Query 046424
Match_columns 266
No_of_seqs 119 out of 1177
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 11:57:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046424.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046424hhsearch_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 2.5E-34 5.3E-39 252.3 19.4 240 16-266 2-243 (342)
2 PF00891 Methyltransf_2: O-met 100.0 1.6E-31 3.5E-36 230.3 13.2 162 103-266 3-165 (241)
3 TIGR02716 C20_methyl_CrtF C-20 100.0 4E-30 8.7E-35 229.1 18.1 210 32-266 2-222 (306)
4 PF08100 Dimerisation: Dimeris 98.9 1.1E-09 2.3E-14 70.8 4.2 51 35-85 1-51 (51)
5 PF12847 Methyltransf_18: Meth 98.7 2.6E-08 5.6E-13 75.0 5.3 64 202-265 2-76 (112)
6 PRK08287 cobalt-precorrin-6Y C 98.5 2.9E-07 6.3E-12 76.2 7.2 72 193-265 24-103 (187)
7 PRK06922 hypothetical protein; 98.5 3.7E-07 8.1E-12 87.7 8.5 104 161-265 377-493 (677)
8 PRK14103 trans-aconitate 2-met 98.5 8.6E-07 1.9E-11 77.0 9.5 74 190-265 19-95 (255)
9 COG4106 Tam Trans-aconitate me 98.4 4.9E-07 1.1E-11 75.2 6.5 86 177-264 8-97 (257)
10 PRK01683 trans-aconitate 2-met 98.4 2.4E-06 5.3E-11 74.1 10.0 76 189-265 20-99 (258)
11 PF13847 Methyltransf_31: Meth 98.4 8.1E-07 1.8E-11 70.9 6.0 65 201-265 3-79 (152)
12 TIGR03587 Pse_Me-ase pseudamin 98.4 1.7E-06 3.6E-11 72.8 7.9 66 200-265 42-111 (204)
13 TIGR02752 MenG_heptapren 2-hep 98.3 3E-06 6.4E-11 72.3 7.6 74 191-265 36-120 (231)
14 PRK04457 spermidine synthase; 98.2 1.7E-06 3.8E-11 75.5 5.3 65 201-265 66-142 (262)
15 PF05175 MTS: Methyltransferas 98.2 2.6E-06 5.6E-11 69.5 5.6 65 201-265 31-104 (170)
16 TIGR00740 methyltransferase, p 98.2 3.1E-06 6.8E-11 72.7 6.2 66 200-265 52-128 (239)
17 PRK15451 tRNA cmo(5)U34 methyl 98.2 2.9E-06 6.4E-11 73.4 5.8 66 200-265 55-131 (247)
18 COG2226 UbiE Methylase involve 98.2 6.1E-06 1.3E-10 70.7 7.6 65 201-265 51-125 (238)
19 TIGR03533 L3_gln_methyl protei 98.2 3.3E-06 7.1E-11 74.6 6.1 65 201-265 121-195 (284)
20 PRK11805 N5-glutamine S-adenos 98.2 2.9E-06 6.2E-11 75.8 5.6 63 203-265 135-207 (307)
21 PRK15001 SAM-dependent 23S rib 98.1 6.3E-06 1.4E-10 75.4 7.3 75 190-265 218-304 (378)
22 TIGR02469 CbiT precorrin-6Y C5 98.1 1.2E-05 2.6E-10 61.1 7.6 73 192-265 11-94 (124)
23 COG2890 HemK Methylase of poly 98.1 4.4E-06 9.6E-11 73.6 5.3 62 204-265 113-182 (280)
24 PTZ00098 phosphoethanolamine N 98.1 1.3E-05 2.8E-10 70.0 7.9 74 190-265 42-123 (263)
25 TIGR00536 hemK_fam HemK family 98.0 8.5E-06 1.8E-10 72.0 5.9 63 203-265 116-188 (284)
26 PLN02244 tocopherol O-methyltr 98.0 2E-05 4.3E-10 71.4 8.1 65 200-265 117-192 (340)
27 smart00828 PKS_MT Methyltransf 98.0 1.1E-05 2.5E-10 68.3 6.1 62 203-264 1-72 (224)
28 PRK11207 tellurite resistance 98.0 1.7E-05 3.8E-10 66.2 6.8 73 190-265 20-101 (197)
29 PRK10258 biotin biosynthesis p 98.0 5E-05 1.1E-09 65.7 9.6 73 190-265 32-109 (251)
30 TIGR00091 tRNA (guanine-N(7)-) 98.0 8.5E-06 1.8E-10 67.9 4.5 65 201-265 16-93 (194)
31 TIGR00138 gidB 16S rRNA methyl 98.0 1.2E-05 2.6E-10 66.3 5.2 64 202-265 43-115 (181)
32 PF13649 Methyltransf_25: Meth 98.0 6.9E-06 1.5E-10 60.8 3.4 61 205-265 1-73 (101)
33 PRK00107 gidB 16S rRNA methylt 98.0 1.8E-05 3.9E-10 65.6 6.2 65 201-265 45-118 (187)
34 PF08242 Methyltransf_12: Meth 97.9 3.3E-06 7.1E-11 62.2 1.4 60 206-265 1-72 (99)
35 PRK14966 unknown domain/N5-glu 97.9 2.3E-05 4.9E-10 72.3 7.1 65 201-265 251-325 (423)
36 PLN02233 ubiquinone biosynthes 97.9 5.7E-05 1.2E-09 65.9 9.3 67 199-265 71-151 (261)
37 PRK01544 bifunctional N5-gluta 97.9 1.4E-05 3E-10 76.1 5.7 64 202-265 139-212 (506)
38 COG2813 RsmC 16S RNA G1207 met 97.9 3.9E-05 8.5E-10 67.4 7.9 75 190-265 148-230 (300)
39 PRK07402 precorrin-6B methylas 97.9 3.8E-05 8.3E-10 63.9 7.3 63 192-255 32-101 (196)
40 PF01209 Ubie_methyltran: ubiE 97.9 1.2E-05 2.6E-10 69.0 4.1 67 199-265 45-122 (233)
41 PLN02336 phosphoethanolamine N 97.9 3.9E-05 8.5E-10 72.5 7.9 73 191-265 257-338 (475)
42 PRK00216 ubiE ubiquinone/menaq 97.9 0.00012 2.5E-09 62.3 10.2 73 192-265 43-127 (239)
43 TIGR03534 RF_mod_PrmC protein- 97.9 2.3E-05 5E-10 67.4 5.8 65 201-265 87-160 (251)
44 smart00650 rADc Ribosomal RNA 97.9 4.5E-05 9.9E-10 62.0 7.1 72 190-264 3-82 (169)
45 TIGR03704 PrmC_rel_meth putati 97.9 4.9E-05 1.1E-09 66.0 7.5 65 201-265 86-159 (251)
46 PRK08317 hypothetical protein; 97.9 6.1E-05 1.3E-09 63.8 8.0 73 192-265 11-93 (241)
47 COG2242 CobL Precorrin-6B meth 97.9 5.3E-05 1.2E-09 62.1 7.1 72 193-265 27-108 (187)
48 PRK06202 hypothetical protein; 97.8 0.0001 2.2E-09 63.0 9.2 66 200-265 59-135 (232)
49 TIGR01934 MenG_MenH_UbiE ubiqu 97.8 5.6E-05 1.2E-09 63.6 7.5 73 192-265 31-112 (223)
50 TIGR02021 BchM-ChlM magnesium 97.8 8.6E-05 1.9E-09 62.9 8.6 64 200-265 54-125 (219)
51 TIGR02072 BioC biotin biosynth 97.8 3.6E-05 7.8E-10 65.4 6.3 65 201-265 34-104 (240)
52 PRK11036 putative S-adenosyl-L 97.8 4.3E-05 9.4E-10 66.3 6.8 70 192-265 37-118 (255)
53 PRK00121 trmB tRNA (guanine-N( 97.8 2.8E-05 6.2E-10 65.2 5.4 72 192-265 33-117 (202)
54 PRK14121 tRNA (guanine-N(7)-)- 97.8 4.9E-05 1.1E-09 69.6 7.1 73 192-265 114-198 (390)
55 PRK11088 rrmA 23S rRNA methylt 97.8 4.4E-05 9.5E-10 67.0 6.5 64 201-264 85-156 (272)
56 PF08241 Methyltransf_11: Meth 97.8 3.8E-05 8.2E-10 55.3 5.1 59 206-265 1-66 (95)
57 PRK09328 N5-glutamine S-adenos 97.8 7.2E-05 1.6E-09 65.4 7.7 66 200-265 107-181 (275)
58 PRK09489 rsmC 16S ribosomal RN 97.8 7.6E-05 1.6E-09 67.7 7.7 73 192-265 188-267 (342)
59 PRK13942 protein-L-isoaspartat 97.8 0.00013 2.7E-09 61.7 8.5 74 191-265 67-151 (212)
60 TIGR00080 pimt protein-L-isoas 97.8 0.00011 2.4E-09 62.1 8.1 74 191-265 68-152 (215)
61 PLN02490 MPBQ/MSBQ methyltrans 97.8 5.6E-05 1.2E-09 68.3 6.3 65 201-265 113-184 (340)
62 PRK13944 protein-L-isoaspartat 97.7 0.00017 3.6E-09 60.6 8.2 73 192-265 64-148 (205)
63 PF13659 Methyltransf_26: Meth 97.7 3.8E-05 8.1E-10 58.1 3.7 62 203-265 2-76 (117)
64 PLN03075 nicotianamine synthas 97.7 0.00012 2.7E-09 64.6 7.4 66 200-265 122-201 (296)
65 PHA03411 putative methyltransf 97.7 9.4E-05 2E-09 64.6 6.4 64 202-265 65-132 (279)
66 COG4123 Predicted O-methyltran 97.6 7E-05 1.5E-09 64.4 4.9 74 192-265 35-121 (248)
67 PRK14896 ksgA 16S ribosomal RN 97.6 0.00018 3.9E-09 62.6 7.6 72 190-264 19-96 (258)
68 smart00138 MeTrc Methyltransfe 97.6 0.00045 9.8E-09 60.4 9.9 66 200-265 98-209 (264)
69 TIGR00537 hemK_rel_arch HemK-r 97.6 0.00016 3.4E-09 59.3 6.4 63 201-265 19-88 (179)
70 PRK00274 ksgA 16S ribosomal RN 97.6 0.00014 3.1E-09 63.8 6.5 66 190-258 32-102 (272)
71 PRK05785 hypothetical protein; 97.6 0.00015 3.3E-09 61.9 6.3 62 201-265 51-116 (226)
72 PLN02366 spermidine synthase 97.6 0.00011 2.5E-09 65.5 5.6 65 200-265 90-171 (308)
73 PRK11188 rrmJ 23S rRNA methylt 97.5 0.00053 1.2E-08 57.8 9.0 59 193-255 43-102 (209)
74 PRK15068 tRNA mo(5)U34 methylt 97.5 0.00044 9.4E-09 62.2 8.9 71 193-265 115-195 (322)
75 PF07021 MetW: Methionine bios 97.5 0.00019 4.2E-09 59.2 5.9 64 200-266 12-82 (193)
76 TIGR00477 tehB tellurite resis 97.5 0.00035 7.5E-09 58.2 7.5 73 190-265 20-100 (195)
77 PRK11873 arsM arsenite S-adeno 97.5 0.0002 4.3E-09 62.7 6.3 67 199-265 75-152 (272)
78 PRK00811 spermidine synthase; 97.5 0.00012 2.6E-09 64.7 4.9 66 200-265 75-156 (283)
79 KOG1540 Ubiquinone biosynthesi 97.5 0.00056 1.2E-08 58.7 8.5 65 201-265 100-183 (296)
80 PRK07580 Mg-protoporphyrin IX 97.5 0.00032 7E-09 59.5 7.2 63 200-265 62-133 (230)
81 PRK01581 speE spermidine synth 97.4 0.00023 4.9E-09 64.6 5.6 66 200-265 149-232 (374)
82 PRK14968 putative methyltransf 97.4 0.00037 8.1E-09 57.0 6.3 63 201-265 23-96 (188)
83 PRK00377 cbiT cobalt-precorrin 97.4 0.00046 9.9E-09 57.6 6.9 71 194-265 34-117 (198)
84 TIGR00755 ksgA dimethyladenosi 97.4 0.00055 1.2E-08 59.4 7.2 69 190-261 19-93 (253)
85 PHA03412 putative methyltransf 97.4 0.0005 1.1E-08 58.8 6.4 64 202-265 50-120 (241)
86 COG2230 Cfa Cyclopropane fatty 97.3 0.00061 1.3E-08 59.7 7.0 64 190-255 62-133 (283)
87 TIGR00438 rrmJ cell division p 97.3 0.00096 2.1E-08 55.1 7.8 56 196-255 27-83 (188)
88 PRK12335 tellurite resistance 97.3 0.00058 1.3E-08 60.4 6.8 72 191-265 111-190 (287)
89 PRK03612 spermidine synthase; 97.3 0.00039 8.5E-09 66.6 6.1 65 200-265 296-379 (521)
90 PLN02672 methionine S-methyltr 97.3 0.00046 9.9E-09 70.7 6.6 63 202-264 119-208 (1082)
91 PRK14967 putative methyltransf 97.3 0.00057 1.2E-08 58.1 6.2 66 199-265 34-107 (223)
92 PRK04266 fibrillarin; Provisio 97.3 0.0013 2.9E-08 56.1 8.3 68 196-264 68-146 (226)
93 PRK00312 pcm protein-L-isoaspa 97.3 0.0014 3E-08 55.2 8.2 70 193-265 71-150 (212)
94 PLN02336 phosphoethanolamine N 97.3 0.00095 2.1E-08 63.1 7.8 73 190-265 27-109 (475)
95 PLN02396 hexaprenyldihydroxybe 97.2 0.00038 8.3E-09 62.5 4.8 62 202-265 132-204 (322)
96 PF05401 NodS: Nodulation prot 97.2 0.00034 7.4E-09 57.9 3.8 69 195-266 38-113 (201)
97 PF02390 Methyltransf_4: Putat 97.2 0.00064 1.4E-08 56.8 5.3 54 202-255 18-78 (195)
98 TIGR02081 metW methionine bios 97.2 0.0011 2.4E-08 55.0 6.8 63 201-265 13-81 (194)
99 PTZ00338 dimethyladenosine tra 97.2 0.0013 2.8E-08 58.4 7.4 72 190-264 26-106 (294)
100 PRK04148 hypothetical protein; 97.2 0.0016 3.5E-08 50.8 6.9 69 192-264 8-82 (134)
101 PRK00050 16S rRNA m(4)C1402 me 97.1 0.0011 2.4E-08 58.8 6.5 75 190-265 9-96 (296)
102 PF02353 CMAS: Mycolic acid cy 97.1 0.00058 1.3E-08 60.0 4.7 71 191-264 53-132 (273)
103 KOG2904 Predicted methyltransf 97.1 0.0012 2.7E-08 57.1 6.4 60 199-258 146-217 (328)
104 cd02440 AdoMet_MTases S-adenos 97.1 0.0012 2.5E-08 47.3 5.5 61 204-265 1-72 (107)
105 TIGR00452 methyltransferase, p 97.1 0.0028 6E-08 56.8 8.7 72 192-265 113-194 (314)
106 COG2263 Predicted RNA methylas 97.1 0.0013 2.9E-08 54.0 5.9 64 201-265 45-114 (198)
107 PRK13943 protein-L-isoaspartat 97.0 0.0023 5.1E-08 57.5 7.7 73 192-265 72-155 (322)
108 COG0421 SpeE Spermidine syntha 97.0 0.001 2.3E-08 58.5 5.2 66 200-265 75-155 (282)
109 PF06325 PrmA: Ribosomal prote 97.0 0.00073 1.6E-08 59.9 4.3 82 176-264 139-230 (295)
110 TIGR03840 TMPT_Se_Te thiopurin 97.0 0.0028 6.1E-08 53.6 7.6 54 200-255 33-105 (213)
111 TIGR00406 prmA ribosomal prote 97.0 0.0012 2.6E-08 58.4 5.5 86 176-265 137-231 (288)
112 PF09339 HTH_IclR: IclR helix- 97.0 0.00027 5.8E-09 45.9 1.0 46 43-93 6-51 (52)
113 PRK11705 cyclopropane fatty ac 97.0 0.0023 5E-08 58.9 7.4 71 191-264 158-233 (383)
114 PLN02823 spermine synthase 97.0 0.0012 2.6E-08 59.7 5.2 66 200-265 102-182 (336)
115 TIGR03438 probable methyltrans 96.9 0.0014 3E-08 58.4 5.4 62 191-255 56-126 (301)
116 TIGR00417 speE spermidine synt 96.9 0.0013 2.9E-08 57.6 5.1 66 200-265 71-151 (270)
117 KOG1271 Methyltransferases [Ge 96.9 0.0021 4.7E-08 52.5 5.6 64 201-264 67-141 (227)
118 smart00550 Zalpha Z-DNA-bindin 96.9 0.0019 4.2E-08 44.3 4.6 61 40-110 6-66 (68)
119 PRK10909 rsmD 16S rRNA m(2)G96 96.9 0.0017 3.6E-08 54.4 5.0 64 201-265 53-127 (199)
120 COG2264 PrmA Ribosomal protein 96.9 0.001 2.2E-08 58.9 3.8 64 176-243 140-204 (300)
121 PLN02781 Probable caffeoyl-CoA 96.9 0.0027 5.9E-08 54.5 6.4 67 199-265 66-150 (234)
122 KOG1500 Protein arginine N-met 96.9 0.003 6.5E-08 56.3 6.6 73 190-264 167-248 (517)
123 PRK14902 16S rRNA methyltransf 96.8 0.0025 5.3E-08 59.9 6.5 72 193-265 243-326 (444)
124 smart00346 HTH_ICLR helix_turn 96.8 0.0018 4E-08 46.7 4.2 59 41-111 6-64 (91)
125 PRK03522 rumB 23S rRNA methylu 96.8 0.0024 5.2E-08 57.3 5.6 62 202-265 174-246 (315)
126 PRK13168 rumA 23S rRNA m(5)U19 96.8 0.0032 6.9E-08 59.2 6.6 71 192-265 289-373 (443)
127 PF03848 TehB: Tellurite resis 96.8 0.0041 9E-08 51.7 6.5 72 190-264 20-99 (192)
128 PTZ00146 fibrillarin; Provisio 96.7 0.0065 1.4E-07 53.7 7.7 67 199-265 130-208 (293)
129 PF05148 Methyltransf_8: Hypot 96.7 0.011 2.5E-07 49.4 8.4 108 139-265 14-128 (219)
130 TIGR01177 conserved hypothetic 96.7 0.0058 1.2E-07 55.1 7.1 65 199-265 180-254 (329)
131 PLN02585 magnesium protoporphy 96.6 0.0041 8.8E-08 55.8 5.9 61 202-265 145-218 (315)
132 PF05185 PRMT5: PRMT5 arginine 96.6 0.0053 1.1E-07 57.7 6.9 95 163-264 152-263 (448)
133 PF01135 PCMT: Protein-L-isoas 96.6 0.0039 8.4E-08 52.6 5.2 74 191-265 63-147 (209)
134 KOG1499 Protein arginine N-met 96.6 0.0028 6.1E-08 56.7 4.4 63 201-264 60-132 (346)
135 COG0220 Predicted S-adenosylme 96.5 0.0054 1.2E-07 52.4 5.5 54 202-255 49-109 (227)
136 PRK13255 thiopurine S-methyltr 96.5 0.012 2.5E-07 50.1 7.6 62 201-264 37-121 (218)
137 PRK00536 speE spermidine synth 96.5 0.0055 1.2E-07 53.4 5.4 62 200-265 71-145 (262)
138 PRK00517 prmA ribosomal protei 96.4 0.0033 7.2E-08 54.4 4.1 41 201-242 119-160 (250)
139 PRK11727 23S rRNA mA1618 methy 96.4 0.0051 1.1E-07 55.2 5.3 65 201-265 114-195 (321)
140 TIGR02431 pcaR_pcaU beta-ketoa 96.4 0.0037 8E-08 54.0 4.1 59 41-113 10-68 (248)
141 PF13412 HTH_24: Winged helix- 96.4 0.0037 8.1E-08 39.6 3.0 45 41-91 4-48 (48)
142 PF12840 HTH_20: Helix-turn-he 96.4 0.0028 6.2E-08 42.4 2.5 53 35-93 5-57 (61)
143 KOG1541 Predicted protein carb 96.3 0.0033 7.2E-08 52.9 3.2 61 201-264 50-117 (270)
144 PRK10901 16S rRNA methyltransf 96.3 0.01 2.2E-07 55.5 6.8 72 193-265 237-319 (427)
145 PRK10141 DNA-binding transcrip 96.3 0.0064 1.4E-07 46.4 4.4 67 33-110 9-75 (117)
146 KOG0820 Ribosomal RNA adenine 96.3 0.013 2.8E-07 50.9 6.7 71 191-264 49-128 (315)
147 TIGR00478 tly hemolysin TlyA f 96.3 0.023 4.9E-07 48.6 8.2 57 190-247 64-122 (228)
148 PF08123 DOT1: Histone methyla 96.3 0.0052 1.1E-07 51.7 4.0 74 191-265 33-128 (205)
149 COG2345 Predicted transcriptio 96.2 0.0081 1.7E-07 50.7 4.8 69 44-118 15-83 (218)
150 TIGR01444 fkbM_fam methyltrans 96.2 0.0065 1.4E-07 47.5 4.1 52 204-255 1-59 (143)
151 PF09445 Methyltransf_15: RNA 96.2 0.0027 5.9E-08 51.3 1.9 62 203-266 1-76 (163)
152 PF14947 HTH_45: Winged helix- 96.2 0.0045 9.9E-08 43.6 2.8 57 45-117 11-67 (77)
153 COG2518 Pcm Protein-L-isoaspar 96.1 0.027 5.9E-07 47.2 7.7 72 191-265 63-144 (209)
154 COG1414 IclR Transcriptional r 96.1 0.0076 1.7E-07 52.1 4.5 60 42-113 6-65 (246)
155 PF01564 Spermine_synth: Sperm 96.1 0.004 8.6E-08 53.9 2.6 66 200-265 75-156 (246)
156 PRK15090 DNA-binding transcrip 96.1 0.0069 1.5E-07 52.6 4.1 59 42-113 16-74 (257)
157 PHA00738 putative HTH transcri 96.1 0.0088 1.9E-07 44.5 4.0 59 41-110 13-71 (108)
158 PF13601 HTH_34: Winged helix 96.0 0.0044 9.4E-08 44.0 2.2 68 41-115 1-68 (80)
159 PF01022 HTH_5: Bacterial regu 96.0 0.0042 9.2E-08 39.3 1.9 43 42-91 4-46 (47)
160 PF13463 HTH_27: Winged helix 96.0 0.0094 2E-07 40.4 3.7 60 45-112 8-68 (68)
161 PF13489 Methyltransf_23: Meth 96.0 0.026 5.6E-07 44.5 6.7 38 200-239 21-59 (161)
162 PF05724 TPMT: Thiopurine S-me 96.0 0.023 5E-07 48.2 6.7 55 199-255 35-108 (218)
163 KOG1270 Methyltransferases [Co 95.9 0.0065 1.4E-07 52.5 3.0 60 203-264 91-163 (282)
164 smart00419 HTH_CRP helix_turn_ 95.9 0.011 2.3E-07 37.1 3.3 34 56-93 8-41 (48)
165 PF00398 RrnaAD: Ribosomal RNA 95.9 0.03 6.5E-07 48.8 7.2 68 189-259 19-92 (262)
166 PRK05134 bifunctional 3-demeth 95.9 0.025 5.4E-07 48.1 6.6 63 201-265 48-120 (233)
167 TIGR00479 rumA 23S rRNA (uraci 95.9 0.011 2.5E-07 55.2 4.8 65 199-265 290-368 (431)
168 PRK01544 bifunctional N5-gluta 95.9 0.011 2.5E-07 56.4 4.8 53 201-253 347-406 (506)
169 PRK11760 putative 23S rRNA C24 95.8 0.031 6.8E-07 50.3 7.2 63 200-264 210-275 (357)
170 KOG2899 Predicted methyltransf 95.8 0.014 3E-07 49.9 4.5 52 191-242 47-100 (288)
171 PF08003 Methyltransf_9: Prote 95.8 0.019 4.1E-07 50.8 5.4 41 191-233 106-146 (315)
172 PF01978 TrmB: Sugar-specific 95.8 0.0049 1.1E-07 42.1 1.5 47 41-93 9-55 (68)
173 TIGR02085 meth_trns_rumB 23S r 95.8 0.0087 1.9E-07 55.0 3.5 62 202-265 234-306 (374)
174 smart00347 HTH_MARR helix_turn 95.7 0.013 2.8E-07 42.5 3.8 68 41-116 11-78 (101)
175 PF12147 Methyltransf_20: Puta 95.7 0.028 6.2E-07 49.3 6.3 55 201-255 135-199 (311)
176 TIGR02702 SufR_cyano iron-sulf 95.7 0.018 4E-07 48.2 5.0 69 43-117 4-72 (203)
177 PRK10163 DNA-binding transcrip 95.7 0.014 2.9E-07 51.3 4.4 60 41-112 26-85 (271)
178 cd00092 HTH_CRP helix_turn_hel 95.7 0.025 5.5E-07 38.0 4.8 43 56-110 25-67 (67)
179 COG2227 UbiG 2-polyprenyl-3-me 95.7 0.0093 2E-07 50.9 3.0 40 202-243 60-100 (243)
180 TIGR01983 UbiG ubiquinone bios 95.7 0.018 3.9E-07 48.5 4.8 63 201-265 45-118 (224)
181 PF09012 FeoC: FeoC like trans 95.6 0.012 2.7E-07 40.4 3.0 43 45-93 5-47 (69)
182 PRK11569 transcriptional repre 95.6 0.013 2.9E-07 51.4 4.0 61 41-113 29-89 (274)
183 PRK09834 DNA-binding transcrip 95.6 0.014 3E-07 50.9 3.9 64 41-116 12-75 (263)
184 PRK14904 16S rRNA methyltransf 95.5 0.033 7.1E-07 52.4 6.4 67 199-265 248-324 (445)
185 PF13679 Methyltransf_32: Meth 95.5 0.021 4.4E-07 45.0 4.3 56 200-255 24-93 (141)
186 PF02082 Rrf2: Transcriptional 95.5 0.017 3.7E-07 41.1 3.4 45 56-110 25-69 (83)
187 KOG3420 Predicted RNA methylas 95.4 0.032 6.9E-07 44.1 5.0 70 193-265 41-120 (185)
188 COG0030 KsgA Dimethyladenosine 95.4 0.11 2.3E-06 45.2 8.7 68 189-259 19-92 (259)
189 TIGR02337 HpaR homoprotocatech 95.4 0.026 5.6E-07 42.9 4.3 69 41-117 29-97 (118)
190 PRK13256 thiopurine S-methyltr 95.3 0.092 2E-06 44.8 7.9 53 201-255 43-114 (226)
191 PRK10857 DNA-binding transcrip 95.3 0.03 6.6E-07 45.4 4.7 45 56-110 25-69 (164)
192 TIGR00095 RNA methyltransferas 95.3 0.016 3.4E-07 48.1 3.0 53 202-255 50-110 (189)
193 PLN02476 O-methyltransferase 95.2 0.056 1.2E-06 47.6 6.5 67 199-265 116-200 (278)
194 COG4262 Predicted spermidine s 95.1 0.054 1.2E-06 49.0 6.1 56 200-256 288-358 (508)
195 PF10294 Methyltransf_16: Puta 95.1 0.03 6.4E-07 45.7 4.1 55 201-255 45-108 (173)
196 PRK11783 rlmL 23S rRNA m(2)G24 95.1 0.026 5.6E-07 56.1 4.4 64 201-265 538-614 (702)
197 PRK15128 23S rRNA m(5)C1962 me 95.0 0.026 5.5E-07 52.3 3.9 64 201-265 220-299 (396)
198 TIGR02010 IscR iron-sulfur clu 95.0 0.041 8.8E-07 43.0 4.5 45 56-110 25-69 (135)
199 PF04703 FaeA: FaeA-like prote 94.9 0.022 4.8E-07 38.3 2.4 44 44-93 4-48 (62)
200 PF12802 MarR_2: MarR family; 94.9 0.018 4E-07 38.2 2.0 49 41-93 6-54 (62)
201 PRK14901 16S rRNA methyltransf 94.9 0.061 1.3E-06 50.4 6.2 72 193-265 245-331 (434)
202 COG1959 Predicted transcriptio 94.9 0.042 9.1E-07 43.9 4.3 45 56-110 25-69 (150)
203 PRK03902 manganese transport t 94.9 0.039 8.5E-07 43.4 4.2 55 48-116 16-70 (142)
204 TIGR02944 suf_reg_Xantho FeS a 94.8 0.033 7.1E-07 43.1 3.6 46 55-110 24-69 (130)
205 PF01170 UPF0020: Putative RNA 94.8 0.042 9.2E-07 45.1 4.4 73 191-264 19-111 (179)
206 PF07757 AdoMet_MTase: Predict 94.8 0.037 7.9E-07 41.4 3.4 32 200-233 57-88 (112)
207 KOG3045 Predicted RNA methylas 94.8 0.17 3.7E-06 43.9 7.9 90 163-265 138-234 (325)
208 TIGR00563 rsmB ribosomal RNA s 94.7 0.058 1.3E-06 50.4 5.6 73 192-265 230-315 (426)
209 PF08220 HTH_DeoR: DeoR-like h 94.7 0.053 1.1E-06 35.8 3.7 44 44-93 4-47 (57)
210 PRK11512 DNA-binding transcrip 94.5 0.043 9.3E-07 43.2 3.5 66 43-116 43-108 (144)
211 KOG3115 Methyltransferase-like 94.5 0.019 4.2E-07 47.8 1.5 33 202-234 61-93 (249)
212 PRK14903 16S rRNA methyltransf 94.4 0.089 1.9E-06 49.3 6.1 67 199-265 235-313 (431)
213 smart00420 HTH_DEOR helix_turn 94.4 0.072 1.6E-06 33.7 3.8 43 45-93 5-47 (53)
214 PF01728 FtsJ: FtsJ-like methy 94.3 0.034 7.4E-07 45.4 2.7 46 191-236 11-59 (181)
215 PF01047 MarR: MarR family; I 94.3 0.026 5.7E-07 37.1 1.6 46 42-93 5-50 (59)
216 PF01596 Methyltransf_3: O-met 94.3 0.053 1.1E-06 45.6 3.8 66 200-265 44-127 (205)
217 KOG3010 Methyltransferase [Gen 94.3 0.082 1.8E-06 45.2 4.9 44 201-246 33-77 (261)
218 PRK11920 rirA iron-responsive 94.2 0.068 1.5E-06 42.8 4.2 45 56-110 24-68 (153)
219 smart00418 HTH_ARSR helix_turn 94.2 0.11 2.3E-06 34.1 4.6 42 45-93 2-43 (66)
220 PF01795 Methyltransf_5: MraW 94.2 0.13 2.9E-06 45.8 6.3 65 190-255 10-80 (310)
221 PF04816 DUF633: Family of unk 94.1 0.047 1E-06 45.9 3.2 61 205-265 1-72 (205)
222 COG3355 Predicted transcriptio 94.1 0.086 1.9E-06 40.6 4.3 69 13-94 7-76 (126)
223 PRK11050 manganese transport r 94.1 0.072 1.6E-06 42.6 4.0 58 45-116 42-99 (152)
224 smart00344 HTH_ASNC helix_turn 93.9 0.074 1.6E-06 39.5 3.7 46 41-92 4-49 (108)
225 TIGR01884 cas_HTH CRISPR locus 93.8 0.086 1.9E-06 44.1 4.3 60 41-112 144-203 (203)
226 PRK05031 tRNA (uracil-5-)-meth 93.8 0.05 1.1E-06 49.8 3.1 51 203-255 208-265 (362)
227 TIGR00006 S-adenosyl-methyltra 93.8 0.19 4E-06 44.9 6.4 65 190-255 10-80 (305)
228 TIGR00738 rrf2_super rrf2 fami 93.7 0.097 2.1E-06 40.4 4.1 45 56-110 25-69 (132)
229 KOG3191 Predicted N6-DNA-methy 93.7 0.12 2.6E-06 42.4 4.6 65 202-266 44-117 (209)
230 TIGR02143 trmA_only tRNA (urac 93.6 0.084 1.8E-06 48.1 4.1 51 203-255 199-256 (353)
231 COG4742 Predicted transcriptio 93.5 0.093 2E-06 45.5 4.0 67 36-118 9-75 (260)
232 TIGR00446 nop2p NOL1/NOP2/sun 93.5 0.16 3.5E-06 44.3 5.5 66 200-265 70-146 (264)
233 COG1321 TroR Mn-dependent tran 93.5 0.12 2.7E-06 41.3 4.4 57 46-116 16-72 (154)
234 cd00090 HTH_ARSR Arsenical Res 93.4 0.13 2.8E-06 34.7 3.9 57 42-110 9-65 (78)
235 KOG2361 Predicted methyltransf 93.4 0.076 1.6E-06 45.4 3.1 64 202-265 72-150 (264)
236 PF07381 DUF1495: Winged helix 93.4 0.16 3.5E-06 36.8 4.4 69 39-116 8-87 (90)
237 PF01638 HxlR: HxlR-like helix 93.3 0.07 1.5E-06 38.6 2.4 65 44-117 9-74 (90)
238 PLN02589 caffeoyl-CoA O-methyl 93.2 0.076 1.6E-06 46.0 2.9 67 199-265 77-162 (247)
239 COG4976 Predicted methyltransf 93.2 0.085 1.9E-06 44.9 3.1 66 174-242 95-165 (287)
240 PF04967 HTH_10: HTH DNA bindi 93.1 0.16 3.4E-06 33.0 3.6 42 33-83 5-46 (53)
241 COG4189 Predicted transcriptio 93.0 0.16 3.5E-06 43.1 4.5 55 34-94 17-71 (308)
242 PRK06266 transcription initiat 92.9 0.23 5E-06 40.8 5.3 45 43-93 25-69 (178)
243 COG2519 GCD14 tRNA(1-methylade 92.9 0.38 8.2E-06 41.5 6.7 84 181-265 71-169 (256)
244 PF07091 FmrO: Ribosomal RNA m 92.9 0.4 8.7E-06 41.4 6.8 65 201-265 105-177 (251)
245 PF06080 DUF938: Protein of un 92.8 0.21 4.6E-06 41.8 4.9 37 199-235 22-59 (204)
246 TIGR01889 Staph_reg_Sar staphy 92.7 0.17 3.6E-06 37.9 3.9 70 41-116 26-97 (109)
247 PRK04338 N(2),N(2)-dimethylgua 92.6 0.12 2.5E-06 47.7 3.5 64 202-265 58-131 (382)
248 TIGR00122 birA_repr_reg BirA b 92.6 0.21 4.6E-06 34.0 4.0 45 42-93 2-46 (69)
249 PF08461 HTH_12: Ribonuclease 92.5 0.18 3.9E-06 34.3 3.5 61 45-114 3-64 (66)
250 COG0293 FtsJ 23S rRNA methylas 92.3 0.6 1.3E-05 39.2 7.0 67 185-255 29-96 (205)
251 PRK11783 rlmL 23S rRNA m(2)G24 92.2 0.4 8.6E-06 47.8 6.9 75 190-265 179-309 (702)
252 PF02475 Met_10: Met-10+ like- 92.2 0.17 3.7E-06 42.4 3.7 67 199-265 99-175 (200)
253 COG4122 Predicted O-methyltran 92.1 0.16 3.5E-06 43.1 3.5 67 199-265 57-138 (219)
254 PRK15431 ferrous iron transpor 92.1 0.23 5E-06 34.9 3.6 43 45-93 7-49 (78)
255 PRK10870 transcriptional repre 91.6 0.27 5.9E-06 40.2 4.2 69 43-117 58-126 (176)
256 PF01325 Fe_dep_repress: Iron 91.4 0.22 4.7E-06 33.2 2.8 34 56-93 22-55 (60)
257 PRK03573 transcriptional regul 91.4 0.37 8E-06 37.8 4.7 65 45-116 36-100 (144)
258 COG5459 Predicted rRNA methyla 91.3 0.22 4.8E-06 45.0 3.5 69 196-265 109-188 (484)
259 COG4190 Predicted transcriptio 91.3 0.32 6.8E-06 37.6 3.9 52 36-93 60-111 (144)
260 TIGR00373 conserved hypothetic 91.3 0.27 5.9E-06 39.5 3.8 45 43-93 17-61 (158)
261 KOG4589 Cell division protein 91.2 0.43 9.3E-06 39.4 4.8 44 194-237 62-106 (232)
262 PRK11014 transcriptional repre 91.1 0.36 7.9E-06 37.9 4.3 45 56-110 25-69 (141)
263 PRK06474 hypothetical protein; 90.9 0.42 9E-06 39.2 4.7 76 35-115 6-82 (178)
264 smart00529 HTH_DTXR Helix-turn 90.9 0.24 5.2E-06 35.8 2.9 46 59-116 2-47 (96)
265 TIGR01610 phage_O_Nterm phage 90.8 0.47 1E-05 34.7 4.4 43 56-109 47-89 (95)
266 KOG2730 Methylase [General fun 90.7 0.41 8.9E-06 40.5 4.4 53 201-255 94-154 (263)
267 COG2384 Predicted SAM-dependen 90.6 1.1 2.5E-05 37.8 7.0 65 201-265 16-91 (226)
268 COG3432 Predicted transcriptio 90.6 0.15 3.2E-06 37.3 1.5 62 45-117 20-83 (95)
269 PF02527 GidB: rRNA small subu 90.3 0.34 7.4E-06 40.0 3.7 61 204-265 51-121 (184)
270 COG0357 GidB Predicted S-adeno 90.3 0.3 6.4E-06 41.4 3.3 33 202-234 68-100 (215)
271 PRK14165 winged helix-turn-hel 90.2 0.32 7E-06 41.2 3.5 60 47-117 14-73 (217)
272 PRK11179 DNA-binding transcrip 90.2 0.39 8.4E-06 38.3 3.8 47 41-93 10-56 (153)
273 PF10007 DUF2250: Uncharacteri 90.2 0.36 7.8E-06 35.1 3.2 46 42-93 9-54 (92)
274 PF02002 TFIIE_alpha: TFIIE al 90.0 0.26 5.6E-06 36.6 2.5 43 45-93 18-60 (105)
275 PF00325 Crp: Bacterial regula 90.0 0.23 5.1E-06 28.7 1.7 31 56-90 2-32 (32)
276 PF06163 DUF977: Bacterial pro 89.8 0.55 1.2E-05 36.0 4.1 50 38-93 10-59 (127)
277 COG3963 Phospholipid N-methylt 89.6 1.7 3.7E-05 35.3 6.9 70 185-255 33-105 (194)
278 COG0275 Predicted S-adenosylme 89.6 0.9 1.9E-05 40.3 5.8 65 190-255 13-84 (314)
279 PRK11169 leucine-responsive tr 89.2 0.44 9.6E-06 38.4 3.5 47 40-92 14-60 (164)
280 cd07377 WHTH_GntR Winged helix 89.2 0.85 1.8E-05 30.0 4.4 33 57-93 26-58 (66)
281 COG4565 CitB Response regulato 89.2 0.77 1.7E-05 38.6 4.8 59 45-108 163-221 (224)
282 COG4076 Predicted RNA methylas 88.9 0.92 2E-05 37.6 5.0 60 203-264 34-101 (252)
283 KOG1661 Protein-L-isoaspartate 88.8 0.66 1.4E-05 39.0 4.2 66 199-264 80-167 (237)
284 PF08704 GCD14: tRNA methyltra 88.7 2 4.2E-05 37.2 7.3 89 176-265 12-119 (247)
285 PF08279 HTH_11: HTH domain; 88.7 0.62 1.3E-05 30.0 3.3 40 44-88 4-43 (55)
286 PLN02853 Probable phenylalanyl 88.4 0.45 9.8E-06 45.0 3.4 70 40-121 3-73 (492)
287 PF13545 HTH_Crp_2: Crp-like h 88.4 0.44 9.5E-06 32.8 2.6 34 56-93 28-61 (76)
288 PRK04172 pheS phenylalanyl-tRN 88.4 0.41 8.9E-06 45.7 3.1 68 41-120 7-74 (489)
289 smart00345 HTH_GNTR helix_turn 88.3 0.67 1.5E-05 29.9 3.3 34 56-93 19-53 (60)
290 PHA02943 hypothetical protein; 88.3 0.66 1.4E-05 36.8 3.7 43 44-93 15-57 (165)
291 PF09243 Rsm22: Mitochondrial 88.0 1 2.3E-05 39.5 5.3 44 194-238 27-72 (274)
292 PF04182 B-block_TFIIIC: B-blo 87.5 0.65 1.4E-05 32.3 3.0 49 41-93 3-51 (75)
293 cd07153 Fur_like Ferric uptake 87.4 0.79 1.7E-05 34.4 3.6 51 42-93 3-54 (116)
294 PF01726 LexA_DNA_bind: LexA D 87.4 0.75 1.6E-05 31.2 3.1 35 56-93 25-59 (65)
295 COG1846 MarR Transcriptional r 87.2 0.78 1.7E-05 34.1 3.5 71 39-117 21-91 (126)
296 PRK13777 transcriptional regul 87.1 0.94 2E-05 37.4 4.2 65 44-116 49-113 (185)
297 COG1733 Predicted transcriptio 87.0 1.8 3.8E-05 33.1 5.4 81 18-116 10-91 (120)
298 COG1522 Lrp Transcriptional re 86.5 0.91 2E-05 35.8 3.7 47 41-93 9-55 (154)
299 PF14394 DUF4423: Domain of un 86.5 1.2 2.5E-05 36.4 4.4 64 30-114 22-87 (171)
300 COG1352 CheR Methylase of chem 85.9 8.5 0.00018 33.7 9.7 66 201-266 96-209 (268)
301 TIGR00498 lexA SOS regulatory 85.6 1.3 2.8E-05 36.7 4.4 49 41-93 7-59 (199)
302 PF03291 Pox_MCEL: mRNA cappin 85.5 1.9 4.2E-05 39.0 5.7 78 174-255 38-132 (331)
303 PRK10742 putative methyltransf 85.2 1.9 4E-05 37.4 5.2 73 190-265 76-170 (250)
304 PF13404 HTH_AsnC-type: AsnC-t 85.1 0.99 2.1E-05 27.7 2.6 34 41-80 4-37 (42)
305 PRK05638 threonine synthase; V 84.9 0.98 2.1E-05 42.5 3.6 64 42-116 373-438 (442)
306 PTZ00326 phenylalanyl-tRNA syn 84.8 1.1 2.3E-05 42.7 3.8 70 40-121 6-76 (494)
307 PF04672 Methyltransf_19: S-ad 84.6 1.5 3.2E-05 38.4 4.3 56 201-256 68-133 (267)
308 COG1378 Predicted transcriptio 84.1 1.9 4.2E-05 37.3 4.8 59 43-113 19-77 (247)
309 PRK13509 transcriptional repre 83.7 1.3 2.9E-05 38.3 3.7 46 42-93 7-52 (251)
310 PF03602 Cons_hypoth95: Conser 83.0 0.67 1.5E-05 38.2 1.5 64 201-265 42-120 (183)
311 PF04072 LCM: Leucine carboxyl 82.6 3.7 8E-05 33.6 5.8 80 176-255 53-141 (183)
312 PF07789 DUF1627: Protein of u 82.5 1.7 3.7E-05 34.3 3.4 45 56-109 6-50 (155)
313 PF05584 Sulfolobus_pRN: Sulfo 82.4 2.4 5.2E-05 29.3 3.8 43 44-93 9-51 (72)
314 COG0116 Predicted N6-adenine-s 82.4 4 8.6E-05 37.5 6.3 68 198-265 188-305 (381)
315 PF03141 Methyltransf_29: Puta 82.1 1.3 2.7E-05 42.0 3.1 24 200-223 116-139 (506)
316 PF08221 HTH_9: RNA polymerase 81.9 1.2 2.6E-05 29.8 2.2 43 45-93 18-60 (62)
317 PF08784 RPA_C: Replication pr 81.8 1.6 3.4E-05 32.1 3.0 49 41-93 48-98 (102)
318 TIGR00308 TRM1 tRNA(guanine-26 81.6 1.5 3.3E-05 40.3 3.5 63 203-265 46-120 (374)
319 PF05732 RepL: Firmicute plasm 81.5 1.6 3.4E-05 35.4 3.1 44 56-111 75-118 (165)
320 PRK04214 rbn ribonuclease BN/u 80.9 2.3 4.9E-05 39.7 4.4 44 55-110 309-352 (412)
321 PF03444 HrcA_DNA-bdg: Winged 80.8 3.5 7.6E-05 29.0 4.2 49 55-113 22-70 (78)
322 PRK10906 DNA-binding transcrip 80.6 1.7 3.8E-05 37.6 3.3 47 41-93 6-52 (252)
323 COG1510 Predicted transcriptio 80.5 1.7 3.8E-05 35.2 3.0 35 55-93 40-74 (177)
324 PRK11886 bifunctional biotin-- 79.8 2.6 5.7E-05 37.7 4.3 45 42-92 6-50 (319)
325 PRK09802 DNA-binding transcrip 79.8 1.9 4.2E-05 37.7 3.3 47 41-93 18-64 (269)
326 TIGR02787 codY_Gpos GTP-sensin 79.6 2.4 5.2E-05 36.4 3.7 44 44-93 187-231 (251)
327 PRK10434 srlR DNA-bindng trans 79.5 1.9 4.1E-05 37.5 3.2 47 41-93 6-52 (256)
328 PF04445 SAM_MT: Putative SAM- 79.5 2.6 5.7E-05 36.1 3.9 73 190-265 63-157 (234)
329 TIGR03439 methyl_EasF probable 79.4 7.9 0.00017 34.8 7.2 63 190-255 68-143 (319)
330 PF12793 SgrR_N: Sugar transpo 79.4 2 4.4E-05 32.5 2.9 35 56-94 19-53 (115)
331 PF04989 CmcI: Cephalosporin h 79.2 3.7 8E-05 34.5 4.7 55 201-255 32-96 (206)
332 COG3413 Predicted DNA binding 79.0 2.4 5.2E-05 35.7 3.6 43 31-82 158-200 (215)
333 PF13730 HTH_36: Helix-turn-he 78.8 2.2 4.7E-05 27.3 2.6 29 58-90 27-55 (55)
334 COG5631 Predicted transcriptio 78.6 7.5 0.00016 31.3 5.9 78 27-113 63-147 (199)
335 COG2512 Predicted membrane-ass 78.3 2.1 4.6E-05 37.3 3.1 48 42-94 197-244 (258)
336 PF00392 GntR: Bacterial regul 78.1 2.3 4.9E-05 28.3 2.6 34 56-93 23-57 (64)
337 PRK09954 putative kinase; Prov 78.0 3.2 6.9E-05 37.7 4.3 44 42-91 5-48 (362)
338 PF01739 CheR: CheR methyltran 77.9 4.6 0.0001 33.6 4.9 66 201-266 31-143 (196)
339 COG3897 Predicted methyltransf 77.6 7.9 0.00017 32.4 6.0 65 199-265 77-148 (218)
340 COG1675 TFA1 Transcription ini 77.1 3.2 6.9E-05 34.0 3.6 45 43-93 21-65 (176)
341 PRK10411 DNA-binding transcrip 76.9 3.9 8.5E-05 35.1 4.4 46 42-93 6-51 (240)
342 smart00531 TFIIE Transcription 76.9 3.1 6.8E-05 32.9 3.5 42 43-90 4-45 (147)
343 KOG4058 Uncharacterized conser 76.8 2.3 5E-05 33.9 2.6 68 190-259 62-138 (199)
344 TIGR02147 Fsuc_second hypothet 76.8 3.9 8.5E-05 35.9 4.3 46 56-113 137-184 (271)
345 COG2521 Predicted archaeal met 76.6 3.5 7.7E-05 35.4 3.8 65 200-264 133-210 (287)
346 TIGR02987 met_A_Alw26 type II 76.3 2.5 5.4E-05 40.6 3.3 55 201-255 31-100 (524)
347 PF12324 HTH_15: Helix-turn-he 76.2 2.2 4.7E-05 29.9 2.1 35 45-85 29-63 (77)
348 PRK11753 DNA-binding transcrip 76.1 3.1 6.7E-05 34.3 3.4 34 56-93 168-201 (211)
349 PRK10046 dpiA two-component re 76.0 4.7 0.0001 33.8 4.6 45 44-93 166-210 (225)
350 PRK04424 fatty acid biosynthes 75.5 2.1 4.5E-05 35.3 2.2 47 41-93 8-54 (185)
351 PF11312 DUF3115: Protein of u 75.4 14 0.0003 33.1 7.3 38 202-239 87-147 (315)
352 PF06969 HemN_C: HemN C-termin 75.2 3.9 8.4E-05 27.2 3.1 45 56-113 20-65 (66)
353 TIGR03433 padR_acidobact trans 75.2 6.3 0.00014 28.9 4.5 70 44-116 8-81 (100)
354 PHA02701 ORF020 dsRNA-binding 75.1 4.3 9.4E-05 33.3 3.8 49 40-93 4-52 (183)
355 PRK11161 fumarate/nitrate redu 74.7 3 6.5E-05 35.2 3.0 34 56-93 184-217 (235)
356 PRK09775 putative DNA-binding 73.8 4.4 9.4E-05 38.2 4.1 52 45-110 5-56 (442)
357 PF05219 DREV: DREV methyltran 73.7 4.1 8.9E-05 35.5 3.6 60 201-263 94-155 (265)
358 COG1497 Predicted transcriptio 73.6 4.2 9.1E-05 34.9 3.5 61 43-117 13-74 (260)
359 PF00165 HTH_AraC: Bacterial r 73.6 2.4 5.2E-05 25.6 1.6 27 56-86 8-34 (42)
360 KOG1709 Guanidinoacetate methy 73.2 15 0.00033 31.3 6.7 60 200-259 100-167 (271)
361 PF00126 HTH_1: Bacterial regu 73.0 5.5 0.00012 26.1 3.4 54 42-112 3-59 (60)
362 TIGR03697 NtcA_cyano global ni 72.7 4.2 9.2E-05 32.9 3.4 34 56-93 143-176 (193)
363 PF05206 TRM13: Methyltransfer 72.5 6.4 0.00014 34.3 4.6 36 199-234 16-56 (259)
364 PF09821 AAA_assoc_C: C-termin 72.2 2.9 6.2E-05 32.0 2.1 46 61-119 2-47 (120)
365 PF02796 HTH_7: Helix-turn-hel 72.2 5 0.00011 24.8 2.8 23 56-82 21-43 (45)
366 COG1349 GlpR Transcriptional r 72.1 3.7 8E-05 35.6 3.0 46 42-93 7-52 (253)
367 PF10771 DUF2582: Protein of u 71.0 5.4 0.00012 27.0 2.9 43 45-93 13-55 (65)
368 PF09929 DUF2161: Uncharacteri 70.7 5.9 0.00013 30.1 3.4 59 32-113 57-115 (118)
369 COG2265 TrmA SAM-dependent met 70.4 8.4 0.00018 36.2 5.1 64 200-265 292-368 (432)
370 PF05331 DUF742: Protein of un 70.3 6 0.00013 30.0 3.4 34 56-93 55-88 (114)
371 KOG1975 mRNA cap methyltransfe 70.1 7.2 0.00016 35.1 4.3 72 174-255 99-183 (389)
372 KOG2187 tRNA uracil-5-methyltr 70.0 3.8 8.3E-05 38.9 2.8 55 199-255 381-445 (534)
373 PF02384 N6_Mtase: N-6 DNA Met 69.8 8.8 0.00019 34.0 5.0 67 199-265 44-131 (311)
374 PF14338 Mrr_N: Mrr N-terminal 69.8 13 0.00029 26.6 5.1 32 79-118 59-90 (92)
375 PF08280 HTH_Mga: M protein tr 69.3 7 0.00015 25.6 3.2 40 40-85 5-44 (59)
376 TIGR02698 CopY_TcrY copper tra 69.0 10 0.00022 29.3 4.6 47 41-93 5-55 (130)
377 PRK13918 CRP/FNR family transc 69.0 5 0.00011 32.8 3.0 34 56-93 149-182 (202)
378 TIGR01321 TrpR trp operon repr 68.6 6.6 0.00014 28.7 3.2 40 39-85 41-80 (94)
379 KOG2651 rRNA adenine N-6-methy 68.4 9.5 0.00021 35.1 4.8 46 192-238 144-189 (476)
380 PF05891 Methyltransf_PK: AdoM 68.2 4.6 9.9E-05 34.2 2.6 64 201-265 55-128 (218)
381 PF05958 tRNA_U5-meth_tr: tRNA 68.1 5.4 0.00012 36.4 3.3 47 204-252 199-252 (352)
382 PF13384 HTH_23: Homeodomain-l 67.6 4.1 8.9E-05 25.4 1.8 39 42-88 7-45 (50)
383 KOG0822 Protein kinase inhibit 67.6 14 0.00031 35.4 5.9 94 163-263 334-443 (649)
384 PF02636 Methyltransf_28: Puta 67.5 6.6 0.00014 33.8 3.6 33 202-234 19-59 (252)
385 TIGR02844 spore_III_D sporulat 67.5 6.2 0.00014 27.9 2.8 32 43-81 9-40 (80)
386 PRK09391 fixK transcriptional 67.0 6.6 0.00014 33.2 3.4 34 56-93 179-212 (230)
387 TIGR03879 near_KaiC_dom probab 66.9 5.7 0.00012 27.6 2.5 33 56-92 32-64 (73)
388 PF02295 z-alpha: Adenosine de 66.9 5.2 0.00011 27.1 2.2 60 41-110 5-64 (66)
389 PRK10736 hypothetical protein; 66.0 7.6 0.00016 35.7 3.8 44 43-93 311-354 (374)
390 PRK09462 fur ferric uptake reg 65.9 9.7 0.00021 30.0 4.0 53 41-93 18-71 (148)
391 PRK00135 scpB segregation and 65.9 10 0.00022 31.4 4.2 42 43-93 93-134 (188)
392 PRK10611 chemotaxis methyltran 65.9 17 0.00037 32.2 5.9 65 201-265 115-229 (287)
393 COG1725 Predicted transcriptio 65.4 8.2 0.00018 29.7 3.3 35 56-94 35-69 (125)
394 PF13518 HTH_28: Helix-turn-he 65.2 9.9 0.00021 23.6 3.3 29 57-89 13-41 (52)
395 PRK11511 DNA-binding transcrip 64.6 9.3 0.0002 29.2 3.6 58 46-117 15-72 (127)
396 KOG1331 Predicted methyltransf 64.5 9.7 0.00021 33.6 4.0 55 201-259 45-101 (293)
397 PF03514 GRAS: GRAS domain fam 64.2 8.5 0.00018 35.4 3.8 45 190-235 100-151 (374)
398 PRK10402 DNA-binding transcrip 63.7 7.2 0.00016 32.8 3.1 34 56-93 169-202 (226)
399 PRK01381 Trp operon repressor; 63.6 9.3 0.0002 28.2 3.1 40 40-86 42-81 (99)
400 PF13814 Replic_Relax: Replica 63.5 9.7 0.00021 31.0 3.7 64 48-117 3-71 (191)
401 COG1088 RfbB dTDP-D-glucose 4, 63.5 16 0.00034 32.7 5.1 48 208-255 5-62 (340)
402 PRK10219 DNA-binding transcrip 63.1 11 0.00024 27.6 3.6 34 56-93 21-54 (107)
403 COG3398 Uncharacterized protei 63.0 29 0.00062 29.5 6.3 50 38-93 99-148 (240)
404 TIGR03826 YvyF flagellar opero 62.9 9 0.0002 30.0 3.2 35 44-82 34-68 (137)
405 PRK10430 DNA-binding transcrip 62.8 15 0.00033 30.9 4.9 34 56-93 178-211 (239)
406 PRK09334 30S ribosomal protein 62.7 7.2 0.00016 28.0 2.4 34 56-93 41-74 (86)
407 PLN02668 indole-3-acetate carb 62.0 16 0.00035 33.8 5.2 34 201-234 63-111 (386)
408 KOG1562 Spermidine synthase [A 61.9 4.3 9.3E-05 36.0 1.3 65 200-265 120-201 (337)
409 PRK11534 DNA-binding transcrip 61.9 9.3 0.0002 32.1 3.4 35 55-93 29-63 (224)
410 PF11972 HTH_13: HTH DNA bindi 61.9 15 0.00032 23.9 3.5 36 45-86 4-39 (54)
411 PRK11642 exoribonuclease R; Pr 61.5 11 0.00024 38.3 4.4 49 44-93 23-71 (813)
412 TIGR00027 mthyl_TIGR00027 meth 61.2 15 0.00032 32.0 4.6 55 200-255 80-143 (260)
413 PRK12423 LexA repressor; Provi 61.0 14 0.0003 30.8 4.2 35 56-93 25-59 (202)
414 PF01475 FUR: Ferric uptake re 60.9 6.7 0.00015 29.5 2.2 66 40-110 8-74 (120)
415 PRK13239 alkylmercury lyase; P 60.6 9.7 0.00021 32.0 3.2 41 41-87 23-63 (206)
416 PHA02591 hypothetical protein; 60.6 12 0.00026 26.2 3.1 31 45-82 51-81 (83)
417 COG0640 ArsR Predicted transcr 60.4 15 0.00033 25.6 3.9 53 35-93 20-72 (110)
418 PF06406 StbA: StbA protein; 60.0 23 0.00049 31.7 5.7 62 175-236 246-309 (318)
419 PHA03103 double-strand RNA-bin 59.9 13 0.00028 30.6 3.7 44 44-93 17-60 (183)
420 TIGR02719 repress_PhaQ poly-be 59.7 29 0.00063 27.2 5.5 82 32-116 16-99 (138)
421 PF03551 PadR: Transcriptional 59.6 7.8 0.00017 26.5 2.1 66 46-114 2-71 (75)
422 PF13936 HTH_38: Helix-turn-he 59.2 13 0.00027 22.9 2.8 23 56-82 20-42 (44)
423 TIGR00635 ruvB Holliday juncti 58.9 10 0.00023 33.3 3.3 34 56-93 255-289 (305)
424 PRK11639 zinc uptake transcrip 58.8 14 0.00031 29.8 3.9 53 40-93 26-79 (169)
425 KOG4300 Predicted methyltransf 58.8 21 0.00045 30.3 4.7 63 201-264 76-150 (252)
426 TIGR03338 phnR_burk phosphonat 58.3 12 0.00026 31.0 3.5 34 56-93 34-67 (212)
427 PF11994 DUF3489: Protein of u 57.5 20 0.00043 24.8 3.7 42 45-92 15-58 (72)
428 PF10668 Phage_terminase: Phag 57.4 11 0.00025 25.0 2.5 21 56-80 22-42 (60)
429 KOG2165 Anaphase-promoting com 57.2 12 0.00026 36.9 3.6 47 56-110 616-662 (765)
430 COG1802 GntR Transcriptional r 57.2 14 0.00031 31.1 3.8 47 55-113 38-84 (230)
431 COG1565 Uncharacterized conser 57.2 27 0.00059 31.9 5.6 59 171-234 52-118 (370)
432 smart00753 PAM PCI/PINT associ 57.1 26 0.00056 24.5 4.6 51 36-92 6-56 (88)
433 smart00088 PINT motif in prote 57.1 26 0.00056 24.5 4.6 51 36-92 6-56 (88)
434 PF00356 LacI: Bacterial regul 56.8 7.6 0.00016 24.3 1.5 11 58-68 1-11 (46)
435 COG3315 O-Methyltransferase in 56.7 9.9 0.00021 33.8 2.8 76 180-259 73-159 (297)
436 PF01418 HTH_6: Helix-turn-hel 55.7 13 0.00028 25.8 2.7 32 56-91 34-65 (77)
437 PF14314 Methyltrans_Mon: Viru 55.6 24 0.00052 35.0 5.4 51 181-233 304-357 (675)
438 PF01861 DUF43: Protein of unk 55.6 18 0.00039 31.2 4.0 63 201-264 44-117 (243)
439 KOG2793 Putative N2,N2-dimethy 55.6 15 0.00032 31.8 3.6 43 199-242 83-126 (248)
440 PRK11414 colanic acid/biofilm 55.6 14 0.00031 30.8 3.5 35 55-93 33-67 (221)
441 PF03297 Ribosomal_S25: S25 ri 55.4 10 0.00022 28.3 2.2 34 56-93 59-92 (105)
442 PF13578 Methyltransf_24: Meth 55.3 7.2 0.00016 28.4 1.4 60 206-265 1-75 (106)
443 PF09681 Phage_rep_org_N: N-te 55.3 15 0.00033 28.1 3.2 47 55-113 52-98 (121)
444 PF02319 E2F_TDP: E2F/DP famil 55.2 8.8 0.00019 26.3 1.8 37 55-93 23-62 (71)
445 COG0742 N6-adenine-specific me 54.5 40 0.00086 27.9 5.8 64 201-265 43-120 (187)
446 PF14502 HTH_41: Helix-turn-he 54.5 21 0.00045 22.6 3.2 34 56-93 6-39 (48)
447 PF04433 SWIRM: SWIRM domain; 54.4 49 0.0011 23.3 5.6 54 34-91 31-85 (86)
448 PF03428 RP-C: Replication pro 54.4 14 0.00031 30.2 3.1 33 57-93 71-104 (177)
449 smart00342 HTH_ARAC helix_turn 54.0 14 0.00031 24.9 2.7 30 56-89 1-30 (84)
450 COG0735 Fur Fe2+/Zn2+ uptake r 53.9 15 0.00033 28.9 3.2 52 41-93 22-74 (145)
451 PF06971 Put_DNA-bind_N: Putat 53.8 6 0.00013 25.3 0.7 33 43-79 15-47 (50)
452 KOG3924 Putative protein methy 53.6 15 0.00033 33.9 3.4 72 193-265 185-278 (419)
453 COG4367 Uncharacterized protei 53.5 13 0.00028 26.7 2.3 25 56-84 23-47 (97)
454 COG2390 DeoR Transcriptional r 52.3 14 0.00031 33.2 3.1 34 56-93 26-59 (321)
455 PRK00215 LexA repressor; Valid 51.7 26 0.00057 29.0 4.4 35 56-93 23-57 (205)
456 PF04492 Phage_rep_O: Bacterio 51.7 18 0.00039 26.7 3.0 34 56-93 54-87 (100)
457 COG1654 BirA Biotin operon rep 51.7 19 0.00041 25.4 3.0 46 56-112 19-64 (79)
458 TIGR01764 excise DNA binding d 51.0 14 0.00031 22.3 2.1 28 57-92 2-29 (49)
459 TIGR02063 RNase_R ribonuclease 50.8 21 0.00045 35.8 4.2 50 44-93 6-55 (709)
460 PF12692 Methyltransf_17: S-ad 50.5 1E+02 0.0022 24.6 7.2 56 175-233 5-60 (160)
461 COG2933 Predicted SAM-dependen 50.4 22 0.00049 31.2 3.8 56 201-258 211-266 (358)
462 TIGR00331 hrcA heat shock gene 50.2 23 0.00049 32.1 4.1 41 47-93 14-56 (337)
463 PF07848 PaaX: PaaX-like prote 50.1 18 0.00039 24.8 2.6 47 56-111 20-69 (70)
464 PF12728 HTH_17: Helix-turn-he 50.1 15 0.00032 23.0 2.1 22 57-82 2-23 (51)
465 KOG2918 Carboxymethyl transfer 49.9 23 0.00051 31.7 3.9 41 199-239 85-127 (335)
466 COG0500 SmtA SAM-dependent met 49.8 26 0.00056 25.7 3.9 50 205-255 52-109 (257)
467 PF13542 HTH_Tnp_ISL3: Helix-t 49.2 31 0.00068 21.4 3.6 35 41-83 16-50 (52)
468 PRK09464 pdhR transcriptional 49.1 19 0.00042 30.8 3.3 34 56-93 33-67 (254)
469 TIGR03329 Phn_aa_oxid putative 48.9 20 0.00043 33.7 3.7 34 203-236 25-60 (460)
470 PF05971 Methyltransf_10: Prot 48.8 20 0.00044 31.9 3.4 56 201-257 102-171 (299)
471 COG1092 Predicted SAM-dependen 48.7 13 0.00028 34.4 2.3 64 201-265 217-296 (393)
472 PF09904 HTH_43: Winged helix- 48.7 23 0.00049 25.6 3.0 56 47-110 15-70 (90)
473 COG2524 Predicted transcriptio 48.4 35 0.00076 29.8 4.6 49 56-114 25-73 (294)
474 PRK09990 DNA-binding transcrip 48.2 20 0.00042 30.7 3.2 34 56-93 30-64 (251)
475 cd04762 HTH_MerR-trunc Helix-T 48.2 16 0.00035 21.9 2.1 27 57-91 1-27 (49)
476 PF13443 HTH_26: Cro/C1-type H 48.0 14 0.00029 24.1 1.8 31 45-82 2-32 (63)
477 PRK13750 replication protein; 47.7 40 0.00087 29.1 4.8 56 34-94 74-134 (285)
478 PRK03601 transcriptional regul 47.7 20 0.00043 30.9 3.2 59 42-117 5-66 (275)
479 COG3398 Uncharacterized protei 47.4 36 0.00078 28.9 4.5 65 36-111 170-234 (240)
480 TIGR03474 incFII_RepA incFII f 46.8 43 0.00093 28.8 4.8 54 36-94 68-126 (275)
481 PF05158 RNA_pol_Rpc34: RNA po 46.4 18 0.0004 32.6 2.9 45 45-93 89-133 (327)
482 COG2520 Predicted methyltransf 46.3 21 0.00046 32.4 3.2 64 201-265 188-262 (341)
483 TIGR02812 fadR_gamma fatty aci 46.1 23 0.0005 29.9 3.3 34 56-93 29-63 (235)
484 PRK00082 hrcA heat-inducible t 45.8 34 0.00073 31.1 4.5 40 48-93 19-60 (339)
485 PRK10225 DNA-binding transcrip 45.7 23 0.00049 30.4 3.3 34 56-93 32-66 (257)
486 PRK04984 fatty acid metabolism 45.6 27 0.00058 29.5 3.7 34 56-93 30-64 (239)
487 PRK10681 DNA-binding transcrip 45.6 25 0.00055 30.3 3.5 42 41-88 8-49 (252)
488 PF03965 Penicillinase_R: Peni 45.5 21 0.00045 26.7 2.7 52 41-94 4-55 (115)
489 PRK15418 transcriptional regul 45.5 21 0.00046 32.0 3.1 34 56-93 29-62 (318)
490 PRK10421 DNA-binding transcrip 45.2 28 0.0006 29.8 3.7 34 56-93 25-59 (253)
491 COG2186 FadR Transcriptional r 44.9 28 0.00061 29.8 3.7 41 58-109 36-76 (241)
492 TIGR01714 phage_rep_org_N phag 44.9 33 0.00071 26.2 3.6 46 55-112 50-95 (119)
493 smart00421 HTH_LUXR helix_turn 44.7 30 0.00066 21.3 3.0 25 56-84 18-42 (58)
494 TIGR02404 trehalos_R_Bsub treh 44.5 24 0.00052 29.8 3.2 41 58-109 26-66 (233)
495 TIGR02325 C_P_lyase_phnF phosp 44.1 24 0.00053 29.7 3.2 42 58-110 34-75 (238)
496 PF10078 DUF2316: Uncharacteri 44.0 29 0.00062 25.1 3.0 30 47-83 17-46 (89)
497 PRK13917 plasmid segregation p 43.8 69 0.0015 29.0 6.2 44 191-236 281-324 (344)
498 PF04545 Sigma70_r4: Sigma-70, 43.6 19 0.00042 22.3 1.9 24 56-83 20-43 (50)
499 COG5340 Predicted transcriptio 43.5 27 0.00059 29.7 3.2 46 55-112 29-74 (269)
500 PRK14999 histidine utilization 43.5 24 0.00052 30.0 3.1 43 56-109 35-78 (241)
No 1
>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]
Probab=100.00 E-value=2.5e-34 Score=252.30 Aligned_cols=240 Identities=54% Similarity=0.885 Sum_probs=216.6
Q ss_pred cChHHHHHHHHHHhhhhHHHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCC-CCCCCcchHHHHHHHHhcCCcccccc
Q 046424 16 RDEQDFLLAMELASGAVLPMTIKSATELGLLEIMAKASPTQLSSSEIASQLPT-NNKKAPIILDRMLRLLASYSFLTCNL 94 (266)
Q Consensus 16 ~~~~~~~~l~~~~~g~~~~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~-~~~~~~~~l~rlLr~L~~~g~l~~~~ 94 (266)
++.....+++++++++..++++.+|+||||||+|.+++ + ..|||..+.. .+|.++..++|+||.|++.+++++..
T Consensus 2 ~e~~~~l~~~~l~~~~~~~~~lk~A~eL~v~d~l~~~~--~--p~~ia~~l~~~~~~~~p~ll~r~lr~L~s~~i~k~~~ 77 (342)
T KOG3178|consen 2 EENEASLRAMRLANGFALPMVLKAACELGVFDILANAG--S--PSEIASLLPTPKNPEAPVLLDRILRLLVSYSILKCRL 77 (342)
T ss_pred chhHHHHHHHHHHhhhhhHHHHHHHHHcChHHHHHhCC--C--HHHHHHhccCCCCCCChhHHHHHHHHHHHhhhceeee
Confidence 45667788999999999999999999999999999975 3 8888888874 24558889999999999999999873
Q ss_pred ccCCCCccccceecchhcccccCCCCCCChHHHHHHhcCchhhhhhhhHHHHHhcCCchhhhhccCCcchhccccChhHH
Q 046424 95 VSNKDGSVQRLYGLTPVSKYFVPNKDGVSLAPTLLIIQDQVNMDSWSCAKDALLEGSVPFMKAHNGMDGFAAAAKDERIN 174 (266)
Q Consensus 95 ~~~~~~~~~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~e~l~~g~~~f~~~~~g~~~~~~~~~~p~~~ 174 (266)
.. + + .|++++++++++.+.+..|++.+++..+.+..++.|.++.++++.+..+|..++ |+.+|+|...++...
T Consensus 78 ~~---~--~-~Y~~~~~~~~~l~~~~~~S~a~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~-G~~l~~~~~~~~~~~ 150 (342)
T KOG3178|consen 78 VG---G--E-VYSATPVCKYFLKDSGGGSLAPLVLLNTSKVIMNTWQFLKDAILEGGDAFATAH-GMMLGGYGGADERFS 150 (342)
T ss_pred ec---c--e-eeeccchhhhheecCCCCchhHHHHHhcccchhhhHHHHHHHHHhcccCCcccc-chhhhhhcccccccH
Confidence 11 1 3 899999999998776556899999888888999999999999999999999999 888999999988888
Q ss_pred HHHHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCCC-CCceEEeccC
Q 046424 175 NLFNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPSC-PGVEHVGGDM 253 (266)
Q Consensus 175 ~~f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~-~ri~~~~gD~ 253 (266)
..|+++|...+....+.+++.|.+|++..+.||||||.|..+..++..||+++++.+|+|.|++.++.. ++|+.+.|||
T Consensus 151 ~~~~~sm~~l~~~~~~~il~~~~Gf~~v~~avDvGgGiG~v~k~ll~~fp~ik~infdlp~v~~~a~~~~~gV~~v~gdm 230 (342)
T KOG3178|consen 151 KDFNGSMSFLSTLVMKKILEVYTGFKGVNVAVDVGGGIGRVLKNLLSKYPHIKGINFDLPFVLAAAPYLAPGVEHVAGDM 230 (342)
T ss_pred HHHHHHHHHHHHHHHHhhhhhhcccccCceEEEcCCcHhHHHHHHHHhCCCCceeecCHHHHHhhhhhhcCCcceecccc
Confidence 999999999998877888999988999999999999999999999999999999999999999999987 8999999999
Q ss_pred CCCCCCCCEEEeC
Q 046424 254 FVEVPKGQAIFMK 266 (266)
Q Consensus 254 f~~~P~~D~~~lk 266 (266)
|++.|.+|+||||
T Consensus 231 fq~~P~~daI~mk 243 (342)
T KOG3178|consen 231 FQDTPKGDAIWMK 243 (342)
T ss_pred cccCCCcCeEEEE
Confidence 9999999999996
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=99.97 E-value=1.6e-31 Score=230.30 Aligned_cols=162 Identities=29% Similarity=0.514 Sum_probs=144.2
Q ss_pred ccceecchhcccccCCCCCCChHHHHHHhcCchhhhhhhhHHHHHhcCCchhhhhccCCcchhccccChhHHHHHHHHHH
Q 046424 103 QRLYGLTPVSKYFVPNKDGVSLAPTLLIIQDQVNMDSWSCAKDALLEGSVPFMKAHNGMDGFAAAAKDERINNLFNQSMH 182 (266)
Q Consensus 103 ~~~y~~t~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~e~l~~g~~~f~~~~~g~~~~~~~~~~p~~~~~f~~~m~ 182 (266)
++.|++|++|+.|+.++++.++..++.+...+..+.+|.+|++++++|+++|+.++ |.++|+|++++|+..+.|+++|.
T Consensus 3 ~~~y~~t~~s~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~v~~g~~~~~~~~-g~~~~~~~~~~~~~~~~f~~~m~ 81 (241)
T PF00891_consen 3 GDRYSLTPLSELLLSDHSSPSMRGFVLFMISPELYPAWFRLTEAVRTGKPPFEKAF-GTPFFEYLEEDPELAKRFNAAMA 81 (241)
T ss_dssp TEEEEE-HHHHGGSTTTTTTHHHHHHHHHTCHHHHHGGGGHHHHHHHSS-HHHHHH-SS-HHHHHHCSHHHHHHHHHHHH
T ss_pred CCEEeChHHHHHHhCCCCcCcHHHHHHHhcCHHHHHHHHHHHhhhccCCCHHHHhc-CCcHHHhhhhChHHHHHHHHHHH
Confidence 68999999999999887655778888776678899999999999999999999999 88899999999999999999999
Q ss_pred hcchhhH-HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCCCCCceEEeccCCCCCCCCC
Q 046424 183 NHTTIVM-KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPSCPGVEHVGGDMFVEVPKGQ 261 (266)
Q Consensus 183 ~~~~~~~-~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~~ri~~~~gD~f~~~P~~D 261 (266)
..+.... +.+++.++ |++.++|||||||+|.++.+++++||++++|++|+|+|++.+++.+||++++||||+++|.+|
T Consensus 82 ~~~~~~~~~~~~~~~d-~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~v~~~~~~~~rv~~~~gd~f~~~P~~D 160 (241)
T PF00891_consen 82 EYSRLNAFDILLEAFD-FSGFKTVVDVGGGSGHFAIALARAYPNLRATVFDLPEVIEQAKEADRVEFVPGDFFDPLPVAD 160 (241)
T ss_dssp HHHHHHHHHHHHHHST-TTTSSEEEEET-TTSHHHHHHHHHSTTSEEEEEE-HHHHCCHHHTTTEEEEES-TTTCCSSES
T ss_pred hhhhcchhhhhhcccc-ccCccEEEeccCcchHHHHHHHHHCCCCcceeeccHhhhhccccccccccccccHHhhhcccc
Confidence 9998877 77888888 999999999999999999999999999999999999999988878999999999999999999
Q ss_pred EEEeC
Q 046424 262 AIFMK 266 (266)
Q Consensus 262 ~~~lk 266 (266)
+|+||
T Consensus 161 ~~~l~ 165 (241)
T PF00891_consen 161 VYLLR 165 (241)
T ss_dssp EEEEE
T ss_pred ceeee
Confidence 99985
No 3
>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU. Members of this protein family are the S-adenosylmethionine-depenedent C-20 methyltransferase BchU, part of the pathway of bacteriochlorophyll c production in photosynthetic green sulfur bacteria. The position modified by this enzyme represents the difference between bacteriochlorophylls c and d; strains lacking this protein can only produced bacteriochlorophyll d.
Probab=99.97 E-value=4e-30 Score=229.10 Aligned_cols=210 Identities=18% Similarity=0.303 Sum_probs=159.9
Q ss_pred hHHHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchh
Q 046424 32 VLPMTIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPV 111 (266)
Q Consensus 32 ~~~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~ 111 (266)
+..++|++|++|||||.|.+ | |.|++|||+++|+ +++.++|+||+|++.|+|++. +++|++|++
T Consensus 2 ~~~~~l~aa~~Lglfd~L~~-g--p~t~~eLA~~~~~----~~~~~~~lL~~L~~lgll~~~---------~~~y~~t~~ 65 (306)
T TIGR02716 2 IEFSCMKAAIELDLFSHMAE-G--PKDLATLAADTGS----VPPRLEMLLETLRQMRVINLE---------DGKWSLTEF 65 (306)
T ss_pred chHHHHHHHHHcCcHHHHhc-C--CCCHHHHHHHcCC----ChHHHHHHHHHHHhCCCeEec---------CCcEecchh
Confidence 45789999999999999987 4 9999999999999 999999999999999999986 688999999
Q ss_pred cccccCCCCCC---ChHHHHHHhcCchhhhhhhhHHHHHhcCCchhhhhccCCcchhccccChhHHHHHHHHHHhcchhh
Q 046424 112 SKYFVPNKDGV---SLAPTLLIIQDQVNMDSWSCAKDALLEGSVPFMKAHNGMDGFAAAAKDERINNLFNQSMHNHTTIV 188 (266)
Q Consensus 112 s~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~L~e~l~~g~~~f~~~~~g~~~~~~~~~~p~~~~~f~~~m~~~~~~~ 188 (266)
+..++.+.++. ++.++..+.. ......|.+|+++++. +++|... +++....++....|...+.......
T Consensus 66 ~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~r~-~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~ 137 (306)
T TIGR02716 66 ADYMFSPTPKEPNLHQTPVAKAMA-FLADDFYMGLSQAVRG-QKNFKGQ------VPYPPVTREDNLYFEEIHRSNAKFA 137 (306)
T ss_pred HHhhccCCccchhhhcCchHHHHH-HHHHHHHHhHHHHhcC-Ccccccc------cCCCCCCHHHHHhHHHHHHhcchhH
Confidence 99877665432 1123333321 1223578999999974 4444332 2222333333333443333444444
Q ss_pred HHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCCC-------CCceEEeccCCC-CCCCC
Q 046424 189 MKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPSC-------PGVEHVGGDMFV-EVPKG 260 (266)
Q Consensus 189 ~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~-------~ri~~~~gD~f~-~~P~~ 260 (266)
.+.+++.++ +++..+|||||||+|.+++.+++++|+++++++|+|++++.++++ +||+++.+|+|+ ++|.+
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 556777777 888899999999999999999999999999999999999876542 689999999997 67777
Q ss_pred CEEEeC
Q 046424 261 QAIFMK 266 (266)
Q Consensus 261 D~~~lk 266 (266)
|+|+++
T Consensus 217 D~v~~~ 222 (306)
T TIGR02716 217 DAVLFC 222 (306)
T ss_pred CEEEeE
Confidence 998864
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=98.94 E-value=1.1e-09 Score=70.82 Aligned_cols=51 Identities=51% Similarity=0.757 Sum_probs=42.1
Q ss_pred HHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHh
Q 046424 35 MTIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLA 85 (266)
Q Consensus 35 ~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~ 85 (266)
++|++|+||||||+|+..|.+++|++||+.++...+|.++..++|+||+|+
T Consensus 1 MaLk~aveLgI~dii~~~g~~~ls~~eia~~l~~~~p~~~~~L~RimR~L~ 51 (51)
T PF08100_consen 1 MALKCAVELGIPDIIHNAGGGPLSLSEIAARLPTSNPSAPPMLDRIMRLLV 51 (51)
T ss_dssp HHHHHHHHTTHHHHHHHHTTS-BEHHHHHHTSTCT-TTHHHHHHHHHHHHH
T ss_pred CcHHHHHHcCcHHHHHHcCCCCCCHHHHHHHcCCCCcchHHHHHHHHHHhC
Confidence 589999999999999988645999999999999324446778999999985
No 5
>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=98.69 E-value=2.6e-08 Score=74.98 Aligned_cols=64 Identities=20% Similarity=0.369 Sum_probs=53.4
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC-------CCCceEEeccC-CC-CCCCC-CEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS-------CPGVEHVGGDM-FV-EVPKG-QAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~-------~~ri~~~~gD~-f~-~~P~~-D~~~l 265 (266)
..+|+|||||+|.++..+++++|+.+++++|. |..++.++. .+||+++.+|+ +. +.+.. |+++.
T Consensus 2 ~~~vLDlGcG~G~~~~~l~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D~v~~ 76 (112)
T PF12847_consen 2 GGRVLDLGCGTGRLSIALARLFPGARVVGVDISPEMLEIARERAAEEGLSDRITFVQGDAEFDPDFLEPFDLVIC 76 (112)
T ss_dssp TCEEEEETTTTSHHHHHHHHHHTTSEEEEEESSHHHHHHHHHHHHHTTTTTTEEEEESCCHGGTTTSSCEEEEEE
T ss_pred CCEEEEEcCcCCHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECccccCcccCCCCCEEEE
Confidence 46899999999999999999999999999999 567776553 38999999999 44 45445 98875
No 6
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=98.52 E-value=2.9e-07 Score=76.16 Aligned_cols=72 Identities=22% Similarity=0.428 Sum_probs=58.1
Q ss_pred HHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEEeccCCCCCCCC-CEEE
Q 046424 193 LEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFVEVPKG-QAIF 264 (266)
Q Consensus 193 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~~~P~~-D~~~ 264 (266)
+..++ .....+|+|||||+|.++..+++++|+.+++++|. |+.++.++.+ ++|+++.+|...+++.. |+++
T Consensus 24 ~~~l~-~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~D~v~ 102 (187)
T PRK08287 24 LSKLE-LHRAKHLIDVGAGTGSVSIEAALQFPSLQVTAIERNPDALRLIKENRQRFGCGNIDIIPGEAPIELPGKADAIF 102 (187)
T ss_pred HHhcC-CCCCCEEEEECCcCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCeEEEecCchhhcCcCCCEEE
Confidence 34444 55678999999999999999999999999999999 5677766531 57999999987666655 9887
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
+
T Consensus 103 ~ 103 (187)
T PRK08287 103 I 103 (187)
T ss_pred E
Confidence 5
No 7
>PRK06922 hypothetical protein; Provisional
Probab=98.50 E-value=3.7e-07 Score=87.74 Aligned_cols=104 Identities=16% Similarity=0.142 Sum_probs=76.1
Q ss_pred CcchhccccChhHHHHHHHHHHhcchhh--HHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HH
Q 046424 161 MDGFAAAAKDERINNLFNQSMHNHTTIV--MKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VL 237 (266)
Q Consensus 161 ~~~~~~~~~~p~~~~~f~~~m~~~~~~~--~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi 237 (266)
..+|+++...++..++|...|....... .......++ +.+..+|+|||||+|.++..+++.+|+.+++++|+++ ++
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 5688888888877888877665533321 111223344 5567899999999999999999999999999999976 57
Q ss_pred hhCCCC-----CCceEEeccCCC-C--CCCC--CEEEe
Q 046424 238 KHAPSC-----PGVEHVGGDMFV-E--VPKG--QAIFM 265 (266)
Q Consensus 238 ~~a~~~-----~ri~~~~gD~f~-~--~P~~--D~~~l 265 (266)
+.++.. .+++++.+|..+ + +|.+ |++++
T Consensus 456 e~Ararl~~~g~~ie~I~gDa~dLp~~fedeSFDvVVs 493 (677)
T PRK06922 456 DTLKKKKQNEGRSWNVIKGDAINLSSSFEKESVDTIVY 493 (677)
T ss_pred HHHHHHhhhcCCCeEEEEcchHhCccccCCCCEEEEEE
Confidence 665532 467889999876 3 5543 99875
No 8
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=98.48 E-value=8.6e-07 Score=76.98 Aligned_cols=74 Identities=22% Similarity=0.296 Sum_probs=60.5
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCCCCceEEeccCCCCCCC-C-CEEEe
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSCPGVEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~~ri~~~~gD~f~~~P~-~-D~~~l 265 (266)
..+++.++ .....+|||||||+|.++..+++++|+.+++++|+ |..++.+++ .+++++.+|+.+..|. . |+++.
T Consensus 19 ~~ll~~l~-~~~~~~vLDlGcG~G~~~~~l~~~~p~~~v~gvD~s~~~~~~a~~-~~~~~~~~d~~~~~~~~~fD~v~~ 95 (255)
T PRK14103 19 YDLLARVG-AERARRVVDLGCGPGNLTRYLARRWPGAVIEALDSSPEMVAAARE-RGVDARTGDVRDWKPKPDTDVVVS 95 (255)
T ss_pred HHHHHhCC-CCCCCEEEEEcCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHh-cCCcEEEcChhhCCCCCCceEEEE
Confidence 46677776 56679999999999999999999999999999999 668887765 4799999998753333 3 99875
No 9
>COG4106 Tam Trans-aconitate methyltransferase [General function prediction only]
Probab=98.44 E-value=4.9e-07 Score=75.24 Aligned_cols=86 Identities=20% Similarity=0.314 Sum_probs=69.3
Q ss_pred HHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-CCceEEeccCC
Q 046424 177 FNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-PGVEHVGGDMF 254 (266)
Q Consensus 177 f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-~ri~~~~gD~f 254 (266)
|.++-...+.. +..++..++ ......|+|+|||.|.....|++++|+...+++|. |.+++.|+.. +.++|..+|.-
T Consensus 8 Yl~F~~eRtRP-a~dLla~Vp-~~~~~~v~DLGCGpGnsTelL~~RwP~A~i~GiDsS~~Mla~Aa~rlp~~~f~~aDl~ 85 (257)
T COG4106 8 YLQFEDERTRP-ARDLLARVP-LERPRRVVDLGCGPGNSTELLARRWPDAVITGIDSSPAMLAKAAQRLPDATFEEADLR 85 (257)
T ss_pred HHHHHHhccCc-HHHHHhhCC-ccccceeeecCCCCCHHHHHHHHhCCCCeEeeccCCHHHHHHHHHhCCCCceecccHh
Confidence 33333444443 467888888 78899999999999999999999999999999998 5688887654 88999999999
Q ss_pred CCCCCC--CEEE
Q 046424 255 VEVPKG--QAIF 264 (266)
Q Consensus 255 ~~~P~~--D~~~ 264 (266)
+..|.. |+++
T Consensus 86 ~w~p~~~~dllf 97 (257)
T COG4106 86 TWKPEQPTDLLF 97 (257)
T ss_pred hcCCCCccchhh
Confidence 977753 7654
No 10
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=98.38 E-value=2.4e-06 Score=74.12 Aligned_cols=76 Identities=26% Similarity=0.414 Sum_probs=61.4
Q ss_pred HHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-CCceEEeccCCCCCCC-C-CEEE
Q 046424 189 MKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-PGVEHVGGDMFVEVPK-G-QAIF 264 (266)
Q Consensus 189 ~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-~ri~~~~gD~f~~~P~-~-D~~~ 264 (266)
...+++.++ ..+..+|+|||||+|.++..+++.+|+.+++++|+ |..++.++.. ++++++.+|+.+..|. . |+++
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 346677766 66778999999999999999999999999999999 4577777654 6899999999763333 4 8887
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
.
T Consensus 99 ~ 99 (258)
T PRK01683 99 A 99 (258)
T ss_pred E
Confidence 4
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=98.36 E-value=8.1e-07 Score=70.89 Aligned_cols=65 Identities=18% Similarity=0.307 Sum_probs=53.0
Q ss_pred CCceEEEecCCccHHHHHHH-HHCCCCeEEEeech-HHHhhCCC------CCCceEEeccCCC-C--CCCC-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIV-SKYPQLRGINFDLP-HVLKHAPS------CPGVEHVGGDMFV-E--VPKG-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~-~~~P~l~~~v~Dlp-~vi~~a~~------~~ri~~~~gD~f~-~--~P~~-D~~~l 265 (266)
+..+|+|+|||+|.++..++ +.+|..+++++|+. ..++.++. .+++++..+|+++ + ++.. |+++.
T Consensus 3 ~~~~iLDlGcG~G~~~~~l~~~~~~~~~i~gvD~s~~~i~~a~~~~~~~~~~ni~~~~~d~~~l~~~~~~~~D~I~~ 79 (152)
T PF13847_consen 3 SNKKILDLGCGTGRLLIQLAKELNPGAKIIGVDISEEMIEYAKKRAKELGLDNIEFIQGDIEDLPQELEEKFDIIIS 79 (152)
T ss_dssp TTSEEEEET-TTSHHHHHHHHHSTTTSEEEEEESSHHHHHHHHHHHHHTTSTTEEEEESBTTCGCGCSSTTEEEEEE
T ss_pred CCCEEEEecCcCcHHHHHHHHhcCCCCEEEEEECcHHHHHHhhcccccccccccceEEeehhccccccCCCeeEEEE
Confidence 46899999999999999999 56899999999995 57777664 2689999999999 4 3344 98875
No 12
>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=98.35 E-value=1.7e-06 Score=72.79 Aligned_cols=66 Identities=12% Similarity=0.324 Sum_probs=56.5
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC-CCCceEEeccCCCCCCCC--CEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS-CPGVEHVGGDMFVEVPKG--QAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-~~ri~~~~gD~f~~~P~~--D~~~l 265 (266)
....+|+|||||+|..+..+++..|..+++++|+. +.++.+++ .+++++..+|++++++.+ |+++.
T Consensus 42 ~~~~~VLDiGCG~G~~~~~L~~~~~~~~v~giDiS~~~l~~A~~~~~~~~~~~~d~~~~~~~~sfD~V~~ 111 (204)
T TIGR03587 42 PKIASILELGANIGMNLAALKRLLPFKHIYGVEINEYAVEKAKAYLPNINIIQGSLFDPFKDNFFDLVLT 111 (204)
T ss_pred CCCCcEEEEecCCCHHHHHHHHhCCCCeEEEEECCHHHHHHHHhhCCCCcEEEeeccCCCCCCCEEEEEE
Confidence 35678999999999999999999999999999985 58888876 378999999999877654 99875
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=98.26 E-value=3e-06 Score=72.28 Aligned_cols=74 Identities=15% Similarity=0.203 Sum_probs=57.5
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHhhCCC------CCCceEEeccCCC-CCCCC-
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDL-PHVLKHAPS------CPGVEHVGGDMFV-EVPKG- 260 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gD~f~-~~P~~- 260 (266)
.++..++ .....+|||||||+|.++..+++.+ |+.+++++|+ |..++.++. .++++++.+|..+ ++|.+
T Consensus 36 ~~l~~l~-~~~~~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~ 114 (231)
T TIGR02752 36 DTMKRMN-VQAGTSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHGNAMELPFDDNS 114 (231)
T ss_pred HHHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHhcCCCceEEEEechhcCCCCCCC
Confidence 3445554 5566899999999999999999986 7889999999 456655543 2689999999988 66654
Q ss_pred -CEEEe
Q 046424 261 -QAIFM 265 (266)
Q Consensus 261 -D~~~l 265 (266)
|++++
T Consensus 115 fD~V~~ 120 (231)
T TIGR02752 115 FDYVTI 120 (231)
T ss_pred ccEEEE
Confidence 98875
No 14
>PRK04457 spermidine synthase; Provisional
Probab=98.22 E-value=1.7e-06 Score=75.49 Aligned_cols=65 Identities=18% Similarity=0.233 Sum_probs=55.7
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC-------CCCceEEeccCCC---CCCCC-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS-------CPGVEHVGGDMFV---EVPKG-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~-------~~ri~~~~gD~f~---~~P~~-D~~~l 265 (266)
.+++|+|||||.|.++..+++.+|+.+++++|+ |.|++.+++ .+|++++.+|..+ ..|.. |+|++
T Consensus 66 ~~~~vL~IG~G~G~l~~~l~~~~p~~~v~~VEidp~vi~~A~~~f~~~~~~~rv~v~~~Da~~~l~~~~~~yD~I~~ 142 (262)
T PRK04457 66 RPQHILQIGLGGGSLAKFIYTYLPDTRQTAVEINPQVIAVARNHFELPENGERFEVIEADGAEYIAVHRHSTDVILV 142 (262)
T ss_pred CCCEEEEECCCHhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHcCCCCCCCceEEEECCHHHHHHhCCCCCCEEEE
Confidence 568999999999999999999999999999999 889987764 2789999999865 34555 99875
No 15
>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=98.20 E-value=2.6e-06 Score=69.48 Aligned_cols=65 Identities=22% Similarity=0.307 Sum_probs=54.4
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEEeccCCCCCCC-C-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~~~P~-~-D~~~l 265 (266)
...+++|+|||+|..+..+++++|+.+++.+|.. ..++.++.+ +.++++..|.+++.+. . |+++.
T Consensus 31 ~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~v~~~~~d~~~~~~~~~fD~Iv~ 104 (170)
T PF05175_consen 31 KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLENVEVVQSDLFEALPDGKFDLIVS 104 (170)
T ss_dssp TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTTEEEEESSTTTTCCTTCEEEEEE
T ss_pred cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccccccccccccccccccceeEEEE
Confidence 4688999999999999999999999999999995 466665432 3499999999998774 4 99875
No 16
>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=98.19 E-value=3.1e-06 Score=72.71 Aligned_cols=66 Identities=17% Similarity=0.193 Sum_probs=54.0
Q ss_pred CCCceEEEecCCccHHHHHHHHH--CCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCC-CCCCCCEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSK--YPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFV-EVPKGQAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~--~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~-~~P~~D~~~l 265 (266)
....+|+|||||+|.++..++++ +|+.+++++|+ |.+++.++.. .+++++.+|+.+ +.|..|+++.
T Consensus 52 ~~~~~iLDlGcG~G~~~~~l~~~~~~p~~~v~gvD~s~~ml~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~d~v~~ 128 (239)
T TIGR00740 52 TPDSNVYDLGCSRGAATLSARRNINQPNVKIIGIDNSQPMVERCRQHIAAYHSEIPVEILCNDIRHVEIKNASMVIL 128 (239)
T ss_pred CCCCEEEEecCCCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECChhhCCCCCCCEEee
Confidence 35578999999999999999997 48999999999 7788776542 479999999998 6666687653
No 17
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=98.18 E-value=2.9e-06 Score=73.36 Aligned_cols=66 Identities=18% Similarity=0.264 Sum_probs=54.2
Q ss_pred CCCceEEEecCCccHHHHHHHH--HCCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCC-CCCCCCEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVS--KYPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFV-EVPKGQAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~--~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~-~~P~~D~~~l 265 (266)
....+|+|||||+|..+..+++ .+|+.+++++|. |..++.++.+ .+|+++.+|+.+ +.+..|++++
T Consensus 55 ~~~~~vLDlGcGtG~~~~~l~~~~~~~~~~v~gvD~S~~ml~~A~~~~~~~~~~~~v~~~~~d~~~~~~~~~D~vv~ 131 (247)
T PRK15451 55 QPGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIRDIAIENASMVVL 131 (247)
T ss_pred CCCCEEEEEcccCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEeCChhhCCCCCCCEEeh
Confidence 3567999999999999999988 479999999999 7788877542 489999999987 5665687764
No 18
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=98.17 E-value=6.1e-06 Score=70.67 Aligned_cols=65 Identities=23% Similarity=0.260 Sum_probs=56.9
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEEeccCCC-CCCCC--CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
...+|||||||+|-++..+++..++.+++++|.. ..++.+++. ..|+|+.+|..+ |+|.. |++.+
T Consensus 51 ~g~~vLDva~GTGd~a~~~~k~~g~g~v~~~D~s~~ML~~a~~k~~~~~~~~i~fv~~dAe~LPf~D~sFD~vt~ 125 (238)
T COG2226 51 PGDKVLDVACGTGDMALLLAKSVGTGEVVGLDISESMLEVAREKLKKKGVQNVEFVVGDAENLPFPDNSFDAVTI 125 (238)
T ss_pred CCCEEEEecCCccHHHHHHHHhcCCceEEEEECCHHHHHHHHHHhhccCccceEEEEechhhCCCCCCccCEEEe
Confidence 4689999999999999999999999999999996 477777652 239999999999 99986 99986
No 19
>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=98.17 E-value=3.3e-06 Score=74.62 Aligned_cols=65 Identities=20% Similarity=0.332 Sum_probs=55.0
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCCCCCC-C-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~~~P~-~-D~~~l 265 (266)
+..+|+|+|||+|.++..+++++|+.+++.+|+ |..++.++.+ ++|+++.+|+++++|. . |+++.
T Consensus 121 ~~~~vLDlG~GsG~i~~~la~~~~~~~v~avDis~~al~~A~~n~~~~~~~~~i~~~~~D~~~~~~~~~fD~Iv~ 195 (284)
T TIGR03533 121 PVKRILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINIERHGLEDRVTLIQSDLFAALPGRKYDLIVS 195 (284)
T ss_pred CCCEEEEEeCchhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhccCCCCccEEEE
Confidence 457899999999999999999999999999999 5577766542 5799999999987775 3 98874
No 20
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.16 E-value=2.9e-06 Score=75.78 Aligned_cols=63 Identities=21% Similarity=0.337 Sum_probs=54.4
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCCCCCC-C-CEEEe
Q 046424 203 NQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 203 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~~~P~-~-D~~~l 265 (266)
.+|+|+|||+|.++..+++.+|+.+++.+|+ |..++.++.+ ++|+++.+|+++.+|. . |+++.
T Consensus 135 ~~VLDlG~GsG~iai~la~~~p~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~l~~~~fDlIvs 207 (307)
T PRK11805 135 TRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAALPGRRYDLIVS 207 (307)
T ss_pred CEEEEEechhhHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhhCCCCCccEEEE
Confidence 6899999999999999999999999999999 6677776542 5799999999987765 3 98874
No 21
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=98.14 E-value=6.3e-06 Score=75.41 Aligned_cols=75 Identities=15% Similarity=0.139 Sum_probs=58.8
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC---------CCceEEeccCCCCCCC
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC---------PGVEHVGGDMFVEVPK 259 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~---------~ri~~~~gD~f~~~P~ 259 (266)
+-+++.++ .....+|+|+|||+|..+..+++++|+.+++.+|.. ..++.++.+ .+++++..|.++.++.
T Consensus 218 rllL~~lp-~~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~~~~~~~v~~~~~D~l~~~~~ 296 (378)
T PRK15001 218 RFFMQHLP-ENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMPEALDRCEFMINNALSGVEP 296 (378)
T ss_pred HHHHHhCC-cccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCcccCceEEEEEccccccCCC
Confidence 34566665 333469999999999999999999999999999997 466665531 3789999999987654
Q ss_pred -C-CEEEe
Q 046424 260 -G-QAIFM 265 (266)
Q Consensus 260 -~-D~~~l 265 (266)
. |+|+.
T Consensus 297 ~~fDlIls 304 (378)
T PRK15001 297 FRFNAVLC 304 (378)
T ss_pred CCEEEEEE
Confidence 4 98875
No 22
>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=98.12 E-value=1.2e-05 Score=61.12 Aligned_cols=73 Identities=16% Similarity=0.187 Sum_probs=54.6
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC------CCCceEEeccCCC---CCCCC-
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS------CPGVEHVGGDMFV---EVPKG- 260 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~------~~ri~~~~gD~f~---~~P~~- 260 (266)
+++.+. .....+++|||||.|.++..+++++|+.+++.+|.. ..++.++. .++++++.+|... ..+..
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 344444 445579999999999999999999999999999994 45555432 2678999888764 23334
Q ss_pred CEEEe
Q 046424 261 QAIFM 265 (266)
Q Consensus 261 D~~~l 265 (266)
|++++
T Consensus 90 D~v~~ 94 (124)
T TIGR02469 90 DRVFI 94 (124)
T ss_pred CEEEE
Confidence 88875
No 23
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=98.09 E-value=4.4e-06 Score=73.60 Aligned_cols=62 Identities=24% Similarity=0.313 Sum_probs=52.8
Q ss_pred eEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEEeccCCCCCCCC-CEEEe
Q 046424 204 QLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFVEVPKG-QAIFM 265 (266)
Q Consensus 204 ~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~~~P~~-D~~~l 265 (266)
+|+|||+|+|..++.+++++|+++++..|+ |+.++.|+.+ .++.++.+|+|++++.. |+++.
T Consensus 113 ~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l~~~~~~~~dlf~~~~~~fDlIVs 182 (280)
T COG2890 113 RILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGLVRVLVVQSDLFEPLRGKFDLIVS 182 (280)
T ss_pred cEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCCccEEEEeeecccccCCceeEEEe
Confidence 899999999999999999999999999999 4577766542 56667777999988876 98875
No 24
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=98.08 E-value=1.3e-05 Score=70.04 Aligned_cols=74 Identities=22% Similarity=0.358 Sum_probs=58.4
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC----CCCceEEeccCCC-CCCCC--C
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS----CPGVEHVGGDMFV-EVPKG--Q 261 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----~~ri~~~~gD~f~-~~P~~--D 261 (266)
..+++.+. .....+|||||||+|..+..+++.+ ..+++++|+. ..++.++. .++|+++.+|+.+ ++|.+ |
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 45666665 6677899999999999999998876 6799999995 46665543 3689999999987 67764 9
Q ss_pred EEEe
Q 046424 262 AIFM 265 (266)
Q Consensus 262 ~~~l 265 (266)
+++.
T Consensus 120 ~V~s 123 (263)
T PTZ00098 120 MIYS 123 (263)
T ss_pred EEEE
Confidence 9875
No 25
>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=98.03 E-value=8.5e-06 Score=71.98 Aligned_cols=63 Identities=21% Similarity=0.360 Sum_probs=53.8
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCCCCCC-C-CEEEe
Q 046424 203 NQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 203 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~~~P~-~-D~~~l 265 (266)
.+|+|+|||+|.++..++..+|+.+++.+|+ |..++.++.+ .+|+++.+|++++++. . |+++.
T Consensus 116 ~~vLDlG~GsG~i~l~la~~~~~~~v~avDis~~al~~a~~n~~~~~~~~~v~~~~~d~~~~~~~~~fDlIvs 188 (284)
T TIGR00536 116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEPLAGQKIDIIVS 188 (284)
T ss_pred CEEEEEeccHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhccCcCCCccEEEE
Confidence 6899999999999999999999999999999 5577666542 4699999999998775 4 98874
No 26
>PLN02244 tocopherol O-methyltransferase
Probab=98.01 E-value=2e-05 Score=71.43 Aligned_cols=65 Identities=18% Similarity=0.272 Sum_probs=52.3
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC-------CCCceEEeccCCC-CCCCC--CEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS-------CPGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-------~~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
+...+|||||||.|.++..+++++ +.+++++|+.+ .++.++. .++|+++.+|+.+ ++|.+ |+++.
T Consensus 117 ~~~~~VLDiGCG~G~~~~~La~~~-g~~v~gvD~s~~~i~~a~~~~~~~g~~~~v~~~~~D~~~~~~~~~~FD~V~s 192 (340)
T PLN02244 117 KRPKRIVDVGCGIGGSSRYLARKY-GANVKGITLSPVQAARANALAAAQGLSDKVSFQVADALNQPFEDGQFDLVWS 192 (340)
T ss_pred CCCCeEEEecCCCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEcCcccCCCCCCCccEEEE
Confidence 456899999999999999999988 78999999954 5554432 2589999999988 77764 98874
No 27
>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes.
Probab=98.01 E-value=1.1e-05 Score=68.31 Aligned_cols=62 Identities=15% Similarity=0.273 Sum_probs=50.3
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC-------CCCceEEeccCCC-CCCCC-CEEE
Q 046424 203 NQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS-------CPGVEHVGGDMFV-EVPKG-QAIF 264 (266)
Q Consensus 203 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-------~~ri~~~~gD~f~-~~P~~-D~~~ 264 (266)
++|||||||.|.++..+++.+|+.+++++|+.+ .++.++. .++|+++.+|+.+ ++|.. |+++
T Consensus 1 ~~vLDiGcG~G~~~~~la~~~~~~~v~gid~s~~~~~~a~~~~~~~gl~~~i~~~~~d~~~~~~~~~fD~I~ 72 (224)
T smart00828 1 KRVLDFGCGYGSDLIDLAERHPHLQLHGYTISPEQAEVGRERIRALGLQGRIRIFYRDSAKDPFPDTYDLVF 72 (224)
T ss_pred CeEEEECCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhcCCCcceEEEecccccCCCCCCCCEee
Confidence 479999999999999999999999999999953 5454443 2689999999977 45555 8876
No 28
>PRK11207 tellurite resistance protein TehB; Provisional
Probab=97.99 E-value=1.7e-05 Score=66.18 Aligned_cols=73 Identities=16% Similarity=0.167 Sum_probs=55.6
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEEeccCCC-CCCCC-
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS------CPGVEHVGGDMFV-EVPKG- 260 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gD~f~-~~P~~- 260 (266)
+.+++.++ .....+|||||||.|..+..++++ ..+++++|+ |..++.++. ...|++...|+.+ +++..
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 46666666 545689999999999999999987 468999999 456665543 1458889999987 55555
Q ss_pred CEEEe
Q 046424 261 QAIFM 265 (266)
Q Consensus 261 D~~~l 265 (266)
|+++.
T Consensus 97 D~I~~ 101 (197)
T PRK11207 97 DFILS 101 (197)
T ss_pred CEEEE
Confidence 98864
No 29
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=97.98 E-value=5e-05 Score=65.65 Aligned_cols=73 Identities=15% Similarity=0.215 Sum_probs=54.2
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-CCceEEeccCCC-CCCCC--CEEE
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-PGVEHVGGDMFV-EVPKG--QAIF 264 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-~ri~~~~gD~f~-~~P~~--D~~~ 264 (266)
..+++.++ .....+|+|||||+|.++..+.+. ..+++++|+ |..++.++.. ..++++.+|+-+ ++|.+ |+++
T Consensus 32 ~~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~~D~s~~~l~~a~~~~~~~~~~~~d~~~~~~~~~~fD~V~ 108 (251)
T PRK10258 32 DALLAMLP-QRKFTHVLDAGCGPGWMSRYWRER--GSQVTALDLSPPMLAQARQKDAADHYLAGDIESLPLATATFDLAW 108 (251)
T ss_pred HHHHHhcC-ccCCCeEEEeeCCCCHHHHHHHHc--CCeEEEEECCHHHHHHHHhhCCCCCEEEcCcccCcCCCCcEEEEE
Confidence 34455554 335689999999999999888764 468999999 6688777653 456788999877 66654 8886
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
.
T Consensus 109 s 109 (251)
T PRK10258 109 S 109 (251)
T ss_pred E
Confidence 4
No 30
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=97.97 E-value=8.5e-06 Score=67.89 Aligned_cols=65 Identities=15% Similarity=0.285 Sum_probs=51.6
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEEeccCCC-C---CCCC--CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS------CPGVEHVGGDMFV-E---VPKG--QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gD~f~-~---~P~~--D~~~l 265 (266)
....++|||||+|.++..+++++|+.+++++|+ +..++.++. .++|+++.+|+.+ . +|.+ |.+++
T Consensus 16 ~~~~ilDiGcG~G~~~~~la~~~p~~~v~gvD~~~~~l~~a~~~~~~~~l~ni~~i~~d~~~~~~~~~~~~~~d~v~~ 93 (194)
T TIGR00091 16 KAPLHLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKANKLGLKNLHVLCGDANELLDKFFPDGSLSKVFL 93 (194)
T ss_pred CCceEEEeCCCccHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHhCCCCEEEEccCHHHHHHhhCCCCceeEEEE
Confidence 457999999999999999999999999999999 456655543 2589999999975 1 4443 77664
No 31
>TIGR00138 gidB 16S rRNA methyltransferase GidB. GidB (glucose-inhibited division protein B) appears to be present and in a single copy in nearly all complete eubacterial genomes. It is missing only from some obligate intracellular species of various lineages (Chlamydiae, Ehrlichia, Wolbachia, Anaplasma, Buchnera, etc.). GidB shows a methytransferase fold in its the crystal structure, and acts as a 7-methylguanosine (m(7)G) methyltransferase, apparently specific to 16S rRNA.
Probab=97.96 E-value=1.2e-05 Score=66.32 Aligned_cols=64 Identities=17% Similarity=0.172 Sum_probs=50.4
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC------CCCceEEeccCCC-CCCCC-CEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS------CPGVEHVGGDMFV-EVPKG-QAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~------~~ri~~~~gD~f~-~~P~~-D~~~l 265 (266)
..+|+|||||+|..+..++..+|+.+++.+|..+ .++.++. .++|+++.+|+.+ +.... |+++.
T Consensus 43 ~~~vLDiGcGtG~~s~~la~~~~~~~V~~iD~s~~~~~~a~~~~~~~~~~~i~~i~~d~~~~~~~~~fD~I~s 115 (181)
T TIGR00138 43 GKKVIDIGSGAGFPGIPLAIARPELKLTLLESNHKKVAFLREVKAELGLNNVEIVNGRAEDFQHEEQFDVITS 115 (181)
T ss_pred CCeEEEecCCCCccHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHhCCCCeEEEecchhhccccCCccEEEe
Confidence 5799999999999999999999999999999964 4444332 2579999999977 22223 98874
No 32
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=97.96 E-value=6.9e-06 Score=60.82 Aligned_cols=61 Identities=23% Similarity=0.418 Sum_probs=45.9
Q ss_pred EEEecCCccHHHHHHHHHC---CCCeEEEeech-HHHhhCCCC-----CCceEEeccCCC-CCCCC--CEEEe
Q 046424 205 LVDVAGGLGANLKSIVSKY---PQLRGINFDLP-HVLKHAPSC-----PGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 205 vvDVGGG~G~~~~~l~~~~---P~l~~~v~Dlp-~vi~~a~~~-----~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
|+|+|||+|..+..+++.+ |+.+.+++|+. ..++.+++. .+++++.+|+.+ +++.+ |+|+.
T Consensus 1 ILDlgcG~G~~~~~l~~~~~~~~~~~~~gvD~s~~~l~~~~~~~~~~~~~~~~~~~D~~~l~~~~~~~D~v~~ 73 (101)
T PF13649_consen 1 ILDLGCGTGRVTRALARRFDAGPSSRVIGVDISPEMLELAKKRFSEDGPKVRFVQADARDLPFSDGKFDLVVC 73 (101)
T ss_dssp -EEET-TTSHHHHHHHHHS-----SEEEEEES-HHHHHHHHHHSHHTTTTSEEEESCTTCHHHHSSSEEEEEE
T ss_pred CEEeecCCcHHHHHHHHHhhhcccceEEEEECCHHHHHHHHHhchhcCCceEEEECCHhHCcccCCCeeEEEE
Confidence 7999999999999999997 67899999985 466665542 589999999987 54443 88875
No 33
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=97.96 E-value=1.8e-05 Score=65.64 Aligned_cols=65 Identities=17% Similarity=0.140 Sum_probs=52.3
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC------CCCceEEeccCCC-CCCCC-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS------CPGVEHVGGDMFV-EVPKG-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~------~~ri~~~~gD~f~-~~P~~-D~~~l 265 (266)
...+|+|||||+|..+..+++++|+.+++.+|.. ..++.++. .+.|+++.+|+.+ +.+.. |++++
T Consensus 45 ~g~~VLDiGcGtG~~al~la~~~~~~~V~giD~s~~~l~~A~~~~~~~~l~~i~~~~~d~~~~~~~~~fDlV~~ 118 (187)
T PRK00107 45 GGERVLDVGSGAGFPGIPLAIARPELKVTLVDSLGKKIAFLREVAAELGLKNVTVVHGRAEEFGQEEKFDVVTS 118 (187)
T ss_pred CCCeEEEEcCCCCHHHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHcCCCCEEEEeccHhhCCCCCCccEEEE
Confidence 4689999999999999999999999999999994 56665543 1459999999877 33333 98875
No 34
>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=97.95 E-value=3.3e-06 Score=62.20 Aligned_cols=60 Identities=20% Similarity=0.325 Sum_probs=40.3
Q ss_pred EEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC---------CCceEEeccCCCCCCC-C-CEEEe
Q 046424 206 VDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC---------PGVEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 206 vDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~---------~ri~~~~gD~f~~~P~-~-D~~~l 265 (266)
||||||+|.++..+++++|..+.+++|+. +.++.+++. .++++...|.+...+. . |++++
T Consensus 1 LdiGcG~G~~~~~l~~~~~~~~~~~~D~s~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~V~~ 72 (99)
T PF08242_consen 1 LDIGCGTGRLLRALLEELPDARYTGVDISPSMLERARERLAELGNDNFERLRFDVLDLFDYDPPESFDLVVA 72 (99)
T ss_dssp -EESTTTS-TTTTHHHHC-EEEEEEEESSSSTTSTTCCCHHHCT---EEEEE--SSS---CCC----SEEEE
T ss_pred CEeCccChHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhcCCcceeEEEeecCChhhcccccccceehh
Confidence 69999999999999999999999999995 577777663 2455556666664443 4 99875
No 35
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=97.94 E-value=2.3e-05 Score=72.28 Aligned_cols=65 Identities=23% Similarity=0.277 Sum_probs=54.0
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEEeccCCCC-CCC--C-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-----PGVEHVGGDMFVE-VPK--G-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gD~f~~-~P~--~-D~~~l 265 (266)
...+++|||||+|.++..+++++|+.+++.+|+ |..++.++++ .+|+++.+|++++ .|. . |+++.
T Consensus 251 ~~~rVLDLGcGSG~IaiaLA~~~p~a~VtAVDiS~~ALe~AreNa~~~g~rV~fi~gDl~e~~l~~~~~FDLIVS 325 (423)
T PRK14966 251 ENGRVWDLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLGARVEFAHGSWFDTDMPSEGKWDIIVS 325 (423)
T ss_pred CCCEEEEEeChhhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCcEEEEEcchhccccccCCCccEEEE
Confidence 446899999999999999999999999999999 6677776642 4799999999984 442 3 88875
No 36
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=97.94 E-value=5.7e-05 Score=65.94 Aligned_cols=67 Identities=21% Similarity=0.211 Sum_probs=53.9
Q ss_pred CCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeech-HHHhhCCC---------CCCceEEeccCCC-CCCCC--CEEE
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDLP-HVLKHAPS---------CPGVEHVGGDMFV-EVPKG--QAIF 264 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp-~vi~~a~~---------~~ri~~~~gD~f~-~~P~~--D~~~ 264 (266)
.....+|+|||||+|.++..+++.+ |+.+++++|+. ..++.+++ .++|+++.+|+.+ |+|.+ |+++
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 4456899999999999999999875 67899999995 46666542 2579999999987 78764 9887
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
+
T Consensus 151 ~ 151 (261)
T PLN02233 151 M 151 (261)
T ss_pred E
Confidence 5
No 37
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=97.93 E-value=1.4e-05 Score=76.12 Aligned_cols=64 Identities=17% Similarity=0.280 Sum_probs=54.2
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCCCCCC-C-CEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~~~P~-~-D~~~l 265 (266)
..+|+|||||+|.++..+++.+|+.+++.+|+ |..++.++.+ ++|+++.+|+++.++. . |+++.
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 46899999999999999999999999999999 5577766542 5899999999987665 3 88874
No 38
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=97.92 E-value=3.9e-05 Score=67.40 Aligned_cols=75 Identities=17% Similarity=0.178 Sum_probs=60.2
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCC------CCceEEeccCCCCCCCC-C
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSC------PGVEHVGGDMFVEVPKG-Q 261 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~------~ri~~~~gD~f~~~P~~-D 261 (266)
+-+++.++ .....+|+|+|||.|..++.+++.+|+.+.+.+|... .++.++.+ ++..+...|.+++.+.. |
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 45677777 4333499999999999999999999999999999974 77777653 34468899999987766 8
Q ss_pred EEEe
Q 046424 262 AIFM 265 (266)
Q Consensus 262 ~~~l 265 (266)
.|+.
T Consensus 227 ~Iis 230 (300)
T COG2813 227 LIIS 230 (300)
T ss_pred EEEe
Confidence 8875
No 39
>PRK07402 precorrin-6B methylase; Provisional
Probab=97.90 E-value=3.8e-05 Score=63.94 Aligned_cols=63 Identities=19% Similarity=0.175 Sum_probs=51.1
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEEeccCCC
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFV 255 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~ 255 (266)
+++.++ .....+|+|||||+|.++..+++..|+.+++.+|+ |..++.++++ ++|+++.+|..+
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 445554 55668999999999999999999999999999999 6677766542 579999998865
No 40
>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=97.89 E-value=1.2e-05 Score=68.98 Aligned_cols=67 Identities=22% Similarity=0.351 Sum_probs=46.2
Q ss_pred CCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeech-HHHhhCCC------CCCceEEeccCCC-CCCCC--CEEEe
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDLP-HVLKHAPS------CPGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp-~vi~~a~~------~~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
.....+|+|||||+|.++..+++.. |+.+++++|+. ..++.+++ ..+|+++.+|.-+ |+|.+ |++++
T Consensus 45 ~~~g~~vLDv~~GtG~~~~~l~~~~~~~~~v~~vD~s~~ML~~a~~k~~~~~~~~i~~v~~da~~lp~~d~sfD~v~~ 122 (233)
T PF01209_consen 45 LRPGDRVLDVACGTGDVTRELARRVGPNGKVVGVDISPGMLEVARKKLKREGLQNIEFVQGDAEDLPFPDNSFDAVTC 122 (233)
T ss_dssp --S--EEEEET-TTSHHHHHHGGGSS---EEEEEES-HHHHHHHHHHHHHTT--SEEEEE-BTTB--S-TT-EEEEEE
T ss_pred CCCCCEEEEeCCChHHHHHHHHHHCCCccEEEEecCCHHHHHHHHHHHHhhCCCCeeEEEcCHHHhcCCCCceeEEEH
Confidence 4456899999999999999999874 67899999995 57777664 2589999999998 88875 99875
No 41
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=97.89 E-value=3.9e-05 Score=72.51 Aligned_cols=73 Identities=18% Similarity=0.301 Sum_probs=56.5
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC-----CCCceEEeccCCC-CCCCC--C
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS-----CPGVEHVGGDMFV-EVPKG--Q 261 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-----~~ri~~~~gD~f~-~~P~~--D 261 (266)
.+++.+. .+...+|+|||||+|..+..+++.+ +.+++++|+. ..++.++. ..+|+++.+|+++ ++|.+ |
T Consensus 257 ~l~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvDiS~~~l~~A~~~~~~~~~~v~~~~~d~~~~~~~~~~fD 334 (475)
T PLN02336 257 EFVDKLD-LKPGQKVLDVGCGIGGGDFYMAENF-DVHVVGIDLSVNMISFALERAIGRKCSVEFEVADCTKKTYPDNSFD 334 (475)
T ss_pred HHHHhcC-CCCCCEEEEEeccCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHhhcCCCceEEEEcCcccCCCCCCCEE
Confidence 3455555 5567899999999999999988876 7899999995 46655532 2589999999998 67764 9
Q ss_pred EEEe
Q 046424 262 AIFM 265 (266)
Q Consensus 262 ~~~l 265 (266)
+++.
T Consensus 335 ~I~s 338 (475)
T PLN02336 335 VIYS 338 (475)
T ss_pred EEEE
Confidence 8874
No 42
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=97.88 E-value=0.00012 Score=62.28 Aligned_cols=73 Identities=18% Similarity=0.227 Sum_probs=55.5
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeech-HHHhhCCCC-------CCceEEeccCCC-CCCCC-
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLP-HVLKHAPSC-------PGVEHVGGDMFV-EVPKG- 260 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gD~f~-~~P~~- 260 (266)
++..+. .....+|+|||||.|.++..+++.+| +.+++++|+. ..++.++.. .+++++.+|+.+ +.+.+
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 444444 33457999999999999999999998 7899999994 455555432 579999999988 45443
Q ss_pred -CEEEe
Q 046424 261 -QAIFM 265 (266)
Q Consensus 261 -D~~~l 265 (266)
|++++
T Consensus 122 ~D~I~~ 127 (239)
T PRK00216 122 FDAVTI 127 (239)
T ss_pred ccEEEE
Confidence 88864
No 43
>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=97.88 E-value=2.3e-05 Score=67.44 Aligned_cols=65 Identities=26% Similarity=0.402 Sum_probs=53.6
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEEeccCCCCCCCC--CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS------CPGVEHVGGDMFVEVPKG--QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gD~f~~~P~~--D~~~l 265 (266)
...+|+|+|||+|.++..+++.+|+.+++++|. |..++.++. .++++++.+|++++++.. |+++.
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 346899999999999999999999999999998 556665543 257999999999876543 88864
No 44
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=97.87 E-value=4.5e-05 Score=61.98 Aligned_cols=72 Identities=13% Similarity=0.269 Sum_probs=55.4
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC----CCCceEEeccCCC-CCCCC--C
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS----CPGVEHVGGDMFV-EVPKG--Q 261 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~----~~ri~~~~gD~f~-~~P~~--D 261 (266)
..+++.++ +....+++|||||.|.++..++++ ..+++.+|+.+ .++.+++ .++++++.+|+.+ +.+.. |
T Consensus 3 ~~i~~~~~-~~~~~~vLEiG~G~G~lt~~l~~~--~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~~~d 79 (169)
T smart00650 3 DKIVRAAN-LRPGDTVLEIGPGKGALTEELLER--AARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKLQPY 79 (169)
T ss_pred HHHHHhcC-CCCcCEEEEECCCccHHHHHHHhc--CCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCccccCCC
Confidence 34566666 666789999999999999999998 56899999964 5555443 3689999999998 56653 7
Q ss_pred EEE
Q 046424 262 AIF 264 (266)
Q Consensus 262 ~~~ 264 (266)
+++
T Consensus 80 ~vi 82 (169)
T smart00650 80 KVV 82 (169)
T ss_pred EEE
Confidence 665
No 45
>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=97.86 E-value=4.9e-05 Score=65.97 Aligned_cols=65 Identities=20% Similarity=0.278 Sum_probs=53.1
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC---CCceEEeccCCCCCC----CC-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC---PGVEHVGGDMFVEVP----KG-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~---~ri~~~~gD~f~~~P----~~-D~~~l 265 (266)
+..+++|+|||+|.++..+++.+|..+++.+|+ |..++.++.+ .+++++.+|+++.++ .. |+++.
T Consensus 86 ~~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~~~~~~~~~D~~~~l~~~~~~~fDlVv~ 159 (251)
T TIGR03704 86 GTLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLADAGGTVHEGDLYDALPTALRGRVDILAA 159 (251)
T ss_pred CCCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEeechhhcchhcCCCEeEEEE
Confidence 345899999999999999999999999999999 6788777653 347899999988554 23 88774
No 46
>PRK08317 hypothetical protein; Provisional
Probab=97.86 E-value=6.1e-05 Score=63.83 Aligned_cols=73 Identities=26% Similarity=0.410 Sum_probs=56.3
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeechH-HHhhCCC-----CCCceEEeccCCC-CCCCC--C
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDLPH-VLKHAPS-----CPGVEHVGGDMFV-EVPKG--Q 261 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp~-vi~~a~~-----~~ri~~~~gD~f~-~~P~~--D 261 (266)
+++.++ .....+|||||||.|.++..+++.+ |..+++++|+.+ .++.++. ..++++..+|+.. +++.+ |
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 345455 6667899999999999999999998 888999999954 4554433 2679999999887 66543 8
Q ss_pred EEEe
Q 046424 262 AIFM 265 (266)
Q Consensus 262 ~~~l 265 (266)
+++.
T Consensus 90 ~v~~ 93 (241)
T PRK08317 90 AVRS 93 (241)
T ss_pred EEEE
Confidence 8765
No 47
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=97.85 E-value=5.3e-05 Score=62.09 Aligned_cols=72 Identities=24% Similarity=0.270 Sum_probs=57.0
Q ss_pred HHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEEeccCCC---CCCCCCE
Q 046424 193 LEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS------CPGVEHVGGDMFV---EVPKGQA 262 (266)
Q Consensus 193 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gD~f~---~~P~~D~ 262 (266)
+..+. .....+++|||||+|..+.+++..+|..+++.+|. ++.++.++. .++++.+.||--+ +.|.-|+
T Consensus 27 ls~L~-~~~g~~l~DIGaGtGsi~iE~a~~~p~~~v~AIe~~~~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~~~da 105 (187)
T COG2242 27 LSKLR-PRPGDRLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARFGVDNLEVVEGDAPEALPDLPSPDA 105 (187)
T ss_pred HHhhC-CCCCCEEEEeCCCccHHHHHHHHhCCCceEEEEecCHHHHHHHHHHHHHhCCCcEEEEeccchHhhcCCCCCCE
Confidence 44444 56778999999999999999999999999999997 445555443 2899999998777 3443499
Q ss_pred EEe
Q 046424 263 IFM 265 (266)
Q Consensus 263 ~~l 265 (266)
+|+
T Consensus 106 iFI 108 (187)
T COG2242 106 IFI 108 (187)
T ss_pred EEE
Confidence 886
No 48
>PRK06202 hypothetical protein; Provisional
Probab=97.85 E-value=0.0001 Score=62.96 Aligned_cols=66 Identities=17% Similarity=0.103 Sum_probs=47.1
Q ss_pred CCCceEEEecCCccHHHHHHHHH----CCCCeEEEeec-hHHHhhCCCC---CCceEEeccCCC-CCCC-C-CEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSK----YPQLRGINFDL-PHVLKHAPSC---PGVEHVGGDMFV-EVPK-G-QAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~----~P~l~~~v~Dl-p~vi~~a~~~---~ri~~~~gD~f~-~~P~-~-D~~~l 265 (266)
++..+|+|||||+|.++..+++. .|+.+++++|+ |..++.++.. .++++..+|.-. +.+. . |+++.
T Consensus 59 ~~~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~l~~~~~~fD~V~~ 135 (232)
T PRK06202 59 DRPLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDPDPRAVAFARANPRRPGVTFRQAVSDELVAEGERFDVVTS 135 (232)
T ss_pred CCCcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcCCHHHHHHHHhccccCCCeEEEEecccccccCCCccEEEE
Confidence 46689999999999998888764 56789999999 5677776653 456665554322 2233 3 98875
No 49
>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=97.85 E-value=5.6e-05 Score=63.56 Aligned_cols=73 Identities=16% Similarity=0.200 Sum_probs=56.3
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCC-CeEEEeec-hHHHhhCCC----CCCceEEeccCCC-CCCCC--CE
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQ-LRGINFDL-PHVLKHAPS----CPGVEHVGGDMFV-EVPKG--QA 262 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dl-p~vi~~a~~----~~ri~~~~gD~f~-~~P~~--D~ 262 (266)
+++.+. .....+|+|||||.|.++..+++.+|. .+++++|+ |..++.+++ ..+++++.+|+.+ +.+.+ |+
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 344444 445689999999999999999999997 78999999 456665543 2579999999988 55543 88
Q ss_pred EEe
Q 046424 263 IFM 265 (266)
Q Consensus 263 ~~l 265 (266)
+++
T Consensus 110 i~~ 112 (223)
T TIGR01934 110 VTI 112 (223)
T ss_pred EEE
Confidence 764
No 50
>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=97.85 E-value=8.6e-05 Score=62.86 Aligned_cols=64 Identities=13% Similarity=0.083 Sum_probs=48.8
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCCCCCCCCEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFVEVPKGQAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~~~P~~D~~~l 265 (266)
.+..+++|||||+|.++..+++. +.+++++|. |+.++.++.. .++++..+|+.+....-|+++.
T Consensus 54 ~~~~~vLDiGcG~G~~~~~la~~--~~~v~gvD~s~~~i~~a~~~~~~~~~~~~i~~~~~d~~~~~~~fD~ii~ 125 (219)
T TIGR02021 54 LKGKRVLDAGCGTGLLSIELAKR--GAIVKAVDISEQMVQMARNRAQGRDVAGNVEFEVNDLLSLCGEFDIVVC 125 (219)
T ss_pred CCCCEEEEEeCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEECChhhCCCCcCEEEE
Confidence 35689999999999999999886 457899998 4577766541 4899999998763322388764
No 51
>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=97.84 E-value=3.6e-05 Score=65.39 Aligned_cols=65 Identities=20% Similarity=0.329 Sum_probs=52.3
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCC--CCceEEeccCCC-CCCCC--CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSC--PGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~--~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
...+|||||||+|.++..+++.+|+.+++++|+.+ .+..++.. ++++++.+|+.+ ++|.. |+++.
T Consensus 34 ~~~~vLDlG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~vi~ 104 (240)
T TIGR02072 34 IPASVLDIGCGTGYLTRALLKRFPQAEFIALDISAGMLAQAKTKLSENVQFICGDAEKLPLEDSSFDLIVS 104 (240)
T ss_pred CCCeEEEECCCccHHHHHHHHhCCCCcEEEEeChHHHHHHHHHhcCCCCeEEecchhhCCCCCCceeEEEE
Confidence 34789999999999999999999999999999954 55444432 589999999987 55543 98874
No 52
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=97.84 E-value=4.3e-05 Score=66.30 Aligned_cols=70 Identities=14% Similarity=0.176 Sum_probs=52.7
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCC--CCCC-C
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFV--EVPK-G 260 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~--~~P~-~ 260 (266)
+++.++ ++..+|+|||||+|.++..+++. ..+++++|+ |+.++.++.. ++++++.+|+.+ +++. .
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 34679999999999999999987 467999999 5677776542 578999999866 3443 3
Q ss_pred -CEEEe
Q 046424 261 -QAIFM 265 (266)
Q Consensus 261 -D~~~l 265 (266)
|++++
T Consensus 113 fD~V~~ 118 (255)
T PRK11036 113 VDLILF 118 (255)
T ss_pred CCEEEe
Confidence 98875
No 53
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=97.84 E-value=2.8e-05 Score=65.18 Aligned_cols=72 Identities=17% Similarity=0.285 Sum_probs=54.4
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC------CCCceEEeccCCC--C--CCCC
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS------CPGVEHVGGDMFV--E--VPKG 260 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~------~~ri~~~~gD~f~--~--~P~~ 260 (266)
|.+.+. ....+|+|||||+|.++..+++.+|+.+++.+|.. +.++.++. .++++++.+|+.+ + ++.+
T Consensus 33 ~~~~~~--~~~~~VLDiGcGtG~~~~~la~~~p~~~v~gVD~s~~~i~~a~~~~~~~~~~~v~~~~~d~~~~l~~~~~~~ 110 (202)
T PRK00121 33 WAELFG--NDAPIHLEIGFGKGEFLVEMAKANPDINFIGIEVHEPGVGKALKKIEEEGLTNLRLLCGDAVEVLLDMFPDG 110 (202)
T ss_pred HHHHcC--CCCCeEEEEccCCCHHHHHHHHHCCCccEEEEEechHHHHHHHHHHHHcCCCCEEEEecCHHHHHHHHcCcc
Confidence 444444 25689999999999999999999999999999995 46665543 2679999999833 2 4443
Q ss_pred --CEEEe
Q 046424 261 --QAIFM 265 (266)
Q Consensus 261 --D~~~l 265 (266)
|++++
T Consensus 111 ~~D~V~~ 117 (202)
T PRK00121 111 SLDRIYL 117 (202)
T ss_pred ccceEEE
Confidence 77764
No 54
>PRK14121 tRNA (guanine-N(7)-)-methyltransferase; Provisional
Probab=97.82 E-value=4.9e-05 Score=69.57 Aligned_cols=73 Identities=15% Similarity=0.196 Sum_probs=53.9
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC------CCCceEEeccCC---CCCCCC-
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS------CPGVEHVGGDMF---VEVPKG- 260 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~------~~ri~~~~gD~f---~~~P~~- 260 (266)
+++.+. -.....+||||||+|.++..+++++|+..++++|+- ..++.+.. .+.|.++.+|.. ..+|.+
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 444543 224579999999999999999999999999999984 34444322 257999999973 356654
Q ss_pred -CEEEe
Q 046424 261 -QAIFM 265 (266)
Q Consensus 261 -D~~~l 265 (266)
|.+++
T Consensus 193 ~D~I~l 198 (390)
T PRK14121 193 VEKIFV 198 (390)
T ss_pred eeEEEE
Confidence 77764
No 55
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=97.81 E-value=4.4e-05 Score=66.98 Aligned_cols=64 Identities=19% Similarity=0.297 Sum_probs=52.0
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCC---eEEEeech-HHHhhCCC-CCCceEEeccCCC-CCCCC--CEEE
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQL---RGINFDLP-HVLKHAPS-CPGVEHVGGDMFV-EVPKG--QAIF 264 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l---~~~v~Dlp-~vi~~a~~-~~ri~~~~gD~f~-~~P~~--D~~~ 264 (266)
...+|+|||||+|.++..+++.+|+. +++++|+. ..++.++. .+.+++..+|..+ +++.+ |+++
T Consensus 85 ~~~~vLDiGcG~G~~~~~l~~~~~~~~~~~v~giD~s~~~l~~A~~~~~~~~~~~~d~~~lp~~~~sfD~I~ 156 (272)
T PRK11088 85 KATALLDIGCGEGYYTHALADALPEITTMQLFGLDISKVAIKYAAKRYPQVTFCVASSHRLPFADQSLDAII 156 (272)
T ss_pred CCCeEEEECCcCCHHHHHHHHhcccccCCeEEEECCCHHHHHHHHHhCCCCeEEEeecccCCCcCCceeEEE
Confidence 45789999999999999999998864 67999994 57776654 3789999999988 77664 8876
No 56
>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=97.81 E-value=3.8e-05 Score=55.27 Aligned_cols=59 Identities=20% Similarity=0.337 Sum_probs=46.6
Q ss_pred EEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC---CCCceEEeccCCC-CCCCC--CEEEe
Q 046424 206 VDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS---CPGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 206 vDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~---~~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
||||||.|..+..++++ |..+.+++|..+ .++.++. ..+++++.+|+.+ ++|.+ |+++.
T Consensus 1 LdiG~G~G~~~~~l~~~-~~~~v~~~D~~~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~sfD~v~~ 66 (95)
T PF08241_consen 1 LDIGCGTGRFAAALAKR-GGASVTGIDISEEMLEQARKRLKNEGVSFRQGDAEDLPFPDNSFDVVFS 66 (95)
T ss_dssp EEET-TTSHHHHHHHHT-TTCEEEEEES-HHHHHHHHHHTTTSTEEEEESBTTSSSS-TT-EEEEEE
T ss_pred CEecCcCCHHHHHHHhc-cCCEEEEEeCCHHHHHHHHhcccccCchheeehHHhCcccccccccccc
Confidence 79999999999999999 999999999965 4655543 3567899999998 88865 98875
No 57
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=97.80 E-value=7.2e-05 Score=65.36 Aligned_cols=66 Identities=23% Similarity=0.312 Sum_probs=53.8
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC------CCCceEEeccCCCCCCC-C-CEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS------CPGVEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~------~~ri~~~~gD~f~~~P~-~-D~~~l 265 (266)
.+..+|+|+|||+|..+..+++.+|+.+++++|+. ..++.++. ..+++++.+|++++.+. . |+++.
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 35679999999999999999999999999999985 45555443 25899999999987663 3 88864
No 58
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=97.78 E-value=7.6e-05 Score=67.66 Aligned_cols=73 Identities=16% Similarity=0.229 Sum_probs=55.3
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-----CCceEEeccCCCCCCCC-CEEE
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-----PGVEHVGGDMFVEVPKG-QAIF 264 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-----~ri~~~~gD~f~~~P~~-D~~~ 264 (266)
+++.++ -....+|+|+|||+|.++..+++++|+.+++++|.. ..++.++.+ -..+++.+|.+...+.. |+++
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 445444 223458999999999999999999999999999996 466665531 23577889998866655 9887
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
.
T Consensus 267 s 267 (342)
T PRK09489 267 S 267 (342)
T ss_pred E
Confidence 4
No 59
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.78 E-value=0.00013 Score=61.75 Aligned_cols=74 Identities=12% Similarity=0.192 Sum_probs=56.1
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeech-HHHhhCCC------CCCceEEeccCCCCCC-CC-
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDLP-HVLKHAPS------CPGVEHVGGDMFVEVP-KG- 260 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp-~vi~~a~~------~~ri~~~~gD~f~~~P-~~- 260 (266)
.+++.++ .+...+|+|||||+|..+..+++.. ++.+++.+|.- ..++.+++ .++|+++.+|.++.++ .+
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 4455555 6677899999999999998888875 45789999984 56665554 2579999999988543 33
Q ss_pred -CEEEe
Q 046424 261 -QAIFM 265 (266)
Q Consensus 261 -D~~~l 265 (266)
|++++
T Consensus 146 fD~I~~ 151 (212)
T PRK13942 146 YDRIYV 151 (212)
T ss_pred cCEEEE
Confidence 99875
No 60
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=97.77 E-value=0.00011 Score=62.10 Aligned_cols=74 Identities=12% Similarity=0.142 Sum_probs=56.1
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHhhCCCC------CCceEEeccCCCCCCC--C
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFVEVPK--G 260 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~~~P~--~ 260 (266)
.+++.++ .....+|+|||||+|.++..+++..+ +.+++.+|+ |+.++.++.+ ++++++.+|..+..+. .
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 4445555 55678999999999999999999865 567899997 5677666532 5799999999884432 3
Q ss_pred -CEEEe
Q 046424 261 -QAIFM 265 (266)
Q Consensus 261 -D~~~l 265 (266)
|++++
T Consensus 147 fD~Ii~ 152 (215)
T TIGR00080 147 YDRIYV 152 (215)
T ss_pred CCEEEE
Confidence 98875
No 61
>PLN02490 MPBQ/MSBQ methyltransferase
Probab=97.76 E-value=5.6e-05 Score=68.29 Aligned_cols=65 Identities=25% Similarity=0.256 Sum_probs=53.7
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC---CCceEEeccCCC-CCCCC--CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC---PGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~---~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
...+|||||||+|.++..+++.+|..+++++|+ |..++.+++. .+++++.+|+.+ +++.+ |+++.
T Consensus 113 ~~~~VLDLGcGtG~~~l~La~~~~~~~VtgVD~S~~mL~~A~~k~~~~~i~~i~gD~e~lp~~~~sFDvVIs 184 (340)
T PLN02490 113 RNLKVVDVGGGTGFTTLGIVKHVDAKNVTILDQSPHQLAKAKQKEPLKECKIIEGDAEDLPFPTDYADRYVS 184 (340)
T ss_pred CCCEEEEEecCCcHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhhhccCCeEEeccHHhCCCCCCceeEEEE
Confidence 457999999999999999999999899999999 4566666542 579999999987 66653 98875
No 62
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.71 E-value=0.00017 Score=60.63 Aligned_cols=73 Identities=16% Similarity=0.105 Sum_probs=54.1
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeech-HHHhhCCCC-------CCceEEeccCCCCCCC--C
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLP-HVLKHAPSC-------PGVEHVGGDMFVEVPK--G 260 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gD~f~~~P~--~ 260 (266)
+++.++ .....+|+|||||+|..+..+++..+ .-+++.+|.- ..++.++++ .+++++.+|+.+.+|. .
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 444444 44568999999999999999998865 5688999994 556555431 3689999999885543 3
Q ss_pred -CEEEe
Q 046424 261 -QAIFM 265 (266)
Q Consensus 261 -D~~~l 265 (266)
|++++
T Consensus 143 fD~Ii~ 148 (205)
T PRK13944 143 FDAIIV 148 (205)
T ss_pred ccEEEE
Confidence 98875
No 63
>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=97.70 E-value=3.8e-05 Score=58.07 Aligned_cols=62 Identities=23% Similarity=0.287 Sum_probs=50.7
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------CCCceEEeccCCC-C--CCCC--CEEEe
Q 046424 203 NQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS-------CPGVEHVGGDMFV-E--VPKG--QAIFM 265 (266)
Q Consensus 203 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gD~f~-~--~P~~--D~~~l 265 (266)
.+|+|+|||+|.++..+++.. ..+++++|+. ..++.++. .+|++++.+|+++ . .+.+ |++++
T Consensus 2 ~~vlD~~~G~G~~~~~~~~~~-~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~D~Iv~ 76 (117)
T PF13659_consen 2 DRVLDPGCGSGTFLLAALRRG-AARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLPEPLPDGKFDLIVT 76 (117)
T ss_dssp EEEEEETSTTCHHHHHHHHHC-TCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHHHTCTTT-EEEEEE
T ss_pred CEEEEcCcchHHHHHHHHHHC-CCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhchhhccCceeEEEEE
Confidence 589999999999999999999 8899999995 45565543 2689999999988 3 5544 88876
No 64
>PLN03075 nicotianamine synthase; Provisional
Probab=97.69 E-value=0.00012 Score=64.59 Aligned_cols=66 Identities=15% Similarity=0.087 Sum_probs=49.8
Q ss_pred CCCceEEEecCCccHH--HHHHHHHCCCCeEEEeech-HHHhhCCC--------CCCceEEeccCCCCCC--CC-CEEEe
Q 046424 200 EGLNQLVDVAGGLGAN--LKSIVSKYPQLRGINFDLP-HVLKHAPS--------CPGVEHVGGDMFVEVP--KG-QAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~--~~~l~~~~P~l~~~v~Dlp-~vi~~a~~--------~~ri~~~~gD~f~~~P--~~-D~~~l 265 (266)
.++++|+|||||.|-+ ...+++.+|+.+++++|.. +.++.|+. .+||+|..+|..+..+ .. |++++
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 3779999999998844 3334457899999999995 46655543 2689999999998433 34 99986
No 65
>PHA03411 putative methyltransferase; Provisional
Probab=97.69 E-value=9.4e-05 Score=64.58 Aligned_cols=64 Identities=13% Similarity=0.239 Sum_probs=52.6
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-CCceEEeccCCCCC-CCC-CEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-PGVEHVGGDMFVEV-PKG-QAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-~ri~~~~gD~f~~~-P~~-D~~~l 265 (266)
..+|+|+|||+|.++..++++.+..+++++|+. ..++.++.+ ++++++.+|+++.. +.. |+++.
T Consensus 65 ~grVLDLGcGsGilsl~la~r~~~~~V~gVDisp~al~~Ar~n~~~v~~v~~D~~e~~~~~kFDlIIs 132 (279)
T PHA03411 65 TGKVLDLCAGIGRLSFCMLHRCKPEKIVCVELNPEFARIGKRLLPEAEWITSDVFEFESNEKFDVVIS 132 (279)
T ss_pred CCeEEEcCCCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCcCCEEEECchhhhcccCCCcEEEE
Confidence 468999999999999999999988899999995 566666553 68999999999843 334 98875
No 66
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=97.64 E-value=7e-05 Score=64.38 Aligned_cols=74 Identities=11% Similarity=0.172 Sum_probs=56.9
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCC-------CCceEEeccCCC---CCCCC
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSC-------PGVEHVGGDMFV---EVPKG 260 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~-------~ri~~~~gD~f~---~~P~~ 260 (266)
++..+.......+|+|+|+|.|..+..++++.++++.+++|+.+ ..+.|+.+ +||+++..|+-+ ..+.+
T Consensus 35 LL~~~~~~~~~~~IlDlGaG~G~l~L~la~r~~~a~I~~VEiq~~~a~~A~~nv~ln~l~~ri~v~~~Di~~~~~~~~~~ 114 (248)
T COG4123 35 LLAAFAPVPKKGRILDLGAGNGALGLLLAQRTEKAKIVGVEIQEEAAEMAQRNVALNPLEERIQVIEADIKEFLKALVFA 114 (248)
T ss_pred HHHhhcccccCCeEEEecCCcCHHHHHHhccCCCCcEEEEEeCHHHHHHHHHHHHhCcchhceeEehhhHHHhhhccccc
Confidence 34443323457999999999999999999999999999999965 55555542 899999999987 23333
Q ss_pred --CEEEe
Q 046424 261 --QAIFM 265 (266)
Q Consensus 261 --D~~~l 265 (266)
|+++.
T Consensus 115 ~fD~Ii~ 121 (248)
T COG4123 115 SFDLIIC 121 (248)
T ss_pred ccCEEEe
Confidence 78775
No 67
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=97.64 E-value=0.00018 Score=62.65 Aligned_cols=72 Identities=15% Similarity=0.254 Sum_probs=54.5
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC----CCCceEEeccCCC-CCCCCCEE
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS----CPGVEHVGGDMFV-EVPKGQAI 263 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~----~~ri~~~~gD~f~-~~P~~D~~ 263 (266)
..+++..+ .....+|+|||||.|.++..++++. .+++++|+.+ .++.++. .++|+++.+|+++ ++|..|.+
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 45556555 5566899999999999999999984 4789999963 5554443 3689999999998 66655665
Q ss_pred E
Q 046424 264 F 264 (266)
Q Consensus 264 ~ 264 (266)
+
T Consensus 96 v 96 (258)
T PRK14896 96 V 96 (258)
T ss_pred E
Confidence 4
No 68
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=97.62 E-value=0.00045 Score=60.39 Aligned_cols=66 Identities=17% Similarity=0.250 Sum_probs=50.2
Q ss_pred CCCceEEEecCCccH----HHHHHHHHCC-----CCeEEEeech-HHHhhCCCC--------------------------
Q 046424 200 EGLNQLVDVAGGLGA----NLKSIVSKYP-----QLRGINFDLP-HVLKHAPSC-------------------------- 243 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~----~~~~l~~~~P-----~l~~~v~Dlp-~vi~~a~~~-------------------------- 243 (266)
.+..+|+|+|||+|. +++.+++.+| +.++++.|+. .+++.|+..
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 345799999999997 5667777765 5789999995 477766641
Q ss_pred -------CCceEEeccCCCC-CCCC--CEEEe
Q 046424 244 -------PGVEHVGGDMFVE-VPKG--QAIFM 265 (266)
Q Consensus 244 -------~ri~~~~gD~f~~-~P~~--D~~~l 265 (266)
.+|+|..+|+.++ .|.+ |+|+.
T Consensus 178 ~v~~~ir~~V~F~~~dl~~~~~~~~~fD~I~c 209 (264)
T smart00138 178 RVKPELKERVRFAKHNLLAESPPLGDFDLIFC 209 (264)
T ss_pred EEChHHhCcCEEeeccCCCCCCccCCCCEEEe
Confidence 3799999999994 4343 99875
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=97.60 E-value=0.00016 Score=59.31 Aligned_cols=63 Identities=19% Similarity=0.284 Sum_probs=49.8
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEEeccCCCCCCCC-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-----PGVEHVGGDMFVEVPKG-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gD~f~~~P~~-D~~~l 265 (266)
...+|+|+|||+|.++..+++..+ +++.+|+ |..++.++.+ -+++++.+|.++..+.. |+++.
T Consensus 19 ~~~~vLdlG~G~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~fD~Vi~ 88 (179)
T TIGR00537 19 KPDDVLEIGAGTGLVAIRLKGKGK--CILTTDINPFAVKELRENAKLNNVGLDVVMTDLFKGVRGKFDVILF 88 (179)
T ss_pred CCCeEEEeCCChhHHHHHHHhcCC--EEEEEECCHHHHHHHHHHHHHcCCceEEEEcccccccCCcccEEEE
Confidence 346899999999999999999987 8999998 5566665542 35888999998854444 88875
No 70
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=97.60 E-value=0.00014 Score=63.76 Aligned_cols=66 Identities=11% Similarity=0.251 Sum_probs=51.0
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC---CCceEEeccCCC-CCC
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC---PGVEHVGGDMFV-EVP 258 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~---~ri~~~~gD~f~-~~P 258 (266)
..+++.++ .....+|+|||||+|.++..++++.+ +++++|+. ..++.+++. ++++++.+|+.+ +++
T Consensus 32 ~~i~~~l~-~~~~~~VLEiG~G~G~lt~~L~~~~~--~v~avE~d~~~~~~~~~~~~~~~v~~i~~D~~~~~~~ 102 (272)
T PRK00274 32 DKIVDAAG-PQPGDNVLEIGPGLGALTEPLLERAA--KVTAVEIDRDLAPILAETFAEDNLTIIEGDALKVDLS 102 (272)
T ss_pred HHHHHhcC-CCCcCeEEEeCCCccHHHHHHHHhCC--cEEEEECCHHHHHHHHHhhccCceEEEEChhhcCCHH
Confidence 34555555 55668999999999999999999987 78889885 466655432 689999999987 444
No 71
>PRK05785 hypothetical protein; Provisional
Probab=97.60 E-value=0.00015 Score=61.91 Aligned_cols=62 Identities=16% Similarity=0.211 Sum_probs=50.0
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCCCCceEEeccCCC-CCCCC--CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSCPGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
...+|+|||||+|.++..+++++ +.+++++|+ |+.++.++. +..++.+|+.+ |+|.+ |+++.
T Consensus 51 ~~~~VLDlGcGtG~~~~~l~~~~-~~~v~gvD~S~~Ml~~a~~--~~~~~~~d~~~lp~~d~sfD~v~~ 116 (226)
T PRK05785 51 RPKKVLDVAAGKGELSYHFKKVF-KYYVVALDYAENMLKMNLV--ADDKVVGSFEALPFRDKSFDVVMS 116 (226)
T ss_pred CCCeEEEEcCCCCHHHHHHHHhc-CCEEEEECCCHHHHHHHHh--ccceEEechhhCCCCCCCEEEEEe
Confidence 35799999999999999999988 678999999 458887764 34567888887 77764 98875
No 72
>PLN02366 spermidine synthase
Probab=97.58 E-value=0.00011 Score=65.53 Aligned_cols=65 Identities=22% Similarity=0.268 Sum_probs=51.2
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCC-CeEEEeechH-HHhhCCC----------CCCceEEeccCCC---CCCC-C-CE
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQ-LRGINFDLPH-VLKHAPS----------CPGVEHVGGDMFV---EVPK-G-QA 262 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dlp~-vi~~a~~----------~~ri~~~~gD~f~---~~P~-~-D~ 262 (266)
.++++|++||||.|..+..+++. |. .+++++|+.+ |++.+++ .+|++++.+|.++ ..|. . |+
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 46799999999999999999865 65 5789999965 7777654 2699999999764 4443 3 99
Q ss_pred EEe
Q 046424 263 IFM 265 (266)
Q Consensus 263 ~~l 265 (266)
|++
T Consensus 169 Ii~ 171 (308)
T PLN02366 169 IIV 171 (308)
T ss_pred EEE
Confidence 875
No 73
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=97.55 E-value=0.00053 Score=57.81 Aligned_cols=59 Identities=22% Similarity=0.197 Sum_probs=45.9
Q ss_pred HHHccCCCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeechHHHhhCCCCCCceEEeccCCC
Q 046424 193 LEIYKGFEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDLPHVLKHAPSCPGVEHVGGDMFV 255 (266)
Q Consensus 193 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp~vi~~a~~~~ri~~~~gD~f~ 255 (266)
.+.+.-++...+|+|||||+|.++..++++. |..+++.+|+.++ ...++|+++.+|+.+
T Consensus 43 ~~~~~~~~~~~~VLDlG~GtG~~t~~l~~~~~~~~~V~aVDi~~~----~~~~~v~~i~~D~~~ 102 (209)
T PRK11188 43 QQSDKLFKPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIACDILPM----DPIVGVDFLQGDFRD 102 (209)
T ss_pred HHHhccCCCCCEEEEEcccCCHHHHHHHHHcCCCceEEEEecccc----cCCCCcEEEecCCCC
Confidence 3334323566799999999999999999987 5578999999763 223679999999988
No 74
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=97.54 E-value=0.00044 Score=62.24 Aligned_cols=71 Identities=13% Similarity=0.100 Sum_probs=51.1
Q ss_pred HHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHH-Hhh------C-CCCCCceEEeccCCC-CCCCC-CE
Q 046424 193 LEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHV-LKH------A-PSCPGVEHVGGDMFV-EVPKG-QA 262 (266)
Q Consensus 193 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~v-i~~------a-~~~~ri~~~~gD~f~-~~P~~-D~ 262 (266)
+..++.. ...+|+|||||+|.++..+++..|. +++++|.... +.. . ....+|+++.+|+.+ +.+.. |+
T Consensus 115 ~~~l~~l-~g~~VLDIGCG~G~~~~~la~~g~~-~V~GiD~S~~~l~q~~a~~~~~~~~~~i~~~~~d~e~lp~~~~FD~ 192 (322)
T PRK15068 115 LPHLSPL-KGRTVLDVGCGNGYHMWRMLGAGAK-LVVGIDPSQLFLCQFEAVRKLLGNDQRAHLLPLGIEQLPALKAFDT 192 (322)
T ss_pred HHhhCCC-CCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHhcCCCCCeEEEeCCHHHCCCcCCcCE
Confidence 4444313 3489999999999999999999887 5999997542 221 1 113589999999877 55555 99
Q ss_pred EEe
Q 046424 263 IFM 265 (266)
Q Consensus 263 ~~l 265 (266)
++.
T Consensus 193 V~s 195 (322)
T PRK15068 193 VFS 195 (322)
T ss_pred EEE
Confidence 874
No 75
>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=97.54 E-value=0.00019 Score=59.18 Aligned_cols=64 Identities=20% Similarity=0.348 Sum_probs=50.4
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH--HHhhCCCCCCceEEeccCCC---CCCCC--CEEEeC
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH--VLKHAPSCPGVEHVGGDMFV---EVPKG--QAIFMK 266 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~--vi~~a~~~~ri~~~~gD~f~---~~P~~--D~~~lk 266 (266)
+...+|+|+|||.|.++..|.+. -++++.++|+.+ |.+..+ .+++++.+|+-+ .+|.. |.++|+
T Consensus 12 ~pgsrVLDLGCGdG~LL~~L~~~-k~v~g~GvEid~~~v~~cv~--rGv~Viq~Dld~gL~~f~d~sFD~VIls 82 (193)
T PF07021_consen 12 EPGSRVLDLGCGDGELLAYLKDE-KQVDGYGVEIDPDNVAACVA--RGVSVIQGDLDEGLADFPDQSFDYVILS 82 (193)
T ss_pred CCCCEEEecCCCchHHHHHHHHh-cCCeEEEEecCHHHHHHHHH--cCCCEEECCHHHhHhhCCCCCccEEehH
Confidence 35699999999999999888775 689999998854 444333 589999999988 37764 998874
No 76
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=97.53 E-value=0.00035 Score=58.23 Aligned_cols=73 Identities=14% Similarity=0.073 Sum_probs=51.7
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-----CCceEEeccCCC-CCCCC-C
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-----PGVEHVGGDMFV-EVPKG-Q 261 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-----~ri~~~~gD~f~-~~P~~-D 261 (266)
..+++.++ .....+|+|||||+|..+..++++ ..+++++|+. ..++.++.. -.+++...|+.. +++.. |
T Consensus 20 ~~l~~~~~-~~~~~~vLDiGcG~G~~a~~la~~--g~~V~~iD~s~~~l~~a~~~~~~~~~~v~~~~~d~~~~~~~~~fD 96 (195)
T TIGR00477 20 SAVREAVK-TVAPCKTLDLGCGQGRNSLYLSLA--GYDVRAWDHNPASIASVLDMKARENLPLRTDAYDINAAALNEDYD 96 (195)
T ss_pred HHHHHHhc-cCCCCcEEEeCCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHHhCCCceeEeccchhccccCCCC
Confidence 35556655 445689999999999999999986 5689999994 466654421 136777788765 44444 8
Q ss_pred EEEe
Q 046424 262 AIFM 265 (266)
Q Consensus 262 ~~~l 265 (266)
+++.
T Consensus 97 ~I~~ 100 (195)
T TIGR00477 97 FIFS 100 (195)
T ss_pred EEEE
Confidence 8763
No 77
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=97.53 E-value=0.0002 Score=62.67 Aligned_cols=67 Identities=21% Similarity=0.285 Sum_probs=52.8
Q ss_pred CCCCceEEEecCCccHHHHHHHHH-CCCCeEEEeec-hHHHhhCCC------CCCceEEeccCCC-CCCCC--CEEEe
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSK-YPQLRGINFDL-PHVLKHAPS------CPGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~-~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
.....+|||||||+|..+..+++. .|+.+++++|+ |..++.++. .++++++.+|+.+ ++|.+ |+++.
T Consensus 75 ~~~g~~VLDiG~G~G~~~~~~a~~~g~~~~v~gvD~s~~~l~~A~~~~~~~g~~~v~~~~~d~~~l~~~~~~fD~Vi~ 152 (272)
T PRK11873 75 LKPGETVLDLGSGGGFDCFLAARRVGPTGKVIGVDMTPEMLAKARANARKAGYTNVEFRLGEIEALPVADNSVDVIIS 152 (272)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEECCCHHHHHHHHHHHHHcCCCCEEEEEcchhhCCCCCCceeEEEE
Confidence 456789999999999988877776 46778999998 667777654 2689999999877 66653 88863
No 78
>PRK00811 spermidine synthase; Provisional
Probab=97.52 E-value=0.00012 Score=64.70 Aligned_cols=66 Identities=18% Similarity=0.243 Sum_probs=51.9
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC-----------CCCceEEeccCCCC--CCC-C-CEE
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS-----------CPGVEHVGGDMFVE--VPK-G-QAI 263 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-----------~~ri~~~~gD~f~~--~P~-~-D~~ 263 (266)
.++++|++||||.|..+..+++..+..+++++|+. .|++.+++ .+|++++.+|..+- .+. . |+|
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 36789999999999999999976566689999994 57776653 37899999998872 233 3 998
Q ss_pred Ee
Q 046424 264 FM 265 (266)
Q Consensus 264 ~l 265 (266)
++
T Consensus 155 i~ 156 (283)
T PRK00811 155 IV 156 (283)
T ss_pred EE
Confidence 75
No 79
>KOG1540 consensus Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]
Probab=97.51 E-value=0.00056 Score=58.65 Aligned_cols=65 Identities=26% Similarity=0.303 Sum_probs=55.0
Q ss_pred CCceEEEecCCccHHHHHHHHHCCC------CeEEEeec-hHHHhhCCC---------CCCceEEeccCCC-CCCCC--C
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQ------LRGINFDL-PHVLKHAPS---------CPGVEHVGGDMFV-EVPKG--Q 261 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~------l~~~v~Dl-p~vi~~a~~---------~~ri~~~~gD~f~-~~P~~--D 261 (266)
...++|||+||+|-.+..|++.-+. -+++|.|+ |+.+..++. .+|+.++.+|-=+ |+|.. |
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 3589999999999999999999888 78999999 556666543 2569999999988 99985 9
Q ss_pred EEEe
Q 046424 262 AIFM 265 (266)
Q Consensus 262 ~~~l 265 (266)
+|.+
T Consensus 180 ~yTi 183 (296)
T KOG1540|consen 180 AYTI 183 (296)
T ss_pred eEEE
Confidence 9986
No 80
>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated
Probab=97.51 E-value=0.00032 Score=59.49 Aligned_cols=63 Identities=13% Similarity=0.206 Sum_probs=47.3
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCCCCCCC-CEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFVEVPKG-QAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~~~P~~-D~~~l 265 (266)
....+|+|||||+|.++..+++..+ +++++|+ |..++.++.. ++|++..+| ++..+.. |+++.
T Consensus 62 ~~~~~vLDvGcG~G~~~~~l~~~~~--~v~~~D~s~~~i~~a~~~~~~~~~~~~i~~~~~d-~~~~~~~fD~v~~ 133 (230)
T PRK07580 62 LTGLRILDAGCGVGSLSIPLARRGA--KVVASDISPQMVEEARERAPEAGLAGNITFEVGD-LESLLGRFDTVVC 133 (230)
T ss_pred CCCCEEEEEeCCCCHHHHHHHHcCC--EEEEEECCHHHHHHHHHHHHhcCCccCcEEEEcC-chhccCCcCEEEE
Confidence 3567999999999999999998865 5999998 4566666541 489999999 4433333 87763
No 81
>PRK01581 speE spermidine synthase; Validated
Probab=97.44 E-value=0.00023 Score=64.59 Aligned_cols=66 Identities=17% Similarity=0.082 Sum_probs=52.7
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------------CCCceEEeccCCCC---CCCC-C
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS-------------CPGVEHVGGDMFVE---VPKG-Q 261 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------------~~ri~~~~gD~f~~---~P~~-D 261 (266)
.++.+||+||||.|..+.++++..|..+++++|+. .|++.++. .+|++++.+|-++- .+.. |
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 46789999999999999999986666789999995 57887663 27999999998872 2334 9
Q ss_pred EEEe
Q 046424 262 AIFM 265 (266)
Q Consensus 262 ~~~l 265 (266)
+|++
T Consensus 229 VIIv 232 (374)
T PRK01581 229 VIII 232 (374)
T ss_pred EEEE
Confidence 8875
No 82
>PRK14968 putative methyltransferase; Provisional
Probab=97.42 E-value=0.00037 Score=57.02 Aligned_cols=63 Identities=17% Similarity=0.270 Sum_probs=49.7
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CC-ceEEeccCCCCCCC-C-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-------PG-VEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~r-i~~~~gD~f~~~P~-~-D~~~l 265 (266)
+..+++|+|||+|..+..++++ ..+++.+|+ |.+++.++.+ .+ ++++.+|++++++. . |+++.
T Consensus 23 ~~~~vLd~G~G~G~~~~~l~~~--~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~d~vi~ 96 (188)
T PRK14968 23 KGDRVLEVGTGSGIVAIVAAKN--GKKVVGVDINPYAVECAKCNAKLNNIRNNGVEVIRSDLFEPFRGDKFDVILF 96 (188)
T ss_pred CCCEEEEEccccCHHHHHHHhh--cceEEEEECCHHHHHHHHHHHHHcCCCCcceEEEeccccccccccCceEEEE
Confidence 5578999999999999999998 578999999 4566665431 23 89999999997665 3 88764
No 83
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=97.42 E-value=0.00046 Score=57.57 Aligned_cols=71 Identities=10% Similarity=0.101 Sum_probs=53.3
Q ss_pred HHccCCCCCceEEEecCCccHHHHHHHHH-CCCCeEEEeec-hHHHhhCCC-------CCCceEEeccCCCC---CCCC-
Q 046424 194 EIYKGFEGLNQLVDVAGGLGANLKSIVSK-YPQLRGINFDL-PHVLKHAPS-------CPGVEHVGGDMFVE---VPKG- 260 (266)
Q Consensus 194 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~-~P~l~~~v~Dl-p~vi~~a~~-------~~ri~~~~gD~f~~---~P~~- 260 (266)
..++ .....+++|+|||+|.++..+++. .|..+++.+|+ |+.++.+++ .++++++.+|+.+- .+..
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 3344 556689999999999999999886 46789999999 667765543 15789999998762 2233
Q ss_pred CEEEe
Q 046424 261 QAIFM 265 (266)
Q Consensus 261 D~~~l 265 (266)
|++++
T Consensus 113 D~V~~ 117 (198)
T PRK00377 113 DRIFI 117 (198)
T ss_pred CEEEE
Confidence 88875
No 84
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=97.38 E-value=0.00055 Score=59.38 Aligned_cols=69 Identities=14% Similarity=0.270 Sum_probs=52.2
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC----CCCceEEeccCCC-CCCCCC
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS----CPGVEHVGGDMFV-EVPKGQ 261 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----~~ri~~~~gD~f~-~~P~~D 261 (266)
..+++..+ ..+..+|+|||||.|.+...++++.+. ++++|.. ..++.++. .++++++.+|+.+ +++..|
T Consensus 19 ~~i~~~~~-~~~~~~VLEiG~G~G~lt~~L~~~~~~--v~~iE~d~~~~~~l~~~~~~~~~v~v~~~D~~~~~~~~~d 93 (253)
T TIGR00755 19 QKIVEAAN-VLEGDVVLEIGPGLGALTEPLLKRAKK--VTAIEIDPRLAEILRKLLSLYERLEVIEGDALKVDLPDFP 93 (253)
T ss_pred HHHHHhcC-CCCcCEEEEeCCCCCHHHHHHHHhCCc--EEEEECCHHHHHHHHHHhCcCCcEEEEECchhcCChhHcC
Confidence 45566665 666789999999999999999999975 8888884 35544432 3689999999998 555333
No 85
>PHA03412 putative methyltransferase; Provisional
Probab=97.36 E-value=0.0005 Score=58.81 Aligned_cols=64 Identities=17% Similarity=0.226 Sum_probs=51.4
Q ss_pred CceEEEecCCccHHHHHHHHHC---CCCeEEEeechH-HHhhCCCC-CCceEEeccCCC-CCCCC-CEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKY---PQLRGINFDLPH-VLKHAPSC-PGVEHVGGDMFV-EVPKG-QAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~---P~l~~~v~Dlp~-vi~~a~~~-~ri~~~~gD~f~-~~P~~-D~~~l 265 (266)
..+|||+|||+|.++..++++. ++.+++.+|+.+ .++.++.+ ++++++.+|++. +.+.. |+|+.
T Consensus 50 ~grVLDlG~GSG~Lalala~~~~~~~~~~V~aVEID~~Al~~Ar~n~~~~~~~~~D~~~~~~~~~FDlIIs 120 (241)
T PHA03412 50 SGSVVDLCAGIGGLSFAMVHMMMYAKPREIVCVELNHTYYKLGKRIVPEATWINADALTTEFDTLFDMAIS 120 (241)
T ss_pred CCEEEEccChHHHHHHHHHHhcccCCCcEEEEEECCHHHHHHHHhhccCCEEEEcchhcccccCCccEEEE
Confidence 5799999999999999999875 467899999964 66666654 789999999987 44434 98874
No 86
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=97.35 E-value=0.00061 Score=59.71 Aligned_cols=64 Identities=22% Similarity=0.142 Sum_probs=51.1
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC-------CCCceEEeccCCC
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS-------CPGVEHVGGDMFV 255 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-------~~ri~~~~gD~f~ 255 (266)
+.+++.+. ++...+|||||||-|.+++-.+++| +.+++++++.+ ..+.+++ ..+|++...|+-+
T Consensus 62 ~~~~~kl~-L~~G~~lLDiGCGWG~l~~~aA~~y-~v~V~GvTlS~~Q~~~~~~r~~~~gl~~~v~v~l~d~rd 133 (283)
T COG2230 62 DLILEKLG-LKPGMTLLDIGCGWGGLAIYAAEEY-GVTVVGVTLSEEQLAYAEKRIAARGLEDNVEVRLQDYRD 133 (283)
T ss_pred HHHHHhcC-CCCCCEEEEeCCChhHHHHHHHHHc-CCEEEEeeCCHHHHHHHHHHHHHcCCCcccEEEeccccc
Confidence 45677777 8889999999999999999999999 99999999953 4444332 1478888877765
No 87
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=97.33 E-value=0.00096 Score=55.08 Aligned_cols=56 Identities=20% Similarity=0.236 Sum_probs=45.1
Q ss_pred ccCCCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeechHHHhhCCCCCCceEEeccCCC
Q 046424 196 YKGFEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDLPHVLKHAPSCPGVEHVGGDMFV 255 (266)
Q Consensus 196 ~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp~vi~~a~~~~ri~~~~gD~f~ 255 (266)
+.......+|+|||||+|.++..+++++ +..+++++|+.+.. ..++++++.+|+.+
T Consensus 27 ~~~i~~g~~VLDiG~GtG~~~~~l~~~~~~~~~v~~vDis~~~----~~~~i~~~~~d~~~ 83 (188)
T TIGR00438 27 FKLIKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMK----PIENVDFIRGDFTD 83 (188)
T ss_pred hcccCCCCEEEEecCCCCHHHHHHHHHhCCCceEEEEeccccc----cCCCceEEEeeCCC
Confidence 3334567899999999999999999887 67789999997643 23678999999876
No 88
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=97.32 E-value=0.00058 Score=60.36 Aligned_cols=72 Identities=15% Similarity=0.133 Sum_probs=51.8
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-----CCceEEeccCCC-CCCCC-CE
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-----PGVEHVGGDMFV-EVPKG-QA 262 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-----~ri~~~~gD~f~-~~P~~-D~ 262 (266)
.++..++ .....++||||||+|..+..+++. ..+++++|.. ..++.++.. -++++..+|+.. +++.. |+
T Consensus 111 ~~~~~~~-~~~~~~vLDlGcG~G~~~~~la~~--g~~V~avD~s~~ai~~~~~~~~~~~l~v~~~~~D~~~~~~~~~fD~ 187 (287)
T PRK12335 111 EVLEAVQ-TVKPGKALDLGCGQGRNSLYLALL--GFDVTAVDINQQSLENLQEIAEKENLNIRTGLYDINSASIQEEYDF 187 (287)
T ss_pred HHHHHhh-ccCCCCEEEeCCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHHcCCceEEEEechhcccccCCccE
Confidence 3444444 334569999999999999999886 5789999995 466654431 368888899877 35544 98
Q ss_pred EEe
Q 046424 263 IFM 265 (266)
Q Consensus 263 ~~l 265 (266)
++.
T Consensus 188 I~~ 190 (287)
T PRK12335 188 ILS 190 (287)
T ss_pred EEE
Confidence 864
No 89
>PRK03612 spermidine synthase; Provisional
Probab=97.32 E-value=0.00039 Score=66.57 Aligned_cols=65 Identities=25% Similarity=0.424 Sum_probs=53.1
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCC-CeEEEeec-hHHHhhCCC-------------CCCceEEeccCCC---CCCCC-
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQ-LRGINFDL-PHVLKHAPS-------------CPGVEHVGGDMFV---EVPKG- 260 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dl-p~vi~~a~~-------------~~ri~~~~gD~f~---~~P~~- 260 (266)
++.++|+|||||.|..+.++++ +|. .+++++|+ |++++.+++ .+|++++.+|.++ ..+..
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 3678999999999999999996 566 78999999 678888765 1689999999887 23445
Q ss_pred CEEEe
Q 046424 261 QAIFM 265 (266)
Q Consensus 261 D~~~l 265 (266)
|+|++
T Consensus 375 DvIi~ 379 (521)
T PRK03612 375 DVIIV 379 (521)
T ss_pred CEEEE
Confidence 99875
No 90
>PLN02672 methionine S-methyltransferase
Probab=97.31 E-value=0.00046 Score=70.67 Aligned_cols=63 Identities=17% Similarity=0.136 Sum_probs=50.7
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC----------------------CCCceEEeccCCCCCC
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS----------------------CPGVEHVGGDMFVEVP 258 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----------------------~~ri~~~~gD~f~~~P 258 (266)
..+|+|||||+|..++.+++++|+.+++.+|+. ..++.++. .+||+++.+|+++..+
T Consensus 119 ~~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~~~~~~~~l~~rV~f~~sDl~~~~~ 198 (1082)
T PLN02672 119 DKTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPVYDGEGKTLLDRVEFYESDLLGYCR 198 (1082)
T ss_pred CCEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCcccccccccccccccccccEEEEECchhhhcc
Confidence 368999999999999999999999999999995 46655421 1489999999999664
Q ss_pred C---C-CEEE
Q 046424 259 K---G-QAIF 264 (266)
Q Consensus 259 ~---~-D~~~ 264 (266)
. . |+++
T Consensus 199 ~~~~~fDlIV 208 (1082)
T PLN02672 199 DNNIELDRIV 208 (1082)
T ss_pred ccCCceEEEE
Confidence 3 2 7764
No 91
>PRK14967 putative methyltransferase; Provisional
Probab=97.29 E-value=0.00057 Score=58.07 Aligned_cols=66 Identities=15% Similarity=0.110 Sum_probs=49.5
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-----CCceEEeccCCCCCCC-C-CEEEe
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-----PGVEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-----~ri~~~~gD~f~~~P~-~-D~~~l 265 (266)
.....+|+|+|||+|.++..+++. +..+++++|+. ..++.++.+ -+++++.+|+++.++. . |++++
T Consensus 34 ~~~~~~vLDlGcG~G~~~~~la~~-~~~~v~~vD~s~~~l~~a~~n~~~~~~~~~~~~~d~~~~~~~~~fD~Vi~ 107 (223)
T PRK14967 34 LGPGRRVLDLCTGSGALAVAAAAA-GAGSVTAVDISRRAVRSARLNALLAGVDVDVRRGDWARAVEFRPFDVVVS 107 (223)
T ss_pred cCCCCeEEEecCCHHHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHhCCeeEEEECchhhhccCCCeeEEEE
Confidence 445579999999999999998876 33488999995 456544432 3588899999886664 3 98875
No 92
>PRK04266 fibrillarin; Provisional
Probab=97.28 E-value=0.0013 Score=56.14 Aligned_cols=68 Identities=7% Similarity=0.096 Sum_probs=51.8
Q ss_pred ccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHh----hCCCCCCceEEeccCCCC-----CCCC-CEEE
Q 046424 196 YKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLK----HAPSCPGVEHVGGDMFVE-----VPKG-QAIF 264 (266)
Q Consensus 196 ~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~----~a~~~~ri~~~~gD~f~~-----~P~~-D~~~ 264 (266)
++ .+...+|+|+|||+|.++..+++..+.-+++.+|+.+ .++ .++..++|.++.+|...+ ++.. |+++
T Consensus 68 l~-i~~g~~VlD~G~G~G~~~~~la~~v~~g~V~avD~~~~ml~~l~~~a~~~~nv~~i~~D~~~~~~~~~l~~~~D~i~ 146 (226)
T PRK04266 68 FP-IKKGSKVLYLGAASGTTVSHVSDIVEEGVVYAVEFAPRPMRELLEVAEERKNIIPILADARKPERYAHVVEKVDVIY 146 (226)
T ss_pred CC-CCCCCEEEEEccCCCHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHhhhcCCcEEEECCCCCcchhhhccccCCEEE
Confidence 44 5566899999999999999999999866789999953 333 444446799999998753 3344 8876
No 93
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=97.27 E-value=0.0014 Score=55.22 Aligned_cols=70 Identities=14% Similarity=0.198 Sum_probs=51.0
Q ss_pred HHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEEeccCCCCCCC-C--CE
Q 046424 193 LEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS------CPGVEHVGGDMFVEVPK-G--QA 262 (266)
Q Consensus 193 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gD~f~~~P~-~--D~ 262 (266)
+..++ ..+..+|+|||||+|.++..+++... +++.+|. |..++.+++ ...|+++.+|+++.+|. + |+
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 44444 55678999999999999887777754 6888887 455555543 24699999999886553 3 98
Q ss_pred EEe
Q 046424 263 IFM 265 (266)
Q Consensus 263 ~~l 265 (266)
+++
T Consensus 148 I~~ 150 (212)
T PRK00312 148 ILV 150 (212)
T ss_pred EEE
Confidence 875
No 94
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=97.25 E-value=0.00095 Score=63.14 Aligned_cols=73 Identities=22% Similarity=0.327 Sum_probs=53.6
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC----CCCceEEeccCCC---CCCCC-
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS----CPGVEHVGGDMFV---EVPKG- 260 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----~~ri~~~~gD~f~---~~P~~- 260 (266)
+.+++.++ .....+++|||||+|.++..+++.+. +++++|.. ..++.+.. .++++++.+|+.+ ++|.+
T Consensus 27 ~~il~~l~-~~~~~~vLDlGcG~G~~~~~la~~~~--~v~giD~s~~~l~~a~~~~~~~~~i~~~~~d~~~~~~~~~~~~ 103 (475)
T PLN02336 27 PEILSLLP-PYEGKSVLELGAGIGRFTGELAKKAG--QVIALDFIESVIKKNESINGHYKNVKFMCADVTSPDLNISDGS 103 (475)
T ss_pred hHHHhhcC-ccCCCEEEEeCCCcCHHHHHHHhhCC--EEEEEeCCHHHHHHHHHHhccCCceEEEEecccccccCCCCCC
Confidence 45566655 44557999999999999999999864 68999984 45554332 2679999999964 45553
Q ss_pred -CEEEe
Q 046424 261 -QAIFM 265 (266)
Q Consensus 261 -D~~~l 265 (266)
|+++.
T Consensus 104 fD~I~~ 109 (475)
T PLN02336 104 VDLIFS 109 (475)
T ss_pred EEEEeh
Confidence 98874
No 95
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=97.25 E-value=0.00038 Score=62.55 Aligned_cols=62 Identities=13% Similarity=0.017 Sum_probs=47.2
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-------CCceEEeccCCC-CCCC-C-CEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-------PGVEHVGGDMFV-EVPK-G-QAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gD~f~-~~P~-~-D~~~l 265 (266)
..+|||||||.|.++..+++ ++.+++++|.. +.++.++.+ .+|+++.+|+-+ +.+. . |+++.
T Consensus 132 g~~ILDIGCG~G~~s~~La~--~g~~V~GID~s~~~i~~Ar~~~~~~~~~~~i~~~~~dae~l~~~~~~FD~Vi~ 204 (322)
T PLN02396 132 GLKFIDIGCGGGLLSEPLAR--MGATVTGVDAVDKNVKIARLHADMDPVTSTIEYLCTTAEKLADEGRKFDAVLS 204 (322)
T ss_pred CCEEEEeeCCCCHHHHHHHH--cCCEEEEEeCCHHHHHHHHHHHHhcCcccceeEEecCHHHhhhccCCCCEEEE
Confidence 46899999999999998876 47789999995 466665531 479999999765 4443 3 98874
No 96
>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=97.22 E-value=0.00034 Score=57.91 Aligned_cols=69 Identities=20% Similarity=0.328 Sum_probs=51.5
Q ss_pred HccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----CCCceEEeccCCCCCCCC--CEEEeC
Q 046424 195 IYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS----CPGVEHVGGDMFVEVPKG--QAIFMK 266 (266)
Q Consensus 195 ~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----~~ri~~~~gD~f~~~P~~--D~~~lk 266 (266)
.++ -....++++||||.|.+...|+.+.- +.+++|. |..++.++. .++|+++..|+-+.+|.+ |+|+++
T Consensus 38 aLp-~~ry~~alEvGCs~G~lT~~LA~rCd--~LlavDis~~Al~~Ar~Rl~~~~~V~~~~~dvp~~~P~~~FDLIV~S 113 (201)
T PF05401_consen 38 ALP-RRRYRRALEVGCSIGVLTERLAPRCD--RLLAVDISPRALARARERLAGLPHVEWIQADVPEFWPEGRFDLIVLS 113 (201)
T ss_dssp HHT-TSSEEEEEEE--TTSHHHHHHGGGEE--EEEEEES-HHHHHHHHHHTTT-SSEEEEES-TTT---SS-EEEEEEE
T ss_pred hcC-ccccceeEecCCCccHHHHHHHHhhC--ceEEEeCCHHHHHHHHHhcCCCCCeEEEECcCCCCCCCCCeeEEEEe
Confidence 455 45678999999999999999999973 5799999 668887764 388999999998888876 999874
No 97
>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=97.20 E-value=0.00064 Score=56.75 Aligned_cols=54 Identities=17% Similarity=0.271 Sum_probs=41.7
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCC------CCCCceEEeccCCC
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAP------SCPGVEHVGGDMFV 255 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~------~~~ri~~~~gD~f~ 255 (266)
...+||||||.|.++.++++++|+..++++|.- ..+..+. ..+.+.++.+|...
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 359999999999999999999999999999994 3343332 13789999988776
No 98
>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=97.20 E-value=0.0011 Score=55.02 Aligned_cols=63 Identities=19% Similarity=0.338 Sum_probs=47.2
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCCCCceEEeccCCC---CCCC-C-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSCPGVEHVGGDMFV---EVPK-G-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~~ri~~~~gD~f~---~~P~-~-D~~~l 265 (266)
...+|+|||||+|.++..+++. ...+++++|+. +.++.++. .+++++.+|+.+ +++. . |++++
T Consensus 13 ~~~~iLDiGcG~G~~~~~l~~~-~~~~~~giD~s~~~i~~a~~-~~~~~~~~d~~~~l~~~~~~sfD~Vi~ 81 (194)
T TIGR02081 13 PGSRVLDLGCGDGELLALLRDE-KQVRGYGIEIDQDGVLACVA-RGVNVIQGDLDEGLEAFPDKSFDYVIL 81 (194)
T ss_pred CCCEEEEeCCCCCHHHHHHHhc-cCCcEEEEeCCHHHHHHHHH-cCCeEEEEEhhhcccccCCCCcCEEEE
Confidence 4579999999999999888765 45678899985 45555543 468899999865 2444 3 99875
No 99
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=97.18 E-value=0.0013 Score=58.42 Aligned_cols=72 Identities=14% Similarity=0.262 Sum_probs=53.1
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------CCCceEEeccCCC-CCCCC
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS-------CPGVEHVGGDMFV-EVPKG 260 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gD~f~-~~P~~ 260 (266)
..+++..+ .....+|+|||||.|.+...++++.. +++++|+. ..++.+++ .++++++.+|+.+ +.+.-
T Consensus 26 ~~Iv~~~~-~~~~~~VLEIG~G~G~LT~~Ll~~~~--~V~avEiD~~li~~l~~~~~~~~~~~~v~ii~~Dal~~~~~~~ 102 (294)
T PTZ00338 26 DKIVEKAA-IKPTDTVLEIGPGTGNLTEKLLQLAK--KVIAIEIDPRMVAELKKRFQNSPLASKLEVIEGDALKTEFPYF 102 (294)
T ss_pred HHHHHhcC-CCCcCEEEEecCchHHHHHHHHHhCC--cEEEEECCHHHHHHHHHHHHhcCCCCcEEEEECCHhhhccccc
Confidence 35555555 55668999999999999999999854 68889985 35554432 3689999999998 55544
Q ss_pred CEEE
Q 046424 261 QAIF 264 (266)
Q Consensus 261 D~~~ 264 (266)
|+++
T Consensus 103 d~Vv 106 (294)
T PTZ00338 103 DVCV 106 (294)
T ss_pred CEEE
Confidence 6654
No 100
>PRK04148 hypothetical protein; Provisional
Probab=97.17 E-value=0.0016 Score=50.82 Aligned_cols=69 Identities=19% Similarity=0.250 Sum_probs=49.6
Q ss_pred HHHHccCCCCCceEEEecCCccH-HHHHHHHHCCCCeEEEeech-HHHhhCCCCCCceEEeccCCCCCCC---C-CEEE
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGA-NLKSIVSKYPQLRGINFDLP-HVLKHAPSCPGVEHVGGDMFVEVPK---G-QAIF 264 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~-~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~~ri~~~~gD~f~~~P~---~-D~~~ 264 (266)
+.+.++ -.+..+++|||+|.|. .+..|.+. +..++++|.. ..++.++. ..++++.+|+|++-+. + |+++
T Consensus 8 l~~~~~-~~~~~kileIG~GfG~~vA~~L~~~--G~~ViaIDi~~~aV~~a~~-~~~~~v~dDlf~p~~~~y~~a~liy 82 (134)
T PRK04148 8 IAENYE-KGKNKKIVELGIGFYFKVAKKLKES--GFDVIVIDINEKAVEKAKK-LGLNAFVDDLFNPNLEIYKNAKLIY 82 (134)
T ss_pred HHHhcc-cccCCEEEEEEecCCHHHHHHHHHC--CCEEEEEECCHHHHHHHHH-hCCeEEECcCCCCCHHHHhcCCEEE
Confidence 344444 2234789999999996 77777765 5689999984 56766655 4689999999996443 3 7664
No 101
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=97.14 E-value=0.0011 Score=58.78 Aligned_cols=75 Identities=20% Similarity=0.261 Sum_probs=57.7
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHhhCCCC----CCceEEeccCCC--C-CCC-
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDL-PHVLKHAPSC----PGVEHVGGDMFV--E-VPK- 259 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dl-p~vi~~a~~~----~ri~~~~gD~f~--~-~P~- 259 (266)
..+++.+. ......+||++||.|.++..+++..| +.+++++|. |+.++.+++. +||+++.+||-+ . .+.
T Consensus 9 ~Evl~~L~-~~pg~~vlD~TlG~GGhS~~il~~~~~~g~VigiD~D~~al~~ak~~L~~~~ri~~i~~~f~~l~~~l~~~ 87 (296)
T PRK00050 9 DEVVDALA-IKPDGIYVDGTFGGGGHSRAILERLGPKGRLIAIDRDPDAIAAAKDRLKPFGRFTLVHGNFSNLKEVLAEG 87 (296)
T ss_pred HHHHHhhC-CCCCCEEEEeCcCChHHHHHHHHhCCCCCEEEEEcCCHHHHHHHHHhhccCCcEEEEeCCHHHHHHHHHcC
Confidence 45666654 34457999999999999999999996 789999999 4577766542 589999999986 1 332
Q ss_pred --C-CEEEe
Q 046424 260 --G-QAIFM 265 (266)
Q Consensus 260 --~-D~~~l 265 (266)
. |.+++
T Consensus 88 ~~~vDgIl~ 96 (296)
T PRK00050 88 LGKVDGILL 96 (296)
T ss_pred CCccCEEEE
Confidence 3 77765
No 102
>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=97.13 E-value=0.00058 Score=59.98 Aligned_cols=71 Identities=17% Similarity=0.123 Sum_probs=46.1
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC-------CCCceEEeccCCCCCCCC-C
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS-------CPGVEHVGGDMFVEVPKG-Q 261 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-------~~ri~~~~gD~f~~~P~~-D 261 (266)
.+++..+ .+...+|||||||-|.+++.+++++ +++++++.+.+ ..+.+++ .++|++.-.|+.+ ++.. |
T Consensus 53 ~~~~~~~-l~~G~~vLDiGcGwG~~~~~~a~~~-g~~v~gitlS~~Q~~~a~~~~~~~gl~~~v~v~~~D~~~-~~~~fD 129 (273)
T PF02353_consen 53 LLCEKLG-LKPGDRVLDIGCGWGGLAIYAAERY-GCHVTGITLSEEQAEYARERIREAGLEDRVEVRLQDYRD-LPGKFD 129 (273)
T ss_dssp HHHTTTT---TT-EEEEES-TTSHHHHHHHHHH---EEEEEES-HHHHHHHHHHHHCSTSSSTEEEEES-GGG----S-S
T ss_pred HHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHc-CcEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEeeccc-cCCCCC
Confidence 4566665 7778999999999999999999999 89999999953 3333321 2689999999865 4434 6
Q ss_pred EEE
Q 046424 262 AIF 264 (266)
Q Consensus 262 ~~~ 264 (266)
.|+
T Consensus 130 ~Iv 132 (273)
T PF02353_consen 130 RIV 132 (273)
T ss_dssp EEE
T ss_pred EEE
Confidence 654
No 103
>KOG2904 consensus Predicted methyltransferase [General function prediction only]
Probab=97.13 E-value=0.0012 Score=57.12 Aligned_cols=60 Identities=23% Similarity=0.295 Sum_probs=46.6
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC-------CCCceEE----eccCCCCCC
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS-------CPGVEHV----GGDMFVEVP 258 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-------~~ri~~~----~gD~f~~~P 258 (266)
+.+...++|+|||+|..+..++.-.|..++|.+|..+ .+..|.+ .+||.++ ..|-+.+-|
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 4456799999999999999999999999999999975 4444433 2788777 556666443
No 104
>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=97.12 E-value=0.0012 Score=47.31 Aligned_cols=61 Identities=25% Similarity=0.265 Sum_probs=47.4
Q ss_pred eEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCC------CCCCceEEeccCCCCC---CCC-CEEEe
Q 046424 204 QLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAP------SCPGVEHVGGDMFVEV---PKG-QAIFM 265 (266)
Q Consensus 204 ~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~------~~~ri~~~~gD~f~~~---P~~-D~~~l 265 (266)
+++|||||.|.++..+++ .+..+.+++|+.+ .+..++ ...+++++.+|+.+.. +.. |++++
T Consensus 1 ~ildig~G~G~~~~~~~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~i~~ 72 (107)
T cd02440 1 RVLDLGCGTGALALALAS-GPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPEADESFDVIIS 72 (107)
T ss_pred CeEEEcCCccHHHHHHhc-CCCCEEEEEeCCHHHHHHHHHHHhcccccceEEEEcChhhhccccCCceEEEEE
Confidence 589999999999999998 7888999999864 444333 1368999999999843 334 88875
No 105
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=97.09 E-value=0.0028 Score=56.82 Aligned_cols=72 Identities=11% Similarity=0.022 Sum_probs=48.6
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhh---C----CCCCCceEEeccCCC-CCCCC-C
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKH---A----PSCPGVEHVGGDMFV-EVPKG-Q 261 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~---a----~~~~ri~~~~gD~f~-~~P~~-D 261 (266)
++..+. .....+|+|||||+|.++..++...+. +++++|... .+.. + ....++.+..+|+-+ +.+.. |
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 224589999999999999999998875 789999754 3221 1 123678888887654 32234 8
Q ss_pred EEEe
Q 046424 262 AIFM 265 (266)
Q Consensus 262 ~~~l 265 (266)
+++.
T Consensus 191 ~V~s 194 (314)
T TIGR00452 191 TVFS 194 (314)
T ss_pred EEEE
Confidence 8864
No 106
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=97.08 E-value=0.0013 Score=53.98 Aligned_cols=64 Identities=22% Similarity=0.179 Sum_probs=49.7
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEEeccCCCCCCCCCEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-----PGVEHVGGDMFVEVPKGQAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gD~f~~~P~~D~~~l 265 (266)
..++|+|.|||+|.++++.+-..|. +++.+|+ |+.++.++.+ .+|.|+..|.-+--..-|+++|
T Consensus 45 ~g~~V~DlG~GTG~La~ga~~lGa~-~V~~vdiD~~a~ei~r~N~~~l~g~v~f~~~dv~~~~~~~dtvim 114 (198)
T COG2263 45 EGKTVLDLGAGTGILAIGAALLGAS-RVLAVDIDPEALEIARANAEELLGDVEFVVADVSDFRGKFDTVIM 114 (198)
T ss_pred CCCEEEEcCCCcCHHHHHHHhcCCc-EEEEEecCHHHHHHHHHHHHhhCCceEEEEcchhhcCCccceEEE
Confidence 3488999999999999999888775 7888998 5677776653 5799999998763333366665
No 107
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.04 E-value=0.0023 Score=57.47 Aligned_cols=73 Identities=19% Similarity=0.294 Sum_probs=53.4
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCC-CeEEEeech-HHHhhCCC------CCCceEEeccCCCCCCC--C-
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQ-LRGINFDLP-HVLKHAPS------CPGVEHVGGDMFVEVPK--G- 260 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dlp-~vi~~a~~------~~ri~~~~gD~f~~~P~--~- 260 (266)
+++..+ .+...+|+|||||+|.++..+++..+. -+++.+|.. +.++.+++ .++++++.+|..+..+. .
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 556689999999999999999998874 468889984 56655543 25799999998774432 2
Q ss_pred CEEEe
Q 046424 261 QAIFM 265 (266)
Q Consensus 261 D~~~l 265 (266)
|++++
T Consensus 151 D~Ii~ 155 (322)
T PRK13943 151 DVIFV 155 (322)
T ss_pred cEEEE
Confidence 88875
No 108
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=97.03 E-value=0.001 Score=58.54 Aligned_cols=66 Identities=21% Similarity=0.350 Sum_probs=56.0
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----------CCCceEEeccCCC---CCCCC-CEEE
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS----------CPGVEHVGGDMFV---EVPKG-QAIF 264 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----------~~ri~~~~gD~f~---~~P~~-D~~~ 264 (266)
+++++|+=||||.|..++++++..|.-+++++|+ |.||+.+++ .+|++.+-+|=++ ..+.. |+|+
T Consensus 75 ~~pk~VLiiGgGdG~tlRevlkh~~ve~i~~VEID~~Vi~~ar~~l~~~~~~~~dpRv~i~i~Dg~~~v~~~~~~fDvIi 154 (282)
T COG0421 75 PNPKRVLIIGGGDGGTLREVLKHLPVERITMVEIDPAVIELARKYLPEPSGGADDPRVEIIIDDGVEFLRDCEEKFDVII 154 (282)
T ss_pred CCCCeEEEECCCccHHHHHHHhcCCcceEEEEEcCHHHHHHHHHhccCcccccCCCceEEEeccHHHHHHhCCCcCCEEE
Confidence 4568999999999999999999999889999999 568888764 2899999999887 35545 9987
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
+
T Consensus 155 ~ 155 (282)
T COG0421 155 V 155 (282)
T ss_pred E
Confidence 5
No 109
>PF06325 PrmA: Ribosomal protein L11 methyltransferase (PrmA); InterPro: IPR010456 This family consists of several Ribosomal protein L11 methyltransferase sequences. Its genetic determinant is prmA, which forms a bifunctional operon with the downstream panF gene []. The role of L11 methylation in ribosome function is, as yet, unknown. Deletion of the prmA gene in Escherichia coli showed no obvious effect [] except for the production of undermethylated forms of L11 []. Methylation is the most common post-transcriptional modification to ribosomal proteins in all organisms. PrmA is the only bacterial enzyme that catalyses the methylation of a ribosomal protein [].; GO: 0008276 protein methyltransferase activity, 0006479 protein methylation, 0005737 cytoplasm; PDB: 3GRZ_B 1F3L_A 2NXJ_B 3CJT_I 3CJQ_G 2NXE_A 2NXC_A 2ZBP_A 3EGV_A 3CJS_A ....
Probab=97.03 E-value=0.00073 Score=59.92 Aligned_cols=82 Identities=17% Similarity=0.226 Sum_probs=52.3
Q ss_pred HHHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-------CCce
Q 046424 176 LFNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-------PGVE 247 (266)
Q Consensus 176 ~f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-------~ri~ 247 (266)
.|...-+..++...+. ++.+. . ...+|+|||||+|.+++..++.... +++.+|+. ..++.++++ +++.
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-PGKRVLDVGCGSGILAIAAAKLGAK-KVVAIDIDPLAVEAARENAELNGVEDRIE 214 (295)
T ss_dssp SS-SSHCHHHHHHHHH-HHHHS-S-TTSEEEEES-TTSHHHHHHHHTTBS-EEEEEESSCHHHHHHHHHHHHTT-TTCEE
T ss_pred cccCCCCHHHHHHHHH-HHHhc-c-CCCEEEEeCCcHHHHHHHHHHcCCC-eEEEecCCHHHHHHHHHHHHHcCCCeeEE
Confidence 5666666666666544 44443 3 4579999999999999999998554 78999994 456665542 5665
Q ss_pred EEeccCCCCCCCC--CEEE
Q 046424 248 HVGGDMFVEVPKG--QAIF 264 (266)
Q Consensus 248 ~~~gD~f~~~P~~--D~~~ 264 (266)
+. ...+.+.+ |+++
T Consensus 215 v~---~~~~~~~~~~dlvv 230 (295)
T PF06325_consen 215 VS---LSEDLVEGKFDLVV 230 (295)
T ss_dssp ES---CTSCTCCS-EEEEE
T ss_pred EE---EecccccccCCEEE
Confidence 53 12233333 7775
No 110
>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=97.01 E-value=0.0028 Score=53.61 Aligned_cols=54 Identities=15% Similarity=0.192 Sum_probs=43.2
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCC------------------CCCCceEEeccCCC
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAP------------------SCPGVEHVGGDMFV 255 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~------------------~~~ri~~~~gD~f~ 255 (266)
....+++|+|||.|..+.-|+++ ..++|.+|+.+ .++.+. ...+|+++.+|+|+
T Consensus 33 ~~~~rvLd~GCG~G~da~~LA~~--G~~V~gvD~S~~Ai~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~D~~~ 105 (213)
T TIGR03840 33 PAGARVFVPLCGKSLDLAWLAEQ--GHRVLGVELSEIAVEQFFAENGLTPTVTQQGEFTRYRAGNIEIFCGDFFA 105 (213)
T ss_pred CCCCeEEEeCCCchhHHHHHHhC--CCeEEEEeCCHHHHHHHHHHcCCCcceeccccceeeecCceEEEEccCCC
Confidence 34579999999999999999986 77899999954 455421 12479999999998
No 111
>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=97.00 E-value=0.0012 Score=58.41 Aligned_cols=86 Identities=15% Similarity=0.146 Sum_probs=53.3
Q ss_pred HHHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCC-------CCce
Q 046424 176 LFNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSC-------PGVE 247 (266)
Q Consensus 176 ~f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~-------~ri~ 247 (266)
.|..+.+..+.... .+++.+. . ...+|+|||||+|.++..+++. +..+++.+|+.+ .++.++.+ .++.
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 35444444444332 2334443 2 4589999999999999888765 445899999964 55555432 4677
Q ss_pred EEeccCCCCCCCC-CEEEe
Q 046424 248 HVGGDMFVEVPKG-QAIFM 265 (266)
Q Consensus 248 ~~~gD~f~~~P~~-D~~~l 265 (266)
+..+|.....+.. |+++.
T Consensus 213 ~~~~~~~~~~~~~fDlVva 231 (288)
T TIGR00406 213 VKLIYLEQPIEGKADVIVA 231 (288)
T ss_pred EEecccccccCCCceEEEE
Confidence 7766643333334 88864
No 112
>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=97.00 E-value=0.00027 Score=45.86 Aligned_cols=46 Identities=28% Similarity=0.403 Sum_probs=40.0
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.|+++|.+.+ .++|+.|||+++|+ +..-+.|+|..|...|+++++
T Consensus 6 l~iL~~l~~~~-~~~t~~eia~~~gl----~~stv~r~L~tL~~~g~v~~d 51 (52)
T PF09339_consen 6 LRILEALAESG-GPLTLSEIARALGL----PKSTVHRLLQTLVEEGYVERD 51 (52)
T ss_dssp HHHHHCHHCTB-SCEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEC
T ss_pred HHHHHHHHcCC-CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCcCeecC
Confidence 46788888875 37899999999999 999999999999999999975
No 113
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=96.99 E-value=0.0023 Score=58.95 Aligned_cols=71 Identities=15% Similarity=0.102 Sum_probs=51.3
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC---CCceEEeccCCCCCCCC-CEEE
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC---PGVEHVGGDMFVEVPKG-QAIF 264 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~---~ri~~~~gD~f~~~P~~-D~~~ 264 (266)
.+++.+. .....+|||||||.|.++..+++.+ +.+++++|+ |..++.+++. ..+++...|+.+ .+.. |+++
T Consensus 158 ~l~~~l~-l~~g~rVLDIGcG~G~~a~~la~~~-g~~V~giDlS~~~l~~A~~~~~~l~v~~~~~D~~~-l~~~fD~Iv 233 (383)
T PRK11705 158 LICRKLQ-LKPGMRVLDIGCGWGGLARYAAEHY-GVSVVGVTISAEQQKLAQERCAGLPVEIRLQDYRD-LNGQFDRIV 233 (383)
T ss_pred HHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHC-CCEEEEEeCCHHHHHHHHHHhccCeEEEEECchhh-cCCCCCEEE
Confidence 3455555 5567899999999999999998876 679999998 4566665532 247888888754 3333 7765
No 114
>PLN02823 spermine synthase
Probab=96.98 E-value=0.0012 Score=59.71 Aligned_cols=66 Identities=14% Similarity=0.166 Sum_probs=53.4
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----------CCCceEEeccCCCC---CCCC-CEEE
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS----------CPGVEHVGGDMFVE---VPKG-QAIF 264 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----------~~ri~~~~gD~f~~---~P~~-D~~~ 264 (266)
.++++|+-||||.|..+.++++..+..+++++|+ |.|++.+++ .+|++++.+|-++- .+.. |+|+
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 3678999999999999999998777778999999 558887764 27999999998872 2334 8887
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
+
T Consensus 182 ~ 182 (336)
T PLN02823 182 G 182 (336)
T ss_pred e
Confidence 5
No 115
>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=96.94 E-value=0.0014 Score=58.41 Aligned_cols=62 Identities=19% Similarity=0.283 Sum_probs=47.0
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeechH-HHhhCCC-----CC--CceEEeccCCC
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLPH-VLKHAPS-----CP--GVEHVGGDMFV 255 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp~-vi~~a~~-----~~--ri~~~~gD~f~ 255 (266)
.+++.++ ...+|+|+|||+|.....|+++.+ ..+++.+|+.+ .++.+.. .+ +|+++.+||++
T Consensus 56 ~ia~~~~---~~~~iLELGcGtG~~t~~Ll~~l~~~~~~~~iDiS~~mL~~a~~~l~~~~p~~~v~~i~gD~~~ 126 (301)
T TIGR03438 56 EIAAATG---AGCELVELGSGSSRKTRLLLDALRQPARYVPIDISADALKESAAALAADYPQLEVHGICADFTQ 126 (301)
T ss_pred HHHHhhC---CCCeEEecCCCcchhHHHHHHhhccCCeEEEEECCHHHHHHHHHHHHhhCCCceEEEEEEcccc
Confidence 4444443 457899999999999999999998 68899999975 4444432 23 46678999987
No 116
>TIGR00417 speE spermidine synthase. the SpeE subunit of spermidine synthase catalysesthe reaction (putrescine + S-adenosylmethioninamine = spermidine + 5'-methylthioadenosine) and is involved in polyamine biosynthesis and in the biosynthesis of spermidine from arganine. The region between residues 77 and 120 of the seed alignment is thought to be involved in binding to decarboxylated SAM.
Probab=96.93 E-value=0.0013 Score=57.58 Aligned_cols=66 Identities=17% Similarity=0.268 Sum_probs=50.7
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC----------CCCceEEeccCCC--C-CCCC-CEEE
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS----------CPGVEHVGGDMFV--E-VPKG-QAIF 264 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----------~~ri~~~~gD~f~--~-~P~~-D~~~ 264 (266)
+++.+|++||||.|..+..+++..+..+++++|+. .+++.+++ .+|++++.+|.++ . .+.. |+|+
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 35679999999999999999987767789999995 46665543 2689999999876 2 2334 8887
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
+
T Consensus 151 ~ 151 (270)
T TIGR00417 151 V 151 (270)
T ss_pred E
Confidence 5
No 117
>KOG1271 consensus Methyltransferases [General function prediction only]
Probab=96.91 E-value=0.0021 Score=52.48 Aligned_cols=64 Identities=13% Similarity=0.127 Sum_probs=45.2
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC------C-CCceEEeccCCCC--CCCC-CEEE
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS------C-PGVEHVGGDMFVE--VPKG-QAIF 264 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~------~-~ri~~~~gD~f~~--~P~~-D~~~ 264 (266)
...+|||+|||+|+++.+|++.--.-+-+++|-. ..++.|+. . +.|+|+..|+++| .+.. |+++
T Consensus 67 ~A~~VlDLGtGNG~~L~~L~~egf~~~L~GvDYs~~AV~LA~niAe~~~~~n~I~f~q~DI~~~~~~~~qfdlvl 141 (227)
T KOG1271|consen 67 QADRVLDLGTGNGHLLFQLAKEGFQSKLTGVDYSEKAVELAQNIAERDGFSNEIRFQQLDITDPDFLSGQFDLVL 141 (227)
T ss_pred cccceeeccCCchHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHhcCCCcceeEEEeeccCCcccccceeEEe
Confidence 3459999999999999999987433334666764 34444432 2 3499999999994 3444 8776
No 118
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=96.89 E-value=0.0019 Score=44.33 Aligned_cols=61 Identities=18% Similarity=0.160 Sum_probs=49.3
Q ss_pred HHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 40 ATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 40 a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
..+-.|+..|.+.|+.++|+.|||+++|+ +...+.|+|.-|...|+|+.... . .+.|.++.
T Consensus 6 ~~~~~IL~~L~~~g~~~~ta~eLa~~lgl----~~~~v~r~L~~L~~~G~V~~~~~----~--~~~W~i~~ 66 (68)
T smart00550 6 SLEEKILEFLENSGDETSTALQLAKNLGL----PKKEVNRVLYSLEKKGKVCKQGG----T--PPLWKLTD 66 (68)
T ss_pred HHHHHHHHHHHHCCCCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecCC----C--CCceEeec
Confidence 45667899999887213999999999999 99999999999999999997621 1 46788764
No 119
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=96.88 E-value=0.0017 Score=54.41 Aligned_cols=64 Identities=14% Similarity=0.137 Sum_probs=47.6
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEEeccCCCCCC--C-C-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFVEVP--K-G-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~~~P--~-~-D~~~l 265 (266)
...+++|+|||+|.++..++.+.. .+++.+|.. +.++.++.+ .+++++.+|+++.++ . . |++++
T Consensus 53 ~~~~vLDl~~GsG~l~l~~lsr~a-~~V~~vE~~~~a~~~a~~Nl~~~~~~~v~~~~~D~~~~l~~~~~~fDlV~~ 127 (199)
T PRK10909 53 VDARCLDCFAGSGALGLEALSRYA-AGATLLEMDRAVAQQLIKNLATLKAGNARVVNTNALSFLAQPGTPHNVVFV 127 (199)
T ss_pred CCCEEEEcCCCccHHHHHHHHcCC-CEEEEEECCHHHHHHHHHHHHHhCCCcEEEEEchHHHHHhhcCCCceEEEE
Confidence 346999999999999998777664 588999984 455554432 579999999987332 2 2 88876
No 120
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=96.87 E-value=0.001 Score=58.86 Aligned_cols=64 Identities=19% Similarity=0.245 Sum_probs=45.7
Q ss_pred HHHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC
Q 046424 176 LFNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC 243 (266)
Q Consensus 176 ~f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~ 243 (266)
.|-.+-+..+.+.. .+++.+. .+..+++|||||+|.++++.++.-.. +++++|+. ..++.++++
T Consensus 140 AFGTG~HpTT~lcL-~~Le~~~--~~g~~vlDvGcGSGILaIAa~kLGA~-~v~g~DiDp~AV~aa~eN 204 (300)
T COG2264 140 AFGTGTHPTTSLCL-EALEKLL--KKGKTVLDVGCGSGILAIAAAKLGAK-KVVGVDIDPQAVEAAREN 204 (300)
T ss_pred ccCCCCChhHHHHH-HHHHHhh--cCCCEEEEecCChhHHHHHHHHcCCc-eEEEecCCHHHHHHHHHH
Confidence 56555555555554 3455554 47799999999999999999887653 68999995 466666653
No 121
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=96.87 E-value=0.0027 Score=54.47 Aligned_cols=67 Identities=10% Similarity=0.132 Sum_probs=51.9
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeech-HHHhhCCCC-------CCceEEeccCCCCCC--------CC-
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLP-HVLKHAPSC-------PGVEHVGGDMFVEVP--------KG- 260 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gD~f~~~P--------~~- 260 (266)
..+.++++|||+|+|..+..+++..| +.+++.+|.. +.++.|+++ ++|+++.||..+-+| ..
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 34689999999999999999998865 7889999995 455555542 689999999987321 23
Q ss_pred CEEEe
Q 046424 261 QAIFM 265 (266)
Q Consensus 261 D~~~l 265 (266)
|++++
T Consensus 146 D~Vfi 150 (234)
T PLN02781 146 DFAFV 150 (234)
T ss_pred CEEEE
Confidence 88875
No 122
>KOG1500 consensus Protein arginine N-methyltransferase CARM1 [Posttranslational modification, protein turnover, chaperones; Transcription]
Probab=96.86 E-value=0.003 Score=56.27 Aligned_cols=73 Identities=18% Similarity=0.219 Sum_probs=54.3
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCC-------CCCceEEeccCCC-CCCCC-
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPS-------CPGVEHVGGDMFV-EVPKG- 260 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~-------~~ri~~~~gD~f~-~~P~~- 260 (266)
+++++.-.+|++ +.|||||+|+|.++.-.+.+-. -++..++-.++.+.|+. .+||++++|-.=+ ++|+.
T Consensus 167 ~Ail~N~sDF~~-kiVlDVGaGSGILS~FAaqAGA-~~vYAvEAS~MAqyA~~Lv~~N~~~~rItVI~GKiEdieLPEk~ 244 (517)
T KOG1500|consen 167 RAILENHSDFQD-KIVLDVGAGSGILSFFAAQAGA-KKVYAVEASEMAQYARKLVASNNLADRITVIPGKIEDIELPEKV 244 (517)
T ss_pred HHHHhcccccCC-cEEEEecCCccHHHHHHHHhCc-ceEEEEehhHHHHHHHHHHhcCCccceEEEccCccccccCchhc
Confidence 455554333644 8999999999998876666543 35777887777666553 2899999999988 89987
Q ss_pred CEEE
Q 046424 261 QAIF 264 (266)
Q Consensus 261 D~~~ 264 (266)
|+++
T Consensus 245 DviI 248 (517)
T KOG1500|consen 245 DVII 248 (517)
T ss_pred cEEE
Confidence 9875
No 123
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=96.85 E-value=0.0025 Score=59.92 Aligned_cols=72 Identities=15% Similarity=0.168 Sum_probs=54.3
Q ss_pred HHHccCCCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHhhCCCC------CCceEEeccCCCC---CCCC-
Q 046424 193 LEIYKGFEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFVE---VPKG- 260 (266)
Q Consensus 193 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~~---~P~~- 260 (266)
...++ .....+|+|+|||+|..+..+++.. |+.+++.+|+ +..++.++.+ +.|+++.+|+.+. ++..
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 34444 4456899999999999999999986 7789999999 5566655431 4589999999762 4444
Q ss_pred CEEEe
Q 046424 261 QAIFM 265 (266)
Q Consensus 261 D~~~l 265 (266)
|++++
T Consensus 322 D~Vl~ 326 (444)
T PRK14902 322 DKILV 326 (444)
T ss_pred CEEEE
Confidence 98875
No 124
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=96.81 E-value=0.0018 Score=46.67 Aligned_cols=59 Identities=22% Similarity=0.333 Sum_probs=48.5
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchh
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPV 111 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~ 111 (266)
.-+.|++.|...+ +++|+.|||+.+|+ +...+.|.|..|...|++.... . ++.|++++.
T Consensus 6 r~~~Il~~l~~~~-~~~t~~~ia~~l~i----~~~tv~r~l~~L~~~g~l~~~~---~----~~~y~l~~~ 64 (91)
T smart00346 6 RGLAVLRALAEEP-GGLTLAELAERLGL----SKSTAHRLLNTLQELGYVEQDG---Q----NGRYRLGPK 64 (91)
T ss_pred HHHHHHHHHHhCC-CCcCHHHHHHHhCC----CHHHHHHHHHHHHHCCCeeecC---C----CCceeecHH
Confidence 3456888888762 28999999999999 9999999999999999999752 1 567888763
No 125
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=96.78 E-value=0.0024 Score=57.27 Aligned_cols=62 Identities=10% Similarity=0.070 Sum_probs=47.8
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEEeccCCCC---CCCC-CEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFVE---VPKG-QAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~~---~P~~-D~~~l 265 (266)
..+|+|+|||+|.++..+++. ..+++.+|.. +.++.++.+ ++++++.+|+.+- .... |++++
T Consensus 174 ~~~VLDl~cG~G~~sl~la~~--~~~V~gvD~s~~av~~A~~n~~~~~l~~v~~~~~D~~~~~~~~~~~~D~Vv~ 246 (315)
T PRK03522 174 PRSMWDLFCGVGGFGLHCATP--GMQLTGIEISAEAIACAKQSAAELGLTNVQFQALDSTQFATAQGEVPDLVLV 246 (315)
T ss_pred CCEEEEccCCCCHHHHHHHhc--CCEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEcCHHHHHHhcCCCCeEEEE
Confidence 489999999999999999984 4689999994 566665532 5799999999762 2223 88875
No 126
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=96.78 E-value=0.0032 Score=59.17 Aligned_cols=71 Identities=13% Similarity=0.171 Sum_probs=51.8
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEEeccCCCCC-----CC
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFVEV-----PK 259 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~~~-----P~ 259 (266)
+++.+. .....+|+|+|||+|.++..+++.. .+++.+|.. +.++.++.+ ++++++.+|+.+.+ +.
T Consensus 289 vl~~l~-~~~~~~VLDlgcGtG~~sl~la~~~--~~V~gvD~s~~al~~A~~n~~~~~~~~v~~~~~d~~~~l~~~~~~~ 365 (443)
T PRK13168 289 ALEWLD-PQPGDRVLDLFCGLGNFTLPLARQA--AEVVGVEGVEAMVERARENARRNGLDNVTFYHANLEEDFTDQPWAL 365 (443)
T ss_pred HHHHhc-CCCCCEEEEEeccCCHHHHHHHHhC--CEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEeChHHhhhhhhhhc
Confidence 334333 3345799999999999999999886 578999995 466665542 57999999987532 22
Q ss_pred -C-CEEEe
Q 046424 260 -G-QAIFM 265 (266)
Q Consensus 260 -~-D~~~l 265 (266)
. |++++
T Consensus 366 ~~fD~Vi~ 373 (443)
T PRK13168 366 GGFDKVLL 373 (443)
T ss_pred CCCCEEEE
Confidence 2 88875
No 127
>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=96.77 E-value=0.0041 Score=51.65 Aligned_cols=72 Identities=18% Similarity=0.220 Sum_probs=49.9
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC-----CCCceEEeccCCC-CCCCC-C
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS-----CPGVEHVGGDMFV-EVPKG-Q 261 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-----~~ri~~~~gD~f~-~~P~~-D 261 (266)
..+++.++ .-...++||+|||.|..+.-|+++ +..++.+|..+ .++.++. .-.|+....|+.+ ++|.. |
T Consensus 20 s~v~~a~~-~~~~g~~LDlgcG~GRNalyLA~~--G~~VtAvD~s~~al~~l~~~a~~~~l~i~~~~~Dl~~~~~~~~yD 96 (192)
T PF03848_consen 20 SEVLEAVP-LLKPGKALDLGCGEGRNALYLASQ--GFDVTAVDISPVALEKLQRLAEEEGLDIRTRVADLNDFDFPEEYD 96 (192)
T ss_dssp HHHHHHCT-TS-SSEEEEES-TTSHHHHHHHHT--T-EEEEEESSHHHHHHHHHHHHHTT-TEEEEE-BGCCBS-TTTEE
T ss_pred HHHHHHHh-hcCCCcEEEcCCCCcHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHhhcCceeEEEEecchhccccCCcC
Confidence 34666666 446789999999999999999999 66799999964 3443321 1238899999988 66666 8
Q ss_pred EEE
Q 046424 262 AIF 264 (266)
Q Consensus 262 ~~~ 264 (266)
+|+
T Consensus 97 ~I~ 99 (192)
T PF03848_consen 97 FIV 99 (192)
T ss_dssp EEE
T ss_pred EEE
Confidence 875
No 128
>PTZ00146 fibrillarin; Provisional
Probab=96.73 E-value=0.0065 Score=53.68 Aligned_cols=67 Identities=10% Similarity=0.093 Sum_probs=51.2
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeechH-----HHhhCCCCCCceEEeccCCCCC----C-CC-CEEEe
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLPH-----VLKHAPSCPGVEHVGGDMFVEV----P-KG-QAIFM 265 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp~-----vi~~a~~~~ri~~~~gD~f~~~----P-~~-D~~~l 265 (266)
++...+|||+|||+|.++..+++... .=+++.+|+.+ .++.++..++|.++.+|...+. + .. |++++
T Consensus 130 IkpG~~VLDLGaG~G~~t~~lAdiVG~~G~VyAVD~s~r~~~dLl~~ak~r~NI~~I~~Da~~p~~y~~~~~~vDvV~~ 208 (293)
T PTZ00146 130 IKPGSKVLYLGAASGTTVSHVSDLVGPEGVVYAVEFSHRSGRDLTNMAKKRPNIVPIIEDARYPQKYRMLVPMVDVIFA 208 (293)
T ss_pred cCCCCEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECcHHHHHHHHHHhhhcCCCEEEECCccChhhhhcccCCCCEEEE
Confidence 45668999999999999999999863 45789999864 4555555578999999987642 2 23 98875
No 129
>PF05148 Methyltransf_8: Hypothetical methyltransferase; InterPro: IPR007823 This family consists of uncharacterised eukaryotic proteins which are related to S-adenosyl-L-methionine-dependent methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 2ZFU_B.
Probab=96.67 E-value=0.011 Score=49.43 Aligned_cols=108 Identities=13% Similarity=0.161 Sum_probs=57.5
Q ss_pred hhhhHHHHHhcCCchhhhhccCCcchhccccChhHHHHHHHH----HHhcchhhHHHHHHHccCCCCCceEEEecCCccH
Q 046424 139 SWSCAKDALLEGSVPFMKAHNGMDGFAAAAKDERINNLFNQS----MHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGA 214 (266)
Q Consensus 139 ~~~~L~e~l~~g~~~f~~~~~g~~~~~~~~~~p~~~~~f~~~----m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~ 214 (266)
-++.|.|.+-+.. +..-++.++++|+.-..||++ +..|...+...+++.+..-++...|.|.|||.+.
T Consensus 14 rFR~lNE~LYT~~--------s~~A~~lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~~~~~~~viaD~GCGdA~ 85 (219)
T PF05148_consen 14 RFRWLNEQLYTTS--------SEEALKLFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLKKRPKSLVIADFGCGDAK 85 (219)
T ss_dssp HHHHHHHHHHHS---------HHHHHHHHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHCTS-TTS-EEEES-TT-H
T ss_pred chHHHHHhHhcCC--------HHHHHHHHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHhcCCCEEEEECCCchHH
Confidence 4455666664433 223344456677666555544 4444445556666666533456799999999999
Q ss_pred HHHHHHHHCCCCeEEEeechHHHhhCCCCCCceEEeccCCC-CCCCC--CEEEe
Q 046424 215 NLKSIVSKYPQLRGINFDLPHVLKHAPSCPGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 215 ~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
.+..+.+ ..++.-+||-.. +++ +.+.||-. |++.+ |++++
T Consensus 86 la~~~~~---~~~V~SfDLva~------n~~--Vtacdia~vPL~~~svDv~Vf 128 (219)
T PF05148_consen 86 LAKAVPN---KHKVHSFDLVAP------NPR--VTACDIANVPLEDESVDVAVF 128 (219)
T ss_dssp HHHH--S------EEEEESS-S------STT--EEES-TTS-S--TT-EEEEEE
T ss_pred HHHhccc---CceEEEeeccCC------CCC--EEEecCccCcCCCCceeEEEE
Confidence 9966542 346888898332 234 56799976 77775 88775
No 130
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=96.65 E-value=0.0058 Score=55.13 Aligned_cols=65 Identities=17% Similarity=0.065 Sum_probs=49.3
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEEeccCCC-CCCC-C-CEEEe
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFV-EVPK-G-QAIFM 265 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~-~~P~-~-D~~~l 265 (266)
++...+|+|+|||+|.++.+++.. ..++++.|+ |..+..++.+ +.++++.+|+.+ +++. . |++++
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 566789999999999999886654 678899999 4566654432 448899999998 6654 3 88875
No 131
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=96.63 E-value=0.0041 Score=55.78 Aligned_cols=61 Identities=10% Similarity=0.008 Sum_probs=45.7
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCC-----------CCceEEeccCCCCCCCC-CEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSC-----------PGVEHVGGDMFVEVPKG-QAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~-----------~ri~~~~gD~f~~~P~~-D~~~l 265 (266)
..+|||||||+|.++..++++ ..+++++|+.+ .++.++.+ .++++..+|+.+ ++.. |+++.
T Consensus 145 ~~~VLDlGcGtG~~a~~la~~--g~~V~gvD~S~~ml~~A~~~~~~~~~~~~~~~~~~f~~~Dl~~-l~~~fD~Vv~ 218 (315)
T PLN02585 145 GVTVCDAGCGTGSLAIPLALE--GAIVSASDISAAMVAEAERRAKEALAALPPEVLPKFEANDLES-LSGKYDTVTC 218 (315)
T ss_pred CCEEEEecCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcccccccccceEEEEcchhh-cCCCcCEEEE
Confidence 479999999999999999986 56899999965 66554431 357888888753 3344 87763
No 132
>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=96.63 E-value=0.0053 Score=57.68 Aligned_cols=95 Identities=14% Similarity=0.164 Sum_probs=58.2
Q ss_pred chhccccChhHHHHHHHHHHhcchhhHHHHHHHccCCC---CCceEEEecCCccHHHHHHHHHC----CCCeEEEeech-
Q 046424 163 GFAAAAKDERINNLFNQSMHNHTTIVMKEILEIYKGFE---GLNQLVDVAGGLGANLKSIVSKY----PQLRGINFDLP- 234 (266)
Q Consensus 163 ~~~~~~~~p~~~~~f~~~m~~~~~~~~~~i~~~~~~~~---~~~~vvDVGGG~G~~~~~l~~~~----P~l~~~v~Dlp- 234 (266)
-|+.+++|+..-+.|.+++.. .+.+....-+ +...|+|||+|+|.++...+++. -..+++.++-.
T Consensus 152 tYe~fE~D~vKY~~Ye~AI~~-------al~D~~~~~~~~~~~~vVldVGAGrGpL~~~al~A~~~~~~a~~VyAVEkn~ 224 (448)
T PF05185_consen 152 TYEVFEKDPVKYDQYERAIEE-------ALKDRVRKNSYSSKDKVVLDVGAGRGPLSMFALQAGARAGGAVKVYAVEKNP 224 (448)
T ss_dssp HHHHHCC-HHHHHHHHHHHHH-------HHHHHHTTS-SEETT-EEEEES-TTSHHHHHHHHTTHHHCCESEEEEEESST
T ss_pred cHhhHhcCHHHHHHHHHHHHH-------HHHhhhhhccccccceEEEEeCCCccHHHHHHHHHHHHhCCCeEEEEEcCCH
Confidence 567777777655666655422 2333322111 35789999999999987766654 45778888764
Q ss_pred HHHhhC----CC---CCCceEEeccCCC-CCCCC-CEEE
Q 046424 235 HVLKHA----PS---CPGVEHVGGDMFV-EVPKG-QAIF 264 (266)
Q Consensus 235 ~vi~~a----~~---~~ri~~~~gD~f~-~~P~~-D~~~ 264 (266)
..+... +. .++|+++.+||-+ ..|.. |+++
T Consensus 225 ~A~~~l~~~v~~n~w~~~V~vi~~d~r~v~lpekvDIIV 263 (448)
T PF05185_consen 225 NAVVTLQKRVNANGWGDKVTVIHGDMREVELPEKVDIIV 263 (448)
T ss_dssp HHHHHHHHHHHHTTTTTTEEEEES-TTTSCHSS-EEEEE
T ss_pred hHHHHHHHHHHhcCCCCeEEEEeCcccCCCCCCceeEEE
Confidence 322221 11 2799999999999 78876 9875
No 133
>PF01135 PCMT: Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2.1.1.77 from EC) (PCMT) [] (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyses the transfer of a methyl group from S-adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerisation of normal L-aspartyl and L-asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process; PDB: 3LBF_A 1DL5_B 1JG3_B 1JG2_A 1JG1_A 1JG4_A 2YXE_A 2PBF_B 1VBF_C 1R18_A ....
Probab=96.58 E-value=0.0039 Score=52.61 Aligned_cols=74 Identities=20% Similarity=0.288 Sum_probs=52.8
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeec-hHHHhhCCCC------CCceEEeccCCCCCCC-C-
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFVEVPK-G- 260 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~~~P~-~- 260 (266)
.+++.++ .+...+|+|||+|+|.++.-++... +.-+++.+|. |..++.|+.+ .+|+++.+|-...+|. +
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 7778999999999999999888874 4445777775 6677766642 5899999999887765 3
Q ss_pred -CEEEe
Q 046424 261 -QAIFM 265 (266)
Q Consensus 261 -D~~~l 265 (266)
|.|++
T Consensus 142 fD~I~v 147 (209)
T PF01135_consen 142 FDRIIV 147 (209)
T ss_dssp EEEEEE
T ss_pred cCEEEE
Confidence 88875
No 134
>KOG1499 consensus Protein arginine N-methyltransferase PRMT1 and related enzymes [Posttranslational modification, protein turnover, chaperones; Transcription; Signal transduction mechanisms]
Probab=96.57 E-value=0.0028 Score=56.72 Aligned_cols=63 Identities=14% Similarity=0.112 Sum_probs=51.5
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCC----C---CCceEEeccCCC-CCC-CC-CEEE
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPS----C---PGVEHVGGDMFV-EVP-KG-QAIF 264 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~----~---~ri~~~~gD~f~-~~P-~~-D~~~ 264 (266)
+.++|+|||||+|.+++-.+++. .-+++.+|-.++++.+.+ + +.|+++.|..-+ .+| +. |+++
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 45999999999999999999998 567899999888776654 2 679999998888 788 44 8874
No 135
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=96.50 E-value=0.0054 Score=52.35 Aligned_cols=54 Identities=15% Similarity=0.239 Sum_probs=40.0
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhC-C---C--CCCceEEeccCCC
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHA-P---S--CPGVEHVGGDMFV 255 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a-~---~--~~ri~~~~gD~f~ 255 (266)
...+|+||||.|.++.++++++|+..+++++.= +++..+ + + ...|.++.+|--+
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 368999999999999999999999999999983 333322 2 1 1356666665443
No 136
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=96.49 E-value=0.012 Score=50.06 Aligned_cols=62 Identities=10% Similarity=0.163 Sum_probs=46.6
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCC------------------CCCCceEEeccCCCCCCC--
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAP------------------SCPGVEHVGGDMFVEVPK-- 259 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~------------------~~~ri~~~~gD~f~~~P~-- 259 (266)
...+++|+|||.|..+.-|+++ ..+++.+|+.+ .++.+. ...+|++..+|+|+..+.
T Consensus 37 ~~~rvL~~gCG~G~da~~LA~~--G~~V~avD~s~~Ai~~~~~~~~l~~~~~~~~~~~~~~~~~v~~~~~D~~~l~~~~~ 114 (218)
T PRK13255 37 AGSRVLVPLCGKSLDMLWLAEQ--GHEVLGVELSELAVEQFFAENGLTPQTRQSGEFEHYQAGEITIYCGDFFALTAADL 114 (218)
T ss_pred CCCeEEEeCCCChHhHHHHHhC--CCeEEEEccCHHHHHHHHHHcCCCccccccccccccccCceEEEECcccCCCcccC
Confidence 4579999999999999999985 77899999965 444321 025799999999984332
Q ss_pred -C-CEEE
Q 046424 260 -G-QAIF 264 (266)
Q Consensus 260 -~-D~~~ 264 (266)
. |.++
T Consensus 115 ~~fd~v~ 121 (218)
T PRK13255 115 ADVDAVY 121 (218)
T ss_pred CCeeEEE
Confidence 2 6665
No 137
>PRK00536 speE spermidine synthase; Provisional
Probab=96.45 E-value=0.0055 Score=53.42 Aligned_cols=62 Identities=13% Similarity=0.056 Sum_probs=48.5
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC----------CCCceEEeccCCCCCC-CC-CEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS----------CPGVEHVGGDMFVEVP-KG-QAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----------~~ri~~~~gD~f~~~P-~~-D~~~l 265 (266)
.++++||=||||.|..++++++. |. +++.+|+. .|++.+++ .+|++++. ++.+.. .. |+|++
T Consensus 71 ~~pk~VLIiGGGDGg~~REvLkh-~~-~v~mVeID~~Vv~~~k~~lP~~~~~~~DpRv~l~~--~~~~~~~~~fDVIIv 145 (262)
T PRK00536 71 KELKEVLIVDGFDLELAHQLFKY-DT-HVDFVQADEKILDSFISFFPHFHEVKNNKNFTHAK--QLLDLDIKKYDLIIC 145 (262)
T ss_pred CCCCeEEEEcCCchHHHHHHHCc-CC-eeEEEECCHHHHHHHHHHCHHHHHhhcCCCEEEee--hhhhccCCcCCEEEE
Confidence 47899999999999999999987 55 99999995 58877665 28999886 344333 34 98875
No 138
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=96.45 E-value=0.0033 Score=54.40 Aligned_cols=41 Identities=15% Similarity=0.158 Sum_probs=32.2
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS 242 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~ 242 (266)
...+|+|||||+|.+++.+++..+. +++++|+. ..++.+++
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 5689999999999999887776554 69999995 46666554
No 139
>PRK11727 23S rRNA mA1618 methyltransferase; Provisional
Probab=96.45 E-value=0.0051 Score=55.24 Aligned_cols=65 Identities=14% Similarity=0.096 Sum_probs=47.6
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC----C----CCceEEe----ccCCCCC--CCC--CEE
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS----C----PGVEHVG----GDMFVEV--PKG--QAI 263 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----~----~ri~~~~----gD~f~~~--P~~--D~~ 263 (266)
...++||||||+|.....++.+.|+.+++..|+. ..++.|+. + +||++.. .++|..+ +.. |++
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 4589999999999988888999999999999995 45655543 2 4787753 4566643 332 877
Q ss_pred Ee
Q 046424 264 FM 265 (266)
Q Consensus 264 ~l 265 (266)
+-
T Consensus 194 vc 195 (321)
T PRK11727 194 LC 195 (321)
T ss_pred Ee
Confidence 63
No 140
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=96.40 E-value=0.0037 Score=54.00 Aligned_cols=59 Identities=22% Similarity=0.343 Sum_probs=49.6
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
.-+.|++.|...+ .++|+.|||+.+|+ +..-+.|+|..|+..|+|+.+ +++|++++...
T Consensus 10 ral~IL~~l~~~~-~~~~l~eia~~lgl----pksT~~RlL~tL~~~G~l~~~---------~~~Y~lG~~~~ 68 (248)
T TIGR02431 10 RGLAVIEAFGAER-PRLTLTDVAEATGL----TRAAARRFLLTLVELGYVTSD---------GRLFWLTPRVL 68 (248)
T ss_pred HHHHHHHHHhcCC-CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeC---------CCEEEecHHHH
Confidence 3456888887643 38999999999999 899999999999999999975 57899988543
No 141
>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=96.38 E-value=0.0037 Score=39.57 Aligned_cols=45 Identities=18% Similarity=0.356 Sum_probs=38.7
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLT 91 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~ 91 (266)
.+..|+..|.++| .+|..|||+.+|+ +...+.+.++-|...|+++
T Consensus 4 ~~~~Il~~l~~~~--~~t~~ela~~~~i----s~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 4 TQRKILNYLRENP--RITQKELAEKLGI----SRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHHHHHCT--TS-HHHHHHHHTS-----HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHcC--CCCHHHHHHHhCC----CHHHHHHHHHHHHHCcCcC
Confidence 3567889999987 8999999999999 9999999999999999874
No 142
>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=96.37 E-value=0.0028 Score=42.38 Aligned_cols=53 Identities=19% Similarity=0.330 Sum_probs=44.6
Q ss_pred HHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 35 MTIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 35 ~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+|.--.++.|+..|...+ +.|+.+||+.+|+ ++..+.+-|+.|...|+|+..
T Consensus 5 ~aL~~p~R~~Il~~L~~~~--~~t~~ela~~l~~----~~~t~s~hL~~L~~aGli~~~ 57 (61)
T PF12840_consen 5 KALSDPTRLRILRLLASNG--PMTVSELAEELGI----SQSTVSYHLKKLEEAGLIEVE 57 (61)
T ss_dssp HHHTSHHHHHHHHHHHHCS--TBEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred HHhCCHHHHHHHHHHhcCC--CCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe
Confidence 3444557788899995555 9999999999999 999999999999999999976
No 143
>KOG1541 consensus Predicted protein carboxyl methylase [General function prediction only]
Probab=96.33 E-value=0.0033 Score=52.92 Aligned_cols=61 Identities=18% Similarity=0.258 Sum_probs=44.9
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCCCCc--eEEeccCCC--CCCCC--CEEE
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSCPGV--EHVGGDMFV--EVPKG--QAIF 264 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~~ri--~~~~gD~f~--~~P~~--D~~~ 264 (266)
....|+|||||+|..+.-+... ....+++|+ |++++.|.+ ..+ .++-+||=+ |++++ |-++
T Consensus 50 ~~~~iLDIGCGsGLSg~vL~~~--Gh~wiGvDiSpsML~~a~~-~e~egdlil~DMG~GlpfrpGtFDg~I 117 (270)
T KOG1541|consen 50 KSGLILDIGCGSGLSGSVLSDS--GHQWIGVDISPSMLEQAVE-RELEGDLILCDMGEGLPFRPGTFDGVI 117 (270)
T ss_pred CCcEEEEeccCCCcchheeccC--CceEEeecCCHHHHHHHHH-hhhhcCeeeeecCCCCCCCCCccceEE
Confidence 3789999999999988777654 466899999 678887765 233 467788888 45555 6544
No 144
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=96.32 E-value=0.01 Score=55.46 Aligned_cols=72 Identities=14% Similarity=0.184 Sum_probs=53.5
Q ss_pred HHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEEeccCCCC---CC-CC-C
Q 046424 193 LEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-----PGVEHVGGDMFVE---VP-KG-Q 261 (266)
Q Consensus 193 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gD~f~~---~P-~~-D 261 (266)
+..++ .....+|+|+|||+|..+..+++..++.+++.+|+ |+.++.++.+ -+++++.+|..+. .+ .. |
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 44568999999999999999999998888999999 4466655432 2478899999862 22 23 8
Q ss_pred EEEe
Q 046424 262 AIFM 265 (266)
Q Consensus 262 ~~~l 265 (266)
.+++
T Consensus 316 ~Vl~ 319 (427)
T PRK10901 316 RILL 319 (427)
T ss_pred EEEE
Confidence 8874
No 145
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=96.30 E-value=0.0064 Score=46.40 Aligned_cols=67 Identities=22% Similarity=0.365 Sum_probs=53.8
Q ss_pred HHHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 33 LPMTIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 33 ~~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
.+.+|.--.++.|+..|...| +.++.||++.+++ ++..+.+-|+.|...|+|+..+ .|+ .-.|++++
T Consensus 9 ~fkaLadptRl~IL~~L~~~~--~~~v~ela~~l~l----sqstvS~HL~~L~~AGLV~~~r----~Gr-~~~Y~l~~ 75 (117)
T PRK10141 9 LFKILSDETRLGIVLLLRESG--ELCVCDLCTALDQ----SQPKISRHLALLRESGLLLDRK----QGK-WVHYRLSP 75 (117)
T ss_pred HHHHhCCHHHHHHHHHHHHcC--CcCHHHHHHHHCc----CHHHHHHHHHHHHHCCceEEEE----EcC-EEEEEECc
Confidence 445666668899999998755 8999999999999 8999999999999999999774 221 33477765
No 146
>KOG0820 consensus Ribosomal RNA adenine dimethylase [RNA processing and modification]
Probab=96.30 E-value=0.013 Score=50.92 Aligned_cols=71 Identities=13% Similarity=0.286 Sum_probs=53.9
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----C---CCceEEeccCCC-CCCCCC
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS----C---PGVEHVGGDMFV-EVPKGQ 261 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----~---~ri~~~~gD~f~-~~P~~D 261 (266)
.|++.-+ .+....|+.||.|+|.+...++++- -+++.+++ |..++..+. . .+.+++.||+++ ++|--|
T Consensus 49 ~I~~ka~-~k~tD~VLEvGPGTGnLT~~lLe~~--kkVvA~E~Dprmvael~krv~gtp~~~kLqV~~gD~lK~d~P~fd 125 (315)
T KOG0820|consen 49 QIVEKAD-LKPTDVVLEVGPGTGNLTVKLLEAG--KKVVAVEIDPRMVAELEKRVQGTPKSGKLQVLHGDFLKTDLPRFD 125 (315)
T ss_pred HHHhccC-CCCCCEEEEeCCCCCHHHHHHHHhc--CeEEEEecCcHHHHHHHHHhcCCCccceeeEEecccccCCCcccc
Confidence 4444444 6678999999999999999999994 46777777 455555433 2 579999999999 888766
Q ss_pred EEE
Q 046424 262 AIF 264 (266)
Q Consensus 262 ~~~ 264 (266)
.++
T Consensus 126 ~cV 128 (315)
T KOG0820|consen 126 GCV 128 (315)
T ss_pred eee
Confidence 553
No 147
>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=96.29 E-value=0.023 Score=48.60 Aligned_cols=57 Identities=18% Similarity=0.097 Sum_probs=40.0
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH--HHhhCCCCCCce
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH--VLKHAPSCPGVE 247 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~--vi~~a~~~~ri~ 247 (266)
..+++.+...-...+++|||||+|.++..++++ +--+++.+|..+ +....+.++|+.
T Consensus 64 ~~~l~~~~~~~~~~~vlDiG~gtG~~t~~l~~~-ga~~v~avD~~~~~l~~~l~~~~~v~ 122 (228)
T TIGR00478 64 KEALEEFNIDVKNKIVLDVGSSTGGFTDCALQK-GAKEVYGVDVGYNQLAEKLRQDERVK 122 (228)
T ss_pred HHHHHhcCCCCCCCEEEEcccCCCHHHHHHHHc-CCCEEEEEeCCHHHHHHHHhcCCCee
Confidence 345555541124579999999999999999987 445799999965 444455556654
No 148
>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=96.25 E-value=0.0052 Score=51.68 Aligned_cols=74 Identities=15% Similarity=0.248 Sum_probs=45.4
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC---------------CCCceEEeccCC
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS---------------CPGVEHVGGDMF 254 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~---------------~~ri~~~~gD~f 254 (266)
.+++.+. ......++|||+|.|....+.+-.++=-+++++++-+ ..+.++. ..+|++..|||+
T Consensus 33 ~il~~~~-l~~~dvF~DlGSG~G~~v~~aal~~~~~~~~GIEi~~~~~~~a~~~~~~~~~~~~~~g~~~~~v~l~~gdfl 111 (205)
T PF08123_consen 33 KILDELN-LTPDDVFYDLGSGVGNVVFQAALQTGCKKSVGIEILPELHDLAEELLEELKKRMKHYGKRPGKVELIHGDFL 111 (205)
T ss_dssp HHHHHTT---TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE-SHHHHHHHHHHHHHHHHHHHHCTB---EEEEECS-TT
T ss_pred HHHHHhC-CCCCCEEEECCCCCCHHHHHHHHHcCCcEEEEEEechHHHHHHHHHHHHHHHHHHHhhcccccceeeccCcc
Confidence 4555555 6677899999999999999888777644589998843 2222211 257899999999
Q ss_pred C-C-----CCCCCEEEe
Q 046424 255 V-E-----VPKGQAIFM 265 (266)
Q Consensus 255 ~-~-----~P~~D~~~l 265 (266)
+ + +..+|++++
T Consensus 112 ~~~~~~~~~s~AdvVf~ 128 (205)
T PF08123_consen 112 DPDFVKDIWSDADVVFV 128 (205)
T ss_dssp THHHHHHHGHC-SEEEE
T ss_pred ccHhHhhhhcCCCEEEE
Confidence 8 3 244688876
No 149
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=96.19 E-value=0.0081 Score=50.70 Aligned_cols=69 Identities=25% Similarity=0.405 Sum_probs=56.5
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccCC
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVPN 118 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~~ 118 (266)
.|...|...| |+|+.|||+++|+ ++..+++.|..|.+.|+++.....++-|+..-.|++|..+...+++
T Consensus 15 ~il~lL~~~g--~~sa~elA~~Lgi----s~~avR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~Lt~~g~~~f~~ 83 (218)
T COG2345 15 RILELLKKSG--PVSADELAEELGI----SPMAVRRHLDDLEAEGLVEVERQQGGRGRPAKLYRLTEKGREQFPK 83 (218)
T ss_pred HHHHHHhccC--CccHHHHHHHhCC----CHHHHHHHHHHHHhCcceeeeeccCCCCCCceeeeecccchhhcch
Confidence 4667787776 9999999999999 9999999999999999998654333346667779999988775544
No 150
>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=96.19 E-value=0.0065 Score=47.46 Aligned_cols=52 Identities=17% Similarity=0.158 Sum_probs=38.5
Q ss_pred eEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC------CCCceEEeccCCC
Q 046424 204 QLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS------CPGVEHVGGDMFV 255 (266)
Q Consensus 204 ~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~------~~ri~~~~gD~f~ 255 (266)
+++|||||.|.++..+++.+|..+++.+|-- ...+.++. .++++++...+..
T Consensus 1 ~vlDiGa~~G~~~~~~~~~~~~~~v~~~E~~~~~~~~l~~~~~~n~~~~v~~~~~al~~ 59 (143)
T TIGR01444 1 VVIDVGANIGDTSLYFARKGAEGRVIAFEPLPDAYEILEENVKLNNLPNVVLLNAAVGD 59 (143)
T ss_pred CEEEccCCccHHHHHHHHhCCCCEEEEEecCHHHHHHHHHHHHHcCCCcEEEEEeeeeC
Confidence 5899999999999999999999999999984 44443332 1346665555443
No 151
>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=96.18 E-value=0.0027 Score=51.32 Aligned_cols=62 Identities=21% Similarity=0.393 Sum_probs=43.6
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-------CCceEEeccCCCC---CC--C-CCEEEeC
Q 046424 203 NQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-------PGVEHVGGDMFVE---VP--K-GQAIFMK 266 (266)
Q Consensus 203 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gD~f~~---~P--~-~D~~~lk 266 (266)
++|+|+-||.|..++++++.+.. ++.+|+. .-++.++.+ +||+++.+|+++- +. . .|+++++
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 47999999999999999999874 7888884 455555432 6999999999982 22 2 3899874
No 152
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=96.17 E-value=0.0045 Score=43.57 Aligned_cols=57 Identities=23% Similarity=0.298 Sum_probs=42.9
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccC
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
|+..+.. | +.+..+|+..+++ +...+.+.|..|...|+++.. ++.|.+|+.|..++.
T Consensus 11 IL~~l~~-~--~~~~t~i~~~~~L----~~~~~~~yL~~L~~~gLI~~~---------~~~Y~lTekG~~~l~ 67 (77)
T PF14947_consen 11 ILKILSK-G--GAKKTEIMYKANL----NYSTLKKYLKELEEKGLIKKK---------DGKYRLTEKGKEFLE 67 (77)
T ss_dssp HHHHH-T-T---B-HHHHHTTST------HHHHHHHHHHHHHTTSEEEE---------TTEEEE-HHHHHHHH
T ss_pred HHHHHHc-C--CCCHHHHHHHhCc----CHHHHHHHHHHHHHCcCeeCC---------CCEEEECccHHHHHH
Confidence 4444543 3 8999999999999 999999999999999999765 789999999886653
No 153
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=96.14 E-value=0.027 Score=47.21 Aligned_cols=72 Identities=14% Similarity=0.235 Sum_probs=55.7
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEEeccCCCCCCC-C--
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFVEVPK-G-- 260 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~~~P~-~-- 260 (266)
.++..++ .+...+|++||+|+|..+.-+++.-- +++-+|+ ++..+.|+.+ ++|.++.||=.+.+|. +
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 4556666 77889999999999998887777655 7777777 4556666542 5699999999998887 4
Q ss_pred CEEEe
Q 046424 261 QAIFM 265 (266)
Q Consensus 261 D~~~l 265 (266)
|.|+.
T Consensus 140 D~I~V 144 (209)
T COG2518 140 DRIIV 144 (209)
T ss_pred CEEEE
Confidence 98875
No 154
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=96.11 E-value=0.0076 Score=52.13 Aligned_cols=60 Identities=23% Similarity=0.385 Sum_probs=49.7
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
-+.|+++|.+.+ .++++.|||+++|+ +..-+.|+|..|+..|+++.+. . .++|++++...
T Consensus 6 al~iL~~l~~~~-~~l~l~ela~~~gl----pksT~~RlL~tL~~~G~v~~d~---~----~g~Y~Lg~~~~ 65 (246)
T COG1414 6 ALAILDLLAEGP-GGLSLAELAERLGL----PKSTVHRLLQTLVELGYVEQDP---E----DGRYRLGPRLL 65 (246)
T ss_pred HHHHHHHHHhCC-CCCCHHHHHHHhCc----CHHHHHHHHHHHHHCCCEEEcC---C----CCcEeehHHHH
Confidence 356889998843 35779999999999 8999999999999999999872 1 56899998543
No 155
>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=96.10 E-value=0.004 Score=53.89 Aligned_cols=66 Identities=20% Similarity=0.290 Sum_probs=50.8
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----------CCCceEEeccCCC---CCCC-C-CEE
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS----------CPGVEHVGGDMFV---EVPK-G-QAI 263 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----------~~ri~~~~gD~f~---~~P~-~-D~~ 263 (266)
.++++||=||||.|..+.++++..|-.+.+++|+ |.|++.++. .+|++++.+|-+. ..+. . |++
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 3689999999999999999997777788999999 557777654 2799999998765 4555 5 777
Q ss_pred Ee
Q 046424 264 FM 265 (266)
Q Consensus 264 ~l 265 (266)
++
T Consensus 155 i~ 156 (246)
T PF01564_consen 155 IV 156 (246)
T ss_dssp EE
T ss_pred EE
Confidence 64
No 156
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=96.09 E-value=0.0069 Score=52.62 Aligned_cols=59 Identities=14% Similarity=0.283 Sum_probs=49.1
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
-+.|++.|.+.+ ++|+.|||+.+|+ +..-+.|+|+.|+..|+++++. . .++|++++...
T Consensus 16 ~l~IL~~l~~~~--~l~l~eia~~lgl----~kstv~Rll~tL~~~G~l~~~~---~----~~~Y~lG~~~~ 74 (257)
T PRK15090 16 VFGILQALGEER--EIGITELSQRVMM----SKSTVYRFLQTMKTLGYVAQEG---E----SEKYSLTLKLF 74 (257)
T ss_pred HHHHHHHhhcCC--CCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEcC---C----CCcEEecHHHH
Confidence 356778887654 8999999999999 8999999999999999999762 1 57899997543
No 157
>PHA00738 putative HTH transcription regulator
Probab=96.08 E-value=0.0088 Score=44.53 Aligned_cols=59 Identities=20% Similarity=0.237 Sum_probs=48.6
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
.++.|++.|..++ ++++.+|++.+++ +...+.+-|+.|...|+|.... .|+ .-.|++++
T Consensus 13 tRr~IL~lL~~~e--~~~V~eLae~l~l----SQptVS~HLKvLreAGLV~srK----~Gr-~vyY~Ln~ 71 (108)
T PHA00738 13 LRRKILELIAENY--ILSASLISHTLLL----SYTTVLRHLKILNEQGYIELYK----EGR-TLYAKIRE 71 (108)
T ss_pred HHHHHHHHHHHcC--CccHHHHHHhhCC----CHHHHHHHHHHHHHCCceEEEE----ECC-EEEEEECC
Confidence 5678999998864 7999999999999 9999999999999999999873 222 34466664
No 158
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=96.05 E-value=0.0044 Score=44.04 Aligned_cols=68 Identities=16% Similarity=0.200 Sum_probs=50.1
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYF 115 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l 115 (266)
++++|...|...+ .+++.+|.+.+|+ +...+.+.|..|...|+|+.... -.+++..-.|++|+.|+..
T Consensus 1 vRl~Il~~L~~~~--~~~f~~L~~~l~l----t~g~Ls~hL~~Le~~GyV~~~k~-~~~~~p~t~~~lT~~Gr~~ 68 (80)
T PF13601_consen 1 VRLAILALLYANE--EATFSELKEELGL----TDGNLSKHLKKLEEAGYVEVEKE-FEGRRPRTWYSLTDKGREA 68 (80)
T ss_dssp HHHHHHHHHHHHS--EEEHHHHHHHTT------HHHHHHHHHHHHHTTSEEEEEE--SSS--EEEEEE-HHHHHH
T ss_pred CHHHHHHHHhhcC--CCCHHHHHHHhCc----CHHHHHHHHHHHHHCCCEEEEEe-ccCCCCeEEEEECHHHHHH
Confidence 4688999998865 8999999999999 99999999999999999997632 1122223348888877643
No 159
>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=96.05 E-value=0.0042 Score=39.26 Aligned_cols=43 Identities=21% Similarity=0.375 Sum_probs=38.0
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLT 91 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~ 91 (266)
++.|...|.+ | +.++.||++.+|+ +...+.+-|+.|...|+++
T Consensus 4 R~~Il~~L~~-~--~~~~~el~~~l~~----s~~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 4 RLRILKLLSE-G--PLTVSELAEELGL----SQSTVSHHLKKLREAGLVE 46 (47)
T ss_dssp HHHHHHHHTT-S--SEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHh-C--CCchhhHHHhccc----cchHHHHHHHHHHHCcCee
Confidence 4667888887 4 9999999999999 9999999999999999986
No 160
>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=96.02 E-value=0.0094 Score=40.38 Aligned_cols=60 Identities=20% Similarity=0.376 Sum_probs=40.9
Q ss_pred hhHHHh-hcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhc
Q 046424 45 LLEIMA-KASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVS 112 (266)
Q Consensus 45 lfd~L~-~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s 112 (266)
|+..|. ..+ +.+..+||+.+++ +...+.+.++-|...|+|++.. +..|++ ...|++|+.|
T Consensus 8 vL~~l~~~~~--~~t~~~l~~~~~~----~~~~vs~~i~~L~~~glv~~~~-~~~d~R-~~~~~LT~~G 68 (68)
T PF13463_consen 8 VLRALAHSDG--PMTQSDLAERLGI----SKSTVSRIIKKLEEKGLVEKER-DPHDKR-SKRYRLTPAG 68 (68)
T ss_dssp HHHHHT--TS---BEHHHHHHHTT------HHHHHHHHHHHHHTTSEEEEE-ESSCTT-SEEEEE-HHH
T ss_pred HHHHHHccCC--CcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEecC-CCCcCC-eeEEEeCCCC
Confidence 445555 444 8999999999999 9999999999999999997652 112221 3468888754
No 161
>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=95.98 E-value=0.026 Score=44.53 Aligned_cols=38 Identities=13% Similarity=0.291 Sum_probs=31.2
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhh
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKH 239 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~ 239 (266)
....+|+|||||.|.++..+.+..+ +++++|..+ .++.
T Consensus 21 ~~~~~vLDiGcG~G~~~~~l~~~~~--~~~g~D~~~~~~~~ 59 (161)
T PF13489_consen 21 KPGKRVLDIGCGTGSFLRALAKRGF--EVTGVDISPQMIEK 59 (161)
T ss_dssp TTTSEEEEESSTTSHHHHHHHHTTS--EEEEEESSHHHHHH
T ss_pred CCCCEEEEEcCCCCHHHHHHHHhCC--EEEEEECCHHHHhh
Confidence 4678999999999999999977655 899999954 5544
No 162
>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=95.98 E-value=0.023 Score=48.23 Aligned_cols=55 Identities=15% Similarity=0.220 Sum_probs=42.5
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhC---CC---------------CCCceEEeccCCC
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHA---PS---------------CPGVEHVGGDMFV 255 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a---~~---------------~~ri~~~~gD~f~ 255 (266)
.....++++.|||.|.-+.-|+++ +.+++++|+.+ .|+.+ +. .++|+++.||||+
T Consensus 35 ~~~~~rvLvPgCG~g~D~~~La~~--G~~VvGvDls~~Ai~~~~~e~~~~~~~~~~~~~~~~~~~~i~~~~gDfF~ 108 (218)
T PF05724_consen 35 LKPGGRVLVPGCGKGYDMLWLAEQ--GHDVVGVDLSPTAIEQAFEENNLEPTVTSVGGFKRYQAGRITIYCGDFFE 108 (218)
T ss_dssp TSTSEEEEETTTTTSCHHHHHHHT--TEEEEEEES-HHHHHHHHHHCTTEEECTTCTTEEEETTSSEEEEES-TTT
T ss_pred CCCCCeEEEeCCCChHHHHHHHHC--CCeEEEEecCHHHHHHHHHHhccCCCcccccceeeecCCceEEEEccccc
Confidence 445679999999999999999987 57899999965 55543 10 1579999999999
No 163
>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]
Probab=95.91 E-value=0.0065 Score=52.45 Aligned_cols=60 Identities=17% Similarity=0.076 Sum_probs=43.3
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC--------C----CceEEeccCCCCCCCCCEEE
Q 046424 203 NQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC--------P----GVEHVGGDMFVEVPKGQAIF 264 (266)
Q Consensus 203 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~--------~----ri~~~~gD~f~~~P~~D~~~ 264 (266)
.+|||||||.|.++..|++.. ..++++|.- ..|+.|+++ . |+++...|.=...+.-|+++
T Consensus 91 ~~ilDvGCGgGLLSepLArlg--a~V~GID~s~~~V~vA~~h~~~dP~~~~~~~y~l~~~~~~~E~~~~~fDaVv 163 (282)
T KOG1270|consen 91 MKILDVGCGGGLLSEPLARLG--AQVTGIDASDDMVEVANEHKKMDPVLEGAIAYRLEYEDTDVEGLTGKFDAVV 163 (282)
T ss_pred ceEEEeccCccccchhhHhhC--CeeEeecccHHHHHHHHHhhhcCchhccccceeeehhhcchhhcccccceee
Confidence 679999999999999999996 568899995 477777653 2 46666555544344345553
No 164
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=95.89 E-value=0.011 Score=37.06 Aligned_cols=34 Identities=24% Similarity=0.287 Sum_probs=32.2
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.|..+||+.+++ +...+.+.|+.|...|++...
T Consensus 8 ~~s~~~la~~l~~----s~~tv~~~l~~L~~~g~l~~~ 41 (48)
T smart00419 8 PLTRQEIAELLGL----TRETVSRTLKRLEKEGLISRE 41 (48)
T ss_pred ccCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 7899999999999 999999999999999999875
No 165
>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=95.87 E-value=0.03 Score=48.80 Aligned_cols=68 Identities=21% Similarity=0.395 Sum_probs=51.9
Q ss_pred HHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCC----CCCCceEEeccCCC-CCCC
Q 046424 189 MKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAP----SCPGVEHVGGDMFV-EVPK 259 (266)
Q Consensus 189 ~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~----~~~ri~~~~gD~f~-~~P~ 259 (266)
...+++..+ .++...|+|||.|.|.+...|++.. -+.+++|.- ..++..+ ..++++++.+|+++ +.+.
T Consensus 19 ~~~Iv~~~~-~~~~~~VlEiGpG~G~lT~~L~~~~--~~v~~vE~d~~~~~~L~~~~~~~~~~~vi~~D~l~~~~~~ 92 (262)
T PF00398_consen 19 ADKIVDALD-LSEGDTVLEIGPGPGALTRELLKRG--KRVIAVEIDPDLAKHLKERFASNPNVEVINGDFLKWDLYD 92 (262)
T ss_dssp HHHHHHHHT-CGTTSEEEEESSTTSCCHHHHHHHS--SEEEEEESSHHHHHHHHHHCTTCSSEEEEES-TTTSCGGG
T ss_pred HHHHHHhcC-CCCCCEEEEeCCCCccchhhHhccc--CcceeecCcHhHHHHHHHHhhhcccceeeecchhccccHH
Confidence 456677776 6678999999999999999999998 678888874 3443333 34899999999998 5544
No 166
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=95.87 E-value=0.025 Score=48.06 Aligned_cols=63 Identities=11% Similarity=-0.042 Sum_probs=44.7
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC-----CCCceEEeccCCC-C-CC-CC-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS-----CPGVEHVGGDMFV-E-VP-KG-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-----~~ri~~~~gD~f~-~-~P-~~-D~~~l 265 (266)
...+|+|||||.|.++..+++. ..+++++|+.+ .++.++. ..++++..+|+.+ + .+ .. |++++
T Consensus 48 ~~~~vLdiG~G~G~~~~~l~~~--~~~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~Ii~ 120 (233)
T PRK05134 48 FGKRVLDVGCGGGILSESMARL--GADVTGIDASEENIEVARLHALESGLKIDYRQTTAEELAAEHPGQFDVVTC 120 (233)
T ss_pred CCCeEEEeCCCCCHHHHHHHHc--CCeEEEEcCCHHHHHHHHHHHHHcCCceEEEecCHHHhhhhcCCCccEEEE
Confidence 4578999999999999988886 46789999864 4554443 1357777777765 2 22 33 88864
No 167
>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=95.87 E-value=0.011 Score=55.20 Aligned_cols=65 Identities=17% Similarity=0.338 Sum_probs=49.6
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEEeccCCCC---CC---CC-CEEE
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFVE---VP---KG-QAIF 264 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~~---~P---~~-D~~~ 264 (266)
..+..+|+|+|||+|.++..+++... +++.+|. |+.++.++.+ .+|+++.+|..+. ++ .. |+++
T Consensus 290 ~~~~~~vLDl~cG~G~~sl~la~~~~--~V~~vE~~~~av~~a~~n~~~~~~~nv~~~~~d~~~~l~~~~~~~~~~D~vi 367 (431)
T TIGR00479 290 LQGEELVVDAYCGVGTFTLPLAKQAK--SVVGIEVVPESVEKAQQNAELNGIANVEFLAGTLETVLPKQPWAGQIPDVLL 367 (431)
T ss_pred cCCCCEEEEcCCCcCHHHHHHHHhCC--EEEEEEcCHHHHHHHHHHHHHhCCCceEEEeCCHHHHHHHHHhcCCCCCEEE
Confidence 44568999999999999999998753 6899999 5677766542 6899999998652 21 23 8887
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
+
T Consensus 368 ~ 368 (431)
T TIGR00479 368 L 368 (431)
T ss_pred E
Confidence 6
No 168
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=95.86 E-value=0.011 Score=56.37 Aligned_cols=53 Identities=9% Similarity=0.094 Sum_probs=40.5
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech--HHHhhCCC-----CCCceEEeccC
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP--HVLKHAPS-----CPGVEHVGGDM 253 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp--~vi~~a~~-----~~ri~~~~gD~ 253 (266)
+...+||||||.|.++.++++++|+..++++|.- .+...++. ...+.++.+|+
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 4689999999999999999999999999999983 23322221 24566676665
No 169
>PRK11760 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional
Probab=95.85 E-value=0.031 Score=50.34 Aligned_cols=63 Identities=17% Similarity=0.126 Sum_probs=52.1
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCCCCCceEEeccCCCCCC-CC--CEEE
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPSCPGVEHVGGDMFVEVP-KG--QAIF 264 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~~ri~~~~gD~f~~~P-~~--D~~~ 264 (266)
....++||||++.|.+...++++ +.+++.+|.-++-+.....+||+.+.+|-|...| .. |.++
T Consensus 210 ~~g~~vlDLGAsPGGWT~~L~~r--G~~V~AVD~g~l~~~L~~~~~V~h~~~d~fr~~p~~~~vDwvV 275 (357)
T PRK11760 210 APGMRAVDLGAAPGGWTYQLVRR--GMFVTAVDNGPMAQSLMDTGQVEHLRADGFKFRPPRKNVDWLV 275 (357)
T ss_pred CCCCEEEEeCCCCcHHHHHHHHc--CCEEEEEechhcCHhhhCCCCEEEEeccCcccCCCCCCCCEEE
Confidence 45689999999999999999998 5699999987777766777999999999999655 32 6554
No 170
>KOG2899 consensus Predicted methyltransferase [General function prediction only]
Probab=95.81 E-value=0.014 Score=49.94 Aligned_cols=52 Identities=17% Similarity=0.229 Sum_probs=42.0
Q ss_pred HHHHHcc-CCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC
Q 046424 191 EILEIYK-GFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS 242 (266)
Q Consensus 191 ~i~~~~~-~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~ 242 (266)
.+++.++ .|-....++||||++|.+..+|++.|-....+++|+.+ .|..|+.
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 4455554 25578999999999999999999999999999999955 5666654
No 171
>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=95.78 E-value=0.019 Score=50.84 Aligned_cols=41 Identities=15% Similarity=0.248 Sum_probs=32.0
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL 233 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl 233 (266)
.+...++.+++ ++|+|||||+|.++.+++++.|. .++++|-
T Consensus 106 rl~p~l~~L~g-k~VLDIGC~nGY~~frM~~~GA~-~ViGiDP 146 (315)
T PF08003_consen 106 RLLPHLPDLKG-KRVLDIGCNNGYYSFRMLGRGAK-SVIGIDP 146 (315)
T ss_pred HHHhhhCCcCC-CEEEEecCCCcHHHHHHhhcCCC-EEEEECC
Confidence 44455533644 89999999999999999999876 4788885
No 172
>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=95.78 E-value=0.0049 Score=42.12 Aligned_cols=47 Identities=19% Similarity=0.217 Sum_probs=41.0
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|..|+..|-..| +.|+.|||+.+|+ +...+.+.|+-|...|+++..
T Consensus 9 ~E~~vy~~Ll~~~--~~t~~eIa~~l~i----~~~~v~~~L~~L~~~GlV~~~ 55 (68)
T PF01978_consen 9 NEAKVYLALLKNG--PATAEEIAEELGI----SRSTVYRALKSLEEKGLVERE 55 (68)
T ss_dssp HHHHHHHHHHHHC--HEEHHHHHHHHTS----SHHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHHcC--CCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence 3455676776555 9999999999999 999999999999999999987
No 173
>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=95.77 E-value=0.0087 Score=54.99 Aligned_cols=62 Identities=10% Similarity=0.102 Sum_probs=46.5
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEEeccCCCCCC---C-CCEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFVEVP---K-GQAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~~~P---~-~D~~~l 265 (266)
..+++|+|||+|.++..++.. ..+++.+|. |..++.++.+ ++++++.+|+.+..+ . -|++++
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 478999999999999999864 467899998 4566655532 579999999865222 2 388875
No 174
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=95.75 E-value=0.013 Score=42.50 Aligned_cols=68 Identities=24% Similarity=0.294 Sum_probs=50.6
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
.++.|+..|...+ +.+..+||+.+++ +...+.+.++-|...|+|+.... ..+.-...|.+|+.+..+.
T Consensus 11 ~~~~il~~l~~~~--~~~~~~la~~~~~----s~~~i~~~l~~L~~~g~v~~~~~--~~~~r~~~~~lT~~g~~~~ 78 (101)
T smart00347 11 TQFLVLRILYEEG--PLSVSELAKRLGV----SPSTVTRVLDRLEKKGLIRRLPS--PEDRRSVLVSLTEEGRELI 78 (101)
T ss_pred HHHHHHHHHHHcC--CcCHHHHHHHHCC----CchhHHHHHHHHHHCCCeEecCC--CCCCCeEEEEECHhHHHHH
Confidence 3566788887766 7999999999999 89999999999999999997621 0111123577777665444
No 175
>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=95.72 E-value=0.028 Score=49.35 Aligned_cols=55 Identities=18% Similarity=0.224 Sum_probs=44.9
Q ss_pred CCceEEEecCCccHHHHHHHHHCCC--CeEEEeechH-HHhhCCC------CCC-ceEEeccCCC
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQ--LRGINFDLPH-VLKHAPS------CPG-VEHVGGDMFV 255 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~--l~~~v~Dlp~-vi~~a~~------~~r-i~~~~gD~f~ 255 (266)
.+.+||||.||+|.+...+++.+|. .++.+.|..+ -|+..++ ... ++|..+|-|+
T Consensus 135 ~pvrIlDIAaG~GRYvlDal~~~~~~~~~i~LrDys~~Nv~~g~~li~~~gL~~i~~f~~~dAfd 199 (311)
T PF12147_consen 135 RPVRILDIAAGHGRYVLDALEKHPERPDSILLRDYSPINVEKGRALIAERGLEDIARFEQGDAFD 199 (311)
T ss_pred CceEEEEeccCCcHHHHHHHHhCCCCCceEEEEeCCHHHHHHHHHHHHHcCCccceEEEecCCCC
Confidence 6799999999999999999999998 6788889853 5554433 244 4999999998
No 176
>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=95.72 E-value=0.018 Score=48.21 Aligned_cols=69 Identities=22% Similarity=0.298 Sum_probs=53.0
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccC
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
..|+..|...| +.|..+||+.+|+ ++..+.+.|+.|...|+|+......+.|+..-.|++|+.+..++.
T Consensus 4 ~~IL~~L~~~~--~~t~~eLA~~lgi----s~~tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~~~ 72 (203)
T TIGR02702 4 EDILSYLLKQG--QATAAALAEALAI----SPQAVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQFP 72 (203)
T ss_pred HHHHHHHHHcC--CCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhhcc
Confidence 45777887766 8999999999999 999999999999999999865210112333445899988876654
No 177
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=95.71 E-value=0.014 Score=51.28 Aligned_cols=60 Identities=17% Similarity=0.202 Sum_probs=49.5
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVS 112 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s 112 (266)
.-+.|++.|...+ .++|+.|||+.+|+ +..-+.|+|..|+..|+|..+. . .++|+++...
T Consensus 26 r~l~IL~~~~~~~-~~~tl~eIa~~lgl----pkStv~RlL~tL~~~G~l~~~~---~----~~~Y~lG~~l 85 (271)
T PRK10163 26 RGIAILQYLEKSG-GSSSVSDISLNLDL----PLSTTFRLLKVLQAADFVYQDS---Q----LGWWHIGLGV 85 (271)
T ss_pred HHHHHHHHHHhCC-CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEcC---C----CCeEEecHHH
Confidence 3456888887754 37999999999999 8999999999999999998762 1 5789998744
No 178
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=95.71 E-value=0.025 Score=38.00 Aligned_cols=43 Identities=23% Similarity=0.303 Sum_probs=38.2
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
++|..|||+.+|+ +...+.+.|..|...|++.... .+.|.++|
T Consensus 25 ~~s~~ela~~~g~----s~~tv~r~l~~L~~~g~i~~~~--------~~~~~l~~ 67 (67)
T cd00092 25 PLTRQEIADYLGL----TRETVSRTLKELEEEGLISRRG--------RGKYRVNP 67 (67)
T ss_pred CcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecC--------CCeEEeCC
Confidence 8999999999999 9999999999999999999761 36787764
No 179
>COG2227 UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]
Probab=95.67 E-value=0.0093 Score=50.90 Aligned_cols=40 Identities=15% Similarity=0.041 Sum_probs=34.2
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC 243 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~ 243 (266)
..+|||||||-|.++..+++.. .+++..|+. +.|+.|+.+
T Consensus 60 g~~vLDvGCGgG~Lse~mAr~G--a~VtgiD~se~~I~~Ak~h 100 (243)
T COG2227 60 GLRVLDVGCGGGILSEPLARLG--ASVTGIDASEKPIEVAKLH 100 (243)
T ss_pred CCeEEEecCCccHhhHHHHHCC--CeeEEecCChHHHHHHHHh
Confidence 4899999999999999999996 789999995 477777643
No 180
>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=95.66 E-value=0.018 Score=48.49 Aligned_cols=63 Identities=13% Similarity=-0.033 Sum_probs=45.6
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCC------CCceEEeccCCC-C--CCCC-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSC------PGVEHVGGDMFV-E--VPKG-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~------~ri~~~~gD~f~-~--~P~~-D~~~l 265 (266)
...+|+|||||+|.++..+++..+ +++++|+.+ .++.++.. .++++...|+.+ + .+.. |++++
T Consensus 45 ~~~~vLdlG~G~G~~~~~l~~~~~--~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~D~i~~ 118 (224)
T TIGR01983 45 FGLRVLDVGCGGGLLSEPLARLGA--NVTGIDASEENIEVAKLHAKKDPLLKIEYRCTSVEDLAEKGAKSFDVVTC 118 (224)
T ss_pred CCCeEEEECCCCCHHHHHHHhcCC--eEEEEeCCHHHHHHHHHHHHHcCCCceEEEeCCHHHhhcCCCCCccEEEe
Confidence 357999999999999999988765 589999854 55554431 258888888765 2 2234 88864
No 181
>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=95.63 E-value=0.012 Score=40.37 Aligned_cols=43 Identities=16% Similarity=0.316 Sum_probs=37.2
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
|-+.|.+.| .+|..|||..+++ ++..++.+|..|...|.+++.
T Consensus 5 i~~~l~~~~--~~S~~eLa~~~~~----s~~~ve~mL~~l~~kG~I~~~ 47 (69)
T PF09012_consen 5 IRDYLRERG--RVSLAELAREFGI----SPEAVEAMLEQLIRKGYIRKV 47 (69)
T ss_dssp HHHHHHHS---SEEHHHHHHHTT------HHHHHHHHHHHHCCTSCEEE
T ss_pred HHHHHHHcC--CcCHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEEe
Confidence 567888876 8999999999999 999999999999999999976
No 182
>PRK11569 transcriptional repressor IclR; Provisional
Probab=95.61 E-value=0.013 Score=51.38 Aligned_cols=61 Identities=18% Similarity=0.202 Sum_probs=49.6
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
.-+.|+++|.+.+ .++|+.|||+.+|+ +..-+.|+|..|+..|+++.+. + .++|++.+...
T Consensus 29 ral~IL~~l~~~~-~~~~lseia~~lgl----pksTv~RlL~tL~~~G~l~~~~----~---~~~Y~lG~~l~ 89 (274)
T PRK11569 29 RGLKLLEWIAESN-GSVALTELAQQAGL----PNSTTHRLLTTMQQQGFVRQVG----E---LGHWAIGAHAF 89 (274)
T ss_pred HHHHHHHHHHhCC-CCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEcC----C---CCeEecCHHHH
Confidence 3456788887643 38999999999999 8999999999999999998752 1 57899987543
No 183
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=95.57 E-value=0.014 Score=50.94 Aligned_cols=64 Identities=13% Similarity=0.135 Sum_probs=51.5
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
.-+.|++.|...+ .++|+.|||+.+|+ +..-+.|+|..|...|+++++. + .+.|++++....+.
T Consensus 12 ral~iL~~l~~~~-~~ls~~eia~~lgl----~kstv~RlL~tL~~~g~v~~~~----~---~~~Y~Lg~~~~~l~ 75 (263)
T PRK09834 12 RGLMVLRALNRLD-GGATVGLLAELTGL----HRTTVRRLLETLQEEGYVRRSA----S---DDSFRLTLKVRQLS 75 (263)
T ss_pred HHHHHHHHHHhcC-CCCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEec----C---CCcEEEcHHHHHHH
Confidence 4456788887654 26999999999999 9999999999999999999762 1 57899997654433
No 184
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=95.50 E-value=0.033 Score=52.39 Aligned_cols=67 Identities=16% Similarity=0.143 Sum_probs=49.3
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeech-HHHhhCCCC------CCceEEeccCCCCCCC-C-CEEEe
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFVEVPK-G-QAIFM 265 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~~~P~-~-D~~~l 265 (266)
.....+|+|+|||+|..+..+++..+ .-+++.+|+. +.++.++.+ ++|+++.+|..+..|. . |++++
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 33457999999999999998888754 4578999995 355554432 4689999999873343 3 88875
No 185
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=95.49 E-value=0.021 Score=44.96 Aligned_cols=56 Identities=20% Similarity=0.301 Sum_probs=40.5
Q ss_pred CCCceEEEecCCccHHHHHHHHH----CCCCeEEEeechH-HHhhCCC---------CCCceEEeccCCC
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSK----YPQLRGINFDLPH-VLKHAPS---------CPGVEHVGGDMFV 255 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~----~P~l~~~v~Dlp~-vi~~a~~---------~~ri~~~~gD~f~ 255 (266)
.+..+|||+|||.|.++..++.. .|+++++.+|..+ .++.+.. ..++++..+++..
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 56899999999999999999982 3889999999843 4444332 1456666665544
No 186
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=95.49 E-value=0.017 Score=41.14 Aligned_cols=45 Identities=27% Similarity=0.377 Sum_probs=37.7
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
+.|.++||+.+++ ++..+++++.-|...|+++..+ +. +|.|.++.
T Consensus 25 ~~s~~eiA~~~~i----~~~~l~kil~~L~~~Gli~s~~--G~----~GGy~L~~ 69 (83)
T PF02082_consen 25 PVSSKEIAERLGI----SPSYLRKILQKLKKAGLIESSR--GR----GGGYRLAR 69 (83)
T ss_dssp -BEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEET--ST----TSEEEESS
T ss_pred CCCHHHHHHHHCc----CHHHHHHHHHHHhhCCeeEecC--CC----CCceeecC
Confidence 6999999999999 9999999999999999999763 21 57788876
No 187
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=95.43 E-value=0.032 Score=44.09 Aligned_cols=70 Identities=20% Similarity=0.277 Sum_probs=48.3
Q ss_pred HHHccCCCCCceEEEecCCccHHHHHHHHHCCCCe-EEEeec-hHHHhhCCCC-----CCceEEeccCCCCCCCC---CE
Q 046424 193 LEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLR-GINFDL-PHVLKHAPSC-----PGVEHVGGDMFVEVPKG---QA 262 (266)
Q Consensus 193 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dl-p~vi~~a~~~-----~ri~~~~gD~f~~~P~~---D~ 262 (266)
-..|.++ ..+.+.|+|||.|.+. ++-.+|..+ ++++|+ |+.++..+.+ =.|.++..|+.++.|.+ |.
T Consensus 41 h~Tygdi-Egkkl~DLgcgcGmLs--~a~sm~~~e~vlGfDIdpeALEIf~rNaeEfEvqidlLqcdildle~~~g~fDt 117 (185)
T KOG3420|consen 41 HNTYGDI-EGKKLKDLGCGCGMLS--IAFSMPKNESVLGFDIDPEALEIFTRNAEEFEVQIDLLQCDILDLELKGGIFDT 117 (185)
T ss_pred Hhhhccc-cCcchhhhcCchhhhH--HHhhcCCCceEEeeecCHHHHHHHhhchHHhhhhhheeeeeccchhccCCeEee
Confidence 3445434 3489999999999998 555566655 799999 5566665543 35788888888866553 65
Q ss_pred EEe
Q 046424 263 IFM 265 (266)
Q Consensus 263 ~~l 265 (266)
.++
T Consensus 118 avi 120 (185)
T KOG3420|consen 118 AVI 120 (185)
T ss_pred EEe
Confidence 554
No 188
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=95.40 E-value=0.11 Score=45.25 Aligned_cols=68 Identities=13% Similarity=0.326 Sum_probs=51.4
Q ss_pred HHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCC----CCCCceEEeccCCC-CCCC
Q 046424 189 MKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAP----SCPGVEHVGGDMFV-EVPK 259 (266)
Q Consensus 189 ~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~----~~~ri~~~~gD~f~-~~P~ 259 (266)
...+++..+ .+....|++||+|.|.+...|+++... .+.+++.+ .++..+ ..++++++.+|+.+ ++|.
T Consensus 19 ~~kIv~~a~-~~~~d~VlEIGpG~GaLT~~Ll~~~~~--v~aiEiD~~l~~~L~~~~~~~~n~~vi~~DaLk~d~~~ 92 (259)
T COG0030 19 IDKIVEAAN-ISPGDNVLEIGPGLGALTEPLLERAAR--VTAIEIDRRLAEVLKERFAPYDNLTVINGDALKFDFPS 92 (259)
T ss_pred HHHHHHhcC-CCCCCeEEEECCCCCHHHHHHHhhcCe--EEEEEeCHHHHHHHHHhcccccceEEEeCchhcCcchh
Confidence 456677665 555789999999999999999999776 56666632 333333 24789999999999 7874
No 189
>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=95.35 E-value=0.026 Score=42.86 Aligned_cols=69 Identities=19% Similarity=0.218 Sum_probs=53.0
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccC
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
.+..|+..|...+ ++|..+||+.+++ +...+.++++-|...|+|+... +..|.+ .-.+.+|+.|..+..
T Consensus 29 ~q~~iL~~l~~~~--~~t~~ela~~~~~----~~~tvs~~l~~Le~~GlI~r~~-~~~D~R-~~~v~LT~~G~~~~~ 97 (118)
T TIGR02337 29 QQWRILRILAEQG--SMEFTQLANQACI----LRPSLTGILARLERDGLVTRLK-ASNDQR-RVYISLTPKGQALYA 97 (118)
T ss_pred HHHHHHHHHHHcC--CcCHHHHHHHhCC----CchhHHHHHHHHHHCCCEEecc-CCCCCC-eeEEEECHhHHHHHH
Confidence 4455888887776 8999999999999 8889999999999999999762 111211 235888887776554
No 190
>PRK13256 thiopurine S-methyltransferase; Reviewed
Probab=95.31 E-value=0.092 Score=44.81 Aligned_cols=53 Identities=17% Similarity=0.135 Sum_probs=42.7
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC------------------CCCceEEeccCCC
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS------------------CPGVEHVGGDMFV 255 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~------------------~~ri~~~~gD~f~ 255 (266)
...+|++.|||.|.-+.-|++. ..+++++|+.+ .|+.+.. ..+|+++.+|||+
T Consensus 43 ~~~rvLvPgCGkg~D~~~LA~~--G~~V~GvDlS~~Ai~~~~~e~~~~~~~~~~~~~~~~~~~~i~~~~gD~f~ 114 (226)
T PRK13256 43 DSSVCLIPMCGCSIDMLFFLSK--GVKVIGIELSEKAVLSFFSQNTINYEVIHGNDYKLYKGDDIEIYVADIFN 114 (226)
T ss_pred CCCeEEEeCCCChHHHHHHHhC--CCcEEEEecCHHHHHHHHHHcCCCcceecccccceeccCceEEEEccCcC
Confidence 4579999999999999999987 66799999964 5554211 1579999999999
No 191
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=95.30 E-value=0.03 Score=45.36 Aligned_cols=45 Identities=11% Similarity=0.122 Sum_probs=39.1
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
+.|+++||+.+++ ++..+.++|..|...|+|...+ +. +|.|.+..
T Consensus 25 ~vs~~eIA~~~~i----p~~~l~kIl~~L~~aGLv~s~r--G~----~GGy~Lar 69 (164)
T PRK10857 25 PVPLADISERQGI----SLSYLEQLFSRLRKNGLVSSVR--GP----GGGYLLGK 69 (164)
T ss_pred cCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeCC--CC----CCCeeccC
Confidence 8999999999999 9999999999999999999753 21 56688875
No 192
>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=95.26 E-value=0.016 Score=48.11 Aligned_cols=53 Identities=15% Similarity=0.035 Sum_probs=42.4
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-------CCceEEeccCCC
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-------PGVEHVGGDMFV 255 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gD~f~ 255 (266)
..+++|++||+|.++.+++.+... +++.+|.. +.++.++.+ ++++++.+|.++
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 478999999999999999999774 78888985 455544431 478999999966
No 193
>PLN02476 O-methyltransferase
Probab=95.21 E-value=0.056 Score=47.55 Aligned_cols=67 Identities=13% Similarity=0.064 Sum_probs=51.6
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeechH-HHhhCCC-------CCCceEEeccCCCCCC--------CC-
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLPH-VLKHAPS-------CPGVEHVGGDMFVEVP--------KG- 260 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp~-vi~~a~~-------~~ri~~~~gD~f~~~P--------~~- 260 (266)
..+.++|++||+++|..+..+++..| +-+.+-+|..+ ..+.|++ .++|+++.||..+-+| ..
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 45789999999999999999999876 66778889854 4555543 2699999999877322 23
Q ss_pred CEEEe
Q 046424 261 QAIFM 265 (266)
Q Consensus 261 D~~~l 265 (266)
|.+|+
T Consensus 196 D~VFI 200 (278)
T PLN02476 196 DFAFV 200 (278)
T ss_pred CEEEE
Confidence 88875
No 194
>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]
Probab=95.10 E-value=0.054 Score=49.03 Aligned_cols=56 Identities=32% Similarity=0.501 Sum_probs=46.5
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCC-CeEEEeec-hHHHhhCCC-------------CCCceEEeccCCCC
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQ-LRGINFDL-PHVLKHAPS-------------CPGVEHVGGDMFVE 256 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dl-p~vi~~a~~-------------~~ri~~~~gD~f~~ 256 (266)
++..+++-+|||.|.-+++++ +||+ -+.+.+|| |++|+.++. .+|++++.-|-|+.
T Consensus 288 ~~a~~vLvlGGGDGLAlRell-kyP~~~qI~lVdLDP~miela~~~~vlr~~N~~sf~dpRv~Vv~dDAf~w 358 (508)
T COG4262 288 RGARSVLVLGGGDGLALRELL-KYPQVEQITLVDLDPRMIELASHATVLRALNQGSFSDPRVTVVNDDAFQW 358 (508)
T ss_pred cccceEEEEcCCchHHHHHHH-hCCCcceEEEEecCHHHHHHhhhhhHhhhhccCCccCCeeEEEeccHHHH
Confidence 477899999999999999987 5785 45789999 779998773 18999999998884
No 195
>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=95.07 E-value=0.03 Score=45.72 Aligned_cols=55 Identities=15% Similarity=0.009 Sum_probs=37.3
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCC---------CCCceEEeccCCC
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPS---------CPGVEHVGGDMFV 255 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~---------~~ri~~~~gD~f~ 255 (266)
+..+|+++|+|.|..++.+++.++..++++-|.|++++.++. ..+|++...|.-+
T Consensus 45 ~~~~VLELGaG~Gl~gi~~a~~~~~~~Vv~TD~~~~l~~l~~Ni~~N~~~~~~~v~v~~L~Wg~ 108 (173)
T PF10294_consen 45 RGKRVLELGAGTGLPGIAAAKLFGAARVVLTDYNEVLELLRRNIELNGSLLDGRVSVRPLDWGD 108 (173)
T ss_dssp TTSEEEETT-TTSHHHHHHHHT-T-SEEEEEE-S-HHHHHHHHHHTT--------EEEE--TTS
T ss_pred CCceEEEECCccchhHHHHHhccCCceEEEeccchhhHHHHHHHHhccccccccccCcEEEecC
Confidence 568999999999999999999988888999999987775432 1678888888766
No 196
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=95.06 E-value=0.026 Score=56.14 Aligned_cols=64 Identities=11% Similarity=0.070 Sum_probs=49.1
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC--------CCceEEeccCCCC---CCCC-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC--------PGVEHVGGDMFVE---VPKG-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~--------~ri~~~~gD~f~~---~P~~-D~~~l 265 (266)
+.++|+|+|||+|.++..+++. ...+++.+|+. ..++.++.+ ++++++.+|.|+. .+.. |++++
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 4589999999999999999986 33469999995 466655541 4899999999873 3334 98876
No 197
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=95.00 E-value=0.026 Score=52.31 Aligned_cols=64 Identities=17% Similarity=0.135 Sum_probs=47.1
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC--------CCceEEeccCCCCC------CCC-CEEE
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC--------PGVEHVGGDMFVEV------PKG-QAIF 264 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~--------~ri~~~~gD~f~~~------P~~-D~~~ 264 (266)
+..+|+|+|||+|.++...+.. ...+++.+|+. ..++.++++ ++++++.+|.|+.. ... |+++
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 5689999999999998876643 44589999995 455555431 37999999999832 123 9988
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
+
T Consensus 299 l 299 (396)
T PRK15128 299 M 299 (396)
T ss_pred E
Confidence 6
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=94.99 E-value=0.041 Score=43.00 Aligned_cols=45 Identities=11% Similarity=0.135 Sum_probs=38.7
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
+.|.++||+.+++ ++..++++|+.|...|++...+ +. .|.|.++.
T Consensus 25 ~~s~~~ia~~~~i----p~~~l~kil~~L~~~glv~s~~--G~----~Ggy~l~~ 69 (135)
T TIGR02010 25 PVTLADISERQGI----SLSYLEQLFAKLRKAGLVKSVR--GP----GGGYQLGR 69 (135)
T ss_pred cCcHHHHHHHHCc----CHHHHHHHHHHHHHCCceEEEe--CC----CCCEeccC
Confidence 8999999999999 9999999999999999998652 11 45688875
No 199
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=94.93 E-value=0.022 Score=38.30 Aligned_cols=44 Identities=20% Similarity=0.170 Sum_probs=37.3
Q ss_pred ChhHHHhh-cCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 44 GLLEIMAK-ASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 44 glfd~L~~-~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|.+.|.. .+ |++..|||+.||+ +....+++|..|...|.++..
T Consensus 4 ~Il~~i~~~~~--p~~T~eiA~~~gl----s~~~aR~yL~~Le~eG~V~~~ 48 (62)
T PF04703_consen 4 KILEYIKEQNG--PLKTREIADALGL----SIYQARYYLEKLEKEGKVERS 48 (62)
T ss_dssp CHHHHHHHHTS---EEHHHHHHHHTS-----HHHHHHHHHHHHHCTSEEEE
T ss_pred HHHHHHHHcCC--CCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 46777777 44 9999999999999 999999999999999999975
No 200
>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=94.90 E-value=0.018 Score=38.16 Aligned_cols=49 Identities=18% Similarity=0.339 Sum_probs=40.2
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+..|+-.|...++..+|..|||+.+++ ++..+.++++.|...|+|+..
T Consensus 6 ~q~~vL~~l~~~~~~~~t~~~la~~l~~----~~~~vs~~v~~L~~~Glv~r~ 54 (62)
T PF12802_consen 6 SQFRVLMALARHPGEELTQSELAERLGI----SKSTVSRIVKRLEKKGLVERE 54 (62)
T ss_dssp HHHHHHHHHHHSTTSGEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHHCCCCCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence 3455677777776212899999999999 999999999999999999987
No 201
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=94.89 E-value=0.061 Score=50.42 Aligned_cols=72 Identities=13% Similarity=0.035 Sum_probs=51.5
Q ss_pred HHHccCCCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeec-hHHHhhCCCC------CCceEEeccCCC-C----CCC
Q 046424 193 LEIYKGFEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFV-E----VPK 259 (266)
Q Consensus 193 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~-~----~P~ 259 (266)
...++ .....+|+|+|||.|..+..+++... .-+++.+|+ ++.++.++.+ ..|+++.+|..+ + .+.
T Consensus 245 ~~~l~-~~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~rl~~~~~n~~r~g~~~v~~~~~D~~~~~~~~~~~~ 323 (434)
T PRK14901 245 APLLD-PQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLLELKPQWR 323 (434)
T ss_pred HHHhC-CCCcCEEEEeCCCCchhHHHHHHHhCCCceEEEEcCCHHHHHHHHHHHHHcCCCeEEEEeCChhhccccccccc
Confidence 33344 44568999999999999999998854 568899998 4455555432 468999999876 2 222
Q ss_pred -C-CEEEe
Q 046424 260 -G-QAIFM 265 (266)
Q Consensus 260 -~-D~~~l 265 (266)
. |.|++
T Consensus 324 ~~fD~Vl~ 331 (434)
T PRK14901 324 GYFDRILL 331 (434)
T ss_pred ccCCEEEE
Confidence 3 88875
No 202
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=94.86 E-value=0.042 Score=43.86 Aligned_cols=45 Identities=27% Similarity=0.326 Sum_probs=39.7
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
+.|+++||+..++ ++..|.++|..|...|+|+..+ +. +|-|+++.
T Consensus 25 ~~s~~~IA~~~~i----s~~~L~kil~~L~kaGlV~S~r--G~----~GGy~Lar 69 (150)
T COG1959 25 PVSSAEIAERQGI----SPSYLEKILSKLRKAGLVKSVR--GK----GGGYRLAR 69 (150)
T ss_pred cccHHHHHHHhCc----CHHHHHHHHHHHHHcCCEEeec--CC----CCCccCCC
Confidence 7899999999999 9999999999999999999874 22 56788875
No 203
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=94.86 E-value=0.039 Score=43.43 Aligned_cols=55 Identities=24% Similarity=0.282 Sum_probs=45.4
Q ss_pred HHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 48 IMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 48 ~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
.+...| +.++.+||+.+++ ++..+.+.++.|...|+|.... ...|++|+.|..+.
T Consensus 16 l~~~~~--~~~~~ela~~l~v----s~~svs~~l~~L~~~Gli~~~~--------~~~i~LT~~G~~~a 70 (142)
T PRK03902 16 LIEEKG--YARVSDIAEALSV----HPSSVTKMVQKLDKDEYLIYEK--------YRGLVLTPKGKKIG 70 (142)
T ss_pred HHhcCC--CcCHHHHHHHhCC----ChhHHHHHHHHHHHCCCEEEec--------CceEEECHHHHHHH
Confidence 444554 8899999999999 9999999999999999998652 46699999876543
No 204
>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=94.84 E-value=0.033 Score=43.14 Aligned_cols=46 Identities=22% Similarity=0.240 Sum_probs=38.3
Q ss_pred CCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 55 TQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 55 ~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
++.|+.|||+.+++ ++..+.++|+.|...|++...+ +. .+.|.+..
T Consensus 24 ~~~s~~eia~~l~i----s~~~v~~~l~~L~~~Gli~~~~--g~----~ggy~l~~ 69 (130)
T TIGR02944 24 QPYSAAEIAEQTGL----NAPTVSKILKQLSLAGIVTSKR--GV----EGGYTLAR 69 (130)
T ss_pred CCccHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEecC--CC----CCChhhcC
Confidence 48999999999999 9999999999999999998642 11 45677754
No 205
>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=94.80 E-value=0.042 Score=45.10 Aligned_cols=73 Identities=16% Similarity=0.169 Sum_probs=50.2
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCe---------EEEeech-HHHhhCCCC-------CCceEEeccC
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLR---------GINFDLP-HVLKHAPSC-------PGVEHVGGDM 253 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~---------~~v~Dlp-~vi~~a~~~-------~ri~~~~gD~ 253 (266)
.++..-. |++...|+|-=||+|.++++.+...++.. +++.|.. +.++.++.+ ..|.+..+|+
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 3344333 66778999999999999999988888877 8999994 466655432 5689999999
Q ss_pred CC-CCCC-C-CEEE
Q 046424 254 FV-EVPK-G-QAIF 264 (266)
Q Consensus 254 f~-~~P~-~-D~~~ 264 (266)
++ +++. . |+++
T Consensus 98 ~~l~~~~~~~d~Iv 111 (179)
T PF01170_consen 98 RELPLPDGSVDAIV 111 (179)
T ss_dssp GGGGGTTSBSCEEE
T ss_pred hhcccccCCCCEEE
Confidence 98 6444 3 8775
No 206
>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=94.77 E-value=0.037 Score=41.37 Aligned_cols=32 Identities=22% Similarity=0.297 Sum_probs=25.5
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeec
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL 233 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl 233 (266)
.....+||||||+|.+.--|.+. .-+|.++|.
T Consensus 57 ~~~~~FVDlGCGNGLLV~IL~~E--Gy~G~GiD~ 88 (112)
T PF07757_consen 57 QKFQGFVDLGCGNGLLVYILNSE--GYPGWGIDA 88 (112)
T ss_pred CCCCceEEccCCchHHHHHHHhC--CCCcccccc
Confidence 35689999999999988777765 445788887
No 207
>KOG3045 consensus Predicted RNA methylase involved in rRNA processing [RNA processing and modification]
Probab=94.75 E-value=0.17 Score=43.86 Aligned_cols=90 Identities=14% Similarity=0.125 Sum_probs=55.4
Q ss_pred chhccccChhHHHHHHHHHHh----cchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHh
Q 046424 163 GFAAAAKDERINNLFNQSMHN----HTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLK 238 (266)
Q Consensus 163 ~~~~~~~~p~~~~~f~~~m~~----~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~ 238 (266)
-+..+.++|...+.|++.... |-......+++.+..-++...|.|+|||.+..+. .- --++.-+||-.+
T Consensus 138 A~~lfkedp~afdlYH~gfr~QV~kWP~nPld~ii~~ik~r~~~~vIaD~GCGEakiA~----~~-~~kV~SfDL~a~-- 210 (325)
T KOG3045|consen 138 AFDLFKEDPTAFDLYHAGFRSQVKKWPENPLDVIIRKIKRRPKNIVIADFGCGEAKIAS----SE-RHKVHSFDLVAV-- 210 (325)
T ss_pred HHHHHhcCcHHHHHHHHHHHHHHHhCCCChHHHHHHHHHhCcCceEEEecccchhhhhh----cc-ccceeeeeeecC--
Confidence 344456778777766665544 3333445566655423467899999999998887 11 124778888432
Q ss_pred hCCCCCCceEEeccCCC-CCCCC--CEEEe
Q 046424 239 HAPSCPGVEHVGGDMFV-EVPKG--QAIFM 265 (266)
Q Consensus 239 ~a~~~~ri~~~~gD~f~-~~P~~--D~~~l 265 (266)
+-+++++||-+ |.+.. |+.++
T Consensus 211 ------~~~V~~cDm~~vPl~d~svDvaV~ 234 (325)
T KOG3045|consen 211 ------NERVIACDMRNVPLEDESVDVAVF 234 (325)
T ss_pred ------CCceeeccccCCcCccCcccEEEe
Confidence 22346788887 66653 76653
No 208
>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=94.71 E-value=0.058 Score=50.43 Aligned_cols=73 Identities=18% Similarity=0.216 Sum_probs=50.7
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------C-CceEEeccCCCC-C--CC-
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC------P-GVEHVGGDMFVE-V--PK- 259 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~-ri~~~~gD~f~~-~--P~- 259 (266)
++..++ .....+|+|+|||.|..+..+++..|+.+.+.+|.. +.++.++.+ + +++++.+|.... . +.
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 344444 445689999999999999999999888889999994 456555432 2 344467777652 2 22
Q ss_pred C-CEEEe
Q 046424 260 G-QAIFM 265 (266)
Q Consensus 260 ~-D~~~l 265 (266)
. |.+++
T Consensus 309 ~fD~Vll 315 (426)
T TIGR00563 309 QFDRILL 315 (426)
T ss_pred ccCEEEE
Confidence 3 88874
No 209
>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=94.66 E-value=0.053 Score=35.75 Aligned_cols=44 Identities=18% Similarity=0.353 Sum_probs=40.4
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|.+.|.+.+ .+|++|||+.+++ ++.-++|=|..|...|++...
T Consensus 4 ~Il~~l~~~~--~~s~~ela~~~~V----S~~TiRRDl~~L~~~g~i~r~ 47 (57)
T PF08220_consen 4 QILELLKEKG--KVSVKELAEEFGV----SEMTIRRDLNKLEKQGLIKRT 47 (57)
T ss_pred HHHHHHHHcC--CEEHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEE
Confidence 3678888876 9999999999999 999999999999999999986
No 210
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=94.49 E-value=0.043 Score=43.24 Aligned_cols=66 Identities=20% Similarity=0.149 Sum_probs=48.2
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
..|+..|...+ ++|..+||+.+++ ++..+.++++-|...|+|+... +..|++ .-...+|+.|..+.
T Consensus 43 ~~vL~~l~~~~--~~t~~eLa~~l~i----~~~tvsr~l~~Le~~GlI~R~~-~~~DrR-~~~l~LT~~G~~~~ 108 (144)
T PRK11512 43 FKVLCSIRCAA--CITPVELKKVLSV----DLGALTRMLDRLVCKGWVERLP-NPNDKR-GVLVKLTTSGAAIC 108 (144)
T ss_pred HHHHHHHHHcC--CCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecc-CcccCC-eeEeEEChhHHHHH
Confidence 34577776655 8999999999999 9999999999999999999762 112221 22356666555433
No 211
>KOG3115 consensus Methyltransferase-like protein [General function prediction only]
Probab=94.45 E-value=0.019 Score=47.76 Aligned_cols=33 Identities=18% Similarity=0.412 Sum_probs=30.3
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP 234 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp 234 (266)
-..++|||||-|.+++.|...||+--.+++++=
T Consensus 61 kvefaDIGCGyGGLlv~Lsp~fPdtLiLGmEIR 93 (249)
T KOG3115|consen 61 KVEFADIGCGYGGLLMKLAPKFPDTLILGMEIR 93 (249)
T ss_pred cceEEeeccCccchhhhccccCccceeeeehhh
Confidence 478999999999999999999999999988884
No 212
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=94.44 E-value=0.089 Score=49.32 Aligned_cols=67 Identities=13% Similarity=0.126 Sum_probs=49.5
Q ss_pred CCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeech-HHHhhCCCC------CCceEEeccCCC-C-C-CCC-CEEEe
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFV-E-V-PKG-QAIFM 265 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~-~-~-P~~-D~~~l 265 (266)
.....+|+|+|||.|..+..+++.. +.-+++.+|+. +.++.++++ ..|+++.+|..+ + . +.. |.+++
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 56789999995 455554432 458899999875 2 2 233 88875
No 213
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=94.36 E-value=0.072 Score=33.67 Aligned_cols=43 Identities=28% Similarity=0.393 Sum_probs=38.0
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
|++.|.+.+ +.+..+|++.+++ ++..+.+.|..|...|++...
T Consensus 5 il~~l~~~~--~~s~~~l~~~l~~----s~~tv~~~l~~L~~~g~i~~~ 47 (53)
T smart00420 5 ILELLAQQG--KVSVEELAELLGV----SEMTIRRDLNKLEEQGLLTRV 47 (53)
T ss_pred HHHHHHHcC--CcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 566666655 8999999999999 999999999999999999976
No 214
>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=94.30 E-value=0.034 Score=45.41 Aligned_cols=46 Identities=24% Similarity=0.278 Sum_probs=36.0
Q ss_pred HHHHHccCCC--CCceEEEecCCccHHHHHHHHHC-CCCeEEEeechHH
Q 046424 191 EILEIYKGFE--GLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDLPHV 236 (266)
Q Consensus 191 ~i~~~~~~~~--~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp~v 236 (266)
.+.+.++-++ +..+++|+|++.|.++.-++++. +..+++.+|+...
T Consensus 11 ei~~~~~~~~~~~~~~vlDlG~aPGGws~~~~~~~~~~~~v~avDl~~~ 59 (181)
T PF01728_consen 11 EIDEKFKIFKPGKGFTVLDLGAAPGGWSQVLLQRGGPAGRVVAVDLGPM 59 (181)
T ss_dssp HHHHTTSSS-TTTTEEEEEET-TTSHHHHHHHTSTTTEEEEEEEESSST
T ss_pred HHHHHCCCCCcccccEEEEcCCcccceeeeeeecccccceEEEEecccc
Confidence 4555555233 45999999999999999999998 7888999999765
No 215
>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=94.29 E-value=0.026 Score=37.10 Aligned_cols=46 Identities=17% Similarity=0.361 Sum_probs=40.3
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
++.++..|.+.| +.+..+||+.+++ +...+.++++-|...|+++..
T Consensus 5 q~~iL~~l~~~~--~~~~~~la~~~~~----~~~~~t~~i~~L~~~g~I~r~ 50 (59)
T PF01047_consen 5 QFRILRILYENG--GITQSELAEKLGI----SRSTVTRIIKRLEKKGLIERE 50 (59)
T ss_dssp HHHHHHHHHHHS--SEEHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHcC--CCCHHHHHHHHCC----ChhHHHHHHHHHHHCCCEEec
Confidence 455677777777 8999999999999 999999999999999999976
No 216
>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=94.26 E-value=0.053 Score=45.60 Aligned_cols=66 Identities=12% Similarity=0.186 Sum_probs=49.5
Q ss_pred CCCceEEEecCCccHHHHHHHHHCC-CCeEEEeechH-HHhhCCC-------CCCceEEeccCCCCCC--------CC-C
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLPH-VLKHAPS-------CPGVEHVGGDMFVEVP--------KG-Q 261 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp~-vi~~a~~-------~~ri~~~~gD~f~~~P--------~~-D 261 (266)
.++++||+||++.|..+..+++..| +.+.+-+|..+ -.+.|++ .+||+++.||..+-+| .. |
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 3789999999999999999999988 58899999853 5555543 2799999999876222 23 8
Q ss_pred EEEe
Q 046424 262 AIFM 265 (266)
Q Consensus 262 ~~~l 265 (266)
.+|+
T Consensus 124 ~VFi 127 (205)
T PF01596_consen 124 FVFI 127 (205)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 8876
No 217
>KOG3010 consensus Methyltransferase [General function prediction only]
Probab=94.25 E-value=0.082 Score=45.21 Aligned_cols=44 Identities=32% Similarity=0.407 Sum_probs=33.7
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCCCCc
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSCPGV 246 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~~ri 246 (266)
+.+.++|||||+|.-++.+++.|-+ +|..|.. ..++.+.+.+++
T Consensus 33 ~h~~a~DvG~G~Gqa~~~iae~~k~--VIatD~s~~mL~~a~k~~~~ 77 (261)
T KOG3010|consen 33 GHRLAWDVGTGNGQAARGIAEHYKE--VIATDVSEAMLKVAKKHPPV 77 (261)
T ss_pred CcceEEEeccCCCcchHHHHHhhhh--heeecCCHHHHHHhhcCCCc
Confidence 4569999999999777777777664 7888985 488887765433
No 218
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=94.23 E-value=0.068 Score=42.76 Aligned_cols=45 Identities=16% Similarity=0.110 Sum_probs=39.5
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
+.|+++||+..++ ++..|.++|..|...|+|+..+ +. +|-|.++.
T Consensus 24 ~~s~~eIA~~~~i----s~~~L~kIl~~L~~aGlv~S~r--G~----~GGy~La~ 68 (153)
T PRK11920 24 LSRIPEIARAYGV----SELFLFKILQPLVEAGLVETVR--GR----NGGVRLGR 68 (153)
T ss_pred cCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeec--CC----CCCeeecC
Confidence 7899999999999 9999999999999999999874 21 56788875
No 219
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=94.19 E-value=0.11 Score=34.05 Aligned_cols=42 Identities=19% Similarity=0.320 Sum_probs=36.5
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
|+..|. .+ +.|..+|++.+++ +...+.+.++.|...|++...
T Consensus 2 il~~l~-~~--~~~~~~i~~~l~i----s~~~v~~~l~~L~~~g~i~~~ 43 (66)
T smart00418 2 ILKLLA-EG--ELCVCELAEILGL----SQSTVSHHLKKLREAGLVESR 43 (66)
T ss_pred HHHHhh-cC--CccHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeee
Confidence 455665 33 8999999999999 899999999999999999965
No 220
>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=94.18 E-value=0.13 Score=45.81 Aligned_cols=65 Identities=29% Similarity=0.311 Sum_probs=47.7
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC-----CCCceEEeccCCC
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS-----CPGVEHVGGDMFV 255 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~-----~~ri~~~~gD~f~ 255 (266)
..+++.+. ......+||+==|.|..+.+|++++|+.+.+++|. |.+++.++. .+|+.++.++|-+
T Consensus 10 ~Evl~~L~-~~~~g~~vD~T~G~GGHS~aiL~~~~~~~li~~DrD~~a~~~a~~~l~~~~~r~~~~~~~F~~ 80 (310)
T PF01795_consen 10 KEVLEALN-PKPGGIYVDCTFGGGGHSKAILEKLPNGRLIGIDRDPEALERAKERLKKFDDRFIFIHGNFSN 80 (310)
T ss_dssp HHHHHHHT---TT-EEEETT-TTSHHHHHHHHT-TT-EEEEEES-HHHHHHHHCCTCCCCTTEEEEES-GGG
T ss_pred HHHHHhhC-cCCCceEEeecCCcHHHHHHHHHhCCCCeEEEecCCHHHHHHHHHHHhhccceEEEEeccHHH
Confidence 45666665 55668999999999999999999999999999999 557766554 2799999999865
No 221
>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=94.12 E-value=0.047 Score=45.89 Aligned_cols=61 Identities=18% Similarity=0.187 Sum_probs=45.0
Q ss_pred EEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------CCCceEEeccCCCCCCCC---CEEEe
Q 046424 205 LVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS-------CPGVEHVGGDMFVEVPKG---QAIFM 265 (266)
Q Consensus 205 vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gD~f~~~P~~---D~~~l 265 (266)
|+||||-+|.+.+.|+++..--+++..|+. .-.+.|+. .++|++.-+|=|+.++++ |++++
T Consensus 1 vaDIGtDHgyLpi~L~~~~~~~~~ia~DI~~gpL~~A~~~i~~~~l~~~i~~rlgdGL~~l~~~e~~d~ivI 72 (205)
T PF04816_consen 1 VADIGTDHGYLPIYLLKNGKAPKAIAVDINPGPLEKAKENIAKYGLEDRIEVRLGDGLEVLKPGEDVDTIVI 72 (205)
T ss_dssp EEEET-STTHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHHHTT-TTTEEEEE-SGGGG--GGG---EEEE
T ss_pred CceeccchhHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCcccEEEEECCcccccCCCCCCCEEEE
Confidence 689999999999999999999899999994 24444332 379999999999877663 67664
No 222
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=94.09 E-value=0.086 Score=40.59 Aligned_cols=69 Identities=16% Similarity=0.181 Sum_probs=49.7
Q ss_pred CCCcChHHHHHHHHHHhhhhHHHHHHHHHhhChhHHHh-hcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccc
Q 046424 13 KPARDEQDFLLAMELASGAVLPMTIKSATELGLLEIMA-KASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLT 91 (266)
Q Consensus 13 ~~~~~~~~~~~l~~~~~g~~~~~~L~~a~~lglfd~L~-~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~ 91 (266)
.++..+.....+.+.++|--. .+..++-+|- .+| |.|+++||+.++. +..-+.|-|.-|...|++.
T Consensus 7 ~~~~~~~~~~dvl~c~~GLs~-------~Dv~v~~~LL~~~~--~~tvdelae~lnr----~rStv~rsl~~L~~~GlV~ 73 (126)
T COG3355 7 EPSRKEFRCEDVLKCVYGLSE-------LDVEVYKALLEENG--PLTVDELAEILNR----SRSTVYRSLQNLLEAGLVE 73 (126)
T ss_pred ccccccCcHHHHHHHHhCCcH-------HHHHHHHHHHhhcC--CcCHHHHHHHHCc----cHHHHHHHHHHHHHcCCee
Confidence 344444445555555555322 2445555554 455 9999999999999 9999999999999999999
Q ss_pred ccc
Q 046424 92 CNL 94 (266)
Q Consensus 92 ~~~ 94 (266)
+.+
T Consensus 74 Rek 76 (126)
T COG3355 74 REK 76 (126)
T ss_pred eee
Confidence 874
No 223
>PRK11050 manganese transport regulator MntR; Provisional
Probab=94.06 E-value=0.072 Score=42.55 Aligned_cols=58 Identities=21% Similarity=0.281 Sum_probs=47.0
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
|..++...+ +.+..+||+.+++ +...+.++++-|...|++.... ...+.+|+.+..+.
T Consensus 42 I~~~l~~~~--~~t~~eLA~~l~i----s~stVsr~l~~Le~~GlI~r~~--------~~~v~LT~~G~~l~ 99 (152)
T PRK11050 42 IADLIAEVG--EARQVDIAARLGV----SQPTVAKMLKRLARDGLVEMRP--------YRGVFLTPEGEKLA 99 (152)
T ss_pred HHHHHHhcC--CCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEec--------CCceEECchHHHHH
Confidence 556676655 8999999999999 9999999999999999998752 34578887666544
No 224
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=93.94 E-value=0.074 Score=39.54 Aligned_cols=46 Identities=17% Similarity=0.293 Sum_probs=42.0
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTC 92 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~ 92 (266)
.+..|+.+|..++ +.|..+||+.+|+ ++..+.+.++.|...|++..
T Consensus 4 ~D~~il~~L~~~~--~~~~~~la~~l~~----s~~tv~~~l~~L~~~g~i~~ 49 (108)
T smart00344 4 IDRKILEELQKDA--RISLAELAKKVGL----SPSTVHNRVKRLEEEGVIKG 49 (108)
T ss_pred HHHHHHHHHHHhC--CCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeec
Confidence 4677889998876 8999999999999 99999999999999999994
No 225
>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=93.83 E-value=0.086 Score=44.14 Aligned_cols=60 Identities=25% Similarity=0.320 Sum_probs=48.8
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVS 112 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s 112 (266)
.+..|+..|.+.| +.+..+||+.+++ ++..+.+.|..|...|+++.... . ...|.+|+.|
T Consensus 144 ~~~~IL~~l~~~g--~~s~~eia~~l~i----s~stv~r~L~~Le~~GlI~r~~~-r-----~~~~~lT~~G 203 (203)
T TIGR01884 144 EELKVLEVLKAEG--EKSVKNIAKKLGK----SLSTISRHLRELEKKGLVEQKGR-K-----GKRYSLTKLG 203 (203)
T ss_pred HHHHHHHHHHHcC--CcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEEcC-C-----ccEEEeCCCC
Confidence 3456778887765 8999999999999 99999999999999999998720 1 4668888754
No 226
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=93.82 E-value=0.05 Score=49.77 Aligned_cols=51 Identities=12% Similarity=0.129 Sum_probs=41.0
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEEeccCCC
Q 046424 203 NQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFV 255 (266)
Q Consensus 203 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~ 255 (266)
.+++|++||+|.++..+++... +++.+|.. +.++.++++ ++++++.+|.++
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 4699999999999999988865 78999984 466655542 589999999865
No 227
>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=93.75 E-value=0.19 Score=44.88 Aligned_cols=65 Identities=18% Similarity=0.195 Sum_probs=51.6
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-----CCceEEeccCCC
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-----PGVEHVGGDMFV 255 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-----~ri~~~~gD~f~ 255 (266)
..+++.+. ......+||+=.|.|..+..++++.|+.+.+++|.. .+++.+++. +|++++.++|-+
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 45566654 445579999999999999999999988899999994 566665432 589999999886
No 228
>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=93.72 E-value=0.097 Score=40.41 Aligned_cols=45 Identities=22% Similarity=0.242 Sum_probs=38.0
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
+.|.++||+.+++ ++..++++|+.|...|++...+ +. .+.|.++.
T Consensus 25 ~~s~~eia~~~~i----~~~~v~~il~~L~~~gli~~~~--g~----~ggy~l~~ 69 (132)
T TIGR00738 25 PVSVKEIAERQGI----SRSYLEKILRTLRRAGLVESVR--GP----GGGYRLAR 69 (132)
T ss_pred cCcHHHHHHHHCc----CHHHHHHHHHHHHHCCcEEecc--CC----CCCccCCC
Confidence 8999999999999 9999999999999999998652 11 45677764
No 229
>KOG3191 consensus Predicted N6-DNA-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=93.69 E-value=0.12 Score=42.44 Aligned_cols=65 Identities=14% Similarity=0.179 Sum_probs=47.7
Q ss_pred CceEEEecCCccHHHHHHHHH-CCCCeEEEeech-HHHhhCC----CC-CCceEEeccCCCCCC-CC-CEEEeC
Q 046424 202 LNQLVDVAGGLGANLKSIVSK-YPQLRGINFDLP-HVLKHAP----SC-PGVEHVGGDMFVEVP-KG-QAIFMK 266 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~-~P~l~~~v~Dlp-~vi~~a~----~~-~ri~~~~gD~f~~~P-~~-D~~~lk 266 (266)
...+++||||+|.....+++. -|+.....-|+. +..+... -+ -+|..+..|++..+- .. |+.+|+
T Consensus 44 ~~i~lEIG~GSGvvstfL~~~i~~~~~~latDiNp~A~~~Tl~TA~~n~~~~~~V~tdl~~~l~~~~VDvLvfN 117 (209)
T KOG3191|consen 44 PEICLEIGCGSGVVSTFLASVIGPQALYLATDINPEALEATLETARCNRVHIDVVRTDLLSGLRNESVDVLVFN 117 (209)
T ss_pred ceeEEEecCCcchHHHHHHHhcCCCceEEEecCCHHHHHHHHHHHHhcCCccceeehhHHhhhccCCccEEEEC
Confidence 788999999999988887775 477778888984 4554422 22 468889999998543 33 888764
No 230
>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=93.61 E-value=0.084 Score=48.13 Aligned_cols=51 Identities=12% Similarity=0.134 Sum_probs=41.4
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEEeccCCC
Q 046424 203 NQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFV 255 (266)
Q Consensus 203 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~ 255 (266)
.+++|++||+|.++..+++... +++.+|.. +.++.++.+ ++++++.+|..+
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 4699999999999999988874 79999984 566666542 579999999876
No 231
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=93.51 E-value=0.093 Score=45.52 Aligned_cols=67 Identities=16% Similarity=0.225 Sum_probs=58.9
Q ss_pred HHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccc
Q 046424 36 TIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYF 115 (266)
Q Consensus 36 ~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l 115 (266)
.+....+..|+=.|.++ |.|.+||-..+++ ++..+..-++-|...|++.++ ++.|++|..|..+
T Consensus 9 if~SekRk~lLllL~eg---Pkti~EI~~~l~v----s~~ai~pqiKkL~~~~LV~~~---------~~~Y~LS~~G~ii 72 (260)
T COG4742 9 LFLSEKRKDLLLLLKEG---PKTIEEIKNELNV----SSSAILPQIKKLKDKGLVVQE---------GDRYSLSSLGKII 72 (260)
T ss_pred HHccHHHHHHHHHHHhC---CCCHHHHHHHhCC----CcHHHHHHHHHHhhCCCEEec---------CCEEEecchHHHH
Confidence 34556778888899884 9999999999999 888999999999999999987 7899999999988
Q ss_pred cCC
Q 046424 116 VPN 118 (266)
Q Consensus 116 ~~~ 118 (266)
+..
T Consensus 73 v~k 75 (260)
T COG4742 73 VEK 75 (260)
T ss_pred HHH
Confidence 753
No 232
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=93.47 E-value=0.16 Score=44.29 Aligned_cols=66 Identities=18% Similarity=0.116 Sum_probs=47.1
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCC-CeEEEeech-HHHhhCCCC------CCceEEeccCCC-CC--CCCCEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQ-LRGINFDLP-HVLKHAPSC------PGVEHVGGDMFV-EV--PKGQAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~-~~--P~~D~~~l 265 (266)
....+|+|+|||.|..+..+++...+ -+++.+|+. ..++.++.+ ..|+++.+|... +. +..|++++
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 34578999999999999999988753 578999994 455544331 468888888654 22 22388875
No 233
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=93.46 E-value=0.12 Score=41.33 Aligned_cols=57 Identities=18% Similarity=0.211 Sum_probs=47.3
Q ss_pred hHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 46 LEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 46 fd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
+......| ++...+||+.+++ ++..+..+++-|...|+++... .+.+.+|+.|....
T Consensus 16 y~l~~~~~--~~~~~diA~~L~V----sp~sVt~ml~rL~~~GlV~~~~--------y~gi~LT~~G~~~a 72 (154)
T COG1321 16 YELLEEKG--FARTKDIAERLKV----SPPSVTEMLKRLERLGLVEYEP--------YGGVTLTEKGREKA 72 (154)
T ss_pred HHHHhccC--cccHHHHHHHhCC----CcHHHHHHHHHHHHCCCeEEec--------CCCeEEChhhHHHH
Confidence 33444444 8999999999999 8999999999999999999872 67799998877544
No 234
>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=93.40 E-value=0.13 Score=34.74 Aligned_cols=57 Identities=25% Similarity=0.403 Sum_probs=44.0
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
+..|+..+... +.+..||++.+++ +...+.+.++.|...|++.... .+ ....|.+++
T Consensus 9 ~~~il~~l~~~---~~~~~ei~~~~~i----~~~~i~~~l~~L~~~g~i~~~~----~~-~~~~~~~~~ 65 (78)
T cd00090 9 RLRILRLLLEG---PLTVSELAERLGL----SQSTVSRHLKKLEEAGLVESRR----EG-RRVYYSLTD 65 (78)
T ss_pred HHHHHHHHHHC---CcCHHHHHHHHCc----CHhHHHHHHHHHHHCCCeEEEE----ec-cEEEEEeCC
Confidence 34466676664 5899999999999 9999999999999999999752 11 145677765
No 235
>KOG2361 consensus Predicted methyltransferase [General function prediction only]
Probab=93.37 E-value=0.076 Score=45.43 Aligned_cols=64 Identities=19% Similarity=0.340 Sum_probs=49.4
Q ss_pred CceEEEecCCccHHHHHHHHHCCC--CeEEEeec-hHHHhhCCCC-----CCceEEeccCCCC-----CCCC--CEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQ--LRGINFDL-PHVLKHAPSC-----PGVEHVGGDMFVE-----VPKG--QAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~--l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gD~f~~-----~P~~--D~~~l 265 (266)
..+|+.||||.|...--|++.+|+ ++....|. |..|+..+++ .|+.....|+-.+ .+.+ |++.|
T Consensus 72 ~~~ilEvGCGvGNtvfPll~~~~n~~l~v~acDfsp~Ai~~vk~~~~~~e~~~~afv~Dlt~~~~~~~~~~~svD~it~ 150 (264)
T KOG2361|consen 72 AETILEVGCGVGNTVFPLLKTSPNNRLKVYACDFSPRAIELVKKSSGYDESRVEAFVWDLTSPSLKEPPEEGSVDIITL 150 (264)
T ss_pred hhhheeeccCCCcccchhhhcCCCCCeEEEEcCCChHHHHHHHhccccchhhhcccceeccchhccCCCCcCccceEEE
Confidence 348999999999999999999999 89999998 5677776653 5666667777652 3334 87765
No 236
>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=93.35 E-value=0.16 Score=36.77 Aligned_cols=69 Identities=25% Similarity=0.229 Sum_probs=52.5
Q ss_pred HHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHH----------HhcCCcc-ccccccCCCCcccccee
Q 046424 39 SATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRL----------LASYSFL-TCNLVSNKDGSVQRLYG 107 (266)
Q Consensus 39 ~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~----------L~~~g~l-~~~~~~~~~~~~~~~y~ 107 (266)
.=++..|+..|...-+++.++.|||..+++ ++..+.-.|+- |+.+|+| ++.. ..| ...|+
T Consensus 8 S~~R~~vl~~L~~~yp~~~~~~eIar~v~~----~~snV~GaL~G~g~rY~~e~SLv~lGLV~~~~~---~~g--~k~Y~ 78 (90)
T PF07381_consen 8 SKVRKKVLEYLCSIYPEPAYPSEIARSVGS----DYSNVLGALRGDGKRYNKEDSLVGLGLVEEEEE---KGG--FKYYR 78 (90)
T ss_pred HHHHHHHHHHHHHcCCCcCCHHHHHHHHCC----CHHHHHHHHhcCCCCcCcchhHHHcCCeeEeee---cCC--eeEEE
Confidence 456778999998885579999999999999 88877777654 8899999 4331 123 45799
Q ss_pred cchhccccc
Q 046424 108 LTPVSKYFV 116 (266)
Q Consensus 108 ~t~~s~~l~ 116 (266)
+|+.+..++
T Consensus 79 lT~~G~~~~ 87 (90)
T PF07381_consen 79 LTEKGKRIA 87 (90)
T ss_pred eChhhhhHH
Confidence 999876543
No 237
>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=93.25 E-value=0.07 Score=38.59 Aligned_cols=65 Identities=20% Similarity=0.291 Sum_probs=47.5
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhC-CCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccC
Q 046424 44 GLLEIMAKASPTQLSSSEIASQL-PTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~-~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
-|+..|.. | +....||.+.+ ++ ++..|.+-|+-|...|++++..... ....-.|++|+.|..|.+
T Consensus 9 ~IL~~l~~-g--~~rf~el~~~l~~i----s~~~L~~~L~~L~~~GLv~r~~~~~--~p~~v~Y~LT~~G~~l~~ 74 (90)
T PF01638_consen 9 LILRALFQ-G--PMRFSELQRRLPGI----SPKVLSQRLKELEEAGLVERRVYPE--VPPRVEYSLTEKGKELLP 74 (90)
T ss_dssp HHHHHHTT-S--SEEHHHHHHHSTTS-----HHHHHHHHHHHHHTTSEEEEEESS--SSSEEEEEE-HHHHHHHH
T ss_pred HHHHHHHh-C--CCcHHHHHHhcchh----HHHHHHHHHHHHHHcchhhcccccC--CCCCCccCCCcCHHHHHH
Confidence 35556666 4 99999999999 89 9999999999999999998763111 000235999998887663
No 238
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=93.16 E-value=0.076 Score=45.97 Aligned_cols=67 Identities=10% Similarity=0.138 Sum_probs=51.3
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeechH-HHhhCCC-------CCCceEEeccCCCCCC---------CC
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLPH-VLKHAPS-------CPGVEHVGGDMFVEVP---------KG 260 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp~-vi~~a~~-------~~ri~~~~gD~f~~~P---------~~ 260 (266)
..+++++|+||.+.|..+..+++..| +.+.+-+|..+ ..+.|+. .++|+++.||..+-+| ..
T Consensus 77 ~~~ak~iLEiGT~~GySal~la~al~~~g~v~tiE~~~~~~~~Ar~~~~~ag~~~~I~~~~G~a~e~L~~l~~~~~~~~~ 156 (247)
T PLN02589 77 LINAKNTMEIGVYTGYSLLATALALPEDGKILAMDINRENYELGLPVIQKAGVAHKIDFREGPALPVLDQMIEDGKYHGT 156 (247)
T ss_pred HhCCCEEEEEeChhhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCceEEEeccHHHHHHHHHhccccCCc
Confidence 34789999999999999999998865 77888898853 4555543 2799999999877322 23
Q ss_pred -CEEEe
Q 046424 261 -QAIFM 265 (266)
Q Consensus 261 -D~~~l 265 (266)
|++|+
T Consensus 157 fD~iFi 162 (247)
T PLN02589 157 FDFIFV 162 (247)
T ss_pred ccEEEe
Confidence 88876
No 239
>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]
Probab=93.16 E-value=0.085 Score=44.89 Aligned_cols=66 Identities=14% Similarity=0.230 Sum_probs=45.7
Q ss_pred HHHHHHHHHhcchhhHHHHHHH----ccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC
Q 046424 174 NNLFNQSMHNHTTIVMKEILEI----YKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS 242 (266)
Q Consensus 174 ~~~f~~~m~~~~~~~~~~i~~~----~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~ 242 (266)
++.|.+.+-..-.+..|..+.. .+ ....++++|+|||+|..+..|..+--. -+++|+.+ +++.+.+
T Consensus 95 Ae~Fd~~LVdkL~Y~vP~~l~emI~~~~-~g~F~~~lDLGCGTGL~G~~lR~~a~~--ltGvDiS~nMl~kA~e 165 (287)
T COG4976 95 AERFDHILVDKLGYSVPELLAEMIGKAD-LGPFRRMLDLGCGTGLTGEALRDMADR--LTGVDISENMLAKAHE 165 (287)
T ss_pred HHHHHHHHHHHhcCccHHHHHHHHHhcc-CCccceeeecccCcCcccHhHHHHHhh--ccCCchhHHHHHHHHh
Confidence 4567666665544444544433 33 334899999999999999998887554 56789975 7777665
No 240
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=93.09 E-value=0.16 Score=33.01 Aligned_cols=42 Identities=24% Similarity=0.353 Sum_probs=33.9
Q ss_pred HHHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHH
Q 046424 33 LPMTIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRL 83 (266)
Q Consensus 33 ~~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~ 83 (266)
+-.+|.+|+++|-|+.= ...|..|||+.+|+ ++..+...||-
T Consensus 5 Q~e~L~~A~~~GYfd~P-----R~~tl~elA~~lgi----s~st~~~~LRr 46 (53)
T PF04967_consen 5 QREILKAAYELGYFDVP-----RRITLEELAEELGI----SKSTVSEHLRR 46 (53)
T ss_pred HHHHHHHHHHcCCCCCC-----CcCCHHHHHHHhCC----CHHHHHHHHHH
Confidence 45689999999999862 26899999999999 77776666654
No 241
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=92.97 E-value=0.16 Score=43.06 Aligned_cols=55 Identities=15% Similarity=0.286 Sum_probs=49.5
Q ss_pred HHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccccc
Q 046424 34 PMTIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNL 94 (266)
Q Consensus 34 ~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~ 94 (266)
-++|...+++.|+..|++.| |+.+.|||+++|+ +..-+..-+..|...|+++...
T Consensus 17 ~kalaS~vRv~Il~lL~~k~--plNvneiAe~lgL----pqst~s~~ik~Le~aGlirT~t 71 (308)
T COG4189 17 LKALASKVRVAILQLLHRKG--PLNVNEIAEALGL----PQSTMSANIKVLEKAGLIRTET 71 (308)
T ss_pred HHHHHHHHHHHHHHHHHHhC--CCCHHHHHHHhCC----chhhhhhhHHHHHhcCceeeee
Confidence 46778889999999999997 9999999999999 8888889999999999998654
No 242
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=92.90 E-value=0.23 Score=40.79 Aligned_cols=45 Identities=18% Similarity=0.220 Sum_probs=41.1
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
..|+++|...| ++|.++||+.+|+ +...++++|..|...|++...
T Consensus 25 ~~Vl~~L~~~g--~~tdeeLA~~Lgi----~~~~VRk~L~~L~e~gLv~~~ 69 (178)
T PRK06266 25 FEVLKALIKKG--EVTDEEIAEQTGI----KLNTVRKILYKLYDARLADYK 69 (178)
T ss_pred hHHHHHHHHcC--CcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe
Confidence 44889998876 9999999999999 999999999999999999954
No 243
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=92.90 E-value=0.38 Score=41.55 Aligned_cols=84 Identities=18% Similarity=0.197 Sum_probs=60.9
Q ss_pred HHhcchhh----HHHHHHHccCCCCCceEEEecCCccHHHHHHHH-HCCCCeEEEeech-HHHhhCCCC-------CCce
Q 046424 181 MHNHTTIV----MKEILEIYKGFEGLNQLVDVAGGLGANLKSIVS-KYPQLRGINFDLP-HVLKHAPSC-------PGVE 247 (266)
Q Consensus 181 m~~~~~~~----~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~-~~P~l~~~v~Dlp-~vi~~a~~~-------~ri~ 247 (266)
|...++.. +..|+.... .+...+|+|.|-|+|.++..|+. -.|.=+.+.+|.- +-.+.|+++ ++|+
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 66666532 223444444 66789999999999999999997 6788888888883 344455442 6799
Q ss_pred EEeccCCCC-CCCC-CEEEe
Q 046424 248 HVGGDMFVE-VPKG-QAIFM 265 (266)
Q Consensus 248 ~~~gD~f~~-~P~~-D~~~l 265 (266)
+..+|..+. .+.. |++++
T Consensus 150 ~~~~Dv~~~~~~~~vDav~L 169 (256)
T COG2519 150 LKLGDVREGIDEEDVDAVFL 169 (256)
T ss_pred EEeccccccccccccCEEEE
Confidence 999999994 4445 88876
No 244
>PF07091 FmrO: Ribosomal RNA methyltransferase (FmrO); PDB: 3LCU_A 3LCV_B 3FRH_A 3FRI_A 3B89_A 3FZG_A.
Probab=92.85 E-value=0.4 Score=41.37 Aligned_cols=65 Identities=14% Similarity=0.231 Sum_probs=47.5
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC-----CCCceEEeccCCCCCCCC--CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS-----CPGVEHVGGDMFVEVPKG--QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-----~~ri~~~~gD~f~~~P~~--D~~~l 265 (266)
.+.+|+|||||---++.-.....|+.+.+..|+.+ .++.++. ....+....|.+...|.. |+.+|
T Consensus 105 ~p~sVlDigCGlNPlalp~~~~~~~a~Y~a~DID~~~ve~l~~~l~~l~~~~~~~v~Dl~~~~~~~~~DlaLl 177 (251)
T PF07091_consen 105 PPDSVLDIGCGLNPLALPWMPEAPGATYIAYDIDSQLVEFLNAFLAVLGVPHDARVRDLLSDPPKEPADLALL 177 (251)
T ss_dssp --SEEEEET-TTCHHHHHTTTSSTT-EEEEEESBHHHHHHHHHHHHHTT-CEEEEEE-TTTSHTTSEESEEEE
T ss_pred CCchhhhhhccCCceehhhcccCCCcEEEEEeCCHHHHHHHHHHHHhhCCCcceeEeeeeccCCCCCcchhhH
Confidence 48999999999999999999999999999999964 4444332 267788888999987764 88764
No 245
>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=92.77 E-value=0.21 Score=41.81 Aligned_cols=37 Identities=16% Similarity=0.251 Sum_probs=30.0
Q ss_pred CCCCc-eEEEecCCccHHHHHHHHHCCCCeEEEeechH
Q 046424 199 FEGLN-QLVDVAGGLGANLKSIVSKYPQLRGINFDLPH 235 (266)
Q Consensus 199 ~~~~~-~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~ 235 (266)
+.... +||+||+|+|+.+..+++.+|+++-.==|...
T Consensus 22 l~~~~~~vLEiaSGtGqHa~~FA~~lP~l~WqPSD~~~ 59 (204)
T PF06080_consen 22 LPDSGTRVLEIASGTGQHAVYFAQALPHLTWQPSDPDD 59 (204)
T ss_pred hCccCceEEEEcCCccHHHHHHHHHCCCCEEcCCCCCh
Confidence 34445 59999999999999999999999875556643
No 246
>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=92.72 E-value=0.17 Score=37.93 Aligned_cols=70 Identities=16% Similarity=0.244 Sum_probs=48.3
Q ss_pred HhhChhHHHh--hcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 41 TELGLLEIMA--KASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 41 ~~lglfd~L~--~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
.++.++..|. ...+++.|..+||+.+++ +...+.++++-|...|++.+.+ +..|.+ .-.+.+|+.+..+.
T Consensus 26 ~q~~vL~~l~~~~~~~~~~t~~eL~~~l~~----~~stvs~~i~~Le~kg~I~r~~-~~~D~R-~~~i~lT~~G~~~~ 97 (109)
T TIGR01889 26 EELLILYYLGKLENNEGKLTLKEIIKEILI----KQSALVKIIKKLSKKGYLSKER-SEDDER-KVIISINKEQRSKI 97 (109)
T ss_pred HHHHHHHHHHhhhccCCcCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCEeccC-CcccCC-eEEEEECHHHHHHH
Confidence 3445666665 221138999999999999 9999999999999999999763 112221 22356676665443
No 247
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=92.64 E-value=0.12 Score=47.74 Aligned_cols=64 Identities=6% Similarity=-0.060 Sum_probs=47.5
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEEeccCCCCCC--C-CCEEEe
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFVEVP--K-GQAIFM 265 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~~~P--~-~D~~~l 265 (266)
..+|+|++||+|.+++.++...+..+++..|+. ..++.++.+ +.+++..+|..+-++ . .|++.+
T Consensus 58 ~~~vLDl~aGsG~~~l~~a~~~~~~~V~a~Din~~Av~~a~~N~~~N~~~~~~v~~~Da~~~l~~~~~fD~V~l 131 (382)
T PRK04338 58 RESVLDALSASGIRGIRYALETGVEKVTLNDINPDAVELIKKNLELNGLENEKVFNKDANALLHEERKFDVVDI 131 (382)
T ss_pred CCEEEECCCcccHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCceEEEhhhHHHHHhhcCCCCEEEE
Confidence 358999999999999999998886689999994 566665542 456788888755222 2 387765
No 248
>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=92.63 E-value=0.21 Score=34.00 Aligned_cols=45 Identities=16% Similarity=0.298 Sum_probs=39.0
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
++.|+..|.+. +.+..+||+.+|+ +...+.+-++.|...|+....
T Consensus 2 ~~~il~~L~~~---~~~~~eLa~~l~v----S~~tv~~~l~~L~~~g~~i~~ 46 (69)
T TIGR00122 2 PLRLLALLADN---PFSGEKLGEALGM----SRTAVNKHIQTLREWGVDVLT 46 (69)
T ss_pred hHHHHHHHHcC---CcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe
Confidence 45678888864 7899999999999 999999999999999996654
No 249
>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=92.51 E-value=0.18 Score=34.31 Aligned_cols=61 Identities=16% Similarity=0.167 Sum_probs=44.9
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCC-CCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNN-KKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKY 114 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~-~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~ 114 (266)
|++.|.+.+ .|++..+|++.+.... ..++..++|.|+.|-..|++... + .+-+.+|+.+..
T Consensus 3 IL~~L~~~~-~P~g~~~l~~~L~~~g~~~se~avRrrLr~me~~Glt~~~---g-----~~G~~iT~~G~~ 64 (66)
T PF08461_consen 3 ILRILAESD-KPLGRKQLAEELKLRGEELSEEAVRRRLRAMERDGLTRKV---G-----RQGRIITEKGLD 64 (66)
T ss_pred HHHHHHHcC-CCCCHHHHHHHHHhcChhhhHHHHHHHHHHHHHCCCcccc---C-----CcccccCHHHHh
Confidence 567887765 4999999999996521 12468899999999999977754 1 344678876653
No 250
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=92.27 E-value=0.6 Score=39.16 Aligned_cols=67 Identities=21% Similarity=0.213 Sum_probs=49.7
Q ss_pred chhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeechHHHhhCCCCCCceEEeccCCC
Q 046424 185 TTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLPHVLKHAPSCPGVEHVGGDMFV 255 (266)
Q Consensus 185 ~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp~vi~~a~~~~ri~~~~gD~f~ 255 (266)
+.+-...+.+.|.-+++...|+|+|+-.|.++.-+.+.-. .-+++.+|+-+.-. .++|.++.+||+.
T Consensus 29 Aa~KL~el~~k~~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ivavDi~p~~~----~~~V~~iq~d~~~ 96 (205)
T COG0293 29 AAYKLLELNEKFKLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDILPMKP----IPGVIFLQGDITD 96 (205)
T ss_pred HHHHHHHHHHhcCeecCCCEEEEcCCCCCcHHHHHHHHhCCCCcEEEEECccccc----CCCceEEeeeccC
Confidence 3333345566665467889999999999999998777654 45689999865432 3669999999987
No 251
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=92.22 E-value=0.4 Score=47.83 Aligned_cols=75 Identities=17% Similarity=0.090 Sum_probs=52.5
Q ss_pred HHHHHHccCC-CCCceEEEecCCccHHHHHHHHHC------------------------------------------CCC
Q 046424 190 KEILEIYKGF-EGLNQLVDVAGGLGANLKSIVSKY------------------------------------------PQL 226 (266)
Q Consensus 190 ~~i~~~~~~~-~~~~~vvDVGGG~G~~~~~l~~~~------------------------------------------P~l 226 (266)
..++..-. | ++...++|-.||+|+++++.+... +..
T Consensus 179 aa~l~~a~-w~~~~~~l~DP~CGSGTilIEAa~~~~~~~pg~~r~~f~f~~~~~~~~~~w~~~~~~a~~~~~~~~~~~~~ 257 (702)
T PRK11783 179 AAILLRSG-WPQEGTPLLDPMCGSGTLLIEAAMMAADIAPGLHRERWGFSGWLGHDEALWQELLEEAQERARAGLAELPS 257 (702)
T ss_pred HHHHHHcC-CCCCCCeEEccCCCccHHHHHHHHHHhcCCCCccccccccccCCCCCHHHHHHHHHHHHHHHhhcccccCc
Confidence 34444433 7 456899999999999999987631 123
Q ss_pred eEEEeec-hHHHhhCCCC-------CCceEEeccCCC-CCCC----CCEEEe
Q 046424 227 RGINFDL-PHVLKHAPSC-------PGVEHVGGDMFV-EVPK----GQAIFM 265 (266)
Q Consensus 227 ~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~-~~P~----~D~~~l 265 (266)
+++++|+ |..++.++.+ ++|++..+|+++ +.|. .|+++.
T Consensus 258 ~i~G~Did~~av~~A~~N~~~~g~~~~i~~~~~D~~~~~~~~~~~~~d~Ivt 309 (702)
T PRK11783 258 KFYGSDIDPRVIQAARKNARRAGVAELITFEVKDVADLKNPLPKGPTGLVIS 309 (702)
T ss_pred eEEEEECCHHHHHHHHHHHHHcCCCcceEEEeCChhhcccccccCCCCEEEE
Confidence 6799998 5677776653 579999999988 4332 277753
No 252
>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=92.19 E-value=0.17 Score=42.37 Aligned_cols=67 Identities=18% Similarity=0.186 Sum_probs=45.9
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------CCCceEEeccCCCCCCC--CCEEEe
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS-------CPGVEHVGGDMFVEVPK--GQAIFM 265 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gD~f~~~P~--~D~~~l 265 (266)
.....+|+|.-||.|.++..+++..+..+++..|+. ..++.++. ..+|+.+.+|..+-.+. .|-++|
T Consensus 99 v~~~e~VlD~faGIG~f~l~~ak~~~~~~V~A~d~Np~a~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~~~~~drvim 175 (200)
T PF02475_consen 99 VKPGEVVLDMFAGIGPFSLPIAKHGKAKRVYAVDLNPDAVEYLKENIRLNKVENRIEVINGDAREFLPEGKFDRVIM 175 (200)
T ss_dssp --TT-EEEETT-TTTTTHHHHHHHT-SSEEEEEES-HHHHHHHHHHHHHTT-TTTEEEEES-GGG---TT-EEEEEE
T ss_pred CCcceEEEEccCCccHHHHHHhhhcCccEEEEecCCHHHHHHHHHHHHHcCCCCeEEEEcCCHHHhcCccccCEEEE
Confidence 346789999999999999999998888889999995 45554432 27899999998874333 277665
No 253
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=92.14 E-value=0.16 Score=43.07 Aligned_cols=67 Identities=13% Similarity=0.227 Sum_probs=51.9
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeech-HHHhhCCCC-------CCceEEe-ccCCC---CC-CCC-CEE
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLP-HVLKHAPSC-------PGVEHVG-GDMFV---EV-PKG-QAI 263 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~-gD~f~---~~-P~~-D~~ 263 (266)
.++.+++++||.+.|..++.++..-| +-+.|-+|.. +-++.|+.+ ++|+.+. ||-.+ .. ... |++
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 45899999999999999999999999 7788999985 455555542 7788888 57766 21 223 888
Q ss_pred Ee
Q 046424 264 FM 265 (266)
Q Consensus 264 ~l 265 (266)
|+
T Consensus 137 FI 138 (219)
T COG4122 137 FI 138 (219)
T ss_pred EE
Confidence 86
No 254
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=92.12 E-value=0.23 Score=34.86 Aligned_cols=43 Identities=19% Similarity=0.287 Sum_probs=39.3
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
|=|.|...| ..+..+||..++. +++.++.+|..|+..|-+++.
T Consensus 7 lRd~l~~~g--r~s~~~Ls~~~~~----p~~~VeaMLe~l~~kGkverv 49 (78)
T PRK15431 7 VRDLLALRG--RMEAAQISQTLNT----PQPMINAMLQQLESMGKAVRI 49 (78)
T ss_pred HHHHHHHcC--cccHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEee
Confidence 447788887 8999999999999 999999999999999999976
No 255
>PRK10870 transcriptional repressor MprA; Provisional
Probab=91.57 E-value=0.27 Score=40.22 Aligned_cols=69 Identities=16% Similarity=0.153 Sum_probs=49.4
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccC
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
..++-.|...+++++|..|||+.+++ +...+.+++.-|...|+|+... ++.|++ .-...+|+.|..++.
T Consensus 58 ~~iL~~L~~~~~~~it~~eLa~~l~l----~~~tvsr~v~rLe~kGlV~R~~-~~~DrR-~~~v~LT~~G~~~~~ 126 (176)
T PRK10870 58 FMALITLESQENHSIQPSELSCALGS----SRTNATRIADELEKRGWIERRE-SDNDRR-CLHLQLTEKGHEFLR 126 (176)
T ss_pred HHHHHHHhcCCCCCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEecC-CCCCCC-eeEEEECHHHHHHHH
Confidence 34566665433237999999999999 9999999999999999999863 122221 234677877765553
No 256
>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=91.41 E-value=0.22 Score=33.23 Aligned_cols=34 Identities=24% Similarity=0.410 Sum_probs=31.8
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.+..+||+.+++ ++.-+..+++-|...|+|+..
T Consensus 22 ~v~~~~iA~~L~v----s~~tvt~ml~~L~~~GlV~~~ 55 (60)
T PF01325_consen 22 PVRTKDIAERLGV----SPPTVTEMLKRLAEKGLVEYE 55 (60)
T ss_dssp SBBHHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred CccHHHHHHHHCC----ChHHHHHHHHHHHHCCCEEec
Confidence 9999999999999 999999999999999999976
No 257
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=91.40 E-value=0.37 Score=37.75 Aligned_cols=65 Identities=15% Similarity=0.156 Sum_probs=47.0
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
++..|...+ .+.|..|||+.+++ ++..+.+++.-|...|+|+..+ +..|.+ .-...+|+.|..+.
T Consensus 36 vL~~l~~~~-~~~t~~eLa~~l~~----~~~tvt~~v~~Le~~GlV~r~~-~~~DrR-~~~l~LT~~G~~~~ 100 (144)
T PRK03573 36 TLHNIHQLP-PEQSQIQLAKAIGI----EQPSLVRTLDQLEEKGLISRQT-CASDRR-AKRIKLTEKAEPLI 100 (144)
T ss_pred HHHHHHHcC-CCCCHHHHHHHhCC----ChhhHHHHHHHHHHCCCEeeec-CCCCcC-eeeeEEChHHHHHH
Confidence 456665543 16899999999999 9999999999999999999863 112221 23466777666544
No 258
>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=91.31 E-value=0.22 Score=44.99 Aligned_cols=69 Identities=16% Similarity=0.304 Sum_probs=44.7
Q ss_pred ccCCCCCceEEEecCCccHHHHHHHHHCCCCe-EEEeech----HHHhhCCCC---CCceEEeccCCC---CCCCCCEEE
Q 046424 196 YKGFEGLNQLVDVAGGLGANLKSIVSKYPQLR-GINFDLP----HVLKHAPSC---PGVEHVGGDMFV---EVPKGQAIF 264 (266)
Q Consensus 196 ~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dlp----~vi~~a~~~---~ri~~~~gD~f~---~~P~~D~~~ 264 (266)
.++| .+++|+|||-|.|.-+-++-.-+|+++ +++++.. .|++.+..+ .+...-+.|+-. ++|.+|.|.
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 3445 457799999999999999999999998 5666654 344433322 222223344443 577777775
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
+
T Consensus 188 l 188 (484)
T COG5459 188 L 188 (484)
T ss_pred h
Confidence 4
No 259
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=91.28 E-value=0.32 Score=37.58 Aligned_cols=52 Identities=25% Similarity=0.305 Sum_probs=45.7
Q ss_pred HHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 36 TIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 36 ~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+.+=-.+.+++.|+..+ |.|..|+|+..|- +...+.|-|+.|...|++...
T Consensus 60 ~vLsp~nleLl~~Ia~~~--P~Si~ElAe~vgR----dv~nvhr~Ls~l~~~GlI~fe 111 (144)
T COG4190 60 RVLSPRNLELLELIAQEE--PASINELAELVGR----DVKNVHRTLSTLADLGLIFFE 111 (144)
T ss_pred HHhChhHHHHHHHHHhcC--cccHHHHHHHhCc----chHHHHHHHHHHHhcCeEEEe
Confidence 344446678899999886 9999999999999 999999999999999999976
No 260
>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=91.26 E-value=0.27 Score=39.53 Aligned_cols=45 Identities=13% Similarity=0.050 Sum_probs=40.0
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
..|+++|...+ .+|-+|||+.+|+ +...++++|..|...|++...
T Consensus 17 v~Vl~aL~~~~--~~tdEeLa~~Lgi----~~~~VRk~L~~L~e~~Lv~~~ 61 (158)
T TIGR00373 17 GLVLFSLGIKG--EFTDEEISLELGI----KLNEVRKALYALYDAGLADYK 61 (158)
T ss_pred HHHHHHHhccC--CCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCceee
Confidence 45788888666 8999999999999 999999999999999999754
No 261
>KOG4589 consensus Cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning]
Probab=91.19 E-value=0.43 Score=39.45 Aligned_cols=44 Identities=18% Similarity=0.270 Sum_probs=34.6
Q ss_pred HHccCCCCCceEEEecCCccHHHHHHHHHC-CCCeEEEeechHHH
Q 046424 194 EIYKGFEGLNQLVDVAGGLGANLKSIVSKY-PQLRGINFDLPHVL 237 (266)
Q Consensus 194 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp~vi 237 (266)
+.|.-++.-.+|+|||+..|.++.-..++. |+=.+.++|+-++.
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 334424567999999999999999888775 99888999995443
No 262
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=91.05 E-value=0.36 Score=37.87 Aligned_cols=45 Identities=16% Similarity=0.110 Sum_probs=38.4
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
+.+..+||+.+|+ ++..++++|..|...|+++..+ +. +|.|.+..
T Consensus 25 ~~s~~~ia~~~~i----s~~~vrk~l~~L~~~Glv~s~~--G~----~GG~~l~~ 69 (141)
T PRK11014 25 MTSISEVTEVYGV----SRNHMVKIINQLSRAGYVTAVR--GK----NGGIRLGK 69 (141)
T ss_pred ccCHHHHHHHHCc----CHHHHHHHHHHHHhCCEEEEec--CC----CCCeeecC
Confidence 7899999999999 9999999999999999999873 11 45677764
No 263
>PRK06474 hypothetical protein; Provisional
Probab=90.93 E-value=0.42 Score=39.24 Aligned_cols=76 Identities=11% Similarity=0.178 Sum_probs=55.1
Q ss_pred HHHHHHHhhChhHHHhhcCCCCCCHHHHHhhC-CCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 35 MTIKSATELGLLEIMAKASPTQLSSSEIASQL-PTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 35 ~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~-~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
.+|.--.++.|++.|...+ .++|+.+|++.+ ++ +..-+.|.|+.|...|+|+........|.....|++++.+.
T Consensus 6 ~~La~p~R~~Il~~L~~~~-~~~ta~el~~~l~~i----s~aTvYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~~~~~~ 80 (178)
T PRK06474 6 EILMHPVRMKICQVLMRNK-EGLTPLELVKILKDV----PQATLYRHLQTMVDSGILHVVKEKKVRSVSEKYYAINEEDA 80 (178)
T ss_pred HhhCCHHHHHHHHHHHhCC-CCCCHHHHHHHhcCC----CHHHHHHHHHHHHHCCCEEEeecccccCceeEEEEecccee
Confidence 3555667888999998764 249999999999 67 77789999999999999997631100111234588887665
Q ss_pred cc
Q 046424 114 YF 115 (266)
Q Consensus 114 ~l 115 (266)
.+
T Consensus 81 ~~ 82 (178)
T PRK06474 81 KI 82 (178)
T ss_pred ee
Confidence 54
No 264
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=90.85 E-value=0.24 Score=35.83 Aligned_cols=46 Identities=26% Similarity=0.322 Sum_probs=39.2
Q ss_pred HHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 59 SSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 59 ~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
+.+||+.+++ ++..+.+.++-|...|++...+ +..|.+|+.+..+.
T Consensus 2 ~~ela~~l~i----s~stvs~~l~~L~~~glI~r~~--------~~~~~lT~~g~~~~ 47 (96)
T smart00529 2 TSEIAERLNV----SPPTVTQMLKKLEKDGLVEYEP--------YRGITLTEKGRRLA 47 (96)
T ss_pred HHHHHHHhCC----ChHHHHHHHHHHHHCCCEEEcC--------CCceEechhHHHHH
Confidence 5789999999 9999999999999999999872 45788888776554
No 265
>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=90.76 E-value=0.47 Score=34.68 Aligned_cols=43 Identities=12% Similarity=0.106 Sum_probs=37.9
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLT 109 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t 109 (266)
++|-.|||+.+|+ +...+.|.|.-|...|++.... | .+.|..|
T Consensus 47 ~is~~eLa~~~g~----sr~tVsr~L~~Le~~GlI~r~~-----~--~~~~~~n 89 (95)
T TIGR01610 47 RVTATVIAELTGL----SRTHVSDAIKSLARRRIIFRQG-----M--MGIVGVN 89 (95)
T ss_pred ccCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeeeec-----C--CceeecC
Confidence 8999999999999 9999999999999999999762 1 4778776
No 266
>KOG2730 consensus Methylase [General function prediction only]
Probab=90.74 E-value=0.41 Score=40.54 Aligned_cols=53 Identities=23% Similarity=0.325 Sum_probs=44.3
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCC
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFV 255 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~ 255 (266)
....|+|.-||-|...++++.++|. ++.+|. |--|..|+.+ +||+|+.||+++
T Consensus 94 ~~~~iidaf~g~gGntiqfa~~~~~--VisIdiDPikIa~AkhNaeiYGI~~rItFI~GD~ld 154 (263)
T KOG2730|consen 94 NAEVIVDAFCGVGGNTIQFALQGPY--VIAIDIDPVKIACARHNAEVYGVPDRITFICGDFLD 154 (263)
T ss_pred CcchhhhhhhcCCchHHHHHHhCCe--EEEEeccHHHHHHHhccceeecCCceeEEEechHHH
Confidence 6788999999999999999999985 677887 4466676653 799999999997
No 267
>COG2384 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=90.61 E-value=1.1 Score=37.81 Aligned_cols=65 Identities=9% Similarity=0.117 Sum_probs=49.8
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-----HHHhhCCC---CCCceEEeccCCCCCCC--C-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-----HVLKHAPS---CPGVEHVGGDMFVEVPK--G-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-----~vi~~a~~---~~ri~~~~gD~f~~~P~--~-D~~~l 265 (266)
....+.||||-++.+.+.+++.+|...++..|.- .++...+. .+||+..-+|-|.++-. . |++++
T Consensus 16 ~~~~iaDIGsDHAYLp~~Lv~~~~~~~~va~eV~~gpl~~a~~~v~~~~l~~~i~vr~~dgl~~l~~~d~~d~ivI 91 (226)
T COG2384 16 QGARIADIGSDHAYLPIYLVKNNPASTAVAGEVVPGPLESAIRNVKKNNLSERIDVRLGDGLAVLELEDEIDVIVI 91 (226)
T ss_pred cCCceeeccCchhHhHHHHHhcCCcceEEEeecccCHHHHHHHHHHhcCCcceEEEeccCCccccCccCCcCEEEE
Confidence 3455999999999999999999999999988883 34443333 38999999999986443 2 66653
No 268
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=90.58 E-value=0.15 Score=37.30 Aligned_cols=62 Identities=15% Similarity=0.264 Sum_probs=47.6
Q ss_pred hhHHHh--hcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccC
Q 046424 45 LLEIMA--KASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 45 lfd~L~--~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
+||+|. ..| +....-|.-.+++ +-......++.|+..|++.... +| ....|.+|+.|..|+.
T Consensus 20 i~dIL~~~~~~--~~~~Tri~y~aNl----ny~~~~~yi~~L~~~Gli~~~~----~~-~~~~y~lT~KG~~fle 83 (95)
T COG3432 20 IFDILKAISEG--GIGITRIIYGANL----NYKRAQKYIEMLVEKGLIIKQD----NG-RRKVYELTEKGKRFLE 83 (95)
T ss_pred HHHHHHHhcCC--CCCceeeeeecCc----CHHHHHHHHHHHHhCCCEEecc----CC-ccceEEEChhHHHHHH
Confidence 566666 333 7888889999999 9999999999999999666541 11 1337999999987764
No 269
>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=90.34 E-value=0.34 Score=39.98 Aligned_cols=61 Identities=16% Similarity=0.217 Sum_probs=40.3
Q ss_pred eEEEecCCccHHHHHHHHHCCCCeEEEeech--------HHHhhCCCCCCceEEeccCCC-CCCCC-CEEEe
Q 046424 204 QLVDVAGGLGANLKSIVSKYPQLRGINFDLP--------HVLKHAPSCPGVEHVGGDMFV-EVPKG-QAIFM 265 (266)
Q Consensus 204 ~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp--------~vi~~a~~~~ri~~~~gD~f~-~~P~~-D~~~l 265 (266)
+++|||.|.|.=++-++=.+|+++++++|-- .++.... .++++++.+..=+ ..+.. |+++.
T Consensus 51 ~~lDiGSGaGfPGipLaI~~p~~~~~LvEs~~KK~~FL~~~~~~L~-L~nv~v~~~R~E~~~~~~~fd~v~a 121 (184)
T PF02527_consen 51 KVLDIGSGAGFPGIPLAIARPDLQVTLVESVGKKVAFLKEVVRELG-LSNVEVINGRAEEPEYRESFDVVTA 121 (184)
T ss_dssp EEEEETSTTTTTHHHHHHH-TTSEEEEEESSHHHHHHHHHHHHHHT--SSEEEEES-HHHTTTTT-EEEEEE
T ss_pred eEEecCCCCCChhHHHHHhCCCCcEEEEeCCchHHHHHHHHHHHhC-CCCEEEEEeeecccccCCCccEEEe
Confidence 8999999999999999999999999999983 2332222 1456666554444 23333 66553
No 270
>COG0357 GidB Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]
Probab=90.31 E-value=0.3 Score=41.35 Aligned_cols=33 Identities=15% Similarity=0.310 Sum_probs=30.8
Q ss_pred CceEEEecCCccHHHHHHHHHCCCCeEEEeech
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP 234 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp 234 (266)
..+++|||.|.|.=++-++=.+|+++++++|.-
T Consensus 68 ~~~~~DIGSGaGfPGipLAI~~p~~~vtLles~ 100 (215)
T COG0357 68 AKRVLDIGSGAGFPGIPLAIAFPDLKVTLLESL 100 (215)
T ss_pred CCEEEEeCCCCCCchhhHHHhccCCcEEEEccC
Confidence 689999999999999999999999999999973
No 271
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=90.24 E-value=0.32 Score=41.19 Aligned_cols=60 Identities=22% Similarity=0.253 Sum_probs=46.9
Q ss_pred HHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccC
Q 046424 47 EIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 47 d~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
.++.+.. .+|..+||+.+++ +...+.|.|+-|...|+++.... + . ...+++|+.+..++.
T Consensus 14 g~l~~~~--~IS~~eLA~~L~i----S~~Tvsr~Lk~LEe~GlI~R~~~-~-r---~~~v~LTekG~~ll~ 73 (217)
T PRK14165 14 GAVNNTV--KISSSEFANHTGT----SSKTAARILKQLEDEGYITRTIV-P-R---GQLITITEKGLDVLY 73 (217)
T ss_pred hccCCCC--CcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEEEc-C-C---ceEEEECHHHHHHHH
Confidence 3444433 6999999999999 99999999999999999997631 1 1 567888888776553
No 272
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=90.19 E-value=0.39 Score=38.28 Aligned_cols=47 Identities=17% Similarity=0.286 Sum_probs=42.8
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+..|.++|..+| ..|..+||+++|+ ++..+.+=++-|...|++...
T Consensus 10 ~D~~Il~~Lq~d~--R~s~~eiA~~lgl----S~~tV~~Ri~rL~~~GvI~~~ 56 (153)
T PRK11179 10 LDRGILEALMENA--RTPYAELAKQFGV----SPGTIHVRVEKMKQAGIITGT 56 (153)
T ss_pred HHHHHHHHHHHcC--CCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeeeE
Confidence 5778999999887 8999999999999 999999999999999999843
No 273
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=90.15 E-value=0.36 Score=35.13 Aligned_cols=46 Identities=22% Similarity=0.205 Sum_probs=41.6
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
++.|+..|...| |-.+.-||..+++ +...+...++-|..+|++++.
T Consensus 9 ~~~IL~hl~~~~--~Dy~k~ia~~l~~----~~~~v~~~l~~Le~~GLler~ 54 (92)
T PF10007_consen 9 DLKILQHLKKAG--PDYAKSIARRLKI----PLEEVREALEKLEEMGLLERV 54 (92)
T ss_pred HHHHHHHHHHHC--CCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCeEEe
Confidence 456778888876 8999999999999 999999999999999999987
No 274
>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=90.05 E-value=0.26 Score=36.61 Aligned_cols=43 Identities=16% Similarity=0.353 Sum_probs=33.9
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
|+++|...| .++-++||+.+++ ++..++++|..|...|++...
T Consensus 18 Il~~L~~~~--~l~de~la~~~~l----~~~~vRkiL~~L~~~~lv~~~ 60 (105)
T PF02002_consen 18 ILDALLRKG--ELTDEDLAKKLGL----KPKEVRKILYKLYEDGLVSYR 60 (105)
T ss_dssp HHHHHHHH----B-HHHHHHTT-S-----HHHHHHHHHHHHHHSS-EEE
T ss_pred HHHHHHHcC--CcCHHHHHHHhCC----CHHHHHHHHHHHHHCCCeEEE
Confidence 688888776 8999999999999 999999999999999999754
No 275
>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=89.97 E-value=0.23 Score=28.66 Aligned_cols=31 Identities=19% Similarity=0.334 Sum_probs=25.7
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFL 90 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l 90 (266)
|+|-+|||+.+|+ ...-+.|+|.-|...|++
T Consensus 2 ~mtr~diA~~lG~----t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 2 PMTRQDIADYLGL----TRETVSRILKKLERQGLI 32 (32)
T ss_dssp E--HHHHHHHHTS-----HHHHHHHHHHHHHTTSE
T ss_pred CcCHHHHHHHhCC----cHHHHHHHHHHHHHcCCC
Confidence 5788999999999 999999999999988874
No 276
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=89.79 E-value=0.55 Score=36.00 Aligned_cols=50 Identities=12% Similarity=0.217 Sum_probs=45.1
Q ss_pred HHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 38 KSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 38 ~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+..+...|.+...++| .+|..|++..+|+ +-..+.+.++-|++.|-|...
T Consensus 10 r~eLk~rIvElVRe~G--RiTi~ql~~~TGa----sR~Tvk~~lreLVa~G~l~~~ 59 (127)
T PF06163_consen 10 REELKARIVELVREHG--RITIKQLVAKTGA----SRNTVKRYLRELVARGDLYRH 59 (127)
T ss_pred HHHHHHHHHHHHHHcC--CccHHHHHHHHCC----CHHHHHHHHHHHHHcCCeEeC
Confidence 4556778999999998 9999999999999 999999999999999999864
No 277
>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]
Probab=89.63 E-value=1.7 Score=35.35 Aligned_cols=70 Identities=21% Similarity=0.358 Sum_probs=51.4
Q ss_pred chhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHH-CCCCeEEEeec-hHHHhhCC-CCCCceEEeccCCC
Q 046424 185 TTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSK-YPQLRGINFDL-PHVLKHAP-SCPGVEHVGGDMFV 255 (266)
Q Consensus 185 ~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~-~P~l~~~v~Dl-p~vi~~a~-~~~ri~~~~gD~f~ 255 (266)
+...++.+...++ |....-|+.+|.|+|.+.++|+++ .++-..+.++. |+-+.... ..+.++++.||-|.
T Consensus 33 Ss~lA~~M~s~I~-pesglpVlElGPGTGV~TkaIL~~gv~~~~L~~iE~~~dF~~~L~~~~p~~~ii~gda~~ 105 (194)
T COG3963 33 SSILARKMASVID-PESGLPVLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLNQLYPGVNIINGDAFD 105 (194)
T ss_pred cHHHHHHHHhccC-cccCCeeEEEcCCccHhHHHHHhcCCCccceEEEEeCHHHHHHHHHhCCCccccccchhh
Confidence 3345566777787 888889999999999999999886 45555555555 44444443 35888899999886
No 278
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=89.56 E-value=0.9 Score=40.29 Aligned_cols=65 Identities=25% Similarity=0.317 Sum_probs=53.1
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCe-EEEeec-hHHHhhCCCC-----CCceEEeccCCC
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLR-GINFDL-PHVLKHAPSC-----PGVEHVGGDMFV 255 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dl-p~vi~~a~~~-----~ri~~~~gD~f~ 255 (266)
..+++.+. ......+||+-=|.|.++..|++++|+.. .+++|. |++++.+++. +|++++.++|-+
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 34556655 45568999999999999999999999887 899999 5688887752 699999998765
No 279
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=89.19 E-value=0.44 Score=38.42 Aligned_cols=47 Identities=17% Similarity=0.273 Sum_probs=43.0
Q ss_pred HHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccc
Q 046424 40 ATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTC 92 (266)
Q Consensus 40 a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~ 92 (266)
..+..|+.+|..++ .+|..+||+++|+ ++..+.+=++-|...|+++.
T Consensus 14 ~~D~~IL~~Lq~d~--R~s~~eiA~~lgl----S~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 14 RIDRNILNELQKDG--RISNVELSKRVGL----SPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred HHHHHHHHHhccCC--CCCHHHHHHHHCc----CHHHHHHHHHHHHHCCCeEE
Confidence 36788999999887 8999999999999 99999999999999999984
No 280
>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=89.18 E-value=0.85 Score=30.03 Aligned_cols=33 Identities=21% Similarity=0.241 Sum_probs=30.4
Q ss_pred CCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 57 LSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 57 ~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|..+||+.+++ +...+.+.+..|...|+++..
T Consensus 26 ~~~~~la~~~~i----s~~~v~~~l~~L~~~G~i~~~ 58 (66)
T cd07377 26 PSERELAEELGV----SRTTVREALRELEAEGLVERR 58 (66)
T ss_pred CCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEec
Confidence 459999999999 999999999999999999865
No 281
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=89.15 E-value=0.77 Score=38.64 Aligned_cols=59 Identities=25% Similarity=0.372 Sum_probs=42.7
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceec
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGL 108 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~ 108 (266)
|.++|.. +..+.|.+|+|+++|+ +..-.+|-|.+|++.|+++..-.-+.-|+....|..
T Consensus 163 i~~~~~~-~~~~~Taeela~~~gi----SRvTaRRYLeyl~~~~~l~a~i~yG~vGRP~r~Y~~ 221 (224)
T COG4565 163 VREALKE-PDQELTAEELAQALGI----SRVTARRYLEYLVSNGILEAEIHYGKVGRPERRYRL 221 (224)
T ss_pred HHHHHhC-cCCccCHHHHHHHhCc----cHHHHHHHHHHHHhcCeeeEEeeccccCCcceeeec
Confidence 5566663 2248999999999999 888999999999999999965322222444444544
No 282
>COG4076 Predicted RNA methylase [General function prediction only]
Probab=88.89 E-value=0.92 Score=37.58 Aligned_cols=60 Identities=17% Similarity=0.143 Sum_probs=45.4
Q ss_pred ceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEEeccCCC-CCCCCCEEE
Q 046424 203 NQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC------PGVEHVGGDMFV-EVPKGQAIF 264 (266)
Q Consensus 203 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gD~f~-~~P~~D~~~ 264 (266)
.++.|+|.|+|.++.-.+++ .=+++.+++. .....+.++ ..++++.||-.+ ++..+|+++
T Consensus 34 d~~~DLGaGsGiLs~~Aa~~--A~rViAiE~dPk~a~~a~eN~~v~g~~n~evv~gDA~~y~fe~ADvvi 101 (252)
T COG4076 34 DTFADLGAGSGILSVVAAHA--AERVIAIEKDPKRARLAEENLHVPGDVNWEVVVGDARDYDFENADVVI 101 (252)
T ss_pred hceeeccCCcchHHHHHHhh--hceEEEEecCcHHHHHhhhcCCCCCCcceEEEecccccccccccceeH
Confidence 57889999999988776666 4478888874 455555553 579999999999 785568764
No 283
>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=88.81 E-value=0.66 Score=39.04 Aligned_cols=66 Identities=15% Similarity=0.109 Sum_probs=43.5
Q ss_pred CCCCceEEEecCCccHHHHHHHHH--CCCCeEEEeec-hHHHhhCCCC----------------CCceEEeccCCCCCC-
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSK--YPQLRGINFDL-PHVLKHAPSC----------------PGVEHVGGDMFVEVP- 258 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~--~P~l~~~v~Dl-p~vi~~a~~~----------------~ri~~~~gD~f~~~P- 258 (266)
+....++||||+|+|.+..-++.. -|....+++|+ |++++.++++ .++.++.||-..-.|
T Consensus 80 L~pG~s~LdvGsGSGYLt~~~~~mvg~~g~~~~GIEh~~eLVe~Sk~nl~k~i~~~e~~~~~~~~~l~ivvGDgr~g~~e 159 (237)
T KOG1661|consen 80 LQPGASFLDVGSGSGYLTACFARMVGATGGNVHGIEHIPELVEYSKKNLDKDITTSESSSKLKRGELSIVVGDGRKGYAE 159 (237)
T ss_pred hccCcceeecCCCccHHHHHHHHHhcCCCccccchhhhHHHHHHHHHHHHhhccCchhhhhhccCceEEEeCCccccCCc
Confidence 345678999999999877665543 23332356665 7777765431 578999999988433
Q ss_pred CC--CEEE
Q 046424 259 KG--QAIF 264 (266)
Q Consensus 259 ~~--D~~~ 264 (266)
.+ |.|.
T Consensus 160 ~a~YDaIh 167 (237)
T KOG1661|consen 160 QAPYDAIH 167 (237)
T ss_pred cCCcceEE
Confidence 33 6654
No 284
>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=88.74 E-value=2 Score=37.24 Aligned_cols=89 Identities=16% Similarity=0.220 Sum_probs=53.6
Q ss_pred HHHHHHHhcchhh----HHHHHHHccCCCCCceEEEecCCccHHHHHHHHH-CCCCeEEEeechH-HHhhCCC-------
Q 046424 176 LFNQSMHNHTTIV----MKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSK-YPQLRGINFDLPH-VLKHAPS------- 242 (266)
Q Consensus 176 ~f~~~m~~~~~~~----~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~-~P~l~~~v~Dlp~-vi~~a~~------- 242 (266)
.|...|...++.. +..|+...+ .....+||+.|.|+|.++..|++. .|+=+.+-+|.-+ -.+.|++
T Consensus 12 ~~~~~l~rrtQIiYpkD~~~I~~~l~-i~pG~~VlEaGtGSG~lt~~l~r~v~p~G~v~t~E~~~~~~~~A~~n~~~~gl 90 (247)
T PF08704_consen 12 LWTLSLPRRTQIIYPKDISYILMRLD-IRPGSRVLEAGTGSGSLTHALARAVGPTGHVYTYEFREDRAEKARKNFERHGL 90 (247)
T ss_dssp HHHHTS-SSS----HHHHHHHHHHTT---TT-EEEEE--TTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHHHTTC
T ss_pred HHHHhccCCcceeeCchHHHHHHHcC-CCCCCEEEEecCCcHHHHHHHHHHhCCCeEEEccccCHHHHHHHHHHHHHcCC
Confidence 3555555555532 223455555 667799999999999999999964 7888888888843 3333333
Q ss_pred CCCceEEeccCCC-CCC----CC-CEEEe
Q 046424 243 CPGVEHVGGDMFV-EVP----KG-QAIFM 265 (266)
Q Consensus 243 ~~ri~~~~gD~f~-~~P----~~-D~~~l 265 (266)
.+.|++..+|.-+ .++ .. |+++|
T Consensus 91 ~~~v~~~~~Dv~~~g~~~~~~~~~DavfL 119 (247)
T PF08704_consen 91 DDNVTVHHRDVCEEGFDEELESDFDAVFL 119 (247)
T ss_dssp CTTEEEEES-GGCG--STT-TTSEEEEEE
T ss_pred CCCceeEecceecccccccccCcccEEEE
Confidence 2579999999865 343 33 88886
No 285
>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=88.71 E-value=0.62 Score=29.99 Aligned_cols=40 Identities=15% Similarity=0.370 Sum_probs=32.9
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCC
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYS 88 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g 88 (266)
.|+..|.+++ +++|.++||+.+++ +.+-+.+-+..|...|
T Consensus 4 ~il~~L~~~~-~~it~~eLa~~l~v----S~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 4 QILKLLLESK-EPITAKELAEELGV----SRRTIRRDIKELREWG 43 (55)
T ss_dssp HHHHHHHHTT-TSBEHHHHHHHCTS-----HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHcC-CCcCHHHHHHHhCC----CHHHHHHHHHHHHHCC
Confidence 4667774433 27999999999999 9999999999999999
No 286
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=88.43 E-value=0.45 Score=45.01 Aligned_cols=70 Identities=13% Similarity=0.190 Sum_probs=58.1
Q ss_pred HHhhChhHHHhhcCCCC-CCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccCC
Q 046424 40 ATELGLLEIMAKASPTQ-LSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVPN 118 (266)
Q Consensus 40 a~~lglfd~L~~~g~~~-~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~~ 118 (266)
+.+..|+..|...+ + .+..+||+.+|+ +...+.+.+..|.+.|+++..... ...|.+|+.+...+.+
T Consensus 3 ~~e~~iL~~l~~~~--~~~~~~~la~~~g~----~~~~v~~~~~~L~~kg~v~~~~~~------~~~~~LT~eG~~~l~~ 70 (492)
T PLN02853 3 MAEEALLGALSNNE--EISDSGQFAASHGL----DHNEVVGVIKSLHGFRYVDAQDIK------RETWVLTEEGKKYAAE 70 (492)
T ss_pred hHHHHHHHHHHhcC--CCCCHHHHHHHcCC----CHHHHHHHHHHHHhCCCEEEEEEE------EEEEEECHHHHHHHHc
Confidence 45677888888754 5 899999999999 999999999999999999866321 6789999999988876
Q ss_pred CCC
Q 046424 119 KDG 121 (266)
Q Consensus 119 ~~~ 121 (266)
..|
T Consensus 71 G~P 73 (492)
T PLN02853 71 GSP 73 (492)
T ss_pred CCH
Confidence 543
No 287
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=88.41 E-value=0.44 Score=32.78 Aligned_cols=34 Identities=24% Similarity=0.343 Sum_probs=32.6
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
++|-++||..+|+ +...+.|+|+.|...|+++..
T Consensus 28 ~lt~~~iA~~~g~----sr~tv~r~l~~l~~~g~I~~~ 61 (76)
T PF13545_consen 28 PLTQEEIADMLGV----SRETVSRILKRLKDEGIIEVK 61 (76)
T ss_dssp ESSHHHHHHHHTS----CHHHHHHHHHHHHHTTSEEEE
T ss_pred cCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEc
Confidence 7899999999999 999999999999999999976
No 288
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=88.36 E-value=0.41 Score=45.65 Aligned_cols=68 Identities=18% Similarity=0.207 Sum_probs=55.6
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccCCCC
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVPNKD 120 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~~~~ 120 (266)
.+..|+..|...+ +.|..+||+.+++ ++..+.++++-|.+.|+++.... . ...|.+|+.|+.++....
T Consensus 7 ~e~~vL~~L~~~~--~~s~~eLA~~l~l----~~~tVt~~i~~Le~kGlV~~~~~-~-----~~~i~LTeeG~~~~~~g~ 74 (489)
T PRK04172 7 NEKKVLKALKELK--EATLEELAEKLGL----PPEAVMRAAEWLEEKGLVKVEER-V-----EEVYVLTEEGKKYAEEGL 74 (489)
T ss_pred HHHHHHHHHHhCC--CCCHHHHHHHhCc----CHHHHHHHHHHHHhCCCEEEEee-e-----EEEEEECHHHHHHHHhcC
Confidence 4556777787765 8999999999999 99999999999999999997621 1 467999999998876543
No 289
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=88.31 E-value=0.67 Score=29.88 Aligned_cols=34 Identities=24% Similarity=0.288 Sum_probs=31.6
Q ss_pred CC-CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QL-SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~-t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+ |..+||+.+++ +...+++.+..|...|++...
T Consensus 19 ~l~s~~~la~~~~v----s~~tv~~~l~~L~~~g~i~~~ 53 (60)
T smart00345 19 KLPSERELAAQLGV----SRTTVREALSRLEAEGLVQRR 53 (60)
T ss_pred cCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 46 89999999999 999999999999999999865
No 290
>PHA02943 hypothetical protein; Provisional
Probab=88.29 E-value=0.66 Score=36.81 Aligned_cols=43 Identities=19% Similarity=0.159 Sum_probs=38.4
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|++.| ..| +.|..|||+++|+ +-...+-.|..|...|.+.+.
T Consensus 15 eILE~L-k~G--~~TtseIAkaLGl----S~~qa~~~LyvLErEG~VkrV 57 (165)
T PHA02943 15 KTLRLL-ADG--CKTTSRIANKLGV----SHSMARNALYQLAKEGMVLKV 57 (165)
T ss_pred HHHHHH-hcC--CccHHHHHHHHCC----CHHHHHHHHHHHHHcCceEEE
Confidence 467778 445 8999999999999 999999999999999999987
No 291
>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=88.04 E-value=1 Score=39.48 Aligned_cols=44 Identities=20% Similarity=0.314 Sum_probs=33.6
Q ss_pred HHccCCCCCceEEEecCCccHHHHHHHHHCCCCe-EEEeechH-HHh
Q 046424 194 EIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLR-GINFDLPH-VLK 238 (266)
Q Consensus 194 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dlp~-vi~ 238 (266)
..+++| .+.+|+|+|+|.|..+-++.+.+|++. ++++|..+ ..+
T Consensus 27 ~r~p~f-~P~~vLD~GsGpGta~wAa~~~~~~~~~~~~vd~s~~~~~ 72 (274)
T PF09243_consen 27 KRLPDF-RPRSVLDFGSGPGTALWAAREVWPSLKEYTCVDRSPEMLE 72 (274)
T ss_pred HhCcCC-CCceEEEecCChHHHHHHHHHHhcCceeeeeecCCHHHHH
Confidence 334435 568999999999999999999999665 68888853 444
No 292
>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=87.53 E-value=0.65 Score=32.32 Aligned_cols=49 Identities=18% Similarity=0.236 Sum_probs=44.1
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+..+++.+..++.++.+..||+..+|. +++.+...+..|...|++.+.
T Consensus 3 ~~~~~Le~I~rsR~~Gi~q~~L~~~~~~----D~r~i~~~~k~L~~~gLI~k~ 51 (75)
T PF04182_consen 3 IQYCLLERIARSRYNGITQSDLSKLLGI----DPRSIFYRLKKLEKKGLIVKQ 51 (75)
T ss_pred hHHHHHHHHHhcCCCCEehhHHHHHhCC----CchHHHHHHHHHHHCCCEEEE
Confidence 4567888898876678999999999999 999999999999999999976
No 293
>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=87.39 E-value=0.79 Score=34.38 Aligned_cols=51 Identities=22% Similarity=0.313 Sum_probs=39.9
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCC-CCcchHHHHHHHHhcCCccccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNK-KAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~-~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.-|++.|.+.+ .+.|++||.+.+.-..| .+..-+.|.|+.|+..|++.+.
T Consensus 3 R~~Il~~l~~~~-~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~ 54 (116)
T cd07153 3 RLAILEVLLESD-GHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREI 54 (116)
T ss_pred HHHHHHHHHhCC-CCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEE
Confidence 345788887753 48999999999842111 2778899999999999999986
No 294
>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=87.36 E-value=0.75 Score=31.15 Aligned_cols=35 Identities=20% Similarity=0.286 Sum_probs=29.4
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
|-|+.|||+.+|++ ++..+...|+.|...|+++..
T Consensus 25 ~Pt~rEIa~~~g~~---S~~tv~~~L~~Le~kG~I~r~ 59 (65)
T PF01726_consen 25 PPTVREIAEALGLK---STSTVQRHLKALERKGYIRRD 59 (65)
T ss_dssp ---HHHHHHHHTSS---SHHHHHHHHHHHHHTTSEEEG
T ss_pred CCCHHHHHHHhCCC---ChHHHHHHHHHHHHCcCccCC
Confidence 67999999999992 478999999999999999986
No 295
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=87.16 E-value=0.78 Score=34.12 Aligned_cols=71 Identities=17% Similarity=0.216 Sum_probs=50.8
Q ss_pred HHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccC
Q 046424 39 SATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 39 ~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
.-.+..++..|...+ +.+..+||+.+++ +...+.++++-|...|++.... +..|++ .-.+.+|+.+..+..
T Consensus 21 t~~q~~~L~~l~~~~--~~~~~~la~~l~i----~~~~vt~~l~~Le~~glv~r~~-~~~DrR-~~~l~lT~~G~~~~~ 91 (126)
T COG1846 21 TPPQYQVLLALYEAG--GITVKELAERLGL----DRSTVTRLLKRLEDKGLIERLR-DPEDRR-AVLVRLTEKGRELLE 91 (126)
T ss_pred CHHHHHHHHHHHHhC--CCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeecC-Cccccc-eeeEEECccHHHHHH
Confidence 345666777777765 4444999999999 9999999999999999999873 111211 234677776665543
No 296
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=87.12 E-value=0.94 Score=37.44 Aligned_cols=65 Identities=20% Similarity=0.083 Sum_probs=48.9
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
.|+..|...+ ++|..+||+.+++ +..-+.+++.-|...|++.... +..|.+ .-...+|+.|..+.
T Consensus 49 ~iL~~L~~~~--~itq~eLa~~l~l----~~sTvtr~l~rLE~kGlI~R~~-~~~DrR-~~~I~LTekG~~l~ 113 (185)
T PRK13777 49 HILWIAYHLK--GASISEIAKFGVM----HVSTAFNFSKKLEERGYLTFSK-KEDDKR-NTYIELTEKGEELL 113 (185)
T ss_pred HHHHHHHhCC--CcCHHHHHHHHCC----CHhhHHHHHHHHHHCCCEEecC-CCCCCC-eeEEEECHHHHHHH
Confidence 5677777765 8999999999999 8888999999999999999762 112221 23366777776554
No 297
>COG1733 Predicted transcriptional regulators [Transcription]
Probab=87.04 E-value=1.8 Score=33.15 Aligned_cols=81 Identities=15% Similarity=0.188 Sum_probs=60.1
Q ss_pred hHHHHHHHHHHhhhhHHHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCC-CCCCCCcchHHHHHHHHhcCCcccccccc
Q 046424 18 EQDFLLAMELASGAVLPMTIKSATELGLLEIMAKASPTQLSSSEIASQLP-TNNKKAPIILDRMLRLLASYSFLTCNLVS 96 (266)
Q Consensus 18 ~~~~~~l~~~~~g~~~~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~-~~~~~~~~~l~rlLr~L~~~g~l~~~~~~ 96 (266)
.-+.+.+.+++.+-|..-.|+...+ | +....||-+.++ + ++.-|.+-|+.|...|++.+..-.
T Consensus 10 ~c~~~~~l~~ig~kW~~lIl~~L~~----------g--~~RF~eL~r~i~~I----s~k~Ls~~Lk~Le~~Glv~R~~~~ 73 (120)
T COG1733 10 PCPVEEALEVIGGKWTLLILRDLFD----------G--PKRFNELRRSIGGI----SPKMLSRRLKELEEDGLVERVVYP 73 (120)
T ss_pred CCCHHHHHHHHcCccHHHHHHHHhc----------C--CCcHHHHHHHcccc----CHHHHHHHHHHHHHCCCEEeeecC
Confidence 3457777888888887777765433 4 889999999998 9 999999999999999999976210
Q ss_pred CCCCccccceecchhccccc
Q 046424 97 NKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 97 ~~~~~~~~~y~~t~~s~~l~ 116 (266)
... ..-.|++|+.+..|.
T Consensus 74 ~~P--prveY~LT~~G~~L~ 91 (120)
T COG1733 74 EEP--PRVEYRLTEKGRDLL 91 (120)
T ss_pred CCC--ceeEEEEhhhHHHHH
Confidence 000 134588998877555
No 298
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=86.54 E-value=0.91 Score=35.76 Aligned_cols=47 Identities=15% Similarity=0.309 Sum_probs=42.9
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+..|+..|..++ +.+..+||+++|+ ++..+.+-++-|...|++...
T Consensus 9 ~D~~IL~~L~~d~--r~~~~eia~~lgl----S~~~v~~Ri~~L~~~GiI~~~ 55 (154)
T COG1522 9 IDRRILRLLQEDA--RISNAELAERVGL----SPSTVLRRIKRLEEEGVIKGY 55 (154)
T ss_pred HHHHHHHHHHHhC--CCCHHHHHHHHCC----CHHHHHHHHHHHHHCCceeeE
Confidence 5677899999887 8999999999999 999999999999999999965
No 299
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=86.52 E-value=1.2 Score=36.39 Aligned_cols=64 Identities=16% Similarity=0.051 Sum_probs=49.0
Q ss_pred hhhHHHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhC--CCCCCCCcchHHHHHHHHhcCCccccccccCCCCcccccee
Q 046424 30 GAVLPMTIKSATELGLLEIMAKASPTQLSSSEIASQL--PTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYG 107 (266)
Q Consensus 30 g~~~~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~--~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~ 107 (266)
..|...+++..+.+. + +..+..+||+.| ++ +...++.-|..|...|++++.. +|.|.
T Consensus 22 ~~W~~~~ir~l~~l~--------~-~~~d~~~iak~l~p~i----s~~ev~~sL~~L~~~gli~k~~--------~g~y~ 80 (171)
T PF14394_consen 22 SSWYHPAIRELLPLM--------P-FAPDPEWIAKRLRPKI----SAEEVRDSLEFLEKLGLIKKDG--------DGKYV 80 (171)
T ss_pred hhhHHHHHHHHhhcC--------C-CCCCHHHHHHHhcCCC----CHHHHHHHHHHHHHCCCeEECC--------CCcEE
Confidence 455566666554432 2 133899999999 99 9999999999999999999872 67999
Q ss_pred cchhccc
Q 046424 108 LTPVSKY 114 (266)
Q Consensus 108 ~t~~s~~ 114 (266)
.|.-+..
T Consensus 81 ~t~~~l~ 87 (171)
T PF14394_consen 81 QTDKSLT 87 (171)
T ss_pred Eecceee
Confidence 9985544
No 300
>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=85.93 E-value=8.5 Score=33.74 Aligned_cols=66 Identities=14% Similarity=0.132 Sum_probs=49.3
Q ss_pred CCceEEEecCCccH----HHHHHHHHCC-----CCeEEEeech-HHHhhCCCC---------------------------
Q 046424 201 GLNQLVDVAGGLGA----NLKSIVSKYP-----QLRGINFDLP-HVLKHAPSC--------------------------- 243 (266)
Q Consensus 201 ~~~~vvDVGGG~G~----~~~~l~~~~P-----~l~~~v~Dlp-~vi~~a~~~--------------------------- 243 (266)
+.-+|--.||++|. .++.+.+.+| .++.+.-|+. .+++.|+.-
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 47789999999998 6666778887 4677888985 466666430
Q ss_pred --------CCceEEeccCCCC--CCCC-CEEEeC
Q 046424 244 --------PGVEHVGGDMFVE--VPKG-QAIFMK 266 (266)
Q Consensus 244 --------~ri~~~~gD~f~~--~P~~-D~~~lk 266 (266)
..|+|..+|++++ .+.. |+|+-+
T Consensus 176 y~v~~~ir~~V~F~~~NLl~~~~~~~~fD~IfCR 209 (268)
T COG1352 176 YRVKEELRKMVRFRRHNLLDDSPFLGKFDLIFCR 209 (268)
T ss_pred EEEChHHhcccEEeecCCCCCccccCCCCEEEEc
Confidence 4689999999994 4445 998753
No 301
>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=85.55 E-value=1.3 Score=36.70 Aligned_cols=49 Identities=16% Similarity=0.245 Sum_probs=38.4
Q ss_pred HhhChhHHHhhc---CCCCCCHHHHHhhCCCCCCCC-cchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKA---SPTQLSSSEIASQLPTNNKKA-PIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~---g~~~~t~~elA~~~~~~~~~~-~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+..|++.|.+. +.-+.|..|||+.+|+ + ...+.+.|+.|...|+++..
T Consensus 7 ~q~~iL~~l~~~~~~~~~~~~~~ela~~~~~----~s~~tv~~~l~~L~~~g~i~~~ 59 (199)
T TIGR00498 7 RQQEVLDLIRAHIESTGYPPSIREIARAVGL----RSPSAAEEHLKALERKGYIERD 59 (199)
T ss_pred HHHHHHHHHHHHHHhcCCCCcHHHHHHHhCC----CChHHHHHHHHHHHHCCCEecC
Confidence 344555566531 2136899999999999 7 78999999999999999986
No 302
>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=85.55 E-value=1.9 Score=38.96 Aligned_cols=78 Identities=15% Similarity=0.146 Sum_probs=46.7
Q ss_pred HHHHHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCC---------
Q 046424 174 NNLFNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSC--------- 243 (266)
Q Consensus 174 ~~~f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~--------- 243 (266)
.+.||.++.+.-. ...++....-....+|||+|||.|.-+.-...+.+. ..+++|+.. .|+.|+.+
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 5778877776332 111221110115689999999999999888887443 468899964 55555431
Q ss_pred -------CCceEEeccCCC
Q 046424 244 -------PGVEHVGGDMFV 255 (266)
Q Consensus 244 -------~ri~~~~gD~f~ 255 (266)
-...|+.+|-|.
T Consensus 114 ~~~~~~~f~a~f~~~D~f~ 132 (331)
T PF03291_consen 114 SKQYRFDFIAEFIAADCFS 132 (331)
T ss_dssp -HTSEECCEEEEEESTTCC
T ss_pred cccccccchhheecccccc
Confidence 134668888886
No 303
>PRK10742 putative methyltransferase; Provisional
Probab=85.24 E-value=1.9 Score=37.36 Aligned_cols=73 Identities=14% Similarity=0.229 Sum_probs=53.1
Q ss_pred HHHHHHccCCCCCc--eEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhC-C-------------C--CCCceEEec
Q 046424 190 KEILEIYKGFEGLN--QLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHA-P-------------S--CPGVEHVGG 251 (266)
Q Consensus 190 ~~i~~~~~~~~~~~--~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a-~-------------~--~~ri~~~~g 251 (266)
+.+++.+. .++.. +|+|.=+|.|..+..++.+ +++++.+|...++... + . ..||+++.+
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 35666665 55433 9999999999999999998 7779999996544331 1 0 147999999
Q ss_pred cCCC---CCCCC-CEEEe
Q 046424 252 DMFV---EVPKG-QAIFM 265 (266)
Q Consensus 252 D~f~---~~P~~-D~~~l 265 (266)
|..+ ..+.. |+|+|
T Consensus 153 da~~~L~~~~~~fDVVYl 170 (250)
T PRK10742 153 SSLTALTDITPRPQVVYL 170 (250)
T ss_pred cHHHHHhhCCCCCcEEEE
Confidence 8877 34444 99986
No 304
>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=85.14 E-value=0.99 Score=27.70 Aligned_cols=34 Identities=18% Similarity=0.268 Sum_probs=25.0
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHH
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRM 80 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rl 80 (266)
++..|...|..++ ..+..+||+.+|+ ++..+.+=
T Consensus 4 ~D~~Il~~Lq~d~--r~s~~~la~~lgl----S~~~v~~R 37 (42)
T PF13404_consen 4 LDRKILRLLQEDG--RRSYAELAEELGL----SESTVRRR 37 (42)
T ss_dssp HHHHHHHHHHH-T--TS-HHHHHHHHTS-----HHHHHHH
T ss_pred HHHHHHHHHHHcC--CccHHHHHHHHCc----CHHHHHHH
Confidence 4667889998886 8999999999999 77655443
No 305
>PRK05638 threonine synthase; Validated
Probab=84.89 E-value=0.98 Score=42.49 Aligned_cols=64 Identities=17% Similarity=0.258 Sum_probs=48.7
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCC--CCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLP--TNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~--~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
++.|+..|.+. +.+..||++.++ + +...+.+.|+.|...|+|+.... .|+ .-.|++|+.+..++
T Consensus 373 r~~IL~~L~~~---~~~~~el~~~l~~~~----s~~~v~~hL~~Le~~GLV~~~~~---~g~-~~~Y~Lt~~g~~~l 438 (442)
T PRK05638 373 KLEILKILSER---EMYGYEIWKALGKPL----KYQAVYQHIKELEELGLIEEAYR---KGR-RVYYKLTEKGRRLL 438 (442)
T ss_pred HHHHHHHHhhC---CccHHHHHHHHcccC----CcchHHHHHHHHHHCCCEEEeec---CCC-cEEEEECcHHHHHH
Confidence 34477777764 899999999998 7 88899999999999999985311 121 34599998877554
No 306
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=84.78 E-value=1.1 Score=42.69 Aligned_cols=70 Identities=16% Similarity=0.192 Sum_probs=57.5
Q ss_pred HHhhChhHHHhh-cCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccCC
Q 046424 40 ATELGLLEIMAK-ASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVPN 118 (266)
Q Consensus 40 a~~lglfd~L~~-~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~~ 118 (266)
..+..|+..|.. .+ ..+..+||+.+|+ +...+.+.+..|.+.|+++..... ...|.+|+.+..++.+
T Consensus 6 ~~e~~iL~~l~~~~~--~~~~~~la~~~~~----~~~~v~~~~~~L~~kg~v~~~~~~------~~~~~LT~eG~~~~~~ 73 (494)
T PTZ00326 6 LEENTILSKLESENE--IVNSLALAESLNI----DHQKVVGAIKSLESANYITTEMKK------SNTWTLTEEGEDYLKN 73 (494)
T ss_pred HHHHHHHHHHHhcCC--CCCHHHHHHHcCC----CHHHHHHHHHHHHhCCCEEEEEEE------EEEEEECHHHHHHHHc
Confidence 355667888876 33 7999999999999 999999999999999999866321 6789999999988876
Q ss_pred CCC
Q 046424 119 KDG 121 (266)
Q Consensus 119 ~~~ 121 (266)
..|
T Consensus 74 G~P 76 (494)
T PTZ00326 74 GSP 76 (494)
T ss_pred CCH
Confidence 554
No 307
>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins.; PDB: 3GIW_A 3GO4_A 2QE6_A.
Probab=84.59 E-value=1.5 Score=38.37 Aligned_cols=56 Identities=29% Similarity=0.415 Sum_probs=31.5
Q ss_pred CCceEEEecCCccH--HHHHH-HHHCCCCeEEEeechH-HHhhCCC----CCC--ceEEeccCCCC
Q 046424 201 GLNQLVDVAGGLGA--NLKSI-VSKYPQLRGINFDLPH-VLKHAPS----CPG--VEHVGGDMFVE 256 (266)
Q Consensus 201 ~~~~vvDVGGG~G~--~~~~l-~~~~P~l~~~v~Dlp~-vi~~a~~----~~r--i~~~~gD~f~~ 256 (266)
+...+||||||.=+ ..-++ .+..|+.+++=+|... |+..++. +++ ..++.+|+.++
T Consensus 68 GIrQFLDlGsGlPT~~nvHevAq~~~P~aRVVYVD~DPvv~ah~ralL~~~~~g~t~~v~aD~r~p 133 (267)
T PF04672_consen 68 GIRQFLDLGSGLPTAGNVHEVAQRVAPDARVVYVDNDPVVLAHARALLADNPRGRTAYVQADLRDP 133 (267)
T ss_dssp ---EEEEET--S--SS-HHHHHHHH-TT-EEEEEESSHHHHHCCHHHHTT-TTSEEEEEE--TT-H
T ss_pred CcceEEEcccCCCCCCCHhHHHHhhCCCceEEEECCCchHHHHHHhhhcCCCCccEEEEeCCCCCH
Confidence 78999999999654 44444 4459999999999855 6666653 345 89999999873
No 308
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=84.07 E-value=1.9 Score=37.28 Aligned_cols=59 Identities=14% Similarity=0.137 Sum_probs=46.3
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
..+.-+|-..| +.|+.||++.+|+ +...+..+|+-|...|+++... |+ ...|+.-+...
T Consensus 19 a~vY~aLl~~g--~~tA~eis~~sgv----P~~kvY~vl~sLe~kG~v~~~~-----g~-P~~y~av~p~~ 77 (247)
T COG1378 19 AKVYLALLCLG--EATAKEISEASGV----PRPKVYDVLRSLEKKGLVEVIE-----GR-PKKYRAVPPEE 77 (247)
T ss_pred HHHHHHHHHhC--CccHHHHHHHcCC----CchhHHHHHHHHHHCCCEEeeC-----CC-CceEEeCCHHH
Confidence 34555666656 9999999999999 8889999999999999999762 21 56787765443
No 309
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=83.74 E-value=1.3 Score=38.29 Aligned_cols=46 Identities=20% Similarity=0.206 Sum_probs=41.6
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
...|.+.|.+.| ..++.|||+.+|+ ++.-++|-|+.|...|++.+.
T Consensus 7 ~~~Il~~l~~~~--~~~~~ela~~l~v----S~~TirRdL~~Le~~g~i~r~ 52 (251)
T PRK13509 7 HQILLELLAQLG--FVTVEKVIERLGI----SPATARRDINKLDESGKLKKV 52 (251)
T ss_pred HHHHHHHHHHcC--CcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence 345788998876 8999999999999 999999999999999999976
No 310
>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=83.00 E-value=0.67 Score=38.18 Aligned_cols=64 Identities=17% Similarity=0.199 Sum_probs=44.5
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-------CCceEEeccCCCC---C---CCC-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPSC-------PGVEHVGGDMFVE---V---PKG-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gD~f~~---~---P~~-D~~~l 265 (266)
...++||+=+|+|.++.+.+.+.-. +++.+|.. ..+..++.+ ++++.+.+|.+.. . ... |++++
T Consensus 42 ~g~~vLDLFaGSGalGlEALSRGA~-~v~fVE~~~~a~~~i~~N~~~l~~~~~~~v~~~d~~~~l~~~~~~~~~fDiIfl 120 (183)
T PF03602_consen 42 EGARVLDLFAGSGALGLEALSRGAK-SVVFVEKNRKAIKIIKKNLEKLGLEDKIRVIKGDAFKFLLKLAKKGEKFDIIFL 120 (183)
T ss_dssp TT-EEEETT-TTSHHHHHHHHTT-S-EEEEEES-HHHHHHHHHHHHHHT-GGGEEEEESSHHHHHHHHHHCTS-EEEEEE
T ss_pred CCCeEEEcCCccCccHHHHHhcCCC-eEEEEECCHHHHHHHHHHHHHhCCCcceeeeccCHHHHHHhhcccCCCceEEEE
Confidence 3589999999999999999999754 67888885 455554432 5789999997762 1 234 99886
No 311
>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=82.62 E-value=3.7 Score=33.57 Aligned_cols=80 Identities=19% Similarity=0.226 Sum_probs=50.3
Q ss_pred HHHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCC----C-----CCc
Q 046424 176 LFNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPS----C-----PGV 246 (266)
Q Consensus 176 ~f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~----~-----~ri 246 (266)
.++..+...+...-..+.+.+....+...||-+|||-=.....+...+++++.+=+|+|+|++.-+. . ...
T Consensus 53 ~~~~~~~~Rt~~iD~~v~~~i~~~~~~~qvV~LGaGlDTr~~Rl~~~~~~~~~~evD~p~v~~~K~~~l~~~~~~~~~~~ 132 (183)
T PF04072_consen 53 GINRGYAARTRYIDDAVREFIAKHPGARQVVNLGAGLDTRAYRLDNPAGGVRWFEVDLPEVIALKRRLLPESGARPPANY 132 (183)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTESEEEEET-TT--HHHHHHHTTTTEEEEEEE-HHHHHHHHHHHHHTHHHHHEES
T ss_pred HHHhHHHHHHHHHHHHHHHhhccCCCCcEEEEcCCCCCchHHHhhccccceEEEEeCCHHHHHHHHHHHHhCcccCCcce
Confidence 3444444444443222223221123566999999999999999999999999999999999885332 1 236
Q ss_pred eEEeccCCC
Q 046424 247 EHVGGDMFV 255 (266)
Q Consensus 247 ~~~~gD~f~ 255 (266)
++++.|+.+
T Consensus 133 ~~v~~Dl~~ 141 (183)
T PF04072_consen 133 RYVPADLRD 141 (183)
T ss_dssp SEEES-TTS
T ss_pred eEEeccccc
Confidence 689999986
No 312
>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=82.47 E-value=1.7 Score=34.29 Aligned_cols=45 Identities=13% Similarity=0.162 Sum_probs=37.9
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLT 109 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t 109 (266)
+.|++|||.+.|+ +.+.+-.-|-++++.|-+.+..+ +| .=+|.++
T Consensus 6 a~T~eELA~~FGv----ttRkvaStLa~~ta~Grl~Rv~q---~g--kfRy~iP 50 (155)
T PF07789_consen 6 AKTAEELAGKFGV----TTRKVASTLAMVTATGRLIRVNQ---NG--KFRYCIP 50 (155)
T ss_pred cccHHHHHHHhCc----chhhhHHHHHHHHhcceeEEecC---CC--ceEEeCC
Confidence 9999999999999 99999999999999999998732 12 4456665
No 313
>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=82.41 E-value=2.4 Score=29.27 Aligned_cols=43 Identities=19% Similarity=0.139 Sum_probs=37.8
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|...|+.. +.|.++|-+.+|+ +...+...|.-|...|++.+.
T Consensus 9 ~IL~~ls~~---c~TLeeL~ekTgi----~k~~LlV~LsrL~k~GiI~Rk 51 (72)
T PF05584_consen 9 KILIILSKR---CCTLEELEEKTGI----SKNTLLVYLSRLAKRGIIERK 51 (72)
T ss_pred HHHHHHHhc---cCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCeeee
Confidence 356667664 8999999999999 999999999999999999965
No 314
>COG0116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]
Probab=82.36 E-value=4 Score=37.52 Aligned_cols=68 Identities=18% Similarity=0.182 Sum_probs=52.6
Q ss_pred CCCCCceEEEecCCccHHHHHHHHHCCCCe---------------------------------------EEEeec-hHHH
Q 046424 198 GFEGLNQLVDVAGGLGANLKSIVSKYPQLR---------------------------------------GINFDL-PHVL 237 (266)
Q Consensus 198 ~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~---------------------------------------~~v~Dl-p~vi 237 (266)
+|.....++|==||+|+++++.+...+++- .++.|+ |.++
T Consensus 188 gw~~~~pl~DPmCGSGTi~IEAAl~~~niAPg~~R~~~f~~w~~~~~~lw~~~~~ea~~~a~~~~~~~~~~G~Did~r~i 267 (381)
T COG0116 188 GWKPDEPLLDPMCGSGTILIEAALIAANIAPGLNRRFGFEFWDWFDKDLWDKLREEAEERARRGKELPIIYGSDIDPRHI 267 (381)
T ss_pred CCCCCCccccCCCCccHHHHHHHHhccccCCccccccchhhhhhccHHHHHHHHHHHHHHHhhcCccceEEEecCCHHHH
Confidence 377668999999999999999999887532 568998 5688
Q ss_pred hhCCCC-------CCceEEeccCCC-CCC-CC-CEEEe
Q 046424 238 KHAPSC-------PGVEHVGGDMFV-EVP-KG-QAIFM 265 (266)
Q Consensus 238 ~~a~~~-------~ri~~~~gD~f~-~~P-~~-D~~~l 265 (266)
+.|+.+ +.|+|..+|+-. +-| .. |+++.
T Consensus 268 ~~Ak~NA~~AGv~d~I~f~~~d~~~l~~~~~~~gvvI~ 305 (381)
T COG0116 268 EGAKANARAAGVGDLIEFKQADATDLKEPLEEYGVVIS 305 (381)
T ss_pred HHHHHHHHhcCCCceEEEEEcchhhCCCCCCcCCEEEe
Confidence 877653 779999999886 433 33 77764
No 315
>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=82.07 E-value=1.3 Score=42.01 Aligned_cols=24 Identities=17% Similarity=0.313 Sum_probs=21.6
Q ss_pred CCCceEEEecCCccHHHHHHHHHC
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKY 223 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~ 223 (266)
.+.++.+|||||.|.|+..+++++
T Consensus 116 g~iR~~LDvGcG~aSF~a~l~~r~ 139 (506)
T PF03141_consen 116 GGIRTALDVGCGVASFGAYLLERN 139 (506)
T ss_pred CceEEEEeccceeehhHHHHhhCC
Confidence 357999999999999999999984
No 316
>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=81.85 E-value=1.2 Score=29.78 Aligned_cols=43 Identities=16% Similarity=0.236 Sum_probs=35.2
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
|++.|-..| ..|+.+|++.+++ +++.++.-|-.|...+++...
T Consensus 18 V~~~Ll~~G--~ltl~~i~~~t~l----~~~~Vk~~L~~LiQh~~v~y~ 60 (62)
T PF08221_consen 18 VGEVLLSRG--RLTLREIVRRTGL----SPKQVKKALVVLIQHNLVQYF 60 (62)
T ss_dssp HHHHHHHC---SEEHHHHHHHHT------HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHcC--CcCHHHHHHHhCC----CHHHHHHHHHHHHHcCCeeee
Confidence 567777776 8999999999999 999999999999999998753
No 317
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=81.79 E-value=1.6 Score=32.10 Aligned_cols=49 Identities=18% Similarity=0.221 Sum_probs=38.6
Q ss_pred HhhChhHHHhhc--CCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKA--SPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~--g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.-.|++.|... ...++++++|++++++ ++..++..++.|...|++-.+
T Consensus 48 ~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~----~~~~v~~al~~L~~eG~IYsT 98 (102)
T PF08784_consen 48 LQDKVLNFIKQQPNSEEGVHVDEIAQQLGM----SENEVRKALDFLSNEGHIYST 98 (102)
T ss_dssp HHHHHHHHHHC----TTTEEHHHHHHHSTS-----HHHHHHHHHHHHHTTSEEES
T ss_pred HHHHHHHHHHhcCCCCCcccHHHHHHHhCc----CHHHHHHHHHHHHhCCeEecc
Confidence 345577777661 1137999999999999 999999999999999998755
No 318
>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=81.64 E-value=1.5 Score=40.28 Aligned_cols=63 Identities=11% Similarity=0.122 Sum_probs=45.6
Q ss_pred ceEEEecCCccHHHHHHHHHCCCC-eEEEeec-hHHHhhCCCC------CCceEEeccCCCCC---CCC-CEEEe
Q 046424 203 NQLVDVAGGLGANLKSIVSKYPQL-RGINFDL-PHVLKHAPSC------PGVEHVGGDMFVEV---PKG-QAIFM 265 (266)
Q Consensus 203 ~~vvDVGGG~G~~~~~l~~~~P~l-~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~~~---P~~-D~~~l 265 (266)
-+++|.-+|+|..+++++++-++. +++..|+ |+.++.++.+ ..+++..+|.+.-+ ... |++.+
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 589999999999999999997655 5788899 4566665442 35778888877622 123 77765
No 319
>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=81.47 E-value=1.6 Score=35.44 Aligned_cols=44 Identities=18% Similarity=0.225 Sum_probs=39.5
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchh
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPV 111 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~ 111 (266)
-.|-.+||+.+|+ +.+-+.|.+..|...+|+.+.+ .|.|.+||-
T Consensus 75 ~~t~~~ia~~l~i----S~~Tv~r~ik~L~e~~iI~k~~--------~G~Y~iNP~ 118 (165)
T PF05732_consen 75 VATQKEIAEKLGI----SKPTVSRAIKELEEKNIIKKIR--------NGAYMINPN 118 (165)
T ss_pred EeeHHHHHHHhCC----CHHHHHHHHHHHHhCCcEEEcc--------CCeEEECcH
Confidence 4789999999999 8999999999999999999862 688999983
No 320
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=80.91 E-value=2.3 Score=39.67 Aligned_cols=44 Identities=23% Similarity=0.161 Sum_probs=37.8
Q ss_pred CCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 55 TQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 55 ~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
.+.|.++|++.+++ +++.++++|+.|...|++.+.. ++.|.+..
T Consensus 309 ~~~t~~~La~~l~~----~~~~v~~iL~~L~~agLI~~~~--------~g~~~l~r 352 (412)
T PRK04214 309 KALDVDEIRRLEPM----GYDELGELLCELARIGLLRRGE--------RGQWVLAR 352 (412)
T ss_pred CCCCHHHHHHHhCC----CHHHHHHHHHHHHhCCCeEecC--------CCceEecC
Confidence 38999999999999 9999999999999999999651 45676653
No 321
>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=80.80 E-value=3.5 Score=28.96 Aligned_cols=49 Identities=14% Similarity=0.071 Sum_probs=39.2
Q ss_pred CCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 55 TQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 55 ~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
.|+...+||+.+++ ++.-++-.|..|..+|+|+.... . .+-|.+|..+-
T Consensus 22 ~PVgSk~ia~~l~~----s~aTIRN~M~~Le~lGlve~~p~-~-----s~GriPT~~aY 70 (78)
T PF03444_consen 22 EPVGSKTIAEELGR----SPATIRNEMADLEELGLVESQPH-P-----SGGRIPTDKAY 70 (78)
T ss_pred CCcCHHHHHHHHCC----ChHHHHHHHHHHHHCCCccCCCC-C-----CCCCCcCHHHH
Confidence 39999999999999 88899999999999999985311 1 35577776553
No 322
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=80.57 E-value=1.7 Score=37.62 Aligned_cols=47 Identities=17% Similarity=0.282 Sum_probs=42.2
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
....|.+.|.+.+ .+++.|||+.+++ ++.-++|-|..|...|++.+.
T Consensus 6 R~~~Il~~l~~~~--~~~~~ela~~l~v----S~~TiRRdL~~Le~~g~l~r~ 52 (252)
T PRK10906 6 RHDAIIELVKQQG--YVSTEELVEHFSV----SPQTIRRDLNDLAEQNKILRH 52 (252)
T ss_pred HHHHHHHHHHHcC--CEeHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 3445788998876 8999999999999 999999999999999999976
No 323
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=80.55 E-value=1.7 Score=35.20 Aligned_cols=35 Identities=20% Similarity=0.206 Sum_probs=33.1
Q ss_pred CCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 55 TQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 55 ~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|+|+.||++++|+ +...++..++-|...+++...
T Consensus 40 ~Pmtl~Ei~E~lg~----Sks~vS~~lkkL~~~~lV~~~ 74 (177)
T COG1510 40 KPLTLDEIAEALGM----SKSNVSMGLKKLQDWNLVKKV 74 (177)
T ss_pred CCccHHHHHHHHCC----CcchHHHHHHHHHhcchHHhh
Confidence 39999999999999 899999999999999999976
No 324
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=79.85 E-value=2.6 Score=37.72 Aligned_cols=45 Identities=16% Similarity=0.236 Sum_probs=38.7
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTC 92 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~ 92 (266)
...|.+.|.++. ..+..+||+.+|+ +...+.+.++.|...|++..
T Consensus 6 ~~~il~~L~~~~--~~s~~~LA~~lgv----sr~tV~~~l~~L~~~G~~i~ 50 (319)
T PRK11886 6 MLQLLSLLADGD--FHSGEQLGEELGI----SRAAIWKHIQTLEEWGLDIF 50 (319)
T ss_pred HHHHHHHHHcCC--CcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCceE
Confidence 456778887754 7999999999999 99999999999999999443
No 325
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=79.81 E-value=1.9 Score=37.70 Aligned_cols=47 Identities=4% Similarity=0.149 Sum_probs=42.9
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
....|.+.|.+.+ .+++.|||+.+++ ++.-++|=|..|...|++.+.
T Consensus 18 R~~~Il~~L~~~~--~vtv~eLa~~l~V----S~~TIRRDL~~Le~~G~l~r~ 64 (269)
T PRK09802 18 RREQIIQRLRQQG--SVQVNDLSALYGV----STVTIRNDLAFLEKQGIAVRA 64 (269)
T ss_pred HHHHHHHHHHHcC--CEeHHHHHHHHCC----CHHHHHHHHHHHHhCCCeEEE
Confidence 4556889998887 8999999999999 999999999999999999986
No 326
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=79.63 E-value=2.4 Score=36.37 Aligned_cols=44 Identities=20% Similarity=0.265 Sum_probs=39.8
Q ss_pred ChhHHHhh-cCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 44 GLLEIMAK-ASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 44 glfd~L~~-~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|++.|.. .| -++..+||+++|+ +...+++-++.|.+.|+++..
T Consensus 187 ~IL~~L~~~eg--rlse~eLAerlGV----SRs~ireAlrkLE~aGvIe~r 231 (251)
T TIGR02787 187 HIFEELDGNEG--LLVASKIADRVGI----TRSVIVNALRKLESAGVIESR 231 (251)
T ss_pred HHHHHhccccc--cccHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEec
Confidence 48888877 35 8999999999999 999999999999999999976
No 327
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=79.53 E-value=1.9 Score=37.47 Aligned_cols=47 Identities=19% Similarity=0.238 Sum_probs=42.5
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+..|.+.|.+.+ .+++.|||+.+++ ++.-++|=|..|...|++.+.
T Consensus 6 R~~~Il~~L~~~~--~v~v~eLa~~l~V----S~~TIRRDL~~Le~~g~l~r~ 52 (256)
T PRK10434 6 RQAAILEYLQKQG--KTSVEELAQYFDT----TGTTIRKDLVILEHAGTVIRT 52 (256)
T ss_pred HHHHHHHHHHHcC--CEEHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEE
Confidence 3456889999886 8999999999999 999999999999999999986
No 328
>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=79.49 E-value=2.6 Score=36.11 Aligned_cols=73 Identities=12% Similarity=0.244 Sum_probs=46.1
Q ss_pred HHHHHHccCCCC--CceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCC----------C------CCceEEec
Q 046424 190 KEILEIYKGFEG--LNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPS----------C------PGVEHVGG 251 (266)
Q Consensus 190 ~~i~~~~~~~~~--~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~----------~------~ri~~~~g 251 (266)
+.+++... .++ ..+|+|+=+|-|.-+.-++.. ..+++.++..+++..+-. . .||+++.+
T Consensus 63 ~~l~kA~G-lk~~~~~~VLDaTaGLG~Da~vlA~~--G~~V~~lErspvia~Ll~dGL~r~~~~~~~~~~~~~ri~l~~~ 139 (234)
T PF04445_consen 63 DPLAKAVG-LKPGMRPSVLDATAGLGRDAFVLASL--GCKVTGLERSPVIAALLKDGLKRAQQDPELLAEAMRRIQLIHG 139 (234)
T ss_dssp SHHHHHTT--BTTB---EEETT-TTSHHHHHHHHH--T--EEEEE--HHHHHHHHHHHHHHHHSTTTHHHHHHHEEEEES
T ss_pred cHHHHHhC-CCCCCCCEEEECCCcchHHHHHHHcc--CCeEEEEECCHHHHHHHHHHHHHHHhCcHhHHHHHhCCEEEcC
Confidence 35566654 433 359999999999988888754 678999999877764321 1 48999999
Q ss_pred cCCC--CCCCC--CEEEe
Q 046424 252 DMFV--EVPKG--QAIFM 265 (266)
Q Consensus 252 D~f~--~~P~~--D~~~l 265 (266)
|..+ ..|.. |+|+|
T Consensus 140 d~~~~L~~~~~s~DVVY~ 157 (234)
T PF04445_consen 140 DALEYLRQPDNSFDVVYF 157 (234)
T ss_dssp -CCCHCCCHSS--SEEEE
T ss_pred CHHHHHhhcCCCCCEEEE
Confidence 9988 44443 99987
No 329
>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=79.43 E-value=7.9 Score=34.82 Aligned_cols=63 Identities=14% Similarity=0.151 Sum_probs=42.2
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHC----CCCeEEEeechH-HHhh----CC--CCCCceE--EeccCCC
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKY----PQLRGINFDLPH-VLKH----AP--SCPGVEH--VGGDMFV 255 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~----P~l~~~v~Dlp~-vi~~----a~--~~~ri~~--~~gD~f~ 255 (266)
+.|...++ ....|||+|||+|.=...|+++. ...+.+-+|+.. .++. +. ..+.|++ +.|||.+
T Consensus 68 ~~Ia~~i~---~~~~lIELGsG~~~Kt~~LL~aL~~~~~~~~Y~plDIS~~~L~~a~~~L~~~~~p~l~v~~l~gdy~~ 143 (319)
T TIGR03439 68 SDIAASIP---SGSMLVELGSGNLRKVGILLEALERQKKSVDYYALDVSRSELQRTLAELPLGNFSHVRCAGLLGTYDD 143 (319)
T ss_pred HHHHHhcC---CCCEEEEECCCchHHHHHHHHHHHhcCCCceEEEEECCHHHHHHHHHhhhhccCCCeEEEEEEecHHH
Confidence 45556554 45689999999999655555544 456789999973 4433 22 2366666 7899977
No 330
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=79.39 E-value=2 Score=32.55 Aligned_cols=35 Identities=14% Similarity=0.173 Sum_probs=33.5
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNL 94 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~ 94 (266)
++|++|||+.+.. +++.++.+|+-|...|.++..+
T Consensus 19 ~vtl~elA~~l~c----S~Rn~r~lLkkm~~~gWi~W~p 53 (115)
T PF12793_consen 19 EVTLDELAELLFC----SRRNARTLLKKMQEEGWITWQP 53 (115)
T ss_pred ceeHHHHHHHhCC----CHHHHHHHHHHHHHCCCeeeeC
Confidence 7899999999999 9999999999999999999983
No 331
>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=79.20 E-value=3.7 Score=34.49 Aligned_cols=55 Identities=20% Similarity=0.292 Sum_probs=30.9
Q ss_pred CCceEEEecCCccH---HHHHHHHHC-CCCeEEEeec---hHHHhhCCC---CCCceEEeccCCC
Q 046424 201 GLNQLVDVAGGLGA---NLKSIVSKY-PQLRGINFDL---PHVLKHAPS---CPGVEHVGGDMFV 255 (266)
Q Consensus 201 ~~~~vvDVGGG~G~---~~~~l~~~~-P~l~~~v~Dl---p~vi~~a~~---~~ri~~~~gD~f~ 255 (266)
++.+|+.+|--+|. +...+++.+ ++.+++.+|+ +...+..+. .+||+++.||--+
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 57999999966655 444556666 8899999999 222222222 3899999998765
No 332
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=79.00 E-value=2.4 Score=35.71 Aligned_cols=43 Identities=19% Similarity=0.280 Sum_probs=34.0
Q ss_pred hhHHHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHH
Q 046424 31 AVLPMTIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLR 82 (266)
Q Consensus 31 ~~~~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr 82 (266)
..+-.+|+.|.++|-||. + ...+..|||+.+|+ ++..+...||
T Consensus 158 drQ~~vL~~A~~~GYFd~----P-R~~~l~dLA~~lGI----Skst~~ehLR 200 (215)
T COG3413 158 DRQLEVLRLAYKMGYFDY----P-RRVSLKDLAKELGI----SKSTLSEHLR 200 (215)
T ss_pred HHHHHHHHHHHHcCCCCC----C-ccCCHHHHHHHhCC----CHHHHHHHHH
Confidence 456789999999999997 2 26899999999999 6665554444
No 333
>PF13730 HTH_36: Helix-turn-helix domain
Probab=78.82 E-value=2.2 Score=27.35 Aligned_cols=29 Identities=17% Similarity=0.289 Sum_probs=27.4
Q ss_pred CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcc
Q 046424 58 SSSEIASQLPTNNKKAPIILDRMLRLLASYSFL 90 (266)
Q Consensus 58 t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l 90 (266)
|.+.||+.+|+ +.+-+.+.+..|...|++
T Consensus 27 S~~~la~~~g~----s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLGV----SRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHCc----CHHHHHHHHHHHHHCcCC
Confidence 89999999999 999999999999999985
No 334
>COG5631 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]
Probab=78.59 E-value=7.5 Score=31.26 Aligned_cols=78 Identities=22% Similarity=0.217 Sum_probs=55.6
Q ss_pred HHhhhhHHHHHHHHHhhCh-------hHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCC
Q 046424 27 LASGAVLPMTIKSATELGL-------LEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKD 99 (266)
Q Consensus 27 ~~~g~~~~~~L~~a~~lgl-------fd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~ 99 (266)
..++.|...|+.+|.+.++ +-.+.-.+ .++++.||+..+++. +...+.--||-|...|+++... .
T Consensus 63 ~Af~rW~vrCmAaag~~~ls~~e~l~lH~irhrd-R~K~laDic~~ln~e---Dth~itYslrKL~k~gLit~t~----~ 134 (199)
T COG5631 63 EAFGRWQVRCMAAAGEFSLSGPENLLLHIIRHRD-RPKSLADICQMLNRE---DTHNITYSLRKLLKGGLITRTG----S 134 (199)
T ss_pred HHHHHHHHHHHHHhcCCCCcchHHHHHHHHhhcC-chhhHHHHHHHhccc---cchhHHHHHHHHHhccceecCC----C
Confidence 3567788888888866652 33333333 389999999999993 4456777899999999999762 3
Q ss_pred Cccccceecchhcc
Q 046424 100 GSVQRLYGLTPVSK 113 (266)
Q Consensus 100 ~~~~~~y~~t~~s~ 113 (266)
|. +-.|..|+++.
T Consensus 135 gk-evTy~vTa~G~ 147 (199)
T COG5631 135 GK-EVTYEVTALGH 147 (199)
T ss_pred Cc-eEEEEEecchH
Confidence 32 45688887664
No 335
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=78.28 E-value=2.1 Score=37.26 Aligned_cols=48 Identities=17% Similarity=0.328 Sum_probs=42.3
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNL 94 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~ 94 (266)
|..+.++|.+.| +..+-+||.+++|+ +..-+.|+|+-|...|++++.+
T Consensus 197 e~~il~~i~~~G-Gri~Q~eL~r~lgl----sktTvsR~L~~LEk~GlIe~~K 244 (258)
T COG2512 197 EKEILDLIRERG-GRITQAELRRALGL----SKTTVSRILRRLEKRGLIEKEK 244 (258)
T ss_pred HHHHHHHHHHhC-CEEeHHHHHHhhCC----ChHHHHHHHHHHHhCCceEEEE
Confidence 445788888877 46999999999999 8999999999999999999873
No 336
>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=78.14 E-value=2.3 Score=28.34 Aligned_cols=34 Identities=21% Similarity=0.285 Sum_probs=30.3
Q ss_pred CC-CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QL-SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~-t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+ |..+||+.+++ +..-+++.|+.|...|+++..
T Consensus 23 ~lps~~~la~~~~v----sr~tvr~al~~L~~~g~i~~~ 57 (64)
T PF00392_consen 23 RLPSERELAERYGV----SRTTVREALRRLEAEGLIERR 57 (64)
T ss_dssp BE--HHHHHHHHTS-----HHHHHHHHHHHHHTTSEEEE
T ss_pred EeCCHHHHHHHhcc----CCcHHHHHHHHHHHCCcEEEE
Confidence 67 99999999999 999999999999999999976
No 337
>PRK09954 putative kinase; Provisional
Probab=78.01 E-value=3.2 Score=37.72 Aligned_cols=44 Identities=18% Similarity=0.188 Sum_probs=39.9
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLT 91 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~ 91 (266)
+..|+..|.+++ .+|..|||+.+++ +...+.+.++-|...|++.
T Consensus 5 ~~~il~~l~~~~--~~s~~~la~~l~~----s~~~v~~~i~~L~~~g~i~ 48 (362)
T PRK09954 5 EKEILAILRRNP--LIQQNEIADILQI----SRSRVAAHIMDLMRKGRIK 48 (362)
T ss_pred HHHHHHHHHHCC--CCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCcC
Confidence 445888998886 8999999999999 9999999999999999986
No 338
>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=77.88 E-value=4.6 Score=33.62 Aligned_cols=66 Identities=14% Similarity=0.147 Sum_probs=38.1
Q ss_pred CCceEEEecCCccH--H--HHHHHHH----CC-CCeEEEeech-HHHhhCCCC---------------------------
Q 046424 201 GLNQLVDVAGGLGA--N--LKSIVSK----YP-QLRGINFDLP-HVLKHAPSC--------------------------- 243 (266)
Q Consensus 201 ~~~~vvDVGGG~G~--~--~~~l~~~----~P-~l~~~v~Dlp-~vi~~a~~~--------------------------- 243 (266)
+.-+|...||++|. + ++.+.+. .+ +++.+.-|+. .+++.|+.-
T Consensus 31 ~~lrIWSagCStGeE~YSlAmll~e~~~~~~~~~~~I~atDi~~~~L~~Ar~G~Y~~~~~~~~~~~~~~ryf~~~~~~~~ 110 (196)
T PF01739_consen 31 RPLRIWSAGCSTGEEPYSLAMLLLELLPGALGWDFRILATDISPSALEKARAGIYPERSLRGLPPAYLRRYFTERDGGGY 110 (196)
T ss_dssp S-EEEEETT-TTTHHHHHHHHHHHHHH-S-TT-SEEEEEEES-HHHHHHHHHTEEEGGGGTTS-HHHHHHHEEEE-CCCT
T ss_pred CCeEEEECCCCCChhHHHHHHHHHHHhcccCCCceEEEEEECCHHHHHHHHhCCCCHHHHhhhHHHHHHHhccccCCCce
Confidence 56899999999998 3 3334442 12 4567888884 466665430
Q ss_pred -------CCceEEeccCCC-CCCC-C-CEEEeC
Q 046424 244 -------PGVEHVGGDMFV-EVPK-G-QAIFMK 266 (266)
Q Consensus 244 -------~ri~~~~gD~f~-~~P~-~-D~~~lk 266 (266)
.+|+|..+|+.+ +.+. . |+|+-+
T Consensus 111 ~v~~~lr~~V~F~~~NL~~~~~~~~~fD~I~CR 143 (196)
T PF01739_consen 111 RVKPELRKMVRFRRHNLLDPDPPFGRFDLIFCR 143 (196)
T ss_dssp TE-HHHHTTEEEEE--TT-S------EEEEEE-
T ss_pred eEChHHcCceEEEecccCCCCcccCCccEEEec
Confidence 689999999999 3333 3 998753
No 339
>COG3897 Predicted methyltransferase [General function prediction only]
Probab=77.64 E-value=7.9 Score=32.37 Aligned_cols=65 Identities=11% Similarity=0.111 Sum_probs=44.5
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCCCCe-EEEeechHHHhhCCCC-----CCceEEeccCCCCCCCC-CEEEe
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYPQLR-GINFDLPHVLKHAPSC-----PGVEHVGGDMFVEVPKG-QAIFM 265 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dlp~vi~~a~~~-----~ri~~~~gD~f~~~P~~-D~~~l 265 (266)
+=..++|+|.|.|+|..+++.+++--.-- .+-+| |..++.++-+ -.|.+...|.-. .|.+ |+++.
T Consensus 77 tVrgkrVLd~gagsgLvaIAaa~aGA~~v~a~d~~-P~~~~ai~lNa~angv~i~~~~~d~~g-~~~~~Dl~La 148 (218)
T COG3897 77 TVRGKRVLDLGAGSGLVAIAAARAGAAEVVAADID-PWLEQAIRLNAAANGVSILFTHADLIG-SPPAFDLLLA 148 (218)
T ss_pred ccccceeeecccccChHHHHHHHhhhHHHHhcCCC-hHHHHHhhcchhhccceeEEeeccccC-CCcceeEEEe
Confidence 44679999999999999998887754321 24455 5555555432 357788888877 5554 88764
No 340
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=77.06 E-value=3.2 Score=33.97 Aligned_cols=45 Identities=16% Similarity=0.237 Sum_probs=40.3
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.-|+++|...| -+|-++||..+|+ ...-++|+|..|...|++...
T Consensus 21 ~~v~~~l~~kg--e~tDeela~~l~i----~~~~vrriL~~L~e~~li~~~ 65 (176)
T COG1675 21 VLVVDALLEKG--ELTDEELAELLGI----KKNEVRRILYALYEDGLISYR 65 (176)
T ss_pred hHHHHHHHhcC--CcChHHHHHHhCc----cHHHHHHHHHHHHhCCceEEE
Confidence 44788888865 7999999999999 999999999999999999965
No 341
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=76.93 E-value=3.9 Score=35.12 Aligned_cols=46 Identities=17% Similarity=0.285 Sum_probs=40.9
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
...|.+.|.+.+ ..+.+|||+.+++ ++.-++|-|..|...|.+...
T Consensus 6 ~~~Il~~l~~~~--~~~~~eLa~~l~V----S~~TiRRdL~~L~~~~~l~r~ 51 (240)
T PRK10411 6 QQAIVDLLLNHT--SLTTEALAEQLNV----SKETIRRDLNELQTQGKILRN 51 (240)
T ss_pred HHHHHHHHHHcC--CCcHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence 345788888876 8999999999999 999999999999999999865
No 342
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=76.89 E-value=3.1 Score=32.88 Aligned_cols=42 Identities=17% Similarity=0.278 Sum_probs=36.1
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcc
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFL 90 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l 90 (266)
.-|+++|-..+ .+|-++||+.+|+ +...++++|..|...+++
T Consensus 4 ~~v~d~L~~~~--~~~dedLa~~l~i----~~n~vRkiL~~L~ed~~~ 45 (147)
T smart00531 4 FLVLDALMRNG--CVTEEDLAELLGI----KQKQLRKILYLLYDEKLI 45 (147)
T ss_pred EeehHHHHhcC--CcCHHHHHHHhCC----CHHHHHHHHHHHHhhhcc
Confidence 35788887776 8999999999999 999999999999994443
No 343
>KOG4058 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.79 E-value=2.3 Score=33.86 Aligned_cols=68 Identities=12% Similarity=0.177 Sum_probs=45.4
Q ss_pred HHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCC-------CCCceEEeccCCC-CCCC
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPS-------CPGVEHVGGDMFV-EVPK 259 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-------~~ri~~~~gD~f~-~~P~ 259 (266)
+.+++..+ -....+++|+|.|.|....+.++.. -.+.++++|.+ .+.-.+- ..+.+|+--|+|+ ++-.
T Consensus 62 ~nVLSll~-~n~~GklvDlGSGDGRiVlaaar~g-~~~a~GvELNpwLVaysrl~a~R~g~~k~trf~RkdlwK~dl~d 138 (199)
T KOG4058|consen 62 ENVLSLLR-GNPKGKLVDLGSGDGRIVLAAARCG-LRPAVGVELNPWLVAYSRLHAWRAGCAKSTRFRRKDLWKVDLRD 138 (199)
T ss_pred HHHHHHcc-CCCCCcEEeccCCCceeehhhhhhC-CCcCCceeccHHHHHHHHHHHHHHhcccchhhhhhhhhhccccc
Confidence 34556554 2234799999999999888777765 45578899865 4433221 1567888888887 5543
No 344
>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=76.75 E-value=3.9 Score=35.90 Aligned_cols=46 Identities=17% Similarity=0.154 Sum_probs=39.1
Q ss_pred CCCHHHHHhhCC--CCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 56 QLSSSEIASQLP--TNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 56 ~~t~~elA~~~~--~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
..+.++||+.|+ + +...++..|..|...|+++++. +|.|..|..+.
T Consensus 137 ~~~~~~ia~~l~p~i----s~~ev~~sL~~L~~~glikk~~--------~g~y~~t~~~l 184 (271)
T TIGR02147 137 ADDPEELAKRCFPKI----SAEQVKESLDLLERLGLIKKNE--------DGFYKQTDKAV 184 (271)
T ss_pred CCCHHHHHHHhCCCC----CHHHHHHHHHHHHHCCCeeECC--------CCcEEeeccee
Confidence 347889999998 6 8888999999999999999861 68899997544
No 345
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=76.60 E-value=3.5 Score=35.41 Aligned_cols=65 Identities=18% Similarity=0.176 Sum_probs=49.6
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCCC--------CCceEEeccCCC---CCCCC--CEEE
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPSC--------PGVEHVGGDMFV---EVPKG--QAIF 264 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~--------~ri~~~~gD~f~---~~P~~--D~~~ 264 (266)
+...+|+|..+|-|..+++.+++-.-.-.++-=-|.|++.|.-+ .+|+.+-||.++ .++.. |+++
T Consensus 133 ~~G~rVLDtC~GLGYtAi~a~~rGA~~VitvEkdp~VLeLa~lNPwSr~l~~~~i~iilGD~~e~V~~~~D~sfDaIi 210 (287)
T COG2521 133 KRGERVLDTCTGLGYTAIEALERGAIHVITVEKDPNVLELAKLNPWSRELFEIAIKIILGDAYEVVKDFDDESFDAII 210 (287)
T ss_pred ccCCEeeeeccCccHHHHHHHHcCCcEEEEEeeCCCeEEeeccCCCCccccccccEEecccHHHHHhcCCccccceEe
Confidence 45789999999999999999998653223555557888877653 478999999988 46653 8775
No 346
>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=76.34 E-value=2.5 Score=40.64 Aligned_cols=55 Identities=16% Similarity=0.222 Sum_probs=38.0
Q ss_pred CCceEEEecCCccHHHHHHHHHCCC--------CeEEEeechH-HHhhCCC----CC--CceEEeccCCC
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQ--------LRGINFDLPH-VLKHAPS----CP--GVEHVGGDMFV 255 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~--------l~~~v~Dlp~-vi~~a~~----~~--ri~~~~gD~f~ 255 (266)
...+|+|.+||+|.++.+++++.+. +..+++|+.+ .++.++. .. .++...+|+..
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 4579999999999999999998863 4568888854 4443332 12 45556666554
No 347
>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=76.25 E-value=2.2 Score=29.91 Aligned_cols=35 Identities=20% Similarity=0.267 Sum_probs=23.9
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHh
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLA 85 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~ 85 (266)
++..|..+. |+|..+||+++|. +...+...|..+-
T Consensus 29 LLr~LA~G~--PVt~~~LA~a~g~----~~e~v~~~L~~~p 63 (77)
T PF12324_consen 29 LLRLLAKGQ--PVTVEQLAAALGW----PVEEVRAALAAMP 63 (77)
T ss_dssp HHHHHTTTS---B-HHHHHHHHT------HHHHHHHHHH-T
T ss_pred HHHHHHcCC--CcCHHHHHHHHCC----CHHHHHHHHHhCC
Confidence 778888854 9999999999999 7776666666654
No 348
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=76.09 E-value=3.1 Score=34.30 Aligned_cols=34 Identities=15% Similarity=0.397 Sum_probs=32.3
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
++|-.+||+.+|+ ++..+.|+|+-|...|+++..
T Consensus 168 ~~t~~~lA~~lG~----tr~tvsR~l~~l~~~gii~~~ 201 (211)
T PRK11753 168 KITRQEIGRIVGC----SREMVGRVLKMLEDQGLISAH 201 (211)
T ss_pred CCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEec
Confidence 7889999999999 999999999999999999976
No 349
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=75.97 E-value=4.7 Score=33.78 Aligned_cols=45 Identities=16% Similarity=0.230 Sum_probs=37.6
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|+..+.++ ..+.|.+|||+++++ ++.-+++.+.+|+..|++..+
T Consensus 166 ~Vl~~~~~g-~~g~s~~eIa~~l~i----S~~Tv~~~~~~~~~~~~~~~~ 210 (225)
T PRK10046 166 AVRKLFKEP-GVQHTAETVAQALTI----SRTTARRYLEYCASRHLIIAE 210 (225)
T ss_pred HHHHHHHcC-CCCcCHHHHHHHhCc----cHHHHHHHHHHHHhCCeEEEE
Confidence 356666652 125899999999999 999999999999999999976
No 350
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=75.55 E-value=2.1 Score=35.30 Aligned_cols=47 Identities=11% Similarity=0.051 Sum_probs=42.1
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+-.|.+.|...| .+++.+||+.+++ ++.-++|=|..|...|++...
T Consensus 8 R~~~Il~~l~~~~--~~~~~~La~~~~v----S~~TiRRDl~~L~~~g~~~r~ 54 (185)
T PRK04424 8 RQKALQELIEENP--FITDEELAEKFGV----SIQTIRLDRMELGIPELRERI 54 (185)
T ss_pred HHHHHHHHHHHCC--CEEHHHHHHHHCc----CHHHHHHHHHHHhcchHHHHH
Confidence 3445788898887 8999999999999 999999999999999999976
No 351
>PF11312 DUF3115: Protein of unknown function (DUF3115); InterPro: IPR021463 This eukaryotic family of proteins has no known function.
Probab=75.40 E-value=14 Score=33.13 Aligned_cols=38 Identities=24% Similarity=0.456 Sum_probs=29.2
Q ss_pred CceEEEecCCccHHHHHHHHHC--------------------CCCeEEEeech---HHHhh
Q 046424 202 LNQLVDVAGGLGANLKSIVSKY--------------------PQLRGINFDLP---HVLKH 239 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~--------------------P~l~~~v~Dlp---~vi~~ 239 (266)
..+||-||||.|.=..+|+..+ |.+..+++|+. .|+..
T Consensus 87 ~~~VlCIGGGAGAElVAlAa~~~~~~~~~~s~~~~~~~~~~~~~l~itlvDiAdWs~VV~~ 147 (315)
T PF11312_consen 87 SLRVLCIGGGAGAELVALAAAFRTRSSEFLSKSPSGVSLSSPPSLSITLVDIADWSSVVDR 147 (315)
T ss_pred CceEEEECCChHHHHHHHHHHHhhcccccCCcccccccccCCCcceEEEEEecChHHHHHH
Confidence 4799999999999777777766 33678999985 46654
No 352
>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=75.22 E-value=3.9 Score=27.24 Aligned_cols=45 Identities=16% Similarity=0.127 Sum_probs=34.0
Q ss_pred CCCHHHHHhhCCCCCCCCcc-hHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 56 QLSSSEIASQLPTNNKKAPI-ILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~-~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
+++.+++.++.|. +.. .....+.-+...|+++.+ ++++++|+.+.
T Consensus 20 Gi~~~~~~~~~g~----~~~~~~~~~l~~l~~~Gll~~~---------~~~l~lT~~G~ 65 (66)
T PF06969_consen 20 GIDLSEFEQRFGI----DFAEEFQKELEELQEDGLLEID---------GGRLRLTEKGR 65 (66)
T ss_dssp EEEHHHHHHHTT------THHH-HHHHHHHHHTTSEEE----------SSEEEE-TTTG
T ss_pred CcCHHHHHHHHCc----CHHHHHHHHHHHHHHCCCEEEe---------CCEEEECcccC
Confidence 7899999999998 533 347778999999999987 78999998764
No 353
>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=75.19 E-value=6.3 Score=28.87 Aligned_cols=70 Identities=14% Similarity=0.166 Sum_probs=46.3
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCC----CCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccccc
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTN----NKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFV 116 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~----~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~ 116 (266)
=|+-.|... |.+--||.+.+.-. -+.++..+.++|+-|...|+++........+...-.|++|+.++.++
T Consensus 8 ~iL~~L~~~---~~~GYei~~~l~~~~~~~~~i~~gtlY~~L~rLe~~GlI~~~~~~~~~~~~rk~y~iT~~Gr~~l 81 (100)
T TIGR03433 8 LILKTLSLG---PLHGYGIAQRIQQISEDVLQVEEGSLYPALHRLERRGWIAAEWGESENNRRAKFYRLTAAGRKQL 81 (100)
T ss_pred HHHHHHhcC---CCCHHHHHHHHHHHcCCccccCCCcHHHHHHHHHHCCCeEEEeeecCCCCCceEEEECHHHHHHH
Confidence 355566653 88988888885210 11278889999999999999997311111222235599998887554
No 354
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=75.05 E-value=4.3 Score=33.28 Aligned_cols=49 Identities=18% Similarity=0.273 Sum_probs=42.8
Q ss_pred HHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 40 ATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 40 a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
-++..|.|.|...|- ..|+-+||+++|+ +...+.|.|.-|...|.|...
T Consensus 4 ~~~~~i~~~l~~~~~-~~~a~~i~k~l~i----~k~~vNr~LY~L~~~~~v~~~ 52 (183)
T PHA02701 4 DCASLILTLLSSSGD-KLPAKRIAKELGI----SKHEANRCLYRLLESDAVSCE 52 (183)
T ss_pred hHHHHHHHHHHhcCC-CCcHHHHHHHhCc----cHHHHHHHHHHHhhcCcEecC
Confidence 467789999998862 5999999999999 888999999999999999765
No 355
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=74.68 E-value=3 Score=35.17 Aligned_cols=34 Identities=15% Similarity=0.261 Sum_probs=32.4
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
++|-++||+.+|+ +...+.|+|.-|...|+++..
T Consensus 184 ~lt~~~iA~~lG~----sr~tvsR~l~~l~~~g~I~~~ 217 (235)
T PRK11161 184 TMTRGDIGNYLGL----TVETISRLLGRFQKSGMLAVK 217 (235)
T ss_pred cccHHHHHHHhCC----cHHHHHHHHHHHHHCCCEEec
Confidence 6899999999999 999999999999999999986
No 356
>PRK09775 putative DNA-binding transcriptional regulator; Provisional
Probab=73.79 E-value=4.4 Score=38.20 Aligned_cols=52 Identities=23% Similarity=0.277 Sum_probs=39.9
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
|...|.. | |.|+.||++.+|+ +...+.+.|+.| .|+|...+ .|+ .-.|++..
T Consensus 5 ~~~~L~~-g--~~~~~eL~~~l~~----sq~~~s~~L~~L--~~~V~~~~----~gr-~~~Y~l~~ 56 (442)
T PRK09775 5 LTTLLLQ-G--PLSAAELAARLGV----SQATLSRLLAAL--GDQVVRFG----KAR-ATRYALLR 56 (442)
T ss_pred HHHHHhc-C--CCCHHHHHHHhCC----CHHHHHHHHHHh--hcceeEec----cCc-eEEEEecc
Confidence 4566665 4 9999999999999 899999999999 88888663 221 44566655
No 357
>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=73.73 E-value=4.1 Score=35.47 Aligned_cols=60 Identities=12% Similarity=0.150 Sum_probs=37.2
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCCCCceEEeccCCCCCCCC-CEE
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSCPGVEHVGGDMFVEVPKG-QAI 263 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~~ri~~~~gD~f~~~P~~-D~~ 263 (266)
+..+++|||.|.|.....++..|.++.+| +... +....+. .+++.+..|=+..-+.. |+|
T Consensus 94 ~~~~lLDlGAGdG~VT~~l~~~f~~v~aT--E~S~~Mr~rL~~-kg~~vl~~~~w~~~~~~fDvI 155 (265)
T PF05219_consen 94 KDKSLLDLGAGDGEVTERLAPLFKEVYAT--EASPPMRWRLSK-KGFTVLDIDDWQQTDFKFDVI 155 (265)
T ss_pred cCCceEEecCCCcHHHHHHHhhcceEEee--cCCHHHHHHHHh-CCCeEEehhhhhccCCceEEE
Confidence 45789999999999999999999984443 3332 2222222 35555554444433333 555
No 358
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=73.64 E-value=4.2 Score=34.86 Aligned_cols=61 Identities=15% Similarity=0.211 Sum_probs=49.5
Q ss_pred hChhHHHhhc-CCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccC
Q 046424 43 LGLLEIMAKA-SPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 43 lglfd~L~~~-g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
..|+..|... | -....|||+.+|+ .+..+.-.++-|+..|++++. + .++|..|..+..++.
T Consensus 13 fqIL~ei~~~qp--~v~q~eIA~~lgi----T~QaVsehiK~Lv~eG~i~~~---g-----R~~Y~iTkkG~e~l~ 74 (260)
T COG1497 13 FQILSEIAVRQP--RVKQKEIAKKLGI----TLQAVSEHIKELVKEGLIEKE---G-----RGEYEITKKGAEWLL 74 (260)
T ss_pred HHHHHHHHHhCC--CCCHHHHHHHcCC----CHHHHHHHHHHHHhccceeec---C-----CeeEEEehhHHHHHH
Confidence 3344444443 4 6899999999999 999999999999999999986 2 679999999886654
No 359
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=73.58 E-value=2.4 Score=25.59 Aligned_cols=27 Identities=22% Similarity=0.361 Sum_probs=21.1
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLAS 86 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~ 86 (266)
+.+++|||+.+|+ ++..+.|.++-...
T Consensus 8 ~~~l~~iA~~~g~----S~~~f~r~Fk~~~g 34 (42)
T PF00165_consen 8 KLTLEDIAEQAGF----SPSYFSRLFKKETG 34 (42)
T ss_dssp S--HHHHHHHHTS-----HHHHHHHHHHHTS
T ss_pred CCCHHHHHHHHCC----CHHHHHHHHHHHHC
Confidence 7999999999999 99999999876543
No 360
>KOG1709 consensus Guanidinoacetate methyltransferase and related proteins [Amino acid transport and metabolism]
Probab=73.20 E-value=15 Score=31.25 Aligned_cols=60 Identities=23% Similarity=0.236 Sum_probs=47.9
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCCC-----CCceEEec---cCCCCCCC
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPSC-----PGVEHVGG---DMFVEVPK 259 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~-----~ri~~~~g---D~f~~~P~ 259 (266)
.+..+|+.||=|.|.....+.++.|+.+.|+-=-|.|.+..+.. +.|-.+.| |....+|.
T Consensus 100 tkggrvLnVGFGMgIidT~iQe~~p~~H~IiE~hp~V~krmr~~gw~ek~nViil~g~WeDvl~~L~d 167 (271)
T KOG1709|consen 100 TKGGRVLNVGFGMGIIDTFIQEAPPDEHWIIEAHPDVLKRMRDWGWREKENVIILEGRWEDVLNTLPD 167 (271)
T ss_pred hCCceEEEeccchHHHHHHHhhcCCcceEEEecCHHHHHHHHhcccccccceEEEecchHhhhccccc
Confidence 56799999999999999999999999999999999999987652 44555544 44444554
No 361
>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=73.04 E-value=5.5 Score=26.09 Aligned_cols=54 Identities=20% Similarity=0.196 Sum_probs=40.7
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhc---CCccccccccCCCCccccceecchhc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLAS---YSFLTCNLVSNKDGSVQRLYGLTPVS 112 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~---~g~l~~~~~~~~~~~~~~~y~~t~~s 112 (266)
++.+|..+.+. -++..-|+.+++ ++..+.+.++-|.. .-+|... .+.+.+|+.|
T Consensus 3 ~l~~f~~v~~~----gs~~~AA~~l~i----s~~~vs~~i~~LE~~lg~~Lf~r~---------~~~~~lT~~G 59 (60)
T PF00126_consen 3 QLRYFLAVAET----GSISAAAEELGI----SQSAVSRQIKQLEEELGVPLFERS---------GRGLRLTEAG 59 (60)
T ss_dssp HHHHHHHHHHH----SSHHHHHHHCTS----SHHHHHHHHHHHHHHHTS-SEEEC---------SSSEEE-HHH
T ss_pred HHHHHHHHHHh----CCHHHHHHHhhc----cchHHHHHHHHHHHHhCCeEEEEC---------CCCeeEChhh
Confidence 45678888875 389999999999 99999988888874 5567764 4568888865
No 362
>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=72.70 E-value=4.2 Score=32.91 Aligned_cols=34 Identities=21% Similarity=0.356 Sum_probs=32.4
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
++|-+|||..+|+ +...+.|+|..|...|+++..
T Consensus 143 ~~t~~~iA~~lG~----tretvsR~l~~l~~~g~I~~~ 176 (193)
T TIGR03697 143 RLSHQAIAEAIGS----TRVTITRLLGDLRKKKLISIH 176 (193)
T ss_pred CCCHHHHHHHhCC----cHHHHHHHHHHHHHCCCEEec
Confidence 6899999999999 999999999999999999976
No 363
>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=72.55 E-value=6.4 Score=34.32 Aligned_cols=36 Identities=14% Similarity=0.147 Sum_probs=31.8
Q ss_pred CCCCceEEEecCCccHHHHHHHHHC-----CCCeEEEeech
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKY-----PQLRGINFDLP 234 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~-----P~l~~~v~Dlp 234 (266)
+.+...+|+.|+|.|.++..+.... +..+++++|..
T Consensus 16 l~~~~~~vEfGaGrg~LS~~v~~~~~~~~~~~~~~~lIDR~ 56 (259)
T PF05206_consen 16 LNPDSCFVEFGAGRGELSRWVAQALQEDKPSNSRFVLIDRA 56 (259)
T ss_pred CCCCCEEEEECCCchHHHHHHHHHhhhcccCCccEEEEecC
Confidence 5667899999999999999999998 56788999994
No 364
>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=72.23 E-value=2.9 Score=32.03 Aligned_cols=46 Identities=17% Similarity=0.189 Sum_probs=41.5
Q ss_pred HHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccCCC
Q 046424 61 EIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVPNK 119 (266)
Q Consensus 61 elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~~~ 119 (266)
+||+.+++ +-+-|-.++.++..+|+++.. +|-..+|+.|+.|+..+
T Consensus 2 ~La~~l~~----eiDdL~p~~eAaelLgf~~~~---------~Gdi~LT~~G~~f~~a~ 47 (120)
T PF09821_consen 2 QLADELHL----EIDDLLPIVEAAELLGFAEVE---------EGDIRLTPLGRRFAEAD 47 (120)
T ss_pred chHHHhCC----cHHHHHHHHHHHHHcCCeeec---------CCcEEeccchHHHHHCC
Confidence 58899999 999999999999999999986 68899999999999654
No 365
>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=72.18 E-value=5 Score=24.76 Aligned_cols=23 Identities=30% Similarity=0.322 Sum_probs=16.7
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHH
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLR 82 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr 82 (266)
+.|+.+||+.+|+ +..-+.|+|+
T Consensus 21 G~si~~IA~~~gv----sr~TvyR~l~ 43 (45)
T PF02796_consen 21 GMSIAEIAKQFGV----SRSTVYRYLN 43 (45)
T ss_dssp T--HHHHHHHTTS-----HHHHHHHHC
T ss_pred CCCHHHHHHHHCc----CHHHHHHHHh
Confidence 5999999999999 8777777663
No 366
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=72.06 E-value=3.7 Score=35.59 Aligned_cols=46 Identities=20% Similarity=0.280 Sum_probs=42.3
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.-.|.+.|.+.| .++++|||+.+++ ++.-++|=|+.|...|++.+.
T Consensus 7 ~~~Il~~l~~~g--~v~v~eLa~~~~V----S~~TIRRDL~~Le~~g~l~R~ 52 (253)
T COG1349 7 HQKILELLKEKG--KVSVEELAELFGV----SEMTIRRDLNELEEQGLLLRV 52 (253)
T ss_pred HHHHHHHHHHcC--cEEHHHHHHHhCC----CHHHHHHhHHHHHHCCcEEEE
Confidence 345889999987 9999999999999 999999999999999999986
No 367
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=71.05 E-value=5.4 Score=27.03 Aligned_cols=43 Identities=12% Similarity=0.097 Sum_probs=34.4
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
|+.+|.+.+ +.|+.+|++.+++ +...+..-+--|+..+=+.-.
T Consensus 13 Vw~~L~~~~--~~s~~el~k~~~l----~~~~~~~AiGWLarE~KI~~~ 55 (65)
T PF10771_consen 13 VWQLLNENG--EWSVSELKKATGL----SDKEVYLAIGWLARENKIEFE 55 (65)
T ss_dssp HHHHHCCSS--SEEHHHHHHHCT-----SCHHHHHHHHHHHCTTSEEEE
T ss_pred HHHHHhhCC--CcCHHHHHHHhCc----CHHHHHHHHHHHhccCceeEE
Confidence 788998876 9999999999999 888888777777776666544
No 368
>PF09929 DUF2161: Uncharacterized conserved protein (DUF2161); InterPro: IPR018679 This family of various hypothetical prokaryotic proteins has no known function.
Probab=70.74 E-value=5.9 Score=30.09 Aligned_cols=59 Identities=15% Similarity=0.265 Sum_probs=42.1
Q ss_pred hHHHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchh
Q 046424 32 VLPMTIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPV 111 (266)
Q Consensus 32 ~~~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~ 111 (266)
+.-.||+||. +|.+.| |.+..+|++.+++ + ...++|+- --.|+|+... .|.|.+|+.
T Consensus 57 YRQ~Al~~A~------~L~~~G--p~~~~~l~~~~~~----~--~A~~IL~~-N~YGWFeRv~--------rGvY~LT~~ 113 (118)
T PF09929_consen 57 YRQDALRCAA------ALAEHG--PSRPADLRKATGV----P--KATSILRD-NHYGWFERVE--------RGVYALTPA 113 (118)
T ss_pred hHHHHHHHHH------HHHHcC--CCCHHHHHHhcCC----C--hHHHHHHh-Ccccceeeec--------cceEecCcc
Confidence 4456777664 667677 9999999999999 3 22333322 3478999872 799999997
Q ss_pred cc
Q 046424 112 SK 113 (266)
Q Consensus 112 s~ 113 (266)
+.
T Consensus 114 G~ 115 (118)
T PF09929_consen 114 GR 115 (118)
T ss_pred hh
Confidence 75
No 369
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=70.40 E-value=8.4 Score=36.21 Aligned_cols=64 Identities=16% Similarity=0.226 Sum_probs=47.0
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEEeccCCC--C-CC--CC-CEEEe
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC------PGVEHVGGDMFV--E-VP--KG-QAIFM 265 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD~f~--~-~P--~~-D~~~l 265 (266)
.+..+++|.=||.|.++..|+++. .+++++|+ |+.++.|+.+ ++++|+.+|-.+ + +. .. |++++
T Consensus 292 ~~~~~vlDlYCGvG~f~l~lA~~~--~~V~gvEi~~~aV~~A~~NA~~n~i~N~~f~~~~ae~~~~~~~~~~~~d~Vvv 368 (432)
T COG2265 292 AGGERVLDLYCGVGTFGLPLAKRV--KKVHGVEISPEAVEAAQENAAANGIDNVEFIAGDAEEFTPAWWEGYKPDVVVV 368 (432)
T ss_pred cCCCEEEEeccCCChhhhhhcccC--CEEEEEecCHHHHHHHHHHHHHcCCCcEEEEeCCHHHHhhhccccCCCCEEEE
Confidence 456799999999999999999653 45777777 4566665542 569999998877 2 32 23 87765
No 370
>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=70.32 E-value=6 Score=29.99 Aligned_cols=34 Identities=24% Similarity=0.250 Sum_probs=31.9
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.|+.|||..+++ +...++.++.-|...|++...
T Consensus 55 ~~SVAEiAA~L~l----PlgVvrVLvsDL~~~G~v~v~ 88 (114)
T PF05331_consen 55 PLSVAEIAARLGL----PLGVVRVLVSDLADAGLVRVR 88 (114)
T ss_pred CccHHHHHHhhCC----CchhhhhhHHHHHhCCCEEEe
Confidence 8999999999999 888999999999999999965
No 371
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=70.08 E-value=7.2 Score=35.12 Aligned_cols=72 Identities=18% Similarity=0.267 Sum_probs=48.7
Q ss_pred HHHHHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHH-HhhCCCC--------C
Q 046424 174 NNLFNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHV-LKHAPSC--------P 244 (266)
Q Consensus 174 ~~~f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~v-i~~a~~~--------~ 244 (266)
.+.||.+|.+ .++..| .+....++|+|||-|.-++...++-=+ ..|+.|+.+| |+.++.+ .
T Consensus 99 lRnfNNwIKs-------~LI~~y--~~~~~~~~~LgCGKGGDLlKw~kAgI~-~~igiDIAevSI~qa~~RYrdm~~r~~ 168 (389)
T KOG1975|consen 99 LRNFNNWIKS-------VLINLY--TKRGDDVLDLGCGKGGDLLKWDKAGIG-EYIGIDIAEVSINQARKRYRDMKNRFK 168 (389)
T ss_pred hhhhhHHHHH-------HHHHHH--hccccccceeccCCcccHhHhhhhccc-ceEeeehhhccHHHHHHHHHHHHhhhh
Confidence 3567766665 334444 245678889999999999888776322 3699999874 5555542 1
Q ss_pred ----CceEEeccCCC
Q 046424 245 ----GVEHVGGDMFV 255 (266)
Q Consensus 245 ----ri~~~~gD~f~ 255 (266)
.+.|+++|-|.
T Consensus 169 ~~~f~a~f~~~Dc~~ 183 (389)
T KOG1975|consen 169 KFIFTAVFIAADCFK 183 (389)
T ss_pred cccceeEEEEeccch
Confidence 36788888886
No 372
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=69.99 E-value=3.8 Score=38.93 Aligned_cols=55 Identities=22% Similarity=0.355 Sum_probs=41.1
Q ss_pred CCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEEec---cCCC
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC------PGVEHVGG---DMFV 255 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~g---D~f~ 255 (266)
.+.-+.++||-||+|.++.++++..- +++++++ |+.++.|+.+ ...+|+.| |.|.
T Consensus 381 l~~~k~llDv~CGTG~iglala~~~~--~ViGvEi~~~aV~dA~~nA~~NgisNa~Fi~gqaE~~~~ 445 (534)
T KOG2187|consen 381 LPADKTLLDVCCGTGTIGLALARGVK--RVIGVEISPDAVEDAEKNAQINGISNATFIVGQAEDLFP 445 (534)
T ss_pred CCCCcEEEEEeecCCceehhhhcccc--ceeeeecChhhcchhhhcchhcCccceeeeecchhhccc
Confidence 34458999999999999998887754 5777755 6777776653 67788877 6665
No 373
>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=69.81 E-value=8.8 Score=33.96 Aligned_cols=67 Identities=13% Similarity=0.155 Sum_probs=43.9
Q ss_pred CCCCceEEEecCCccHHHHHHHHH-------CCCCeEEEeechH-HHhhCCC--------CCCceEEeccCCC-C-CC--
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSK-------YPQLRGINFDLPH-VLKHAPS--------CPGVEHVGGDMFV-E-VP-- 258 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~-------~P~l~~~v~Dlp~-vi~~a~~--------~~ri~~~~gD~f~-~-~P-- 258 (266)
-....+|+|-.||+|.++.++.+. .+..+.+++|+.+ .+..+.. ...+....+|.|. + +.
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 345678999999999999998875 5888899999964 3333321 1335688899987 2 32
Q ss_pred CC-CEEEe
Q 046424 259 KG-QAIFM 265 (266)
Q Consensus 259 ~~-D~~~l 265 (266)
.. |+++.
T Consensus 124 ~~~D~ii~ 131 (311)
T PF02384_consen 124 QKFDVIIG 131 (311)
T ss_dssp --EEEEEE
T ss_pred cccccccC
Confidence 23 88764
No 374
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=69.76 E-value=13 Score=26.60 Aligned_cols=32 Identities=6% Similarity=0.085 Sum_probs=25.9
Q ss_pred HHHHHHhcCCccccccccCCCCccccceecchhcccccCC
Q 046424 79 RMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVPN 118 (266)
Q Consensus 79 rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~~ 118 (266)
=-+.+|...|+++... .|.|++|+.++.++..
T Consensus 59 Wa~~~L~~aGli~~~~--------rG~~~iT~~G~~~l~~ 90 (92)
T PF14338_consen 59 WARSYLKKAGLIERPK--------RGIWRITEKGRKALAE 90 (92)
T ss_pred HHHHHHHHCCCccCCC--------CCceEECHhHHHHHhh
Confidence 3478999999998762 6899999999876654
No 375
>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=69.35 E-value=7 Score=25.64 Aligned_cols=40 Identities=23% Similarity=0.316 Sum_probs=32.3
Q ss_pred HHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHh
Q 046424 40 ATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLA 85 (266)
Q Consensus 40 a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~ 85 (266)
..++.|++.|-..+ ..|..+||+.+++ +++-+..-+..|.
T Consensus 5 ~rq~~Ll~~L~~~~--~~~~~ela~~l~~----S~rti~~~i~~L~ 44 (59)
T PF08280_consen 5 KRQLKLLELLLKNK--WITLKELAKKLNI----SERTIKNDINELN 44 (59)
T ss_dssp HHHHHHHHHHHHHT--SBBHHHHHHHCTS-----HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCC--CCcHHHHHHHHCC----CHHHHHHHHHHHH
Confidence 35677888887765 8999999999999 8888888777766
No 376
>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=69.03 E-value=10 Score=29.33 Aligned_cols=47 Identities=17% Similarity=0.210 Sum_probs=37.8
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhC----CCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQL----PTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~----~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|+-|+..|=..| +.|+.+|.+.+ ++ +..-+..+|+-|...|+|...
T Consensus 5 ~E~~VM~vlW~~~--~~t~~eI~~~l~~~~~~----~~tTv~T~L~rL~~KG~v~~~ 55 (130)
T TIGR02698 5 AEWEVMRVVWTLG--ETTSRDIIRILAEKKDW----SDSTIKTLLGRLVDKGCLTTE 55 (130)
T ss_pred HHHHHHHHHHcCC--CCCHHHHHHHHhhccCC----cHHHHHHHHHHHHHCCceeee
Confidence 4566777776665 89999977776 56 777899999999999999865
No 377
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=69.01 E-value=5 Score=32.84 Aligned_cols=34 Identities=9% Similarity=0.218 Sum_probs=32.1
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
++|-++||..+|+ .+..+.|+|.-|...|++...
T Consensus 149 ~~t~~~iA~~lG~----tretvsR~l~~l~~~g~I~~~ 182 (202)
T PRK13918 149 YATHDELAAAVGS----VRETVTKVIGELSREGYIRSG 182 (202)
T ss_pred cCCHHHHHHHhCc----cHHHHHHHHHHHHHCCCEEcC
Confidence 6899999999999 999999999999999999964
No 378
>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=68.63 E-value=6.6 Score=28.66 Aligned_cols=40 Identities=20% Similarity=0.235 Sum_probs=33.1
Q ss_pred HHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHh
Q 046424 39 SATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLA 85 (266)
Q Consensus 39 ~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~ 85 (266)
.+.+.||+..|-.+ ++|-.|||+.+|+ +...+.|+-+.|.
T Consensus 41 l~~R~~i~~~Ll~~---~~tQrEIa~~lGi----S~atIsR~sn~lk 80 (94)
T TIGR01321 41 LGDRIRIVNELLNG---NMSQREIASKLGV----SIATITRGSNNLK 80 (94)
T ss_pred HHHHHHHHHHHHhC---CCCHHHHHHHhCC----ChhhhhHHHhhcc
Confidence 34677999988774 7999999999999 7778888777765
No 379
>KOG2651 consensus rRNA adenine N-6-methyltransferase [RNA processing and modification]
Probab=68.39 E-value=9.5 Score=35.14 Aligned_cols=46 Identities=22% Similarity=0.252 Sum_probs=33.5
Q ss_pred HHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHh
Q 046424 192 ILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLK 238 (266)
Q Consensus 192 i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~ 238 (266)
+++.+-+|.+..++||||.|.|+++.-+. -.=++++..+|-.++.+
T Consensus 144 lvSsi~~f~gi~~vvD~GaG~G~LSr~lS-l~y~lsV~aIegsq~~~ 189 (476)
T KOG2651|consen 144 LVSSISDFTGIDQVVDVGAGQGHLSRFLS-LGYGLSVKAIEGSQRLV 189 (476)
T ss_pred HHHHHHhhcCCCeeEEcCCCchHHHHHHh-hccCceEEEeccchHHH
Confidence 34443337789999999999998876554 44477888888876544
No 380
>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=68.16 E-value=4.6 Score=34.21 Aligned_cols=64 Identities=19% Similarity=0.207 Sum_probs=35.4
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCC-----CCCc-eEEeccCCCCCC--CC-CEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPS-----CPGV-EHVGGDMFVEVP--KG-QAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~-----~~ri-~~~~gD~f~~~P--~~-D~~~l 265 (266)
+..+.+|+|+|.|.....++..+-+ ++-++|- ++-++.|++ .+++ ++...-+=+-.| .. |+||+
T Consensus 55 ~~~~alDcGAGIGRVTk~lLl~~f~-~VDlVEp~~~Fl~~a~~~l~~~~~~v~~~~~~gLQ~f~P~~~~YDlIW~ 128 (218)
T PF05891_consen 55 KFNRALDCGAGIGRVTKGLLLPVFD-EVDLVEPVEKFLEQAKEYLGKDNPRVGEFYCVGLQDFTPEEGKYDLIWI 128 (218)
T ss_dssp --SEEEEET-TTTHHHHHTCCCC-S-EEEEEES-HHHHHHHHHHTCCGGCCEEEEEES-GGG----TT-EEEEEE
T ss_pred CcceEEecccccchhHHHHHHHhcC-EeEEeccCHHHHHHHHHHhcccCCCcceEEecCHhhccCCCCcEeEEEe
Confidence 4689999999999999998766532 3445554 455655552 2443 334333333234 34 99985
No 381
>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=68.15 E-value=5.4 Score=36.35 Aligned_cols=47 Identities=21% Similarity=0.367 Sum_probs=34.0
Q ss_pred eEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEEecc
Q 046424 204 QLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC------PGVEHVGGD 252 (266)
Q Consensus 204 ~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD 252 (266)
.++|+=||.|.++..+++..- +++++|. ++.++.|+.+ +.++|+.++
T Consensus 199 ~vlDlycG~G~fsl~la~~~~--~V~gvE~~~~av~~A~~Na~~N~i~n~~f~~~~ 252 (352)
T PF05958_consen 199 DVLDLYCGVGTFSLPLAKKAK--KVIGVEIVEEAVEDARENAKLNGIDNVEFIRGD 252 (352)
T ss_dssp EEEEES-TTTCCHHHHHCCSS--EEEEEES-HHHHHHHHHHHHHTT--SEEEEE--
T ss_pred cEEEEeecCCHHHHHHHhhCC--eEEEeeCCHHHHHHHHHHHHHcCCCcceEEEee
Confidence 799999999999999999876 5777777 4566666542 678888654
No 382
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=67.61 E-value=4.1 Score=25.40 Aligned_cols=39 Identities=15% Similarity=0.207 Sum_probs=22.9
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCC
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYS 88 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g 88 (266)
++.+...+.+ +.|..+||+.+|+ +..-+.++++-....|
T Consensus 7 R~~ii~l~~~----G~s~~~ia~~lgv----s~~Tv~~w~kr~~~~G 45 (50)
T PF13384_consen 7 RAQIIRLLRE----GWSIREIAKRLGV----SRSTVYRWIKRYREEG 45 (50)
T ss_dssp ---HHHHHHH----T--HHHHHHHHTS-----HHHHHHHHT------
T ss_pred HHHHHHHHHC----CCCHHHHHHHHCc----CHHHHHHHHHHccccc
Confidence 4455566655 5899999999999 9999999988766555
No 383
>KOG0822 consensus Protein kinase inhibitor [Cell cycle control, cell division, chromosome partitioning]
Probab=67.56 E-value=14 Score=35.44 Aligned_cols=94 Identities=13% Similarity=0.167 Sum_probs=53.8
Q ss_pred chhccccChhHHHHHHHHHHhcchhhHHHHHHHccCCC--CCceEEEecCCccHHHHHHHHH----CCCCeEEEeec-hH
Q 046424 163 GFAAAAKDERINNLFNQSMHNHTTIVMKEILEIYKGFE--GLNQLVDVAGGLGANLKSIVSK----YPQLRGINFDL-PH 235 (266)
Q Consensus 163 ~~~~~~~~p~~~~~f~~~m~~~~~~~~~~i~~~~~~~~--~~~~vvDVGGG~G~~~~~l~~~----~P~l~~~v~Dl-p~ 235 (266)
-|+.++++|-.=..|++++ ..++++..++-+ ....|.-+|||.|-+..+.+++ +-.++.+.++- |.
T Consensus 334 TYetFEkD~VKY~~Yq~Ai-------~~AL~Drvpd~~a~~~tVimvlGaGRGPLv~~~lkaa~~~~RkVklyavEKNPN 406 (649)
T KOG0822|consen 334 TYETFEKDPVKYDQYQQAI-------LKALLDRVPDESAKTTTVIMVLGAGRGPLVDASLKAAEETDRKVKLYAVEKNPN 406 (649)
T ss_pred hhhhhhccchHHHHHHHHH-------HHHHHhhCcccccCceEEEEEecCCCccHHHHHHHHHHHhcCceEEEEEecCcc
Confidence 4555566664333333322 124444444222 2567778899999987776554 33444444443 55
Q ss_pred HHhhCCCC------CCceEEeccCCCCCCC---CCEE
Q 046424 236 VLKHAPSC------PGVEHVGGDMFVEVPK---GQAI 263 (266)
Q Consensus 236 vi~~a~~~------~ri~~~~gD~f~~~P~---~D~~ 263 (266)
.+-..+.. .||+.+..||.+..|+ .|++
T Consensus 407 AivtL~~~n~~~W~~~Vtii~~DMR~w~ap~eq~DI~ 443 (649)
T KOG0822|consen 407 AIVTLQNRNFECWDNRVTIISSDMRKWNAPREQADII 443 (649)
T ss_pred hhhhhhhhchhhhcCeeEEEeccccccCCchhhccch
Confidence 55444331 7899999999994443 3765
No 384
>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=67.47 E-value=6.6 Score=33.81 Aligned_cols=33 Identities=18% Similarity=0.300 Sum_probs=24.7
Q ss_pred CceEEEecCCccHHHHHHHHHCCC--------CeEEEeech
Q 046424 202 LNQLVDVAGGLGANLKSIVSKYPQ--------LRGINFDLP 234 (266)
Q Consensus 202 ~~~vvDVGGG~G~~~~~l~~~~P~--------l~~~v~Dlp 234 (266)
.-+||++|+|+|.++..+++..-. ++.++++..
T Consensus 19 ~~~ivE~GaG~G~La~diL~~l~~~~p~~~~~~~y~ivE~S 59 (252)
T PF02636_consen 19 PLRIVEIGAGRGTLARDILRYLRKFSPEVYKRLRYHIVEIS 59 (252)
T ss_dssp -EEEEEES-TTSHHHHHHHHHHCCTTHHHHTTCEEEEE-TT
T ss_pred CcEEEEECCCchHHHHHHHHHHHHhChhhhhcceEEEEcCC
Confidence 479999999999999998885443 578888875
No 385
>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=67.47 E-value=6.2 Score=27.89 Aligned_cols=32 Identities=9% Similarity=0.150 Sum_probs=26.6
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHH
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRML 81 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlL 81 (266)
.-|.+.|.+ | ..|+.|||+.+|+ +..-++|.|
T Consensus 9 ~~I~e~l~~-~--~~ti~dvA~~~gv----S~~TVsr~L 40 (80)
T TIGR02844 9 LEIGKYIVE-T--KATVRETAKVFGV----SKSTVHKDV 40 (80)
T ss_pred HHHHHHHHH-C--CCCHHHHHHHhCC----CHHHHHHHh
Confidence 357788888 7 8999999999999 877777754
No 386
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=66.96 E-value=6.6 Score=33.21 Aligned_cols=34 Identities=21% Similarity=0.223 Sum_probs=31.9
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
++|-++||..+|+ ++..+.|+|.-|...|+++..
T Consensus 179 ~lt~~~IA~~lGi----sretlsR~L~~L~~~GlI~~~ 212 (230)
T PRK09391 179 PMSRRDIADYLGL----TIETVSRALSQLQDRGLIGLS 212 (230)
T ss_pred cCCHHHHHHHHCC----CHHHHHHHHHHHHHCCcEEec
Confidence 6889999999999 999999999999999999864
No 387
>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=66.90 E-value=5.7 Score=27.56 Aligned_cols=33 Identities=21% Similarity=0.086 Sum_probs=29.7
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTC 92 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~ 92 (266)
..|..|||+.+|+ ++..++..++.+...|.+.+
T Consensus 32 GlS~kEIAe~LGI----S~~TVk~~l~~~~~~~~~~~ 64 (73)
T TIGR03879 32 GKTASEIAEELGR----TEQTVRNHLKGETKAGGLVK 64 (73)
T ss_pred CCCHHHHHHHHCc----CHHHHHHHHhcCcccchHHH
Confidence 7999999999999 99999999998888887764
No 388
>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=66.86 E-value=5.2 Score=27.10 Aligned_cols=60 Identities=18% Similarity=0.182 Sum_probs=41.8
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
.+-.|.+.|...| +.++-.||..+|++- +..-+.++|.-|...|.|.... + ....|++++
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--GSTATAIAKALGLSV--PKKEVNRVLYRLEKQGKVCKEG-----G-TPPKWSLTE 64 (66)
T ss_dssp HHHHHHHHHHHHT--SSEEEHHHHHHHHTS---HHHHHHHHHHHHHTTSEEEEC-----S-SSTEEEE-H
T ss_pred HHHHHHHHHHhcC--CccHHHHHHHhCcch--hHHHHHHHHHHHHHCCCEeeCC-----C-CCCceEecc
Confidence 4556888998887 566666666666500 4678999999999999999762 1 166777764
No 389
>PRK10736 hypothetical protein; Provisional
Probab=66.02 E-value=7.6 Score=35.74 Aligned_cols=44 Identities=11% Similarity=-0.000 Sum_probs=38.8
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
..|++.|... |.++++|+..+|+ +...+..+|-.|.-.|+++..
T Consensus 311 ~~v~~~l~~~---~~~iD~L~~~~~l----~~~~v~~~L~~LEl~G~v~~~ 354 (374)
T PRK10736 311 PELLANVGDE---VTPVDVVAERAGQ----PVPEVVTQLLELELAGWIAAV 354 (374)
T ss_pred HHHHHhcCCC---CCCHHHHHHHHCc----CHHHHHHHHHHHHhCCcEEEc
Confidence 3577777653 8999999999999 999999999999999999987
No 390
>PRK09462 fur ferric uptake regulator; Provisional
Probab=65.89 E-value=9.7 Score=29.96 Aligned_cols=53 Identities=15% Similarity=0.253 Sum_probs=40.3
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCC-CCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNK-KAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~-~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
-+.-|++.|......+.|++||-+.+.-..| .+..-+.|.|+.|...|++.+.
T Consensus 18 qR~~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli~~~ 71 (148)
T PRK09462 18 PRLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRH 71 (148)
T ss_pred HHHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCEEEE
Confidence 4556888897642238999999998853212 2677889999999999999875
No 391
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=65.88 E-value=10 Score=31.42 Aligned_cols=42 Identities=21% Similarity=0.230 Sum_probs=36.3
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
|.++.++.-++ |+|..||++..|+ +. ..+++-|...|++.+.
T Consensus 93 LEtLaiIay~q--PiTr~eI~~irGv----~~---~~ii~~L~~~gLI~e~ 134 (188)
T PRK00135 93 LEVLAIIAYKQ--PITRIEIDEIRGV----NS---DGALQTLLAKGLIKEV 134 (188)
T ss_pred HHHHHHHHHcC--CcCHHHHHHHHCC----CH---HHHHHHHHHCCCeEEc
Confidence 45678888776 9999999999999 64 7899999999999864
No 392
>PRK10611 chemotaxis methyltransferase CheR; Provisional
Probab=65.86 E-value=17 Score=32.21 Aligned_cols=65 Identities=18% Similarity=0.209 Sum_probs=44.6
Q ss_pred CCceEEEecCCccH----HHHHHHHHCC----CCeEEEeech-HHHhhCCC-----------------------------
Q 046424 201 GLNQLVDVAGGLGA----NLKSIVSKYP----QLRGINFDLP-HVLKHAPS----------------------------- 242 (266)
Q Consensus 201 ~~~~vvDVGGG~G~----~~~~l~~~~P----~l~~~v~Dlp-~vi~~a~~----------------------------- 242 (266)
+.-+|...||++|. .++.+.+..+ +++.+.-|+. .+++.|+.
T Consensus 115 ~~irIWSAgCStGEEpYSlAmll~e~~~~~~~~~~I~atDIs~~aL~~Ar~G~Y~~~~~r~~p~~~~~ryF~~~~~~~~~ 194 (287)
T PRK10611 115 GEYRVWSAAASTGEEPYSIAMTLADTLGTAPGRWKVFASDIDTEVLEKARSGIYRQEELKTLSPQQLQRYFMRGTGPHEG 194 (287)
T ss_pred CCEEEEEccccCCHHHHHHHHHHHHhhcccCCCcEEEEEECCHHHHHHHHhCCCCHHHHhcCCHHHHHHHcccccCCCCc
Confidence 34789999999998 4444555443 3668888994 35554432
Q ss_pred --------CCCceEEeccCCC-CCC--CC-CEEEe
Q 046424 243 --------CPGVEHVGGDMFV-EVP--KG-QAIFM 265 (266)
Q Consensus 243 --------~~ri~~~~gD~f~-~~P--~~-D~~~l 265 (266)
..+|+|..+|+++ ++| .. |+|+-
T Consensus 195 ~~~v~~~lr~~V~F~~~NL~~~~~~~~~~fD~I~c 229 (287)
T PRK10611 195 LVRVRQELANYVDFQQLNLLAKQWAVPGPFDAIFC 229 (287)
T ss_pred eEEEChHHHccCEEEcccCCCCCCccCCCcceeeH
Confidence 0568999999999 555 34 99874
No 393
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=65.44 E-value=8.2 Score=29.75 Aligned_cols=35 Identities=20% Similarity=0.201 Sum_probs=32.2
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNL 94 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~ 94 (266)
=-|+.++|..+++ ++.-+.|..+.|...||+...+
T Consensus 35 LPSvRelA~~~~V----NpnTv~raY~eLE~eG~i~t~r 69 (125)
T COG1725 35 LPSVRELAKDLGV----NPNTVQRAYQELEREGIVETKR 69 (125)
T ss_pred CCcHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEec
Confidence 3589999999999 9999999999999999999873
No 394
>PF13518 HTH_28: Helix-turn-helix domain
Probab=65.19 E-value=9.9 Score=23.62 Aligned_cols=29 Identities=17% Similarity=0.121 Sum_probs=26.7
Q ss_pred CCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCc
Q 046424 57 LSSSEIASQLPTNNKKAPIILDRMLRLLASYSF 89 (266)
Q Consensus 57 ~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~ 89 (266)
.|..++|+.+|+ +...+.+|++.....|+
T Consensus 13 ~s~~~~a~~~gi----s~~tv~~w~~~y~~~G~ 41 (52)
T PF13518_consen 13 ESVREIAREFGI----SRSTVYRWIKRYREGGI 41 (52)
T ss_pred CCHHHHHHHHCC----CHhHHHHHHHHHHhcCH
Confidence 499999999999 99999999999988885
No 395
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=64.64 E-value=9.3 Score=29.23 Aligned_cols=58 Identities=16% Similarity=0.149 Sum_probs=41.6
Q ss_pred hHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcccccC
Q 046424 46 LEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 46 fd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
.+.|.++-..+.|+++||+.+|+ +++.+.|+++-.....+-+.- ..+++......|..
T Consensus 15 ~~~I~~~~~~~~sl~~lA~~~g~----S~~~l~r~Fk~~~G~s~~~~l----------~~~Rl~~A~~~L~~ 72 (127)
T PRK11511 15 LDWIEDNLESPLSLEKVSERSGY----SKWHLQRMFKKETGHSLGQYI----------RSRKMTEIAQKLKE 72 (127)
T ss_pred HHHHHHhcCCCCCHHHHHHHHCc----CHHHHHHHHHHHHCcCHHHHH----------HHHHHHHHHHHHHc
Confidence 34444433238999999999999 999999999998888777764 34555554445543
No 396
>KOG1331 consensus Predicted methyltransferase [General function prediction only]
Probab=64.55 E-value=9.7 Score=33.58 Aligned_cols=55 Identities=24% Similarity=0.138 Sum_probs=39.6
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCCCCceEEeccCCC-CCCC
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSCPGVEHVGGDMFV-EVPK 259 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~~ri~~~~gD~f~-~~P~ 259 (266)
....++|+|||.|.++. .+|.+-.+..|+-. .+..++..+.....-.|+.. |.+.
T Consensus 45 ~gsv~~d~gCGngky~~----~~p~~~~ig~D~c~~l~~~ak~~~~~~~~~ad~l~~p~~~ 101 (293)
T KOG1331|consen 45 TGSVGLDVGCGNGKYLG----VNPLCLIIGCDLCTGLLGGAKRSGGDNVCRADALKLPFRE 101 (293)
T ss_pred CcceeeecccCCcccCc----CCCcceeeecchhhhhccccccCCCceeehhhhhcCCCCC
Confidence 46889999999998764 35999999999976 44444443333677788887 5554
No 397
>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=64.23 E-value=8.5 Score=35.39 Aligned_cols=45 Identities=27% Similarity=0.455 Sum_probs=34.8
Q ss_pred HHHHHHccCCCCCceEEEecCCccH----HHHHHHHHC---CCCeEEEeechH
Q 046424 190 KEILEIYKGFEGLNQLVDVAGGLGA----NLKSIVSKY---PQLRGINFDLPH 235 (266)
Q Consensus 190 ~~i~~~~~~~~~~~~vvDVGGG~G~----~~~~l~~~~---P~l~~~v~Dlp~ 235 (266)
+.|++.+. -.+..+|||+|-|.|. +..+|+++. |.+|.|+++.|.
T Consensus 100 qaIleA~~-g~~~vHIID~~i~~G~QW~~LiqaLa~R~~gpp~LrIT~i~~~~ 151 (374)
T PF03514_consen 100 QAILEAFE-GERRVHIIDFGIGFGVQWPSLIQALASRPGGPPSLRITGIGPPN 151 (374)
T ss_pred HHHHHHhc-cCcceEEEeccCCcchHHHHHHHHHhcCCCCCCeEEEEeccCCC
Confidence 57888877 4577999999999998 444455543 789999999953
No 398
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=63.67 E-value=7.2 Score=32.79 Aligned_cols=34 Identities=15% Similarity=0.054 Sum_probs=32.0
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.|-++||+.+|+ +.+.+.|+|.-|...|+++..
T Consensus 169 ~~t~~~lA~~lG~----sretvsR~L~~L~~~G~I~~~ 202 (226)
T PRK10402 169 HEKHTQAAEYLGV----SYRHLLYVLAQFIQDGYLKKS 202 (226)
T ss_pred cchHHHHHHHHCC----cHHHHHHHHHHHHHCCCEEee
Confidence 5788999999999 999999999999999999976
No 399
>PRK01381 Trp operon repressor; Provisional
Probab=63.59 E-value=9.3 Score=28.15 Aligned_cols=40 Identities=23% Similarity=0.298 Sum_probs=32.4
Q ss_pred HHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhc
Q 046424 40 ATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLAS 86 (266)
Q Consensus 40 a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~ 86 (266)
+.+++|+..|-.+ .+|-.|||+.+|+ +...+.|.-++|..
T Consensus 42 ~~R~~I~~~L~~g---~~sQREIa~~lGv----SiaTITRgsn~Lk~ 81 (99)
T PRK01381 42 GTRVRIVEELLRG---ELSQREIKQELGV----GIATITRGSNSLKT 81 (99)
T ss_pred HHHHHHHHHHHcC---CcCHHHHHHHhCC----ceeeehhhHHHhcc
Confidence 5678999999874 7999999999999 76677776666654
No 400
>PF13814 Replic_Relax: Replication-relaxation
Probab=63.50 E-value=9.7 Score=30.96 Aligned_cols=64 Identities=22% Similarity=0.286 Sum_probs=47.7
Q ss_pred HHhhcCCCCCCHHHHHhhCCCCCCCCcc---hHHHHHHHHhcCCcccccccc-C-CCCccccceecchhcccccC
Q 046424 48 IMAKASPTQLSSSEIASQLPTNNKKAPI---ILDRMLRLLASYSFLTCNLVS-N-KDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 48 ~L~~~g~~~~t~~elA~~~~~~~~~~~~---~l~rlLr~L~~~g~l~~~~~~-~-~~~~~~~~y~~t~~s~~l~~ 117 (266)
.|.... .+|.++|+..+.. +.. .+.+.|+-|...|+|.....- + ..|.....|.+|+.|..++.
T Consensus 3 ~L~~~r--~lt~~Qi~~l~~~----~~~~~~~~~rrL~~L~~~glv~~~~~~~~~~~g~~~~vy~Lt~~G~~~l~ 71 (191)
T PF13814_consen 3 LLARHR--FLTTDQIARLLFP----SSKSERTARRRLKRLRELGLVDRFRRRVGARGGSQPYVYYLTPAGARLLA 71 (191)
T ss_pred hHHHhc--CcCHHHHHHHHcC----CCcchHHHHHHHHHHhhCCcEEeecccccccCCCcceEEEECHHHHHHHH
Confidence 455554 8999999999998 554 799999999999999976320 0 01233567999999887665
No 401
>COG1088 RfbB dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]
Probab=63.48 E-value=16 Score=32.68 Aligned_cols=48 Identities=29% Similarity=0.412 Sum_probs=36.1
Q ss_pred ecCCccH----HHHHHHHHCCCCeEEEeec------hHHHhhCCCCCCceEEeccCCC
Q 046424 208 VAGGLGA----NLKSIVSKYPQLRGINFDL------PHVLKHAPSCPGVEHVGGDMFV 255 (266)
Q Consensus 208 VGGG~G~----~~~~l~~~~P~l~~~v~Dl------p~vi~~a~~~~ri~~~~gD~f~ 255 (266)
|-||.|. +...+++++|+.+++++|- ++.+......+|++|+.+|.-+
T Consensus 5 VTGGaGFIGsnfvr~~~~~~~d~~v~~~DkLTYAgn~~~l~~~~~~~~~~fv~~DI~D 62 (340)
T COG1088 5 VTGGAGFIGSNFVRYILNKHPDDHVVNLDKLTYAGNLENLADVEDSPRYRFVQGDICD 62 (340)
T ss_pred EecCcchHHHHHHHHHHhcCCCceEEEEecccccCCHHHHHhhhcCCCceEEeccccC
Confidence 4577776 5556777899988999997 4444445556899999999875
No 402
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=63.12 E-value=11 Score=27.62 Aligned_cols=34 Identities=18% Similarity=0.165 Sum_probs=29.6
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.++++||+.+++ +++.+.|+++-.....+-+.-
T Consensus 21 ~~~~~~lA~~~~~----S~~~l~r~f~~~~g~s~~~~i 54 (107)
T PRK10219 21 PLNIDVVAKKSGY----SKWYLQRMFRTVTHQTLGDYI 54 (107)
T ss_pred CCCHHHHHHHHCC----CHHHHHHHHHHHHCcCHHHHH
Confidence 8999999999999 999999999988777666653
No 403
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=63.00 E-value=29 Score=29.52 Aligned_cols=50 Identities=20% Similarity=0.256 Sum_probs=43.7
Q ss_pred HHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 38 KSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 38 ~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
....+.+|+..+..+| +.++.|+.+.+++ +..-++-.||.|.+.+.++..
T Consensus 99 ~ns~R~~Iy~~i~~nP--G~~lsEl~~nl~i----~R~TlRyhlriLe~~~li~a~ 148 (240)
T COG3398 99 LNSKRDGIYNYIKPNP--GFSLSELRANLYI----NRSTLRYHLRILESNPLIEAG 148 (240)
T ss_pred hhhhHHHHHHHhccCC--CccHHHHHHhcCC----ChHHHHHHHHHHHhCcchhhh
Confidence 3345668899998887 8999999999999 888999999999999999965
No 404
>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=62.88 E-value=9 Score=30.01 Aligned_cols=35 Identities=17% Similarity=0.282 Sum_probs=27.0
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHH
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLR 82 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr 82 (266)
.|-+.|.++++..+|+.+|++.||+ ++..+.+|+|
T Consensus 34 kV~~yLr~~p~~~ati~eV~e~tgV----s~~~I~~~Ir 68 (137)
T TIGR03826 34 KVYKFLRKHENRQATVSEIVEETGV----SEKLILKFIR 68 (137)
T ss_pred HHHHHHHHCCCCCCCHHHHHHHHCc----CHHHHHHHHH
Confidence 4667777775224899999999999 8887777765
No 405
>PRK10430 DNA-binding transcriptional activator DcuR; Provisional
Probab=62.83 E-value=15 Score=30.92 Aligned_cols=34 Identities=18% Similarity=0.279 Sum_probs=31.9
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.|.++||+.+++ ++.-++..+..|+..|++.+.
T Consensus 178 g~s~~eIA~~l~i----S~~Tv~~~~~~~~~~~~~~~~ 211 (239)
T PRK10430 178 EFSTDELANAVNI----SRVSCRKYLIWLVNCHILFTS 211 (239)
T ss_pred CcCHHHHHHHhCc----hHHHHHHHHHHHHhCCEEEEE
Confidence 7899999999999 999999999999999999654
No 406
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=62.73 E-value=7.2 Score=27.97 Aligned_cols=34 Identities=18% Similarity=0.180 Sum_probs=31.9
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
-+|...||+++++ .-...+++||.|...|++...
T Consensus 41 ~ITps~lserlkI----~~SlAr~~Lr~L~~kG~Ik~V 74 (86)
T PRK09334 41 IVTPYTLASKYGI----KISVAKKVLRELEKRGVLVLY 74 (86)
T ss_pred EEcHHHHHHHhcc----hHHHHHHHHHHHHHCCCEEEE
Confidence 6899999999999 899999999999999999865
No 407
>PLN02668 indole-3-acetate carboxyl methyltransferase
Probab=61.95 E-value=16 Score=33.75 Aligned_cols=34 Identities=24% Similarity=0.285 Sum_probs=24.7
Q ss_pred CCceEEEecCCccHHHHH--------HHHH-------CCCCeEEEeech
Q 046424 201 GLNQLVDVAGGLGANLKS--------IVSK-------YPQLRGINFDLP 234 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~--------l~~~-------~P~l~~~v~Dlp 234 (266)
+.-+|+|+|||+|..+.. +.++ -|++++..=|||
T Consensus 63 ~~~~iaDlGcs~G~ntl~~vs~iI~~i~~~~~~~~~~~pe~qv~~nDLP 111 (386)
T PLN02668 63 VPFTAVDLGCSSGSNTIHIIDVIVKHMSKRYESAGLDPPEFSAFFSDLP 111 (386)
T ss_pred cceeEEEecCCCCccHHHHHHHHHHHHHHHhhhcCCCCCcceEEecCCC
Confidence 466899999999965432 2232 367888888998
No 408
>KOG1562 consensus Spermidine synthase [Amino acid transport and metabolism]
Probab=61.93 E-value=4.3 Score=36.03 Aligned_cols=65 Identities=17% Similarity=0.338 Sum_probs=48.5
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCe-EEEeechH-HHhhCCC----------CCCceEEeccCCC---CCCCC--CE
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLR-GINFDLPH-VLKHAPS----------CPGVEHVGGDMFV---EVPKG--QA 262 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dlp~-vi~~a~~----------~~ri~~~~gD~f~---~~P~~--D~ 262 (266)
.+++.++-||||.|.+++...+. +.+. ..+.|.-+ |++..+. .+||....||=|. ..+.+ |+
T Consensus 120 ~npkkvlVVgggDggvlrevikH-~~ve~i~~~eiD~~Vie~sk~y~p~la~gy~~~~v~l~iGDG~~fl~~~~~~~~dV 198 (337)
T KOG1562|consen 120 PNPKKVLVVGGGDGGVLREVIKH-KSVENILLCEIDENVIESSKQYLPTLACGYEGKKVKLLIGDGFLFLEDLKENPFDV 198 (337)
T ss_pred CCCCeEEEEecCCccceeeeecc-ccccceeeehhhHHHHHHHHHHhHHHhcccCCCceEEEeccHHHHHHHhccCCceE
Confidence 47899999999999999998887 7665 46667765 5555433 2799999998665 45554 88
Q ss_pred EEe
Q 046424 263 IFM 265 (266)
Q Consensus 263 ~~l 265 (266)
++.
T Consensus 199 ii~ 201 (337)
T KOG1562|consen 199 IIT 201 (337)
T ss_pred EEE
Confidence 764
No 409
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=61.89 E-value=9.3 Score=32.05 Aligned_cols=35 Identities=20% Similarity=0.125 Sum_probs=32.6
Q ss_pred CCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 55 TQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 55 ~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
..++..+||+.+|+ +...++..|+.|...|+|+..
T Consensus 29 ~~L~e~eLae~lgV----SRtpVREAL~~L~~eGlv~~~ 63 (224)
T PRK11534 29 EKLRMSLLTSRYAL----GVGPLREALSQLVAERLVTVV 63 (224)
T ss_pred CcCCHHHHHHHHCC----ChHHHHHHHHHHHHCCCEEEe
Confidence 37899999999999 889999999999999999976
No 410
>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=61.86 E-value=15 Score=23.94 Aligned_cols=36 Identities=19% Similarity=0.371 Sum_probs=28.5
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLAS 86 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~ 86 (266)
+.|.|-+.+ -.|+..+++.+++ ++....++++-|..
T Consensus 4 Lidll~~~P--~Vsa~mva~~L~v----T~~~A~~li~eLg~ 39 (54)
T PF11972_consen 4 LIDLLLSRP--LVSAPMVAKELGV----TPQAAQRLIAELGL 39 (54)
T ss_pred HHHHHHhCc--cccHHHHHHHhCC----CHHHHHHHHHHhhc
Confidence 567777776 7999999999999 88888887655433
No 411
>PRK11642 exoribonuclease R; Provisional
Probab=61.47 E-value=11 Score=38.31 Aligned_cols=49 Identities=24% Similarity=0.242 Sum_probs=37.6
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|++.|...+ .|++..+|++.++++...+...|.+.|+.|...|.+...
T Consensus 23 ~Il~~l~~~~-~~~~~~~L~~~l~l~~~~~~~~l~~~L~~L~~~g~l~~~ 71 (813)
T PRK11642 23 FILEHLTKRE-KPASREELAVELNIEGEEQLEALRRRLRAMERDGQLVFT 71 (813)
T ss_pred HHHHHHHhcC-CCCCHHHHHHHhCCCChHHHHHHHHHHHHHHHCCCEEEc
Confidence 3677776533 499999999999993221235699999999999999865
No 412
>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=61.24 E-value=15 Score=31.97 Aligned_cols=55 Identities=22% Similarity=0.203 Sum_probs=41.9
Q ss_pred CCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCC---------CCCCceEEeccCCC
Q 046424 200 EGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAP---------SCPGVEHVGGDMFV 255 (266)
Q Consensus 200 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~---------~~~ri~~~~gD~f~ 255 (266)
++...||.+|||-=.....+... ++++.+=+|+|+|++.-+ ...++++++.|+.+
T Consensus 80 ~g~~qvV~LGaGlDTr~~Rl~~~-~~~~~~EvD~P~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~~ 143 (260)
T TIGR00027 80 AGIRQVVILGAGLDTRAYRLPWP-DGTRVFEVDQPAVLAFKEKVLAELGAEPPAHRRAVPVDLRQ 143 (260)
T ss_pred cCCcEEEEeCCccccHHHhcCCC-CCCeEEECCChHHHHHHHHHHHHcCCCCCCceEEeccCchh
Confidence 35678999999998888877322 268889999999887422 13689999999974
No 413
>PRK12423 LexA repressor; Provisional
Probab=61.05 E-value=14 Score=30.80 Aligned_cols=35 Identities=17% Similarity=0.168 Sum_probs=30.5
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+-|..|||+.+|+. ++..++..|+.|...|+++..
T Consensus 25 ~Ps~~eia~~~g~~---s~~~v~~~l~~L~~~G~l~~~ 59 (202)
T PRK12423 25 PPSLAEIAQAFGFA---SRSVARKHVQALAEAGLIEVV 59 (202)
T ss_pred CCCHHHHHHHhCCC---ChHHHHHHHHHHHHCCCEEec
Confidence 56999999999941 666789999999999999986
No 414
>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=60.88 E-value=6.7 Score=29.52 Aligned_cols=66 Identities=23% Similarity=0.369 Sum_probs=46.6
Q ss_pred HHhhChhHHHhhcCCCCCCHHHHHhhCCCCC-CCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 40 ATELGLLEIMAKASPTQLSSSEIASQLPTNN-KKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 40 a~~lglfd~L~~~g~~~~t~~elA~~~~~~~-~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
..+.-|++.|.+.+ .+.|++||-+.+.-.. ..+..-+.|.|+.|...|++.+... .++ ...|..+.
T Consensus 8 ~~R~~Il~~l~~~~-~~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~~~~--~~~--~~~Y~~~~ 74 (120)
T PF01475_consen 8 PQRLAILELLKESP-EHLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRKIEF--GDG--ESRYELST 74 (120)
T ss_dssp HHHHHHHHHHHHHS-SSEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEE--TTS--EEEEEESS
T ss_pred HHHHHHHHHHHcCC-CCCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEEEEc--CCC--cceEeecC
Confidence 34566888998865 3999999999885321 1266678999999999999998731 122 45677664
No 415
>PRK13239 alkylmercury lyase; Provisional
Probab=60.65 E-value=9.7 Score=32.00 Aligned_cols=41 Identities=20% Similarity=0.235 Sum_probs=32.4
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcC
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASY 87 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~ 87 (266)
+..-|+..|..+. |.|..+||+.+|. +...+++.|+.|...
T Consensus 23 ~~~~llr~la~G~--pvt~~~lA~~~~~----~~~~v~~~L~~l~~~ 63 (206)
T PRK13239 23 LLVPLLRLLAKGR--PVSVTTLAAALGW----PVEEVEAVLEAMPDT 63 (206)
T ss_pred HHHHHHHHHHcCC--CCCHHHHHHHhCC----CHHHHHHHHHhCCCe
Confidence 4445677788653 9999999999999 888888888887544
No 416
>PHA02591 hypothetical protein; Provisional
Probab=60.60 E-value=12 Score=26.22 Aligned_cols=31 Identities=23% Similarity=0.251 Sum_probs=24.7
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHH
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLR 82 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr 82 (266)
+-..|.+. ++|.++||+.+|+ +.+.+++.|+
T Consensus 51 vA~eL~eq---GlSqeqIA~~LGV----sqetVrKYL~ 81 (83)
T PHA02591 51 VTHELARK---GFTVEKIASLLGV----SVRKVRRYLE 81 (83)
T ss_pred HHHHHHHc---CCCHHHHHHHhCC----CHHHHHHHHh
Confidence 34456665 6999999999999 8888887775
No 417
>COG0640 ArsR Predicted transcriptional regulators [Transcription]
Probab=60.43 E-value=15 Score=25.63 Aligned_cols=53 Identities=19% Similarity=0.347 Sum_probs=44.6
Q ss_pred HHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 35 MTIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 35 ~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.++.....+.++..|.... +.++.+|+..+++ +...+.+-|..|...|+++..
T Consensus 20 ~~l~~~~r~~il~~l~~~~--~~~~~~l~~~~~~----~~~~v~~hL~~L~~~glv~~~ 72 (110)
T COG0640 20 KALADPTRLEILSLLAEGG--ELTVGELAEALGL----SQSTVSHHLKVLREAGLVELR 72 (110)
T ss_pred HHhCCHHHHHHHHHHHhcC--CccHHHHHHHHCC----ChhHHHHHHHHHHHCCCeEEE
Confidence 3444457778888887743 7899999999999 999999999999999999986
No 418
>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=59.95 E-value=23 Score=31.72 Aligned_cols=62 Identities=18% Similarity=0.282 Sum_probs=40.4
Q ss_pred HHHHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCC--CCeEEEeechHH
Q 046424 175 NLFNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYP--QLRGINFDLPHV 236 (266)
Q Consensus 175 ~~f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P--~l~~~v~Dlp~v 236 (266)
....+.+..........+.+.+..+++..+|+=+|||.-.+...+.+.+| +-++++.|-|+.
T Consensus 246 ~~v~~~i~~~~~~l~~~i~~~~~~~~~~~~I~~vGGGA~ll~~~Ik~~~~~~~~~i~i~~~pqf 309 (318)
T PF06406_consen 246 DDVSEVIEEAVEELINRILRELGDFSDIDRIFFVGGGAILLKDAIKEAFPVPNERIVIVDDPQF 309 (318)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTS-S-SEEEEESTTHHHHHHHHHHHHT--GGGEE--SSGGG
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhccCCeEEEECCcHHHHHHHHHHhhCCCCCcEEECCCchh
Confidence 33444444443333344555544466778899999999999999999987 567899998874
No 419
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=59.93 E-value=13 Score=30.62 Aligned_cols=44 Identities=11% Similarity=0.129 Sum_probs=38.0
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+.+.|..++ ..|+.+||.++|+ +...+.|.|.-|...|.|...
T Consensus 17 ~~~~~l~~~~--~~~a~~i~~~l~~----~k~~vNr~LY~l~~~~~v~~~ 60 (183)
T PHA03103 17 KEVKNLGLGE--GITAIEISRKLNI----EKSEVNKQLYKLQREGMVYMS 60 (183)
T ss_pred HHHHHhccCC--CccHHHHHHHhCC----CHHHHHHHHHHHHhcCceecC
Confidence 3456677765 8999999999999 888999999999999999865
No 420
>TIGR02719 repress_PhaQ poly-beta-hydroxybutyrate-responsive repressor. Members of this family are transcriptional regulatory proteins found in the vicinity of poly-beta-hydroxybutyrate (PHB) operons in several species of Bacillus. This protein appears to have repressor activity modulated by PHB itself. This protein belongs to the larger PadR family (see pfam03551).
Probab=59.69 E-value=29 Score=27.22 Aligned_cols=82 Identities=17% Similarity=0.172 Sum_probs=55.1
Q ss_pred hHHHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCC--CCCCcchHHHHHHHHhcCCccccccccCCCCccccceecc
Q 046424 32 VLPMTIKSATELGLLEIMAKASPTQLSSSEIASQLPTN--NKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLT 109 (266)
Q Consensus 32 ~~~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~--~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t 109 (266)
+.++..+-..++=|+..|... |.+--+|.+.+.-. ...++..+.++|+-|...|+|+........|...-.|++|
T Consensus 16 ~~~ql~kg~l~~~IL~~L~~~---p~hGYeI~q~l~~~g~~~v~~GtLYp~L~RLE~~GlI~~~~~~~~~gp~RK~Y~LT 92 (138)
T TIGR02719 16 QINGAPKNFLVPFLLLCLKDW---NLHGYKLIQMLMDFGFSSVDQGNVYRTLRKLEKDNLISSQWDTSAEGPAKRIYSLT 92 (138)
T ss_pred HHHHHHHHHHHHHHHHHHccC---CCCHHHHHHHHHHcCCCCCCcChHHHHHHHHHHCCCEEEEeeecCCCCCcEEEEEC
Confidence 335667777788888888774 77877777665320 1227788999999999999998632111122223458899
Q ss_pred hhccccc
Q 046424 110 PVSKYFV 116 (266)
Q Consensus 110 ~~s~~l~ 116 (266)
+.|+..+
T Consensus 93 e~Gr~~L 99 (138)
T TIGR02719 93 DAGEQYL 99 (138)
T ss_pred HHHHHHH
Confidence 9887544
No 421
>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=59.57 E-value=7.8 Score=26.55 Aligned_cols=66 Identities=18% Similarity=0.299 Sum_probs=43.5
Q ss_pred hHHHhhcCCCCCCHHHHHhhCCCC--C--CCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccc
Q 046424 46 LEIMAKASPTQLSSSEIASQLPTN--N--KKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKY 114 (266)
Q Consensus 46 fd~L~~~g~~~~t~~elA~~~~~~--~--~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~ 114 (266)
+-.|.. + |.+.-+|.+.+.-. . +.++..+...|+-|...|+++.......+|.....|++|+.++.
T Consensus 2 L~~L~~-~--~~~Gyei~~~l~~~~~~~~~i~~g~lY~~L~~Le~~gli~~~~~~~~~~~~rk~Y~iT~~G~~ 71 (75)
T PF03551_consen 2 LGLLSE-G--PMHGYEIKQELEERTGGFWKISPGSLYPALKRLEEEGLIESRWEEEGNGRPRKYYRITEKGRE 71 (75)
T ss_dssp HHHHHH-S---EEHHHHHHHHHHCSTTTEETTHHHHHHHHHHHHHTTSEEEEEEEETTSSEEEEEEESHHHHH
T ss_pred hhhhcc-C--CCcHHHHHHHHHHHhCCCcccChhHHHHHHHHHHhCCCEEEeeeccCCCCCCEEEEECHHHHH
Confidence 445655 3 78888887776431 0 12788899999999999999976322112333455999988764
No 422
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=59.16 E-value=13 Score=22.85 Aligned_cols=23 Identities=30% Similarity=0.368 Sum_probs=15.7
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHH
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLR 82 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr 82 (266)
+.|..+||+.+|. ++.-+.+.|+
T Consensus 20 G~s~~~IA~~lg~----s~sTV~relk 42 (44)
T PF13936_consen 20 GMSIREIAKRLGR----SRSTVSRELK 42 (44)
T ss_dssp ---HHHHHHHTT------HHHHHHHHH
T ss_pred CCCHHHHHHHHCc----CcHHHHHHHh
Confidence 6999999999999 8888877764
No 423
>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=58.86 E-value=10 Score=33.30 Aligned_cols=34 Identities=15% Similarity=0.228 Sum_probs=31.8
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHH-HHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLR-LLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr-~L~~~g~l~~~ 93 (266)
+.++++||+.+|. ++..+.++++ .|+..|++..+
T Consensus 255 ~~~~~~ia~~lg~----~~~~~~~~~e~~Li~~~li~~~ 289 (305)
T TIGR00635 255 PVGLKTLAAALGE----DADTIEDVYEPYLLQIGFLQRT 289 (305)
T ss_pred cccHHHHHHHhCC----CcchHHHhhhHHHHHcCCcccC
Confidence 8999999999999 9999999999 79999999865
No 424
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=58.83 E-value=14 Score=29.82 Aligned_cols=53 Identities=19% Similarity=0.272 Sum_probs=41.4
Q ss_pred HHhhChhHHHhhcCCCCCCHHHHHhhCCCCCC-CCcchHHHHHHHHhcCCccccc
Q 046424 40 ATELGLLEIMAKASPTQLSSSEIASQLPTNNK-KAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 40 a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~-~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
-.+.-|++.|...+ +++|+++|.+.+.-..| .+..-+.|.|+.|...|+|.+.
T Consensus 26 ~qR~~IL~~l~~~~-~hlSa~eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv~~~ 79 (169)
T PRK11639 26 PQRLEVLRLMSLQP-GAISAYDLLDLLREAEPQAKPPTVYRALDFLLEQGFVHKV 79 (169)
T ss_pred HHHHHHHHHHHhcC-CCCCHHHHHHHHHhhCCCCCcchHHHHHHHHHHCCCEEEE
Confidence 35566888887653 48999999999864222 2667789999999999999986
No 425
>KOG4300 consensus Predicted methyltransferase [General function prediction only]
Probab=58.80 E-value=21 Score=30.30 Aligned_cols=63 Identities=24% Similarity=0.241 Sum_probs=37.1
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHh-hC----CC--CCCce-EEeccCCC-C-CCCC--CEEE
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLK-HA----PS--CPGVE-HVGGDMFV-E-VPKG--QAIF 264 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~-~a----~~--~~ri~-~~~gD~f~-~-~P~~--D~~~ 264 (266)
+-..++.||||+|..-. +..--|..++|.+|-.+-.+ .+ .+ ...++ |+.++-=+ + ++.+ |+++
T Consensus 76 ~K~~vLEvgcGtG~Nfk-fy~~~p~~svt~lDpn~~mee~~~ks~~E~k~~~~~~fvva~ge~l~~l~d~s~DtVV 150 (252)
T KOG4300|consen 76 GKGDVLEVGCGTGANFK-FYPWKPINSVTCLDPNEKMEEIADKSAAEKKPLQVERFVVADGENLPQLADGSYDTVV 150 (252)
T ss_pred CccceEEecccCCCCcc-cccCCCCceEEEeCCcHHHHHHHHHHHhhccCcceEEEEeechhcCcccccCCeeeEE
Confidence 34678999999998532 22233567789999864332 22 22 24565 66665544 2 4444 7764
No 426
>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=58.26 E-value=12 Score=30.99 Aligned_cols=34 Identities=21% Similarity=0.274 Sum_probs=32.3
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.++-.+||+.+|+ +...++..|+.|...|+|+..
T Consensus 34 ~L~e~~La~~lgV----SRtpVReAL~~L~~eGlv~~~ 67 (212)
T TIGR03338 34 KLNESDIAARLGV----SRGPVREAFRALEEAGLVRNE 67 (212)
T ss_pred EecHHHHHHHhCC----ChHHHHHHHHHHHHCCCEEEe
Confidence 7899999999999 999999999999999999976
No 427
>PF11994 DUF3489: Protein of unknown function (DUF3489); InterPro: IPR021880 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 84 to 211 amino acids in length. This protein has a single completely conserved residue W that may be functionally important.
Probab=57.52 E-value=20 Score=24.80 Aligned_cols=42 Identities=14% Similarity=0.181 Sum_probs=31.7
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHH--hcCCcccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLL--ASYSFLTC 92 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L--~~~g~l~~ 92 (266)
|.+.|...+ +.|+++|++++|. .+.-++-.|--+ ...|+--.
T Consensus 15 li~mL~rp~--GATi~ei~~atGW----q~HTvRgalsg~~kKklGl~i~ 58 (72)
T PF11994_consen 15 LIAMLRRPE--GATIAEICEATGW----QPHTVRGALSGLLKKKLGLTIT 58 (72)
T ss_pred HHHHHcCCC--CCCHHHHHHhhCC----chhhHHHHHHHHHHHhcCcEEE
Confidence 567776654 8999999999999 777777777766 45566543
No 428
>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=57.35 E-value=11 Score=25.00 Aligned_cols=21 Identities=14% Similarity=0.287 Sum_probs=18.1
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHH
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRM 80 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rl 80 (266)
.++..|||+.+|+ ++.-++++
T Consensus 22 ~i~lkdIA~~Lgv----s~~tIr~W 42 (60)
T PF10668_consen 22 KIKLKDIAEKLGV----SESTIRKW 42 (60)
T ss_pred CccHHHHHHHHCC----CHHHHHHH
Confidence 8999999999999 77776655
No 429
>KOG2165 consensus Anaphase-promoting complex (APC), subunit 2 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=57.24 E-value=12 Score=36.90 Aligned_cols=47 Identities=15% Similarity=0.077 Sum_probs=39.5
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
..|.+|+++.+|+ ++..++|-|......|++.+.... +..+.|++++
T Consensus 616 twt~eelse~l~i----p~~~lrrrL~fWi~~GvL~e~~~~----s~tgt~T~iE 662 (765)
T KOG2165|consen 616 TWTLEELSESLGI----PVPALRRRLSFWIQKGVLREEPII----SDTGTLTVIE 662 (765)
T ss_pred cccHHHHHHHhCC----CHHHHHHHHHHHHHcCeeecCCCC----CCCceeeecc
Confidence 7999999999999 999999999999999999987211 1146777777
No 430
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=57.24 E-value=14 Score=31.08 Aligned_cols=47 Identities=23% Similarity=0.252 Sum_probs=39.0
Q ss_pred CCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 55 TQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 55 ~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
..++..+||+.+|+ +...++..|.-|...|+|+..+ +..+..++++.
T Consensus 38 ~~l~e~~La~~~gv----SrtPVReAL~rL~~eGlv~~~p--------~rG~~V~~~~~ 84 (230)
T COG1802 38 ERLSEEELAEELGV----SRTPVREALRRLEAEGLVEIEP--------NRGAFVAPLSL 84 (230)
T ss_pred CCccHHHHHHHhCC----CCccHHHHHHHHHHCCCeEecC--------CCCCeeCCCCH
Confidence 48999999999999 9999999999999999999872 33455555444
No 431
>COG1565 Uncharacterized conserved protein [Function unknown]
Probab=57.21 E-value=27 Score=31.92 Aligned_cols=59 Identities=17% Similarity=0.262 Sum_probs=39.2
Q ss_pred hhHHHHHHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHH----CC----CCeEEEeech
Q 046424 171 ERINNLFNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSK----YP----QLRGINFDLP 234 (266)
Q Consensus 171 p~~~~~f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~----~P----~l~~~v~Dlp 234 (266)
|+..+.|-+.++.+-... | ..+. -..+-.+|.||.|+|.++.-+++. +| .++..+++..
T Consensus 52 pels~lFGella~~~~~~---w-q~~g-~p~~~~lvEiGaG~G~l~~DiL~~l~~L~P~~~~~~~~~iiE~s 118 (370)
T COG1565 52 PELSQLFGELLAEQFLQL---W-QELG-RPAPLKLVEIGAGRGTLASDILRTLRRLYPELYEALSYYIIEPS 118 (370)
T ss_pred hhHHHHHHHHHHHHHHHH---H-HHhc-CCCCceEEEeCCCcChHHHHHHHHHHHhCHHHHhcceEEEEecC
Confidence 788888887766644321 1 2222 234678999999999988777654 56 5677666664
No 432
>smart00753 PAM PCI/PINT associated module.
Probab=57.06 E-value=26 Score=24.51 Aligned_cols=51 Identities=14% Similarity=0.120 Sum_probs=39.8
Q ss_pred HHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccc
Q 046424 36 TIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTC 92 (266)
Q Consensus 36 ~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~ 92 (266)
......+..++.....-. .++.++||+.+++ +...+++++.-+...|.+.-
T Consensus 6 l~~~~~~~~l~~l~~~y~--~i~~~~i~~~~~l----~~~~vE~~i~~~i~~~~l~~ 56 (88)
T smart00753 6 LQRKIRLTNLLQLSEPYS--SISLSDLAKLLGL----SVPEVEKLVSKAIRDGEISA 56 (88)
T ss_pred HHHHHHHHHHHHHhHHhc--eeeHHHHHHHhCc----CHHHHHHHHHHHHHCCCeEE
Confidence 344455555666665543 8999999999999 88889999999999998874
No 433
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=57.06 E-value=26 Score=24.51 Aligned_cols=51 Identities=14% Similarity=0.120 Sum_probs=39.8
Q ss_pred HHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccc
Q 046424 36 TIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTC 92 (266)
Q Consensus 36 ~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~ 92 (266)
......+..++.....-. .++.++||+.+++ +...+++++.-+...|.+.-
T Consensus 6 l~~~~~~~~l~~l~~~y~--~i~~~~i~~~~~l----~~~~vE~~i~~~i~~~~l~~ 56 (88)
T smart00088 6 LQRKIRLTNLLQLSEPYS--SISLSDLAKLLGL----SVPEVEKLVSKAIRDGEISA 56 (88)
T ss_pred HHHHHHHHHHHHHhHHhc--eeeHHHHHHHhCc----CHHHHHHHHHHHHHCCCeEE
Confidence 344455555666665543 8999999999999 88889999999999998874
No 434
>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=56.84 E-value=7.6 Score=24.29 Aligned_cols=11 Identities=18% Similarity=0.232 Sum_probs=9.1
Q ss_pred CHHHHHhhCCC
Q 046424 58 SSSEIASQLPT 68 (266)
Q Consensus 58 t~~elA~~~~~ 68 (266)
|+.|||+.+|+
T Consensus 1 Ti~dIA~~agv 11 (46)
T PF00356_consen 1 TIKDIAREAGV 11 (46)
T ss_dssp CHHHHHHHHTS
T ss_pred CHHHHHHHHCc
Confidence 57888888888
No 435
>COG3315 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=56.73 E-value=9.9 Score=33.84 Aligned_cols=76 Identities=20% Similarity=0.286 Sum_probs=50.0
Q ss_pred HHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCC-CCeEEEeechHHHhhCC----CC-----CCceEE
Q 046424 180 SMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYP-QLRGINFDLPHVLKHAP----SC-----PGVEHV 249 (266)
Q Consensus 180 ~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp~vi~~a~----~~-----~ri~~~ 249 (266)
++...+.+.=..+.+.++ .+...||=+|||-=.-+-++ .+| .++..=+|+|+|++.=+ +. .+++++
T Consensus 73 ~~a~Rtr~fD~~~~~~~~--~g~~qvViLgaGLDTRayRl--~~~~~~~vfEvD~Pevi~~K~~~l~e~~~~~~~~~~~V 148 (297)
T COG3315 73 FLAARTRYFDDFVRAALD--AGIRQVVILGAGLDTRAYRL--DWPKGTRVFEVDLPEVIEFKKKLLAERGATPPAHRRLV 148 (297)
T ss_pred hHHHHHHHHHHHHHHHHH--hcccEEEEeccccccceeec--CCCCCCeEEECCCcHHHHHHHHHhhhcCCCCCceEEEE
Confidence 455555543333344443 34799999999876655544 344 47788889999998522 22 389999
Q ss_pred eccCCC-CCCC
Q 046424 250 GGDMFV-EVPK 259 (266)
Q Consensus 250 ~gD~f~-~~P~ 259 (266)
+.||++ ++|.
T Consensus 149 a~Dl~~~dw~~ 159 (297)
T COG3315 149 AVDLREDDWPQ 159 (297)
T ss_pred eccccccchHH
Confidence 999995 6654
No 436
>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=55.69 E-value=13 Score=25.76 Aligned_cols=32 Identities=25% Similarity=0.284 Sum_probs=23.8
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLT 91 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~ 91 (266)
..|+.|||+.+++ ++.-+-|+.+-|--.|+-+
T Consensus 34 ~~si~elA~~~~v----S~sti~Rf~kkLG~~gf~e 65 (77)
T PF01418_consen 34 FMSISELAEKAGV----SPSTIVRFCKKLGFSGFKE 65 (77)
T ss_dssp T--HHHHHHHCTS-----HHHHHHHHHHCTTTCHHH
T ss_pred HccHHHHHHHcCC----CHHHHHHHHHHhCCCCHHH
Confidence 6899999999999 8888888888776666543
No 437
>PF14314 Methyltrans_Mon: Virus-capping methyltransferase
Probab=55.63 E-value=24 Score=35.01 Aligned_cols=51 Identities=16% Similarity=0.245 Sum_probs=38.1
Q ss_pred HHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeE---EEeec
Q 046424 181 MHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRG---INFDL 233 (266)
Q Consensus 181 m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~---~v~Dl 233 (266)
++..+.+-.+.++..+. . ..+-.+-+|-|+|.....+++.||+.++ .++++
T Consensus 304 ~ATGAHYKlRsIL~~~~-i-~~~d~l~~GDGSGGita~lLR~~p~sr~iFNSLL~~ 357 (675)
T PF14314_consen 304 LATGAHYKLRSILKNLN-I-KYRDALCGGDGSGGITACLLRMNPTSRGIFNSLLEL 357 (675)
T ss_pred ccccchhhHHHHHHhcC-C-CcceeEEEecCchHHHHHHHHhCcccceeeeccccc
Confidence 44445566678888765 2 3456688899999999999999999997 44554
No 438
>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=55.60 E-value=18 Score=31.16 Aligned_cols=63 Identities=14% Similarity=0.093 Sum_probs=33.6
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCC-----CCceEEeccCCCCCCC---C--CEEE
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSC-----PGVEHVGGDMFVEVPK---G--QAIF 264 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~-----~ri~~~~gD~f~~~P~---~--D~~~ 264 (266)
..+.|+=||-..-. +++++-.++.-+.+|+|+-+ .++-++.. -.|+.+.+|+-+++|. + |+++
T Consensus 44 ~gk~il~lGDDDLt-SlA~al~~~~~~I~VvDiDeRll~fI~~~a~~~gl~i~~~~~DlR~~LP~~~~~~fD~f~ 117 (243)
T PF01861_consen 44 EGKRILFLGDDDLT-SLALALTGLPKRITVVDIDERLLDFINRVAEEEGLPIEAVHYDLRDPLPEELRGKFDVFF 117 (243)
T ss_dssp TT-EEEEES-TT-H-HHHHHHHT--SEEEEE-S-HHHHHHHHHHHHHHT--EEEE---TTS---TTTSS-BSEEE
T ss_pred cCCEEEEEcCCcHH-HHHHHhhCCCCeEEEEEcCHHHHHHHHHHHHHcCCceEEEEecccccCCHHHhcCCCEEE
Confidence 34889999966655 44444455567899999974 66554431 2399999999999996 3 8876
No 439
>KOG2793 consensus Putative N2,N2-dimethylguanosine tRNA methyltransferase [RNA processing and modification]
Probab=55.59 E-value=15 Score=31.82 Aligned_cols=43 Identities=16% Similarity=0.266 Sum_probs=33.4
Q ss_pred CC-CCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCC
Q 046424 199 FE-GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPS 242 (266)
Q Consensus 199 ~~-~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~ 242 (266)
|+ ....+|.+|+|.| +.-.++.......++.-|+|.+++..+.
T Consensus 83 ~~~~~~~vlELGsGtg-lvG~~aa~~~~~~v~ltD~~~~~~~L~~ 126 (248)
T KOG2793|consen 83 FKTKYINVLELGSGTG-LVGILAALLLGAEVVLTDLPKVVENLKF 126 (248)
T ss_pred ccccceeEEEecCCcc-HHHHHHHHHhcceeccCCchhhHHHHHH
Confidence 54 4678999999999 5555556667788999999998887543
No 440
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=55.58 E-value=14 Score=30.84 Aligned_cols=35 Identities=23% Similarity=0.209 Sum_probs=32.4
Q ss_pred CCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 55 TQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 55 ~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
..++..+||+.+|+ +...++.-|+.|...|+|+..
T Consensus 33 ~~L~e~~La~~lgV----SRtpVREAL~~L~~eGLV~~~ 67 (221)
T PRK11414 33 ARLITKNLAEQLGM----SITPVREALLRLVSVNALSVA 67 (221)
T ss_pred CccCHHHHHHHHCC----CchhHHHHHHHHHHCCCEEec
Confidence 37889999999999 889999999999999999976
No 441
>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=55.42 E-value=10 Score=28.27 Aligned_cols=34 Identities=18% Similarity=0.212 Sum_probs=32.3
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
-+|+..||+++++ .-...+++|+.|...|++...
T Consensus 59 ~ITp~~lserlkI----~~SlAr~~Lr~L~~kG~Ik~V 92 (105)
T PF03297_consen 59 LITPSVLSERLKI----NGSLARKALRELESKGLIKPV 92 (105)
T ss_dssp CECHHHHHHHHCC----SCHHHHHHHHHHHHCCSSEEE
T ss_pred EeeHHHHHHhHhh----HHHHHHHHHHHHHHCCCEEEE
Confidence 6899999999999 999999999999999999876
No 442
>PF13578 Methyltransf_24: Methyltransferase domain; PDB: 3SSO_A 3SSN_C 3SSM_D.
Probab=55.27 E-value=7.2 Score=28.40 Aligned_cols=60 Identities=17% Similarity=0.136 Sum_probs=18.4
Q ss_pred EEecCCccHHHHHHHHHCCCC---eEEEeechH----HHhhCCC---CCCceEEeccCCC---CCC-CC-CEEEe
Q 046424 206 VDVAGGLGANLKSIVSKYPQL---RGINFDLPH----VLKHAPS---CPGVEHVGGDMFV---EVP-KG-QAIFM 265 (266)
Q Consensus 206 vDVGGG~G~~~~~l~~~~P~l---~~~v~Dlp~----vi~~a~~---~~ri~~~~gD~f~---~~P-~~-D~~~l 265 (266)
|+||...|..+..+++..+.. +.+.+|..+ +-+.++. .++++++.+|+.+ .++ .. |++++
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 579999999999988887766 478888866 2222322 2689999999865 233 22 66654
No 443
>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=55.25 E-value=15 Score=28.10 Aligned_cols=47 Identities=6% Similarity=0.065 Sum_probs=40.4
Q ss_pred CCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhcc
Q 046424 55 TQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSK 113 (266)
Q Consensus 55 ~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~ 113 (266)
-|.|.++||..++. +...++..|.++...|+++... ++.|..+....
T Consensus 52 ipy~~e~LA~~~~~----~~~~V~~AL~~f~k~glIe~~e--------d~~i~i~~~~~ 98 (121)
T PF09681_consen 52 IPYTAEMLALEFDR----PVDTVRLALAVFQKLGLIEIDE--------DGVIYIPNWEK 98 (121)
T ss_pred CCCcHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEec--------CCeEEeecHHH
Confidence 39999999999999 9999999999999999999861 67777776443
No 444
>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=55.22 E-value=8.8 Score=26.29 Aligned_cols=37 Identities=19% Similarity=0.277 Sum_probs=31.0
Q ss_pred CCCCHHHHHhhC---CCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 55 TQLSSSEIASQL---PTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 55 ~~~t~~elA~~~---~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
..+++.++|+.+ +.. ...+++.-++.+|.+.|++++.
T Consensus 23 ~~i~l~~ia~~l~~~~~k--~~~RRlYDI~NVLealgli~K~ 62 (71)
T PF02319_consen 23 KSISLNEIADKLISENVK--TQRRRLYDIINVLEALGLIEKQ 62 (71)
T ss_dssp TEEEHHHHHHHCHHHCCH--HHCHHHHHHHHHHHHCTSEEEE
T ss_pred CcccHHHHHHHHcccccc--cccchhhHHHHHHHHhCceeec
Confidence 389999999999 651 1467889999999999999985
No 445
>COG0742 N6-adenine-specific methylase [DNA replication, recombination, and repair]
Probab=54.54 E-value=40 Score=27.91 Aligned_cols=64 Identities=14% Similarity=0.088 Sum_probs=45.3
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------CCCceEEeccCCCC------CCCCCEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLP-HVLKHAPS-------CPGVEHVGGDMFVE------VPKGQAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gD~f~~------~P~~D~~~l 265 (266)
...+++|+=+|+|.++.+.+.+.-. +++.+|.. +++..+++ ..+.+++..|-+.- .++-|++++
T Consensus 43 ~g~~~LDlFAGSGaLGlEAlSRGA~-~~~~vE~~~~a~~~l~~N~~~l~~~~~~~~~~~da~~~L~~~~~~~~FDlVfl 120 (187)
T COG0742 43 EGARVLDLFAGSGALGLEALSRGAA-RVVFVEKDRKAVKILKENLKALGLEGEARVLRNDALRALKQLGTREPFDLVFL 120 (187)
T ss_pred CCCEEEEecCCccHhHHHHHhCCCc-eEEEEecCHHHHHHHHHHHHHhCCccceEEEeecHHHHHHhcCCCCcccEEEe
Confidence 3589999999999999999999765 67888885 24443332 26788888777741 112388775
No 446
>PF14502 HTH_41: Helix-turn-helix domain
Probab=54.54 E-value=21 Score=22.63 Aligned_cols=34 Identities=12% Similarity=0.140 Sum_probs=31.6
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
-.|++|+++++++ +..-++.-|..|...|.+.-.
T Consensus 6 i~tI~e~~~~~~v----s~GtiQ~Alk~Le~~gaI~Le 39 (48)
T PF14502_consen 6 IPTISEYSEKFGV----SRGTIQNALKFLEENGAIKLE 39 (48)
T ss_pred cCCHHHHHHHhCc----chhHHHHHHHHHHHCCcEEee
Confidence 5789999999999 999999999999999999876
No 447
>PF04433 SWIRM: SWIRM domain; InterPro: IPR007526 The SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in eukaryotic chromosomal proteins. It is named after the proteins SWI3, RSC8 and MOIRA in which it was first recognised. This domain is predicted to mediate protein-protein interactions in the assembly of chromatin-protein complexes. The SWIRM domain can be linked to different domains, such as the ZZ-type zinc finger (IPR000433 from INTERPRO), the Myb DNA-binding domain (IPR001005 from INTERPRO), the HORMA domain (IPR003511 from INTERPRO), the amino-oxidase domain, the chromo domain (IPR000953 from INTERPRO), and the JAB1/PAD1 domain.; GO: 0005515 protein binding; PDB: 2Z3Y_A 2UXN_A 2Y48_A 2HKO_A 2XAF_A 2X0L_A 2XAJ_A 2UXX_A 2V1D_A 2L3D_A ....
Probab=54.38 E-value=49 Score=23.28 Aligned_cols=54 Identities=9% Similarity=0.105 Sum_probs=42.9
Q ss_pred HHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCC-CCCCCCcchHHHHHHHHhcCCccc
Q 046424 34 PMTIKSATELGLLEIMAKASPTQLSSSEIASQLP-TNNKKAPIILDRMLRLLASYSFLT 91 (266)
Q Consensus 34 ~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~-~~~~~~~~~l~rlLr~L~~~g~l~ 91 (266)
....+..++-.|+.....++.+.+|..+.-+.+. . +...+.|+.+.|...|++.
T Consensus 31 ~p~~Yl~iRn~il~~w~~n~~~~lt~~~~~~~i~~~----d~~~~~ri~~FL~~~G~IN 85 (86)
T PF04433_consen 31 TPEQYLKIRNTILAEWRKNPNKYLTKTDARKLIKGI----DVNKIRRIYDFLERWGLIN 85 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTS---HHHHHHHTTSS----SHHHHHHHHHHHHHTTSSS
T ss_pred ChHHHHHHHHHHHHHHHHCCCCcccHHHHHHHcccc----CHHHHHHHHHHHHHcCccC
Confidence 5568888888888886555445899999999998 8 9999999999999999874
No 448
>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=54.36 E-value=14 Score=30.24 Aligned_cols=33 Identities=21% Similarity=0.240 Sum_probs=30.8
Q ss_pred CCHHHHHhhC-CCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 57 LSSSEIASQL-PTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 57 ~t~~elA~~~-~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|-.+||+.+ |+ ++.-++|.++.|+..|++...
T Consensus 71 pSN~~La~r~~G~----s~~tlrR~l~~LveaGLI~rr 104 (177)
T PF03428_consen 71 PSNAQLAERLNGM----SERTLRRHLARLVEAGLIVRR 104 (177)
T ss_pred cCHHHHHHHHcCC----CHHHHHHHHHHHHHCCCeeec
Confidence 5679999999 99 999999999999999999975
No 449
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=53.97 E-value=14 Score=24.87 Aligned_cols=30 Identities=20% Similarity=0.293 Sum_probs=24.4
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSF 89 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~ 89 (266)
+.|+++||+.+|+ ++..+.++++.......
T Consensus 1 ~~~~~~la~~~~~----s~~~l~~~f~~~~~~s~ 30 (84)
T smart00342 1 PLTLEDLAEALGM----SPRHLQRLFKKETGTTP 30 (84)
T ss_pred CCCHHHHHHHhCC----CHHHHHHHHHHHhCcCH
Confidence 4689999999999 99999998887654443
No 450
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=53.90 E-value=15 Score=28.91 Aligned_cols=52 Identities=23% Similarity=0.310 Sum_probs=41.7
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCC-CCCCcchHHHHHHHHhcCCccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTN-NKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~-~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
-++.|+++|.+++ ++.|+++|=+.+.-. ++++..-+.|.|+.|...|+|.+.
T Consensus 22 qR~~vl~~L~~~~-~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv~~~ 74 (145)
T COG0735 22 QRLAVLELLLEAD-GHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLVHRL 74 (145)
T ss_pred HHHHHHHHHHhcC-CCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEEEE
Confidence 4566899998765 379999998888642 234777899999999999999987
No 451
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=53.83 E-value=6 Score=25.28 Aligned_cols=33 Identities=27% Similarity=0.395 Sum_probs=22.7
Q ss_pred hChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHH
Q 046424 43 LGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDR 79 (266)
Q Consensus 43 lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~r 79 (266)
+.+++.|.+.|..-++..+||+.+|+ ++..+++
T Consensus 15 ~r~L~~l~~~G~~~vSS~~La~~~gi----~~~qVRK 47 (50)
T PF06971_consen 15 LRYLEQLKEEGVERVSSQELAEALGI----TPAQVRK 47 (50)
T ss_dssp HHHHHHHHHTT-SEE-HHHHHHHHTS-----HHHHHH
T ss_pred HHHHHHHHHcCCeeECHHHHHHHHCC----CHHHhcc
Confidence 34566677665457999999999999 7776654
No 452
>KOG3924 consensus Putative protein methyltransferase involved in meiosis and transcriptional silencing (Dot1) [Cell cycle control, cell division, chromosome partitioning; Transcription]
Probab=53.63 E-value=15 Score=33.92 Aligned_cols=72 Identities=14% Similarity=0.182 Sum_probs=45.6
Q ss_pred HHHccCCCCCceEEEecCCccHHHHHHHHHCCCCe---EEEeechHHHhhCCC-------------CCCceEEeccCCCC
Q 046424 193 LEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLR---GINFDLPHVLKHAPS-------------CPGVEHVGGDMFVE 256 (266)
Q Consensus 193 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~---~~v~Dlp~vi~~a~~-------------~~ri~~~~gD~f~~ 256 (266)
++.+. ......++|+|+|.|+....++...-.-+ +-++|-|+-+...+. ...++++.|+|..+
T Consensus 185 ~dEl~-~g~~D~F~DLGSGVGqlv~~~aa~a~~k~svG~eim~~pS~~a~~~~~~~kk~~k~fGk~~~~~~~i~gsf~~~ 263 (419)
T KOG3924|consen 185 VDELK-LGPADVFMDLGSGVGQLVCFVAAYAGCKKSVGFEIMDKPSQCAELNKEEFKKLMKHFGKKPNKIETIHGSFLDP 263 (419)
T ss_pred HHHhc-cCCCCcccCCCcccchhhHHHHHhhccccccceeeecCcHHHHHHHHHHHHHHHHHhCCCcCceeecccccCCH
Confidence 33333 55678999999999997766555443333 344555655544332 13588889999874
Q ss_pred ------CCCCCEEEe
Q 046424 257 ------VPKGQAIFM 265 (266)
Q Consensus 257 ------~P~~D~~~l 265 (266)
+++++++++
T Consensus 264 ~~v~eI~~eatvi~v 278 (419)
T KOG3924|consen 264 KRVTEIQTEATVIFV 278 (419)
T ss_pred HHHHHHhhcceEEEE
Confidence 455666664
No 453
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.46 E-value=13 Score=26.69 Aligned_cols=25 Identities=32% Similarity=0.489 Sum_probs=22.3
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHH
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLL 84 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L 84 (266)
++|.++||+++++ .+..++++|.+-
T Consensus 23 ~LS~~~iA~~Ln~----t~~~lekil~~t 47 (97)
T COG4367 23 PLSDEEIATALNW----TEVKLEKILQVT 47 (97)
T ss_pred cccHHHHHHHhCC----CHHHHHHHHHHh
Confidence 8999999999999 999999888654
No 454
>COG2390 DeoR Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]
Probab=52.27 E-value=14 Score=33.24 Aligned_cols=34 Identities=24% Similarity=0.287 Sum_probs=32.4
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
++|=.|||+++|+ +...+.|+|......|+|+-.
T Consensus 26 gltQ~eIA~~Lgi----SR~~v~rlL~~Ar~~GiV~I~ 59 (321)
T COG2390 26 GLTQSEIAERLGI----SRATVSRLLAKAREEGIVKIS 59 (321)
T ss_pred CCCHHHHHHHhCC----CHHHHHHHHHHHHHCCeEEEE
Confidence 7999999999999 999999999999999999965
No 455
>PRK00215 LexA repressor; Validated
Probab=51.74 E-value=26 Score=28.97 Aligned_cols=35 Identities=26% Similarity=0.340 Sum_probs=31.0
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.|..|||+.+|++ +...+.|+|..|...|+++..
T Consensus 23 ~~s~~ela~~~~~~---~~~tv~~~l~~L~~~g~i~~~ 57 (205)
T PRK00215 23 PPSRREIADALGLR---SPSAVHEHLKALERKGFIRRD 57 (205)
T ss_pred CCCHHHHHHHhCCC---ChHHHHHHHHHHHHCCCEEeC
Confidence 78999999999982 456889999999999999976
No 456
>PF04492 Phage_rep_O: Bacteriophage replication protein O ; InterPro: IPR006497 This entry is represented by the N-terminal domain of Bacteriophage lambda, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0006260 DNA replication
Probab=51.73 E-value=18 Score=26.68 Aligned_cols=34 Identities=18% Similarity=0.165 Sum_probs=32.0
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
-+|..++++.+|+ ++..+.+.+..|+..+++...
T Consensus 54 ~Is~sq~~e~tg~----~~~~V~~al~~Li~~~vI~~~ 87 (100)
T PF04492_consen 54 RISNSQIAEMTGL----SRDHVSKALNELIRRGVIIRD 87 (100)
T ss_pred eeeHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEeC
Confidence 6899999999999 999999999999999999765
No 457
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=51.71 E-value=19 Score=25.39 Aligned_cols=46 Identities=13% Similarity=0.112 Sum_probs=37.5
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVS 112 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s 112 (266)
+.|-++||+++|+ +...+...+..|...|+=.+.. . +.-|++....
T Consensus 19 ~~SGe~La~~Lgi----SRtaVwK~Iq~Lr~~G~~I~s~--~-----~kGY~L~~~~ 64 (79)
T COG1654 19 FVSGEKLAEELGI----SRTAVWKHIQQLREEGVDIESV--R-----GKGYLLPQLP 64 (79)
T ss_pred cccHHHHHHHHCc----cHHHHHHHHHHHHHhCCceEec--C-----CCceeccCcc
Confidence 8999999999999 9999999999999999877652 1 3357776543
No 458
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=51.02 E-value=14 Score=22.27 Aligned_cols=28 Identities=21% Similarity=0.173 Sum_probs=20.6
Q ss_pred CCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccc
Q 046424 57 LSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTC 92 (266)
Q Consensus 57 ~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~ 92 (266)
+|.+|+|+.+|+ +...+.+++ ..|.+..
T Consensus 2 lt~~e~a~~lgi----s~~ti~~~~----~~g~i~~ 29 (49)
T TIGR01764 2 LTVEEAAEYLGV----SKDTVYRLI----HEGELPA 29 (49)
T ss_pred CCHHHHHHHHCC----CHHHHHHHH----HcCCCCe
Confidence 588999999999 777766665 4565543
No 459
>TIGR02063 RNase_R ribonuclease R. This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans.
Probab=50.81 E-value=21 Score=35.84 Aligned_cols=50 Identities=20% Similarity=0.240 Sum_probs=37.8
Q ss_pred ChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 44 GLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 44 glfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.|++.|......|++..+|++.++++...+...+.+.|+.|...|.+...
T Consensus 6 ~il~~l~~~~~~~~~~~~l~~~l~~~~~~~~~~l~~~l~~l~~~g~l~~~ 55 (709)
T TIGR02063 6 LILEFLKSKKGKPISLKELAKAFHLKGADEKKALRKRLRALEDDGLVKKN 55 (709)
T ss_pred HHHHHHHhCCCCCCCHHHHHHHhCCCChHHHHHHHHHHHHHHHCCCEEEc
Confidence 36777765332489999999999992211345699999999999999865
No 460
>PF12692 Methyltransf_17: S-adenosyl-L-methionine methyltransferase; PDB: 3IHT_B.
Probab=50.54 E-value=1e+02 Score=24.64 Aligned_cols=56 Identities=16% Similarity=0.248 Sum_probs=33.2
Q ss_pred HHHHHHHHhcchhhHHHHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeec
Q 046424 175 NLFNQSMHNHTTIVMKEILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL 233 (266)
Q Consensus 175 ~~f~~~m~~~~~~~~~~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl 233 (266)
..|-+-|.+-... .....+.+.+. ..-|+++|=|+|..=-.+.+.+|+-+..|||.
T Consensus 5 Dsfi~RmtaQR~~-L~~a~~~v~~~--~G~VlElGLGNGRTydHLRe~~p~R~I~vfDR 60 (160)
T PF12692_consen 5 DSFIRRMTAQRDC-LNWAAAQVAGL--PGPVLELGLGNGRTYDHLREIFPDRRIYVFDR 60 (160)
T ss_dssp HHHHHHHHHHHHH-HHHHHHHTTT----S-EEEE--TTSHHHHHHHHH--SS-EEEEES
T ss_pred HHHHHHHHHHHHH-HHHHHHHhcCC--CCceEEeccCCCccHHHHHHhCCCCeEEEEee
Confidence 4455555553221 12333444322 36899999999999999999999999999998
No 461
>COG2933 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=50.41 E-value=22 Score=31.19 Aligned_cols=56 Identities=20% Similarity=0.120 Sum_probs=47.9
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechHHHhhCCCCCCceEEeccCCCCCC
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHVLKHAPSCPGVEHVGGDMFVEVP 258 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~~ri~~~~gD~f~~~P 258 (266)
..-.-||+|...|.+.-+|.++ ++.++.+|-....+..-..++|+.+..|=|+-.|
T Consensus 211 ~~M~avDLGAcPGGWTyqLVkr--~m~V~aVDng~ma~sL~dtg~v~h~r~DGfk~~P 266 (358)
T COG2933 211 PGMWAVDLGACPGGWTYQLVKR--NMRVYAVDNGPMAQSLMDTGQVTHLREDGFKFRP 266 (358)
T ss_pred CCceeeecccCCCccchhhhhc--ceEEEEeccchhhhhhhcccceeeeeccCccccc
Confidence 4578899999999999999998 7899999998887776666888888888888666
No 462
>TIGR00331 hrcA heat shock gene repressor HrcA. In Bacillus subtilis, hrcA is the first gene of the dnaK operon and so is itself a heat shock gene.
Probab=50.16 E-value=23 Score=32.13 Aligned_cols=41 Identities=12% Similarity=0.192 Sum_probs=36.3
Q ss_pred HHHhhcCCCCCCHHHHHhh--CCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 47 EIMAKASPTQLSSSEIASQ--LPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 47 d~L~~~g~~~~t~~elA~~--~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
+.+..++ |.+..+|++. +++ ++.-++|-|..|...|++.+.
T Consensus 14 ~~l~~~~--pv~s~~l~~~~~~~v----S~aTiR~d~~~Le~~G~l~~~ 56 (337)
T TIGR00331 14 EYIKTGQ--PVGSKTLLEKYNLGL----SSATIRNDMADLEDLGFIEKP 56 (337)
T ss_pred HHHhcCC--CcCHHHHHhhcCCCC----ChHHHHHHHHHHHHCCCccCC
Confidence 4566655 9999999999 889 888999999999999999986
No 463
>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=50.15 E-value=18 Score=24.79 Aligned_cols=47 Identities=15% Similarity=0.195 Sum_probs=32.1
Q ss_pred CCCHHH---HHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchh
Q 046424 56 QLSSSE---IASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPV 111 (266)
Q Consensus 56 ~~t~~e---lA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~ 111 (266)
++++.+ +.+..|+ ++..++.-|.=|+..|+++..+ .|+ .-.|++|+.
T Consensus 20 ~i~~~~Li~ll~~~Gv----~e~avR~alsRl~~~G~L~~~r----~Gr-~~~Y~Lt~~ 69 (70)
T PF07848_consen 20 WIWVASLIRLLAAFGV----SESAVRTALSRLVRRGWLESER----RGR-RSYYRLTER 69 (70)
T ss_dssp -EEHHHHHHHHCCTT------HHHHHHHHHHHHHTTSEEEEC----CCT-EEEEEE-HH
T ss_pred ceeHHHHHHHHHHcCC----ChHHHHHHHHHHHHcCceeeee----cCc-cceEeeCCC
Confidence 555554 4556688 9999999999999999999873 222 456998874
No 464
>PF12728 HTH_17: Helix-turn-helix domain
Probab=50.06 E-value=15 Score=22.96 Aligned_cols=22 Identities=27% Similarity=0.277 Sum_probs=18.0
Q ss_pred CCHHHHHhhCCCCCCCCcchHHHHHH
Q 046424 57 LSSSEIASQLPTNNKKAPIILDRMLR 82 (266)
Q Consensus 57 ~t~~elA~~~~~~~~~~~~~l~rlLr 82 (266)
+|++|+|+.+|+ +...+.++++
T Consensus 2 lt~~e~a~~l~i----s~~tv~~~~~ 23 (51)
T PF12728_consen 2 LTVKEAAELLGI----SRSTVYRWIR 23 (51)
T ss_pred CCHHHHHHHHCc----CHHHHHHHHH
Confidence 589999999999 8777766664
No 465
>KOG2918 consensus Carboxymethyl transferase [Posttranslational modification, protein turnover, chaperones]
Probab=49.89 E-value=23 Score=31.70 Aligned_cols=41 Identities=22% Similarity=0.425 Sum_probs=37.0
Q ss_pred CCCCceEEEecCCccHHHHHHHHHC--CCCeEEEeechHHHhh
Q 046424 199 FEGLNQLVDVAGGLGANLKSIVSKY--PQLRGINFDLPHVLKH 239 (266)
Q Consensus 199 ~~~~~~vvDVGGG~G~~~~~l~~~~--P~l~~~v~Dlp~vi~~ 239 (266)
+.+...||-+|||.=....+++..+ +.++++=+|.|++++.
T Consensus 85 ~~~~~qivnLGcG~D~l~frL~s~~~~~~~~fievDfp~~~~r 127 (335)
T KOG2918|consen 85 TDGKKQIVNLGAGFDTLYFRLLSSGELDRVKFIEVDFPEVVER 127 (335)
T ss_pred cCCceEEEEcCCCccchhhhhhccCCCCcceEEEecCcHHHHH
Confidence 4578999999999999999999998 8899999999998774
No 466
>COG0500 SmtA SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]
Probab=49.80 E-value=26 Score=25.66 Aligned_cols=50 Identities=22% Similarity=0.246 Sum_probs=31.2
Q ss_pred EEEecCCccHHHHHHHHHCCC-CeEEEeechH-HHhhCCCC---CC---ceEEeccCCC
Q 046424 205 LVDVAGGLGANLKSIVSKYPQ-LRGINFDLPH-VLKHAPSC---PG---VEHVGGDMFV 255 (266)
Q Consensus 205 vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dlp~-vi~~a~~~---~r---i~~~~gD~f~ 255 (266)
++|+|||.|... .+....+. ...+.+|... .+...... .. +.+..+|...
T Consensus 52 ~ld~~~g~g~~~-~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 109 (257)
T COG0500 52 VLDIGCGTGRLA-LLARLGGRGAYVVGVDLSPEMLALARARAEGAGLGLVDFVVADALG 109 (257)
T ss_pred eEEecCCcCHHH-HHHHhCCCCceEEEEeCCHHHHHHHHhhhhhcCCCceEEEEecccc
Confidence 999999999977 44444443 3667778754 33332211 11 5778787765
No 467
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=49.16 E-value=31 Score=21.41 Aligned_cols=35 Identities=17% Similarity=0.215 Sum_probs=26.8
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHH
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRL 83 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~ 83 (266)
++.-|...+.. ..|..+||+.+|+ +..-+.|+++-
T Consensus 16 ~~~~i~~~~~~----~~s~~~vA~~~~v----s~~TV~ri~~~ 50 (52)
T PF13542_consen 16 LEQYILKLLRE----SRSFKDVARELGV----SWSTVRRIFDR 50 (52)
T ss_pred HHHHHHHHHhh----cCCHHHHHHHHCC----CHHHHHHHHHh
Confidence 34445666654 4699999999999 99989888764
No 468
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=49.08 E-value=19 Score=30.76 Aligned_cols=34 Identities=21% Similarity=0.260 Sum_probs=31.9
Q ss_pred CC-CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QL-SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~-t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+ +-.+||+.+|+ +...++..|+.|.+.|+|+..
T Consensus 33 ~LpsE~eLa~~lgV----SRtpVREAL~~L~~eGlv~~~ 67 (254)
T PRK09464 33 KLPPERELAKQFDV----SRPSLREAIQRLEAKGLLLRR 67 (254)
T ss_pred cCCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 67 89999999999 999999999999999999976
No 469
>TIGR03329 Phn_aa_oxid putative aminophosphonate oxidoreductase. This clade of sequences are members of the pfam01266 family of FAD-dependent oxidoreductases. Characterized proteins within this family include glycerol-3-phosphate dehydrogenase (1.1.99.5), sarcosine oxidase beta subunit (1.5.3.1) and a number of deaminating amino acid oxidases (1.4.-.-). These genes have been consistently observed in a genomic context including genes for the import and catabolism of 2-aminoethylphosphonate (AEP). If the substrate of this oxidoreductase is AEP itself, then it is probably acting in the manner of a deaminating oxidase, resulting in the same product (phosphonoacetaldehyde) as the transaminase PhnW (TIGR02326), but releasing ammonia instead of coupling to pyruvate:alanine. Alternatively, it is reasonable to suppose that the various ABC cassette transporters which are also associated with these loci allow the import of phosphonates closely related to AEP which may not be substrates for PhnW.
Probab=48.89 E-value=20 Score=33.71 Aligned_cols=34 Identities=21% Similarity=0.243 Sum_probs=27.4
Q ss_pred ceEEEecCC-ccHHHH-HHHHHCCCCeEEEeechHH
Q 046424 203 NQLVDVAGG-LGANLK-SIVSKYPQLRGINFDLPHV 236 (266)
Q Consensus 203 ~~vvDVGGG-~G~~~~-~l~~~~P~l~~~v~Dlp~v 236 (266)
..|+-|||| +|..+. .|+++.|..+++|+|--.+
T Consensus 25 ~DVvIIGgGi~Gls~A~~La~~~~G~~V~vlE~~~~ 60 (460)
T TIGR03329 25 ADVCIVGGGFTGLWTAIMIKQQRPALDVLVLEADLC 60 (460)
T ss_pred eCEEEECCCHHHHHHHHHHHHhCCCCeEEEEeCCcc
Confidence 468999999 788555 6888889999999997544
No 470
>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=48.79 E-value=20 Score=31.92 Aligned_cols=56 Identities=14% Similarity=0.102 Sum_probs=33.0
Q ss_pred CCceEEEecCCccH-HHHHHHHHCCCCeEEEeech-HHHhhCCC--------CCCceEEe----ccCCCCC
Q 046424 201 GLNQLVDVAGGLGA-NLKSIVSKYPQLRGINFDLP-HVLKHAPS--------CPGVEHVG----GDMFVEV 257 (266)
Q Consensus 201 ~~~~vvDVGGG~G~-~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~--------~~ri~~~~----gD~f~~~ 257 (266)
...+.+|||.|.-. |.+--++.| +.+++.-|+. ..++.|+. .+||+++. .++|..+
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 36799999999875 555555555 8999999995 35555443 26888863 3677643
No 471
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=48.74 E-value=13 Score=34.44 Aligned_cols=64 Identities=14% Similarity=0.104 Sum_probs=49.4
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeechH-HHhhCCCC--------CCceEEeccCCCC----CCC--C-CEEE
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPH-VLKHAPSC--------PGVEHVGGDMFVE----VPK--G-QAIF 264 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~--------~ri~~~~gD~f~~----~P~--~-D~~~ 264 (266)
..++|||+=|=+|.++...+..-.. ++|.+|+.. .++-++++ .++.++.+|.|+- ... . |+|+
T Consensus 217 ~GkrvLNlFsYTGgfSv~Aa~gGA~-~vt~VD~S~~al~~a~~N~~LNg~~~~~~~~i~~Dvf~~l~~~~~~g~~fDlIi 295 (393)
T COG1092 217 AGKRVLNLFSYTGGFSVHAALGGAS-EVTSVDLSKRALEWARENAELNGLDGDRHRFIVGDVFKWLRKAERRGEKFDLII 295 (393)
T ss_pred cCCeEEEecccCcHHHHHHHhcCCC-ceEEEeccHHHHHHHHHHHHhcCCCccceeeehhhHHHHHHHHHhcCCcccEEE
Confidence 4689999999999999988877331 689999975 66666542 6799999999983 232 3 8888
Q ss_pred e
Q 046424 265 M 265 (266)
Q Consensus 265 l 265 (266)
+
T Consensus 296 l 296 (393)
T COG1092 296 L 296 (393)
T ss_pred E
Confidence 6
No 472
>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=48.67 E-value=23 Score=25.61 Aligned_cols=56 Identities=4% Similarity=0.067 Sum_probs=33.8
Q ss_pred HHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 47 EIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 47 d~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
=++... ..++..|-+.+|+ +.+-+...+.+|...||..+..+.++.+ ..|.|+++.
T Consensus 15 ~li~~~---~~nvp~L~~~TGm----PrRT~Qd~i~aL~~~~I~~~Fvq~G~R~-~~GyY~i~~ 70 (90)
T PF09904_consen 15 YLIDSG---ERNVPALMEATGM----PRRTIQDTIKALPELGIECEFVQDGERN-NAGYYRISD 70 (90)
T ss_dssp HHHHHS----B-HHHHHHHH-------HHHHHHHHHGGGGGT-EEEEE--TTS--S--EEEEEE
T ss_pred HHHhcC---CccHHHHHHHhCC----CHhHHHHHHHHhhcCCeEEEEEecCccC-CCCcEEeee
Confidence 344553 4599999999999 8999999999999999988742222111 256788774
No 473
>COG2524 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]
Probab=48.38 E-value=35 Score=29.79 Aligned_cols=49 Identities=18% Similarity=0.173 Sum_probs=41.7
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVSKY 114 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s~~ 114 (266)
+.-.+|||+.++. +|.-++-.+-.|.++|+++-.. | ..|-|.+|-.+-.
T Consensus 25 ~IKgeeIA~~l~r----npGTVRNqmq~LkaLgLVegvp-----G-PkGGY~PT~kAYe 73 (294)
T COG2524 25 PIKGEEIAEVLNR----NPGTVRNQMQSLKALGLVEGVP-----G-PKGGYKPTSKAYE 73 (294)
T ss_pred CcchHHHHHHHcc----CcchHHHHHHHHHhcCcccccc-----C-CCCCccccHHHHH
Confidence 8999999999999 9999999999999999999762 2 2677999875543
No 474
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=48.20 E-value=20 Score=30.67 Aligned_cols=34 Identities=18% Similarity=0.205 Sum_probs=32.0
Q ss_pred CC-CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QL-SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~-t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+ +-.+||+.+|+ +...++.-|+.|...|+|+..
T Consensus 30 ~LPsE~eLa~~~gV----SRtpVREAL~~L~~eGlV~~~ 64 (251)
T PRK09990 30 ALPSERRLCEKLGF----SRSALREGLTVLRGRGIIETA 64 (251)
T ss_pred cCcCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 78 78899999999 999999999999999999976
No 475
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=48.19 E-value=16 Score=21.85 Aligned_cols=27 Identities=30% Similarity=0.372 Sum_probs=20.2
Q ss_pred CCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccc
Q 046424 57 LSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLT 91 (266)
Q Consensus 57 ~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~ 91 (266)
+|..|+|+.+|+ ++..+.++.+ .|.+.
T Consensus 1 ~s~~e~a~~lgv----s~~tl~~~~~----~g~~~ 27 (49)
T cd04762 1 LTTKEAAELLGV----SPSTLRRWVK----EGKLK 27 (49)
T ss_pred CCHHHHHHHHCc----CHHHHHHHHH----cCCCC
Confidence 478999999999 8777766655 46554
No 476
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=47.98 E-value=14 Score=24.14 Aligned_cols=31 Identities=26% Similarity=0.417 Sum_probs=20.6
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHH
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLR 82 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr 82 (266)
|-..+.+. .+|..+||+.+|+ ++..+.+++.
T Consensus 2 L~~~m~~~---~it~~~La~~~gi----s~~tl~~~~~ 32 (63)
T PF13443_consen 2 LKELMAER---GITQKDLARKTGI----SRSTLSRILN 32 (63)
T ss_dssp HHHHHHHT---T--HHHHHHHHT------HHHHHHHHT
T ss_pred HHHHHHHc---CCCHHHHHHHHCc----CHHHHHHHHh
Confidence 34566676 6899999999999 7777777665
No 477
>PRK13750 replication protein; Provisional
Probab=47.74 E-value=40 Score=29.14 Aligned_cols=56 Identities=18% Similarity=0.092 Sum_probs=40.4
Q ss_pred HHHHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCC-----CCCCcchHHHHHHHHhcCCcccccc
Q 046424 34 PMTIKSATELGLLEIMAKASPTQLSSSEIASQLPTN-----NKKAPIILDRMLRLLASYSFLTCNL 94 (266)
Q Consensus 34 ~~~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~-----~~~~~~~l~rlLr~L~~~g~l~~~~ 94 (266)
..+...+..+++...+. ..|+++||..||++ ..++-....|++..|..+|++....
T Consensus 74 A~lqaMlyh~Ni~S~~V-----~aSIeqLadeCGLST~S~aGnkSITRASR~I~fLEpmGfI~cek 134 (285)
T PRK13750 74 ALLQGLCFHYDPLANRV-----QCSITTLAIECGLATESAAGKLSITRATRALTFLAELGLITYQT 134 (285)
T ss_pred HHHHHHHHHcCcchhHH-----HHHHHHHHHHhCCcccCcCCCcchHHHHHHHHHHHhcCceeeee
Confidence 33444455666666665 46899999999993 1235556788999999999999763
No 478
>PRK03601 transcriptional regulator HdfR; Provisional
Probab=47.73 E-value=20 Score=30.94 Aligned_cols=59 Identities=15% Similarity=0.143 Sum_probs=48.4
Q ss_pred hhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhc---CCccccccccCCCCccccceecchhcccccC
Q 046424 42 ELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLAS---YSFLTCNLVSNKDGSVQRLYGLTPVSKYFVP 117 (266)
Q Consensus 42 ~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~---~g~l~~~~~~~~~~~~~~~y~~t~~s~~l~~ 117 (266)
++.+|..+.+. .++..-|+++++ ++..+.+-++.|.. ..+|.+. ...+.+|+.|+.|..
T Consensus 5 ~l~~f~~v~~~----gs~s~AA~~L~i----sqpavS~~I~~LE~~lG~~LF~R~---------~r~~~lT~~G~~l~~ 66 (275)
T PRK03601 5 LLKTFLEVSRT----RHFGRAAESLYL----TQSAVSFRIRQLENQLGVNLFTRH---------RNNIRLTAAGERLLP 66 (275)
T ss_pred HHHHHHHHHHc----CCHHHHHHHhCC----ChHHHHHHHHHHHHHhCCceEEEC---------CCceEECHhHHHHHH
Confidence 56788888885 489999999999 88899888888875 5677765 567999999998775
No 479
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=47.45 E-value=36 Score=28.95 Aligned_cols=65 Identities=15% Similarity=0.244 Sum_probs=50.9
Q ss_pred HHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchh
Q 046424 36 TIKSATELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPV 111 (266)
Q Consensus 36 ~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~ 111 (266)
.|+-...-.|++.|.+++ +.|.-+||..+|+ +..-+.--+.-|...|++.+++ .|+ .-.|+.||-
T Consensus 170 ~Lkn~~~k~I~~eiq~~~--~~t~~~ia~~l~l----s~aTV~~~lk~l~~~Gii~~~~----~Gr-~iiy~in~s 234 (240)
T COG3398 170 SLKNETSKAIIYEIQENK--CNTNLLIAYELNL----SVATVAYHLKKLEELGIIPEDR----EGR-SIIYSINPS 234 (240)
T ss_pred HhhchhHHHHHHHHhcCC--cchHHHHHHHcCc----cHHHHHHHHHHHHHcCCCcccc----cCc-eEEEEeCHH
Confidence 444555567888998865 8999999999999 8888888899999999999883 222 334777763
No 480
>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=46.77 E-value=43 Score=28.76 Aligned_cols=54 Identities=15% Similarity=0.059 Sum_probs=39.4
Q ss_pred HHHHHHhhChhHHHhhcCCCCCCHHHHHhhCCCC-----CCCCcchHHHHHHHHhcCCcccccc
Q 046424 36 TIKSATELGLLEIMAKASPTQLSSSEIASQLPTN-----NKKAPIILDRMLRLLASYSFLTCNL 94 (266)
Q Consensus 36 ~L~~a~~lglfd~L~~~g~~~~t~~elA~~~~~~-----~~~~~~~l~rlLr~L~~~g~l~~~~ 94 (266)
+...+..+++...+. ..|+++||..||++ ..++-....|++..|..+|++....
T Consensus 68 lqAMlyh~Ni~S~~V-----~aSIeqLadeCGLST~S~aGnkSITRASR~I~fLEpmGfI~cek 126 (275)
T TIGR03474 68 LQGMCFHYDPLANRV-----QRSITNLAIECGLATESKSGNLSITRATRALTFLSELGLITYQT 126 (275)
T ss_pred HHHHHHHcCchhhHH-----HHHHHHHHHHhCCcccCcCCCchhHHHHHHHHHHHhcCceeeee
Confidence 334445666666665 46899999999993 1235556788999999999999763
No 481
>PF05158 RNA_pol_Rpc34: RNA polymerase Rpc34 subunit; InterPro: IPR007832 The family comprises a subunit specific to RNA Pol III, the tRNA specific polymerase. The C34 subunit of Saccharomyces cerevisiae RNA Pol III is part of a subcomplex of three subunits which have no counterpart in the other two nuclear RNA polymerases. This subunit interacts with TFIIIB70 and therefore participates in Pol III recruitment [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2DK8_A 2DK5_A 2YU3_A.
Probab=46.43 E-value=18 Score=32.60 Aligned_cols=45 Identities=13% Similarity=0.252 Sum_probs=38.3
Q ss_pred hhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 45 LLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 45 lfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
|+.++.++|..++-..+|..++++ +...+.+.|+.|.+.+++.+.
T Consensus 89 vy~~I~~ag~~GIw~~~i~~~t~l----~~~~~~k~lk~Le~k~lIK~v 133 (327)
T PF05158_consen 89 VYQLIEEAGNKGIWTKDIKKKTNL----HQTQLTKILKSLESKKLIKSV 133 (327)
T ss_dssp HHHHHHHHTTT-EEHHHHHHHCT------HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHhCCCCCcHHHHHHHcCC----CHHHHHHHHHHHHhCCCEEEe
Confidence 677888877778999999999999 999999999999999999976
No 482
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=46.35 E-value=21 Score=32.39 Aligned_cols=64 Identities=20% Similarity=0.179 Sum_probs=49.5
Q ss_pred CCceEEEecCCccHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEEeccCCC--CC-CCCCEEEe
Q 046424 201 GLNQLVDVAGGLGANLKSIVSKYPQLRGINFDL-PHVLKHAPSC-------PGVEHVGGDMFV--EV-PKGQAIFM 265 (266)
Q Consensus 201 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gD~f~--~~-P~~D~~~l 265 (266)
...+|||.=+|.|-+++.++++-.-- ++..|+ |..++-++++ .+|+.+-||-.+ ++ +.+|-++|
T Consensus 188 ~GE~V~DmFAGVGpfsi~~Ak~g~~~-V~A~diNP~A~~~L~eNi~LN~v~~~v~~i~gD~rev~~~~~~aDrIim 262 (341)
T COG2520 188 EGETVLDMFAGVGPFSIPIAKKGRPK-VYAIDINPDAVEYLKENIRLNKVEGRVEPILGDAREVAPELGVADRIIM 262 (341)
T ss_pred CCCEEEEccCCcccchhhhhhcCCce-EEEEecCHHHHHHHHHHHHhcCccceeeEEeccHHHhhhccccCCEEEe
Confidence 46899999999999999998875543 899999 5566655442 679999999998 33 44577776
No 483
>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=46.11 E-value=23 Score=29.90 Aligned_cols=34 Identities=24% Similarity=0.310 Sum_probs=32.0
Q ss_pred CC-CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QL-SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~-t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+ |-.+||+.+|+ +...++.-|+.|...|+|+..
T Consensus 29 ~LpsE~~La~~lgV----SRtpVREAL~~Le~eGlV~~~ 63 (235)
T TIGR02812 29 ILPAERELSELIGV----TRTTLREVLQRLARDGWLTIQ 63 (235)
T ss_pred cCcCHHHHHHHHCc----CHHHHHHHHHHHHHCCCEEEe
Confidence 68 78999999999 999999999999999999976
No 484
>PRK00082 hrcA heat-inducible transcription repressor; Provisional
Probab=45.83 E-value=34 Score=31.07 Aligned_cols=40 Identities=13% Similarity=0.185 Sum_probs=34.9
Q ss_pred HHhhcCCCCCCHHHHHhh--CCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 48 IMAKASPTQLSSSEIASQ--LPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 48 ~L~~~g~~~~t~~elA~~--~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+..++ |.+..+||+. +++ ++.-+++-|..|...|++++.
T Consensus 19 yi~~~~--pv~s~~l~~~~~l~~----S~aTIR~dm~~Le~~G~l~~~ 60 (339)
T PRK00082 19 YIATGE--PVGSKTLSKRYGLGV----SSATIRNDMADLEELGLLEKP 60 (339)
T ss_pred HHhcCC--CcCHHHHHHHhCCCC----ChHHHHHHHHHHHhCCCcCCC
Confidence 455554 9999999977 889 888999999999999999976
No 485
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=45.73 E-value=23 Score=30.42 Aligned_cols=34 Identities=21% Similarity=0.302 Sum_probs=31.7
Q ss_pred CC-CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QL-SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~-t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+ |-.+||+.+|+ +...++..|+.|.+.|+|+..
T Consensus 32 ~LpsE~eLa~~~gV----SRtpVREAL~~L~~eGlV~~~ 66 (257)
T PRK10225 32 RLPPEREIAEMLDV----TRTVVREALIMLEIKGLVEVR 66 (257)
T ss_pred cCcCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 67 68899999999 999999999999999999976
No 486
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=45.59 E-value=27 Score=29.51 Aligned_cols=34 Identities=24% Similarity=0.310 Sum_probs=31.8
Q ss_pred CC-CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QL-SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~-t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+ |-.+||+.+|+ +-..++.-|+.|...|+|+..
T Consensus 30 ~LPsE~eLae~~gV----SRt~VReAL~~L~~eGlv~~~ 64 (239)
T PRK04984 30 ILPAERELSELIGV----TRTTLREVLQRLARDGWLTIQ 64 (239)
T ss_pred cCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 67 78899999999 999999999999999999976
No 487
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=45.59 E-value=25 Score=30.29 Aligned_cols=42 Identities=17% Similarity=0.183 Sum_probs=36.2
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCC
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYS 88 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g 88 (266)
.+..|.+.|.+.| .+++.|||+.+++ ++.-++|=|+.|...+
T Consensus 8 R~~~I~~~l~~~~--~v~v~eLa~~~~V----S~~TIRRDL~~Le~~~ 49 (252)
T PRK10681 8 RIGQLLQALKRSD--KLHLKDAAALLGV----SEMTIRRDLNAHSAPV 49 (252)
T ss_pred HHHHHHHHHHHcC--CCcHHHHHHHhCC----CHHHHHHHHHHhhcCe
Confidence 3445789998887 9999999999999 9999999999988644
No 488
>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=45.52 E-value=21 Score=26.69 Aligned_cols=52 Identities=27% Similarity=0.351 Sum_probs=40.5
Q ss_pred HhhChhHHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCcccccc
Q 046424 41 TELGLLEIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNL 94 (266)
Q Consensus 41 ~~lglfd~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~ 94 (266)
.|+-|.++|=+.| ++|+.||.+.+.-..+....-+.-+|+-|+..|+|+...
T Consensus 4 ~E~~IM~~lW~~~--~~t~~eI~~~l~~~~~~~~sTv~t~L~rL~~Kg~l~~~~ 55 (115)
T PF03965_consen 4 LELEIMEILWESG--EATVREIHEALPEERSWAYSTVQTLLNRLVEKGFLTREK 55 (115)
T ss_dssp HHHHHHHHHHHHS--SEEHHHHHHHHCTTSS--HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHHhCC--CCCHHHHHHHHHhccccchhHHHHHHHHHHhCCceeEee
Confidence 4667778887776 799999999987621225677899999999999999873
No 489
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=45.49 E-value=21 Score=32.05 Aligned_cols=34 Identities=21% Similarity=0.279 Sum_probs=32.0
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+|=+|||+++|+ +...+.|+|......|+|+-.
T Consensus 29 g~tQ~eIA~~lgi----SR~~VsRlL~~Ar~~GiV~I~ 62 (318)
T PRK15418 29 GLTQSEIGERLGL----TRLKVSRLLEKGRQSGIIRVQ 62 (318)
T ss_pred CCCHHHHHHHhCC----CHHHHHHHHHHHHHcCcEEEE
Confidence 6899999999999 889999999999999999865
No 490
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=45.20 E-value=28 Score=29.82 Aligned_cols=34 Identities=26% Similarity=0.244 Sum_probs=31.5
Q ss_pred CC-CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccc
Q 046424 56 QL-SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCN 93 (266)
Q Consensus 56 ~~-t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~ 93 (266)
.+ +-.+||+.+|+ +...++.-|+.|.+.|+|+..
T Consensus 25 ~LpsE~eLae~~gV----SRtpVREAL~~Le~~GlV~~~ 59 (253)
T PRK10421 25 KLPAERQLAMQLGV----SRNSLREALAKLVSEGVLLSR 59 (253)
T ss_pred cCCCHHHHHHHhCC----CHHHHHHHHHHHHHCCCEEEe
Confidence 67 68899999999 999999999999999999976
No 491
>COG2186 FadR Transcriptional regulators [Transcription]
Probab=44.93 E-value=28 Score=29.79 Aligned_cols=41 Identities=15% Similarity=0.249 Sum_probs=35.4
Q ss_pred CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecc
Q 046424 58 SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLT 109 (266)
Q Consensus 58 t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t 109 (266)
+-.+||+.+|+ +-..++-.|+.|.+.|+|+..+ | .|.|-.+
T Consensus 36 ~EreLae~fgV----SR~~vREAl~~L~a~Glve~r~-----G--~Gt~V~~ 76 (241)
T COG2186 36 SERELAERFGV----SRTVVREALKRLEAKGLVEIRQ-----G--SGTFVRP 76 (241)
T ss_pred CHHHHHHHHCC----CcHHHHHHHHHHHHCCCeeecC-----C--CceEecC
Confidence 57899999999 8889999999999999999863 2 6777754
No 492
>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=44.87 E-value=33 Score=26.20 Aligned_cols=46 Identities=11% Similarity=-0.018 Sum_probs=39.5
Q ss_pred CCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhc
Q 046424 55 TQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVS 112 (266)
Q Consensus 55 ~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s 112 (266)
-|-+.+.||..++. +..-++..|.++...|+++... ++.|.++...
T Consensus 50 ipy~~e~LA~~~~~----~~~~V~~Al~~f~k~glIe~~d--------~g~i~i~~~~ 95 (119)
T TIGR01714 50 APYNAEMLATMFNR----NVGDIRITLQTLESLGLIEKKN--------NGDIFLENWE 95 (119)
T ss_pred CCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEec--------CCcEEehhHH
Confidence 39999999999999 9999999999999999999861 4667777543
No 493
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=44.69 E-value=30 Score=21.29 Aligned_cols=25 Identities=24% Similarity=0.285 Sum_probs=20.4
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHHH
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRLL 84 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~L 84 (266)
+.+..+||+.+++ +...+.+.++-+
T Consensus 18 g~s~~eia~~l~i----s~~tv~~~~~~~ 42 (58)
T smart00421 18 GLTNKEIAERLGI----SEKTVKTHLSNI 42 (58)
T ss_pred CCCHHHHHHHHCC----CHHHHHHHHHHH
Confidence 5899999999999 887777766543
No 494
>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=44.50 E-value=24 Score=29.78 Aligned_cols=41 Identities=20% Similarity=0.229 Sum_probs=35.7
Q ss_pred CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecc
Q 046424 58 SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLT 109 (266)
Q Consensus 58 t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t 109 (266)
|-.|||+..|+ +..-+++-|+.|+..|++...+ | .|.|-..
T Consensus 26 sE~eLa~~~gV----SR~TVR~Al~~L~~eGli~r~~-----G--~GTfV~~ 66 (233)
T TIGR02404 26 SEHELMDQYGA----SRETVRKALNLLTEAGYIQKIQ-----G--KGSIVLN 66 (233)
T ss_pred CHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEeC-----C--ceEEEec
Confidence 78999999999 8889999999999999999874 2 6778643
No 495
>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=44.11 E-value=24 Score=29.71 Aligned_cols=42 Identities=12% Similarity=0.208 Sum_probs=36.1
Q ss_pred CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecch
Q 046424 58 SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTP 110 (266)
Q Consensus 58 t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~ 110 (266)
|-.|||+..|+ +..-+++-|..|+..|++...+ | .|.|-..+
T Consensus 34 sE~eLa~~~~V----SR~TvR~Al~~L~~eGli~r~~-----G--~GtfV~~~ 75 (238)
T TIGR02325 34 AEMQLAERFGV----NRHTVRRAIAALVERGLLRAEQ-----G--RGTFVAAR 75 (238)
T ss_pred CHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEec-----C--CEEEECCC
Confidence 77899999999 8889999999999999999873 2 67777543
No 496
>PF10078 DUF2316: Uncharacterized protein conserved in bacteria (DUF2316); InterPro: IPR018757 Members of this family of hypothetical bacterial proteins have no known function.
Probab=43.98 E-value=29 Score=25.08 Aligned_cols=30 Identities=33% Similarity=0.423 Sum_probs=24.5
Q ss_pred HHHhhcCCCCCCHHHHHhhCCCCCCCCcchHHHHHHH
Q 046424 47 EIMAKASPTQLSSSEIASQLPTNNKKAPIILDRMLRL 83 (266)
Q Consensus 47 d~L~~~g~~~~t~~elA~~~~~~~~~~~~~l~rlLr~ 83 (266)
+.+... .+|.++||+.+++ ++..+.++|.+
T Consensus 17 ~nf~~~---~ls~~~ia~dL~~----s~~~le~vL~l 46 (89)
T PF10078_consen 17 ANFELS---GLSLEQIAADLGT----SPEHLEQVLNL 46 (89)
T ss_pred HHHHHc---CCCHHHHHHHhCC----CHHHHHHHHcC
Confidence 445555 6999999999999 99999888754
No 497
>PRK13917 plasmid segregation protein ParM; Provisional
Probab=43.75 E-value=69 Score=29.01 Aligned_cols=44 Identities=11% Similarity=0.185 Sum_probs=32.1
Q ss_pred HHHHHccCCCCCceEEEecCCccHHHHHHHHHCCCCeEEEeechHH
Q 046424 191 EILEIYKGFEGLNQLVDVAGGLGANLKSIVSKYPQLRGINFDLPHV 236 (266)
Q Consensus 191 ~i~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~v 236 (266)
.+...+..+.+..+|+=+|||.-.+-..|.+.||++ .+.|-|..
T Consensus 281 ~i~~~~~~~~~~d~IiL~GGGA~ll~~~lk~~f~~~--~~~~~p~~ 324 (344)
T PRK13917 281 GFEIAVGNINSFDRVIVTGGGANIFFDSLSHWYSDV--EKADESQF 324 (344)
T ss_pred HHHHHhcccCCCCEEEEECCcHHHHHHHHHHHcCCe--EEcCChHH
Confidence 344444335567889999999999888899999975 66676653
No 498
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=43.56 E-value=19 Score=22.34 Aligned_cols=24 Identities=29% Similarity=0.378 Sum_probs=19.6
Q ss_pred CCCHHHHHhhCCCCCCCCcchHHHHHHH
Q 046424 56 QLSSSEIASQLPTNNKKAPIILDRMLRL 83 (266)
Q Consensus 56 ~~t~~elA~~~~~~~~~~~~~l~rlLr~ 83 (266)
+.|..|||+.+|+ +...++++.+-
T Consensus 20 ~~t~~eIa~~lg~----s~~~V~~~~~~ 43 (50)
T PF04545_consen 20 GLTLEEIAERLGI----SRSTVRRILKR 43 (50)
T ss_dssp T-SHHHHHHHHTS----CHHHHHHHHHH
T ss_pred CCCHHHHHHHHCC----cHHHHHHHHHH
Confidence 7999999999999 88888777654
No 499
>COG5340 Predicted transcriptional regulator [Transcription]
Probab=43.54 E-value=27 Score=29.75 Aligned_cols=46 Identities=22% Similarity=0.327 Sum_probs=40.4
Q ss_pred CCCCHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecchhc
Q 046424 55 TQLSSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLTPVS 112 (266)
Q Consensus 55 ~~~t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t~~s 112 (266)
+-+|+.|+|+..++ ++.-++.++.-|...|.++.-. .|+|..-++-
T Consensus 29 kiiTirdvae~~ev----~~n~lr~lasrLekkG~LeRi~--------rG~YlI~~lp 74 (269)
T COG5340 29 KIITIRDVAETLEV----APNTLRELASRLEKKGWLERIL--------RGRYLIIPLP 74 (269)
T ss_pred ceEEeHHhhhhccC----CHHHHHHHHhhhhhcchhhhhc--------CccEEEeecC
Confidence 48999999999999 8999999999999999999872 7889887753
No 500
>PRK14999 histidine utilization repressor; Provisional
Probab=43.52 E-value=24 Score=29.97 Aligned_cols=43 Identities=21% Similarity=0.298 Sum_probs=36.7
Q ss_pred CC-CHHHHHhhCCCCCCCCcchHHHHHHHHhcCCccccccccCCCCccccceecc
Q 046424 56 QL-SSSEIASQLPTNNKKAPIILDRMLRLLASYSFLTCNLVSNKDGSVQRLYGLT 109 (266)
Q Consensus 56 ~~-t~~elA~~~~~~~~~~~~~l~rlLr~L~~~g~l~~~~~~~~~~~~~~~y~~t 109 (266)
.+ |-.+||+..|+ +..-+++-|..|+..|++...+ | .|.|-..
T Consensus 35 ~LPsE~eLa~~~gV----SR~TVR~Al~~L~~eGli~r~~-----G--kGTfV~~ 78 (241)
T PRK14999 35 RIPSEAELVAQYGF----SRMTINRALRELTDEGWLVRLQ-----G--VGTFVAE 78 (241)
T ss_pred cCCCHHHHHHHHCC----CHHHHHHHHHHHHHCCCEEEec-----C--cEEEECC
Confidence 45 89999999999 8889999999999999999873 2 6777643
Done!