228 (268)
.-.+--.|++.|++.|.|||||++...+| +..|+.|+.+-
T Consensus 104 eT~e~i~al~~ak~~Ga~~I~IT~~~~S~L~~~ad~~l~~~a 145 (340)
T PRK11382 104 KTEEVIKALELGRACGALTAAFTKRADSPITSAAEFSIDYQA 145 (340)
T ss_pred CCHHHHHHHHHHHHcCCeEEEEECCCCChHHHhCCEEEEeCC
Confidence 11122478888999999999998775544 56788887774
No 37
>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=88.49 E-value=0.99 Score=35.52 Aligned_cols=98 Identities=15% Similarity=0.124 Sum_probs=55.4
Q ss_pred hCCCeEEEEeCChhh---HHHHHHHHHHcCCc---eecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHH
Q psy13427 125 YRDGIVLFVGQSAQN---SLLIEKTAQDCQEF---AHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIG 198 (268)
Q Consensus 125 ~~~g~ILfV~t~~~~---~~~V~~~A~~~g~~---~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~ 198 (268)
.+.++|.|+|+.... ..+-.++.+-.+.. +-.+.+.++.+.+ ...=|++|++..-....+-...++
T Consensus 3 ~~~~~i~i~G~G~s~~~A~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~--------~~~~d~vi~is~sg~~~~~~~~~~ 74 (131)
T PF01380_consen 3 AKAKRIYIYGSGSSYGVAQYAALKLQKLGRIVVISYEAGEFFHGPLEN--------LDPDDLVIIISYSGETRELIELLR 74 (131)
T ss_dssp TTSSEEEEEESTHHHHHHHHHHHHHHHHHSSEEEEEEHHHHHTTGGGG--------CSTTEEEEEEESSSTTHHHHHHHH
T ss_pred CCCCEEEEEEcchHHHHHHHHHHHHHHhcCcceeccchHHHhhhhccc--------ccccceeEeeeccccchhhhhhhH
Confidence 456789999987643 33333442222221 1122222332222 223477777773221122246788
Q ss_pred HhhhhCCCccccccCCCCC----CceeeeccCCCCc
Q psy13427 199 EAAKMCIPTVGIVDSNCNP----NLITYPVPGNDDT 230 (268)
Q Consensus 199 EA~~l~IPtIalvDTn~~p----~~IdypIP~NddS 230 (268)
+|++.|.|+|+|++...++ ..+.+.+|.++..
T Consensus 75 ~ak~~g~~vi~iT~~~~~~l~~~ad~~l~~~~~~~~ 110 (131)
T PF01380_consen 75 FAKERGAPVILITSNSESPLARLADIVLYIPTGEES 110 (131)
T ss_dssp HHHHTTSEEEEEESSTTSHHHHHSSEEEEEESSCGS
T ss_pred HHHhcCCeEEEEeCCCCCchhhhCCEEEEecCCCcc
Confidence 9999999999999876665 3356666776655
No 38
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=87.47 E-value=12 Score=35.36 Aligned_cols=127 Identities=15% Similarity=0.122 Sum_probs=71.7
Q ss_pred HHHHHHHHHHHHH-----HHhCCCeEEEEeCChhh--HHHHHHHH-HHcCCceecCCcccCcccchhhhhccccCCCcee
Q psy13427 110 AELLRDALNFVAH-----IAYRDGIVLFVGQSAQN--SLLIEKTA-QDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLV 181 (268)
Q Consensus 110 ~~~L~~A~~~I~~-----i~~~~g~ILfV~t~~~~--~~~V~~~A-~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlv 181 (268)
-++++.|.....+ +..+.++|.|+|..... ...++.+. ..++...+. ..+... . .....-|++
T Consensus 12 ~~q~~~a~~~~~~~~~~~~~~~~~~I~i~G~GgS~~~a~~~~~~l~~~~~~~~~~---~~~~~~---~---~~~~~~dlv 82 (337)
T PRK08674 12 PEQFEEALEIAISLDLEEDLEKIDNIVISGMGGSGIGGDLLRILLFDELKVPVFV---NRDYTL---P---AFVDEKTLV 82 (337)
T ss_pred HHHHHHHHHhhhccchhhhhcCCCEEEEEECcHHHHHHHHHHHHHHhcCCCcEEE---eCccch---h---hcCCCCcEE
Confidence 3556666665554 33466789999987422 23333332 334433221 111100 0 123456788
Q ss_pred eeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCce-------eeeccCCCCchhHHHHHHHHHHHHHH
Q psy13427 182 ILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLI-------TYPVPGNDDTPSAIQYYCQVFKTAIL 246 (268)
Q Consensus 182 ivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~I-------dypIP~NddS~~SI~li~~lL~~aIl 246 (268)
|++..-.+-.+-..+++.|.+.|+++|++++. +..... .++||++.-+..|..+++..+...+.
T Consensus 83 I~iS~SG~T~e~~~a~~~a~~~ga~vIaIT~~-~~L~~~a~~~~~~~i~ip~~~~~r~s~~~ll~~l~~~l~ 153 (337)
T PRK08674 83 IAVSYSGNTEETLSAVEQALKRGAKIIAITSG-GKLKEMAKEHGLPVIIVPGGYQPRAALGYLFTPLLKILE 153 (337)
T ss_pred EEEcCCCCCHHHHHHHHHHHHCCCeEEEECCC-chHHHHHHhcCCeEEEeCCCCcchhhHHHHHHHHHHHHH
Confidence 88763222122247789999999999999963 333222 67888888777777766666554443
No 39
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=87.09 E-value=5.9 Score=40.79 Aligned_cols=52 Identities=13% Similarity=0.057 Sum_probs=34.5
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC-CceeeeccC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP-NLITYPVPG 226 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p-~~IdypIP~ 226 (268)
...-|++|++.--....+-..+++.|++.|+|||+|+|.+++. ...|+.++.
T Consensus 513 l~~~DvvI~iS~sG~t~e~i~~~~~Ak~~Ga~vIaIT~~~spLa~~aD~~L~~ 565 (638)
T PRK14101 513 LGKGDVIVAVSKSGRAPELLRVLDVAMQAGAKVIAITSSNTPLAKRATVALET 565 (638)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEcCCCChhHhhCCEEEEc
Confidence 4567888887732111223468888999999999999975544 335565554
No 40
>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=86.81 E-value=2.3 Score=33.63 Aligned_cols=50 Identities=14% Similarity=0.084 Sum_probs=33.8
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--Cceeeec
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPV 224 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypI 224 (268)
...-|++|++.--....+-..+++.|+..|+|+|+|++....| ..-|+.+
T Consensus 45 ~~~~d~vi~iS~sG~t~~~~~~~~~a~~~g~~vi~iT~~~~s~la~~ad~~l 96 (128)
T cd05014 45 VTPGDVVIAISNSGETDELLNLLPHLKRRGAPIIAITGNPNSTLAKLSDVVL 96 (128)
T ss_pred CCCCCEEEEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCCCchhhhCCEEE
Confidence 3567888888732222233578999999999999999976544 3345544
No 41
>PRK00331 glucosamine--fructose-6-phosphate aminotransferase; Reviewed
Probab=86.64 E-value=7.4 Score=39.67 Aligned_cols=97 Identities=11% Similarity=0.047 Sum_probs=53.3
Q ss_pred hCCCeEEEEeCChhh--HHHHHHHHHHcCCceecCCcc-cCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhh
Q psy13427 125 YRDGIVLFVGQSAQN--SLLIEKTAQDCQEFAHTRFWR-QGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAA 201 (268)
Q Consensus 125 ~~~g~ILfV~t~~~~--~~~V~~~A~~~g~~~i~~rW~-gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~ 201 (268)
.+-++|.|+|+.... ....+.+..+.+...+. .. ++.+.... ......|++|++.--....+-..+++.|+
T Consensus 287 ~~a~~I~~~G~GsS~~aa~~a~~~~~~~~~~~~~--~~~~~~~~~~~----~~~~~~dlvI~iS~SG~T~e~i~a~~~ak 360 (604)
T PRK00331 287 KKIDRIYIVACGTSYHAGLVAKYLIESLAGIPVE--VEIASEFRYRD----PVLSPKTLVIAISQSGETADTLAALRLAK 360 (604)
T ss_pred hcCCEEEEEEeecHHHHHHHHHHHHHHHcCCCEE--EEehhhhhccC----CCCCCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence 456779999987532 23344444443222111 11 12222111 12345688888763221122346888999
Q ss_pred hhCCCccccccCCCCC--CceeeeccCC
Q psy13427 202 KMCIPTVGIVDSNCNP--NLITYPVPGN 227 (268)
Q Consensus 202 ~l~IPtIalvDTn~~p--~~IdypIP~N 227 (268)
..|+|||+|++...++ ...|+.|+.+
T Consensus 361 ~~ga~~IaIT~~~~S~La~~aD~~l~~~ 388 (604)
T PRK00331 361 ELGAKTLAICNVPGSTIARESDAVLYTH 388 (604)
T ss_pred HCCCCEEEEECCCCChhHHhcCcEEEec
Confidence 9999999999875544 4456666654
No 42
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=86.57 E-value=12 Score=34.64 Aligned_cols=43 Identities=12% Similarity=0.142 Sum_probs=31.2
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP 217 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p 217 (268)
....|++|++.--....+--.+++.|++.|+|+|+|.+...+|
T Consensus 87 ~~~~d~~i~iS~sG~t~~~~~~~~~ak~~g~~vI~iT~~~~s~ 129 (321)
T PRK11543 87 IESRDVMLFISYSGGAKELDLIIPRLEDKSIALLAMTGKPTSP 129 (321)
T ss_pred cCCCCEEEEEeCCCCcHHHHHHHHHHHHcCCeEEEEECCCCCh
Confidence 4567898888732222223478899999999999999976555
No 43
>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=83.96 E-value=1.6 Score=34.96 Aligned_cols=54 Identities=20% Similarity=0.210 Sum_probs=36.0
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccCCCC
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGNDD 229 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~Ndd 229 (268)
..-|++|++..-....+--.+++.|++.|.|+|++++...++ ...|+.+.....
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 456888887742222334578899999999999999876655 334555544433
No 44
>PLN02335 anthranilate synthase
Probab=82.46 E-value=3.8 Score=36.68 Aligned_cols=82 Identities=10% Similarity=0.119 Sum_probs=49.0
Q ss_pred HhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhh
Q psy13427 124 AYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKM 203 (268)
Q Consensus 124 ~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l 203 (268)
+.+.++||+|.....+...+.+.....|.....-+|-.. ..... ....||.||+..--.++.....+.+....+
T Consensus 15 ~~~~~~ilviD~~dsft~~i~~~L~~~g~~~~v~~~~~~---~~~~~---~~~~~d~iVisgGPg~p~d~~~~~~~~~~~ 88 (222)
T PLN02335 15 SKQNGPIIVIDNYDSFTYNLCQYMGELGCHFEVYRNDEL---TVEEL---KRKNPRGVLISPGPGTPQDSGISLQTVLEL 88 (222)
T ss_pred cCccCcEEEEECCCCHHHHHHHHHHHCCCcEEEEECCCC---CHHHH---HhcCCCEEEEcCCCCChhhccchHHHHHHh
Confidence 356789999998887777777777777876544344221 12211 123589999887323333222233333333
Q ss_pred --CCCccccc
Q psy13427 204 --CIPTVGIV 211 (268)
Q Consensus 204 --~IPtIalv 211 (268)
++|+.|+|
T Consensus 89 ~~~~PiLGIC 98 (222)
T PLN02335 89 GPLVPLFGVC 98 (222)
T ss_pred CCCCCEEEec
Confidence 59999987
No 45
>PRK06774 para-aminobenzoate synthase component II; Provisional
Probab=81.47 E-value=3.9 Score=35.33 Aligned_cols=76 Identities=12% Similarity=0.058 Sum_probs=42.4
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCC---CchHHHhhhhCCC
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEP---NPAIGEAAKMCIP 206 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d---~~aI~EA~~l~IP 206 (268)
||+|.+...+..-+.....+.|.....-+|-...+.... ...||.||+..--.++.++ ...++ +...++|
T Consensus 2 il~id~~dsf~~nl~~~l~~~~~~~~v~~~~~~~~~~~~------~~~~~~iilsgGP~~~~~~~~~~~~i~-~~~~~~P 74 (191)
T PRK06774 2 LLLIDNYDSFTYNLYQYFCELGTEVMVKRNDELQLTDIE------QLAPSHLVISPGPCTPNEAGISLAVIR-HFADKLP 74 (191)
T ss_pred EEEEECCCchHHHHHHHHHHCCCcEEEEeCCCCCHHHHH------hcCCCeEEEcCCCCChHhCCCchHHHH-HhcCCCC
Confidence 789999876655444444456655443344333222211 2369999987732333332 22333 3456999
Q ss_pred cccccc
Q psy13427 207 TVGIVD 212 (268)
Q Consensus 207 tIalvD 212 (268)
++|||=
T Consensus 75 iLGIC~ 80 (191)
T PRK06774 75 ILGVCL 80 (191)
T ss_pred EEEECH
Confidence 999983
No 46
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=80.67 E-value=11 Score=38.83 Aligned_cols=105 Identities=13% Similarity=0.170 Sum_probs=70.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCCh----hhHHHHHHHHHHcCC----ceecCCcccCcccchhhhhccccC
Q psy13427 105 DLDQSAELLRDALNFVAHIAYRDGIVLFVGQSA----QNSLLIEKTAQDCQE----FAHTRFWRQGMFTNSEKLFRAVTR 176 (268)
Q Consensus 105 nL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~----~~~~~V~~~A~~~g~----~~i~~rW~gG~LTN~~~~~~~~~~ 176 (268)
|. ..+.-+.+|...|..-..++.+|+++|--. .+.-++.++.++.|. +|+-.|...|-=-|...+-+-...
T Consensus 48 ~P-~~l~~m~~a~~ri~~ai~~~e~I~I~gDyD~DGitstail~~~L~~~g~~~~~~~IP~R~~eGYGl~~~~i~~~~~~ 126 (575)
T PRK11070 48 PW-QQLSGIEKAVELLYNALREGTRIIVVGDFDADGATSTALSVLALRSLGCSNVDYLVPNRFEDGYGLSPEVVDQAHAR 126 (575)
T ss_pred Ch-HHhhCHHHHHHHHHHHHHCCCEEEEEEecCccHHHHHHHHHHHHHHcCCCceEEEeCCCCcCCCCCCHHHHHHHHhc
Confidence 44 345677888888887778999999998754 234455667777775 567777766653343322111234
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCC
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSN 214 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn 214 (268)
.+++||.+|.. ..+..++..|+.+||.+|- .|=.
T Consensus 127 ~~~LiItvD~G---i~~~e~i~~a~~~gidvIV-tDHH 160 (575)
T PRK11070 127 GAQLIVTVDNG---ISSHAGVAHAHALGIPVLV-TDHH 160 (575)
T ss_pred CCCEEEEEcCC---cCCHHHHHHHHHCCCCEEE-ECCC
Confidence 57899999953 3567899999999998864 3543
No 47
>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=80.62 E-value=13 Score=29.91 Aligned_cols=113 Identities=15% Similarity=0.077 Sum_probs=61.7
Q ss_pred CCCeEEEEeCChh---hHHHHHHHHHHcC---CceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCC--CCchH
Q psy13427 126 RDGIVLFVGQSAQ---NSLLIEKTAQDCQ---EFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLE--PNPAI 197 (268)
Q Consensus 126 ~~g~ILfV~t~~~---~~~~V~~~A~~~g---~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~--d~~aI 197 (268)
+-.+|.|+|.... +.+.-.++.+..+ ..+....|..|.+.+ ...-+++|++.+-+ ... ...++
T Consensus 12 ~~~~i~~~G~G~s~~~a~e~~~kl~e~~~i~~~~~~~~e~~hg~~~~--------~~~~~~vi~is~~g-~t~~~~~~~~ 82 (153)
T cd05009 12 EAKSFYVLGRGPNYGTALEGALKLKETSYIHAEAYSAGEFKHGPIAL--------VDEGTPVIFLAPED-RLEEKLESLI 82 (153)
T ss_pred ccCcEEEEcCCCCHHHHHHHHHHHHHHHhhcceeccHHHhccChhhh--------ccCCCcEEEEecCC-hhHHHHHHHH
Confidence 4577889998753 2333334444432 234445566665443 23456777776421 111 23578
Q ss_pred HHhhhhCCCccccccCCCCCCceee--eccCCCC--chhHHHHHHHHHHHHHHh
Q psy13427 198 GEAAKMCIPTVGIVDSNCNPNLITY--PVPGNDD--TPSAIQYYCQVFKTAILK 247 (268)
Q Consensus 198 ~EA~~l~IPtIalvDTn~~p~~Idy--pIP~Ndd--S~~SI~li~~lL~~aIl~ 247 (268)
+.+.+.|.|+|+|.+.+.+....|+ .+|.-.+ ++-..-+.+++|+..+..
T Consensus 83 ~~~~~~~~~vi~it~~~~s~~~~d~~i~~~~~~~~~~~~~~~~~~q~la~~~a~ 136 (153)
T cd05009 83 KEVKARGAKVIVITDDGDAKDLADVVIRVPATVEELSPLLYIVPLQLLAYHLAV 136 (153)
T ss_pred HHHHHcCCEEEEEecCCcccccCCeEEECCCCchhHHHHHHHHHHHHHHHHHHH
Confidence 8888999999999876543223333 4443221 344444555666665553
No 48
>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=80.10 E-value=31 Score=31.80 Aligned_cols=101 Identities=18% Similarity=0.194 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHHHHHHHh---CCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeee
Q psy13427 108 QSAELLRDALNFVAHIAY---RDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILT 184 (268)
Q Consensus 108 ~T~~~L~~A~~~I~~i~~---~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivl 184 (268)
+-...|.+|+..+..-.. .+-+++++|..+.. +.+++.++..+.... -|..|...+.... ...-|++++.
T Consensus 207 Kg~~~li~a~~~l~~~~~~~~~~~~l~i~G~g~~~-~~~~~~~~~~~~~~~--v~~~g~~~~~~~~----~~~adi~v~p 279 (374)
T TIGR03088 207 KDQPTLVRAFALLVRQLPEGAERLRLVIVGDGPAR-GACEQMVRAAGLAHL--VWLPGERDDVPAL----MQALDLFVLP 279 (374)
T ss_pred cCHHHHHHHHHHHHHhCcccccceEEEEecCCchH-HHHHHHHHHcCCcce--EEEcCCcCCHHHH----HHhcCEEEec
Confidence 344455556555443211 13467888876543 345666666664321 2555654444433 2345666553
Q ss_pred cCCCCCCCCCchHHHhhhhCCCccccccCCCCCCc
Q psy13427 185 NTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNL 219 (268)
Q Consensus 185 d~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~ 219 (268)
.- ...-..++-||..+|+|+|+ .|....++.
T Consensus 280 S~---~Eg~~~~~lEAma~G~Pvv~-s~~~g~~e~ 310 (374)
T TIGR03088 280 SL---AEGISNTILEAMASGLPVIA-TAVGGNPEL 310 (374)
T ss_pred cc---cccCchHHHHHHHcCCCEEE-cCCCCcHHH
Confidence 31 11225689999999999998 455444443
No 49
>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=78.74 E-value=4.8 Score=31.66 Aligned_cols=43 Identities=19% Similarity=0.074 Sum_probs=30.8
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP 217 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p 217 (268)
....|++|++..-....+-..++++|+..|.|+|+++|...+|
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 4567888887632222233478899999999999999986655
No 50
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=78.23 E-value=0.78 Score=35.95 Aligned_cols=95 Identities=15% Similarity=0.124 Sum_probs=46.5
Q ss_pred CCCeEEEEeCChhhHHHHHHHHHHc-CCceecCC--cccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhh
Q psy13427 126 RDGIVLFVGQSAQNSLLIEKTAQDC-QEFAHTRF--WRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAK 202 (268)
Q Consensus 126 ~~g~ILfV~t~~~~~~~V~~~A~~~-g~~~i~~r--W~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~ 202 (268)
++.++|+||..+.+..-++.+.+.- ..+.+... ...|.++-....+.....--++||..- ++..-+....++|..
T Consensus 6 ~~~~vlVvGgG~va~~k~~~Ll~~gA~v~vis~~~~~~~~~i~~~~~~~~~~l~~~~lV~~at--~d~~~n~~i~~~a~~ 83 (103)
T PF13241_consen 6 KGKRVLVVGGGPVAARKARLLLEAGAKVTVISPEIEFSEGLIQLIRREFEEDLDGADLVFAAT--DDPELNEAIYADARA 83 (103)
T ss_dssp TT-EEEEEEESHHHHHHHHHHCCCTBEEEEEESSEHHHHTSCEEEESS-GGGCTTESEEEE-S--S-HHHHHHHHHHHHH
T ss_pred CCCEEEEECCCHHHHHHHHHHHhCCCEEEEECCchhhhhhHHHHHhhhHHHHHhhheEEEecC--CCHHHHHHHHHHHhh
Confidence 5678888888887765555444331 12223322 122333311111211222344454432 334455677888888
Q ss_pred hCCCccccccCCCCCCceeeeccC
Q psy13427 203 MCIPTVGIVDSNCNPNLITYPVPG 226 (268)
Q Consensus 203 l~IPtIalvDTn~~p~~IdypIP~ 226 (268)
.|||+ +.-.+|++-||.+|+
T Consensus 84 ~~i~v----n~~D~p~~~dF~~Pa 103 (103)
T PF13241_consen 84 RGILV----NVVDDPELCDFIFPA 103 (103)
T ss_dssp TTSEE----EETT-CCCCSEE--E
T ss_pred CCEEE----EECCCcCCCeEEcCC
Confidence 99987 444456777777774
No 51
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=77.48 E-value=36 Score=31.37 Aligned_cols=73 Identities=22% Similarity=0.125 Sum_probs=41.7
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--C--ceeeeccCCCCc--------hhHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--N--LITYPVPGNDDT--------PSAIQYYCQVFK 242 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~--~IdypIP~NddS--------~~SI~li~~lL~ 242 (268)
...=|++|++.--....+=-.+++.|+..|.|||+|.|+-.+| + .+.+..|.++.+ ..+.-+++.+|.
T Consensus 175 ~~~~Dv~i~iS~sG~t~e~i~~a~~ak~~ga~vIaiT~~~~spla~~Ad~~L~~~~~~~~~~~~~~~s~~a~l~l~d~L~ 254 (281)
T COG1737 175 LTPGDVVIAISFSGYTREIVEAAELAKERGAKVIAITDSADSPLAKLADIVLLVPVAEESFFRSPISSRIAQLALIDALI 254 (281)
T ss_pred CCCCCEEEEEeCCCCcHHHHHHHHHHHHCCCcEEEEcCCCCCchhhhhceEEeccCccccchhhhHHHHHHHHHHHHHHH
Confidence 4456788877621111222467788899999999999994444 2 244444333332 223344455555
Q ss_pred HHHHh
Q psy13427 243 TAILK 247 (268)
Q Consensus 243 ~aIl~ 247 (268)
.++..
T Consensus 255 ~~~~~ 259 (281)
T COG1737 255 TAVAQ 259 (281)
T ss_pred HHHHH
Confidence 55554
No 52
>PRK07649 para-aminobenzoate/anthranilate synthase glutamine amidotransferase component II; Validated
Probab=76.37 E-value=6.9 Score=34.27 Aligned_cols=76 Identities=9% Similarity=0.072 Sum_probs=43.3
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCC--chHHHhhhhCCCc
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPN--PAIGEAAKMCIPT 207 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~--~aI~EA~~l~IPt 207 (268)
||+|.+...+..-+....++.|.....-++-... .... ....||.||+..--.++.+.. ..+-+....++|+
T Consensus 2 il~idn~dsft~nl~~~l~~~g~~v~v~~~~~~~---~~~~---~~~~~d~iIlsgGP~~p~~~~~~~~~i~~~~~~~Pv 75 (195)
T PRK07649 2 ILMIDNYDSFTFNLVQFLGELGQELVVKRNDEVT---ISDI---ENMKPDFLMISPGPCSPNEAGISMEVIRYFAGKIPI 75 (195)
T ss_pred EEEEeCCCccHHHHHHHHHHCCCcEEEEeCCCCC---HHHH---hhCCCCEEEECCCCCChHhCCCchHHHHHhcCCCCE
Confidence 7999998877766666666667654443432221 1111 123589999887322332221 1222233468999
Q ss_pred cccc
Q psy13427 208 VGIV 211 (268)
Q Consensus 208 Ialv 211 (268)
+|+|
T Consensus 76 LGIC 79 (195)
T PRK07649 76 FGVC 79 (195)
T ss_pred EEEc
Confidence 9999
No 53
>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=75.40 E-value=22 Score=31.74 Aligned_cols=51 Identities=14% Similarity=0.141 Sum_probs=33.5
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--Cceeeecc
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVP 225 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP 225 (268)
...-|++|++..-..-.+--.+++.|+..|+|+|+|++...++ ...|+.|.
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 3456888888732211222478999999999999999975544 23454443
No 54
>PTZ00295 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=74.12 E-value=25 Score=36.26 Aligned_cols=49 Identities=14% Similarity=0.057 Sum_probs=32.6
Q ss_pred CCceeeeecCCCCCCC-CCchHHHhhhhCCCccccccCCCCC--CceeeeccC
Q psy13427 177 LPDLVILTNTLTTVLE-PNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPG 226 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~-d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~ 226 (268)
.-|++|++.. +.-.. --.|++.|+..|+|||||++...++ +..|+.|+.
T Consensus 369 ~~~lvI~ISq-SGeT~d~i~al~~ak~~Ga~~IaITn~~~S~La~~ad~~l~~ 420 (640)
T PTZ00295 369 EDAGVIFISQ-SGETLDVVRALNLADELNLPKISVVNTVGSLIARSTDCGVYL 420 (640)
T ss_pred CCCEEEEEeC-CCCcHHHHHHHHHHHHCCCCEEEEECCCCChhHHhcCEEEEe
Confidence 4577777752 21111 2478889999999999999876555 446666654
No 55
>CHL00101 trpG anthranilate synthase component 2
Probab=74.01 E-value=7.5 Score=33.69 Aligned_cols=77 Identities=8% Similarity=0.015 Sum_probs=46.9
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCC--CCchHHHhhhhCCCc
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLE--PNPAIGEAAKMCIPT 207 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~--d~~aI~EA~~l~IPt 207 (268)
||++....++...+.+.....|.....-++-. .+.... ....||.||++.-..++.+ ....+.++...++|+
T Consensus 2 iliid~~dsft~~l~~~l~~~g~~~~v~~~~~---~~~~~~---~~~~~dgiiisgGpg~~~~~~~~~~i~~~~~~~~Pi 75 (190)
T CHL00101 2 ILIIDNYDSFTYNLVQSLGELNSDVLVCRNDE---IDLSKI---KNLNIRHIIISPGPGHPRDSGISLDVISSYAPYIPI 75 (190)
T ss_pred EEEEECCCchHHHHHHHHHhcCCCEEEEECCC---CCHHHH---hhCCCCEEEECCCCCChHHCcchHHHHHHhcCCCcE
Confidence 88999988887777777777776543322111 111111 1246999998873233322 134566666779999
Q ss_pred ccccc
Q psy13427 208 VGIVD 212 (268)
Q Consensus 208 IalvD 212 (268)
+|+|=
T Consensus 76 LGICl 80 (190)
T CHL00101 76 LGVCL 80 (190)
T ss_pred EEEch
Confidence 99883
No 56
>PRK09922 UDP-D-galactose:(glucosyl)lipopolysaccharide-1,6-D-galactosyltransferase; Provisional
Probab=73.36 E-value=41 Score=31.23 Aligned_cols=113 Identities=11% Similarity=0.096 Sum_probs=58.5
Q ss_pred CCeEEEEeCChhhHHHHHHHHHHcCCc-eecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhhCC
Q psy13427 127 DGIVLFVGQSAQNSLLIEKTAQDCQEF-AHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCI 205 (268)
Q Consensus 127 ~g~ILfV~t~~~~~~~V~~~A~~~g~~-~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~I 205 (268)
+-+++++|..+... .+++.++..+.. .+ .|. |..++...........-|++++... ...-..++-||...|+
T Consensus 210 ~~~l~ivG~g~~~~-~l~~~~~~~~l~~~v--~f~-G~~~~~~~~~~~~~~~~d~~v~~s~---~Egf~~~~lEAma~G~ 282 (359)
T PRK09922 210 EWQLHIIGDGSDFE-KCKAYSRELGIEQRI--IWH-GWQSQPWEVVQQKIKNVSALLLTSK---FEGFPMTLLEAMSYGI 282 (359)
T ss_pred CeEEEEEeCCccHH-HHHHHHHHcCCCCeE--EEe-cccCCcHHHHHHHHhcCcEEEECCc---ccCcChHHHHHHHcCC
Confidence 45788888876543 346666665532 11 222 3334432211112223456555331 1123579999999999
Q ss_pred Ccccccc-CCCCCCcee-----eeccCCCCchhHHHHHHHHHHHHHHhh
Q psy13427 206 PTVGIVD-SNCNPNLIT-----YPVPGNDDTPSAIQYYCQVFKTAILKG 248 (268)
Q Consensus 206 PtIalvD-Tn~~p~~Id-----ypIP~NddS~~SI~li~~lL~~aIl~g 248 (268)
|+|+- | .....+.|. +-++.+ |.......+.+++.+.-.++
T Consensus 283 Pvv~s-~~~~g~~eiv~~~~~G~lv~~~-d~~~la~~i~~l~~~~~~~~ 329 (359)
T PRK09922 283 PCISS-DCMSGPRDIIKPGLNGELYTPG-NIDEFVGKLNKVISGEVKYQ 329 (359)
T ss_pred CEEEe-CCCCChHHHccCCCceEEECCC-CHHHHHHHHHHHHhCcccCC
Confidence 99984 5 222333332 233333 45555556666666554333
No 57
>PRK07765 para-aminobenzoate synthase component II; Provisional
Probab=71.16 E-value=13 Score=33.10 Aligned_cols=79 Identities=15% Similarity=0.002 Sum_probs=47.1
Q ss_pred eEEEEeCChhhHHHHHHHHHHcCCceecCCc-ccCcccchhhhhccccCCCceeeeecCCCCCC---CCCchHHHhhhhC
Q psy13427 129 IVLFVGQSAQNSLLIEKTAQDCQEFAHTRFW-RQGMFTNSEKLFRAVTRLPDLVILTNTLTTVL---EPNPAIGEAAKMC 204 (268)
Q Consensus 129 ~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW-~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~---~d~~aI~EA~~l~ 204 (268)
+||++.....+...+..+....|.....-++ .+. + .. .......+|.||+..--.++. .....+++|...+
T Consensus 2 ~ilv~d~~~~~~~~~~~~l~~~G~~~~~~~~~~~~-~---~~-~~~~~~~~dgliisGGp~~~~~~~~~~~~i~~~~~~~ 76 (214)
T PRK07765 2 RILVVDNYDSFVFNLVQYLGQLGVEAEVWRNDDPR-L---AD-EAAVAAQFDGVLLSPGPGTPERAGASIDMVRACAAAG 76 (214)
T ss_pred eEEEEECCCcHHHHHHHHHHHcCCcEEEEECCCcC-H---HH-HHHhhcCCCEEEECCCCCChhhcchHHHHHHHHHhCC
Confidence 4788888777666666777777766443222 221 1 11 011134689999874211222 2336788888889
Q ss_pred CCcccccc
Q psy13427 205 IPTVGIVD 212 (268)
Q Consensus 205 IPtIalvD 212 (268)
+|++|+|=
T Consensus 77 ~PiLGIC~ 84 (214)
T PRK07765 77 TPLLGVCL 84 (214)
T ss_pred CCEEEEcc
Confidence 99999983
No 58
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=71.07 E-value=34 Score=32.20 Aligned_cols=103 Identities=12% Similarity=0.084 Sum_probs=58.8
Q ss_pred HHHHHHHHHHhCCCeEEEEeC---ChhhH---HHHHHHHHHcCCceecCCcccCcccchhh--hhc-cccCCCceeeeec
Q psy13427 115 DALNFVAHIAYRDGIVLFVGQ---SAQNS---LLIEKTAQDCQEFAHTRFWRQGMFTNSEK--LFR-AVTRLPDLVILTN 185 (268)
Q Consensus 115 ~A~~~I~~i~~~~g~ILfV~t---~~~~~---~~V~~~A~~~g~~~i~~rW~gG~LTN~~~--~~~-~~~~~Pdlvivld 185 (268)
.++..+.-.+..+.+|.||.. .+++. .-+++.|++.|..... ..++.-....+ ... -..+.+|.|++..
T Consensus 11 ~~~~~~~~~~~~~~~i~~v~k~~~~pf~~~~~~Gi~~aa~~~G~~v~~--~~~~~~d~~~q~~~i~~li~~~vdgIiv~~ 88 (336)
T PRK15408 11 LGIALISMTVQAAERIAFIPKLVGVGFFTSGGNGAKEAGKELGVDVTY--DGPTEPSVSGQVQLINNFVNQGYNAIIVSA 88 (336)
T ss_pred HHHHHhcccccCCcEEEEEECCCCCHHHHHHHHHHHHHHHHhCCEEEE--ECCCCCCHHHHHHHHHHHHHcCCCEEEEec
Confidence 344555555567778877763 34544 3466788888855432 12221111111 111 1246799998863
Q ss_pred CCCCCCCC--CchHHHhhhhCCCccccccCCCCCCceeeec
Q psy13427 186 TLTTVLEP--NPAIGEAAKMCIPTVGIVDSNCNPNLITYPV 224 (268)
Q Consensus 186 ~~~~~~~d--~~aI~EA~~l~IPtIalvDTn~~p~~IdypI 224 (268)
. ..+ ..++++|...|||+|.+ |++.++....+-|
T Consensus 89 ~----d~~al~~~l~~a~~~gIpVV~~-d~~~~~~~~~~~V 124 (336)
T PRK15408 89 V----SPDGLCPALKRAMQRGVKVLTW-DSDTKPECRSYYI 124 (336)
T ss_pred C----CHHHHHHHHHHHHHCCCeEEEe-CCCCCCccceEEE
Confidence 1 222 46889999999999886 6665444334433
No 59
>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=70.05 E-value=9.9 Score=32.90 Aligned_cols=75 Identities=15% Similarity=0.114 Sum_probs=42.5
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCC---CCchHHHhhhhCCC
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLE---PNPAIGEAAKMCIP 206 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~---d~~aI~EA~~l~IP 206 (268)
||+|.....+..-+..+.+..|.....-.+-. .....+ ....||.||+..-..++.+ +...++++ ..++|
T Consensus 2 il~id~~dsft~~~~~~l~~~g~~v~v~~~~~---~~~~~~---~~~~~d~iilsgGpg~p~~~~~~~~~i~~~-~~~~P 74 (188)
T TIGR00566 2 VLMIDNYDSFTYNLVQYFCELGAEVVVKRNDS---LTLQEI---EALLPLLIVISPGPCTPNEAGISLEAIRHF-AGKLP 74 (188)
T ss_pred EEEEECCcCHHHHHHHHHHHcCCceEEEECCC---CCHHHH---HhcCCCEEEEcCCCCChhhcchhHHHHHHh-ccCCC
Confidence 78999888776655555555565433222111 112221 1235999888763223322 23456666 56999
Q ss_pred ccccc
Q psy13427 207 TVGIV 211 (268)
Q Consensus 207 tIalv 211 (268)
+.|+|
T Consensus 75 vLGIC 79 (188)
T TIGR00566 75 ILGVC 79 (188)
T ss_pred EEEEC
Confidence 99988
No 60
>PRK05670 anthranilate synthase component II; Provisional
Probab=69.98 E-value=9.7 Score=32.79 Aligned_cols=76 Identities=13% Similarity=0.081 Sum_probs=45.3
Q ss_pred eEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCC---CCCchHHHhhhhCC
Q psy13427 129 IVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVL---EPNPAIGEAAKMCI 205 (268)
Q Consensus 129 ~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~---~d~~aI~EA~~l~I 205 (268)
.||++.....+...+.++..+.|.....-+|..+. ... .. ...||.||+..-..++. .....+++ ...++
T Consensus 1 ~iliid~~d~f~~~i~~~l~~~g~~~~v~~~~~~~---~~~-~~--~~~~dglIlsgGpg~~~d~~~~~~~l~~-~~~~~ 73 (189)
T PRK05670 1 MILLIDNYDSFTYNLVQYLGELGAEVVVYRNDEIT---LEE-IE--ALNPDAIVLSPGPGTPAEAGISLELIRE-FAGKV 73 (189)
T ss_pred CEEEEECCCchHHHHHHHHHHCCCcEEEEECCCCC---HHH-HH--hCCCCEEEEcCCCCChHHcchHHHHHHH-hcCCC
Confidence 38999999888888888888888765544443211 111 11 12499999974211221 11234443 34679
Q ss_pred Cccccc
Q psy13427 206 PTVGIV 211 (268)
Q Consensus 206 PtIalv 211 (268)
|+.|+|
T Consensus 74 PvLGIC 79 (189)
T PRK05670 74 PILGVC 79 (189)
T ss_pred CEEEEC
Confidence 999988
No 61
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=67.47 E-value=22 Score=33.55 Aligned_cols=142 Identities=12% Similarity=0.169 Sum_probs=94.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhh-hh-------------
Q psy13427 106 LDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEK-LF------------- 171 (268)
Q Consensus 106 L~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~-~~------------- 171 (268)
+++.+..+..|...+..-.+++|+..++|-...++=-|..+++.+.-|-+...-+-|++.--.. +.
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 5678888899999999888999999999998888777777777776554433333333322111 00
Q ss_pred ----c-cccCCCceeeeecCCCCCCCCCchHHHhhhhCCCcccc-ccCCCCCC-ceeeeccC---------C--CCchhH
Q psy13427 172 ----R-AVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGI-VDSNCNPN-LITYPVPG---------N--DDTPSA 233 (268)
Q Consensus 172 ----~-~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIal-vDTn~~p~-~IdypIP~---------N--ddS~~S 233 (268)
+ -....-|+||=+-.-..-.+=.-++++|.+.|..|||| |+-++... ..|++|-- . =++..+
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 0 11345666665543222234467999999999999999 67777653 36666532 1 246677
Q ss_pred HHHHHHHHHHHHHh
Q psy13427 234 IQYYCQVFKTAILK 247 (268)
Q Consensus 234 I~li~~lL~~aIl~ 247 (268)
-.+++++|+....-
T Consensus 199 QKlvLNMlST~~Mi 212 (298)
T COG2103 199 QKLVLNMLSTGVMI 212 (298)
T ss_pred HHHHHHHHHHHHHH
Confidence 88999999987654
No 62
>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=66.75 E-value=13 Score=32.97 Aligned_cols=29 Identities=21% Similarity=0.025 Sum_probs=19.1
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhCCCc
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMCIPT 207 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~IPt 207 (268)
-.++||.. | ++..-+..+..+|...|||+
T Consensus 69 ~~~lVi~a-t-~d~~ln~~i~~~a~~~~ilv 97 (205)
T TIGR01470 69 GAFLVIAA-T-DDEELNRRVAHAARARGVPV 97 (205)
T ss_pred CcEEEEEC-C-CCHHHHHHHHHHHHHcCCEE
Confidence 34555543 2 23334578899999999998
No 63
>PRK08007 para-aminobenzoate synthase component II; Provisional
Probab=66.41 E-value=16 Score=31.57 Aligned_cols=76 Identities=8% Similarity=0.026 Sum_probs=42.0
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCC--chHHHhhhhCCCc
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPN--PAIGEAAKMCIPT 207 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~--~aI~EA~~l~IPt 207 (268)
||+|.+...+..-+.......|+....-+|-...+ ... ....||.||+..--.++..+. .++.+....++|+
T Consensus 2 il~idn~Dsft~nl~~~l~~~g~~v~v~~~~~~~~---~~~---~~~~~d~iils~GPg~p~~~~~~~~~~~~~~~~~Pi 75 (187)
T PRK08007 2 ILLIDNYDSFTWNLYQYFCELGADVLVKRNDALTL---ADI---DALKPQKIVISPGPCTPDEAGISLDVIRHYAGRLPI 75 (187)
T ss_pred EEEEECCCccHHHHHHHHHHCCCcEEEEeCCCCCH---HHH---HhcCCCEEEEcCCCCChHHCCccHHHHHHhcCCCCE
Confidence 78899887666555555555676554434422221 111 123589988877223333221 2233334568999
Q ss_pred cccc
Q psy13427 208 VGIV 211 (268)
Q Consensus 208 Ialv 211 (268)
.|+|
T Consensus 76 LGIC 79 (187)
T PRK08007 76 LGVC 79 (187)
T ss_pred EEEC
Confidence 9998
No 64
>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=65.74 E-value=9.2 Score=33.50 Aligned_cols=46 Identities=20% Similarity=0.122 Sum_probs=31.4
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccC
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPG 226 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~ 226 (268)
..+|.||+..+ ..+..+++++...|||+|.+ |++.+-....|.-+-
T Consensus 63 ~~~dgiii~~~----~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~V~~d 108 (275)
T cd06295 63 GRADGVILIGQ----HDQDPLPERLAETGLPFVVW-GRPLPGQPYCYVGSD 108 (275)
T ss_pred CCCCEEEEeCC----CCChHHHHHHHhCCCCEEEE-CCccCCCCCCEEEEC
Confidence 46899988753 23446689999999999966 776544445555443
No 65
>PRK08857 para-aminobenzoate synthase component II; Provisional
Probab=64.65 E-value=16 Score=31.68 Aligned_cols=76 Identities=9% Similarity=-0.015 Sum_probs=44.4
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCC--CchHHHhhhhCCCc
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEP--NPAIGEAAKMCIPT 207 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d--~~aI~EA~~l~IPt 207 (268)
||+|.+...+..-+..+....|.....-++--+.+-.. ....||.+|+..--.++.++ ..++-+..+.++|+
T Consensus 2 il~id~~dsft~~~~~~l~~~g~~~~~~~~~~~~~~~~------~~~~~~~iilsgGp~~~~~~~~~~~~i~~~~~~~Pi 75 (193)
T PRK08857 2 LLMIDNYDSFTYNLYQYFCELGAQVKVVRNDEIDIDGI------EALNPTHLVISPGPCTPNEAGISLQAIEHFAGKLPI 75 (193)
T ss_pred EEEEECCCCcHHHHHHHHHHCCCcEEEEECCCCCHHHH------hhCCCCEEEEeCCCCChHHCcchHHHHHHhcCCCCE
Confidence 89999988877766677777786654433332221111 12348998887632233222 12233334679999
Q ss_pred cccc
Q psy13427 208 VGIV 211 (268)
Q Consensus 208 Ialv 211 (268)
.|+|
T Consensus 76 LGIC 79 (193)
T PRK08857 76 LGVC 79 (193)
T ss_pred EEEc
Confidence 9988
No 66
>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=64.12 E-value=5 Score=31.86 Aligned_cols=58 Identities=17% Similarity=0.085 Sum_probs=37.4
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCC-c------eeeeccCCCCchhH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPN-L------ITYPVPGNDDTPSA 233 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~-~------IdypIP~NddS~~S 233 (268)
....|++|++..-..-.+-..+++.|+..|+|+|++++ +.+.. . ..+++|.+.-...|
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 34678888887322222334678899999999999985 33332 1 34777877655544
No 67
>PLN02981 glucosamine:fructose-6-phosphate aminotransferase
Probab=62.46 E-value=85 Score=32.91 Aligned_cols=95 Identities=12% Similarity=0.057 Sum_probs=48.8
Q ss_pred hCCCeEEEEeCChhh--HHHHHHHHHH-cCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhh
Q psy13427 125 YRDGIVLFVGQSAQN--SLLIEKTAQD-CQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAA 201 (268)
Q Consensus 125 ~~~g~ILfV~t~~~~--~~~V~~~A~~-~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~ 201 (268)
.+-.+|.|+++.... ....+.+.++ .+..... ..+.-|.+... ....-|++|++.--....+--.|++.|+
T Consensus 361 ~~~~~I~~~G~GsS~~aa~~a~~~l~kl~~i~v~~--~~~sef~~~~~----~~~~~~lvI~ISqSGeT~eti~Al~~Ak 434 (680)
T PLN02981 361 RRSRRIVFIGCGTSYNAALAARPILEELSGVPVTM--ELASDLLDRQG----PIYREDTAVFVSQSGETADTLRALEYAK 434 (680)
T ss_pred hcCCEEEEEEecHHHHHHHHHHHHHHHHhCCCEEE--ecchHHHhccc----cCCCCCeEEEEeCCcCCHHHHHHHHHHH
Confidence 445789999886533 2333344444 2322111 11222222211 1123467777652111112247889999
Q ss_pred hhCCCccccccC-CCCC-Cceeeecc
Q psy13427 202 KMCIPTVGIVDS-NCNP-NLITYPVP 225 (268)
Q Consensus 202 ~l~IPtIalvDT-n~~p-~~IdypIP 225 (268)
..|.|||+|++. ++.. +..|+.|+
T Consensus 435 ~~Ga~~IaITn~~~S~La~~ad~~i~ 460 (680)
T PLN02981 435 ENGALCVGITNTVGSAISRGTHCGVH 460 (680)
T ss_pred HCCCcEEEEECCCCChhHhccCeeEE
Confidence 999999999866 4443 23455444
No 68
>TIGR02815 agaS_fam putative sugar isomerase, AgaS family. Some members of this protein family are found in regions associated with N-acetyl-galactosamine and galactosamine untilization and are suggested to be isomerases.
Probab=60.07 E-value=1.6e+02 Score=28.35 Aligned_cols=116 Identities=9% Similarity=0.058 Sum_probs=56.8
Q ss_pred CCeEEEEeCChh--hHHHHHHHHHH-cCCceecCCcccCcc-cchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhh
Q psy13427 127 DGIVLFVGQSAQ--NSLLIEKTAQD-CQEFAHTRFWRQGMF-TNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAK 202 (268)
Q Consensus 127 ~g~ILfV~t~~~--~~~~V~~~A~~-~g~~~i~~rW~gG~L-TN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~ 202 (268)
..+|.|+|+... .....+.+.++ ++..... ..++.| +++..... ....+++|.+..-....+--.|++.|+.
T Consensus 42 ~~~i~~~g~GsS~~a~~~~~~~~~~~~~i~v~~--~~~~e~~~~~~~~~~--~~~~~lvi~iSqSGeT~etv~a~~~ak~ 117 (372)
T TIGR02815 42 NLRIVLTGAGTSAFIGDALAPWLASHTGLNVSA--VPTTDLVSNPRQYLD--PTRPTLLVSFARSGNSPESVAAVELADQ 117 (372)
T ss_pred CCEEEEEechHHHHHHHHHHHHHHHhcCCCEEE--EeCcccccccccccC--CCCCeEEEEEeCCcCcHHHHHHHHHHHH
Confidence 467999998753 23334445444 4443211 223333 33322110 0123566666521111122467788888
Q ss_pred h--CCCccccccC-CCCC-Ccee-----eeccC----CCCchhHHH-HHHHHHHHHHH
Q psy13427 203 M--CIPTVGIVDS-NCNP-NLIT-----YPVPG----NDDTPSAIQ-YYCQVFKTAIL 246 (268)
Q Consensus 203 l--~IPtIalvDT-n~~p-~~Id-----ypIP~----NddS~~SI~-li~~lL~~aIl 246 (268)
. |+++||+++. ++.. +..| +.++. ...+..+.. |...+++-+.+
T Consensus 118 ~~~g~~~i~it~~~~s~la~~ad~~~~~~~i~~~ag~~e~gva~Tksft~~l~al~~l 175 (372)
T TIGR02815 118 LLPECYHLVLTCNEEGALYRNAINRSNAFALLMPAESNDRSFAMTSSFSCMTLATLAV 175 (372)
T ss_pred hCCCCcEEEEEcCCCCHHHHhhcccCceeEEEccCCCccceeeeHHHHHHHHHHHHHH
Confidence 7 8999999765 3333 2344 44553 445544443 44444444444
No 69
>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=59.83 E-value=43 Score=29.21 Aligned_cols=104 Identities=13% Similarity=0.075 Sum_probs=48.3
Q ss_pred HHHHHHHHHHhCCCeEEEEeCCh--h---hHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCC
Q psy13427 115 DALNFVAHIAYRDGIVLFVGQSA--Q---NSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTT 189 (268)
Q Consensus 115 ~A~~~I~~i~~~~g~ILfV~t~~--~---~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~ 189 (268)
.+...+.......++|.|++... . ..+-+++.++..|...... +.. ...++.+........||+|++.+.
T Consensus 119 ~~~~~l~~~~~g~~~i~~l~~~~~~~~~~r~~g~~~~~~~~g~~~~~~-~~~-~~~~~~~~~~~~~~~~dai~~~~d--- 193 (281)
T cd06325 119 TQLELLKKLLPDAKTVGVLYNPSEANSVVQVKELKKAAAKLGIEVVEA-TVS-SSNDVQQAAQSLAGKVDAIYVPTD--- 193 (281)
T ss_pred HHHHHHHHHCCCCcEEEEEeCCCCccHHHHHHHHHHHHHhCCCEEEEE-ecC-CHHHHHHHHHHhcccCCEEEEcCc---
Confidence 34444444322457788885432 1 2244555666666543321 111 111122222222334898887652
Q ss_pred CCCCCchHHHhhh----hCCCccccccCC-CCCCceeeec
Q psy13427 190 VLEPNPAIGEAAK----MCIPTVGIVDSN-CNPNLITYPV 224 (268)
Q Consensus 190 ~~~d~~aI~EA~~----l~IPtIalvDTn-~~p~~IdypI 224 (268)
..-..+++.+.. .+||++|+-|+. ..|..-++..
T Consensus 194 -~~a~~~~~~~~~~~~~~~ipvig~d~~~~~~~~l~tv~~ 232 (281)
T cd06325 194 -NTVASAMEAVVKVANEAKIPVIASDDDMVKRGGLATYGI 232 (281)
T ss_pred -hhHHhHHHHHHHHHHHcCCCEEEcCHHHHhCCceEEecC
Confidence 111123344433 379999998774 2344444433
No 70
>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=59.20 E-value=35 Score=32.75 Aligned_cols=100 Identities=16% Similarity=0.087 Sum_probs=60.5
Q ss_pred ecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCcee-cCCcccCcccchhh--------hhc-c
Q psy13427 104 FDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAH-TRFWRQGMFTNSEK--------LFR-A 173 (268)
Q Consensus 104 InL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i-~~rW~gG~LTN~~~--------~~~-~ 173 (268)
||+..+. +....-.+|.++-.+|-.|+++..... .+.++++..|..|+ .|+.- +++..... .++ .
T Consensus 5 iDi~~p~-hvhfFk~~I~eL~~~GheV~it~R~~~---~~~~LL~~yg~~y~~iG~~g-~~~~~Kl~~~~~R~~~l~~~~ 79 (335)
T PF04007_consen 5 IDITHPA-HVHFFKNIIRELEKRGHEVLITARDKD---ETEELLDLYGIDYIVIGKHG-DSLYGKLLESIERQYKLLKLI 79 (335)
T ss_pred EECCCch-HHHHHHHHHHHHHhCCCEEEEEEeccc---hHHHHHHHcCCCeEEEcCCC-CCHHHHHHHHHHHHHHHHHHH
Confidence 3444442 555667788888667667766655432 33457777786654 44433 33222111 011 1
Q ss_pred ccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCC
Q psy13427 174 VTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNC 215 (268)
Q Consensus 174 ~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~ 215 (268)
....||+++-.. ...|.+=|.-+|||+|.+.||..
T Consensus 80 ~~~~pDv~is~~-------s~~a~~va~~lgiP~I~f~D~e~ 114 (335)
T PF04007_consen 80 KKFKPDVAISFG-------SPEAARVAFGLGIPSIVFNDTEH 114 (335)
T ss_pred HhhCCCEEEecC-------cHHHHHHHHHhCCCeEEEecCch
Confidence 134799988543 24577788999999999999964
No 71
>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=58.49 E-value=60 Score=34.42 Aligned_cols=79 Identities=19% Similarity=0.209 Sum_probs=51.1
Q ss_pred CCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCC--CCCchHHHhhhh
Q psy13427 126 RDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVL--EPNPAIGEAAKM 203 (268)
Q Consensus 126 ~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~--~d~~aI~EA~~l 203 (268)
.+.+|++|.....+...+.++.+..|.....-++..+ .... ....||.||+..-..++. .....++++...
T Consensus 515 ~~~~IlVID~gds~~~~l~~~L~~~G~~v~vv~~~~~-----~~~~--~~~~~DgLILsgGPGsp~d~~~~~~I~~~~~~ 587 (717)
T TIGR01815 515 EGRRILLVDHEDSFVHTLANYLRQTGASVTTLRHSHA-----EAAF--DERRPDLVVLSPGPGRPADFDVAGTIDAALAR 587 (717)
T ss_pred CCCEEEEEECCChhHHHHHHHHHHCCCeEEEEECCCC-----hhhh--hhcCCCEEEEcCCCCCchhcccHHHHHHHHHC
Confidence 5678999998877777788888888866443232111 1111 123589998864222221 235678888889
Q ss_pred CCCccccc
Q psy13427 204 CIPTVGIV 211 (268)
Q Consensus 204 ~IPtIalv 211 (268)
++|+.|||
T Consensus 588 ~iPvLGIC 595 (717)
T TIGR01815 588 GLPVFGVC 595 (717)
T ss_pred CCCEEEEC
Confidence 99999998
No 72
>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=56.41 E-value=1.3e+02 Score=27.01 Aligned_cols=89 Identities=12% Similarity=0.106 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCC
Q psy13427 111 ELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTV 190 (268)
Q Consensus 111 ~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~ 190 (268)
..+..|+..+..- ..+-++.++|..+... .+++.++..+..-.. .|.|. ...-.. ....-|++++..- .
T Consensus 208 ~~li~a~~~l~~~-~~~~~l~ivG~g~~~~-~~~~~~~~~~~~~~v-~~~g~-~~~~~~----~~~~adi~v~ps~---~ 276 (358)
T cd03812 208 EFLIEIFAELLKK-NPNAKLLLVGDGELEE-EIKKKVKELGLEDKV-IFLGV-RNDVPE----LLQAMDVFLFPSL---Y 276 (358)
T ss_pred HHHHHHHHHHHHh-CCCeEEEEEeCCchHH-HHHHHHHhcCCCCcE-EEecc-cCCHHH----HHHhcCEEEeccc---c
Confidence 3344455544432 2345788888766543 344555554432111 24443 222222 2345566665431 1
Q ss_pred CCCCchHHHhhhhCCCcccc
Q psy13427 191 LEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 191 ~~d~~aI~EA~~l~IPtIal 210 (268)
..-...+-||..+|.|+|+-
T Consensus 277 E~~~~~~lEAma~G~PvI~s 296 (358)
T cd03812 277 EGLPLVLIEAQASGLPCILS 296 (358)
T ss_pred cCCCHHHHHHHHhCCCEEEE
Confidence 22357899999999999984
No 73
>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=55.00 E-value=1.8e+02 Score=27.27 Aligned_cols=94 Identities=16% Similarity=0.101 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCc-eecCCcccCcccchhhhhccccCCCceeeeec
Q psy13427 107 DQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEF-AHTRFWRQGMFTNSEKLFRAVTRLPDLVILTN 185 (268)
Q Consensus 107 ~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~-~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld 185 (268)
.+=.+.|..|+..+..- ..+-+++++|..+.. ..+++.+++.|.. .+ .|. |..+.... ......-|+.++..
T Consensus 205 ~Kg~~~li~a~~~l~~~-~~~~~l~i~G~g~~~-~~l~~~~~~~~l~~~v--~~~-G~~~~~~~--~~~l~~ad~~v~pS 277 (398)
T cd03796 205 RKGIDLLVGIIPEICKK-HPNVRFIIGGDGPKR-ILLEEMREKYNLQDRV--ELL-GAVPHERV--RDVLVQGHIFLNTS 277 (398)
T ss_pred hcCHHHHHHHHHHHHhh-CCCEEEEEEeCCchH-HHHHHHHHHhCCCCeE--EEe-CCCCHHHH--HHHHHhCCEEEeCC
Confidence 34345555666555432 234567778876543 3355566665532 11 233 33332111 01223446655533
Q ss_pred CCCCCCCCCchHHHhhhhCCCcccc
Q psy13427 186 TLTTVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 186 ~~~~~~~d~~aI~EA~~l~IPtIal 210 (268)
. ...-..++.||-.+|.|+|+-
T Consensus 278 ~---~E~~g~~~~EAma~G~PVI~s 299 (398)
T cd03796 278 L---TEAFCIAIVEAASCGLLVVST 299 (398)
T ss_pred h---hhccCHHHHHHHHcCCCEEEC
Confidence 1 111236899999999999883
No 74
>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=54.70 E-value=62 Score=27.35 Aligned_cols=61 Identities=18% Similarity=0.125 Sum_probs=37.1
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
.+.+|.+++... ..+..+++++...|||+|++ |+..+...+.+. +.|...+..+....|.+
T Consensus 53 ~~~~d~iii~~~----~~~~~~~~~~~~~~ipvv~~-~~~~~~~~~~~v---~~d~~~~g~~~~~~l~~ 113 (264)
T cd06267 53 SRRVDGIILAPS----RLDDELLEELAALGIPVVLV-DRPLDGLGVDSV---GIDNRAGAYLAVEHLIE 113 (264)
T ss_pred HcCcCEEEEecC----CcchHHHHHHHHcCCCEEEe-cccccCCCCCEE---eeccHHHHHHHHHHHHH
Confidence 457999988763 22233388999999999987 544332334443 22345566666666654
No 75
>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=53.78 E-value=37 Score=28.84 Aligned_cols=77 Identities=9% Similarity=0.001 Sum_probs=46.3
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCC--CCchHHHhhhhCCCc
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLE--PNPAIGEAAKMCIPT 207 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~--d~~aI~EA~~l~IPt 207 (268)
||++....++...+.++.++.|.....-+|-.+. .-.. ....+|.||++.-..++.. ....+.++...++|+
T Consensus 1 il~~~~~~~~~~~~~~~l~~~G~~~~~~~~~~~~-~~~~-----~~~~~dgvil~gG~~~~~~~~~~~~i~~~~~~~~Pv 74 (184)
T cd01743 1 ILLIDNYDSFTYNLVQYLRELGAEVVVVRNDEIT-LEEL-----ELLNPDAIVISPGPGHPEDAGISLEIIRALAGKVPI 74 (184)
T ss_pred CEEEeCCCccHHHHHHHHHHcCCceEEEeCCCCC-HHHH-----hhcCCCEEEECCCCCCcccchhHHHHHHHHhcCCCE
Confidence 5788887777777888888888765544442111 0000 1246888888642112222 234666666678999
Q ss_pred ccccc
Q psy13427 208 VGIVD 212 (268)
Q Consensus 208 IalvD 212 (268)
.|+|=
T Consensus 75 lGIC~ 79 (184)
T cd01743 75 LGVCL 79 (184)
T ss_pred EEECH
Confidence 99983
No 76
>PLN02846 digalactosyldiacylglycerol synthase
Probab=53.12 E-value=62 Score=32.45 Aligned_cols=91 Identities=14% Similarity=0.012 Sum_probs=54.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecC
Q psy13427 107 DQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNT 186 (268)
Q Consensus 107 ~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~ 186 (268)
+|=+..|.+|+..+..- ..+-++++||..+.-.+ +++.++..+.. .++.+|. .+....+. .-|+.++...
T Consensus 240 eK~~~~Li~a~~~l~~~-~~~~~l~ivGdGp~~~~-L~~~a~~l~l~---~~vf~G~-~~~~~~~~----~~DvFv~pS~ 309 (462)
T PLN02846 240 SKGYKELLKLLHKHQKE-LSGLEVDLYGSGEDSDE-VKAAAEKLELD---VRVYPGR-DHADPLFH----DYKVFLNPST 309 (462)
T ss_pred cCCHHHHHHHHHHHHhh-CCCeEEEEECCCccHHH-HHHHHHhcCCc---EEEECCC-CCHHHHHH----hCCEEEECCC
Confidence 44455566665554432 13456888999887654 56677776642 2345564 34443322 2365555432
Q ss_pred CCCCCCCCchHHHhhhhCCCcccc
Q psy13427 187 LTTVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 187 ~~~~~~d~~aI~EA~~l~IPtIal 210 (268)
...--.++.||.-+|+|+||.
T Consensus 310 ---~Et~g~v~lEAmA~G~PVVa~ 330 (462)
T PLN02846 310 ---TDVVCTTTAEALAMGKIVVCA 330 (462)
T ss_pred ---cccchHHHHHHHHcCCcEEEe
Confidence 123457889999999999998
No 77
>PF13528 Glyco_trans_1_3: Glycosyl transferase family 1
Probab=52.63 E-value=26 Score=31.72 Aligned_cols=34 Identities=29% Similarity=0.183 Sum_probs=25.1
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCC
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCN 216 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~ 216 (268)
..||+||. | ....+..-|...|||+|++.|-...
T Consensus 93 ~~pDlVIs-D------~~~~~~~aa~~~giP~i~i~~~~~~ 126 (318)
T PF13528_consen 93 FRPDLVIS-D------FYPLAALAARRAGIPVIVISNQYWF 126 (318)
T ss_pred cCCCEEEE-c------ChHHHHHHHHhcCCCEEEEEehHHc
Confidence 36999875 3 3345677888999999999877543
No 78
>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=52.22 E-value=38 Score=29.24 Aligned_cols=60 Identities=23% Similarity=0.118 Sum_probs=37.2
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC-CceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP-NLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p-~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
..+|.+|+..+ ..+...+.++...|||+|.+ |++... ..+.|.-+ |...+.......|.+
T Consensus 59 ~~~dgiii~~~----~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~~v~~---d~~~~g~~~~~~l~~ 119 (270)
T cd06294 59 KRVDGFILLYS----REDDPIIDYLKEEKFPFVVI-GKPEDDKENITYVDN---DNIQAGYDATEYLIK 119 (270)
T ss_pred cCcCEEEEecC----cCCcHHHHHHHhcCCCEEEE-CCCCCCCCCCCeEEE---CcHHHHHHHHHHHHH
Confidence 45899998763 23346688899999999987 554433 33444432 345555555555554
No 79
>TIGR01135 glmS glucosamine--fructose-6-phosphate aminotransferase (isomerizing). The member from Methanococcus jannaschii contains an intein.
Probab=52.10 E-value=35 Score=34.80 Aligned_cols=52 Identities=15% Similarity=0.084 Sum_probs=33.4
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccCC
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGN 227 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~N 227 (268)
...|++|++.--....+-..|++.|+..|.|||+|.+...++ ...|+.|+..
T Consensus 337 ~~~dlvI~iS~SG~T~e~v~a~~~ak~~ga~~IaIT~~~~S~La~~ad~~l~~~ 390 (607)
T TIGR01135 337 DKDTLVIAISQSGETADTLAALRLAKELGAKTLGICNVPGSTLVRESDHTLYTR 390 (607)
T ss_pred CCCCEEEEEeCCCCCHHHHHHHHHHHHcCCcEEEEECCCCChHHhhcCceEEec
Confidence 456788887631111222468888899999999998864444 3455555543
No 80
>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=51.84 E-value=92 Score=31.57 Aligned_cols=100 Identities=14% Similarity=0.155 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEeCCh----hhHHHHHHHHHHcCC---ceecCCcccCcccchhhhhccccCCCceee
Q psy13427 110 AELLRDALNFVAHIAYRDGIVLFVGQSA----QNSLLIEKTAQDCQE---FAHTRFWRQGMFTNSEKLFRAVTRLPDLVI 182 (268)
Q Consensus 110 ~~~L~~A~~~I~~i~~~~g~ILfV~t~~----~~~~~V~~~A~~~g~---~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvi 182 (268)
+.-+.+|+..+.....++.+|++++-.. .+.-++.++.++.|. +++..+...|.=-+...+-.-....+|++|
T Consensus 37 l~~~~~a~~~i~~~i~~~~~I~I~gh~D~DGi~S~~~L~~~L~~~g~~v~~~ip~r~~~~yg~~~~~i~~~~~~~~~LiI 116 (539)
T TIGR00644 37 LKDMEKAVERIIEAIENNEKILIFGDYDVDGITSTAILVEFLKDLGVNVDYYIPNRITEGYGLSPEALREAIENGVSLII 116 (539)
T ss_pred cCCHHHHHHHHHHHHhcCCeEEEEEccCCCcHHHHHHHHHHHHHCCCceEEEeCCCCcccCCCCHHHHHHHHhcCCCEEE
Confidence 3456777777777778889999988653 223344556666663 344445544321121111001124579999
Q ss_pred eecCCCCCCCCCchHHHhhhhCCCccccccC
Q psy13427 183 LTNTLTTVLEPNPAIGEAAKMCIPTVGIVDS 213 (268)
Q Consensus 183 vld~~~~~~~d~~aI~EA~~l~IPtIalvDT 213 (268)
++|.. ..++..+..|...++.+|- +|=
T Consensus 117 ~vD~G---~~~~~~~~~~~~~g~~vIv-iDH 143 (539)
T TIGR00644 117 TVDNG---ISAHEEIDYAKELGIDVIV-TDH 143 (539)
T ss_pred EeCCC---cccHHHHHHHHhcCCCEEE-ECC
Confidence 99952 3456677777778888764 464
No 81
>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=51.77 E-value=33 Score=29.31 Aligned_cols=76 Identities=17% Similarity=0.231 Sum_probs=46.6
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCC--CCCchHHHhhhhCCCc
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVL--EPNPAIGEAAKMCIPT 207 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~--~d~~aI~EA~~l~IPt 207 (268)
|++|.....+...+.+..++.|.....-.|.- ...... ...||.||+...-.++. .....++++...++|+
T Consensus 1 i~iiD~g~~~~~~l~~~l~~~g~~~~~~~~~~----~~~~~~---~~~~~glii~Gg~~~~~~~~~~~~i~~~~~~~~Pi 73 (188)
T TIGR00888 1 ILVLDFGSQYTQLIARRLRELGVYSELVPNTT----PLEEIR---EKNPKGIILSGGPSSVYAENAPRADEKIFELGVPV 73 (188)
T ss_pred CEEEECCchHHHHHHHHHHHcCCEEEEEeCCC----CHHHHh---hcCCCEEEECCCCCCcCcCCchHHHHHHHhCCCCE
Confidence 46677777777777778888887654434421 112110 12467888776322221 1346788888889999
Q ss_pred ccccc
Q psy13427 208 VGIVD 212 (268)
Q Consensus 208 IalvD 212 (268)
+|+|=
T Consensus 74 lGIC~ 78 (188)
T TIGR00888 74 LGICY 78 (188)
T ss_pred EEECH
Confidence 99884
No 82
>PTZ00394 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=51.26 E-value=1.3e+02 Score=31.58 Aligned_cols=51 Identities=14% Similarity=0.130 Sum_probs=32.8
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccC
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPG 226 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~ 226 (268)
..-|++|++..-.....--.|++.|+..|.|||||++...++ +..|+.|+.
T Consensus 400 ~~~dlvI~ISqSGeT~dtl~Al~~Ak~~Ga~tIaITn~~~S~La~~AD~~l~~ 452 (670)
T PTZ00394 400 QRDDVCFFVSQSGETADTLMALQLCKEAGAMCVGITNVVGSSISRLTHYAIHL 452 (670)
T ss_pred CCCCEEEEEECCcCcHHHHHHHHHHHHCCCcEEEEECCCCCHHHHhcCeEEEe
Confidence 345677777521111112368899999999999998775554 456666654
No 83
>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=51.12 E-value=1.8e+02 Score=25.92 Aligned_cols=96 Identities=17% Similarity=0.080 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEeCChh---hHHHHHHHHHHcCCc-eecCCcccCcccchhhhhccccCCCceeeeecC
Q psy13427 111 ELLRDALNFVAHIAYRDGIVLFVGQSAQ---NSLLIEKTAQDCQEF-AHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNT 186 (268)
Q Consensus 111 ~~L~~A~~~I~~i~~~~g~ILfV~t~~~---~~~~V~~~A~~~g~~-~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~ 186 (268)
..+.+|+..+... ..+-++.++|..+. ..+.+.+.++..+.. .+ .|.|. ..+.... ...-|++++...
T Consensus 201 ~~li~~~~~l~~~-~~~~~l~ivG~~~~~~~~~~~~~~~~~~~~~~~~v--~~~g~-~~~~~~~----l~~ad~~i~ps~ 272 (355)
T cd03819 201 EVFIEALARLKKD-DPDVHLLIVGDAQGRRFYYAELLELIKRLGLQDRV--TFVGH-CSDMPAA----YALADIVVSAST 272 (355)
T ss_pred HHHHHHHHHHHhc-CCCeEEEEEECCcccchHHHHHHHHHHHcCCcceE--EEcCC-cccHHHH----HHhCCEEEecCC
Confidence 3344444444332 23456788886543 333344455554421 11 23333 3333322 334677665431
Q ss_pred CCCCCCCCchHHHhhhhCCCccccccCCCCC
Q psy13427 187 LTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP 217 (268)
Q Consensus 187 ~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p 217 (268)
....-..++-||..+|.|+|+- |.....
T Consensus 273 --~~e~~~~~l~EA~a~G~PvI~~-~~~~~~ 300 (355)
T cd03819 273 --EPEAFGRTAVEAQAMGRPVIAS-DHGGAR 300 (355)
T ss_pred --CCCCCchHHHHHHhcCCCEEEc-CCCCcH
Confidence 0112246899999999999975 443333
No 84
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=50.18 E-value=40 Score=25.30 Aligned_cols=36 Identities=0% Similarity=-0.082 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCC
Q psy13427 115 DALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQE 152 (268)
Q Consensus 115 ~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~ 152 (268)
.+..++..+..++-.+.+++++. ...++..++..|.
T Consensus 28 ~~~~~l~~l~~~g~~i~ivS~~~--~~~~~~~~~~~~~ 63 (139)
T cd01427 28 GVKEALKELKEKGIKLALATNKS--RREVLELLEELGL 63 (139)
T ss_pred CHHHHHHHHHHCCCeEEEEeCch--HHHHHHHHHHcCC
Confidence 35566777766666777777665 3344555666553
No 85
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=50.12 E-value=52 Score=30.00 Aligned_cols=67 Identities=21% Similarity=0.229 Sum_probs=41.8
Q ss_pred ccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCC--ceeeeccCCCCchhHHHHHHHHHHHHHH
Q psy13427 174 VTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPN--LITYPVPGNDDTPSAIQYYCQVFKTAIL 246 (268)
Q Consensus 174 ~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~--~IdypIP~NddS~~SI~li~~lL~~aIl 246 (268)
..+-+|.|++.-+ |+..-..++++|...|||+|.+ |++.+.. ...|.-. |+..+=....+.+.+.+-
T Consensus 88 ia~~~daIiv~~~--d~~~~~~~v~~a~~aGIpVv~~-d~~~~~~~~~~~~vg~---dn~~~G~~~a~~l~~~~~ 156 (322)
T COG1879 88 IAQGVDAIIINPV--DPDALTPAVKKAKAAGIPVVTV-DSDIPGPGDRVAYVGS---DNYKAGRLAAEYLAKALG 156 (322)
T ss_pred HHcCCCEEEEcCC--ChhhhHHHHHHHHHCCCcEEEE-ecCCCCCCceeEEEec---CcHHHHHHHHHHHHHHhC
Confidence 3578999987532 2344567999999999999988 6655542 4555544 334443444455555443
No 86
>PRK13566 anthranilate synthase; Provisional
Probab=50.01 E-value=34 Score=36.23 Aligned_cols=79 Identities=16% Similarity=0.138 Sum_probs=52.8
Q ss_pred CCCeEEEEeCChhhHHHHHHHHHHcCCceecCCc-ccCcccchhhhhccccCCCceeeeecCCCCCC--CCCchHHHhhh
Q psy13427 126 RDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFW-RQGMFTNSEKLFRAVTRLPDLVILTNTLTTVL--EPNPAIGEAAK 202 (268)
Q Consensus 126 ~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW-~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~--~d~~aI~EA~~ 202 (268)
++.+||+|.....+...+.++.+..|.....-++ .+. ... ....||.||+..-..++. .....+++|..
T Consensus 525 ~g~~IlvID~~dsf~~~l~~~Lr~~G~~v~vv~~~~~~------~~~--~~~~~DgVVLsgGpgsp~d~~~~~lI~~a~~ 596 (720)
T PRK13566 525 EGKRVLLVDHEDSFVHTLANYFRQTGAEVTTVRYGFAE------EML--DRVNPDLVVLSPGPGRPSDFDCKATIDAALA 596 (720)
T ss_pred CCCEEEEEECCCchHHHHHHHHHHCCCEEEEEECCCCh------hHh--hhcCCCEEEECCCCCChhhCCcHHHHHHHHH
Confidence 4568999999888888888888998876544333 211 001 124689988864211111 24578888888
Q ss_pred hCCCcccccc
Q psy13427 203 MCIPTVGIVD 212 (268)
Q Consensus 203 l~IPtIalvD 212 (268)
.++|+.|+|=
T Consensus 597 ~~iPILGICl 606 (720)
T PRK13566 597 RNLPIFGVCL 606 (720)
T ss_pred CCCcEEEEeh
Confidence 9999999983
No 87
>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=49.92 E-value=24 Score=30.33 Aligned_cols=60 Identities=17% Similarity=0.062 Sum_probs=37.0
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFK 242 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~ 242 (268)
.+.+|.+++... ..+...++++...|||+|.+ |++.+...+++..+- ...+.......|.
T Consensus 52 ~~~vdgiii~~~----~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~v~~d---~~~~g~~~~~~l~ 111 (266)
T cd06278 52 QYRVDGVIVTSG----TLSSELAEECRRNGIPVVLI-NRYVDGPGVDAVCSD---NYEAGRLAAELLL 111 (266)
T ss_pred HcCCCEEEEecC----CCCHHHHHHHhhcCCCEEEE-CCccCCCCCCEEEEC---hHHHHHHHHHHHH
Confidence 356888887652 23345688888899999887 665444456664332 3344444445554
No 88
>COG0794 GutQ Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]
Probab=48.21 E-value=1.3e+02 Score=27.15 Aligned_cols=102 Identities=16% Similarity=0.123 Sum_probs=56.4
Q ss_pred HHHHHhCCCeEEEEeCChhhHHHHHHHHHHc---C--CceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCC
Q psy13427 120 VAHIAYRDGIVLFVGQSAQNSLLIEKTAQDC---Q--EFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPN 194 (268)
Q Consensus 120 I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~---g--~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~ 194 (268)
+..+....|+|.++|-.+.+ .+.++||.+. | +||+. |+-...-.. ++...=|+|+.+.--..-.+=.
T Consensus 32 ~~~i~~~~gkv~V~G~GkSG-~Igkk~Aa~L~s~G~~a~fv~----p~ea~hgdl---g~i~~~DvviaiS~SGeT~el~ 103 (202)
T COG0794 32 VELILECKGKVFVTGVGKSG-LIGKKFAARLASTGTPAFFVG----PAEALHGDL---GMITPGDVVIAISGSGETKELL 103 (202)
T ss_pred HHHHHhcCCcEEEEcCChhH-HHHHHHHHHHHccCCceEEec----CchhccCCc---cCCCCCCEEEEEeCCCcHHHHH
Confidence 33344458899898876654 2445566653 3 23332 111111111 3455677887776211111113
Q ss_pred chHHHhhhhCCCcccccc-CCCCC---CceeeeccCCCC
Q psy13427 195 PAIGEAAKMCIPTVGIVD-SNCNP---NLITYPVPGNDD 229 (268)
Q Consensus 195 ~aI~EA~~l~IPtIalvD-Tn~~p---~~IdypIP~Ndd 229 (268)
.++.-|+..|+|+||+.- -+++. ..+...||+=-+
T Consensus 104 ~~~~~aK~~g~~liaiT~~~~SsLak~aDvvl~ip~~~e 142 (202)
T COG0794 104 NLAPKAKRLGAKLIAITSNPDSSLAKAADVVLVIPVKTE 142 (202)
T ss_pred HHHHHHHHcCCcEEEEeCCCCChHHHhcCeEEEccCccc
Confidence 567778899999999963 34433 447777877544
No 89
>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=47.48 E-value=1.2e+02 Score=26.40 Aligned_cols=60 Identities=20% Similarity=0.179 Sum_probs=34.6
Q ss_pred CCCceeeeecCCCCCCCC--CchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEP--NPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d--~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
..+|.||+... ..+ ...+.++...|||+|.+ |+..+...+.+.-+ |...+.+.....|.+
T Consensus 59 ~~vdgiIi~~~----~~~~~~~~l~~~~~~~iPvv~~-~~~~~~~~~~~v~~---d~~~~g~~~~~~l~~ 120 (272)
T cd06300 59 QGVDAIIINPA----SPTALNPVIEEACEAGIPVVSF-DGTVTTPCAYNVNE---DQAEFGKQGAEWLVK 120 (272)
T ss_pred cCCCEEEEeCC----ChhhhHHHHHHHHHCCCeEEEE-ecCCCCCceeEecC---CHHHHHHHHHHHHHH
Confidence 47888888652 112 34678888899999988 54433333454433 333444444444443
No 90
>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=47.37 E-value=1.8e+02 Score=25.10 Aligned_cols=109 Identities=17% Similarity=0.144 Sum_probs=61.3
Q ss_pred CcccccCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCC---hhhHHHHHHHHHHcCCceecCCcc------cCc
Q psy13427 93 YIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQS---AQNSLLIEKTAQDCQEFAHTRFWR------QGM 163 (268)
Q Consensus 93 yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~---~~~~~~V~~~A~~~g~~~i~~rW~------gG~ 163 (268)
.+.|.+...- +..+..+..|++| +.-++++|.. ....+.+.+++++.|...++.-.- .|.
T Consensus 5 ~~~g~~~a~~-~~p~~aa~lLk~A----------KRPvIivG~ga~~~~a~e~l~~laEklgiPVvtT~~~~~~~~~kgv 73 (162)
T TIGR00315 5 AISGPKHATL-VSPKLVAMMIKRA----------KRPLLIVGPENLEDEEKELIVKFIEKFDLPVVATADTYRALIEAGI 73 (162)
T ss_pred ccCCcccccc-cCHHHHHHHHHcC----------CCcEEEECCCcCcccHHHHHHHHHHHHCCCEEEcCccccccccCCe
Confidence 3455554332 2666666655433 4456777763 367788999999999887765432 344
Q ss_pred ccchhhh-----------hccc--cCCCceeeeecCCCCCCCCCchHHHhh-hhCCCccccccCC
Q psy13427 164 FTNSEKL-----------FRAV--TRLPDLVILTNTLTTVLEPNPAIGEAA-KMCIPTVGIVDSN 214 (268)
Q Consensus 164 LTN~~~~-----------~~~~--~~~Pdlvivld~~~~~~~d~~aI~EA~-~l~IPtIalvDTn 214 (268)
..+.... +.++ ....|+|+++.... ..-.+.+.--+ ...+-||+||.--
T Consensus 74 ~~~~~~lg~~g~~~~~p~~e~~~g~g~~DlvlfvG~~~--y~~~~~ls~lk~f~~~~~i~l~~~y 136 (162)
T TIGR00315 74 ESEEMNLHEITQFLADPSWEGFDGEGNYDLVLFLGIIY--YYLSQMLSSLKHFSHIVTIAIDKYY 136 (162)
T ss_pred ecCCCCHHHHHHhccCchhhhccCCCCcCEEEEeCCcc--hHHHHHHHHHHhhcCcEEEEecCCC
Confidence 4332110 1111 26899999998411 11122222222 1269999999554
No 91
>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=46.32 E-value=60 Score=25.75 Aligned_cols=86 Identities=8% Similarity=0.123 Sum_probs=46.8
Q ss_pred HHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCc-eecCCcccCccc----chh---hhhccccCCCceeeeecCCC
Q psy13427 117 LNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEF-AHTRFWRQGMFT----NSE---KLFRAVTRLPDLVILTNTLT 188 (268)
Q Consensus 117 ~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~-~i~~rW~gG~LT----N~~---~~~~~~~~~Pdlvivld~~~ 188 (268)
..++..+..++.++.++++... ..+....+..|.. ++..-+..+... +.. .......-.|+=+++++.
T Consensus 83 ~~~L~~l~~~~~~~~i~Sn~~~--~~~~~~l~~~~~~~~f~~i~~~~~~~~~Kp~~~~~~~~~~~~~~~p~~~~~vgD-- 158 (176)
T PF13419_consen 83 RELLERLKAKGIPLVIVSNGSR--ERIERVLERLGLDDYFDEIISSDDVGSRKPDPDAYRRALEKLGIPPEEILFVGD-- 158 (176)
T ss_dssp HHHHHHHHHTTSEEEEEESSEH--HHHHHHHHHTTHGGGCSEEEEGGGSSSSTTSHHHHHHHHHHHTSSGGGEEEEES--
T ss_pred hhhhhhcccccceeEEeecCCc--ccccccccccccccccccccccchhhhhhhHHHHHHHHHHHcCCCcceEEEEeC--
Confidence 4577777668888888877753 3445566666643 222222222111 111 111122335555555551
Q ss_pred CCCCCCchHHHhhhhCCCcccc
Q psy13427 189 TVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 189 ~~~~d~~aI~EA~~l~IPtIal 210 (268)
. ..-+..|..+|+++|++
T Consensus 159 ---~-~~d~~~A~~~G~~~i~v 176 (176)
T PF13419_consen 159 ---S-PSDVEAAKEAGIKTIWV 176 (176)
T ss_dssp ---S-HHHHHHHHHTTSEEEEE
T ss_pred ---C-HHHHHHHHHcCCeEEeC
Confidence 2 36788899999999875
No 92
>PRK06895 putative anthranilate synthase component II; Provisional
Probab=44.20 E-value=39 Score=29.09 Aligned_cols=75 Identities=3% Similarity=-0.075 Sum_probs=44.2
Q ss_pred CeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCC---CCchHHHhhhhC
Q psy13427 128 GIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLE---PNPAIGEAAKMC 204 (268)
Q Consensus 128 g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~---d~~aI~EA~~l~ 204 (268)
.+||+|.....+..-+.+..++.|..+..-++-.+. ... ....|.||++.-...+.. -...+++ ...+
T Consensus 2 ~~iliid~~dsf~~~i~~~l~~~g~~~~v~~~~~~~---~~~-----l~~~d~iIi~gGp~~~~~~~~~~~~i~~-~~~~ 72 (190)
T PRK06895 2 TKLLIINNHDSFTFNLVDLIRKLGVPMQVVNVEDLD---LDE-----VENFSHILISPGPDVPRAYPQLFAMLER-YHQH 72 (190)
T ss_pred cEEEEEeCCCchHHHHHHHHHHcCCcEEEEECCccC---hhH-----hccCCEEEECCCCCChHHhhHHHHHHHH-hcCC
Confidence 469999998887777888888888765443432221 111 234688887742111111 1123333 3458
Q ss_pred CCccccc
Q psy13427 205 IPTVGIV 211 (268)
Q Consensus 205 IPtIalv 211 (268)
+|+.|+|
T Consensus 73 ~PiLGIC 79 (190)
T PRK06895 73 KSILGVC 79 (190)
T ss_pred CCEEEEc
Confidence 9999987
No 93
>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=42.98 E-value=1.6e+02 Score=24.97 Aligned_cols=61 Identities=15% Similarity=0.035 Sum_probs=31.3
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhC----CCccccccCCC-------CCCceeeeccCCCCchhHHHHHHHHH
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMC----IPTVGIVDSNC-------NPNLITYPVPGNDDTPSAIQYYCQVF 241 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~----IPtIalvDTn~-------~p~~IdypIP~NddS~~SI~li~~lL 241 (268)
.|+.+++.+. ..-..+++.+...| ++++|.-|+.. .+...+...|...-+..++.++++.+
T Consensus 181 ~~~~i~~~~d----~~a~~~~~~l~~~g~~~~i~ivg~d~~~~~~~~~~~~~~~~tv~~~~~~~g~~a~~~l~~~l 252 (267)
T cd01536 181 DIDAIFAAND----SMALGAVAALKAAGRKGDVKIVGVDGSPEALAAIKEGGILATVAQDPYTQGYLAVEAAVKLL 252 (267)
T ss_pred CccEEEEecC----CchHHHHHHHHhcCCCCCceEEecCCChhHHHHHHcCCeeEEEecCHHHHHHHHHHHHHHHH
Confidence 4677777662 12234556666665 56777765521 22233444444444555555544443
No 94
>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=42.58 E-value=47 Score=28.50 Aligned_cols=37 Identities=24% Similarity=0.233 Sum_probs=24.8
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNC 215 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~ 215 (268)
.-.||+||.... ........+....+||++.+-..+.
T Consensus 58 ~l~PDlIi~~~~----~~~~~~~~~~~~~~ip~~~~~~~~~ 94 (238)
T PF01497_consen 58 ALKPDLIIGSSF----YGQSEEIEKLLEAGIPVVVFDSSSP 94 (238)
T ss_dssp HT--SEEEEETT----SSCHHHHHHHHHTTSEEEEESSTTC
T ss_pred hCCCCEEEEecc----ccchHHHHHHhcccceEEEeecccc
Confidence 457999998873 1245677777888999988755543
No 95
>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=42.48 E-value=3.1e+02 Score=26.20 Aligned_cols=101 Identities=13% Similarity=0.061 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHHHHHHHHHh-----CCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCce
Q psy13427 106 LDQSAELLRDALNFVAHIAY-----RDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDL 180 (268)
Q Consensus 106 L~~T~~~L~~A~~~I~~i~~-----~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdl 180 (268)
-.+=+..|..|+..+..... .+-+++++|..+. .+.+++.++..|.. +-.+.+|.+..... ......-|+
T Consensus 243 ~~K~~~~li~A~~~l~~~~~~~~~~~~i~l~ivG~G~~-~~~l~~~~~~~~l~--~~~~~~g~~~~~~~--~~~l~~aDv 317 (415)
T cd03816 243 PDEDFGILLDALVAYEKSAATGPKLPKLLCIITGKGPL-KEKYLERIKELKLK--KVTIRTPWLSAEDY--PKLLASADL 317 (415)
T ss_pred CCCCHHHHHHHHHHHHHhhcccccCCCEEEEEEecCcc-HHHHHHHHHHcCCC--cEEEEcCcCCHHHH--HHHHHhCCE
Confidence 34555667777776665321 1246778887765 34556677766643 12344554321111 012345666
Q ss_pred eeeecCCCCCCC--CCchHHHhhhhCCCccccccCC
Q psy13427 181 VILTNTLTTVLE--PNPAIGEAAKMCIPTVGIVDSN 214 (268)
Q Consensus 181 vivld~~~~~~~--d~~aI~EA~~l~IPtIalvDTn 214 (268)
.+++.+ .... -...+-||.-+|+|+|+ .|..
T Consensus 318 ~v~~~~--~~~~~~~p~~~~Eama~G~PVI~-s~~~ 350 (415)
T cd03816 318 GVSLHT--SSSGLDLPMKVVDMFGCGLPVCA-LDFK 350 (415)
T ss_pred EEEccc--cccccCCcHHHHHHHHcCCCEEE-eCCC
Confidence 654332 0111 14568999999999998 3443
No 96
>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=42.37 E-value=53 Score=28.29 Aligned_cols=71 Identities=15% Similarity=0.040 Sum_probs=42.6
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCC--------CCCCchHHHhh
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTV--------LEPNPAIGEAA 201 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~--------~~d~~aI~EA~ 201 (268)
|++|+...+....+.+..++.|.....-+ |... ...+|.||+..+-... ..-...++++.
T Consensus 1 i~i~d~g~~~~~~~~~~l~~~g~~v~v~~-------~~~~-----l~~~d~iiipG~~~~~~~~~~~~~~~~~~~i~~~~ 68 (198)
T cd01748 1 IAIIDYGMGNLRSVANALERLGAEVIITS-------DPEE-----ILSADKLILPGVGAFGDAMANLRERGLIEALKEAI 68 (198)
T ss_pred CEEEeCCCChHHHHHHHHHHCCCeEEEEc-------ChHH-----hccCCEEEECCCCcHHHHHHHHHHcChHHHHHHHH
Confidence 46677777666777777777776533211 2111 2347777775431100 01246788888
Q ss_pred hhCCCcccccc
Q psy13427 202 KMCIPTVGIVD 212 (268)
Q Consensus 202 ~l~IPtIalvD 212 (268)
..++|+.|+|-
T Consensus 69 ~~~~pilGiC~ 79 (198)
T cd01748 69 ASGKPFLGICL 79 (198)
T ss_pred HCCCcEEEECH
Confidence 88999999884
No 97
>COG0518 GuaA GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]
Probab=42.27 E-value=71 Score=28.28 Aligned_cols=77 Identities=18% Similarity=0.185 Sum_probs=46.5
Q ss_pred CeEEEEeCChhhHHHHHHHHHHcC-CceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCC-------chHHH
Q psy13427 128 GIVLFVGQSAQNSLLIEKTAQDCQ-EFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPN-------PAIGE 199 (268)
Q Consensus 128 g~ILfV~t~~~~~~~V~~~A~~~g-~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~-------~aI~E 199 (268)
.+|+++....+...+|.+.....| .+...- +-.-+.... ....||.+|++.--+++..+. ..|.+
T Consensus 2 ~~ilIld~g~q~~~li~r~~re~g~v~~e~~---~~~~~~~~~----~~~~~~giIlsGgp~sv~~~~~w~~~~~~~i~~ 74 (198)
T COG0518 2 RKILILDFGGQYLGLIARRLRELGYVYSEIV---PYTGDAEEL----PLDSPDGIIISGGPMSVYDEDPWLPREKDLIKD 74 (198)
T ss_pred cEEEEEeCCCcHhHHHHHHHHHcCCceEEEE---eCCCCcccc----cccCCCEEEEcCCCCCCccccccchhHHHHHHH
Confidence 368899999999999999888888 442221 111122111 134579999987333333332 34455
Q ss_pred hhhhCCCccccc
Q psy13427 200 AAKMCIPTVGIV 211 (268)
Q Consensus 200 A~~l~IPtIalv 211 (268)
+..-+.|++|||
T Consensus 75 ~~~p~~pvLGIC 86 (198)
T COG0518 75 AGVPGKPVLGIC 86 (198)
T ss_pred hCCCCCCEEEEC
Confidence 444455599998
No 98
>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=42.27 E-value=14 Score=26.78 Aligned_cols=37 Identities=27% Similarity=0.249 Sum_probs=26.7
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccc
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIV 211 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalv 211 (268)
...-|+++++.......+-..++++|+..|.|+|+++
T Consensus 45 ~~~~d~~i~iS~sg~t~~~~~~~~~a~~~g~~ii~it 81 (87)
T cd04795 45 LRKGDVVIALSYSGRTEELLAALEIAKELGIPVIAIT 81 (87)
T ss_pred CCCCCEEEEEECCCCCHHHHHHHHHHHHcCCeEEEEe
Confidence 3456888887742222334578899999999999998
No 99
>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=42.21 E-value=87 Score=27.54 Aligned_cols=90 Identities=21% Similarity=0.254 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCc-eecCCcccCcccchhhhhccccCCCceeeeecCCCC
Q psy13427 111 ELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEF-AHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTT 189 (268)
Q Consensus 111 ~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~-~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~ 189 (268)
..+.-|+++++.-+--.|+|-+-|.+..- .|..+|...... .-..+|.. ..+|+.. ...-|=|+++.|-
T Consensus 22 ~~iedaARlLAQA~vgeG~IYi~G~~Em~--~v~~~Al~g~E~l~~~k~l~~-~~~~~~~-----lt~~DRVllfs~~-- 91 (172)
T PF10740_consen 22 ESIEDAARLLAQAIVGEGTIYIYGFGEME--AVEAEALYGAEPLPSAKRLSE-DLENFDE-----LTETDRVLLFSPF-- 91 (172)
T ss_dssp HHHHHHHHHHHHHHHTT--EEEEE-GGGG--GGHHHHHCSTT--TTEEE--T-T-------------TT-EEEEEES---
T ss_pred hhHHHHHHHHHHHHhcCCEEEEEecChHH--HHHHHHHcCCCCCchhhcCcc-ccccccc-----ccccceEEEEeCC--
Confidence 46778888888877788989877766532 233344443332 33445642 2222222 2345667777652
Q ss_pred CCCCCchHHHhhh---hCCCccccc
Q psy13427 190 VLEPNPAIGEAAK---MCIPTVGIV 211 (268)
Q Consensus 190 ~~~d~~aI~EA~~---l~IPtIalv 211 (268)
..+..|++-|.+ .|||+|+++
T Consensus 92 -~~~~e~~~~a~~L~~~gi~~v~Vs 115 (172)
T PF10740_consen 92 -STDEEAVALAKQLIEQGIPFVGVS 115 (172)
T ss_dssp -S--HHHHHHHHHHHHHT--EEEEE
T ss_pred -CCCHHHHHHHHHHHHCCCCEEEEE
Confidence 233355555554 499999999
No 100
>COG0608 RecJ Single-stranded DNA-specific exonuclease [DNA replication, recombination, and repair]
Probab=41.95 E-value=1.3e+02 Score=30.00 Aligned_cols=102 Identities=13% Similarity=0.128 Sum_probs=68.1
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeEEEEeCCh----hhHHHHHHHHHHcCCceecCCcccCcccchhh-hhccccCCCcee
Q psy13427 107 DQSAELLRDALNFVAHIAYRDGIVLFVGQSA----QNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEK-LFRAVTRLPDLV 181 (268)
Q Consensus 107 ~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~----~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~-~~~~~~~~Pdlv 181 (268)
......+.+|...+..-..++.+|++++-.. .+.-++.++..+.|.- ...++|..++--.- ...-...-.+++
T Consensus 16 ~~~l~~~~~a~~~i~~ai~~~~~I~I~~d~DaDGitS~ail~~~L~~~g~~--~~~~ip~~~~~~~g~~~~~~~~~~~li 93 (491)
T COG0608 16 PFLLKDMEKAAARIAEAIEKGEKILIYGDYDADGITSAAILAKALRRLGAD--VDYYIPNRFEEGYGAIRKLKEEGADLI 93 (491)
T ss_pred hHHHhhHHHHHHHHHHHHHcCCEEEEEEecCcccHHHHHHHHHHHHHcCCc--eEEEeCCCccccchHHHHHHhcCCCEE
Confidence 3466788899999998889999999999764 3445666788888843 23455555554220 001134568899
Q ss_pred eeecCCCCCCCCCchHHHhhhhCCCccccccCC
Q psy13427 182 ILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSN 214 (268)
Q Consensus 182 ivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn 214 (268)
|++|.. ......++.|+..|+-+|- .|=.
T Consensus 94 ItvD~G---~~~~~~i~~~~~~g~~vIV-tDHH 122 (491)
T COG0608 94 ITVDNG---SGSLEEIARAKELGIDVIV-TDHH 122 (491)
T ss_pred EEECCC---cccHHHHHHHHhCCCcEEE-ECCC
Confidence 999942 3446778888877887763 3655
No 101
>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=41.88 E-value=44 Score=28.72 Aligned_cols=59 Identities=17% Similarity=0.068 Sum_probs=34.7
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFK 242 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~ 242 (268)
+.+|.+|+..+ ..+...+.++...+||+|.+ |.......+++.-+ |...+.......|.
T Consensus 58 ~~vdgiii~~~----~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~V~~---d~~~~~~~a~~~l~ 116 (268)
T cd06271 58 GLVDGVIISRT----RPDDPRVALLLERGFPFVTH-GRTELGDPHPWVDF---DNEAAAYQAVRRLI 116 (268)
T ss_pred CCCCEEEEecC----CCCChHHHHHHhcCCCEEEE-CCcCCCCCCCeEee---CcHHHHHHHHHHHH
Confidence 46888888653 22334678888899999976 66543334455433 23444454444443
No 102
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=41.43 E-value=64 Score=27.94 Aligned_cols=63 Identities=16% Similarity=0.168 Sum_probs=35.6
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
.+.+|.+|+..+. .......++++...|||+|.+ |++.+...+.+..+ |...+-......|.+
T Consensus 53 ~~~vdgii~~~~~--~~~~~~~i~~~~~~~ipvV~~-~~~~~~~~~~~V~~---d~~~~g~~~~~~l~~ 115 (273)
T cd06305 53 AQKVDAIIIQHGR--AEVLKPWVKRALDAGIPVVAF-DVDSDNPKVNNTTQ---DDYSLARLSLDQLVK 115 (273)
T ss_pred HcCCCEEEEecCC--hhhhHHHHHHHHHcCCCEEEe-cCCCCCCccceeee---chHHHHHHHHHHHHH
Confidence 3468999886521 112245688999999999876 55443333444333 223444444444444
No 103
>TIGR02919 accessory Sec system glycosyltransferase GtfB. Members of this protein family are found only in Gram-positive bacteria of the Firmicutes lineage, including several species of Staphylococcus, Streptococcus, and Lactobacillus.
Probab=41.31 E-value=74 Score=31.58 Aligned_cols=38 Identities=18% Similarity=0.184 Sum_probs=27.4
Q ss_pred CCCCchHHHhhhhCCCccccccCCCCCCcee--eeccCCC
Q psy13427 191 LEPNPAIGEAAKMCIPTVGIVDSNCNPNLIT--YPVPGND 228 (268)
Q Consensus 191 ~~d~~aI~EA~~l~IPtIalvDTn~~p~~Id--ypIP~Nd 228 (268)
.+-..|+.||...|+|++|.=+|--+...|. +.+|.++
T Consensus 358 e~~~~al~eA~~~G~pI~afd~t~~~~~~i~~g~l~~~~~ 397 (438)
T TIGR02919 358 NEILNAVRRAFEYNLLILGFEETAHNRDFIASENIFEHNE 397 (438)
T ss_pred ccHHHHHHHHHHcCCcEEEEecccCCcccccCCceecCCC
Confidence 4557899999999999999977644444333 4555655
No 104
>PRK06490 glutamine amidotransferase; Provisional
Probab=41.23 E-value=95 Score=28.07 Aligned_cols=79 Identities=15% Similarity=0.016 Sum_probs=45.1
Q ss_pred CCCeEEEEe-CChhhHHHHHHHHHHcCCceecCC-cccCcccchhhhhccccCCCceeeeecCCCCCCCC-------Cch
Q psy13427 126 RDGIVLFVG-QSAQNSLLIEKTAQDCQEFAHTRF-WRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEP-------NPA 196 (268)
Q Consensus 126 ~~g~ILfV~-t~~~~~~~V~~~A~~~g~~~i~~r-W~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d-------~~a 196 (268)
...+||++- .....-..+.+..+..|..+..-+ +.++.+-. .....|.+||+.-..++..+ ...
T Consensus 6 ~~~~vlvi~h~~~~~~g~l~~~l~~~g~~~~v~~~~~~~~~p~-------~l~~~dgvii~Ggp~~~~d~~~wi~~~~~~ 78 (239)
T PRK06490 6 DKRPVLIVLHQERSTPGRVGQLLQERGYPLDIRRPRLGDPLPD-------TLEDHAGAVIFGGPMSANDPDDFIRREIDW 78 (239)
T ss_pred CCceEEEEecCCCCCChHHHHHHHHCCCceEEEeccCCCCCCC-------cccccCEEEEECCCCCCCCCchHHHHHHHH
Confidence 345678874 444666667777777776543322 33332211 01246777777532222222 245
Q ss_pred HHHhhhhCCCccccc
Q psy13427 197 IGEAAKMCIPTVGIV 211 (268)
Q Consensus 197 I~EA~~l~IPtIalv 211 (268)
|++|...++|++|+|
T Consensus 79 i~~~~~~~~PvLGIC 93 (239)
T PRK06490 79 ISVPLKENKPFLGIC 93 (239)
T ss_pred HHHHHHCCCCEEEEC
Confidence 667778899999987
No 105
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=40.66 E-value=20 Score=30.71 Aligned_cols=80 Identities=14% Similarity=0.211 Sum_probs=48.9
Q ss_pred eEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhh-----------------h--c-----------c-ccCC
Q psy13427 129 IVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKL-----------------F--R-----------A-VTRL 177 (268)
Q Consensus 129 ~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~-----------------~--~-----------~-~~~~ 177 (268)
+|.+||..+.++..+ |-..+|.....+.| ||+-+....- + . . ....
T Consensus 2 ~ialvG~PNvGKStL--fN~Ltg~~~~v~n~-pG~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~ 78 (156)
T PF02421_consen 2 RIALVGNPNVGKSTL--FNALTGAKQKVGNW-PGTTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLLSEK 78 (156)
T ss_dssp EEEEEESTTSSHHHH--HHHHHTTSEEEEES-TTSSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred EEEEECCCCCCHHHH--HHHHHCCCceecCC-CCCCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence 588999998887553 55567777667788 6654443210 0 0 0 1356
Q ss_pred Cceee-eecCCCCCCCCCchHHHhhhhCCCcccccc
Q psy13427 178 PDLVI-LTNTLTTVLEPNPAIGEAAKMCIPTVGIVD 212 (268)
Q Consensus 178 Pdlvi-vld~~~~~~~d~~aI~EA~~l~IPtIalvD 212 (268)
||+++ |+|+. ....+.....+...+|+|+|-+++
T Consensus 79 ~D~ii~VvDa~-~l~r~l~l~~ql~e~g~P~vvvlN 113 (156)
T PF02421_consen 79 PDLIIVVVDAT-NLERNLYLTLQLLELGIPVVVVLN 113 (156)
T ss_dssp SSEEEEEEEGG-GHHHHHHHHHHHHHTTSSEEEEEE
T ss_pred CCEEEEECCCC-CHHHHHHHHHHHHHcCCCEEEEEe
Confidence 88754 55542 234445566777788888887764
No 106
>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=40.46 E-value=75 Score=27.42 Aligned_cols=60 Identities=13% Similarity=-0.035 Sum_probs=36.3
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
+..|.++++.+ ..+..+++++...|||+|.+ |+..+...+.|... |...+.......|.+
T Consensus 54 ~~vdgiii~~~----~~~~~~~~~l~~~~iPvv~~-~~~~~~~~~~~v~~---d~~~~~~~~~~~l~~ 113 (268)
T cd06273 54 RGVDGLALIGL----DHSPALLDLLARRGVPYVAT-WNYSPDSPYPCVGF---DNREAGRLAARHLIA 113 (268)
T ss_pred cCCCEEEEeCC----CCCHHHHHHHHhCCCCEEEE-cCCCCCCCCCEEEe---ChHHHHHHHHHHHHH
Confidence 45888888763 23446788888899999987 44333333445432 344555555555543
No 107
>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=40.45 E-value=77 Score=27.28 Aligned_cols=60 Identities=13% Similarity=0.182 Sum_probs=36.1
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFK 242 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~ 242 (268)
.+.+|.||+... ..+...++++.+.|||+|.+ |++.....+.+... | ...+.......|.
T Consensus 53 ~~~vdgiIi~~~----~~~~~~~~~l~~~~ipvV~~-~~~~~~~~~~~v~~-d--~~~~~~~~~~~l~ 112 (265)
T cd06299 53 SQRVDGIIVVPH----EQSAEQLEDLLKRGIPVVFV-DREITGSPIPFVTS-D--PQPGMTEAVSLLV 112 (265)
T ss_pred hcCCCEEEEcCC----CCChHHHHHHHhCCCCEEEE-ecccCCCCCCEEEE-C--cHHHHHHHHHHHH
Confidence 456898888652 23345689999999999876 55443333455433 2 2345555555453
No 108
>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=40.13 E-value=70 Score=27.68 Aligned_cols=61 Identities=20% Similarity=0.282 Sum_probs=36.3
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
.+.+|.+++... ..+...++++...|+|+|.+ |...+...+.+... |...+.+.....|.+
T Consensus 53 ~~~vdgiii~~~----~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~V~~---d~~~~g~~~~~~l~~ 113 (264)
T cd06274 53 ARQVDALIVAGS----LPPDDPYYLCQKAGLPVVAL-DRPGDPSRFPSVVS---DNRDGAAELTRELLA 113 (264)
T ss_pred HcCCCEEEEcCC----CCchHHHHHHHhcCCCEEEe-cCccCCCCCCEEEE---ccHHHHHHHHHHHHH
Confidence 356888888753 22233478888899999887 66554334555432 345555544444443
No 109
>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=39.07 E-value=3.4e+02 Score=25.57 Aligned_cols=58 Identities=19% Similarity=0.137 Sum_probs=39.5
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC-------CceeeeccCCCCchhHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP-------NLITYPVPGNDDTPSAI 234 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p-------~~IdypIP~NddS~~SI 234 (268)
...|++|++..-.+-.+--.+++.|...|.++|++++.. +. ....+.||.+.-...|.
T Consensus 65 ~~~dlvI~iS~SG~t~e~~~a~~~A~~~g~~ii~iT~~g-~L~~~a~~~~~~~i~vP~~~~~R~s~ 129 (308)
T TIGR02128 65 DGKTLLIAVSYSGNTEETLSAVEEAKKKGAKVIAITSGG-RLEEMAKERGLDVIKIPKGLQPRAAF 129 (308)
T ss_pred CCCeEEEEEcCCCCCHHHHHHHHHHHHcCCEEEEECCCc-HHHHHHHhcCCeEEEcCCCCCCeeeH
Confidence 456788887642222233467889999999999999632 11 13567789988777776
No 110
>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=38.26 E-value=49 Score=27.95 Aligned_cols=76 Identities=14% Similarity=0.062 Sum_probs=46.2
Q ss_pred EEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCC---CCCchHHHhhhhCCCc
Q psy13427 131 LFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVL---EPNPAIGEAAKMCIPT 207 (268)
Q Consensus 131 LfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~---~d~~aI~EA~~l~IPt 207 (268)
|++.....+...+.+..++.|.....-++-. ....... ....+|.+|+..-..++. ....+++++...++|+
T Consensus 1 lviD~~~~~~~~l~~~l~~~~~~~~v~~~~~----~~~~~~~-~~~~~d~iii~Gg~~~~~d~~~~~~~i~~~~~~~~Pi 75 (192)
T PF00117_consen 1 LVIDNGDSFTHSLVRALRELGIDVEVVRVDS----DFEEPLE-DLDDYDGIIISGGPGSPYDIEGLIELIREARERKIPI 75 (192)
T ss_dssp EEEESSHTTHHHHHHHHHHTTEEEEEEETTG----GHHHHHH-HTTTSSEEEEECESSSTTSHHHHHHHHHHHHHTTSEE
T ss_pred CEEeCCHHHHHHHHHHHHHCCCeEEEEECCC----chhhhhh-hhcCCCEEEECCcCCccccccccccccccccccceEE
Confidence 5677777778888888888885443222111 1111000 135688888877323222 1245678888889999
Q ss_pred cccc
Q psy13427 208 VGIV 211 (268)
Q Consensus 208 Ialv 211 (268)
+|+|
T Consensus 76 lGIC 79 (192)
T PF00117_consen 76 LGIC 79 (192)
T ss_dssp EEET
T ss_pred EEEe
Confidence 9998
No 111
>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=38.25 E-value=83 Score=26.96 Aligned_cols=61 Identities=16% Similarity=-0.018 Sum_probs=37.5
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
.+.+|.|++..+ ..+..+++++...+||+|.+ |++.+...+.+.- . |...+.......|.+
T Consensus 53 ~~~~dgiii~~~----~~~~~~l~~~~~~~ipvV~~-~~~~~~~~~~~v~-~--d~~~~g~~~~~~l~~ 113 (267)
T cd06283 53 AYQVDGLIVNPT----GNNKELYQRLAKNGKPVVLV-DRKIPELGVDTVT-L--DNYEAAKEAVDHLIE 113 (267)
T ss_pred HcCcCEEEEeCC----CCChHHHHHHhcCCCCEEEE-cCCCCCCCCCEEE-e--ccHHHHHHHHHHHHH
Confidence 356898888653 22334688988899999987 5554433455543 2 334555555555543
No 112
>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=37.96 E-value=1.1e+02 Score=25.59 Aligned_cols=77 Identities=18% Similarity=0.228 Sum_probs=42.4
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCC--CchHHHhhhhCCCc
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEP--NPAIGEAAKMCIPT 207 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d--~~aI~EA~~l~IPt 207 (268)
|+++.........+.+..++.|.....-+|-.+ ... ......|.||+...-.++..+ ....++....++|+
T Consensus 1 i~~iD~g~~~~~~~~~~l~~~G~~~~~~~~~~~----~~~---~~~~~~dgvIl~Gg~~~~~~~~~~~~~~~~~~~~~Pi 73 (181)
T cd01742 1 ILILDFGSQYTHLIARRVRELGVYSEILPNTTP----LEE---IKLKNPKGIILSGGPSSVYEEDAPRVDPEIFELGVPV 73 (181)
T ss_pred CEEEECCCchHHHHHHHHHhcCceEEEecCCCC----hhh---hcccCCCEEEECCCcccccccccchhhHHHHhcCCCE
Confidence 456666665566666777777765544344321 111 113457777776521111111 13456777779999
Q ss_pred cccccC
Q psy13427 208 VGIVDS 213 (268)
Q Consensus 208 IalvDT 213 (268)
.|+|=-
T Consensus 74 lGIC~G 79 (181)
T cd01742 74 LGICYG 79 (181)
T ss_pred EEEcHH
Confidence 998853
No 113
>PTZ00295 glucosamine-fructose-6-phosphate aminotransferase; Provisional
Probab=37.94 E-value=2.3e+02 Score=29.32 Aligned_cols=115 Identities=14% Similarity=-0.063 Sum_probs=58.9
Q ss_pred hCCCeEEEEeCChhhH---HHHHHHHHHc---CCceecCCcccCcccchhhhhccccC--CCceeeeecCCCC-CCCCCc
Q psy13427 125 YRDGIVLFVGQSAQNS---LLIEKTAQDC---QEFAHTRFWRQGMFTNSEKLFRAVTR--LPDLVILTNTLTT-VLEPNP 195 (268)
Q Consensus 125 ~~~g~ILfV~t~~~~~---~~V~~~A~~~---g~~~i~~rW~gG~LTN~~~~~~~~~~--~Pdlvivld~~~~-~~~d~~ 195 (268)
.+-.++.|+|....+. +.-.|+.+-+ -..|-.+.|..|.+. +.. .-+.+|++.+... ......
T Consensus 494 ~~a~~i~~lGrG~~~~iA~E~ALKLkEi~~i~ae~~~~~E~~HGp~a--------li~~~~~~~VI~i~~~~~~~~~~~~ 565 (640)
T PTZ00295 494 KNAKSMFILGKGLGYPIALEGALKIKEITYIHAEGFSGGALKHGPFA--------LIDKEKNTPVILIILDDEHKELMIN 565 (640)
T ss_pred hCCCcEEEEECCCCHHHHHHHHHHHHHHhhhhhhhcChHHhhhhHHH--------HhcCCCCCeEEEEEcCCccHHHHHH
Confidence 4567899999876443 2222333322 122334455555331 111 2345555543111 011246
Q ss_pred hHHHhhhhCCCccccccCCCC---CCceeeeccCCC-CchhHHHHHHHHHHHHHHh
Q psy13427 196 AIGEAAKMCIPTVGIVDSNCN---PNLITYPVPGND-DTPSAIQYYCQVFKTAILK 247 (268)
Q Consensus 196 aI~EA~~l~IPtIalvDTn~~---p~~IdypIP~Nd-dS~~SI~li~~lL~~aIl~ 247 (268)
+++|+...|-++|+|.+.... .....+++|.+. -++-..-..+++|+..+..
T Consensus 566 ~~~~lk~rga~vi~It~~~~~l~~~ad~~i~ip~~~~l~p~~~~ip~Qllay~la~ 621 (640)
T PTZ00295 566 AAEQVKARGAYIIVITDDEDLVKDFADEIILIPSNGPLTALLAVIPLQLLAYEIAI 621 (640)
T ss_pred HHHHHHHcCCEEEEEecCCccccccCCeEEEeCCcccchHHHHHHHHHHHHHHHHH
Confidence 789999999999999876421 122455667642 1233333345666655554
No 114
>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=37.88 E-value=82 Score=27.64 Aligned_cols=63 Identities=11% Similarity=0.075 Sum_probs=36.4
Q ss_pred cCCCceeeeecCCCCCCCCCc-hHHHhhhhCCCccccccCCC-CCCceeeeccCCCCchhHHHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNP-AIGEAAKMCIPTVGIVDSNC-NPNLITYPVPGNDDTPSAIQYYCQVFKTAI 245 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~-aI~EA~~l~IPtIalvDTn~-~p~~IdypIP~NddS~~SI~li~~lL~~aI 245 (268)
.+.+|.||+... ..+.. .+.++...|||+|.+ |... ++..+.+. +. |...+-......|.+..
T Consensus 55 ~~~vdgiI~~~~----~~~~~~~~~~~~~~giPvV~~-~~~~~~~~~~~~V--~~-d~~~~g~~~~~~l~~~g 119 (268)
T cd06306 55 AWGADAILLGAV----SPDGLNEILQQVAASIPVIAL-VNDINSPDITAKV--GV-SWYEMGYQAGEYLAQRH 119 (268)
T ss_pred HcCCCEEEEcCC----ChhhHHHHHHHHHCCCCEEEe-ccCCCCcceeEEe--cC-ChHHHHHHHHHHHHHHh
Confidence 457999988642 12221 588999999999988 3322 22223443 22 34555555556565544
No 115
>PRK09697 protein secretion protein GspB; Provisional
Probab=37.80 E-value=22 Score=29.37 Aligned_cols=11 Identities=45% Similarity=0.887 Sum_probs=9.0
Q ss_pred chhhhhHhhhc
Q psy13427 15 STQTHYLFKKL 25 (268)
Q Consensus 15 ~~~~~~~~~~~ 25 (268)
.||.||.|||-
T Consensus 75 Qs~qH~~FKKq 85 (139)
T PRK09697 75 QSTQHYFFKKQ 85 (139)
T ss_pred hhhhheeeecC
Confidence 47889999983
No 116
>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=37.76 E-value=3.7e+02 Score=25.65 Aligned_cols=24 Identities=25% Similarity=0.386 Sum_probs=18.1
Q ss_pred CchHHHhhhhCCCccccccCCCCCC
Q psy13427 194 NPAIGEAAKMCIPTVGIVDSNCNPN 218 (268)
Q Consensus 194 ~~aI~EA~~l~IPtIalvDTn~~p~ 218 (268)
..++.||..+|+|+|+ .|....++
T Consensus 324 p~~llEAma~G~PVIa-s~vgg~~e 347 (407)
T cd04946 324 PVSIMEAMSFGIPVIA-TNVGGTPE 347 (407)
T ss_pred cHHHHHHHHcCCCEEe-CCCCCcHH
Confidence 4678999999999998 35544443
No 117
>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=36.93 E-value=1.8e+02 Score=27.46 Aligned_cols=104 Identities=16% Similarity=0.187 Sum_probs=64.0
Q ss_pred CcccccCCeEEecHHHHHHHHHHHHHHHHHHHh-CCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhh
Q psy13427 93 YIYGVRQGQIIFDLDQSAELLRDALNFVAHIAY-RDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLF 171 (268)
Q Consensus 93 yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~-~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~ 171 (268)
.+.|--++.|-+|-+.....+. .|..++. .++.+++..++..-.+....+.+..+.......| .|.=-||..
T Consensus 151 vLIGG~s~~~~~~~~~~~~l~~----~l~~~~~~~~~~~~vttSRRTp~~~~~~L~~~~~~~~~~~~~-~~~~~nPy~-- 223 (311)
T PF06258_consen 151 VLIGGDSKHYRWDEEDAERLLD----QLAALAAAYGGSLLVTTSRRTPPEAEAALRELLKDNPGVYIW-DGTGENPYL-- 223 (311)
T ss_pred EEECcCCCCcccCHHHHHHHHH----HHHHHHHhCCCeEEEEcCCCCcHHHHHHHHHhhcCCCceEEe-cCCCCCcHH--
Confidence 3556556677777765433333 3333333 4458888888877666666565555322111235 666678765
Q ss_pred ccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCcccc
Q psy13427 172 RAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 172 ~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIal 210 (268)
+..-.-|.+||+- .--.-+-||...|-||.-+
T Consensus 224 -~~La~ad~i~VT~------DSvSMvsEA~~tG~pV~v~ 255 (311)
T PF06258_consen 224 -GFLAAADAIVVTE------DSVSMVSEAAATGKPVYVL 255 (311)
T ss_pred -HHHHhCCEEEEcC------ccHHHHHHHHHcCCCEEEe
Confidence 3455778888874 2246899999999998433
No 118
>TIGR00661 MJ1255 conserved hypothetical protein. This model represents nearly the full length of MJ1255 from Methanococcus jannaschii and of an unpublished protein from Vibrio cholerae, as well as the C-terminal half of a protein from Methanobacterium thermoautotrophicum. A small region (~50 amino acids) within the domain appears related to a family of sugar transferases.
Probab=36.28 E-value=1.4e+02 Score=27.38 Aligned_cols=89 Identities=16% Similarity=0.097 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCc-e--ecCCcc---cCcccchhhhhc-------------
Q psy13427 112 LLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEF-A--HTRFWR---QGMFTNSEKLFR------------- 172 (268)
Q Consensus 112 ~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~-~--i~~rW~---gG~LTN~~~~~~------------- 172 (268)
++.+|+-++..+.. +-.|+|+++.. ...+++.. |.. + +-+-+. .|.+..+...++
T Consensus 13 H~~r~~ala~~L~~-g~ev~~~~~~~-~~~~~~~~----~~~~~~~~p~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 86 (321)
T TIGR00661 13 HTTRSVAIGEALKN-DYEVSYIASGR-SKNYISKY----GFKVFETFPGIKLKGEDGKVNIVKTLRNKEYSPKKAIRREI 86 (321)
T ss_pred HHHHHHHHHHHHhC-CCeEEEEEcCC-HHHhhhhh----cCcceeccCCceEeecCCcCcHHHHHHhhccccHHHHHHHH
Confidence 55677778888766 77788887766 44433322 211 1 000011 122222222110
Q ss_pred c--ccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccC
Q psy13427 173 A--VTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDS 213 (268)
Q Consensus 173 ~--~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDT 213 (268)
. ....||+||... ...+..-|..++||+|++.+.
T Consensus 87 ~~l~~~~pDlVi~d~-------~~~~~~aA~~~~iP~i~i~~q 122 (321)
T TIGR00661 87 NIIREYNPDLIISDF-------EYSTVVAAKLLKIPVICISNQ 122 (321)
T ss_pred HHHHhcCCCEEEECC-------chHHHHHHHhcCCCEEEEecc
Confidence 0 135799988643 345677889999999999874
No 119
>PRK05749 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed
Probab=36.22 E-value=2.1e+02 Score=27.20 Aligned_cols=95 Identities=15% Similarity=0.126 Sum_probs=52.8
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccch---------hhhhccccCCCcee
Q psy13427 111 ELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNS---------EKLFRAVTRLPDLV 181 (268)
Q Consensus 111 ~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~---------~~~~~~~~~~Pdlv 181 (268)
..|.+|+..+..- ..+-++++++..+.-.+.+++.++..|...+ .|.+|-..+. ..........-|++
T Consensus 247 ~~ll~A~~~l~~~-~~~~~liivG~g~~r~~~l~~~~~~~gl~~~--~~~~~~~~~~~~~v~l~~~~~el~~~y~~aDi~ 323 (425)
T PRK05749 247 ELVLDAHRALLKQ-FPNLLLILVPRHPERFKEVEELLKKAGLSYV--RRSQGEPPSADTDVLLGDTMGELGLLYAIADIA 323 (425)
T ss_pred HHHHHHHHHHHHh-CCCcEEEEcCCChhhHHHHHHHHHhCCCcEE--EccCCCCCCCCCcEEEEecHHHHHHHHHhCCEE
Confidence 4455565554332 2345677888777544556777777776532 4555433221 00111223456776
Q ss_pred eeecCCCCCCCCCchHHHhhhhCCCcccc
Q psy13427 182 ILTNTLTTVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 182 ivld~~~~~~~d~~aI~EA~~l~IPtIal 210 (268)
|+.... ...--+.+-||..+|.|+|+-
T Consensus 324 ~v~~S~--~e~~g~~~lEAma~G~PVI~g 350 (425)
T PRK05749 324 FVGGSL--VKRGGHNPLEPAAFGVPVISG 350 (425)
T ss_pred EECCCc--CCCCCCCHHHHHHhCCCEEEC
Confidence 664321 112345789999999999973
No 120
>PRK05637 anthranilate synthase component II; Provisional
Probab=36.20 E-value=87 Score=27.72 Aligned_cols=77 Identities=14% Similarity=0.088 Sum_probs=41.5
Q ss_pred CeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCc--hHHHhhhhCC
Q psy13427 128 GIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNP--AIGEAAKMCI 205 (268)
Q Consensus 128 g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~--aI~EA~~l~I 205 (268)
.+|+++.....+..-+....++.|.+...-+|- +..... ....||.||+..-..++..... .+-++..-++
T Consensus 2 ~~il~iD~~dsf~~nl~~~l~~~g~~~~v~~~~----~~~~~l---~~~~~~~iIlsgGPg~~~d~~~~~~li~~~~~~~ 74 (208)
T PRK05637 2 THVVLIDNHDSFVYNLVDAFAVAGYKCTVFRNT----VPVEEI---LAANPDLICLSPGPGHPRDAGNMMALIDRTLGQI 74 (208)
T ss_pred CEEEEEECCcCHHHHHHHHHHHCCCcEEEEeCC----CCHHHH---HhcCCCEEEEeCCCCCHHHhhHHHHHHHHHhCCC
Confidence 368999998877766666666677654332331 112221 1236898888652223322111 1222222379
Q ss_pred Cccccc
Q psy13427 206 PTVGIV 211 (268)
Q Consensus 206 PtIalv 211 (268)
|+.|+|
T Consensus 75 PiLGIC 80 (208)
T PRK05637 75 PLLGIC 80 (208)
T ss_pred CEEEEc
Confidence 999987
No 121
>PRK00421 murC UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=36.12 E-value=1.1e+02 Score=30.00 Aligned_cols=62 Identities=18% Similarity=0.281 Sum_probs=37.3
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccCCCCchhHH-HHHHHHHH
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGNDDTPSAI-QYYCQVFK 242 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~NddS~~SI-~li~~lL~ 242 (268)
.+|+||+... +..++..+++|.+.|||+++-.+--... ..-.+.|=|-+ +..++ .++.++|.
T Consensus 66 ~~d~vv~spg---i~~~~~~~~~a~~~~i~i~~~~e~~~~~~~~~~~I~ITGTn-GKTTTt~ll~~iL~ 130 (461)
T PRK00421 66 DADVVVYSSA---IPDDNPELVAARELGIPVVRRAEMLAELMRFRTSIAVAGTH-GKTTTTSLLAHVLA 130 (461)
T ss_pred CCCEEEECCC---CCCCCHHHHHHHHCCCcEEeHHHHHHHHHccCcEEEEECCC-CHHHHHHHHHHHHH
Confidence 4787765432 4567788999999999999765441110 11346666765 44444 44444443
No 122
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=35.53 E-value=4.6e+02 Score=27.75 Aligned_cols=112 Identities=13% Similarity=0.030 Sum_probs=59.4
Q ss_pred cHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCc-eecCCcccCcccchhhhhccccCCCceeee
Q psy13427 105 DLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEF-AHTRFWRQGMFTNSEKLFRAVTRLPDLVIL 183 (268)
Q Consensus 105 nL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~-~i~~rW~gG~LTN~~~~~~~~~~~Pdlviv 183 (268)
+-.|=...|.+|+.-+..- ..+-++++||..+.. +-+++.++..|.. .| .| .|...+-... ...-|+.++
T Consensus 527 ~~~KG~~~LI~A~a~l~~~-~p~~~LvIvG~G~~~-~~L~~l~~~lgL~~~V--~f-lG~~~dv~~l----l~aaDv~Vl 597 (694)
T PRK15179 527 DDNKRPFLWVEAAQRFAAS-HPKVRFIMVGGGPLL-ESVREFAQRLGMGERI--LF-TGLSRRVGYW----LTQFNAFLL 597 (694)
T ss_pred CccCCHHHHHHHHHHHHHH-CcCeEEEEEccCcch-HHHHHHHHHcCCCCcE--EE-cCCcchHHHH----HHhcCEEEe
Confidence 3334444555555444331 234568888876543 3456677776632 11 12 2333332222 234566666
Q ss_pred ecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCce-----eeeccCCCC
Q psy13427 184 TNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLI-----TYPVPGNDD 229 (268)
Q Consensus 184 ld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~I-----dypIP~Ndd 229 (268)
... ...-..++-||.-+|+|+|+- |....++.| -+-+|.+|.
T Consensus 598 pS~---~Egfp~vlLEAMA~G~PVVat-~~gG~~EiV~dg~~GlLv~~~d~ 644 (694)
T PRK15179 598 LSR---FEGLPNVLIEAQFSGVPVVTT-LAGGAGEAVQEGVTGLTLPADTV 644 (694)
T ss_pred ccc---cccchHHHHHHHHcCCeEEEE-CCCChHHHccCCCCEEEeCCCCC
Confidence 431 112257899999999999984 443334333 345666654
No 123
>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=35.50 E-value=78 Score=27.44 Aligned_cols=58 Identities=17% Similarity=0.083 Sum_probs=34.8
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVF 241 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL 241 (268)
.+.+|.||+..+ .+...+.++...+||+|.+ |.+.+...+.|.-. | ...+.......|
T Consensus 56 ~~~vdgiii~~~-----~~~~~~~~l~~~~ipvV~~-~~~~~~~~~~~V~~-d--~~~~~~~a~~~l 113 (268)
T cd06277 56 DGKVDGIILLGG-----ISTEYIKEIKELGIPFVLV-DHYIPNEKADCVLT-D--NYSGAYAATEYL 113 (268)
T ss_pred HCCCCEEEEeCC-----CChHHHHHHhhcCCCEEEE-ccCCCCCCCCEEEe-c--chHHHHHHHHHH
Confidence 356899998753 1223578888899999964 76655444555322 2 344444444444
No 124
>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=35.07 E-value=3.2e+02 Score=24.08 Aligned_cols=33 Identities=15% Similarity=0.186 Sum_probs=21.5
Q ss_pred cCCCceeeeecCCCCCC--CCCchHHHhhhhCCCcccc
Q psy13427 175 TRLPDLVILTNTLTTVL--EPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~--~d~~aI~EA~~l~IPtIal 210 (268)
.+.-|+++.... .. .-..++.||..+|+|+|+-
T Consensus 265 ~~~ad~~v~ps~---~e~~~~~~~~~Ea~a~G~PvI~~ 299 (366)
T cd03822 265 FSAADVVVLPYR---SADQTQSGVLAYAIGFGKPVIST 299 (366)
T ss_pred HhhcCEEEeccc---ccccccchHHHHHHHcCCCEEec
Confidence 344566665331 11 2246899999999999984
No 125
>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=34.89 E-value=1e+02 Score=26.90 Aligned_cols=83 Identities=20% Similarity=0.263 Sum_probs=46.3
Q ss_pred HHHHHHHHhCCCeEEEEeCChh-hHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCc
Q psy13427 117 LNFVAHIAYRDGIVLFVGQSAQ-NSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNP 195 (268)
Q Consensus 117 ~~~I~~i~~~~g~ILfV~t~~~-~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~ 195 (268)
..++..+...+-.|+|++.... ....++..++......++ +.|. |+-.+ +-++.+.-|++|-.| .-
T Consensus 127 ~~l~~~l~~~~~~vvl~g~~~~~~~~~~~~~~~~~~~~~~~---~~~~-~~l~e-~~ali~~a~~~I~~D--------tg 193 (247)
T PF01075_consen 127 AELIERLKERGYRVVLLGGPEEQEKEIADQIAAGLQNPVIN---LAGK-TSLRE-LAALISRADLVIGND--------TG 193 (247)
T ss_dssp HHHHHHHCCCT-EEEE--SSHHHHHHHHHHHHTTHTTTTEE---ETTT-S-HHH-HHHHHHTSSEEEEES--------SH
T ss_pred HHHHHHHHhhCceEEEEccchHHHHHHHHHHHHhcccceEe---ecCC-CCHHH-HHHHHhcCCEEEecC--------Ch
Confidence 3445555445457888888777 455555666555422111 1222 33332 224566788888766 46
Q ss_pred hHHHhhhhCCCcccccc
Q psy13427 196 AIGEAAKMCIPTVGIVD 212 (268)
Q Consensus 196 aI~EA~~l~IPtIalvD 212 (268)
+++=|.-+|+|+|||--
T Consensus 194 ~~HlA~a~~~p~v~lfg 210 (247)
T PF01075_consen 194 PMHLAAALGTPTVALFG 210 (247)
T ss_dssp HHHHHHHTT--EEEEES
T ss_pred HHHHHHHHhCCEEEEec
Confidence 88999999999999963
No 126
>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=34.26 E-value=1.7e+02 Score=26.47 Aligned_cols=64 Identities=19% Similarity=0.105 Sum_probs=36.9
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCC-ceeeeccCCCCchhHHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPN-LITYPVPGNDDTPSAIQYYCQVFKTA 244 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~-~IdypIP~NddS~~SI~li~~lL~~a 244 (268)
.+.+|.|++... +.......++++...+||+|.+ |+..+.. ...+.-. |...+-......|.+.
T Consensus 52 ~~~vDgIIi~~~--~~~~~~~~l~~~~~~~iPvV~~-d~~~~~~~~~~~V~~---d~~~~g~~~~~~L~~~ 116 (302)
T TIGR02634 52 ARGVDVLVIIPQ--NGQVLSNAVQEAKDEGIKVVAY-DRLINDADIDFYLSF---DNEKVGEMQARAVLEA 116 (302)
T ss_pred HcCCCEEEEeCC--ChhHHHHHHHHHHHCCCeEEEe-cCcCCCCCccEEEec---CHHHHHHHHHHHHHhh
Confidence 356999988642 1111246788888999999976 6554322 2344432 3455555555555433
No 127
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=34.24 E-value=1.2e+02 Score=27.10 Aligned_cols=31 Identities=16% Similarity=-0.057 Sum_probs=20.9
Q ss_pred CceeeeecCCCCCCCCCchHHHhhhhCCCcccc
Q psy13427 178 PDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 178 Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIal 210 (268)
+++||+-- +|..-|....+.|...+||+=..
T Consensus 73 ~~lviaAt--~d~~ln~~i~~~a~~~~i~vNv~ 103 (210)
T COG1648 73 AFLVIAAT--DDEELNERIAKAARERRILVNVV 103 (210)
T ss_pred ceEEEEeC--CCHHHHHHHHHHHHHhCCceecc
Confidence 55555432 44556778889999999987433
No 128
>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=33.65 E-value=77 Score=27.48 Aligned_cols=61 Identities=16% Similarity=-0.020 Sum_probs=36.8
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
.+.+|.+|+..+ ..+...++++...|||+|.+ |++.+....++. + .|...+.......|..
T Consensus 53 ~~~vdgii~~~~----~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~v--~-~d~~~~~~~~~~~l~~ 113 (268)
T cd06270 53 ERRCDALILHSK----ALSDDELIELAAQVPPLVLI-NRHIPGLADRCI--W-LDNEQGGYLATEHLIE 113 (268)
T ss_pred HcCCCEEEEecC----CCCHHHHHHHhhCCCCEEEE-eccCCCCCCCeE--E-ECcHHHHHHHHHHHHH
Confidence 467999998752 12223388888999999887 554433233332 2 3455666666555543
No 129
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=33.54 E-value=44 Score=31.13 Aligned_cols=40 Identities=25% Similarity=0.273 Sum_probs=27.1
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhh-hhCCCccccccCCC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAA-KMCIPTVGIVDSNC 215 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~-~l~IPtIalvDTn~ 215 (268)
...||++|++.|....... ...||.. ..|||+|-|.|.-.
T Consensus 58 ~~~pDf~i~isPN~a~PGP-~~ARE~l~~~~iP~IvI~D~p~ 98 (277)
T PRK00994 58 EWKPDFVIVISPNPAAPGP-KKAREILKAAGIPCIVIGDAPG 98 (277)
T ss_pred hhCCCEEEEECCCCCCCCc-hHHHHHHHhcCCCEEEEcCCCc
Confidence 3579999999984332223 3445543 46999999988744
No 130
>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=32.96 E-value=3.1e+02 Score=23.36 Aligned_cols=35 Identities=29% Similarity=0.267 Sum_probs=25.5
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDS 213 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDT 213 (268)
...+|.+++... ..+..++..+...|||+|.+-+.
T Consensus 53 ~~~vdgiii~~~----~~~~~~~~~~~~~~ipvv~~~~~ 87 (268)
T cd01575 53 SRRPAGLILTGL----EHTERTRQLLRAAGIPVVEIMDL 87 (268)
T ss_pred HcCCCEEEEeCC----CCCHHHHHHHHhcCCCEEEEecC
Confidence 356899998763 22345777888899999988554
No 131
>COG0614 FepB ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=32.45 E-value=99 Score=27.76 Aligned_cols=34 Identities=21% Similarity=0.267 Sum_probs=24.4
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDS 213 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDT 213 (268)
.-.||+|+..+. .....+.+-...++|||.+-..
T Consensus 113 ~lkPDlIi~~~~-----~~~~~~~~~~~~~~pvv~~~~~ 146 (319)
T COG0614 113 ALKPDLIIASSS-----SQDDLIYKLLSLGAPVVVVDYG 146 (319)
T ss_pred hcCCCEEEEecc-----cchhHHHHHHhcCCCEEEECCc
Confidence 346999998762 2345677778889999887443
No 132
>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=32.41 E-value=77 Score=27.19 Aligned_cols=61 Identities=13% Similarity=0.097 Sum_probs=35.8
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
..+|.+++... + .....+++++...|||+|.+ |+..+...+.|.-+- ...+....+..|.+
T Consensus 54 ~~vdgiii~~~-~--~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~v~~d---~~~~~~~~~~~l~~ 114 (268)
T cd06289 54 HGVAGIILCPA-A--GTSPDLLKRLAESGIPVVLV-AREVAGAPFDYVGPD---NAAGARLATEHLIS 114 (268)
T ss_pred cCCCEEEEeCC-C--CccHHHHHHHHhcCCCEEEE-eccCCCCCCCEEeec---chHHHHHHHHHHHH
Confidence 46898888753 1 11223788999999999987 444333335554433 33445555555443
No 133
>PRK14607 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=32.11 E-value=1.2e+02 Score=30.83 Aligned_cols=77 Identities=9% Similarity=0.058 Sum_probs=42.6
Q ss_pred eEEEEeCChhhHHHHHHHHHHcCCceecCCcc-cCcccchhhhhccccCCCceeeeecCCCCCCCCC---chHHHhhhhC
Q psy13427 129 IVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWR-QGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPN---PAIGEAAKMC 204 (268)
Q Consensus 129 ~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~-gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~---~aI~EA~~l~ 204 (268)
.||+|.+...+..-+.....+.|..-+ .+. +.. ++.... ....||.||+..--.++..+. ..+++ ...+
T Consensus 1 ~il~idn~dsft~nl~~~l~~~g~~~v--~~~~~~~-~~~~~~---~~~~~d~vIlsgGP~~p~~~~~~~~li~~-~~~~ 73 (534)
T PRK14607 1 MIILIDNYDSFTYNIYQYIGELGPEEI--EVVRNDE-ITIEEI---EALNPSHIVISPGPGRPEEAGISVEVIRH-FSGK 73 (534)
T ss_pred CEEEEECchhHHHHHHHHHHHcCCCeE--EEECCCC-CCHHHH---HhcCCCEEEECCCCCChhhCCccHHHHHH-hhcC
Confidence 389999988777666666666664311 111 122 223322 134699998887323333222 22333 3458
Q ss_pred CCcccccc
Q psy13427 205 IPTVGIVD 212 (268)
Q Consensus 205 IPtIalvD 212 (268)
+|++|+|=
T Consensus 74 ~PvLGICl 81 (534)
T PRK14607 74 VPILGVCL 81 (534)
T ss_pred CCEEEEcH
Confidence 99999884
No 134
>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=31.83 E-value=3.4e+02 Score=23.41 Aligned_cols=41 Identities=17% Similarity=0.135 Sum_probs=24.8
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCce
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLI 220 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~I 220 (268)
..-|++++..- ...-...+-||..+|+|+|+- |.....+.+
T Consensus 262 ~~adi~i~ps~---~e~~~~~~~Ea~~~G~Pvi~s-~~~~~~~~i 302 (359)
T cd03808 262 AAADVFVLPSY---REGLPRVLLEAMAMGRPVIAT-DVPGCREAV 302 (359)
T ss_pred HhccEEEecCc---ccCcchHHHHHHHcCCCEEEe-cCCCchhhh
Confidence 44566655321 112257899999999999983 444434433
No 135
>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=31.44 E-value=1.5e+02 Score=25.61 Aligned_cols=58 Identities=14% Similarity=0.063 Sum_probs=35.2
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFK 242 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~ 242 (268)
...+|.+++..+ ..+...++++...+||+|.+ |.+.+ ...|. ..|...+.......|.
T Consensus 53 ~~~~dgiii~~~----~~~~~~~~~~~~~~iPvv~~-~~~~~--~~~~V---~~d~~~ag~~a~~~L~ 110 (265)
T cd06285 53 DRRVDGLILGDA----RSDDHFLDELTRRGVPFVLV-LRHAG--TSPAV---TGDDVLGGRLATRHLL 110 (265)
T ss_pred HcCCCEEEEecC----CCChHHHHHHHHcCCCEEEE-ccCCC--CCCEE---EeCcHHHHHHHHHHHH
Confidence 456898888753 23445789999999999776 54432 23333 2245555555555554
No 136
>COG4069 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.88 E-value=20 Score=34.38 Aligned_cols=46 Identities=26% Similarity=0.643 Sum_probs=31.0
Q ss_pred hhhhCCCccccccCCCCC----------CceeeeccCCCCchhHHHHHHHHHHHHHHhhhhh
Q psy13427 200 AAKMCIPTVGIVDSNCNP----------NLITYPVPGNDDTPSAIQYYCQVFKTAILKGKKA 251 (268)
Q Consensus 200 A~~l~IPtIalvDTn~~p----------~~IdypIP~NddS~~SI~li~~lL~~aIl~gk~~ 251 (268)
-.++|||+|||.|-|||- +.|-.-.|+-||- .-+++.+...+|+..
T Consensus 285 l~RfgipiiGItDgD~D~~~~~~~~~~gsvi~~l~~~~DDd------vGk~l~~~l~~~~~~ 340 (367)
T COG4069 285 LYRFGIPIIGITDGDCDEVTREVNIAPGSVILLLKPGRDDD------VGKILEQELFRGQYS 340 (367)
T ss_pred HHhcCCcEEecccCChHHhhhhcccCCCcEEEEEcCCcchH------HHHHHHHHHhcccch
Confidence 457899999999999873 3355556666643 235566666666655
No 137
>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=30.86 E-value=82 Score=27.47 Aligned_cols=60 Identities=20% Similarity=0.199 Sum_probs=34.7
Q ss_pred cCCCceeeeecCCCCCCCC--CchHHHhhhhCCCccccccCCCCC--CceeeeccCCCCchhHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEP--NPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGNDDTPSAIQYYCQVFK 242 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d--~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~NddS~~SI~li~~lL~ 242 (268)
.+.+|.||+... ..+ ...++++...|||+|.+ |+..+. ..+.|..+- ...+.......|.
T Consensus 53 ~~~~Dgiii~~~----~~~~~~~~i~~~~~~~iPvV~~-~~~~~~~~~~~~~v~~d---~~~~g~~~~~~l~ 116 (282)
T cd06318 53 TRGVNVLIINPV----DPEGLVPAVAAAKAAGVPVVVV-DSSINLEAGVVTQVQSS---NAKNGNLVGEWVV 116 (282)
T ss_pred HcCCCEEEEecC----CccchHHHHHHHHHCCCCEEEe-cCCCCCCcCeEEEEecC---cHHHHHHHHHHHH
Confidence 457999988642 222 24678888899999887 554332 335555443 3344444444443
No 138
>COG0859 RfaF ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=30.85 E-value=3.1e+02 Score=25.68 Aligned_cols=77 Identities=21% Similarity=0.203 Sum_probs=44.5
Q ss_pred HHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHH
Q psy13427 120 VAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGE 199 (268)
Q Consensus 120 I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~E 199 (268)
+..+..++-.|++++.+ .-.+..++.+..++.... +-|. |+-.+ +..+...-|++|- .|.-+++=
T Consensus 201 ~~~l~~~~~~Vvl~g~~-~e~e~~~~i~~~~~~~~~----l~~k-~sL~e-~~~li~~a~l~I~--------~DSg~~Hl 265 (334)
T COG0859 201 AELLIAKGYQVVLFGGP-DEEERAEEIAKGLPNAVI----LAGK-TSLEE-LAALIAGADLVIG--------NDSGPMHL 265 (334)
T ss_pred HHHHHHCCCEEEEecCh-HHHHHHHHHHHhcCCccc----cCCC-CCHHH-HHHHHhcCCEEEc--------cCChHHHH
Confidence 33333444578888877 444566667777664432 2222 22111 1112234555543 35678999
Q ss_pred hhhhCCCccccc
Q psy13427 200 AAKMCIPTVGIV 211 (268)
Q Consensus 200 A~~l~IPtIalv 211 (268)
|+-+|.|+|||.
T Consensus 266 AaA~~~P~I~iy 277 (334)
T COG0859 266 AAALGTPTIALY 277 (334)
T ss_pred HHHcCCCEEEEE
Confidence 999999999996
No 139
>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=30.83 E-value=1.9e+02 Score=24.83 Aligned_cols=38 Identities=29% Similarity=0.193 Sum_probs=24.5
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCC
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNC 215 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~ 215 (268)
.+.+|.+++.... .......+.++...+||+|.+ |.+.
T Consensus 54 ~~~vdgiii~~~~--~~~~~~~l~~~~~~~iPvV~~-~~~~ 91 (275)
T cd06317 54 AQKVDGIILWPTD--GQAYIPGLRKAKQAGIPVVIT-NSNI 91 (275)
T ss_pred HcCCCEEEEecCC--ccccHHHHHHHHHCCCcEEEe-CCCC
Confidence 3468988886521 111135678889999999955 5543
No 140
>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=30.21 E-value=1.3e+02 Score=21.62 Aligned_cols=41 Identities=0% Similarity=-0.158 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceec
Q psy13427 115 DALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHT 156 (268)
Q Consensus 115 ~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~ 156 (268)
++.+.+..+ ..|+.+.++.+.+.+..-|..+|+..|..++.
T Consensus 15 ~~kkal~~l-~~G~~l~V~~d~~~a~~di~~~~~~~G~~~~~ 55 (69)
T cd03420 15 KLKKEIDKL-QDGEQLEVKASDPGFARDAQAWCKSTGNTLIS 55 (69)
T ss_pred HHHHHHHcC-CCCCEEEEEECCccHHHHHHHHHHHcCCEEEE
Confidence 344444554 35666777888888889999999999988764
No 141
>PLN02347 GMP synthetase
Probab=30.03 E-value=1.8e+02 Score=29.72 Aligned_cols=77 Identities=17% Similarity=0.240 Sum_probs=46.5
Q ss_pred CeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCC------CchHHHhh
Q psy13427 128 GIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEP------NPAIGEAA 201 (268)
Q Consensus 128 g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d------~~aI~EA~ 201 (268)
.+|+++....++...|.+..++.|.+...-.|. ++..... ...||.||+..--.++..+ ...++.+.
T Consensus 11 ~~IlIID~G~~~t~~I~r~lrelgv~~~v~p~~----~~~~~i~---~~~~dgIILsGGP~sv~~~~~p~~~~~i~~~~~ 83 (536)
T PLN02347 11 DVVLILDYGSQYTHLITRRVRELGVYSLLLSGT----ASLDRIA---SLNPRVVILSGGPHSVHVEGAPTVPEGFFDYCR 83 (536)
T ss_pred CEEEEEECCCcHHHHHHHHHHHCCCeEEEEECC----CCHHHHh---cCCCCEEEECCCCCcccccCCchhhHHHHHHHH
Confidence 569999999988888888888888765433332 2333221 1368998887621122111 12233344
Q ss_pred hhCCCccccc
Q psy13427 202 KMCIPTVGIV 211 (268)
Q Consensus 202 ~l~IPtIalv 211 (268)
..++|+.|||
T Consensus 84 ~~~iPILGIC 93 (536)
T PLN02347 84 ERGVPVLGIC 93 (536)
T ss_pred hcCCcEEEEC
Confidence 4589999987
No 142
>PRK00074 guaA GMP synthase; Reviewed
Probab=29.93 E-value=1.3e+02 Score=30.37 Aligned_cols=79 Identities=20% Similarity=0.291 Sum_probs=49.7
Q ss_pred CCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCC-C-CchHHHhhhhC
Q psy13427 127 DGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLE-P-NPAIGEAAKMC 204 (268)
Q Consensus 127 ~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~-d-~~aI~EA~~l~ 204 (268)
..+|+++....+....+.+..++.|.+...-.|.. ..... . ...||.||+..--.++.. + ....+++...+
T Consensus 3 ~~~i~vlD~Gsq~~~li~r~lrelg~~~~v~p~~~----~~~~l-~--~~~~dgIIlsGGp~sv~~~~~p~~~~~i~~~~ 75 (511)
T PRK00074 3 HDKILILDFGSQYTQLIARRVRELGVYSEIVPYDI----SAEEI-R--AFNPKGIILSGGPASVYEEGAPRADPEIFELG 75 (511)
T ss_pred CCEEEEEECCCCcHHHHHHHHHHCCCeEEEEECCC----CHHHH-h--ccCCCEEEECCCCcccccCCCccccHHHHhCC
Confidence 45799999999999999998888997654432221 11211 1 125888888762222111 1 13446667789
Q ss_pred CCcccccc
Q psy13427 205 IPTVGIVD 212 (268)
Q Consensus 205 IPtIalvD 212 (268)
+|+.|+|=
T Consensus 76 ~PvLGIC~ 83 (511)
T PRK00074 76 VPVLGICY 83 (511)
T ss_pred CCEEEECH
Confidence 99999884
No 143
>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=29.82 E-value=1.2e+02 Score=25.31 Aligned_cols=32 Identities=25% Similarity=0.450 Sum_probs=21.6
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCcccc
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIal 210 (268)
...||+||.... ..+...+..-.+.|||++.+
T Consensus 67 ~l~PDlii~~~~----~~~~~~~~~l~~~gIpvv~i 98 (186)
T cd01141 67 ALKPDLVILYGG----FQAQTILDKLEQLGIPVLYV 98 (186)
T ss_pred ccCCCEEEEecC----CCchhHHHHHHHcCCCEEEe
Confidence 567999987542 11223556667899999887
No 144
>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=29.80 E-value=3.3e+02 Score=23.22 Aligned_cols=123 Identities=10% Similarity=-0.087 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhCCCeEEEEeCChhh------HHHHHHHHHH-cCCceecCCcccCcccchhhhhccccCC---Cceeee
Q psy13427 114 RDALNFVAHIAYRDGIVLFVGQSAQN------SLLIEKTAQD-CQEFAHTRFWRQGMFTNSEKLFRAVTRL---PDLVIL 183 (268)
Q Consensus 114 ~~A~~~I~~i~~~~g~ILfV~t~~~~------~~~V~~~A~~-~g~~~i~~rW~gG~LTN~~~~~~~~~~~---Pdlviv 183 (268)
..|...+.......++|++++..... ..-.+++++. .|..............+.......+.+. |+.+++
T Consensus 108 ~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~ 187 (268)
T cd06323 108 KMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEVVDKYPGLKVVASQPADFDRAKGLNVMENILQAHPDIKGVFA 187 (268)
T ss_pred HHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEEecccCCCCHHHHHHHHHHHHHHCCCcCEEEE
Q ss_pred ecCCCCCCCCC-chHHHhhhhCC---CccccccCCC-------CCCceeeeccCCCCchhHHHHHHHHH
Q psy13427 184 TNTLTTVLEPN-PAIGEAAKMCI---PTVGIVDSNC-------NPNLITYPVPGNDDTPSAIQYYCQVF 241 (268)
Q Consensus 184 ld~~~~~~~d~-~aI~EA~~l~I---PtIalvDTn~-------~p~~IdypIP~NddS~~SI~li~~lL 241 (268)
.+ ..-. .+++++...|+ ++||+-|+.. .+...++-.|...-+..++.+++..+
T Consensus 188 ~~-----d~~a~~~~~~l~~~g~~di~iig~d~~~~~~~~~~~~~~ltti~~~~~~~g~~a~~~l~~~l 251 (268)
T cd06323 188 QN-----DEMALGAIEALKAAGKDDVKVVGFDGTPDALKAIKAGKMAATVAQQPALMGRLAVETADKYL 251 (268)
T ss_pred cC-----CchHHHHHHHHHHcCCCCcEEEEeCCCHHHHHHHHcCCeeEEEecChHHHHHHHHHHHHHHh
No 145
>PF11238 DUF3039: Protein of unknown function (DUF3039); InterPro: IPR021400 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=29.64 E-value=27 Score=25.40 Aligned_cols=19 Identities=32% Similarity=0.440 Sum_probs=16.1
Q ss_pred chHHHhhhhCCCccccccC
Q psy13427 195 PAIGEAAKMCIPTVGIVDS 213 (268)
Q Consensus 195 ~aI~EA~~l~IPtIalvDT 213 (268)
.=|.|+.-.|.|++|||--
T Consensus 15 ~kI~esav~G~pVvALCGk 33 (58)
T PF11238_consen 15 DKIAESAVMGTPVVALCGK 33 (58)
T ss_pred hHHHHHHhcCceeEeeeCc
Confidence 3577999999999999854
No 146
>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=29.57 E-value=5e+02 Score=25.36 Aligned_cols=87 Identities=17% Similarity=0.106 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEeCCh---hhHHHHHHHHHHcCCc-eecCCcccCcccchhhhhccccCCCceeeeecC
Q psy13427 111 ELLRDALNFVAHIAYRDGIVLFVGQSA---QNSLLIEKTAQDCQEF-AHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNT 186 (268)
Q Consensus 111 ~~L~~A~~~I~~i~~~~g~ILfV~t~~---~~~~~V~~~A~~~g~~-~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~ 186 (268)
..+.+|+..+..- ..+-+++++|..+ ...+.+++.++..|.. .+ ++.| ..+-.. ....-|++++..-
T Consensus 309 ~~li~a~~~l~~~-~p~~~l~IvG~g~~~~~~~~e~~~li~~l~l~~~V--~f~G--~~~v~~----~l~~aDv~vlpS~ 379 (475)
T cd03813 309 KTFIRAAAIVRKK-IPDAEGWVIGPTDEDPEYAEECRELVESLGLEDNV--KFTG--FQNVKE----YLPKLDVLVLTSI 379 (475)
T ss_pred HHHHHHHHHHHHh-CCCeEEEEECCCCcChHHHHHHHHHHHHhCCCCeE--EEcC--CccHHH----HHHhCCEEEeCch
Confidence 3444555444432 2345677888653 2334455666666532 22 2333 122222 2334566665431
Q ss_pred CCCCCCCCchHHHhhhhCCCccc
Q psy13427 187 LTTVLEPNPAIGEAAKMCIPTVG 209 (268)
Q Consensus 187 ~~~~~~d~~aI~EA~~l~IPtIa 209 (268)
...-..++-||..+|+|+|+
T Consensus 380 ---~Eg~p~~vlEAma~G~PVVa 399 (475)
T cd03813 380 ---SEGQPLVILEAMAAGIPVVA 399 (475)
T ss_pred ---hhcCChHHHHHHHcCCCEEE
Confidence 12235789999999999999
No 147
>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=29.51 E-value=2.3e+02 Score=25.05 Aligned_cols=65 Identities=17% Similarity=0.148 Sum_probs=36.2
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTA 244 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~a 244 (268)
...+|.+|+... +.......+.++...|||+|.+ |.+.+....++.|.. |...+-+.....|.+.
T Consensus 53 ~~~vdgiii~~~--~~~~~~~~l~~l~~~~ipvV~~-~~~~~~~~~~~~v~~--d~~~~g~~~~~~l~~~ 117 (288)
T cd01538 53 AKGVDVLVIAPV--DGEALASAVEKAADAGIPVIAY-DRLILNSNVDYYVSF--DNEKVGELQGQALVDG 117 (288)
T ss_pred HcCCCEEEEecC--ChhhHHHHHHHHHHCCCCEEEE-CCCCCCCCcceEEEe--ChHHHHHHHHHHHHHH
Confidence 457999888642 1111135678888999999987 443322222222333 4455555555555544
No 148
>cd03807 GT1_WbnK_like This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis.
Probab=29.20 E-value=3.8e+02 Score=23.20 Aligned_cols=63 Identities=19% Similarity=0.220 Sum_probs=33.5
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCcee---eeccCCCCchhHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLIT---YPVPGNDDTPSAIQYYCQVFK 242 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~Id---ypIP~NddS~~SI~li~~lL~ 242 (268)
...-|++++... ...-...+-||..+|+|+|+- |.....+.+. +.++.+| .......+..++.
T Consensus 266 ~~~adi~v~ps~---~e~~~~~~~Ea~a~g~PvI~~-~~~~~~e~~~~~g~~~~~~~-~~~l~~~i~~l~~ 331 (365)
T cd03807 266 LNALDVFVLSSL---SEGFPNVLLEAMACGLPVVAT-DVGDNAELVGDTGFLVPPGD-PEALAEAIEALLA 331 (365)
T ss_pred HHhCCEEEeCCc---cccCCcHHHHHHhcCCCEEEc-CCCChHHHhhcCCEEeCCCC-HHHHHHHHHHHHh
Confidence 345666665331 112246899999999999983 4444444332 4444433 2233334444443
No 149
>COG0449 GlmS Glucosamine 6-phosphate synthetase, contains amidotransferase and phosphosugar isomerase domains [Cell envelope biogenesis, outer membrane]
Probab=29.18 E-value=1.3e+02 Score=31.41 Aligned_cols=68 Identities=13% Similarity=-0.004 Sum_probs=44.2
Q ss_pred ceeeeecCCCCCCCC-CchHHHhhhhCCCccccccCCCCC--CceeeeccCC---------CCchhHHHHHHHHHHHHHH
Q psy13427 179 DLVILTNTLTTVLEP-NPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGN---------DDTPSAIQYYCQVFKTAIL 246 (268)
Q Consensus 179 dlvivld~~~~~~~d-~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~N---------ddS~~SI~li~~lL~~aIl 246 (268)
+++|.+.. +....| ..|+++|++.|.+++|+|+..-++ +-.|++++-+ .++..+--+.+++|+-.+.
T Consensus 332 ~L~I~ISQ-SGETaDTl~ALr~ak~~G~~tlaItNv~gSti~Resd~~l~~~AGpEigVAsTKaftaQl~~L~lLal~~a 410 (597)
T COG0449 332 TLVIAISQ-SGETADTLAALRLAKEQGAKTLAITNVPGSTIARESDHTLLIRAGPEIGVASTKAFTAQVLALYLLALYLA 410 (597)
T ss_pred cEEEEEcc-CcccHHHHHHHHHHHHcCCCEEEEEecCCChhhcccceEEEeccCCceeeecchhHHHHHHHHHHHHHHHh
Confidence 55555542 222222 579999999999999999875544 4577777654 3555566666666665555
Q ss_pred h
Q psy13427 247 K 247 (268)
Q Consensus 247 ~ 247 (268)
+
T Consensus 411 ~ 411 (597)
T COG0449 411 K 411 (597)
T ss_pred H
Confidence 3
No 150
>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=29.18 E-value=81 Score=27.34 Aligned_cols=65 Identities=14% Similarity=0.145 Sum_probs=36.2
Q ss_pred cCCCceeeeecCCC-CCCCCCchHHHhhhhCCCccccccCCCCC-CceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLT-TVLEPNPAIGEAAKMCIPTVGIVDSNCNP-NLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 175 ~~~Pdlvivld~~~-~~~~d~~aI~EA~~l~IPtIalvDTn~~p-~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
.+.+|.+|++.+.. +......++.++.+.|+|+|.+ |++.+. ..+++.. . |...+.......|.+
T Consensus 53 ~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~i-~~~~~~~~~~~~V~--~-d~~~~~~~~~~~l~~ 119 (273)
T cd06292 53 ARGVRGVVFISSLHADTHADHSHYERLAERGLPVVLV-NGRAPPPLKVPHVS--T-DDALAMRLAVRHLVA 119 (273)
T ss_pred HcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEEE-cCCCCCCCCCCEEE--E-CcHHHHHHHHHHHHH
Confidence 35689998875321 1112234588888999999887 655432 2244432 2 344444555555543
No 151
>TIGR02193 heptsyl_trn_I lipopolysaccharide heptosyltransferase I. This family consists of examples of ADP-heptose:LPS heptosyltransferase I, an enzyme of LPS inner core region biosynthesis. LPS, composed of lipid A, a core region, and O antigen, is found in the outer membrane of Gram-negative bacteria.
Probab=29.02 E-value=3.6e+02 Score=24.49 Aligned_cols=82 Identities=13% Similarity=0.022 Sum_probs=43.1
Q ss_pred HHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchH
Q psy13427 118 NFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAI 197 (268)
Q Consensus 118 ~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI 197 (268)
.++..+..++..+++++..+.-.+..+..++..+.. ... |. |+-.+ +-+..+.-|++|-. |.-++
T Consensus 202 ~l~~~l~~~~~~~vl~~g~~~e~~~~~~i~~~~~~~----~l~-g~-~sL~e-l~ali~~a~l~I~~--------DSgp~ 266 (319)
T TIGR02193 202 ELARLLLARGLQIVLPWGNDAEKQRAERIAEALPGA----VVL-PK-MSLAE-VAALLAGADAVVGV--------DTGLT 266 (319)
T ss_pred HHHHHHHHCCCeEEEeCCCHHHHHHHHHHHhhCCCC----eec-CC-CCHHH-HHHHHHcCCEEEeC--------CChHH
Confidence 344444444556666643333333344444443322 121 22 22222 11334556666543 46789
Q ss_pred HHhhhhCCCccccccCC
Q psy13427 198 GEAAKMCIPTVGIVDSN 214 (268)
Q Consensus 198 ~EA~~l~IPtIalvDTn 214 (268)
+=|.-+|+|+|||.-..
T Consensus 267 HlAaa~g~P~i~lfg~t 283 (319)
T TIGR02193 267 HLAAALDKPTVTLYGAT 283 (319)
T ss_pred HHHHHcCCCEEEEECCC
Confidence 99999999999998543
No 152
>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=28.83 E-value=1.5e+02 Score=25.44 Aligned_cols=60 Identities=13% Similarity=-0.047 Sum_probs=34.0
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
..+|.+|+... ..+...+.++...+||+|.+ |.......+.+.-+- ...+.......|.+
T Consensus 54 ~~vdgiii~~~----~~~~~~~~~l~~~~ipvV~~-~~~~~~~~~~~v~~d---~~~~~~~~~~~l~~ 113 (268)
T cd06298 54 KQVDGIIFMGG----KISEEHREEFKRSPTPVVLA-GSVDEDNELPSVNID---YKKAAFEATELLIK 113 (268)
T ss_pred hcCCEEEEeCC----CCcHHHHHHHhcCCCCEEEE-ccccCCCCCCEEEEC---cHHHHHHHHHHHHH
Confidence 46888888642 22335777787889999887 433222234454333 34444555555543
No 153
>PRK10637 cysG siroheme synthase; Provisional
Probab=28.56 E-value=1.2e+02 Score=30.10 Aligned_cols=53 Identities=11% Similarity=0.067 Sum_probs=29.9
Q ss_pred CCCCCCCchHHHhhhhCCCccccccC--CCCC--------CceeeeccCCCCchhHHHHHHHHH
Q psy13427 188 TTVLEPNPAIGEAAKMCIPTVGIVDS--NCNP--------NLITYPVPGNDDTPSAIQYYCQVF 241 (268)
Q Consensus 188 ~~~~~d~~aI~EA~~l~IPtIalvDT--n~~p--------~~IdypIP~NddS~~SI~li~~lL 241 (268)
+|..-|+....+|...||++ =.+|. .||. ..+.+.|-.|-.|+.-...+-.-+
T Consensus 81 ~d~~~n~~i~~~a~~~~~lv-N~~d~~~~~~f~~pa~~~~g~l~iaisT~G~sP~~a~~lr~~i 143 (457)
T PRK10637 81 DDDAVNQRVSEAAEARRIFC-NVVDAPKAASFIMPSIIDRSPLMVAVSSGGTSPVLARLLREKL 143 (457)
T ss_pred CCHHHhHHHHHHHHHcCcEE-EECCCcccCeEEEeeEEecCCEEEEEECCCCCcHHHHHHHHHH
Confidence 44566788889999999986 23332 1111 114444555666666555544333
No 154
>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=28.46 E-value=94 Score=27.43 Aligned_cols=60 Identities=15% Similarity=0.116 Sum_probs=36.0
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
...+|.+++... ..+...++++...|||+|.+ |+..+ ..+.|.-+ |...+-......|.+
T Consensus 54 ~~~~dgiii~~~----~~~~~~~~~~~~~~ipvV~~-~~~~~-~~~~~v~~---d~~~~g~~~~~~L~~ 113 (283)
T cd06279 54 SALVDGFIVYGV----PRDDPLVAALLRRGLPVVVV-DQPLP-PGVPSVGI---DDRAAAREAARHLLD 113 (283)
T ss_pred hcCCCEEEEeCC----CCChHHHHHHHHcCCCEEEE-ecCCC-CCCCEEee---CcHHHHHHHHHHHHH
Confidence 356898888652 22335788999999999866 66554 33444433 234444444454543
No 155
>PRK15427 colanic acid biosynthesis glycosyltransferase WcaL; Provisional
Probab=28.44 E-value=5.3e+02 Score=24.66 Aligned_cols=127 Identities=17% Similarity=0.101 Sum_probs=62.1
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCC
Q psy13427 108 QSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTL 187 (268)
Q Consensus 108 ~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~ 187 (268)
|=+..|.+|+..+..- ..+-++.++|..+.- +-+++.++..|..-.. .|. |..++... ......-|+.++..-.
T Consensus 235 Kg~~~ll~a~~~l~~~-~~~~~l~ivG~G~~~-~~l~~~~~~~~l~~~V-~~~-G~~~~~el--~~~l~~aDv~v~pS~~ 308 (406)
T PRK15427 235 KGLHVAIEACRQLKEQ-GVAFRYRILGIGPWE-RRLRTLIEQYQLEDVV-EMP-GFKPSHEV--KAMLDDADVFLLPSVT 308 (406)
T ss_pred cCHHHHHHHHHHHHhh-CCCEEEEEEECchhH-HHHHHHHHHcCCCCeE-EEe-CCCCHHHH--HHHHHhCCEEEECCcc
Confidence 3344555565554431 123457788877654 3456667766632111 133 33333221 1223456776653310
Q ss_pred C---CCCCCCchHHHhhhhCCCccccccCCCCCCce-----eeeccCCCCchhHHHHHHHHHH
Q psy13427 188 T---TVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLI-----TYPVPGNDDTPSAIQYYCQVFK 242 (268)
Q Consensus 188 ~---~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~I-----dypIP~NddS~~SI~li~~lL~ 242 (268)
. +...-..++.||..+|+|+|+- |....++.| -+.+|.+| ...-...+..++.
T Consensus 309 ~~~g~~Eg~p~~llEAma~G~PVI~t-~~~g~~E~v~~~~~G~lv~~~d-~~~la~ai~~l~~ 369 (406)
T PRK15427 309 GADGDMEGIPVALMEAMAVGIPVVST-LHSGIPELVEADKSGWLVPEND-AQALAQRLAAFSQ 369 (406)
T ss_pred CCCCCccCccHHHHHHHhCCCCEEEe-CCCCchhhhcCCCceEEeCCCC-HHHHHHHHHHHHh
Confidence 0 0011135789999999999985 444444443 24555543 3333344444443
No 156
>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=28.43 E-value=1.7e+02 Score=25.40 Aligned_cols=63 Identities=17% Similarity=0.202 Sum_probs=34.4
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCC-CCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNC-NPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~-~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
.+.+|.|++.... ...-...+.++...|||+|.+ |+.. +.....|. -. |...+-......|.+
T Consensus 54 ~~~vdgiii~~~~--~~~~~~~~~~~~~~~ipvV~~-~~~~~~~~~~~~V-~~--d~~~~g~~~~~~l~~ 117 (270)
T cd06308 54 RQGVDLLIISPNE--AAPLTPVVEEAYRAGIPVILL-DRKILSDKYTAYI-GA--DNYEIGRQAGEYIAN 117 (270)
T ss_pred HhCCCEEEEecCc--hhhchHHHHHHHHCCCCEEEe-CCCCCCccceEEe-ec--CcHHHHHHHHHHHHH
Confidence 4568988876421 111134678888899999966 5433 22223333 22 344444555555544
No 157
>COG2222 AgaS Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]
Probab=28.21 E-value=5.5e+02 Score=24.74 Aligned_cols=111 Identities=19% Similarity=0.146 Sum_probs=56.9
Q ss_pred HHHHHHHHHHHHHhCC--CeEEEEeCCh--hhHHHHHHHHHH-cCCceecCCcccCc--ccchhhhhccccCCCc-eeee
Q psy13427 112 LLRDALNFVAHIAYRD--GIVLFVGQSA--QNSLLIEKTAQD-CQEFAHTRFWRQGM--FTNSEKLFRAVTRLPD-LVIL 183 (268)
Q Consensus 112 ~L~~A~~~I~~i~~~~--g~ILfV~t~~--~~~~~V~~~A~~-~g~~~i~~rW~gG~--LTN~~~~~~~~~~~Pd-lviv 183 (268)
.......-|..-.++. .+|+|+++.. .....++-+.+. ++.- + .+++.. ++|... ....+ ++|+
T Consensus 22 ~~~~~~~~l~~~l~~~~~~~I~~~g~GsS~~~~~~~~~~~~~~~~~~-~--~~~~~se~~~~~~~-----~~~~~~lvi~ 93 (340)
T COG2222 22 ANRAVLAELADFLRKRGIDRILFVGCGSSLHAATPAKYLLERELGLL-V--AAIPASEFLTNGAK-----YLGEDSLVIA 93 (340)
T ss_pred hhhhHHHHHHHHHHhCCCcEEEEEecCchHHHHHHHHHHHHHhhCce-e--eeechhHHhccCcc-----ccCCCeEEEE
Confidence 3333333444333444 4899998754 445555665553 3322 1 233331 222222 12334 5555
Q ss_pred ecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--Cceee--eccCCCCc
Q psy13427 184 TNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITY--PVPGNDDT 230 (268)
Q Consensus 184 ld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~Idy--pIP~NddS 230 (268)
+.--.+..+-.-|++.|+..|..+|||++.-..| ...|| +.++....
T Consensus 94 ~S~SG~TpE~vaa~~~a~~~ga~~i~lT~~~dSpLa~~ad~~i~~~~~~e~ 144 (340)
T COG2222 94 FSQSGNTPESVAAAELAKEGGALTIALTNEEDSPLARAADYVIPYLAGEEA 144 (340)
T ss_pred EeCCCCCHHHHHHHHHhccCCCeEEEEecCCCChhhhcCCeeeeccCCchH
Confidence 5522221222456777778899999998774444 33444 45565554
No 158
>COG0771 MurD UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]
Probab=28.16 E-value=1.6e+02 Score=29.52 Aligned_cols=66 Identities=15% Similarity=0.191 Sum_probs=41.1
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCC--CCceeeeccCCCCchhHHHHHHHHHHHHH
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCN--PNLITYPVPGNDDTPSAIQYYCQVFKTAI 245 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~--p~~IdypIP~NddS~~SI~li~~lL~~aI 245 (268)
..|+| |.+|. +..++-.|.+|.+.|+|+++=+.-=.. ...=...|=|-|--..-..++..+|..+-
T Consensus 69 ~~d~v-V~SPG--i~~~~p~v~~A~~~gi~i~~dieL~~r~~~~~p~vaITGTNGKTTTTsli~~~l~~~G 136 (448)
T COG0771 69 EFDLV-VKSPG--IPPTHPLVEAAKAAGIEIIGDIELFYRLSGEAPIVAITGTNGKTTTTSLIAHLLKAAG 136 (448)
T ss_pred cCCEE-EECCC--CCCCCHHHHHHHHcCCcEEeHHHHHHHhcCCCCEEEEECCCchHHHHHHHHHHHHhcC
Confidence 35555 45663 677888999999999999974433221 11115666687655555566666665443
No 159
>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in UniProtKB/Swiss-Prot. GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyse the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 1LC0_A 1LC3_A 1GCU_A 3IP3_E 3CEA_C 3EVN_A 3NTQ_A 3NTR_B 3NT5_A 3MZ0_A ....
Probab=28.07 E-value=1.4e+02 Score=22.75 Aligned_cols=51 Identities=18% Similarity=0.119 Sum_probs=34.1
Q ss_pred HHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCcc
Q psy13427 144 EKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTV 208 (268)
Q Consensus 144 ~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtI 208 (268)
+.+++..|.. .+|++...+. ...||+|+|..| ...-...+.+|...|++++
T Consensus 40 ~~~~~~~~~~---------~~~~~~~ll~--~~~~D~V~I~tp---~~~h~~~~~~~l~~g~~v~ 90 (120)
T PF01408_consen 40 EAFAEKYGIP---------VYTDLEELLA--DEDVDAVIIATP---PSSHAEIAKKALEAGKHVL 90 (120)
T ss_dssp HHHHHHTTSE---------EESSHHHHHH--HTTESEEEEESS---GGGHHHHHHHHHHTTSEEE
T ss_pred HHHHHHhccc---------chhHHHHHHH--hhcCCEEEEecC---CcchHHHHHHHHHcCCEEE
Confidence 4566776655 3466666542 237999999886 2334577888999999773
No 160
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=27.92 E-value=2.1e+02 Score=25.83 Aligned_cols=107 Identities=7% Similarity=0.026 Sum_probs=57.0
Q ss_pred CCeEEecHHHHHHH-----------------HHHHHHHHHHHHhCCCeEEEEeCChhh-HHHHHHHHHHcCCcee---cC
Q psy13427 99 QGQIIFDLDQSAEL-----------------LRDALNFVAHIAYRDGIVLFVGQSAQN-SLLIEKTAQDCQEFAH---TR 157 (268)
Q Consensus 99 ~gi~IInL~~T~~~-----------------L~~A~~~I~~i~~~~g~ILfV~t~~~~-~~~V~~~A~~~g~~~i---~~ 157 (268)
....++|++.|+.. ...+..++..+..++..+.++++++.. .+.+.+.....+.+|- ..
T Consensus 158 ~~~~~~D~dgtl~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~g~~i~i~T~r~~~~~~~~l~~l~~~~~~f~~i~~~ 237 (300)
T PHA02530 158 PKAVIFDIDGTLAKMGGRSPYDWTKVKEDKPNPMVVELVKMYKAAGYEIIVVSGRDGVCEEDTVEWLRQTDIWFDDLIGR 237 (300)
T ss_pred CCEEEEECCCcCcCCCCCCccchhhcccCCCChhHHHHHHHHHhCCCEEEEEeCCChhhHHHHHHHHHHcCCchhhhhCC
Confidence 46788999888664 345678888887777778888777643 2222222223331210 00
Q ss_pred C----cccC---cccchhhhh---ccccC-CCceeeeecCCCCCCCCCchHHHhhhhCCCccccc
Q psy13427 158 F----WRQG---MFTNSEKLF---RAVTR-LPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIV 211 (268)
Q Consensus 158 r----W~gG---~LTN~~~~~---~~~~~-~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalv 211 (268)
. |+-. .-..+.... ..... .|+-.++++ ....-+.-|...|+|+|++.
T Consensus 238 ~~~~~~~~~~~~~kp~p~~~~~~l~~~~~~~~~~~~~vg------D~~~d~~~a~~~Gi~~i~v~ 296 (300)
T PHA02530 238 PPDMHFQREQGDKRPDDVVKEEIFWEKIAPKYDVLLAVD------DRDQVVDMWRRIGLECWQVA 296 (300)
T ss_pred cchhhhcccCCCCCCcHHHHHHHHHHHhccCceEEEEEc------CcHHHHHHHHHhCCeEEEec
Confidence 0 1100 011111111 11122 346666655 22456777788999999984
No 161
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=27.88 E-value=1.5e+02 Score=28.54 Aligned_cols=140 Identities=18% Similarity=0.119 Sum_probs=72.9
Q ss_pred CcccccCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeE-EEEeCChh----hHHHHHHHHHHcCCceecCCcccCcccch
Q psy13427 93 YIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIV-LFVGQSAQ----NSLLIEKTAQDCQEFAHTRFWRQGMFTNS 167 (268)
Q Consensus 93 yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~I-LfV~t~~~----~~~~V~~~A~~~g~~~i~~rW~gG~LTN~ 167 (268)
-++|.-+-. +++++++.+ ..+.-+-++| ++.+.... ..+.+++.|++.|..-+.- -+ +=+|-
T Consensus 135 NvTGvsD~~---~v~q~i~li-------k~~~Pnak~Igv~Y~p~E~ns~~l~eelk~~A~~~Gl~vve~-~v--~~~nd 201 (322)
T COG2984 135 NVTGVSDLL---PVAQQIELI-------KALLPNAKSIGVLYNPGEANSVSLVEELKKEARKAGLEVVEA-AV--TSVND 201 (322)
T ss_pred ceeecCCcc---hHHHHHHHH-------HHhCCCCeeEEEEeCCCCcccHHHHHHHHHHHHHCCCEEEEE-ec--Ccccc
Confidence 566655432 566665544 4444455566 55555442 2355667888888654321 00 11333
Q ss_pred hhh-hccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccCCCCchhHHHHHHHHHHHH
Q psy13427 168 EKL-FRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGNDDTPSAIQYYCQVFKTA 244 (268)
Q Consensus 168 ~~~-~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~NddS~~SI~li~~lL~~a 244 (268)
.+. ...+...+|++++..-..-.+.-+..+.+|.+.+||+|+= ||++-- ..+.+-++-=+ ++.=...+...
T Consensus 202 i~~a~~~l~g~~d~i~~p~dn~i~s~~~~l~~~a~~~kiPli~s-d~~~V~~Ga~aA~gvdy~~-----~G~qtg~~v~~ 275 (322)
T COG2984 202 IPRAVQALLGKVDVIYIPTDNLIVSAIESLLQVANKAKIPLIAS-DTSSVKEGALAALGVDYKD-----LGKQTGEMVVK 275 (322)
T ss_pred cHHHHHHhcCCCcEEEEecchHHHHHHHHHHHHHHHhCCCeecC-CHHHHhcCcceeeccCHHH-----HHHHHHHHHHH
Confidence 321 2245678999987542111223367889999999999874 333322 22444433222 22222344555
Q ss_pred HHhhhhh
Q psy13427 245 ILKGKKA 251 (268)
Q Consensus 245 Il~gk~~ 251 (268)
|+.|+..
T Consensus 276 ILkG~~p 282 (322)
T COG2984 276 ILKGKKP 282 (322)
T ss_pred HHcCCCc
Confidence 5666544
No 162
>TIGR03639 cas1_NMENI CRISPR-associated endonuclease Cas1, NMENI subtype. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is a prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 variant of the NMENI subtype of CRISPR/Cas system.
Probab=27.69 E-value=1.5e+02 Score=27.50 Aligned_cols=80 Identities=18% Similarity=0.138 Sum_probs=48.8
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhH-HHH------HHHHHHHHHHhhh
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSA-IQY------YCQVFKTAILKGK 249 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~S-I~l------i~~lL~~aIl~gk 249 (268)
.-|.|++... +..-...++++|.+.|||+ .++|.+-.|-..-+|..++..+..- ... ....+++++..||
T Consensus 34 ~i~~Ivi~g~--~~~lst~~l~~l~~~~I~v-~f~~~~G~~~g~~~p~~~~~~~~~~~~~Q~~~~~~~~~~~ar~ii~~K 110 (278)
T TIGR03639 34 DIDVILIENP--QITISSALLSALAENNIAL-IFCDEKHLPVGQLLPFYGHHRSLKRLKLQIDWSLPLKKQLWQKIIKQK 110 (278)
T ss_pred HccEEEEeCC--CEEEcHHHHHHHHHCCCeE-EEECCCCCcceEEcCCCCchhHHHHHHHHHHhCchHHHHHHHHHHHHH
Confidence 4556666541 1234578999999999998 5778887776666665544332221 111 1233567788888
Q ss_pred hhhHh-HHHHH
Q psy13427 250 KAKQD-TLKLL 259 (268)
Q Consensus 250 ~~r~~-~~~~~ 259 (268)
.+.+. .++.+
T Consensus 111 i~Nq~~~L~~~ 121 (278)
T TIGR03639 111 ILNQAFVLEKL 121 (278)
T ss_pred HHHHHHHHHHh
Confidence 87664 44443
No 163
>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=27.66 E-value=2.5e+02 Score=23.18 Aligned_cols=31 Identities=26% Similarity=0.383 Sum_probs=21.0
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCcccc
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIal 210 (268)
.-.||+||.... ..........+.|||++.+
T Consensus 58 ~l~PDlii~~~~-----~~~~~~~~l~~~gi~v~~~ 88 (195)
T cd01143 58 ALKPDLVIVSSS-----SLAELLEKLKDAGIPVVVL 88 (195)
T ss_pred ccCCCEEEEcCC-----cCHHHHHHHHHcCCcEEEe
Confidence 457999887542 2233566777899998765
No 164
>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=27.65 E-value=1.5e+02 Score=20.68 Aligned_cols=42 Identities=5% Similarity=-0.084 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceec
Q psy13427 114 RDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHT 156 (268)
Q Consensus 114 ~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~ 156 (268)
.+|.+.+..+ ..+..+.++.+.+....-|.++++..|..+..
T Consensus 14 ~~~~~~l~~l-~~g~~l~v~~d~~~~~~~i~~~~~~~g~~~~~ 55 (69)
T cd00291 14 LKTKKALEKL-KSGEVLEVLLDDPGAVEDIPAWAKETGHEVLE 55 (69)
T ss_pred HHHHHHHhcC-CCCCEEEEEecCCcHHHHHHHHHHHcCCEEEE
Confidence 3455555554 45666777888888888899999999877653
No 165
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=27.23 E-value=4.8e+02 Score=23.72 Aligned_cols=106 Identities=11% Similarity=-0.005 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhh----hhccc-cCCCceeeeecCC
Q psy13427 113 LRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEK----LFRAV-TRLPDLVILTNTL 187 (268)
Q Consensus 113 L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~----~~~~~-~~~Pdlvivld~~ 187 (268)
+.+.+.+-..+..++..+.|+.+..... .++ ..+..|...+. +++. ++|.+ ...-+ ...||++|+-..
T Consensus 17 v~Rcl~LA~~l~~~g~~v~f~~~~~~~~-~~~-~i~~~g~~v~~---~~~~-~~~~~d~~~~~~~l~~~~~d~vV~D~y- 89 (279)
T TIGR03590 17 VMRCLTLARALHAQGAEVAFACKPLPGD-LID-LLLSAGFPVYE---LPDE-SSRYDDALELINLLEEEKFDILIVDHY- 89 (279)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCCHH-HHH-HHHHcCCeEEE---ecCC-CchhhhHHHHHHHHHhcCCCEEEEcCC-
Confidence 4444445555556788999998875432 222 33344432211 1111 12221 11111 136998887653
Q ss_pred CCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCC
Q psy13427 188 TTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGND 228 (268)
Q Consensus 188 ~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~Nd 228 (268)
.-+..-.+..+..+.+++.|=|...-+-..|+.|=+|-
T Consensus 90 ---~~~~~~~~~~k~~~~~l~~iDD~~~~~~~~D~vin~~~ 127 (279)
T TIGR03590 90 ---GLDADWEKLIKEFGRKILVIDDLADRPHDCDLLLDQNL 127 (279)
T ss_pred ---CCCHHHHHHHHHhCCeEEEEecCCCCCcCCCEEEeCCC
Confidence 22333333333457777877777655667788877765
No 166
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=27.14 E-value=86 Score=27.80 Aligned_cols=99 Identities=20% Similarity=0.141 Sum_probs=63.6
Q ss_pred HHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceec-CCc--ccCcccchhhhhccccCCCceeeeecCCCCCCC
Q psy13427 116 ALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHT-RFW--RQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLE 192 (268)
Q Consensus 116 A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~-~rW--~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~ 192 (268)
|..++....+.|-++.+||.... .+++.+|+..|..+.. .+. ..|.||=+.. - .+++ ...
T Consensus 82 a~elv~~lk~~G~~v~iiSgg~~--~lv~~ia~~lg~d~~~an~l~~~dG~ltG~v~----------g-~~~~----~~~ 144 (212)
T COG0560 82 AEELVAALKAAGAKVVIISGGFT--FLVEPIAERLGIDYVVANELEIDDGKLTGRVV----------G-PICD----GEG 144 (212)
T ss_pred HHHHHHHHHHCCCEEEEEcCChH--HHHHHHHHHhCCchheeeEEEEeCCEEeceee----------e-eecC----cch
Confidence 67778888888999999988776 4778899998865332 111 1133343221 0 1111 112
Q ss_pred CCchH-HHhhhhCCC---ccccccCCCCC---CceeeeccCCCCch
Q psy13427 193 PNPAI-GEAAKMCIP---TVGIVDSNCNP---NLITYPVPGNDDTP 231 (268)
Q Consensus 193 d~~aI-~EA~~l~IP---tIalvDTn~~p---~~IdypIP~NddS~ 231 (268)
-..++ .-+.++|++ ++|.-|+.+|. +.+..||--|-+..
T Consensus 145 K~~~l~~~~~~~g~~~~~~~a~gDs~nDlpml~~ag~~ia~n~~~~ 190 (212)
T COG0560 145 KAKALRELAAELGIPLEETVAYGDSANDLPMLEAAGLPIAVNPKPK 190 (212)
T ss_pred HHHHHHHHHHHcCCCHHHeEEEcCchhhHHHHHhCCCCeEeCcCHH
Confidence 23444 445667999 99999998887 45888888887644
No 167
>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=27.13 E-value=36 Score=29.62 Aligned_cols=92 Identities=17% Similarity=0.189 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHhC--CCeEEEEeCChhhHHHHHHHH-HHcCCceecCCcccCccc-chhhhhccccCCCceeeeecCC
Q psy13427 112 LLRDALNFVAHIAYR--DGIVLFVGQSAQNSLLIEKTA-QDCQEFAHTRFWRQGMFT-NSEKLFRAVTRLPDLVILTNTL 187 (268)
Q Consensus 112 ~L~~A~~~I~~i~~~--~g~ILfV~t~~~~~~~V~~~A-~~~g~~~i~~rW~gG~LT-N~~~~~~~~~~~Pdlvivld~~ 187 (268)
-...|..++.++..+ +..|++..+.+.+.+..++.. ...... +.|--+. .....+ ..-.||++|++..
T Consensus 33 E~~a~~~Li~~l~~~~p~~~illT~~T~tg~~~~~~~~~~~v~~~-----~~P~D~~~~~~rfl--~~~~P~~~i~~Et- 104 (186)
T PF04413_consen 33 EVNAARPLIKRLRKQRPDLRILLTTTTPTGREMARKLLPDRVDVQ-----YLPLDFPWAVRRFL--DHWRPDLLIWVET- 104 (186)
T ss_dssp HHHHHHHHHHHHTT---TS-EEEEES-CCHHHHHHGG-GGG-SEE-----E---SSHHHHHHHH--HHH--SEEEEES--
T ss_pred HHHHHHHHHHHHHHhCCCCeEEEEecCCchHHHHHHhCCCCeEEE-----EeCccCHHHHHHHH--HHhCCCEEEEEcc-
Confidence 345667777777654 567777776677766544332 222221 2332111 111111 1236999999873
Q ss_pred CCCCCCCchHHHhhhhCCCccccccCCC
Q psy13427 188 TTVLEPNPAIGEAAKMCIPTVGIVDSNC 215 (268)
Q Consensus 188 ~~~~~d~~aI~EA~~l~IPtIalvDTn~ 215 (268)
.-=...+.+|.+.|||++ ++|.--
T Consensus 105 ---ElWPnll~~a~~~~ip~~-LvNarl 128 (186)
T PF04413_consen 105 ---ELWPNLLREAKRRGIPVV-LVNARL 128 (186)
T ss_dssp ------HHHHHH-----S-EE-EEEE--
T ss_pred ---ccCHHHHHHHhhcCCCEE-EEeeee
Confidence 222468999999999994 556543
No 168
>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=27.01 E-value=1.8e+02 Score=25.09 Aligned_cols=64 Identities=17% Similarity=0.139 Sum_probs=35.6
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCC-ceeeeccCCCCchhHHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPN-LITYPVPGNDDTPSAIQYYCQVFKTA 244 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~-~IdypIP~NddS~~SI~li~~lL~~a 244 (268)
...+|.+|+... . ......++.++...++|+|.+ |...+.. .+.+. .. |...+-+.....|.+.
T Consensus 53 ~~~~dgiii~~~-~-~~~~~~~l~~~~~~~ipvV~~-~~~~~~~~~~~~v-~~--d~~~~g~~~~~~l~~~ 117 (277)
T cd06319 53 DKGVSGIIISPT-N-SSAAVTLLKLAAQAKIPVVIA-DIGAEGGDYVSYI-KS--DNYEGAYDLGKFLAAA 117 (277)
T ss_pred hcCCCEEEEcCC-c-hhhhHHHHHHHHHCCCCEEEE-ecCCCCCceEEEE-ee--ccHHHHHHHHHHHHHH
Confidence 356898877541 1 111235678888999999875 5544322 23343 22 3444444555555544
No 169
>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=26.92 E-value=1.5e+02 Score=20.95 Aligned_cols=40 Identities=5% Similarity=-0.084 Sum_probs=28.9
Q ss_pred HHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCcee
Q psy13427 115 DALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAH 155 (268)
Q Consensus 115 ~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i 155 (268)
++.+.+..+ ..|..+.++.+.+.+..-|.++|+..|..++
T Consensus 16 ~~~~~l~~l-~~G~~l~v~~d~~~~~~di~~~~~~~g~~~~ 55 (70)
T PF01206_consen 16 KAKKALKEL-PPGEVLEVLVDDPAAVEDIPRWCEENGYEVV 55 (70)
T ss_dssp HHHHHHHTS-GTT-EEEEEESSTTHHHHHHHHHHHHTEEEE
T ss_pred HHHHHHHhc-CCCCEEEEEECCccHHHHHHHHHHHCCCEEE
Confidence 444555554 3555677888899988999999999997644
No 170
>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=26.55 E-value=1.8e+02 Score=24.90 Aligned_cols=60 Identities=18% Similarity=0.077 Sum_probs=34.2
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
+.+|.+|+... + . .....+.++...|||+|.+ |++.+ ...++.- .|...+.......|.+
T Consensus 54 ~~vdgiii~~~-~-~-~~~~~~~~~~~~~ipvV~~-~~~~~-~~~~~v~---~d~~~~g~~~~~~l~~ 113 (266)
T cd06282 54 QRVDGLILTVA-D-A-ATSPALDLLDAERVPYVLA-YNDPQ-PGRPSVS---VDNRAAARDVAQALAA 113 (266)
T ss_pred cCCCEEEEecC-C-C-CchHHHHHHhhCCCCEEEE-eccCC-CCCCEEe---eCcHHHHHHHHHHHHH
Confidence 56899887531 1 1 1123678898999999887 44433 2233332 2345555555555543
No 171
>PRK13181 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=26.12 E-value=1.8e+02 Score=25.09 Aligned_cols=20 Identities=25% Similarity=0.338 Sum_probs=16.0
Q ss_pred CchHHHhhhhCCCccccccC
Q psy13427 194 NPAIGEAAKMCIPTVGIVDS 213 (268)
Q Consensus 194 ~~aI~EA~~l~IPtIalvDT 213 (268)
..+++++...++|++|+|=-
T Consensus 62 ~~~i~~~~~~~~PvlGiC~G 81 (199)
T PRK13181 62 DEALKEHVEKKQPVLGICLG 81 (199)
T ss_pred HHHHHHHHHCCCCEEEECHh
Confidence 35678877889999999864
No 172
>PF11019 DUF2608: Protein of unknown function (DUF2608); InterPro: IPR022565 This family is conserved in Bacteria. The function is not known.
Probab=25.99 E-value=1.6e+02 Score=26.89 Aligned_cols=91 Identities=9% Similarity=0.005 Sum_probs=0.0
Q ss_pred HHHHHHHhCCCeEEEEeCCh-hhHHHHHHHHHHcCCceecCC-----cccCcccchhhh---------------------
Q psy13427 118 NFVAHIAYRDGIVLFVGQSA-QNSLLIEKTAQDCQEFAHTRF-----WRQGMFTNSEKL--------------------- 170 (268)
Q Consensus 118 ~~I~~i~~~~g~ILfV~t~~-~~~~~V~~~A~~~g~~~i~~r-----W~gG~LTN~~~~--------------------- 170 (268)
.+|..+..++-.++.++.+. .......+..++.|..|-..- |..+..++....
T Consensus 88 ~~i~~lq~~~~~v~alT~~~~~~~~~t~~~Lk~~gi~fs~~~~~~~~~~~~~~~~~~~~~~~~~~~GIlft~~~~KG~~L 167 (252)
T PF11019_consen 88 NIINSLQNKGIPVIALTARGPNMEDWTLRELKSLGIDFSSSSFPEDGIISFPVFDSALSRAPSFYDGILFTGGQDKGEVL 167 (252)
T ss_pred HHHHHHHHCCCcEEEEcCCChhhHHHHHHHHHHCCCCccccccccCcceecccccCCCCCCceeecCeEEeCCCccHHHH
Q ss_pred ---hccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCcccc
Q psy13427 171 ---FRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 171 ---~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIal 210 (268)
+......|+-||++| ++...=...=..|...||+-+|+
T Consensus 168 ~~fL~~~~~~pk~IIfID--D~~~nl~sv~~a~k~~~I~f~G~ 208 (252)
T PF11019_consen 168 KYFLDKINQSPKKIIFID--DNKENLKSVEKACKKSGIDFIGF 208 (252)
T ss_pred HHHHHHcCCCCCeEEEEe--CCHHHHHHHHHHHhhCCCcEEEE
No 173
>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=25.97 E-value=1.9e+02 Score=23.66 Aligned_cols=17 Identities=12% Similarity=0.098 Sum_probs=13.7
Q ss_pred CchHHHhhhhCCCcccc
Q psy13427 194 NPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 194 ~~aI~EA~~l~IPtIal 210 (268)
..-+..|...|+++||+
T Consensus 169 ~~di~aA~~~G~~~i~v 185 (185)
T TIGR02009 169 LAGVQAARAAGMFAVAV 185 (185)
T ss_pred HhhHHHHHHCCCeEeeC
Confidence 35678888899999885
No 174
>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=25.70 E-value=1.4e+02 Score=25.75 Aligned_cols=59 Identities=15% Similarity=0.073 Sum_probs=35.2
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
+.+|.+|+... ..+...++++...+||+|.+ |+..+ ..+++.-. |...+.......|.+
T Consensus 50 ~~vdgii~~~~----~~~~~~~~~~~~~~ipvV~~-~~~~~-~~~~~V~~---d~~~~~~~~~~~l~~ 108 (261)
T cd06272 50 NRFDGVIIFGE----SASDVEYLYKIKLAIPVVSY-GVDYD-LKYPIVNV---DNEKAMELAVLYLAE 108 (261)
T ss_pred cCcCEEEEeCC----CCChHHHHHHHHcCCCEEEE-cccCC-CCCCEEEE---ChHHHHHHHHHHHHH
Confidence 46898888753 23344578888889999866 55443 23444322 344555555555543
No 175
>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=25.47 E-value=2.1e+02 Score=30.47 Aligned_cols=82 Identities=17% Similarity=0.161 Sum_probs=44.9
Q ss_pred hCCCeEEEEeCChhhH-HHHHHHHHHcCCc--eecCCcccCcccchhhhhccccCCCceeeeec-CCCCCC--CCCchHH
Q psy13427 125 YRDGIVLFVGQSAQNS-LLIEKTAQDCQEF--AHTRFWRQGMFTNSEKLFRAVTRLPDLVILTN-TLTTVL--EPNPAIG 198 (268)
Q Consensus 125 ~~~g~ILfV~t~~~~~-~~V~~~A~~~g~~--~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld-~~~~~~--~d~~aI~ 198 (268)
..+.+||+|.+...+. .++..+.+..|.. ...=++ ..+. +... .....+|.||+.. | .++. .+...+.
T Consensus 3 ~~~~~iL~ID~~DSft~nl~~~l~~~~g~~~~v~vv~~--d~~~-~~~~--~~l~~~D~VVIspGP-G~p~~~~~~~i~~ 76 (742)
T TIGR01823 3 QQRLHVLFIDSYDSFTYNVVRLLEQQTDISVHVTTVHS--DTFQ-DQLL--ELLPLFDAIVVGPGP-GNPNNAQDMGIIS 76 (742)
T ss_pred CCCceEEEEeCCcchHHHHHHHHHHhcCCCcEEEEEeC--CCCc-hhhh--hhhcCCCEEEECCCC-CCccchhhhHHHH
Confidence 3567899999986554 5666566655532 111011 1111 1110 0124689988874 3 2221 2334667
Q ss_pred HhhhhC----CCcccccc
Q psy13427 199 EAAKMC----IPTVGIVD 212 (268)
Q Consensus 199 EA~~l~----IPtIalvD 212 (268)
++.+.+ +|+.|+|=
T Consensus 77 ~i~~~~~~~~iPvLGICl 94 (742)
T TIGR01823 77 ELWELANLDEVPVLGICL 94 (742)
T ss_pred HHHHhcccCCCcEEEEch
Confidence 777765 99999884
No 176
>TIGR02195 heptsyl_trn_II lipopolysaccharide heptosyltransferase II. This family consists of examples of ADP-heptose:LPS heptosyltransferase II, an enzyme of LPS inner core region biosynthesis. LPS, composed of lipid A, a core region, and O antigen, is found in the outer membrane of Gram-negative bacteria.
Probab=24.87 E-value=3.4e+02 Score=24.86 Aligned_cols=81 Identities=12% Similarity=0.073 Sum_probs=44.1
Q ss_pred HHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHH
Q psy13427 120 VAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGE 199 (268)
Q Consensus 120 I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~E 199 (268)
+..+..++-.|+++|+...- +..+..++..+...++ +.|.+ +-.+ +-++...-|++|-. |.-+++=
T Consensus 200 i~~l~~~~~~ivl~G~~~e~-~~~~~i~~~~~~~~~~---l~g~~-sL~e-l~ali~~a~l~I~~--------DSGp~Hl 265 (334)
T TIGR02195 200 AKRLIDQGYQVVLFGSAKDH-PAGNEIEALLPGELRN---LAGET-SLDE-AVDLIALAKAVVTN--------DSGLMHV 265 (334)
T ss_pred HHHHHHCCCEEEEEEChhhH-HHHHHHHHhCCccccc---CCCCC-CHHH-HHHHHHhCCEEEee--------CCHHHHH
Confidence 33333445678888876442 3334444444322111 23332 2111 11234456666644 4678899
Q ss_pred hhhhCCCccccccCC
Q psy13427 200 AAKMCIPTVGIVDSN 214 (268)
Q Consensus 200 A~~l~IPtIalvDTn 214 (268)
|.-+|+|+|||--..
T Consensus 266 AaA~~~P~i~lfG~t 280 (334)
T TIGR02195 266 AAALNRPLVALYGST 280 (334)
T ss_pred HHHcCCCEEEEECCC
Confidence 999999999997654
No 177
>TIGR01081 mpl UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl-meso-diaminopimelate ligase. Alternate name: murein tripeptide ligase
Probab=24.85 E-value=3.5e+02 Score=26.27 Aligned_cols=62 Identities=18% Similarity=0.245 Sum_probs=35.9
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCC---CCCceeeeccCCCCchhHHH-HHHHHHH
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNC---NPNLITYPVPGNDDTPSAIQ-YYCQVFK 242 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~---~p~~IdypIP~NddS~~SI~-li~~lL~ 242 (268)
.+|+||+... +..++..+.+|.+.|||+++=.+--. ....-.+.|=|-+ +..+.. ++..+|.
T Consensus 60 ~~d~vV~Spg---I~~~~~~~~~a~~~~i~v~~~~e~~~~~~~~~~~~I~ITGT~-GKTTTt~li~~iL~ 125 (448)
T TIGR01081 60 KPDLVVIGNA---MKRGNPCVEAVLNLNLPYTSGPQWLHDFVLHDRWVLAVAGTH-GKTTTASMLAWVLE 125 (448)
T ss_pred CCCEEEECCC---CCCCCHHHHHHHHCCCCEEeHHHHHHHHHhcCCCEEEEECCC-cHHHHHHHHHHHHH
Confidence 4787765432 45678889999999999996544210 0111145666765 444443 4444443
No 178
>COG0028 IlvB Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=24.68 E-value=6.7e+02 Score=25.67 Aligned_cols=73 Identities=18% Similarity=0.210 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEeCCh---hhHHHHHHHHHHcCCceecCCcccCcccchhhhh-------c-----ccc
Q psy13427 111 ELLRDALNFVAHIAYRDGIVLFVGQSA---QNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLF-------R-----AVT 175 (268)
Q Consensus 111 ~~L~~A~~~I~~i~~~~g~ILfV~t~~---~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~-------~-----~~~ 175 (268)
..+++|+.+|.+- +.-++++|..- .+.+.+.+||+++|+..++.-+--|.+-.....+ + ...
T Consensus 188 ~~i~~aa~~L~~A---krPvIl~G~G~~~a~a~~~l~~lae~~~~Pv~~t~~gkg~~p~~hp~~lG~~g~~g~~~a~~~~ 264 (550)
T COG0028 188 EAIRKAAELLAEA---KRPVILAGGGVRRAGASEELRELAEKLGAPVVTTLMGKGAVPEDHPLSLGMLGMHGTKAANEAL 264 (550)
T ss_pred HHHHHHHHHHHhC---CCCEEEECCCccccccHHHHHHHHHHHCCCEEEccCcCccCCCCCccccccccccccHHHHHHh
Confidence 7788888888773 34577777643 3557889999999999888766667775544321 1 124
Q ss_pred CCCceeeeecC
Q psy13427 176 RLPDLVILTNT 186 (268)
Q Consensus 176 ~~Pdlvivld~ 186 (268)
.+-|+|+++..
T Consensus 265 ~~aDlll~vG~ 275 (550)
T COG0028 265 EEADLLLAVGA 275 (550)
T ss_pred hcCCEEEEecC
Confidence 67999999885
No 179
>PF01973 MAF_flag10: Protein of unknown function DUF115; InterPro: IPR002826 The prokaryotic proteins in this family have no known function.
Probab=24.61 E-value=2e+02 Score=24.05 Aligned_cols=74 Identities=15% Similarity=0.027 Sum_probs=42.4
Q ss_pred CCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhh-CC
Q psy13427 127 DGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKM-CI 205 (268)
Q Consensus 127 ~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l-~I 205 (268)
+..+++||+.|...+.+....+..+..++.. -|+...... ..--.||+++.+|+. ........|.... .|
T Consensus 24 ~~~~~IvgaGPSL~~~i~~lk~~~~~~~iia---~~sa~~~L~---~~gI~Pd~~v~~D~~---~~~~~~~~~~~~~~~i 94 (170)
T PF01973_consen 24 GKPAIIVGAGPSLDKNIELLKENRNKAIIIA---VNSALKALL---KNGIKPDFVVSIDPQ---FWNYEHFKEINKEFDI 94 (170)
T ss_pred CCeEEEEecCCCHHHHHHHHHhcccCcEEEE---ecHHHHHHH---HcCceEEEEEEcCCC---cchHHHHhhcccccce
Confidence 4789999999988877776655544443321 111111111 224579999999962 2223345565555 56
Q ss_pred Cccc
Q psy13427 206 PTVG 209 (268)
Q Consensus 206 PtIa 209 (268)
|.+.
T Consensus 95 ~l~~ 98 (170)
T PF01973_consen 95 PLFF 98 (170)
T ss_pred EEEE
Confidence 6554
No 180
>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=24.26 E-value=7.3e+02 Score=24.86 Aligned_cols=108 Identities=17% Similarity=0.156 Sum_probs=59.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCC-ceecCCcccCcccchhhhhccccCCCceeee
Q psy13427 105 DLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQE-FAHTRFWRQGMFTNSEKLFRAVTRLPDLVIL 183 (268)
Q Consensus 105 nL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~-~~i~~rW~gG~LTN~~~~~~~~~~~Pdlviv 183 (268)
..+|=...|.+|+..+..- ..+-++.++|..+.- ..+++.++..+. ..+ .|.| ..+.... ...-|+++.
T Consensus 329 ~~~Kg~~~li~A~~~l~~~-~p~~~l~i~G~G~~~-~~l~~~i~~~~l~~~V--~f~G--~~~~~~~----~~~adv~v~ 398 (500)
T TIGR02918 329 AKEKHIDWLVKAVVKAKKS-VPELTFDIYGEGGEK-QKLQKIINENQAQDYI--HLKG--HRNLSEV----YKDYELYLS 398 (500)
T ss_pred ccccCHHHHHHHHHHHHhh-CCCeEEEEEECchhH-HHHHHHHHHcCCCCeE--EEcC--CCCHHHH----HHhCCEEEE
Confidence 3444445566666555432 234456778877654 345666666553 223 2444 2343332 234566555
Q ss_pred ecCCCCCCCCCchHHHhhhhCCCccccccCC-CCCCce-----eeeccC
Q psy13427 184 TNTLTTVLEPNPAIGEAAKMCIPTVGIVDSN-CNPNLI-----TYPVPG 226 (268)
Q Consensus 184 ld~~~~~~~d~~aI~EA~~l~IPtIalvDTn-~~p~~I-----dypIP~ 226 (268)
..- ...-..++.||..+|.|+||- |.. ..++.| -|.+|.
T Consensus 399 pS~---~Egfgl~~lEAma~G~PVI~~-dv~~G~~eiI~~g~nG~lv~~ 443 (500)
T TIGR02918 399 AST---SEGFGLTLMEAVGSGLGMIGF-DVNYGNPTFIEDNKNGYLIPI 443 (500)
T ss_pred cCc---cccccHHHHHHHHhCCCEEEe-cCCCCCHHHccCCCCEEEEeC
Confidence 431 122358899999999999984 443 334433 366664
No 181
>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=24.26 E-value=1.4e+02 Score=26.81 Aligned_cols=64 Identities=16% Similarity=0.191 Sum_probs=36.4
Q ss_pred cCCCceeeeecCCCCCCCC--CchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEP--NPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTA 244 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d--~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~a 244 (268)
.+.+|.||+... ..+ ..+++++...|||+|.+ |+..+.....++.-+ .|...+-......|.+.
T Consensus 54 ~~~~DgiIi~~~----~~~~~~~~~~~~~~~~iPvV~v-~~~~~~~~~~~~~v~-~D~~~~g~~a~~~l~~~ 119 (298)
T cd06302 54 AQGVDAIAVVPN----DPDALEPVLKKAREAGIKVVTH-DSDVQPDNRDYDIEQ-ADNKAIGETLMDSLAEQ 119 (298)
T ss_pred hcCCCEEEEecC----CHHHHHHHHHHHHHCCCeEEEE-cCCCCCCcceeEEec-cCHHHHHHHHHHHHHHH
Confidence 356999998642 222 35678888999999876 554332112222222 23455555555555544
No 182
>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=24.24 E-value=67 Score=27.72 Aligned_cols=98 Identities=14% Similarity=0.075 Sum_probs=51.8
Q ss_pred HHHHHHHHHcCCceecCCcccCcccchh--hhhc-cccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCC--C
Q psy13427 141 LLIEKTAQDCQEFAHTRFWRQGMFTNSE--KLFR-AVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSN--C 215 (268)
Q Consensus 141 ~~V~~~A~~~g~~~i~~rW~gG~LTN~~--~~~~-~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn--~ 215 (268)
.-+++.|+..|..+..- ..+..+-.. .... ...+-||.||+.-+ ++..-...+.+|...|||+|.+ |++ .
T Consensus 18 ~g~~~~a~~~g~~~~~~--~~~~~d~~~q~~~i~~~i~~~~d~Iiv~~~--~~~~~~~~l~~~~~~gIpvv~~-d~~~~~ 92 (257)
T PF13407_consen 18 KGAKAAAKELGYEVEIV--FDAQNDPEEQIEQIEQAISQGVDGIIVSPV--DPDSLAPFLEKAKAAGIPVVTV-DSDEAP 92 (257)
T ss_dssp HHHHHHHHHHTCEEEEE--EESTTTHHHHHHHHHHHHHTTESEEEEESS--STTTTHHHHHHHHHTTSEEEEE-SSTHHT
T ss_pred HHHHHHHHHcCCEEEEe--CCCCCCHHHHHHHHHHHHHhcCCEEEecCC--CHHHHHHHHHHHhhcCceEEEE-eccccc
Confidence 44567777777654321 122222211 1111 23456999887642 1233457899999999999885 666 3
Q ss_pred CCCceeeeccCCCCchhHHHHHHHHHHHHHH
Q psy13427 216 NPNLITYPVPGNDDTPSAIQYYCQVFKTAIL 246 (268)
Q Consensus 216 ~p~~IdypIP~NddS~~SI~li~~lL~~aIl 246 (268)
+.....|.=+ | ....-......+.+...
T Consensus 93 ~~~~~~~v~~-d--~~~~G~~~a~~l~~~~~ 120 (257)
T PF13407_consen 93 DSPRAAYVGT-D--NYEAGKLAAEYLAEKLG 120 (257)
T ss_dssp TSTSSEEEEE----HHHHHHHHHHHHHHHHT
T ss_pred cccceeeeec-c--HHHHHHHHHHHHHHHhc
Confidence 3444444433 2 33333444444544443
No 183
>PRK11009 aphA acid phosphatase/phosphotransferase; Provisional
Probab=24.06 E-value=5.5e+02 Score=23.31 Aligned_cols=113 Identities=14% Similarity=0.130 Sum_probs=58.8
Q ss_pred ecHHHHHHHHHH-----------HHHHHHHHHhCCCeEEEEeCChh--hHHHHHHHHHHcCCceec--CCcccCcccchh
Q psy13427 104 FDLDQSAELLRD-----------ALNFVAHIAYRDGIVLFVGQSAQ--NSLLIEKTAQDCQEFAHT--RFWRQGMFTNSE 168 (268)
Q Consensus 104 InL~~T~~~L~~-----------A~~~I~~i~~~~g~ILfV~t~~~--~~~~V~~~A~~~g~~~i~--~rW~gG~LTN~~ 168 (268)
++=+..|....+ |..++..+..++.+|.||++|.+ ....++.+.+..|..+.. .-.++|.-....
T Consensus 96 ~~~~~fw~~y~~~~~~~a~p~~Ga~elL~~L~~~G~~I~iVTnR~~~k~~~t~~~Llk~~gip~~~~f~vil~gd~~~K~ 175 (237)
T PRK11009 96 LKNQKFWEKMNNGWDEFSIPKEVARQLIDMHVKRGDSIYFITGRTATKTETVSKTLADDFHIPADNMNPVIFAGDKPGQY 175 (237)
T ss_pred cChHHHHHHHHhcccccCcchHHHHHHHHHHHHCCCeEEEEeCCCCcccHHHHHHHHHHcCCCcccceeEEEcCCCCCCC
Confidence 444555665555 67788888778888888888763 334455566656652111 123444322101
Q ss_pred hhhccccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceee-eccCC
Q psy13427 169 KLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITY-PVPGN 227 (268)
Q Consensus 169 ~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~Idy-pIP~N 227 (268)
.... .....++.+++. |...| +.-|...|+++|++.-.-. + .| |+|-|
T Consensus 176 ~K~~-~l~~~~i~I~IG---Ds~~D---i~aA~~AGi~~I~v~~G~~-~---~~~~~~~~ 224 (237)
T PRK11009 176 TKTQ-WLKKKNIRIFYG---DSDND---ITAAREAGARGIRILRAAN-S---TYKPLPQA 224 (237)
T ss_pred CHHH-HHHhcCCeEEEc---CCHHH---HHHHHHcCCcEEEEecCCC-C---CCCccccc
Confidence 0000 112344444443 12233 3346778999998854422 2 23 77765
No 184
>PF08484 Methyltransf_14: C-methyltransferase C-terminal domain; InterPro: IPR013691 This domain is found in bacterial C-methyltransferase proteins, often together with other methyltransferase domains such as IPR013216 from INTERPRO or IPR013217 from INTERPRO. ; PDB: 4E2X_A 3NDJ_A 3NDI_A 4E32_A 4E33_A 4E31_A 4E2Y_A 4E2W_A 4E2Z_A 4E30_A.
Probab=23.96 E-value=3e+02 Score=23.44 Aligned_cols=71 Identities=17% Similarity=0.142 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcC-Ccee-c------CCcccCccc---chhhhhccccCCCcee
Q psy13427 113 LRDALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQ-EFAH-T------RFWRQGMFT---NSEKLFRAVTRLPDLV 181 (268)
Q Consensus 113 L~~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g-~~~i-~------~rW~gG~LT---N~~~~~~~~~~~Pdlv 181 (268)
-.....++..+..++++|...|....+.-++.-+-.... ..|+ . |+++||+-- .... -..+.||.+
T Consensus 54 ~~~l~~~L~~~~~~gk~I~~yGA~~kg~tlln~~g~~~~~I~~vvD~np~K~G~~~PGt~ipI~~p~~---l~~~~pd~v 130 (160)
T PF08484_consen 54 KAELREFLEKLKAEGKRIAGYGAGAKGNTLLNYFGLDNDLIDYVVDDNPLKQGKYLPGTHIPIVSPEE---LKERKPDYV 130 (160)
T ss_dssp HHHHHHHHHHHHHTT--EEEE---SHHHHHHHHHT--TTTS--EEES-GGGTTEE-TTT--EEEEGGG-----SS--SEE
T ss_pred HHHHHHHHHHHHHcCCEEEEECcchHHHHHHHHhCCCcceeEEEEeCChhhcCcccCCCCCeECCHHH---HhhCCCCEE
Confidence 334456666776788889999988877644332211121 2233 2 677777422 2222 124679999
Q ss_pred eeecC
Q psy13427 182 ILTNT 186 (268)
Q Consensus 182 ivld~ 186 (268)
+|+.+
T Consensus 131 ivlaw 135 (160)
T PF08484_consen 131 IVLAW 135 (160)
T ss_dssp EES-G
T ss_pred EEcCh
Confidence 99875
No 185
>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=23.80 E-value=3.2e+02 Score=20.49 Aligned_cols=53 Identities=19% Similarity=0.289 Sum_probs=30.1
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTAI 245 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~aI 245 (268)
.-.||+||..+- ...........++||++.+... +. .+...+.-....++...
T Consensus 59 ~l~pDlvi~~~~-----~~~~~~~~l~~~~i~~~~~~~~-~~------------~~~~~~~~~i~~lg~~~ 111 (148)
T cd00636 59 ALKPDLIIANGS-----GLEAWLDKLSKIAIPVVVVDEA-SE------------LSLENIKESIRLIGKAL 111 (148)
T ss_pred ccCCCEEEEecc-----cchhHHHHHHHhCCCEEEECCC-Cc------------CCHHHHHHHHHHHHHHH
Confidence 348999988652 1222344556778899776432 21 35555555555555544
No 186
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=23.77 E-value=1.7e+02 Score=27.22 Aligned_cols=61 Identities=11% Similarity=0.035 Sum_probs=34.9
Q ss_pred cCCCceeeeecCCCCCCCCC--chHHHhhhhCCCccccccCCCCCC-ceeeeccCCCCchhHHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPN--PAIGEAAKMCIPTVGIVDSNCNPN-LITYPVPGNDDTPSAIQYYCQVFKTA 244 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~--~aI~EA~~l~IPtIalvDTn~~p~-~IdypIP~NddS~~SI~li~~lL~~a 244 (268)
.+.+|.||+... ..+. ..+ ++...|||+|.+ |++.++. .+++.-+ |...+-+.....|.+.
T Consensus 102 ~~~vdgIIl~~~----~~~~~~~~l-~~~~~giPvV~~-~~~~~~~~~~~~V~~---D~~~~g~~aa~~L~~~ 165 (343)
T PRK10936 102 AWGADAILLGAV----TPDGLNPDL-ELQAANIPVIAL-VNGIDSPQVTTRVGV---SWYQMGYQAGRYLAQW 165 (343)
T ss_pred HhCCCEEEEeCC----ChHHhHHHH-HHHHCCCCEEEe-cCCCCCccceEEEec---ChHHHHHHHHHHHHHH
Confidence 356898887642 2222 345 788889999987 3333332 2345432 4455555555666554
No 187
>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=23.75 E-value=2e+02 Score=24.83 Aligned_cols=62 Identities=15% Similarity=0.146 Sum_probs=34.7
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC--CceeeeccCCCCchhHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP--NLITYPVPGNDDTPSAIQYYCQVFK 242 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p--~~IdypIP~NddS~~SI~li~~lL~ 242 (268)
.+.+|.+|+... . .......+.++...+||+|.+ |++.+. ..+.+... | ...+.......|.
T Consensus 54 ~~~vdgiii~~~-~-~~~~~~~~~~l~~~~iPvv~~-~~~~~~~~~~~~~V~~-d--~~~~g~~~~~~l~ 117 (272)
T cd06301 54 AQGVDAIIVVPV-D-TAATAPIVKAANAAGIPLVYV-NRRPENAPKGVAYVGS-D--EVVAGRLQAEYVA 117 (272)
T ss_pred HcCCCEEEEecC-c-hhhhHHHHHHHHHCCCeEEEe-cCCCCCCCCeeEEEec-C--hHHHHHHHHHHHH
Confidence 346888887642 1 112245678889999999966 554433 34555433 2 2334444444443
No 188
>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=23.74 E-value=2.4e+02 Score=23.58 Aligned_cols=33 Identities=12% Similarity=0.132 Sum_probs=19.0
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhCC------CccccccC
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMCI------PTVGIVDS 213 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~I------PtIalvDT 213 (268)
.||.+++.+. .....+++.+...|+ +++|+-++
T Consensus 178 ~~~~i~~~~~----~~a~~~~~~~~~~g~~i~~~i~i~~~d~~ 216 (264)
T cd01537 178 DPTAIFAAND----DMALGALRALREAGLRVPDDISVIGFDGT 216 (264)
T ss_pred CCCEEEEcCc----HHHHHHHHHHHHhCCCCCCCeEEEeecCc
Confidence 4888888762 122335666666665 55655444
No 189
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=23.54 E-value=4e+02 Score=23.61 Aligned_cols=33 Identities=18% Similarity=0.102 Sum_probs=19.1
Q ss_pred CCceeeeecCCCCCCCCC-chHHHhhhhC---CCccccccCC
Q psy13427 177 LPDLVILTNTLTTVLEPN-PAIGEAAKMC---IPTVGIVDSN 214 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~-~aI~EA~~l~---IPtIalvDTn 214 (268)
.|+.++..+. .-. .+++++...| +++||+-|+.
T Consensus 207 ~~~ai~~~~d-----~~A~g~l~al~~~G~~dv~vig~d~~~ 243 (295)
T PRK10653 207 DVQAVFAQND-----EMALGALRALQTAGKSDVMVVGFDGTP 243 (295)
T ss_pred CcCEEEECCC-----hhHHHHHHHHHHcCCCceEEEEeCCCH
Confidence 4678777651 112 2456666666 4666776664
No 190
>PF12138 Spherulin4: Spherulation-specific family 4; InterPro: IPR021986 This protein is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 250 and 398 amino acids in length. There is a conserved NPG sequence motif and there are two completely conserved G residues that may be functionally important. Starvation will often induce spherulation - the production of spores - and this process may involve DNA-methylation. Changes in the methylation of spherulin4 are associated with the formation of spherules, but these changes are probably transient. Methylation of the gene accompanies its transcriptional activation, and spherulin4 mRNA is only detectable in late spherulating cultures and mature spherules. It is a spherulation-specific protein.
Probab=23.42 E-value=82 Score=28.98 Aligned_cols=50 Identities=12% Similarity=0.237 Sum_probs=35.0
Q ss_pred chhhhhccccCCCc--eeeeecCCCCCC------CCCchHHHhhhh----CCCccccccCCC
Q psy13427 166 NSEKLFRAVTRLPD--LVILTNTLTTVL------EPNPAIGEAAKM----CIPTVGIVDSNC 215 (268)
Q Consensus 166 N~~~~~~~~~~~Pd--lvivld~~~~~~------~d~~aI~EA~~l----~IPtIalvDTn~ 215 (268)
.|...+.+...-|+ .++|+||.+.|- .|..=+.++.++ |+.+||=|+|+-
T Consensus 17 ~W~~l~~a~~~~p~~~f~vIiNP~sGPG~~~~~~pd~~Y~~~i~~L~~~~nv~vlGYV~T~Y 78 (253)
T PF12138_consen 17 AWDPLYDAIAAHPSVPFTVIINPNSGPGSAPDPWPDANYAAAIPRLNSYANVRVLGYVHTSY 78 (253)
T ss_pred chHHHHHHHhcCCCCcEEEEEcCCCCCCCCCCCCCCHHHHHHHHHHHhcCCCcEEEEEEccc
Confidence 46665544455555 478999988765 444556666666 999999999964
No 191
>PRK12319 acetyl-CoA carboxylase subunit alpha; Provisional
Probab=23.38 E-value=43 Score=30.98 Aligned_cols=21 Identities=19% Similarity=0.306 Sum_probs=18.0
Q ss_pred chHHHhhhhCCCccccccCCC
Q psy13427 195 PAIGEAAKMCIPTVGIVDSNC 215 (268)
Q Consensus 195 ~aI~EA~~l~IPtIalvDTn~ 215 (268)
..++-|.+.++|+|.|+||--
T Consensus 89 R~~~lA~~~~lPvV~lvDtpG 109 (256)
T PRK12319 89 RLMKQAEKFGRPVVTFINTAG 109 (256)
T ss_pred HHHHHHHHcCCCEEEEEECCC
Confidence 467788899999999999954
No 192
>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=23.25 E-value=3.5e+02 Score=23.56 Aligned_cols=40 Identities=30% Similarity=0.390 Sum_probs=23.3
Q ss_pred cchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhh-hCCCccccc
Q psy13427 165 TNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAK-MCIPTVGIV 211 (268)
Q Consensus 165 TN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~-l~IPtIalv 211 (268)
.|...+ ..-.||+||.... ........+... +|||++.+-
T Consensus 65 ~n~E~i---~~l~PDLIi~~~~----~~~~~~~~~l~~~~gipvv~~~ 105 (262)
T cd01147 65 PNYEKI---AALKPDVVIDVGS----DDPTSIADDLQKKTGIPVVVLD 105 (262)
T ss_pred CCHHHH---HhcCCCEEEEecC----CccchhHHHHHHhhCCCEEEEe
Confidence 466654 2457999998652 111112333433 899998874
No 193
>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=22.91 E-value=2.2e+02 Score=24.77 Aligned_cols=60 Identities=20% Similarity=0.122 Sum_probs=35.1
Q ss_pred CCceeeeecCCCCCCCC--CchHHHhhhhCCCccccccCCC-CCCceeeeccCCCCchhHHHHHHHHHHHH
Q psy13427 177 LPDLVILTNTLTTVLEP--NPAIGEAAKMCIPTVGIVDSNC-NPNLITYPVPGNDDTPSAIQYYCQVFKTA 244 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d--~~aI~EA~~l~IPtIalvDTn~-~p~~IdypIP~NddS~~SI~li~~lL~~a 244 (268)
.+|.+++... ..+ ..+++++.+.|||+|.+ |.+. +...+.|.- . |...+-....+.|.+.
T Consensus 58 ~vdgiii~~~----~~~~~~~~i~~~~~~~ipvV~~-~~~~~~~~~~~~V~-~--d~~~~g~~~~~~l~~~ 120 (275)
T cd06307 58 RSDGVALVAP----DHPQVRAAVARLAAAGVPVVTL-VSDLPGSPRAGYVG-I--DNRAAGRTAAWLIGRF 120 (275)
T ss_pred cCCEEEEeCC----CcHHHHHHHHHHHHCCCcEEEE-eCCCCCCceeeEEc-c--ChHHHHHHHHHHHHHH
Confidence 7898888652 112 24678888999999977 4432 223355542 2 2334445455556554
No 194
>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=22.82 E-value=2.5e+02 Score=24.50 Aligned_cols=59 Identities=12% Similarity=-0.053 Sum_probs=35.4
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYYCQVFKTA 244 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li~~lL~~a 244 (268)
+.+|.|++... ..+...+.++...|+|+|.+ |+.. ..+.+.-+ |...+.......|.+.
T Consensus 54 ~~vdgvi~~~~----~~~~~~~~~l~~~~iPvv~~-~~~~--~~~~~v~~---d~~~~g~~a~~~L~~~ 112 (269)
T cd06297 54 YLTDGLLLASY----DLTERLAERRLPTERPVVLV-DAEN--PRFDSFYL---DNRLGGRLAGAYLADF 112 (269)
T ss_pred cCCCEEEEecC----ccChHHHHHHhhcCCCEEEE-ccCC--CCCCEEEE---CcHHHHHHHHHHHHHh
Confidence 46898888752 23445678888899999888 5532 22333222 4455555555555544
No 195
>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=22.70 E-value=2.7e+02 Score=24.19 Aligned_cols=63 Identities=17% Similarity=0.107 Sum_probs=35.9
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCC--ceeeeccCCCCchhHHHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPN--LITYPVPGNDDTPSAIQYYCQVFKTA 244 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~--~IdypIP~NddS~~SI~li~~lL~~a 244 (268)
+.+|.|++... +...-..+++++...|||+|.+ |+..+.. ...|. -. |...+-.+....|.+.
T Consensus 59 ~~vDgiii~~~--~~~~~~~~i~~~~~~gIpvV~~-d~~~~~~~~~~~~V-~~--d~~~~g~~aa~~l~~~ 123 (274)
T cd06311 59 RKIDALVILPF--ESAPLTQPVAKAKKAGIFVVVV-DRGLSSPGAQDLYV-AG--DNYGMGRVAGEYIATK 123 (274)
T ss_pred cCCCEEEEeCC--CchhhHHHHHHHHHCCCeEEEE-cCCCCCCcccceEE-cC--CcHHHHHHHHHHHHHH
Confidence 56899888642 1111235688898999999986 5543322 23343 22 2344555555555554
No 196
>PRK13143 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=22.68 E-value=1.4e+02 Score=25.84 Aligned_cols=20 Identities=35% Similarity=0.320 Sum_probs=16.5
Q ss_pred CchHHHhhhhCCCccccccC
Q psy13427 194 NPAIGEAAKMCIPTVGIVDS 213 (268)
Q Consensus 194 ~~aI~EA~~l~IPtIalvDT 213 (268)
...++++...++|+.|+|-.
T Consensus 61 ~~~i~~~~~~~~PilgIC~G 80 (200)
T PRK13143 61 RDVILEAARSGKPFLGICLG 80 (200)
T ss_pred HHHHHHHHHcCCCEEEECHH
Confidence 45678888889999999974
No 197
>COG1519 KdtA 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]
Probab=22.64 E-value=3.1e+02 Score=27.41 Aligned_cols=89 Identities=20% Similarity=0.148 Sum_probs=49.9
Q ss_pred HHHHHHHHHHhC--CCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCC
Q psy13427 115 DALNFVAHIAYR--DGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLE 192 (268)
Q Consensus 115 ~A~~~I~~i~~~--~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~ 192 (268)
.|.-+|.++... +-.|++...-+.+.+. .++..+-. +...++|=-+--+...| =....||++|++.+ .-
T Consensus 64 a~~pLv~~l~~~~P~~~ilvTt~T~Tg~e~---a~~~~~~~-v~h~YlP~D~~~~v~rF-l~~~~P~l~Ii~Et----El 134 (419)
T COG1519 64 AALPLVRALRERFPDLRILVTTMTPTGAER---AAALFGDS-VIHQYLPLDLPIAVRRF-LRKWRPKLLIIMET----EL 134 (419)
T ss_pred HHHHHHHHHHHhCCCCCEEEEecCccHHHH---HHHHcCCC-eEEEecCcCchHHHHHH-HHhcCCCEEEEEec----cc
Confidence 344555555433 4456666645555554 34444432 33345443322222111 01457999999873 22
Q ss_pred CCchHHHhhhhCCCccccccC
Q psy13427 193 PNPAIGEAAKMCIPTVGIVDS 213 (268)
Q Consensus 193 d~~aI~EA~~l~IPtIalvDT 213 (268)
=...|.||.+.|+|++ ++|.
T Consensus 135 WPnli~e~~~~~~p~~-LvNa 154 (419)
T COG1519 135 WPNLINELKRRGIPLV-LVNA 154 (419)
T ss_pred cHHHHHHHHHcCCCEE-EEee
Confidence 3468999999999995 5555
No 198
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=22.62 E-value=1e+02 Score=28.16 Aligned_cols=129 Identities=16% Similarity=0.070 Sum_probs=64.2
Q ss_pred HHHHHHHHhCCCeEE-EEeCChh----hHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCC
Q psy13427 117 LNFVAHIAYRDGIVL-FVGQSAQ----NSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVL 191 (268)
Q Consensus 117 ~~~I~~i~~~~g~IL-fV~t~~~----~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~ 191 (268)
+.++..+.-+-++|. +.+.... ..+.+++.|+..|...+. ..++ ....+...+..+....|+++++....-..
T Consensus 121 l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~-~~v~-~~~~~~~~~~~l~~~~da~~~~~~~~~~~ 198 (294)
T PF04392_consen 121 LELIKKLFPDAKRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVE-IPVP-SSEDLEQALEALAEKVDALYLLPDNLVDS 198 (294)
T ss_dssp HHHHHHHSTT--EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEE-EEES-SGGGHHHHHHHHCTT-SEEEE-S-HHHHH
T ss_pred HHHHHHhCCCCCEEEEEecCCCccHHHHHHHHHHHHHHcCCEEEE-EecC-cHhHHHHHHHHhhccCCEEEEECCcchHh
Confidence 344445433346673 4444332 235566677777765432 2332 23555555555566788877654211001
Q ss_pred CCCchHHHhhhhCCCccccccCCCCC-CceeeeccCCCCchhHHHHHHHHHHHHHHhhhhhh
Q psy13427 192 EPNPAIGEAAKMCIPTVGIVDSNCNP-NLITYPVPGNDDTPSAIQYYCQVFKTAILKGKKAK 252 (268)
Q Consensus 192 ~d~~aI~EA~~l~IPtIalvDTn~~p-~~IdypIP~NddS~~SI~li~~lL~~aIl~gk~~r 252 (268)
.-...+..|...+||++|..|....- -...+.+ +....+...--++..|++|...+
T Consensus 199 ~~~~i~~~~~~~~iPv~~~~~~~v~~Gal~~~~~-----~~~~~G~~Aa~~a~~IL~G~~~~ 255 (294)
T PF04392_consen 199 NFEAILQLANEAKIPVFGSSDFYVKAGALGGYSV-----DYYEQGRQAAEMAVRILKGEKPS 255 (294)
T ss_dssp THHHHHHHCCCTT--EEESSHHHHCTT-SEEEE-------HHHHHHHHHHHHHHHCTT--GG
T ss_pred HHHHHHHHHHhcCCCEEECCHHHhcCCcEEEEcc-----CHHHHHHHHHHHHHHHHCCCCcc
Confidence 11235667888899999987654322 2244442 45666777777888888887654
No 199
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=22.62 E-value=56 Score=23.02 Aligned_cols=23 Identities=17% Similarity=0.388 Sum_probs=20.0
Q ss_pred CCchHHHhhhhCCCccccccCCC
Q psy13427 193 PNPAIGEAAKMCIPTVGIVDSNC 215 (268)
Q Consensus 193 d~~aI~EA~~l~IPtIalvDTn~ 215 (268)
....++.|...|+..+|++|.++
T Consensus 17 ~~~~~~~a~~~g~~~v~iTDh~~ 39 (67)
T smart00481 17 PEELVKRAKELGLKAIAITDHGN 39 (67)
T ss_pred HHHHHHHHHHcCCCEEEEeeCCc
Confidence 35688999999999999999973
No 200
>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=22.61 E-value=5.9e+02 Score=23.18 Aligned_cols=79 Identities=11% Similarity=0.062 Sum_probs=39.9
Q ss_pred CCeEEEEeCChh---hHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhh
Q psy13427 127 DGIVLFVGQSAQ---NSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKM 203 (268)
Q Consensus 127 ~g~ILfV~t~~~---~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l 203 (268)
+.++++++.... ....+++.+...+...-.-.|.+|.++.... ......-|++++..- ...-..++.||..+
T Consensus 229 ~~~l~i~g~g~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~--~~~~~~aDv~v~ps~---~e~~g~~~lEA~a~ 303 (388)
T TIGR02149 229 DVQVVLCAGAPDTPEVAEEVRQAVALLDRNRTGIIWINKMLPKEEL--VELLSNAEVFVCPSI---YEPLGIVNLEAMAC 303 (388)
T ss_pred cCcEEEEeCCCCcHHHHHHHHHHHHHhccccCceEEecCCCCHHHH--HHHHHhCCEEEeCCc---cCCCChHHHHHHHc
Confidence 445666654332 2233444444333211011356665554322 122345676665431 12235678999999
Q ss_pred CCCcccc
Q psy13427 204 CIPTVGI 210 (268)
Q Consensus 204 ~IPtIal 210 (268)
|+|+|+-
T Consensus 304 G~PvI~s 310 (388)
T TIGR02149 304 GTPVVAS 310 (388)
T ss_pred CCCEEEe
Confidence 9999984
No 201
>COG2071 Predicted glutamine amidotransferases [General function prediction only]
Probab=22.60 E-value=2.5e+02 Score=26.01 Aligned_cols=89 Identities=15% Similarity=0.084 Sum_probs=47.7
Q ss_pred HHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCC
Q psy13427 115 DALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPN 194 (268)
Q Consensus 115 ~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~ 194 (268)
..+.++..+...+|.-+++- -..-...+.........-.++ || .|-.-.+-+-..-++.-- .||--| ..+.
T Consensus 27 ~~~~yv~ai~~aGg~pillP-~~~d~~~~~~~l~~iDglilt----Gg--~nV~P~~YGee~~~~~~~-~~p~RD-~~E~ 97 (243)
T COG2071 27 LPYDYVDAIIKAGGIPILLP-ALEDPEDARQYLDLIDGLILT----GG--SNVDPSLYGEEPSEKDGP-YDPERD-AFEL 97 (243)
T ss_pred HHHHHHHHHHHcCCceEEec-CCCCHHHHHHHHhhccEEEec----CC--CcCCHHHcCCCCCcccCC-CCcccc-HHHH
Confidence 45677888878888777665 111233444455554433332 34 443332212111222211 333111 1245
Q ss_pred chHHHhhhhCCCcccccc
Q psy13427 195 PAIGEAAKMCIPTVGIVD 212 (268)
Q Consensus 195 ~aI~EA~~l~IPtIalvD 212 (268)
..|++|...|||+.|||=
T Consensus 98 aLi~~ALe~~iPILgICR 115 (243)
T COG2071 98 ALIRAALERGIPILGICR 115 (243)
T ss_pred HHHHHHHHcCCCEEEEcc
Confidence 789999999999999994
No 202
>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=22.54 E-value=2.3e+02 Score=24.44 Aligned_cols=70 Identities=14% Similarity=0.130 Sum_probs=39.0
Q ss_pred EEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCC-------C-CCchH-HHh
Q psy13427 130 VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVL-------E-PNPAI-GEA 200 (268)
Q Consensus 130 ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~-------~-d~~aI-~EA 200 (268)
|++|+...+....+.+..+..|.....-+ |... ...+|+||+..+-. .. . ....+ +++
T Consensus 1 ~~~~~~~~gn~~~l~~~l~~~g~~v~v~~-------~~~~-----l~~~d~lii~G~~~-~~~~~~~l~~~~~~~l~~~~ 67 (196)
T TIGR01855 1 IVIIDYGVGNLGSVKRALKRVGAEPVVVK-------DSKE-----AELADKLILPGVGA-FGAAMARLRENGLDLFVELV 67 (196)
T ss_pred CEEEecCCcHHHHHHHHHHHCCCcEEEEc-------CHHH-----hccCCEEEECCCCC-HHHHHHHHHHcCcHHHHHHH
Confidence 35566666666667777777675433221 2221 23577777754211 00 0 01234 777
Q ss_pred hhhCCCcccccc
Q psy13427 201 AKMCIPTVGIVD 212 (268)
Q Consensus 201 ~~l~IPtIalvD 212 (268)
...+.|+.|+|=
T Consensus 68 ~~~~~pvlGiC~ 79 (196)
T TIGR01855 68 VRLGKPVLGICL 79 (196)
T ss_pred HhCCCCEEEECH
Confidence 778999999885
No 203
>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=22.51 E-value=1.2e+02 Score=27.46 Aligned_cols=114 Identities=9% Similarity=0.082 Sum_probs=55.6
Q ss_pred HHHHHHHHHHHHHHHH--------HH-hCCCeEEEEeC---ChhhH---HHHHHHHHHcCCceecCCcccCcccchhhhh
Q psy13427 107 DQSAELLRDALNFVAH--------IA-YRDGIVLFVGQ---SAQNS---LLIEKTAQDCQEFAHTRFWRQGMFTNSEKLF 171 (268)
Q Consensus 107 ~~T~~~L~~A~~~I~~--------i~-~~~g~ILfV~t---~~~~~---~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~ 171 (268)
+.|.++..+|+.-+.. +. .+...|.++-. ++++. ..+++.|+..|...+.. ...+.-.......
T Consensus 31 ~~tr~rV~~~a~~lgY~pn~~a~~l~~~~~~~Igvi~~~~~~~~~~~~~~~i~~~~~~~gy~~~i~-~~~~~~~~~~~~~ 109 (327)
T TIGR02417 31 QETVERVMAVVREQGYQPNIHAASLRAGRSRTIGLVIPDLENYSYARIAKELEQQCREAGYQLLIA-CSDDNPDQEKVVI 109 (327)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHhhcCCCceEEEEeCCCCCccHHHHHHHHHHHHHHCCCEEEEE-eCCCCHHHHHHHH
Confidence 5677777777755422 11 12345555432 33444 33455666666432221 1111100001111
Q ss_pred cc-ccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeecc
Q psy13427 172 RA-VTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVP 225 (268)
Q Consensus 172 ~~-~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP 225 (268)
.. ..+..|.+|+.... ..+...+.++...+||+|.+ |.+.+...+++..+
T Consensus 110 ~~l~~~~vdgiIi~~~~---~~~~~~~~~l~~~~iPvV~~-~~~~~~~~~~~V~~ 160 (327)
T TIGR02417 110 ENLLARQVDALIVASCM---PPEDAYYQKLQNEGLPVVAL-DRSLDDEHFCSVIS 160 (327)
T ss_pred HHHHHcCCCEEEEeCCC---CCChHHHHHHHhcCCCEEEE-ccccCCCCCCEEEe
Confidence 11 23568988876421 11345678888889999854 66543333555544
No 204
>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=22.38 E-value=2.4e+02 Score=20.29 Aligned_cols=40 Identities=13% Similarity=0.044 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCcee
Q psy13427 115 DALNFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAH 155 (268)
Q Consensus 115 ~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i 155 (268)
++.+.+..+ ..|..+.++.+.+.+..-|.++|+..|..++
T Consensus 15 ~~kkal~~l-~~G~~l~V~~d~~~s~~ni~~~~~~~g~~v~ 54 (69)
T cd03422 15 ATLEALPSL-KPGEILEVISDCPQSINNIPIDARNHGYKVL 54 (69)
T ss_pred HHHHHHHcC-CCCCEEEEEecCchHHHHHHHHHHHcCCEEE
Confidence 334444444 4556677788888999999999999997765
No 205
>COG0112 GlyA Glycine/serine hydroxymethyltransferase [Amino acid transport and metabolism]
Probab=22.16 E-value=1.3e+02 Score=29.85 Aligned_cols=72 Identities=18% Similarity=0.222 Sum_probs=45.7
Q ss_pred HhcCceeccccCC--CCCCCCCCcccccCCeEEecHHHHHHHHHHHHHHHHHHHhCCCeEEEEeCChhhH----HHHHHH
Q psy13427 73 FDAKVHLGHKIGS--LDERMKPYIYGVRQGQIIFDLDQSAELLRDALNFVAHIAYRDGIVLFVGQSAQNS----LLIEKT 146 (268)
Q Consensus 73 l~a~vHlGh~~~~--~np~M~~yIyg~R~gi~IInL~~T~~~L~~A~~~I~~i~~~~g~ILfV~t~~~~~----~~V~~~ 146 (268)
+.+|.||+|.... --..++.+=|+.......||.+...+..+ +.+-++++.|...+.+ +-.++.
T Consensus 120 l~~GGHltHg~~v~~sG~~~~~v~Y~vd~et~~IDyD~~~k~a~----------e~kPK~ii~G~SaY~r~id~~~~reI 189 (413)
T COG0112 120 LSHGGHLTHGSPVNFSGKLFNVVSYGVDPETGLIDYDEVEKLAK----------EVKPKLIIAGGSAYSRPIDFKRFREI 189 (413)
T ss_pred CCCCCcccCCCCCCccceeEEeEecccccccCccCHHHHHHHHH----------HhCCCEEEECccccccccCHHHHHHH
Confidence 5679999998321 01234566778888888999987754433 2334455666654432 345678
Q ss_pred HHHcCCce
Q psy13427 147 AQDCQEFA 154 (268)
Q Consensus 147 A~~~g~~~ 154 (268)
|..+|++.
T Consensus 190 ad~VGA~L 197 (413)
T COG0112 190 ADEVGAYL 197 (413)
T ss_pred HHHhCceE
Confidence 88888764
No 206
>TIGR02201 heptsyl_trn_III lipopolysaccharide heptosyltransferase III, putative. This family consists of examples of the putative ADP-heptose:LPS heptosyltransferase III, an enzyme of LPS inner core region biosynthesis. LPS, composed of lipid A, a core region, and O antigen, is found in the outer membrane of Gram-negative bacteria. This enzyme may be less widely distributed than heptosyltransferases I and II.
Probab=22.12 E-value=4.2e+02 Score=24.44 Aligned_cols=22 Identities=18% Similarity=0.216 Sum_probs=18.6
Q ss_pred CCCchHHHhhhhCCCccccccC
Q psy13427 192 EPNPAIGEAAKMCIPTVGIVDS 213 (268)
Q Consensus 192 ~d~~aI~EA~~l~IPtIalvDT 213 (268)
.|.-+++=|.-+|+|+|||--.
T Consensus 267 ~DSGp~HlAaA~g~p~v~Lfgp 288 (344)
T TIGR02201 267 VDSVPMHMAAALGTPLVALFGP 288 (344)
T ss_pred cCCHHHHHHHHcCCCEEEEECC
Confidence 3567999999999999999754
No 207
>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=22.08 E-value=1.7e+02 Score=26.26 Aligned_cols=69 Identities=17% Similarity=0.228 Sum_probs=32.0
Q ss_pred CcccCcccchhh-----hhccccCCCceeeeecCCC--CCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCC
Q psy13427 158 FWRQGMFTNSEK-----LFRAVTRLPDLVILTNTLT--TVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGN 227 (268)
Q Consensus 158 rW~gG~LTN~~~-----~~~~~~~~Pdlvivld~~~--~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~N 227 (268)
-++||.|.=... .+..+...||+++| |-.. .+..--.|-.-+-.+++||||+.-+----....+..|.+
T Consensus 65 PYiPG~LafRE~P~~l~~l~~l~~~~dvilv-DG~G~~HpR~~GlA~HlGv~l~iPtIGVAK~~l~g~~~~~~~~~~ 140 (206)
T PF04493_consen 65 PYIPGFLAFRELPCILEALEKLKNKPDVILV-DGHGILHPRRFGLASHLGVLLDIPTIGVAKSLLYGDGEEFEEPGR 140 (206)
T ss_dssp -SSTT-GGGGTHHHHHHHHHTSSS--SCEEE-ES-SSSSTTS--HHHHHHHHHTS-EEEEESS-TTSTT-EE----S
T ss_pred CccCCceehhhHHHHHHHHHHhcccCCEEEE-eCceeecCCCcChhheeeeccCCCEEEEeCcccccCCcccchhcc
Confidence 366776653321 12345678996554 4211 123344677778889999999976644333334444444
No 208
>TIGR00287 cas1 CRISPR-associated endonuclease Cas1. This model identifies CRISPR-associated protein Cas1, the most universal CRISPR system protein. CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, a system for heritable host defense by prokaryotic cells against phage and other foreign DNA. Cas1 is a metal-dependent DNA-specific endonuclease.
Probab=22.04 E-value=3.2e+02 Score=25.59 Aligned_cols=74 Identities=20% Similarity=0.097 Sum_probs=45.4
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHH--------HHHHHHHHHHhh
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQY--------YCQVFKTAILKG 248 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~l--------i~~lL~~aIl~g 248 (268)
.-|.|++... +.-...|+++|.+.|||+ .+||.+-.|...-+|-..+..+..-... .-.-+++.|..|
T Consensus 34 ~i~~I~i~g~---~~lst~~l~~l~~~~I~v-~f~~~~g~~~g~~~p~~~~~~~~~~~~Q~~~~~~~~~~l~iar~ii~~ 109 (323)
T TIGR00287 34 NVDCIVLFGG---VSISSAAIRELAKRGIDI-VFLGGDGNYLGRLSPQESGSTVELRLAQVKAYLDEEKRLKLAKEFVSG 109 (323)
T ss_pred hccEEEEECC---CCcCHHHHHHHHHCCCeE-EEECCCCcEEEEEecCccCCcHHHHHHHHHHhcChhHHHHHHHHHHHH
Confidence 3455666542 345578999999999998 6789888887666663333322211111 122466777777
Q ss_pred hhhhHh
Q psy13427 249 KKAKQD 254 (268)
Q Consensus 249 k~~r~~ 254 (268)
|...+.
T Consensus 110 Ki~Nq~ 115 (323)
T TIGR00287 110 KIANQA 115 (323)
T ss_pred HHHHHH
Confidence 776553
No 209
>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=21.71 E-value=2.1e+02 Score=24.99 Aligned_cols=34 Identities=9% Similarity=0.064 Sum_probs=23.8
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCcccc
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGI 210 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIal 210 (268)
.+.+|.+|+..+ +......+++++...|||+|.+
T Consensus 52 ~~~~dgiii~~~--~~~~~~~~~~~~~~~~iPvV~~ 85 (289)
T cd01540 52 AQGAKGFVICVP--DVKLGPAIVAKAKAYNMKVVAV 85 (289)
T ss_pred HcCCCEEEEccC--chhhhHHHHHHHHhCCCeEEEe
Confidence 356898888642 1112345688999999999987
No 210
>PRK14573 bifunctional D-alanyl-alanine synthetase A/UDP-N-acetylmuramate--L-alanine ligase; Provisional
Probab=21.70 E-value=2.5e+02 Score=29.88 Aligned_cols=64 Identities=13% Similarity=0.121 Sum_probs=38.3
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCC--CCceeeeccCCCCchhHHHHHHHHHHH
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCN--PNLITYPVPGNDDTPSAIQYYCQVFKT 243 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~--p~~IdypIP~NddS~~SI~li~~lL~~ 243 (268)
.+|+||+... +..++..+.+|.+.|||+++=.+--.. ...-.+.|-|-+=-..-..++.++|..
T Consensus 63 ~~d~vV~Spg---I~~~~p~~~~a~~~gi~v~~~~el~~~~~~~~~~IaITGTnGKTTTt~li~~iL~~ 128 (809)
T PRK14573 63 EDAVVVYSSS---ISKDNVEYLSAKSRGNRLVHRAELLAELMQEQISILVSGSHGKTTVSSLITAIFQE 128 (809)
T ss_pred CCCEEEECCC---cCCCCHHHHHHHHCCCcEEeHHHHHHHHHcCCCEEEEECCCCHHHHHHHHHHHHHh
Confidence 4787766543 456788899999999999975443110 111246777866333334455555543
No 211
>COG1518 CRISPR-associated protein Cas1 [Defense mechanisms]
Probab=21.67 E-value=2.1e+02 Score=27.42 Aligned_cols=72 Identities=18% Similarity=0.069 Sum_probs=50.0
Q ss_pred CCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeeccCCCCchhHHHHH--------HHHHHHHHHhh
Q psy13427 177 LPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVPGNDDTPSAIQYY--------CQVFKTAILKG 248 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP~NddS~~SI~li--------~~lL~~aIl~g 248 (268)
.-+.|++... +.-.+.|++++++.|||+ .+||.+-.+...-+|-+++-.+..=+... ...+++++.+|
T Consensus 38 ~v~~I~i~~~---~siSs~av~~la~~gI~i-~f~~~~G~~~g~~~p~~~~~~~~~~~~Q~~~~~~~~krl~lAk~~i~~ 113 (327)
T COG1518 38 EVDGIVLFGG---TSISSAALRLLAKRGIPI-VFFDQYGFYLGRLSPREGLGSGLLRLKQYEAYLDDEKRLELAKKFIEG 113 (327)
T ss_pred HceEEEEeCC---CcccHHHHHHHHHcCCEE-EEECCCCCEeEEEcCcccCccHHHHHHHHHHhcChHHHHHHHHHHHHH
Confidence 3455665542 344578999999999998 78899999988889989887665544432 22355566666
Q ss_pred hhhh
Q psy13427 249 KKAK 252 (268)
Q Consensus 249 k~~r 252 (268)
|..-
T Consensus 114 ki~N 117 (327)
T COG1518 114 KILN 117 (327)
T ss_pred HHhh
Confidence 6544
No 212
>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=21.28 E-value=1.9e+02 Score=25.20 Aligned_cols=63 Identities=21% Similarity=0.153 Sum_probs=37.1
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC-CceeeeccCCCCchhHHHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP-NLITYPVPGNDDTPSAIQYYCQVFKTA 244 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p-~~IdypIP~NddS~~SI~li~~lL~~a 244 (268)
.+.+|.+|+... +.......++++.. +||+|.+ |.+.+. ..+.|.- . |...+-......|...
T Consensus 53 ~~~vDgiIi~~~--~~~~~~~~l~~~~~-~ipvV~~-~~~~~~~~~~~~V~--~-D~~~~g~~a~~~l~~~ 116 (271)
T cd06314 53 AEGVDGIAISPI--DPKAVIPALNKAAA-GIKLITT-DSDAPDSGRYVYIG--T-DNYAAGRTAGEIMKKA 116 (271)
T ss_pred hcCCCEEEEecC--ChhHhHHHHHHHhc-CCCEEEe-cCCCCccceeEEEc--c-ChHHHHHHHHHHHHHH
Confidence 356898888642 11112357788888 9999987 444322 2345542 2 3566666666666554
No 213
>PRK14089 ipid-A-disaccharide synthase; Provisional
Probab=21.16 E-value=78 Score=30.45 Aligned_cols=34 Identities=15% Similarity=0.097 Sum_probs=26.9
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhh--CCCccccc
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKM--CIPTVGIV 211 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l--~IPtIalv 211 (268)
...||++|++|- |.-|....+.+++. |||+|-.+
T Consensus 74 ~~~pd~~i~iD~---p~Fnl~lak~~k~~~~~i~viyyi 109 (347)
T PRK14089 74 AKQADKVLLMDS---SSFNIPLAKKIKKAYPKKEIIYYI 109 (347)
T ss_pred hcCCCEEEEeCC---CCCCHHHHHHHHhcCCCCCEEEEE
Confidence 368999999994 55677788889888 69997544
No 214
>PF03345 DDOST_48kD: Oligosaccharyltransferase 48 kDa subunit beta; InterPro: IPR005013 During N-linked glycosylation of proteins, oligosaccharide chains are assembled on the carrier molecule dolichyl pyrophosphate in the following order: 2 molecules of N-acetylglucosamine (GlcNAc), 9 molecules of mannose, and 3 molecules of glucose. These 14-residue oligosaccharide cores are then transferred to asparagine residues on nascent polypeptide chains in the endoplasmic reticulum (ER). As proteins progress through the Golgi apparatus, the oligosaccharide cores are modified by trimming and extension to generate a diverse array of glycosylated proteins [, ]. The oligosaccharyl transferase complex (OST complex) 2.4.1.119 from EC transfers 14-sugar branched oligosaccharides from dolichyl pyrophosphate to asparagine residues []. The complex contains nine protein subunits: Ost1p, Ost2p, Ost3p, Ost4p, Ost5p, Ost6p, Stt3p, Swp1p, and Wbp1p, all of which are integral membrane proteins of the ER. The OST complex interacts with the Sec61p pore complex [] involved in protein import into the ER. This entry represents subunits OST3 and OST6. OST3 is homologous to OST6 [], and several lines of evidence indicate that they are alternative members of the OST complex. Disruption of both OST3 and OST6 causes severe underglycosylation of soluble and membrane-bound glycoproteins and a defect in the assembly of the complex. Hence, the function of these genes seems to be essential for recruiting a fully active complex necessary for efficient N-glycosylation []. This entry also includes the magnesium transporter protein 1, also known as OST3 homologue B, which might be involved in N-glycosylation through its association with the oligosaccharyl transferase (OST) complex. Wbp1p is the beta subunit of the OST complex, one of the original six subunits purified []. Wbp1 is essential [, ], but conditional mutants have decreased transferase activity [, ]. Wbp1p is homologous to mammalian OST48 [].; GO: 0004579 dolichyl-diphosphooligosaccharide-protein glycotransferase activity, 0018279 protein N-linked glycosylation via asparagine, 0005789 endoplasmic reticulum membrane
Probab=21.16 E-value=1.5e+02 Score=29.63 Aligned_cols=82 Identities=20% Similarity=0.177 Sum_probs=51.7
Q ss_pred HHHHhcCceeccccCCCCCCCCCCcccccC--CeEEecHHHHHHHHH--HHHHHHHHHHhCCCeEEEEeCChhhHHHHHH
Q psy13427 70 KDMFDAKVHLGHKIGSLDERMKPYIYGVRQ--GQIIFDLDQSAELLR--DALNFVAHIAYRDGIVLFVGQSAQNSLLIEK 145 (268)
Q Consensus 70 ~~Ll~a~vHlGh~~~~~np~M~~yIyg~R~--gi~IInL~~T~~~L~--~A~~~I~~i~~~~g~ILfV~t~~~~~~~V~~ 145 (268)
++|=+.|--+--+... ++...-|-||.|. ++-|+.... +.+- .-.+-|.....+||.||++.+.....+.+..
T Consensus 19 ~~L~~rg~~l~~~~~~-d~~l~L~~~ge~~YD~LIif~~~~--k~~g~~ls~~~ll~Fvd~GgNilv~~s~~~~~~~ir~ 95 (423)
T PF03345_consen 19 NSLKERGYELTFKSAD-DESLSLFKYGERLYDHLIIFPPSV--KEFGGSLSPKTLLDFVDNGGNILVAGSSDAIPDSIRE 95 (423)
T ss_pred HHHHhCCCEEEEecCC-CCCcchhhCChhhcceEEEeCCcc--cccCCCCCHHHHHHHHhCCCcEEEEeCCCcCcHHHHH
Confidence 3444445545333321 3566677788886 565555432 2222 1234555566899999998877767789999
Q ss_pred HHHHcCCce
Q psy13427 146 TAQDCQEFA 154 (268)
Q Consensus 146 ~A~~~g~~~ 154 (268)
+|..+|..+
T Consensus 96 ~~~E~gi~~ 104 (423)
T PF03345_consen 96 FANELGIEF 104 (423)
T ss_pred HHHHCCeEE
Confidence 999999654
No 215
>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=20.72 E-value=3e+02 Score=24.30 Aligned_cols=59 Identities=15% Similarity=0.202 Sum_probs=33.7
Q ss_pred CCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCC-CCceeeeccCCCCchhHHHHHHHHHH
Q psy13427 176 RLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCN-PNLITYPVPGNDDTPSAIQYYCQVFK 242 (268)
Q Consensus 176 ~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~-p~~IdypIP~NddS~~SI~li~~lL~ 242 (268)
+..|.+|++.+ ..+...+.++.+.++|+|.+ |.+.. ...+++... |...+.......|.
T Consensus 55 ~~vdgiIi~~~----~~~~~~~~~l~~~~iPvV~i-~~~~~~~~~~~~V~~---d~~~~~~~a~~~L~ 114 (269)
T cd06287 55 LDIDGAILVEP----MADDPQVARLRQRGIPVVSI-GRPPGDRTDVPYVDL---QSAATARMLLEHLR 114 (269)
T ss_pred cCcCeEEEecC----CCCCHHHHHHHHcCCCEEEe-CCCCCCCCCCCeEee---CcHHHHHHHHHHHH
Confidence 46898888763 22334677788889999888 44332 233444432 34444454444443
No 216
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=20.69 E-value=5.6e+02 Score=22.87 Aligned_cols=90 Identities=8% Similarity=-0.041 Sum_probs=51.4
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEeCCh-hhH---HHHHHHHHHcCCceecCCcccCcccchhhhhcc-ccCCCceeeeec
Q psy13427 111 ELLRDALNFVAHIAYRDGIVLFVGQSA-QNS---LLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRA-VTRLPDLVILTN 185 (268)
Q Consensus 111 ~~L~~A~~~I~~i~~~~g~ILfV~t~~-~~~---~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~-~~~~Pdlvivld 185 (268)
.....+..++... ..++|.++.... ..+ ..+++.+++.|...+...+.+-.-+++...... ...-||.|++..
T Consensus 120 ~~~~~~~~~l~~~--~~~~v~~l~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~d~~~~v~~~~~~~pd~v~~~~ 197 (336)
T cd06360 120 QWAAPMGKYAADD--GYKKVVTVAWDYAFGYEVVEGFKEAFTEAGGKIVKELWVPFGTSDFASYLAQIPDDVPDAVFVFF 197 (336)
T ss_pred HHHHHHHHHHHHc--CCCeEEEEeccchhhHHHHHHHHHHHHHcCCEEEEEEecCCCCcchHHHHHHHHhcCCCEEEEec
Confidence 3344455555442 346677776543 332 334566666776665555655445676643222 234599998765
Q ss_pred CCCCCCCCCchHHHhhhhCC
Q psy13427 186 TLTTVLEPNPAIGEAAKMCI 205 (268)
Q Consensus 186 ~~~~~~~d~~aI~EA~~l~I 205 (268)
. ...-...++++...|+
T Consensus 198 ~---~~~~~~~~~~~~~~g~ 214 (336)
T cd06360 198 A---GGDAIKFVKQYDAAGL 214 (336)
T ss_pred c---cccHHHHHHHHHHcCC
Confidence 3 2334567889888776
No 217
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=20.66 E-value=53 Score=31.53 Aligned_cols=21 Identities=19% Similarity=0.346 Sum_probs=17.7
Q ss_pred chHHHhhhhCCCccccccCCC
Q psy13427 195 PAIGEAAKMCIPTVGIVDSNC 215 (268)
Q Consensus 195 ~aI~EA~~l~IPtIalvDTn~ 215 (268)
..++-|.+.|||+|.|+||--
T Consensus 142 R~m~lA~~f~lPIVtlvDTpG 162 (319)
T PRK05724 142 RLMKMAEKFGLPIITFIDTPG 162 (319)
T ss_pred HHHHHHHHcCCCEEEEEeCCC
Confidence 467788899999999999944
No 218
>PRK10537 voltage-gated potassium channel; Provisional
Probab=20.60 E-value=3.2e+02 Score=26.78 Aligned_cols=90 Identities=16% Similarity=0.062 Sum_probs=50.9
Q ss_pred CCCeEEEEeCChhhHHHHHHHHHHcCCce-e-cC-----------CcccCcccchhhhhccccCCCceeeeecCCCCCCC
Q psy13427 126 RDGIVLFVGQSAQNSLLIEKTAQDCQEFA-H-TR-----------FWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLE 192 (268)
Q Consensus 126 ~~g~ILfV~t~~~~~~~V~~~A~~~g~~~-i-~~-----------rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~ 192 (268)
.+++++++|..+.++.+++++.++ |..+ + .. ..+-|--|+.....+.....-+.++++-+ |-..
T Consensus 239 ~k~HvII~G~g~lg~~v~~~L~~~-g~~vvVId~d~~~~~~~~g~~vI~GD~td~e~L~~AgI~~A~aVI~~t~--dD~~ 315 (393)
T PRK10537 239 RKDHFIICGHSPLAINTYLGLRQR-GQAVTVIVPLGLEHRLPDDADLIPGDSSDSAVLKKAGAARARAILALRD--NDAD 315 (393)
T ss_pred cCCeEEEECCChHHHHHHHHHHHC-CCCEEEEECchhhhhccCCCcEEEeCCCCHHHHHhcCcccCCEEEEcCC--ChHH
Confidence 357788888888888877776543 3222 1 11 12334444444332333456667776542 1134
Q ss_pred CCchHHHhhhhC--CCccccccCCCCCC
Q psy13427 193 PNPAIGEAAKMC--IPTVGIVDSNCNPN 218 (268)
Q Consensus 193 d~~aI~EA~~l~--IPtIalvDTn~~p~ 218 (268)
+..++.-|+.++ +.+|+.++...+.+
T Consensus 316 Nl~ivL~ar~l~p~~kIIa~v~~~~~~~ 343 (393)
T PRK10537 316 NAFVVLAAKEMSSDVKTVAAVNDSKNLE 343 (393)
T ss_pred HHHHHHHHHHhCCCCcEEEEECCHHHHH
Confidence 455666667665 57999888765543
No 219
>PRK09522 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase; Provisional
Probab=20.56 E-value=2.5e+02 Score=28.74 Aligned_cols=81 Identities=12% Similarity=0.066 Sum_probs=41.0
Q ss_pred CeEEEEeCChhhHHHHHHHHHHcCCceecCCcc-cCcccchhhhhccccCCCceeeeecCCCCCCCC--CchHHHhhhhC
Q psy13427 128 GIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWR-QGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEP--NPAIGEAAKMC 204 (268)
Q Consensus 128 g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~-gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d--~~aI~EA~~l~ 204 (268)
.+||+|.+..++...+.......|.....-++. +..-+ .... ....||.||+.---.+|... ...+.+....+
T Consensus 2 ~~iLiIDn~dsft~nl~~~lr~~g~~v~V~~~~~~~~~~-~~~l---~~~~~~~IIlSpGPg~p~d~~~~~~i~~~~~~~ 77 (531)
T PRK09522 2 ADILLLDNIDSFTYNLADQLRSNGHNVVIYRNHIPAQTL-IERL---ATMSNPVLMLSPGPGVPSEAGCMPELLTRLRGK 77 (531)
T ss_pred CeEEEEeCCChHHHHHHHHHHHCCCCEEEEECCCCCccC-HHHH---HhcCcCEEEEcCCCCChhhCCCCHHHHHHHhcC
Confidence 369999998888776666666667443322221 10000 1110 12347876665411222211 11233333459
Q ss_pred CCcccccc
Q psy13427 205 IPTVGIVD 212 (268)
Q Consensus 205 IPtIalvD 212 (268)
+|++|+|=
T Consensus 78 iPILGICl 85 (531)
T PRK09522 78 LPIIGICL 85 (531)
T ss_pred CCEEEEcH
Confidence 99999984
No 220
>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=20.44 E-value=1.5e+02 Score=25.60 Aligned_cols=60 Identities=18% Similarity=0.073 Sum_probs=34.3
Q ss_pred cCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCC-CceeeeccCCCCchhHHHHHHHHHH
Q psy13427 175 TRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNP-NLITYPVPGNDDTPSAIQYYCQVFK 242 (268)
Q Consensus 175 ~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p-~~IdypIP~NddS~~SI~li~~lL~ 242 (268)
.+.+|.+++..+ ..+...++++...+||+|.+ |+..++ ..+.+.-+-| ..+.......|.
T Consensus 53 ~~~~dgiii~~~----~~~~~~~~~~~~~~ipvV~i-~~~~~~~~~~~~v~~d~---~~~~~~a~~~l~ 113 (270)
T cd06296 53 ARRTDGVILVTP----ELTSAQRAALRRTGIPFVVV-DPAGDPDADVPSVGATN---WAGGLAATEHLL 113 (270)
T ss_pred HcCCCEEEEecC----CCChHHHHHHhcCCCCEEEE-ecccCCCCCCCEEEeCc---HHHHHHHHHHHH
Confidence 346898887653 22335688998999999987 554322 3344433333 334444444443
No 221
>CHL00197 carA carbamoyl-phosphate synthase arginine-specific small subunit; Provisional
Probab=20.37 E-value=3e+02 Score=27.03 Aligned_cols=77 Identities=13% Similarity=0.094 Sum_probs=38.4
Q ss_pred CCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCc---hHHHhhhh
Q psy13427 127 DGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNP---AIGEAAKM 203 (268)
Q Consensus 127 ~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~---aI~EA~~l 203 (268)
+.+|+++...-. .-+.+...+.|+....=.|- +..... ....||.||+.+--.++..... .++++...
T Consensus 192 ~~~I~viD~g~k--~ni~~~L~~~G~~v~vvp~~----~~~~~i---~~~~~dgIilSgGPg~p~~~~~~i~~i~~~~~~ 262 (382)
T CHL00197 192 QLKIIVIDFGVK--YNILRRLKSFGCSITVVPAT----SPYQDI---LSYQPDGILLSNGPGDPSAIHYGIKTVKKLLKY 262 (382)
T ss_pred CCEEEEEECCcH--HHHHHHHHHCCCeEEEEcCC----CCHHHH---hccCCCEEEEcCCCCChhHHHHHHHHHHHHHhC
Confidence 356888877433 22444445556543322221 112211 1235899998762122222222 33444445
Q ss_pred CCCcccccc
Q psy13427 204 CIPTVGIVD 212 (268)
Q Consensus 204 ~IPtIalvD 212 (268)
++|++|+|=
T Consensus 263 ~~PilGICl 271 (382)
T CHL00197 263 NIPIFGICM 271 (382)
T ss_pred CCCEEEEcH
Confidence 899999983
No 222
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=20.27 E-value=2.5e+02 Score=20.99 Aligned_cols=38 Identities=8% Similarity=0.018 Sum_probs=29.1
Q ss_pred HHHHHHHhCCCeEEEEeCChhhHHHHHHHHHHcCCceec
Q psy13427 118 NFVAHIAYRDGIVLFVGQSAQNSLLIEKTAQDCQEFAHT 156 (268)
Q Consensus 118 ~~I~~i~~~~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~ 156 (268)
+.+..+ ..|+.+.++.+.+.+..-|..+|+..|..++.
T Consensus 28 k~l~~l-~~G~~l~V~~dd~~~~~di~~~~~~~G~~~~~ 65 (81)
T PRK00299 28 KTVRNM-QPGETLLIIADDPATTRDIPSFCRFMDHELLA 65 (81)
T ss_pred HHHHcC-CCCCEEEEEeCCccHHHHHHHHHHHcCCEEEE
Confidence 333443 45677888888999999999999999987763
No 223
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=20.22 E-value=1.5e+02 Score=26.68 Aligned_cols=114 Identities=13% Similarity=0.126 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHHHHH--------HHHh-CCCeEEEEeC---ChhhHHH---HHHHHHHcCCceecCCcccCcccchhhhh
Q psy13427 107 DQSAELLRDALNFVA--------HIAY-RDGIVLFVGQ---SAQNSLL---IEKTAQDCQEFAHTRFWRQGMFTNSEKLF 171 (268)
Q Consensus 107 ~~T~~~L~~A~~~I~--------~i~~-~~g~ILfV~t---~~~~~~~---V~~~A~~~g~~~i~~rW~gG~LTN~~~~~ 171 (268)
+.|.++..+|+.=+. .+.. +.+.|.++-. ++++..+ +++.|+..|-..+. .+...-........
T Consensus 32 ~~tr~rV~~~a~elgY~pn~~a~~l~~~~~~~Igvv~~~~~~~~~~~l~~gi~~~~~~~g~~~~~-~~~~~~~~~~~~~~ 110 (328)
T PRK11303 32 DKTVEKVMAVVREHNYHPNAVAAGLRAGRTRSIGLIIPDLENTSYARIAKYLERQARQRGYQLLI-ACSDDQPDNEMRCA 110 (328)
T ss_pred HHHHHHHHHHHHHhCCCCCHHHHHhhcCCCceEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEE-EeCCCCHHHHHHHH
Confidence 568888877775442 2221 2345555532 3444443 44566666643222 11111100011111
Q ss_pred cc-ccCCCceeeeecCCCCCCCCCchHHHhhhhCCCccccccCCCCCCceeeecc
Q psy13427 172 RA-VTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNCNPNLITYPVP 225 (268)
Q Consensus 172 ~~-~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~~p~~IdypIP 225 (268)
.. ....+|.+|+.... ..+...+.++...+||+|.+ |...+...+++..+
T Consensus 111 ~~l~~~~vdgiIi~~~~---~~~~~~~~~l~~~~iPvV~v-~~~~~~~~~~~V~~ 161 (328)
T PRK11303 111 EHLLQRQVDALIVSTSL---PPEHPFYQRLQNDGLPIIAL-DRALDREHFTSVVS 161 (328)
T ss_pred HHHHHcCCCEEEEcCCC---CCChHHHHHHHhcCCCEEEE-CCCCCCCCCCEEEe
Confidence 11 13468988886421 12345678888889999875 66544334455443
No 224
>PRK07567 glutamine amidotransferase; Provisional
Probab=20.19 E-value=88 Score=28.29 Aligned_cols=36 Identities=19% Similarity=0.162 Sum_probs=22.7
Q ss_pred CCceeeeecCCCCCCCC---------------CchHHHhhhhCCCcccccc
Q psy13427 177 LPDLVILTNTLTTVLEP---------------NPAIGEAAKMCIPTVGIVD 212 (268)
Q Consensus 177 ~Pdlvivld~~~~~~~d---------------~~aI~EA~~l~IPtIalvD 212 (268)
..|.|||+..-.++..+ ..++++|...++|++|+|=
T Consensus 51 ~~dgvIi~Gg~~~~~d~~~~~~pw~~~~~~~i~~~i~~~~~~~~PvLGIC~ 101 (242)
T PRK07567 51 DYSGVIVGGSPFNVSDPAESKSPWQRRVEAELSGLLDEVVARDFPFLGACY 101 (242)
T ss_pred hccEEEEcCCCCcCCCCCCccchHHHHHHHHHHHHHHHHHhcCCCEEEEch
Confidence 45778887632233222 1355666688999999983
No 225
>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=20.14 E-value=4.9e+02 Score=23.79 Aligned_cols=98 Identities=11% Similarity=0.037 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHHH--hCCCeEEEEeCChh-------hHHHHHHHHHH-cCCceecCCcccCcccchhhhhccccCCCc
Q psy13427 110 AELLRDALNFVAHIA--YRDGIVLFVGQSAQ-------NSLLIEKTAQD-CQEFAHTRFWRQGMFTNSEKLFRAVTRLPD 179 (268)
Q Consensus 110 ~~~L~~A~~~I~~i~--~~~g~ILfV~t~~~-------~~~~V~~~A~~-~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pd 179 (268)
...|.+|+.-+..-. ..+-+++++|..+. ..+-+++.++. .|.. ..-..-|...+.... .....-|
T Consensus 226 ~~~ll~a~~~l~~~~~~~~~~~l~i~G~~~~~~~~~~~~~~~l~~~~~~~~~l~--~~V~f~g~~~~~~~~--~~l~~ad 301 (392)
T cd03805 226 IALAIEAFAILKDKLAEFKNVRLVIAGGYDPRVAENVEYLEELQRLAEELLLLE--DQVIFLPSISDSQKE--LLLSSAR 301 (392)
T ss_pred hHHHHHHHHHHHhhcccccCeEEEEEcCCCCCCchhHHHHHHHHHHHHHhcCCC--ceEEEeCCCChHHHH--HHHhhCe
Confidence 344445554443321 02456778886432 12344555555 4321 011122344443321 2234567
Q ss_pred eeeeecCCCCCCCCCchHHHhhhhCCCccccccCCC
Q psy13427 180 LVILTNTLTTVLEPNPAIGEAAKMCIPTVGIVDSNC 215 (268)
Q Consensus 180 lvivld~~~~~~~d~~aI~EA~~l~IPtIalvDTn~ 215 (268)
++++... ...-..++-||..+|+|+|+. |...
T Consensus 302 ~~l~~s~---~E~~g~~~lEAma~G~PvI~s-~~~~ 333 (392)
T cd03805 302 ALLYTPS---NEHFGIVPLEAMYAGKPVIAC-NSGG 333 (392)
T ss_pred EEEECCC---cCCCCchHHHHHHcCCCEEEE-CCCC
Confidence 7665431 112246789999999999985 4433
No 226
>cd03798 GT1_wlbH_like This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core (band B), generates band A LPS.
Probab=20.14 E-value=5.7e+02 Score=22.01 Aligned_cols=76 Identities=20% Similarity=0.124 Sum_probs=38.2
Q ss_pred CCeEEEEeCChhhHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhhCCC
Q psy13427 127 DGIVLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKMCIP 206 (268)
Q Consensus 127 ~g~ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l~IP 206 (268)
+-.+.++|..... ..+++.++..+... .-..-|.+++.... .....-|+++..... ..-...+.||..+|+|
T Consensus 233 ~~~l~i~g~~~~~-~~~~~~~~~~~~~~--~v~~~g~~~~~~~~--~~~~~ad~~i~~~~~---~~~~~~~~Ea~~~G~p 304 (377)
T cd03798 233 DVHLVIVGDGPLR-EALEALAAELGLED--RVTFLGAVPHEEVP--AYYAAADVFVLPSLR---EGFGLVLLEAMACGLP 304 (377)
T ss_pred CeEEEEEcCCcch-HHHHHHHHhcCCcc--eEEEeCCCCHHHHH--HHHHhcCeeecchhh---ccCChHHHHHHhcCCC
Confidence 3445556654433 33444554444321 11234455543321 123345665543310 1235689999999999
Q ss_pred cccc
Q psy13427 207 TVGI 210 (268)
Q Consensus 207 tIal 210 (268)
+|+-
T Consensus 305 vI~~ 308 (377)
T cd03798 305 VVAT 308 (377)
T ss_pred EEEe
Confidence 9974
No 227
>PRK01438 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=20.13 E-value=6.6e+02 Score=24.51 Aligned_cols=71 Identities=15% Similarity=0.074 Sum_probs=41.1
Q ss_pred hCCCeEEEEeCChh-hHHHHHHHHHHcCCceecCCcccCcccchhhhhccccCCCceeeeecCCCCCCCCCchHHHhhhh
Q psy13427 125 YRDGIVLFVGQSAQ-NSLLIEKTAQDCQEFAHTRFWRQGMFTNSEKLFRAVTRLPDLVILTNTLTTVLEPNPAIGEAAKM 203 (268)
Q Consensus 125 ~~~g~ILfV~t~~~-~~~~V~~~A~~~g~~~i~~rW~gG~LTN~~~~~~~~~~~Pdlvivld~~~~~~~d~~aI~EA~~l 203 (268)
..+..|.++..++. ....+.+..+..|..+..+.... ....+|+||+.-. +..++..+.+|...
T Consensus 37 ~~G~~V~~~d~~~~~~~~~~~~~l~~~gv~~~~~~~~~------------~~~~~D~Vv~s~G---i~~~~~~~~~a~~~ 101 (480)
T PRK01438 37 ELGARVTVVDDGDDERHRALAAILEALGATVRLGPGPT------------LPEDTDLVVTSPG---WRPDAPLLAAAADA 101 (480)
T ss_pred HCCCEEEEEeCCchhhhHHHHHHHHHcCCEEEECCCcc------------ccCCCCEEEECCC---cCCCCHHHHHHHHC
Confidence 45666766664442 22333344455676655443211 1235888776432 44566778889999
Q ss_pred CCCcccc
Q psy13427 204 CIPTVGI 210 (268)
Q Consensus 204 ~IPtIal 210 (268)
|||+++=
T Consensus 102 gi~v~~~ 108 (480)
T PRK01438 102 GIPVWGE 108 (480)
T ss_pred CCeecch
Confidence 9999863
No 228
>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]
Probab=20.04 E-value=4.4e+02 Score=23.90 Aligned_cols=89 Identities=13% Similarity=0.052 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHhCCCe-EEEEeCChhhHHHHHHHHHHcCCceecCCccc-CcccchhhhhccccCCCceeeeecCCCCCC
Q psy13427 114 RDALNFVAHIAYRDGI-VLFVGQSAQNSLLIEKTAQDCQEFAHTRFWRQ-GMFTNSEKLFRAVTRLPDLVILTNTLTTVL 191 (268)
Q Consensus 114 ~~A~~~I~~i~~~~g~-ILfV~t~~~~~~~V~~~A~~~g~~~i~~rW~g-G~LTN~~~~~~~~~~~Pdlvivld~~~~~~ 191 (268)
..|+.+...++..|=. |=+.-+.+...+.|+.+++.... --+| ||..|..+... ...-..-|++.| .
T Consensus 25 e~a~~~a~Ali~gGi~~IEITl~sp~a~e~I~~l~~~~p~-----~lIGAGTVL~~~q~~~--a~~aGa~fiVsP----~ 93 (211)
T COG0800 25 EEALPLAKALIEGGIPAIEITLRTPAALEAIRALAKEFPE-----ALIGAGTVLNPEQARQ--AIAAGAQFIVSP----G 93 (211)
T ss_pred HHHHHHHHHHHHcCCCeEEEecCCCCHHHHHHHHHHhCcc-----cEEccccccCHHHHHH--HHHcCCCEEECC----C
Confidence 3456666666555533 33444667888999999988772 2344 89999887521 122233455664 6
Q ss_pred CCCchHHHhhhhCCCccccccC
Q psy13427 192 EPNPAIGEAAKMCIPTVGIVDS 213 (268)
Q Consensus 192 ~d~~aI~EA~~l~IPtIalvDT 213 (268)
-+...++-|...++|++==|-|
T Consensus 94 ~~~ev~~~a~~~~ip~~PG~~T 115 (211)
T COG0800 94 LNPEVAKAANRYGIPYIPGVAT 115 (211)
T ss_pred CCHHHHHHHHhCCCcccCCCCC
Confidence 6788999999999998744444
Done!