Query 045543
Match_columns 239
No_of_seqs 247 out of 1418
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 03:08:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045543.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045543hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3178 Hydroxyindole-O-methyl 100.0 3E-39 6.4E-44 277.3 15.6 231 1-239 29-342 (342)
2 PF00891 Methyltransf_2: O-met 100.0 2.1E-36 4.5E-41 254.9 10.0 147 66-216 58-241 (241)
3 TIGR02716 C20_methyl_CrtF C-20 100.0 1.2E-32 2.7E-37 239.7 17.9 212 1-226 13-305 (306)
4 TIGR00740 methyltransferase, p 99.4 1.6E-13 3.5E-18 115.4 4.8 125 107-238 52-238 (239)
5 PTZ00098 phosphoethanolamine N 99.4 3.5E-12 7.7E-17 108.9 12.9 123 96-229 41-204 (263)
6 PF01209 Ubie_methyltran: ubiE 99.3 1.6E-12 3.4E-17 109.0 5.7 134 99-239 39-233 (233)
7 TIGR02752 MenG_heptapren 2-hep 99.3 1.8E-11 4E-16 102.1 11.7 135 97-239 35-231 (231)
8 PLN02233 ubiquinone biosynthes 99.3 2.6E-11 5.6E-16 103.4 11.5 104 129-238 140-260 (261)
9 COG2226 UbiE Methylase involve 99.3 3.3E-11 7.2E-16 100.7 11.1 126 107-239 50-237 (238)
10 PRK15451 tRNA cmo(5)U34 methyl 99.3 2.9E-12 6.3E-17 108.4 4.4 117 107-226 55-229 (247)
11 PLN02244 tocopherol O-methyltr 99.2 9.5E-11 2.1E-15 103.6 12.7 117 107-228 117-279 (340)
12 PRK00216 ubiE ubiquinone/menaq 99.2 1.7E-10 3.7E-15 96.2 12.6 135 97-239 41-238 (239)
13 PLN02336 phosphoethanolamine N 99.2 9E-11 1.9E-15 108.2 11.4 117 97-227 256-414 (475)
14 PRK15068 tRNA mo(5)U34 methylt 99.2 7E-11 1.5E-15 103.7 10.1 83 134-228 191-275 (322)
15 TIGR01934 MenG_MenH_UbiE ubiqu 99.2 1.7E-10 3.7E-15 95.2 11.4 131 98-239 30-223 (223)
16 PRK11873 arsM arsenite S-adeno 99.2 1.2E-10 2.6E-15 99.7 10.2 111 106-227 75-230 (272)
17 PLN02490 MPBQ/MSBQ methyltrans 99.2 2.2E-10 4.8E-15 100.8 11.9 113 99-229 104-258 (340)
18 PRK06922 hypothetical protein; 99.2 7.8E-11 1.7E-15 110.2 9.0 125 53-178 348-544 (677)
19 PRK14103 trans-aconitate 2-met 99.2 3.7E-10 7.9E-15 95.9 11.4 124 96-224 18-181 (255)
20 TIGR00452 methyltransferase, p 99.1 2.9E-10 6.4E-15 99.1 10.4 83 134-228 190-274 (314)
21 PF13489 Methyltransf_23: Meth 99.1 7.5E-11 1.6E-15 92.3 5.7 108 106-224 20-160 (161)
22 PRK11207 tellurite resistance 99.1 9.4E-10 2E-14 90.0 10.9 109 96-225 19-168 (197)
23 PF05891 Methyltransf_PK: AdoM 99.1 1.9E-10 4.1E-15 94.1 6.5 104 108-227 55-201 (218)
24 PRK11036 putative S-adenosyl-L 99.0 1.1E-09 2.4E-14 93.0 9.6 143 79-229 8-209 (255)
25 PF06080 DUF938: Protein of un 99.0 3.9E-09 8.4E-14 85.9 11.2 101 134-239 104-204 (204)
26 PRK08317 hypothetical protein; 99.0 5.9E-09 1.3E-13 86.6 11.2 122 98-227 10-176 (241)
27 KOG1540 Ubiquinone biosynthesi 99.0 5.7E-09 1.2E-13 86.8 10.3 95 122-224 164-278 (296)
28 TIGR00477 tehB tellurite resis 99.0 5.9E-09 1.3E-13 85.1 10.3 110 96-226 19-168 (195)
29 smart00828 PKS_MT Methyltransf 98.9 4.1E-09 8.8E-14 87.5 9.1 78 134-229 69-146 (224)
30 PLN02336 phosphoethanolamine N 98.9 3.4E-09 7.3E-14 97.8 9.4 113 95-224 25-179 (475)
31 PLN02396 hexaprenyldihydroxybe 98.9 3.7E-09 8E-14 92.6 9.1 86 134-227 200-289 (322)
32 PF02353 CMAS: Mycolic acid cy 98.9 4.6E-09 1E-13 90.1 9.2 126 96-228 51-218 (273)
33 smart00138 MeTrc Methyltransfe 98.8 1.5E-08 3.3E-13 86.5 9.1 37 134-170 205-241 (264)
34 PRK12335 tellurite resistance 98.8 5.1E-08 1.1E-12 84.3 10.5 109 97-226 110-258 (287)
35 TIGR03438 probable methyltrans 98.8 3.5E-08 7.6E-13 85.9 9.2 48 122-169 120-175 (301)
36 PF08241 Methyltransf_11: Meth 98.8 6.3E-09 1.4E-13 73.8 3.7 46 122-169 47-95 (95)
37 COG2230 Cfa Cyclopropane fatty 98.8 4.8E-08 1E-12 83.4 9.4 123 96-229 61-225 (283)
38 PF13847 Methyltransf_31: Meth 98.8 7.6E-09 1.6E-13 80.9 4.2 102 108-219 3-152 (152)
39 TIGR02021 BchM-ChlM magnesium 98.8 6.5E-08 1.4E-12 80.2 10.0 149 70-229 16-208 (219)
40 PF12847 Methyltransf_18: Meth 98.7 1.6E-08 3.4E-13 74.5 5.4 50 122-171 57-111 (112)
41 PRK10258 biotin biosynthesis p 98.7 1.1E-07 2.4E-12 80.4 10.8 130 81-222 10-182 (251)
42 PRK01683 trans-aconitate 2-met 98.7 8.4E-08 1.8E-12 81.4 10.0 73 95-170 19-129 (258)
43 PF08003 Methyltransf_9: Prote 98.7 6.2E-08 1.3E-12 83.1 8.3 83 134-228 184-268 (315)
44 PRK06202 hypothetical protein; 98.7 1.6E-07 3.5E-12 78.5 10.8 83 134-228 131-223 (232)
45 PRK04266 fibrillarin; Provisio 98.7 1.9E-07 4.1E-12 78.0 10.4 78 134-239 143-225 (226)
46 PRK05785 hypothetical protein; 98.7 1.6E-07 3.4E-12 78.5 9.4 122 108-239 51-224 (226)
47 PF08242 Methyltransf_12: Meth 98.7 3.1E-08 6.8E-13 71.5 4.4 32 134-167 68-99 (99)
48 PLN02232 ubiquinone biosynthes 98.6 9.2E-08 2E-12 75.6 7.1 110 122-237 31-158 (160)
49 PRK07580 Mg-protoporphyrin IX 98.6 2.6E-07 5.5E-12 76.8 10.2 83 134-229 129-216 (230)
50 PRK11705 cyclopropane fatty ac 98.6 1.9E-07 4.1E-12 83.9 9.8 120 97-229 157-314 (383)
51 KOG4300 Predicted methyltransf 98.6 4.8E-07 1E-11 73.3 10.4 89 134-230 147-235 (252)
52 PF05148 Methyltransf_8: Hypot 98.6 2.3E-07 4.9E-12 75.6 8.5 138 70-239 30-197 (219)
53 TIGR02072 BioC biotin biosynth 98.6 3.5E-07 7.6E-12 76.0 9.8 102 108-226 34-175 (240)
54 PRK05134 bifunctional 3-demeth 98.6 2.6E-07 5.7E-12 77.1 8.5 84 134-227 116-205 (233)
55 TIGR00537 hemK_rel_arch HemK-r 98.6 5.3E-07 1.1E-11 72.4 9.7 102 107-239 18-177 (179)
56 PF08100 Dimerisation: Dimeris 98.6 5.2E-08 1.1E-12 61.8 2.8 43 1-44 9-51 (51)
57 PF03848 TehB: Tellurite resis 98.5 2.1E-07 4.6E-12 75.5 6.4 76 97-173 20-135 (192)
58 TIGR03587 Pse_Me-ase pseudamin 98.5 4.8E-07 1E-11 74.4 7.4 69 106-176 41-147 (204)
59 PRK08287 cobalt-precorrin-6Y C 98.5 6.1E-07 1.3E-11 72.5 7.9 82 84-171 6-131 (187)
60 COG2227 UbiG 2-polyprenyl-3-me 98.5 4.7E-07 1E-11 75.1 7.2 85 134-228 126-216 (243)
61 COG4106 Tam Trans-aconitate me 98.5 1.2E-06 2.7E-11 71.4 9.5 138 89-239 13-203 (257)
62 KOG2361 Predicted methyltransf 98.5 4.3E-07 9.3E-12 75.2 6.5 88 134-225 146-235 (264)
63 PF05401 NodS: Nodulation prot 98.4 3.9E-07 8.4E-12 73.7 6.0 70 102-172 38-147 (201)
64 PRK15001 SAM-dependent 23S rib 98.4 1.8E-06 3.8E-11 77.3 10.4 74 97-171 218-340 (378)
65 PF12147 Methyltransf_20: Puta 98.4 2.7E-06 5.9E-11 72.5 10.4 121 107-239 134-311 (311)
66 PLN03075 nicotianamine synthas 98.4 6.2E-07 1.4E-11 77.3 6.4 36 134-170 197-232 (296)
67 TIGR01983 UbiG ubiquinone bios 98.4 8.5E-07 1.8E-11 73.5 6.7 84 134-227 114-203 (224)
68 PLN02585 magnesium protoporphy 98.3 1E-06 2.2E-11 77.1 5.9 91 134-238 214-313 (315)
69 PF13649 Methyltransf_25: Meth 98.3 2.9E-07 6.3E-12 66.8 2.1 32 134-165 69-101 (101)
70 KOG3045 Predicted RNA methylas 98.3 1.1E-05 2.4E-10 67.6 11.0 136 72-239 140-303 (325)
71 PTZ00146 fibrillarin; Provisio 98.2 1.8E-05 4E-10 68.1 11.5 79 134-238 204-285 (293)
72 TIGR03840 TMPT_Se_Te thiopurin 98.2 1E-05 2.2E-10 67.0 8.8 42 134-175 115-156 (213)
73 KOG1270 Methyltransferases [Co 98.2 4.1E-06 9E-11 70.3 6.2 85 133-227 159-249 (282)
74 PRK09489 rsmC 16S ribosomal RN 98.2 5.5E-06 1.2E-10 73.4 7.4 74 98-172 187-304 (342)
75 TIGR02081 metW methionine bios 98.2 8.1E-06 1.8E-10 66.4 7.6 108 108-228 13-168 (194)
76 PRK10611 chemotaxis methyltran 98.1 1.6E-05 3.5E-10 68.6 8.4 46 124-169 211-260 (287)
77 PF05219 DREV: DREV methyltran 98.1 9.9E-06 2.1E-10 68.2 6.5 82 134-229 153-242 (265)
78 PF01739 CheR: CheR methyltran 98.1 8E-06 1.7E-10 66.7 5.7 49 122-170 123-174 (196)
79 PF11968 DUF3321: Putative met 98.0 3E-05 6.5E-10 63.6 8.4 96 110-229 53-183 (219)
80 TIGR03534 RF_mod_PrmC protein- 98.0 2.3E-05 5E-10 65.9 8.1 46 151-228 197-242 (251)
81 PRK13255 thiopurine S-methyltr 98.0 3.2E-05 6.9E-10 64.3 8.6 82 124-227 104-190 (218)
82 PRK11188 rrmJ 23S rRNA methylt 98.0 2.4E-05 5.1E-10 64.6 7.5 75 98-172 41-166 (209)
83 COG4976 Predicted methyltransf 98.0 3.5E-05 7.5E-10 63.6 8.2 129 80-228 94-266 (287)
84 PRK14968 putative methyltransf 98.0 0.00012 2.5E-09 58.7 10.8 59 150-239 127-188 (188)
85 PF07021 MetW: Methionine bios 97.9 2.8E-05 6E-10 62.8 6.8 112 107-230 12-170 (193)
86 PF05175 MTS: Methyltransferas 97.9 1.2E-05 2.7E-10 64.0 4.8 73 98-171 22-140 (170)
87 TIGR02469 CbiT precorrin-6Y C5 97.9 3E-05 6.5E-10 57.6 6.0 66 99-170 11-121 (124)
88 PRK00517 prmA ribosomal protei 97.9 0.00014 3E-09 61.6 10.0 67 134-236 181-247 (250)
89 TIGR00138 gidB 16S rRNA methyl 97.8 2.3E-05 4.9E-10 63.3 4.7 32 133-170 110-141 (181)
90 PF04672 Methyltransf_19: S-ad 97.8 8.5E-05 1.8E-09 63.1 8.0 80 135-224 153-233 (267)
91 PRK09328 N5-glutamine S-adenos 97.8 0.00024 5.2E-09 60.6 10.2 57 150-238 217-274 (275)
92 PRK00107 gidB 16S rRNA methylt 97.8 6.4E-05 1.4E-09 61.0 6.3 33 133-171 113-145 (187)
93 COG1352 CheR Methylase of chem 97.8 0.00012 2.7E-09 62.5 8.2 48 122-169 189-239 (268)
94 PRK13942 protein-L-isoaspartat 97.8 5.9E-05 1.3E-09 62.4 5.9 65 97-170 66-175 (212)
95 PRK13944 protein-L-isoaspartat 97.8 5.7E-05 1.2E-09 62.1 5.8 64 98-170 63-172 (205)
96 cd02440 AdoMet_MTases S-adenos 97.7 6.7E-05 1.5E-09 52.7 5.1 37 133-170 67-103 (107)
97 PRK00121 trmB tRNA (guanine-N( 97.7 6E-05 1.3E-09 61.8 5.0 38 134-171 113-156 (202)
98 PF03291 Pox_MCEL: mRNA cappin 97.6 7.9E-05 1.7E-09 65.7 5.2 37 134-170 147-185 (331)
99 PF05724 TPMT: Thiopurine S-me 97.6 0.00024 5.2E-09 59.0 7.9 82 123-227 103-190 (218)
100 KOG2899 Predicted methyltransf 97.6 0.00011 2.4E-09 61.1 5.3 84 131-224 165-254 (288)
101 COG2813 RsmC 16S RNA G1207 met 97.6 0.00017 3.6E-09 62.1 6.6 76 96-172 147-267 (300)
102 PF08123 DOT1: Histone methyla 97.6 0.00014 3.1E-09 59.8 5.9 78 96-177 31-164 (205)
103 PRK13256 thiopurine S-methyltr 97.6 0.00039 8.5E-09 58.0 8.5 54 122-175 108-167 (226)
104 TIGR00438 rrmJ cell division p 97.5 0.00023 5E-09 57.5 6.1 73 98-170 22-145 (188)
105 TIGR00080 pimt protein-L-isoas 97.5 0.00025 5.4E-09 58.6 6.1 65 97-170 67-176 (215)
106 COG2242 CobL Precorrin-6B meth 97.5 0.00029 6.2E-09 56.6 6.1 65 100-171 27-135 (187)
107 PRK00312 pcm protein-L-isoaspa 97.4 0.00035 7.7E-09 57.5 6.5 64 98-170 69-174 (212)
108 PRK11088 rrmA 23S rRNA methylt 97.4 0.0002 4.4E-09 61.3 5.2 55 108-171 85-181 (272)
109 PRK14967 putative methyltransf 97.4 0.00034 7.4E-09 58.1 6.0 67 106-172 34-160 (223)
110 TIGR00406 prmA ribosomal prote 97.4 0.00036 7.8E-09 60.4 6.0 34 134-172 227-260 (288)
111 PRK07402 precorrin-6B methylas 97.4 0.00053 1.2E-08 55.8 6.5 24 149-172 120-143 (196)
112 KOG1975 mRNA cap methyltransfe 97.3 0.00039 8.5E-09 60.2 5.6 37 133-169 197-235 (389)
113 PRK14121 tRNA (guanine-N(7)-)- 97.3 0.00054 1.2E-08 61.5 6.4 71 98-170 113-234 (390)
114 TIGR01177 conserved hypothetic 97.3 0.00078 1.7E-08 59.4 7.3 73 97-170 172-293 (329)
115 TIGR03439 methyl_EasF probable 97.3 0.00069 1.5E-08 59.4 6.5 42 134-175 159-202 (319)
116 TIGR00091 tRNA (guanine-N(7)-) 97.3 0.00033 7.2E-09 57.0 4.3 21 151-171 112-132 (194)
117 PF06325 PrmA: Ribosomal prote 97.3 0.0014 3.1E-08 56.8 8.3 112 84-235 140-291 (295)
118 COG5459 Predicted rRNA methyla 97.2 0.00046 1E-08 60.4 4.9 77 98-175 104-229 (484)
119 TIGR03533 L3_gln_methyl protei 97.2 0.00056 1.2E-08 59.1 5.5 20 150-169 230-249 (284)
120 PRK11805 N5-glutamine S-adenos 97.2 0.00049 1.1E-08 60.1 5.1 21 149-169 241-261 (307)
121 KOG3010 Methyltransferase [Gen 97.2 0.00065 1.4E-08 56.6 5.5 36 134-172 102-138 (261)
122 PRK00377 cbiT cobalt-precorrin 97.2 0.00096 2.1E-08 54.4 6.4 63 101-169 34-143 (198)
123 COG4301 Uncharacterized conser 97.1 0.0014 2.9E-08 55.0 6.3 54 122-175 138-198 (321)
124 PF03141 Methyltransf_29: Puta 97.1 0.00032 6.9E-09 64.1 2.5 67 107-174 116-222 (506)
125 TIGR00563 rsmB ribosomal RNA s 97.1 0.0013 2.9E-08 60.0 6.6 79 96-175 227-372 (426)
126 PF01234 NNMT_PNMT_TEMT: NNMT/ 97.1 0.00052 1.1E-08 58.3 3.4 76 131-227 156-239 (256)
127 COG2264 PrmA Ribosomal protein 97.0 0.0047 1E-07 53.5 9.2 98 98-233 154-294 (300)
128 PRK04457 spermidine synthase; 97.0 0.00086 1.9E-08 57.3 4.5 82 77-170 45-176 (262)
129 KOG1331 Predicted methyltransf 97.0 0.0024 5.3E-08 54.4 6.8 90 83-172 17-144 (293)
130 PF09243 Rsm22: Mitochondrial 97.0 0.0022 4.7E-08 55.2 6.6 43 132-176 102-144 (274)
131 TIGR00536 hemK_fam HemK family 97.0 0.0014 3E-08 56.6 5.4 48 122-169 170-242 (284)
132 PF13659 Methyltransf_26: Meth 96.9 0.00062 1.3E-08 50.1 2.7 49 122-170 55-114 (117)
133 PRK14901 16S rRNA methyltransf 96.9 0.0023 4.9E-08 58.6 6.4 25 150-174 363-387 (434)
134 PRK14904 16S rRNA methyltransf 96.9 0.0026 5.5E-08 58.5 6.8 25 151-175 357-381 (445)
135 PRK14902 16S rRNA methyltransf 96.7 0.0041 8.9E-08 57.1 6.8 23 151-173 359-381 (444)
136 PRK10901 16S rRNA methyltransf 96.7 0.0045 9.8E-08 56.6 6.5 24 151-174 352-375 (427)
137 COG4798 Predicted methyltransf 96.6 0.015 3.3E-07 47.1 8.5 81 131-228 120-206 (238)
138 PRK00811 spermidine synthase; 96.6 0.0034 7.4E-08 54.2 5.2 37 134-170 152-190 (283)
139 PF01135 PCMT: Protein-L-isoas 96.6 0.0021 4.5E-08 53.1 3.4 65 97-170 62-171 (209)
140 KOG1271 Methyltransferases [Ge 96.6 0.0032 7E-08 50.5 4.2 24 204-229 184-207 (227)
141 PHA03411 putative methyltransf 96.6 0.0064 1.4E-07 52.1 6.3 90 108-222 64-209 (279)
142 KOG3987 Uncharacterized conser 96.5 0.0047 1E-07 50.5 5.0 113 104-229 107-262 (288)
143 PRK13943 protein-L-isoaspartat 96.5 0.0045 9.8E-08 54.4 5.1 65 98-171 71-180 (322)
144 TIGR00446 nop2p NOL1/NOP2/sun 96.5 0.0072 1.6E-07 51.6 6.1 24 151-174 179-202 (264)
145 COG2518 Pcm Protein-L-isoaspar 96.4 0.0084 1.8E-07 49.2 6.1 67 97-172 62-170 (209)
146 PRK14903 16S rRNA methyltransf 96.4 0.0071 1.5E-07 55.4 6.3 24 151-174 346-369 (431)
147 TIGR00417 speE spermidine synt 96.4 0.0049 1.1E-07 52.8 4.7 37 134-170 147-185 (270)
148 TIGR03704 PrmC_rel_meth putati 96.4 0.012 2.6E-07 49.9 6.9 21 150-170 195-215 (251)
149 smart00346 HTH_ICLR helix_turn 96.4 0.0067 1.5E-07 42.7 4.6 55 2-62 9-67 (91)
150 PLN02366 spermidine synthase 96.3 0.0071 1.5E-07 52.9 5.3 37 134-170 167-205 (308)
151 PRK01544 bifunctional N5-gluta 96.2 0.0085 1.8E-07 56.0 5.7 20 150-169 248-267 (506)
152 smart00650 rADc Ribosomal RNA 96.2 0.0079 1.7E-07 47.7 4.6 24 97-121 3-26 (169)
153 PF09339 HTH_IclR: IclR helix- 96.2 0.0017 3.6E-08 41.2 0.6 39 2-46 7-45 (52)
154 PRK14966 unknown domain/N5-glu 96.2 0.029 6.2E-07 51.0 8.6 57 150-238 360-417 (423)
155 PF05185 PRMT5: PRMT5 arginine 96.2 0.0066 1.4E-07 55.8 4.6 90 71-168 153-294 (448)
156 TIGR02431 pcaR_pcaU beta-ketoa 96.1 0.0068 1.5E-07 51.2 4.0 56 2-63 13-70 (248)
157 PLN02781 Probable caffeoyl-CoA 96.0 0.022 4.8E-07 47.8 6.7 33 134-171 146-178 (234)
158 KOG1541 Predicted protein carb 96.0 0.014 3E-07 48.3 5.1 70 100-170 41-159 (270)
159 COG4123 Predicted O-methyltran 95.9 0.018 3.9E-07 48.6 5.8 21 150-170 149-169 (248)
160 KOG1500 Protein arginine N-met 95.8 0.021 4.7E-07 50.0 5.6 70 98-168 168-279 (517)
161 COG2519 GCD14 tRNA(1-methylade 95.7 0.032 6.9E-07 47.1 6.4 84 84-175 67-199 (256)
162 PRK11569 transcriptional repre 95.7 0.015 3.2E-07 49.9 4.6 56 2-63 32-91 (274)
163 COG3963 Phospholipid N-methylt 95.7 0.062 1.3E-06 42.6 7.5 78 95-173 36-158 (194)
164 COG1414 IclR Transcriptional r 95.6 0.017 3.6E-07 48.9 4.5 58 1-64 7-68 (246)
165 PRK10163 DNA-binding transcrip 95.5 0.019 4.2E-07 49.2 4.6 56 2-63 29-88 (271)
166 PRK01581 speE spermidine synth 95.5 0.019 4.2E-07 51.1 4.6 21 150-170 247-267 (374)
167 PRK03612 spermidine synthase; 95.4 0.024 5.1E-07 53.2 5.2 20 151-170 395-414 (521)
168 PRK09834 DNA-binding transcrip 95.3 0.022 4.8E-07 48.5 4.3 57 2-64 15-75 (263)
169 PF06859 Bin3: Bicoid-interact 95.3 0.0082 1.8E-07 44.1 1.3 85 134-229 3-94 (110)
170 PRK15090 DNA-binding transcrip 95.2 0.025 5.4E-07 48.0 4.3 56 2-64 18-77 (257)
171 smart00550 Zalpha Z-DNA-bindin 95.2 0.038 8.2E-07 37.1 4.1 50 3-58 11-66 (68)
172 PF03492 Methyltransf_7: SAM d 95.0 0.2 4.4E-06 44.3 9.4 97 122-225 94-251 (334)
173 PF02082 Rrf2: Transcriptional 94.9 0.023 4.9E-07 39.6 2.6 50 6-59 16-70 (83)
174 PF07942 N2227: N2227-like pro 94.8 0.26 5.6E-06 42.3 9.3 88 122-227 149-242 (270)
175 COG4627 Uncharacterized protei 94.6 0.02 4.2E-07 44.8 1.7 38 133-170 48-85 (185)
176 TIGR00478 tly hemolysin TlyA f 94.4 0.097 2.1E-06 43.8 5.7 25 97-121 64-88 (228)
177 TIGR00755 ksgA dimethyladenosi 94.4 0.067 1.5E-06 45.2 4.8 25 96-121 18-42 (253)
178 KOG2940 Predicted methyltransf 94.3 0.056 1.2E-06 45.1 3.9 81 134-225 139-225 (325)
179 PLN02668 indole-3-acetate carb 93.7 0.48 1E-05 42.7 8.9 51 124-174 151-240 (386)
180 KOG1661 Protein-L-isoaspartate 93.6 0.076 1.6E-06 43.6 3.4 20 150-169 172-191 (237)
181 PF08704 GCD14: tRNA methyltra 93.4 0.1 2.3E-06 44.1 4.0 84 83-174 12-149 (247)
182 PRK11933 yebU rRNA (cytosine-C 93.2 0.17 3.7E-06 46.8 5.5 32 142-173 206-244 (470)
183 smart00419 HTH_CRP helix_turn_ 93.1 0.13 2.8E-06 31.3 3.2 39 14-56 7-47 (48)
184 TIGR02010 IscR iron-sulfur clu 93.0 0.18 3.8E-06 38.5 4.5 52 6-61 16-72 (135)
185 PF02390 Methyltransf_4: Putat 92.9 0.031 6.7E-07 45.6 0.1 21 150-170 112-132 (195)
186 cd00092 HTH_CRP helix_turn_hel 92.8 0.16 3.4E-06 33.3 3.5 41 14-58 24-67 (67)
187 KOG2798 Putative trehalase [Ca 92.6 0.7 1.5E-05 40.4 7.9 90 122-228 243-338 (369)
188 COG2890 HemK Methylase of poly 92.6 0.23 4.9E-06 42.9 5.0 21 149-169 216-236 (280)
189 PF10294 Methyltransf_16: Puta 92.4 0.25 5.3E-06 39.4 4.8 39 134-174 121-159 (173)
190 PRK10857 DNA-binding transcrip 92.2 0.21 4.6E-06 39.5 4.1 45 13-61 23-72 (164)
191 KOG1269 SAM-dependent methyltr 92.2 0.13 2.7E-06 46.1 3.1 54 122-177 165-221 (364)
192 KOG3924 Putative protein methy 92.0 0.34 7.3E-06 43.4 5.5 76 98-177 183-314 (419)
193 COG1959 Predicted transcriptio 92.0 0.21 4.5E-06 39.0 3.8 53 6-62 16-73 (150)
194 COG3897 Predicted methyltransf 91.9 0.86 1.9E-05 37.2 7.1 66 104-173 75-181 (218)
195 PF14947 HTH_45: Winged helix- 91.8 0.19 4.1E-06 34.5 3.0 47 14-64 18-66 (77)
196 COG0293 FtsJ 23S rRNA methylas 91.8 0.66 1.4E-05 38.1 6.6 74 94-173 31-120 (205)
197 TIGR00738 rrf2_super rrf2 fami 91.6 0.22 4.8E-06 37.5 3.5 45 14-62 24-73 (132)
198 PF09012 FeoC: FeoC like trans 91.6 0.19 4E-06 33.7 2.7 37 3-46 5-41 (69)
199 PLN02476 O-methyltransferase 91.5 0.8 1.7E-05 39.5 7.1 35 134-174 196-230 (278)
200 PRK14896 ksgA 16S ribosomal RN 91.4 0.3 6.5E-06 41.5 4.4 25 96-121 18-42 (258)
201 PF13412 HTH_24: Winged helix- 91.1 0.28 6.1E-06 30.1 3.0 36 3-45 8-43 (48)
202 KOG1499 Protein arginine N-met 91.1 0.25 5.4E-06 43.5 3.6 61 108-168 60-164 (346)
203 PRK11783 rlmL 23S rRNA m(2)G24 90.9 0.37 8E-06 47.0 5.0 22 149-170 634-655 (702)
204 PF01978 TrmB: Sugar-specific 90.9 0.096 2.1E-06 34.9 0.7 37 3-46 13-49 (68)
205 PRK11727 23S rRNA mA1618 methy 90.3 1.7 3.8E-05 38.2 8.2 26 201-228 268-293 (321)
206 PRK13168 rumA 23S rRNA m(5)U19 90.2 0.29 6.4E-06 44.9 3.5 24 97-121 287-310 (443)
207 TIGR02944 suf_reg_Xantho FeS a 90.0 0.32 7E-06 36.7 3.1 51 4-59 15-70 (130)
208 TIGR00027 mthyl_TIGR00027 meth 89.8 4.6 9.9E-05 34.4 10.3 85 134-225 160-248 (260)
209 PF13463 HTH_27: Winged helix 89.6 0.53 1.2E-05 30.8 3.5 43 14-60 17-68 (68)
210 PF08279 HTH_11: HTH domain; 89.5 0.48 1E-05 29.9 3.1 38 3-46 5-42 (55)
211 PRK10909 rsmD 16S rRNA m(2)G96 89.3 0.68 1.5E-05 37.9 4.6 14 108-121 53-66 (199)
212 COG3355 Predicted transcriptio 89.2 0.55 1.2E-05 35.4 3.7 29 14-46 41-69 (126)
213 PRK11014 transcriptional repre 89.2 0.69 1.5E-05 35.5 4.4 45 12-60 22-71 (141)
214 PF01022 HTH_5: Bacterial regu 89.2 0.19 4E-06 30.9 1.0 36 3-46 7-42 (47)
215 PF04703 FaeA: FaeA-like prote 89.1 0.29 6.2E-06 32.3 1.8 38 3-46 5-42 (62)
216 COG0421 SpeE Spermidine syntha 88.8 0.68 1.5E-05 40.0 4.5 20 151-170 170-189 (282)
217 smart00347 HTH_MARR helix_turn 88.7 1.1 2.3E-05 31.4 4.9 55 3-64 15-78 (101)
218 smart00418 HTH_ARSR helix_turn 88.7 1.2 2.7E-05 28.1 4.8 36 3-46 2-37 (66)
219 PF12840 HTH_20: Helix-turn-he 88.7 0.25 5.3E-06 32.1 1.3 38 2-46 14-51 (61)
220 PF02527 GidB: rRNA small subu 88.6 0.55 1.2E-05 37.9 3.6 32 134-171 117-148 (184)
221 PRK04148 hypothetical protein; 88.3 1.6 3.5E-05 33.3 5.8 65 98-170 7-108 (134)
222 PLN02823 spermine synthase 88.3 0.76 1.7E-05 40.7 4.6 20 151-170 199-219 (336)
223 TIGR00122 birA_repr_reg BirA b 88.1 0.67 1.5E-05 30.8 3.2 48 2-58 4-55 (69)
224 PTZ00338 dimethyladenosine tra 88.0 0.7 1.5E-05 40.2 4.1 25 96-121 25-49 (294)
225 PRK11920 rirA iron-responsive 87.9 0.78 1.7E-05 35.8 4.0 51 6-61 16-71 (153)
226 PRK15128 23S rRNA m(5)C1962 me 87.8 0.98 2.1E-05 41.0 5.1 15 107-121 219-233 (396)
227 PF02796 HTH_7: Helix-turn-hel 87.8 0.49 1.1E-05 28.8 2.2 23 15-41 21-43 (45)
228 TIGR02337 HpaR homoprotocatech 87.7 1.5 3.2E-05 32.4 5.2 55 3-64 33-96 (118)
229 COG4076 Predicted RNA methylas 87.4 0.38 8.2E-06 39.0 1.9 52 122-173 85-137 (252)
230 PF07757 AdoMet_MTase: Predict 87.4 0.34 7.3E-06 35.6 1.5 23 98-121 49-71 (112)
231 PF12324 HTH_15: Helix-turn-he 87.4 0.52 1.1E-05 32.3 2.3 37 3-46 29-65 (77)
232 KOG1709 Guanidinoacetate methy 87.2 4.5 9.8E-05 33.7 8.0 142 14-172 14-207 (271)
233 cd00090 HTH_ARSR Arsenical Res 87.1 1.2 2.6E-05 29.1 4.0 48 3-58 12-65 (78)
234 PRK03902 manganese transport t 86.6 1.4 3.1E-05 33.7 4.7 47 14-64 21-70 (142)
235 PF11899 DUF3419: Protein of u 86.5 0.9 1.9E-05 41.0 4.0 47 129-175 290-338 (380)
236 PRK00274 ksgA 16S ribosomal RN 86.0 0.67 1.5E-05 39.7 2.9 25 96-121 31-55 (272)
237 KOG3115 Methyltransferase-like 86.0 1 2.2E-05 37.0 3.7 24 150-173 162-185 (249)
238 PRK06266 transcription initiat 86.0 0.93 2E-05 36.4 3.5 37 3-46 27-63 (178)
239 TIGR02702 SufR_cyano iron-sulf 85.8 1.4 2.9E-05 36.0 4.4 55 3-64 6-71 (203)
240 PHA03412 putative methyltransf 85.7 1 2.2E-05 37.9 3.7 13 109-121 50-62 (241)
241 COG2345 Predicted transcriptio 85.4 1.4 3E-05 36.6 4.2 35 5-46 18-52 (218)
242 KOG0820 Ribosomal RNA adenine 85.0 1 2.2E-05 38.6 3.4 26 95-121 46-71 (315)
243 smart00420 HTH_DEOR helix_turn 84.6 1.5 3.3E-05 26.7 3.4 37 3-46 5-41 (53)
244 COG3315 O-Methyltransferase in 84.6 2.6 5.6E-05 36.7 5.9 165 54-225 35-262 (297)
245 PRK11050 manganese transport r 84.5 2 4.3E-05 33.5 4.6 47 14-64 50-99 (152)
246 PF01596 Methyltransf_3: O-met 84.2 0.51 1.1E-05 38.8 1.3 35 134-173 123-157 (205)
247 COG1889 NOP1 Fibrillarin-like 84.1 23 0.00049 29.3 10.6 70 147-238 156-228 (231)
248 PF00165 HTH_AraC: Bacterial r 84.0 1.1 2.3E-05 26.6 2.3 29 14-46 7-35 (42)
249 PF09929 DUF2161: Uncharacteri 83.5 1.2 2.7E-05 33.0 2.9 53 2-62 63-116 (118)
250 PRK15431 ferrous iron transpor 83.5 1.8 3.9E-05 29.8 3.5 37 3-46 7-43 (78)
251 COG4742 Predicted transcriptio 83.4 2 4.4E-05 36.5 4.5 53 4-64 19-73 (260)
252 PF08461 HTH_12: Ribonuclease 83.3 1.7 3.7E-05 28.9 3.3 57 3-61 3-63 (66)
253 PF08220 HTH_DeoR: DeoR-like h 83.3 1.3 2.9E-05 28.3 2.7 37 3-46 5-41 (57)
254 TIGR00373 conserved hypothetic 82.5 1.6 3.4E-05 34.4 3.3 37 3-46 19-55 (158)
255 cd07153 Fur_like Ferric uptake 82.3 2.6 5.7E-05 30.8 4.4 42 3-46 6-48 (116)
256 PRK00536 speE spermidine synth 82.0 2.1 4.6E-05 36.5 4.2 30 134-170 141-170 (262)
257 PF03141 Methyltransf_29: Puta 81.6 3.6 7.8E-05 38.2 5.7 67 106-172 363-468 (506)
258 COG2521 Predicted archaeal met 81.6 1.9 4.1E-05 36.3 3.6 95 106-229 132-279 (287)
259 PF01564 Spermine_synth: Sperm 81.1 1.4 3E-05 37.3 2.8 22 150-171 170-191 (246)
260 PRK10141 DNA-binding transcrip 81.1 2.3 5E-05 31.7 3.6 51 2-59 20-76 (117)
261 COG0220 Predicted S-adenosylme 81.0 1.6 3.5E-05 36.4 3.1 20 151-170 144-163 (227)
262 PF13404 HTH_AsnC-type: AsnC-t 80.5 2.4 5.3E-05 25.4 3.0 33 3-42 8-40 (42)
263 PRK13239 alkylmercury lyase; P 80.4 2.6 5.6E-05 34.6 4.0 37 3-46 27-63 (206)
264 PF00325 Crp: Bacterial regula 80.3 1.6 3.5E-05 24.7 1.9 26 15-44 2-27 (32)
265 COG4122 Predicted O-methyltran 79.8 3.9 8.5E-05 34.0 5.0 37 134-176 134-170 (219)
266 PF02002 TFIIE_alpha: TFIIE al 79.4 1.9 4.1E-05 31.2 2.7 37 3-46 18-54 (105)
267 PLN02589 caffeoyl-CoA O-methyl 79.4 2.1 4.6E-05 36.2 3.3 35 134-174 158-192 (247)
268 PRK02399 hypothetical protein; 79.4 9 0.00019 34.8 7.4 109 102-229 90-222 (406)
269 PF13601 HTH_34: Winged helix 79.2 1.6 3.5E-05 30.1 2.1 54 2-62 4-67 (80)
270 PRK11512 DNA-binding transcrip 79.1 4.8 0.0001 30.7 5.0 54 4-64 46-108 (144)
271 PF12802 MarR_2: MarR family; 79.1 1.7 3.7E-05 27.8 2.1 38 4-46 11-48 (62)
272 PF07091 FmrO: Ribosomal RNA m 78.9 3.4 7.4E-05 35.0 4.4 88 85-178 76-169 (251)
273 PF01726 LexA_DNA_bind: LexA D 78.9 2.2 4.8E-05 28.3 2.6 35 7-46 19-53 (65)
274 PRK03573 transcriptional regul 78.7 5.7 0.00012 30.2 5.4 47 14-64 45-100 (144)
275 PF03514 GRAS: GRAS domain fam 78.6 20 0.00043 32.2 9.5 25 96-121 99-123 (374)
276 PF01638 HxlR: HxlR-like helix 78.3 3.5 7.7E-05 28.9 3.7 53 4-64 11-73 (90)
277 smart00344 HTH_ASNC helix_turn 78.2 2.6 5.7E-05 30.3 3.2 37 3-46 8-44 (108)
278 smart00345 HTH_GNTR helix_turn 78.1 3.7 8.1E-05 25.6 3.5 29 14-46 18-47 (60)
279 PF00398 RrnaAD: Ribosomal RNA 78.1 4 8.7E-05 34.6 4.7 25 96-121 19-43 (262)
280 PF01269 Fibrillarin: Fibrilla 77.9 4.3 9.4E-05 33.8 4.6 107 106-238 71-226 (229)
281 PF06792 UPF0261: Uncharacteri 77.8 4.5 9.7E-05 36.7 5.0 127 83-229 72-221 (403)
282 PF00126 HTH_1: Bacterial regu 77.4 2.2 4.7E-05 27.5 2.2 51 2-61 5-60 (60)
283 PF11972 HTH_13: HTH DNA bindi 77.3 4.5 9.9E-05 25.8 3.6 46 3-55 4-49 (54)
284 PHA02591 hypothetical protein; 77.2 3.5 7.5E-05 28.3 3.2 32 3-42 51-82 (83)
285 PRK01544 bifunctional N5-gluta 76.6 4 8.7E-05 38.3 4.6 14 108-121 347-360 (506)
286 KOG3191 Predicted N6-DNA-methy 76.5 4.2 9.1E-05 32.9 4.0 32 205-238 173-207 (209)
287 smart00531 TFIIE Transcription 76.4 3.7 8.1E-05 31.7 3.7 36 3-45 6-41 (147)
288 smart00529 HTH_DTXR Helix-turn 76.3 4.9 0.00011 28.1 4.1 43 18-64 2-47 (96)
289 PF01047 MarR: MarR family; I 76.1 2 4.3E-05 27.2 1.8 36 4-46 9-44 (59)
290 COG0357 GidB Predicted S-adeno 75.6 4.6 9.9E-05 33.5 4.2 13 109-121 68-80 (215)
291 PF06163 DUF977: Bacterial pro 74.9 4.2 9.1E-05 30.6 3.4 37 3-46 17-53 (127)
292 COG4190 Predicted transcriptio 74.5 3 6.4E-05 31.7 2.5 37 3-46 69-105 (144)
293 COG4353 Uncharacterized conser 74.0 13 0.00028 29.3 6.0 61 150-229 72-132 (192)
294 COG1321 TroR Mn-dependent tran 73.2 7.1 0.00015 30.5 4.5 47 14-64 23-72 (154)
295 KOG2539 Mitochondrial/chloropl 73.0 2.4 5.1E-05 39.0 2.0 41 134-174 276-318 (491)
296 TIGR01889 Staph_reg_Sar staphy 73.0 9.2 0.0002 27.8 4.9 47 14-64 42-97 (109)
297 TIGR00095 RNA methyltransferas 73.0 4.1 8.9E-05 32.9 3.3 13 109-121 50-62 (189)
298 PF07789 DUF1627: Protein of u 72.2 5 0.00011 31.1 3.3 29 14-46 5-33 (155)
299 TIGR01610 phage_O_Nterm phage 72.2 5.1 0.00011 28.5 3.3 40 14-57 46-89 (95)
300 PF04967 HTH_10: HTH DNA bindi 72.2 5.6 0.00012 25.2 3.1 26 14-43 22-47 (53)
301 PF13936 HTH_38: Helix-turn-he 72.0 5.1 0.00011 24.1 2.8 24 14-41 19-42 (44)
302 PRK09775 putative DNA-binding 70.8 5 0.00011 37.0 3.6 50 4-61 6-59 (442)
303 PF04539 Sigma70_r3: Sigma-70 70.7 4.3 9.2E-05 27.4 2.5 29 14-46 19-47 (78)
304 PRK04214 rbn ribonuclease BN/u 70.5 6 0.00013 36.0 4.1 43 14-60 309-354 (412)
305 PRK04172 pheS phenylalanyl-tRN 70.4 6.8 0.00015 36.6 4.5 55 3-64 11-70 (489)
306 PRK14165 winged helix-turn-hel 70.1 9.1 0.0002 31.8 4.7 47 14-64 20-72 (217)
307 COG4367 Uncharacterized protei 70.0 5.4 0.00012 28.0 2.8 25 14-42 22-46 (97)
308 TIGR00637 ModE_repress ModE mo 69.6 6.5 0.00014 28.3 3.4 54 2-64 8-71 (99)
309 PRK10870 transcriptional repre 69.4 11 0.00024 30.0 5.0 47 14-64 70-125 (176)
310 TIGR01884 cas_HTH CRISPR locus 68.5 7 0.00015 31.8 3.8 42 14-59 156-202 (203)
311 COG3695 Predicted methylated D 68.4 6.7 0.00015 28.3 3.1 53 3-57 11-70 (103)
312 COG4565 CitB Response regulato 68.3 6 0.00013 32.7 3.2 30 13-46 171-200 (224)
313 PHA02943 hypothetical protein; 67.9 6.6 0.00014 30.6 3.2 36 3-46 16-51 (165)
314 PHA00738 putative HTH transcri 67.3 5.3 0.00012 29.2 2.5 38 2-46 16-53 (108)
315 smart00342 HTH_ARAC helix_turn 67.2 7.8 0.00017 25.6 3.3 28 15-46 1-28 (84)
316 cd01842 SGNH_hydrolase_like_5 67.1 8.5 0.00018 30.9 3.8 37 134-170 52-98 (183)
317 PF08784 RPA_C: Replication pr 66.8 5.7 0.00012 28.5 2.6 40 3-46 52-92 (102)
318 KOG4589 Cell division protein 66.6 23 0.00049 29.0 6.1 68 99-174 60-146 (232)
319 COG1378 Predicted transcriptio 66.6 12 0.00025 31.8 4.8 46 14-63 29-79 (247)
320 KOG2904 Predicted methyltransf 66.4 16 0.00035 31.6 5.5 61 106-172 146-206 (328)
321 COG2263 Predicted RNA methylas 66.3 3.6 7.8E-05 33.4 1.6 108 107-226 44-167 (198)
322 PF13443 HTH_26: Cro/C1-type H 66.3 4.3 9.4E-05 26.0 1.7 30 4-41 3-32 (63)
323 cd06445 ATase The DNA repair p 66.2 9.3 0.0002 26.1 3.5 40 3-44 5-44 (79)
324 PF04545 Sigma70_r4: Sigma-70, 66.0 6.7 0.00015 24.0 2.5 26 14-43 19-44 (50)
325 TIGR00498 lexA SOS regulatory 65.5 8.2 0.00018 31.1 3.6 38 14-55 24-64 (199)
326 PTZ00326 phenylalanyl-tRNA syn 65.4 9.9 0.00022 35.5 4.4 59 3-67 11-74 (494)
327 PF13542 HTH_Tnp_ISL3: Helix-t 64.9 10 0.00022 23.3 3.2 25 15-43 27-51 (52)
328 PF01418 HTH_6: Helix-turn-hel 64.8 7.6 0.00016 26.4 2.8 27 14-44 33-59 (77)
329 COG0030 KsgA Dimethyladenosine 64.3 12 0.00026 31.9 4.5 25 96-121 19-43 (259)
330 TIGR01764 excise DNA binding d 64.2 8.2 0.00018 22.9 2.6 23 16-42 2-24 (49)
331 PF00356 LacI: Bacterial regul 64.2 5.5 0.00012 24.4 1.8 21 17-41 1-21 (46)
332 PF04816 DUF633: Family of unk 63.7 14 0.0003 30.3 4.6 79 123-238 54-138 (205)
333 PRK11179 DNA-binding transcrip 63.6 9.5 0.00021 29.5 3.5 37 3-46 14-50 (153)
334 TIGR02531 yecD_yerC TrpR-relat 63.2 8.7 0.00019 27.1 2.9 26 15-44 50-75 (88)
335 PF13545 HTH_Crp_2: Crp-like h 63.2 7 0.00015 26.0 2.4 40 14-57 27-68 (76)
336 PF13679 Methyltransf_32: Meth 62.8 6 0.00013 30.1 2.2 16 106-121 23-38 (141)
337 PF13384 HTH_23: Homeodomain-l 62.7 6.4 0.00014 24.0 1.9 25 15-43 17-41 (50)
338 PF12728 HTH_17: Helix-turn-he 62.7 8.8 0.00019 23.5 2.6 22 16-41 2-23 (51)
339 PF00392 GntR: Bacterial regul 62.5 6.3 0.00014 25.6 2.0 30 13-46 21-51 (64)
340 PF07109 Mg-por_mtran_C: Magne 62.4 56 0.0012 23.5 6.9 82 141-239 4-97 (97)
341 PF06557 DUF1122: Protein of u 62.3 20 0.00044 28.3 5.0 61 150-229 65-125 (170)
342 PF01325 Fe_dep_repress: Iron 61.9 8 0.00017 25.0 2.3 29 14-46 21-49 (60)
343 PF13518 HTH_28: Helix-turn-he 61.7 8.3 0.00018 23.5 2.4 26 16-45 13-38 (52)
344 COG0500 SmtA SAM-dependent met 61.6 15 0.00032 26.4 4.1 40 134-176 121-160 (257)
345 COG3432 Predicted transcriptio 61.3 8.9 0.00019 27.5 2.6 56 3-64 20-82 (95)
346 PRK10219 DNA-binding transcrip 61.3 11 0.00024 26.9 3.3 29 14-46 20-48 (107)
347 PLN02853 Probable phenylalanyl 61.0 13 0.00028 34.7 4.3 58 3-67 8-71 (492)
348 PRK14481 dihydroxyacetone kina 60.9 26 0.00057 31.0 6.0 16 106-121 41-56 (331)
349 PF10668 Phage_terminase: Phag 60.5 12 0.00027 24.3 3.0 22 14-39 21-42 (60)
350 TIGR02363 dhaK1 dihydroxyaceto 60.5 27 0.00059 30.9 6.0 61 108-172 44-106 (329)
351 cd07377 WHTH_GntR Winged helix 60.4 19 0.00041 22.7 4.1 27 16-46 26-52 (66)
352 PRK11169 leucine-responsive tr 60.4 9.8 0.00021 29.9 3.1 37 3-46 19-55 (164)
353 cd04762 HTH_MerR-trunc Helix-T 60.0 10 0.00023 22.3 2.6 24 16-43 1-24 (49)
354 PF08221 HTH_9: RNA polymerase 60.0 7.3 0.00016 25.4 1.9 36 3-45 18-53 (62)
355 PF12793 SgrR_N: Sugar transpo 59.6 9.4 0.0002 28.3 2.7 29 14-46 18-46 (115)
356 TIGR00006 S-adenosyl-methyltra 58.8 12 0.00026 32.7 3.6 30 147-176 216-245 (305)
357 PRK06474 hypothetical protein; 58.7 10 0.00023 30.3 3.0 39 2-46 15-54 (178)
358 TIGR03339 phn_lysR aminoethylp 58.6 15 0.00032 30.6 4.1 55 1-64 2-61 (279)
359 PRK10094 DNA-binding transcrip 58.3 12 0.00025 32.3 3.5 55 1-64 7-66 (308)
360 PF08280 HTH_Mga: M protein tr 57.5 9.8 0.00021 24.4 2.2 37 3-46 10-46 (59)
361 PF08281 Sigma70_r4_2: Sigma-7 56.9 13 0.00029 22.9 2.7 24 14-41 25-48 (54)
362 smart00421 HTH_LUXR helix_turn 56.5 17 0.00038 22.0 3.3 28 14-45 17-44 (58)
363 TIGR01321 TrpR trp operon repr 56.4 12 0.00026 26.8 2.6 37 2-46 46-82 (94)
364 PF03374 ANT: Phage antirepres 56.1 15 0.00033 26.5 3.3 33 4-42 15-47 (111)
365 TIGR03879 near_KaiC_dom probab 56.0 12 0.00026 25.4 2.5 28 14-45 31-58 (73)
366 COG0275 Predicted S-adenosylme 56.0 16 0.00035 31.9 3.8 30 147-176 220-249 (314)
367 TIGR02844 spore_III_D sporulat 55.8 14 0.00031 25.5 2.8 30 3-40 11-40 (80)
368 PRK11511 DNA-binding transcrip 55.5 15 0.00033 27.4 3.3 37 5-46 16-52 (127)
369 COG1522 Lrp Transcriptional re 55.2 16 0.00034 27.9 3.4 37 3-46 13-49 (154)
370 PRK00050 16S rRNA m(4)C1402 me 54.9 15 0.00033 31.9 3.6 37 140-176 205-241 (296)
371 PRK05638 threonine synthase; V 54.4 18 0.00039 33.3 4.1 54 3-64 376-438 (442)
372 TIGR00589 ogt O-6-methylguanin 53.9 20 0.00044 24.7 3.4 38 3-42 7-44 (80)
373 TIGR03418 chol_sulf_TF putativ 53.8 16 0.00034 30.9 3.5 55 1-64 6-65 (291)
374 PF01381 HTH_3: Helix-turn-hel 53.8 14 0.0003 22.8 2.4 25 14-42 8-32 (55)
375 cd06170 LuxR_C_like C-terminal 53.6 21 0.00046 21.7 3.3 28 14-45 14-41 (57)
376 PRK03601 transcriptional regul 53.3 16 0.00034 30.9 3.4 54 2-64 7-65 (275)
377 PRK14483 DhaKLM operon coactiv 53.0 43 0.00094 29.6 6.1 16 106-121 40-55 (329)
378 TIGR03826 YvyF flagellar opero 53.0 18 0.00038 27.8 3.2 34 3-41 35-68 (137)
379 COG1675 TFA1 Transcription ini 53.0 17 0.00036 29.2 3.2 37 3-46 23-59 (176)
380 TIGR02362 dhaK1b probable dihy 52.6 44 0.00095 29.6 6.0 16 106-121 38-53 (326)
381 PRK10046 dpiA two-component re 52.6 16 0.00034 29.9 3.2 28 15-46 177-204 (225)
382 PRK03522 rumB 23S rRNA methylu 52.2 12 0.00025 32.7 2.5 14 108-121 173-186 (315)
383 PF10078 DUF2316: Uncharacteri 52.2 13 0.00029 26.3 2.2 25 14-42 22-46 (89)
384 COG1510 Predicted transcriptio 52.1 18 0.00038 28.9 3.1 29 14-46 40-68 (177)
385 PRK14997 LysR family transcrip 51.8 18 0.00039 30.7 3.6 55 1-64 7-66 (301)
386 PF01728 FtsJ: FtsJ-like methy 51.8 13 0.00029 29.2 2.6 26 96-121 9-36 (181)
387 PRK13509 transcriptional repre 51.4 17 0.00037 30.7 3.3 37 3-46 10-46 (251)
388 PRK01381 Trp operon repressor; 51.2 9.9 0.00021 27.4 1.5 37 2-46 46-82 (99)
389 PF05732 RepL: Firmicute plasm 51.2 18 0.00039 28.6 3.2 41 16-60 76-119 (165)
390 PHA00542 putative Cro-like pro 51.1 17 0.00037 25.0 2.7 25 14-42 30-54 (82)
391 cd06171 Sigma70_r4 Sigma70, re 50.8 22 0.00048 21.0 3.0 25 14-42 25-49 (55)
392 PRK11062 nhaR transcriptional 50.7 21 0.00045 30.4 3.8 55 1-64 9-68 (296)
393 PF13730 HTH_36: Helix-turn-he 50.1 19 0.00041 22.3 2.6 25 17-45 27-51 (55)
394 PF13744 HTH_37: Helix-turn-he 49.9 13 0.00027 25.5 1.9 24 14-41 30-53 (80)
395 TIGR02361 dak_ATP dihydroxyace 49.7 45 0.00097 31.9 6.1 16 106-121 39-54 (574)
396 COG2512 Predicted membrane-ass 49.7 17 0.00038 30.9 3.1 38 3-46 200-237 (258)
397 PRK04217 hypothetical protein; 49.6 23 0.00051 26.0 3.3 28 14-45 57-84 (110)
398 PF01035 DNA_binding_1: 6-O-me 49.4 16 0.00034 25.5 2.3 38 3-42 7-44 (85)
399 PRK04424 fatty acid biosynthes 49.4 17 0.00037 29.2 2.8 37 3-46 12-48 (185)
400 PF10017 Methyltransf_33: Hist 49.1 27 0.00059 26.2 3.7 32 201-234 93-125 (127)
401 PTZ00375 dihydroxyacetone kina 49.1 45 0.00098 31.9 5.9 63 106-172 43-107 (584)
402 PF01710 HTH_Tnp_IS630: Transp 48.9 25 0.00055 25.9 3.5 29 14-46 70-98 (119)
403 PRK09906 DNA-binding transcrip 48.5 20 0.00044 30.3 3.3 54 2-64 7-65 (296)
404 PRK10411 DNA-binding transcrip 48.3 22 0.00048 29.8 3.5 37 3-46 9-45 (240)
405 PRK11886 bifunctional biotin-- 48.2 18 0.0004 31.5 3.1 37 3-46 9-45 (319)
406 PF14394 DUF4423: Domain of un 47.9 27 0.00059 27.7 3.7 43 14-60 38-85 (171)
407 PF03059 NAS: Nicotianamine sy 47.8 24 0.00052 30.4 3.6 36 134-170 194-229 (276)
408 COG1846 MarR Transcriptional r 47.5 43 0.00094 23.8 4.6 53 5-64 29-90 (126)
409 PF13022 HTH_Tnp_1_2: Helix-tu 47.4 16 0.00034 28.1 2.2 24 14-41 33-56 (142)
410 KOG2352 Predicted spermine/spe 47.2 39 0.00084 31.5 5.0 56 124-179 103-171 (482)
411 cd04761 HTH_MerR-SF Helix-Turn 47.2 22 0.00047 21.2 2.5 22 16-41 1-22 (49)
412 PRK09986 DNA-binding transcrip 47.1 22 0.00047 30.0 3.3 55 1-64 12-71 (294)
413 CHL00180 rbcR LysR transcripti 47.0 19 0.00042 30.7 3.0 55 1-64 10-69 (305)
414 TIGR02085 meth_trns_rumB 23S r 46.8 7.6 0.00017 34.9 0.5 14 108-121 233-246 (374)
415 TIGR00479 rumA 23S rRNA (uraci 46.8 8.6 0.00019 35.1 0.8 22 99-121 284-305 (431)
416 PRK11468 dihydroxyacetone kina 46.7 57 0.0012 29.2 5.9 14 108-121 43-56 (356)
417 PF01795 Methyltransf_5: MraW 46.6 13 0.00029 32.5 1.9 27 148-174 218-244 (310)
418 TIGR02036 dsdC D-serine deamin 46.6 22 0.00048 30.4 3.3 54 2-64 14-72 (302)
419 PHA02701 ORF020 dsRNA-binding 46.5 28 0.0006 28.1 3.5 37 3-45 9-45 (183)
420 TIGR01444 fkbM_fam methyltrans 46.3 10 0.00022 28.4 1.1 44 111-160 1-44 (143)
421 PRK09791 putative DNA-binding 46.2 19 0.00041 30.6 2.8 55 1-64 10-69 (302)
422 PRK13777 transcriptional regul 46.1 53 0.0012 26.5 5.2 53 5-64 52-113 (185)
423 PF06971 Put_DNA-bind_N: Putat 46.0 9 0.00019 24.0 0.6 30 4-38 18-47 (50)
424 PF07120 DUF1376: Protein of u 45.9 35 0.00076 23.8 3.7 46 14-63 37-85 (88)
425 PRK11233 nitrogen assimilation 45.6 24 0.00052 30.2 3.4 54 2-64 7-65 (305)
426 PRK10906 DNA-binding transcrip 45.4 21 0.00045 30.2 2.9 37 3-46 10-46 (252)
427 KOG4058 Uncharacterized conser 45.3 85 0.0018 24.7 5.9 24 97-121 62-85 (199)
428 PF05344 DUF746: Domain of Unk 44.9 31 0.00067 22.8 3.0 29 14-46 12-40 (65)
429 PRK10681 DNA-binding transcrip 44.7 26 0.00057 29.5 3.4 37 3-46 12-48 (252)
430 PF08535 KorB: KorB domain; I 44.7 21 0.00047 25.0 2.5 28 14-45 2-29 (93)
431 PRK11242 DNA-binding transcrip 44.6 26 0.00057 29.5 3.4 55 1-64 6-65 (296)
432 PF03444 HrcA_DNA-bdg: Winged 44.5 62 0.0013 22.3 4.5 44 14-61 22-70 (78)
433 KOG2918 Carboxymethyl transfer 44.3 65 0.0014 28.4 5.7 80 135-228 191-278 (335)
434 KOG2426 Dihydroxyacetone kinas 44.1 34 0.00074 31.8 4.1 62 109-176 47-112 (582)
435 PRK10632 transcriptional regul 44.1 30 0.00066 29.6 3.8 55 1-64 7-66 (309)
436 PRK10837 putative DNA-binding 44.1 29 0.00064 29.1 3.7 55 2-65 9-68 (290)
437 PRK10082 cell density-dependen 44.0 25 0.00053 30.0 3.2 54 2-64 17-75 (303)
438 COG4977 Transcriptional regula 43.8 23 0.00051 31.3 3.0 30 13-46 234-263 (328)
439 PF04218 CENP-B_N: CENP-B N-te 43.6 14 0.00031 23.2 1.2 23 14-41 22-44 (53)
440 COG1654 BirA Biotin operon rep 43.1 25 0.00055 24.2 2.5 43 14-60 18-64 (79)
441 PRK09802 DNA-binding transcrip 43.0 24 0.00052 30.2 2.9 37 3-46 22-58 (269)
442 PRK11139 DNA-binding transcrip 42.9 29 0.00063 29.4 3.5 54 2-64 12-70 (297)
443 TIGR02424 TF_pcaQ pca operon t 42.9 22 0.00049 30.1 2.8 54 2-64 9-67 (300)
444 TIGR03070 couple_hipB transcri 42.8 27 0.00058 21.4 2.5 23 14-40 14-36 (58)
445 PF00196 GerE: Bacterial regul 42.5 23 0.00051 22.3 2.2 33 3-44 11-43 (58)
446 TIGR02607 antidote_HigA addict 42.4 33 0.00071 22.8 3.0 23 14-40 17-39 (78)
447 PF12298 Bot1p: Eukaryotic mit 42.3 33 0.00071 27.4 3.4 27 14-44 32-58 (172)
448 COG1189 Predicted rRNA methyla 42.2 65 0.0014 27.2 5.2 73 145-228 152-225 (245)
449 PF07381 DUF1495: Winged helix 42.1 32 0.00069 24.4 2.9 35 3-42 14-48 (90)
450 PRK14096 pgi glucose-6-phospha 42.0 33 0.00072 32.4 3.9 31 14-46 477-507 (528)
451 PRK09954 putative kinase; Prov 42.0 44 0.00095 29.5 4.6 51 3-60 8-58 (362)
452 PRK11161 fumarate/nitrate redu 41.9 35 0.00076 27.9 3.7 40 15-58 184-225 (235)
453 PRK14479 dihydroxyacetone kina 41.8 67 0.0015 30.7 5.9 16 106-121 40-55 (568)
454 smart00354 HTH_LACI helix_turn 41.5 23 0.0005 23.4 2.1 21 16-40 1-21 (70)
455 PF05430 Methyltransf_30: S-ad 41.4 41 0.00089 25.2 3.7 28 212-239 96-123 (124)
456 PRK15092 DNA-binding transcrip 41.0 29 0.00064 29.9 3.2 55 1-64 16-75 (310)
457 PF00440 TetR_N: Bacterial reg 40.9 23 0.00051 21.2 1.9 21 14-38 15-35 (47)
458 PRK11013 DNA-binding transcrip 40.8 30 0.00066 29.6 3.3 55 1-64 9-68 (309)
459 PF01475 FUR: Ferric uptake re 40.5 22 0.00047 26.1 2.0 42 3-46 13-55 (120)
460 PRK10512 selenocysteinyl-tRNA- 40.3 42 0.00091 32.4 4.4 83 14-104 505-591 (614)
461 PRK00118 putative DNA-binding 40.3 32 0.00068 25.1 2.8 25 14-42 32-56 (104)
462 PF07037 DUF1323: Putative tra 40.2 29 0.00064 25.9 2.6 23 16-42 1-23 (122)
463 PF10007 DUF2250: Uncharacteri 40.2 51 0.0011 23.4 3.7 37 3-46 12-48 (92)
464 PRK11074 putative DNA-binding 40.1 27 0.0006 29.7 2.9 55 1-64 7-66 (300)
465 PF02733 Dak1: Dak1 domain; I 39.7 70 0.0015 28.3 5.3 63 106-172 25-89 (325)
466 PRK04338 N(2),N(2)-dimethylgua 39.6 25 0.00053 31.8 2.6 20 151-170 138-157 (382)
467 PF13551 HTH_29: Winged helix- 39.5 34 0.00074 24.2 2.9 26 17-46 14-39 (112)
468 COG1733 Predicted transcriptio 39.5 76 0.0016 23.6 4.8 47 14-64 35-91 (120)
469 PF04182 B-block_TFIIIC: B-blo 39.4 37 0.00081 22.8 2.9 39 3-46 7-45 (75)
470 KOG1099 SAM-dependent methyltr 38.8 29 0.00064 29.3 2.7 37 133-169 116-161 (294)
471 PRK10341 DNA-binding transcrip 38.8 32 0.00069 29.5 3.1 54 2-64 13-71 (312)
472 PF04760 IF2_N: Translation in 38.6 13 0.00029 23.2 0.6 23 14-40 2-24 (54)
473 COG0503 Apt Adenine/guanine ph 38.6 59 0.0013 26.0 4.4 47 152-226 104-150 (179)
474 PF06056 Terminase_5: Putative 38.6 40 0.00086 21.7 2.8 24 14-41 12-35 (58)
475 COG3645 Uncharacterized phage- 38.4 35 0.00075 26.0 2.8 33 4-42 38-70 (135)
476 COG4262 Predicted spermidine s 38.2 26 0.00057 31.6 2.4 16 106-121 287-302 (508)
477 PF10354 DUF2431: Domain of un 38.1 1E+02 0.0023 24.2 5.7 51 150-229 104-154 (166)
478 PF09821 AAA_assoc_C: C-termin 37.9 40 0.00087 25.1 3.1 41 20-64 2-44 (120)
479 PRK15421 DNA-binding transcrip 37.8 36 0.00078 29.4 3.3 55 1-64 7-66 (317)
480 TIGR00635 ruvB Holliday juncti 37.7 37 0.00079 29.1 3.3 29 14-46 254-283 (305)
481 PRK11642 exoribonuclease R; Pr 37.6 40 0.00088 33.7 3.9 54 3-58 24-80 (813)
482 PRK09462 fur ferric uptake reg 37.6 64 0.0014 24.7 4.3 43 3-46 22-65 (148)
483 PF13578 Methyltransf_24: Meth 37.6 24 0.00052 25.0 1.8 36 134-172 71-106 (106)
484 PRK09334 30S ribosomal protein 37.5 30 0.00066 24.3 2.2 29 14-46 40-68 (86)
485 PHA01976 helix-turn-helix prot 37.2 37 0.0008 21.8 2.6 23 14-40 14-36 (67)
486 PRK09801 transcriptional activ 37.2 37 0.0008 29.2 3.3 54 2-64 12-70 (310)
487 PRK11534 DNA-binding transcrip 37.1 53 0.0012 26.8 4.1 41 12-56 27-71 (224)
488 KOG2793 Putative N2,N2-dimethy 37.1 69 0.0015 27.2 4.7 16 106-121 83-99 (248)
489 PRK11151 DNA-binding transcrip 37.1 39 0.00085 28.7 3.4 55 1-64 6-65 (305)
490 smart00422 HTH_MERR helix_turn 37.0 36 0.00078 22.0 2.5 22 16-41 1-22 (70)
491 PRK10434 srlR DNA-bindng trans 36.9 32 0.00069 29.1 2.7 37 3-46 10-46 (256)
492 TIGR00180 parB_part ParB-like 36.7 38 0.00081 27.1 3.0 27 14-44 119-145 (187)
493 PRK12423 LexA repressor; Provi 36.5 37 0.00081 27.5 3.0 29 15-46 25-53 (202)
494 smart00530 HTH_XRE Helix-turn- 36.3 48 0.001 19.0 2.9 23 14-40 9-31 (56)
495 PF13413 HTH_25: Helix-turn-he 36.2 40 0.00087 21.9 2.5 21 14-38 9-29 (62)
496 PF10771 DUF2582: Protein of u 36.0 30 0.00065 22.9 1.9 37 3-46 13-49 (65)
497 PRK09685 DNA-binding transcrip 35.9 31 0.00066 29.5 2.5 24 15-42 214-237 (302)
498 PRK09508 leuO leucine transcri 35.7 39 0.00085 29.0 3.2 54 2-64 28-86 (314)
499 PRK10086 DNA-binding transcrip 35.4 37 0.0008 29.1 3.0 55 1-64 19-78 (311)
500 PF13411 MerR_1: MerR HTH fami 35.3 38 0.00082 21.8 2.4 24 17-44 2-25 (69)
No 1
>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]
Probab=100.00 E-value=3e-39 Score=277.33 Aligned_cols=231 Identities=39% Similarity=0.646 Sum_probs=200.4
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCC-CCCCChhhHHHHHHHhccC---CC---CCCCeEecChhhHHHH---------
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPS-HNPNAAVMLDRVLRRSLSS---AG---DDRRLQRLAPVAKYVL--------- 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~-~~~~~~~~l~rlL~~L~~~---~~---~~~~~y~~t~~s~~l~--------- 64 (239)
|||||+|++++ + ..|||..+.. .++.+|..++|+||.|++. .. ... .|+++|.+++++
T Consensus 29 L~v~d~l~~~~---~--p~~ia~~l~~~~~~~~p~ll~r~lr~L~s~~i~k~~~~~~~-~Y~~~~~~~~~l~~~~~~S~a 102 (342)
T KOG3178|consen 29 LGVFDILANAG---S--PSEIASLLPTPKNPEAPVLLDRILRLLVSYSILKCRLVGGE-VYSATPVCKYFLKDSGGGSLA 102 (342)
T ss_pred cChHHHHHhCC---C--HHHHHHhccCCCCCCChhHHHHHHHHHHHhhhceeeeecce-eeeccchhhhheecCCCCchh
Confidence 79999999954 2 7788887773 3566899999999999997 11 123 899999988776
Q ss_pred -------------------------------hcCCCcccccccCchHHHHHHHHHHhcccccHHHHHhhccCCCCcceEE
Q 045543 65 -------------------------------HYGIGDYEHAGLDSRFNEVLNTAMLSHNSIVMNRILDYYKGFEKIKQLV 113 (239)
Q Consensus 65 -------------------------------~~g~~~~~~l~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vl 113 (239)
++|+.+|+|...++.....|+++|...+....+.+++.|.+|+....+|
T Consensus 103 ~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~G~~l~~~~~~~~~~~~~~~~sm~~l~~~~~~~il~~~~Gf~~v~~av 182 (342)
T KOG3178|consen 103 PLVLLNTSKVIMNTWQFLKDAILEGGDAFATAHGMMLGGYGGADERFSKDFNGSMSFLSTLVMKKILEVYTGFKGVNVAV 182 (342)
T ss_pred HHHHHhcccchhhhHHHHHHHHHhcccCCccccchhhhhhcccccccHHHHHHHHHHHHHHHHHhhhhhhcccccCceEE
Confidence 3466778888888888889999999999998889999999999999999
Q ss_pred EeCCCCCC-----------------------------------CccccccccCCcceeeechhhhcCChhHHHHHHHHHH
Q 045543 114 DVGGGCGK-----------------------------------CGWKMFQKILNGDAILMKLILRNWDDEHCLSLLKNCY 158 (239)
Q Consensus 114 DvGGG~G~-----------------------------------~~gD~~~~~p~~D~~~l~~vlH~~~d~~~~~iL~~~~ 158 (239)
|||||.|. +.||+|++.|++|+|+++||||||+|++|++||+||+
T Consensus 183 DvGgGiG~v~k~ll~~fp~ik~infdlp~v~~~a~~~~~gV~~v~gdmfq~~P~~daI~mkWiLhdwtDedcvkiLknC~ 262 (342)
T KOG3178|consen 183 DVGGGIGRVLKNLLSKYPHIKGINFDLPFVLAAAPYLAPGVEHVAGDMFQDTPKGDAIWMKWILHDWTDEDCVKILKNCK 262 (342)
T ss_pred EcCCcHhHHHHHHHHhCCCCceeecCHHHHHhhhhhhcCCcceecccccccCCCcCeEEEEeecccCChHHHHHHHHHHH
Confidence 99999999 6789999999999999999999999999999999999
Q ss_pred hhCCCCceEEEEeeecCC-CCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEEEcCCceeEEEE
Q 045543 159 EAIPGNGKIIIIDSTTVV-IPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYESFVCNFYIMEF 237 (239)
Q Consensus 159 ~aL~pgg~lli~d~~~~~-~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~~~~~vie~ 237 (239)
++|+|||+|+|+|.+.++ .............+|+.|++.+++|++|+.+|| +.++.++||....+.-.+...++||+
T Consensus 263 ~sL~~~GkIiv~E~V~p~e~~~dd~~s~v~~~~d~lm~~~~~~Gkert~~e~--q~l~~~~gF~~~~~~~~~~~~~~Ie~ 340 (342)
T KOG3178|consen 263 KSLPPGGKIIVVENVTPEEDKFDDIDSSVTRDMDLLMLTQTSGGKERTLKEF--QALLPEEGFPVCMVALTAYSYSVIEF 340 (342)
T ss_pred HhCCCCCEEEEEeccCCCCCCccccccceeehhHHHHHHHhccceeccHHHH--HhcchhhcCceeEEEeccCccchhee
Confidence 999999999999999886 222211234457799999999988999999999 99999999999999988888999999
Q ss_pred EC
Q 045543 238 IK 239 (239)
Q Consensus 238 ~k 239 (239)
+|
T Consensus 341 ~k 342 (342)
T KOG3178|consen 341 HK 342 (342)
T ss_pred CC
Confidence 87
No 2
>PF00891 Methyltransf_2: O-methyltransferase; InterPro: IPR001077 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This domain includes a range of O-methyltransferases some of which utilise S-adenosyl methionine as substrate []. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. In eukaryotes, DNA methylation has been implicated in the control of several cellular processes, including differentiation, gene regulation, and embryonic development. O-methyltransferases have a common catalytic domain structure, which might be universal among S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases []. Comparative analysis of the predicted amino acid sequences of a number of plant O-methyltransferase cDNA clones show that they share some 32-71% sequence identity, and can be grouped according to the different compounds they utilise as substrates [].; GO: 0008171 O-methyltransferase activity; PDB: 1FPQ_A 1FP1_D 3P9K_B 3P9I_D 3P9C_A 3I53_A 3I5U_A 3I64_A 3I58_A 1ZG3_A ....
Probab=100.00 E-value=2.1e-36 Score=254.86 Aligned_cols=147 Identities=29% Similarity=0.521 Sum_probs=128.5
Q ss_pred cCCCcccccccCchHHHHHHHHHHhcccccH-HHHHhhccCCCCcceEEEeCCCCCC-----------------------
Q 045543 66 YGIGDYEHAGLDSRFNEVLNTAMLSHNSIVM-NRILDYYKGFEKIKQLVDVGGGCGK----------------------- 121 (239)
Q Consensus 66 ~g~~~~~~l~~~~~~~~~f~~~m~~~~~~~~-~~~~~~~~~~~~~~~vlDvGGG~G~----------------------- 121 (239)
+|.++|+++.++|+..+.|+.+|...+...+ +.+...++ |++.++|||||||+|.
T Consensus 58 ~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~d-~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~v~ 136 (241)
T PF00891_consen 58 FGTPFFEYLEEDPELAKRFNAAMAEYSRLNAFDILLEAFD-FSGFKTVVDVGGGSGHFAIALARAYPNLRATVFDLPEVI 136 (241)
T ss_dssp HSS-HHHHHHCSHHHHHHHHHHHHHHHHHHHHHHHHHHST-TTTSSEEEEET-TTSHHHHHHHHHSTTSEEEEEE-HHHH
T ss_pred cCCcHHHhhhhChHHHHHHHHHHHhhhhcchhhhhhcccc-ccCccEEEeccCcchHHHHHHHHHCCCCcceeeccHhhh
Confidence 4677899999999999999999999988877 78888898 9999999999999999
Q ss_pred -----------CccccccccCCcceeeechhhhcCChhHHHHHHHHHHhhCCCC--ceEEEEeeecCCCCCCChhhhhhh
Q 045543 122 -----------CGWKMFQKILNGDAILMKLILRNWDDEHCLSLLKNCYEAIPGN--GKIIIIDSTTVVIPEATPATREAS 188 (239)
Q Consensus 122 -----------~~gD~~~~~p~~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pg--g~lli~d~~~~~~~~~~~~~~~~~ 188 (239)
++||||+++|.+|+|++++|||+|+|++|++||+|++++|+|| |+|+|+|.++++....+.......
T Consensus 137 ~~~~~~~rv~~~~gd~f~~~P~~D~~~l~~vLh~~~d~~~~~iL~~~~~al~pg~~g~llI~e~~~~~~~~~~~~~~~~~ 216 (241)
T PF00891_consen 137 EQAKEADRVEFVPGDFFDPLPVADVYLLRHVLHDWSDEDCVKILRNAAAALKPGKDGRLLIIEMVLPDDRTGPPSAEMDA 216 (241)
T ss_dssp CCHHHTTTEEEEES-TTTCCSSESEEEEESSGGGS-HHHHHHHHHHHHHHSEECTTEEEEEEEEEECSSSSSHHHHHHHH
T ss_pred hccccccccccccccHHhhhccccceeeehhhhhcchHHHHHHHHHHHHHhCCCCCCeEEEEeeccCCCCCCchHHHHHH
Confidence 8999999999999999999999999999999999999999999 999999999999877642221235
Q ss_pred hhhHHHhhccCCccccChhhccHHHHHh
Q 045543 189 SIDIIMLMQLSGEKERTKQEYYGMALTA 216 (239)
Q Consensus 189 ~~dl~ml~~~~~g~~rt~~e~~~~~ll~ 216 (239)
.+|++||+++ +|++||.+|| ++||+
T Consensus 217 ~~dl~ml~~~-~G~~rt~~e~--~~ll~ 241 (241)
T PF00891_consen 217 LFDLNMLVLT-GGKERTEEEW--EALLK 241 (241)
T ss_dssp HHHHHHHHHH-SSS-EEHHHH--HHHHH
T ss_pred HHHHHHHHhc-CCCCcCHHHH--HHHhC
Confidence 8999999998 7999999999 99985
No 3
>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU. Members of this protein family are the S-adenosylmethionine-depenedent C-20 methyltransferase BchU, part of the pathway of bacteriochlorophyll c production in photosynthetic green sulfur bacteria. The position modified by this enzyme represents the difference between bacteriochlorophylls c and d; strains lacking this protein can only produced bacteriochlorophyll d.
Probab=100.00 E-value=1.2e-32 Score=239.66 Aligned_cols=212 Identities=17% Similarity=0.243 Sum_probs=155.7
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CCCCCCeEecChhhHHHHhcCCC---------
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AGDDRRLQRLAPVAKYVLHYGIG--------- 69 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~~~~~~y~~t~~s~~l~~~g~~--------- 69 (239)
|||||+|++ +|+|++|||+++|+ +++.++||||+|+++ .+.++++|+||+.++.|+..+.+
T Consensus 13 Lglfd~L~~----gp~t~~eLA~~~~~----~~~~~~~lL~~L~~lgll~~~~~~y~~t~~~~~~l~~~~~~~~~~~~~~ 84 (306)
T TIGR02716 13 LDLFSHMAE----GPKDLATLAADTGS----VPPRLEMLLETLRQMRVINLEDGKWSLTEFADYMFSPTPKEPNLHQTPV 84 (306)
T ss_pred cCcHHHHhc----CCCCHHHHHHHcCC----ChHHHHHHHHHHHhCCCeEecCCcEecchhHHhhccCCccchhhhcCch
Confidence 799999998 79999999999999 999999999999999 44557899999999776521110
Q ss_pred ----------ccccc----c---------cCch---HHHHHHHHHHhcc-cccHHHHHhhccCCCCcceEEEeCCCCCC-
Q 045543 70 ----------DYEHA----G---------LDSR---FNEVLNTAMLSHN-SIVMNRILDYYKGFEKIKQLVDVGGGCGK- 121 (239)
Q Consensus 70 ----------~~~~l----~---------~~~~---~~~~f~~~m~~~~-~~~~~~~~~~~~~~~~~~~vlDvGGG~G~- 121 (239)
.|..+ . ..|+ ....|...|.... ....+.+++.++ +++..+|||||||+|.
T Consensus 85 ~~~~~~~~~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~vlDiG~G~G~~ 163 (306)
T TIGR02716 85 AKAMAFLADDFYMGLSQAVRGQKNFKGQVPYPPVTREDNLYFEEIHRSNAKFAIQLLLEEAK-LDGVKKMIDVGGGIGDI 163 (306)
T ss_pred HHHHHHHHHHHHHhHHHHhcCCcccccccCCCCCCHHHHHhHHHHHHhcchhHHHHHHHHcC-CCCCCEEEEeCCchhHH
Confidence 01111 1 1111 1224555554333 334566778888 8999999999999999
Q ss_pred ----------------------------------------Ccccccc-ccCCcceeeechhhhcCChhHHHHHHHHHHhh
Q 045543 122 ----------------------------------------CGWKMFQ-KILNGDAILMKLILRNWDDEHCLSLLKNCYEA 160 (239)
Q Consensus 122 ----------------------------------------~~gD~~~-~~p~~D~~~l~~vlH~~~d~~~~~iL~~~~~a 160 (239)
+.+|+|+ ++|.+|+|++++++|+|+++++.++|++++++
T Consensus 164 ~~~~~~~~p~~~~~~~D~~~~~~~a~~~~~~~gl~~rv~~~~~d~~~~~~~~~D~v~~~~~lh~~~~~~~~~il~~~~~~ 243 (306)
T TIGR02716 164 SAAMLKHFPELDSTILNLPGAIDLVNENAAEKGVADRMRGIAVDIYKESYPEADAVLFCRILYSANEQLSTIMCKKAFDA 243 (306)
T ss_pred HHHHHHHCCCCEEEEEecHHHHHHHHHHHHhCCccceEEEEecCccCCCCCCCCEEEeEhhhhcCChHHHHHHHHHHHHh
Confidence 6789997 66667999999999999999999999999999
Q ss_pred CCCCceEEEEeeecCCCCCCChhhhhhh-hhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEE
Q 045543 161 IPGNGKIIIIDSTTVVIPEATPATREAS-SIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYE 226 (239)
Q Consensus 161 L~pgg~lli~d~~~~~~~~~~~~~~~~~-~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~ 226 (239)
|+|||+|+|+|.+.++...+. ...... ..++.|.... ..-++.+|| .+||+++||+.+++.
T Consensus 244 L~pgG~l~i~d~~~~~~~~~~-~~~~~~~~~~~~~~~~~--~~~~~~~e~--~~ll~~aGf~~v~~~ 305 (306)
T TIGR02716 244 MRSGGRLLILDMVIDDPENPN-FDYLSHYILGAGMPFSV--LGFKEQARY--KEILESLGYKDVTMV 305 (306)
T ss_pred cCCCCEEEEEEeccCCCCCch-hhHHHHHHHHccccccc--ccCCCHHHH--HHHHHHcCCCeeEec
Confidence 999999999999887654332 111111 1112222111 123457999 999999999988754
No 4
>TIGR00740 methyltransferase, putative. A simple BLAST search finds all members of this family and weaker hits to a large number of known and predicted methyltransferases. A single iteration with PSI-BLAST, keeping only clear members of the family, leads to a large number of highly significant hits to a set of known and predicted methyltransferases with a large repertoire of different specifities. This model is restricted to a subfamily found so far only in the Proteobacteria, sharing consistent length, full-length homology, and on average better than 35 % identity. It is reasonable to predict equivalent function within this subfamily.
Probab=99.41 E-value=1.6e-13 Score=115.36 Aligned_cols=125 Identities=17% Similarity=0.188 Sum_probs=85.9
Q ss_pred CCcceEEEeCCCCCC--------------------------------------------Ccccccc-ccCCcceeeechh
Q 045543 107 EKIKQLVDVGGGCGK--------------------------------------------CGWKMFQ-KILNGDAILMKLI 141 (239)
Q Consensus 107 ~~~~~vlDvGGG~G~--------------------------------------------~~gD~~~-~~p~~D~~~l~~v 141 (239)
.+..+|||||||+|. +.+|+.+ +++..|++++..+
T Consensus 52 ~~~~~iLDlGcG~G~~~~~l~~~~~~p~~~v~gvD~s~~ml~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~d~v~~~~~ 131 (239)
T TIGR00740 52 TPDSNVYDLGCSRGAATLSARRNINQPNVKIIGIDNSQPMVERCRQHIAAYHSEIPVEILCNDIRHVEIKNASMVILNFT 131 (239)
T ss_pred CCCCEEEEecCCCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECChhhCCCCCCCEEeeecc
Confidence 456799999999999 2334443 3344599999999
Q ss_pred hhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccC-----------------Ccccc
Q 045543 142 LRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLS-----------------GEKER 204 (239)
Q Consensus 142 lH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~-----------------~g~~r 204 (239)
+|++++++...+|++++++|+|||++++.|.+.+++.... .....+.+..... --...
T Consensus 132 l~~~~~~~~~~~l~~i~~~LkpgG~l~i~d~~~~~~~~~~-----~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 206 (239)
T TIGR00740 132 LQFLPPEDRIALLTKIYEGLNPNGVLVLSEKFRFEDTKIN-----HLLIDLHHQFKRANGYSELEISQKRTALENVMRTD 206 (239)
T ss_pred hhhCCHHHHHHHHHHHHHhcCCCeEEEEeecccCCCHhHH-----HHHHHHHHHHHHHcCCCHHHHHHHHHHHhccCCCC
Confidence 9999988889999999999999999999998766543211 0111111110000 11346
Q ss_pred ChhhccHHHHHhhCCCceeeEEEcCCceeEEEEE
Q 045543 205 TKQEYYGMALTAKNGFKGVNYESFVCNFYIMEFI 238 (239)
Q Consensus 205 t~~e~~~~~ll~~aGf~~~~~~~~~~~~~vie~~ 238 (239)
|.+++ .+++++|||+.+++......+.++.++
T Consensus 207 s~~~~--~~~l~~aGF~~~~~~~~~~~~~~~~~~ 238 (239)
T TIGR00740 207 SIETH--KARLKNVGFSHVELWFQCFNFGSLVAV 238 (239)
T ss_pred CHHHH--HHHHHHcCCchHHHHHHHHhHhHHhee
Confidence 88999 999999999977654433444444444
No 5
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=99.41 E-value=3.5e-12 Score=108.85 Aligned_cols=123 Identities=18% Similarity=0.241 Sum_probs=90.0
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC--------------------------------------Ccccccc-ccCCc--c
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK--------------------------------------CGWKMFQ-KILNG--D 134 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~--------------------------------------~~gD~~~-~~p~~--D 134 (239)
...+++.++ +.+..+|||||||+|. +.+|+.+ ++|.+ |
T Consensus 41 ~~~~l~~l~-l~~~~~VLDiGcG~G~~a~~la~~~~~~v~giD~s~~~~~~a~~~~~~~~~i~~~~~D~~~~~~~~~~FD 119 (263)
T PTZ00098 41 TTKILSDIE-LNENSKVLDIGSGLGGGCKYINEKYGAHVHGVDICEKMVNIAKLRNSDKNKIEFEANDILKKDFPENTFD 119 (263)
T ss_pred HHHHHHhCC-CCCCCEEEEEcCCCChhhHHHHhhcCCEEEEEECCHHHHHHHHHHcCcCCceEEEECCcccCCCCCCCeE
Confidence 356677776 7888999999999997 2356655 56643 9
Q ss_pred eeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHH
Q 045543 135 AILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMAL 214 (239)
Q Consensus 135 ~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~l 214 (239)
+|+...++|++++++...+|+++++.|+|||++++.|......... .. .... .+... .-...+.++| .++
T Consensus 120 ~V~s~~~l~h~~~~d~~~~l~~i~r~LkPGG~lvi~d~~~~~~~~~--~~---~~~~--~~~~~-~~~~~~~~~~--~~~ 189 (263)
T PTZ00098 120 MIYSRDAILHLSYADKKKLFEKCYKWLKPNGILLITDYCADKIENW--DE---EFKA--YIKKR-KYTLIPIQEY--GDL 189 (263)
T ss_pred EEEEhhhHHhCCHHHHHHHHHHHHHHcCCCcEEEEEEeccccccCc--HH---HHHH--HHHhc-CCCCCCHHHH--HHH
Confidence 9999999988987778899999999999999999999876543211 11 1111 11100 1234588999 999
Q ss_pred HhhCCCceeeEEEcC
Q 045543 215 TAKNGFKGVNYESFV 229 (239)
Q Consensus 215 l~~aGf~~~~~~~~~ 229 (239)
|+++||+.++...+.
T Consensus 190 l~~aGF~~v~~~d~~ 204 (263)
T PTZ00098 190 IKSCNFQNVVAKDIS 204 (263)
T ss_pred HHHCCCCeeeEEeCc
Confidence 999999999887653
No 6
>PF01209 Ubie_methyltran: ubiE/COQ5 methyltransferase family; InterPro: IPR004033 A number of methyltransferases have been shown to share regions of similarities []. Apart from the ubiquinone/menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the ubiE gene of Escherichia coli), the ubiquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the COQ5 gene of Saccharomyces cerevisiae) and the menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the MENH gene of Bacillus subtilis), this family also includes methyltransferases involved in biotin and sterol biosynthesis and in phosphatidylethanolamine methylation.; GO: 0008168 methyltransferase activity; PDB: 1VL5_C.
Probab=99.33 E-value=1.6e-12 Score=109.03 Aligned_cols=134 Identities=19% Similarity=0.250 Sum_probs=54.8
Q ss_pred HHhhccCCCCcceEEEeCCCCCC------------------------------------------Ccccccc-ccCC-c-
Q 045543 99 ILDYYKGFEKIKQLVDVGGGCGK------------------------------------------CGWKMFQ-KILN-G- 133 (239)
Q Consensus 99 ~~~~~~~~~~~~~vlDvGGG~G~------------------------------------------~~gD~~~-~~p~-~- 133 (239)
+++... ..+..+|||||||+|. +.+|..+ |+|. .
T Consensus 39 ~~~~~~-~~~g~~vLDv~~GtG~~~~~l~~~~~~~~~v~~vD~s~~ML~~a~~k~~~~~~~~i~~v~~da~~lp~~d~sf 117 (233)
T PF01209_consen 39 LIKLLG-LRPGDRVLDVACGTGDVTRELARRVGPNGKVVGVDISPGMLEVARKKLKREGLQNIEFVQGDAEDLPFPDNSF 117 (233)
T ss_dssp HHHHHT---S--EEEEET-TTSHHHHHHGGGSS---EEEEEES-HHHHHHHHHHHHHTT--SEEEEE-BTTB--S-TT-E
T ss_pred HHhccC-CCCCCEEEEeCCChHHHHHHHHHHCCCccEEEEecCCHHHHHHHHHHHHhhCCCCeeEEEcCHHHhcCCCCce
Confidence 344444 5667899999999998 4566655 6775 3
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHH----HhhccCC---------
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDII----MLMQLSG--------- 200 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~----ml~~~~~--------- 200 (239)
|+++++..||+++|.. +.|+++++.|||||+++|+|...++.+- ....+..++... ......+
T Consensus 118 D~v~~~fglrn~~d~~--~~l~E~~RVLkPGG~l~ile~~~p~~~~--~~~~~~~y~~~ilP~~g~l~~~~~~~Y~yL~~ 193 (233)
T PF01209_consen 118 DAVTCSFGLRNFPDRE--RALREMYRVLKPGGRLVILEFSKPRNPL--LRALYKFYFKYILPLIGRLLSGDREAYRYLPE 193 (233)
T ss_dssp EEEEEES-GGG-SSHH--HHHHHHHHHEEEEEEEEEEEEEB-SSHH--HHHHHHH-------------------------
T ss_pred eEEEHHhhHHhhCCHH--HHHHHHHHHcCCCeEEEEeeccCCCCch--hhceeeeeeccccccccccccccccccccccc
Confidence 9999999999999864 7899999999999999999998776421 000111111100 0000001
Q ss_pred --ccccChhhccHHHHHhhCCCceeeEEEcC-CceeEEEEEC
Q 045543 201 --EKERTKQEYYGMALTAKNGFKGVNYESFV-CNFYIMEFIK 239 (239)
Q Consensus 201 --g~~rt~~e~~~~~ll~~aGf~~~~~~~~~-~~~~vie~~k 239 (239)
-+-.+.+|+ .++|+++||+.++..+.. +-.++..++|
T Consensus 194 Si~~f~~~~~~--~~~l~~~Gf~~v~~~~~~~G~~~i~~g~K 233 (233)
T PF01209_consen 194 SIRRFPSPEEL--KELLEEAGFKNVEYRPLTFGIVTIHVGTK 233 (233)
T ss_dssp ------------------------------------------
T ss_pred ccccccccccc--cccccccccccccccccccccccccccCC
Confidence 012256788 999999999999887765 4456666665
No 7
>TIGR02752 MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone methyltransferase. MenG is a generic term for a methyltransferase that catalyzes the last step in menaquinone biosynthesis; the exact enzymatic activity differs for different MenG because the menaquinone differ in their prenoid side chains in different species. Members of this MenG protein family are 2-heptaprenyl-1,4-naphthoquinone methyltransferase, and are found together in operons with the two subunits of the heptaprenyl diphosphate synthase in Bacillus subtilis and related species.
Probab=99.32 E-value=1.8e-11 Score=102.11 Aligned_cols=135 Identities=17% Similarity=0.203 Sum_probs=91.6
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC------------------------------------------Ccccccc-ccCC-
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK------------------------------------------CGWKMFQ-KILN- 132 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------------~~gD~~~-~~p~- 132 (239)
..++..++ ..+..+|||+|||+|. +.+|+.+ +++.
T Consensus 35 ~~~l~~l~-~~~~~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~ 113 (231)
T TIGR02752 35 KDTMKRMN-VQAGTSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHGNAMELPFDDN 113 (231)
T ss_pred HHHHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHhcCCCceEEEEechhcCCCCCC
Confidence 34556666 6777899999999998 2244444 4454
Q ss_pred c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHH----------------Hh
Q 045543 133 G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDII----------------ML 195 (239)
Q Consensus 133 ~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~----------------ml 195 (239)
. |+|++...+|++++. .++|+++.+.|+|||++++.|...+... .....+...+... .+
T Consensus 114 ~fD~V~~~~~l~~~~~~--~~~l~~~~~~Lk~gG~l~~~~~~~~~~~--~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~ 189 (231)
T TIGR02752 114 SFDYVTIGFGLRNVPDY--MQVLREMYRVVKPGGKVVCLETSQPTIP--GFKQLYFFYFKYIMPLFGKLFAKSYKEYSWL 189 (231)
T ss_pred CccEEEEecccccCCCH--HHHHHHHHHHcCcCeEEEEEECCCCCCh--HHHHHHHHHHcChhHHhhHHhcCCHHHHHHH
Confidence 3 999999999998876 4899999999999999999886543321 0000000001000 00
Q ss_pred hccCCccccChhhccHHHHHhhCCCceeeEEEcC-CceeEEEEEC
Q 045543 196 MQLSGEKERTKQEYYGMALTAKNGFKGVNYESFV-CNFYIMEFIK 239 (239)
Q Consensus 196 ~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~-~~~~vie~~k 239 (239)
... .....+.+++ .++|+++||+.+++.... +..+++.++|
T Consensus 190 ~~~-~~~~~~~~~l--~~~l~~aGf~~~~~~~~~~g~~~~~~~~~ 231 (231)
T TIGR02752 190 QES-TRDFPGMDEL--AEMFQEAGFKDVEVKSYTGGVAAMHMGFK 231 (231)
T ss_pred HHH-HHHcCCHHHH--HHHHHHcCCCeeEEEEcccceEEEEEEEC
Confidence 000 1123477888 999999999999998876 6778888877
No 8
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=99.30 E-value=2.6e-11 Score=103.44 Aligned_cols=104 Identities=20% Similarity=0.184 Sum_probs=68.2
Q ss_pred ccCC-c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHH--h-hccCC---
Q 045543 129 KILN-G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIM--L-MQLSG--- 200 (239)
Q Consensus 129 ~~p~-~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~m--l-~~~~~--- 200 (239)
+++. . |++++..++|+++|. .++|+++++.|+|||+++|.|...++..-.+ .....++...+ + .....
T Consensus 140 p~~~~sfD~V~~~~~l~~~~d~--~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~ 215 (261)
T PLN02233 140 PFDDCYFDAITMGYGLRNVVDR--LKAMQEMYRVLKPGSRVSILDFNKSTQPFTT--SMQEWMIDNVVVPVATGYGLAKE 215 (261)
T ss_pred CCCCCCEeEEEEecccccCCCH--HHHHHHHHHHcCcCcEEEEEECCCCCcHHHH--HHHHHHHhhhhhHHHHHhCChHH
Confidence 4454 3 999999999999876 4889999999999999999998755432110 00001111000 0 00000
Q ss_pred --------ccccChhhccHHHHHhhCCCceeeEEEcCC-ceeEEEEE
Q 045543 201 --------EKERTKQEYYGMALTAKNGFKGVNYESFVC-NFYIMEFI 238 (239)
Q Consensus 201 --------g~~rt~~e~~~~~ll~~aGf~~~~~~~~~~-~~~vie~~ 238 (239)
...++.+|+ .++++++||+.++...... ..++..++
T Consensus 216 y~~l~~s~~~f~s~~el--~~ll~~aGF~~~~~~~~~~g~~~~~~~~ 260 (261)
T PLN02233 216 YEYLKSSINEYLTGEEL--EKLALEAGFSSAKHYEISGGLMGNLVAT 260 (261)
T ss_pred HHHHHHHHHhcCCHHHH--HHHHHHCCCCEEEEEEcCCCeeEEEEEe
Confidence 124588999 9999999999998887764 34455443
No 9
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=99.28 E-value=3.3e-11 Score=100.68 Aligned_cols=126 Identities=19% Similarity=0.259 Sum_probs=87.8
Q ss_pred CCcceEEEeCCCCCC-----------------------------------------Ccccccc-ccCC-c-ceeeechhh
Q 045543 107 EKIKQLVDVGGGCGK-----------------------------------------CGWKMFQ-KILN-G-DAILMKLIL 142 (239)
Q Consensus 107 ~~~~~vlDvGGG~G~-----------------------------------------~~gD~~~-~~p~-~-D~~~l~~vl 142 (239)
.+..+|||||||+|. +.||..+ |+|. . |+|.++..|
T Consensus 50 ~~g~~vLDva~GTGd~a~~~~k~~g~g~v~~~D~s~~ML~~a~~k~~~~~~~~i~fv~~dAe~LPf~D~sFD~vt~~fgl 129 (238)
T COG2226 50 KPGDKVLDVACGTGDMALLLAKSVGTGEVVGLDISESMLEVAREKLKKKGVQNVEFVVGDAENLPFPDNSFDAVTISFGL 129 (238)
T ss_pred CCCCEEEEecCCccHHHHHHHHhcCCceEEEEECCHHHHHHHHHHhhccCccceEEEEechhhCCCCCCccCEEEeeehh
Confidence 367899999999999 3566666 7775 3 999999999
Q ss_pred hcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHH-Hhhcc----C-Cc-----------cccC
Q 045543 143 RNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDII-MLMQL----S-GE-----------KERT 205 (239)
Q Consensus 143 H~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~-ml~~~----~-~g-----------~~rt 205 (239)
|+.+|.+ +.|+.++|.|+|||+++|.|...++.+... .....+... .+-.+ . +. +..+
T Consensus 130 rnv~d~~--~aL~E~~RVlKpgG~~~vle~~~p~~~~~~---~~~~~~~~~~v~P~~g~~~~~~~~~y~yL~eSi~~~p~ 204 (238)
T COG2226 130 RNVTDID--KALKEMYRVLKPGGRLLVLEFSKPDNPVLR---KAYILYYFKYVLPLIGKLVAKDAEAYEYLAESIRRFPD 204 (238)
T ss_pred hcCCCHH--HHHHHHHHhhcCCeEEEEEEcCCCCchhhH---HHHHHHHHHhHhhhhceeeecChHHHHHHHHHHHhCCC
Confidence 9999875 899999999999999999999877654321 111111111 11111 0 11 2225
Q ss_pred hhhccHHHHHhhCCCceeeEEEcC-CceeEEEEEC
Q 045543 206 KQEYYGMALTAKNGFKGVNYESFV-CNFYIMEFIK 239 (239)
Q Consensus 206 ~~e~~~~~ll~~aGf~~~~~~~~~-~~~~vie~~k 239 (239)
.+++ .++++++||+.+...... +-..+..+.|
T Consensus 205 ~~~l--~~~~~~~gf~~i~~~~~~~G~~~l~~g~K 237 (238)
T COG2226 205 QEEL--KQMIEKAGFEEVRYENLTFGIVALHRGYK 237 (238)
T ss_pred HHHH--HHHHHhcCceEEeeEeeeeeeEEEEEEec
Confidence 6777 999999999998865554 3344544443
No 10
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=99.28 E-value=2.9e-12 Score=108.38 Aligned_cols=117 Identities=15% Similarity=0.145 Sum_probs=78.4
Q ss_pred CCcceEEEeCCCCCC--------------------------------------------Ccccccc-ccCCcceeeechh
Q 045543 107 EKIKQLVDVGGGCGK--------------------------------------------CGWKMFQ-KILNGDAILMKLI 141 (239)
Q Consensus 107 ~~~~~vlDvGGG~G~--------------------------------------------~~gD~~~-~~p~~D~~~l~~v 141 (239)
.+..+|||||||+|. +.+|+.+ +.+..|++++..+
T Consensus 55 ~~~~~vLDlGcGtG~~~~~l~~~~~~~~~~v~gvD~S~~ml~~A~~~~~~~~~~~~v~~~~~d~~~~~~~~~D~vv~~~~ 134 (247)
T PRK15451 55 QPGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIRDIAIENASMVVLNFT 134 (247)
T ss_pred CCCCEEEEEcccCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEeCChhhCCCCCCCEEehhhH
Confidence 456799999999998 2344443 3334599999999
Q ss_pred hhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHH------------HhhccCC-ccccChhh
Q 045543 142 LRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDII------------MLMQLSG-EKERTKQE 208 (239)
Q Consensus 142 lH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~------------ml~~~~~-g~~rt~~e 208 (239)
+|.+++++...++++++++|+|||++++.|.+..++...... ....+.+.. +.-...+ -...|.++
T Consensus 135 l~~l~~~~~~~~l~~i~~~LkpGG~l~l~e~~~~~~~~~~~~-~~~~~~~~~~~~g~s~~ei~~~~~~~~~~~~~~~~~~ 213 (247)
T PRK15451 135 LQFLEPSERQALLDKIYQGLNPGGALVLSEKFSFEDAKVGEL-LFNMHHDFKRANGYSELEISQKRSMLENVMLTDSVET 213 (247)
T ss_pred HHhCCHHHHHHHHHHHHHhcCCCCEEEEEEecCCCcchhHHH-HHHHHHHHHHHcCCCHHHHHHHHHHHHhhcccCCHHH
Confidence 999998888899999999999999999999776554322100 000111110 0000000 11237788
Q ss_pred ccHHHHHhhCCCceeeEE
Q 045543 209 YYGMALTAKNGFKGVNYE 226 (239)
Q Consensus 209 ~~~~~ll~~aGf~~~~~~ 226 (239)
. .+||++|||+.+...
T Consensus 214 ~--~~~L~~aGF~~v~~~ 229 (247)
T PRK15451 214 H--KARLHKAGFEHSELW 229 (247)
T ss_pred H--HHHHHHcCchhHHHH
Confidence 8 999999999977653
No 11
>PLN02244 tocopherol O-methyltransferase
Probab=99.25 E-value=9.5e-11 Score=103.62 Aligned_cols=117 Identities=18% Similarity=0.231 Sum_probs=78.9
Q ss_pred CCcceEEEeCCCCCC-----------------------------------------Ccccccc-ccCCc--ceeeechhh
Q 045543 107 EKIKQLVDVGGGCGK-----------------------------------------CGWKMFQ-KILNG--DAILMKLIL 142 (239)
Q Consensus 107 ~~~~~vlDvGGG~G~-----------------------------------------~~gD~~~-~~p~~--D~~~l~~vl 142 (239)
....+|||||||+|. +.+|+.+ +++.+ |+|++..++
T Consensus 117 ~~~~~VLDiGCG~G~~~~~La~~~g~~v~gvD~s~~~i~~a~~~~~~~g~~~~v~~~~~D~~~~~~~~~~FD~V~s~~~~ 196 (340)
T PLN02244 117 KRPKRIVDVGCGIGGSSRYLARKYGANVKGITLSPVQAARANALAAAQGLSDKVSFQVADALNQPFEDGQFDLVWSMESG 196 (340)
T ss_pred CCCCeEEEecCCCCHHHHHHHHhcCCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEcCcccCCCCCCCccEEEECCch
Confidence 566899999999998 2346555 55543 999999999
Q ss_pred hcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCC--ChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCC
Q 045543 143 RNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEA--TPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGF 220 (239)
Q Consensus 143 H~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~--~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf 220 (239)
|+++|. .++|+++++.|+|||+|+|.+......... .........++-...... --...+.++| .++++++||
T Consensus 197 ~h~~d~--~~~l~e~~rvLkpGG~lvi~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~-~p~~~s~~~~--~~~l~~aGf 271 (340)
T PLN02244 197 EHMPDK--RKFVQELARVAAPGGRIIIVTWCHRDLEPGETSLKPDEQKLLDKICAAYY-LPAWCSTSDY--VKLAESLGL 271 (340)
T ss_pred hccCCH--HHHHHHHHHHcCCCcEEEEEEecccccccccccCCHHHHHHHHHHHhhcc-CCCCCCHHHH--HHHHHHCCC
Confidence 999875 489999999999999999998754322111 000001111111111100 1122478999 999999999
Q ss_pred ceeeEEEc
Q 045543 221 KGVNYESF 228 (239)
Q Consensus 221 ~~~~~~~~ 228 (239)
..+++...
T Consensus 272 ~~v~~~d~ 279 (340)
T PLN02244 272 QDIKTEDW 279 (340)
T ss_pred CeeEeeeC
Confidence 99987654
No 12
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=99.23 E-value=1.7e-10 Score=96.20 Aligned_cols=135 Identities=17% Similarity=0.228 Sum_probs=90.0
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC-------------------------------------------Ccccccc-ccCC
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK-------------------------------------------CGWKMFQ-KILN 132 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~-------------------------------------------~~gD~~~-~~p~ 132 (239)
..++..+. ..+..+|+|||||+|. +.+|+.+ +.+.
T Consensus 41 ~~~~~~~~-~~~~~~vldiG~G~G~~~~~l~~~~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~ 119 (239)
T PRK00216 41 RKTIKWLG-VRPGDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGDAEALPFPD 119 (239)
T ss_pred HHHHHHhC-CCCCCeEEEeCCCCCHHHHHHHHHcCCCCeEEEEeCCHHHHHHHHHhhcccccccCeEEEecccccCCCCC
Confidence 34555555 4556899999999998 1133333 2232
Q ss_pred --cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhh----ccCC------
Q 045543 133 --GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLM----QLSG------ 200 (239)
Q Consensus 133 --~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~----~~~~------ 200 (239)
.|+|++++++|++++. ..+|+++.+.|+|||+++++|...++...- ......+...++. ...+
T Consensus 120 ~~~D~I~~~~~l~~~~~~--~~~l~~~~~~L~~gG~li~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~ 194 (239)
T PRK00216 120 NSFDAVTIAFGLRNVPDI--DKALREMYRVLKPGGRLVILEFSKPTNPPL---KKAYDFYLFKVLPLIGKLISKNAEAYS 194 (239)
T ss_pred CCccEEEEecccccCCCH--HHHHHHHHHhccCCcEEEEEEecCCCchHH---HHHHHHHHHhhhHHHHHHHcCCcHHHH
Confidence 3999999999999875 588999999999999999998866543210 0000001000000 0001
Q ss_pred ------ccccChhhccHHHHHhhCCCceeeEEEcC-CceeEEEEEC
Q 045543 201 ------EKERTKQEYYGMALTAKNGFKGVNYESFV-CNFYIMEFIK 239 (239)
Q Consensus 201 ------g~~rt~~e~~~~~ll~~aGf~~~~~~~~~-~~~~vie~~k 239 (239)
...++.++| .++|+++||+.+++.... +...++.++|
T Consensus 195 ~~~~~~~~~~~~~~~--~~~l~~aGf~~~~~~~~~~~~~~~~~~~~ 238 (239)
T PRK00216 195 YLAESIRAFPDQEEL--AAMLEEAGFERVRYRNLTGGIVALHVGYK 238 (239)
T ss_pred HHHHHHHhCCCHHHH--HHHHHhCCCceeeeeeeecCcEEEEEEec
Confidence 123477889 999999999999998864 6678998886
No 13
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=99.22 E-value=9e-11 Score=108.17 Aligned_cols=117 Identities=20% Similarity=0.246 Sum_probs=87.2
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC---------------------------------------Ccccccc-ccCC-c-c
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK---------------------------------------CGWKMFQ-KILN-G-D 134 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~---------------------------------------~~gD~~~-~~p~-~-D 134 (239)
..+++.++ +++..+|||||||+|. ..+|+++ ++|. . |
T Consensus 256 e~l~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~~~~v~gvDiS~~~l~~A~~~~~~~~~~v~~~~~d~~~~~~~~~~fD 334 (475)
T PLN02336 256 KEFVDKLD-LKPGQKVLDVGCGIGGGDFYMAENFDVHVVGIDLSVNMISFALERAIGRKCSVEFEVADCTKKTYPDNSFD 334 (475)
T ss_pred HHHHHhcC-CCCCCEEEEEeccCCHHHHHHHHhcCCEEEEEECCHHHHHHHHHHhhcCCCceEEEEcCcccCCCCCCCEE
Confidence 34666666 6777899999999996 3466666 5564 3 9
Q ss_pred eeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHH
Q 045543 135 AILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMAL 214 (239)
Q Consensus 135 ~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~l 214 (239)
+|++..++|+++|. .++|++++++|+|||+|+|.|.........+ ..... +... +...++.++| .++
T Consensus 335 ~I~s~~~l~h~~d~--~~~l~~~~r~LkpgG~l~i~~~~~~~~~~~~---~~~~~-----~~~~-g~~~~~~~~~--~~~ 401 (475)
T PLN02336 335 VIYSRDTILHIQDK--PALFRSFFKWLKPGGKVLISDYCRSPGTPSP---EFAEY-----IKQR-GYDLHDVQAY--GQM 401 (475)
T ss_pred EEEECCcccccCCH--HHHHHHHHHHcCCCeEEEEEEeccCCCCCcH---HHHHH-----HHhc-CCCCCCHHHH--HHH
Confidence 99999999999876 4899999999999999999998765432211 11111 1111 4567789999 999
Q ss_pred HhhCCCceeeEEE
Q 045543 215 TAKNGFKGVNYES 227 (239)
Q Consensus 215 l~~aGf~~~~~~~ 227 (239)
++++||+++.+..
T Consensus 402 l~~aGF~~i~~~d 414 (475)
T PLN02336 402 LKDAGFDDVIAED 414 (475)
T ss_pred HHHCCCeeeeeec
Confidence 9999999987654
No 14
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=99.22 E-value=7e-11 Score=103.66 Aligned_cols=83 Identities=17% Similarity=0.145 Sum_probs=59.3
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCC--hhhhhhhhhhHHHhhccCCccccChhhccH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEAT--PATREASSIDIIMLMQLSGEKERTKQEYYG 211 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~--~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~ 211 (239)
|+|++..+||+..|. ..+|++++++|+|||++++.+.+.+...... +..++.. |-. .-..+|.+++
T Consensus 191 D~V~s~~vl~H~~dp--~~~L~~l~~~LkpGG~lvl~~~~i~~~~~~~l~p~~~y~~-----~~~---~~~lps~~~l-- 258 (322)
T PRK15068 191 DTVFSMGVLYHRRSP--LDHLKQLKDQLVPGGELVLETLVIDGDENTVLVPGDRYAK-----MRN---VYFIPSVPAL-- 258 (322)
T ss_pred CEEEECChhhccCCH--HHHHHHHHHhcCCCcEEEEEEEEecCCCccccCchhHHhc-----Ccc---ceeCCCHHHH--
Confidence 999999999998776 4789999999999999988766655443211 0111111 100 0123588999
Q ss_pred HHHHhhCCCceeeEEEc
Q 045543 212 MALTAKNGFKGVNYESF 228 (239)
Q Consensus 212 ~~ll~~aGf~~~~~~~~ 228 (239)
.+||+++||+.+++...
T Consensus 259 ~~~L~~aGF~~i~~~~~ 275 (322)
T PRK15068 259 KNWLERAGFKDVRIVDV 275 (322)
T ss_pred HHHHHHcCCceEEEEeC
Confidence 99999999999988754
No 15
>TIGR01934 MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis methyltransferases. Note that a number of non-orthologous genes which are members of pfam03737 have been erroneously annotated as MenG methyltransferases.
Probab=99.20 E-value=1.7e-10 Score=95.20 Aligned_cols=131 Identities=21% Similarity=0.266 Sum_probs=88.8
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC----------------------------------------Ccccccc-ccCC-c-c
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK----------------------------------------CGWKMFQ-KILN-G-D 134 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~----------------------------------------~~gD~~~-~~p~-~-D 134 (239)
.+++.+. ..+..+|+|+|||.|. +.+|+.+ +.+. . |
T Consensus 30 ~~~~~~~-~~~~~~vldiG~G~G~~~~~~~~~~~~~~~~~~iD~~~~~~~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D 108 (223)
T TIGR01934 30 RAVKLIG-VFKGQKVLDVACGTGDLAIELAKSAPDRGKVTGVDFSSEMLEVAKKKSELPLNIEFIQADAEALPFEDNSFD 108 (223)
T ss_pred HHHHHhc-cCCCCeEEEeCCCCChhHHHHHHhcCCCceEEEEECCHHHHHHHHHHhccCCCceEEecchhcCCCCCCcEE
Confidence 4455554 5567899999999998 1233333 2333 3 9
Q ss_pred eeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHH---HhhccCC-----------
Q 045543 135 AILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDII---MLMQLSG----------- 200 (239)
Q Consensus 135 ~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~---ml~~~~~----------- 200 (239)
++++..++|+.++. ..+|+++++.|+|||++++.+...+... + ....++.. |+.....
T Consensus 109 ~i~~~~~~~~~~~~--~~~l~~~~~~L~~gG~l~~~~~~~~~~~--~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 180 (223)
T TIGR01934 109 AVTIAFGLRNVTDI--QKALREMYRVLKPGGRLVILEFSKPANA--L----LKKFYKFYLKNVLPSIGGLISKNAEAYTY 180 (223)
T ss_pred EEEEeeeeCCcccH--HHHHHHHHHHcCCCcEEEEEEecCCCch--h----hHHHHHHHHHHhhhhhhhhhcCCchhhHH
Confidence 99999999988764 5899999999999999999987654331 1 11111111 1110000
Q ss_pred -----ccccChhhccHHHHHhhCCCceeeEEEcCCc-eeEEEEEC
Q 045543 201 -----EKERTKQEYYGMALTAKNGFKGVNYESFVCN-FYIMEFIK 239 (239)
Q Consensus 201 -----g~~rt~~e~~~~~ll~~aGf~~~~~~~~~~~-~~vie~~k 239 (239)
....+.++| ..+|+++||+.+++.+.... ..+++++|
T Consensus 181 ~~~~~~~~~~~~~~--~~~l~~aGf~~~~~~~~~~~~~~~~~~~~ 223 (223)
T TIGR01934 181 LPESIRAFPSQEEL--AAMLKEAGFEEVRYRSLTFGVAAIHVGKK 223 (223)
T ss_pred HHHHHHhCCCHHHH--HHHHHHcCCccceeeeeecceeeEEEecC
Confidence 112377889 99999999999999888654 67888775
No 16
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=99.19 E-value=1.2e-10 Score=99.69 Aligned_cols=111 Identities=16% Similarity=0.237 Sum_probs=81.7
Q ss_pred CCCcceEEEeCCCCCC------------------------------------------Ccccccc-ccCC-c-ceeeech
Q 045543 106 FEKIKQLVDVGGGCGK------------------------------------------CGWKMFQ-KILN-G-DAILMKL 140 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~------------------------------------------~~gD~~~-~~p~-~-D~~~l~~ 140 (239)
+....+|||||||+|. ..+|+.+ +++. . |+++...
T Consensus 75 ~~~g~~VLDiG~G~G~~~~~~a~~~g~~~~v~gvD~s~~~l~~A~~~~~~~g~~~v~~~~~d~~~l~~~~~~fD~Vi~~~ 154 (272)
T PRK11873 75 LKPGETVLDLGSGGGFDCFLAARRVGPTGKVIGVDMTPEMLAKARANARKAGYTNVEFRLGEIEALPVADNSVDVIISNC 154 (272)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEECCCHHHHHHHHHHHHHcCCCCEEEEEcchhhCCCCCCceeEEEEcC
Confidence 5677899999999997 2355544 4444 3 9999999
Q ss_pred hhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCC
Q 045543 141 ILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGF 220 (239)
Q Consensus 141 vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf 220 (239)
++|.+++. .++++++++.|+|||++++.+.+..... +. ....++.++..+ .+...+..+| .++|+++||
T Consensus 155 v~~~~~d~--~~~l~~~~r~LkpGG~l~i~~~~~~~~~-~~-----~~~~~~~~~~~~-~~~~~~~~e~--~~~l~~aGf 223 (272)
T PRK11873 155 VINLSPDK--ERVFKEAFRVLKPGGRFAISDVVLRGEL-PE-----EIRNDAELYAGC-VAGALQEEEY--LAMLAEAGF 223 (272)
T ss_pred cccCCCCH--HHHHHHHHHHcCCCcEEEEEEeeccCCC-CH-----HHHHhHHHHhcc-ccCCCCHHHH--HHHHHHCCC
Confidence 99988775 4789999999999999999998754421 10 122333444333 4556788999 999999999
Q ss_pred ceeeEEE
Q 045543 221 KGVNYES 227 (239)
Q Consensus 221 ~~~~~~~ 227 (239)
..+++..
T Consensus 224 ~~v~i~~ 230 (272)
T PRK11873 224 VDITIQP 230 (272)
T ss_pred CceEEEe
Confidence 9987643
No 17
>PLN02490 MPBQ/MSBQ methyltransferase
Probab=99.19 E-value=2.2e-10 Score=100.75 Aligned_cols=113 Identities=23% Similarity=0.295 Sum_probs=79.5
Q ss_pred HHhhccCCC-CcceEEEeCCCCCC--------------------------------------Ccccccc-ccCC-c-cee
Q 045543 99 ILDYYKGFE-KIKQLVDVGGGCGK--------------------------------------CGWKMFQ-KILN-G-DAI 136 (239)
Q Consensus 99 ~~~~~~~~~-~~~~vlDvGGG~G~--------------------------------------~~gD~~~-~~p~-~-D~~ 136 (239)
+++... +. ...+|||||||+|. +.+|+.+ +++. . |+|
T Consensus 104 ~l~~~~-l~~~~~~VLDLGcGtG~~~l~La~~~~~~~VtgVD~S~~mL~~A~~k~~~~~i~~i~gD~e~lp~~~~sFDvV 182 (340)
T PLN02490 104 ALEPAD-LSDRNLKVVDVGGGTGFTTLGIVKHVDAKNVTILDQSPHQLAKAKQKEPLKECKIIEGDAEDLPFPTDYADRY 182 (340)
T ss_pred HHhhcc-cCCCCCEEEEEecCCcHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhhhccCCeEEeccHHhCCCCCCceeEE
Confidence 344444 43 45799999999998 2234433 3443 3 999
Q ss_pred eechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHh
Q 045543 137 LMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTA 216 (239)
Q Consensus 137 ~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~ 216 (239)
++.+++|+|+|.+ ++|+++++.|+|||++++.+.+.++. +..+ ...+..| ...+.+|+ .++|+
T Consensus 183 Is~~~L~~~~d~~--~~L~e~~rvLkPGG~LvIi~~~~p~~----~~~r--~~~~~~~-------~~~t~eEl--~~lL~ 245 (340)
T PLN02490 183 VSAGSIEYWPDPQ--RGIKEAYRVLKIGGKACLIGPVHPTF----WLSR--FFADVWM-------LFPKEEEY--IEWFT 245 (340)
T ss_pred EEcChhhhCCCHH--HHHHHHHHhcCCCcEEEEEEecCcch----hHHH--Hhhhhhc-------cCCCHHHH--HHHHH
Confidence 9999999999875 78999999999999999987654321 1111 1112221 12578999 99999
Q ss_pred hCCCceeeEEEcC
Q 045543 217 KNGFKGVNYESFV 229 (239)
Q Consensus 217 ~aGf~~~~~~~~~ 229 (239)
++||+.+++..+.
T Consensus 246 ~aGF~~V~i~~i~ 258 (340)
T PLN02490 246 KAGFKDVKLKRIG 258 (340)
T ss_pred HCCCeEEEEEEcC
Confidence 9999999887754
No 18
>PRK06922 hypothetical protein; Provisional
Probab=99.18 E-value=7.8e-11 Score=110.17 Aligned_cols=125 Identities=19% Similarity=0.244 Sum_probs=90.7
Q ss_pred eEecChhhHHHHhc--------------CCCcccccccCchHHHHHHHHHHhccccc--HHHHHhhccCCCCcceEEEeC
Q 045543 53 LQRLAPVAKYVLHY--------------GIGDYEHAGLDSRFNEVLNTAMLSHNSIV--MNRILDYYKGFEKIKQLVDVG 116 (239)
Q Consensus 53 ~y~~t~~s~~l~~~--------------g~~~~~~l~~~~~~~~~f~~~m~~~~~~~--~~~~~~~~~~~~~~~~vlDvG 116 (239)
.|.-++.+..|..+ ...+|+++..+++..++|...|....... .......++ +.+..+|||||
T Consensus 348 ~~~~s~~~~~~~~~~~~~~~~~~~~~r~~~~~fd~fg~r~D~~dRf~~~~~yle~m~~~~~~k~~i~d-~~~g~rVLDIG 426 (677)
T PRK06922 348 SFRFSAVGEALITFCVEAEKIDMMHARANVLLFDFFGLRKDAYDRFHNEEVYLEHMNSSADDKRIILD-YIKGDTIVDVG 426 (677)
T ss_pred EEeecHHHHHHHHHHHhhhhcchHHHHHHhHHHHHhccChhhHhHHHhHHHHHHhccccHHHHHHHhh-hcCCCEEEEeC
Confidence 36667777766611 13578888889988888887776543321 222234455 67788999999
Q ss_pred CCCCC----------------------------------------Ccccccc-c--cCC--cceeeechhhhcC------
Q 045543 117 GGCGK----------------------------------------CGWKMFQ-K--ILN--GDAILMKLILRNW------ 145 (239)
Q Consensus 117 GG~G~----------------------------------------~~gD~~~-~--~p~--~D~~~l~~vlH~~------ 145 (239)
||+|. +.+|..+ + ++. .|+|+++.++|+|
T Consensus 427 CGTG~ls~~LA~~~P~~kVtGIDIS~~MLe~Ararl~~~g~~ie~I~gDa~dLp~~fedeSFDvVVsn~vLH~L~syIp~ 506 (677)
T PRK06922 427 AGGGVMLDMIEEETEDKRIYGIDISENVIDTLKKKKQNEGRSWNVIKGDAINLSSSFEKESVDTIVYSSILHELFSYIEY 506 (677)
T ss_pred CCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhcCCCeEEEEcchHhCccccCCCCEEEEEEchHHHhhhhhccc
Confidence 99998 1245543 2 343 3999999999986
Q ss_pred -----ChhHHHHHHHHHHhhCCCCceEEEEeeecCCCC
Q 045543 146 -----DDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIP 178 (239)
Q Consensus 146 -----~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~ 178 (239)
++++..++|++++++|+|||+++|.|.+++++.
T Consensus 507 ~g~~f~~edl~kiLreI~RVLKPGGrLII~D~v~~E~~ 544 (677)
T PRK06922 507 EGKKFNHEVIKKGLQSAYEVLKPGGRIIIRDGIMTEDK 544 (677)
T ss_pred ccccccHHHHHHHHHHHHHHcCCCcEEEEEeCccCCch
Confidence 357889999999999999999999998776543
No 19
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=99.15 E-value=3.7e-10 Score=95.90 Aligned_cols=124 Identities=16% Similarity=0.129 Sum_probs=78.5
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC----------------------------------CccccccccCC--cceeeec
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK----------------------------------CGWKMFQKILN--GDAILMK 139 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~----------------------------------~~gD~~~~~p~--~D~~~l~ 139 (239)
...+++.++ .....+|||||||+|. +.+|+.+..+. .|+|+++
T Consensus 18 ~~~ll~~l~-~~~~~~vLDlGcG~G~~~~~l~~~~p~~~v~gvD~s~~~~~~a~~~~~~~~~~d~~~~~~~~~fD~v~~~ 96 (255)
T PRK14103 18 FYDLLARVG-AERARRVVDLGCGPGNLTRYLARRWPGAVIEALDSSPEMVAAARERGVDARTGDVRDWKPKPDTDVVVSN 96 (255)
T ss_pred HHHHHHhCC-CCCCCEEEEEcCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHhcCCcEEEcChhhCCCCCCceEEEEe
Confidence 457777777 7778999999999999 34555332232 3999999
Q ss_pred hhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhh---hhhhH-HHhhccCCccccChhhccHHHHH
Q 045543 140 LILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREA---SSIDI-IMLMQLSGEKERTKQEYYGMALT 215 (239)
Q Consensus 140 ~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~---~~~dl-~ml~~~~~g~~rt~~e~~~~~ll 215 (239)
.++|+.+|. .++|+++++.|+|||++++......+.+......... .+... .-.....+....+.+++ .++|
T Consensus 97 ~~l~~~~d~--~~~l~~~~~~LkpgG~l~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~--~~~l 172 (255)
T PRK14103 97 AALQWVPEH--ADLLVRWVDELAPGSWIAVQVPGNFDAPSHAAVRALARREPWAKLLRDIPFRVGAVVQTPAGY--AELL 172 (255)
T ss_pred hhhhhCCCH--HHHHHHHHHhCCCCcEEEEEcCCCcCChhHHHHHHHhccCchhHHhcccccccCcCCCCHHHH--HHHH
Confidence 999998875 5899999999999999998632110110000000000 01000 00000002234588999 9999
Q ss_pred hhCCCceee
Q 045543 216 AKNGFKGVN 224 (239)
Q Consensus 216 ~~aGf~~~~ 224 (239)
+++||++..
T Consensus 173 ~~aGf~v~~ 181 (255)
T PRK14103 173 TDAGCKVDA 181 (255)
T ss_pred HhCCCeEEE
Confidence 999998543
No 20
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=99.14 E-value=2.9e-10 Score=99.13 Aligned_cols=83 Identities=16% Similarity=0.090 Sum_probs=59.2
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCC--hhhhhhhhhhHHHhhccCCccccChhhccH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEAT--PATREASSIDIIMLMQLSGEKERTKQEYYG 211 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~--~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~ 211 (239)
|+|++..+||++++. ...|++++++|+|||+|++.+.+.+...... +..++.. |.. --...|.+++
T Consensus 190 D~V~s~gvL~H~~dp--~~~L~el~r~LkpGG~Lvletl~i~g~~~~~l~p~~ry~k-----~~n---v~flpS~~~L-- 257 (314)
T TIGR00452 190 DTVFSMGVLYHRKSP--LEHLKQLKHQLVIKGELVLETLVIDGDLNTVLVPKDRYAK-----MKN---VYFIPSVSAL-- 257 (314)
T ss_pred CEEEEcchhhccCCH--HHHHHHHHHhcCCCCEEEEEEEEecCccccccCchHHHHh-----ccc---cccCCCHHHH--
Confidence 999999999999876 4789999999999999999877665432111 0111111 110 0012478889
Q ss_pred HHHHhhCCCceeeEEEc
Q 045543 212 MALTAKNGFKGVNYESF 228 (239)
Q Consensus 212 ~~ll~~aGf~~~~~~~~ 228 (239)
.+||+++||+.+++...
T Consensus 258 ~~~L~~aGF~~V~i~~~ 274 (314)
T TIGR00452 258 KNWLEKVGFENFRILDV 274 (314)
T ss_pred HHHHHHCCCeEEEEEec
Confidence 99999999999987654
No 21
>PF13489 Methyltransf_23: Methyltransferase domain; PDB: 3JWJ_A 3JWH_B 2AOV_B 2AOT_A 1JQD_B 2AOX_A 1JQE_A 2AOU_B 2AOW_A 3DLI_C ....
Probab=99.13 E-value=7.5e-11 Score=92.27 Aligned_cols=108 Identities=20% Similarity=0.252 Sum_probs=75.0
Q ss_pred CCCcceEEEeCCCCCC------------Ccccc--------------c---c-ccCC-c-ceeeechhhhcCChhHHHHH
Q 045543 106 FEKIKQLVDVGGGCGK------------CGWKM--------------F---Q-KILN-G-DAILMKLILRNWDDEHCLSL 153 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~------------~~gD~--------------~---~-~~p~-~-D~~~l~~vlH~~~d~~~~~i 153 (239)
.....+|||||||.|. .+-|+ | . ..|. . |+|++.++||+.+| ...+
T Consensus 20 ~~~~~~vLDiGcG~G~~~~~l~~~~~~~~g~D~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~i~~~~~l~~~~d--~~~~ 97 (161)
T PF13489_consen 20 LKPGKRVLDIGCGTGSFLRALAKRGFEVTGVDISPQMIEKRNVVFDNFDAQDPPFPDGSFDLIICNDVLEHLPD--PEEF 97 (161)
T ss_dssp TTTTSEEEEESSTTSHHHHHHHHTTSEEEEEESSHHHHHHTTSEEEEEECHTHHCHSSSEEEEEEESSGGGSSH--HHHH
T ss_pred cCCCCEEEEEcCCCCHHHHHHHHhCCEEEEEECCHHHHhhhhhhhhhhhhhhhhccccchhhHhhHHHHhhccc--HHHH
Confidence 4667899999999999 11111 1 1 1233 3 99999999999996 4699
Q ss_pred HHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhcc-CCccccChhhccHHHHHhhCCCceee
Q 045543 154 LKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQL-SGEKERTKQEYYGMALTAKNGFKGVN 224 (239)
Q Consensus 154 L~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~-~~g~~rt~~e~~~~~ll~~aGf~~~~ 224 (239)
|+++++.|+|||.+++.+....... + . ......+.... .....+|.++| +++++++||++++
T Consensus 98 l~~l~~~LkpgG~l~~~~~~~~~~~-~---~---~~~~~~~~~~~~~~~~~~~~~~~--~~ll~~~G~~iv~ 160 (161)
T PF13489_consen 98 LKELSRLLKPGGYLVISDPNRDDPS-P---R---SFLKWRYDRPYGGHVHFFSPDEL--RQLLEQAGFEIVE 160 (161)
T ss_dssp HHHHHHCEEEEEEEEEEEEBTTSHH-H---H---HHHHCCGTCHHTTTTEEBBHHHH--HHHHHHTTEEEEE
T ss_pred HHHHHHhcCCCCEEEEEEcCCcchh-h---h---HHHhcCCcCccCceeccCCHHHH--HHHHHHCCCEEEE
Confidence 9999999999999999987653210 0 0 11111111100 13456799999 9999999999875
No 22
>PRK11207 tellurite resistance protein TehB; Provisional
Probab=99.10 E-value=9.4e-10 Score=89.97 Aligned_cols=109 Identities=18% Similarity=0.204 Sum_probs=78.8
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC---------------------------------------Ccccccc-ccCCc-c
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK---------------------------------------CGWKMFQ-KILNG-D 134 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~---------------------------------------~~gD~~~-~~p~~-D 134 (239)
.+.+++.++ ..+..+|||+|||+|. ...|+.+ +++.. |
T Consensus 19 ~~~l~~~l~-~~~~~~vLDiGcG~G~~a~~La~~g~~V~gvD~S~~~i~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~fD 97 (197)
T PRK11207 19 HSEVLEAVK-VVKPGKTLDLGCGNGRNSLYLAANGFDVTAWDKNPMSIANLERIKAAENLDNLHTAVVDLNNLTFDGEYD 97 (197)
T ss_pred hHHHHHhcc-cCCCCcEEEECCCCCHHHHHHHHCCCEEEEEeCCHHHHHHHHHHHHHcCCCcceEEecChhhCCcCCCcC
Confidence 467777777 6666899999999999 2245544 33444 9
Q ss_pred eeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHH
Q 045543 135 AILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMAL 214 (239)
Q Consensus 135 ~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~l 214 (239)
+|++..++|.+++++...++++++++|+|||++++++.+.+++...+ .-. -...+.+|+ .++
T Consensus 98 ~I~~~~~~~~~~~~~~~~~l~~i~~~LkpgG~~~~~~~~~~~~~~~~------~~~----------~~~~~~~el--~~~ 159 (197)
T PRK11207 98 FILSTVVLMFLEAKTIPGLIANMQRCTKPGGYNLIVAAMDTADYPCT------VGF----------PFAFKEGEL--RRY 159 (197)
T ss_pred EEEEecchhhCCHHHHHHHHHHHHHHcCCCcEEEEEEEecCCCCCCC------CCC----------CCccCHHHH--HHH
Confidence 99999999999988899999999999999999888776544321100 000 012467778 888
Q ss_pred HhhCCCceeeE
Q 045543 215 TAKNGFKGVNY 225 (239)
Q Consensus 215 l~~aGf~~~~~ 225 (239)
++ ||+++..
T Consensus 160 ~~--~~~~~~~ 168 (197)
T PRK11207 160 YE--GWEMVKY 168 (197)
T ss_pred hC--CCeEEEe
Confidence 87 8887765
No 23
>PF05891 Methyltransf_PK: AdoMet dependent proline di-methyltransferase; InterPro: IPR008576 This family consists of several eukaryotic proteins of unknown function that are S-adenosyl-L-methionine-dependent methyltransferase-like.; GO: 0008168 methyltransferase activity; PDB: 1XTP_A 2EX4_B.
Probab=99.09 E-value=1.9e-10 Score=94.12 Aligned_cols=104 Identities=22% Similarity=0.355 Sum_probs=77.7
Q ss_pred CcceEEEeCCCCCC-----------------------------------Ccccccc-c----cCC--c-ceeeechhhhc
Q 045543 108 KIKQLVDVGGGCGK-----------------------------------CGWKMFQ-K----ILN--G-DAILMKLILRN 144 (239)
Q Consensus 108 ~~~~vlDvGGG~G~-----------------------------------~~gD~~~-~----~p~--~-D~~~l~~vlH~ 144 (239)
+..+.||+|+|.|. ..+++|. . .|+ . |+|++.|++-+
T Consensus 55 ~~~~alDcGAGIGRVTk~lLl~~f~~VDlVEp~~~Fl~~a~~~l~~~~~~v~~~~~~gLQ~f~P~~~~YDlIW~QW~lgh 134 (218)
T PF05891_consen 55 KFNRALDCGAGIGRVTKGLLLPVFDEVDLVEPVEKFLEQAKEYLGKDNPRVGEFYCVGLQDFTPEEGKYDLIWIQWCLGH 134 (218)
T ss_dssp --SEEEEET-TTTHHHHHTCCCC-SEEEEEES-HHHHHHHHHHTCCGGCCEEEEEES-GGG----TT-EEEEEEES-GGG
T ss_pred CcceEEecccccchhHHHHHHHhcCEeEEeccCHHHHHHHHHHhcccCCCcceEEecCHhhccCCCCcEeEEEehHhhcc
Confidence 46899999999999 2344543 1 242 3 99999999999
Q ss_pred CChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceee
Q 045543 145 WDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVN 224 (239)
Q Consensus 145 ~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~ 224 (239)
++|++.+..|++|.++|+|+|.|+|-|.+..... ..+|- .+++-.||.+.| ++++++||+++++
T Consensus 135 LTD~dlv~fL~RCk~~L~~~G~IvvKEN~~~~~~---------~~~D~-----~DsSvTRs~~~~--~~lF~~AGl~~v~ 198 (218)
T PF05891_consen 135 LTDEDLVAFLKRCKQALKPNGVIVVKENVSSSGF---------DEFDE-----EDSSVTRSDEHF--RELFKQAGLRLVK 198 (218)
T ss_dssp S-HHHHHHHHHHHHHHEEEEEEEEEEEEEESSSE---------EEEET-----TTTEEEEEHHHH--HHHHHHCT-EEEE
T ss_pred CCHHHHHHHHHHHHHhCcCCcEEEEEecCCCCCC---------cccCC-----ccCeeecCHHHH--HHHHHHcCCEEEE
Confidence 9999999999999999999999999999876531 12332 246778999999 9999999999998
Q ss_pred EEE
Q 045543 225 YES 227 (239)
Q Consensus 225 ~~~ 227 (239)
...
T Consensus 199 ~~~ 201 (218)
T PF05891_consen 199 EEK 201 (218)
T ss_dssp EEE
T ss_pred ecc
Confidence 654
No 24
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=99.05 E-value=1.1e-09 Score=93.03 Aligned_cols=143 Identities=13% Similarity=0.152 Sum_probs=85.0
Q ss_pred hHHHHHHHHHHhccccc---------HHHHHhhccCCCCcceEEEeCCCCCC----------------------------
Q 045543 79 RFNEVLNTAMLSHNSIV---------MNRILDYYKGFEKIKQLVDVGGGCGK---------------------------- 121 (239)
Q Consensus 79 ~~~~~f~~~m~~~~~~~---------~~~~~~~~~~~~~~~~vlDvGGG~G~---------------------------- 121 (239)
+.++.|.+.+-...... ...+++.++ ....+|||+|||+|.
T Consensus 8 ~~a~~f~~~~y~~~~g~~r~~~~~~~~~~~l~~l~--~~~~~vLDiGcG~G~~a~~la~~g~~v~~vD~s~~~l~~a~~~ 85 (255)
T PRK11036 8 DIAEKFSRNIYGTTKGQIRQAILWQDLDRLLAELP--PRPLRVLDAGGGEGQTAIKLAELGHQVILCDLSAEMIQRAKQA 85 (255)
T ss_pred hHHHHHHHhccCCCccHHHHHHHHHHHHHHHHhcC--CCCCEEEEeCCCchHHHHHHHHcCCEEEEEECCHHHHHHHHHH
Confidence 34566776665443322 123444443 445799999999999
Q ss_pred ------------Ccccccc--ccCC-c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChh-h
Q 045543 122 ------------CGWKMFQ--KILN-G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPA-T 184 (239)
Q Consensus 122 ------------~~gD~~~--~~p~-~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~-~ 184 (239)
+.+|+.+ +.+. . |+|++..+||++++.. .+|+++++.|+|||+|+|..+......-.... .
T Consensus 86 ~~~~g~~~~v~~~~~d~~~l~~~~~~~fD~V~~~~vl~~~~~~~--~~l~~~~~~LkpgG~l~i~~~n~~~~~~~~~~~~ 163 (255)
T PRK11036 86 AEAKGVSDNMQFIHCAAQDIAQHLETPVDLILFHAVLEWVADPK--SVLQTLWSVLRPGGALSLMFYNANGLLMHNMVAG 163 (255)
T ss_pred HHhcCCccceEEEEcCHHHHhhhcCCCCCEEEehhHHHhhCCHH--HHHHHHHHHcCCCeEEEEEEECccHHHHHHHHcc
Confidence 1223322 2333 3 9999999999998764 88999999999999999875432110000000 0
Q ss_pred hhhhhhhHHHh-----hccCCccccChhhccHHHHHhhCCCceeeEEEcC
Q 045543 185 REASSIDIIML-----MQLSGEKERTKQEYYGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 185 ~~~~~~dl~ml-----~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~ 229 (239)
.+.. .+-.+. ... -....+.+++ .++|+++||+++....+.
T Consensus 164 ~~~~-~~~~~~~~~~~~~~-p~~~~~~~~l--~~~l~~aGf~~~~~~gi~ 209 (255)
T PRK11036 164 NFDY-VQAGMPKRKKRTLS-PDYPLDPEQV--YQWLEEAGWQIMGKTGVR 209 (255)
T ss_pred ChHH-HHhcCccccccCCC-CCCCCCHHHH--HHHHHHCCCeEeeeeeEE
Confidence 0000 000000 000 0123567899 999999999998776553
No 25
>PF06080 DUF938: Protein of unknown function (DUF938); InterPro: IPR010342 This family consists of several hypothetical proteins from both prokaryotes and eukaryotes. The function of this family is unknown.
Probab=99.02 E-value=3.9e-09 Score=85.94 Aligned_cols=101 Identities=15% Similarity=0.071 Sum_probs=80.8
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMA 213 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ 213 (239)
|++++.|++|--+-+.+..+++.+.+.|+|||.|+++.++.-+..-.+ .-...||-..-...+....|..++. .+
T Consensus 104 D~i~~~N~lHI~p~~~~~~lf~~a~~~L~~gG~L~~YGPF~~~G~~ts---~SN~~FD~sLr~rdp~~GiRD~e~v--~~ 178 (204)
T PF06080_consen 104 DAIFCINMLHISPWSAVEGLFAGAARLLKPGGLLFLYGPFNRDGKFTS---ESNAAFDASLRSRDPEWGIRDIEDV--EA 178 (204)
T ss_pred ceeeehhHHHhcCHHHHHHHHHHHHHhCCCCCEEEEeCCcccCCEeCC---cHHHHHHHHHhcCCCCcCccCHHHH--HH
Confidence 999999999999999999999999999999999999998765543211 1134566655544456778999988 99
Q ss_pred HHhhCCCceeeEEEcCCceeEEEEEC
Q 045543 214 LTAKNGFKGVNYESFVCNFYIMEFIK 239 (239)
Q Consensus 214 ll~~aGf~~~~~~~~~~~~~vie~~k 239 (239)
+.+++||+.++.+..|.+.-++..+|
T Consensus 179 lA~~~GL~l~~~~~MPANN~~Lvfrk 204 (204)
T PF06080_consen 179 LAAAHGLELEEDIDMPANNLLLVFRK 204 (204)
T ss_pred HHHHCCCccCcccccCCCCeEEEEeC
Confidence 99999999999999986655555554
No 26
>PRK08317 hypothetical protein; Provisional
Probab=98.98 E-value=5.9e-09 Score=86.65 Aligned_cols=122 Identities=13% Similarity=0.198 Sum_probs=78.7
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC-----------------------------------------Ccccccc-ccCC-c-
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK-----------------------------------------CGWKMFQ-KILN-G- 133 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~-----------------------------------------~~gD~~~-~~p~-~- 133 (239)
.+++.++ +.+..+|||+|||.|. ..+|+.+ +++. .
T Consensus 10 ~~~~~~~-~~~~~~vLdiG~G~G~~~~~~a~~~~~~~~v~~~d~~~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~~ 88 (241)
T PRK08317 10 RTFELLA-VQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKERAAGLGPNVEFVRGDADGLPFPDGSF 88 (241)
T ss_pred HHHHHcC-CCCCCEEEEeCCCCCHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHHhhCCCCceEEEecccccCCCCCCCc
Confidence 3455566 7778899999999999 1123332 3333 3
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCC-CCChhhhhhhhhhHHHhhccCCccccChhhccHH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIP-EATPATREASSIDIIMLMQLSGEKERTKQEYYGM 212 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~-~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~ 212 (239)
|+|++.+++|++++. ..++++++++|+|||++++.+....... .+.........+.. +... .....+..++ .
T Consensus 89 D~v~~~~~~~~~~~~--~~~l~~~~~~L~~gG~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~~~~--~ 161 (241)
T PRK08317 89 DAVRSDRVLQHLEDP--ARALAEIARVLRPGGRVVVLDTDWDTLVWHSGDRALMRKILNF--WSDH-FADPWLGRRL--P 161 (241)
T ss_pred eEEEEechhhccCCH--HHHHHHHHHHhcCCcEEEEEecCCCceeecCCChHHHHHHHHH--HHhc-CCCCcHHHHH--H
Confidence 999999999999876 4789999999999999999885322111 00000011111111 1111 2233456678 9
Q ss_pred HHHhhCCCceeeEEE
Q 045543 213 ALTAKNGFKGVNYES 227 (239)
Q Consensus 213 ~ll~~aGf~~~~~~~ 227 (239)
++|+++||+.+++..
T Consensus 162 ~~l~~aGf~~~~~~~ 176 (241)
T PRK08317 162 GLFREAGLTDIEVEP 176 (241)
T ss_pred HHHHHcCCCceeEEE
Confidence 999999999876643
No 27
>KOG1540 consensus Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]
Probab=98.96 E-value=5.7e-09 Score=86.83 Aligned_cols=95 Identities=18% Similarity=0.255 Sum_probs=65.9
Q ss_pred Ccccccc-ccCCc--ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhh--hhhhhH----
Q 045543 122 CGWKMFQ-KILNG--DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATRE--ASSIDI---- 192 (239)
Q Consensus 122 ~~gD~~~-~~p~~--D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~--~~~~dl---- 192 (239)
+.||.-+ |+|.. |.|.+..-+.+|++.+ +.|+.++++||||||+.+.|+---++. +..++ +.++|.
T Consensus 164 ~~~dAE~LpFdd~s~D~yTiafGIRN~th~~--k~l~EAYRVLKpGGrf~cLeFskv~~~---~l~~fy~~ysf~Vlpvl 238 (296)
T KOG1540|consen 164 VEGDAEDLPFDDDSFDAYTIAFGIRNVTHIQ--KALREAYRVLKPGGRFSCLEFSKVENE---PLKWFYDQYSFDVLPVL 238 (296)
T ss_pred EeCCcccCCCCCCcceeEEEecceecCCCHH--HHHHHHHHhcCCCcEEEEEEccccccH---HHHHHHHhhhhhhhchh
Confidence 5567755 77753 9999999999999875 899999999999999999997533321 11111 122222
Q ss_pred -----------HHhhccCCccccChhhccHHHHHhhCCCceee
Q 045543 193 -----------IMLMQLSGEKERTKQEYYGMALTAKNGFKGVN 224 (239)
Q Consensus 193 -----------~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~ 224 (239)
..|+.. =-+..+.+|+ ..+.++|||..+.
T Consensus 239 G~~iagd~~sYqYLveS-I~rfp~qe~f--~~miedaGF~~~~ 278 (296)
T KOG1540|consen 239 GEIIAGDRKSYQYLVES-IRRFPPQEEF--ASMIEDAGFSSVN 278 (296)
T ss_pred hHhhhhhHhhhhhHHhh-hhcCCCHHHH--HHHHHHcCCcccc
Confidence 111110 1133477899 9999999999987
No 28
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=98.96 E-value=5.9e-09 Score=85.11 Aligned_cols=110 Identities=12% Similarity=0.128 Sum_probs=75.6
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC--------------------------------------Ccccccc-ccCCc-ce
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK--------------------------------------CGWKMFQ-KILNG-DA 135 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~--------------------------------------~~gD~~~-~~p~~-D~ 135 (239)
...+++.++ .....+|||+|||+|. ...|+.. +++.. |+
T Consensus 19 ~~~l~~~~~-~~~~~~vLDiGcG~G~~a~~la~~g~~V~~iD~s~~~l~~a~~~~~~~~~~v~~~~~d~~~~~~~~~fD~ 97 (195)
T TIGR00477 19 HSAVREAVK-TVAPCKTLDLGCGQGRNSLYLSLAGYDVRAWDHNPASIASVLDMKARENLPLRTDAYDINAAALNEDYDF 97 (195)
T ss_pred hHHHHHHhc-cCCCCcEEEeCCCCCHHHHHHHHCCCeEEEEECCHHHHHHHHHHHHHhCCCceeEeccchhccccCCCCE
Confidence 356667766 5556899999999999 1123322 23334 99
Q ss_pred eeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHH
Q 045543 136 ILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALT 215 (239)
Q Consensus 136 ~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll 215 (239)
|++..++|++++++...++++++++|+|||+++|++....+....+ .. .....+.+|+ .+++
T Consensus 98 I~~~~~~~~~~~~~~~~~l~~~~~~LkpgG~lli~~~~~~~~~~~~--------~~--------~~~~~~~~el--~~~f 159 (195)
T TIGR00477 98 IFSTVVFMFLQAGRVPEIIANMQAHTRPGGYNLIVAAMDTADYPCH--------MP--------FSFTFKEDEL--RQYY 159 (195)
T ss_pred EEEecccccCCHHHHHHHHHHHHHHhCCCcEEEEEEecccCCCCCC--------CC--------cCccCCHHHH--HHHh
Confidence 9999999999988889999999999999999888776543321100 00 0112467777 7777
Q ss_pred hhCCCceeeEE
Q 045543 216 AKNGFKGVNYE 226 (239)
Q Consensus 216 ~~aGf~~~~~~ 226 (239)
+ +|++....
T Consensus 160 ~--~~~~~~~~ 168 (195)
T TIGR00477 160 A--DWELLKYN 168 (195)
T ss_pred C--CCeEEEee
Confidence 6 47776554
No 29
>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes.
Probab=98.95 E-value=4.1e-09 Score=87.52 Aligned_cols=78 Identities=15% Similarity=0.241 Sum_probs=58.4
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMA 213 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ 213 (239)
|+|+...++|++++. ..+|+++++.|+|||++++.+...+...... ... . .....+..+| .+
T Consensus 69 D~I~~~~~l~~~~~~--~~~l~~~~~~LkpgG~l~i~~~~~~~~~~~~-----~~~--------~-~~~~~s~~~~--~~ 130 (224)
T smart00828 69 DLVFGFEVIHHIKDK--MDLFSNISRHLKDGGHLVLADFIANLLSAIE-----HEE--------T-TSYLVTREEW--AE 130 (224)
T ss_pred CEeehHHHHHhCCCH--HHHHHHHHHHcCCCCEEEEEEcccccCcccc-----ccc--------c-ccccCCHHHH--HH
Confidence 999999999999775 5899999999999999999987533211000 000 0 1123578899 99
Q ss_pred HHhhCCCceeeEEEcC
Q 045543 214 LTAKNGFKGVNYESFV 229 (239)
Q Consensus 214 ll~~aGf~~~~~~~~~ 229 (239)
+++++||++++...+.
T Consensus 131 ~l~~~Gf~~~~~~~~~ 146 (224)
T smart00828 131 LLARNNLRVVEGVDAS 146 (224)
T ss_pred HHHHCCCeEEEeEECc
Confidence 9999999999887653
No 30
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=98.95 E-value=3.4e-09 Score=97.76 Aligned_cols=113 Identities=15% Similarity=0.147 Sum_probs=84.2
Q ss_pred cHHHHHhhccCCCCcceEEEeCCCCCC-------------------------------------Ccccccc---ccCC-c
Q 045543 95 VMNRILDYYKGFEKIKQLVDVGGGCGK-------------------------------------CGWKMFQ---KILN-G 133 (239)
Q Consensus 95 ~~~~~~~~~~~~~~~~~vlDvGGG~G~-------------------------------------~~gD~~~---~~p~-~ 133 (239)
..+.+++.++ ..+..+|||||||+|. +.+|+.+ ++|. .
T Consensus 25 ~~~~il~~l~-~~~~~~vLDlGcG~G~~~~~la~~~~~v~giD~s~~~l~~a~~~~~~~~~i~~~~~d~~~~~~~~~~~~ 103 (475)
T PLN02336 25 ERPEILSLLP-PYEGKSVLELGAGIGRFTGELAKKAGQVIALDFIESVIKKNESINGHYKNVKFMCADVTSPDLNISDGS 103 (475)
T ss_pred hhhHHHhhcC-ccCCCEEEEeCCCcCHHHHHHHhhCCEEEEEeCCHHHHHHHHHHhccCCceEEEEecccccccCCCCCC
Confidence 3456677776 5566799999999998 2345532 3453 3
Q ss_pred -ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHH
Q 045543 134 -DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGM 212 (239)
Q Consensus 134 -D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~ 212 (239)
|+|++..++|++++++...+|+++++.|+|||++++.|.+....... .... .....|+..+| .
T Consensus 104 fD~I~~~~~l~~l~~~~~~~~l~~~~r~Lk~gG~l~~~d~~~~~~~~~------~~~~--------~~~~~~~~~~~--~ 167 (475)
T PLN02336 104 VDLIFSNWLLMYLSDKEVENLAERMVKWLKVGGYIFFRESCFHQSGDS------KRKN--------NPTHYREPRFY--T 167 (475)
T ss_pred EEEEehhhhHHhCCHHHHHHHHHHHHHhcCCCeEEEEEeccCCCCCcc------cccC--------CCCeecChHHH--H
Confidence 99999999999999988999999999999999999999876543211 0100 12334678899 9
Q ss_pred HHHhhCCCceee
Q 045543 213 ALTAKNGFKGVN 224 (239)
Q Consensus 213 ~ll~~aGf~~~~ 224 (239)
+++.++||....
T Consensus 168 ~~f~~~~~~~~~ 179 (475)
T PLN02336 168 KVFKECHTRDED 179 (475)
T ss_pred HHHHHheeccCC
Confidence 999999988763
No 31
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=98.94 E-value=3.7e-09 Score=92.60 Aligned_cols=86 Identities=13% Similarity=0.105 Sum_probs=57.6
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCC----ccccChhhc
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSG----EKERTKQEY 209 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~----g~~rt~~e~ 209 (239)
|+|++..+||+++|.. .+|+.+++.|+|||+++|........ .+.........+.-++ -.+ .+.++.+|+
T Consensus 200 D~Vi~~~vLeHv~d~~--~~L~~l~r~LkPGG~liist~nr~~~---~~~~~i~~~eyi~~~l-p~gth~~~~f~tp~eL 273 (322)
T PLN02396 200 DAVLSLEVIEHVANPA--EFCKSLSALTIPNGATVLSTINRTMR---AYASTIVGAEYILRWL-PKGTHQWSSFVTPEEL 273 (322)
T ss_pred CEEEEhhHHHhcCCHH--HHHHHHHHHcCCCcEEEEEECCcCHH---HHHHhhhhHHHHHhcC-CCCCcCccCCCCHHHH
Confidence 9999999999999875 89999999999999999976432110 0000000000000111 112 135689999
Q ss_pred cHHHHHhhCCCceeeEEE
Q 045543 210 YGMALTAKNGFKGVNYES 227 (239)
Q Consensus 210 ~~~~ll~~aGf~~~~~~~ 227 (239)
.++|+++||+++++..
T Consensus 274 --~~lL~~aGf~i~~~~G 289 (322)
T PLN02396 274 --SMILQRASVDVKEMAG 289 (322)
T ss_pred --HHHHHHcCCeEEEEee
Confidence 9999999999998754
No 32
>PF02353 CMAS: Mycolic acid cyclopropane synthetase; InterPro: IPR003333 This entry represents mycolic acid cyclopropane synthases and related enzymes, including CmaA1, CmaA2 (cyclopropane mycolic acid synthase A1 and A2) and MmaA1-4 (methoxymycolic acid synthase A1-4). All are thought to be S-adenosyl-L-methionine (SAM) utilising methyltransferases []. Mycolic acid cyclopropane synthase or cyclopropane-fatty-acyl-phospholipid synthase (CFA synthase) 2.1.1.79 from EC catalyses the reaction: S-adenosyl-L-methionine + phospholipid olefinic fatty acid -> S-adenosyl-L-homocysteine + phospholipid cyclopropane fatty acid. The major mycolic acid produced by Mycobacterium tuberculosis contains two cis-cyclopropanes in the meromycolate chain. Cyclopropanation may contribute to the structural integrity of the cell wall complex [].; GO: 0008610 lipid biosynthetic process; PDB: 3HA5_A 2FK8_A 3HA7_A 3HA3_A 2FK7_A 1KPG_D 1KP9_B 1KPH_D 3VC2_E 3VC1_D ....
Probab=98.93 E-value=4.6e-09 Score=90.05 Aligned_cols=126 Identities=13% Similarity=0.189 Sum_probs=83.7
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC-----------------------------------------CccccccccCCc-
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK-----------------------------------------CGWKMFQKILNG- 133 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~-----------------------------------------~~gD~~~~~p~~- 133 (239)
...+++..+ .++..+|||||||-|. .-.|+.+ ++..
T Consensus 51 ~~~~~~~~~-l~~G~~vLDiGcGwG~~~~~~a~~~g~~v~gitlS~~Q~~~a~~~~~~~gl~~~v~v~~~D~~~-~~~~f 128 (273)
T PF02353_consen 51 LDLLCEKLG-LKPGDRVLDIGCGWGGLAIYAAERYGCHVTGITLSEEQAEYARERIREAGLEDRVEVRLQDYRD-LPGKF 128 (273)
T ss_dssp HHHHHTTTT---TT-EEEEES-TTSHHHHHHHHHH--EEEEEES-HHHHHHHHHHHHCSTSSSTEEEEES-GGG----S-
T ss_pred HHHHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHcCcEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEeeccc-cCCCC
Confidence 457778887 8999999999999999 2235443 4434
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMA 213 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ 213 (239)
|.|+.-..+.+...++-..+++++.+.|+|||++++......+.... .......+...--.++||...+..++ ..
T Consensus 129 D~IvSi~~~Ehvg~~~~~~~f~~~~~~LkpgG~~~lq~i~~~~~~~~---~~~~~~~~~i~kyiFPgg~lps~~~~--~~ 203 (273)
T PF02353_consen 129 DRIVSIEMFEHVGRKNYPAFFRKISRLLKPGGRLVLQTITHRDPPYH---AERRSSSDFIRKYIFPGGYLPSLSEI--LR 203 (273)
T ss_dssp SEEEEESEGGGTCGGGHHHHHHHHHHHSETTEEEEEEEEEE--HHHH---HCTTCCCHHHHHHTSTTS---BHHHH--HH
T ss_pred CEEEEEechhhcChhHHHHHHHHHHHhcCCCcEEEEEecccccccch---hhcCCCceEEEEeeCCCCCCCCHHHH--HH
Confidence 99999999999998888999999999999999999988776553211 00000012222223579999999999 99
Q ss_pred HHhhCCCceeeEEEc
Q 045543 214 LTAKNGFKGVNYESF 228 (239)
Q Consensus 214 ll~~aGf~~~~~~~~ 228 (239)
.++++||++..+...
T Consensus 204 ~~~~~~l~v~~~~~~ 218 (273)
T PF02353_consen 204 AAEDAGLEVEDVENL 218 (273)
T ss_dssp HHHHTT-EEEEEEE-
T ss_pred HHhcCCEEEEEEEEc
Confidence 999999999887765
No 33
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=98.84 E-value=1.5e-08 Score=86.51 Aligned_cols=37 Identities=24% Similarity=0.335 Sum_probs=35.6
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+|+++++||++++++..+++++++++|+|||.|++-
T Consensus 205 D~I~crnvl~yf~~~~~~~~l~~l~~~L~pGG~L~lg 241 (264)
T smart00138 205 DLIFCRNVLIYFDEPTQRKLLNRFAEALKPGGYLFLG 241 (264)
T ss_pred CEEEechhHHhCCHHHHHHHHHHHHHHhCCCeEEEEE
Confidence 9999999999999999999999999999999999984
No 34
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=98.78 E-value=5.1e-08 Score=84.28 Aligned_cols=109 Identities=18% Similarity=0.193 Sum_probs=74.3
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC--------------------------------------Ccccccc-ccCCc-cee
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK--------------------------------------CGWKMFQ-KILNG-DAI 136 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~--------------------------------------~~gD~~~-~~p~~-D~~ 136 (239)
+.++..++ ..+..+|||||||+|. ..+|+.+ +++.. |+|
T Consensus 110 ~~~~~~~~-~~~~~~vLDlGcG~G~~~~~la~~g~~V~avD~s~~ai~~~~~~~~~~~l~v~~~~~D~~~~~~~~~fD~I 188 (287)
T PRK12335 110 SEVLEAVQ-TVKPGKALDLGCGQGRNSLYLALLGFDVTAVDINQQSLENLQEIAEKENLNIRTGLYDINSASIQEEYDFI 188 (287)
T ss_pred HHHHHHhh-ccCCCCEEEeCCCCCHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHcCCceEEEEechhcccccCCccEE
Confidence 34555555 4445699999999999 2233333 23333 999
Q ss_pred eechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHh
Q 045543 137 LMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTA 216 (239)
Q Consensus 137 ~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~ 216 (239)
++..+||..++++...+++++++.|+|||+++++...-.+....+ .. --...+.+|+ .++++
T Consensus 189 ~~~~vl~~l~~~~~~~~l~~~~~~LkpgG~~l~v~~~~~~~~~~~--------~p--------~~~~~~~~el--~~~~~ 250 (287)
T PRK12335 189 LSTVVLMFLNRERIPAIIKNMQEHTNPGGYNLIVCAMDTEDYPCP--------MP--------FSFTFKEGEL--KDYYQ 250 (287)
T ss_pred EEcchhhhCCHHHHHHHHHHHHHhcCCCcEEEEEEecccccCCCC--------CC--------CCcccCHHHH--HHHhC
Confidence 999999999988889999999999999999888765433321110 00 0112467777 88886
Q ss_pred hCCCceeeEE
Q 045543 217 KNGFKGVNYE 226 (239)
Q Consensus 217 ~aGf~~~~~~ 226 (239)
. |++++..
T Consensus 251 ~--~~i~~~~ 258 (287)
T PRK12335 251 D--WEIVKYN 258 (287)
T ss_pred C--CEEEEEe
Confidence 4 8877653
No 35
>TIGR03438 probable methyltransferase. This model represents a distinct set of uncharacterized proteins found in the bacteria. Analysis by PSI-BLAST shows remote sequence homology to methyltransferases
Probab=98.77 E-value=3.5e-08 Score=85.88 Aligned_cols=48 Identities=13% Similarity=0.174 Sum_probs=38.7
Q ss_pred Cccccccc--cCC-----c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEE
Q 045543 122 CGWKMFQK--ILN-----G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 122 ~~gD~~~~--~p~-----~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli 169 (239)
+.|||++. ++. . .++++...+|+++++++..+|++++++|+|||+++|
T Consensus 120 i~gD~~~~~~~~~~~~~~~~~~~~~gs~~~~~~~~e~~~~L~~i~~~L~pgG~~li 175 (301)
T TIGR03438 120 ICADFTQPLALPPEPAAGRRLGFFPGSTIGNFTPEEAVAFLRRIRQLLGPGGGLLI 175 (301)
T ss_pred EEEcccchhhhhcccccCCeEEEEecccccCCCHHHHHHHHHHHHHhcCCCCEEEE
Confidence 35788752 332 2 467777899999999999999999999999999986
No 36
>PF08241 Methyltransf_11: Methyltransferase domain; InterPro: IPR013216 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Arsenite methyltransferase (2.1.1.137 from EC) which converts arsenical compounds to their methylated forms [] Biotin synthesis protein bioC, which is involved in the early stages of biotin biosyntheis [] Arginine N-methyltransferase 1, an arginine-methylating enzyme which acts on residues present in a glycine and argine-rich domain and can methylate histones [] Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Sterol 24-C-methyltransferase (2.1.1.41 from EC), shown to participate in ergosterol biosynthesis [] 3-demethylubiquinone-9 3-methyltransferase (2.1.1.64 from EC) involved in ubiquinone biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ]. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 3CGG_B 3CCF_B 3BKW_B 2PXX_A 3I9F_A 2YQZ_B 2YR0_A 3BUS_A 3EGE_A 3G5L_B ....
Probab=98.77 E-value=6.3e-09 Score=73.80 Aligned_cols=46 Identities=15% Similarity=0.282 Sum_probs=37.0
Q ss_pred Ccccccc-ccCCc--ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEE
Q 045543 122 CGWKMFQ-KILNG--DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 122 ~~gD~~~-~~p~~--D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli 169 (239)
+.+|+.+ ++|.. |+|++.+++|++ ++..++++++++.|||||+++|
T Consensus 47 ~~~d~~~l~~~~~sfD~v~~~~~~~~~--~~~~~~l~e~~rvLk~gG~l~~ 95 (95)
T PF08241_consen 47 RQGDAEDLPFPDNSFDVVFSNSVLHHL--EDPEAALREIYRVLKPGGRLVI 95 (95)
T ss_dssp EESBTTSSSS-TT-EEEEEEESHGGGS--SHHHHHHHHHHHHEEEEEEEEE
T ss_pred eeehHHhCccccccccccccccceeec--cCHHHHHHHHHHHcCcCeEEeC
Confidence 3455555 66643 999999999999 4557999999999999999986
No 37
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=98.76 E-value=4.8e-08 Score=83.41 Aligned_cols=123 Identities=20% Similarity=0.227 Sum_probs=95.3
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC-----------------------------------------CccccccccCC-c
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK-----------------------------------------CGWKMFQKILN-G 133 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~-----------------------------------------~~gD~~~~~p~-~ 133 (239)
.+.+++.+. +++..+|||||||-|. .-.|+- .+.+ -
T Consensus 61 ~~~~~~kl~-L~~G~~lLDiGCGWG~l~~~aA~~y~v~V~GvTlS~~Q~~~~~~r~~~~gl~~~v~v~l~d~r-d~~e~f 138 (283)
T COG2230 61 LDLILEKLG-LKPGMTLLDIGCGWGGLAIYAAEEYGVTVVGVTLSEEQLAYAEKRIAARGLEDNVEVRLQDYR-DFEEPF 138 (283)
T ss_pred HHHHHHhcC-CCCCCEEEEeCCChhHHHHHHHHHcCCEEEEeeCCHHHHHHHHHHHHHcCCCcccEEEecccc-cccccc
Confidence 457788888 9999999999999999 122222 2333 3
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMA 213 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ 213 (239)
|-|+.-..++++..+.-...++++++.|+|||+++++....++.+.. ....+.+- -.++||...|..+. ..
T Consensus 139 DrIvSvgmfEhvg~~~~~~ff~~~~~~L~~~G~~llh~I~~~~~~~~----~~~~~i~~---yiFPgG~lPs~~~i--~~ 209 (283)
T COG2230 139 DRIVSVGMFEHVGKENYDDFFKKVYALLKPGGRMLLHSITGPDQEFR----RFPDFIDK---YIFPGGELPSISEI--LE 209 (283)
T ss_pred ceeeehhhHHHhCcccHHHHHHHHHhhcCCCceEEEEEecCCCcccc----cchHHHHH---hCCCCCcCCCHHHH--HH
Confidence 99999999999999999999999999999999999998876664321 11122222 23589999999999 99
Q ss_pred HHhhCCCceeeEEEcC
Q 045543 214 LTAKNGFKGVNYESFV 229 (239)
Q Consensus 214 ll~~aGf~~~~~~~~~ 229 (239)
...++||.+.......
T Consensus 210 ~~~~~~~~v~~~~~~~ 225 (283)
T COG2230 210 LASEAGFVVLDVESLR 225 (283)
T ss_pred HHHhcCcEEehHhhhc
Confidence 9999999998776543
No 38
>PF13847 Methyltransf_31: Methyltransferase domain; PDB: 3T0I_B 3SVZ_B 3SXJ_A 3F4K_A 3GU3_B 2GH1_A 1R8Y_E 1R8X_B 2B3T_A 1T43_A ....
Probab=98.76 E-value=7.6e-09 Score=80.88 Aligned_cols=102 Identities=19% Similarity=0.242 Sum_probs=69.2
Q ss_pred CcceEEEeCCCCCC------------------------------------------Ccccccc-c--cCC-cceeeechh
Q 045543 108 KIKQLVDVGGGCGK------------------------------------------CGWKMFQ-K--ILN-GDAILMKLI 141 (239)
Q Consensus 108 ~~~~vlDvGGG~G~------------------------------------------~~gD~~~-~--~p~-~D~~~l~~v 141 (239)
+..+|||+|||+|. ..+|+++ + ++. .|+|++..+
T Consensus 3 ~~~~iLDlGcG~G~~~~~l~~~~~~~~~i~gvD~s~~~i~~a~~~~~~~~~~ni~~~~~d~~~l~~~~~~~~D~I~~~~~ 82 (152)
T PF13847_consen 3 SNKKILDLGCGTGRLLIQLAKELNPGAKIIGVDISEEMIEYAKKRAKELGLDNIEFIQGDIEDLPQELEEKFDIIISNGV 82 (152)
T ss_dssp TTSEEEEET-TTSHHHHHHHHHSTTTSEEEEEESSHHHHHHHHHHHHHTTSTTEEEEESBTTCGCGCSSTTEEEEEEEST
T ss_pred CCCEEEEecCcCcHHHHHHHHhcCCCCEEEEEECcHHHHHHhhcccccccccccceEEeehhccccccCCCeeEEEEcCc
Confidence 45799999999999 5577777 3 333 499999999
Q ss_pred hhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhh--HHHhhccCCccccChhhccHHHHHhhCC
Q 045543 142 LRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSID--IIMLMQLSGEKERTKQEYYGMALTAKNG 219 (239)
Q Consensus 142 lH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~d--l~ml~~~~~g~~rt~~e~~~~~ll~~aG 219 (239)
+|++++.. .+|+++.+.|+|+|++++.+....+.... .....+. ...+.....+. +.++| ..+|++||
T Consensus 83 l~~~~~~~--~~l~~~~~~lk~~G~~i~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~--~~~~~--~~~~~~ag 152 (152)
T PF13847_consen 83 LHHFPDPE--KVLKNIIRLLKPGGILIISDPNHNDELPE----QLEELMNLYSEVWSMIYIGN--DKEEW--KYILEEAG 152 (152)
T ss_dssp GGGTSHHH--HHHHHHHHHEEEEEEEEEEEEEHSHHHHH----HHHHHHHHHHHHHHHCC-----CCCGH--HHHHHHTT
T ss_pred hhhccCHH--HHHHHHHHHcCCCcEEEEEECChHHHHHH----HHHHHHHHHHHHhhhhhccc--CHHHH--HHHHHhcC
Confidence 99998874 88999999999999999998873221100 1111111 11111111122 88899 99999998
No 39
>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase. This model represents the S-adenosylmethionine-dependent O-methyltransferase responsible for methylation of magnesium protoporphyrin IX. This step is essentiasl for the biosynthesis of both chlorophyll and bacteriochlorophyll. This model encompasses two closely related clades, from cyanobacteria (and plants) where it is called ChlM and other photosynthetic bacteria where it is known as BchM.
Probab=98.76 E-value=6.5e-08 Score=80.17 Aligned_cols=149 Identities=11% Similarity=0.013 Sum_probs=86.9
Q ss_pred cccccccCchHHHHHHHHHHhcccccHHHHHhhccC-CCCcceEEEeCCCCCC---------------------------
Q 045543 70 DYEHAGLDSRFNEVLNTAMLSHNSIVMNRILDYYKG-FEKIKQLVDVGGGCGK--------------------------- 121 (239)
Q Consensus 70 ~~~~l~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~-~~~~~~vlDvGGG~G~--------------------------- 121 (239)
.|+.+..++.....+...|..........+++.++. ..+..++||||||+|.
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~~~~~v~gvD~s~~~i~~a~~ 95 (219)
T TIGR02021 16 RWARIYGSGDPVSRVRQTVREGRAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAKRGAIVKAVDISEQMVQMARN 95 (219)
T ss_pred HHHHhhCCchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHHCCCEEEEEECCHHHHHHHHH
Confidence 455455555555566665543333333444444431 3456899999999999
Q ss_pred -------------CccccccccCC-cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhh
Q 045543 122 -------------CGWKMFQKILN-GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREA 187 (239)
Q Consensus 122 -------------~~gD~~~~~p~-~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~ 187 (239)
..+|+.+ .+. .|++++..++|++++++...+++++++.+++++.+.+ .+.. . .. ...
T Consensus 96 ~~~~~~~~~~i~~~~~d~~~-~~~~fD~ii~~~~l~~~~~~~~~~~l~~i~~~~~~~~~i~~----~~~~--~-~~-~~~ 166 (219)
T TIGR02021 96 RAQGRDVAGNVEFEVNDLLS-LCGEFDIVVCMDVLIHYPASDMAKALGHLASLTKERVIFTF----APKT--A-WL-AFL 166 (219)
T ss_pred HHHhcCCCCceEEEECChhh-CCCCcCEEEEhhHHHhCCHHHHHHHHHHHHHHhCCCEEEEE----CCCc--h-HH-HHH
Confidence 1122221 233 3999999999999888888999999998876543322 1111 1 00 001
Q ss_pred hhhhHHHhhc--cCCccccChhhccHHHHHhhCCCceeeEEEcC
Q 045543 188 SSIDIIMLMQ--LSGEKERTKQEYYGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 188 ~~~dl~ml~~--~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~ 229 (239)
..+.-..-.. ...-..++.+++ .++++++||+++......
T Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~~~Gf~v~~~~~~~ 208 (219)
T TIGR02021 167 KMIGELFPGSSRATSAYLHPMTDL--ERALGELGWKIVREGLVS 208 (219)
T ss_pred HHHHhhCcCcccccceEEecHHHH--HHHHHHcCceeeeeeccc
Confidence 1111100000 001133588999 999999999999887654
No 40
>PF12847 Methyltransf_18: Methyltransferase domain; PDB: 3G2Q_A 3G2O_A 3G2M_B 3G2P_B 3D2L_B 1IM8_B 3NJR_A 3E05_H 3EVZ_A 3HM2_A ....
Probab=98.75 E-value=1.6e-08 Score=74.52 Aligned_cols=50 Identities=14% Similarity=0.156 Sum_probs=38.7
Q ss_pred Ccccc-cc-ccCC-cceeeech-hhhcCCh-hHHHHHHHHHHhhCCCCceEEEEe
Q 045543 122 CGWKM-FQ-KILN-GDAILMKL-ILRNWDD-EHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 122 ~~gD~-~~-~~p~-~D~~~l~~-vlH~~~d-~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
+.+|+ +. +.+. .|++++.. .+|++.+ ++..++|+++++.|+|||+++|.+
T Consensus 57 ~~~d~~~~~~~~~~~D~v~~~~~~~~~~~~~~~~~~~l~~~~~~L~pgG~lvi~~ 111 (112)
T PF12847_consen 57 VQGDAEFDPDFLEPFDLVICSGFTLHFLLPLDERRRVLERIRRLLKPGGRLVINT 111 (112)
T ss_dssp EESCCHGGTTTSSCEEEEEECSGSGGGCCHHHHHHHHHHHHHHHEEEEEEEEEEE
T ss_pred EECccccCcccCCCCCEEEECCCccccccchhHHHHHHHHHHHhcCCCcEEEEEE
Confidence 55777 33 3333 49999999 6775543 678899999999999999999865
No 41
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=98.73 E-value=1.1e-07 Score=80.43 Aligned_cols=130 Identities=10% Similarity=0.085 Sum_probs=81.3
Q ss_pred HHHHHHHHHhcc------cccHHHHHhhccCCCCcceEEEeCCCCCC---------------------------------
Q 045543 81 NEVLNTAMLSHN------SIVMNRILDYYKGFEKIKQLVDVGGGCGK--------------------------------- 121 (239)
Q Consensus 81 ~~~f~~~m~~~~------~~~~~~~~~~~~~~~~~~~vlDvGGG~G~--------------------------------- 121 (239)
.+.|.++...+. +..+..+++.++ .....+|||+|||+|.
T Consensus 10 ~~~F~~aa~~Y~~~~~~q~~~a~~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~~~~~v~~~D~s~~~l~~a~~~~~~~~ 88 (251)
T PRK10258 10 AAAFGRAAAHYEQHAELQRQSADALLAMLP-QRKFTHVLDAGCGPGWMSRYWRERGSQVTALDLSPPMLAQARQKDAADH 88 (251)
T ss_pred HHHHHHHHHhHhHHHHHHHHHHHHHHHhcC-ccCCCeEEEeeCCCCHHHHHHHHcCCeEEEEECCHHHHHHHHhhCCCCC
Confidence 455665554332 223455666666 4567899999999997
Q ss_pred -Ccccccc-ccCC-c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhc
Q 045543 122 -CGWKMFQ-KILN-G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQ 197 (239)
Q Consensus 122 -~~gD~~~-~~p~-~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~ 197 (239)
+.+|+.+ +++. . |+|+....+|..+|. ..+|+++++.|+|||++++.......-+ +....+..+.. .
T Consensus 89 ~~~~d~~~~~~~~~~fD~V~s~~~l~~~~d~--~~~l~~~~~~Lk~gG~l~~~~~~~~~~~-----el~~~~~~~~~--~ 159 (251)
T PRK10258 89 YLAGDIESLPLATATFDLAWSNLAVQWCGNL--STALRELYRVVRPGGVVAFTTLVQGSLP-----ELHQAWQAVDE--R 159 (251)
T ss_pred EEEcCcccCcCCCCcEEEEEECchhhhcCCH--HHHHHHHHHHcCCCeEEEEEeCCCCchH-----HHHHHHHHhcc--C
Confidence 2345544 4554 3 999999999866654 5899999999999999998765432111 00011100000 0
Q ss_pred cCCccccChhhccHHHHHhhCCCce
Q 045543 198 LSGEKERTKQEYYGMALTAKNGFKG 222 (239)
Q Consensus 198 ~~~g~~rt~~e~~~~~ll~~aGf~~ 222 (239)
.....-.+.+++ .+++...|+..
T Consensus 160 ~~~~~~~~~~~l--~~~l~~~~~~~ 182 (251)
T PRK10258 160 PHANRFLPPDAI--EQALNGWRYQH 182 (251)
T ss_pred CccccCCCHHHH--HHHHHhCCcee
Confidence 001234578889 99999888764
No 42
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=98.73 E-value=8.4e-08 Score=81.42 Aligned_cols=73 Identities=19% Similarity=0.235 Sum_probs=58.0
Q ss_pred cHHHHHhhccCCCCcceEEEeCCCCCC------------------------------------CccccccccC-Cc-cee
Q 045543 95 VMNRILDYYKGFEKIKQLVDVGGGCGK------------------------------------CGWKMFQKIL-NG-DAI 136 (239)
Q Consensus 95 ~~~~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------~~gD~~~~~p-~~-D~~ 136 (239)
.+..+++.++ +.+..+|||||||+|. +.+|+.+..+ .. |++
T Consensus 19 ~~~~ll~~~~-~~~~~~vLDiGcG~G~~~~~la~~~~~~~v~gvD~s~~~i~~a~~~~~~~~~~~~d~~~~~~~~~fD~v 97 (258)
T PRK01683 19 PARDLLARVP-LENPRYVVDLGCGPGNSTELLVERWPAARITGIDSSPAMLAEARSRLPDCQFVEADIASWQPPQALDLI 97 (258)
T ss_pred HHHHHHhhCC-CcCCCEEEEEcccCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhCCCCeEEECchhccCCCCCccEE
Confidence 3567778777 7888999999999998 2345443223 23 999
Q ss_pred eechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 137 LMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 137 ~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
+++.++|..+|. .++|++++++|+|||++++.
T Consensus 98 ~~~~~l~~~~d~--~~~l~~~~~~LkpgG~~~~~ 129 (258)
T PRK01683 98 FANASLQWLPDH--LELFPRLVSLLAPGGVLAVQ 129 (258)
T ss_pred EEccChhhCCCH--HHHHHHHHHhcCCCcEEEEE
Confidence 999999988765 58999999999999999885
No 43
>PF08003 Methyltransf_9: Protein of unknown function (DUF1698); InterPro: IPR010017 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This entry represents a set of bacterial AdoMet-dependent tRNA (mo5U34)-methyltransferases. These enzymes catalyse the conversion of 5-hydroxyuridine (ho5U) to 5-methoxyuridine (mo5U) at the wobble position (34) of tRNA []. The 5-methoxyuridine is subsequently converted to uridine-5-oxyacetic acid, a modified nucleoside that is apparently necessary for the efficient decoding of G-ending Pro, Ala, and Val codons in these organisms [].; GO: 0016300 tRNA (uracil) methyltransferase activity, 0002098 tRNA wobble uridine modification
Probab=98.70 E-value=6.2e-08 Score=83.10 Aligned_cols=83 Identities=16% Similarity=0.160 Sum_probs=59.0
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCC--hhhhhhhhhhHHHhhccCCccccChhhccH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEAT--PATREASSIDIIMLMQLSGEKERTKQEYYG 211 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~--~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~ 211 (239)
|+|++-.||.|..+. ...|+.++++|+|||.|++-..+++.+.... +..+++.+-. . =-.-|..-.
T Consensus 184 DtVF~MGVLYHrr~P--l~~L~~Lk~~L~~gGeLvLETlvi~g~~~~~L~P~~rYa~m~n--v------~FiPs~~~L-- 251 (315)
T PF08003_consen 184 DTVFSMGVLYHRRSP--LDHLKQLKDSLRPGGELVLETLVIDGDENTVLVPEDRYAKMRN--V------WFIPSVAAL-- 251 (315)
T ss_pred CEEEEeeehhccCCH--HHHHHHHHHhhCCCCEEEEEEeeecCCCceEEccCCcccCCCc--e------EEeCCHHHH--
Confidence 999999999999887 5889999999999999877555655443211 1112221100 0 123377888
Q ss_pred HHHHhhCCCceeeEEEc
Q 045543 212 MALTAKNGFKGVNYESF 228 (239)
Q Consensus 212 ~~ll~~aGf~~~~~~~~ 228 (239)
..||+++||+.+++..+
T Consensus 252 ~~wl~r~gF~~v~~v~~ 268 (315)
T PF08003_consen 252 KNWLERAGFKDVRCVDV 268 (315)
T ss_pred HHHHHHcCCceEEEecC
Confidence 99999999999998754
No 44
>PRK06202 hypothetical protein; Provisional
Probab=98.70 E-value=1.6e-07 Score=78.51 Aligned_cols=83 Identities=18% Similarity=0.171 Sum_probs=56.0
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhc-----cCC-----ccc
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQ-----LSG-----EKE 203 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~-----~~~-----g~~ 203 (239)
|+|+++.+||+++|++...+|+++++.++ |.++|.|...+.. .+........... ..+ -+-
T Consensus 131 D~V~~~~~lhh~~d~~~~~~l~~~~r~~~--~~~~i~dl~~~~~-------~~~~~~~~~~~~~~~~~~~~d~~~s~~~~ 201 (232)
T PRK06202 131 DVVTSNHFLHHLDDAEVVRLLADSAALAR--RLVLHNDLIRSRL-------AYALFWAGTRLLSRSSFVHTDGLLSVRRS 201 (232)
T ss_pred cEEEECCeeecCChHHHHHHHHHHHHhcC--eeEEEeccccCHH-------HHHHHHHHHHHhccCceeeccchHHHHhh
Confidence 99999999999999888899999999998 5666666544321 0111111111000 001 134
Q ss_pred cChhhccHHHHHhhCCCceeeEEEc
Q 045543 204 RTKQEYYGMALTAKNGFKGVNYESF 228 (239)
Q Consensus 204 rt~~e~~~~~ll~~aGf~~~~~~~~ 228 (239)
+|.+|+ .+++++ ||++...++.
T Consensus 202 ~~~~el--~~ll~~-Gf~~~~~~~~ 223 (232)
T PRK06202 202 YTPAEL--AALAPQ-GWRVERQWPF 223 (232)
T ss_pred cCHHHH--HHHhhC-CCeEEeccce
Confidence 588999 999999 9998877655
No 45
>PRK04266 fibrillarin; Provisional
Probab=98.68 E-value=1.9e-07 Score=78.02 Aligned_cols=78 Identities=13% Similarity=0.148 Sum_probs=49.6
Q ss_pred ceeeechhhhcCChh-HHHHHHHHHHhhCCCCceEEEE-eeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccH
Q 045543 134 DAILMKLILRNWDDE-HCLSLLKNCYEAIPGNGKIIII-DSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYG 211 (239)
Q Consensus 134 D~~~l~~vlH~~~d~-~~~~iL~~~~~aL~pgg~lli~-d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~ 211 (239)
|+++ |+.++. ....+|+++++.|+|||+++|. ..- + .|... .. .+..++.
T Consensus 143 D~i~-----~d~~~p~~~~~~L~~~~r~LKpGG~lvI~v~~~-~--------------~d~~~-----~~-~~~~~~~-- 194 (226)
T PRK04266 143 DVIY-----QDVAQPNQAEIAIDNAEFFLKDGGYLLLAIKAR-S--------------IDVTK-----DP-KEIFKEE-- 194 (226)
T ss_pred CEEE-----ECCCChhHHHHHHHHHHHhcCCCcEEEEEEecc-c--------------ccCcC-----CH-HHHHHHH--
Confidence 6665 555544 3346789999999999999994 321 0 01000 00 1223555
Q ss_pred HHHHhhCCCceeeEEEcCC---ceeEEEEEC
Q 045543 212 MALTAKNGFKGVNYESFVC---NFYIMEFIK 239 (239)
Q Consensus 212 ~~ll~~aGf~~~~~~~~~~---~~~vie~~k 239 (239)
.++++++||+.++...... .+..+.+++
T Consensus 195 ~~~l~~aGF~~i~~~~l~p~~~~h~~~v~~~ 225 (226)
T PRK04266 195 IRKLEEGGFEILEVVDLEPYHKDHAAVVARK 225 (226)
T ss_pred HHHHHHcCCeEEEEEcCCCCcCCeEEEEEEc
Confidence 7889999999999887753 366666653
No 46
>PRK05785 hypothetical protein; Provisional
Probab=98.66 E-value=1.6e-07 Score=78.53 Aligned_cols=122 Identities=13% Similarity=0.049 Sum_probs=76.5
Q ss_pred CcceEEEeCCCCCC--------------------------------Ccccccc-ccCCc--ceeeechhhhcCChhHHHH
Q 045543 108 KIKQLVDVGGGCGK--------------------------------CGWKMFQ-KILNG--DAILMKLILRNWDDEHCLS 152 (239)
Q Consensus 108 ~~~~vlDvGGG~G~--------------------------------~~gD~~~-~~p~~--D~~~l~~vlH~~~d~~~~~ 152 (239)
...+|||||||+|. +.+|+.+ |++.. |++++...||+++|.+ +
T Consensus 51 ~~~~VLDlGcGtG~~~~~l~~~~~~~v~gvD~S~~Ml~~a~~~~~~~~~d~~~lp~~d~sfD~v~~~~~l~~~~d~~--~ 128 (226)
T PRK05785 51 RPKKVLDVAAGKGELSYHFKKVFKYYVVALDYAENMLKMNLVADDKVVGSFEALPFRDKSFDVVMSSFALHASDNIE--K 128 (226)
T ss_pred CCCeEEEEcCCCCHHHHHHHHhcCCEEEEECCCHHHHHHHHhccceEEechhhCCCCCCCEEEEEecChhhccCCHH--H
Confidence 36799999999998 2345544 55543 9999999999998764 7
Q ss_pred HHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHH---HhhccCCc--c-----------ccChhhccHHHHHh
Q 045543 153 LLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDII---MLMQLSGE--K-----------ERTKQEYYGMALTA 216 (239)
Q Consensus 153 iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~---ml~~~~~g--~-----------~rt~~e~~~~~ll~ 216 (239)
.|+++++.|+| .+.|+|...++..-. ...+..++... +...+ ++ . -.+.+++ .++++
T Consensus 129 ~l~e~~RvLkp--~~~ile~~~p~~~~~--~~~~~~y~~~~~P~~~~~~-~~~~~~Y~yl~~si~~f~~~~~~--~~~~~ 201 (226)
T PRK05785 129 VIAEFTRVSRK--QVGFIAMGKPDNVIK--RKYLSFYLRYIMPYIACLA-GAKCRDYKYIYYIYERLPTNSFH--REIFE 201 (226)
T ss_pred HHHHHHHHhcC--ceEEEEeCCCCcHHH--HHHHHHHHHHHHHHHHHHh-cCChHHHHHHHHHHHHCCCHHHH--HHHHH
Confidence 89999999999 455667654432110 00011111110 10011 12 1 2266888 99999
Q ss_pred hCCCceeeEEEcC-CceeEEEEEC
Q 045543 217 KNGFKGVNYESFV-CNFYIMEFIK 239 (239)
Q Consensus 217 ~aGf~~~~~~~~~-~~~~vie~~k 239 (239)
++| ..++..... +-.++..++|
T Consensus 202 ~~~-~~~~~~~~~~G~~~~~~~~k 224 (226)
T PRK05785 202 KYA-DIKVYEERGLGLVYFVVGSS 224 (226)
T ss_pred HHh-CceEEEEccccEEEEEEEee
Confidence 984 667777765 4456666665
No 47
>PF08242 Methyltransf_12: Methyltransferase domain; InterPro: IPR013217 Methyl transfer from the ubiquitous donor S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] Fatty acid synthase (2.3.1.85 from EC), a biosynthetic enzyme catalysing the formation of long-chain fatty acids Glycine N-methyltransferase (2.1.1.20 from EC) which catalyses the SAM-dependent methylation of glycine to form sarcosine and may play a role in regulating the methylation potential of the cell [] Enniatin synthetase, involved in non-ribosomal biosynthesis of cyclohexadepsipeptidase, enniatin [] Histamine N-methyltransferase (2.1.1.8 from EC), a SAM-dependent histamine-inactivating enzyme [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ].; PDB: 2VZ8_A 2VZ9_A.
Probab=98.65 E-value=3.1e-08 Score=71.54 Aligned_cols=32 Identities=19% Similarity=0.416 Sum_probs=23.8
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceE
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKI 167 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~l 167 (239)
|+|++.++||+++ +...+|+++++.|+|||+|
T Consensus 68 D~V~~~~vl~~l~--~~~~~l~~~~~~L~pgG~l 99 (99)
T PF08242_consen 68 DLVVASNVLHHLE--DIEAVLRNIYRLLKPGGIL 99 (99)
T ss_dssp SEEEEE-TTS--S---HHHHHHHHTTT-TSS-EE
T ss_pred ceehhhhhHhhhh--hHHHHHHHHHHHcCCCCCC
Confidence 9999999999994 4569999999999999986
No 48
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=98.64 E-value=9.2e-08 Score=75.64 Aligned_cols=110 Identities=18% Similarity=0.124 Sum_probs=70.0
Q ss_pred Ccccccc-ccCC-c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhh--
Q 045543 122 CGWKMFQ-KILN-G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLM-- 196 (239)
Q Consensus 122 ~~gD~~~-~~p~-~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~-- 196 (239)
+.+|..+ +++. . |++++..++|+++|. .+.|+++++.|+|||+++|.|...++..-.. ..........+..
T Consensus 31 ~~~d~~~lp~~~~~fD~v~~~~~l~~~~d~--~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~--~~~~~~~~~~~~~~~ 106 (160)
T PLN02232 31 IEGDAIDLPFDDCEFDAVTMGYGLRNVVDR--LRAMKEMYRVLKPGSRVSILDFNKSNQSVTT--FMQGWMIDNVVVPVA 106 (160)
T ss_pred EEechhhCCCCCCCeeEEEecchhhcCCCH--HHHHHHHHHHcCcCeEEEEEECCCCChHHHH--HHHHHHccchHhhhh
Confidence 4567755 5554 3 999999999999876 5899999999999999999998754321100 0000000000000
Q ss_pred -ccCC-----------ccccChhhccHHHHHhhCCCceeeEEEcCC-ceeEEEE
Q 045543 197 -QLSG-----------EKERTKQEYYGMALTAKNGFKGVNYESFVC-NFYIMEF 237 (239)
Q Consensus 197 -~~~~-----------g~~rt~~e~~~~~ll~~aGf~~~~~~~~~~-~~~vie~ 237 (239)
.... ..-.+.+|+ .++|+++||+.++...... -.++..+
T Consensus 107 ~~~~~~~~y~yl~~si~~f~~~~el--~~ll~~aGF~~~~~~~~~~g~~~~~~~ 158 (160)
T PLN02232 107 TVYDLAKEYEYLKYSINGYLTGEEL--ETLALEAGFSSACHYEISGGFMGNLVA 158 (160)
T ss_pred HHhCChHHHHhHHHHHHHCcCHHHH--HHHHHHcCCCcceEEECcchHhHeeEe
Confidence 0000 123478888 9999999999988777653 3344433
No 49
>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated
Probab=98.64 E-value=2.6e-07 Score=76.84 Aligned_cols=83 Identities=16% Similarity=0.119 Sum_probs=53.5
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhc-----cCCccccChhh
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQ-----LSGEKERTKQE 208 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~-----~~~g~~rt~~e 208 (239)
|++++..++|+|++++...+++++.+.+++++ ++.. .+.. +. ...+....-.. .......+..+
T Consensus 129 D~v~~~~~l~~~~~~~~~~~l~~l~~~~~~~~-~i~~---~~~~--~~-----~~~~~~l~~~~~~~~~~~~~~~~~~~~ 197 (230)
T PRK07580 129 DTVVCLDVLIHYPQEDAARMLAHLASLTRGSL-IFTF---APYT--PL-----LALLHWIGGLFPGPSRTTRIYPHREKG 197 (230)
T ss_pred CEEEEcchhhcCCHHHHHHHHHHHHhhcCCeE-EEEE---CCcc--HH-----HHHHHHhccccCCccCCCCccccCHHH
Confidence 99999999999999999999999998765433 3322 1111 10 01111100000 01123457788
Q ss_pred ccHHHHHhhCCCceeeEEEcC
Q 045543 209 YYGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 209 ~~~~~ll~~aGf~~~~~~~~~ 229 (239)
| .++++++||++.++.+..
T Consensus 198 ~--~~~l~~~Gf~~~~~~~~~ 216 (230)
T PRK07580 198 I--RRALAAAGFKVVRTERIS 216 (230)
T ss_pred H--HHHHHHCCCceEeeeecc
Confidence 9 999999999999887764
No 50
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=98.63 E-value=1.9e-07 Score=83.92 Aligned_cols=120 Identities=10% Similarity=0.119 Sum_probs=84.2
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC-----------------------------C--------ccccccccCCc-ceeee
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK-----------------------------C--------GWKMFQKILNG-DAILM 138 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~-----------------------------~--------~gD~~~~~p~~-D~~~l 138 (239)
..+++.++ ..+..+|||||||.|. . .+|+. .++.. |+|+.
T Consensus 157 ~~l~~~l~-l~~g~rVLDIGcG~G~~a~~la~~~g~~V~giDlS~~~l~~A~~~~~~l~v~~~~~D~~-~l~~~fD~Ivs 234 (383)
T PRK11705 157 DLICRKLQ-LKPGMRVLDIGCGWGGLARYAAEHYGVSVVGVTISAEQQKLAQERCAGLPVEIRLQDYR-DLNGQFDRIVS 234 (383)
T ss_pred HHHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHCCCEEEEEeCCHHHHHHHHHHhccCeEEEEECchh-hcCCCCCEEEE
Confidence 35566666 7778899999999999 1 11221 12333 99999
Q ss_pred chhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhC
Q 045543 139 KLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKN 218 (239)
Q Consensus 139 ~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~a 218 (239)
..++|+.++++...+++++++.|+|||++++.+...+...... ..+++-. .+++|...+.+++ ...++ .
T Consensus 235 ~~~~ehvg~~~~~~~l~~i~r~LkpGG~lvl~~i~~~~~~~~~-----~~~i~~y---ifp~g~lps~~~i--~~~~~-~ 303 (383)
T PRK11705 235 VGMFEHVGPKNYRTYFEVVRRCLKPDGLFLLHTIGSNKTDTNV-----DPWINKY---IFPNGCLPSVRQI--AQASE-G 303 (383)
T ss_pred eCchhhCChHHHHHHHHHHHHHcCCCcEEEEEEccCCCCCCCC-----CCCceee---ecCCCcCCCHHHH--HHHHH-C
Confidence 9999999888778999999999999999999876544332111 1122211 1457877888888 88766 5
Q ss_pred CCceeeEEEcC
Q 045543 219 GFKGVNYESFV 229 (239)
Q Consensus 219 Gf~~~~~~~~~ 229 (239)
||.+..+...+
T Consensus 304 ~~~v~d~~~~~ 314 (383)
T PRK11705 304 LFVMEDWHNFG 314 (383)
T ss_pred CcEEEEEecCh
Confidence 89887776543
No 51
>KOG4300 consensus Predicted methyltransferase [General function prediction only]
Probab=98.61 E-value=4.8e-07 Score=73.34 Aligned_cols=89 Identities=15% Similarity=0.122 Sum_probs=63.1
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMA 213 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ 213 (239)
|+|+..-+|....| .++.|+++++.|+|||+++.+|.+..+...- ........+-.--..+ .|...|.+-| +
T Consensus 147 DtVV~TlvLCSve~--~~k~L~e~~rlLRpgG~iifiEHva~~y~~~--n~i~q~v~ep~~~~~~-dGC~ltrd~~---e 218 (252)
T KOG4300|consen 147 DTVVCTLVLCSVED--PVKQLNEVRRLLRPGGRIIFIEHVAGEYGFW--NRILQQVAEPLWHLES-DGCVLTRDTG---E 218 (252)
T ss_pred eeEEEEEEEeccCC--HHHHHHHHHHhcCCCcEEEEEecccccchHH--HHHHHHHhchhhheec-cceEEehhHH---H
Confidence 99999999976554 5799999999999999999999987765421 1111222332111223 6877887554 6
Q ss_pred HHhhCCCceeeEEEcCC
Q 045543 214 LTAKNGFKGVNYESFVC 230 (239)
Q Consensus 214 ll~~aGf~~~~~~~~~~ 230 (239)
.|+.|-|+..+....+.
T Consensus 219 ~Leda~f~~~~~kr~~~ 235 (252)
T KOG4300|consen 219 LLEDAEFSIDSCKRFNF 235 (252)
T ss_pred HhhhcccccchhhcccC
Confidence 78889999988777653
No 52
>PF05148 Methyltransf_8: Hypothetical methyltransferase; InterPro: IPR007823 This family consists of uncharacterised eukaryotic proteins which are related to S-adenosyl-L-methionine-dependent methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 2ZFU_B.
Probab=98.60 E-value=2.3e-07 Score=75.58 Aligned_cols=138 Identities=16% Similarity=0.227 Sum_probs=87.8
Q ss_pred cccccccCchHHHHHHHH----HHhcccccHHHHHhhccCCCCcceEEEeCCCCCC-----------------------C
Q 045543 70 DYEHAGLDSRFNEVLNTA----MLSHNSIVMNRILDYYKGFEKIKQLVDVGGGCGK-----------------------C 122 (239)
Q Consensus 70 ~~~~l~~~~~~~~~f~~~----m~~~~~~~~~~~~~~~~~~~~~~~vlDvGGG~G~-----------------------~ 122 (239)
-++.+.++|+.-+.|+++ +..+-......+++.+..-++...|.|.|||.+. +
T Consensus 30 A~~lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~~~~~~~viaD~GCGdA~la~~~~~~~~V~SfDLva~n~~Vt 109 (219)
T PF05148_consen 30 ALKLFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLKKRPKSLVIADFGCGDAKLAKAVPNKHKVHSFDLVAPNPRVT 109 (219)
T ss_dssp HHHHHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHCTS-TTS-EEEES-TT-HHHHH--S---EEEEESS-SSTTEE
T ss_pred HHHHHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHhcCCCEEEEECCCchHHHHHhcccCceEEEeeccCCCCCEE
Confidence 445567788765555444 4444444566777776634455799999999988 4
Q ss_pred cccccc-ccCCc--ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccC
Q 045543 123 GWKMFQ-KILNG--DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLS 199 (239)
Q Consensus 123 ~gD~~~-~~p~~--D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~ 199 (239)
+.|+-. |++.+ |++++.-.|-. -+....|+.+.+.|+|||.|.|.|... ++
T Consensus 110 acdia~vPL~~~svDv~VfcLSLMG---Tn~~~fi~EA~RvLK~~G~L~IAEV~S----------Rf------------- 163 (219)
T PF05148_consen 110 ACDIANVPLEDESVDVAVFCLSLMG---TNWPDFIREANRVLKPGGILKIAEVKS----------RF------------- 163 (219)
T ss_dssp ES-TTS-S--TT-EEEEEEES---S---S-HHHHHHHHHHHEEEEEEEEEEEEGG----------G--------------
T ss_pred EecCccCcCCCCceeEEEEEhhhhC---CCcHHHHHHHHheeccCcEEEEEEecc----------cC-------------
Confidence 556643 55543 99998888743 345688999999999999999998631 11
Q ss_pred CccccChhhccHHHHHhhCCCceeeEEEcCCceeEEEEEC
Q 045543 200 GEKERTKQEYYGMALTAKNGFKGVNYESFVCNFYIMEFIK 239 (239)
Q Consensus 200 ~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~~~~~vie~~k 239 (239)
-+.+++ .+.+++.||+..........+.+++++|
T Consensus 164 ----~~~~~F--~~~~~~~GF~~~~~d~~n~~F~~f~F~K 197 (219)
T PF05148_consen 164 ----ENVKQF--IKALKKLGFKLKSKDESNKHFVLFEFKK 197 (219)
T ss_dssp ----S-HHHH--HHHHHCTTEEEEEEE--STTEEEEEEEE
T ss_pred ----cCHHHH--HHHHHHCCCeEEecccCCCeEEEEEEEE
Confidence 144677 8889999999988766667888888875
No 53
>TIGR02072 BioC biotin biosynthesis protein BioC. This enzyme, which is found in biotin biosynthetic gene clusters in proteobacteria, firmicutes, green-sulfur bacteria, fusobacterium and bacteroides, is believed to carry out an enzymatic step prior to the formation of pimeloyl-CoA (although attribution of this annotation is not traceable). The enzyme appears related to methyltransferases by homology.
Probab=98.59 E-value=3.5e-07 Score=76.05 Aligned_cols=102 Identities=19% Similarity=0.159 Sum_probs=69.1
Q ss_pred CcceEEEeCCCCCC-------------------------------------Ccccccc-ccCC-c-ceeeechhhhcCCh
Q 045543 108 KIKQLVDVGGGCGK-------------------------------------CGWKMFQ-KILN-G-DAILMKLILRNWDD 147 (239)
Q Consensus 108 ~~~~vlDvGGG~G~-------------------------------------~~gD~~~-~~p~-~-D~~~l~~vlH~~~d 147 (239)
...+|||||||+|. +.+|+.+ +++. . |+|++.+++|..+|
T Consensus 34 ~~~~vLDlG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~vi~~~~l~~~~~ 113 (240)
T TIGR02072 34 IPASVLDIGCGTGYLTRALLKRFPQAEFIALDISAGMLAQAKTKLSENVQFICGDAEKLPLEDSSFDLIVSNLALQWCDD 113 (240)
T ss_pred CCCeEEEECCCccHHHHHHHHhCCCCcEEEEeChHHHHHHHHHhcCCCCeEEecchhhCCCCCCceeEEEEhhhhhhccC
Confidence 34789999999996 2234433 3343 3 99999999998866
Q ss_pred hHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEE
Q 045543 148 EHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYE 226 (239)
Q Consensus 148 ~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~ 226 (239)
. ..+|+++++.|+|||++++.+...... ...... +... +....+.++| .+++.++ |+.+...
T Consensus 114 ~--~~~l~~~~~~L~~~G~l~~~~~~~~~~---------~~~~~~--~~~~-~~~~~~~~~~--~~~l~~~-f~~~~~~ 175 (240)
T TIGR02072 114 L--SQALSELARVLKPGGLLAFSTFGPGTL---------HELRQS--FGQH-GLRYLSLDEL--KALLKNS-FELLTLE 175 (240)
T ss_pred H--HHHHHHHHHHcCCCcEEEEEeCCccCH---------HHHHHH--HHHh-ccCCCCHHHH--HHHHHHh-cCCcEEE
Confidence 5 479999999999999999875432211 011111 0101 3445688889 9999988 8876543
No 54
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=98.57 E-value=2.6e-07 Score=77.13 Aligned_cols=84 Identities=14% Similarity=0.156 Sum_probs=54.5
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHH-HhhccC-----CccccChh
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDII-MLMQLS-----GEKERTKQ 207 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~-ml~~~~-----~g~~rt~~ 207 (239)
|+|++.+++++.++. ..+|+++.+.|+|||++++.... . ... ... ....... .+.... ..+..+.+
T Consensus 116 D~Ii~~~~l~~~~~~--~~~l~~~~~~L~~gG~l~v~~~~--~--~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 187 (233)
T PRK05134 116 DVVTCMEMLEHVPDP--ASFVRACAKLVKPGGLVFFSTLN--R--NLK-SYL-LAIVGAEYVLRMLPKGTHDYKKFIKPS 187 (233)
T ss_pred cEEEEhhHhhccCCH--HHHHHHHHHHcCCCcEEEEEecC--C--ChH-HHH-HHHhhHHHHhhhcCcccCchhhcCCHH
Confidence 999999999998775 47899999999999999876532 1 110 000 0000000 000010 12334778
Q ss_pred hccHHHHHhhCCCceeeEEE
Q 045543 208 EYYGMALTAKNGFKGVNYES 227 (239)
Q Consensus 208 e~~~~~ll~~aGf~~~~~~~ 227 (239)
+| .++++++||++++...
T Consensus 188 ~~--~~~l~~~Gf~~v~~~~ 205 (233)
T PRK05134 188 EL--AAWLRQAGLEVQDITG 205 (233)
T ss_pred HH--HHHHHHCCCeEeeeee
Confidence 89 9999999999987753
No 55
>TIGR00537 hemK_rel_arch HemK-related putative methylase. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. This model represents an archaeal and eukaryotic protein family that lacks an N-terminal domain found in HemK and its eubacterial homologs. It is found in a single copy in the first six completed archaeal and eukaryotic genomes.
Probab=98.56 E-value=5.3e-07 Score=72.40 Aligned_cols=102 Identities=19% Similarity=0.204 Sum_probs=73.3
Q ss_pred CCcceEEEeCCCCCC--------------------------------------CccccccccCC-cceeeechhhhcCCh
Q 045543 107 EKIKQLVDVGGGCGK--------------------------------------CGWKMFQKILN-GDAILMKLILRNWDD 147 (239)
Q Consensus 107 ~~~~~vlDvGGG~G~--------------------------------------~~gD~~~~~p~-~D~~~l~~vlH~~~d 147 (239)
.+..+|+|+|||+|. +.+|+++..+. .|++++...+|..++
T Consensus 18 ~~~~~vLdlG~G~G~~~~~l~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~fD~Vi~n~p~~~~~~ 97 (179)
T TIGR00537 18 LKPDDVLEIGAGTGLVAIRLKGKGKCILTTDINPFAVKELRENAKLNNVGLDVVMTDLFKGVRGKFDVILFNPPYLPLED 97 (179)
T ss_pred cCCCeEEEeCCChhHHHHHHHhcCCEEEEEECCHHHHHHHHHHHHHcCCceEEEEcccccccCCcccEEEECCCCCCCcc
Confidence 344789999999999 34565553333 499999888776654
Q ss_pred h-------------------HHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhh
Q 045543 148 E-------------------HCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQE 208 (239)
Q Consensus 148 ~-------------------~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e 208 (239)
+ ....+|+++.+.|+|||++++++.... ...+
T Consensus 98 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~Lk~gG~~~~~~~~~~-----------------------------~~~~ 148 (179)
T TIGR00537 98 DLRRGDWLDVAIDGGKDGRKVIDRFLDELPEILKEGGRVQLIQSSLN-----------------------------GEPD 148 (179)
T ss_pred hhcccchhhhhhhcCCchHHHHHHHHHhHHHhhCCCCEEEEEEeccC-----------------------------ChHH
Confidence 2 145789999999999999999763211 1356
Q ss_pred ccHHHHHhhCCCceeeEEEcCCceeEEEEEC
Q 045543 209 YYGMALTAKNGFKGVNYESFVCNFYIMEFIK 239 (239)
Q Consensus 209 ~~~~~ll~~aGf~~~~~~~~~~~~~vie~~k 239 (239)
+ .++|++.||....+....-.+--++++|
T Consensus 149 ~--~~~l~~~gf~~~~~~~~~~~~~~~~~~~ 177 (179)
T TIGR00537 149 T--FDKLDERGFRYEIVAERGLFFEELFAIK 177 (179)
T ss_pred H--HHHHHhCCCeEEEEEEeecCceEEEEEE
Confidence 6 8889999999888877665555555554
No 56
>PF08100 Dimerisation: Dimerisation domain; InterPro: IPR012967 This domain is found at the N terminus of a variety of plant O-methyltransferases. It has been shown to mediate dimerisation of these proteins [].; GO: 0008168 methyltransferase activity, 0046983 protein dimerization activity; PDB: 1ZGJ_A 1ZG3_A 1ZHF_A 1ZGA_A 2QYO_A 1KYW_A 1KYZ_A 3REO_D 1FPX_A 1FP2_A ....
Probab=98.55 E-value=5.2e-08 Score=61.77 Aligned_cols=43 Identities=42% Similarity=0.729 Sum_probs=35.9
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhc
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSL 44 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 44 (239)
|||||+|+++| ++++|++||+.++...++.++..++|+||+|+
T Consensus 9 LgI~dii~~~g-~~~ls~~eia~~l~~~~p~~~~~L~RimR~L~ 51 (51)
T PF08100_consen 9 LGIPDIIHNAG-GGPLSLSEIAARLPTSNPSAPPMLDRIMRLLV 51 (51)
T ss_dssp TTHHHHHHHHT-TS-BEHHHHHHTSTCT-TTHHHHHHHHHHHHH
T ss_pred cCcHHHHHHcC-CCCCCHHHHHHHcCCCCcchHHHHHHHHHHhC
Confidence 79999999986 58999999999999435557889999999985
No 57
>PF03848 TehB: Tellurite resistance protein TehB; InterPro: IPR015985 Tellurite resistance protein TehB is part of a tellurite-reducing operon tehA and tehB. When present in high copy number, TehB is responsible for potassium tellurite resistance, probably by increasing the reduction rate of tellurite to metallic tellurium within the bacterium. TehB is a cytoplasmic protein which possesses three conserved motifs (I, II, and III) found in S-adenosyl-L-methionine (SAM)-dependent non-nucleic acid methyltransferases []. Conformational changes in TehB are observed upon binding of both tellurite and SAM, suggesting that TehB utilises a methyltransferase activity in the detoxification of tellurite. This entry represents the methyltransferase domain found in all TehB proteins.; PDB: 2KW5_A 3MER_B 3M70_A 2I6G_A 4DQ0_D 2XVA_B 2XVM_A.
Probab=98.52 E-value=2.1e-07 Score=75.52 Aligned_cols=76 Identities=17% Similarity=0.201 Sum_probs=59.3
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC--------------------------------------Ccccccc-ccCCc-cee
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK--------------------------------------CGWKMFQ-KILNG-DAI 136 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~--------------------------------------~~gD~~~-~~p~~-D~~ 136 (239)
+.+++.++ .-+..++||+|||.|. ...|+.+ .++.. |+|
T Consensus 20 s~v~~a~~-~~~~g~~LDlgcG~GRNalyLA~~G~~VtAvD~s~~al~~l~~~a~~~~l~i~~~~~Dl~~~~~~~~yD~I 98 (192)
T PF03848_consen 20 SEVLEAVP-LLKPGKALDLGCGEGRNALYLASQGFDVTAVDISPVALEKLQRLAEEEGLDIRTRVADLNDFDFPEEYDFI 98 (192)
T ss_dssp HHHHHHCT-TS-SSEEEEES-TTSHHHHHHHHTT-EEEEEESSHHHHHHHHHHHHHTT-TEEEEE-BGCCBS-TTTEEEE
T ss_pred HHHHHHHh-hcCCCcEEEcCCCCcHHHHHHHHCCCeEEEEECCHHHHHHHHHHHhhcCceeEEEEecchhccccCCcCEE
Confidence 46777777 6667899999999999 3456655 45554 999
Q ss_pred eechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeee
Q 045543 137 LMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDST 173 (239)
Q Consensus 137 ~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~ 173 (239)
+...|+|..+.+...+|++++.++++|||.++|...+
T Consensus 99 ~st~v~~fL~~~~~~~i~~~m~~~~~pGG~~li~~~~ 135 (192)
T PF03848_consen 99 VSTVVFMFLQRELRPQIIENMKAATKPGGYNLIVTFM 135 (192)
T ss_dssp EEESSGGGS-GGGHHHHHHHHHHTEEEEEEEEEEEEB
T ss_pred EEEEEeccCCHHHHHHHHHHHHhhcCCcEEEEEEEec
Confidence 9999999999999999999999999999998886654
No 58
>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase. Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme
Probab=98.48 E-value=4.8e-07 Score=74.41 Aligned_cols=69 Identities=19% Similarity=0.293 Sum_probs=55.6
Q ss_pred CCCcceEEEeCCCCCC------------------------------------CccccccccCC-c-ceeeechhhhcCCh
Q 045543 106 FEKIKQLVDVGGGCGK------------------------------------CGWKMFQKILN-G-DAILMKLILRNWDD 147 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~------------------------------------~~gD~~~~~p~-~-D~~~l~~vlH~~~d 147 (239)
..+..+|||||||+|. ..+|++++++. . |+|++..+||++++
T Consensus 41 ~~~~~~VLDiGCG~G~~~~~L~~~~~~~~v~giDiS~~~l~~A~~~~~~~~~~~~d~~~~~~~~sfD~V~~~~vL~hl~p 120 (204)
T TIGR03587 41 LPKIASILELGANIGMNLAALKRLLPFKHIYGVEINEYAVEKAKAYLPNINIIQGSLFDPFKDNFFDLVLTKGVLIHINP 120 (204)
T ss_pred cCCCCcEEEEecCCCHHHHHHHHhCCCCeEEEEECCHHHHHHHHhhCCCCcEEEeeccCCCCCCCEEEEEECChhhhCCH
Confidence 4456789999999999 34666665554 3 99999999999998
Q ss_pred hHHHHHHHHHHhhCCCCceEEEEeeecCC
Q 045543 148 EHCLSLLKNCYEAIPGNGKIIIIDSTTVV 176 (239)
Q Consensus 148 ~~~~~iL~~~~~aL~pgg~lli~d~~~~~ 176 (239)
++..++++++++.+ ++.++|.|...+.
T Consensus 121 ~~~~~~l~el~r~~--~~~v~i~e~~~~~ 147 (204)
T TIGR03587 121 DNLPTAYRELYRCS--NRYILIAEYYNPS 147 (204)
T ss_pred HHHHHHHHHHHhhc--CcEEEEEEeeCCC
Confidence 88899999999997 5678888875443
No 59
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=98.47 E-value=6.1e-07 Score=72.55 Aligned_cols=82 Identities=16% Similarity=0.216 Sum_probs=54.6
Q ss_pred HHHH-HHhcccccHHH-HHhhccCCCCcceEEEeCCCCCC----------------------------------------
Q 045543 84 LNTA-MLSHNSIVMNR-ILDYYKGFEKIKQLVDVGGGCGK---------------------------------------- 121 (239)
Q Consensus 84 f~~~-m~~~~~~~~~~-~~~~~~~~~~~~~vlDvGGG~G~---------------------------------------- 121 (239)
|.++ |...+...... ++..++ +.+..+|||||||+|.
T Consensus 6 f~~~~~~~~~~~~~r~~~~~~l~-~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~n~~~~~~~~i~ 84 (187)
T PRK08287 6 FLRGEKVPMTKEEVRALALSKLE-LHRAKHLIDVGAGTGSVSIEAALQFPSLQVTAIERNPDALRLIKENRQRFGCGNID 84 (187)
T ss_pred hccCCCCCCchHHHHHHHHHhcC-CCCCCEEEEECCcCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCeE
Confidence 4443 44444433333 335555 6777899999999999
Q ss_pred -CccccccccCCc-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEe
Q 045543 122 -CGWKMFQKILNG-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 122 -~~gD~~~~~p~~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
+.+|...+++.. |++++....+++ ..+++.+++.|+|||++++..
T Consensus 85 ~~~~d~~~~~~~~~D~v~~~~~~~~~-----~~~l~~~~~~Lk~gG~lv~~~ 131 (187)
T PRK08287 85 IIPGEAPIELPGKADAIFIGGSGGNL-----TAIIDWSLAHLHPGGRLVLTF 131 (187)
T ss_pred EEecCchhhcCcCCCEEEECCCccCH-----HHHHHHHHHhcCCCeEEEEEE
Confidence 223433333433 999987765433 468999999999999998754
No 60
>COG2227 UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]
Probab=98.47 E-value=4.7e-07 Score=75.11 Aligned_cols=85 Identities=14% Similarity=0.169 Sum_probs=58.8
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHH-HhhccCCc-----cccChh
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDII-MLMQLSGE-----KERTKQ 207 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~-ml~~~~~g-----~~rt~~ 207 (239)
|+|++-.||+|.+|++ .++++|.+-+||||.+++........ ......+... .+-..+.| +...++
T Consensus 126 DvV~cmEVlEHv~dp~--~~~~~c~~lvkP~G~lf~STinrt~k------a~~~~i~~ae~vl~~vP~gTH~~~k~irp~ 197 (243)
T COG2227 126 DVVTCMEVLEHVPDPE--SFLRACAKLVKPGGILFLSTINRTLK------AYLLAIIGAEYVLRIVPKGTHDYRKFIKPA 197 (243)
T ss_pred cEEEEhhHHHccCCHH--HHHHHHHHHcCCCcEEEEeccccCHH------HHHHHHHHHHHHHHhcCCcchhHHHhcCHH
Confidence 9999999999999987 59999999999999998876543221 1111111111 11122333 445678
Q ss_pred hccHHHHHhhCCCceeeEEEc
Q 045543 208 EYYGMALTAKNGFKGVNYESF 228 (239)
Q Consensus 208 e~~~~~ll~~aGf~~~~~~~~ 228 (239)
|. ..++..+|+.+.....+
T Consensus 198 El--~~~~~~~~~~~~~~~g~ 216 (243)
T COG2227 198 EL--IRWLLGANLKIIDRKGL 216 (243)
T ss_pred HH--HHhcccCCceEEeecce
Confidence 88 99999999998876543
No 61
>COG4106 Tam Trans-aconitate methyltransferase [General function prediction only]
Probab=98.47 E-value=1.2e-06 Score=71.43 Aligned_cols=138 Identities=14% Similarity=0.122 Sum_probs=91.5
Q ss_pred HhcccccHHHHHhhccCCCCcceEEEeCCCCCC------------------------------------CccccccccCC
Q 045543 89 LSHNSIVMNRILDYYKGFEKIKQLVDVGGGCGK------------------------------------CGWKMFQKILN 132 (239)
Q Consensus 89 ~~~~~~~~~~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------~~gD~~~~~p~ 132 (239)
...++ .+..++..++ .....+|+|+|||+|. ..+|.-+-.|+
T Consensus 13 ~eRtR-Pa~dLla~Vp-~~~~~~v~DLGCGpGnsTelL~~RwP~A~i~GiDsS~~Mla~Aa~rlp~~~f~~aDl~~w~p~ 90 (257)
T COG4106 13 DERTR-PARDLLARVP-LERPRRVVDLGCGPGNSTELLARRWPDAVITGIDSSPAMLAKAAQRLPDATFEEADLRTWKPE 90 (257)
T ss_pred HhccC-cHHHHHhhCC-ccccceeeecCCCCCHHHHHHHHhCCCCeEeeccCCHHHHHHHHHhCCCCceecccHhhcCCC
Confidence 33344 4678889998 8999999999999999 44565553453
Q ss_pred --cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhh------HHHhhcc---CCc
Q 045543 133 --GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSID------IIMLMQL---SGE 201 (239)
Q Consensus 133 --~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~d------l~ml~~~---~~g 201 (239)
.|+++...+||=.+|. ..+|.++...|.|||.|.+. +|++-..|. ...+.+ ..+.... ...
T Consensus 91 ~~~dllfaNAvlqWlpdH--~~ll~rL~~~L~Pgg~LAVQ---mPdN~deps---H~~mr~~A~~~p~~~~l~~~~~~r~ 162 (257)
T COG4106 91 QPTDLLFANAVLQWLPDH--PELLPRLVSQLAPGGVLAVQ---MPDNLDEPS---HRLMRETADEAPFAQELGGRGLTRA 162 (257)
T ss_pred Cccchhhhhhhhhhcccc--HHHHHHHHHhhCCCceEEEE---CCCccCchh---HHHHHHHHhcCchhhhhCccccccC
Confidence 4999999999877776 59999999999999998885 344333320 001111 1111000 022
Q ss_pred cccChhhccHHHHHhhCCCceeeEEE------cCCceeEEEEEC
Q 045543 202 KERTKQEYYGMALTAKNGFKGVNYES------FVCNFYIMEFIK 239 (239)
Q Consensus 202 ~~rt~~e~~~~~ll~~aGf~~~~~~~------~~~~~~vie~~k 239 (239)
..-+...| -++|...+-+ +.++. .++...|||-+|
T Consensus 163 ~v~s~a~Y--y~lLa~~~~r-vDiW~T~Y~h~l~~a~aIvdWvk 203 (257)
T COG4106 163 PLPSPAAY--YELLAPLACR-VDIWHTTYYHQLPGADAIVDWVK 203 (257)
T ss_pred CCCCHHHH--HHHhCcccce-eeeeeeeccccCCCccchhhhee
Confidence 33478899 9999988744 34433 456778888665
No 62
>KOG2361 consensus Predicted methyltransferase [General function prediction only]
Probab=98.45 E-value=4.3e-07 Score=75.19 Aligned_cols=88 Identities=20% Similarity=0.290 Sum_probs=62.5
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCcccc--ChhhccH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKER--TKQEYYG 211 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~r--t~~e~~~ 211 (239)
|++.+-.||--.+.+.....++++++.|+|||.|+.-|+-..+-..- ...-...++-+..+--+|-+.| +.++.
T Consensus 146 D~it~IFvLSAi~pek~~~a~~nl~~llKPGG~llfrDYg~~Dlaql--RF~~~~~i~~nfYVRgDGT~~YfF~~eeL-- 221 (264)
T KOG2361|consen 146 DIITLIFVLSAIHPEKMQSVIKNLRTLLKPGGSLLFRDYGRYDLAQL--RFKKGQCISENFYVRGDGTRAYFFTEEEL-- 221 (264)
T ss_pred ceEEEEEEEeccChHHHHHHHHHHHHHhCCCcEEEEeecccchHHHH--hccCCceeecceEEccCCceeeeccHHHH--
Confidence 99999999999999999999999999999999999999865432110 0000122333333332222223 78888
Q ss_pred HHHHhhCCCceeeE
Q 045543 212 MALTAKNGFKGVNY 225 (239)
Q Consensus 212 ~~ll~~aGf~~~~~ 225 (239)
++|+.+|||..++.
T Consensus 222 ~~~f~~agf~~~~~ 235 (264)
T KOG2361|consen 222 DELFTKAGFEEVQL 235 (264)
T ss_pred HHHHHhcccchhcc
Confidence 99999999998764
No 63
>PF05401 NodS: Nodulation protein S (NodS); InterPro: IPR008715 This entry consists of nodulation S (NodS) proteins. The products of the rhizobial nodulation genes are involved in the biosynthesis of lipochitin oligosaccharides (LCOs), which are host-specific signal molecules required for nodule formation. NodS is an S-adenosyl-L-methionine (SAM)-dependent methyltransferase involved in N methylation of LCOs. NodS uses N-deacetylated chitooligosaccharides, the products of the NodBC proteins, as its methyl acceptors [].; GO: 0008757 S-adenosylmethionine-dependent methyltransferase activity, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3OFK_D 3OFJ_A.
Probab=98.45 E-value=3.9e-07 Score=73.66 Aligned_cols=70 Identities=19% Similarity=0.241 Sum_probs=52.6
Q ss_pred hccCCCCcceEEEeCCCCCC-------------------------------------CccccccccCCc--ceeeechhh
Q 045543 102 YYKGFEKIKQLVDVGGGCGK-------------------------------------CGWKMFQKILNG--DAILMKLIL 142 (239)
Q Consensus 102 ~~~~~~~~~~vlDvGGG~G~-------------------------------------~~gD~~~~~p~~--D~~~l~~vl 142 (239)
.++ -....+++++|||.|. +..|+-+..|.+ |+|+++-|+
T Consensus 38 aLp-~~ry~~alEvGCs~G~lT~~LA~rCd~LlavDis~~Al~~Ar~Rl~~~~~V~~~~~dvp~~~P~~~FDLIV~SEVl 116 (201)
T PF05401_consen 38 ALP-RRRYRRALEVGCSIGVLTERLAPRCDRLLAVDISPRALARARERLAGLPHVEWIQADVPEFWPEGRFDLIVLSEVL 116 (201)
T ss_dssp HHT-TSSEEEEEEE--TTSHHHHHHGGGEEEEEEEES-HHHHHHHHHHTTT-SSEEEEES-TTT---SS-EEEEEEES-G
T ss_pred hcC-ccccceeEecCCCccHHHHHHHHhhCceEEEeCCHHHHHHHHHhcCCCCCeEEEECcCCCCCCCCCeeEEEEehHh
Confidence 456 5677899999999999 333443344543 999999999
Q ss_pred hcCCh-hHHHHHHHHHHhhCCCCceEEEEee
Q 045543 143 RNWDD-EHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 143 H~~~d-~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
|.+++ ++...+++++.++|+|||.|++...
T Consensus 117 YYL~~~~~L~~~l~~l~~~L~pgG~LV~g~~ 147 (201)
T PF05401_consen 117 YYLDDAEDLRAALDRLVAALAPGGHLVFGHA 147 (201)
T ss_dssp GGSSSHHHHHHHHHHHHHTEEEEEEEEEEEE
T ss_pred HcCCCHHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence 99986 6788999999999999999999765
No 64
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=98.43 E-value=1.8e-06 Score=77.29 Aligned_cols=74 Identities=15% Similarity=0.178 Sum_probs=54.9
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC--------------------------------------------CccccccccCC
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK--------------------------------------------CGWKMFQKILN 132 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~--------------------------------------------~~gD~~~~~p~ 132 (239)
.-+++.++ .....+|||+|||+|. +.+|.++.++.
T Consensus 218 rllL~~lp-~~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~~~~~~~v~~~~~D~l~~~~~ 296 (378)
T PRK15001 218 RFFMQHLP-ENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMPEALDRCEFMINNALSGVEP 296 (378)
T ss_pred HHHHHhCC-cccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCcccCceEEEEEccccccCCC
Confidence 44566666 4444699999999999 12344544443
Q ss_pred --cceeeec---hhhhcCChhHHHHHHHHHHhhCCCCceEEEEe
Q 045543 133 --GDAILMK---LILRNWDDEHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 133 --~D~~~l~---~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
.|+|++. |..|.++++.+.++++.+++.|+|||+++|+-
T Consensus 297 ~~fDlIlsNPPfh~~~~~~~~ia~~l~~~a~~~LkpGG~L~iV~ 340 (378)
T PRK15001 297 FRFNAVLCNPPFHQQHALTDNVAWEMFHHARRCLKINGELYIVA 340 (378)
T ss_pred CCEEEEEECcCcccCccCCHHHHHHHHHHHHHhcccCCEEEEEE
Confidence 3999996 44445677778899999999999999999973
No 65
>PF12147 Methyltransf_20: Putative methyltransferase; InterPro: IPR022744 This C-terminal region is found in bacteria and eukaryotes and is approximately 110 amino acids in length. It is found in association with PF00561 from PFAM. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins. This domain belongs to the S-adenosyl-L-methionine-dependent methyltransferases superfamily.
Probab=98.41 E-value=2.7e-06 Score=72.49 Aligned_cols=121 Identities=14% Similarity=0.155 Sum_probs=83.8
Q ss_pred CCcceEEEeCCCCCC--------------------------------------------Cccccccc--c---CCc-cee
Q 045543 107 EKIKQLVDVGGGCGK--------------------------------------------CGWKMFQK--I---LNG-DAI 136 (239)
Q Consensus 107 ~~~~~vlDvGGG~G~--------------------------------------------~~gD~~~~--~---p~~-D~~ 136 (239)
....+||||.||+|. ..+|.|+. + ... +++
T Consensus 134 g~pvrIlDIAaG~GRYvlDal~~~~~~~~~i~LrDys~~Nv~~g~~li~~~gL~~i~~f~~~dAfd~~~l~~l~p~P~l~ 213 (311)
T PF12147_consen 134 GRPVRILDIAAGHGRYVLDALEKHPERPDSILLRDYSPINVEKGRALIAERGLEDIARFEQGDAFDRDSLAALDPAPTLA 213 (311)
T ss_pred CCceEEEEeccCCcHHHHHHHHhCCCCCceEEEEeCCHHHHHHHHHHHHHcCCccceEEEecCCCCHhHhhccCCCCCEE
Confidence 466899999999999 56777762 2 224 999
Q ss_pred eechhhhcCChhHHH-HHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCc-----cccChhhcc
Q 045543 137 LMKLILRNWDDEHCL-SLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGE-----KERTKQEYY 210 (239)
Q Consensus 137 ~l~~vlH~~~d~~~~-~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g-----~~rt~~e~~ 210 (239)
+.+.+...|+|.+.+ ..|+.+++++.|||.|+-.-.-..+. .+..+.. +.+..+| +.||..|.
T Consensus 214 iVsGL~ElF~Dn~lv~~sl~gl~~al~pgG~lIyTgQPwHPQ-----le~IAr~-----LtsHr~g~~WvMRrRsq~Em- 282 (311)
T PF12147_consen 214 IVSGLYELFPDNDLVRRSLAGLARALEPGGYLIYTGQPWHPQ-----LEMIARV-----LTSHRDGKAWVMRRRSQAEM- 282 (311)
T ss_pred EEecchhhCCcHHHHHHHHHHHHHHhCCCcEEEEcCCCCCcc-----hHHHHHH-----HhcccCCCceEEEecCHHHH-
Confidence 999999999997754 57999999999999887654333222 1111111 1111133 67899999
Q ss_pred HHHHHhhCCCceeeEEEcC-CceeEEEEEC
Q 045543 211 GMALTAKNGFKGVNYESFV-CNFYIMEFIK 239 (239)
Q Consensus 211 ~~~ll~~aGf~~~~~~~~~-~~~~vie~~k 239 (239)
.+|+++|||+.++..--. +=++|--|+|
T Consensus 283 -D~Lv~~aGF~K~~q~ID~~GIFTVSlA~r 311 (311)
T PF12147_consen 283 -DQLVEAAGFEKIDQRIDEWGIFTVSLARR 311 (311)
T ss_pred -HHHHHHcCCchhhheeccCCceEEEeecC
Confidence 999999999976543322 4477766654
No 66
>PLN03075 nicotianamine synthase; Provisional
Probab=98.40 E-value=6.2e-07 Score=77.33 Aligned_cols=36 Identities=11% Similarity=0.268 Sum_probs=33.3
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+|++. +||+|+.++-.++|+++++.|+|||.+++-
T Consensus 197 DlVF~~-ALi~~dk~~k~~vL~~l~~~LkPGG~Lvlr 232 (296)
T PLN03075 197 DVVFLA-ALVGMDKEEKVKVIEHLGKHMAPGALLMLR 232 (296)
T ss_pred CEEEEe-cccccccccHHHHHHHHHHhcCCCcEEEEe
Confidence 999999 999998777889999999999999988773
No 67
>TIGR01983 UbiG ubiquinone biosynthesis O-methyltransferase. This model represents an O-methyltransferase believed to act at two points in the ubiquinone biosynthetic pathway in bacteria (UbiG) and fungi (COQ3). A separate methylase (MenG/UbiE) catalyzes the single C-methylation step. The most commonly used names for genes in this family do not indicate whether this gene is an O-methyl, or C-methyl transferase.
Probab=98.38 E-value=8.5e-07 Score=73.46 Aligned_cols=84 Identities=11% Similarity=0.176 Sum_probs=55.2
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhh-ccCC-----ccccChh
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLM-QLSG-----EKERTKQ 207 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~-~~~~-----g~~rt~~ 207 (239)
|++++.+++|+..+.. .+|+++++.|+|||++++.+...+.. + ......+-.+.. ..+. ....+..
T Consensus 114 D~i~~~~~l~~~~~~~--~~l~~~~~~L~~gG~l~i~~~~~~~~---~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 185 (224)
T TIGR01983 114 DVVTCMEVLEHVPDPQ--AFIRACAQLLKPGGILFFSTINRTPK---S---YLLAIVGAEYILRIVPKGTHDWEKFIKPS 185 (224)
T ss_pred cEEEehhHHHhCCCHH--HHHHHHHHhcCCCcEEEEEecCCCch---H---HHHHHHhhhhhhhcCCCCcCChhhcCCHH
Confidence 9999999999998764 78999999999999998865421110 0 000111111111 0011 1234678
Q ss_pred hccHHHHHhhCCCceeeEEE
Q 045543 208 EYYGMALTAKNGFKGVNYES 227 (239)
Q Consensus 208 e~~~~~ll~~aGf~~~~~~~ 227 (239)
++ .++++++||+++++..
T Consensus 186 ~l--~~~l~~~G~~i~~~~~ 203 (224)
T TIGR01983 186 EL--TSWLESAGLRVKDVKG 203 (224)
T ss_pred HH--HHHHHHcCCeeeeeee
Confidence 88 9999999999988764
No 68
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=98.31 E-value=1e-06 Score=77.05 Aligned_cols=91 Identities=12% Similarity=0.116 Sum_probs=53.9
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCc------cccChh
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGE------KERTKQ 207 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g------~~rt~~ 207 (239)
|+|++..+||+++++....+++++.+ +.++ +++|. +.+.. . . + ..+... --.+++. ...+.+
T Consensus 214 D~Vv~~~vL~H~p~~~~~~ll~~l~~-l~~g-~liIs--~~p~~--~--~--~-~~l~~~-g~~~~g~~~~~r~y~~s~e 281 (315)
T PLN02585 214 DTVTCLDVLIHYPQDKADGMIAHLAS-LAEK-RLIIS--FAPKT--L--Y--Y-DILKRI-GELFPGPSKATRAYLHAEA 281 (315)
T ss_pred CEEEEcCEEEecCHHHHHHHHHHHHh-hcCC-EEEEE--eCCcc--h--H--H-HHHHHH-HhhcCCCCcCceeeeCCHH
Confidence 99999999999999888888888885 4554 44442 12211 0 0 0 111110 0011121 123789
Q ss_pred hccHHHHHhhCCCceeeEEEcCCc---eeEEEEE
Q 045543 208 EYYGMALTAKNGFKGVNYESFVCN---FYIMEFI 238 (239)
Q Consensus 208 e~~~~~ll~~aGf~~~~~~~~~~~---~~vie~~ 238 (239)
++ +++|+++||++.+..-.... ..++|++
T Consensus 282 el--~~lL~~AGf~v~~~~~~~~~~y~~~l~~~~ 313 (315)
T PLN02585 282 DV--ERALKKAGWKVARREMTATQFYFSRLLEAV 313 (315)
T ss_pred HH--HHHHHHCCCEEEEEEEeecceeHHhhhhhc
Confidence 99 99999999998876544322 2455554
No 69
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=98.31 E-value=2.9e-07 Score=66.81 Aligned_cols=32 Identities=22% Similarity=0.311 Sum_probs=29.2
Q ss_pred ceeeec-hhhhcCChhHHHHHHHHHHhhCCCCc
Q 045543 134 DAILMK-LILRNWDDEHCLSLLKNCYEAIPGNG 165 (239)
Q Consensus 134 D~~~l~-~vlH~~~d~~~~~iL~~~~~aL~pgg 165 (239)
|+|+++ .++|++++++..++|+++++.|+|||
T Consensus 69 D~v~~~~~~~~~~~~~~~~~ll~~~~~~l~pgG 101 (101)
T PF13649_consen 69 DLVVCSGLSLHHLSPEELEALLRRIARLLRPGG 101 (101)
T ss_dssp EEEEE-TTGGGGSSHHHHHHHHHHHHHTEEEEE
T ss_pred eEEEEcCCccCCCCHHHHHHHHHHHHHHhCCCC
Confidence 999995 55999999999999999999999997
No 70
>KOG3045 consensus Predicted RNA methylase involved in rRNA processing [RNA processing and modification]
Probab=98.28 E-value=1.1e-05 Score=67.60 Aligned_cols=136 Identities=17% Similarity=0.174 Sum_probs=92.7
Q ss_pred cccccCchHHHHHHHHHH----hcccccHHHHHhhccCCCCcceEEEeCCCCCC---------------------Ccccc
Q 045543 72 EHAGLDSRFNEVLNTAML----SHNSIVMNRILDYYKGFEKIKQLVDVGGGCGK---------------------CGWKM 126 (239)
Q Consensus 72 ~~l~~~~~~~~~f~~~m~----~~~~~~~~~~~~~~~~~~~~~~vlDvGGG~G~---------------------~~gD~ 126 (239)
+...++|+.-+.|+.+-. .+-......+++.+..-+....|.|+|||.+. ++.|+
T Consensus 140 ~lfkedp~afdlYH~gfr~QV~kWP~nPld~ii~~ik~r~~~~vIaD~GCGEakiA~~~~~kV~SfDL~a~~~~V~~cDm 219 (325)
T KOG3045|consen 140 DLFKEDPTAFDLYHAGFRSQVKKWPENPLDVIIRKIKRRPKNIVIADFGCGEAKIASSERHKVHSFDLVAVNERVIACDM 219 (325)
T ss_pred HHHhcCcHHHHHHHHHHHHHHHhCCCChHHHHHHHHHhCcCceEEEecccchhhhhhccccceeeeeeecCCCceeeccc
Confidence 345567776555555443 33333456677766533456889999999988 56677
Q ss_pred cc-ccCC--cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccc
Q 045543 127 FQ-KILN--GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKE 203 (239)
Q Consensus 127 ~~-~~p~--~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~ 203 (239)
-. |++. .|++++.-.|.. .+....++.+++.|+|||.++|.|.-. ++.|
T Consensus 220 ~~vPl~d~svDvaV~CLSLMg---tn~~df~kEa~RiLk~gG~l~IAEv~S-------------Rf~d------------ 271 (325)
T KOG3045|consen 220 RNVPLEDESVDVAVFCLSLMG---TNLADFIKEANRILKPGGLLYIAEVKS-------------RFSD------------ 271 (325)
T ss_pred cCCcCccCcccEEEeeHhhhc---ccHHHHHHHHHHHhccCceEEEEehhh-------------hccc------------
Confidence 65 5553 288887766642 334678999999999999999988521 1222
Q ss_pred cChhhccHHHHHhhCCCceeeEEEcCCceeEEEEEC
Q 045543 204 RTKQEYYGMALTAKNGFKGVNYESFVCNFYIMEFIK 239 (239)
Q Consensus 204 rt~~e~~~~~ll~~aGf~~~~~~~~~~~~~vie~~k 239 (239)
..+| .+-|...||.+....-....+.++|+.|
T Consensus 272 --v~~f--~r~l~~lGF~~~~~d~~n~~F~lfefkK 303 (325)
T KOG3045|consen 272 --VKGF--VRALTKLGFDVKHKDVSNKYFTLFEFKK 303 (325)
T ss_pred --HHHH--HHHHHHcCCeeeehhhhcceEEEEEEec
Confidence 2236 7788999999887766667788888765
No 71
>PTZ00146 fibrillarin; Provisional
Probab=98.22 E-value=1.8e-05 Score=68.11 Aligned_cols=79 Identities=13% Similarity=0.099 Sum_probs=47.5
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMA 213 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ 213 (239)
|+|++... ..++...++.++++.|+|||+++|.-....-+..++ -.++= ++= .+
T Consensus 204 DvV~~Dva----~pdq~~il~~na~r~LKpGG~~vI~ika~~id~g~~-------------------pe~~f-~~e--v~ 257 (293)
T PTZ00146 204 DVIFADVA----QPDQARIVALNAQYFLKNGGHFIISIKANCIDSTAK-------------------PEVVF-ASE--VQ 257 (293)
T ss_pred CEEEEeCC----CcchHHHHHHHHHHhccCCCEEEEEEeccccccCCC-------------------HHHHH-HHH--HH
Confidence 88876653 123455677799999999999999311111111111 01110 111 46
Q ss_pred HHhhCCCceeeEEEcC---CceeEEEEE
Q 045543 214 LTAKNGFKGVNYESFV---CNFYIMEFI 238 (239)
Q Consensus 214 ll~~aGf~~~~~~~~~---~~~~vie~~ 238 (239)
+|+++||++++...+. ..+++|.++
T Consensus 258 ~L~~~GF~~~e~v~L~Py~~~h~~v~~~ 285 (293)
T PTZ00146 258 KLKKEGLKPKEQLTLEPFERDHAVVIGV 285 (293)
T ss_pred HHHHcCCceEEEEecCCccCCcEEEEEE
Confidence 6999999999888764 356666654
No 72
>TIGR03840 TMPT_Se_Te thiopurine S-methyltransferase, Se/Te detoxification family. Members of this family are thiopurine S-methyltransferase from a branch in which at least some member proteins can perform selenium methylation as a means to detoxify selenium, or perform a related detoxification of tellurium. Note that the EC number definition does not specify a particular thiopurine, but rather represents a class of activity.
Probab=98.18 E-value=1e-05 Score=66.99 Aligned_cols=42 Identities=14% Similarity=0.152 Sum_probs=37.3
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecC
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTV 175 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~ 175 (239)
|.++-+.++|+++.+.-...++++.++|+|||+++++-+..+
T Consensus 115 D~i~D~~~~~~l~~~~R~~~~~~l~~lLkpgG~~ll~~~~~~ 156 (213)
T TIGR03840 115 DAVYDRAALIALPEEMRQRYAAHLLALLPPGARQLLITLDYD 156 (213)
T ss_pred CEEEechhhccCCHHHHHHHHHHHHHHcCCCCeEEEEEEEcC
Confidence 999999999999998888999999999999999888766543
No 73
>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]
Probab=98.17 E-value=4.1e-06 Score=70.29 Aligned_cols=85 Identities=18% Similarity=0.251 Sum_probs=57.7
Q ss_pred cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhh-hhhh-hHHHhhccCC----ccccCh
Q 045543 133 GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATRE-ASSI-DIIMLMQLSG----EKERTK 206 (239)
Q Consensus 133 ~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~-~~~~-dl~ml~~~~~----g~~rt~ 206 (239)
-|+|+++.|+|+..|.. .+++.+.+.|+|||+++|......-.. ++ ..++ +......-.| .+-.++
T Consensus 159 fDaVvcsevleHV~dp~--~~l~~l~~~lkP~G~lfittinrt~lS------~~~~i~~~E~vl~ivp~Gth~~ekfi~p 230 (282)
T KOG1270|consen 159 FDAVVCSEVLEHVKDPQ--EFLNCLSALLKPNGRLFITTINRTILS------FAGTIFLAEIVLRIVPKGTHTWEKFINP 230 (282)
T ss_pred cceeeeHHHHHHHhCHH--HHHHHHHHHhCCCCceEeeehhhhHHH------hhccccHHHHHHHhcCCCCcCHHHcCCH
Confidence 39999999999998774 899999999999999999765432211 11 1111 1111111112 244578
Q ss_pred hhccHHHHHhhCCCceeeEEE
Q 045543 207 QEYYGMALTAKNGFKGVNYES 227 (239)
Q Consensus 207 ~e~~~~~ll~~aGf~~~~~~~ 227 (239)
.|. .+++..+++.+..+..
T Consensus 231 ~e~--~~~l~~~~~~v~~v~G 249 (282)
T KOG1270|consen 231 EEL--TSILNANGAQVNDVVG 249 (282)
T ss_pred HHH--HHHHHhcCcchhhhhc
Confidence 888 9999999988876643
No 74
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=98.17 E-value=5.5e-06 Score=73.38 Aligned_cols=74 Identities=18% Similarity=0.302 Sum_probs=55.5
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC----------------------------------------CccccccccCCc-cee
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK----------------------------------------CGWKMFQKILNG-DAI 136 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~----------------------------------------~~gD~~~~~p~~-D~~ 136 (239)
.+++.++ .....+|+|+|||+|. +.+|.++..+.. |+|
T Consensus 187 lLl~~l~-~~~~g~VLDlGCG~G~ls~~la~~~p~~~v~~vDis~~Al~~A~~nl~~n~l~~~~~~~D~~~~~~~~fDlI 265 (342)
T PRK09489 187 LLLSTLT-PHTKGKVLDVGCGAGVLSAVLARHSPKIRLTLSDVSAAALESSRATLAANGLEGEVFASNVFSDIKGRFDMI 265 (342)
T ss_pred HHHHhcc-ccCCCeEEEeccCcCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCEEEEcccccccCCCccEE
Confidence 4455555 3344689999999998 334555544444 999
Q ss_pred eechhhhcC---ChhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 137 LMKLILRNW---DDEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 137 ~l~~vlH~~---~d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
++.--+|+. +.+....+++++.+.|+|||+++|+-.
T Consensus 266 vsNPPFH~g~~~~~~~~~~~i~~a~~~LkpgG~L~iVan 304 (342)
T PRK09489 266 ISNPPFHDGIQTSLDAAQTLIRGAVRHLNSGGELRIVAN 304 (342)
T ss_pred EECCCccCCccccHHHHHHHHHHHHHhcCcCCEEEEEEe
Confidence 999889863 345678999999999999999999654
No 75
>TIGR02081 metW methionine biosynthesis protein MetW. This protein is found alongside MetX, of the enzyme that acylates homoserine as a first step toward methionine biosynthesis, in many species. It appears to act in methionine biosynthesis but is not fully characterized.
Probab=98.15 E-value=8.1e-06 Score=66.38 Aligned_cols=108 Identities=11% Similarity=0.070 Sum_probs=64.2
Q ss_pred CcceEEEeCCCCCC---------------------------------Ccccccc---ccCC--cceeeechhhhcCChhH
Q 045543 108 KIKQLVDVGGGCGK---------------------------------CGWKMFQ---KILN--GDAILMKLILRNWDDEH 149 (239)
Q Consensus 108 ~~~~vlDvGGG~G~---------------------------------~~gD~~~---~~p~--~D~~~l~~vlH~~~d~~ 149 (239)
...+|||||||+|. +.+|+.+ +++. .|+|++.+++|+.+|..
T Consensus 13 ~~~~iLDiGcG~G~~~~~l~~~~~~~~~giD~s~~~i~~a~~~~~~~~~~d~~~~l~~~~~~sfD~Vi~~~~l~~~~d~~ 92 (194)
T TIGR02081 13 PGSRVLDLGCGDGELLALLRDEKQVRGYGIEIDQDGVLACVARGVNVIQGDLDEGLEAFPDKSFDYVILSQTLQATRNPE 92 (194)
T ss_pred CCCEEEEeCCCCCHHHHHHHhccCCcEEEEeCCHHHHHHHHHcCCeEEEEEhhhcccccCCCCcCEEEEhhHhHcCcCHH
Confidence 45699999999998 2344433 2333 39999999999998754
Q ss_pred HHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhh----------hhHHHhhccCCccccChhhccHHHHHhhCC
Q 045543 150 CLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASS----------IDIIMLMQLSGEKERTKQEYYGMALTAKNG 219 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~----------~dl~ml~~~~~g~~rt~~e~~~~~ll~~aG 219 (239)
.+|+++.+.++ ++++. . +.... +....... +... +...+..+..+.+++ .++++++|
T Consensus 93 --~~l~e~~r~~~---~~ii~-~--p~~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~s~~~~--~~ll~~~G 159 (194)
T TIGR02081 93 --EILDEMLRVGR---HAIVS-F--PNFGY--WRVRWSILTKGRMPVTGELPYD-WYNTPNIHFCTIADF--EDLCGELN 159 (194)
T ss_pred --HHHHHHHHhCC---eEEEE-c--CChhH--HHHHHHHHhCCccccCCCCCcc-ccCCCCcccCcHHHH--HHHHHHCC
Confidence 67888877654 44332 1 11000 00000000 0000 000012345689999 99999999
Q ss_pred CceeeEEEc
Q 045543 220 FKGVNYESF 228 (239)
Q Consensus 220 f~~~~~~~~ 228 (239)
|++++....
T Consensus 160 f~v~~~~~~ 168 (194)
T TIGR02081 160 LRILDRAAF 168 (194)
T ss_pred CEEEEEEEe
Confidence 999887654
No 76
>PRK10611 chemotaxis methyltransferase CheR; Provisional
Probab=98.08 E-value=1.6e-05 Score=68.59 Aligned_cols=46 Identities=13% Similarity=0.259 Sum_probs=39.1
Q ss_pred ccccc-ccC--Cc-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEE
Q 045543 124 WKMFQ-KIL--NG-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 124 gD~~~-~~p--~~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli 169 (239)
+|.++ +.| .. |+|+++|||.+++++...+++++++++|+|||.|++
T Consensus 211 ~NL~~~~~~~~~~fD~I~cRNvliyF~~~~~~~vl~~l~~~L~pgG~L~l 260 (287)
T PRK10611 211 LNLLAKQWAVPGPFDAIFCRNVMIYFDKTTQERILRRFVPLLKPDGLLFA 260 (287)
T ss_pred ccCCCCCCccCCCcceeeHhhHHhcCCHHHHHHHHHHHHHHhCCCcEEEE
Confidence 34455 344 24 999999999999999999999999999999998877
No 77
>PF05219 DREV: DREV methyltransferase; InterPro: IPR007884 This family contains DREV protein homologues from several eukaryotes. The function of this protein is unknown []. However, these proteins appear to be related to other methyltransferases.
Probab=98.07 E-value=9.9e-06 Score=68.17 Aligned_cols=82 Identities=20% Similarity=0.269 Sum_probs=52.6
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCC-----CCCChhhhhhhhhhHHHhhccCCccccChhh
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVI-----PEATPATREASSIDIIMLMQLSGEKERTKQE 208 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~-----~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e 208 (239)
|+|.+-|+|-...++ ..+|+.++++|+|+|++++.= ++|-. ..+. ..+....+++ .| .|.+|
T Consensus 153 DvIscLNvLDRc~~P--~~LL~~i~~~l~p~G~lilAv-VlP~~pyVE~~~g~-~~~P~e~l~~-------~g--~~~E~ 219 (265)
T PF05219_consen 153 DVISCLNVLDRCDRP--LTLLRDIRRALKPNGRLILAV-VLPFRPYVEFGGGK-SNRPSELLPV-------KG--ATFEE 219 (265)
T ss_pred EEEeehhhhhccCCH--HHHHHHHHHHhCCCCEEEEEE-EecccccEEcCCCC-CCCchhhcCC-------CC--CcHHH
Confidence 999999999777666 599999999999999988742 33311 1100 0000111221 23 34333
Q ss_pred c---cHHHHHhhCCCceeeEEEcC
Q 045543 209 Y---YGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 209 ~---~~~~ll~~aGf~~~~~~~~~ 229 (239)
. . .+.|+.+||++.+..+.|
T Consensus 220 ~v~~l-~~v~~p~GF~v~~~tr~P 242 (265)
T PF05219_consen 220 QVSSL-VNVFEPAGFEVERWTRLP 242 (265)
T ss_pred HHHHH-HHHHHhcCCEEEEEeccC
Confidence 3 2 378999999999987765
No 78
>PF01739 CheR: CheR methyltransferase, SAM binding domain; InterPro: IPR022642 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region []. CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the C-terminal SAM-binding domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF03705 from PFAM. ; PDB: 1AF7_A 1BC5_A.
Probab=98.06 E-value=8e-06 Score=66.70 Aligned_cols=49 Identities=14% Similarity=0.182 Sum_probs=35.8
Q ss_pred Ccccccc-ccCC-c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 122 CGWKMFQ-KILN-G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 122 ~~gD~~~-~~p~-~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
..+|.++ +.+. . |+|+|+|||-.++++...+++++++++|+|||.|++-
T Consensus 123 ~~~NL~~~~~~~~~fD~I~CRNVlIYF~~~~~~~vl~~l~~~L~pgG~L~lG 174 (196)
T PF01739_consen 123 RRHNLLDPDPPFGRFDLIFCRNVLIYFDPETQQRVLRRLHRSLKPGGYLFLG 174 (196)
T ss_dssp EE--TT-S------EEEEEE-SSGGGS-HHHHHHHHHHHGGGEEEEEEEEE-
T ss_pred EecccCCCCcccCCccEEEecCEEEEeCHHHHHHHHHHHHHHcCCCCEEEEe
Confidence 4566666 2222 3 9999999999999999999999999999999999884
No 79
>PF11968 DUF3321: Putative methyltransferase (DUF3321); InterPro: IPR021867 This family is conserved in fungi and is annotated as being a nucleolar protein.
Probab=98.02 E-value=3e-05 Score=63.62 Aligned_cols=96 Identities=16% Similarity=0.229 Sum_probs=76.2
Q ss_pred ceEEEeCCCCCC-----------------------Ccccccc-ccCC----c-ceeeechhhhcCChhHHH-HHHHHHHh
Q 045543 110 KQLVDVGGGCGK-----------------------CGWKMFQ-KILN----G-DAILMKLILRNWDDEHCL-SLLKNCYE 159 (239)
Q Consensus 110 ~~vlDvGGG~G~-----------------------~~gD~~~-~~p~----~-D~~~l~~vlH~~~d~~~~-~iL~~~~~ 159 (239)
-++||||+=+.. ...||++ |+|. . |+|.+|-||...|+..-+ .+|+++++
T Consensus 53 lrlLEVGals~~N~~s~~~~fdvt~IDLns~~~~I~qqDFm~rplp~~~~e~FdvIs~SLVLNfVP~p~~RG~Ml~r~~~ 132 (219)
T PF11968_consen 53 LRLLEVGALSTDNACSTSGWFDVTRIDLNSQHPGILQQDFMERPLPKNESEKFDVISLSLVLNFVPDPKQRGEMLRRAHK 132 (219)
T ss_pred ceEEeecccCCCCcccccCceeeEEeecCCCCCCceeeccccCCCCCCcccceeEEEEEEEEeeCCCHHHHHHHHHHHHH
Confidence 689999998443 6679999 8883 2 999999999888866655 89999999
Q ss_pred hCCCCce-----EEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEEEcC
Q 045543 160 AIPGNGK-----IIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 160 aL~pgg~-----lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~ 229 (239)
-|+|+|. |+|+ +|.. +.. |.+--+.+.| .++++..||..++.+...
T Consensus 133 fL~~~g~~~~~~LFlV---lP~~------------------Cv~-NSRy~~~~~l--~~im~~LGf~~~~~~~~~ 183 (219)
T PF11968_consen 133 FLKPPGLSLFPSLFLV---LPLP------------------CVT-NSRYMTEERL--REIMESLGFTRVKYKKSK 183 (219)
T ss_pred HhCCCCccCcceEEEE---eCch------------------Hhh-cccccCHHHH--HHHHHhCCcEEEEEEecC
Confidence 9999999 7774 3321 012 6677788899 999999999999876553
No 80
>TIGR03534 RF_mod_PrmC protein-(glutamine-N5) methyltransferase, release factor-specific. Members of this protein family are HemK (PrmC), a protein once thought to be involved in heme biosynthesis but now recognized to be a protein-glutamine methyltransferase that modifies the peptide chain release factors. All members of the seed alignment are encoded next to the release factor 1 gene (prfA) and confirmed by phylogenetic analysis. SIMBAL analysis (manuscript in prep.) shows the motif [LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers specificity for the release factors rather than for ribosomal protein L3.
Probab=98.02 E-value=2.3e-05 Score=65.88 Aligned_cols=46 Identities=13% Similarity=0.122 Sum_probs=33.9
Q ss_pred HHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEEEc
Q 045543 151 LSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYESF 228 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~ 228 (239)
..+++++.+.|+|||++++.-. ....+++ .++|+++||+.++++.-
T Consensus 197 ~~~i~~~~~~L~~gG~~~~~~~------------------------------~~~~~~~--~~~l~~~gf~~v~~~~d 242 (251)
T TIGR03534 197 RRIIAQAPRLLKPGGWLLLEIG------------------------------YDQGEAV--RALFEAAGFADVETRKD 242 (251)
T ss_pred HHHHHHHHHhcccCCEEEEEEC------------------------------ccHHHHH--HHHHHhCCCCceEEEeC
Confidence 4789999999999999877210 0122456 88899999998877654
No 81
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=98.01 E-value=3.2e-05 Score=64.27 Aligned_cols=82 Identities=16% Similarity=0.110 Sum_probs=55.9
Q ss_pred cccccccC---Cc-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCC-CCChhhhhhhhhhHHHhhcc
Q 045543 124 WKMFQKIL---NG-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIP-EATPATREASSIDIIMLMQL 198 (239)
Q Consensus 124 gD~~~~~p---~~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~-~~~~~~~~~~~~dl~ml~~~ 198 (239)
+|+|+..+ .. |+|+-+.++|.++.+.-.+.++++.++|+|||+++++-...++.. .+|+
T Consensus 104 ~D~~~l~~~~~~~fd~v~D~~~~~~l~~~~R~~~~~~l~~lL~pgG~~~l~~~~~~~~~~~gPp---------------- 167 (218)
T PRK13255 104 GDFFALTAADLADVDAVYDRAALIALPEEMRERYVQQLAALLPAGCRGLLVTLDYPQEELAGPP---------------- 167 (218)
T ss_pred CcccCCCcccCCCeeEEEehHhHhhCCHHHHHHHHHHHHHHcCCCCeEEEEEEEeCCccCCCCC----------------
Confidence 56665222 12 999999999999999999999999999999998666554443221 1110
Q ss_pred CCccccChhhccHHHHHhhCCCceeeEEE
Q 045543 199 SGEKERTKQEYYGMALTAKNGFKGVNYES 227 (239)
Q Consensus 199 ~~g~~rt~~e~~~~~ll~~aGf~~~~~~~ 227 (239)
...|.+|+ ++++.. +|++.....
T Consensus 168 ---~~~~~~el--~~~~~~-~~~i~~~~~ 190 (218)
T PRK13255 168 ---FSVSDEEV--EALYAG-CFEIELLER 190 (218)
T ss_pred ---CCCCHHHH--HHHhcC-CceEEEeee
Confidence 12477787 888853 266655443
No 82
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=97.99 E-value=2.4e-05 Score=64.61 Aligned_cols=75 Identities=13% Similarity=0.137 Sum_probs=50.6
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC-------------------------------Cccccccc---------cCC-c-ce
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK-------------------------------CGWKMFQK---------ILN-G-DA 135 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~-------------------------------~~gD~~~~---------~p~-~-D~ 135 (239)
.+.+.|..+.+..+|||||||+|. +.+|+.++ .+. . |+
T Consensus 41 ~~~~~~~~~~~~~~VLDlG~GtG~~t~~l~~~~~~~~~V~aVDi~~~~~~~~v~~i~~D~~~~~~~~~i~~~~~~~~~D~ 120 (209)
T PRK11188 41 EIQQSDKLFKPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIACDILPMDPIVGVDFLQGDFRDELVLKALLERVGDSKVQV 120 (209)
T ss_pred HHHHHhccCCCCCEEEEEcccCCHHHHHHHHHcCCCceEEEEecccccCCCCcEEEecCCCChHHHHHHHHHhCCCCCCE
Confidence 444555434667899999999999 22344431 333 3 99
Q ss_pred eeechhhhcCChh---------HHHHHHHHHHhhCCCCceEEEEee
Q 045543 136 ILMKLILRNWDDE---------HCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 136 ~~l~~vlH~~~d~---------~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
|+.....|-..+. ....+|+.+++.|+|||++++..+
T Consensus 121 V~S~~~~~~~g~~~~d~~~~~~~~~~~L~~~~~~LkpGG~~vi~~~ 166 (209)
T PRK11188 121 VMSDMAPNMSGTPAVDIPRAMYLVELALDMCRDVLAPGGSFVVKVF 166 (209)
T ss_pred EecCCCCccCCChHHHHHHHHHHHHHHHHHHHHHcCCCCEEEEEEe
Confidence 9886655433321 125789999999999999999653
No 83
>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]
Probab=97.99 E-value=3.5e-05 Score=63.65 Aligned_cols=129 Identities=13% Similarity=0.154 Sum_probs=79.8
Q ss_pred HHHHHHHHHHhcccccHH----HHHhhccCCCCcceEEEeCCCCCC----------------------------------
Q 045543 80 FNEVLNTAMLSHNSIVMN----RILDYYKGFEKIKQLVDVGGGCGK---------------------------------- 121 (239)
Q Consensus 80 ~~~~f~~~m~~~~~~~~~----~~~~~~~~~~~~~~vlDvGGG~G~---------------------------------- 121 (239)
++++|.......-....| +.+...+ ...+++|+|+|||+|.
T Consensus 94 ~Ae~Fd~~LVdkL~Y~vP~~l~emI~~~~-~g~F~~~lDLGCGTGL~G~~lR~~a~~ltGvDiS~nMl~kA~eKg~YD~L 172 (287)
T COG4976 94 YAERFDHILVDKLGYSVPELLAEMIGKAD-LGPFRRMLDLGCGTGLTGEALRDMADRLTGVDISENMLAKAHEKGLYDTL 172 (287)
T ss_pred HHHHHHHHHHHHhcCccHHHHHHHHHhcc-CCccceeeecccCcCcccHhHHHHHhhccCCchhHHHHHHHHhccchHHH
Confidence 456666555433222223 3344445 5568999999999999
Q ss_pred ---Ccccccccc-CC-cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE-eeecCCCCCCChhhhhhhhhhHHHh
Q 045543 122 ---CGWKMFQKI-LN-GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII-DSTTVVIPEATPATREASSIDIIML 195 (239)
Q Consensus 122 ---~~gD~~~~~-p~-~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~-d~~~~~~~~~~~~~~~~~~~dl~ml 195 (239)
-.-+|.+.. ++ .|+|....||-...+= ..++--+...|+|||.+... |..-.+. . + +
T Consensus 173 ~~Aea~~Fl~~~~~er~DLi~AaDVl~YlG~L--e~~~~~aa~~L~~gGlfaFSvE~l~~~~-~------f-------~- 235 (287)
T COG4976 173 YVAEAVLFLEDLTQERFDLIVAADVLPYLGAL--EGLFAGAAGLLAPGGLFAFSVETLPDDG-G------F-------V- 235 (287)
T ss_pred HHHHHHHHhhhccCCcccchhhhhHHHhhcch--hhHHHHHHHhcCCCceEEEEecccCCCC-C------e-------e-
Confidence 111233312 22 4999999999888764 48899999999999988774 4332221 0 0 0
Q ss_pred hccCCccccChhhccHHHHHhhCCCceeeEEEc
Q 045543 196 MQLSGEKERTKQEYYGMALTAKNGFKGVNYESF 228 (239)
Q Consensus 196 ~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~ 228 (239)
.. -.+.+--.|-+++++++..||+++++.++
T Consensus 236 -l~-ps~RyAH~~~YVr~~l~~~Gl~~i~~~~t 266 (287)
T COG4976 236 -LG-PSQRYAHSESYVRALLAASGLEVIAIEDT 266 (287)
T ss_pred -cc-hhhhhccchHHHHHHHHhcCceEEEeecc
Confidence 00 11112112224599999999999988764
No 84
>PRK14968 putative methyltransferase; Provisional
Probab=97.96 E-value=0.00012 Score=58.70 Aligned_cols=59 Identities=19% Similarity=0.308 Sum_probs=39.3
Q ss_pred HHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEEEcC
Q 045543 150 CLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~ 229 (239)
...+++++.+.|+|||++++.... . ...+++ .++++++||++..+....
T Consensus 127 ~~~~i~~~~~~Lk~gG~~~~~~~~------------------------~-----~~~~~l--~~~~~~~g~~~~~~~~~~ 175 (188)
T PRK14968 127 IDRFLDEVGRYLKPGGRILLLQSS------------------------L-----TGEDEV--LEYLEKLGFEAEVVAEEK 175 (188)
T ss_pred HHHHHHHHHHhcCCCeEEEEEEcc------------------------c-----CCHHHH--HHHHHHCCCeeeeeeecc
Confidence 467899999999999998875310 0 022456 888999999887765432
Q ss_pred ---CceeEEEEEC
Q 045543 230 ---CNFYIMEFIK 239 (239)
Q Consensus 230 ---~~~~vie~~k 239 (239)
....+++++|
T Consensus 176 ~~~~~~~~~~~~~ 188 (188)
T PRK14968 176 FPFEELIVLELVK 188 (188)
T ss_pred cCCceEEEEEEeC
Confidence 2234555554
No 85
>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].
Probab=97.95 E-value=2.8e-05 Score=62.80 Aligned_cols=112 Identities=12% Similarity=0.075 Sum_probs=72.8
Q ss_pred CCcceEEEeCCCCCC---------------------------------Ccccccc---ccCC-c-ceeeechhhhcCChh
Q 045543 107 EKIKQLVDVGGGCGK---------------------------------CGWKMFQ---KILN-G-DAILMKLILRNWDDE 148 (239)
Q Consensus 107 ~~~~~vlDvGGG~G~---------------------------------~~gD~~~---~~p~-~-D~~~l~~vlH~~~d~ 148 (239)
++..+|||+|||.|. +.+|.-+ .+|. . |.|+++++|......
T Consensus 12 ~pgsrVLDLGCGdG~LL~~L~~~k~v~g~GvEid~~~v~~cv~rGv~Viq~Dld~gL~~f~d~sFD~VIlsqtLQ~~~~P 91 (193)
T PF07021_consen 12 EPGSRVLDLGCGDGELLAYLKDEKQVDGYGVEIDPDNVAACVARGVSVIQGDLDEGLADFPDQSFDYVILSQTLQAVRRP 91 (193)
T ss_pred CCCCEEEecCCCchHHHHHHHHhcCCeEEEEecCHHHHHHHHHcCCCEEECCHHHhHhhCCCCCccEEehHhHHHhHhHH
Confidence 456899999999999 6677754 4664 4 999999999988766
Q ss_pred HHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhH---------HHhhccCCccccChhhccHHHHHhhCC
Q 045543 149 HCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDI---------IMLMQLSGEKERTKQEYYGMALTAKNG 219 (239)
Q Consensus 149 ~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl---------~ml~~~~~g~~rt~~e~~~~~ll~~aG 219 (239)
+ ++|+++.+. |.+.+|. +|.-. .+..+....+.= ..+-.|+|=+.-|..+| +++.++.|
T Consensus 92 ~--~vL~EmlRV---gr~~IVs---FPNFg--~W~~R~~l~~~GrmPvt~~lPy~WYdTPNih~~Ti~DF--e~lc~~~~ 159 (193)
T PF07021_consen 92 D--EVLEEMLRV---GRRAIVS---FPNFG--HWRNRLQLLLRGRMPVTKALPYEWYDTPNIHLCTIKDF--EDLCRELG 159 (193)
T ss_pred H--HHHHHHHHh---cCeEEEE---ecChH--HHHHHHHHHhcCCCCCCCCCCCcccCCCCcccccHHHH--HHHHHHCC
Confidence 4 677777655 6666653 12110 000000000000 01122455666799999 99999999
Q ss_pred CceeeEEEcCC
Q 045543 220 FKGVNYESFVC 230 (239)
Q Consensus 220 f~~~~~~~~~~ 230 (239)
+++.+...+..
T Consensus 160 i~I~~~~~~~~ 170 (193)
T PF07021_consen 160 IRIEERVFLDG 170 (193)
T ss_pred CEEEEEEEEcC
Confidence 99999877653
No 86
>PF05175 MTS: Methyltransferase small domain; InterPro: IPR007848 This domain is found in ribosomal RNA small subunit methyltransferase C and in other methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 1WY7_A 1DUS_A 2OZV_A 2PJD_A 1VQ1_A 1NV9_A 1SG9_C 1NV8_A 3Q87_B 3DMF_A ....
Probab=97.94 E-value=1.2e-05 Score=64.01 Aligned_cols=73 Identities=16% Similarity=0.281 Sum_probs=53.0
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC-----------------------------------------CccccccccC-Cc-c
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK-----------------------------------------CGWKMFQKIL-NG-D 134 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~-----------------------------------------~~gD~~~~~p-~~-D 134 (239)
-+++.++ .....++||+|||+|. +.+|+++.++ .. |
T Consensus 22 lL~~~l~-~~~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~v~~~~~d~~~~~~~~~fD 100 (170)
T PF05175_consen 22 LLLDNLP-KHKGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLENVEVVQSDLFEALPDGKFD 100 (170)
T ss_dssp HHHHHHH-HHTTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTTEEEEESSTTTTCCTTCEE
T ss_pred HHHHHHh-hccCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCcccccccccccccccccccee
Confidence 3444444 3466899999999998 4568888666 33 9
Q ss_pred eeeechhhhcCCh---hHHHHHHHHHHhhCCCCceEEEEe
Q 045543 135 AILMKLILRNWDD---EHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 135 ~~~l~~vlH~~~d---~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
+|++.==+|.-.+ +-..++++.+.+.|+|||+++++-
T Consensus 101 ~Iv~NPP~~~~~~~~~~~~~~~i~~a~~~Lk~~G~l~lv~ 140 (170)
T PF05175_consen 101 LIVSNPPFHAGGDDGLDLLRDFIEQARRYLKPGGRLFLVI 140 (170)
T ss_dssp EEEE---SBTTSHCHHHHHHHHHHHHHHHEEEEEEEEEEE
T ss_pred EEEEccchhcccccchhhHHHHHHHHHHhccCCCEEEEEe
Confidence 9999766665543 456899999999999999998743
No 87
>TIGR02469 CbiT precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit. This model recognizes the CbiT methylase which is responsible, in part (along with CbiE), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiE subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=97.90 E-value=3e-05 Score=57.62 Aligned_cols=66 Identities=17% Similarity=0.231 Sum_probs=45.8
Q ss_pred HHhhccCCCCcceEEEeCCCCCC-----------------------------------------Ccccccc---ccCC-c
Q 045543 99 ILDYYKGFEKIKQLVDVGGGCGK-----------------------------------------CGWKMFQ---KILN-G 133 (239)
Q Consensus 99 ~~~~~~~~~~~~~vlDvGGG~G~-----------------------------------------~~gD~~~---~~p~-~ 133 (239)
+++.+. .....+++|+|||+|. +.+|... ..+. .
T Consensus 11 ~~~~~~-~~~~~~vldlG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (124)
T TIGR02469 11 TLSKLR-LRPGDVLWDIGAGSGSITIEAARLVPNGRVYAIERNPEALRLIERNARRFGVSNIVIVEGDAPEALEDSLPEP 89 (124)
T ss_pred HHHHcC-CCCCCEEEEeCCCCCHHHHHHHHHCCCceEEEEcCCHHHHHHHHHHHHHhCCCceEEEeccccccChhhcCCC
Confidence 445555 5666799999999999 1223221 1122 3
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|++++....+ ....+++++++.|+|||++++.
T Consensus 90 D~v~~~~~~~-----~~~~~l~~~~~~Lk~gG~li~~ 121 (124)
T TIGR02469 90 DRVFIGGSGG-----LLQEILEAIWRRLRPGGRIVLN 121 (124)
T ss_pred CEEEECCcch-----hHHHHHHHHHHHcCCCCEEEEE
Confidence 8888866443 3458999999999999998874
No 88
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=97.85 E-value=0.00014 Score=61.59 Aligned_cols=67 Identities=16% Similarity=0.149 Sum_probs=47.1
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHH
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMA 213 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ 213 (239)
|+++.. +. .+....+++++.+.|+|||++++.+.... ..+++ .+
T Consensus 181 D~Vvan-i~----~~~~~~l~~~~~~~LkpgG~lilsgi~~~-----------------------------~~~~v--~~ 224 (250)
T PRK00517 181 DVIVAN-IL----ANPLLELAPDLARLLKPGGRLILSGILEE-----------------------------QADEV--LE 224 (250)
T ss_pred CEEEEc-Cc----HHHHHHHHHHHHHhcCCCcEEEEEECcHh-----------------------------hHHHH--HH
Confidence 777653 22 23456889999999999999998643211 22455 78
Q ss_pred HHhhCCCceeeEEEcCCceeEEE
Q 045543 214 LTAKNGFKGVNYESFVCNFYIME 236 (239)
Q Consensus 214 ll~~aGf~~~~~~~~~~~~~vie 236 (239)
.+++.||++.++.......+++-
T Consensus 225 ~l~~~Gf~~~~~~~~~~W~~~~~ 247 (250)
T PRK00517 225 AYEEAGFTLDEVLERGEWVALVG 247 (250)
T ss_pred HHHHCCCEEEEEEEeCCEEEEEE
Confidence 88999999988877766666543
No 89
>TIGR00138 gidB 16S rRNA methyltransferase GidB. GidB (glucose-inhibited division protein B) appears to be present and in a single copy in nearly all complete eubacterial genomes. It is missing only from some obligate intracellular species of various lineages (Chlamydiae, Ehrlichia, Wolbachia, Anaplasma, Buchnera, etc.). GidB shows a methytransferase fold in its the crystal structure, and acts as a 7-methylguanosine (m(7)G) methyltransferase, apparently specific to 16S rRNA.
Probab=97.84 E-value=2.3e-05 Score=63.28 Aligned_cols=32 Identities=19% Similarity=0.143 Sum_probs=25.1
Q ss_pred cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 133 GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 133 ~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
.|+|++.. +|++ ..+++.+++.|+|||++++.
T Consensus 110 fD~I~s~~-~~~~-----~~~~~~~~~~LkpgG~lvi~ 141 (181)
T TIGR00138 110 FDVITSRA-LASL-----NVLLELTLNLLKVGGYFLAY 141 (181)
T ss_pred ccEEEehh-hhCH-----HHHHHHHHHhcCCCCEEEEE
Confidence 39888765 5544 35788899999999999876
No 90
>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins.; PDB: 3GIW_A 3GO4_A 2QE6_A.
Probab=97.82 E-value=8.5e-05 Score=63.09 Aligned_cols=80 Identities=20% Similarity=0.248 Sum_probs=50.2
Q ss_pred eeeechhhhcCCh-hHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHH
Q 045543 135 AILMKLILRNWDD-EHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMA 213 (239)
Q Consensus 135 ~~~l~~vlH~~~d-~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ 213 (239)
.+++..|||..+| ++...|++.++++|.||+.|+|.....+..+. ......++.-... ..+..||.+|+ .+
T Consensus 153 avll~~vLh~v~D~~dp~~iv~~l~d~lapGS~L~ish~t~d~~p~-----~~~~~~~~~~~~~-~~~~~Rs~~ei--~~ 224 (267)
T PF04672_consen 153 AVLLVAVLHFVPDDDDPAGIVARLRDALAPGSYLAISHATDDGAPE-----RAEALEAVYAQAG-SPGRPRSREEI--AA 224 (267)
T ss_dssp EEEECT-GGGS-CGCTHHHHHHHHHCCS-TT-EEEEEEEB-TTSHH-----HHHHHHHHHHHCC-S----B-HHHH--HH
T ss_pred eeeeeeeeccCCCccCHHHHHHHHHHhCCCCceEEEEecCCCCCHH-----HHHHHHHHHHcCC-CCceecCHHHH--HH
Confidence 7899999999987 88999999999999999999998775433211 1112222222222 25788999999 99
Q ss_pred HHhhCCCceee
Q 045543 214 LTAKNGFKGVN 224 (239)
Q Consensus 214 ll~~aGf~~~~ 224 (239)
+|. ||++++
T Consensus 225 ~f~--g~elve 233 (267)
T PF04672_consen 225 FFD--GLELVE 233 (267)
T ss_dssp CCT--TSEE-T
T ss_pred HcC--CCccCC
Confidence 998 888765
No 91
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=97.77 E-value=0.00024 Score=60.63 Aligned_cols=57 Identities=12% Similarity=0.108 Sum_probs=37.9
Q ss_pred HHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEEE-c
Q 045543 150 CLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYES-F 228 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~-~ 228 (239)
..++++++.+.|+|||++++ +. .. ...+++ .+++++.||..+++.. .
T Consensus 217 ~~~~~~~~~~~Lk~gG~l~~-e~--g~---------------------------~~~~~~--~~~l~~~gf~~v~~~~d~ 264 (275)
T PRK09328 217 YRRIIEQAPRYLKPGGWLLL-EI--GY---------------------------DQGEAV--RALLAAAGFADVETRKDL 264 (275)
T ss_pred HHHHHHHHHHhcccCCEEEE-EE--Cc---------------------------hHHHHH--HHHHHhCCCceeEEecCC
Confidence 36899999999999999887 21 00 012346 8889999998776643 3
Q ss_pred CCceeEEEEE
Q 045543 229 VCNFYIMEFI 238 (239)
Q Consensus 229 ~~~~~vie~~ 238 (239)
.+...++.++
T Consensus 265 ~~~~r~~~~~ 274 (275)
T PRK09328 265 AGRDRVVLGR 274 (275)
T ss_pred CCCceEEEEE
Confidence 3444455454
No 92
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=97.77 E-value=6.4e-05 Score=60.96 Aligned_cols=33 Identities=12% Similarity=0.316 Sum_probs=26.2
Q ss_pred cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEe
Q 045543 133 GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 133 ~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
.|+|++..+ . ....+++.+++.|+|||++++.+
T Consensus 113 fDlV~~~~~-~-----~~~~~l~~~~~~LkpGG~lv~~~ 145 (187)
T PRK00107 113 FDVVTSRAV-A-----SLSDLVELCLPLLKPGGRFLALK 145 (187)
T ss_pred ccEEEEccc-c-----CHHHHHHHHHHhcCCCeEEEEEe
Confidence 399998653 2 23578999999999999999874
No 93
>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=97.77 E-value=0.00012 Score=62.46 Aligned_cols=48 Identities=17% Similarity=0.352 Sum_probs=41.2
Q ss_pred Cccccccc--cCCc-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEE
Q 045543 122 CGWKMFQK--ILNG-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 122 ~~gD~~~~--~p~~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli 169 (239)
..+|.+++ .+.. |+|+|+|||-.++.+.-.+|+++.+++|+|||.|+|
T Consensus 189 ~~~NLl~~~~~~~~fD~IfCRNVLIYFd~~~q~~il~~f~~~L~~gG~Lfl 239 (268)
T COG1352 189 RRHNLLDDSPFLGKFDLIFCRNVLIYFDEETQERILRRFADSLKPGGLLFL 239 (268)
T ss_pred eecCCCCCccccCCCCEEEEcceEEeeCHHHHHHHHHHHHHHhCCCCEEEE
Confidence 44566663 3344 999999999999999999999999999999999988
No 94
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.75 E-value=5.9e-05 Score=62.36 Aligned_cols=65 Identities=15% Similarity=0.166 Sum_probs=47.6
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC------------------------------------------CccccccccC-Cc
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK------------------------------------------CGWKMFQKIL-NG 133 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------------~~gD~~~~~p-~~ 133 (239)
..+++.++ +.+..+|||||||+|. +.+|.++..+ .+
T Consensus 66 ~~~~~~l~-~~~g~~VLdIG~GsG~~t~~la~~~~~~~~V~~vE~~~~~~~~a~~~l~~~g~~~v~~~~gd~~~~~~~~~ 144 (212)
T PRK13942 66 AIMCELLD-LKEGMKVLEIGTGSGYHAAVVAEIVGKSGKVVTIERIPELAEKAKKTLKKLGYDNVEVIVGDGTLGYEENA 144 (212)
T ss_pred HHHHHHcC-CCCcCEEEEECCcccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCeEEEECCcccCCCcCC
Confidence 45556666 7788999999999999 4456655333 23
Q ss_pred --ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 134 --DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 --D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+|++....++.+ +.+.+.|+|||++++.
T Consensus 145 ~fD~I~~~~~~~~~~--------~~l~~~LkpgG~lvi~ 175 (212)
T PRK13942 145 PYDRIYVTAAGPDIP--------KPLIEQLKDGGIMVIP 175 (212)
T ss_pred CcCEEEECCCcccch--------HHHHHhhCCCcEEEEE
Confidence 9999887765443 4567789999999884
No 95
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.75 E-value=5.7e-05 Score=62.06 Aligned_cols=64 Identities=14% Similarity=0.165 Sum_probs=46.0
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC-------------------------------------------CccccccccCC--
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK-------------------------------------------CGWKMFQKILN-- 132 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~-------------------------------------------~~gD~~~~~p~-- 132 (239)
.+++.++ ..+..+|||||||+|. +.+|+.+..+.
T Consensus 63 ~~~~~l~-~~~~~~VLDiG~GsG~~~~~la~~~~~~g~V~~iD~~~~~~~~a~~~l~~~~~~~~v~~~~~d~~~~~~~~~ 141 (205)
T PRK13944 63 MMCELIE-PRPGMKILEVGTGSGYQAAVCAEAIERRGKVYTVEIVKELAIYAAQNIERLGYWGVVEVYHGDGKRGLEKHA 141 (205)
T ss_pred HHHHhcC-CCCCCEEEEECcCccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCcEEEEECCcccCCccCC
Confidence 3445555 5667899999999997 23455543342
Q ss_pred c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 133 G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 133 ~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
. |+|++...+++.+ +++.+.|+|||+|++.
T Consensus 142 ~fD~Ii~~~~~~~~~--------~~l~~~L~~gG~lvi~ 172 (205)
T PRK13944 142 PFDAIIVTAAASTIP--------SALVRQLKDGGVLVIP 172 (205)
T ss_pred CccEEEEccCcchhh--------HHHHHhcCcCcEEEEE
Confidence 3 9999998887655 3577889999999874
No 96
>cd02440 AdoMet_MTases S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).
Probab=97.72 E-value=6.7e-05 Score=52.73 Aligned_cols=37 Identities=16% Similarity=0.217 Sum_probs=32.6
Q ss_pred cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 133 GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 133 ~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
.|++++...+|.+ .+....+++++.+.|+|||.+++.
T Consensus 67 ~d~i~~~~~~~~~-~~~~~~~l~~~~~~l~~~g~~~~~ 103 (107)
T cd02440 67 FDVIISDPPLHHL-VEDLARFLEEARRLLKPGGVLVLT 103 (107)
T ss_pred eEEEEEccceeeh-hhHHHHHHHHHHHHcCCCCEEEEE
Confidence 3999999999876 567789999999999999999875
No 97
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=97.69 E-value=6e-05 Score=61.80 Aligned_cols=38 Identities=13% Similarity=-0.004 Sum_probs=26.6
Q ss_pred ceeeechhhhcCC------hhHHHHHHHHHHhhCCCCceEEEEe
Q 045543 134 DAILMKLILRNWD------DEHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 134 D~~~l~~vlH~~~------d~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
|++++....+... ......+|+++++.|+|||+++|..
T Consensus 113 D~V~~~~~~p~~~~~~~~~~~~~~~~l~~i~~~LkpgG~l~i~~ 156 (202)
T PRK00121 113 DRIYLNFPDPWPKKRHHKRRLVQPEFLALYARKLKPGGEIHFAT 156 (202)
T ss_pred ceEEEECCCCCCCccccccccCCHHHHHHHHHHcCCCCEEEEEc
Confidence 8888754432111 1124689999999999999999853
No 98
>PF03291 Pox_MCEL: mRNA capping enzyme; InterPro: IPR004971 This is a family of viral mRNA capping enzymes. The enzyme catalyses the first two reactions in the mRNA cap formation pathway. It is a heterodimer consisting of a large and small subunit. This entry is the large subunit. ; GO: 0006370 mRNA capping; PDB: 3EPP_A 3BGV_C 2VDW_C 1RI5_A 1RI3_A 1RI1_A 1Z3C_A 1RI2_A 2HV9_A 1RI4_A.
Probab=97.63 E-value=7.9e-05 Score=65.68 Aligned_cols=37 Identities=22% Similarity=0.259 Sum_probs=32.7
Q ss_pred ceeeechhhhcC--ChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 134 DAILMKLILRNW--DDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 D~~~l~~vlH~~--~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+|-+...||.. +.+.++.+|++|...|+|||.++..
T Consensus 147 DvVScQFalHY~Fese~~ar~~l~Nvs~~Lk~GG~FIgT 185 (331)
T PF03291_consen 147 DVVSCQFALHYAFESEEKARQFLKNVSSLLKPGGYFIGT 185 (331)
T ss_dssp EEEEEES-GGGGGSSHHHHHHHHHHHHHTEEEEEEEEEE
T ss_pred ceeehHHHHHHhcCCHHHHHHHHHHHHHhcCCCCEEEEE
Confidence 999999999974 6778888999999999999999875
No 99
>PF05724 TPMT: Thiopurine S-methyltransferase (TPMT); InterPro: IPR008854 This family consists of thiopurine S-methyltransferase proteins from both eukaryotes and prokaryotes. Thiopurine S-methyltransferase (TPMT) is a cytosolic enzyme that catalyses S-methylation of aromatic and heterocyclic sulphydryl compounds, including anticancer and immunosuppressive thiopurines [].; GO: 0008119 thiopurine S-methyltransferase activity, 0008152 metabolic process, 0005737 cytoplasm; PDB: 1PJZ_A 2H11_A 2BZG_A 3LCC_A 3BGD_A 2GB4_A 3BGI_B.
Probab=97.63 E-value=0.00024 Score=59.02 Aligned_cols=82 Identities=17% Similarity=0.130 Sum_probs=54.8
Q ss_pred ccccccccC-C-c--ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCC--CCCCChhhhhhhhhhHHHhh
Q 045543 123 GWKMFQKIL-N-G--DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVV--IPEATPATREASSIDIIMLM 196 (239)
Q Consensus 123 ~gD~~~~~p-~-~--D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~--~~~~~~~~~~~~~~dl~ml~ 196 (239)
.||||+--+ . + |+|+=+..|+-.+++.-.+..+++++.|+|||+++++-...+. ...||
T Consensus 103 ~gDfF~l~~~~~g~fD~iyDr~~l~Alpp~~R~~Ya~~l~~ll~p~g~~lLi~l~~~~~~~~GPP--------------- 167 (218)
T PF05724_consen 103 CGDFFELPPEDVGKFDLIYDRTFLCALPPEMRERYAQQLASLLKPGGRGLLITLEYPQGEMEGPP--------------- 167 (218)
T ss_dssp ES-TTTGGGSCHHSEEEEEECSSTTTS-GGGHHHHHHHHHHCEEEEEEEEEEEEES-CSCSSSSS---------------
T ss_pred EcccccCChhhcCCceEEEEecccccCCHHHHHHHHHHHHHHhCCCCcEEEEEEEcCCcCCCCcC---------------
Confidence 569998222 2 2 9999999999999999999999999999999995444333322 22233
Q ss_pred ccCCccccChhhccHHHHHhhCCCceeeEEE
Q 045543 197 QLSGEKERTKQEYYGMALTAKNGFKGVNYES 227 (239)
Q Consensus 197 ~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~ 227 (239)
-..+.+|+ ++++. .+|++.....
T Consensus 168 -----f~v~~~ev--~~l~~-~~f~i~~l~~ 190 (218)
T PF05724_consen 168 -----FSVTEEEV--RELFG-PGFEIEELEE 190 (218)
T ss_dssp ---------HHHH--HHHHT-TTEEEEEEEE
T ss_pred -----CCCCHHHH--HHHhc-CCcEEEEEec
Confidence 01256777 88888 6777766543
No 100
>KOG2899 consensus Predicted methyltransferase [General function prediction only]
Probab=97.60 E-value=0.00011 Score=61.14 Aligned_cols=84 Identities=15% Similarity=0.202 Sum_probs=49.1
Q ss_pred CCcceeeec----hhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccCh
Q 045543 131 LNGDAILMK----LILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTK 206 (239)
Q Consensus 131 p~~D~~~l~----~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~ 206 (239)
|+-|++++- ||=-||.|+-.+++++++++-|.|||.|++ |+ .+-.. ....+.... -+..+.---...+
T Consensus 165 ~~fDiIlcLSiTkWIHLNwgD~GL~~ff~kis~ll~pgGiLvv-EP----QpWks-Y~kaar~~e--~~~~ny~~i~lkp 236 (288)
T KOG2899|consen 165 PEFDIILCLSITKWIHLNWGDDGLRRFFRKISSLLHPGGILVV-EP----QPWKS-YKKAARRSE--KLAANYFKIFLKP 236 (288)
T ss_pred ccccEEEEEEeeeeEecccccHHHHHHHHHHHHhhCcCcEEEE-cC----CchHH-HHHHHHHHH--HhhcCccceecCH
Confidence 334777753 333389999999999999999999998765 32 11111 111111111 1111112233467
Q ss_pred hhccHHHHHhhC--CCceee
Q 045543 207 QEYYGMALTAKN--GFKGVN 224 (239)
Q Consensus 207 ~e~~~~~ll~~a--Gf~~~~ 224 (239)
+.+ ..|+.+. ||+.++
T Consensus 237 ~~f--~~~l~q~~vgle~~e 254 (288)
T KOG2899|consen 237 EDF--EDWLNQIVVGLESVE 254 (288)
T ss_pred HHH--Hhhhhhhhhheeeec
Confidence 888 8888877 566544
No 101
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=97.60 E-value=0.00017 Score=62.14 Aligned_cols=76 Identities=12% Similarity=0.186 Sum_probs=57.1
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC-----------------------------------------CccccccccCC-c
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK-----------------------------------------CGWKMFQKILN-G 133 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~-----------------------------------------~~gD~~~~~p~-~ 133 (239)
.+-+++.++ .....+|+|+|||.|. +..|.|++... -
T Consensus 147 S~lLl~~l~-~~~~~~vlDlGCG~Gvlg~~la~~~p~~~vtmvDvn~~Av~~ar~Nl~~N~~~~~~v~~s~~~~~v~~kf 225 (300)
T COG2813 147 SRLLLETLP-PDLGGKVLDLGCGYGVLGLVLAKKSPQAKLTLVDVNARAVESARKNLAANGVENTEVWASNLYEPVEGKF 225 (300)
T ss_pred HHHHHHhCC-ccCCCcEEEeCCCccHHHHHHHHhCCCCeEEEEecCHHHHHHHHHhHHHcCCCccEEEEecccccccccc
Confidence 456778888 5555699999999999 23344554444 3
Q ss_pred ceeeechhhhcC---ChhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 134 DAILMKLILRNW---DDEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 134 D~~~l~~vlH~~---~d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
|.|++.==+|.= .+.-+.+|++..++.|++||.|.|+-.
T Consensus 226 d~IisNPPfh~G~~v~~~~~~~~i~~A~~~L~~gGeL~iVan 267 (300)
T COG2813 226 DLIISNPPFHAGKAVVHSLAQEIIAAAARHLKPGGELWIVAN 267 (300)
T ss_pred cEEEeCCCccCCcchhHHHHHHHHHHHHHhhccCCEEEEEEc
Confidence 899888777743 344456999999999999999999755
No 102
>PF08123 DOT1: Histone methylation protein DOT1 ; InterPro: IPR013110 The DOT1 domain regulates gene expression by methylating histone H3 []. H3 methylation by DOT1 has been shown to be required for the DNA damage checkpoint in yeast [].; GO: 0018024 histone-lysine N-methyltransferase activity; PDB: 4ER3_A 4ER6_A 4EQZ_A 1NW3_A 3UWP_A 4ER5_A 3QOX_A 3SX0_A 4ER7_A 3SR4_A ....
Probab=97.60 E-value=0.00014 Score=59.78 Aligned_cols=78 Identities=17% Similarity=0.268 Sum_probs=48.5
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC--------------------------------------------------Cccc
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK--------------------------------------------------CGWK 125 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~--------------------------------------------------~~gD 125 (239)
...+++.+. +.+...++|+|+|.|. ..||
T Consensus 31 ~~~il~~~~-l~~~dvF~DlGSG~G~~v~~aal~~~~~~~~GIEi~~~~~~~a~~~~~~~~~~~~~~g~~~~~v~l~~gd 109 (205)
T PF08123_consen 31 VSKILDELN-LTPDDVFYDLGSGVGNVVFQAALQTGCKKSVGIEILPELHDLAEELLEELKKRMKHYGKRPGKVELIHGD 109 (205)
T ss_dssp HHHHHHHTT---TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE-SHHHHHHHHHHHHHHHHHHHHCTB---EEEEECS-
T ss_pred HHHHHHHhC-CCCCCEEEECCCCCCHHHHHHHHHcCCcEEEEEEechHHHHHHHHHHHHHHHHHHHhhcccccceeeccC
Confidence 345666676 7788999999999999 5788
Q ss_pred ccc-cc-----CCcceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCC
Q 045543 126 MFQ-KI-----LNGDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVI 177 (239)
Q Consensus 126 ~~~-~~-----p~~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~ 177 (239)
|++ +. .++|+|++.+.+ |+++-..+| ++....||||.+|+....+.+..
T Consensus 110 fl~~~~~~~~~s~AdvVf~Nn~~--F~~~l~~~L-~~~~~~lk~G~~IIs~~~~~~~~ 164 (205)
T PF08123_consen 110 FLDPDFVKDIWSDADVVFVNNTC--FDPDLNLAL-AELLLELKPGARIISTKPFCPRR 164 (205)
T ss_dssp TTTHHHHHHHGHC-SEEEE--TT--T-HHHHHHH-HHHHTTS-TT-EEEESS-SS-TT
T ss_pred ccccHhHhhhhcCCCEEEEeccc--cCHHHHHHH-HHHHhcCCCCCEEEECCCcCCCC
Confidence 876 22 346999999986 776655555 77778899999988766665544
No 103
>PRK13256 thiopurine S-methyltransferase; Reviewed
Probab=97.58 E-value=0.00039 Score=57.99 Aligned_cols=54 Identities=11% Similarity=-0.014 Sum_probs=44.8
Q ss_pred Ccccccc-cc-C--C-c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecC
Q 045543 122 CGWKMFQ-KI-L--N-G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTV 175 (239)
Q Consensus 122 ~~gD~~~-~~-p--~-~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~ 175 (239)
..+|||+ +. + . . |+|+=+.+|+.++++.-.+..+++.+.|+|||+++++-.-.+
T Consensus 108 ~~gD~f~l~~~~~~~~~fD~VyDra~~~Alpp~~R~~Y~~~l~~lL~pgg~llll~~~~~ 167 (226)
T PRK13256 108 YVADIFNLPKIANNLPVFDIWYDRGAYIALPNDLRTNYAKMMLEVCSNNTQILLLVMEHD 167 (226)
T ss_pred EEccCcCCCccccccCCcCeeeeehhHhcCCHHHHHHHHHHHHHHhCCCcEEEEEEEecC
Confidence 4578997 32 1 1 3 999999999999999999999999999999999999865443
No 104
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=97.51 E-value=0.00023 Score=57.48 Aligned_cols=73 Identities=14% Similarity=0.227 Sum_probs=48.2
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC-------------------------------Cccccccc---------cCC-c-ce
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK-------------------------------CGWKMFQK---------ILN-G-DA 135 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~-------------------------------~~gD~~~~---------~p~-~-D~ 135 (239)
++.+.+....+..+|||+|||+|. +.+|+.++ .+. . |+
T Consensus 22 ~~~~~~~~i~~g~~VLDiG~GtG~~~~~l~~~~~~~~~v~~vDis~~~~~~~i~~~~~d~~~~~~~~~l~~~~~~~~~D~ 101 (188)
T TIGR00438 22 QLNQKFKLIKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMKPIENVDFIRGDFTDEEVLNKIRERVGDDKVDV 101 (188)
T ss_pred HHHHHhcccCCCCEEEEecCCCCHHHHHHHHHhCCCceEEEEeccccccCCCceEEEeeCCChhHHHHHHHHhCCCCccE
Confidence 344555546778899999999998 11244331 233 3 99
Q ss_pred eeechhhh---cCC------hhHHHHHHHHHHhhCCCCceEEEE
Q 045543 136 ILMKLILR---NWD------DEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 136 ~~l~~vlH---~~~------d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+.....| .|+ .+....+|+++++.|+|||++++.
T Consensus 102 V~~~~~~~~~g~~~~~~~~~~~~~~~~l~~~~~~LkpgG~lvi~ 145 (188)
T TIGR00438 102 VMSDAAPNISGYWDIDHLRSIDLVELALDIAKEVLKPKGNFVVK 145 (188)
T ss_pred EEcCCCCCCCCCccccHHHHHHHHHHHHHHHHHHccCCCEEEEE
Confidence 98743321 122 123468999999999999999885
No 105
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=97.49 E-value=0.00025 Score=58.60 Aligned_cols=65 Identities=11% Similarity=0.123 Sum_probs=45.7
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC------------------------------------------CccccccccC--C
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK------------------------------------------CGWKMFQKIL--N 132 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------------~~gD~~~~~p--~ 132 (239)
..+++.++ ..+..+|||||||+|. +.+|..+..+ .
T Consensus 67 ~~~~~~l~-~~~~~~VLDiG~GsG~~a~~la~~~~~~g~V~~vD~~~~~~~~A~~~~~~~g~~~v~~~~~d~~~~~~~~~ 145 (215)
T TIGR00080 67 AMMTELLE-LKPGMKVLEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKAERRLRKLGLDNVIVIVGDGTQGWEPLA 145 (215)
T ss_pred HHHHHHhC-CCCcCEEEEECCCccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCeEEEECCcccCCcccC
Confidence 34555566 6778899999999999 3345544223 2
Q ss_pred -cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 133 -GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 133 -~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
-|++++....++ +.+.+.+.|+|||++++.
T Consensus 146 ~fD~Ii~~~~~~~--------~~~~~~~~L~~gG~lv~~ 176 (215)
T TIGR00080 146 PYDRIYVTAAGPK--------IPEALIDQLKEGGILVMP 176 (215)
T ss_pred CCCEEEEcCCccc--------ccHHHHHhcCcCcEEEEE
Confidence 398888765433 445678899999999874
No 106
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=97.48 E-value=0.00029 Score=56.63 Aligned_cols=65 Identities=18% Similarity=0.262 Sum_probs=48.7
Q ss_pred HhhccCCCCcceEEEeCCCCCC-----------------------------------------Ccccccc---ccCCcce
Q 045543 100 LDYYKGFEKIKQLVDVGGGCGK-----------------------------------------CGWKMFQ---KILNGDA 135 (239)
Q Consensus 100 ~~~~~~~~~~~~vlDvGGG~G~-----------------------------------------~~gD~~~---~~p~~D~ 135 (239)
+..+. +.+..+++|||||+|. +.||.-+ +.|+.|.
T Consensus 27 ls~L~-~~~g~~l~DIGaGtGsi~iE~a~~~p~~~v~AIe~~~~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~~~da 105 (187)
T COG2242 27 LSKLR-PRPGDRLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARFGVDNLEVVEGDAPEALPDLPSPDA 105 (187)
T ss_pred HHhhC-CCCCCEEEEeCCCccHHHHHHHHhCCCceEEEEecCHHHHHHHHHHHHHhCCCcEEEEeccchHhhcCCCCCCE
Confidence 44555 7788999999999999 4444433 3443488
Q ss_pred eeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEe
Q 045543 136 ILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 136 ~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
+++..- .....||+.+.+.|+|||||++.-
T Consensus 106 iFIGGg------~~i~~ile~~~~~l~~ggrlV~na 135 (187)
T COG2242 106 IFIGGG------GNIEEILEAAWERLKPGGRLVANA 135 (187)
T ss_pred EEECCC------CCHHHHHHHHHHHcCcCCeEEEEe
Confidence 888775 234589999999999999998753
No 107
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=97.45 E-value=0.00035 Score=57.48 Aligned_cols=64 Identities=14% Similarity=0.207 Sum_probs=46.0
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC---------------------------------------CccccccccCC---cce
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK---------------------------------------CGWKMFQKILN---GDA 135 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~---------------------------------------~~gD~~~~~p~---~D~ 135 (239)
.+++.++ ..+..+|||||||+|. +.+|+++..+. .|+
T Consensus 69 ~l~~~l~-~~~~~~VLeiG~GsG~~t~~la~~~~~v~~vd~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~ 147 (212)
T PRK00312 69 RMTELLE-LKPGDRVLEIGTGSGYQAAVLAHLVRRVFSVERIKTLQWEAKRRLKQLGLHNVSVRHGDGWKGWPAYAPFDR 147 (212)
T ss_pred HHHHhcC-CCCCCEEEEECCCccHHHHHHHHHhCEEEEEeCCHHHHHHHHHHHHHCCCCceEEEECCcccCCCcCCCcCE
Confidence 3444555 6677899999999997 33555554442 399
Q ss_pred eeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 136 ILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 136 ~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
+++...+++. .+.+.+.|+|||++++.
T Consensus 148 I~~~~~~~~~--------~~~l~~~L~~gG~lv~~ 174 (212)
T PRK00312 148 ILVTAAAPEI--------PRALLEQLKEGGILVAP 174 (212)
T ss_pred EEEccCchhh--------hHHHHHhcCCCcEEEEE
Confidence 9988766544 45678899999999885
No 108
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=97.45 E-value=0.0002 Score=61.32 Aligned_cols=55 Identities=22% Similarity=0.324 Sum_probs=38.5
Q ss_pred CcceEEEeCCCCCC---------------------------------------Ccccccc-ccCC-c-ceeeechhhhcC
Q 045543 108 KIKQLVDVGGGCGK---------------------------------------CGWKMFQ-KILN-G-DAILMKLILRNW 145 (239)
Q Consensus 108 ~~~~vlDvGGG~G~---------------------------------------~~gD~~~-~~p~-~-D~~~l~~vlH~~ 145 (239)
...+|||+|||+|. ..+|..+ +++. . |+|+....
T Consensus 85 ~~~~vLDiGcG~G~~~~~l~~~~~~~~~~~v~giD~s~~~l~~A~~~~~~~~~~~~d~~~lp~~~~sfD~I~~~~~---- 160 (272)
T PRK11088 85 KATALLDIGCGEGYYTHALADALPEITTMQLFGLDISKVAIKYAAKRYPQVTFCVASSHRLPFADQSLDAIIRIYA---- 160 (272)
T ss_pred CCCeEEEECCcCCHHHHHHHHhcccccCCeEEEECCCHHHHHHHHHhCCCCeEEEeecccCCCcCCceeEEEEecC----
Confidence 45789999999997 2234333 4444 2 88875432
Q ss_pred ChhHHHHHHHHHHhhCCCCceEEEEe
Q 045543 146 DDEHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 146 ~d~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
...+++++++|+|||+++++.
T Consensus 161 -----~~~~~e~~rvLkpgG~li~~~ 181 (272)
T PRK11088 161 -----PCKAEELARVVKPGGIVITVT 181 (272)
T ss_pred -----CCCHHHHHhhccCCCEEEEEe
Confidence 134688999999999999864
No 109
>PRK14967 putative methyltransferase; Provisional
Probab=97.41 E-value=0.00034 Score=58.11 Aligned_cols=67 Identities=13% Similarity=0.207 Sum_probs=45.7
Q ss_pred CCCcceEEEeCCCCCC---------------------------------------CccccccccCC-c-ceeeechhhhc
Q 045543 106 FEKIKQLVDVGGGCGK---------------------------------------CGWKMFQKILN-G-DAILMKLILRN 144 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~---------------------------------------~~gD~~~~~p~-~-D~~~l~~vlH~ 144 (239)
..+..+|||+|||+|. +.+|+++.++. . |+|++.--.+.
T Consensus 34 ~~~~~~vLDlGcG~G~~~~~la~~~~~~v~~vD~s~~~l~~a~~n~~~~~~~~~~~~~d~~~~~~~~~fD~Vi~npPy~~ 113 (223)
T PRK14967 34 LGPGRRVLDLCTGSGALAVAAAAAGAGSVTAVDISRRAVRSARLNALLAGVDVDVRRGDWARAVEFRPFDVVVSNPPYVP 113 (223)
T ss_pred cCCCCeEEEecCCHHHHHHHHHHcCCCeEEEEECCHHHHHHHHHHHHHhCCeeEEEECchhhhccCCCeeEEEECCCCCC
Confidence 4556799999999998 34566554443 3 99887521111
Q ss_pred --------------CC-----hhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 145 --------------WD-----DEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 145 --------------~~-----d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
|. ......+++++.+.|+|||+++++..
T Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~~~Lk~gG~l~~~~~ 160 (223)
T PRK14967 114 APPDAPPSRGPARAWDAGPDGRAVLDRLCDAAPALLAPGGSLLLVQS 160 (223)
T ss_pred CCcccccccChhHhhhCCCcHHHHHHHHHHHHHHhcCCCcEEEEEEe
Confidence 11 11245789999999999999998644
No 110
>TIGR00406 prmA ribosomal protein L11 methyltransferase. Ribosomal protein L11 methyltransferase is an S-adenosyl-L-methionine-dependent methyltransferase required for the modification of ribosomal protein L11. This protein is found in bacteria and (with a probable transit peptide) in Arabidopsis.
Probab=97.38 E-value=0.00036 Score=60.37 Aligned_cols=34 Identities=18% Similarity=0.245 Sum_probs=26.5
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
|++++.... +....+++++++.|+|||++++...
T Consensus 227 DlVvan~~~-----~~l~~ll~~~~~~LkpgG~li~sgi 260 (288)
T TIGR00406 227 DVIVANILA-----EVIKELYPQFSRLVKPGGWLILSGI 260 (288)
T ss_pred eEEEEecCH-----HHHHHHHHHHHHHcCCCcEEEEEeC
Confidence 998875432 2346899999999999999988764
No 111
>PRK07402 precorrin-6B methylase; Provisional
Probab=97.36 E-value=0.00053 Score=55.75 Aligned_cols=24 Identities=13% Similarity=0.338 Sum_probs=20.8
Q ss_pred HHHHHHHHHHhhCCCCceEEEEee
Q 045543 149 HCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 149 ~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
....+++++++.|+|||++++...
T Consensus 120 ~~~~~l~~~~~~LkpgG~li~~~~ 143 (196)
T PRK07402 120 PIKEILQAVWQYLKPGGRLVATAS 143 (196)
T ss_pred CHHHHHHHHHHhcCCCeEEEEEee
Confidence 457899999999999999988764
No 112
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=97.34 E-value=0.00039 Score=60.19 Aligned_cols=37 Identities=16% Similarity=0.219 Sum_probs=32.5
Q ss_pred cceeeechhhhc-C-ChhHHHHHHHHHHhhCCCCceEEE
Q 045543 133 GDAILMKLILRN-W-DDEHCLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 133 ~D~~~l~~vlH~-~-~d~~~~~iL~~~~~aL~pgg~lli 169 (239)
-|++-+..++|. | +.+.++..|+|+++.|+|||.++=
T Consensus 197 fDivScQF~~HYaFetee~ar~~l~Nva~~LkpGG~FIg 235 (389)
T KOG1975|consen 197 FDIVSCQFAFHYAFETEESARIALRNVAKCLKPGGVFIG 235 (389)
T ss_pred cceeeeeeeEeeeeccHHHHHHHHHHHHhhcCCCcEEEE
Confidence 599999999996 4 577899999999999999997754
No 113
>PRK14121 tRNA (guanine-N(7)-)-methyltransferase; Provisional
Probab=97.31 E-value=0.00054 Score=61.46 Aligned_cols=71 Identities=17% Similarity=0.443 Sum_probs=46.9
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC-----------------------------------------Ccccc---ccccCCc
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK-----------------------------------------CGWKM---FQKILNG 133 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~-----------------------------------------~~gD~---~~~~p~~ 133 (239)
.+++.+. -.....+||||||+|. +.+|. ++.+|.+
T Consensus 113 ~~~~~~~-~~~~p~vLEIGcGsG~~ll~lA~~~P~~~~iGIEI~~~~i~~a~~ka~~~gL~NV~~i~~DA~~ll~~~~~~ 191 (390)
T PRK14121 113 NFLDFIS-KNQEKILIEIGFGSGRHLLYQAKNNPNKLFIGIEIHTPSIEQVLKQIELLNLKNLLIINYDARLLLELLPSN 191 (390)
T ss_pred HHHHHhc-CCCCCeEEEEcCcccHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHhhhhCCCC
Confidence 4454554 3445799999999999 34454 2345543
Q ss_pred --ceeeechhhhcCChhH-----HHHHHHHHHhhCCCCceEEEE
Q 045543 134 --DAILMKLILRNWDDEH-----CLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 --D~~~l~~vlH~~~d~~-----~~~iL~~~~~aL~pgg~lli~ 170 (239)
|.|++..-. .|+... ...+|+.+++.|+|||.+.+.
T Consensus 192 s~D~I~lnFPd-PW~KkrHRRlv~~~fL~e~~RvLkpGG~l~l~ 234 (390)
T PRK14121 192 SVEKIFVHFPV-PWDKKPHRRVISEDFLNEALRVLKPGGTLELR 234 (390)
T ss_pred ceeEEEEeCCC-CccccchhhccHHHHHHHHHHHcCCCcEEEEE
Confidence 777764221 243222 257899999999999999885
No 114
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=97.30 E-value=0.00078 Score=59.38 Aligned_cols=73 Identities=14% Similarity=0.104 Sum_probs=49.3
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC---------------------------------------Ccccccc-ccCC-c-c
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK---------------------------------------CGWKMFQ-KILN-G-D 134 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~---------------------------------------~~gD~~~-~~p~-~-D 134 (239)
..++.... +.+..+|+|+|||+|. ..+|+.+ +.+. . |
T Consensus 172 ~~~~~l~~-~~~g~~vLDp~cGtG~~lieaa~~~~~v~g~Di~~~~~~~a~~nl~~~g~~~i~~~~~D~~~l~~~~~~~D 250 (329)
T TIGR01177 172 RAMVNLAR-VTEGDRVLDPFCGTGGFLIEAGLMGAKVIGCDIDWKMVAGARINLEHYGIEDFFVKRGDATKLPLSSESVD 250 (329)
T ss_pred HHHHHHhC-CCCcCEEEECCCCCCHHHHHHHHhCCeEEEEcCCHHHHHHHHHHHHHhCCCCCeEEecchhcCCcccCCCC
Confidence 34444445 7777899999999999 2456654 3433 3 8
Q ss_pred eeeech------hh-hcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 135 AILMKL------IL-RNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 135 ~~~l~~------vl-H~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
++++.- .. ++...+....+|+.+++.|+|||++++.
T Consensus 251 ~Iv~dPPyg~~~~~~~~~~~~l~~~~l~~~~r~Lk~gG~lv~~ 293 (329)
T TIGR01177 251 AIATDPPYGRSTTAAGDGLESLYERSLEEFHEVLKSEGWIVYA 293 (329)
T ss_pred EEEECCCCcCcccccCCchHHHHHHHHHHHHHHccCCcEEEEE
Confidence 888731 11 1112233578999999999999999885
No 115
>TIGR03439 methyl_EasF probable methyltransferase domain, EasF family. This model represents an uncharacterized domain of about 300 amino acids with homology to S-adenosylmethionine-dependent methyltransferases. Proteins with this domain are exclusively fungal. A few, such as EasF from Neotyphodium lolii, are associated with the biosynthesis of ergot alkaloids, a class of fungal secondary metabolites. EasF may, in fact, be the AdoMet:dimethylallyltryptophan N-methyltransferase, the enzyme that follows tryptophan dimethylallyltransferase (DMATS) in ergot alkaloid biosynthesis. Several other members of this family, including mug158 (meiotically up-regulated gene 158 protein) from Schizosaccharomyces pombe, contain an additional uncharacterized domain DUF323 (pfam03781).
Probab=97.27 E-value=0.00069 Score=59.43 Aligned_cols=42 Identities=12% Similarity=0.252 Sum_probs=36.5
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHh-hCCCCceEEE-EeeecC
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYE-AIPGNGKIII-IDSTTV 175 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~-aL~pgg~lli-~d~~~~ 175 (239)
-++++.+.+.|++++++..+|+++++ .|+||+.++| +|.+-+
T Consensus 159 ~~~flGSsiGNf~~~ea~~fL~~~~~~~l~~~d~lLiG~D~~k~ 202 (319)
T TIGR03439 159 TILWLGSSIGNFSRPEAAAFLAGFLATALSPSDSFLIGLDGCKD 202 (319)
T ss_pred EEEEeCccccCCCHHHHHHHHHHHHHhhCCCCCEEEEecCCCCC
Confidence 56777789999999999999999999 9999999988 566543
No 116
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=97.27 E-value=0.00033 Score=56.99 Aligned_cols=21 Identities=19% Similarity=0.208 Sum_probs=18.3
Q ss_pred HHHHHHHHhhCCCCceEEEEe
Q 045543 151 LSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~d 171 (239)
..+++.+++.|+|||+|++..
T Consensus 112 ~~~l~~~~r~LkpgG~l~~~t 132 (194)
T TIGR00091 112 PHFLKEYANVLKKGGVIHFKT 132 (194)
T ss_pred HHHHHHHHHHhCCCCEEEEEe
Confidence 468999999999999998753
No 117
>PF06325 PrmA: Ribosomal protein L11 methyltransferase (PrmA); InterPro: IPR010456 This family consists of several Ribosomal protein L11 methyltransferase sequences. Its genetic determinant is prmA, which forms a bifunctional operon with the downstream panF gene []. The role of L11 methylation in ribosome function is, as yet, unknown. Deletion of the prmA gene in Escherichia coli showed no obvious effect [] except for the production of undermethylated forms of L11 []. Methylation is the most common post-transcriptional modification to ribosomal proteins in all organisms. PrmA is the only bacterial enzyme that catalyses the methylation of a ribosomal protein [].; GO: 0008276 protein methyltransferase activity, 0006479 protein methylation, 0005737 cytoplasm; PDB: 3GRZ_B 1F3L_A 2NXJ_B 3CJT_I 3CJQ_G 2NXE_A 2NXC_A 2ZBP_A 3EGV_A 3CJS_A ....
Probab=97.26 E-value=0.0014 Score=56.83 Aligned_cols=112 Identities=18% Similarity=0.232 Sum_probs=66.3
Q ss_pred HHHHHHhcccccHHHHHhhccCCCCcceEEEeCCCCCC----------------------------------Cccccc--
Q 045543 84 LNTAMLSHNSIVMNRILDYYKGFEKIKQLVDVGGGCGK----------------------------------CGWKMF-- 127 (239)
Q Consensus 84 f~~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvGGG~G~----------------------------------~~gD~~-- 127 (239)
|-.+-+..++... .+++.+. .+..+|+|||||+|. +...+.
T Consensus 140 FGTG~H~TT~lcl-~~l~~~~--~~g~~vLDvG~GSGILaiaA~klGA~~v~a~DiDp~Av~~a~~N~~~N~~~~~~~v~ 216 (295)
T PF06325_consen 140 FGTGHHPTTRLCL-ELLEKYV--KPGKRVLDVGCGSGILAIAAAKLGAKKVVAIDIDPLAVEAARENAELNGVEDRIEVS 216 (295)
T ss_dssp S-SSHCHHHHHHH-HHHHHHS--STTSEEEEES-TTSHHHHHHHHTTBSEEEEEESSCHHHHHHHHHHHHTT-TTCEEES
T ss_pred ccCCCCHHHHHHH-HHHHHhc--cCCCEEEEeCCcHHHHHHHHHHcCCCeEEEecCCHHHHHHHHHHHHHcCCCeeEEEE
Confidence 4444444444433 3344554 344799999999999 222221
Q ss_pred --cccCC--cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccc
Q 045543 128 --QKILN--GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKE 203 (239)
Q Consensus 128 --~~~p~--~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~ 203 (239)
.+.++ .|+|+ .|++ .+-...+...+.+.|+|||++++.-.+..+
T Consensus 217 ~~~~~~~~~~dlvv-ANI~----~~vL~~l~~~~~~~l~~~G~lIlSGIl~~~--------------------------- 264 (295)
T PF06325_consen 217 LSEDLVEGKFDLVV-ANIL----ADVLLELAPDIASLLKPGGYLILSGILEEQ--------------------------- 264 (295)
T ss_dssp CTSCTCCS-EEEEE-EES-----HHHHHHHHHHCHHHEEEEEEEEEEEEEGGG---------------------------
T ss_pred EecccccccCCEEE-ECCC----HHHHHHHHHHHHHhhCCCCEEEEccccHHH---------------------------
Confidence 13333 38876 4443 344578889999999999999886554321
Q ss_pred cChhhccHHHHHhhCCCceeeEEEcCCceeEE
Q 045543 204 RTKQEYYGMALTAKNGFKGVNYESFVCNFYIM 235 (239)
Q Consensus 204 rt~~e~~~~~ll~~aGf~~~~~~~~~~~~~vi 235 (239)
.++. .+.+++ ||++.+........+++
T Consensus 265 --~~~v--~~a~~~-g~~~~~~~~~~~W~~l~ 291 (295)
T PF06325_consen 265 --EDEV--IEAYKQ-GFELVEEREEGEWVALV 291 (295)
T ss_dssp --HHHH--HHHHHT-TEEEEEEEEETTEEEEE
T ss_pred --HHHH--HHHHHC-CCEEEEEEEECCEEEEE
Confidence 1233 555666 88888877766555544
No 118
>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=97.23 E-value=0.00046 Score=60.42 Aligned_cols=77 Identities=14% Similarity=0.298 Sum_probs=54.5
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC------------------------------------------Ccccccc---ccCC
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK------------------------------------------CGWKMFQ---KILN 132 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------------~~gD~~~---~~p~ 132 (239)
.+....|+|+. ++|||||-|+|. ..+|+-. ++|.
T Consensus 104 ~L~~~~~dfap-qsiLDvG~GPgtgl~A~n~i~Pdl~sa~ile~sp~lrkV~~tl~~nv~t~~td~r~s~vt~dRl~lp~ 182 (484)
T COG5459 104 ELQKRVPDFAP-QSILDVGAGPGTGLWALNDIWPDLKSAVILEASPALRKVGDTLAENVSTEKTDWRASDVTEDRLSLPA 182 (484)
T ss_pred HHHHhCCCcCc-chhhccCCCCchhhhhhcccCCCchhhhhhccCHHHHHHHHHHHhhcccccCCCCCCccchhccCCCc
Confidence 33334454544 569999999999 3445543 5666
Q ss_pred cceeeechhhhcCChhH----HHHHHHHHHhhCCCCceEEEEeeecC
Q 045543 133 GDAILMKLILRNWDDEH----CLSLLKNCYEAIPGNGKIIIIDSTTV 175 (239)
Q Consensus 133 ~D~~~l~~vlH~~~d~~----~~~iL~~~~~aL~pgg~lli~d~~~~ 175 (239)
+|.|.+..++|..-.+. ....++++-..+.|||.|+|+|.-.+
T Consensus 183 ad~ytl~i~~~eLl~d~~ek~i~~~ie~lw~l~~~gg~lVivErGtp 229 (484)
T COG5459 183 ADLYTLAIVLDELLPDGNEKPIQVNIERLWNLLAPGGHLVIVERGTP 229 (484)
T ss_pred cceeehhhhhhhhccccCcchHHHHHHHHHHhccCCCeEEEEeCCCc
Confidence 68888888877654333 33489999999999999999986443
No 119
>TIGR03533 L3_gln_methyl protein-(glutamine-N5) methyltransferase, ribosomal protein L3-specific. Members of this protein family methylate ribosomal protein L3 on a glutamine side chain. This family is related to HemK, a protein-glutamine methyltranferase for peptide chain release factors.
Probab=97.23 E-value=0.00056 Score=59.08 Aligned_cols=20 Identities=15% Similarity=0.400 Sum_probs=17.6
Q ss_pred HHHHHHHHHhhCCCCceEEE
Q 045543 150 CLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli 169 (239)
...+++++.+.|+|||++++
T Consensus 230 ~~~il~~a~~~L~~gG~l~~ 249 (284)
T TIGR03533 230 VRRILAEAADHLNENGVLVV 249 (284)
T ss_pred HHHHHHHHHHhcCCCCEEEE
Confidence 47899999999999998865
No 120
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=97.23 E-value=0.00049 Score=60.13 Aligned_cols=21 Identities=10% Similarity=0.305 Sum_probs=18.4
Q ss_pred HHHHHHHHHHhhCCCCceEEE
Q 045543 149 HCLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 149 ~~~~iL~~~~~aL~pgg~lli 169 (239)
....|++++.+.|+|||++++
T Consensus 241 ~~~~i~~~a~~~L~pgG~l~~ 261 (307)
T PRK11805 241 LVRRILAEAPDYLTEDGVLVV 261 (307)
T ss_pred HHHHHHHHHHHhcCCCCEEEE
Confidence 347899999999999998876
No 121
>KOG3010 consensus Methyltransferase [General function prediction only]
Probab=97.23 E-value=0.00065 Score=56.61 Aligned_cols=36 Identities=22% Similarity=0.338 Sum_probs=29.1
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCc-eEEEEee
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNG-KIIIIDS 172 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg-~lli~d~ 172 (239)
|+|+....+|-++-+ ++.+.+++.|++.| .+.|.-+
T Consensus 102 DlI~~Aqa~HWFdle---~fy~~~~rvLRk~Gg~iavW~Y 138 (261)
T KOG3010|consen 102 DLITAAQAVHWFDLE---RFYKEAYRVLRKDGGLIAVWNY 138 (261)
T ss_pred eeehhhhhHHhhchH---HHHHHHHHHcCCCCCEEEEEEc
Confidence 999999999977654 88999999999866 5555443
No 122
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=97.20 E-value=0.00096 Score=54.37 Aligned_cols=63 Identities=21% Similarity=0.351 Sum_probs=43.8
Q ss_pred hhccCCCCcceEEEeCCCCCC-------------------------------------------CccccccccC---C-c
Q 045543 101 DYYKGFEKIKQLVDVGGGCGK-------------------------------------------CGWKMFQKIL---N-G 133 (239)
Q Consensus 101 ~~~~~~~~~~~vlDvGGG~G~-------------------------------------------~~gD~~~~~p---~-~ 133 (239)
..++ .....+++|+|||+|. +.+|+.+..+ . .
T Consensus 34 ~~l~-~~~~~~vlDlG~GtG~~s~~~a~~~~~~~~v~avD~~~~~~~~a~~n~~~~g~~~~v~~~~~d~~~~l~~~~~~~ 112 (198)
T PRK00377 34 SKLR-LRKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLNNIVLIKGEAPEILFTINEKF 112 (198)
T ss_pred HHcC-CCCcCEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHhCCCCCeEEEEechhhhHhhcCCCC
Confidence 4455 6777899999999997 2233332111 2 3
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEE
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli 169 (239)
|++++.. ...+...+|+.+.+.|+|||++++
T Consensus 113 D~V~~~~-----~~~~~~~~l~~~~~~LkpgG~lv~ 143 (198)
T PRK00377 113 DRIFIGG-----GSEKLKEIISASWEIIKKGGRIVI 143 (198)
T ss_pred CEEEECC-----CcccHHHHHHHHHHHcCCCcEEEE
Confidence 8887743 233456899999999999999976
No 123
>COG4301 Uncharacterized conserved protein [Function unknown]
Probab=97.11 E-value=0.0014 Score=54.97 Aligned_cols=54 Identities=13% Similarity=0.139 Sum_probs=43.1
Q ss_pred Ccccccc---ccCC-c--ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEE-EeeecC
Q 045543 122 CGWKMFQ---KILN-G--DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIII-IDSTTV 175 (239)
Q Consensus 122 ~~gD~~~---~~p~-~--D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli-~d~~~~ 175 (239)
+.||+-. .+|. + =.+++...|-|+++++|..+|.+++.+|+||-.+++ +|.+-+
T Consensus 138 l~~~~~~~La~~~~~~~Rl~~flGStlGN~tp~e~~~Fl~~l~~a~~pGd~~LlGvDl~k~ 198 (321)
T COG4301 138 LCGDYELALAELPRGGRRLFVFLGSTLGNLTPGECAVFLTQLRGALRPGDYFLLGVDLRKP 198 (321)
T ss_pred hhhhHHHHHhcccCCCeEEEEEecccccCCChHHHHHHHHHHHhcCCCcceEEEeccccCH
Confidence 6677743 3454 3 577889999999999999999999999999988887 665443
No 124
>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases. ; GO: 0008168 methyltransferase activity
Probab=97.07 E-value=0.00032 Score=64.10 Aligned_cols=67 Identities=16% Similarity=0.179 Sum_probs=52.2
Q ss_pred CCcceEEEeCCCCCC-----------------------------------Ccccccc---ccCC-c-ceeeechhhhcCC
Q 045543 107 EKIKQLVDVGGGCGK-----------------------------------CGWKMFQ---KILN-G-DAILMKLILRNWD 146 (239)
Q Consensus 107 ~~~~~vlDvGGG~G~-----------------------------------~~gD~~~---~~p~-~-D~~~l~~vlH~~~ 146 (239)
...+++||||||.|+ +-+-+-+ |+|. + |++-+++++..|.
T Consensus 116 g~iR~~LDvGcG~aSF~a~l~~r~V~t~s~a~~d~~~~qvqfaleRGvpa~~~~~~s~rLPfp~~~fDmvHcsrc~i~W~ 195 (506)
T PF03141_consen 116 GGIRTALDVGCGVASFGAYLLERNVTTMSFAPNDEHEAQVQFALERGVPAMIGVLGSQRLPFPSNAFDMVHCSRCLIPWH 195 (506)
T ss_pred CceEEEEeccceeehhHHHHhhCCceEEEcccccCCchhhhhhhhcCcchhhhhhccccccCCccchhhhhcccccccch
Confidence 456999999999999 1112211 6775 4 9999999999998
Q ss_pred hhHHHHHHHHHHhhCCCCceEEEEeeec
Q 045543 147 DEHCLSLLKNCYEAIPGNGKIIIIDSTT 174 (239)
Q Consensus 147 d~~~~~iL~~~~~aL~pgg~lli~d~~~ 174 (239)
+.+ -.+|-.+-+.|+|||.++..-.-.
T Consensus 196 ~~~-g~~l~evdRvLRpGGyfv~S~ppv 222 (506)
T PF03141_consen 196 PND-GFLLFEVDRVLRPGGYFVLSGPPV 222 (506)
T ss_pred hcc-cceeehhhhhhccCceEEecCCcc
Confidence 776 468999999999999988865533
No 125
>TIGR00563 rsmB ribosomal RNA small subunit methyltransferase RsmB. The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles.
Probab=97.07 E-value=0.0013 Score=59.99 Aligned_cols=79 Identities=11% Similarity=0.148 Sum_probs=53.8
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC------------------------------------------Ccccccc-cc--
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK------------------------------------------CGWKMFQ-KI-- 130 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------------~~gD~~~-~~-- 130 (239)
+..++..++ ..+..+|+|+|||+|. +.+|... +.
T Consensus 227 s~~~~~~L~-~~~g~~VLDlcag~G~kt~~la~~~~~~~v~a~D~~~~~l~~~~~n~~r~g~~~~v~~~~~d~~~~~~~~ 305 (426)
T TIGR00563 227 AQWVATWLA-PQNEETILDACAAPGGKTTHILELAPQAQVVALDIHEHRLKRVYENLKRLGLTIKAETKDGDGRGPSQWA 305 (426)
T ss_pred HHHHHHHhC-CCCCCeEEEeCCCccHHHHHHHHHcCCCeEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeccccccccccc
Confidence 334455566 6667899999999997 2234332 11
Q ss_pred C-C-cceeee------chhhhcCCh-------hH-------HHHHHHHHHhhCCCCceEEEEeeecC
Q 045543 131 L-N-GDAILM------KLILRNWDD-------EH-------CLSLLKNCYEAIPGNGKIIIIDSTTV 175 (239)
Q Consensus 131 p-~-~D~~~l------~~vlH~~~d-------~~-------~~~iL~~~~~aL~pgg~lli~d~~~~ 175 (239)
+ . .|.|++ ..+++..++ ++ ..+||+++++.|+|||+|++....+.
T Consensus 306 ~~~~fD~VllDaPcSg~G~~~~~p~~~~~~~~~~~~~l~~lQ~~lL~~a~~~LkpgG~lvystcs~~ 372 (426)
T TIGR00563 306 ENEQFDRILLDAPCSATGVIRRHPDIKWLRKPRDIAELAELQSEILDAIWPLLKTGGTLVYATCSVL 372 (426)
T ss_pred cccccCEEEEcCCCCCCcccccCcchhhcCCHHHHHHHHHHHHHHHHHHHHhcCCCcEEEEEeCCCC
Confidence 2 2 398885 346665444 11 36899999999999999999887554
No 126
>PF01234 NNMT_PNMT_TEMT: NNMT/PNMT/TEMT family; InterPro: IPR000940 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Several cytoplasmic vertebrate methyltransferases are evolutionary related [], including nicotinamide N-methyltransferase (2.1.1.1 from EC) (NNMT); phenylethanolamine N-methyltransferase (2.1.1.28 from EC) (PNMT); and thioether S-methyltransferase (2.1.1.96 from EC) (TEMT). NNMT catalyzes the N-methylation of nicotinamide and other pyridines to form pyridinium ions. This activity is important for the biotransformation of many drugs and xenobiotic compounds. PNMT catalyzes the last step in catecholamine biosynthesis, the conversion of noradrenalin to adrenalin; and TEMT catalyzes the methylation of dimethyl sulphide into trimethylsulphonium. These three enzymes use S-adenosyl-L-methionine as the methyl donor. They are proteins of 30 to 32 kDa.; GO: 0008168 methyltransferase activity; PDB: 2IIP_C 3ROD_A 2OBF_A 3HCA_B 2ONY_B 3KR1_A 2OPB_B 3KQP_B 2AN4_B 3KQM_A ....
Probab=97.06 E-value=0.00052 Score=58.26 Aligned_cols=76 Identities=14% Similarity=0.136 Sum_probs=54.5
Q ss_pred CC-cceeeechhhhcC--ChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCcc-----
Q 045543 131 LN-GDAILMKLILRNW--DDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEK----- 202 (239)
Q Consensus 131 p~-~D~~~l~~vlH~~--~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~----- 202 (239)
|+ .|+++...+|.-- +-++=.+.++|+.+.|||||.|++....- .. .+ . . |++
T Consensus 156 p~~~D~v~s~fcLE~a~~d~~~y~~al~ni~~lLkpGG~Lil~~~l~-~t-------~Y--~--------v-G~~~F~~l 216 (256)
T PF01234_consen 156 PPKFDCVISSFCLESACKDLDEYRRALRNISSLLKPGGHLILAGVLG-ST-------YY--M--------V-GGHKFPCL 216 (256)
T ss_dssp -SSEEEEEEESSHHHH-SSHHHHHHHHHHHHTTEEEEEEEEEEEESS--S-------EE--E--------E-TTEEEE--
T ss_pred ccchhhhhhhHHHHHHcCCHHHHHHHHHHHHHHcCCCcEEEEEEEcC-ce-------eE--E--------E-CCEecccc
Confidence 44 6999999999864 45667899999999999999999987642 21 00 0 1 222
Q ss_pred ccChhhccHHHHHhhCCCceeeEEE
Q 045543 203 ERTKQEYYGMALTAKNGFKGVNYES 227 (239)
Q Consensus 203 ~rt~~e~~~~~ll~~aGf~~~~~~~ 227 (239)
..+.+.. ++-|+++||.+.+...
T Consensus 217 ~l~ee~v--~~al~~aG~~i~~~~~ 239 (256)
T PF01234_consen 217 PLNEEFV--REALEEAGFDIEDLEK 239 (256)
T ss_dssp -B-HHHH--HHHHHHTTEEEEEEEG
T ss_pred cCCHHHH--HHHHHHcCCEEEeccc
Confidence 2366666 9999999999988774
No 127
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=97.04 E-value=0.0047 Score=53.51 Aligned_cols=98 Identities=21% Similarity=0.188 Sum_probs=63.0
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC----------------------------------Cc----ccccc--ccCC---cc
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK----------------------------------CG----WKMFQ--KILN---GD 134 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~----------------------------------~~----gD~~~--~~p~---~D 134 (239)
.+++.+. .+.++++|||||+|. +. --.|. .++. .|
T Consensus 154 ~~Le~~~--~~g~~vlDvGcGSGILaIAa~kLGA~~v~g~DiDp~AV~aa~eNa~~N~v~~~~~~~~~~~~~~~~~~~~D 231 (300)
T COG2264 154 EALEKLL--KKGKTVLDVGCGSGILAIAAAKLGAKKVVGVDIDPQAVEAARENARLNGVELLVQAKGFLLLEVPENGPFD 231 (300)
T ss_pred HHHHHhh--cCCCEEEEecCChhHHHHHHHHcCCceEEEecCCHHHHHHHHHHHHHcCCchhhhcccccchhhcccCccc
Confidence 4555665 477999999999999 11 01111 2332 27
Q ss_pred eeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHH
Q 045543 135 AILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMAL 214 (239)
Q Consensus 135 ~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~l 214 (239)
+|+. ||| .+-.+++...+.+.++|||+++..-.+ .+ -.+.. .+-
T Consensus 232 vIVA-NIL----A~vl~~La~~~~~~lkpgg~lIlSGIl-~~----------------------------q~~~V--~~a 275 (300)
T COG2264 232 VIVA-NIL----AEVLVELAPDIKRLLKPGGRLILSGIL-ED----------------------------QAESV--AEA 275 (300)
T ss_pred EEEe-hhh----HHHHHHHHHHHHHHcCCCceEEEEeeh-Hh----------------------------HHHHH--HHH
Confidence 7754 454 233568999999999999999876532 11 11233 666
Q ss_pred HhhCCCceeeEEEcCCcee
Q 045543 215 TAKNGFKGVNYESFVCNFY 233 (239)
Q Consensus 215 l~~aGf~~~~~~~~~~~~~ 233 (239)
++++||.++++.......+
T Consensus 276 ~~~~gf~v~~~~~~~eW~~ 294 (300)
T COG2264 276 YEQAGFEVVEVLEREEWVA 294 (300)
T ss_pred HHhCCCeEeEEEecCCEEE
Confidence 7888999888776654444
No 128
>PRK04457 spermidine synthase; Provisional
Probab=97.02 E-value=0.00086 Score=57.28 Aligned_cols=82 Identities=17% Similarity=0.256 Sum_probs=52.0
Q ss_pred CchHHH-HHHHHHHhcccccHHHHHhhccCCCCcceEEEeCCCCCC----------------------------------
Q 045543 77 DSRFNE-VLNTAMLSHNSIVMNRILDYYKGFEKIKQLVDVGGGCGK---------------------------------- 121 (239)
Q Consensus 77 ~~~~~~-~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvGGG~G~---------------------------------- 121 (239)
+|.... .|.++|..... + .++.++|||||||.|.
T Consensus 45 ~P~~l~~~y~~~m~~~l~---------~--~~~~~~vL~IG~G~G~l~~~l~~~~p~~~v~~VEidp~vi~~A~~~f~~~ 113 (262)
T PRK04457 45 DPSELELAYTRAMMGFLL---------F--NPRPQHILQIGLGGGSLAKFIYTYLPDTRQTAVEINPQVIAVARNHFELP 113 (262)
T ss_pred CcccccCHHHHHHHHHHh---------c--CCCCCEEEEECCCHhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHcCCC
Confidence 455443 57777752111 0 2456799999999999
Q ss_pred --------Ccccccc---ccCCc-ceeeechhhhc--CChh-HHHHHHHHHHhhCCCCceEEEE
Q 045543 122 --------CGWKMFQ---KILNG-DAILMKLILRN--WDDE-HCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 122 --------~~gD~~~---~~p~~-D~~~l~~vlH~--~~d~-~~~~iL~~~~~aL~pgg~lli~ 170 (239)
+.+|..+ ..+.. |+|++-. .+. .+.. ....++++|++.|+|||+++|.
T Consensus 114 ~~~~rv~v~~~Da~~~l~~~~~~yD~I~~D~-~~~~~~~~~l~t~efl~~~~~~L~pgGvlvin 176 (262)
T PRK04457 114 ENGERFEVIEADGAEYIAVHRHSTDVILVDG-FDGEGIIDALCTQPFFDDCRNALSSDGIFVVN 176 (262)
T ss_pred CCCCceEEEECCHHHHHHhCCCCCCEEEEeC-CCCCCCccccCcHHHHHHHHHhcCCCcEEEEE
Confidence 2345433 23334 9998742 221 1211 1369999999999999999885
No 129
>KOG1331 consensus Predicted methyltransferase [General function prediction only]
Probab=96.97 E-value=0.0024 Score=54.45 Aligned_cols=90 Identities=14% Similarity=0.184 Sum_probs=61.3
Q ss_pred HHHHHHHhccccc---HHHHHhhccCCCCcceEEEeCCCCCC-------------------------Ccc------cccc
Q 045543 83 VLNTAMLSHNSIV---MNRILDYYKGFEKIKQLVDVGGGCGK-------------------------CGW------KMFQ 128 (239)
Q Consensus 83 ~f~~~m~~~~~~~---~~~~~~~~~~~~~~~~vlDvGGG~G~-------------------------~~g------D~~~ 128 (239)
.|...|..++... -+.+....+..+....++|+|||.|. ..+ |...
T Consensus 17 IYd~ia~~fs~tr~~~Wp~v~qfl~~~~~gsv~~d~gCGngky~~~~p~~~~ig~D~c~~l~~~ak~~~~~~~~~ad~l~ 96 (293)
T KOG1331|consen 17 IYDKIATHFSATRAAPWPMVRQFLDSQPTGSVGLDVGCGNGKYLGVNPLCLIIGCDLCTGLLGGAKRSGGDNVCRADALK 96 (293)
T ss_pred HHHHhhhhccccccCccHHHHHHHhccCCcceeeecccCCcccCcCCCcceeeecchhhhhccccccCCCceeehhhhhc
Confidence 4556665544332 23344444433446889999999998 222 3333
Q ss_pred -ccCC-c-ceeeechhhhcCC-hhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 129 -KILN-G-DAILMKLILRNWD-DEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 129 -~~p~-~-D~~~l~~vlH~~~-d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
+.++ . |..+-..|+|+|+ ...-.++++.+.+.++|||..+|.=.
T Consensus 97 ~p~~~~s~d~~lsiavihhlsT~~RR~~~l~e~~r~lrpgg~~lvyvw 144 (293)
T KOG1331|consen 97 LPFREESFDAALSIAVIHHLSTRERRERALEELLRVLRPGGNALVYVW 144 (293)
T ss_pred CCCCCCccccchhhhhhhhhhhHHHHHHHHHHHHHHhcCCCceEEEEe
Confidence 3443 3 9999999999997 44456899999999999999887543
No 130
>PF09243 Rsm22: Mitochondrial small ribosomal subunit Rsm22; InterPro: IPR015324 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 [, ]. Rsm22 has been identified as a mitochondrial small ribosomal subunit [] and is a methyltransferase. In Schizosaccharomyces pombe (Fission yeast), Rsm22 is tandemly fused to Cox11 (a factor required for copper insertion into cytochrome oxidase) and the two proteins are proteolytically cleaved after import into the mitochondria []. This entry consists of mitochondrial Rsm22 and homologous sequences from bacteria.; GO: 0008168 methyltransferase activity, 0006412 translation
Probab=96.97 E-value=0.0022 Score=55.15 Aligned_cols=43 Identities=9% Similarity=0.272 Sum_probs=35.6
Q ss_pred CcceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCC
Q 045543 132 NGDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVV 176 (239)
Q Consensus 132 ~~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~ 176 (239)
..|+|+++++|-..+++.-..+++++.+.+.+ .|+|+|.-.+.
T Consensus 102 ~~DLvi~s~~L~EL~~~~r~~lv~~LW~~~~~--~LVlVEpGt~~ 144 (274)
T PF09243_consen 102 PDDLVIASYVLNELPSAARAELVRSLWNKTAP--VLVLVEPGTPA 144 (274)
T ss_pred CCcEEEEehhhhcCCchHHHHHHHHHHHhccC--cEEEEcCCChH
Confidence 34999999999999988788899999888776 88888875443
No 131
>TIGR00536 hemK_fam HemK family putative methylases. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. Both E. coli and H. influenzae have two members rather than one. The members from the Mycoplasmas have an additional C-terminal domain.
Probab=96.96 E-value=0.0014 Score=56.56 Aligned_cols=48 Identities=13% Similarity=0.142 Sum_probs=31.9
Q ss_pred CccccccccCC-c-ceeeec-------------hhhhcCCh----------hHHHHHHHHHHhhCCCCceEEE
Q 045543 122 CGWKMFQKILN-G-DAILMK-------------LILRNWDD----------EHCLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 122 ~~gD~~~~~p~-~-D~~~l~-------------~vlH~~~d----------~~~~~iL~~~~~aL~pgg~lli 169 (239)
+.+|++++++. . |++++. .++++.|. +...++++++.+.|+|||.+++
T Consensus 170 ~~~d~~~~~~~~~fDlIvsNPPyi~~~~~~~~~~~~~~eP~~AL~gg~dgl~~~~~ii~~a~~~L~~gG~l~~ 242 (284)
T TIGR00536 170 IQSNLFEPLAGQKIDIIVSNPPYIDEEDLADLPNVVRFEPLLALVGGDDGLNILRQIIELAPDYLKPNGFLVC 242 (284)
T ss_pred EECchhccCcCCCccEEEECCCCCCcchhhcCCcccccCcHHHhcCCCcHHHHHHHHHHHHHHhccCCCEEEE
Confidence 34677776654 3 888763 33332221 2567899999999999997754
No 132
>PF13659 Methyltransf_26: Methyltransferase domain; PDB: 3GJY_A 3LPM_B 2NP6_D 1AQI_B 2ADM_B 2IH2_A 2JG3_A 2IBS_D 2NP7_A 2IBT_A ....
Probab=96.95 E-value=0.00062 Score=50.15 Aligned_cols=49 Identities=10% Similarity=0.059 Sum_probs=33.0
Q ss_pred Ccccccc-c--cCC-c-ceeeechhhhcCC------hhHHHHHHHHHHhhCCCCceEEEE
Q 045543 122 CGWKMFQ-K--ILN-G-DAILMKLILRNWD------DEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 122 ~~gD~~~-~--~p~-~-D~~~l~~vlH~~~------d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
+.+|+++ . .+. . |+|++.--.+... .+....+++++.+.|+|||.++++
T Consensus 55 ~~~D~~~~~~~~~~~~~D~Iv~npP~~~~~~~~~~~~~~~~~~~~~~~~~L~~gG~~~~~ 114 (117)
T PF13659_consen 55 IVGDARDLPEPLPDGKFDLIVTNPPYGPRSGDKAALRRLYSRFLEAAARLLKPGGVLVFI 114 (117)
T ss_dssp EESHHHHHHHTCTTT-EEEEEE--STTSBTT----GGCHHHHHHHHHHHHEEEEEEEEEE
T ss_pred EECchhhchhhccCceeEEEEECCCCccccccchhhHHHHHHHHHHHHHHcCCCeEEEEE
Confidence 4556665 2 343 3 9999877666532 123468999999999999999875
No 133
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=96.89 E-value=0.0023 Score=58.64 Aligned_cols=25 Identities=16% Similarity=0.198 Sum_probs=21.5
Q ss_pred HHHHHHHHHhhCCCCceEEEEeeec
Q 045543 150 CLSLLKNCYEAIPGNGKIIIIDSTT 174 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~d~~~ 174 (239)
-.+||+++.+.|+|||+|+.....+
T Consensus 363 Q~~iL~~a~~~lkpgG~lvystcsi 387 (434)
T PRK14901 363 QAELLESLAPLLKPGGTLVYATCTL 387 (434)
T ss_pred HHHHHHHHHHhcCCCCEEEEEeCCC
Confidence 3689999999999999998877544
No 134
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=96.89 E-value=0.0026 Score=58.48 Aligned_cols=25 Identities=12% Similarity=0.207 Sum_probs=21.3
Q ss_pred HHHHHHHHhhCCCCceEEEEeeecC
Q 045543 151 LSLLKNCYEAIPGNGKIIIIDSTTV 175 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~d~~~~ 175 (239)
.+||+++++.|+|||+|+.......
T Consensus 357 ~~iL~~a~~~lkpgG~lvystcs~~ 381 (445)
T PRK14904 357 AELLDHAASLLKPGGVLVYATCSIE 381 (445)
T ss_pred HHHHHHHHHhcCCCcEEEEEeCCCC
Confidence 4799999999999999999776543
No 135
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=96.73 E-value=0.0041 Score=57.10 Aligned_cols=23 Identities=17% Similarity=0.326 Sum_probs=19.4
Q ss_pred HHHHHHHHhhCCCCceEEEEeee
Q 045543 151 LSLLKNCYEAIPGNGKIIIIDST 173 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~d~~ 173 (239)
..+|+++.+.|+|||+|+.....
T Consensus 359 ~~iL~~a~~~LkpGG~lvystcs 381 (444)
T PRK14902 359 LEILESVAQYLKKGGILVYSTCT 381 (444)
T ss_pred HHHHHHHHHHcCCCCEEEEEcCC
Confidence 57899999999999999876543
No 136
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=96.66 E-value=0.0045 Score=56.56 Aligned_cols=24 Identities=8% Similarity=0.263 Sum_probs=20.8
Q ss_pred HHHHHHHHhhCCCCceEEEEeeec
Q 045543 151 LSLLKNCYEAIPGNGKIIIIDSTT 174 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~d~~~ 174 (239)
.++|+++.+.|+|||++++....+
T Consensus 352 ~~iL~~a~~~LkpGG~lvystcs~ 375 (427)
T PRK10901 352 SEILDALWPLLKPGGTLLYATCSI 375 (427)
T ss_pred HHHHHHHHHhcCCCCEEEEEeCCC
Confidence 589999999999999999877543
No 137
>COG4798 Predicted methyltransferase [General function prediction only]
Probab=96.63 E-value=0.015 Score=47.10 Aligned_cols=81 Identities=12% Similarity=0.076 Sum_probs=53.6
Q ss_pred CCc-ceeeechhhhcC-----ChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCcccc
Q 045543 131 LNG-DAILMKLILRNW-----DDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKER 204 (239)
Q Consensus 131 p~~-D~~~l~~vlH~~-----~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~r 204 (239)
|+. |++.....-|+. ....+.++-+.++++|||||.++|.|.......... |-.. -++ +
T Consensus 120 pq~~d~~~~~~~yhdmh~k~i~~~~A~~vna~vf~~LKPGGv~~V~dH~a~pG~~~~---------dt~~-----~~r-i 184 (238)
T COG4798 120 PQKLDLVPTAQNYHDMHNKNIHPATAAKVNAAVFKALKPGGVYLVEDHRADPGSGLS---------DTIT-----LHR-I 184 (238)
T ss_pred CCcccccccchhhhhhhccccCcchHHHHHHHHHHhcCCCcEEEEEeccccCCCChh---------hhhh-----hcc-c
Confidence 344 777765444443 366788999999999999999999998876643321 1100 112 2
Q ss_pred ChhhccHHHHHhhCCCceeeEEEc
Q 045543 205 TKQEYYGMALTAKNGFKGVNYESF 228 (239)
Q Consensus 205 t~~e~~~~~ll~~aGf~~~~~~~~ 228 (239)
+..-. .+-.+++||+......+
T Consensus 185 ~~a~V--~a~veaaGFkl~aeS~i 206 (238)
T COG4798 185 DPAVV--IAEVEAAGFKLEAESEI 206 (238)
T ss_pred ChHHH--HHHHHhhcceeeeeehh
Confidence 44445 77889999998765443
No 138
>PRK00811 spermidine synthase; Provisional
Probab=96.62 E-value=0.0034 Score=54.20 Aligned_cols=37 Identities=19% Similarity=0.260 Sum_probs=25.1
Q ss_pred ceeeechhhhcCChh--HHHHHHHHHHhhCCCCceEEEE
Q 045543 134 DAILMKLILRNWDDE--HCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 D~~~l~~vlH~~~d~--~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+|++-..-+..+.. ....+++.|++.|+|||.+++.
T Consensus 152 DvIi~D~~dp~~~~~~l~t~ef~~~~~~~L~~gGvlv~~ 190 (283)
T PRK00811 152 DVIIVDSTDPVGPAEGLFTKEFYENCKRALKEDGIFVAQ 190 (283)
T ss_pred cEEEECCCCCCCchhhhhHHHHHHHHHHhcCCCcEEEEe
Confidence 998874332221221 1367899999999999988764
No 139
>PF01135 PCMT: Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2.1.1.77 from EC) (PCMT) [] (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyses the transfer of a methyl group from S-adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerisation of normal L-aspartyl and L-asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process; PDB: 3LBF_A 1DL5_B 1JG3_B 1JG2_A 1JG1_A 1JG4_A 2YXE_A 2PBF_B 1VBF_C 1R18_A ....
Probab=96.58 E-value=0.0021 Score=53.09 Aligned_cols=65 Identities=14% Similarity=0.250 Sum_probs=44.3
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC------------------------------------------CccccccccCC-c
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK------------------------------------------CGWKMFQKILN-G 133 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------------~~gD~~~~~p~-~ 133 (239)
..+++.++ +.+..+|||||+|+|. +.||-....|. +
T Consensus 62 a~~l~~L~-l~pg~~VLeIGtGsGY~aAlla~lvg~~g~Vv~vE~~~~l~~~A~~~l~~~~~~nv~~~~gdg~~g~~~~a 140 (209)
T PF01135_consen 62 ARMLEALD-LKPGDRVLEIGTGSGYQAALLAHLVGPVGRVVSVERDPELAERARRNLARLGIDNVEVVVGDGSEGWPEEA 140 (209)
T ss_dssp HHHHHHTT-C-TT-EEEEES-TTSHHHHHHHHHHSTTEEEEEEESBHHHHHHHHHHHHHHTTHSEEEEES-GGGTTGGG-
T ss_pred HHHHHHHh-cCCCCEEEEecCCCcHHHHHHHHhcCccceEEEECccHHHHHHHHHHHHHhccCceeEEEcchhhccccCC
Confidence 35666777 8888999999999999 56676665553 3
Q ss_pred --ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 134 --DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 --D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|.|++.......+ ....+.|++||+|++-
T Consensus 141 pfD~I~v~~a~~~ip--------~~l~~qL~~gGrLV~p 171 (209)
T PF01135_consen 141 PFDRIIVTAAVPEIP--------EALLEQLKPGGRLVAP 171 (209)
T ss_dssp SEEEEEESSBBSS----------HHHHHTEEEEEEEEEE
T ss_pred CcCEEEEeeccchHH--------HHHHHhcCCCcEEEEE
Confidence 9999988774433 3366678999999984
No 140
>KOG1271 consensus Methyltransferases [General function prediction only]
Probab=96.56 E-value=0.0032 Score=50.46 Aligned_cols=24 Identities=17% Similarity=0.019 Sum_probs=19.3
Q ss_pred cChhhccHHHHHhhCCCceeeEEEcC
Q 045543 204 RTKQEYYGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 204 rt~~e~~~~~ll~~aGf~~~~~~~~~ 229 (239)
.|.+|. .+.++.-||+....++.+
T Consensus 184 ~T~dEL--v~~f~~~~f~~~~tvp~p 207 (227)
T KOG1271|consen 184 FTKDEL--VEEFENFNFEYLSTVPTP 207 (227)
T ss_pred ccHHHH--HHHHhcCCeEEEEeeccc
Confidence 478888 888998889888777664
No 141
>PHA03411 putative methyltransferase; Provisional
Probab=96.55 E-value=0.0064 Score=52.11 Aligned_cols=90 Identities=10% Similarity=0.091 Sum_probs=58.0
Q ss_pred CcceEEEeCCCCCC------------------------------------CccccccccC-Cc-ceeeechhhhcCChhH
Q 045543 108 KIKQLVDVGGGCGK------------------------------------CGWKMFQKIL-NG-DAILMKLILRNWDDEH 149 (239)
Q Consensus 108 ~~~~vlDvGGG~G~------------------------------------~~gD~~~~~p-~~-D~~~l~~vlH~~~d~~ 149 (239)
...+|||+|||+|. +.+|+++... .. |+|++.--++..+.++
T Consensus 64 ~~grVLDLGcGsGilsl~la~r~~~~~V~gVDisp~al~~Ar~n~~~v~~v~~D~~e~~~~~kFDlIIsNPPF~~l~~~d 143 (279)
T PHA03411 64 CTGKVLDLCAGIGRLSFCMLHRCKPEKIVCVELNPEFARIGKRLLPEAEWITSDVFEFESNEKFDVVISNPPFGKINTTD 143 (279)
T ss_pred cCCeEEEcCCCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCcCCEEEECchhhhcccCCCcEEEEcCCccccCchh
Confidence 34699999999998 3567766322 33 9999866665543321
Q ss_pred ------------------HHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccH
Q 045543 150 ------------------CLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYG 211 (239)
Q Consensus 150 ------------------~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~ 211 (239)
..+.++.+...|+|+|.++++ .... | ++ ....+.+||
T Consensus 144 ~~~~~~~~GG~~g~~~l~~~~~l~~v~~~L~p~G~~~~~---yss~---~-------~y----------~~sl~~~~y-- 198 (279)
T PHA03411 144 TKDVFEYTGGEFEFKVMTLGQKFADVGYFIVPTGSAGFA---YSGR---P-------YY----------DGTMKSNKY-- 198 (279)
T ss_pred hhhhhhhccCccccccccHHHHHhhhHheecCCceEEEE---Eecc---c-------cc----------cccCCHHHH--
Confidence 135677778888898877665 1111 1 00 012367888
Q ss_pred HHHHhhCCCce
Q 045543 212 MALTAKNGFKG 222 (239)
Q Consensus 212 ~~ll~~aGf~~ 222 (239)
+.+|+++||..
T Consensus 199 ~~~l~~~g~~~ 209 (279)
T PHA03411 199 LKWSKQTGLVT 209 (279)
T ss_pred HHHHHhcCcEe
Confidence 99999999874
No 142
>KOG3987 consensus Uncharacterized conserved protein DREV/CGI-81 [Function unknown]
Probab=96.52 E-value=0.0047 Score=50.50 Aligned_cols=113 Identities=19% Similarity=0.298 Sum_probs=69.1
Q ss_pred cCCC-CcceEEEeCCCCCC---------------------------CccccccccC---C---cceeeechhhhcCChhH
Q 045543 104 KGFE-KIKQLVDVGGGCGK---------------------------CGWKMFQKIL---N---GDAILMKLILRNWDDEH 149 (239)
Q Consensus 104 ~~~~-~~~~vlDvGGG~G~---------------------------~~gD~~~~~p---~---~D~~~l~~vlH~~~d~~ 149 (239)
|.|. ...+++|+|.|.|. ...+....+. . -|+|.+-++|....+.
T Consensus 107 p~w~~~~~~lLDlGAGdGeit~~m~p~feevyATElS~tMr~rL~kk~ynVl~~~ew~~t~~k~dli~clNlLDRc~~p- 185 (288)
T KOG3987|consen 107 PAWGQEPVTLLDLGAGDGEITLRMAPTFEEVYATELSWTMRDRLKKKNYNVLTEIEWLQTDVKLDLILCLNLLDRCFDP- 185 (288)
T ss_pred CccCCCCeeEEeccCCCcchhhhhcchHHHHHHHHhhHHHHHHHhhcCCceeeehhhhhcCceeehHHHHHHHHhhcCh-
Confidence 3355 36899999999999 2222222111 1 2999999999776665
Q ss_pred HHHHHHHHHhhCCC-CceEEEEeeecCC------CCCCChhhhhhhhhhHHHhhccCCccccC--hhhccHHHHHhhCCC
Q 045543 150 CLSLLKNCYEAIPG-NGKIIIIDSTTVV------IPEATPATREASSIDIIMLMQLSGEKERT--KQEYYGMALTAKNGF 220 (239)
Q Consensus 150 ~~~iL~~~~~aL~p-gg~lli~d~~~~~------~~~~~~~~~~~~~~dl~ml~~~~~g~~rt--~~e~~~~~ll~~aGf 220 (239)
-++|+.++.+|+| +||+++. .++|- +..+.+ .+.... + .. +|+.+. ...+ .++|+++||
T Consensus 186 -~kLL~Di~~vl~psngrviva-LVLP~~hYVE~N~~g~~-~rPdn~-----L-e~-~Gr~~ee~v~~~--~e~lr~~g~ 253 (288)
T KOG3987|consen 186 -FKLLEDIHLVLAPSNGRVIVA-LVLPYMHYVETNTSGLP-LRPDNL-----L-EN-NGRSFEEEVARF--MELLRNCGY 253 (288)
T ss_pred -HHHHHHHHHHhccCCCcEEEE-EEecccceeecCCCCCc-CCchHH-----H-Hh-cCccHHHHHHHH--HHHHHhcCc
Confidence 5999999999999 7988764 22221 111100 011111 1 12 566442 2335 788999999
Q ss_pred ceeeEEEcC
Q 045543 221 KGVNYESFV 229 (239)
Q Consensus 221 ~~~~~~~~~ 229 (239)
++..-.+.|
T Consensus 254 ~veawTrlP 262 (288)
T KOG3987|consen 254 RVEAWTRLP 262 (288)
T ss_pred hhhhhhcCC
Confidence 987655543
No 143
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=96.48 E-value=0.0045 Score=54.42 Aligned_cols=65 Identities=14% Similarity=0.317 Sum_probs=42.4
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC------------------------------------------CccccccccCC---
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK------------------------------------------CGWKMFQKILN--- 132 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------------~~gD~~~~~p~--- 132 (239)
.+++..+ .++..+|||||||+|. +.+|..+..+.
T Consensus 71 ~ll~~L~-i~~g~~VLDIG~GtG~~a~~LA~~~~~~g~VvgVDis~~~l~~Ar~~l~~~g~~nV~~i~gD~~~~~~~~~~ 149 (322)
T PRK13943 71 LFMEWVG-LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFVCGDGYYGVPEFAP 149 (322)
T ss_pred HHHHhcC-CCCCCEEEEEeCCccHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHHHHcCCCcEEEEeCChhhcccccCC
Confidence 4445555 6677899999999997 23344332221
Q ss_pred cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEe
Q 045543 133 GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 133 ~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
.|+|++...+++. ...+.+.|+|||++++..
T Consensus 150 fD~Ii~~~g~~~i--------p~~~~~~LkpgG~Lvv~~ 180 (322)
T PRK13943 150 YDVIFVTVGVDEV--------PETWFTQLKEGGRVIVPI 180 (322)
T ss_pred ccEEEECCchHHh--------HHHHHHhcCCCCEEEEEe
Confidence 2777776554433 345677899999998853
No 144
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=96.46 E-value=0.0072 Score=51.61 Aligned_cols=24 Identities=13% Similarity=0.371 Sum_probs=20.1
Q ss_pred HHHHHHHHhhCCCCceEEEEeeec
Q 045543 151 LSLLKNCYEAIPGNGKIIIIDSTT 174 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~d~~~ 174 (239)
.+||+++.+.|+|||+|+.....+
T Consensus 179 ~~iL~~a~~~lkpgG~lvYstcs~ 202 (264)
T TIGR00446 179 KELIDSAFDALKPGGVLVYSTCSL 202 (264)
T ss_pred HHHHHHHHHhcCCCCEEEEEeCCC
Confidence 569999999999999998766543
No 145
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=96.44 E-value=0.0084 Score=49.22 Aligned_cols=67 Identities=13% Similarity=0.241 Sum_probs=51.0
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC---------------------------------------CccccccccCC-c--c
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK---------------------------------------CGWKMFQKILN-G--D 134 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~---------------------------------------~~gD~~~~~p~-~--D 134 (239)
..+++.++ ++...+||+||+|+|- +.||=...+|+ + |
T Consensus 62 A~m~~~L~-~~~g~~VLEIGtGsGY~aAvla~l~~~V~siEr~~~L~~~A~~~L~~lg~~nV~v~~gDG~~G~~~~aPyD 140 (209)
T COG2518 62 ARMLQLLE-LKPGDRVLEIGTGSGYQAAVLARLVGRVVSIERIEELAEQARRNLETLGYENVTVRHGDGSKGWPEEAPYD 140 (209)
T ss_pred HHHHHHhC-CCCCCeEEEECCCchHHHHHHHHHhCeEEEEEEcHHHHHHHHHHHHHcCCCceEEEECCcccCCCCCCCcC
Confidence 45566777 8889999999999998 45666665664 4 9
Q ss_pred eeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 135 AILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 135 ~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
.|+.....-..|+ .+.+.|+|||++++-..
T Consensus 141 ~I~Vtaaa~~vP~--------~Ll~QL~~gGrlv~PvG 170 (209)
T COG2518 141 RIIVTAAAPEVPE--------ALLDQLKPGGRLVIPVG 170 (209)
T ss_pred EEEEeeccCCCCH--------HHHHhcccCCEEEEEEc
Confidence 9998887755553 45678999999999654
No 146
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=96.44 E-value=0.0071 Score=55.38 Aligned_cols=24 Identities=13% Similarity=0.357 Sum_probs=20.2
Q ss_pred HHHHHHHHhhCCCCceEEEEeeec
Q 045543 151 LSLLKNCYEAIPGNGKIIIIDSTT 174 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~d~~~ 174 (239)
.+||+++++.|+|||+|+.....+
T Consensus 346 ~~iL~~a~~~LkpGG~LvYsTCs~ 369 (431)
T PRK14903 346 LRIVSQAWKLLEKGGILLYSTCTV 369 (431)
T ss_pred HHHHHHHHHhcCCCCEEEEEECCC
Confidence 678999999999999987766544
No 147
>TIGR00417 speE spermidine synthase. the SpeE subunit of spermidine synthase catalysesthe reaction (putrescine + S-adenosylmethioninamine = spermidine + 5'-methylthioadenosine) and is involved in polyamine biosynthesis and in the biosynthesis of spermidine from arganine. The region between residues 77 and 120 of the seed alignment is thought to be involved in binding to decarboxylated SAM.
Probab=96.39 E-value=0.0049 Score=52.80 Aligned_cols=37 Identities=14% Similarity=0.085 Sum_probs=26.5
Q ss_pred ceeeechhhhcCChhH--HHHHHHHHHhhCCCCceEEEE
Q 045543 134 DAILMKLILRNWDDEH--CLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~--~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+|++...-+.-+... ....++++++.|+|||.+++.
T Consensus 147 DvIi~D~~~~~~~~~~l~~~ef~~~~~~~L~pgG~lv~~ 185 (270)
T TIGR00417 147 DVIIVDSTDPVGPAETLFTKEFYELLKKALNEDGIFVAQ 185 (270)
T ss_pred cEEEEeCCCCCCcccchhHHHHHHHHHHHhCCCcEEEEc
Confidence 8888765432222222 468899999999999998875
No 148
>TIGR03704 PrmC_rel_meth putative protein-(glutamine-N5) methyltransferase, unknown substrate-specific. This protein family is closely related to two different families of protein-(glutamine-N5) methyltransferase. The first is PrmB, which modifies ribosomal protein L3 in some bacteria. The second is PrmC (HemK), which modifies peptide chain release factors 1 and 2 in most bacteria and also in eukaryotes. The glutamine side chain-binding motif NPPY shared by PrmB and PrmC is N[VAT]PY in this family. The protein substrate is unknown.
Probab=96.36 E-value=0.012 Score=49.88 Aligned_cols=21 Identities=5% Similarity=0.134 Sum_probs=17.1
Q ss_pred HHHHHHHHHhhCCCCceEEEE
Q 045543 150 CLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~ 170 (239)
.+.+++++.+.|+|||++++.
T Consensus 195 ~~~i~~~a~~~L~~gG~l~l~ 215 (251)
T TIGR03704 195 LRRVAAGAPDWLAPGGHLLVE 215 (251)
T ss_pred HHHHHHHHHHhcCCCCEEEEE
Confidence 358888888999999988764
No 149
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=96.36 E-value=0.0067 Score=42.71 Aligned_cols=55 Identities=18% Similarity=0.206 Sum_probs=43.7
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C--CCCCCeEecChhhHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A--GDDRRLQRLAPVAKY 62 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~--~~~~~~y~~t~~s~~ 62 (239)
.|.+.|.+.+ ++.|+.|||+.+|+ +...+.|+|+.|... . ...++.|.+++....
T Consensus 9 ~Il~~l~~~~--~~~t~~~ia~~l~i----~~~tv~r~l~~L~~~g~l~~~~~~~~y~l~~~~~~ 67 (91)
T smart00346 9 AVLRALAEEP--GGLTLAELAERLGL----SKSTAHRLLNTLQELGYVEQDGQNGRYRLGPKVLE 67 (91)
T ss_pred HHHHHHHhCC--CCcCHHHHHHHhCC----CHHHHHHHHHHHHHCCCeeecCCCCceeecHHHHH
Confidence 4677787742 58999999999999 999999999999887 2 234678988876543
No 150
>PLN02366 spermidine synthase
Probab=96.30 E-value=0.0071 Score=52.89 Aligned_cols=37 Identities=14% Similarity=0.081 Sum_probs=24.3
Q ss_pred ceeeechhhhcCChh--HHHHHHHHHHhhCCCCceEEEE
Q 045543 134 DAILMKLILRNWDDE--HCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 D~~~l~~vlH~~~d~--~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+|++-..-+.-+.. -...++++++++|+|||.+++.
T Consensus 167 DvIi~D~~dp~~~~~~L~t~ef~~~~~~~L~pgGvlv~q 205 (308)
T PLN02366 167 DAIIVDSSDPVGPAQELFEKPFFESVARALRPGGVVCTQ 205 (308)
T ss_pred CEEEEcCCCCCCchhhhhHHHHHHHHHHhcCCCcEEEEC
Confidence 888763322211111 1457899999999999988663
No 151
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=96.22 E-value=0.0085 Score=55.96 Aligned_cols=20 Identities=30% Similarity=0.486 Sum_probs=17.1
Q ss_pred HHHHHHHHHhhCCCCceEEE
Q 045543 150 CLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli 169 (239)
-++|++++.+.|+|||++++
T Consensus 248 ~~~il~~a~~~L~~gG~l~l 267 (506)
T PRK01544 248 YFIIAENAKQFLKPNGKIIL 267 (506)
T ss_pred HHHHHHHHHHhccCCCEEEE
Confidence 45788999999999998875
No 152
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=96.20 E-value=0.0079 Score=47.66 Aligned_cols=24 Identities=17% Similarity=0.404 Sum_probs=20.1
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
..+++.++ +.+..+++|+|||.|.
T Consensus 3 ~~i~~~~~-~~~~~~vLEiG~G~G~ 26 (169)
T smart00650 3 DKIVRAAN-LRPGDTVLEIGPGKGA 26 (169)
T ss_pred HHHHHhcC-CCCcCEEEEECCCccH
Confidence 45677777 7777899999999999
No 153
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=96.19 E-value=0.0017 Score=41.19 Aligned_cols=39 Identities=21% Similarity=0.382 Sum_probs=33.3
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.|.+.|++++ +++|+.|||+++|+ +...+.|+|+.|+..
T Consensus 7 ~iL~~l~~~~--~~~t~~eia~~~gl----~~stv~r~L~tL~~~ 45 (52)
T PF09339_consen 7 RILEALAESG--GPLTLSEIARALGL----PKSTVHRLLQTLVEE 45 (52)
T ss_dssp HHHHCHHCTB--SCEEHHHHHHHHTS-----HHHHHHHHHHHHHT
T ss_pred HHHHHHHcCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 4677888765 67899999999999 999999999999876
No 154
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=96.19 E-value=0.029 Score=50.98 Aligned_cols=57 Identities=14% Similarity=0.081 Sum_probs=33.7
Q ss_pred HHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEEEc-
Q 045543 150 CLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYESF- 228 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~- 228 (239)
-++|++.+.+.|+|||.+++ |.-. + ..++. .+++++.||..+++.+-
T Consensus 360 yr~Ii~~a~~~LkpgG~lil-EiG~--~---------------------------Q~e~V--~~ll~~~Gf~~v~v~kDl 407 (423)
T PRK14966 360 IRTLAQGAPDRLAEGGFLLL-EHGF--D---------------------------QGAAV--RGVLAENGFSGVETLPDL 407 (423)
T ss_pred HHHHHHHHHHhcCCCcEEEE-EECc--c---------------------------HHHHH--HHHHHHCCCcEEEEEEcC
Confidence 34677777788888887653 2210 0 11244 77788889887776553
Q ss_pred CCceeEEEEE
Q 045543 229 VCNFYIMEFI 238 (239)
Q Consensus 229 ~~~~~vie~~ 238 (239)
.+...++.++
T Consensus 408 ~G~dR~v~~~ 417 (423)
T PRK14966 408 AGLDRVTLGK 417 (423)
T ss_pred CCCcEEEEEE
Confidence 3444444443
No 155
>PF05185 PRMT5: PRMT5 arginine-N-methyltransferase; InterPro: IPR007857 The human homologue of Saccharomyces cerevisiae Skb1 (Shk1 kinase-binding protein 1) is a protein methyltransferase []. These proteins seem to play a role in Jak signalling.; GO: 0008168 methyltransferase activity, 0005737 cytoplasm; PDB: 2Y1W_C 2Y1X_D 2V7E_B 2V74_H 3R0Q_G 3B3F_B 3B3J_A 3B3G_A 3UA3_A 3UA4_B ....
Probab=96.17 E-value=0.0066 Score=55.78 Aligned_cols=90 Identities=22% Similarity=0.253 Sum_probs=54.2
Q ss_pred ccccccCchHHHHHHHHHHhcccccHHHHHhhccCC---CCcceEEEeCCCCCC--------------------------
Q 045543 71 YEHAGLDSRFNEVLNTAMLSHNSIVMNRILDYYKGF---EKIKQLVDVGGGCGK-------------------------- 121 (239)
Q Consensus 71 ~~~l~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~---~~~~~vlDvGGG~G~-------------------------- 121 (239)
|+.+++||..-+.|.+|+.. .+.+....- .+...|+|||+|+|.
T Consensus 153 Ye~fE~D~vKY~~Ye~AI~~-------al~D~~~~~~~~~~~~vVldVGAGrGpL~~~al~A~~~~~~a~~VyAVEkn~~ 225 (448)
T PF05185_consen 153 YEVFEKDPVKYDQYERAIEE-------ALKDRVRKNSYSSKDKVVLDVGAGRGPLSMFALQAGARAGGAVKVYAVEKNPN 225 (448)
T ss_dssp HHHHCC-HHHHHHHHHHHHH-------HHHHHHTTS-SEETT-EEEEES-TTSHHHHHHHHTTHHHCCESEEEEEESSTH
T ss_pred HhhHhcCHHHHHHHHHHHHH-------HHHhhhhhccccccceEEEEeCCCccHHHHHHHHHHHHhCCCeEEEEEcCCHh
Confidence 44556777777777777642 233332211 135789999999999
Q ss_pred --------------------Ccccccc-ccCC-cceeeechhhhcCC-hhHHHHHHHHHHhhCCCCceEE
Q 045543 122 --------------------CGWKMFQ-KILN-GDAILMKLILRNWD-DEHCLSLLKNCYEAIPGNGKII 168 (239)
Q Consensus 122 --------------------~~gD~~~-~~p~-~D~~~l~~vlH~~~-d~~~~~iL~~~~~aL~pgg~ll 168 (239)
+.+|+.+ ..|+ .|+++.-.. -.+. .|-....|....+-|+|||.++
T Consensus 226 A~~~l~~~v~~n~w~~~V~vi~~d~r~v~lpekvDIIVSElL-Gsfg~nEl~pE~Lda~~rfLkp~Gi~I 294 (448)
T PF05185_consen 226 AVVTLQKRVNANGWGDKVTVIHGDMREVELPEKVDIIVSELL-GSFGDNELSPECLDAADRFLKPDGIMI 294 (448)
T ss_dssp HHHHHHHHHHHTTTTTTEEEEES-TTTSCHSS-EEEEEE----BTTBTTTSHHHHHHHGGGGEEEEEEEE
T ss_pred HHHHHHHHHHhcCCCCeEEEEeCcccCCCCCCceeEEEEecc-CCccccccCHHHHHHHHhhcCCCCEEe
Confidence 6677776 6675 598875444 2333 3445567888889999998654
No 156
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=96.10 E-value=0.0068 Score=51.17 Aligned_cols=56 Identities=18% Similarity=0.214 Sum_probs=46.2
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CCCCCCeEecChhhHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AGDDRRLQRLAPVAKYV 63 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~~~~~~y~~t~~s~~l 63 (239)
.|.+.+++.+ +++|+.|||+++|+ +...+.|+|..|+.. .+.++++|.+++....|
T Consensus 13 ~IL~~l~~~~--~~~~l~eia~~lgl----pksT~~RlL~tL~~~G~l~~~~~~Y~lG~~~~~l 70 (248)
T TIGR02431 13 AVIEAFGAER--PRLTLTDVAEATGL----TRAAARRFLLTLVELGYVTSDGRLFWLTPRVLRL 70 (248)
T ss_pred HHHHHHhcCC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeCCCEEEecHHHHHH
Confidence 4667777643 68999999999999 999999999999998 44557899999876554
No 157
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=96.01 E-value=0.022 Score=47.78 Aligned_cols=33 Identities=12% Similarity=0.167 Sum_probs=23.8
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEe
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
|++++- -+.+.-..++..+.+.|+|||.|++-+
T Consensus 146 D~VfiD-----a~k~~y~~~~~~~~~ll~~GG~ii~dn 178 (234)
T PLN02781 146 DFAFVD-----ADKPNYVHFHEQLLKLVKVGGIIAFDN 178 (234)
T ss_pred CEEEEC-----CCHHHHHHHHHHHHHhcCCCeEEEEEc
Confidence 887763 333455688999999999999765533
No 158
>KOG1541 consensus Predicted protein carboxyl methylase [General function prediction only]
Probab=95.98 E-value=0.014 Score=48.26 Aligned_cols=70 Identities=13% Similarity=0.294 Sum_probs=44.8
Q ss_pred HhhccCCCC--cceEEEeCCCCCC-----------------------------Cccccc-----cccC--Cc--ceeeec
Q 045543 100 LDYYKGFEK--IKQLVDVGGGCGK-----------------------------CGWKMF-----QKIL--NG--DAILMK 139 (239)
Q Consensus 100 ~~~~~~~~~--~~~vlDvGGG~G~-----------------------------~~gD~~-----~~~p--~~--D~~~l~ 139 (239)
++.++ +++ ...|||||||+|. +.||+. +.+| .| |-++.-
T Consensus 41 LELLa-lp~~~~~~iLDIGCGsGLSg~vL~~~Gh~wiGvDiSpsML~~a~~~e~egdlil~DMG~GlpfrpGtFDg~ISI 119 (270)
T KOG1541|consen 41 LELLA-LPGPKSGLILDIGCGSGLSGSVLSDSGHQWIGVDISPSMLEQAVERELEGDLILCDMGEGLPFRPGTFDGVISI 119 (270)
T ss_pred HHHhh-CCCCCCcEEEEeccCCCcchheeccCCceEEeecCCHHHHHHHHHhhhhcCeeeeecCCCCCCCCCccceEEEe
Confidence 33444 444 7899999999998 456654 3333 44 655543
Q ss_pred hhh----hc-----CChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 140 LIL----RN-----WDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 140 ~vl----H~-----~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
..+ |. .+......++..++.+|++|+|-+..
T Consensus 120 SAvQWLcnA~~s~~~P~~Rl~~FF~tLy~~l~rg~raV~Q 159 (270)
T KOG1541|consen 120 SAVQWLCNADKSLHVPKKRLLRFFGTLYSCLKRGARAVLQ 159 (270)
T ss_pred eeeeeecccCccccChHHHHHHHhhhhhhhhccCceeEEE
Confidence 333 21 13334456688899999999998764
No 159
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=95.95 E-value=0.018 Score=48.60 Aligned_cols=21 Identities=10% Similarity=0.320 Sum_probs=17.9
Q ss_pred HHHHHHHHHhhCCCCceEEEE
Q 045543 150 CLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~ 170 (239)
-..+++.+++.|+|||++.++
T Consensus 149 le~~i~~a~~~lk~~G~l~~V 169 (248)
T COG4123 149 LEDLIRAAAKLLKPGGRLAFV 169 (248)
T ss_pred HHHHHHHHHHHccCCCEEEEE
Confidence 457889999999999999885
No 160
>KOG1500 consensus Protein arginine N-methyltransferase CARM1 [Posttranslational modification, protein turnover, chaperones; Transcription]
Probab=95.77 E-value=0.021 Score=49.98 Aligned_cols=70 Identities=24% Similarity=0.311 Sum_probs=44.0
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC----------------------------------------Ccccccc-ccCCc-ce
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK----------------------------------------CGWKMFQ-KILNG-DA 135 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~----------------------------------------~~gD~~~-~~p~~-D~ 135 (239)
.+++.-.+|.+ +.|||||+|+|. ++|..-+ ++|+. |+
T Consensus 168 Ail~N~sDF~~-kiVlDVGaGSGILS~FAaqAGA~~vYAvEAS~MAqyA~~Lv~~N~~~~rItVI~GKiEdieLPEk~Dv 246 (517)
T KOG1500|consen 168 AILENHSDFQD-KIVLDVGAGSGILSFFAAQAGAKKVYAVEASEMAQYARKLVASNNLADRITVIPGKIEDIELPEKVDV 246 (517)
T ss_pred HHHhcccccCC-cEEEEecCCccHHHHHHHHhCcceEEEEehhHHHHHHHHHHhcCCccceEEEccCccccccCchhccE
Confidence 44444332554 789999999998 5555544 67764 98
Q ss_pred eeechhhhcCChhHHHHHHHHHHhhCCCCceEE
Q 045543 136 ILMKLILRNWDDEHCLSLLKNCYEAIPGNGKII 168 (239)
Q Consensus 136 ~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~ll 168 (239)
++.--.=..+-.+....---.+++-|+|.|+.+
T Consensus 247 iISEPMG~mL~NERMLEsYl~Ark~l~P~GkMf 279 (517)
T KOG1500|consen 247 IISEPMGYMLVNERMLESYLHARKWLKPNGKMF 279 (517)
T ss_pred EEeccchhhhhhHHHHHHHHHHHhhcCCCCccc
Confidence 875433222333433333445679999998765
No 161
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=95.73 E-value=0.032 Score=47.06 Aligned_cols=84 Identities=15% Similarity=0.218 Sum_probs=58.6
Q ss_pred HHHHHHhcccc----cHHHHHhhccCCCCcceEEEeCCCCCC--------------------------------------
Q 045543 84 LNTAMLSHNSI----VMNRILDYYKGFEKIKQLVDVGGGCGK-------------------------------------- 121 (239)
Q Consensus 84 f~~~m~~~~~~----~~~~~~~~~~~~~~~~~vlDvGGG~G~-------------------------------------- 121 (239)
|...|...+.. .+..|+.... ..+..+|+|.|-|+|.
T Consensus 67 ~~~~~~R~tQiIyPKD~~~I~~~~g-i~pg~rVlEAGtGSG~lt~~La~~vg~~G~v~tyE~r~d~~k~A~~Nl~~~~l~ 145 (256)
T COG2519 67 YLLSMKRRTQIIYPKDAGYIVARLG-ISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGLG 145 (256)
T ss_pred HHHhCcCCCceecCCCHHHHHHHcC-CCCCCEEEEcccCchHHHHHHHHhhCCCceEEEEEecHHHHHHHHHHHHHhccc
Confidence 33336555543 2556777776 8999999999999999
Q ss_pred -----Cccccccc-cCCc-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecC
Q 045543 122 -----CGWKMFQK-ILNG-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTV 175 (239)
Q Consensus 122 -----~~gD~~~~-~p~~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~ 175 (239)
..+|..+. .++. |++++ |.+|+- ..|.++.++|+|||.+++.-++.+
T Consensus 146 d~v~~~~~Dv~~~~~~~~vDav~L-----Dmp~PW--~~le~~~~~Lkpgg~~~~y~P~ve 199 (256)
T COG2519 146 DRVTLKLGDVREGIDEEDVDAVFL-----DLPDPW--NVLEHVSDALKPGGVVVVYSPTVE 199 (256)
T ss_pred cceEEEeccccccccccccCEEEE-----cCCChH--HHHHHHHHHhCCCcEEEEEcCCHH
Confidence 23454442 2222 66654 777774 889999999999999998755443
No 162
>PRK11569 transcriptional repressor IclR; Provisional
Probab=95.72 E-value=0.015 Score=49.94 Aligned_cols=56 Identities=14% Similarity=0.116 Sum_probs=45.9
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C--CCCCCeEecChhhHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A--GDDRRLQRLAPVAKYV 63 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~--~~~~~~y~~t~~s~~l 63 (239)
.|.+.|++.. +++|+.|||+++|+ +...+.|+|..|+.. . ..+.++|++.+....|
T Consensus 32 ~IL~~l~~~~--~~~~lseia~~lgl----pksTv~RlL~tL~~~G~l~~~~~~~~Y~lG~~l~~L 91 (274)
T PRK11569 32 KLLEWIAESN--GSVALTELAQQAGL----PNSTTHRLLTTMQQQGFVRQVGELGHWAIGAHAFIV 91 (274)
T ss_pred HHHHHHHhCC--CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEcCCCCeEecCHHHHHH
Confidence 4677777643 68999999999999 999999999999998 3 2356899998876554
No 163
>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]
Probab=95.71 E-value=0.062 Score=42.64 Aligned_cols=78 Identities=15% Similarity=0.262 Sum_probs=64.8
Q ss_pred cHHHHHhhccCCCCcceEEEeCCCCCC-------------------------------------Ccccccc-c-----cC
Q 045543 95 VMNRILDYYKGFEKIKQLVDVGGGCGK-------------------------------------CGWKMFQ-K-----IL 131 (239)
Q Consensus 95 ~~~~~~~~~~~~~~~~~vlDvGGG~G~-------------------------------------~~gD~~~-~-----~p 131 (239)
.++..+...+ |++..-|+.+|.|+|. +.||.|. . .+
T Consensus 36 lA~~M~s~I~-pesglpVlElGPGTGV~TkaIL~~gv~~~~L~~iE~~~dF~~~L~~~~p~~~ii~gda~~l~~~l~e~~ 114 (194)
T COG3963 36 LARKMASVID-PESGLPVLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLNQLYPGVNIINGDAFDLRTTLGEHK 114 (194)
T ss_pred HHHHHHhccC-cccCCeeEEEcCCccHhHHHHHhcCCCccceEEEEeCHHHHHHHHHhCCCccccccchhhHHHHHhhcC
Confidence 3667777888 9999999999999999 6677664 2 22
Q ss_pred -C-cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeee
Q 045543 132 -N-GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDST 173 (239)
Q Consensus 132 -~-~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~ 173 (239)
+ -|.++..-=+-+++-....+||+++..-|++||.++-..+-
T Consensus 115 gq~~D~viS~lPll~~P~~~~iaile~~~~rl~~gg~lvqftYg 158 (194)
T COG3963 115 GQFFDSVISGLPLLNFPMHRRIAILESLLYRLPAGGPLVQFTYG 158 (194)
T ss_pred CCeeeeEEeccccccCcHHHHHHHHHHHHHhcCCCCeEEEEEec
Confidence 2 39999888888999999999999999999999998887664
No 164
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=95.64 E-value=0.017 Score=48.90 Aligned_cols=58 Identities=17% Similarity=0.263 Sum_probs=45.9
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CC--CCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AG--DDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~--~~~~~y~~t~~s~~l~ 64 (239)
|.|.+.|++.+ .++|+.|||+++|+ ++..+.|+|..|+.. .+ .++++|.+++-.-.|-
T Consensus 7 l~iL~~l~~~~--~~l~l~ela~~~gl----pksT~~RlL~tL~~~G~v~~d~~~g~Y~Lg~~~~~lg 68 (246)
T COG1414 7 LAILDLLAEGP--GGLSLAELAERLGL----PKSTVHRLLQTLVELGYVEQDPEDGRYRLGPRLLELG 68 (246)
T ss_pred HHHHHHHHhCC--CCCCHHHHHHHhCc----CHHHHHHHHHHHHHCCCEEEcCCCCcEeehHHHHHHH
Confidence 35778888733 45779999999999 999999999999998 32 3357899998765543
No 165
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=95.55 E-value=0.019 Score=49.18 Aligned_cols=56 Identities=13% Similarity=0.134 Sum_probs=45.6
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C--CCCCCeEecChhhHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A--GDDRRLQRLAPVAKYV 63 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~--~~~~~~y~~t~~s~~l 63 (239)
.|.+.|++++ +++|+.|||+++|+ +...+.|+|..|+.. . ....++|.+++-...|
T Consensus 29 ~IL~~~~~~~--~~~tl~eIa~~lgl----pkStv~RlL~tL~~~G~l~~~~~~~~Y~lG~~l~~L 88 (271)
T PRK10163 29 AILQYLEKSG--GSSSVSDISLNLDL----PLSTTFRLLKVLQAADFVYQDSQLGWWHIGLGVFNV 88 (271)
T ss_pred HHHHHHHhCC--CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEcCCCCeEEecHHHHHH
Confidence 4677787654 68999999999999 999999999999998 2 3357889998776544
No 166
>PRK01581 speE spermidine synthase; Validated
Probab=95.54 E-value=0.019 Score=51.14 Aligned_cols=21 Identities=10% Similarity=0.151 Sum_probs=18.1
Q ss_pred HHHHHHHHHhhCCCCceEEEE
Q 045543 150 CLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~ 170 (239)
...+++.|++.|+|||.+++.
T Consensus 247 T~EFy~~~~~~LkPgGV~V~Q 267 (374)
T PRK01581 247 TSELFARIATFLTEDGAFVCQ 267 (374)
T ss_pred HHHHHHHHHHhcCCCcEEEEe
Confidence 357899999999999988775
No 167
>PRK03612 spermidine synthase; Provisional
Probab=95.45 E-value=0.024 Score=53.24 Aligned_cols=20 Identities=5% Similarity=0.255 Sum_probs=17.4
Q ss_pred HHHHHHHHhhCCCCceEEEE
Q 045543 151 LSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~ 170 (239)
..+++++++.|+|||++++.
T Consensus 395 ~ef~~~~~~~L~pgG~lv~~ 414 (521)
T PRK03612 395 VEFYRLLKRRLAPDGLLVVQ 414 (521)
T ss_pred HHHHHHHHHhcCCCeEEEEe
Confidence 36899999999999998875
No 168
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=95.34 E-value=0.022 Score=48.52 Aligned_cols=57 Identities=9% Similarity=0.052 Sum_probs=46.2
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C--CCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A--GDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~--~~~~~~y~~t~~s~~l~ 64 (239)
.|.+.|.+++ +++|+.|||+++|+ +...+.|+|+.|... . ..++++|++++....|.
T Consensus 15 ~iL~~l~~~~--~~ls~~eia~~lgl----~kstv~RlL~tL~~~g~v~~~~~~~~Y~Lg~~~~~l~ 75 (263)
T PRK09834 15 MVLRALNRLD--GGATVGLLAELTGL----HRTTVRRLLETLQEEGYVRRSASDDSFRLTLKVRQLS 75 (263)
T ss_pred HHHHHHHhcC--CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEecCCCcEEEcHHHHHHH
Confidence 4677787653 57999999999999 999999999999998 2 23568899998765553
No 169
>PF06859 Bin3: Bicoid-interacting protein 3 (Bin3); InterPro: IPR010675 This entry represents a conserved region of approximately 120 residues within eukaryotic Bicoid-interacting protein 3 (Bin3). Bin3, which shows similarity to a number of protein methyltransferases that modify RNA-binding proteins, interacts with Bicoid, which itself directs pattern formation in the early Drosophila embryo. The interaction might allow Bicoid to switch between its dual roles in transcription and translation []. Note that proteins of the entry contain a conserved HLN motif.; GO: 0008168 methyltransferase activity; PDB: 3G07_B.
Probab=95.33 E-value=0.0082 Score=44.10 Aligned_cols=85 Identities=16% Similarity=0.273 Sum_probs=43.9
Q ss_pred ceeeechh---hh-cCChhHHHHHHHHHHhhCCCCceEEEEee-ecCCCCCCChhhhhhhhhhHHHhhccCCccccChhh
Q 045543 134 DAILMKLI---LR-NWDDEHCLSLLKNCYEAIPGNGKIIIIDS-TTVVIPEATPATREASSIDIIMLMQLSGEKERTKQE 208 (239)
Q Consensus 134 D~~~l~~v---lH-~~~d~~~~~iL~~~~~aL~pgg~lli~d~-~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e 208 (239)
|+|++-.| +| +|.|+-.+.+++++++.|+|||++++ |+ -...-. + ..-+.-.+..++ ..-...+++
T Consensus 3 DvilclSVtkWIHLn~GD~Gl~~~f~~~~~~L~pGG~lil-EpQ~w~sY~------~-~~~~~~~~~~n~-~~i~lrP~~ 73 (110)
T PF06859_consen 3 DVILCLSVTKWIHLNWGDEGLKRFFRRIYSLLRPGGILIL-EPQPWKSYK------K-AKRLSEEIRENY-KSIKLRPDQ 73 (110)
T ss_dssp EEEEEES-HHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEE-E---HHHHH------T-TTTS-HHHHHHH-HH----GGG
T ss_pred cEEEEEEeeEEEEecCcCHHHHHHHHHHHHhhCCCCEEEE-eCCCcHHHH------H-HhhhhHHHHhHH-hceEEChHH
Confidence 66666544 34 78999999999999999999998866 32 111000 0 000000111111 222345567
Q ss_pred ccHHHHHhh--CCCceeeEEEcC
Q 045543 209 YYGMALTAK--NGFKGVNYESFV 229 (239)
Q Consensus 209 ~~~~~ll~~--aGf~~~~~~~~~ 229 (239)
+ .++|.+ .||+.++....+
T Consensus 74 F--~~~L~~~evGF~~~e~~~~~ 94 (110)
T PF06859_consen 74 F--EDYLLEPEVGFSSVEELGVP 94 (110)
T ss_dssp H--HHHHTSTTT---EEEEE---
T ss_pred H--HHHHHhcccceEEEEEcccC
Confidence 8 887877 699998866553
No 170
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=95.25 E-value=0.025 Score=48.03 Aligned_cols=56 Identities=9% Similarity=0.127 Sum_probs=45.1
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CC--CCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AG--DDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~--~~~~~y~~t~~s~~l~ 64 (239)
.|.+.|++. +++|+.|||+++|+ +...+.|+|+.|+.. .+ .+.++|.+++....|-
T Consensus 18 ~IL~~l~~~---~~l~l~eia~~lgl----~kstv~Rll~tL~~~G~l~~~~~~~~Y~lG~~~~~lg 77 (257)
T PRK15090 18 GILQALGEE---REIGITELSQRVMM----SKSTVYRFLQTMKTLGYVAQEGESEKYSLTLKLFELG 77 (257)
T ss_pred HHHHHhhcC---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEcCCCCcEEecHHHHHHH
Confidence 456677663 58999999999999 999999999999998 32 3568899998765543
No 171
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=95.15 E-value=0.038 Score=37.07 Aligned_cols=50 Identities=18% Similarity=0.294 Sum_probs=38.8
Q ss_pred cchHhHhcCCCC-CCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C---CCCCCeEecCh
Q 045543 3 VFEIMAKAGPRA-KLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A---GDDRRLQRLAP 58 (239)
Q Consensus 3 ifd~L~~~g~~~-~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~---~~~~~~y~~t~ 58 (239)
|...|.++| + ++|+.|||+++|+ +...+.|+|..|... . ...++.|..+.
T Consensus 11 IL~~L~~~g--~~~~ta~eLa~~lgl----~~~~v~r~L~~L~~~G~V~~~~~~~~~W~i~~ 66 (68)
T smart00550 11 ILEFLENSG--DETSTALQLAKNLGL----PKKEVNRVLYSLEKKGKVCKQGGTPPLWKLTD 66 (68)
T ss_pred HHHHHHHCC--CCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecCCCCCceEeec
Confidence 566777764 3 3999999999999 999999999999887 2 12347777654
No 172
>PF03492 Methyltransf_7: SAM dependent carboxyl methyltransferase; InterPro: IPR005299 This family of plant methyltransferases contains enzymes that act on a variety of substrates including salicylic acid, jasmonic acid and 7-Methylxanthine. Caffeine is synthesized through sequential three-step methylation of xanthine derivatives at positions 7-N, 3-N, and 1-N. The protein 7-methylxanthine methyltransferase (designated as CaMXMT) catalyses the second step to produce theobromine [].; GO: 0008168 methyltransferase activity; PDB: 2EFJ_A 1M6E_X 2EG5_C 3B5I_B.
Probab=94.98 E-value=0.2 Score=44.28 Aligned_cols=97 Identities=12% Similarity=0.046 Sum_probs=53.3
Q ss_pred Ccccccc-ccCCc--ceeeechhhhcCC-------h------------------------------hHHHHHHHHHHhhC
Q 045543 122 CGWKMFQ-KILNG--DAILMKLILRNWD-------D------------------------------EHCLSLLKNCYEAI 161 (239)
Q Consensus 122 ~~gD~~~-~~p~~--D~~~l~~vlH~~~-------d------------------------------~~~~~iL~~~~~aL 161 (239)
++|.|+. =+|.. |+++.++.||=.+ | ++-..+|+.=++-|
T Consensus 94 vpgSFy~rLfP~~Svh~~~Ss~alHWLS~vP~~l~~~~~~~~Nkg~i~~~~~~~~~v~~ay~~Qf~~D~~~FL~~Ra~EL 173 (334)
T PF03492_consen 94 VPGSFYGRLFPSNSVHFGHSSYALHWLSQVPEELVDKSSPAWNKGNIYISRTSPPEVAKAYAKQFQKDFSSFLKARAEEL 173 (334)
T ss_dssp EES-TTS--S-TT-EEEEEEES-TTB-SSS-CCCCTTTSTTTSTTTSSSSTTS-HHHHHHHHHHHHHHHHHHHHHHHHHE
T ss_pred cCchhhhccCCCCceEEEEEechhhhcccCCcccccccccccccCcEEEecCCCHHHHHHHHHHHHHHHHHHHHHhhhee
Confidence 7899998 56764 9999999998443 1 22334555566779
Q ss_pred CCCceEEEEeeecCCCCCCC-----hhh-hhhhhhhHHHhhccCCc--------------cccChhhccHHHHHhhCC-C
Q 045543 162 PGNGKIIIIDSTTVVIPEAT-----PAT-REASSIDIIMLMQLSGE--------------KERTKQEYYGMALTAKNG-F 220 (239)
Q Consensus 162 ~pgg~lli~d~~~~~~~~~~-----~~~-~~~~~~dl~ml~~~~~g--------------~~rt~~e~~~~~ll~~aG-f 220 (239)
+|||++++.=...++..... ... ....+.|| +. .| -.+|.+|+ ++.+++.| |
T Consensus 174 v~GG~mvl~~~gr~~~~~~~~~~~~~~~~l~~~l~dM---v~--eGlI~~ek~dsfniP~Y~ps~eEv--~~~I~~~gsF 246 (334)
T PF03492_consen 174 VPGGRMVLTFLGRDEEDPSSTGSCMLWDLLADALRDM---VA--EGLISEEKVDSFNIPIYFPSPEEV--RAIIEEEGSF 246 (334)
T ss_dssp EEEEEEEEEEEE-STSSTTSTTCCCHHHHHHHHHHHH---HH--TTSS-HCCCCTG--SBB---HHHH--HHHHHHHTSE
T ss_pred ccCcEEEEEEeeccccccccCCcchHHHHHHHHHHHH---HH--cCCcCHHHhhceeCCccCCCHHHH--HHHHhcCCCE
Confidence 99999999766555521110 000 01222332 21 22 34588999 99999887 6
Q ss_pred ceeeE
Q 045543 221 KGVNY 225 (239)
Q Consensus 221 ~~~~~ 225 (239)
++.++
T Consensus 247 ~I~~l 251 (334)
T PF03492_consen 247 EIEKL 251 (334)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 65444
No 173
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=94.92 E-value=0.023 Score=39.63 Aligned_cols=50 Identities=18% Similarity=0.205 Sum_probs=36.4
Q ss_pred HhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChh
Q 045543 6 IMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPV 59 (239)
Q Consensus 6 ~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~ 59 (239)
.|+.++.+++.|.+|||+++++ ++..++++|+.|... ..-.+|.|.++..
T Consensus 16 ~la~~~~~~~~s~~eiA~~~~i----~~~~l~kil~~L~~~Gli~s~~G~~GGy~L~~~ 70 (83)
T PF02082_consen 16 YLARHPDGKPVSSKEIAERLGI----SPSYLRKILQKLKKAGLIESSRGRGGGYRLARP 70 (83)
T ss_dssp HHHCTTTSC-BEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEETSTTSEEEESS-
T ss_pred HHHhCCCCCCCCHHHHHHHHCc----CHHHHHHHHHHHhhCCeeEecCCCCCceeecCC
Confidence 3454443457999999999999 999999999999987 1223577887754
No 174
>PF07942 N2227: N2227-like protein; InterPro: IPR012901 This family features sequences that are similar to a region of hypothetical yeast gene product N2227 (P53934 from SWISSPROT). This is thought to be expressed during meiosis and may be involved in the defence response to stressful conditions [].
Probab=94.84 E-value=0.26 Score=42.26 Aligned_cols=88 Identities=15% Similarity=0.157 Sum_probs=59.0
Q ss_pred Ccccccc--ccC--C-c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHh
Q 045543 122 CGWKMFQ--KIL--N-G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIML 195 (239)
Q Consensus 122 ~~gD~~~--~~p--~-~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml 195 (239)
.+|||.+ +-+ + . |+|+-...+- +.++....|+.|++.|||||..+=+-++.=... +..
T Consensus 149 ~aGDF~e~y~~~~~~~~~d~VvT~FFID--TA~Ni~~Yi~tI~~lLkpgG~WIN~GPLlyh~~------------~~~-- 212 (270)
T PF07942_consen 149 CAGDFLEVYGPDENKGSFDVVVTCFFID--TAENIIEYIETIEHLLKPGGYWINFGPLLYHFE------------PMS-- 212 (270)
T ss_pred ecCccEEecCCcccCCcccEEEEEEEee--chHHHHHHHHHHHHHhccCCEEEecCCccccCC------------CCC--
Confidence 7899987 222 1 3 8888776663 356688999999999999995544444322111 000
Q ss_pred hccCCccccChhhccHHHHHhhCCCceeeEEE
Q 045543 196 MQLSGEKERTKQEYYGMALTAKNGFKGVNYES 227 (239)
Q Consensus 196 ~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~ 227 (239)
......-+.|.+|. .++.++.||++++...
T Consensus 213 ~~~~~sveLs~eEi--~~l~~~~GF~~~~~~~ 242 (270)
T PF07942_consen 213 IPNEMSVELSLEEI--KELIEKLGFEIEKEES 242 (270)
T ss_pred CCCCcccCCCHHHH--HHHHHHCCCEEEEEEE
Confidence 00012356799999 9999999999987654
No 175
>COG4627 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=94.57 E-value=0.02 Score=44.80 Aligned_cols=38 Identities=29% Similarity=0.370 Sum_probs=36.1
Q ss_pred cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 133 GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 133 ~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
.|+++..||+.++.-++-...|+.|++.|+|||+|-|.
T Consensus 48 ~d~iyaeHvlEHlt~~Eg~~alkechr~Lrp~G~LriA 85 (185)
T COG4627 48 VDAIYAEHVLEHLTYDEGTSALKECHRFLRPGGKLRIA 85 (185)
T ss_pred hHHHHHHHHHHHHhHHHHHHHHHHHHHHhCcCcEEEEE
Confidence 39999999999999999999999999999999999885
No 176
>TIGR00478 tly hemolysin TlyA family protein. Hemolysins are exotoxins that attack blood cell membranes and cause cell rupture, often by forming a pore in the membrane. At least two members of this protein family have been characterized indirectly as pore-forming hemolysins, one from the spirochete Serpula (Treponema) hyodysenteriae and one from Mycobacterium tuberculosis. However, homology domains in this protein suggest methyltransferase activity (pfam01728) and RNA-binding activity (pfam01479).
Probab=94.43 E-value=0.097 Score=43.78 Aligned_cols=25 Identities=28% Similarity=0.337 Sum_probs=17.6
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
..+++.++...+..+++|+|||+|.
T Consensus 64 ~~~l~~~~~~~~~~~vlDiG~gtG~ 88 (228)
T TIGR00478 64 KEALEEFNIDVKNKIVLDVGSSTGG 88 (228)
T ss_pred HHHHHhcCCCCCCCEEEEcccCCCH
Confidence 4555555411356799999999999
No 177
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=94.42 E-value=0.067 Score=45.25 Aligned_cols=25 Identities=16% Similarity=0.395 Sum_probs=20.7
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
...+++..+ +.+..+|+|||||.|.
T Consensus 18 ~~~i~~~~~-~~~~~~VLEiG~G~G~ 42 (253)
T TIGR00755 18 IQKIVEAAN-VLEGDVVLEIGPGLGA 42 (253)
T ss_pred HHHHHHhcC-CCCcCEEEEeCCCCCH
Confidence 456677776 7778999999999999
No 178
>KOG2940 consensus Predicted methyltransferase [General function prediction only]
Probab=94.32 E-value=0.056 Score=45.07 Aligned_cols=81 Identities=19% Similarity=0.252 Sum_probs=47.0
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccC------hh
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERT------KQ 207 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt------~~ 207 (239)
|+++.+--+| |..+ ...-+.+|..+|||+|.++ .-++-.+. +.+ ......+.-+-- .||-.-. ..
T Consensus 139 DLiisSlslH-W~Nd-LPg~m~~ck~~lKPDg~Fi-asmlggdT----LyE-LR~slqLAelER-~GGiSphiSPf~qvr 209 (325)
T KOG2940|consen 139 DLIISSLSLH-WTND-LPGSMIQCKLALKPDGLFI-ASMLGGDT----LYE-LRCSLQLAELER-EGGISPHISPFTQVR 209 (325)
T ss_pred hhhhhhhhhh-hhcc-CchHHHHHHHhcCCCccch-hHHhcccc----HHH-HHHHhhHHHHHh-ccCCCCCcChhhhhh
Confidence 9999999997 5432 4677899999999999553 33332222 111 111222222211 1332221 23
Q ss_pred hccHHHHHhhCCCceeeE
Q 045543 208 EYYGMALTAKNGFKGVNY 225 (239)
Q Consensus 208 e~~~~~ll~~aGf~~~~~ 225 (239)
+. -.+|..|||....+
T Consensus 210 Di--G~LL~rAGF~m~tv 225 (325)
T KOG2940|consen 210 DI--GNLLTRAGFSMLTV 225 (325)
T ss_pred hh--hhHHhhcCccccee
Confidence 34 78899999997655
No 179
>PLN02668 indole-3-acetate carboxyl methyltransferase
Probab=93.66 E-value=0.48 Score=42.71 Aligned_cols=51 Identities=10% Similarity=0.141 Sum_probs=34.5
Q ss_pred ccccc-ccCCc--ceeeechhhhcCCh--h----------------------------------HHHHHHHHHHhhCCCC
Q 045543 124 WKMFQ-KILNG--DAILMKLILRNWDD--E----------------------------------HCLSLLKNCYEAIPGN 164 (239)
Q Consensus 124 gD~~~-~~p~~--D~~~l~~vlH~~~d--~----------------------------------~~~~iL~~~~~aL~pg 164 (239)
|.|+. -+|.. ++++.++.||=.+. + |-..+|+-=++-|.||
T Consensus 151 GSFY~RLfP~~Slh~~~Ss~slHWLS~vP~~l~d~~s~~~Nkg~iyi~~~s~~v~~aY~~Qf~~D~~~FL~~Ra~ELvpG 230 (386)
T PLN02668 151 GSFYRRLFPARSIDVFHSAFSLHWLSQVPESVTDKRSAAYNKGRVFIHGASESTANAYKRQFQADLAGFLRARAQEMKRG 230 (386)
T ss_pred ccccccccCCCceEEEEeeccceecccCchhhccCCcccccCCceEecCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 66666 56753 89999999984441 1 1234566667789999
Q ss_pred ceEEEEeeec
Q 045543 165 GKIIIIDSTT 174 (239)
Q Consensus 165 g~lli~d~~~ 174 (239)
|++++.=.-.
T Consensus 231 G~mvl~~~Gr 240 (386)
T PLN02668 231 GAMFLVCLGR 240 (386)
T ss_pred cEEEEEEecC
Confidence 9999875433
No 180
>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=93.64 E-value=0.076 Score=43.63 Aligned_cols=20 Identities=15% Similarity=0.394 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhCCCCceEEE
Q 045543 150 CLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli 169 (239)
+.++.++..+-|+|||+++|
T Consensus 172 a~~~pq~l~dqL~~gGrlli 191 (237)
T KOG1661|consen 172 ASELPQELLDQLKPGGRLLI 191 (237)
T ss_pred ccccHHHHHHhhccCCeEEE
Confidence 45788999999999999998
No 181
>PF08704 GCD14: tRNA methyltransferase complex GCD14 subunit; InterPro: IPR014816 GCD14 is a subunit of the tRNA methyltransferase complex and is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA []. ; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity, 0030488 tRNA methylation; PDB: 2YVL_C 1YB2_A 2B25_B 1O54_A 2PWY_B 1I9G_A 3LGA_B 3LHD_C 3MB5_A.
Probab=93.40 E-value=0.1 Score=44.12 Aligned_cols=84 Identities=14% Similarity=0.258 Sum_probs=50.2
Q ss_pred HHHHHHHhccccc----HHHHHhhccCCCCcceEEEeCCCCCC-------------------------------------
Q 045543 83 VLNTAMLSHNSIV----MNRILDYYKGFEKIKQLVDVGGGCGK------------------------------------- 121 (239)
Q Consensus 83 ~f~~~m~~~~~~~----~~~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------- 121 (239)
.|...|...+... +..|+-..+ ..+..+||+.|.|+|.
T Consensus 12 ~~~~~l~rrtQIiYpkD~~~I~~~l~-i~pG~~VlEaGtGSG~lt~~l~r~v~p~G~v~t~E~~~~~~~~A~~n~~~~gl 90 (247)
T PF08704_consen 12 LWTLSLPRRTQIIYPKDISYILMRLD-IRPGSRVLEAGTGSGSLTHALARAVGPTGHVYTYEFREDRAEKARKNFERHGL 90 (247)
T ss_dssp HHHHTS-SSS----HHHHHHHHHHTT---TT-EEEEE--TTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHHHTTC
T ss_pred HHHHhccCCcceeeCchHHHHHHHcC-CCCCCEEEEecCCcHHHHHHHHHHhCCCeEEEccccCHHHHHHHHHHHHHcCC
Confidence 3555555544432 456777777 8999999999999999
Q ss_pred ------Ccccccc-ccC----C-cceeeechhhhcCChhHHHHHHHHHHhhC-CCCceEEEEeeec
Q 045543 122 ------CGWKMFQ-KIL----N-GDAILMKLILRNWDDEHCLSLLKNCYEAI-PGNGKIIIIDSTT 174 (239)
Q Consensus 122 ------~~gD~~~-~~p----~-~D~~~l~~vlH~~~d~~~~~iL~~~~~aL-~pgg~lli~d~~~ 174 (239)
.-+|..+ .++ . .|.++| |.+++- ..+.++.++| +|||+|.+.-+++
T Consensus 91 ~~~v~~~~~Dv~~~g~~~~~~~~~DavfL-----Dlp~Pw--~~i~~~~~~L~~~gG~i~~fsP~i 149 (247)
T PF08704_consen 91 DDNVTVHHRDVCEEGFDEELESDFDAVFL-----DLPDPW--EAIPHAKRALKKPGGRICCFSPCI 149 (247)
T ss_dssp CTTEEEEES-GGCG--STT-TTSEEEEEE-----ESSSGG--GGHHHHHHHE-EEEEEEEEEESSH
T ss_pred CCCceeEecceecccccccccCcccEEEE-----eCCCHH--HHHHHHHHHHhcCCceEEEECCCH
Confidence 2233322 121 2 266655 777664 6799999999 8999999875543
No 182
>PRK11933 yebU rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
Probab=93.24 E-value=0.17 Score=46.85 Aligned_cols=32 Identities=25% Similarity=0.575 Sum_probs=24.0
Q ss_pred hhcCChhHH-------HHHHHHHHhhCCCCceEEEEeee
Q 045543 142 LRNWDDEHC-------LSLLKNCYEAIPGNGKIIIIDST 173 (239)
Q Consensus 142 lH~~~d~~~-------~~iL~~~~~aL~pgg~lli~d~~ 173 (239)
...|+.++. .+||+++.+.|+|||+|+-....
T Consensus 206 ~~~~s~~~v~~l~~lQ~~iL~~A~~~LkpGG~LVYSTCT 244 (470)
T PRK11933 206 LKNWSPESNLEIAATQRELIESAFHALKPGGTLVYSTCT 244 (470)
T ss_pred hhhCCHHHHHHHHHHHHHHHHHHHHHcCCCcEEEEECCC
Confidence 445665544 78999999999999988665543
No 183
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=93.12 E-value=0.13 Score=31.26 Aligned_cols=39 Identities=15% Similarity=0.139 Sum_probs=32.2
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CCCCCCeEec
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AGDDRRLQRL 56 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~~~~~~y~~ 56 (239)
-+.|..+||+.+|+ +...+.+.|+.|... .+...+.|..
T Consensus 7 ~~~s~~~la~~l~~----s~~tv~~~l~~L~~~g~l~~~~~~~~i 47 (48)
T smart00419 7 LPLTRQEIAELLGL----TRETVSRTLKRLEKEGLISREGGRIVI 47 (48)
T ss_pred eccCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEeCCEEEE
Confidence 37899999999999 999999999999997 3444466654
No 184
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR. This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.
Probab=93.00 E-value=0.18 Score=38.52 Aligned_cols=52 Identities=12% Similarity=0.093 Sum_probs=39.1
Q ss_pred HhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhH
Q 045543 6 IMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAK 61 (239)
Q Consensus 6 ~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~ 61 (239)
.|+.+..+++.|.+|||+++++ ++..++++|+.|... .....|.|.++.-..
T Consensus 16 ~La~~~~~~~~s~~~ia~~~~i----p~~~l~kil~~L~~~glv~s~~G~~Ggy~l~~~~~ 72 (135)
T TIGR02010 16 DLALNAETGPVTLADISERQGI----SLSYLEQLFAKLRKAGLVKSVRGPGGGYQLGRPAE 72 (135)
T ss_pred HHHhCCCCCcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCceEEEeCCCCCEeccCCHH
Confidence 3443322368999999999999 999999999999886 123356788876544
No 185
>PF02390 Methyltransf_4: Putative methyltransferase ; InterPro: IPR003358 This entry represents tRNA (guanine-N-7) methyltransferase (2.1.1.33 from EC), which catalyses the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. Capping of the pre-mRNA 5' end by addition a monomethylated guanosine cap (m(7)G) is an essential and the earliest modification in the biogenesis of mRNA []. The reaction is catalysed by three enzymes: triphosphatase, guanylyltransferase, and tRNA (guanine-N-7) methyltransferase [, ].; GO: 0008176 tRNA (guanine-N7-)-methyltransferase activity, 0006400 tRNA modification; PDB: 3DXZ_A 3DXY_A 3DXX_A 3CKK_A 3P2I_B 3P2K_D 3P2E_A 3MTE_B 3PB3_B 1YZH_B ....
Probab=92.89 E-value=0.031 Score=45.60 Aligned_cols=21 Identities=10% Similarity=0.132 Sum_probs=18.1
Q ss_pred HHHHHHHHHhhCCCCceEEEE
Q 045543 150 CLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~ 170 (239)
...+|+.+++.|+|||+|.+.
T Consensus 112 ~~~fl~~~~~~L~~gG~l~~~ 132 (195)
T PF02390_consen 112 NPEFLELLARVLKPGGELYFA 132 (195)
T ss_dssp SHHHHHHHHHHEEEEEEEEEE
T ss_pred CchHHHHHHHHcCCCCEEEEE
Confidence 457899999999999998774
No 186
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=92.80 E-value=0.16 Score=33.28 Aligned_cols=41 Identities=20% Similarity=0.225 Sum_probs=34.0
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CCCC-CCeEecCh
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AGDD-RRLQRLAP 58 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~~~-~~~y~~t~ 58 (239)
.++|..|||+.+|+ ++..+.++|+.|... .+.. .+.|..+|
T Consensus 24 ~~~s~~ela~~~g~----s~~tv~r~l~~L~~~g~i~~~~~~~~~l~~ 67 (67)
T cd00092 24 LPLTRQEIADYLGL----TRETVSRTLKELEEEGLISRRGRGKYRVNP 67 (67)
T ss_pred CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecCCCeEEeCC
Confidence 58999999999999 999999999999987 3333 37787764
No 187
>KOG2798 consensus Putative trehalase [Carbohydrate transport and metabolism]
Probab=92.62 E-value=0.7 Score=40.37 Aligned_cols=90 Identities=10% Similarity=0.200 Sum_probs=61.1
Q ss_pred Ccccccccc--CC---c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHh
Q 045543 122 CGWKMFQKI--LN---G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIML 195 (239)
Q Consensus 122 ~~gD~~~~~--p~---~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml 195 (239)
.+|||.+-. ++ . |+|+....+- +..+...-|..|.+.|+|||..+-+.+++=.-.+.+ +..
T Consensus 243 caGDF~evy~~s~~~~~~d~VvTcfFID--Ta~NileYi~tI~~iLk~GGvWiNlGPLlYHF~d~~---------g~~-- 309 (369)
T KOG2798|consen 243 CAGDFLEVYGTSSGAGSYDVVVTCFFID--TAHNILEYIDTIYKILKPGGVWINLGPLLYHFEDTH---------GVE-- 309 (369)
T ss_pred cccceeEEecCcCCCCccceEEEEEEee--chHHHHHHHHHHHHhccCCcEEEeccceeeeccCCC---------CCc--
Confidence 569998833 33 3 8888876652 456778999999999999997776665432211110 000
Q ss_pred hccCCccccChhhccHHHHHhhCCCceeeEEEc
Q 045543 196 MQLSGEKERTKQEYYGMALTAKNGFKGVNYESF 228 (239)
Q Consensus 196 ~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~ 228 (239)
...+-+.|.++. ..+.+.-||++.+...+
T Consensus 310 --~~~siEls~edl--~~v~~~~GF~~~ke~~I 338 (369)
T KOG2798|consen 310 --NEMSIELSLEDL--KRVASHRGFEVEKERGI 338 (369)
T ss_pred --ccccccccHHHH--HHHHHhcCcEEEEeeee
Confidence 012456789999 99999999999876544
No 188
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=92.56 E-value=0.23 Score=42.88 Aligned_cols=21 Identities=14% Similarity=0.263 Sum_probs=15.7
Q ss_pred HHHHHHHHHHhhCCCCceEEE
Q 045543 149 HCLSLLKNCYEAIPGNGKIII 169 (239)
Q Consensus 149 ~~~~iL~~~~~aL~pgg~lli 169 (239)
...+|+..+.+.|+|||.+++
T Consensus 216 ~~~~i~~~a~~~l~~~g~l~l 236 (280)
T COG2890 216 VYRRILGEAPDILKPGGVLIL 236 (280)
T ss_pred HHHHHHHhhHHHcCCCcEEEE
Confidence 456788888888999775544
No 189
>PF10294 Methyltransf_16: Putative methyltransferase; InterPro: IPR019410 There are a number of unidentified genes that have a high probability of coding for methyltransferases. They make up approximately 0.6-1.6% of the genes in the yeast, human, mouse, Drosophila melanogaster, Caenorhabditis elegans, Arabidopsis thaliana, and Escherichia coli genomes []. This entry represents putative nicotinamide N-methyltransferases involved in rDNA silencing and in lifespan determination. ; PDB: 3BZB_A.
Probab=92.43 E-value=0.25 Score=39.39 Aligned_cols=39 Identities=23% Similarity=0.347 Sum_probs=29.3
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeec
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTT 174 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~ 174 (239)
|+|+.+.|+++ ++....+++-+.+.|+|+|.+++.-...
T Consensus 121 D~IlasDv~Y~--~~~~~~L~~tl~~ll~~~~~vl~~~~~R 159 (173)
T PF10294_consen 121 DVILASDVLYD--EELFEPLVRTLKRLLKPNGKVLLAYKRR 159 (173)
T ss_dssp SEEEEES--S---GGGHHHHHHHHHHHBTT-TTEEEEEE-S
T ss_pred CEEEEecccch--HHHHHHHHHHHHHHhCCCCEEEEEeCEe
Confidence 99999999964 5777899999999999999977765544
No 190
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=92.23 E-value=0.21 Score=39.55 Aligned_cols=45 Identities=13% Similarity=0.079 Sum_probs=36.9
Q ss_pred CCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhH
Q 045543 13 RAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAK 61 (239)
Q Consensus 13 ~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~ 61 (239)
+++.|+++||+++++ ++..+.++|+.|... ....+|.|.+..-..
T Consensus 23 ~~~vs~~eIA~~~~i----p~~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar~p~ 72 (164)
T PRK10857 23 AGPVPLADISERQGI----SLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKDAS 72 (164)
T ss_pred CCcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeCCCCCCCeeccCCHH
Confidence 368999999999999 999999999999887 223456798875544
No 191
>KOG1269 consensus SAM-dependent methyltransferases [Lipid transport and metabolism; General function prediction only]
Probab=92.19 E-value=0.13 Score=46.10 Aligned_cols=54 Identities=9% Similarity=0.037 Sum_probs=42.1
Q ss_pred Ccccccc-ccCC--cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCC
Q 045543 122 CGWKMFQ-KILN--GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVI 177 (239)
Q Consensus 122 ~~gD~~~-~~p~--~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~ 177 (239)
+.+||.+ ++++ .|.+.+-.+..+-++. .+.++.++++++|||.+++.|.+....
T Consensus 165 ~~~~~~~~~fedn~fd~v~~ld~~~~~~~~--~~~y~Ei~rv~kpGG~~i~~e~i~~~~ 221 (364)
T KOG1269|consen 165 VVADFGKMPFEDNTFDGVRFLEVVCHAPDL--EKVYAEIYRVLKPGGLFIVKEWIKTAK 221 (364)
T ss_pred ehhhhhcCCCCccccCcEEEEeecccCCcH--HHHHHHHhcccCCCceEEeHHHHHhhh
Confidence 6667766 5554 2888877777777776 488999999999999999999876544
No 192
>KOG3924 consensus Putative protein methyltransferase involved in meiosis and transcriptional silencing (Dot1) [Cell cycle control, cell division, chromosome partitioning; Transcription]
Probab=92.02 E-value=0.34 Score=43.45 Aligned_cols=76 Identities=17% Similarity=0.220 Sum_probs=58.3
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC--------------------------------------------------Cccccc
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK--------------------------------------------------CGWKMF 127 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~--------------------------------------------------~~gD~~ 127 (239)
.+++.+. .......+|+|+|.|. +-|+|.
T Consensus 183 si~dEl~-~g~~D~F~DLGSGVGqlv~~~aa~a~~k~svG~eim~~pS~~a~~~~~~~kk~~k~fGk~~~~~~~i~gsf~ 261 (419)
T KOG3924|consen 183 SIVDELK-LGPADVFMDLGSGVGQLVCFVAAYAGCKKSVGFEIMDKPSQCAELNKEEFKKLMKHFGKKPNKIETIHGSFL 261 (419)
T ss_pred HHHHHhc-cCCCCcccCCCcccchhhHHHHHhhccccccceeeecCcHHHHHHHHHHHHHHHHHhCCCcCceeecccccC
Confidence 4455555 6678899999999999 556665
Q ss_pred cc------cCCcceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCC
Q 045543 128 QK------ILNGDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVI 177 (239)
Q Consensus 128 ~~------~p~~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~ 177 (239)
.+ ++++++++..++. ++++...++= ++..-+++|-|++-.+.+.+..
T Consensus 262 ~~~~v~eI~~eatvi~vNN~~--Fdp~L~lr~~-eil~~ck~gtrIiS~~~L~~r~ 314 (419)
T KOG3924|consen 262 DPKRVTEIQTEATVIFVNNVA--FDPELKLRSK-EILQKCKDGTRIISSKPLVPRP 314 (419)
T ss_pred CHHHHHHHhhcceEEEEeccc--CCHHHHHhhH-HHHhhCCCcceEeccccccccc
Confidence 42 2346899999996 6777666655 9999999999999999888743
No 193
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=92.01 E-value=0.21 Score=38.98 Aligned_cols=53 Identities=19% Similarity=0.153 Sum_probs=41.2
Q ss_pred HhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHH
Q 045543 6 IMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKY 62 (239)
Q Consensus 6 ~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~ 62 (239)
.|+..+.+++.|+++||++.++ ++..|.++|..|... ..-..|.|.++.-...
T Consensus 16 ~LA~~~~~~~~s~~~IA~~~~i----s~~~L~kil~~L~kaGlV~S~rG~~GGy~Lar~~~~ 73 (150)
T COG1959 16 YLALLPGGGPVSSAEIAERQGI----SPSYLEKILSKLRKAGLVKSVRGKGGGYRLARPPEE 73 (150)
T ss_pred HHHhCCCCCcccHHHHHHHhCc----CHHHHHHHHHHHHHcCCEEeecCCCCCccCCCChHH
Confidence 4555443358999999999999 999999999999886 2223688999876654
No 194
>COG3897 Predicted methyltransferase [General function prediction only]
Probab=91.85 E-value=0.86 Score=37.19 Aligned_cols=66 Identities=15% Similarity=0.218 Sum_probs=43.3
Q ss_pred cCCCCcceEEEeCCCCCC---------------------------------------CccccccccCCc-ceeeechhhh
Q 045543 104 KGFEKIKQLVDVGGGCGK---------------------------------------CGWKMFQKILNG-DAILMKLILR 143 (239)
Q Consensus 104 ~~~~~~~~vlDvGGG~G~---------------------------------------~~gD~~~~~p~~-D~~~l~~vlH 143 (239)
|++-..++|||.|.|+|. ...|..- .|.+ |+++++.++.
T Consensus 75 PetVrgkrVLd~gagsgLvaIAaa~aGA~~v~a~d~~P~~~~ai~lNa~angv~i~~~~~d~~g-~~~~~Dl~LagDlfy 153 (218)
T COG3897 75 PETVRGKRVLDLGAGSGLVAIAAARAGAAEVVAADIDPWLEQAIRLNAAANGVSILFTHADLIG-SPPAFDLLLAGDLFY 153 (218)
T ss_pred ccccccceeeecccccChHHHHHHHhhhHHHHhcCCChHHHHHhhcchhhccceeEEeeccccC-CCcceeEEEeeceec
Confidence 336678999999999999 1112221 2334 9999999996
Q ss_pred cCChhHHHHHHHHHHhhCCC-CceEEEEeee
Q 045543 144 NWDDEHCLSLLKNCYEAIPG-NGKIIIIDST 173 (239)
Q Consensus 144 ~~~d~~~~~iL~~~~~aL~p-gg~lli~d~~ 173 (239)
+-+ .+.+++. +...|+. |..++|-|.-
T Consensus 154 ~~~--~a~~l~~-~~~~l~~~g~~vlvgdp~ 181 (218)
T COG3897 154 NHT--EADRLIP-WKDRLAEAGAAVLVGDPG 181 (218)
T ss_pred Cch--HHHHHHH-HHHHHHhCCCEEEEeCCC
Confidence 554 4567777 6666655 5555555543
No 195
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=91.82 E-value=0.19 Score=34.48 Aligned_cols=47 Identities=17% Similarity=0.076 Sum_probs=37.5
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CCCCCCeEecChhhHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~~~~~~y~~t~~s~~l~ 64 (239)
++.+..+|+..+++ +...+.+.|+.|... .+..++.|..|+-+..++
T Consensus 18 ~~~~~t~i~~~~~L----~~~~~~~yL~~L~~~gLI~~~~~~Y~lTekG~~~l 66 (77)
T PF14947_consen 18 GGAKKTEIMYKANL----NYSTLKKYLKELEEKGLIKKKDGKYRLTEKGKEFL 66 (77)
T ss_dssp T-B-HHHHHTTST------HHHHHHHHHHHHHTTSEEEETTEEEE-HHHHHHH
T ss_pred CCCCHHHHHHHhCc----CHHHHHHHHHHHHHCcCeeCCCCEEEECccHHHHH
Confidence 79999999999999 999999999999998 455789999999998765
No 196
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=91.80 E-value=0.66 Score=38.09 Aligned_cols=74 Identities=19% Similarity=0.258 Sum_probs=44.1
Q ss_pred ccHHHHHhhccCCCCcceEEEeCCCCCC---------------CccccccccCCcceeeechhhhcCChhHHHHHHHHHH
Q 045543 94 IVMNRILDYYKGFEKIKQLVDVGGGCGK---------------CGWKMFQKILNGDAILMKLILRNWDDEHCLSLLKNCY 158 (239)
Q Consensus 94 ~~~~~~~~~~~~~~~~~~vlDvGGG~G~---------------~~gD~~~~~p~~D~~~l~~vlH~~~d~~~~~iL~~~~ 158 (239)
....++.+.|.-+++...|+|+|..+|. ++-|+-.--|-.++.++...++ ++ ..++++.
T Consensus 31 ~KL~el~~k~~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ivavDi~p~~~~~~V~~iq~d~~---~~---~~~~~l~ 104 (205)
T COG0293 31 YKLLELNEKFKLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDILPMKPIPGVIFLQGDIT---DE---DTLEKLL 104 (205)
T ss_pred HHHHHHHHhcCeecCCCEEEEcCCCCCcHHHHHHHHhCCCCcEEEEECcccccCCCceEEeeecc---Cc---cHHHHHH
Confidence 3455777777657888999999999999 2223322111124666666553 22 2345555
Q ss_pred hhCCCCc-eEEEEeee
Q 045543 159 EAIPGNG-KIIIIDST 173 (239)
Q Consensus 159 ~aL~pgg-~lli~d~~ 173 (239)
..+.... -+++.|..
T Consensus 105 ~~l~~~~~DvV~sD~a 120 (205)
T COG0293 105 EALGGAPVDVVLSDMA 120 (205)
T ss_pred HHcCCCCcceEEecCC
Confidence 5555544 66777764
No 197
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=91.62 E-value=0.22 Score=37.54 Aligned_cols=45 Identities=20% Similarity=0.171 Sum_probs=36.3
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C---CCCCCeEecChhhHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A---GDDRRLQRLAPVAKY 62 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~---~~~~~~y~~t~~s~~ 62 (239)
++.|.+|||+.+++ ++..+.++|+.|... . ...+|.|.++.-...
T Consensus 24 ~~~s~~eia~~~~i----~~~~v~~il~~L~~~gli~~~~g~~ggy~l~~~~~~ 73 (132)
T TIGR00738 24 GPVSVKEIAERQGI----SRSYLEKILRTLRRAGLVESVRGPGGGYRLARPPEE 73 (132)
T ss_pred CcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEeccCCCCCccCCCCHHH
Confidence 59999999999999 999999999999986 1 223567888755543
No 198
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=91.58 E-value=0.19 Score=33.68 Aligned_cols=37 Identities=11% Similarity=0.268 Sum_probs=30.6
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|-+.|.+. +.+|..|||.++++ +++.++.+|..|...
T Consensus 5 i~~~l~~~---~~~S~~eLa~~~~~----s~~~ve~mL~~l~~k 41 (69)
T PF09012_consen 5 IRDYLRER---GRVSLAELAREFGI----SPEAVEAMLEQLIRK 41 (69)
T ss_dssp HHHHHHHS----SEEHHHHHHHTT------HHHHHHHHHHHHCC
T ss_pred HHHHHHHc---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 55677775 69999999999999 999999999999987
No 199
>PLN02476 O-methyltransferase
Probab=91.51 E-value=0.8 Score=39.48 Aligned_cols=35 Identities=14% Similarity=0.228 Sum_probs=25.4
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeec
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTT 174 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~ 174 (239)
|++++ |-+..+-...++.+.+.|+|||.|++ |.++
T Consensus 196 D~VFI-----Da~K~~Y~~y~e~~l~lL~~GGvIV~-DNvL 230 (278)
T PLN02476 196 DFAFV-----DADKRMYQDYFELLLQLVRVGGVIVM-DNVL 230 (278)
T ss_pred CEEEE-----CCCHHHHHHHHHHHHHhcCCCcEEEE-ecCc
Confidence 66655 33456678899999999999997655 5443
No 200
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=91.42 E-value=0.3 Score=41.49 Aligned_cols=25 Identities=24% Similarity=0.533 Sum_probs=20.3
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
+..+++..+ ..+..+|+|||||.|.
T Consensus 18 ~~~iv~~~~-~~~~~~VLEIG~G~G~ 42 (258)
T PRK14896 18 VDRIVEYAE-DTDGDPVLEIGPGKGA 42 (258)
T ss_pred HHHHHHhcC-CCCcCeEEEEeCccCH
Confidence 456666666 6677899999999999
No 201
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=91.09 E-value=0.28 Score=30.10 Aligned_cols=36 Identities=8% Similarity=0.313 Sum_probs=29.2
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
|+..|.++ +++|..|||+++|+ +...+.+.|+-|..
T Consensus 8 Il~~l~~~---~~~t~~ela~~~~i----s~~tv~~~l~~L~~ 43 (48)
T PF13412_consen 8 ILNYLREN---PRITQKELAEKLGI----SRSTVNRYLKKLEE 43 (48)
T ss_dssp HHHHHHHC---TTS-HHHHHHHHTS-----HHHHHHHHHHHHH
T ss_pred HHHHHHHc---CCCCHHHHHHHhCC----CHHHHHHHHHHHHH
Confidence 66778885 47999999999999 99999999988764
No 202
>KOG1499 consensus Protein arginine N-methyltransferase PRMT1 and related enzymes [Posttranslational modification, protein turnover, chaperones; Transcription; Signal transduction mechanisms]
Probab=91.09 E-value=0.25 Score=43.55 Aligned_cols=61 Identities=23% Similarity=0.161 Sum_probs=38.6
Q ss_pred CcceEEEeCCCCCC----------------------------------------Ccccccc-ccC-Cc-ceeeechhhhc
Q 045543 108 KIKQLVDVGGGCGK----------------------------------------CGWKMFQ-KIL-NG-DAILMKLILRN 144 (239)
Q Consensus 108 ~~~~vlDvGGG~G~----------------------------------------~~gD~~~-~~p-~~-D~~~l~~vlH~ 144 (239)
+.++|+|||||+|. +.|..-+ .+| +. |+++.-|.=+-
T Consensus 60 ~dK~VlDVGcGtGILS~F~akAGA~~V~aVe~S~ia~~a~~iv~~N~~~~ii~vi~gkvEdi~LP~eKVDiIvSEWMGy~ 139 (346)
T KOG1499|consen 60 KDKTVLDVGCGTGILSMFAAKAGARKVYAVEASSIADFARKIVKDNGLEDVITVIKGKVEDIELPVEKVDIIVSEWMGYF 139 (346)
T ss_pred CCCEEEEcCCCccHHHHHHHHhCcceEEEEechHHHHHHHHHHHhcCccceEEEeecceEEEecCccceeEEeehhhhHH
Confidence 45899999999999 2232322 466 34 88887665443
Q ss_pred C-ChhHHHHHHHHHHhhCCCCceEE
Q 045543 145 W-DDEHCLSLLKNCYEAIPGNGKII 168 (239)
Q Consensus 145 ~-~d~~~~~iL~~~~~aL~pgg~ll 168 (239)
. -+.....+|-.=-+-|+|||.++
T Consensus 140 Ll~EsMldsVl~ARdkwL~~~G~i~ 164 (346)
T KOG1499|consen 140 LLYESMLDSVLYARDKWLKEGGLIY 164 (346)
T ss_pred HHHhhhhhhhhhhhhhccCCCceEc
Confidence 2 23333445555556799999665
No 203
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=90.89 E-value=0.37 Score=46.98 Aligned_cols=22 Identities=14% Similarity=0.312 Sum_probs=17.9
Q ss_pred HHHHHHHHHHhhCCCCceEEEE
Q 045543 149 HCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 149 ~~~~iL~~~~~aL~pgg~lli~ 170 (239)
.-..+++.+.+.|+|||.|++.
T Consensus 634 ~y~~l~~~a~~lL~~gG~l~~~ 655 (702)
T PRK11783 634 DHVALIKDAKRLLRPGGTLYFS 655 (702)
T ss_pred HHHHHHHHHHHHcCCCCEEEEE
Confidence 3467899999999999988664
No 204
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=90.89 E-value=0.096 Score=34.85 Aligned_cols=37 Identities=19% Similarity=0.230 Sum_probs=31.3
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|+..|-.. ++.|++|||+.+|+ +...+.+.|+-|...
T Consensus 13 vy~~Ll~~---~~~t~~eIa~~l~i----~~~~v~~~L~~L~~~ 49 (68)
T PF01978_consen 13 VYLALLKN---GPATAEEIAEELGI----SRSTVYRALKSLEEK 49 (68)
T ss_dssp HHHHHHHH---CHEEHHHHHHHHTS----SHHHHHHHHHHHHHT
T ss_pred HHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 34455443 79999999999999 999999999999987
No 205
>PRK11727 23S rRNA mA1618 methyltransferase; Provisional
Probab=90.28 E-value=1.7 Score=38.21 Aligned_cols=26 Identities=15% Similarity=0.043 Sum_probs=21.3
Q ss_pred ccccChhhccHHHHHhhCCCceeeEEEc
Q 045543 201 EKERTKQEYYGMALTAKNGFKGVNYESF 228 (239)
Q Consensus 201 g~~rt~~e~~~~~ll~~aGf~~~~~~~~ 228 (239)
|+.-+.+.. .+.|++.|.+.++++..
T Consensus 268 ~kk~~l~~l--~~~L~~~~~~~~~~~e~ 293 (321)
T PRK11727 268 SKKENLPPL--YRALKKVGAVEVKTIEM 293 (321)
T ss_pred eccCCHHHH--HHHHHHcCCceEEEEEE
Confidence 555688988 99999999987777765
No 206
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=90.15 E-value=0.29 Score=44.93 Aligned_cols=24 Identities=21% Similarity=0.350 Sum_probs=17.5
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
..+++.++ ..+..+|+|+|||+|.
T Consensus 287 ~~vl~~l~-~~~~~~VLDlgcGtG~ 310 (443)
T PRK13168 287 ARALEWLD-PQPGDRVLDLFCGLGN 310 (443)
T ss_pred HHHHHHhc-CCCCCEEEEEeccCCH
Confidence 34444444 4566799999999999
No 207
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=90.04 E-value=0.32 Score=36.68 Aligned_cols=51 Identities=22% Similarity=0.169 Sum_probs=37.8
Q ss_pred chHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C---CCCCCeEecChh
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A---GDDRRLQRLAPV 59 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~---~~~~~~y~~t~~ 59 (239)
...|+..+ +++.|+.|||+++++ ++..+.++|+.|... . ....|.|.+...
T Consensus 15 l~~la~~~-~~~~s~~eia~~l~i----s~~~v~~~l~~L~~~Gli~~~~g~~ggy~l~~~ 70 (130)
T TIGR02944 15 LTTLAQND-SQPYSAAEIAEQTGL----NAPTVSKILKQLSLAGIVTSKRGVEGGYTLARA 70 (130)
T ss_pred HHHHHhCC-CCCccHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEecCCCCCChhhcCC
Confidence 34555532 368999999999999 999999999999987 1 122456766543
No 208
>TIGR00027 mthyl_TIGR00027 methyltransferase, putative, TIGR00027 family. This model represents a set of probable methyltransferases, about 300 amino acids long, with essentially full length homology. Members share an N-terminal region described by Pfam model pfam02409. Included are a paralogous family of 12 proteins in Mycobacterium tuberculosis, plus close homologs in related species, a family of 8 in the archaeon Methanosarcina acetivorans, and small numbers of members in other species, including plants.
Probab=89.85 E-value=4.6 Score=34.41 Aligned_cols=85 Identities=15% Similarity=0.083 Sum_probs=53.6
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCcc----ccChhhc
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEK----ERTKQEY 209 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~----~rt~~e~ 209 (239)
=++++-.++..++.+++.++|+.+.+...||+.|+ .|.+.+-.... .......... +.... .+. ..+.++.
T Consensus 160 tl~i~EGvl~YL~~~~v~~ll~~i~~~~~~gs~l~-~d~~~~~~~~~-~~~~~~~~~~--~~~~~-~~~~~~~~~~~~~~ 234 (260)
T TIGR00027 160 TAWLWEGLLMYLTEEAVDALLAFIAELSAPGSRLA-FDYVRPLDGEW-RAGMRAPVYH--AARGV-DGSGLVFGIDRADV 234 (260)
T ss_pred eeeeecchhhcCCHHHHHHHHHHHHHhCCCCcEEE-EEeccccchhH-HHHHHHHHHH--hhhcc-cccccccCCChhhH
Confidence 48889999999999999999999999888888765 56655421111 0000000000 00000 011 1256778
Q ss_pred cHHHHHhhCCCceeeE
Q 045543 210 YGMALTAKNGFKGVNY 225 (239)
Q Consensus 210 ~~~~ll~~aGf~~~~~ 225 (239)
.++|++.||+..+.
T Consensus 235 --~~~l~~~Gw~~~~~ 248 (260)
T TIGR00027 235 --AEWLAERGWRASEH 248 (260)
T ss_pred --HHHHHHCCCeeecC
Confidence 99999999998765
No 209
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=89.60 E-value=0.53 Score=30.85 Aligned_cols=43 Identities=9% Similarity=0.305 Sum_probs=31.2
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C-----C--CCCCeEecChhh
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A-----G--DDRRLQRLAPVA 60 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~-----~--~~~~~y~~t~~s 60 (239)
++.|..+||+.+++ +...+.+.++.|... . + .....|.+||.+
T Consensus 17 ~~~t~~~l~~~~~~----~~~~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~G 68 (68)
T PF13463_consen 17 GPMTQSDLAERLGI----SKSTVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPAG 68 (68)
T ss_dssp S-BEHHHHHHHTT------HHHHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HHH
T ss_pred CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCCC
Confidence 79999999999999 999999999999987 1 1 122458888753
No 210
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=89.53 E-value=0.48 Score=29.87 Aligned_cols=38 Identities=8% Similarity=0.235 Sum_probs=29.7
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|...|.++. +++|++|||+.+++ +.+.+.+-+..|...
T Consensus 5 il~~L~~~~--~~it~~eLa~~l~v----S~rTi~~~i~~L~~~ 42 (55)
T PF08279_consen 5 ILKLLLESK--EPITAKELAEELGV----SRRTIRRDIKELREW 42 (55)
T ss_dssp HHHHHHHTT--TSBEHHHHHHHCTS-----HHHHHHHHHHHHHT
T ss_pred HHHHHHHcC--CCcCHHHHHHHhCC----CHHHHHHHHHHHHHC
Confidence 455664433 67999999999999 999999999888664
No 211
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=89.29 E-value=0.68 Score=37.86 Aligned_cols=14 Identities=21% Similarity=0.211 Sum_probs=12.4
Q ss_pred CcceEEEeCCCCCC
Q 045543 108 KIKQLVDVGGGCGK 121 (239)
Q Consensus 108 ~~~~vlDvGGG~G~ 121 (239)
...++||+|||+|.
T Consensus 53 ~~~~vLDl~~GsG~ 66 (199)
T PRK10909 53 VDARCLDCFAGSGA 66 (199)
T ss_pred CCCEEEEcCCCccH
Confidence 34699999999999
No 212
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=89.22 E-value=0.55 Score=35.43 Aligned_cols=29 Identities=17% Similarity=0.255 Sum_probs=27.5
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+|.|+++||+.++. +...++|-|+-|...
T Consensus 41 ~~~tvdelae~lnr----~rStv~rsl~~L~~~ 69 (126)
T COG3355 41 GPLTVDELAEILNR----SRSTVYRSLQNLLEA 69 (126)
T ss_pred CCcCHHHHHHHHCc----cHHHHHHHHHHHHHc
Confidence 79999999999999 999999999999886
No 213
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=89.22 E-value=0.69 Score=35.49 Aligned_cols=45 Identities=11% Similarity=0.046 Sum_probs=35.3
Q ss_pred CCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhh
Q 045543 12 PRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVA 60 (239)
Q Consensus 12 ~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s 60 (239)
++.+.|.++||+++|+ ++..++++|+.|... ....+|.|.+....
T Consensus 22 ~g~~~s~~~ia~~~~i----s~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~~~~ 71 (141)
T PRK11014 22 EGRMTSISEVTEVYGV----SRNHMVKIINQLSRAGYVTAVRGKNGGIRLGKPA 71 (141)
T ss_pred CCCccCHHHHHHHHCc----CHHHHHHHHHHHHhCCEEEEecCCCCCeeecCCH
Confidence 3468899999999999 999999999999997 22235667665443
No 214
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=89.18 E-value=0.19 Score=30.93 Aligned_cols=36 Identities=8% Similarity=0.322 Sum_probs=29.7
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|...|.+ +|.++.|||+.+|+ +...+.+-|+.|...
T Consensus 7 Il~~L~~----~~~~~~el~~~l~~----s~~~vs~hL~~L~~~ 42 (47)
T PF01022_consen 7 ILKLLSE----GPLTVSELAEELGL----SQSTVSHHLKKLREA 42 (47)
T ss_dssp HHHHHTT----SSEEHHHHHHHHTS-----HHHHHHHHHHHHHT
T ss_pred HHHHHHh----CCCchhhHHHhccc----cchHHHHHHHHHHHC
Confidence 4556776 79999999999999 999999999888643
No 215
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=89.08 E-value=0.29 Score=32.26 Aligned_cols=38 Identities=13% Similarity=0.160 Sum_probs=30.4
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+.. +|.|..|||+.+|+ +...++++|..|...
T Consensus 5 Il~~i~~~~--~p~~T~eiA~~~gl----s~~~aR~yL~~Le~e 42 (62)
T PF04703_consen 5 ILEYIKEQN--GPLKTREIADALGL----SIYQARYYLEKLEKE 42 (62)
T ss_dssp HHHHHHHHT--S-EEHHHHHHHHTS-----HHHHHHHHHHHHHC
T ss_pred HHHHHHHcC--CCCCHHHHHHHhCC----CHHHHHHHHHHHHHC
Confidence 455666632 79999999999999 999999999999886
No 216
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=88.83 E-value=0.68 Score=39.99 Aligned_cols=20 Identities=15% Similarity=0.384 Sum_probs=17.8
Q ss_pred HHHHHHHHhhCCCCceEEEE
Q 045543 151 LSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~ 170 (239)
...++.|+++|+++|.++..
T Consensus 170 ~eFy~~~~~~L~~~Gi~v~q 189 (282)
T COG0421 170 EEFYEGCRRALKEDGIFVAQ 189 (282)
T ss_pred HHHHHHHHHhcCCCcEEEEe
Confidence 58899999999999987775
No 217
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=88.70 E-value=1.1 Score=31.40 Aligned_cols=55 Identities=20% Similarity=0.251 Sum_probs=42.0
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C--CC-----CCCeEecChhhHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A--GD-----DRRLQRLAPVAKYVL 64 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~--~~-----~~~~y~~t~~s~~l~ 64 (239)
|+..|... ++.|..+||+.+++ ++..+.+.++-|... . .. ....|.+|+.+..+.
T Consensus 15 il~~l~~~---~~~~~~~la~~~~~----s~~~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~~~ 78 (101)
T smart00347 15 VLRILYEE---GPLSVSELAKRLGV----SPSTVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELI 78 (101)
T ss_pred HHHHHHHc---CCcCHHHHHHHHCC----CchhHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHHHH
Confidence 56677764 57999999999999 999999999999997 1 11 123577888876654
No 218
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=88.69 E-value=1.2 Score=28.12 Aligned_cols=36 Identities=11% Similarity=0.299 Sum_probs=31.0
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|+..|.. ++.|..+|++.+++ ++..+.+.|+.|...
T Consensus 2 il~~l~~----~~~~~~~i~~~l~i----s~~~v~~~l~~L~~~ 37 (66)
T smart00418 2 ILKLLAE----GELCVCELAEILGL----SQSTVSHHLKKLREA 37 (66)
T ss_pred HHHHhhc----CCccHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 4555663 68999999999999 999999999999986
No 219
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=88.67 E-value=0.25 Score=32.14 Aligned_cols=38 Identities=8% Similarity=0.254 Sum_probs=30.9
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.|+..|... +|.|+.|||+.+|+ ++..+.+-|+.|...
T Consensus 14 ~Il~~L~~~---~~~t~~ela~~l~~----~~~t~s~hL~~L~~a 51 (61)
T PF12840_consen 14 RILRLLASN---GPMTVSELAEELGI----SQSTVSYHLKKLEEA 51 (61)
T ss_dssp HHHHHHHHC---STBEHHHHHHHHTS-----HHHHHHHHHHHHHT
T ss_pred HHHHHHhcC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 466777432 79999999999999 999999999998765
No 220
>PF02527 GidB: rRNA small subunit methyltransferase G; InterPro: IPR003682 This entry represents a rRNA small subunit methyltransferase G. Previously identified as a glucose-inhibited division protein B that appears to be present and in a single copy in all complete eubacterial genomes so far sequenced. Specifically methylates the N7 position of a guanosine in 16S rRNA [, , ].; GO: 0008649 rRNA methyltransferase activity, 0006364 rRNA processing, 0005737 cytoplasm; PDB: 1XDZ_A 3G88_A 3G8A_B 3G89_B 3G8B_B 1JSX_A.
Probab=88.65 E-value=0.55 Score=37.95 Aligned_cols=32 Identities=13% Similarity=0.224 Sum_probs=25.9
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEe
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d 171 (239)
|+++.+.+- + ...+++-+...+++||+++..-
T Consensus 117 d~v~aRAv~---~---l~~l~~~~~~~l~~~G~~l~~K 148 (184)
T PF02527_consen 117 DVVTARAVA---P---LDKLLELARPLLKPGGRLLAYK 148 (184)
T ss_dssp EEEEEESSS---S---HHHHHHHHGGGEEEEEEEEEEE
T ss_pred cEEEeehhc---C---HHHHHHHHHHhcCCCCEEEEEc
Confidence 999988874 1 2478889999999999998864
No 221
>PRK04148 hypothetical protein; Provisional
Probab=88.35 E-value=1.6 Score=33.34 Aligned_cols=65 Identities=22% Similarity=0.173 Sum_probs=41.9
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC---------------------------------CccccccccC---Cc-ceeeech
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK---------------------------------CGWKMFQKIL---NG-DAILMKL 140 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~---------------------------------~~gD~~~~~p---~~-D~~~l~~ 140 (239)
.+.+.++ -.+..+++|||+|.|. +.+|.|++-+ ++ |+++..+
T Consensus 7 ~l~~~~~-~~~~~kileIG~GfG~~vA~~L~~~G~~ViaIDi~~~aV~~a~~~~~~~v~dDlf~p~~~~y~~a~liysir 85 (134)
T PRK04148 7 FIAENYE-KGKNKKIVELGIGFYFKVAKKLKESGFDVIVIDINEKAVEKAKKLGLNAFVDDLFNPNLEIYKNAKLIYSIR 85 (134)
T ss_pred HHHHhcc-cccCCEEEEEEecCCHHHHHHHHHCCCEEEEEECCHHHHHHHHHhCCeEEECcCCCCCHHHHhcCCEEEEeC
Confidence 3455555 3345789999999995 6678888544 23 8887654
Q ss_pred hhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 141 ILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 141 vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
+..+...-+.++++.. |.-++|.
T Consensus 86 -----pp~el~~~~~~la~~~--~~~~~i~ 108 (134)
T PRK04148 86 -----PPRDLQPFILELAKKI--NVPLIIK 108 (134)
T ss_pred -----CCHHHHHHHHHHHHHc--CCCEEEE
Confidence 4555566666666654 4445554
No 222
>PLN02823 spermine synthase
Probab=88.31 E-value=0.76 Score=40.71 Aligned_cols=20 Identities=10% Similarity=0.074 Sum_probs=16.0
Q ss_pred HHHHH-HHHhhCCCCceEEEE
Q 045543 151 LSLLK-NCYEAIPGNGKIIII 170 (239)
Q Consensus 151 ~~iL~-~~~~aL~pgg~lli~ 170 (239)
...++ .+++.|+|||.+++.
T Consensus 199 ~eF~~~~~~~~L~p~Gvlv~q 219 (336)
T PLN02823 199 KSFYERIVKPKLNPGGIFVTQ 219 (336)
T ss_pred HHHHHHHHHHhcCCCcEEEEe
Confidence 46777 899999999987653
No 223
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain. This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.
Probab=88.05 E-value=0.67 Score=30.79 Aligned_cols=48 Identities=10% Similarity=0.183 Sum_probs=36.8
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC----CCCCCCeEecCh
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS----AGDDRRLQRLAP 58 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~----~~~~~~~y~~t~ 58 (239)
.|+..|.+ ++.|.++||+++|+ +...+.+-++.|... ... +..|...+
T Consensus 4 ~il~~L~~----~~~~~~eLa~~l~v----S~~tv~~~l~~L~~~g~~i~~~-~~g~~l~~ 55 (69)
T TIGR00122 4 RLLALLAD----NPFSGEKLGEALGM----SRTAVNKHIQTLREWGVDVLTV-GKGYRLPP 55 (69)
T ss_pred HHHHHHHc----CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEec-CCceEecC
Confidence 35667776 68999999999999 999999999999665 223 45565543
No 224
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=88.01 E-value=0.7 Score=40.17 Aligned_cols=25 Identities=16% Similarity=0.546 Sum_probs=20.1
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
...+++..+ ..+..+|+|||||.|.
T Consensus 25 ~~~Iv~~~~-~~~~~~VLEIG~G~G~ 49 (294)
T PTZ00338 25 LDKIVEKAA-IKPTDTVLEIGPGTGN 49 (294)
T ss_pred HHHHHHhcC-CCCcCEEEEecCchHH
Confidence 456666666 6777899999999999
No 225
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=87.95 E-value=0.78 Score=35.85 Aligned_cols=51 Identities=16% Similarity=0.094 Sum_probs=38.8
Q ss_pred HhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhH
Q 045543 6 IMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAK 61 (239)
Q Consensus 6 ~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~ 61 (239)
.|+.++ +++.|+++||++.++ ++..|.++|..|... ..-..|.|.++.-.+
T Consensus 16 ~LA~~~-~~~~s~~eIA~~~~i----s~~~L~kIl~~L~~aGlv~S~rG~~GGy~La~~p~ 71 (153)
T PRK11920 16 YCAAND-GKLSRIPEIARAYGV----SELFLFKILQPLVEAGLVETVRGRNGGVRLGRPAA 71 (153)
T ss_pred HHHhCC-CCcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeecCCCCCeeecCCHH
Confidence 344332 367899999999999 999999999999886 223457788876554
No 226
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=87.83 E-value=0.98 Score=40.97 Aligned_cols=15 Identities=13% Similarity=0.073 Sum_probs=13.1
Q ss_pred CCcceEEEeCCCCCC
Q 045543 107 EKIKQLVDVGGGCGK 121 (239)
Q Consensus 107 ~~~~~vlDvGGG~G~ 121 (239)
.+.++|||+|||+|.
T Consensus 219 ~~g~rVLDlfsgtG~ 233 (396)
T PRK15128 219 VENKRVLNCFSYTGG 233 (396)
T ss_pred cCCCeEEEeccCCCH
Confidence 346899999999999
No 227
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=87.79 E-value=0.49 Score=28.80 Aligned_cols=23 Identities=30% Similarity=0.294 Sum_probs=17.9
Q ss_pred CCCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 15 KLSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 15 ~~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
+.|+.+||+.+|+ +..-+.|+|+
T Consensus 21 G~si~~IA~~~gv----sr~TvyR~l~ 43 (45)
T PF02796_consen 21 GMSIAEIAKQFGV----SRSTVYRYLN 43 (45)
T ss_dssp T--HHHHHHHTTS-----HHHHHHHHC
T ss_pred CCCHHHHHHHHCc----CHHHHHHHHh
Confidence 4999999999999 9999988874
No 228
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=87.69 E-value=1.5 Score=32.35 Aligned_cols=55 Identities=16% Similarity=0.226 Sum_probs=42.5
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C----CC---CCCeEecChhhHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A----GD---DRRLQRLAPVAKYVL 64 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~----~~---~~~~y~~t~~s~~l~ 64 (239)
|+..|... +++|..|||+.+++ ++..+.++++-|... . .+ ..-.+.+|+.++.+.
T Consensus 33 iL~~l~~~---~~~t~~ela~~~~~----~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~ 96 (118)
T TIGR02337 33 ILRILAEQ---GSMEFTQLANQACI----LRPSLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALY 96 (118)
T ss_pred HHHHHHHc---CCcCHHHHHHHhCC----CchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHH
Confidence 44556654 68999999999999 999999999999886 1 11 123689999998765
No 229
>COG4076 Predicted RNA methylase [General function prediction only]
Probab=87.44 E-value=0.38 Score=39.02 Aligned_cols=52 Identities=12% Similarity=0.114 Sum_probs=37.7
Q ss_pred Ccccccc-ccCCcceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeee
Q 045543 122 CGWKMFQ-KILNGDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDST 173 (239)
Q Consensus 122 ~~gD~~~-~~p~~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~ 173 (239)
+.||..+ ++..+|++++-.+=--+=++..+.+++.+.+-|+-+++++=.+..
T Consensus 85 v~gDA~~y~fe~ADvvicEmlDTaLi~E~qVpV~n~vleFLr~d~tiiPq~v~ 137 (252)
T COG4076 85 VVGDARDYDFENADVVICEMLDTALIEEKQVPVINAVLEFLRYDPTIIPQEVR 137 (252)
T ss_pred EecccccccccccceeHHHHhhHHhhcccccHHHHHHHHHhhcCCccccHHHh
Confidence 5666665 564569998776544455677789999999999999988765543
No 230
>PF07757 AdoMet_MTase: Predicted AdoMet-dependent methyltransferase; InterPro: IPR011671 tRNA (uracil-O(2)-)-methyltransferase catalyses the formation of O(2)-methyl-uracil at position 44 (m2U44) in tRNA(Ser) [].; GO: 0008168 methyltransferase activity
Probab=87.40 E-value=0.34 Score=35.56 Aligned_cols=23 Identities=35% Similarity=0.484 Sum_probs=16.7
Q ss_pred HHHhhccCCCCcceEEEeCCCCCC
Q 045543 98 RILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 98 ~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
-|-..+. -.+....||+|||.|.
T Consensus 49 LW~~~~~-~~~~~~FVDlGCGNGL 71 (112)
T PF07757_consen 49 LWRDMYG-EQKFQGFVDLGCGNGL 71 (112)
T ss_pred HHhcccC-CCCCCceEEccCCchH
Confidence 3444444 3467889999999999
No 231
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=87.36 E-value=0.52 Score=32.31 Aligned_cols=37 Identities=14% Similarity=0.252 Sum_probs=25.6
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
++..|+. | +|.|.++||.++|. ..+.+...|..+...
T Consensus 29 LLr~LA~-G--~PVt~~~LA~a~g~----~~e~v~~~L~~~p~t 65 (77)
T PF12324_consen 29 LLRLLAK-G--QPVTVEQLAAALGW----PVEEVRAALAAMPDT 65 (77)
T ss_dssp HHHHHTT-T--S-B-HHHHHHHHT------HHHHHHHHHH-TTS
T ss_pred HHHHHHc-C--CCcCHHHHHHHHCC----CHHHHHHHHHhCCCc
Confidence 3456666 4 89999999999999 898888888777665
No 232
>KOG1709 consensus Guanidinoacetate methyltransferase and related proteins [Amino acid transport and metabolism]
Probab=87.21 E-value=4.5 Score=33.66 Aligned_cols=142 Identities=12% Similarity=0.153 Sum_probs=76.9
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--------CCCCCCeEecChhhHHHHhcCCCcccccccCchHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--------AGDDRRLQRLAPVAKYVLHYGIGDYEHAGLDSRFNEVLN 85 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--------~~~~~~~y~~t~~s~~l~~~g~~~~~~l~~~~~~~~~f~ 85 (239)
.-.|+.+||-+.+. .+.-++|+.+-+.. .....+.|.+.|.....+.+ .++.-....=.
T Consensus 14 ~n~t~gd~a~ern~-----~rly~~lv~~gv~Selll~~l~rn~s~n~~~~a~~~qd~ls~--------~~D~ll~~~~k 80 (271)
T KOG1709|consen 14 ENKTVGDLALERNQ-----SRLYRRLVEAGVPSELLLFALGRNESPNADGNAPYLQDYLST--------AEDTLLDSLGK 80 (271)
T ss_pred hhCCchHHHHHccH-----HHHHHHHHHcCCchhhhhhccccccCccccccchHHHHHHhh--------hhhHHHhhccc
Confidence 35788999988886 44555555554443 12234466666666554422 11111111111
Q ss_pred HHHHhcccccHHHHHhhccCCCCcceEEEeCCCCCC------------------------------------------Cc
Q 045543 86 TAMLSHNSIVMNRILDYYKGFEKIKQLVDVGGGCGK------------------------------------------CG 123 (239)
Q Consensus 86 ~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvGGG~G~------------------------------------------~~ 123 (239)
..|..+....+...++.. +.+.++||.||=|-|. .-
T Consensus 81 ~VMm~WEtpiMha~A~ai--~tkggrvLnVGFGMgIidT~iQe~~p~~H~IiE~hp~V~krmr~~gw~ek~nViil~g~W 158 (271)
T KOG1709|consen 81 GVMMRWETPIMHALAEAI--STKGGRVLNVGFGMGIIDTFIQEAPPDEHWIIEAHPDVLKRMRDWGWREKENVIILEGRW 158 (271)
T ss_pred hhhhhhhhHHHHHHHHHH--hhCCceEEEeccchHHHHHHHhhcCCcceEEEecCHHHHHHHHhcccccccceEEEecch
Confidence 234444443334444443 4778999999999998 11
Q ss_pred cccccccCCc--ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 124 WKMFQKILNG--DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 124 gD~~~~~p~~--D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
.|....+|.+ |-|+.--.-. .-++.+..-+.+.+-|||+|.+=.+..
T Consensus 159 eDvl~~L~d~~FDGI~yDTy~e--~yEdl~~~hqh~~rLLkP~gv~SyfNg 207 (271)
T KOG1709|consen 159 EDVLNTLPDKHFDGIYYDTYSE--LYEDLRHFHQHVVRLLKPEGVFSYFNG 207 (271)
T ss_pred HhhhccccccCcceeEeechhh--HHHHHHHHHHHHhhhcCCCceEEEecC
Confidence 1222233432 4333322211 135677888899999999997765543
No 233
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=87.10 E-value=1.2 Score=29.12 Aligned_cols=48 Identities=13% Similarity=0.265 Sum_probs=36.3
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC------CCCCCCeEecCh
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS------AGDDRRLQRLAP 58 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~------~~~~~~~y~~t~ 58 (239)
|...|.. ++.+..||++.+++ +...+.+.|+.|... .......|..++
T Consensus 12 il~~l~~----~~~~~~ei~~~~~i----~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~ 65 (78)
T cd00090 12 ILRLLLE----GPLTVSELAERLGL----SQSTVSRHLKKLEEAGLVESRREGRRVYYSLTD 65 (78)
T ss_pred HHHHHHH----CCcCHHHHHHHHCc----CHhHHHHHHHHHHHCCCeEEEEeccEEEEEeCC
Confidence 4455565 35999999999999 999999999999875 112346677775
No 234
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=86.55 E-value=1.4 Score=33.67 Aligned_cols=47 Identities=11% Similarity=0.100 Sum_probs=39.4
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CC-CCCCeEecChhhHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AG-DDRRLQRLAPVAKYVL 64 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~-~~~~~y~~t~~s~~l~ 64 (239)
++.++.+||+.+++ ++..+.+.++.|... .. ...+.|.+|+.++.+.
T Consensus 21 ~~~~~~ela~~l~v----s~~svs~~l~~L~~~Gli~~~~~~~i~LT~~G~~~a 70 (142)
T PRK03902 21 GYARVSDIAEALSV----HPSSVTKMVQKLDKDEYLIYEKYRGLVLTPKGKKIG 70 (142)
T ss_pred CCcCHHHHHHHhCC----ChhHHHHHHHHHHHCCCEEEecCceEEECHHHHHHH
Confidence 68999999999999 999999999999987 22 2457799999986543
No 235
>PF11899 DUF3419: Protein of unknown function (DUF3419); InterPro: IPR021829 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 398 to 802 amino acids in length.
Probab=86.52 E-value=0.9 Score=40.97 Aligned_cols=47 Identities=6% Similarity=0.054 Sum_probs=39.6
Q ss_pred ccCC-c-ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecC
Q 045543 129 KILN-G-DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTV 175 (239)
Q Consensus 129 ~~p~-~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~ 175 (239)
..|. . |.+.++.+.--+++++...+++.+.++++|||||+.--...+
T Consensus 290 ~~~~~s~~~~vL~D~~Dwm~~~~~~~~~~~l~~~~~pgaRV~~Rsa~~~ 338 (380)
T PF11899_consen 290 RLPPGSFDRFVLSDHMDWMDPEQLNEEWQELARTARPGARVLWRSAAVP 338 (380)
T ss_pred hCCCCCeeEEEecchhhhCCHHHHHHHHHHHHHHhCCCCEEEEeeCCCC
Confidence 4554 3 999999999767899999999999999999999998665444
No 236
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=86.01 E-value=0.67 Score=39.67 Aligned_cols=25 Identities=20% Similarity=0.433 Sum_probs=20.0
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
+..+++.++ +.+..+|+|||||+|.
T Consensus 31 ~~~i~~~l~-~~~~~~VLEiG~G~G~ 55 (272)
T PRK00274 31 LDKIVDAAG-PQPGDNVLEIGPGLGA 55 (272)
T ss_pred HHHHHHhcC-CCCcCeEEEeCCCccH
Confidence 345666666 7777899999999999
No 237
>KOG3115 consensus Methyltransferase-like protein [General function prediction only]
Probab=85.99 E-value=1 Score=36.99 Aligned_cols=24 Identities=17% Similarity=0.205 Sum_probs=19.6
Q ss_pred HHHHHHHHHhhCCCCceEEEEeee
Q 045543 150 CLSLLKNCYEAIPGNGKIIIIDST 173 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~d~~ 173 (239)
+..++.+.+-.|++||.++.+.-+
T Consensus 162 ~~~l~~eyay~l~~gg~~ytitDv 185 (249)
T KOG3115|consen 162 TSTLLSEYAYVLREGGILYTITDV 185 (249)
T ss_pred chhHHHHHHhhhhcCceEEEEeeH
Confidence 457888999999999999987544
No 238
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=85.98 E-value=0.93 Score=36.42 Aligned_cols=37 Identities=16% Similarity=0.262 Sum_probs=33.2
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|+++|..+ |++|.++||+.+|+ +...++++|..|...
T Consensus 27 Vl~~L~~~---g~~tdeeLA~~Lgi----~~~~VRk~L~~L~e~ 63 (178)
T PRK06266 27 VLKALIKK---GEVTDEEIAEQTGI----KLNTVRKILYKLYDA 63 (178)
T ss_pred HHHHHHHc---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 67777775 69999999999999 999999999999886
No 239
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=85.76 E-value=1.4 Score=36.05 Aligned_cols=55 Identities=11% Similarity=0.152 Sum_probs=41.3
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C--C---CCCCe----EecChhhHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A--G---DDRRL----QRLAPVAKYVL 64 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~--~---~~~~~----y~~t~~s~~l~ 64 (239)
|...|... ++.|..|||+.+|+ ++..+.+.|+.|... . . ...|+ |.+|+.++.+.
T Consensus 6 IL~~L~~~---~~~t~~eLA~~lgi----s~~tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~~ 71 (203)
T TIGR02702 6 ILSYLLKQ---GQATAAALAEALAI----SPQAVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQF 71 (203)
T ss_pred HHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhhc
Confidence 45566654 58999999999999 999999999999886 1 1 11233 78888776543
No 240
>PHA03412 putative methyltransferase; Provisional
Probab=85.71 E-value=1 Score=37.93 Aligned_cols=13 Identities=31% Similarity=0.475 Sum_probs=11.9
Q ss_pred cceEEEeCCCCCC
Q 045543 109 IKQLVDVGGGCGK 121 (239)
Q Consensus 109 ~~~vlDvGGG~G~ 121 (239)
..+|||+|||+|.
T Consensus 50 ~grVLDlG~GSG~ 62 (241)
T PHA03412 50 SGSVVDLCAGIGG 62 (241)
T ss_pred CCEEEEccChHHH
Confidence 5799999999998
No 241
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=85.38 E-value=1.4 Score=36.60 Aligned_cols=35 Identities=20% Similarity=0.315 Sum_probs=30.8
Q ss_pred hHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 5 EIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 5 d~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
..|.++ +|+|+.|||+++|+ ++..+++-|..|...
T Consensus 18 ~lL~~~---g~~sa~elA~~Lgi----s~~avR~HL~~Le~~ 52 (218)
T COG2345 18 ELLKKS---GPVSADELAEELGI----SPMAVRRHLDDLEAE 52 (218)
T ss_pred HHHhcc---CCccHHHHHHHhCC----CHHHHHHHHHHHHhC
Confidence 345554 79999999999999 999999999999986
No 242
>KOG0820 consensus Ribosomal RNA adenine dimethylase [RNA processing and modification]
Probab=85.04 E-value=1 Score=38.59 Aligned_cols=26 Identities=23% Similarity=0.558 Sum_probs=22.2
Q ss_pred cHHHHHhhccCCCCcceEEEeCCCCCC
Q 045543 95 VMNRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 95 ~~~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
.+..|++.-+ ..+...||.||.|+|.
T Consensus 46 v~~~I~~ka~-~k~tD~VLEvGPGTGn 71 (315)
T KOG0820|consen 46 VIDQIVEKAD-LKPTDVVLEVGPGTGN 71 (315)
T ss_pred HHHHHHhccC-CCCCCEEEEeCCCCCH
Confidence 3567777777 8889999999999999
No 243
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=84.61 E-value=1.5 Score=26.73 Aligned_cols=37 Identities=19% Similarity=0.359 Sum_probs=31.3
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+. ++.|+.+|++.+++ ++..+.+.|+.|...
T Consensus 5 il~~l~~~---~~~s~~~l~~~l~~----s~~tv~~~l~~L~~~ 41 (53)
T smart00420 5 ILELLAQQ---GKVSVEELAELLGV----SEMTIRRDLNKLEEQ 41 (53)
T ss_pred HHHHHHHc---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 45566664 57999999999999 999999999999776
No 244
>COG3315 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=84.55 E-value=2.6 Score=36.69 Aligned_cols=165 Identities=13% Similarity=0.079 Sum_probs=93.9
Q ss_pred EecChhhHHHHhcCCCccccccc------CchHHHHHHHHHHhcccccHHHHHhhccCCCCcceEEEeCCCCCC------
Q 045543 54 QRLAPVAKYVLHYGIGDYEHAGL------DSRFNEVLNTAMLSHNSIVMNRILDYYKGFEKIKQLVDVGGGCGK------ 121 (239)
Q Consensus 54 y~~t~~s~~l~~~g~~~~~~l~~------~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvGGG~G~------ 121 (239)
..+.|.+..|+..+...|..+.. ..+..+.+ .++...++..-..+.+..+ .+.+.||-+|||-=+
T Consensus 35 L~~D~~A~~lv~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~a~Rtr~fD~~~~~~~~--~g~~qvViLgaGLDTRayRl~ 111 (297)
T COG3315 35 LIDDPFAEELVRQGDDDFTKLADPALALGGGDFLERM-NFLAARTRYFDDFVRAALD--AGIRQVVILGAGLDTRAYRLD 111 (297)
T ss_pred ccCCHHHHHHHhhhHHHHHHhcChhhhcccchhhhhh-hhHHHHHHHHHHHHHHHHH--hcccEEEEeccccccceeecC
Confidence 67788888887433333443321 11111222 2344444433233333333 347899999999655
Q ss_pred ------------------------------------Ccccccc-ccCC----------c-ceeeechhhhcCChhHHHHH
Q 045543 122 ------------------------------------CGWKMFQ-KILN----------G-DAILMKLILRNWDDEHCLSL 153 (239)
Q Consensus 122 ------------------------------------~~gD~~~-~~p~----------~-D~~~l~~vlH~~~d~~~~~i 153 (239)
++.|+++ +.|+ . =++++-.+|-.++.+...++
T Consensus 112 ~~~~~~vfEvD~Pevi~~K~~~l~e~~~~~~~~~~~Va~Dl~~~dw~~~L~~~G~d~~~pt~~iaEGLl~YL~~~~v~~l 191 (297)
T COG3315 112 WPKGTRVFEVDLPEVIEFKKKLLAERGATPPAHRRLVAVDLREDDWPQALAAAGFDRSRPTLWIAEGLLMYLPEEAVDRL 191 (297)
T ss_pred CCCCCeEEECCCcHHHHHHHHHhhhcCCCCCceEEEEeccccccchHHHHHhcCCCcCCCeEEEeccccccCCHHHHHHH
Confidence 7889984 4331 1 48999999999999999999
Q ss_pred HHHHHhhCCCCceEEEEeeecCCCCCC---ChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeE
Q 045543 154 LKNCYEAIPGNGKIIIIDSTTVVIPEA---TPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNY 225 (239)
Q Consensus 154 L~~~~~aL~pgg~lli~d~~~~~~~~~---~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~ 225 (239)
|++|....+||++++............ +.........++...-....+ ....|+ ..|+.+.||.....
T Consensus 192 l~~I~~~~~~gS~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~--~~~~e~--~~~l~~~g~~~~~~ 262 (297)
T COG3315 192 LSRIAALSAPGSRVAFDYSLPGSLRDRLRRPAARKTMRGEDLDRGELVYFG--DDPAEI--ETWLAERGWRSTLN 262 (297)
T ss_pred HHHHHHhCCCCceEEEeccccHHHHhcccchhhhhhccccccccccceecc--CCHHHH--HHHHHhcCEEEEec
Confidence 999999999999877643311111000 000000000011000000011 245778 99999999998765
No 245
>PRK11050 manganese transport regulator MntR; Provisional
Probab=84.48 E-value=2 Score=33.48 Aligned_cols=47 Identities=15% Similarity=0.169 Sum_probs=39.6
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC---CCCCCCeEecChhhHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS---AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~---~~~~~~~y~~t~~s~~l~ 64 (239)
++.+..|||+.+++ ++..+.+.++.|... .....+.+.+|+.++.+.
T Consensus 50 ~~~t~~eLA~~l~i----s~stVsr~l~~Le~~GlI~r~~~~~v~LT~~G~~l~ 99 (152)
T PRK11050 50 GEARQVDIAARLGV----SQPTVAKMLKRLARDGLVEMRPYRGVFLTPEGEKLA 99 (152)
T ss_pred CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEecCCceEECchHHHHH
Confidence 68999999999999 999999999999987 222345688999988775
No 246
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=84.21 E-value=0.51 Score=38.79 Aligned_cols=35 Identities=17% Similarity=0.302 Sum_probs=25.5
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeee
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDST 173 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~ 173 (239)
|+|++-. +..+-...++.+.+.|+|||.|++-+.+
T Consensus 123 D~VFiDa-----~K~~y~~y~~~~~~ll~~ggvii~DN~l 157 (205)
T PF01596_consen 123 DFVFIDA-----DKRNYLEYFEKALPLLRPGGVIIADNVL 157 (205)
T ss_dssp EEEEEES-----TGGGHHHHHHHHHHHEEEEEEEEEETTT
T ss_pred eEEEEcc-----cccchhhHHHHHhhhccCCeEEEEcccc
Confidence 8887754 4555678899999999999966554433
No 247
>COG1889 NOP1 Fibrillarin-like rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=84.09 E-value=23 Score=29.31 Aligned_cols=70 Identities=11% Similarity=0.069 Sum_probs=42.2
Q ss_pred hhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEE
Q 045543 147 DEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYE 226 (239)
Q Consensus 147 d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~ 226 (239)
.+++.-+..|+..-|++||.++|.=-...-+.+.+ .++. .++- .+-|++.||++.+..
T Consensus 156 p~Qa~I~~~Na~~FLk~~G~~~i~iKArSIdvT~d-------------------p~~v-f~~e--v~kL~~~~f~i~e~~ 213 (231)
T COG1889 156 PNQAEILADNAEFFLKKGGYVVIAIKARSIDVTAD-------------------PEEV-FKDE--VEKLEEGGFEILEVV 213 (231)
T ss_pred chHHHHHHHHHHHhcccCCeEEEEEEeecccccCC-------------------HHHH-HHHH--HHHHHhcCceeeEEe
Confidence 45667778889999999997776422211111111 1111 1122 455778899999887
Q ss_pred EcC---CceeEEEEE
Q 045543 227 SFV---CNFYIMEFI 238 (239)
Q Consensus 227 ~~~---~~~~vie~~ 238 (239)
.+. ..|.+|.+.
T Consensus 214 ~LePye~DH~~i~~~ 228 (231)
T COG1889 214 DLEPYEKDHALIVAK 228 (231)
T ss_pred ccCCcccceEEEEEe
Confidence 763 467777765
No 248
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=84.02 E-value=1.1 Score=26.63 Aligned_cols=29 Identities=17% Similarity=0.302 Sum_probs=22.4
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.+.|+++||+.+|. ++..+.|+.+....+
T Consensus 7 ~~~~l~~iA~~~g~----S~~~f~r~Fk~~~g~ 35 (42)
T PF00165_consen 7 QKLTLEDIAEQAGF----SPSYFSRLFKKETGM 35 (42)
T ss_dssp SS--HHHHHHHHTS-----HHHHHHHHHHHTSS
T ss_pred CCCCHHHHHHHHCC----CHHHHHHHHHHHHCc
Confidence 48999999999999 999999998876543
No 249
>PF09929 DUF2161: Uncharacterized conserved protein (DUF2161); InterPro: IPR018679 This family of various hypothetical prokaryotic proteins has no known function.
Probab=83.52 E-value=1.2 Score=33.03 Aligned_cols=53 Identities=9% Similarity=0.068 Sum_probs=37.4
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-CCCCCCeEecChhhHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-AGDDRRLQRLAPVAKY 62 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-~~~~~~~y~~t~~s~~ 62 (239)
.+..+|+++ ||.+..+|++.++. +.....|.+-=... +..+.|.|.+|+.++.
T Consensus 63 ~~A~~L~~~---Gp~~~~~l~~~~~~-----~~A~~IL~~N~YGWFeRv~rGvY~LT~~G~~ 116 (118)
T PF09929_consen 63 RCAAALAEH---GPSRPADLRKATGV-----PKATSILRDNHYGWFERVERGVYALTPAGRA 116 (118)
T ss_pred HHHHHHHHc---CCCCHHHHHHhcCC-----ChHHHHHHhCcccceeeeccceEecCcchhh
Confidence 356678875 69999999999998 44443333333333 5677899999998753
No 250
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=83.47 E-value=1.8 Score=29.80 Aligned_cols=37 Identities=22% Similarity=0.360 Sum_probs=33.4
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|=|.|+.+ |..++.+||..+++ +++.++-+|..|+..
T Consensus 7 lRd~l~~~---gr~s~~~Ls~~~~~----p~~~VeaMLe~l~~k 43 (78)
T PRK15431 7 VRDLLALR---GRMEAAQISQTLNT----PQPMINAMLQQLESM 43 (78)
T ss_pred HHHHHHHc---CcccHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 44778886 69999999999999 999999999999997
No 251
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=83.36 E-value=2 Score=36.54 Aligned_cols=53 Identities=8% Similarity=0.171 Sum_probs=42.7
Q ss_pred chHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CCCCCCeEecChhhHHHH
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~~~~~~y~~t~~s~~l~ 64 (239)
.=.|.+ ||.|.+||-..+++ ++..+..=++-|... ..++++.|.+|+.++..+
T Consensus 19 LllL~e----gPkti~EI~~~l~v----s~~ai~pqiKkL~~~~LV~~~~~~Y~LS~~G~iiv 73 (260)
T COG4742 19 LLLLKE----GPKTIEEIKNELNV----SSSAILPQIKKLKDKGLVVQEGDRYSLSSLGKIIV 73 (260)
T ss_pred HHHHHh----CCCCHHHHHHHhCC----CcHHHHHHHHHHhhCCCEEecCCEEEecchHHHHH
Confidence 345666 79999999999999 787777777777665 556799999999998766
No 252
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=83.34 E-value=1.7 Score=28.88 Aligned_cols=57 Identities=12% Similarity=0.166 Sum_probs=38.9
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCC-CCCChhhHHHHHHHhccC--CC-CCCCeEecChhhH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSH-NPNAAVMLDRVLRRSLSS--AG-DDRRLQRLAPVAK 61 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~-~~~~~~~l~rlL~~L~~~--~~-~~~~~y~~t~~s~ 61 (239)
|.++|.+++ +|++..+|++.+... ....++.++|-|++|... .. ...+.+..|+.+.
T Consensus 3 IL~~L~~~~--~P~g~~~l~~~L~~~g~~~se~avRrrLr~me~~Glt~~~g~~G~~iT~~G~ 63 (66)
T PF08461_consen 3 ILRILAESD--KPLGRKQLAEELKLRGEELSEEAVRRRLRAMERDGLTRKVGRQGRIITEKGL 63 (66)
T ss_pred HHHHHHHcC--CCCCHHHHHHHHHhcChhhhHHHHHHHHHHHHHCCCccccCCcccccCHHHH
Confidence 567788765 899999999999652 111468899999999876 22 2233345666544
No 253
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=83.32 E-value=1.3 Score=28.34 Aligned_cols=37 Identities=16% Similarity=0.344 Sum_probs=32.8
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+. +.+|++|||+.+++ ++.-++|=|..|...
T Consensus 5 Il~~l~~~---~~~s~~ela~~~~V----S~~TiRRDl~~L~~~ 41 (57)
T PF08220_consen 5 ILELLKEK---GKVSVKELAEEFGV----SEMTIRRDLNKLEKQ 41 (57)
T ss_pred HHHHHHHc---CCEEHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 55677775 69999999999999 999999999999887
No 254
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=82.53 E-value=1.6 Score=34.39 Aligned_cols=37 Identities=11% Similarity=0.117 Sum_probs=33.0
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|+++|-.+ +.+|-+|||+.+|+ +...++++|..|...
T Consensus 19 Vl~aL~~~---~~~tdEeLa~~Lgi----~~~~VRk~L~~L~e~ 55 (158)
T TIGR00373 19 VLFSLGIK---GEFTDEEISLELGI----KLNEVRKALYALYDA 55 (158)
T ss_pred HHHHHhcc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 67777754 69999999999999 999999999999886
No 255
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=82.29 E-value=2.6 Score=30.77 Aligned_cols=42 Identities=17% Similarity=0.257 Sum_probs=32.5
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCC-CCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSH-NPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~-~~~~~~~l~rlL~~L~~~ 46 (239)
|++.|.+.+ ++.|++||.+++.-+ +..+...++|.|+.|+..
T Consensus 6 Il~~l~~~~--~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~ 48 (116)
T cd07153 6 ILEVLLESD--GHLTAEEIYERLRKKGPSISLATVYRTLELLEEA 48 (116)
T ss_pred HHHHHHhCC--CCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhC
Confidence 677887653 799999999998321 011888999999999997
No 256
>PRK00536 speE spermidine synthase; Provisional
Probab=82.02 E-value=2.1 Score=36.54 Aligned_cols=30 Identities=17% Similarity=0.247 Sum_probs=22.1
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+|+.-.. .+ ....+.|+++|+|||.++..
T Consensus 141 DVIIvDs~----~~---~~fy~~~~~~L~~~Gi~v~Q 170 (262)
T PRK00536 141 DLIICLQE----PD---IHKIDGLKRMLKEDGVFISV 170 (262)
T ss_pred CEEEEcCC----CC---hHHHHHHHHhcCCCcEEEEC
Confidence 88776532 22 36679999999999977763
No 257
>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases. ; GO: 0008168 methyltransferase activity
Probab=81.64 E-value=3.6 Score=38.22 Aligned_cols=67 Identities=16% Similarity=0.284 Sum_probs=52.9
Q ss_pred CCCcceEEEeCCCCCC----------------------------------Ccccccccc---CCc-ceeeechhhhcCCh
Q 045543 106 FEKIKQLVDVGGGCGK----------------------------------CGWKMFQKI---LNG-DAILMKLILRNWDD 147 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~----------------------------------~~gD~~~~~---p~~-D~~~l~~vlH~~~d 147 (239)
+...+-|+|...|.|. +-+|.-+++ |.. |++-..+++-.+.+
T Consensus 363 ~~~iRNVMDMnAg~GGFAAAL~~~~VWVMNVVP~~~~ntL~vIydRGLIG~yhDWCE~fsTYPRTYDLlHA~~lfs~~~~ 442 (506)
T PF03141_consen 363 WGRIRNVMDMNAGYGGFAAALIDDPVWVMNVVPVSGPNTLPVIYDRGLIGVYHDWCEAFSTYPRTYDLLHADGLFSLYKD 442 (506)
T ss_pred ccceeeeeeecccccHHHHHhccCCceEEEecccCCCCcchhhhhcccchhccchhhccCCCCcchhheehhhhhhhhcc
Confidence 5678999999999999 445665544 555 99999999887753
Q ss_pred h-HHHHHHHHHHhhCCCCceEEEEee
Q 045543 148 E-HCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 148 ~-~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
. +...||-.+-+.|+|+|.++|-|.
T Consensus 443 rC~~~~illEmDRILRP~G~~iiRD~ 468 (506)
T PF03141_consen 443 RCEMEDILLEMDRILRPGGWVIIRDT 468 (506)
T ss_pred cccHHHHHHHhHhhcCCCceEEEecc
Confidence 3 345899999999999999988664
No 258
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=81.57 E-value=1.9 Score=36.28 Aligned_cols=95 Identities=14% Similarity=0.172 Sum_probs=60.0
Q ss_pred CCCcceEEEeCCCCCC------------------------------------------Ccccccc---ccCC-c-ceeee
Q 045543 106 FEKIKQLVDVGGGCGK------------------------------------------CGWKMFQ---KILN-G-DAILM 138 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~------------------------------------------~~gD~~~---~~p~-~-D~~~l 138 (239)
.++..+|+|..+|-|- +-||.++ .++. . |++
T Consensus 132 ~~~G~rVLDtC~GLGYtAi~a~~rGA~~VitvEkdp~VLeLa~lNPwSr~l~~~~i~iilGD~~e~V~~~~D~sfDaI-- 209 (287)
T COG2521 132 VKRGERVLDTCTGLGYTAIEALERGAIHVITVEKDPNVLELAKLNPWSRELFEIAIKIILGDAYEVVKDFDDESFDAI-- 209 (287)
T ss_pred cccCCEeeeeccCccHHHHHHHHcCCcEEEEEeeCCCeEEeeccCCCCccccccccEEecccHHHHHhcCCccccceE--
Confidence 3567899999999987 5566665 3443 2 655
Q ss_pred chhhhcCC------hhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHH
Q 045543 139 KLILRNWD------DEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGM 212 (239)
Q Consensus 139 ~~vlH~~~------d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~ 212 (239)
+||-| .=-...+-+.+++.|+|||+++=. +-.+.. ++ .-.|+ .... .
T Consensus 210 ---iHDPPRfS~AgeLYseefY~El~RiLkrgGrlFHY--vG~Pg~------ry-rG~d~-------------~~gV--a 262 (287)
T COG2521 210 ---IHDPPRFSLAGELYSEEFYRELYRILKRGGRLFHY--VGNPGK------RY-RGLDL-------------PKGV--A 262 (287)
T ss_pred ---eeCCCccchhhhHhHHHHHHHHHHHcCcCCcEEEE--eCCCCc------cc-ccCCh-------------hHHH--H
Confidence 45432 123467889999999999998643 222111 01 11221 1344 8
Q ss_pred HHHhhCCCceeeEEEcC
Q 045543 213 ALTAKNGFKGVNYESFV 229 (239)
Q Consensus 213 ~ll~~aGf~~~~~~~~~ 229 (239)
+.|+++||..++.....
T Consensus 263 ~RLr~vGF~~v~~~~~~ 279 (287)
T COG2521 263 ERLRRVGFEVVKKVREA 279 (287)
T ss_pred HHHHhcCceeeeeehhc
Confidence 88999999988776543
No 259
>PF01564 Spermine_synth: Spermine/spermidine synthase; InterPro: IPR001045 Synonym(s): Spermidine aminopropyltransferase A group of polyamine biosynthetic enzymes involved in the fifth (last) step in the biosynthesis of spermidine from arginine and methionine which includes; spermidine synthase (2.5.1.16 from EC), spermine synthase (2.5.1.22 from EC) and putrescine N-methyltransferase (2.1.1.53 from EC) []. The Thermotoga maritima spermidine synthase monomer consists of two domains: an N-terminal domain composed of six beta-strands, and a Rossmann-like C- terminal domain []. The larger C-terminal catalytic core domain consists of a seven-stranded beta-sheet flanked by nine alpha helices. This domain resembles a topology observed in a number of nucleotide and dinucleotide-binding enzymes, and in S-adenosyl-L-methionine (AdoMet)- dependent methyltransferase (MTases) [].; GO: 0003824 catalytic activity; PDB: 2E5W_C 2ZSU_E 2O0L_B 2O05_B 2O06_B 2O07_B 3RW9_B 2PWP_A 2HTE_B 3RIE_B ....
Probab=81.12 E-value=1.4 Score=37.25 Aligned_cols=22 Identities=9% Similarity=0.326 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhCCCCceEEEEe
Q 045543 150 CLSLLKNCYEAIPGNGKIIIID 171 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~d 171 (239)
....++.++++|+|||.+++.-
T Consensus 170 t~ef~~~~~~~L~~~Gv~v~~~ 191 (246)
T PF01564_consen 170 TREFYQLCKRRLKPDGVLVLQA 191 (246)
T ss_dssp SHHHHHHHHHHEEEEEEEEEEE
T ss_pred CHHHHHHHHhhcCCCcEEEEEc
Confidence 3578899999999999877754
No 260
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=81.11 E-value=2.3 Score=31.71 Aligned_cols=51 Identities=16% Similarity=0.245 Sum_probs=38.3
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC----CCCC--CCeEecChh
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS----AGDD--RRLQRLAPV 59 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~----~~~~--~~~y~~t~~ 59 (239)
.|+..|.+. ++.++.|||+.+++ .+..+.+-|+.|... .+.. .-.|+.++.
T Consensus 20 ~IL~~L~~~---~~~~v~ela~~l~l----sqstvS~HL~~L~~AGLV~~~r~Gr~~~Y~l~~~ 76 (117)
T PRK10141 20 GIVLLLRES---GELCVCDLCTALDQ----SQPKISRHLALLRESGLLLDRKQGKWVHYRLSPH 76 (117)
T ss_pred HHHHHHHHc---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCceEEEEEcCEEEEEECch
Confidence 466777653 58999999999999 999999999999876 2221 223777664
No 261
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=80.98 E-value=1.6 Score=36.43 Aligned_cols=20 Identities=15% Similarity=0.137 Sum_probs=17.6
Q ss_pred HHHHHHHHhhCCCCceEEEE
Q 045543 151 LSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~ 170 (239)
...|+.+++.|+|||.|.+.
T Consensus 144 ~~fl~~~a~~Lk~gG~l~~a 163 (227)
T COG0220 144 PEFLKLYARKLKPGGVLHFA 163 (227)
T ss_pred HHHHHHHHHHccCCCEEEEE
Confidence 47899999999999998874
No 262
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=80.54 E-value=2.4 Score=25.41 Aligned_cols=33 Identities=18% Similarity=0.388 Sum_probs=22.8
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
|...|.+. +..|..+||+++|+ ++..+.+=++.
T Consensus 8 Il~~Lq~d---~r~s~~~la~~lgl----S~~~v~~Ri~r 40 (42)
T PF13404_consen 8 ILRLLQED---GRRSYAELAEELGL----SESTVRRRIRR 40 (42)
T ss_dssp HHHHHHH----TTS-HHHHHHHHTS-----HHHHHHHHHH
T ss_pred HHHHHHHc---CCccHHHHHHHHCc----CHHHHHHHHHH
Confidence 45667764 69999999999999 88776654443
No 263
>PRK13239 alkylmercury lyase; Provisional
Probab=80.39 E-value=2.6 Score=34.64 Aligned_cols=37 Identities=19% Similarity=0.310 Sum_probs=32.3
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|+..|++ | +|.|.++||+.+|. +.+.+++.|+.|...
T Consensus 27 llr~la~-G--~pvt~~~lA~~~~~----~~~~v~~~L~~l~~~ 63 (206)
T PRK13239 27 LLRLLAK-G--RPVSVTTLAAALGW----PVEEVEAVLEAMPDT 63 (206)
T ss_pred HHHHHHc-C--CCCCHHHHHHHhCC----CHHHHHHHHHhCCCe
Confidence 4566775 4 89999999999999 999999999998876
No 264
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=80.31 E-value=1.6 Score=24.68 Aligned_cols=26 Identities=12% Similarity=0.243 Sum_probs=20.7
Q ss_pred CCCHHHHHHhCCCCCCCChhhHHHHHHHhc
Q 045543 15 KLSAAEIEAQMPSHNPNAAVMLDRVLRRSL 44 (239)
Q Consensus 15 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 44 (239)
|+|-+|||+.+|+ .++-+.|+|.-|.
T Consensus 2 ~mtr~diA~~lG~----t~ETVSR~l~~l~ 27 (32)
T PF00325_consen 2 PMTRQDIADYLGL----TRETVSRILKKLE 27 (32)
T ss_dssp E--HHHHHHHHTS-----HHHHHHHHHHHH
T ss_pred CcCHHHHHHHhCC----cHHHHHHHHHHHH
Confidence 5788999999999 9999999998764
No 265
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=79.77 E-value=3.9 Score=33.96 Aligned_cols=37 Identities=16% Similarity=0.268 Sum_probs=27.2
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCC
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVV 176 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~ 176 (239)
|++|+ |-+..+-...|..+.+.|+|||.+ |.|.++..
T Consensus 134 DliFI-----DadK~~yp~~le~~~~lLr~GGli-v~DNvl~~ 170 (219)
T COG4122 134 DLVFI-----DADKADYPEYLERALPLLRPGGLI-VADNVLFG 170 (219)
T ss_pred cEEEE-----eCChhhCHHHHHHHHHHhCCCcEE-EEeecccC
Confidence 77766 445566678999999999999955 55655544
No 266
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=79.39 E-value=1.9 Score=31.20 Aligned_cols=37 Identities=5% Similarity=0.276 Sum_probs=28.5
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|++.|..+ +.++-++||+.+++ ++.-++++|..|...
T Consensus 18 Il~~L~~~---~~l~de~la~~~~l----~~~~vRkiL~~L~~~ 54 (105)
T PF02002_consen 18 ILDALLRK---GELTDEDLAKKLGL----KPKEVRKILYKLYED 54 (105)
T ss_dssp HHHHHHHH-----B-HHHHHHTT-S-----HHHHHHHHHHHHHH
T ss_pred HHHHHHHc---CCcCHHHHHHHhCC----CHHHHHHHHHHHHHC
Confidence 67888865 68999999999999 999999999999775
No 267
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=79.37 E-value=2.1 Score=36.24 Aligned_cols=35 Identities=23% Similarity=0.289 Sum_probs=24.4
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeec
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTT 174 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~ 174 (239)
|++++- -+.+.-...++.+.+.|+|||.| |+|.++
T Consensus 158 D~iFiD-----adK~~Y~~y~~~~l~ll~~GGvi-v~DNvl 192 (247)
T PLN02589 158 DFIFVD-----ADKDNYINYHKRLIDLVKVGGVI-GYDNTL 192 (247)
T ss_pred cEEEec-----CCHHHhHHHHHHHHHhcCCCeEE-EEcCCC
Confidence 666654 33555678888999999999975 445543
No 268
>PRK02399 hypothetical protein; Provisional
Probab=79.36 E-value=9 Score=34.79 Aligned_cols=109 Identities=13% Similarity=0.145 Sum_probs=65.7
Q ss_pred hccCCCCcceEEEeCCCCCC----------------------CccccccccC-CcceeeechhhhcCC-hhHHHHHHHHH
Q 045543 102 YYKGFEKIKQLVDVGGGCGK----------------------CGWKMFQKIL-NGDAILMKLILRNWD-DEHCLSLLKNC 157 (239)
Q Consensus 102 ~~~~~~~~~~vlDvGGG~G~----------------------~~gD~~~~~p-~~D~~~l~~vlH~~~-d~~~~~iL~~~ 157 (239)
.|. =.+..-|+-+||+.|. -.||. .++- ..|+.++-+|.--.. +.-++++|+|.
T Consensus 90 L~~-~g~i~gviglGGs~GT~lat~aMr~LPiG~PKlmVSTmAsg~~-~~yvg~sDI~mm~SV~DiaGlN~isr~vl~NA 167 (406)
T PRK02399 90 LYE-RGDVAGVIGLGGSGGTALATPAMRALPIGVPKLMVSTMASGDV-SPYVGASDIAMMYSVTDIAGLNRISRQVLSNA 167 (406)
T ss_pred HHh-cCCccEEEEecCcchHHHHHHHHHhCCCCCCeEEEEccccCCC-cCccccCCEEEeccccccccchHHHHHHHHHH
Confidence 444 3457789999999998 23442 2322 239999998884221 56689999999
Q ss_pred HhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEEEcC
Q 045543 158 YEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 158 ~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~ 229 (239)
+.|+. | -. .........+. ....++|+- -...-.... ++.|++.||++.-++..+
T Consensus 168 A~aia-G-m~--~~~~~~~~~~k-------p~Ig~TmfG----vTtp~v~~~--~~~Le~~GyEvlVFHATG 222 (406)
T PRK02399 168 AGAIA-G-MV--KFEQPAPSDDK-------PLIGLTMFG----VTTPCVQAA--REELEARGYEVLVFHATG 222 (406)
T ss_pred HHHHH-H-Hh--hccccCCCCCC-------ceEEEecCC----CcHHHHHHH--HHHHHhCCCeEEEEcCCC
Confidence 99873 1 00 00000011111 123455543 333445666 999999999988887764
No 269
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=79.24 E-value=1.6 Score=30.11 Aligned_cols=54 Identities=9% Similarity=0.153 Sum_probs=38.8
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC------CCCC----CCeEecChhhHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS------AGDD----RRLQRLAPVAKY 62 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~------~~~~----~~~y~~t~~s~~ 62 (239)
+|...|... +.++..+|.+.+|+ +...+.+-|+.|... .+.. .-.|++|+.++.
T Consensus 4 ~Il~~L~~~---~~~~f~~L~~~l~l----t~g~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr~ 67 (80)
T PF13601_consen 4 AILALLYAN---EEATFSELKEELGL----TDGNLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGRE 67 (80)
T ss_dssp HHHHHHHHH---SEEEHHHHHHHTT------HHHHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHHH
T ss_pred HHHHHHhhc---CCCCHHHHHHHhCc----CHHHHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHHH
Confidence 455666664 58999999999999 999999999999886 1111 224899998865
No 270
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=79.13 E-value=4.8 Score=30.72 Aligned_cols=54 Identities=17% Similarity=0.230 Sum_probs=40.8
Q ss_pred chHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC------CCCCCC---eEecChhhHHHH
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS------AGDDRR---LQRLAPVAKYVL 64 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~------~~~~~~---~y~~t~~s~~l~ 64 (239)
.-.|... +++|..|||+.+++ ++..+.++++-|... ..+.++ ...+|+.++.+.
T Consensus 46 L~~l~~~---~~~t~~eLa~~l~i----~~~tvsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~~G~~~~ 108 (144)
T PRK11512 46 LCSIRCA---ACITPVELKKVLSV----DLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAAIC 108 (144)
T ss_pred HHHHHHc---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEeccCcccCCeeEeEEChhHHHHH
Confidence 3345443 58999999999999 999999999999987 112222 357888888765
No 271
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=79.10 E-value=1.7 Score=27.80 Aligned_cols=38 Identities=13% Similarity=0.285 Sum_probs=29.5
Q ss_pred chHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.-.|...+ +..+|+.|||+.+++ ++..+.++++.|...
T Consensus 11 L~~l~~~~-~~~~t~~~la~~l~~----~~~~vs~~v~~L~~~ 48 (62)
T PF12802_consen 11 LMALARHP-GEELTQSELAERLGI----SKSTVSRIVKRLEKK 48 (62)
T ss_dssp HHHHHHST-TSGEEHHHHHHHHTS-----HHHHHHHHHHHHHT
T ss_pred HHHHHHCC-CCCcCHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 34555543 122899999999999 999999999999886
No 272
>PF07091 FmrO: Ribosomal RNA methyltransferase (FmrO); PDB: 3LCU_A 3LCV_B 3FRH_A 3FRI_A 3B89_A 3FZG_A.
Probab=78.92 E-value=3.4 Score=34.97 Aligned_cols=88 Identities=13% Similarity=0.131 Sum_probs=50.3
Q ss_pred HHHHHhccccc-----HHHHHhhccC-CCCcceEEEeCCCCCCCccccccccCCcceeeechhhhcCChhHHHHHHHHHH
Q 045543 85 NTAMLSHNSIV-----MNRILDYYKG-FEKIKQLVDVGGGCGKCGWKMFQKILNGDAILMKLILRNWDDEHCLSLLKNCY 158 (239)
Q Consensus 85 ~~~m~~~~~~~-----~~~~~~~~~~-~~~~~~vlDvGGG~G~~~gD~~~~~p~~D~~~l~~vlH~~~d~~~~~iL~~~~ 158 (239)
.++|..+++.. ...+.+..-+ .+...+|+|||||---..-.++..-|.. .|+...| |.....++..+.
T Consensus 76 r~lL~~HaST~ERl~~Ld~fY~~if~~~~~p~sVlDigCGlNPlalp~~~~~~~a-~Y~a~DI-----D~~~ve~l~~~l 149 (251)
T PF07091_consen 76 RRLLAGHASTRERLPNLDEFYDEIFGRIPPPDSVLDIGCGLNPLALPWMPEAPGA-TYIAYDI-----DSQLVEFLNAFL 149 (251)
T ss_dssp HHHHHTSHHHHCCGGGHHHHHHHHCCCS---SEEEEET-TTCHHHHHTTTSSTT--EEEEEES-----BHHHHHHHHHHH
T ss_pred HHHHhhccchhhhhhhHHHHHHHHHhcCCCCchhhhhhccCCceehhhcccCCCc-EEEEEeC-----CHHHHHHHHHHH
Confidence 45776665431 2233322211 2347999999999755333333222222 4444433 567899999999
Q ss_pred hhCCCCceEEEEeeecCCCC
Q 045543 159 EAIPGNGKIIIIDSTTVVIP 178 (239)
Q Consensus 159 ~aL~pgg~lli~d~~~~~~~ 178 (239)
..|++.+++.+.|.+.+...
T Consensus 150 ~~l~~~~~~~v~Dl~~~~~~ 169 (251)
T PF07091_consen 150 AVLGVPHDARVRDLLSDPPK 169 (251)
T ss_dssp HHTT-CEEEEEE-TTTSHTT
T ss_pred HhhCCCcceeEeeeeccCCC
Confidence 99999999999998766443
No 273
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=78.91 E-value=2.2 Score=28.25 Aligned_cols=35 Identities=14% Similarity=0.189 Sum_probs=26.6
Q ss_pred hHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 7 MAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 7 L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+.++| -|-|+.|||+.+|++ ++..+.+.|++|...
T Consensus 19 ~~~~G--~~Pt~rEIa~~~g~~---S~~tv~~~L~~Le~k 53 (65)
T PF01726_consen 19 IEENG--YPPTVREIAEALGLK---STSTVQRHLKALERK 53 (65)
T ss_dssp HHHHS--S---HHHHHHHHTSS---SHHHHHHHHHHHHHT
T ss_pred HHHcC--CCCCHHHHHHHhCCC---ChHHHHHHHHHHHHC
Confidence 44455 677999999999993 599999999999876
No 274
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=78.73 E-value=5.7 Score=30.20 Aligned_cols=47 Identities=13% Similarity=0.092 Sum_probs=37.6
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C----CCC---CCeEecChhhHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A----GDD---RRLQRLAPVAKYVL 64 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~----~~~---~~~y~~t~~s~~l~ 64 (239)
++.|..|||+.+++ ++..+.++++-|... . .+. .-...+|+.++.+.
T Consensus 45 ~~~t~~eLa~~l~~----~~~tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~ 100 (144)
T PRK03573 45 PEQSQIQLAKAIGI----EQPSLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLI 100 (144)
T ss_pred CCCCHHHHHHHhCC----ChhhHHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHHHHHH
Confidence 46899999999999 999999999999986 1 112 23467999998776
No 275
>PF03514 GRAS: GRAS domain family; InterPro: IPR005202 Sequence analysis of the products of the GRAS (GAI, RGA, SCR) gene family indicates that they share a variable N terminus and a highly conserved C terminus that contains five recognizable motifs []. Proteins in the GRAS family are transcription factors that seem to be involved in development and other processes. Mutation of the SCARECROW (SCR) gene results in a radial pattern defect, loss of a ground tissue layer, in the root. The PAT1 protein is involved in phytochrome A signal transduction []. GRAS proteins contain a conserved region of about 350 amino acids that can be divided in 5 motifs, found in the following order: leucine heptad repeat I, the VHIID motif, leucine heptad repeat II, the PFYRE motif and the SAW motif [, ]. Plant specific GRAS proteins have parallels in their motif structure to the animal Signal Transducers and Activators of Transcription (STAT) family of proteins [] which suggests also some parallels in their functions.
Probab=78.61 E-value=20 Score=32.25 Aligned_cols=25 Identities=28% Similarity=0.460 Sum_probs=21.0
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
.+.|++.+. =.+..+|||+|-|.|.
T Consensus 99 NqaIleA~~-g~~~vHIID~~i~~G~ 123 (374)
T PF03514_consen 99 NQAILEAFE-GERRVHIIDFGIGFGV 123 (374)
T ss_pred hHHHHHHhc-cCcceEEEeccCCcch
Confidence 457888887 4678899999999999
No 276
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=78.32 E-value=3.5 Score=28.90 Aligned_cols=53 Identities=13% Similarity=0.157 Sum_probs=39.6
Q ss_pred chHhHhcCCCCCCCHHHHHHhC-CCCCCCChhhHHHHHHHhccC--C-------CCCCCeEecChhhHHHH
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQM-PSHNPNAAVMLDRVLRRSLSS--A-------GDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~l~rlL~~L~~~--~-------~~~~~~y~~t~~s~~l~ 64 (239)
...|.. |+....||.+.+ ++ ++..|.+=|+.|... . .+..-.|++|+.++.|.
T Consensus 11 L~~l~~----g~~rf~el~~~l~~i----s~~~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G~~l~ 73 (90)
T PF01638_consen 11 LRALFQ----GPMRFSELQRRLPGI----SPKVLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELL 73 (90)
T ss_dssp HHHHTT----SSEEHHHHHHHSTTS-----HHHHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHH
T ss_pred HHHHHh----CCCcHHHHHHhcchh----HHHHHHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHH
Confidence 344555 799999999999 89 999999999999886 1 11223599999998876
No 277
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=78.18 E-value=2.6 Score=30.32 Aligned_cols=37 Identities=19% Similarity=0.301 Sum_probs=32.3
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|...|.+. ++.|..+||+++|+ ++..+.+.++.|...
T Consensus 8 il~~L~~~---~~~~~~~la~~l~~----s~~tv~~~l~~L~~~ 44 (108)
T smart00344 8 ILEELQKD---ARISLAELAKKVGL----SPSTVHNRVKRLEEE 44 (108)
T ss_pred HHHHHHHh---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 55677764 58999999999999 999999999999886
No 278
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=78.09 E-value=3.7 Score=25.62 Aligned_cols=29 Identities=28% Similarity=0.312 Sum_probs=26.5
Q ss_pred CCC-CHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKL-SAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~-t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
..+ |..|||+.+++ +...+.+.|+.|...
T Consensus 18 ~~l~s~~~la~~~~v----s~~tv~~~l~~L~~~ 47 (60)
T smart00345 18 DKLPSERELAAQLGV----SRTTVREALSRLEAE 47 (60)
T ss_pred CcCcCHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 456 89999999999 999999999999886
No 279
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=78.06 E-value=4 Score=34.64 Aligned_cols=25 Identities=20% Similarity=0.488 Sum_probs=22.0
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
+..+++..+ ..+...|+|||.|.|.
T Consensus 19 ~~~Iv~~~~-~~~~~~VlEiGpG~G~ 43 (262)
T PF00398_consen 19 ADKIVDALD-LSEGDTVLEIGPGPGA 43 (262)
T ss_dssp HHHHHHHHT-CGTTSEEEEESSTTSC
T ss_pred HHHHHHhcC-CCCCCEEEEeCCCCcc
Confidence 567788887 7888999999999999
No 280
>PF01269 Fibrillarin: Fibrillarin; InterPro: IPR000692 Fibrillarin is a component of a nucleolar small nuclear ribonucleoprotein (SnRNP), functioning in vivo in ribosomal RNA processing [, ]. It is associated with U3, U8 and U13 small nuclear RNAs in mammals [] and is similar to the yeast NOP1 protein []. Fibrillarin has a well conserved sequence of around 320 amino acids, and contains 3 domains, an N-terminal Gly/Arg-rich region; a central domain resembling other RNA-binding proteins and containing an RNP-2-like consensus sequence; and a C-terminal alpha-helical domain. An evolutionarily related pre-rRNA processing protein, which lacks the Gly/Arg-rich domain, has been found in various archaebacteria.; GO: 0003723 RNA binding, 0008168 methyltransferase activity, 0006364 rRNA processing, 0008033 tRNA processing; PDB: 3PLA_E 3ID6_C 3ID5_B 1NT2_A 3NVK_J 2NNW_B 3NVM_B 3NMU_J 1PRY_A 1G8A_A ....
Probab=77.89 E-value=4.3 Score=33.80 Aligned_cols=107 Identities=14% Similarity=0.098 Sum_probs=61.5
Q ss_pred CCCcceEEEeCCCCCC----------------------------------------Cccccccc------cCCcceeeec
Q 045543 106 FEKIKQLVDVGGGCGK----------------------------------------CGWKMFQK------ILNGDAILMK 139 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~----------------------------------------~~gD~~~~------~p~~D~~~l~ 139 (239)
+.+..+||-+|.++|+ +-+|...| ++.-|+++.
T Consensus 71 ik~gskVLYLGAasGTTVSHvSDIvg~~G~VYaVEfs~r~~rdL~~la~~R~NIiPIl~DAr~P~~Y~~lv~~VDvI~~- 149 (229)
T PF01269_consen 71 IKPGSKVLYLGAASGTTVSHVSDIVGPDGVVYAVEFSPRSMRDLLNLAKKRPNIIPILEDARHPEKYRMLVEMVDVIFQ- 149 (229)
T ss_dssp --TT-EEEEETTTTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHHHSTTEEEEES-TTSGGGGTTTS--EEEEEE-
T ss_pred CCCCCEEEEecccCCCccchhhhccCCCCcEEEEEecchhHHHHHHHhccCCceeeeeccCCChHHhhcccccccEEEe-
Confidence 7788999999999999 22333322 111276654
Q ss_pred hhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCC
Q 045543 140 LILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNG 219 (239)
Q Consensus 140 ~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aG 219 (239)
.|- -.++++-++.|+..-||+||.++|.=-. ...|. +.... -...+- .+.|++.|
T Consensus 150 DVa---Qp~Qa~I~~~Na~~fLk~gG~~~i~iKa--------------~siD~-----t~~p~-~vf~~e--~~~L~~~~ 204 (229)
T PF01269_consen 150 DVA---QPDQARIAALNARHFLKPGGHLIISIKA--------------RSIDS-----TADPE-EVFAEE--VKKLKEEG 204 (229)
T ss_dssp E-S---STTHHHHHHHHHHHHEEEEEEEEEEEEH--------------HHH-S-----SSSHH-HHHHHH--HHHHHCTT
T ss_pred cCC---ChHHHHHHHHHHHhhccCCcEEEEEEec--------------CcccC-----cCCHH-HHHHHH--HHHHHHcC
Confidence 332 2356788899999999999999885211 11110 00000 011222 56678889
Q ss_pred CceeeEEEcC---CceeEEEEE
Q 045543 220 FKGVNYESFV---CNFYIMEFI 238 (239)
Q Consensus 220 f~~~~~~~~~---~~~~vie~~ 238 (239)
|++.+...+. ..+.++.++
T Consensus 205 ~~~~e~i~LePy~~dH~~vv~~ 226 (229)
T PF01269_consen 205 FKPLEQITLEPYERDHAMVVGR 226 (229)
T ss_dssp CEEEEEEE-TTTSTTEEEEEEE
T ss_pred CChheEeccCCCCCCcEEEEEE
Confidence 9999988874 457777664
No 281
>PF06792 UPF0261: Uncharacterised protein family (UPF0261); InterPro: IPR008322 The proteins in this entry are functionally uncharacterised.
Probab=77.75 E-value=4.5 Score=36.70 Aligned_cols=127 Identities=17% Similarity=0.187 Sum_probs=75.1
Q ss_pred HHHHHHHhcccccHHHHHhhccCCCCcceEEEeCCCCCC----------------------CccccccccCCcceeeech
Q 045543 83 VLNTAMLSHNSIVMNRILDYYKGFEKIKQLVDVGGGCGK----------------------CGWKMFQKILNGDAILMKL 140 (239)
Q Consensus 83 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vlDvGGG~G~----------------------~~gD~~~~~p~~D~~~l~~ 140 (239)
....+|... ....+.+.|+ -.+..=|+-+||+.|. -.||.-.-+...|+.++-.
T Consensus 72 ~ai~~M~~g---a~~~v~~l~~-~g~i~Gvi~~GGs~GT~lat~aMr~LPiG~PKlmVST~ASGd~~~yvg~sDI~mm~S 147 (403)
T PF06792_consen 72 EAIEAMARG---AARFVSDLYD-EGKIDGVIGIGGSGGTALATAAMRALPIGFPKLMVSTMASGDTSPYVGESDITMMYS 147 (403)
T ss_pred HHHHHHHHH---HHHHHHHHHh-cCCccEEEEecCCccHHHHHHHHHhCCCCCCeEEEEccCCCCcccccCcCCEEEeee
Confidence 344555433 2334444555 4566789999999999 2344422222349999988
Q ss_pred hhhcCC-hhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCC
Q 045543 141 ILRNWD-DEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNG 219 (239)
Q Consensus 141 vlH~~~-d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aG 219 (239)
|.---. +.-.+++|+|++.|+. |-.--.+.-. ..... ....++|+ |-........ ++.|++.|
T Consensus 148 VvDiaGlN~isr~vL~NAA~Ai~--GM~~~~~~~~-~~~~k-------p~I~iTmf----GvTTp~V~~~--~~~Le~~G 211 (403)
T PF06792_consen 148 VVDIAGLNSISRRVLSNAAGAIA--GMAKAYESPN-QQEDK-------PLIGITMF----GVTTPCVDAI--RERLEEEG 211 (403)
T ss_pred ccccccCCHHHHHHHHHHHHHHH--HHhccccccc-ccCCC-------cEEEEECC----CCcHHHHHHH--HHHHHhcC
Confidence 874332 5668899999999864 1110111100 00111 12344554 3334556677 99999999
Q ss_pred CceeeEEEcC
Q 045543 220 FKGVNYESFV 229 (239)
Q Consensus 220 f~~~~~~~~~ 229 (239)
|++.-++..+
T Consensus 212 ~Ev~VFHAtG 221 (403)
T PF06792_consen 212 YEVLVFHATG 221 (403)
T ss_pred CeEEEEcCCC
Confidence 9999888764
No 282
>PF00126 HTH_1: Bacterial regulatory helix-turn-helix protein, lysR family; InterPro: IPR000847 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family, the lysR family, groups together a range of proteins, including ampR, catM, catR, cynR, cysB, gltC, iciA, ilvY, irgB, lysR, metR, mkaC, mleR, nahR, nhaR, nodD, nolR, oxyR, pssR, rbcR, syrM, tcbR, tfdS and trpI [, , , , ]. The majority of these proteins appear to be transcription activators and most are known to negatively regulate their own expression. All possess a potential HTH DNA-binding motif towards their N-termini.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3T1B_D 3SZP_A 1O7L_C 1B9N_A 1B9M_A 3FZJ_J 3FXR_B 3FXQ_A 3FXU_A 2IJL_B ....
Probab=77.42 E-value=2.2 Score=27.49 Aligned_cols=51 Identities=14% Similarity=0.120 Sum_probs=39.3
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAK 61 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~ 61 (239)
.+|..+.+. .|+..-|+.+++ ++..+.+-++.|... -+..++.+.+|+.++
T Consensus 5 ~~f~~v~~~-----gs~~~AA~~l~i----s~~~vs~~i~~LE~~lg~~Lf~r~~~~~~lT~~G~ 60 (60)
T PF00126_consen 5 RYFLAVAET-----GSISAAAEELGI----SQSAVSRQIKQLEEELGVPLFERSGRGLRLTEAGE 60 (60)
T ss_dssp HHHHHHHHH-----SSHHHHHHHCTS----SHHHHHHHHHHHHHHHTS-SEEECSSSEEE-HHHH
T ss_pred HHHHHHHHh-----CCHHHHHHHhhc----cchHHHHHHHHHHHHhCCeEEEECCCCeeEChhhC
Confidence 467778874 399999999999 999999999999875 234455688888764
No 283
>PF11972 HTH_13: HTH DNA binding domain; InterPro: IPR021068 The proteins in this entry have not been characterised. They contain a C-terminal helix-turn-helix DNA binding domain.
Probab=77.35 E-value=4.5 Score=25.75 Aligned_cols=46 Identities=11% Similarity=0.102 Sum_probs=34.7
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccCCCCCCCeEe
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSSAGDDRRLQR 55 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~~~~~~~~y~ 55 (239)
+.|.+-+.+ -.|+.-+|+++++ .++...++++-|...+-.+.++|+
T Consensus 4 Lidll~~~P---~Vsa~mva~~L~v----T~~~A~~li~eLg~rEiTGr~R~R 49 (54)
T PF11972_consen 4 LIDLLLSRP---LVSAPMVAKELGV----TPQAAQRLIAELGLREITGRGRYR 49 (54)
T ss_pred HHHHHHhCc---cccHHHHHHHhCC----CHHHHHHHHHHhhceeecCCcccc
Confidence 456666632 4799999999999 999999999887764334556665
No 284
>PHA02591 hypothetical protein; Provisional
Probab=77.15 E-value=3.5 Score=28.29 Aligned_cols=32 Identities=16% Similarity=0.219 Sum_probs=26.4
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
+...|.+ .+.|.++||+.+|+ +.+.+.+.|+.
T Consensus 51 vA~eL~e----qGlSqeqIA~~LGV----sqetVrKYL~~ 82 (83)
T PHA02591 51 VTHELAR----KGFTVEKIASLLGV----SVRKVRRYLES 82 (83)
T ss_pred HHHHHHH----cCCCHHHHHHHhCC----CHHHHHHHHhc
Confidence 3455676 68999999999999 99999888764
No 285
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=76.57 E-value=4 Score=38.26 Aligned_cols=14 Identities=36% Similarity=0.643 Sum_probs=12.7
Q ss_pred CcceEEEeCCCCCC
Q 045543 108 KIKQLVDVGGGCGK 121 (239)
Q Consensus 108 ~~~~vlDvGGG~G~ 121 (239)
....+||||||.|.
T Consensus 347 ~~p~~lEIG~G~G~ 360 (506)
T PRK01544 347 KRKVFLEIGFGMGE 360 (506)
T ss_pred CCceEEEECCCchH
Confidence 46899999999999
No 286
>KOG3191 consensus Predicted N6-DNA-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=76.51 E-value=4.2 Score=32.92 Aligned_cols=32 Identities=16% Similarity=0.166 Sum_probs=20.0
Q ss_pred ChhhccHHHHHhhCCCceeeEEEc--C-CceeEEEEE
Q 045543 205 TKQEYYGMALTAKNGFKGVNYESF--V-CNFYIMEFI 238 (239)
Q Consensus 205 t~~e~~~~~ll~~aGf~~~~~~~~--~-~~~~vie~~ 238 (239)
..+|. ..++++-||.......- + ...+++-++
T Consensus 173 ~p~ei--~k~l~~~g~~~~~~~~Rk~~~E~l~ilkf~ 207 (209)
T KOG3191|consen 173 KPKEI--LKILEKKGYGVRIAMQRKAGGETLSILKFT 207 (209)
T ss_pred CHHHH--HHHHhhcccceeEEEEEecCCceEEEEEEE
Confidence 46677 88889999987655432 2 234555443
No 287
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=76.42 E-value=3.7 Score=31.75 Aligned_cols=36 Identities=8% Similarity=0.194 Sum_probs=32.4
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
|+|+|-.+ +.+|-++||+.+|+ +...++++|..|..
T Consensus 6 v~d~L~~~---~~~~dedLa~~l~i----~~n~vRkiL~~L~e 41 (147)
T smart00531 6 VLDALMRN---GCVTEEDLAELLGI----KQKQLRKILYLLYD 41 (147)
T ss_pred ehHHHHhc---CCcCHHHHHHHhCC----CHHHHHHHHHHHHh
Confidence 67887765 68999999999999 99999999999988
No 288
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=76.26 E-value=4.9 Score=28.14 Aligned_cols=43 Identities=12% Similarity=0.153 Sum_probs=35.2
Q ss_pred HHHHHHhCCCCCCCChhhHHHHHHHhccC---CCCCCCeEecChhhHHHH
Q 045543 18 AAEIEAQMPSHNPNAAVMLDRVLRRSLSS---AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 18 ~~eLA~~~g~~~~~~~~~l~rlL~~L~~~---~~~~~~~y~~t~~s~~l~ 64 (239)
+.+||+.+++ ++..+.+.++.|... ....+..|.+|+.+..+.
T Consensus 2 ~~ela~~l~i----s~stvs~~l~~L~~~glI~r~~~~~~~lT~~g~~~~ 47 (96)
T smart00529 2 TSEIAERLNV----SPPTVTQMLKKLEKDGLVEYEPYRGITLTEKGRRLA 47 (96)
T ss_pred HHHHHHHhCC----ChHHHHHHHHHHHHCCCEEEcCCCceEechhHHHHH
Confidence 4689999999 999999999999997 222335799999887664
No 289
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=76.13 E-value=2 Score=27.25 Aligned_cols=36 Identities=11% Similarity=0.314 Sum_probs=30.0
Q ss_pred chHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
...|.+. +++|..+||+.+++ ++..+.++++-|...
T Consensus 9 L~~l~~~---~~~~~~~la~~~~~----~~~~~t~~i~~L~~~ 44 (59)
T PF01047_consen 9 LRILYEN---GGITQSELAEKLGI----SRSTVTRIIKRLEKK 44 (59)
T ss_dssp HHHHHHH---SSEEHHHHHHHHTS-----HHHHHHHHHHHHHT
T ss_pred HHHHHHc---CCCCHHHHHHHHCC----ChhHHHHHHHHHHHC
Confidence 3456665 58999999999999 999999999999886
No 290
>COG0357 GidB Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]
Probab=75.55 E-value=4.6 Score=33.47 Aligned_cols=13 Identities=38% Similarity=0.838 Sum_probs=12.3
Q ss_pred cceEEEeCCCCCC
Q 045543 109 IKQLVDVGGGCGK 121 (239)
Q Consensus 109 ~~~vlDvGGG~G~ 121 (239)
..+++|||.|.|.
T Consensus 68 ~~~~~DIGSGaGf 80 (215)
T COG0357 68 AKRVLDIGSGAGF 80 (215)
T ss_pred CCEEEEeCCCCCC
Confidence 5899999999999
No 291
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=74.94 E-value=4.2 Score=30.60 Aligned_cols=37 Identities=14% Similarity=0.326 Sum_probs=33.0
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.+.++ |.+|..+++..+|+ +-..+.+.++.|++.
T Consensus 17 IvElVRe~---GRiTi~ql~~~TGa----sR~Tvk~~lreLVa~ 53 (127)
T PF06163_consen 17 IVELVREH---GRITIKQLVAKTGA----SRNTVKRYLRELVAR 53 (127)
T ss_pred HHHHHHHc---CCccHHHHHHHHCC----CHHHHHHHHHHHHHc
Confidence 55666776 69999999999999 999999999999997
No 292
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=74.51 E-value=3 Score=31.70 Aligned_cols=37 Identities=16% Similarity=0.200 Sum_probs=32.8
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+.+.|++. +|.|+.|+|+..|- +...+.|-|+.|+-.
T Consensus 69 Ll~~Ia~~---~P~Si~ElAe~vgR----dv~nvhr~Ls~l~~~ 105 (144)
T COG4190 69 LLELIAQE---EPASINELAELVGR----DVKNVHRTLSTLADL 105 (144)
T ss_pred HHHHHHhc---CcccHHHHHHHhCc----chHHHHHHHHHHHhc
Confidence 55677775 79999999999999 999999999999887
No 293
>COG4353 Uncharacterized conserved protein [Function unknown]
Probab=74.05 E-value=13 Score=29.26 Aligned_cols=61 Identities=16% Similarity=0.105 Sum_probs=40.5
Q ss_pred HHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEEEcC
Q 045543 150 CLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~ 229 (239)
-+++++-+++.|.|||+|+| |++.+... ...+. -|..-...-. --.|-++||+..+-+..|
T Consensus 72 E~~l~~~l~~~lspg~~lfV-eYv~DrET----------~~~lq------kG~~p~atrL--GfeL~k~GftwfkdWY~P 132 (192)
T COG4353 72 EVKLYKVLYNFLSPGGKLFV-EYVRDRET----------RYRLQ------KGKPPVATRL--GFELLKAGFTWFKDWYFP 132 (192)
T ss_pred HHHHHHHHHHhcCCCCceEE-EEEechhH----------HHHHH------cCCCCccchh--hHHHHhCcceeeeeeecc
Confidence 36899999999999998866 67655321 11111 3443333344 556778899999887765
No 294
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=73.21 E-value=7.1 Score=30.54 Aligned_cols=47 Identities=9% Similarity=0.008 Sum_probs=39.6
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C-CCCCCeEecChhhHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A-GDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~-~~~~~~y~~t~~s~~l~ 64 (239)
++....+||+.+++ .|..+...++-|... . -...+.+.+|+.++...
T Consensus 23 ~~~~~~diA~~L~V----sp~sVt~ml~rL~~~GlV~~~~y~gi~LT~~G~~~a 72 (154)
T COG1321 23 GFARTKDIAERLKV----SPPSVTEMLKRLERLGLVEYEPYGGVTLTEKGREKA 72 (154)
T ss_pred CcccHHHHHHHhCC----CcHHHHHHHHHHHHCCCeEEecCCCeEEChhhHHHH
Confidence 79999999999999 999999999999998 2 23467799998886543
No 295
>KOG2539 consensus Mitochondrial/chloroplast ribosome small subunit component [Translation, ribosomal structure and biogenesis]
Probab=73.02 E-value=2.4 Score=39.01 Aligned_cols=41 Identities=12% Similarity=0.046 Sum_probs=31.7
Q ss_pred ceeeechhhhcCChhHHH--HHHHHHHhhCCCCceEEEEeeec
Q 045543 134 DAILMKLILRNWDDEHCL--SLLKNCYEAIPGNGKIIIIDSTT 174 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~--~iL~~~~~aL~pgg~lli~d~~~ 174 (239)
|+++++++||.......+ .+-+-++.+.++|+.++|+|.-.
T Consensus 276 Dlvi~ah~l~~~~s~~~R~~v~~s~~r~~~r~g~~lViIe~g~ 318 (491)
T KOG2539|consen 276 DLVICAHKLHELGSKFSRLDVPESLWRKTDRSGYFLVIIEKGT 318 (491)
T ss_pred eeEEeeeeeeccCCchhhhhhhHHHHHhccCCCceEEEEecCC
Confidence 999999999998654422 34455677888999999998643
No 296
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=73.01 E-value=9.2 Score=27.75 Aligned_cols=47 Identities=13% Similarity=0.220 Sum_probs=36.8
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC------CCCCCC---eEecChhhHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS------AGDDRR---LQRLAPVAKYVL 64 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~------~~~~~~---~y~~t~~s~~l~ 64 (239)
+++|..+||+.+++ ++..+.++++.|... ..+.+. ...+|+.++.+.
T Consensus 42 ~~~t~~eL~~~l~~----~~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~ 97 (109)
T TIGR01889 42 GKLTLKEIIKEILI----KQSALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKI 97 (109)
T ss_pred CcCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHH
Confidence 68999999999999 999999999999986 112222 256788776654
No 297
>TIGR00095 RNA methyltransferase, RsmD family. This model represents a family of uncharacterized bacterial proteins. Members are present in nearly every complete bacterial genome, always in a single copy. PSI-BLAST analysis shows homology to several families of SAM-dependent methyltransferases, including ribosomal RNA adenine dimethylases.
Probab=73.01 E-value=4.1 Score=32.87 Aligned_cols=13 Identities=38% Similarity=0.429 Sum_probs=11.9
Q ss_pred cceEEEeCCCCCC
Q 045543 109 IKQLVDVGGGCGK 121 (239)
Q Consensus 109 ~~~vlDvGGG~G~ 121 (239)
..++||++||+|.
T Consensus 50 g~~vLDLfaGsG~ 62 (189)
T TIGR00095 50 GAHLLDVFAGSGL 62 (189)
T ss_pred CCEEEEecCCCcH
Confidence 4789999999998
No 298
>PF07789 DUF1627: Protein of unknown function (DUF1627); InterPro: IPR012432 This is a group of sequences found in hypothetical proteins predicted to be expressed in a number of bacterial species. The region in question is approximately 150 amino acid residues long.
Probab=72.24 E-value=5 Score=31.06 Aligned_cols=29 Identities=10% Similarity=0.122 Sum_probs=26.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|++|++|||.+.|. ..+.+.--|..+++.
T Consensus 5 Ga~T~eELA~~FGv----ttRkvaStLa~~ta~ 33 (155)
T PF07789_consen 5 GAKTAEELAGKFGV----TTRKVASTLAMVTAT 33 (155)
T ss_pred CcccHHHHHHHhCc----chhhhHHHHHHHHhc
Confidence 79999999999999 999998888888886
No 299
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=72.23 E-value=5.1 Score=28.50 Aligned_cols=40 Identities=5% Similarity=-0.014 Sum_probs=33.1
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CC--CCCCeEecC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AG--DDRRLQRLA 57 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~--~~~~~y~~t 57 (239)
.++|..|||+.+|+ ++..+.|.|+.|... .+ ...+.|+.|
T Consensus 46 ~~is~~eLa~~~g~----sr~tVsr~L~~Le~~GlI~r~~~~~~~~~n 89 (95)
T TIGR01610 46 DRVTATVIAELTGL----SRTHVSDAIKSLARRRIIFRQGMMGIVGVN 89 (95)
T ss_pred CccCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeeeecCCceeecC
Confidence 58999999999999 999999999999997 33 234777655
No 300
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=72.20 E-value=5.6 Score=25.23 Aligned_cols=26 Identities=15% Similarity=0.348 Sum_probs=21.9
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHh
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRS 43 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L 43 (239)
...|++|||+.+|+ ++..+..-||-.
T Consensus 22 R~~tl~elA~~lgi----s~st~~~~LRra 47 (53)
T PF04967_consen 22 RRITLEELAEELGI----SKSTVSEHLRRA 47 (53)
T ss_pred CcCCHHHHHHHhCC----CHHHHHHHHHHH
Confidence 57899999999999 888887777654
No 301
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=71.95 E-value=5.1 Score=24.14 Aligned_cols=24 Identities=21% Similarity=0.317 Sum_probs=16.9
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
...|..+||+.+|. ++..+.+.|+
T Consensus 19 ~G~s~~~IA~~lg~----s~sTV~relk 42 (44)
T PF13936_consen 19 QGMSIREIAKRLGR----SRSTVSRELK 42 (44)
T ss_dssp S---HHHHHHHTT------HHHHHHHHH
T ss_pred cCCCHHHHHHHHCc----CcHHHHHHHh
Confidence 47999999999999 9999988775
No 302
>PRK09775 putative DNA-binding transcriptional regulator; Provisional
Probab=70.82 E-value=5 Score=37.00 Aligned_cols=50 Identities=20% Similarity=0.189 Sum_probs=36.9
Q ss_pred chHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-C---CCCCCeEecChhhH
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-A---GDDRRLQRLAPVAK 61 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-~---~~~~~~y~~t~~s~ 61 (239)
-..|.+ ||.|+.|||+.+|+ +...+.+.|+.|+.+ . +-..-+|++....+
T Consensus 6 ~~~L~~----g~~~~~eL~~~l~~----sq~~~s~~L~~L~~~V~~~~~gr~~~Y~l~~~~~ 59 (442)
T PRK09775 6 TTLLLQ----GPLSAAELAARLGV----SQATLSRLLAALGDQVVRFGKARATRYALLRPLR 59 (442)
T ss_pred HHHHhc----CCCCHHHHHHHhCC----CHHHHHHHHHHhhcceeEeccCceEEEEeccccc
Confidence 345666 79999999999999 999999999999665 2 22234466665543
No 303
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=70.70 E-value=4.3 Score=27.38 Aligned_cols=29 Identities=14% Similarity=0.166 Sum_probs=23.5
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
..-|.+|||+.+|+ +.+.+..+|.+....
T Consensus 19 r~Pt~eEiA~~lgi----s~~~v~~~l~~~~~~ 47 (78)
T PF04539_consen 19 REPTDEEIAEELGI----SVEEVRELLQASRRP 47 (78)
T ss_dssp S--BHHHHHHHHTS-----HHHHHHHHHHHSCC
T ss_pred CCCCHHHHHHHHcc----cHHHHHHHHHhCCCC
Confidence 67799999999999 999999999887664
No 304
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=70.52 E-value=6 Score=36.05 Aligned_cols=43 Identities=21% Similarity=0.081 Sum_probs=35.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC---CCCCCCeEecChhh
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS---AGDDRRLQRLAPVA 60 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~---~~~~~~~y~~t~~s 60 (239)
+|.|.+||++++++ +++.++++|+.|... .+.+++.|....--
T Consensus 309 ~~~t~~~La~~l~~----~~~~v~~iL~~L~~agLI~~~~~g~~~l~rd~ 354 (412)
T PRK04214 309 KALDVDEIRRLEPM----GYDELGELLCELARIGLLRRGERGQWVLARDL 354 (412)
T ss_pred CCCCHHHHHHHhCC----CHHHHHHHHHHHHhCCCeEecCCCceEecCCH
Confidence 79999999999999 999999999999987 33445678776443
No 305
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=70.35 E-value=6.8 Score=36.55 Aligned_cols=55 Identities=9% Similarity=0.039 Sum_probs=44.0
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|...|... ++.|..+||+++++ ++..+.+.++.|.+. .......|.+|+.++.++
T Consensus 11 vL~~L~~~---~~~s~~eLA~~l~l----~~~tVt~~i~~Le~kGlV~~~~~~~~~i~LTeeG~~~~ 70 (489)
T PRK04172 11 VLKALKEL---KEATLEELAEKLGL----PPEAVMRAAEWLEEKGLVKVEERVEEVYVLTEEGKKYA 70 (489)
T ss_pred HHHHHHhC---CCCCHHHHHHHhCc----CHHHHHHHHHHHHhCCCEEEEeeeEEEEEECHHHHHHH
Confidence 34556553 58999999999999 999999999999997 222346789999998877
No 306
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=70.06 E-value=9.1 Score=31.77 Aligned_cols=47 Identities=17% Similarity=0.193 Sum_probs=39.4
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC------CCCCCCeEecChhhHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS------AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~------~~~~~~~y~~t~~s~~l~ 64 (239)
..+|..|||+.+++ ++..+.|.|+.|... ..+....+.+|+.++.++
T Consensus 20 ~~IS~~eLA~~L~i----S~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTekG~~ll 72 (217)
T PRK14165 20 VKISSSEFANHTGT----SSKTAARILKQLEDEGYITRTIVPRGQLITITEKGLDVL 72 (217)
T ss_pred CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEEEcCCceEEEECHHHHHHH
Confidence 46899999999999 999999999999887 123456789999987765
No 307
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=69.98 E-value=5.4 Score=28.00 Aligned_cols=25 Identities=28% Similarity=0.414 Sum_probs=23.0
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
.++|.++||.+++. .+..++++|..
T Consensus 22 ~~LS~~~iA~~Ln~----t~~~lekil~~ 46 (97)
T COG4367 22 CPLSDEEIATALNW----TEVKLEKILQV 46 (97)
T ss_pred ccccHHHHHHHhCC----CHHHHHHHHHH
Confidence 68999999999999 99999999954
No 308
>TIGR00637 ModE_repress ModE molybdate transport repressor domain. ModE is a molybdate-activated repressor of the molybdate transport operon in E. coli. It consists of the domain represented by this model and two tandem copies of mop-like domain, where Mop proteins are a family of 68-residue molybdenum-pterin binding proteins of Clostridium pasteurianum. This model also represents the full length of a pair of archaeal proteins that lack Mop-like domains. PSI-BLAST analysis shows similarity to helix-turn-helix regulatory proteins.
Probab=69.58 E-value=6.5 Score=28.26 Aligned_cols=54 Identities=7% Similarity=-0.031 Sum_probs=43.6
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCC-----CCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGD-----DRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~-----~~~~y~~t~~s~~l~ 64 (239)
.+|..+.+. -|+..-|+.+|+ ++..+.+-++.|... .+. .++.+.+|+.++.|+
T Consensus 8 ~~~~av~~~-----gSis~AA~~L~i----S~stvs~~I~~LE~~lg~~Lf~R~~~g~~~~g~~lT~~G~~l~ 71 (99)
T TIGR00637 8 ALLKAIARM-----GSISQAAKDAGI----SYKSAWDYIRAMNNLSGEPLVERATGGKGGGGAVLTEYGQRLI 71 (99)
T ss_pred HHHHHHHHh-----CCHHHHHHHHCC----CHHHHHHHHHHHHHHhCCCeEEecCCCCCCCCeeECHHHHHHH
Confidence 467788874 489999999999 999999999999876 112 245899999999886
No 309
>PRK10870 transcriptional repressor MprA; Provisional
Probab=69.42 E-value=11 Score=29.96 Aligned_cols=47 Identities=13% Similarity=0.147 Sum_probs=38.4
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC------CCCCC---CeEecChhhHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS------AGDDR---RLQRLAPVAKYVL 64 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~------~~~~~---~~y~~t~~s~~l~ 64 (239)
+++|..|||+.+++ ++..+.++++-|... ..+++ -...+|+.++.++
T Consensus 70 ~~it~~eLa~~l~l----~~~tvsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~~~ 125 (176)
T PRK10870 70 HSIQPSELSCALGS----SRTNATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHEFL 125 (176)
T ss_pred CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence 57999999999999 999999999999987 11222 2467999998877
No 310
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=68.55 E-value=7 Score=31.81 Aligned_cols=42 Identities=17% Similarity=0.222 Sum_probs=34.1
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--C---CCCCCeEecChh
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--A---GDDRRLQRLAPV 59 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~---~~~~~~y~~t~~ 59 (239)
++.|..|||+.+++ ++..+.+.|+.|... . ......|.+|+.
T Consensus 156 g~~s~~eia~~l~i----s~stv~r~L~~Le~~GlI~r~~~r~~~~~lT~~ 202 (203)
T TIGR01884 156 GEKSVKNIAKKLGK----SLSTISRHLRELEKKGLVEQKGRKGKRYSLTKL 202 (203)
T ss_pred CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEEcCCccEEEeCCC
Confidence 57899999999999 999999999999886 1 124566777764
No 311
>COG3695 Predicted methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]
Probab=68.42 E-value=6.7 Score=28.34 Aligned_cols=53 Identities=17% Similarity=0.177 Sum_probs=38.8
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-------CCCCCCeEecC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-------AGDDRRLQRLA 57 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-------~~~~~~~y~~t 57 (239)
|++.++..+.|+-.|.-+||+-.|. |..++-+.++|..|..- .-...|+-+++
T Consensus 11 v~~vv~~IP~GkV~TYGdIA~laG~--p~~ARqVG~il~~l~~~s~lPWhRVvns~G~isl~ 70 (103)
T COG3695 11 VLDVVAAIPEGKVSTYGDIAKLAGL--PRAARQVGRILKHLPEGSDLPWHRVVNSDGRISLP 70 (103)
T ss_pred HHHHHHhCCCCceeeHHHHHHHhCC--ChhHHHHHHHHhhCCCCCCCChhheecCCCcccCC
Confidence 5677777776788999999999999 22388888888877654 22445666555
No 312
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=68.30 E-value=6 Score=32.73 Aligned_cols=30 Identities=23% Similarity=0.277 Sum_probs=28.2
Q ss_pred CCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 13 RAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 13 ~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+.+.|++|+|+++|+ +.-..+|-|.+|++.
T Consensus 171 ~~~~Taeela~~~gi----SRvTaRRYLeyl~~~ 200 (224)
T COG4565 171 DQELTAEELAQALGI----SRVTARRYLEYLVSN 200 (224)
T ss_pred CCccCHHHHHHHhCc----cHHHHHHHHHHHHhc
Confidence 379999999999999 899999999999997
No 313
>PHA02943 hypothetical protein; Provisional
Probab=67.94 E-value=6.6 Score=30.63 Aligned_cols=36 Identities=11% Similarity=0.175 Sum_probs=31.0
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.. |..|..|||+++|+ +...++-.|..|...
T Consensus 16 ILE~Lk~----G~~TtseIAkaLGl----S~~qa~~~LyvLErE 51 (165)
T PHA02943 16 TLRLLAD----GCKTTSRIANKLGV----SHSMARNALYQLAKE 51 (165)
T ss_pred HHHHHhc----CCccHHHHHHHHCC----CHHHHHHHHHHHHHc
Confidence 4556633 79999999999999 999999999999887
No 314
>PHA00738 putative HTH transcription regulator
Probab=67.25 E-value=5.3 Score=29.25 Aligned_cols=38 Identities=21% Similarity=0.169 Sum_probs=32.8
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.|++.|.+. ++.++.+|++.+++ ....+.+-|+.|...
T Consensus 16 ~IL~lL~~~---e~~~V~eLae~l~l----SQptVS~HLKvLreA 53 (108)
T PHA00738 16 KILELIAEN---YILSASLISHTLLL----SYTTVLRHLKILNEQ 53 (108)
T ss_pred HHHHHHHHc---CCccHHHHHHhhCC----CHHHHHHHHHHHHHC
Confidence 467778772 47999999999999 999999999999876
No 315
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=67.22 E-value=7.8 Score=25.64 Aligned_cols=28 Identities=11% Similarity=0.317 Sum_probs=24.2
Q ss_pred CCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 15 KLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 15 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+.|+++||+.+|+ ++..+.++++.....
T Consensus 1 ~~~~~~la~~~~~----s~~~l~~~f~~~~~~ 28 (84)
T smart00342 1 PLTLEDLAEALGM----SPRHLQRLFKKETGT 28 (84)
T ss_pred CCCHHHHHHHhCC----CHHHHHHHHHHHhCc
Confidence 4799999999999 999999998876554
No 316
>cd01842 SGNH_hydrolase_like_5 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=67.14 E-value=8.5 Score=30.95 Aligned_cols=37 Identities=19% Similarity=0.216 Sum_probs=29.8
Q ss_pred ceeeechhhhcCCh----------hHHHHHHHHHHhhCCCCceEEEE
Q 045543 134 DAILMKLILRNWDD----------EHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 D~~~l~~vlH~~~d----------~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+|.+.+.|||++- +...++++++.+.|+|...++-.
T Consensus 52 DVIi~Ns~LWDl~ry~~~~~~~Y~~NL~~Lf~rLk~~lp~~allIW~ 98 (183)
T cd01842 52 DLVIMNSCLWDLSRYQRNSMKTYRENLERLFSKLDSVLPIECLIVWN 98 (183)
T ss_pred eEEEEecceecccccCCCCHHHHHHHHHHHHHHHHhhCCCccEEEEe
Confidence 99999999999864 55678888888888888655443
No 317
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=66.76 E-value=5.7 Score=28.47 Aligned_cols=40 Identities=13% Similarity=0.179 Sum_probs=30.5
Q ss_pred cchHhHh-cCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAK-AGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~-~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|++.|.+ ...+..+++++|++++++ +...++..|+.|+..
T Consensus 52 Vl~~i~~~~~~~~Gv~v~~I~~~l~~----~~~~v~~al~~L~~e 92 (102)
T PF08784_consen 52 VLNFIKQQPNSEEGVHVDEIAQQLGM----SENEVRKALDFLSNE 92 (102)
T ss_dssp HHHHHHC----TTTEEHHHHHHHSTS-----HHHHHHHHHHHHHT
T ss_pred HHHHHHhcCCCCCcccHHHHHHHhCc----CHHHHHHHHHHHHhC
Confidence 5666665 222367999999999999 999999999999875
No 318
>KOG4589 consensus Cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning]
Probab=66.59 E-value=23 Score=28.98 Aligned_cols=68 Identities=21% Similarity=0.330 Sum_probs=42.0
Q ss_pred HHhhccCCCCcceEEEeCCCCCC---------------Ccccccccc-CCc-ceeeechhhhcCChhHHHHHHHHHHhhC
Q 045543 99 ILDYYKGFEKIKQLVDVGGGCGK---------------CGWKMFQKI-LNG-DAILMKLILRNWDDEHCLSLLKNCYEAI 161 (239)
Q Consensus 99 ~~~~~~~~~~~~~vlDvGGG~G~---------------~~gD~~~~~-p~~-D~~~l~~vlH~~~d~~~~~iL~~~~~aL 161 (239)
|-+.|.-+.+..+|+|+|+.+|. .+-|+..-. |+| +.+-.. |..|. ...++++++|
T Consensus 60 indKy~~l~p~~~VlD~G~APGsWsQVavqr~~p~g~v~gVDllh~~p~~Ga~~i~~~----dvtdp---~~~~ki~e~l 132 (232)
T KOG4589|consen 60 INDKYRFLRPEDTVLDCGAAPGSWSQVAVQRVNPNGMVLGVDLLHIEPPEGATIIQGN----DVTDP---ETYRKIFEAL 132 (232)
T ss_pred ehhhccccCCCCEEEEccCCCChHHHHHHHhhCCCceEEEEeeeeccCCCCccccccc----ccCCH---HHHHHHHHhC
Confidence 34455546678999999999999 333555422 234 554444 45565 5678888998
Q ss_pred CCCce--EEEEeeec
Q 045543 162 PGNGK--IIIIDSTT 174 (239)
Q Consensus 162 ~pgg~--lli~d~~~ 174 (239)
|+-+ ++|.|+..
T Consensus 133 -p~r~VdvVlSDMap 146 (232)
T KOG4589|consen 133 -PNRPVDVVLSDMAP 146 (232)
T ss_pred -CCCcccEEEeccCC
Confidence 4522 34455543
No 319
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=66.58 E-value=12 Score=31.76 Aligned_cols=46 Identities=17% Similarity=0.146 Sum_probs=38.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYV 63 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l 63 (239)
|+.|+.|||+.+|+ +...++.+|+.|... .+..+..|+.-+....+
T Consensus 29 g~~tA~eis~~sgv----P~~kvY~vl~sLe~kG~v~~~~g~P~~y~av~p~~~i 79 (247)
T COG1378 29 GEATAKEISEASGV----PRPKVYDVLRSLEKKGLVEVIEGRPKKYRAVPPEELI 79 (247)
T ss_pred CCccHHHHHHHcCC----CchhHHHHHHHHHHCCCEEeeCCCCceEEeCCHHHHH
Confidence 69999999999999 899999999999997 33457789887776543
No 320
>KOG2904 consensus Predicted methyltransferase [General function prediction only]
Probab=66.38 E-value=16 Score=31.57 Aligned_cols=61 Identities=16% Similarity=0.326 Sum_probs=37.0
Q ss_pred CCCcceEEEeCCCCCCCccccccccCCcceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 106 FEKIKQLVDVGGGCGKCGWKMFQKILNGDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~~~gD~~~~~p~~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
+.....++|+|||+|.++-.+...+|+.- +..- |-+ +.++++-.+=++-++-.|++.|+..
T Consensus 146 ~~~~~~ildlgtGSGaIslsll~~L~~~~-v~Ai----D~S-~~Ai~La~eN~qr~~l~g~i~v~~~ 206 (328)
T KOG2904|consen 146 HSKHTHILDLGTGSGAISLSLLHGLPQCT-VTAI----DVS-KAAIKLAKENAQRLKLSGRIEVIHN 206 (328)
T ss_pred hcccceEEEecCCccHHHHHHHhcCCCce-EEEE----ecc-HHHHHHHHHHHHHHhhcCceEEEec
Confidence 45556899999999997776766666421 1111 223 3355555555555566666766644
No 321
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=66.32 E-value=3.6 Score=33.40 Aligned_cols=108 Identities=16% Similarity=0.156 Sum_probs=52.2
Q ss_pred CCcceEEEeCCCCCC--CccccccccCCcceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCC------
Q 045543 107 EKIKQLVDVGGGCGK--CGWKMFQKILNGDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIP------ 178 (239)
Q Consensus 107 ~~~~~vlDvGGG~G~--~~gD~~~~~p~~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~------ 178 (239)
-..++|+|+|||+|. ++.-.+- +--|+. -=.|.++..++++-...+.-+=.+++.|..--..+
T Consensus 44 l~g~~V~DlG~GTG~La~ga~~lG----a~~V~~-----vdiD~~a~ei~r~N~~~l~g~v~f~~~dv~~~~~~~dtvim 114 (198)
T COG2263 44 LEGKTVLDLGAGTGILAIGAALLG----ASRVLA-----VDIDPEALEIARANAEELLGDVEFVVADVSDFRGKFDTVIM 114 (198)
T ss_pred cCCCEEEEcCCCcCHHHHHHHhcC----CcEEEE-----EecCHHHHHHHHHHHHhhCCceEEEEcchhhcCCccceEEE
Confidence 345889999999998 2222221 111111 12366777777776666432233333332111000
Q ss_pred CCC---h-----hhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEE
Q 045543 179 EAT---P-----ATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYE 226 (239)
Q Consensus 179 ~~~---~-----~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~ 226 (239)
.|| + .......+++...+.. =.+.-+.+-+ ++..++.|+++....
T Consensus 115 NPPFG~~~rhaDr~Fl~~Ale~s~vVYs-iH~a~~~~f~--~~~~~~~G~~v~~~~ 167 (198)
T COG2263 115 NPPFGSQRRHADRPFLLKALEISDVVYS-IHKAGSRDFV--EKFAADLGGTVTHIE 167 (198)
T ss_pred CCCCccccccCCHHHHHHHHHhhheEEE-eeccccHHHH--HHHHHhcCCeEEEEE
Confidence 011 0 0111223333332221 1222256655 999999998887653
No 322
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=66.30 E-value=4.3 Score=26.03 Aligned_cols=30 Identities=20% Similarity=0.345 Sum_probs=21.6
Q ss_pred chHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
-+.+.+ ..+|..+||+.+|+ ++..+.+++.
T Consensus 3 ~~~m~~----~~it~~~La~~~gi----s~~tl~~~~~ 32 (63)
T PF13443_consen 3 KELMAE----RGITQKDLARKTGI----SRSTLSRILN 32 (63)
T ss_dssp HHHHHH----TT--HHHHHHHHT------HHHHHHHHT
T ss_pred HHHHHH----cCCCHHHHHHHHCc----CHHHHHHHHh
Confidence 356677 68899999999999 9999998883
No 323
>cd06445 ATase The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases are specific for repair of guanines with O6-alkyl adducts, however human ATase is not limited to O6-methylguanine, repairing many other adducts at the O6-position of guanine as well. ATase is widely distributed among species. Most ATases have N- and C-terminal domains. The C-terminal domain contains the conserved active-site cysteine motif (PCHR), the O6-alkylguanine binding channel, and the helix-turn-helix (HTH) DNA-binding motif. The active site is located near the recognition helix of the HTH motif. While the C-terminal domain of ATase contains residues that are necessary for DNA binding and alkyl transfer, the function of the N-terminal domain is still unknown. Removal of the N-terminal domain abolishes the activity of
Probab=66.20 E-value=9.3 Score=26.14 Aligned_cols=40 Identities=20% Similarity=0.216 Sum_probs=28.1
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhc
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSL 44 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 44 (239)
|.+.|.+-+.|.-.|..+||+.+|. +..++.+...|+..-
T Consensus 5 V~~~v~~IP~G~v~TYg~iA~~~g~--p~~~R~Vg~al~~np 44 (79)
T cd06445 5 VWEALRQIPYGEVTTYGQIAKLAGT--PKAARAVGSALARNP 44 (79)
T ss_pred HHHHHhcCCCCCcCcHHHHHHHHCC--CCcHHHHHHHHHhCC
Confidence 4566666666789999999999998 223556666655543
No 324
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=65.98 E-value=6.7 Score=23.99 Aligned_cols=26 Identities=23% Similarity=0.417 Sum_probs=21.5
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHh
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRS 43 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L 43 (239)
.+.|.+|||+.+|+ +...+.++.+-.
T Consensus 19 ~~~t~~eIa~~lg~----s~~~V~~~~~~a 44 (50)
T PF04545_consen 19 EGLTLEEIAERLGI----SRSTVRRILKRA 44 (50)
T ss_dssp ST-SHHHHHHHHTS----CHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHCC----cHHHHHHHHHHH
Confidence 58899999999999 999998887543
No 325
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=65.47 E-value=8.2 Score=31.15 Aligned_cols=38 Identities=16% Similarity=0.026 Sum_probs=31.1
Q ss_pred CCCCHHHHHHhCCCCCCCC-hhhHHHHHHHhccC--CCCCCCeEe
Q 045543 14 AKLSAAEIEAQMPSHNPNA-AVMLDRVLRRSLSS--AGDDRRLQR 55 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~-~~~l~rlL~~L~~~--~~~~~~~y~ 55 (239)
-+.|..|||+++|+ + +..+.+.|+.|... .+..++.|+
T Consensus 24 ~~~~~~ela~~~~~----~s~~tv~~~l~~L~~~g~i~~~~~~~~ 64 (199)
T TIGR00498 24 YPPSIREIARAVGL----RSPSAAEEHLKALERKGYIERDPGKPR 64 (199)
T ss_pred CCCcHHHHHHHhCC----CChHHHHHHHHHHHHCCCEecCCCCCC
Confidence 57899999999999 8 89999999999998 444455543
No 326
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=65.36 E-value=9.9 Score=35.49 Aligned_cols=59 Identities=7% Similarity=0.064 Sum_probs=46.0
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHHhcC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVLHYG 67 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~~~g 67 (239)
|...|.+.+ +..+.++||+.+|+ +++.+.+.+..|.+. .+.....|.+|+.++.++..|
T Consensus 11 iL~~l~~~~--~~~~~~~la~~~~~----~~~~v~~~~~~L~~kg~v~~~~~~~~~~~LT~eG~~~~~~G 74 (494)
T PTZ00326 11 ILSKLESEN--EIVNSLALAESLNI----DHQKVVGAIKSLESANYITTEMKKSNTWTLTEEGEDYLKNG 74 (494)
T ss_pred HHHHHHhcC--CCCCHHHHHHHcCC----CHHHHHHHHHHHHhCCCEEEEEEEEEEEEECHHHHHHHHcC
Confidence 445566522 57899999999999 999998888888886 345578899999998877444
No 327
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=64.90 E-value=10 Score=23.27 Aligned_cols=25 Identities=12% Similarity=0.191 Sum_probs=22.2
Q ss_pred CCCHHHHHHhCCCCCCCChhhHHHHHHHh
Q 045543 15 KLSAAEIEAQMPSHNPNAAVMLDRVLRRS 43 (239)
Q Consensus 15 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L 43 (239)
..|..++|+.+|+ +...+.|+++..
T Consensus 27 ~~s~~~vA~~~~v----s~~TV~ri~~~~ 51 (52)
T PF13542_consen 27 SRSFKDVARELGV----SWSTVRRIFDRY 51 (52)
T ss_pred cCCHHHHHHHHCC----CHHHHHHHHHhh
Confidence 4699999999999 999999998753
No 328
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=64.84 E-value=7.6 Score=26.36 Aligned_cols=27 Identities=15% Similarity=0.137 Sum_probs=21.3
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhc
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSL 44 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 44 (239)
...|+.|||+.+++ ++..+-|+.+.|-
T Consensus 33 ~~~si~elA~~~~v----S~sti~Rf~kkLG 59 (77)
T PF01418_consen 33 AFMSISELAEKAGV----SPSTIVRFCKKLG 59 (77)
T ss_dssp CT--HHHHHHHCTS-----HHHHHHHHHHCT
T ss_pred HHccHHHHHHHcCC----CHHHHHHHHHHhC
Confidence 36899999999999 9999999998764
No 329
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=64.32 E-value=12 Score=31.90 Aligned_cols=25 Identities=16% Similarity=0.472 Sum_probs=21.2
Q ss_pred HHHHHhhccCCCCcceEEEeCCCCCC
Q 045543 96 MNRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 96 ~~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
...+++..+ ..+..+|+.||+|.|.
T Consensus 19 ~~kIv~~a~-~~~~d~VlEIGpG~Ga 43 (259)
T COG0030 19 IDKIVEAAN-ISPGDNVLEIGPGLGA 43 (259)
T ss_pred HHHHHHhcC-CCCCCeEEEECCCCCH
Confidence 567777777 6668899999999999
No 330
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=64.17 E-value=8.2 Score=22.90 Aligned_cols=23 Identities=13% Similarity=0.196 Sum_probs=20.2
Q ss_pred CCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 16 LSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 16 ~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
+|.+|+|+.+|+ ++..+.++++.
T Consensus 2 lt~~e~a~~lgi----s~~ti~~~~~~ 24 (49)
T TIGR01764 2 LTVEEAAEYLGV----SKDTVYRLIHE 24 (49)
T ss_pred CCHHHHHHHHCC----CHHHHHHHHHc
Confidence 589999999999 99999888754
No 331
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=64.16 E-value=5.5 Score=24.42 Aligned_cols=21 Identities=19% Similarity=0.297 Sum_probs=17.4
Q ss_pred CHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 17 SAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 17 t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
|+.|||+.+|+ +..-+.|.|+
T Consensus 1 Ti~dIA~~agv----S~~TVSr~ln 21 (46)
T PF00356_consen 1 TIKDIAREAGV----SKSTVSRVLN 21 (46)
T ss_dssp CHHHHHHHHTS----SHHHHHHHHT
T ss_pred CHHHHHHHHCc----CHHHHHHHHh
Confidence 67899999999 8888877773
No 332
>PF04816 DUF633: Family of unknown function (DUF633) ; InterPro: IPR006901 This is a family of uncharacterised bacterial proteins.; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity; PDB: 3LEC_A 3KU1_G 3KR9_A 3GNL_B.
Probab=63.71 E-value=14 Score=30.33 Aligned_cols=79 Identities=14% Similarity=0.117 Sum_probs=41.1
Q ss_pred ccccccccCC---cceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccC
Q 045543 123 GWKMFQKILN---GDAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLS 199 (239)
Q Consensus 123 ~gD~~~~~p~---~D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~ 199 (239)
-||=++.++. .|++++..+ .-.-...||.+....++...++++. |
T Consensus 54 lgdGL~~l~~~e~~d~ivIAGM----GG~lI~~ILe~~~~~~~~~~~lILq----P------------------------ 101 (205)
T PF04816_consen 54 LGDGLEVLKPGEDVDTIVIAGM----GGELIIEILEAGPEKLSSAKRLILQ----P------------------------ 101 (205)
T ss_dssp E-SGGGG--GGG---EEEEEEE-----HHHHHHHHHHTGGGGTT--EEEEE----E------------------------
T ss_pred ECCcccccCCCCCCCEEEEecC----CHHHHHHHHHhhHHHhccCCeEEEe----C------------------------
Confidence 3444554442 366666655 5556777777777666555455442 1
Q ss_pred CccccChhhccHHHHHhhCCCceeeEEEcC---CceeEEEEE
Q 045543 200 GEKERTKQEYYGMALTAKNGFKGVNYESFV---CNFYIMEFI 238 (239)
Q Consensus 200 ~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~---~~~~vie~~ 238 (239)
.. ..... ++||.+.||.+++-.-+. ..+.||.+.
T Consensus 102 ~~---~~~~L--R~~L~~~gf~I~~E~lv~e~~~~YeIi~~~ 138 (205)
T PF04816_consen 102 NT---HAYEL--RRWLYENGFEIIDEDLVEENGRFYEIIVAE 138 (205)
T ss_dssp SS----HHHH--HHHHHHTTEEEEEEEEEEETTEEEEEEEEE
T ss_pred CC---ChHHH--HHHHHHCCCEEEEeEEEeECCEEEEEEEEE
Confidence 11 22344 888999999988765442 234555543
No 333
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=63.64 E-value=9.5 Score=29.52 Aligned_cols=37 Identities=14% Similarity=0.204 Sum_probs=31.0
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|..+ +..|..+||+++|+ ++..+.+=++-|...
T Consensus 14 Il~~Lq~d---~R~s~~eiA~~lgl----S~~tV~~Ri~rL~~~ 50 (153)
T PRK11179 14 ILEALMEN---ARTPYAELAKQFGV----SPGTIHVRVEKMKQA 50 (153)
T ss_pred HHHHHHHc---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 56677774 69999999999999 899888888887765
No 334
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=63.25 E-value=8.7 Score=27.10 Aligned_cols=26 Identities=23% Similarity=0.238 Sum_probs=23.0
Q ss_pred CCCHHHHHHhCCCCCCCChhhHHHHHHHhc
Q 045543 15 KLSAAEIEAQMPSHNPNAAVMLDRVLRRSL 44 (239)
Q Consensus 15 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 44 (239)
+.|..+||+.+|+ +..-+.|+.+.|.
T Consensus 50 G~S~~eIA~~LgI----SrsTIyRi~R~~n 75 (88)
T TIGR02531 50 GKTYSDIEAETGA----STATISRVKRCLN 75 (88)
T ss_pred CCCHHHHHHHHCc----CHHHHHHHHHhcc
Confidence 6899999999999 9999999887644
No 335
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=63.17 E-value=7 Score=25.98 Aligned_cols=40 Identities=18% Similarity=0.176 Sum_probs=31.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CCCCCCeEecC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AGDDRRLQRLA 57 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~~~~~~y~~t 57 (239)
-++|-++||..+|+ +...+.|+|+.|... .+...+.+...
T Consensus 27 ~~lt~~~iA~~~g~----sr~tv~r~l~~l~~~g~I~~~~~~i~I~ 68 (76)
T PF13545_consen 27 LPLTQEEIADMLGV----SRETVSRILKRLKDEGIIEVKRGKIIIL 68 (76)
T ss_dssp EESSHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEETTEEEES
T ss_pred ecCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEcCCEEEEC
Confidence 36899999999999 999999999999887 33344555443
No 336
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=62.82 E-value=6 Score=30.10 Aligned_cols=16 Identities=31% Similarity=0.520 Sum_probs=14.2
Q ss_pred CCCcceEEEeCCCCCC
Q 045543 106 FEKIKQLVDVGGGCGK 121 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~ 121 (239)
-.+..+|||+|||.|.
T Consensus 23 ~~~~~~vvD~GsG~Gy 38 (141)
T PF13679_consen 23 SKRCITVVDLGSGKGY 38 (141)
T ss_pred cCCCCEEEEeCCChhH
Confidence 4677899999999998
No 337
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=62.74 E-value=6.4 Score=23.96 Aligned_cols=25 Identities=20% Similarity=0.218 Sum_probs=18.7
Q ss_pred CCCHHHHHHhCCCCCCCChhhHHHHHHHh
Q 045543 15 KLSAAEIEAQMPSHNPNAAVMLDRVLRRS 43 (239)
Q Consensus 15 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L 43 (239)
..|..+||+.+|+ ++..+.++++.-
T Consensus 17 G~s~~~ia~~lgv----s~~Tv~~w~kr~ 41 (50)
T PF13384_consen 17 GWSIREIAKRLGV----SRSTVYRWIKRY 41 (50)
T ss_dssp T--HHHHHHHHTS-----HHHHHHHHT--
T ss_pred CCCHHHHHHHHCc----CHHHHHHHHHHc
Confidence 7899999999999 999999998643
No 338
>PF12728 HTH_17: Helix-turn-helix domain
Probab=62.68 E-value=8.8 Score=23.51 Aligned_cols=22 Identities=18% Similarity=0.203 Sum_probs=19.7
Q ss_pred CCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 16 LSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 16 ~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
+|++|+|+.+|+ ++..+.++++
T Consensus 2 lt~~e~a~~l~i----s~~tv~~~~~ 23 (51)
T PF12728_consen 2 LTVKEAAELLGI----SRSTVYRWIR 23 (51)
T ss_pred CCHHHHHHHHCc----CHHHHHHHHH
Confidence 589999999999 9999888885
No 339
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=62.54 E-value=6.3 Score=25.57 Aligned_cols=30 Identities=20% Similarity=0.266 Sum_probs=25.5
Q ss_pred CCCC-CHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 13 RAKL-SAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 13 ~~~~-t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|..+ |..+||+++++ +...+++-|+.|...
T Consensus 21 g~~lps~~~la~~~~v----sr~tvr~al~~L~~~ 51 (64)
T PF00392_consen 21 GDRLPSERELAERYGV----SRTTVREALRRLEAE 51 (64)
T ss_dssp TSBE--HHHHHHHHTS-----HHHHHHHHHHHHHT
T ss_pred CCEeCCHHHHHHHhcc----CCcHHHHHHHHHHHC
Confidence 4677 99999999999 999999999999987
No 340
>PF07109 Mg-por_mtran_C: Magnesium-protoporphyrin IX methyltransferase C-terminus; InterPro: IPR010940 This entry represents the C terminus (approximately 100 residues) of bacterial and eukaryotic Magnesium-protoporphyrin IX methyltransferase (2.1.1.11 from EC). This converts magnesium-protoporphyrin IX to magnesium-protoporphyrin IX metylester using S-adenosyl-L-methionine as a cofactor [].; GO: 0046406 magnesium protoporphyrin IX methyltransferase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process
Probab=62.42 E-value=56 Score=23.51 Aligned_cols=82 Identities=13% Similarity=0.250 Sum_probs=49.4
Q ss_pred hhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhh--ccCCcccc-------ChhhccH
Q 045543 141 ILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLM--QLSGEKER-------TKQEYYG 211 (239)
Q Consensus 141 vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~--~~~~g~~r-------t~~e~~~ 211 (239)
+|=+++.++..++|+++..- ..+++++. +.|.++ ++.+...+ .++++ .| .+++.
T Consensus 4 vLIHYp~~d~~~~l~~La~~--t~~~~ifT--fAP~T~----------~L~~m~~iG~lFP~~-dRsp~i~~~~e~~l-- 66 (97)
T PF07109_consen 4 VLIHYPAEDAAQMLAHLASR--TRGSLIFT--FAPRTP----------LLALMHAIGKLFPRP-DRSPRIYPHREEDL-- 66 (97)
T ss_pred eEeccCHHHHHHHHHHHHHh--ccCcEEEE--ECCCCH----------HHHHHHHHhccCCCC-CCCCcEEEeCHHHH--
Confidence 45578999999999999874 34555552 233221 11111111 23333 33 35666
Q ss_pred HHHHhhCCCceeeEEEcCCc---eeEEEEEC
Q 045543 212 MALTAKNGFKGVNYESFVCN---FYIMEFIK 239 (239)
Q Consensus 212 ~~ll~~aGf~~~~~~~~~~~---~~vie~~k 239 (239)
.+.++++||++.+...+..+ ..++|+++
T Consensus 67 ~~~l~~~g~~~~r~~ris~gFY~S~llE~~r 97 (97)
T PF07109_consen 67 RRALAAAGWRIGRTERISSGFYISQLLEAVR 97 (97)
T ss_pred HHHHHhCCCeeeecccccCcChHHHHhhccC
Confidence 99999999999988777543 34666653
No 341
>PF06557 DUF1122: Protein of unknown function (DUF1122); InterPro: IPR008304 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 2ARH_C.
Probab=62.35 E-value=20 Score=28.27 Aligned_cols=61 Identities=13% Similarity=0.007 Sum_probs=32.0
Q ss_pred HHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEEEcC
Q 045543 150 CLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~ 229 (239)
=..+++-+++.|+|||+|+| |++-+.. +.. |+. -|..-..... -..|.++||+.++-+..|
T Consensus 65 E~~l~~~~~~~l~pg~~lfV-eY~~D~e----------T~~---~L~---~G~pp~~TrL--G~~Ll~~GFtwfKdWYfP 125 (170)
T PF06557_consen 65 EDELYKLFSRYLEPGGRLFV-EYVEDRE----------TRR---QLQ---RGVPPAETRL--GFSLLKAGFTWFKDWYFP 125 (170)
T ss_dssp HHHHHHHHHTT----SEEEE-E-TT-HH----------HHH---HHH---TT--GGGSHH--HHHHHTTT--EEEEEE--
T ss_pred HHHHHHHHHHHhhhcCeEEE-EEecCHH----------HHH---HHH---cCCCcccchh--HHHHHhCCcEEEeeeecc
Confidence 36899999999999999877 5553321 111 221 2332333344 677889999999988775
No 342
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=61.88 E-value=8 Score=25.04 Aligned_cols=29 Identities=10% Similarity=0.247 Sum_probs=25.9
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
++.+..+||+.+++ .+..+...++-|...
T Consensus 21 ~~v~~~~iA~~L~v----s~~tvt~ml~~L~~~ 49 (60)
T PF01325_consen 21 GPVRTKDIAERLGV----SPPTVTEMLKRLAEK 49 (60)
T ss_dssp SSBBHHHHHHHHTS-----HHHHHHHHHHHHHT
T ss_pred CCccHHHHHHHHCC----ChHHHHHHHHHHHHC
Confidence 79999999999999 999999999988775
No 343
>PF13518 HTH_28: Helix-turn-helix domain
Probab=61.72 E-value=8.3 Score=23.46 Aligned_cols=26 Identities=19% Similarity=0.157 Sum_probs=23.0
Q ss_pred CCHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 16 LSAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 16 ~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
.|..++|+++|+ ++..+.++++..-.
T Consensus 13 ~s~~~~a~~~gi----s~~tv~~w~~~y~~ 38 (52)
T PF13518_consen 13 ESVREIAREFGI----SRSTVYRWIKRYRE 38 (52)
T ss_pred CCHHHHHHHHCC----CHhHHHHHHHHHHh
Confidence 399999999999 99999999976654
No 344
>COG0500 SmtA SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]
Probab=61.57 E-value=15 Score=26.38 Aligned_cols=40 Identities=13% Similarity=0.208 Sum_probs=29.9
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCC
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVV 176 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~ 176 (239)
|++ .....+++.+ ....++++.+.++|+|.+++.+.....
T Consensus 121 d~~-~~~~~~~~~~--~~~~~~~~~~~l~~~g~~~~~~~~~~~ 160 (257)
T COG0500 121 DLV-ISLLVLHLLP--PAKALRELLRVLKPGGRLVLSDLLRDG 160 (257)
T ss_pred eEE-eeeeehhcCC--HHHHHHHHHHhcCCCcEEEEEeccCCC
Confidence 888 5555544444 578999999999999999988765443
No 345
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=61.34 E-value=8.9 Score=27.47 Aligned_cols=56 Identities=14% Similarity=0.189 Sum_probs=44.0
Q ss_pred cchHhH-hcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC---CCCC---CCeEecChhhHHHH
Q 045543 3 VFEIMA-KAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS---AGDD---RRLQRLAPVAKYVL 64 (239)
Q Consensus 3 ifd~L~-~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~---~~~~---~~~y~~t~~s~~l~ 64 (239)
+||+|. .++ ++...--|.-.+++ +-...+.+++.|+.. ...+ ...|..|+-+..|+
T Consensus 20 i~dIL~~~~~--~~~~~Tri~y~aNl----ny~~~~~yi~~L~~~Gli~~~~~~~~~~y~lT~KG~~fl 82 (95)
T COG3432 20 IFDILKAISE--GGIGITRIIYGANL----NYKRAQKYIEMLVEKGLIIKQDNGRRKVYELTEKGKRFL 82 (95)
T ss_pred HHHHHHHhcC--CCCCceeeeeecCc----CHHHHHHHHHHHHhCCCEEeccCCccceEEEChhHHHHH
Confidence 577777 322 78888899999999 999999999999997 2222 23699999998775
No 346
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=61.27 E-value=11 Score=26.95 Aligned_cols=29 Identities=14% Similarity=0.159 Sum_probs=25.9
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.++|+++||+.+++ +++.+.|+.+.....
T Consensus 20 ~~~~~~~lA~~~~~----S~~~l~r~f~~~~g~ 48 (107)
T PRK10219 20 QPLNIDVVAKKSGY----SKWYLQRMFRTVTHQ 48 (107)
T ss_pred CCCCHHHHHHHHCC----CHHHHHHHHHHHHCc
Confidence 68999999999999 999999999877554
No 347
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=60.99 E-value=13 Score=34.68 Aligned_cols=58 Identities=10% Similarity=0.021 Sum_probs=45.6
Q ss_pred cchHhHhcCCCCC-CCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHHhcC
Q 045543 3 VFEIMAKAGPRAK-LSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVLHYG 67 (239)
Q Consensus 3 ifd~L~~~g~~~~-~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~~~g 67 (239)
|...|.+. ++ .+.++||+.+|+ +++.+.+.+..|.+. .+.....|.+|+.++.++..|
T Consensus 8 iL~~l~~~---~~~~~~~~la~~~g~----~~~~v~~~~~~L~~kg~v~~~~~~~~~~~LT~eG~~~l~~G 71 (492)
T PLN02853 8 LLGALSNN---EEISDSGQFAASHGL----DHNEVVGVIKSLHGFRYVDAQDIKRETWVLTEEGKKYAAEG 71 (492)
T ss_pred HHHHHHhc---CCCCCHHHHHHHcCC----CHHHHHHHHHHHHhCCCEEEEEEEEEEEEECHHHHHHHHcC
Confidence 44556653 34 799999999999 999999998888886 345578899999998887444
No 348
>PRK14481 dihydroxyacetone kinase subunit DhaK; Provisional
Probab=60.86 E-value=26 Score=30.99 Aligned_cols=16 Identities=31% Similarity=0.347 Sum_probs=12.5
Q ss_pred CCCcceEEEeCCCCCC
Q 045543 106 FEKIKQLVDVGGGCGK 121 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~ 121 (239)
+++.+.-|=.|||+|+
T Consensus 41 ~~~~kV~lIsGGGSGH 56 (331)
T PRK14481 41 KPPGKVALVSGGGSGH 56 (331)
T ss_pred CCCCcEEEEecCCccc
Confidence 4445677888999999
No 349
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=60.55 E-value=12 Score=24.34 Aligned_cols=22 Identities=9% Similarity=0.237 Sum_probs=19.3
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRV 39 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rl 39 (239)
|.++..+||+++|+ ++..++++
T Consensus 21 g~i~lkdIA~~Lgv----s~~tIr~W 42 (60)
T PF10668_consen 21 GKIKLKDIAEKLGV----SESTIRKW 42 (60)
T ss_pred CCccHHHHHHHHCC----CHHHHHHH
Confidence 79999999999999 88777654
No 350
>TIGR02363 dhaK1 dihydroxyacetone kinase, DhaK subunit. Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated EC 2.7.1.29. By contract, E. coli and many other bacterial species have a multisubunit form (EC 2.7.1.-) with a phosphoprotein donor related to PTS transport proteins. This family represents the DhaK subunit of the latter type of dihydroxyacetone kinase, but it specifically excludes the DhaK paralog DhaK2 (TIGR02362) found in the same operon as DhaK and DhaK in the Firmicutes.
Probab=60.53 E-value=27 Score=30.88 Aligned_cols=61 Identities=20% Similarity=0.194 Sum_probs=29.8
Q ss_pred CcceEEEeCCCCCCCccccccccCCc--ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 108 KIKQLVDVGGGCGKCGWKMFQKILNG--DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 108 ~~~~vlDvGGG~G~~~gD~~~~~p~~--D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
+.+.-+=.|||+|+.|. |.--+.++ |...+-+|+ .-+...+|++-++.+=.+.|.|+|+-.
T Consensus 44 ~~kV~lIsGGGSGHEPa-h~GfVG~GmLdAav~G~VF---aSPs~~~I~~ai~av~~~~GvL~iv~N 106 (329)
T TIGR02363 44 NGKVALVSGGGSGHEPA-HAGFVGYGMLDAAVPGEVF---TSPTPDQILEAIKAVDQGAGVLLIVKN 106 (329)
T ss_pred CCCEEEEecCCcccccc-ccccccCCccceeeecccc---CCCCHHHHHHHHHhccCCCCEEEEeCC
Confidence 45777889999999221 00012222 444444443 222223445544444444455555443
No 351
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=60.44 E-value=19 Score=22.73 Aligned_cols=27 Identities=15% Similarity=0.187 Sum_probs=24.5
Q ss_pred CCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 16 LSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 16 ~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.|..+||+.+++ +...+.+.|..|...
T Consensus 26 ~~~~~la~~~~i----s~~~v~~~l~~L~~~ 52 (66)
T cd07377 26 PSERELAEELGV----SRTTVREALRELEAE 52 (66)
T ss_pred CCHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 359999999999 999999999999886
No 352
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=60.42 E-value=9.8 Score=29.86 Aligned_cols=37 Identities=14% Similarity=0.187 Sum_probs=30.5
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|...|.++ +.+|..|||+++|+ ++..+.+=++-|...
T Consensus 19 IL~~Lq~d---~R~s~~eiA~~lgl----S~~tv~~Ri~rL~~~ 55 (164)
T PRK11169 19 ILNELQKD---GRISNVELSKRVGL----SPTPCLERVRRLERQ 55 (164)
T ss_pred HHHHhccC---CCCCHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 55677764 79999999999999 888888888777665
No 353
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=60.05 E-value=10 Score=22.26 Aligned_cols=24 Identities=17% Similarity=0.252 Sum_probs=20.5
Q ss_pred CCHHHHHHhCCCCCCCChhhHHHHHHHh
Q 045543 16 LSAAEIEAQMPSHNPNAAVMLDRVLRRS 43 (239)
Q Consensus 16 ~t~~eLA~~~g~~~~~~~~~l~rlL~~L 43 (239)
.|..|+|+.+|+ ++..+.++.+.-
T Consensus 1 ~s~~e~a~~lgv----s~~tl~~~~~~g 24 (49)
T cd04762 1 LTTKEAAELLGV----SPSTLRRWVKEG 24 (49)
T ss_pred CCHHHHHHHHCc----CHHHHHHHHHcC
Confidence 478999999999 999998887653
No 354
>PF08221 HTH_9: RNA polymerase III subunit RPC82 helix-turn-helix domain; InterPro: IPR013197 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several DNA-directed RNA polymerase III polypeptides which are related to the Saccharomyces cerevisiae (Baker's yeast) RPC82 protein. RNA polymerase C (III) promotes the transcription of tRNA and 5S RNA genes. In S. cerevisiae, the enzyme is composed of 15 subunits, ranging from 10 kDa to about 160 kDa []. This region is probably a DNA-binding helix-turn-helix.; PDB: 2XV4_S 2XUB_A.
Probab=60.00 E-value=7.3 Score=25.43 Aligned_cols=36 Identities=17% Similarity=0.186 Sum_probs=26.7
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
|++.|-+. |+.|+.+|++.+++ +++.+..-|-.|..
T Consensus 18 V~~~Ll~~---G~ltl~~i~~~t~l----~~~~Vk~~L~~LiQ 53 (62)
T PF08221_consen 18 VGEVLLSR---GRLTLREIVRRTGL----SPKQVKKALVVLIQ 53 (62)
T ss_dssp HHHHHHHC----SEEHHHHHHHHT------HHHHHHHHHHHHH
T ss_pred HHHHHHHc---CCcCHHHHHHHhCC----CHHHHHHHHHHHHH
Confidence 56677765 69999999999999 99888877766654
No 355
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=59.59 E-value=9.4 Score=28.29 Aligned_cols=29 Identities=7% Similarity=0.119 Sum_probs=27.3
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.++|++|||+.+.+ .++.+..+|+-+...
T Consensus 18 ~~vtl~elA~~l~c----S~Rn~r~lLkkm~~~ 46 (115)
T PF12793_consen 18 VEVTLDELAELLFC----SRRNARTLLKKMQEE 46 (115)
T ss_pred cceeHHHHHHHhCC----CHHHHHHHHHHHHHC
Confidence 56899999999999 999999999999987
No 356
>TIGR00006 S-adenosyl-methyltransferase MraW. Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.
Probab=58.85 E-value=12 Score=32.74 Aligned_cols=30 Identities=17% Similarity=0.149 Sum_probs=24.5
Q ss_pred hhHHHHHHHHHHhhCCCCceEEEEeeecCC
Q 045543 147 DEHCLSLLKNCYEAIPGNGKIIIIDSTTVV 176 (239)
Q Consensus 147 d~~~~~iL~~~~~aL~pgg~lli~d~~~~~ 176 (239)
-++..+.|+.+.+.|+|||||+|+-+.--|
T Consensus 216 L~~L~~~L~~~~~~L~~gGrl~VISfHSLE 245 (305)
T TIGR00006 216 LEELEEALQFAPNLLAPGGRLSIISFHSLE 245 (305)
T ss_pred HHHHHHHHHHHHHHhcCCCEEEEEecCcHH
Confidence 345678899999999999999999875433
No 357
>PRK06474 hypothetical protein; Provisional
Probab=58.69 E-value=10 Score=30.28 Aligned_cols=39 Identities=15% Similarity=0.242 Sum_probs=32.1
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhC-CCCCCCChhhHHHHHHHhccC
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQM-PSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.|++.|...+ ++.|+.||++.+ ++ +...+.|.|+.|...
T Consensus 15 ~Il~~L~~~~--~~~ta~el~~~l~~i----s~aTvYrhL~~L~e~ 54 (178)
T PRK06474 15 KICQVLMRNK--EGLTPLELVKILKDV----PQATLYRHLQTMVDS 54 (178)
T ss_pred HHHHHHHhCC--CCCCHHHHHHHhcCC----CHHHHHHHHHHHHHC
Confidence 3677787743 459999999999 67 788899999999886
No 358
>TIGR03339 phn_lysR aminoethylphosphonate catabolism associated LysR family transcriptional regulator. This group of sequences represents a number of related clades with numerous examples of members adjacent to operons for the degradation of 2-aminoethylphosphonate (AEP) in Pseudomonas, Ralstonia, Bordetella and Burkholderia species. These are transcriptional regulators of the LysR family which contain a helix-turn-helix (HTH) domain (pfam00126) and a periplasmic substrate-binding protein-like domain (pfam03466).
Probab=58.57 E-value=15 Score=30.62 Aligned_cols=55 Identities=13% Similarity=0.137 Sum_probs=46.4
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|..|..+++. .|...-|+++++ .+..+.+-++.|... -...+....+|+.++.|.
T Consensus 2 l~~f~~v~~~-----gs~~~AA~~L~i----sqsavS~~i~~LE~~lg~~Lf~R~~~~~~lT~~G~~l~ 61 (279)
T TIGR03339 2 LKAFHAVARC-----GSFTRAAERLGL----SQPTVTDQVRKLEERYGVELFHRNGRRLELTDAGHRLL 61 (279)
T ss_pred chhhHHHHhc-----CCHHHHHHHhcC----CchHHHHHHHHHHHHhCCccEEEcCCeEEEChhHHHHH
Confidence 4678899984 499999999999 999999999999886 234678899999998877
No 359
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=58.30 E-value=12 Score=32.28 Aligned_cols=55 Identities=11% Similarity=0.074 Sum_probs=46.2
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|..+.+ ..|...-|+++++ ....+.+-++.|... -...+..+.+|+.++.|.
T Consensus 7 L~~f~~v~e-----~gs~s~AA~~L~i----SQpavS~~I~~LE~~lg~~Lf~R~~r~~~lT~~G~~l~ 66 (308)
T PRK10094 7 LRTFIAVAE-----TGSFSKAAERLCK----TTATISYRIKLLEENTGVALFFRTTRSVTLTAAGEHLL 66 (308)
T ss_pred HHHHHHHHH-----hCCHHHHHHHhcC----CHHHHHHHHHHHHHHhCCEEEeeCCCceeECHhHHHHH
Confidence 357888888 4499999999999 999999999999886 245677899999998876
No 360
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=57.53 E-value=9.8 Score=24.40 Aligned_cols=37 Identities=8% Similarity=0.147 Sum_probs=28.4
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|-+. +..|++|||+.+++ .++.+..-+..|-..
T Consensus 10 Ll~~L~~~---~~~~~~ela~~l~~----S~rti~~~i~~L~~~ 46 (59)
T PF08280_consen 10 LLELLLKN---KWITLKELAKKLNI----SERTIKNDINELNEF 46 (59)
T ss_dssp HHHHHHHH---TSBBHHHHHHHCTS-----HHHHHHHHHHHHTT
T ss_pred HHHHHHcC---CCCcHHHHHHHHCC----CHHHHHHHHHHHHHH
Confidence 44555543 68999999999999 999988888777654
No 361
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=56.89 E-value=13 Score=22.91 Aligned_cols=24 Identities=29% Similarity=0.310 Sum_probs=17.3
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
...|.+|||+.+|+ ++..+...+.
T Consensus 25 ~g~s~~eIa~~l~~----s~~~v~~~l~ 48 (54)
T PF08281_consen 25 QGMSYAEIAEILGI----SESTVKRRLR 48 (54)
T ss_dssp S---HHHHHHHCTS-----HHHHHHHHH
T ss_pred HCcCHHHHHHHHCc----CHHHHHHHHH
Confidence 47899999999999 8988887664
No 362
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=56.52 E-value=17 Score=21.97 Aligned_cols=28 Identities=14% Similarity=0.192 Sum_probs=23.1
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
...|..|||+.+|+ ++..+.+.++.+..
T Consensus 17 ~g~s~~eia~~l~i----s~~tv~~~~~~~~~ 44 (58)
T smart00421 17 EGLTNKEIAERLGI----SEKTVKTHLSNIMR 44 (58)
T ss_pred cCCCHHHHHHHHCC----CHHHHHHHHHHHHH
Confidence 36899999999999 89988887766543
No 363
>TIGR01321 TrpR trp operon repressor, proteobacterial. This model represents TrpR, the repressor of the trp operon. It is found so far only in the gamma subdivision of the proteobacteria and in Chlamydia trachomatis. All members belong to species capable of tryptophan biosynthesis.
Probab=56.43 E-value=12 Score=26.78 Aligned_cols=37 Identities=11% Similarity=0.156 Sum_probs=29.9
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+|+..|-+ +++|-.|||+++|+ +...+.|.=++|...
T Consensus 46 ~i~~~Ll~----~~~tQrEIa~~lGi----S~atIsR~sn~lk~~ 82 (94)
T TIGR01321 46 RIVNELLN----GNMSQREIASKLGV----SIATITRGSNNLKTM 82 (94)
T ss_pred HHHHHHHh----CCCCHHHHHHHhCC----ChhhhhHHHhhcccC
Confidence 46666666 69999999999999 888888888777644
No 364
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=56.13 E-value=15 Score=26.51 Aligned_cols=33 Identities=12% Similarity=0.132 Sum_probs=27.1
Q ss_pred chHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
+|.+.++. +..|+.++|+.+|+ .+..+..+||-
T Consensus 15 ~d~~~~~~--~~~ti~~~AK~L~i----~~~~l~~~Lr~ 47 (111)
T PF03374_consen 15 YDAFVDSD--GLYTIREAAKLLGI----GRNKLFQWLRE 47 (111)
T ss_pred HHHHHcCC--CCccHHHHHHHhCC----CHHHHHHHHHh
Confidence 55665543 79999999999999 89988888876
No 365
>TIGR03879 near_KaiC_dom probable regulatory domain. This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation.
Probab=56.00 E-value=12 Score=25.43 Aligned_cols=28 Identities=18% Similarity=0.210 Sum_probs=24.0
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
...|.+|||+.+|+ ++..+...++.+..
T Consensus 31 eGlS~kEIAe~LGI----S~~TVk~~l~~~~~ 58 (73)
T TIGR03879 31 AGKTASEIAEELGR----TEQTVRNHLKGETK 58 (73)
T ss_pred cCCCHHHHHHHHCc----CHHHHHHHHhcCcc
Confidence 47899999999999 99999988875543
No 366
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=55.99 E-value=16 Score=31.92 Aligned_cols=30 Identities=13% Similarity=0.222 Sum_probs=24.8
Q ss_pred hhHHHHHHHHHHhhCCCCceEEEEeeecCC
Q 045543 147 DEHCLSLLKNCYEAIPGNGKIIIIDSTTVV 176 (239)
Q Consensus 147 d~~~~~iL~~~~~aL~pgg~lli~d~~~~~ 176 (239)
-++....|..+.+.|+|||||+|+-+..-+
T Consensus 220 L~~L~~~L~~a~~~L~~gGRl~VIsFHSLE 249 (314)
T COG0275 220 LEELEEALEAALDLLKPGGRLAVISFHSLE 249 (314)
T ss_pred HHHHHHHHHHHHHhhCCCcEEEEEEecchH
Confidence 345678999999999999999999875443
No 367
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID. Members of this protein are the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if and only if the species is capable of endospore formation as occurs in the model species Bacillus subtilis. SpoIIID is a DNA binding protein that, in B. subtilis, downregulates many genes but also turns on ten genes.
Probab=55.77 E-value=14 Score=25.53 Aligned_cols=30 Identities=7% Similarity=0.100 Sum_probs=25.1
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVL 40 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL 40 (239)
|.+.|.+ +..|+.+||+.+|+ +...+.|.|
T Consensus 11 I~e~l~~----~~~ti~dvA~~~gv----S~~TVsr~L 40 (80)
T TIGR02844 11 IGKYIVE----TKATVRETAKVFGV----SKSTVHKDV 40 (80)
T ss_pred HHHHHHH----CCCCHHHHHHHhCC----CHHHHHHHh
Confidence 4566676 48999999999999 899888866
No 368
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=55.48 E-value=15 Score=27.38 Aligned_cols=37 Identities=11% Similarity=0.188 Sum_probs=29.4
Q ss_pred hHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 5 EIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 5 d~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+.|.++- ..+.|+++||+.+|+ ++..+.|+++.-..+
T Consensus 16 ~~I~~~~-~~~~sl~~lA~~~g~----S~~~l~r~Fk~~~G~ 52 (127)
T PRK11511 16 DWIEDNL-ESPLSLEKVSERSGY----SKWHLQRMFKKETGH 52 (127)
T ss_pred HHHHHhc-CCCCCHHHHHHHHCc----CHHHHHHHHHHHHCc
Confidence 4444432 368999999999999 999999999877665
No 369
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=55.17 E-value=16 Score=27.88 Aligned_cols=37 Identities=16% Similarity=0.324 Sum_probs=30.9
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+. ++.|..+||+++|+ ++..+.+-++-|...
T Consensus 13 IL~~L~~d---~r~~~~eia~~lgl----S~~~v~~Ri~~L~~~ 49 (154)
T COG1522 13 ILRLLQED---ARISNAELAERVGL----SPSTVLRRIKRLEEE 49 (154)
T ss_pred HHHHHHHh---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 45667764 68999999999999 899988888888776
No 370
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=54.87 E-value=15 Score=31.93 Aligned_cols=37 Identities=16% Similarity=0.161 Sum_probs=27.7
Q ss_pred hhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCC
Q 045543 140 LILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVV 176 (239)
Q Consensus 140 ~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~ 176 (239)
+|.-|---++....|.++.+.|+|||+++|+-+..-|
T Consensus 205 RI~VN~El~~L~~~L~~~~~~L~~gGrl~visfHSlE 241 (296)
T PRK00050 205 RIEVNDELEELERALEAALDLLKPGGRLAVISFHSLE 241 (296)
T ss_pred HHHHHhhHHHHHHHHHHHHHHhcCCCEEEEEecCcHH
Confidence 3333334456778999999999999999999875433
No 371
>PRK05638 threonine synthase; Validated
Probab=54.41 E-value=18 Score=33.27 Aligned_cols=54 Identities=11% Similarity=0.132 Sum_probs=41.8
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCC--CCCCCChhhHHHHHHHhccC--C-----CCCCCeEecChhhHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMP--SHNPNAAVMLDRVLRRSLSS--A-----GDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g--~~~~~~~~~l~rlL~~L~~~--~-----~~~~~~y~~t~~s~~l~ 64 (239)
|...|.+ ++++.-||++.++ + +...+.+.|+.|... . +...-.|++|+..+.++
T Consensus 376 IL~~L~~----~~~~~~el~~~l~~~~----s~~~v~~hL~~Le~~GLV~~~~~~g~~~~Y~Lt~~g~~~l 438 (442)
T PRK05638 376 ILKILSE----REMYGYEIWKALGKPL----KYQAVYQHIKELEELGLIEEAYRKGRRVYYKLTEKGRRLL 438 (442)
T ss_pred HHHHHhh----CCccHHHHHHHHcccC----CcchHHHHHHHHHHCCCEEEeecCCCcEEEEECcHHHHHH
Confidence 5667777 7999999999998 7 888999999999765 1 11123489999887654
No 372
>TIGR00589 ogt O-6-methylguanine DNA methyltransferase. All proteins in this family for which functions are known are involved alkyl-DNA transferases which remove alkyl groups from DNA as part of alkylation DNA repair. Some of the proteins in this family are also transcription regulators and have a distinct transcription regulatory domain. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=53.91 E-value=20 Score=24.67 Aligned_cols=38 Identities=16% Similarity=0.198 Sum_probs=26.9
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
|++.|.+.+.|...|..+||+.+|. +..++.+...|..
T Consensus 7 V~~~l~~IP~G~v~TYg~iA~~~g~--p~~~RaVg~al~~ 44 (80)
T TIGR00589 7 VWQALRTIPYGETKSYGQLAARIGN--PKAVRAVGGANGR 44 (80)
T ss_pred HHHHHhCCCCCCcCCHHHHHHHhCC--CChHHHHHHHHHh
Confidence 5677777766789999999999996 1134555555544
No 373
>TIGR03418 chol_sulf_TF putative choline sulfate-utilization transcription factor. Members of this protein family are transcription factors of the LysR family. Their genes typically are divergently transcribed from choline-sulfatase genes. That enzyme makes choline, a precursor to the osmoprotectant glycine-betaine, available by hydrolysis of choline sulfate.
Probab=53.80 E-value=16 Score=30.88 Aligned_cols=55 Identities=16% Similarity=0.162 Sum_probs=45.7
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|..+.+. .|...-|+++++ .+..+.+-+..|... -...+..+.+|+.++.|.
T Consensus 6 L~~f~~v~~~-----gs~s~AA~~L~i----tqpavS~~Ik~LE~~lg~~LF~R~~r~~~lT~~G~~l~ 65 (291)
T TIGR03418 6 LRVFESAARL-----ASFTAAARELGS----TQPAVSQQVKRLEEELGTPLFERGHRGIELTEDGQRLF 65 (291)
T ss_pred HHHHHHHHHh-----CCHHHHHHHhCC----CHHHHHHHHHHHHHHhCcHHhhcCCCceeEcHhHHHHH
Confidence 3568888884 399999999999 999999999999886 235577899999999887
No 374
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=53.75 E-value=14 Score=22.81 Aligned_cols=25 Identities=16% Similarity=0.240 Sum_probs=20.0
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
..+|..|+|+++|+ ++..+.++++.
T Consensus 8 ~gls~~~la~~~gi----s~~~i~~~~~g 32 (55)
T PF01381_consen 8 KGLSQKELAEKLGI----SRSTISRIENG 32 (55)
T ss_dssp TTS-HHHHHHHHTS-----HHHHHHHHTT
T ss_pred cCCCHHHHHHHhCC----CcchhHHHhcC
Confidence 58999999999999 99999888743
No 375
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental
Probab=53.59 E-value=21 Score=21.67 Aligned_cols=28 Identities=14% Similarity=0.134 Sum_probs=23.1
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
...|..|||+.+++ ++..+.+.++.+..
T Consensus 14 ~~~s~~eia~~l~~----s~~tv~~~~~~~~~ 41 (57)
T cd06170 14 EGKTNKEIADILGI----SEKTVKTHLRNIMR 41 (57)
T ss_pred cCCCHHHHHHHHCC----CHHHHHHHHHHHHH
Confidence 37899999999999 89988888766543
No 376
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=53.27 E-value=16 Score=30.88 Aligned_cols=54 Identities=11% Similarity=0.081 Sum_probs=45.3
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
..|..+++. .|...-|+++++ .+..+.+-++.|... -+..+.++.+|+.++.|.
T Consensus 7 ~~f~~v~~~-----gs~s~AA~~L~i----sqpavS~~I~~LE~~lG~~LF~R~~r~~~lT~~G~~l~ 65 (275)
T PRK03601 7 KTFLEVSRT-----RHFGRAAESLYL----TQSAVSFRIRQLENQLGVNLFTRHRNNIRLTAAGERLL 65 (275)
T ss_pred HHHHHHHHc-----CCHHHHHHHhCC----ChHHHHHHHHHHHHHhCCceEEECCCceEECHhHHHHH
Confidence 467888874 489999999999 999999999999886 234567899999999887
No 377
>PRK14483 DhaKLM operon coactivator DhaQ; Provisional
Probab=53.02 E-value=43 Score=29.62 Aligned_cols=16 Identities=25% Similarity=0.366 Sum_probs=12.3
Q ss_pred CCCcceEEEeCCCCCC
Q 045543 106 FEKIKQLVDVGGGCGK 121 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~ 121 (239)
+.+.+.-|=.|||+|+
T Consensus 40 ~~~~kV~lIsGGGSGH 55 (329)
T PRK14483 40 KDDQLVPIISGGGSGH 55 (329)
T ss_pred CCCCcEEEEecCCccc
Confidence 3345677788999999
No 378
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=52.99 E-value=18 Score=27.82 Aligned_cols=34 Identities=15% Similarity=0.322 Sum_probs=26.4
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
|-+.|.+++ +.+.|+.|||+.||+ ++..+.+++|
T Consensus 35 V~~yLr~~p-~~~ati~eV~e~tgV----s~~~I~~~Ir 68 (137)
T TIGR03826 35 VYKFLRKHE-NRQATVSEIVEETGV----SEKLILKFIR 68 (137)
T ss_pred HHHHHHHCC-CCCCCHHHHHHHHCc----CHHHHHHHHH
Confidence 345666653 235899999999999 9999988885
No 379
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=52.98 E-value=17 Score=29.18 Aligned_cols=37 Identities=14% Similarity=0.213 Sum_probs=32.1
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|+++|.+. |-.|=+|||..+|+ ...-++++|.+|...
T Consensus 23 v~~~l~~k---ge~tDeela~~l~i----~~~~vrriL~~L~e~ 59 (176)
T COG1675 23 VVDALLEK---GELTDEELAELLGI----KKNEVRRILYALYED 59 (176)
T ss_pred HHHHHHhc---CCcChHHHHHHhCc----cHHHHHHHHHHHHhC
Confidence 56777763 47999999999999 999999999999876
No 380
>TIGR02362 dhaK1b probable dihydroxyacetone kinase DhaK1b subunit. Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated EC 2.7.1.29. By contract, E. coli and many other bacterial species have a multisubunit form with a phosphoprotein donor related to PTS transport proteins. This family represents a protein, unique to the Firmicutes (low GC Gram-positives), that appears to be a divergent second copy of the K subunit of that complex; its gene is always found in operons with the other three proteins of the complex.
Probab=52.56 E-value=44 Score=29.56 Aligned_cols=16 Identities=31% Similarity=0.646 Sum_probs=12.5
Q ss_pred CCCcceEEEeCCCCCC
Q 045543 106 FEKIKQLVDVGGGCGK 121 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~ 121 (239)
+.+.+.-|=.|||+|+
T Consensus 38 ~~~~kValIsGGGSGH 53 (326)
T TIGR02362 38 FDDQQIPIISGGGSGH 53 (326)
T ss_pred CCCCcEEEEecCCccc
Confidence 4445677788999999
No 381
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=52.55 E-value=16 Score=29.87 Aligned_cols=28 Identities=14% Similarity=0.153 Sum_probs=26.5
Q ss_pred CCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 15 KLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 15 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+.|.+|||+++++ ++..+.+-+..|+..
T Consensus 177 g~s~~eIa~~l~i----S~~Tv~~~~~~~~~~ 204 (225)
T PRK10046 177 QHTAETVAQALTI----SRTTARRYLEYCASR 204 (225)
T ss_pred CcCHHHHHHHhCc----cHHHHHHHHHHHHhC
Confidence 6899999999999 999999999999987
No 382
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=52.23 E-value=12 Score=32.71 Aligned_cols=14 Identities=21% Similarity=0.271 Sum_probs=12.4
Q ss_pred CcceEEEeCCCCCC
Q 045543 108 KIKQLVDVGGGCGK 121 (239)
Q Consensus 108 ~~~~vlDvGGG~G~ 121 (239)
+..+|||+|||+|.
T Consensus 173 ~~~~VLDl~cG~G~ 186 (315)
T PRK03522 173 PPRSMWDLFCGVGG 186 (315)
T ss_pred CCCEEEEccCCCCH
Confidence 34799999999999
No 383
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=52.20 E-value=13 Score=26.26 Aligned_cols=25 Identities=28% Similarity=0.383 Sum_probs=22.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
..+|.++||+.+++ ++..++++|..
T Consensus 22 ~~ls~~~ia~dL~~----s~~~le~vL~l 46 (89)
T PF10078_consen 22 SGLSLEQIAADLGT----SPEHLEQVLNL 46 (89)
T ss_pred cCCCHHHHHHHhCC----CHHHHHHHHcC
Confidence 47899999999999 99999999954
No 384
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=52.09 E-value=18 Score=28.91 Aligned_cols=29 Identities=14% Similarity=0.093 Sum_probs=26.4
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+|+|++||++++|. +...+..-|+-|...
T Consensus 40 ~Pmtl~Ei~E~lg~----Sks~vS~~lkkL~~~ 68 (177)
T COG1510 40 KPLTLDEIAEALGM----SKSNVSMGLKKLQDW 68 (177)
T ss_pred CCccHHHHHHHHCC----CcchHHHHHHHHHhc
Confidence 79999999999999 888888888888776
No 385
>PRK14997 LysR family transcriptional regulator; Provisional
Probab=51.81 E-value=18 Score=30.74 Aligned_cols=55 Identities=11% Similarity=0.063 Sum_probs=46.1
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|.++++ ..|...-|+++++ .+..+.+-++.|... -+..+....+|+.++.|.
T Consensus 7 L~~f~~va~-----~gs~s~AA~~L~i----sQpavS~~I~~LE~~lG~~LF~R~~r~~~lT~~G~~l~ 66 (301)
T PRK14997 7 FAWFVHVVE-----EGGFAAAGRALDE----PKSKLSRRIAQLEERLGVRLIQRTTRQFNVTEVGQTFY 66 (301)
T ss_pred HHHHHHHHH-----cCCHHHHHHHhCC----CHHHHHHHHHHHHHHhCCEeeeeccCcceEcHhHHHHH
Confidence 357888888 4499999999999 999999999999886 245677899999998887
No 386
>PF01728 FtsJ: FtsJ-like methyltransferase; InterPro: IPR002877 RrmJ (FtsJ) is a well conserved heat shock protein present in prokaryotes, archaea, and eukaryotes. RrmJ is responsible for methylating 23 S rRNA at position U2552 in the aminoacyl (A)1-site of the ribosome []. U2552 is one of the five universally conserved A-loop residues and has been shown to be methylated at the ribose 2'-OH group in the majority of organisms investigated so far. This suggests that this modification plays an important role in the A-loop function. RrmJ recognises its methylation target only when the 23 S rRNA is present in 50 S ribosomal subunits. This suggests that the RrmJ-mediated methylation must occur late in the maturation process of the ribosome. This is in contrast to other known 23 S rRNA modifications that occur in earlier maturation steps. The 1.5 A crystal structure of RrmJ in complex with its cofactor S-adenosylmethionine revealed that RrmJ has a methyltransferase fold. The active site of RrmJ appears to be formed by a catalytic triad consisting of two lysine residues and the negatively charged aspartate residue. Another highly conserved glutamate residue that is present in the active site of RrmJ appears to play only a minor role in the methyltransfer reaction in vivo []. ; GO: 0003676 nucleic acid binding, 0008168 methyltransferase activity, 0032259 methylation; PDB: 3GCZ_A 2PLW_A 2NYU_A 2OXT_C 3EMD_A 3ELY_A 3ELW_A 3ELU_A 3ELD_A 3EMB_A ....
Probab=51.78 E-value=13 Score=29.22 Aligned_cols=26 Identities=27% Similarity=0.384 Sum_probs=17.6
Q ss_pred HHHHHhhccCCC--CcceEEEeCCCCCC
Q 045543 96 MNRILDYYKGFE--KIKQLVDVGGGCGK 121 (239)
Q Consensus 96 ~~~~~~~~~~~~--~~~~vlDvGGG~G~ 121 (239)
..++.+.|+-++ +..++||+|+++|.
T Consensus 9 L~ei~~~~~~~~~~~~~~vlDlG~aPGG 36 (181)
T PF01728_consen 9 LYEIDEKFKIFKPGKGFTVLDLGAAPGG 36 (181)
T ss_dssp HHHHHHTTSSS-TTTTEEEEEET-TTSH
T ss_pred HHHHHHHCCCCCcccccEEEEcCCcccc
Confidence 345666665333 45999999999999
No 387
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=51.40 E-value=17 Score=30.69 Aligned_cols=37 Identities=11% Similarity=0.201 Sum_probs=32.4
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+. +.++++|||+.+|+ ++..++|-|+.|...
T Consensus 10 Il~~l~~~---~~~~~~ela~~l~v----S~~TirRdL~~Le~~ 46 (251)
T PRK13509 10 LLELLAQL---GFVTVEKVIERLGI----SPATARRDINKLDES 46 (251)
T ss_pred HHHHHHHc---CCcCHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 45677774 69999999999999 999999999999875
No 388
>PRK01381 Trp operon repressor; Provisional
Probab=51.24 E-value=9.9 Score=27.43 Aligned_cols=37 Identities=16% Similarity=0.225 Sum_probs=29.9
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+|+..|.+ |.+|-.|||+.+|+ ....+.|-=++|-..
T Consensus 46 ~I~~~L~~----g~~sQREIa~~lGv----SiaTITRgsn~Lk~~ 82 (99)
T PRK01381 46 RIVEELLR----GELSQREIKQELGV----GIATITRGSNSLKTA 82 (99)
T ss_pred HHHHHHHc----CCcCHHHHHHHhCC----ceeeehhhHHHhccC
Confidence 56777777 78999999999999 787777777777654
No 389
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=51.16 E-value=18 Score=28.60 Aligned_cols=41 Identities=10% Similarity=0.080 Sum_probs=34.6
Q ss_pred CCHHHHHHhCCCCCCCChhhHHHHHHHhccC---CCCCCCeEecChhh
Q 045543 16 LSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS---AGDDRRLQRLAPVA 60 (239)
Q Consensus 16 ~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~---~~~~~~~y~~t~~s 60 (239)
.|..+||+.+|+ +...+.|.+..|... .....|.|..+|.-
T Consensus 76 ~t~~~ia~~l~i----S~~Tv~r~ik~L~e~~iI~k~~~G~Y~iNP~~ 119 (165)
T PF05732_consen 76 ATQKEIAEKLGI----SKPTVSRAIKELEEKNIIKKIRNGAYMINPNF 119 (165)
T ss_pred eeHHHHHHHhCC----CHHHHHHHHHHHHhCCcEEEccCCeEEECcHH
Confidence 478899999999 999999999999887 33456889998874
No 390
>PHA00542 putative Cro-like protein
Probab=51.13 E-value=17 Score=24.99 Aligned_cols=25 Identities=16% Similarity=0.138 Sum_probs=21.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
..+|..+||+.+|+ +...+.++++.
T Consensus 30 ~glTq~elA~~lgI----s~~tIsr~e~g 54 (82)
T PHA00542 30 AGWSQEQIADATDV----SQPTICRIYSG 54 (82)
T ss_pred CCCCHHHHHHHHCc----CHHHHHHHHcC
Confidence 58999999999999 88888888744
No 391
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=50.83 E-value=22 Score=20.96 Aligned_cols=25 Identities=24% Similarity=0.231 Sum_probs=21.4
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
...|..+||+.+|+ +...+.+.+.-
T Consensus 25 ~~~~~~~ia~~~~~----s~~~i~~~~~~ 49 (55)
T cd06171 25 EGLSYEEIAEILGI----SRSTVRQRLHR 49 (55)
T ss_pred cCCCHHHHHHHHCc----CHHHHHHHHHH
Confidence 46899999999999 89988887754
No 392
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=50.68 E-value=21 Score=30.43 Aligned_cols=55 Identities=9% Similarity=0.022 Sum_probs=45.6
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|-.+++ ..|...-|+++++ .+..+.+-++.|... -...+..+.+|+.++.|.
T Consensus 9 L~~F~~v~e-----~gs~s~AA~~L~i----sqpavS~~I~~LE~~lg~~Lf~R~~r~~~lT~~G~~l~ 68 (296)
T PRK11062 9 LYYFWMVCK-----EGSVVGAAEALFL----TPQTITGQIKALEERLQGKLFKRKGRGLEPTELGELVF 68 (296)
T ss_pred HHHHHHHHh-----cCCHHHHHHHhCC----ChHHHHHHHHHHHHHcCccceeecCCceeECHhHHHHH
Confidence 346778887 4489999999999 999999999999886 245677899999999887
No 393
>PF13730 HTH_36: Helix-turn-helix domain
Probab=50.13 E-value=19 Score=22.27 Aligned_cols=25 Identities=8% Similarity=0.162 Sum_probs=22.8
Q ss_pred CHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 17 SAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 17 t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
|.+.||+.+|+ ..+.+.+.++.|..
T Consensus 27 S~~~la~~~g~----s~~Tv~~~i~~L~~ 51 (55)
T PF13730_consen 27 SQETLAKDLGV----SRRTVQRAIKELEE 51 (55)
T ss_pred CHHHHHHHHCc----CHHHHHHHHHHHHH
Confidence 89999999999 99999999988864
No 394
>PF13744 HTH_37: Helix-turn-helix domain; PDB: 2A6C_B 2O38_A.
Probab=49.85 E-value=13 Score=25.46 Aligned_cols=24 Identities=17% Similarity=0.238 Sum_probs=18.8
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
..+|-.|+|+.+|+ +...+.++++
T Consensus 30 ~~ltQ~e~A~~lgi----sq~~vS~l~~ 53 (80)
T PF13744_consen 30 RGLTQAELAERLGI----SQPRVSRLEN 53 (80)
T ss_dssp CT--HHHHHHHHTS-----HHHHHHHHT
T ss_pred cCCCHHHHHHHHCC----ChhHHHHHHc
Confidence 68999999999999 8998888873
No 395
>TIGR02361 dak_ATP dihydroxyacetone kinase, ATP-dependent. This family consists of examples of the form of dihydroxyacetone kinase (also called glycerone kinase) that uses ATP (2.7.1.29) as the phosphate donor, rather than a phosphoprotein as in E. coli. This form is composed of a single chain with separable domains homologous to the K and L subunits of the E. coli enzyme, and is found in yeasts and other eukaryotes and in some bacteria, including Citrobacter freundii. The member from tomato has been shown to phosphorylate dihydroxyacetone, 3,4-dihydroxy-2-butanone, and some other aldoses and ketoses (PubMed:11985845).
Probab=49.72 E-value=45 Score=31.91 Aligned_cols=16 Identities=38% Similarity=0.543 Sum_probs=12.7
Q ss_pred CCCcceEEEeCCCCCC
Q 045543 106 FEKIKQLVDVGGGCGK 121 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~ 121 (239)
+++.+.-|=.|||+|+
T Consensus 39 ~~~~kV~lisGGGSGH 54 (574)
T TIGR02361 39 LNKDKVSLISGGGSGH 54 (574)
T ss_pred CCCCcEEEEecCCccc
Confidence 4455777889999999
No 396
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=49.67 E-value=17 Score=30.93 Aligned_cols=38 Identities=18% Similarity=0.467 Sum_probs=34.5
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+.+.|.++| |..+-+||.+++|+ +...+.|+|+-|...
T Consensus 200 il~~i~~~G--Gri~Q~eL~r~lgl----sktTvsR~L~~LEk~ 237 (258)
T COG2512 200 ILDLIRERG--GRITQAELRRALGL----SKTTVSRILRRLEKR 237 (258)
T ss_pred HHHHHHHhC--CEEeHHHHHHhhCC----ChHHHHHHHHHHHhC
Confidence 567888876 88999999999999 999999999999987
No 397
>PRK04217 hypothetical protein; Provisional
Probab=49.59 E-value=23 Score=26.03 Aligned_cols=28 Identities=18% Similarity=0.117 Sum_probs=23.2
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
..+|.+|||+.+|+ +...+.+.++....
T Consensus 57 eGlS~~EIAk~LGI----S~sTV~r~L~RArk 84 (110)
T PRK04217 57 EGLTQEEAGKRMGV----SRGTVWRALTSARK 84 (110)
T ss_pred cCCCHHHHHHHHCc----CHHHHHHHHHHHHH
Confidence 47899999999999 89988888765443
No 398
>PF01035 DNA_binding_1: 6-O-methylguanine DNA methyltransferase, DNA binding domain; InterPro: IPR014048 Synonym(s): 6-O-methylguanine-DNA methyltransferase, O-6-methylguanine-DNA-alkyltransferase This entry represents the DNA binding region of 6-O-methylguanine-DNA methyltransferases. The repair of DNA containing O6-alkylated guanine is carried out by DNA-[protein]-cysteine S-methyltransferase (2.1.1.63 from EC). The major mutagenic and carcinogenic effect of methylating agents in DNA is the formation of O6-alkylguanine. The alkyl group at the O-6 position is transferred to a cysteine residue in the enzyme []. This is a suicide reaction since the enzyme is irreversibly inactivated and the methylated protein accumulates as a dead-end product. Most, but not all of the methyltransferases are also able to repair O-4-methylthymine. DNA-[protein]-cysteine S-methyltransferases are widely distributed and are found in various prokaryotic and eukaryotic sources [].; GO: 0003824 catalytic activity, 0006281 DNA repair; PDB: 1SFE_A 1T39_B 1T38_A 1EH7_A 1EH6_A 1YFH_C 1EH8_A 1QNT_A 2KIM_A 2KIF_A ....
Probab=49.45 E-value=16 Score=25.45 Aligned_cols=38 Identities=24% Similarity=0.256 Sum_probs=25.0
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
|.+.|.+-+.|.-.|..+||+.+|. +..++.+...|+.
T Consensus 7 V~~~v~~IP~G~v~TYg~iA~~~g~--p~~ar~Vg~al~~ 44 (85)
T PF01035_consen 7 VWEAVRQIPYGKVTTYGEIARLLGR--PKAARAVGSALAR 44 (85)
T ss_dssp HHHHHTTS-TT-BEEHHHHHHHTT---TTCHHHHHHHHHT
T ss_pred HHHHHHcCCCCceEeHHHHHHHHhh--cccHHHHHHHhcc
Confidence 3455555555688999999999993 2267777666655
No 399
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=49.36 E-value=17 Score=29.20 Aligned_cols=37 Identities=5% Similarity=0.012 Sum_probs=32.2
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.++ +.+++++||+.+++ ++..++|=|+.|...
T Consensus 12 Il~~l~~~---~~~~~~~La~~~~v----S~~TiRRDl~~L~~~ 48 (185)
T PRK04424 12 LQELIEEN---PFITDEELAEKFGV----SIQTIRLDRMELGIP 48 (185)
T ss_pred HHHHHHHC---CCEEHHHHHHHHCc----CHHHHHHHHHHHhcc
Confidence 45667775 68999999999999 999999999999875
No 400
>PF10017 Methyltransf_33: Histidine-specific methyltransferase, SAM-dependent; InterPro: IPR019257 This domain is found in methyltransferases and various hypothetical proteins.
Probab=49.12 E-value=27 Score=26.18 Aligned_cols=32 Identities=16% Similarity=0.177 Sum_probs=25.6
Q ss_pred ccccChhhccHHHHHhhCCCceeeEEEcCC-ceeE
Q 045543 201 EKERTKQEYYGMALTAKNGFKGVNYESFVC-NFYI 234 (239)
Q Consensus 201 g~~rt~~e~~~~~ll~~aGf~~~~~~~~~~-~~~v 234 (239)
+.-+|.+++ ..+++++||++++.+.-+. .+++
T Consensus 93 S~Ky~~~~~--~~l~~~aGl~~~~~w~d~~~~f~l 125 (127)
T PF10017_consen 93 SYKYSPEEF--EALAEQAGLEVEKRWTDPKGDFSL 125 (127)
T ss_pred eeCcCHHHH--HHHHHHCCCeeEEEEECCCCCeEE
Confidence 445789999 9999999999999987653 4444
No 401
>PTZ00375 dihydroxyacetone kinase-like protein; Provisional
Probab=49.09 E-value=45 Score=31.95 Aligned_cols=63 Identities=21% Similarity=0.243 Sum_probs=31.0
Q ss_pred CCCcceEEEeCCCCCCCccccccccCCc--ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 106 FEKIKQLVDVGGGCGKCGWKMFQKILNG--DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~~~gD~~~~~p~~--D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
+++.+.-|=.|||+|+.|. |.--+.++ |...+-+|+= -+...+|+.-++.+=.+.|.|+|+-.
T Consensus 43 ~~~~kV~lisGGGSGHEPa-h~G~VG~Gml~aav~G~vFa---SPs~~qi~~ai~~v~~~~Gvl~ivkN 107 (584)
T PTZ00375 43 IDKTKVLLISGGGSGHEPA-HAGFVGKGWLTAAVCGSVFA---SPSTKHVLAAIEYVPNGPGCLLIVKN 107 (584)
T ss_pred CCCCcEEEEecCCcccccc-ccccccCCccceeecccccC---CCCHHHHHHHHHHhcCCCCEEEEecc
Confidence 4456777889999999221 10012222 4444444431 12223445555444444555555443
No 402
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=48.88 E-value=25 Score=25.95 Aligned_cols=29 Identities=14% Similarity=0.165 Sum_probs=24.6
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
..+|..|||+.+|+ ++..+.+.|.-|--.
T Consensus 70 pd~tl~Ela~~l~V----s~~ti~~~Lkrlg~t 98 (119)
T PF01710_consen 70 PDATLRELAERLGV----SPSTIWRALKRLGIT 98 (119)
T ss_pred CCcCHHHHHHHcCC----CHHHHHHHHHHcCch
Confidence 47899999999999 999999888776543
No 403
>PRK09906 DNA-binding transcriptional regulator HcaR; Provisional
Probab=48.46 E-value=20 Score=30.31 Aligned_cols=54 Identities=17% Similarity=0.207 Sum_probs=45.1
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
.+|-.+++. .|...-|+++++ .+..+.|-++.|... -+..+....+|+.++.|.
T Consensus 7 ~~f~~v~~~-----gs~s~AA~~L~i----sQ~avSr~i~~LE~~lg~~Lf~R~~~~~~lT~~G~~l~ 65 (296)
T PRK09906 7 RYFVAVAEE-----LNFTKAAEKLHT----AQPSLSQQIKDLENCVGVPLLVRDKRKVALTAAGEVFL 65 (296)
T ss_pred HHHHHHHhh-----CCHHHHHHHhCC----CCcHHHHHHHHHHHHhCCeeeeeCCCcceEcHhHHHHH
Confidence 467788873 499999999999 999999999999886 245677899999999887
No 404
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=48.32 E-value=22 Score=29.81 Aligned_cols=37 Identities=11% Similarity=0.260 Sum_probs=32.0
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.++ +..|.+|||+.+++ ++..++|-|..|...
T Consensus 9 Il~~l~~~---~~~~~~eLa~~l~V----S~~TiRRdL~~L~~~ 45 (240)
T PRK10411 9 IVDLLLNH---TSLTTEALAEQLNV----SKETIRRDLNELQTQ 45 (240)
T ss_pred HHHHHHHc---CCCcHHHHHHHHCc----CHHHHHHHHHHHHHC
Confidence 45667664 69999999999999 999999999999775
No 405
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=48.25 E-value=18 Score=31.51 Aligned_cols=37 Identities=5% Similarity=0.086 Sum_probs=31.5
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+. .+.|.++||+++|+ +...+.+.++.|...
T Consensus 9 il~~L~~~---~~~s~~~LA~~lgv----sr~tV~~~l~~L~~~ 45 (319)
T PRK11886 9 LLSLLADG---DFHSGEQLGEELGI----SRAAIWKHIQTLEEW 45 (319)
T ss_pred HHHHHHcC---CCcCHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 45566652 58999999999999 999999999999986
No 406
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=47.91 E-value=27 Score=27.74 Aligned_cols=43 Identities=9% Similarity=-0.113 Sum_probs=34.8
Q ss_pred CCCCHHHHHHhC--CCCCCCChhhHHHHHHHhccC---CCCCCCeEecChhh
Q 045543 14 AKLSAAEIEAQM--PSHNPNAAVMLDRVLRRSLSS---AGDDRRLQRLAPVA 60 (239)
Q Consensus 14 ~~~t~~eLA~~~--g~~~~~~~~~l~rlL~~L~~~---~~~~~~~y~~t~~s 60 (239)
+.-++++||++| ++ .++-++.-|..|..+ ...++|.|..|.-+
T Consensus 38 ~~~d~~~iak~l~p~i----s~~ev~~sL~~L~~~gli~k~~~g~y~~t~~~ 85 (171)
T PF14394_consen 38 FAPDPEWIAKRLRPKI----SAEEVRDSLEFLEKLGLIKKDGDGKYVQTDKS 85 (171)
T ss_pred CCCCHHHHHHHhcCCC----CHHHHHHHHHHHHHCCCeEECCCCcEEEecce
Confidence 344999999999 99 999999999999998 33445789877643
No 407
>PF03059 NAS: Nicotianamine synthase protein; InterPro: IPR004298 Nicotianamine synthase 2.5.1.43 from EC catalyzes the trimerization of S-adenosylmethionine to yield one molecule of nicotianamine. Nicotianamine has an important role in plant iron uptake mechanisms. Plants adopt two strategies (termed I and II) of iron acquisition. Strategy I is adopted by all higher plants except graminaceous plants, which adopt strategy II [, ]. In strategy I plants, the role of nicotianamine is not fully determined: possible roles include the formation of more stable complexes with ferrous than with ferric ion, which might serve as a sensor of the physiological status of iron within a plant, or which might be involved in the transport of iron []. In strategy II (graminaceous) plants, nicotianamine is the key intermediate (and nicotianamine synthase the key enzyme) in the synthesis of the mugineic family (the only known family in plants) of phytosiderophores. Phytosiderophores are iron chelators whose secretion by the roots is greatly increased in instances of iron deficiency []. The 3D structures of five example NAS from Methanothermobacter thermautotrophicus reveal the monomer to consist of a five-helical bundle N-terminal domain on top of a classic Rossmann fold C-terminal domain. The N-terminal domain is unique to the NAS family, whereas the C-terminal domain is homologous to the class I family of SAM-dependent methyltransferases. An active site is created at the interface of the two domains, at the rim of a large cavity that corresponds to the nucleotide binding site such as is found in other proteins adopting a Rossmann fold [].; GO: 0030410 nicotianamine synthase activity, 0030418 nicotianamine biosynthetic process; PDB: 3O31_B 3FPH_A 3FPJ_A 3FPE_B 3FPF_B 3FPG_B.
Probab=47.75 E-value=24 Score=30.39 Aligned_cols=36 Identities=11% Similarity=0.315 Sum_probs=24.3
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEE
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~ 170 (239)
|+|++.... ..+.++-.+||+++.+.|+||.+|++=
T Consensus 194 DvV~lAalV-g~~~e~K~~Il~~l~~~m~~ga~l~~R 229 (276)
T PF03059_consen 194 DVVFLAALV-GMDAEPKEEILEHLAKHMAPGARLVVR 229 (276)
T ss_dssp SEEEE-TT--S----SHHHHHHHHHHHS-TTSEEEEE
T ss_pred CEEEEhhhc-ccccchHHHHHHHHHhhCCCCcEEEEe
Confidence 888888776 344555679999999999999987763
No 408
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=47.55 E-value=43 Score=23.77 Aligned_cols=53 Identities=17% Similarity=0.245 Sum_probs=38.6
Q ss_pred hHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC------CCCC---CCeEecChhhHHHH
Q 045543 5 EIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS------AGDD---RRLQRLAPVAKYVL 64 (239)
Q Consensus 5 d~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~------~~~~---~~~y~~t~~s~~l~ 64 (239)
..|... ++.+..+||+++++ ++..+.++++-|... ..+. .-.+.+|+.++.+.
T Consensus 29 ~~l~~~---~~~~~~~la~~l~i----~~~~vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~~G~~~~ 90 (126)
T COG1846 29 LALYEA---GGITVKELAERLGL----DRSTVTRLLKRLEDKGLIERLRDPEDRRAVLVRLTEKGRELL 90 (126)
T ss_pred HHHHHh---CCCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeecCCccccceeeEEECccHHHHH
Confidence 345553 24444999999999 999999999999986 1112 23478899888766
No 409
>PF13022 HTH_Tnp_1_2: Helix-turn-helix of insertion element transposase; PDB: 2AO9_I.
Probab=47.39 E-value=16 Score=28.13 Aligned_cols=24 Identities=21% Similarity=0.185 Sum_probs=18.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
+..|-+|||+.+|+ ++..|+++..
T Consensus 33 ~r~T~~eiAee~Gi----s~~tLYrWr~ 56 (142)
T PF13022_consen 33 ERRTQAEIAEEVGI----SRSTLYRWRQ 56 (142)
T ss_dssp --S-HHHHHHHHTS-----HHHHHHHHH
T ss_pred ccchHHHHHHHhCC----CHHHHHHHHh
Confidence 67899999999999 9999999984
No 410
>KOG2352 consensus Predicted spermine/spermidine synthase [Amino acid transport and metabolism]
Probab=47.19 E-value=39 Score=31.45 Aligned_cols=56 Identities=21% Similarity=0.192 Sum_probs=40.2
Q ss_pred ccccc-ccCC-c-ceeeechhhhcCC-hhHHH-------HHHHHHHhhCCCCceEEEEeee--cCCCCC
Q 045543 124 WKMFQ-KILN-G-DAILMKLILRNWD-DEHCL-------SLLKNCYEAIPGNGKIIIIDST--TVVIPE 179 (239)
Q Consensus 124 gD~~~-~~p~-~-D~~~l~~vlH~~~-d~~~~-------~iL~~~~~aL~pgg~lli~d~~--~~~~~~ 179 (239)
.|+.. .++. . |+++.+..||.+- |++++ ..+..+.+.|+||||.+++-.. .+..++
T Consensus 103 ~d~~~l~fedESFdiVIdkGtlDal~~de~a~~~~~~v~~~~~eVsrvl~~~gk~~svtl~~~vp~~r~ 171 (482)
T KOG2352|consen 103 MDMDQLVFEDESFDIVIDKGTLDALFEDEDALLNTAHVSNMLDEVSRVLAPGGKYISVTLVQVVPQGRK 171 (482)
T ss_pred ecchhccCCCcceeEEEecCccccccCCchhhhhhHHhhHHHhhHHHHhccCCEEEEEEeeeeccCCCC
Confidence 34444 5664 3 9999999999863 44333 3588999999999999998774 555544
No 411
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=47.19 E-value=22 Score=21.18 Aligned_cols=22 Identities=14% Similarity=0.076 Sum_probs=18.3
Q ss_pred CCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 16 LSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 16 ~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
.|..|+|+.+|+ +++.++++.+
T Consensus 1 ~~~~e~a~~~gv----~~~tlr~~~~ 22 (49)
T cd04761 1 YTIGELAKLTGV----SPSTLRYYER 22 (49)
T ss_pred CcHHHHHHHHCc----CHHHHHHHHH
Confidence 378999999999 8888877754
No 412
>PRK09986 DNA-binding transcriptional activator XapR; Provisional
Probab=47.12 E-value=22 Score=29.99 Aligned_cols=55 Identities=15% Similarity=0.104 Sum_probs=45.3
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|..+.+. .|...-|+++++ .+..+.+-++.|... -...+..+.+|+.++.|.
T Consensus 12 l~~f~~v~~~-----gs~t~AA~~L~i----tq~avS~~i~~LE~~lg~~Lf~R~~r~~~lT~~G~~l~ 71 (294)
T PRK09986 12 LRYFLAVAEE-----LHFGRAAARLNI----SQPPLSIHIKELEDQLGTPLFIRHSRSVVLTHAGKILM 71 (294)
T ss_pred HHHHHHHHHh-----cCHHHHHHHhCC----CCCHHHHHHHHHHHHhCCeeEeeCCCceeECHhHHHHH
Confidence 3568888874 489999999999 999999999999886 234567799999998776
No 413
>CHL00180 rbcR LysR transcriptional regulator; Provisional
Probab=46.99 E-value=19 Score=30.72 Aligned_cols=55 Identities=7% Similarity=0.089 Sum_probs=45.4
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|..+.+. .|...-|+++++ .+..+.+-++.|... -+..+..+.+|+.++.|.
T Consensus 10 L~~f~~v~e~-----gs~s~AA~~L~i----sqpavS~~i~~LE~~lg~~Lf~R~~r~~~lT~~G~~l~ 69 (305)
T CHL00180 10 LRILKAIATE-----GSFKKAAESLYI----SQPAVSLQIKNLEKQLNIPLFDRSKNKASLTEAGELLL 69 (305)
T ss_pred HHHHHHHHHc-----CCHHHHHHHhcC----CChHHHHHHHHHHHHhCCEEEEecCCCceECHhHHHHH
Confidence 3568888884 499999999999 999999999999886 234567799999998886
No 414
>TIGR02085 meth_trns_rumB 23S rRNA (uracil-5-)-methyltransferase RumB. This family consists of RNA methyltransferases designated RumB, formerly YbjF. Members act on 23S rRNA U747 and the equivalent position in other proteobacterial species. This family is homologous to the other 23S rRNA methyltransferase RumA and to the tRNA methyltransferase TrmA.
Probab=46.81 E-value=7.6 Score=34.86 Aligned_cols=14 Identities=29% Similarity=0.404 Sum_probs=12.3
Q ss_pred CcceEEEeCCCCCC
Q 045543 108 KIKQLVDVGGGCGK 121 (239)
Q Consensus 108 ~~~~vlDvGGG~G~ 121 (239)
...+|+|++||+|.
T Consensus 233 ~~~~vLDL~cG~G~ 246 (374)
T TIGR02085 233 PVTQMWDLFCGVGG 246 (374)
T ss_pred CCCEEEEccCCccH
Confidence 34799999999998
No 415
>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA. This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA.
Probab=46.76 E-value=8.6 Score=35.09 Aligned_cols=22 Identities=23% Similarity=0.330 Sum_probs=16.5
Q ss_pred HHhhccCCCCcceEEEeCCCCCC
Q 045543 99 ILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 99 ~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
+.+.+. ..+..+|+|+|||+|.
T Consensus 284 ~~~~l~-~~~~~~vLDl~cG~G~ 305 (431)
T TIGR00479 284 ALEALE-LQGEELVVDAYCGVGT 305 (431)
T ss_pred HHHHhc-cCCCCEEEEcCCCcCH
Confidence 334444 5666899999999999
No 416
>PRK11468 dihydroxyacetone kinase subunit DhaK; Provisional
Probab=46.69 E-value=57 Score=29.17 Aligned_cols=14 Identities=36% Similarity=0.465 Sum_probs=11.3
Q ss_pred CcceEEEeCCCCCC
Q 045543 108 KIKQLVDVGGGCGK 121 (239)
Q Consensus 108 ~~~~vlDvGGG~G~ 121 (239)
+.+.-|=.|||+|+
T Consensus 43 ~~kValIsGGGSGH 56 (356)
T PRK11468 43 AGKVALLSGGGSGH 56 (356)
T ss_pred CCcEEEEecCCccc
Confidence 45667788999999
No 417
>PF01795 Methyltransf_5: MraW methylase family; InterPro: IPR002903 This is a family of S-adenosyl-L-methionine-dependent methyltransferases, which are found primarily, though not exclusively, in bacteria. The Escherichia coli protein is essential and has been linked to peptidoglycan biosynthesis [, ].; GO: 0008168 methyltransferase activity; PDB: 1N2X_A 1M6Y_A 1WG8_A 3TKA_A.
Probab=46.63 E-value=13 Score=32.52 Aligned_cols=27 Identities=15% Similarity=0.262 Sum_probs=23.5
Q ss_pred hHHHHHHHHHHhhCCCCceEEEEeeec
Q 045543 148 EHCLSLLKNCYEAIPGNGKIIIIDSTT 174 (239)
Q Consensus 148 ~~~~~iL~~~~~aL~pgg~lli~d~~~ 174 (239)
+.....|.++.+.|+|||||+|+-+.-
T Consensus 218 ~~L~~~L~~a~~~L~~gGrl~VISFHS 244 (310)
T PF01795_consen 218 EELERGLEAAPDLLKPGGRLVVISFHS 244 (310)
T ss_dssp HHHHHHHHHHHHHEEEEEEEEEEESSH
T ss_pred HHHHHHHHHHHHHhcCCcEEEEEEecc
Confidence 567789999999999999999997743
No 418
>TIGR02036 dsdC D-serine deaminase transcriptional activator. This family, part of the LysR family of transcriptional regulators, activates transcription of the gene for D-serine deaminase, dsdA. Trusted members of this family so far are found adjacent to dsdA and only in Gammaproteobacteria, including E. coli, Vibrio cholerae, and Colwellia psychrerythraea.
Probab=46.61 E-value=22 Score=30.40 Aligned_cols=54 Identities=13% Similarity=0.128 Sum_probs=45.7
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
.+|-.+++ ..|...-|+++++ ....+.+-++.|... -+..+..+.+|+.++.|.
T Consensus 14 ~~F~~va~-----~gs~s~AA~~L~i----sQpavS~~I~~LE~~lg~~Lf~R~~r~~~lT~~G~~l~ 72 (302)
T TIGR02036 14 HTFEVAAR-----HQSFSLAAEELSL----TPSAISHRINQLEEELGIQLFVRSHRKVELTHEGKRIY 72 (302)
T ss_pred HHHHHHHH-----hCCHHHHHHHHCC----CHHHHHHHHHHHHHHhCCceEEECCCceeECHhHHHHH
Confidence 46778887 4489999999999 999999999999886 345678899999998887
No 419
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=46.48 E-value=28 Score=28.06 Aligned_cols=37 Identities=24% Similarity=0.409 Sum_probs=28.4
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
|.|.|..+| ..+|+-+||+++|+ +...+-|-|.-|-.
T Consensus 9 i~~~l~~~~--~~~~a~~i~k~l~i----~k~~vNr~LY~L~~ 45 (183)
T PHA02701 9 ILTLLSSSG--DKLPAKRIAKELGI----SKHEANRCLYRLLE 45 (183)
T ss_pred HHHHHHhcC--CCCcHHHHHHHhCc----cHHHHHHHHHHHhh
Confidence 667888864 36999999999999 77777666655543
No 420
>TIGR01444 fkbM_fam methyltransferase, FkbM family. Members of this family are characterized by two well-conserved short regions separated by a variable in both sequence and length. The first of the two regions is found in a large number of proteins outside this subfamily, a number of which have been characterized as methyltransferases. One member of the present family, FkbM, was shown to be required for a specific methylation in the biosynthesis of the immunosuppressant FK506 in Streptomyces strain MA6548.
Probab=46.33 E-value=10 Score=28.39 Aligned_cols=44 Identities=16% Similarity=0.195 Sum_probs=23.7
Q ss_pred eEEEeCCCCCCCccccccccCCcceeeechhhhcCChhHHHHHHHHHHhh
Q 045543 111 QLVDVGGGCGKCGWKMFQKILNGDAILMKLILRNWDDEHCLSLLKNCYEA 160 (239)
Q Consensus 111 ~vlDvGGG~G~~~gD~~~~~p~~D~~~l~~vlH~~~d~~~~~iL~~~~~a 160 (239)
+++|||||.|...--+....|.. +++---+++++...|++-.+.
T Consensus 1 ~vlDiGa~~G~~~~~~~~~~~~~------~v~~~E~~~~~~~~l~~~~~~ 44 (143)
T TIGR01444 1 VVIDVGANIGDTSLYFARKGAEG------RVIAFEPLPDAYEILEENVKL 44 (143)
T ss_pred CEEEccCCccHHHHHHHHhCCCC------EEEEEecCHHHHHHHHHHHHH
Confidence 58999999998433222222222 222223556666666665543
No 421
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=46.17 E-value=19 Score=30.65 Aligned_cols=55 Identities=9% Similarity=0.009 Sum_probs=45.5
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|..+.+. .|...-|+++++ .+..+.+-++.|... -...++...+|+.++.|.
T Consensus 10 L~~f~~v~~~-----gs~s~AA~~L~i----sQ~avS~~i~~LE~~lG~~LF~R~~r~~~lT~~G~~l~ 69 (302)
T PRK09791 10 IRAFVEVARQ-----GSIRGASRMLNM----SQPALTKSIQELEEGLAAQLFFRRSKGVTLTDAGESFY 69 (302)
T ss_pred HHHHHHHHHc-----CCHHHHHHHhCC----ChHHHHHHHHHHHHHhCCeEEEEcCCCceECccHHHHH
Confidence 3568888884 399999999999 999999999999886 234567799999998876
No 422
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=46.14 E-value=53 Score=26.47 Aligned_cols=53 Identities=13% Similarity=-0.006 Sum_probs=40.2
Q ss_pred hHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC------CCCCCC---eEecChhhHHHH
Q 045543 5 EIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS------AGDDRR---LQRLAPVAKYVL 64 (239)
Q Consensus 5 d~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~------~~~~~~---~y~~t~~s~~l~ 64 (239)
-.|... +++|..+||+.+++ +...+.++++-|... ..+++. ...+|+.++.+.
T Consensus 52 ~~L~~~---~~itq~eLa~~l~l----~~sTvtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~l~ 113 (185)
T PRK13777 52 WIAYHL---KGASISEIAKFGVM----HVSTAFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEELL 113 (185)
T ss_pred HHHHhC---CCcCHHHHHHHHCC----CHhhHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence 345553 58999999999999 999999999999886 112223 357899988776
No 423
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=46.01 E-value=9 Score=23.98 Aligned_cols=30 Identities=13% Similarity=0.329 Sum_probs=20.2
Q ss_pred chHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHH
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDR 38 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~r 38 (239)
.+.|.+.|. .-+|..+||+.+|+ ++..+++
T Consensus 18 L~~l~~~G~-~~vSS~~La~~~gi----~~~qVRK 47 (50)
T PF06971_consen 18 LEQLKEEGV-ERVSSQELAEALGI----TPAQVRK 47 (50)
T ss_dssp HHHHHHTT--SEE-HHHHHHHHTS-----HHHHHH
T ss_pred HHHHHHcCC-eeECHHHHHHHHCC----CHHHhcc
Confidence 445555442 46899999999999 8887765
No 424
>PF07120 DUF1376: Protein of unknown function (DUF1376); InterPro: IPR010781 This entry is represented by Bacteriophage PBC5 (Sinorhizobium phage PBC5), Orf49. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical bacterial proteins of around 95 residues in length. The function of this family is unknown.
Probab=45.90 E-value=35 Score=23.78 Aligned_cols=46 Identities=7% Similarity=-0.077 Sum_probs=34.4
Q ss_pred CCCC--HHHHHHhCCCCCCCChhhHHHHHHHhccC-CCCCCCeEecChhhHHH
Q 045543 14 AKLS--AAEIEAQMPSHNPNAAVMLDRVLRRSLSS-AGDDRRLQRLAPVAKYV 63 (239)
Q Consensus 14 ~~~t--~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-~~~~~~~y~~t~~s~~l 63 (239)
+|+. .+.||..+|+ ....-.+.+..+... ....+|+|.|..+-+.+
T Consensus 37 ~plp~d~~~Lar~~~~----s~~~~~~a~~~ll~~f~~~~dg~~~~~r~e~Ei 85 (88)
T PF07120_consen 37 GPLPDDDKRLARICGC----STKEWRKALDFLLREFFRLEDGRWWNKRCEEEI 85 (88)
T ss_pred CCCCCCHHHHHHHHCc----CHHHHHHHHHHHHHhCCCCCCCCEehHHHHHHH
Confidence 6777 5559999999 888777888777776 45567888887765543
No 425
>PRK11233 nitrogen assimilation transcriptional regulator; Provisional
Probab=45.63 E-value=24 Score=30.17 Aligned_cols=54 Identities=11% Similarity=-0.015 Sum_probs=45.2
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
..|-.+++ ..|...-|+++++ .+..+.+-++.|... -+..+..+.+|+.++.|.
T Consensus 7 ~~F~~v~~-----~~S~s~AA~~L~i----sQ~avS~~I~~LE~~lg~~LF~R~~r~v~lT~~G~~l~ 65 (305)
T PRK11233 7 KYFVKIVD-----IGSLTQAAEVLHI----AQPALSQQVATLEGELNQQLLIRTKRGVTPTEAGKILY 65 (305)
T ss_pred HHHHHHHH-----cCCHHHHHHHhCC----CchHHHHHHHHHHHHhCCceEEeCCCCceECHhHHHHH
Confidence 46778887 4499999999999 999999999999886 234567899999998877
No 426
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=45.36 E-value=21 Score=30.23 Aligned_cols=37 Identities=14% Similarity=0.249 Sum_probs=32.5
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+. +.+|+.|||+.+++ ++.-++|-|..|...
T Consensus 10 Il~~l~~~---~~~~~~ela~~l~v----S~~TiRRdL~~Le~~ 46 (252)
T PRK10906 10 IIELVKQQ---GYVSTEELVEHFSV----SPQTIRRDLNDLAEQ 46 (252)
T ss_pred HHHHHHHc---CCEeHHHHHHHhCC----CHHHHHHHHHHHHHC
Confidence 45677775 68999999999999 999999999999886
No 427
>KOG4058 consensus Uncharacterized conserved protein [Function unknown]
Probab=45.27 E-value=85 Score=24.72 Aligned_cols=24 Identities=29% Similarity=0.535 Sum_probs=17.6
Q ss_pred HHHHhhccCCCCcceEEEeCCCCCC
Q 045543 97 NRILDYYKGFEKIKQLVDVGGGCGK 121 (239)
Q Consensus 97 ~~~~~~~~~~~~~~~vlDvGGG~G~ 121 (239)
+.++...+ -.+..+++|+|.|.|.
T Consensus 62 ~nVLSll~-~n~~GklvDlGSGDGR 85 (199)
T KOG4058|consen 62 ENVLSLLR-GNPKGKLVDLGSGDGR 85 (199)
T ss_pred HHHHHHcc-CCCCCcEEeccCCCce
Confidence 44555555 3455899999999998
No 428
>PF05344 DUF746: Domain of Unknown Function (DUF746); InterPro: IPR008008 This is a short conserved region found in some transposons.
Probab=44.94 E-value=31 Score=22.85 Aligned_cols=29 Identities=14% Similarity=0.117 Sum_probs=25.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.++|+.|.|+.+|+ ++..+.++++.--..
T Consensus 12 ~~~s~~~Aa~~lG~----~~~~v~~wv~~fR~w 40 (65)
T PF05344_consen 12 QQISVAQAADRLGT----DPGTVRRWVRMFRQW 40 (65)
T ss_pred ccccHHHHHHHHCc----CHHHHHHHHHHHHHH
Confidence 59999999999999 999999998776654
No 429
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=44.73 E-value=26 Score=29.50 Aligned_cols=37 Identities=14% Similarity=0.256 Sum_probs=32.4
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+. +.+++.|||+.+++ ++.-++|=|+.|...
T Consensus 12 I~~~l~~~---~~v~v~eLa~~~~V----S~~TIRRDL~~Le~~ 48 (252)
T PRK10681 12 LLQALKRS---DKLHLKDAAALLGV----SEMTIRRDLNAHSAP 48 (252)
T ss_pred HHHHHHHc---CCCcHHHHHHHhCC----CHHHHHHHHHHhhcC
Confidence 56778775 69999999999999 999999999998865
No 430
>PF08535 KorB: KorB domain; InterPro: IPR013741 This entry contains several KorB transcriptional repressor proteins. The korB gene is a major regulatory element in the replication and maintenance of broad host-range plasmid RK2. It negatively controls the replication gene trfA, the host-lethal determinants kilA and kilB, and the korA-korB operon []. This domain includes the DNA-binding HTH motif []. ; PDB: 1R71_C.
Probab=44.70 E-value=21 Score=25.02 Aligned_cols=28 Identities=11% Similarity=-0.006 Sum_probs=20.3
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhcc
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLS 45 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 45 (239)
...|-+|||+++|- ++..+.+.|+.+..
T Consensus 2 ~G~tq~eIA~~lGk----s~s~Vs~~l~Ll~l 29 (93)
T PF08535_consen 2 FGWTQEEIAKRLGK----SRSWVSNHLALLDL 29 (93)
T ss_dssp TT--HHHHHHHTT------HHHHHHHHGGGS-
T ss_pred CCCCHHHHHHHHCC----CHHHHHHHHHHHcC
Confidence 36799999999999 99999999987643
No 431
>PRK11242 DNA-binding transcriptional regulator CynR; Provisional
Probab=44.55 E-value=26 Score=29.52 Aligned_cols=55 Identities=16% Similarity=0.146 Sum_probs=45.3
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|..+.+. .|+..-|+++++ .+..+.+-+..|... -...+..+.+|+.++.|.
T Consensus 6 L~~f~~v~~~-----gs~s~AA~~L~i----sqsavS~~i~~LE~~lg~~Lf~R~~~~~~lT~~G~~l~ 65 (296)
T PRK11242 6 IRYFLAVAEH-----GNFTRAAEALHV----SQPTLSQQIRQLEESLGVQLFDRSGRTVRLTDAGEVYL 65 (296)
T ss_pred HHHHHHHHHh-----CCHHHHHHHcCC----CchHHHHHHHHHHHHhCCeeEeEcCCceeechhHHHHH
Confidence 3567888874 489999999999 999999999999886 234577899999998876
No 432
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=44.47 E-value=62 Score=22.28 Aligned_cols=44 Identities=5% Similarity=-0.047 Sum_probs=35.1
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CC--C-CCCeEecChhhH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AG--D-DRRLQRLAPVAK 61 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~--~-~~~~y~~t~~s~ 61 (239)
.|+...+||+.++. ++.-++-.|..|..+ .+ + ..+.|.-|..+-
T Consensus 22 ~PVgSk~ia~~l~~----s~aTIRN~M~~Le~lGlve~~p~~s~GriPT~~aY 70 (78)
T PF03444_consen 22 EPVGSKTIAEELGR----SPATIRNEMADLEELGLVESQPHPSGGRIPTDKAY 70 (78)
T ss_pred CCcCHHHHHHHHCC----ChHHHHHHHHHHHHCCCccCCCCCCCCCCcCHHHH
Confidence 79999999999999 999999999999998 33 2 245666665543
No 433
>KOG2918 consensus Carboxymethyl transferase [Posttranslational modification, protein turnover, chaperones]
Probab=44.31 E-value=65 Score=28.37 Aligned_cols=80 Identities=14% Similarity=0.098 Sum_probs=54.3
Q ss_pred eeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccC-C-----c--cccCh
Q 045543 135 AILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLS-G-----E--KERTK 206 (239)
Q Consensus 135 ~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~-~-----g--~~rt~ 206 (239)
+++.--+|-...++++..+++-+....+ .+-+++.|++.+.++ + .-.|+.++. . | ..-|.
T Consensus 191 i~iaEcvLvYM~pe~S~~Li~w~~~~F~-~a~fv~YEQi~~~D~-------F----g~vM~~nlk~r~~~L~gle~y~s~ 258 (335)
T KOG2918|consen 191 IFIAECVLVYMEPEESANLIKWAASKFE-NAHFVNYEQINPNDR-------F----GKVMLANLKRRGCPLHGLETYNSI 258 (335)
T ss_pred eehhhhhheeccHHHHHHHHHHHHHhCC-cccEEEEeccCCCCh-------H----HHHHHHHHHhcCCCCchhhhcccH
Confidence 5556667778899999999999988776 566888999885542 2 222333220 0 1 12266
Q ss_pred hhccHHHHHhhCCCceeeEEEc
Q 045543 207 QEYYGMALTAKNGFKGVNYESF 228 (239)
Q Consensus 207 ~e~~~~~ll~~aGf~~~~~~~~ 228 (239)
+.. ++-+.++||+-+.+...
T Consensus 259 Esq--~~Rf~~~Gw~~v~a~Dm 278 (335)
T KOG2918|consen 259 ESQ--RSRFLKAGWEYVIAVDM 278 (335)
T ss_pred HHH--HHHHHhcCCceeehhhH
Confidence 777 88899999998877543
No 434
>KOG2426 consensus Dihydroxyacetone kinase/glycerone kinase [Carbohydrate transport and metabolism]
Probab=44.13 E-value=34 Score=31.79 Aligned_cols=62 Identities=19% Similarity=0.192 Sum_probs=36.5
Q ss_pred cceEEEeCCCCCCCcc--ccccccCCc--ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEeeecCC
Q 045543 109 IKQLVDVGGGCGKCGW--KMFQKILNG--DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDSTTVV 176 (239)
Q Consensus 109 ~~~vlDvGGG~G~~~g--D~~~~~p~~--D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~~~~~ 176 (239)
.+.-|=-|||+|+.|- -| +.++ +.+++..|+-. +-..+|+..|+..=.+-|.|+|+-....+
T Consensus 47 ~kValiSGGGSGHEPtHAGf---VGkGmLtaai~G~iFAS---PstkqI~aairaV~~~~GtLlIVKNYTGD 112 (582)
T KOG2426|consen 47 PKVALISGGGSGHEPTHAGF---VGKGMLTAAIAGDIFAS---PSTKQILAAIRAVEGEAGTLLIVKNYTGD 112 (582)
T ss_pred CceEEEeCCCCCCCcccccc---cccchhhhhhhcccccC---CcHHHHHHHHHHhccCCceEEEEeccccc
Confidence 3556667999999211 01 2232 44444444421 22357788888777777888887665544
No 435
>PRK10632 transcriptional regulator; Provisional
Probab=44.11 E-value=30 Score=29.64 Aligned_cols=55 Identities=13% Similarity=0.120 Sum_probs=45.7
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|-.+.+ ..|...-|+++++ .+..+.+-++.|... -...+..+.+|+.++.|.
T Consensus 7 L~~F~~v~e-----~gS~t~AA~~L~i----sQpavS~~I~~LE~~lg~~Lf~R~~r~i~lT~~G~~l~ 66 (309)
T PRK10632 7 MSVFAKVVE-----FGSFTAAARQLQM----SVSSISQTVSKLEDELQVKLLNRSTRSIGLTEAGRIYY 66 (309)
T ss_pred HHHHHHHHh-----cCCHHHHHHHhCC----CHHHHHHHHHHHHHHhCCeeecccCCCceechhHHHHH
Confidence 346788887 5599999999999 999999999999886 345677799999998876
No 436
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=44.09 E-value=29 Score=29.10 Aligned_cols=55 Identities=9% Similarity=0.029 Sum_probs=45.2
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHHh
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVLH 65 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~~ 65 (239)
..|-.+.+ ..|...-|+++++ .+..+.+-++.|... -+..+..+.+|+.++.|..
T Consensus 9 ~~f~~v~e-----~~s~t~AA~~L~i----sqpavS~~I~~LE~~lg~~Lf~R~~r~~~lT~~G~~l~~ 68 (290)
T PRK10837 9 EVFAEVLK-----SGSTTQASVMLAL----SQSAVSAALTDLEGQLGVQLFDRVGKRLVVNEHGRLLYP 68 (290)
T ss_pred HHHHHHHH-----cCCHHHHHHHhCC----CccHHHHHHHHHHHHhCCccEeecCCeEEECHhHHHHHH
Confidence 46778887 4499999999999 899999999999886 2456778999999988873
No 437
>PRK10082 cell density-dependent motility repressor; Provisional
Probab=43.99 E-value=25 Score=30.04 Aligned_cols=54 Identities=11% Similarity=0.025 Sum_probs=44.8
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
.+|-.+.+. -|...-|+++++ ....+.+-++.|... -+.....+.+|+.++.|.
T Consensus 17 ~~F~av~e~-----gS~t~AA~~L~i----SQpavS~~I~~LE~~lG~~Lf~R~~r~~~lT~~G~~l~ 75 (303)
T PRK10082 17 YDFLTLEKC-----RNFSQAAVSRNV----SQPAFSRRIRALEQAIGVELFNRQVTPLQLSEQGKIFH 75 (303)
T ss_pred HHHHHHHhc-----CCHHHHHHHhCC----ChHHHHHHHHHHHHHcCCEEEEecCCCCccCHHHHHHH
Confidence 467788874 489999999999 999999999999886 234567799999998887
No 438
>COG4977 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]
Probab=43.78 E-value=23 Score=31.29 Aligned_cols=30 Identities=23% Similarity=0.317 Sum_probs=26.3
Q ss_pred CCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 13 RAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 13 ~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+.|+|+++||+..++ +++.++|+.+.-...
T Consensus 234 e~plsl~~LA~~~~~----S~R~leRlF~~~lG~ 263 (328)
T COG4977 234 EEPLSLEELADRAGL----SRRQLERLFRAELGV 263 (328)
T ss_pred cCCcCHHHHHHHhCC----CHHHHHHHHHHHhCC
Confidence 379999999999999 999999998876554
No 439
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.
Probab=43.58 E-value=14 Score=23.20 Aligned_cols=23 Identities=13% Similarity=0.299 Sum_probs=17.1
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
|+ +..+||+..|+ ....+..++.
T Consensus 22 g~-s~~~ia~~fgv----~~sTv~~I~K 44 (53)
T PF04218_consen 22 GE-SKRDIAREFGV----SRSTVSTILK 44 (53)
T ss_dssp TT--HHHHHHHHT------CCHHHHHHH
T ss_pred CC-CHHHHHHHhCC----CHHHHHHHHH
Confidence 44 99999999999 8888888874
No 440
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=43.14 E-value=25 Score=24.21 Aligned_cols=43 Identities=5% Similarity=0.001 Sum_probs=33.2
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC---CC-CCCCeEecChhh
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS---AG-DDRRLQRLAPVA 60 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~---~~-~~~~~y~~t~~s 60 (239)
.+.|-++||+++|+ ....+..-++.|-.. .+ .....|.+....
T Consensus 18 ~~~SGe~La~~Lgi----SRtaVwK~Iq~Lr~~G~~I~s~~~kGY~L~~~~ 64 (79)
T COG1654 18 NFVSGEKLAEELGI----SRTAVWKHIQQLREEGVDIESVRGKGYLLPQLP 64 (79)
T ss_pred CcccHHHHHHHHCc----cHHHHHHHHHHHHHhCCceEecCCCceeccCcc
Confidence 69999999999999 999999999999876 22 233357665443
No 441
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=42.98 E-value=24 Score=30.15 Aligned_cols=37 Identities=8% Similarity=0.119 Sum_probs=32.6
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+. +.+|+.|||+.+++ ++.-++|=|..|...
T Consensus 22 Il~~L~~~---~~vtv~eLa~~l~V----S~~TIRRDL~~Le~~ 58 (269)
T PRK09802 22 IIQRLRQQ---GSVQVNDLSALYGV----STVTIRNDLAFLEKQ 58 (269)
T ss_pred HHHHHHHc---CCEeHHHHHHHHCC----CHHHHHHHHHHHHhC
Confidence 56777775 58999999999999 999999999999776
No 442
>PRK11139 DNA-binding transcriptional activator GcvA; Provisional
Probab=42.94 E-value=29 Score=29.42 Aligned_cols=54 Identities=13% Similarity=0.095 Sum_probs=45.0
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
.+|-.+.+ ..|...-|+++++ .+..+.+-++.|... -...+....+|+.++.|.
T Consensus 12 ~~f~~v~~-----~gs~s~AA~~L~i----sq~avS~~i~~LE~~lg~~Lf~R~~r~l~lT~~G~~l~ 70 (297)
T PRK11139 12 RAFEAAAR-----HLSFTRAAEELFV----TQAAVSHQIKALEDFLGLKLFRRRNRSLLLTEEGQRYF 70 (297)
T ss_pred HHHHHHHH-----hCCHHHHHHHhCC----ChHHHHHHHHHHHHHhCchheEecCCceeECHhHHHHH
Confidence 46777887 4489999999999 999999999999886 245567899999999887
No 443
>TIGR02424 TF_pcaQ pca operon transcription factor PcaQ. Members of this family are LysR-family transcription factors associated with operons for catabolism of protocatechuate. Members occur only in Proteobacteria.
Probab=42.87 E-value=22 Score=30.08 Aligned_cols=54 Identities=20% Similarity=0.183 Sum_probs=45.0
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
.+|-.+.+ ..|...-|+++++ .+..+.+-++.|... -...++.+.+|+.++.|.
T Consensus 9 ~~f~~v~~-----~gS~s~AA~~L~i----sq~avS~~I~~LE~~lg~~LF~R~~~~~~lT~~G~~l~ 67 (300)
T TIGR02424 9 QCFVEVAR-----QGSVKRAAEALHI----TQPAVSKTLRELEEILGTPLFERDRRGIRLTRYGELFL 67 (300)
T ss_pred HHHHHHHH-----hCCHHHHHHHhCC----ChHHHHHHHHHHHHHhCCeEEEEcCCCccccHhHHHHH
Confidence 46778887 4499999999999 999999999999886 234577799999998877
No 444
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=42.81 E-value=27 Score=21.38 Aligned_cols=23 Identities=13% Similarity=0.110 Sum_probs=20.5
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVL 40 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL 40 (239)
..+|.+++|+++|+ ++..+.++.
T Consensus 14 ~gltq~~lA~~~gv----s~~~vs~~e 36 (58)
T TIGR03070 14 LGLTQADLADLAGV----GLRFIRDVE 36 (58)
T ss_pred cCCCHHHHHHHhCC----CHHHHHHHH
Confidence 58899999999999 888888876
No 445
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=42.53 E-value=23 Score=22.25 Aligned_cols=33 Identities=21% Similarity=0.348 Sum_probs=24.2
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhc
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSL 44 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 44 (239)
|+..+.. +.|..|||+.+++ ++..+..-++.+.
T Consensus 11 vl~~l~~-----G~~~~eIA~~l~i----s~~tV~~~~~~i~ 43 (58)
T PF00196_consen 11 VLRLLAQ-----GMSNKEIAEELGI----SEKTVKSHRRRIM 43 (58)
T ss_dssp HHHHHHT-----TS-HHHHHHHHTS----HHHHHHHHHHHHH
T ss_pred HHHHHHh-----cCCcchhHHhcCc----chhhHHHHHHHHH
Confidence 4455664 8899999999999 8888776665543
No 446
>TIGR02607 antidote_HigA addiction module antidote protein, HigA family. Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by Pfam model pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair.
Probab=42.42 E-value=33 Score=22.75 Aligned_cols=23 Identities=17% Similarity=0.261 Sum_probs=20.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVL 40 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL 40 (239)
..+|.+++|+++|+ +...+.+++
T Consensus 17 ~~~t~~~lA~~~gi----s~~tis~~~ 39 (78)
T TIGR02607 17 LGLSIRALAKALGV----SRSTLSRIV 39 (78)
T ss_pred cCCCHHHHHHHhCC----CHHHHHHHH
Confidence 58899999999999 888888876
No 447
>PF12298 Bot1p: Eukaryotic mitochondrial regulator protein ; InterPro: IPR021036 This entry represents Ribosomal protein S35, which localises to the mitochondria in live cells and co-fractionates with purified mitochondrial ribosomes. This group of proteins have a novel function in the control of cell respiration by acting on the mitochondrial protein synthesis machinery and a role in mitochondrial integrity. Observations also indicate that in Schizosaccharomyces pombe (Fission yeast), alterations of mitochondrial function are linked to changes in cell cycle and cell morphology control mechanisms [].
Probab=42.32 E-value=33 Score=27.40 Aligned_cols=27 Identities=11% Similarity=0.089 Sum_probs=23.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhc
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSL 44 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 44 (239)
.+.|+.+||++.|+ +.+++..++|.-.
T Consensus 32 ~~~sv~~vS~~ygi----~~~RV~AIvrLke 58 (172)
T PF12298_consen 32 DGKSVREVSQKYGI----KIQRVEAIVRLKE 58 (172)
T ss_pred CCCCHHHHHHHhCC----CHHHHHHHHHHHH
Confidence 57899999999999 9999999987643
No 448
>COG1189 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=42.19 E-value=65 Score=27.19 Aligned_cols=73 Identities=8% Similarity=0.023 Sum_probs=40.5
Q ss_pred CChhHHHHHHHHHHhhCCCCceEEEE-eeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCcee
Q 045543 145 WDDEHCLSLLKNCYEAIPGNGKIIII-DSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGV 223 (239)
Q Consensus 145 ~~d~~~~~iL~~~~~aL~pgg~lli~-d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~ 223 (239)
.+-.-...||-.+...++|++-++.. -+-+...+.. ...-....| +....+-..+. .+++++.||++.
T Consensus 152 vSFISL~~iLp~l~~l~~~~~~~v~LvKPQFEagr~~--v~kkGvv~d-------~~~~~~v~~~i--~~~~~~~g~~~~ 220 (245)
T COG1189 152 VSFISLKLILPALLLLLKDGGDLVLLVKPQFEAGREQ--VGKKGVVRD-------PKLHAEVLSKI--ENFAKELGFQVK 220 (245)
T ss_pred eehhhHHHHHHHHHHhcCCCceEEEEecchhhhhhhh--cCcCceecC-------cchHHHHHHHH--HHHHhhcCcEEe
Confidence 33344568999999999999876652 2222111100 000000011 11233345666 889999999998
Q ss_pred eEEEc
Q 045543 224 NYESF 228 (239)
Q Consensus 224 ~~~~~ 228 (239)
.+...
T Consensus 221 gl~~S 225 (245)
T COG1189 221 GLIKS 225 (245)
T ss_pred eeEcc
Confidence 88654
No 449
>PF07381 DUF1495: Winged helix DNA-binding domain (DUF1495); InterPro: IPR010863 This family consists of several hypothetical archaeal proteins of around 110 residues in length. The function of this family is unknown, although one sequence (Q8U3W1 from SWISSPROT) is described as a putative HTH transcription regulator.
Probab=42.15 E-value=32 Score=24.37 Aligned_cols=35 Identities=23% Similarity=0.197 Sum_probs=26.7
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
|+..|.+..| .+.++.|||+.+++ ++..+.--|+-
T Consensus 14 vl~~L~~~yp-~~~~~~eIar~v~~----~~snV~GaL~G 48 (90)
T PF07381_consen 14 VLEYLCSIYP-EPAYPSEIARSVGS----DYSNVLGALRG 48 (90)
T ss_pred HHHHHHHcCC-CcCCHHHHHHHHCC----CHHHHHHHHhc
Confidence 5566666522 79999999999999 99887665544
No 450
>PRK14096 pgi glucose-6-phosphate isomerase; Provisional
Probab=41.98 E-value=33 Score=32.40 Aligned_cols=31 Identities=26% Similarity=0.419 Sum_probs=27.3
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
++.|++|||+++|. +.+.+.+..+||.|++.
T Consensus 477 ~~~~~~~~~~~~~~--~~~~~~~~~i~~~~~~n 507 (528)
T PRK14096 477 GELSIEEIAAALGA--PEQVETIYKILRHLAAN 507 (528)
T ss_pred CCCCHHHHHHHcCC--CccHHHHHHHHHHHhcC
Confidence 79999999999998 23677899999999997
No 451
>PRK09954 putative kinase; Provisional
Probab=41.96 E-value=44 Score=29.54 Aligned_cols=51 Identities=8% Similarity=0.072 Sum_probs=39.3
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccCCCCCCCeEecChhh
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSSAGDDRRLQRLAPVA 60 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~~~~~~~~y~~t~~s 60 (239)
|.+.|.++ +++|..|||+.+++ ....+.+.++.|...---.+..|.+++..
T Consensus 8 il~~l~~~---~~~s~~~la~~l~~----s~~~v~~~i~~L~~~g~i~~~~~~l~~~~ 58 (362)
T PRK09954 8 ILAILRRN---PLIQQNEIADILQI----SRSRVAAHIMDLMRKGRIKGKGYILTEQE 58 (362)
T ss_pred HHHHHHHC---CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCcCCcEEEEcCCc
Confidence 55667775 59999999999999 99999999999998611134557666554
No 452
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=41.92 E-value=35 Score=27.87 Aligned_cols=40 Identities=13% Similarity=0.163 Sum_probs=31.9
Q ss_pred CCCHHHHHHhCCCCCCCChhhHHHHHHHhccC--CCCCCCeEecCh
Q 045543 15 KLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS--AGDDRRLQRLAP 58 (239)
Q Consensus 15 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~~~~~~y~~t~ 58 (239)
|+|-++||+.+|+ .+..+.|+|+.|... .+...+.+....
T Consensus 184 ~lt~~~iA~~lG~----sr~tvsR~l~~l~~~g~I~~~~~~i~i~d 225 (235)
T PRK11161 184 TMTRGDIGNYLGL----TVETISRLLGRFQKSGMLAVKGKYITIEN 225 (235)
T ss_pred cccHHHHHHHhCC----cHHHHHHHHHHHHHCCCEEecCCEEEEcC
Confidence 6899999999999 999999999999887 344445555443
No 453
>PRK14479 dihydroxyacetone kinase; Provisional
Probab=41.76 E-value=67 Score=30.70 Aligned_cols=16 Identities=38% Similarity=0.441 Sum_probs=12.6
Q ss_pred CCCcceEEEeCCCCCC
Q 045543 106 FEKIKQLVDVGGGCGK 121 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~ 121 (239)
+++.+.-|=.|||+|+
T Consensus 40 ~~~~kV~lisGGGSGH 55 (568)
T PRK14479 40 TPEGKVAVVSGGGSGH 55 (568)
T ss_pred CCCCceEEEecCCccc
Confidence 4445777888999999
No 454
>smart00354 HTH_LACI helix_turn _helix lactose operon repressor.
Probab=41.50 E-value=23 Score=23.40 Aligned_cols=21 Identities=14% Similarity=0.224 Sum_probs=17.8
Q ss_pred CCHHHHHHhCCCCCCCChhhHHHHH
Q 045543 16 LSAAEIEAQMPSHNPNAAVMLDRVL 40 (239)
Q Consensus 16 ~t~~eLA~~~g~~~~~~~~~l~rlL 40 (239)
.|..|||+++|+ +...+.|+|
T Consensus 1 ~t~~~iA~~~gv----S~~TVSr~l 21 (70)
T smart00354 1 ATIKDVARLAGV----SKATVSRVL 21 (70)
T ss_pred CCHHHHHHHHCC----CHHHHHHHH
Confidence 367899999999 888888877
No 455
>PF05430 Methyltransf_30: S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR008471 This entry contains several uncharacterised bacterial proteins with no known function.; GO: 0016645 oxidoreductase activity, acting on the CH-NH group of donors, 0055114 oxidation-reduction process; PDB: 2E58_D 3SGL_A 3PVC_A 3AWI_D 3PS9_A 2QY6_A.
Probab=41.40 E-value=41 Score=25.20 Aligned_cols=28 Identities=14% Similarity=0.139 Sum_probs=21.7
Q ss_pred HHHHhhCCCceeeEEEcCCceeEEEEEC
Q 045543 212 MALTAKNGFKGVNYESFVCNFYIMEFIK 239 (239)
Q Consensus 212 ~~ll~~aGf~~~~~~~~~~~~~vie~~k 239 (239)
++-|.++||.+.+....++....+.++|
T Consensus 96 r~~L~~aGF~v~~~~g~g~Kr~~~~a~~ 123 (124)
T PF05430_consen 96 RRALQQAGFEVEKVPGFGRKREMLRAVK 123 (124)
T ss_dssp HHHHHHCTEEEEEEE-STTSSEEEEEEC
T ss_pred HHHHHHcCCEEEEcCCCCCcchheEEEc
Confidence 7889999999988777777777777765
No 456
>PRK15092 DNA-binding transcriptional repressor LrhA; Provisional
Probab=41.01 E-value=29 Score=29.94 Aligned_cols=55 Identities=15% Similarity=0.080 Sum_probs=45.4
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|-.+.+ ..|...-|+++++ ....+.+-++.|... -...+..+.+|+.++.|.
T Consensus 16 L~~F~~v~e-----~gs~s~AA~~L~i----SQpavS~~I~~LE~~lG~~LF~R~~~~~~LT~~G~~l~ 75 (310)
T PRK15092 16 LRTFVAVAD-----LNTFAAAAAAVCR----TQSAVSQQMQRLEQLVGKELFARHGRNKLLTEHGIQLL 75 (310)
T ss_pred HHHHHHHHH-----cCCHHHHHHHhCC----ChHHHHHHHHHHHHHhCcceEEECCCCceECHhHHHHH
Confidence 346788887 4589999999999 999999999999886 234567789999999887
No 457
>PF00440 TetR_N: Bacterial regulatory proteins, tetR family; InterPro: IPR001647 This entry represents a DNA-binding domain with a helix-turn-helix (HTH) structure that is found in several bacterial and archaeal transcriptional regulators, such as TetR, the tetracycline resistance repressor. Numerous other transcriptional regulatory proteins also contain HTH-type DNA-binding domains, and can be grouped into subfamiles based on sequence similarity. The domain represented by this entry is found in a subfamily of proteins that includes the transcriptional regulators TetR, TetC, AcrR, BetI, Bm3R1, EnvR, QacR, MtrR, TcmR, Ttk, YbiH, and YhgD [, , ]. Many of these proteins function as repressors that control the level of susceptibility to hydrophobic antibiotics and detergents. They all have similar molecular weights, ranging from 21 to 25 kDa. The helix-turn-helix motif is located in the initial third of the protein. The 3D structure of the homodimeric TetR protein complexed with 7-chloro-tetracycline-magnesium has been determined to 2.1 A resolution []. TetR folds into ten alpha-helices with connecting turns and loops. The three N-terminal alpha-helices of the repressor form the DNA-binding domain: this structural motif encompasses an HTH fold with an inverse orientation compared with that of other DNA-binding proteins.; GO: 0003677 DNA binding; PDB: 3NPI_B 3IUV_A 3CCY_A 2JK3_A 2FX0_A 2JJ7_A 2WV1_B 3BTI_D 3BR6_E 3BR5_A ....
Probab=40.94 E-value=23 Score=21.25 Aligned_cols=21 Identities=14% Similarity=0.104 Sum_probs=18.1
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDR 38 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~r 38 (239)
...|..+||+++|+ +...+.+
T Consensus 15 ~~~s~~~Ia~~~gv----s~~~~y~ 35 (47)
T PF00440_consen 15 EAVSIRDIARRAGV----SKGSFYR 35 (47)
T ss_dssp TTSSHHHHHHHHTS----CHHHHHH
T ss_pred HhCCHHHHHHHHcc----chhhHHH
Confidence 58899999999999 8877765
No 458
>PRK11013 DNA-binding transcriptional regulator LysR; Provisional
Probab=40.81 E-value=30 Score=29.61 Aligned_cols=55 Identities=13% Similarity=0.050 Sum_probs=45.5
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|-++++ ..|...-|+++++ .+..+.+-++.|... -...++.+.+|+.++.|.
T Consensus 9 L~~f~av~~-----~gS~s~AAe~L~i----sqsavS~~Ik~LE~~lg~~Lf~R~~~~v~LT~~G~~l~ 68 (309)
T PRK11013 9 IEIFHAVMT-----AGSLTEAARLLHT----SQPTVSRELARFEKVIGLKLFERVRGRLHPTVQGLRLF 68 (309)
T ss_pred HHHHHHHHH-----hCcHHHHHHHHCC----CcHHHHHHHHHHHHHhCceeeeecCCCcccCHHHHHHH
Confidence 346778887 3499999999999 999999999999886 234567799999998887
No 459
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=40.52 E-value=22 Score=26.08 Aligned_cols=42 Identities=17% Similarity=0.226 Sum_probs=31.2
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCC-CCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSH-NPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~-~~~~~~~l~rlL~~L~~~ 46 (239)
|++.|.+.+ ++.|++||-+.+.-+ +..+...++|-|+.|...
T Consensus 13 Il~~l~~~~--~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~ 55 (120)
T PF01475_consen 13 ILELLKESP--EHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEA 55 (120)
T ss_dssp HHHHHHHHS--SSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHT
T ss_pred HHHHHHcCC--CCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHC
Confidence 567777765 699999999998531 112677899999999987
No 460
>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional
Probab=40.33 E-value=42 Score=32.37 Aligned_cols=83 Identities=8% Similarity=-0.024 Sum_probs=55.6
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC---CCCCCCeEecChhhHHHHhcCCCcccccccCchH-HHHHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS---AGDDRRLQRLAPVAKYVLHYGIGDYEHAGLDSRF-NEVLNTAML 89 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~---~~~~~~~y~~t~~s~~l~~~g~~~~~~l~~~~~~-~~~f~~~m~ 89 (239)
.|-+++||++.+++ ++.....+|+.|+.. ..-.++.|-++..-..+. ..+.+++.++.+. ...|..+ .
T Consensus 505 ~p~~~~~~~~~l~~----~~~~~~~~l~~l~~~g~lv~l~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~r~~-~ 576 (614)
T PRK10512 505 EPWWVRDLAKETGT----DEQAMRLTLRQAAQQGIITAIVKDRYYRNDRIVQFA---NMIRELDQECGSTCAADFRDR-L 576 (614)
T ss_pred CCCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEecCCEEECHHHHHHHH---HHHHHHHhhCCcEeHHHHHHH-h
Confidence 58899999999999 999999999999996 344567887776554333 1222333333332 2334443 3
Q ss_pred hcccccHHHHHhhcc
Q 045543 90 SHNSIVMNRILDYYK 104 (239)
Q Consensus 90 ~~~~~~~~~~~~~~~ 104 (239)
+.++-.+-.+++.+|
T Consensus 577 g~sRK~~i~lLE~~D 591 (614)
T PRK10512 577 GVGRKLAIQILEYFD 591 (614)
T ss_pred CccHHHHHHHHHHhc
Confidence 566666678888888
No 461
>PRK00118 putative DNA-binding protein; Validated
Probab=40.26 E-value=32 Score=25.08 Aligned_cols=25 Identities=16% Similarity=0.211 Sum_probs=21.5
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
...|.+|||+.+|+ ++..+.+.+.-
T Consensus 32 eg~S~~EIAe~lGI----S~~TV~r~L~R 56 (104)
T PRK00118 32 DDYSLGEIAEEFNV----SRQAVYDNIKR 56 (104)
T ss_pred cCCCHHHHHHHHCc----CHHHHHHHHHH
Confidence 57899999999999 89888877654
No 462
>PF07037 DUF1323: Putative transcription regulator (DUF1323); InterPro: IPR010749 This family consists of several hypothetical Enterobacterial proteins of around 120 residues in length. The function of this family is unknown.
Probab=40.16 E-value=29 Score=25.88 Aligned_cols=23 Identities=13% Similarity=0.291 Sum_probs=20.5
Q ss_pred CCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 16 LSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 16 ~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
+|.+|||+.+|. ...-+.|+.|-
T Consensus 1 MT~eELA~~tG~----srQTINrWvRk 23 (122)
T PF07037_consen 1 MTPEELAELTGY----SRQTINRWVRK 23 (122)
T ss_pred CCHHHHHHHhCc----cHHHHHHHHHh
Confidence 588999999999 89999999875
No 463
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=40.16 E-value=51 Score=23.45 Aligned_cols=37 Identities=14% Similarity=0.113 Sum_probs=31.9
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|..+|... +|=.+.-||..+++ +.+.+...|+-|..+
T Consensus 12 IL~hl~~~---~~Dy~k~ia~~l~~----~~~~v~~~l~~Le~~ 48 (92)
T PF10007_consen 12 ILQHLKKA---GPDYAKSIARRLKI----PLEEVREALEKLEEM 48 (92)
T ss_pred HHHHHHHH---CCCcHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 55667765 57889999999999 999999999999987
No 464
>PRK11074 putative DNA-binding transcriptional regulator; Provisional
Probab=40.11 E-value=27 Score=29.69 Aligned_cols=55 Identities=13% Similarity=0.179 Sum_probs=46.0
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|..+.+. .|...-|+++++ .+..+.+-++.|... -...+....+|+.++.|.
T Consensus 7 L~~f~~v~e~-----~s~s~AA~~L~i----sQpavS~~I~~LE~~lg~~LF~R~~r~~~lT~~G~~l~ 66 (300)
T PRK11074 7 LEVVDAVART-----GSFSAAAQELHR----VPSAVSYTVRQLEEWLAVPLFERRHRDVELTPAGEWFV 66 (300)
T ss_pred HHHHHHHHHh-----CCHHHHHHHhCC----CHHHHHHHHHHHHHHhCCeeEEeCCCCceECccHHHHH
Confidence 3578899984 489999999999 999999999999886 234577799999998876
No 465
>PF02733 Dak1: Dak1 domain; InterPro: IPR004006 Dihydroxyacetone kinase (glycerone kinase) 2.7.1.29 from EC catalyses the phosphorylation of glycerone in the presence of ATP to glycerone phosphate in the glycerol utilization pathway. This is the kinase domain of the dihydroxyacetone kinase family.; GO: 0004371 glycerone kinase activity, 0006071 glycerol metabolic process; PDB: 1UN8_A 1UN9_B 3PNM_A 1UOD_B 3PNO_D 3PNK_A 3PNQ_B 1OI2_B 1OI3_A 3PNL_A ....
Probab=39.69 E-value=70 Score=28.29 Aligned_cols=63 Identities=21% Similarity=0.234 Sum_probs=30.9
Q ss_pred CCCcceEEEeCCCCCCCccccccccCCc--ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 106 FEKIKQLVDVGGGCGKCGWKMFQKILNG--DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~~~gD~~~~~p~~--D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
+.+.+.-+=.|||+|+.|. |.--+.++ |...+-.|+ .-+...+|+.-+..+=++.|.|+|+-.
T Consensus 25 ~~~~kV~lIsGGGSGHEP~-~~GfVG~GmLdAav~G~VF---aSPs~~qI~~ai~~~~~~~Gvl~iv~N 89 (325)
T PF02733_consen 25 IPKDKVALISGGGSGHEPA-HAGFVGKGMLDAAVCGDVF---ASPSADQILAAIKAVDSGKGVLLIVKN 89 (325)
T ss_dssp --TTS-EEEEEEEESSTTT-TGGGBSCTSBSEEEEEEET---S---HHHHHHHHHHH-SSS-EEEEEES
T ss_pred CCCCCEEEEecCCCCcccc-hhhhccCCccceEeeCCCc---CCCCHHHHHHHHHhccCCCCEEEEEec
Confidence 3455667778999999332 11113333 556666554 333344566655555445566666543
No 466
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=39.59 E-value=25 Score=31.79 Aligned_cols=20 Identities=10% Similarity=0.310 Sum_probs=16.7
Q ss_pred HHHHHHHHhhCCCCceEEEE
Q 045543 151 LSLLKNCYEAIPGNGKIIII 170 (239)
Q Consensus 151 ~~iL~~~~~aL~pgg~lli~ 170 (239)
..+|..+.++++|||.|+|.
T Consensus 138 ~~~l~~al~~~~~~gilyvS 157 (382)
T PRK04338 138 APFLDSAIRSVKRGGLLCVT 157 (382)
T ss_pred HHHHHHHHHHhcCCCEEEEE
Confidence 46788878889999999887
No 467
>PF13551 HTH_29: Winged helix-turn helix
Probab=39.52 E-value=34 Score=24.22 Aligned_cols=26 Identities=23% Similarity=0.231 Sum_probs=23.6
Q ss_pred CHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 17 SAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 17 t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|+.++|+.+|+ +++.+.++++....-
T Consensus 14 ~~~~ia~~lg~----s~~Tv~r~~~~~~~~ 39 (112)
T PF13551_consen 14 TIAEIARRLGI----SRRTVYRWLKRYREG 39 (112)
T ss_pred cHHHHHHHHCc----CHHHHHHHHHHHHcc
Confidence 79999999999 999999999887654
No 468
>COG1733 Predicted transcriptional regulators [Transcription]
Probab=39.49 E-value=76 Score=23.60 Aligned_cols=47 Identities=19% Similarity=0.171 Sum_probs=39.7
Q ss_pred CCCCHHHHHHhCC-CCCCCChhhHHHHHHHhccC---------CCCCCCeEecChhhHHHH
Q 045543 14 AKLSAAEIEAQMP-SHNPNAAVMLDRVLRRSLSS---------AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 14 ~~~t~~eLA~~~g-~~~~~~~~~l~rlL~~L~~~---------~~~~~~~y~~t~~s~~l~ 64 (239)
|+.-..||-+.++ + ++.-|.+=|+.|... ..+..-.|++|+.++.|.
T Consensus 35 g~~RF~eL~r~i~~I----s~k~Ls~~Lk~Le~~Glv~R~~~~~~PprveY~LT~~G~~L~ 91 (120)
T COG1733 35 GPKRFNELRRSIGGI----SPKMLSRRLKELEEDGLVERVVYPEEPPRVEYRLTEKGRDLL 91 (120)
T ss_pred CCCcHHHHHHHcccc----CHHHHHHHHHHHHHCCCEEeeecCCCCceeEEEEhhhHHHHH
Confidence 6999999999999 9 999999999999986 123355699999998776
No 469
>PF04182 B-block_TFIIIC: B-block binding subunit of TFIIIC; InterPro: IPR007309 Yeast transcription factor IIIC (TFIIIC) is a multisubunit protein complex that interacts with two control elements of class III promoters called the A and B blocks. This family represents the subunit within TFIIIC involved in B-block binding []. Although defined as a yeast protein, it is also found in a number of other organisms.
Probab=39.35 E-value=37 Score=22.82 Aligned_cols=39 Identities=8% Similarity=0.118 Sum_probs=32.4
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+.+.|+.++ ..+++..+|++.+|. |++.+...++.|...
T Consensus 7 ~Le~I~rsR-~~Gi~q~~L~~~~~~----D~r~i~~~~k~L~~~ 45 (75)
T PF04182_consen 7 LLERIARSR-YNGITQSDLSKLLGI----DPRSIFYRLKKLEKK 45 (75)
T ss_pred HHHHHHhcC-CCCEehhHHHHHhCC----CchHHHHHHHHHHHC
Confidence 455666644 267899999999999 999999999999886
No 470
>KOG1099 consensus SAM-dependent methyltransferase/cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=38.82 E-value=29 Score=29.26 Aligned_cols=37 Identities=16% Similarity=0.161 Sum_probs=23.1
Q ss_pred cceeeech-----hhhcCChhHHHHHH----HHHHhhCCCCceEEE
Q 045543 133 GDAILMKL-----ILRNWDDEHCLSLL----KNCYEAIPGNGKIII 169 (239)
Q Consensus 133 ~D~~~l~~-----vlH~~~d~~~~~iL----~~~~~aL~pgg~lli 169 (239)
+|+|++-. =||++++=.-.++| .-....|+|||.++-
T Consensus 116 AdlVvcDGAPDvTGlHd~DEy~Q~qLllaAl~i~t~Vlk~Gg~FVa 161 (294)
T KOG1099|consen 116 ADLVVCDGAPDVTGLHDLDEYVQAQLLLAALNIATCVLKPGGSFVA 161 (294)
T ss_pred ccEEEeCCCCCccccccHHHHHHHHHHHHHHHHHhheecCCCeeeh
Confidence 47777754 37887654444443 334567889998753
No 471
>PRK10341 DNA-binding transcriptional activator TdcA; Provisional
Probab=38.81 E-value=32 Score=29.52 Aligned_cols=54 Identities=11% Similarity=0.119 Sum_probs=45.1
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
.+|..+++ ..|...-|+++++ ....+.+-++.|... -+..+....+|+.++.|.
T Consensus 13 ~~F~av~e-----~gs~s~AA~~L~i----SQpavS~~I~~LE~~lg~~LF~R~~r~~~lT~~G~~l~ 71 (312)
T PRK10341 13 VVFQEVIR-----SGSIGSAAKELGL----TQPAVSKIINDIEDYFGVELIVRKNTGVTLTPAGQVLL 71 (312)
T ss_pred HHHHHHHH-----cCCHHHHHHHhCC----ChHHHHHHHHHHHHHhCCeEEEEcCCCceEChhHHHHH
Confidence 46788887 4599999999999 999999999999886 234567899999998877
No 472
>PF04760 IF2_N: Translation initiation factor IF-2, N-terminal region; InterPro: IPR006847 This region is found in the N-terminal half of translation initiation factor IF-2. It is found in two copies in IF-2 alpha isoforms, and in only one copy in the N-terminally truncated beta and gamma isoforms []. Its function is unknown.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1ND9_A.
Probab=38.65 E-value=13 Score=23.17 Aligned_cols=23 Identities=13% Similarity=0.242 Sum_probs=17.1
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVL 40 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL 40 (239)
.++++.|||+.+|+ ++..+-+.|
T Consensus 2 ~~i~V~elAk~l~v----~~~~ii~~l 24 (54)
T PF04760_consen 2 EKIRVSELAKELGV----PSKEIIKKL 24 (54)
T ss_dssp -EE-TTHHHHHHSS----SHHHHHHHH
T ss_pred CceEHHHHHHHHCc----CHHHHHHHH
Confidence 36899999999999 787665555
No 473
>COG0503 Apt Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]
Probab=38.60 E-value=59 Score=25.96 Aligned_cols=47 Identities=19% Similarity=0.277 Sum_probs=33.0
Q ss_pred HHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEE
Q 045543 152 SLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYE 226 (239)
Q Consensus 152 ~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~ 226 (239)
..+.-..++|++|-+++|+|-++.. || |.... .++++++|++++.+.
T Consensus 104 ~~l~~~~~~l~~G~rVlIVDDllaT-----------------------Gg---T~~a~--~~Ll~~~ga~vvg~~ 150 (179)
T COG0503 104 ETLELHKDALKPGDRVLIVDDLLAT-----------------------GG---TALAL--IELLEQAGAEVVGAA 150 (179)
T ss_pred eEEEEEhhhCCCCCEEEEEecchhc-----------------------Ch---HHHHH--HHHHHHCCCEEEEEE
Confidence 4455666788899999999876543 33 44445 777888888877654
No 474
>PF06056 Terminase_5: Putative ATPase subunit of terminase (gpP-like); InterPro: IPR010332 This family of proteins are annotated as ATPase subunits of phage terminase after []. Terminases are viral proteins that are involved in packaging viral DNA into the capsid.; GO: 0005524 ATP binding, 0019069 viral capsid assembly
Probab=38.59 E-value=40 Score=21.67 Aligned_cols=24 Identities=13% Similarity=0.008 Sum_probs=19.5
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
.+.++.|||+.+|+ ++..+..+.+
T Consensus 12 ~G~~~~eIA~~Lg~----~~~TV~~W~~ 35 (58)
T PF06056_consen 12 QGWSIKEIAEELGV----PRSTVYSWKD 35 (58)
T ss_pred cCCCHHHHHHHHCC----ChHHHHHHHH
Confidence 37899999999999 8777776653
No 475
>COG3645 Uncharacterized phage-encoded protein [Function unknown]
Probab=38.43 E-value=35 Score=26.05 Aligned_cols=33 Identities=15% Similarity=0.086 Sum_probs=27.3
Q ss_pred chHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 4 FEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 4 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
+|.+.++. |.+++-|+|+.+++ -+..+..+|+-
T Consensus 38 ~D~v~~~~--gli~~re~AK~lki----ge~~l~~~L~e 70 (135)
T COG3645 38 ADAVVEAS--GLILFRELAKLLKI----GENRLFAWLRE 70 (135)
T ss_pred HHHHhcCc--cceeHHHHHHHHcc----CHHHHHHHHHH
Confidence 56666643 78999999999999 89999888864
No 476
>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]
Probab=38.24 E-value=26 Score=31.62 Aligned_cols=16 Identities=25% Similarity=0.524 Sum_probs=13.9
Q ss_pred CCCcceEEEeCCCCCC
Q 045543 106 FEKIKQLVDVGGGCGK 121 (239)
Q Consensus 106 ~~~~~~vlDvGGG~G~ 121 (239)
.++.++++=+|||.|.
T Consensus 287 ~~~a~~vLvlGGGDGL 302 (508)
T COG4262 287 VRGARSVLVLGGGDGL 302 (508)
T ss_pred ccccceEEEEcCCchH
Confidence 3567899999999998
No 477
>PF10354 DUF2431: Domain of unknown function (DUF2431); InterPro: IPR019446 This entry represents the N-terminal domain of a family of proteins whose function is not known.
Probab=38.15 E-value=1e+02 Score=24.20 Aligned_cols=51 Identities=16% Similarity=0.156 Sum_probs=36.3
Q ss_pred HHHHHHHHHhhCCCCceEEEEeeecCCCCCCChhhhhhhhhhHHHhhccCCccccChhhccHHHHHhhCCCceeeEEEcC
Q 045543 150 CLSLLKNCYEAIPGNGKIIIIDSTTVVIPEATPATREASSIDIIMLMQLSGEKERTKQEYYGMALTAKNGFKGVNYESFV 229 (239)
Q Consensus 150 ~~~iL~~~~~aL~pgg~lli~d~~~~~~~~~~~~~~~~~~~dl~ml~~~~~g~~rt~~e~~~~~ll~~aGf~~~~~~~~~ 229 (239)
...+++.+.+.|+++|.|.|.= . .|+.+ ..|.|.++.+++||...+..+..
T Consensus 104 l~~Ff~Sa~~~L~~~G~IhVTl---~------------------------~~~py--~~W~i~~lA~~~gl~l~~~~~F~ 154 (166)
T PF10354_consen 104 LRGFFKSASQLLKPDGEIHVTL---K------------------------DGQPY--DSWNIEELAAEAGLVLVRKVPFD 154 (166)
T ss_pred HHHHHHHHHHhcCCCCEEEEEe---C------------------------CCCCC--ccccHHHHHHhcCCEEEEEecCC
Confidence 4567888999999999998841 1 12223 34555888999999998887653
No 478
>PF09821 AAA_assoc_C: C-terminal AAA-associated domain; InterPro: IPR018632 Members of this family are found in various prokaryotic ABC transporters, predominantly involved in nitrate, sulphonate and bicarbonate translocation.
Probab=37.93 E-value=40 Score=25.15 Aligned_cols=41 Identities=12% Similarity=0.088 Sum_probs=36.3
Q ss_pred HHHHhCCCCCCCChhhHHHHHHHhccC--CCCCCCeEecChhhHHHH
Q 045543 20 EIEAQMPSHNPNAAVMLDRVLRRSLSS--AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 20 eLA~~~g~~~~~~~~~l~rlL~~L~~~--~~~~~~~y~~t~~s~~l~ 64 (239)
+||+.++. +-+-|--+++++..+ .+..+|-..+|+.++.++
T Consensus 2 ~La~~l~~----eiDdL~p~~eAaelLgf~~~~~Gdi~LT~~G~~f~ 44 (120)
T PF09821_consen 2 QLADELHL----EIDDLLPIVEAAELLGFAEVEEGDIRLTPLGRRFA 44 (120)
T ss_pred chHHHhCC----cHHHHHHHHHHHHHcCCeeecCCcEEeccchHHHH
Confidence 58999999 999999999999988 566788899999999887
No 479
>PRK15421 DNA-binding transcriptional regulator MetR; Provisional
Probab=37.79 E-value=36 Score=29.43 Aligned_cols=55 Identities=13% Similarity=0.134 Sum_probs=45.4
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|.++.+. .|...-|+++++ .+..+.+-++.|... -+..+....+|+.++.|.
T Consensus 7 L~~f~av~~~-----gs~s~AA~~L~i----SqpaVS~~Ik~LE~~lg~~LF~R~~r~v~lT~~G~~l~ 66 (317)
T PRK15421 7 LKTLQALRNC-----GSLAAAAATLHQ----TQSALSHQFSDLEQRLGFRLFVRKSQPLRFTPQGEILL 66 (317)
T ss_pred HHHHHHHHHc-----CCHHHHHHHhCC----CHHHHHHHHHHHHHHhCCEEEEecCCCceECHhHHHHH
Confidence 3568888884 399999999999 999999999999886 234567789999998877
No 480
>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=37.66 E-value=37 Score=29.10 Aligned_cols=29 Identities=14% Similarity=0.150 Sum_probs=26.4
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHH-HhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLR-RSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~-~L~~~ 46 (239)
++.+++++|+.+|. ++..+.++++ .|+..
T Consensus 254 ~~~~~~~ia~~lg~----~~~~~~~~~e~~Li~~ 283 (305)
T TIGR00635 254 GPVGLKTLAAALGE----DADTIEDVYEPYLLQI 283 (305)
T ss_pred CcccHHHHHHHhCC----CcchHHHhhhHHHHHc
Confidence 68999999999999 9999999999 68876
No 481
>PRK11642 exoribonuclease R; Provisional
Probab=37.62 E-value=40 Score=33.66 Aligned_cols=54 Identities=19% Similarity=0.175 Sum_probs=36.1
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC---CCCCCCeEecCh
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS---AGDDRRLQRLAP 58 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~---~~~~~~~y~~t~ 58 (239)
|.+.|.+.+ +|++..+|++.+++....+...+.+.|+.|... .....+.|.+..
T Consensus 24 Il~~l~~~~--~~~~~~~L~~~l~l~~~~~~~~l~~~L~~L~~~g~l~~~~~~~~~~~~ 80 (813)
T PRK11642 24 ILEHLTKRE--KPASREELAVELNIEGEEQLEALRRRLRAMERDGQLVFTRRQCYALPE 80 (813)
T ss_pred HHHHHHhcC--CCCCHHHHHHHhCCCChHHHHHHHHHHHHHHHCCCEEEcCCceEecCC
Confidence 445565533 799999999999992111234588888888876 233456676654
No 482
>PRK09462 fur ferric uptake regulator; Provisional
Probab=37.62 E-value=64 Score=24.66 Aligned_cols=43 Identities=14% Similarity=0.234 Sum_probs=31.6
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCC-CCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSH-NPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~-~~~~~~~l~rlL~~L~~~ 46 (239)
|++.|.+.. +++.|++||-+++.-. +..+...++|.|+.|+..
T Consensus 22 Il~~l~~~~-~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~ 65 (148)
T PRK09462 22 ILEVLQEPD-NHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDA 65 (148)
T ss_pred HHHHHHhCC-CCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHC
Confidence 567776531 2699999999988431 112788899999999997
No 483
>PF13578 Methyltransf_24: Methyltransferase domain; PDB: 3SSO_A 3SSN_C 3SSM_D.
Probab=37.56 E-value=24 Score=24.95 Aligned_cols=36 Identities=25% Similarity=0.254 Sum_probs=25.1
Q ss_pred ceeeechhhhcCChhHHHHHHHHHHhhCCCCceEEEEee
Q 045543 134 DAILMKLILRNWDDEHCLSLLKNCYEAIPGNGKIIIIDS 172 (239)
Q Consensus 134 D~~~l~~vlH~~~d~~~~~iL~~~~~aL~pgg~lli~d~ 172 (239)
|++++=. -| +.+....-++.+.+.|+|||.|++.|.
T Consensus 71 dli~iDg-~H--~~~~~~~dl~~~~~~l~~ggviv~dD~ 106 (106)
T PF13578_consen 71 DLIFIDG-DH--SYEAVLRDLENALPRLAPGGVIVFDDY 106 (106)
T ss_dssp EEEEEES------HHHHHHHHHHHGGGEEEEEEEEEE--
T ss_pred EEEEECC-CC--CHHHHHHHHHHHHHHcCCCeEEEEeCc
Confidence 7776644 23 335667889999999999998888763
No 484
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=37.49 E-value=30 Score=24.27 Aligned_cols=29 Identities=10% Similarity=0.111 Sum_probs=26.7
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
.-+|...||+++++ .-+..++.||.|...
T Consensus 40 K~ITps~lserlkI----~~SlAr~~Lr~L~~k 68 (86)
T PRK09334 40 KIVTPYTLASKYGI----KISVAKKVLRELEKR 68 (86)
T ss_pred cEEcHHHHHHHhcc----hHHHHHHHHHHHHHC
Confidence 56899999999999 999999999999875
No 485
>PHA01976 helix-turn-helix protein
Probab=37.25 E-value=37 Score=21.81 Aligned_cols=23 Identities=13% Similarity=0.072 Sum_probs=20.0
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVL 40 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL 40 (239)
..+|.+|+|+++|+ ++..+.++.
T Consensus 14 ~glt~~~lA~~~gv----s~~~v~~~e 36 (67)
T PHA01976 14 RAWSAPELSRRAGV----RHSLIYDFE 36 (67)
T ss_pred cCCCHHHHHHHhCC----CHHHHHHHH
Confidence 57999999999999 888887765
No 486
>PRK09801 transcriptional activator TtdR; Provisional
Probab=37.22 E-value=37 Score=29.21 Aligned_cols=54 Identities=9% Similarity=0.049 Sum_probs=45.4
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
.+|-.+++ ..|...-|+++++ .+..+.+-++.|... -+..+..+.+|+.++.|.
T Consensus 12 ~~F~~v~~-----~gs~t~AA~~L~i----SQpavS~~I~~LE~~LG~~Lf~R~~r~~~lT~~G~~l~ 70 (310)
T PRK09801 12 QVLVEIVH-----SGSFSAAAATLGQ----TPAFVTKRIQILENTLATTLLNRSARGVALTESGQRCY 70 (310)
T ss_pred HHHHHHHH-----cCCHHHHHHHhCc----CHHHHHHHHHHHHHHhCCEeeeecCCCCcccHhHHHHH
Confidence 46778887 4489999999999 999999999999886 345678899999999887
No 487
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=37.15 E-value=53 Score=26.77 Aligned_cols=41 Identities=12% Similarity=0.169 Sum_probs=32.9
Q ss_pred CCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC----CCCCCCeEec
Q 045543 12 PRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS----AGDDRRLQRL 56 (239)
Q Consensus 12 ~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~----~~~~~~~y~~ 56 (239)
||..++..+||+++|+ +...++.-|+.|.+. ..+..|.|..
T Consensus 27 pG~~L~e~eLae~lgV----SRtpVREAL~~L~~eGlv~~~~~~G~~V~ 71 (224)
T PRK11534 27 PDEKLRMSLLTSRYAL----GVGPLREALSQLVAERLVTVVNQKGYRVA 71 (224)
T ss_pred CCCcCCHHHHHHHHCC----ChHHHHHHHHHHHHCCCEEEeCCCceEeC
Confidence 4578999999999999 999999999999987 2344554443
No 488
>KOG2793 consensus Putative N2,N2-dimethylguanosine tRNA methyltransferase [RNA processing and modification]
Probab=37.10 E-value=69 Score=27.16 Aligned_cols=16 Identities=31% Similarity=0.729 Sum_probs=13.8
Q ss_pred CC-CcceEEEeCCCCCC
Q 045543 106 FE-KIKQLVDVGGGCGK 121 (239)
Q Consensus 106 ~~-~~~~vlDvGGG~G~ 121 (239)
|. +...+|.+|+|+|.
T Consensus 83 ~~~~~~~vlELGsGtgl 99 (248)
T KOG2793|consen 83 FKTKYINVLELGSGTGL 99 (248)
T ss_pred ccccceeEEEecCCccH
Confidence 55 56789999999998
No 489
>PRK11151 DNA-binding transcriptional regulator OxyR; Provisional
Probab=37.09 E-value=39 Score=28.74 Aligned_cols=55 Identities=7% Similarity=0.029 Sum_probs=45.7
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|-.+.+. .|...-|+++++ .+..+.+-++.|... -...+....+|+.++.|.
T Consensus 6 L~~f~~v~~~-----gS~s~AA~~L~i----tQpavS~~i~~LE~~lg~~LF~R~~r~~~lT~~G~~l~ 65 (305)
T PRK11151 6 LEYLVALAEH-----RHFRRAADSCHV----SQPTLSGQIRKLEDELGVMLLERTSRKVLFTQAGLLLV 65 (305)
T ss_pred HHHHHHHHHh-----CCHHHHHHHhCC----CchHHHHHHHHHHHHhCchheeeCCCceeECccHHHHH
Confidence 3467788874 399999999999 999999999999886 245678899999998877
No 490
>smart00422 HTH_MERR helix_turn_helix, mercury resistance.
Probab=37.03 E-value=36 Score=21.96 Aligned_cols=22 Identities=14% Similarity=0.061 Sum_probs=19.1
Q ss_pred CCHHHHHHhCCCCCCCChhhHHHHHH
Q 045543 16 LSAAEIEAQMPSHNPNAAVMLDRVLR 41 (239)
Q Consensus 16 ~t~~eLA~~~g~~~~~~~~~l~rlL~ 41 (239)
.|+.|+|+.+|+ +++.+.++.+
T Consensus 1 ~s~~eva~~~gv----s~~tlr~~~~ 22 (70)
T smart00422 1 YTIGEVAKLAGV----SVRTLRYYER 22 (70)
T ss_pred CCHHHHHHHHCc----CHHHHHHHHH
Confidence 378999999999 9998888865
No 491
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=36.90 E-value=32 Score=29.10 Aligned_cols=37 Identities=16% Similarity=0.214 Sum_probs=32.7
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+. +.+++.|||+.+++ ++..++|=|+.|...
T Consensus 10 Il~~L~~~---~~v~v~eLa~~l~V----S~~TIRRDL~~Le~~ 46 (256)
T PRK10434 10 ILEYLQKQ---GKTSVEELAQYFDT----TGTTIRKDLVILEHA 46 (256)
T ss_pred HHHHHHHc---CCEEHHHHHHHHCC----CHHHHHHHHHHHHHC
Confidence 56777775 68999999999999 999999999999876
No 492
>TIGR00180 parB_part ParB-like partition proteins. This model represents the most well-conserved core of a set of chromosomal and plasmid partition proteins related to ParB, including Spo0J, RepB, and SopB. Spo0J has been shown to bind a specific DNA sequence that, when introduced into a plasmid, can serve as partition site. Study of RepB, which has nicking-closing activity, suggests that it forms a transient protein-DNA covalent intermediate during the strand transfer reaction.
Probab=36.66 E-value=38 Score=27.13 Aligned_cols=27 Identities=7% Similarity=0.199 Sum_probs=24.5
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHHHHhc
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVLRRSL 44 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 44 (239)
...|.++||+++|. ++..+.+.|+.+.
T Consensus 119 ~g~s~~~iA~~lg~----s~~~V~r~l~l~~ 145 (187)
T TIGR00180 119 FSMTQEDLAKKIGK----SRAHITNLLRLLK 145 (187)
T ss_pred hCCCHHHHHHHHCc----CHHHHHHHHHHHc
Confidence 47899999999999 9999999998876
No 493
>PRK12423 LexA repressor; Provisional
Probab=36.50 E-value=37 Score=27.53 Aligned_cols=29 Identities=14% Similarity=0.061 Sum_probs=24.9
Q ss_pred CCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 15 KLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 15 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
+-|..|||+.+|+. .+..++.-|+.|...
T Consensus 25 ~Ps~~eia~~~g~~---s~~~v~~~l~~L~~~ 53 (202)
T PRK12423 25 PPSLAEIAQAFGFA---SRSVARKHVQALAEA 53 (202)
T ss_pred CCCHHHHHHHhCCC---ChHHHHHHHHHHHHC
Confidence 56999999999941 777889999999985
No 494
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=36.27 E-value=48 Score=19.02 Aligned_cols=23 Identities=17% Similarity=0.296 Sum_probs=19.5
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDRVL 40 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~rlL 40 (239)
..+|..++|+.+|+ ++..+.+++
T Consensus 9 ~~~s~~~la~~~~i----~~~~i~~~~ 31 (56)
T smart00530 9 KGLTQEELAEKLGV----SRSTLSRIE 31 (56)
T ss_pred cCCCHHHHHHHhCC----CHHHHHHHH
Confidence 57899999999999 887777665
No 495
>PF13413 HTH_25: Helix-turn-helix domain; PDB: 2WUS_R 3FYM_A.
Probab=36.18 E-value=40 Score=21.88 Aligned_cols=21 Identities=14% Similarity=0.226 Sum_probs=13.4
Q ss_pred CCCCHHHHHHhCCCCCCCChhhHHH
Q 045543 14 AKLSAAEIEAQMPSHNPNAAVMLDR 38 (239)
Q Consensus 14 ~~~t~~eLA~~~g~~~~~~~~~l~r 38 (239)
..+|++++|+.+++ ++..+..
T Consensus 9 ~glsl~~va~~t~I----~~~~l~a 29 (62)
T PF13413_consen 9 KGLSLEDVAEETKI----SVSYLEA 29 (62)
T ss_dssp TT--HHHHHHHCS------HHHHHH
T ss_pred cCCCHHHHHHHhCC----CHHHHHH
Confidence 68999999999999 7655433
No 496
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=36.02 E-value=30 Score=22.92 Aligned_cols=37 Identities=8% Similarity=0.119 Sum_probs=27.1
Q ss_pred cchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC
Q 045543 3 VFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS 46 (239)
Q Consensus 3 ifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~ 46 (239)
|.+.|.+. ++.|+.||++.+++ +..-+..=+--|+..
T Consensus 13 Vw~~L~~~---~~~s~~el~k~~~l----~~~~~~~AiGWLarE 49 (65)
T PF10771_consen 13 VWQLLNEN---GEWSVSELKKATGL----SDKEVYLAIGWLARE 49 (65)
T ss_dssp HHHHHCCS---SSEEHHHHHHHCT-----SCHHHHHHHHHHHCT
T ss_pred HHHHHhhC---CCcCHHHHHHHhCc----CHHHHHHHHHHHhcc
Confidence 55677774 69999999999999 777666655555554
No 497
>PRK09685 DNA-binding transcriptional activator FeaR; Provisional
Probab=35.86 E-value=31 Score=29.47 Aligned_cols=24 Identities=17% Similarity=0.149 Sum_probs=21.6
Q ss_pred CCCHHHHHHhCCCCCCCChhhHHHHHHH
Q 045543 15 KLSAAEIEAQMPSHNPNAAVMLDRVLRR 42 (239)
Q Consensus 15 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 42 (239)
.+|+++||+++|+ +++.+.|+.+-
T Consensus 214 ~ls~~~lA~~~gi----S~r~L~r~Fk~ 237 (302)
T PRK09685 214 ILRPEWIAGELGI----SVRSLYRLFAE 237 (302)
T ss_pred CCCHHHHHHHHCC----CHHHHHHHHHH
Confidence 3899999999999 99999999853
No 498
>PRK09508 leuO leucine transcriptional activator; Reviewed
Probab=35.74 E-value=39 Score=28.97 Aligned_cols=54 Identities=9% Similarity=0.042 Sum_probs=44.5
Q ss_pred ccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 2 GVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 2 gifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
.+|-++++. .|...-|+++++ .+..+.+-++.|... -+..+..+.+|+.++.|.
T Consensus 28 ~~f~avae~-----gs~s~AA~~L~i----sQpavS~~I~~LE~~lg~~LF~R~~r~~~lT~~G~~l~ 86 (314)
T PRK09508 28 TVFDAVMQE-----QNITRAAHNLGM----SQPAVSNAVARLKVMFNDELFVRYGRGIQPTARARQLF 86 (314)
T ss_pred HHHHHHHhc-----CCHHHHHHHhCC----CHHHHHHHHHHHHHhhCCCcEEEcCCCCcCcHHHHHHH
Confidence 467778874 489999999999 999999999999886 235567799999998876
No 499
>PRK10086 DNA-binding transcriptional regulator DsdC; Provisional
Probab=35.36 E-value=37 Score=29.15 Aligned_cols=55 Identities=16% Similarity=0.160 Sum_probs=45.7
Q ss_pred CccchHhHhcCCCCCCCHHHHHHhCCCCCCCChhhHHHHHHHhccC-----CCCCCCeEecChhhHHHH
Q 045543 1 MGVFEIMAKAGPRAKLSAAEIEAQMPSHNPNAAVMLDRVLRRSLSS-----AGDDRRLQRLAPVAKYVL 64 (239)
Q Consensus 1 Lgifd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~-----~~~~~~~y~~t~~s~~l~ 64 (239)
|.+|-.+++ ..|...-|+++++ ....+.+-++.|... -+..+..+.+|+.++.|.
T Consensus 19 L~~f~~va~-----~gs~s~AA~~L~i----SQpavS~~I~~LE~~lG~~LF~R~~r~~~LT~~G~~l~ 78 (311)
T PRK10086 19 LHTFEVAAR-----HQSFALAADELSL----TPSAVSHRINQLEEELGIKLFVRSHRKVELTEEGKRVF 78 (311)
T ss_pred HHHHHHHHH-----cCCHHHHHHHHCC----CHHHHHHHHHHHHHHhCCeeEEEcCCCcccCHhHHHHH
Confidence 346778887 4489999999999 999999999999886 345677899999999887
No 500
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=35.31 E-value=38 Score=21.85 Aligned_cols=24 Identities=17% Similarity=0.176 Sum_probs=20.7
Q ss_pred CHHHHHHhCCCCCCCChhhHHHHHHHhc
Q 045543 17 SAAEIEAQMPSHNPNAAVMLDRVLRRSL 44 (239)
Q Consensus 17 t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 44 (239)
|+.|+|+.+|+ +++.++.+.+.-.
T Consensus 2 ti~eva~~~gv----s~~tlr~y~~~gl 25 (69)
T PF13411_consen 2 TIKEVAKLLGV----SPSTLRYYEREGL 25 (69)
T ss_dssp EHHHHHHHTTT----THHHHHHHHHTTS
T ss_pred cHHHHHHHHCc----CHHHHHHHHHhcC
Confidence 67899999999 9999988877655
Done!