Query 024350
Match_columns 269
No_of_seqs 143 out of 1161
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 03:55:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024350.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024350hhsearch_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 8.2E-40 1.8E-44 285.2 20.0 252 9-269 2-254 (342)
2 PF00891 Methyltransf_2: O-met 100.0 3.1E-37 6.6E-42 265.1 12.1 174 94-269 2-176 (241)
3 TIGR02716 C20_methyl_CrtF C-20 100.0 9.4E-34 2E-38 251.6 17.8 219 25-268 2-232 (306)
4 PF08100 Dimerisation: Dimeris 99.0 1.2E-09 2.5E-14 70.2 5.9 51 28-82 1-51 (51)
5 PRK06922 hypothetical protein; 98.9 3.1E-09 6.8E-14 101.3 8.2 112 153-265 377-501 (677)
6 PF12847 Methyltransf_18: Meth 98.9 4.5E-09 9.8E-14 78.9 5.7 71 194-264 2-84 (112)
7 PRK14103 trans-aconitate 2-met 98.8 1.4E-08 2.9E-13 88.0 8.7 83 182-266 19-104 (255)
8 TIGR03587 Pse_Me-ase pseudamin 98.8 1.2E-08 2.7E-13 85.4 7.2 76 192-267 42-121 (204)
9 COG4106 Tam Trans-aconitate me 98.7 1.9E-08 4.1E-13 83.0 6.3 85 181-266 19-107 (257)
10 PRK01683 trans-aconitate 2-met 98.7 1.1E-07 2.3E-12 82.4 9.7 86 181-267 20-109 (258)
11 PF13847 Methyltransf_31: Meth 98.7 3.1E-08 6.8E-13 78.8 5.8 75 193-267 3-89 (152)
12 TIGR00740 methyltransferase, p 98.7 3E-08 6.5E-13 85.0 5.1 75 193-267 53-138 (239)
13 TIGR02752 MenG_heptapren 2-hep 98.6 1.3E-07 2.8E-12 80.5 7.9 83 184-267 37-130 (231)
14 PF08242 Methyltransf_12: Meth 98.6 1.1E-08 2.4E-13 75.3 1.0 69 198-266 1-81 (99)
15 PRK08287 cobalt-precorrin-6Y C 98.6 9.5E-08 2.1E-12 78.8 6.2 76 186-262 25-108 (187)
16 PRK15451 tRNA cmo(5)U34 methyl 98.6 4.8E-08 1E-12 84.2 4.5 75 193-267 56-141 (247)
17 COG2226 UbiE Methylase involve 98.6 1.8E-07 3.9E-12 79.6 7.8 75 193-267 51-135 (238)
18 smart00138 MeTrc Methyltransfe 98.5 1E-06 2.2E-11 76.7 11.5 76 192-267 98-219 (264)
19 PLN02233 ubiquinone biosynthes 98.5 6.1E-07 1.3E-11 78.0 9.5 77 191-267 71-161 (261)
20 PRK06202 hypothetical protein; 98.5 4.6E-07 9.9E-12 77.3 8.5 76 192-267 59-145 (232)
21 PLN02244 tocopherol O-methyltr 98.5 3.9E-07 8.5E-12 82.2 8.2 75 192-267 117-202 (340)
22 PLN03075 nicotianamine synthas 98.5 3.7E-07 8.1E-12 80.0 7.7 75 192-267 122-210 (296)
23 PRK11207 tellurite resistance 98.5 2.3E-07 5E-12 77.2 6.1 83 182-267 20-111 (197)
24 PTZ00098 phosphoethanolamine N 98.5 3.7E-07 7.9E-12 79.5 6.8 83 182-266 42-132 (263)
25 PF01209 Ubie_methyltran: ubiE 98.5 2.6E-07 5.7E-12 78.9 5.6 77 191-267 45-132 (233)
26 TIGR02021 BchM-ChlM magnesium 98.4 6.5E-07 1.4E-11 75.7 7.5 73 192-266 54-134 (219)
27 PF13649 Methyltransf_25: Meth 98.4 1.2E-07 2.7E-12 70.0 2.6 71 197-267 1-84 (101)
28 PRK08317 hypothetical protein; 98.4 8.2E-07 1.8E-11 75.3 8.1 83 184-267 11-103 (241)
29 PRK00216 ubiE ubiquinone/menaq 98.4 1.1E-06 2.3E-11 74.8 8.7 83 184-267 43-137 (239)
30 smart00828 PKS_MT Methyltransf 98.4 3.6E-07 7.8E-12 77.3 5.5 72 195-266 1-82 (224)
31 PF08241 Methyltransf_11: Meth 98.4 4.6E-07 9.9E-12 65.3 4.9 68 198-266 1-75 (95)
32 PRK11036 putative S-adenosyl-L 98.4 6.5E-07 1.4E-11 77.5 6.5 80 184-267 37-128 (255)
33 PLN02490 MPBQ/MSBQ methyltrans 98.4 5.8E-07 1.3E-11 80.7 6.4 74 194-267 114-194 (340)
34 PLN02336 phosphoethanolamine N 98.4 1.3E-06 2.9E-11 82.3 8.4 82 184-267 258-348 (475)
35 TIGR02072 BioC biotin biosynth 98.3 1E-06 2.3E-11 74.7 6.4 74 193-266 34-113 (240)
36 PRK05785 hypothetical protein; 98.3 1.4E-06 3E-11 74.2 7.0 71 194-267 52-126 (226)
37 TIGR01934 MenG_MenH_UbiE ubiqu 98.3 2.3E-06 5E-11 71.9 7.8 82 184-266 31-121 (223)
38 PRK10258 biotin biosynthesis p 98.3 5.8E-06 1.3E-10 71.3 9.9 81 183-266 33-118 (251)
39 PRK07580 Mg-protoporphyrin IX 98.3 2.1E-06 4.5E-11 72.8 6.6 73 192-267 62-143 (230)
40 PF05175 MTS: Methyltransferas 98.2 1.5E-06 3.3E-11 70.6 4.8 66 193-258 31-105 (170)
41 PRK04457 spermidine synthase; 98.2 2.1E-06 4.6E-11 74.7 5.5 67 192-258 65-143 (262)
42 TIGR00138 gidB 16S rRNA methyl 98.2 1.3E-06 2.9E-11 71.7 3.9 71 194-265 43-122 (181)
43 PRK15001 SAM-dependent 23S rib 98.2 3.6E-06 7.8E-11 76.7 6.8 78 184-262 220-309 (378)
44 TIGR03533 L3_gln_methyl protei 98.2 3.3E-06 7.1E-11 74.3 6.2 66 193-258 121-196 (284)
45 TIGR02469 CbiT precorrin-6Y C5 98.2 8.6E-06 1.9E-10 61.8 7.6 78 184-262 11-99 (124)
46 PRK15068 tRNA mo(5)U34 methylt 98.2 6.8E-06 1.5E-10 73.6 7.9 82 184-267 114-205 (322)
47 PF05401 NodS: Nodulation prot 98.1 2.5E-06 5.4E-11 70.1 4.3 77 187-266 38-121 (201)
48 PRK11805 N5-glutamine S-adenos 98.1 3.3E-06 7.1E-11 75.1 5.5 64 195-258 135-208 (307)
49 TIGR00477 tehB tellurite resis 98.1 4.5E-06 9.8E-11 69.4 6.0 81 183-266 21-109 (195)
50 PRK11873 arsM arsenite S-adeno 98.1 7E-06 1.5E-10 71.7 6.9 77 191-267 75-162 (272)
51 TIGR00091 tRNA (guanine-N(7)-) 98.1 1.8E-06 3.9E-11 71.7 2.9 55 193-247 16-77 (194)
52 KOG1540 Ubiquinone biosynthesi 98.1 1.7E-05 3.6E-10 67.4 8.5 76 193-268 100-194 (296)
53 PLN02396 hexaprenyldihydroxybe 98.1 3.4E-06 7.4E-11 75.3 4.5 72 194-267 132-214 (322)
54 COG2890 HemK Methylase of poly 98.1 5.9E-06 1.3E-10 72.5 5.4 63 196-258 113-183 (280)
55 TIGR02081 metW methionine bios 98.1 1.4E-05 3E-10 66.3 7.2 73 193-267 13-91 (194)
56 PRK09489 rsmC 16S ribosomal RN 98.1 1.4E-05 3E-10 72.2 7.7 80 184-264 188-274 (342)
57 PRK00107 gidB 16S rRNA methylt 98.0 1.9E-05 4E-10 65.2 7.8 67 193-259 45-120 (187)
58 TIGR00536 hemK_fam HemK family 98.0 9.6E-06 2.1E-10 71.4 5.9 64 195-258 116-189 (284)
59 PRK13944 protein-L-isoaspartat 98.0 1.9E-05 4.2E-10 66.1 7.1 81 184-265 64-156 (205)
60 TIGR03534 RF_mod_PrmC protein- 98.0 1.9E-05 4.1E-10 67.8 7.3 65 193-257 87-160 (251)
61 COG2242 CobL Precorrin-6B meth 98.0 2E-05 4.4E-10 64.1 6.8 72 186-258 28-109 (187)
62 PRK14121 tRNA (guanine-N(7)-)- 98.0 2.1E-05 4.5E-10 71.6 7.3 74 184-258 114-199 (390)
63 PRK13942 protein-L-isoaspartat 98.0 4.1E-05 9E-10 64.4 8.5 82 183-265 67-159 (212)
64 PRK12335 tellurite resistance 98.0 1.3E-05 2.9E-10 70.6 5.7 80 184-266 112-199 (287)
65 PRK14966 unknown domain/N5-glu 98.0 2.2E-05 4.8E-10 72.0 7.2 66 193-258 251-326 (423)
66 PRK01544 bifunctional N5-gluta 97.9 1.3E-05 2.8E-10 76.1 5.7 64 194-257 139-212 (506)
67 TIGR00080 pimt protein-L-isoas 97.9 3.2E-05 7E-10 65.2 7.6 81 183-264 68-159 (215)
68 PLN02336 phosphoethanolamine N 97.9 1.9E-05 4.1E-10 74.4 6.8 84 181-267 26-119 (475)
69 TIGR00537 hemK_rel_arch HemK-r 97.9 2.9E-05 6.2E-10 63.5 6.8 72 193-266 19-97 (179)
70 smart00650 rADc Ribosomal RNA 97.9 3E-05 6.6E-10 62.8 6.8 76 183-262 4-87 (169)
71 TIGR00452 methyltransferase, p 97.9 5.1E-05 1.1E-09 67.6 8.8 82 184-267 113-204 (314)
72 PLN02585 magnesium protoporphy 97.9 1.8E-05 3.9E-10 70.5 5.3 71 194-267 145-228 (315)
73 PRK00121 trmB tRNA (guanine-N( 97.9 2.2E-05 4.8E-10 65.6 5.4 67 193-259 40-119 (202)
74 PRK09328 N5-glutamine S-adenos 97.9 5.2E-05 1.1E-09 66.1 7.9 66 192-257 107-181 (275)
75 PRK11088 rrmA 23S rRNA methylt 97.9 5E-05 1.1E-09 66.4 7.7 65 193-257 85-157 (272)
76 PF13659 Methyltransf_26: Meth 97.8 1.9E-05 4E-10 59.6 3.7 68 195-263 2-82 (117)
77 TIGR03438 probable methyltrans 97.8 2.6E-05 5.6E-10 69.2 5.2 76 193-268 63-155 (301)
78 PF13489 Methyltransf_23: Meth 97.8 8.9E-05 1.9E-09 58.8 7.7 69 192-266 21-93 (161)
79 TIGR03704 PrmC_rel_meth putati 97.8 7.1E-05 1.5E-09 64.7 7.6 65 194-258 87-160 (251)
80 PHA03411 putative methyltransf 97.8 6.1E-05 1.3E-09 65.4 6.8 71 194-264 65-139 (279)
81 COG2813 RsmC 16S RNA G1207 met 97.8 0.00011 2.3E-09 64.4 8.0 80 182-262 148-235 (300)
82 PRK07402 precorrin-6B methylas 97.8 4.2E-05 9.1E-10 63.5 5.3 63 184-247 32-101 (196)
83 COG4123 Predicted O-methyltran 97.8 3.7E-05 8.1E-10 65.7 4.9 68 191-258 42-122 (248)
84 PF07021 MetW: Methionine bios 97.7 3.9E-05 8.5E-10 62.9 4.6 71 193-264 13-88 (193)
85 PLN02366 spermidine synthase 97.7 5.8E-05 1.2E-09 67.1 5.7 65 192-257 90-171 (308)
86 PRK00274 ksgA 16S ribosomal RN 97.7 8.2E-05 1.8E-09 65.1 6.1 65 183-250 33-102 (272)
87 PRK14896 ksgA 16S ribosomal RN 97.7 0.00014 2.9E-09 63.2 7.4 79 182-264 19-103 (258)
88 TIGR00755 ksgA dimethyladenosi 97.7 0.00011 2.3E-09 63.6 6.5 80 182-264 19-106 (253)
89 PRK11188 rrmJ 23S rRNA methylt 97.6 0.00033 7.2E-09 58.9 9.0 75 185-263 43-129 (209)
90 TIGR03840 TMPT_Se_Te thiopurin 97.6 0.00017 3.6E-09 60.8 6.8 74 192-267 33-129 (213)
91 PRK00811 spermidine synthase; 97.6 7.7E-05 1.7E-09 65.6 5.0 67 192-258 75-157 (283)
92 cd02440 AdoMet_MTases S-adenos 97.6 0.00016 3.4E-09 51.9 5.7 68 196-264 1-79 (107)
93 PRK01581 speE spermidine synth 97.6 0.00013 2.9E-09 65.7 5.8 67 192-258 149-233 (374)
94 PRK00312 pcm protein-L-isoaspa 97.5 0.00036 7.7E-09 58.6 7.7 78 185-265 71-158 (212)
95 PRK11705 cyclopropane fatty ac 97.5 0.00033 7.2E-09 64.2 7.9 81 183-266 158-243 (383)
96 COG2227 UbiG 2-polyprenyl-3-me 97.5 5.9E-05 1.3E-09 63.8 2.6 73 194-268 60-141 (243)
97 COG2230 Cfa Cyclopropane fatty 97.5 0.0004 8.7E-09 60.5 7.5 65 181-247 61-133 (283)
98 PHA03412 putative methyltransf 97.5 0.00032 6.9E-09 59.7 6.6 65 194-258 50-121 (241)
99 PRK14968 putative methyltransf 97.5 0.00035 7.5E-09 57.1 6.6 67 193-261 23-100 (188)
100 PF02390 Methyltransf_4: Putat 97.4 0.00027 5.9E-09 58.7 5.3 54 194-247 18-78 (195)
101 PRK14967 putative methyltransf 97.4 0.00047 1E-08 58.4 6.7 67 191-258 34-108 (223)
102 PRK13255 thiopurine S-methyltr 97.4 0.00052 1.1E-08 58.0 6.7 73 192-266 36-131 (218)
103 PRK13943 protein-L-isoaspartat 97.4 0.00044 9.6E-09 61.8 6.4 79 184-263 72-161 (322)
104 PRK04266 fibrillarin; Provisio 97.3 0.00093 2E-08 56.8 8.0 68 188-256 68-146 (226)
105 PRK05134 bifunctional 3-demeth 97.3 0.00062 1.3E-08 57.9 6.8 72 193-266 48-129 (233)
106 PRK03612 spermidine synthase; 97.3 0.00039 8.4E-09 66.4 6.1 66 192-258 296-380 (521)
107 PF03848 TehB: Tellurite resis 97.3 0.00063 1.4E-08 56.2 6.4 82 183-267 21-110 (192)
108 PF02353 CMAS: Mycolic acid cy 97.3 0.00036 7.7E-09 61.1 5.2 77 182-261 52-137 (273)
109 PRK00377 cbiT cobalt-precorrin 97.3 0.00073 1.6E-08 56.1 6.8 72 186-258 34-118 (198)
110 PLN02672 methionine S-methyltr 97.3 0.00052 1.1E-08 70.0 6.8 56 195-250 120-198 (1082)
111 PTZ00338 dimethyladenosine tra 97.2 0.0011 2.3E-08 58.7 7.5 78 183-264 27-113 (294)
112 TIGR00438 rrmJ cell division p 97.2 0.0012 2.6E-08 54.3 7.4 69 186-258 25-105 (188)
113 PF09339 HTH_IclR: IclR helix- 97.2 0.00022 4.9E-09 46.0 2.3 44 36-88 6-49 (52)
114 smart00346 HTH_ICLR helix_turn 97.2 0.00086 1.9E-08 48.2 5.4 59 35-104 7-65 (91)
115 COG0421 SpeE Spermidine syntha 97.2 0.00059 1.3E-08 59.8 5.3 67 191-257 74-155 (282)
116 TIGR01983 UbiG ubiquinone bios 97.2 0.00055 1.2E-08 57.7 4.8 73 193-267 45-128 (224)
117 PRK00050 16S rRNA m(4)C1402 me 97.1 0.0011 2.4E-08 58.5 6.5 65 182-247 9-79 (296)
118 smart00550 Zalpha Z-DNA-bindin 97.1 0.0013 2.7E-08 45.0 5.5 60 33-102 6-66 (68)
119 PRK04148 hypothetical protein; 97.1 0.0016 3.5E-08 50.5 6.6 70 184-257 8-83 (134)
120 KOG1271 Methyltransferases [Ge 97.1 0.0011 2.4E-08 53.8 5.7 68 193-260 67-145 (227)
121 PLN02823 spermine synthase 97.1 0.00081 1.8E-08 60.5 5.3 67 192-258 102-183 (336)
122 TIGR00406 prmA ribosomal prote 97.1 0.0011 2.3E-08 58.6 5.9 87 168-258 137-232 (288)
123 KOG2904 Predicted methyltransf 97.1 0.0016 3.4E-08 56.1 6.5 60 191-250 146-217 (328)
124 KOG1270 Methyltransferases [Co 97.1 0.00024 5.2E-09 60.7 1.5 71 195-267 91-174 (282)
125 COG4262 Predicted spermidine s 97.1 0.00088 1.9E-08 59.9 5.0 74 192-268 288-377 (508)
126 PRK10909 rsmD 16S rRNA m(2)G96 97.0 0.0013 2.8E-08 54.9 5.5 63 194-257 54-127 (199)
127 PRK13168 rumA 23S rRNA m(5)U19 97.0 0.00083 1.8E-08 62.9 4.8 72 183-257 288-373 (443)
128 TIGR00417 speE spermidine synt 97.0 0.001 2.2E-08 58.1 5.0 68 192-259 71-153 (270)
129 PF08123 DOT1: Histone methyla 97.0 0.00098 2.1E-08 55.8 4.4 79 183-262 33-133 (205)
130 PRK03522 rumB 23S rRNA methylu 96.9 0.0012 2.6E-08 59.0 4.5 63 194-258 174-247 (315)
131 PF06325 PrmA: Ribosomal prote 96.8 0.0015 3.2E-08 57.8 4.6 86 168-261 139-234 (295)
132 COG0220 Predicted S-adenosylme 96.8 0.002 4.4E-08 54.7 5.2 54 194-247 49-109 (227)
133 COG2263 Predicted RNA methylas 96.8 0.003 6.5E-08 51.7 5.7 63 194-257 46-114 (198)
134 PF01135 PCMT: Protein-L-isoas 96.8 0.0026 5.7E-08 53.4 5.6 79 183-262 63-152 (209)
135 PRK13256 thiopurine S-methyltr 96.8 0.0051 1.1E-07 52.2 7.3 74 192-267 42-140 (226)
136 COG1414 IclR Transcriptional r 96.8 0.0025 5.5E-08 54.9 5.4 58 36-105 7-65 (246)
137 PRK11727 23S rRNA mA1618 methy 96.8 0.0025 5.5E-08 56.9 5.4 66 193-258 114-196 (321)
138 PF13601 HTH_34: Winged helix 96.7 0.0023 5E-08 45.2 4.1 64 34-107 1-68 (80)
139 KOG1541 Predicted protein carb 96.7 0.0012 2.5E-08 55.2 2.9 72 185-260 41-122 (270)
140 PRK14902 16S rRNA methyltransf 96.7 0.0032 6.9E-08 59.0 6.1 72 185-257 243-326 (444)
141 PLN02781 Probable caffeoyl-CoA 96.7 0.0019 4.2E-08 55.2 4.3 68 191-258 66-151 (234)
142 PF05185 PRMT5: PRMT5 arginine 96.7 0.0033 7.2E-08 58.8 6.1 99 154-256 151-263 (448)
143 PF12840 HTH_20: Helix-turn-he 96.7 0.0017 3.7E-08 43.3 3.0 53 27-89 4-56 (61)
144 PRK10141 DNA-binding transcrip 96.7 0.0053 1.2E-07 46.6 5.9 68 25-102 8-75 (117)
145 TIGR01177 conserved hypothetic 96.7 0.0051 1.1E-07 55.3 6.9 65 191-257 180-254 (329)
146 COG2518 Pcm Protein-L-isoaspar 96.7 0.0082 1.8E-07 50.1 7.5 74 183-259 63-146 (209)
147 PRK00517 prmA ribosomal protei 96.7 0.0027 5.8E-08 54.8 4.8 41 193-234 119-160 (250)
148 PF12147 Methyltransf_20: Puta 96.6 0.004 8.6E-08 54.3 5.7 76 193-268 135-226 (311)
149 PF02082 Rrf2: Transcriptional 96.6 0.0032 7E-08 44.7 4.3 53 42-102 17-69 (83)
150 PRK00536 speE spermidine synth 96.6 0.0036 7.8E-08 54.3 5.4 63 192-258 71-146 (262)
151 PRK11569 transcriptional repre 96.6 0.004 8.6E-08 54.5 5.5 59 36-105 31-89 (274)
152 PF05724 TPMT: Thiopurine S-me 96.6 0.0072 1.6E-07 51.1 6.9 75 191-267 35-132 (218)
153 TIGR02431 pcaR_pcaU beta-ketoa 96.6 0.0038 8.2E-08 53.8 5.2 57 36-105 12-68 (248)
154 TIGR02085 meth_trns_rumB 23S r 96.5 0.0024 5.3E-08 58.4 4.0 62 194-257 234-306 (374)
155 PRK10163 DNA-binding transcrip 96.5 0.0048 1E-07 53.9 5.6 59 36-105 28-86 (271)
156 PRK10901 16S rRNA methyltransf 96.5 0.006 1.3E-07 56.8 6.5 72 185-257 237-319 (427)
157 PF01978 TrmB: Sugar-specific 96.5 0.0027 5.8E-08 43.2 3.1 57 34-101 9-65 (68)
158 TIGR00478 tly hemolysin TlyA f 96.5 0.013 2.7E-07 50.0 7.8 77 182-260 64-152 (228)
159 PTZ00146 fibrillarin; Provisio 96.5 0.012 2.5E-07 51.9 7.7 69 191-259 130-210 (293)
160 KOG3420 Predicted RNA methylas 96.5 0.006 1.3E-07 47.8 5.1 73 183-258 39-121 (185)
161 PRK09834 DNA-binding transcrip 96.5 0.0056 1.2E-07 53.2 5.6 63 35-108 13-75 (263)
162 KOG0820 Ribosomal RNA adenine 96.5 0.0083 1.8E-07 51.8 6.4 70 182-254 48-126 (315)
163 PF13463 HTH_27: Winged helix 96.4 0.0067 1.5E-07 40.9 4.7 49 49-104 17-68 (68)
164 PF01022 HTH_5: Bacterial regu 96.4 0.0033 7.1E-08 39.5 2.9 43 35-88 4-46 (47)
165 TIGR00479 rumA 23S rRNA (uraci 96.4 0.0033 7.1E-08 58.6 3.9 60 185-247 285-351 (431)
166 PRK15090 DNA-binding transcrip 96.4 0.006 1.3E-07 52.8 5.2 58 36-105 17-74 (257)
167 PF00398 RrnaAD: Ribosomal RNA 96.4 0.0068 1.5E-07 52.7 5.5 77 181-260 19-105 (262)
168 PF10294 Methyltransf_16: Puta 96.3 0.0046 1E-07 50.3 4.0 71 193-263 45-131 (173)
169 COG2264 PrmA Ribosomal protein 96.3 0.0055 1.2E-07 53.9 4.7 64 168-235 140-204 (300)
170 TIGR01444 fkbM_fam methyltrans 96.3 0.0049 1.1E-07 48.0 3.9 52 196-247 1-59 (143)
171 PF01564 Spermine_synth: Sperm 96.3 0.0034 7.3E-08 54.1 3.1 66 192-257 75-156 (246)
172 PRK11512 DNA-binding transcrip 96.2 0.043 9.4E-07 43.0 9.1 63 36-108 43-108 (144)
173 PF13412 HTH_24: Winged helix- 96.2 0.0086 1.9E-07 37.7 4.1 45 34-88 4-48 (48)
174 KOG3115 Methyltransferase-like 96.2 0.0046 1E-07 51.1 3.4 73 194-266 61-148 (249)
175 PF08003 Methyltransf_9: Prote 96.2 0.023 4.9E-07 50.1 7.8 82 182-266 105-197 (315)
176 PF09445 Methyltransf_15: RNA 96.2 0.0023 4.9E-08 51.5 1.4 62 195-258 1-76 (163)
177 KOG2899 Predicted methyltransf 96.2 0.0063 1.4E-07 51.7 4.0 52 183-234 47-100 (288)
178 PF14947 HTH_45: Winged helix- 96.1 0.015 3.2E-07 40.7 5.2 49 49-108 18-66 (77)
179 PF01739 CheR: CheR methyltran 96.1 0.0085 1.8E-07 49.8 4.6 75 193-267 31-152 (196)
180 PHA00738 putative HTH transcri 96.1 0.014 3.1E-07 43.1 5.2 60 33-102 12-71 (108)
181 PRK01544 bifunctional N5-gluta 96.0 0.0087 1.9E-07 57.0 4.9 53 193-245 347-406 (506)
182 cd00092 HTH_CRP helix_turn_hel 96.0 0.017 3.8E-07 38.7 5.1 44 49-102 24-67 (67)
183 KOG1500 Protein arginine N-met 96.0 0.014 3E-07 51.9 5.6 64 191-256 176-248 (517)
184 PF13679 Methyltransf_32: Meth 96.0 0.011 2.3E-07 46.4 4.5 56 192-247 24-93 (141)
185 COG1352 CheR Methylase of chem 96.0 0.051 1.1E-06 47.3 9.0 74 193-266 96-217 (268)
186 PF01596 Methyltransf_3: O-met 96.0 0.0039 8.4E-08 52.2 2.0 68 192-259 44-129 (205)
187 PRK11760 putative 23S rRNA C24 96.0 0.025 5.5E-07 50.7 7.1 65 193-259 211-278 (357)
188 TIGR02337 HpaR homoprotocatech 95.9 0.03 6.5E-07 42.3 6.6 68 33-110 28-98 (118)
189 PRK14904 16S rRNA methyltransf 95.9 0.017 3.6E-07 54.2 6.0 67 191-257 248-324 (445)
190 PRK10611 chemotaxis methyltran 95.8 0.13 2.9E-06 45.3 11.0 74 194-267 116-239 (287)
191 COG0030 KsgA Dimethyladenosine 95.8 0.059 1.3E-06 46.6 8.5 70 181-251 19-92 (259)
192 KOG1499 Protein arginine N-met 95.8 0.013 2.8E-07 52.3 4.4 63 193-256 60-132 (346)
193 TIGR00095 RNA methyltransferas 95.7 0.0079 1.7E-07 49.7 2.8 53 194-247 50-110 (189)
194 PRK10857 DNA-binding transcrip 95.7 0.025 5.5E-07 45.6 5.6 46 49-102 24-69 (164)
195 KOG3010 Methyltransferase [Gen 95.7 0.012 2.7E-07 49.9 3.8 72 193-266 33-115 (261)
196 smart00419 HTH_CRP helix_turn_ 95.7 0.028 6.2E-07 34.9 4.7 41 50-101 8-48 (48)
197 COG1959 Predicted transcriptio 95.6 0.026 5.6E-07 44.8 5.4 55 40-102 15-69 (150)
198 TIGR02010 IscR iron-sulfur clu 95.6 0.031 6.6E-07 43.5 5.5 46 49-102 24-69 (135)
199 PF01638 HxlR: HxlR-like helix 95.5 0.034 7.4E-07 40.0 5.3 60 38-108 10-73 (90)
200 PF09243 Rsm22: Mitochondrial 95.5 0.032 6.9E-07 48.9 6.0 74 193-266 33-117 (274)
201 PF12802 MarR_2: MarR family; 95.5 0.022 4.7E-07 37.6 3.7 48 35-90 7-54 (62)
202 PF06080 DUF938: Protein of un 95.5 0.029 6.4E-07 46.7 5.2 74 192-265 23-116 (204)
203 PRK14901 16S rRNA methyltransf 95.4 0.032 7E-07 52.1 6.0 71 186-257 246-331 (434)
204 TIGR02143 trmA_only tRNA (urac 95.4 0.015 3.2E-07 52.9 3.6 51 195-247 199-256 (353)
205 smart00347 HTH_MARR helix_turn 95.4 0.038 8.2E-07 39.9 5.2 64 35-108 12-78 (101)
206 TIGR02702 SufR_cyano iron-sulf 95.4 0.044 9.6E-07 45.7 6.2 65 36-110 4-73 (203)
207 PLN02476 O-methyltransferase 95.4 0.019 4E-07 50.3 3.9 68 191-258 116-201 (278)
208 TIGR00738 rrf2_super rrf2 fami 95.3 0.034 7.5E-07 42.8 5.0 46 49-102 24-69 (132)
209 PRK11050 manganese transport r 95.3 0.17 3.8E-06 40.2 9.1 85 6-108 15-99 (152)
210 cd00090 HTH_ARSR Arsenical Res 95.3 0.049 1.1E-06 36.8 5.2 57 35-102 9-65 (78)
211 PF04816 DUF633: Family of unk 95.3 0.019 4E-07 48.1 3.5 62 197-258 1-73 (205)
212 PRK11783 rlmL 23S rRNA m(2)G24 95.3 0.018 3.9E-07 57.1 3.9 64 193-257 538-614 (702)
213 PF07381 DUF1495: Winged helix 95.2 0.054 1.2E-06 39.0 5.3 69 32-108 8-87 (90)
214 PF01795 Methyltransf_5: MraW 95.2 0.052 1.1E-06 48.2 6.2 66 181-247 9-80 (310)
215 PF01170 UPF0020: Putative RNA 95.2 0.031 6.8E-07 45.7 4.6 74 183-257 19-112 (179)
216 KOG2361 Predicted methyltransf 95.2 0.015 3.4E-07 49.3 2.7 74 194-267 72-160 (264)
217 PF01728 FtsJ: FtsJ-like methy 95.1 0.017 3.7E-07 47.0 2.9 63 181-247 9-74 (181)
218 PRK03902 manganese transport t 95.1 0.064 1.4E-06 42.0 6.0 50 49-108 21-70 (142)
219 PF05148 Methyltransf_8: Hypot 95.1 0.13 2.7E-06 43.1 7.8 93 158-261 33-132 (219)
220 PRK15128 23S rRNA m(5)C1962 me 95.1 0.024 5.3E-07 52.2 4.0 65 193-258 220-300 (396)
221 TIGR00563 rsmB ribosomal RNA s 95.1 0.037 8.1E-07 51.6 5.3 73 184-257 230-315 (426)
222 COG3355 Predicted transcriptio 95.1 0.06 1.3E-06 41.2 5.4 45 36-90 30-75 (126)
223 smart00418 HTH_ARSR helix_turn 95.0 0.075 1.6E-06 34.7 5.4 54 38-102 2-55 (66)
224 PF09012 FeoC: FeoC like trans 95.0 0.04 8.8E-07 37.5 4.0 42 38-89 5-46 (69)
225 PF08461 HTH_12: Ribonuclease 94.9 0.066 1.4E-06 36.3 4.9 61 38-105 3-63 (66)
226 PRK05031 tRNA (uracil-5-)-meth 94.9 0.023 4.9E-07 51.8 3.4 51 195-247 208-265 (362)
227 PRK14903 16S rRNA methyltransf 94.9 0.052 1.1E-06 50.7 5.8 67 191-257 235-313 (431)
228 PF07757 AdoMet_MTase: Predict 94.9 0.036 7.8E-07 41.1 3.7 39 184-225 50-88 (112)
229 TIGR00006 S-adenosyl-methyltra 94.9 0.071 1.5E-06 47.3 6.3 65 182-247 10-80 (305)
230 PF01047 MarR: MarR family; I 94.9 0.03 6.6E-07 36.6 3.1 46 35-90 5-50 (59)
231 TIGR02944 suf_reg_Xantho FeS a 94.8 0.045 9.7E-07 42.2 4.4 46 49-102 24-69 (130)
232 COG2345 Predicted transcriptio 94.8 0.066 1.4E-06 45.0 5.6 64 37-110 15-83 (218)
233 TIGR01884 cas_HTH CRISPR locus 94.7 0.067 1.5E-06 44.6 5.4 60 34-104 144-203 (203)
234 PF08220 HTH_DeoR: DeoR-like h 94.7 0.096 2.1E-06 34.3 5.0 43 37-89 4-46 (57)
235 TIGR00446 nop2p NOL1/NOP2/sun 94.6 0.073 1.6E-06 46.3 5.5 66 192-257 70-146 (264)
236 PF04703 FaeA: FaeA-like prote 94.6 0.066 1.4E-06 35.8 4.0 45 37-90 4-48 (62)
237 KOG3191 Predicted N6-DNA-methy 94.4 0.074 1.6E-06 43.4 4.7 66 194-259 44-118 (209)
238 PLN02589 caffeoyl-CoA O-methyl 94.3 0.039 8.5E-07 47.5 3.2 56 192-247 78-142 (247)
239 PF04967 HTH_10: HTH DNA bindi 94.3 0.076 1.6E-06 34.3 3.7 43 25-80 4-46 (53)
240 PRK03573 transcriptional regul 94.2 0.14 3E-06 40.0 6.0 63 38-109 36-101 (144)
241 PRK10870 transcriptional repre 94.2 0.59 1.3E-05 38.1 9.8 66 37-110 59-127 (176)
242 TIGR01889 Staph_reg_Sar staphy 94.1 0.13 2.8E-06 38.3 5.3 67 34-108 26-97 (109)
243 COG4976 Predicted methyltransf 94.0 0.054 1.2E-06 45.8 3.3 66 166-234 95-165 (287)
244 PF04672 Methyltransf_19: S-ad 93.9 0.19 4.1E-06 43.6 6.5 76 193-268 68-167 (267)
245 PF03141 Methyltransf_29: Puta 93.8 0.063 1.4E-06 50.3 3.7 75 193-268 117-198 (506)
246 COG4122 Predicted O-methyltran 93.8 0.069 1.5E-06 45.1 3.6 68 191-258 57-139 (219)
247 COG4742 Predicted transcriptio 93.7 0.15 3.3E-06 44.0 5.6 68 29-111 9-76 (260)
248 smart00420 HTH_DEOR helix_turn 93.7 0.2 4.4E-06 31.4 5.0 42 38-89 5-46 (53)
249 TIGR00122 birA_repr_reg BirA b 93.5 0.2 4.4E-06 33.9 5.0 54 35-102 2-55 (69)
250 PRK11920 rirA iron-responsive 93.5 0.14 3E-06 40.8 4.8 46 49-102 23-68 (153)
251 smart00529 HTH_DTXR Helix-turn 93.4 0.16 3.4E-06 36.7 4.6 46 53-108 2-47 (96)
252 PRK11014 transcriptional repre 93.4 0.14 3E-06 40.1 4.6 46 49-102 24-69 (141)
253 smart00344 HTH_ASNC helix_turn 93.3 0.16 3.5E-06 37.5 4.5 45 34-88 4-48 (108)
254 COG3432 Predicted transcriptio 93.2 0.12 2.6E-06 37.5 3.5 61 38-110 20-84 (95)
255 COG0293 FtsJ 23S rRNA methylas 93.0 0.3 6.5E-06 40.7 6.1 67 178-248 30-97 (205)
256 PRK06266 transcription initiat 93.0 0.33 7.2E-06 39.7 6.4 45 36-90 25-69 (178)
257 PRK14165 winged helix-turn-hel 93.0 0.22 4.7E-06 42.0 5.4 55 49-110 20-74 (217)
258 PRK04338 N(2),N(2)-dimethylgua 92.9 0.11 2.4E-06 47.7 3.8 63 195-257 59-131 (382)
259 PF00325 Crp: Bacterial regula 92.9 0.15 3.2E-06 29.2 2.9 31 50-87 2-32 (32)
260 COG2519 GCD14 tRNA(1-methylade 92.9 0.46 1E-05 40.8 7.1 84 173-257 71-169 (256)
261 PF07091 FmrO: Ribosomal RNA m 92.8 0.097 2.1E-06 44.9 3.0 72 193-264 105-184 (251)
262 COG1321 TroR Mn-dependent tran 92.6 0.33 7.1E-06 38.7 5.7 52 49-110 23-74 (154)
263 smart00345 HTH_GNTR helix_turn 92.6 0.39 8.4E-06 30.9 5.2 34 49-89 18-52 (60)
264 PF10007 DUF2250: Uncharacteri 92.5 0.39 8.5E-06 34.7 5.3 46 34-89 8-53 (92)
265 cd07153 Fur_like Ferric uptake 92.4 0.37 8E-06 36.1 5.5 47 35-90 3-54 (116)
266 COG4189 Predicted transcriptio 92.4 0.27 5.9E-06 41.5 5.0 54 26-89 16-69 (308)
267 PRK15431 ferrous iron transpor 92.3 0.42 9.1E-06 33.3 5.0 43 38-90 7-49 (78)
268 KOG3045 Predicted RNA methylas 92.2 0.49 1.1E-05 40.8 6.4 91 156-259 139-236 (325)
269 COG0275 Predicted S-adenosylme 92.1 0.35 7.6E-06 42.6 5.6 65 182-247 13-84 (314)
270 PRK11783 rlmL 23S rRNA m(2)G24 92.0 0.45 9.7E-06 47.3 6.9 76 181-257 178-309 (702)
271 PF03291 Pox_MCEL: mRNA cappin 91.9 0.37 8E-06 43.4 5.8 94 166-263 38-157 (331)
272 PHA02943 hypothetical protein; 91.8 0.5 1.1E-05 37.2 5.5 43 37-90 15-57 (165)
273 COG2384 Predicted SAM-dependen 91.7 0.52 1.1E-05 39.7 6.0 64 195-258 18-92 (226)
274 PF08279 HTH_11: HTH domain; 91.6 0.49 1.1E-05 30.3 4.6 40 37-85 4-43 (55)
275 PF02475 Met_10: Met-10+ like- 91.6 0.24 5.1E-06 41.3 3.8 68 192-259 100-177 (200)
276 cd07377 WHTH_GntR Winged helix 91.5 0.66 1.4E-05 30.4 5.4 32 51-89 26-57 (66)
277 PRK04172 pheS phenylalanyl-tRN 91.5 0.31 6.7E-06 46.3 5.0 67 34-111 7-73 (489)
278 TIGR01610 phage_O_Nterm phage 91.4 0.46 9.9E-06 34.5 4.8 44 49-101 46-89 (95)
279 PF06163 DUF977: Bacterial pro 91.3 0.59 1.3E-05 35.6 5.4 48 31-88 10-57 (127)
280 TIGR00373 conserved hypothetic 91.0 0.44 9.5E-06 38.2 4.7 45 36-90 17-61 (158)
281 PF14394 DUF4423: Domain of un 90.9 0.65 1.4E-05 37.7 5.7 64 23-106 22-87 (171)
282 TIGR03439 methyl_EasF probable 90.7 0.89 1.9E-05 40.7 6.9 84 182-268 68-174 (319)
283 COG4190 Predicted transcriptio 90.5 0.67 1.4E-05 35.6 5.0 54 26-89 57-110 (144)
284 PRK06474 hypothetical protein; 90.5 0.5 1.1E-05 38.6 4.7 71 27-106 5-81 (178)
285 PF00392 GntR: Bacterial regul 90.4 0.5 1.1E-05 31.4 3.9 34 49-89 22-56 (64)
286 COG5459 Predicted rRNA methyla 90.3 0.33 7.3E-06 43.6 3.8 75 188-263 109-194 (484)
287 PRK13777 transcriptional regul 90.3 1.1 2.3E-05 37.0 6.5 63 37-109 49-114 (185)
288 PRK11179 DNA-binding transcrip 90.0 0.57 1.2E-05 37.2 4.6 46 33-88 9-54 (153)
289 COG1733 Predicted transcriptio 90.0 2 4.4E-05 32.6 7.4 76 13-108 12-91 (120)
290 COG2512 Predicted membrane-ass 90.0 0.52 1.1E-05 40.9 4.6 47 35-90 197-243 (258)
291 PF01325 Fe_dep_repress: Iron 89.7 0.69 1.5E-05 30.6 4.1 34 49-89 21-54 (60)
292 PRK05638 threonine synthase; V 89.6 0.59 1.3E-05 43.8 5.1 60 38-108 376-438 (442)
293 COG1846 MarR Transcriptional r 89.6 0.85 1.8E-05 33.8 5.2 70 32-111 21-93 (126)
294 PRK11169 leucine-responsive tr 89.6 0.51 1.1E-05 37.9 4.1 47 32-88 13-59 (164)
295 PF01726 LexA_DNA_bind: LexA D 89.6 0.65 1.4E-05 31.3 3.9 39 43-89 20-58 (65)
296 PLN02853 Probable phenylalanyl 89.3 0.76 1.6E-05 43.4 5.4 69 32-111 2-71 (492)
297 COG1378 Predicted transcriptio 89.0 0.85 1.8E-05 39.3 5.2 60 37-107 20-79 (247)
298 KOG4589 Cell division protein 88.7 0.86 1.9E-05 37.5 4.7 44 186-229 62-106 (232)
299 PF02002 TFIIE_alpha: TFIIE al 88.7 0.69 1.5E-05 34.1 3.9 42 38-89 18-59 (105)
300 PF08704 GCD14: tRNA methyltra 88.5 1.5 3.3E-05 37.8 6.4 74 183-257 31-119 (247)
301 TIGR02787 codY_Gpos GTP-sensin 88.2 2.2 4.9E-05 36.4 7.0 72 7-89 159-230 (251)
302 PF02527 GidB: rRNA small subu 88.0 0.59 1.3E-05 38.4 3.4 65 196-260 51-124 (184)
303 COG0357 GidB Predicted S-adeno 88.0 0.5 1.1E-05 39.8 3.0 66 194-259 68-143 (215)
304 PF02319 E2F_TDP: E2F/DP famil 87.8 0.48 1E-05 32.5 2.4 43 49-99 23-68 (71)
305 PF09929 DUF2161: Uncharacteri 87.7 0.98 2.1E-05 34.1 4.1 50 40-105 66-115 (118)
306 COG1522 Lrp Transcriptional re 87.7 0.98 2.1E-05 35.5 4.5 46 33-88 8-53 (154)
307 COG4076 Predicted RNA methylas 87.7 1 2.2E-05 37.1 4.6 61 195-257 34-102 (252)
308 PTZ00326 phenylalanyl-tRNA syn 87.5 1.3 2.9E-05 41.9 5.8 69 33-111 6-74 (494)
309 KOG1661 Protein-L-isoaspartate 87.4 1 2.2E-05 37.8 4.4 67 192-258 81-169 (237)
310 COG3963 Phospholipid N-methylt 87.3 1.5 3.3E-05 35.4 5.2 68 179-247 35-105 (194)
311 KOG2730 Methylase [General fun 87.3 0.33 7.1E-06 40.9 1.6 53 193-247 94-154 (263)
312 PRK04214 rbn ribonuclease BN/u 87.2 1.1 2.3E-05 41.7 5.1 43 49-101 309-351 (412)
313 COG1497 Predicted transcriptio 87.0 1.6 3.4E-05 37.2 5.4 86 49-146 24-111 (260)
314 PF03444 HrcA_DNA-bdg: Winged 86.9 2.5 5.5E-05 29.5 5.5 51 49-107 22-72 (78)
315 PF05732 RepL: Firmicute plasm 86.7 1.1 2.5E-05 36.1 4.4 43 51-103 76-118 (165)
316 COG5631 Predicted transcriptio 86.6 2.2 4.7E-05 34.0 5.6 77 21-105 64-147 (199)
317 PF05891 Methyltransf_PK: AdoM 86.4 0.42 9.1E-06 40.2 1.7 75 193-268 55-139 (218)
318 PF03602 Cons_hypoth95: Conser 85.9 0.53 1.1E-05 38.6 2.1 63 194-257 43-120 (183)
319 PF08784 RPA_C: Replication pr 85.9 1.4 3E-05 32.3 4.2 49 33-88 47-96 (102)
320 PF13545 HTH_Crp_2: Crp-like h 85.9 1.4 2.9E-05 30.1 3.9 42 50-102 28-69 (76)
321 TIGR02147 Fsuc_second hypothet 85.3 2.1 4.6E-05 37.4 5.6 46 49-104 136-183 (271)
322 KOG2187 tRNA uracil-5-methyltr 85.3 0.85 1.8E-05 43.0 3.3 55 191-247 381-445 (534)
323 PRK13509 transcriptional repre 85.1 1.9 4.1E-05 37.2 5.3 45 35-89 7-51 (251)
324 COG4565 CitB Response regulato 84.9 1.7 3.6E-05 36.5 4.5 43 38-89 163-205 (224)
325 COG3897 Predicted methyltransf 84.9 3.3 7.1E-05 34.4 6.1 73 191-265 77-156 (218)
326 PF13404 HTH_AsnC-type: AsnC-t 84.7 1.7 3.8E-05 26.4 3.5 27 34-63 4-30 (42)
327 PRK10742 putative methyltransf 84.5 2.1 4.5E-05 36.9 5.1 73 182-257 76-170 (250)
328 PF12793 SgrR_N: Sugar transpo 84.4 1.7 3.7E-05 32.8 4.1 35 49-90 18-52 (115)
329 PRK09775 putative DNA-binding 84.3 1.6 3.5E-05 40.9 4.7 52 38-102 5-56 (442)
330 PF04072 LCM: Leucine carboxyl 84.2 1.7 3.7E-05 35.4 4.4 75 193-267 78-173 (183)
331 KOG1331 Predicted methyltransf 84.1 0.59 1.3E-05 40.8 1.6 70 193-266 45-118 (293)
332 PF05219 DREV: DREV methyltran 83.8 1.9 4.2E-05 37.2 4.6 69 193-264 94-164 (265)
333 KOG1975 mRNA cap methyltransfe 83.7 1.9 4.2E-05 38.5 4.6 90 166-266 99-212 (389)
334 TIGR01321 TrpR trp operon repr 83.5 3.8 8.3E-05 29.7 5.4 40 32-82 41-80 (94)
335 PF13730 HTH_36: Helix-turn-he 83.3 1.9 4.2E-05 27.4 3.5 29 52-87 27-55 (55)
336 COG1510 Predicted transcriptio 83.0 1.5 3.2E-05 35.4 3.3 35 49-90 40-74 (177)
337 COG3413 Predicted DNA binding 82.6 2.1 4.5E-05 36.0 4.4 35 23-63 157-191 (215)
338 PRK00215 LexA repressor; Valid 82.5 3.3 7.1E-05 34.3 5.5 34 49-89 22-56 (205)
339 PRK10906 DNA-binding transcrip 81.9 2.5 5.5E-05 36.5 4.7 45 35-89 7-51 (252)
340 PF12324 HTH_15: Helix-turn-he 81.8 1.9 4.1E-05 30.0 3.1 35 38-82 29-63 (77)
341 PF04182 B-block_TFIIIC: B-blo 81.5 2.1 4.6E-05 29.5 3.4 48 34-89 3-50 (75)
342 PLN02668 indole-3-acetate carb 81.5 6.2 0.00014 36.3 7.3 72 193-264 63-175 (386)
343 PF14338 Mrr_N: Mrr N-terminal 81.5 17 0.00036 26.0 8.2 66 38-110 25-90 (92)
344 PRK10411 DNA-binding transcrip 81.5 3.9 8.5E-05 35.0 5.7 45 35-89 6-50 (240)
345 TIGR00308 TRM1 tRNA(guanine-26 81.3 1.3 2.8E-05 40.6 2.9 63 195-257 46-120 (374)
346 PRK09802 DNA-binding transcrip 81.1 3 6.6E-05 36.3 5.0 46 34-89 18-63 (269)
347 PF05958 tRNA_U5-meth_tr: tRNA 80.7 1.1 2.5E-05 40.6 2.3 59 182-244 187-252 (352)
348 PF02796 HTH_7: Helix-turn-hel 80.6 2.3 5.1E-05 26.1 3.0 23 50-79 21-43 (45)
349 COG0116 Predicted N6-adenine-s 80.5 4.4 9.5E-05 37.1 5.9 67 191-257 189-305 (381)
350 PF09821 AAA_assoc_C: C-termin 80.3 3 6.4E-05 31.8 4.0 46 55-111 2-47 (120)
351 PRK10434 srlR DNA-bindng trans 80.2 2.8 6.1E-05 36.2 4.5 45 35-89 7-51 (256)
352 COG2265 TrmA SAM-dependent met 79.7 2.6 5.6E-05 39.5 4.3 60 185-247 286-352 (432)
353 PF11968 DUF3321: Putative met 79.4 1.9 4.1E-05 36.3 3.0 63 194-267 52-120 (219)
354 COG1349 GlpR Transcriptional r 79.2 3.6 7.7E-05 35.5 4.8 54 35-101 7-60 (253)
355 PF01475 FUR: Ferric uptake re 79.1 3.6 7.9E-05 30.9 4.3 66 32-102 7-74 (120)
356 KOG3924 Putative protein methy 78.9 2.2 4.7E-05 39.1 3.3 79 184-263 184-284 (419)
357 PRK09954 putative kinase; Prov 78.3 4.5 9.8E-05 36.6 5.4 44 35-88 5-48 (362)
358 PF08221 HTH_9: RNA polymerase 78.1 3.7 7.9E-05 27.3 3.5 42 38-89 18-59 (62)
359 PRK11886 bifunctional biotin-- 78.0 4.6 0.0001 36.0 5.3 55 36-102 7-61 (319)
360 PF05206 TRM13: Methyltransfer 77.6 6.1 0.00013 34.3 5.7 37 191-227 16-57 (259)
361 PF05584 Sulfolobus_pRN: Sulfo 77.4 6.9 0.00015 26.9 4.7 42 37-89 9-50 (72)
362 PRK11534 DNA-binding transcrip 77.1 4.7 0.0001 33.8 4.9 35 49-90 29-63 (224)
363 COG2521 Predicted archaeal met 77.0 1.9 4.1E-05 36.8 2.3 56 192-248 133-197 (287)
364 TIGR03338 phnR_burk phosphonat 76.8 4.5 9.7E-05 33.5 4.6 35 49-90 33-67 (212)
365 KOG0822 Protein kinase inhibit 76.6 10 0.00022 36.2 7.1 106 154-267 333-454 (649)
366 PF06969 HemN_C: HemN C-termin 76.2 6.7 0.00015 25.9 4.5 47 49-105 19-65 (66)
367 PRK09334 30S ribosomal protein 76.0 3.8 8.3E-05 29.2 3.3 44 38-88 28-72 (86)
368 COG0640 ArsR Predicted transcr 75.9 7.9 0.00017 27.1 5.2 54 27-90 19-72 (110)
369 TIGR02987 met_A_Alw26 type II 75.9 2.6 5.7E-05 40.4 3.3 55 193-247 31-100 (524)
370 KOG4058 Uncharacterized conser 75.7 2.9 6.2E-05 33.1 2.8 67 182-250 62-137 (199)
371 PRK01381 Trp operon repressor; 75.6 2.5 5.4E-05 30.9 2.3 40 32-82 41-80 (99)
372 PRK11642 exoribonuclease R; Pr 75.6 7.3 0.00016 39.5 6.4 57 37-101 23-79 (813)
373 COG1565 Uncharacterized conser 75.2 6.8 0.00015 35.6 5.5 95 163-262 52-159 (370)
374 PF03428 RP-C: Replication pro 75.0 4.4 9.6E-05 33.0 3.9 32 51-89 71-103 (177)
375 PF02384 N6_Mtase: N-6 DNA Met 75.0 5.2 0.00011 35.3 4.8 67 191-257 44-131 (311)
376 KOG1709 Guanidinoacetate methy 74.7 15 0.00032 31.1 6.9 66 192-257 100-175 (271)
377 PF02295 z-alpha: Adenosine de 74.5 6.5 0.00014 26.5 4.0 60 34-102 5-64 (66)
378 PRK10421 DNA-binding transcrip 74.4 6.1 0.00013 33.8 4.9 43 49-100 24-67 (253)
379 PF09904 HTH_43: Winged helix- 74.1 4.5 9.7E-05 29.0 3.2 54 38-102 13-70 (90)
380 COG1675 TFA1 Transcription ini 74.0 6.3 0.00014 32.1 4.5 44 37-90 22-65 (176)
381 PRK09990 DNA-binding transcrip 74.0 6.4 0.00014 33.6 4.9 43 49-100 29-72 (251)
382 PRK09464 pdhR transcriptional 73.7 6.5 0.00014 33.6 4.9 44 49-101 32-76 (254)
383 PF07789 DUF1627: Protein of u 73.6 6.5 0.00014 30.9 4.3 46 49-101 5-50 (155)
384 PF03059 NAS: Nicotianamine sy 73.5 3.7 8E-05 36.0 3.3 66 194-259 121-200 (276)
385 smart00531 TFIIE Transcription 73.4 6.4 0.00014 31.0 4.4 42 36-87 4-45 (147)
386 PRK04984 fatty acid metabolism 73.3 6.7 0.00015 33.2 4.9 43 49-100 29-72 (239)
387 PRK04424 fatty acid biosynthes 73.2 4 8.6E-05 33.5 3.3 45 35-89 9-53 (185)
388 PRK10225 DNA-binding transcrip 72.9 6.8 0.00015 33.6 4.8 43 49-100 31-74 (257)
389 TIGR02812 fadR_gamma fatty aci 72.7 7.1 0.00015 33.0 4.9 43 49-100 28-71 (235)
390 PF13384 HTH_23: Homeodomain-l 72.6 4.5 9.7E-05 25.1 2.8 40 35-86 7-46 (50)
391 PRK10046 dpiA two-component re 72.5 6.1 0.00013 33.0 4.4 44 37-89 166-209 (225)
392 TIGR00498 lexA SOS regulatory 71.4 8.7 0.00019 31.6 5.0 54 34-99 7-64 (199)
393 PF00165 HTH_AraC: Bacterial r 71.3 3.8 8.2E-05 24.5 2.1 29 49-84 7-35 (42)
394 PRK09391 fixK transcriptional 70.9 8.2 0.00018 32.5 4.8 42 50-101 179-220 (230)
395 COG1725 Predicted transcriptio 70.8 8.3 0.00018 29.5 4.3 43 49-100 34-76 (125)
396 PF00126 HTH_1: Bacterial regu 70.5 13 0.00027 24.2 4.7 55 35-105 3-60 (60)
397 PF04989 CmcI: Cephalosporin h 70.1 7.6 0.00017 32.5 4.3 55 193-247 32-96 (206)
398 COG0735 Fur Fe2+/Zn2+ uptake r 70.1 11 0.00023 29.7 4.9 64 34-103 22-88 (145)
399 PRK03837 transcriptional regul 70.1 9.4 0.0002 32.2 5.1 43 49-100 35-78 (241)
400 PRK11639 zinc uptake transcrip 70.1 9.4 0.0002 30.8 4.8 55 32-90 25-79 (169)
401 PRK10736 hypothetical protein; 69.7 8.9 0.00019 35.1 5.0 50 37-100 312-361 (374)
402 PF04445 SAM_MT: Putative SAM- 69.6 5.7 0.00012 33.9 3.5 73 183-258 64-158 (234)
403 KOG4300 Predicted methyltransf 69.6 9.1 0.0002 32.2 4.5 68 193-264 76-158 (252)
404 PRK12423 LexA repressor; Provi 69.4 10 0.00023 31.4 5.1 33 50-89 25-58 (202)
405 PF03492 Methyltransf_7: SAM d 69.2 12 0.00025 33.8 5.7 75 191-265 14-121 (334)
406 PRK11161 fumarate/nitrate redu 69.1 8.9 0.00019 32.2 4.7 42 50-102 184-225 (235)
407 PRK11523 DNA-binding transcrip 69.0 9.5 0.00021 32.6 4.9 43 49-100 30-73 (253)
408 PRK11414 colanic acid/biofilm 69.0 8.2 0.00018 32.2 4.4 35 49-90 33-67 (221)
409 COG2186 FadR Transcriptional r 68.9 8.3 0.00018 33.0 4.4 42 51-101 35-76 (241)
410 TIGR03697 NtcA_cyano global ni 68.7 6.9 0.00015 31.5 3.8 33 50-89 143-175 (193)
411 PF13518 HTH_28: Helix-turn-he 68.6 10 0.00023 23.4 3.9 30 51-87 13-42 (52)
412 PRK09462 fur ferric uptake reg 68.3 17 0.00037 28.4 5.8 54 33-90 17-71 (148)
413 PF05331 DUF742: Protein of un 68.0 7.6 0.00017 29.3 3.5 34 49-89 54-87 (114)
414 PF01861 DUF43: Protein of unk 68.0 9.5 0.00021 32.7 4.5 71 184-257 37-118 (243)
415 PF03297 Ribosomal_S25: S25 ri 67.6 6.2 0.00013 29.3 2.9 45 38-89 46-91 (105)
416 TIGR03879 near_KaiC_dom probab 67.5 4.8 0.0001 27.8 2.2 32 50-88 32-63 (73)
417 PHA02701 ORF020 dsRNA-binding 67.4 13 0.00028 30.4 4.9 60 33-102 4-63 (183)
418 PRK13239 alkylmercury lyase; P 67.0 8.3 0.00018 32.2 3.9 40 34-83 23-62 (206)
419 PRK14999 histidine utilization 66.8 11 0.00023 32.0 4.8 44 49-101 34-78 (241)
420 PF09681 Phage_rep_org_N: N-te 66.2 14 0.00031 28.1 4.7 49 49-107 52-100 (121)
421 PRK11753 DNA-binding transcrip 66.0 8.5 0.00018 31.5 3.9 32 50-88 168-199 (211)
422 PF03965 Penicillinase_R: Peni 65.6 14 0.0003 27.6 4.6 51 34-90 4-54 (115)
423 PF12692 Methyltransf_17: S-ad 65.6 35 0.00077 27.0 6.8 57 166-225 4-60 (160)
424 PF08280 HTH_Mga: M protein tr 64.7 11 0.00025 24.5 3.5 39 34-82 6-44 (59)
425 TIGR02404 trehalos_R_Bsub treh 64.6 11 0.00023 31.8 4.3 41 52-101 26-66 (233)
426 PRK13918 CRP/FNR family transc 64.1 9.5 0.00021 31.1 3.8 41 50-101 149-189 (202)
427 PLN02232 ubiquinone biosynthes 64.1 6.4 0.00014 31.2 2.7 32 236-267 26-60 (160)
428 COG3398 Uncharacterized protei 64.1 21 0.00045 30.2 5.6 47 33-89 101-147 (240)
429 TIGR02325 C_P_lyase_phnF phosp 64.1 11 0.00024 31.7 4.3 42 52-102 34-75 (238)
430 TIGR00824 EIIA-man PTS system, 63.6 22 0.00048 26.6 5.4 50 184-233 51-102 (116)
431 TIGR03433 padR_acidobact trans 63.5 21 0.00046 25.9 5.2 61 38-109 9-82 (100)
432 PF02636 Methyltransf_28: Puta 63.5 9.3 0.0002 32.8 3.7 34 193-226 18-59 (252)
433 PF08222 HTH_CodY: CodY helix- 63.3 11 0.00023 24.7 3.0 34 49-89 3-36 (61)
434 COG1088 RfbB dTDP-D-glucose 4, 63.0 16 0.00034 32.6 4.9 48 200-247 5-62 (340)
435 PRK09333 30S ribosomal protein 63.0 19 0.00042 28.4 5.0 56 49-109 66-129 (150)
436 smart00342 HTH_ARAC helix_turn 62.8 43 0.00092 22.3 6.7 36 37-83 41-77 (84)
437 TIGR02698 CopY_TcrY copper tra 62.5 20 0.00042 27.6 5.0 46 34-89 5-54 (130)
438 KOG1562 Spermidine synthase [A 62.5 4.4 9.4E-05 35.8 1.5 66 191-257 119-201 (337)
439 PF10668 Phage_terminase: Phag 62.5 14 0.00031 24.4 3.6 15 49-63 21-35 (60)
440 COG4901 Ribosomal protein S25 62.3 11 0.00024 27.6 3.3 46 37-89 45-91 (107)
441 PF13936 HTH_38: Helix-turn-he 61.9 15 0.00033 22.3 3.5 23 50-79 20-42 (44)
442 cd00006 PTS_IIA_man PTS_IIA, P 61.8 20 0.00044 26.9 5.0 49 185-233 51-101 (122)
443 COG3682 Predicted transcriptio 61.7 19 0.0004 27.5 4.6 63 33-103 6-68 (123)
444 TIGR02018 his_ut_repres histid 61.5 13 0.00028 31.3 4.2 43 50-101 24-67 (230)
445 COG1777 Predicted transcriptio 61.2 14 0.0003 30.9 4.1 50 29-89 11-60 (217)
446 PF00356 LacI: Bacterial regul 61.0 7.6 0.00017 24.1 2.0 35 52-87 1-44 (46)
447 TIGR00635 ruvB Holliday juncti 60.8 10 0.00022 33.2 3.7 46 49-105 254-300 (305)
448 TIGR02844 spore_III_D sporulat 60.7 15 0.00032 25.9 3.6 31 37-78 10-40 (80)
449 PF03514 GRAS: GRAS domain fam 60.5 10 0.00022 34.7 3.6 46 181-227 99-151 (374)
450 PF03551 PadR: Transcriptional 60.3 13 0.00027 25.4 3.3 62 39-106 2-71 (75)
451 PF11972 HTH_13: HTH DNA bindi 60.2 26 0.00055 22.7 4.3 47 38-100 4-50 (54)
452 COG2188 PhnF Transcriptional r 60.2 16 0.00035 31.1 4.6 43 51-102 32-74 (236)
453 COG1339 Transcriptional regula 59.9 13 0.00027 30.8 3.6 55 50-111 19-73 (214)
454 COG1802 GntR Transcriptional r 59.7 13 0.00029 31.2 4.0 35 49-90 38-72 (230)
455 COG3398 Uncharacterized protei 59.5 25 0.00054 29.7 5.3 66 28-103 169-234 (240)
456 PRK13750 replication protein; 59.3 31 0.00068 29.6 5.9 54 29-90 76-133 (285)
457 PRK09764 DNA-binding transcrip 59.2 15 0.00034 31.1 4.3 43 49-100 27-70 (240)
458 COG1654 BirA Biotin operon rep 59.0 26 0.00056 24.5 4.6 46 49-103 18-63 (79)
459 PRK11402 DNA-binding transcrip 58.7 16 0.00034 31.0 4.3 43 50-101 33-75 (241)
460 PHA02591 hypothetical protein; 58.2 21 0.00046 24.8 3.9 31 38-79 51-81 (83)
461 COG3695 Predicted methylated D 57.9 17 0.00036 26.7 3.6 49 34-87 7-55 (103)
462 KOG2165 Anaphase-promoting com 57.9 16 0.00036 35.9 4.6 53 49-108 615-668 (765)
463 PF13814 Replic_Relax: Replica 57.4 29 0.00063 28.0 5.6 62 41-109 3-71 (191)
464 cd06445 ATase The DNA repair p 57.1 21 0.00045 24.8 3.9 42 37-86 4-45 (79)
465 PF07848 PaaX: PaaX-like prote 56.6 21 0.00045 24.3 3.7 48 49-103 19-69 (70)
466 COG1189 Predicted rRNA methyla 56.5 27 0.00058 29.9 5.2 59 183-242 69-129 (245)
467 PRK00135 scpB segregation and 56.4 23 0.0005 29.2 4.7 40 36-88 93-132 (188)
468 KOG1663 O-methyltransferase [S 56.0 29 0.00062 29.6 5.2 56 193-248 73-137 (237)
469 COG2524 Predicted transcriptio 55.9 26 0.00056 30.4 4.9 52 49-108 24-75 (294)
470 TIGR03474 incFII_RepA incFII f 55.6 36 0.00078 29.0 5.7 52 31-90 70-125 (275)
471 TIGR00589 ogt O-6-methylguanin 55.6 23 0.0005 24.8 3.9 45 34-86 3-47 (80)
472 TIGR00027 mthyl_TIGR00027 meth 55.2 23 0.00049 30.7 4.7 53 193-247 81-143 (260)
473 PF09107 SelB-wing_3: Elongati 55.2 38 0.00082 21.4 4.5 39 40-88 3-41 (50)
474 COG4754 Uncharacterized conser 55.2 30 0.00065 27.2 4.8 65 35-111 14-78 (157)
475 PRK10402 DNA-binding transcrip 55.1 18 0.0004 30.2 4.1 41 50-101 169-209 (226)
476 TIGR00637 ModE_repress ModE mo 55.0 38 0.00083 24.6 5.2 62 35-108 6-71 (99)
477 PRK10079 phosphonate metabolis 54.8 20 0.00043 30.4 4.3 42 51-101 36-77 (241)
478 COG2390 DeoR Transcriptional r 54.8 17 0.00037 32.6 4.0 34 49-89 25-58 (321)
479 PF14314 Methyltrans_Mon: Viru 53.7 28 0.00062 34.4 5.5 46 173-220 304-349 (675)
480 PF06406 StbA: StbA protein; 53.5 36 0.00079 30.3 5.9 63 167-229 246-310 (318)
481 PF01371 Trp_repressor: Trp re 53.3 23 0.0005 25.3 3.7 40 32-83 35-75 (87)
482 PF05971 Methyltransf_10: Prot 53.2 8.6 0.00019 34.1 1.8 56 193-249 102-171 (299)
483 KOG2918 Carboxymethyl transfer 53.1 30 0.00065 30.9 5.0 41 191-231 85-127 (335)
484 COG4465 CodY Pleiotropic trans 52.6 52 0.0011 27.8 6.1 44 37-89 193-236 (261)
485 KOG2793 Putative N2,N2-dimethy 52.3 18 0.00039 31.2 3.6 42 191-233 83-125 (248)
486 TIGR01714 phage_rep_org_N phag 52.3 36 0.00079 25.8 4.8 46 49-104 50-95 (119)
487 PF01418 HTH_6: Helix-turn-hel 52.3 18 0.0004 24.8 3.0 31 49-86 33-63 (77)
488 smart00421 HTH_LUXR helix_turn 52.0 30 0.00065 21.2 3.9 24 50-80 18-41 (58)
489 smart00342 HTH_ARAC helix_turn 51.9 22 0.00047 23.8 3.4 30 50-86 1-30 (84)
490 PF02387 IncFII_repA: IncFII R 51.8 20 0.00043 31.5 3.8 38 50-89 95-137 (281)
491 PF13443 HTH_26: Cro/C1-type H 51.7 14 0.00029 24.0 2.2 31 38-79 2-32 (63)
492 PF03374 ANT: Phage antirepres 51.6 34 0.00075 25.1 4.7 42 36-89 12-53 (111)
493 PRK00082 hrcA heat-inducible t 51.5 34 0.00075 30.9 5.4 48 49-105 24-73 (339)
494 KOG2651 rRNA adenine N-6-methy 51.5 17 0.00038 33.3 3.4 38 191-229 151-188 (476)
495 PF11312 DUF3115: Protein of u 51.1 23 0.0005 31.6 4.1 38 194-231 87-147 (315)
496 TIGR03826 YvyF flagellar opero 50.7 27 0.00059 27.2 4.0 35 37-79 34-68 (137)
497 PF14502 HTH_41: Helix-turn-he 50.6 38 0.00082 21.3 3.8 34 49-89 5-38 (48)
498 COG1386 scpB Chromosome segreg 50.5 32 0.00069 28.2 4.6 56 36-104 95-154 (184)
499 PRK03601 transcriptional regul 50.2 35 0.00075 29.3 5.1 60 35-110 5-67 (275)
500 PF13578 Methyltransf_24: Meth 49.9 8.5 0.00018 27.9 1.1 60 198-257 1-75 (106)
No 1
>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]
Probab=100.00 E-value=8.2e-40 Score=285.21 Aligned_cols=252 Identities=47% Similarity=0.822 Sum_probs=224.6
Q ss_pred HHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 9 EEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 9 ~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
++..+..+++++++++..++++.+|+||||||+|.+++ + +.|||..+.. |.+|..+. .+.|+||.|+++++++
T Consensus 2 ~e~~~~l~~~~l~~~~~~~~~lk~A~eL~v~d~l~~~~---~--p~~ia~~l~~-~~~~~~p~-ll~r~lr~L~s~~i~k 74 (342)
T KOG3178|consen 2 EENEASLRAMRLANGFALPMVLKAACELGVFDILANAG---S--PSEIASLLPT-PKNPEAPV-LLDRILRLLVSYSILK 74 (342)
T ss_pred chhHHHHHHHHHHhhhhhHHHHHHHHHcChHHHHHhCC---C--HHHHHHhccC-CCCCCChh-HHHHHHHHHHHhhhce
Confidence 56778899999999999999999999999999999964 2 8888888775 32333356 9999999999999999
Q ss_pred ceeecCCCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHH
Q 024350 89 CSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDV 168 (269)
Q Consensus 89 ~~~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~ 168 (269)
+...... .|+++|+++++..++ +..++..++...++...++.|..+.++++.+..+|..++|+..|+|...++.....
T Consensus 75 ~~~~~~~-~Y~~~~~~~~~l~~~-~~~S~a~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~G~~l~~~~~~~~~~~~~ 152 (342)
T KOG3178|consen 75 CRLVGGE-VYSATPVCKYFLKDS-GGGSLAPLVLLNTSKVIMNTWQFLKDAILEGGDAFATAHGMMLGGYGGADERFSKD 152 (342)
T ss_pred eeeecce-eeeccchhhhheecC-CCCchhHHHHHhcccchhhhHHHHHHHHHhcccCCccccchhhhhhcccccccHHH
Confidence 7533223 899999999887665 24588888887777888999999999999999999999998899999998888899
Q ss_pred HHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC-CCceEEecccCC
Q 024350 169 FSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-PGIDHVGGDLFE 247 (269)
Q Consensus 169 f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~-~ri~~~~gD~~~ 247 (269)
|+++|...+....+.+++.|.+|++..+.||||||.|..+..++..||+++++.+|+|.+++.++.. +.|+.+.||+|+
T Consensus 153 ~~~sm~~l~~~~~~~il~~~~Gf~~v~~avDvGgGiG~v~k~ll~~fp~ik~infdlp~v~~~a~~~~~gV~~v~gdmfq 232 (342)
T KOG3178|consen 153 FNGSMSFLSTLVMKKILEVYTGFKGVNVAVDVGGGIGRVLKNLLSKYPHIKGINFDLPFVLAAAPYLAPGVEHVAGDMFQ 232 (342)
T ss_pred HHHHHHHHHHHHHHhhhhhhcccccCceEEEcCCcHhHHHHHHHHhCCCCceeecCHHHHHhhhhhhcCCcceecccccc
Confidence 9999999999888888898888889999999999999999999999999999999999999999988 999999999999
Q ss_pred cCCCCcEEEeccccccCCCCCC
Q 024350 248 SVPKADTIFMKVICVCYLNSLS 269 (269)
Q Consensus 248 ~~P~gD~~~l~~iLhd~~d~~~ 269 (269)
+.|++|+||+++|||||+|++|
T Consensus 233 ~~P~~daI~mkWiLhdwtDedc 254 (342)
T KOG3178|consen 233 DTPKGDAIWMKWILHDWTDEDC 254 (342)
T ss_pred cCCCcCeEEEEeecccCChHHH
Confidence 9999999999999999999987
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=3.1e-37 Score=265.06 Aligned_cols=174 Identities=27% Similarity=0.529 Sum_probs=153.2
Q ss_pred CCCeEecChhchhhhcCCCCCCChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHHHH
Q 024350 94 GQRLYSLAPVSKYFVRNNQNGASLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGM 173 (269)
Q Consensus 94 ~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~~m 173 (269)
+++.|+||++|+.|+.++ ++.++..++.+...+..+.+|.+|++++++|+++|...+|.++|++++++|+..+.|+.+|
T Consensus 2 ~~~~y~~t~~s~~ll~~~-~~~~~~~~~~~~~~~~~~~~~~~L~~~v~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m 80 (241)
T PF00891_consen 2 EGDRYSLTPLSELLLSDH-SSPSMRGFVLFMISPELYPAWFRLTEAVRTGKPPFEKAFGTPFFEYLEEDPELAKRFNAAM 80 (241)
T ss_dssp STEEEEE-HHHHGGSTTT-TTTHHHHHHHHHTCHHHHHGGGGHHHHHHHSS-HHHHHHSS-HHHHHHCSHHHHHHHHHHH
T ss_pred CCCEEeChHHHHHHhCCC-CcCcHHHHHHHhcCHHHHHHHHHHHhhhccCCCHHHHhcCCcHHHhhhhChHHHHHHHHHH
Confidence 368999999999888777 2356777777756788899999999999999999999999889999999999999999999
Q ss_pred HhhchhhH-HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCcCCCC
Q 024350 174 LSHTSIVM-EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVPKA 252 (269)
Q Consensus 174 ~~~~~~~~-~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~~P~g 252 (269)
+..+.... +.+...++ |++.++|||||||+|.++.+++++||++++|++|+|+|++.+++.+||++++||||+++|.+
T Consensus 81 ~~~~~~~~~~~~~~~~d-~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~v~~~~~~~~rv~~~~gd~f~~~P~~ 159 (241)
T PF00891_consen 81 AEYSRLNAFDILLEAFD-FSGFKTVVDVGGGSGHFAIALARAYPNLRATVFDLPEVIEQAKEADRVEFVPGDFFDPLPVA 159 (241)
T ss_dssp HHHHHHHHHHHHHHHST-TTTSSEEEEET-TTSHHHHHHHHHSTTSEEEEEE-HHHHCCHHHTTTEEEEES-TTTCCSSE
T ss_pred Hhhhhcchhhhhhcccc-ccCccEEEeccCcchHHHHHHHHHCCCCcceeeccHhhhhccccccccccccccHHhhhccc
Confidence 99998877 77888888 99999999999999999999999999999999999999998888999999999999999999
Q ss_pred cEEEeccccccCCCCCC
Q 024350 253 DTIFMKVICVCYLNSLS 269 (269)
Q Consensus 253 D~~~l~~iLhd~~d~~~ 269 (269)
|+|+|++|||+|+|++|
T Consensus 160 D~~~l~~vLh~~~d~~~ 176 (241)
T PF00891_consen 160 DVYLLRHVLHDWSDEDC 176 (241)
T ss_dssp SEEEEESSGGGS-HHHH
T ss_pred cceeeehhhhhcchHHH
Confidence 99999999999999875
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=9.4e-34 Score=251.59 Aligned_cols=219 Identities=19% Similarity=0.319 Sum_probs=167.3
Q ss_pred HHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350 25 VLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS 104 (269)
Q Consensus 25 ~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s 104 (269)
..+++|++|++|||||.|.+ +|.|++|||+++|++ ++ .+.|+||+|+++|+|+ +. +++|++|+.+
T Consensus 2 ~~~~~l~aa~~Lglfd~L~~----gp~t~~eLA~~~~~~------~~-~~~~lL~~L~~lgll~---~~-~~~y~~t~~~ 66 (306)
T TIGR02716 2 IEFSCMKAAIELDLFSHMAE----GPKDLATLAADTGSV------PP-RLEMLLETLRQMRVIN---LE-DGKWSLTEFA 66 (306)
T ss_pred chHHHHHHHHHcCcHHHHhc----CCCCHHHHHHHcCCC------hH-HHHHHHHHHHhCCCeE---ec-CCcEecchhH
Confidence 35789999999999999987 699999999999997 67 9999999999999999 43 5899999999
Q ss_pred hhhhcCCCCCC---ChHHHHHhhcChhhHhhhhhhHHHHhhCCchhhhhhCCCchhccccCcchHHHHHHHHHhhc-hhh
Q 024350 105 KYFVRNNQNGA---SLRPYMALSLDKVLMDGWFRLKGQILEGGIAFNKAHGMHIYDYLGVDSSFNDVFSNGMLSHT-SIV 180 (269)
Q Consensus 105 ~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~p~~~~~f~~~m~~~~-~~~ 180 (269)
+.++.+. ++. ++.++..+. .......|.+|+++++ ++++|...+ .+....++. ..|...|.... ...
T Consensus 67 ~~~l~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~~r-~~~~~~~~~-----~~~~~~~~~-~~~~~~~~~~~~~~~ 137 (306)
T TIGR02716 67 DYMFSPT-PKEPNLHQTPVAKAM-AFLADDFYMGLSQAVR-GQKNFKGQV-----PYPPVTRED-NLYFEEIHRSNAKFA 137 (306)
T ss_pred HhhccCC-ccchhhhcCchHHHH-HHHHHHHHHhHHHHhc-CCccccccc-----CCCCCCHHH-HHhHHHHHHhcchhH
Confidence 8666554 121 112333332 1123357899999997 444443222 222222222 34555555433 334
Q ss_pred HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCCC
Q 024350 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPKA 252 (269)
Q Consensus 181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~g 252 (269)
.+.+++.++ +++..+|||||||+|.+++.+++++|+++++++|+|++++.+++ .+||+++++|+|+ ++|.+
T Consensus 138 ~~~l~~~~~-~~~~~~vlDiG~G~G~~~~~~~~~~p~~~~~~~D~~~~~~~a~~~~~~~gl~~rv~~~~~d~~~~~~~~~ 216 (306)
T TIGR02716 138 IQLLLEEAK-LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAAEKGVADRMRGIAVDIYKESYPEA 216 (306)
T ss_pred HHHHHHHcC-CCCCCEEEEeCCchhHHHHHHHHHCCCCEEEEEecHHHHHHHHHHHHhCCccceEEEEecCccCCCCCCC
Confidence 455777777 88889999999999999999999999999999999999987754 2789999999997 67767
Q ss_pred cEEEeccccccCCCCC
Q 024350 253 DTIFMKVICVCYLNSL 268 (269)
Q Consensus 253 D~~~l~~iLhd~~d~~ 268 (269)
|+|+++++||+|++++
T Consensus 217 D~v~~~~~lh~~~~~~ 232 (306)
T TIGR02716 217 DAVLFCRILYSANEQL 232 (306)
T ss_pred CEEEeEhhhhcCChHH
Confidence 9999999999999864
No 4
>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=99.00 E-value=1.2e-09 Score=70.19 Aligned_cols=51 Identities=53% Similarity=0.843 Sum_probs=42.4
Q ss_pred HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHH
Q 024350 28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV 82 (269)
Q Consensus 28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~ 82 (269)
.+|++|++|||||+|.+.| ++++|+.||+.++... ||.++. .+.|+||+|+
T Consensus 1 MaLk~aveLgI~dii~~~g-~~~ls~~eia~~l~~~--~p~~~~-~L~RimR~L~ 51 (51)
T PF08100_consen 1 MALKCAVELGIPDIIHNAG-GGPLSLSEIAARLPTS--NPSAPP-MLDRIMRLLV 51 (51)
T ss_dssp HHHHHHHHTTHHHHHHHHT-TS-BEHHHHHHTSTCT---TTHHH-HHHHHHHHHH
T ss_pred CcHHHHHHcCcHHHHHHcC-CCCCCHHHHHHHcCCC--CcchHH-HHHHHHHHhC
Confidence 4799999999999999986 4799999999999932 455567 9999999985
No 5
>PRK06922 hypothetical protein; Provisional
Probab=98.92 E-value=3.1e-09 Score=101.28 Aligned_cols=112 Identities=22% Similarity=0.297 Sum_probs=84.9
Q ss_pred CCchhccccCcchHHHHHHHHHhhchhh--HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHH
Q 024350 153 MHIYDYLGVDSSFNDVFSNGMLSHTSIV--MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVI 229 (269)
Q Consensus 153 ~~~~~~~~~~p~~~~~f~~~m~~~~~~~--~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv 229 (269)
..+|+++..+++..++|...|....... .......++ +.+..+|||||||+|.++..+++.+|+.+++++|+ +.++
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 4678898888888888887776643321 112223445 55678999999999999999999999999999998 4557
Q ss_pred HhCCCC-----CCceEEecccCC-c--CCC-C-cEEEeccccccCC
Q 024350 230 KNAPSY-----PGIDHVGGDLFE-S--VPK-A-DTIFMKVICVCYL 265 (269)
Q Consensus 230 ~~a~~~-----~ri~~~~gD~~~-~--~P~-g-D~~~l~~iLhd~~ 265 (269)
+.+++. .+++++.+|..+ + ++. . |+++++.++|+|.
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 666542 468888899876 3 443 3 9999999999873
No 6
>PF12847 Methyltransf_18: Methyltransferase domain; PDB: 3G2Q_A 3G2O_A 3G2M_B 3G2P_B 3D2L_B 1IM8_B 3NJR_A 3E05_H 3EVZ_A 3HM2_A ....
Probab=98.86 E-value=4.5e-09 Score=78.92 Aligned_cols=71 Identities=18% Similarity=0.270 Sum_probs=59.2
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEeccc-CC-cCCCC-cEEEecc-cc
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDL-FE-SVPKA-DTIFMKV-IC 261 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~-~~-~~P~g-D~~~l~~-iL 261 (269)
..+|+|||||+|.++..+++.+|+.+++.+|. |.+++.+++ .+||+++.+|+ +. +.+.. |++++.. .+
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 36899999999999999999999999999997 888876654 38999999999 44 34444 9999999 56
Q ss_pred ccC
Q 024350 262 VCY 264 (269)
Q Consensus 262 hd~ 264 (269)
|.+
T Consensus 82 ~~~ 84 (112)
T PF12847_consen 82 HFL 84 (112)
T ss_dssp GGC
T ss_pred ccc
Confidence 654
No 7
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=98.83 E-value=1.4e-08 Score=87.99 Aligned_cols=83 Identities=20% Similarity=0.278 Sum_probs=69.4
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCCcCCC-C-cEEEec
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFESVPK-A-DTIFMK 258 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~~~P~-g-D~~~l~ 258 (269)
..+++.++ .....+|||||||+|.++..+++++|+.+++++|+ |.+++.+++ .+++++.+|+.+..|. . |++++.
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 55678999999999999999999999999999998 888887764 4699999998663343 3 999999
Q ss_pred cccccCCC
Q 024350 259 VICVCYLN 266 (269)
Q Consensus 259 ~iLhd~~d 266 (269)
.+||..+|
T Consensus 97 ~~l~~~~d 104 (255)
T PRK14103 97 AALQWVPE 104 (255)
T ss_pred hhhhhCCC
Confidence 99998876
No 8
>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase. Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme
Probab=98.80 E-value=1.2e-08 Score=85.38 Aligned_cols=76 Identities=17% Similarity=0.391 Sum_probs=65.8
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-CCCceEEecccCCcCCC-C-cEEEeccccccCCCC
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-YPGIDHVGGDLFESVPK-A-DTIFMKVICVCYLNS 267 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-~~ri~~~~gD~~~~~P~-g-D~~~l~~iLhd~~d~ 267 (269)
+...+|+|||||+|..+..+.+..|+.+.+++|+ |..++.+++ .+++++..+|++++.+. . |+++...+||.++++
T Consensus 42 ~~~~~VLDiGCG~G~~~~~L~~~~~~~~v~giDiS~~~l~~A~~~~~~~~~~~~d~~~~~~~~sfD~V~~~~vL~hl~p~ 121 (204)
T TIGR03587 42 PKIASILELGANIGMNLAALKRLLPFKHIYGVEINEYAVEKAKAYLPNINIIQGSLFDPFKDNFFDLVLTKGVLIHINPD 121 (204)
T ss_pred CCCCcEEEEecCCCHHHHHHHHhCCCCeEEEEECCHHHHHHHHhhCCCCcEEEeeccCCCCCCCEEEEEECChhhhCCHH
Confidence 4567899999999999999999999999999997 789988876 47899999999987664 4 999999999888653
No 9
>COG4106 Tam Trans-aconitate methyltransferase [General function prediction only]
Probab=98.75 E-value=1.9e-08 Score=83.03 Aligned_cols=85 Identities=19% Similarity=0.332 Sum_probs=74.4
Q ss_pred HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCCcCCC--CcEEE
Q 024350 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFESVPK--ADTIF 256 (269)
Q Consensus 181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~~~P~--gD~~~ 256 (269)
+..++..++ ......|+|+|||.|....-|.+++|+...+++|. |.+++.|+.. +.++|..+|+-+-.|+ .|++|
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 457778888 77889999999999999999999999999999995 8999887654 9999999999986674 49999
Q ss_pred eccccccCCC
Q 024350 257 MKVICVCYLN 266 (269)
Q Consensus 257 l~~iLhd~~d 266 (269)
-+.+||-.||
T Consensus 98 aNAvlqWlpd 107 (257)
T COG4106 98 ANAVLQWLPD 107 (257)
T ss_pred hhhhhhhccc
Confidence 9999987665
No 10
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=98.69 E-value=1.1e-07 Score=82.42 Aligned_cols=86 Identities=22% Similarity=0.361 Sum_probs=71.1
Q ss_pred HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCCcCC-CC-cEEE
Q 024350 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFESVP-KA-DTIF 256 (269)
Q Consensus 181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~~~P-~g-D~~~ 256 (269)
...++..++ ..+..+|+|||||+|.++..+++++|+.+++++|+ |..++.+++. ++++++.+|+.+..| .. |+++
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 66778999999999999999999999999999998 7888877664 789999999976434 34 9999
Q ss_pred eccccccCCCC
Q 024350 257 MKVICVCYLNS 267 (269)
Q Consensus 257 l~~iLhd~~d~ 267 (269)
....||..+|.
T Consensus 99 ~~~~l~~~~d~ 109 (258)
T PRK01683 99 ANASLQWLPDH 109 (258)
T ss_pred EccChhhCCCH
Confidence 99999976653
No 11
>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=98.69 E-value=3.1e-08 Score=78.85 Aligned_cols=75 Identities=24% Similarity=0.348 Sum_probs=62.6
Q ss_pred CccEEEEeCCCchHHHHHHH-HHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-c--CCCC-cEEEeccc
Q 024350 193 HVKKLVDVGGGLGATLNMII-SKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-S--VPKA-DTIFMKVI 260 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~-~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~--~P~g-D~~~l~~i 260 (269)
+..+|+|||||+|.++..++ +.+|+.+.+++|+ |.+++.+++ .+++++..+|+++ + ++.. |+++...+
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 45799999999999999999 5689999999997 888887765 2789999999999 4 3334 99999999
Q ss_pred cccCCCC
Q 024350 261 CVCYLNS 267 (269)
Q Consensus 261 Lhd~~d~ 267 (269)
+|..++.
T Consensus 83 l~~~~~~ 89 (152)
T PF13847_consen 83 LHHFPDP 89 (152)
T ss_dssp GGGTSHH
T ss_pred hhhccCH
Confidence 9887753
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=98.65 E-value=3e-08 Score=84.98 Aligned_cols=75 Identities=13% Similarity=0.145 Sum_probs=63.5
Q ss_pred CccEEEEeCCCchHHHHHHHHH--CCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCCCcEEEecccc
Q 024350 193 HVKKLVDVGGGLGATLNMIISK--YPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKADTIFMKVIC 261 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~--~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~gD~~~l~~iL 261 (269)
...+|||||||+|.++..++++ +|+.+++++|+ |.+++.+++. .+++++.+|+.+ +.++.|++++..+|
T Consensus 53 ~~~~iLDlGcG~G~~~~~l~~~~~~p~~~v~gvD~s~~ml~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~d~v~~~~~l 132 (239)
T TIGR00740 53 PDSNVYDLGCSRGAATLSARRNINQPNVKIIGIDNSQPMVERCRQHIAAYHSEIPVEILCNDIRHVEIKNASMVILNFTL 132 (239)
T ss_pred CCCEEEEecCCCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECChhhCCCCCCCEEeeecch
Confidence 4568999999999999999997 48999999998 8888877542 479999999987 55556999999999
Q ss_pred ccCCCC
Q 024350 262 VCYLNS 267 (269)
Q Consensus 262 hd~~d~ 267 (269)
|.++++
T Consensus 133 ~~~~~~ 138 (239)
T TIGR00740 133 QFLPPE 138 (239)
T ss_pred hhCCHH
Confidence 998754
No 13
>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=98.62 E-value=1.3e-07 Score=80.46 Aligned_cols=83 Identities=12% Similarity=0.105 Sum_probs=66.4
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-cCCC-C-
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-SVPK-A- 252 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~~P~-g- 252 (269)
++..++ .....+|||||||+|.++..+++.+ |+.+++++|+ |..++.+++ .++++++.+|..+ ++|. .
T Consensus 37 ~l~~l~-~~~~~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~f 115 (231)
T TIGR02752 37 TMKRMN-VQAGTSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHGNAMELPFDDNSF 115 (231)
T ss_pred HHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHhcCCCceEEEEechhcCCCCCCCc
Confidence 444555 5556899999999999999999986 7789999998 777766543 2689999999987 5664 3
Q ss_pred cEEEeccccccCCCC
Q 024350 253 DTIFMKVICVCYLNS 267 (269)
Q Consensus 253 D~~~l~~iLhd~~d~ 267 (269)
|++++...+|.+++.
T Consensus 116 D~V~~~~~l~~~~~~ 130 (231)
T TIGR02752 116 DYVTIGFGLRNVPDY 130 (231)
T ss_pred cEEEEecccccCCCH
Confidence 999999999987653
No 14
>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=98.61 E-value=1.1e-08 Score=75.25 Aligned_cols=69 Identities=19% Similarity=0.310 Sum_probs=46.3
Q ss_pred EEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---------CCceEEecccCCcCC-CC-cEEEeccccccCC
Q 024350 198 VDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---------PGIDHVGGDLFESVP-KA-DTIFMKVICVCYL 265 (269)
Q Consensus 198 vDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---------~ri~~~~gD~~~~~P-~g-D~~~l~~iLhd~~ 265 (269)
||||||+|.++..+++++|..+.+++|. |++++.+++. .++++...|.++..+ +. |++++.++||.++
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 7999999999999999999999999997 8888777764 245555566665444 34 9999999999985
Q ss_pred C
Q 024350 266 N 266 (269)
Q Consensus 266 d 266 (269)
|
T Consensus 81 ~ 81 (99)
T PF08242_consen 81 D 81 (99)
T ss_dssp -
T ss_pred h
Confidence 4
No 15
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=98.59 E-value=9.5e-08 Score=78.78 Aligned_cols=76 Identities=20% Similarity=0.290 Sum_probs=61.1
Q ss_pred HhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCCC-cEEEe
Q 024350 186 ESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPKA-DTIFM 257 (269)
Q Consensus 186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~g-D~~~l 257 (269)
..++ .....+|||||||+|.++..+++++|+.+++.+|. |..++.++++ ++|+++.+|...+.+.. |++++
T Consensus 25 ~~l~-~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~D~v~~ 103 (187)
T PRK08287 25 SKLE-LHRAKHLIDVGAGTGSVSIEAALQFPSLQVTAIERNPDALRLIKENRQRFGCGNIDIIPGEAPIELPGKADAIFI 103 (187)
T ss_pred HhcC-CCCCCEEEEECCcCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCeEEEecCchhhcCcCCCEEEE
Confidence 4455 55668999999999999999999999999999998 7777776542 57999999986555544 99998
Q ss_pred ccccc
Q 024350 258 KVICV 262 (269)
Q Consensus 258 ~~iLh 262 (269)
....+
T Consensus 104 ~~~~~ 108 (187)
T PRK08287 104 GGSGG 108 (187)
T ss_pred CCCcc
Confidence 76544
No 16
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=98.59 E-value=4.8e-08 Score=84.23 Aligned_cols=75 Identities=19% Similarity=0.210 Sum_probs=63.2
Q ss_pred CccEEEEeCCCchHHHHHHHH--HCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCCCcEEEecccc
Q 024350 193 HVKKLVDVGGGLGATLNMIIS--KYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKADTIFMKVIC 261 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~--~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~gD~~~l~~iL 261 (269)
...+|+|||||+|..+..+++ .+|+.+++++|. |.+++.+++. .+|+++.+|+.+ +.+..|++++..+|
T Consensus 56 ~~~~vLDlGcGtG~~~~~l~~~~~~~~~~v~gvD~S~~ml~~A~~~~~~~~~~~~v~~~~~d~~~~~~~~~D~vv~~~~l 135 (247)
T PRK15451 56 PGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIRDIAIENASMVVLNFTL 135 (247)
T ss_pred CCCEEEEEcccCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEeCChhhCCCCCCCEEehhhHH
Confidence 457899999999999999988 469999999997 8999887642 489999999987 45556999999999
Q ss_pred ccCCCC
Q 024350 262 VCYLNS 267 (269)
Q Consensus 262 hd~~d~ 267 (269)
|..+++
T Consensus 136 ~~l~~~ 141 (247)
T PRK15451 136 QFLEPS 141 (247)
T ss_pred HhCCHH
Confidence 988753
No 17
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=98.58 E-value=1.8e-07 Score=79.64 Aligned_cols=75 Identities=16% Similarity=0.184 Sum_probs=66.5
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-C-cEEEeccccc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-A-DTIFMKVICV 262 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-g-D~~~l~~iLh 262 (269)
...+|||||||+|.++..+++..++.+++++|. +.+++.+++. ..|+++.+|..+ |+|. . |+|.++.-||
T Consensus 51 ~g~~vLDva~GTGd~a~~~~k~~g~g~v~~~D~s~~ML~~a~~k~~~~~~~~i~fv~~dAe~LPf~D~sFD~vt~~fglr 130 (238)
T COG2226 51 PGDKVLDVACGTGDMALLLAKSVGTGEVVGLDISESMLEVAREKLKKKGVQNVEFVVGDAENLPFPDNSFDAVTISFGLR 130 (238)
T ss_pred CCCEEEEecCCccHHHHHHHHhcCCceEEEEECCHHHHHHHHHHhhccCccceEEEEechhhCCCCCCccCEEEeeehhh
Confidence 458999999999999999999999999999997 7888888753 239999999998 8885 4 9999999999
Q ss_pred cCCCC
Q 024350 263 CYLNS 267 (269)
Q Consensus 263 d~~d~ 267 (269)
+.+|-
T Consensus 131 nv~d~ 135 (238)
T COG2226 131 NVTDI 135 (238)
T ss_pred cCCCH
Confidence 99874
No 18
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=98.54 E-value=1e-06 Score=76.74 Aligned_cols=76 Identities=16% Similarity=0.286 Sum_probs=60.4
Q ss_pred CCccEEEEeCCCchH----HHHHHHHHCC-----CCeEEEeeh-hHHHHhCCCC--------------------------
Q 024350 192 EHVKKLVDVGGGLGA----TLNMIISKYP-----HIKGINYDL-LYVIKNAPSY-------------------------- 235 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~----~~~~l~~~~P-----~l~~vv~Dl-p~vv~~a~~~-------------------------- 235 (269)
.+..+|+|+|||+|. +++.+.+.+| +.+.+..|+ |.+++.|++.
T Consensus 98 ~~~~ri~d~GCgtGee~YslA~~l~e~~~~~~~~~~~I~g~Dis~~~L~~Ar~~~y~~~~~~~~~~~~~~~yf~~~~~~~ 177 (264)
T smart00138 98 GRRVRIWSAGCSTGEEPYSLAMLLAETLPKAREPDVKILATDIDLKALEKARAGIYPERELEDLPKALLARYFSRVEDKY 177 (264)
T ss_pred CCCEEEEeccccCChHHHHHHHHHHHHhhhcCCCCeEEEEEECCHHHHHHHHcCCCCHHHHhcCCHHHHhhhEEeCCCeE
Confidence 345799999999996 5677777765 578899997 7788776641
Q ss_pred -------CCceEEecccCCc-CCC-C-cEEEeccccccCCCC
Q 024350 236 -------PGIDHVGGDLFES-VPK-A-DTIFMKVICVCYLNS 267 (269)
Q Consensus 236 -------~ri~~~~gD~~~~-~P~-g-D~~~l~~iLhd~~d~ 267 (269)
.+|+|..+|+.++ .|. . |+|+++++||.++++
T Consensus 178 ~v~~~ir~~V~F~~~dl~~~~~~~~~fD~I~crnvl~yf~~~ 219 (264)
T smart00138 178 RVKPELKERVRFAKHNLLAESPPLGDFDLIFCRNVLIYFDEP 219 (264)
T ss_pred EEChHHhCcCEEeeccCCCCCCccCCCCEEEechhHHhCCHH
Confidence 3799999999994 444 3 999999999999764
No 19
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=98.51 E-value=6.1e-07 Score=77.99 Aligned_cols=77 Identities=19% Similarity=0.201 Sum_probs=63.9
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC---------CCCceEEecccCC-cCCC-C-cEEE
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS---------YPGIDHVGGDLFE-SVPK-A-DTIF 256 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~---------~~ri~~~~gD~~~-~~P~-g-D~~~ 256 (269)
.....+|+|||||+|.++..+++.+ |+.+++.+|+ |.+++.+++ .++|+++.+|+.+ |+|. . |+++
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 4456799999999999999999875 6789999997 788876643 2589999999987 7775 3 9999
Q ss_pred eccccccCCCC
Q 024350 257 MKVICVCYLNS 267 (269)
Q Consensus 257 l~~iLhd~~d~ 267 (269)
+...||+++|.
T Consensus 151 ~~~~l~~~~d~ 161 (261)
T PLN02233 151 MGYGLRNVVDR 161 (261)
T ss_pred EecccccCCCH
Confidence 99999999864
No 20
>PRK06202 hypothetical protein; Provisional
Probab=98.51 E-value=4.6e-07 Score=77.28 Aligned_cols=76 Identities=14% Similarity=0.069 Sum_probs=58.1
Q ss_pred CCccEEEEeCCCchHHHHHHHHH----CCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCC-cCC-CC-cEEEeccc
Q 024350 192 EHVKKLVDVGGGLGATLNMIISK----YPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFE-SVP-KA-DTIFMKVI 260 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~----~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~-~~P-~g-D~~~l~~i 260 (269)
.+..+|+|||||+|.++..|++. .|+.+++++|+ |.+++.+++. .++++..++.-. +.+ +. |++++..+
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 45679999999999998888764 56789999997 8888877653 456666554322 233 33 99999999
Q ss_pred cccCCCC
Q 024350 261 CVCYLNS 267 (269)
Q Consensus 261 Lhd~~d~ 267 (269)
||+.+|+
T Consensus 139 lhh~~d~ 145 (232)
T PRK06202 139 LHHLDDA 145 (232)
T ss_pred eecCChH
Confidence 9999875
No 21
>PLN02244 tocopherol O-methyltransferase
Probab=98.50 E-value=3.9e-07 Score=82.22 Aligned_cols=75 Identities=17% Similarity=0.217 Sum_probs=62.1
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-cCCCC--cEEEeccc
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-SVPKA--DTIFMKVI 260 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~~P~g--D~~~l~~i 260 (269)
+...+|||||||.|.++..+++++ +.+++++|+ |..++.+++ .++|+++.+|+.+ ++|.+ |+++....
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 456799999999999999999988 778999997 666665543 2689999999988 67753 99999999
Q ss_pred cccCCCC
Q 024350 261 CVCYLNS 267 (269)
Q Consensus 261 Lhd~~d~ 267 (269)
+|.++|.
T Consensus 196 ~~h~~d~ 202 (340)
T PLN02244 196 GEHMPDK 202 (340)
T ss_pred hhccCCH
Confidence 9998874
No 22
>PLN03075 nicotianamine synthase; Provisional
Probab=98.50 E-value=3.7e-07 Score=80.03 Aligned_cols=75 Identities=17% Similarity=0.157 Sum_probs=58.7
Q ss_pred CCccEEEEeCCCchH--HHHHHHHHCCCCeEEEeeh-hHHHHhCCC--------CCCceEEecccCCcCC--CC-cEEEe
Q 024350 192 EHVKKLVDVGGGLGA--TLNMIISKYPHIKGINYDL-LYVIKNAPS--------YPGIDHVGGDLFESVP--KA-DTIFM 257 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~--~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~--------~~ri~~~~gD~~~~~P--~g-D~~~l 257 (269)
..+++|+|||||.|- ....+.+.+|+.+++.+|. |+.++.|++ .+||+|..+|..+..+ .. |++|+
T Consensus 122 ~~p~~VldIGcGpgpltaiilaa~~~p~~~~~giD~d~~ai~~Ar~~~~~~~gL~~rV~F~~~Da~~~~~~l~~FDlVF~ 201 (296)
T PLN03075 122 GVPTKVAFVGSGPLPLTSIVLAKHHLPTTSFHNFDIDPSANDVARRLVSSDPDLSKRMFFHTADVMDVTESLKEYDVVFL 201 (296)
T ss_pred CCCCEEEEECCCCcHHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHhhhccCccCCcEEEECchhhcccccCCcCEEEE
Confidence 367899999999884 4444456789999999997 777766654 2689999999988433 34 99999
Q ss_pred ccccccCCCC
Q 024350 258 KVICVCYLNS 267 (269)
Q Consensus 258 ~~iLhd~~d~ 267 (269)
. +||+|+.+
T Consensus 202 ~-ALi~~dk~ 210 (296)
T PLN03075 202 A-ALVGMDKE 210 (296)
T ss_pred e-cccccccc
Confidence 9 99999643
No 23
>PRK11207 tellurite resistance protein TehB; Provisional
Probab=98.49 E-value=2.3e-07 Score=77.24 Aligned_cols=83 Identities=20% Similarity=0.208 Sum_probs=64.5
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCCC-
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPKA- 252 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~g- 252 (269)
+.+++.++ .....+|||||||.|..+..++++ ..+++++|+ |..++.+++. ..|++...|+.+ +++..
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 45566665 445689999999999999999986 568899998 7777765532 558899999987 45544
Q ss_pred cEEEeccccccCCCC
Q 024350 253 DTIFMKVICVCYLNS 267 (269)
Q Consensus 253 D~~~l~~iLhd~~d~ 267 (269)
|+++...++|.++++
T Consensus 97 D~I~~~~~~~~~~~~ 111 (197)
T PRK11207 97 DFILSTVVLMFLEAK 111 (197)
T ss_pred CEEEEecchhhCCHH
Confidence 999999999987653
No 24
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=98.46 E-value=3.7e-07 Score=79.49 Aligned_cols=83 Identities=22% Similarity=0.353 Sum_probs=65.8
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCCC--c
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPKA--D 253 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~g--D 253 (269)
..++..++ +....+|||||||+|..+..+++.+ ..+++.+|+ |..++.+++ .++|+++.+|+.+ ++|.+ |
T Consensus 42 ~~~l~~l~-l~~~~~VLDiGcG~G~~a~~la~~~-~~~v~giD~s~~~~~~a~~~~~~~~~i~~~~~D~~~~~~~~~~FD 119 (263)
T PTZ00098 42 TKILSDIE-LNENSKVLDIGSGLGGGCKYINEKY-GAHVHGVDICEKMVNIAKLRNSDKNKIEFEANDILKKDFPENTFD 119 (263)
T ss_pred HHHHHhCC-CCCCCEEEEEcCCCChhhHHHHhhc-CCEEEEEECCHHHHHHHHHHcCcCCceEEEECCcccCCCCCCCeE
Confidence 45566666 6677899999999999999998876 678999997 667766554 3689999999987 67753 9
Q ss_pred EEEeccccccCCC
Q 024350 254 TIFMKVICVCYLN 266 (269)
Q Consensus 254 ~~~l~~iLhd~~d 266 (269)
+++...++|.+++
T Consensus 120 ~V~s~~~l~h~~~ 132 (263)
T PTZ00098 120 MIYSRDAILHLSY 132 (263)
T ss_pred EEEEhhhHHhCCH
Confidence 9999888776763
No 25
>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=98.46 E-value=2.6e-07 Score=78.90 Aligned_cols=77 Identities=18% Similarity=0.281 Sum_probs=54.8
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC-cCCC-C-cEEEecc
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE-SVPK-A-DTIFMKV 259 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~-~~P~-g-D~~~l~~ 259 (269)
.....+|+|||||+|.++..++++. |+.+++++|. |.+++.+++ ..+|+++.+|..+ |+|. . |+++++.
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 3456799999999999999999885 6789999996 888888764 2589999999988 8885 3 9999999
Q ss_pred ccccCCCC
Q 024350 260 ICVCYLNS 267 (269)
Q Consensus 260 iLhd~~d~ 267 (269)
.||+.+|.
T Consensus 125 glrn~~d~ 132 (233)
T PF01209_consen 125 GLRNFPDR 132 (233)
T ss_dssp -GGG-SSH
T ss_pred hHHhhCCH
Confidence 99999874
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=98.44 E-value=6.5e-07 Score=75.65 Aligned_cols=73 Identities=15% Similarity=0.156 Sum_probs=58.1
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCCCcEEEecccccc
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPKADTIFMKVICVC 263 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~gD~~~l~~iLhd 263 (269)
.+..+++|||||+|.++..+++. +.+++++|. |.+++.+++. +++++..+|+.+...+-|+++...++|.
T Consensus 54 ~~~~~vLDiGcG~G~~~~~la~~--~~~v~gvD~s~~~i~~a~~~~~~~~~~~~i~~~~~d~~~~~~~fD~ii~~~~l~~ 131 (219)
T TIGR02021 54 LKGKRVLDAGCGTGLLSIELAKR--GAIVKAVDISEQMVQMARNRAQGRDVAGNVEFEVNDLLSLCGEFDIVVCMDVLIH 131 (219)
T ss_pred CCCCEEEEEeCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEECChhhCCCCcCEEEEhhHHHh
Confidence 34689999999999999999876 457899997 7788776542 4899999998763223499999999988
Q ss_pred CCC
Q 024350 264 YLN 266 (269)
Q Consensus 264 ~~d 266 (269)
+++
T Consensus 132 ~~~ 134 (219)
T TIGR02021 132 YPA 134 (219)
T ss_pred CCH
Confidence 865
No 27
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=98.43 E-value=1.2e-07 Score=70.02 Aligned_cols=71 Identities=17% Similarity=0.294 Sum_probs=54.7
Q ss_pred EEEeCCCchHHHHHHHHHC---CCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC--cEEEe-cccccc
Q 024350 197 LVDVGGGLGATLNMIISKY---PHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA--DTIFM-KVICVC 263 (269)
Q Consensus 197 vvDvGGG~G~~~~~l~~~~---P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g--D~~~l-~~iLhd 263 (269)
|+|+|||+|..+..+++.+ |+.+.+++|+ |..++.+++. .+++++.+|+.+ +++.+ |+|+. ..++|.
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 7999999999999999997 6789999996 7888766542 589999999987 54443 99999 455887
Q ss_pred CCCC
Q 024350 264 YLNS 267 (269)
Q Consensus 264 ~~d~ 267 (269)
++++
T Consensus 81 ~~~~ 84 (101)
T PF13649_consen 81 LSPE 84 (101)
T ss_dssp SSHH
T ss_pred CCHH
Confidence 7754
No 28
>PRK08317 hypothetical protein; Provisional
Probab=98.43 E-value=8.2e-07 Score=75.28 Aligned_cols=83 Identities=18% Similarity=0.262 Sum_probs=66.5
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC-cCCC-C-c
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE-SVPK-A-D 253 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~-~~P~-g-D 253 (269)
+++.++ +....+|||||||.|.++..+++.+ |+.+++++|+ |..++.+++ ..++++..+|+.+ +++. . |
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 345555 5667899999999999999999998 8889999997 565655543 2679999999877 5664 3 9
Q ss_pred EEEeccccccCCCC
Q 024350 254 TIFMKVICVCYLNS 267 (269)
Q Consensus 254 ~~~l~~iLhd~~d~ 267 (269)
++++.+++|.++|.
T Consensus 90 ~v~~~~~~~~~~~~ 103 (241)
T PRK08317 90 AVRSDRVLQHLEDP 103 (241)
T ss_pred EEEEechhhccCCH
Confidence 99999999988764
No 29
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=98.43 E-value=1.1e-06 Score=74.79 Aligned_cols=83 Identities=12% Similarity=0.105 Sum_probs=65.1
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCCC-
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPKA- 252 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~g- 252 (269)
++..+. .....+|+|||||.|.++..+++.+| +.+++++|+ |..++.+++. .+++++.+|+.+ +.+.+
T Consensus 43 ~~~~~~-~~~~~~vldiG~G~G~~~~~l~~~~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~~~ 121 (239)
T PRK00216 43 TIKWLG-VRPGDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGDAEALPFPDNS 121 (239)
T ss_pred HHHHhC-CCCCCeEEEeCCCCCHHHHHHHHHcCCCCeEEEEeCCHHHHHHHHHhhcccccccCeEEEecccccCCCCCCC
Confidence 344444 34457999999999999999999998 789999997 5666655432 579999999987 44433
Q ss_pred -cEEEeccccccCCCC
Q 024350 253 -DTIFMKVICVCYLNS 267 (269)
Q Consensus 253 -D~~~l~~iLhd~~d~ 267 (269)
|++++..+||.+++.
T Consensus 122 ~D~I~~~~~l~~~~~~ 137 (239)
T PRK00216 122 FDAVTIAFGLRNVPDI 137 (239)
T ss_pred ccEEEEecccccCCCH
Confidence 999999999988763
No 30
>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes.
Probab=98.42 E-value=3.6e-07 Score=77.33 Aligned_cols=72 Identities=19% Similarity=0.251 Sum_probs=59.7
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-cCCCC-cEEEeccccccC
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-SVPKA-DTIFMKVICVCY 264 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~~P~g-D~~~l~~iLhd~ 264 (269)
++|||||||.|..+..+++.+|+.+++.+|+ |..++.+++ .++|+++.+|+.+ +.|.. |+++...++|.+
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 3799999999999999999999999999997 566555543 2689999999977 45544 999999999987
Q ss_pred CC
Q 024350 265 LN 266 (269)
Q Consensus 265 ~d 266 (269)
++
T Consensus 81 ~~ 82 (224)
T smart00828 81 KD 82 (224)
T ss_pred CC
Confidence 65
No 31
>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=98.40 E-value=4.6e-07 Score=65.31 Aligned_cols=68 Identities=18% Similarity=0.302 Sum_probs=55.7
Q ss_pred EEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC---CCCceEEecccCC-cCCCC--cEEEeccccccCCC
Q 024350 198 VDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS---YPGIDHVGGDLFE-SVPKA--DTIFMKVICVCYLN 266 (269)
Q Consensus 198 vDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~---~~ri~~~~gD~~~-~~P~g--D~~~l~~iLhd~~d 266 (269)
||||||.|..+..+.++ +..+.+.+|. +..++.+++ ..+++++.+|+.+ ++|.+ |+++..+++|.+++
T Consensus 1 LdiG~G~G~~~~~l~~~-~~~~v~~~D~~~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~sfD~v~~~~~~~~~~~ 75 (95)
T PF08241_consen 1 LDIGCGTGRFAAALAKR-GGASVTGIDISEEMLEQARKRLKNEGVSFRQGDAEDLPFPDNSFDVVFSNSVLHHLED 75 (95)
T ss_dssp EEET-TTSHHHHHHHHT-TTCEEEEEES-HHHHHHHHHHTTTSTEEEEESBTTSSSS-TT-EEEEEEESHGGGSSH
T ss_pred CEecCcCCHHHHHHHhc-cCCEEEEEeCCHHHHHHHHhcccccCchheeehHHhCccccccccccccccceeeccC
Confidence 79999999999999999 9999999997 566766654 3667799999988 77753 99999999998843
No 32
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.39 E-value=6.5e-07 Score=77.51 Aligned_cols=80 Identities=18% Similarity=0.209 Sum_probs=62.5
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC--cCCC-C
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE--SVPK-A 252 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~--~~P~-g 252 (269)
+++.++ +...+|+|||||+|.++..+++. ..+++++|+ |.+++.+++. ++++++.+|+.+ +.+. .
T Consensus 37 ~l~~l~--~~~~~vLDiGcG~G~~a~~la~~--g~~v~~vD~s~~~l~~a~~~~~~~g~~~~v~~~~~d~~~l~~~~~~~ 112 (255)
T PRK11036 37 LLAELP--PRPLRVLDAGGGEGQTAIKLAEL--GHQVILCDLSAEMIQRAKQAAEAKGVSDNMQFIHCAAQDIAQHLETP 112 (255)
T ss_pred HHHhcC--CCCCEEEEeCCCchHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHhcCCccceEEEEcCHHHHhhhcCCC
Confidence 444443 34579999999999999999987 467899998 7888877642 679999999876 3443 3
Q ss_pred -cEEEeccccccCCCC
Q 024350 253 -DTIFMKVICVCYLNS 267 (269)
Q Consensus 253 -D~~~l~~iLhd~~d~ 267 (269)
|++++..+||.++|.
T Consensus 113 fD~V~~~~vl~~~~~~ 128 (255)
T PRK11036 113 VDLILFHAVLEWVADP 128 (255)
T ss_pred CCEEEehhHHHhhCCH
Confidence 999999999988763
No 33
>PLN02490 MPBQ/MSBQ methyltransferase
Probab=98.39 E-value=5.8e-07 Score=80.68 Aligned_cols=74 Identities=22% Similarity=0.173 Sum_probs=63.8
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCC-cCCC-C-cEEEeccccccCCC
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLN 266 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d 266 (269)
..+|||||||+|.++..+++++|..+++++|. |.+++.+++. .+++++.+|+.+ +++. . |+++...+||.|+|
T Consensus 114 ~~~VLDLGcGtG~~~l~La~~~~~~~VtgVD~S~~mL~~A~~k~~~~~i~~i~gD~e~lp~~~~sFDvVIs~~~L~~~~d 193 (340)
T PLN02490 114 NLKVVDVGGGTGFTTLGIVKHVDAKNVTILDQSPHQLAKAKQKEPLKECKIIEGDAEDLPFPTDYADRYVSAGSIEYWPD 193 (340)
T ss_pred CCEEEEEecCCcHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhhhccCCeEEeccHHhCCCCCCceeEEEEcChhhhCCC
Confidence 46999999999999999999999899999997 7777776653 689999999987 6664 3 99999999999987
Q ss_pred C
Q 024350 267 S 267 (269)
Q Consensus 267 ~ 267 (269)
.
T Consensus 194 ~ 194 (340)
T PLN02490 194 P 194 (340)
T ss_pred H
Confidence 5
No 34
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=98.36 E-value=1.3e-06 Score=82.26 Aligned_cols=82 Identities=17% Similarity=0.308 Sum_probs=65.7
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC-cCCC-C-cE
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE-SVPK-A-DT 254 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~-~~P~-g-D~ 254 (269)
+++.+. ++...+|||||||+|..+..+++++ +.+++++|+ |..++.+++ ..+|+++.+|+++ ++|. . |+
T Consensus 258 l~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvDiS~~~l~~A~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~ 335 (475)
T PLN02336 258 FVDKLD-LKPGQKVLDVGCGIGGGDFYMAENF-DVHVVGIDLSVNMISFALERAIGRKCSVEFEVADCTKKTYPDNSFDV 335 (475)
T ss_pred HHHhcC-CCCCCEEEEEeccCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHhhcCCCceEEEEcCcccCCCCCCCEEE
Confidence 455555 5556799999999999999988876 789999998 677766643 2589999999998 6675 3 99
Q ss_pred EEeccccccCCCC
Q 024350 255 IFMKVICVCYLNS 267 (269)
Q Consensus 255 ~~l~~iLhd~~d~ 267 (269)
++...+++.++|.
T Consensus 336 I~s~~~l~h~~d~ 348 (475)
T PLN02336 336 IYSRDTILHIQDK 348 (475)
T ss_pred EEECCcccccCCH
Confidence 9999999988764
No 35
>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=98.33 E-value=1e-06 Score=74.73 Aligned_cols=74 Identities=16% Similarity=0.294 Sum_probs=60.9
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--CCceEEecccCC-cCCC-C-cEEEeccccccCCC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--PGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLN 266 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d 266 (269)
...+|||||||+|.++..+++.+|+.+++++|. |..+..++.. ++++++.+|+.+ +.|. . |+++..++||..+|
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 347899999999999999999999999999997 5666555432 589999999987 5554 3 99999999997654
No 36
>PRK05785 hypothetical protein; Provisional
Probab=98.33 E-value=1.4e-06 Score=74.20 Aligned_cols=71 Identities=18% Similarity=0.139 Sum_probs=59.6
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCCC--cEEEeccccccCCCC
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPKA--DTIFMKVICVCYLNS 267 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~g--D~~~l~~iLhd~~d~ 267 (269)
..+|||||||+|.++..+++.+ +.+++++|. |++++.+++. ..++.+|+.+ |+|.+ |+++....||+++|.
T Consensus 52 ~~~VLDlGcGtG~~~~~l~~~~-~~~v~gvD~S~~Ml~~a~~~--~~~~~~d~~~lp~~d~sfD~v~~~~~l~~~~d~ 126 (226)
T PRK05785 52 PKKVLDVAAGKGELSYHFKKVF-KYYVVALDYAENMLKMNLVA--DDKVVGSFEALPFRDKSFDVVMSSFALHASDNI 126 (226)
T ss_pred CCeEEEEcCCCCHHHHHHHHhc-CCEEEEECCCHHHHHHHHhc--cceEEechhhCCCCCCCEEEEEecChhhccCCH
Confidence 5799999999999999999988 678999997 8888887653 3467788877 67653 999999999998874
No 37
>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=98.30 E-value=2.3e-06 Score=71.88 Aligned_cols=82 Identities=15% Similarity=0.104 Sum_probs=65.2
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCC-C-cE
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPK-A-DT 254 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~-g-D~ 254 (269)
++..+. .....+|+|||||.|.++..+++++|+ .+++++|. |..++.+++ ..+++++.+|+.+ +.++ . |+
T Consensus 31 ~~~~~~-~~~~~~vldiG~G~G~~~~~~~~~~~~~~~~~~iD~~~~~~~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D~ 109 (223)
T TIGR01934 31 AVKLIG-VFKGQKVLDVACGTGDLAIELAKSAPDRGKVTGVDFSSEMLEVAKKKSELPLNIEFIQADAEALPFEDNSFDA 109 (223)
T ss_pred HHHHhc-cCCCCeEEEeCCCCChhHHHHHHhcCCCceEEEEECCHHHHHHHHHHhccCCCceEEecchhcCCCCCCcEEE
Confidence 344443 345689999999999999999999998 78999998 666665543 2689999999988 5554 3 99
Q ss_pred EEeccccccCCC
Q 024350 255 IFMKVICVCYLN 266 (269)
Q Consensus 255 ~~l~~iLhd~~d 266 (269)
+++...+|+.++
T Consensus 110 i~~~~~~~~~~~ 121 (223)
T TIGR01934 110 VTIAFGLRNVTD 121 (223)
T ss_pred EEEeeeeCCccc
Confidence 999999998765
No 38
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=98.28 E-value=5.8e-06 Score=71.28 Aligned_cols=81 Identities=15% Similarity=0.145 Sum_probs=61.7
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCC-C-cEEEe
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPK-A-DTIFM 257 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~-g-D~~~l 257 (269)
.+++.++ .....+|+|||||+|.++..+.+. ..+++.+|+ |.+++.+++. ..++++.+|+.+ +++. . |+++.
T Consensus 33 ~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~~D~s~~~l~~a~~~~~~~~~~~~d~~~~~~~~~~fD~V~s 109 (251)
T PRK10258 33 ALLAMLP-QRKFTHVLDAGCGPGWMSRYWRER--GSQVTALDLSPPMLAQARQKDAADHYLAGDIESLPLATATFDLAWS 109 (251)
T ss_pred HHHHhcC-ccCCCeEEEeeCCCCHHHHHHHHc--CCeEEEEECCHHHHHHHHhhCCCCCEEEcCcccCcCCCCcEEEEEE
Confidence 4455555 335679999999999999888764 568899998 8888877664 457889999877 6665 3 99999
Q ss_pred ccccccCCC
Q 024350 258 KVICVCYLN 266 (269)
Q Consensus 258 ~~iLhd~~d 266 (269)
...+|..+|
T Consensus 110 ~~~l~~~~d 118 (251)
T PRK10258 110 NLAVQWCGN 118 (251)
T ss_pred CchhhhcCC
Confidence 888875544
No 39
>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated
Probab=98.26 E-value=2.1e-06 Score=72.83 Aligned_cols=73 Identities=22% Similarity=0.267 Sum_probs=57.6
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCCC-cEEEeccccc
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPKA-DTIFMKVICV 262 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~g-D~~~l~~iLh 262 (269)
....+|||||||+|.++..+++..+ +++++|+ +.+++.+++. ++|+++.+|+ +..+.. |+++...+||
T Consensus 62 ~~~~~vLDvGcG~G~~~~~l~~~~~--~v~~~D~s~~~i~~a~~~~~~~~~~~~i~~~~~d~-~~~~~~fD~v~~~~~l~ 138 (230)
T PRK07580 62 LTGLRILDAGCGVGSLSIPLARRGA--KVVASDISPQMVEEARERAPEAGLAGNITFEVGDL-ESLLGRFDTVVCLDVLI 138 (230)
T ss_pred CCCCEEEEEeCCCCHHHHHHHHcCC--EEEEEECCHHHHHHHHHHHHhcCCccCcEEEEcCc-hhccCCcCEEEEcchhh
Confidence 3457999999999999999998764 4899997 7777766542 5899999994 433333 9999999998
Q ss_pred cCCCC
Q 024350 263 CYLNS 267 (269)
Q Consensus 263 d~~d~ 267 (269)
.|+++
T Consensus 139 ~~~~~ 143 (230)
T PRK07580 139 HYPQE 143 (230)
T ss_pred cCCHH
Confidence 88865
No 40
>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=98.23 E-value=1.5e-06 Score=70.55 Aligned_cols=66 Identities=24% Similarity=0.353 Sum_probs=55.2
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC-CC-cEEEec
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP-KA-DTIFMK 258 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P-~g-D~~~l~ 258 (269)
...+++|+|||+|.++..+++++|+.+++..|+ |..++.++++ +.++++..|+++..+ +. |+++..
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 457899999999999999999999999999997 7777766542 349999999999877 44 998875
No 41
>PRK04457 spermidine synthase; Provisional
Probab=98.20 E-value=2.1e-06 Score=74.65 Aligned_cols=67 Identities=18% Similarity=0.254 Sum_probs=56.6
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC---cCCCC-cEEEec
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE---SVPKA-DTIFMK 258 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~---~~P~g-D~~~l~ 258 (269)
+.+++|+|||||.|.++..+++.+|+.+++++|+ |.+++.+++ .+|++++.+|..+ ..++. |+|++-
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 3567899999999999999999999999999999 999987764 2789999999865 34444 999874
No 42
>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=98.20 E-value=1.3e-06 Score=71.69 Aligned_cols=71 Identities=17% Similarity=0.141 Sum_probs=54.5
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCC-CC-cEEEeccccccC
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVP-KA-DTIFMKVICVCY 264 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P-~g-D~~~l~~iLhd~ 264 (269)
..+|+|||||+|..+..++..+|+.+++.+|. |..++.+++ .++|+++.+|+.+-.+ .. |+++... +|++
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 47999999999999999999999999999997 555554432 2579999999976222 23 9888765 6654
Q ss_pred C
Q 024350 265 L 265 (269)
Q Consensus 265 ~ 265 (269)
+
T Consensus 122 ~ 122 (181)
T TIGR00138 122 N 122 (181)
T ss_pred H
Confidence 3
No 43
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=98.19 E-value=3.6e-06 Score=76.66 Aligned_cols=78 Identities=13% Similarity=0.146 Sum_probs=60.6
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---------CCceEEecccCCcCCC-C
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---------PGIDHVGGDLFESVPK-A 252 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---------~ri~~~~gD~~~~~P~-g 252 (269)
+++.++ .....+|+|||||+|.++..+++++|+.+++.+|. +.+++.++++ .+++++..|.++..+. .
T Consensus 220 lL~~lp-~~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~~~~~~~v~~~~~D~l~~~~~~~ 298 (378)
T PRK15001 220 FMQHLP-ENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMPEALDRCEFMINNALSGVEPFR 298 (378)
T ss_pred HHHhCC-cccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCcccCceEEEEEccccccCCCCC
Confidence 455655 33346999999999999999999999999999997 5677666531 3789999999986654 4
Q ss_pred -cEEEeccccc
Q 024350 253 -DTIFMKVICV 262 (269)
Q Consensus 253 -D~~~l~~iLh 262 (269)
|+|++.=-+|
T Consensus 299 fDlIlsNPPfh 309 (378)
T PRK15001 299 FNAVLCNPPFH 309 (378)
T ss_pred EEEEEECcCcc
Confidence 9999863333
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=98.18 E-value=3.3e-06 Score=74.34 Aligned_cols=66 Identities=21% Similarity=0.296 Sum_probs=56.3
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEec
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFMK 258 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l~ 258 (269)
+..+|+|+|||+|.++..+++++|+.+++.+|+ |..++.++++ ++|+++.+|+++++|. . |+++..
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 346899999999999999999999999999998 7888776642 5899999999987774 3 988863
No 45
>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=98.17 E-value=8.6e-06 Score=61.79 Aligned_cols=78 Identities=18% Similarity=0.144 Sum_probs=58.4
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCc---CCCC-
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFES---VPKA- 252 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~---~P~g- 252 (269)
++..+. .....+++|||||.|.++..+++++|+.+++.+|. +..++.+++ .++++++.+|.... .++.
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 344555 44557999999999999999999999999999997 666665543 26799998987642 2333
Q ss_pred cEEEeccccc
Q 024350 253 DTIFMKVICV 262 (269)
Q Consensus 253 D~~~l~~iLh 262 (269)
|++++....+
T Consensus 90 D~v~~~~~~~ 99 (124)
T TIGR02469 90 DRVFIGGSGG 99 (124)
T ss_pred CEEEECCcch
Confidence 9998866443
No 46
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=98.16 E-value=6.8e-06 Score=73.59 Aligned_cols=82 Identities=16% Similarity=0.110 Sum_probs=59.6
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhH-HHHhC-------CCCCCceEEecccCC-cCCCC-c
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLY-VIKNA-------PSYPGIDHVGGDLFE-SVPKA-D 253 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~-vv~~a-------~~~~ri~~~~gD~~~-~~P~g-D 253 (269)
++..++.+ ...+|+|||||+|.++..+++..|. +++++|... .+..+ ....+|+++.+|+.+ +.+.. |
T Consensus 114 l~~~l~~l-~g~~VLDIGCG~G~~~~~la~~g~~-~V~GiD~S~~~l~q~~a~~~~~~~~~~i~~~~~d~e~lp~~~~FD 191 (322)
T PRK15068 114 VLPHLSPL-KGRTVLDVGCGNGYHMWRMLGAGAK-LVVGIDPSQLFLCQFEAVRKLLGNDQRAHLLPLGIEQLPALKAFD 191 (322)
T ss_pred HHHhhCCC-CCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHhcCCCCCeEEEeCCHHHCCCcCCcC
Confidence 34444313 3479999999999999999999877 489999633 23211 113589999999876 44444 9
Q ss_pred EEEeccccccCCCC
Q 024350 254 TIFMKVICVCYLNS 267 (269)
Q Consensus 254 ~~~l~~iLhd~~d~ 267 (269)
+++...+||.+.|.
T Consensus 192 ~V~s~~vl~H~~dp 205 (322)
T PRK15068 192 TVFSMGVLYHRRSP 205 (322)
T ss_pred EEEECChhhccCCH
Confidence 99999999987663
No 47
>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=98.14 E-value=2.5e-06 Score=70.05 Aligned_cols=77 Identities=14% Similarity=0.273 Sum_probs=59.1
Q ss_pred hccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCCcCCCC--cEEEecc
Q 024350 187 SYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFESVPKA--DTIFMKV 259 (269)
Q Consensus 187 ~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~~~P~g--D~~~l~~ 259 (269)
.++ -....++++||||.|.+...|+.++- +.++.|. |..++.+++ .++|+++..|+-+..|.+ |+++++-
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 45678999999999999999999974 4699997 888887764 388999999998878864 9999999
Q ss_pred ccccCCC
Q 024350 260 ICVCYLN 266 (269)
Q Consensus 260 iLhd~~d 266 (269)
|+|+++|
T Consensus 115 VlYYL~~ 121 (201)
T PF05401_consen 115 VLYYLDD 121 (201)
T ss_dssp -GGGSSS
T ss_pred HhHcCCC
Confidence 9999986
No 48
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.14 E-value=3.3e-06 Score=75.11 Aligned_cols=64 Identities=19% Similarity=0.277 Sum_probs=55.5
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEec
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFMK 258 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l~ 258 (269)
.+|+|+|||+|.++..+++.+|+.+++.+|+ |..++.++++ +||+++.+|+++.+|. . |+++..
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 6899999999999999999999999999998 8888777642 5799999999987764 3 998864
No 49
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=98.14 E-value=4.5e-06 Score=69.35 Aligned_cols=81 Identities=19% Similarity=0.126 Sum_probs=60.0
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cE
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DT 254 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~ 254 (269)
.+++.++ .....+|+|||||+|..+..++++ +.+++++|. |.+++.+++. -.+++...|+.. +.++. |+
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 344679999999999999999985 568899998 6777655431 237777788765 34444 99
Q ss_pred EEeccccccCCC
Q 024350 255 IFMKVICVCYLN 266 (269)
Q Consensus 255 ~~l~~iLhd~~d 266 (269)
++...++|.+++
T Consensus 98 I~~~~~~~~~~~ 109 (195)
T TIGR00477 98 IFSTVVFMFLQA 109 (195)
T ss_pred EEEecccccCCH
Confidence 999999998764
No 50
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=98.11 E-value=7e-06 Score=71.66 Aligned_cols=77 Identities=17% Similarity=0.242 Sum_probs=62.3
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-C-cEEEecc
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-A-DTIFMKV 259 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-g-D~~~l~~ 259 (269)
+....+|||||||+|..+..+++.. |+.+++++|+ |..++.+++. ++++++.+|+.+ ++|. . |+++...
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 4456799999999999888777764 6678999997 7888877642 689999999877 6664 4 9999999
Q ss_pred ccccCCCC
Q 024350 260 ICVCYLNS 267 (269)
Q Consensus 260 iLhd~~d~ 267 (269)
++|.++|.
T Consensus 155 v~~~~~d~ 162 (272)
T PRK11873 155 VINLSPDK 162 (272)
T ss_pred cccCCCCH
Confidence 99988763
No 51
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=98.11 E-value=1.8e-06 Score=71.71 Aligned_cols=55 Identities=16% Similarity=0.240 Sum_probs=47.3
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE 247 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~ 247 (269)
...++||||||.|.++..+++++|+.+++++|+ +..++.+.+ .++|+++.+|+.+
T Consensus 16 ~~~~ilDiGcG~G~~~~~la~~~p~~~v~gvD~~~~~l~~a~~~~~~~~l~ni~~i~~d~~~ 77 (194)
T TIGR00091 16 KAPLHLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKANKLGLKNLHVLCGDANE 77 (194)
T ss_pred CCceEEEeCCCccHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHhCCCCEEEEccCHHH
Confidence 457999999999999999999999999999998 667766543 2689999999975
No 52
>KOG1540 consensus Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]
Probab=98.10 E-value=1.7e-05 Score=67.43 Aligned_cols=76 Identities=17% Similarity=0.147 Sum_probs=65.0
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCC------CeEEEeeh-hHHHHhCCCC---------CCceEEecccCC-cCCCC--c
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPH------IKGINYDL-LYVIKNAPSY---------PGIDHVGGDLFE-SVPKA--D 253 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~------l~~vv~Dl-p~vv~~a~~~---------~ri~~~~gD~~~-~~P~g--D 253 (269)
..-++|||+||+|..+-.+++.-++ -+++|.|+ |+++..+++. .|+.++.+|.-+ |+|.. |
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 3479999999999999999999888 78999997 8888766532 569999999988 88853 9
Q ss_pred EEEeccccccCCCCC
Q 024350 254 TIFMKVICVCYLNSL 268 (269)
Q Consensus 254 ~~~l~~iLhd~~d~~ 268 (269)
.|.+.-=+.+|+|.+
T Consensus 180 ~yTiafGIRN~th~~ 194 (296)
T KOG1540|consen 180 AYTIAFGIRNVTHIQ 194 (296)
T ss_pred eEEEecceecCCCHH
Confidence 999999999998853
No 53
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=98.09 E-value=3.4e-06 Score=75.35 Aligned_cols=72 Identities=15% Similarity=0.035 Sum_probs=58.1
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCCC-C-cEEEeccccc
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVPK-A-DTIFMKVICV 262 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P~-g-D~~~l~~iLh 262 (269)
..+|||||||.|.++..+++ ++.+++++|. +..++.++.. .+|+++.+|+.+ +.+. . |++++..+||
T Consensus 132 g~~ILDIGCG~G~~s~~La~--~g~~V~GID~s~~~i~~Ar~~~~~~~~~~~i~~~~~dae~l~~~~~~FD~Vi~~~vLe 209 (322)
T PLN02396 132 GLKFIDIGCGGGLLSEPLAR--MGATVTGVDAVDKNVKIARLHADMDPVTSTIEYLCTTAEKLADEGRKFDAVLSLEVIE 209 (322)
T ss_pred CCEEEEeeCCCCHHHHHHHH--cCCEEEEEeCCHHHHHHHHHHHHhcCcccceeEEecCHHHhhhccCCCCEEEEhhHHH
Confidence 35899999999999998876 4778999997 7777766532 479999999865 4443 3 9999999999
Q ss_pred cCCCC
Q 024350 263 CYLNS 267 (269)
Q Consensus 263 d~~d~ 267 (269)
.++|.
T Consensus 210 Hv~d~ 214 (322)
T PLN02396 210 HVANP 214 (322)
T ss_pred hcCCH
Confidence 99874
No 54
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=98.06 E-value=5.9e-06 Score=72.50 Aligned_cols=63 Identities=25% Similarity=0.318 Sum_probs=53.4
Q ss_pred EEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCCC-cEEEec
Q 024350 196 KLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPKA-DTIFMK 258 (269)
Q Consensus 196 ~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~g-D~~~l~ 258 (269)
+|+|||+|+|..++.++.++|+++++..|+ |..++.|+.+ .++.++.+|+|++++.. |+++.+
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 899999999999999999999999999997 8888777653 56667777999987754 887653
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=98.05 E-value=1.4e-05 Score=66.31 Aligned_cols=73 Identities=19% Similarity=0.372 Sum_probs=56.2
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC---cCCC-C-cEEEeccccccCCC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE---SVPK-A-DTIFMKVICVCYLN 266 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~---~~P~-g-D~~~l~~iLhd~~d 266 (269)
...+|+|||||+|.++..+++. ...+++.+|. ++.++.++. .+++++.+|+.+ +++. . |++++.++||..+|
T Consensus 13 ~~~~iLDiGcG~G~~~~~l~~~-~~~~~~giD~s~~~i~~a~~-~~~~~~~~d~~~~l~~~~~~sfD~Vi~~~~l~~~~d 90 (194)
T TIGR02081 13 PGSRVLDLGCGDGELLALLRDE-KQVRGYGIEIDQDGVLACVA-RGVNVIQGDLDEGLEAFPDKSFDYVILSQTLQATRN 90 (194)
T ss_pred CCCEEEEeCCCCCHHHHHHHhc-cCCcEEEEeCCHHHHHHHHH-cCCeEEEEEhhhcccccCCCCcCEEEEhhHhHcCcC
Confidence 4468999999999999888765 4567788997 666665543 468899999865 2443 3 99999999998876
Q ss_pred C
Q 024350 267 S 267 (269)
Q Consensus 267 ~ 267 (269)
.
T Consensus 91 ~ 91 (194)
T TIGR02081 91 P 91 (194)
T ss_pred H
Confidence 3
No 56
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=98.05 E-value=1.4e-05 Score=72.19 Aligned_cols=80 Identities=16% Similarity=0.186 Sum_probs=61.5
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCCC-cEEE
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPKA-DTIF 256 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~g-D~~~ 256 (269)
++..++ .....+|+|+|||+|.++..+++++|+.+++.+|. +.+++.++.+ -..+++..|.++..+.. |+++
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 344444 22345899999999999999999999999999997 5677666542 24577889998765555 9999
Q ss_pred eccccccC
Q 024350 257 MKVICVCY 264 (269)
Q Consensus 257 l~~iLhd~ 264 (269)
..--+|+.
T Consensus 267 sNPPFH~g 274 (342)
T PRK09489 267 SNPPFHDG 274 (342)
T ss_pred ECCCccCC
Confidence 98888864
No 57
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=98.04 E-value=1.9e-05 Score=65.25 Aligned_cols=67 Identities=19% Similarity=0.141 Sum_probs=54.3
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCCC-cEEEecc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPKA-DTIFMKV 259 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~g-D~~~l~~ 259 (269)
...+|+|||||+|..+..+++++|+.+++.+|. +..++.+++. ++|+++.+|..+ +..+. |++++..
T Consensus 45 ~g~~VLDiGcGtG~~al~la~~~~~~~V~giD~s~~~l~~A~~~~~~~~l~~i~~~~~d~~~~~~~~~fDlV~~~~ 120 (187)
T PRK00107 45 GGERVLDVGSGAGFPGIPLAIARPELKVTLVDSLGKKIAFLREVAAELGLKNVTVVHGRAEEFGQEEKFDVVTSRA 120 (187)
T ss_pred CCCeEEEEcCCCCHHHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHcCCCCEEEEeccHhhCCCCCCccEEEEcc
Confidence 367999999999999999999999999999997 6777666542 459999999877 22223 9999864
No 58
>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=98.01 E-value=9.6e-06 Score=71.37 Aligned_cols=64 Identities=20% Similarity=0.371 Sum_probs=54.9
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEec
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFMK 258 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l~ 258 (269)
.+|+|||||+|.++..++..+|+.+++.+|+ |..++.++++ .||+++.+|++++++. . |+++..
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 6899999999999999999999999999997 7777766642 4699999999997764 4 888763
No 59
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=98.00 E-value=1.9e-05 Score=66.10 Aligned_cols=81 Identities=16% Similarity=0.106 Sum_probs=61.2
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC--C
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK--A 252 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~--g 252 (269)
+++.++ .....+|+|||||+|..+..+++..+ .-+++.+|. |..++.++++ .+++++.+|+.+.+|. .
T Consensus 64 ~~~~l~-~~~~~~VLDiG~GsG~~~~~la~~~~~~g~V~~iD~~~~~~~~a~~~l~~~~~~~~v~~~~~d~~~~~~~~~~ 142 (205)
T PRK13944 64 MCELIE-PRPGMKILEVGTGSGYQAAVCAEAIERRGKVYTVEIVKELAIYAAQNIERLGYWGVVEVYHGDGKRGLEKHAP 142 (205)
T ss_pred HHHhcC-CCCCCEEEEECcCccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCcEEEEECCcccCCccCCC
Confidence 344444 44557999999999999999998875 567899997 6777666542 4699999999885552 3
Q ss_pred -cEEEeccccccCC
Q 024350 253 -DTIFMKVICVCYL 265 (269)
Q Consensus 253 -D~~~l~~iLhd~~ 265 (269)
|++++...++..+
T Consensus 143 fD~Ii~~~~~~~~~ 156 (205)
T PRK13944 143 FDAIIVTAAASTIP 156 (205)
T ss_pred ccEEEEccCcchhh
Confidence 9999988876654
No 60
>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=97.99 E-value=1.9e-05 Score=67.78 Aligned_cols=65 Identities=22% Similarity=0.325 Sum_probs=54.7
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-cEEEe
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-DTIFM 257 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-D~~~l 257 (269)
+..+|+|+|||+|.++..+++.+|+.+++++|. |..++.++.. ++++++.+|++++.+. . |+++.
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 346899999999999999999999999999997 7777766542 5799999999987664 3 98876
No 61
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=97.99 E-value=2e-05 Score=64.15 Aligned_cols=72 Identities=21% Similarity=0.255 Sum_probs=57.9
Q ss_pred HhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC---CCcEE
Q 024350 186 ESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP---KADTI 255 (269)
Q Consensus 186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P---~gD~~ 255 (269)
..+. .....+++|||||+|..+.+++...|..+++.+|. ++.++..+.+ ++++++.||.-+.++ +-|.+
T Consensus 28 s~L~-~~~g~~l~DIGaGtGsi~iE~a~~~p~~~v~AIe~~~~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~~~dai 106 (187)
T COG2242 28 SKLR-PRPGDRLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARFGVDNLEVVEGDAPEALPDLPSPDAI 106 (187)
T ss_pred HhhC-CCCCCEEEEeCCCccHHHHHHHHhCCCceEEEEecCHHHHHHHHHHHHHhCCCcEEEEeccchHhhcCCCCCCEE
Confidence 4444 56678999999999999999999999999999996 6666655542 899999999877444 23999
Q ss_pred Eec
Q 024350 256 FMK 258 (269)
Q Consensus 256 ~l~ 258 (269)
|+.
T Consensus 107 FIG 109 (187)
T COG2242 107 FIG 109 (187)
T ss_pred EEC
Confidence 875
No 62
>PRK14121 tRNA (guanine-N(7)-)-methyltransferase; Provisional
Probab=97.97 E-value=2.1e-05 Score=71.65 Aligned_cols=74 Identities=20% Similarity=0.242 Sum_probs=55.6
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccC---CcCCCC-
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLF---ESVPKA- 252 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~---~~~P~g- 252 (269)
+++.+. -.....+||||||+|.++..+++++|+..++++|+ +.+++.+.+ .+.|.++.+|.. +.+|.+
T Consensus 114 ~~~~~~-~~~~p~vLEIGcGsG~~ll~lA~~~P~~~~iGIEI~~~~i~~a~~ka~~~gL~NV~~i~~DA~~ll~~~~~~s 192 (390)
T PRK14121 114 FLDFIS-KNQEKILIEIGFGSGRHLLYQAKNNPNKLFIGIEIHTPSIEQVLKQIELLNLKNLLIINYDARLLLELLPSNS 192 (390)
T ss_pred HHHHhc-CCCCCeEEEEcCcccHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHhhhhCCCCc
Confidence 444444 23457999999999999999999999999999997 556554432 267999999974 346654
Q ss_pred -cEEEec
Q 024350 253 -DTIFMK 258 (269)
Q Consensus 253 -D~~~l~ 258 (269)
|.+++.
T Consensus 193 ~D~I~ln 199 (390)
T PRK14121 193 VEKIFVH 199 (390)
T ss_pred eeEEEEe
Confidence 877753
No 63
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.96 E-value=4.1e-05 Score=64.44 Aligned_cols=82 Identities=15% Similarity=0.135 Sum_probs=62.4
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC-CC-
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP-KA- 252 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P-~g- 252 (269)
.++..++ .+...+|||||||+|..+..+++.. ++.+++.+|. |..++.+++. ++|+++.+|.++..+ .+
T Consensus 67 ~~~~~l~-~~~g~~VLdIG~GsG~~t~~la~~~~~~~~V~~vE~~~~~~~~a~~~l~~~g~~~v~~~~gd~~~~~~~~~~ 145 (212)
T PRK13942 67 IMCELLD-LKEGMKVLEIGTGSGYHAAVVAEIVGKSGKVVTIERIPELAEKAKKTLKKLGYDNVEVIVGDGTLGYEENAP 145 (212)
T ss_pred HHHHHcC-CCCcCEEEEECCcccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCeEEEECCcccCCCcCCC
Confidence 3445555 6667899999999999998888875 4578899996 7777766542 689999999988544 33
Q ss_pred -cEEEeccccccCC
Q 024350 253 -DTIFMKVICVCYL 265 (269)
Q Consensus 253 -D~~~l~~iLhd~~ 265 (269)
|++++....+..+
T Consensus 146 fD~I~~~~~~~~~~ 159 (212)
T PRK13942 146 YDRIYVTAAGPDIP 159 (212)
T ss_pred cCEEEECCCcccch
Confidence 9999877665543
No 64
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=97.95 E-value=1.3e-05 Score=70.57 Aligned_cols=80 Identities=20% Similarity=0.168 Sum_probs=59.7
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC-cCCCC-cEE
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE-SVPKA-DTI 255 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~-~~P~g-D~~ 255 (269)
++..++ .....+|||||||+|..+..+++. +.+++.+|. |.+++.+++. -++++..+|+.+ .+++. |++
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 444444 334469999999999999999885 578999998 6777655432 368888899876 34444 999
Q ss_pred EeccccccCCC
Q 024350 256 FMKVICVCYLN 266 (269)
Q Consensus 256 ~l~~iLhd~~d 266 (269)
+...+||..++
T Consensus 189 ~~~~vl~~l~~ 199 (287)
T PRK12335 189 LSTVVLMFLNR 199 (287)
T ss_pred EEcchhhhCCH
Confidence 99999997664
No 65
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=97.95 E-value=2.2e-05 Score=72.01 Aligned_cols=66 Identities=20% Similarity=0.314 Sum_probs=55.1
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCc-CC-C-C-cEEEec
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFES-VP-K-A-DTIFMK 258 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~-~P-~-g-D~~~l~ 258 (269)
...+++|||||+|.++..+++++|+.+++.+|+ |.+++.++++ .+|+++.+|++++ .| . . |+++..
T Consensus 251 ~~~rVLDLGcGSG~IaiaLA~~~p~a~VtAVDiS~~ALe~AreNa~~~g~rV~fi~gDl~e~~l~~~~~FDLIVSN 326 (423)
T PRK14966 251 ENGRVWDLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLGARVEFAHGSWFDTDMPSEGKWDIIVSN 326 (423)
T ss_pred CCCEEEEEeChhhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCcEEEEEcchhccccccCCCccEEEEC
Confidence 346899999999999999999999999999998 8888877653 4799999999874 44 2 2 888773
No 66
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=97.94 E-value=1.3e-05 Score=76.12 Aligned_cols=64 Identities=25% Similarity=0.388 Sum_probs=55.0
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcCCC-C-cEEEe
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESVPK-A-DTIFM 257 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~P~-g-D~~~l 257 (269)
..+|+|||||+|.++..+++++|+.+++.+|+ |.+++.++++ ++|+++.+|+++..+. . |+++.
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 7788777642 5899999999987664 3 98886
No 67
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=97.94 E-value=3.2e-05 Score=65.16 Aligned_cols=81 Identities=12% Similarity=0.092 Sum_probs=61.0
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC-C-C
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP-K-A 252 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P-~-g 252 (269)
.+++.++ .....+|+|||||+|.++..+++..+ +.+++.+|+ |..++.+++. ++++++.+|..+..+ . .
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 3445555 55668999999999999999999865 567899996 7888776542 679999999987444 2 3
Q ss_pred -cEEEeccccccC
Q 024350 253 -DTIFMKVICVCY 264 (269)
Q Consensus 253 -D~~~l~~iLhd~ 264 (269)
|++++....+..
T Consensus 147 fD~Ii~~~~~~~~ 159 (215)
T TIGR00080 147 YDRIYVTAAGPKI 159 (215)
T ss_pred CCEEEEcCCcccc
Confidence 999887655443
No 68
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=97.94 E-value=1.9e-05 Score=74.43 Aligned_cols=84 Identities=20% Similarity=0.306 Sum_probs=64.1
Q ss_pred HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC---cCCC-
Q 024350 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE---SVPK- 251 (269)
Q Consensus 181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~---~~P~- 251 (269)
.+.+++.++ ..+..+++|||||+|.++..+++.+. +++.+|. |..++.++. .++++++.+|+.+ ++|.
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 345556555 44557999999999999999998864 6789996 677765432 3689999999964 4554
Q ss_pred C-cEEEeccccccCCCC
Q 024350 252 A-DTIFMKVICVCYLNS 267 (269)
Q Consensus 252 g-D~~~l~~iLhd~~d~ 267 (269)
. |+++...+||.++|+
T Consensus 103 ~fD~I~~~~~l~~l~~~ 119 (475)
T PLN02336 103 SVDLIFSNWLLMYLSDK 119 (475)
T ss_pred CEEEEehhhhHHhCCHH
Confidence 3 999999999998874
No 69
>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=97.92 E-value=2.9e-05 Score=63.48 Aligned_cols=72 Identities=21% Similarity=0.285 Sum_probs=57.2
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCC-CcEEEeccccccCC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPK-ADTIFMKVICVCYL 265 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~-gD~~~l~~iLhd~~ 265 (269)
...+|+|+|||+|.++..+.+..+ +++.+|+ |..++.++.+ -+++++.+|+++..+. -|+++..-.+|..+
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 346899999999999999999887 7899997 7777766542 4688899999874443 49999988777655
Q ss_pred C
Q 024350 266 N 266 (269)
Q Consensus 266 d 266 (269)
+
T Consensus 97 ~ 97 (179)
T TIGR00537 97 D 97 (179)
T ss_pred c
Confidence 4
No 70
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=97.92 E-value=3e-05 Score=62.79 Aligned_cols=76 Identities=12% Similarity=0.258 Sum_probs=56.1
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCCC--cE
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPKA--DT 254 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~g--D~ 254 (269)
.+++.++ +.+..+++|||||.|.++..++++ ..+++.+|. +..++.+++ .++++++.+|+.+ +.+.. |.
T Consensus 4 ~i~~~~~-~~~~~~vLEiG~G~G~lt~~l~~~--~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~~~d~ 80 (169)
T smart00650 4 KIVRAAN-LRPGDTVLEIGPGKGALTEELLER--AARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKLQPYK 80 (169)
T ss_pred HHHHhcC-CCCcCEEEEECCCccHHHHHHHhc--CCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCccccCCCE
Confidence 4556666 666679999999999999999998 567899997 456655543 3689999999998 55543 65
Q ss_pred EEeccccc
Q 024350 255 IFMKVICV 262 (269)
Q Consensus 255 ~~l~~iLh 262 (269)
+ +++..+
T Consensus 81 v-i~n~Py 87 (169)
T smart00650 81 V-VGNLPY 87 (169)
T ss_pred E-EECCCc
Confidence 5 444443
No 71
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=97.92 E-value=5.1e-05 Score=67.60 Aligned_cols=82 Identities=15% Similarity=0.059 Sum_probs=58.5
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhC-------CCCCCceEEecccCC-cCCCC-c
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNA-------PSYPGIDHVGGDLFE-SVPKA-D 253 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a-------~~~~ri~~~~gD~~~-~~P~g-D 253 (269)
++..+. ..+..+|+|||||+|.++..++...+. +++++|. +..+..+ ....++.+...|+-+ +.+.. |
T Consensus 113 ~l~~l~-~~~g~~VLDvGCG~G~~~~~~~~~g~~-~v~GiDpS~~ml~q~~~~~~~~~~~~~v~~~~~~ie~lp~~~~FD 190 (314)
T TIGR00452 113 VLPHLS-PLKGRTILDVGCGSGYHMWRMLGHGAK-SLVGIDPTVLFLCQFEAVRKLLDNDKRAILEPLGIEQLHELYAFD 190 (314)
T ss_pred HHHhcC-CCCCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHHhccCCCeEEEECCHHHCCCCCCcC
Confidence 444443 234479999999999999999988775 6899996 4343321 123678888888754 22234 9
Q ss_pred EEEeccccccCCCC
Q 024350 254 TIFMKVICVCYLNS 267 (269)
Q Consensus 254 ~~~l~~iLhd~~d~ 267 (269)
+++...+||.+++.
T Consensus 191 ~V~s~gvL~H~~dp 204 (314)
T TIGR00452 191 TVFSMGVLYHRKSP 204 (314)
T ss_pred EEEEcchhhccCCH
Confidence 99999999988764
No 72
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=97.89 E-value=1.8e-05 Score=70.52 Aligned_cols=71 Identities=15% Similarity=0.091 Sum_probs=56.1
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----------CCceEEecccCCcCCCC-cEEEeccc
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----------PGIDHVGGDLFESVPKA-DTIFMKVI 260 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----------~ri~~~~gD~~~~~P~g-D~~~l~~i 260 (269)
..+|||||||+|.++..+++. +.+++++|+ |.+++.+++. .++++..+|+.+ ++.. |++++..+
T Consensus 145 ~~~VLDlGcGtG~~a~~la~~--g~~V~gvD~S~~ml~~A~~~~~~~~~~~~~~~~~~f~~~Dl~~-l~~~fD~Vv~~~v 221 (315)
T PLN02585 145 GVTVCDAGCGTGSLAIPLALE--GAIVSASDISAAMVAEAERRAKEALAALPPEVLPKFEANDLES-LSGKYDTVTCLDV 221 (315)
T ss_pred CCEEEEecCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcccccccccceEEEEcchhh-cCCCcCEEEEcCE
Confidence 469999999999999999986 568999997 6677665432 357888888743 3433 99999999
Q ss_pred cccCCCC
Q 024350 261 CVCYLNS 267 (269)
Q Consensus 261 Lhd~~d~ 267 (269)
||+++++
T Consensus 222 L~H~p~~ 228 (315)
T PLN02585 222 LIHYPQD 228 (315)
T ss_pred EEecCHH
Confidence 9888875
No 73
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=97.88 E-value=2.2e-05 Score=65.60 Aligned_cols=67 Identities=21% Similarity=0.312 Sum_probs=53.7
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCC--c--CCC-C-cEEEecc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFE--S--VPK-A-DTIFMKV 259 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~--~--~P~-g-D~~~l~~ 259 (269)
+..+|+|||||+|.++..+++.+|+.+++.+|. |..++.+++ .++++++.+|+.+ + ++. . |++++..
T Consensus 40 ~~~~VLDiGcGtG~~~~~la~~~p~~~v~gVD~s~~~i~~a~~~~~~~~~~~v~~~~~d~~~~l~~~~~~~~~D~V~~~~ 119 (202)
T PRK00121 40 DAPIHLEIGFGKGEFLVEMAKANPDINFIGIEVHEPGVGKALKKIEEEGLTNLRLLCGDAVEVLLDMFPDGSLDRIYLNF 119 (202)
T ss_pred CCCeEEEEccCCCHHHHHHHHHCCCccEEEEEechHHHHHHHHHHHHcCCCCEEEEecCHHHHHHHHcCccccceEEEEC
Confidence 457999999999999999999999999999997 777776653 2689999999832 3 443 3 8887643
No 74
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=97.87 E-value=5.2e-05 Score=66.08 Aligned_cols=66 Identities=23% Similarity=0.354 Sum_probs=54.7
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCCC-C-cEEEe
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVPK-A-DTIFM 257 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P~-g-D~~~l 257 (269)
.+..+|+|+|||+|..+..+++.+|+.+++..|+ |..++.+++ ..+++++.+|++++.+. . |+++.
T Consensus 107 ~~~~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~fD~Iv~ 181 (275)
T PRK09328 107 KEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAKHGLGARVEFLQGDWFEPLPGGRFDLIVS 181 (275)
T ss_pred cCCCEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhCCCCcEEEEEccccCcCCCCceeEEEE
Confidence 3557899999999999999999999999999997 666665553 26899999999987663 3 98876
No 75
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=97.86 E-value=5e-05 Score=66.37 Aligned_cols=65 Identities=22% Similarity=0.325 Sum_probs=53.1
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCC---eEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCCC--cEEEe
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHI---KGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPKA--DTIFM 257 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l---~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~g--D~~~l 257 (269)
...+|+|||||+|.++..+++.+|.. +++++|+ |.+++.+++. ++++++.+|..+ +++.+ |+++.
T Consensus 85 ~~~~vLDiGcG~G~~~~~l~~~~~~~~~~~v~giD~s~~~l~~A~~~~~~~~~~~~d~~~lp~~~~sfD~I~~ 157 (272)
T PRK11088 85 KATALLDIGCGEGYYTHALADALPEITTMQLFGLDISKVAIKYAAKRYPQVTFCVASSHRLPFADQSLDAIIR 157 (272)
T ss_pred CCCeEEEECCcCCHHHHHHHHhcccccCCeEEEECCCHHHHHHHHHhCCCCeEEEeecccCCCcCCceeEEEE
Confidence 44689999999999999999998854 6799997 7788777654 789999999887 66643 88874
No 76
>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=97.82 E-value=1.9e-05 Score=59.57 Aligned_cols=68 Identities=18% Similarity=0.204 Sum_probs=53.7
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-c--CCC-C-cEEEecccc
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-S--VPK-A-DTIFMKVIC 261 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~--~P~-g-D~~~l~~iL 261 (269)
.+|+|+|||+|.++..+++.. ..+++.+|+ |..++.++. .+|++++.+|+++ . .+. . |++++.--.
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 489999999999999999999 889999998 677766653 2789999999988 3 443 3 999887655
Q ss_pred cc
Q 024350 262 VC 263 (269)
Q Consensus 262 hd 263 (269)
+.
T Consensus 81 ~~ 82 (117)
T PF13659_consen 81 GP 82 (117)
T ss_dssp TS
T ss_pred cc
Confidence 54
No 77
>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=97.82 E-value=2.6e-05 Score=69.22 Aligned_cols=76 Identities=14% Similarity=0.267 Sum_probs=57.5
Q ss_pred CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-----CC--CceEEecccCCc--CCC-----C-cEE
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-----YP--GIDHVGGDLFES--VPK-----A-DTI 255 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-----~~--ri~~~~gD~~~~--~P~-----g-D~~ 255 (269)
...+|||+|||+|..+..|+++.+ ..+.+.+|+ +++++.+.+ .+ +|.++.+||.+. +|. . .++
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 346899999999999999999998 688999998 566655543 23 466788999873 332 2 467
Q ss_pred EeccccccCCCCC
Q 024350 256 FMKVICVCYLNSL 268 (269)
Q Consensus 256 ~l~~iLhd~~d~~ 268 (269)
++...+|++++++
T Consensus 143 ~~gs~~~~~~~~e 155 (301)
T TIGR03438 143 FPGSTIGNFTPEE 155 (301)
T ss_pred EecccccCCCHHH
Confidence 7778899887654
No 78
>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=97.81 E-value=8.9e-05 Score=58.76 Aligned_cols=69 Identities=17% Similarity=0.227 Sum_probs=49.2
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCC-cCCC-C-cEEEeccccccCCC
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLN 266 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d 266 (269)
....+|||||||.|.++..+.+... +++++|. |..++. ..+.....+.-. +.|. . |++++.++||..+|
T Consensus 21 ~~~~~vLDiGcG~G~~~~~l~~~~~--~~~g~D~~~~~~~~----~~~~~~~~~~~~~~~~~~~fD~i~~~~~l~~~~d 93 (161)
T PF13489_consen 21 KPGKRVLDIGCGTGSFLRALAKRGF--EVTGVDISPQMIEK----RNVVFDNFDAQDPPFPDGSFDLIICNDVLEHLPD 93 (161)
T ss_dssp TTTSEEEEESSTTSHHHHHHHHTTS--EEEEEESSHHHHHH----TTSEEEEEECHTHHCHSSSEEEEEEESSGGGSSH
T ss_pred CCCCEEEEEcCCCCHHHHHHHHhCC--EEEEEECCHHHHhh----hhhhhhhhhhhhhhccccchhhHhhHHHHhhccc
Confidence 4568999999999999999976644 8999997 666665 222222222223 2343 3 99999999999875
No 79
>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=97.81 E-value=7.1e-05 Score=64.71 Aligned_cols=65 Identities=22% Similarity=0.258 Sum_probs=53.3
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCCcCC----CC-cEEEec
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFESVP----KA-DTIFMK 258 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~~~P----~g-D~~~l~ 258 (269)
..+++|+|||+|.++..+++.+|..+++.+|. |..++.++++ .+++++.+|+++.++ .. |+++..
T Consensus 87 ~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~~~~~~~~~D~~~~l~~~~~~~fDlVv~N 160 (251)
T TIGR03704 87 TLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLADAGGTVHEGDLYDALPTALRGRVDILAAN 160 (251)
T ss_pred CCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEeechhhcchhcCCCEeEEEEC
Confidence 45899999999999999999999999999998 8888877754 347899999987544 23 887653
No 80
>PHA03411 putative methyltransferase; Provisional
Probab=97.79 E-value=6.1e-05 Score=65.41 Aligned_cols=71 Identities=15% Similarity=0.195 Sum_probs=57.7
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-CCceEEecccCCcCC-CC-cEEEeccccccC
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFESVP-KA-DTIFMKVICVCY 264 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~~~P-~g-D~~~l~~iLhd~ 264 (269)
..+|+|+|||+|.++..++++.+..+++.+|+ |..++.+++. ++++++.+|+++... .. |+++..-=++..
T Consensus 65 ~grVLDLGcGsGilsl~la~r~~~~~V~gVDisp~al~~Ar~n~~~v~~v~~D~~e~~~~~kFDlIIsNPPF~~l 139 (279)
T PHA03411 65 TGKVLDLCAGIGRLSFCMLHRCKPEKIVCVELNPEFARIGKRLLPEAEWITSDVFEFESNEKFDVVISNPPFGKI 139 (279)
T ss_pred CCeEEEcCCCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCcCCEEEECchhhhcccCCCcEEEEcCCcccc
Confidence 46899999999999999999988889999997 7888777654 789999999998433 33 999886555543
No 81
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=97.77 E-value=0.00011 Score=64.40 Aligned_cols=80 Identities=21% Similarity=0.225 Sum_probs=61.7
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-Cc
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-AD 253 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-gD 253 (269)
+-+++.++ .....+|+|+|||.|.+++.+++.+|+.+.+.+|. ...++.++++ ++..+...|.+++... -|
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 34567777 44445999999999999999999999999999997 5667777663 4446788999987664 48
Q ss_pred EEEeccccc
Q 024350 254 TIFMKVICV 262 (269)
Q Consensus 254 ~~~l~~iLh 262 (269)
.|+..==+|
T Consensus 227 ~IisNPPfh 235 (300)
T COG2813 227 LIISNPPFH 235 (300)
T ss_pred EEEeCCCcc
Confidence 887765444
No 82
>PRK07402 precorrin-6B methylase; Provisional
Probab=97.77 E-value=4.2e-05 Score=63.47 Aligned_cols=63 Identities=17% Similarity=0.177 Sum_probs=51.4
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE 247 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~ 247 (269)
++..++ .....+|+|||||+|.++..+++..|+.+++.+|+ |..++.++++ ++|+++.+|..+
T Consensus 32 l~~~l~-~~~~~~VLDiG~G~G~~~~~la~~~~~~~V~~vD~s~~~~~~a~~n~~~~~~~~v~~~~~d~~~ 101 (196)
T PRK07402 32 LISQLR-LEPDSVLWDIGAGTGTIPVEAGLLCPKGRVIAIERDEEVVNLIRRNCDRFGVKNVEVIEGSAPE 101 (196)
T ss_pred HHHhcC-CCCCCEEEEeCCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCeEEEECchHH
Confidence 345555 55567999999999999999999999999999998 8888766542 579999998865
No 83
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=97.76 E-value=3.7e-05 Score=65.71 Aligned_cols=68 Identities=19% Similarity=0.217 Sum_probs=54.8
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCc---CCCC--cEEEe
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFES---VPKA--DTIFM 257 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~---~P~g--D~~~l 257 (269)
.+...+|+|+|+|.|..+..+++++++.+.+++|+ +..++.|+++ +||+++..|+-+- .+.. |++++
T Consensus 42 ~~~~~~IlDlGaG~G~l~L~la~r~~~a~I~~VEiq~~~a~~A~~nv~ln~l~~ri~v~~~Di~~~~~~~~~~~fD~Ii~ 121 (248)
T COG4123 42 VPKKGRILDLGAGNGALGLLLAQRTEKAKIVGVEIQEEAAEMAQRNVALNPLEERIQVIEADIKEFLKALVFASFDLIIC 121 (248)
T ss_pred cccCCeEEEecCCcCHHHHHHhccCCCCcEEEEEeCHHHHHHHHHHHHhCcchhceeEehhhHHHhhhcccccccCEEEe
Confidence 34579999999999999999999999999999998 5666666542 8999999999872 2223 77776
Q ss_pred c
Q 024350 258 K 258 (269)
Q Consensus 258 ~ 258 (269)
.
T Consensus 122 N 122 (248)
T COG4123 122 N 122 (248)
T ss_pred C
Confidence 4
No 84
>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].
Probab=97.74 E-value=3.9e-05 Score=62.89 Aligned_cols=71 Identities=20% Similarity=0.287 Sum_probs=53.2
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCc---CCC-C-cEEEeccccccC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFES---VPK-A-DTIFMKVICVCY 264 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~---~P~-g-D~~~l~~iLhd~ 264 (269)
...+|+|+|||.|.++..|.+. .++++.++|+.+.--.+.....++++.+|+-+. +|. . |.++|++.|-..
T Consensus 13 pgsrVLDLGCGdG~LL~~L~~~-k~v~g~GvEid~~~v~~cv~rGv~Viq~Dld~gL~~f~d~sFD~VIlsqtLQ~~ 88 (193)
T PF07021_consen 13 PGSRVLDLGCGDGELLAYLKDE-KQVDGYGVEIDPDNVAACVARGVSVIQGDLDEGLADFPDQSFDYVILSQTLQAV 88 (193)
T ss_pred CCCEEEecCCCchHHHHHHHHh-cCCeEEEEecCHHHHHHHHHcCCCEEECCHHHhHhhCCCCCccEEehHhHHHhH
Confidence 4589999999999999887775 699999998733321112236788999999873 664 4 999999988644
No 85
>PLN02366 spermidine synthase
Probab=97.72 E-value=5.8e-05 Score=67.11 Aligned_cols=65 Identities=28% Similarity=0.354 Sum_probs=50.9
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC----------CCCceEEecccCC---cCCC-C-cE
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFE---SVPK-A-DT 254 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~---~~P~-g-D~ 254 (269)
+++++||+||||.|..+.++++. |+ .+++++|+ |.|++.+++ .+|++++.+|.++ ..|+ . |+
T Consensus 90 ~~pkrVLiIGgG~G~~~rellk~-~~v~~V~~VEiD~~Vi~~ar~~f~~~~~~~~dpRv~vi~~Da~~~l~~~~~~~yDv 168 (308)
T PLN02366 90 PNPKKVLVVGGGDGGVLREIARH-SSVEQIDICEIDKMVIDVSKKFFPDLAVGFDDPRVNLHIGDGVEFLKNAPEGTYDA 168 (308)
T ss_pred CCCCeEEEEcCCccHHHHHHHhC-CCCCeEEEEECCHHHHHHHHHhhhhhccccCCCceEEEEChHHHHHhhccCCCCCE
Confidence 46789999999999999999865 65 56899998 557776654 2699999999764 3443 3 99
Q ss_pred EEe
Q 024350 255 IFM 257 (269)
Q Consensus 255 ~~l 257 (269)
|++
T Consensus 169 Ii~ 171 (308)
T PLN02366 169 IIV 171 (308)
T ss_pred EEE
Confidence 976
No 86
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=97.69 E-value=8.2e-05 Score=65.07 Aligned_cols=65 Identities=14% Similarity=0.268 Sum_probs=51.0
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCC-cCC
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFE-SVP 250 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~-~~P 250 (269)
.+++.++ .....+|+|||||+|.++..++++.+ +++++|. |..++.+++. ++++++.+|+.+ +.+
T Consensus 33 ~i~~~l~-~~~~~~VLEiG~G~G~lt~~L~~~~~--~v~avE~d~~~~~~~~~~~~~~~v~~i~~D~~~~~~~ 102 (272)
T PRK00274 33 KIVDAAG-PQPGDNVLEIGPGLGALTEPLLERAA--KVTAVEIDRDLAPILAETFAEDNLTIIEGDALKVDLS 102 (272)
T ss_pred HHHHhcC-CCCcCeEEEeCCCccHHHHHHHHhCC--cEEEEECCHHHHHHHHHhhccCceEEEEChhhcCCHH
Confidence 4455555 55667999999999999999999987 6788886 6777766542 689999999987 443
No 87
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=97.68 E-value=0.00014 Score=63.20 Aligned_cols=79 Identities=13% Similarity=0.224 Sum_probs=56.5
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCCCcEE
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPKADTI 255 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~gD~~ 255 (269)
..+++..+ ..+..+|+|||||.|.++..++++. .+++++|+ +..++.++. .++|+++.+|+++ ++|..|.+
T Consensus 19 ~~iv~~~~-~~~~~~VLEIG~G~G~lt~~L~~~~--~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D~~~~~~~~~d~V 95 (258)
T PRK14896 19 DRIVEYAE-DTDGDPVLEIGPGKGALTDELAKRA--KKVYAIELDPRLAEFLRDDEIAAGNVEIIEGDALKVDLPEFNKV 95 (258)
T ss_pred HHHHHhcC-CCCcCeEEEEeCccCHHHHHHHHhC--CEEEEEECCHHHHHHHHHHhccCCCEEEEEeccccCCchhceEE
Confidence 34555555 5556899999999999999999984 46888997 456655443 3789999999988 56654644
Q ss_pred EeccccccC
Q 024350 256 FMKVICVCY 264 (269)
Q Consensus 256 ~l~~iLhd~ 264 (269)
++|.-+++
T Consensus 96 -v~NlPy~i 103 (258)
T PRK14896 96 -VSNLPYQI 103 (258)
T ss_pred -EEcCCccc
Confidence 34544443
No 88
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=97.67 E-value=0.00011 Score=63.60 Aligned_cols=80 Identities=14% Similarity=0.257 Sum_probs=58.0
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----CCCceEEecccCC-cCCCCc--
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----YPGIDHVGGDLFE-SVPKAD-- 253 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~~ri~~~~gD~~~-~~P~gD-- 253 (269)
..+++..+ +.+..+|+|||||.|.++..++++.+. ++++|. +..++.++. .++++++.+|+.+ +.++.|
T Consensus 19 ~~i~~~~~-~~~~~~VLEiG~G~G~lt~~L~~~~~~--v~~iE~d~~~~~~l~~~~~~~~~v~v~~~D~~~~~~~~~d~~ 95 (253)
T TIGR00755 19 QKIVEAAN-VLEGDVVLEIGPGLGALTEPLLKRAKK--VTAIEIDPRLAEILRKLLSLYERLEVIEGDALKVDLPDFPKQ 95 (253)
T ss_pred HHHHHhcC-CCCcCEEEEeCCCCCHHHHHHHHhCCc--EEEEECCHHHHHHHHHHhCcCCcEEEEECchhcCChhHcCCc
Confidence 34555555 666789999999999999999999975 677786 555554433 3789999999988 555323
Q ss_pred EEEeccccccC
Q 024350 254 TIFMKVICVCY 264 (269)
Q Consensus 254 ~~~l~~iLhd~ 264 (269)
.++++|+-+++
T Consensus 96 ~~vvsNlPy~i 106 (253)
T TIGR00755 96 LKVVSNLPYNI 106 (253)
T ss_pred ceEEEcCChhh
Confidence 56666665444
No 89
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=97.64 E-value=0.00033 Score=58.85 Aligned_cols=75 Identities=20% Similarity=0.263 Sum_probs=54.6
Q ss_pred HHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeehhHHHHhCCCCCCceEEecccCCc---------CCC-C-
Q 024350 185 LESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDLLYVIKNAPSYPGIDHVGGDLFES---------VPK-A- 252 (269)
Q Consensus 185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~---------~P~-g- 252 (269)
.+.|..++...+|||||||+|.++..++++. |..+++.+|+-++ ...++|+++.+|+.++ .+. .
T Consensus 43 ~~~~~~~~~~~~VLDlG~GtG~~t~~l~~~~~~~~~V~aVDi~~~----~~~~~v~~i~~D~~~~~~~~~i~~~~~~~~~ 118 (209)
T PRK11188 43 QQSDKLFKPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIACDILPM----DPIVGVDFLQGDFRDELVLKALLERVGDSKV 118 (209)
T ss_pred HHHhccCCCCCEEEEEcccCCHHHHHHHHHcCCCceEEEEecccc----cCCCCcEEEecCCCChHHHHHHHHHhCCCCC
Confidence 3344423456799999999999999999987 4578999998652 2346799999999883 343 3
Q ss_pred cEEEecccccc
Q 024350 253 DTIFMKVICVC 263 (269)
Q Consensus 253 D~~~l~~iLhd 263 (269)
|+++..-..|.
T Consensus 119 D~V~S~~~~~~ 129 (209)
T PRK11188 119 QVVMSDMAPNM 129 (209)
T ss_pred CEEecCCCCcc
Confidence 98887554443
No 90
>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=97.62 E-value=0.00017 Score=60.81 Aligned_cols=74 Identities=11% Similarity=0.127 Sum_probs=56.9
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC------------------CCCCceEEecccCCcCC--
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP------------------SYPGIDHVGGDLFESVP-- 250 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~------------------~~~ri~~~~gD~~~~~P-- 250 (269)
....+++|+|||.|..+..|+++ ..++|.+|+ |..++.+. +..+|+++.+|+|+..+
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 34579999999999999999976 788999997 66666531 12479999999998332
Q ss_pred C-C-cEEEeccccccCCCC
Q 024350 251 K-A-DTIFMKVICVCYLNS 267 (269)
Q Consensus 251 ~-g-D~~~l~~iLhd~~d~ 267 (269)
. . |.++-+.++|..+.+
T Consensus 111 ~~~fD~i~D~~~~~~l~~~ 129 (213)
T TIGR03840 111 LGPVDAVYDRAALIALPEE 129 (213)
T ss_pred CCCcCEEEechhhccCCHH
Confidence 2 3 999888888876543
No 91
>PRK00811 spermidine synthase; Provisional
Probab=97.62 E-value=7.7e-05 Score=65.63 Aligned_cols=67 Identities=24% Similarity=0.326 Sum_probs=53.0
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----------CCCceEEecccCCcC--CC-C-cEE
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----------YPGIDHVGGDLFESV--PK-A-DTI 255 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----------~~ri~~~~gD~~~~~--P~-g-D~~ 255 (269)
+++++|++||||.|..+.++++..+.-+++++|+ |.+++.+++ .+|++++.+|..+-+ ++ . |+|
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 3568999999999999999997655568999998 778877654 378999999987732 33 3 999
Q ss_pred Eec
Q 024350 256 FMK 258 (269)
Q Consensus 256 ~l~ 258 (269)
++-
T Consensus 155 i~D 157 (283)
T PRK00811 155 IVD 157 (283)
T ss_pred EEC
Confidence 874
No 92
>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=97.60 E-value=0.00016 Score=51.85 Aligned_cols=68 Identities=21% Similarity=0.217 Sum_probs=54.0
Q ss_pred EEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC------CCCCceEEecccCCcC--C-CC-cEEEeccccccC
Q 024350 196 KLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP------SYPGIDHVGGDLFESV--P-KA-DTIFMKVICVCY 264 (269)
Q Consensus 196 ~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~------~~~ri~~~~gD~~~~~--P-~g-D~~~l~~iLhd~ 264 (269)
+++|||||.|..+..+++ .+..+.+++|+ +..+..++ ...++++..+|+.+.. + .. |++++...++.+
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 77889999997 45554443 1378999999999843 2 34 999999998863
No 93
>PRK01581 speE spermidine synthase; Validated
Probab=97.56 E-value=0.00013 Score=65.72 Aligned_cols=67 Identities=21% Similarity=0.172 Sum_probs=53.7
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------------CCCceEEecccCCcCC---CC-c
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------------YPGIDHVGGDLFESVP---KA-D 253 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------------~~ri~~~~gD~~~~~P---~g-D 253 (269)
.++++|++||||.|..++++++..|..+.+++|+ |.|++.|+. .+|++++.+|.++-++ .. |
T Consensus 149 ~~PkrVLIIGgGdG~tlrelLk~~~v~~It~VEIDpeVIelAr~~~~L~~~~~~~~~DpRV~vvi~Da~~fL~~~~~~YD 228 (374)
T PRK01581 149 IDPKRVLILGGGDGLALREVLKYETVLHVDLVDLDGSMINMARNVPELVSLNKSAFFDNRVNVHVCDAKEFLSSPSSLYD 228 (374)
T ss_pred CCCCEEEEECCCHHHHHHHHHhcCCCCeEEEEeCCHHHHHHHHhccccchhccccCCCCceEEEECcHHHHHHhcCCCcc
Confidence 4678999999999999999997655678999998 788887763 2799999999987332 23 9
Q ss_pred EEEec
Q 024350 254 TIFMK 258 (269)
Q Consensus 254 ~~~l~ 258 (269)
+|++-
T Consensus 229 VIIvD 233 (374)
T PRK01581 229 VIIID 233 (374)
T ss_pred EEEEc
Confidence 98875
No 94
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=97.53 E-value=0.00036 Score=58.60 Aligned_cols=78 Identities=14% Similarity=0.171 Sum_probs=56.9
Q ss_pred HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C--cE
Q 024350 185 LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A--DT 254 (269)
Q Consensus 185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g--D~ 254 (269)
+..++ .....+|+|||||+|..+..+++... +++.+|. |..++.+++. ..|+++.+|+++..|. + |+
T Consensus 71 ~~~l~-~~~~~~VLeiG~GsG~~t~~la~~~~--~v~~vd~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~fD~ 147 (212)
T PRK00312 71 TELLE-LKPGDRVLEIGTGSGYQAAVLAHLVR--RVFSVERIKTLQWEAKRRLKQLGLHNVSVRHGDGWKGWPAYAPFDR 147 (212)
T ss_pred HHhcC-CCCCCEEEEECCCccHHHHHHHHHhC--EEEEEeCCHHHHHHHHHHHHHCCCCceEEEECCcccCCCcCCCcCE
Confidence 34444 55668999999999999887777654 6788885 6666665542 5699999999886553 3 99
Q ss_pred EEeccccccCC
Q 024350 255 IFMKVICVCYL 265 (269)
Q Consensus 255 ~~l~~iLhd~~ 265 (269)
+++...++..+
T Consensus 148 I~~~~~~~~~~ 158 (212)
T PRK00312 148 ILVTAAAPEIP 158 (212)
T ss_pred EEEccCchhhh
Confidence 99887666543
No 95
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=97.52 E-value=0.00033 Score=64.24 Aligned_cols=81 Identities=12% Similarity=0.096 Sum_probs=60.5
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CCceEEecccCCcCCCC-cEEEe
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PGIDHVGGDLFESVPKA-DTIFM 257 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~ri~~~~gD~~~~~P~g-D~~~l 257 (269)
.+++.++ .+...+|||||||.|.++..+++++ +.+++++|+ |..++.+++. ..+++...|+.+ .+.. |+++.
T Consensus 158 ~l~~~l~-l~~g~rVLDIGcG~G~~a~~la~~~-g~~V~giDlS~~~l~~A~~~~~~l~v~~~~~D~~~-l~~~fD~Ivs 234 (383)
T PRK11705 158 LICRKLQ-LKPGMRVLDIGCGWGGLARYAAEHY-GVSVVGVTISAEQQKLAQERCAGLPVEIRLQDYRD-LNGQFDRIVS 234 (383)
T ss_pred HHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHC-CCEEEEEeCCHHHHHHHHHHhccCeEEEEECchhh-cCCCCCEEEE
Confidence 4555565 5666899999999999999998876 678999997 7777766542 347888888754 3433 99988
Q ss_pred ccccccCCC
Q 024350 258 KVICVCYLN 266 (269)
Q Consensus 258 ~~iLhd~~d 266 (269)
..+++..++
T Consensus 235 ~~~~ehvg~ 243 (383)
T PRK11705 235 VGMFEHVGP 243 (383)
T ss_pred eCchhhCCh
Confidence 877776544
No 96
>COG2227 UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]
Probab=97.51 E-value=5.9e-05 Score=63.75 Aligned_cols=73 Identities=16% Similarity=0.046 Sum_probs=56.5
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---CC--ceEEecccCC-cCC-C-CcEEEeccccccC
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY---PG--IDHVGGDLFE-SVP-K-ADTIFMKVICVCY 264 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~---~r--i~~~~gD~~~-~~P-~-gD~~~l~~iLhd~ 264 (269)
..+|||||||-|.++..+++.- .+++..|. ++.|+.|+.+ .. |++.+....+ ... + -|+|+.-.||++.
T Consensus 60 g~~vLDvGCGgG~Lse~mAr~G--a~VtgiD~se~~I~~Ak~ha~e~gv~i~y~~~~~edl~~~~~~FDvV~cmEVlEHv 137 (243)
T COG2227 60 GLRVLDVGCGGGILSEPLARLG--ASVTGIDASEKPIEVAKLHALESGVNIDYRQATVEDLASAGGQFDVVTCMEVLEHV 137 (243)
T ss_pred CCeEEEecCCccHhhHHHHHCC--CeeEEecCChHHHHHHHHhhhhccccccchhhhHHHHHhcCCCccEEEEhhHHHcc
Confidence 3799999999999999999986 88899996 7888888764 22 3355444444 222 2 3999999999999
Q ss_pred CCCC
Q 024350 265 LNSL 268 (269)
Q Consensus 265 ~d~~ 268 (269)
+|++
T Consensus 138 ~dp~ 141 (243)
T COG2227 138 PDPE 141 (243)
T ss_pred CCHH
Confidence 9976
No 97
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=97.48 E-value=0.0004 Score=60.53 Aligned_cols=65 Identities=17% Similarity=0.233 Sum_probs=52.3
Q ss_pred HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------C-CCceEEecccCC
Q 024350 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------Y-PGIDHVGGDLFE 247 (269)
Q Consensus 181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------~-~ri~~~~gD~~~ 247 (269)
...+++.+. ++...+|||||||-|.+++-.+++| +.+++++++ ++..+.+++ . ++|++.-.|+-+
T Consensus 61 ~~~~~~kl~-L~~G~~lLDiGCGWG~l~~~aA~~y-~v~V~GvTlS~~Q~~~~~~r~~~~gl~~~v~v~l~d~rd 133 (283)
T COG2230 61 LDLILEKLG-LKPGMTLLDIGCGWGGLAIYAAEEY-GVTVVGVTLSEEQLAYAEKRIAARGLEDNVEVRLQDYRD 133 (283)
T ss_pred HHHHHHhcC-CCCCCEEEEeCCChhHHHHHHHHHc-CCEEEEeeCCHHHHHHHHHHHHHcCCCcccEEEeccccc
Confidence 356778887 8888999999999999999999999 999999997 555555443 1 578887777654
No 98
>PHA03412 putative methyltransferase; Provisional
Probab=97.47 E-value=0.00032 Score=59.67 Aligned_cols=65 Identities=14% Similarity=0.162 Sum_probs=52.0
Q ss_pred ccEEEEeCCCchHHHHHHHHHC---CCCeEEEeeh-hHHHHhCCCC-CCceEEecccCC-cCCCC-cEEEec
Q 024350 194 VKKLVDVGGGLGATLNMIISKY---PHIKGINYDL-LYVIKNAPSY-PGIDHVGGDLFE-SVPKA-DTIFMK 258 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~---P~l~~vv~Dl-p~vv~~a~~~-~ri~~~~gD~~~-~~P~g-D~~~l~ 258 (269)
..+|||+|||+|.++..++++. +..+++.+|+ |..++.++.. .+++++.+|++. +.+.- |+++..
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 4699999999999999999875 4678999998 6777777765 789999999987 33333 887753
No 99
>PRK14968 putative methyltransferase; Provisional
Probab=97.46 E-value=0.00035 Score=57.06 Aligned_cols=67 Identities=21% Similarity=0.346 Sum_probs=52.7
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CC-ceEEecccCCcCCC-C-cEEEecccc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PG-IDHVGGDLFESVPK-A-DTIFMKVIC 261 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~r-i~~~~gD~~~~~P~-g-D~~~l~~iL 261 (269)
+..+++|+|||+|.++..++++ ..+++.+|+ |.+++.+++. .+ ++++.+|+++++++ . |+++...-+
T Consensus 23 ~~~~vLd~G~G~G~~~~~l~~~--~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~d~vi~n~p~ 100 (188)
T PRK14968 23 KGDRVLEVGTGSGIVAIVAAKN--GKKVVGVDINPYAVECAKCNAKLNNIRNNGVEVIRSDLFEPFRGDKFDVILFNPPY 100 (188)
T ss_pred CCCEEEEEccccCHHHHHHHhh--cceEEEEECCHHHHHHHHHHHHHcCCCCcceEEEeccccccccccCceEEEECCCc
Confidence 4578999999999999999988 678899998 6777766431 23 99999999987664 3 988876543
No 100
>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=97.40 E-value=0.00027 Score=58.73 Aligned_cols=54 Identities=20% Similarity=0.310 Sum_probs=43.0
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC------CCCCceEEecccCC
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP------SYPGIDHVGGDLFE 247 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~------~~~ri~~~~gD~~~ 247 (269)
...+||||||.|.++.++++++|+..++++|. ...+..+. ..+++.++.+|...
T Consensus 18 ~~l~lEIG~G~G~~l~~~A~~~Pd~n~iGiE~~~~~v~~a~~~~~~~~l~Nv~~~~~da~~ 78 (195)
T PF02390_consen 18 NPLILEIGCGKGEFLIELAKRNPDINFIGIEIRKKRVAKALRKAEKRGLKNVRFLRGDARE 78 (195)
T ss_dssp CEEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHHTTSSEEEEES-CTT
T ss_pred CCeEEEecCCCCHHHHHHHHHCCCCCEEEEecchHHHHHHHHHHHhhcccceEEEEccHHH
Confidence 35999999999999999999999999999996 44444332 24899999999876
No 101
>PRK14967 putative methyltransferase; Provisional
Probab=97.39 E-value=0.00047 Score=58.42 Aligned_cols=67 Identities=16% Similarity=0.155 Sum_probs=50.9
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCC-C-cEEEec
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPK-A-DTIFMK 258 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~-g-D~~~l~ 258 (269)
.....+|+|+|||+|.++..+++. +..+++++|+ |..++.++++ -+++++.+|+++..+. . |++++.
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 444579999999999999998876 3347899997 6667655442 3588999999886664 4 998875
No 102
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=97.37 E-value=0.00052 Score=58.04 Aligned_cols=73 Identities=11% Similarity=0.113 Sum_probs=56.4
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC------------------CCCCceEEecccCCcCCC-
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP------------------SYPGIDHVGGDLFESVPK- 251 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~------------------~~~ri~~~~gD~~~~~P~- 251 (269)
....+|+|+|||.|..+..|+++ +.++|.+|+ |..++.+. ...+|++..+|+|+..+.
T Consensus 36 ~~~~rvL~~gCG~G~da~~LA~~--G~~V~avD~s~~Ai~~~~~~~~l~~~~~~~~~~~~~~~~~v~~~~~D~~~l~~~~ 113 (218)
T PRK13255 36 PAGSRVLVPLCGKSLDMLWLAEQ--GHEVLGVELSELAVEQFFAENGLTPQTRQSGEFEHYQAGEITIYCGDFFALTAAD 113 (218)
T ss_pred CCCCeEEEeCCCChHhHHHHHhC--CCeEEEEccCHHHHHHHHHHcCCCccccccccccccccCceEEEECcccCCCccc
Confidence 34579999999999999999975 788999997 56666431 126799999999985332
Q ss_pred -C--cEEEeccccccCCC
Q 024350 252 -A--DTIFMKVICVCYLN 266 (269)
Q Consensus 252 -g--D~~~l~~iLhd~~d 266 (269)
+ |+++=+.++|..+.
T Consensus 114 ~~~fd~v~D~~~~~~l~~ 131 (218)
T PRK13255 114 LADVDAVYDRAALIALPE 131 (218)
T ss_pred CCCeeEEEehHhHhhCCH
Confidence 3 89998888887664
No 103
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.36 E-value=0.00044 Score=61.85 Aligned_cols=79 Identities=19% Similarity=0.253 Sum_probs=58.0
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC------CCCceEEecccCCcCCC--C-
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS------YPGIDHVGGDLFESVPK--A- 252 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~------~~ri~~~~gD~~~~~P~--g- 252 (269)
+++..+ .++..+|+|||||+|.++..+++..+. -+++.+|. |+.++.+++ .++|+++.+|..+..+. .
T Consensus 72 ll~~L~-i~~g~~VLDIG~GtG~~a~~LA~~~~~~g~VvgVDis~~~l~~Ar~~l~~~g~~nV~~i~gD~~~~~~~~~~f 150 (322)
T PRK13943 72 FMEWVG-LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFVCGDGYYGVPEFAPY 150 (322)
T ss_pred HHHhcC-CCCCCEEEEEeCCccHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHHHHcCCCcEEEEeCChhhcccccCCc
Confidence 344444 555679999999999999999998874 46788896 677766553 26799999998775442 3
Q ss_pred cEEEecccccc
Q 024350 253 DTIFMKVICVC 263 (269)
Q Consensus 253 D~~~l~~iLhd 263 (269)
|++++..-+++
T Consensus 151 D~Ii~~~g~~~ 161 (322)
T PRK13943 151 DVIFVTVGVDE 161 (322)
T ss_pred cEEEECCchHH
Confidence 99888655443
No 104
>PRK04266 fibrillarin; Provisional
Probab=97.35 E-value=0.00093 Score=56.82 Aligned_cols=68 Identities=15% Similarity=0.157 Sum_probs=51.7
Q ss_pred ccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHH----hCCCCCCceEEecccCCc-----CCCC-cEEE
Q 024350 188 YKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIK----NAPSYPGIDHVGGDLFES-----VPKA-DTIF 256 (269)
Q Consensus 188 ~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~----~a~~~~ri~~~~gD~~~~-----~P~g-D~~~ 256 (269)
++ .+...+|+|+|||+|.++..+++..+.-+++.+|+ |..++ .+++.++|.++.+|...+ +++. |+++
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 45 55667999999999999999999998667899997 65554 444457899999998653 2333 7776
No 105
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=97.33 E-value=0.00062 Score=57.86 Aligned_cols=72 Identities=18% Similarity=0.016 Sum_probs=53.4
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC-c-CC-CC-cEEEeccccc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE-S-VP-KA-DTIFMKVICV 262 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~-~-~P-~g-D~~~l~~iLh 262 (269)
...+|+|||||.|.++..+++. ..++++.|. +..++.+++ ..+++++..|+.+ + .+ .. |++++.++++
T Consensus 48 ~~~~vLdiG~G~G~~~~~l~~~--~~~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~Ii~~~~l~ 125 (233)
T PRK05134 48 FGKRVLDVGCGGGILSESMARL--GADVTGIDASEENIEVARLHALESGLKIDYRQTTAEELAAEHPGQFDVVTCMEMLE 125 (233)
T ss_pred CCCeEEEeCCCCCHHHHHHHHc--CCeEEEEcCCHHHHHHHHHHHHHcCCceEEEecCHHHhhhhcCCCccEEEEhhHhh
Confidence 4578999999999999988876 467899997 455555543 2457788887765 2 23 33 9999999999
Q ss_pred cCCC
Q 024350 263 CYLN 266 (269)
Q Consensus 263 d~~d 266 (269)
..++
T Consensus 126 ~~~~ 129 (233)
T PRK05134 126 HVPD 129 (233)
T ss_pred ccCC
Confidence 8765
No 106
>PRK03612 spermidine synthase; Provisional
Probab=97.33 E-value=0.00039 Score=66.36 Aligned_cols=66 Identities=24% Similarity=0.412 Sum_probs=53.7
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCC-------------CCCceEEecccCCc---CCCC-
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPS-------------YPGIDHVGGDLFES---VPKA- 252 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~-------------~~ri~~~~gD~~~~---~P~g- 252 (269)
+++++|+|||||.|..+.++++ +|. -+++++|+ |++++.+++ .+|++++.+|.++- .++.
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 4578999999999999999996 566 68999998 889988765 16899999998872 3344
Q ss_pred cEEEec
Q 024350 253 DTIFMK 258 (269)
Q Consensus 253 D~~~l~ 258 (269)
|+|++.
T Consensus 375 DvIi~D 380 (521)
T PRK03612 375 DVIIVD 380 (521)
T ss_pred CEEEEe
Confidence 998764
No 107
>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=97.32 E-value=0.00063 Score=56.24 Aligned_cols=82 Identities=21% Similarity=0.238 Sum_probs=55.7
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-----CCCceEEecccCC-cCCCC-cE
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-----YPGIDHVGGDLFE-SVPKA-DT 254 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-----~~ri~~~~gD~~~-~~P~g-D~ 254 (269)
.+++.++ .-+..++||||||.|..+.-|+++ +..++.+|. +..++.+.. .-.|+....|+.+ .+|+. |+
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 3556666 445789999999999999999998 778899997 444443322 2238899999988 56655 99
Q ss_pred EEeccccccCCCC
Q 024350 255 IFMKVICVCYLNS 267 (269)
Q Consensus 255 ~~l~~iLhd~~d~ 267 (269)
|+..-|++..+.+
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 8877777766543
No 108
>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=97.31 E-value=0.00036 Score=61.08 Aligned_cols=77 Identities=16% Similarity=0.170 Sum_probs=49.7
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCCC-
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPKA- 252 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~g- 252 (269)
..+++..+ ++...+|||||||-|.++..++++| +++++++.+ ++..+.+++ .++|++.-.|+.+ ++..
T Consensus 52 ~~~~~~~~-l~~G~~vLDiGcGwG~~~~~~a~~~-g~~v~gitlS~~Q~~~a~~~~~~~gl~~~v~v~~~D~~~-~~~~f 128 (273)
T PF02353_consen 52 DLLCEKLG-LKPGDRVLDIGCGWGGLAIYAAERY-GCHVTGITLSEEQAEYARERIREAGLEDRVEVRLQDYRD-LPGKF 128 (273)
T ss_dssp HHHHTTTT---TT-EEEEES-TTSHHHHHHHHHH---EEEEEES-HHHHHHHHHHHHCSTSSSTEEEEES-GGG----S-
T ss_pred HHHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHc-CcEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEeeccc-cCCCC
Confidence 45667776 7778999999999999999999999 899999987 444444322 2789999999865 4433
Q ss_pred cEEEecccc
Q 024350 253 DTIFMKVIC 261 (269)
Q Consensus 253 D~~~l~~iL 261 (269)
|.++---.+
T Consensus 129 D~IvSi~~~ 137 (273)
T PF02353_consen 129 DRIVSIEMF 137 (273)
T ss_dssp SEEEEESEG
T ss_pred CEEEEEech
Confidence 655443333
No 109
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=97.30 E-value=0.00073 Score=56.14 Aligned_cols=72 Identities=18% Similarity=0.144 Sum_probs=54.4
Q ss_pred HhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCC---C-C
Q 024350 186 ESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVP---K-A 252 (269)
Q Consensus 186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P---~-g 252 (269)
..++ .....+++|+|||+|.++..+++.. |..+++.+|+ |..++.+++ .++++++.+|+.+..+ . .
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 5566899999999999999998764 6789999998 777776543 2679999999876222 2 3
Q ss_pred cEEEec
Q 024350 253 DTIFMK 258 (269)
Q Consensus 253 D~~~l~ 258 (269)
|++++.
T Consensus 113 D~V~~~ 118 (198)
T PRK00377 113 DRIFIG 118 (198)
T ss_pred CEEEEC
Confidence 888873
No 110
>PLN02672 methionine S-methyltransferase
Probab=97.29 E-value=0.00052 Score=69.99 Aligned_cols=56 Identities=21% Similarity=0.196 Sum_probs=47.9
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------------------CCCceEEecccCCcCC
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------------------YPGIDHVGGDLFESVP 250 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------------------~~ri~~~~gD~~~~~P 250 (269)
.+|+|||||+|.+++.+++++|+.+++.+|+ |..++.++. .+||+++.+|+++..+
T Consensus 120 ~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~~~~~~~~l~~rV~f~~sDl~~~~~ 198 (1082)
T PLN02672 120 KTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPVYDGEGKTLLDRVEFYESDLLGYCR 198 (1082)
T ss_pred CEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCcccccccccccccccccccEEEEECchhhhcc
Confidence 5899999999999999999999999999997 777766532 1489999999998654
No 111
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=97.24 E-value=0.0011 Score=58.69 Aligned_cols=78 Identities=14% Similarity=0.254 Sum_probs=54.9
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC-cCCCCc
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE-SVPKAD 253 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~-~~P~gD 253 (269)
.+++..+ .....+|+|||||.|.+...++++.. +++.+|+ +..++.+++ .++++++.+|+.+ +.++-|
T Consensus 27 ~Iv~~~~-~~~~~~VLEIG~G~G~LT~~Ll~~~~--~V~avEiD~~li~~l~~~~~~~~~~~~v~ii~~Dal~~~~~~~d 103 (294)
T PTZ00338 27 KIVEKAA-IKPTDTVLEIGPGTGNLTEKLLQLAK--KVIAIEIDPRMVAELKKRFQNSPLASKLEVIEGDALKTEFPYFD 103 (294)
T ss_pred HHHHhcC-CCCcCEEEEecCchHHHHHHHHHhCC--cEEEEECCHHHHHHHHHHHHhcCCCCcEEEEECCHhhhcccccC
Confidence 4555555 55567999999999999999999854 5788887 555554432 3689999999987 555446
Q ss_pred EEEeccccccC
Q 024350 254 TIFMKVICVCY 264 (269)
Q Consensus 254 ~~~l~~iLhd~ 264 (269)
+++ .+.-+++
T Consensus 104 ~Vv-aNlPY~I 113 (294)
T PTZ00338 104 VCV-ANVPYQI 113 (294)
T ss_pred EEE-ecCCccc
Confidence 543 4444443
No 112
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=97.24 E-value=0.0012 Score=54.33 Aligned_cols=69 Identities=17% Similarity=0.291 Sum_probs=51.9
Q ss_pred HhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeehhHHHHhCCCCCCceEEecccCCc---------CCC-C-c
Q 024350 186 ESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDLLYVIKNAPSYPGIDHVGGDLFES---------VPK-A-D 253 (269)
Q Consensus 186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~---------~P~-g-D 253 (269)
+.+.......+|+|||||+|.++..+++++ +..+++++|+.+.. ..++++++.+|+.++ .|. + |
T Consensus 25 ~~~~~i~~g~~VLDiG~GtG~~~~~l~~~~~~~~~v~~vDis~~~----~~~~i~~~~~d~~~~~~~~~l~~~~~~~~~D 100 (188)
T TIGR00438 25 QKFKLIKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMK----PIENVDFIRGDFTDEEVLNKIRERVGDDKVD 100 (188)
T ss_pred HHhcccCCCCEEEEecCCCCHHHHHHHHHhCCCceEEEEeccccc----cCCCceEEEeeCCChhHHHHHHHHhCCCCcc
Confidence 334334566899999999999999999887 66789999986532 346789999998762 343 4 9
Q ss_pred EEEec
Q 024350 254 TIFMK 258 (269)
Q Consensus 254 ~~~l~ 258 (269)
+++..
T Consensus 101 ~V~~~ 105 (188)
T TIGR00438 101 VVMSD 105 (188)
T ss_pred EEEcC
Confidence 98874
No 113
>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=97.22 E-value=0.00022 Score=45.96 Aligned_cols=44 Identities=27% Similarity=0.479 Sum_probs=38.3
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
+.|++.|...+ +++|+.|||+++|++ .. .+.|+|..|+..|++.
T Consensus 6 l~iL~~l~~~~--~~~t~~eia~~~gl~------~s-tv~r~L~tL~~~g~v~ 49 (52)
T PF09339_consen 6 LRILEALAESG--GPLTLSEIARALGLP------KS-TVHRLLQTLVEEGYVE 49 (52)
T ss_dssp HHHHHCHHCTB--SCEEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHcCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCcCee
Confidence 45788888875 678999999999997 56 8999999999999999
No 114
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=97.19 E-value=0.00086 Score=48.24 Aligned_cols=59 Identities=19% Similarity=0.316 Sum_probs=47.9
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS 104 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s 104 (269)
-+.|++.|...+ +++|..|||+.+|++ .. .+.|+|+.|...|++... ...+.|++++..
T Consensus 7 ~~~Il~~l~~~~--~~~t~~~ia~~l~i~------~~-tv~r~l~~L~~~g~l~~~--~~~~~y~l~~~~ 65 (91)
T smart00346 7 GLAVLRALAEEP--GGLTLAELAERLGLS------KS-TAHRLLNTLQELGYVEQD--GQNGRYRLGPKV 65 (91)
T ss_pred HHHHHHHHHhCC--CCcCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCeeec--CCCCceeecHHH
Confidence 356788888753 489999999999997 67 999999999999999942 235789987743
No 115
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=97.19 E-value=0.00059 Score=59.81 Aligned_cols=67 Identities=24% Similarity=0.331 Sum_probs=55.8
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCc---CCCC-cEE
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFES---VPKA-DTI 255 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~---~P~g-D~~ 255 (269)
.+++++||=||||.|..++++++..+--+.|++|+ |.|++.+++ .+|++.+.+|-++- .+.. |+|
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 34567999999999999999999999889999998 889988765 28999999998872 3434 887
Q ss_pred Ee
Q 024350 256 FM 257 (269)
Q Consensus 256 ~l 257 (269)
++
T Consensus 154 i~ 155 (282)
T COG0421 154 IV 155 (282)
T ss_pred EE
Confidence 65
No 116
>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=97.18 E-value=0.00055 Score=57.69 Aligned_cols=73 Identities=15% Similarity=0.025 Sum_probs=54.6
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cC--CCC-cEEEecccc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SV--PKA-DTIFMKVIC 261 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~--P~g-D~~~l~~iL 261 (269)
...+|+|||||+|.++..+++..+ ++++.|+ |.+++.++.. .++++...|+.+ +. +.. |++++.+++
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 357899999999999999988754 4888997 5566655431 268888888765 22 233 999999999
Q ss_pred ccCCCC
Q 024350 262 VCYLNS 267 (269)
Q Consensus 262 hd~~d~ 267 (269)
|...+.
T Consensus 123 ~~~~~~ 128 (224)
T TIGR01983 123 EHVPDP 128 (224)
T ss_pred HhCCCH
Confidence 987653
No 117
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=97.15 E-value=0.0011 Score=58.51 Aligned_cols=65 Identities=18% Similarity=0.139 Sum_probs=53.7
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC----CCceEEecccCC
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY----PGIDHVGGDLFE 247 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~----~ri~~~~gD~~~ 247 (269)
..+++.+. ......+||++||.|.++..++++.| +.+++.+|. |.+++.+++. +||+++.+||-+
T Consensus 9 ~Evl~~L~-~~pg~~vlD~TlG~GGhS~~il~~~~~~g~VigiD~D~~al~~ak~~L~~~~ri~~i~~~f~~ 79 (296)
T PRK00050 9 DEVVDALA-IKPDGIYVDGTFGGGGHSRAILERLGPKGRLIAIDRDPDAIAAAKDRLKPFGRFTLVHGNFSN 79 (296)
T ss_pred HHHHHhhC-CCCCCEEEEeCcCChHHHHHHHHhCCCCCEEEEEcCCHHHHHHHHHhhccCCcEEEEeCCHHH
Confidence 45666665 44456999999999999999999996 789999997 7888777642 589999999986
No 118
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=97.15 E-value=0.0013 Score=45.04 Aligned_cols=60 Identities=17% Similarity=0.235 Sum_probs=48.4
Q ss_pred HHhcChhHHHHhcCCCC-CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 33 VVELDVFEIITKAGPGA-KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 33 a~~lglfd~L~~~g~~~-~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
..+-.|++.|...| + ++|+.|||+.+|++ .. .+.|+|.-|...|+|++.. ..++.|.++.
T Consensus 6 ~~~~~IL~~L~~~g--~~~~ta~eLa~~lgl~------~~-~v~r~L~~L~~~G~V~~~~-~~~~~W~i~~ 66 (68)
T smart00550 6 SLEEKILEFLENSG--DETSTALQLAKNLGLP------KK-EVNRVLYSLEKKGKVCKQG-GTPPLWKLTD 66 (68)
T ss_pred HHHHHHHHHHHHCC--CCCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEecC-CCCCceEeec
Confidence 45667889999875 3 39999999999997 56 9999999999999999532 1347888764
No 119
>PRK04148 hypothetical protein; Provisional
Probab=97.13 E-value=0.0016 Score=50.52 Aligned_cols=70 Identities=21% Similarity=0.305 Sum_probs=49.5
Q ss_pred HHHhccCCCCccEEEEeCCCchH-HHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCCcCCC---C-cEEEe
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGA-TLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFESVPK---A-DTIFM 257 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~-~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~~~P~---g-D~~~l 257 (269)
+.+.++ -.+..+++|||+|.|. ++..|.+. +..++..|. |..++.++. ..++++.+|+|++=++ + |+++-
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 334444 2234789999999996 77777754 568899997 777766643 3578999999996443 4 76543
No 120
>KOG1271 consensus Methyltransferases [General function prediction only]
Probab=97.13 E-value=0.0011 Score=53.78 Aligned_cols=68 Identities=18% Similarity=0.183 Sum_probs=46.1
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEee-hhHHHHhCCC------C-CCceEEecccCCc--CCCC-cEEEeccc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYD-LLYVIKNAPS------Y-PGIDHVGGDLFES--VPKA-DTIFMKVI 260 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~D-lp~vv~~a~~------~-~ri~~~~gD~~~~--~P~g-D~~~l~~i 260 (269)
...+|||+|||.|+++..|++.-=.-+.+++| .+..|+.|+. . +.|+|+..|+++| .+.- |+++=+-.
T Consensus 67 ~A~~VlDLGtGNG~~L~~L~~egf~~~L~GvDYs~~AV~LA~niAe~~~~~n~I~f~q~DI~~~~~~~~qfdlvlDKGT 145 (227)
T KOG1271|consen 67 QADRVLDLGTGNGHLLFQLAKEGFQSKLTGVDYSEKAVELAQNIAERDGFSNEIRFQQLDITDPDFLSGQFDLVLDKGT 145 (227)
T ss_pred cccceeeccCCchHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHhcCCCcceeEEEeeccCCcccccceeEEeecCc
Confidence 34599999999999999998864332346666 3556655432 2 4599999999985 2222 77664443
No 121
>PLN02823 spermine synthase
Probab=97.10 E-value=0.00081 Score=60.49 Aligned_cols=67 Identities=18% Similarity=0.203 Sum_probs=54.3
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCcCC---CC-cEEE
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFESVP---KA-DTIF 256 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~~P---~g-D~~~ 256 (269)
+++++||-||||.|..++++++..+.-+.+++|+ |.|++.+++ .+|++++.+|.++-+. +. |+|+
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 3568999999999999999998777778999998 788887764 2799999999887322 33 9988
Q ss_pred ec
Q 024350 257 MK 258 (269)
Q Consensus 257 l~ 258 (269)
+-
T Consensus 182 ~D 183 (336)
T PLN02823 182 GD 183 (336)
T ss_pred ec
Confidence 75
No 122
>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=97.08 E-value=0.0011 Score=58.58 Aligned_cols=87 Identities=21% Similarity=0.245 Sum_probs=55.0
Q ss_pred HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCce
Q 024350 168 VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGID 239 (269)
Q Consensus 168 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~ 239 (269)
.|..+.+.++.... .++..+. . ...+|+|||||+|.++..+++. +.-+++.+|+ |..++.++++ .++.
T Consensus 137 aFgtG~h~tt~l~l-~~l~~~~-~-~g~~VLDvGcGsG~lai~aa~~-g~~~V~avDid~~al~~a~~n~~~n~~~~~~~ 212 (288)
T TIGR00406 137 AFGTGTHPTTSLCL-EWLEDLD-L-KDKNVIDVGCGSGILSIAALKL-GAAKVVGIDIDPLAVESARKNAELNQVSDRLQ 212 (288)
T ss_pred cccCCCCHHHHHHH-HHHHhhc-C-CCCEEEEeCCChhHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHcCCCcceE
Confidence 35544444444332 2334443 3 3479999999999999888764 4558899997 6666666542 4677
Q ss_pred EEecccCCcCCCC-cEEEec
Q 024350 240 HVGGDLFESVPKA-DTIFMK 258 (269)
Q Consensus 240 ~~~gD~~~~~P~g-D~~~l~ 258 (269)
+..+|.....+.. |+++..
T Consensus 213 ~~~~~~~~~~~~~fDlVvan 232 (288)
T TIGR00406 213 VKLIYLEQPIEGKADVIVAN 232 (288)
T ss_pred EEecccccccCCCceEEEEe
Confidence 7766643322334 988764
No 123
>KOG2904 consensus Predicted methyltransferase [General function prediction only]
Probab=97.07 E-value=0.0016 Score=56.14 Aligned_cols=60 Identities=22% Similarity=0.281 Sum_probs=46.2
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEE----ecccCCcCC
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHV----GGDLFESVP 250 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~----~gD~~~~~P 250 (269)
+.+...++|+|||+|..+..++..-|+.+++..|. +..+..|.+ .+||.++ ..|.+.+.|
T Consensus 146 ~~~~~~ildlgtGSGaIslsll~~L~~~~v~AiD~S~~Ai~La~eN~qr~~l~g~i~v~~~~me~d~~~~~~ 217 (328)
T KOG2904|consen 146 HSKHTHILDLGTGSGAISLSLLHGLPQCTVTAIDVSKAAIKLAKENAQRLKLSGRIEVIHNIMESDASDEHP 217 (328)
T ss_pred hcccceEEEecCCccHHHHHHHhcCCCceEEEEeccHHHHHHHHHHHHHHhhcCceEEEecccccccccccc
Confidence 44556899999999999999999999999999997 455554443 2888887 456565443
No 124
>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]
Probab=97.07 E-value=0.00024 Score=60.75 Aligned_cols=71 Identities=15% Similarity=0.069 Sum_probs=56.6
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------C----CceEEecccCCcCCCCcEEEecccc
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------P----GIDHVGGDLFESVPKADTIFMKVIC 261 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------~----ri~~~~gD~~~~~P~gD~~~l~~iL 261 (269)
.+|+|||||.|.++..|++-- .+++++|. +..|+.|+++ . |+++...|.-...++-|++....||
T Consensus 91 ~~ilDvGCGgGLLSepLArlg--a~V~GID~s~~~V~vA~~h~~~dP~~~~~~~y~l~~~~~~~E~~~~~fDaVvcsevl 168 (282)
T KOG1270|consen 91 MKILDVGCGGGLLSEPLARLG--AQVTGIDASDDMVEVANEHKKMDPVLEGAIAYRLEYEDTDVEGLTGKFDAVVCSEVL 168 (282)
T ss_pred ceEEEeccCccccchhhHhhC--CeeEeecccHHHHHHHHHhhhcCchhccccceeeehhhcchhhcccccceeeeHHHH
Confidence 679999999999999999885 66789996 7888888753 2 5777777765545556999999999
Q ss_pred ccCCCC
Q 024350 262 VCYLNS 267 (269)
Q Consensus 262 hd~~d~ 267 (269)
|+..|.
T Consensus 169 eHV~dp 174 (282)
T KOG1270|consen 169 EHVKDP 174 (282)
T ss_pred HHHhCH
Confidence 987654
No 125
>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]
Probab=97.06 E-value=0.00088 Score=59.88 Aligned_cols=74 Identities=27% Similarity=0.423 Sum_probs=57.8
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCC-eEEEeeh-hHHHHhCCC-------------CCCceEEecccCCcCCCC-cEE
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHI-KGINYDL-LYVIKNAPS-------------YPGIDHVGGDLFESVPKA-DTI 255 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l-~~vv~Dl-p~vv~~a~~-------------~~ri~~~~gD~~~~~P~g-D~~ 255 (269)
++..+++-+|||.|..+++++ +||+. +.+.+|+ |.+++.++. ++|++++.-|.|+-+-++ |
T Consensus 288 ~~a~~vLvlGGGDGLAlRell-kyP~~~qI~lVdLDP~miela~~~~vlr~~N~~sf~dpRv~Vv~dDAf~wlr~a~~-- 364 (508)
T COG4262 288 RGARSVLVLGGGDGLALRELL-KYPQVEQITLVDLDPRMIELASHATVLRALNQGSFSDPRVTVVNDDAFQWLRTAAD-- 364 (508)
T ss_pred cccceEEEEcCCchHHHHHHH-hCCCcceEEEEecCHHHHHHhhhhhHhhhhccCCccCCeeEEEeccHHHHHHhhcc--
Confidence 357899999999999999988 78966 5788898 999998873 289999999999854432 4
Q ss_pred EeccccccCCCCC
Q 024350 256 FMKVICVCYLNSL 268 (269)
Q Consensus 256 ~l~~iLhd~~d~~ 268 (269)
.+-.|+-|.+|+.
T Consensus 365 ~fD~vIVDl~DP~ 377 (508)
T COG4262 365 MFDVVIVDLPDPS 377 (508)
T ss_pred cccEEEEeCCCCC
Confidence 4445566777764
No 126
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=97.03 E-value=0.0013 Score=54.86 Aligned_cols=63 Identities=14% Similarity=0.146 Sum_probs=47.7
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC--C-C-cEEEe
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP--K-A-DTIFM 257 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P--~-g-D~~~l 257 (269)
..+++|+|||+|.++.+++.+.. .+++.+|. |..++.++++ .+++++.+|+++.++ . . |++++
T Consensus 54 ~~~vLDl~~GsG~l~l~~lsr~a-~~V~~vE~~~~a~~~a~~Nl~~~~~~~v~~~~~D~~~~l~~~~~~fDlV~~ 127 (199)
T PRK10909 54 DARCLDCFAGSGALGLEALSRYA-AGATLLEMDRAVAQQLIKNLATLKAGNARVVNTNALSFLAQPGTPHNVVFV 127 (199)
T ss_pred CCEEEEcCCCccHHHHHHHHcCC-CEEEEEECCHHHHHHHHHHHHHhCCCcEEEEEchHHHHHhhcCCCceEEEE
Confidence 46899999999999998776654 57888896 6777665542 579999999987432 2 2 88775
No 127
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=97.02 E-value=0.00083 Score=62.85 Aligned_cols=72 Identities=14% Similarity=0.160 Sum_probs=53.0
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcC-----C
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESV-----P 250 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~-----P 250 (269)
.+++.++ .....+|+|+|||+|.++..+++.. .+++.+|. ++.++.++++ ++++++.+|+.+.+ +
T Consensus 288 ~vl~~l~-~~~~~~VLDlgcGtG~~sl~la~~~--~~V~gvD~s~~al~~A~~n~~~~~~~~v~~~~~d~~~~l~~~~~~ 364 (443)
T PRK13168 288 RALEWLD-PQPGDRVLDLFCGLGNFTLPLARQA--AEVVGVEGVEAMVERARENARRNGLDNVTFYHANLEEDFTDQPWA 364 (443)
T ss_pred HHHHHhc-CCCCCEEEEEeccCCHHHHHHHHhC--CEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEeChHHhhhhhhhh
Confidence 3444444 3445799999999999999999886 57899997 7788776642 57999999987532 2
Q ss_pred C-C-cEEEe
Q 024350 251 K-A-DTIFM 257 (269)
Q Consensus 251 ~-g-D~~~l 257 (269)
. . |++++
T Consensus 365 ~~~fD~Vi~ 373 (443)
T PRK13168 365 LGGFDKVLL 373 (443)
T ss_pred cCCCCEEEE
Confidence 2 2 88875
No 128
>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=97.01 E-value=0.001 Score=58.14 Aligned_cols=68 Identities=24% Similarity=0.286 Sum_probs=52.2
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCc--C-CCC-cEEE
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFES--V-PKA-DTIF 256 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~--~-P~g-D~~~ 256 (269)
+++.+|++||||.|..+.++++..+..+.+++|+ |.+++.+++ .+|++++.+|.++- . ++. |+++
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 4567999999999999999998766678899997 677666553 26899999998762 2 334 9988
Q ss_pred ecc
Q 024350 257 MKV 259 (269)
Q Consensus 257 l~~ 259 (269)
+..
T Consensus 151 ~D~ 153 (270)
T TIGR00417 151 VDS 153 (270)
T ss_pred EeC
Confidence 754
No 129
>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=96.98 E-value=0.00098 Score=55.79 Aligned_cols=79 Identities=18% Similarity=0.337 Sum_probs=48.1
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC---------------CCCceEEecccC
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS---------------YPGIDHVGGDLF 246 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~---------------~~ri~~~~gD~~ 246 (269)
.+++.+. +.....++|||+|.|......+-.++=-+++++++ |...+.+.. ..+|++..+||.
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 4555565 66678999999999999888886665444899986 444443321 267899999999
Q ss_pred C-c-----CCCCcEEEeccccc
Q 024350 247 E-S-----VPKADTIFMKVICV 262 (269)
Q Consensus 247 ~-~-----~P~gD~~~l~~iLh 262 (269)
+ + +-++|++|+.+.+-
T Consensus 112 ~~~~~~~~~s~AdvVf~Nn~~F 133 (205)
T PF08123_consen 112 DPDFVKDIWSDADVVFVNNTCF 133 (205)
T ss_dssp THHHHHHHGHC-SEEEE--TTT
T ss_pred ccHhHhhhhcCCCEEEEecccc
Confidence 8 3 23469999998753
No 130
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=96.89 E-value=0.0012 Score=59.00 Aligned_cols=63 Identities=11% Similarity=0.084 Sum_probs=48.8
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcC--C-CC-cEEEec
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESV--P-KA-DTIFMK 258 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~--P-~g-D~~~l~ 258 (269)
..+|+|+|||+|.++..+++. ..+++.+|. |..++.++++ ++++++.+|+.+-. + .. |++++.
T Consensus 174 ~~~VLDl~cG~G~~sl~la~~--~~~V~gvD~s~~av~~A~~n~~~~~l~~v~~~~~D~~~~~~~~~~~~D~Vv~d 247 (315)
T PRK03522 174 PRSMWDLFCGVGGFGLHCATP--GMQLTGIEISAEAIACAKQSAAELGLTNVQFQALDSTQFATAQGEVPDLVLVN 247 (315)
T ss_pred CCEEEEccCCCCHHHHHHHhc--CCEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEcCHHHHHHhcCCCCeEEEEC
Confidence 479999999999999999984 467899997 7788766542 67999999997621 2 23 877753
No 131
>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=96.84 E-value=0.0015 Score=57.76 Aligned_cols=86 Identities=24% Similarity=0.278 Sum_probs=54.4
Q ss_pred HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCce
Q 024350 168 VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGID 239 (269)
Q Consensus 168 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~ 239 (269)
.|..+-+.+++..... ++.+. . +..+|+|||||+|.++++.++.-. -+++.+|+ |..++.++.+ +++.
T Consensus 139 AFGTG~H~TT~lcl~~-l~~~~-~-~g~~vLDvG~GSGILaiaA~klGA-~~v~a~DiDp~Av~~a~~N~~~N~~~~~~~ 214 (295)
T PF06325_consen 139 AFGTGHHPTTRLCLEL-LEKYV-K-PGKRVLDVGCGSGILAIAAAKLGA-KKVVAIDIDPLAVEAARENAELNGVEDRIE 214 (295)
T ss_dssp SS-SSHCHHHHHHHHH-HHHHS-S-TTSEEEEES-TTSHHHHHHHHTTB-SEEEEEESSCHHHHHHHHHHHHTT-TTCEE
T ss_pred cccCCCCHHHHHHHHH-HHHhc-c-CCCEEEEeCCcHHHHHHHHHHcCC-CeEEEecCCHHHHHHHHHHHHHcCCCeeEE
Confidence 5777777777765543 34454 3 447999999999999999887633 36899998 6667666542 5665
Q ss_pred EEecccCCcCCCC--cEEEecccc
Q 024350 240 HVGGDLFESVPKA--DTIFMKVIC 261 (269)
Q Consensus 240 ~~~gD~~~~~P~g--D~~~l~~iL 261 (269)
+. ...+.+++ |+++ .||+
T Consensus 215 v~---~~~~~~~~~~dlvv-ANI~ 234 (295)
T PF06325_consen 215 VS---LSEDLVEGKFDLVV-ANIL 234 (295)
T ss_dssp ES---CTSCTCCS-EEEEE-EES-
T ss_pred EE---EecccccccCCEEE-ECCC
Confidence 53 12244433 8776 4443
No 132
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=96.83 E-value=0.002 Score=54.69 Aligned_cols=54 Identities=19% Similarity=0.308 Sum_probs=42.8
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhC-CC-----CCCceEEecccCC
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNA-PS-----YPGIDHVGGDLFE 247 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a-~~-----~~ri~~~~gD~~~ 247 (269)
...+|+||||.|.++..+++++|+..++++|+ .+++..+ ++ .+.|.++.+|.-+
T Consensus 49 ~pi~lEIGfG~G~~l~~~A~~nP~~nfiGiEi~~~~v~~~l~k~~~~~l~Nlri~~~DA~~ 109 (227)
T COG0220 49 APIVLEIGFGMGEFLVEMAKKNPEKNFLGIEIRVPGVAKALKKIKELGLKNLRLLCGDAVE 109 (227)
T ss_pred CcEEEEECCCCCHHHHHHHHHCCCCCEEEEEEehHHHHHHHHHHHHcCCCcEEEEcCCHHH
Confidence 36899999999999999999999999999996 4444333 21 2578888888665
No 133
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=96.80 E-value=0.003 Score=51.65 Aligned_cols=63 Identities=21% Similarity=0.197 Sum_probs=47.0
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCCCcEEEe
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPKADTIFM 257 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~gD~~~l 257 (269)
.++|+|+|||+|.++++.+-.-|. +++.+|+ |+.++.++++ .+|+|+..|.-+--.+-|++++
T Consensus 46 g~~V~DlG~GTG~La~ga~~lGa~-~V~~vdiD~~a~ei~r~N~~~l~g~v~f~~~dv~~~~~~~dtvim 114 (198)
T COG2263 46 GKTVLDLGAGTGILAIGAALLGAS-RVLAVDIDPEALEIARANAEELLGDVEFVVADVSDFRGKFDTVIM 114 (198)
T ss_pred CCEEEEcCCCcCHHHHHHHhcCCc-EEEEEecCHHHHHHHHHHHHhhCCceEEEEcchhhcCCccceEEE
Confidence 478999999999999988765544 5788887 7888877664 6899999998652222355554
No 134
>PF01135 PCMT: Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2.1.1.77 from EC) (PCMT) [] (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyses the transfer of a methyl group from S-adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerisation of normal L-aspartyl and L-asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process; PDB: 3LBF_A 1DL5_B 1JG3_B 1JG2_A 1JG1_A 1JG4_A 2YXE_A 2PBF_B 1VBF_C 1R18_A ....
Probab=96.80 E-value=0.0026 Score=53.39 Aligned_cols=79 Identities=18% Similarity=0.256 Sum_probs=56.2
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A- 252 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g- 252 (269)
.+++.++ +....+|+|||+|+|..+.-+++-.- .-+++.+|. |..++.|++. .+|+++.+|-...+|. +
T Consensus 63 ~~l~~L~-l~pg~~VLeIGtGsGY~aAlla~lvg~~g~Vv~vE~~~~l~~~A~~~l~~~~~~nv~~~~gdg~~g~~~~ap 141 (209)
T PF01135_consen 63 RMLEALD-LKPGDRVLEIGTGSGYQAALLAHLVGPVGRVVSVERDPELAERARRNLARLGIDNVEVVVGDGSEGWPEEAP 141 (209)
T ss_dssp HHHHHTT-C-TT-EEEEES-TTSHHHHHHHHHHSTTEEEEEEESBHHHHHHHHHHHHHHTTHSEEEEES-GGGTTGGG-S
T ss_pred HHHHHHh-cCCCCEEEEecCCCcHHHHHHHHhcCccceEEEECccHHHHHHHHHHHHHhccCceeEEEcchhhccccCCC
Confidence 4566666 77778999999999999988887653 345778885 7777777653 6899999999887774 4
Q ss_pred -cEEEeccccc
Q 024350 253 -DTIFMKVICV 262 (269)
Q Consensus 253 -D~~~l~~iLh 262 (269)
|.+++.--..
T Consensus 142 fD~I~v~~a~~ 152 (209)
T PF01135_consen 142 FDRIIVTAAVP 152 (209)
T ss_dssp EEEEEESSBBS
T ss_pred cCEEEEeeccc
Confidence 9988765443
No 135
>PRK13256 thiopurine S-methyltransferase; Reviewed
Probab=96.80 E-value=0.0051 Score=52.23 Aligned_cols=74 Identities=16% Similarity=0.107 Sum_probs=57.7
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC------------------CCCceEEecccCCcCC-C
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS------------------YPGIDHVGGDLFESVP-K 251 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~------------------~~ri~~~~gD~~~~~P-~ 251 (269)
....+|++.|||.|.-+.-|++. +.+++++|+ |..|+.+.+ ..+|++..+|||+.-| .
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 34579999999999999999886 677999998 666665311 2589999999999322 1
Q ss_pred ---C--cEEEeccccccCCCC
Q 024350 252 ---A--DTIFMKVICVCYLNS 267 (269)
Q Consensus 252 ---g--D~~~l~~iLhd~~d~ 267 (269)
+ |+|+=+.+|+-.|++
T Consensus 120 ~~~~~fD~VyDra~~~Alpp~ 140 (226)
T PRK13256 120 NNLPVFDIWYDRGAYIALPND 140 (226)
T ss_pred cccCCcCeeeeehhHhcCCHH
Confidence 3 999999998887654
No 136
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=96.76 E-value=0.0025 Score=54.87 Aligned_cols=58 Identities=22% Similarity=0.414 Sum_probs=47.7
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecC-CCeEecChhch
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-QRLYSLAPVSK 105 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~-~~~y~~t~~s~ 105 (269)
+.|++.|...+ .++++.|||+++|++ .. .+.|+|..|+..|++.+ ++ .++|++++..-
T Consensus 7 l~iL~~l~~~~--~~l~l~ela~~~glp------ks-T~~RlL~tL~~~G~v~~---d~~~g~Y~Lg~~~~ 65 (246)
T COG1414 7 LAILDLLAEGP--GGLSLAELAERLGLP------KS-TVHRLLQTLVELGYVEQ---DPEDGRYRLGPRLL 65 (246)
T ss_pred HHHHHHHHhCC--CCCCHHHHHHHhCcC------HH-HHHHHHHHHHHCCCEEE---cCCCCcEeehHHHH
Confidence 56788888843 457899999999997 57 89999999999999994 43 57899988543
No 137
>PRK11727 23S rRNA mA1618 methyltransferase; Provisional
Probab=96.75 E-value=0.0025 Score=56.90 Aligned_cols=66 Identities=14% Similarity=0.163 Sum_probs=49.2
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----C----CCceEEe----cccCCcC--CC-C-cEE
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----Y----PGIDHVG----GDLFESV--PK-A-DTI 255 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----~----~ri~~~~----gD~~~~~--P~-g-D~~ 255 (269)
...++||||||+|.....++.+.++++++..|+ |..++.|+. + +||++.. .++|+.+ +. - |++
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 357999999999999888999999999999997 667766653 2 5787753 4555532 33 2 877
Q ss_pred Eec
Q 024350 256 FMK 258 (269)
Q Consensus 256 ~l~ 258 (269)
+..
T Consensus 194 vcN 196 (321)
T PRK11727 194 LCN 196 (321)
T ss_pred EeC
Confidence 764
No 138
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=96.74 E-value=0.0023 Score=45.22 Aligned_cols=64 Identities=19% Similarity=0.223 Sum_probs=48.4
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC----eEecChhchhh
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR----LYSLAPVSKYF 107 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~----~y~~t~~s~~l 107 (269)
++++|...|... +.++..+|.+.+|++ .. .+.+.|+.|...|+|+..-...++ .|++|+.|+..
T Consensus 1 vRl~Il~~L~~~---~~~~f~~L~~~l~lt------~g-~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr~~ 68 (80)
T PF13601_consen 1 VRLAILALLYAN---EEATFSELKEELGLT------DG-NLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGREA 68 (80)
T ss_dssp HHHHHHHHHHHH---SEEEHHHHHHHTT--------HH-HHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHHHH
T ss_pred CHHHHHHHHhhc---CCCCHHHHHHHhCcC------HH-HHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHHHH
Confidence 578888999886 589999999999997 56 999999999999999854222122 38999988743
No 139
>KOG1541 consensus Predicted protein carboxyl methylase [General function prediction only]
Probab=96.74 E-value=0.0012 Score=55.24 Aligned_cols=72 Identities=21% Similarity=0.262 Sum_probs=49.9
Q ss_pred HHhccCCCC--ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCC--ceEEecccCCcCC--CC--cE-
Q 024350 185 LESYKGFEH--VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPG--IDHVGGDLFESVP--KA--DT- 254 (269)
Q Consensus 185 ~~~~~~~~~--~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~r--i~~~~gD~~~~~P--~g--D~- 254 (269)
++.++ +++ ...|||||||+|..+..+... ....+++|+ |++++.|.+ .. =.++-+||=+.+| .| |-
T Consensus 41 LELLa-lp~~~~~~iLDIGCGsGLSg~vL~~~--Gh~wiGvDiSpsML~~a~~-~e~egdlil~DMG~GlpfrpGtFDg~ 116 (270)
T KOG1541|consen 41 LELLA-LPGPKSGLILDIGCGSGLSGSVLSDS--GHQWIGVDISPSMLEQAVE-RELEGDLILCDMGEGLPFRPGTFDGV 116 (270)
T ss_pred HHHhh-CCCCCCcEEEEeccCCCcchheeccC--CceEEeecCCHHHHHHHHH-hhhhcCeeeeecCCCCCCCCCccceE
Confidence 34444 444 789999999999988777654 467899997 899988775 22 3467788888555 45 64
Q ss_pred EEeccc
Q 024350 255 IFMKVI 260 (269)
Q Consensus 255 ~~l~~i 260 (269)
+.++.|
T Consensus 117 ISISAv 122 (270)
T KOG1541|consen 117 ISISAV 122 (270)
T ss_pred EEeeee
Confidence 444433
No 140
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=96.72 E-value=0.0032 Score=58.99 Aligned_cols=72 Identities=14% Similarity=0.087 Sum_probs=54.7
Q ss_pred HHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCc---CCCC-
Q 024350 185 LESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFES---VPKA- 252 (269)
Q Consensus 185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~---~P~g- 252 (269)
...++ .++..+|+|+|||+|..+..+++.. |+.+++.+|+ +..++.++++ +.|+++.+|+.+. ++..
T Consensus 243 ~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~~~~v~avDi~~~~l~~~~~n~~~~g~~~v~~~~~D~~~~~~~~~~~f 321 (444)
T PRK14902 243 APALD-PKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEKF 321 (444)
T ss_pred HHHhC-CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeCCcccccchhcccC
Confidence 33444 4456799999999999999999986 6788999998 7777665432 4599999999762 3433
Q ss_pred cEEEe
Q 024350 253 DTIFM 257 (269)
Q Consensus 253 D~~~l 257 (269)
|++++
T Consensus 322 D~Vl~ 326 (444)
T PRK14902 322 DKILV 326 (444)
T ss_pred CEEEE
Confidence 88886
No 141
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=96.71 E-value=0.0019 Score=55.16 Aligned_cols=68 Identities=16% Similarity=0.234 Sum_probs=52.9
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcC-------C-CC-
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESV-------P-KA- 252 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~-------P-~g- 252 (269)
..+.++|+|||+|+|..+..+++..| +-+++.+|. |+.++.++++ ++|+++.||..+-+ + +.
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 34678999999999999999998875 678999997 6666666542 78999999998621 1 23
Q ss_pred cEEEec
Q 024350 253 DTIFMK 258 (269)
Q Consensus 253 D~~~l~ 258 (269)
|++|+-
T Consensus 146 D~VfiD 151 (234)
T PLN02781 146 DFAFVD 151 (234)
T ss_pred CEEEEC
Confidence 888774
No 142
>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=96.70 E-value=0.0033 Score=58.78 Aligned_cols=99 Identities=16% Similarity=0.218 Sum_probs=60.9
Q ss_pred CchhccccCcchHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHC----CCCeEEEeeh-hHH
Q 024350 154 HIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKY----PHIKGINYDL-LYV 228 (269)
Q Consensus 154 ~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~----P~l~~vv~Dl-p~v 228 (269)
..|+.+++|+.+-+.+.+|+... .....+.-..-.+...|+|||+|+|-++...+++. -..++..++- |..
T Consensus 151 ~tYe~fE~D~vKY~~Ye~AI~~a----l~D~~~~~~~~~~~~vVldVGAGrGpL~~~al~A~~~~~~a~~VyAVEkn~~A 226 (448)
T PF05185_consen 151 QTYEVFEKDPVKYDQYERAIEEA----LKDRVRKNSYSSKDKVVLDVGAGRGPLSMFALQAGARAGGAVKVYAVEKNPNA 226 (448)
T ss_dssp HHHHHHCC-HHHHHHHHHHHHHH----HHHHHTTS-SEETT-EEEEES-TTSHHHHHHHHTTHHHCCESEEEEEESSTHH
T ss_pred ccHhhHhcCHHHHHHHHHHHHHH----HHhhhhhccccccceEEEEeCCCccHHHHHHHHHHHHhCCCeEEEEEcCCHhH
Confidence 45888888988777777775331 11222221100125789999999999987776654 4577888875 433
Q ss_pred HHhC----CC---CCCceEEecccCC-cCCC-CcEEE
Q 024350 229 IKNA----PS---YPGIDHVGGDLFE-SVPK-ADTIF 256 (269)
Q Consensus 229 v~~a----~~---~~ri~~~~gD~~~-~~P~-gD~~~ 256 (269)
+... +. .++|+++.+|+-+ ..|+ .|+++
T Consensus 227 ~~~l~~~v~~n~w~~~V~vi~~d~r~v~lpekvDIIV 263 (448)
T PF05185_consen 227 VVTLQKRVNANGWGDKVTVIHGDMREVELPEKVDIIV 263 (448)
T ss_dssp HHHHHHHHHHTTTTTTEEEEES-TTTSCHSS-EEEEE
T ss_pred HHHHHHHHHhcCCCCeEEEEeCcccCCCCCCceeEEE
Confidence 3221 11 2899999999999 7784 58874
No 143
>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=96.69 E-value=0.0017 Score=43.26 Aligned_cols=53 Identities=13% Similarity=0.270 Sum_probs=44.4
Q ss_pred HHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 27 PAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 27 ~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
+.+|..-.++.|+..|... +++|+.+||+.+|++ .. .+.+.|+.|...|+|+.
T Consensus 4 ~~aL~~p~R~~Il~~L~~~---~~~t~~ela~~l~~~------~~-t~s~hL~~L~~aGli~~ 56 (61)
T PF12840_consen 4 FKALSDPTRLRILRLLASN---GPMTVSELAEELGIS------QS-TVSYHLKKLEEAGLIEV 56 (61)
T ss_dssp HHHHTSHHHHHHHHHHHHC---STBEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEE
T ss_pred HHHhCCHHHHHHHHHHhcC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeEE
Confidence 4456666788899999443 699999999999997 67 99999999999999984
No 144
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=96.67 E-value=0.0053 Score=46.59 Aligned_cols=68 Identities=18% Similarity=0.222 Sum_probs=54.0
Q ss_pred HHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 25 VLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 25 ~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
..+.+|.--.++.|+..|... ++.++.||++.++++ .. .+.+.|+.|...|+|+...+...-.|++++
T Consensus 8 ~~fkaLadptRl~IL~~L~~~---~~~~v~ela~~l~ls------qs-tvS~HL~~L~~AGLV~~~r~Gr~~~Y~l~~ 75 (117)
T PRK10141 8 QLFKILSDETRLGIVLLLRES---GELCVCDLCTALDQS------QP-KISRHLALLRESGLLLDRKQGKWVHYRLSP 75 (117)
T ss_pred HHHHHhCCHHHHHHHHHHHHc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCceEEEEEcCEEEEEECc
Confidence 456777888899999999764 589999999999998 67 999999999999999864221123477754
No 145
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=96.67 E-value=0.0051 Score=55.26 Aligned_cols=65 Identities=18% Similarity=0.106 Sum_probs=49.9
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCC-C-cEEEe
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPK-A-DTIFM 257 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~-g-D~~~l 257 (269)
++...+|+|+|||+|.++.+.+.. ..+.+..|+ +.++..++.+ +.+++..+|+.+ +.+. . |++++
T Consensus 180 ~~~g~~vLDp~cGtG~~lieaa~~--~~~v~g~Di~~~~~~~a~~nl~~~g~~~i~~~~~D~~~l~~~~~~~D~Iv~ 254 (329)
T TIGR01177 180 VTEGDRVLDPFCGTGGFLIEAGLM--GAKVIGCDIDWKMVAGARINLEHYGIEDFFVKRGDATKLPLSSESVDAIAT 254 (329)
T ss_pred CCCcCEEEECCCCCCHHHHHHHHh--CCeEEEEcCCHHHHHHHHHHHHHhCCCCCeEEecchhcCCcccCCCCEEEE
Confidence 566679999999999999887653 677899998 6777655432 448899999988 5553 3 88877
No 146
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=96.66 E-value=0.0082 Score=50.08 Aligned_cols=74 Identities=15% Similarity=0.253 Sum_probs=57.6
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C--
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-- 252 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-- 252 (269)
.+++.+. .+...+||+||+|+|..+.-+++--- +++.+|+ ++.++.|+++ ++|.++.+|-..-+|+ +
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 3456666 77779999999999998887777655 6777786 6767777652 6799999999998885 5
Q ss_pred cEEEecc
Q 024350 253 DTIFMKV 259 (269)
Q Consensus 253 D~~~l~~ 259 (269)
|.|+..-
T Consensus 140 D~I~Vta 146 (209)
T COG2518 140 DRIIVTA 146 (209)
T ss_pred CEEEEee
Confidence 9888654
No 147
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=96.66 E-value=0.0027 Score=54.82 Aligned_cols=41 Identities=22% Similarity=0.192 Sum_probs=32.5
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS 234 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~ 234 (269)
...+|+|||||+|.++..+++..+. +++.+|+ |..++.+++
T Consensus 119 ~~~~VLDiGcGsG~l~i~~~~~g~~-~v~giDis~~~l~~A~~ 160 (250)
T PRK00517 119 PGKTVLDVGCGSGILAIAAAKLGAK-KVLAVDIDPQAVEAARE 160 (250)
T ss_pred CCCEEEEeCCcHHHHHHHHHHcCCC-eEEEEECCHHHHHHHHH
Confidence 4579999999999999887765443 6899997 777776654
No 148
>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=0.004 Score=54.32 Aligned_cols=76 Identities=13% Similarity=0.186 Sum_probs=60.0
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCC--CeEEEeeh-hHHHHhCCC------CCC-ceEEecccCCc------CCCCcEEE
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPH--IKGINYDL-LYVIKNAPS------YPG-IDHVGGDLFES------VPKADTIF 256 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~--l~~vv~Dl-p~vv~~a~~------~~r-i~~~~gD~~~~------~P~gD~~~ 256 (269)
.+.+||||.||+|.+....++.+|. .+..+.|. |..|+..++ ... ++|..+|.|+. .|+-++++
T Consensus 135 ~pvrIlDIAaG~GRYvlDal~~~~~~~~~i~LrDys~~Nv~~g~~li~~~gL~~i~~f~~~dAfd~~~l~~l~p~P~l~i 214 (311)
T PF12147_consen 135 RPVRILDIAAGHGRYVLDALEKHPERPDSILLRDYSPINVEKGRALIAERGLEDIARFEQGDAFDRDSLAALDPAPTLAI 214 (311)
T ss_pred CceEEEEeccCCcHHHHHHHHhCCCCCceEEEEeCCHHHHHHHHHHHHHcCCccceEEEecCCCCHhHhhccCCCCCEEE
Confidence 5789999999999999999999998 67888885 777765544 244 59999999983 22238888
Q ss_pred eccccccCCCCC
Q 024350 257 MKVICVCYLNSL 268 (269)
Q Consensus 257 l~~iLhd~~d~~ 268 (269)
.+-+.-.++|.+
T Consensus 215 VsGL~ElF~Dn~ 226 (311)
T PF12147_consen 215 VSGLYELFPDND 226 (311)
T ss_pred EecchhhCCcHH
Confidence 888887787753
No 149
>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=96.64 E-value=0.0032 Score=44.69 Aligned_cols=53 Identities=21% Similarity=0.302 Sum_probs=40.0
Q ss_pred HHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 42 ITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 42 L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
|+..+.+++.|.++||+.++++ +. .+++++..|...|+++.. +...|.|.++.
T Consensus 17 la~~~~~~~~s~~eiA~~~~i~------~~-~l~kil~~L~~~Gli~s~-~G~~GGy~L~~ 69 (83)
T PF02082_consen 17 LARHPDGKPVSSKEIAERLGIS------PS-YLRKILQKLKKAGLIESS-RGRGGGYRLAR 69 (83)
T ss_dssp HHCTTTSC-BEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEEE-TSTTSEEEESS
T ss_pred HHhCCCCCCCCHHHHHHHHCcC------HH-HHHHHHHHHhhCCeeEec-CCCCCceeecC
Confidence 3444333569999999999997 67 999999999999999854 22247888865
No 150
>PRK00536 speE spermidine synthase; Provisional
Probab=96.63 E-value=0.0036 Score=54.32 Aligned_cols=63 Identities=13% Similarity=0.019 Sum_probs=49.1
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCCcCC-CC-cEEEec
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFESVP-KA-DTIFMK 258 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~~~P-~g-D~~~l~ 258 (269)
+++++||=||||.|..++++++. |. +++.+|+ +.|++.+++ ++|++++. ++.+.. +- |+|+.-
T Consensus 71 ~~pk~VLIiGGGDGg~~REvLkh-~~-~v~mVeID~~Vv~~~k~~lP~~~~~~~DpRv~l~~--~~~~~~~~~fDVIIvD 146 (262)
T PRK00536 71 KELKEVLIVDGFDLELAHQLFKY-DT-HVDFVQADEKILDSFISFFPHFHEVKNNKNFTHAK--QLLDLDIKKYDLIICL 146 (262)
T ss_pred CCCCeEEEEcCCchHHHHHHHCc-CC-eeEEEECCHHHHHHHHHHCHHHHHhhcCCCEEEee--hhhhccCCcCCEEEEc
Confidence 46899999999999999999976 65 8999998 678877765 28999987 343333 33 888764
No 151
>PRK11569 transcriptional repressor IclR; Provisional
Probab=96.60 E-value=0.004 Score=54.52 Aligned_cols=59 Identities=14% Similarity=0.221 Sum_probs=48.5
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK 105 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~ 105 (269)
+.|++.|.+.+ +++|+.|||+.+|++ .. .+.|+|..|+..|+|.++ ...++|++.+...
T Consensus 31 l~IL~~l~~~~--~~~~lseia~~lglp------ks-Tv~RlL~tL~~~G~l~~~--~~~~~Y~lG~~l~ 89 (274)
T PRK11569 31 LKLLEWIAESN--GSVALTELAQQAGLP------NS-TTHRLLTTMQQQGFVRQV--GELGHWAIGAHAF 89 (274)
T ss_pred HHHHHHHHhCC--CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEc--CCCCeEecCHHHH
Confidence 56788888754 689999999999997 56 899999999999999842 2368999987543
No 152
>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=0.0072 Score=51.10 Aligned_cols=75 Identities=20% Similarity=0.240 Sum_probs=56.6
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC---C---------------CCCceEEecccCCcCCC
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP---S---------------YPGIDHVGGDLFESVPK 251 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~---~---------------~~ri~~~~gD~~~~~P~ 251 (269)
.....+|++.|||.|..+..|+++ +.++|++|+ |..|+.+. . .++|++..+|||+--++
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 445579999999999999999987 678999998 66776541 0 15799999999993232
Q ss_pred --C--cEEEeccccccCCCC
Q 024350 252 --A--DTIFMKVICVCYLNS 267 (269)
Q Consensus 252 --g--D~~~l~~iLhd~~d~ 267 (269)
| |+++=+..|+-.+++
T Consensus 113 ~~g~fD~iyDr~~l~Alpp~ 132 (218)
T PF05724_consen 113 DVGKFDLIYDRTFLCALPPE 132 (218)
T ss_dssp CHHSEEEEEECSSTTTS-GG
T ss_pred hcCCceEEEEecccccCCHH
Confidence 3 999988888877654
No 153
>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=96.58 E-value=0.0038 Score=53.76 Aligned_cols=57 Identities=26% Similarity=0.360 Sum_probs=48.0
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK 105 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~ 105 (269)
+.|++.|...+ .++|+.|||+.+|++ .. .+.|+|..|+..|+|. ++ .++|++++.-.
T Consensus 12 l~IL~~l~~~~--~~~~l~eia~~lglp------ks-T~~RlL~tL~~~G~l~---~~-~~~Y~lG~~~~ 68 (248)
T TIGR02431 12 LAVIEAFGAER--PRLTLTDVAEATGLT------RA-AARRFLLTLVELGYVT---SD-GRLFWLTPRVL 68 (248)
T ss_pred HHHHHHHhcCC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEE---eC-CCEEEecHHHH
Confidence 56788887654 689999999999997 56 8999999999999999 43 58899987543
No 154
>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=96.55 E-value=0.0024 Score=58.41 Aligned_cols=62 Identities=13% Similarity=0.081 Sum_probs=47.2
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC---CC-cEEEe
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP---KA-DTIFM 257 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P---~g-D~~~l 257 (269)
..+|+|+|||+|.++..++.. ..+++.+|. |..++.++.+ ++++++.+|+.+..+ +. |++++
T Consensus 234 ~~~vLDL~cG~G~~~l~la~~--~~~v~~vE~~~~av~~a~~N~~~~~~~~~~~~~~d~~~~~~~~~~~~D~vi~ 306 (374)
T TIGR02085 234 VTQMWDLFCGVGGFGLHCAGP--DTQLTGIEIESEAIACAQQSAQMLGLDNLSFAALDSAKFATAQMSAPELVLV 306 (374)
T ss_pred CCEEEEccCCccHHHHHHhhc--CCeEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHHHHhcCCCCCEEEE
Confidence 368999999999999999854 467899996 7777766542 579999999865222 22 77765
No 155
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=96.52 E-value=0.0048 Score=53.90 Aligned_cols=59 Identities=17% Similarity=0.229 Sum_probs=48.5
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK 105 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~ 105 (269)
+.|++.|...+ +++|+.|||+.+|++ .. .+.|+|..|+..|+|.++ ...++|++++...
T Consensus 28 l~IL~~~~~~~--~~~tl~eIa~~lglp------kS-tv~RlL~tL~~~G~l~~~--~~~~~Y~lG~~l~ 86 (271)
T PRK10163 28 IAILQYLEKSG--GSSSVSDISLNLDLP------LS-TTFRLLKVLQAADFVYQD--SQLGWWHIGLGVF 86 (271)
T ss_pred HHHHHHHHhCC--CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEc--CCCCeEEecHHHH
Confidence 56788888754 579999999999997 57 899999999999999843 2468899987543
No 156
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=96.51 E-value=0.006 Score=56.84 Aligned_cols=72 Identities=13% Similarity=0.175 Sum_probs=54.3
Q ss_pred HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCc---CC-CC-c
Q 024350 185 LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFES---VP-KA-D 253 (269)
Q Consensus 185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~---~P-~g-D 253 (269)
+..++ .....+|+|+|||+|..+..+++..++.+++.+|+ |..++.++.+ -+++++.+|..+. .+ .. |
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 34444 44557999999999999999999998888999997 7777766542 2478999999862 22 23 8
Q ss_pred EEEe
Q 024350 254 TIFM 257 (269)
Q Consensus 254 ~~~l 257 (269)
.+++
T Consensus 316 ~Vl~ 319 (427)
T PRK10901 316 RILL 319 (427)
T ss_pred EEEE
Confidence 8874
No 157
>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=96.50 E-value=0.0027 Score=43.23 Aligned_cols=57 Identities=16% Similarity=0.223 Sum_probs=43.9
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
.+..++..|-.. ++.|+++||+.+|++ .. .+.+.|+-|...|++.... ..+-.|...
T Consensus 9 ~E~~vy~~Ll~~---~~~t~~eIa~~l~i~------~~-~v~~~L~~L~~~GlV~~~~-~~~~~Y~a~ 65 (68)
T PF01978_consen 9 NEAKVYLALLKN---GPATAEEIAEELGIS------RS-TVYRALKSLEEKGLVEREE-GRPKVYRAV 65 (68)
T ss_dssp HHHHHHHHHHHH---CHEEHHHHHHHHTSS------HH-HHHHHHHHHHHTTSEEEEE-ECCEEEEEE
T ss_pred HHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEEc-CceEEEEEe
Confidence 345566666554 699999999999997 67 9999999999999999643 234556543
No 158
>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=96.50 E-value=0.013 Score=49.95 Aligned_cols=77 Identities=17% Similarity=0.272 Sum_probs=48.9
Q ss_pred HHHHHhccCC-CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhH-HH-HhCCCCCCceEEe-cccCC----cC----
Q 024350 182 EKVLESYKGF-EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLY-VI-KNAPSYPGIDHVG-GDLFE----SV---- 249 (269)
Q Consensus 182 ~~~~~~~~~~-~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~-vv-~~a~~~~ri~~~~-gD~~~----~~---- 249 (269)
..+++.++ . -+..+++|||||+|.++..++++ +--+++.+|.-+ .+ ...+.++|+..+. .|+-. ++
T Consensus 64 ~~~l~~~~-~~~~~~~vlDiG~gtG~~t~~l~~~-ga~~v~avD~~~~~l~~~l~~~~~v~~~~~~ni~~~~~~~~~~d~ 141 (228)
T TIGR00478 64 KEALEEFN-IDVKNKIVLDVGSSTGGFTDCALQK-GAKEVYGVDVGYNQLAEKLRQDERVKVLERTNIRYVTPADIFPDF 141 (228)
T ss_pred HHHHHhcC-CCCCCCEEEEcccCCCHHHHHHHHc-CCCEEEEEeCCHHHHHHHHhcCCCeeEeecCCcccCCHhHcCCCc
Confidence 34555554 2 24579999999999999999986 455789999843 44 4455566654333 24331 12
Q ss_pred CCCcEEEeccc
Q 024350 250 PKADTIFMKVI 260 (269)
Q Consensus 250 P~gD~~~l~~i 260 (269)
+..|+.|++..
T Consensus 142 ~~~DvsfiS~~ 152 (228)
T TIGR00478 142 ATFDVSFISLI 152 (228)
T ss_pred eeeeEEEeehH
Confidence 22388887654
No 159
>PTZ00146 fibrillarin; Provisional
Probab=96.49 E-value=0.012 Score=51.87 Aligned_cols=69 Identities=17% Similarity=0.122 Sum_probs=51.7
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeehhH-----HHHhCCCCCCceEEecccCCcC----C-C-CcEEEec
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDLLY-----VIKNAPSYPGIDHVGGDLFESV----P-K-ADTIFMK 258 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dlp~-----vv~~a~~~~ri~~~~gD~~~~~----P-~-gD~~~l~ 258 (269)
++...+|||+|||+|.++..++.... .=+++.+|+.+ .++.++..++|.++.+|...+. + + .|++|+.
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 44557999999999999999999874 44788889743 4555555688999999986542 2 2 3988775
Q ss_pred c
Q 024350 259 V 259 (269)
Q Consensus 259 ~ 259 (269)
.
T Consensus 210 v 210 (293)
T PTZ00146 210 V 210 (293)
T ss_pred C
Confidence 5
No 160
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=96.47 E-value=0.006 Score=47.78 Aligned_cols=73 Identities=25% Similarity=0.336 Sum_probs=52.6
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCe-EEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCC-C--
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIK-GINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPK-A-- 252 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~-~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~-g-- 252 (269)
.+...|++++ .+++.|+|||.|.+. +.-.+|..+ ++++|+ |..++....+ =.|.++..|+.++.+. +
T Consensus 39 ~Ih~TygdiE-gkkl~DLgcgcGmLs--~a~sm~~~e~vlGfDIdpeALEIf~rNaeEfEvqidlLqcdildle~~~g~f 115 (185)
T KOG3420|consen 39 TIHNTYGDIE-GKKLKDLGCGCGMLS--IAFSMPKNESVLGFDIDPEALEIFTRNAEEFEVQIDLLQCDILDLELKGGIF 115 (185)
T ss_pred HHHhhhcccc-CcchhhhcCchhhhH--HHhhcCCCceEEeeecCHHHHHHHhhchHHhhhhhheeeeeccchhccCCeE
Confidence 3445565453 488999999999988 555677765 799998 7888877654 3578888888887665 3
Q ss_pred cEEEec
Q 024350 253 DTIFMK 258 (269)
Q Consensus 253 D~~~l~ 258 (269)
|..++.
T Consensus 116 DtaviN 121 (185)
T KOG3420|consen 116 DTAVIN 121 (185)
T ss_pred eeEEec
Confidence 665543
No 161
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=96.46 E-value=0.0056 Score=53.23 Aligned_cols=63 Identities=14% Similarity=0.164 Sum_probs=50.5
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV 108 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~ 108 (269)
-+.|++.|...+ +++|..|||+.+|++ .. .+.|+|..|+..|+|.++ ..++.|++++....+.
T Consensus 13 al~iL~~l~~~~--~~ls~~eia~~lgl~------ks-tv~RlL~tL~~~g~v~~~--~~~~~Y~Lg~~~~~l~ 75 (263)
T PRK09834 13 GLMVLRALNRLD--GGATVGLLAELTGLH------RT-TVRRLLETLQEEGYVRRS--ASDDSFRLTLKVRQLS 75 (263)
T ss_pred HHHHHHHHHhcC--CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEe--cCCCcEEEcHHHHHHH
Confidence 356788887754 569999999999997 56 899999999999999953 2467899998765443
No 162
>KOG0820 consensus Ribosomal RNA adenine dimethylase [RNA processing and modification]
Probab=96.46 E-value=0.0083 Score=51.76 Aligned_cols=70 Identities=14% Similarity=0.317 Sum_probs=51.9
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC----CC---CCceEEecccCC-cCCCC
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP----SY---PGIDHVGGDLFE-SVPKA 252 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~----~~---~ri~~~~gD~~~-~~P~g 252 (269)
..++..-+ ......|+.||.|+|.+...++++- -+++.+++ |..++... .. .+.+++.|||++ ++|--
T Consensus 48 ~~I~~ka~-~k~tD~VLEvGPGTGnLT~~lLe~~--kkVvA~E~Dprmvael~krv~gtp~~~kLqV~~gD~lK~d~P~f 124 (315)
T KOG0820|consen 48 DQIVEKAD-LKPTDVVLEVGPGTGNLTVKLLEAG--KKVVAVEIDPRMVAELEKRVQGTPKSGKLQVLHGDFLKTDLPRF 124 (315)
T ss_pred HHHHhccC-CCCCCEEEEeCCCCCHHHHHHHHhc--CeEEEEecCcHHHHHHHHHhcCCCccceeeEEecccccCCCccc
Confidence 44555555 6677899999999999999999984 45566665 55555433 22 689999999999 88854
Q ss_pred cE
Q 024350 253 DT 254 (269)
Q Consensus 253 D~ 254 (269)
|.
T Consensus 125 d~ 126 (315)
T KOG0820|consen 125 DG 126 (315)
T ss_pred ce
Confidence 43
No 163
>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=96.43 E-value=0.0067 Score=40.94 Aligned_cols=49 Identities=12% Similarity=0.289 Sum_probs=35.8
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhc
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVS 104 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s 104 (269)
+++|..+|++.++++ .. .+.++++-|...|+|++.....+ ..|++|+.|
T Consensus 17 ~~~t~~~l~~~~~~~------~~-~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~G 68 (68)
T PF13463_consen 17 GPMTQSDLAERLGIS------KS-TVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPAG 68 (68)
T ss_dssp S-BEHHHHHHHTT--------HH-HHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HHH
T ss_pred CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCCC
Confidence 699999999999997 56 89999999999999975321112 458888864
No 164
>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=96.42 E-value=0.0033 Score=39.53 Aligned_cols=43 Identities=19% Similarity=0.392 Sum_probs=37.6
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
++.|...|.+ ++.++.||++.+|++ .. .+.+.|+.|...|++.
T Consensus 4 R~~Il~~L~~----~~~~~~el~~~l~~s------~~-~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 4 RLRILKLLSE----GPLTVSELAEELGLS------QS-TVSHHLKKLREAGLVE 46 (47)
T ss_dssp HHHHHHHHTT----SSEEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHh----CCCchhhHHHhcccc------ch-HHHHHHHHHHHCcCee
Confidence 5567778887 699999999999998 67 9999999999999986
No 165
>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=96.39 E-value=0.0033 Score=58.65 Aligned_cols=60 Identities=15% Similarity=0.226 Sum_probs=47.3
Q ss_pred HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350 185 LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE 247 (269)
Q Consensus 185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~ 247 (269)
.+.+. ..+..+|+|+|||+|.++..+++... +++.+|. |+.++.++++ ++|+++.+|+.+
T Consensus 285 ~~~l~-~~~~~~vLDl~cG~G~~sl~la~~~~--~V~~vE~~~~av~~a~~n~~~~~~~nv~~~~~d~~~ 351 (431)
T TIGR00479 285 LEALE-LQGEELVVDAYCGVGTFTLPLAKQAK--SVVGIEVVPESVEKAQQNAELNGIANVEFLAGTLET 351 (431)
T ss_pred HHHhc-cCCCCEEEEcCCCcCHHHHHHHHhCC--EEEEEEcCHHHHHHHHHHHHHhCCCceEEEeCCHHH
Confidence 33334 45557999999999999999998753 6899997 8888877652 689999999865
No 166
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=96.37 E-value=0.006 Score=52.84 Aligned_cols=58 Identities=10% Similarity=0.234 Sum_probs=47.4
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK 105 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~ 105 (269)
+.|++.|... +++|+.|||+.+|++ .. .+.|+|+.|+..|+|.++ .+.++|++++...
T Consensus 17 l~IL~~l~~~---~~l~l~eia~~lgl~------ks-tv~Rll~tL~~~G~l~~~--~~~~~Y~lG~~~~ 74 (257)
T PRK15090 17 FGILQALGEE---REIGITELSQRVMMS------KS-TVYRFLQTMKTLGYVAQE--GESEKYSLTLKLF 74 (257)
T ss_pred HHHHHHhhcC---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEc--CCCCcEEecHHHH
Confidence 4577777764 589999999999997 56 899999999999999842 2468899987543
No 167
>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=96.36 E-value=0.0068 Score=52.69 Aligned_cols=77 Identities=14% Similarity=0.348 Sum_probs=55.8
Q ss_pred HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCC----CCCCceEEecccCC-cCCC---
Q 024350 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAP----SYPGIDHVGGDLFE-SVPK--- 251 (269)
Q Consensus 181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~----~~~ri~~~~gD~~~-~~P~--- 251 (269)
...+++..+ ..+...|+|||.|.|.+...|++.. -+.+++|. |..++..+ ..++++++.+|+++ ..+.
T Consensus 19 ~~~Iv~~~~-~~~~~~VlEiGpG~G~lT~~L~~~~--~~v~~vE~d~~~~~~L~~~~~~~~~~~vi~~D~l~~~~~~~~~ 95 (262)
T PF00398_consen 19 ADKIVDALD-LSEGDTVLEIGPGPGALTRELLKRG--KRVIAVEIDPDLAKHLKERFASNPNVEVINGDFLKWDLYDLLK 95 (262)
T ss_dssp HHHHHHHHT-CGTTSEEEEESSTTSCCHHHHHHHS--SEEEEEESSHHHHHHHHHHCTTCSSEEEEES-TTTSCGGGHCS
T ss_pred HHHHHHhcC-CCCCCEEEEeCCCCccchhhHhccc--CcceeecCcHhHHHHHHHHhhhcccceeeecchhccccHHhhc
Confidence 345667666 6677899999999999999999998 56678876 44444333 35899999999998 5554
Q ss_pred -CcEEEeccc
Q 024350 252 -ADTIFMKVI 260 (269)
Q Consensus 252 -gD~~~l~~i 260 (269)
..+.++.++
T Consensus 96 ~~~~~vv~Nl 105 (262)
T PF00398_consen 96 NQPLLVVGNL 105 (262)
T ss_dssp SSEEEEEEEE
T ss_pred CCceEEEEEe
Confidence 245555554
No 168
>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=96.33 E-value=0.0046 Score=50.30 Aligned_cols=71 Identities=14% Similarity=0.114 Sum_probs=45.1
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC---------CCCceEEecccCCcC------CCC-cEEE
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS---------YPGIDHVGGDLFESV------PKA-DTIF 256 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~---------~~ri~~~~gD~~~~~------P~g-D~~~ 256 (269)
..++|+++|+|.|..++.+++.++..++++-|.+++++..+. ..+|++...|.-++. +.. |+++
T Consensus 45 ~~~~VLELGaG~Gl~gi~~a~~~~~~~Vv~TD~~~~l~~l~~Ni~~N~~~~~~~v~v~~L~Wg~~~~~~~~~~~~~D~Il 124 (173)
T PF10294_consen 45 RGKRVLELGAGTGLPGIAAAKLFGAARVVLTDYNEVLELLRRNIELNGSLLDGRVSVRPLDWGDELDSDLLEPHSFDVIL 124 (173)
T ss_dssp TTSEEEETT-TTSHHHHHHHHT-T-SEEEEEE-S-HHHHHHHHHHTT--------EEEE--TTS-HHHHHHS-SSBSEEE
T ss_pred CCceEEEECCccchhHHHHHhccCCceEEEeccchhhHHHHHHHHhccccccccccCcEEEecCcccccccccccCCEEE
Confidence 458999999999999999999888888999999887764432 267899998876632 223 9999
Q ss_pred ecccccc
Q 024350 257 MKVICVC 263 (269)
Q Consensus 257 l~~iLhd 263 (269)
.+-|+++
T Consensus 125 asDv~Y~ 131 (173)
T PF10294_consen 125 ASDVLYD 131 (173)
T ss_dssp EES--S-
T ss_pred Eecccch
Confidence 9999986
No 169
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=96.32 E-value=0.0055 Score=53.95 Aligned_cols=64 Identities=23% Similarity=0.282 Sum_probs=45.8
Q ss_pred HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC
Q 024350 168 VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY 235 (269)
Q Consensus 168 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~ 235 (269)
.|..+-+.++.... .+++.+. .+..+++|||||+|.++++.++- -.-+++.+|+ |..++.++.+
T Consensus 140 AFGTG~HpTT~lcL-~~Le~~~--~~g~~vlDvGcGSGILaIAa~kL-GA~~v~g~DiDp~AV~aa~eN 204 (300)
T COG2264 140 AFGTGTHPTTSLCL-EALEKLL--KKGKTVLDVGCGSGILAIAAAKL-GAKKVVGVDIDPQAVEAAREN 204 (300)
T ss_pred ccCCCCChhHHHHH-HHHHHhh--cCCCEEEEecCChhHHHHHHHHc-CCceEEEecCCHHHHHHHHHH
Confidence 56666666666554 3455555 36799999999999999998865 3345899998 6677766653
No 170
>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=96.30 E-value=0.0049 Score=47.98 Aligned_cols=52 Identities=15% Similarity=0.174 Sum_probs=41.2
Q ss_pred EEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350 196 KLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE 247 (269)
Q Consensus 196 ~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~ 247 (269)
+++|||||.|.++..+++.+|..+++.+|- |...+.+++. ++++++...+.+
T Consensus 1 ~vlDiGa~~G~~~~~~~~~~~~~~v~~~E~~~~~~~~l~~~~~~n~~~~v~~~~~al~~ 59 (143)
T TIGR01444 1 VVIDVGANIGDTSLYFARKGAEGRVIAFEPLPDAYEILEENVKLNNLPNVVLLNAAVGD 59 (143)
T ss_pred CEEEccCCccHHHHHHHHhCCCCEEEEEecCHHHHHHHHHHHHHcCCCcEEEEEeeeeC
Confidence 489999999999999999999999999995 6666654431 457777766654
No 171
>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=96.27 E-value=0.0034 Score=54.12 Aligned_cols=66 Identities=21% Similarity=0.278 Sum_probs=51.1
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC----------CCCceEEecccCC---cCCC-C-cEE
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS----------YPGIDHVGGDLFE---SVPK-A-DTI 255 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~----------~~ri~~~~gD~~~---~~P~-g-D~~ 255 (269)
+++++||=||||.|..+.++++..|-.+.+++|+ |.|++.+++ .+|++++.+|-+. ..++ . |++
T Consensus 75 ~~p~~VLiiGgG~G~~~~ell~~~~~~~i~~VEiD~~Vv~~a~~~f~~~~~~~~d~r~~i~~~Dg~~~l~~~~~~~yDvI 154 (246)
T PF01564_consen 75 PNPKRVLIIGGGDGGTARELLKHPPVESITVVEIDPEVVELARKYFPEFSEGLDDPRVRIIIGDGRKFLKETQEEKYDVI 154 (246)
T ss_dssp SST-EEEEEESTTSHHHHHHTTSTT-SEEEEEES-HHHHHHHHHHTHHHHTTGGSTTEEEEESTHHHHHHTSSST-EEEE
T ss_pred CCcCceEEEcCCChhhhhhhhhcCCcceEEEEecChHHHHHHHHhchhhccccCCCceEEEEhhhHHHHHhccCCcccEE
Confidence 4679999999999999999997766778999998 788887764 2799999999876 3444 4 777
Q ss_pred Ee
Q 024350 256 FM 257 (269)
Q Consensus 256 ~l 257 (269)
++
T Consensus 155 i~ 156 (246)
T PF01564_consen 155 IV 156 (246)
T ss_dssp EE
T ss_pred EE
Confidence 54
No 172
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=96.24 E-value=0.043 Score=43.05 Aligned_cols=63 Identities=19% Similarity=0.156 Sum_probs=46.4
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV 108 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~ 108 (269)
..|+-.|... +++|..+||+.++++ .. .+.++++-|...|+|.+.+-.++. ...+|+.|+.+.
T Consensus 43 ~~vL~~l~~~---~~~t~~eLa~~l~i~------~~-tvsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~~G~~~~ 108 (144)
T PRK11512 43 FKVLCSIRCA---ACITPVELKKVLSVD------LG-ALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAAIC 108 (144)
T ss_pred HHHHHHHHHc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEeccCcccCCeeEeEEChhHHHHH
Confidence 3456666654 589999999999998 56 999999999999999954211222 256777776544
No 173
>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=96.24 E-value=0.0086 Score=37.65 Aligned_cols=45 Identities=9% Similarity=0.309 Sum_probs=37.5
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
.+..|+..|.+. +++|..|||+.+|++ .. .+.+.|+-|...|+++
T Consensus 4 ~~~~Il~~l~~~---~~~t~~ela~~~~is------~~-tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 4 TQRKILNYLREN---PRITQKELAEKLGIS------RS-TVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHHHHHC---TTS-HHHHHHHHTS-------HH-HHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHc---CCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCcCcC
Confidence 456788899886 479999999999998 67 9999999999999974
No 174
>KOG3115 consensus Methyltransferase-like protein [General function prediction only]
Probab=96.22 E-value=0.0046 Score=51.05 Aligned_cols=73 Identities=16% Similarity=0.323 Sum_probs=47.8
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeehh-HHH-------HhCCC------CCCceEEecccCCcCCCC-cEEEec
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDLL-YVI-------KNAPS------YPGIDHVGGDLFESVPKA-DTIFMK 258 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp-~vv-------~~a~~------~~ri~~~~gD~~~~~P~g-D~~~l~ 258 (269)
..-++|||||.|.++++|...||+--.+++++- .|. ...+. ...|.++-.|-+.-+|.- .--.++
T Consensus 61 kvefaDIGCGyGGLlv~Lsp~fPdtLiLGmEIR~KVsdYVk~RI~ALR~~~a~~~~~ni~vlr~namk~lpn~f~kgqLs 140 (249)
T KOG3115|consen 61 KVEFADIGCGYGGLLMKLAPKFPDTLILGMEIRDKVSDYVKERIQALRRTSAEGQYPNISVLRTNAMKFLPNFFEKGQLS 140 (249)
T ss_pred cceEEeeccCccchhhhccccCccceeeeehhhHHHHHHHHHHHHHHhccccccccccceeeeccchhhccchhhhcccc
Confidence 367999999999999999999999888888762 222 11221 256777777766655541 222333
Q ss_pred cccccCCC
Q 024350 259 VICVCYLN 266 (269)
Q Consensus 259 ~iLhd~~d 266 (269)
..++.+||
T Consensus 141 kmff~fpd 148 (249)
T KOG3115|consen 141 KMFFLFPD 148 (249)
T ss_pred cceeecCC
Confidence 44444444
No 175
>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=96.19 E-value=0.023 Score=50.07 Aligned_cols=82 Identities=20% Similarity=0.208 Sum_probs=51.6
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hH------HHHhCCC-CCCceEEecccCCcCC--C
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LY------VIKNAPS-YPGIDHVGGDLFESVP--K 251 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~------vv~~a~~-~~ri~~~~gD~~~~~P--~ 251 (269)
..+...++.+++ ++|+|||||.|.++-+++++.|.. ++++|- +. .+..... ..++..++- ..+.+| .
T Consensus 105 ~rl~p~l~~L~g-k~VLDIGC~nGY~~frM~~~GA~~-ViGiDP~~lf~~QF~~i~~~lg~~~~~~~lpl-gvE~Lp~~~ 181 (315)
T PF08003_consen 105 DRLLPHLPDLKG-KRVLDIGCNNGYYSFRMLGRGAKS-VIGIDPSPLFYLQFEAIKHFLGQDPPVFELPL-GVEDLPNLG 181 (315)
T ss_pred HHHHhhhCCcCC-CEEEEecCCCcHHHHHHhhcCCCE-EEEECCChHHHHHHHHHHHHhCCCccEEEcCc-chhhccccC
Confidence 344455532644 799999999999999999997764 688883 11 1111111 233444432 223455 3
Q ss_pred C-cEEEeccccccCCC
Q 024350 252 A-DTIFMKVICVCYLN 266 (269)
Q Consensus 252 g-D~~~l~~iLhd~~d 266 (269)
. |++|+--||++-.+
T Consensus 182 ~FDtVF~MGVLYHrr~ 197 (315)
T PF08003_consen 182 AFDTVFSMGVLYHRRS 197 (315)
T ss_pred CcCEEEEeeehhccCC
Confidence 4 99999999987654
No 176
>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=96.17 E-value=0.0023 Score=51.51 Aligned_cols=62 Identities=24% Similarity=0.379 Sum_probs=44.5
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCC-----C-CcEEEec
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVP-----K-ADTIFMK 258 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P-----~-gD~~~l~ 258 (269)
.+|+|+.||.|..++.+++.+.. ++.+|+ |.-++.++. .+||+++.+|+++-.+ . .|++|++
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 37999999999999999999766 577786 566665543 2799999999998322 2 3888875
No 177
>KOG2899 consensus Predicted methyltransferase [General function prediction only]
Probab=96.16 E-value=0.0063 Score=51.65 Aligned_cols=52 Identities=17% Similarity=0.206 Sum_probs=42.0
Q ss_pred HHHHhcc-CCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC
Q 024350 183 KVLESYK-GFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS 234 (269)
Q Consensus 183 ~~~~~~~-~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~ 234 (269)
.+++.++ .|-....+|||||++|.+...+++.+-....+++|+ |..|+.|++
T Consensus 47 ~rLk~L~~~~f~~~~~LDIGCNsG~lt~~iak~F~~r~iLGvDID~~LI~~Ark 100 (288)
T KOG2899|consen 47 PRLKVLEKDWFEPKQALDIGCNSGFLTLSIAKDFGPRRILGVDIDPVLIQRARK 100 (288)
T ss_pred hhhhhccccccCcceeEeccCCcchhHHHHHHhhccceeeEeeccHHHHHHHHH
Confidence 4455543 255678999999999999999999999999999998 555677765
No 178
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=96.13 E-value=0.015 Score=40.73 Aligned_cols=49 Identities=20% Similarity=0.243 Sum_probs=39.2
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV 108 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~ 108 (269)
++.+..+|+..++++ .. .+.+.|+.|...|++. . +++.|.+|+.|..+.
T Consensus 18 ~~~~~t~i~~~~~L~------~~-~~~~yL~~L~~~gLI~---~-~~~~Y~lTekG~~~l 66 (77)
T PF14947_consen 18 GGAKKTEIMYKANLN------YS-TLKKYLKELEEKGLIK---K-KDGKYRLTEKGKEFL 66 (77)
T ss_dssp T-B-HHHHHTTST--------HH-HHHHHHHHHHHTTSEE---E-ETTEEEE-HHHHHHH
T ss_pred CCCCHHHHHHHhCcC------HH-HHHHHHHHHHHCcCee---C-CCCEEEECccHHHHH
Confidence 689999999999997 67 9999999999999997 4 479999999998554
No 179
>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=96.12 E-value=0.0085 Score=49.81 Aligned_cols=75 Identities=12% Similarity=0.193 Sum_probs=46.4
Q ss_pred CccEEEEeCCCchH----HHHHHHHHC---C--CCeEEEeeh-hHHHHhCCCC---------------------------
Q 024350 193 HVKKLVDVGGGLGA----TLNMIISKY---P--HIKGINYDL-LYVIKNAPSY--------------------------- 235 (269)
Q Consensus 193 ~~~~vvDvGGG~G~----~~~~l~~~~---P--~l~~vv~Dl-p~vv~~a~~~--------------------------- 235 (269)
+.-+|.-.||++|. +++.+.+.. . +++.+.-|+ +.+++.|++-
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 56899999999995 444444422 2 356677887 6777776530
Q ss_pred -------CCceEEecccCC-cCCC-C-cEEEeccccccCCCC
Q 024350 236 -------PGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLNS 267 (269)
Q Consensus 236 -------~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d~ 267 (269)
.+|+|..+|+.+ +.+. . |+|+++|||-+++++
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 689999999999 3333 4 999999999988654
No 180
>PHA00738 putative HTH transcription regulator
Probab=96.11 E-value=0.014 Score=43.12 Aligned_cols=60 Identities=17% Similarity=0.148 Sum_probs=46.8
Q ss_pred HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
-.++.|++.|... +++++.+|++.++++ .. .+.+.|+.|...|+|....+...-.|++++
T Consensus 12 ptRr~IL~lL~~~---e~~~V~eLae~l~lS------Qp-tVS~HLKvLreAGLV~srK~Gr~vyY~Ln~ 71 (108)
T PHA00738 12 ILRRKILELIAEN---YILSASLISHTLLLS------YT-TVLRHLKILNEQGYIELYKEGRTLYAKIRE 71 (108)
T ss_pred HHHHHHHHHHHHc---CCccHHHHHHhhCCC------HH-HHHHHHHHHHHCCceEEEEECCEEEEEECC
Confidence 3577899999873 379999999999998 56 999999999999999964221223466655
No 181
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=96.05 E-value=0.0087 Score=56.97 Aligned_cols=53 Identities=15% Similarity=0.105 Sum_probs=41.6
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh--hHHHHhCCC-----CCCceEEeccc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL--LYVIKNAPS-----YPGIDHVGGDL 245 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl--p~vv~~a~~-----~~ri~~~~gD~ 245 (269)
+...+||||||.|.++.++++++|+..++++|. +.+....++ ..++.++.+|+
T Consensus 347 ~~p~~lEIG~G~G~~~~~~A~~~p~~~~iGiE~~~~~~~~~~~~~~~~~l~N~~~~~~~~ 406 (506)
T PRK01544 347 KRKVFLEIGFGMGEHFINQAKMNPDALFIGVEVYLNGVANVLKLAGEQNITNFLLFPNNL 406 (506)
T ss_pred CCceEEEECCCchHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHcCCCeEEEEcCCH
Confidence 458999999999999999999999999999996 444433322 25677777775
No 182
>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=96.04 E-value=0.017 Score=38.65 Aligned_cols=44 Identities=23% Similarity=0.329 Sum_probs=37.7
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
.++|..+||+.+|++ .. .+.++|+.|...|++.. ...+.|.+++
T Consensus 24 ~~~s~~ela~~~g~s------~~-tv~r~l~~L~~~g~i~~---~~~~~~~l~~ 67 (67)
T cd00092 24 LPLTRQEIADYLGLT------RE-TVSRTLKELEEEGLISR---RGRGKYRVNP 67 (67)
T ss_pred CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEe---cCCCeEEeCC
Confidence 589999999999998 67 99999999999999994 3347888764
No 183
>KOG1500 consensus Protein arginine N-methyltransferase CARM1 [Posttranslational modification, protein turnover, chaperones; Transcription]
Probab=96.03 E-value=0.014 Score=51.90 Aligned_cols=64 Identities=22% Similarity=0.270 Sum_probs=47.9
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCCC-CcEEE
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVPK-ADTIF 256 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P~-gD~~~ 256 (269)
|++ +.|||||||+|.++.-.+++- .-++-.++-.++.+-|++ .+||++++|-.-+ ++|+ .|+++
T Consensus 176 F~~-kiVlDVGaGSGILS~FAaqAG-A~~vYAvEAS~MAqyA~~Lv~~N~~~~rItVI~GKiEdieLPEk~DviI 248 (517)
T KOG1500|consen 176 FQD-KIVLDVGAGSGILSFFAAQAG-AKKVYAVEASEMAQYARKLVASNNLADRITVIPGKIEDIELPEKVDVII 248 (517)
T ss_pred cCC-cEEEEecCCccHHHHHHHHhC-cceEEEEehhHHHHHHHHHHhcCCccceEEEccCccccccCchhccEEE
Confidence 644 799999999999876666552 234566676666666554 2999999999988 8996 58875
No 184
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=96.00 E-value=0.011 Score=46.39 Aligned_cols=56 Identities=18% Similarity=0.348 Sum_probs=41.7
Q ss_pred CCccEEEEeCCCchHHHHHHHHH----CCCCeEEEeeh-hHHHHhCCC---------CCCceEEecccCC
Q 024350 192 EHVKKLVDVGGGLGATLNMIISK----YPHIKGINYDL-LYVIKNAPS---------YPGIDHVGGDLFE 247 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~----~P~l~~vv~Dl-p~vv~~a~~---------~~ri~~~~gD~~~ 247 (269)
.+..+|||+|||.|.++..+... .|+++++.+|. ++.++.+.+ ..++++..+++..
T Consensus 24 ~~~~~vvD~GsG~GyLs~~La~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ 93 (141)
T PF13679_consen 24 KRCITVVDLGSGKGYLSRALAHLLCNSSPNLRVLGIDCNESLVESAQKRAQKLGSDLEKRLSFIQGDIAD 93 (141)
T ss_pred CCCCEEEEeCCChhHHHHHHHHHHHhcCCCCeEEEEECCcHHHHHHHHHHHHhcchhhccchhhccchhh
Confidence 46789999999999999999982 38899999996 455554432 1566777766654
No 185
>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=96.00 E-value=0.051 Score=47.33 Aligned_cols=74 Identities=14% Similarity=0.212 Sum_probs=57.1
Q ss_pred CccEEEEeCCCchH----HHHHHHHHCCC-----CeEEEeeh-hHHHHhCCCC---------------------------
Q 024350 193 HVKKLVDVGGGLGA----TLNMIISKYPH-----IKGINYDL-LYVIKNAPSY--------------------------- 235 (269)
Q Consensus 193 ~~~~vvDvGGG~G~----~~~~l~~~~P~-----l~~vv~Dl-p~vv~~a~~~--------------------------- 235 (269)
+.-+|.-.||++|. +++.+.+..|. ++.+.-|+ ..+++.|+.-
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 46899999999995 77778888874 56788887 5666666430
Q ss_pred --------CCceEEecccCCcC--CCC-cEEEeccccccCCC
Q 024350 236 --------PGIDHVGGDLFESV--PKA-DTIFMKVICVCYLN 266 (269)
Q Consensus 236 --------~ri~~~~gD~~~~~--P~g-D~~~l~~iLhd~~d 266 (269)
..|+|..+|++++. ++. |+|+++|||=+++.
T Consensus 176 y~v~~~ir~~V~F~~~NLl~~~~~~~~fD~IfCRNVLIYFd~ 217 (268)
T COG1352 176 YRVKEELRKMVRFRRHNLLDDSPFLGKFDLIFCRNVLIYFDE 217 (268)
T ss_pred EEEChHHhcccEEeecCCCCCccccCCCCEEEEcceEEeeCH
Confidence 46999999999954 345 99999999977654
No 186
>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=95.99 E-value=0.0039 Score=52.23 Aligned_cols=68 Identities=19% Similarity=0.289 Sum_probs=51.7
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCC-------CC--c
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVP-------KA--D 253 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P-------~g--D 253 (269)
.++++||+||++.|.-+..+++..| +.+.+-+|. |+..+.|++ .+||+++.||..+-+| .+ |
T Consensus 44 ~~~k~vLEIGt~~GySal~la~~l~~~g~i~tiE~~~~~~~~A~~~~~~ag~~~~I~~~~gda~~~l~~l~~~~~~~~fD 123 (205)
T PF01596_consen 44 TRPKRVLEIGTFTGYSALWLAEALPEDGKITTIEIDPERAEIARENFRKAGLDDRIEVIEGDALEVLPELANDGEEGQFD 123 (205)
T ss_dssp HT-SEEEEESTTTSHHHHHHHHTSTTTSEEEEEESSHHHHHHHHHHHHHTTGGGGEEEEES-HHHHHHHHHHTTTTTSEE
T ss_pred cCCceEEEeccccccHHHHHHHhhcccceEEEecCcHHHHHHHHHHHHhcCCCCcEEEEEeccHhhHHHHHhccCCCcee
Confidence 3678999999999999999999987 588999997 666666654 2799999999876222 12 8
Q ss_pred EEEecc
Q 024350 254 TIFMKV 259 (269)
Q Consensus 254 ~~~l~~ 259 (269)
++|+-.
T Consensus 124 ~VFiDa 129 (205)
T PF01596_consen 124 FVFIDA 129 (205)
T ss_dssp EEEEES
T ss_pred EEEEcc
Confidence 888743
No 187
>PRK11760 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional
Probab=95.97 E-value=0.025 Score=50.68 Aligned_cols=65 Identities=15% Similarity=0.174 Sum_probs=53.0
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCCcCC-C-C-cEEEecc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFESVP-K-A-DTIFMKV 259 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~~P-~-g-D~~~l~~ 259 (269)
...++||||+++|.++..++++ +.+++.+|.-++-+.....+||+++.+|-|...| . . |.++.-.
T Consensus 211 ~g~~vlDLGAsPGGWT~~L~~r--G~~V~AVD~g~l~~~L~~~~~V~h~~~d~fr~~p~~~~vDwvVcDm 278 (357)
T PRK11760 211 PGMRAVDLGAAPGGWTYQLVRR--GMFVTAVDNGPMAQSLMDTGQVEHLRADGFKFRPPRKNVDWLVCDM 278 (357)
T ss_pred CCCEEEEeCCCCcHHHHHHHHc--CCEEEEEechhcCHhhhCCCCEEEEeccCcccCCCCCCCCEEEEec
Confidence 4579999999999999999998 5689999977666666778999999999998555 3 2 7766543
No 188
>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=95.95 E-value=0.03 Score=42.34 Aligned_cols=68 Identities=12% Similarity=0.153 Sum_probs=51.9
Q ss_pred HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350 33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR 109 (269)
Q Consensus 33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~ 109 (269)
..+..++..|... +++|..+||+.++++ .. .+.++++-|...|+|...+...+ -.|.+|+.|+.+..
T Consensus 28 ~~q~~iL~~l~~~---~~~t~~ela~~~~~~------~~-tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~~ 97 (118)
T TIGR02337 28 EQQWRILRILAEQ---GSMEFTQLANQACIL------RP-SLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALYA 97 (118)
T ss_pred HHHHHHHHHHHHc---CCcCHHHHHHHhCCC------ch-hHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHH
Confidence 3445577778775 589999999999997 56 89999999999999995321112 35889998886654
Q ss_pred C
Q 024350 110 N 110 (269)
Q Consensus 110 ~ 110 (269)
.
T Consensus 98 ~ 98 (118)
T TIGR02337 98 S 98 (118)
T ss_pred H
Confidence 4
No 189
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=95.89 E-value=0.017 Score=54.17 Aligned_cols=67 Identities=15% Similarity=0.143 Sum_probs=50.5
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCCC-C-cEEEe
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVPK-A-DTIFM 257 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P~-g-D~~~l 257 (269)
.....+|+|+|||+|..+..+++..+ .-+++.+|+ +..++.++++ ++|+++.+|..+..|. . |++++
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 33457999999999999988888764 457899997 6777665542 5689999998774343 3 98886
No 190
>PRK10611 chemotaxis methyltransferase CheR; Provisional
Probab=95.82 E-value=0.13 Score=45.27 Aligned_cols=74 Identities=15% Similarity=0.174 Sum_probs=54.5
Q ss_pred ccEEEEeCCCchH----HHHHHHHHCC----CCeEEEeeh-hHHHHhCCC------------------------------
Q 024350 194 VKKLVDVGGGLGA----TLNMIISKYP----HIKGINYDL-LYVIKNAPS------------------------------ 234 (269)
Q Consensus 194 ~~~vvDvGGG~G~----~~~~l~~~~P----~l~~vv~Dl-p~vv~~a~~------------------------------ 234 (269)
.-+|...||++|. +++.+.+..+ +++.+.-|+ +.+++.|++
T Consensus 116 ~irIWSAgCStGEEpYSlAmll~e~~~~~~~~~~I~atDIs~~aL~~Ar~G~Y~~~~~r~~p~~~~~ryF~~~~~~~~~~ 195 (287)
T PRK10611 116 EYRVWSAAASTGEEPYSIAMTLADTLGTAPGRWKVFASDIDTEVLEKARSGIYRQEELKTLSPQQLQRYFMRGTGPHEGL 195 (287)
T ss_pred CEEEEEccccCCHHHHHHHHHHHHhhcccCCCcEEEEEECCHHHHHHHHhCCCCHHHHhcCCHHHHHHHcccccCCCCce
Confidence 4799999999995 4455555443 366788897 566655432
Q ss_pred -------CCCceEEecccCC-cCC-C-C-cEEEeccccccCCCC
Q 024350 235 -------YPGIDHVGGDLFE-SVP-K-A-DTIFMKVICVCYLNS 267 (269)
Q Consensus 235 -------~~ri~~~~gD~~~-~~P-~-g-D~~~l~~iLhd~~d~ 267 (269)
..+|+|..+|+++ +.| . . |+|++++||.+++++
T Consensus 196 ~~v~~~lr~~V~F~~~NL~~~~~~~~~~fD~I~cRNvliyF~~~ 239 (287)
T PRK10611 196 VRVRQELANYVDFQQLNLLAKQWAVPGPFDAIFCRNVMIYFDKT 239 (287)
T ss_pred EEEChHHHccCEEEcccCCCCCCccCCCcceeeHhhHHhcCCHH
Confidence 0568999999999 555 3 4 999999999998764
No 191
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=95.81 E-value=0.059 Score=46.62 Aligned_cols=70 Identities=21% Similarity=0.487 Sum_probs=50.7
Q ss_pred HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh--hHHHHhC-CCCCCceEEecccCC-cCCC
Q 024350 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL--LYVIKNA-PSYPGIDHVGGDLFE-SVPK 251 (269)
Q Consensus 181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl--p~vv~~a-~~~~ri~~~~gD~~~-~~P~ 251 (269)
...+++..+ .+....|++||+|.|.+...|+++...+.++=.|. -+..... ...++++++.+|+.+ ++|+
T Consensus 19 ~~kIv~~a~-~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~~l~~~L~~~~~~~~n~~vi~~DaLk~d~~~ 92 (259)
T COG0030 19 IDKIVEAAN-ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDRRLAEVLKERFAPYDNLTVINGDALKFDFPS 92 (259)
T ss_pred HHHHHHhcC-CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCHHHHHHHHHhcccccceEEEeCchhcCcchh
Confidence 345666665 45568999999999999999999988865544442 2222222 235899999999999 7775
No 192
>KOG1499 consensus Protein arginine N-methyltransferase PRMT1 and related enzymes [Posttranslational modification, protein turnover, chaperones; Transcription; Signal transduction mechanisms]
Probab=95.75 E-value=0.013 Score=52.29 Aligned_cols=63 Identities=21% Similarity=0.190 Sum_probs=49.2
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-------CCCceEEecccCC-cCC-CC-cEEE
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-------YPGIDHVGGDLFE-SVP-KA-DTIF 256 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-------~~ri~~~~gD~~~-~~P-~g-D~~~ 256 (269)
+.++|+|||||+|-+++-.+++. .-++..+|--++++.+.+ .+.|+++.|..-+ ++| +- |+++
T Consensus 60 ~dK~VlDVGcGtGILS~F~akAG-A~~V~aVe~S~ia~~a~~iv~~N~~~~ii~vi~gkvEdi~LP~eKVDiIv 132 (346)
T KOG1499|consen 60 KDKTVLDVGCGTGILSMFAAKAG-ARKVYAVEASSIADFARKIVKDNGLEDVITVIKGKVEDIELPVEKVDIIV 132 (346)
T ss_pred CCCEEEEcCCCccHHHHHHHHhC-cceEEEEechHHHHHHHHHHHhcCccceEEEeecceEEEecCccceeEEe
Confidence 34899999999999999888887 566888887777765543 2679999998887 788 44 7764
No 193
>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=95.73 E-value=0.0079 Score=49.67 Aligned_cols=53 Identities=13% Similarity=0.007 Sum_probs=42.4
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE 247 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~ 247 (269)
..+++|++||+|.++.+++.+... +++.+|. +..++.++++ ++++++.+|.++
T Consensus 50 g~~vLDLfaGsG~lglea~srga~-~v~~vE~~~~a~~~~~~N~~~~~~~~~~~~~~~D~~~ 110 (189)
T TIGR00095 50 GAHLLDVFAGSGLLGEEALSRGAK-VAFLEEDDRKANQTLKENLALLKSGEQAEVVRNSALR 110 (189)
T ss_pred CCEEEEecCCCcHHHHHHHhCCCC-EEEEEeCCHHHHHHHHHHHHHhCCcccEEEEehhHHH
Confidence 368999999999999999999764 6888887 5666555432 579999999966
No 194
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=95.72 E-value=0.025 Score=45.60 Aligned_cols=46 Identities=11% Similarity=0.156 Sum_probs=38.4
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
++.|+++||+.++++ .. .+.++|..|...|+|... +...|.|.+..
T Consensus 24 ~~vs~~eIA~~~~ip------~~-~l~kIl~~L~~aGLv~s~-rG~~GGy~Lar 69 (164)
T PRK10857 24 GPVPLADISERQGIS------LS-YLEQLFSRLRKNGLVSSV-RGPGGGYLLGK 69 (164)
T ss_pred CcCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEeC-CCCCCCeeccC
Confidence 589999999999997 67 999999999999999953 22356688754
No 195
>KOG3010 consensus Methyltransferase [General function prediction only]
Probab=95.70 E-value=0.012 Score=49.87 Aligned_cols=72 Identities=19% Similarity=0.235 Sum_probs=51.8
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEE-------ecccCCcC--CCC-cEEEecccc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHV-------GGDLFESV--PKA-DTIFMKVIC 261 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~-------~gD~~~~~--P~g-D~~~l~~iL 261 (269)
..+.++|||||+|..++.+++.|-++ |..|. +.+++.+++.++++.. .-++.+-. ++- |++...+.+
T Consensus 33 ~h~~a~DvG~G~Gqa~~~iae~~k~V--IatD~s~~mL~~a~k~~~~~y~~t~~~ms~~~~v~L~g~e~SVDlI~~Aqa~ 110 (261)
T KOG3010|consen 33 GHRLAWDVGTGNGQAARGIAEHYKEV--IATDVSEAMLKVAKKHPPVTYCHTPSTMSSDEMVDLLGGEESVDLITAAQAV 110 (261)
T ss_pred CcceEEEeccCCCcchHHHHHhhhhh--eeecCCHHHHHHhhcCCCcccccCCccccccccccccCCCcceeeehhhhhH
Confidence 44599999999998888888887775 88896 7888988886443332 23333312 334 999999999
Q ss_pred ccCCC
Q 024350 262 VCYLN 266 (269)
Q Consensus 262 hd~~d 266 (269)
|-++-
T Consensus 111 HWFdl 115 (261)
T KOG3010|consen 111 HWFDL 115 (261)
T ss_pred Hhhch
Confidence 96653
No 196
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=95.68 E-value=0.028 Score=34.85 Aligned_cols=41 Identities=17% Similarity=0.185 Sum_probs=35.1
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
++|..+||+.+|++ .. .+.+.|+.|...|++. .. .+.|..|
T Consensus 8 ~~s~~~la~~l~~s------~~-tv~~~l~~L~~~g~l~---~~-~~~~~i~ 48 (48)
T smart00419 8 PLTRQEIAELLGLT------RE-TVSRTLKRLEKEGLIS---RE-GGRIVIL 48 (48)
T ss_pred ccCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEE---Ee-CCEEEEC
Confidence 68999999999997 66 9999999999999998 33 4677654
No 197
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=95.64 E-value=0.026 Score=44.83 Aligned_cols=55 Identities=18% Similarity=0.198 Sum_probs=43.1
Q ss_pred HHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 40 EIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 40 d~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
-.|+..+.+++.|+++||+..|++ +. .|.++|..|...|+|+.. +...|-|+++.
T Consensus 15 ~~LA~~~~~~~~s~~~IA~~~~is------~~-~L~kil~~L~kaGlV~S~-rG~~GGy~Lar 69 (150)
T COG1959 15 LYLALLPGGGPVSSAEIAERQGIS------PS-YLEKILSKLRKAGLVKSV-RGKGGGYRLAR 69 (150)
T ss_pred HHHHhCCCCCcccHHHHHHHhCcC------HH-HHHHHHHHHHHcCCEEee-cCCCCCccCCC
Confidence 345554433489999999999997 67 999999999999999964 22257798864
No 198
>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=95.58 E-value=0.031 Score=43.52 Aligned_cols=46 Identities=11% Similarity=0.176 Sum_probs=38.1
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
++.|.++||+.++++ +. .+.++|+.|...|++... +...|.|.++.
T Consensus 24 ~~~s~~~ia~~~~ip------~~-~l~kil~~L~~~glv~s~-~G~~Ggy~l~~ 69 (135)
T TIGR02010 24 GPVTLADISERQGIS------LS-YLEQLFAKLRKAGLVKSV-RGPGGGYQLGR 69 (135)
T ss_pred CcCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCceEEE-eCCCCCEeccC
Confidence 589999999999997 67 999999999999999853 22346688754
No 199
>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=95.55 E-value=0.034 Score=40.04 Aligned_cols=60 Identities=15% Similarity=0.215 Sum_probs=44.8
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV 108 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~ 108 (269)
|+..|.. |+....||.+.+ |++ .. .|.+-|+.|...|+|++....+. -.|++|+.|+.|.
T Consensus 10 IL~~l~~----g~~rf~el~~~l~~is------~~-~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G~~l~ 73 (90)
T PF01638_consen 10 ILRALFQ----GPMRFSELQRRLPGIS------PK-VLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELL 73 (90)
T ss_dssp HHHHHTT----SSEEHHHHHHHSTTS-------HH-HHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHH
T ss_pred HHHHHHh----CCCcHHHHHHhcchhH------HH-HHHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHH
Confidence 3445555 699999999999 887 56 99999999999999986422211 2499999998766
No 200
>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=95.53 E-value=0.032 Score=48.88 Aligned_cols=74 Identities=18% Similarity=0.218 Sum_probs=50.2
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCe-EEEeeh-hHHHHhCCC----CCCceE--EecccCC---cCCCCcEEEecccc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIK-GINYDL-LYVIKNAPS----YPGIDH--VGGDLFE---SVPKADTIFMKVIC 261 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~-~vv~Dl-p~vv~~a~~----~~ri~~--~~gD~~~---~~P~gD~~~l~~iL 261 (269)
.+.+|||+|+|.|..+-++.+.+|.+. .+.+|. +.+.+.++. ...... ...++.. ++++.|+++++++|
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 468999999999999999999999764 688886 555554432 111111 1122222 33345999999999
Q ss_pred ccCCC
Q 024350 262 VCYLN 266 (269)
Q Consensus 262 hd~~d 266 (269)
-..++
T Consensus 113 ~EL~~ 117 (274)
T PF09243_consen 113 NELPS 117 (274)
T ss_pred hcCCc
Confidence 88776
No 201
>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=95.46 E-value=0.022 Score=37.63 Aligned_cols=48 Identities=13% Similarity=0.277 Sum_probs=38.2
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
++.++-.|...+. +.+|..+||+.++++ .. .+.++++.|...|+|++.
T Consensus 7 q~~vL~~l~~~~~-~~~t~~~la~~l~~~------~~-~vs~~v~~L~~~Glv~r~ 54 (62)
T PF12802_consen 7 QFRVLMALARHPG-EELTQSELAERLGIS------KS-TVSRIVKRLEKKGLVERE 54 (62)
T ss_dssp HHHHHHHHHHSTT-SGEEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHCCC-CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEe
Confidence 4556677777641 128999999999998 56 999999999999999954
No 202
>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=95.45 E-value=0.029 Score=46.67 Aligned_cols=74 Identities=15% Similarity=0.165 Sum_probs=47.5
Q ss_pred CCcc-EEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHH-----HhCCC--CCC-ceEEecccCCc-CC---------CC
Q 024350 192 EHVK-KLVDVGGGLGATLNMIISKYPHIKGINYDLLYVI-----KNAPS--YPG-IDHVGGDLFES-VP---------KA 252 (269)
Q Consensus 192 ~~~~-~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv-----~~a~~--~~r-i~~~~gD~~~~-~P---------~g 252 (269)
+... +||+||+|+|..+..+++++|+++-.==|..... +-+.. .++ ..-+.-|..++ +| ..
T Consensus 23 ~~~~~~vLEiaSGtGqHa~~FA~~lP~l~WqPSD~~~~~~~sI~a~~~~~~~~Nv~~P~~lDv~~~~w~~~~~~~~~~~~ 102 (204)
T PF06080_consen 23 PDSGTRVLEIASGTGQHAVYFAQALPHLTWQPSDPDDNLRPSIRAWIAEAGLPNVRPPLALDVSAPPWPWELPAPLSPES 102 (204)
T ss_pred CccCceEEEEcCCccHHHHHHHHHCCCCEEcCCCCChHHHhhHHHHHHhcCCcccCCCeEeecCCCCCccccccccCCCC
Confidence 3444 5999999999999999999999977555543222 21111 121 11223444442 22 24
Q ss_pred -cEEEeccccccCC
Q 024350 253 -DTIFMKVICVCYL 265 (269)
Q Consensus 253 -D~~~l~~iLhd~~ 265 (269)
|+++..|++|--|
T Consensus 103 ~D~i~~~N~lHI~p 116 (204)
T PF06080_consen 103 FDAIFCINMLHISP 116 (204)
T ss_pred cceeeehhHHHhcC
Confidence 9999999999755
No 203
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=95.42 E-value=0.032 Score=52.10 Aligned_cols=71 Identities=13% Similarity=0.020 Sum_probs=52.4
Q ss_pred HhccCCCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-c----CCC-
Q 024350 186 ESYKGFEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-S----VPK- 251 (269)
Q Consensus 186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~----~P~- 251 (269)
..++ .....+|+|+|||+|..+..+++..+ .-+.+.+|+ ++.++.++++ +.|+++.+|..+ + .+.
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 3444 44557999999999999999998864 468899997 6677665442 568999999876 2 222
Q ss_pred C-cEEEe
Q 024350 252 A-DTIFM 257 (269)
Q Consensus 252 g-D~~~l 257 (269)
. |.+++
T Consensus 325 ~fD~Vl~ 331 (434)
T PRK14901 325 YFDRILL 331 (434)
T ss_pred cCCEEEE
Confidence 3 98887
No 204
>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=95.42 E-value=0.015 Score=52.86 Aligned_cols=51 Identities=10% Similarity=0.092 Sum_probs=42.3
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE 247 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~ 247 (269)
.+++|++||+|.++..+.+... +++.+|. ++.++.++++ ++++++.+|..+
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 4699999999999999998874 7899996 7777776653 579999999876
No 205
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=95.42 E-value=0.038 Score=39.88 Aligned_cols=64 Identities=22% Similarity=0.257 Sum_probs=47.8
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeec---CCCeEecChhchhhh
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD---GQRLYSLAPVSKYFV 108 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~---~~~~y~~t~~s~~l~ 108 (269)
++.++..|... ++.|..+||+.++++ .. .+.+.++-|...|+|.+.... ....|.+|+.+..+.
T Consensus 12 ~~~il~~l~~~---~~~~~~~la~~~~~s------~~-~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~~~ 78 (101)
T smart00347 12 QFLVLRILYEE---GPLSVSELAKRLGVS------PS-TVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELI 78 (101)
T ss_pred HHHHHHHHHHc---CCcCHHHHHHHHCCC------ch-hHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHHHH
Confidence 55677788775 479999999999997 56 899999999999999843110 012577777776544
No 206
>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=95.38 E-value=0.044 Score=45.69 Aligned_cols=65 Identities=14% Similarity=0.234 Sum_probs=49.2
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceee-cCCCe----EecChhchhhhcC
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV-DGQRL----YSLAPVSKYFVRN 110 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~-~~~~~----y~~t~~s~~l~~~ 110 (269)
..|+..|... +++|..+||+.+|++ .. .+++.|+.|...|+|..... .+.|+ |.+|+.+..+...
T Consensus 4 ~~IL~~L~~~---~~~t~~eLA~~lgis------~~-tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~~~~ 73 (203)
T TIGR02702 4 EDILSYLLKQ---GQATAAALAEALAIS------PQ-AVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQFPQ 73 (203)
T ss_pred HHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhhccc
Confidence 4567777765 589999999999997 66 99999999999999985411 12233 7898888755433
No 207
>PLN02476 O-methyltransferase
Probab=95.35 E-value=0.019 Score=50.33 Aligned_cols=68 Identities=15% Similarity=0.084 Sum_probs=52.0
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCC--------CC-
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVP--------KA- 252 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P--------~g- 252 (269)
..+.++||+||.++|..+..+++..| +-+.+-+|. |+..+.|++ .++|+++.||..+-+| ..
T Consensus 116 ~~~ak~VLEIGT~tGySal~lA~al~~~G~V~TiE~d~e~~~~Ar~n~~~aGl~~~I~li~GdA~e~L~~l~~~~~~~~F 195 (278)
T PLN02476 116 ILGAERCIEVGVYTGYSSLAVALVLPESGCLVACERDSNSLEVAKRYYELAGVSHKVNVKHGLAAESLKSMIQNGEGSSY 195 (278)
T ss_pred hcCCCeEEEecCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcccCCCC
Confidence 45679999999999999999999876 567788897 556666654 2799999999877322 23
Q ss_pred cEEEec
Q 024350 253 DTIFMK 258 (269)
Q Consensus 253 D~~~l~ 258 (269)
|++|+-
T Consensus 196 D~VFID 201 (278)
T PLN02476 196 DFAFVD 201 (278)
T ss_pred CEEEEC
Confidence 777763
No 208
>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=95.32 E-value=0.034 Score=42.81 Aligned_cols=46 Identities=24% Similarity=0.288 Sum_probs=37.2
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
++.|.++||+.++++ .. .++++|+.|...|++... +...|.|.++.
T Consensus 24 ~~~s~~eia~~~~i~------~~-~v~~il~~L~~~gli~~~-~g~~ggy~l~~ 69 (132)
T TIGR00738 24 GPVSVKEIAERQGIS------RS-YLEKILRTLRRAGLVESV-RGPGGGYRLAR 69 (132)
T ss_pred CcCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEEec-cCCCCCccCCC
Confidence 489999999999997 67 999999999999999842 11245677744
No 209
>PRK11050 manganese transport regulator MntR; Provisional
Probab=95.31 E-value=0.17 Score=40.16 Aligned_cols=85 Identities=15% Similarity=0.216 Sum_probs=56.7
Q ss_pred chHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcC
Q 024350 6 DQEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYN 85 (269)
Q Consensus 6 ~~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g 85 (269)
|-+++-+.++++...-.....-.++. -|...+... ++.+..+||+.++++ .. .+.+.++.|...|
T Consensus 15 ~~~~~~~~~~~~~~~~~~~~~e~~l~-----~I~~~l~~~---~~~t~~eLA~~l~is------~s-tVsr~l~~Le~~G 79 (152)
T PRK11050 15 DVEEHVEGFRQVREAHRRELIEDYVE-----LIADLIAEV---GEARQVDIAARLGVS------QP-TVAKMLKRLARDG 79 (152)
T ss_pred CcchhHHHHHHHHHHHhHHHHHHHHH-----HHHHHHHhc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCC
Confidence 44444444555444443333333322 255566553 589999999999998 66 9999999999999
Q ss_pred cccceeecCCCeEecChhchhhh
Q 024350 86 ALHCSFVDGQRLYSLAPVSKYFV 108 (269)
Q Consensus 86 ~l~~~~~~~~~~y~~t~~s~~l~ 108 (269)
+|.. .....+.+|+.|..+.
T Consensus 80 lI~r---~~~~~v~LT~~G~~l~ 99 (152)
T PRK11050 80 LVEM---RPYRGVFLTPEGEKLA 99 (152)
T ss_pred CEEE---ecCCceEECchHHHHH
Confidence 9984 2235688888876554
No 210
>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=95.29 E-value=0.049 Score=36.78 Aligned_cols=57 Identities=21% Similarity=0.341 Sum_probs=42.9
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
+..|+..+.. ++.+..+|++.++++ .. .+.+.|+.|...|++..........|++|+
T Consensus 9 ~~~il~~l~~----~~~~~~ei~~~~~i~------~~-~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~ 65 (78)
T cd00090 9 RLRILRLLLE----GPLTVSELAERLGLS------QS-TVSRHLKKLEEAGLVESRREGRRVYYSLTD 65 (78)
T ss_pred HHHHHHHHHH----CCcCHHHHHHHHCcC------Hh-HHHHHHHHHHHCCCeEEEEeccEEEEEeCC
Confidence 3446666666 359999999999997 56 899999999999999953222235677775
No 211
>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=95.26 E-value=0.019 Score=48.11 Aligned_cols=62 Identities=23% Similarity=0.226 Sum_probs=46.4
Q ss_pred EEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC---CcEEEec
Q 024350 197 LVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK---ADTIFMK 258 (269)
Q Consensus 197 vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~---gD~~~l~ 258 (269)
|+||||-||.+.+.|+++..--+++..|+ |.-.+.|++ .++|++.-+|=++.++. .|+++++
T Consensus 1 vaDIGtDHgyLpi~L~~~~~~~~~ia~DI~~gpL~~A~~~i~~~~l~~~i~~rlgdGL~~l~~~e~~d~ivIA 73 (205)
T PF04816_consen 1 VADIGTDHGYLPIYLLKNGKAPKAIAVDINPGPLEKAKENIAKYGLEDRIEVRLGDGLEVLKPGEDVDTIVIA 73 (205)
T ss_dssp EEEET-STTHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHHHTT-TTTEEEEE-SGGGG--GGG---EEEEE
T ss_pred CceeccchhHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCcccEEEEECCcccccCCCCCCCEEEEe
Confidence 68999999999999999999989999996 666665543 38999999998886664 3677654
No 212
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=95.26 E-value=0.018 Score=57.06 Aligned_cols=64 Identities=13% Similarity=0.048 Sum_probs=49.9
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------CCceEEecccCCcC---CCC-cEEEe
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------PGIDHVGGDLFESV---PKA-DTIFM 257 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------~ri~~~~gD~~~~~---P~g-D~~~l 257 (269)
+.++|||+|||+|.++..+++. ..-+++.+|+ +..++.++++ ++++++.+|.++.+ +.. |++++
T Consensus 538 ~g~rVLDlf~gtG~~sl~aa~~-Ga~~V~~vD~s~~al~~a~~N~~~ng~~~~~v~~i~~D~~~~l~~~~~~fDlIil 614 (702)
T PRK11783 538 KGKDFLNLFAYTGTASVHAALG-GAKSTTTVDMSNTYLEWAERNFALNGLSGRQHRLIQADCLAWLKEAREQFDLIFI 614 (702)
T ss_pred CCCeEEEcCCCCCHHHHHHHHC-CCCEEEEEeCCHHHHHHHHHHHHHhCCCccceEEEEccHHHHHHHcCCCcCEEEE
Confidence 4579999999999999999986 3346899997 6777766542 48999999998732 333 98887
No 213
>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=95.23 E-value=0.054 Score=39.00 Aligned_cols=69 Identities=22% Similarity=0.194 Sum_probs=49.8
Q ss_pred HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHH----------HHHhcCcc-cceeecCCCeEec
Q 024350 32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLR----------LLVSYNAL-HCSFVDGQRLYSL 100 (269)
Q Consensus 32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~----------~L~~~g~l-~~~~~~~~~~y~~ 100 (269)
.=++..|+..|....+ .+.++.|||..++.+ +. .+..-|+ .|+.+|+| .+....+...|++
T Consensus 8 S~~R~~vl~~L~~~yp-~~~~~~eIar~v~~~------~s-nV~GaL~G~g~rY~~e~SLv~lGLV~~~~~~~g~k~Y~l 79 (90)
T PF07381_consen 8 SKVRKKVLEYLCSIYP-EPAYPSEIARSVGSD------YS-NVLGALRGDGKRYNKEDSLVGLGLVEEEEEKGGFKYYRL 79 (90)
T ss_pred HHHHHHHHHHHHHcCC-CcCCHHHHHHHHCCC------HH-HHHHHHhcCCCCcCcchhHHHcCCeeEeeecCCeeEEEe
Confidence 5567789999988732 689999999999997 44 4444443 58999999 4321234467999
Q ss_pred Chhchhhh
Q 024350 101 APVSKYFV 108 (269)
Q Consensus 101 t~~s~~l~ 108 (269)
|+.+..++
T Consensus 80 T~~G~~~~ 87 (90)
T PF07381_consen 80 TEKGKRIA 87 (90)
T ss_pred ChhhhhHH
Confidence 99887544
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=95.20 E-value=0.052 Score=48.21 Aligned_cols=66 Identities=21% Similarity=0.210 Sum_probs=49.3
Q ss_pred HHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC
Q 024350 181 MEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE 247 (269)
Q Consensus 181 ~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~ 247 (269)
...+++.+. ......+||.==|.|..+.++++++|+.+.+.+|. |.+++.+++. +|+.++.++|-+
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 346667766 55668999999999999999999999999999998 7888666542 899999999865
No 215
>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=95.19 E-value=0.031 Score=45.69 Aligned_cols=74 Identities=22% Similarity=0.175 Sum_probs=50.6
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCe---------EEEeeh-hHHHHhCCCC-------CCceEEeccc
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIK---------GINYDL-LYVIKNAPSY-------PGIDHVGGDL 245 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~---------~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~ 245 (269)
.++..-. |++...|+|-=||+|+++++.+...++.. .++.|. +..++.++.+ ..|.+..+|+
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 66678999999999999999888887777 889997 7777665542 5689999999
Q ss_pred CC-cCCC-C-cEEEe
Q 024350 246 FE-SVPK-A-DTIFM 257 (269)
Q Consensus 246 ~~-~~P~-g-D~~~l 257 (269)
++ +.+. . |+++.
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 6444 3 77653
No 216
>KOG2361 consensus Predicted methyltransferase [General function prediction only]
Probab=95.17 E-value=0.015 Score=49.27 Aligned_cols=74 Identities=18% Similarity=0.249 Sum_probs=58.7
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCC--CeEEEeeh-hHHHHhCCCC-----CCceEEecccCCc-----CCCC--cEEEec
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPH--IKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFES-----VPKA--DTIFMK 258 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~--l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~-----~P~g--D~~~l~ 258 (269)
..+|+.||||.|...--+++.+|+ ++....|. |..++..+++ .|+.....|+-.+ .++| |++.+-
T Consensus 72 ~~~ilEvGCGvGNtvfPll~~~~n~~l~v~acDfsp~Ai~~vk~~~~~~e~~~~afv~Dlt~~~~~~~~~~~svD~it~I 151 (264)
T KOG2361|consen 72 AETILEVGCGVGNTVFPLLKTSPNNRLKVYACDFSPRAIELVKKSSGYDESRVEAFVWDLTSPSLKEPPEEGSVDIITLI 151 (264)
T ss_pred hhhheeeccCCCcccchhhhcCCCCCeEEEEcCCChHHHHHHHhccccchhhhcccceeccchhccCCCCcCccceEEEE
Confidence 348999999999999999999999 88899995 8888888764 6777777888763 2234 988888
Q ss_pred cccccCCCC
Q 024350 259 VICVCYLNS 267 (269)
Q Consensus 259 ~iLhd~~d~ 267 (269)
-||.-.+++
T Consensus 152 FvLSAi~pe 160 (264)
T KOG2361|consen 152 FVLSAIHPE 160 (264)
T ss_pred EEEeccChH
Confidence 887665543
No 217
>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=95.13 E-value=0.017 Score=47.04 Aligned_cols=63 Identities=17% Similarity=0.294 Sum_probs=43.1
Q ss_pred HHHHHHhccCCC--CccEEEEeCCCchHHHHHHHHHC-CCCeEEEeehhHHHHhCCCCCCceEEecccCC
Q 024350 181 MEKVLESYKGFE--HVKKLVDVGGGLGATLNMIISKY-PHIKGINYDLLYVIKNAPSYPGIDHVGGDLFE 247 (269)
Q Consensus 181 ~~~~~~~~~~~~--~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~ 247 (269)
...+.+.|+.++ +..++||||+++|.++..++++. +..+++.+|+...- ..+.+.++.+|+++
T Consensus 9 L~ei~~~~~~~~~~~~~~vlDlG~aPGGws~~~~~~~~~~~~v~avDl~~~~----~~~~~~~i~~d~~~ 74 (181)
T PF01728_consen 9 LYEIDEKFKIFKPGKGFTVLDLGAAPGGWSQVLLQRGGPAGRVVAVDLGPMD----PLQNVSFIQGDITN 74 (181)
T ss_dssp HHHHHHTTSSS-TTTTEEEEEET-TTSHHHHHHHTSTTTEEEEEEEESSSTG----S-TTEEBTTGGGEE
T ss_pred HHHHHHHCCCCCcccccEEEEcCCcccceeeeeeecccccceEEEEeccccc----cccceeeeecccch
Confidence 345556665333 45899999999999999999998 78889999986552 12444555555543
No 218
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=95.12 E-value=0.064 Score=42.02 Aligned_cols=50 Identities=18% Similarity=0.198 Sum_probs=42.4
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV 108 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~ 108 (269)
++.+..+||+.++++ .. .+.+.++.|...|+|.+ ...+.|.+|+.|+.+.
T Consensus 21 ~~~~~~ela~~l~vs------~~-svs~~l~~L~~~Gli~~---~~~~~i~LT~~G~~~a 70 (142)
T PRK03902 21 GYARVSDIAEALSVH------PS-SVTKMVQKLDKDEYLIY---EKYRGLVLTPKGKKIG 70 (142)
T ss_pred CCcCHHHHHHHhCCC------hh-HHHHHHHHHHHCCCEEE---ecCceEEECHHHHHHH
Confidence 689999999999998 56 89999999999999984 2346799999987544
No 219
>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=95.12 E-value=0.13 Score=43.07 Aligned_cols=93 Identities=15% Similarity=0.150 Sum_probs=48.2
Q ss_pred ccccCcchHH----HHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCC
Q 024350 158 YLGVDSSFND----VFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAP 233 (269)
Q Consensus 158 ~~~~~p~~~~----~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~ 233 (269)
.+.++|+... .|.+.+..+-..+...+++.+..-++...|.|.|||.+.++..+.+ ..++.-+||-..
T Consensus 33 lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~~~~~~~viaD~GCGdA~la~~~~~---~~~V~SfDLva~----- 104 (219)
T PF05148_consen 33 LFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLKKRPKSLVIADFGCGDAKLAKAVPN---KHKVHSFDLVAP----- 104 (219)
T ss_dssp HHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHCTS-TTS-EEEES-TT-HHHHH--S------EEEEESS-S-----
T ss_pred HHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHhcCCCEEEEECCCchHHHHHhccc---CceEEEeeccCC-----
Confidence 4445565443 4444444444455666666654234557999999999999966542 356788887332
Q ss_pred CCCCceEEecccCC-cCCCC--cEEEecccc
Q 024350 234 SYPGIDHVGGDLFE-SVPKA--DTIFMKVIC 261 (269)
Q Consensus 234 ~~~ri~~~~gD~~~-~~P~g--D~~~l~~iL 261 (269)
+++ +.+.|+-. |++.+ |++++.--|
T Consensus 105 -n~~--Vtacdia~vPL~~~svDv~VfcLSL 132 (219)
T PF05148_consen 105 -NPR--VTACDIANVPLEDESVDVAVFCLSL 132 (219)
T ss_dssp -STT--EEES-TTS-S--TT-EEEEEEES--
T ss_pred -CCC--EEEecCccCcCCCCceeEEEEEhhh
Confidence 233 56799966 77753 988776544
No 220
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=95.09 E-value=0.024 Score=52.25 Aligned_cols=65 Identities=15% Similarity=0.130 Sum_probs=48.0
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC--------CCceEEecccCCcC-----CC-C-cEEE
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------PGIDHVGGDLFESV-----PK-A-DTIF 256 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------~ri~~~~gD~~~~~-----P~-g-D~~~ 256 (269)
+..+|||+|||+|.++...+.. +..+++.+|+ +..++.++++ ++++++.+|.|+.+ .. . |+++
T Consensus 220 ~g~rVLDlfsgtG~~~l~aa~~-ga~~V~~VD~s~~al~~a~~N~~~Ngl~~~~v~~i~~D~~~~l~~~~~~~~~fDlVi 298 (396)
T PRK15128 220 ENKRVLNCFSYTGGFAVSALMG-GCSQVVSVDTSQEALDIARQNVELNKLDLSKAEFVRDDVFKLLRTYRDRGEKFDVIV 298 (396)
T ss_pred CCCeEEEeccCCCHHHHHHHhC-CCCEEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEccHHHHHHHHHhcCCCCCEEE
Confidence 4579999999999998876643 4457899997 6777666542 37999999999732 12 2 8887
Q ss_pred ec
Q 024350 257 MK 258 (269)
Q Consensus 257 l~ 258 (269)
+-
T Consensus 299 lD 300 (396)
T PRK15128 299 MD 300 (396)
T ss_pred EC
Confidence 64
No 221
>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=95.07 E-value=0.037 Score=51.56 Aligned_cols=73 Identities=15% Similarity=0.171 Sum_probs=51.7
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------C-CceEEecccCCc-C--C-C
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------P-GIDHVGGDLFES-V--P-K 251 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~-ri~~~~gD~~~~-~--P-~ 251 (269)
++..++ .....+|+|+|||+|..+..+++..|+.+.+.+|. +..++.++++ + +++++.+|.... . + .
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 44557999999999999999999998788999997 6677655432 2 344477787652 2 2 2
Q ss_pred C-cEEEe
Q 024350 252 A-DTIFM 257 (269)
Q Consensus 252 g-D~~~l 257 (269)
. |.+++
T Consensus 309 ~fD~Vll 315 (426)
T TIGR00563 309 QFDRILL 315 (426)
T ss_pred ccCEEEE
Confidence 3 98886
No 222
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=95.05 E-value=0.06 Score=41.19 Aligned_cols=45 Identities=16% Similarity=0.282 Sum_probs=37.7
Q ss_pred cChhHHHH-hcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 36 LDVFEIIT-KAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 36 lglfd~L~-~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
..++-+|- .+ +|.|+++||+.++.+ .+ .+.|-|+-|...|++.+.
T Consensus 30 v~v~~~LL~~~---~~~tvdelae~lnr~------rS-tv~rsl~~L~~~GlV~Re 75 (126)
T COG3355 30 VEVYKALLEEN---GPLTVDELAEILNRS------RS-TVYRSLQNLLEAGLVERE 75 (126)
T ss_pred HHHHHHHHhhc---CCcCHHHHHHHHCcc------HH-HHHHHHHHHHHcCCeeee
Confidence 34665555 44 699999999999998 67 999999999999999953
No 223
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=95.04 E-value=0.075 Score=34.70 Aligned_cols=54 Identities=17% Similarity=0.293 Sum_probs=40.2
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
|+..|.. ++.|..+|++.++++ .. .+.+.|+.|...|++..........|.+|.
T Consensus 2 il~~l~~----~~~~~~~i~~~l~is------~~-~v~~~l~~L~~~g~i~~~~~~~~~~~~~~~ 55 (66)
T smart00418 2 ILKLLAE----GELCVCELAEILGLS------QS-TVSHHLKKLREAGLVESRREGKRVYYSLTD 55 (66)
T ss_pred HHHHhhc----CCccHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeeeeecCCEEEEEEch
Confidence 4555653 589999999999997 56 899999999999999853212234565554
No 224
>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=95.01 E-value=0.04 Score=37.55 Aligned_cols=42 Identities=10% Similarity=0.292 Sum_probs=35.2
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
|-+.|... +.+|..|||..++++ ++ .+..+|+.|+.+|.|.+
T Consensus 5 i~~~l~~~---~~~S~~eLa~~~~~s------~~-~ve~mL~~l~~kG~I~~ 46 (69)
T PF09012_consen 5 IRDYLRER---GRVSLAELAREFGIS------PE-AVEAMLEQLIRKGYIRK 46 (69)
T ss_dssp HHHHHHHS----SEEHHHHHHHTT--------HH-HHHHHHHHHHCCTSCEE
T ss_pred HHHHHHHc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEEE
Confidence 56778776 589999999999998 77 99999999999999994
No 225
>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=94.94 E-value=0.066 Score=36.25 Aligned_cols=61 Identities=11% Similarity=0.202 Sum_probs=45.0
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK 105 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~ 105 (269)
|++.|.+++ +|++..+|++.+....-+- .+. .++|.|++|...|++. +.+-+-+.+|+.|.
T Consensus 3 IL~~L~~~~--~P~g~~~l~~~L~~~g~~~-se~-avRrrLr~me~~Glt~---~~g~~G~~iT~~G~ 63 (66)
T PF08461_consen 3 ILRILAESD--KPLGRKQLAEELKLRGEEL-SEE-AVRRRLRAMERDGLTR---KVGRQGRIITEKGL 63 (66)
T ss_pred HHHHHHHcC--CCCCHHHHHHHHHhcChhh-hHH-HHHHHHHHHHHCCCcc---ccCCcccccCHHHH
Confidence 567888875 7999999999997641011 135 8999999999999777 33444467888765
No 226
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=94.94 E-value=0.023 Score=51.83 Aligned_cols=51 Identities=10% Similarity=0.087 Sum_probs=42.0
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE 247 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~ 247 (269)
.+++|++||+|.++..+.+... +++.+|. +..++.++++ ++++++.+|.++
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 4699999999999999998865 6899996 7777766542 589999999866
No 227
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=94.93 E-value=0.052 Score=50.67 Aligned_cols=67 Identities=16% Similarity=0.120 Sum_probs=50.5
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-c-C-CCC-cEEEe
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-S-V-PKA-DTIFM 257 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~-~-P~g-D~~~l 257 (269)
.....+|+|+|||+|..+..+++.. +.-+++.+|+ +..++.++++ ..|+++.+|..+ + . +.. |.+++
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 4456799999999999999999886 5678999997 6777665542 468899999865 2 2 223 88876
No 228
>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=94.92 E-value=0.036 Score=41.13 Aligned_cols=39 Identities=23% Similarity=0.325 Sum_probs=27.9
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL 225 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl 225 (269)
|-..+. -.....+||||||.|.+.--|.+. +.+|.++|.
T Consensus 50 W~~~~~-~~~~~~FVDlGCGNGLLV~IL~~E--Gy~G~GiD~ 88 (112)
T PF07757_consen 50 WRDMYG-EQKFQGFVDLGCGNGLLVYILNSE--GYPGWGIDA 88 (112)
T ss_pred HhcccC-CCCCCceEEccCCchHHHHHHHhC--CCCcccccc
Confidence 334444 245689999999999988777665 556678884
No 229
>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=94.92 E-value=0.071 Score=47.30 Aligned_cols=65 Identities=15% Similarity=0.147 Sum_probs=53.0
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCC
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFE 247 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~ 247 (269)
..+++.+. ......+||.=+|.|..+..++++.|+.+.+.+|. |.+++.+++. +|++++.++|-+
T Consensus 10 ~Evl~~L~-~~~ggiyVD~TlG~GGHS~~iL~~l~~g~vigiD~D~~Al~~ak~~L~~~~~R~~~i~~nF~~ 80 (305)
T TIGR00006 10 DEVVEGLN-IKPDGIYIDCTLGFGGHSKAILEQLGTGRLIGIDRDPQAIAFAKERLSDFEGRVVLIHDNFAN 80 (305)
T ss_pred HHHHHhcC-cCCCCEEEEeCCCChHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHhhcCCcEEEEeCCHHH
Confidence 45666665 44557899999999999999999998889999997 7777776542 699999999875
No 230
>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=94.91 E-value=0.03 Score=36.61 Aligned_cols=46 Identities=11% Similarity=0.324 Sum_probs=38.0
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
++.++..|... +++|..+||+.++++ .. .+.++++-|...|++++.
T Consensus 5 q~~iL~~l~~~---~~~~~~~la~~~~~~------~~-~~t~~i~~L~~~g~I~r~ 50 (59)
T PF01047_consen 5 QFRILRILYEN---GGITQSELAEKLGIS------RS-TVTRIIKRLEKKGLIERE 50 (59)
T ss_dssp HHHHHHHHHHH---SSEEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHc---CCCCHHHHHHHHCCC------hh-HHHHHHHHHHHCCCEEec
Confidence 44556667776 489999999999997 67 999999999999999964
No 231
>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=94.85 E-value=0.045 Score=42.19 Aligned_cols=46 Identities=24% Similarity=0.268 Sum_probs=36.7
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
++.|+.+||+.++++ .. .+.++|+.|...|++... +...+.|.+..
T Consensus 24 ~~~s~~eia~~l~is------~~-~v~~~l~~L~~~Gli~~~-~g~~ggy~l~~ 69 (130)
T TIGR02944 24 QPYSAAEIAEQTGLN------AP-TVSKILKQLSLAGIVTSK-RGVEGGYTLAR 69 (130)
T ss_pred CCccHHHHHHHHCcC------HH-HHHHHHHHHHHCCcEEec-CCCCCChhhcC
Confidence 689999999999997 67 999999999999999842 11235566633
No 232
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=94.84 E-value=0.066 Score=45.02 Aligned_cols=64 Identities=17% Similarity=0.299 Sum_probs=48.7
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeec-C----CCeEecChhchhhhcC
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-G----QRLYSLAPVSKYFVRN 110 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~----~~~y~~t~~s~~l~~~ 110 (269)
.|...|.+. +|+|+.|||+.+|++ .. .+++.|..|++.|+|+..... + .-.|++|..++.....
T Consensus 15 ~il~lL~~~---g~~sa~elA~~Lgis------~~-avR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~Lt~~g~~~f~~ 83 (218)
T COG2345 15 RILELLKKS---GPVSADELAEELGIS------PM-AVRRHLDDLEAEGLVEVERQQGGRGRPAKLYRLTEKGREQFPK 83 (218)
T ss_pred HHHHHHhcc---CCccHHHHHHHhCCC------HH-HHHHHHHHHHhCcceeeeeccCCCCCCceeeeecccchhhcch
Confidence 355667765 699999999999997 56 999999999999999854111 1 1349999988764433
No 233
>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=94.71 E-value=0.067 Score=44.60 Aligned_cols=60 Identities=23% Similarity=0.275 Sum_probs=47.6
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS 104 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s 104 (269)
.++.++..|... +++|..+||+.++++ .. .+.+.|..|...|++.+... ....|.+|+.|
T Consensus 144 ~~~~IL~~l~~~---g~~s~~eia~~l~is------~s-tv~r~L~~Le~~GlI~r~~~-r~~~~~lT~~G 203 (203)
T TIGR01884 144 EELKVLEVLKAE---GEKSVKNIAKKLGKS------LS-TISRHLRELEKKGLVEQKGR-KGKRYSLTKLG 203 (203)
T ss_pred HHHHHHHHHHHc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEEcC-CccEEEeCCCC
Confidence 345677777775 479999999999998 66 89999999999999995421 35678888764
No 234
>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=94.69 E-value=0.096 Score=34.29 Aligned_cols=43 Identities=19% Similarity=0.334 Sum_probs=37.9
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.|.+.|... +.+|+++||+.+|++ +. -++|=|..|...|++.+
T Consensus 4 ~Il~~l~~~---~~~s~~ela~~~~VS------~~-TiRRDl~~L~~~g~i~r 46 (57)
T PF08220_consen 4 QILELLKEK---GKVSVKELAEEFGVS------EM-TIRRDLNKLEKQGLIKR 46 (57)
T ss_pred HHHHHHHHc---CCEEHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence 366778776 589999999999998 67 99999999999999983
No 235
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=94.58 E-value=0.073 Score=46.29 Aligned_cols=66 Identities=12% Similarity=0.062 Sum_probs=48.3
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCC--CCcEEEe
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVP--KADTIFM 257 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P--~gD~~~l 257 (269)
+...+|+|+|||+|..+..+++..++ -+++.+|+ +..++.++++ ..|+++.+|... +.+ +.|++++
T Consensus 70 ~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~~l~~~~~n~~~~g~~~v~~~~~D~~~~~~~~~~fD~Vl~ 146 (264)
T TIGR00446 70 DPPERVLDMAAAPGGKTTQISALMKNEGAIVANEFSKSRTKVLIANINRCGVLNVAVTNFDGRVFGAAVPKFDAILL 146 (264)
T ss_pred CCcCEEEEECCCchHHHHHHHHHcCCCCEEEEEcCCHHHHHHHHHHHHHcCCCcEEEecCCHHHhhhhccCCCEEEE
Confidence 44578999999999999999988754 57899997 6666655432 568888888654 222 2388775
No 236
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=94.57 E-value=0.066 Score=35.76 Aligned_cols=45 Identities=20% Similarity=0.194 Sum_probs=36.4
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
.|.+.|.... +|+|..|||+.+|++ .. .++++|..|...|.+...
T Consensus 4 ~Il~~i~~~~--~p~~T~eiA~~~gls------~~-~aR~yL~~Le~eG~V~~~ 48 (62)
T PF04703_consen 4 KILEYIKEQN--GPLKTREIADALGLS------IY-QARYYLEKLEKEGKVERS 48 (62)
T ss_dssp CHHHHHHHHT--S-EEHHHHHHHHTS-------HH-HHHHHHHHHHHCTSEEEE
T ss_pred HHHHHHHHcC--CCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEEe
Confidence 4667777632 699999999999998 67 899999999999999853
No 237
>KOG3191 consensus Predicted N6-DNA-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=94.43 E-value=0.074 Score=43.36 Aligned_cols=66 Identities=18% Similarity=0.276 Sum_probs=49.6
Q ss_pred ccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC----C-CCceEEecccCCcCC-CC-cEEEecc
Q 024350 194 VKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAPS----Y-PGIDHVGGDLFESVP-KA-DTIFMKV 259 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~----~-~ri~~~~gD~~~~~P-~g-D~~~l~~ 259 (269)
...+++||||+|..+..+.+.. |+.....-|+ |..++...+ + -++..+..|++..+- .. |+.+++-
T Consensus 44 ~~i~lEIG~GSGvvstfL~~~i~~~~~~latDiNp~A~~~Tl~TA~~n~~~~~~V~tdl~~~l~~~~VDvLvfNP 118 (209)
T KOG3191|consen 44 PEICLEIGCGSGVVSTFLASVIGPQALYLATDINPEALEATLETARCNRVHIDVVRTDLLSGLRNESVDVLVFNP 118 (209)
T ss_pred ceeEEEecCCcchHHHHHHHhcCCCceEEEecCCHHHHHHHHHHHHhcCCccceeehhHHhhhccCCccEEEECC
Confidence 6789999999999888887765 6777788897 676665443 2 457888899998544 34 8887754
No 238
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=94.31 E-value=0.039 Score=47.52 Aligned_cols=56 Identities=18% Similarity=0.107 Sum_probs=45.8
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCC-------CCCceEEecccCC
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFE 247 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~ 247 (269)
.+++++|+||.+.|.-+..+++..| +-+.+-+|. |+..+.|++ .++|+++.||..+
T Consensus 78 ~~ak~iLEiGT~~GySal~la~al~~~g~v~tiE~~~~~~~~Ar~~~~~ag~~~~I~~~~G~a~e 142 (247)
T PLN02589 78 INAKNTMEIGVYTGYSLLATALALPEDGKILAMDINRENYELGLPVIQKAGVAHKIDFREGPALP 142 (247)
T ss_pred hCCCEEEEEeChhhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCceEEEeccHHH
Confidence 4678999999999999999999875 678888887 555555543 2899999998876
No 239
>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=94.28 E-value=0.076 Score=34.29 Aligned_cols=43 Identities=16% Similarity=0.355 Sum_probs=33.7
Q ss_pred HHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHH
Q 024350 25 VLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRL 80 (269)
Q Consensus 25 ~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~ 80 (269)
.+-.+|.+|+++|-||.=. ..|..|||+.+|++ .. .+...||-
T Consensus 4 ~Q~e~L~~A~~~GYfd~PR------~~tl~elA~~lgis------~s-t~~~~LRr 46 (53)
T PF04967_consen 4 RQREILKAAYELGYFDVPR------RITLEELAEELGIS------KS-TVSEHLRR 46 (53)
T ss_pred HHHHHHHHHHHcCCCCCCC------cCCHHHHHHHhCCC------HH-HHHHHHHH
Confidence 3567899999999999753 59999999999998 44 55555553
No 240
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=94.23 E-value=0.14 Score=40.04 Aligned_cols=63 Identities=13% Similarity=0.124 Sum_probs=46.2
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR 109 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~ 109 (269)
++..|...+ ++.|..+||+.++++ .. .+.++++-|...|+|++.+...+ -.+.+|+.|+.+..
T Consensus 36 vL~~l~~~~--~~~t~~eLa~~l~~~------~~-tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~~ 101 (144)
T PRK03573 36 TLHNIHQLP--PEQSQIQLAKAIGIE------QP-SLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLIS 101 (144)
T ss_pred HHHHHHHcC--CCCCHHHHHHHhCCC------hh-hHHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHHHHHHH
Confidence 456665543 368999999999998 56 89999999999999996421112 24678888775543
No 241
>PRK10870 transcriptional repressor MprA; Provisional
Probab=94.22 E-value=0.59 Score=38.06 Aligned_cols=66 Identities=12% Similarity=0.083 Sum_probs=47.6
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhcC
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVRN 110 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~~ 110 (269)
.++-.|...+ ++++|..+||+.++++ .. .+.+++.-|...|+|.+.+..++ -...+|+.|+.+...
T Consensus 59 ~iL~~L~~~~-~~~it~~eLa~~l~l~------~~-tvsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~~~~~ 127 (176)
T PRK10870 59 MALITLESQE-NHSIQPSELSCALGSS------RT-NATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHEFLRE 127 (176)
T ss_pred HHHHHHhcCC-CCCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHHH
Confidence 3555554321 1579999999999998 56 89999999999999996422222 246788888766544
No 242
>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=94.13 E-value=0.13 Score=38.35 Aligned_cols=67 Identities=18% Similarity=0.262 Sum_probs=47.3
Q ss_pred HhcChhHHHH--hcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhh
Q 024350 34 VELDVFEIIT--KAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFV 108 (269)
Q Consensus 34 ~~lglfd~L~--~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~ 108 (269)
.++.++..|. ... ++++|..+||+.++++ .. .+.++++.|...|+|.+.+-..+. .+.+|+.|..+.
T Consensus 26 ~q~~vL~~l~~~~~~-~~~~t~~eL~~~l~~~------~s-tvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~ 97 (109)
T TIGR01889 26 EELLILYYLGKLENN-EGKLTLKEIIKEILIK------QS-ALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKI 97 (109)
T ss_pred HHHHHHHHHHhhhcc-CCcCcHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHH
Confidence 3445566665 211 1589999999999998 56 999999999999999954222222 266777776544
No 243
>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]
Probab=94.01 E-value=0.054 Score=45.78 Aligned_cols=66 Identities=12% Similarity=0.258 Sum_probs=44.9
Q ss_pred HHHHHHHHHhhchhhHHHH----HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC
Q 024350 166 NDVFSNGMLSHTSIVMEKV----LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS 234 (269)
Q Consensus 166 ~~~f~~~m~~~~~~~~~~~----~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~ 234 (269)
.++|.+.....-.+..|.. +...+ ...+++++|+|||+|..+.+|...--.+ +++|+ ..+++.+.+
T Consensus 95 Ae~Fd~~LVdkL~Y~vP~~l~emI~~~~-~g~F~~~lDLGCGTGL~G~~lR~~a~~l--tGvDiS~nMl~kA~e 165 (287)
T COG4976 95 AERFDHILVDKLGYSVPELLAEMIGKAD-LGPFRRMLDLGCGTGLTGEALRDMADRL--TGVDISENMLAKAHE 165 (287)
T ss_pred HHHHHHHHHHHhcCccHHHHHHHHHhcc-CCccceeeecccCcCcccHhHHHHHhhc--cCCchhHHHHHHHHh
Confidence 4667777665444444433 33344 3348999999999999998888766555 77887 466666654
No 244
>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins.; PDB: 3GIW_A 3GO4_A 2QE6_A.
Probab=93.90 E-value=0.19 Score=43.62 Aligned_cols=76 Identities=18% Similarity=0.322 Sum_probs=44.1
Q ss_pred CccEEEEeCCCchH--HHHHH-HHHCCCCeEEEeeh-hHHHHhCCC----CCC--ceEEecccCCc-----CCC--C--c
Q 024350 193 HVKKLVDVGGGLGA--TLNMI-ISKYPHIKGINYDL-LYVIKNAPS----YPG--IDHVGGDLFES-----VPK--A--D 253 (269)
Q Consensus 193 ~~~~vvDvGGG~G~--~~~~l-~~~~P~l~~vv~Dl-p~vv~~a~~----~~r--i~~~~gD~~~~-----~P~--g--D 253 (269)
+...+||||||.-+ ..-++ .+..|+.+++=+|. |-|++.++. .++ ..++.+|+.++ -|+ + |
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 78999999999764 33333 45689999999997 666666654 345 89999999984 232 2 3
Q ss_pred -----EEEeccccccCCCCC
Q 024350 254 -----TIFMKVICVCYLNSL 268 (269)
Q Consensus 254 -----~~~l~~iLhd~~d~~ 268 (269)
.++|..|||..+|++
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 799999999999954
No 245
>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=93.84 E-value=0.063 Score=50.27 Aligned_cols=75 Identities=16% Similarity=0.164 Sum_probs=48.5
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEe-e-hhHHHHhCCCCCCceEEecccCC---cCCC-C-cEEEeccccccCC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINY-D-LLYVIKNAPSYPGIDHVGGDLFE---SVPK-A-DTIFMKVICVCYL 265 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~-D-lp~vv~~a~~~~ri~~~~gD~~~---~~P~-g-D~~~l~~iLhd~~ 265 (269)
..+++||||||.|.++..+++++=..-.+.. | -+..++-|.+. .|-.+-+-+-+ |+|. . |++..++++..|.
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 5789999999999999999998543222222 2 23344433322 13333333322 6775 4 9999999999998
Q ss_pred CCC
Q 024350 266 NSL 268 (269)
Q Consensus 266 d~~ 268 (269)
..+
T Consensus 196 ~~~ 198 (506)
T PF03141_consen 196 PND 198 (506)
T ss_pred hcc
Confidence 764
No 246
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=93.82 E-value=0.069 Score=45.07 Aligned_cols=68 Identities=15% Similarity=0.228 Sum_probs=53.7
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCC-CCeEEEeeh-hHHHHhCCCC-------CCceEEe-cccCCc---CC-CC-cEE
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYP-HIKGINYDL-LYVIKNAPSY-------PGIDHVG-GDLFES---VP-KA-DTI 255 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~-gD~~~~---~P-~g-D~~ 255 (269)
.++.+++++||.+.|..++.++..-| +-+.|-+|+ |+-++.|+++ +||+.+. ||-.+- .. .. |++
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 45789999999999999999999999 778899997 6777777653 7788888 576652 22 23 888
Q ss_pred Eec
Q 024350 256 FMK 258 (269)
Q Consensus 256 ~l~ 258 (269)
|+-
T Consensus 137 FID 139 (219)
T COG4122 137 FID 139 (219)
T ss_pred EEe
Confidence 873
No 247
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=93.73 E-value=0.15 Score=43.98 Aligned_cols=68 Identities=13% Similarity=0.214 Sum_probs=57.7
Q ss_pred HHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350 29 AMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV 108 (269)
Q Consensus 29 ~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~ 108 (269)
.+....+.+|+=.|.+ ||.|.+||-..++++ .. .+..-++-|...|++. +. ++.|++|+.|+.++
T Consensus 9 if~SekRk~lLllL~e----gPkti~EI~~~l~vs------~~-ai~pqiKkL~~~~LV~---~~-~~~Y~LS~~G~iiv 73 (260)
T COG4742 9 LFLSEKRKDLLLLLKE----GPKTIEEIKNELNVS------SS-AILPQIKKLKDKGLVV---QE-GDRYSLSSLGKIIV 73 (260)
T ss_pred HHccHHHHHHHHHHHh----CCCCHHHHHHHhCCC------cH-HHHHHHHHHhhCCCEE---ec-CCEEEecchHHHHH
Confidence 3445667788888988 799999999999997 56 8889999999999999 43 79999999999877
Q ss_pred cCC
Q 024350 109 RNN 111 (269)
Q Consensus 109 ~~~ 111 (269)
..-
T Consensus 74 ~km 76 (260)
T COG4742 74 EKM 76 (260)
T ss_pred HHH
Confidence 553
No 248
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=93.69 E-value=0.2 Score=31.36 Aligned_cols=42 Identities=21% Similarity=0.335 Sum_probs=35.9
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
+++.|... ++.|..+|++.++++ .. .+.+.|..|...|++..
T Consensus 5 il~~l~~~---~~~s~~~l~~~l~~s------~~-tv~~~l~~L~~~g~i~~ 46 (53)
T smart00420 5 ILELLAQQ---GKVSVEELAELLGVS------EM-TIRRDLNKLEEQGLLTR 46 (53)
T ss_pred HHHHHHHc---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE
Confidence 55666664 479999999999998 67 89999999999999984
No 249
>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=93.54 E-value=0.2 Score=33.91 Aligned_cols=54 Identities=11% Similarity=0.241 Sum_probs=41.7
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
++.++..|.+ ++.|..+||+.+|++ .. .+.+-++.|...|+... .. ...|.+.+
T Consensus 2 ~~~il~~L~~----~~~~~~eLa~~l~vS------~~-tv~~~l~~L~~~g~~i~--~~-~~g~~l~~ 55 (69)
T TIGR00122 2 PLRLLALLAD----NPFSGEKLGEALGMS------RT-AVNKHIQTLREWGVDVL--TV-GKGYRLPP 55 (69)
T ss_pred hHHHHHHHHc----CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeEE--ec-CCceEecC
Confidence 3457778886 589999999999998 67 99999999999999653 22 34566543
No 250
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=93.53 E-value=0.14 Score=40.78 Aligned_cols=46 Identities=15% Similarity=0.104 Sum_probs=38.5
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
++.|.++||+..+++ +. .|.++|..|...|+|... +...|-|.++.
T Consensus 23 ~~~s~~eIA~~~~is------~~-~L~kIl~~L~~aGlv~S~-rG~~GGy~La~ 68 (153)
T PRK11920 23 KLSRIPEIARAYGVS------EL-FLFKILQPLVEAGLVETV-RGRNGGVRLGR 68 (153)
T ss_pred CcCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEee-cCCCCCeeecC
Confidence 578999999999997 67 999999999999999864 22347788854
No 251
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=93.41 E-value=0.16 Score=36.67 Aligned_cols=46 Identities=15% Similarity=0.229 Sum_probs=38.1
Q ss_pred HHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350 53 VSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV 108 (269)
Q Consensus 53 ~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~ 108 (269)
+.+||+.++++ .. .+.+.++.|...|++.. .....|.+|+.+..+.
T Consensus 2 ~~ela~~l~is------~s-tvs~~l~~L~~~glI~r---~~~~~~~lT~~g~~~~ 47 (96)
T smart00529 2 TSEIAERLNVS------PP-TVTQMLKKLEKDGLVEY---EPYRGITLTEKGRRLA 47 (96)
T ss_pred HHHHHHHhCCC------hH-HHHHHHHHHHHCCCEEE---cCCCceEechhHHHHH
Confidence 56899999997 56 99999999999999994 3345799998887554
No 252
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=93.41 E-value=0.14 Score=40.06 Aligned_cols=46 Identities=11% Similarity=0.035 Sum_probs=37.6
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
.+.|.++||+.+|++ .. .++++|+.|...|++...+. ..|.|.++.
T Consensus 24 ~~~s~~~ia~~~~is------~~-~vrk~l~~L~~~Glv~s~~G-~~GG~~l~~ 69 (141)
T PRK11014 24 RMTSISEVTEVYGVS------RN-HMVKIINQLSRAGYVTAVRG-KNGGIRLGK 69 (141)
T ss_pred CccCHHHHHHHHCcC------HH-HHHHHHHHHHhCCEEEEecC-CCCCeeecC
Confidence 578999999999997 67 99999999999999986422 246677753
No 253
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=93.25 E-value=0.16 Score=37.52 Aligned_cols=45 Identities=16% Similarity=0.365 Sum_probs=40.2
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
.+..|+..|... +++|..+||+.+|++ +. .+.+.++.|...|++.
T Consensus 4 ~D~~il~~L~~~---~~~~~~~la~~l~~s------~~-tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 4 IDRKILEELQKD---ARISLAELAKKVGLS------PS-TVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHh---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCee
Confidence 466788889886 589999999999998 67 9999999999999998
No 254
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=93.23 E-value=0.12 Score=37.51 Aligned_cols=61 Identities=16% Similarity=0.344 Sum_probs=46.6
Q ss_pred hhHHHH-hcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCC---eEecChhchhhhcC
Q 024350 38 VFEIIT-KAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQR---LYSLAPVSKYFVRN 110 (269)
Q Consensus 38 lfd~L~-~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~---~y~~t~~s~~l~~~ 110 (269)
+||+|. ..+ +++..--|.-.++++ -. ....+++.|+..|++.. ...+ .|.+|+.|..|...
T Consensus 20 i~dIL~~~~~--~~~~~Tri~y~aNln------y~-~~~~yi~~L~~~Gli~~---~~~~~~~~y~lT~KG~~fle~ 84 (95)
T COG3432 20 IFDILKAISE--GGIGITRIIYGANLN------YK-RAQKYIEMLVEKGLIIK---QDNGRRKVYELTEKGKRFLEK 84 (95)
T ss_pred HHHHHHHhcC--CCCCceeeeeecCcC------HH-HHHHHHHHHHhCCCEEe---ccCCccceEEEChhHHHHHHH
Confidence 467776 222 688888999999996 66 99999999999996663 2233 69999999876543
No 255
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=93.04 E-value=0.3 Score=40.73 Aligned_cols=67 Identities=22% Similarity=0.298 Sum_probs=49.7
Q ss_pred hhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCC-CeEEEeehhHHHHhCCCCCCceEEecccCCc
Q 024350 178 SIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPH-IKGINYDLLYVIKNAPSYPGIDHVGGDLFES 248 (269)
Q Consensus 178 ~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~~ 248 (269)
......+.+.|..+++..+|+|+|...|.++.-+.+.-.. -+.+.+|+-++- ..+.|.++-+||+.+
T Consensus 30 a~KL~el~~k~~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ivavDi~p~~----~~~~V~~iq~d~~~~ 97 (205)
T COG0293 30 AYKLLELNEKFKLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDILPMK----PIPGVIFLQGDITDE 97 (205)
T ss_pred HHHHHHHHHhcCeecCCCEEEEcCCCCCcHHHHHHHHhCCCCcEEEEECcccc----cCCCceEEeeeccCc
Confidence 3334456666665677899999999999999988776654 568999975553 245588999999873
No 256
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=93.04 E-value=0.33 Score=39.66 Aligned_cols=45 Identities=18% Similarity=0.271 Sum_probs=39.5
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
..|+++|... |++|.++||+.+|++ .. .++++|..|...|++...
T Consensus 25 ~~Vl~~L~~~---g~~tdeeLA~~Lgi~------~~-~VRk~L~~L~e~gLv~~~ 69 (178)
T PRK06266 25 FEVLKALIKK---GEVTDEEIAEQTGIK------LN-TVRKILYKLYDARLADYK 69 (178)
T ss_pred hHHHHHHHHc---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeEEe
Confidence 3488999886 589999999999997 56 999999999999999953
No 257
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=93.04 E-value=0.22 Score=42.02 Aligned_cols=55 Identities=18% Similarity=0.194 Sum_probs=44.2
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN 110 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~ 110 (269)
..+|..+||+.++++ .. .+.|.|+.|...|++++........+.+|+.|+.+...
T Consensus 20 ~~IS~~eLA~~L~iS------~~-Tvsr~Lk~LEe~GlI~R~~~~r~~~v~LTekG~~ll~~ 74 (217)
T PRK14165 20 VKISSSEFANHTGTS------SK-TAARILKQLEDEGYITRTIVPRGQLITITEKGLDVLYN 74 (217)
T ss_pred CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEEEcCCceEEEECHHHHHHHHH
Confidence 469999999999998 56 99999999999999985422235678899988865533
No 258
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=92.94 E-value=0.11 Score=47.74 Aligned_cols=63 Identities=11% Similarity=-0.066 Sum_probs=48.1
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC---CCcEEEe
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP---KADTIFM 257 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P---~gD~~~l 257 (269)
.+|+|++||+|.++..++.+.+..+++..|+ |..++.++++ +.+++..+|..+-++ +-|++.+
T Consensus 59 ~~vLDl~aGsG~~~l~~a~~~~~~~V~a~Din~~Av~~a~~N~~~N~~~~~~v~~~Da~~~l~~~~~fD~V~l 131 (382)
T PRK04338 59 ESVLDALSASGIRGIRYALETGVEKVTLNDINPDAVELIKKNLELNGLENEKVFNKDANALLHEERKFDVVDI 131 (382)
T ss_pred CEEEECCCcccHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCceEEEhhhHHHHHhhcCCCCEEEE
Confidence 5899999999999999999888667899997 7777766542 556788888755222 2377765
No 259
>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=92.87 E-value=0.15 Score=29.23 Aligned_cols=31 Identities=16% Similarity=0.299 Sum_probs=25.3
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcc
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNAL 87 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l 87 (269)
++|-+|||+.+|+. .+ .+.|+|.-|...|++
T Consensus 2 ~mtr~diA~~lG~t------~E-TVSR~l~~l~~~glI 32 (32)
T PF00325_consen 2 PMTRQDIADYLGLT------RE-TVSRILKKLERQGLI 32 (32)
T ss_dssp E--HHHHHHHHTS-------HH-HHHHHHHHHHHTTSE
T ss_pred CcCHHHHHHHhCCc------HH-HHHHHHHHHHHcCCC
Confidence 57899999999997 67 999999999998874
No 260
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=92.85 E-value=0.46 Score=40.79 Aligned_cols=84 Identities=19% Similarity=0.236 Sum_probs=61.1
Q ss_pred HHhhchh----hHHHHHHhccCCCCccEEEEeCCCchHHHHHHHH-HCCCCeEEEeeh-hHHHHhCCCC-------CCce
Q 024350 173 MLSHTSI----VMEKVLESYKGFEHVKKLVDVGGGLGATLNMIIS-KYPHIKGINYDL-LYVIKNAPSY-------PGID 239 (269)
Q Consensus 173 m~~~~~~----~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~-~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~ 239 (269)
|...++. .+..|+.... .....+|+|.|-|+|.++..|+. -.|.=+.+.+|. +.-.+.|+++ ++|+
T Consensus 71 ~~R~tQiIyPKD~~~I~~~~g-i~pg~rVlEAGtGSG~lt~~La~~vg~~G~v~tyE~r~d~~k~A~~Nl~~~~l~d~v~ 149 (256)
T COG2519 71 MKRRTQIIYPKDAGYIVARLG-ISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGLGDRVT 149 (256)
T ss_pred CcCCCceecCCCHHHHHHHcC-CCCCCEEEEcccCchHHHHHHHHhhCCCceEEEEEecHHHHHHHHHHHHHhccccceE
Confidence 5555542 2334555555 66778999999999999999997 567788899985 6666666542 7799
Q ss_pred EEecccCCc-CCCC-cEEEe
Q 024350 240 HVGGDLFES-VPKA-DTIFM 257 (269)
Q Consensus 240 ~~~gD~~~~-~P~g-D~~~l 257 (269)
+..+|..+. .++- |+++|
T Consensus 150 ~~~~Dv~~~~~~~~vDav~L 169 (256)
T COG2519 150 LKLGDVREGIDEEDVDAVFL 169 (256)
T ss_pred EEeccccccccccccCEEEE
Confidence 999999883 4444 87776
No 261
>PF07091 FmrO: Ribosomal RNA methyltransferase (FmrO); PDB: 3LCU_A 3LCV_B 3FRH_A 3FRI_A 3B89_A 3FZG_A.
Probab=92.79 E-value=0.097 Score=44.86 Aligned_cols=72 Identities=22% Similarity=0.261 Sum_probs=52.2
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehh-HHHHhCCC-----CCCceEEecccCCcCCC--CcEEEeccccccC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLL-YVIKNAPS-----YPGIDHVGGDLFESVPK--ADTIFMKVICVCY 264 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp-~vv~~a~~-----~~ri~~~~gD~~~~~P~--gD~~~l~~iLhd~ 264 (269)
.+.+|+|||||--=++.-.....|+.+.+..|+. ..++.... ..+.+....|.....|+ .|+.++-.++|..
T Consensus 105 ~p~sVlDigCGlNPlalp~~~~~~~a~Y~a~DID~~~ve~l~~~l~~l~~~~~~~v~Dl~~~~~~~~~DlaLllK~lp~l 184 (251)
T PF07091_consen 105 PPDSVLDIGCGLNPLALPWMPEAPGATYIAYDIDSQLVEFLNAFLAVLGVPHDARVRDLLSDPPKEPADLALLLKTLPCL 184 (251)
T ss_dssp --SEEEEET-TTCHHHHHTTTSSTT-EEEEEESBHHHHHHHHHHHHHTT-CEEEEEE-TTTSHTTSEESEEEEET-HHHH
T ss_pred CCchhhhhhccCCceehhhcccCCCcEEEEEeCCHHHHHHHHHHHHhhCCCcceeEeeeeccCCCCCcchhhHHHHHHHH
Confidence 4789999999999999998999999999999984 44444332 26778888899998775 3999998888753
No 262
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=92.63 E-value=0.33 Score=38.71 Aligned_cols=52 Identities=8% Similarity=0.090 Sum_probs=44.2
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN 110 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~ 110 (269)
+++...+||+.++++ +. .+...++-|...|++++. .-+.+.+|+.|......
T Consensus 23 ~~~~~~diA~~L~Vs------p~-sVt~ml~rL~~~GlV~~~---~y~gi~LT~~G~~~a~~ 74 (154)
T COG1321 23 GFARTKDIAERLKVS------PP-SVTEMLKRLERLGLVEYE---PYGGVTLTEKGREKAKE 74 (154)
T ss_pred CcccHHHHHHHhCCC------cH-HHHHHHHHHHHCCCeEEe---cCCCeEEChhhHHHHHH
Confidence 699999999999998 56 889999999999999963 35779999988755544
No 263
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=92.63 E-value=0.39 Score=30.92 Aligned_cols=34 Identities=24% Similarity=0.249 Sum_probs=30.5
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
..+ |..+||+.+|++ .. .+++.|+.|...|++..
T Consensus 18 ~~l~s~~~la~~~~vs------~~-tv~~~l~~L~~~g~i~~ 52 (60)
T smart00345 18 DKLPSERELAAQLGVS------RT-TVREALSRLEAEGLVQR 52 (60)
T ss_pred CcCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE
Confidence 356 899999999998 67 99999999999999984
No 264
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=92.47 E-value=0.39 Score=34.72 Aligned_cols=46 Identities=15% Similarity=0.223 Sum_probs=39.7
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
..+.|...|... +|-.+.-||..++++ .. -+...++-|..+|++++
T Consensus 8 l~~~IL~hl~~~---~~Dy~k~ia~~l~~~------~~-~v~~~l~~Le~~GLler 53 (92)
T PF10007_consen 8 LDLKILQHLKKA---GPDYAKSIARRLKIP------LE-EVREALEKLEEMGLLER 53 (92)
T ss_pred hHHHHHHHHHHH---CCCcHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeEE
Confidence 345678888887 488999999999997 67 89999999999999994
No 265
>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=92.39 E-value=0.37 Score=36.06 Aligned_cols=47 Identities=21% Similarity=0.350 Sum_probs=38.3
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCC-----CCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIP-----LKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~-----~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
+.-|++.|...+ ++.|++||.+.+. ++ .. .+.|.|+.|+..|++.+.
T Consensus 3 R~~Il~~l~~~~--~~~sa~ei~~~l~~~~~~i~------~~-TVYR~L~~L~~~Gli~~~ 54 (116)
T cd07153 3 RLAILEVLLESD--GHLTAEEIYERLRKKGPSIS------LA-TVYRTLELLEEAGLVREI 54 (116)
T ss_pred HHHHHHHHHhCC--CCCCHHHHHHHHHhcCCCCC------HH-HHHHHHHHHHhCCCEEEE
Confidence 345788887754 6899999999984 43 45 899999999999999954
No 266
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=92.39 E-value=0.27 Score=41.52 Aligned_cols=54 Identities=15% Similarity=0.338 Sum_probs=48.3
Q ss_pred HHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 26 LPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 26 ~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
...+|...++..|++.|... +|+.+.|||+++|++ .. .+..-+..|...|++.-
T Consensus 16 v~kalaS~vRv~Il~lL~~k---~plNvneiAe~lgLp------qs-t~s~~ik~Le~aGlirT 69 (308)
T COG4189 16 VLKALASKVRVAILQLLHRK---GPLNVNEIAEALGLP------QS-TMSANIKVLEKAGLIRT 69 (308)
T ss_pred HHHHHHHHHHHHHHHHHHHh---CCCCHHHHHHHhCCc------hh-hhhhhHHHHHhcCceee
Confidence 45788899999999999997 599999999999997 56 88999999999999973
No 267
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=92.26 E-value=0.42 Score=33.32 Aligned_cols=43 Identities=14% Similarity=0.230 Sum_probs=37.8
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
|=|+|... |..++.+||..++.+ ++ .+..+|..|+.+|-+++.
T Consensus 7 lRd~l~~~---gr~s~~~Ls~~~~~p------~~-~VeaMLe~l~~kGkverv 49 (78)
T PRK15431 7 VRDLLALR---GRMEAAQISQTLNTP------QP-MINAMLQQLESMGKAVRI 49 (78)
T ss_pred HHHHHHHc---CcccHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeEee
Confidence 34778886 599999999999998 77 999999999999999953
No 268
>KOG3045 consensus Predicted RNA methylase involved in rRNA processing [RNA processing and modification]
Probab=92.16 E-value=0.49 Score=40.84 Aligned_cols=91 Identities=16% Similarity=0.241 Sum_probs=52.9
Q ss_pred hhccccCcchHHHHHHHHHh----hchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHh
Q 024350 156 YDYLGVDSSFNDVFSNGMLS----HTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKN 231 (269)
Q Consensus 156 ~~~~~~~p~~~~~f~~~m~~----~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~ 231 (269)
+..+.+||...+.++.+... +-......+++.+..-++...|.|+|||.+.++. . --.++.-+||-.+
T Consensus 139 ~~lfkedp~afdlYH~gfr~QV~kWP~nPld~ii~~ik~r~~~~vIaD~GCGEakiA~----~-~~~kV~SfDL~a~--- 210 (325)
T KOG3045|consen 139 FDLFKEDPTAFDLYHAGFRSQVKKWPENPLDVIIRKIKRRPKNIVIADFGCGEAKIAS----S-ERHKVHSFDLVAV--- 210 (325)
T ss_pred HHHHhcCcHHHHHHHHHHHHHHHhCCCChHHHHHHHHHhCcCceEEEecccchhhhhh----c-cccceeeeeeecC---
Confidence 44455677655544444333 3333445555554423467899999999999886 1 1223567776443
Q ss_pred CCCCCCceEEecccCC-cCCC-C-cEEEecc
Q 024350 232 APSYPGIDHVGGDLFE-SVPK-A-DTIFMKV 259 (269)
Q Consensus 232 a~~~~ri~~~~gD~~~-~~P~-g-D~~~l~~ 259 (269)
++| +++.|+-. |++. . |+.++.-
T Consensus 211 ---~~~--V~~cDm~~vPl~d~svDvaV~CL 236 (325)
T KOG3045|consen 211 ---NER--VIACDMRNVPLEDESVDVAVFCL 236 (325)
T ss_pred ---CCc--eeeccccCCcCccCcccEEEeeH
Confidence 233 46788887 6663 3 7766543
No 269
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=92.11 E-value=0.35 Score=42.60 Aligned_cols=65 Identities=22% Similarity=0.187 Sum_probs=54.1
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCe-EEEeeh-hHHHHhCCCC-----CCceEEecccCC
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIK-GINYDL-LYVIKNAPSY-----PGIDHVGGDLFE 247 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~-~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~ 247 (269)
..+++.+. .......||.-=|.|.++.++++++|... .+.+|. |.+++.+++. +|++++.++|-+
T Consensus 13 ~E~i~~L~-~~~~giyiD~TlG~GGHS~~iL~~l~~~~~li~~DrD~~Ai~~a~~~l~~~~~r~~~v~~~F~~ 84 (314)
T COG0275 13 NEVVELLA-PKPDGIYIDGTLGAGGHSRAILEKLPDLGRLIGIDRDPQAIAIAKERLKEFDGRVTLVHGNFAN 84 (314)
T ss_pred HHHHHhcc-cCCCcEEEEecCCCcHhHHHHHHhCCCCCeEEEEcCCHHHHHHHHHHhhccCCcEEEEeCcHHH
Confidence 45566665 45568999999999999999999999886 899997 8888888762 799999998865
No 270
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=91.96 E-value=0.45 Score=47.33 Aligned_cols=76 Identities=20% Similarity=0.121 Sum_probs=52.8
Q ss_pred HHHHHHhccCC-CCccEEEEeCCCchHHHHHHHHH----CC--------------------------------------C
Q 024350 181 MEKVLESYKGF-EHVKKLVDVGGGLGATLNMIISK----YP--------------------------------------H 217 (269)
Q Consensus 181 ~~~~~~~~~~~-~~~~~vvDvGGG~G~~~~~l~~~----~P--------------------------------------~ 217 (269)
+..++..-. | ++...++|-.||+|+++++.+.. .| .
T Consensus 178 Aaa~l~~a~-w~~~~~~l~DP~CGSGTilIEAa~~~~~~~pg~~r~~f~f~~~~~~~~~~w~~~~~~a~~~~~~~~~~~~ 256 (702)
T PRK11783 178 AAAILLRSG-WPQEGTPLLDPMCGSGTLLIEAAMMAADIAPGLHRERWGFSGWLGHDEALWQELLEEAQERARAGLAELP 256 (702)
T ss_pred HHHHHHHcC-CCCCCCeEEccCCCccHHHHHHHHHHhcCCCCccccccccccCCCCCHHHHHHHHHHHHHHHhhcccccC
Confidence 344554444 7 44579999999999999987652 11 2
Q ss_pred CeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCC-C--C-cEEEe
Q 024350 218 IKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVP-K--A-DTIFM 257 (269)
Q Consensus 218 l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P-~--g-D~~~l 257 (269)
.+.+++|+ |.+++.++.+ ++|++..+|+++ +.| . . |+++.
T Consensus 257 ~~i~G~Did~~av~~A~~N~~~~g~~~~i~~~~~D~~~~~~~~~~~~~d~Ivt 309 (702)
T PRK11783 257 SKFYGSDIDPRVIQAARKNARRAGVAELITFEVKDVADLKNPLPKGPTGLVIS 309 (702)
T ss_pred ceEEEEECCHHHHHHHHHHHHHcCCCcceEEEeCChhhcccccccCCCCEEEE
Confidence 35789997 7888777653 679999999987 433 1 2 66543
No 271
>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=91.91 E-value=0.37 Score=43.38 Aligned_cols=94 Identities=17% Similarity=0.126 Sum_probs=56.6
Q ss_pred HHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC---------
Q 024350 166 NDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY--------- 235 (269)
Q Consensus 166 ~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~--------- 235 (269)
.+.|+.++.+.-- ...+.....-....+|||+|||.|..+.-...+.+. +.+++|+ +..|+.|+..
T Consensus 38 lR~fNNwvKs~LI---~~~~~~~~~~~~~~~VLDl~CGkGGDL~Kw~~~~i~-~~vg~Dis~~si~ea~~Ry~~~~~~~~ 113 (331)
T PF03291_consen 38 LRNFNNWVKSVLI---QKYAKKVKQNRPGLTVLDLCCGKGGDLQKWQKAKIK-HYVGIDISEESIEEARERYKQLKKRNN 113 (331)
T ss_dssp HHHHHHHHHHHHH---HHHCHCCCCTTTT-EEEEET-TTTTTHHHHHHTT-S-EEEEEES-HHHHHHHHHHHHHHHTSTT
T ss_pred HHHHhHHHHHHHH---HHHHHhhhccCCCCeEEEecCCCchhHHHHHhcCCC-EEEEEeCCHHHHHHHHHHHHHhccccc
Confidence 5788888766332 112221110114689999999999988887776332 3688997 4556555431
Q ss_pred -------CCceEEecccCCc-----CC-C--C-cEEEecccccc
Q 024350 236 -------PGIDHVGGDLFES-----VP-K--A-DTIFMKVICVC 263 (269)
Q Consensus 236 -------~ri~~~~gD~~~~-----~P-~--g-D~~~l~~iLhd 263 (269)
-...++.+|.|.. ++ . . |++-+--.||+
T Consensus 114 ~~~~~~~f~a~f~~~D~f~~~l~~~~~~~~~~FDvVScQFalHY 157 (331)
T PF03291_consen 114 SKQYRFDFIAEFIAADCFSESLREKLPPRSRKFDVVSCQFALHY 157 (331)
T ss_dssp -HTSEECCEEEEEESTTCCSHHHCTSSSTTS-EEEEEEES-GGG
T ss_pred cccccccchhheeccccccchhhhhccccCCCcceeehHHHHHH
Confidence 1356688888852 23 3 3 99999999997
No 272
>PHA02943 hypothetical protein; Provisional
Probab=91.77 E-value=0.5 Score=37.22 Aligned_cols=43 Identities=12% Similarity=0.136 Sum_probs=36.4
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
.|.+.| +. |+.|..|||+++|++ -. .++-+|..|...|.+.+.
T Consensus 15 eILE~L-k~---G~~TtseIAkaLGlS------~~-qa~~~LyvLErEG~VkrV 57 (165)
T PHA02943 15 KTLRLL-AD---GCKTTSRIANKLGVS------HS-MARNALYQLAKEGMVLKV 57 (165)
T ss_pred HHHHHH-hc---CCccHHHHHHHHCCC------HH-HHHHHHHHHHHcCceEEE
Confidence 466777 32 689999999999998 66 889999999999999953
No 273
>COG2384 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=91.73 E-value=0.52 Score=39.66 Aligned_cols=64 Identities=16% Similarity=0.227 Sum_probs=49.3
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHH----HhCCC---CCCceEEecccCCcCC-C-C-cEEEec
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVI----KNAPS---YPGIDHVGGDLFESVP-K-A-DTIFMK 258 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv----~~a~~---~~ri~~~~gD~~~~~P-~-g-D~~~l~ 258 (269)
..+.||||-|+.+.+.+++.+|..++|.-|. |... ...++ .+||++..+|-+.++- . . |++.+.
T Consensus 18 ~~iaDIGsDHAYLp~~Lv~~~~~~~~va~eV~~gpl~~a~~~v~~~~l~~~i~vr~~dgl~~l~~~d~~d~ivIA 92 (226)
T COG2384 18 ARIADIGSDHAYLPIYLVKNNPASTAVAGEVVPGPLESAIRNVKKNNLSERIDVRLGDGLAVLELEDEIDVIVIA 92 (226)
T ss_pred CceeeccCchhHhHHHHHhcCCcceEEEeecccCHHHHHHHHHHhcCCcceEEEeccCCccccCccCCcCEEEEe
Confidence 4499999999999999999999999999996 3333 33333 2899999999988543 3 3 766553
No 274
>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=91.56 E-value=0.49 Score=30.29 Aligned_cols=40 Identities=8% Similarity=0.333 Sum_probs=32.7
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcC
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYN 85 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g 85 (269)
.|+..|.... +++|.++||+.++++ .. .+.+-+..|...|
T Consensus 4 ~il~~L~~~~--~~it~~eLa~~l~vS------~r-Ti~~~i~~L~~~~ 43 (55)
T PF08279_consen 4 QILKLLLESK--EPITAKELAEELGVS------RR-TIRRDIKELREWG 43 (55)
T ss_dssp HHHHHHHHTT--TSBEHHHHHHHCTS-------HH-HHHHHHHHHHHTT
T ss_pred HHHHHHHHcC--CCcCHHHHHHHhCCC------HH-HHHHHHHHHHHCC
Confidence 4566774443 579999999999998 67 9999999999999
No 275
>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=91.55 E-value=0.24 Score=41.31 Aligned_cols=68 Identities=19% Similarity=0.207 Sum_probs=47.1
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCC-------CCCceEEecccCCcCCC--CcEEEecc
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPS-------YPGIDHVGGDLFESVPK--ADTIFMKV 259 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~-------~~ri~~~~gD~~~~~P~--gD~~~l~~ 259 (269)
.+..+|+|.-||.|.++..+++..+..+++..|+ |..++-.++ ..+|+.+.+|..+-.+. .|-++|..
T Consensus 100 ~~~e~VlD~faGIG~f~l~~ak~~~~~~V~A~d~Np~a~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~~~~~drvim~l 177 (200)
T PF02475_consen 100 KPGEVVLDMFAGIGPFSLPIAKHGKAKRVYAVDLNPDAVEYLKENIRLNKVENRIEVINGDAREFLPEGKFDRVIMNL 177 (200)
T ss_dssp -TT-EEEETT-TTTTTHHHHHHHT-SSEEEEEES-HHHHHHHHHHHHHTT-TTTEEEEES-GGG---TT-EEEEEE--
T ss_pred CcceEEEEccCCccHHHHHHhhhcCccEEEEecCCHHHHHHHHHHHHHcCCCCeEEEEcCCHHHhcCccccCEEEECC
Confidence 3568999999999999999999888888999998 677664433 37899999998874443 38666643
No 276
>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=91.54 E-value=0.66 Score=30.45 Aligned_cols=32 Identities=16% Similarity=0.170 Sum_probs=28.8
Q ss_pred CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 51 LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 51 ~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.|..+||+.++++ .. .+.+.|..|...|+++.
T Consensus 26 ~~~~~la~~~~is------~~-~v~~~l~~L~~~G~i~~ 57 (66)
T cd07377 26 PSERELAEELGVS------RT-TVREALRELEAEGLVER 57 (66)
T ss_pred CCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEe
Confidence 4599999999998 56 99999999999999984
No 277
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=91.47 E-value=0.31 Score=46.30 Aligned_cols=67 Identities=13% Similarity=0.201 Sum_probs=53.2
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCC
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN 111 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~ 111 (269)
.+..++..|... +++|..+||+.++++ .. .+.++++-|.+.|+|+...+ ....|.+|+.|+.+....
T Consensus 7 ~e~~vL~~L~~~---~~~s~~eLA~~l~l~------~~-tVt~~i~~Le~kGlV~~~~~-~~~~i~LTeeG~~~~~~g 73 (489)
T PRK04172 7 NEKKVLKALKEL---KEATLEELAEKLGLP------PE-AVMRAAEWLEEKGLVKVEER-VEEVYVLTEEGKKYAEEG 73 (489)
T ss_pred HHHHHHHHHHhC---CCCCHHHHHHHhCcC------HH-HHHHHHHHHHhCCCEEEEee-eEEEEEECHHHHHHHHhc
Confidence 455666777664 589999999999997 56 89999999999999995422 246799999999766554
No 278
>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=91.37 E-value=0.46 Score=34.54 Aligned_cols=44 Identities=7% Similarity=0.112 Sum_probs=37.2
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
.++|..|||+.+|++ .. .+.|.|..|...|+|... .+-+.|..|
T Consensus 46 ~~is~~eLa~~~g~s------r~-tVsr~L~~Le~~GlI~r~--~~~~~~~~n 89 (95)
T TIGR01610 46 DRVTATVIAELTGLS------RT-HVSDAIKSLARRRIIFRQ--GMMGIVGVN 89 (95)
T ss_pred CccCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeeee--cCCceeecC
Confidence 589999999999998 56 999999999999999942 234778776
No 279
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=91.31 E-value=0.59 Score=35.61 Aligned_cols=48 Identities=19% Similarity=0.363 Sum_probs=42.1
Q ss_pred HHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 31 QAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 31 ~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
+..+...|.+.+.++ |.+|..+++..+|++ -. .+.+.++.|++.|-|.
T Consensus 10 r~eLk~rIvElVRe~---GRiTi~ql~~~TGas------R~-Tvk~~lreLVa~G~l~ 57 (127)
T PF06163_consen 10 REELKARIVELVREH---GRITIKQLVAKTGAS------RN-TVKRYLRELVARGDLY 57 (127)
T ss_pred HHHHHHHHHHHHHHc---CCccHHHHHHHHCCC------HH-HHHHHHHHHHHcCCeE
Confidence 455667788888887 599999999999997 56 8999999999999998
No 280
>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=90.97 E-value=0.44 Score=38.17 Aligned_cols=45 Identities=13% Similarity=0.064 Sum_probs=38.8
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
..|+++|... +.+|-+|||+.+|++ .. -++++|..|...|++.+.
T Consensus 17 v~Vl~aL~~~---~~~tdEeLa~~Lgi~------~~-~VRk~L~~L~e~~Lv~~~ 61 (158)
T TIGR00373 17 GLVLFSLGIK---GEFTDEEISLELGIK------LN-EVRKALYALYDAGLADYK 61 (158)
T ss_pred HHHHHHHhcc---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCceee
Confidence 3478888865 589999999999997 66 899999999999999743
No 281
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=90.90 E-value=0.65 Score=37.68 Aligned_cols=64 Identities=16% Similarity=0.135 Sum_probs=49.1
Q ss_pred hhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC--CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 23 AIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI--PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 23 ~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~--~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
..|...+++..+.+. + +.-++.+||+.+ +++ ++ -++.-|+.|..+|+++ ++++|.|..
T Consensus 22 ~~W~~~~ir~l~~l~--------~--~~~d~~~iak~l~p~is------~~-ev~~sL~~L~~~gli~---k~~~g~y~~ 81 (171)
T PF14394_consen 22 SSWYHPAIRELLPLM--------P--FAPDPEWIAKRLRPKIS------AE-EVRDSLEFLEKLGLIK---KDGDGKYVQ 81 (171)
T ss_pred hhhHHHHHHHHhhcC--------C--CCCCHHHHHHHhcCCCC------HH-HHHHHHHHHHHCCCeE---ECCCCcEEE
Confidence 456666666555432 1 234899999999 997 67 8999999999999999 566789999
Q ss_pred Chhchh
Q 024350 101 APVSKY 106 (269)
Q Consensus 101 t~~s~~ 106 (269)
|..+-.
T Consensus 82 t~~~l~ 87 (171)
T PF14394_consen 82 TDKSLT 87 (171)
T ss_pred ecceee
Confidence 886643
No 282
>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=90.67 E-value=0.89 Score=40.73 Aligned_cols=84 Identities=10% Similarity=0.184 Sum_probs=55.0
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHC----CCCeEEEeehh-HHHHh----CC--CCCCceE--EecccCCc
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKY----PHIKGINYDLL-YVIKN----AP--SYPGIDH--VGGDLFES 248 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~----P~l~~vv~Dlp-~vv~~----a~--~~~ri~~--~~gD~~~~ 248 (269)
+.+...++ ....+||+|||.|.=..-|+++. ...+.+-+|+. +.++. .+ ..+.|++ +.|||.+.
T Consensus 68 ~~Ia~~i~---~~~~lIELGsG~~~Kt~~LL~aL~~~~~~~~Y~plDIS~~~L~~a~~~L~~~~~p~l~v~~l~gdy~~~ 144 (319)
T TIGR03439 68 SDIAASIP---SGSMLVELGSGNLRKVGILLEALERQKKSVDYYALDVSRSELQRTLAELPLGNFSHVRCAGLLGTYDDG 144 (319)
T ss_pred HHHHHhcC---CCCEEEEECCCchHHHHHHHHHHHhcCCCceEEEEECCHHHHHHHHHhhhhccCCCeEEEEEEecHHHH
Confidence 34555544 34589999999998655555544 45678999973 34433 33 2366766 67999763
Q ss_pred ---CC-----C-C-cEEEeccccccCCCCC
Q 024350 249 ---VP-----K-A-DTIFMKVICVCYLNSL 268 (269)
Q Consensus 249 ---~P-----~-g-D~~~l~~iLhd~~d~~ 268 (269)
+| . . -++|+...+.++++++
T Consensus 145 l~~l~~~~~~~~~r~~~flGSsiGNf~~~e 174 (319)
T TIGR03439 145 LAWLKRPENRSRPTTILWLGSSIGNFSRPE 174 (319)
T ss_pred HhhcccccccCCccEEEEeCccccCCCHHH
Confidence 22 1 2 5678888999988765
No 283
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=90.53 E-value=0.67 Score=35.60 Aligned_cols=54 Identities=17% Similarity=0.239 Sum_probs=45.3
Q ss_pred HHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 26 LPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 26 ~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
....+.+--.+.|.+.|+.. +|.|..|||+..|-+ .. .+.|-|+.|.-.|++..
T Consensus 57 ~la~vLsp~nleLl~~Ia~~---~P~Si~ElAe~vgRd------v~-nvhr~Ls~l~~~GlI~f 110 (144)
T COG4190 57 DLARVLSPRNLELLELIAQE---EPASINELAELVGRD------VK-NVHRTLSTLADLGLIFF 110 (144)
T ss_pred HHHHHhChhHHHHHHHHHhc---CcccHHHHHHHhCcc------hH-HHHHHHHHHHhcCeEEE
Confidence 33444455667888999886 699999999999997 67 99999999999999984
No 284
>PRK06474 hypothetical protein; Provisional
Probab=90.48 E-value=0.5 Score=38.59 Aligned_cols=71 Identities=17% Similarity=0.267 Sum_probs=52.8
Q ss_pred HHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccceeec--C---CCeEec
Q 024350 27 PAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD--G---QRLYSL 100 (269)
Q Consensus 27 ~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~--~---~~~y~~ 100 (269)
..+|....++.|++.|...+ +++|+.+|++.+ +++ .. .+.|.|+.|...|+|...... + ...|++
T Consensus 5 ~~~La~p~R~~Il~~L~~~~--~~~ta~el~~~l~~is------~a-TvYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~ 75 (178)
T PRK06474 5 AEILMHPVRMKICQVLMRNK--EGLTPLELVKILKDVP------QA-TLYRHLQTMVDSGILHVVKEKKVRSVSEKYYAI 75 (178)
T ss_pred HHhhCCHHHHHHHHHHHhCC--CCCCHHHHHHHhcCCC------HH-HHHHHHHHHHHCCCEEEeecccccCceeEEEEe
Confidence 34666778889999998854 359999999999 575 45 899999999999999954211 1 134778
Q ss_pred Chhchh
Q 024350 101 APVSKY 106 (269)
Q Consensus 101 t~~s~~ 106 (269)
++.+..
T Consensus 76 ~~~~~~ 81 (178)
T PRK06474 76 NEEDAK 81 (178)
T ss_pred ccceee
Confidence 776543
No 285
>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=90.37 E-value=0.5 Score=31.44 Aligned_cols=34 Identities=18% Similarity=0.224 Sum_probs=29.4
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
..+ |..+||+.+|++ .. .+++.|+.|...|+++.
T Consensus 22 ~~lps~~~la~~~~vs------r~-tvr~al~~L~~~g~i~~ 56 (64)
T PF00392_consen 22 DRLPSERELAERYGVS------RT-TVREALRRLEAEGLIER 56 (64)
T ss_dssp SBE--HHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEE
T ss_pred CEeCCHHHHHHHhccC------Cc-HHHHHHHHHHHCCcEEE
Confidence 567 999999999998 66 89999999999999995
No 286
>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=90.34 E-value=0.33 Score=43.62 Aligned_cols=75 Identities=23% Similarity=0.314 Sum_probs=47.7
Q ss_pred ccCCCCccEEEEeCCCchHHHHHHHHHCCCCe-EEEeeh-h---HHHHhCCCC---CCceEEecccCC---cCCCCcEEE
Q 024350 188 YKGFEHVKKLVDVGGGLGATLNMIISKYPHIK-GINYDL-L---YVIKNAPSY---PGIDHVGGDLFE---SVPKADTIF 256 (269)
Q Consensus 188 ~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~-~vv~Dl-p---~vv~~a~~~---~ri~~~~gD~~~---~~P~gD~~~ 256 (269)
.++| .+++|+|||-|.|.-+.++-.-+|+++ +++++. | .|+.....+ .+-..-+.|+-. ++|..|.|-
T Consensus 109 ~~df-apqsiLDvG~GPgtgl~A~n~i~Pdl~sa~ile~sp~lrkV~~tl~~nv~t~~td~r~s~vt~dRl~lp~ad~yt 187 (484)
T COG5459 109 VPDF-APQSILDVGAGPGTGLWALNDIWPDLKSAVILEASPALRKVGDTLAENVSTEKTDWRASDVTEDRLSLPAADLYT 187 (484)
T ss_pred CCCc-CcchhhccCCCCchhhhhhcccCCCchhhhhhccCHHHHHHHHHHHhhcccccCCCCCCccchhccCCCccceee
Confidence 3434 357899999999999999999999997 566664 2 333322221 223333444443 567667776
Q ss_pred ecccccc
Q 024350 257 MKVICVC 263 (269)
Q Consensus 257 l~~iLhd 263 (269)
+.-++|.
T Consensus 188 l~i~~~e 194 (484)
T COG5459 188 LAIVLDE 194 (484)
T ss_pred hhhhhhh
Confidence 6666554
No 287
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=90.27 E-value=1.1 Score=36.97 Aligned_cols=63 Identities=14% Similarity=0.039 Sum_probs=47.1
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhhc
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFVR 109 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~~ 109 (269)
.+.-.|... +++|..+||+.++++ .. .+.++++-|...|+|.+.....+ -...+|+.|+.+..
T Consensus 49 ~iL~~L~~~---~~itq~eLa~~l~l~------~s-Tvtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~l~~ 114 (185)
T PRK13777 49 HILWIAYHL---KGASISEIAKFGVMH------VS-TAFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEELLL 114 (185)
T ss_pred HHHHHHHhC---CCcCHHHHHHHHCCC------Hh-hHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHH
Confidence 456666665 489999999999997 56 89999999999999995422222 23668888876553
No 288
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=90.03 E-value=0.57 Score=37.15 Aligned_cols=46 Identities=9% Similarity=0.192 Sum_probs=41.2
Q ss_pred HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
..+..|.+.|..+ +..|..+||+++|++ +. .+.+=++-|...|++.
T Consensus 9 ~~D~~Il~~Lq~d---~R~s~~eiA~~lglS------~~-tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 9 NLDRGILEALMEN---ARTPYAELAKQFGVS------PG-TIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHHHHc---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCee
Confidence 3577889999986 599999999999998 67 8999999999999998
No 289
>COG1733 Predicted transcriptional regulators [Transcription]
Probab=90.00 E-value=2 Score=32.64 Aligned_cols=76 Identities=14% Similarity=0.152 Sum_probs=56.2
Q ss_pred hHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCC-CCCCCchhHHHHHHHHHHHHHhcCccccee
Q 024350 13 NFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIP-LKDNNPEAAAMMLDRVLRLLVSYNALHCSF 91 (269)
Q Consensus 13 ~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~-~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 91 (269)
......+++.+-|..-+|+...+ |+.-..||-..++ ++ .. .|.+-|+.|...|++.+..
T Consensus 12 ~~~~~l~~ig~kW~~lIl~~L~~-------------g~~RF~eL~r~i~~Is------~k-~Ls~~Lk~Le~~Glv~R~~ 71 (120)
T COG1733 12 PVEEALEVIGGKWTLLILRDLFD-------------GPKRFNELRRSIGGIS------PK-MLSRRLKELEEDGLVERVV 71 (120)
T ss_pred CHHHHHHHHcCccHHHHHHHHhc-------------CCCcHHHHHHHccccC------HH-HHHHHHHHHHHCCCEEeee
Confidence 35666777777777777665443 4788999999988 87 56 9999999999999999531
Q ss_pred ec---CCCeEecChhchhhh
Q 024350 92 VD---GQRLYSLAPVSKYFV 108 (269)
Q Consensus 92 ~~---~~~~y~~t~~s~~l~ 108 (269)
-. ..-.|++|+.|+.|.
T Consensus 72 ~~~~PprveY~LT~~G~~L~ 91 (120)
T COG1733 72 YPEEPPRVEYRLTEKGRDLL 91 (120)
T ss_pred cCCCCceeEEEEhhhHHHHH
Confidence 11 124599999887655
No 290
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=89.99 E-value=0.52 Score=40.86 Aligned_cols=47 Identities=19% Similarity=0.414 Sum_probs=41.5
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
+..+.++|...| |.++-+||.+++|++ .. .+.|+|+-|..+|++++.
T Consensus 197 e~~il~~i~~~G--Gri~Q~eL~r~lgls------kt-TvsR~L~~LEk~GlIe~~ 243 (258)
T COG2512 197 EKEILDLIRERG--GRITQAELRRALGLS------KT-TVSRILRRLEKRGLIEKE 243 (258)
T ss_pred HHHHHHHHHHhC--CEEeHHHHHHhhCCC------hH-HHHHHHHHHHhCCceEEE
Confidence 345788888887 889999999999998 56 899999999999999964
No 291
>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=89.67 E-value=0.69 Score=30.58 Aligned_cols=34 Identities=9% Similarity=0.241 Sum_probs=31.0
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
++++..+||+.+|++ +. .+...++-|...|+|++
T Consensus 21 ~~v~~~~iA~~L~vs------~~-tvt~ml~~L~~~GlV~~ 54 (60)
T PF01325_consen 21 GPVRTKDIAERLGVS------PP-TVTEMLKRLAEKGLVEY 54 (60)
T ss_dssp SSBBHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEEE
T ss_pred CCccHHHHHHHHCCC------hH-HHHHHHHHHHHCCCEEe
Confidence 799999999999998 66 89999999999999995
No 292
>PRK05638 threonine synthase; Validated
Probab=89.65 E-value=0.59 Score=43.80 Aligned_cols=60 Identities=15% Similarity=0.284 Sum_probs=44.9
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCC--CCCCCchhHHHHHHHHHHHHHhcCcccceeecC-CCeEecChhchhhh
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIP--LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDG-QRLYSLAPVSKYFV 108 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~--~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~-~~~y~~t~~s~~l~ 108 (269)
|+..|.+ ++++..||++.++ ++ .. .+.+.|+.|...|+|+...+.+ .-.|++|+.++.+.
T Consensus 376 IL~~L~~----~~~~~~el~~~l~~~~s------~~-~v~~hL~~Le~~GLV~~~~~~g~~~~Y~Lt~~g~~~l 438 (442)
T PRK05638 376 ILKILSE----REMYGYEIWKALGKPLK------YQ-AVYQHIKELEELGLIEEAYRKGRRVYYKLTEKGRRLL 438 (442)
T ss_pred HHHHHhh----CCccHHHHHHHHcccCC------cc-hHHHHHHHHHHCCCEEEeecCCCcEEEEECcHHHHHH
Confidence 5555655 5899999999998 65 45 9999999999999998421112 23499999887544
No 293
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=89.62 E-value=0.85 Score=33.82 Aligned_cols=70 Identities=16% Similarity=0.206 Sum_probs=50.4
Q ss_pred HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCC---CeEecChhchhhh
Q 024350 32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQ---RLYSLAPVSKYFV 108 (269)
Q Consensus 32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~---~~y~~t~~s~~l~ 108 (269)
.-.+..++..|...+ +.+..+||+.++++ .. .+.++++-|...|+|.+..-..+ -.+.+|+.|+.+.
T Consensus 21 t~~q~~~L~~l~~~~---~~~~~~la~~l~i~------~~-~vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~~G~~~~ 90 (126)
T COG1846 21 TPPQYQVLLALYEAG---GITVKELAERLGLD------RS-TVTRLLKRLEDKGLIERLRDPEDRRAVLVRLTEKGRELL 90 (126)
T ss_pred CHHHHHHHHHHHHhC---CCcHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeeecCCccccceeeEEECccHHHHH
Confidence 445566777777753 44449999999997 67 99999999999999995422122 2478888887655
Q ss_pred cCC
Q 024350 109 RNN 111 (269)
Q Consensus 109 ~~~ 111 (269)
...
T Consensus 91 ~~~ 93 (126)
T COG1846 91 EQL 93 (126)
T ss_pred HHh
Confidence 443
No 294
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=89.61 E-value=0.51 Score=37.88 Aligned_cols=47 Identities=13% Similarity=0.198 Sum_probs=42.2
Q ss_pred HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
..++..|+.+|.++ +.+|..+||+++|++ +. .+.+=++-|...|++.
T Consensus 13 D~~D~~IL~~Lq~d---~R~s~~eiA~~lglS------~~-tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKD---GRISNVELSKRVGLS------PT-PCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccC---CCCCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCeE
Confidence 45688899999986 599999999999998 67 8999999999999998
No 295
>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=89.61 E-value=0.65 Score=31.28 Aligned_cols=39 Identities=23% Similarity=0.301 Sum_probs=30.3
Q ss_pred HhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 43 TKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 43 ~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.+.| -|-|+.|||+.+|+. . .. .+.+.|+.|...|++..
T Consensus 20 ~~~G--~~Pt~rEIa~~~g~~--S---~~-tv~~~L~~Le~kG~I~r 58 (65)
T PF01726_consen 20 EENG--YPPTVREIAEALGLK--S---TS-TVQRHLKALERKGYIRR 58 (65)
T ss_dssp HHHS--S---HHHHHHHHTSS--S---HH-HHHHHHHHHHHTTSEEE
T ss_pred HHcC--CCCCHHHHHHHhCCC--C---hH-HHHHHHHHHHHCcCccC
Confidence 4455 578999999999995 2 46 89999999999999994
No 296
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=89.28 E-value=0.76 Score=43.36 Aligned_cols=69 Identities=12% Similarity=0.150 Sum_probs=55.3
Q ss_pred HHHhcChhHHHHhcCCCCC-CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350 32 AVVELDVFEIITKAGPGAK-LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN 110 (269)
Q Consensus 32 ~a~~lglfd~L~~~g~~~~-~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~ 110 (269)
++++..|+..|... ++ .+..+||+.+|++ .. .+.+.+..|.+.|+++... .....|.+|+.|+..+..
T Consensus 2 ~~~e~~iL~~l~~~---~~~~~~~~la~~~g~~------~~-~v~~~~~~L~~kg~v~~~~-~~~~~~~LT~eG~~~l~~ 70 (492)
T PLN02853 2 AMAEEALLGALSNN---EEISDSGQFAASHGLD------HN-EVVGVIKSLHGFRYVDAQD-IKRETWVLTEEGKKYAAE 70 (492)
T ss_pred chHHHHHHHHHHhc---CCCCCHHHHHHHcCCC------HH-HHHHHHHHHHhCCCEEEEE-EEEEEEEECHHHHHHHHc
Confidence 35567788888875 34 8999999999997 56 8999999999999998653 346889999999966655
Q ss_pred C
Q 024350 111 N 111 (269)
Q Consensus 111 ~ 111 (269)
.
T Consensus 71 G 71 (492)
T PLN02853 71 G 71 (492)
T ss_pred C
Confidence 4
No 297
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=89.01 E-value=0.85 Score=39.30 Aligned_cols=60 Identities=15% Similarity=0.159 Sum_probs=46.7
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhh
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYF 107 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l 107 (269)
.+.-+|-.. |+.|+.|||+.+|++ .. .+..+|+-|...|++... ...+..|+.-+-...+
T Consensus 20 ~vY~aLl~~---g~~tA~eis~~sgvP------~~-kvY~vl~sLe~kG~v~~~-~g~P~~y~av~p~~~i 79 (247)
T COG1378 20 KVYLALLCL---GEATAKEISEASGVP------RP-KVYDVLRSLEKKGLVEVI-EGRPKKYRAVPPEELI 79 (247)
T ss_pred HHHHHHHHh---CCccHHHHHHHcCCC------ch-hHHHHHHHHHHCCCEEee-CCCCceEEeCCHHHHH
Confidence 355556555 599999999999997 45 899999999999999954 2357889886655433
No 298
>KOG4589 consensus Cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning]
Probab=88.74 E-value=0.86 Score=37.50 Aligned_cols=44 Identities=18% Similarity=0.326 Sum_probs=34.4
Q ss_pred HhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeehhHHH
Q 024350 186 ESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDLLYVI 229 (269)
Q Consensus 186 ~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dlp~vv 229 (269)
+.|.-+....+|+|+|+..|.++.-..++. |+=.+.++|+-++.
T Consensus 62 dKy~~l~p~~~VlD~G~APGsWsQVavqr~~p~g~v~gVDllh~~ 106 (232)
T KOG4589|consen 62 DKYRFLRPEDTVLDCGAAPGSWSQVAVQRVNPNGMVLGVDLLHIE 106 (232)
T ss_pred hhccccCCCCEEEEccCCCChHHHHHHHhhCCCceEEEEeeeecc
Confidence 334424456899999999999999888876 99888999985543
No 299
>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=88.66 E-value=0.69 Score=34.13 Aligned_cols=42 Identities=12% Similarity=0.290 Sum_probs=32.5
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
|++.|... +.++-++||+.+|++ .. -++++|..|...|++..
T Consensus 18 Il~~L~~~---~~l~de~la~~~~l~------~~-~vRkiL~~L~~~~lv~~ 59 (105)
T PF02002_consen 18 ILDALLRK---GELTDEDLAKKLGLK------PK-EVRKILYKLYEDGLVSY 59 (105)
T ss_dssp HHHHHHHH-----B-HHHHHHTT-S-------HH-HHHHHHHHHHHHSS-EE
T ss_pred HHHHHHHc---CCcCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCeEE
Confidence 68888866 589999999999997 56 89999999999999974
No 300
>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=88.51 E-value=1.5 Score=37.76 Aligned_cols=74 Identities=15% Similarity=0.237 Sum_probs=49.1
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHH-CCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC-cCC--
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISK-YPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE-SVP-- 250 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~-~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~-~~P-- 250 (269)
.|+-..+ .....+|++.|-|+|.++..|++. .|+=+..-+|. ++-++.|+++ +.|++..+|.-+ .++
T Consensus 31 ~I~~~l~-i~pG~~VlEaGtGSG~lt~~l~r~v~p~G~v~t~E~~~~~~~~A~~n~~~~gl~~~v~~~~~Dv~~~g~~~~ 109 (247)
T PF08704_consen 31 YILMRLD-IRPGSRVLEAGTGSGSLTHALARAVGPTGHVYTYEFREDRAEKARKNFERHGLDDNVTVHHRDVCEEGFDEE 109 (247)
T ss_dssp HHHHHTT---TT-EEEEE--TTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHHHTTCCTTEEEEES-GGCG--STT
T ss_pred HHHHHcC-CCCCCEEEEecCCcHHHHHHHHHHhCCCeEEEccccCHHHHHHHHHHHHHcCCCCCceeEecceeccccccc
Confidence 3455556 666789999999999999999975 58888888986 5555555542 689999999965 333
Q ss_pred --CC-cEEEe
Q 024350 251 --KA-DTIFM 257 (269)
Q Consensus 251 --~g-D~~~l 257 (269)
.. |.+||
T Consensus 110 ~~~~~DavfL 119 (247)
T PF08704_consen 110 LESDFDAVFL 119 (247)
T ss_dssp -TTSEEEEEE
T ss_pred ccCcccEEEE
Confidence 23 88776
No 301
>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=88.16 E-value=2.2 Score=36.38 Aligned_cols=72 Identities=21% Similarity=0.264 Sum_probs=50.9
Q ss_pred hHHHhhhHHHHHHHHHhhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc
Q 024350 7 QEEEANNFSYAMELASAIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA 86 (269)
Q Consensus 7 ~~~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~ 86 (269)
+-|++.--..+.+++.+...+.=|.+.- .|++.|... ++.++..+||+++|++ .. .+++=++.|.+.|+
T Consensus 159 ~iEee~Rkka~Vq~Ai~tLSySEleAv~--~IL~~L~~~--egrlse~eLAerlGVS------Rs-~ireAlrkLE~aGv 227 (251)
T TIGR02787 159 EIEEEARKKAAVQMAINTLSYSELEAVE--HIFEELDGN--EGLLVASKIADRVGIT------RS-VIVNALRKLESAGV 227 (251)
T ss_pred HHHHHHHHHHHHHHHHHhccHhHHHHHH--HHHHHhccc--cccccHHHHHHHHCCC------HH-HHHHHHHHHHHCCC
Confidence 3344444444556655544443333332 478888772 1589999999999998 67 99999999999999
Q ss_pred ccc
Q 024350 87 LHC 89 (269)
Q Consensus 87 l~~ 89 (269)
+..
T Consensus 228 Ie~ 230 (251)
T TIGR02787 228 IES 230 (251)
T ss_pred EEe
Confidence 995
No 302
>PF02527 GidB: rRNA small subunit methyltransferase G; InterPro: IPR003682 This entry represents a rRNA small subunit methyltransferase G. Previously identified as a glucose-inhibited division protein B that appears to be present and in a single copy in all complete eubacterial genomes so far sequenced. Specifically methylates the N7 position of a guanosine in 16S rRNA [, , ].; GO: 0008649 rRNA methyltransferase activity, 0006364 rRNA processing, 0005737 cytoplasm; PDB: 1XDZ_A 3G88_A 3G8A_B 3G89_B 3G8B_B 1JSX_A.
Probab=88.00 E-value=0.59 Score=38.42 Aligned_cols=65 Identities=15% Similarity=0.248 Sum_probs=44.5
Q ss_pred EEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hH---HHHhCC---CCCCceEEecccCC-cCCCC-cEEEeccc
Q 024350 196 KLVDVGGGLGATLNMIISKYPHIKGINYDL-LY---VIKNAP---SYPGIDHVGGDLFE-SVPKA-DTIFMKVI 260 (269)
Q Consensus 196 ~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~---vv~~a~---~~~ri~~~~gD~~~-~~P~g-D~~~l~~i 260 (269)
+++|||.|.|.=++-++=.+|+++++++|. .. .++.+. ..++++++.+..-+ ..+.. |+++.+-+
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 799999999999999999999999999994 21 122111 13678888877755 23333 88877654
No 303
>COG0357 GidB Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]
Probab=87.96 E-value=0.5 Score=39.80 Aligned_cols=66 Identities=18% Similarity=0.253 Sum_probs=43.9
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-h---HHHHhCCC---CCCceEEecccCCc--CCC-CcEEEecc
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-L---YVIKNAPS---YPGIDHVGGDLFES--VPK-ADTIFMKV 259 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p---~vv~~a~~---~~ri~~~~gD~~~~--~P~-gD~~~l~~ 259 (269)
..+++|||.|.|.=++-++=.+|+++++++|. . .-++.+.. .+.++++.+..-+- .++ -|++..|-
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 58999999999999999999999999999994 1 11222211 25566666554431 123 46665543
No 304
>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=87.80 E-value=0.48 Score=32.49 Aligned_cols=43 Identities=16% Similarity=0.321 Sum_probs=34.6
Q ss_pred CCCCHHHHHHhC---CCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEe
Q 024350 49 AKLSVSEIVAQI---PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYS 99 (269)
Q Consensus 49 ~~~s~~eLA~~~---~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~ 99 (269)
+.+++.++|+.+ +.. +. .+ ++.-++..|.++|++++ .+...|.
T Consensus 23 ~~i~l~~ia~~l~~~~~k--~~--~R-RlYDI~NVLealgli~K---~~k~~~~ 68 (71)
T PF02319_consen 23 KSISLNEIADKLISENVK--TQ--RR-RLYDIINVLEALGLIEK---QSKNSYK 68 (71)
T ss_dssp TEEEHHHHHHHCHHHCCH--HH--CH-HHHHHHHHHHHCTSEEE---EETTEEE
T ss_pred CcccHHHHHHHHcccccc--cc--cc-hhhHHHHHHHHhCceee---cCCCceE
Confidence 689999999999 882 11 56 99999999999999994 3456664
No 305
>PF09929 DUF2161: Uncharacterized conserved protein (DUF2161); InterPro: IPR018679 This family of various hypothetical prokaryotic proteins has no known function.
Probab=87.73 E-value=0.98 Score=34.05 Aligned_cols=50 Identities=12% Similarity=0.217 Sum_probs=38.3
Q ss_pred HHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350 40 EIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK 105 (269)
Q Consensus 40 d~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~ 105 (269)
.+|... ||.+..+|++.++++ ...+||+. --.|.|+ +.+.|.|.+|+.|+
T Consensus 66 ~~L~~~---Gp~~~~~l~~~~~~~---------~A~~IL~~-N~YGWFe---Rv~rGvY~LT~~G~ 115 (118)
T PF09929_consen 66 AALAEH---GPSRPADLRKATGVP---------KATSILRD-NHYGWFE---RVERGVYALTPAGR 115 (118)
T ss_pred HHHHHc---CCCCHHHHHHhcCCC---------hHHHHHHh-Cccccee---eeccceEecCcchh
Confidence 467765 699999999999996 34445442 3468898 66789999999886
No 306
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=87.71 E-value=0.98 Score=35.45 Aligned_cols=46 Identities=13% Similarity=0.314 Sum_probs=41.1
Q ss_pred HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
.++..|...|... ++.|..+||+.+|++ +. .+.+-++-|...|++.
T Consensus 8 ~~D~~IL~~L~~d---~r~~~~eia~~lglS------~~-~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 8 DIDRRILRLLQED---ARISNAELAERVGLS------PS-TVLRRIKRLEEEGVIK 53 (154)
T ss_pred HHHHHHHHHHHHh---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCcee
Confidence 4567788999886 589999999999998 67 8999999999999998
No 307
>COG4076 Predicted RNA methylase [General function prediction only]
Probab=87.70 E-value=1 Score=37.07 Aligned_cols=61 Identities=18% Similarity=0.174 Sum_probs=45.5
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC-cCCCCcEEEe
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE-SVPKADTIFM 257 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~-~~P~gD~~~l 257 (269)
.++.|+|.|+|-++.-.+++ .=+++.+++ |...+.+.++ ..++++.||..+ .+-++|++++
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 46889999999988766655 446778886 6665556553 789999999988 6755688764
No 308
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=87.51 E-value=1.3 Score=41.89 Aligned_cols=69 Identities=9% Similarity=0.186 Sum_probs=54.5
Q ss_pred HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCC
Q 024350 33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN 111 (269)
Q Consensus 33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~ 111 (269)
..+..|+..|...+ +..+..+||+.+|++ .. .+.+.+..|.+.|+++... .....|.+|+.|+..+.+.
T Consensus 6 ~~e~~iL~~l~~~~--~~~~~~~la~~~~~~------~~-~v~~~~~~L~~kg~v~~~~-~~~~~~~LT~eG~~~~~~G 74 (494)
T PTZ00326 6 LEENTILSKLESEN--EIVNSLALAESLNID------HQ-KVVGAIKSLESANYITTEM-KKSNTWTLTEEGEDYLKNG 74 (494)
T ss_pred HHHHHHHHHHHhcC--CCCCHHHHHHHcCCC------HH-HHHHHHHHHHhCCCEEEEE-EEEEEEEECHHHHHHHHcC
Confidence 34556777887632 479999999999997 56 8999999999999998653 3468899999999666554
No 309
>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=87.37 E-value=1 Score=37.78 Aligned_cols=67 Identities=16% Similarity=0.119 Sum_probs=44.6
Q ss_pred CCccEEEEeCCCchHHHHHHHH--HCCCCeEEEeeh-hHHHHhCCCC----------------CCceEEecccCCcCC-C
Q 024350 192 EHVKKLVDVGGGLGATLNMIIS--KYPHIKGINYDL-LYVIKNAPSY----------------PGIDHVGGDLFESVP-K 251 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~--~~P~l~~vv~Dl-p~vv~~a~~~----------------~ri~~~~gD~~~~~P-~ 251 (269)
....++||||+|+|.+...+.. .-|....+++|+ |++|+..++. .++.++.||-..-.+ .
T Consensus 81 ~pG~s~LdvGsGSGYLt~~~~~mvg~~g~~~~GIEh~~eLVe~Sk~nl~k~i~~~e~~~~~~~~~l~ivvGDgr~g~~e~ 160 (237)
T KOG1661|consen 81 QPGASFLDVGSGSGYLTACFARMVGATGGNVHGIEHIPELVEYSKKNLDKDITTSESSSKLKRGELSIVVGDGRKGYAEQ 160 (237)
T ss_pred ccCcceeecCCCccHHHHHHHHHhcCCCccccchhhhHHHHHHHHHHHHhhccCchhhhhhccCceEEEeCCccccCCcc
Confidence 3446899999999987766552 223333367775 8888765531 678899999887444 3
Q ss_pred C--cEEEec
Q 024350 252 A--DTIFMK 258 (269)
Q Consensus 252 g--D~~~l~ 258 (269)
+ |.|+..
T Consensus 161 a~YDaIhvG 169 (237)
T KOG1661|consen 161 APYDAIHVG 169 (237)
T ss_pred CCcceEEEc
Confidence 3 776543
No 310
>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]
Probab=87.33 E-value=1.5 Score=35.42 Aligned_cols=68 Identities=21% Similarity=0.323 Sum_probs=49.5
Q ss_pred hhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHC-CCCeEEEeeh-hHHHHhCC-CCCCceEEecccCC
Q 024350 179 IVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKY-PHIKGINYDL-LYVIKNAP-SYPGIDHVGGDLFE 247 (269)
Q Consensus 179 ~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~-~~~ri~~~~gD~~~ 247 (269)
..++......+ |+...-|+.+|.|+|.+.++++++- ++-..+.++. |+-+.... ..+.++++.||.|.
T Consensus 35 ~lA~~M~s~I~-pesglpVlElGPGTGV~TkaIL~~gv~~~~L~~iE~~~dF~~~L~~~~p~~~ii~gda~~ 105 (194)
T COG3963 35 ILARKMASVID-PESGLPVLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLNQLYPGVNIINGDAFD 105 (194)
T ss_pred HHHHHHHhccC-cccCCeeEEEcCCccHhHHHHHhcCCCccceEEEEeCHHHHHHHHHhCCCccccccchhh
Confidence 33455566777 8777899999999999999998864 4444455553 55555444 45888899999986
No 311
>KOG2730 consensus Methylase [General function prediction only]
Probab=87.31 E-value=0.33 Score=40.87 Aligned_cols=53 Identities=23% Similarity=0.303 Sum_probs=42.8
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFE 247 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~ 247 (269)
+...|+|.-||-|.-.+.++..+|.+ +.+|. |--+..|+.+ +||+|+.|||++
T Consensus 94 ~~~~iidaf~g~gGntiqfa~~~~~V--isIdiDPikIa~AkhNaeiYGI~~rItFI~GD~ld 154 (263)
T KOG2730|consen 94 NAEVIVDAFCGVGGNTIQFALQGPYV--IAIDIDPVKIACARHNAEVYGVPDRITFICGDFLD 154 (263)
T ss_pred CcchhhhhhhcCCchHHHHHHhCCeE--EEEeccHHHHHHHhccceeecCCceeEEEechHHH
Confidence 56789999888888889999998875 66776 5556666643 899999999997
No 312
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=87.22 E-value=1.1 Score=41.70 Aligned_cols=43 Identities=26% Similarity=0.243 Sum_probs=37.0
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
++.|.++|++.++++ ++ .++++|+.|...|++. +.+++.|.++
T Consensus 309 ~~~t~~~La~~l~~~------~~-~v~~iL~~L~~agLI~---~~~~g~~~l~ 351 (412)
T PRK04214 309 KALDVDEIRRLEPMG------YD-ELGELLCELARIGLLR---RGERGQWVLA 351 (412)
T ss_pred CCCCHHHHHHHhCCC------HH-HHHHHHHHHHhCCCeE---ecCCCceEec
Confidence 689999999999997 67 9999999999999998 4455667664
No 313
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=86.96 E-value=1.6 Score=37.21 Aligned_cols=86 Identities=14% Similarity=0.221 Sum_probs=58.9
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCCCCCCChHHHHHhhc-Ch
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNNQNGASLRPYMALSL-DK 127 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~-~~ 127 (269)
......|||+.+|+. +- .+...++-|+..|+++ +.+.++|..|..|...+..+ -..++.++.... .-
T Consensus 24 p~v~q~eIA~~lgiT------~Q-aVsehiK~Lv~eG~i~---~~gR~~Y~iTkkG~e~l~~~--~~dlr~f~~ev~~~l 91 (260)
T COG1497 24 PRVKQKEIAKKLGIT------LQ-AVSEHIKELVKEGLIE---KEGRGEYEITKKGAEWLLEQ--LSDLRRFSEEVELVL 91 (260)
T ss_pred CCCCHHHHHHHcCCC------HH-HHHHHHHHHHhcccee---ecCCeeEEEehhHHHHHHHH--HHHHHHHHHHHHHHH
Confidence 368999999999997 55 9999999999999999 44567999999988655443 234555544321 11
Q ss_pred hhHhhhhhhH-HHHhhCCch
Q 024350 128 VLMDGWFRLK-GQILEGGIA 146 (269)
Q Consensus 128 ~~~~~~~~l~-~~l~~~~~~ 146 (269)
.....|..++ +-++.|.+.
T Consensus 92 ~~~~vw~AIA~edI~~Gd~V 111 (260)
T COG1497 92 DYVMVWTAIAKEDIKEGDTV 111 (260)
T ss_pred hhHHHHHHhhHhhhccCCEE
Confidence 1234565554 335556554
No 314
>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=86.94 E-value=2.5 Score=29.48 Aligned_cols=51 Identities=6% Similarity=-0.087 Sum_probs=39.7
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYF 107 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l 107 (269)
.|+..++||+.++++ +. -++..|..|..+|+|+..+-. .+-|..|..+-.+
T Consensus 22 ~PVgSk~ia~~l~~s------~a-TIRN~M~~Le~lGlve~~p~~-s~GriPT~~aYr~ 72 (78)
T PF03444_consen 22 EPVGSKTIAEELGRS------PA-TIRNEMADLEELGLVESQPHP-SGGRIPTDKAYRA 72 (78)
T ss_pred CCcCHHHHHHHHCCC------hH-HHHHHHHHHHHCCCccCCCCC-CCCCCcCHHHHHH
Confidence 699999999999997 56 899999999999999842111 3557777766533
No 315
>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=86.73 E-value=1.1 Score=36.07 Aligned_cols=43 Identities=16% Similarity=0.267 Sum_probs=38.1
Q ss_pred CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350 51 LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV 103 (269)
Q Consensus 51 ~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~ 103 (269)
+|.++||+.+|++ .. .+.|.+..|...+|+. +...|.|.+||.
T Consensus 76 ~t~~~ia~~l~iS------~~-Tv~r~ik~L~e~~iI~---k~~~G~Y~iNP~ 118 (165)
T PF05732_consen 76 ATQKEIAEKLGIS------KP-TVSRAIKELEEKNIIK---KIRNGAYMINPN 118 (165)
T ss_pred eeHHHHHHHhCCC------HH-HHHHHHHHHHhCCcEE---EccCCeEEECcH
Confidence 6899999999998 56 8999999999999999 445689999884
No 316
>COG5631 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]
Probab=86.57 E-value=2.2 Score=34.04 Aligned_cols=77 Identities=16% Similarity=0.155 Sum_probs=55.8
Q ss_pred HHhhHHHHHHHHHHhcC-------hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeec
Q 024350 21 ASAIVLPAAMQAVVELD-------VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD 93 (269)
Q Consensus 21 ~~~~~~~~~L~~a~~lg-------lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~ 93 (269)
+++-|...|+.+|.+.+ |...+.-.+ .+.++.||+..++.+ | -. .+..-||-|...|+++.....
T Consensus 64 Af~rW~vrCmAaag~~~ls~~e~l~lH~irhrd--R~K~laDic~~ln~e--D---th-~itYslrKL~k~gLit~t~~g 135 (199)
T COG5631 64 AFGRWQVRCMAAAGEFSLSGPENLLLHIIRHRD--RPKSLADICQMLNRE--D---TH-NITYSLRKLLKGGLITRTGSG 135 (199)
T ss_pred HHHHHHHHHHHHhcCCCCcchHHHHHHHHhhcC--chhhHHHHHHHhccc--c---ch-hHHHHHHHHHhccceecCCCC
Confidence 45778888999888766 334444444 799999999999997 3 23 788889999999999932111
Q ss_pred CCCeEecChhch
Q 024350 94 GQRLYSLAPVSK 105 (269)
Q Consensus 94 ~~~~y~~t~~s~ 105 (269)
..-.|..|+.|.
T Consensus 136 kevTy~vTa~G~ 147 (199)
T COG5631 136 KEVTYEVTALGH 147 (199)
T ss_pred ceEEEEEecchH
Confidence 124588888764
No 317
>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=86.37 E-value=0.42 Score=40.19 Aligned_cols=75 Identities=13% Similarity=0.143 Sum_probs=43.0
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEee-hhHHHHhCCC-----CCC-ceEEecccCCcCCC--C-cEEEeccccc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYD-LLYVIKNAPS-----YPG-IDHVGGDLFESVPK--A-DTIFMKVICV 262 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~D-lp~vv~~a~~-----~~r-i~~~~gD~~~~~P~--g-D~~~l~~iLh 262 (269)
+..+.+|+|+|.|.+...++..+=+ ++-++| .+.-++.|++ .++ .++...-+-+-.|+ - |+|++-+++-
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 4689999999999999988755422 244445 3666666652 233 33444433332453 4 9999999999
Q ss_pred cCCCCC
Q 024350 263 CYLNSL 268 (269)
Q Consensus 263 d~~d~~ 268 (269)
+.+|++
T Consensus 134 hLTD~d 139 (218)
T PF05891_consen 134 HLTDED 139 (218)
T ss_dssp GS-HHH
T ss_pred cCCHHH
Confidence 988865
No 318
>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=85.90 E-value=0.53 Score=38.61 Aligned_cols=63 Identities=22% Similarity=0.219 Sum_probs=44.3
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-------CCceEEecccCCcC------CCC-cEEEe
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-------PGIDHVGGDLFESV------PKA-DTIFM 257 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-------~ri~~~~gD~~~~~------P~g-D~~~l 257 (269)
..++||+=+|+|.++.+.+++--. +++.+|. +..+...+++ ++++.+.+|.+..+ .+. |++|+
T Consensus 43 g~~vLDLFaGSGalGlEALSRGA~-~v~fVE~~~~a~~~i~~N~~~l~~~~~~~v~~~d~~~~l~~~~~~~~~fDiIfl 120 (183)
T PF03602_consen 43 GARVLDLFAGSGALGLEALSRGAK-SVVFVEKNRKAIKIIKKNLEKLGLEDKIRVIKGDAFKFLLKLAKKGEKFDIIFL 120 (183)
T ss_dssp T-EEEETT-TTSHHHHHHHHTT-S-EEEEEES-HHHHHHHHHHHHHHT-GGGEEEEESSHHHHHHHHHHCTS-EEEEEE
T ss_pred CCeEEEcCCccCccHHHHHhcCCC-eEEEEECCHHHHHHHHHHHHHhCCCcceeeeccCHHHHHHhhcccCCCceEEEE
Confidence 479999999999999999988533 5777886 5666555542 57999999977622 233 88876
No 319
>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=85.88 E-value=1.4 Score=32.29 Aligned_cols=49 Identities=16% Similarity=0.268 Sum_probs=37.5
Q ss_pred HHhcChhHHHHh-cCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 33 VVELDVFEIITK-AGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 33 a~~lglfd~L~~-~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
.++-.|++.|.. ...+..+++++|++.++++ +. -++..++.|...|++-
T Consensus 47 ~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~------~~-~v~~al~~L~~eG~IY 96 (102)
T PF08784_consen 47 PLQDKVLNFIKQQPNSEEGVHVDEIAQQLGMS------EN-EVRKALDFLSNEGHIY 96 (102)
T ss_dssp HHHHHHHHHHHC----TTTEEHHHHHHHSTS-------HH-HHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHhcCCCCCcccHHHHHHHhCcC------HH-HHHHHHHHHHhCCeEe
Confidence 345567777766 2223579999999999997 67 8999999999999985
No 320
>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=85.88 E-value=1.4 Score=30.12 Aligned_cols=42 Identities=14% Similarity=0.214 Sum_probs=35.3
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
++|-++||..+|++ .. .+.|+|+.|...|++.. . .+.+....
T Consensus 28 ~lt~~~iA~~~g~s------r~-tv~r~l~~l~~~g~I~~---~-~~~i~I~d 69 (76)
T PF13545_consen 28 PLTQEEIADMLGVS------RE-TVSRILKRLKDEGIIEV---K-RGKIIILD 69 (76)
T ss_dssp ESSHHHHHHHHTSC------HH-HHHHHHHHHHHTTSEEE---E-TTEEEESS
T ss_pred cCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE---c-CCEEEECC
Confidence 68999999999998 67 99999999999999993 2 45666544
No 321
>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=85.30 E-value=2.1 Score=37.41 Aligned_cols=46 Identities=13% Similarity=0.149 Sum_probs=38.7
Q ss_pred CCCCHHHHHHhCC--CCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350 49 AKLSVSEIVAQIP--LKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS 104 (269)
Q Consensus 49 ~~~s~~eLA~~~~--~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s 104 (269)
+..++.+||+.++ ++ +. -++.-|+.|..+|+++ ++++|.|..|..+
T Consensus 136 ~~~~~~~ia~~l~p~is------~~-ev~~sL~~L~~~glik---k~~~g~y~~t~~~ 183 (271)
T TIGR02147 136 FADDPEELAKRCFPKIS------AE-QVKESLDLLERLGLIK---KNEDGFYKQTDKA 183 (271)
T ss_pred CCCCHHHHHHHhCCCCC------HH-HHHHHHHHHHHCCCee---ECCCCcEEeecce
Confidence 3447899999999 65 56 7899999999999999 5678999998765
No 322
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=85.27 E-value=0.85 Score=43.00 Aligned_cols=55 Identities=22% Similarity=0.239 Sum_probs=42.7
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEee-hhHHHHhCCCC------CCceEEec---ccCC
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYD-LLYVIKNAPSY------PGIDHVGG---DLFE 247 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~D-lp~vv~~a~~~------~ri~~~~g---D~~~ 247 (269)
++..+.++||-||+|.++.++++.. .++++++ .|+.++.|+.+ ...+|+.| |.|.
T Consensus 381 l~~~k~llDv~CGTG~iglala~~~--~~ViGvEi~~~aV~dA~~nA~~NgisNa~Fi~gqaE~~~~ 445 (534)
T KOG2187|consen 381 LPADKTLLDVCCGTGTIGLALARGV--KRVIGVEISPDAVEDAEKNAQINGISNATFIVGQAEDLFP 445 (534)
T ss_pred CCCCcEEEEEeecCCceehhhhccc--cceeeeecChhhcchhhhcchhcCccceeeeecchhhccc
Confidence 4556899999999999998888764 4567776 48888888764 67888888 5554
No 323
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=85.12 E-value=1.9 Score=37.18 Aligned_cols=45 Identities=13% Similarity=0.228 Sum_probs=39.2
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
+..|.+.|.+. +.++..|||+.+|++ +. .++|-|+.|...|++.+
T Consensus 7 ~~~Il~~l~~~---~~~~~~ela~~l~vS------~~-TirRdL~~Le~~g~i~r 51 (251)
T PRK13509 7 HQILLELLAQL---GFVTVEKVIERLGIS------PA-TARRDINKLDESGKLKK 51 (251)
T ss_pred HHHHHHHHHHc---CCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence 34477888886 589999999999998 67 89999999999999983
No 324
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=84.95 E-value=1.7 Score=36.48 Aligned_cols=43 Identities=23% Similarity=0.332 Sum_probs=35.4
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
|.++|... +.+.|.+|||+++|++ .- -.+|-|.+|++.|++..
T Consensus 163 i~~~~~~~--~~~~Taeela~~~giS------Rv-TaRRYLeyl~~~~~l~a 205 (224)
T COG4565 163 VREALKEP--DQELTAEELAQALGIS------RV-TARRYLEYLVSNGILEA 205 (224)
T ss_pred HHHHHhCc--CCccCHHHHHHHhCcc------HH-HHHHHHHHHHhcCeeeE
Confidence 45566632 2689999999999998 45 78999999999999984
No 325
>COG3897 Predicted methyltransferase [General function prediction only]
Probab=84.88 E-value=3.3 Score=34.38 Aligned_cols=73 Identities=16% Similarity=0.147 Sum_probs=49.6
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC-----CCceEEecccCCcCCCC-cEEEecccccc
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY-----PGIDHVGGDLFESVPKA-DTIFMKVICVC 263 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~-----~ri~~~~gD~~~~~P~g-D~~~l~~iLhd 263 (269)
+=..++|+|.|.|+|..+++.+++--. ..+.-|. |-.+..++-+ -.|.+...|..- .|.+ |++++..++.+
T Consensus 77 tVrgkrVLd~gagsgLvaIAaa~aGA~-~v~a~d~~P~~~~ai~lNa~angv~i~~~~~d~~g-~~~~~Dl~LagDlfy~ 154 (218)
T COG3897 77 TVRGKRVLDLGAGSGLVAIAAARAGAA-EVVAADIDPWLEQAIRLNAAANGVSILFTHADLIG-SPPAFDLLLAGDLFYN 154 (218)
T ss_pred ccccceeeecccccChHHHHHHHhhhH-HHHhcCCChHHHHHhhcchhhccceeEEeeccccC-CCcceeEEEeeceecC
Confidence 335689999999999998887766322 2233343 5444444332 458888888776 4544 99999999887
Q ss_pred CC
Q 024350 264 YL 265 (269)
Q Consensus 264 ~~ 265 (269)
.+
T Consensus 155 ~~ 156 (218)
T COG3897 155 HT 156 (218)
T ss_pred ch
Confidence 54
No 326
>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=84.65 E-value=1.7 Score=26.41 Aligned_cols=27 Identities=11% Similarity=0.390 Sum_probs=21.1
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCC
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLK 63 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~ 63 (269)
++..|...|... +..|..+||+.+|++
T Consensus 4 ~D~~Il~~Lq~d---~r~s~~~la~~lglS 30 (42)
T PF13404_consen 4 LDRKILRLLQED---GRRSYAELAEELGLS 30 (42)
T ss_dssp HHHHHHHHHHH----TTS-HHHHHHHHTS-
T ss_pred HHHHHHHHHHHc---CCccHHHHHHHHCcC
Confidence 566788899886 599999999999998
No 327
>PRK10742 putative methyltransferase; Provisional
Probab=84.46 E-value=2.1 Score=36.91 Aligned_cols=73 Identities=12% Similarity=0.160 Sum_probs=51.8
Q ss_pred HHHHHhccCCCCc--cEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHH-h-------CC------C-C-CCceEEec
Q 024350 182 EKVLESYKGFEHV--KKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIK-N-------AP------S-Y-PGIDHVGG 243 (269)
Q Consensus 182 ~~~~~~~~~~~~~--~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~-~-------a~------~-~-~ri~~~~g 243 (269)
+.+++... +++. .+|+|+=+|.|..+..++.+ +++++.+|...++. . +. . . .|++++.+
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 35566665 5543 49999999999999999988 77789999744442 2 11 1 1 57999999
Q ss_pred ccCCc---CCCC-cEEEe
Q 024350 244 DLFES---VPKA-DTIFM 257 (269)
Q Consensus 244 D~~~~---~P~g-D~~~l 257 (269)
|..+- .+.. |+|++
T Consensus 153 da~~~L~~~~~~fDVVYl 170 (250)
T PRK10742 153 SSLTALTDITPRPQVVYL 170 (250)
T ss_pred cHHHHHhhCCCCCcEEEE
Confidence 98873 3334 88886
No 328
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=84.38 E-value=1.7 Score=32.79 Aligned_cols=35 Identities=6% Similarity=0.078 Sum_probs=32.2
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
.++|++|||+.+..+ ++ .++.+|+-|...|.++..
T Consensus 18 ~~vtl~elA~~l~cS------~R-n~r~lLkkm~~~gWi~W~ 52 (115)
T PF12793_consen 18 VEVTLDELAELLFCS------RR-NARTLLKKMQEEGWITWQ 52 (115)
T ss_pred cceeHHHHHHHhCCC------HH-HHHHHHHHHHHCCCeeee
Confidence 468999999999998 77 999999999999999964
No 329
>PRK09775 putative DNA-binding transcriptional regulator; Provisional
Probab=84.26 E-value=1.6 Score=40.89 Aligned_cols=52 Identities=21% Similarity=0.243 Sum_probs=38.2
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
|-..|.. ||.|+.||++.+|++ .. .+.+.|+.| .|+|...++...-+|+++.
T Consensus 5 ~~~~L~~----g~~~~~eL~~~l~~s------q~-~~s~~L~~L--~~~V~~~~~gr~~~Y~l~~ 56 (442)
T PRK09775 5 LTTLLLQ----GPLSAAELAARLGVS------QA-TLSRLLAAL--GDQVVRFGKARATRYALLR 56 (442)
T ss_pred HHHHHhc----CCCCHHHHHHHhCCC------HH-HHHHHHHHh--hcceeEeccCceEEEEecc
Confidence 4455665 799999999999998 56 899999999 8998854322234465544
No 330
>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=84.21 E-value=1.7 Score=35.42 Aligned_cols=75 Identities=16% Similarity=0.191 Sum_probs=50.4
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC----C-----CCceEEecccCCc-----CC------CC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS----Y-----PGIDHVGGDLFES-----VP------KA 252 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~----~-----~ri~~~~gD~~~~-----~P------~g 252 (269)
+...||-+|||-=+..-++...+++++.+=+|+|+|++.-++ . ..+++++.|+.++ ++ ..
T Consensus 78 ~~~qvV~LGaGlDTr~~Rl~~~~~~~~~~evD~p~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~~~~~~~~L~~~g~~~~~ 157 (183)
T PF04072_consen 78 GARQVVNLGAGLDTRAYRLDNPAGGVRWFEVDLPEVIALKRRLLPESGARPPANYRYVPADLRDDSWIDALPKAGFDPDR 157 (183)
T ss_dssp TESEEEEET-TT--HHHHHHHTTTTEEEEEEE-HHHHHHHHHHHHHTHHHHHEESSEEES-TTSHHHHHHHHHCTT-TTS
T ss_pred CCcEEEEcCCCCCchHHHhhccccceEEEEeCCHHHHHHHHHHHHhCcccCCcceeEEeccccchhhHHHHHHhCCCCCC
Confidence 456999999999999999999999999999999999975433 1 2367899999962 22 12
Q ss_pred -cEEEeccccccCCCC
Q 024350 253 -DTIFMKVICVCYLNS 267 (269)
Q Consensus 253 -D~~~l~~iLhd~~d~ 267 (269)
-++++--++.+.+.+
T Consensus 158 ptl~i~Egvl~Yl~~~ 173 (183)
T PF04072_consen 158 PTLFIAEGVLMYLSPE 173 (183)
T ss_dssp EEEEEEESSGGGS-HH
T ss_pred CeEEEEcchhhcCCHH
Confidence 356666666665543
No 331
>KOG1331 consensus Predicted methyltransferase [General function prediction only]
Probab=84.09 E-value=0.59 Score=40.79 Aligned_cols=70 Identities=20% Similarity=0.143 Sum_probs=51.6
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHH-HhCCCCCCceEEecccCC-cCCC-C-cEEEeccccccCCC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVI-KNAPSYPGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLN 266 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv-~~a~~~~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d 266 (269)
....++|+|||.|.++. -+|.+..+..|+-.-+ ..+++.+.....-.|..+ |.++ . |..+=..++|.|+-
T Consensus 45 ~gsv~~d~gCGngky~~----~~p~~~~ig~D~c~~l~~~ak~~~~~~~~~ad~l~~p~~~~s~d~~lsiavihhlsT 118 (293)
T KOG1331|consen 45 TGSVGLDVGCGNGKYLG----VNPLCLIIGCDLCTGLLGGAKRSGGDNVCRADALKLPFREESFDAALSIAVIHHLST 118 (293)
T ss_pred CcceeeecccCCcccCc----CCCcceeeecchhhhhccccccCCCceeehhhhhcCCCCCCccccchhhhhhhhhhh
Confidence 35789999999998763 4588889999985444 444443333677788888 6664 4 99999999998864
No 332
>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=83.79 E-value=1.9 Score=37.24 Aligned_cols=69 Identities=14% Similarity=0.107 Sum_probs=46.7
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCCCCceEEecccCCcCCC-CcEEEeccccccC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSYPGIDHVGGDLFESVPK-ADTIFMKVICVCY 264 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~~ri~~~~gD~~~~~P~-gD~~~l~~iLhd~ 264 (269)
+..+++|||.|.|.....++..+.++.+| +. +.+....+ ..+++++..|=+..-+. -|+|.+-|+|--.
T Consensus 94 ~~~~lLDlGAGdG~VT~~l~~~f~~v~aT--E~S~~Mr~rL~-~kg~~vl~~~~w~~~~~~fDvIscLNvLDRc 164 (265)
T PF05219_consen 94 KDKSLLDLGAGDGEVTERLAPLFKEVYAT--EASPPMRWRLS-KKGFTVLDIDDWQQTDFKFDVISCLNVLDRC 164 (265)
T ss_pred cCCceEEecCCCcHHHHHHHhhcceEEee--cCCHHHHHHHH-hCCCeEEehhhhhccCCceEEEeehhhhhcc
Confidence 45789999999999999999988885443 33 33333222 25677776654443332 3999999988543
No 333
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=83.73 E-value=1.9 Score=38.47 Aligned_cols=90 Identities=21% Similarity=0.274 Sum_probs=61.1
Q ss_pred HHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCC-eEEEeehhHH-HHhCCCC--------
Q 024350 166 NDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHI-KGINYDLLYV-IKNAPSY-------- 235 (269)
Q Consensus 166 ~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l-~~vv~Dlp~v-v~~a~~~-------- 235 (269)
.++|+.+|.+ .++..|- +....++|+|||-|..++..-++ .+ ..|..|+.+| |+.+++.
T Consensus 99 lRnfNNwIKs-------~LI~~y~--~~~~~~~~LgCGKGGDLlKw~kA--gI~~~igiDIAevSI~qa~~RYrdm~~r~ 167 (389)
T KOG1975|consen 99 LRNFNNWIKS-------VLINLYT--KRGDDVLDLGCGKGGDLLKWDKA--GIGEYIGIDIAEVSINQARKRYRDMKNRF 167 (389)
T ss_pred hhhhhHHHHH-------HHHHHHh--ccccccceeccCCcccHhHhhhh--cccceEeeehhhccHHHHHHHHHHHHhhh
Confidence 4678877765 2344443 34567889999999988877755 33 3588998655 4555542
Q ss_pred C----CceEEecccCCc-----C----CCCcEEEecccccc-CCC
Q 024350 236 P----GIDHVGGDLFES-----V----PKADTIFMKVICVC-YLN 266 (269)
Q Consensus 236 ~----ri~~~~gD~~~~-----~----P~gD~~~l~~iLhd-~~d 266 (269)
+ .+.|+++|-|.. + |+-|++.+--.||+ |..
T Consensus 168 ~~~~f~a~f~~~Dc~~~~l~d~~e~~dp~fDivScQF~~HYaFet 212 (389)
T KOG1975|consen 168 KKFIFTAVFIAADCFKERLMDLLEFKDPRFDIVSCQFAFHYAFET 212 (389)
T ss_pred hcccceeEEEEeccchhHHHHhccCCCCCcceeeeeeeEeeeecc
Confidence 2 367899988852 2 23499999999996 443
No 334
>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=83.51 E-value=3.8 Score=29.71 Aligned_cols=40 Identities=15% Similarity=0.168 Sum_probs=31.8
Q ss_pred HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHH
Q 024350 32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV 82 (269)
Q Consensus 32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~ 82 (269)
.+.+.||+..|-. +++|-.|||+.+|++ .. .+.|.=+.|.
T Consensus 41 l~~R~~i~~~Ll~----~~~tQrEIa~~lGiS------~a-tIsR~sn~lk 80 (94)
T TIGR01321 41 LGDRIRIVNELLN----GNMSQREIASKLGVS------IA-TITRGSNNLK 80 (94)
T ss_pred HHHHHHHHHHHHh----CCCCHHHHHHHhCCC------hh-hhhHHHhhcc
Confidence 4567899998877 589999999999998 55 6666666654
No 335
>PF13730 HTH_36: Helix-turn-helix domain
Probab=83.31 E-value=1.9 Score=27.43 Aligned_cols=29 Identities=10% Similarity=0.208 Sum_probs=26.9
Q ss_pred CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcc
Q 024350 52 SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNAL 87 (269)
Q Consensus 52 s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l 87 (269)
|.+.||+.+|++ .+ .+.+.++.|...|++
T Consensus 27 S~~~la~~~g~s------~~-Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLGVS------RR-TVQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHCcC------HH-HHHHHHHHHHHCcCC
Confidence 899999999998 67 999999999999985
No 336
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=83.02 E-value=1.5 Score=35.40 Aligned_cols=35 Identities=17% Similarity=0.260 Sum_probs=31.7
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
+|+|++||++++|++ -. .+..-|+-|...|++.+.
T Consensus 40 ~Pmtl~Ei~E~lg~S------ks-~vS~~lkkL~~~~lV~~~ 74 (177)
T COG1510 40 KPLTLDEIAEALGMS------KS-NVSMGLKKLQDWNLVKKV 74 (177)
T ss_pred CCccHHHHHHHHCCC------cc-hHHHHHHHHHhcchHHhh
Confidence 799999999999998 45 889999999999999843
No 337
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=82.59 E-value=2.1 Score=35.95 Aligned_cols=35 Identities=6% Similarity=0.210 Sum_probs=30.6
Q ss_pred hhHHHHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCC
Q 024350 23 AIVLPAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLK 63 (269)
Q Consensus 23 ~~~~~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~ 63 (269)
...+-.+|+.|.++|-||.=. .++..|||+.+|++
T Consensus 157 TdrQ~~vL~~A~~~GYFd~PR------~~~l~dLA~~lGIS 191 (215)
T COG3413 157 TDRQLEVLRLAYKMGYFDYPR------RVSLKDLAKELGIS 191 (215)
T ss_pred CHHHHHHHHHHHHcCCCCCCc------cCCHHHHHHHhCCC
Confidence 345778999999999999754 59999999999998
No 338
>PRK00215 LexA repressor; Validated
Probab=82.54 E-value=3.3 Score=34.33 Aligned_cols=34 Identities=18% Similarity=0.132 Sum_probs=31.1
Q ss_pred CCCCHHHHHHhCCC-CCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 49 AKLSVSEIVAQIPL-KDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 49 ~~~s~~eLA~~~~~-~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.+.|..|||+.+|+ + .. .+.|+|+.|...|++++
T Consensus 22 ~~~s~~ela~~~~~~~------~~-tv~~~l~~L~~~g~i~~ 56 (205)
T PRK00215 22 YPPSRREIADALGLRS------PS-AVHEHLKALERKGFIRR 56 (205)
T ss_pred CCCCHHHHHHHhCCCC------hH-HHHHHHHHHHHCCCEEe
Confidence 57899999999999 7 56 89999999999999985
No 339
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=81.90 E-value=2.5 Score=36.45 Aligned_cols=45 Identities=18% Similarity=0.274 Sum_probs=39.3
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
+..|.+.|.+. +.+++.|||+.++++ +. -++|-|..|...|++.+
T Consensus 7 ~~~Il~~l~~~---~~~~~~ela~~l~vS------~~-TiRRdL~~Le~~g~l~r 51 (252)
T PRK10906 7 HDAIIELVKQQ---GYVSTEELVEHFSVS------PQ-TIRRDLNDLAEQNKILR 51 (252)
T ss_pred HHHHHHHHHHc---CCEeHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEE
Confidence 44577888876 589999999999998 67 89999999999999983
No 340
>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=81.77 E-value=1.9 Score=29.99 Aligned_cols=35 Identities=14% Similarity=0.338 Sum_probs=23.1
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHH
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV 82 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~ 82 (269)
++..|+. | +|.|..+||.++|.+ .+ .+...|..+-
T Consensus 29 LLr~LA~-G--~PVt~~~LA~a~g~~------~e-~v~~~L~~~p 63 (77)
T PF12324_consen 29 LLRLLAK-G--QPVTVEQLAAALGWP------VE-EVRAALAAMP 63 (77)
T ss_dssp HHHHHTT-T--S-B-HHHHHHHHT--------HH-HHHHHHHH-T
T ss_pred HHHHHHc-C--CCcCHHHHHHHHCCC------HH-HHHHHHHhCC
Confidence 6777887 5 799999999999996 45 6666666554
No 341
>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=81.50 E-value=2.1 Score=29.55 Aligned_cols=48 Identities=10% Similarity=0.115 Sum_probs=40.6
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.+..+++.++.++. .+++-.+|+..+|.| ++ .+...++.|...|++.+
T Consensus 3 ~~~~~Le~I~rsR~-~Gi~q~~L~~~~~~D------~r-~i~~~~k~L~~~gLI~k 50 (75)
T PF04182_consen 3 IQYCLLERIARSRY-NGITQSDLSKLLGID------PR-SIFYRLKKLEKKGLIVK 50 (75)
T ss_pred hHHHHHHHHHhcCC-CCEehhHHHHHhCCC------ch-HHHHHHHHHHHCCCEEE
Confidence 45667888887654 468999999999997 56 99999999999999995
No 342
>PLN02668 indole-3-acetate carboxyl methyltransferase
Probab=81.50 E-value=6.2 Score=36.29 Aligned_cols=72 Identities=17% Similarity=0.169 Sum_probs=46.3
Q ss_pred CccEEEEeCCCchHHHH--------HHHHH-------CCCCeEEEeehhH-----HHHhCCC---------------CCC
Q 024350 193 HVKKLVDVGGGLGATLN--------MIISK-------YPHIKGINYDLLY-----VIKNAPS---------------YPG 237 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~--------~l~~~-------~P~l~~vv~Dlp~-----vv~~a~~---------------~~r 237 (269)
+.-+|+|+|||+|..+. ++.++ -|++++..=|+|. +...... ..+
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 46689999999995432 33333 3567788778872 1121110 012
Q ss_pred ---ceEEecccCC-cCCCC--cEEEeccccccC
Q 024350 238 ---IDHVGGDLFE-SVPKA--DTIFMKVICVCY 264 (269)
Q Consensus 238 ---i~~~~gD~~~-~~P~g--D~~~l~~iLhd~ 264 (269)
+..++|.|+. -+|+. ++++-+.-||=.
T Consensus 143 ~~f~~gvpGSFY~RLfP~~Slh~~~Ss~slHWL 175 (386)
T PLN02668 143 SYFAAGVPGSFYRRLFPARSIDVFHSAFSLHWL 175 (386)
T ss_pred ceEEEecCccccccccCCCceEEEEeeccceec
Confidence 4567799999 68864 888888888743
No 343
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=81.48 E-value=17 Score=25.99 Aligned_cols=66 Identities=9% Similarity=0.124 Sum_probs=39.6
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcC
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRN 110 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~ 110 (269)
|.+.+.+. -.+|.++....+.-.++.+.=.. .+.=-+-.|...|+++ .+..|.|++|+.|+.+...
T Consensus 25 i~~~v~~~---~~ls~e~~~~~~~sg~~~~~~~~-ri~Wa~~~L~~aGli~---~~~rG~~~iT~~G~~~l~~ 90 (92)
T PF14338_consen 25 IYERVAER---FGLSDEERNERLPSGQGYSRFKN-RIRWARSYLKKAGLIE---RPKRGIWRITEKGRKALAE 90 (92)
T ss_pred HHHHHHHH---hCCCHHHHHHHcccCCcchhHHH-hHHHHHHHHHHCCCcc---CCCCCceEECHhHHHHHhh
Confidence 45555553 24666665555421100111012 4455577899999999 5567999999999966544
No 344
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=81.48 E-value=3.9 Score=34.99 Aligned_cols=45 Identities=11% Similarity=0.236 Sum_probs=38.9
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
+..|.+.|.+. +.++.+|||+.++++ +. .++|-|..|...|.+.+
T Consensus 6 ~~~Il~~l~~~---~~~~~~eLa~~l~VS------~~-TiRRdL~~L~~~~~l~r 50 (240)
T PRK10411 6 QQAIVDLLLNH---TSLTTEALAEQLNVS------KE-TIRRDLNELQTQGKILR 50 (240)
T ss_pred HHHHHHHHHHc---CCCcHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEE
Confidence 34477888876 589999999999998 67 99999999999999983
No 345
>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=81.25 E-value=1.3 Score=40.57 Aligned_cols=63 Identities=10% Similarity=0.064 Sum_probs=46.5
Q ss_pred cEEEEeCCCchHHHHHHHHHCCCC-eEEEeeh-hHHHHhCCCC------CCceEEecccCCcCC---C-CcEEEe
Q 024350 195 KKLVDVGGGLGATLNMIISKYPHI-KGINYDL-LYVIKNAPSY------PGIDHVGGDLFESVP---K-ADTIFM 257 (269)
Q Consensus 195 ~~vvDvGGG~G~~~~~l~~~~P~l-~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~~~P---~-gD~~~l 257 (269)
.+++|.-+|+|..+++++++.++. +++..|+ |..++.++++ +.+++..+|.+.-+. + -|++++
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 589999999999999999997765 4678897 7777766542 457777788776222 2 277665
No 346
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=81.10 E-value=3 Score=36.33 Aligned_cols=46 Identities=9% Similarity=0.116 Sum_probs=40.4
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
....|.+.|... +.+|+.|||+.++++ +. -++|=|..|...|++.+
T Consensus 18 R~~~Il~~L~~~---~~vtv~eLa~~l~VS------~~-TIRRDL~~Le~~G~l~r 63 (269)
T PRK09802 18 RREQIIQRLRQQ---GSVQVNDLSALYGVS------TV-TIRNDLAFLEKQGIAVR 63 (269)
T ss_pred HHHHHHHHHHHc---CCEeHHHHHHHHCCC------HH-HHHHHHHHHHhCCCeEE
Confidence 445678899886 489999999999998 67 99999999999999993
No 347
>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=80.72 E-value=1.1 Score=40.58 Aligned_cols=59 Identities=19% Similarity=0.277 Sum_probs=39.2
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecc
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGD 244 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD 244 (269)
..+++.++ .++. .++|+=||.|.++..+++..-. ++++|. ++.|+.|+.+ ++++|+.++
T Consensus 187 ~~~~~~l~-~~~~-~vlDlycG~G~fsl~la~~~~~--V~gvE~~~~av~~A~~Na~~N~i~n~~f~~~~ 252 (352)
T PF05958_consen 187 EQALEWLD-LSKG-DVLDLYCGVGTFSLPLAKKAKK--VIGVEIVEEAVEDARENAKLNGIDNVEFIRGD 252 (352)
T ss_dssp HHHHHHCT-T-TT-EEEEES-TTTCCHHHHHCCSSE--EEEEES-HHHHHHHHHHHHHTT--SEEEEE--
T ss_pred HHHHHHhh-cCCC-cEEEEeecCCHHHHHHHhhCCe--EEEeeCCHHHHHHHHHHHHHcCCCcceEEEee
Confidence 33445444 3333 7999999999999999988754 566775 7777777642 778888654
No 348
>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=80.62 E-value=2.3 Score=26.10 Aligned_cols=23 Identities=26% Similarity=0.381 Sum_probs=16.1
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHH
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLR 79 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~ 79 (269)
+.|+.+||+.+|++ .. -+.|+|+
T Consensus 21 G~si~~IA~~~gvs------r~-TvyR~l~ 43 (45)
T PF02796_consen 21 GMSIAEIAKQFGVS------RS-TVYRYLN 43 (45)
T ss_dssp T--HHHHHHHTTS-------HH-HHHHHHC
T ss_pred CCCHHHHHHHHCcC------HH-HHHHHHh
Confidence 49999999999997 55 7777663
No 349
>COG0116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]
Probab=80.49 E-value=4.4 Score=37.09 Aligned_cols=67 Identities=18% Similarity=0.136 Sum_probs=51.3
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCe---------------------------------------EEEeeh-hHHHH
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIK---------------------------------------GINYDL-LYVIK 230 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~---------------------------------------~vv~Dl-p~vv~ 230 (269)
|.....++|==||+|+++++.+...+|+- .+..|+ |.+++
T Consensus 189 w~~~~pl~DPmCGSGTi~IEAAl~~~niAPg~~R~~~f~~w~~~~~~lw~~~~~ea~~~a~~~~~~~~~~G~Did~r~i~ 268 (381)
T COG0116 189 WKPDEPLLDPMCGSGTILIEAALIAANIAPGLNRRFGFEFWDWFDKDLWDKLREEAEERARRGKELPIIYGSDIDPRHIE 268 (381)
T ss_pred CCCCCccccCCCCccHHHHHHHHhccccCCccccccchhhhhhccHHHHHHHHHHHHHHHhhcCccceEEEecCCHHHHH
Confidence 77668999999999999999888886521 568897 77887
Q ss_pred hCCCC-------CCceEEecccCC-cCC-CC-cEEEe
Q 024350 231 NAPSY-------PGIDHVGGDLFE-SVP-KA-DTIFM 257 (269)
Q Consensus 231 ~a~~~-------~ri~~~~gD~~~-~~P-~g-D~~~l 257 (269)
.|+.+ +.|+|..+|+-. +-| +. |+++.
T Consensus 269 ~Ak~NA~~AGv~d~I~f~~~d~~~l~~~~~~~gvvI~ 305 (381)
T COG0116 269 GAKANARAAGVGDLIEFKQADATDLKEPLEEYGVVIS 305 (381)
T ss_pred HHHHHHHhcCCCceEEEEEcchhhCCCCCCcCCEEEe
Confidence 76643 789999999876 333 33 76654
No 350
>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=80.26 E-value=3 Score=31.78 Aligned_cols=46 Identities=13% Similarity=0.199 Sum_probs=39.9
Q ss_pred HHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCC
Q 024350 55 EIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN 111 (269)
Q Consensus 55 eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~ 111 (269)
+||+.++++ .+ -|--+++++..+||++ . .+|...+|+.|+.++..+
T Consensus 2 ~La~~l~~e------iD-dL~p~~eAaelLgf~~---~-~~Gdi~LT~~G~~f~~a~ 47 (120)
T PF09821_consen 2 QLADELHLE------ID-DLLPIVEAAELLGFAE---V-EEGDIRLTPLGRRFAEAD 47 (120)
T ss_pred chHHHhCCc------HH-HHHHHHHHHHHcCCee---e-cCCcEEeccchHHHHHCC
Confidence 588999997 67 8999999999999999 3 468899999999888665
No 351
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=80.23 E-value=2.8 Score=36.23 Aligned_cols=45 Identities=18% Similarity=0.236 Sum_probs=39.7
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
+..|.+.|.+. +.+++.|||+.++++ +. .++|=|+.|...|++.+
T Consensus 7 ~~~Il~~L~~~---~~v~v~eLa~~l~VS------~~-TIRRDL~~Le~~g~l~r 51 (256)
T PRK10434 7 QAAILEYLQKQ---GKTSVEELAQYFDTT------GT-TIRKDLVILEHAGTVIR 51 (256)
T ss_pred HHHHHHHHHHc---CCEEHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEE
Confidence 45578889886 589999999999998 67 99999999999999983
No 352
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=79.67 E-value=2.6 Score=39.45 Aligned_cols=60 Identities=17% Similarity=0.205 Sum_probs=44.9
Q ss_pred HHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh-hHHHHhCCCC------CCceEEecccCC
Q 024350 185 LESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL-LYVIKNAPSY------PGIDHVGGDLFE 247 (269)
Q Consensus 185 ~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~~------~ri~~~~gD~~~ 247 (269)
++..+ ..+..+++|+=||.|.++..|+++ --+++..|+ |+.++.|+++ ++++|..+|..+
T Consensus 286 ~~~~~-~~~~~~vlDlYCGvG~f~l~lA~~--~~~V~gvEi~~~aV~~A~~NA~~n~i~N~~f~~~~ae~ 352 (432)
T COG2265 286 LEWLE-LAGGERVLDLYCGVGTFGLPLAKR--VKKVHGVEISPEAVEAAQENAAANGIDNVEFIAGDAEE 352 (432)
T ss_pred HHHHh-hcCCCEEEEeccCCChhhhhhccc--CCEEEEEecCHHHHHHHHHHHHHcCCCcEEEEeCCHHH
Confidence 34433 345579999999999999999955 345677775 7777766542 669999999877
No 353
>PF11968 DUF3321: Putative methyltransferase (DUF3321); InterPro: IPR021867 This family is conserved in fungi and is annotated as being a nucleolar protein.
Probab=79.41 E-value=1.9 Score=36.28 Aligned_cols=63 Identities=22% Similarity=0.255 Sum_probs=46.5
Q ss_pred ccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCCCCceEEecccCC-cCCC---C--cEEEeccccccCCCC
Q 024350 194 VKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSYPGIDHVGGDLFE-SVPK---A--DTIFMKVICVCYLNS 267 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~~ri~~~~gD~~~-~~P~---g--D~~~l~~iLhd~~d~ 267 (269)
.-++||||+=+..... ..++-+.++-+||.+. .+. +...||++ |+|+ . |+|.++-||...|+.
T Consensus 52 ~lrlLEVGals~~N~~---s~~~~fdvt~IDLns~------~~~--I~qqDFm~rplp~~~~e~FdvIs~SLVLNfVP~p 120 (219)
T PF11968_consen 52 KLRLLEVGALSTDNAC---STSGWFDVTRIDLNSQ------HPG--ILQQDFMERPLPKNESEKFDVISLSLVLNFVPDP 120 (219)
T ss_pred cceEEeecccCCCCcc---cccCceeeEEeecCCC------CCC--ceeeccccCCCCCCcccceeEEEEEEEEeeCCCH
Confidence 3699999997554332 2466777888998652 222 45789999 8883 2 999999999998875
No 354
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=79.23 E-value=3.6 Score=35.54 Aligned_cols=54 Identities=17% Similarity=0.145 Sum_probs=44.1
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
.-.|.+.|.+. |.++++|||+.++++ +. -++|=|+.|...|++. +..+|.....
T Consensus 7 ~~~Il~~l~~~---g~v~v~eLa~~~~VS------~~-TIRRDL~~Le~~g~l~---R~hGGa~~~~ 60 (253)
T COG1349 7 HQKILELLKEK---GKVSVEELAELFGVS------EM-TIRRDLNELEEQGLLL---RVHGGAVLPD 60 (253)
T ss_pred HHHHHHHHHHc---CcEEHHHHHHHhCCC------HH-HHHHhHHHHHHCCcEE---EEeCCEecCC
Confidence 34578889887 589999999999998 67 9999999999999999 4444555443
No 355
>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=79.07 E-value=3.6 Score=30.89 Aligned_cols=66 Identities=23% Similarity=0.348 Sum_probs=45.6
Q ss_pred HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCch-hHHHHHHHHHHHHHhcCcccceeec-CCCeEecCh
Q 024350 32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPE-AAAMMLDRVLRLLVSYNALHCSFVD-GQRLYSLAP 102 (269)
Q Consensus 32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~-~~~~~l~rlL~~L~~~g~l~~~~~~-~~~~y~~t~ 102 (269)
+.-+.-|++.|.+.+ ++.|+++|-+.+.-. .|. ... .+.|.|+.|...|++.+.... +...|..+.
T Consensus 7 T~~R~~Il~~l~~~~--~~~ta~ei~~~l~~~--~~~is~~-TVYR~L~~L~e~Gli~~~~~~~~~~~Y~~~~ 74 (120)
T PF01475_consen 7 TPQRLAILELLKESP--EHLTAEEIYDKLRKK--GPRISLA-TVYRTLDLLEEAGLIRKIEFGDGESRYELST 74 (120)
T ss_dssp HHHHHHHHHHHHHHS--SSEEHHHHHHHHHHT--TTT--HH-HHHHHHHHHHHTTSEEEEEETTSEEEEEESS
T ss_pred CHHHHHHHHHHHcCC--CCCCHHHHHHHhhhc--cCCcCHH-HHHHHHHHHHHCCeEEEEEcCCCcceEeecC
Confidence 344566888998875 699999999988532 111 134 789999999999999964222 123566654
No 356
>KOG3924 consensus Putative protein methyltransferase involved in meiosis and transcriptional silencing (Dot1) [Cell cycle control, cell division, chromosome partitioning; Transcription]
Probab=78.87 E-value=2.2 Score=39.08 Aligned_cols=79 Identities=15% Similarity=0.230 Sum_probs=51.9
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCe---EEEeehhHHHHhCCC-------------CCCceEEecccCC
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIK---GINYDLLYVIKNAPS-------------YPGIDHVGGDLFE 247 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~---~vv~Dlp~vv~~a~~-------------~~ri~~~~gD~~~ 247 (269)
+++.+. ......++|+|+|-|.....++...---+ +-++|-|+-++.... ...++++.|+|..
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 334444 44567999999999997766554333223 345555766654432 1458999999987
Q ss_pred c------CCCCcEEEecccccc
Q 024350 248 S------VPKADTIFMKVICVC 263 (269)
Q Consensus 248 ~------~P~gD~~~l~~iLhd 263 (269)
+ ++++++++..++.-+
T Consensus 263 ~~~v~eI~~eatvi~vNN~~Fd 284 (419)
T KOG3924|consen 263 PKRVTEIQTEATVIFVNNVAFD 284 (419)
T ss_pred HHHHHHHhhcceEEEEecccCC
Confidence 4 445799999988654
No 357
>PRK09954 putative kinase; Provisional
Probab=78.33 E-value=4.5 Score=36.61 Aligned_cols=44 Identities=11% Similarity=0.238 Sum_probs=38.6
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
+..|+..|.++ +.+|..+||+.++++ .. .+.+.|+-|...|++.
T Consensus 5 ~~~il~~l~~~---~~~s~~~la~~l~~s------~~-~v~~~i~~L~~~g~i~ 48 (362)
T PRK09954 5 EKEILAILRRN---PLIQQNEIADILQIS------RS-RVAAHIMDLMRKGRIK 48 (362)
T ss_pred HHHHHHHHHHC---CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCcC
Confidence 34578888886 589999999999998 67 9999999999999987
No 358
>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=78.12 E-value=3.7 Score=27.27 Aligned_cols=42 Identities=24% Similarity=0.382 Sum_probs=33.7
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
|++.|-.. |+.|..+|++.++++ .+ .++.-|-.|...|++..
T Consensus 18 V~~~Ll~~---G~ltl~~i~~~t~l~------~~-~Vk~~L~~LiQh~~v~y 59 (62)
T PF08221_consen 18 VGEVLLSR---GRLTLREIVRRTGLS------PK-QVKKALVVLIQHNLVQY 59 (62)
T ss_dssp HHHHHHHC----SEEHHHHHHHHT--------HH-HHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHc---CCcCHHHHHHHhCCC------HH-HHHHHHHHHHHcCCeee
Confidence 56777776 599999999999997 67 89999999999999874
No 359
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=77.96 E-value=4.6 Score=36.02 Aligned_cols=55 Identities=15% Similarity=0.164 Sum_probs=41.0
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
..|.+.|... .+.+..+||+.+|++ .. .+.+.++.|...|++-.. .....|.+.+
T Consensus 7 ~~il~~L~~~---~~~s~~~LA~~lgvs------r~-tV~~~l~~L~~~G~~i~~--~~~~Gy~L~~ 61 (319)
T PRK11886 7 LQLLSLLADG---DFHSGEQLGEELGIS------RA-AIWKHIQTLEEWGLDIFS--VKGKGYRLAE 61 (319)
T ss_pred HHHHHHHHcC---CCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCceEE--ecCCeEEecC
Confidence 4566777663 579999999999998 67 999999999999994421 1223477644
No 360
>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=77.56 E-value=6.1 Score=34.29 Aligned_cols=37 Identities=14% Similarity=0.152 Sum_probs=32.0
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHC-----CCCeEEEeehhH
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKY-----PHIKGINYDLLY 227 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~-----P~l~~vv~Dlp~ 227 (269)
+.+...+|+.|+|.|.++..+.+.. +..+++++|+..
T Consensus 16 l~~~~~~vEfGaGrg~LS~~v~~~~~~~~~~~~~~~lIDR~~ 57 (259)
T PF05206_consen 16 LNPDSCFVEFGAGRGELSRWVAQALQEDKPSNSRFVLIDRAS 57 (259)
T ss_pred CCCCCEEEEECCCchHHHHHHHHHhhhcccCCccEEEEecCc
Confidence 5567899999999999999999999 667889999843
No 361
>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=77.37 E-value=6.9 Score=26.87 Aligned_cols=42 Identities=14% Similarity=0.160 Sum_probs=35.8
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.|...|+. +..|.++|-+.+|++ .. .+...|.-|...|++.+
T Consensus 9 ~IL~~ls~----~c~TLeeL~ekTgi~------k~-~LlV~LsrL~k~GiI~R 50 (72)
T PF05584_consen 9 KILIILSK----RCCTLEELEEKTGIS------KN-TLLVYLSRLAKRGIIER 50 (72)
T ss_pred HHHHHHHh----ccCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCeee
Confidence 35566676 589999999999997 56 88999999999999994
No 362
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=77.13 E-value=4.7 Score=33.76 Aligned_cols=35 Identities=23% Similarity=0.248 Sum_probs=31.8
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
..++..+||+.+|++ .. .++.-|+.|.+.|+|+..
T Consensus 29 ~~L~e~eLae~lgVS------Rt-pVREAL~~L~~eGlv~~~ 63 (224)
T PRK11534 29 EKLRMSLLTSRYALG------VG-PLREALSQLVAERLVTVV 63 (224)
T ss_pred CcCCHHHHHHHHCCC------hH-HHHHHHHHHHHCCCEEEe
Confidence 688999999999998 56 899999999999999963
No 363
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=77.00 E-value=1.9 Score=36.80 Aligned_cols=56 Identities=21% Similarity=0.200 Sum_probs=43.5
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEee-hhHHHHhCCCC--------CCceEEecccCCc
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYD-LLYVIKNAPSY--------PGIDHVGGDLFES 248 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~D-lp~vv~~a~~~--------~ri~~~~gD~~~~ 248 (269)
+...+|+|..+|-|..+++.+++--- +++-++ -|.|++.|.-+ .+|+.+-||.++-
T Consensus 133 ~~G~rVLDtC~GLGYtAi~a~~rGA~-~VitvEkdp~VLeLa~lNPwSr~l~~~~i~iilGD~~e~ 197 (287)
T COG2521 133 KRGERVLDTCTGLGYTAIEALERGAI-HVITVEKDPNVLELAKLNPWSRELFEIAIKIILGDAYEV 197 (287)
T ss_pred ccCCEeeeeccCccHHHHHHHHcCCc-EEEEEeeCCCeEEeeccCCCCccccccccEEecccHHHH
Confidence 45689999999999999999988442 444444 58898887654 5789999999883
No 364
>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=76.84 E-value=4.5 Score=33.53 Aligned_cols=35 Identities=23% Similarity=0.284 Sum_probs=31.8
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
..++-.+||+.+|++ .. .++.-|+.|...|+|+..
T Consensus 33 ~~L~e~~La~~lgVS------Rt-pVReAL~~L~~eGlv~~~ 67 (212)
T TIGR03338 33 AKLNESDIAARLGVS------RG-PVREAFRALEEAGLVRNE 67 (212)
T ss_pred CEecHHHHHHHhCCC------hH-HHHHHHHHHHHCCCEEEe
Confidence 678999999999998 56 899999999999999963
No 365
>KOG0822 consensus Protein kinase inhibitor [Cell cycle control, cell division, chromosome partitioning]
Probab=76.59 E-value=10 Score=36.25 Aligned_cols=106 Identities=14% Similarity=0.230 Sum_probs=63.2
Q ss_pred CchhccccCcchHHHHHHHHHhhchhhHHHHHHhccCCCC--ccEEEEeCCCchHHHHHHHHH----CCCCeEEEeeh-h
Q 024350 154 HIYDYLGVDSSFNDVFSNGMLSHTSIVMEKVLESYKGFEH--VKKLVDVGGGLGATLNMIISK----YPHIKGINYDL-L 226 (269)
Q Consensus 154 ~~~~~~~~~p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~--~~~vvDvGGG~G~~~~~l~~~----~P~l~~vv~Dl-p 226 (269)
..|+.+++||-.-..+.+|+-+ .+++..++-+. ...|+-+|||+|-+..+.+++ ...++...++- |
T Consensus 333 ~TYetFEkD~VKY~~Yq~Ai~~-------AL~Drvpd~~a~~~tVimvlGaGRGPLv~~~lkaa~~~~RkVklyavEKNP 405 (649)
T KOG0822|consen 333 QTYETFEKDPVKYDQYQQAILK-------ALLDRVPDESAKTTTVIMVLGAGRGPLVDASLKAAEETDRKVKLYAVEKNP 405 (649)
T ss_pred hhhhhhhccchHHHHHHHHHHH-------HHHhhCcccccCceEEEEEecCCCccHHHHHHHHHHHhcCceEEEEEecCc
Confidence 3477777888766666655332 33333331222 567788899999877665553 34455666664 6
Q ss_pred HHHHhCCC------CCCceEEecccCC-cCC-C-CcEEEeccccccCCCC
Q 024350 227 YVIKNAPS------YPGIDHVGGDLFE-SVP-K-ADTIFMKVICVCYLNS 267 (269)
Q Consensus 227 ~vv~~a~~------~~ri~~~~gD~~~-~~P-~-gD~~~l~~iLhd~~d~ 267 (269)
..+-.... ..||+.+..||.+ .-| + +|++ .+-.|-.+.|.
T Consensus 406 NAivtL~~~n~~~W~~~Vtii~~DMR~w~ap~eq~DI~-VSELLGSFGDN 454 (649)
T KOG0822|consen 406 NAIVTLQNRNFECWDNRVTIISSDMRKWNAPREQADII-VSELLGSFGDN 454 (649)
T ss_pred chhhhhhhhchhhhcCeeEEEeccccccCCchhhccch-HHHhhccccCc
Confidence 65543322 2899999999998 444 2 4654 34444444443
No 366
>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=76.22 E-value=6.7 Score=25.90 Aligned_cols=47 Identities=15% Similarity=0.162 Sum_probs=35.2
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK 105 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~ 105 (269)
..++.+++.+..|.+ - .. .....+..+...|+++ . .++++++|+.|.
T Consensus 19 ~Gi~~~~~~~~~g~~---~--~~-~~~~~l~~l~~~Gll~---~-~~~~l~lT~~G~ 65 (66)
T PF06969_consen 19 EGIDLSEFEQRFGID---F--AE-EFQKELEELQEDGLLE---I-DGGRLRLTEKGR 65 (66)
T ss_dssp SEEEHHHHHHHTT-----T--HH-H-HHHHHHHHHTTSEE---E--SSEEEE-TTTG
T ss_pred CCcCHHHHHHHHCcC---H--HH-HHHHHHHHHHHCCCEE---E-eCCEEEECcccC
Confidence 479999999999985 2 23 5688899999999999 4 369999999875
No 367
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=75.96 E-value=3.8 Score=29.17 Aligned_cols=44 Identities=16% Similarity=0.224 Sum_probs=35.2
Q ss_pred hhHHHHhc-CCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 38 VFEIITKA-GPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 38 lfd~L~~~-g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
.+|.|.+. +...-+|+..||+++++. .+ ..+++||.|...|++.
T Consensus 28 t~dkl~kEV~~~K~ITps~lserlkI~------~S-lAr~~Lr~L~~kG~Ik 72 (86)
T PRK09334 28 LLKRVAKEVKKEKIVTPYTLASKYGIK------IS-VAKKVLRELEKRGVLV 72 (86)
T ss_pred HHHHHHHHhccCcEEcHHHHHHHhcch------HH-HHHHHHHHHHHCCCEE
Confidence 55555431 222568999999999996 78 9999999999999997
No 368
>COG0640 ArsR Predicted transcriptional regulators [Transcription]
Probab=75.94 E-value=7.9 Score=27.08 Aligned_cols=54 Identities=15% Similarity=0.325 Sum_probs=44.1
Q ss_pred HHHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 27 PAAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 27 ~~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
..++....++.++..|... .+.++.+|+..++++ .. .+.+.|..|...|++...
T Consensus 19 ~~~l~~~~r~~il~~l~~~---~~~~~~~l~~~~~~~------~~-~v~~hL~~L~~~glv~~~ 72 (110)
T COG0640 19 LKALADPTRLEILSLLAEG---GELTVGELAEALGLS------QS-TVSHHLKVLREAGLVELR 72 (110)
T ss_pred HHHhCCHHHHHHHHHHHhc---CCccHHHHHHHHCCC------hh-HHHHHHHHHHHCCCeEEE
Confidence 3455555778888888873 278999999999997 56 899999999999999964
No 369
>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=75.89 E-value=2.6 Score=40.37 Aligned_cols=55 Identities=16% Similarity=0.205 Sum_probs=38.7
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCC--------CeEEEeeh-hHHHHhCCCC----C--CceEEecccCC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPH--------IKGINYDL-LYVIKNAPSY----P--GIDHVGGDLFE 247 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~--------l~~vv~Dl-p~vv~~a~~~----~--ri~~~~gD~~~ 247 (269)
...+|+|.|||+|.++.+++++.+. +..+++|+ |..++.++.. . .++...+|+..
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 4579999999999999999988863 45688887 5555544321 2 45566666554
No 370
>KOG4058 consensus Uncharacterized conserved protein [Function unknown]
Probab=75.68 E-value=2.9 Score=33.13 Aligned_cols=67 Identities=19% Similarity=0.167 Sum_probs=43.4
Q ss_pred HHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhH-HHHhCCC-------CCCceEEecccCC-cCC
Q 024350 182 EKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLY-VIKNAPS-------YPGIDHVGGDLFE-SVP 250 (269)
Q Consensus 182 ~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~-vv~~a~~-------~~ri~~~~gD~~~-~~P 250 (269)
+.++..++ -....+++|+|.|.|....+..+.. -.+.+++++.+ .+.-.+- ..+..|+--|+|+ ++-
T Consensus 62 ~nVLSll~-~n~~GklvDlGSGDGRiVlaaar~g-~~~a~GvELNpwLVaysrl~a~R~g~~k~trf~RkdlwK~dl~ 137 (199)
T KOG4058|consen 62 ENVLSLLR-GNPKGKLVDLGSGDGRIVLAAARCG-LRPAVGVELNPWLVAYSRLHAWRAGCAKSTRFRRKDLWKVDLR 137 (199)
T ss_pred HHHHHHcc-CCCCCcEEeccCCCceeehhhhhhC-CCcCCceeccHHHHHHHHHHHHHHhcccchhhhhhhhhhcccc
Confidence 34555444 1234799999999999888877765 44568888844 3332221 2677777788877 444
No 371
>PRK01381 Trp operon repressor; Provisional
Probab=75.61 E-value=2.5 Score=30.94 Aligned_cols=40 Identities=20% Similarity=0.209 Sum_probs=30.4
Q ss_pred HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHH
Q 024350 32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV 82 (269)
Q Consensus 32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~ 82 (269)
.+.+++|+..|-. |.+|-.|||+.+|++ .. .+.|.-+.|-
T Consensus 41 l~~R~~I~~~L~~----g~~sQREIa~~lGvS------ia-TITRgsn~Lk 80 (99)
T PRK01381 41 LGTRVRIVEELLR----GELSQREIKQELGVG------IA-TITRGSNSLK 80 (99)
T ss_pred HHHHHHHHHHHHc----CCcCHHHHHHHhCCc------ee-eehhhHHHhc
Confidence 3568899999988 689999999999997 33 4455444443
No 372
>PRK11642 exoribonuclease R; Provisional
Probab=75.58 E-value=7.3 Score=39.51 Aligned_cols=57 Identities=23% Similarity=0.298 Sum_probs=42.3
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
.|++.|...+ +|++..+|++.++++ ...+.. .|.+.|+.|...|.+. +...+.|.+.
T Consensus 23 ~Il~~l~~~~--~~~~~~~L~~~l~l~--~~~~~~-~l~~~L~~L~~~g~l~---~~~~~~~~~~ 79 (813)
T PRK11642 23 FILEHLTKRE--KPASREELAVELNIE--GEEQLE-ALRRRLRAMERDGQLV---FTRRQCYALP 79 (813)
T ss_pred HHHHHHHhcC--CCCCHHHHHHHhCCC--ChHHHH-HHHHHHHHHHHCCCEE---EcCCceEecC
Confidence 3677776644 799999999999996 222123 7999999999999998 3345566554
No 373
>COG1565 Uncharacterized conserved protein [Function unknown]
Probab=75.23 E-value=6.8 Score=35.56 Aligned_cols=95 Identities=16% Similarity=0.174 Sum_probs=52.9
Q ss_pred cchHHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHH----CC----CCeEEEeeh-hHHHHhCC
Q 024350 163 SSFNDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISK----YP----HIKGINYDL-LYVIKNAP 233 (269)
Q Consensus 163 p~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~----~P----~l~~vv~Dl-p~vv~~a~ 233 (269)
|+..+.|...++.+... .|- ... .+.+.++|.||.|+|.++.-+++. +| .++..+++. |.-.+.=+
T Consensus 52 pels~lFGella~~~~~---~wq-~~g-~p~~~~lvEiGaG~G~l~~DiL~~l~~L~P~~~~~~~~~iiE~s~~L~~~Qk 126 (370)
T COG1565 52 PELSQLFGELLAEQFLQ---LWQ-ELG-RPAPLKLVEIGAGRGTLASDILRTLRRLYPELYEALSYYIIEPSPELRARQK 126 (370)
T ss_pred hhHHHHHHHHHHHHHHH---HHH-Hhc-CCCCceEEEeCCCcChHHHHHHHHHHHhCHHHHhcceEEEEecCHHHHHHHH
Confidence 67778887776654432 222 222 345678999999999988777664 45 456777775 44332111
Q ss_pred C-CCCc-eEEe-cccCCcCCCC-cEEEeccccc
Q 024350 234 S-YPGI-DHVG-GDLFESVPKA-DTIFMKVICV 262 (269)
Q Consensus 234 ~-~~ri-~~~~-gD~~~~~P~g-D~~~l~~iLh 262 (269)
+ ...+ ..+. ...++..|+. +.++++|=|-
T Consensus 127 ~~L~~~~~~~~~~~~~e~~p~~~~~i~~~NElf 159 (370)
T COG1565 127 ETLKATEDLIRWVEWVEDLPKKFPGIVVSNELF 159 (370)
T ss_pred HHHhccccchhHHHHHHhccccCceEEEechhh
Confidence 1 1221 1222 2333356654 6666655443
No 374
>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=75.01 E-value=4.4 Score=33.04 Aligned_cols=32 Identities=19% Similarity=0.196 Sum_probs=29.6
Q ss_pred CCHHHHHHhC-CCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 51 LSVSEIVAQI-PLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 51 ~s~~eLA~~~-~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.|-.+|++.+ |++ +. .++|.|+.|+..|++..
T Consensus 71 pSN~~La~r~~G~s------~~-tlrR~l~~LveaGLI~r 103 (177)
T PF03428_consen 71 PSNAQLAERLNGMS------ER-TLRRHLARLVEAGLIVR 103 (177)
T ss_pred cCHHHHHHHHcCCC------HH-HHHHHHHHHHHCCCeee
Confidence 4789999999 998 78 99999999999999995
No 375
>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=74.99 E-value=5.2 Score=35.34 Aligned_cols=67 Identities=18% Similarity=0.174 Sum_probs=44.2
Q ss_pred CCCccEEEEeCCCchHHHHHHHHH-------CCCCeEEEeeh-hHHHHhCCC--------CCCceEEecccCC-c-CC--
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISK-------YPHIKGINYDL-LYVIKNAPS--------YPGIDHVGGDLFE-S-VP-- 250 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~-------~P~l~~vv~Dl-p~vv~~a~~--------~~ri~~~~gD~~~-~-~P-- 250 (269)
-....+|+|-+||+|.++.++.+. .+..+..++|. |..+..++. ...+....+|.|. + ..
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 345578999999999999999874 58888899997 555544432 1335678889887 3 22
Q ss_pred CC-cEEEe
Q 024350 251 KA-DTIFM 257 (269)
Q Consensus 251 ~g-D~~~l 257 (269)
.. |+++.
T Consensus 124 ~~~D~ii~ 131 (311)
T PF02384_consen 124 QKFDVIIG 131 (311)
T ss_dssp --EEEEEE
T ss_pred cccccccC
Confidence 23 77764
No 376
>KOG1709 consensus Guanidinoacetate methyltransferase and related proteins [Amino acid transport and metabolism]
Probab=74.72 E-value=15 Score=31.15 Aligned_cols=66 Identities=20% Similarity=0.286 Sum_probs=51.0
Q ss_pred CCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCCC-----CCceEEeccc---CCcCCC-C-cEEEe
Q 024350 192 EHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPSY-----PGIDHVGGDL---FESVPK-A-DTIFM 257 (269)
Q Consensus 192 ~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~~-----~ri~~~~gD~---~~~~P~-g-D~~~l 257 (269)
.+..+|+.||=|-|.....+-++.|..+.|+-=-|.|.+..+.. +.|....|-. ...+|. . |-|+.
T Consensus 100 tkggrvLnVGFGMgIidT~iQe~~p~~H~IiE~hp~V~krmr~~gw~ek~nViil~g~WeDvl~~L~d~~FDGI~y 175 (271)
T KOG1709|consen 100 TKGGRVLNVGFGMGIIDTFIQEAPPDEHWIIEAHPDVLKRMRDWGWREKENVIILEGRWEDVLNTLPDKHFDGIYY 175 (271)
T ss_pred hCCceEEEeccchHHHHHHHhhcCCcceEEEecCHHHHHHHHhcccccccceEEEecchHhhhccccccCcceeEe
Confidence 46789999999999999999999999999998899999887653 6676666643 334563 3 55443
No 377
>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=74.51 E-value=6.5 Score=26.49 Aligned_cols=60 Identities=18% Similarity=0.247 Sum_probs=40.1
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
.+-.|.+.|...| +.++-.||...|+. -| .. -+.++|..|...|.|.+.. ..+-.|++++
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 LEEKILDFLKELG---GSTATAIAKALGLS--VP--KK-EVNRVLYRLEKQGKVCKEG-GTPPKWSLTE 64 (66)
T ss_dssp HHHHHHHHHHHHT---SSEEEHHHHHHHHT--S---HH-HHHHHHHHHHHTTSEEEEC-SSSTEEEE-H
T ss_pred HHHHHHHHHHhcC---CccHHHHHHHhCcc--hh--HH-HHHHHHHHHHHCCCEeeCC-CCCCceEecc
Confidence 4566888898875 45555555555542 11 34 8999999999999998532 2467788765
No 378
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=74.35 E-value=6.1 Score=33.84 Aligned_cols=43 Identities=23% Similarity=0.249 Sum_probs=35.4
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
..+ |-.+||+.+|++ .. .++.-|+.|.+.|+|+.. .+.|.|-.
T Consensus 24 ~~LpsE~eLae~~gVS------Rt-pVREAL~~Le~~GlV~~~--~~~G~~V~ 67 (253)
T PRK10421 24 MKLPAERQLAMQLGVS------RN-SLREALAKLVSEGVLLSR--RGGGTFIR 67 (253)
T ss_pred CcCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEEe--CCCeEEEe
Confidence 567 689999999998 66 899999999999999863 34566644
No 379
>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=74.11 E-value=4.5 Score=28.98 Aligned_cols=54 Identities=7% Similarity=0.131 Sum_probs=32.8
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceee----cCCCeEecCh
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV----DGQRLYSLAP 102 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~----~~~~~y~~t~ 102 (269)
|.-.+.. +..++..|-+.+|++ .+ .+...+.+|..+|+.....+ ...|.|+++.
T Consensus 13 la~li~~----~~~nvp~L~~~TGmP------rR-T~Qd~i~aL~~~~I~~~Fvq~G~R~~~GyY~i~~ 70 (90)
T PF09904_consen 13 LAYLIDS----GERNVPALMEATGMP------RR-TIQDTIKALPELGIECEFVQDGERNNAGYYRISD 70 (90)
T ss_dssp HHHHHHH----S-B-HHHHHHHH---------HH-HHHHHHHGGGGGT-EEEEE--TTS-S--EEEEEE
T ss_pred HHHHHhc----CCccHHHHHHHhCCC------Hh-HHHHHHHHhhcCCeEEEEEecCccCCCCcEEeee
Confidence 3344555 355999999999996 67 99999999999999874211 1246677744
No 380
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=73.97 E-value=6.3 Score=32.10 Aligned_cols=44 Identities=16% Similarity=0.224 Sum_probs=38.1
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
-|+++|.+. |.+|-++||..+|+. .. -++|+|..|...|++...
T Consensus 22 ~v~~~l~~k---ge~tDeela~~l~i~------~~-~vrriL~~L~e~~li~~~ 65 (176)
T COG1675 22 LVVDALLEK---GELTDEELAELLGIK------KN-EVRRILYALYEDGLISYR 65 (176)
T ss_pred HHHHHHHhc---CCcChHHHHHHhCcc------HH-HHHHHHHHHHhCCceEEE
Confidence 467888885 379999999999996 56 899999999999999853
No 381
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=73.95 E-value=6.4 Score=33.62 Aligned_cols=43 Identities=14% Similarity=0.238 Sum_probs=35.4
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
..+ |-.+||+.+|++ .. .++.-|+.|...|+|+.. .+.|.|-.
T Consensus 29 ~~LPsE~eLa~~~gVS------Rt-pVREAL~~L~~eGlV~~~--~~~G~~V~ 72 (251)
T PRK09990 29 QALPSERRLCEKLGFS------RS-ALREGLTVLRGRGIIETA--QGRGSFVA 72 (251)
T ss_pred CcCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEe--CCCeeEEe
Confidence 678 889999999998 56 899999999999999963 34455543
No 382
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=73.66 E-value=6.5 Score=33.63 Aligned_cols=44 Identities=18% Similarity=0.221 Sum_probs=36.3
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
..+ |-.+||+.+|++ .. .++.-|+.|.+.|+|+.. .+.|.|-..
T Consensus 32 ~~LpsE~eLa~~lgVS------Rt-pVREAL~~L~~eGlv~~~--~~~G~~V~~ 76 (254)
T PRK09464 32 EKLPPERELAKQFDVS------RP-SLREAIQRLEAKGLLLRR--QGGGTFVQS 76 (254)
T ss_pred CcCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEEe--cCceeEEec
Confidence 567 899999999998 56 899999999999999964 345666544
No 383
>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=73.55 E-value=6.5 Score=30.88 Aligned_cols=46 Identities=11% Similarity=0.193 Sum_probs=36.4
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
|++|.+|||-..|++ .+ .+-.-|.++++.|-|.+....+.=+|..+
T Consensus 5 Ga~T~eELA~~FGvt------tR-kvaStLa~~ta~Grl~Rv~q~gkfRy~iP 50 (155)
T PF07789_consen 5 GAKTAEELAGKFGVT------TR-KVASTLAMVTATGRLIRVNQNGKFRYCIP 50 (155)
T ss_pred CcccHHHHHHHhCcc------hh-hhHHHHHHHHhcceeEEecCCCceEEeCC
Confidence 799999999999998 66 88999999999999985433233345553
No 384
>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=73.46 E-value=3.7 Score=35.96 Aligned_cols=66 Identities=17% Similarity=0.235 Sum_probs=38.2
Q ss_pred ccEEEEeCCCch-HHHHHHHHHC-CCCeEEEeeh-hHHHHhCCC--------CCCceEEecccCC-cCC-CC-cEEEecc
Q 024350 194 VKKLVDVGGGLG-ATLNMIISKY-PHIKGINYDL-LYVIKNAPS--------YPGIDHVGGDLFE-SVP-KA-DTIFMKV 259 (269)
Q Consensus 194 ~~~vvDvGGG~G-~~~~~l~~~~-P~l~~vv~Dl-p~vv~~a~~--------~~ri~~~~gD~~~-~~P-~g-D~~~l~~ 259 (269)
+.+|+=||+|.= ..++.+++.+ ++.+++.+|+ |+.++.+++ ..|++|+.+|..+ ... .. |++++..
T Consensus 121 p~rVaFIGSGPLPlT~i~la~~~~~~~~v~~iD~d~~A~~~a~~lv~~~~~L~~~m~f~~~d~~~~~~dl~~~DvV~lAa 200 (276)
T PF03059_consen 121 PSRVAFIGSGPLPLTSIVLAKQHGPGARVHNIDIDPEANELARRLVASDLGLSKRMSFITADVLDVTYDLKEYDVVFLAA 200 (276)
T ss_dssp --EEEEE---SS-HHHHHHH--HTT--EEEEEESSHHHHHHHHHHHH---HH-SSEEEEES-GGGG-GG----SEEEE-T
T ss_pred cceEEEEcCCCcchHHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHhhcccccCCeEEEecchhccccccccCCEEEEhh
Confidence 569999999965 4555555544 7888999997 777766643 2799999999876 222 34 8888764
No 385
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=73.43 E-value=6.4 Score=30.97 Aligned_cols=42 Identities=14% Similarity=0.300 Sum_probs=34.9
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcc
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNAL 87 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l 87 (269)
.-|+++|-.. +.+|-++||+.+|++ .. .++++|..|..-+++
T Consensus 4 ~~v~d~L~~~---~~~~dedLa~~l~i~------~n-~vRkiL~~L~ed~~~ 45 (147)
T smart00531 4 FLVLDALMRN---GCVTEEDLAELLGIK------QK-QLRKILYLLYDEKLI 45 (147)
T ss_pred EeehHHHHhc---CCcCHHHHHHHhCCC------HH-HHHHHHHHHHhhhcc
Confidence 3478888776 589999999999997 66 999999999994443
No 386
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=73.29 E-value=6.7 Score=33.16 Aligned_cols=43 Identities=21% Similarity=0.166 Sum_probs=35.8
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
..+ |-.+||+.+|++ .. .++.-|+.|...|+|+.. .+.|.|-.
T Consensus 29 ~~LPsE~eLae~~gVS------Rt-~VReAL~~L~~eGlv~~~--~g~G~~V~ 72 (239)
T PRK04984 29 SILPAERELSELIGVT------RT-TLREVLQRLARDGWLTIQ--HGKPTKVN 72 (239)
T ss_pred CcCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEe--CCCeeEeC
Confidence 567 789999999998 56 899999999999999964 35566654
No 387
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=73.17 E-value=4 Score=33.51 Aligned_cols=45 Identities=9% Similarity=-0.011 Sum_probs=39.2
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
+--|.+.|... +.++..+||+.++++ +. .++|=|..|...|++.+
T Consensus 9 ~~~Il~~l~~~---~~~~~~~La~~~~vS------~~-TiRRDl~~L~~~g~~~r 53 (185)
T PRK04424 9 QKALQELIEEN---PFITDEELAEKFGVS------IQ-TIRLDRMELGIPELRER 53 (185)
T ss_pred HHHHHHHHHHC---CCEEHHHHHHHHCcC------HH-HHHHHHHHHhcchHHHH
Confidence 34567888886 589999999999998 67 99999999999999983
No 388
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=72.86 E-value=6.8 Score=33.60 Aligned_cols=43 Identities=19% Similarity=0.325 Sum_probs=35.2
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
..+ |-.+||+.+|++ .. .++.-|+.|.+.|+|+.. .+.|.|-.
T Consensus 31 ~~LpsE~eLa~~~gVS------Rt-pVREAL~~L~~eGlV~~~--~~~G~~V~ 74 (257)
T PRK10225 31 ERLPPEREIAEMLDVT------RT-VVREALIMLEIKGLVEVR--RGAGIYVL 74 (257)
T ss_pred CcCcCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEEe--cCCEEEEe
Confidence 578 689999999998 56 899999999999999863 34565543
No 389
>TIGR02812 fadR_gamma fatty acid metabolism transcriptional regulator FadR. Members of this family are FadR, a transcriptional regulator of fatty acid metabolism, including both biosynthesis and beta-oxidation. It is found exclusively in a subset of Gammaproteobacteria, with strictly one copy per genome. It has an N-terminal DNA-binding domain and a less well conserved C-terminal long chain acyl-CoA-binding domain. FadR from this family heterologously expressed in Escherichia coli show differences in regulatory response and fatty acid binding profiles. The family is nevertheless designated equivalog, as all member proteins have at least nominally the same function.
Probab=72.73 E-value=7.1 Score=32.96 Aligned_cols=43 Identities=21% Similarity=0.166 Sum_probs=35.3
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
..+ |-.+||+.+|++ .. .++.-|+.|...|+|+.. ++.|.|-.
T Consensus 28 ~~LpsE~~La~~lgVS------Rt-pVREAL~~Le~eGlV~~~--~~~G~~V~ 71 (235)
T TIGR02812 28 SILPAERELSELIGVT------RT-TLREVLQRLARDGWLTIQ--HGKPTKVN 71 (235)
T ss_pred CcCcCHHHHHHHHCcC------HH-HHHHHHHHHHHCCCEEEe--CCCccEec
Confidence 578 899999999998 56 899999999999999963 34565543
No 390
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=72.60 E-value=4.5 Score=25.09 Aligned_cols=40 Identities=10% Similarity=0.214 Sum_probs=22.3
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA 86 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~ 86 (269)
++.+...+.+ ..|..+||+.+|++ .. .+.++++.-...|+
T Consensus 7 R~~ii~l~~~-----G~s~~~ia~~lgvs------~~-Tv~~w~kr~~~~G~ 46 (50)
T PF13384_consen 7 RAQIIRLLRE-----GWSIREIAKRLGVS------RS-TVYRWIKRYREEGL 46 (50)
T ss_dssp ---HHHHHHH-----T--HHHHHHHHTS-------HH-HHHHHHT-------
T ss_pred HHHHHHHHHC-----CCCHHHHHHHHCcC------HH-HHHHHHHHcccccc
Confidence 4455556665 59999999999997 67 89999887666553
No 391
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=72.55 E-value=6.1 Score=32.98 Aligned_cols=44 Identities=9% Similarity=0.146 Sum_probs=35.6
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.|++.+.. |. ++.|.+|||+.++++ +. .+++.+..|+.+|++..
T Consensus 166 ~Vl~~~~~-g~-~g~s~~eIa~~l~iS------~~-Tv~~~~~~~~~~~~~~~ 209 (225)
T PRK10046 166 AVRKLFKE-PG-VQHTAETVAQALTIS------RT-TARRYLEYCASRHLIIA 209 (225)
T ss_pred HHHHHHHc-CC-CCcCHHHHHHHhCcc------HH-HHHHHHHHHHhCCeEEE
Confidence 35566655 10 258999999999998 67 89999999999999994
No 392
>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=71.42 E-value=8.7 Score=31.61 Aligned_cols=54 Identities=17% Similarity=0.226 Sum_probs=39.4
Q ss_pred HhcChhHHHHh----cCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEe
Q 024350 34 VELDVFEIITK----AGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYS 99 (269)
Q Consensus 34 ~~lglfd~L~~----~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~ 99 (269)
.+..|++.|.+ .+ -+.|..|||+.+|++ . .. .+.+.|+.|...|++++ .++.|+
T Consensus 7 ~q~~iL~~l~~~~~~~~--~~~~~~ela~~~~~~---s--~~-tv~~~l~~L~~~g~i~~----~~~~~~ 64 (199)
T TIGR00498 7 RQQEVLDLIRAHIESTG--YPPSIREIARAVGLR---S--PS-AAEEHLKALERKGYIER----DPGKPR 64 (199)
T ss_pred HHHHHHHHHHHHHHhcC--CCCcHHHHHHHhCCC---C--hH-HHHHHHHHHHHCCCEec----CCCCCC
Confidence 34455666653 23 468999999999994 1 35 88999999999999994 245554
No 393
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=71.31 E-value=3.8 Score=24.54 Aligned_cols=29 Identities=17% Similarity=0.345 Sum_probs=21.2
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhc
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSY 84 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~ 84 (269)
.+.|+++||+.+|++ +. .+.|+.+....+
T Consensus 7 ~~~~l~~iA~~~g~S------~~-~f~r~Fk~~~g~ 35 (42)
T PF00165_consen 7 QKLTLEDIAEQAGFS------PS-YFSRLFKKETGM 35 (42)
T ss_dssp SS--HHHHHHHHTS-------HH-HHHHHHHHHTSS
T ss_pred CCCCHHHHHHHHCCC------HH-HHHHHHHHHHCc
Confidence 479999999999998 77 888888765543
No 394
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=70.94 E-value=8.2 Score=32.52 Aligned_cols=42 Identities=21% Similarity=0.267 Sum_probs=34.2
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
++|-++||..+|+. .. .+.|+|+.|...|+++. .+.+++...
T Consensus 179 ~lt~~~IA~~lGis------re-tlsR~L~~L~~~GlI~~---~~~~~i~I~ 220 (230)
T PRK09391 179 PMSRRDIADYLGLT------IE-TVSRALSQLQDRGLIGL---SGARQIELR 220 (230)
T ss_pred cCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCcEEe---cCCceEEEc
Confidence 57899999999997 66 89999999999999983 223556654
No 395
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=70.79 E-value=8.3 Score=29.54 Aligned_cols=43 Identities=14% Similarity=0.203 Sum_probs=34.9
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
.=-|+.+||..+|++ +. .+.|..+.|...||+... .+.|.|-.
T Consensus 34 kLPSvRelA~~~~VN------pn-Tv~raY~eLE~eG~i~t~--rg~G~fV~ 76 (125)
T COG1725 34 KLPSVRELAKDLGVN------PN-TVQRAYQELEREGIVETK--RGKGTFVT 76 (125)
T ss_pred CCCcHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEEe--cCeeEEEc
Confidence 346999999999995 45 899999999999999853 35677744
No 396
>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=70.45 E-value=13 Score=24.19 Aligned_cols=55 Identities=15% Similarity=0.216 Sum_probs=39.5
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHh---cCcccceeecCCCeEecChhch
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVS---YNALHCSFVDGQRLYSLAPVSK 105 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~---~g~l~~~~~~~~~~y~~t~~s~ 105 (269)
++.+|..+.+ .-|+..-|+.++++ .. .+.+-++.|.. .-+|. +. .+.+.+|+.|+
T Consensus 3 ~l~~f~~v~~-----~gs~~~AA~~l~is------~~-~vs~~i~~LE~~lg~~Lf~---r~-~~~~~lT~~G~ 60 (60)
T PF00126_consen 3 QLRYFLAVAE-----TGSISAAAEELGIS------QS-AVSRQIKQLEEELGVPLFE---RS-GRGLRLTEAGE 60 (60)
T ss_dssp HHHHHHHHHH-----HSSHHHHHHHCTSS------HH-HHHHHHHHHHHHHTS-SEE---EC-SSSEEE-HHHH
T ss_pred HHHHHHHHHH-----hCCHHHHHHHhhcc------ch-HHHHHHHHHHHHhCCeEEE---EC-CCCeeEChhhC
Confidence 4567788887 45899999999998 66 78888777765 45666 33 45699998764
No 397
>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=70.15 E-value=7.6 Score=32.46 Aligned_cols=55 Identities=20% Similarity=0.214 Sum_probs=31.0
Q ss_pred CccEEEEeCCCch---HHHHHHHHHC-CCCeEEEeeh---hHHHHhCCC---CCCceEEecccCC
Q 024350 193 HVKKLVDVGGGLG---ATLNMIISKY-PHIKGINYDL---LYVIKNAPS---YPGIDHVGGDLFE 247 (269)
Q Consensus 193 ~~~~vvDvGGG~G---~~~~~l~~~~-P~l~~vv~Dl---p~vv~~a~~---~~ri~~~~gD~~~ 247 (269)
++.+|+.+|--+| .+...+++.. ++.+++.+|+ +...+..+. .+||+++.||--+
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 4689999985554 4555667777 8889999997 222222222 3899999999875
No 398
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=70.13 E-value=11 Score=29.68 Aligned_cols=64 Identities=25% Similarity=0.315 Sum_probs=44.0
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCch-hHHHHHHHHHHHHHhcCcccceeecCC--CeEecChh
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPE-AAAMMLDRVLRLLVSYNALHCSFVDGQ--RLYSLAPV 103 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~-~~~~~l~rlL~~L~~~g~l~~~~~~~~--~~y~~t~~ 103 (269)
-++.|++.|..++ ++.|+++|=+.+.-. .|. ... -+.|.|+.|...|+|.+. +.++ -+|.++.-
T Consensus 22 qR~~vl~~L~~~~--~~~sAeei~~~l~~~--~p~isla-TVYr~L~~l~e~Glv~~~-~~~~~~~~y~~~~~ 88 (145)
T COG0735 22 QRLAVLELLLEAD--GHLSAEELYEELREE--GPGISLA-TVYRTLKLLEEAGLVHRL-EFEGGKTRYELNSE 88 (145)
T ss_pred HHHHHHHHHHhcC--CCCCHHHHHHHHHHh--CCCCCHh-HHHHHHHHHHHCCCEEEE-EeCCCEEEEecCCC
Confidence 3566899998865 679999998877632 111 145 789999999999999953 2222 23655544
No 399
>PRK03837 transcriptional regulator NanR; Provisional
Probab=70.08 E-value=9.4 Score=32.23 Aligned_cols=43 Identities=21% Similarity=0.227 Sum_probs=35.4
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
..+ +-.+||+.+|++ .. .++.-|+.|...|+|+.. .+.|.|-.
T Consensus 35 ~~Lp~E~~Lae~~gVS------Rt-~VREAL~~L~~eGlv~~~--~~~G~~V~ 78 (241)
T PRK03837 35 DQLPSERELMAFFGVG------RP-AVREALQALKRKGLVQIS--HGERARVS 78 (241)
T ss_pred CCCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEEEe--cCCceeEe
Confidence 568 899999999998 67 899999999999999964 34555543
No 400
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=70.07 E-value=9.4 Score=30.79 Aligned_cols=55 Identities=13% Similarity=0.247 Sum_probs=40.0
Q ss_pred HHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 32 AVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 32 ~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
+--+.-|++.|...+ +++|+++|.+.+.-...+.. .. -+.|.|+.|+..|+|.+.
T Consensus 25 T~qR~~IL~~l~~~~--~hlSa~eI~~~L~~~~~~is-~a-TVYRtL~~L~e~Glv~~~ 79 (169)
T PRK11639 25 TPQRLEVLRLMSLQP--GAISAYDLLDLLREAEPQAK-PP-TVYRALDFLLEQGFVHKV 79 (169)
T ss_pred CHHHHHHHHHHHhcC--CCCCHHHHHHHHHhhCCCCC-cc-hHHHHHHHHHHCCCEEEE
Confidence 444566888887754 69999999988864300111 34 789999999999999953
No 401
>PRK10736 hypothetical protein; Provisional
Probab=69.72 E-value=8.9 Score=35.12 Aligned_cols=50 Identities=8% Similarity=-0.043 Sum_probs=40.2
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
.|++.|.. .|.++++|+..+|++ .. .+..+|-.|.-.|++. +..++.|+.
T Consensus 312 ~v~~~l~~----~~~~iD~L~~~~~l~------~~-~v~~~L~~LEl~G~v~---~~~g~~~~~ 361 (374)
T PRK10736 312 ELLANVGD----EVTPVDVVAERAGQP------VP-EVVTQLLELELAGWIA---AVPGGYVRL 361 (374)
T ss_pred HHHHhcCC----CCCCHHHHHHHHCcC------HH-HHHHHHHHHHhCCcEE---EcCCcEEEE
Confidence 46666654 589999999999997 67 8899999999999999 433566665
No 402
>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=69.60 E-value=5.7 Score=33.89 Aligned_cols=73 Identities=19% Similarity=0.269 Sum_probs=43.8
Q ss_pred HHHHhccCCCC--ccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCCC-----------C-----CCceEEecc
Q 024350 183 KVLESYKGFEH--VKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAPS-----------Y-----PGIDHVGGD 244 (269)
Q Consensus 183 ~~~~~~~~~~~--~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~~-----------~-----~ri~~~~gD 244 (269)
.+++... +++ ..+|+|+=+|-|.-+.-++.. +.+++.++..+++...-+ . .||+++.+|
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 4556554 443 259999999999988887754 678999998766643211 1 589999999
Q ss_pred cCCc--CCC-C-cEEEec
Q 024350 245 LFES--VPK-A-DTIFMK 258 (269)
Q Consensus 245 ~~~~--~P~-g-D~~~l~ 258 (269)
..+- .|. . |+|+|-
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 8883 443 3 998873
No 403
>KOG4300 consensus Predicted methyltransferase [General function prediction only]
Probab=69.60 E-value=9.1 Score=32.20 Aligned_cols=68 Identities=19% Similarity=0.190 Sum_probs=42.7
Q ss_pred CccEEEEeCCCchHHHHHHHHHC---CCCeEEEeeh-hHHHHhCCC------CCCce-EEecccCC-c-CCCC--cEEEe
Q 024350 193 HVKKLVDVGGGLGATLNMIISKY---PHIKGINYDL-LYVIKNAPS------YPGID-HVGGDLFE-S-VPKA--DTIFM 257 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~---P~l~~vv~Dl-p~vv~~a~~------~~ri~-~~~gD~~~-~-~P~g--D~~~l 257 (269)
.-.-++.||||+|..- +-| |..++|.+|- |.+-+.+.+ ...++ |+.++--. + ++.+ |+++.
T Consensus 76 ~K~~vLEvgcGtG~Nf----kfy~~~p~~svt~lDpn~~mee~~~ks~~E~k~~~~~~fvva~ge~l~~l~d~s~DtVV~ 151 (252)
T KOG4300|consen 76 GKGDVLEVGCGTGANF----KFYPWKPINSVTCLDPNEKMEEIADKSAAEKKPLQVERFVVADGENLPQLADGSYDTVVC 151 (252)
T ss_pred CccceEEecccCCCCc----ccccCCCCceEEEeCCcHHHHHHHHHHHhhccCcceEEEEeechhcCcccccCCeeeEEE
Confidence 3467899999999753 234 4667899995 444443322 25566 77776654 3 4444 88887
Q ss_pred ccccccC
Q 024350 258 KVICVCY 264 (269)
Q Consensus 258 ~~iLhd~ 264 (269)
.-+|-..
T Consensus 152 TlvLCSv 158 (252)
T KOG4300|consen 152 TLVLCSV 158 (252)
T ss_pred EEEEecc
Confidence 7666433
No 404
>PRK12423 LexA repressor; Provisional
Probab=69.44 E-value=10 Score=31.38 Aligned_cols=33 Identities=12% Similarity=0.193 Sum_probs=29.2
Q ss_pred CCCHHHHHHhCCC-CCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 50 KLSVSEIVAQIPL-KDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 50 ~~s~~eLA~~~~~-~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
+-|..|||+.+|+ + .. .++..|+.|...|+++.
T Consensus 25 ~Ps~~eia~~~g~~s------~~-~v~~~l~~L~~~G~l~~ 58 (202)
T PRK12423 25 PPSLAEIAQAFGFAS------RS-VARKHVQALAEAGLIEV 58 (202)
T ss_pred CCCHHHHHHHhCCCC------hH-HHHHHHHHHHHCCCEEe
Confidence 5699999999995 5 45 88999999999999994
No 405
>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=69.23 E-value=12 Score=33.81 Aligned_cols=75 Identities=16% Similarity=0.213 Sum_probs=42.7
Q ss_pred CCCccEEEEeCCCchHHHHHHH--------HHC--------CCCeEEEeehhHH-----HHhCCC-------CCC--ceE
Q 024350 191 FEHVKKLVDVGGGLGATLNMII--------SKY--------PHIKGINYDLLYV-----IKNAPS-------YPG--IDH 240 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~--------~~~--------P~l~~vv~Dlp~v-----v~~a~~-------~~r--i~~ 240 (269)
.++.-+|+|+||.+|..+..++ +++ |.++++.=|+|.. ...... .+. +.-
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 4567899999999997554433 233 3456666688642 221111 123 666
Q ss_pred EecccCC-cCCCC--cEEEeccccccCC
Q 024350 241 VGGDLFE-SVPKA--DTIFMKVICVCYL 265 (269)
Q Consensus 241 ~~gD~~~-~~P~g--D~~~l~~iLhd~~ 265 (269)
++|.|+. -+|.+ |+++-+..||=.+
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 7899999 58864 9999999998654
No 406
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=69.06 E-value=8.9 Score=32.15 Aligned_cols=42 Identities=12% Similarity=0.209 Sum_probs=34.8
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
++|-++||+.+|++ .. .+.|+|+.|...|++.. . .+.+....
T Consensus 184 ~lt~~~iA~~lG~s------r~-tvsR~l~~l~~~g~I~~---~-~~~i~i~d 225 (235)
T PRK11161 184 TMTRGDIGNYLGLT------VE-TISRLLGRFQKSGMLAV---K-GKYITIEN 225 (235)
T ss_pred cccHHHHHHHhCCc------HH-HHHHHHHHHHHCCCEEe---c-CCEEEEcC
Confidence 68999999999997 56 89999999999999993 3 45565543
No 407
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=68.99 E-value=9.5 Score=32.62 Aligned_cols=43 Identities=12% Similarity=0.153 Sum_probs=34.9
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
..+ |-.+||+.+|++ .. .++.-|+.|...|+|+.. .+.|.|-.
T Consensus 30 ~~LpsE~eLae~~gVS------Rt-pVREAL~~L~~eGlV~~~--~~~G~~V~ 73 (253)
T PRK11523 30 DKLPAERFIADEKNVS------RT-VVREAIIMLEVEGYVEVR--KGSGIHVV 73 (253)
T ss_pred CCCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEe--cCCeeEEe
Confidence 578 578999999998 56 899999999999999863 34565543
No 408
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=68.98 E-value=8.2 Score=32.25 Aligned_cols=35 Identities=29% Similarity=0.350 Sum_probs=31.4
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
..++..+||+.+|++ .. .++.-|+.|...|+|+..
T Consensus 33 ~~L~e~~La~~lgVS------Rt-pVREAL~~L~~eGLV~~~ 67 (221)
T PRK11414 33 ARLITKNLAEQLGMS------IT-PVREALLRLVSVNALSVA 67 (221)
T ss_pred CccCHHHHHHHHCCC------ch-hHHHHHHHHHHCCCEEec
Confidence 678999999999998 56 899999999999999953
No 409
>COG2186 FadR Transcriptional regulators [Transcription]
Probab=68.90 E-value=8.3 Score=32.99 Aligned_cols=42 Identities=12% Similarity=0.178 Sum_probs=35.9
Q ss_pred CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 51 LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 51 ~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
-+-.+||+.+|++ .. .++--|+.|.+.|+|+. +.+.|.|-.+
T Consensus 35 P~EreLae~fgVS------R~-~vREAl~~L~a~Glve~--r~G~Gt~V~~ 76 (241)
T COG2186 35 PSERELAERFGVS------RT-VVREALKRLEAKGLVEI--RQGSGTFVRP 76 (241)
T ss_pred CCHHHHHHHHCCC------cH-HHHHHHHHHHHCCCeee--cCCCceEecC
Confidence 3578999999998 56 89999999999999997 4577888764
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=68.72 E-value=6.9 Score=31.53 Aligned_cols=33 Identities=21% Similarity=0.201 Sum_probs=30.6
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
++|-+|||..+|+. .. .+.|+|+.|...|++..
T Consensus 143 ~~t~~~iA~~lG~t------re-tvsR~l~~l~~~g~I~~ 175 (193)
T TIGR03697 143 RLSHQAIAEAIGST------RV-TITRLLGDLRKKKLISI 175 (193)
T ss_pred CCCHHHHHHHhCCc------HH-HHHHHHHHHHHCCCEEe
Confidence 68999999999997 66 99999999999999983
No 411
>PF13518 HTH_28: Helix-turn-helix domain
Probab=68.57 E-value=10 Score=23.40 Aligned_cols=30 Identities=17% Similarity=0.102 Sum_probs=26.2
Q ss_pred CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcc
Q 024350 51 LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNAL 87 (269)
Q Consensus 51 ~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l 87 (269)
.|..++|+.+|++ .. .+.++++.....|+-
T Consensus 13 ~s~~~~a~~~gis------~~-tv~~w~~~y~~~G~~ 42 (52)
T PF13518_consen 13 ESVREIAREFGIS------RS-TVYRWIKRYREGGIE 42 (52)
T ss_pred CCHHHHHHHHCCC------Hh-HHHHHHHHHHhcCHH
Confidence 4999999999998 66 899999999888853
No 412
>PRK09462 fur ferric uptake regulator; Provisional
Probab=68.33 E-value=17 Score=28.44 Aligned_cols=54 Identities=15% Similarity=0.226 Sum_probs=38.7
Q ss_pred HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCch-hHHHHHHHHHHHHHhcCcccce
Q 024350 33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPE-AAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~-~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
.-+.-|++.|.... +++.|++||-+.+.-. .|. ... -+.|.|+.|+..|++.+.
T Consensus 17 ~qR~~Il~~l~~~~-~~h~sa~eI~~~l~~~--~~~i~~a-TVYR~L~~L~e~Gli~~~ 71 (148)
T PRK09462 17 LPRLKILEVLQEPD-NHHVSAEDLYKRLIDM--GEEIGLA-TVYRVLNQFDDAGIVTRH 71 (148)
T ss_pred HHHHHHHHHHHhCC-CCCCCHHHHHHHHHhh--CCCCCHH-HHHHHHHHHHHCCCEEEE
Confidence 34556888887631 1589999999887432 110 145 889999999999999853
No 413
>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=68.04 E-value=7.6 Score=29.25 Aligned_cols=34 Identities=24% Similarity=0.291 Sum_probs=30.7
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.+.|+.|||..++++ .. .++-++--|...|++..
T Consensus 54 ~~~SVAEiAA~L~lP------lg-VvrVLvsDL~~~G~v~v 87 (114)
T PF05331_consen 54 RPLSVAEIAARLGLP------LG-VVRVLVSDLADAGLVRV 87 (114)
T ss_pred CCccHHHHHHhhCCC------ch-hhhhhHHHHHhCCCEEE
Confidence 389999999999997 67 88999999999999983
No 414
>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=67.99 E-value=9.5 Score=32.68 Aligned_cols=71 Identities=18% Similarity=0.119 Sum_probs=36.0
Q ss_pred HHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehh-HHHHhCC----CC-CCceEEecccCCcCCC---C--
Q 024350 184 VLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLL-YVIKNAP----SY-PGIDHVGGDLFESVPK---A-- 252 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp-~vv~~a~----~~-~ri~~~~gD~~~~~P~---g-- 252 (269)
+.+.++ +. .++|+=||=.. ..+++++-.++.-+.+|+|+. ..++-.+ +. -.|+.+.+|+-.++|+ +
T Consensus 37 ~~~~gd-L~-gk~il~lGDDD-LtSlA~al~~~~~~I~VvDiDeRll~fI~~~a~~~gl~i~~~~~DlR~~LP~~~~~~f 113 (243)
T PF01861_consen 37 MAERGD-LE-GKRILFLGDDD-LTSLALALTGLPKRITVVDIDERLLDFINRVAEEEGLPIEAVHYDLRDPLPEELRGKF 113 (243)
T ss_dssp HHHTT--ST-T-EEEEES-TT--HHHHHHHHT--SEEEEE-S-HHHHHHHHHHHHHHT--EEEE---TTS---TTTSS-B
T ss_pred HHhcCc-cc-CCEEEEEcCCc-HHHHHHHhhCCCCeEEEEEcCHHHHHHHHHHHHHcCCceEEEEecccccCCHHHhcCC
Confidence 345555 54 47899999444 455556666777889999984 3443322 21 2399999999999994 4
Q ss_pred cEEEe
Q 024350 253 DTIFM 257 (269)
Q Consensus 253 D~~~l 257 (269)
|+++-
T Consensus 114 D~f~T 118 (243)
T PF01861_consen 114 DVFFT 118 (243)
T ss_dssp SEEEE
T ss_pred CEEEe
Confidence 88763
No 415
>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=67.57 E-value=6.2 Score=29.29 Aligned_cols=45 Identities=13% Similarity=0.205 Sum_probs=35.3
Q ss_pred hhHHHHhc-CCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 38 VFEIITKA-GPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 38 lfd~L~~~-g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.+|.|... ....-+|+..||+++++. -+ ..+++|+.|...|++..
T Consensus 46 ~~~kl~kEV~~~K~ITp~~lserlkI~------~S-lAr~~Lr~L~~kG~Ik~ 91 (105)
T PF03297_consen 46 TYDKLLKEVPKMKLITPSVLSERLKIN------GS-LARKALRELESKGLIKP 91 (105)
T ss_dssp HHHHHHHHCTTSSCECHHHHHHHHCCS------CH-HHHHHHHHHHHCCSSEE
T ss_pred HHHHHHHHhccCcEeeHHHHHHhHhhH------HH-HHHHHHHHHHHCCCEEE
Confidence 45555432 212568999999999997 67 99999999999999984
No 416
>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=67.47 E-value=4.8 Score=27.76 Aligned_cols=32 Identities=16% Similarity=0.090 Sum_probs=28.5
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
.+|..|||+.+|++ +. .+...+..+...|.+.
T Consensus 32 GlS~kEIAe~LGIS------~~-TVk~~l~~~~~~~~~~ 63 (73)
T TIGR03879 32 GKTASEIAEELGRT------EQ-TVRNHLKGETKAGGLV 63 (73)
T ss_pred CCCHHHHHHHHCcC------HH-HHHHHHhcCcccchHH
Confidence 69999999999998 67 8999999888888876
No 417
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=67.42 E-value=13 Score=30.41 Aligned_cols=60 Identities=18% Similarity=0.303 Sum_probs=45.2
Q ss_pred HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
-++..|.|.|...| ...|+-+||.++|++ -. -+.|.|.-|-..|.|...+ ..+-+|....
T Consensus 4 ~~~~~i~~~l~~~~--~~~~a~~i~k~l~i~------k~-~vNr~LY~L~~~~~v~~~~-~~pP~W~~~~ 63 (183)
T PHA02701 4 DCASLILTLLSSSG--DKLPAKRIAKELGIS------KH-EANRCLYRLLESDAVSCED-GCPPLWSVEC 63 (183)
T ss_pred hHHHHHHHHHHhcC--CCCcHHHHHHHhCcc------HH-HHHHHHHHHhhcCcEecCC-CCCCcccccc
Confidence 45677999999875 369999999999997 45 7888899898899986432 2355554443
No 418
>PRK13239 alkylmercury lyase; Provisional
Probab=66.96 E-value=8.3 Score=32.23 Aligned_cols=40 Identities=18% Similarity=0.360 Sum_probs=30.2
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHh
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVS 83 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~ 83 (269)
+..-|+..|++ | +|.|..+||+.+|.+ .+ .+++.|+.|..
T Consensus 23 ~~~~llr~la~-G--~pvt~~~lA~~~~~~------~~-~v~~~L~~l~~ 62 (206)
T PRK13239 23 LLVPLLRLLAK-G--RPVSVTTLAAALGWP------VE-EVEAVLEAMPD 62 (206)
T ss_pred HHHHHHHHHHc-C--CCCCHHHHHHHhCCC------HH-HHHHHHHhCCC
Confidence 34446777884 5 899999999999997 56 77777776643
No 419
>PRK14999 histidine utilization repressor; Provisional
Probab=66.81 E-value=11 Score=32.05 Aligned_cols=44 Identities=25% Similarity=0.289 Sum_probs=36.7
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
..+ |-.+||+..|++ .. .+++-|+.|+..|+|.+. .+.|.|-..
T Consensus 34 ~~LPsE~eLa~~~gVS------R~-TVR~Al~~L~~eGli~r~--~GkGTfV~~ 78 (241)
T PRK14999 34 DRIPSEAELVAQYGFS------RM-TINRALRELTDEGWLVRL--QGVGTFVAE 78 (241)
T ss_pred CcCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEe--cCcEEEECC
Confidence 345 899999999998 55 899999999999999963 467888653
No 420
>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=66.15 E-value=14 Score=28.10 Aligned_cols=49 Identities=6% Similarity=0.073 Sum_probs=41.3
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYF 107 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l 107 (269)
-|.|.++||..++.+ .+ .+..-|..+...|+++ ..+++.|..+....+.
T Consensus 52 ipy~~e~LA~~~~~~------~~-~V~~AL~~f~k~glIe---~~ed~~i~i~~~~~~~ 100 (121)
T PF09681_consen 52 IPYTAEMLALEFDRP------VD-TVRLALAVFQKLGLIE---IDEDGVIYIPNWEKHQ 100 (121)
T ss_pred CCCcHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEE---EecCCeEEeecHHHHh
Confidence 589999999999997 67 9999999999999999 5567888887655443
No 421
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=66.05 E-value=8.5 Score=31.54 Aligned_cols=32 Identities=25% Similarity=0.350 Sum_probs=30.1
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
++|-.+||+.+|++ .. .+.|+|+.|...|++.
T Consensus 168 ~~t~~~lA~~lG~t------r~-tvsR~l~~l~~~gii~ 199 (211)
T PRK11753 168 KITRQEIGRIVGCS------RE-MVGRVLKMLEDQGLIS 199 (211)
T ss_pred CCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCCEE
Confidence 78899999999997 66 9999999999999998
No 422
>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=65.64 E-value=14 Score=27.58 Aligned_cols=51 Identities=25% Similarity=0.356 Sum_probs=38.9
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
.|+-|.+.|=+. +++|+.||.+.+.-+ .+.... .+..+|+-|+..|+|...
T Consensus 4 ~E~~IM~~lW~~---~~~t~~eI~~~l~~~--~~~~~s-Tv~t~L~rL~~Kg~l~~~ 54 (115)
T PF03965_consen 4 LELEIMEILWES---GEATVREIHEALPEE--RSWAYS-TVQTLLNRLVEKGFLTRE 54 (115)
T ss_dssp HHHHHHHHHHHH---SSEEHHHHHHHHCTT--SS--HH-HHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHhC---CCCCHHHHHHHHHhc--cccchh-HHHHHHHHHHhCCceeEe
Confidence 456677777666 479999999998764 222256 889999999999999964
No 423
>PF12692 Methyltransf_17: S-adenosyl-L-methionine methyltransferase; PDB: 3IHT_B.
Probab=65.58 E-value=35 Score=27.05 Aligned_cols=57 Identities=18% Similarity=0.284 Sum_probs=35.0
Q ss_pred HHHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh
Q 024350 166 NDVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL 225 (269)
Q Consensus 166 ~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl 225 (269)
...|.+-|.+-.... ..+.....+.+ .-|+++|=|.|..=-.+.+.+|+=+..|||+
T Consensus 4 LDsfi~RmtaQR~~L-~~a~~~v~~~~--G~VlElGLGNGRTydHLRe~~p~R~I~vfDR 60 (160)
T PF12692_consen 4 LDSFIRRMTAQRDCL-NWAAAQVAGLP--GPVLELGLGNGRTYDHLREIFPDRRIYVFDR 60 (160)
T ss_dssp HHHHHHHHHHHHHHH-HHHHHHTTT----S-EEEE--TTSHHHHHHHHH--SS-EEEEES
T ss_pred HHHHHHHHHHHHHHH-HHHHHHhcCCC--CceEEeccCCCccHHHHHHhCCCCeEEEEee
Confidence 456666676644432 22233333233 5699999999999999999999999999997
No 424
>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=64.69 E-value=11 Score=24.48 Aligned_cols=39 Identities=13% Similarity=0.302 Sum_probs=29.8
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHH
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLV 82 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~ 82 (269)
-++.|++.|-+. +..|.++||+.+|++ ++ .+..-+..|.
T Consensus 6 rq~~Ll~~L~~~---~~~~~~ela~~l~~S------~r-ti~~~i~~L~ 44 (59)
T PF08280_consen 6 RQLKLLELLLKN---KWITLKELAKKLNIS------ER-TIKNDINELN 44 (59)
T ss_dssp HHHHHHHHHHHH---TSBBHHHHHHHCTS-------HH-HHHHHHHHHH
T ss_pred HHHHHHHHHHcC---CCCcHHHHHHHHCCC------HH-HHHHHHHHHH
Confidence 456778888774 589999999999998 66 7776666665
No 425
>TIGR02404 trehalos_R_Bsub trehalose operon repressor, B. subtilis-type. This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from E. coli.
Probab=64.63 E-value=11 Score=31.82 Aligned_cols=41 Identities=20% Similarity=0.213 Sum_probs=35.3
Q ss_pred CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 52 SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 52 s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
|-.|||+..|++ .. .+++-|+.|+..|+|.+. .+.|.|-..
T Consensus 26 sE~eLa~~~gVS------R~-TVR~Al~~L~~eGli~r~--~G~GTfV~~ 66 (233)
T TIGR02404 26 SEHELMDQYGAS------RE-TVRKALNLLTEAGYIQKI--QGKGSIVLN 66 (233)
T ss_pred CHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEe--CCceEEEec
Confidence 789999999998 55 899999999999999973 467888643
No 426
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=64.13 E-value=9.5 Score=31.06 Aligned_cols=41 Identities=15% Similarity=0.122 Sum_probs=34.1
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
++|-++||..+|+. .+ .+.|+|.-|...|++.. +.+.....
T Consensus 149 ~~t~~~iA~~lG~t------re-tvsR~l~~l~~~g~I~~----~~~~i~I~ 189 (202)
T PRK13918 149 YATHDELAAAVGSV------RE-TVTKVIGELSREGYIRS----GYGKIQLL 189 (202)
T ss_pred cCCHHHHHHHhCcc------HH-HHHHHHHHHHHCCCEEc----CCCEEEEE
Confidence 68999999999997 66 99999999999999993 23555543
No 427
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=64.11 E-value=6.4 Score=31.24 Aligned_cols=32 Identities=16% Similarity=0.220 Sum_probs=27.0
Q ss_pred CCceEEecccCC-cCCC-C-cEEEeccccccCCCC
Q 024350 236 PGIDHVGGDLFE-SVPK-A-DTIFMKVICVCYLNS 267 (269)
Q Consensus 236 ~ri~~~~gD~~~-~~P~-g-D~~~l~~iLhd~~d~ 267 (269)
.+|+++.+|..+ +.+. . |++++..+||+++|.
T Consensus 26 ~~i~~~~~d~~~lp~~~~~fD~v~~~~~l~~~~d~ 60 (160)
T PLN02232 26 KCIEWIEGDAIDLPFDDCEFDAVTMGYGLRNVVDR 60 (160)
T ss_pred CceEEEEechhhCCCCCCCeeEEEecchhhcCCCH
Confidence 579999999987 6665 3 999999999999864
No 428
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=64.11 E-value=21 Score=30.19 Aligned_cols=47 Identities=21% Similarity=0.268 Sum_probs=40.2
Q ss_pred HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
-.+.+++..+..+| ..++.|+++.++++ .. .++-.||.|.+.++++.
T Consensus 101 s~R~~Iy~~i~~nP---G~~lsEl~~nl~i~------R~-TlRyhlriLe~~~li~a 147 (240)
T COG3398 101 SKRDGIYNYIKPNP---GFSLSELRANLYIN------RS-TLRYHLRILESNPLIEA 147 (240)
T ss_pred hhHHHHHHHhccCC---CccHHHHHHhcCCC------hH-HHHHHHHHHHhCcchhh
Confidence 34567888888874 89999999999996 56 99999999999999984
No 429
>TIGR02325 C_P_lyase_phnF phosphonates metabolism transcriptional regulator PhnF. All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond.
Probab=64.11 E-value=11 Score=31.75 Aligned_cols=42 Identities=14% Similarity=0.260 Sum_probs=35.6
Q ss_pred CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 52 SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 52 s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
|-.|||+..|++ .. .+++-|..|+..|++... .+.|.|-..+
T Consensus 34 sE~eLa~~~~VS------R~-TvR~Al~~L~~eGli~r~--~G~GtfV~~~ 75 (238)
T TIGR02325 34 AEMQLAERFGVN------RH-TVRRAIAALVERGLLRAE--QGRGTFVAAR 75 (238)
T ss_pred CHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEe--cCCEEEECCC
Confidence 788999999998 55 899999999999999963 4678887533
No 430
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=63.62 E-value=22 Score=26.61 Aligned_cols=50 Identities=26% Similarity=0.285 Sum_probs=34.3
Q ss_pred HHHhccCCCCccEEEEeCCCch-HHHHHHHHHCCCCeE-EEeehhHHHHhCC
Q 024350 184 VLESYKGFEHVKKLVDVGGGLG-ATLNMIISKYPHIKG-INYDLLYVIKNAP 233 (269)
Q Consensus 184 ~~~~~~~~~~~~~vvDvGGG~G-~~~~~l~~~~P~l~~-vv~Dlp~vv~~a~ 233 (269)
+++.++.=++.-.+.|+=||+- ..+..+..++|+++. .++++|-+++.+.
T Consensus 51 ~i~~~~~~~~vivltDl~GGSp~n~a~~~~~~~~~~~vIsG~NLpmlle~~~ 102 (116)
T TIGR00824 51 ALADLDTEEEVLFLVDIFGGSPYNAAARIIVDKPHMDVIAGVNLPLLLETLM 102 (116)
T ss_pred HHHhcCCCCCEEEEEeCCCCCHHHHHHHHHhhcCCEEEEEecCHHHHHHHHH
Confidence 3444431235678999955554 466667778899974 8999999998654
No 431
>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=63.52 E-value=21 Score=25.88 Aligned_cols=61 Identities=13% Similarity=0.211 Sum_probs=42.5
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhC--------CCCCCCchhHHHHHHHHHHHHHhcCcccceeec-C----CCeEecChhc
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQI--------PLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD-G----QRLYSLAPVS 104 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~--------~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~-~----~~~y~~t~~s 104 (269)
|+-.|.. +|.+--||.+.+ .++ .. .+.++|+-|...|+++..... + .-.|++|+.|
T Consensus 9 iL~~L~~----~~~~GYei~~~l~~~~~~~~~i~------~g-tlY~~L~rLe~~GlI~~~~~~~~~~~~rk~y~iT~~G 77 (100)
T TIGR03433 9 ILKTLSL----GPLHGYGIAQRIQQISEDVLQVE------EG-SLYPALHRLERRGWIAAEWGESENNRRAKFYRLTAAG 77 (100)
T ss_pred HHHHHhc----CCCCHHHHHHHHHHHcCCccccC------CC-cHHHHHHHHHHCCCeEEEeeecCCCCCceEEEECHHH
Confidence 4455555 588888888885 333 34 899999999999999953111 1 1459999988
Q ss_pred hhhhc
Q 024350 105 KYFVR 109 (269)
Q Consensus 105 ~~l~~ 109 (269)
+.+..
T Consensus 78 r~~l~ 82 (100)
T TIGR03433 78 RKQLA 82 (100)
T ss_pred HHHHH
Confidence 75543
No 432
>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=63.50 E-value=9.3 Score=32.78 Aligned_cols=34 Identities=15% Similarity=0.273 Sum_probs=24.7
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCC--------CeEEEeehh
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPH--------IKGINYDLL 226 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~--------l~~vv~Dlp 226 (269)
..-+||++|+|+|.++..+++.... ++.+++|..
T Consensus 18 ~~~~ivE~GaG~G~La~diL~~l~~~~p~~~~~~~y~ivE~S 59 (252)
T PF02636_consen 18 EPLRIVEIGAGRGTLARDILRYLRKFSPEVYKRLRYHIVEIS 59 (252)
T ss_dssp S-EEEEEES-TTSHHHHHHHHHHCCTTHHHHTTCEEEEE-TT
T ss_pred cCcEEEEECCCchHHHHHHHHHHHHhChhhhhcceEEEEcCC
Confidence 3579999999999999998875543 477888863
No 433
>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=63.29 E-value=11 Score=24.69 Aligned_cols=34 Identities=21% Similarity=0.338 Sum_probs=27.9
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
|-++...||++.|+. .+ .+..-||-|.+.|+++.
T Consensus 3 g~lvas~iAd~~GiT------RS-vIVNALRKleSaGvIes 36 (61)
T PF08222_consen 3 GRLVASKIADRVGIT------RS-VIVNALRKLESAGVIES 36 (61)
T ss_dssp EEE-HHHHHHHHT--------HH-HHHHHHHHHHHTTSEEE
T ss_pred ceehHHHHHHHhCcc------HH-HHHHHHHHHHhcCceee
Confidence 468899999999997 67 88999999999999994
No 434
>COG1088 RfbB dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]
Probab=63.05 E-value=16 Score=32.55 Aligned_cols=48 Identities=29% Similarity=0.444 Sum_probs=36.8
Q ss_pred eCCCchH----HHHHHHHHCCCCeEEEeeh------hHHHHhCCCCCCceEEecccCC
Q 024350 200 VGGGLGA----TLNMIISKYPHIKGINYDL------LYVIKNAPSYPGIDHVGGDLFE 247 (269)
Q Consensus 200 vGGG~G~----~~~~l~~~~P~l~~vv~Dl------p~vv~~a~~~~ri~~~~gD~~~ 247 (269)
|-||.|. +...+++++|+.+++++|. ++.+......+|++|+.+|.-+
T Consensus 5 VTGGaGFIGsnfvr~~~~~~~d~~v~~~DkLTYAgn~~~l~~~~~~~~~~fv~~DI~D 62 (340)
T COG1088 5 VTGGAGFIGSNFVRYILNKHPDDHVVNLDKLTYAGNLENLADVEDSPRYRFVQGDICD 62 (340)
T ss_pred EecCcchHHHHHHHHHHhcCCCceEEEEecccccCCHHHHHhhhcCCCceEEeccccC
Confidence 4577786 4556677899988999995 5555555566899999999875
No 435
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=62.99 E-value=19 Score=28.44 Aligned_cols=56 Identities=13% Similarity=0.262 Sum_probs=39.2
Q ss_pred CCCCHHHHHHhCCCCCC---Cch---h--HHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhc
Q 024350 49 AKLSVSEIVAQIPLKDN---NPE---A--AAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVR 109 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~---~~~---~--~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~ 109 (269)
+|+.+..|+...|...+ .|. + -. .++..|+.|..+|+|+. ...|+. +|+.++.+++
T Consensus 66 gpvGV~~L~~~yGg~k~~G~~P~h~~~~sg~-iiR~~LqqLE~~glVek---~~~GR~-lT~~G~~~LD 129 (150)
T PRK09333 66 GPVGVERLRTAYGGRKNRGVRPEHFVKGSGS-IIRKILQQLEKAGLVEK---TKKGRV-ITPKGRSLLD 129 (150)
T ss_pred CCccHHHHHHHHCCCcCCCCCCCccccCccH-HHHHHHHHHHHCCCeee---CCCCCE-eCHHHHHHHH
Confidence 59999999999998421 110 0 12 58999999999999994 334544 7777765553
No 436
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=62.81 E-value=43 Score=22.29 Aligned_cols=36 Identities=19% Similarity=0.388 Sum_probs=27.2
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCC-CCCCchhHHHHHHHHHHHHHh
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPL-KDNNPEAAAMMLDRVLRLLVS 83 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~-~~~~~~~~~~~l~rlL~~L~~ 83 (269)
.+.+.|.. .+.++.+||..+|. + +. .+.|..+....
T Consensus 41 ~a~~~l~~----~~~~~~~ia~~~g~~s------~~-~f~r~Fk~~~g 77 (84)
T smart00342 41 RARRLLRD----TDLSVTEIALRVGFSS------QS-YFSRAFKKLFG 77 (84)
T ss_pred HHHHHHHc----CCCCHHHHHHHhCCCC------hH-HHHHHHHHHHC
Confidence 35667765 47999999999999 5 56 77777766544
No 437
>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=62.54 E-value=20 Score=27.58 Aligned_cols=46 Identities=15% Similarity=0.277 Sum_probs=35.1
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhC----CCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQI----PLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~----~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.++-|...|=.. ++.|+.+|.+.+ ++. .. .+.++|+-|...|+|..
T Consensus 5 ~E~~VM~vlW~~---~~~t~~eI~~~l~~~~~~~------~t-Tv~T~L~rL~~KG~v~~ 54 (130)
T TIGR02698 5 AEWEVMRVVWTL---GETTSRDIIRILAEKKDWS------DS-TIKTLLGRLVDKGCLTT 54 (130)
T ss_pred HHHHHHHHHHcC---CCCCHHHHHHHHhhccCCc------HH-HHHHHHHHHHHCCceee
Confidence 355566677554 589999977765 554 45 88999999999999985
No 438
>KOG1562 consensus Spermidine synthase [Amino acid transport and metabolism]
Probab=62.51 E-value=4.4 Score=35.82 Aligned_cols=66 Identities=24% Similarity=0.340 Sum_probs=48.1
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCe-EEEeehh-HHHHhCCC----------CCCceEEecccCC---cCCCC--c
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIK-GINYDLL-YVIKNAPS----------YPGIDHVGGDLFE---SVPKA--D 253 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~-~vv~Dlp-~vv~~a~~----------~~ri~~~~gD~~~---~~P~g--D 253 (269)
.+++++++-||||.|.++++.+++ +.+. ..++|.. .|++..++ .+||..+.||=|. ..+++ |
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 357899999999999999999987 7775 4666764 44444333 2899999998765 34443 7
Q ss_pred EEEe
Q 024350 254 TIFM 257 (269)
Q Consensus 254 ~~~l 257 (269)
+++.
T Consensus 198 Vii~ 201 (337)
T KOG1562|consen 198 VIIT 201 (337)
T ss_pred EEEE
Confidence 7754
No 439
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=62.49 E-value=14 Score=24.39 Aligned_cols=15 Identities=13% Similarity=0.443 Sum_probs=14.3
Q ss_pred CCCCHHHHHHhCCCC
Q 024350 49 AKLSVSEIVAQIPLK 63 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~ 63 (269)
|.++..+||+.+|++
T Consensus 21 g~i~lkdIA~~Lgvs 35 (60)
T PF10668_consen 21 GKIKLKDIAEKLGVS 35 (60)
T ss_pred CCccHHHHHHHHCCC
Confidence 789999999999997
No 440
>COG4901 Ribosomal protein S25 [Translation, ribosomal structure and biogenesis]
Probab=62.27 E-value=11 Score=27.63 Aligned_cols=46 Identities=13% Similarity=0.177 Sum_probs=36.2
Q ss_pred ChhHHHHhc-CCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 37 DVFEIITKA-GPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 37 glfd~L~~~-g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.+++.+.+. +...-+|+..||...|+. -+ ..+.+||.|...|++..
T Consensus 45 e~~~ki~KEV~~~r~VTpy~la~r~gI~------~S-vAr~vLR~LeeeGvv~l 91 (107)
T COG4901 45 ELLDKIRKEVPRERVVTPYVLASRYGIN------GS-VARIVLRHLEEEGVVQL 91 (107)
T ss_pred HHHHHHHHhcccceeecHHHHHHHhccc------hH-HHHHHHHHHHhCCceee
Confidence 456665442 212468999999999997 77 99999999999999983
No 441
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=61.91 E-value=15 Score=22.31 Aligned_cols=23 Identities=22% Similarity=0.384 Sum_probs=15.0
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHH
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLR 79 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~ 79 (269)
..|..+||+.+|.+ +. .+.+.|+
T Consensus 20 G~s~~~IA~~lg~s------~s-TV~relk 42 (44)
T PF13936_consen 20 GMSIREIAKRLGRS------RS-TVSRELK 42 (44)
T ss_dssp ---HHHHHHHTT--------HH-HHHHHHH
T ss_pred CCCHHHHHHHHCcC------cH-HHHHHHh
Confidence 69999999999997 56 7777664
No 442
>cd00006 PTS_IIA_man PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. IIA subunits receive phosphoryl groups from HPr and transfer them to IIB subunits, which in turn phosphorylate the substrate.
Probab=61.82 E-value=20 Score=26.91 Aligned_cols=49 Identities=20% Similarity=0.200 Sum_probs=33.7
Q ss_pred HHhccCCCCccEEEEeCCC-chHHHHHHHHHCCCCe-EEEeehhHHHHhCC
Q 024350 185 LESYKGFEHVKKLVDVGGG-LGATLNMIISKYPHIK-GINYDLLYVIKNAP 233 (269)
Q Consensus 185 ~~~~~~~~~~~~vvDvGGG-~G~~~~~l~~~~P~l~-~vv~Dlp~vv~~a~ 233 (269)
++.++.-++.-.++|+-|| .-..+..+...+++++ ..++++|-+++.+.
T Consensus 51 i~~~~~~~~viil~Dl~GGSp~n~~~~~~~~~~~~~visG~nlpmlle~~~ 101 (122)
T cd00006 51 LAELDSGEGVLILTDLFGGSPNNAAARLSMEHPPVEVIAGVNLPMLLEAAR 101 (122)
T ss_pred HHHhCCCCcEEEEEeCCCCCHHHHHHHHHhcCCCEEEEEccCHHHHHHHHH
Confidence 3444423456789999444 4456667777778876 58899999988654
No 443
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=61.71 E-value=19 Score=27.53 Aligned_cols=63 Identities=22% Similarity=0.363 Sum_probs=45.5
Q ss_pred HHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350 33 VVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV 103 (269)
Q Consensus 33 a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~ 103 (269)
+.|.-|.++|=.. ||.|+.||-+.+..+ ...... -+..+|+-|+..|+|... .++..|.-+|+
T Consensus 6 ~aE~eVM~ilW~~---~~~t~~eI~~~l~~~--~ews~s-TV~TLl~RL~KKg~l~~~--kdgr~~~y~pL 68 (123)
T COG3682 6 AAEWEVMEILWSR---GPATVREIIEELPAD--REWSYS-TVKTLLNRLVKKGLLTRK--KDGRAFRYSPL 68 (123)
T ss_pred HHHHHHHHHHHHc---CCccHHHHHHHHhhc--ccccHH-HHHHHHHHHHhccchhhh--hcCCeeeeecc
Confidence 3456677777665 599999999888764 111145 889999999999999964 23566776664
No 444
>TIGR02018 his_ut_repres histidine utilization repressor, proteobacterial. This model represents a proteobacterial histidine utilization repressor. It is usually found clustered with the enzymes HutUHIG so that it can regulate its own expression as well. A number of species have several paralogs and may fine-tune the regulation according to levels of degradation intermediates such as urocanate. This family belongs to the larger GntR family of transcriptional regulators.
Probab=61.49 E-value=13 Score=31.28 Aligned_cols=43 Identities=26% Similarity=0.309 Sum_probs=36.1
Q ss_pred CC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 50 KL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 50 ~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
.+ |-.+||+..|++ .. .+++-|..|+..|++.+. .+.|.|-..
T Consensus 24 ~LPsE~eLa~~~~VS------R~-TVR~Al~~L~~eGli~r~--~G~GtfV~~ 67 (230)
T TIGR02018 24 RIPSEHELVAQYGCS------RM-TVNRALRELTDAGLLERR--QGVGTFVAE 67 (230)
T ss_pred cCcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEe--cCCEEEEcc
Confidence 45 889999999998 55 899999999999999963 467888653
No 445
>COG1777 Predicted transcriptional regulators [Transcription]
Probab=61.15 E-value=14 Score=30.87 Aligned_cols=50 Identities=16% Similarity=0.248 Sum_probs=42.2
Q ss_pred HHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 29 AMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 29 ~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
+|-.-.+-.|...|+. .|.=+.+|++.+|++ +. ++-..|+.|...|+|+.
T Consensus 11 vLGNetRR~Il~lLt~----~p~yvsEiS~~lgvs------qk-AVl~HL~~LE~AGlveS 60 (217)
T COG1777 11 VLGNETRRRILQLLTR----RPCYVSEISRELGVS------QK-AVLKHLRILERAGLVES 60 (217)
T ss_pred HHcCcHHHHHHHHHhc----CchHHHHHHhhcCcC------HH-HHHHHHHHHHHcCCchh
Confidence 3344456678889998 689999999999998 56 99999999999999996
No 446
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=60.98 E-value=7.6 Score=24.11 Aligned_cols=35 Identities=14% Similarity=0.278 Sum_probs=20.1
Q ss_pred CHHHHHHhCCCCC-------CCch--hHHHHHHHHHHHHHhcCcc
Q 024350 52 SVSEIVAQIPLKD-------NNPE--AAAMMLDRVLRLLVSYNAL 87 (269)
Q Consensus 52 s~~eLA~~~~~~~-------~~~~--~~~~~l~rlL~~L~~~g~l 87 (269)
|..|||+.+|+++ |++. .++ .-.|+++++..+|+.
T Consensus 1 Ti~dIA~~agvS~~TVSr~ln~~~~vs~~-tr~rI~~~a~~lgY~ 44 (46)
T PF00356_consen 1 TIKDIAREAGVSKSTVSRVLNGPPRVSEE-TRERILEAAEELGYR 44 (46)
T ss_dssp CHHHHHHHHTSSHHHHHHHHTTCSSSTHH-HHHHHHHHHHHHTB-
T ss_pred CHHHHHHHHCcCHHHHHHHHhCCCCCCHH-HHHHHHHHHHHHCCC
Confidence 5678888888862 1110 123 556677776666653
No 447
>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=60.81 E-value=10 Score=33.21 Aligned_cols=46 Identities=11% Similarity=0.152 Sum_probs=36.8
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHH-HHHhcCcccceeecCCCeEecChhch
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLR-LLVSYNALHCSFVDGQRLYSLAPVSK 105 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~-~L~~~g~l~~~~~~~~~~y~~t~~s~ 105 (269)
++.+++++|+.+|.+ +. .+.++++ .|+..|++. .++.|++ .|..|.
T Consensus 254 ~~~~~~~ia~~lg~~------~~-~~~~~~e~~Li~~~li~---~~~~g~~-~~~~~~ 300 (305)
T TIGR00635 254 GPVGLKTLAAALGED------AD-TIEDVYEPYLLQIGFLQ---RTPRGRI-ATELAY 300 (305)
T ss_pred CcccHHHHHHHhCCC------cc-hHHHhhhHHHHHcCCcc---cCCchhh-hhHHHH
Confidence 689999999999997 56 8899999 799999998 4445555 455444
No 448
>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=60.65 E-value=15 Score=25.86 Aligned_cols=31 Identities=13% Similarity=0.199 Sum_probs=24.1
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHH
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVL 78 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL 78 (269)
-|.+.|.. | ..|..+||+.+|++ .. .++|.|
T Consensus 10 ~I~e~l~~-~---~~ti~dvA~~~gvS------~~-TVsr~L 40 (80)
T TIGR02844 10 EIGKYIVE-T---KATVRETAKVFGVS------KS-TVHKDV 40 (80)
T ss_pred HHHHHHHH-C---CCCHHHHHHHhCCC------HH-HHHHHh
Confidence 46677777 4 89999999999998 55 666644
No 449
>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=60.48 E-value=10 Score=34.73 Aligned_cols=46 Identities=20% Similarity=0.350 Sum_probs=35.3
Q ss_pred HHHHHHhccCCCCccEEEEeCCCchH----HHHHHHHHC---CCCeEEEeehhH
Q 024350 181 MEKVLESYKGFEHVKKLVDVGGGLGA----TLNMIISKY---PHIKGINYDLLY 227 (269)
Q Consensus 181 ~~~~~~~~~~~~~~~~vvDvGGG~G~----~~~~l~~~~---P~l~~vv~Dlp~ 227 (269)
.+.|++.+. -.+..+|||+|-|.|. +..+|+++. |.+|.|+++.|.
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 356788877 3567899999999996 555666654 788999999854
No 450
>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=60.35 E-value=13 Score=25.36 Aligned_cols=62 Identities=10% Similarity=0.209 Sum_probs=40.1
Q ss_pred hHHHHhcCCCCCCCHHHHHHhCCCCC-C--CchhHHHHHHHHHHHHHhcCcccceeec-----CCCeEecChhchh
Q 024350 39 FEIITKAGPGAKLSVSEIVAQIPLKD-N--NPEAAAMMLDRVLRLLVSYNALHCSFVD-----GQRLYSLAPVSKY 106 (269)
Q Consensus 39 fd~L~~~g~~~~~s~~eLA~~~~~~~-~--~~~~~~~~l~rlL~~L~~~g~l~~~~~~-----~~~~y~~t~~s~~ 106 (269)
+-.|.. +|++--+|.+.+.-.- + +. ... .+...|+-|...|+++..... ....|++|+.|+.
T Consensus 2 L~~L~~----~~~~Gyei~~~l~~~~~~~~~i-~~g-~lY~~L~~Le~~gli~~~~~~~~~~~~rk~Y~iT~~G~~ 71 (75)
T PF03551_consen 2 LGLLSE----GPMHGYEIKQELEERTGGFWKI-SPG-SLYPALKRLEEEGLIESRWEEEGNGRPRKYYRITEKGRE 71 (75)
T ss_dssp HHHHHH----S-EEHHHHHHHHHHCSTTTEET-THH-HHHHHHHHHHHTTSEEEEEEEETTSSEEEEEEESHHHHH
T ss_pred hhhhcc----CCCcHHHHHHHHHHHhCCCccc-Chh-HHHHHHHHHHhCCCEEEeeeccCCCCCCEEEEECHHHHH
Confidence 344555 4777777777654320 0 11 146 899999999999999864322 1234999999874
No 451
>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=60.21 E-value=26 Score=22.66 Aligned_cols=47 Identities=9% Similarity=0.232 Sum_probs=32.5
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
+.|.|-..+ -.|+..+++.+|++ .. ...++++- +|+-+ -.+.++|+.
T Consensus 4 Lidll~~~P---~Vsa~mva~~L~vT------~~-~A~~li~e---Lg~rE---iTGr~R~Ra 50 (54)
T PF11972_consen 4 LIDLLLSRP---LVSAPMVAKELGVT------PQ-AAQRLIAE---LGLRE---ITGRGRYRA 50 (54)
T ss_pred HHHHHHhCc---cccHHHHHHHhCCC------HH-HHHHHHHH---hhcee---ecCCcccch
Confidence 567776653 58999999999998 55 77777654 45522 346677764
No 452
>COG2188 PhnF Transcriptional regulators [Transcription]
Probab=60.17 E-value=16 Score=31.05 Aligned_cols=43 Identities=19% Similarity=0.239 Sum_probs=37.1
Q ss_pred CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecCh
Q 024350 51 LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAP 102 (269)
Q Consensus 51 ~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~ 102 (269)
-|-.+||+..|++ .. -+++-|+.|+..|++.. +.|.|.|-..+
T Consensus 32 PsE~eLa~~f~VS------R~-TvRkAL~~L~~eGli~r--~~G~GtfV~~~ 74 (236)
T COG2188 32 PSERELAEQFGVS------RM-TVRKALDELVEEGLIVR--RQGKGTFVASP 74 (236)
T ss_pred CCHHHHHHHHCCc------HH-HHHHHHHHHHHCCcEEE--EecCeeEEcCc
Confidence 4778999999998 45 89999999999999997 34789998876
No 453
>COG1339 Transcriptional regulator of a riboflavin/FAD biosynthetic operon [Transcription / Coenzyme metabolism]
Probab=59.91 E-value=13 Score=30.84 Aligned_cols=55 Identities=13% Similarity=0.179 Sum_probs=42.4
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCC
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN 111 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~ 111 (269)
.+|.++||..++.+ .. ...|+|..|...|++++..-.+......|+.+..+++..
T Consensus 19 ~~t~~ela~~l~~S------~q-ta~R~l~~le~~~~I~R~~~~~Gq~i~iTekG~~~L~~~ 73 (214)
T COG1339 19 KVTSSELAKRLGVS------SQ-TAARKLKELEDEGYITRTISKRGQLITITEKGIDLLYKE 73 (214)
T ss_pred cccHHHHHHHhCcC------cH-HHHHHHHhhccCCcEEEEecCCCcEEEehHhHHHHHHHH
Confidence 58999999999998 44 889999999999999954212345567788777666553
No 454
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=59.73 E-value=13 Score=31.18 Aligned_cols=35 Identities=17% Similarity=0.246 Sum_probs=31.9
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccce
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
.+++-.+||+.+|++ .. .++.-|.-|.+.|+|+..
T Consensus 38 ~~l~e~~La~~~gvS------rt-PVReAL~rL~~eGlv~~~ 72 (230)
T COG1802 38 ERLSEEELAEELGVS------RT-PVREALRRLEAEGLVEIE 72 (230)
T ss_pred CCccHHHHHHHhCCC------Cc-cHHHHHHHHHHCCCeEec
Confidence 789999999999998 45 899999999999999963
No 455
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=59.48 E-value=25 Score=29.74 Aligned_cols=66 Identities=14% Similarity=0.104 Sum_probs=48.9
Q ss_pred HHHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350 28 AAMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV 103 (269)
Q Consensus 28 ~~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~ 103 (269)
..|.-...-.+++.|.+. ++.|..+||..+|++ .. .+.--+..|...|++.++.+...-.|+.||.
T Consensus 169 ~~Lkn~~~k~I~~eiq~~---~~~t~~~ia~~l~ls------~a-TV~~~lk~l~~~Gii~~~~~Gr~iiy~in~s 234 (240)
T COG3398 169 LSLKNETSKAIIYEIQEN---KCNTNLLIAYELNLS------VA-TVAYHLKKLEELGIIPEDREGRSIIYSINPS 234 (240)
T ss_pred HHhhchhHHHHHHHHhcC---CcchHHHHHHHcCcc------HH-HHHHHHHHHHHcCCCcccccCceEEEEeCHH
Confidence 345555556788888885 579999999999998 66 8888999999999999431111233777764
No 456
>PRK13750 replication protein; Provisional
Probab=59.34 E-value=31 Score=29.62 Aligned_cols=54 Identities=11% Similarity=0.122 Sum_probs=39.3
Q ss_pred HHHHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCC----CCchhHHHHHHHHHHHHHhcCcccce
Q 024350 29 AMQAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKD----NNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 29 ~L~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~----~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
+...+..+++..-+.. .|+++||..+|++- +|.. -. ...|++..|..+|++.+.
T Consensus 76 lqaMlyh~Ni~S~~V~------aSIeqLadeCGLST~S~aGnkS-IT-RASR~I~fLEpmGfI~ce 133 (285)
T PRK13750 76 LQGLCFHYDPLANRVQ------CSITTLAIECGLATESAAGKLS-IT-RATRALTFLAELGLITYQ 133 (285)
T ss_pred HHHHHHHcCcchhHHH------HHHHHHHHHhCCcccCcCCCcc-hH-HHHHHHHHHHhcCceeee
Confidence 3334445666666554 89999999999972 2443 45 778999999999999874
No 457
>PRK09764 DNA-binding transcriptional repressor MngR; Provisional
Probab=59.24 E-value=15 Score=31.08 Aligned_cols=43 Identities=21% Similarity=0.294 Sum_probs=35.9
Q ss_pred CCC-CHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEec
Q 024350 49 AKL-SVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSL 100 (269)
Q Consensus 49 ~~~-s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~ 100 (269)
..+ |-.+||+..|++ .. .+++-|..|+..|+|.+. .+.|.|-.
T Consensus 27 ~~LPsE~eL~~~~~VS------R~-TvR~Al~~L~~eGli~r~--~G~GtfV~ 70 (240)
T PRK09764 27 DALPTESALQTEFGVS------RV-TVRQALRQLVEQQILESI--QGSGTYVK 70 (240)
T ss_pred CcCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEe--cCceeEEc
Confidence 355 789999999998 55 899999999999999963 46788864
No 458
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=59.04 E-value=26 Score=24.54 Aligned_cols=46 Identities=11% Similarity=0.035 Sum_probs=36.4
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV 103 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~ 103 (269)
.+.|=++||+.+|++ .. .+...++.|...|+=... ....-|++...
T Consensus 18 ~~~SGe~La~~LgiS------Rt-aVwK~Iq~Lr~~G~~I~s--~~~kGY~L~~~ 63 (79)
T COG1654 18 NFVSGEKLAEELGIS------RT-AVWKHIQQLREEGVDIES--VRGKGYLLPQL 63 (79)
T ss_pred CcccHHHHHHHHCcc------HH-HHHHHHHHHHHhCCceEe--cCCCceeccCc
Confidence 589999999999998 56 999999999999987632 22335877554
No 459
>PRK11402 DNA-binding transcriptional regulator FrlR; Provisional
Probab=58.65 E-value=16 Score=30.98 Aligned_cols=43 Identities=14% Similarity=0.163 Sum_probs=35.9
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
=-|-.+||+..|++ .. -+++-|..|+..|+|.+. .+.|.|-..
T Consensus 33 LPsE~eLa~~~~VS------R~-TvR~Al~~L~~eGli~r~--~G~GTfV~~ 75 (241)
T PRK11402 33 IPTENELCTQYNVS------RI-TIRKAISDLVADGVLIRW--QGKGTFVQS 75 (241)
T ss_pred CcCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEe--cCceeEECC
Confidence 35789999999998 55 899999999999999963 467888643
No 460
>PHA02591 hypothetical protein; Provisional
Probab=58.16 E-value=21 Score=24.84 Aligned_cols=31 Identities=16% Similarity=0.282 Sum_probs=23.8
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHH
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLR 79 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~ 79 (269)
+-..|.+ .+.|.++||+.+|++ .+ .+++.|+
T Consensus 51 vA~eL~e----qGlSqeqIA~~LGVs------qe-tVrKYL~ 81 (83)
T PHA02591 51 VTHELAR----KGFTVEKIASLLGVS------VR-KVRRYLE 81 (83)
T ss_pred HHHHHHH----cCCCHHHHHHHhCCC------HH-HHHHHHh
Confidence 4456666 469999999999997 56 7777665
No 461
>COG3695 Predicted methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]
Probab=57.92 E-value=17 Score=26.72 Aligned_cols=49 Identities=18% Similarity=0.257 Sum_probs=34.9
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcc
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNAL 87 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l 87 (269)
..-.|++.+...+.++-.|+.+||+..|++ +. ++ -+.++|..|..--.+
T Consensus 7 f~~~v~~vv~~IP~GkV~TYGdIA~laG~p--~~--AR-qVG~il~~l~~~s~l 55 (103)
T COG3695 7 FTQRVLDVVAAIPEGKVSTYGDIAKLAGLP--RA--AR-QVGRILKHLPEGSDL 55 (103)
T ss_pred HHHHHHHHHHhCCCCceeeHHHHHHHhCCC--hh--HH-HHHHHHhhCCCCCCC
Confidence 344577788777666789999999999995 21 45 777777766554444
No 462
>KOG2165 consensus Anaphase-promoting complex (APC), subunit 2 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=57.91 E-value=16 Score=35.85 Aligned_cols=53 Identities=11% Similarity=0.159 Sum_probs=40.4
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceee-cCCCeEecChhchhhh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV-DGQRLYSLAPVSKYFV 108 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~-~~~~~y~~t~~s~~l~ 108 (269)
...|.++||+.+|++ .. +++|.|......|++.+.+. .+++.|+.++......
T Consensus 615 ~twt~eelse~l~ip------~~-~lrrrL~fWi~~GvL~e~~~~s~tgt~T~iEse~d~~ 668 (765)
T KOG2165|consen 615 NTWTLEELSESLGIP------VP-ALRRRLSFWIQKGVLREEPIISDTGTLTVIESEMDFD 668 (765)
T ss_pred ccccHHHHHHHhCCC------HH-HHHHHHHHHHHcCeeecCCCCCCCceeeecccccccc
Confidence 479999999999997 67 99999999999999994210 0147788777433333
No 463
>PF13814 Replic_Relax: Replication-relaxation
Probab=57.44 E-value=29 Score=28.01 Aligned_cols=62 Identities=13% Similarity=0.152 Sum_probs=45.6
Q ss_pred HHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceee-------cCCCeEecChhchhhhc
Q 024350 41 IITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFV-------DGQRLYSLAPVSKYFVR 109 (269)
Q Consensus 41 ~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~-------~~~~~y~~t~~s~~l~~ 109 (269)
.|... +.+|.++|+.....+ ... +. .+.+.|+-|...|+|..... ..+-.|.+|+.|..++.
T Consensus 3 ~L~~~---r~lt~~Qi~~l~~~~--~~~-~~-~~~rrL~~L~~~glv~~~~~~~~~~~g~~~~vy~Lt~~G~~~l~ 71 (191)
T PF13814_consen 3 LLARH---RFLTTDQIARLLFPS--SKS-ER-TARRRLKRLRELGLVDRFRRRVGARGGSQPYVYYLTPAGARLLA 71 (191)
T ss_pred hHHHh---cCcCHHHHHHHHcCC--Ccc-hH-HHHHHHHHHhhCCcEEeecccccccCCCcceEEEECHHHHHHHH
Confidence 45554 589999999999986 211 24 68999999999999985422 12357999999986554
No 464
>cd06445 ATase The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases are specific for repair of guanines with O6-alkyl adducts, however human ATase is not limited to O6-methylguanine, repairing many other adducts at the O6-position of guanine as well. ATase is widely distributed among species. Most ATases have N- and C-terminal domains. The C-terminal domain contains the conserved active-site cysteine motif (PCHR), the O6-alkylguanine binding channel, and the helix-turn-helix (HTH) DNA-binding motif. The active site is located near the recognition helix of the HTH motif. While the C-terminal domain of ATase contains residues that are necessary for DNA binding and alkyl transfer, the function of the N-terminal domain is still unknown. Removal of the N-terminal domain abolishes the activity of
Probab=57.13 E-value=21 Score=24.79 Aligned_cols=42 Identities=14% Similarity=0.059 Sum_probs=29.7
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA 86 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~ 86 (269)
.|++.|...+.+.-.|+.+||+.+|.+ . ..+.+-.+|..+.+
T Consensus 4 ~V~~~v~~IP~G~v~TYg~iA~~~g~p-------~-~~R~Vg~al~~np~ 45 (79)
T cd06445 4 RVWEALRQIPYGEVTTYGQIAKLAGTP-------K-AARAVGSALARNPI 45 (79)
T ss_pred HHHHHHhcCCCCCcCcHHHHHHHHCCC-------C-cHHHHHHHHHhCCC
Confidence 466777776656889999999999994 2 44455555656554
No 465
>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=56.56 E-value=21 Score=24.35 Aligned_cols=48 Identities=17% Similarity=0.172 Sum_probs=30.7
Q ss_pred CCCCHHHH---HHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChh
Q 024350 49 AKLSVSEI---VAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPV 103 (269)
Q Consensus 49 ~~~s~~eL---A~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~ 103 (269)
++++..+| .+..|++ +. .++.-|--|+..|+|+.......-.|++|+.
T Consensus 19 ~~i~~~~Li~ll~~~Gv~------e~-avR~alsRl~~~G~L~~~r~Gr~~~Y~Lt~~ 69 (70)
T PF07848_consen 19 GWIWVASLIRLLAAFGVS------ES-AVRTALSRLVRRGWLESERRGRRSYYRLTER 69 (70)
T ss_dssp S-EEHHHHHHHHCCTT--------HH-HHHHHHHHHHHTTSEEEECCCTEEEEEE-HH
T ss_pred CceeHHHHHHHHHHcCCC------hH-HHHHHHHHHHHcCceeeeecCccceEeeCCC
Confidence 56666655 4566776 66 8899999999999999532111236999875
No 466
>COG1189 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=56.50 E-value=27 Score=29.92 Aligned_cols=59 Identities=15% Similarity=0.151 Sum_probs=36.9
Q ss_pred HHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeeh--hHHHHhCCCCCCceEEe
Q 024350 183 KVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDL--LYVIKNAPSYPGIDHVG 242 (269)
Q Consensus 183 ~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dl--p~vv~~a~~~~ri~~~~ 242 (269)
..++.|+...+...++|||.++|.+..-++++-- -++..+|. .+.....+..+||..++
T Consensus 69 ~ale~F~l~~k~kv~LDiGsSTGGFTd~lLq~gA-k~VyavDVG~~Ql~~kLR~d~rV~~~E 129 (245)
T COG1189 69 KALEEFELDVKGKVVLDIGSSTGGFTDVLLQRGA-KHVYAVDVGYGQLHWKLRNDPRVIVLE 129 (245)
T ss_pred HHHHhcCcCCCCCEEEEecCCCccHHHHHHHcCC-cEEEEEEccCCccCHhHhcCCcEEEEe
Confidence 3455555222568999999999999988887722 23556663 23333344456665555
No 467
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=56.44 E-value=23 Score=29.18 Aligned_cols=40 Identities=23% Similarity=0.279 Sum_probs=33.5
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
+.+...++-+ +|+|..+|++..|++ . ..+++-|...|++.
T Consensus 93 LEtLaiIay~---qPiTr~eI~~irGv~---------~-~~ii~~L~~~gLI~ 132 (188)
T PRK00135 93 LEVLAIIAYK---QPITRIEIDEIRGVN---------S-DGALQTLLAKGLIK 132 (188)
T ss_pred HHHHHHHHHc---CCcCHHHHHHHHCCC---------H-HHHHHHHHHCCCeE
Confidence 3456777776 699999999999996 2 67899999999998
No 468
>KOG1663 consensus O-methyltransferase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=55.97 E-value=29 Score=29.60 Aligned_cols=56 Identities=18% Similarity=0.196 Sum_probs=43.3
Q ss_pred CccEEEEeCCCchHHHHHHHHHCCC-CeEEEeehhH--------HHHhCCCCCCceEEecccCCc
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYPH-IKGINYDLLY--------VIKNAPSYPGIDHVGGDLFES 248 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P~-l~~vv~Dlp~--------vv~~a~~~~ri~~~~gD~~~~ 248 (269)
++++.+|||.=+|.-+.+++.+-|. =+.+.+|.+. .++.+...+.|+++.|+-.+.
T Consensus 73 ~ak~~lelGvfTGySaL~~Alalp~dGrv~a~eid~~~~~~~~~~~k~agv~~KI~~i~g~a~es 137 (237)
T KOG1663|consen 73 NAKRTLELGVFTGYSALAVALALPEDGRVVAIEIDADAYEIGLELVKLAGVDHKITFIEGPALES 137 (237)
T ss_pred CCceEEEEecccCHHHHHHHHhcCCCceEEEEecChHHHHHhHHHHHhccccceeeeeecchhhh
Confidence 5789999999999999999999997 3457778743 333334458899999987763
No 469
>COG2524 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]
Probab=55.91 E-value=26 Score=30.44 Aligned_cols=52 Identities=8% Similarity=-0.005 Sum_probs=42.4
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhh
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFV 108 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~ 108 (269)
+++--+|||+.++.+ |. .++-.|..|.++|+++..+-+ .|-|..|..+-..+
T Consensus 24 r~IKgeeIA~~l~rn------pG-TVRNqmq~LkaLgLVegvpGP-kGGY~PT~kAYe~L 75 (294)
T COG2524 24 RPIKGEEIAEVLNRN------PG-TVRNQMQSLKALGLVEGVPGP-KGGYKPTSKAYEAL 75 (294)
T ss_pred CCcchHHHHHHHccC------cc-hHHHHHHHHHhcCccccccCC-CCCccccHHHHHHh
Confidence 689999999999996 56 899999999999999965422 47799988765443
No 470
>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=55.58 E-value=36 Score=29.05 Aligned_cols=52 Identities=13% Similarity=0.158 Sum_probs=38.4
Q ss_pred HHHHhcChhHHHHhcCCCCCCCHHHHHHhCCCCC----CCchhHHHHHHHHHHHHHhcCcccce
Q 024350 31 QAVVELDVFEIITKAGPGAKLSVSEIVAQIPLKD----NNPEAAAMMLDRVLRLLVSYNALHCS 90 (269)
Q Consensus 31 ~~a~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~----~~~~~~~~~l~rlL~~L~~~g~l~~~ 90 (269)
..+..+++..-+.. .|+++||..+|++- +|.. -. ...|++..|..+|++.+.
T Consensus 70 AMlyh~Ni~S~~V~------aSIeqLadeCGLST~S~aGnkS-IT-RASR~I~fLEpmGfI~ce 125 (275)
T TIGR03474 70 GMCFHYDPLANRVQ------RSITNLAIECGLATESKSGNLS-IT-RATRALTFLSELGLITYQ 125 (275)
T ss_pred HHHHHcCchhhHHH------HHHHHHHHHhCCcccCcCCCch-hH-HHHHHHHHHHhcCceeee
Confidence 33445666666554 89999999999972 2442 34 778999999999999874
No 471
>TIGR00589 ogt O-6-methylguanine DNA methyltransferase. All proteins in this family for which functions are known are involved alkyl-DNA transferases which remove alkyl groups from DNA as part of alkylation DNA repair. Some of the proteins in this family are also transcription regulators and have a distinct transcription regulatory domain. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=55.55 E-value=23 Score=24.79 Aligned_cols=45 Identities=13% Similarity=0.039 Sum_probs=31.9
Q ss_pred HhcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc
Q 024350 34 VELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA 86 (269)
Q Consensus 34 ~~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~ 86 (269)
+...|++.|.+.+.+...|+.+||+.+|.+ . ..+.+-.+|..+-+
T Consensus 3 f~~~V~~~l~~IP~G~v~TYg~iA~~~g~p-------~-~~RaVg~al~~np~ 47 (80)
T TIGR00589 3 FQQRVWQALRTIPYGETKSYGQLAARIGNP-------K-AVRAVGGANGRNPL 47 (80)
T ss_pred HHHHHHHHHhCCCCCCcCCHHHHHHHhCCC-------C-hHHHHHHHHHhCCC
Confidence 345678888887666889999999999984 2 44555555555433
No 472
>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=55.24 E-value=23 Score=30.71 Aligned_cols=53 Identities=19% Similarity=0.202 Sum_probs=40.4
Q ss_pred CccEEEEeCCCchHHHHHHHHHCC-CCeEEEeehhHHHHhCC---------CCCCceEEecccCC
Q 024350 193 HVKKLVDVGGGLGATLNMIISKYP-HIKGINYDLLYVIKNAP---------SYPGIDHVGGDLFE 247 (269)
Q Consensus 193 ~~~~vvDvGGG~G~~~~~l~~~~P-~l~~vv~Dlp~vv~~a~---------~~~ri~~~~gD~~~ 247 (269)
+...||.+|||-=+..-.+. +| +++..=+|+|+|++.-+ ..+++++++.|+.+
T Consensus 81 g~~qvV~LGaGlDTr~~Rl~--~~~~~~~~EvD~P~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~~ 143 (260)
T TIGR00027 81 GIRQVVILGAGLDTRAYRLP--WPDGTRVFEVDQPAVLAFKEKVLAELGAEPPAHRRAVPVDLRQ 143 (260)
T ss_pred CCcEEEEeCCccccHHHhcC--CCCCCeEEECCChHHHHHHHHHHHHcCCCCCCceEEeccCchh
Confidence 45689999999988777763 33 57788889999996322 13789999999974
No 473
>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=55.23 E-value=38 Score=21.41 Aligned_cols=39 Identities=18% Similarity=0.214 Sum_probs=32.7
Q ss_pred HHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCccc
Q 024350 40 EIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALH 88 (269)
Q Consensus 40 d~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~ 88 (269)
+++.+. +++|++++-+.+|++ -. .+--+|+++=..|+..
T Consensus 3 ~~~~~~---~~itv~~~rd~lg~s------RK-~ai~lLE~lD~~g~T~ 41 (50)
T PF09107_consen 3 ELLQKN---GEITVAEFRDLLGLS------RK-YAIPLLEYLDREGITR 41 (50)
T ss_dssp HHHHTT---SSBEHHHHHHHHTS-------HH-HHHHHHHHHHHTTSEE
T ss_pred HHHhcC---CcCcHHHHHHHHCcc------HH-HHHHHHHHHhccCCEE
Confidence 455554 699999999999997 44 8899999999999998
No 474
>COG4754 Uncharacterized conserved protein [Function unknown]
Probab=55.17 E-value=30 Score=27.20 Aligned_cols=65 Identities=6% Similarity=0.065 Sum_probs=52.7
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhchhhhcCC
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSKYFVRNN 111 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~~l~~~~ 111 (269)
=.||+..+... -+|...+.-|++..+++ -+ -|.-+...+..+|+++. +.|-..+|+.|+.++..+
T Consensus 14 l~GLL~~l~n~-fnGraDl~~L~~e~~vd------id-DL~piv~ta~~Lglv~~----e~GDiilT~~Gk~~v~~~ 78 (157)
T COG4754 14 LVGLLYVLNNI-FNGRADLPYLEKEMEVD------ID-DLMPIVETASLLGLVTA----ESGDIILTDEGKEYVESP 78 (157)
T ss_pred HHHHHHHHHHH-hCCcccchhHHHHhCCC------hh-hHHHHHHHHHhcCceec----cCCCEEEehhhHHHHhCC
Confidence 35677777763 23789999999999997 56 78889999999999993 467799999999887665
No 475
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=55.12 E-value=18 Score=30.19 Aligned_cols=41 Identities=15% Similarity=0.109 Sum_probs=33.7
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
+.|-.+||+.+|++ .+ .+.|+|.-|...|+++ .. .+.+...
T Consensus 169 ~~t~~~lA~~lG~s------re-tvsR~L~~L~~~G~I~---~~-~~~i~I~ 209 (226)
T PRK10402 169 HEKHTQAAEYLGVS------YR-HLLYVLAQFIQDGYLK---KS-KRGYLIK 209 (226)
T ss_pred cchHHHHHHHHCCc------HH-HHHHHHHHHHHCCCEE---ee-CCEEEEe
Confidence 46889999999997 66 9999999999999999 32 3455553
No 476
>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=54.99 E-value=38 Score=24.64 Aligned_cols=62 Identities=10% Similarity=0.065 Sum_probs=43.6
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHh-cC--cccceee-cCCCeEecChhchhhh
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVS-YN--ALHCSFV-DGQRLYSLAPVSKYFV 108 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~-~g--~l~~~~~-~~~~~y~~t~~s~~l~ 108 (269)
++.+|..+.+ .-|+..-|+.+|++ .. .+.+-++.|.. .| ++++... ..++.+.+|+.++.|.
T Consensus 6 ~l~~~~av~~-----~gSis~AA~~L~iS------~s-tvs~~I~~LE~~lg~~Lf~R~~~g~~~~g~~lT~~G~~l~ 71 (99)
T TIGR00637 6 RVALLKAIAR-----MGSISQAAKDAGIS------YK-SAWDYIRAMNNLSGEPLVERATGGKGGGGAVLTEYGQRLI 71 (99)
T ss_pred HHHHHHHHHH-----hCCHHHHHHHHCCC------HH-HHHHHHHHHHHHhCCCeEEecCCCCCCCCeeECHHHHHHH
Confidence 4668888888 56888999999998 56 77777777765 34 4662100 0135799999988665
No 477
>PRK10079 phosphonate metabolism transcriptional regulator PhnF; Provisional
Probab=54.79 E-value=20 Score=30.44 Aligned_cols=42 Identities=17% Similarity=0.211 Sum_probs=35.4
Q ss_pred CCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecC
Q 024350 51 LSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLA 101 (269)
Q Consensus 51 ~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t 101 (269)
-|-.+||+..|++ .. .+++-|+.|+..|++... .+.|.|-..
T Consensus 36 PsE~eLa~~~~VS------R~-TVR~Al~~L~~eGli~r~--~G~GtfV~~ 77 (241)
T PRK10079 36 PAEQQLAARYEVN------RH-TLRRAIDQLVEKGWVQRR--QGVGVLVLM 77 (241)
T ss_pred CCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEEEe--cCCEEEEec
Confidence 4778999999998 55 899999999999999963 467888654
No 478
>COG2390 DeoR Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]
Probab=54.76 E-value=17 Score=32.60 Aligned_cols=34 Identities=21% Similarity=0.246 Sum_probs=31.4
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.++|=.|||+++|++ .. .+.|+|..+...|+|+-
T Consensus 25 ~gltQ~eIA~~LgiS------R~-~v~rlL~~Ar~~GiV~I 58 (321)
T COG2390 25 EGLTQSEIAERLGIS------RA-TVSRLLAKAREEGIVKI 58 (321)
T ss_pred cCCCHHHHHHHhCCC------HH-HHHHHHHHHHHCCeEEE
Confidence 479999999999998 67 99999999999999984
No 479
>PF14314 Methyltrans_Mon: Virus-capping methyltransferase
Probab=53.73 E-value=28 Score=34.38 Aligned_cols=46 Identities=13% Similarity=0.316 Sum_probs=36.8
Q ss_pred HHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCCCCeE
Q 024350 173 MLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYPHIKG 220 (269)
Q Consensus 173 m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~ 220 (269)
++..+.+.++.++..++ . ..+-.+-+|=|+|.+...+++.||+.++
T Consensus 304 ~ATGAHYKlRsIL~~~~-i-~~~d~l~~GDGSGGita~lLR~~p~sr~ 349 (675)
T PF14314_consen 304 LATGAHYKLRSILKNLN-I-KYRDALCGGDGSGGITACLLRMNPTSRG 349 (675)
T ss_pred ccccchhhHHHHHHhcC-C-CcceeEEEecCchHHHHHHHHhCcccce
Confidence 44556667788888876 3 3466788999999999999999999987
No 480
>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=53.48 E-value=36 Score=30.29 Aligned_cols=63 Identities=17% Similarity=0.245 Sum_probs=40.6
Q ss_pred HHHHHHHHhhchhhHHHHHHhccCCCCccEEEEeCCCchHHHHHHHHHCC--CCeEEEeehhHHH
Q 024350 167 DVFSNGMLSHTSIVMEKVLESYKGFEHVKKLVDVGGGLGATLNMIISKYP--HIKGINYDLLYVI 229 (269)
Q Consensus 167 ~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDvGGG~G~~~~~l~~~~P--~l~~vv~Dlp~vv 229 (269)
....+.+..........+.+.+..+++..+|+=+|||.-.+...+.+.+| +-++++.|-|+..
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 34444444444443444555543366778899999999999999999987 5678888888643
No 481
>PF01371 Trp_repressor: Trp repressor protein; InterPro: IPR000831 The Trp repressor (TrpR) binds to at least five operators in the Escherichia coli genome, repressing gene expression. The operators at which it binds vary considerably in DNA sequence and location within the promoter; when bound to the Trp operon it recognises the sequence 5'-ACTAGT-3' and acts to prevent the initiation of transcription. The TrpR controls the trpEDCBA (trpO) operon and the genes for trpR, aroH, mtr and aroL, which are involved in the biosynthesis and uptake of the amino acid tryptophan []. The repressor binds to the operators only in the presence of L-tryptophan, thereby controlling the intracellular level of its effector; the complex also regulates Trp repressor biosynthesis by binding to its own regulatory region. TrpR acts as a dimer that is composed of identical 6-helical subunits, where four of the helices form the core of the protein and intertwine with the corresponding helices from the other subunit.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3FRW_H 3KOR_A 3SSW_N 1P6Z_N 1CO0_B 1JHG_A 1WRT_S 1WRS_R 1WRP_R 1RCS_B ....
Probab=53.34 E-value=23 Score=25.28 Aligned_cols=40 Identities=23% Similarity=0.229 Sum_probs=30.5
Q ss_pred HHHhcChhH-HHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHh
Q 024350 32 AVVELDVFE-IITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVS 83 (269)
Q Consensus 32 ~a~~lglfd-~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~ 83 (269)
.+-++.|+. .|.. ..|..+||+.+|++ .. .+.|+=|.|..
T Consensus 35 l~~R~~va~~lL~~-----g~syreIa~~tgvS------~a-TItRvsr~Lk~ 75 (87)
T PF01371_consen 35 LAQRWQVAKELLDE-----GKSYREIAEETGVS------IA-TITRVSRCLKY 75 (87)
T ss_dssp HHHHHHHHHHHHHT-----TSSHHHHHHHHTST------HH-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHC-----CCCHHHHHHHhCCC------HH-HHHHHHHHHHc
Confidence 456788998 5554 79999999999998 55 66777666653
No 482
>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=53.22 E-value=8.6 Score=34.12 Aligned_cols=56 Identities=14% Similarity=0.179 Sum_probs=33.8
Q ss_pred CccEEEEeCCCchH-HHHHHHHHCCCCeEEEeeh-hHHHHhCCC--------CCCceEEec----ccCCcC
Q 024350 193 HVKKLVDVGGGLGA-TLNMIISKYPHIKGINYDL-LYVIKNAPS--------YPGIDHVGG----DLFESV 249 (269)
Q Consensus 193 ~~~~vvDvGGG~G~-~~~~l~~~~P~l~~vv~Dl-p~vv~~a~~--------~~ri~~~~g----D~~~~~ 249 (269)
...+.+|||.|... |.+--++.| +.+++.-|+ |..++.|++ .+||+++.. ++|..+
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 35799999999885 444444444 899999997 566665543 278888743 567643
No 483
>KOG2918 consensus Carboxymethyl transferase [Posttranslational modification, protein turnover, chaperones]
Probab=53.06 E-value=30 Score=30.89 Aligned_cols=41 Identities=22% Similarity=0.335 Sum_probs=36.4
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHC--CCCeEEEeehhHHHHh
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKY--PHIKGINYDLLYVIKN 231 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~--P~l~~vv~Dlp~vv~~ 231 (269)
..+...||-+|||.=...-.++..+ ++++++=+|.|++++.
T Consensus 85 ~~~~~qivnLGcG~D~l~frL~s~~~~~~~~fievDfp~~~~r 127 (335)
T KOG2918|consen 85 TDGKKQIVNLGAGFDTLYFRLLSSGELDRVKFIEVDFPEVVER 127 (335)
T ss_pred cCCceEEEEcCCCccchhhhhhccCCCCcceEEEecCcHHHHH
Confidence 3467899999999999999999998 8888999999999864
No 484
>COG4465 CodY Pleiotropic transcriptional repressor [Transcription]
Probab=52.59 E-value=52 Score=27.77 Aligned_cols=44 Identities=20% Similarity=0.316 Sum_probs=37.0
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.||+.|.... |-+.+..||++.|+. .+ .+-.-||-|.+.|+++.
T Consensus 193 ~I~eELdG~E--G~lvASkiADrvGIT------RS-VIVNALRKlESAGvIeS 236 (261)
T COG4465 193 HIFEELDGNE--GLLVASKIADRVGIT------RS-VIVNALRKLESAGVIES 236 (261)
T ss_pred HHHHhcCCcc--ceeeehhhhhhhCch------HH-HHHHHHHHhhhcCceee
Confidence 3677776543 789999999999996 56 88889999999999995
No 485
>KOG2793 consensus Putative N2,N2-dimethylguanosine tRNA methyltransferase [RNA processing and modification]
Probab=52.33 E-value=18 Score=31.18 Aligned_cols=42 Identities=19% Similarity=0.294 Sum_probs=30.9
Q ss_pred CC-CccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHHHhCC
Q 024350 191 FE-HVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVIKNAP 233 (269)
Q Consensus 191 ~~-~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv~~a~ 233 (269)
|. +...+|.+|+|+|..+ .++.......++.-|+|.+++..+
T Consensus 83 ~~~~~~~vlELGsGtglvG-~~aa~~~~~~v~ltD~~~~~~~L~ 125 (248)
T KOG2793|consen 83 FKTKYINVLELGSGTGLVG-ILAALLLGAEVVLTDLPKVVENLK 125 (248)
T ss_pred ccccceeEEEecCCccHHH-HHHHHHhcceeccCCchhhHHHHH
Confidence 44 4678999999999444 344455677888999998887554
No 486
>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=52.32 E-value=36 Score=25.81 Aligned_cols=46 Identities=11% Similarity=0.023 Sum_probs=39.2
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhc
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVS 104 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s 104 (269)
-|-+.+.||..++-+ .. .++.-|..+...|+++ ..++|.|..+...
T Consensus 50 ipy~~e~LA~~~~~~------~~-~V~~Al~~f~k~glIe---~~d~g~i~i~~~~ 95 (119)
T TIGR01714 50 APYNAEMLATMFNRN------VG-DIRITLQTLESLGLIE---KKNNGDIFLENWE 95 (119)
T ss_pred CCCCHHHHHHHHCCC------HH-HHHHHHHHHHHCCCEE---EecCCcEEehhHH
Confidence 589999999999987 67 8999999999999999 5556778776654
No 487
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=52.32 E-value=18 Score=24.83 Aligned_cols=31 Identities=19% Similarity=0.170 Sum_probs=20.6
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA 86 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~ 86 (269)
...|..|||+.++++ +. .+.|+.+-|--.|+
T Consensus 33 ~~~si~elA~~~~vS------~s-ti~Rf~kkLG~~gf 63 (77)
T PF01418_consen 33 AFMSISELAEKAGVS------PS-TIVRFCKKLGFSGF 63 (77)
T ss_dssp CT--HHHHHHHCTS-------HH-HHHHHHHHCTTTCH
T ss_pred HHccHHHHHHHcCCC------HH-HHHHHHHHhCCCCH
Confidence 369999999999998 56 76776666554444
No 488
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=51.98 E-value=30 Score=21.21 Aligned_cols=24 Identities=17% Similarity=0.217 Sum_probs=18.4
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHH
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRL 80 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~ 80 (269)
..|..+||+.+|++ .. .+.+.++.
T Consensus 18 g~s~~eia~~l~is------~~-tv~~~~~~ 41 (58)
T smart00421 18 GLTNKEIAERLGIS------EK-TVKTHLSN 41 (58)
T ss_pred CCCHHHHHHHHCCC------HH-HHHHHHHH
Confidence 58999999999997 45 55555554
No 489
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=51.91 E-value=22 Score=23.81 Aligned_cols=30 Identities=10% Similarity=0.283 Sum_probs=23.6
Q ss_pred CCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCc
Q 024350 50 KLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNA 86 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~ 86 (269)
+.|+++||+.+|++ +. .+.++++......+
T Consensus 1 ~~~~~~la~~~~~s------~~-~l~~~f~~~~~~s~ 30 (84)
T smart00342 1 PLTLEDLAEALGMS------PR-HLQRLFKKETGTTP 30 (84)
T ss_pred CCCHHHHHHHhCCC------HH-HHHHHHHHHhCcCH
Confidence 47899999999997 67 88888887655443
No 490
>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=51.76 E-value=20 Score=31.54 Aligned_cols=38 Identities=16% Similarity=0.368 Sum_probs=30.5
Q ss_pred CCCHHHHHHhCCCCC----CCchhHHHHHHHHH-HHHHhcCcccc
Q 024350 50 KLSVSEIVAQIPLKD----NNPEAAAMMLDRVL-RLLVSYNALHC 89 (269)
Q Consensus 50 ~~s~~eLA~~~~~~~----~~~~~~~~~l~rlL-~~L~~~g~l~~ 89 (269)
.+|+++||..+|+++ +|.. .+ .+.|++ +.|..+|++++
T Consensus 95 ~~sie~LA~ecGLst~s~~Gn~s-it-RasR~i~e~le~~Gli~~ 137 (281)
T PF02387_consen 95 QASIEQLADECGLSTKSAAGNKS-IT-RASRLISEFLEPLGLITC 137 (281)
T ss_pred eecHHHHHHHhCCcccCCCCCee-HH-HHHHHHHHHHHhcCCeee
Confidence 589999999999983 2443 56 788888 77899999975
No 491
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=51.68 E-value=14 Score=24.02 Aligned_cols=31 Identities=13% Similarity=0.368 Sum_probs=18.9
Q ss_pred hhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHH
Q 024350 38 VFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLR 79 (269)
Q Consensus 38 lfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~ 79 (269)
|-+.+.+ ..+|..+||+.+|++ .. .+.+++.
T Consensus 2 L~~~m~~----~~it~~~La~~~gis------~~-tl~~~~~ 32 (63)
T PF13443_consen 2 LKELMAE----RGITQKDLARKTGIS------RS-TLSRILN 32 (63)
T ss_dssp HHHHHHH----TT--HHHHHHHHT--------HH-HHHHHHT
T ss_pred HHHHHHH----cCCCHHHHHHHHCcC------HH-HHHHHHh
Confidence 3456677 468999999999997 45 6665554
No 492
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=51.64 E-value=34 Score=25.08 Aligned_cols=42 Identities=7% Similarity=0.167 Sum_probs=31.7
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
-..+|.+..+. +.+|+.++|+.+|+. +. ++.+.|...|++.+
T Consensus 12 a~~~d~~~~~~--~~~ti~~~AK~L~i~------~~----~l~~~Lr~~g~l~~ 53 (111)
T PF03374_consen 12 AEFYDAFVDSD--GLYTIREAAKLLGIG------RN----KLFQWLREKGWLYR 53 (111)
T ss_pred hHHHHHHHcCC--CCccHHHHHHHhCCC------HH----HHHHHHHhCCceEE
Confidence 34577777654 789999999999996 33 45666667999993
No 493
>PRK00082 hrcA heat-inducible transcription repressor; Provisional
Probab=51.48 E-value=34 Score=30.88 Aligned_cols=48 Identities=6% Similarity=-0.021 Sum_probs=36.6
Q ss_pred CCCCHHHHHHh--CCCCCCCchhHHHHHHHHHHHHHhcCcccceeecCCCeEecChhch
Q 024350 49 AKLSVSEIVAQ--IPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVDGQRLYSLAPVSK 105 (269)
Q Consensus 49 ~~~s~~eLA~~--~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~y~~t~~s~ 105 (269)
+|.+.++||+. ++++ +. .+++-|..|..+|++.+. .+...+-.|..|-
T Consensus 24 ~pv~s~~l~~~~~l~~S------~a-TIR~dm~~Le~~G~l~~~--h~sagrIPT~kGY 73 (339)
T PRK00082 24 EPVGSKTLSKRYGLGVS------SA-TIRNDMADLEELGLLEKP--HTSSGRIPTDKGY 73 (339)
T ss_pred CCcCHHHHHHHhCCCCC------hH-HHHHHHHHHHhCCCcCCC--cCCCCCCcCHHHH
Confidence 79999999977 8887 66 899999999999999942 2223344666544
No 494
>KOG2651 consensus rRNA adenine N-6-methyltransferase [RNA processing and modification]
Probab=51.47 E-value=17 Score=33.32 Aligned_cols=38 Identities=21% Similarity=0.320 Sum_probs=29.7
Q ss_pred CCCccEEEEeCCCchHHHHHHHHHCCCCeEEEeehhHHH
Q 024350 191 FEHVKKLVDVGGGLGATLNMIISKYPHIKGINYDLLYVI 229 (269)
Q Consensus 191 ~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~vv~Dlp~vv 229 (269)
+.+...+||||.|.|+++.-+.-.| ++.+..+|-.++.
T Consensus 151 f~gi~~vvD~GaG~G~LSr~lSl~y-~lsV~aIegsq~~ 188 (476)
T KOG2651|consen 151 FTGIDQVVDVGAGQGHLSRFLSLGY-GLSVKAIEGSQRL 188 (476)
T ss_pred hcCCCeeEEcCCCchHHHHHHhhcc-CceEEEeccchHH
Confidence 6688999999999999887666554 6778888865544
No 495
>PF11312 DUF3115: Protein of unknown function (DUF3115); InterPro: IPR021463 This eukaryotic family of proteins has no known function.
Probab=51.06 E-value=23 Score=31.56 Aligned_cols=38 Identities=24% Similarity=0.452 Sum_probs=27.5
Q ss_pred ccEEEEeCCCchHHHHHHHHHC--------------------CCCeEEEeeh---hHHHHh
Q 024350 194 VKKLVDVGGGLGATLNMIISKY--------------------PHIKGINYDL---LYVIKN 231 (269)
Q Consensus 194 ~~~vvDvGGG~G~~~~~l~~~~--------------------P~l~~vv~Dl---p~vv~~ 231 (269)
..+||-||||.|.=..+|+..+ |.+..+++|+ ..||..
T Consensus 87 ~~~VlCIGGGAGAElVAlAa~~~~~~~~~~s~~~~~~~~~~~~~l~itlvDiAdWs~VV~~ 147 (315)
T PF11312_consen 87 SLRVLCIGGGAGAELVALAAAFRTRSSEFLSKSPSGVSLSSPPSLSITLVDIADWSSVVDR 147 (315)
T ss_pred CceEEEECCChHHHHHHHHHHHhhcccccCCcccccccccCCCcceEEEEEecChHHHHHH
Confidence 3799999999997666655554 3367889987 466653
No 496
>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=50.71 E-value=27 Score=27.21 Aligned_cols=35 Identities=23% Similarity=0.444 Sum_probs=23.6
Q ss_pred ChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHH
Q 024350 37 DVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLR 79 (269)
Q Consensus 37 glfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~ 79 (269)
.|-+.|.+++ +...|+.+|++.||++ +. .+.++++
T Consensus 34 kV~~yLr~~p-~~~ati~eV~e~tgVs------~~-~I~~~Ir 68 (137)
T TIGR03826 34 KVYKFLRKHE-NRQATVSEIVEETGVS------EK-LILKFIR 68 (137)
T ss_pred HHHHHHHHCC-CCCCCHHHHHHHHCcC------HH-HHHHHHH
Confidence 3556666653 1348999999999997 55 5555443
No 497
>PF14502 HTH_41: Helix-turn-helix domain
Probab=50.65 E-value=38 Score=21.30 Aligned_cols=34 Identities=15% Similarity=0.239 Sum_probs=29.9
Q ss_pred CCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccc
Q 024350 49 AKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHC 89 (269)
Q Consensus 49 ~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~ 89 (269)
.-.|++|+++.++++ .- .+..-|+.|...|.+.-
T Consensus 5 Ri~tI~e~~~~~~vs------~G-tiQ~Alk~Le~~gaI~L 38 (48)
T PF14502_consen 5 RIPTISEYSEKFGVS------RG-TIQNALKFLEENGAIKL 38 (48)
T ss_pred ccCCHHHHHHHhCcc------hh-HHHHHHHHHHHCCcEEe
Confidence 457999999999997 56 88999999999999984
No 498
>COG1386 scpB Chromosome segregation and condensation protein B [DNA replication, recombination and repair]
Probab=50.49 E-value=32 Score=28.24 Aligned_cols=56 Identities=18% Similarity=0.157 Sum_probs=40.5
Q ss_pred cChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHhcCcccceeec----CCCeEecChhc
Q 024350 36 LDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVSYNALHCSFVD----GQRLYSLAPVS 104 (269)
Q Consensus 36 lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~----~~~~y~~t~~s 104 (269)
+.+..+++-+ +|+|-.+|-+.-|+. ..++++.|...|++...++. .+-.|..|+..
T Consensus 95 lEtLAiIAY~---QPiTR~eI~~iRGv~----------~~~~i~~L~e~glI~~~g~~~~~Grp~ly~tT~~F 154 (184)
T COG1386 95 LETLAIIAYK---QPVTRSEIEEIRGVA----------VSQVISTLLERGLIREVGRRDTPGRPYLYGTTEKF 154 (184)
T ss_pred HHHHHHHHHc---CCccHHHHHHHhCcc----------HHHHHHHHHHCCCeEecCCCCCCCCceeeeccHHH
Confidence 4566677776 699999999999994 45699999999999954321 12346666543
No 499
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=50.16 E-value=35 Score=29.32 Aligned_cols=60 Identities=12% Similarity=0.138 Sum_probs=46.9
Q ss_pred hcChhHHHHhcCCCCCCCHHHHHHhCCCCCCCchhHHHHHHHHHHHHHh---cCcccceeecCCCeEecChhchhhhcC
Q 024350 35 ELDVFEIITKAGPGAKLSVSEIVAQIPLKDNNPEAAAMMLDRVLRLLVS---YNALHCSFVDGQRLYSLAPVSKYFVRN 110 (269)
Q Consensus 35 ~lglfd~L~~~g~~~~~s~~eLA~~~~~~~~~~~~~~~~l~rlL~~L~~---~g~l~~~~~~~~~~y~~t~~s~~l~~~ 110 (269)
++..|..+.+ ..|...-|++++++ .. .+.+-++.|.. .-+|. +. ...+.+|+.|+.|...
T Consensus 5 ~l~~f~~v~~-----~gs~s~AA~~L~is------qp-avS~~I~~LE~~lG~~LF~---R~-~r~~~lT~~G~~l~~~ 67 (275)
T PRK03601 5 LLKTFLEVSR-----TRHFGRAAESLYLT------QS-AVSFRIRQLENQLGVNLFT---RH-RNNIRLTAAGERLLPY 67 (275)
T ss_pred HHHHHHHHHH-----cCCHHHHHHHhCCC------hH-HHHHHHHHHHHHhCCceEE---EC-CCceEECHhHHHHHHH
Confidence 4678888888 56888899999998 56 78888877776 55677 43 5779999999977644
No 500
>PF13578 Methyltransf_24: Methyltransferase domain; PDB: 3SSO_A 3SSN_C 3SSM_D.
Probab=49.91 E-value=8.5 Score=27.90 Aligned_cols=60 Identities=18% Similarity=0.211 Sum_probs=18.7
Q ss_pred EEeCCCchHHHHHHHHHCCCC---eEEEeehhH----HHHhCCC---CCCceEEecccCCc---CC-CC-cEEEe
Q 024350 198 VDVGGGLGATLNMIISKYPHI---KGINYDLLY----VIKNAPS---YPGIDHVGGDLFES---VP-KA-DTIFM 257 (269)
Q Consensus 198 vDvGGG~G~~~~~l~~~~P~l---~~vv~Dlp~----vv~~a~~---~~ri~~~~gD~~~~---~P-~g-D~~~l 257 (269)
|+||...|..+..+++..+.. +.+.+|..+ +-+..++ .++++++.+|+.+- ++ .. |++++
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 578999999988888877765 578888754 2223332 27899999998763 33 22 77665
Done!