Query 024046
Match_columns 273
No_of_seqs 112 out of 1322
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 08:32:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024046.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024046hhsearch_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 1.6E-36 3.4E-41 266.7 18.5 249 21-272 3-253 (342)
2 PF00891 Methyltransf_2: O-met 100.0 3.2E-35 6.9E-40 254.2 11.5 173 99-272 2-175 (241)
3 TIGR02716 C20_methyl_CrtF C-20 100.0 2.4E-33 5.2E-38 250.7 18.0 219 36-272 2-232 (306)
4 PF12847 Methyltransf_18: Meth 99.0 6.9E-10 1.5E-14 84.0 6.5 71 198-268 2-84 (112)
5 TIGR03587 Pse_Me-ase pseudamin 99.0 8.5E-10 1.9E-14 93.0 7.6 77 195-271 41-121 (204)
6 PRK06922 hypothetical protein; 99.0 1.3E-09 2.7E-14 104.7 8.8 112 157-269 377-501 (677)
7 PRK14103 trans-aconitate 2-met 99.0 4E-09 8.6E-14 91.9 9.7 83 186-270 19-104 (255)
8 PF13847 Methyltransf_31: Meth 98.9 3.6E-09 7.8E-14 84.9 6.5 75 197-271 3-89 (152)
9 PRK01683 trans-aconitate 2-met 98.8 1.3E-08 2.8E-13 88.8 9.0 85 185-270 20-108 (258)
10 COG2226 UbiE Methylase involve 98.8 1.3E-08 2.8E-13 87.2 8.6 76 196-271 50-135 (238)
11 PF08100 Dimerisation: Dimeris 98.8 4.3E-09 9.4E-14 68.1 3.9 49 39-87 1-51 (51)
12 TIGR00740 methyltransferase, p 98.8 5.6E-09 1.2E-13 90.1 5.7 76 196-271 52-138 (239)
13 COG4106 Tam Trans-aconitate me 98.8 5.6E-09 1.2E-13 86.8 5.3 85 185-270 19-107 (257)
14 TIGR02752 MenG_heptapren 2-hep 98.8 1.7E-08 3.8E-13 86.4 8.3 83 187-270 36-129 (231)
15 PLN02233 ubiquinone biosynthes 98.8 4.4E-08 9.6E-13 85.7 10.4 77 195-271 71-161 (261)
16 PRK15451 tRNA cmo(5)U34 methyl 98.8 6.5E-09 1.4E-13 90.2 5.1 76 196-271 55-141 (247)
17 PF01209 Ubie_methyltran: ubiE 98.7 2E-08 4.4E-13 86.4 6.4 77 195-271 45-132 (233)
18 PF08242 Methyltransf_12: Meth 98.7 3.4E-09 7.5E-14 78.6 1.0 68 202-269 1-80 (99)
19 PLN02244 tocopherol O-methyltr 98.7 4.9E-08 1.1E-12 88.7 8.7 75 196-271 117-202 (340)
20 PRK08287 cobalt-precorrin-6Y C 98.7 5E-08 1.1E-12 81.0 7.9 77 189-266 24-108 (187)
21 smart00138 MeTrc Methyltransfe 98.7 1.2E-07 2.6E-12 83.1 10.5 85 186-271 89-219 (264)
22 PF13649 Methyltransf_25: Meth 98.7 7.3E-09 1.6E-13 77.2 2.4 72 201-272 1-85 (101)
23 PRK06202 hypothetical protein; 98.7 8.8E-08 1.9E-12 82.3 9.3 77 196-272 59-146 (232)
24 PRK11207 tellurite resistance 98.7 5.5E-08 1.2E-12 81.6 7.0 83 186-271 20-111 (197)
25 PTZ00098 phosphoethanolamine N 98.7 5.9E-08 1.3E-12 85.1 7.2 83 185-269 41-131 (263)
26 TIGR02021 BchM-ChlM magnesium 98.6 9.1E-08 2E-12 81.4 7.9 99 171-271 28-135 (219)
27 PLN03075 nicotianamine synthas 98.6 9.8E-08 2.1E-12 84.3 8.0 76 195-271 121-210 (296)
28 PLN02490 MPBQ/MSBQ methyltrans 98.6 9E-08 2E-12 86.5 7.7 75 197-271 113-194 (340)
29 smart00828 PKS_MT Methyltransf 98.6 6.6E-08 1.4E-12 82.4 6.1 72 199-270 1-82 (224)
30 PRK00216 ubiE ubiquinone/menaq 98.6 3.6E-07 7.8E-12 78.2 10.7 83 187-270 42-136 (239)
31 PRK08317 hypothetical protein; 98.6 1.6E-07 3.5E-12 80.2 8.4 83 188-271 11-103 (241)
32 PF08241 Methyltransf_11: Meth 98.6 7.7E-08 1.7E-12 69.9 5.5 67 202-269 1-74 (95)
33 PLN02336 phosphoethanolamine N 98.6 1.9E-07 4.1E-12 88.6 8.7 84 186-271 256-348 (475)
34 PRK11036 putative S-adenosyl-L 98.6 1.4E-07 3.1E-12 82.2 7.1 80 187-270 36-127 (255)
35 PRK05785 hypothetical protein; 98.6 1.7E-07 3.6E-12 80.4 7.2 72 197-271 51-126 (226)
36 TIGR02072 BioC biotin biosynth 98.6 2.3E-07 5E-12 79.3 7.9 74 197-270 34-113 (240)
37 PRK07580 Mg-protoporphyrin IX 98.6 2E-07 4.4E-12 79.6 7.4 74 195-271 61-143 (230)
38 PRK10258 biotin biosynthesis p 98.5 6.8E-07 1.5E-11 77.6 9.9 83 185-270 31-118 (251)
39 PF05175 MTS: Methyltransferas 98.5 2.5E-07 5.3E-12 75.8 6.0 66 197-262 31-105 (170)
40 TIGR01934 MenG_MenH_UbiE ubiqu 98.5 6.4E-07 1.4E-11 75.8 8.1 83 187-270 30-121 (223)
41 PRK15001 SAM-dependent 23S rib 98.4 5.5E-07 1.2E-11 82.5 7.7 78 186-264 218-307 (378)
42 TIGR02469 CbiT precorrin-6Y C5 98.4 1.1E-06 2.5E-11 67.1 8.0 78 188-266 11-99 (124)
43 TIGR00138 gidB 16S rRNA methyl 98.4 2.9E-07 6.4E-12 76.2 4.6 70 198-268 43-121 (181)
44 TIGR03533 L3_gln_methyl protei 98.4 5.3E-07 1.1E-11 79.9 6.5 66 197-262 121-196 (284)
45 PF05401 NodS: Nodulation prot 98.4 4.3E-07 9.3E-12 75.1 5.4 77 191-270 38-121 (201)
46 PRK15068 tRNA mo(5)U34 methylt 98.4 8.1E-07 1.7E-11 80.1 7.4 83 187-271 113-205 (322)
47 PLN02396 hexaprenyldihydroxybe 98.4 4.5E-07 9.7E-12 81.6 5.3 73 197-271 131-214 (322)
48 COG2890 HemK Methylase of poly 98.4 8.2E-07 1.8E-11 78.5 6.8 63 200-262 113-183 (280)
49 PRK11805 N5-glutamine S-adenos 98.4 5.7E-07 1.2E-11 80.6 5.8 64 199-262 135-208 (307)
50 PRK11873 arsM arsenite S-adeno 98.4 1.1E-06 2.3E-11 77.4 7.3 76 195-270 75-161 (272)
51 TIGR00477 tehB tellurite resis 98.4 1E-06 2.2E-11 73.7 6.8 82 187-271 21-110 (195)
52 TIGR00536 hemK_fam HemK family 98.3 1.4E-06 3.1E-11 77.1 7.7 64 199-262 116-189 (284)
53 PRK04457 spermidine synthase; 98.3 8.2E-07 1.8E-11 77.8 5.8 67 196-262 65-143 (262)
54 PRK00107 gidB 16S rRNA methylt 98.3 2.5E-06 5.4E-11 71.0 8.0 68 196-263 44-120 (187)
55 TIGR02081 metW methionine bios 98.3 1.9E-06 4.2E-11 71.9 7.1 73 196-270 12-90 (194)
56 PRK09489 rsmC 16S ribosomal RN 98.3 2.4E-06 5.3E-11 77.6 8.2 80 188-268 188-274 (342)
57 TIGR03534 RF_mod_PrmC protein- 98.3 2.1E-06 4.5E-11 74.2 7.4 65 197-261 87-160 (251)
58 COG2242 CobL Precorrin-6B meth 98.3 2.5E-06 5.5E-11 69.9 7.2 73 189-262 27-109 (187)
59 TIGR00091 tRNA (guanine-N(7)-) 98.3 1.4E-06 2.9E-11 72.9 5.8 66 197-262 16-94 (194)
60 PRK13944 protein-L-isoaspartat 98.3 2.9E-06 6.3E-11 71.6 7.6 82 187-269 63-156 (205)
61 PRK13942 protein-L-isoaspartat 98.3 4.5E-06 9.8E-11 70.8 8.7 82 186-268 66-158 (212)
62 PRK00121 trmB tRNA (guanine-N( 98.3 2.1E-06 4.6E-11 72.3 6.6 75 188-264 33-120 (202)
63 PLN02336 phosphoethanolamine N 98.3 1.9E-06 4.1E-11 81.7 7.0 84 185-271 26-119 (475)
64 KOG1540 Ubiquinone biosynthesi 98.2 3.2E-06 7E-11 72.2 7.2 76 197-272 100-194 (296)
65 TIGR00452 methyltransferase, p 98.2 3E-06 6.6E-11 75.9 7.5 83 187-271 112-204 (314)
66 COG4123 Predicted O-methyltran 98.2 1.5E-06 3.3E-11 74.7 5.3 75 188-262 35-122 (248)
67 PRK12335 tellurite resistance 98.2 1.8E-06 3.9E-11 76.6 5.9 81 188-271 112-200 (287)
68 PRK14121 tRNA (guanine-N(7)-)- 98.2 3.3E-06 7.2E-11 77.4 7.3 75 187-262 113-199 (390)
69 TIGR00080 pimt protein-L-isoas 98.2 5.7E-06 1.2E-10 70.3 8.1 80 187-267 68-158 (215)
70 PRK14966 unknown domain/N5-glu 98.2 3.8E-06 8.3E-11 77.5 7.3 67 196-262 250-326 (423)
71 smart00650 rADc Ribosomal RNA 98.2 5.3E-06 1.2E-10 67.7 7.4 77 186-266 3-87 (169)
72 PRK01544 bifunctional N5-gluta 98.2 2.2E-06 4.8E-11 81.8 5.9 64 198-261 139-212 (506)
73 PRK09328 N5-glutamine S-adenos 98.2 5.6E-06 1.2E-10 72.7 7.9 68 195-262 106-182 (275)
74 PLN02585 magnesium protoporphy 98.2 2.5E-06 5.5E-11 76.5 5.4 72 197-271 144-228 (315)
75 TIGR00537 hemK_rel_arch HemK-r 98.2 5.7E-06 1.2E-10 68.1 7.0 72 197-270 19-97 (179)
76 PRK11088 rrmA 23S rRNA methylt 98.2 7.6E-06 1.6E-10 72.0 8.0 66 197-262 85-158 (272)
77 TIGR03704 PrmC_rel_meth putati 98.2 7.1E-06 1.5E-10 71.4 7.7 66 197-262 86-160 (251)
78 TIGR03438 probable methyltrans 98.1 4.4E-06 9.6E-11 74.6 6.5 76 197-272 63-155 (301)
79 PF07021 MetW: Methionine bios 98.1 4.5E-06 9.7E-11 68.9 5.5 71 196-268 12-88 (193)
80 PRK07402 precorrin-6B methylas 98.1 8.6E-06 1.9E-10 68.1 7.2 73 188-261 32-115 (196)
81 PF13659 Methyltransf_26: Meth 98.1 5.4E-06 1.2E-10 63.0 4.8 68 199-267 2-82 (117)
82 PF13489 Methyltransf_23: Meth 98.1 1.8E-05 3.8E-10 63.2 8.0 70 195-270 20-93 (161)
83 PRK14896 ksgA 16S ribosomal RN 98.1 1.4E-05 3.1E-10 69.8 8.0 80 185-268 18-103 (258)
84 COG2230 Cfa Cyclopropane fatty 98.1 1.3E-05 2.7E-10 70.3 7.5 85 185-271 61-153 (283)
85 PRK00274 ksgA 16S ribosomal RN 98.1 1.2E-05 2.7E-10 70.7 7.4 63 186-251 32-98 (272)
86 COG2813 RsmC 16S RNA G1207 met 98.0 2.2E-05 4.8E-10 69.1 8.4 80 186-266 148-235 (300)
87 PHA03411 putative methyltransf 98.0 1.4E-05 3E-10 69.9 7.0 71 197-267 64-138 (279)
88 COG2227 UbiG 2-polyprenyl-3-me 98.0 5.5E-06 1.2E-10 70.5 3.7 74 197-272 59-141 (243)
89 TIGR00755 ksgA dimethyladenosi 98.0 1E-05 2.2E-10 70.5 5.4 82 185-269 18-107 (253)
90 PRK11188 rrmJ 23S rRNA methylt 98.0 4.8E-05 1E-09 64.4 8.9 77 187-267 41-129 (209)
91 PRK00312 pcm protein-L-isoaspa 97.9 4.2E-05 9.1E-10 64.7 8.3 79 187-268 69-157 (212)
92 PLN02366 spermidine synthase 97.9 1.7E-05 3.7E-10 70.9 6.2 67 195-261 89-171 (308)
93 PRK11705 cyclopropane fatty ac 97.9 3E-05 6.4E-10 71.6 7.7 82 186-270 157-243 (383)
94 PF02353 CMAS: Mycolic acid cy 97.9 2E-05 4.2E-10 69.5 6.1 82 185-269 51-141 (273)
95 TIGR03840 TMPT_Se_Te thiopurin 97.9 2.8E-05 6.2E-10 66.0 6.8 74 196-271 33-129 (213)
96 PRK04266 fibrillarin; Provisio 97.9 7.9E-05 1.7E-09 63.8 9.3 69 192-261 68-147 (226)
97 PRK00811 spermidine synthase; 97.8 2.3E-05 5.1E-10 69.4 5.3 67 196-262 75-157 (283)
98 PRK14968 putative methyltransf 97.8 5.3E-05 1.1E-09 62.3 6.9 68 196-265 22-100 (188)
99 cd02440 AdoMet_MTases S-adenos 97.8 5.2E-05 1.1E-09 54.7 6.0 68 200-268 1-79 (107)
100 PF03848 TehB: Tellurite resis 97.8 5E-05 1.1E-09 63.2 6.4 82 187-271 21-110 (192)
101 KOG1270 Methyltransferases [Co 97.8 9.4E-06 2E-10 69.7 2.0 72 198-271 90-174 (282)
102 PHA03412 putative methyltransf 97.8 5.3E-05 1.1E-09 64.9 6.4 65 198-262 50-121 (241)
103 PRK14967 putative methyltransf 97.8 5E-05 1.1E-09 64.8 6.4 67 195-262 34-108 (223)
104 PRK13943 protein-L-isoaspartat 97.8 6.5E-05 1.4E-09 67.7 7.1 80 187-267 71-161 (322)
105 PRK00377 cbiT cobalt-precorrin 97.8 7.9E-05 1.7E-09 62.4 7.2 72 190-262 34-118 (198)
106 PRK01581 speE spermidine synth 97.8 4.5E-05 9.8E-10 69.2 6.0 68 195-262 148-233 (374)
107 PTZ00338 dimethyladenosine tra 97.8 9.5E-05 2.1E-09 65.8 7.7 81 185-269 25-114 (294)
108 PRK04148 hypothetical protein; 97.7 0.00016 3.4E-09 56.6 7.5 72 188-263 8-85 (134)
109 PLN02672 methionine S-methyltr 97.7 8.1E-05 1.7E-09 76.3 6.9 64 198-261 119-209 (1082)
110 KOG2904 Predicted methyltransf 97.7 0.00011 2.5E-09 63.5 6.7 67 195-261 146-228 (328)
111 KOG1271 Methyltransferases [Ge 97.7 9.5E-05 2.1E-09 60.3 5.7 65 197-261 67-142 (227)
112 PF02390 Methyltransf_4: Putat 97.7 6.8E-05 1.5E-09 62.8 5.0 53 199-251 19-78 (195)
113 PRK05134 bifunctional 3-demeth 97.7 0.00014 3E-09 62.3 7.0 73 196-270 47-129 (233)
114 PRK00050 16S rRNA m(4)C1402 me 97.7 0.00012 2.6E-09 65.1 6.7 66 185-251 8-79 (296)
115 TIGR00438 rrmJ cell division p 97.6 0.00025 5.3E-09 58.8 8.1 72 188-263 23-106 (188)
116 PRK13255 thiopurine S-methyltr 97.6 0.00017 3.6E-09 61.5 7.0 75 195-271 35-132 (218)
117 TIGR01983 UbiG ubiquinone bios 97.6 0.0001 2.2E-09 62.6 5.4 72 197-270 45-127 (224)
118 PF08123 DOT1: Histone methyla 97.6 8.7E-05 1.9E-09 62.5 4.7 80 187-267 33-134 (205)
119 PRK03612 spermidine synthase; 97.6 0.00013 2.8E-09 70.1 6.5 66 196-262 296-380 (521)
120 PRK10909 rsmD 16S rRNA m(2)G96 97.5 0.00018 4E-09 60.3 5.8 64 197-261 53-127 (199)
121 KOG1541 Predicted protein carb 97.5 9.4E-05 2E-09 62.1 3.8 75 187-265 39-122 (270)
122 COG2263 Predicted RNA methylas 97.5 0.00026 5.7E-09 58.2 6.3 64 197-261 45-114 (198)
123 PRK13168 rumA 23S rRNA m(5)U19 97.5 0.00024 5.1E-09 67.0 6.8 73 186-261 287-373 (443)
124 PF01135 PCMT: Protein-L-isoas 97.5 0.00026 5.6E-09 59.9 6.2 81 186-267 62-153 (209)
125 COG0421 SpeE Spermidine syntha 97.5 0.00023 4.9E-09 62.9 5.7 67 195-261 74-155 (282)
126 TIGR00406 prmA ribosomal prote 97.5 0.00024 5.3E-09 63.0 6.0 66 197-263 159-233 (288)
127 smart00550 Zalpha Z-DNA-bindin 97.4 0.00038 8.2E-09 48.0 5.6 60 43-107 5-66 (68)
128 PRK03522 rumB 23S rRNA methylu 97.4 0.00032 6.9E-09 63.1 6.3 64 197-262 173-247 (315)
129 TIGR00417 speE spermidine synt 97.4 0.0003 6.4E-09 61.9 5.8 69 196-264 71-154 (270)
130 COG2264 PrmA Ribosomal protein 97.4 0.00029 6.2E-09 62.4 5.5 63 173-239 141-204 (300)
131 PLN02823 spermine synthase 97.4 0.00031 6.7E-09 63.6 5.6 67 196-262 102-183 (336)
132 PRK11727 23S rRNA mA1618 methy 97.3 0.0004 8.7E-09 62.4 6.0 66 197-262 114-196 (321)
133 COG2518 Pcm Protein-L-isoaspar 97.3 0.001 2.2E-08 55.9 7.9 74 187-263 63-146 (209)
134 KOG2899 Predicted methyltransf 97.3 0.00045 9.7E-09 58.9 5.8 53 186-238 46-100 (288)
135 smart00346 HTH_ICLR helix_turn 97.3 0.00052 1.1E-08 49.7 5.3 58 46-109 7-65 (91)
136 PLN02781 Probable caffeoyl-CoA 97.3 0.0006 1.3E-08 58.7 6.4 68 195-262 66-151 (234)
137 KOG0820 Ribosomal RNA adenine 97.3 0.00084 1.8E-08 58.2 6.9 73 185-260 47-128 (315)
138 PRK10141 DNA-binding transcrip 97.3 0.00049 1.1E-08 52.6 4.8 69 36-108 8-76 (117)
139 PF12840 HTH_20: Helix-turn-he 97.3 0.00038 8.3E-09 46.8 3.8 54 38-95 4-57 (61)
140 PRK14902 16S rRNA methyltransf 97.3 0.00065 1.4E-08 64.0 6.7 71 190-261 244-326 (444)
141 TIGR00478 tly hemolysin TlyA f 97.2 0.0016 3.4E-08 55.9 8.3 79 185-264 63-152 (228)
142 PF06325 PrmA: Ribosomal prote 97.2 0.0004 8.6E-09 61.8 4.8 82 173-261 140-231 (295)
143 COG0220 Predicted S-adenosylme 97.2 0.00038 8.3E-09 59.5 4.4 53 199-251 50-109 (227)
144 TIGR01177 conserved hypothetic 97.2 0.001 2.2E-08 60.3 7.4 72 188-262 174-255 (329)
145 PRK00517 prmA ribosomal protei 97.2 0.00046 9.9E-09 60.0 4.7 42 196-238 118-160 (250)
146 PTZ00146 fibrillarin; Provisio 97.2 0.0017 3.6E-08 57.5 7.8 70 195-264 130-211 (293)
147 PF09339 HTH_IclR: IclR helix- 97.2 0.00027 5.9E-09 45.9 2.1 44 47-94 6-50 (52)
148 PRK10901 16S rRNA methyltransf 97.1 0.0014 3.1E-08 61.5 7.3 72 189-261 237-319 (427)
149 PF00398 RrnaAD: Ribosomal RNA 97.1 0.0013 2.8E-08 57.6 6.6 68 185-255 19-92 (262)
150 PF01022 HTH_5: Bacterial regu 97.1 0.0006 1.3E-08 43.3 3.1 44 45-93 3-46 (47)
151 PRK13256 thiopurine S-methyltr 97.1 0.0023 5E-08 54.7 7.6 74 196-271 42-140 (226)
152 PF09445 Methyltransf_15: RNA 97.0 0.00038 8.2E-09 56.4 2.2 62 199-262 1-76 (163)
153 PF01978 TrmB: Sugar-specific 97.0 0.00055 1.2E-08 47.0 2.5 56 45-105 9-64 (68)
154 PF08003 Methyltransf_9: Prote 97.0 0.0036 7.9E-08 55.4 8.2 83 186-271 105-198 (315)
155 KOG1500 Protein arginine N-met 97.0 0.0026 5.7E-08 56.7 7.1 72 187-260 168-248 (517)
156 KOG3010 Methyltransferase [Gen 97.0 0.001 2.2E-08 56.7 4.3 72 198-271 34-116 (261)
157 KOG3420 Predicted RNA methylas 96.9 0.0011 2.5E-08 52.2 3.9 71 188-261 40-120 (185)
158 PRK00536 speE spermidine synth 96.9 0.0019 4E-08 56.5 5.7 64 195-262 70-146 (262)
159 PF10294 Methyltransf_16: Puta 96.9 0.0014 3.1E-08 53.7 4.7 74 195-268 43-132 (173)
160 TIGR00479 rumA 23S rRNA (uraci 96.9 0.001 2.2E-08 62.4 4.3 71 188-261 284-368 (431)
161 TIGR01444 fkbM_fam methyltrans 96.9 0.0016 3.4E-08 51.2 4.5 52 200-251 1-59 (143)
162 PF01564 Spermine_synth: Sperm 96.9 0.0011 2.4E-08 57.5 3.9 67 195-261 74-156 (246)
163 PF01739 CheR: CheR methyltran 96.8 0.0038 8.1E-08 52.3 6.9 75 197-271 31-152 (196)
164 PF13412 HTH_24: Winged helix- 96.8 0.0021 4.6E-08 40.8 4.2 45 45-93 4-48 (48)
165 COG0030 KsgA Dimethyladenosine 96.8 0.0069 1.5E-07 52.7 8.7 68 185-255 19-92 (259)
166 PRK15090 DNA-binding transcrip 96.8 0.0023 4.9E-08 55.9 5.5 58 47-110 17-74 (257)
167 TIGR02085 meth_trns_rumB 23S r 96.8 0.0015 3.2E-08 60.3 4.4 63 197-261 233-306 (374)
168 KOG3115 Methyltransferase-like 96.8 0.00074 1.6E-08 56.1 2.0 58 197-254 60-131 (249)
169 PF14947 HTH_45: Winged helix- 96.8 0.0016 3.4E-08 46.0 3.4 57 48-113 10-66 (77)
170 PHA00738 putative HTH transcri 96.7 0.0028 6E-08 47.3 4.7 62 44-109 12-73 (108)
171 PF05185 PRMT5: PRMT5 arginine 96.7 0.0038 8.3E-08 58.8 6.8 96 158-260 151-263 (448)
172 PF13679 Methyltransf_32: Meth 96.7 0.0018 3.9E-08 51.2 3.8 70 195-264 23-108 (141)
173 PRK14904 16S rRNA methyltransf 96.7 0.0049 1.1E-07 58.2 7.2 67 195-261 248-324 (445)
174 PF01596 Methyltransf_3: O-met 96.7 0.0012 2.6E-08 55.7 2.8 68 195-262 43-128 (205)
175 PRK11760 putative 23S rRNA C24 96.7 0.006 1.3E-07 55.0 7.3 68 195-264 209-279 (357)
176 PF05148 Methyltransf_8: Hypot 96.7 0.011 2.4E-07 49.6 8.3 113 135-265 13-132 (219)
177 PRK01544 bifunctional N5-gluta 96.7 0.0025 5.3E-08 61.1 5.0 65 197-261 347-423 (506)
178 PF12147 Methyltransf_20: Puta 96.7 0.0059 1.3E-07 53.7 6.8 75 196-270 134-224 (311)
179 PF04816 DUF633: Family of unk 96.6 0.0022 4.8E-08 54.1 4.1 63 201-263 1-74 (205)
180 KOG2361 Predicted methyltransf 96.6 0.0031 6.8E-08 53.8 4.9 73 199-271 73-160 (264)
181 PF05724 TPMT: Thiopurine S-me 96.6 0.0093 2E-07 50.8 7.7 74 195-270 35-131 (218)
182 PRK11569 transcriptional repre 96.6 0.0041 8.8E-08 54.8 5.7 58 47-110 31-89 (274)
183 PF13463 HTH_27: Winged helix 96.6 0.004 8.8E-08 42.4 4.3 59 47-109 6-68 (68)
184 TIGR00095 RNA methyltransferas 96.6 0.0033 7.2E-08 52.3 4.5 54 197-251 49-110 (189)
185 PF13601 HTH_34: Winged helix 96.5 0.0031 6.6E-08 44.9 3.7 64 45-112 1-68 (80)
186 PRK10163 DNA-binding transcrip 96.5 0.0049 1.1E-07 54.2 5.7 58 47-110 28-86 (271)
187 PF06080 DUF938: Protein of un 96.5 0.0038 8.2E-08 52.3 4.6 75 195-269 22-116 (204)
188 COG1414 IclR Transcriptional r 96.5 0.0051 1.1E-07 53.4 5.4 58 47-110 7-65 (246)
189 KOG1499 Protein arginine N-met 96.5 0.0042 9.2E-08 55.7 4.8 64 197-261 60-133 (346)
190 PLN02476 O-methyltransferase 96.4 0.0038 8.2E-08 55.0 4.4 57 195-251 116-181 (278)
191 PF01170 UPF0020: Putative RNA 96.4 0.007 1.5E-07 49.9 5.7 74 187-261 19-112 (179)
192 PRK11783 rlmL 23S rRNA m(2)G24 96.4 0.0041 8.8E-08 62.0 5.0 65 196-261 537-614 (702)
193 PRK09834 DNA-binding transcrip 96.4 0.0062 1.3E-07 53.3 5.6 62 45-112 12-74 (263)
194 TIGR02337 HpaR homoprotocatech 96.4 0.016 3.4E-07 44.2 7.2 68 43-114 27-97 (118)
195 TIGR02431 pcaR_pcaU beta-ketoa 96.4 0.0058 1.3E-07 53.0 5.3 58 47-112 12-70 (248)
196 PRK15128 23S rRNA m(5)C1962 me 96.4 0.0043 9.4E-08 57.6 4.6 66 196-262 219-300 (396)
197 TIGR00563 rsmB ribosomal RNA s 96.4 0.011 2.4E-07 55.5 7.2 73 188-261 230-315 (426)
198 PRK14901 16S rRNA methyltransf 96.3 0.0089 1.9E-07 56.2 6.5 71 190-261 246-331 (434)
199 COG2519 GCD14 tRNA(1-methylade 96.3 0.017 3.7E-07 49.8 7.3 85 176-261 70-169 (256)
200 PF07091 FmrO: Ribosomal RNA m 96.3 0.017 3.8E-07 49.8 7.3 72 196-267 104-183 (251)
201 TIGR02143 trmA_only tRNA (urac 96.3 0.0048 1E-07 56.4 4.2 51 199-251 199-256 (353)
202 PRK14903 16S rRNA methyltransf 96.2 0.011 2.5E-07 55.4 6.4 67 195-261 235-313 (431)
203 smart00347 HTH_MARR helix_turn 96.2 0.014 2.9E-07 42.6 5.6 65 45-113 11-78 (101)
204 PF04703 FaeA: FaeA-like prote 96.1 0.014 3E-07 39.3 4.7 43 48-94 4-47 (62)
205 COG1352 CheR Methylase of chem 96.1 0.052 1.1E-06 47.7 9.5 74 197-270 96-217 (268)
206 COG4976 Predicted methyltransf 96.0 0.0059 1.3E-07 51.8 3.2 68 169-239 94-166 (287)
207 COG4262 Predicted spermidine s 96.0 0.011 2.4E-07 53.5 5.0 56 195-251 287-357 (508)
208 COG2345 Predicted transcriptio 96.0 0.013 2.8E-07 49.6 5.2 63 47-113 14-81 (218)
209 PRK03902 manganese transport t 96.0 0.018 3.9E-07 45.5 5.7 55 52-113 16-70 (142)
210 PF09012 FeoC: FeoC like trans 96.0 0.0089 1.9E-07 41.2 3.5 44 48-95 4-47 (69)
211 TIGR02702 SufR_cyano iron-sulf 95.9 0.016 3.5E-07 48.7 5.6 64 46-113 3-71 (203)
212 smart00419 HTH_CRP helix_turn_ 95.9 0.016 3.4E-07 36.3 4.2 41 58-106 8-48 (48)
213 TIGR00446 nop2p NOL1/NOP2/sun 95.9 0.019 4E-07 50.4 6.1 67 195-261 69-146 (264)
214 PF01795 Methyltransf_5: MraW 95.9 0.021 4.5E-07 51.0 6.4 66 185-251 9-80 (310)
215 PRK05031 tRNA (uracil-5-)-meth 95.9 0.0075 1.6E-07 55.3 3.7 51 199-251 208-265 (362)
216 PF02082 Rrf2: Transcriptional 95.8 0.013 2.8E-07 41.9 3.9 46 58-108 25-70 (83)
217 smart00418 HTH_ARSR helix_turn 95.8 0.029 6.4E-07 37.0 5.5 54 49-107 2-55 (66)
218 cd00092 HTH_CRP helix_turn_hel 95.8 0.02 4.4E-07 38.6 4.6 44 57-107 24-67 (67)
219 PF07757 AdoMet_MTase: Predict 95.8 0.012 2.6E-07 44.0 3.5 44 183-229 45-88 (112)
220 PF12802 MarR_2: MarR family; 95.8 0.016 3.5E-07 38.5 4.0 47 45-95 6-54 (62)
221 TIGR00006 S-adenosyl-methyltra 95.8 0.029 6.2E-07 50.1 6.6 66 185-251 9-80 (305)
222 PRK10857 DNA-binding transcrip 95.7 0.023 5.1E-07 46.1 5.4 62 39-108 9-70 (164)
223 COG4742 Predicted transcriptio 95.7 0.027 6E-07 48.9 6.0 68 39-115 8-75 (260)
224 PF09243 Rsm22: Mitochondrial 95.7 0.024 5.2E-07 50.0 5.8 74 197-270 33-117 (274)
225 PRK10611 chemotaxis methyltran 95.6 0.021 4.6E-07 50.6 5.2 75 197-271 115-239 (287)
226 PF01728 FtsJ: FtsJ-like methy 95.6 0.0083 1.8E-07 49.2 2.5 63 185-251 9-74 (181)
227 PLN02589 caffeoyl-CoA O-methyl 95.6 0.012 2.5E-07 51.2 3.5 57 195-251 77-142 (247)
228 PRK11050 manganese transport r 95.5 0.12 2.7E-06 41.3 9.0 58 49-113 42-99 (152)
229 COG4122 Predicted O-methyltran 95.5 0.019 4.2E-07 48.7 4.5 67 195-261 57-138 (219)
230 cd00090 HTH_ARSR Arsenical Res 95.5 0.036 7.8E-07 37.7 5.1 57 46-107 9-65 (78)
231 COG4190 Predicted transcriptio 95.5 0.024 5.2E-07 43.7 4.3 58 34-95 54-111 (144)
232 PF02527 GidB: rRNA small subu 95.5 0.03 6.5E-07 46.4 5.3 65 200-264 51-124 (184)
233 COG4189 Predicted transcriptio 95.5 0.028 6.1E-07 47.6 5.1 55 37-95 16-70 (308)
234 PF01638 HxlR: HxlR-like helix 95.4 0.028 6.1E-07 40.8 4.6 61 48-113 9-73 (90)
235 PF01047 MarR: MarR family; I 95.4 0.015 3.3E-07 38.4 2.9 47 45-95 4-50 (59)
236 TIGR02010 IscR iron-sulfur clu 95.4 0.036 7.7E-07 43.5 5.4 47 57-108 24-70 (135)
237 TIGR01884 cas_HTH CRISPR locus 95.4 0.03 6.5E-07 47.0 5.3 60 45-109 144-203 (203)
238 COG3963 Phospholipid N-methylt 95.3 0.048 1E-06 44.2 5.8 86 177-263 29-125 (194)
239 PF08220 HTH_DeoR: DeoR-like h 95.3 0.037 8E-07 36.6 4.4 44 48-95 4-47 (57)
240 smart00420 HTH_DEOR helix_turn 95.3 0.046 1E-06 34.7 4.7 43 49-95 5-47 (53)
241 PF08704 GCD14: tRNA methyltra 95.2 0.088 1.9E-06 45.7 7.5 75 186-261 30-119 (247)
242 PRK06266 transcription initiat 95.0 0.067 1.5E-06 44.1 6.1 45 46-94 24-68 (178)
243 PRK11512 DNA-binding transcrip 95.0 0.058 1.3E-06 42.6 5.6 65 45-113 41-108 (144)
244 PRK11783 rlmL 23S rRNA m(2)G24 95.0 0.072 1.6E-06 53.2 7.3 78 184-262 177-310 (702)
245 PF04672 Methyltransf_19: S-ad 95.0 0.11 2.3E-06 45.5 7.5 76 197-272 68-167 (267)
246 COG2384 Predicted SAM-dependen 95.0 0.04 8.7E-07 46.6 4.6 66 197-262 16-92 (226)
247 COG0357 GidB Predicted S-adeno 95.0 0.068 1.5E-06 45.3 6.1 66 198-263 68-143 (215)
248 KOG3045 Predicted RNA methylas 95.0 0.09 1.9E-06 45.6 6.8 94 158-264 137-237 (325)
249 PF02475 Met_10: Met-10+ like- 95.0 0.039 8.4E-07 46.3 4.6 68 195-262 99-176 (200)
250 PRK04338 N(2),N(2)-dimethylgua 94.9 0.029 6.4E-07 51.8 4.1 64 198-261 58-131 (382)
251 COG3355 Predicted transcriptio 94.9 0.045 9.8E-07 42.2 4.4 47 45-95 28-75 (126)
252 COG1321 TroR Mn-dependent tran 94.9 0.069 1.5E-06 42.9 5.6 57 50-113 16-72 (154)
253 TIGR00738 rrf2_super rrf2 fami 94.9 0.07 1.5E-06 41.3 5.6 48 57-109 24-71 (132)
254 KOG1661 Protein-L-isoaspartate 94.9 0.047 1E-06 45.8 4.7 69 194-262 79-169 (237)
255 smart00344 HTH_ASNC helix_turn 94.8 0.049 1.1E-06 40.6 4.4 46 45-94 4-49 (108)
256 TIGR01889 Staph_reg_Sar staphy 94.8 0.084 1.8E-06 39.7 5.7 67 43-113 24-97 (109)
257 PF03141 Methyltransf_29: Puta 94.6 0.031 6.7E-07 52.7 3.4 74 197-271 117-197 (506)
258 TIGR02944 suf_reg_Xantho FeS a 94.6 0.055 1.2E-06 42.0 4.4 46 57-107 24-69 (130)
259 KOG2730 Methylase [General fun 94.4 0.033 7.1E-07 47.1 2.8 53 197-251 94-154 (263)
260 PF07381 DUF1495: Winged helix 94.4 0.1 2.2E-06 37.9 5.1 67 43-113 8-87 (90)
261 TIGR00122 birA_repr_reg BirA b 94.4 0.081 1.8E-06 36.2 4.4 54 46-107 2-55 (69)
262 PRK11920 rirA iron-responsive 94.4 0.11 2.5E-06 41.6 5.9 61 39-108 9-69 (153)
263 COG4076 Predicted RNA methylas 94.3 0.081 1.8E-06 43.7 4.8 61 199-261 34-102 (252)
264 KOG3191 Predicted N6-DNA-methy 94.3 0.11 2.3E-06 42.8 5.5 65 198-262 44-117 (209)
265 TIGR00373 conserved hypothetic 94.3 0.067 1.4E-06 43.2 4.3 44 47-94 17-60 (158)
266 COG1959 Predicted transcriptio 94.3 0.069 1.5E-06 42.7 4.3 47 58-109 25-71 (150)
267 COG0275 Predicted S-adenosylme 94.2 0.12 2.7E-06 45.7 6.1 66 185-251 12-84 (314)
268 PF10007 DUF2250: Uncharacteri 94.2 0.15 3.3E-06 37.2 5.5 47 45-95 8-54 (92)
269 PF03291 Pox_MCEL: mRNA cappin 94.2 0.13 2.9E-06 46.5 6.5 72 197-269 62-159 (331)
270 PF06163 DUF977: Bacterial pro 94.2 0.13 2.8E-06 39.4 5.3 49 42-94 10-58 (127)
271 PF08461 HTH_12: Ribonuclease 94.1 0.13 2.8E-06 35.1 4.8 59 49-110 3-63 (66)
272 KOG1331 Predicted methyltransf 94.0 0.037 7.9E-07 48.5 2.3 73 195-271 43-119 (293)
273 PF04967 HTH_10: HTH DNA bindi 93.8 0.078 1.7E-06 34.5 3.0 43 37-86 5-47 (53)
274 PF01726 LexA_DNA_bind: LexA D 93.8 0.11 2.4E-06 35.3 4.0 38 55-95 21-59 (65)
275 COG3432 Predicted transcriptio 93.7 0.065 1.4E-06 39.2 2.9 62 49-114 20-83 (95)
276 PRK14165 winged helix-turn-hel 93.7 0.15 3.2E-06 43.3 5.5 59 51-113 14-72 (217)
277 PF07789 DUF1627: Protein of u 93.6 0.1 2.2E-06 41.1 3.8 46 55-106 3-50 (155)
278 COG0293 FtsJ 23S rRNA methylas 93.5 0.24 5.2E-06 41.6 6.2 69 179-251 27-96 (205)
279 PRK15431 ferrous iron transpor 93.3 0.19 4E-06 35.4 4.4 43 49-95 7-49 (78)
280 PRK11014 transcriptional repre 93.3 0.15 3.4E-06 40.1 4.6 61 39-107 9-69 (141)
281 smart00529 HTH_DTXR Helix-turn 93.2 0.18 3.9E-06 36.6 4.7 46 61-113 2-47 (96)
282 KOG4300 Predicted methyltransf 93.1 0.21 4.7E-06 41.9 5.4 73 197-270 76-160 (252)
283 PF01325 Fe_dep_repress: Iron 92.9 0.2 4.4E-06 33.4 4.0 38 54-95 18-55 (60)
284 TIGR03439 methyl_EasF probable 92.8 0.21 4.5E-06 45.1 5.3 84 186-272 68-174 (319)
285 PRK04172 pheS phenylalanyl-tRN 92.7 0.17 3.7E-06 48.4 4.9 69 44-117 6-74 (489)
286 PHA02943 hypothetical protein; 92.7 0.26 5.5E-06 39.1 5.0 43 48-95 15-57 (165)
287 PRK06474 hypothetical protein; 92.7 0.21 4.5E-06 41.2 4.7 69 38-110 5-80 (178)
288 COG1378 Predicted transcriptio 92.6 0.25 5.5E-06 42.8 5.4 62 46-112 18-79 (247)
289 PRK11179 DNA-binding transcrip 92.5 0.22 4.7E-06 39.9 4.6 47 44-94 9-55 (153)
290 PRK03573 transcriptional regul 92.5 0.36 7.8E-06 37.9 5.8 61 49-113 36-100 (144)
291 COG5459 Predicted rRNA methyla 92.4 0.052 1.1E-06 49.0 0.8 70 197-267 113-194 (484)
292 PRK11169 leucine-responsive tr 92.4 0.21 4.5E-06 40.5 4.3 48 43-94 13-60 (164)
293 cd07377 WHTH_GntR Winged helix 92.2 0.44 9.6E-06 31.6 5.1 32 59-94 26-57 (66)
294 PF05219 DREV: DREV methyltran 92.2 0.45 9.7E-06 41.4 6.3 71 197-270 94-166 (265)
295 cd07153 Fur_like Ferric uptake 92.1 0.38 8.2E-06 36.3 5.3 61 46-106 3-66 (116)
296 smart00345 HTH_GNTR helix_turn 92.1 0.25 5.3E-06 32.1 3.7 34 58-95 19-53 (60)
297 TIGR01610 phage_O_Nterm phage 92.0 0.48 1E-05 34.7 5.5 44 57-106 46-89 (95)
298 PRK13777 transcriptional regul 91.9 1.7 3.8E-05 35.9 9.4 63 47-113 48-113 (185)
299 COG0116 Predicted N6-adenine-s 91.9 0.47 1E-05 43.6 6.4 76 185-261 180-305 (381)
300 PF02002 TFIIE_alpha: TFIIE al 91.7 0.15 3.2E-06 38.0 2.5 42 49-94 18-59 (105)
301 PF02384 N6_Mtase: N-6 DNA Met 91.6 0.4 8.7E-06 42.8 5.7 68 195-262 44-132 (311)
302 COG1522 Lrp Transcriptional re 91.5 0.33 7.1E-06 38.5 4.5 47 44-94 8-54 (154)
303 PF14394 DUF4423: Domain of un 91.4 0.43 9.3E-06 39.0 5.2 44 59-109 40-85 (171)
304 PLN02668 indole-3-acetate carb 91.4 0.58 1.3E-05 43.2 6.6 73 197-269 63-176 (386)
305 COG1846 MarR Transcriptional r 91.2 0.52 1.1E-05 35.2 5.2 70 42-115 20-92 (126)
306 PF00325 Crp: Bacterial regula 91.2 0.3 6.4E-06 28.3 2.8 31 58-92 2-32 (32)
307 PRK05638 threonine synthase; V 91.1 0.42 9.1E-06 45.1 5.5 63 46-113 373-438 (442)
308 PF03602 Cons_hypoth95: Conser 90.8 0.2 4.3E-06 41.4 2.7 64 197-261 42-120 (183)
309 PF08279 HTH_11: HTH domain; 90.7 0.38 8.3E-06 31.1 3.5 39 48-90 4-43 (55)
310 KOG2187 tRNA uracil-5-methyltr 90.7 0.25 5.4E-06 46.8 3.5 55 195-251 381-445 (534)
311 PRK10870 transcriptional repre 90.6 0.96 2.1E-05 37.1 6.6 65 46-114 57-126 (176)
312 PRK10742 putative methyltransf 90.2 0.74 1.6E-05 39.9 5.7 73 186-261 76-170 (250)
313 TIGR00308 TRM1 tRNA(guanine-26 90.1 0.47 1E-05 43.8 4.7 63 199-261 46-120 (374)
314 PF05958 tRNA_U5-meth_tr: tRNA 90.0 0.29 6.2E-06 44.8 3.3 58 187-248 188-252 (352)
315 PF08221 HTH_9: RNA polymerase 90.0 0.47 1E-05 31.9 3.5 42 49-94 18-59 (62)
316 PLN02853 Probable phenylalanyl 90.0 0.51 1.1E-05 44.8 4.9 71 43-118 2-73 (492)
317 COG5631 Predicted transcriptio 89.9 1.1 2.3E-05 36.0 5.8 78 32-112 64-149 (199)
318 PF13404 HTH_AsnC-type: AsnC-t 89.8 0.64 1.4E-05 28.6 3.7 37 45-85 4-40 (42)
319 PF04182 B-block_TFIIIC: B-blo 89.6 0.48 1E-05 33.1 3.4 46 45-94 3-50 (75)
320 COG2265 TrmA SAM-dependent met 89.4 0.61 1.3E-05 43.8 5.0 55 195-251 291-352 (432)
321 KOG1975 mRNA cap methyltransfe 89.2 0.72 1.6E-05 41.4 5.0 91 170-270 99-211 (389)
322 COG3897 Predicted methyltransf 89.0 1.5 3.2E-05 36.7 6.3 76 192-269 74-156 (218)
323 PF05891 Methyltransf_PK: AdoM 88.9 0.37 7.9E-06 40.8 2.8 75 197-272 55-139 (218)
324 PRK13509 transcriptional repre 88.8 0.71 1.5E-05 40.1 4.7 46 46-95 7-52 (251)
325 COG1733 Predicted transcriptio 88.7 1.1 2.3E-05 34.4 5.1 76 24-113 12-91 (120)
326 TIGR02787 codY_Gpos GTP-sensin 88.7 2.8 6.1E-05 36.0 8.0 63 26-94 167-230 (251)
327 PF13545 HTH_Crp_2: Crp-like h 88.7 0.7 1.5E-05 31.8 3.8 42 58-107 28-69 (76)
328 COG2512 Predicted membrane-ass 88.3 0.62 1.3E-05 40.7 4.0 47 46-96 197-244 (258)
329 PF03492 Methyltransf_7: SAM d 88.3 1.1 2.4E-05 40.7 5.7 75 195-269 14-121 (334)
330 TIGR00498 lexA SOS regulatory 88.3 0.94 2E-05 37.7 5.0 46 45-94 7-58 (199)
331 COG1497 Predicted transcriptio 88.3 0.73 1.6E-05 39.5 4.2 95 49-151 15-112 (260)
332 COG4565 CitB Response regulato 87.3 0.92 2E-05 38.3 4.2 42 49-94 163-205 (224)
333 PF03444 HrcA_DNA-bdg: Winged 87.0 2.6 5.6E-05 29.7 5.7 52 57-113 22-73 (78)
334 COG1675 TFA1 Transcription ini 86.6 1.1 2.5E-05 36.6 4.3 44 47-94 21-64 (176)
335 PRK10906 DNA-binding transcrip 86.5 0.94 2E-05 39.4 4.1 47 45-95 6-52 (252)
336 TIGR02987 met_A_Alw26 type II 86.4 0.56 1.2E-05 45.2 2.8 55 197-251 31-100 (524)
337 PF02295 z-alpha: Adenosine de 86.3 0.59 1.3E-05 31.9 2.1 60 45-107 5-64 (66)
338 PRK10434 srlR DNA-bindng trans 86.2 0.96 2.1E-05 39.4 4.0 47 45-95 6-52 (256)
339 smart00531 TFIIE Transcription 85.8 1.1 2.5E-05 35.5 3.9 42 47-92 4-45 (147)
340 PTZ00326 phenylalanyl-tRNA syn 85.5 1.4 3.1E-05 41.9 5.0 70 44-118 6-76 (494)
341 PF13730 HTH_36: Helix-turn-he 85.4 1.1 2.4E-05 28.8 3.1 29 60-92 27-55 (55)
342 TIGR02147 Fsuc_second hypothet 85.4 1.7 3.6E-05 38.3 5.1 47 58-109 137-183 (271)
343 COG1565 Uncharacterized conser 85.4 2 4.3E-05 39.2 5.6 97 166-267 51-160 (370)
344 PRK09802 DNA-binding transcrip 85.4 1.2 2.5E-05 39.2 4.1 47 45-95 18-64 (269)
345 PF05732 RepL: Firmicute plasm 85.3 1.2 2.6E-05 36.2 3.9 44 58-108 75-118 (165)
346 PF04072 LCM: Leucine carboxyl 85.2 1.8 3.9E-05 35.5 5.0 56 196-251 77-141 (183)
347 PRK10411 DNA-binding transcrip 85.1 1.7 3.7E-05 37.5 5.0 45 46-94 6-50 (240)
348 KOG3924 Putative protein methy 84.6 1.1 2.3E-05 41.3 3.5 79 188-267 184-284 (419)
349 KOG4058 Uncharacterized conser 84.4 1.1 2.4E-05 35.7 3.2 64 186-251 62-133 (199)
350 PRK01381 Trp operon repressor; 84.0 5.1 0.00011 29.6 6.2 39 43-86 41-79 (99)
351 PRK11886 bifunctional biotin-- 84.0 1.7 3.7E-05 39.0 4.7 56 46-108 6-62 (319)
352 KOG1709 Guanidinoacetate methy 83.8 4.7 0.0001 34.3 6.8 65 196-260 100-174 (271)
353 PRK09775 putative DNA-binding 83.7 1.6 3.5E-05 41.2 4.5 54 49-109 5-58 (442)
354 PF05584 Sulfolobus_pRN: Sulfo 83.7 2.9 6.2E-05 29.0 4.6 42 48-94 9-50 (72)
355 COG0640 ArsR Predicted transcr 83.7 3 6.4E-05 29.6 5.1 54 38-95 19-72 (110)
356 PF12324 HTH_15: Helix-turn-he 83.7 1.4 3.1E-05 30.9 3.1 35 49-87 29-63 (77)
357 TIGR01321 TrpR trp operon repr 83.6 4.9 0.00011 29.4 6.0 41 42-87 40-80 (94)
358 PF11968 DUF3321: Putative met 83.6 0.86 1.9E-05 38.6 2.4 63 198-271 52-120 (219)
359 PHA02701 ORF020 dsRNA-binding 83.5 2 4.3E-05 35.3 4.3 48 44-95 4-52 (183)
360 PF08784 RPA_C: Replication pr 83.5 1.5 3.2E-05 32.3 3.4 47 44-94 47-97 (102)
361 KOG4589 Cell division protein 83.5 3.1 6.7E-05 34.6 5.4 42 188-229 60-102 (232)
362 PF00392 GntR: Bacterial regul 83.2 2.1 4.5E-05 28.6 3.8 34 58-95 23-57 (64)
363 PF13518 HTH_28: Helix-turn-he 83.2 2.2 4.9E-05 26.8 3.8 38 48-91 4-41 (52)
364 PF04989 CmcI: Cephalosporin h 82.9 1.5 3.3E-05 36.9 3.6 55 197-251 32-96 (206)
365 COG0500 SmtA SAM-dependent met 82.3 4.9 0.00011 29.9 6.2 66 201-268 52-131 (257)
366 COG1349 GlpR Transcriptional r 82.3 1.9 4.1E-05 37.6 4.1 46 46-95 7-52 (253)
367 PF02796 HTH_7: Helix-turn-hel 81.7 1.6 3.5E-05 27.1 2.5 30 49-84 14-43 (45)
368 PRK04214 rbn ribonuclease BN/u 81.6 2.9 6.2E-05 39.1 5.3 44 57-107 309-352 (412)
369 PRK00135 scpB segregation and 81.0 3.7 8.1E-05 34.1 5.2 57 47-110 93-153 (188)
370 PF13384 HTH_23: Homeodomain-l 80.7 1.9 4.2E-05 27.0 2.8 41 45-91 6-46 (50)
371 PF00126 HTH_1: Bacterial regu 80.7 3.8 8.2E-05 26.9 4.3 55 46-110 3-60 (60)
372 TIGR02698 CopY_TcrY copper tra 80.4 4.1 8.8E-05 31.6 5.0 48 44-95 4-55 (130)
373 KOG2915 tRNA(1-methyladenosine 80.4 10 0.00022 33.5 7.7 89 172-261 77-183 (314)
374 PRK04424 fatty acid biosynthes 80.3 1.5 3.2E-05 36.3 2.6 46 45-94 8-53 (185)
375 PRK09954 putative kinase; Prov 80.0 2.9 6.4E-05 38.1 4.8 44 46-93 5-48 (362)
376 COG3413 Predicted DNA binding 79.7 1.8 4E-05 36.5 3.1 44 36-86 159-202 (215)
377 PF12793 SgrR_N: Sugar transpo 79.5 2.4 5.2E-05 32.2 3.4 34 58-95 19-52 (115)
378 KOG2651 rRNA adenine N-6-methy 79.2 4 8.6E-05 37.6 5.1 46 188-234 144-189 (476)
379 PF08280 HTH_Mga: M protein tr 79.0 2.5 5.5E-05 27.9 3.0 39 45-87 6-44 (59)
380 PF00165 HTH_AraC: Bacterial r 78.2 2.1 4.6E-05 25.9 2.3 27 58-88 8-34 (42)
381 PRK12423 LexA repressor; Provi 78.1 4.1 9E-05 34.1 4.7 35 58-95 25-59 (202)
382 KOG2940 Predicted methyltransf 78.1 2.8 6E-05 36.0 3.6 71 197-268 72-150 (325)
383 COG0742 N6-adenine-specific me 78.1 4.2 9.1E-05 33.7 4.6 64 197-261 43-120 (187)
384 PF13814 Replic_Relax: Replica 78.1 5.3 0.00011 32.7 5.3 61 51-115 2-72 (191)
385 COG1510 Predicted transcriptio 77.9 2.5 5.4E-05 34.4 3.1 35 57-95 40-74 (177)
386 PF11994 DUF3489: Protein of u 77.2 7.6 0.00017 26.9 4.9 42 49-94 15-58 (72)
387 PF05206 TRM13: Methyltransfer 76.9 7.3 0.00016 34.1 6.0 35 195-229 16-55 (259)
388 PF03428 RP-C: Replication pro 76.8 3.8 8.2E-05 33.7 4.0 35 58-96 70-105 (177)
389 KOG1562 Spermidine synthase [A 76.8 1.5 3.3E-05 38.9 1.7 66 195-261 119-201 (337)
390 PF11312 DUF3115: Protein of u 76.1 13 0.00028 33.4 7.4 38 198-235 87-147 (315)
391 TIGR03879 near_KaiC_dom probab 76.0 3.1 6.7E-05 29.0 2.8 34 57-94 31-64 (73)
392 PF01475 FUR: Ferric uptake re 75.9 3.3 7.2E-05 31.3 3.3 65 43-107 7-74 (120)
393 COG2521 Predicted archaeal met 75.6 3.9 8.5E-05 35.2 3.8 65 195-260 132-210 (287)
394 PF03059 NAS: Nicotianamine sy 75.5 5.5 0.00012 35.2 4.9 68 197-264 120-201 (276)
395 PF05971 Methyltransf_10: Prot 75.0 5 0.00011 35.8 4.6 56 197-253 102-171 (299)
396 KOG0822 Protein kinase inhibit 74.9 13 0.00029 35.7 7.5 94 159-259 334-443 (649)
397 PRK11639 zinc uptake transcrip 74.9 7.3 0.00016 31.6 5.2 53 43-95 25-79 (169)
398 PF09821 AAA_assoc_C: C-termin 74.7 4.5 9.7E-05 31.0 3.7 46 63-116 2-47 (120)
399 PF04445 SAM_MT: Putative SAM- 74.7 4.6 0.0001 34.7 4.1 73 187-262 64-158 (234)
400 PF09929 DUF2161: Uncharacteri 74.5 5.7 0.00012 30.2 4.1 50 51-110 66-115 (118)
401 PF06969 HemN_C: HemN C-termin 74.1 5.4 0.00012 26.6 3.6 51 52-110 14-65 (66)
402 PF09681 Phage_rep_org_N: N-te 73.8 6.9 0.00015 30.1 4.5 46 58-110 53-98 (121)
403 PLN02232 ubiquinone biosynthes 73.7 3.2 7E-05 33.2 2.8 32 240-271 26-60 (160)
404 TIGR02844 spore_III_D sporulat 73.7 4.7 0.0001 28.6 3.3 32 47-83 9-40 (80)
405 PRK11753 DNA-binding transcrip 73.5 5.2 0.00011 33.0 4.2 33 58-94 168-200 (211)
406 PRK11161 fumarate/nitrate redu 73.5 5.4 0.00012 33.7 4.3 42 58-107 184-225 (235)
407 COG1189 Predicted rRNA methyla 73.4 12 0.00026 32.2 6.3 60 186-246 68-129 (245)
408 PF03965 Penicillinase_R: Peni 73.4 6.1 0.00013 29.8 4.1 52 44-95 3-54 (115)
409 PRK13918 CRP/FNR family transc 73.3 5.6 0.00012 32.6 4.3 42 58-107 149-190 (202)
410 TIGR03697 NtcA_cyano global ni 73.3 5.7 0.00012 32.2 4.3 33 58-94 143-175 (193)
411 COG2933 Predicted SAM-dependen 73.0 6.2 0.00014 34.6 4.5 64 197-262 211-277 (358)
412 PF08222 HTH_CodY: CodY helix- 73.0 4.7 0.0001 26.5 2.8 34 57-94 3-36 (61)
413 COG3398 Uncharacterized protei 72.9 8.6 0.00019 32.6 5.1 50 42-95 99-148 (240)
414 PF13578 Methyltransf_24: Meth 72.5 2.4 5.2E-05 31.1 1.7 60 202-261 1-75 (106)
415 PF02319 E2F_TDP: E2F/DP famil 72.4 1.2 2.5E-05 30.8 -0.1 44 49-95 16-62 (71)
416 COG1092 Predicted SAM-dependen 72.4 3.7 8.1E-05 38.1 3.2 65 196-261 216-296 (393)
417 COG1725 Predicted transcriptio 72.4 6.1 0.00013 30.5 3.9 39 59-103 36-74 (125)
418 PRK10046 dpiA two-component re 72.1 6 0.00013 33.2 4.3 42 48-94 166-209 (225)
419 PRK10736 hypothetical protein; 71.8 6.7 0.00014 36.2 4.7 51 47-105 311-361 (374)
420 PF14338 Mrr_N: Mrr N-terminal 71.7 10 0.00023 27.2 4.9 64 49-115 25-90 (92)
421 COG1088 RfbB dTDP-D-glucose 4, 71.6 8.9 0.00019 34.3 5.2 48 204-251 5-62 (340)
422 COG3398 Uncharacterized protei 71.2 8.7 0.00019 32.6 4.8 70 39-112 169-238 (240)
423 COG3388 Predicted transcriptio 71.2 2.3 5.1E-05 30.8 1.3 46 45-94 15-60 (101)
424 COG1568 Predicted methyltransf 70.9 17 0.00037 32.2 6.7 57 49-115 27-83 (354)
425 PRK09391 fixK transcriptional 70.7 7.4 0.00016 33.0 4.5 43 58-107 179-221 (230)
426 COG2520 Predicted methyltransf 70.1 6.6 0.00014 35.8 4.2 69 196-265 187-266 (341)
427 PRK09462 fur ferric uptake reg 69.8 8.8 0.00019 30.3 4.5 64 43-106 16-83 (148)
428 PF01861 DUF43: Protein of unk 69.0 14 0.00031 31.8 5.8 64 197-261 44-118 (243)
429 PF11972 HTH_13: HTH DNA bindi 68.9 12 0.00026 24.3 4.1 47 49-105 4-50 (54)
430 PRK13239 alkylmercury lyase; P 68.7 6.9 0.00015 32.9 3.8 40 45-88 23-62 (206)
431 COG3682 Predicted transcriptio 68.4 11 0.00024 29.0 4.5 62 44-107 6-67 (123)
432 PF09904 HTH_43: Winged helix- 68.1 9.1 0.0002 27.7 3.7 44 46-94 10-53 (90)
433 PRK00215 LexA repressor; Valid 68.1 10 0.00023 31.5 4.9 35 58-95 23-57 (205)
434 TIGR00637 ModE_repress ModE mo 67.9 17 0.00038 26.7 5.4 63 45-113 5-71 (99)
435 PF14557 AphA_like: Putative A 67.2 16 0.00034 29.7 5.3 69 41-110 8-83 (175)
436 TIGR03433 padR_acidobact trans 67.1 21 0.00045 26.1 5.7 64 49-113 9-81 (100)
437 PF02636 Methyltransf_28: Puta 67.0 7.3 0.00016 33.7 3.8 32 198-229 19-58 (252)
438 PRK10402 DNA-binding transcrip 66.3 8.2 0.00018 32.6 3.9 41 58-106 169-209 (226)
439 PF09107 SelB-wing_3: Elongati 65.5 15 0.00032 23.5 4.0 41 51-95 3-43 (50)
440 PF05331 DUF742: Protein of un 65.5 9.8 0.00021 28.9 3.7 40 49-94 48-87 (114)
441 PF12692 Methyltransf_17: S-ad 65.3 37 0.00081 27.1 7.0 32 198-229 29-60 (160)
442 PRK01905 DNA-binding protein F 65.1 44 0.00095 23.2 7.0 68 13-85 2-73 (77)
443 PRK09273 hypothetical protein; 65.0 7.4 0.00016 32.8 3.2 44 196-239 61-104 (211)
444 COG0735 Fur Fe2+/Zn2+ uptake r 64.9 11 0.00024 29.8 4.1 65 43-108 20-88 (145)
445 KOG2793 Putative N2,N2-dimethy 64.8 8.2 0.00018 33.5 3.6 72 195-267 83-174 (248)
446 COG1339 Transcriptional regula 64.5 10 0.00022 31.6 3.9 52 58-113 19-70 (214)
447 PHA03103 double-strand RNA-bin 64.4 15 0.00032 30.4 4.8 44 48-95 17-60 (183)
448 PRK09334 30S ribosomal protein 64.3 8.5 0.00018 27.7 3.0 34 58-95 41-74 (86)
449 PRK13750 replication protein; 63.7 20 0.00043 31.0 5.6 57 36-95 72-133 (285)
450 PF09824 ArsR: ArsR transcript 63.1 12 0.00026 30.0 3.9 49 38-94 11-59 (160)
451 TIGR01714 phage_rep_org_N phag 63.1 15 0.00033 28.1 4.4 45 57-108 50-94 (119)
452 PRK10837 putative DNA-binding 62.5 18 0.00039 31.2 5.5 60 46-115 7-69 (290)
453 PF10771 DUF2582: Protein of u 62.4 9.9 0.00021 25.8 2.9 41 49-93 13-53 (65)
454 PRK10094 DNA-binding transcrip 62.3 15 0.00032 32.5 5.0 59 46-114 6-67 (308)
455 PRK03601 transcriptional regul 62.1 18 0.00038 31.4 5.3 60 46-115 5-67 (275)
456 COG4301 Uncharacterized conser 61.9 26 0.00056 30.6 6.0 77 196-272 77-171 (321)
457 smart00753 PAM PCI/PINT associ 61.8 25 0.00055 24.6 5.3 50 40-93 6-55 (88)
458 smart00088 PINT motif in prote 61.8 25 0.00055 24.6 5.3 50 40-93 6-55 (88)
459 PRK11642 exoribonuclease R; Pr 61.6 14 0.0003 37.8 5.1 55 49-106 24-79 (813)
460 PF06406 StbA: StbA protein; 61.4 15 0.00033 32.9 4.9 63 171-233 246-310 (318)
461 PRK10681 DNA-binding transcrip 61.3 13 0.00029 32.1 4.3 43 45-91 8-50 (252)
462 PF13551 HTH_29: Winged helix- 61.3 11 0.00024 27.5 3.4 38 49-91 4-41 (112)
463 TIGR03474 incFII_RepA incFII f 61.0 21 0.00046 30.6 5.2 57 36-95 64-125 (275)
464 TIGR00635 ruvB Holliday juncti 60.9 9.7 0.00021 33.6 3.5 46 57-110 254-300 (305)
465 PRK09333 30S ribosomal protein 60.7 27 0.00059 27.8 5.5 62 49-114 58-129 (150)
466 PF03551 PadR: Transcriptional 60.4 9.3 0.0002 26.2 2.6 62 50-112 2-72 (75)
467 KOG1663 O-methyltransferase [S 59.8 24 0.00052 30.3 5.4 57 195-251 71-136 (237)
468 TIGR03338 phnR_burk phosphonat 59.5 17 0.00036 30.2 4.6 34 58-95 34-67 (212)
469 COG1386 scpB Chromosome segreg 59.2 26 0.00056 29.0 5.4 57 46-109 94-154 (184)
470 PF03297 Ribosomal_S25: S25 ri 59.1 15 0.00034 27.4 3.7 35 58-96 59-93 (105)
471 PF02387 IncFII_repA: IncFII R 59.0 11 0.00024 33.4 3.4 37 58-94 95-137 (281)
472 PHA02591 hypothetical protein; 58.7 14 0.00031 25.9 3.2 31 49-84 51-81 (83)
473 PF02502 LacAB_rpiB: Ribose/Ga 58.2 9.8 0.00021 30.0 2.7 43 199-241 57-99 (140)
474 TIGR00689 rpiB_lacA_lacB sugar 58.1 13 0.00029 29.4 3.4 43 199-241 56-98 (144)
475 TIGR01120 rpiB ribose 5-phosph 58.0 13 0.00029 29.4 3.4 42 199-240 57-98 (143)
476 COG2865 Predicted transcriptio 58.0 16 0.00034 34.8 4.4 52 49-104 407-458 (467)
477 PF13936 HTH_38: Helix-turn-he 57.9 15 0.00033 22.5 3.0 29 51-84 14-42 (44)
478 PRK11534 DNA-binding transcrip 57.8 21 0.00046 30.0 4.9 34 58-95 30-63 (224)
479 PF14314 Methyltrans_Mon: Viru 57.7 16 0.00036 36.2 4.7 48 180-229 307-357 (675)
480 PF00196 GerE: Bacterial regul 57.6 15 0.00033 23.7 3.2 37 44-86 6-42 (58)
481 TIGR03339 phn_lysR aminoethylp 57.4 25 0.00053 30.1 5.4 59 47-115 2-63 (279)
482 TIGR03826 YvyF flagellar opero 57.4 16 0.00035 28.7 3.7 32 49-84 35-68 (137)
483 PF01358 PARP_regulatory: Poly 57.3 15 0.00032 32.6 3.9 55 196-251 57-115 (294)
484 PRK15121 right oriC-binding tr 57.3 14 0.00029 32.6 3.8 47 58-113 21-67 (289)
485 COG2524 Predicted transcriptio 56.9 28 0.00061 30.4 5.4 54 57-115 24-77 (294)
486 TIGR02036 dsdC D-serine deamin 56.4 23 0.0005 31.1 5.1 61 45-115 11-74 (302)
487 PF13542 HTH_Tnp_ISL3: Helix-t 56.4 20 0.00044 22.4 3.5 36 44-85 15-50 (52)
488 KOG2165 Anaphase-promoting com 56.3 15 0.00032 36.4 4.0 48 57-108 615-663 (765)
489 PRK05571 ribose-5-phosphate is 56.3 15 0.00032 29.3 3.4 40 202-241 62-101 (148)
490 PRK11062 nhaR transcriptional 56.2 24 0.00053 30.8 5.2 61 45-115 7-70 (296)
491 PRK00080 ruvB Holliday junctio 56.2 13 0.00029 33.3 3.6 46 57-110 275-321 (328)
492 PF07848 PaaX: PaaX-like prote 56.0 10 0.00023 26.0 2.2 47 58-108 20-69 (70)
493 TIGR02424 TF_pcaQ pca operon t 55.8 22 0.00049 30.9 5.0 60 46-115 7-69 (300)
494 PF03514 GRAS: GRAS domain fam 55.8 13 0.00028 34.3 3.5 46 185-231 99-151 (374)
495 smart00342 HTH_ARAC helix_turn 55.7 16 0.00034 24.7 3.2 29 58-90 1-29 (84)
496 PF03686 UPF0146: Uncharacteri 55.4 28 0.00061 26.9 4.7 61 197-263 13-78 (127)
497 PRK11511 DNA-binding transcrip 55.3 20 0.00044 27.4 4.0 33 58-94 25-57 (127)
498 TIGR00027 mthyl_TIGR00027 meth 55.3 22 0.00048 31.0 4.7 55 196-251 80-143 (260)
499 PF14502 HTH_41: Helix-turn-he 55.1 30 0.00065 21.9 4.0 34 58-95 6-39 (48)
500 PRK09791 putative DNA-binding 54.8 23 0.0005 31.0 4.8 60 45-114 8-70 (302)
No 1
>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]
Probab=100.00 E-value=1.6e-36 Score=266.71 Aligned_cols=249 Identities=47% Similarity=0.789 Sum_probs=223.3
Q ss_pred hhHHHHHHHHHHhhhhHHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCc-CCCCCcchHHHHHHHHhcCCceeccccCC
Q 024046 21 EEESYSHAMQLAMGVVLPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQA-QNVKAPMMLDRMLRLLVSHRVLECSVSGG 99 (273)
Q Consensus 21 ~~~~~~~l~~~~~g~~~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~-~~~~~~~~l~rlL~~L~~~gll~~~~~~~ 99 (273)
+..+..+++++++++..++++.+|+|||+||+|.+.++ ..|+|-.+-. .++.++..+.|+||.|++.+++...-.+.
T Consensus 3 e~~~~l~~~~l~~~~~~~~~lk~A~eL~v~d~l~~~~~--p~~ia~~l~~~~~~~~p~ll~r~lr~L~s~~i~k~~~~~~ 80 (342)
T KOG3178|consen 3 ENEASLRAMRLANGFALPMVLKAACELGVFDILANAGS--PSEIASLLPTPKNPEAPVLLDRILRLLVSYSILKCRLVGG 80 (342)
T ss_pred hhHHHHHHHHHHhhhhhHHHHHHHHHcChHHHHHhCCC--HHHHHHhccCCCCCCChhHHHHHHHHHHHhhhceeeeecc
Confidence 45677899999999999999999999999999999644 8888888874 35568889999999999999999742112
Q ss_pred CcceecChhchHhhcCCCCCccchhhcccCChhHHHHhhhHHHHHhcCCCcchhccCCchhhhhhcCcchHHHHHHHHHh
Q 024046 100 ERLYALNPVSKYFVSNKDGASLGHFMALPLDKVFMESWLGLKDAVMEGGIPFNRVHGMHIFEYASGNPRFNETYHEAMFN 179 (273)
Q Consensus 100 ~~~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~e~l~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~am~~ 179 (273)
. .|.++|+++.+.++.+..++..+....+++..++.|..+.++++.++.+|..++|+..|+|...++.....|+.+|..
T Consensus 81 ~-~Y~~~~~~~~~l~~~~~~S~a~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~G~~l~~~~~~~~~~~~~~~~sm~~ 159 (342)
T KOG3178|consen 81 E-VYSATPVCKYFLKDSGGGSLAPLVLLNTSKVIMNTWQFLKDAILEGGDAFATAHGMMLGGYGGADERFSKDFNGSMSF 159 (342)
T ss_pred e-eeeccchhhhheecCCCCchhHHHHHhcccchhhhHHHHHHHHHhcccCCccccchhhhhhcccccccHHHHHHHHHH
Confidence 2 799999999888776656778888777788889999999999999999999999988999998888888899999999
Q ss_pred cchhhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCC-CCceEEEcccCCCCCCCCE
Q 024046 180 HSTIAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSY-AGVEHVGGNMFESVPEGDA 258 (273)
Q Consensus 180 ~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~-~ri~~~~gD~f~~~p~~D~ 258 (273)
.+....+.+++.+..|++....||||||.|..+..++..||+++++.+|+|.|++.+... ++|+.+.||+|.+.|++|+
T Consensus 160 l~~~~~~~il~~~~Gf~~v~~avDvGgGiG~v~k~ll~~fp~ik~infdlp~v~~~a~~~~~gV~~v~gdmfq~~P~~da 239 (342)
T KOG3178|consen 160 LSTLVMKKILEVYTGFKGVNVAVDVGGGIGRVLKNLLSKYPHIKGINFDLPFVLAAAPYLAPGVEHVAGDMFQDTPKGDA 239 (342)
T ss_pred HHHHHHHhhhhhhcccccCceEEEcCCcHhHHHHHHHHhCCCCceeecCHHHHHhhhhhhcCCcceecccccccCCCcCe
Confidence 999888888898887889999999999999999999999999999999999999999988 9999999999999999999
Q ss_pred EEecccccccCCCC
Q 024046 259 ILMKVGNFENYQSH 272 (273)
Q Consensus 259 ~~l~~vLHd~~~~~ 272 (273)
|++.+|||||+|++
T Consensus 240 I~mkWiLhdwtDed 253 (342)
T KOG3178|consen 240 IWMKWILHDWTDED 253 (342)
T ss_pred EEEEeecccCChHH
Confidence 99999999999985
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=3.2e-35 Score=254.23 Aligned_cols=173 Identities=28% Similarity=0.565 Sum_probs=153.1
Q ss_pred CCcceecChhchHhhcCCCCCccchhhcccCChhHHHHhhhHHHHHhcCCCcchhccCCchhhhhhcCcchHHHHHHHHH
Q 024046 99 GERLYALNPVSKYFVSNKDGASLGHFMALPLDKVFMESWLGLKDAVMEGGIPFNRVHGMHIFEYASGNPRFNETYHEAMF 178 (273)
Q Consensus 99 ~~~~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~e~l~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~am~ 178 (273)
+++.|++|+.|+.|+.+.+..++..++.++..+..+..|.+|++++++|+++|+..+|.++|+|+.++|+..+.|+.+|.
T Consensus 2 ~~~~y~~t~~s~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~v~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~ 81 (241)
T PF00891_consen 2 EGDRYSLTPLSELLLSDHSSPSMRGFVLFMISPELYPAWFRLTEAVRTGKPPFEKAFGTPFFEYLEEDPELAKRFNAAMA 81 (241)
T ss_dssp STEEEEE-HHHHGGSTTTTTTHHHHHHHHHTCHHHHHGGGGHHHHHHHSS-HHHHHHSS-HHHHHHCSHHHHHHHHHHHH
T ss_pred CCCEEeChHHHHHHhCCCCcCcHHHHHHHhcCHHHHHHHHHHHhhhccCCCHHHHhcCCcHHHhhhhChHHHHHHHHHHH
Confidence 56899999999998888775577777777667889999999999999999999999998899999999999999999999
Q ss_pred hcchhhH-HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCCCCceEEEcccCCCCCCCC
Q 024046 179 NHSTIAM-ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSYAGVEHVGGNMFESVPEGD 257 (273)
Q Consensus 179 ~~~~~~~-~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gD~f~~~p~~D 257 (273)
..+.... +.++..++ |++..+|||||||+|.++.+++++||+++++++|+|+|++.+++.+||++++||||+++|.+|
T Consensus 82 ~~~~~~~~~~~~~~~d-~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~v~~~~~~~~rv~~~~gd~f~~~P~~D 160 (241)
T PF00891_consen 82 EYSRLNAFDILLEAFD-FSGFKTVVDVGGGSGHFAIALARAYPNLRATVFDLPEVIEQAKEADRVEFVPGDFFDPLPVAD 160 (241)
T ss_dssp HHHHHHHHHHHHHHST-TTTSSEEEEET-TTSHHHHHHHHHSTTSEEEEEE-HHHHCCHHHTTTEEEEES-TTTCCSSES
T ss_pred hhhhcchhhhhhcccc-ccCccEEEeccCcchHHHHHHHHHCCCCcceeeccHhhhhccccccccccccccHHhhhcccc
Confidence 9888877 77888888 999999999999999999999999999999999999999998888999999999999999999
Q ss_pred EEEecccccccCCCC
Q 024046 258 AILMKVGNFENYQSH 272 (273)
Q Consensus 258 ~~~l~~vLHd~~~~~ 272 (273)
+|++++|||+|+|++
T Consensus 161 ~~~l~~vLh~~~d~~ 175 (241)
T PF00891_consen 161 VYLLRHVLHDWSDED 175 (241)
T ss_dssp EEEEESSGGGS-HHH
T ss_pred ceeeehhhhhcchHH
Confidence 999999999999874
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=2.4e-33 Score=250.68 Aligned_cols=219 Identities=21% Similarity=0.350 Sum_probs=167.8
Q ss_pred hHHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhcC
Q 024046 36 VLPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 36 ~~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
...++|++|++|||||+|.+ ||+|++|||+++|+ +++.++|+||+|+++|+|++ .++.|++|+.+..++.+
T Consensus 2 ~~~~~l~aa~~Lglfd~L~~-gp~t~~eLA~~~~~----~~~~~~~lL~~L~~lgll~~----~~~~y~~t~~~~~~l~~ 72 (306)
T TIGR02716 2 IEFSCMKAAIELDLFSHMAE-GPKDLATLAADTGS----VPPRLEMLLETLRQMRVINL----EDGKWSLTEFADYMFSP 72 (306)
T ss_pred chHHHHHHHHHcCcHHHHhc-CCCCHHHHHHHcCC----ChHHHHHHHHHHHhCCCeEe----cCCcEecchhHHhhccC
Confidence 35789999999999999987 89999999999999 99999999999999999997 46899999999877665
Q ss_pred CCCC---ccchhhcccCChhHHHHhhhHHHHHhcCCCcchhccCCchhhhhhcCcchHHHHHHHHH-hcchhhHHHHHhh
Q 024046 116 KDGA---SLGHFMALPLDKVFMESWLGLKDAVMEGGIPFNRVHGMHIFEYASGNPRFNETYHEAMF-NHSTIAMERILEH 191 (273)
Q Consensus 116 ~~~~---~~~~~~~~~~~~~~~~~~~~L~e~l~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~am~-~~~~~~~~~il~~ 191 (273)
.++. +...+..+. .......|.+|++++|+ +++|... +++....++.. .|...|. .......+.+++.
T Consensus 73 ~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~r~-~~~~~~~-----~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~ 144 (306)
T TIGR02716 73 TPKEPNLHQTPVAKAM-AFLADDFYMGLSQAVRG-QKNFKGQ-----VPYPPVTREDN-LYFEEIHRSNAKFAIQLLLEE 144 (306)
T ss_pred CccchhhhcCchHHHH-HHHHHHHHHhHHHHhcC-Ccccccc-----cCCCCCCHHHH-HhHHHHHHhcchhHHHHHHHH
Confidence 4421 112222221 11123568999999974 4444322 22222222222 3444444 4444445667777
Q ss_pred cccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCC-------CCceEEEcccCC-CCCCCCEEEecc
Q 024046 192 YEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSY-------AGVEHVGGNMFE-SVPEGDAILMKV 263 (273)
Q Consensus 192 ~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~-------~ri~~~~gD~f~-~~p~~D~~~l~~ 263 (273)
.+ +++..+|||||||+|.+++.+++++|+++++++|+|.+++.++++ +||+++++|+|+ ++|.+|+|++++
T Consensus 145 ~~-~~~~~~vlDiG~G~G~~~~~~~~~~p~~~~~~~D~~~~~~~a~~~~~~~gl~~rv~~~~~d~~~~~~~~~D~v~~~~ 223 (306)
T TIGR02716 145 AK-LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAAEKGVADRMRGIAVDIYKESYPEADAVLFCR 223 (306)
T ss_pred cC-CCCCCEEEEeCCchhHHHHHHHHHCCCCEEEEEecHHHHHHHHHHHHhCCccceEEEEecCccCCCCCCCCEEEeEh
Confidence 76 888899999999999999999999999999999999999877542 789999999997 677789999999
Q ss_pred cccccCCCC
Q 024046 264 GNFENYQSH 272 (273)
Q Consensus 264 vLHd~~~~~ 272 (273)
+||+|+++.
T Consensus 224 ~lh~~~~~~ 232 (306)
T TIGR02716 224 ILYSANEQL 232 (306)
T ss_pred hhhcCChHH
Confidence 999998763
No 4
>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=99.02 E-value=6.9e-10 Score=83.96 Aligned_cols=71 Identities=21% Similarity=0.330 Sum_probs=59.8
Q ss_pred cceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEccc-CC-CCCCC-CEEEecc-cc
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNM-FE-SVPEG-DAILMKV-GN 265 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~-f~-~~p~~-D~~~l~~-vL 265 (273)
..+|||||||+|.++..+++++|..+++++|. |.+++.|++ .+||+++.+|+ +. +.++. |++++.. .+
T Consensus 2 ~~~vLDlGcG~G~~~~~l~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D~v~~~~~~~ 81 (112)
T PF12847_consen 2 GGRVLDLGCGTGRLSIALARLFPGARVVGVDISPEMLEIARERAAEEGLSDRITFVQGDAEFDPDFLEPFDLVICSGFTL 81 (112)
T ss_dssp TCEEEEETTTTSHHHHHHHHHHTTSEEEEEESSHHHHHHHHHHHHHTTTTTTEEEEESCCHGGTTTSSCEEEEEECSGSG
T ss_pred CCEEEEEcCcCCHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECccccCcccCCCCCEEEECCCcc
Confidence 47899999999999999999999999999998 888887754 28999999999 43 34444 9999999 56
Q ss_pred ccc
Q 024046 266 FEN 268 (273)
Q Consensus 266 Hd~ 268 (273)
|++
T Consensus 82 ~~~ 84 (112)
T PF12847_consen 82 HFL 84 (112)
T ss_dssp GGC
T ss_pred ccc
Confidence 644
No 5
>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=99.02 E-value=8.5e-10 Score=93.04 Aligned_cols=77 Identities=14% Similarity=0.343 Sum_probs=67.6
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-CCCceEEEcccCCCCCCC--CEEEecccccccCC
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-YAGVEHVGGNMFESVPEG--DAILMKVGNFENYQ 270 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gD~f~~~p~~--D~~~l~~vLHd~~~ 270 (273)
.++..+|||||||+|..+..+++..|..+++++|+ |++++.|+. .+++++..+|++++++.+ |+|++..+||+.++
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 44668999999999999999999999999999998 889998876 378999999999877653 99999999998875
Q ss_pred C
Q 024046 271 S 271 (273)
Q Consensus 271 ~ 271 (273)
+
T Consensus 121 ~ 121 (204)
T TIGR03587 121 D 121 (204)
T ss_pred H
Confidence 4
No 6
>PRK06922 hypothetical protein; Provisional
Probab=98.99 E-value=1.3e-09 Score=104.71 Aligned_cols=112 Identities=17% Similarity=0.274 Sum_probs=83.9
Q ss_pred CchhhhhhcCcchHHHHHHHHHhcchhh--HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHH
Q 024046 157 MHIFEYASGNPRFNETYHEAMFNHSTIA--MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVV 233 (273)
Q Consensus 157 ~~~~~~~~~~~~~~~~f~~am~~~~~~~--~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~ 233 (273)
..+|+++..+++..++|...|....... .......++ +.+..+|||||||+|.++..+++.+|+.+++++|+ +.++
T Consensus 377 ~~~fd~fg~r~D~~dRf~~~~~yle~m~~~~~~k~~i~d-~~~g~rVLDIGCGTG~ls~~LA~~~P~~kVtGIDIS~~ML 455 (677)
T PRK06922 377 VLLFDFFGLRKDAYDRFHNEEVYLEHMNSSADDKRIILD-YIKGDTIVDVGAGGGVMLDMIEEETEDKRIYGIDISENVI 455 (677)
T ss_pred hHHHHHhccChhhHhHHHhHHHHHHhccccHHHHHHHhh-hcCCCEEEEeCCCCCHHHHHHHHhCCCCEEEEEECCHHHH
Confidence 4678888887777788876665433221 111222344 55678999999999999999999999999999999 6678
Q ss_pred HhCCCC-----CCceEEEcccCC-C--CCCC--CEEEecccccccC
Q 024046 234 QDAPSY-----AGVEHVGGNMFE-S--VPEG--DAILMKVGNFENY 269 (273)
Q Consensus 234 ~~a~~~-----~ri~~~~gD~f~-~--~p~~--D~~~l~~vLHd~~ 269 (273)
+.|+.. .+++++.+|..+ + ++.+ |+|+++.++|+|.
T Consensus 456 e~Ararl~~~g~~ie~I~gDa~dLp~~fedeSFDvVVsn~vLH~L~ 501 (677)
T PRK06922 456 DTLKKKKQNEGRSWNVIKGDAINLSSSFEKESVDTIVYSSILHELF 501 (677)
T ss_pred HHHHHHhhhcCCCeEEEEcchHhCccccCCCCEEEEEEchHHHhhh
Confidence 776542 468889999876 3 4543 9999999999873
No 7
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=98.95 E-value=4e-09 Score=91.94 Aligned_cols=83 Identities=20% Similarity=0.302 Sum_probs=70.0
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCceEEEcccCCCCCC--CCEEEec
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVEHVGGNMFESVPE--GDAILMK 262 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gD~f~~~p~--~D~~~l~ 262 (273)
..+++.++ .....+|||||||+|.++..+++++|+.+++++|+ |.+++.|++ .+++++.+|+.+..+. .|+|++.
T Consensus 19 ~~ll~~l~-~~~~~~vLDlGcG~G~~~~~l~~~~p~~~v~gvD~s~~~~~~a~~-~~~~~~~~d~~~~~~~~~fD~v~~~ 96 (255)
T PRK14103 19 YDLLARVG-AERARRVVDLGCGPGNLTRYLARRWPGAVIEALDSSPEMVAAARE-RGVDARTGDVRDWKPKPDTDVVVSN 96 (255)
T ss_pred HHHHHhCC-CCCCCEEEEEcCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHh-cCCcEEEcChhhCCCCCCceEEEEe
Confidence 45667666 66779999999999999999999999999999999 889988875 4699999998753333 3999999
Q ss_pred ccccccCC
Q 024046 263 VGNFENYQ 270 (273)
Q Consensus 263 ~vLHd~~~ 270 (273)
.+||..+|
T Consensus 97 ~~l~~~~d 104 (255)
T PRK14103 97 AALQWVPE 104 (255)
T ss_pred hhhhhCCC
Confidence 99998765
No 8
>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=98.89 E-value=3.6e-09 Score=84.87 Aligned_cols=75 Identities=19% Similarity=0.317 Sum_probs=63.3
Q ss_pred CcceEEEecCCccHHHHHHH-HHCCCCeEEEeec-hHHHHhCCC------CCCceEEEcccCC-C--CCCC-CEEEeccc
Q 024046 197 NVERLVDVGGGFGVTLSMIT-SKYPQIKAVNFDL-PHVVQDAPS------YAGVEHVGGNMFE-S--VPEG-DAILMKVG 264 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~-~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gD~f~-~--~p~~-D~~~l~~v 264 (273)
...+|||||||+|.++..++ +.+|..+++++|+ |.+++.|+. .++++|..+|+++ + ++.. |+++...+
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 56799999999999999999 5689999999998 889988875 2789999999999 4 3333 99999999
Q ss_pred ccccCCC
Q 024046 265 NFENYQS 271 (273)
Q Consensus 265 LHd~~~~ 271 (273)
+|+..+.
T Consensus 83 l~~~~~~ 89 (152)
T PF13847_consen 83 LHHFPDP 89 (152)
T ss_dssp GGGTSHH
T ss_pred hhhccCH
Confidence 9887653
No 9
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=98.85 E-value=1.3e-08 Score=88.78 Aligned_cols=85 Identities=19% Similarity=0.299 Sum_probs=70.9
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-CCceEEEcccCCCCC-C-CCEEE
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-AGVEHVGGNMFESVP-E-GDAIL 260 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-~ri~~~~gD~f~~~p-~-~D~~~ 260 (273)
...++..++ ..+..+|||||||+|.++..+++.+|..+++++|. |.+++.++.. ++++++.+|+.+..+ . .|+++
T Consensus 20 ~~~ll~~~~-~~~~~~vLDiGcG~G~~~~~la~~~~~~~v~gvD~s~~~i~~a~~~~~~~~~~~~d~~~~~~~~~fD~v~ 98 (258)
T PRK01683 20 ARDLLARVP-LENPRYVVDLGCGPGNSTELLVERWPAARITGIDSSPAMLAEARSRLPDCQFVEADIASWQPPQALDLIF 98 (258)
T ss_pred HHHHHhhCC-CcCCCEEEEEcccCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhCCCCeEEECchhccCCCCCccEEE
Confidence 345667666 66788999999999999999999999999999998 8888888764 789999999976333 2 39999
Q ss_pred ecccccccCC
Q 024046 261 MKVGNFENYQ 270 (273)
Q Consensus 261 l~~vLHd~~~ 270 (273)
+..+||..+|
T Consensus 99 ~~~~l~~~~d 108 (258)
T PRK01683 99 ANASLQWLPD 108 (258)
T ss_pred EccChhhCCC
Confidence 9999997654
No 10
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=98.84 E-value=1.3e-08 Score=87.22 Aligned_cols=76 Identities=20% Similarity=0.280 Sum_probs=68.1
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC-CCCCC--CEEEecccc
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-SVPEG--DAILMKVGN 265 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~~p~~--D~~~l~~vL 265 (273)
.++.+|||||||+|.++..+++..+..+++++|. +.+++.+++. ..|+|+.||..+ |+|.. |+|+++..|
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 3679999999999999999999999999999998 8899988763 229999999999 89964 999999999
Q ss_pred cccCCC
Q 024046 266 FENYQS 271 (273)
Q Consensus 266 Hd~~~~ 271 (273)
|+.+|.
T Consensus 130 rnv~d~ 135 (238)
T COG2226 130 RNVTDI 135 (238)
T ss_pred hcCCCH
Confidence 999874
No 11
>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=98.82 E-value=4.3e-09 Score=68.10 Aligned_cols=49 Identities=55% Similarity=0.792 Sum_probs=41.9
Q ss_pred HHHHHHHHhChhHHHHhCC--CCCHHHHHHHhCcCCCCCcchHHHHHHHHh
Q 024046 39 MATQAAIQLGVFEIIAKAG--ELSAPEIAAQLQAQNVKAPMMLDRMLRLLV 87 (273)
Q Consensus 39 ~aL~~a~elglfd~L~~~g--~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 87 (273)
++|++|++|||||.|.+.| +.|++||+..+...|+.++..+.|+||+|+
T Consensus 1 MaLk~aveLgI~dii~~~g~~~ls~~eia~~l~~~~p~~~~~L~RimR~L~ 51 (51)
T PF08100_consen 1 MALKCAVELGIPDIIHNAGGGPLSLSEIAARLPTSNPSAPPMLDRIMRLLV 51 (51)
T ss_dssp HHHHHHHHTTHHHHHHHHTTS-BEHHHHHHTSTCT-TTHHHHHHHHHHHHH
T ss_pred CcHHHHHHcCcHHHHHHcCCCCCCHHHHHHHcCCCCcchHHHHHHHHHHhC
Confidence 5899999999999999986 999999999999435557889999999985
No 12
>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=98.82 E-value=5.6e-09 Score=90.10 Aligned_cols=76 Identities=12% Similarity=0.134 Sum_probs=65.0
Q ss_pred CCcceEEEecCCccHHHHHHHHH--CCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC-CCCCCCEEEeccc
Q 024046 196 QNVERLVDVGGGFGVTLSMITSK--YPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE-SVPEGDAILMKVG 264 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~--~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~-~~p~~D~~~l~~v 264 (273)
.+..+|||||||+|.++..++++ +|+.+++++|+ |.+++.|+.. .+++++.+|+.+ +.+..|++++..+
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 45678999999999999999997 48899999999 8898887642 479999999987 5666799999999
Q ss_pred ccccCCC
Q 024046 265 NFENYQS 271 (273)
Q Consensus 265 LHd~~~~ 271 (273)
||.++++
T Consensus 132 l~~~~~~ 138 (239)
T TIGR00740 132 LQFLPPE 138 (239)
T ss_pred hhhCCHH
Confidence 9998754
No 13
>COG4106 Tam Trans-aconitate methyltransferase [General function prediction only]
Probab=98.81 E-value=5.6e-09 Score=86.80 Aligned_cols=85 Identities=15% Similarity=0.241 Sum_probs=73.0
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-CCceEEEcccCCCCC--CCCEEE
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-AGVEHVGGNMFESVP--EGDAIL 260 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-~ri~~~~gD~f~~~p--~~D~~~ 260 (273)
+..++...+ .....+|+|+|||.|.....|++++|+...+++|. |++++.|+.. +.++|..+|+-+=.| ..|+++
T Consensus 19 a~dLla~Vp-~~~~~~v~DLGCGpGnsTelL~~RwP~A~i~GiDsS~~Mla~Aa~rlp~~~f~~aDl~~w~p~~~~dllf 97 (257)
T COG4106 19 ARDLLARVP-LERPRRVVDLGCGPGNSTELLARRWPDAVITGIDSSPAMLAKAAQRLPDATFEEADLRTWKPEQPTDLLF 97 (257)
T ss_pred HHHHHhhCC-ccccceeeecCCCCCHHHHHHHHhCCCCeEeeccCCHHHHHHHHHhCCCCceecccHhhcCCCCccchhh
Confidence 356777777 77899999999999999999999999999999997 9999998765 899999999987455 459999
Q ss_pred ecccccccCC
Q 024046 261 MKVGNFENYQ 270 (273)
Q Consensus 261 l~~vLHd~~~ 270 (273)
.+-+||--+|
T Consensus 98 aNAvlqWlpd 107 (257)
T COG4106 98 ANAVLQWLPD 107 (257)
T ss_pred hhhhhhhccc
Confidence 8888875443
No 14
>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=98.80 E-value=1.7e-08 Score=86.38 Aligned_cols=83 Identities=17% Similarity=0.203 Sum_probs=67.2
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHHhCCC------CCCceEEEcccCC-CCCCC-
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-PHVVQDAPS------YAGVEHVGGNMFE-SVPEG- 256 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gD~f~-~~p~~- 256 (273)
.++..++ .....+|||||||+|.++..+++.+ |+.+++++|+ |.+++.++. .++++++.+|..+ ++|.+
T Consensus 36 ~~l~~l~-~~~~~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~ 114 (231)
T TIGR02752 36 DTMKRMN-VQAGTSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHGNAMELPFDDNS 114 (231)
T ss_pred HHHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHhcCCCceEEEEechhcCCCCCCC
Confidence 3455555 5667899999999999999999986 6789999998 788776653 2689999999987 56653
Q ss_pred -CEEEecccccccCC
Q 024046 257 -DAILMKVGNFENYQ 270 (273)
Q Consensus 257 -D~~~l~~vLHd~~~ 270 (273)
|+|++...+|+.++
T Consensus 115 fD~V~~~~~l~~~~~ 129 (231)
T TIGR02752 115 FDYVTIGFGLRNVPD 129 (231)
T ss_pred ccEEEEecccccCCC
Confidence 99999999988765
No 15
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=98.79 E-value=4.4e-08 Score=85.75 Aligned_cols=77 Identities=22% Similarity=0.297 Sum_probs=65.0
Q ss_pred CCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHHhCCC---------CCCceEEEcccCC-CCCCC--CEEE
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-PHVVQDAPS---------YAGVEHVGGNMFE-SVPEG--DAIL 260 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gD~f~-~~p~~--D~~~ 260 (273)
..+..+|||||||+|.++..+++.+ |+.+++++|. |++++.|++ .++|+++.+|..+ |+|.+ |+++
T Consensus 71 ~~~~~~VLDlGcGtG~~~~~la~~~~~~~~V~gvD~S~~ml~~A~~r~~~~~~~~~~~i~~~~~d~~~lp~~~~sfD~V~ 150 (261)
T PLN02233 71 AKMGDRVLDLCCGSGDLAFLLSEKVGSDGKVMGLDFSSEQLAVAASRQELKAKSCYKNIEWIEGDATDLPFDDCYFDAIT 150 (261)
T ss_pred CCCCCEEEEECCcCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhhhhccCCCeEEEEcccccCCCCCCCEeEEE
Confidence 4567899999999999999999885 6789999998 888887753 1579999999987 77754 9999
Q ss_pred ecccccccCCC
Q 024046 261 MKVGNFENYQS 271 (273)
Q Consensus 261 l~~vLHd~~~~ 271 (273)
+..+||+++|.
T Consensus 151 ~~~~l~~~~d~ 161 (261)
T PLN02233 151 MGYGLRNVVDR 161 (261)
T ss_pred EecccccCCCH
Confidence 99999998764
No 16
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=98.79 E-value=6.5e-09 Score=90.24 Aligned_cols=76 Identities=13% Similarity=0.221 Sum_probs=64.8
Q ss_pred CCcceEEEecCCccHHHHHHHH--HCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC-CCCCCCEEEeccc
Q 024046 196 QNVERLVDVGGGFGVTLSMITS--KYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE-SVPEGDAILMKVG 264 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~--~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~-~~p~~D~~~l~~v 264 (273)
++..+|||||||+|..+..+++ .+|+.+++++|. |.+++.|+.. ++|+++.+|+.+ +.+..|++++..+
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 4568999999999999999988 479999999998 9999888642 489999999987 5556699999999
Q ss_pred ccccCCC
Q 024046 265 NFENYQS 271 (273)
Q Consensus 265 LHd~~~~ 271 (273)
||..+++
T Consensus 135 l~~l~~~ 141 (247)
T PRK15451 135 LQFLEPS 141 (247)
T ss_pred HHhCCHH
Confidence 9988754
No 17
>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=98.73 E-value=2e-08 Score=86.36 Aligned_cols=77 Identities=23% Similarity=0.365 Sum_probs=56.2
Q ss_pred CCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC-CCCCC--CEEEecc
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-SVPEG--DAILMKV 263 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~~p~~--D~~~l~~ 263 (273)
.....+|||||||+|.++..++++. |+.+++++|. |.+++.|++. .+|+++.+|..+ |+|.. |+++++.
T Consensus 45 ~~~g~~vLDv~~GtG~~~~~l~~~~~~~~~v~~vD~s~~ML~~a~~k~~~~~~~~i~~v~~da~~lp~~d~sfD~v~~~f 124 (233)
T PF01209_consen 45 LRPGDRVLDVACGTGDVTRELARRVGPNGKVVGVDISPGMLEVARKKLKREGLQNIEFVQGDAEDLPFPDNSFDAVTCSF 124 (233)
T ss_dssp --S--EEEEET-TTSHHHHHHGGGSS---EEEEEES-HHHHHHHHHHHHHTT--SEEEEE-BTTB--S-TT-EEEEEEES
T ss_pred CCCCCEEEEeCCChHHHHHHHHHHCCCccEEEEecCCHHHHHHHHHHHHhhCCCCeeEEEcCHHHhcCCCCceeEEEHHh
Confidence 4567899999999999999999885 6789999998 8999988742 589999999988 88864 9999999
Q ss_pred cccccCCC
Q 024046 264 GNFENYQS 271 (273)
Q Consensus 264 vLHd~~~~ 271 (273)
.||+.+|.
T Consensus 125 glrn~~d~ 132 (233)
T PF01209_consen 125 GLRNFPDR 132 (233)
T ss_dssp -GGG-SSH
T ss_pred hHHhhCCH
Confidence 99998873
No 18
>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=98.71 E-value=3.4e-09 Score=78.56 Aligned_cols=68 Identities=19% Similarity=0.306 Sum_probs=46.3
Q ss_pred EEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC---------CCceEEEcccCCCCC-CC-CEEEecccccccC
Q 024046 202 VDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY---------AGVEHVGGNMFESVP-EG-DAILMKVGNFENY 269 (273)
Q Consensus 202 vDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~---------~ri~~~~gD~f~~~p-~~-D~~~l~~vLHd~~ 269 (273)
||||||+|.++..+++++|..+.+++|. |.+++.+++. .++++...|.+...+ +. |+|++.++||.+.
T Consensus 1 LdiGcG~G~~~~~l~~~~~~~~~~~~D~s~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~V~~~~vl~~l~ 80 (99)
T PF08242_consen 1 LDIGCGTGRLLRALLEELPDARYTGVDISPSMLERARERLAELGNDNFERLRFDVLDLFDYDPPESFDLVVASNVLHHLE 80 (99)
T ss_dssp -EESTTTS-TTTTHHHHC-EEEEEEEESSSSTTSTTCCCHHHCT---EEEEE--SSS---CCC----SEEEEE-TTS--S
T ss_pred CEeCccChHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhcCCcceeEEEeecCChhhcccccccceehhhhhHhhhh
Confidence 7999999999999999999999999998 8889777764 234555555555444 23 9999999999984
No 19
>PLN02244 tocopherol O-methyltransferase
Probab=98.71 E-value=4.9e-08 Score=88.70 Aligned_cols=75 Identities=20% Similarity=0.276 Sum_probs=63.1
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCC-CCCCC--CEEEeccc
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFE-SVPEG--DAILMKVG 264 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~-~~p~~--D~~~l~~v 264 (273)
....+|||||||+|.++..+++++ +.+++++|+ |.+++.++. .++|+++.+|+.+ +++.+ |+|++..+
T Consensus 117 ~~~~~VLDiGCG~G~~~~~La~~~-g~~v~gvD~s~~~i~~a~~~~~~~g~~~~v~~~~~D~~~~~~~~~~FD~V~s~~~ 195 (340)
T PLN02244 117 KRPKRIVDVGCGIGGSSRYLARKY-GANVKGITLSPVQAARANALAAAQGLSDKVSFQVADALNQPFEDGQFDLVWSMES 195 (340)
T ss_pred CCCCeEEEecCCCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEcCcccCCCCCCCccEEEECCc
Confidence 456899999999999999999998 678999998 777776543 1589999999987 67654 99999999
Q ss_pred ccccCCC
Q 024046 265 NFENYQS 271 (273)
Q Consensus 265 LHd~~~~ 271 (273)
+|+++|.
T Consensus 196 ~~h~~d~ 202 (340)
T PLN02244 196 GEHMPDK 202 (340)
T ss_pred hhccCCH
Confidence 9998763
No 20
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=98.71 E-value=5e-08 Score=81.02 Aligned_cols=77 Identities=19% Similarity=0.363 Sum_probs=62.3
Q ss_pred HhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCCCC-CEEE
Q 024046 189 LEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVPEG-DAIL 260 (273)
Q Consensus 189 l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p~~-D~~~ 260 (273)
+..++ .....+|||||||+|.++..+++++|+.+++++|. |.+++.++++ ++|+++.+|...+++.. |+++
T Consensus 24 ~~~l~-~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~D~v~ 102 (187)
T PRK08287 24 LSKLE-LHRAKHLIDVGAGTGSVSIEAALQFPSLQVTAIERNPDALRLIKENRQRFGCGNIDIIPGEAPIELPGKADAIF 102 (187)
T ss_pred HHhcC-CCCCCEEEEECCcCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCeEEEecCchhhcCcCCCEEE
Confidence 34444 56778999999999999999999999999999999 8888777542 57999999987666654 9999
Q ss_pred eccccc
Q 024046 261 MKVGNF 266 (273)
Q Consensus 261 l~~vLH 266 (273)
+....+
T Consensus 103 ~~~~~~ 108 (187)
T PRK08287 103 IGGSGG 108 (187)
T ss_pred ECCCcc
Confidence 876543
No 21
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=98.70 E-value=1.2e-07 Score=83.11 Aligned_cols=85 Identities=15% Similarity=0.198 Sum_probs=65.0
Q ss_pred HHHHhhcccCCCcceEEEecCCccH----HHHHHHHHCC-----CCeEEEeec-hHHHHhCCCC----------------
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGV----TLSMITSKYP-----QIKAVNFDL-PHVVQDAPSY---------------- 239 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~----~~~~l~~~~P-----~l~~~~~Dl-p~v~~~a~~~---------------- 239 (273)
+.+++... ..+..+|+|+|||+|. +++.+++.+| +.++++.|+ |.+++.|+..
T Consensus 89 p~l~~~~~-~~~~~ri~d~GCgtGee~YslA~~l~e~~~~~~~~~~~I~g~Dis~~~L~~Ar~~~y~~~~~~~~~~~~~~ 167 (264)
T smart00138 89 PLLIASRR-HGRRVRIWSAGCSTGEEPYSLAMLLAETLPKAREPDVKILATDIDLKALEKARAGIYPERELEDLPKALLA 167 (264)
T ss_pred HHHHHhcC-CCCCEEEEeccccCChHHHHHHHHHHHHhhhcCCCCeEEEEEECCHHHHHHHHcCCCCHHHHhcCCHHHHh
Confidence 44444322 3456799999999997 6777777766 578999998 8888877651
Q ss_pred -----------------CCceEEEcccCCC-CCCC--CEEEecccccccCCC
Q 024046 240 -----------------AGVEHVGGNMFES-VPEG--DAILMKVGNFENYQS 271 (273)
Q Consensus 240 -----------------~ri~~~~gD~f~~-~p~~--D~~~l~~vLHd~~~~ 271 (273)
.+|+|..+|+.++ .|.+ |+|+++++||.++++
T Consensus 168 ~yf~~~~~~~~v~~~ir~~V~F~~~dl~~~~~~~~~fD~I~crnvl~yf~~~ 219 (264)
T smart00138 168 RYFSRVEDKYRVKPELKERVRFAKHNLLAESPPLGDFDLIFCRNVLIYFDEP 219 (264)
T ss_pred hhEEeCCCeEEEChHHhCcCEEeeccCCCCCCccCCCCEEEechhHHhCCHH
Confidence 3799999999984 4443 999999999999754
No 22
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=98.70 E-value=7.3e-09 Score=77.23 Aligned_cols=72 Identities=17% Similarity=0.382 Sum_probs=55.4
Q ss_pred EEEecCCccHHHHHHHHHC---CCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCC-CCCCC--CEEEec-ccccc
Q 024046 201 LVDVGGGFGVTLSMITSKY---PQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFE-SVPEG--DAILMK-VGNFE 267 (273)
Q Consensus 201 vvDVGGG~G~~~~~l~~~~---P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~-~~p~~--D~~~l~-~vLHd 267 (273)
|||+|||+|..+..+++.+ |+.+.+++|+ |++++.+++. .+++++.+|+.+ +++.+ |+|++. .++|.
T Consensus 1 ILDlgcG~G~~~~~l~~~~~~~~~~~~~gvD~s~~~l~~~~~~~~~~~~~~~~~~~D~~~l~~~~~~~D~v~~~~~~~~~ 80 (101)
T PF13649_consen 1 ILDLGCGTGRVTRALARRFDAGPSSRVIGVDISPEMLELAKKRFSEDGPKVRFVQADARDLPFSDGKFDLVVCSGLSLHH 80 (101)
T ss_dssp -EEET-TTSHHHHHHHHHS-----SEEEEEES-HHHHHHHHHHSHHTTTTSEEEESCTTCHHHHSSSEEEEEE-TTGGGG
T ss_pred CEEeecCCcHHHHHHHHHhhhcccceEEEEECCHHHHHHHHHhchhcCCceEEEECCHhHCcccCCCeeEEEEcCCccCC
Confidence 7999999999999999998 6789999998 8888877642 589999999987 44443 999995 54888
Q ss_pred cCCCC
Q 024046 268 NYQSH 272 (273)
Q Consensus 268 ~~~~~ 272 (273)
+++++
T Consensus 81 ~~~~~ 85 (101)
T PF13649_consen 81 LSPEE 85 (101)
T ss_dssp SSHHH
T ss_pred CCHHH
Confidence 87654
No 23
>PRK06202 hypothetical protein; Provisional
Probab=98.70 E-value=8.8e-08 Score=82.26 Aligned_cols=77 Identities=17% Similarity=0.069 Sum_probs=59.8
Q ss_pred CCcceEEEecCCccHHHHHHHHH----CCCCeEEEeec-hHHHHhCCCC---CCceEEEcccCC-CCCC-C-CEEEeccc
Q 024046 196 QNVERLVDVGGGFGVTLSMITSK----YPQIKAVNFDL-PHVVQDAPSY---AGVEHVGGNMFE-SVPE-G-DAILMKVG 264 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~----~P~l~~~~~Dl-p~v~~~a~~~---~ri~~~~gD~f~-~~p~-~-D~~~l~~v 264 (273)
.+..+|||||||+|.++..|++. .|+.+++++|+ |.+++.|+.. +++++..+|.-. +.+. . |+|+++.+
T Consensus 59 ~~~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~l~~~~~~fD~V~~~~~ 138 (232)
T PRK06202 59 DRPLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDPDPRAVAFARANPRRPGVTFRQAVSDELVAEGERFDVVTSNHF 138 (232)
T ss_pred CCCcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcCCHHHHHHHHhccccCCCeEEEEecccccccCCCccEEEECCe
Confidence 46689999999999999888764 56789999998 8999887754 557766665432 3333 3 99999999
Q ss_pred ccccCCCC
Q 024046 265 NFENYQSH 272 (273)
Q Consensus 265 LHd~~~~~ 272 (273)
||+.+|++
T Consensus 139 lhh~~d~~ 146 (232)
T PRK06202 139 LHHLDDAE 146 (232)
T ss_pred eecCChHH
Confidence 99998753
No 24
>PRK11207 tellurite resistance protein TehB; Provisional
Probab=98.67 E-value=5.5e-08 Score=81.56 Aligned_cols=83 Identities=14% Similarity=0.167 Sum_probs=65.2
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC-CCCCC-
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-SVPEG- 256 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~~p~~- 256 (273)
+.+++.++ .....+|||||||+|..+..|+++ ..+++++|+ |.+++.++.. .+|+++.+|+.+ +++..
T Consensus 20 ~~l~~~l~-~~~~~~vLDiGcG~G~~a~~La~~--g~~V~gvD~S~~~i~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~f 96 (197)
T PRK11207 20 SEVLEAVK-VVKPGKTLDLGCGNGRNSLYLAAN--GFDVTAWDKNPMSIANLERIKAAENLDNLHTAVVDLNNLTFDGEY 96 (197)
T ss_pred HHHHHhcc-cCCCCcEEEECCCCCHHHHHHHHC--CCEEEEEeCCHHHHHHHHHHHHHcCCCcceEEecChhhCCcCCCc
Confidence 45666665 455689999999999999999987 457999999 7777766542 458899999987 45544
Q ss_pred CEEEecccccccCCC
Q 024046 257 DAILMKVGNFENYQS 271 (273)
Q Consensus 257 D~~~l~~vLHd~~~~ 271 (273)
|+|++..++|..+++
T Consensus 97 D~I~~~~~~~~~~~~ 111 (197)
T PRK11207 97 DFILSTVVLMFLEAK 111 (197)
T ss_pred CEEEEecchhhCCHH
Confidence 999999999977643
No 25
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=98.66 E-value=5.9e-08 Score=85.06 Aligned_cols=83 Identities=22% Similarity=0.369 Sum_probs=67.3
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----CCCceEEEcccCC-CCCCC--
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----YAGVEHVGGNMFE-SVPEG-- 256 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gD~f~-~~p~~-- 256 (273)
...+++.+. +.+..+|||||||+|..+..+++.+ ..+++++|+ |.+++.|+. .++|+++.+|+.+ ++|.+
T Consensus 41 ~~~~l~~l~-l~~~~~VLDiGcG~G~~a~~la~~~-~~~v~giD~s~~~~~~a~~~~~~~~~i~~~~~D~~~~~~~~~~F 118 (263)
T PTZ00098 41 TTKILSDIE-LNENSKVLDIGSGLGGGCKYINEKY-GAHVHGVDICEKMVNIAKLRNSDKNKIEFEANDILKKDFPENTF 118 (263)
T ss_pred HHHHHHhCC-CCCCCEEEEEcCCCChhhHHHHhhc-CCEEEEEECCHHHHHHHHHHcCcCCceEEEECCcccCCCCCCCe
Confidence 345667666 7778899999999999999998876 578999998 777776654 2689999999987 67754
Q ss_pred CEEEecccccccC
Q 024046 257 DAILMKVGNFENY 269 (273)
Q Consensus 257 D~~~l~~vLHd~~ 269 (273)
|+|+...++|+++
T Consensus 119 D~V~s~~~l~h~~ 131 (263)
T PTZ00098 119 DMIYSRDAILHLS 131 (263)
T ss_pred EEEEEhhhHHhCC
Confidence 9999988877665
No 26
>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=98.65 E-value=9.1e-08 Score=81.41 Aligned_cols=99 Identities=15% Similarity=0.123 Sum_probs=69.0
Q ss_pred HHHHHHHHhcchhhHHHHHhhccc-CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CC
Q 024046 171 ETYHEAMFNHSTIAMERILEHYEG-FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AG 241 (273)
Q Consensus 171 ~~f~~am~~~~~~~~~~il~~~~~-~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~r 241 (273)
..+...|..........++..+.. ..+..+|||||||+|.++..+++.. .+++++|. |+++..|++. ++
T Consensus 28 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~~~--~~v~gvD~s~~~i~~a~~~~~~~~~~~~ 105 (219)
T TIGR02021 28 SRVRQTVREGRAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAKRG--AIVKAVDISEQMVQMARNRAQGRDVAGN 105 (219)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHHCC--CEEEEEECCHHHHHHHHHHHHhcCCCCc
Confidence 344444432222223344444331 3457899999999999999998863 47899998 8888877642 48
Q ss_pred ceEEEcccCCCCCCCCEEEecccccccCCC
Q 024046 242 VEHVGGNMFESVPEGDAILMKVGNFENYQS 271 (273)
Q Consensus 242 i~~~~gD~f~~~p~~D~~~l~~vLHd~~~~ 271 (273)
+++..+|+.+.....|++++..++|.++++
T Consensus 106 i~~~~~d~~~~~~~fD~ii~~~~l~~~~~~ 135 (219)
T TIGR02021 106 VEFEVNDLLSLCGEFDIVVCMDVLIHYPAS 135 (219)
T ss_pred eEEEECChhhCCCCcCEEEEhhHHHhCCHH
Confidence 999999987633334999999999887653
No 27
>PLN03075 nicotianamine synthase; Provisional
Probab=98.64 E-value=9.8e-08 Score=84.29 Aligned_cols=76 Identities=13% Similarity=0.143 Sum_probs=60.0
Q ss_pred CCCcceEEEecCCccHH--HHHHHHHCCCCeEEEeec-hHHHHhCCC--------CCCceEEEcccCCCCC--CC-CEEE
Q 024046 195 FQNVERLVDVGGGFGVT--LSMITSKYPQIKAVNFDL-PHVVQDAPS--------YAGVEHVGGNMFESVP--EG-DAIL 260 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~--~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gD~f~~~p--~~-D~~~ 260 (273)
..++++|+|||||.|-+ ...+++.+|+.+++++|. |+.++.|+. .+||+|..+|..+..+ .. |+|+
T Consensus 121 ~~~p~~VldIGcGpgpltaiilaa~~~p~~~~~giD~d~~ai~~Ar~~~~~~~gL~~rV~F~~~Da~~~~~~l~~FDlVF 200 (296)
T PLN03075 121 NGVPTKVAFVGSGPLPLTSIVLAKHHLPTTSFHNFDIDPSANDVARRLVSSDPDLSKRMFFHTADVMDVTESLKEYDVVF 200 (296)
T ss_pred cCCCCEEEEECCCCcHHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHhhhccCccCCcEEEECchhhcccccCCcCEEE
Confidence 34789999999998844 444556799999999998 888877654 1689999999988433 23 9999
Q ss_pred ecccccccCCC
Q 024046 261 MKVGNFENYQS 271 (273)
Q Consensus 261 l~~vLHd~~~~ 271 (273)
+. +||+|..+
T Consensus 201 ~~-ALi~~dk~ 210 (296)
T PLN03075 201 LA-ALVGMDKE 210 (296)
T ss_pred Ee-cccccccc
Confidence 99 99999643
No 28
>PLN02490 MPBQ/MSBQ methyltransferase
Probab=98.63 E-value=9e-08 Score=86.48 Aligned_cols=75 Identities=21% Similarity=0.224 Sum_probs=64.9
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC---CCceEEEcccCC-CCCCC--CEEEecccccccC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY---AGVEHVGGNMFE-SVPEG--DAILMKVGNFENY 269 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~---~ri~~~~gD~f~-~~p~~--D~~~l~~vLHd~~ 269 (273)
...+|||||||+|.++..+++.+|..+++++|. |.+++.|++. .+++++.+|+.+ +++.+ |+|++..+||.|+
T Consensus 113 ~~~~VLDLGcGtG~~~l~La~~~~~~~VtgVD~S~~mL~~A~~k~~~~~i~~i~gD~e~lp~~~~sFDvVIs~~~L~~~~ 192 (340)
T PLN02490 113 RNLKVVDVGGGTGFTTLGIVKHVDAKNVTILDQSPHQLAKAKQKEPLKECKIIEGDAEDLPFPTDYADRYVSAGSIEYWP 192 (340)
T ss_pred CCCEEEEEecCCcHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhhhccCCeEEeccHHhCCCCCCceeEEEEcChhhhCC
Confidence 457999999999999999999999899999998 8888877653 679999999987 56653 9999999999998
Q ss_pred CC
Q 024046 270 QS 271 (273)
Q Consensus 270 ~~ 271 (273)
+.
T Consensus 193 d~ 194 (340)
T PLN02490 193 DP 194 (340)
T ss_pred CH
Confidence 74
No 29
>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes.
Probab=98.61 E-value=6.6e-08 Score=82.41 Aligned_cols=72 Identities=14% Similarity=0.264 Sum_probs=60.8
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCC-CCCCC-CEEEeccccccc
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFE-SVPEG-DAILMKVGNFEN 268 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~-~~p~~-D~~~l~~vLHd~ 268 (273)
++|||||||.|.++..+++.+|+.+++++|+ |..++.++. .++|+++.+|+.+ +.+.. |+|+...++|+.
T Consensus 1 ~~vLDiGcG~G~~~~~la~~~~~~~v~gid~s~~~~~~a~~~~~~~gl~~~i~~~~~d~~~~~~~~~fD~I~~~~~l~~~ 80 (224)
T smart00828 1 KRVLDFGCGYGSDLIDLAERHPHLQLHGYTISPEQAEVGRERIRALGLQGRIRIFYRDSAKDPFPDTYDLVFGFEVIHHI 80 (224)
T ss_pred CeEEEECCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhcCCCcceEEEecccccCCCCCCCCEeehHHHHHhC
Confidence 4799999999999999999999999999998 777666654 2689999999976 45544 999999999987
Q ss_pred CC
Q 024046 269 YQ 270 (273)
Q Consensus 269 ~~ 270 (273)
.+
T Consensus 81 ~~ 82 (224)
T smart00828 81 KD 82 (224)
T ss_pred CC
Confidence 65
No 30
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=98.61 E-value=3.6e-07 Score=78.17 Aligned_cols=83 Identities=16% Similarity=0.236 Sum_probs=66.0
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC-CCCCC
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE-SVPEG 256 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~-~~p~~ 256 (273)
.++..+. ..+..+|+|||||.|.++..+++.+| +.+++++|. |.+++.++.. ++++++.+|+.. +.+.+
T Consensus 42 ~~~~~~~-~~~~~~vldiG~G~G~~~~~l~~~~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~ 120 (239)
T PRK00216 42 KTIKWLG-VRPGDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGDAEALPFPDN 120 (239)
T ss_pred HHHHHhC-CCCCCeEEEeCCCCCHHHHHHHHHcCCCCeEEEEeCCHHHHHHHHHhhcccccccCeEEEecccccCCCCCC
Confidence 3444444 44567999999999999999999998 789999998 6776666542 579999999987 44433
Q ss_pred --CEEEecccccccCC
Q 024046 257 --DAILMKVGNFENYQ 270 (273)
Q Consensus 257 --D~~~l~~vLHd~~~ 270 (273)
|+|++.+++|.+++
T Consensus 121 ~~D~I~~~~~l~~~~~ 136 (239)
T PRK00216 121 SFDAVTIAFGLRNVPD 136 (239)
T ss_pred CccEEEEecccccCCC
Confidence 99999999998765
No 31
>PRK08317 hypothetical protein; Provisional
Probab=98.61 E-value=1.6e-07 Score=80.16 Aligned_cols=83 Identities=24% Similarity=0.272 Sum_probs=67.4
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHHhCCC-----CCCceEEEcccCC-CCCCC--C
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-PHVVQDAPS-----YAGVEHVGGNMFE-SVPEG--D 257 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gD~f~-~~p~~--D 257 (273)
++..++ +....+|||||||+|.++..+++.+ |..+++++|+ |..++.++. .++++++.+|+.. +++.+ |
T Consensus 11 ~~~~~~-~~~~~~vLdiG~G~G~~~~~~a~~~~~~~~v~~~d~~~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~~D 89 (241)
T PRK08317 11 TFELLA-VQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKERAAGLGPNVEFVRGDADGLPFPDGSFD 89 (241)
T ss_pred HHHHcC-CCCCCEEEEeCCCCCHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHHhhCCCCceEEEecccccCCCCCCCce
Confidence 445555 6677899999999999999999998 8889999998 776666643 2679999999886 56543 9
Q ss_pred EEEecccccccCCC
Q 024046 258 AILMKVGNFENYQS 271 (273)
Q Consensus 258 ~~~l~~vLHd~~~~ 271 (273)
++++.+++|++++.
T Consensus 90 ~v~~~~~~~~~~~~ 103 (241)
T PRK08317 90 AVRSDRVLQHLEDP 103 (241)
T ss_pred EEEEechhhccCCH
Confidence 99999999988763
No 32
>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=98.61 E-value=7.7e-08 Score=69.90 Aligned_cols=67 Identities=16% Similarity=0.298 Sum_probs=56.3
Q ss_pred EEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC---CCceEEEcccCC-CCCCC--CEEEecccccccC
Q 024046 202 VDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY---AGVEHVGGNMFE-SVPEG--DAILMKVGNFENY 269 (273)
Q Consensus 202 vDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~---~ri~~~~gD~f~-~~p~~--D~~~l~~vLHd~~ 269 (273)
||||||+|..+..++++ |..+.+++|. +..++.+++. .+++++.+|+.+ |+|.+ |++++.+++|.+.
T Consensus 1 LdiG~G~G~~~~~l~~~-~~~~v~~~D~~~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~sfD~v~~~~~~~~~~ 74 (95)
T PF08241_consen 1 LDIGCGTGRFAAALAKR-GGASVTGIDISEEMLEQARKRLKNEGVSFRQGDAEDLPFPDNSFDVVFSNSVLHHLE 74 (95)
T ss_dssp EEET-TTSHHHHHHHHT-TTCEEEEEES-HHHHHHHHHHTTTSTEEEEESBTTSSSS-TT-EEEEEEESHGGGSS
T ss_pred CEecCcCCHHHHHHHhc-cCCEEEEEeCCHHHHHHHHhcccccCchheeehHHhCccccccccccccccceeecc
Confidence 79999999999999999 9999999998 7777777652 567899999988 77764 9999999999883
No 33
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=98.58 E-value=1.9e-07 Score=88.60 Aligned_cols=84 Identities=17% Similarity=0.302 Sum_probs=68.1
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCC-CCCCC--
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFE-SVPEG-- 256 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~-~~p~~-- 256 (273)
..+++.+. +++..+|||||||+|..+..+++.+ +.+++++|+ |.+++.|+.. .+++++.+|+++ ++|.+
T Consensus 256 e~l~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvDiS~~~l~~A~~~~~~~~~~v~~~~~d~~~~~~~~~~f 333 (475)
T PLN02336 256 KEFVDKLD-LKPGQKVLDVGCGIGGGDFYMAENF-DVHVVGIDLSVNMISFALERAIGRKCSVEFEVADCTKKTYPDNSF 333 (475)
T ss_pred HHHHHhcC-CCCCCEEEEEeccCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHhhcCCCceEEEEcCcccCCCCCCCE
Confidence 44566665 6667899999999999999998877 779999999 7777766432 589999999998 56753
Q ss_pred CEEEecccccccCCC
Q 024046 257 DAILMKVGNFENYQS 271 (273)
Q Consensus 257 D~~~l~~vLHd~~~~ 271 (273)
|+|++..+++++++.
T Consensus 334 D~I~s~~~l~h~~d~ 348 (475)
T PLN02336 334 DVIYSRDTILHIQDK 348 (475)
T ss_pred EEEEECCcccccCCH
Confidence 999999999888763
No 34
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.57 E-value=1.4e-07 Score=82.19 Aligned_cols=80 Identities=21% Similarity=0.192 Sum_probs=63.5
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC--CCCC-
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE--SVPE- 255 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~--~~p~- 255 (273)
.+++.++ +...+|||||||+|.++..+++.. .+++++|+ |++++.|++. ++++++.+|+.+ +.+.
T Consensus 36 ~~l~~l~--~~~~~vLDiGcG~G~~a~~la~~g--~~v~~vD~s~~~l~~a~~~~~~~g~~~~v~~~~~d~~~l~~~~~~ 111 (255)
T PRK11036 36 RLLAELP--PRPLRVLDAGGGEGQTAIKLAELG--HQVILCDLSAEMIQRAKQAAEAKGVSDNMQFIHCAAQDIAQHLET 111 (255)
T ss_pred HHHHhcC--CCCCEEEEeCCCchHHHHHHHHcC--CEEEEEECCHHHHHHHHHHHHhcCCccceEEEEcCHHHHhhhcCC
Confidence 4455544 456799999999999999999974 57899998 8888877642 578999999975 3443
Q ss_pred -CCEEEecccccccCC
Q 024046 256 -GDAILMKVGNFENYQ 270 (273)
Q Consensus 256 -~D~~~l~~vLHd~~~ 270 (273)
.|+|++..+||..++
T Consensus 112 ~fD~V~~~~vl~~~~~ 127 (255)
T PRK11036 112 PVDLILFHAVLEWVAD 127 (255)
T ss_pred CCCEEEehhHHHhhCC
Confidence 399999999998765
No 35
>PRK05785 hypothetical protein; Provisional
Probab=98.56 E-value=1.7e-07 Score=80.38 Aligned_cols=72 Identities=13% Similarity=0.175 Sum_probs=61.0
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCceEEEcccCC-CCCCC--CEEEecccccccCCC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVEHVGGNMFE-SVPEG--DAILMKVGNFENYQS 271 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gD~f~-~~p~~--D~~~l~~vLHd~~~~ 271 (273)
...+|||||||+|.++..+++++ +.+++++|. |++++.|+.. ..++.+|+.+ |++.+ |++++...||+++|.
T Consensus 51 ~~~~VLDlGcGtG~~~~~l~~~~-~~~v~gvD~S~~Ml~~a~~~--~~~~~~d~~~lp~~d~sfD~v~~~~~l~~~~d~ 126 (226)
T PRK05785 51 RPKKVLDVAAGKGELSYHFKKVF-KYYVVALDYAENMLKMNLVA--DDKVVGSFEALPFRDKSFDVVMSSFALHASDNI 126 (226)
T ss_pred CCCeEEEEcCCCCHHHHHHHHhc-CCEEEEECCCHHHHHHHHhc--cceEEechhhCCCCCCCEEEEEecChhhccCCH
Confidence 46799999999999999999998 578999998 9999988753 3567889877 67654 999999999988764
No 36
>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=98.56 E-value=2.3e-07 Score=79.29 Aligned_cols=74 Identities=16% Similarity=0.299 Sum_probs=62.0
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC--CCceEEEcccCC-CCCCC--CEEEecccccccCC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY--AGVEHVGGNMFE-SVPEG--DAILMKVGNFENYQ 270 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~--~ri~~~~gD~f~-~~p~~--D~~~l~~vLHd~~~ 270 (273)
...+|||||||+|.++..+++.+|+.+++++|. |.++..++.. ++++++.+|+.. +++.. |+++..+++|...+
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 457899999999999999999999999999998 7777666543 589999999987 55543 99999999997644
No 37
>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated
Probab=98.55 E-value=2e-07 Score=79.56 Aligned_cols=74 Identities=22% Similarity=0.225 Sum_probs=59.1
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCCCCC-CCEEEecccc
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFESVPE-GDAILMKVGN 265 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~~p~-~D~~~l~~vL 265 (273)
..+..+|||||||+|.++..++++.+ +++++|+ +.+++.|+.. ++|+++.+| +...+. .|++++..++
T Consensus 61 ~~~~~~vLDvGcG~G~~~~~l~~~~~--~v~~~D~s~~~i~~a~~~~~~~~~~~~i~~~~~d-~~~~~~~fD~v~~~~~l 137 (230)
T PRK07580 61 DLTGLRILDAGCGVGSLSIPLARRGA--KVVASDISPQMVEEARERAPEAGLAGNITFEVGD-LESLLGRFDTVVCLDVL 137 (230)
T ss_pred CCCCCEEEEEeCCCCHHHHHHHHcCC--EEEEEECCHHHHHHHHHHHHhcCCccCcEEEEcC-chhccCCcCEEEEcchh
Confidence 34567999999999999999998865 4899998 7788777642 489999999 433333 4999999999
Q ss_pred cccCCC
Q 024046 266 FENYQS 271 (273)
Q Consensus 266 Hd~~~~ 271 (273)
|.++++
T Consensus 138 ~~~~~~ 143 (230)
T PRK07580 138 IHYPQE 143 (230)
T ss_pred hcCCHH
Confidence 888765
No 38
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=98.52 E-value=6.8e-07 Score=77.59 Aligned_cols=83 Identities=14% Similarity=0.180 Sum_probs=64.0
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-CCceEEEcccCC-CCCCC--CEE
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-AGVEHVGGNMFE-SVPEG--DAI 259 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-~ri~~~~gD~f~-~~p~~--D~~ 259 (273)
+..+++.++ .....+|||||||+|.++..+.+. ..+++++|+ |.+++.++.. ..++++.+|+.. +++.+ |+|
T Consensus 31 a~~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~~D~s~~~l~~a~~~~~~~~~~~~d~~~~~~~~~~fD~V 107 (251)
T PRK10258 31 ADALLAMLP-QRKFTHVLDAGCGPGWMSRYWRER--GSQVTALDLSPPMLAQARQKDAADHYLAGDIESLPLATATFDLA 107 (251)
T ss_pred HHHHHHhcC-ccCCCeEEEeeCCCCHHHHHHHHc--CCeEEEEECCHHHHHHHHhhCCCCCEEEcCcccCcCCCCcEEEE
Confidence 445556555 345689999999999999888775 467999999 8888888764 456889999977 66653 999
Q ss_pred EecccccccCC
Q 024046 260 LMKVGNFENYQ 270 (273)
Q Consensus 260 ~l~~vLHd~~~ 270 (273)
+....+|..+|
T Consensus 108 ~s~~~l~~~~d 118 (251)
T PRK10258 108 WSNLAVQWCGN 118 (251)
T ss_pred EECchhhhcCC
Confidence 99988885443
No 39
>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=98.49 E-value=2.5e-07 Score=75.78 Aligned_cols=66 Identities=29% Similarity=0.492 Sum_probs=56.4
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCCC-C-CEEEec
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVPE-G-DAILMK 262 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p~-~-D~~~l~ 262 (273)
...+|||+|||+|.++..+++++|+.+++.+|. |.+++.++.+ +.++++..|++++.+. . |+|++.
T Consensus 31 ~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~v~~~~~d~~~~~~~~~fD~Iv~N 105 (170)
T PF05175_consen 31 KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLENVEVVQSDLFEALPDGKFDLIVSN 105 (170)
T ss_dssp TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTTEEEEESSTTTTCCTTCEEEEEE-
T ss_pred cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccccccccccccccccccceeEEEEc
Confidence 668899999999999999999999999999998 8888777542 3399999999998774 3 999875
No 40
>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=98.46 E-value=6.4e-07 Score=75.77 Aligned_cols=83 Identities=16% Similarity=0.206 Sum_probs=66.3
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCC-CeEEEeec-hHHHHhCCC----CCCceEEEcccCC-CCCCC--C
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQ-IKAVNFDL-PHVVQDAPS----YAGVEHVGGNMFE-SVPEG--D 257 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~----~~ri~~~~gD~f~-~~p~~--D 257 (273)
.++.... ..+..+|||+|||.|.++..+++.+|. .+++++|. |.+++.++. .++++++.+|+.+ +.+.+ |
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 3444444 446789999999999999999999997 78999998 777776654 2579999999987 45543 9
Q ss_pred EEEecccccccCC
Q 024046 258 AILMKVGNFENYQ 270 (273)
Q Consensus 258 ~~~l~~vLHd~~~ 270 (273)
++++..++|+.++
T Consensus 109 ~i~~~~~~~~~~~ 121 (223)
T TIGR01934 109 AVTIAFGLRNVTD 121 (223)
T ss_pred EEEEeeeeCCccc
Confidence 9999999987765
No 41
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=98.44 E-value=5.5e-07 Score=82.54 Aligned_cols=78 Identities=26% Similarity=0.273 Sum_probs=61.7
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC---------CCceEEEcccCCCCCC
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY---------AGVEHVGGNMFESVPE 255 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~---------~ri~~~~gD~f~~~p~ 255 (273)
.-+++.++ .....+|||||||+|.++..+++++|+.+++.+|. +.+++.++.+ ++++++.+|.++.++.
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 34566665 33346999999999999999999999999999998 6777766531 3789999999987654
Q ss_pred -C-CEEEeccc
Q 024046 256 -G-DAILMKVG 264 (273)
Q Consensus 256 -~-D~~~l~~v 264 (273)
. |+|++.=-
T Consensus 297 ~~fDlIlsNPP 307 (378)
T PRK15001 297 FRFNAVLCNPP 307 (378)
T ss_pred CCEEEEEECcC
Confidence 3 99999533
No 42
>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=98.43 E-value=1.1e-06 Score=67.11 Aligned_cols=78 Identities=15% Similarity=0.179 Sum_probs=59.6
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------CCCceEEEcccCC---CCCC-C
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------YAGVEHVGGNMFE---SVPE-G 256 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gD~f~---~~p~-~ 256 (273)
++..+. .....+|+|||||+|.++..+++++|+.+++++|. +..++.++. .++++++.+|... ..+. .
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 445554 55567999999999999999999999999999998 777766543 2679999998764 2233 3
Q ss_pred CEEEeccccc
Q 024046 257 DAILMKVGNF 266 (273)
Q Consensus 257 D~~~l~~vLH 266 (273)
|++++....+
T Consensus 90 D~v~~~~~~~ 99 (124)
T TIGR02469 90 DRVFIGGSGG 99 (124)
T ss_pred CEEEECCcch
Confidence 9999876543
No 43
>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=98.41 E-value=2.9e-07 Score=76.15 Aligned_cols=70 Identities=20% Similarity=0.183 Sum_probs=54.9
Q ss_pred cceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------CCCceEEEcccCCC-CCC-CCEEEeccccccc
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------YAGVEHVGGNMFES-VPE-GDAILMKVGNFEN 268 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gD~f~~-~p~-~D~~~l~~vLHd~ 268 (273)
..+|+|||||+|..+..++..+|+.+++++|. |.+++.++. .++|+++.+|+.+- ... .|+|++.. +|+.
T Consensus 43 ~~~vLDiGcGtG~~s~~la~~~~~~~V~~iD~s~~~~~~a~~~~~~~~~~~i~~i~~d~~~~~~~~~fD~I~s~~-~~~~ 121 (181)
T TIGR00138 43 GKKVIDIGSGAGFPGIPLAIARPELKLTLLESNHKKVAFLREVKAELGLNNVEIVNGRAEDFQHEEQFDVITSRA-LASL 121 (181)
T ss_pred CCeEEEecCCCCccHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHhCCCCeEEEecchhhccccCCccEEEehh-hhCH
Confidence 57999999999999999999999999999998 666655432 25799999999762 222 39988765 5543
No 44
>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=98.41 E-value=5.3e-07 Score=79.91 Aligned_cols=66 Identities=21% Similarity=0.387 Sum_probs=56.9
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCCCCC-C-CEEEec
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFESVPE-G-DAILMK 262 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~~p~-~-D~~~l~ 262 (273)
+..+|+|+|||+|.++..+++++|+.+++++|+ |.+++.|+.+ ++|+++.+|+++++|. . |++++.
T Consensus 121 ~~~~vLDlG~GsG~i~~~la~~~~~~~v~avDis~~al~~A~~n~~~~~~~~~i~~~~~D~~~~~~~~~fD~Iv~N 196 (284)
T TIGR03533 121 PVKRILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINIERHGLEDRVTLIQSDLFAALPGRKYDLIVSN 196 (284)
T ss_pred CCCEEEEEeCchhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhccCCCCccEEEEC
Confidence 457899999999999999999999999999998 8888877642 5799999999987765 3 999874
No 45
>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=98.41 E-value=4.3e-07 Score=75.09 Aligned_cols=77 Identities=21% Similarity=0.315 Sum_probs=60.2
Q ss_pred hcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----CCCceEEEcccCCCCCCC--CEEEecc
Q 024046 191 HYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----YAGVEHVGGNMFESVPEG--DAILMKV 263 (273)
Q Consensus 191 ~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gD~f~~~p~~--D~~~l~~ 263 (273)
.++ -....+++|||||.|.+...|+.++- +.+++|. |..++.|++ .++|+++.+|+-...|.+ |+++++-
T Consensus 38 aLp-~~ry~~alEvGCs~G~lT~~LA~rCd--~LlavDis~~Al~~Ar~Rl~~~~~V~~~~~dvp~~~P~~~FDLIV~SE 114 (201)
T PF05401_consen 38 ALP-RRRYRRALEVGCSIGVLTERLAPRCD--RLLAVDISPRALARARERLAGLPHVEWIQADVPEFWPEGRFDLIVLSE 114 (201)
T ss_dssp HHT-TSSEEEEEEE--TTSHHHHHHGGGEE--EEEEEES-HHHHHHHHHHTTT-SSEEEEES-TTT---SS-EEEEEEES
T ss_pred hcC-ccccceeEecCCCccHHHHHHHHhhC--ceEEEeCCHHHHHHHHHhcCCCCCeEEEECcCCCCCCCCCeeEEEEeh
Confidence 455 56778999999999999999999974 5799998 888888865 388999999998878865 9999999
Q ss_pred cccccCC
Q 024046 264 GNFENYQ 270 (273)
Q Consensus 264 vLHd~~~ 270 (273)
|+|++++
T Consensus 115 VlYYL~~ 121 (201)
T PF05401_consen 115 VLYYLDD 121 (201)
T ss_dssp -GGGSSS
T ss_pred HhHcCCC
Confidence 9999986
No 46
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=98.39 E-value=8.1e-07 Score=80.11 Aligned_cols=83 Identities=13% Similarity=0.133 Sum_probs=61.2
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCC-------CCCCceEEEcccCC-CCCCC-
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAP-------SYAGVEHVGGNMFE-SVPEG- 256 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~-------~~~ri~~~~gD~f~-~~p~~- 256 (273)
.++..++.+ ...+|||||||+|.++..+++..|. +++++|. +..+..++ ...+|+++.+|+.+ +.+..
T Consensus 113 ~l~~~l~~l-~g~~VLDIGCG~G~~~~~la~~g~~-~V~GiD~S~~~l~q~~a~~~~~~~~~~i~~~~~d~e~lp~~~~F 190 (322)
T PRK15068 113 RVLPHLSPL-KGRTVLDVGCGNGYHMWRMLGAGAK-LVVGIDPSQLFLCQFEAVRKLLGNDQRAHLLPLGIEQLPALKAF 190 (322)
T ss_pred HHHHhhCCC-CCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHhcCCCCCeEEEeCCHHHCCCcCCc
Confidence 334454423 4589999999999999999999887 5999997 43333211 13579999999876 45444
Q ss_pred CEEEecccccccCCC
Q 024046 257 DAILMKVGNFENYQS 271 (273)
Q Consensus 257 D~~~l~~vLHd~~~~ 271 (273)
|+|++..+||+..+.
T Consensus 191 D~V~s~~vl~H~~dp 205 (322)
T PRK15068 191 DTVFSMGVLYHRRSP 205 (322)
T ss_pred CEEEECChhhccCCH
Confidence 999999999987653
No 47
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=98.38 E-value=4.5e-07 Score=81.59 Aligned_cols=73 Identities=15% Similarity=0.031 Sum_probs=59.3
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC-CCCC--CCEEEecccc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE-SVPE--GDAILMKVGN 265 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~-~~p~--~D~~~l~~vL 265 (273)
...+|||||||+|.++..+++ +..+++++|. +..++.|+.+ .+|+++.+|+.+ +.+. .|+|++..+|
T Consensus 131 ~g~~ILDIGCG~G~~s~~La~--~g~~V~GID~s~~~i~~Ar~~~~~~~~~~~i~~~~~dae~l~~~~~~FD~Vi~~~vL 208 (322)
T PLN02396 131 EGLKFIDIGCGGGLLSEPLAR--MGATVTGVDAVDKNVKIARLHADMDPVTSTIEYLCTTAEKLADEGRKFDAVLSLEVI 208 (322)
T ss_pred CCCEEEEeeCCCCHHHHHHHH--cCCEEEEEeCCHHHHHHHHHHHHhcCcccceeEEecCHHHhhhccCCCCEEEEhhHH
Confidence 346899999999999998886 4678999998 8888877642 479999999865 4443 3999999999
Q ss_pred cccCCC
Q 024046 266 FENYQS 271 (273)
Q Consensus 266 Hd~~~~ 271 (273)
|+..|.
T Consensus 209 eHv~d~ 214 (322)
T PLN02396 209 EHVANP 214 (322)
T ss_pred HhcCCH
Confidence 998774
No 48
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=98.37 E-value=8.2e-07 Score=78.46 Aligned_cols=63 Identities=24% Similarity=0.413 Sum_probs=54.6
Q ss_pred eEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCCCC-CEEEec
Q 024046 200 RLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVPEG-DAILMK 262 (273)
Q Consensus 200 ~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p~~-D~~~l~ 262 (273)
+|+|||||+|..++.+++++|++++++.|+ |..++.|+.+ .++.++.+|+|.+.+.. |+++.+
T Consensus 113 ~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l~~~~~~~~dlf~~~~~~fDlIVsN 183 (280)
T COG2890 113 RILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGLVRVLVVQSDLFEPLRGKFDLIVSN 183 (280)
T ss_pred cEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCCccEEEEeeecccccCCceeEEEeC
Confidence 899999999999999999999999999998 8888887653 56777888999987754 988753
No 49
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.37 E-value=5.7e-07 Score=80.56 Aligned_cols=64 Identities=20% Similarity=0.361 Sum_probs=56.1
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCCCCC--CCEEEec
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFESVPE--GDAILMK 262 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~~p~--~D~~~l~ 262 (273)
.+|+|+|||+|.++..+++++|+.+++++|+ |.+++.|+.+ +||+++.+|+++++|. .|+|++.
T Consensus 135 ~~VLDlG~GsG~iai~la~~~p~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~l~~~~fDlIvsN 208 (307)
T PRK11805 135 TRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAALPGRRYDLIVSN 208 (307)
T ss_pred CEEEEEechhhHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhhCCCCCccEEEEC
Confidence 6899999999999999999999999999999 8888877642 5799999999987764 3999874
No 50
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=98.36 E-value=1.1e-06 Score=77.36 Aligned_cols=76 Identities=21% Similarity=0.311 Sum_probs=62.7
Q ss_pred CCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC-CCCCC--CEEEecc
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-SVPEG--DAILMKV 263 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~~p~~--D~~~l~~ 263 (273)
+....+|||||||+|..+..+++.+ |+.+++++|+ |.+++.|+++ ++++++.+|+.. +++.+ |+++...
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 5677899999999999888877764 6678999998 8888877642 689999999877 66653 9999999
Q ss_pred cccccCC
Q 024046 264 GNFENYQ 270 (273)
Q Consensus 264 vLHd~~~ 270 (273)
++|.+++
T Consensus 155 v~~~~~d 161 (272)
T PRK11873 155 VINLSPD 161 (272)
T ss_pred cccCCCC
Confidence 9998765
No 51
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=98.36 E-value=1e-06 Score=73.72 Aligned_cols=82 Identities=13% Similarity=0.095 Sum_probs=61.4
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCC-CCCCC-CE
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFE-SVPEG-DA 258 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~-~~p~~-D~ 258 (273)
.+++.++ .....+|||||||+|..+..++++ ..+++++|. |.+++.++.. -++++..+|+.. +.+.. |+
T Consensus 21 ~l~~~~~-~~~~~~vLDiGcG~G~~a~~la~~--g~~V~~iD~s~~~l~~a~~~~~~~~~~v~~~~~d~~~~~~~~~fD~ 97 (195)
T TIGR00477 21 AVREAVK-TVAPCKTLDLGCGQGRNSLYLSLA--GYDVRAWDHNPASIASVLDMKARENLPLRTDAYDINAAALNEDYDF 97 (195)
T ss_pred HHHHHhc-cCCCCcEEEeCCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHHhCCCceeEeccchhccccCCCCE
Confidence 4555555 445679999999999999999986 468999998 7777766432 137778888765 34444 99
Q ss_pred EEecccccccCCC
Q 024046 259 ILMKVGNFENYQS 271 (273)
Q Consensus 259 ~~l~~vLHd~~~~ 271 (273)
|++..++|..+++
T Consensus 98 I~~~~~~~~~~~~ 110 (195)
T TIGR00477 98 IFSTVVFMFLQAG 110 (195)
T ss_pred EEEecccccCCHH
Confidence 9999999987643
No 52
>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=98.34 E-value=1.4e-06 Score=77.12 Aligned_cols=64 Identities=23% Similarity=0.466 Sum_probs=55.6
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCCCCC-C-CEEEec
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFESVPE-G-DAILMK 262 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~~p~-~-D~~~l~ 262 (273)
.+|+|+|||+|.++..+++.+|+.+++++|+ |.+++.|+.+ +|++++.+|++++++. . |+++..
T Consensus 116 ~~vLDlG~GsG~i~l~la~~~~~~~v~avDis~~al~~a~~n~~~~~~~~~v~~~~~d~~~~~~~~~fDlIvsN 189 (284)
T TIGR00536 116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEPLAGQKIDIIVSN 189 (284)
T ss_pred CEEEEEeccHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhccCcCCCccEEEEC
Confidence 6899999999999999999999999999998 8788777642 4699999999998775 3 998874
No 53
>PRK04457 spermidine synthase; Provisional
Probab=98.33 E-value=8.2e-07 Score=77.78 Aligned_cols=67 Identities=19% Similarity=0.304 Sum_probs=57.2
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCC---CCCCC-CEEEec
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFE---SVPEG-DAILMK 262 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~---~~p~~-D~~~l~ 262 (273)
+.+++|||||||.|.++..+++.+|+.+++++|+ |.|++.|++ .+|++++.+|..+ ..++. |+|++-
T Consensus 65 ~~~~~vL~IG~G~G~l~~~l~~~~p~~~v~~VEidp~vi~~A~~~f~~~~~~~rv~v~~~Da~~~l~~~~~~yD~I~~D 143 (262)
T PRK04457 65 PRPQHILQIGLGGGSLAKFIYTYLPDTRQTAVEINPQVIAVARNHFELPENGERFEVIEADGAEYIAVHRHSTDVILVD 143 (262)
T ss_pred CCCCEEEEECCCHhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHcCCCCCCCceEEEECCHHHHHHhCCCCCCEEEEe
Confidence 4568999999999999999999999999999999 999988764 2789999999865 34444 999874
No 54
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=98.31 E-value=2.5e-06 Score=70.96 Aligned_cols=68 Identities=24% Similarity=0.235 Sum_probs=55.7
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC-CCCC-CCEEEecc
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-SVPE-GDAILMKV 263 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~~p~-~D~~~l~~ 263 (273)
+...+|||||||+|..+..+++++|..+++++|. +.+++.|+.. ++|+++.+|..+ +..+ .|++++..
T Consensus 44 ~~g~~VLDiGcGtG~~al~la~~~~~~~V~giD~s~~~l~~A~~~~~~~~l~~i~~~~~d~~~~~~~~~fDlV~~~~ 120 (187)
T PRK00107 44 PGGERVLDVGSGAGFPGIPLAIARPELKVTLVDSLGKKIAFLREVAAELGLKNVTVVHGRAEEFGQEEKFDVVTSRA 120 (187)
T ss_pred CCCCeEEEEcCCCCHHHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHcCCCCEEEEeccHhhCCCCCCccEEEEcc
Confidence 3478999999999999999999999999999998 7777766542 459999999977 2322 39999864
No 55
>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=98.30 E-value=1.9e-06 Score=71.90 Aligned_cols=73 Identities=19% Similarity=0.338 Sum_probs=57.9
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCceEEEcccCC---CCCC--CCEEEecccccccC
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVEHVGGNMFE---SVPE--GDAILMKVGNFENY 269 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gD~f~---~~p~--~D~~~l~~vLHd~~ 269 (273)
+...+|||||||+|.++..+++.. ..+++++|. ++.++.++. .+++++.+|+.. +++. .|+|++.++||+..
T Consensus 12 ~~~~~iLDiGcG~G~~~~~l~~~~-~~~~~giD~s~~~i~~a~~-~~~~~~~~d~~~~l~~~~~~sfD~Vi~~~~l~~~~ 89 (194)
T TIGR02081 12 PPGSRVLDLGCGDGELLALLRDEK-QVRGYGIEIDQDGVLACVA-RGVNVIQGDLDEGLEAFPDKSFDYVILSQTLQATR 89 (194)
T ss_pred CCCCEEEEeCCCCCHHHHHHHhcc-CCcEEEEeCCHHHHHHHHH-cCCeEEEEEhhhcccccCCCCcCEEEEhhHhHcCc
Confidence 355799999999999998887764 567899998 777776653 468999999875 3443 39999999999876
Q ss_pred C
Q 024046 270 Q 270 (273)
Q Consensus 270 ~ 270 (273)
|
T Consensus 90 d 90 (194)
T TIGR02081 90 N 90 (194)
T ss_pred C
Confidence 5
No 56
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=98.29 E-value=2.4e-06 Score=77.55 Aligned_cols=80 Identities=19% Similarity=0.304 Sum_probs=62.7
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCCCCCCC-CEEE
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFESVPEG-DAIL 260 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~~~p~~-D~~~ 260 (273)
+++.++ .....+|||+|||+|.++..+++++|+.+++++|. +.+++.++.. -..+++.+|.+.+.++. |+|+
T Consensus 188 Ll~~l~-~~~~g~VLDlGCG~G~ls~~la~~~p~~~v~~vDis~~Al~~A~~nl~~n~l~~~~~~~D~~~~~~~~fDlIv 266 (342)
T PRK09489 188 LLSTLT-PHTKGKVLDVGCGAGVLSAVLARHSPKIRLTLSDVSAAALESSRATLAANGLEGEVFASNVFSDIKGRFDMII 266 (342)
T ss_pred HHHhcc-ccCCCeEEEeccCcCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCEEEEcccccccCCCccEEE
Confidence 444444 23345899999999999999999999999999998 7777777542 23578889998866554 9999
Q ss_pred eccccccc
Q 024046 261 MKVGNFEN 268 (273)
Q Consensus 261 l~~vLHd~ 268 (273)
+.--+|+.
T Consensus 267 sNPPFH~g 274 (342)
T PRK09489 267 SNPPFHDG 274 (342)
T ss_pred ECCCccCC
Confidence 98888864
No 57
>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=98.29 E-value=2.1e-06 Score=74.23 Aligned_cols=65 Identities=25% Similarity=0.460 Sum_probs=55.5
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCCCC--CEEEe
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVPEG--DAILM 261 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p~~--D~~~l 261 (273)
...+|+|+|||+|.++..+++.+|+.+++++|. |.+++.++.. ++++++.+|++++++.. |++++
T Consensus 87 ~~~~ilDig~G~G~~~~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~fD~Vi~ 160 (251)
T TIGR03534 87 GPLRVLDLGTGSGAIALALAKERPDARVTAVDISPEALAVARKNAARLGLDNVTFLQSDWFEPLPGGKFDLIVS 160 (251)
T ss_pred CCCeEEEEeCcHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchhccCcCCceeEEEE
Confidence 446899999999999999999999999999998 8777766542 57999999999877643 99887
No 58
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=98.28 E-value=2.5e-06 Score=69.92 Aligned_cols=73 Identities=22% Similarity=0.292 Sum_probs=59.9
Q ss_pred HhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCC---CCCCCE
Q 024046 189 LEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFES---VPEGDA 258 (273)
Q Consensus 189 l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~---~p~~D~ 258 (273)
+..+. +.+..+++|||||+|..+++++...|..+++.+|. ++.++..+.+ ++++++.||.-+. .|+.|+
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 45555 67788999999999999999999999999999997 6666655432 8999999999874 444599
Q ss_pred EEec
Q 024046 259 ILMK 262 (273)
Q Consensus 259 ~~l~ 262 (273)
+|+.
T Consensus 106 iFIG 109 (187)
T COG2242 106 IFIG 109 (187)
T ss_pred EEEC
Confidence 9875
No 59
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=98.28 E-value=1.4e-06 Score=72.93 Aligned_cols=66 Identities=17% Similarity=0.348 Sum_probs=53.5
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------CCCceEEEcccCC-C---CCCC--CEEEec
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------YAGVEHVGGNMFE-S---VPEG--DAILMK 262 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gD~f~-~---~p~~--D~~~l~ 262 (273)
...++||||||+|.++..+++++|+.+++++|+ +.+++.|.. .++|+++.+|+.+ + .|.+ |.+++.
T Consensus 16 ~~~~ilDiGcG~G~~~~~la~~~p~~~v~gvD~~~~~l~~a~~~~~~~~l~ni~~i~~d~~~~~~~~~~~~~~d~v~~~ 94 (194)
T TIGR00091 16 KAPLHLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKANKLGLKNLHVLCGDANELLDKFFPDGSLSKVFLN 94 (194)
T ss_pred CCceEEEeCCCccHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHhCCCCEEEEccCHHHHHHhhCCCCceeEEEEE
Confidence 456999999999999999999999999999998 777776643 2689999999975 1 4443 766654
No 60
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=98.27 E-value=2.9e-06 Score=71.58 Aligned_cols=82 Identities=17% Similarity=0.140 Sum_probs=62.8
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCCCCC--
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFESVPE-- 255 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~~p~-- 255 (273)
.+++.++ ..+..+|||||||+|..+..+++..+ ..+++.+|. |.+++.|+++ ++++++.+|+.+.+|.
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 3445554 55668999999999999999998875 557899998 7777766542 4689999999875542
Q ss_pred -CCEEEecccccccC
Q 024046 256 -GDAILMKVGNFENY 269 (273)
Q Consensus 256 -~D~~~l~~vLHd~~ 269 (273)
.|++++...++..+
T Consensus 142 ~fD~Ii~~~~~~~~~ 156 (205)
T PRK13944 142 PFDAIIVTAAASTIP 156 (205)
T ss_pred CccEEEEccCcchhh
Confidence 39999988876554
No 61
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=98.26 E-value=4.5e-06 Score=70.79 Aligned_cols=82 Identities=16% Similarity=0.242 Sum_probs=64.0
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCC-CC
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVP-EG 256 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p-~~ 256 (273)
..++..++ .++..+|||||||+|..+..+++.. ++.+++.+|. |.+++.+++. ++|+++.+|.+...+ .+
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 34556665 6778999999999999999998886 4568999998 8888777642 679999999987544 33
Q ss_pred --CEEEeccccccc
Q 024046 257 --DAILMKVGNFEN 268 (273)
Q Consensus 257 --D~~~l~~vLHd~ 268 (273)
|+|++....++.
T Consensus 145 ~fD~I~~~~~~~~~ 158 (212)
T PRK13942 145 PYDRIYVTAAGPDI 158 (212)
T ss_pred CcCEEEECCCcccc
Confidence 999987766554
No 62
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=98.26 E-value=2.1e-06 Score=72.26 Aligned_cols=75 Identities=20% Similarity=0.333 Sum_probs=58.5
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------CCCceEEEcccCC--C--CCCC
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------YAGVEHVGGNMFE--S--VPEG 256 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gD~f~--~--~p~~ 256 (273)
+.+.+. ....+|||||||+|.++..+++.+|+.+++++|. |.+++.++. .++++++.+|+.+ + ++.+
T Consensus 33 ~~~~~~--~~~~~VLDiGcGtG~~~~~la~~~p~~~v~gVD~s~~~i~~a~~~~~~~~~~~v~~~~~d~~~~l~~~~~~~ 110 (202)
T PRK00121 33 WAELFG--NDAPIHLEIGFGKGEFLVEMAKANPDINFIGIEVHEPGVGKALKKIEEEGLTNLRLLCGDAVEVLLDMFPDG 110 (202)
T ss_pred HHHHcC--CCCCeEEEEccCCCHHHHHHHHHCCCccEEEEEechHHHHHHHHHHHHcCCCCEEEEecCHHHHHHHHcCcc
Confidence 344444 2568999999999999999999999999999998 888877653 2679999999933 3 5443
Q ss_pred --CEEEeccc
Q 024046 257 --DAILMKVG 264 (273)
Q Consensus 257 --D~~~l~~v 264 (273)
|++++...
T Consensus 111 ~~D~V~~~~~ 120 (202)
T PRK00121 111 SLDRIYLNFP 120 (202)
T ss_pred ccceEEEECC
Confidence 98887543
No 63
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=98.26 E-value=1.9e-06 Score=81.75 Aligned_cols=84 Identities=17% Similarity=0.265 Sum_probs=65.9
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----CCCceEEEcccCC---CCCCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----YAGVEHVGGNMFE---SVPEG 256 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gD~f~---~~p~~ 256 (273)
.+.+++.++ ..+..+|||||||+|.++..+++.+. +++++|. |.+++.+.. .++++++.+|+.. ++|.+
T Consensus 26 ~~~il~~l~-~~~~~~vLDlGcG~G~~~~~la~~~~--~v~giD~s~~~l~~a~~~~~~~~~i~~~~~d~~~~~~~~~~~ 102 (475)
T PLN02336 26 RPEILSLLP-PYEGKSVLELGAGIGRFTGELAKKAG--QVIALDFIESVIKKNESINGHYKNVKFMCADVTSPDLNISDG 102 (475)
T ss_pred hhHHHhhcC-ccCCCEEEEeCCCcCHHHHHHHhhCC--EEEEEeCCHHHHHHHHHHhccCCceEEEEecccccccCCCCC
Confidence 345566665 44567999999999999999999865 5799998 777776542 2679999999964 45643
Q ss_pred --CEEEecccccccCCC
Q 024046 257 --DAILMKVGNFENYQS 271 (273)
Q Consensus 257 --D~~~l~~vLHd~~~~ 271 (273)
|+|++..++|..+++
T Consensus 103 ~fD~I~~~~~l~~l~~~ 119 (475)
T PLN02336 103 SVDLIFSNWLLMYLSDK 119 (475)
T ss_pred CEEEEehhhhHHhCCHH
Confidence 999999999998874
No 64
>KOG1540 consensus Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]
Probab=98.24 E-value=3.2e-06 Score=72.21 Aligned_cols=76 Identities=22% Similarity=0.287 Sum_probs=66.3
Q ss_pred CcceEEEecCCccHHHHHHHHHCCC------CeEEEeec-hHHHHhCCCC---------CCceEEEcccCC-CCCCC--C
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQ------IKAVNFDL-PHVVQDAPSY---------AGVEHVGGNMFE-SVPEG--D 257 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~------l~~~~~Dl-p~v~~~a~~~---------~ri~~~~gD~f~-~~p~~--D 257 (273)
+.-++|||+||+|..+..+++.-++ .+++++|. |.+++.+.+. .|+.++.||.-. |+|.. |
T Consensus 100 ~~m~~lDvaGGTGDiaFril~~v~s~~~~~~~~V~v~Dinp~mL~vgkqRa~~~~l~~~~~~~w~~~dAE~LpFdd~s~D 179 (296)
T KOG1540|consen 100 KGMKVLDVAGGTGDIAFRILRHVKSQFGDRESKVTVLDINPHMLAVGKQRAKKRPLKASSRVEWVEGDAEDLPFDDDSFD 179 (296)
T ss_pred CCCeEEEecCCcchhHHHHHHhhccccCCCCceEEEEeCCHHHHHHHHHHHhhcCCCcCCceEEEeCCcccCCCCCCcce
Confidence 4579999999999999999999998 78999998 9988877542 569999999988 88865 9
Q ss_pred EEEecccccccCCCC
Q 024046 258 AILMKVGNFENYQSH 272 (273)
Q Consensus 258 ~~~l~~vLHd~~~~~ 272 (273)
.|++.--+-+|++.+
T Consensus 180 ~yTiafGIRN~th~~ 194 (296)
T KOG1540|consen 180 AYTIAFGIRNVTHIQ 194 (296)
T ss_pred eEEEecceecCCCHH
Confidence 999999999998753
No 65
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=98.24 E-value=3e-06 Score=75.94 Aligned_cols=83 Identities=13% Similarity=0.060 Sum_probs=60.7
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhC-------CCCCCceEEEcccCC-CCCCC-
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDA-------PSYAGVEHVGGNMFE-SVPEG- 256 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a-------~~~~ri~~~~gD~f~-~~p~~- 256 (273)
.++..++ .....+|+|||||+|.++..++...+. +++++|. +.++..+ ....++.+.++|+-+ +.+..
T Consensus 112 ~~l~~l~-~~~g~~VLDvGCG~G~~~~~~~~~g~~-~v~GiDpS~~ml~q~~~~~~~~~~~~~v~~~~~~ie~lp~~~~F 189 (314)
T TIGR00452 112 RVLPHLS-PLKGRTILDVGCGSGYHMWRMLGHGAK-SLVGIDPTVLFLCQFEAVRKLLDNDKRAILEPLGIEQLHELYAF 189 (314)
T ss_pred HHHHhcC-CCCCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHHhccCCCeEEEECCHHHCCCCCCc
Confidence 4555554 344589999999999999999998875 6899997 5454322 123678888888754 22233
Q ss_pred CEEEecccccccCCC
Q 024046 257 DAILMKVGNFENYQS 271 (273)
Q Consensus 257 D~~~l~~vLHd~~~~ 271 (273)
|+|++..+||++.+.
T Consensus 190 D~V~s~gvL~H~~dp 204 (314)
T TIGR00452 190 DTVFSMGVLYHRKSP 204 (314)
T ss_pred CEEEEcchhhccCCH
Confidence 999999999988764
No 66
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=98.24 E-value=1.5e-06 Score=74.72 Aligned_cols=75 Identities=16% Similarity=0.309 Sum_probs=59.3
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC---CCCCC
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE---SVPEG 256 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~---~~p~~ 256 (273)
++..+...+...+|+|+|+|+|..+..+++++|+.+.+++|+ +...+.|+.. +||+++.+|+-. ..+.+
T Consensus 35 LL~~~~~~~~~~~IlDlGaG~G~l~L~la~r~~~a~I~~VEiq~~~a~~A~~nv~ln~l~~ri~v~~~Di~~~~~~~~~~ 114 (248)
T COG4123 35 LLAAFAPVPKKGRILDLGAGNGALGLLLAQRTEKAKIVGVEIQEEAAEMAQRNVALNPLEERIQVIEADIKEFLKALVFA 114 (248)
T ss_pred HHHhhcccccCCeEEEecCCcCHHHHHHhccCCCCcEEEEEeCHHHHHHHHHHHHhCcchhceeEehhhHHHhhhccccc
Confidence 344443244589999999999999999999999999999999 7777777642 899999999976 23333
Q ss_pred --CEEEec
Q 024046 257 --DAILMK 262 (273)
Q Consensus 257 --D~~~l~ 262 (273)
|+|++.
T Consensus 115 ~fD~Ii~N 122 (248)
T COG4123 115 SFDLIICN 122 (248)
T ss_pred ccCEEEeC
Confidence 888874
No 67
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=98.23 E-value=1.8e-06 Score=76.61 Aligned_cols=81 Identities=15% Similarity=0.148 Sum_probs=61.0
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCCC-CCCC-CEE
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFES-VPEG-DAI 259 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~~-~p~~-D~~ 259 (273)
++..++ .....+|||||||+|..+..+++. ..+++++|. |.+++.++.. -++++..+|+... +++. |+|
T Consensus 112 ~~~~~~-~~~~~~vLDlGcG~G~~~~~la~~--g~~V~avD~s~~ai~~~~~~~~~~~l~v~~~~~D~~~~~~~~~fD~I 188 (287)
T PRK12335 112 VLEAVQ-TVKPGKALDLGCGQGRNSLYLALL--GFDVTAVDINQQSLENLQEIAEKENLNIRTGLYDINSASIQEEYDFI 188 (287)
T ss_pred HHHHhh-ccCCCCEEEeCCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHHcCCceEEEEechhcccccCCccEE
Confidence 344444 334569999999999999999886 578999998 7777766432 3688889998773 4444 999
Q ss_pred EecccccccCCC
Q 024046 260 LMKVGNFENYQS 271 (273)
Q Consensus 260 ~l~~vLHd~~~~ 271 (273)
++..+||..+++
T Consensus 189 ~~~~vl~~l~~~ 200 (287)
T PRK12335 189 LSTVVLMFLNRE 200 (287)
T ss_pred EEcchhhhCCHH
Confidence 999999976643
No 68
>PRK14121 tRNA (guanine-N(7)-)-methyltransferase; Provisional
Probab=98.22 E-value=3.3e-06 Score=77.36 Aligned_cols=75 Identities=13% Similarity=0.245 Sum_probs=57.3
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------CCCceEEEcccC---CCCCCC
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------YAGVEHVGGNMF---ESVPEG 256 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gD~f---~~~p~~ 256 (273)
.+++.+. -.....+||||||+|.++..+++++|+..++++|+ +.++..+.. .++|.++.+|.. ..+|.+
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 3445544 33456899999999999999999999999999998 555555432 267999999984 356754
Q ss_pred --CEEEec
Q 024046 257 --DAILMK 262 (273)
Q Consensus 257 --D~~~l~ 262 (273)
|.+++.
T Consensus 192 s~D~I~ln 199 (390)
T PRK14121 192 SVEKIFVH 199 (390)
T ss_pred ceeEEEEe
Confidence 888764
No 69
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=98.21 E-value=5.7e-06 Score=70.27 Aligned_cols=80 Identities=15% Similarity=0.195 Sum_probs=62.0
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCC--C-
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVP--E- 255 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p--~- 255 (273)
.+++.++ ..+..+|||||||+|.++..+++..+ +.+++.+|. |++++.|+.+ ++++++.+|.....+ .
T Consensus 68 ~~~~~l~-~~~~~~VLDiG~GsG~~a~~la~~~~~~g~V~~vD~~~~~~~~A~~~~~~~g~~~v~~~~~d~~~~~~~~~~ 146 (215)
T TIGR00080 68 MMTELLE-LKPGMKVLEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKAERRLRKLGLDNVIVIVGDGTQGWEPLAP 146 (215)
T ss_pred HHHHHhC-CCCcCEEEEECCCccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCeEEEECCcccCCcccCC
Confidence 4455555 66778999999999999999999875 467899997 8888877642 679999999987443 2
Q ss_pred CCEEEecccccc
Q 024046 256 GDAILMKVGNFE 267 (273)
Q Consensus 256 ~D~~~l~~vLHd 267 (273)
.|++++....+.
T Consensus 147 fD~Ii~~~~~~~ 158 (215)
T TIGR00080 147 YDRIYVTAAGPK 158 (215)
T ss_pred CCEEEEcCCccc
Confidence 399998765443
No 70
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=98.20 E-value=3.8e-06 Score=77.53 Aligned_cols=67 Identities=27% Similarity=0.410 Sum_probs=56.1
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCCC-CC-C--CCEEEec
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFES-VP-E--GDAILMK 262 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~~-~p-~--~D~~~l~ 262 (273)
++..+|+|||||+|.++..+++++|+.+++++|. |.+++.|+++ .+|+++.+|++++ .| . .|++++.
T Consensus 250 ~~~~rVLDLGcGSG~IaiaLA~~~p~a~VtAVDiS~~ALe~AreNa~~~g~rV~fi~gDl~e~~l~~~~~FDLIVSN 326 (423)
T PRK14966 250 PENGRVWDLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLGARVEFAHGSWFDTDMPSEGKWDIIVSN 326 (423)
T ss_pred CCCCEEEEEeChhhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCcEEEEEcchhccccccCCCccEEEEC
Confidence 3456899999999999999999999999999999 8888877653 4799999999874 44 2 2988873
No 71
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=98.20 E-value=5.3e-06 Score=67.71 Aligned_cols=77 Identities=9% Similarity=0.291 Sum_probs=58.1
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----CCCceEEEcccCC-CCCCC--C
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----YAGVEHVGGNMFE-SVPEG--D 257 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gD~f~-~~p~~--D 257 (273)
+.+++.++ +.+..+++|||||+|.++..++++ ..+++++|. +.+++.+++ .++++++.+|+.+ +.+.. |
T Consensus 3 ~~i~~~~~-~~~~~~vLEiG~G~G~lt~~l~~~--~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~~~d 79 (169)
T smart00650 3 DKIVRAAN-LRPGDTVLEIGPGKGALTEELLER--AARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKLQPY 79 (169)
T ss_pred HHHHHhcC-CCCcCEEEEECCCccHHHHHHHhc--CCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCccccCCC
Confidence 45566666 667789999999999999999998 467899998 667766553 3689999999998 55543 7
Q ss_pred EEEeccccc
Q 024046 258 AILMKVGNF 266 (273)
Q Consensus 258 ~~~l~~vLH 266 (273)
.++ .+.-+
T Consensus 80 ~vi-~n~Py 87 (169)
T smart00650 80 KVV-GNLPY 87 (169)
T ss_pred EEE-ECCCc
Confidence 664 44433
No 72
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=98.20 E-value=2.2e-06 Score=81.82 Aligned_cols=64 Identities=19% Similarity=0.328 Sum_probs=55.6
Q ss_pred cceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCCCCC--CCEEEe
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFESVPE--GDAILM 261 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~~p~--~D~~~l 261 (273)
..+|||||||+|.++..+++++|+.+++++|+ |.+++.|+.+ ++|+++.+|++++++. .|++++
T Consensus 139 ~~~VLDlG~GsG~iai~la~~~p~~~v~avDis~~al~~A~~N~~~~~l~~~v~~~~~D~~~~~~~~~fDlIvs 212 (506)
T PRK01544 139 FLNILELGTGSGCIAISLLCELPNANVIATDISLDAIEVAKSNAIKYEVTDRIQIIHSNWFENIEKQKFDFIVS 212 (506)
T ss_pred CCEEEEccCchhHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHcCCccceeeeecchhhhCcCCCccEEEE
Confidence 46899999999999999999999999999998 8888877642 5899999999987664 399887
No 73
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.19 E-value=5.6e-06 Score=72.68 Aligned_cols=68 Identities=26% Similarity=0.472 Sum_probs=56.7
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCCC-C-CEEEec
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVPE-G-DAILMK 262 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p~-~-D~~~l~ 262 (273)
..+..+|+|+|||+|..+..+++.+|+.+++++|. |..++.++.+ .+++++.+|++.+.+. . |+++..
T Consensus 106 ~~~~~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~fD~Iv~n 182 (275)
T PRK09328 106 LKEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAKHGLGARVEFLQGDWFEPLPGGRFDLIVSN 182 (275)
T ss_pred ccCCCEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhCCCCcEEEEEccccCcCCCCceeEEEEC
Confidence 34567899999999999999999999999999998 7777766542 5899999999987663 3 998773
No 74
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=98.17 E-value=2.5e-06 Score=76.51 Aligned_cols=72 Identities=13% Similarity=0.028 Sum_probs=57.6
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----------CCceEEEcccCCCCCC-CCEEEecc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----------AGVEHVGGNMFESVPE-GDAILMKV 263 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----------~ri~~~~gD~f~~~p~-~D~~~l~~ 263 (273)
+..+|||||||+|.++..++++ ..+++++|+ |.+++.++++ .++++..+|+.. ++. .|+|++..
T Consensus 144 ~~~~VLDlGcGtG~~a~~la~~--g~~V~gvD~S~~ml~~A~~~~~~~~~~~~~~~~~~f~~~Dl~~-l~~~fD~Vv~~~ 220 (315)
T PLN02585 144 AGVTVCDAGCGTGSLAIPLALE--GAIVSASDISAAMVAEAERRAKEALAALPPEVLPKFEANDLES-LSGKYDTVTCLD 220 (315)
T ss_pred CCCEEEEecCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcccccccccceEEEEcchhh-cCCCcCEEEEcC
Confidence 3579999999999999999986 568999998 7788766542 257888888754 343 39999999
Q ss_pred cccccCCC
Q 024046 264 GNFENYQS 271 (273)
Q Consensus 264 vLHd~~~~ 271 (273)
+||+++++
T Consensus 221 vL~H~p~~ 228 (315)
T PLN02585 221 VLIHYPQD 228 (315)
T ss_pred EEEecCHH
Confidence 99888765
No 75
>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=98.16 E-value=5.7e-06 Score=68.11 Aligned_cols=72 Identities=19% Similarity=0.321 Sum_probs=57.8
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCCCCCC-CCEEEecccccccC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFESVPE-GDAILMKVGNFENY 269 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~~~p~-~D~~~l~~vLHd~~ 269 (273)
+..+|+|+|||+|.++..+++..+ +++++|+ |.+++.++.+ .+++++.+|+++..+. .|++++.-..|..+
T Consensus 19 ~~~~vLdlG~G~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~fD~Vi~n~p~~~~~ 96 (179)
T TIGR00537 19 KPDDVLEIGAGTGLVAIRLKGKGK--CILTTDINPFAVKELRENAKLNNVGLDVVMTDLFKGVRGKFDVILFNPPYLPLE 96 (179)
T ss_pred CCCeEEEeCCChhHHHHHHHhcCC--EEEEEECCHHHHHHHHHHHHHcCCceEEEEcccccccCCcccEEEECCCCCCCc
Confidence 446899999999999999999987 7999998 8888776642 3588999999874443 49999887776554
Q ss_pred C
Q 024046 270 Q 270 (273)
Q Consensus 270 ~ 270 (273)
+
T Consensus 97 ~ 97 (179)
T TIGR00537 97 D 97 (179)
T ss_pred c
Confidence 3
No 76
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=98.15 E-value=7.6e-06 Score=72.04 Aligned_cols=66 Identities=20% Similarity=0.315 Sum_probs=55.0
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCC---eEEEeec-hHHHHhCCCC-CCceEEEcccCC-CCCCC--CEEEec
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQI---KAVNFDL-PHVVQDAPSY-AGVEHVGGNMFE-SVPEG--DAILMK 262 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l---~~~~~Dl-p~v~~~a~~~-~ri~~~~gD~f~-~~p~~--D~~~l~ 262 (273)
...+|||||||+|.++..+++.+|+. +++++|+ |.+++.|.+. ++++++.+|..+ |++.+ |+|+..
T Consensus 85 ~~~~vLDiGcG~G~~~~~l~~~~~~~~~~~v~giD~s~~~l~~A~~~~~~~~~~~~d~~~lp~~~~sfD~I~~~ 158 (272)
T PRK11088 85 KATALLDIGCGEGYYTHALADALPEITTMQLFGLDISKVAIKYAAKRYPQVTFCVASSHRLPFADQSLDAIIRI 158 (272)
T ss_pred CCCeEEEECCcCCHHHHHHHHhcccccCCeEEEECCCHHHHHHHHHhCCCCeEEEeecccCCCcCCceeEEEEe
Confidence 45789999999999999999998864 5799998 8888887654 789999999987 66653 998864
No 77
>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=98.15 E-value=7.1e-06 Score=71.43 Aligned_cols=66 Identities=21% Similarity=0.315 Sum_probs=54.4
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC---CCceEEEcccCCCCC----CC-CEEEec
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY---AGVEHVGGNMFESVP----EG-DAILMK 262 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~---~ri~~~~gD~f~~~p----~~-D~~~l~ 262 (273)
...+|||+|||+|.++..+++++|..+++++|. |.+++.|+.+ .+++++.+|+++.++ .. |++++.
T Consensus 86 ~~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~~~~~~~~~D~~~~l~~~~~~~fDlVv~N 160 (251)
T TIGR03704 86 GTLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLADAGGTVHEGDLYDALPTALRGRVDILAAN 160 (251)
T ss_pred CCCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEeechhhcchhcCCCEeEEEEC
Confidence 345899999999999999999999999999998 8888877753 447899999987544 22 887754
No 78
>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=98.15 E-value=4.4e-06 Score=74.64 Aligned_cols=76 Identities=11% Similarity=0.142 Sum_probs=58.2
Q ss_pred CcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC-----C--CceEEEcccCCC--CCC-----C-CEE
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY-----A--GVEHVGGNMFES--VPE-----G-DAI 259 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~-----~--ri~~~~gD~f~~--~p~-----~-D~~ 259 (273)
...+|||+|||+|..+..|+++.+ ..+.+++|+ +++++.+... + +|.++.|||.+. ++. . .++
T Consensus 63 ~~~~iLELGcGtG~~t~~Ll~~l~~~~~~~~iDiS~~mL~~a~~~l~~~~p~~~v~~i~gD~~~~~~~~~~~~~~~~~~~ 142 (301)
T TIGR03438 63 AGCELVELGSGSSRKTRLLLDALRQPARYVPIDISADALKESAAALAADYPQLEVHGICADFTQPLALPPEPAAGRRLGF 142 (301)
T ss_pred CCCeEEecCCCcchhHHHHHHhhccCCeEEEEECCHHHHHHHHHHHHhhCCCceEEEEEEcccchhhhhcccccCCeEEE
Confidence 457899999999999999999998 588999999 7777666432 3 467789999873 332 1 356
Q ss_pred EecccccccCCCC
Q 024046 260 LMKVGNFENYQSH 272 (273)
Q Consensus 260 ~l~~vLHd~~~~~ 272 (273)
++.+.+|++++++
T Consensus 143 ~~gs~~~~~~~~e 155 (301)
T TIGR03438 143 FPGSTIGNFTPEE 155 (301)
T ss_pred EecccccCCCHHH
Confidence 6778888887653
No 79
>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=98.12 E-value=4.5e-06 Score=68.90 Aligned_cols=71 Identities=21% Similarity=0.375 Sum_probs=55.7
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCceEEEcccCC---CCCCC--CEEEeccccccc
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVEHVGGNMFE---SVPEG--DAILMKVGNFEN 268 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gD~f~---~~p~~--D~~~l~~vLHd~ 268 (273)
++..+|||+|||.|.++..|.+. .++++.++|+ ++-+..+. ..+++++.+|+-+ .+|.. |.++|++.|-..
T Consensus 12 ~pgsrVLDLGCGdG~LL~~L~~~-k~v~g~GvEid~~~v~~cv-~rGv~Viq~Dld~gL~~f~d~sFD~VIlsqtLQ~~ 88 (193)
T PF07021_consen 12 EPGSRVLDLGCGDGELLAYLKDE-KQVDGYGVEIDPDNVAACV-ARGVSVIQGDLDEGLADFPDQSFDYVILSQTLQAV 88 (193)
T ss_pred CCCCEEEecCCCchHHHHHHHHh-cCCeEEEEecCHHHHHHHH-HcCCCEEECCHHHhHhhCCCCCccEEehHhHHHhH
Confidence 46699999999999999877775 6999999998 44343333 3679999999987 46753 999999987543
No 80
>PRK07402 precorrin-6B methylase; Provisional
Probab=98.11 E-value=8.6e-06 Score=68.08 Aligned_cols=73 Identities=18% Similarity=0.250 Sum_probs=56.7
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC---CCCC-C
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE---SVPE-G 256 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~---~~p~-~ 256 (273)
++..++ .....+|||||||+|.++..+++..|+.+++++|+ |.+++.++++ ++|+++.+|... .++. .
T Consensus 32 l~~~l~-~~~~~~VLDiG~G~G~~~~~la~~~~~~~V~~vD~s~~~~~~a~~n~~~~~~~~v~~~~~d~~~~~~~~~~~~ 110 (196)
T PRK07402 32 LISQLR-LEPDSVLWDIGAGTGTIPVEAGLLCPKGRVIAIERDEEVVNLIRRNCDRFGVKNVEVIEGSAPECLAQLAPAP 110 (196)
T ss_pred HHHhcC-CCCCCEEEEeCCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCeEEEECchHHHHhhCCCCC
Confidence 445554 55678999999999999999999999999999998 8888877542 579999999865 2322 3
Q ss_pred CEEEe
Q 024046 257 DAILM 261 (273)
Q Consensus 257 D~~~l 261 (273)
|.+++
T Consensus 111 d~v~~ 115 (196)
T PRK07402 111 DRVCI 115 (196)
T ss_pred CEEEE
Confidence 66554
No 81
>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=98.08 E-value=5.4e-06 Score=62.95 Aligned_cols=68 Identities=25% Similarity=0.349 Sum_probs=54.4
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCC-C--CCCC--CEEEecccc
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFE-S--VPEG--DAILMKVGN 265 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~-~--~p~~--D~~~l~~vL 265 (273)
.+|||+|||+|.++..+++.. ..+++++|+ |..++.++. .+|++++.+|+++ . .+.+ |+|++.--.
T Consensus 2 ~~vlD~~~G~G~~~~~~~~~~-~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~D~Iv~npP~ 80 (117)
T PF13659_consen 2 DRVLDPGCGSGTFLLAALRRG-AARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLPEPLPDGKFDLIVTNPPY 80 (117)
T ss_dssp EEEEEETSTTCHHHHHHHHHC-TCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHHHTCTTT-EEEEEE--ST
T ss_pred CEEEEcCcchHHHHHHHHHHC-CCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhchhhccCceeEEEEECCCC
Confidence 589999999999999999999 889999999 888776654 2789999999987 2 4543 999886544
Q ss_pred cc
Q 024046 266 FE 267 (273)
Q Consensus 266 Hd 267 (273)
+.
T Consensus 81 ~~ 82 (117)
T PF13659_consen 81 GP 82 (117)
T ss_dssp TS
T ss_pred cc
Confidence 43
No 82
>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=98.07 E-value=1.8e-05 Score=63.24 Aligned_cols=70 Identities=19% Similarity=0.289 Sum_probs=50.9
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCceEEEcccCC-CCCCC--CEEEecccccccCC
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVEHVGGNMFE-SVPEG--DAILMKVGNFENYQ 270 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gD~f~-~~p~~--D~~~l~~vLHd~~~ 270 (273)
.....+|||||||.|.++..+.+..+ +++++|. |.+++. ..+.....+.-. +.|.+ |+|++.++||+.+|
T Consensus 20 ~~~~~~vLDiGcG~G~~~~~l~~~~~--~~~g~D~~~~~~~~----~~~~~~~~~~~~~~~~~~~fD~i~~~~~l~~~~d 93 (161)
T PF13489_consen 20 LKPGKRVLDIGCGTGSFLRALAKRGF--EVTGVDISPQMIEK----RNVVFDNFDAQDPPFPDGSFDLIICNDVLEHLPD 93 (161)
T ss_dssp TTTTSEEEEESSTTSHHHHHHHHTTS--EEEEEESSHHHHHH----TTSEEEEEECHTHHCHSSSEEEEEEESSGGGSSH
T ss_pred cCCCCEEEEEcCCCCHHHHHHHHhCC--EEEEEECCHHHHhh----hhhhhhhhhhhhhhccccchhhHhhHHHHhhccc
Confidence 45678999999999999999966644 8999998 777776 223333222223 23433 99999999999875
No 83
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=98.07 E-value=1.4e-05 Score=69.79 Aligned_cols=80 Identities=19% Similarity=0.335 Sum_probs=59.5
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----CCCceEEEcccCC-CCCCCCE
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----YAGVEHVGGNMFE-SVPEGDA 258 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gD~f~-~~p~~D~ 258 (273)
+..+++..+ ..+..+|||||||.|.++..++++. .+++++|+ +.+++.++. .++++++.+|+++ ++|..|.
T Consensus 18 ~~~iv~~~~-~~~~~~VLEIG~G~G~lt~~L~~~~--~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D~~~~~~~~~d~ 94 (258)
T PRK14896 18 VDRIVEYAE-DTDGDPVLEIGPGKGALTDELAKRA--KKVYAIELDPRLAEFLRDDEIAAGNVEIIEGDALKVDLPEFNK 94 (258)
T ss_pred HHHHHHhcC-CCCcCeEEEEeCccCHHHHHHHHhC--CEEEEEECCHHHHHHHHHHhccCCCEEEEEeccccCCchhceE
Confidence 345566555 5667899999999999999999994 46899998 667766543 3789999999998 5665575
Q ss_pred EEeccccccc
Q 024046 259 ILMKVGNFEN 268 (273)
Q Consensus 259 ~~l~~vLHd~ 268 (273)
++ +|.-++.
T Consensus 95 Vv-~NlPy~i 103 (258)
T PRK14896 95 VV-SNLPYQI 103 (258)
T ss_pred EE-EcCCccc
Confidence 54 3444443
No 84
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=98.06 E-value=1.3e-05 Score=70.34 Aligned_cols=85 Identities=19% Similarity=0.138 Sum_probs=65.9
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------C-CCceEEEcccCCCCCCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------Y-AGVEHVGGNMFESVPEG 256 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~-~ri~~~~gD~f~~~p~~ 256 (273)
.+.+++.+. +++..+|||||||-|.+++-.+++| +.+++++++ ++..+.+++ . ++|++...|+-...+.-
T Consensus 61 ~~~~~~kl~-L~~G~~lLDiGCGWG~l~~~aA~~y-~v~V~GvTlS~~Q~~~~~~r~~~~gl~~~v~v~l~d~rd~~e~f 138 (283)
T COG2230 61 LDLILEKLG-LKPGMTLLDIGCGWGGLAIYAAEEY-GVTVVGVTLSEEQLAYAEKRIAARGLEDNVEVRLQDYRDFEEPF 138 (283)
T ss_pred HHHHHHhcC-CCCCCEEEEeCCChhHHHHHHHHHc-CCEEEEeeCCHHHHHHHHHHHHHcCCCcccEEEecccccccccc
Confidence 456778887 9999999999999999999999999 999999999 555555543 1 58999898887633335
Q ss_pred CEEEecccccccCCC
Q 024046 257 DAILMKVGNFENYQS 271 (273)
Q Consensus 257 D~~~l~~vLHd~~~~ 271 (273)
|-|+-.-++++...+
T Consensus 139 DrIvSvgmfEhvg~~ 153 (283)
T COG2230 139 DRIVSVGMFEHVGKE 153 (283)
T ss_pred ceeeehhhHHHhCcc
Confidence 777776666655443
No 85
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=98.06 E-value=1.2e-05 Score=70.71 Aligned_cols=63 Identities=11% Similarity=0.276 Sum_probs=52.1
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC---CCceEEEcccCC
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY---AGVEHVGGNMFE 251 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~---~ri~~~~gD~f~ 251 (273)
..+++.++ .....+|||||||+|.++..++++.+ +++++|. |.+++.+++. ++++++.+|+.+
T Consensus 32 ~~i~~~l~-~~~~~~VLEiG~G~G~lt~~L~~~~~--~v~avE~d~~~~~~~~~~~~~~~v~~i~~D~~~ 98 (272)
T PRK00274 32 DKIVDAAG-PQPGDNVLEIGPGLGALTEPLLERAA--KVTAVEIDRDLAPILAETFAEDNLTIIEGDALK 98 (272)
T ss_pred HHHHHhcC-CCCcCeEEEeCCCccHHHHHHHHhCC--cEEEEECCHHHHHHHHHhhccCceEEEEChhhc
Confidence 44556555 66678999999999999999999987 6899998 7777776542 689999999987
No 86
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=98.03 E-value=2.2e-05 Score=69.09 Aligned_cols=80 Identities=25% Similarity=0.307 Sum_probs=62.3
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCCC-CC
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVPE-GD 257 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p~-~D 257 (273)
+-+++.++ .....+|+|+|||.|.+++.+++.+|+.+.+.+|. ...++.|+.+ ++..+...|.|++.+. -|
T Consensus 148 ~lLl~~l~-~~~~~~vlDlGCG~Gvlg~~la~~~p~~~vtmvDvn~~Av~~ar~Nl~~N~~~~~~v~~s~~~~~v~~kfd 226 (300)
T COG2813 148 RLLLETLP-PDLGGKVLDLGCGYGVLGLVLAKKSPQAKLTLVDVNARAVESARKNLAANGVENTEVWASNLYEPVEGKFD 226 (300)
T ss_pred HHHHHhCC-ccCCCcEEEeCCCccHHHHHHHHhCCCCeEEEEecCHHHHHHHHHhHHHcCCCccEEEEeccccccccccc
Confidence 34667776 44445999999999999999999999999999998 6667777653 3336888999998765 49
Q ss_pred EEEeccccc
Q 024046 258 AILMKVGNF 266 (273)
Q Consensus 258 ~~~l~~vLH 266 (273)
.|++.==+|
T Consensus 227 ~IisNPPfh 235 (300)
T COG2813 227 LIISNPPFH 235 (300)
T ss_pred EEEeCCCcc
Confidence 988765444
No 87
>PHA03411 putative methyltransferase; Provisional
Probab=98.03 E-value=1.4e-05 Score=69.93 Aligned_cols=71 Identities=17% Similarity=0.203 Sum_probs=58.2
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-CCceEEEcccCCCCC-C-CCEEEecccccc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-AGVEHVGGNMFESVP-E-GDAILMKVGNFE 267 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-~ri~~~~gD~f~~~p-~-~D~~~l~~vLHd 267 (273)
...+|||+|||+|.++..++++.+..+++++|+ |.+++.++.. ++++++.+|+++... . .|+|+..--.+.
T Consensus 64 ~~grVLDLGcGsGilsl~la~r~~~~~V~gVDisp~al~~Ar~n~~~v~~v~~D~~e~~~~~kFDlIIsNPPF~~ 138 (279)
T PHA03411 64 CTGKVLDLCAGIGRLSFCMLHRCKPEKIVCVELNPEFARIGKRLLPEAEWITSDVFEFESNEKFDVVISNPPFGK 138 (279)
T ss_pred cCCeEEEcCCCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCcCCEEEECchhhhcccCCCcEEEEcCCccc
Confidence 346899999999999999999998889999998 8888887754 789999999998433 3 399998554443
No 88
>COG2227 UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]
Probab=97.99 E-value=5.5e-06 Score=70.47 Aligned_cols=74 Identities=14% Similarity=-0.011 Sum_probs=56.8
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCce-----EEEcccCC-CCC--CCCEEEecccccc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVE-----HVGGNMFE-SVP--EGDAILMKVGNFE 267 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~-----~~~gD~f~-~~p--~~D~~~l~~vLHd 267 (273)
...+|||||||.|.++..+++.- .++++.|+ +..|+.|+.+...+ +.+..... ... ..|+|++..||++
T Consensus 59 ~g~~vLDvGCGgG~Lse~mAr~G--a~VtgiD~se~~I~~Ak~ha~e~gv~i~y~~~~~edl~~~~~~FDvV~cmEVlEH 136 (243)
T COG2227 59 PGLRVLDVGCGGGILSEPLARLG--ASVTGIDASEKPIEVAKLHALESGVNIDYRQATVEDLASAGGQFDVVTCMEVLEH 136 (243)
T ss_pred CCCeEEEecCCccHhhHHHHHCC--CeeEEecCChHHHHHHHHhhhhccccccchhhhHHHHHhcCCCccEEEEhhHHHc
Confidence 45899999999999999999996 78999998 88899888663333 33333333 222 2399999999999
Q ss_pred cCCCC
Q 024046 268 NYQSH 272 (273)
Q Consensus 268 ~~~~~ 272 (273)
.+|++
T Consensus 137 v~dp~ 141 (243)
T COG2227 137 VPDPE 141 (243)
T ss_pred cCCHH
Confidence 99874
No 89
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=97.98 E-value=1e-05 Score=70.50 Aligned_cols=82 Identities=12% Similarity=0.309 Sum_probs=60.9
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----CCCceEEEcccCC-CCCCCC-
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----YAGVEHVGGNMFE-SVPEGD- 257 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gD~f~-~~p~~D- 257 (273)
...+++..+ ..+..+|+|||||+|.++..++++++. ++++|. +.+++.++. .++++++.+|+.+ +++..|
T Consensus 18 ~~~i~~~~~-~~~~~~VLEiG~G~G~lt~~L~~~~~~--v~~iE~d~~~~~~l~~~~~~~~~v~v~~~D~~~~~~~~~d~ 94 (253)
T TIGR00755 18 IQKIVEAAN-VLEGDVVLEIGPGLGALTEPLLKRAKK--VTAIEIDPRLAEILRKLLSLYERLEVIEGDALKVDLPDFPK 94 (253)
T ss_pred HHHHHHhcC-CCCcCEEEEeCCCCCHHHHHHHHhCCc--EEEEECCHHHHHHHHHHhCcCCcEEEEECchhcCChhHcCC
Confidence 345666665 667789999999999999999999975 788887 666665543 3789999999988 555433
Q ss_pred -EEEecccccccC
Q 024046 258 -AILMKVGNFENY 269 (273)
Q Consensus 258 -~~~l~~vLHd~~ 269 (273)
.++++|.-++++
T Consensus 95 ~~~vvsNlPy~i~ 107 (253)
T TIGR00755 95 QLKVVSNLPYNIS 107 (253)
T ss_pred cceEEEcCChhhH
Confidence 456666554443
No 90
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=97.96 E-value=4.8e-05 Score=64.39 Aligned_cols=77 Identities=14% Similarity=0.218 Sum_probs=56.6
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeechHHHHhCCCCCCceEEEcccCCC---------CCC-
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDLPHVVQDAPSYAGVEHVGGNMFES---------VPE- 255 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~~a~~~~ri~~~~gD~f~~---------~p~- 255 (273)
.+.+.+..+++..+|||||||+|.++..++++. |..+++++|+-++ ...++|+++.+|+.++ .+.
T Consensus 41 ~~~~~~~~~~~~~~VLDlG~GtG~~t~~l~~~~~~~~~V~aVDi~~~----~~~~~v~~i~~D~~~~~~~~~i~~~~~~~ 116 (209)
T PRK11188 41 EIQQSDKLFKPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIACDILPM----DPIVGVDFLQGDFRDELVLKALLERVGDS 116 (209)
T ss_pred HHHHHhccCCCCCEEEEEcccCCHHHHHHHHHcCCCceEEEEecccc----cCCCCcEEEecCCCChHHHHHHHHHhCCC
Confidence 344445434567899999999999999999987 4568999999442 2236799999999873 443
Q ss_pred C-CEEEecccccc
Q 024046 256 G-DAILMKVGNFE 267 (273)
Q Consensus 256 ~-D~~~l~~vLHd 267 (273)
. |+|+.....|.
T Consensus 117 ~~D~V~S~~~~~~ 129 (209)
T PRK11188 117 KVQVVMSDMAPNM 129 (209)
T ss_pred CCCEEecCCCCcc
Confidence 3 99998655443
No 91
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=97.94 E-value=4.2e-05 Score=64.69 Aligned_cols=79 Identities=19% Similarity=0.302 Sum_probs=59.4
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCCC-C--
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVPE-G-- 256 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p~-~-- 256 (273)
.++..+. ..+..+|||||||+|.++..+++... +++.+|. |.+++.+++. ++++++.+|.++.++. +
T Consensus 69 ~l~~~l~-~~~~~~VLeiG~GsG~~t~~la~~~~--~v~~vd~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~f 145 (212)
T PRK00312 69 RMTELLE-LKPGDRVLEIGTGSGYQAAVLAHLVR--RVFSVERIKTLQWEAKRRLKQLGLHNVSVRHGDGWKGWPAYAPF 145 (212)
T ss_pred HHHHhcC-CCCCCEEEEECCCccHHHHHHHHHhC--EEEEEeCCHHHHHHHHHHHHHCCCCceEEEECCcccCCCcCCCc
Confidence 3444444 56778999999999999988887764 6888887 7777766542 5699999999886553 3
Q ss_pred CEEEeccccccc
Q 024046 257 DAILMKVGNFEN 268 (273)
Q Consensus 257 D~~~l~~vLHd~ 268 (273)
|++++...+++.
T Consensus 146 D~I~~~~~~~~~ 157 (212)
T PRK00312 146 DRILVTAAAPEI 157 (212)
T ss_pred CEEEEccCchhh
Confidence 999988766544
No 92
>PLN02366 spermidine synthase
Probab=97.94 E-value=1.7e-05 Score=70.94 Aligned_cols=67 Identities=25% Similarity=0.293 Sum_probs=52.7
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----------CCCceEEEcccCC---CCCC--CCE
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----------YAGVEHVGGNMFE---SVPE--GDA 258 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gD~f~---~~p~--~D~ 258 (273)
.+++++||+||||.|..+..+++..+-.+++++|+ |.|++.+++ .+|++++.+|.+. ..+. -|+
T Consensus 89 ~~~pkrVLiIGgG~G~~~rellk~~~v~~V~~VEiD~~Vi~~ar~~f~~~~~~~~dpRv~vi~~Da~~~l~~~~~~~yDv 168 (308)
T PLN02366 89 IPNPKKVLVVGGGDGGVLREIARHSSVEQIDICEIDKMVIDVSKKFFPDLAVGFDDPRVNLHIGDGVEFLKNAPEGTYDA 168 (308)
T ss_pred CCCCCeEEEEcCCccHHHHHHHhCCCCCeEEEEECCHHHHHHHHHhhhhhccccCCCceEEEEChHHHHHhhccCCCCCE
Confidence 35689999999999999999987633457899998 778887654 2699999999865 3443 399
Q ss_pred EEe
Q 024046 259 ILM 261 (273)
Q Consensus 259 ~~l 261 (273)
|++
T Consensus 169 Ii~ 171 (308)
T PLN02366 169 IIV 171 (308)
T ss_pred EEE
Confidence 987
No 93
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=97.93 E-value=3e-05 Score=71.62 Aligned_cols=82 Identities=16% Similarity=0.106 Sum_probs=63.0
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC---CCceEEEcccCCCCCC-CCEEE
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY---AGVEHVGGNMFESVPE-GDAIL 260 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~---~ri~~~~gD~f~~~p~-~D~~~ 260 (273)
..+++.++ .++..+|||||||.|.++..+++.+ +.+++++|+ |..++.|++. ..+++..+|+.. .+. .|+|+
T Consensus 157 ~~l~~~l~-l~~g~rVLDIGcG~G~~a~~la~~~-g~~V~giDlS~~~l~~A~~~~~~l~v~~~~~D~~~-l~~~fD~Iv 233 (383)
T PRK11705 157 DLICRKLQ-LKPGMRVLDIGCGWGGLARYAAEHY-GVSVVGVTISAEQQKLAQERCAGLPVEIRLQDYRD-LNGQFDRIV 233 (383)
T ss_pred HHHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHC-CCEEEEEeCCHHHHHHHHHHhccCeEEEEECchhh-cCCCCCEEE
Confidence 34556655 6677899999999999999999876 578999998 7888776642 347888888764 343 39999
Q ss_pred ecccccccCC
Q 024046 261 MKVGNFENYQ 270 (273)
Q Consensus 261 l~~vLHd~~~ 270 (273)
...++++..+
T Consensus 234 s~~~~ehvg~ 243 (383)
T PRK11705 234 SVGMFEHVGP 243 (383)
T ss_pred EeCchhhCCh
Confidence 8888877654
No 94
>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=97.92 E-value=2e-05 Score=69.47 Aligned_cols=82 Identities=17% Similarity=0.181 Sum_probs=56.0
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCCCCCCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFESVPEG 256 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~~~p~~ 256 (273)
...+++.++ +++..+|||||||-|.+++.++++| +++++++.+ ++-.+.+++ .++|++..+|+.+ ++..
T Consensus 51 ~~~~~~~~~-l~~G~~vLDiGcGwG~~~~~~a~~~-g~~v~gitlS~~Q~~~a~~~~~~~gl~~~v~v~~~D~~~-~~~~ 127 (273)
T PF02353_consen 51 LDLLCEKLG-LKPGDRVLDIGCGWGGLAIYAAERY-GCHVTGITLSEEQAEYARERIREAGLEDRVEVRLQDYRD-LPGK 127 (273)
T ss_dssp HHHHHTTTT---TT-EEEEES-TTSHHHHHHHHHH---EEEEEES-HHHHHHHHHHHHCSTSSSTEEEEES-GGG----S
T ss_pred HHHHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHc-CcEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEeeccc-cCCC
Confidence 356677777 8889999999999999999999999 899999998 444444432 2789999999875 5544
Q ss_pred -CEEEecccccccC
Q 024046 257 -DAILMKVGNFENY 269 (273)
Q Consensus 257 -D~~~l~~vLHd~~ 269 (273)
|.|+..-++-+..
T Consensus 128 fD~IvSi~~~Ehvg 141 (273)
T PF02353_consen 128 FDRIVSIEMFEHVG 141 (273)
T ss_dssp -SEEEEESEGGGTC
T ss_pred CCEEEEEechhhcC
Confidence 8887776665543
No 95
>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=97.91 E-value=2.8e-05 Score=65.97 Aligned_cols=74 Identities=14% Similarity=0.141 Sum_probs=57.4
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------------------CCCceEEEcccCCCCC--
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------------------YAGVEHVGGNMFESVP-- 254 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------------------~~ri~~~~gD~f~~~p-- 254 (273)
+...++||+|||.|..+.-|+++ ..+++++|+ |..++.+.. ..+|+++.+|+|+..+
T Consensus 33 ~~~~rvLd~GCG~G~da~~LA~~--G~~V~gvD~S~~Ai~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~D~~~~~~~~ 110 (213)
T TIGR03840 33 PAGARVFVPLCGKSLDLAWLAEQ--GHRVLGVELSEIAVEQFFAENGLTPTVTQQGEFTRYRAGNIEIFCGDFFALTAAD 110 (213)
T ss_pred CCCCeEEEeCCCchhHHHHHHhC--CCeEEEEeCCHHHHHHHHHHcCCCcceeccccceeeecCceEEEEccCCCCCccc
Confidence 45679999999999999999986 678999998 777775311 2479999999998322
Q ss_pred --CCCEEEecccccccCCC
Q 024046 255 --EGDAILMKVGNFENYQS 271 (273)
Q Consensus 255 --~~D~~~l~~vLHd~~~~ 271 (273)
.-|+++-+.++|..+++
T Consensus 111 ~~~fD~i~D~~~~~~l~~~ 129 (213)
T TIGR03840 111 LGPVDAVYDRAALIALPEE 129 (213)
T ss_pred CCCcCEEEechhhccCCHH
Confidence 23999988888766543
No 96
>PRK04266 fibrillarin; Provisional
Probab=97.90 E-value=7.9e-05 Score=63.84 Aligned_cols=69 Identities=14% Similarity=0.216 Sum_probs=54.0
Q ss_pred cccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHH----hCCCCCCceEEEcccCCC-----CCCC-CEEE
Q 024046 192 YEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQ----DAPSYAGVEHVGGNMFES-----VPEG-DAIL 260 (273)
Q Consensus 192 ~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~----~a~~~~ri~~~~gD~f~~-----~p~~-D~~~ 260 (273)
++ ..+..+|+|+|||+|.++..+++..+.-+++++|. |.+++ .++..++|.++.+|...+ +++. |+++
T Consensus 68 l~-i~~g~~VlD~G~G~G~~~~~la~~v~~g~V~avD~~~~ml~~l~~~a~~~~nv~~i~~D~~~~~~~~~l~~~~D~i~ 146 (226)
T PRK04266 68 FP-IKKGSKVLYLGAASGTTVSHVSDIVEEGVVYAVEFAPRPMRELLEVAEERKNIIPILADARKPERYAHVVEKVDVIY 146 (226)
T ss_pred CC-CCCCCEEEEEccCCCHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHhhhcCCcEEEECCCCCcchhhhccccCCEEE
Confidence 44 66778999999999999999999998768899998 75554 444457899999998753 2333 8887
Q ss_pred e
Q 024046 261 M 261 (273)
Q Consensus 261 l 261 (273)
.
T Consensus 147 ~ 147 (226)
T PRK04266 147 Q 147 (226)
T ss_pred E
Confidence 3
No 97
>PRK00811 spermidine synthase; Provisional
Probab=97.85 E-value=2.3e-05 Score=69.38 Aligned_cols=67 Identities=27% Similarity=0.303 Sum_probs=54.4
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-----------CCCceEEEcccCCC--CCC-C-CEE
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-----------YAGVEHVGGNMFES--VPE-G-DAI 259 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gD~f~~--~p~-~-D~~ 259 (273)
+++++||+||||.|..+..+++..+..+++++|+ |.|++.|++ .+|++++.+|...- .+. . |+|
T Consensus 75 ~~p~~VL~iG~G~G~~~~~~l~~~~~~~V~~VEid~~vv~~a~~~~~~~~~~~~~d~rv~v~~~Da~~~l~~~~~~yDvI 154 (283)
T PRK00811 75 PNPKRVLIIGGGDGGTLREVLKHPSVEKITLVEIDERVVEVCRKYLPEIAGGAYDDPRVELVIGDGIKFVAETENSFDVI 154 (283)
T ss_pred CCCCEEEEEecCchHHHHHHHcCCCCCEEEEEeCCHHHHHHHHHHhHHhccccccCCceEEEECchHHHHhhCCCcccEE
Confidence 4678999999999999999998656668999999 888887754 37899999999873 233 2 999
Q ss_pred Eec
Q 024046 260 LMK 262 (273)
Q Consensus 260 ~l~ 262 (273)
++-
T Consensus 155 i~D 157 (283)
T PRK00811 155 IVD 157 (283)
T ss_pred EEC
Confidence 874
No 98
>PRK14968 putative methyltransferase; Provisional
Probab=97.83 E-value=5.3e-05 Score=62.34 Aligned_cols=68 Identities=26% Similarity=0.399 Sum_probs=54.0
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CC-ceEEEcccCCCCCC--CCEEEeccc
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AG-VEHVGGNMFESVPE--GDAILMKVG 264 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~r-i~~~~gD~f~~~p~--~D~~~l~~v 264 (273)
.+..+|||+|||+|.++..++++ ..+++++|+ |.+++.+++. ++ ++++.+|+++++++ .|++++...
T Consensus 22 ~~~~~vLd~G~G~G~~~~~l~~~--~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~d~vi~n~p 99 (188)
T PRK14968 22 KKGDRVLEVGTGSGIVAIVAAKN--GKKVVGVDINPYAVECAKCNAKLNNIRNNGVEVIRSDLFEPFRGDKFDVILFNPP 99 (188)
T ss_pred cCCCEEEEEccccCHHHHHHHhh--cceEEEEECCHHHHHHHHHHHHHcCCCCcceEEEeccccccccccCceEEEECCC
Confidence 45578999999999999999998 578999998 7787776431 23 89999999987665 399987544
Q ss_pred c
Q 024046 265 N 265 (273)
Q Consensus 265 L 265 (273)
.
T Consensus 100 ~ 100 (188)
T PRK14968 100 Y 100 (188)
T ss_pred c
Confidence 3
No 99
>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=97.82 E-value=5.2e-05 Score=54.74 Aligned_cols=68 Identities=25% Similarity=0.298 Sum_probs=54.2
Q ss_pred eEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCC------CCCCceEEEcccCCCC---CCC-CEEEeccccccc
Q 024046 200 RLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAP------SYAGVEHVGGNMFESV---PEG-DAILMKVGNFEN 268 (273)
Q Consensus 200 ~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------~~~ri~~~~gD~f~~~---p~~-D~~~l~~vLHd~ 268 (273)
+++|+|||.|.++..+++ .+..+.+++|+ +..+..++ ...+++++.+|+.... +.. |++++...++.+
T Consensus 1 ~ildig~G~G~~~~~~~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~i~~~~~~~~~ 79 (107)
T cd02440 1 RVLDLGCGTGALALALAS-GPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPEADESFDVIISDPPLHHL 79 (107)
T ss_pred CeEEEcCCccHHHHHHhc-CCCCEEEEEeCCHHHHHHHHHHHhcccccceEEEEcChhhhccccCCceEEEEEccceeeh
Confidence 589999999999999998 77889999998 55555443 1378999999999843 233 999999988863
No 100
>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=97.81 E-value=5e-05 Score=63.20 Aligned_cols=82 Identities=17% Similarity=0.232 Sum_probs=57.2
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-----CCCceEEEcccCC-CCCCC-CE
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-----YAGVEHVGGNMFE-SVPEG-DA 258 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gD~f~-~~p~~-D~ 258 (273)
.++...+ .-+..++||||||.|..+.-|+++ ...++.+|. +..++.+.. .-.|+....|+.+ ++|+. |+
T Consensus 21 ~v~~a~~-~~~~g~~LDlgcG~GRNalyLA~~--G~~VtAvD~s~~al~~l~~~a~~~~l~i~~~~~Dl~~~~~~~~yD~ 97 (192)
T PF03848_consen 21 EVLEAVP-LLKPGKALDLGCGEGRNALYLASQ--GFDVTAVDISPVALEKLQRLAEEEGLDIRTRVADLNDFDFPEEYDF 97 (192)
T ss_dssp HHHHHCT-TS-SSEEEEES-TTSHHHHHHHHT--T-EEEEEESSHHHHHHHHHHHHHTT-TEEEEE-BGCCBS-TTTEEE
T ss_pred HHHHHHh-hcCCCcEEEcCCCCcHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHhhcCceeEEEEecchhccccCCcCE
Confidence 4555566 446789999999999999999999 677999998 555554432 1238999999987 46655 99
Q ss_pred EEecccccccCCC
Q 024046 259 ILMKVGNFENYQS 271 (273)
Q Consensus 259 ~~l~~vLHd~~~~ 271 (273)
|+..-|++.-+.+
T Consensus 98 I~st~v~~fL~~~ 110 (192)
T PF03848_consen 98 IVSTVVFMFLQRE 110 (192)
T ss_dssp EEEESSGGGS-GG
T ss_pred EEEEEEeccCCHH
Confidence 9887788776654
No 101
>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]
Probab=97.81 E-value=9.4e-06 Score=69.74 Aligned_cols=72 Identities=15% Similarity=0.060 Sum_probs=58.4
Q ss_pred cceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC--------C----CceEEEcccCCCCCCCCEEEeccc
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY--------A----GVEHVGGNMFESVPEGDAILMKVG 264 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~--------~----ri~~~~gD~f~~~p~~D~~~l~~v 264 (273)
..+|||||||.|.++..|++.- ..++++|. +.+++.|+.+ . |+++...|.-...+..|+|++..|
T Consensus 90 g~~ilDvGCGgGLLSepLArlg--a~V~GID~s~~~V~vA~~h~~~dP~~~~~~~y~l~~~~~~~E~~~~~fDaVvcsev 167 (282)
T KOG1270|consen 90 GMKILDVGCGGGLLSEPLARLG--AQVTGIDASDDMVEVANEHKKMDPVLEGAIAYRLEYEDTDVEGLTGKFDAVVCSEV 167 (282)
T ss_pred CceEEEeccCccccchhhHhhC--CeeEeecccHHHHHHHHHhhhcCchhccccceeeehhhcchhhcccccceeeeHHH
Confidence 3679999999999999999996 56899998 8889888764 2 467776766655555799999999
Q ss_pred ccccCCC
Q 024046 265 NFENYQS 271 (273)
Q Consensus 265 LHd~~~~ 271 (273)
|++.-|.
T Consensus 168 leHV~dp 174 (282)
T KOG1270|consen 168 LEHVKDP 174 (282)
T ss_pred HHHHhCH
Confidence 9988654
No 102
>PHA03412 putative methyltransferase; Provisional
Probab=97.80 E-value=5.3e-05 Score=64.86 Aligned_cols=65 Identities=11% Similarity=0.090 Sum_probs=53.3
Q ss_pred cceEEEecCCccHHHHHHHHHC---CCCeEEEeec-hHHHHhCCCC-CCceEEEcccCC-CCCC-CCEEEec
Q 024046 198 VERLVDVGGGFGVTLSMITSKY---PQIKAVNFDL-PHVVQDAPSY-AGVEHVGGNMFE-SVPE-GDAILMK 262 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~---P~l~~~~~Dl-p~v~~~a~~~-~ri~~~~gD~f~-~~p~-~D~~~l~ 262 (273)
..+|||+|||+|.++..++++. +..+++++|+ |.+++.|+.. +++.++.+|++. +.+. .|+|+..
T Consensus 50 ~grVLDlG~GSG~Lalala~~~~~~~~~~V~aVEID~~Al~~Ar~n~~~~~~~~~D~~~~~~~~~FDlIIsN 121 (241)
T PHA03412 50 SGSVVDLCAGIGGLSFAMVHMMMYAKPREIVCVELNHTYYKLGKRIVPEATWINADALTTEFDTLFDMAISN 121 (241)
T ss_pred CCEEEEccChHHHHHHHHHHhcccCCCcEEEEEECCHHHHHHHHhhccCCEEEEcchhcccccCCccEEEEC
Confidence 5799999999999999999986 4678999999 8888888764 789999999986 3333 3888763
No 103
>PRK14967 putative methyltransferase; Provisional
Probab=97.79 E-value=5e-05 Score=64.82 Aligned_cols=67 Identities=16% Similarity=0.176 Sum_probs=52.3
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCCCCCC-C-CEEEec
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFESVPE-G-DAILMK 262 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~~~p~-~-D~~~l~ 262 (273)
..+..+|||+|||+|.++..+++. +..+++++|+ |..++.++.+ .+++++.+|++..++. . |+|++.
T Consensus 34 ~~~~~~vLDlGcG~G~~~~~la~~-~~~~v~~vD~s~~~l~~a~~n~~~~~~~~~~~~~d~~~~~~~~~fD~Vi~n 108 (223)
T PRK14967 34 LGPGRRVLDLCTGSGALAVAAAAA-GAGSVTAVDISRRAVRSARLNALLAGVDVDVRRGDWARAVEFRPFDVVVSN 108 (223)
T ss_pred cCCCCeEEEecCCHHHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHhCCeeEEEECchhhhccCCCeeEEEEC
Confidence 455679999999999999999886 3347899998 7777765542 3588999999886664 3 999875
No 104
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.78 E-value=6.5e-05 Score=67.66 Aligned_cols=80 Identities=24% Similarity=0.351 Sum_probs=60.2
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCC-CeEEEeec-hHHHHhCCC------CCCceEEEcccCCCCCC---
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQ-IKAVNFDL-PHVVQDAPS------YAGVEHVGGNMFESVPE--- 255 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gD~f~~~p~--- 255 (273)
.+++..+ .++..+|||||||+|.++..+++..+. -+++++|. |++++.|++ .++++++.+|..+..+.
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 3445444 566789999999999999999999875 46889998 777776654 26799999998774432
Q ss_pred CCEEEecccccc
Q 024046 256 GDAILMKVGNFE 267 (273)
Q Consensus 256 ~D~~~l~~vLHd 267 (273)
.|++++...+++
T Consensus 150 fD~Ii~~~g~~~ 161 (322)
T PRK13943 150 YDVIFVTVGVDE 161 (322)
T ss_pred ccEEEECCchHH
Confidence 399998755544
No 105
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=97.78 E-value=7.9e-05 Score=62.39 Aligned_cols=72 Identities=15% Similarity=0.181 Sum_probs=55.7
Q ss_pred hhcccCCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCCC---CCC-C
Q 024046 190 EHYEGFQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFES---VPE-G 256 (273)
Q Consensus 190 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~~---~p~-~ 256 (273)
..++ .....+|+|+|||+|.++..+++.. |..+++.+|. |..++.+++ .++++++.+|+.+. .+. .
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 3444 6677899999999999999998874 6789999998 888876643 25789999999762 223 3
Q ss_pred CEEEec
Q 024046 257 DAILMK 262 (273)
Q Consensus 257 D~~~l~ 262 (273)
|++++.
T Consensus 113 D~V~~~ 118 (198)
T PRK00377 113 DRIFIG 118 (198)
T ss_pred CEEEEC
Confidence 999873
No 106
>PRK01581 speE spermidine synthase; Validated
Probab=97.78 E-value=4.5e-05 Score=69.22 Aligned_cols=68 Identities=19% Similarity=0.197 Sum_probs=55.4
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------------CCCceEEEcccCCCC---CCC-
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------------YAGVEHVGGNMFESV---PEG- 256 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------------~~ri~~~~gD~f~~~---p~~- 256 (273)
..++.+||+||||.|..+..+++..|..+++++|+ |+|++.|+. .+|++++.+|.++-+ +..
T Consensus 148 h~~PkrVLIIGgGdG~tlrelLk~~~v~~It~VEIDpeVIelAr~~~~L~~~~~~~~~DpRV~vvi~Da~~fL~~~~~~Y 227 (374)
T PRK01581 148 VIDPKRVLILGGGDGLALREVLKYETVLHVDLVDLDGSMINMARNVPELVSLNKSAFFDNRVNVHVCDAKEFLSSPSSLY 227 (374)
T ss_pred CCCCCEEEEECCCHHHHHHHHHhcCCCCeEEEEeCCHHHHHHHHhccccchhccccCCCCceEEEECcHHHHHHhcCCCc
Confidence 34678999999999999999998666678999999 888887773 279999999998732 223
Q ss_pred CEEEec
Q 024046 257 DAILMK 262 (273)
Q Consensus 257 D~~~l~ 262 (273)
|+|++-
T Consensus 228 DVIIvD 233 (374)
T PRK01581 228 DVIIID 233 (374)
T ss_pred cEEEEc
Confidence 999875
No 107
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=97.75 E-value=9.5e-05 Score=65.82 Aligned_cols=81 Identities=15% Similarity=0.324 Sum_probs=59.1
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCC-CCCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFE-SVPE 255 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~-~~p~ 255 (273)
...+++..+ .....+|+|||||.|.++..++++.. +++++|+ +..++.+++ .++++++.+|+.+ +.+.
T Consensus 25 ~~~Iv~~~~-~~~~~~VLEIG~G~G~LT~~Ll~~~~--~V~avEiD~~li~~l~~~~~~~~~~~~v~ii~~Dal~~~~~~ 101 (294)
T PTZ00338 25 LDKIVEKAA-IKPTDTVLEIGPGTGNLTEKLLQLAK--KVIAIEIDPRMVAELKKRFQNSPLASKLEVIEGDALKTEFPY 101 (294)
T ss_pred HHHHHHhcC-CCCcCEEEEecCchHHHHHHHHHhCC--cEEEEECCHHHHHHHHHHHHhcCCCCcEEEEECCHhhhcccc
Confidence 345666555 66678999999999999999999864 5899998 667765543 3689999999987 5555
Q ss_pred CCEEEecccccccC
Q 024046 256 GDAILMKVGNFENY 269 (273)
Q Consensus 256 ~D~~~l~~vLHd~~ 269 (273)
.|+++ .|.=++++
T Consensus 102 ~d~Vv-aNlPY~Is 114 (294)
T PTZ00338 102 FDVCV-ANVPYQIS 114 (294)
T ss_pred cCEEE-ecCCcccC
Confidence 57554 44444433
No 108
>PRK04148 hypothetical protein; Provisional
Probab=97.72 E-value=0.00016 Score=56.63 Aligned_cols=72 Identities=19% Similarity=0.328 Sum_probs=53.5
Q ss_pred HHhhcccCCCcceEEEecCCccH-HHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCceEEEcccCCCCC---CC-CEEEe
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGV-TLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVEHVGGNMFESVP---EG-DAILM 261 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~-~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gD~f~~~p---~~-D~~~l 261 (273)
+.+.++ -.+..+++|||+|.|. ++..|.+. ...++++|. |..++.++. ..++++.+|+|+|-+ ++ |+++-
T Consensus 8 l~~~~~-~~~~~kileIG~GfG~~vA~~L~~~--G~~ViaIDi~~~aV~~a~~-~~~~~v~dDlf~p~~~~y~~a~liys 83 (134)
T PRK04148 8 IAENYE-KGKNKKIVELGIGFYFKVAKKLKES--GFDVIVIDINEKAVEKAKK-LGLNAFVDDLFNPNLEIYKNAKLIYS 83 (134)
T ss_pred HHHhcc-cccCCEEEEEEecCCHHHHHHHHHC--CCEEEEEECCHHHHHHHHH-hCCeEEECcCCCCCHHHHhcCCEEEE
Confidence 444444 2345789999999996 77777765 467999998 887877764 457999999999644 34 88876
Q ss_pred cc
Q 024046 262 KV 263 (273)
Q Consensus 262 ~~ 263 (273)
.+
T Consensus 84 ir 85 (134)
T PRK04148 84 IR 85 (134)
T ss_pred eC
Confidence 54
No 109
>PLN02672 methionine S-methyltransferase
Probab=97.69 E-value=8.1e-05 Score=76.26 Aligned_cols=64 Identities=22% Similarity=0.252 Sum_probs=53.1
Q ss_pred cceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC----------------------CCceEEEcccCCCCC
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY----------------------AGVEHVGGNMFESVP 254 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~----------------------~ri~~~~gD~f~~~p 254 (273)
..+|+|||||+|..++.+++++|..+++++|+ |.+++.|+.+ +||+++.+|++++.+
T Consensus 119 ~~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~~~~~~~~l~~rV~f~~sDl~~~~~ 198 (1082)
T PLN02672 119 DKTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPVYDGEGKTLLDRVEFYESDLLGYCR 198 (1082)
T ss_pred CCEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCcccccccccccccccccccEEEEECchhhhcc
Confidence 36899999999999999999999999999998 8888766321 479999999998664
Q ss_pred C----CCEEEe
Q 024046 255 E----GDAILM 261 (273)
Q Consensus 255 ~----~D~~~l 261 (273)
. -|+|+.
T Consensus 199 ~~~~~fDlIVS 209 (1082)
T PLN02672 199 DNNIELDRIVG 209 (1082)
T ss_pred ccCCceEEEEE
Confidence 2 287764
No 110
>KOG2904 consensus Predicted methyltransferase [General function prediction only]
Probab=97.68 E-value=0.00011 Score=63.50 Aligned_cols=67 Identities=18% Similarity=0.291 Sum_probs=51.8
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEE----EcccCCCC--CCC--CE
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHV----GGNMFESV--PEG--DA 258 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~----~gD~f~~~--p~~--D~ 258 (273)
+.+...|+|+|||+|..+..++...|..+++.+|. +.++..|.++ +||.++ ..|.+.+- +.+ |+
T Consensus 146 ~~~~~~ildlgtGSGaIslsll~~L~~~~v~AiD~S~~Ai~La~eN~qr~~l~g~i~v~~~~me~d~~~~~~l~~~~~dl 225 (328)
T KOG2904|consen 146 HSKHTHILDLGTGSGAISLSLLHGLPQCTVTAIDVSKAAIKLAKENAQRLKLSGRIEVIHNIMESDASDEHPLLEGKIDL 225 (328)
T ss_pred hcccceEEEecCCccHHHHHHHhcCCCceEEEEeccHHHHHHHHHHHHHHhhcCceEEEecccccccccccccccCceeE
Confidence 45567999999999999999999999999999998 6666655442 888887 56667654 345 66
Q ss_pred EEe
Q 024046 259 ILM 261 (273)
Q Consensus 259 ~~l 261 (273)
++.
T Consensus 226 lvs 228 (328)
T KOG2904|consen 226 LVS 228 (328)
T ss_pred Eec
Confidence 543
No 111
>KOG1271 consensus Methyltransferases [General function prediction only]
Probab=97.66 E-value=9.5e-05 Score=60.34 Aligned_cols=65 Identities=20% Similarity=0.271 Sum_probs=45.3
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------C-CCceEEEcccCCC-C-CCC-CEEEe
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------Y-AGVEHVGGNMFES-V-PEG-DAILM 261 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~-~ri~~~~gD~f~~-~-p~~-D~~~l 261 (273)
...+|||+|||+|+++..|++.-=.-+.+++|- +..++.|+. . +.|+|++.|+++| + +.. |+|+=
T Consensus 67 ~A~~VlDLGtGNG~~L~~L~~egf~~~L~GvDYs~~AV~LA~niAe~~~~~n~I~f~q~DI~~~~~~~~qfdlvlD 142 (227)
T KOG1271|consen 67 QADRVLDLGTGNGHLLFQLAKEGFQSKLTGVDYSEKAVELAQNIAERDGFSNEIRFQQLDITDPDFLSGQFDLVLD 142 (227)
T ss_pred cccceeeccCCchHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHhcCCCcceeEEEeeccCCcccccceeEEee
Confidence 344999999999999999998743333577775 555554432 1 4599999999995 2 222 66653
No 112
>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=97.66 E-value=6.8e-05 Score=62.78 Aligned_cols=53 Identities=21% Similarity=0.370 Sum_probs=42.9
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------CCCceEEEcccCC
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------YAGVEHVGGNMFE 251 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gD~f~ 251 (273)
..+||||||.|.++..+++++|+..++++|. ...+..+.. .+++.++.+|...
T Consensus 19 ~l~lEIG~G~G~~l~~~A~~~Pd~n~iGiE~~~~~v~~a~~~~~~~~l~Nv~~~~~da~~ 78 (195)
T PF02390_consen 19 PLILEIGCGKGEFLIELAKRNPDINFIGIEIRKKRVAKALRKAEKRGLKNVRFLRGDARE 78 (195)
T ss_dssp EEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHHTTSSEEEEES-CTT
T ss_pred CeEEEecCCCCHHHHHHHHHCCCCCEEEEecchHHHHHHHHHHHhhcccceEEEEccHHH
Confidence 4999999999999999999999999999998 444444322 3899999999876
No 113
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=97.65 E-value=0.00014 Score=62.27 Aligned_cols=73 Identities=14% Similarity=0.016 Sum_probs=54.9
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCC-C-CC-CC-CEEEecccc
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFE-S-VP-EG-DAILMKVGN 265 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~-~-~p-~~-D~~~l~~vL 265 (273)
.+..+|||||||+|.++..+++. ..+++++|. +..++.++.. .+++++.+|+.. + .+ .. |+|++.+++
T Consensus 47 ~~~~~vLdiG~G~G~~~~~l~~~--~~~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~Ii~~~~l 124 (233)
T PRK05134 47 LFGKRVLDVGCGGGILSESMARL--GADVTGIDASEENIEVARLHALESGLKIDYRQTTAEELAAEHPGQFDVVTCMEML 124 (233)
T ss_pred CCCCeEEEeCCCCCHHHHHHHHc--CCeEEEEcCCHHHHHHHHHHHHHcCCceEEEecCHHHhhhhcCCCccEEEEhhHh
Confidence 35678999999999999999886 457899998 6666655431 357888888765 2 22 23 999999999
Q ss_pred cccCC
Q 024046 266 FENYQ 270 (273)
Q Consensus 266 Hd~~~ 270 (273)
+...+
T Consensus 125 ~~~~~ 129 (233)
T PRK05134 125 EHVPD 129 (233)
T ss_pred hccCC
Confidence 98765
No 114
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=97.65 E-value=0.00012 Score=65.06 Aligned_cols=66 Identities=17% Similarity=0.193 Sum_probs=56.0
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC----CCceEEEcccCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY----AGVEHVGGNMFE 251 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~----~ri~~~~gD~f~ 251 (273)
..++++.+. ..+...+||.+||.|.++..+++.+| +.+++++|. |++++.+++. +|++++.+||-+
T Consensus 8 l~Evl~~L~-~~pg~~vlD~TlG~GGhS~~il~~~~~~g~VigiD~D~~al~~ak~~L~~~~ri~~i~~~f~~ 79 (296)
T PRK00050 8 LDEVVDALA-IKPDGIYVDGTFGGGGHSRAILERLGPKGRLIAIDRDPDAIAAAKDRLKPFGRFTLVHGNFSN 79 (296)
T ss_pred HHHHHHhhC-CCCCCEEEEeCcCChHHHHHHHHhCCCCCEEEEEcCCHHHHHHHHHhhccCCcEEEEeCCHHH
Confidence 456777775 55667999999999999999999997 789999998 8888887642 589999999986
No 115
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=97.64 E-value=0.00025 Score=58.84 Aligned_cols=72 Identities=13% Similarity=0.275 Sum_probs=53.7
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeechHHHHhCCCCCCceEEEcccCCC---------CCC-C
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDLPHVVQDAPSYAGVEHVGGNMFES---------VPE-G 256 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~~a~~~~ri~~~~gD~f~~---------~p~-~ 256 (273)
+.+.+....+..+|||||||+|.++..+++++ +..+++++|+.... ..++++++.+|+.++ .+. +
T Consensus 23 ~~~~~~~i~~g~~VLDiG~GtG~~~~~l~~~~~~~~~v~~vDis~~~----~~~~i~~~~~d~~~~~~~~~l~~~~~~~~ 98 (188)
T TIGR00438 23 LNQKFKLIKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMK----PIENVDFIRGDFTDEEVLNKIRERVGDDK 98 (188)
T ss_pred HHHHhcccCCCCEEEEecCCCCHHHHHHHHHhCCCceEEEEeccccc----cCCCceEEEeeCCChhHHHHHHHHhCCCC
Confidence 33444445677899999999999999999987 66789999994322 246799999998762 343 3
Q ss_pred -CEEEecc
Q 024046 257 -DAILMKV 263 (273)
Q Consensus 257 -D~~~l~~ 263 (273)
|+++...
T Consensus 99 ~D~V~~~~ 106 (188)
T TIGR00438 99 VDVVMSDA 106 (188)
T ss_pred ccEEEcCC
Confidence 9999743
No 116
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=97.62 E-value=0.00017 Score=61.49 Aligned_cols=75 Identities=11% Similarity=0.107 Sum_probs=57.7
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------------------CCCceEEEcccCCCCCC
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------------------YAGVEHVGGNMFESVPE 255 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------------------~~ri~~~~gD~f~~~p~ 255 (273)
.....+|||+|||.|..+.-|+++ ..+++++|+ |..++.+.. ..+|++..+|+|+..+.
T Consensus 35 ~~~~~rvL~~gCG~G~da~~LA~~--G~~V~avD~s~~Ai~~~~~~~~l~~~~~~~~~~~~~~~~~v~~~~~D~~~l~~~ 112 (218)
T PRK13255 35 LPAGSRVLVPLCGKSLDMLWLAEQ--GHEVLGVELSELAVEQFFAENGLTPQTRQSGEFEHYQAGEITIYCGDFFALTAA 112 (218)
T ss_pred CCCCCeEEEeCCCChHhHHHHHhC--CCeEEEEccCHHHHHHHHHHcCCCccccccccccccccCceEEEECcccCCCcc
Confidence 345579999999999999999985 678999998 776775411 25799999999984332
Q ss_pred ----CCEEEecccccccCCC
Q 024046 256 ----GDAILMKVGNFENYQS 271 (273)
Q Consensus 256 ----~D~~~l~~vLHd~~~~ 271 (273)
.|+++-+-++|..+++
T Consensus 113 ~~~~fd~v~D~~~~~~l~~~ 132 (218)
T PRK13255 113 DLADVDAVYDRAALIALPEE 132 (218)
T ss_pred cCCCeeEEEehHhHhhCCHH
Confidence 2999988888776543
No 117
>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=97.60 E-value=0.0001 Score=62.57 Aligned_cols=72 Identities=14% Similarity=0.015 Sum_probs=55.6
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC-C--CCCC-CEEEecccc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-S--VPEG-DAILMKVGN 265 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~--~p~~-D~~~l~~vL 265 (273)
...+|||||||+|.++..+++..+ +++++|+ |.+++.++.. .+++++.+|+.+ + .+.. |++++.+++
T Consensus 45 ~~~~vLdlG~G~G~~~~~l~~~~~--~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~D~i~~~~~l 122 (224)
T TIGR01983 45 FGLRVLDVGCGGGLLSEPLARLGA--NVTGIDASEENIEVAKLHAKKDPLLKIEYRCTSVEDLAEKGAKSFDVVTCMEVL 122 (224)
T ss_pred CCCeEEEECCCCCHHHHHHHhcCC--eEEEEeCCHHHHHHHHHHHHHcCCCceEEEeCCHHHhhcCCCCCccEEEehhHH
Confidence 467999999999999999988765 4899998 6676666542 258888888765 2 2233 999999999
Q ss_pred cccCC
Q 024046 266 FENYQ 270 (273)
Q Consensus 266 Hd~~~ 270 (273)
|...+
T Consensus 123 ~~~~~ 127 (224)
T TIGR01983 123 EHVPD 127 (224)
T ss_pred HhCCC
Confidence 98765
No 118
>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=97.59 E-value=8.7e-05 Score=62.55 Aligned_cols=80 Identities=19% Similarity=0.361 Sum_probs=50.7
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC---------------CCCceEEEcccC
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS---------------YAGVEHVGGNMF 250 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---------------~~ri~~~~gD~f 250 (273)
.+++.+. +.+...++|||+|.|....+.+-.++--+++++++ |.....|.. ..++++..|||.
T Consensus 33 ~il~~~~-l~~~dvF~DlGSG~G~~v~~aal~~~~~~~~GIEi~~~~~~~a~~~~~~~~~~~~~~g~~~~~v~l~~gdfl 111 (205)
T PF08123_consen 33 KILDELN-LTPDDVFYDLGSGVGNVVFQAALQTGCKKSVGIEILPELHDLAEELLEELKKRMKHYGKRPGKVELIHGDFL 111 (205)
T ss_dssp HHHHHTT---TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE-SHHHHHHHHHHHHHHHHHHHHCTB---EEEEECS-TT
T ss_pred HHHHHhC-CCCCCEEEECCCCCCHHHHHHHHHcCCcEEEEEEechHHHHHHHHHHHHHHHHHHHhhcccccceeeccCcc
Confidence 4555555 66778999999999999999988887555999997 665544432 167899999999
Q ss_pred C-C-----CCCCCEEEecccccc
Q 024046 251 E-S-----VPEGDAILMKVGNFE 267 (273)
Q Consensus 251 ~-~-----~p~~D~~~l~~vLHd 267 (273)
+ + +.++|++++.+.+.+
T Consensus 112 ~~~~~~~~~s~AdvVf~Nn~~F~ 134 (205)
T PF08123_consen 112 DPDFVKDIWSDADVVFVNNTCFD 134 (205)
T ss_dssp THHHHHHHGHC-SEEEE--TTT-
T ss_pred ccHhHhhhhcCCCEEEEeccccC
Confidence 7 2 245799999988643
No 119
>PRK03612 spermidine synthase; Provisional
Probab=97.59 E-value=0.00013 Score=70.06 Aligned_cols=66 Identities=27% Similarity=0.456 Sum_probs=54.5
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCC-CeEEEeec-hHHHHhCCC-------------CCCceEEEcccCCC---CCCC-
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQ-IKAVNFDL-PHVVQDAPS-------------YAGVEHVGGNMFES---VPEG- 256 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~-------------~~ri~~~~gD~f~~---~p~~- 256 (273)
+++++|+|||||+|..+..+++ +|. .+++++|+ |+|++.+++ ++|++++.+|.++- .++.
T Consensus 296 ~~~~rVL~IG~G~G~~~~~ll~-~~~v~~v~~VEid~~vi~~ar~~~~l~~~~~~~~~dprv~vi~~Da~~~l~~~~~~f 374 (521)
T PRK03612 296 ARPRRVLVLGGGDGLALREVLK-YPDVEQVTLVDLDPAMTELARTSPALRALNGGALDDPRVTVVNDDAFNWLRKLAEKF 374 (521)
T ss_pred CCCCeEEEEcCCccHHHHHHHh-CCCcCeEEEEECCHHHHHHHHhCCcchhhhccccCCCceEEEEChHHHHHHhCCCCC
Confidence 4678999999999999999997 566 78999999 999998765 16899999998872 3344
Q ss_pred CEEEec
Q 024046 257 DAILMK 262 (273)
Q Consensus 257 D~~~l~ 262 (273)
|+|++.
T Consensus 375 DvIi~D 380 (521)
T PRK03612 375 DVIIVD 380 (521)
T ss_pred CEEEEe
Confidence 999875
No 120
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=97.52 E-value=0.00018 Score=60.33 Aligned_cols=64 Identities=17% Similarity=0.160 Sum_probs=48.9
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCC--C--CCEEEe
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVP--E--GDAILM 261 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p--~--~D~~~l 261 (273)
...++||+|||+|.++..++.+.. .+++.+|. |.+++.++.+ ++++++.+|+++.++ . .|+|++
T Consensus 53 ~~~~vLDl~~GsG~l~l~~lsr~a-~~V~~vE~~~~a~~~a~~Nl~~~~~~~v~~~~~D~~~~l~~~~~~fDlV~~ 127 (199)
T PRK10909 53 VDARCLDCFAGSGALGLEALSRYA-AGATLLEMDRAVAQQLIKNLATLKAGNARVVNTNALSFLAQPGTPHNVVFV 127 (199)
T ss_pred CCCEEEEcCCCccHHHHHHHHcCC-CEEEEEECCHHHHHHHHHHHHHhCCCcEEEEEchHHHHHhhcCCCceEEEE
Confidence 446999999999999998766664 58999998 7777766542 579999999987332 2 388875
No 121
>KOG1541 consensus Predicted protein carboxyl methylase [General function prediction only]
Probab=97.52 E-value=9.4e-05 Score=62.12 Aligned_cols=75 Identities=20% Similarity=0.340 Sum_probs=53.0
Q ss_pred HHHhhcccCCC--cceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCc--eEEEcccCC--CCCCC--C
Q 024046 187 RILEHYEGFQN--VERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGV--EHVGGNMFE--SVPEG--D 257 (273)
Q Consensus 187 ~il~~~~~~~~--~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri--~~~~gD~f~--~~p~~--D 257 (273)
.-++.++ +++ ...|||||||+|..+..|... ....+++|+ |++++.|.+ ..+ .++-+||=+ |++.| |
T Consensus 39 RaLELLa-lp~~~~~~iLDIGCGsGLSg~vL~~~--Gh~wiGvDiSpsML~~a~~-~e~egdlil~DMG~GlpfrpGtFD 114 (270)
T KOG1541|consen 39 RALELLA-LPGPKSGLILDIGCGSGLSGSVLSDS--GHQWIGVDISPSMLEQAVE-RELEGDLILCDMGEGLPFRPGTFD 114 (270)
T ss_pred HHHHHhh-CCCCCCcEEEEeccCCCcchheeccC--CceEEeecCCHHHHHHHHH-hhhhcCeeeeecCCCCCCCCCccc
Confidence 3344444 554 789999999999988877665 466899998 999998875 223 467778877 44455 7
Q ss_pred EEEecccc
Q 024046 258 AILMKVGN 265 (273)
Q Consensus 258 ~~~l~~vL 265 (273)
.++....+
T Consensus 115 g~ISISAv 122 (270)
T KOG1541|consen 115 GVISISAV 122 (270)
T ss_pred eEEEeeee
Confidence 66554433
No 122
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=97.51 E-value=0.00026 Score=58.18 Aligned_cols=64 Identities=19% Similarity=0.272 Sum_probs=49.9
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCCCCCCCCEEEe
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFESVPEGDAILM 261 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~~~p~~D~~~l 261 (273)
..++|+|+|||+|.+++..+-.-|. +++.+|+ |+.++.++.+ .+|.|+..|.-.--+.-|.+++
T Consensus 45 ~g~~V~DlG~GTG~La~ga~~lGa~-~V~~vdiD~~a~ei~r~N~~~l~g~v~f~~~dv~~~~~~~dtvim 114 (198)
T COG2263 45 EGKTVLDLGAGTGILAIGAALLGAS-RVLAVDIDPEALEIARANAEELLGDVEFVVADVSDFRGKFDTVIM 114 (198)
T ss_pred CCCEEEEcCCCcCHHHHHHHhcCCc-EEEEEecCHHHHHHHHHHHHhhCCceEEEEcchhhcCCccceEEE
Confidence 4578999999999999999888876 6899998 8888887764 6799999998652222344443
No 123
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=97.50 E-value=0.00024 Score=66.96 Aligned_cols=73 Identities=22% Similarity=0.212 Sum_probs=55.1
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCC-----C
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFES-----V 253 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~-----~ 253 (273)
..+++.++ ..+..+|||+|||+|.++..+++.. .+++++|. +++++.|+.+ ++++++.+|+.+. +
T Consensus 287 ~~vl~~l~-~~~~~~VLDlgcGtG~~sl~la~~~--~~V~gvD~s~~al~~A~~n~~~~~~~~v~~~~~d~~~~l~~~~~ 363 (443)
T PRK13168 287 ARALEWLD-PQPGDRVLDLFCGLGNFTLPLARQA--AEVVGVEGVEAMVERARENARRNGLDNVTFYHANLEEDFTDQPW 363 (443)
T ss_pred HHHHHHhc-CCCCCEEEEEeccCCHHHHHHHHhC--CEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEeChHHhhhhhhh
Confidence 34444444 4456799999999999999999986 47899998 8888877642 5799999999753 2
Q ss_pred CC--CCEEEe
Q 024046 254 PE--GDAILM 261 (273)
Q Consensus 254 p~--~D~~~l 261 (273)
+. .|++++
T Consensus 364 ~~~~fD~Vi~ 373 (443)
T PRK13168 364 ALGGFDKVLL 373 (443)
T ss_pred hcCCCCEEEE
Confidence 22 288876
No 124
>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=97.48 E-value=0.00026 Score=59.88 Aligned_cols=81 Identities=25% Similarity=0.390 Sum_probs=59.5
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCC-CeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCCC-C
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQ-IKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVPE-G 256 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p~-~ 256 (273)
..+++.++ +++..+|||||+|+|.++..+++..-. -+++.+|. |.+++.|+.. ++|+++.||....+|. +
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 34566666 788899999999999999999988543 35788887 8888877653 6899999999887664 3
Q ss_pred --CEEEecccccc
Q 024046 257 --DAILMKVGNFE 267 (273)
Q Consensus 257 --D~~~l~~vLHd 267 (273)
|.|++.-....
T Consensus 141 pfD~I~v~~a~~~ 153 (209)
T PF01135_consen 141 PFDRIIVTAAVPE 153 (209)
T ss_dssp SEEEEEESSBBSS
T ss_pred CcCEEEEeeccch
Confidence 99988765543
No 125
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=97.46 E-value=0.00023 Score=62.87 Aligned_cols=67 Identities=27% Similarity=0.356 Sum_probs=57.2
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----------CCCceEEEcccCC---CCCC-CCEE
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----------YAGVEHVGGNMFE---SVPE-GDAI 259 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gD~f~---~~p~-~D~~ 259 (273)
.+.+++||=||||.|..+.++++..|--+.+++|+ |+|++.+++ ++|++++.+|-++ ..+. .|+|
T Consensus 74 h~~pk~VLiiGgGdG~tlRevlkh~~ve~i~~VEID~~Vi~~ar~~l~~~~~~~~dpRv~i~i~Dg~~~v~~~~~~fDvI 153 (282)
T COG0421 74 HPNPKRVLIIGGGDGGTLREVLKHLPVERITMVEIDPAVIELARKYLPEPSGGADDPRVEIIIDDGVEFLRDCEEKFDVI 153 (282)
T ss_pred CCCCCeEEEECCCccHHHHHHHhcCCcceEEEEEcCHHHHHHHHHhccCcccccCCCceEEEeccHHHHHHhCCCcCCEE
Confidence 34567999999999999999999999999999999 999998865 2899999999987 3444 3988
Q ss_pred Ee
Q 024046 260 LM 261 (273)
Q Consensus 260 ~l 261 (273)
++
T Consensus 154 i~ 155 (282)
T COG0421 154 IV 155 (282)
T ss_pred EE
Confidence 75
No 126
>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=97.45 E-value=0.00024 Score=63.04 Aligned_cols=66 Identities=20% Similarity=0.248 Sum_probs=47.7
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCCCCCC-CEEEecc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFESVPEG-DAILMKV 263 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~~p~~-D~~~l~~ 263 (273)
...+|+|||||+|.++..+++. +..+++++|+ |.+++.|+.+ +++.+..+|.....+.. |++++.-
T Consensus 159 ~g~~VLDvGcGsG~lai~aa~~-g~~~V~avDid~~al~~a~~n~~~n~~~~~~~~~~~~~~~~~~~~fDlVvan~ 233 (288)
T TIGR00406 159 KDKNVIDVGCGSGILSIAALKL-GAAKVVGIDIDPLAVESARKNAELNQVSDRLQVKLIYLEQPIEGKADVIVANI 233 (288)
T ss_pred CCCEEEEeCCChhHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHcCCCcceEEEecccccccCCCceEEEEec
Confidence 4589999999999999888765 4458999998 7777776542 46777777643323333 9998743
No 127
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=97.44 E-value=0.00038 Score=47.99 Aligned_cols=60 Identities=18% Similarity=0.273 Sum_probs=50.2
Q ss_pred HHHHhChhHHHHhCCC--CCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 43 AAIQLGVFEIIAKAGE--LSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 43 ~a~elglfd~L~~~g~--~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
...+-.|+..|.+.|+ .|+.|||+.+|+ +...++|+|.-|...|+++... ..++.|.++.
T Consensus 5 ~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl----~~~~v~r~L~~L~~~G~V~~~~-~~~~~W~i~~ 66 (68)
T smart00550 5 DSLEEKILEFLENSGDETSTALQLAKNLGL----PKKEVNRVLYSLEKKGKVCKQG-GTPPLWKLTD 66 (68)
T ss_pred hHHHHHHHHHHHHCCCCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecC-CCCCceEeec
Confidence 3456678999999876 999999999999 9999999999999999999742 1337787764
No 128
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=97.41 E-value=0.00032 Score=63.10 Aligned_cols=64 Identities=13% Similarity=0.089 Sum_probs=50.0
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCC---CCC-CCEEEec
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFES---VPE-GDAILMK 262 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~---~p~-~D~~~l~ 262 (273)
...+|||+|||+|.++..+++. ..+++++|. |.+++.|+++ ++++++.+|+.+- ... .|++++.
T Consensus 173 ~~~~VLDl~cG~G~~sl~la~~--~~~V~gvD~s~~av~~A~~n~~~~~l~~v~~~~~D~~~~~~~~~~~~D~Vv~d 247 (315)
T PRK03522 173 PPRSMWDLFCGVGGFGLHCATP--GMQLTGIEISAEAIACAKQSAAELGLTNVQFQALDSTQFATAQGEVPDLVLVN 247 (315)
T ss_pred CCCEEEEccCCCCHHHHHHHhc--CCEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEcCHHHHHHhcCCCCeEEEEC
Confidence 3479999999999999999985 467999998 8888777542 5799999999762 222 3888754
No 129
>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=97.40 E-value=0.0003 Score=61.91 Aligned_cols=69 Identities=20% Similarity=0.259 Sum_probs=54.2
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----------CCCceEEEcccCC--C-CCCC-CEEE
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----------YAGVEHVGGNMFE--S-VPEG-DAIL 260 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gD~f~--~-~p~~-D~~~ 260 (273)
+++.+||+||||.|..+..+++..|..+.+++|+ |.+++.+++ .+|++++.+|.++ . .++. |+|+
T Consensus 71 ~~p~~VL~iG~G~G~~~~~ll~~~~~~~v~~veid~~vi~~a~~~~~~~~~~~~~~~v~i~~~D~~~~l~~~~~~yDvIi 150 (270)
T TIGR00417 71 PNPKHVLVIGGGDGGVLREVLKHKSVEKATLVDIDEKVIELSKKFLPSLAGSYDDPRVDLQIDDGFKFLADTENTFDVII 150 (270)
T ss_pred CCCCEEEEEcCCchHHHHHHHhCCCcceEEEEeCCHHHHHHHHHHhHhhcccccCCceEEEECchHHHHHhCCCCccEEE
Confidence 4567999999999999999998876778999998 777776654 2689999999876 2 2333 9998
Q ss_pred eccc
Q 024046 261 MKVG 264 (273)
Q Consensus 261 l~~v 264 (273)
+...
T Consensus 151 ~D~~ 154 (270)
T TIGR00417 151 VDST 154 (270)
T ss_pred EeCC
Confidence 7543
No 130
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=97.39 E-value=0.00029 Score=62.42 Aligned_cols=63 Identities=21% Similarity=0.347 Sum_probs=44.8
Q ss_pred HHHHHHhcchhhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC
Q 024046 173 YHEAMFNHSTIAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY 239 (273)
Q Consensus 173 f~~am~~~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~ 239 (273)
|-...+..++... .+++.+. .+..+++|||||+|.++++.++--.. +++++|+ |..++.|+++
T Consensus 141 FGTG~HpTT~lcL-~~Le~~~--~~g~~vlDvGcGSGILaIAa~kLGA~-~v~g~DiDp~AV~aa~eN 204 (300)
T COG2264 141 FGTGTHPTTSLCL-EALEKLL--KKGKTVLDVGCGSGILAIAAAKLGAK-KVVGVDIDPQAVEAAREN 204 (300)
T ss_pred cCCCCChhHHHHH-HHHHHhh--cCCCEEEEecCChhHHHHHHHHcCCc-eEEEecCCHHHHHHHHHH
Confidence 4433344444433 2345544 47899999999999999999888653 6899999 7778877754
No 131
>PLN02823 spermine synthase
Probab=97.36 E-value=0.00031 Score=63.63 Aligned_cols=67 Identities=22% Similarity=0.213 Sum_probs=55.6
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----------CCCceEEEcccCCCC---CCC-CEEE
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----------YAGVEHVGGNMFESV---PEG-DAIL 260 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gD~f~~~---p~~-D~~~ 260 (273)
+++++||-||||.|..+..+++..+..+++++|+ |.|++.+++ .+|++++.+|.+.-+ ++. |+|+
T Consensus 102 ~~pk~VLiiGgG~G~~~re~l~~~~~~~v~~VEiD~~vv~lar~~~~~~~~~~~dprv~v~~~Da~~~L~~~~~~yDvIi 181 (336)
T PLN02823 102 PNPKTVFIMGGGEGSTAREVLRHKTVEKVVMCDIDQEVVDFCRKHLTVNREAFCDKRLELIINDARAELEKRDEKFDVII 181 (336)
T ss_pred CCCCEEEEECCCchHHHHHHHhCCCCCeEEEEECCHHHHHHHHHhcccccccccCCceEEEEChhHHHHhhCCCCccEEE
Confidence 4678999999999999999999777778999999 889888764 279999999998732 233 9988
Q ss_pred ec
Q 024046 261 MK 262 (273)
Q Consensus 261 l~ 262 (273)
+-
T Consensus 182 ~D 183 (336)
T PLN02823 182 GD 183 (336)
T ss_pred ec
Confidence 75
No 132
>PRK11727 23S rRNA mA1618 methyltransferase; Provisional
Probab=97.34 E-value=0.0004 Score=62.43 Aligned_cols=66 Identities=20% Similarity=0.292 Sum_probs=50.5
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC--------CCceEEE----cccCCCC--CCC--CEE
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY--------AGVEHVG----GNMFESV--PEG--DAI 259 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~--------~ri~~~~----gD~f~~~--p~~--D~~ 259 (273)
...++||||||+|.....++.+.|+.++++.|+ |..++.|+.+ +||++.. .++|..+ +.. |++
T Consensus 114 ~~~~vLDIGtGag~I~~lLa~~~~~~~~~atDId~~Al~~A~~Nv~~Np~l~~~I~~~~~~~~~~i~~~i~~~~~~fDli 193 (321)
T PRK11727 114 ANVRVLDIGVGANCIYPLIGVHEYGWRFVGSDIDPQALASAQAIISANPGLNGAIRLRLQKDSKAIFKGIIHKNERFDAT 193 (321)
T ss_pred CCceEEEecCCccHHHHHHHhhCCCCEEEEEeCCHHHHHHHHHHHHhccCCcCcEEEEEccchhhhhhcccccCCceEEE
Confidence 457999999999999988999999999999998 7777777542 4787753 4556543 332 888
Q ss_pred Eec
Q 024046 260 LMK 262 (273)
Q Consensus 260 ~l~ 262 (273)
++.
T Consensus 194 vcN 196 (321)
T PRK11727 194 LCN 196 (321)
T ss_pred EeC
Confidence 765
No 133
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=97.34 E-value=0.001 Score=55.90 Aligned_cols=74 Identities=20% Similarity=0.373 Sum_probs=60.2
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCCC-C--
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVPE-G-- 256 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p~-~-- 256 (273)
.++..+. +++..+||+||||+|..+..+++.-- +++.+|+ ++..+.|+.+ .+|.++.||-..-+|+ +
T Consensus 63 ~m~~~L~-~~~g~~VLEIGtGsGY~aAvla~l~~--~V~siEr~~~L~~~A~~~L~~lg~~nV~v~~gDG~~G~~~~aPy 139 (209)
T COG2518 63 RMLQLLE-LKPGDRVLEIGTGSGYQAAVLARLVG--RVVSIERIEELAEQARRNLETLGYENVTVRHGDGSKGWPEEAPY 139 (209)
T ss_pred HHHHHhC-CCCCCeEEEECCCchHHHHHHHHHhC--eEEEEEEcHHHHHHHHHHHHHcCCCceEEEECCcccCCCCCCCc
Confidence 4566666 88889999999999999998888866 6888887 7777777652 6799999999998775 4
Q ss_pred CEEEecc
Q 024046 257 DAILMKV 263 (273)
Q Consensus 257 D~~~l~~ 263 (273)
|.|+..-
T Consensus 140 D~I~Vta 146 (209)
T COG2518 140 DRIIVTA 146 (209)
T ss_pred CEEEEee
Confidence 9888654
No 134
>KOG2899 consensus Predicted methyltransferase [General function prediction only]
Probab=97.33 E-value=0.00045 Score=58.91 Aligned_cols=53 Identities=19% Similarity=0.332 Sum_probs=44.1
Q ss_pred HHHHhhcc-cCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC
Q 024046 186 ERILEHYE-GFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS 238 (273)
Q Consensus 186 ~~il~~~~-~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~ 238 (273)
+..++.++ .|-....+|||||++|.++..+++.|-....+++|+ |..|+.|+.
T Consensus 46 D~rLk~L~~~~f~~~~~LDIGCNsG~lt~~iak~F~~r~iLGvDID~~LI~~Ark 100 (288)
T KOG2899|consen 46 DPRLKVLEKDWFEPKQALDIGCNSGFLTLSIAKDFGPRRILGVDIDPVLIQRARK 100 (288)
T ss_pred ChhhhhccccccCcceeEeccCCcchhHHHHHHhhccceeeEeeccHHHHHHHHH
Confidence 34455553 366789999999999999999999999999999999 777888865
No 135
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=97.30 E-value=0.00052 Score=49.72 Aligned_cols=58 Identities=28% Similarity=0.390 Sum_probs=49.3
Q ss_pred HhChhHHHHhC-CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhc
Q 024046 46 QLGVFEIIAKA-GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVS 109 (273)
Q Consensus 46 elglfd~L~~~-g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s 109 (273)
-+.|++.|... ++.|+.|||+.+|+ +...+.|+|..|...|++... ...+.|.+++..
T Consensus 7 ~~~Il~~l~~~~~~~t~~~ia~~l~i----~~~tv~r~l~~L~~~g~l~~~--~~~~~y~l~~~~ 65 (91)
T smart00346 7 GLAVLRALAEEPGGLTLAELAERLGL----SKSTAHRLLNTLQELGYVEQD--GQNGRYRLGPKV 65 (91)
T ss_pred HHHHHHHHHhCCCCcCHHHHHHHhCC----CHHHHHHHHHHHHHCCCeeec--CCCCceeecHHH
Confidence 35678888876 68999999999999 999999999999999999974 235678888754
No 136
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=97.30 E-value=0.0006 Score=58.73 Aligned_cols=68 Identities=12% Similarity=0.234 Sum_probs=54.0
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCCC-------C-C-C
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFESV-------P-E-G 256 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~~-------p-~-~ 256 (273)
..++++|||||+|+|..+..+++..| +.+++.+|. |+.++.|+++ ++|+++.||..+-+ + + -
T Consensus 66 ~~~~~~vLEiGt~~G~s~l~la~~~~~~g~v~tiD~d~~~~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~f 145 (234)
T PLN02781 66 IMNAKNTLEIGVFTGYSLLTTALALPEDGRITAIDIDKEAYEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEF 145 (234)
T ss_pred HhCCCEEEEecCcccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCC
Confidence 45789999999999999999998865 678999998 7777776542 78999999998621 1 2 3
Q ss_pred CEEEec
Q 024046 257 DAILMK 262 (273)
Q Consensus 257 D~~~l~ 262 (273)
|++++-
T Consensus 146 D~VfiD 151 (234)
T PLN02781 146 DFAFVD 151 (234)
T ss_pred CEEEEC
Confidence 888764
No 137
>KOG0820 consensus Ribosomal RNA adenine dimethylase [RNA processing and modification]
Probab=97.27 E-value=0.00084 Score=58.18 Aligned_cols=73 Identities=18% Similarity=0.387 Sum_probs=57.8
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC-CCCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE-SVPE 255 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~-~~p~ 255 (273)
+..|+..-+ ......||+||.|+|.+...++++- .+++.+++ |.+++..... .+.+++.||+++ ++|-
T Consensus 47 ~~~I~~ka~-~k~tD~VLEvGPGTGnLT~~lLe~~--kkVvA~E~Dprmvael~krv~gtp~~~kLqV~~gD~lK~d~P~ 123 (315)
T KOG0820|consen 47 IDQIVEKAD-LKPTDVVLEVGPGTGNLTVKLLEAG--KKVVAVEIDPRMVAELEKRVQGTPKSGKLQVLHGDFLKTDLPR 123 (315)
T ss_pred HHHHHhccC-CCCCCEEEEeCCCCCHHHHHHHHhc--CeEEEEecCcHHHHHHHHHhcCCCccceeeEEecccccCCCcc
Confidence 456666666 7788999999999999999999994 45788887 7776655432 679999999998 7887
Q ss_pred CCEEE
Q 024046 256 GDAIL 260 (273)
Q Consensus 256 ~D~~~ 260 (273)
.|.++
T Consensus 124 fd~cV 128 (315)
T KOG0820|consen 124 FDGCV 128 (315)
T ss_pred cceee
Confidence 66554
No 138
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=97.26 E-value=0.00049 Score=52.64 Aligned_cols=69 Identities=23% Similarity=0.301 Sum_probs=56.6
Q ss_pred hHHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChh
Q 024046 36 VLPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPV 108 (273)
Q Consensus 36 ~~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~ 108 (273)
-.+.+|.-..++.|+..|...|+.++.||++.+++ ++..+.+.|+.|...|+++....+..-.|++++.
T Consensus 8 ~~fkaLadptRl~IL~~L~~~~~~~v~ela~~l~l----sqstvS~HL~~L~~AGLV~~~r~Gr~~~Y~l~~~ 76 (117)
T PRK10141 8 QLFKILSDETRLGIVLLLRESGELCVCDLCTALDQ----SQPKISRHLALLRESGLLLDRKQGKWVHYRLSPH 76 (117)
T ss_pred HHHHHhCCHHHHHHHHHHHHcCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCceEEEEEcCEEEEEECch
Confidence 45678888899999999987579999999999999 9999999999999999998642112224777653
No 139
>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=97.25 E-value=0.00038 Score=46.78 Aligned_cols=54 Identities=19% Similarity=0.301 Sum_probs=47.2
Q ss_pred HHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 38 PMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 38 ~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+.+|..-.++.|+..|...+|.|+.+||+.+|+ ++..+.+.|+.|...|+++..
T Consensus 4 ~~aL~~p~R~~Il~~L~~~~~~t~~ela~~l~~----~~~t~s~hL~~L~~aGli~~~ 57 (61)
T PF12840_consen 4 FKALSDPTRLRILRLLASNGPMTVSELAEELGI----SQSTVSYHLKKLEEAGLIEVE 57 (61)
T ss_dssp HHHHTSHHHHHHHHHHHHCSTBEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHhCCHHHHHHHHHHhcCCCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe
Confidence 456677789999999955579999999999999 999999999999999999863
No 140
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=97.25 E-value=0.00065 Score=64.02 Aligned_cols=71 Identities=17% Similarity=0.149 Sum_probs=55.2
Q ss_pred hhcccCCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCC---CCC-CC
Q 024046 190 EHYEGFQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFES---VPE-GD 257 (273)
Q Consensus 190 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~---~p~-~D 257 (273)
..++ ..+..+|+|+|||+|..+..+++.. |+.+++.+|+ +..++.++++ +.|+++.+|+.+. ++. .|
T Consensus 244 ~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~~~~v~avDi~~~~l~~~~~n~~~~g~~~v~~~~~D~~~~~~~~~~~fD 322 (444)
T PRK14902 244 PALD-PKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEKFD 322 (444)
T ss_pred HHhC-CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeCCcccccchhcccCC
Confidence 3444 5566899999999999999999986 6788999999 7777666432 4599999999762 343 39
Q ss_pred EEEe
Q 024046 258 AILM 261 (273)
Q Consensus 258 ~~~l 261 (273)
+|++
T Consensus 323 ~Vl~ 326 (444)
T PRK14902 323 KILV 326 (444)
T ss_pred EEEE
Confidence 9886
No 141
>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=97.24 E-value=0.0016 Score=55.85 Aligned_cols=79 Identities=14% Similarity=0.109 Sum_probs=50.8
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-h-HHHHhCCCCCCceEEE-cccCC--------CC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-P-HVVQDAPSYAGVEHVG-GNMFE--------SV 253 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p-~v~~~a~~~~ri~~~~-gD~f~--------~~ 253 (273)
...+++.++......+++|||||+|.++..++++ +--+++++|. + .+....+.++|+.... -|+.. ++
T Consensus 63 L~~~l~~~~~~~~~~~vlDiG~gtG~~t~~l~~~-ga~~v~avD~~~~~l~~~l~~~~~v~~~~~~ni~~~~~~~~~~d~ 141 (228)
T TIGR00478 63 LKEALEEFNIDVKNKIVLDVGSSTGGFTDCALQK-GAKEVYGVDVGYNQLAEKLRQDERVKVLERTNIRYVTPADIFPDF 141 (228)
T ss_pred HHHHHHhcCCCCCCCEEEEcccCCCHHHHHHHHc-CCCEEEEEeCCHHHHHHHHhcCCCeeEeecCCcccCCHhHcCCCc
Confidence 3455565541225679999999999999999987 4457999998 4 3444555566654222 23331 22
Q ss_pred CCCCEEEeccc
Q 024046 254 PEGDAILMKVG 264 (273)
Q Consensus 254 p~~D~~~l~~v 264 (273)
+..|+.+++..
T Consensus 142 ~~~DvsfiS~~ 152 (228)
T TIGR00478 142 ATFDVSFISLI 152 (228)
T ss_pred eeeeEEEeehH
Confidence 23488887654
No 142
>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=97.24 E-value=0.0004 Score=61.75 Aligned_cols=82 Identities=26% Similarity=0.400 Sum_probs=52.0
Q ss_pred HHHHHHhcchhhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceE
Q 024046 173 YHEAMFNHSTIAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEH 244 (273)
Q Consensus 173 f~~am~~~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~ 244 (273)
|-..-+..++..... +..+. .+..+|+|||||+|.++++.++.-.. +++.+|. |..++.|+.+ +++.+
T Consensus 140 FGTG~H~TT~lcl~~-l~~~~--~~g~~vLDvG~GSGILaiaA~klGA~-~v~a~DiDp~Av~~a~~N~~~N~~~~~~~v 215 (295)
T PF06325_consen 140 FGTGHHPTTRLCLEL-LEKYV--KPGKRVLDVGCGSGILAIAAAKLGAK-KVVAIDIDPLAVEAARENAELNGVEDRIEV 215 (295)
T ss_dssp S-SSHCHHHHHHHHH-HHHHS--STTSEEEEES-TTSHHHHHHHHTTBS-EEEEEESSCHHHHHHHHHHHHTT-TTCEEE
T ss_pred ccCCCCHHHHHHHHH-HHHhc--cCCCEEEEeCCcHHHHHHHHHHcCCC-eEEEecCCHHHHHHHHHHHHHcCCCeeEEE
Confidence 444444455554433 34443 35579999999999999999998553 7899999 7777777653 45544
Q ss_pred EEcccCCCCCCC--CEEEe
Q 024046 245 VGGNMFESVPEG--DAILM 261 (273)
Q Consensus 245 ~~gD~f~~~p~~--D~~~l 261 (273)
. ...+.+.+ |+|+.
T Consensus 216 ~---~~~~~~~~~~dlvvA 231 (295)
T PF06325_consen 216 S---LSEDLVEGKFDLVVA 231 (295)
T ss_dssp S---CTSCTCCS-EEEEEE
T ss_pred E---EecccccccCCEEEE
Confidence 2 22344433 88763
No 143
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=97.23 E-value=0.00038 Score=59.54 Aligned_cols=53 Identities=19% Similarity=0.307 Sum_probs=42.9
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------CCCceEEEcccCC
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------YAGVEHVGGNMFE 251 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gD~f~ 251 (273)
..+||||||.|.++..+++++|+..++++|. ..++..+.. .++|.++.+|.-.
T Consensus 50 pi~lEIGfG~G~~l~~~A~~nP~~nfiGiEi~~~~v~~~l~k~~~~~l~Nlri~~~DA~~ 109 (227)
T COG0220 50 PIVLEIGFGMGEFLVEMAKKNPEKNFLGIEIRVPGVAKALKKIKELGLKNLRLLCGDAVE 109 (227)
T ss_pred cEEEEECCCCCHHHHHHHHHCCCCCEEEEEEehHHHHHHHHHHHHcCCCcEEEEcCCHHH
Confidence 5899999999999999999999999999998 333333321 2588999888765
No 144
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=97.23 E-value=0.001 Score=60.25 Aligned_cols=72 Identities=18% Similarity=0.134 Sum_probs=53.7
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC-CCCC-C-C
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-SVPE-G-D 257 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~~p~-~-D 257 (273)
++.... +++..+|+|+|||+|.++.+.+.. ..++++.|. +.++..++.+ +.+.++.+|+.+ +.+. . |
T Consensus 174 ~~~l~~-~~~g~~vLDp~cGtG~~lieaa~~--~~~v~g~Di~~~~~~~a~~nl~~~g~~~i~~~~~D~~~l~~~~~~~D 250 (329)
T TIGR01177 174 MVNLAR-VTEGDRVLDPFCGTGGFLIEAGLM--GAKVIGCDIDWKMVAGARINLEHYGIEDFFVKRGDATKLPLSSESVD 250 (329)
T ss_pred HHHHhC-CCCcCEEEECCCCCCHHHHHHHHh--CCeEEEEcCCHHHHHHHHHHHHHhCCCCCeEEecchhcCCcccCCCC
Confidence 333334 667789999999999999887654 567899998 7777765532 448899999987 5543 3 9
Q ss_pred EEEec
Q 024046 258 AILMK 262 (273)
Q Consensus 258 ~~~l~ 262 (273)
++++.
T Consensus 251 ~Iv~d 255 (329)
T TIGR01177 251 AIATD 255 (329)
T ss_pred EEEEC
Confidence 98873
No 145
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=97.20 E-value=0.00046 Score=60.00 Aligned_cols=42 Identities=24% Similarity=0.346 Sum_probs=34.3
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS 238 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~ 238 (273)
....+|+|||||+|.+++.+++..+. +++++|. |..++.|++
T Consensus 118 ~~~~~VLDiGcGsG~l~i~~~~~g~~-~v~giDis~~~l~~A~~ 160 (250)
T PRK00517 118 LPGKTVLDVGCGSGILAIAAAKLGAK-KVLAVDIDPQAVEAARE 160 (250)
T ss_pred CCCCEEEEeCCcHHHHHHHHHHcCCC-eEEEEECCHHHHHHHHH
Confidence 46689999999999999987776554 6899998 778877764
No 146
>PTZ00146 fibrillarin; Provisional
Probab=97.16 E-value=0.0017 Score=57.49 Aligned_cols=70 Identities=11% Similarity=0.099 Sum_probs=54.1
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hH----HHHhCCCCCCceEEEcccCCCC----C-C-CCEEEec
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PH----VVQDAPSYAGVEHVGGNMFESV----P-E-GDAILMK 262 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~----v~~~a~~~~ri~~~~gD~f~~~----p-~-~D~~~l~ 262 (273)
+.+..+|||+|||+|.++..+++... +=+++.+|. |. +++.+...++|.++.+|...+. + + .|+|++.
T Consensus 130 IkpG~~VLDLGaG~G~~t~~lAdiVG~~G~VyAVD~s~r~~~dLl~~ak~r~NI~~I~~Da~~p~~y~~~~~~vDvV~~D 209 (293)
T PTZ00146 130 IKPGSKVLYLGAASGTTVSHVSDLVGPEGVVYAVEFSHRSGRDLTNMAKKRPNIVPIIEDARYPQKYRMLVPMVDVIFAD 209 (293)
T ss_pred cCCCCEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECcHHHHHHHHHHhhhcCCCEEEECCccChhhhhcccCCCCEEEEe
Confidence 55678999999999999999999874 457899997 43 5566665688999999987642 2 2 3999876
Q ss_pred cc
Q 024046 263 VG 264 (273)
Q Consensus 263 ~v 264 (273)
..
T Consensus 210 va 211 (293)
T PTZ00146 210 VA 211 (293)
T ss_pred CC
Confidence 54
No 147
>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=97.15 E-value=0.00027 Score=45.91 Aligned_cols=44 Identities=32% Similarity=0.462 Sum_probs=38.9
Q ss_pred hChhHHHHhCC-CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 47 LGVFEIIAKAG-ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 47 lglfd~L~~~g-~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
+.|+++|.+.+ +.|+.|||+.+|+ +..-+.|+|..|+..|++++
T Consensus 6 l~iL~~l~~~~~~~t~~eia~~~gl----~~stv~r~L~tL~~~g~v~~ 50 (52)
T PF09339_consen 6 LRILEALAESGGPLTLSEIARALGL----PKSTVHRLLQTLVEEGYVER 50 (52)
T ss_dssp HHHHHCHHCTBSCEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHcCCCCCCHHHHHHHHCc----CHHHHHHHHHHHHHCcCeec
Confidence 45788888865 6899999999999 99999999999999999986
No 148
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=97.11 E-value=0.0014 Score=61.46 Aligned_cols=72 Identities=21% Similarity=0.208 Sum_probs=55.7
Q ss_pred HhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCCC---CC-C-CC
Q 024046 189 LEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFES---VP-E-GD 257 (273)
Q Consensus 189 l~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~~---~p-~-~D 257 (273)
+..++ ..+..+|||+|||+|..+..+++..++.+++.+|. |..++.++.+ -+++++.+|..+. .+ . .|
T Consensus 237 ~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~~~v~a~D~s~~~l~~~~~n~~~~g~~~~~~~~D~~~~~~~~~~~~fD 315 (427)
T PRK10901 237 ATLLA-PQNGERVLDACAAPGGKTAHILELAPQAQVVALDIDAQRLERVRENLQRLGLKATVIVGDARDPAQWWDGQPFD 315 (427)
T ss_pred HHHcC-CCCCCEEEEeCCCCChHHHHHHHHcCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEcCcccchhhcccCCCC
Confidence 33444 45678999999999999999999998888999998 7777776542 2478999999863 22 2 39
Q ss_pred EEEe
Q 024046 258 AILM 261 (273)
Q Consensus 258 ~~~l 261 (273)
.|++
T Consensus 316 ~Vl~ 319 (427)
T PRK10901 316 RILL 319 (427)
T ss_pred EEEE
Confidence 8884
No 149
>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=97.11 E-value=0.0013 Score=57.63 Aligned_cols=68 Identities=12% Similarity=0.390 Sum_probs=53.5
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----CCCceEEEcccCC-CCCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----YAGVEHVGGNMFE-SVPE 255 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gD~f~-~~p~ 255 (273)
++.+++..+ ..+...|+|||.|.|.++..|++.. -+.+++|. |..++..++ .++++++.+|+++ +.+.
T Consensus 19 ~~~Iv~~~~-~~~~~~VlEiGpG~G~lT~~L~~~~--~~v~~vE~d~~~~~~L~~~~~~~~~~~vi~~D~l~~~~~~ 92 (262)
T PF00398_consen 19 ADKIVDALD-LSEGDTVLEIGPGPGALTRELLKRG--KRVIAVEIDPDLAKHLKERFASNPNVEVINGDFLKWDLYD 92 (262)
T ss_dssp HHHHHHHHT-CGTTSEEEEESSTTSCCHHHHHHHS--SEEEEEESSHHHHHHHHHHCTTCSSEEEEES-TTTSCGGG
T ss_pred HHHHHHhcC-CCCCCEEEEeCCCCccchhhHhccc--CcceeecCcHhHHHHHHHHhhhcccceeeecchhccccHH
Confidence 456777776 7788999999999999999999998 56888887 555554433 5899999999998 4444
No 150
>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=97.08 E-value=0.0006 Score=43.31 Aligned_cols=44 Identities=20% Similarity=0.419 Sum_probs=39.9
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCcee
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLE 93 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~ 93 (273)
.++.|...|.+ ||.++.||++.+|+ +...+.+.|+.|...|+++
T Consensus 3 ~R~~Il~~L~~-~~~~~~el~~~l~~----s~~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 3 TRLRILKLLSE-GPLTVSELAEELGL----SQSTVSHHLKKLREAGLVE 46 (47)
T ss_dssp HHHHHHHHHTT-SSEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHh-CCCchhhHHHhccc----cchHHHHHHHHHHHCcCee
Confidence 46778889988 89999999999999 9999999999999999986
No 151
>PRK13256 thiopurine S-methyltransferase; Reviewed
Probab=97.07 E-value=0.0023 Score=54.70 Aligned_cols=74 Identities=14% Similarity=0.074 Sum_probs=57.5
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------------------CCCceEEEcccCCC-C-C
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------------------YAGVEHVGGNMFES-V-P 254 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------------------~~ri~~~~gD~f~~-~-p 254 (273)
.+..+|++.|||.|.-+.-|++. ..+++++|+ |..++.+.+ ..+|+++.||||+- . +
T Consensus 42 ~~~~rvLvPgCGkg~D~~~LA~~--G~~V~GvDlS~~Ai~~~~~e~~~~~~~~~~~~~~~~~~~~i~~~~gD~f~l~~~~ 119 (226)
T PRK13256 42 NDSSVCLIPMCGCSIDMLFFLSK--GVKVIGIELSEKAVLSFFSQNTINYEVIHGNDYKLYKGDDIEIYVADIFNLPKIA 119 (226)
T ss_pred CCCCeEEEeCCCChHHHHHHHhC--CCcEEEEecCHHHHHHHHHHcCCCcceecccccceeccCceEEEEccCcCCCccc
Confidence 34579999999999999999987 667999999 666766411 15899999999982 2 1
Q ss_pred --CC--CEEEecccccccCCC
Q 024046 255 --EG--DAILMKVGNFENYQS 271 (273)
Q Consensus 255 --~~--D~~~l~~vLHd~~~~ 271 (273)
.+ |+|+=+.+|+-.+++
T Consensus 120 ~~~~~fD~VyDra~~~Alpp~ 140 (226)
T PRK13256 120 NNLPVFDIWYDRGAYIALPND 140 (226)
T ss_pred cccCCcCeeeeehhHhcCCHH
Confidence 12 999988888877653
No 152
>PF09445 Methyltransf_15: RNA cap guanine-N2 methyltransferase; InterPro: IPR019012 RNA cap guanine-N2 methyltransferases such as Schizosaccharomyces pombe (Fission yeast) trimethylguanosine synthase (Tgs1) and Giardia lamblia (Giardia intestinalis) Tgs2, catalyse the methylation step(s) for the conversion of the 7-monomethylguanosine (m(7)G) caps of snRNAs and snoRNAs to a 2,2,7-trimethylguanosine (m(2,2,7)G) cap structure [, , ]. Trimethylguanosine synthase is specific for guanine, and N7 methylation must precede N2 methylation. This enzyme is required for pre-mRNA splicing, pre-rRNA processing and small ribosomal subunit synthesis. As such, this enzyme plays a role in transcriptional regulation. ; GO: 0008168 methyltransferase activity, 0001510 RNA methylation, 0009452 RNA capping; PDB: 3EGI_B 3GDH_A.
Probab=97.02 E-value=0.00038 Score=56.38 Aligned_cols=62 Identities=16% Similarity=0.369 Sum_probs=46.1
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCC---CC--C-CCEEEec
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFES---VP--E-GDAILMK 262 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~---~p--~-~D~~~l~ 262 (273)
.+|+|+-||.|.-++++++.++. ++.+|+ |.-++.++.+ +||+++.||+++- +. . .|+|+++
T Consensus 1 ~~vlD~fcG~GGNtIqFA~~~~~--Viaidid~~~~~~a~hNa~vYGv~~~I~~i~gD~~~~~~~~~~~~~~D~vFlS 76 (163)
T PF09445_consen 1 TTVLDAFCGVGGNTIQFARTFDR--VIAIDIDPERLECAKHNAEVYGVADNIDFICGDFFELLKRLKSNKIFDVVFLS 76 (163)
T ss_dssp SEEEETT-TTSHHHHHHHHTT-E--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEES-HHHHGGGB------SEEEE-
T ss_pred CEEEEeccCcCHHHHHHHHhCCe--EEEEECCHHHHHHHHHHHHHcCCCCcEEEEeCCHHHHHhhccccccccEEEEC
Confidence 47999999999999999999875 789998 7777766542 7999999999983 22 2 3888875
No 153
>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=96.99 E-value=0.00055 Score=47.04 Aligned_cols=56 Identities=23% Similarity=0.291 Sum_probs=45.2
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceec
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYAL 105 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~l 105 (273)
.|..++..|...|+.|++|||+.+|+ +...+.+.|+-|...|+++...+ .+..|+.
T Consensus 9 ~E~~vy~~Ll~~~~~t~~eIa~~l~i----~~~~v~~~L~~L~~~GlV~~~~~-~~~~Y~a 64 (68)
T PF01978_consen 9 NEAKVYLALLKNGPATAEEIAEELGI----SRSTVYRALKSLEEKGLVEREEG-RPKVYRA 64 (68)
T ss_dssp HHHHHHHHHHHHCHEEHHHHHHHHTS----SHHHHHHHHHHHHHTTSEEEEEE-CCEEEEE
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEEcC-ceEEEEE
Confidence 45567777766689999999999999 99999999999999999998532 3334543
No 154
>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=96.99 E-value=0.0036 Score=55.39 Aligned_cols=83 Identities=16% Similarity=0.232 Sum_probs=54.1
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hH------HHHhCCCC-CCceEEEcccCCCCC--C
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PH------VVQDAPSY-AGVEHVGGNMFESVP--E 255 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~------v~~~a~~~-~ri~~~~gD~f~~~p--~ 255 (273)
+.+...++.+ ..++|+|||||+|.++-..+++-|. .++++|- +. .++..... .++.+++ ...+.+| .
T Consensus 105 ~rl~p~l~~L-~gk~VLDIGC~nGY~~frM~~~GA~-~ViGiDP~~lf~~QF~~i~~~lg~~~~~~~lp-lgvE~Lp~~~ 181 (315)
T PF08003_consen 105 DRLLPHLPDL-KGKRVLDIGCNNGYYSFRMLGRGAK-SVIGIDPSPLFYLQFEAIKHFLGQDPPVFELP-LGVEDLPNLG 181 (315)
T ss_pred HHHHhhhCCc-CCCEEEEecCCCcHHHHHHhhcCCC-EEEEECCChHHHHHHHHHHHHhCCCccEEEcC-cchhhccccC
Confidence 4455555425 4589999999999999999999886 4788985 22 22222211 3334443 2333444 3
Q ss_pred C-CEEEecccccccCCC
Q 024046 256 G-DAILMKVGNFENYQS 271 (273)
Q Consensus 256 ~-D~~~l~~vLHd~~~~ 271 (273)
. |+|++.-||++-.++
T Consensus 182 ~FDtVF~MGVLYHrr~P 198 (315)
T PF08003_consen 182 AFDTVFSMGVLYHRRSP 198 (315)
T ss_pred CcCEEEEeeehhccCCH
Confidence 3 999999999986653
No 155
>KOG1500 consensus Protein arginine N-methyltransferase CARM1 [Posttranslational modification, protein turnover, chaperones; Transcription]
Probab=96.96 E-value=0.0026 Score=56.71 Aligned_cols=72 Identities=25% Similarity=0.355 Sum_probs=54.1
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCC-------CCCceEEEcccCC-CCCCC-C
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPS-------YAGVEHVGGNMFE-SVPEG-D 257 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gD~f~-~~p~~-D 257 (273)
.++.....|+ .+.|||||||+|.++.-.+.+-. -++..++-.++.+.|+. .+||++++|-+-+ ++|+. |
T Consensus 168 Ail~N~sDF~-~kiVlDVGaGSGILS~FAaqAGA-~~vYAvEAS~MAqyA~~Lv~~N~~~~rItVI~GKiEdieLPEk~D 245 (517)
T KOG1500|consen 168 AILENHSDFQ-DKIVLDVGAGSGILSFFAAQAGA-KKVYAVEASEMAQYARKLVASNNLADRITVIPGKIEDIELPEKVD 245 (517)
T ss_pred HHHhcccccC-CcEEEEecCCccHHHHHHHHhCc-ceEEEEehhHHHHHHHHHHhcCCccceEEEccCccccccCchhcc
Confidence 4555443353 48899999999998886666643 35788888777777664 2899999999988 89975 9
Q ss_pred EEE
Q 024046 258 AIL 260 (273)
Q Consensus 258 ~~~ 260 (273)
+++
T Consensus 246 viI 248 (517)
T KOG1500|consen 246 VII 248 (517)
T ss_pred EEE
Confidence 876
No 156
>KOG3010 consensus Methyltransferase [General function prediction only]
Probab=96.95 E-value=0.001 Score=56.71 Aligned_cols=72 Identities=19% Similarity=0.159 Sum_probs=52.9
Q ss_pred cceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCceEE-------EcccCCCC--CCC-CEEEeccccc
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVEHV-------GGNMFESV--PEG-DAILMKVGNF 266 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~-------~gD~f~~~--p~~-D~~~l~~vLH 266 (273)
.+.++|||||+|..++.++..|.+ +|+.|. +.+++.|.++++++.. .-++..=. ++. |+|+....+|
T Consensus 34 h~~a~DvG~G~Gqa~~~iae~~k~--VIatD~s~~mL~~a~k~~~~~y~~t~~~ms~~~~v~L~g~e~SVDlI~~Aqa~H 111 (261)
T KOG3010|consen 34 HRLAWDVGTGNGQAARGIAEHYKE--VIATDVSEAMLKVAKKHPPVTYCHTPSTMSSDEMVDLLGGEESVDLITAAQAVH 111 (261)
T ss_pred cceEEEeccCCCcchHHHHHhhhh--heeecCCHHHHHHhhcCCCcccccCCccccccccccccCCCcceeeehhhhhHH
Confidence 349999999999888888888776 699998 8899999887544322 22222211 334 9999999999
Q ss_pred ccCCC
Q 024046 267 ENYQS 271 (273)
Q Consensus 267 d~~~~ 271 (273)
-+..|
T Consensus 112 WFdle 116 (261)
T KOG3010|consen 112 WFDLE 116 (261)
T ss_pred hhchH
Confidence 87654
No 157
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=96.91 E-value=0.0011 Score=52.16 Aligned_cols=71 Identities=20% Similarity=0.413 Sum_probs=51.7
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCe-EEEeec-hHHHHhCCCC-----CCceEEEcccCCCCCCC---C
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIK-AVNFDL-PHVVQDAPSY-----AGVEHVGGNMFESVPEG---D 257 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~~~p~~---D 257 (273)
|-..|+.+ ....+.|+|||.|.+. ++-.+|..+ ++++|+ |+.++.++.+ =.|.++..|+.++.+.+ |
T Consensus 40 Ih~Tygdi-Egkkl~DLgcgcGmLs--~a~sm~~~e~vlGfDIdpeALEIf~rNaeEfEvqidlLqcdildle~~~g~fD 116 (185)
T KOG3420|consen 40 IHNTYGDI-EGKKLKDLGCGCGMLS--IAFSMPKNESVLGFDIDPEALEIFTRNAEEFEVQIDLLQCDILDLELKGGIFD 116 (185)
T ss_pred HHhhhccc-cCcchhhhcCchhhhH--HHhhcCCCceEEeeecCHHHHHHHhhchHHhhhhhheeeeeccchhccCCeEe
Confidence 33444423 4589999999999998 555666665 799999 8888887764 35788889988866643 6
Q ss_pred EEEe
Q 024046 258 AILM 261 (273)
Q Consensus 258 ~~~l 261 (273)
..++
T Consensus 117 tavi 120 (185)
T KOG3420|consen 117 TAVI 120 (185)
T ss_pred eEEe
Confidence 6554
No 158
>PRK00536 speE spermidine synthase; Provisional
Probab=96.91 E-value=0.0019 Score=56.49 Aligned_cols=64 Identities=9% Similarity=-0.015 Sum_probs=50.4
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----------CCCceEEEcccCCCCC-C-CCEEEe
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----------YAGVEHVGGNMFESVP-E-GDAILM 261 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gD~f~~~p-~-~D~~~l 261 (273)
-+++++||=||||.|..+++++|. |+ +++.+|+ ++|++.+++ ++|++++. ++.... + -|+|++
T Consensus 70 h~~pk~VLIiGGGDGg~~REvLkh-~~-~v~mVeID~~Vv~~~k~~lP~~~~~~~DpRv~l~~--~~~~~~~~~fDVIIv 145 (262)
T PRK00536 70 KKELKEVLIVDGFDLELAHQLFKY-DT-HVDFVQADEKILDSFISFFPHFHEVKNNKNFTHAK--QLLDLDIKKYDLIIC 145 (262)
T ss_pred CCCCCeEEEEcCCchHHHHHHHCc-CC-eeEEEECCHHHHHHHHHHCHHHHHhhcCCCEEEee--hhhhccCCcCCEEEE
Confidence 357899999999999999999998 55 8999999 888887766 28999886 343323 3 398876
Q ss_pred c
Q 024046 262 K 262 (273)
Q Consensus 262 ~ 262 (273)
=
T Consensus 146 D 146 (262)
T PRK00536 146 L 146 (262)
T ss_pred c
Confidence 4
No 159
>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=96.90 E-value=0.0014 Score=53.66 Aligned_cols=74 Identities=15% Similarity=0.124 Sum_probs=47.2
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCC---------CCCceEEEcccCCCC-----C-C-CCE
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPS---------YAGVEHVGGNMFESV-----P-E-GDA 258 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~---------~~ri~~~~gD~f~~~-----p-~-~D~ 258 (273)
.....+||++|||.|..++.+++.++..++++=|.+++++..+. .+++++.+.|+-++. . . .|+
T Consensus 43 ~~~~~~VLELGaG~Gl~gi~~a~~~~~~~Vv~TD~~~~l~~l~~Ni~~N~~~~~~~v~v~~L~Wg~~~~~~~~~~~~~D~ 122 (173)
T PF10294_consen 43 LFRGKRVLELGAGTGLPGIAAAKLFGAARVVLTDYNEVLELLRRNIELNGSLLDGRVSVRPLDWGDELDSDLLEPHSFDV 122 (173)
T ss_dssp GTTTSEEEETT-TTSHHHHHHHHT-T-SEEEEEE-S-HHHHHHHHHHTT--------EEEE--TTS-HHHHHHS-SSBSE
T ss_pred hcCCceEEEECCccchhHHHHHhccCCceEEEeccchhhHHHHHHHHhccccccccccCcEEEecCcccccccccccCCE
Confidence 34678999999999999999999988888999999777664432 267899999887632 2 2 399
Q ss_pred EEeccccccc
Q 024046 259 ILMKVGNFEN 268 (273)
Q Consensus 259 ~~l~~vLHd~ 268 (273)
|+.+-|+++.
T Consensus 123 IlasDv~Y~~ 132 (173)
T PF10294_consen 123 ILASDVLYDE 132 (173)
T ss_dssp EEEES--S-G
T ss_pred EEEecccchH
Confidence 9999999874
No 160
>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=96.88 E-value=0.001 Score=62.39 Aligned_cols=71 Identities=28% Similarity=0.406 Sum_probs=53.4
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCC---CC---
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFES---VP--- 254 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~---~p--- 254 (273)
+.+.+. ..+..+|+|+|||+|.++..+++... +++++|. |++++.|+.+ ++|+++.+|+.+. ++
T Consensus 284 ~~~~l~-~~~~~~vLDl~cG~G~~sl~la~~~~--~V~~vE~~~~av~~a~~n~~~~~~~nv~~~~~d~~~~l~~~~~~~ 360 (431)
T TIGR00479 284 ALEALE-LQGEELVVDAYCGVGTFTLPLAKQAK--SVVGIEVVPESVEKAQQNAELNGIANVEFLAGTLETVLPKQPWAG 360 (431)
T ss_pred HHHHhc-cCCCCEEEEcCCCcCHHHHHHHHhCC--EEEEEEcCHHHHHHHHHHHHHhCCCceEEEeCCHHHHHHHHHhcC
Confidence 334333 55668999999999999999998853 6899998 8888877652 6899999998652 21
Q ss_pred C-CCEEEe
Q 024046 255 E-GDAILM 261 (273)
Q Consensus 255 ~-~D~~~l 261 (273)
. .|++++
T Consensus 361 ~~~D~vi~ 368 (431)
T TIGR00479 361 QIPDVLLL 368 (431)
T ss_pred CCCCEEEE
Confidence 1 288775
No 161
>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=96.86 E-value=0.0016 Score=51.16 Aligned_cols=52 Identities=17% Similarity=0.234 Sum_probs=41.9
Q ss_pred eEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC
Q 024046 200 RLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE 251 (273)
Q Consensus 200 ~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~ 251 (273)
+++|||||.|.++..+++.+|..+++.+|. |...+.++.. ++++++...+..
T Consensus 1 ~vlDiGa~~G~~~~~~~~~~~~~~v~~~E~~~~~~~~l~~~~~~n~~~~v~~~~~al~~ 59 (143)
T TIGR01444 1 VVIDVGANIGDTSLYFARKGAEGRVIAFEPLPDAYEILEENVKLNNLPNVVLLNAAVGD 59 (143)
T ss_pred CEEEccCCccHHHHHHHHhCCCCEEEEEecCHHHHHHHHHHHHHcCCCcEEEEEeeeeC
Confidence 589999999999999999999999999997 7777655431 457777766654
No 162
>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=96.86 E-value=0.0011 Score=57.54 Aligned_cols=67 Identities=25% Similarity=0.316 Sum_probs=53.6
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----------CCCceEEEcccCC---CCCC-C-CE
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----------YAGVEHVGGNMFE---SVPE-G-DA 258 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gD~f~---~~p~-~-D~ 258 (273)
.+++++||=||||.|..+..+++..|-.+.+++|+ |.|++.++. ++|++++.+|-+. ..++ . |+
T Consensus 74 ~~~p~~VLiiGgG~G~~~~ell~~~~~~~i~~VEiD~~Vv~~a~~~f~~~~~~~~d~r~~i~~~Dg~~~l~~~~~~~yDv 153 (246)
T PF01564_consen 74 HPNPKRVLIIGGGDGGTARELLKHPPVESITVVEIDPEVVELARKYFPEFSEGLDDPRVRIIIGDGRKFLKETQEEKYDV 153 (246)
T ss_dssp SSST-EEEEEESTTSHHHHHHTTSTT-SEEEEEES-HHHHHHHHHHTHHHHTTGGSTTEEEEESTHHHHHHTSSST-EEE
T ss_pred CCCcCceEEEcCCChhhhhhhhhcCCcceEEEEecChHHHHHHHHhchhhccccCCCceEEEEhhhHHHHHhccCCcccE
Confidence 34789999999999999999998877788999999 888888764 2799999999976 3444 4 88
Q ss_pred EEe
Q 024046 259 ILM 261 (273)
Q Consensus 259 ~~l 261 (273)
+++
T Consensus 154 Ii~ 156 (246)
T PF01564_consen 154 IIV 156 (246)
T ss_dssp EEE
T ss_pred EEE
Confidence 865
No 163
>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=96.85 E-value=0.0038 Score=52.29 Aligned_cols=75 Identities=15% Similarity=0.131 Sum_probs=48.4
Q ss_pred CcceEEEecCCccH----HHHHHHHHC---C--CCeEEEeec-hHHHHhCCCC---------------------------
Q 024046 197 NVERLVDVGGGFGV----TLSMITSKY---P--QIKAVNFDL-PHVVQDAPSY--------------------------- 239 (273)
Q Consensus 197 ~~~~vvDVGGG~G~----~~~~l~~~~---P--~l~~~~~Dl-p~v~~~a~~~--------------------------- 239 (273)
+.-+|...||++|. +++.+.+.. . +.+.++-|+ +.+++.|+.-
T Consensus 31 ~~lrIWSagCStGeE~YSlAmll~e~~~~~~~~~~~I~atDi~~~~L~~Ar~G~Y~~~~~~~~~~~~~~ryf~~~~~~~~ 110 (196)
T PF01739_consen 31 RPLRIWSAGCSTGEEPYSLAMLLLELLPGALGWDFRILATDISPSALEKARAGIYPERSLRGLPPAYLRRYFTERDGGGY 110 (196)
T ss_dssp S-EEEEETT-TTTHHHHHHHHHHHHHH-S-TT-SEEEEEEES-HHHHHHHHHTEEEGGGGTTS-HHHHHHHEEEE-CCCT
T ss_pred CCeEEEECCCCCChhHHHHHHHHHHHhcccCCCceEEEEEECCHHHHHHHHhCCCCHHHHhhhHHHHHHHhccccCCCce
Confidence 56899999999998 444444421 2 356788898 8888877530
Q ss_pred -------CCceEEEcccCC-CCCC-C-CEEEecccccccCCC
Q 024046 240 -------AGVEHVGGNMFE-SVPE-G-DAILMKVGNFENYQS 271 (273)
Q Consensus 240 -------~ri~~~~gD~f~-~~p~-~-D~~~l~~vLHd~~~~ 271 (273)
.+|+|..+|+.+ +.+. . |+|+++|||-.++++
T Consensus 111 ~v~~~lr~~V~F~~~NL~~~~~~~~~fD~I~CRNVlIYF~~~ 152 (196)
T PF01739_consen 111 RVKPELRKMVRFRRHNLLDPDPPFGRFDLIFCRNVLIYFDPE 152 (196)
T ss_dssp TE-HHHHTTEEEEE--TT-S------EEEEEE-SSGGGS-HH
T ss_pred eEChHHcCceEEEecccCCCCcccCCccEEEecCEEEEeCHH
Confidence 679999999999 3333 3 999999999888654
No 164
>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=96.84 E-value=0.0021 Score=40.84 Aligned_cols=45 Identities=18% Similarity=0.323 Sum_probs=39.2
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCcee
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLE 93 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~ 93 (273)
.+..|+..|.+.++.|..|||+.+|+ +...+.+.++-|...|+++
T Consensus 4 ~~~~Il~~l~~~~~~t~~ela~~~~i----s~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 4 TQRKILNYLRENPRITQKELAEKLGI----SRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHHHHHCTTS-HHHHHHHHTS-----HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHhCC----CHHHHHHHHHHHHHCcCcC
Confidence 45678899999888999999999999 9999999999999999985
No 165
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=96.84 E-value=0.0069 Score=52.68 Aligned_cols=68 Identities=12% Similarity=0.394 Sum_probs=52.0
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCC----CCCCceEEEcccCC-CCCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAP----SYAGVEHVGGNMFE-SVPE 255 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~----~~~ri~~~~gD~f~-~~p~ 255 (273)
.+.+++..+ ..+..+|++||+|.|++...|+++... .+++++ +..++..+ ..++++++.||+.+ ++|+
T Consensus 19 ~~kIv~~a~-~~~~d~VlEIGpG~GaLT~~Ll~~~~~--v~aiEiD~~l~~~L~~~~~~~~n~~vi~~DaLk~d~~~ 92 (259)
T COG0030 19 IDKIVEAAN-ISPGDNVLEIGPGLGALTEPLLERAAR--VTAIEIDRRLAEVLKERFAPYDNLTVINGDALKFDFPS 92 (259)
T ss_pred HHHHHHhcC-CCCCCeEEEECCCCCHHHHHHHhhcCe--EEEEEeCHHHHHHHHHhcccccceEEEeCchhcCcchh
Confidence 466777766 556789999999999999999999877 455555 33333332 34899999999998 7774
No 166
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=96.81 E-value=0.0023 Score=55.86 Aligned_cols=58 Identities=14% Similarity=0.275 Sum_probs=49.3
Q ss_pred hChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhch
Q 024046 47 LGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 47 lglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
+.|+++|...++.|+.|||+.+|+ +...+.|+|+-|+..|+++.+ ...+.|++++..-
T Consensus 17 l~IL~~l~~~~~l~l~eia~~lgl----~kstv~Rll~tL~~~G~l~~~--~~~~~Y~lG~~~~ 74 (257)
T PRK15090 17 FGILQALGEEREIGITELSQRVMM----SKSTVYRFLQTMKTLGYVAQE--GESEKYSLTLKLF 74 (257)
T ss_pred HHHHHHhhcCCCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEc--CCCCcEEecHHHH
Confidence 456777776568999999999999 999999999999999999874 2468899998653
No 167
>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=96.79 E-value=0.0015 Score=60.27 Aligned_cols=63 Identities=10% Similarity=0.084 Sum_probs=48.3
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCC---C-CCEEEe
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVP---E-GDAILM 261 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p---~-~D~~~l 261 (273)
...+|+|+|||+|.++..++.. ..+++++|. |..++.|+.+ ++++++.+|+.+..+ . .|++++
T Consensus 233 ~~~~vLDL~cG~G~~~l~la~~--~~~v~~vE~~~~av~~a~~N~~~~~~~~~~~~~~d~~~~~~~~~~~~D~vi~ 306 (374)
T TIGR02085 233 PVTQMWDLFCGVGGFGLHCAGP--DTQLTGIEIESEAIACAQQSAQMLGLDNLSFAALDSAKFATAQMSAPELVLV 306 (374)
T ss_pred CCCEEEEccCCccHHHHHHhhc--CCeEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHHHHhcCCCCCEEEE
Confidence 3478999999999999999965 457899998 8878776642 579999999965222 2 387765
No 168
>KOG3115 consensus Methyltransferase-like protein [General function prediction only]
Probab=96.77 E-value=0.00074 Score=56.08 Aligned_cols=58 Identities=19% Similarity=0.425 Sum_probs=42.5
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHHh----C---CC------CCCceEEEcccCCCCC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLP-HVVQD----A---PS------YAGVEHVGGNMFESVP 254 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp-~v~~~----a---~~------~~ri~~~~gD~f~~~p 254 (273)
....++|||||.|.+++.|...||+.-.+++++- .|.+- + +. ..+|.++..+-+.-+|
T Consensus 60 ~kvefaDIGCGyGGLlv~Lsp~fPdtLiLGmEIR~KVsdYVk~RI~ALR~~~a~~~~~ni~vlr~namk~lp 131 (249)
T KOG3115|consen 60 KKVEFADIGCGYGGLLMKLAPKFPDTLILGMEIRDKVSDYVKERIQALRRTSAEGQYPNISVLRTNAMKFLP 131 (249)
T ss_pred ccceEEeeccCccchhhhccccCccceeeeehhhHHHHHHHHHHHHHHhccccccccccceeeeccchhhcc
Confidence 4467999999999999999999999999999873 33221 1 11 1567777766666455
No 169
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=96.77 E-value=0.0016 Score=46.03 Aligned_cols=57 Identities=21% Similarity=0.320 Sum_probs=44.2
Q ss_pred ChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhh
Q 024046 48 GVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFV 113 (273)
Q Consensus 48 glfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~ 113 (273)
.|+..|.. |+.+..+|+..+++ +...+.+.|..|...|+++. .++.|.+|+.+..++
T Consensus 10 ~IL~~l~~-~~~~~t~i~~~~~L----~~~~~~~yL~~L~~~gLI~~----~~~~Y~lTekG~~~l 66 (77)
T PF14947_consen 10 DILKILSK-GGAKKTEIMYKANL----NYSTLKKYLKELEEKGLIKK----KDGKYRLTEKGKEFL 66 (77)
T ss_dssp HHHHHH-T-T-B-HHHHHTTST------HHHHHHHHHHHHHTTSEEE----ETTEEEE-HHHHHHH
T ss_pred HHHHHHHc-CCCCHHHHHHHhCc----CHHHHHHHHHHHHHCcCeeC----CCCEEEECccHHHHH
Confidence 35566654 79999999999999 99999999999999999974 678999999997665
No 170
>PHA00738 putative HTH transcription regulator
Probab=96.74 E-value=0.0028 Score=47.25 Aligned_cols=62 Identities=23% Similarity=0.203 Sum_probs=49.8
Q ss_pred HHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhc
Q 024046 44 AIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVS 109 (273)
Q Consensus 44 a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s 109 (273)
..++.|++.|...++.++.+|++.+++ +.+.+.+.|+.|...|+|.....+..-.|++++..
T Consensus 12 ptRr~IL~lL~~~e~~~V~eLae~l~l----SQptVS~HLKvLreAGLV~srK~Gr~vyY~Ln~~~ 73 (108)
T PHA00738 12 ILRRKILELIAENYILSASLISHTLLL----SYTTVLRHLKILNEQGYIELYKEGRTLYAKIRENS 73 (108)
T ss_pred HHHHHHHHHHHHcCCccHHHHHHhhCC----CHHHHHHHHHHHHHCCceEEEEECCEEEEEECCCc
Confidence 478889999988447999999999999 99999999999999999997421122356666543
No 171
>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=96.73 E-value=0.0038 Score=58.77 Aligned_cols=96 Identities=21% Similarity=0.276 Sum_probs=59.7
Q ss_pred chhhhhhcCcchHHHHHHHHHhcchhhHHHHHhhcccCC---CcceEEEecCCccHHHHHHHHHC----CCCeEEEeec-
Q 024046 158 HIFEYASGNPRFNETYHEAMFNHSTIAMERILEHYEGFQ---NVERLVDVGGGFGVTLSMITSKY----PQIKAVNFDL- 229 (273)
Q Consensus 158 ~~~~~~~~~~~~~~~f~~am~~~~~~~~~~il~~~~~~~---~~~~vvDVGGG~G~~~~~l~~~~----P~l~~~~~Dl- 229 (273)
..|+.+++|+.+-+.|.+|+.. .+.+....-+ +...|+|||+|+|-++...+++. -..++..++-
T Consensus 151 ~tYe~fE~D~vKY~~Ye~AI~~-------al~D~~~~~~~~~~~~vVldVGAGrGpL~~~al~A~~~~~~a~~VyAVEkn 223 (448)
T PF05185_consen 151 QTYEVFEKDPVKYDQYERAIEE-------ALKDRVRKNSYSSKDKVVLDVGAGRGPLSMFALQAGARAGGAVKVYAVEKN 223 (448)
T ss_dssp HHHHHHCC-HHHHHHHHHHHHH-------HHHHHHTTS-SEETT-EEEEES-TTSHHHHHHHHTTHHHCCESEEEEEESS
T ss_pred ccHhhHhcCHHHHHHHHHHHHH-------HHHhhhhhccccccceEEEEeCCCccHHHHHHHHHHHHhCCCeEEEEEcCC
Confidence 4677788887766666666521 2222222011 35789999999999987666654 4567888886
Q ss_pred hHHHHhC----CC---CCCceEEEcccCC-CCCC-CCEEE
Q 024046 230 PHVVQDA----PS---YAGVEHVGGNMFE-SVPE-GDAIL 260 (273)
Q Consensus 230 p~v~~~a----~~---~~ri~~~~gD~f~-~~p~-~D~~~ 260 (273)
|..+... +. .++|+++.+|+.+ ..|+ .|+++
T Consensus 224 ~~A~~~l~~~v~~n~w~~~V~vi~~d~r~v~lpekvDIIV 263 (448)
T PF05185_consen 224 PNAVVTLQKRVNANGWGDKVTVIHGDMREVELPEKVDIIV 263 (448)
T ss_dssp THHHHHHHHHHHHTTTTTTEEEEES-TTTSCHSS-EEEEE
T ss_pred HhHHHHHHHHHHhcCCCCeEEEEeCcccCCCCCCceeEEE
Confidence 5433222 11 2899999999998 6776 49875
No 172
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=96.71 E-value=0.0018 Score=51.21 Aligned_cols=70 Identities=16% Similarity=0.299 Sum_probs=48.6
Q ss_pred CCCcceEEEecCCccHHHHHHHHH----CCCCeEEEeec-hHHHHhCCCC---------CCceEEEcccCCC-CCCC-CE
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSK----YPQIKAVNFDL-PHVVQDAPSY---------AGVEHVGGNMFES-VPEG-DA 258 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~----~P~l~~~~~Dl-p~v~~~a~~~---------~ri~~~~gD~f~~-~p~~-D~ 258 (273)
-.+..+|||+|||.|.++..|+.. .|+++++++|. +..++.+... .++++..+++... .+.. ++
T Consensus 23 ~~~~~~vvD~GsG~GyLs~~La~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 (141)
T PF13679_consen 23 SKRCITVVDLGSGKGYLSRALAHLLCNSSPNLRVLGIDCNESLVESAQKRAQKLGSDLEKRLSFIQGDIADESSSDPPDI 102 (141)
T ss_pred cCCCCEEEEeCCChhHHHHHHHHHHHhcCCCCeEEEEECCcHHHHHHHHHHHHhcchhhccchhhccchhhhcccCCCeE
Confidence 457889999999999999999992 28899999997 5555555431 5667777766542 2222 55
Q ss_pred EEeccc
Q 024046 259 ILMKVG 264 (273)
Q Consensus 259 ~~l~~v 264 (273)
++--|.
T Consensus 103 ~vgLHa 108 (141)
T PF13679_consen 103 LVGLHA 108 (141)
T ss_pred EEEeec
Confidence 554443
No 173
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=96.69 E-value=0.0049 Score=58.16 Aligned_cols=67 Identities=21% Similarity=0.242 Sum_probs=51.7
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCCC--CCEEEe
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVPE--GDAILM 261 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p~--~D~~~l 261 (273)
.....+|||+|||+|..+..+++..+ ..+++.+|+ +..++.++++ ++|+++.+|..+..+. .|+|++
T Consensus 248 ~~~g~~VLDlgaG~G~kt~~la~~~~~~~~V~avD~s~~~l~~~~~~~~~~g~~~v~~~~~Da~~~~~~~~fD~Vl~ 324 (445)
T PRK14904 248 PQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHASALGITIIETIEGDARSFSPEEQPDAILL 324 (445)
T ss_pred CCCCCEEEEECCCCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHhCCCeEEEEeCcccccccCCCCCEEEE
Confidence 44567999999999999998888764 457899998 7777766542 5689999999873343 399886
No 174
>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=96.69 E-value=0.0012 Score=55.65 Aligned_cols=68 Identities=21% Similarity=0.423 Sum_probs=52.7
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCCCC-------CC--
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFESVP-------EG-- 256 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~~p-------~~-- 256 (273)
..++++||+||++.|..++.+++..| +.+.+.+|. |+..+.|++. +||+++.||..+-+| .+
T Consensus 43 ~~~~k~vLEIGt~~GySal~la~~l~~~g~i~tiE~~~~~~~~A~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~~~~~f 122 (205)
T PF01596_consen 43 LTRPKRVLEIGTFTGYSALWLAEALPEDGKITTIEIDPERAEIARENFRKAGLDDRIEVIEGDALEVLPELANDGEEGQF 122 (205)
T ss_dssp HHT-SEEEEESTTTSHHHHHHHHTSTTTSEEEEEESSHHHHHHHHHHHHHTTGGGGEEEEES-HHHHHHHHHHTTTTTSE
T ss_pred hcCCceEEEeccccccHHHHHHHhhcccceEEEecCcHHHHHHHHHHHHhcCCCCcEEEEEeccHhhHHHHHhccCCCce
Confidence 45789999999999999999999988 588999998 7777766542 799999999976211 12
Q ss_pred CEEEec
Q 024046 257 DAILMK 262 (273)
Q Consensus 257 D~~~l~ 262 (273)
|.||+-
T Consensus 123 D~VFiD 128 (205)
T PF01596_consen 123 DFVFID 128 (205)
T ss_dssp EEEEEE
T ss_pred eEEEEc
Confidence 888874
No 175
>PRK11760 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional
Probab=96.69 E-value=0.006 Score=55.02 Aligned_cols=68 Identities=19% Similarity=0.191 Sum_probs=55.6
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCCCCceEEEcccCCCCC-C-C-CEEEeccc
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSYAGVEHVGGNMFESVP-E-G-DAILMKVG 264 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gD~f~~~p-~-~-D~~~l~~v 264 (273)
+....++||||+++|.++-.++++ +.+++.+|.-++.+.....+||+++.+|-|...| . . |++++-.+
T Consensus 209 ~~~g~~vlDLGAsPGGWT~~L~~r--G~~V~AVD~g~l~~~L~~~~~V~h~~~d~fr~~p~~~~vDwvVcDmv 279 (357)
T PRK11760 209 LAPGMRAVDLGAAPGGWTYQLVRR--GMFVTAVDNGPMAQSLMDTGQVEHLRADGFKFRPPRKNVDWLVCDMV 279 (357)
T ss_pred cCCCCEEEEeCCCCcHHHHHHHHc--CCEEEEEechhcCHhhhCCCCEEEEeccCcccCCCCCCCCEEEEecc
Confidence 346789999999999999999998 5689999987776666777999999999998554 3 2 88776544
No 176
>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=96.67 E-value=0.011 Score=49.57 Aligned_cols=113 Identities=14% Similarity=0.219 Sum_probs=60.9
Q ss_pred HHhhhHHHHHhcCCCcchhccCCchhhhhhcCcchHHHHHHHHH----hcchhhHHHHHhhcccCCCcceEEEecCCccH
Q 024046 135 ESWLGLKDAVMEGGIPFNRVHGMHIFEYASGNPRFNETYHEAMF----NHSTIAMERILEHYEGFQNVERLVDVGGGFGV 210 (273)
Q Consensus 135 ~~~~~L~e~l~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~am~----~~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~ 210 (273)
..++.|.|.+.+..+ ...++.+..+|+....|++..+ .+-....+.+++.+...++...|.|.|||.+.
T Consensus 13 srFR~lNE~LYT~~s-------~~A~~lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~~~~~~~viaD~GCGdA~ 85 (219)
T PF05148_consen 13 SRFRWLNEQLYTTSS-------EEALKLFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLKKRPKSLVIADFGCGDAK 85 (219)
T ss_dssp HHHHHHHHHHHHS-H-------HHHHHHHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHCTS-TTS-EEEES-TT-H
T ss_pred CchHHHHHhHhcCCH-------HHHHHHHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHhcCCCEEEEECCCchHH
Confidence 456778888776432 2445556677776555554433 23333455666665534456799999999999
Q ss_pred HHHHHHHHCCCCeEEEeechHHHHhCCCCCCceEEEcccCC-CCCCC--CEEEecccc
Q 024046 211 TLSMITSKYPQIKAVNFDLPHVVQDAPSYAGVEHVGGNMFE-SVPEG--DAILMKVGN 265 (273)
Q Consensus 211 ~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gD~f~-~~p~~--D~~~l~~vL 265 (273)
++..+.+ ..++.-+||-. . ++ .+++.|+-+ |++.+ |+++++-.|
T Consensus 86 la~~~~~---~~~V~SfDLva-----~-n~--~Vtacdia~vPL~~~svDv~VfcLSL 132 (219)
T PF05148_consen 86 LAKAVPN---KHKVHSFDLVA-----P-NP--RVTACDIANVPLEDESVDVAVFCLSL 132 (219)
T ss_dssp HHHH--S------EEEEESS------S-ST--TEEES-TTS-S--TT-EEEEEEES--
T ss_pred HHHhccc---CceEEEeeccC-----C-CC--CEEEecCccCcCCCCceeEEEEEhhh
Confidence 9866532 34688899822 1 23 367899966 77765 988776544
No 177
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=96.66 E-value=0.0025 Score=61.11 Aligned_cols=65 Identities=14% Similarity=0.201 Sum_probs=48.1
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec--hHHHHhCCC-----CCCceEEEcccCC---CCCCC--CEEEe
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL--PHVVQDAPS-----YAGVEHVGGNMFE---SVPEG--DAILM 261 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl--p~v~~~a~~-----~~ri~~~~gD~f~---~~p~~--D~~~l 261 (273)
+...+||||||.|.++..+++++|+..++++|. +.+...++. ..++.++.+|+-. .+|.+ |.+++
T Consensus 347 ~~p~~lEIG~G~G~~~~~~A~~~p~~~~iGiE~~~~~~~~~~~~~~~~~l~N~~~~~~~~~~~~~~~~~~sv~~i~i 423 (506)
T PRK01544 347 KRKVFLEIGFGMGEHFINQAKMNPDALFIGVEVYLNGVANVLKLAGEQNITNFLLFPNNLDLILNDLPNNSLDGIYI 423 (506)
T ss_pred CCceEEEECCCchHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHcCCCeEEEEcCCHHHHHHhcCcccccEEEE
Confidence 467899999999999999999999999999998 444332222 2677788887632 36654 55554
No 178
>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=96.65 E-value=0.0059 Score=53.66 Aligned_cols=75 Identities=16% Similarity=0.149 Sum_probs=57.9
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCC--CeEEEeec-hHHHHhCCC------CCC-ceEEEcccCCC------CCCCCEE
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQ--IKAVNFDL-PHVVQDAPS------YAG-VEHVGGNMFES------VPEGDAI 259 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~--l~~~~~Dl-p~v~~~a~~------~~r-i~~~~gD~f~~------~p~~D~~ 259 (273)
..+.+||||.||+|.+....+..+|. .++.+.|. |..++..++ ... ++|..+|.|.. .|.-+++
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 36789999999999999999999998 77888897 666665543 244 49999999982 2233888
Q ss_pred EecccccccCC
Q 024046 260 LMKVGNFENYQ 270 (273)
Q Consensus 260 ~l~~vLHd~~~ 270 (273)
+.+-+.-.++|
T Consensus 214 iVsGL~ElF~D 224 (311)
T PF12147_consen 214 IVSGLYELFPD 224 (311)
T ss_pred EEecchhhCCc
Confidence 88776666655
No 179
>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=96.64 E-value=0.0022 Score=54.07 Aligned_cols=63 Identities=21% Similarity=0.256 Sum_probs=48.7
Q ss_pred EEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCCCCCC---CCEEEecc
Q 024046 201 LVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFESVPE---GDAILMKV 263 (273)
Q Consensus 201 vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~~~p~---~D~~~l~~ 263 (273)
|.||||-+|.+.+.|++...--+++..|+ |.-++.|+. .++|++.-||-+++++. .|+++++-
T Consensus 1 vaDIGtDHgyLpi~L~~~~~~~~~ia~DI~~gpL~~A~~~i~~~~l~~~i~~rlgdGL~~l~~~e~~d~ivIAG 74 (205)
T PF04816_consen 1 VADIGTDHGYLPIYLLKNGKAPKAIAVDINPGPLEKAKENIAKYGLEDRIEVRLGDGLEVLKPGEDVDTIVIAG 74 (205)
T ss_dssp EEEET-STTHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHHHTT-TTTEEEEE-SGGGG--GGG---EEEEEE
T ss_pred CceeccchhHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCcccEEEEECCcccccCCCCCCCEEEEec
Confidence 68999999999999999999989999998 776776654 28999999999997764 37777653
No 180
>KOG2361 consensus Predicted methyltransferase [General function prediction only]
Probab=96.64 E-value=0.0031 Score=53.81 Aligned_cols=73 Identities=22% Similarity=0.267 Sum_probs=57.5
Q ss_pred ceEEEecCCccHHHHHHHHHCCC--CeEEEeec-hHHHHhCCCC-----CCceEEEcccCC-----CCCCC--CEEEecc
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQ--IKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFE-----SVPEG--DAILMKV 263 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~--l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~-----~~p~~--D~~~l~~ 263 (273)
.+|++||||.|...-.|++.+|+ ++....|- |..++..+.+ .|+..-..|+-. +.+++ |++++.-
T Consensus 73 ~~ilEvGCGvGNtvfPll~~~~n~~l~v~acDfsp~Ai~~vk~~~~~~e~~~~afv~Dlt~~~~~~~~~~~svD~it~IF 152 (264)
T KOG2361|consen 73 ETILEVGCGVGNTVFPLLKTSPNNRLKVYACDFSPRAIELVKKSSGYDESRVEAFVWDLTSPSLKEPPEEGSVDIITLIF 152 (264)
T ss_pred hhheeeccCCCcccchhhhcCCCCCeEEEEcCCChHHHHHHHhccccchhhhcccceeccchhccCCCCcCccceEEEEE
Confidence 48999999999999999999999 88999996 8888876653 566666667655 23344 9999888
Q ss_pred cccccCCC
Q 024046 264 GNFENYQS 271 (273)
Q Consensus 264 vLHd~~~~ 271 (273)
||--.+++
T Consensus 153 vLSAi~pe 160 (264)
T KOG2361|consen 153 VLSAIHPE 160 (264)
T ss_pred EEeccChH
Confidence 88766554
No 181
>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=96.60 E-value=0.0093 Score=50.81 Aligned_cols=74 Identities=22% Similarity=0.268 Sum_probs=55.4
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCC---C---------------CCCceEEEcccCCCCC-
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAP---S---------------YAGVEHVGGNMFESVP- 254 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~---~---------------~~ri~~~~gD~f~~~p- 254 (273)
.+...+|++.|||.|.-+.-|+++ ..+++++|+ |..++.+. . .++|++..||||+--+
T Consensus 35 ~~~~~rvLvPgCG~g~D~~~La~~--G~~VvGvDls~~Ai~~~~~e~~~~~~~~~~~~~~~~~~~~i~~~~gDfF~l~~~ 112 (218)
T PF05724_consen 35 LKPGGRVLVPGCGKGYDMLWLAEQ--GHDVVGVDLSPTAIEQAFEENNLEPTVTSVGGFKRYQAGRITIYCGDFFELPPE 112 (218)
T ss_dssp TSTSEEEEETTTTTSCHHHHHHHT--TEEEEEEES-HHHHHHHHHHCTTEEECTTCTTEEEETTSSEEEEES-TTTGGGS
T ss_pred CCCCCeEEEeCCCChHHHHHHHHC--CCeEEEEecCHHHHHHHHHHhccCCCcccccceeeecCCceEEEEcccccCChh
Confidence 456679999999999999999988 568999999 77777651 0 1578999999999222
Q ss_pred -CC--CEEEecccccccCC
Q 024046 255 -EG--DAILMKVGNFENYQ 270 (273)
Q Consensus 255 -~~--D~~~l~~vLHd~~~ 270 (273)
.| |+|+=+-.|+-.++
T Consensus 113 ~~g~fD~iyDr~~l~Alpp 131 (218)
T PF05724_consen 113 DVGKFDLIYDRTFLCALPP 131 (218)
T ss_dssp CHHSEEEEEECSSTTTS-G
T ss_pred hcCCceEEEEecccccCCH
Confidence 12 99887777765554
No 182
>PRK11569 transcriptional repressor IclR; Provisional
Probab=96.60 E-value=0.0041 Score=54.83 Aligned_cols=58 Identities=21% Similarity=0.270 Sum_probs=49.2
Q ss_pred hChhHHHHhC-CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhch
Q 024046 47 LGVFEIIAKA-GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 47 lglfd~L~~~-g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
+.|+++|.+. ++.|+.|||+.+|+ +..-+.|+|.-|+..|+++.+ ...+.|++.+..-
T Consensus 31 l~IL~~l~~~~~~~~lseia~~lgl----pksTv~RlL~tL~~~G~l~~~--~~~~~Y~lG~~l~ 89 (274)
T PRK11569 31 LKLLEWIAESNGSVALTELAQQAGL----PNSTTHRLLTTMQQQGFVRQV--GELGHWAIGAHAF 89 (274)
T ss_pred HHHHHHHHhCCCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEc--CCCCeEecCHHHH
Confidence 4577788764 48999999999999 999999999999999999874 3568999988653
No 183
>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=96.57 E-value=0.004 Score=42.35 Aligned_cols=59 Identities=19% Similarity=0.367 Sum_probs=41.7
Q ss_pred hChhHHHH-hCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccC---CCcceecChhc
Q 024046 47 LGVFEIIA-KAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSG---GERLYALNPVS 109 (273)
Q Consensus 47 lglfd~L~-~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~---~~~~y~lt~~s 109 (273)
.-++..|. ..++.|..+|++.+++ +...+.+.++-|...|++++.... +...|++|+.+
T Consensus 6 ~~vL~~l~~~~~~~t~~~l~~~~~~----~~~~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~G 68 (68)
T PF13463_consen 6 WQVLRALAHSDGPMTQSDLAERLGI----SKSTVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPAG 68 (68)
T ss_dssp HHHHHHHT--TS-BEHHHHHHHTT------HHHHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HHH
T ss_pred HHHHHHHHccCCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCCC
Confidence 34555666 4469999999999999 999999999999999999764321 22468888754
No 184
>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=96.55 E-value=0.0033 Score=52.29 Aligned_cols=54 Identities=19% Similarity=0.055 Sum_probs=44.1
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE 251 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~ 251 (273)
...++||++||+|.++.+++++... +++.+|. +..++.++.+ ++++++.+|.++
T Consensus 49 ~g~~vLDLfaGsG~lglea~srga~-~v~~vE~~~~a~~~~~~N~~~~~~~~~~~~~~~D~~~ 110 (189)
T TIGR00095 49 QGAHLLDVFAGSGLLGEEALSRGAK-VAFLEEDDRKANQTLKENLALLKSGEQAEVVRNSALR 110 (189)
T ss_pred CCCEEEEecCCCcHHHHHHHhCCCC-EEEEEeCCHHHHHHHHHHHHHhCCcccEEEEehhHHH
Confidence 3478999999999999999999874 7899998 6666655432 578999999966
No 185
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=96.55 E-value=0.0031 Score=44.93 Aligned_cols=64 Identities=16% Similarity=0.196 Sum_probs=49.9
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCC----cceecChhchHh
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGE----RLYALNPVSKYF 112 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~----~~y~lt~~s~~l 112 (273)
++++|...|...+..++.+|.+.+|+ +...+.+.|..|...|+++......+ ..|++|+.++..
T Consensus 1 vRl~Il~~L~~~~~~~f~~L~~~l~l----t~g~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr~~ 68 (80)
T PF13601_consen 1 VRLAILALLYANEEATFSELKEELGL----TDGNLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGREA 68 (80)
T ss_dssp HHHHHHHHHHHHSEEEHHHHHHHTT------HHHHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHHHH
T ss_pred CHHHHHHHHhhcCCCCHHHHHHHhCc----CHHHHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHHHH
Confidence 57888999988779999999999999 99999999999999999996432111 258899888643
No 186
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=96.52 E-value=0.0049 Score=54.22 Aligned_cols=58 Identities=14% Similarity=0.188 Sum_probs=49.4
Q ss_pred hChhHHHHhCC-CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhch
Q 024046 47 LGVFEIIAKAG-ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 47 lglfd~L~~~g-~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
+.|+++|...+ +.|+.|||+.+|+ +...+.|+|.-|+..|+++.+ ...+.|.+++..-
T Consensus 28 l~IL~~~~~~~~~~tl~eIa~~lgl----pkStv~RlL~tL~~~G~l~~~--~~~~~Y~lG~~l~ 86 (271)
T PRK10163 28 IAILQYLEKSGGSSSVSDISLNLDL----PLSTTFRLLKVLQAADFVYQD--SQLGWWHIGLGVF 86 (271)
T ss_pred HHHHHHHHhCCCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEc--CCCCeEEecHHHH
Confidence 56788887654 7999999999999 999999999999999999875 3567899998643
No 187
>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=96.51 E-value=0.0038 Score=52.32 Aligned_cols=75 Identities=13% Similarity=0.143 Sum_probs=49.5
Q ss_pred CCCcc-eEEEecCCccHHHHHHHHHCCCCeEEEeechHHH-HhC----CC--CCC-ceEEEcccCCC-CC---------C
Q 024046 195 FQNVE-RLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVV-QDA----PS--YAG-VEHVGGNMFES-VP---------E 255 (273)
Q Consensus 195 ~~~~~-~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~-~~a----~~--~~r-i~~~~gD~f~~-~p---------~ 255 (273)
++... +||+||+|+|.++.-+++++|+++.--=|..... ..+ .. .++ ..-+.-|.-++ +| .
T Consensus 22 l~~~~~~vLEiaSGtGqHa~~FA~~lP~l~WqPSD~~~~~~~sI~a~~~~~~~~Nv~~P~~lDv~~~~w~~~~~~~~~~~ 101 (204)
T PF06080_consen 22 LPDSGTRVLEIASGTGQHAVYFAQALPHLTWQPSDPDDNLRPSIRAWIAEAGLPNVRPPLALDVSAPPWPWELPAPLSPE 101 (204)
T ss_pred hCccCceEEEEcCCccHHHHHHHHHCCCCEEcCCCCChHHHhhHHHHHHhcCCcccCCCeEeecCCCCCccccccccCCC
Confidence 44444 5999999999999999999999987555653222 111 11 122 23344555552 22 2
Q ss_pred C-CEEEecccccccC
Q 024046 256 G-DAILMKVGNFENY 269 (273)
Q Consensus 256 ~-D~~~l~~vLHd~~ 269 (273)
. |++++.|++|-.+
T Consensus 102 ~~D~i~~~N~lHI~p 116 (204)
T PF06080_consen 102 SFDAIFCINMLHISP 116 (204)
T ss_pred CcceeeehhHHHhcC
Confidence 3 9999999999765
No 188
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=96.48 E-value=0.0051 Score=53.38 Aligned_cols=58 Identities=26% Similarity=0.379 Sum_probs=48.8
Q ss_pred hChhHHHHhCC-CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhch
Q 024046 47 LGVFEIIAKAG-ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 47 lglfd~L~~~g-~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
+.|+++|...+ +.++.|||+.+|+ +...+.|+|.-|+..|+++.+ ...++|++++..-
T Consensus 7 l~iL~~l~~~~~~l~l~ela~~~gl----pksT~~RlL~tL~~~G~v~~d--~~~g~Y~Lg~~~~ 65 (246)
T COG1414 7 LAILDLLAEGPGGLSLAELAERLGL----PKSTVHRLLQTLVELGYVEQD--PEDGRYRLGPRLL 65 (246)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHhCc----CHHHHHHHHHHHHHCCCEEEc--CCCCcEeehHHHH
Confidence 56888888732 3469999999999 999999999999999999985 2457899999654
No 189
>KOG1499 consensus Protein arginine N-methyltransferase PRMT1 and related enzymes [Posttranslational modification, protein turnover, chaperones; Transcription; Signal transduction mechanisms]
Probab=96.45 E-value=0.0042 Score=55.75 Aligned_cols=64 Identities=19% Similarity=0.256 Sum_probs=51.6
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCC-------CCCceEEEcccCC-CCC-CC-CEEEe
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPS-------YAGVEHVGGNMFE-SVP-EG-DAILM 261 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gD~f~-~~p-~~-D~~~l 261 (273)
..++|+|||||+|.+++-.+++. --++.++|-.++++.|.+ .+.|+++.|..-+ .+| +. |+++-
T Consensus 60 ~dK~VlDVGcGtGILS~F~akAG-A~~V~aVe~S~ia~~a~~iv~~N~~~~ii~vi~gkvEdi~LP~eKVDiIvS 133 (346)
T KOG1499|consen 60 KDKTVLDVGCGTGILSMFAAKAG-ARKVYAVEASSIADFARKIVKDNGLEDVITVIKGKVEDIELPVEKVDIIVS 133 (346)
T ss_pred CCCEEEEcCCCccHHHHHHHHhC-cceEEEEechHHHHHHHHHHHhcCccceEEEeecceEEEecCccceeEEee
Confidence 56899999999999999999988 457899998887776654 1679999998887 677 45 88764
No 190
>PLN02476 O-methyltransferase
Probab=96.43 E-value=0.0038 Score=55.01 Aligned_cols=57 Identities=21% Similarity=0.173 Sum_probs=47.8
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE 251 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~ 251 (273)
..++++|||||+++|..++.+++..| +-+.+.+|. |+..+.|+++ ++|+++.||..+
T Consensus 116 ~~~ak~VLEIGT~tGySal~lA~al~~~G~V~TiE~d~e~~~~Ar~n~~~aGl~~~I~li~GdA~e 181 (278)
T PLN02476 116 ILGAERCIEVGVYTGYSSLAVALVLPESGCLVACERDSNSLEVAKRYYELAGVSHKVNVKHGLAAE 181 (278)
T ss_pred hcCCCeEEEecCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHH
Confidence 56789999999999999999999876 557889998 7667766542 799999999876
No 191
>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.
Probab=96.43 E-value=0.007 Score=49.91 Aligned_cols=74 Identities=22% Similarity=0.288 Sum_probs=52.7
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCe---------EEEeec-hHHHHhCCCC-------CCceEEEccc
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIK---------AVNFDL-PHVVQDAPSY-------AGVEHVGGNM 249 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~---------~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~ 249 (273)
.++.... |.+...|+|-=||+|.++++.+...++.. +++.|. +.++..|+.+ ..|.+..+|+
T Consensus 19 ~ll~la~-~~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D~ 97 (179)
T PF01170_consen 19 ALLNLAG-WRPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWDA 97 (179)
T ss_dssp HHHHHTT---TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--G
T ss_pred HHHHHhC-CCCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecch
Confidence 3444444 77788999999999999999988888877 899998 7887766542 5689999999
Q ss_pred CC-CCCCC--CEEEe
Q 024046 250 FE-SVPEG--DAILM 261 (273)
Q Consensus 250 f~-~~p~~--D~~~l 261 (273)
++ +.+.+ |+++.
T Consensus 98 ~~l~~~~~~~d~Ivt 112 (179)
T PF01170_consen 98 RELPLPDGSVDAIVT 112 (179)
T ss_dssp GGGGGTTSBSCEEEE
T ss_pred hhcccccCCCCEEEE
Confidence 98 54443 87765
No 192
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=96.42 E-value=0.0041 Score=61.99 Aligned_cols=65 Identities=9% Similarity=0.017 Sum_probs=51.2
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC--------CCceEEEcccCCC---CCC-CCEEEe
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY--------AGVEHVGGNMFES---VPE-GDAILM 261 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~--------~ri~~~~gD~f~~---~p~-~D~~~l 261 (273)
.+.++|||+|||+|.++..+++. ...+++.+|+ +..++.|+.+ ++++++.+|.++. .+. .|+|++
T Consensus 537 ~~g~rVLDlf~gtG~~sl~aa~~-Ga~~V~~vD~s~~al~~a~~N~~~ng~~~~~v~~i~~D~~~~l~~~~~~fDlIil 614 (702)
T PRK11783 537 AKGKDFLNLFAYTGTASVHAALG-GAKSTTTVDMSNTYLEWAERNFALNGLSGRQHRLIQADCLAWLKEAREQFDLIFI 614 (702)
T ss_pred cCCCeEEEcCCCCCHHHHHHHHC-CCCEEEEEeCCHHHHHHHHHHHHHhCCCccceEEEEccHHHHHHHcCCCcCEEEE
Confidence 35689999999999999999986 3346999998 7777776642 4899999999873 233 399987
No 193
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=96.41 E-value=0.0062 Score=53.31 Aligned_cols=62 Identities=13% Similarity=0.121 Sum_probs=51.3
Q ss_pred HHhChhHHHHhCC-CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHh
Q 024046 45 IQLGVFEIIAKAG-ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYF 112 (273)
Q Consensus 45 ~elglfd~L~~~g-~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l 112 (273)
--+.|+++|...+ +.|+.|||+.+|+ +...+.|+|..|...|+++++ ..++.|++++....+
T Consensus 12 ral~iL~~l~~~~~~ls~~eia~~lgl----~kstv~RlL~tL~~~g~v~~~--~~~~~Y~Lg~~~~~l 74 (263)
T PRK09834 12 RGLMVLRALNRLDGGATVGLLAELTGL----HRTTVRRLLETLQEEGYVRRS--ASDDSFRLTLKVRQL 74 (263)
T ss_pred HHHHHHHHHHhcCCCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe--cCCCcEEEcHHHHHH
Confidence 3456788887654 6999999999999 999999999999999999975 246789999876544
No 194
>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=96.41 E-value=0.016 Score=44.18 Aligned_cols=68 Identities=16% Similarity=0.211 Sum_probs=54.3
Q ss_pred HHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCC---cceecChhchHhhc
Q 024046 43 AAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGE---RLYALNPVSKYFVS 114 (273)
Q Consensus 43 ~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~---~~y~lt~~s~~l~~ 114 (273)
+..+..++..|...++.|..+||+.+++ +...+.++++-|...|+++......+ -.+.+|+.+..+..
T Consensus 27 t~~q~~iL~~l~~~~~~t~~ela~~~~~----~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~~ 97 (118)
T TIGR02337 27 TEQQWRILRILAEQGSMEFTQLANQACI----LRPSLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALYA 97 (118)
T ss_pred CHHHHHHHHHHHHcCCcCHHHHHHHhCC----CchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHH
Confidence 3455568888887789999999999999 99999999999999999997421112 36889998876653
No 195
>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=96.40 E-value=0.0058 Score=52.96 Aligned_cols=58 Identities=22% Similarity=0.267 Sum_probs=49.3
Q ss_pred hChhHHHHhC-CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHh
Q 024046 47 LGVFEIIAKA-GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYF 112 (273)
Q Consensus 47 lglfd~L~~~-g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l 112 (273)
+.|+++|... ++.|+.|||+.+|+ +...+.|+|.-|+..|+++. ..+.|++++....+
T Consensus 12 l~IL~~l~~~~~~~~l~eia~~lgl----pksT~~RlL~tL~~~G~l~~----~~~~Y~lG~~~~~l 70 (248)
T TIGR02431 12 LAVIEAFGAERPRLTLTDVAEATGL----TRAAARRFLLTLVELGYVTS----DGRLFWLTPRVLRL 70 (248)
T ss_pred HHHHHHHhcCCCCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEe----CCCEEEecHHHHHH
Confidence 5678888763 48999999999999 99999999999999999996 35789999865433
No 196
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=96.37 E-value=0.0043 Score=57.56 Aligned_cols=66 Identities=18% Similarity=0.123 Sum_probs=49.5
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC--------CCceEEEcccCCCC------CC-CCEE
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY--------AGVEHVGGNMFESV------PE-GDAI 259 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~--------~ri~~~~gD~f~~~------p~-~D~~ 259 (273)
.+..+|||+|||+|.++...+.. +..+++.+|+ +..++.|+++ ++++++.+|.|+.+ .. .|+|
T Consensus 219 ~~g~rVLDlfsgtG~~~l~aa~~-ga~~V~~VD~s~~al~~a~~N~~~Ngl~~~~v~~i~~D~~~~l~~~~~~~~~fDlV 297 (396)
T PRK15128 219 VENKRVLNCFSYTGGFAVSALMG-GCSQVVSVDTSQEALDIARQNVELNKLDLSKAEFVRDDVFKLLRTYRDRGEKFDVI 297 (396)
T ss_pred cCCCeEEEeccCCCHHHHHHHhC-CCCEEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEccHHHHHHHHHhcCCCCCEE
Confidence 35689999999999998876653 4457999998 7777766542 37899999999732 12 3998
Q ss_pred Eec
Q 024046 260 LMK 262 (273)
Q Consensus 260 ~l~ 262 (273)
++-
T Consensus 298 ilD 300 (396)
T PRK15128 298 VMD 300 (396)
T ss_pred EEC
Confidence 864
No 197
>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=96.35 E-value=0.011 Score=55.48 Aligned_cols=73 Identities=22% Similarity=0.222 Sum_probs=53.2
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------C-CceEEEcccCCC-C--CC-
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------A-GVEHVGGNMFES-V--PE- 255 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~-ri~~~~gD~f~~-~--p~- 255 (273)
+...++ ..+..+|+|+|||+|..+..+++..|+.+.+.+|. +..++.++.+ + +++++.+|.... . +.
T Consensus 230 ~~~~L~-~~~g~~VLDlcag~G~kt~~la~~~~~~~v~a~D~~~~~l~~~~~n~~r~g~~~~v~~~~~d~~~~~~~~~~~ 308 (426)
T TIGR00563 230 VATWLA-PQNEETILDACAAPGGKTTHILELAPQAQVVALDIHEHRLKRVYENLKRLGLTIKAETKDGDGRGPSQWAENE 308 (426)
T ss_pred HHHHhC-CCCCCeEEEeCCCccHHHHHHHHHcCCCeEEEEeCCHHHHHHHHHHHHHcCCCeEEEEecccccccccccccc
Confidence 334444 55668999999999999999999998888999998 7777666532 2 344477887652 2 22
Q ss_pred -CCEEEe
Q 024046 256 -GDAILM 261 (273)
Q Consensus 256 -~D~~~l 261 (273)
.|.|++
T Consensus 309 ~fD~Vll 315 (426)
T TIGR00563 309 QFDRILL 315 (426)
T ss_pred ccCEEEE
Confidence 399886
No 198
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=96.34 E-value=0.0089 Score=56.23 Aligned_cols=71 Identities=14% Similarity=0.035 Sum_probs=53.3
Q ss_pred hhcccCCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC------CCceEEEcccCC-C----CCC-
Q 024046 190 EHYEGFQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-S----VPE- 255 (273)
Q Consensus 190 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~----~p~- 255 (273)
..++ ..+..+|+|+|||+|..+..+++..+ ..+++.+|. +..++.++.+ ++|+++.+|..+ + .+.
T Consensus 246 ~~l~-~~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~rl~~~~~n~~r~g~~~v~~~~~D~~~~~~~~~~~~~ 324 (434)
T PRK14901 246 PLLD-PQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLLELKPQWRG 324 (434)
T ss_pred HHhC-CCCcCEEEEeCCCCchhHHHHHHHhCCCceEEEEcCCHHHHHHHHHHHHHcCCCeEEEEeCChhhcccccccccc
Confidence 3344 45668999999999999999999864 468899998 7777666432 568999999876 2 222
Q ss_pred -CCEEEe
Q 024046 256 -GDAILM 261 (273)
Q Consensus 256 -~D~~~l 261 (273)
.|.|++
T Consensus 325 ~fD~Vl~ 331 (434)
T PRK14901 325 YFDRILL 331 (434)
T ss_pred cCCEEEE
Confidence 399987
No 199
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=96.27 E-value=0.017 Score=49.79 Aligned_cols=85 Identities=18% Similarity=0.273 Sum_probs=65.1
Q ss_pred HHHhcchhh----HHHHHhhcccCCCcceEEEecCCccHHHHHHHH-HCCCCeEEEeec-hHHHHhCCCC-------CCc
Q 024046 176 AMFNHSTIA----MERILEHYEGFQNVERLVDVGGGFGVTLSMITS-KYPQIKAVNFDL-PHVVQDAPSY-------AGV 242 (273)
Q Consensus 176 am~~~~~~~----~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~-~~P~l~~~~~Dl-p~v~~~a~~~-------~ri 242 (273)
.|...++.. +..|+...+ ..+..+|+|.|-|+|.++..|+. -.|.-+.+.+|. ++-.+.|.++ ++|
T Consensus 70 ~~~R~tQiIyPKD~~~I~~~~g-i~pg~rVlEAGtGSG~lt~~La~~vg~~G~v~tyE~r~d~~k~A~~Nl~~~~l~d~v 148 (256)
T COG2519 70 SMKRRTQIIYPKDAGYIVARLG-ISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGLGDRV 148 (256)
T ss_pred hCcCCCceecCCCHHHHHHHcC-CCCCCEEEEcccCchHHHHHHHHhhCCCceEEEEEecHHHHHHHHHHHHHhccccce
Confidence 365555532 334566665 88899999999999999999997 678888999997 7777777653 779
Q ss_pred eEEEcccCCC-CCCC-CEEEe
Q 024046 243 EHVGGNMFES-VPEG-DAILM 261 (273)
Q Consensus 243 ~~~~gD~f~~-~p~~-D~~~l 261 (273)
++..+|..+. .+.. |++++
T Consensus 149 ~~~~~Dv~~~~~~~~vDav~L 169 (256)
T COG2519 149 TLKLGDVREGIDEEDVDAVFL 169 (256)
T ss_pred EEEeccccccccccccCEEEE
Confidence 9999999984 3333 88876
No 200
>PF07091 FmrO: Ribosomal RNA methyltransferase (FmrO); PDB: 3LCU_A 3LCV_B 3FRH_A 3FRI_A 3B89_A 3FZG_A.
Probab=96.25 E-value=0.017 Score=49.75 Aligned_cols=72 Identities=13% Similarity=0.149 Sum_probs=53.8
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-----CCCceEEEcccCCCCCCC--CEEEecccccc
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-----YAGVEHVGGNMFESVPEG--DAILMKVGNFE 267 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gD~f~~~p~~--D~~~l~~vLHd 267 (273)
+.+.+|+|||||---++.-.....|+++.++.|+ ++.++.... ..+.++...|.....|+. |+.++..++|.
T Consensus 104 ~~p~sVlDigCGlNPlalp~~~~~~~a~Y~a~DID~~~ve~l~~~l~~l~~~~~~~v~Dl~~~~~~~~~DlaLllK~lp~ 183 (251)
T PF07091_consen 104 PPPDSVLDIGCGLNPLALPWMPEAPGATYIAYDIDSQLVEFLNAFLAVLGVPHDARVRDLLSDPPKEPADLALLLKTLPC 183 (251)
T ss_dssp ---SEEEEET-TTCHHHHHTTTSSTT-EEEEEESBHHHHHHHHHHHHHTT-CEEEEEE-TTTSHTTSEESEEEEET-HHH
T ss_pred CCCchhhhhhccCCceehhhcccCCCcEEEEEeCCHHHHHHHHHHHHhhCCCcceeEeeeeccCCCCCcchhhHHHHHHH
Confidence 3589999999999999999999999999999999 555554433 267888889999987753 99999998875
No 201
>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase. This family consists exclusively of proteins believed to act as tRNA (uracil-5-)-methyltransferase. All members of far are proteobacterial. The seed alignment was taken directly from pfam05958 in Pfam 12.0, but higher cutoffs are used to select only functionally equivalent proteins. Homologous proteins excluded by the higher cutoff scores of this model include other uracil methyltransferases, such as RumA, active on rRNA.
Probab=96.25 E-value=0.0048 Score=56.40 Aligned_cols=51 Identities=14% Similarity=0.144 Sum_probs=43.3
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE 251 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~ 251 (273)
.++||++||+|.++..+++... +++++|. +.+++.|+++ ++++++.+|..+
T Consensus 199 ~~vlDl~~G~G~~sl~la~~~~--~v~~vE~~~~av~~a~~n~~~~~~~~v~~~~~d~~~ 256 (353)
T TIGR02143 199 GDLLELYCGNGNFSLALAQNFR--RVLATEIAKPSVNAAQYNIAANNIDNVQIIRMSAEE 256 (353)
T ss_pred CcEEEEeccccHHHHHHHHhCC--EEEEEECCHHHHHHHHHHHHHcCCCcEEEEEcCHHH
Confidence 4699999999999999999874 7999998 7788777653 579999999876
No 202
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=96.19 E-value=0.011 Score=55.43 Aligned_cols=67 Identities=18% Similarity=0.132 Sum_probs=51.9
Q ss_pred CCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC-C-C-CC-CCEEEe
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-S-V-PE-GDAILM 261 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~-~-p~-~D~~~l 261 (273)
..+..+|||+|||+|..+..+++.. +..+++.+|+ +..++.++++ +.|+++.+|... + . ++ .|.|++
T Consensus 235 ~~~g~~VLD~cagpGgkt~~la~~~~~~g~V~a~Dis~~rl~~~~~n~~r~g~~~v~~~~~Da~~l~~~~~~~fD~Vl~ 313 (431)
T PRK14903 235 LEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKRLKLSSIEIKIADAERLTEYVQDTFDRILV 313 (431)
T ss_pred CCCCCEEEEeCCCccHHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchhhhhhhhhccCCEEEE
Confidence 5567899999999999999999886 5678999998 7777666542 468999999875 2 2 23 398886
No 203
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=96.18 E-value=0.014 Score=42.57 Aligned_cols=65 Identities=25% Similarity=0.327 Sum_probs=50.7
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccC---CCcceecChhchHhh
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSG---GERLYALNPVSKYFV 113 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~---~~~~y~lt~~s~~l~ 113 (273)
.++.++..|...++.|..+||+.+++ ++..+.+.++-|...|+++..... ....|.+|+.+..+.
T Consensus 11 ~~~~il~~l~~~~~~~~~~la~~~~~----s~~~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~~~ 78 (101)
T smart00347 11 TQFLVLRILYEEGPLSVSELAKRLGV----SPSTVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELI 78 (101)
T ss_pred HHHHHHHHHHHcCCcCHHHHHHHHCC----CchhHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHHHH
Confidence 35667888887678999999999999 999999999999999999864210 112577787776544
No 204
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=96.08 E-value=0.014 Score=39.33 Aligned_cols=43 Identities=26% Similarity=0.248 Sum_probs=36.8
Q ss_pred ChhHHHHh-CCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 48 GVFEIIAK-AGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 48 glfd~L~~-~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
.|.+.|.. .+|.+..|||+.+|+ +....+++|..|...|.++.
T Consensus 4 ~Il~~i~~~~~p~~T~eiA~~~gl----s~~~aR~yL~~Le~eG~V~~ 47 (62)
T PF04703_consen 4 KILEYIKEQNGPLKTREIADALGL----SIYQARYYLEKLEKEGKVER 47 (62)
T ss_dssp CHHHHHHHHTS-EEHHHHHHHHTS-----HHHHHHHHHHHHHCTSEEE
T ss_pred HHHHHHHHcCCCCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEE
Confidence 46677777 579999999999999 99999999999999999986
No 205
>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=96.07 E-value=0.052 Score=47.66 Aligned_cols=74 Identities=14% Similarity=0.081 Sum_probs=59.1
Q ss_pred CcceEEEecCCccH----HHHHHHHHCC-----CCeEEEeec-hHHHHhCCCC---------------------------
Q 024046 197 NVERLVDVGGGFGV----TLSMITSKYP-----QIKAVNFDL-PHVVQDAPSY--------------------------- 239 (273)
Q Consensus 197 ~~~~vvDVGGG~G~----~~~~l~~~~P-----~l~~~~~Dl-p~v~~~a~~~--------------------------- 239 (273)
+.-+|.-.||++|. +++.|.+.+| ..+.++-|+ ..+++.|+.-
T Consensus 96 ~~irIWSaaCStGEEpYSiAm~l~e~~~~~~~~~~~I~AtDId~~~L~~A~~G~Y~~~~~~~~~~~~~~~ryF~~~~~~~ 175 (268)
T COG1352 96 RPIRIWSAACSTGEEPYSLAMLLLEALGKLAGFRVKILATDIDLSVLEKARAGIYPSRELLRGLPPELLRRYFERGGDGS 175 (268)
T ss_pred CceEEEecCcCCCccHHHHHHHHHHHhccccCCceEEEEEECCHHHHHHHhcCCCChhHhhccCCHHHHhhhEeecCCCc
Confidence 47799999999998 7778888887 467788998 7788877530
Q ss_pred --------CCceEEEcccCCCC--CCC-CEEEecccccccCC
Q 024046 240 --------AGVEHVGGNMFESV--PEG-DAILMKVGNFENYQ 270 (273)
Q Consensus 240 --------~ri~~~~gD~f~~~--p~~-D~~~l~~vLHd~~~ 270 (273)
..|.|-.+|.+++. +.. |+|+|+|||=.++.
T Consensus 176 y~v~~~ir~~V~F~~~NLl~~~~~~~~fD~IfCRNVLIYFd~ 217 (268)
T COG1352 176 YRVKEELRKMVRFRRHNLLDDSPFLGKFDLIFCRNVLIYFDE 217 (268)
T ss_pred EEEChHHhcccEEeecCCCCCccccCCCCEEEEcceEEeeCH
Confidence 45899999999954 344 99999999977653
No 206
>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]
Probab=96.02 E-value=0.0059 Score=51.84 Aligned_cols=68 Identities=13% Similarity=0.323 Sum_probs=47.0
Q ss_pred hHHHHHHHHHhcchhhHH----HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC
Q 024046 169 FNETYHEAMFNHSTIAME----RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY 239 (273)
Q Consensus 169 ~~~~f~~am~~~~~~~~~----~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~ 239 (273)
..++|.+.....-.+..| .++...+ ....+++||+|||+|..+..|-..--. .+++|+ ..+++.|.+.
T Consensus 94 ~Ae~Fd~~LVdkL~Y~vP~~l~emI~~~~-~g~F~~~lDLGCGTGL~G~~lR~~a~~--ltGvDiS~nMl~kA~eK 166 (287)
T COG4976 94 YAERFDHILVDKLGYSVPELLAEMIGKAD-LGPFRRMLDLGCGTGLTGEALRDMADR--LTGVDISENMLAKAHEK 166 (287)
T ss_pred HHHHHHHHHHHHhcCccHHHHHHHHHhcc-CCccceeeecccCcCcccHhHHHHHhh--ccCCchhHHHHHHHHhc
Confidence 345677666543333333 3344444 455899999999999999988877655 488998 6688888764
No 207
>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]
Probab=96.01 E-value=0.011 Score=53.48 Aligned_cols=56 Identities=27% Similarity=0.474 Sum_probs=47.9
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCC-CeEEEeec-hHHHHhCCC-------------CCCceEEEcccCC
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQ-IKAVNFDL-PHVVQDAPS-------------YAGVEHVGGNMFE 251 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~-------------~~ri~~~~gD~f~ 251 (273)
.++..+++-+|||.|.-+++++| ||+ -+.+.+|+ |.|++.++. ++|++++.-|.|+
T Consensus 287 ~~~a~~vLvlGGGDGLAlRellk-yP~~~qI~lVdLDP~miela~~~~vlr~~N~~sf~dpRv~Vv~dDAf~ 357 (508)
T COG4262 287 VRGARSVLVLGGGDGLALRELLK-YPQVEQITLVDLDPRMIELASHATVLRALNQGSFSDPRVTVVNDDAFQ 357 (508)
T ss_pred ccccceEEEEcCCchHHHHHHHh-CCCcceEEEEecCHHHHHHhhhhhHhhhhccCCccCCeeEEEeccHHH
Confidence 45788999999999999999874 784 56899999 999998873 2899999999998
No 208
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=96.00 E-value=0.013 Score=49.58 Aligned_cols=63 Identities=29% Similarity=0.441 Sum_probs=50.3
Q ss_pred hChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecccc----CCC-cceecChhchHhh
Q 024046 47 LGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVS----GGE-RLYALNPVSKYFV 113 (273)
Q Consensus 47 lglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~----~~~-~~y~lt~~s~~l~ 113 (273)
-.|...|..+||.|+.|||+.+|+ ++..+++.|..|+..|+++.... +++ -.|++|..+...+
T Consensus 14 ~~il~lL~~~g~~sa~elA~~Lgi----s~~avR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~Lt~~g~~~f 81 (218)
T COG2345 14 ERILELLKKSGPVSADELAEELGI----SPMAVRRHLDDLEAEGLVEVERQQGGRGRPAKLYRLTEKGREQF 81 (218)
T ss_pred HHHHHHHhccCCccHHHHHHHhCC----CHHHHHHHHHHHHhCcceeeeeccCCCCCCceeeeecccchhhc
Confidence 346677887799999999999999 99999999999999999986422 111 2699998876533
No 209
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=95.98 E-value=0.018 Score=45.54 Aligned_cols=55 Identities=24% Similarity=0.280 Sum_probs=46.5
Q ss_pred HHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhh
Q 024046 52 IIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFV 113 (273)
Q Consensus 52 ~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~ 113 (273)
.+...|+.++.+||+.+++ ++..+.+.++.|...|++... ..+.|.+|+.+..+.
T Consensus 16 l~~~~~~~~~~ela~~l~v----s~~svs~~l~~L~~~Gli~~~---~~~~i~LT~~G~~~a 70 (142)
T PRK03902 16 LIEEKGYARVSDIAEALSV----HPSSVTKMVQKLDKDEYLIYE---KYRGLVLTPKGKKIG 70 (142)
T ss_pred HHhcCCCcCHHHHHHHhCC----ChhHHHHHHHHHHHCCCEEEe---cCceEEECHHHHHHH
Confidence 4455578999999999999 999999999999999999862 446799999987553
No 210
>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=95.97 E-value=0.0089 Score=41.16 Aligned_cols=44 Identities=18% Similarity=0.349 Sum_probs=37.6
Q ss_pred ChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 48 GVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 48 glfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.|-+.|.+.|..|+.|||..+++ +++.++.+|..|+..|.+++.
T Consensus 4 ~i~~~l~~~~~~S~~eLa~~~~~----s~~~ve~mL~~l~~kG~I~~~ 47 (69)
T PF09012_consen 4 EIRDYLRERGRVSLAELAREFGI----SPEAVEAMLEQLIRKGYIRKV 47 (69)
T ss_dssp HHHHHHHHS-SEEHHHHHHHTT------HHHHHHHHHHHHCCTSCEEE
T ss_pred HHHHHHHHcCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEEe
Confidence 36678888889999999999999 999999999999999999974
No 211
>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=95.93 E-value=0.016 Score=48.66 Aligned_cols=64 Identities=20% Similarity=0.317 Sum_probs=50.6
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecccc-CCCc----ceecChhchHhh
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVS-GGER----LYALNPVSKYFV 113 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~-~~~~----~y~lt~~s~~l~ 113 (273)
+..|+..|...|+.|+.+||+.+|+ ++..+.+.|+.|...|+++.... .+.| .|.+|+.+..+.
T Consensus 3 r~~IL~~L~~~~~~t~~eLA~~lgi----s~~tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~~ 71 (203)
T TIGR02702 3 KEDILSYLLKQGQATAAALAEALAI----SPQAVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQF 71 (203)
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhhc
Confidence 4457788877789999999999999 99999999999999999986410 0122 478888876554
No 212
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=95.92 E-value=0.016 Score=36.35 Aligned_cols=41 Identities=20% Similarity=0.173 Sum_probs=36.0
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecC
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALN 106 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt 106 (273)
+.|..+||+.+|+ +...+.+.|+.|...|+++. ..+.|.++
T Consensus 8 ~~s~~~la~~l~~----s~~tv~~~l~~L~~~g~l~~----~~~~~~i~ 48 (48)
T smart00419 8 PLTRQEIAELLGL----TRETVSRTLKRLEKEGLISR----EGGRIVIL 48 (48)
T ss_pred ccCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEE----eCCEEEEC
Confidence 7899999999999 99999999999999999986 34666653
No 213
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=95.92 E-value=0.019 Score=50.36 Aligned_cols=67 Identities=18% Similarity=0.099 Sum_probs=50.4
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCC-CeEEEeec-hHHHHhCCCC------CCceEEEcccCC-CC--CCCCEEEe
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQ-IKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-SV--PEGDAILM 261 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~~--p~~D~~~l 261 (273)
..+..+|||+|||+|..+..+++..++ -.++.+|+ +..++.++++ ++|+++.+|... +. +..|+|++
T Consensus 69 ~~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~~l~~~~~n~~~~g~~~v~~~~~D~~~~~~~~~~fD~Vl~ 146 (264)
T TIGR00446 69 PDPPERVLDMAAAPGGKTTQISALMKNEGAIVANEFSKSRTKVLIANINRCGVLNVAVTNFDGRVFGAAVPKFDAILL 146 (264)
T ss_pred CCCcCEEEEECCCchHHHHHHHHHcCCCCEEEEEcCCHHHHHHHHHHHHHcCCCcEEEecCCHHHhhhhccCCCEEEE
Confidence 456689999999999999999998754 57899998 7777655432 568899999754 22 23488876
No 214
>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=95.92 E-value=0.021 Score=51.03 Aligned_cols=66 Identities=21% Similarity=0.238 Sum_probs=51.1
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFE 251 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~ 251 (273)
..++++.+. ..+...+||.=-|.|.++.++++++|+.+.+++|. |.+++.|.+. +|+.++.++|-+
T Consensus 9 l~Evl~~L~-~~~~g~~vD~T~G~GGHS~aiL~~~~~~~li~~DrD~~a~~~a~~~l~~~~~r~~~~~~~F~~ 80 (310)
T PF01795_consen 9 LKEVLEALN-PKPGGIYVDCTFGGGGHSKAILEKLPNGRLIGIDRDPEALERAKERLKKFDDRFIFIHGNFSN 80 (310)
T ss_dssp HHHHHHHHT---TT-EEEETT-TTSHHHHHHHHT-TT-EEEEEES-HHHHHHHHCCTCCCCTTEEEEES-GGG
T ss_pred HHHHHHhhC-cCCCceEEeecCCcHHHHHHHHHhCCCCeEEEecCCHHHHHHHHHHHhhccceEEEEeccHHH
Confidence 456777776 66778999999999999999999999999999999 8888777643 899999999865
No 215
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=95.90 E-value=0.0075 Score=55.35 Aligned_cols=51 Identities=14% Similarity=0.141 Sum_probs=43.0
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE 251 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~ 251 (273)
.++||++||+|.++..+++... +++++|. +..++.++++ ++++++.+|.++
T Consensus 208 ~~vLDl~~G~G~~sl~la~~~~--~v~~vE~~~~ai~~a~~N~~~~~~~~v~~~~~d~~~ 265 (362)
T PRK05031 208 GDLLELYCGNGNFTLALARNFR--RVLATEISKPSVAAAQYNIAANGIDNVQIIRMSAEE 265 (362)
T ss_pred CeEEEEeccccHHHHHHHhhCC--EEEEEECCHHHHHHHHHHHHHhCCCcEEEEECCHHH
Confidence 5799999999999999999875 6899998 7777766542 589999999875
No 216
>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=95.81 E-value=0.013 Score=41.85 Aligned_cols=46 Identities=30% Similarity=0.391 Sum_probs=37.8
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChh
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPV 108 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~ 108 (273)
+.|.++||+.+++ +++.+++++..|...|+++... +..|.|.++..
T Consensus 25 ~~s~~eiA~~~~i----~~~~l~kil~~L~~~Gli~s~~-G~~GGy~L~~~ 70 (83)
T PF02082_consen 25 PVSSKEIAERLGI----SPSYLRKILQKLKKAGLIESSR-GRGGGYRLARP 70 (83)
T ss_dssp -BEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEET-STTSEEEESS-
T ss_pred CCCHHHHHHHHCc----CHHHHHHHHHHHhhCCeeEecC-CCCCceeecCC
Confidence 5999999999999 9999999999999999998653 24577888764
No 217
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=95.81 E-value=0.029 Score=36.99 Aligned_cols=54 Identities=24% Similarity=0.382 Sum_probs=42.2
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
|+..|. .++.|..+|++.+++ +...+.+.|+.|...|++..........|.+|.
T Consensus 2 il~~l~-~~~~~~~~i~~~l~i----s~~~v~~~l~~L~~~g~i~~~~~~~~~~~~~~~ 55 (66)
T smart00418 2 ILKLLA-EGELCVCELAEILGL----SQSTVSHHLKKLREAGLVESRREGKRVYYSLTD 55 (66)
T ss_pred HHHHhh-cCCccHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeeeecCCEEEEEEch
Confidence 456666 479999999999999 999999999999999999964212224565555
No 218
>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=95.78 E-value=0.02 Score=38.60 Aligned_cols=44 Identities=27% Similarity=0.345 Sum_probs=38.6
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
++.|..+||+.+|+ +...+.++|+.|...|++... ..+.|.++|
T Consensus 24 ~~~s~~ela~~~g~----s~~tv~r~l~~L~~~g~i~~~---~~~~~~l~~ 67 (67)
T cd00092 24 LPLTRQEIADYLGL----TRETVSRTLKELEEEGLISRR---GRGKYRVNP 67 (67)
T ss_pred CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEec---CCCeEEeCC
Confidence 58999999999999 999999999999999999973 336787764
No 219
>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=95.76 E-value=0.012 Score=43.98 Aligned_cols=44 Identities=23% Similarity=0.331 Sum_probs=31.5
Q ss_pred hhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec
Q 024046 183 IAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL 229 (273)
Q Consensus 183 ~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl 229 (273)
+.+.-|-..+. -.....+||||||+|.+.--|.+. .-+|.++|.
T Consensus 45 yLi~LW~~~~~-~~~~~~FVDlGCGNGLLV~IL~~E--Gy~G~GiD~ 88 (112)
T PF07757_consen 45 YLIELWRDMYG-EQKFQGFVDLGCGNGLLVYILNSE--GYPGWGIDA 88 (112)
T ss_pred HHHHHHhcccC-CCCCCceEEccCCchHHHHHHHhC--CCCcccccc
Confidence 33334444443 345788999999999998888776 456789986
No 220
>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=95.76 E-value=0.016 Score=38.55 Aligned_cols=47 Identities=21% Similarity=0.318 Sum_probs=39.9
Q ss_pred HHhChhHHHHhCCC--CCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 45 IQLGVFEIIAKAGE--LSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 45 ~elglfd~L~~~g~--~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.+..++-.|...++ .|+.+||+.+++ ++..+.++++.|...|++++.
T Consensus 6 ~q~~vL~~l~~~~~~~~t~~~la~~l~~----~~~~vs~~v~~L~~~Glv~r~ 54 (62)
T PF12802_consen 6 SQFRVLMALARHPGEELTQSELAERLGI----SKSTVSRIVKRLEKKGLVERE 54 (62)
T ss_dssp HHHHHHHHHHHSTTSGEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHHCCCCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence 34556777777665 899999999999 999999999999999999974
No 221
>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=95.76 E-value=0.029 Score=50.13 Aligned_cols=66 Identities=17% Similarity=0.228 Sum_probs=55.4
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFE 251 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~ 251 (273)
.+++++.+. ..+...+||.=+|.|.++..++++.|+.+.+++|. |.+++.+++. +|++++.++|-+
T Consensus 9 l~Evl~~L~-~~~ggiyVD~TlG~GGHS~~iL~~l~~g~vigiD~D~~Al~~ak~~L~~~~~R~~~i~~nF~~ 80 (305)
T TIGR00006 9 LDEVVEGLN-IKPDGIYIDCTLGFGGHSKAILEQLGTGRLIGIDRDPQAIAFAKERLSDFEGRVVLIHDNFAN 80 (305)
T ss_pred HHHHHHhcC-cCCCCEEEEeCCCChHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHhhcCCcEEEEeCCHHH
Confidence 456677765 55667999999999999999999998889999998 8888877642 589999999975
No 222
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=95.70 E-value=0.023 Score=46.13 Aligned_cols=62 Identities=16% Similarity=0.240 Sum_probs=46.2
Q ss_pred HHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChh
Q 024046 39 MATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPV 108 (273)
Q Consensus 39 ~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~ 108 (273)
.||.+.+.+. | -...++.|+++||+.+++ ++..+.++|..|...|++.... +.+|.|.+..-
T Consensus 9 yAl~~l~~lA-~--~~~~~~vs~~eIA~~~~i----p~~~l~kIl~~L~~aGLv~s~r-G~~GGy~Lar~ 70 (164)
T PRK10857 9 YAVTAMLDVA-L--NSEAGPVPLADISERQGI----SLSYLEQLFSRLRKNGLVSSVR-GPGGGYLLGKD 70 (164)
T ss_pred HHHHHHHHHH-h--CCCCCcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeCC-CCCCCeeccCC
Confidence 4455555554 1 122248999999999999 9999999999999999999643 24566877653
No 223
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=95.69 E-value=0.027 Score=48.87 Aligned_cols=68 Identities=13% Similarity=0.212 Sum_probs=60.3
Q ss_pred HHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhcC
Q 024046 39 MATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 39 ~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
..+...-|.+|+=.|.+ ||+|.+||-..+++ ++..+..-++-|...|++.+ .++.|++|+.+..++..
T Consensus 8 ~if~SekRk~lLllL~e-gPkti~EI~~~l~v----s~~ai~pqiKkL~~~~LV~~----~~~~Y~LS~~G~iiv~k 75 (260)
T COG4742 8 LLFLSEKRKDLLLLLKE-GPKTIEEIKNELNV----SSSAILPQIKKLKDKGLVVQ----EGDRYSLSSLGKIIVEK 75 (260)
T ss_pred HHHccHHHHHHHHHHHh-CCCCHHHHHHHhCC----CcHHHHHHHHHHhhCCCEEe----cCCEEEecchHHHHHHH
Confidence 34455678899999988 89999999999999 99999999999999999996 67999999999887754
No 224
>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=95.69 E-value=0.024 Score=50.01 Aligned_cols=74 Identities=18% Similarity=0.245 Sum_probs=51.3
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCe-EEEeec-hHHHHhCCCC----CCceE--EEcccCC---CCCCCCEEEecccc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIK-AVNFDL-PHVVQDAPSY----AGVEH--VGGNMFE---SVPEGDAILMKVGN 265 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~~~Dl-p~v~~~a~~~----~ri~~--~~gD~f~---~~p~~D~~~l~~vL 265 (273)
.+.+|||+|+|.|..+-++...+|++. .+.+|. +.+++.++.. +.... ...++.. +++..|+++++++|
T Consensus 33 ~P~~vLD~GsGpGta~wAa~~~~~~~~~~~~vd~s~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~DLvi~s~~L 112 (274)
T PF09243_consen 33 RPRSVLDFGSGPGTALWAAREVWPSLKEYTCVDRSPEMLELAKRLLRAGPNNRNAEWRRVLYRDFLPFPPDDLVIASYVL 112 (274)
T ss_pred CCceEEEecCChHHHHHHHHHHhcCceeeeeecCCHHHHHHHHHHHhcccccccchhhhhhhcccccCCCCcEEEEehhh
Confidence 467999999999999999999999654 688897 6666654431 11111 1222332 34455999999999
Q ss_pred cccCC
Q 024046 266 FENYQ 270 (273)
Q Consensus 266 Hd~~~ 270 (273)
-.-++
T Consensus 113 ~EL~~ 117 (274)
T PF09243_consen 113 NELPS 117 (274)
T ss_pred hcCCc
Confidence 87665
No 225
>PRK10611 chemotaxis methyltransferase CheR; Provisional
Probab=95.61 E-value=0.021 Score=50.59 Aligned_cols=75 Identities=16% Similarity=0.088 Sum_probs=56.5
Q ss_pred CcceEEEecCCccH----HHHHHHHHCC----CCeEEEeec-hHHHHhCCCC----------------------------
Q 024046 197 NVERLVDVGGGFGV----TLSMITSKYP----QIKAVNFDL-PHVVQDAPSY---------------------------- 239 (273)
Q Consensus 197 ~~~~vvDVGGG~G~----~~~~l~~~~P----~l~~~~~Dl-p~v~~~a~~~---------------------------- 239 (273)
+.-+|...||++|. +++.+.+..| +++.++-|+ +.+++.|+.-
T Consensus 115 ~~irIWSAgCStGEEpYSlAmll~e~~~~~~~~~~I~atDIs~~aL~~Ar~G~Y~~~~~r~~p~~~~~ryF~~~~~~~~~ 194 (287)
T PRK10611 115 GEYRVWSAAASTGEEPYSIAMTLADTLGTAPGRWKVFASDIDTEVLEKARSGIYRQEELKTLSPQQLQRYFMRGTGPHEG 194 (287)
T ss_pred CCEEEEEccccCCHHHHHHHHHHHHhhcccCCCcEEEEEECCHHHHHHHHhCCCCHHHHhcCCHHHHHHHcccccCCCCc
Confidence 34799999999998 5555666543 367899998 7777766420
Q ss_pred ---------CCceEEEcccCC-CCC--CC-CEEEecccccccCCC
Q 024046 240 ---------AGVEHVGGNMFE-SVP--EG-DAILMKVGNFENYQS 271 (273)
Q Consensus 240 ---------~ri~~~~gD~f~-~~p--~~-D~~~l~~vLHd~~~~ 271 (273)
.+|+|..+|.++ ++| .. |+|+++|||.+++++
T Consensus 195 ~~~v~~~lr~~V~F~~~NL~~~~~~~~~~fD~I~cRNvliyF~~~ 239 (287)
T PRK10611 195 LVRVRQELANYVDFQQLNLLAKQWAVPGPFDAIFCRNVMIYFDKT 239 (287)
T ss_pred eEEEChHHHccCEEEcccCCCCCCccCCCcceeeHhhHHhcCCHH
Confidence 467999999998 454 33 999999999988764
No 226
>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=95.60 E-value=0.0083 Score=49.24 Aligned_cols=63 Identities=19% Similarity=0.288 Sum_probs=43.9
Q ss_pred HHHHHhhcccCC--CcceEEEecCCccHHHHHHHHHC-CCCeEEEeechHHHHhCCCCCCceEEEcccCC
Q 024046 185 MERILEHYEGFQ--NVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDLPHVVQDAPSYAGVEHVGGNMFE 251 (273)
Q Consensus 185 ~~~il~~~~~~~--~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~~a~~~~ri~~~~gD~f~ 251 (273)
..++.+.++.++ +..++||+||+.|.++..++++. +..+++++|+... ...+.+.++.||+++
T Consensus 9 L~ei~~~~~~~~~~~~~~vlDlG~aPGGws~~~~~~~~~~~~v~avDl~~~----~~~~~~~~i~~d~~~ 74 (181)
T PF01728_consen 9 LYEIDEKFKIFKPGKGFTVLDLGAAPGGWSQVLLQRGGPAGRVVAVDLGPM----DPLQNVSFIQGDITN 74 (181)
T ss_dssp HHHHHHTTSSS-TTTTEEEEEET-TTSHHHHHHHTSTTTEEEEEEEESSST----GS-TTEEBTTGGGEE
T ss_pred HHHHHHHCCCCCcccccEEEEcCCcccceeeeeeecccccceEEEEecccc----ccccceeeeecccch
Confidence 345566665343 45899999999999999999998 7788999999544 122445555666654
No 227
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=95.60 E-value=0.012 Score=51.16 Aligned_cols=57 Identities=14% Similarity=0.173 Sum_probs=47.4
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCC-------CCCceEEEcccCC
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFE 251 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~ 251 (273)
..++++||+||.+.|.-++.+++..| +.+.+-+|. |+..+.|+. .++|+++.||..+
T Consensus 77 ~~~ak~iLEiGT~~GySal~la~al~~~g~v~tiE~~~~~~~~Ar~~~~~ag~~~~I~~~~G~a~e 142 (247)
T PLN02589 77 LINAKNTMEIGVYTGYSLLATALALPEDGKILAMDINRENYELGLPVIQKAGVAHKIDFREGPALP 142 (247)
T ss_pred HhCCCEEEEEeChhhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCceEEEeccHHH
Confidence 45789999999999999999999875 678899998 666666654 2899999999876
No 228
>PRK11050 manganese transport regulator MntR; Provisional
Probab=95.54 E-value=0.12 Score=41.32 Aligned_cols=58 Identities=26% Similarity=0.355 Sum_probs=48.1
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhh
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFV 113 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~ 113 (273)
|..++...++.+..+||+.+++ ++..+.++++-|...|++... ....+.+|+.+..+.
T Consensus 42 I~~~l~~~~~~t~~eLA~~l~i----s~stVsr~l~~Le~~GlI~r~---~~~~v~LT~~G~~l~ 99 (152)
T PRK11050 42 IADLIAEVGEARQVDIAARLGV----SQPTVAKMLKRLARDGLVEMR---PYRGVFLTPEGEKLA 99 (152)
T ss_pred HHHHHHhcCCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe---cCCceEECchHHHHH
Confidence 5567766568999999999999 999999999999999999863 335678888776654
No 229
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=95.54 E-value=0.019 Score=48.74 Aligned_cols=67 Identities=12% Similarity=0.254 Sum_probs=54.2
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHHhCCCC-------CCceEEE-cccCC---CC-CC-CCEE
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYP-QIKAVNFDL-PHVVQDAPSY-------AGVEHVG-GNMFE---SV-PE-GDAI 259 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~-gD~f~---~~-p~-~D~~ 259 (273)
..++++||+||.+.|..++.++..-| +.+.+-+|. |+.++.|+.+ ++|+++. ||-.+ .. .+ -|++
T Consensus 57 ~~~~k~iLEiGT~~GySal~mA~~l~~~g~l~tiE~~~e~~~~A~~n~~~ag~~~~i~~~~~gdal~~l~~~~~~~fDli 136 (219)
T COG4122 57 LSGPKRILEIGTAIGYSALWMALALPDDGRLTTIERDEERAEIARENLAEAGVDDRIELLLGGDALDVLSRLLDGSFDLV 136 (219)
T ss_pred hcCCceEEEeecccCHHHHHHHhhCCCCCeEEEEeCCHHHHHHHHHHHHHcCCcceEEEEecCcHHHHHHhccCCCccEE
Confidence 66899999999999999999999999 788899998 8888877653 7898888 57765 21 12 2887
Q ss_pred Ee
Q 024046 260 LM 261 (273)
Q Consensus 260 ~l 261 (273)
|+
T Consensus 137 FI 138 (219)
T COG4122 137 FI 138 (219)
T ss_pred EE
Confidence 76
No 230
>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=95.49 E-value=0.036 Score=37.72 Aligned_cols=57 Identities=21% Similarity=0.384 Sum_probs=44.8
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
+..|+..+... +.+..||++.+++ +...+.+.|+.|...|++..........|.+|+
T Consensus 9 ~~~il~~l~~~-~~~~~ei~~~~~i----~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~ 65 (78)
T cd00090 9 RLRILRLLLEG-PLTVSELAERLGL----SQSTVSRHLKKLEEAGLVESRREGRRVYYSLTD 65 (78)
T ss_pred HHHHHHHHHHC-CcCHHHHHHHHCc----CHhHHHHHHHHHHHCCCeEEEEeccEEEEEeCC
Confidence 44567777774 5999999999999 999999999999999999964222235677775
No 231
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=95.48 E-value=0.024 Score=43.69 Aligned_cols=58 Identities=17% Similarity=0.114 Sum_probs=50.7
Q ss_pred hhhHHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 34 GVVLPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 34 g~~~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.|-..+.+-+--.+.|++.|+..+|.|+.|+|+.+|. +...+.|-|+.|...|++...
T Consensus 54 Sye~la~vLsp~nleLl~~Ia~~~P~Si~ElAe~vgR----dv~nvhr~Ls~l~~~GlI~fe 111 (144)
T COG4190 54 SYEDLARVLSPRNLELLELIAQEEPASINELAELVGR----DVKNVHRTLSTLADLGLIFFE 111 (144)
T ss_pred cHHHHHHHhChhHHHHHHHHHhcCcccHHHHHHHhCc----chHHHHHHHHHHHhcCeEEEe
Confidence 4445555666778889999999889999999999999 999999999999999999863
No 232
>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=95.46 E-value=0.03 Score=46.38 Aligned_cols=65 Identities=17% Similarity=0.311 Sum_probs=46.6
Q ss_pred eEEEecCCccHHHHHHHHHCCCCeEEEeec-hH---HHHhCCC---CCCceEEEcccCC-CCCCC-CEEEeccc
Q 024046 200 RLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PH---VVQDAPS---YAGVEHVGGNMFE-SVPEG-DAILMKVG 264 (273)
Q Consensus 200 ~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~---v~~~a~~---~~ri~~~~gD~f~-~~p~~-D~~~l~~v 264 (273)
+++|||.|.|.=++.|+=.+|+++++++|- .. .++.+.. .++++++.+..-+ ..+.. |+++.+-+
T Consensus 51 ~~lDiGSGaGfPGipLaI~~p~~~~~LvEs~~KK~~FL~~~~~~L~L~nv~v~~~R~E~~~~~~~fd~v~aRAv 124 (184)
T PF02527_consen 51 KVLDIGSGAGFPGIPLAIARPDLQVTLVESVGKKVAFLKEVVRELGLSNVEVINGRAEEPEYRESFDVVTARAV 124 (184)
T ss_dssp EEEEETSTTTTTHHHHHHH-TTSEEEEEESSHHHHHHHHHHHHHHT-SSEEEEES-HHHTTTTT-EEEEEEESS
T ss_pred eEEecCCCCCChhHHHHHhCCCCcEEEEeCCchHHHHHHHHHHHhCCCCEEEEEeeecccccCCCccEEEeehh
Confidence 899999999999999999999999999997 22 2222221 3778888888877 23333 88887654
No 233
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=95.46 E-value=0.028 Score=47.63 Aligned_cols=55 Identities=15% Similarity=0.324 Sum_probs=50.8
Q ss_pred HHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 37 LPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 37 ~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
...||...++..|++.|++.||+.+.|||+++|+ +..-+..-+..|...|+++..
T Consensus 16 v~kalaS~vRv~Il~lL~~k~plNvneiAe~lgL----pqst~s~~ik~Le~aGlirT~ 70 (308)
T COG4189 16 VLKALASKVRVAILQLLHRKGPLNVNEIAEALGL----PQSTMSANIKVLEKAGLIRTE 70 (308)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHhCC----chhhhhhhHHHHHhcCceeee
Confidence 4568888999999999999999999999999999 999999999999999999853
No 234
>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=95.45 E-value=0.028 Score=40.79 Aligned_cols=61 Identities=20% Similarity=0.270 Sum_probs=47.7
Q ss_pred ChhHHHHhCCCCCHHHHHHHh-CcCCCCCcchHHHHHHHHhcCCceeccccCCC---cceecChhchHhh
Q 024046 48 GVFEIIAKAGELSAPEIAAQL-QAQNVKAPMMLDRMLRLLVSHRVLECSVSGGE---RLYALNPVSKYFV 113 (273)
Q Consensus 48 glfd~L~~~g~~t~~eLA~~~-g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~---~~y~lt~~s~~l~ 113 (273)
-|+..|.. |+....||.+.+ |+ ++..|.+-|+-|...|++++...... -.|++|+.+..|.
T Consensus 9 ~IL~~l~~-g~~rf~el~~~l~~i----s~~~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G~~l~ 73 (90)
T PF01638_consen 9 LILRALFQ-GPMRFSELQRRLPGI----SPKVLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELL 73 (90)
T ss_dssp HHHHHHTT-SSEEHHHHHHHSTTS-----HHHHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHH
T ss_pred HHHHHHHh-CCCcHHHHHHhcchh----HHHHHHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHH
Confidence 35667777 899999999999 89 99999999999999999987432111 2599999998765
No 235
>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=95.43 E-value=0.015 Score=38.35 Aligned_cols=47 Identities=19% Similarity=0.386 Sum_probs=40.5
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.++.++..|.+.|+.|..+||+.+++ +...+.++++-|...|++++.
T Consensus 4 ~q~~iL~~l~~~~~~~~~~la~~~~~----~~~~~t~~i~~L~~~g~I~r~ 50 (59)
T PF01047_consen 4 SQFRILRILYENGGITQSELAEKLGI----SRSTVTRIIKRLEKKGLIERE 50 (59)
T ss_dssp HHHHHHHHHHHHSSEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHCC----ChhHHHHHHHHHHHCCCEEec
Confidence 34556677777789999999999999 999999999999999999974
No 236
>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=95.42 E-value=0.036 Score=43.46 Aligned_cols=47 Identities=15% Similarity=0.230 Sum_probs=39.6
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChh
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPV 108 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~ 108 (273)
++.|.++||+.+++ ++..++++|..|...|++.... +..|.|.++..
T Consensus 24 ~~~s~~~ia~~~~i----p~~~l~kil~~L~~~glv~s~~-G~~Ggy~l~~~ 70 (135)
T TIGR02010 24 GPVTLADISERQGI----SLSYLEQLFAKLRKAGLVKSVR-GPGGGYQLGRP 70 (135)
T ss_pred CcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCceEEEe-CCCCCEeccCC
Confidence 38999999999999 9999999999999999998643 24456877653
No 237
>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=95.40 E-value=0.03 Score=47.04 Aligned_cols=60 Identities=27% Similarity=0.351 Sum_probs=49.5
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhc
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVS 109 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s 109 (273)
.+..++..|.+.|+.+..+||+.+++ ++..+.+.|..|...|++++... +...|.+|+.+
T Consensus 144 ~~~~IL~~l~~~g~~s~~eia~~l~i----s~stv~r~L~~Le~~GlI~r~~~-r~~~~~lT~~G 203 (203)
T TIGR01884 144 EELKVLEVLKAEGEKSVKNIAKKLGK----SLSTISRHLRELEKKGLVEQKGR-KGKRYSLTKLG 203 (203)
T ss_pred HHHHHHHHHHHcCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEEcC-CccEEEeCCCC
Confidence 45567788877678999999999999 99999999999999999998521 44678888753
No 238
>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]
Probab=95.34 E-value=0.048 Score=44.20 Aligned_cols=86 Identities=19% Similarity=0.327 Sum_probs=62.9
Q ss_pred HHhcchhhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHH-CCCCeEEEeec-hHHHHhCCC-CCCceEEEcccCC--
Q 024046 177 MFNHSTIAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSK-YPQIKAVNFDL-PHVVQDAPS-YAGVEHVGGNMFE-- 251 (273)
Q Consensus 177 m~~~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gD~f~-- 251 (273)
....+++.++.++...+ ++...-|+++|.|+|.+..+++++ .++-..+..+- |+......+ .+.++++.||.|.
T Consensus 29 I~PsSs~lA~~M~s~I~-pesglpVlElGPGTGV~TkaIL~~gv~~~~L~~iE~~~dF~~~L~~~~p~~~ii~gda~~l~ 107 (194)
T COG3963 29 ILPSSSILARKMASVID-PESGLPVLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLNQLYPGVNIINGDAFDLR 107 (194)
T ss_pred ecCCcHHHHHHHHhccC-cccCCeeEEEcCCccHhHHHHHhcCCCccceEEEEeCHHHHHHHHHhCCCccccccchhhHH
Confidence 34455566777778787 888889999999999999999887 45556677765 776655544 4888999999987
Q ss_pred ----CCCC--CCEEEecc
Q 024046 252 ----SVPE--GDAILMKV 263 (273)
Q Consensus 252 ----~~p~--~D~~~l~~ 263 (273)
+++. -|+++..-
T Consensus 108 ~~l~e~~gq~~D~viS~l 125 (194)
T COG3963 108 TTLGEHKGQFFDSVISGL 125 (194)
T ss_pred HHHhhcCCCeeeeEEecc
Confidence 2232 28877653
No 239
>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=95.32 E-value=0.037 Score=36.58 Aligned_cols=44 Identities=20% Similarity=0.416 Sum_probs=40.6
Q ss_pred ChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 48 GVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 48 glfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.|.+.|.+.|..|++|||+.+|+ ++.-++|=|..|...|++.+.
T Consensus 4 ~Il~~l~~~~~~s~~ela~~~~V----S~~TiRRDl~~L~~~g~i~r~ 47 (57)
T PF08220_consen 4 QILELLKEKGKVSVKELAEEFGV----SEMTIRRDLNKLEKQGLIKRT 47 (57)
T ss_pred HHHHHHHHcCCEEHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence 46788888889999999999999 999999999999999999873
No 240
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=95.26 E-value=0.046 Score=34.71 Aligned_cols=43 Identities=28% Similarity=0.431 Sum_probs=38.2
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+++.|.+.++.++.+|++.+++ ++..+.+.|..|...|++...
T Consensus 5 il~~l~~~~~~s~~~l~~~l~~----s~~tv~~~l~~L~~~g~i~~~ 47 (53)
T smart00420 5 ILELLAQQGKVSVEELAELLGV----SEMTIRRDLNKLEEQGLLTRV 47 (53)
T ss_pred HHHHHHHcCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 5666666678999999999999 999999999999999999863
No 241
>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=95.19 E-value=0.088 Score=45.67 Aligned_cols=75 Identities=16% Similarity=0.266 Sum_probs=52.5
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHH-CCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCC-CC-
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSK-YPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFES-VP- 254 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~-~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~-~p- 254 (273)
..|+..++ ..+..+||+.|.|+|.++..|++. .|+-+..-+|. ++-.+.|+++ ++|++..+|.-++ ++
T Consensus 30 ~~I~~~l~-i~pG~~VlEaGtGSG~lt~~l~r~v~p~G~v~t~E~~~~~~~~A~~n~~~~gl~~~v~~~~~Dv~~~g~~~ 108 (247)
T PF08704_consen 30 SYILMRLD-IRPGSRVLEAGTGSGSLTHALARAVGPTGHVYTYEFREDRAEKARKNFERHGLDDNVTVHHRDVCEEGFDE 108 (247)
T ss_dssp HHHHHHTT---TT-EEEEE--TTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHHHTTCCTTEEEEES-GGCG--ST
T ss_pred HHHHHHcC-CCCCCEEEEecCCcHHHHHHHHHHhCCCeEEEccccCHHHHHHHHHHHHHcCCCCCceeEecceecccccc
Confidence 44666666 888899999999999999999975 68888999997 6666666542 6899999999752 43
Q ss_pred ---CC-CEEEe
Q 024046 255 ---EG-DAILM 261 (273)
Q Consensus 255 ---~~-D~~~l 261 (273)
.. |+++|
T Consensus 109 ~~~~~~DavfL 119 (247)
T PF08704_consen 109 ELESDFDAVFL 119 (247)
T ss_dssp T-TTSEEEEEE
T ss_pred cccCcccEEEE
Confidence 22 88886
No 242
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=95.04 E-value=0.067 Score=44.06 Aligned_cols=45 Identities=24% Similarity=0.331 Sum_probs=41.3
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
...|+++|...|++|.++||+.+|+ +...++++|..|...|++..
T Consensus 24 ~~~Vl~~L~~~g~~tdeeLA~~Lgi----~~~~VRk~L~~L~e~gLv~~ 68 (178)
T PRK06266 24 GFEVLKALIKKGEVTDEEIAEQTGI----KLNTVRKILYKLYDARLADY 68 (178)
T ss_pred HhHHHHHHHHcCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEE
Confidence 3448899988889999999999999 99999999999999999984
No 243
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=95.04 E-value=0.058 Score=42.60 Aligned_cols=65 Identities=23% Similarity=0.166 Sum_probs=50.1
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCC---cceecChhchHhh
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGE---RLYALNPVSKYFV 113 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~---~~y~lt~~s~~l~ 113 (273)
.+..++-.|...++.|..+||+.+++ ++..+.++++-|...|++++.....+ -...+|+.+..+.
T Consensus 41 ~q~~vL~~l~~~~~~t~~eLa~~l~i----~~~tvsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~~G~~~~ 108 (144)
T PRK11512 41 AQFKVLCSIRCAACITPVELKKVLSV----DLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAAIC 108 (144)
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEeccCcccCCeeEeEEChhHHHHH
Confidence 34456777776678999999999999 99999999999999999997422122 2467788776554
No 244
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=95.00 E-value=0.072 Score=53.23 Aligned_cols=78 Identities=19% Similarity=0.178 Sum_probs=55.6
Q ss_pred hHHHHHhhcccC-CCcceEEEecCCccHHHHHHHHH------------C------------------------------C
Q 024046 184 AMERILEHYEGF-QNVERLVDVGGGFGVTLSMITSK------------Y------------------------------P 220 (273)
Q Consensus 184 ~~~~il~~~~~~-~~~~~vvDVGGG~G~~~~~l~~~------------~------------------------------P 220 (273)
.+..++.... | .+...++|-.||+|.++++.+.. | +
T Consensus 177 lAaa~l~~a~-w~~~~~~l~DP~CGSGTilIEAa~~~~~~~pg~~r~~f~f~~~~~~~~~~w~~~~~~a~~~~~~~~~~~ 255 (702)
T PRK11783 177 LAAAILLRSG-WPQEGTPLLDPMCGSGTLLIEAAMMAADIAPGLHRERWGFSGWLGHDEALWQELLEEAQERARAGLAEL 255 (702)
T ss_pred HHHHHHHHcC-CCCCCCeEEccCCCccHHHHHHHHHHhcCCCCccccccccccCCCCCHHHHHHHHHHHHHHHhhccccc
Confidence 3445555544 7 45689999999999999988763 1 1
Q ss_pred CCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC-CCC--C--CCEEEec
Q 024046 221 QIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE-SVP--E--GDAILMK 262 (273)
Q Consensus 221 ~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~-~~p--~--~D~~~l~ 262 (273)
..+++++|+ |.+++.|+.+ ++|++..+|+++ +.| . .|+++..
T Consensus 256 ~~~i~G~Did~~av~~A~~N~~~~g~~~~i~~~~~D~~~~~~~~~~~~~d~IvtN 310 (702)
T PRK11783 256 PSKFYGSDIDPRVIQAARKNARRAGVAELITFEVKDVADLKNPLPKGPTGLVISN 310 (702)
T ss_pred CceEEEEECCHHHHHHHHHHHHHcCCCcceEEEeCChhhcccccccCCCCEEEEC
Confidence 236899998 8888877653 679999999987 333 1 2776653
No 245
>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins.; PDB: 3GIW_A 3GO4_A 2QE6_A.
Probab=95.00 E-value=0.11 Score=45.52 Aligned_cols=76 Identities=21% Similarity=0.340 Sum_probs=45.9
Q ss_pred CcceEEEecCCccH--HHH-HHHHHCCCCeEEEeec-hHHHHhCCC----CCC--ceEEEcccCCC-----CCC--C--C
Q 024046 197 NVERLVDVGGGFGV--TLS-MITSKYPQIKAVNFDL-PHVVQDAPS----YAG--VEHVGGNMFES-----VPE--G--D 257 (273)
Q Consensus 197 ~~~~vvDVGGG~G~--~~~-~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~r--i~~~~gD~f~~-----~p~--~--D 257 (273)
+...+||||||.=. ..- ...+..|+.+++=+|. |-|+..++. .++ ..++.+|+..| -|+ + |
T Consensus 68 GIrQFLDlGsGlPT~~nvHevAq~~~P~aRVVYVD~DPvv~ah~ralL~~~~~g~t~~v~aD~r~p~~iL~~p~~~~~lD 147 (267)
T PF04672_consen 68 GIRQFLDLGSGLPTAGNVHEVAQRVAPDARVVYVDNDPVVLAHARALLADNPRGRTAYVQADLRDPEAILAHPEVRGLLD 147 (267)
T ss_dssp ---EEEEET--S--SS-HHHHHHHH-TT-EEEEEESSHHHHHCCHHHHTT-TTSEEEEEE--TT-HHHHHCSHHHHCC--
T ss_pred CcceEEEcccCCCCCCCHhHHHHhhCCCceEEEECCCchHHHHHHhhhcCCCCccEEEEeCCCCCHHHHhcCHHHHhcCC
Confidence 88999999999643 233 3355699999999998 888887764 244 89999999983 232 2 4
Q ss_pred -----EEEecccccccCCCC
Q 024046 258 -----AILMKVGNFENYQSH 272 (273)
Q Consensus 258 -----~~~l~~vLHd~~~~~ 272 (273)
+++|..|||..+|++
T Consensus 148 ~~rPVavll~~vLh~v~D~~ 167 (267)
T PF04672_consen 148 FDRPVAVLLVAVLHFVPDDD 167 (267)
T ss_dssp TTS--EEEECT-GGGS-CGC
T ss_pred CCCCeeeeeeeeeccCCCcc
Confidence 799999999999853
No 246
>COG2384 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=94.98 E-value=0.04 Score=46.55 Aligned_cols=66 Identities=18% Similarity=0.264 Sum_probs=52.8
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCCCCC-C-C-CEEEec
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFESVP-E-G-DAILMK 262 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~~~p-~-~-D~~~l~ 262 (273)
....+.||||-+|.+.+.|.+.+|..+++.-|. |...+.|.. .+||++-.||-|.++- . . |++++.
T Consensus 16 ~~~~iaDIGsDHAYLp~~Lv~~~~~~~~va~eV~~gpl~~a~~~v~~~~l~~~i~vr~~dgl~~l~~~d~~d~ivIA 92 (226)
T COG2384 16 QGARIADIGSDHAYLPIYLVKNNPASTAVAGEVVPGPLESAIRNVKKNNLSERIDVRLGDGLAVLELEDEIDVIVIA 92 (226)
T ss_pred cCCceeeccCchhHhHHHHHhcCCcceEEEeecccCHHHHHHHHHHhcCCcceEEEeccCCccccCccCCcCEEEEe
Confidence 334599999999999999999999999999997 555554432 2899999999998754 3 2 777765
No 247
>COG0357 GidB Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]
Probab=94.98 E-value=0.068 Score=45.33 Aligned_cols=66 Identities=20% Similarity=0.338 Sum_probs=48.3
Q ss_pred cceEEEecCCccHHHHHHHHHCCCCeEEEeec-h---HHHHhCCC---CCCceEEEcccCC--CCCC-CCEEEecc
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-P---HVVQDAPS---YAGVEHVGGNMFE--SVPE-GDAILMKV 263 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p---~v~~~a~~---~~ri~~~~gD~f~--~~p~-~D~~~l~~ 263 (273)
..+++|||.|.|.=++-++=.+|+++++++|. . .-++.+.. .++++++.+..-+ +.+. .|+++.+-
T Consensus 68 ~~~~~DIGSGaGfPGipLAI~~p~~~vtLles~~Kk~~FL~~~~~eL~L~nv~i~~~RaE~~~~~~~~~D~vtsRA 143 (215)
T COG0357 68 AKRVLDIGSGAGFPGIPLAIAFPDLKVTLLESLGKKIAFLREVKKELGLENVEIVHGRAEEFGQEKKQYDVVTSRA 143 (215)
T ss_pred CCEEEEeCCCCCCchhhHHHhccCCcEEEEccCchHHHHHHHHHHHhCCCCeEEehhhHhhcccccccCcEEEeeh
Confidence 68999999999999999999999999999996 2 12222221 3678887777654 2334 68777654
No 248
>KOG3045 consensus Predicted RNA methylase involved in rRNA processing [RNA processing and modification]
Probab=94.98 E-value=0.09 Score=45.60 Aligned_cols=94 Identities=17% Similarity=0.229 Sum_probs=57.9
Q ss_pred chhhhhhcCcchHHHHHHHHHh----cchhhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHH
Q 024046 158 HIFEYASGNPRFNETYHEAMFN----HSTIAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVV 233 (273)
Q Consensus 158 ~~~~~~~~~~~~~~~f~~am~~----~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~ 233 (273)
..+..+..||...+.|+...+. +-....+.|++.+..-++...|-|+|||.+.++. .-+ -++.-|||-.+
T Consensus 137 ~A~~lfkedp~afdlYH~gfr~QV~kWP~nPld~ii~~ik~r~~~~vIaD~GCGEakiA~----~~~-~kV~SfDL~a~- 210 (325)
T KOG3045|consen 137 EAFDLFKEDPTAFDLYHAGFRSQVKKWPENPLDVIIRKIKRRPKNIVIADFGCGEAKIAS----SER-HKVHSFDLVAV- 210 (325)
T ss_pred HHHHHHhcCcHHHHHHHHHHHHHHHhCCCChHHHHHHHHHhCcCceEEEecccchhhhhh----ccc-cceeeeeeecC-
Confidence 3455566777765555554432 2222345666666545577899999999998876 222 24678888221
Q ss_pred HhCCCCCCceEEEcccCC-CCCCC--CEEEeccc
Q 024046 234 QDAPSYAGVEHVGGNMFE-SVPEG--DAILMKVG 264 (273)
Q Consensus 234 ~~a~~~~ri~~~~gD~f~-~~p~~--D~~~l~~v 264 (273)
+-.+++.|+-+ |++.. |+++++-.
T Consensus 211 -------~~~V~~cDm~~vPl~d~svDvaV~CLS 237 (325)
T KOG3045|consen 211 -------NERVIACDMRNVPLEDESVDVAVFCLS 237 (325)
T ss_pred -------CCceeeccccCCcCccCcccEEEeeHh
Confidence 22567889988 66643 87665543
No 249
>PF02475 Met_10: Met-10+ like-protein; InterPro: IPR003402 This entry represents the Trm5 family. Trm5 specifically methylates the N1 position of guanosine-37 in various tRNAs [, , ]. Another members of this family, tRNA wybutosine-synthesizing protein 2 (Tyw2) and its homologues, are S-adenosyl-L-methionine-dependent transferases that act as a component of the wybutosine biosynthesis pathway [, ]. tRNA wybutosine-synthesizing protein 2 was originally thought to be a methyltransferase [].; GO: 0016740 transferase activity; PDB: 3A27_A 2ZZN_B 2YX1_A 2ZZM_A 3AY0_B 3K6R_A 3A26_A 3A25_A.
Probab=94.96 E-value=0.039 Score=46.33 Aligned_cols=68 Identities=24% Similarity=0.286 Sum_probs=48.3
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCCCCCC--CCEEEec
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFESVPE--GDAILMK 262 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~~~p~--~D~~~l~ 262 (273)
..+..+|+|.-||.|.+++.+++..+..+++..|+ |..++..++ .++|..+.+|..+-.+. .|-++|.
T Consensus 99 v~~~e~VlD~faGIG~f~l~~ak~~~~~~V~A~d~Np~a~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~~~~~drvim~ 176 (200)
T PF02475_consen 99 VKPGEVVLDMFAGIGPFSLPIAKHGKAKRVYAVDLNPDAVEYLKENIRLNKVENRIEVINGDAREFLPEGKFDRVIMN 176 (200)
T ss_dssp --TT-EEEETT-TTTTTHHHHHHHT-SSEEEEEES-HHHHHHHHHHHHHTT-TTTEEEEES-GGG---TT-EEEEEE-
T ss_pred CCcceEEEEccCCccHHHHHHhhhcCccEEEEecCCHHHHHHHHHHHHHcCCCCeEEEEcCCHHHhcCccccCEEEEC
Confidence 45678999999999999999999888888999999 787765543 27899999999873333 3877664
No 250
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=94.93 E-value=0.029 Score=51.81 Aligned_cols=64 Identities=13% Similarity=0.024 Sum_probs=49.5
Q ss_pred cceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCCCCC---CCCEEEe
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVP---EGDAILM 261 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p---~~D~~~l 261 (273)
..+|+|++||+|.+++.++++.+-.++++.|. |..++.++.+ +.+++..+|...-++ ..|+|++
T Consensus 58 ~~~vLDl~aGsG~~~l~~a~~~~~~~V~a~Din~~Av~~a~~N~~~N~~~~~~v~~~Da~~~l~~~~~fD~V~l 131 (382)
T PRK04338 58 RESVLDALSASGIRGIRYALETGVEKVTLNDINPDAVELIKKNLELNGLENEKVFNKDANALLHEERKFDVVDI 131 (382)
T ss_pred CCEEEECCCcccHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCceEEEhhhHHHHHhhcCCCCEEEE
Confidence 46899999999999999999988667999998 8888776542 456788888765222 2488776
No 251
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=94.92 E-value=0.045 Score=42.21 Aligned_cols=47 Identities=21% Similarity=0.360 Sum_probs=40.5
Q ss_pred HHhChhHHHH-hCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 45 IQLGVFEIIA-KAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 45 ~elglfd~L~-~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.+..++-+|- ..||.|+++||+.++. +...+.|-|.-|...|++.+.
T Consensus 28 ~Dv~v~~~LL~~~~~~tvdelae~lnr----~rStv~rsl~~L~~~GlV~Re 75 (126)
T COG3355 28 LDVEVYKALLEENGPLTVDELAEILNR----SRSTVYRSLQNLLEAGLVERE 75 (126)
T ss_pred HHHHHHHHHHhhcCCcCHHHHHHHHCc----cHHHHHHHHHHHHHcCCeeee
Confidence 3455666666 4689999999999999 999999999999999999974
No 252
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=94.88 E-value=0.069 Score=42.90 Aligned_cols=57 Identities=19% Similarity=0.257 Sum_probs=48.5
Q ss_pred hHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhh
Q 024046 50 FEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFV 113 (273)
Q Consensus 50 fd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~ 113 (273)
++.+...|+.+..+||+.+++ +++.+..+++-|...|+++.. ..+.+.+|+.+....
T Consensus 16 y~l~~~~~~~~~~diA~~L~V----sp~sVt~ml~rL~~~GlV~~~---~y~gi~LT~~G~~~a 72 (154)
T COG1321 16 YELLEEKGFARTKDIAERLKV----SPPSVTEMLKRLERLGLVEYE---PYGGVTLTEKGREKA 72 (154)
T ss_pred HHHHhccCcccHHHHHHHhCC----CcHHHHHHHHHHHHCCCeEEe---cCCCeEEChhhHHHH
Confidence 334445579999999999999 999999999999999999983 567899999887654
No 253
>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=94.87 E-value=0.07 Score=41.34 Aligned_cols=48 Identities=27% Similarity=0.330 Sum_probs=39.4
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhc
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVS 109 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s 109 (273)
++.|.++||+.+++ ++..++++|+.|...|++.... +..|.|.++...
T Consensus 24 ~~~s~~eia~~~~i----~~~~v~~il~~L~~~gli~~~~-g~~ggy~l~~~~ 71 (132)
T TIGR00738 24 GPVSVKEIAERQGI----SRSYLEKILRTLRRAGLVESVR-GPGGGYRLARPP 71 (132)
T ss_pred CcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEecc-CCCCCccCCCCH
Confidence 38999999999999 9999999999999999998632 134567776543
No 254
>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=94.87 E-value=0.047 Score=45.82 Aligned_cols=69 Identities=20% Similarity=0.220 Sum_probs=50.5
Q ss_pred cCCCcceEEEecCCccHHHHHHHHHCC--CCeEEEeec-hHHHHhCCCC----------------CCceEEEcccCCCCC
Q 024046 194 GFQNVERLVDVGGGFGVTLSMITSKYP--QIKAVNFDL-PHVVQDAPSY----------------AGVEHVGGNMFESVP 254 (273)
Q Consensus 194 ~~~~~~~vvDVGGG~G~~~~~l~~~~P--~l~~~~~Dl-p~v~~~a~~~----------------~ri~~~~gD~f~~~p 254 (273)
.+.+..++||||+|+|-+...++..-- ....+++|+ |++++.+.++ .+++++.||-..-.+
T Consensus 79 ~L~pG~s~LdvGsGSGYLt~~~~~mvg~~g~~~~GIEh~~eLVe~Sk~nl~k~i~~~e~~~~~~~~~l~ivvGDgr~g~~ 158 (237)
T KOG1661|consen 79 HLQPGASFLDVGSGSGYLTACFARMVGATGGNVHGIEHIPELVEYSKKNLDKDITTSESSSKLKRGELSIVVGDGRKGYA 158 (237)
T ss_pred hhccCcceeecCCCccHHHHHHHHHhcCCCccccchhhhHHHHHHHHHHHHhhccCchhhhhhccCceEEEeCCccccCC
Confidence 367789999999999998887775532 222378887 9988866531 678999999988444
Q ss_pred C-C--CEEEec
Q 024046 255 E-G--DAILMK 262 (273)
Q Consensus 255 ~-~--D~~~l~ 262 (273)
+ + |.|++.
T Consensus 159 e~a~YDaIhvG 169 (237)
T KOG1661|consen 159 EQAPYDAIHVG 169 (237)
T ss_pred ccCCcceEEEc
Confidence 3 3 877764
No 255
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=94.82 E-value=0.049 Score=40.63 Aligned_cols=46 Identities=20% Similarity=0.324 Sum_probs=42.3
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
.+..|+.+|...++.|..+||+.+|+ ++..+.+.++.|...|++..
T Consensus 4 ~D~~il~~L~~~~~~~~~~la~~l~~----s~~tv~~~l~~L~~~g~i~~ 49 (108)
T smart00344 4 IDRKILEELQKDARISLAELAKKVGL----SPSTVHNRVKRLEEEGVIKG 49 (108)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeec
Confidence 46778899988789999999999999 99999999999999999984
No 256
>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=94.80 E-value=0.084 Score=39.69 Aligned_cols=67 Identities=15% Similarity=0.227 Sum_probs=50.6
Q ss_pred HHHHhChhHHHH----hCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCc---ceecChhchHhh
Q 024046 43 AAIQLGVFEIIA----KAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGER---LYALNPVSKYFV 113 (273)
Q Consensus 43 ~a~elglfd~L~----~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~---~y~lt~~s~~l~ 113 (273)
+..+..++..|. ..|+.|..+||+.+++ ++..+.++++-|...|++.+.....+. .+.+|+.+..+.
T Consensus 24 s~~q~~vL~~l~~~~~~~~~~t~~eL~~~l~~----~~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~ 97 (109)
T TIGR01889 24 SLEELLILYYLGKLENNEGKLTLKEIIKEILI----KQSALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKI 97 (109)
T ss_pred CHHHHHHHHHHHhhhccCCcCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHH
Confidence 344555666666 4468999999999999 999999999999999999974322222 466788776544
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=94.60 E-value=0.031 Score=52.67 Aligned_cols=74 Identities=18% Similarity=0.099 Sum_probs=48.3
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEe-ec-hHHHHhCCCCCCceEEEccc---CCCCCCC--CEEEecccccccC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNF-DL-PHVVQDAPSYAGVEHVGGNM---FESVPEG--DAILMKVGNFENY 269 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~-Dl-p~v~~~a~~~~ri~~~~gD~---f~~~p~~--D~~~l~~vLHd~~ 269 (273)
..+++||||||.|.|+..+++++=-+=.+.. |- +..++.|.+. +|-.+-+-+ .-|+|.. |++.+++++..|.
T Consensus 117 ~iR~~LDvGcG~aSF~a~l~~r~V~t~s~a~~d~~~~qvqfaleR-Gvpa~~~~~~s~rLPfp~~~fDmvHcsrc~i~W~ 195 (506)
T PF03141_consen 117 GIRTALDVGCGVASFGAYLLERNVTTMSFAPNDEHEAQVQFALER-GVPAMIGVLGSQRLPFPSNAFDMVHCSRCLIPWH 195 (506)
T ss_pred ceEEEEeccceeehhHHHHhhCCceEEEcccccCCchhhhhhhhc-CcchhhhhhccccccCCccchhhhhcccccccch
Confidence 5688999999999999999999532211222 22 3344444432 132232333 2388864 9999999999998
Q ss_pred CC
Q 024046 270 QS 271 (273)
Q Consensus 270 ~~ 271 (273)
+.
T Consensus 196 ~~ 197 (506)
T PF03141_consen 196 PN 197 (506)
T ss_pred hc
Confidence 75
No 258
>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=94.60 E-value=0.055 Score=41.97 Aligned_cols=46 Identities=26% Similarity=0.270 Sum_probs=37.4
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
++.|+.|||+.+++ ++..+.++|+.|...|++.... +..+.|.+..
T Consensus 24 ~~~s~~eia~~l~i----s~~~v~~~l~~L~~~Gli~~~~-g~~ggy~l~~ 69 (130)
T TIGR02944 24 QPYSAAEIAEQTGL----NAPTVSKILKQLSLAGIVTSKR-GVEGGYTLAR 69 (130)
T ss_pred CCccHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEecC-CCCCChhhcC
Confidence 48999999999999 9999999999999999998532 1235565543
No 259
>KOG2730 consensus Methylase [General function prediction only]
Probab=94.45 E-value=0.033 Score=47.09 Aligned_cols=53 Identities=21% Similarity=0.324 Sum_probs=46.1
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE 251 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~ 251 (273)
....|||.-||-|...++++.++|. ++.+|. |.-|..|+.+ +||+|+.||++.
T Consensus 94 ~~~~iidaf~g~gGntiqfa~~~~~--VisIdiDPikIa~AkhNaeiYGI~~rItFI~GD~ld 154 (263)
T KOG2730|consen 94 NAEVIVDAFCGVGGNTIQFALQGPY--VIAIDIDPVKIACARHNAEVYGVPDRITFICGDFLD 154 (263)
T ss_pred CcchhhhhhhcCCchHHHHHHhCCe--EEEEeccHHHHHHHhccceeecCCceeEEEechHHH
Confidence 6678999999999999999999997 678888 7768777653 899999999986
No 260
>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=94.44 E-value=0.1 Score=37.86 Aligned_cols=67 Identities=22% Similarity=0.227 Sum_probs=51.8
Q ss_pred HHHHhChhHHHHhC-C-CCCHHHHHHHhCcCCCCCcchHHHHHHH----------HhcCCce-eccccCCCcceecChhc
Q 024046 43 AAIQLGVFEIIAKA-G-ELSAPEIAAQLQAQNVKAPMMLDRMLRL----------LVSHRVL-ECSVSGGERLYALNPVS 109 (273)
Q Consensus 43 ~a~elglfd~L~~~-g-~~t~~eLA~~~g~~~~~~~~~l~rlL~~----------L~~~gll-~~~~~~~~~~y~lt~~s 109 (273)
.=++..|+..|... + +.++.|||..++. ++..+...|+- |+.+|++ ++....+...|++|+.+
T Consensus 8 S~~R~~vl~~L~~~yp~~~~~~eIar~v~~----~~snV~GaL~G~g~rY~~e~SLv~lGLV~~~~~~~g~k~Y~lT~~G 83 (90)
T PF07381_consen 8 SKVRKKVLEYLCSIYPEPAYPSEIARSVGS----DYSNVLGALRGDGKRYNKEDSLVGLGLVEEEEEKGGFKYYRLTEKG 83 (90)
T ss_pred HHHHHHHHHHHHHcCCCcCCHHHHHHHHCC----CHHHHHHHHhcCCCCcCcchhHHHcCCeeEeeecCCeeEEEeChhh
Confidence 45778889999886 3 8999999999999 99988888765 8899999 43321233579999988
Q ss_pred hHhh
Q 024046 110 KYFV 113 (273)
Q Consensus 110 ~~l~ 113 (273)
..++
T Consensus 84 ~~~~ 87 (90)
T PF07381_consen 84 KRIA 87 (90)
T ss_pred hhHH
Confidence 6553
No 261
>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=94.44 E-value=0.081 Score=36.20 Aligned_cols=54 Identities=17% Similarity=0.268 Sum_probs=43.3
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
++.++..|.+ ++.+..+||+.+|+ +...+.+.++.|...|+.... ....|.+.+
T Consensus 2 ~~~il~~L~~-~~~~~~eLa~~l~v----S~~tv~~~l~~L~~~g~~i~~---~~~g~~l~~ 55 (69)
T TIGR00122 2 PLRLLALLAD-NPFSGEKLGEALGM----SRTAVNKHIQTLREWGVDVLT---VGKGYRLPP 55 (69)
T ss_pred hHHHHHHHHc-CCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe---cCCceEecC
Confidence 3567788886 68999999999999 999999999999999996542 234565544
No 262
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=94.44 E-value=0.11 Score=41.57 Aligned_cols=61 Identities=18% Similarity=0.155 Sum_probs=46.4
Q ss_pred HHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChh
Q 024046 39 MATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPV 108 (273)
Q Consensus 39 ~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~ 108 (273)
.|+++.+.|-. ...++.|.++||+..++ ++..|+++|..|...|+++-..+ ..|.|+++..
T Consensus 9 YAlr~L~~LA~----~~~~~~s~~eIA~~~~i----s~~~L~kIl~~L~~aGlv~S~rG-~~GGy~La~~ 69 (153)
T PRK11920 9 YAIRMLMYCAA----NDGKLSRIPEIARAYGV----SELFLFKILQPLVEAGLVETVRG-RNGGVRLGRP 69 (153)
T ss_pred HHHHHHHHHHh----CCCCcCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeecC-CCCCeeecCC
Confidence 45555554432 12237899999999999 99999999999999999997653 4567888654
No 263
>COG4076 Predicted RNA methylase [General function prediction only]
Probab=94.34 E-value=0.081 Score=43.71 Aligned_cols=61 Identities=16% Similarity=0.304 Sum_probs=48.5
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC-CCCCCCEEEe
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE-SVPEGDAILM 261 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~-~~p~~D~~~l 261 (273)
.++.|+|.|+|.++.-.+++ --+++.+++ |.....|.++ .+++++.||..+ ++..+|++++
T Consensus 34 d~~~DLGaGsGiLs~~Aa~~--A~rViAiE~dPk~a~~a~eN~~v~g~~n~evv~gDA~~y~fe~ADvvic 102 (252)
T COG4076 34 DTFADLGAGSGILSVVAAHA--AERVIAIEKDPKRARLAEENLHVPGDVNWEVVVGDARDYDFENADVVIC 102 (252)
T ss_pred hceeeccCCcchHHHHHHhh--hceEEEEecCcHHHHHhhhcCCCCCCcceEEEecccccccccccceeHH
Confidence 57899999999998877776 346888887 7777777653 789999999998 6756688765
No 264
>KOG3191 consensus Predicted N6-DNA-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=94.33 E-value=0.11 Score=42.78 Aligned_cols=65 Identities=20% Similarity=0.394 Sum_probs=48.5
Q ss_pred cceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHHhCCC----C-CCceEEEcccCCCCC-CC-CEEEec
Q 024046 198 VERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-PHVVQDAPS----Y-AGVEHVGGNMFESVP-EG-DAILMK 262 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~----~-~ri~~~~gD~f~~~p-~~-D~~~l~ 262 (273)
...+++||||+|..+..|.+.. |+.....-|+ |..++...+ + -++..+..|++..+- +. |+.+++
T Consensus 44 ~~i~lEIG~GSGvvstfL~~~i~~~~~~latDiNp~A~~~Tl~TA~~n~~~~~~V~tdl~~~l~~~~VDvLvfN 117 (209)
T KOG3191|consen 44 PEICLEIGCGSGVVSTFLASVIGPQALYLATDINPEALEATLETARCNRVHIDVVRTDLLSGLRNESVDVLVFN 117 (209)
T ss_pred ceeEEEecCCcchHHHHHHHhcCCCceEEEecCCHHHHHHHHHHHHhcCCccceeehhHHhhhccCCccEEEEC
Confidence 7889999999999888877764 6677788898 777665332 2 457889999998543 34 887765
No 265
>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=94.31 E-value=0.067 Score=43.19 Aligned_cols=44 Identities=18% Similarity=0.138 Sum_probs=40.2
Q ss_pred hChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 47 LGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 47 lglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
..|+++|...|.+|-+|||+.+|+ +...++++|..|...|++..
T Consensus 17 v~Vl~aL~~~~~~tdEeLa~~Lgi----~~~~VRk~L~~L~e~~Lv~~ 60 (158)
T TIGR00373 17 GLVLFSLGIKGEFTDEEISLELGI----KLNEVRKALYALYDAGLADY 60 (158)
T ss_pred HHHHHHHhccCCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCcee
Confidence 457888887789999999999999 99999999999999999964
No 266
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=94.28 E-value=0.069 Score=42.73 Aligned_cols=47 Identities=21% Similarity=0.268 Sum_probs=40.8
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVS 109 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s 109 (273)
+.|+++||+..++ ++..|.++|..|...|+++-..+ ..|.|++..-.
T Consensus 25 ~~s~~~IA~~~~i----s~~~L~kil~~L~kaGlV~S~rG-~~GGy~Lar~~ 71 (150)
T COG1959 25 PVSSAEIAERQGI----SPSYLEKILSKLRKAGLVKSVRG-KGGGYRLARPP 71 (150)
T ss_pred cccHHHHHHHhCc----CHHHHHHHHHHHHHcCCEEeecC-CCCCccCCCCh
Confidence 7899999999999 99999999999999999997642 45778887644
No 267
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=94.20 E-value=0.12 Score=45.69 Aligned_cols=66 Identities=21% Similarity=0.247 Sum_probs=56.7
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCe-EEEeec-hHHHHhCCCC-----CCceEEEcccCC
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIK-AVNFDL-PHVVQDAPSY-----AGVEHVGGNMFE 251 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~ 251 (273)
..++++.+. ..+....||.-=|.|.++..+++++|+.. .+++|. |++++.|++. +|++++.++|-.
T Consensus 12 l~E~i~~L~-~~~~giyiD~TlG~GGHS~~iL~~l~~~~~li~~DrD~~Ai~~a~~~l~~~~~r~~~v~~~F~~ 84 (314)
T COG0275 12 LNEVVELLA-PKPDGIYIDGTLGAGGHSRAILEKLPDLGRLIGIDRDPQAIAIAKERLKEFDGRVTLVHGNFAN 84 (314)
T ss_pred HHHHHHhcc-cCCCcEEEEecCCCcHhHHHHHHhCCCCCeEEEEcCCHHHHHHHHHHhhccCCcEEEEeCcHHH
Confidence 456677776 56679999999999999999999999877 899998 9999988763 799999999865
No 268
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=94.18 E-value=0.15 Score=37.15 Aligned_cols=47 Identities=26% Similarity=0.265 Sum_probs=43.3
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
..+.|+..|...||-.+.-+|..+++ +...+...++-|..+|++++.
T Consensus 8 l~~~IL~hl~~~~~Dy~k~ia~~l~~----~~~~v~~~l~~Le~~GLler~ 54 (92)
T PF10007_consen 8 LDLKILQHLKKAGPDYAKSIARRLKI----PLEEVREALEKLEEMGLLERV 54 (92)
T ss_pred hHHHHHHHHHHHCCCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe
Confidence 45678889988899999999999999 999999999999999999985
No 269
>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=94.17 E-value=0.13 Score=46.52 Aligned_cols=72 Identities=15% Similarity=0.207 Sum_probs=50.2
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------------C----CceEEEcccCCC-----CC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------------A----GVEHVGGNMFES-----VP 254 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------------~----ri~~~~gD~f~~-----~p 254 (273)
+..+|||+|||.|.-+....+..+. ..+++|+ ++.++.|+.+ . ...++.+|-|.. ++
T Consensus 62 ~~~~VLDl~CGkGGDL~Kw~~~~i~-~~vg~Dis~~si~ea~~Ry~~~~~~~~~~~~~~~f~a~f~~~D~f~~~l~~~~~ 140 (331)
T PF03291_consen 62 PGLTVLDLCCGKGGDLQKWQKAKIK-HYVGIDISEESIEEARERYKQLKKRNNSKQYRFDFIAEFIAADCFSESLREKLP 140 (331)
T ss_dssp TT-EEEEET-TTTTTHHHHHHTT-S-EEEEEES-HHHHHHHHHHHHHHHTSTT-HTSEECCEEEEEESTTCCSHHHCTSS
T ss_pred CCCeEEEecCCCchhHHHHHhcCCC-EEEEEeCCHHHHHHHHHHHHHhccccccccccccchhheeccccccchhhhhcc
Confidence 6789999999999999999888554 4799999 5567666531 1 246788888861 22
Q ss_pred -C--C-CEEEecccccccC
Q 024046 255 -E--G-DAILMKVGNFENY 269 (273)
Q Consensus 255 -~--~-D~~~l~~vLHd~~ 269 (273)
. . |+|-+--.||.--
T Consensus 141 ~~~~~FDvVScQFalHY~F 159 (331)
T PF03291_consen 141 PRSRKFDVVSCQFALHYAF 159 (331)
T ss_dssp STTS-EEEEEEES-GGGGG
T ss_pred ccCCCcceeehHHHHHHhc
Confidence 2 2 9999999999753
No 270
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=94.15 E-value=0.13 Score=39.43 Aligned_cols=49 Identities=20% Similarity=0.335 Sum_probs=45.0
Q ss_pred HHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 42 QAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 42 ~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
+..+...|.+.+.++|..|+.+++..+|+ +-..++++++.|++.|-|..
T Consensus 10 r~eLk~rIvElVRe~GRiTi~ql~~~TGa----sR~Tvk~~lreLVa~G~l~~ 58 (127)
T PF06163_consen 10 REELKARIVELVREHGRITIKQLVAKTGA----SRNTVKRYLRELVARGDLYR 58 (127)
T ss_pred HHHHHHHHHHHHHHcCCccHHHHHHHHCC----CHHHHHHHHHHHHHcCCeEe
Confidence 45567789999999999999999999999 99999999999999999986
No 271
>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=94.09 E-value=0.13 Score=35.07 Aligned_cols=59 Identities=15% Similarity=0.220 Sum_probs=44.5
Q ss_pred hhHHHHhCC-CCCHHHHHHHhCcCC-CCCcchHHHHHHHHhcCCceeccccCCCcceecChhch
Q 024046 49 VFEIIAKAG-ELSAPEIAAQLQAQN-VKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 49 lfd~L~~~g-~~t~~eLA~~~g~~~-~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
|+++|.+.+ |++..+|++.+..+. ..++..++|.|+.|...|++... +.+.+.+|+.+.
T Consensus 3 IL~~L~~~~~P~g~~~l~~~L~~~g~~~se~avRrrLr~me~~Glt~~~---g~~G~~iT~~G~ 63 (66)
T PF08461_consen 3 ILRILAESDKPLGRKQLAEELKLRGEELSEEAVRRRLRAMERDGLTRKV---GRQGRIITEKGL 63 (66)
T ss_pred HHHHHHHcCCCCCHHHHHHHHHhcChhhhHHHHHHHHHHHHHCCCcccc---CCcccccCHHHH
Confidence 567787765 999999999987521 12468999999999999988753 344567888764
No 272
>KOG1331 consensus Predicted methyltransferase [General function prediction only]
Probab=93.97 E-value=0.037 Score=48.51 Aligned_cols=73 Identities=21% Similarity=0.137 Sum_probs=56.0
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCceEEEcccCC-CCCC--CCEEEecccccccCC
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVEHVGGNMFE-SVPE--GDAILMKVGNFENYQ 270 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gD~f~-~~p~--~D~~~l~~vLHd~~~ 270 (273)
.+....++|+|||.|.++.. +|.+..++.|+ -..+..++..+.......|..+ |.++ .|..+-..++|.++.
T Consensus 43 ~~~gsv~~d~gCGngky~~~----~p~~~~ig~D~c~~l~~~ak~~~~~~~~~ad~l~~p~~~~s~d~~lsiavihhlsT 118 (293)
T KOG1331|consen 43 QPTGSVGLDVGCGNGKYLGV----NPLCLIIGCDLCTGLLGGAKRSGGDNVCRADALKLPFREESFDAALSIAVIHHLST 118 (293)
T ss_pred cCCcceeeecccCCcccCcC----CCcceeeecchhhhhccccccCCCceeehhhhhcCCCCCCccccchhhhhhhhhhh
Confidence 33478899999999997654 49999999999 4455556544444678889988 6664 399999999999875
Q ss_pred C
Q 024046 271 S 271 (273)
Q Consensus 271 ~ 271 (273)
.
T Consensus 119 ~ 119 (293)
T KOG1331|consen 119 R 119 (293)
T ss_pred H
Confidence 4
No 273
>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=93.78 E-value=0.078 Score=34.52 Aligned_cols=43 Identities=23% Similarity=0.317 Sum_probs=35.5
Q ss_pred HHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHH
Q 024046 37 LPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLL 86 (273)
Q Consensus 37 ~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L 86 (273)
.-.+|.+|.++|-||.=. ..|+.|||+.+|+ ++..+...||-.
T Consensus 5 Q~e~L~~A~~~GYfd~PR---~~tl~elA~~lgi----s~st~~~~LRra 47 (53)
T PF04967_consen 5 QREILKAAYELGYFDVPR---RITLEELAEELGI----SKSTVSEHLRRA 47 (53)
T ss_pred HHHHHHHHHHcCCCCCCC---cCCHHHHHHHhCC----CHHHHHHHHHHH
Confidence 346899999999997543 5899999999999 888887777754
No 274
>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=93.78 E-value=0.11 Score=35.30 Aligned_cols=38 Identities=21% Similarity=0.275 Sum_probs=30.9
Q ss_pred hCC-CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 55 KAG-ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 55 ~~g-~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+.| |=|+.|||+.+|++ ++..+.+.|+.|...|++...
T Consensus 21 ~~G~~Pt~rEIa~~~g~~---S~~tv~~~L~~Le~kG~I~r~ 59 (65)
T PF01726_consen 21 ENGYPPTVREIAEALGLK---STSTVQRHLKALERKGYIRRD 59 (65)
T ss_dssp HHSS---HHHHHHHHTSS---SHHHHHHHHHHHHHTTSEEEG
T ss_pred HcCCCCCHHHHHHHhCCC---ChHHHHHHHHHHHHCcCccCC
Confidence 346 77999999999992 489999999999999999974
No 275
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=93.71 E-value=0.065 Score=39.18 Aligned_cols=62 Identities=18% Similarity=0.345 Sum_probs=48.0
Q ss_pred hhHHHH--hCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhc
Q 024046 49 VFEIIA--KAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVS 114 (273)
Q Consensus 49 lfd~L~--~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~ 114 (273)
+||.|. ..|+....-|.-.+++ +-......++.|+..|++.....++...|.+|+.+..|+.
T Consensus 20 i~dIL~~~~~~~~~~Tri~y~aNl----ny~~~~~yi~~L~~~Gli~~~~~~~~~~y~lT~KG~~fle 83 (95)
T COG3432 20 IFDILKAISEGGIGITRIIYGANL----NYKRAQKYIEMLVEKGLIIKQDNGRRKVYELTEKGKRFLE 83 (95)
T ss_pred HHHHHHHhcCCCCCceeeeeecCc----CHHHHHHHHHHHHhCCCEEeccCCccceEEEChhHHHHHH
Confidence 345555 3468889999999999 9999999999999999777642212237999999987753
No 276
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=93.70 E-value=0.15 Score=43.33 Aligned_cols=59 Identities=12% Similarity=0.166 Sum_probs=47.6
Q ss_pred HHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhh
Q 024046 51 EIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFV 113 (273)
Q Consensus 51 d~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~ 113 (273)
.++.+....|..+||+.+++ ++..+.|.|+-|...|++++....+...+.+|+.+..+.
T Consensus 14 g~l~~~~~IS~~eLA~~L~i----S~~Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTekG~~ll 72 (217)
T PRK14165 14 GAVNNTVKISSSEFANHTGT----SSKTAARILKQLEDEGYITRTIVPRGQLITITEKGLDVL 72 (217)
T ss_pred hccCCCCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEEEcCCceEEEECHHHHHHH
Confidence 34544346899999999999 999999999999999999875322456789999887554
No 277
>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=93.55 E-value=0.1 Score=41.09 Aligned_cols=46 Identities=15% Similarity=0.206 Sum_probs=39.3
Q ss_pred hCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCc--ceecC
Q 024046 55 KAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGER--LYALN 106 (273)
Q Consensus 55 ~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~--~y~lt 106 (273)
..|++|.+|||...|+ +.+.+..-|.++.+.|-+.+.. .+| +|.++
T Consensus 3 q~Ga~T~eELA~~FGv----ttRkvaStLa~~ta~Grl~Rv~--q~gkfRy~iP 50 (155)
T PF07789_consen 3 QEGAKTAEELAGKFGV----TTRKVASTLAMVTATGRLIRVN--QNGKFRYCIP 50 (155)
T ss_pred ccCcccHHHHHHHhCc----chhhhHHHHHHHHhcceeEEec--CCCceEEeCC
Confidence 4589999999999999 9999999999999999999874 444 45553
No 278
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=93.48 E-value=0.24 Score=41.63 Aligned_cols=69 Identities=19% Similarity=0.243 Sum_probs=52.4
Q ss_pred hcchhhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCC-CeEEEeechHHHHhCCCCCCceEEEcccCC
Q 024046 179 NHSTIAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQ-IKAVNFDLPHVVQDAPSYAGVEHVGGNMFE 251 (273)
Q Consensus 179 ~~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~~~Dlp~v~~~a~~~~ri~~~~gD~f~ 251 (273)
+.+.+....+.+.+..+++...|+|+|+-.|..+-.+++.-.. .+++++|+-.+- ..++|.++.+||+.
T Consensus 27 SRAa~KL~el~~k~~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ivavDi~p~~----~~~~V~~iq~d~~~ 96 (205)
T COG0293 27 SRAAYKLLELNEKFKLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDILPMK----PIPGVIFLQGDITD 96 (205)
T ss_pred chHHHHHHHHHHhcCeecCCCEEEEcCCCCCcHHHHHHHHhCCCCcEEEEECcccc----cCCCceEEeeeccC
Confidence 3444445567777766888999999999999999988777654 457999984432 24569999999987
No 279
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=93.29 E-value=0.19 Score=35.38 Aligned_cols=43 Identities=26% Similarity=0.316 Sum_probs=39.6
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
|=|+|...|..++.+||..++. +++.++.+|..++..|-+++.
T Consensus 7 lRd~l~~~gr~s~~~Ls~~~~~----p~~~VeaMLe~l~~kGkverv 49 (78)
T PRK15431 7 VRDLLALRGRMEAAQISQTLNT----PQPMINAMLQQLESMGKAVRI 49 (78)
T ss_pred HHHHHHHcCcccHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEee
Confidence 4478888889999999999999 999999999999999999974
No 280
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=93.27 E-value=0.15 Score=40.11 Aligned_cols=61 Identities=10% Similarity=0.070 Sum_probs=44.4
Q ss_pred HHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 39 MATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 39 ~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
.|+++.+.++.+ ....+.+.++||+..|+ ++..++++|..|...|+++...+ .+|.|.+..
T Consensus 9 YAl~~~i~la~~---~~g~~~s~~~ia~~~~i----s~~~vrk~l~~L~~~Glv~s~~G-~~GG~~l~~ 69 (141)
T PRK11014 9 YGLRALIYMASL---PEGRMTSISEVTEVYGV----SRNHMVKIINQLSRAGYVTAVRG-KNGGIRLGK 69 (141)
T ss_pred HHHHHHHHHhcC---CCCCccCHHHHHHHHCc----CHHHHHHHHHHHHhCCEEEEecC-CCCCeeecC
Confidence 344454444432 22127899999999999 99999999999999999997542 345676654
No 281
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=93.22 E-value=0.18 Score=36.59 Aligned_cols=46 Identities=24% Similarity=0.330 Sum_probs=39.8
Q ss_pred HHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhh
Q 024046 61 APEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFV 113 (273)
Q Consensus 61 ~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~ 113 (273)
+.+||+.+++ ++..+.+.++-|...|++... ....|.+|+.+..+.
T Consensus 2 ~~ela~~l~i----s~stvs~~l~~L~~~glI~r~---~~~~~~lT~~g~~~~ 47 (96)
T smart00529 2 TSEIAERLNV----SPPTVTQMLKKLEKDGLVEYE---PYRGITLTEKGRRLA 47 (96)
T ss_pred HHHHHHHhCC----ChHHHHHHHHHHHHCCCEEEc---CCCceEechhHHHHH
Confidence 5799999999 999999999999999999983 445799999887654
No 282
>KOG4300 consensus Predicted methyltransferase [General function prediction only]
Probab=93.15 E-value=0.21 Score=41.93 Aligned_cols=73 Identities=16% Similarity=0.160 Sum_probs=49.2
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC------CCCce-EEEcccCC-C-CCCC--CEEEeccc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS------YAGVE-HVGGNMFE-S-VPEG--DAILMKVG 264 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~-~~~gD~f~-~-~p~~--D~~~l~~v 264 (273)
+...||+||||+|..-. ...--|..++|.+|- |.+-+.+.+ ...+. |+.++--+ + ++.+ |+|+..-+
T Consensus 76 ~K~~vLEvgcGtG~Nfk-fy~~~p~~svt~lDpn~~mee~~~ks~~E~k~~~~~~fvva~ge~l~~l~d~s~DtVV~Tlv 154 (252)
T KOG4300|consen 76 GKGDVLEVGCGTGANFK-FYPWKPINSVTCLDPNEKMEEIADKSAAEKKPLQVERFVVADGENLPQLADGSYDTVVCTLV 154 (252)
T ss_pred CccceEEecccCCCCcc-cccCCCCceEEEeCCcHHHHHHHHHHHhhccCcceEEEEeechhcCcccccCCeeeEEEEEE
Confidence 45678999999998532 223335677899996 666554432 25566 88888776 3 5555 99998888
Q ss_pred ccccCC
Q 024046 265 NFENYQ 270 (273)
Q Consensus 265 LHd~~~ 270 (273)
|.-..|
T Consensus 155 LCSve~ 160 (252)
T KOG4300|consen 155 LCSVED 160 (252)
T ss_pred EeccCC
Confidence 765544
No 283
>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=92.86 E-value=0.2 Score=33.43 Aligned_cols=38 Identities=24% Similarity=0.445 Sum_probs=33.4
Q ss_pred HhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 54 AKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 54 ~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.+.++.+..+||+.+|+ ++..+..+++-|...|+++..
T Consensus 18 ~~~~~v~~~~iA~~L~v----s~~tvt~ml~~L~~~GlV~~~ 55 (60)
T PF01325_consen 18 EEGGPVRTKDIAERLGV----SPPTVTEMLKRLAEKGLVEYE 55 (60)
T ss_dssp HCTSSBBHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred cCCCCccHHHHHHHHCC----ChHHHHHHHHHHHHCCCEEec
Confidence 34359999999999999 999999999999999999963
No 284
>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=92.85 E-value=0.21 Score=45.08 Aligned_cols=84 Identities=11% Similarity=0.125 Sum_probs=56.2
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCC----CCeEEEeec-hHHHHhCC------CCCCceE--EEcccCCC
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYP----QIKAVNFDL-PHVVQDAP------SYAGVEH--VGGNMFES 252 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P----~l~~~~~Dl-p~v~~~a~------~~~ri~~--~~gD~f~~ 252 (273)
+.|.+.+ +....|||+|||+|.=...|+++.. ..+.+.+|+ .+.++.+. ..+.|++ +.|||..+
T Consensus 68 ~~Ia~~i---~~~~~lIELGsG~~~Kt~~LL~aL~~~~~~~~Y~plDIS~~~L~~a~~~L~~~~~p~l~v~~l~gdy~~~ 144 (319)
T TIGR03439 68 SDIAASI---PSGSMLVELGSGNLRKVGILLEALERQKKSVDYYALDVSRSELQRTLAELPLGNFSHVRCAGLLGTYDDG 144 (319)
T ss_pred HHHHHhc---CCCCEEEEECCCchHHHHHHHHHHHhcCCCceEEEEECCHHHHHHHHHhhhhccCCCeEEEEEEecHHHH
Confidence 4455554 3456899999999997776666553 467899998 34444332 2366666 78999763
Q ss_pred ---CC-----C-C-CEEEecccccccCCCC
Q 024046 253 ---VP-----E-G-DAILMKVGNFENYQSH 272 (273)
Q Consensus 253 ---~p-----~-~-D~~~l~~vLHd~~~~~ 272 (273)
+| . . -++++.+.+.++++++
T Consensus 145 l~~l~~~~~~~~~r~~~flGSsiGNf~~~e 174 (319)
T TIGR03439 145 LAWLKRPENRSRPTTILWLGSSIGNFSRPE 174 (319)
T ss_pred HhhcccccccCCccEEEEeCccccCCCHHH
Confidence 22 2 2 5677778999988764
No 285
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=92.74 E-value=0.17 Score=48.39 Aligned_cols=69 Identities=17% Similarity=0.210 Sum_probs=57.0
Q ss_pred HHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhcCCC
Q 024046 44 AIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVSNKD 117 (273)
Q Consensus 44 a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~~~~ 117 (273)
..+..++..|...++.|..+||+.+++ ++..+.++++-|.+.|+++... .....|.+|+.++.++.+..
T Consensus 6 ~~e~~vL~~L~~~~~~s~~eLA~~l~l----~~~tVt~~i~~Le~kGlV~~~~-~~~~~i~LTeeG~~~~~~g~ 74 (489)
T PRK04172 6 PNEKKVLKALKELKEATLEELAEKLGL----PPEAVMRAAEWLEEKGLVKVEE-RVEEVYVLTEEGKKYAEEGL 74 (489)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHhCc----CHHHHHHHHHHHHhCCCEEEEe-eeEEEEEECHHHHHHHHhcC
Confidence 345667788877679999999999999 9999999999999999999743 12357999999987776643
No 286
>PHA02943 hypothetical protein; Provisional
Probab=92.71 E-value=0.26 Score=39.13 Aligned_cols=43 Identities=16% Similarity=0.183 Sum_probs=38.8
Q ss_pred ChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 48 GVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 48 glfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.|++.| ..|.+|..+||+.+|+ +-...+-.|..|...|.+.+.
T Consensus 15 eILE~L-k~G~~TtseIAkaLGl----S~~qa~~~LyvLErEG~VkrV 57 (165)
T PHA02943 15 KTLRLL-ADGCKTTSRIANKLGV----SHSMARNALYQLAKEGMVLKV 57 (165)
T ss_pred HHHHHH-hcCCccHHHHHHHHCC----CHHHHHHHHHHHHHcCceEEE
Confidence 477788 4489999999999999 999999999999999999985
No 287
>PRK06474 hypothetical protein; Provisional
Probab=92.67 E-value=0.21 Score=41.17 Aligned_cols=69 Identities=17% Similarity=0.299 Sum_probs=54.0
Q ss_pred HHHHHHHHHhChhHHHHhCC-CCCHHHHHHHh-CcCCCCCcchHHHHHHHHhcCCceeccccC-----CCcceecChhch
Q 024046 38 PMATQAAIQLGVFEIIAKAG-ELSAPEIAAQL-QAQNVKAPMMLDRMLRLLVSHRVLECSVSG-----GERLYALNPVSK 110 (273)
Q Consensus 38 ~~aL~~a~elglfd~L~~~g-~~t~~eLA~~~-g~~~~~~~~~l~rlL~~L~~~gll~~~~~~-----~~~~y~lt~~s~ 110 (273)
..+|.-..++.|++.|...+ +.|+.+|++.+ ++ +..-+.|.|+.|...|+++..... ....|++++.+-
T Consensus 5 ~~~La~p~R~~Il~~L~~~~~~~ta~el~~~l~~i----s~aTvYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~~~~~~ 80 (178)
T PRK06474 5 AEILMHPVRMKICQVLMRNKEGLTPLELVKILKDV----PQATLYRHLQTMVDSGILHVVKEKKVRSVSEKYYAINEEDA 80 (178)
T ss_pred HHhhCCHHHHHHHHHHHhCCCCCCHHHHHHHhcCC----CHHHHHHHHHHHHHCCCEEEeecccccCceeEEEEecccee
Confidence 45667778999999998865 49999999999 57 888999999999999999974311 113577877653
No 288
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=92.63 E-value=0.25 Score=42.85 Aligned_cols=62 Identities=21% Similarity=0.245 Sum_probs=50.7
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHh
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYF 112 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l 112 (273)
|..++-+|-..|+.|+.|||+.+|+ +..++..+|+-|...|+++... +.+..|+.-+-...+
T Consensus 18 Ea~vY~aLl~~g~~tA~eis~~sgv----P~~kvY~vl~sLe~kG~v~~~~-g~P~~y~av~p~~~i 79 (247)
T COG1378 18 EAKVYLALLCLGEATAKEISEASGV----PRPKVYDVLRSLEKKGLVEVIE-GRPKKYRAVPPEELI 79 (247)
T ss_pred HHHHHHHHHHhCCccHHHHHHHcCC----CchhHHHHHHHHHHCCCEEeeC-CCCceEEeCCHHHHH
Confidence 4445666666689999999999999 9999999999999999999753 366788887765543
No 289
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=92.54 E-value=0.22 Score=39.87 Aligned_cols=47 Identities=13% Similarity=0.261 Sum_probs=43.4
Q ss_pred HHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 44 AIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 44 a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
..+..|+++|..+|..|..+||+.+|+ ++..+.+=++-|...|++..
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~lgl----S~~tV~~Ri~rL~~~GvI~~ 55 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQFGV----SPGTIHVRVEKMKQAGIITG 55 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeee
Confidence 367789999999889999999999999 99999999999999999984
No 290
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=92.48 E-value=0.36 Score=37.94 Aligned_cols=61 Identities=15% Similarity=0.154 Sum_probs=47.2
Q ss_pred hhHHHHhCC-CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCC---cceecChhchHhh
Q 024046 49 VFEIIAKAG-ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGE---RLYALNPVSKYFV 113 (273)
Q Consensus 49 lfd~L~~~g-~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~---~~y~lt~~s~~l~ 113 (273)
++..|...+ +.|..+||+.+++ ++..+.++++-|...|++++.....+ -...+|+.+..+.
T Consensus 36 vL~~l~~~~~~~t~~eLa~~l~~----~~~tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~ 100 (144)
T PRK03573 36 TLHNIHQLPPEQSQIQLAKAIGI----EQPSLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLI 100 (144)
T ss_pred HHHHHHHcCCCCCHHHHHHHhCC----ChhhHHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHHHHHH
Confidence 566666543 6899999999999 99999999999999999997421111 2577888887654
No 291
>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=92.38 E-value=0.052 Score=49.00 Aligned_cols=70 Identities=23% Similarity=0.337 Sum_probs=45.6
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCe-EEEeec-hHH---HHhCCCC-------CCceEEEcccCCCCCCCCEEEeccc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIK-AVNFDL-PHV---VQDAPSY-------AGVEHVGGNMFESVPEGDAILMKVG 264 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~~~Dl-p~v---~~~a~~~-------~ri~~~~gD~f~~~p~~D~~~l~~v 264 (273)
.+++|||||.|.|..+.++-.-+|+++ +++++. |.+ +.....+ -|-+-+.-|-. ++|.+|.|.+.-+
T Consensus 113 apqsiLDvG~GPgtgl~A~n~i~Pdl~sa~ile~sp~lrkV~~tl~~nv~t~~td~r~s~vt~dRl-~lp~ad~ytl~i~ 191 (484)
T COG5459 113 APQSILDVGAGPGTGLWALNDIWPDLKSAVILEASPALRKVGDTLAENVSTEKTDWRASDVTEDRL-SLPAADLYTLAIV 191 (484)
T ss_pred CcchhhccCCCCchhhhhhcccCCCchhhhhhccCHHHHHHHHHHHhhcccccCCCCCCccchhcc-CCCccceeehhhh
Confidence 357799999999999999999999998 577776 443 2222211 22333333311 5777787777666
Q ss_pred ccc
Q 024046 265 NFE 267 (273)
Q Consensus 265 LHd 267 (273)
+|.
T Consensus 192 ~~e 194 (484)
T COG5459 192 LDE 194 (484)
T ss_pred hhh
Confidence 554
No 292
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=92.36 E-value=0.21 Score=40.50 Aligned_cols=48 Identities=17% Similarity=0.259 Sum_probs=44.3
Q ss_pred HHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 43 AAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 43 ~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
...+..|+.+|.++|..|..+||+++|+ ++..+.+=++-|...|++..
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lgl----S~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVGL----SPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEE
Confidence 4468889999999899999999999999 99999999999999999984
No 293
>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=92.16 E-value=0.44 Score=31.55 Aligned_cols=32 Identities=25% Similarity=0.276 Sum_probs=29.9
Q ss_pred CCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 59 LSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 59 ~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
.|..+||+.+++ +...+.+.|..|...|+++.
T Consensus 26 ~~~~~la~~~~i----s~~~v~~~l~~L~~~G~i~~ 57 (66)
T cd07377 26 PSERELAEELGV----SRTTVREALRELEAEGLVER 57 (66)
T ss_pred CCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEe
Confidence 359999999999 99999999999999999986
No 294
>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=92.15 E-value=0.45 Score=41.40 Aligned_cols=71 Identities=13% Similarity=0.106 Sum_probs=51.1
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCceEEEcccCCCCCCC-CEEEecccccccCC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVEHVGGNMFESVPEG-DAILMKVGNFENYQ 270 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gD~f~~~p~~-D~~~l~~vLHd~~~ 270 (273)
...++||||.|.|.....++..|.++ .+=+. +.+....++ .+++++..|=+..-+.. |+|.+.|+|.-..+
T Consensus 94 ~~~~lLDlGAGdG~VT~~l~~~f~~v--~aTE~S~~Mr~rL~~-kg~~vl~~~~w~~~~~~fDvIscLNvLDRc~~ 166 (265)
T PF05219_consen 94 KDKSLLDLGAGDGEVTERLAPLFKEV--YATEASPPMRWRLSK-KGFTVLDIDDWQQTDFKFDVISCLNVLDRCDR 166 (265)
T ss_pred cCCceEEecCCCcHHHHHHHhhcceE--EeecCCHHHHHHHHh-CCCeEEehhhhhccCCceEEEeehhhhhccCC
Confidence 45789999999999999999999984 33344 444443332 56777776666544433 99999999976544
No 295
>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=92.14 E-value=0.38 Score=36.26 Aligned_cols=61 Identities=28% Similarity=0.432 Sum_probs=43.9
Q ss_pred HhChhHHHHhC-CCCCHHHHHHHhCcCC-CCCcchHHHHHHHHhcCCceeccccC-CCcceecC
Q 024046 46 QLGVFEIIAKA-GELSAPEIAAQLQAQN-VKAPMMLDRMLRLLVSHRVLECSVSG-GERLYALN 106 (273)
Q Consensus 46 elglfd~L~~~-g~~t~~eLA~~~g~~~-~~~~~~l~rlL~~L~~~gll~~~~~~-~~~~y~lt 106 (273)
+.-|++.|... ++.|++||.+.+.-.. ..+..-+.|.|+.|+..|++.+.... +...|.++
T Consensus 3 R~~Il~~l~~~~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~~~~~~~~~y~~~ 66 (116)
T cd07153 3 RLAILEVLLESDGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGKARYELN 66 (116)
T ss_pred HHHHHHHHHhCCCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEEEeCCCceEEEeC
Confidence 45678888764 4899999999984211 12888999999999999999975321 11356543
No 296
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=92.11 E-value=0.25 Score=32.13 Aligned_cols=34 Identities=26% Similarity=0.303 Sum_probs=31.3
Q ss_pred CC-CHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 58 EL-SAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 58 ~~-t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.. |..+||+.+|+ +...+++.+..|...|++...
T Consensus 19 ~l~s~~~la~~~~v----s~~tv~~~l~~L~~~g~i~~~ 53 (60)
T smart00345 19 KLPSERELAAQLGV----SRTTVREALSRLEAEGLVQRR 53 (60)
T ss_pred cCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 45 89999999999 999999999999999999863
No 297
>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=91.98 E-value=0.48 Score=34.72 Aligned_cols=44 Identities=16% Similarity=0.197 Sum_probs=37.9
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecC
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALN 106 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt 106 (273)
.++|..|||+.+|+ +...+.|.|..|...|++... .+.+.|..|
T Consensus 46 ~~is~~eLa~~~g~----sr~tVsr~L~~Le~~GlI~r~--~~~~~~~~n 89 (95)
T TIGR01610 46 DRVTATVIAELTGL----SRTHVSDAIKSLARRRIIFRQ--GMMGIVGVN 89 (95)
T ss_pred CccCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeeee--cCCceeecC
Confidence 48999999999999 999999999999999999974 233667666
No 298
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=91.94 E-value=1.7 Score=35.93 Aligned_cols=63 Identities=14% Similarity=-0.010 Sum_probs=50.0
Q ss_pred hChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCC---cceecChhchHhh
Q 024046 47 LGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGE---RLYALNPVSKYFV 113 (273)
Q Consensus 47 lglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~---~~y~lt~~s~~l~ 113 (273)
..++-.|...++.|..+||+.+++ +...+.+++.-|...|++.+.....+ -...+|+.+..+.
T Consensus 48 ~~iL~~L~~~~~itq~eLa~~l~l----~~sTvtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~l~ 113 (185)
T PRK13777 48 HHILWIAYHLKGASISEIAKFGVM----HVSTAFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEELL 113 (185)
T ss_pred HHHHHHHHhCCCcCHHHHHHHHCC----CHhhHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence 356777777679999999999999 98999999999999999997422122 2577888887665
No 299
>COG0116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]
Probab=91.85 E-value=0.47 Score=43.56 Aligned_cols=76 Identities=20% Similarity=0.185 Sum_probs=58.1
Q ss_pred HHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCe---------------------------------------EE
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIK---------------------------------------AV 225 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~---------------------------------------~~ 225 (273)
+..++..-. |.+...++|==||+|.++++.+-..+++- .+
T Consensus 180 AaAil~lag-w~~~~pl~DPmCGSGTi~IEAAl~~~niAPg~~R~~~f~~w~~~~~~lw~~~~~ea~~~a~~~~~~~~~~ 258 (381)
T COG0116 180 AAAILLLAG-WKPDEPLLDPMCGSGTILIEAALIAANIAPGLNRRFGFEFWDWFDKDLWDKLREEAEERARRGKELPIIY 258 (381)
T ss_pred HHHHHHHcC-CCCCCccccCCCCccHHHHHHHHhccccCCccccccchhhhhhccHHHHHHHHHHHHHHHhhcCccceEE
Confidence 445555444 88778999999999999999999887532 67
Q ss_pred Eeec-hHHHHhCCCC-------CCceEEEcccCC-CCC-C-CCEEEe
Q 024046 226 NFDL-PHVVQDAPSY-------AGVEHVGGNMFE-SVP-E-GDAILM 261 (273)
Q Consensus 226 ~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~-~~p-~-~D~~~l 261 (273)
+.|. |.+++.|+.+ +.|+|..+|+-. +-| + .|++++
T Consensus 259 G~Did~r~i~~Ak~NA~~AGv~d~I~f~~~d~~~l~~~~~~~gvvI~ 305 (381)
T COG0116 259 GSDIDPRHIEGAKANARAAGVGDLIEFKQADATDLKEPLEEYGVVIS 305 (381)
T ss_pred EecCCHHHHHHHHHHHHhcCCCceEEEEEcchhhCCCCCCcCCEEEe
Confidence 9998 8888887653 789999999975 222 3 377765
No 300
>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=91.66 E-value=0.15 Score=38.03 Aligned_cols=42 Identities=19% Similarity=0.422 Sum_probs=33.4
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
|+++|...|.++-++||+.+|+ ++..++++|..|...|++..
T Consensus 18 Il~~L~~~~~l~de~la~~~~l----~~~~vRkiL~~L~~~~lv~~ 59 (105)
T PF02002_consen 18 ILDALLRKGELTDEDLAKKLGL----KPKEVRKILYKLYEDGLVSY 59 (105)
T ss_dssp HHHHHHHH--B-HHHHHHTT-S-----HHHHHHHHHHHHHHSS-EE
T ss_pred HHHHHHHcCCcCHHHHHHHhCC----CHHHHHHHHHHHHHCCCeEE
Confidence 6888887789999999999999 99999999999999999975
No 301
>PF02384 N6_Mtase: N-6 DNA Methylase; InterPro: IPR003356 This domain is fpound in N-6 adenine-specific DNA methylase (2.1.1.72 from EC) from Type I and Type IC restriction systems. These enzymes are responsible for the methylation of specific DNA sequences in order to prevent the host from digesting its own genome via its restriction enzymes. These methylases have the same sequence specificity as their corresponding restriction enzymes. The type I restriction and modification system is composed of three polypeptides R, M and S. The M and S subunits together form a methyltransferase that methylates two adenine residues in complementary strands of a bipartite DNA recognition sequence. In the presence of the R subunit, the complex can also act as an endonuclease, binding to the same target sequence but cutting the DNA some distance from this site. Whether the DNA is cut or modified depends on the methylation state of the target sequence. When the target site is unmodified, the DNA is cut. When the target site is hemimethylated, the complex acts as a maintenance methyltransferase, modifying the DNA so that both strands become methylated.; GO: 0003677 DNA binding, 0008170 N-methyltransferase activity, 0006306 DNA methylation; PDB: 2F8L_A 2Y7C_C 2Y7H_C 2AR0_B 3KHK_A 3LKD_A 2OKC_B.
Probab=91.62 E-value=0.4 Score=42.77 Aligned_cols=68 Identities=18% Similarity=0.239 Sum_probs=46.8
Q ss_pred CCCcceEEEecCCccHHHHHHHHH-------CCCCeEEEeec-hHHHHhCCC--------CCCceEEEcccCC-C-CC--
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSK-------YPQIKAVNFDL-PHVVQDAPS--------YAGVEHVGGNMFE-S-VP-- 254 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~-------~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gD~f~-~-~p-- 254 (273)
.....+|+|-.||+|.++.++.+. .+..+..++|. |.++..+.. ...+.+..+|.|. + ..
T Consensus 44 ~~~~~~VlDPacGsG~fL~~~~~~i~~~~~~~~~~~i~G~ei~~~~~~la~~nl~l~~~~~~~~~i~~~d~l~~~~~~~~ 123 (311)
T PF02384_consen 44 PKKGDSVLDPACGSGGFLVAAMEYIKEKRNKIKEINIYGIEIDPEAVALAKLNLLLHGIDNSNINIIQGDSLENDKFIKN 123 (311)
T ss_dssp T-TTEEEEETT-TTSHHHHHHHHHHHTCHHHHCCEEEEEEES-HHHHHHHHHHHHHTTHHCBGCEEEES-TTTSHSCTST
T ss_pred ccccceeechhhhHHHHHHHHHHhhcccccccccceeEeecCcHHHHHHHHhhhhhhccccccccccccccccccccccc
Confidence 456678999999999999999885 58889999998 666654432 1335688999987 2 22
Q ss_pred CC-CEEEec
Q 024046 255 EG-DAILMK 262 (273)
Q Consensus 255 ~~-D~~~l~ 262 (273)
.. |+|+..
T Consensus 124 ~~~D~ii~N 132 (311)
T PF02384_consen 124 QKFDVIIGN 132 (311)
T ss_dssp --EEEEEEE
T ss_pred cccccccCC
Confidence 22 888753
No 302
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=91.48 E-value=0.33 Score=38.46 Aligned_cols=47 Identities=17% Similarity=0.334 Sum_probs=43.3
Q ss_pred HHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 44 AIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 44 a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
..+..|+..|...++.+..+||+.+|+ ++..+.+-++-|...|++..
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~lgl----S~~~v~~Ri~~L~~~GiI~~ 54 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERVGL----SPSTVLRRIKRLEEEGVIKG 54 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCceee
Confidence 356778999999889999999999999 99999999999999999985
No 303
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=91.42 E-value=0.43 Score=39.01 Aligned_cols=44 Identities=18% Similarity=0.192 Sum_probs=39.7
Q ss_pred CCHHHHHHHh--CcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhc
Q 024046 59 LSAPEIAAQL--QAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVS 109 (273)
Q Consensus 59 ~t~~eLA~~~--g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s 109 (273)
.++++||+.+ ++ +...++.-|..|..+|++++. ++|.|..|..+
T Consensus 40 ~d~~~iak~l~p~i----s~~ev~~sL~~L~~~gli~k~---~~g~y~~t~~~ 85 (171)
T PF14394_consen 40 PDPEWIAKRLRPKI----SAEEVRDSLEFLEKLGLIKKD---GDGKYVQTDKS 85 (171)
T ss_pred CCHHHHHHHhcCCC----CHHHHHHHHHHHHHCCCeEEC---CCCcEEEecce
Confidence 3899999999 88 999999999999999999984 66899998765
No 304
>PLN02668 indole-3-acetate carboxyl methyltransferase
Probab=91.41 E-value=0.58 Score=43.22 Aligned_cols=73 Identities=21% Similarity=0.206 Sum_probs=48.8
Q ss_pred CcceEEEecCCccHHHHH--------HHHH-------CCCCeEEEeechH-----HHHhCCC---------------CCC
Q 024046 197 NVERLVDVGGGFGVTLSM--------ITSK-------YPQIKAVNFDLPH-----VVQDAPS---------------YAG 241 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~--------l~~~-------~P~l~~~~~Dlp~-----v~~~a~~---------------~~r 241 (273)
+.-+|+|+|||+|..+.. +.++ -|++++..=|+|. +...... ..+
T Consensus 63 ~~~~iaDlGcs~G~ntl~~vs~iI~~i~~~~~~~~~~~pe~qv~~nDLP~NDFNtlF~~L~~~~~~~~~~~~~~~~~~~~ 142 (386)
T PLN02668 63 VPFTAVDLGCSSGSNTIHIIDVIVKHMSKRYESAGLDPPEFSAFFSDLPSNDFNTLFQLLPPLANYGGSMEECLAASGHR 142 (386)
T ss_pred cceeEEEecCCCCccHHHHHHHHHHHHHHHhhhcCCCCCcceEEecCCCCCCHHHHHhhchhhhhhhcchhhhccccCCC
Confidence 456899999999975532 2332 3678888889975 1111110 012
Q ss_pred ---ceEEEcccCCC-CCCC--CEEEecccccccC
Q 024046 242 ---VEHVGGNMFES-VPEG--DAILMKVGNFENY 269 (273)
Q Consensus 242 ---i~~~~gD~f~~-~p~~--D~~~l~~vLHd~~ 269 (273)
+..++|+||.. +|.. ++++.+..||=-+
T Consensus 143 ~~f~~gvpGSFY~RLfP~~Slh~~~Ss~slHWLS 176 (386)
T PLN02668 143 SYFAAGVPGSFYRRLFPARSIDVFHSAFSLHWLS 176 (386)
T ss_pred ceEEEecCccccccccCCCceEEEEeeccceecc
Confidence 46778999995 8875 9999999998433
No 305
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=91.18 E-value=0.52 Score=35.23 Aligned_cols=70 Identities=19% Similarity=0.237 Sum_probs=53.3
Q ss_pred HHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCC---cceecChhchHhhcC
Q 024046 42 QAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGE---RLYALNPVSKYFVSN 115 (273)
Q Consensus 42 ~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~---~~y~lt~~s~~l~~~ 115 (273)
-+..+..++..|...++.+..+||+.+++ ++..+.++++-|...|++.+.....+ -.+.+|+.+..+...
T Consensus 20 lt~~q~~~L~~l~~~~~~~~~~la~~l~i----~~~~vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~~G~~~~~~ 92 (126)
T COG1846 20 LTPPQYQVLLALYEAGGITVKELAERLGL----DRSTVTRLLKRLEDKGLIERLRDPEDRRAVLVRLTEKGRELLEQ 92 (126)
T ss_pred CCHHHHHHHHHHHHhCCCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeecCCccccceeeEEECccHHHHHHH
Confidence 34566777778887655555999999999 99999999999999999997532111 257888887765543
No 306
>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=91.15 E-value=0.3 Score=28.26 Aligned_cols=31 Identities=19% Similarity=0.322 Sum_probs=25.9
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCce
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVL 92 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll 92 (273)
|+|-.|||..+|+ ...-+.|+|..|...|++
T Consensus 2 ~mtr~diA~~lG~----t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 2 PMTRQDIADYLGL----TRETVSRILKKLERQGLI 32 (32)
T ss_dssp E--HHHHHHHHTS-----HHHHHHHHHHHHHTTSE
T ss_pred CcCHHHHHHHhCC----cHHHHHHHHHHHHHcCCC
Confidence 5788999999999 999999999999998875
No 307
>PRK05638 threonine synthase; Validated
Probab=91.10 E-value=0.42 Score=45.10 Aligned_cols=63 Identities=17% Similarity=0.242 Sum_probs=49.1
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhC--cCCCCCcchHHHHHHHHhcCCceecc-ccCCCcceecChhchHhh
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQ--AQNVKAPMMLDRMLRLLVSHRVLECS-VSGGERLYALNPVSKYFV 113 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g--~~~~~~~~~l~rlL~~L~~~gll~~~-~~~~~~~y~lt~~s~~l~ 113 (273)
++.|+..|.+ ++.++.||++.++ + +...+.+.|+.|...|+++.. .....-.|++|+.+..++
T Consensus 373 r~~IL~~L~~-~~~~~~el~~~l~~~~----s~~~v~~hL~~Le~~GLV~~~~~~g~~~~Y~Lt~~g~~~l 438 (442)
T PRK05638 373 KLEILKILSE-REMYGYEIWKALGKPL----KYQAVYQHIKELEELGLIEEAYRKGRRVYYKLTEKGRRLL 438 (442)
T ss_pred HHHHHHHHhh-CCccHHHHHHHHcccC----CcchHHHHHHHHHHCCCEEEeecCCCcEEEEECcHHHHHH
Confidence 3447778876 6999999999998 7 888999999999999999752 101223599999887554
No 308
>PF03602 Cons_hypoth95: Conserved hypothetical protein 95; InterPro: IPR004398 This entry contains Ribosomal RNA small subunit methyltransferase D as well as the putative rRNA methyltransferase YlbH. They methylate the guanosine in position 966 of 16S rRNA in the assembled 30S particle [].; GO: 0008168 methyltransferase activity, 0031167 rRNA methylation; PDB: 3P9N_A 2ESR_B 2IFT_A 1WS6_A 2FPO_B 2FHP_A.
Probab=90.83 E-value=0.2 Score=41.43 Aligned_cols=64 Identities=17% Similarity=0.206 Sum_probs=46.6
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCCC---C---CCC-CEEEe
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFES---V---PEG-DAILM 261 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~~---~---p~~-D~~~l 261 (273)
...++||+=+|+|.++.+.+.+--. +++.+|. +..+..++++ ++++++.+|.+.. . ... |+|++
T Consensus 42 ~g~~vLDLFaGSGalGlEALSRGA~-~v~fVE~~~~a~~~i~~N~~~l~~~~~~~v~~~d~~~~l~~~~~~~~~fDiIfl 120 (183)
T PF03602_consen 42 EGARVLDLFAGSGALGLEALSRGAK-SVVFVEKNRKAIKIIKKNLEKLGLEDKIRVIKGDAFKFLLKLAKKGEKFDIIFL 120 (183)
T ss_dssp TT-EEEETT-TTSHHHHHHHHTT-S-EEEEEES-HHHHHHHHHHHHHHT-GGGEEEEESSHHHHHHHHHHCTS-EEEEEE
T ss_pred CCCeEEEcCCccCccHHHHHhcCCC-eEEEEECCHHHHHHHHHHHHHhCCCcceeeeccCHHHHHHhhcccCCCceEEEE
Confidence 4589999999999999999998643 6889998 6766665542 5799999998762 2 233 98886
No 309
>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=90.73 E-value=0.38 Score=31.05 Aligned_cols=39 Identities=15% Similarity=0.294 Sum_probs=32.9
Q ss_pred ChhHHH-HhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCC
Q 024046 48 GVFEII-AKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHR 90 (273)
Q Consensus 48 glfd~L-~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~g 90 (273)
.|+..| ...++.|.++||+.+++ +.+-+.+-+..|...|
T Consensus 4 ~il~~L~~~~~~it~~eLa~~l~v----S~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 4 QILKLLLESKEPITAKELAEELGV----SRRTIRRDIKELREWG 43 (55)
T ss_dssp HHHHHHHHTTTSBEHHHHHHHCTS-----HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHcCCCcCHHHHHHHhCC----CHHHHHHHHHHHHHCC
Confidence 466677 34347999999999999 9999999999999999
No 310
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=90.69 E-value=0.25 Score=46.79 Aligned_cols=55 Identities=20% Similarity=0.382 Sum_probs=44.6
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEc---ccCC
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGG---NMFE 251 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~g---D~f~ 251 (273)
++..+.++||-||+|.++.++++..- +++++++ |+.++.|+.+ .+.+|++| |.|.
T Consensus 381 l~~~k~llDv~CGTG~iglala~~~~--~ViGvEi~~~aV~dA~~nA~~NgisNa~Fi~gqaE~~~~ 445 (534)
T KOG2187|consen 381 LPADKTLLDVCCGTGTIGLALARGVK--RVIGVEISPDAVEDAEKNAQINGISNATFIVGQAEDLFP 445 (534)
T ss_pred CCCCcEEEEEeecCCceehhhhcccc--ceeeeecChhhcchhhhcchhcCccceeeeecchhhccc
Confidence 55668999999999999999998864 4788887 8888888753 57789998 5554
No 311
>PRK10870 transcriptional repressor MprA; Provisional
Probab=90.60 E-value=0.96 Score=37.06 Aligned_cols=65 Identities=12% Similarity=0.123 Sum_probs=49.6
Q ss_pred HhChhHHHHhC--CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCC---cceecChhchHhhc
Q 024046 46 QLGVFEIIAKA--GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGE---RLYALNPVSKYFVS 114 (273)
Q Consensus 46 elglfd~L~~~--g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~---~~y~lt~~s~~l~~ 114 (273)
+..++-.|... ++.|..|||+.+++ +...+.+++.-|...|++++.....+ -...+|+.+..++.
T Consensus 57 q~~iL~~L~~~~~~~it~~eLa~~l~l----~~~tvsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~~~~ 126 (176)
T PRK10870 57 LFMALITLESQENHSIQPSELSCALGS----SRTNATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHEFLR 126 (176)
T ss_pred HHHHHHHHhcCCCCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHH
Confidence 34466666532 47899999999999 99999999999999999997432122 25778888876653
No 312
>PRK10742 putative methyltransferase; Provisional
Probab=90.17 E-value=0.74 Score=39.90 Aligned_cols=73 Identities=11% Similarity=0.189 Sum_probs=52.8
Q ss_pred HHHHhhcccCCCcc--eEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC--------------C-CCceEEEc
Q 024046 186 ERILEHYEGFQNVE--RLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS--------------Y-AGVEHVGG 247 (273)
Q Consensus 186 ~~il~~~~~~~~~~--~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------------~-~ri~~~~g 247 (273)
+.++++.. +++.. +|||.=+|.|..+..++.+ ..+++.+|. |.+....+. . .||+++.+
T Consensus 76 ~~l~kAvg-lk~g~~p~VLD~TAGlG~Da~~las~--G~~V~~vEr~p~vaalL~dgL~ra~~~~~~~~~~~~ri~l~~~ 152 (250)
T PRK10742 76 EAVAKAVG-IKGDYLPDVVDATAGLGRDAFVLASV--GCRVRMLERNPVVAALLDDGLARGYADAEIGGWLQERLQLIHA 152 (250)
T ss_pred cHHHHHhC-CCCCCCCEEEECCCCccHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHHhhhccccchhhhceEEEEeC
Confidence 45566665 66554 9999999999999999999 677999998 544332211 1 57999999
Q ss_pred ccCCC---CCCC-CEEEe
Q 024046 248 NMFES---VPEG-DAILM 261 (273)
Q Consensus 248 D~f~~---~p~~-D~~~l 261 (273)
|..+- .+.. |+|++
T Consensus 153 da~~~L~~~~~~fDVVYl 170 (250)
T PRK10742 153 SSLTALTDITPRPQVVYL 170 (250)
T ss_pred cHHHHHhhCCCCCcEEEE
Confidence 98872 3333 99886
No 313
>TIGR00308 TRM1 tRNA(guanine-26,N2-N2) methyltransferase. This enzyme is responsible for two methylations of a characteristic guanine of most tRNA molecules. The activity has been demonstrated for eukaryotic and archaeal proteins, which are active when expressed in E. coli, a species that lacks this enzyme. At least one Eubacterium, Aquifex aeolicus, has an ortholog, as do all completed archaeal genomes.
Probab=90.11 E-value=0.47 Score=43.79 Aligned_cols=63 Identities=11% Similarity=0.130 Sum_probs=47.9
Q ss_pred ceEEEecCCccHHHHHHHHHCCCC-eEEEeec-hHHHHhCCCC------CCceEEEcccCCCCC---C-CCEEEe
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQI-KAVNFDL-PHVVQDAPSY------AGVEHVGGNMFESVP---E-GDAILM 261 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l-~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~~~p---~-~D~~~l 261 (273)
-+|||.-+|+|..++..+++.++. +++..|+ |..++.++.+ ..+++..+|.+.-+. . .|+|.+
T Consensus 46 ~~vLD~faGsG~rgir~a~e~~ga~~Vv~nD~n~~Av~~i~~N~~~N~~~~~~v~~~Da~~~l~~~~~~fDvIdl 120 (374)
T TIGR00308 46 INIADALSASGIRAIRYAHEIEGVREVFANDINPKAVESIKNNVEYNSVENIEVPNEDAANVLRYRNRKFHVIDI 120 (374)
T ss_pred CEEEECCCchhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHHhCCCcEEEEchhHHHHHHHhCCCCCEEEe
Confidence 589999999999999999997654 5788998 8888776542 357888888876221 2 377765
No 314
>PF05958 tRNA_U5-meth_tr: tRNA (Uracil-5-)-methyltransferase; InterPro: IPR010280 This family consists of (uracil-5-)-methyltransferases 2.1.1.35 from EC from bacteria, archaea and eukaryotes. A 5-methyluridine (m(5)U) residue at position 54 is a conserved feature of bacterial and eukaryotic tRNAs. The methylation of U54 is catalysed by the tRNA(m5U54)methyltransferase, which in Saccharomyces cerevisiae is encoded by the nonessential TRM2 gene. It is thought that tRNA modification enzymes might have a role in tRNA maturation not necessarily linked to their known catalytic activity []. This protein family also contains the 23SrRNA methyltransferases, first proposed to be RNA methyltransferases by homology to the TrmA family. The member from Escherichia 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 [].; GO: 0008173 RNA methyltransferase activity, 0006396 RNA processing; PDB: 2VS1_A 2JJQ_A 2BH2_A 1UWV_A 3BT7_B.
Probab=90.04 E-value=0.29 Score=44.81 Aligned_cols=58 Identities=22% Similarity=0.361 Sum_probs=40.4
Q ss_pred HHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcc
Q 024046 187 RILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGN 248 (273)
Q Consensus 187 ~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD 248 (273)
.+++.++ .++. .|+|+=||.|.++..|++..- +++++|. ++.++.|+.+ ++++|+.++
T Consensus 188 ~~~~~l~-~~~~-~vlDlycG~G~fsl~la~~~~--~V~gvE~~~~av~~A~~Na~~N~i~n~~f~~~~ 252 (352)
T PF05958_consen 188 QALEWLD-LSKG-DVLDLYCGVGTFSLPLAKKAK--KVIGVEIVEEAVEDARENAKLNGIDNVEFIRGD 252 (352)
T ss_dssp HHHHHCT-T-TT-EEEEES-TTTCCHHHHHCCSS--EEEEEES-HHHHHHHHHHHHHTT--SEEEEE--
T ss_pred HHHHHhh-cCCC-cEEEEeecCCHHHHHHHhhCC--eEEEeeCCHHHHHHHHHHHHHcCCCcceEEEee
Confidence 3444444 3333 799999999999999999976 4788887 7788877642 678998764
No 315
>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=90.02 E-value=0.47 Score=31.88 Aligned_cols=42 Identities=24% Similarity=0.432 Sum_probs=35.6
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
|++.|-..|+.|+.+|++.+++ +++.++.-|-.|...|++..
T Consensus 18 V~~~Ll~~G~ltl~~i~~~t~l----~~~~Vk~~L~~LiQh~~v~y 59 (62)
T PF08221_consen 18 VGEVLLSRGRLTLREIVRRTGL----SPKQVKKALVVLIQHNLVQY 59 (62)
T ss_dssp HHHHHHHC-SEEHHHHHHHHT------HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHcCCcCHHHHHHHhCC----CHHHHHHHHHHHHHcCCeee
Confidence 6677777799999999999999 99999999999999999974
No 316
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=89.99 E-value=0.51 Score=44.79 Aligned_cols=71 Identities=11% Similarity=0.112 Sum_probs=58.8
Q ss_pred HHHHhChhHHHHhCCC-CCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhcCCCC
Q 024046 43 AAIQLGVFEIIAKAGE-LSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVSNKDG 118 (273)
Q Consensus 43 ~a~elglfd~L~~~g~-~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~~~~~ 118 (273)
++.+..|+..|...++ .+.++||+.+|+ +...+.+.+..|.+.|+++... .....|.+|+.++..+.+..+
T Consensus 2 ~~~e~~iL~~l~~~~~~~~~~~la~~~g~----~~~~v~~~~~~L~~kg~v~~~~-~~~~~~~LT~eG~~~l~~G~P 73 (492)
T PLN02853 2 AMAEEALLGALSNNEEISDSGQFAASHGL----DHNEVVGVIKSLHGFRYVDAQD-IKRETWVLTEEGKKYAAEGSP 73 (492)
T ss_pred chHHHHHHHHHHhcCCCCCHHHHHHHcCC----CHHHHHHHHHHHHhCCCEEEEE-EEEEEEEECHHHHHHHHcCCH
Confidence 3567788889987665 899999999999 9999999999999999998643 244689999999887776543
No 317
>COG5631 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]
Probab=89.89 E-value=1.1 Score=36.04 Aligned_cols=78 Identities=21% Similarity=0.219 Sum_probs=57.4
Q ss_pred HhhhhHHHHHHHHHHhC-------hhHHHHhCC-CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcce
Q 024046 32 AMGVVLPMATQAAIQLG-------VFEIIAKAG-ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLY 103 (273)
Q Consensus 32 ~~g~~~~~aL~~a~elg-------lfd~L~~~g-~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y 103 (273)
+++-|...|+.++.+.+ |+-.+.-.+ |+++.||+..++.. |-..+..-||.|...|+++.-.....-.|
T Consensus 64 Af~rW~vrCmAaag~~~ls~~e~l~lH~irhrdR~K~laDic~~ln~e---Dth~itYslrKL~k~gLit~t~~gkevTy 140 (199)
T COG5631 64 AFGRWQVRCMAAAGEFSLSGPENLLLHIIRHRDRPKSLADICQMLNRE---DTHNITYSLRKLLKGGLITRTGSGKEVTY 140 (199)
T ss_pred HHHHHHHHHHHHhcCCCCcchHHHHHHHHhhcCchhhHHHHHHHhccc---cchhHHHHHHHHHhccceecCCCCceEEE
Confidence 55668888888887666 344444444 99999999999983 56677888999999999997422222368
Q ss_pred ecChhchHh
Q 024046 104 ALNPVSKYF 112 (273)
Q Consensus 104 ~lt~~s~~l 112 (273)
..|+.+..-
T Consensus 141 ~vTa~G~~a 149 (199)
T COG5631 141 EVTALGHRA 149 (199)
T ss_pred EEecchHHH
Confidence 888877543
No 318
>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=89.85 E-value=0.64 Score=28.61 Aligned_cols=37 Identities=19% Similarity=0.344 Sum_probs=27.3
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHH
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRL 85 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 85 (273)
++..|+..|...+..+..+||+.+|+ ++..+.+=++.
T Consensus 4 ~D~~Il~~Lq~d~r~s~~~la~~lgl----S~~~v~~Ri~r 40 (42)
T PF13404_consen 4 LDRKILRLLQEDGRRSYAELAEELGL----SESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHH-TTS-HHHHHHHHTS-----HHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCccHHHHHHHHCc----CHHHHHHHHHH
Confidence 45678899999889999999999999 88766554443
No 319
>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=89.61 E-value=0.48 Score=33.08 Aligned_cols=46 Identities=20% Similarity=0.253 Sum_probs=41.2
Q ss_pred HHhChhHHHHhCC--CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 45 IQLGVFEIIAKAG--ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 45 ~elglfd~L~~~g--~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
.+..+++.|..++ +.+-.||++.+|. |++.+-..++.|...|++.+
T Consensus 3 ~~~~~Le~I~rsR~~Gi~q~~L~~~~~~----D~r~i~~~~k~L~~~gLI~k 50 (75)
T PF04182_consen 3 IQYCLLERIARSRYNGITQSDLSKLLGI----DPRSIFYRLKKLEKKGLIVK 50 (75)
T ss_pred hHHHHHHHHHhcCCCCEehhHHHHHhCC----CchHHHHHHHHHHHCCCEEE
Confidence 4566788888765 8999999999999 99999999999999999996
No 320
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=89.37 E-value=0.61 Score=43.84 Aligned_cols=55 Identities=24% Similarity=0.341 Sum_probs=44.7
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC------CCceEEEcccCC
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY------AGVEHVGGNMFE 251 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~------~ri~~~~gD~f~ 251 (273)
..+..+++|+=||.|.++..|+++. .+++++|+ |+.++.|+.+ ++++|+.+|..+
T Consensus 291 ~~~~~~vlDlYCGvG~f~l~lA~~~--~~V~gvEi~~~aV~~A~~NA~~n~i~N~~f~~~~ae~ 352 (432)
T COG2265 291 LAGGERVLDLYCGVGTFGLPLAKRV--KKVHGVEISPEAVEAAQENAAANGIDNVEFIAGDAEE 352 (432)
T ss_pred hcCCCEEEEeccCCChhhhhhcccC--CEEEEEecCHHHHHHHHHHHHHcCCCcEEEEeCCHHH
Confidence 4566899999999999999999664 45788897 7777776542 569999999876
No 321
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=89.24 E-value=0.72 Score=41.39 Aligned_cols=91 Identities=13% Similarity=0.227 Sum_probs=63.2
Q ss_pred HHHHHHHHHhcchhhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHH-HHhCCCC--------C
Q 024046 170 NETYHEAMFNHSTIAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHV-VQDAPSY--------A 240 (273)
Q Consensus 170 ~~~f~~am~~~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v-~~~a~~~--------~ 240 (273)
.++|++++.+ .++..|. +....++|+|||-|.-++..-++-=+ ..++.|+.+| |+.|+.+ +
T Consensus 99 lRnfNNwIKs-------~LI~~y~--~~~~~~~~LgCGKGGDLlKw~kAgI~-~~igiDIAevSI~qa~~RYrdm~~r~~ 168 (389)
T KOG1975|consen 99 LRNFNNWIKS-------VLINLYT--KRGDDVLDLGCGKGGDLLKWDKAGIG-EYIGIDIAEVSINQARKRYRDMKNRFK 168 (389)
T ss_pred hhhhhHHHHH-------HHHHHHh--ccccccceeccCCcccHhHhhhhccc-ceEeeehhhccHHHHHHHHHHHHhhhh
Confidence 4456665532 3455553 56678999999999999888877322 3699999665 7777652 2
Q ss_pred ----CceEEEcccCC---------CCCCCCEEEecccccccCC
Q 024046 241 ----GVEHVGGNMFE---------SVPEGDAILMKVGNFENYQ 270 (273)
Q Consensus 241 ----ri~~~~gD~f~---------~~p~~D~~~l~~vLHd~~~ 270 (273)
.+.|+.+|=|. +.|..|++-+--++|.-..
T Consensus 169 ~~~f~a~f~~~Dc~~~~l~d~~e~~dp~fDivScQF~~HYaFe 211 (389)
T KOG1975|consen 169 KFIFTAVFIAADCFKERLMDLLEFKDPRFDIVSCQFAFHYAFE 211 (389)
T ss_pred cccceeEEEEeccchhHHHHhccCCCCCcceeeeeeeEeeeec
Confidence 36888998875 1233599999999997543
No 322
>COG3897 Predicted methyltransferase [General function prediction only]
Probab=88.97 E-value=1.5 Score=36.67 Aligned_cols=76 Identities=16% Similarity=0.175 Sum_probs=52.3
Q ss_pred cccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-----CCceEEEcccCCCCCC-CCEEEeccc
Q 024046 192 YEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-----AGVEHVGGNMFESVPE-GDAILMKVG 264 (273)
Q Consensus 192 ~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-----~ri~~~~gD~f~~~p~-~D~~~l~~v 264 (273)
.+++-..++|||.|.|+|..+++.++.--. ..+.-|. |-.++.++-+ -.|.++..|.-. .|. .|++++.-+
T Consensus 74 ~PetVrgkrVLd~gagsgLvaIAaa~aGA~-~v~a~d~~P~~~~ai~lNa~angv~i~~~~~d~~g-~~~~~Dl~LagDl 151 (218)
T COG3897 74 HPETVRGKRVLDLGAGSGLVAIAAARAGAA-EVVAADIDPWLEQAIRLNAAANGVSILFTHADLIG-SPPAFDLLLAGDL 151 (218)
T ss_pred CccccccceeeecccccChHHHHHHHhhhH-HHHhcCCChHHHHHhhcchhhccceeEEeeccccC-CCcceeEEEeece
Confidence 344667899999999999999988877432 2344454 4444443322 347888888776 554 499999988
Q ss_pred ccccC
Q 024046 265 NFENY 269 (273)
Q Consensus 265 LHd~~ 269 (273)
.++.+
T Consensus 152 fy~~~ 156 (218)
T COG3897 152 FYNHT 156 (218)
T ss_pred ecCch
Confidence 88764
No 323
>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=88.91 E-value=0.37 Score=40.84 Aligned_cols=75 Identities=13% Similarity=0.076 Sum_probs=44.2
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-----CCCc-eEEEcccCC--CCCCC-CEEEeccccc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-----YAGV-EHVGGNMFE--SVPEG-DAILMKVGNF 266 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri-~~~~gD~f~--~~p~~-D~~~l~~vLH 266 (273)
+..+.||.|+|.|.++..++..+=+ ++-++|- +..++.|++ .+++ ++...-+-+ |.+.. |+|++-+++-
T Consensus 55 ~~~~alDcGAGIGRVTk~lLl~~f~-~VDlVEp~~~Fl~~a~~~l~~~~~~v~~~~~~gLQ~f~P~~~~YDlIW~QW~lg 133 (218)
T PF05891_consen 55 KFNRALDCGAGIGRVTKGLLLPVFD-EVDLVEPVEKFLEQAKEYLGKDNPRVGEFYCVGLQDFTPEEGKYDLIWIQWCLG 133 (218)
T ss_dssp --SEEEEET-TTTHHHHHTCCCC-S-EEEEEES-HHHHHHHHHHTCCGGCCEEEEEES-GGG----TT-EEEEEEES-GG
T ss_pred CcceEEecccccchhHHHHHHHhcC-EeEEeccCHHHHHHHHHHhcccCCCcceEEecCHhhccCCCCcEeEEEehHhhc
Confidence 4689999999999999988665422 3555554 777777763 2332 333333322 33333 9999999998
Q ss_pred ccCCCC
Q 024046 267 ENYQSH 272 (273)
Q Consensus 267 d~~~~~ 272 (273)
+-+|++
T Consensus 134 hLTD~d 139 (218)
T PF05891_consen 134 HLTDED 139 (218)
T ss_dssp GS-HHH
T ss_pred cCCHHH
Confidence 887753
No 324
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=88.75 E-value=0.71 Score=40.12 Aligned_cols=46 Identities=17% Similarity=0.234 Sum_probs=41.8
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+..|.+.|.+.|..++.|||+.+|+ ++.-++|-|+.|...|++.+.
T Consensus 7 ~~~Il~~l~~~~~~~~~ela~~l~v----S~~TirRdL~~Le~~g~i~r~ 52 (251)
T PRK13509 7 HQILLELLAQLGFVTVEKVIERLGI----SPATARRDINKLDESGKLKKV 52 (251)
T ss_pred HHHHHHHHHHcCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence 3457889998889999999999999 999999999999999999873
No 325
>COG1733 Predicted transcriptional regulators [Transcription]
Probab=88.75 E-value=1.1 Score=34.44 Aligned_cols=76 Identities=18% Similarity=0.217 Sum_probs=57.4
Q ss_pred HHHHHHHHHhhhhHHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhC-cCCCCCcchHHHHHHHHhcCCceeccccC---C
Q 024046 24 SYSHAMQLAMGVVLPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQ-AQNVKAPMMLDRMLRLLVSHRVLECSVSG---G 99 (273)
Q Consensus 24 ~~~~l~~~~~g~~~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g-~~~~~~~~~l~rlL~~L~~~gll~~~~~~---~ 99 (273)
+.....+++-+-|..-.|+. |.. |+....||-..++ + ++.-|.+-|+.|...|++++.... .
T Consensus 12 ~~~~~l~~ig~kW~~lIl~~---------L~~-g~~RF~eL~r~i~~I----s~k~Ls~~Lk~Le~~Glv~R~~~~~~Pp 77 (120)
T COG1733 12 PVEEALEVIGGKWTLLILRD---------LFD-GPKRFNELRRSIGGI----SPKMLSRRLKELEEDGLVERVVYPEEPP 77 (120)
T ss_pred CHHHHHHHHcCccHHHHHHH---------Hhc-CCCcHHHHHHHcccc----CHHHHHHHHHHHHHCCCEEeeecCCCCc
Confidence 45666666667666665553 444 7999999999999 8 999999999999999999975320 0
Q ss_pred CcceecChhchHhh
Q 024046 100 ERLYALNPVSKYFV 113 (273)
Q Consensus 100 ~~~y~lt~~s~~l~ 113 (273)
.-.|++|+.++.|.
T Consensus 78 rveY~LT~~G~~L~ 91 (120)
T COG1733 78 RVEYRLTEKGRDLL 91 (120)
T ss_pred eeEEEEhhhHHHHH
Confidence 13699999887664
No 326
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=88.66 E-value=2.8 Score=36.04 Aligned_cols=63 Identities=27% Similarity=0.305 Sum_probs=48.6
Q ss_pred HHHHHHHhhhhHHHHHHHHHHhChhHHHHh-CCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 26 SHAMQLAMGVVLPMATQAAIQLGVFEIIAK-AGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 26 ~~l~~~~~g~~~~~aL~~a~elglfd~L~~-~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
..+.+++.+.....=+.+.- .|++.|.. .|-.+..+||+++|+ +...+++-++.|...|+++.
T Consensus 167 ka~Vq~Ai~tLSySEleAv~--~IL~~L~~~egrlse~eLAerlGV----SRs~ireAlrkLE~aGvIe~ 230 (251)
T TIGR02787 167 KAAVQMAINTLSYSELEAVE--HIFEELDGNEGLLVASKIADRVGI----TRSVIVNALRKLESAGVIES 230 (251)
T ss_pred HHHHHHHHHhccHhHHHHHH--HHHHHhccccccccHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEe
Confidence 34455555554444344332 47888987 479999999999999 99999999999999999996
No 327
>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=88.65 E-value=0.7 Score=31.83 Aligned_cols=42 Identities=21% Similarity=0.265 Sum_probs=36.3
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
+.|-++||..+|+ +...+.|+|+.|...|+++. ..+.+.+..
T Consensus 28 ~lt~~~iA~~~g~----sr~tv~r~l~~l~~~g~I~~----~~~~i~I~d 69 (76)
T PF13545_consen 28 PLTQEEIADMLGV----SRETVSRILKRLKDEGIIEV----KRGKIIILD 69 (76)
T ss_dssp ESSHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEE----ETTEEEESS
T ss_pred cCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEE----cCCEEEECC
Confidence 7899999999999 99999999999999999996 345555544
No 328
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=88.32 E-value=0.62 Score=40.69 Aligned_cols=47 Identities=19% Similarity=0.374 Sum_probs=42.1
Q ss_pred HhChhHHHHhCC-CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccc
Q 024046 46 QLGVFEIIAKAG-ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSV 96 (273)
Q Consensus 46 elglfd~L~~~g-~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~ 96 (273)
|..+.++|.+.| ..+=+||.+++|+ +...+.|+|+-|...|++++..
T Consensus 197 e~~il~~i~~~GGri~Q~eL~r~lgl----sktTvsR~L~~LEk~GlIe~~K 244 (258)
T COG2512 197 EKEILDLIRERGGRITQAELRRALGL----SKTTVSRILRRLEKRGLIEKEK 244 (258)
T ss_pred HHHHHHHHHHhCCEEeHHHHHHhhCC----ChHHHHHHHHHHHhCCceEEEE
Confidence 456788888877 6999999999999 9999999999999999999853
No 329
>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=88.28 E-value=1.1 Score=40.69 Aligned_cols=75 Identities=19% Similarity=0.250 Sum_probs=44.9
Q ss_pred CCCcceEEEecCCccHHHHHHH--------HHC--------CCCeEEEeechH-----HHHhCCC-------CCC--ceE
Q 024046 195 FQNVERLVDVGGGFGVTLSMIT--------SKY--------PQIKAVNFDLPH-----VVQDAPS-------YAG--VEH 244 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~--------~~~--------P~l~~~~~Dlp~-----v~~~a~~-------~~r--i~~ 244 (273)
.++.-+|+|+||.+|..+..+. +++ |++.++.=|+|. +...... .+. +.-
T Consensus 14 ~~~~~~iaD~GcS~G~Nsl~~~~~ii~~i~~~~~~~~~~~~~e~~v~~nDlP~NDFn~lF~~l~~~~~~~~~~~~~f~~g 93 (334)
T PF03492_consen 14 NPKPFRIADLGCSSGPNSLLAVSNIIDAIRERCRSSNNQPPPEFQVFFNDLPSNDFNTLFKSLPSFQQSLKKFRNYFVSG 93 (334)
T ss_dssp TTTEEEEEEES--SSHHHHHHHHHHHHHHHHHHHCTT-SS--EEEEEEEE-TTS-HHHHHHCHHHHHHHHHHTTSEEEEE
T ss_pred CCCceEEEecCCCCCccHHHHHHHHHHHHHHHhhhhcCCCCCeEEEEeCCCCCccHHHHHHhChhhhhccCCCceEEEEe
Confidence 4567899999999999766433 233 456677778976 1111111 123 577
Q ss_pred EEcccCCC-CCCC--CEEEecccccccC
Q 024046 245 VGGNMFES-VPEG--DAILMKVGNFENY 269 (273)
Q Consensus 245 ~~gD~f~~-~p~~--D~~~l~~vLHd~~ 269 (273)
++|.||.. +|.+ |+++.+..||--+
T Consensus 94 vpgSFy~rLfP~~Svh~~~Ss~alHWLS 121 (334)
T PF03492_consen 94 VPGSFYGRLFPSNSVHFGHSSYALHWLS 121 (334)
T ss_dssp EES-TTS--S-TT-EEEEEEES-TTB-S
T ss_pred cCchhhhccCCCCceEEEEEechhhhcc
Confidence 89999996 8876 9999999999655
No 330
>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=88.27 E-value=0.94 Score=37.69 Aligned_cols=46 Identities=26% Similarity=0.299 Sum_probs=37.7
Q ss_pred HHhChhHHHHh----CC-CCCHHHHHHHhCcCCCCC-cchHHHHHHHHhcCCceec
Q 024046 45 IQLGVFEIIAK----AG-ELSAPEIAAQLQAQNVKA-PMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 45 ~elglfd~L~~----~g-~~t~~eLA~~~g~~~~~~-~~~l~rlL~~L~~~gll~~ 94 (273)
.+..|++.|.+ .| +.|+.|||+.+|+ + +..+.+.|+.|...|+++.
T Consensus 7 ~q~~iL~~l~~~~~~~~~~~~~~ela~~~~~----~s~~tv~~~l~~L~~~g~i~~ 58 (199)
T TIGR00498 7 RQQEVLDLIRAHIESTGYPPSIREIARAVGL----RSPSAAEEHLKALERKGYIER 58 (199)
T ss_pred HHHHHHHHHHHHHHhcCCCCcHHHHHHHhCC----CChHHHHHHHHHHHHCCCEec
Confidence 34455566653 23 7889999999999 8 8899999999999999996
No 331
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=88.26 E-value=0.73 Score=39.46 Aligned_cols=95 Identities=18% Similarity=0.283 Sum_probs=61.7
Q ss_pred hhHHHHhC-CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhcCCCCCccchhhcc
Q 024046 49 VFEIIAKA-GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVSNKDGASLGHFMAL 127 (273)
Q Consensus 49 lfd~L~~~-g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~~~~~~~~~~~~~~ 127 (273)
|+-.|... +.....|||+.+|+ .+.++...++-|+..|++++ .+.+.|.+|..+...+.+.- ..++.+...
T Consensus 15 IL~ei~~~qp~v~q~eIA~~lgi----T~QaVsehiK~Lv~eG~i~~---~gR~~Y~iTkkG~e~l~~~~-~dlr~f~~e 86 (260)
T COG1497 15 ILSEIAVRQPRVKQKEIAKKLGI----TLQAVSEHIKELVKEGLIEK---EGRGEYEITKKGAEWLLEQL-SDLRRFSEE 86 (260)
T ss_pred HHHHHHHhCCCCCHHHHHHHcCC----CHHHHHHHHHHHHhccceee---cCCeeEEEehhHHHHHHHHH-HHHHHHHHH
Confidence 33344433 57899999999999 99999999999999999997 35679999999864433321 123333322
Q ss_pred c-CChhHHHHhhhHHHH-HhcCCCcc
Q 024046 128 P-LDKVFMESWLGLKDA-VMEGGIPF 151 (273)
Q Consensus 128 ~-~~~~~~~~~~~L~e~-l~~g~~~~ 151 (273)
. ..-.+...|..++.. +++|...+
T Consensus 87 v~~~l~~~~vw~AIA~edI~~Gd~V~ 112 (260)
T COG1497 87 VELVLDYVMVWTAIAKEDIKEGDTVY 112 (260)
T ss_pred HHHHHhhHHHHHHhhHhhhccCCEEE
Confidence 1 011123466665543 55555443
No 332
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=87.31 E-value=0.92 Score=38.26 Aligned_cols=42 Identities=36% Similarity=0.454 Sum_probs=35.5
Q ss_pred hhHHHHhC-CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 49 VFEIIAKA-GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 49 lfd~L~~~-g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
|.+.|... .+.|++|+|+++|+ +.--.+|.|.+|++.|+++.
T Consensus 163 i~~~~~~~~~~~Taeela~~~gi----SRvTaRRYLeyl~~~~~l~a 205 (224)
T COG4565 163 VREALKEPDQELTAEELAQALGI----SRVTARRYLEYLVSNGILEA 205 (224)
T ss_pred HHHHHhCcCCccCHHHHHHHhCc----cHHHHHHHHHHHHhcCeeeE
Confidence 44455532 39999999999999 88899999999999999985
No 333
>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=87.01 E-value=2.6 Score=29.70 Aligned_cols=52 Identities=12% Similarity=0.034 Sum_probs=41.4
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhh
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFV 113 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~ 113 (273)
.|....+||+.+++ ++.-++-.|..|..+|+++..- ...+.|..|..+..++
T Consensus 22 ~PVgSk~ia~~l~~----s~aTIRN~M~~Le~lGlve~~p-~~s~GriPT~~aYr~~ 73 (78)
T PF03444_consen 22 EPVGSKTIAEELGR----SPATIRNEMADLEELGLVESQP-HPSGGRIPTDKAYRAL 73 (78)
T ss_pred CCcCHHHHHHHHCC----ChHHHHHHHHHHHHCCCccCCC-CCCCCCCcCHHHHHHH
Confidence 39999999999999 9999999999999999998410 1235677888775443
No 334
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=86.59 E-value=1.1 Score=36.64 Aligned_cols=44 Identities=23% Similarity=0.311 Sum_probs=40.3
Q ss_pred hChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 47 LGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 47 lglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
..|+++|.+.|.+|=++||..+|+ ...-++++|.+|...|++..
T Consensus 21 ~~v~~~l~~kge~tDeela~~l~i----~~~~vrriL~~L~e~~li~~ 64 (176)
T COG1675 21 VLVVDALLEKGELTDEELAELLGI----KKNEVRRILYALYEDGLISY 64 (176)
T ss_pred hHHHHHHHhcCCcChHHHHHHhCc----cHHHHHHHHHHHHhCCceEE
Confidence 457888888778999999999999 99999999999999999985
No 335
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=86.48 E-value=0.94 Score=39.41 Aligned_cols=47 Identities=17% Similarity=0.293 Sum_probs=42.4
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.+..|.+.|.+.|..++.|||+.+++ ++.-++|-|..|...|++.+.
T Consensus 6 R~~~Il~~l~~~~~~~~~ela~~l~v----S~~TiRRdL~~Le~~g~l~r~ 52 (252)
T PRK10906 6 RHDAIIELVKQQGYVSTEELVEHFSV----SPQTIRRDLNDLAEQNKILRH 52 (252)
T ss_pred HHHHHHHHHHHcCCEeHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 34557889988889999999999999 999999999999999999873
No 336
>TIGR02987 met_A_Alw26 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family. Members of this family are the m6-adenine DNA methyltransferase protein, or domain of a fusion protein that also carries m5 cytosine methyltransferase activity, of type II restriction systems of the Alw26I/Eco31I/Esp3I family. A methyltransferase of this family is alway accompanied by a type II restriction endonuclease from the Alw26I/Eco31I/Esp3I family (TIGR02986) and by an adenine-specific modification methyltransferase. Members of this family are unusual in that regions of similarity to homologs outside this family are circularly permuted.
Probab=86.36 E-value=0.56 Score=45.25 Aligned_cols=55 Identities=15% Similarity=0.217 Sum_probs=40.5
Q ss_pred CcceEEEecCCccHHHHHHHHHCCC--------CeEEEeec-hHHHHhCCCC----C--CceEEEcccCC
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQ--------IKAVNFDL-PHVVQDAPSY----A--GVEHVGGNMFE 251 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~--------l~~~~~Dl-p~v~~~a~~~----~--ri~~~~gD~f~ 251 (273)
...+|+|.|||+|.++.+++++.+. +..+++|+ |.++..+... . .+++..+|+..
T Consensus 31 ~~~~ilDP~cGsG~fl~~~~~~~~~~~~~~~~~~~i~g~DId~~a~~~a~~~l~~~~~~~~~i~~~d~l~ 100 (524)
T TIGR02987 31 TKTKIIDPCCGDGRLIAALLKKNEEINYFKEVELNIYFADIDKTLLKRAKKLLGEFALLEINVINFNSLS 100 (524)
T ss_pred cceEEEeCCCCccHHHHHHHHHHHhcCCcccceeeeeeechhHHHHHHHHHHHhhcCCCCceeeeccccc
Confidence 4569999999999999999998863 45688898 6666655421 2 46667777664
No 337
>PF02295 z-alpha: Adenosine deaminase z-alpha domain; InterPro: IPR000607 Double-stranded RNA-specific adenosine deaminase (3.5 from EC) converts multiple adenosines to inosines and creates I/U mismatched base pairs in double-helical RNA substrates without apparent sequence specificity. DRADA has been found to modify adenosines in AU-rich regions more frequently, probably due to the relative ease of melting A/U base pairs compared to G/C base pairs. The protein functions to modify viral RNA genomes, and may be responsible for hypermutation of certain negative-stranded viruses. DRADA edits the mRNAs for the glutamate receptor subunits by site-selective adenosine deamination. The DRADA repeat is also found in viral E3 proteins, which contain a double-stranded RNA-binding domain.; GO: 0003723 RNA binding, 0003726 double-stranded RNA adenosine deaminase activity; PDB: 1OYI_A 3EYI_A 2L4M_A 2HEO_D 1J75_A 1SFU_B 3IRR_B 2ACJ_C 3F22_B 2L54_A ....
Probab=86.32 E-value=0.59 Score=31.87 Aligned_cols=60 Identities=17% Similarity=0.207 Sum_probs=44.8
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
.+-.|++.|...|+.++-.+|...|++ ++...+.+.|.-|...|.+...+ +.+-.|++++
T Consensus 5 ~ee~Il~~L~~~g~~~a~~ia~~~~L~--~~kk~VN~~LY~L~k~g~v~k~~-~~PP~W~l~~ 64 (66)
T PF02295_consen 5 LEEKILDFLKELGGSTATAIAKALGLS--VPKKEVNRVLYRLEKQGKVCKEG-GTPPKWSLTE 64 (66)
T ss_dssp HHHHHHHHHHHHTSSEEEHHHHHHHHT--S-HHHHHHHHHHHHHTTSEEEEC-SSSTEEEE-H
T ss_pred HHHHHHHHHHhcCCccHHHHHHHhCcc--hhHHHHHHHHHHHHHCCCEeeCC-CCCCceEecc
Confidence 566788899988877888888888871 13789999999999999998753 2445676664
No 338
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=86.19 E-value=0.96 Score=39.42 Aligned_cols=47 Identities=19% Similarity=0.251 Sum_probs=42.5
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
-+..|.+.|.+.|..++.|||+.+++ ++.-++|=|..|...|++.+.
T Consensus 6 R~~~Il~~L~~~~~v~v~eLa~~l~V----S~~TIRRDL~~Le~~g~l~r~ 52 (256)
T PRK10434 6 RQAAILEYLQKQGKTSVEELAQYFDT----TGTTIRKDLVILEHAGTVIRT 52 (256)
T ss_pred HHHHHHHHHHHcCCEEHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEE
Confidence 34568899999889999999999999 999999999999999999873
No 339
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=85.82 E-value=1.1 Score=35.53 Aligned_cols=42 Identities=19% Similarity=0.378 Sum_probs=36.9
Q ss_pred hChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCce
Q 024046 47 LGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVL 92 (273)
Q Consensus 47 lglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll 92 (273)
.-|+++|...|.+|-++||+.+|+ +...++++|..|..-+++
T Consensus 4 ~~v~d~L~~~~~~~dedLa~~l~i----~~n~vRkiL~~L~ed~~~ 45 (147)
T smart00531 4 FLVLDALMRNGCVTEEDLAELLGI----KQKQLRKILYLLYDEKLI 45 (147)
T ss_pred EeehHHHHhcCCcCHHHHHHHhCC----CHHHHHHHHHHHHhhhcc
Confidence 347888887789999999999999 999999999999995554
No 340
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=85.55 E-value=1.4 Score=41.94 Aligned_cols=70 Identities=9% Similarity=0.105 Sum_probs=57.2
Q ss_pred HHHhChhHHHHh-CCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhcCCCC
Q 024046 44 AIQLGVFEIIAK-AGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVSNKDG 118 (273)
Q Consensus 44 a~elglfd~L~~-~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~~~~~ 118 (273)
..+..|+..|.. .+..+.++||+.+|+ +...+.+.+..|.+.|+++... .....|.+|+.++..+.+..+
T Consensus 6 ~~e~~iL~~l~~~~~~~~~~~la~~~~~----~~~~v~~~~~~L~~kg~v~~~~-~~~~~~~LT~eG~~~~~~G~P 76 (494)
T PTZ00326 6 LEENTILSKLESENEIVNSLALAESLNI----DHQKVVGAIKSLESANYITTEM-KKSNTWTLTEEGEDYLKNGSP 76 (494)
T ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHcCC----CHHHHHHHHHHHHhCCCEEEEE-EEEEEEEECHHHHHHHHcCCH
Confidence 455667788876 358999999999999 9999999999999999998643 244689999999887777543
No 341
>PF13730 HTH_36: Helix-turn-helix domain
Probab=85.43 E-value=1.1 Score=28.85 Aligned_cols=29 Identities=17% Similarity=0.278 Sum_probs=27.6
Q ss_pred CHHHHHHHhCcCCCCCcchHHHHHHHHhcCCce
Q 024046 60 SAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVL 92 (273)
Q Consensus 60 t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll 92 (273)
|.+.||+.+|+ +.+.+.+.++.|+..|++
T Consensus 27 S~~~la~~~g~----s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLGV----SRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHCc----CHHHHHHHHHHHHHCcCC
Confidence 89999999999 999999999999999985
No 342
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=85.41 E-value=1.7 Score=38.33 Aligned_cols=47 Identities=13% Similarity=0.118 Sum_probs=39.3
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVS 109 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s 109 (273)
..++++||+.|+- +++...++.-|..|...|++++ .++|.|..|..+
T Consensus 137 ~~~~~~ia~~l~p--~is~~ev~~sL~~L~~~glikk---~~~g~y~~t~~~ 183 (271)
T TIGR02147 137 ADDPEELAKRCFP--KISAEQVKESLDLLERLGLIKK---NEDGFYKQTDKA 183 (271)
T ss_pred CCCHHHHHHHhCC--CCCHHHHHHHHHHHHHCCCeeE---CCCCcEEeecce
Confidence 4479999999991 2288999999999999999998 467899988764
No 343
>COG1565 Uncharacterized conserved protein [Function unknown]
Probab=85.36 E-value=2 Score=39.19 Aligned_cols=97 Identities=16% Similarity=0.280 Sum_probs=55.2
Q ss_pred CcchHHHHHHHHHhcchhhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHH----CC----CCeEEEeec-hHHHHhC
Q 024046 166 NPRFNETYHEAMFNHSTIAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSK----YP----QIKAVNFDL-PHVVQDA 236 (273)
Q Consensus 166 ~~~~~~~f~~am~~~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~----~P----~l~~~~~Dl-p~v~~~a 236 (273)
.|+..+.|-+..+-+-. +.| ..+. .+.+-.+|++|.|+|.++.-+++. +| .++..+++. |...+.-
T Consensus 51 Apels~lFGella~~~~---~~w-q~~g-~p~~~~lvEiGaG~G~l~~DiL~~l~~L~P~~~~~~~~~iiE~s~~L~~~Q 125 (370)
T COG1565 51 APELSQLFGELLAEQFL---QLW-QELG-RPAPLKLVEIGAGRGTLASDILRTLRRLYPELYEALSYYIIEPSPELRARQ 125 (370)
T ss_pred chhHHHHHHHHHHHHHH---HHH-HHhc-CCCCceEEEeCCCcChHHHHHHHHHHHhCHHHHhcceEEEEecCHHHHHHH
Confidence 46777778876643321 122 2222 445678999999999988776655 56 467777776 6554432
Q ss_pred CCC-CCc-eEEE-cccCCCCCCC-CEEEecccccc
Q 024046 237 PSY-AGV-EHVG-GNMFESVPEG-DAILMKVGNFE 267 (273)
Q Consensus 237 ~~~-~ri-~~~~-gD~f~~~p~~-D~~~l~~vLHd 267 (273)
++. ..+ ..+. ..+++..|+. +.++++|=|-|
T Consensus 126 k~~L~~~~~~~~~~~~~e~~p~~~~~i~~~NElfD 160 (370)
T COG1565 126 KETLKATEDLIRWVEWVEDLPKKFPGIVVSNELFD 160 (370)
T ss_pred HHHHhccccchhHHHHHHhccccCceEEEechhhc
Confidence 211 111 1222 2333456665 66666665544
No 344
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=85.35 E-value=1.2 Score=39.19 Aligned_cols=47 Identities=9% Similarity=0.182 Sum_probs=42.7
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
....|.+.|...|..++.|||+.+|+ +++-++|=|..|...|++.+.
T Consensus 18 R~~~Il~~L~~~~~vtv~eLa~~l~V----S~~TIRRDL~~Le~~G~l~r~ 64 (269)
T PRK09802 18 RREQIIQRLRQQGSVQVNDLSALYGV----STVTIRNDLAFLEKQGIAVRA 64 (269)
T ss_pred HHHHHHHHHHHcCCEeHHHHHHHHCC----CHHHHHHHHHHHHhCCCeEEE
Confidence 44568889998889999999999999 999999999999999999974
No 345
>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=85.34 E-value=1.2 Score=36.20 Aligned_cols=44 Identities=20% Similarity=0.286 Sum_probs=39.9
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChh
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPV 108 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~ 108 (273)
-.|..+||+.+|+ +.+-+.|.+..|...+++.+ ...|.|.++|.
T Consensus 75 ~~t~~~ia~~l~i----S~~Tv~r~ik~L~e~~iI~k---~~~G~Y~iNP~ 118 (165)
T PF05732_consen 75 VATQKEIAEKLGI----SKPTVSRAIKELEEKNIIKK---IRNGAYMINPN 118 (165)
T ss_pred EeeHHHHHHHhCC----CHHHHHHHHHHHHhCCcEEE---ccCCeEEECcH
Confidence 5689999999999 99999999999999999998 36689999985
No 346
>PF04072 LCM: Leucine carboxyl methyltransferase; InterPro: IPR007213 This entry represents a group of leucine carboxymethyltransferases which methylate the carboxyl group of leucine residues to form alpha-leucine ester residues. It includes LCTM1 which regulates the activity of serine/threonine phosphatase 2A (PP2A) through methylation of the C-terminal leucine residue of the catalytic subunit of PP2A [, , ]. This affects the heteromultimeric composition of PP2A which in turn affects protein recognition and substrate specificity. Like many other methyltransferases LCTM1 uses S-adenosylmethionine (SAM) as the methyl donor. LCTM1 contains the common SAM-dependent methyltransferase core fold, with various insertions and additions creating a specific PP2A binding site []. This entry also contains LCTM2, a homologue of LCTM1 which is not necessary for PP2A methylation and whose function is not clear.; GO: 0008168 methyltransferase activity; PDB: 2UYQ_A 2CKD_B 2UYO_A 2ZZK_B 2ZWA_B 2ZW9_B 1RJE_C 2OB2_B 1RJF_A 1RJD_A ....
Probab=85.24 E-value=1.8 Score=35.53 Aligned_cols=56 Identities=16% Similarity=0.287 Sum_probs=41.8
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCC---------CCceEEEcccCC
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSY---------AGVEHVGGNMFE 251 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~---------~ri~~~~gD~f~ 251 (273)
++...||-+|||-=...-.+...+|+++.+=+|+|+|++.-++. .+.++++.|+.+
T Consensus 77 ~~~~qvV~LGaGlDTr~~Rl~~~~~~~~~~evD~p~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~~ 141 (183)
T PF04072_consen 77 PGARQVVNLGAGLDTRAYRLDNPAGGVRWFEVDLPEVIALKRRLLPESGARPPANYRYVPADLRD 141 (183)
T ss_dssp TTESEEEEET-TT--HHHHHHHTTTTEEEEEEE-HHHHHHHHHHHHHTHHHHHEESSEEES-TTS
T ss_pred CCCcEEEEcCCCCCchHHHhhccccceEEEEeCCHHHHHHHHHHHHhCcccCCcceeEEeccccc
Confidence 45669999999999999999999999999999999998754431 236789999996
No 347
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=85.10 E-value=1.7 Score=37.50 Aligned_cols=45 Identities=18% Similarity=0.248 Sum_probs=40.7
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
+..|.+.|.+.+..+++|||+.+|+ +++-++|-|..|...|.+.+
T Consensus 6 ~~~Il~~l~~~~~~~~~eLa~~l~V----S~~TiRRdL~~L~~~~~l~r 50 (240)
T PRK10411 6 QQAIVDLLLNHTSLTTEALAEQLNV----SKETIRRDLNELQTQGKILR 50 (240)
T ss_pred HHHHHHHHHHcCCCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEE
Confidence 3457888888789999999999999 99999999999999999986
No 348
>KOG3924 consensus Putative protein methyltransferase involved in meiosis and transcriptional silencing (Dot1) [Cell cycle control, cell division, chromosome partitioning; Transcription]
Probab=84.58 E-value=1.1 Score=41.33 Aligned_cols=79 Identities=18% Similarity=0.408 Sum_probs=53.1
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec---hHHHHhCCC-------------CCCceEEEcccCC
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL---PHVVQDAPS-------------YAGVEHVGGNMFE 251 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl---p~v~~~a~~-------------~~ri~~~~gD~f~ 251 (273)
+.+.+. ......++|+|+|.|.....++...-.-..+++++ |.-++.... ...++++.|+|..
T Consensus 184 i~dEl~-~g~~D~F~DLGSGVGqlv~~~aa~a~~k~svG~eim~~pS~~a~~~~~~~kk~~k~fGk~~~~~~~i~gsf~~ 262 (419)
T KOG3924|consen 184 IVDELK-LGPADVFMDLGSGVGQLVCFVAAYAGCKKSVGFEIMDKPSQCAELNKEEFKKLMKHFGKKPNKIETIHGSFLD 262 (419)
T ss_pred HHHHhc-cCCCCcccCCCcccchhhHHHHHhhccccccceeeecCcHHHHHHHHHHHHHHHHHhCCCcCceeecccccCC
Confidence 334433 55678999999999997776665544444455554 554443321 1458999999997
Q ss_pred C------CCCCCEEEecccccc
Q 024046 252 S------VPEGDAILMKVGNFE 267 (273)
Q Consensus 252 ~------~p~~D~~~l~~vLHd 267 (273)
+ +++++++++.++..+
T Consensus 263 ~~~v~eI~~eatvi~vNN~~Fd 284 (419)
T KOG3924|consen 263 PKRVTEIQTEATVIFVNNVAFD 284 (419)
T ss_pred HHHHHHHhhcceEEEEecccCC
Confidence 3 456799999998765
No 349
>KOG4058 consensus Uncharacterized conserved protein [Function unknown]
Probab=84.44 E-value=1.1 Score=35.65 Aligned_cols=64 Identities=20% Similarity=0.224 Sum_probs=41.8
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCC
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFE 251 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~ 251 (273)
+.++..++ -.+..+++|+|.|.|....+.++.. -...++++| |=.+.-++- ..+.+|..-|+|+
T Consensus 62 ~nVLSll~-~n~~GklvDlGSGDGRiVlaaar~g-~~~a~GvELNpwLVaysrl~a~R~g~~k~trf~RkdlwK 133 (199)
T KOG4058|consen 62 ENVLSLLR-GNPKGKLVDLGSGDGRIVLAAARCG-LRPAVGVELNPWLVAYSRLHAWRAGCAKSTRFRRKDLWK 133 (199)
T ss_pred HHHHHHcc-CCCCCcEEeccCCCceeehhhhhhC-CCcCCceeccHHHHHHHHHHHHHHhcccchhhhhhhhhh
Confidence 34555554 3345899999999999888877765 345788998 444443331 1456666666665
No 350
>PRK01381 Trp operon repressor; Provisional
Probab=83.98 E-value=5.1 Score=29.57 Aligned_cols=39 Identities=26% Similarity=0.319 Sum_probs=30.5
Q ss_pred HHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHH
Q 024046 43 AAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLL 86 (273)
Q Consensus 43 ~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L 86 (273)
.+.+++|+..|.. |++|-.|||+.+|+ +-..+.|.-+.|
T Consensus 41 l~~R~~I~~~L~~-g~~sQREIa~~lGv----SiaTITRgsn~L 79 (99)
T PRK01381 41 LGTRVRIVEELLR-GELSQREIKQELGV----GIATITRGSNSL 79 (99)
T ss_pred HHHHHHHHHHHHc-CCcCHHHHHHHhCC----ceeeehhhHHHh
Confidence 3678999999987 79999999999999 555555544444
No 351
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=83.97 E-value=1.7 Score=39.04 Aligned_cols=56 Identities=13% Similarity=0.160 Sum_probs=43.9
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCc-eeccccCCCcceecChh
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRV-LECSVSGGERLYALNPV 108 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gl-l~~~~~~~~~~y~lt~~ 108 (273)
...|.+.|.+..+.+.++||+.+|+ +...+.+.++.|...|+ +... ....|.+.+.
T Consensus 6 ~~~il~~L~~~~~~s~~~LA~~lgv----sr~tV~~~l~~L~~~G~~i~~~---~~~Gy~L~~~ 62 (319)
T PRK11886 6 MLQLLSLLADGDFHSGEQLGEELGI----SRAAIWKHIQTLEEWGLDIFSV---KGKGYRLAEP 62 (319)
T ss_pred HHHHHHHHHcCCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCceEEe---cCCeEEecCc
Confidence 4567788887458999999999999 99999999999999999 5431 2235776543
No 352
>KOG1709 consensus Guanidinoacetate methyltransferase and related proteins [Amino acid transport and metabolism]
Probab=83.81 E-value=4.7 Score=34.30 Aligned_cols=65 Identities=22% Similarity=0.359 Sum_probs=51.5
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCC-----CCceEEEcccCC---CCCCC--CEEE
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSY-----AGVEHVGGNMFE---SVPEG--DAIL 260 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~-----~ri~~~~gD~f~---~~p~~--D~~~ 260 (273)
.+..+||.||-|-|.....+.++.|+.+.|+---|.|.+..+.. ++|-.+.|-+-. .+|.+ |-|+
T Consensus 100 tkggrvLnVGFGMgIidT~iQe~~p~~H~IiE~hp~V~krmr~~gw~ek~nViil~g~WeDvl~~L~d~~FDGI~ 174 (271)
T KOG1709|consen 100 TKGGRVLNVGFGMGIIDTFIQEAPPDEHWIIEAHPDVLKRMRDWGWREKENVIILEGRWEDVLNTLPDKHFDGIY 174 (271)
T ss_pred hCCceEEEeccchHHHHHHHhhcCCcceEEEecCHHHHHHHHhcccccccceEEEecchHhhhccccccCcceeE
Confidence 67899999999999999999999999999999999999987653 566666654443 46643 5544
No 353
>PRK09775 putative DNA-binding transcriptional regulator; Provisional
Probab=83.73 E-value=1.6 Score=41.21 Aligned_cols=54 Identities=28% Similarity=0.285 Sum_probs=40.6
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhc
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVS 109 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s 109 (273)
|...|.+ ||.|+.||++.+|+ +...+.+.|+.| .|+|........-.|++....
T Consensus 5 ~~~~L~~-g~~~~~eL~~~l~~----sq~~~s~~L~~L--~~~V~~~~~gr~~~Y~l~~~~ 58 (442)
T PRK09775 5 LTTLLLQ-GPLSAAELAARLGV----SQATLSRLLAAL--GDQVVRFGKARATRYALLRPL 58 (442)
T ss_pred HHHHHhc-CCCCHHHHHHHhCC----CHHHHHHHHHHh--hcceeEeccCceEEEEecccc
Confidence 5566776 89999999999999 999999999999 777765322222356665543
No 354
>PF05584 Sulfolobus_pRN: Sulfolobus plasmid regulatory protein; InterPro: IPR008848 This family consists of several plasmid regulatory proteins from the extreme thermophilic and acidophilic archaea Sulfolobus.
Probab=83.72 E-value=2.9 Score=28.96 Aligned_cols=42 Identities=17% Similarity=0.158 Sum_probs=37.7
Q ss_pred ChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 48 GVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 48 glfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
.|...|+. +..|.++|-+.+|+ +...+...|.-|...|++++
T Consensus 9 ~IL~~ls~-~c~TLeeL~ekTgi----~k~~LlV~LsrL~k~GiI~R 50 (72)
T PF05584_consen 9 KILIILSK-RCCTLEELEEKTGI----SKNTLLVYLSRLAKRGIIER 50 (72)
T ss_pred HHHHHHHh-ccCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeee
Confidence 45667776 49999999999999 99999999999999999996
No 355
>COG0640 ArsR Predicted transcriptional regulators [Transcription]
Probab=83.68 E-value=3 Score=29.59 Aligned_cols=54 Identities=22% Similarity=0.346 Sum_probs=46.4
Q ss_pred HHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 38 PMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 38 ~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
..++....++.++..|.+.++.++.+|+..+++ +...+.+.|..|...|+++..
T Consensus 19 ~~~l~~~~r~~il~~l~~~~~~~~~~l~~~~~~----~~~~v~~hL~~L~~~glv~~~ 72 (110)
T COG0640 19 LKALADPTRLEILSLLAEGGELTVGELAEALGL----SQSTVSHHLKVLREAGLVELR 72 (110)
T ss_pred HHHhCCHHHHHHHHHHHhcCCccHHHHHHHHCC----ChhHHHHHHHHHHHCCCeEEE
Confidence 445556688889989987348899999999999 999999999999999999973
No 356
>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=83.65 E-value=1.4 Score=30.89 Aligned_cols=35 Identities=17% Similarity=0.227 Sum_probs=24.2
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV 87 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 87 (273)
++..|+...|.|+++||.++|. +...+...|..+-
T Consensus 29 LLr~LA~G~PVt~~~LA~a~g~----~~e~v~~~L~~~p 63 (77)
T PF12324_consen 29 LLRLLAKGQPVTVEQLAAALGW----PVEEVRAALAAMP 63 (77)
T ss_dssp HHHHHTTTS-B-HHHHHHHHT------HHHHHHHHHH-T
T ss_pred HHHHHHcCCCcCHHHHHHHHCC----CHHHHHHHHHhCC
Confidence 7788988449999999999999 7777777666654
No 357
>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=83.61 E-value=4.9 Score=29.38 Aligned_cols=41 Identities=20% Similarity=0.240 Sum_probs=33.5
Q ss_pred HHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh
Q 024046 42 QAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV 87 (273)
Q Consensus 42 ~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 87 (273)
..+.+.+|+..|.. +++|-.|||+.+|+ +...+.|+=+.|.
T Consensus 40 ~l~~R~~i~~~Ll~-~~~tQrEIa~~lGi----S~atIsR~sn~lk 80 (94)
T TIGR01321 40 DLGDRIRIVNELLN-GNMSQREIASKLGV----SIATITRGSNNLK 80 (94)
T ss_pred HHHHHHHHHHHHHh-CCCCHHHHHHHhCC----ChhhhhHHHhhcc
Confidence 34678999998877 68999999999999 8877777666554
No 358
>PF11968 DUF3321: Putative methyltransferase (DUF3321); InterPro: IPR021867 This family is conserved in fungi and is annotated as being a nucleolar protein.
Probab=83.56 E-value=0.86 Score=38.57 Aligned_cols=63 Identities=17% Similarity=0.121 Sum_probs=45.4
Q ss_pred cceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCCCCceEEEcccCC-CCCC---C--CEEEecccccccCCC
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSYAGVEHVGGNMFE-SVPE---G--DAILMKVGNFENYQS 271 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gD~f~-~~p~---~--D~~~l~~vLHd~~~~ 271 (273)
.-++||||+=+..... +.++-+.++-+||-. .++ .+...||++ |+|. . |+|.++-||-..|+.
T Consensus 52 ~lrlLEVGals~~N~~---s~~~~fdvt~IDLns------~~~--~I~qqDFm~rplp~~~~e~FdvIs~SLVLNfVP~p 120 (219)
T PF11968_consen 52 KLRLLEVGALSTDNAC---STSGWFDVTRIDLNS------QHP--GILQQDFMERPLPKNESEKFDVISLSLVLNFVPDP 120 (219)
T ss_pred cceEEeecccCCCCcc---cccCceeeEEeecCC------CCC--CceeeccccCCCCCCcccceeEEEEEEEEeeCCCH
Confidence 3689999987554333 245666788888833 123 456899999 8883 2 999999999988864
No 359
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=83.48 E-value=2 Score=35.33 Aligned_cols=48 Identities=21% Similarity=0.351 Sum_probs=43.0
Q ss_pred HHHhChhHHHHhCC-CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 44 AIQLGVFEIIAKAG-ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 44 a~elglfd~L~~~g-~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
-++..|.|.|...| ..|+-+||+++|+ +.+.+.|.|.-|...|.|...
T Consensus 4 ~~~~~i~~~l~~~~~~~~a~~i~k~l~i----~k~~vNr~LY~L~~~~~v~~~ 52 (183)
T PHA02701 4 DCASLILTLLSSSGDKLPAKRIAKELGI----SKHEANRCLYRLLESDAVSCE 52 (183)
T ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHhCc----cHHHHHHHHHHHhhcCcEecC
Confidence 35678999999988 7999999999999 999999999999999999753
No 360
>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=83.48 E-value=1.5 Score=32.34 Aligned_cols=47 Identities=21% Similarity=0.246 Sum_probs=38.9
Q ss_pred HHHhChhHHHHh----CCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 44 AIQLGVFEIIAK----AGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 44 a~elglfd~L~~----~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
.+.-.|++.|.. ..++++++|++.+++ ++..++..++.|...|.+..
T Consensus 47 ~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~----~~~~v~~al~~L~~eG~IYs 97 (102)
T PF08784_consen 47 PLQDKVLNFIKQQPNSEEGVHVDEIAQQLGM----SENEVRKALDFLSNEGHIYS 97 (102)
T ss_dssp HHHHHHHHHHHC----TTTEEHHHHHHHSTS-----HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHhcCCCCCcccHHHHHHHhCc----CHHHHHHHHHHHHhCCeEec
Confidence 345667778776 137999999999999 99999999999999999964
No 361
>KOG4589 consensus Cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning]
Probab=83.46 E-value=3.1 Score=34.59 Aligned_cols=42 Identities=19% Similarity=0.310 Sum_probs=34.0
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL 229 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl 229 (273)
|-+.|.-+.+..+|+|+|+-.|..+-...++. |+-.+.++|+
T Consensus 60 indKy~~l~p~~~VlD~G~APGsWsQVavqr~~p~g~v~gVDl 102 (232)
T KOG4589|consen 60 INDKYRFLRPEDTVLDCGAAPGSWSQVAVQRVNPNGMVLGVDL 102 (232)
T ss_pred ehhhccccCCCCEEEEccCCCChHHHHHHHhhCCCceEEEEee
Confidence 33455446678999999999999998777665 9988999998
No 362
>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=83.24 E-value=2.1 Score=28.61 Aligned_cols=34 Identities=24% Similarity=0.298 Sum_probs=30.0
Q ss_pred CC-CHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 58 EL-SAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 58 ~~-t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.+ |..+||+..|+ +..-+++.|+.|.+.|+++..
T Consensus 23 ~lps~~~la~~~~v----sr~tvr~al~~L~~~g~i~~~ 57 (64)
T PF00392_consen 23 RLPSERELAERYGV----SRTTVREALRRLEAEGLIERR 57 (64)
T ss_dssp BE--HHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred EeCCHHHHHHHhcc----CCcHHHHHHHHHHHCCcEEEE
Confidence 66 89999999999 999999999999999999874
No 363
>PF13518 HTH_28: Helix-turn-helix domain
Probab=83.20 E-value=2.2 Score=26.79 Aligned_cols=38 Identities=21% Similarity=0.299 Sum_probs=31.4
Q ss_pred ChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCc
Q 024046 48 GVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRV 91 (273)
Q Consensus 48 glfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gl 91 (273)
.+...+.+ |. |+.++|+.+|+ +...+.+|++.....|+
T Consensus 4 ~iv~~~~~-g~-s~~~~a~~~gi----s~~tv~~w~~~y~~~G~ 41 (52)
T PF13518_consen 4 QIVELYLE-GE-SVREIAREFGI----SRSTVYRWIKRYREGGI 41 (52)
T ss_pred HHHHHHHc-CC-CHHHHHHHHCC----CHhHHHHHHHHHHhcCH
Confidence 34555554 44 99999999999 99999999999998885
No 364
>PF04989 CmcI: Cephalosporin hydroxylase; InterPro: IPR007072 This entry contains Rhamnosyl O-methyltransferase which catalyses the O-methylation of the hydroxyl group located on C-2 of the first rhamnosyl residue linked to the phenolic group of glycosylated phenolphthiocerol dimycocerosates (PGL) and p-hydroxybenzoic acid derivatives (p-HBAD) []. Members of this family are about 220 amino acids long. It also includes the CmcI protein O85726 from SWISSPROT, which is presumed to represent the cephalosporin-7--hydroxylase []. However this has not been experimentally verified.; GO: 0008168 methyltransferase activity, 0008610 lipid biosynthetic process; PDB: 2BR4_B 2BR3_E 2BR5_E 2BM8_J 2BM9_E.
Probab=82.95 E-value=1.5 Score=36.92 Aligned_cols=55 Identities=13% Similarity=0.235 Sum_probs=32.1
Q ss_pred CcceEEEecCCccHHH---HHHHHHC-CCCeEEEeec--hHHHHhCCCC----CCceEEEcccCC
Q 024046 197 NVERLVDVGGGFGVTL---SMITSKY-PQIKAVNFDL--PHVVQDAPSY----AGVEHVGGNMFE 251 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~---~~l~~~~-P~l~~~~~Dl--p~v~~~a~~~----~ri~~~~gD~f~ 251 (273)
++.+|+++|--+|.-+ ..+++.+ ++.+++++|+ +..-..+.+. +||+++.||--.
T Consensus 32 kPd~IIE~Gi~~GGSli~~A~ml~~~~~~~~VigiDIdir~~~~~a~e~hp~~~rI~~i~Gds~d 96 (206)
T PF04989_consen 32 KPDLIIETGIAHGGSLIFWASMLELLGGKGKVIGIDIDIRPHNRKAIESHPMSPRITFIQGDSID 96 (206)
T ss_dssp --SEEEEE--TTSHHHHHHHHHHHHTT---EEEEEES-GTT--S-GGGG----TTEEEEES-SSS
T ss_pred CCCeEEEEecCCCchHHHHHHHHHHhCCCceEEEEeCCcchhchHHHhhccccCceEEEECCCCC
Confidence 5689999997666644 4556666 8889999998 3332333333 899999999875
No 365
>COG0500 SmtA SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]
Probab=82.35 E-value=4.9 Score=29.91 Aligned_cols=66 Identities=21% Similarity=0.331 Sum_probs=40.9
Q ss_pred EEEecCCccHHHHHHHHHCCC-CeEEEeec-hHHHHhCCCC---CC---ceEEEcccCC---CCCC--C-CEEEeccccc
Q 024046 201 LVDVGGGFGVTLSMITSKYPQ-IKAVNFDL-PHVVQDAPSY---AG---VEHVGGNMFE---SVPE--G-DAILMKVGNF 266 (273)
Q Consensus 201 vvDVGGG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~~---~r---i~~~~gD~f~---~~p~--~-D~~~l~~vLH 266 (273)
++|+|||.|... .+....+. ...+++|. +..+..+... .. +.+..+|... +++. . |++ .....+
T Consensus 52 ~ld~~~g~g~~~-~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~-~~~~~~ 129 (257)
T COG0500 52 VLDIGCGTGRLA-LLARLGGRGAYVVGVDLSPEMLALARARAEGAGLGLVDFVVADALGGVLPFEDSASFDLV-ISLLVL 129 (257)
T ss_pred eEEecCCcCHHH-HHHHhCCCCceEEEEeCCHHHHHHHHhhhhhcCCCceEEEEeccccCCCCCCCCCceeEE-eeeeeh
Confidence 999999999977 44444443 36677887 5445443221 11 6788888775 4443 3 888 555544
Q ss_pred cc
Q 024046 267 EN 268 (273)
Q Consensus 267 d~ 268 (273)
.+
T Consensus 130 ~~ 131 (257)
T COG0500 130 HL 131 (257)
T ss_pred hc
Confidence 43
No 366
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=82.25 E-value=1.9 Score=37.55 Aligned_cols=46 Identities=22% Similarity=0.329 Sum_probs=42.5
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+-.|.+.|.+.|..+++|||+.+++ ++.-++|=|+.|...|++.+.
T Consensus 7 ~~~Il~~l~~~g~v~v~eLa~~~~V----S~~TIRRDL~~Le~~g~l~R~ 52 (253)
T COG1349 7 HQKILELLKEKGKVSVEELAELFGV----SEMTIRRDLNELEEQGLLLRV 52 (253)
T ss_pred HHHHHHHHHHcCcEEHHHHHHHhCC----CHHHHHHhHHHHHHCCcEEEE
Confidence 3458889999899999999999999 999999999999999999984
No 367
>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=81.66 E-value=1.6 Score=27.10 Aligned_cols=30 Identities=33% Similarity=0.441 Sum_probs=20.4
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHH
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLR 84 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~ 84 (273)
+...+.+ | .|+.+||+.+|+ +..-+.|+|+
T Consensus 14 i~~l~~~-G-~si~~IA~~~gv----sr~TvyR~l~ 43 (45)
T PF02796_consen 14 IKELYAE-G-MSIAEIAKQFGV----SRSTVYRYLN 43 (45)
T ss_dssp HHHHHHT-T---HHHHHHHTTS-----HHHHHHHHC
T ss_pred HHHHHHC-C-CCHHHHHHHHCc----CHHHHHHHHh
Confidence 4445544 5 999999999999 8888877763
No 368
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=81.64 E-value=2.9 Score=39.12 Aligned_cols=44 Identities=20% Similarity=0.138 Sum_probs=37.7
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
.|.|.++|++.+++ +++.++++|+.|...|++.+ .+++.|.+..
T Consensus 309 ~~~t~~~La~~l~~----~~~~v~~iL~~L~~agLI~~---~~~g~~~l~r 352 (412)
T PRK04214 309 KALDVDEIRRLEPM----GYDELGELLCELARIGLLRR---GERGQWVLAR 352 (412)
T ss_pred CCCCHHHHHHHhCC----CHHHHHHHHHHHHhCCCeEe---cCCCceEecC
Confidence 38999999999999 99999999999999999986 3445675553
No 369
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=81.00 E-value=3.7 Score=34.06 Aligned_cols=57 Identities=23% Similarity=0.219 Sum_probs=42.1
Q ss_pred hChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecccc----CCCcceecChhch
Q 024046 47 LGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVS----GGERLYALNPVSK 110 (273)
Q Consensus 47 lglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~----~~~~~y~lt~~s~ 110 (273)
+.++..|+..+|.|-.||++..|+ +. ..+++-|...|++.+.+. +.+-.|.+|+...
T Consensus 93 LEtLaiIay~qPiTr~eI~~irGv----~~---~~ii~~L~~~gLI~e~gr~~~~Grp~ly~tT~~F~ 153 (188)
T PRK00135 93 LEVLAIIAYKQPITRIEIDEIRGV----NS---DGALQTLLAKGLIKEVGRKEVPGRPILYGTTDEFL 153 (188)
T ss_pred HHHHHHHHHcCCcCHHHHHHHHCC----CH---HHHHHHHHHCCCeEEcCcCCCCCCCeeeehhHHHH
Confidence 346777877789999999999999 65 789999999999986321 1223466666543
No 370
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=80.73 E-value=1.9 Score=27.02 Aligned_cols=41 Identities=15% Similarity=0.200 Sum_probs=24.0
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCc
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRV 91 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gl 91 (273)
.++.+...+.+ +.|..+||+.+|+ +..-+.++++.....|+
T Consensus 6 ~R~~ii~l~~~--G~s~~~ia~~lgv----s~~Tv~~w~kr~~~~G~ 46 (50)
T PF13384_consen 6 RRAQIIRLLRE--GWSIREIAKRLGV----SRSTVYRWIKRYREEGL 46 (50)
T ss_dssp ----HHHHHHH--T--HHHHHHHHTS-----HHHHHHHHT-------
T ss_pred HHHHHHHHHHC--CCCHHHHHHHHCc----CHHHHHHHHHHcccccc
Confidence 45566767766 6999999999999 99999999988776663
No 371
>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=80.66 E-value=3.8 Score=26.95 Aligned_cols=55 Identities=22% Similarity=0.224 Sum_probs=42.0
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh---cCCceeccccCCCcceecChhch
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV---SHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~---~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
++.+|.++.+. .++..-|+.+++ ++..+.+.++.|. ..-+|++ ..+.+.+|+.++
T Consensus 3 ~l~~f~~v~~~--gs~~~AA~~l~i----s~~~vs~~i~~LE~~lg~~Lf~r----~~~~~~lT~~G~ 60 (60)
T PF00126_consen 3 QLRYFLAVAET--GSISAAAEELGI----SQSAVSRQIKQLEEELGVPLFER----SGRGLRLTEAGE 60 (60)
T ss_dssp HHHHHHHHHHH--SSHHHHHHHCTS----SHHHHHHHHHHHHHHHTS-SEEE----CSSSEEE-HHHH
T ss_pred HHHHHHHHHHh--CCHHHHHHHhhc----cchHHHHHHHHHHHHhCCeEEEE----CCCCeeEChhhC
Confidence 45678888884 599999999999 9999999988887 4667876 344588888753
No 372
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=80.40 E-value=4.1 Score=31.63 Aligned_cols=48 Identities=19% Similarity=0.262 Sum_probs=39.3
Q ss_pred HHHhChhHHHHhCCCCCHHHHHHHh----CcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 44 AIQLGVFEIIAKAGELSAPEIAAQL----QAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 44 a~elglfd~L~~~g~~t~~eLA~~~----g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
..|+.|...|=..|+.|+.||.+.+ ++ +..-+..+|+-|...|++...
T Consensus 4 ~~E~~VM~vlW~~~~~t~~eI~~~l~~~~~~----~~tTv~T~L~rL~~KG~v~~~ 55 (130)
T TIGR02698 4 DAEWEVMRVVWTLGETTSRDIIRILAEKKDW----SDSTIKTLLGRLVDKGCLTTE 55 (130)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHhhccCC----cHHHHHHHHHHHHHCCceeee
Confidence 3566777787666899999977776 56 788999999999999999863
No 373
>KOG2915 consensus tRNA(1-methyladenosine) methyltransferase, subunit GCD14 [Translation, ribosomal structure and biogenesis]
Probab=80.37 E-value=10 Score=33.46 Aligned_cols=89 Identities=17% Similarity=0.250 Sum_probs=60.8
Q ss_pred HHHHHHHhcchh----hHHHHHhhcccCCCcceEEEecCCccHHHHHHHHHC-CCCeEEEeec-----hHHHHhCCCC--
Q 024046 172 TYHEAMFNHSTI----AMERILEHYEGFQNVERLVDVGGGFGVTLSMITSKY-PQIKAVNFDL-----PHVVQDAPSY-- 239 (273)
Q Consensus 172 ~f~~am~~~~~~----~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~~~Dl-----p~v~~~a~~~-- 239 (273)
.|..+|--.+++ .+.-|+..++ .....+|++-|.|+|.++..++++- |.=+..-||. .++.+..+++
T Consensus 77 LWTl~LphRTQI~Yt~Dia~I~~~L~-i~PGsvV~EsGTGSGSlShaiaraV~ptGhl~tfefH~~Ra~ka~eeFr~hgi 155 (314)
T KOG2915|consen 77 LWTLALPHRTQILYTPDIAMILSMLE-IRPGSVVLESGTGSGSLSHAIARAVAPTGHLYTFEFHETRAEKALEEFREHGI 155 (314)
T ss_pred HhhhhccCcceEEecccHHHHHHHhc-CCCCCEEEecCCCcchHHHHHHHhhCcCcceEEEEecHHHHHHHHHHHHHhCC
Confidence 344455555553 2455677777 7788999999999999999999996 5556677776 2233333333
Q ss_pred -CCceEEEcccCCC-CC--C--CCEEEe
Q 024046 240 -AGVEHVGGNMFES-VP--E--GDAILM 261 (273)
Q Consensus 240 -~ri~~~~gD~f~~-~p--~--~D~~~l 261 (273)
+.+++..-|.-.. ++ + +|+|+|
T Consensus 156 ~~~vt~~hrDVc~~GF~~ks~~aDaVFL 183 (314)
T KOG2915|consen 156 GDNVTVTHRDVCGSGFLIKSLKADAVFL 183 (314)
T ss_pred CcceEEEEeecccCCccccccccceEEE
Confidence 6788888887662 33 2 388876
No 374
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=80.33 E-value=1.5 Score=36.32 Aligned_cols=46 Identities=15% Similarity=0.041 Sum_probs=41.7
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
-+..|.+.|...|..++.+||+.+|+ ++.-++|=|..|...|++.+
T Consensus 8 R~~~Il~~l~~~~~~~~~~La~~~~v----S~~TiRRDl~~L~~~g~~~r 53 (185)
T PRK04424 8 RQKALQELIEENPFITDEELAEKFGV----SIQTIRLDRMELGIPELRER 53 (185)
T ss_pred HHHHHHHHHHHCCCEEHHHHHHHHCc----CHHHHHHHHHHHhcchHHHH
Confidence 34457888998889999999999999 99999999999999999986
No 375
>PRK09954 putative kinase; Provisional
Probab=79.98 E-value=2.9 Score=38.08 Aligned_cols=44 Identities=16% Similarity=0.188 Sum_probs=40.3
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCcee
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLE 93 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~ 93 (273)
+..|++.|.+.+++|..+||+.+++ +...+.+.++-|...|++.
T Consensus 5 ~~~il~~l~~~~~~s~~~la~~l~~----s~~~v~~~i~~L~~~g~i~ 48 (362)
T PRK09954 5 EKEILAILRRNPLIQQNEIADILQI----SRSRVAAHIMDLMRKGRIK 48 (362)
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCcC
Confidence 4458889998789999999999999 9999999999999999986
No 376
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=79.66 E-value=1.8 Score=36.52 Aligned_cols=44 Identities=20% Similarity=0.228 Sum_probs=36.2
Q ss_pred hHHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHH
Q 024046 36 VLPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLL 86 (273)
Q Consensus 36 ~~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L 86 (273)
..-.+|+.|.++|-||.=+ ..++.|||+.+|+ ++..+...||-.
T Consensus 159 rQ~~vL~~A~~~GYFd~PR---~~~l~dLA~~lGI----Skst~~ehLRrA 202 (215)
T COG3413 159 RQLEVLRLAYKMGYFDYPR---RVSLKDLAKELGI----SKSTLSEHLRRA 202 (215)
T ss_pred HHHHHHHHHHHcCCCCCCc---cCCHHHHHHHhCC----CHHHHHHHHHHH
Confidence 5678999999999998644 5899999999999 777776666643
No 377
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=79.52 E-value=2.4 Score=32.25 Aligned_cols=34 Identities=15% Similarity=0.162 Sum_probs=32.3
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+.|++|||+.+.+ +++.++.+|+-|...|.++..
T Consensus 19 ~vtl~elA~~l~c----S~Rn~r~lLkkm~~~gWi~W~ 52 (115)
T PF12793_consen 19 EVTLDELAELLFC----SRRNARTLLKKMQEEGWITWQ 52 (115)
T ss_pred ceeHHHHHHHhCC----CHHHHHHHHHHHHHCCCeeee
Confidence 7899999999999 999999999999999999963
No 378
>KOG2651 consensus rRNA adenine N-6-methyltransferase [RNA processing and modification]
Probab=79.20 E-value=4 Score=37.59 Aligned_cols=46 Identities=17% Similarity=0.393 Sum_probs=35.7
Q ss_pred HHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHH
Q 024046 188 ILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQ 234 (273)
Q Consensus 188 il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~ 234 (273)
++..+..+.+..++||||.|.|+++.-+.-.| ++++..+|-.++..
T Consensus 144 lvSsi~~f~gi~~vvD~GaG~G~LSr~lSl~y-~lsV~aIegsq~~~ 189 (476)
T KOG2651|consen 144 LVSSISDFTGIDQVVDVGAGQGHLSRFLSLGY-GLSVKAIEGSQRLV 189 (476)
T ss_pred HHHHHHhhcCCCeeEEcCCCchHHHHHHhhcc-CceEEEeccchHHH
Confidence 34444347789999999999999999888887 57899999865443
No 379
>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=79.02 E-value=2.5 Score=27.87 Aligned_cols=39 Identities=21% Similarity=0.256 Sum_probs=32.4
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV 87 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~ 87 (273)
-++.|++.|.+.+..|+.+||+.+|+ +++-+..-+..|.
T Consensus 6 rq~~Ll~~L~~~~~~~~~ela~~l~~----S~rti~~~i~~L~ 44 (59)
T PF08280_consen 6 RQLKLLELLLKNKWITLKELAKKLNI----SERTIKNDINELN 44 (59)
T ss_dssp HHHHHHHHHHHHTSBBHHHHHHHCTS-----HHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCCcHHHHHHHHCC----CHHHHHHHHHHHH
Confidence 46678888887679999999999999 9988888877776
No 380
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=78.19 E-value=2.1 Score=25.89 Aligned_cols=27 Identities=22% Similarity=0.367 Sum_probs=21.0
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVS 88 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 88 (273)
+.|+++||..+|+ ++..+.|.++....
T Consensus 8 ~~~l~~iA~~~g~----S~~~f~r~Fk~~~g 34 (42)
T PF00165_consen 8 KLTLEDIAEQAGF----SPSYFSRLFKKETG 34 (42)
T ss_dssp S--HHHHHHHHTS-----HHHHHHHHHHHTS
T ss_pred CCCHHHHHHHHCC----CHHHHHHHHHHHHC
Confidence 7999999999999 99999998876543
No 381
>PRK12423 LexA repressor; Provisional
Probab=78.12 E-value=4.1 Score=34.05 Aligned_cols=35 Identities=17% Similarity=0.180 Sum_probs=30.5
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+-|..|||+.+|+. ++..++..|+.|...|+++..
T Consensus 25 ~Ps~~eia~~~g~~---s~~~v~~~l~~L~~~G~l~~~ 59 (202)
T PRK12423 25 PPSLAEIAQAFGFA---SRSVARKHVQALAEAGLIEVV 59 (202)
T ss_pred CCCHHHHHHHhCCC---ChHHHHHHHHHHHHCCCEEec
Confidence 56999999999951 677889999999999999973
No 382
>KOG2940 consensus Predicted methyltransferase [General function prediction only]
Probab=78.10 E-value=2.8 Score=36.03 Aligned_cols=71 Identities=13% Similarity=0.157 Sum_probs=50.9
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC--CCc--eEEEcccCC-CCCCC--CEEEeccccccc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY--AGV--EHVGGNMFE-SVPEG--DAILMKVGNFEN 268 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~--~ri--~~~~gD~f~-~~p~~--D~~~l~~vLHd~ 268 (273)
...+..|||||.|++...|..+.-+ +.+..|. -.+++.++.. +.| +...+|=-. ++.+. |+++-+.-||-.
T Consensus 72 ~fp~a~diGcs~G~v~rhl~~e~ve-kli~~DtS~~M~~s~~~~qdp~i~~~~~v~DEE~Ldf~ens~DLiisSlslHW~ 150 (325)
T KOG2940|consen 72 SFPTAFDIGCSLGAVKRHLRGEGVE-KLIMMDTSYDMIKSCRDAQDPSIETSYFVGDEEFLDFKENSVDLIISSLSLHWT 150 (325)
T ss_pred hCcceeecccchhhhhHHHHhcchh-heeeeecchHHHHHhhccCCCceEEEEEecchhcccccccchhhhhhhhhhhhh
Confidence 4688999999999999999998732 5688887 6677777653 444 334455433 55554 998888888743
No 383
>COG0742 N6-adenine-specific methylase [DNA replication, recombination, and repair]
Probab=78.09 E-value=4.2 Score=33.70 Aligned_cols=64 Identities=13% Similarity=0.101 Sum_probs=47.2
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC-------CCCceEEEcccCCC---CC-C--CCEEEe
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS-------YAGVEHVGGNMFES---VP-E--GDAILM 261 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gD~f~~---~p-~--~D~~~l 261 (273)
...++||+=+|+|.++.+.+.+.-. +++.+|. ..++..+++ ..+++++..|-+.- .+ . .|+|++
T Consensus 43 ~g~~~LDlFAGSGaLGlEAlSRGA~-~~~~vE~~~~a~~~l~~N~~~l~~~~~~~~~~~da~~~L~~~~~~~~FDlVfl 120 (187)
T COG0742 43 EGARVLDLFAGSGALGLEALSRGAA-RVVFVEKDRKAVKILKENLKALGLEGEARVLRNDALRALKQLGTREPFDLVFL 120 (187)
T ss_pred CCCEEEEecCCccHhHHHHHhCCCc-eEEEEecCHHHHHHHHHHHHHhCCccceEEEeecHHHHHHhcCCCCcccEEEe
Confidence 4589999999999999999999764 6888887 555554443 26788888888741 11 1 388776
No 384
>PF13814 Replic_Relax: Replication-relaxation
Probab=78.09 E-value=5.3 Score=32.67 Aligned_cols=61 Identities=18% Similarity=0.244 Sum_probs=48.0
Q ss_pred HHHHhCCCCCHHHHHHHhCcCCCCCcc---hHHHHHHHHhcCCceecccc-------CCCcceecChhchHhhcC
Q 024046 51 EIIAKAGELSAPEIAAQLQAQNVKAPM---MLDRMLRLLVSHRVLECSVS-------GGERLYALNPVSKYFVSN 115 (273)
Q Consensus 51 d~L~~~g~~t~~eLA~~~g~~~~~~~~---~l~rlL~~L~~~gll~~~~~-------~~~~~y~lt~~s~~l~~~ 115 (273)
..|.+.+.+|.++|+..+.. +.. .+.+.|+-|...|++..... ..+..|.+|+.+..++.+
T Consensus 2 ~~L~~~r~lt~~Qi~~l~~~----~~~~~~~~~rrL~~L~~~glv~~~~~~~~~~~g~~~~vy~Lt~~G~~~l~~ 72 (191)
T PF13814_consen 2 RLLARHRFLTTDQIARLLFP----SSKSERTARRRLKRLRELGLVDRFRRRVGARGGSQPYVYYLTPAGARLLAD 72 (191)
T ss_pred hhHHHhcCcCHHHHHHHHcC----CCcchHHHHHHHHHHhhCCcEEeecccccccCCCcceEEEECHHHHHHHHh
Confidence 35666678999999999998 554 79999999999999997532 133479999999866653
No 385
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=77.89 E-value=2.5 Score=34.40 Aligned_cols=35 Identities=20% Similarity=0.156 Sum_probs=33.0
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.|+|++||++++|+ +...+..-++-|...|++...
T Consensus 40 ~Pmtl~Ei~E~lg~----Sks~vS~~lkkL~~~~lV~~~ 74 (177)
T COG1510 40 KPLTLDEIAEALGM----SKSNVSMGLKKLQDWNLVKKV 74 (177)
T ss_pred CCccHHHHHHHHCC----CcchHHHHHHHHHhcchHHhh
Confidence 59999999999999 999999999999999999863
No 386
>PF11994 DUF3489: Protein of unknown function (DUF3489); InterPro: IPR021880 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 84 to 211 amino acids in length. This protein has a single completely conserved residue W that may be functionally important.
Probab=77.22 E-value=7.6 Score=26.88 Aligned_cols=42 Identities=12% Similarity=0.099 Sum_probs=34.0
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHH--hcCCceec
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLL--VSHRVLEC 94 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L--~~~gll~~ 94 (273)
|.+.|...+..|+++|++++|. -+.-++-.|--+ ..+|+--.
T Consensus 15 li~mL~rp~GATi~ei~~atGW----q~HTvRgalsg~~kKklGl~i~ 58 (72)
T PF11994_consen 15 LIAMLRRPEGATIAEICEATGW----QPHTVRGALSGLLKKKLGLTIT 58 (72)
T ss_pred HHHHHcCCCCCCHHHHHHhhCC----chhhHHHHHHHHHHHhcCcEEE
Confidence 5677877679999999999999 888888888777 66676554
No 387
>PF05206 TRM13: Methyltransferase TRM13; InterPro: IPR007871 This entry consists of eukaryotic and bacterial proteins that specifically methylates guanosine-4 in various tRNAs with a Gly(CCG), His or Pro signatures []. The alignment contains some conserved cysteines and histidines that might form a zinc binding site.; GO: 0008168 methyltransferase activity, 0008033 tRNA processing
Probab=76.88 E-value=7.3 Score=34.07 Aligned_cols=35 Identities=17% Similarity=0.219 Sum_probs=31.4
Q ss_pred CCCcceEEEecCCccHHHHHHHHHC-----CCCeEEEeec
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKY-----PQIKAVNFDL 229 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~-----P~l~~~~~Dl 229 (273)
+.+...+|+.|+|.|.++..+.... +..+++++|+
T Consensus 16 l~~~~~~vEfGaGrg~LS~~v~~~~~~~~~~~~~~~lIDR 55 (259)
T PF05206_consen 16 LNPDSCFVEFGAGRGELSRWVAQALQEDKPSNSRFVLIDR 55 (259)
T ss_pred CCCCCEEEEECCCchHHHHHHHHHhhhcccCCccEEEEec
Confidence 5677899999999999999999999 5678899998
No 388
>PF03428 RP-C: Replication protein C N-terminal domain; InterPro: IPR005090 Proteins in this group have homology with the RepC protein of Agrobacterium Ri and Ti plasmids []. They may be involved in plasmid replication and stabilisation functions.
Probab=76.81 E-value=3.8 Score=33.70 Aligned_cols=35 Identities=23% Similarity=0.159 Sum_probs=31.5
Q ss_pred CCCHHHHHHHh-CcCCCCCcchHHHHHHHHhcCCceeccc
Q 024046 58 ELSAPEIAAQL-QAQNVKAPMMLDRMLRLLVSHRVLECSV 96 (273)
Q Consensus 58 ~~t~~eLA~~~-g~~~~~~~~~l~rlL~~L~~~gll~~~~ 96 (273)
-.|-..|+..+ |+ +++.++|+++.|+..|++...+
T Consensus 70 fpSN~~La~r~~G~----s~~tlrR~l~~LveaGLI~rrD 105 (177)
T PF03428_consen 70 FPSNAQLAERLNGM----SERTLRRHLARLVEAGLIVRRD 105 (177)
T ss_pred ecCHHHHHHHHcCC----CHHHHHHHHHHHHHCCCeeecc
Confidence 35779999999 99 9999999999999999999743
No 389
>KOG1562 consensus Spermidine synthase [Amino acid transport and metabolism]
Probab=76.79 E-value=1.5 Score=38.91 Aligned_cols=66 Identities=21% Similarity=0.358 Sum_probs=49.5
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCe-EEEeec-hHHHHhCCC----------CCCceEEEcccCC---CCCCC--C
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIK-AVNFDL-PHVVQDAPS----------YAGVEHVGGNMFE---SVPEG--D 257 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~~~Dl-p~v~~~a~~----------~~ri~~~~gD~f~---~~p~~--D 257 (273)
.+++..++=||||.|.+++...++ +.+- ..++|. ..|++.... .+||..+.||-|. ..+++ |
T Consensus 119 ~~npkkvlVVgggDggvlrevikH-~~ve~i~~~eiD~~Vie~sk~y~p~la~gy~~~~v~l~iGDG~~fl~~~~~~~~d 197 (337)
T KOG1562|consen 119 HPNPKKVLVVGGGDGGVLREVIKH-KSVENILLCEIDENVIESSKQYLPTLACGYEGKKVKLLIGDGFLFLEDLKENPFD 197 (337)
T ss_pred CCCCCeEEEEecCCccceeeeecc-ccccceeeehhhHHHHHHHHHHhHHHhcccCCCceEEEeccHHHHHHHhccCCce
Confidence 557899999999999999999998 7664 466676 445554433 2899999999886 45443 8
Q ss_pred EEEe
Q 024046 258 AILM 261 (273)
Q Consensus 258 ~~~l 261 (273)
+++.
T Consensus 198 Vii~ 201 (337)
T KOG1562|consen 198 VIIT 201 (337)
T ss_pred EEEE
Confidence 8764
No 390
>PF11312 DUF3115: Protein of unknown function (DUF3115); InterPro: IPR021463 This eukaryotic family of proteins has no known function.
Probab=76.07 E-value=13 Score=33.37 Aligned_cols=38 Identities=26% Similarity=0.545 Sum_probs=28.4
Q ss_pred cceEEEecCCccHHHHHHHHHC--------------------CCCeEEEeec---hHHHHh
Q 024046 198 VERLVDVGGGFGVTLSMITSKY--------------------PQIKAVNFDL---PHVVQD 235 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~--------------------P~l~~~~~Dl---p~v~~~ 235 (273)
..+||-||||.|.=..+|+..+ |.++.+++|. ..|+..
T Consensus 87 ~~~VlCIGGGAGAElVAlAa~~~~~~~~~~s~~~~~~~~~~~~~l~itlvDiAdWs~VV~~ 147 (315)
T PF11312_consen 87 SLRVLCIGGGAGAELVALAAAFRTRSSEFLSKSPSGVSLSSPPSLSITLVDIADWSSVVDR 147 (315)
T ss_pred CceEEEECCChHHHHHHHHHHHhhcccccCCcccccccccCCCcceEEEEEecChHHHHHH
Confidence 3799999999998666666655 3478899997 555553
No 391
>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=76.04 E-value=3.1 Score=28.95 Aligned_cols=34 Identities=21% Similarity=0.089 Sum_probs=30.4
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
...|..|||+.+|+ ++..+..++..+...|.+..
T Consensus 31 eGlS~kEIAe~LGI----S~~TVk~~l~~~~~~~~~~~ 64 (73)
T TIGR03879 31 AGKTASEIAEELGR----TEQTVRNHLKGETKAGGLVK 64 (73)
T ss_pred cCCCHHHHHHHHCc----CHHHHHHHHhcCcccchHHH
Confidence 37999999999999 99999999999888888754
No 392
>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=75.87 E-value=3.3 Score=31.32 Aligned_cols=65 Identities=25% Similarity=0.346 Sum_probs=46.5
Q ss_pred HHHHhChhHHHHhCC-CCCHHHHHHHhCcC-CCCCcchHHHHHHHHhcCCceeccccC-CCcceecCh
Q 024046 43 AAIQLGVFEIIAKAG-ELSAPEIAAQLQAQ-NVKAPMMLDRMLRLLVSHRVLECSVSG-GERLYALNP 107 (273)
Q Consensus 43 ~a~elglfd~L~~~g-~~t~~eLA~~~g~~-~~~~~~~l~rlL~~L~~~gll~~~~~~-~~~~y~lt~ 107 (273)
+.-+.-|++.|.+.+ +.|+++|-+.+.-. +.++..-+.|.|+.|...|++.+.... +...|..+.
T Consensus 7 T~~R~~Il~~l~~~~~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~~~~~~~~~~Y~~~~ 74 (120)
T PF01475_consen 7 TPQRLAILELLKESPEHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRKIEFGDGESRYELST 74 (120)
T ss_dssp HHHHHHHHHHHHHHSSSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEETTSEEEEEESS
T ss_pred CHHHHHHHHHHHcCCCCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEEEEcCCCcceEeecC
Confidence 456777888888854 99999999988631 122666799999999999999986421 123566554
No 393
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=75.64 E-value=3.9 Score=35.23 Aligned_cols=65 Identities=22% Similarity=0.351 Sum_probs=49.5
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC--------CCceEEEcccCC---CCCC-C-CEEE
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY--------AGVEHVGGNMFE---SVPE-G-DAIL 260 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~--------~ri~~~~gD~f~---~~p~-~-D~~~ 260 (273)
.+...+|+|..+|-|-.+++.+++--. .++-++- |.|++.|.-+ .+|+++.||.++ .++. . |+++
T Consensus 132 ~~~G~rVLDtC~GLGYtAi~a~~rGA~-~VitvEkdp~VLeLa~lNPwSr~l~~~~i~iilGD~~e~V~~~~D~sfDaIi 210 (287)
T COG2521 132 VKRGERVLDTCTGLGYTAIEALERGAI-HVITVEKDPNVLELAKLNPWSRELFEIAIKIILGDAYEVVKDFDDESFDAII 210 (287)
T ss_pred cccCCEeeeeccCccHHHHHHHHcCCc-EEEEEeeCCCeEEeeccCCCCccccccccEEecccHHHHHhcCCccccceEe
Confidence 346789999999999999999998542 4555554 8998877653 578999999998 4663 2 7753
No 394
>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=75.50 E-value=5.5 Score=35.17 Aligned_cols=68 Identities=15% Similarity=0.242 Sum_probs=38.3
Q ss_pred CcceEEEecCCccHH-HHHHHHHC-CCCeEEEeec-hHHHHhCCC--------CCCceEEEcccCC-C--CCCCCEEEec
Q 024046 197 NVERLVDVGGGFGVT-LSMITSKY-PQIKAVNFDL-PHVVQDAPS--------YAGVEHVGGNMFE-S--VPEGDAILMK 262 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~-~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gD~f~-~--~p~~D~~~l~ 262 (273)
.+.+|+=||+|.==+ ++.+++.+ ++..++.+|. |+.++.++. ..|++|+.+|... + +...|+|++.
T Consensus 120 ~p~rVaFIGSGPLPlT~i~la~~~~~~~~v~~iD~d~~A~~~a~~lv~~~~~L~~~m~f~~~d~~~~~~dl~~~DvV~lA 199 (276)
T PF03059_consen 120 PPSRVAFIGSGPLPLTSIVLAKQHGPGARVHNIDIDPEANELARRLVASDLGLSKRMSFITADVLDVTYDLKEYDVVFLA 199 (276)
T ss_dssp ---EEEEE---SS-HHHHHHH--HTT--EEEEEESSHHHHHHHHHHHH---HH-SSEEEEES-GGGG-GG----SEEEE-
T ss_pred ccceEEEEcCCCcchHHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHhhcccccCCeEEEecchhccccccccCCEEEEh
Confidence 357999999996654 45555554 7888999998 777776643 2789999999986 2 2334998886
Q ss_pred cc
Q 024046 263 VG 264 (273)
Q Consensus 263 ~v 264 (273)
..
T Consensus 200 al 201 (276)
T PF03059_consen 200 AL 201 (276)
T ss_dssp TT
T ss_pred hh
Confidence 53
No 395
>PF05971 Methyltransf_10: Protein of unknown function (DUF890); InterPro: IPR010286 This family consists of several conserved hypothetical proteins from both eukaryotes and prokaryotes. The function of members of this family are unknown but are predicted to be SAM-dependent methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 2H00_A.
Probab=74.98 E-value=5 Score=35.80 Aligned_cols=56 Identities=21% Similarity=0.313 Sum_probs=35.5
Q ss_pred CcceEEEecCCccHH-HHHHHHHCCCCeEEEeec-hHHHHhCCCC--------CCceEEEc----ccCCCC
Q 024046 197 NVERLVDVGGGFGVT-LSMITSKYPQIKAVNFDL-PHVVQDAPSY--------AGVEHVGG----NMFESV 253 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~-~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~--------~ri~~~~g----D~f~~~ 253 (273)
...+++|||+|.-.. .+..++.| +.++++-|. |..++.|+.. +||+++.. ++|..+
T Consensus 102 ~~v~glDIGTGAscIYpLLg~~~~-~W~fvaTdID~~sl~~A~~nv~~N~~L~~~I~l~~~~~~~~i~~~i 171 (299)
T PF05971_consen 102 EKVRGLDIGTGASCIYPLLGAKLY-GWSFVATDIDPKSLESARENVERNPNLESRIELRKQKNPDNIFDGI 171 (299)
T ss_dssp ---EEEEES-TTTTHHHHHHHHHH---EEEEEES-HHHHHHHHHHHHHT-T-TTTEEEEE--ST-SSTTTS
T ss_pred cceEeecCCccHHHHHHHHhhhhc-CCeEEEecCCHHHHHHHHHHHHhccccccceEEEEcCCccccchhh
Confidence 467899999998864 44445555 899999998 6667776542 68988753 567643
No 396
>KOG0822 consensus Protein kinase inhibitor [Cell cycle control, cell division, chromosome partitioning]
Probab=74.91 E-value=13 Score=35.73 Aligned_cols=94 Identities=17% Similarity=0.302 Sum_probs=58.2
Q ss_pred hhhhhhcCcchHHHHHHHHHhcchhhHHHHHhhcccCC--CcceEEEecCCccHHHHHHHHHC----CCCeEEEeec-hH
Q 024046 159 IFEYASGNPRFNETYHEAMFNHSTIAMERILEHYEGFQ--NVERLVDVGGGFGVTLSMITSKY----PQIKAVNFDL-PH 231 (273)
Q Consensus 159 ~~~~~~~~~~~~~~f~~am~~~~~~~~~~il~~~~~~~--~~~~vvDVGGG~G~~~~~l~~~~----P~l~~~~~Dl-p~ 231 (273)
.|+.+++|+-.-+.|.+|.- .++++..+.-+ ....|.=+|||.|-+..+.+++- -.++.++++- |.
T Consensus 334 TYetFEkD~VKY~~Yq~Ai~-------~AL~Drvpd~~a~~~tVimvlGaGRGPLv~~~lkaa~~~~RkVklyavEKNPN 406 (649)
T KOG0822|consen 334 TYETFEKDPVKYDQYQQAIL-------KALLDRVPDESAKTTTVIMVLGAGRGPLVDASLKAAEETDRKVKLYAVEKNPN 406 (649)
T ss_pred hhhhhhccchHHHHHHHHHH-------HHHHhhCcccccCceEEEEEecCCCccHHHHHHHHHHHhcCceEEEEEecCcc
Confidence 46667777765555555442 23444333122 25678889999999877666553 2455566664 77
Q ss_pred HHHhCCC------CCCceEEEcccCC-CCC-C-CCEE
Q 024046 232 VVQDAPS------YAGVEHVGGNMFE-SVP-E-GDAI 259 (273)
Q Consensus 232 v~~~a~~------~~ri~~~~gD~f~-~~p-~-~D~~ 259 (273)
++..... .+||+++..||.+ .-| + +|++
T Consensus 407 AivtL~~~n~~~W~~~Vtii~~DMR~w~ap~eq~DI~ 443 (649)
T KOG0822|consen 407 AIVTLQNRNFECWDNRVTIISSDMRKWNAPREQADII 443 (649)
T ss_pred hhhhhhhhchhhhcCeeEEEeccccccCCchhhccch
Confidence 6654432 2799999999988 433 2 4764
No 397
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=74.88 E-value=7.3 Score=31.64 Aligned_cols=53 Identities=19% Similarity=0.297 Sum_probs=42.5
Q ss_pred HHHHhChhHHHHhC-CCCCHHHHHHHhCcC-CCCCcchHHHHHHHHhcCCceecc
Q 024046 43 AAIQLGVFEIIAKA-GELSAPEIAAQLQAQ-NVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 43 ~a~elglfd~L~~~-g~~t~~eLA~~~g~~-~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+.-+.-|++.|... +++|+++|.+.+.-. +.++..-+.|.|+.|+..|++.+.
T Consensus 25 T~qR~~IL~~l~~~~~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv~~~ 79 (169)
T PRK11639 25 TPQRLEVLRLMSLQPGAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVHKV 79 (169)
T ss_pred CHHHHHHHHHHHhcCCCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCCCEEEE
Confidence 55677788888765 499999999888641 123777899999999999999985
No 398
>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=74.74 E-value=4.5 Score=31.04 Aligned_cols=46 Identities=17% Similarity=0.146 Sum_probs=41.1
Q ss_pred HHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhcCC
Q 024046 63 EIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVSNK 116 (273)
Q Consensus 63 eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~~~ 116 (273)
+||+.+++ +-+-|-.+++++.-+|+++. .+|-..+|+.++.|+..+
T Consensus 2 ~La~~l~~----eiDdL~p~~eAaelLgf~~~----~~Gdi~LT~~G~~f~~a~ 47 (120)
T PF09821_consen 2 QLADELHL----EIDDLLPIVEAAELLGFAEV----EEGDIRLTPLGRRFAEAD 47 (120)
T ss_pred chHHHhCC----cHHHHHHHHHHHHHcCCeee----cCCcEEeccchHHHHHCC
Confidence 58899999 99999999999999999996 678899999999888654
No 399
>PF04445 SAM_MT: Putative SAM-dependent methyltransferase; InterPro: IPR007536 This family of proteins is functionally uncharacterised.; PDB: 2PGX_A 2OYR_A 2R6Z_A 2PKW_A.
Probab=74.72 E-value=4.6 Score=34.73 Aligned_cols=73 Identities=14% Similarity=0.272 Sum_probs=43.8
Q ss_pred HHHhhcccCCCc--ceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhC--------CCC--------CCceEEEcc
Q 024046 187 RILEHYEGFQNV--ERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDA--------PSY--------AGVEHVGGN 248 (273)
Q Consensus 187 ~il~~~~~~~~~--~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a--------~~~--------~ri~~~~gD 248 (273)
.++++.. +++. .+|||.=+|-|.-+..++.. ..++++++...++... ... .||+++.+|
T Consensus 64 ~l~kA~G-lk~~~~~~VLDaTaGLG~Da~vlA~~--G~~V~~lErspvia~Ll~dGL~r~~~~~~~~~~~~~ri~l~~~d 140 (234)
T PF04445_consen 64 PLAKAVG-LKPGMRPSVLDATAGLGRDAFVLASL--GCKVTGLERSPVIAALLKDGLKRAQQDPELLAEAMRRIQLIHGD 140 (234)
T ss_dssp HHHHHTT--BTTB---EEETT-TTSHHHHHHHHH--T--EEEEE--HHHHHHHHHHHHHHHHSTTTHHHHHHHEEEEES-
T ss_pred HHHHHhC-CCCCCCCEEEECCCcchHHHHHHHcc--CCeEEEEECCHHHHHHHHHHHHHHHhCcHhHHHHHhCCEEEcCC
Confidence 4556654 4443 49999999999999888765 6689999984433321 111 589999999
Q ss_pred cCCC--CCC-C-CEEEec
Q 024046 249 MFES--VPE-G-DAILMK 262 (273)
Q Consensus 249 ~f~~--~p~-~-D~~~l~ 262 (273)
..+- .|. . |+|++=
T Consensus 141 ~~~~L~~~~~s~DVVY~D 158 (234)
T PF04445_consen 141 ALEYLRQPDNSFDVVYFD 158 (234)
T ss_dssp CCCHCCCHSS--SEEEE-
T ss_pred HHHHHhhcCCCCCEEEEC
Confidence 9883 443 2 999873
No 400
>PF09929 DUF2161: Uncharacterized conserved protein (DUF2161); InterPro: IPR018679 This family of various hypothetical prokaryotic proteins has no known function.
Probab=74.51 E-value=5.7 Score=30.23 Aligned_cols=50 Identities=18% Similarity=0.242 Sum_probs=38.0
Q ss_pred HHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhch
Q 024046 51 EIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 51 d~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
.+|.+.||.+..+|++.++. + ...++|+- .-.|-|++. +.|.|.+|+.++
T Consensus 66 ~~L~~~Gp~~~~~l~~~~~~----~--~A~~IL~~-N~YGWFeRv---~rGvY~LT~~G~ 115 (118)
T PF09929_consen 66 AALAEHGPSRPADLRKATGV----P--KATSILRD-NHYGWFERV---ERGVYALTPAGR 115 (118)
T ss_pred HHHHHcCCCCHHHHHHhcCC----C--hHHHHHHh-Ccccceeee---ccceEecCcchh
Confidence 47777799999999999997 3 33344432 457889984 779999999875
No 401
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=74.14 E-value=5.4 Score=26.60 Aligned_cols=51 Identities=12% Similarity=0.076 Sum_probs=36.4
Q ss_pred HHHhCCCCCHHHHHHHhCcCCCCCcc-hHHHHHHHHhcCCceeccccCCCcceecChhch
Q 024046 52 IIAKAGELSAPEIAAQLQAQNVKAPM-MLDRMLRLLVSHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 52 ~L~~~g~~t~~eLA~~~g~~~~~~~~-~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
.|.-..+++.+++.+..|. +.. .....+..+...|+++. .++.+++|+.+.
T Consensus 14 ~LR~~~Gi~~~~~~~~~g~----~~~~~~~~~l~~l~~~Gll~~----~~~~l~lT~~G~ 65 (66)
T PF06969_consen 14 GLRCNEGIDLSEFEQRFGI----DFAEEFQKELEELQEDGLLEI----DGGRLRLTEKGR 65 (66)
T ss_dssp HHHHHSEEEHHHHHHHTT------THHH-HHHHHHHHHTTSEEE-----SSEEEE-TTTG
T ss_pred HHHhHCCcCHHHHHHHHCc----CHHHHHHHHHHHHHHCCCEEE----eCCEEEECcccC
Confidence 3333347899999999998 633 44788999999999996 678999998764
No 402
>PF09681 Phage_rep_org_N: N-terminal phage replisome organiser (Phage_rep_org_N); InterPro: IPR010056 This entry is represented by the N-terminal domain of Bacteriophage A500, Gp45. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The proteins in this entry contains a region of low-complexity sequence that reflects DNA direct repeats able to function as an origin of phage replication. The low-complexity region is adjacent to this N-terminal domain.
Probab=73.81 E-value=6.9 Score=30.05 Aligned_cols=46 Identities=11% Similarity=0.107 Sum_probs=40.5
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhch
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
|-|.++||..++- +.+-++.-|.++...|+++.. +++.|.++....
T Consensus 53 py~~e~LA~~~~~----~~~~V~~AL~~f~k~glIe~~---ed~~i~i~~~~~ 98 (121)
T PF09681_consen 53 PYTAEMLALEFDR----PVDTVRLALAVFQKLGLIEID---EDGVIYIPNWEK 98 (121)
T ss_pred CCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe---cCCeEEeecHHH
Confidence 9999999999999 999999999999999999983 677787776443
No 403
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=73.73 E-value=3.2 Score=33.21 Aligned_cols=32 Identities=19% Similarity=0.291 Sum_probs=26.9
Q ss_pred CCceEEEcccCC-CCCCC--CEEEecccccccCCC
Q 024046 240 AGVEHVGGNMFE-SVPEG--DAILMKVGNFENYQS 271 (273)
Q Consensus 240 ~ri~~~~gD~f~-~~p~~--D~~~l~~vLHd~~~~ 271 (273)
++|+++.+|..+ |++.+ |++++..++|++.|.
T Consensus 26 ~~i~~~~~d~~~lp~~~~~fD~v~~~~~l~~~~d~ 60 (160)
T PLN02232 26 KCIEWIEGDAIDLPFDDCEFDAVTMGYGLRNVVDR 60 (160)
T ss_pred CceEEEEechhhCCCCCCCeeEEEecchhhcCCCH
Confidence 579999999987 66653 999999999998763
No 404
>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=73.67 E-value=4.7 Score=28.58 Aligned_cols=32 Identities=13% Similarity=0.141 Sum_probs=27.3
Q ss_pred hChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHH
Q 024046 47 LGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRML 83 (273)
Q Consensus 47 lglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL 83 (273)
.-|.+.|.. |..|+.+||+.+|+ +..-+.|.|
T Consensus 9 ~~I~e~l~~-~~~ti~dvA~~~gv----S~~TVsr~L 40 (80)
T TIGR02844 9 LEIGKYIVE-TKATVRETAKVFGV----SKSTVHKDV 40 (80)
T ss_pred HHHHHHHHH-CCCCHHHHHHHhCC----CHHHHHHHh
Confidence 347788988 99999999999999 888888844
No 405
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=73.54 E-value=5.2 Score=33.04 Aligned_cols=33 Identities=18% Similarity=0.404 Sum_probs=31.6
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
+.|-.+||..+|+ ++..+.|+|..|...|++..
T Consensus 168 ~~t~~~lA~~lG~----tr~tvsR~l~~l~~~gii~~ 200 (211)
T PRK11753 168 KITRQEIGRIVGC----SREMVGRVLKMLEDQGLISA 200 (211)
T ss_pred CCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEe
Confidence 7889999999999 99999999999999999986
No 406
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=73.53 E-value=5.4 Score=33.72 Aligned_cols=42 Identities=12% Similarity=0.203 Sum_probs=36.2
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
|.|-++||..+|+ ....+.|+|..|...|+++. ..+.+.+..
T Consensus 184 ~lt~~~iA~~lG~----sr~tvsR~l~~l~~~g~I~~----~~~~i~i~d 225 (235)
T PRK11161 184 TMTRGDIGNYLGL----TVETISRLLGRFQKSGMLAV----KGKYITIEN 225 (235)
T ss_pred cccHHHHHHHhCC----cHHHHHHHHHHHHHCCCEEe----cCCEEEEcC
Confidence 6899999999999 99999999999999999996 445565544
No 407
>COG1189 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=73.44 E-value=12 Score=32.22 Aligned_cols=60 Identities=15% Similarity=0.134 Sum_probs=40.5
Q ss_pred HHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeEEEeec--hHHHHhCCCCCCceEEE
Q 024046 186 ERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL--PHVVQDAPSYAGVEHVG 246 (273)
Q Consensus 186 ~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl--p~v~~~a~~~~ri~~~~ 246 (273)
...++.|+...+...++|||..+|.|+-.++++-- .++..+|. -+.....+..+||..+.
T Consensus 68 ~~ale~F~l~~k~kv~LDiGsSTGGFTd~lLq~gA-k~VyavDVG~~Ql~~kLR~d~rV~~~E 129 (245)
T COG1189 68 EKALEEFELDVKGKVVLDIGSSTGGFTDVLLQRGA-KHVYAVDVGYGQLHWKLRNDPRVIVLE 129 (245)
T ss_pred HHHHHhcCcCCCCCEEEEecCCCccHHHHHHHcCC-cEEEEEEccCCccCHhHhcCCcEEEEe
Confidence 34566666334678999999999999999988743 24677776 44444445555654444
No 408
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=73.36 E-value=6.1 Score=29.76 Aligned_cols=52 Identities=25% Similarity=0.339 Sum_probs=41.9
Q ss_pred HHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 44 AIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 44 a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
..|+.|.+.|=+.|+.|+.||.+.+.-.+.....-+.-+|+-|+..|++...
T Consensus 3 ~~E~~IM~~lW~~~~~t~~eI~~~l~~~~~~~~sTv~t~L~rL~~Kg~l~~~ 54 (115)
T PF03965_consen 3 DLELEIMEILWESGEATVREIHEALPEERSWAYSTVQTLLNRLVEKGFLTRE 54 (115)
T ss_dssp HHHHHHHHHHHHHSSEEHHHHHHHHCTTSS--HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHhccccchhHHHHHHHHHHhCCceeEe
Confidence 3567778888887899999999999863233578889999999999999975
No 409
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=73.29 E-value=5.6 Score=32.64 Aligned_cols=42 Identities=14% Similarity=0.124 Sum_probs=36.0
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
++|-++||..+|+ ....+.|+|.-|...|++.. ..+...+..
T Consensus 149 ~~t~~~iA~~lG~----tretvsR~l~~l~~~g~I~~----~~~~i~I~d 190 (202)
T PRK13918 149 YATHDELAAAVGS----VRETVTKVIGELSREGYIRS----GYGKIQLLD 190 (202)
T ss_pred cCCHHHHHHHhCc----cHHHHHHHHHHHHHCCCEEc----CCCEEEEEC
Confidence 7899999999999 99999999999999999985 445555543
No 410
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=73.28 E-value=5.7 Score=32.24 Aligned_cols=33 Identities=21% Similarity=0.343 Sum_probs=31.7
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
|.|-+|||..+|+ ....+.|.|..|...|++..
T Consensus 143 ~~t~~~iA~~lG~----tretvsR~l~~l~~~g~I~~ 175 (193)
T TIGR03697 143 RLSHQAIAEAIGS----TRVTITRLLGDLRKKKLISI 175 (193)
T ss_pred CCCHHHHHHHhCC----cHHHHHHHHHHHHHCCCEEe
Confidence 6899999999999 99999999999999999986
No 411
>COG2933 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=73.01 E-value=6.2 Score=34.59 Aligned_cols=64 Identities=17% Similarity=0.164 Sum_probs=52.9
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCCCCceEEEcccCCCCC--CC-CEEEec
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSYAGVEHVGGNMFESVP--EG-DAILMK 262 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gD~f~~~p--~~-D~~~l~ 262 (273)
+.-.-||+|...|...-+|.++ ++.++.+|-..+.+.....++|+.+..|-|+-.| .. |..++-
T Consensus 211 ~~M~avDLGAcPGGWTyqLVkr--~m~V~aVDng~ma~sL~dtg~v~h~r~DGfk~~P~r~~idWmVCD 277 (358)
T COG2933 211 PGMWAVDLGACPGGWTYQLVKR--NMRVYAVDNGPMAQSLMDTGQVTHLREDGFKFRPTRSNIDWMVCD 277 (358)
T ss_pred CCceeeecccCCCccchhhhhc--ceEEEEeccchhhhhhhcccceeeeeccCcccccCCCCCceEEee
Confidence 4567899999999999999999 6889999998888777777999999999998555 23 655543
No 412
>PF08222 HTH_CodY: CodY helix-turn-helix domain; InterPro: IPR013198 This family consists of the C-terminal helix-turn-helix domain found in several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; PDB: 2B0L_C.
Probab=73.01 E-value=4.7 Score=26.54 Aligned_cols=34 Identities=32% Similarity=0.393 Sum_probs=28.3
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
|-.+.+.||++.|+ ...-+-.-||-|.+.|+++.
T Consensus 3 g~lvas~iAd~~Gi----TRSvIVNALRKleSaGvIes 36 (61)
T PF08222_consen 3 GRLVASKIADRVGI----TRSVIVNALRKLESAGVIES 36 (61)
T ss_dssp EEE-HHHHHHHHT------HHHHHHHHHHHHHTTSEEE
T ss_pred ceehHHHHHHHhCc----cHHHHHHHHHHHHhcCceee
Confidence 45789999999999 88899999999999999996
No 413
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=72.86 E-value=8.6 Score=32.64 Aligned_cols=50 Identities=24% Similarity=0.310 Sum_probs=43.9
Q ss_pred HHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 42 QAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 42 ~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
-.-.+.++++.+...++.++.|+++.+++ +-..++-+||.|.+.++++..
T Consensus 99 ~ns~R~~Iy~~i~~nPG~~lsEl~~nl~i----~R~TlRyhlriLe~~~li~a~ 148 (240)
T COG3398 99 LNSKRDGIYNYIKPNPGFSLSELRANLYI----NRSTLRYHLRILESNPLIEAG 148 (240)
T ss_pred hhhhHHHHHHHhccCCCccHHHHHHhcCC----ChHHHHHHHHHHHhCcchhhh
Confidence 33456778899988889999999999999 999999999999999999863
No 414
>PF13578 Methyltransf_24: Methyltransferase domain; PDB: 3SSO_A 3SSN_C 3SSM_D.
Probab=72.47 E-value=2.4 Score=31.09 Aligned_cols=60 Identities=20% Similarity=0.268 Sum_probs=18.5
Q ss_pred EEecCCccHHHHHHHHHCCCC---eEEEeec-h---HHHHhCCC---CCCceEEEcccCCC---CC-CC-CEEEe
Q 024046 202 VDVGGGFGVTLSMITSKYPQI---KAVNFDL-P---HVVQDAPS---YAGVEHVGGNMFES---VP-EG-DAILM 261 (273)
Q Consensus 202 vDVGGG~G~~~~~l~~~~P~l---~~~~~Dl-p---~v~~~a~~---~~ri~~~~gD~f~~---~p-~~-D~~~l 261 (273)
|+||...|..+..+++..+.. +++.+|. + .+-+..+. .++++++.||+.+- ++ .. |++++
T Consensus 1 lEiG~~~G~st~~l~~~~~~~~~~~~~~vD~~~~~~~~~~~~~~~~~~~~~~~~~g~s~~~l~~~~~~~~dli~i 75 (106)
T PF13578_consen 1 LEIGTYSGYSTLWLASALRDNGRGKLYSVDPFPGDEQAQEIIKKAGLSDRVEFIQGDSPDFLPSLPDGPIDLIFI 75 (106)
T ss_dssp --------------------------EEEESS------------GGG-BTEEEEES-THHHHHHHHH--EEEEEE
T ss_pred CccccccccccccccccccccccCCEEEEECCCcccccchhhhhcCCCCeEEEEEcCcHHHHHHcCCCCEEEEEE
Confidence 689999999999888887766 4799998 4 23333332 27899999999762 33 22 77665
No 415
>PF02319 E2F_TDP: E2F/DP family winged-helix DNA-binding domain; InterPro: IPR003316 The mammalian transcription factor E2F plays an important role in regulating the expression of genes that are required for passage through the cell cycle. Multiple E2F family members have been identified that bind to DNA as heterodimers, interacting with proteins known as DP - the dimerisation partners [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005667 transcription factor complex; PDB: 1CF7_B.
Probab=72.44 E-value=1.2 Score=30.82 Aligned_cols=44 Identities=23% Similarity=0.272 Sum_probs=34.4
Q ss_pred hhHHHHhCCCCCHHHHHHHh---CcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 49 VFEIIAKAGELSAPEIAAQL---QAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~---g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+|..... ++.++.++|+.+ +. ....+++..++.+|.++|++++.
T Consensus 16 ~~~~~~~-~~i~l~~ia~~l~~~~~--k~~~RRlYDI~NVLealgli~K~ 62 (71)
T PF02319_consen 16 LFESSPD-KSISLNEIADKLISENV--KTQRRRLYDIINVLEALGLIEKQ 62 (71)
T ss_dssp HHHHCCC-TEEEHHHHHHHCHHHCC--HHHCHHHHHHHHHHHHCTSEEEE
T ss_pred HHHHCCC-CcccHHHHHHHHccccc--ccccchhhHHHHHHHHhCceeec
Confidence 3444444 689999999999 64 11567999999999999999973
No 416
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=72.37 E-value=3.7 Score=38.09 Aligned_cols=65 Identities=15% Similarity=0.133 Sum_probs=50.4
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC--------CCceEEEcccCCC----CCCC---CEE
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY--------AGVEHVGGNMFES----VPEG---DAI 259 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~--------~ri~~~~gD~f~~----~p~~---D~~ 259 (273)
-..++|||+=|=+|.++...+..-- -++|.+|+ ..+++-|+++ +++.++.+|.|+- ...| |+|
T Consensus 216 ~~GkrvLNlFsYTGgfSv~Aa~gGA-~~vt~VD~S~~al~~a~~N~~LNg~~~~~~~~i~~Dvf~~l~~~~~~g~~fDlI 294 (393)
T COG1092 216 AAGKRVLNLFSYTGGFSVHAALGGA-SEVTSVDLSKRALEWARENAELNGLDGDRHRFIVGDVFKWLRKAERRGEKFDLI 294 (393)
T ss_pred ccCCeEEEecccCcHHHHHHHhcCC-CceEEEeccHHHHHHHHHHHHhcCCCccceeeehhhHHHHHHHHHhcCCcccEE
Confidence 3479999999999999998888743 16899998 5567766653 6789999999982 2323 998
Q ss_pred Ee
Q 024046 260 LM 261 (273)
Q Consensus 260 ~l 261 (273)
++
T Consensus 295 il 296 (393)
T COG1092 295 IL 296 (393)
T ss_pred EE
Confidence 86
No 417
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=72.35 E-value=6.1 Score=30.52 Aligned_cols=39 Identities=23% Similarity=0.347 Sum_probs=33.7
Q ss_pred CCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcce
Q 024046 59 LSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLY 103 (273)
Q Consensus 59 ~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y 103 (273)
-|+.+||..+|+ ++.-+.|..+.|...|+++.. .+.|.|
T Consensus 36 PSvRelA~~~~V----NpnTv~raY~eLE~eG~i~t~--rg~G~f 74 (125)
T COG1725 36 PSVRELAKDLGV----NPNTVQRAYQELEREGIVETK--RGKGTF 74 (125)
T ss_pred CcHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe--cCeeEE
Confidence 379999999999 999999999999999999975 234555
No 418
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=72.07 E-value=6 Score=33.23 Aligned_cols=42 Identities=17% Similarity=0.217 Sum_probs=37.5
Q ss_pred ChhHHHHhCC--CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 48 GVFEIIAKAG--ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 48 glfd~L~~~g--~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
.|++.+.+ | +.|..|||+.+++ ++.-++..+..|+..|++..
T Consensus 166 ~Vl~~~~~-g~~g~s~~eIa~~l~i----S~~Tv~~~~~~~~~~~~~~~ 209 (225)
T PRK10046 166 AVRKLFKE-PGVQHTAETVAQALTI----SRTTARRYLEYCASRHLIIA 209 (225)
T ss_pred HHHHHHHc-CCCCcCHHHHHHHhCc----cHHHHHHHHHHHHhCCeEEE
Confidence 46777776 5 6899999999999 99999999999999999985
No 419
>PRK10736 hypothetical protein; Provisional
Probab=71.81 E-value=6.7 Score=36.20 Aligned_cols=51 Identities=8% Similarity=-0.075 Sum_probs=42.7
Q ss_pred hChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceec
Q 024046 47 LGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYAL 105 (273)
Q Consensus 47 lglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~l 105 (273)
..|++.|.. +|.++++|+..+|+ +...+...|-.|.-.|++... .++.|+.
T Consensus 311 ~~v~~~l~~-~~~~iD~L~~~~~l----~~~~v~~~L~~LEl~G~v~~~---~g~~~~~ 361 (374)
T PRK10736 311 PELLANVGD-EVTPVDVVAERAGQ----PVPEVVTQLLELELAGWIAAV---PGGYVRL 361 (374)
T ss_pred HHHHHhcCC-CCCCHHHHHHHHCc----CHHHHHHHHHHHHhCCcEEEc---CCcEEEE
Confidence 457777765 58999999999999 999999999999999999983 4455554
No 420
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=71.67 E-value=10 Score=27.25 Aligned_cols=64 Identities=13% Similarity=0.140 Sum_probs=39.3
Q ss_pred hhHHHHhCCCCCHHHHHHHhC--cCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhcC
Q 024046 49 VFEIIAKAGELSAPEIAAQLQ--AQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g--~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
|.+.+.+.-..|-+|....+. -..+.=..++.=-+..|...|+++.+ ..|.|++|+.++.++..
T Consensus 25 i~~~v~~~~~ls~e~~~~~~~sg~~~~~~~~ri~Wa~~~L~~aGli~~~---~rG~~~iT~~G~~~l~~ 90 (92)
T PF14338_consen 25 IYERVAERFGLSDEERNERLPSGQGYSRFKNRIRWARSYLKKAGLIERP---KRGIWRITEKGRKALAE 90 (92)
T ss_pred HHHHHHHHhCCCHHHHHHHcccCCcchhHHHhHHHHHHHHHHCCCccCC---CCCceEECHhHHHHHhh
Confidence 444444433555555555432 10001233455567789999999974 57899999999876544
No 421
>COG1088 RfbB dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]
Probab=71.63 E-value=8.9 Score=34.29 Aligned_cols=48 Identities=29% Similarity=0.371 Sum_probs=36.7
Q ss_pred ecCCccHHHH----HHHHHCCCCeEEEeec------hHHHHhCCCCCCceEEEcccCC
Q 024046 204 VGGGFGVTLS----MITSKYPQIKAVNFDL------PHVVQDAPSYAGVEHVGGNMFE 251 (273)
Q Consensus 204 VGGG~G~~~~----~l~~~~P~l~~~~~Dl------p~v~~~a~~~~ri~~~~gD~f~ 251 (273)
|-||.|+.+. .+++.+|+.+++++|- ++.+......+|.+|+.||+-.
T Consensus 5 VTGGaGFIGsnfvr~~~~~~~d~~v~~~DkLTYAgn~~~l~~~~~~~~~~fv~~DI~D 62 (340)
T COG1088 5 VTGGAGFIGSNFVRYILNKHPDDHVVNLDKLTYAGNLENLADVEDSPRYRFVQGDICD 62 (340)
T ss_pred EecCcchHHHHHHHHHHhcCCCceEEEEecccccCCHHHHHhhhcCCCceEEeccccC
Confidence 5678887554 5677899988999995 4455555556899999999975
No 422
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=71.21 E-value=8.7 Score=32.60 Aligned_cols=70 Identities=14% Similarity=0.158 Sum_probs=53.9
Q ss_pred HHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHh
Q 024046 39 MATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYF 112 (273)
Q Consensus 39 ~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l 112 (273)
..|+-...-.+++.|.+.+..|.-+||..+|+ +..-+.-.+..|...|++.++..+..-.|.+||.-..|
T Consensus 169 ~~Lkn~~~k~I~~eiq~~~~~t~~~ia~~l~l----s~aTV~~~lk~l~~~Gii~~~~~Gr~iiy~in~s~~~~ 238 (240)
T COG3398 169 LSLKNETSKAIIYEIQENKCNTNLLIAYELNL----SVATVAYHLKKLEELGIIPEDREGRSIIYSINPSIEKL 238 (240)
T ss_pred HHhhchhHHHHHHHHhcCCcchHHHHHHHcCc----cHHHHHHHHHHHHHcCCCcccccCceEEEEeCHHHHhh
Confidence 44555555678889988557999999999999 99999999999999999998521122358888865443
No 423
>COG3388 Predicted transcriptional regulator [Transcription]
Probab=71.16 E-value=2.3 Score=30.84 Aligned_cols=46 Identities=11% Similarity=0.217 Sum_probs=40.9
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
.++.+++.+.+.+|.-+-.|++.+|+ +..+++.=||+|...|++..
T Consensus 15 RHl~Vl~~v~eeqPiGI~klS~~TGm----p~HKVRYSLRVLEq~~iI~P 60 (101)
T COG3388 15 RHLSVLKVVLEEQPIGIIKLSDETGM----PEHKVRYSLRVLEQENIISP 60 (101)
T ss_pred HHHHHHHHHHHhCCceeEeechhcCC----chhhhhhhhhhhhhcCccCc
Confidence 34567778878789999999999999 99999999999999999985
No 424
>COG1568 Predicted methyltransferases [General function prediction only]
Probab=70.93 E-value=17 Score=32.16 Aligned_cols=57 Identities=12% Similarity=0.092 Sum_probs=45.8
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhcC
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
++.+|-. .-+.-.|+....+ +.+.+..+++.|...|++.. ..+...+|..+..|+..
T Consensus 27 vl~ail~--~~d~wkIvd~s~~----plp~v~~i~~~l~~egiv~~----~~g~v~~TekG~E~~e~ 83 (354)
T COG1568 27 VLSAILA--TNDFWKIVDYSDL----PLPLVASILEILEDEGIVKI----EEGGVELTEKGEELAEE 83 (354)
T ss_pred HHHHHHc--CcchHhhhhhccC----CchHHHHHHHHHHhcCcEEE----ecCcEeehhhhHHHHHH
Confidence 4444544 2388899999999 99999999999999999997 34558999999887764
No 425
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=70.72 E-value=7.4 Score=33.02 Aligned_cols=43 Identities=26% Similarity=0.275 Sum_probs=35.9
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
+.|-.+||..+|+ .+..+.|+|..|...|+++.. +.+.+.+..
T Consensus 179 ~lt~~~IA~~lGi----sretlsR~L~~L~~~GlI~~~---~~~~i~I~D 221 (230)
T PRK09391 179 PMSRRDIADYLGL----TIETVSRALSQLQDRGLIGLS---GARQIELRN 221 (230)
T ss_pred cCCHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEec---CCceEEEcC
Confidence 6889999999999 999999999999999999852 235565544
No 426
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=70.10 E-value=6.6 Score=35.76 Aligned_cols=69 Identities=23% Similarity=0.239 Sum_probs=54.4
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCC-------CCceEEEcccCC--CC-CCCCEEEeccc
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSY-------AGVEHVGGNMFE--SV-PEGDAILMKVG 264 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~-------~ri~~~~gD~f~--~~-p~~D~~~l~~v 264 (273)
....+|||.=+|.|-|++.+++.-.-- ++..|+ |..++-..++ ++|+.+.||-.. +. +.+|-++|...
T Consensus 187 ~~GE~V~DmFAGVGpfsi~~Ak~g~~~-V~A~diNP~A~~~L~eNi~LN~v~~~v~~i~gD~rev~~~~~~aDrIim~~p 265 (341)
T COG2520 187 KEGETVLDMFAGVGPFSIPIAKKGRPK-VYAIDINPDAVEYLKENIRLNKVEGRVEPILGDAREVAPELGVADRIIMGLP 265 (341)
T ss_pred cCCCEEEEccCCcccchhhhhhcCCce-EEEEecCHHHHHHHHHHHHhcCccceeeEEeccHHHhhhccccCCEEEeCCC
Confidence 347999999999999999998886543 899998 8877765442 679999999998 33 34698888765
Q ss_pred c
Q 024046 265 N 265 (273)
Q Consensus 265 L 265 (273)
-
T Consensus 266 ~ 266 (341)
T COG2520 266 K 266 (341)
T ss_pred C
Confidence 3
No 427
>PRK09462 fur ferric uptake regulator; Provisional
Probab=69.82 E-value=8.8 Score=30.29 Aligned_cols=64 Identities=16% Similarity=0.261 Sum_probs=46.1
Q ss_pred HHHHhChhHHHHhC--CCCCHHHHHHHhCcC-CCCCcchHHHHHHHHhcCCceecccc-CCCcceecC
Q 024046 43 AAIQLGVFEIIAKA--GELSAPEIAAQLQAQ-NVKAPMMLDRMLRLLVSHRVLECSVS-GGERLYALN 106 (273)
Q Consensus 43 ~a~elglfd~L~~~--g~~t~~eLA~~~g~~-~~~~~~~l~rlL~~L~~~gll~~~~~-~~~~~y~lt 106 (273)
+.-+.-|++.|... ++.|++||-+.+.-. +.++..-+.|.|+.|+..|++.+... .+...|.++
T Consensus 16 T~qR~~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli~~~~~~~~~~~y~~~ 83 (148)
T PRK09462 16 TLPRLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGKSVFELT 83 (148)
T ss_pred CHHHHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCEEEEEcCCCcEEEEeC
Confidence 45677789999763 499999999888531 22377889999999999999987531 122356553
No 428
>PF01861 DUF43: Protein of unknown function DUF43; InterPro: IPR002723 This family of prokaryotic proteins have not been characterised. All the members are 350-400 amino acids long.; PDB: 2QM3_A.
Probab=68.96 E-value=14 Score=31.82 Aligned_cols=64 Identities=16% Similarity=0.155 Sum_probs=35.1
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCC----C-CCceEEEcccCCCCCC---C--CEEEe
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPS----Y-AGVEHVGGNMFESVPE---G--DAILM 261 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~-~ri~~~~gD~f~~~p~---~--D~~~l 261 (273)
..++|+=||-..- .+++++-.++..+.+|+|+ ..+++-.+. . -.|+.+.+|+..|+|+ + |+++.
T Consensus 44 ~gk~il~lGDDDL-tSlA~al~~~~~~I~VvDiDeRll~fI~~~a~~~gl~i~~~~~DlR~~LP~~~~~~fD~f~T 118 (243)
T PF01861_consen 44 EGKRILFLGDDDL-TSLALALTGLPKRITVVDIDERLLDFINRVAEEEGLPIEAVHYDLRDPLPEELRGKFDVFFT 118 (243)
T ss_dssp TT-EEEEES-TT--HHHHHHHHT--SEEEEE-S-HHHHHHHHHHHHHHT--EEEE---TTS---TTTSS-BSEEEE
T ss_pred cCCEEEEEcCCcH-HHHHHHhhCCCCeEEEEEcCHHHHHHHHHHHHHcCCceEEEEecccccCCHHHhcCCCEEEe
Confidence 4588999995554 4555555666779999999 555554432 1 2399999999999994 3 98874
No 429
>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=68.86 E-value=12 Score=24.34 Aligned_cols=47 Identities=19% Similarity=0.308 Sum_probs=33.9
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceec
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYAL 105 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~l 105 (273)
+.|.|-...-.|+.-+++.+|+ ++....++++- +|+ .|. ++.++|+.
T Consensus 4 Lidll~~~P~Vsa~mva~~L~v----T~~~A~~li~e---Lg~-rEi--TGr~R~Ra 50 (54)
T PF11972_consen 4 LIDLLLSRPLVSAPMVAKELGV----TPQAAQRLIAE---LGL-REI--TGRGRYRA 50 (54)
T ss_pred HHHHHHhCccccHHHHHHHhCC----CHHHHHHHHHH---hhc-eee--cCCcccch
Confidence 5677776557899999999999 88888887644 555 332 46666653
No 430
>PRK13239 alkylmercury lyase; Provisional
Probab=68.74 E-value=6.9 Score=32.95 Aligned_cols=40 Identities=18% Similarity=0.263 Sum_probs=32.0
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhc
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVS 88 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~ 88 (273)
+..-|+..|.+..|.|+++||+.+|. +.+.+++.|+.|..
T Consensus 23 ~~~~llr~la~G~pvt~~~lA~~~~~----~~~~v~~~L~~l~~ 62 (206)
T PRK13239 23 LLVPLLRLLAKGRPVSVTTLAAALGW----PVEEVEAVLEAMPD 62 (206)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHhCC----CHHHHHHHHHhCCC
Confidence 44557778887339999999999999 88888888777653
No 431
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=68.37 E-value=11 Score=29.02 Aligned_cols=62 Identities=24% Similarity=0.311 Sum_probs=47.2
Q ss_pred HHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecCh
Q 024046 44 AIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNP 107 (273)
Q Consensus 44 a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~ 107 (273)
+.|..|.++|=..||.|+.||-+.+.....-.+.-+.-+|+-|+..|++... ..++.|.-+|
T Consensus 6 ~aE~eVM~ilW~~~~~t~~eI~~~l~~~~ews~sTV~TLl~RL~KKg~l~~~--kdgr~~~y~p 67 (123)
T COG3682 6 AAEWEVMEILWSRGPATVREIIEELPADREWSYSTVKTLLNRLVKKGLLTRK--KDGRAFRYSP 67 (123)
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHhhcccccHHHHHHHHHHHHhccchhhh--hcCCeeeeec
Confidence 4566778888788999999999888763333566788899999999999985 3455666565
No 432
>PF09904 HTH_43: Winged helix-turn helix; InterPro: IPR017162 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 3KE2_B.
Probab=68.08 E-value=9.1 Score=27.67 Aligned_cols=44 Identities=14% Similarity=0.141 Sum_probs=31.2
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
+|-|.-++.. +..++..|.+.+|+ +.+-+...+..|..+|+--.
T Consensus 10 rlyla~li~~-~~~nvp~L~~~TGm----PrRT~Qd~i~aL~~~~I~~~ 53 (90)
T PF09904_consen 10 RLYLAYLIDS-GERNVPALMEATGM----PRRTIQDTIKALPELGIECE 53 (90)
T ss_dssp HHHHHHHHHH-S-B-HHHHHHHH-------HHHHHHHHHGGGGGT-EEE
T ss_pred HHHHHHHHhc-CCccHHHHHHHhCC----CHhHHHHHHHHhhcCCeEEE
Confidence 4445555655 66699999999999 99999999999999999775
No 433
>PRK00215 LexA repressor; Validated
Probab=68.07 E-value=10 Score=31.49 Aligned_cols=35 Identities=23% Similarity=0.261 Sum_probs=31.3
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+.|+.|||+.+|++ +...+.|+|..|...|+++..
T Consensus 23 ~~s~~ela~~~~~~---~~~tv~~~l~~L~~~g~i~~~ 57 (205)
T PRK00215 23 PPSRREIADALGLR---SPSAVHEHLKALERKGFIRRD 57 (205)
T ss_pred CCCHHHHHHHhCCC---ChHHHHHHHHHHHHCCCEEeC
Confidence 78999999999972 567999999999999999874
No 434
>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=67.86 E-value=17 Score=26.66 Aligned_cols=63 Identities=13% Similarity=0.096 Sum_probs=47.3
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh---cCCceecccc-CCCcceecChhchHhh
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV---SHRVLECSVS-GGERLYALNPVSKYFV 113 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~---~~gll~~~~~-~~~~~y~lt~~s~~l~ 113 (273)
-++.+|..+.+ ..++..-|+.+|+ ++..+.+.++.|. ..-+|++... ..++.+.+|+.+..|.
T Consensus 5 ~~l~~~~av~~--~gSis~AA~~L~i----S~stvs~~I~~LE~~lg~~Lf~R~~~g~~~~g~~lT~~G~~l~ 71 (99)
T TIGR00637 5 RRVALLKAIAR--MGSISQAAKDAGI----SYKSAWDYIRAMNNLSGEPLVERATGGKGGGGAVLTEYGQRLI 71 (99)
T ss_pred HHHHHHHHHHH--hCCHHHHHHHHCC----CHHHHHHHHHHHHHHhCCCeEEecCCCCCCCCeeECHHHHHHH
Confidence 35678889988 5789999999999 9999988888876 3456776310 0135799999988765
No 435
>PF14557 AphA_like: Putative AphA-like transcriptional regulator
Probab=67.19 E-value=16 Score=29.70 Aligned_cols=69 Identities=19% Similarity=0.263 Sum_probs=52.6
Q ss_pred HHHHHHhChhHHHHhCCCCCHHHHHHHhCc--C--CCCCcchHHHHHHHHhcCCceecccc---CCCcceecChhch
Q 024046 41 TQAAIQLGVFEIIAKAGELSAPEIAAQLQA--Q--NVKAPMMLDRMLRLLVSHRVLECSVS---GGERLYALNPVSK 110 (273)
Q Consensus 41 L~~a~elglfd~L~~~g~~t~~eLA~~~g~--~--~~~~~~~l~rlL~~L~~~gll~~~~~---~~~~~y~lt~~s~ 110 (273)
-+-+++|+++=.|++ ||.+++++|+.+.- + -.-+...+.--++.|.-.|+++..++ .....|.+|+.++
T Consensus 8 pre~v~L~vLG~la~-~p~~~~~va~~vrh~~sr~~gps~~Ll~~sie~Lr~eGlve~~~g~g~e~~a~l~iT~~Gr 83 (175)
T PF14557_consen 8 PREAVRLCVLGTLAR-GPRRYEEVAGAVRHFASRIWGPSLDLLGTSIELLREEGLVEAVDGEGMEDNALLAITDAGR 83 (175)
T ss_pred HHHHHHHHHHHHHhc-CCcCHHHHHHHHHHhccccccCchhhhhhHHHHHHhcCCcccccccCCCccceeeeCcchH
Confidence 456788888888987 79999999988753 0 01167788999999999999997632 2334788998775
No 436
>TIGR03433 padR_acidobact transcriptional regulator, Acidobacterial, PadR-family. Members of this protein family are putative transcriptional regulators of the PadR family, as found in species of the Acidobacteria. This family of proteins has expanded greatly in this lineage, and where it regularly is found in the vicinity of a putative transporter protein
Probab=67.07 E-value=21 Score=26.14 Aligned_cols=64 Identities=16% Similarity=0.162 Sum_probs=45.2
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcC----CCCCcchHHHHHHHHhcCCceecccc-----CCCcceecChhchHhh
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQ----NVKAPMMLDRMLRLLVSHRVLECSVS-----GGERLYALNPVSKYFV 113 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~----~~~~~~~l~rlL~~L~~~gll~~~~~-----~~~~~y~lt~~s~~l~ 113 (273)
|+-.|.. +|.+--||.+.+.-. -.+++..+.+.|+-|...|+++.... .....|++|+.++.+.
T Consensus 9 iL~~L~~-~~~~GYei~~~l~~~~~~~~~i~~gtlY~~L~rLe~~GlI~~~~~~~~~~~~rk~y~iT~~Gr~~l 81 (100)
T TIGR03433 9 ILKTLSL-GPLHGYGIAQRIQQISEDVLQVEEGSLYPALHRLERRGWIAAEWGESENNRRAKFYRLTAAGRKQL 81 (100)
T ss_pred HHHHHhc-CCCCHHHHHHHHHHHcCCccccCCCcHHHHHHHHHHCCCeEEEeeecCCCCCceEEEECHHHHHHH
Confidence 4556665 688988888886320 12378899999999999999996210 1124699999987654
No 437
>PF02636 Methyltransf_28: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR003788 This entry describes proteins of unknown function.; PDB: 4F3N_A 1ZKD_B.
Probab=66.98 E-value=7.3 Score=33.66 Aligned_cols=32 Identities=19% Similarity=0.299 Sum_probs=24.1
Q ss_pred cceEEEecCCccHHHHHHHHHCCC--------CeEEEeec
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQ--------IKAVNFDL 229 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~--------l~~~~~Dl 229 (273)
.-+||++|+|+|.++..+++..-. ++.++++.
T Consensus 19 ~~~ivE~GaG~G~La~diL~~l~~~~p~~~~~~~y~ivE~ 58 (252)
T PF02636_consen 19 PLRIVEIGAGRGTLARDILRYLRKFSPEVYKRLRYHIVEI 58 (252)
T ss_dssp -EEEEEES-TTSHHHHHHHHHHCCTTHHHHTTCEEEEE-T
T ss_pred CcEEEEECCCchHHHHHHHHHHHHhChhhhhcceEEEEcC
Confidence 479999999999999988876443 57888887
No 438
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=66.32 E-value=8.2 Score=32.58 Aligned_cols=41 Identities=17% Similarity=0.135 Sum_probs=35.1
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecC
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALN 106 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt 106 (273)
+.|-++||..+|+ ....+.|.|.-|...|+++. ..+.+.+.
T Consensus 169 ~~t~~~lA~~lG~----sretvsR~L~~L~~~G~I~~----~~~~i~I~ 209 (226)
T PRK10402 169 HEKHTQAAEYLGV----SYRHLLYVLAQFIQDGYLKK----SKRGYLIK 209 (226)
T ss_pred cchHHHHHHHHCC----cHHHHHHHHHHHHHCCCEEe----eCCEEEEe
Confidence 5688999999999 99999999999999999996 34455554
No 439
>PF09107 SelB-wing_3: Elongation factor SelB, winged helix ; InterPro: IPR015191 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 3". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2PJP_A 2UWM_A 1WSU_B 1LVA_A 2PLY_A.
Probab=65.54 E-value=15 Score=23.49 Aligned_cols=41 Identities=20% Similarity=0.245 Sum_probs=35.9
Q ss_pred HHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 51 EIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 51 d~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+++...|++|++++=+.+|+ +-..+-.+|+++-..|+..+.
T Consensus 3 ~~~~~~~~itv~~~rd~lg~----sRK~ai~lLE~lD~~g~T~R~ 43 (50)
T PF09107_consen 3 ELLQKNGEITVAEFRDLLGL----SRKYAIPLLEYLDREGITRRV 43 (50)
T ss_dssp HHHHTTSSBEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHhcCCcCcHHHHHHHHCc----cHHHHHHHHHHHhccCCEEEe
Confidence 56666689999999999999 888999999999999999874
No 440
>PF05331 DUF742: Protein of unknown function (DUF742); InterPro: IPR007995 This family consists of several uncharacterised Streptomyces proteins as well as one from Mycobacterium tuberculosis. The function of these proteins is unknown.
Probab=65.54 E-value=9.8 Score=28.90 Aligned_cols=40 Identities=23% Similarity=0.311 Sum_probs=35.2
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
|.+.... +.|+.|||..+++ +..-++.++--|...|++..
T Consensus 48 Il~lC~~--~~SVAEiAA~L~l----PlgVvrVLvsDL~~~G~v~v 87 (114)
T PF05331_consen 48 ILELCRR--PLSVAEIAARLGL----PLGVVRVLVSDLADAGLVRV 87 (114)
T ss_pred HHHHHCC--CccHHHHHHhhCC----CchhhhhhHHHHHhCCCEEE
Confidence 5555654 9999999999999 89999999999999999985
No 441
>PF12692 Methyltransf_17: S-adenosyl-L-methionine methyltransferase; PDB: 3IHT_B.
Probab=65.31 E-value=37 Score=27.14 Aligned_cols=32 Identities=22% Similarity=0.382 Sum_probs=24.1
Q ss_pred cceEEEecCCccHHHHHHHHHCCCCeEEEeec
Q 024046 198 VERLVDVGGGFGVTLSMITSKYPQIKAVNFDL 229 (273)
Q Consensus 198 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl 229 (273)
..-|+|+|=|+|..=-.|-+.+|+=+..+||.
T Consensus 29 ~G~VlElGLGNGRTydHLRe~~p~R~I~vfDR 60 (160)
T PF12692_consen 29 PGPVLELGLGNGRTYDHLREIFPDRRIYVFDR 60 (160)
T ss_dssp -S-EEEE--TTSHHHHHHHHH--SS-EEEEES
T ss_pred CCceEEeccCCCccHHHHHHhCCCCeEEEEee
Confidence 37899999999999999999999999999998
No 442
>PRK01905 DNA-binding protein Fis; Provisional
Probab=65.11 E-value=44 Score=23.21 Aligned_cols=68 Identities=18% Similarity=0.084 Sum_probs=44.1
Q ss_pred cCCCchhhhhHHHHHHHHHHhhh----hHHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHH
Q 024046 13 KKHEEEEEEEESYSHAMQLAMGV----VLPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRL 85 (273)
Q Consensus 13 ~~~~~~~~~~~~~~~l~~~~~g~----~~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 85 (273)
.||.-||+..+.......-..+- ....++...-+.-+-..|... .-+..+.|+.+|+ +...+.+.|+-
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~E~~~i~~aL~~~-~gn~s~aAr~LGI----srstL~rklkk 73 (77)
T PRK01905 2 SKHNIEQCIRDSLDQYFRDLDGSNPHDVYDMVLSCVEKPLLEVVMEQA-GGNQSLAAEYLGI----NRNTLRKKLQQ 73 (77)
T ss_pred CcccHHHHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHCC----CHHHHHHHHHH
Confidence 36777777777765444444332 233344443344466777764 5679999999999 88888887764
No 443
>PRK09273 hypothetical protein; Provisional
Probab=65.03 E-value=7.4 Score=32.82 Aligned_cols=44 Identities=14% Similarity=0.079 Sum_probs=35.2
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCC
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSY 239 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~ 239 (273)
++.....=++||+|.-..-.+.++|.+++.+.--|.....++.+
T Consensus 61 ~g~~d~GIliCGTGiG~siAANK~pGIraalc~d~~sA~lar~h 104 (211)
T PRK09273 61 SKAVDFVVTGCGTGQGAMLALNSFPGVVCGYCIDPTDAYLFAQI 104 (211)
T ss_pred cCCCCEEEEEcCcHHHHHHHHhcCCCeEEEEeCCHHHHHHHHHh
Confidence 34466677899999999999999999998766667767666665
No 444
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=64.86 E-value=11 Score=29.77 Aligned_cols=65 Identities=25% Similarity=0.266 Sum_probs=48.0
Q ss_pred HHHHhChhHHHHhCC-CCCHHHHHHHhCc-CCCCCcchHHHHHHHHhcCCceeccccCCC--cceecChh
Q 024046 43 AAIQLGVFEIIAKAG-ELSAPEIAAQLQA-QNVKAPMMLDRMLRLLVSHRVLECSVSGGE--RLYALNPV 108 (273)
Q Consensus 43 ~a~elglfd~L~~~g-~~t~~eLA~~~g~-~~~~~~~~l~rlL~~L~~~gll~~~~~~~~--~~y~lt~~ 108 (273)
+--++-|++.|.+.+ +.|+++|=+.+.- -++++..-+.|.|+.|...|++.+... .+ -+|.++..
T Consensus 20 T~qR~~vl~~L~~~~~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv~~~~~-~~~~~~y~~~~~ 88 (145)
T COG0735 20 TPQRLAVLELLLEADGHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLVHRLEF-EGGKTRYELNSE 88 (145)
T ss_pred CHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEEEEEe-CCCEEEEecCCC
Confidence 345777899998764 8999999888773 234478889999999999999998632 22 24555544
No 445
>KOG2793 consensus Putative N2,N2-dimethylguanosine tRNA methyltransferase [RNA processing and modification]
Probab=64.85 E-value=8.2 Score=33.49 Aligned_cols=72 Identities=22% Similarity=0.264 Sum_probs=45.0
Q ss_pred CC-CcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCC------------CCceEEEcccCCC------CCC
Q 024046 195 FQ-NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSY------------AGVEHVGGNMFES------VPE 255 (273)
Q Consensus 195 ~~-~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~------------~ri~~~~gD~f~~------~p~ 255 (273)
+. ....+|.+|+|+|.. ..++.......++.-|+|.++..-... ..+.+..-++-.+ .|.
T Consensus 83 ~~~~~~~vlELGsGtglv-G~~aa~~~~~~v~ltD~~~~~~~L~~~~~~~~~~l~~~g~~v~v~~L~Wg~~~~~~~~~~~ 161 (248)
T KOG2793|consen 83 FKTKYINVLELGSGTGLV-GILAALLLGAEVVLTDLPKVVENLKFNRDKNNIALNQLGGSVIVAILVWGNALDVSFRLPN 161 (248)
T ss_pred ccccceeEEEecCCccHH-HHHHHHHhcceeccCCchhhHHHHHHhhhhhhhhhhhcCCceeEEEEecCCcccHhhccCC
Confidence 44 467899999999944 445555567788899998877654321 1344444333321 223
Q ss_pred -CCEEEecccccc
Q 024046 256 -GDAILMKVGNFE 267 (273)
Q Consensus 256 -~D~~~l~~vLHd 267 (273)
.|+++.+.+.++
T Consensus 162 ~~DlilasDvvy~ 174 (248)
T KOG2793|consen 162 PFDLILASDVVYE 174 (248)
T ss_pred cccEEEEeeeeec
Confidence 588888777654
No 446
>COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon [Transcription / Coenzyme metabolism]
Probab=64.53 E-value=10 Score=31.60 Aligned_cols=52 Identities=15% Similarity=0.231 Sum_probs=42.2
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhh
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFV 113 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~ 113 (273)
..|..+||+.++. ++....|+|..|...|++++.-..++....+|+.+..++
T Consensus 19 ~~t~~ela~~l~~----S~qta~R~l~~le~~~~I~R~~~~~Gq~i~iTekG~~~L 70 (214)
T COG1339 19 KVTSSELAKRLGV----SSQTAARKLKELEDEGYITRTISKRGQLITITEKGIDLL 70 (214)
T ss_pred cccHHHHHHHhCc----CcHHHHHHHHhhccCCcEEEEecCCCcEEEehHhHHHHH
Confidence 5899999999999 999999999999999999975433445677777665443
No 447
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=64.37 E-value=15 Score=30.40 Aligned_cols=44 Identities=16% Similarity=0.144 Sum_probs=38.1
Q ss_pred ChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 48 GVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 48 glfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.+.+.|...+..|+-+||+++|+ +...+.|.|.-|...|.+...
T Consensus 17 ~~~~~l~~~~~~~a~~i~~~l~~----~k~~vNr~LY~l~~~~~v~~~ 60 (183)
T PHA03103 17 KEVKNLGLGEGITAIEISRKLNI----EKSEVNKQLYKLQREGMVYMS 60 (183)
T ss_pred HHHHHhccCCCccHHHHHHHhCC----CHHHHHHHHHHHHhcCceecC
Confidence 34566777569999999999999 999999999999999999764
No 448
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=64.33 E-value=8.5 Score=27.65 Aligned_cols=34 Identities=18% Similarity=0.142 Sum_probs=31.9
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
-+|+..||+++++ +-...++.||-|...|++...
T Consensus 41 ~ITps~lserlkI----~~SlAr~~Lr~L~~kG~Ik~V 74 (86)
T PRK09334 41 IVTPYTLASKYGI----KISVAKKVLRELEKRGVLVLY 74 (86)
T ss_pred EEcHHHHHHHhcc----hHHHHHHHHHHHHHCCCEEEE
Confidence 6899999999999 999999999999999999864
No 449
>PRK13750 replication protein; Provisional
Probab=63.72 E-value=20 Score=30.99 Aligned_cols=57 Identities=9% Similarity=0.046 Sum_probs=41.5
Q ss_pred hHHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCC-----CCCcchHHHHHHHHhcCCceecc
Q 024046 36 VLPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQN-----VKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 36 ~~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~-----~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+.......+...++..-+.. .|+++||..||++. ..+-.+..|++..|..+|++...
T Consensus 72 i~A~lqaMlyh~Ni~S~~V~---aSIeqLadeCGLST~S~aGnkSITRASR~I~fLEpmGfI~ce 133 (285)
T PRK13750 72 IDALLQGLCFHYDPLANRVQ---CSITTLAIECGLATESAAGKLSITRATRALTFLAELGLITYQ 133 (285)
T ss_pred HHHHHHHHHHHcCcchhHHH---HHHHHHHHHhCCcccCcCCCcchHHHHHHHHHHHhcCceeee
Confidence 34444445566676666654 79999999999944 22445778999999999999863
No 450
>PF09824 ArsR: ArsR transcriptional regulator; InterPro: IPR014517 Members of this family of archaeal proteins are conserved transcriptional regulators belonging to the ArsR family.
Probab=63.08 E-value=12 Score=30.00 Aligned_cols=49 Identities=14% Similarity=0.225 Sum_probs=41.7
Q ss_pred HHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 38 PMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 38 ~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
.++......-.||+.|.. +.+|.+||.+..|- +. .+-|.+|...|+++.
T Consensus 11 l~~f~s~~~kkV~~~Ls~-~W~T~~El~e~~G~----d~---~~~L~~LkK~gLiE~ 59 (160)
T PF09824_consen 11 LQTFNSEVYKKVYDELSK-GWMTEEELEEKYGK----DV---RESLLILKKGGLIES 59 (160)
T ss_pred HHHhCCHHHHHHHHHHHh-ccCCHHHHHHHHCc----CH---HHHHHHHHHcCchhh
Confidence 345556677889999998 79999999999997 44 888999999999985
No 451
>TIGR01714 phage_rep_org_N phage replisome organizer, putative, N-terminal region. This model represents the N-terminal domain of a small family of phage proteins. The protein contains a region of low-complexity sequence that reflects DNA direct repeats able to function as an origin of phage replication. The region covered by this model is N-terminal to the low-complexity region.
Probab=63.06 E-value=15 Score=28.10 Aligned_cols=45 Identities=16% Similarity=0.035 Sum_probs=39.2
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChh
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPV 108 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~ 108 (273)
-|-|.+.||..++- +..-++.-|.++...|+++.. ++|.|.++..
T Consensus 50 ipy~~e~LA~~~~~----~~~~V~~Al~~f~k~glIe~~---d~g~i~i~~~ 94 (119)
T TIGR01714 50 APYNAEMLATMFNR----NVGDIRITLQTLESLGLIEKK---NNGDIFLENW 94 (119)
T ss_pred CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe---cCCcEEehhH
Confidence 39999999999999 999999999999999999983 4566766654
No 452
>PRK10837 putative DNA-binding transcriptional regulator; Provisional
Probab=62.47 E-value=18 Score=31.25 Aligned_cols=60 Identities=17% Similarity=0.176 Sum_probs=48.8
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh---cCCceeccccCCCcceecChhchHhhcC
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV---SHRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~---~~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
.+..|-.+.+ ..++..-|+++++ .+..+.+-++.|. ..-+|++ ....+++|+.++.|...
T Consensus 7 ~L~~f~~v~e--~~s~t~AA~~L~i----sqpavS~~I~~LE~~lg~~Lf~R----~~r~~~lT~~G~~l~~~ 69 (290)
T PRK10837 7 QLEVFAEVLK--SGSTTQASVMLAL----SQSAVSAALTDLEGQLGVQLFDR----VGKRLVVNEHGRLLYPR 69 (290)
T ss_pred HHHHHHHHHH--cCCHHHHHHHhCC----CccHHHHHHHHHHHHhCCccEee----cCCeEEECHhHHHHHHH
Confidence 5677888888 4699999999999 8999988888887 5688887 45669999999876643
No 453
>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=62.44 E-value=9.9 Score=25.78 Aligned_cols=41 Identities=17% Similarity=0.266 Sum_probs=31.6
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCcee
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLE 93 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~ 93 (273)
|+++|.+.|+.|+.+|++.+++ +...+..-+--|...+=+.
T Consensus 13 Vw~~L~~~~~~s~~el~k~~~l----~~~~~~~AiGWLarE~KI~ 53 (65)
T PF10771_consen 13 VWQLLNENGEWSVSELKKATGL----SDKEVYLAIGWLARENKIE 53 (65)
T ss_dssp HHHHHCCSSSEEHHHHHHHCT-----SCHHHHHHHHHHHCTTSEE
T ss_pred HHHHHhhCCCcCHHHHHHHhCc----CHHHHHHHHHHHhccCcee
Confidence 7888988789999999999999 7777776666666555444
No 454
>PRK10094 DNA-binding transcriptional activator AllS; Provisional
Probab=62.28 E-value=15 Score=32.50 Aligned_cols=59 Identities=19% Similarity=0.183 Sum_probs=48.8
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh---cCCceeccccCCCcceecChhchHhhc
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV---SHRVLECSVSGGERLYALNPVSKYFVS 114 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~---~~gll~~~~~~~~~~y~lt~~s~~l~~ 114 (273)
.|.+|..+.+ ..++...|+++++ ++..+.+-+.-|. ..-+|++ .+..+.+|+.++.|..
T Consensus 6 ~L~~f~~v~e--~gs~s~AA~~L~i----SQpavS~~I~~LE~~lg~~Lf~R----~~r~~~lT~~G~~l~~ 67 (308)
T PRK10094 6 TLRTFIAVAE--TGSFSKAAERLCK----TTATISYRIKLLEENTGVALFFR----TTRSVTLTAAGEHLLS 67 (308)
T ss_pred HHHHHHHHHH--hCCHHHHHHHhcC----CHHHHHHHHHHHHHHhCCEEEee----CCCceeECHhHHHHHH
Confidence 5678889988 5799999999999 9999999988887 5677876 4566999999987753
No 455
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=62.08 E-value=18 Score=31.38 Aligned_cols=60 Identities=12% Similarity=0.077 Sum_probs=49.3
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhc---CCceeccccCCCcceecChhchHhhcC
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVS---HRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~---~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
.+..|..+.+ ..++..-|+.+++ +++.+.+-++.|.. .-+|++ ....+++|+.++.|...
T Consensus 5 ~l~~f~~v~~--~gs~s~AA~~L~i----sqpavS~~I~~LE~~lG~~LF~R----~~r~~~lT~~G~~l~~~ 67 (275)
T PRK03601 5 LLKTFLEVSR--TRHFGRAAESLYL----TQSAVSFRIRQLENQLGVNLFTR----HRNNIRLTAAGERLLPY 67 (275)
T ss_pred HHHHHHHHHH--cCCHHHHHHHhCC----ChHHHHHHHHHHHHHhCCceEEE----CCCceEECHhHHHHHHH
Confidence 5678889988 5789999999999 99999999888874 667886 45679999999876643
No 456
>COG4301 Uncharacterized conserved protein [Function unknown]
Probab=61.90 E-value=26 Score=30.61 Aligned_cols=77 Identities=14% Similarity=0.262 Sum_probs=55.2
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCC----CeEEEeec-hHHHH-----hCCCCCCc--eEEEcccCC---CCCC-C--C
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQ----IKAVNFDL-PHVVQ-----DAPSYAGV--EHVGGNMFE---SVPE-G--D 257 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~----l~~~~~Dl-p~v~~-----~a~~~~ri--~~~~gD~f~---~~p~-~--D 257 (273)
-+..++||+|.|+-.=..-|+.++-+ ++.+-+|. ..++. ..++++.+ .-+.||+-. .+|. + =
T Consensus 77 ~g~~~lveLGsGns~Ktr~Llda~~~~~~~~ryvpiDv~a~iL~~ta~ai~~~y~~l~v~~l~~~~~~~La~~~~~~~Rl 156 (321)
T COG4301 77 TGACTLVELGSGNSTKTRILLDALAHRGSLLRYVPIDVSASILRATATAILREYPGLEVNALCGDYELALAELPRGGRRL 156 (321)
T ss_pred hCcceEEEecCCccHHHHHHHHHhhhcCCcceeeeecccHHHHHHHHHHHHHhCCCCeEeehhhhHHHHHhcccCCCeEE
Confidence 36899999999999988888888877 78899998 33332 22234654 455688865 3454 3 5
Q ss_pred EEEecccccccCCCC
Q 024046 258 AILMKVGNFENYQSH 272 (273)
Q Consensus 258 ~~~l~~vLHd~~~~~ 272 (273)
.+++.+.|.++++++
T Consensus 157 ~~flGStlGN~tp~e 171 (321)
T COG4301 157 FVFLGSTLGNLTPGE 171 (321)
T ss_pred EEEecccccCCChHH
Confidence 678888888888764
No 457
>smart00753 PAM PCI/PINT associated module.
Probab=61.80 E-value=25 Score=24.61 Aligned_cols=50 Identities=6% Similarity=0.115 Sum_probs=39.8
Q ss_pred HHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCcee
Q 024046 40 ATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLE 93 (273)
Q Consensus 40 aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~ 93 (273)
......+..++.........+.++||+.+++ +.+.+++++.-+...|.+.
T Consensus 6 l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l----~~~~vE~~i~~~i~~~~l~ 55 (88)
T smart00753 6 LQRKIRLTNLLQLSEPYSSISLSDLAKLLGL----SVPEVEKLVSKAIRDGEIS 55 (88)
T ss_pred HHHHHHHHHHHHHhHHhceeeHHHHHHHhCc----CHHHHHHHHHHHHHCCCeE
Confidence 3444455556665555458999999999999 8889999999999999887
No 458
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=61.80 E-value=25 Score=24.61 Aligned_cols=50 Identities=6% Similarity=0.115 Sum_probs=39.8
Q ss_pred HHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCcee
Q 024046 40 ATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLE 93 (273)
Q Consensus 40 aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~ 93 (273)
......+..++.........+.++||+.+++ +.+.+++++.-+...|.+.
T Consensus 6 l~~~~~~~~l~~l~~~y~~i~~~~i~~~~~l----~~~~vE~~i~~~i~~~~l~ 55 (88)
T smart00088 6 LQRKIRLTNLLQLSEPYSSISLSDLAKLLGL----SVPEVEKLVSKAIRDGEIS 55 (88)
T ss_pred HHHHHHHHHHHHHhHHhceeeHHHHHHHhCc----CHHHHHHHHHHHHHCCCeE
Confidence 3444455556665555458999999999999 8889999999999999887
No 459
>PRK11642 exoribonuclease R; Provisional
Probab=61.65 E-value=14 Score=37.77 Aligned_cols=55 Identities=25% Similarity=0.303 Sum_probs=40.0
Q ss_pred hhHHHHhC-CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecC
Q 024046 49 VFEIIAKA-GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALN 106 (273)
Q Consensus 49 lfd~L~~~-g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt 106 (273)
|++.|... .|.+..+|++.++++...+...|.+.|+.|...|.+... ..+.|.+.
T Consensus 24 Il~~l~~~~~~~~~~~L~~~l~l~~~~~~~~l~~~L~~L~~~g~l~~~---~~~~~~~~ 79 (813)
T PRK11642 24 ILEHLTKREKPASREELAVELNIEGEEQLEALRRRLRAMERDGQLVFT---RRQCYALP 79 (813)
T ss_pred HHHHHHhcCCCCCHHHHHHHhCCCChHHHHHHHHHHHHHHHCCCEEEc---CCceEecC
Confidence 56666542 499999999999992211235699999999999999863 44556544
No 460
>PF06406 StbA: StbA protein; InterPro: IPR009440 This entry represents bacterial plasmid segregation proteins ParM and StbA []. They are involved in the control of plasmid partition and required for the accurate segregation of the plasmid. ; PDB: 3IKY_C 3IKU_I 2ZGZ_B 1MWM_A 1MWK_A 2ZHC_A 2ZGY_A 2QU4_A.
Probab=61.38 E-value=15 Score=32.94 Aligned_cols=63 Identities=24% Similarity=0.397 Sum_probs=41.9
Q ss_pred HHHHHHHHhcchhhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCC--CCeEEEeechHHH
Q 024046 171 ETYHEAMFNHSTIAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYP--QIKAVNFDLPHVV 233 (273)
Q Consensus 171 ~~f~~am~~~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P--~l~~~~~Dlp~v~ 233 (273)
....+.+..........+.+.+..+....+|+=+|||.-.+...+.+.|| +-++++.|-|+..
T Consensus 246 ~~v~~~i~~~~~~l~~~i~~~~~~~~~~~~I~~vGGGA~ll~~~Ik~~~~~~~~~i~i~~~pqfA 310 (318)
T PF06406_consen 246 DDVSEVIEEAVEELINRILRELGDFSDIDRIFFVGGGAILLKDAIKEAFPVPNERIVIVDDPQFA 310 (318)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTS-S-SEEEEESTTHHHHHHHHHHHHT--GGGEE--SSGGGH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhccCCeEEEECCcHHHHHHHHHHhhCCCCCcEEECCCchhh
Confidence 33444444444444455656554466778899999999999999999987 5678999998854
No 461
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=61.30 E-value=13 Score=32.15 Aligned_cols=43 Identities=19% Similarity=0.179 Sum_probs=37.5
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCc
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRV 91 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gl 91 (273)
-+..|.+.|...|..++.|||+.+|+ ++.-++|=|+.|...+.
T Consensus 8 R~~~I~~~l~~~~~v~v~eLa~~~~V----S~~TIRRDL~~Le~~~~ 50 (252)
T PRK10681 8 RIGQLLQALKRSDKLHLKDAAALLGV----SEMTIRRDLNAHSAPVV 50 (252)
T ss_pred HHHHHHHHHHHcCCCcHHHHHHHhCC----CHHHHHHHHHHhhcCeE
Confidence 34557889999899999999999999 99999999999996554
No 462
>PF13551 HTH_29: Winged helix-turn helix
Probab=61.29 E-value=11 Score=27.52 Aligned_cols=38 Identities=21% Similarity=0.284 Sum_probs=31.2
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCc
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRV 91 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gl 91 (273)
++..+.+ |..|+.++|+.+|+ +.+-+.++++.....|+
T Consensus 4 ~l~l~~~-g~~~~~~ia~~lg~----s~~Tv~r~~~~~~~~G~ 41 (112)
T PF13551_consen 4 ILLLLAE-GVSTIAEIARRLGI----SRRTVYRWLKRYREGGI 41 (112)
T ss_pred HHHHHHc-CCCcHHHHHHHHCc----CHHHHHHHHHHHHcccH
Confidence 4445555 43379999999999 99999999999998883
No 463
>TIGR03474 incFII_RepA incFII family plasmid replication initiator RepA. Members of this protein are the plasmid replication initiator RepA of incFII (plasmid incompatibility group F-II) plasmids. R1 and R100 are plasmids in this group. Immediately upstream of repA is found tap, a leader peptide of about 24 amino acids, often not assigned as a gene in annotated plasmid sequences. Note that other, non-homologous plasmid replication proteins share the gene symbol (repA) and similar names (plasmid replication protein RepA).
Probab=60.98 E-value=21 Score=30.62 Aligned_cols=57 Identities=9% Similarity=0.041 Sum_probs=41.2
Q ss_pred hHHHHHHHHHHhChhHHHHhCCCCCHHHHHHHhCcCC-----CCCcchHHHHHHHHhcCCceecc
Q 024046 36 VLPMATQAAIQLGVFEIIAKAGELSAPEIAAQLQAQN-----VKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 36 ~~~~aL~~a~elglfd~L~~~g~~t~~eLA~~~g~~~-----~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
+...+...+..+++..-+.. .|+++||..||++. ..+-.+..|++..|..+|++...
T Consensus 64 i~A~lqAMlyh~Ni~S~~V~---aSIeqLadeCGLST~S~aGnkSITRASR~I~fLEpmGfI~ce 125 (275)
T TIGR03474 64 IDALLQGMCFHYDPLANRVQ---RSITNLAIECGLATESKSGNLSITRATRALTFLSELGLITYQ 125 (275)
T ss_pred HHHHHHHHHHHcCchhhHHH---HHHHHHHHHhCCcccCcCCCchhHHHHHHHHHHHhcCceeee
Confidence 33444444566676666654 79999999999944 22445778899999999999863
No 464
>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=60.92 E-value=9.7 Score=33.62 Aligned_cols=46 Identities=13% Similarity=0.148 Sum_probs=37.5
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHH-HHhcCCceeccccCCCcceecChhch
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLR-LLVSHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~-~L~~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
++.+++++|+.+|. ++..+.++++ .|...|+++. .+.|.+ .|..+.
T Consensus 254 ~~~~~~~ia~~lg~----~~~~~~~~~e~~Li~~~li~~---~~~g~~-~~~~~~ 300 (305)
T TIGR00635 254 GPVGLKTLAAALGE----DADTIEDVYEPYLLQIGFLQR---TPRGRI-ATELAY 300 (305)
T ss_pred CcccHHHHHHHhCC----CcchHHHhhhHHHHHcCCccc---CCchhh-hhHHHH
Confidence 48999999999999 9999999999 7999999985 244544 455443
No 465
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=60.68 E-value=27 Score=27.81 Aligned_cols=62 Identities=8% Similarity=0.211 Sum_probs=44.3
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCC--CC-Cc-------chHHHHHHHHhcCCceeccccCCCcceecChhchHhhc
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQN--VK-AP-------MMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVS 114 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~--~~-~~-------~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~ 114 (273)
|+..|...||..+..|++..|.+. +. +. .-++..|+.|..+|+++.. ..|+. +|+.++.++.
T Consensus 58 IlR~vY~~gpvGV~~L~~~yGg~k~~G~~P~h~~~~sg~iiR~~LqqLE~~glVek~---~~GR~-lT~~G~~~LD 129 (150)
T PRK09333 58 ILRKVYIDGPVGVERLRTAYGGRKNRGVRPEHFVKGSGSIIRKILQQLEKAGLVEKT---KKGRV-ITPKGRSLLD 129 (150)
T ss_pred HHHHHHHcCCccHHHHHHHHCCCcCCCCCCCccccCccHHHHHHHHHHHHCCCeeeC---CCCCE-eCHHHHHHHH
Confidence 345565568999999999999821 11 22 2389999999999999973 34443 8888876653
No 466
>PF03551 PadR: Transcriptional regulator PadR-like family; InterPro: IPR005149 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response [].; PDB: 1XMA_B 2ESH_A 2DQL_B 3L9F_C 3ELK_B 4EJO_B 3L7W_A 3HHH_A 1YG2_A 3F8B_A ....
Probab=60.39 E-value=9.3 Score=26.23 Aligned_cols=62 Identities=16% Similarity=0.263 Sum_probs=44.1
Q ss_pred hHHHHhCCCCCHHHHHHHhCcCC----CCCcchHHHHHHHHhcCCceeccccC-----CCcceecChhchHh
Q 024046 50 FEIIAKAGELSAPEIAAQLQAQN----VKAPMMLDRMLRLLVSHRVLECSVSG-----GERLYALNPVSKYF 112 (273)
Q Consensus 50 fd~L~~~g~~t~~eLA~~~g~~~----~~~~~~l~rlL~~L~~~gll~~~~~~-----~~~~y~lt~~s~~l 112 (273)
+-.|.. +|++.-+|.+.+.-.. ..++..+...|+-|...|+++..... ....|++|+.++..
T Consensus 2 L~~L~~-~~~~Gyei~~~l~~~~~~~~~i~~g~lY~~L~~Le~~gli~~~~~~~~~~~~rk~Y~iT~~G~~~ 72 (75)
T PF03551_consen 2 LGLLSE-GPMHGYEIKQELEERTGGFWKISPGSLYPALKRLEEEGLIESRWEEEGNGRPRKYYRITEKGREE 72 (75)
T ss_dssp HHHHHH-S-EEHHHHHHHHHHCSTTTEETTHHHHHHHHHHHHHTTSEEEEEEEETTSSEEEEEEESHHHHHH
T ss_pred hhhhcc-CCCcHHHHHHHHHHHhCCCcccChhHHHHHHHHHHhCCCEEEeeeccCCCCCCEEEEECHHHHHH
Confidence 445666 6888888888776421 23788999999999999999964321 11369999988643
No 467
>KOG1663 consensus O-methyltransferase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=59.82 E-value=24 Score=30.27 Aligned_cols=57 Identities=18% Similarity=0.269 Sum_probs=44.3
Q ss_pred CCCcceEEEecCCccHHHHHHHHHCCC-CeEEEeech--------HHHHhCCCCCCceEEEcccCC
Q 024046 195 FQNVERLVDVGGGFGVTLSMITSKYPQ-IKAVNFDLP--------HVVQDAPSYAGVEHVGGNMFE 251 (273)
Q Consensus 195 ~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~~~Dlp--------~v~~~a~~~~ri~~~~gD~f~ 251 (273)
.-++++.+|||.=+|..+.+.+.+-|+ -+.+.+|.+ +.++.|.....|+++.|+-.+
T Consensus 71 ~~~ak~~lelGvfTGySaL~~Alalp~dGrv~a~eid~~~~~~~~~~~k~agv~~KI~~i~g~a~e 136 (237)
T KOG1663|consen 71 LLNAKRTLELGVFTGYSALAVALALPEDGRVVAIEIDADAYEIGLELVKLAGVDHKITFIEGPALE 136 (237)
T ss_pred HhCCceEEEEecccCHHHHHHHHhcCCCceEEEEecChHHHHHhHHHHHhccccceeeeeecchhh
Confidence 457899999999999999999999998 234777872 234444445789999998876
No 468
>TIGR03338 phnR_burk phosphonate utilization associated transcriptional regulator. This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Polaromonas, Burkholderia, Ralstonia and Verminephrobacter.
Probab=59.48 E-value=17 Score=30.23 Aligned_cols=34 Identities=21% Similarity=0.261 Sum_probs=31.9
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.++-.+||+.+|+ +...++.-|+.|...|+++..
T Consensus 34 ~L~e~~La~~lgV----SRtpVReAL~~L~~eGlv~~~ 67 (212)
T TIGR03338 34 KLNESDIAARLGV----SRGPVREAFRALEEAGLVRNE 67 (212)
T ss_pred EecHHHHHHHhCC----ChHHHHHHHHHHHHCCCEEEe
Confidence 7789999999999 999999999999999999863
No 469
>COG1386 scpB Chromosome segregation and condensation protein B [DNA replication, recombination and repair]
Probab=59.15 E-value=26 Score=28.97 Aligned_cols=57 Identities=18% Similarity=0.212 Sum_probs=42.8
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecccc----CCCcceecChhc
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVS----GGERLYALNPVS 109 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~----~~~~~y~lt~~s 109 (273)
.+.++-+++-..|.|-.+|.+.-|. ...+++.-|...|++.+.+. +++-.|..|+..
T Consensus 94 alEtLAiIAY~QPiTR~eI~~iRGv-------~~~~~i~~L~e~glI~~~g~~~~~Grp~ly~tT~~F 154 (184)
T COG1386 94 ALETLAIIAYKQPVTRSEIEEIRGV-------AVSQVISTLLERGLIREVGRRDTPGRPYLYGTTEKF 154 (184)
T ss_pred HHHHHHHHHHcCCccHHHHHHHhCc-------cHHHHHHHHHHCCCeEecCCCCCCCCceeeeccHHH
Confidence 3456667777779999999999999 45569999999999998531 123467777754
No 470
>PF03297 Ribosomal_S25: S25 ribosomal protein; InterPro: IPR004977 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 [, ]. The S25 ribosomal protein is a component of the 40S ribosomal subunit.; PDB: 2XZM_8 2XZN_8 3O30_Q 3U5G_Z 3IZB_V 3U5C_Z 3O2Z_Q 3IZ6_V.
Probab=59.10 E-value=15 Score=27.39 Aligned_cols=35 Identities=14% Similarity=0.201 Sum_probs=32.6
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSV 96 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~ 96 (273)
-+|+..||+++++ +-...++.|+-|...|++....
T Consensus 59 ~ITp~~lserlkI----~~SlAr~~Lr~L~~kG~Ik~V~ 93 (105)
T PF03297_consen 59 LITPSVLSERLKI----NGSLARKALRELESKGLIKPVS 93 (105)
T ss_dssp CECHHHHHHHHCC----SCHHHHHHHHHHHHCCSSEEEE
T ss_pred EeeHHHHHHhHhh----HHHHHHHHHHHHHHCCCEEEEe
Confidence 6899999999999 9999999999999999998753
No 471
>PF02387 IncFII_repA: IncFII RepA protein family; InterPro: IPR003446 These proteins are plasmid encoded and essential for plasmid replication, they are also involved in copy control functions [].; GO: 0006276 plasmid maintenance
Probab=58.98 E-value=11 Score=33.38 Aligned_cols=37 Identities=16% Similarity=0.285 Sum_probs=30.1
Q ss_pred CCCHHHHHHHhCcCC-----CCCcchHHHHH-HHHhcCCceec
Q 024046 58 ELSAPEIAAQLQAQN-----VKAPMMLDRML-RLLVSHRVLEC 94 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~-----~~~~~~l~rlL-~~L~~~gll~~ 94 (273)
.+++++||..||+++ .++..++.|++ +.|..+|++..
T Consensus 95 ~~sie~LA~ecGLst~s~~Gn~sitRasR~i~e~le~~Gli~~ 137 (281)
T PF02387_consen 95 QASIEQLADECGLSTKSAAGNKSITRASRLISEFLEPLGLITC 137 (281)
T ss_pred eecHHHHHHHhCCcccCCCCCeeHHHHHHHHHHHHHhcCCeee
Confidence 789999999999944 23556788888 67899999975
No 472
>PHA02591 hypothetical protein; Provisional
Probab=58.70 E-value=14 Score=25.90 Aligned_cols=31 Identities=23% Similarity=0.276 Sum_probs=25.1
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHH
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLR 84 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~ 84 (273)
+-..|.+. +.|.++||+.+|+ +.+.+++.++
T Consensus 51 vA~eL~eq-GlSqeqIA~~LGV----sqetVrKYL~ 81 (83)
T PHA02591 51 VTHELARK-GFTVEKIASLLGV----SVRKVRRYLE 81 (83)
T ss_pred HHHHHHHc-CCCHHHHHHHhCC----CHHHHHHHHh
Confidence 44556663 7999999999999 9988888775
No 473
>PF02502 LacAB_rpiB: Ribose/Galactose Isomerase; InterPro: IPR003500 This entry represents the sugar isomerase enzymes ribose 5-phosphate isomerase B (rpiB), galactose isomerase subunit A (LacA) and galactose isomerase subunit B (LacB). Galactose-6-phosphate isomerase (5.3.1.26 from EC) is a heteromultimeric protein consisting of subunits LacA and LacB, and catalyses the conversion of D-galactose 6-phosphate to D-tagatose and 6-phosphate in the tagatose 6-phosphate pathway of lactose catabolism []. Galactose-6-phosphate isomerase is induced by galactose or lactose. This entry represents the LacB subunit. Ribose 5-phosphate isomerase (5.3.1.6 from EC) forms a homodimer and catalyses the interconversion of D-ribose 5-phosphate and D-ribulose 5-phosphate in the non-oxidative branch of the pentose phosphate pathway. This reaction permits the synthesis of ribose from other sugars, as well as the recycling of sugars from nucleotide breakdown. Two unrelated enzymes can catalyse this reaction: RpiA (found in most organisms) and RpiB (found in some bacteria and eukaryotes). RpiB is also involved in metabolism of the rare sugar, allose, in addition to ribose sugars. The structures of RpiA and RpiB are distinct, RpiB having a Rossmann-type alpha/beta/alpha sandwich topology [].; GO: 0005975 carbohydrate metabolic process; PDB: 3HEE_A 3HE8_A 3PH3_B 3PH4_B 3ONO_A 4EM8_B 3S5P_B 1O1X_A 2BES_D 2VVP_D ....
Probab=58.18 E-value=9.8 Score=29.99 Aligned_cols=43 Identities=21% Similarity=0.155 Sum_probs=31.3
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCCCC
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSYAG 241 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~r 241 (273)
...-=+.||+|.-..-.+.++|.+++.+.--|.....++.++.
T Consensus 57 ~d~GIliCgtGiG~~iaANK~~GIrAa~~~d~~~A~~ar~hNd 99 (140)
T PF02502_consen 57 ADRGILICGTGIGMSIAANKVPGIRAALCSDPYSAKMAREHND 99 (140)
T ss_dssp SSEEEEEESSSHHHHHHHHTSTT--EEE-SSHHHHHHHHHTT-
T ss_pred CCeEEEEcCCChhhhhHhhcCCCEEEEeeCCHHHHHHHHHhcC
Confidence 3345577999998899999999999988888887888777633
No 474
>TIGR00689 rpiB_lacA_lacB sugar-phosphate isomerases, RpiB/LacA/LacB family. Proteins of known function in this family act as sugar (pentose and/or hexose)-phosphate isomerases, including the LacA and LacB subunits of galactose-6-phosphate isomerases from Gram-positive bacteria and RpiB. RpiB is the second ribose phosphate isomerase of E. coli. It lacks homology to RpiA, its inducer is unknown (but is not ribose), and it can be replaced by the homologous galactose-6-phosphate isomerase of Streptococcus mutans, all of which suggests that the ribose phosphate isomerase activity of RpiB is a secondary function. On the other hand, there appear to be a significant number of species which contain rpiB, lack rpiA and seem to require rpi activity in order to copplete the pentose phosphate pathway.
Probab=58.09 E-value=13 Score=29.43 Aligned_cols=43 Identities=19% Similarity=0.072 Sum_probs=33.7
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCCCC
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSYAG 241 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~r 241 (273)
...-=+.||+|.-..-.+.++|.+++.+.--|.....++.++.
T Consensus 56 ~~~GIliCGtGiG~siaANK~~GIraa~~~d~~~A~~ar~hNn 98 (144)
T TIGR00689 56 VSLGILICGTGIGMSIAANKFKGIRAALCVDEYTAALARQHND 98 (144)
T ss_pred CceEEEEcCCcHHHHHHHhcCCCeEEEEECCHHHHHHHHHhcC
Confidence 3345567999998889999999999987777777777776533
No 475
>TIGR01120 rpiB ribose 5-phosphate isomerase B. Involved in the non-oxidative branch of the pentose phospate pathway.
Probab=58.04 E-value=13 Score=29.36 Aligned_cols=42 Identities=19% Similarity=0.128 Sum_probs=33.1
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCCC
Q 024046 199 ERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSYA 240 (273)
Q Consensus 199 ~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ 240 (273)
...-=+.||+|.-..-.+.++|.+++.+.--+.....++.++
T Consensus 57 ~~~GIliCGtGiG~siaANK~~GIraa~~~d~~~A~~ar~hN 98 (143)
T TIGR01120 57 VDGGILICGTGIGMSIAANKFAGIRAALCSEPYMAQMSRLHN 98 (143)
T ss_pred CceEEEEcCCcHHHHHHHhcCCCeEEEEECCHHHHHHHHHhc
Confidence 344556799999888899999999998777777777777653
No 476
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=57.98 E-value=16 Score=34.80 Aligned_cols=52 Identities=23% Similarity=0.346 Sum_probs=42.7
Q ss_pred hhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCccee
Q 024046 49 VFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYA 104 (273)
Q Consensus 49 lfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~ 104 (273)
++.++.+.++.|..+|++.+++ +.+...|.+..|...|++...++++.|.+.
T Consensus 407 il~~~~en~~~T~~~L~~~l~i----s~~~i~r~i~~Lv~~g~~~~~g~~~~g~~~ 458 (467)
T COG2865 407 ILELIKENGKVTARELREILGI----SSETIRRRIANLVKRGLLKQLGSSGRGTWY 458 (467)
T ss_pred HHHHHhhccccCHHHHHHHhCc----chhhHHHHHHHHhcccHHHHhCcCCCCcEE
Confidence 5667777679999999999999 999999999999999999976433334443
No 477
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=57.92 E-value=15 Score=22.49 Aligned_cols=29 Identities=28% Similarity=0.361 Sum_probs=18.5
Q ss_pred HHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHH
Q 024046 51 EIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLR 84 (273)
Q Consensus 51 d~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~ 84 (273)
..+.+. ..|..+||+.+|. ++.-+.+.|+
T Consensus 14 ~~l~~~-G~s~~~IA~~lg~----s~sTV~relk 42 (44)
T PF13936_consen 14 EALLEQ-GMSIREIAKRLGR----SRSTVSRELK 42 (44)
T ss_dssp HHHHCS----HHHHHHHTT------HHHHHHHHH
T ss_pred HHHHHc-CCCHHHHHHHHCc----CcHHHHHHHh
Confidence 344443 6999999999999 8888888765
No 478
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=57.77 E-value=21 Score=29.98 Aligned_cols=34 Identities=18% Similarity=0.208 Sum_probs=31.9
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
.++..+||+.+|+ +...++.-|+.|...|+++..
T Consensus 30 ~L~e~eLae~lgV----SRtpVREAL~~L~~eGlv~~~ 63 (224)
T PRK11534 30 KLRMSLLTSRYAL----GVGPLREALSQLVAERLVTVV 63 (224)
T ss_pred cCCHHHHHHHHCC----ChHHHHHHHHHHHHCCCEEEe
Confidence 7889999999999 999999999999999999863
No 479
>PF14314 Methyltrans_Mon: Virus-capping methyltransferase
Probab=57.71 E-value=16 Score=36.22 Aligned_cols=48 Identities=15% Similarity=0.223 Sum_probs=36.9
Q ss_pred cchhhHHHHHhhcccCCCcceEEEecCCccHHHHHHHHHCCCCeE---EEeec
Q 024046 180 HSTIAMERILEHYEGFQNVERLVDVGGGFGVTLSMITSKYPQIKA---VNFDL 229 (273)
Q Consensus 180 ~~~~~~~~il~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~---~~~Dl 229 (273)
-+.+..+.|+..+. . ..+-.+-+|-|+|.++..+++.||..++ .++|+
T Consensus 307 GAHYKlRsIL~~~~-i-~~~d~l~~GDGSGGita~lLR~~p~sr~iFNSLL~~ 357 (675)
T PF14314_consen 307 GAHYKLRSILKNLN-I-KYRDALCGGDGSGGITACLLRMNPTSRGIFNSLLEL 357 (675)
T ss_pred cchhhHHHHHHhcC-C-CcceeEEEecCchHHHHHHHHhCcccceeeeccccc
Confidence 44466778888765 3 3466788999999999999999999987 34544
No 480
>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=57.62 E-value=15 Score=23.74 Aligned_cols=37 Identities=24% Similarity=0.339 Sum_probs=28.4
Q ss_pred HHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHH
Q 024046 44 AIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLL 86 (273)
Q Consensus 44 a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L 86 (273)
..|..++..+.. +.+..+||+.+++ ++..+...++-+
T Consensus 6 ~~E~~vl~~l~~--G~~~~eIA~~l~i----s~~tV~~~~~~i 42 (58)
T PF00196_consen 6 ERELEVLRLLAQ--GMSNKEIAEELGI----SEKTVKSHRRRI 42 (58)
T ss_dssp HHHHHHHHHHHT--TS-HHHHHHHHTS----HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHh--cCCcchhHHhcCc----chhhHHHHHHHH
Confidence 457778889987 6999999999999 888776655443
No 481
>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=57.43 E-value=25 Score=30.08 Aligned_cols=59 Identities=17% Similarity=0.160 Sum_probs=48.1
Q ss_pred hChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh---cCCceeccccCCCcceecChhchHhhcC
Q 024046 47 LGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV---SHRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 47 lglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~---~~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
+..|.++.+ ..|+..-|+.+++ +++.+.+-+..|. ..-+|++ .....++|+.+..|...
T Consensus 2 l~~f~~v~~--~gs~~~AA~~L~i----sqsavS~~i~~LE~~lg~~Lf~R----~~~~~~lT~~G~~l~~~ 63 (279)
T TIGR03339 2 LKAFHAVAR--CGSFTRAAERLGL----SQPTVTDQVRKLEERYGVELFHR----NGRRLELTDAGHRLLPI 63 (279)
T ss_pred chhhHHHHh--cCCHHHHHHHhcC----CchHHHHHHHHHHHHhCCccEEE----cCCeEEEChhHHHHHHH
Confidence 567889988 4699999999999 9999999988887 4578887 45669999998876543
No 482
>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=57.41 E-value=16 Score=28.69 Aligned_cols=32 Identities=16% Similarity=0.376 Sum_probs=24.1
Q ss_pred hhHHHHhCCC--CCHHHHHHHhCcCCCCCcchHHHHHH
Q 024046 49 VFEIIAKAGE--LSAPEIAAQLQAQNVKAPMMLDRMLR 84 (273)
Q Consensus 49 lfd~L~~~g~--~t~~eLA~~~g~~~~~~~~~l~rlL~ 84 (273)
|-+.|.+... +|+.+|++.+|+ ++..+.+|++
T Consensus 35 V~~yLr~~p~~~ati~eV~e~tgV----s~~~I~~~Ir 68 (137)
T TIGR03826 35 VYKFLRKHENRQATVSEIVEETGV----SEKLILKFIR 68 (137)
T ss_pred HHHHHHHCCCCCCCHHHHHHHHCc----CHHHHHHHHH
Confidence 4456666533 899999999999 8877777654
No 483
>PF01358 PARP_regulatory: Poly A polymerase regulatory subunit; InterPro: IPR000176 This family contains viral proteins that are bifunctional, acting as both an mRNA cap-specific RNA 2'-O-methyltransferase, which methylates the ribose 2' OH group of the first transcribed nucleotide, thereby producing a 2'-o-methylpurine cap and a poly(A) polymerase processivity factor which binds to Poly(A) but has no catalytic activity. The structure of this protein is known [].; GO: 0004483 mRNA (nucleoside-2'-O-)-methyltransferase activity, 0006370 mRNA capping, 0006397 mRNA processing; PDB: 4DCG_A 1B42_A 3ERC_A 1AV6_A 2VP3_A 1JTF_A 1JTE_A 1VP3_A 3ER9_A 1P39_A ....
Probab=57.28 E-value=15 Score=32.56 Aligned_cols=55 Identities=16% Similarity=0.277 Sum_probs=36.3
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCe----EEEeechHHHHhCCCCCCceEEEcccCC
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIK----AVNFDLPHVVQDAPSYAGVEHVGGNMFE 251 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~----~~~~Dlp~v~~~a~~~~ri~~~~gD~f~ 251 (273)
.+..+||=+|.+.|.+..-|...||+++ .+++|-..-+...++.+.|+++ .+||+
T Consensus 57 ~~~~~VVYiGsApG~Hi~~L~~lf~~~~~~i~wvLiDp~~f~~~l~~l~~v~l~-~~fft 115 (294)
T PF01358_consen 57 DGPVTVVYIGSAPGTHIPFLFDLFPDLKVPIKWVLIDPRPFCISLEELSNVTLI-QRFFT 115 (294)
T ss_dssp TT-EEEEEES-SS-HHHHHHHHHHHHTT--EEEEEEESS---GGGTT-TTEEEE-ES---
T ss_pred CCceEEEEecCCCcchHHHHHHHHHhcCCceEEEEECCcchhhhhcccCcEEee-hhhCC
Confidence 3568999999999999999999999976 8999975555555555667755 45665
No 484
>PRK15121 right oriC-binding transcriptional activator; Provisional
Probab=57.26 E-value=14 Score=32.60 Aligned_cols=47 Identities=21% Similarity=0.209 Sum_probs=37.1
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhh
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFV 113 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~ 113 (273)
+.|+++||+.+|+ +++.+.|+++......+-+.. ...++......|.
T Consensus 21 ~~~l~~lA~~~~~----S~~~l~r~F~~~~g~s~~~yi-----~~~Rl~~A~~~L~ 67 (289)
T PRK15121 21 PLSLDNVAAKAGY----SKWHLQRMFKDVTGHAIGAYI-----RARRLSKAAVALR 67 (289)
T ss_pred CCCHHHHHHHHCc----CHHHHHHHHHHHHCcCHHHHH-----HHHHHHHHHHHHH
Confidence 8999999999999 999999999998887776643 3355665555554
No 485
>COG2524 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]
Probab=56.86 E-value=28 Score=30.42 Aligned_cols=54 Identities=19% Similarity=0.146 Sum_probs=44.5
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChhchHhhcC
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
++..-+|||+.++. +|-.++-.|-.|.++|+++-.- +..|.|..|..+...+.-
T Consensus 24 r~IKgeeIA~~l~r----npGTVRNqmq~LkaLgLVegvp-GPkGGY~PT~kAYe~L~i 77 (294)
T COG2524 24 RPIKGEEIAEVLNR----NPGTVRNQMQSLKALGLVEGVP-GPKGGYKPTSKAYEALSI 77 (294)
T ss_pred CCcchHHHHHHHcc----CcchHHHHHHHHHhcCcccccc-CCCCCccccHHHHHHhcc
Confidence 48999999999999 9999999999999999999642 233789999887644443
No 486
>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=56.37 E-value=23 Score=31.10 Aligned_cols=61 Identities=18% Similarity=0.193 Sum_probs=50.0
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh---cCCceeccccCCCcceecChhchHhhcC
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV---SHRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~---~~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
-.|..|-++.+ ..|+..-|+.+++ ++..+.+-++.|. ..-+|++ ....+.+|+.++.|...
T Consensus 11 ~~L~~F~~va~--~gs~s~AA~~L~i----sQpavS~~I~~LE~~lg~~Lf~R----~~r~~~lT~~G~~l~~~ 74 (302)
T TIGR02036 11 SKMHTFEVAAR--HQSFSLAAEELSL----TPSAISHRINQLEEELGIQLFVR----SHRKVELTHEGKRIYWA 74 (302)
T ss_pred HHHHHHHHHHH--hCCHHHHHHHHCC----CHHHHHHHHHHHHHHhCCceEEE----CCCceeECHhHHHHHHH
Confidence 45678888988 5789999999999 9999999998887 5678886 45679999998776644
No 487
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=56.35 E-value=20 Score=22.39 Aligned_cols=36 Identities=11% Similarity=0.213 Sum_probs=28.5
Q ss_pred HHHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHH
Q 024046 44 AIQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRL 85 (273)
Q Consensus 44 a~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~ 85 (273)
.++.-|...+.. ..|..++|+.+|+ +..-+.|+++-
T Consensus 15 ~~~~~i~~~~~~--~~s~~~vA~~~~v----s~~TV~ri~~~ 50 (52)
T PF13542_consen 15 RLEQYILKLLRE--SRSFKDVARELGV----SWSTVRRIFDR 50 (52)
T ss_pred HHHHHHHHHHhh--cCCHHHHHHHHCC----CHHHHHHHHHh
Confidence 344556777776 3799999999999 99999988764
No 488
>KOG2165 consensus Anaphase-promoting complex (APC), subunit 2 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=56.29 E-value=15 Score=36.41 Aligned_cols=48 Identities=15% Similarity=0.120 Sum_probs=39.0
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecccc-CCCcceecChh
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECSVS-GGERLYALNPV 108 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~-~~~~~y~lt~~ 108 (273)
..-|.+|||+.+|+ +..+++|.|......|++.+... ...+.|+.++.
T Consensus 615 ~twt~eelse~l~i----p~~~lrrrL~fWi~~GvL~e~~~~s~tgt~T~iEs 663 (765)
T KOG2165|consen 615 NTWTLEELSESLGI----PVPALRRRLSFWIQKGVLREEPIISDTGTLTVIES 663 (765)
T ss_pred ccccHHHHHHHhCC----CHHHHHHHHHHHHHcCeeecCCCCCCCceeeeccc
Confidence 37899999999999 99999999999999999997310 01367777763
No 489
>PRK05571 ribose-5-phosphate isomerase B; Provisional
Probab=56.26 E-value=15 Score=29.26 Aligned_cols=40 Identities=18% Similarity=0.048 Sum_probs=32.3
Q ss_pred EEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCCCCCC
Q 024046 202 VDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAPSYAG 241 (273)
Q Consensus 202 vDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~r 241 (273)
-=+-||+|.-..-.+.++|.+++.+.--|.....++.++.
T Consensus 62 GIliCGtGiG~siaANK~~GIRAA~~~d~~~A~~ar~hNn 101 (148)
T PRK05571 62 GILICGTGIGMSIAANKVKGIRAALCHDTYSAHLAREHNN 101 (148)
T ss_pred EEEEcCCcHHHHHHHhcCCCeEEEEECCHHHHHHHHHhcC
Confidence 3456899998888999999999988877887888877643
No 490
>PRK11062 nhaR transcriptional activator NhaR; Provisional
Probab=56.21 E-value=24 Score=30.82 Aligned_cols=61 Identities=16% Similarity=0.144 Sum_probs=49.2
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh---cCCceeccccCCCcceecChhchHhhcC
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV---SHRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~---~~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
-.+.+|-.+.+ ..++..-|+.+++ ++..+.|-++.|. ..-+|++ ....+.+|+.++.|...
T Consensus 7 ~~L~~F~~v~e--~gs~s~AA~~L~i----sqpavS~~I~~LE~~lg~~Lf~R----~~r~~~lT~~G~~l~~~ 70 (296)
T PRK11062 7 NHLYYFWMVCK--EGSVVGAAEALFL----TPQTITGQIKALEERLQGKLFKR----KGRGLEPTELGELVFRY 70 (296)
T ss_pred HHHHHHHHHHh--cCCHHHHHHHhCC----ChHHHHHHHHHHHHHcCccceee----cCCceeECHhHHHHHHH
Confidence 36778888988 5789999999999 9999988888887 5678886 45679999998766543
No 491
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=56.16 E-value=13 Score=33.34 Aligned_cols=46 Identities=13% Similarity=0.197 Sum_probs=37.9
Q ss_pred CCCCHHHHHHHhCcCCCCCcchHHHHHH-HHhcCCceeccccCCCcceecChhch
Q 024046 57 GELSAPEIAAQLQAQNVKAPMMLDRMLR-LLVSHRVLECSVSGGERLYALNPVSK 110 (273)
Q Consensus 57 g~~t~~eLA~~~g~~~~~~~~~l~rlL~-~L~~~gll~~~~~~~~~~y~lt~~s~ 110 (273)
++.+++.+|..+|. ++..+...++ .|...|+++. ...|+. .|+.+.
T Consensus 275 ~~~~~~~~a~~lg~----~~~~~~~~~e~~Li~~~li~~---~~~gr~-~~~~~~ 321 (328)
T PRK00080 275 GPVGLDTLAAALGE----ERDTIEDVYEPYLIQQGFIQR---TPRGRV-ATPKAY 321 (328)
T ss_pred CceeHHHHHHHHCC----CcchHHHHhhHHHHHcCCccc---CCchHH-HHHHHH
Confidence 59999999999999 9999999999 9999999985 244443 566554
No 492
>PF07848 PaaX: PaaX-like protein; InterPro: IPR012906 This entry describes the N-terminal region of proteins that are similar to, and nclude, the product of the paaX gene of Escherichia coli (P76086 from SWISSPROT). PaaX is a transcriptional regulator that is always found in association with operons believed to be involved in the degradation of phenylacetic acid []. The gene product has been shown to bind to the promoter sites and repress their transcription []. ; PDB: 3KFW_X 3L09_B.
Probab=55.98 E-value=10 Score=26.03 Aligned_cols=47 Identities=19% Similarity=0.191 Sum_probs=31.4
Q ss_pred CCCHHHHH---HHhCcCCCCCcchHHHHHHHHhcCCceeccccCCCcceecChh
Q 024046 58 ELSAPEIA---AQLQAQNVKAPMMLDRMLRLLVSHRVLECSVSGGERLYALNPV 108 (273)
Q Consensus 58 ~~t~~eLA---~~~g~~~~~~~~~l~rlL~~L~~~gll~~~~~~~~~~y~lt~~ 108 (273)
++++.+|. +..|+ ++..++.-|.=|+..|+++.....+...|++|+.
T Consensus 20 ~i~~~~Li~ll~~~Gv----~e~avR~alsRl~~~G~L~~~r~Gr~~~Y~Lt~~ 69 (70)
T PF07848_consen 20 WIWVASLIRLLAAFGV----SESAVRTALSRLVRRGWLESERRGRRSYYRLTER 69 (70)
T ss_dssp -EEHHHHHHHHCCTT------HHHHHHHHHHHHHTTSEEEECCCTEEEEEE-HH
T ss_pred ceeHHHHHHHHHHcCC----ChHHHHHHHHHHHHcCceeeeecCccceEeeCCC
Confidence 56666555 45566 9999999999999999999742112237999875
No 493
>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=55.81 E-value=22 Score=30.91 Aligned_cols=60 Identities=22% Similarity=0.265 Sum_probs=48.6
Q ss_pred HhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh---cCCceeccccCCCcceecChhchHhhcC
Q 024046 46 QLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV---SHRVLECSVSGGERLYALNPVSKYFVSN 115 (273)
Q Consensus 46 elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~---~~gll~~~~~~~~~~y~lt~~s~~l~~~ 115 (273)
.+.+|-.+.+ ..|+..-|+.+++ ++..+.+.++.|. ..-+|++ ....+.+|+.+..|...
T Consensus 7 ~l~~f~~v~~--~gS~s~AA~~L~i----sq~avS~~I~~LE~~lg~~LF~R----~~~~~~lT~~G~~l~~~ 69 (300)
T TIGR02424 7 HLQCFVEVAR--QGSVKRAAEALHI----TQPAVSKTLRELEEILGTPLFER----DRRGIRLTRYGELFLRH 69 (300)
T ss_pred HHHHHHHHHH--hCCHHHHHHHhCC----ChHHHHHHHHHHHHHhCCeEEEE----cCCCccccHhHHHHHHH
Confidence 4567888888 4699999999999 9999999988887 5678887 45568999998876643
No 494
>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=55.79 E-value=13 Score=34.30 Aligned_cols=46 Identities=28% Similarity=0.544 Sum_probs=35.1
Q ss_pred HHHHHhhcccCCCcceEEEecCCccH----HHHHHHHHC---CCCeEEEeechH
Q 024046 185 MERILEHYEGFQNVERLVDVGGGFGV----TLSMITSKY---PQIKAVNFDLPH 231 (273)
Q Consensus 185 ~~~il~~~~~~~~~~~vvDVGGG~G~----~~~~l~~~~---P~l~~~~~Dlp~ 231 (273)
.+.|++.+. -...-+|||+|-|.|. +..+|+++. |.++.|+++.|.
T Consensus 99 NqaIleA~~-g~~~vHIID~~i~~G~QW~~LiqaLa~R~~gpp~LrIT~i~~~~ 151 (374)
T PF03514_consen 99 NQAILEAFE-GERRVHIIDFGIGFGVQWPSLIQALASRPGGPPSLRITGIGPPN 151 (374)
T ss_pred hHHHHHHhc-cCcceEEEeccCCcchHHHHHHHHHhcCCCCCCeEEEEeccCCC
Confidence 356888876 5567899999999998 444555553 889999999844
No 495
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=55.68 E-value=16 Score=24.71 Aligned_cols=29 Identities=21% Similarity=0.359 Sum_probs=23.9
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCC
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHR 90 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~g 90 (273)
+.|+++||+.+|+ ++..+.++++......
T Consensus 1 ~~~~~~la~~~~~----s~~~l~~~f~~~~~~s 29 (84)
T smart00342 1 PLTLEDLAEALGM----SPRHLQRLFKKETGTT 29 (84)
T ss_pred CCCHHHHHHHhCC----CHHHHHHHHHHHhCcC
Confidence 4689999999999 9999999888665443
No 496
>PF03686 UPF0146: Uncharacterised protein family (UPF0146); InterPro: IPR005353 The function of this family of proteins is unknown.; PDB: 2K4M_A.
Probab=55.44 E-value=28 Score=26.95 Aligned_cols=61 Identities=30% Similarity=0.477 Sum_probs=32.6
Q ss_pred CcceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHHhCCCCCCceEEEcccCCCCC---CC-CEEEecc
Q 024046 197 NVERLVDVGGGFGVTLSMITSKYPQIKAVNFDL-PHVVQDAPSYAGVEHVGGNMFESVP---EG-DAILMKV 263 (273)
Q Consensus 197 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gD~f~~~p---~~-D~~~l~~ 263 (273)
...++|+||=|.=.-....++++- ...++.|. |. .+. .++.++.-|.|+|-. ++ |+++..+
T Consensus 13 ~~~kiVEVGiG~~~~vA~~L~~~G-~dV~~tDi~~~---~a~--~g~~~v~DDif~P~l~iY~~a~lIYSiR 78 (127)
T PF03686_consen 13 NYGKIVEVGIGFNPEVAKKLKERG-FDVIATDINPR---KAP--EGVNFVVDDIFNPNLEIYEGADLIYSIR 78 (127)
T ss_dssp -SSEEEEET-TT--HHHHHHHHHS--EEEEE-SS-S---------STTEE---SSS--HHHHTTEEEEEEES
T ss_pred CCCcEEEECcCCCHHHHHHHHHcC-CcEEEEECccc---ccc--cCcceeeecccCCCHHHhcCCcEEEEeC
Confidence 445999999887765554454443 78899998 44 222 789999999999644 34 8877654
No 497
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=55.30 E-value=20 Score=27.39 Aligned_cols=33 Identities=18% Similarity=0.227 Sum_probs=29.4
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceec
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLEC 94 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~ 94 (273)
+.|+++||+.+|+ +++.+.|+++......+-+.
T Consensus 25 ~~sl~~lA~~~g~----S~~~l~r~Fk~~~G~s~~~~ 57 (127)
T PRK11511 25 PLSLEKVSERSGY----SKWHLQRMFKKETGHSLGQY 57 (127)
T ss_pred CCCHHHHHHHHCc----CHHHHHHHHHHHHCcCHHHH
Confidence 7999999999999 99999999998877776664
No 498
>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=55.25 E-value=22 Score=30.99 Aligned_cols=55 Identities=15% Similarity=0.167 Sum_probs=40.3
Q ss_pred CCcceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHHhCC---------CCCCceEEEcccCC
Q 024046 196 QNVERLVDVGGGFGVTLSMITSKYPQIKAVNFDLPHVVQDAP---------SYAGVEHVGGNMFE 251 (273)
Q Consensus 196 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~---------~~~ri~~~~gD~f~ 251 (273)
.+...||.+|||-=...-.+... ++++.+=+|+|+|++.-+ ..++.++++.|+..
T Consensus 80 ~g~~qvV~LGaGlDTr~~Rl~~~-~~~~~~EvD~P~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~~ 143 (260)
T TIGR00027 80 AGIRQVVILGAGLDTRAYRLPWP-DGTRVFEVDQPAVLAFKEKVLAELGAEPPAHRRAVPVDLRQ 143 (260)
T ss_pred cCCcEEEEeCCccccHHHhcCCC-CCCeEEECCChHHHHHHHHHHHHcCCCCCCceEEeccCchh
Confidence 35678999999998877776321 257778888899887322 13688999999974
No 499
>PF14502 HTH_41: Helix-turn-helix domain
Probab=55.08 E-value=30 Score=21.93 Aligned_cols=34 Identities=9% Similarity=0.160 Sum_probs=30.6
Q ss_pred CCCHHHHHHHhCcCCCCCcchHHHHHHHHhcCCceecc
Q 024046 58 ELSAPEIAAQLQAQNVKAPMMLDRMLRLLVSHRVLECS 95 (273)
Q Consensus 58 ~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~~~gll~~~ 95 (273)
-.|++|+++.+++ ..--+..-|..|...|.+...
T Consensus 6 i~tI~e~~~~~~v----s~GtiQ~Alk~Le~~gaI~Le 39 (48)
T PF14502_consen 6 IPTISEYSEKFGV----SRGTIQNALKFLEENGAIKLE 39 (48)
T ss_pred cCCHHHHHHHhCc----chhHHHHHHHHHHHCCcEEee
Confidence 4689999999999 888899999999999999864
No 500
>PRK09791 putative DNA-binding transcriptional regulator; Provisional
Probab=54.83 E-value=23 Score=30.98 Aligned_cols=60 Identities=15% Similarity=0.134 Sum_probs=48.8
Q ss_pred HHhChhHHHHhCCCCCHHHHHHHhCcCCCCCcchHHHHHHHHh---cCCceeccccCCCcceecChhchHhhc
Q 024046 45 IQLGVFEIIAKAGELSAPEIAAQLQAQNVKAPMMLDRMLRLLV---SHRVLECSVSGGERLYALNPVSKYFVS 114 (273)
Q Consensus 45 ~elglfd~L~~~g~~t~~eLA~~~g~~~~~~~~~l~rlL~~L~---~~gll~~~~~~~~~~y~lt~~s~~l~~ 114 (273)
-.+.+|..+.+. .++...|+.+++ ++..+.+-++.|. ..-+|++ .+....+|+.++.|..
T Consensus 8 ~~L~~f~~v~~~--gs~s~AA~~L~i----sQ~avS~~i~~LE~~lG~~LF~R----~~r~~~lT~~G~~l~~ 70 (302)
T PRK09791 8 HQIRAFVEVARQ--GSIRGASRMLNM----SQPALTKSIQELEEGLAAQLFFR----RSKGVTLTDAGESFYQ 70 (302)
T ss_pred HHHHHHHHHHHc--CCHHHHHHHhCC----ChHHHHHHHHHHHHHhCCeEEEE----cCCCceECccHHHHHH
Confidence 357788899884 599999999999 9999999888887 5677886 4566899999887654
Done!