Query 042491
Match_columns 266
No_of_seqs 123 out of 1369
Neff 8.4
Searched_HMMs 46136
Date Fri Mar 29 06:43:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042491.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042491hhsearch_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 6.4E-37 1.4E-41 268.6 20.5 247 10-265 3-251 (342)
2 PF00891 Methyltransf_2: O-met 100.0 3.3E-35 7.2E-40 253.3 14.5 169 95-265 3-173 (241)
3 TIGR02716 C20_methyl_CrtF C-20 100.0 9.3E-34 2E-38 252.5 17.9 216 26-265 3-230 (306)
4 PRK06922 hypothetical protein; 99.0 7.9E-10 1.7E-14 105.8 9.1 111 152-264 378-501 (677)
5 PF12847 Methyltransf_18: Meth 99.0 8.3E-10 1.8E-14 83.3 7.1 71 193-263 2-84 (112)
6 PF08100 Dimerisation: Dimeris 99.0 7E-10 1.5E-14 71.7 3.9 49 28-79 1-51 (51)
7 PF13847 Methyltransf_31: Meth 98.9 4E-09 8.6E-14 84.3 6.9 74 192-265 3-88 (152)
8 PRK14103 trans-aconitate 2-met 98.9 1E-08 2.2E-13 89.1 9.9 83 180-265 19-104 (255)
9 TIGR03587 Pse_Me-ase pseudamin 98.9 8.1E-09 1.8E-13 86.9 8.5 74 191-264 42-119 (204)
10 PRK01683 trans-aconitate 2-met 98.8 2.5E-08 5.5E-13 86.6 10.7 85 179-265 20-108 (258)
11 smart00138 MeTrc Methyltransfe 98.8 9.7E-08 2.1E-12 83.5 12.9 85 179-265 88-218 (264)
12 PRK15451 tRNA cmo(5)U34 methyl 98.8 2.2E-08 4.8E-13 86.6 8.0 74 191-264 55-139 (247)
13 COG2226 UbiE Methylase involve 98.8 2.5E-08 5.3E-13 85.3 8.0 75 192-266 51-135 (238)
14 TIGR02021 BchM-ChlM magnesium 98.8 5.6E-08 1.2E-12 82.4 10.1 110 153-264 16-133 (219)
15 TIGR00740 methyltransferase, p 98.8 1.7E-08 3.7E-13 86.8 6.9 74 191-264 52-136 (239)
16 TIGR02752 MenG_heptapren 2-hep 98.7 4.2E-08 9.1E-13 83.7 8.4 83 181-265 36-129 (231)
17 PF08242 Methyltransf_12: Meth 98.7 4E-09 8.7E-14 78.0 0.8 68 197-264 1-80 (99)
18 PLN02233 ubiquinone biosynthes 98.7 2.1E-07 4.6E-12 81.2 11.2 76 190-265 71-160 (261)
19 smart00828 PKS_MT Methyltransf 98.7 4.8E-08 1E-12 83.0 6.6 72 194-265 1-82 (224)
20 PLN02244 tocopherol O-methyltr 98.7 1.4E-07 3.1E-12 85.3 10.0 74 191-265 117-201 (340)
21 PRK08287 cobalt-precorrin-6Y C 98.6 1.7E-07 3.6E-12 77.6 9.2 77 183-261 24-108 (187)
22 PLN03075 nicotianamine synthas 98.6 9.7E-08 2.1E-12 84.1 8.1 73 191-264 122-208 (296)
23 PRK11207 tellurite resistance 98.6 1E-07 2.2E-12 79.7 7.5 81 180-264 20-109 (197)
24 PRK06202 hypothetical protein; 98.6 3.2E-07 6.9E-12 78.5 10.4 75 191-265 59-144 (232)
25 COG4106 Tam Trans-aconitate me 98.6 7.3E-08 1.6E-12 80.1 5.8 84 179-264 19-106 (257)
26 PRK08317 hypothetical protein; 98.6 2.7E-07 5.8E-12 78.5 9.6 82 182-265 11-102 (241)
27 PTZ00098 phosphoethanolamine N 98.6 1.8E-07 4E-12 81.7 8.2 82 180-264 42-131 (263)
28 PF01209 Ubie_methyltran: ubiE 98.6 1E-07 2.3E-12 81.7 6.5 76 190-265 45-131 (233)
29 PF08241 Methyltransf_11: Meth 98.6 1.6E-07 3.5E-12 67.9 6.4 67 197-264 1-74 (95)
30 PRK05785 hypothetical protein; 98.6 3.8E-07 8.2E-12 77.9 9.6 71 192-265 51-125 (226)
31 PLN02490 MPBQ/MSBQ methyltrans 98.6 2.7E-07 5.9E-12 83.1 8.5 74 192-265 113-193 (340)
32 PRK00216 ubiE ubiquinone/menaq 98.5 8.2E-07 1.8E-11 75.6 11.1 83 181-265 42-136 (239)
33 TIGR02072 BioC biotin biosynth 98.5 3.3E-07 7.2E-12 78.0 8.6 73 192-264 34-112 (240)
34 PF13649 Methyltransf_25: Meth 98.5 9.2E-08 2E-12 71.0 4.2 69 196-264 1-82 (101)
35 PLN02336 phosphoethanolamine N 98.5 3.4E-07 7.5E-12 86.5 9.1 82 181-265 257-347 (475)
36 PRK07580 Mg-protoporphyrin IX 98.5 4.2E-07 9.1E-12 77.3 8.4 73 191-265 62-142 (230)
37 PRK10258 biotin biosynthesis p 98.5 1.2E-06 2.7E-11 75.7 10.7 82 179-264 31-117 (251)
38 PRK15068 tRNA mo(5)U34 methylt 98.5 5.6E-07 1.2E-11 80.9 8.5 73 192-265 122-204 (322)
39 PRK11036 putative S-adenosyl-L 98.5 3.8E-07 8.2E-12 79.2 7.1 72 192-265 44-127 (255)
40 TIGR00138 gidB 16S rRNA methyl 98.4 2.5E-07 5.4E-12 76.4 4.9 70 193-263 43-121 (181)
41 TIGR02469 CbiT precorrin-6Y C5 98.4 1.5E-06 3.2E-11 66.3 8.6 78 182-261 11-99 (124)
42 TIGR01934 MenG_MenH_UbiE ubiqu 98.4 1.3E-06 2.8E-11 73.6 8.9 83 181-265 30-121 (223)
43 PF05175 MTS: Methyltransferas 98.4 7.3E-07 1.6E-11 72.8 6.9 66 192-257 31-105 (170)
44 PRK15001 SAM-dependent 23S rib 98.4 9.2E-07 2E-11 80.9 8.2 78 182-261 220-309 (378)
45 TIGR03533 L3_gln_methyl protei 98.4 7.7E-07 1.7E-11 78.6 7.1 66 192-257 121-196 (284)
46 PRK00107 gidB 16S rRNA methylt 98.4 1.9E-06 4E-11 71.5 8.7 67 192-258 45-120 (187)
47 KOG1540 Ubiquinone biosynthesi 98.4 2.7E-06 5.9E-11 72.5 9.7 74 192-265 100-192 (296)
48 TIGR00477 tehB tellurite resis 98.4 1.2E-06 2.6E-11 73.1 7.4 80 181-264 21-108 (195)
49 TIGR00536 hemK_fam HemK family 98.3 1.8E-06 4E-11 76.2 8.5 64 194-257 116-189 (284)
50 PRK11805 N5-glutamine S-adenos 98.3 8.8E-07 1.9E-11 79.1 6.5 64 194-257 135-208 (307)
51 PRK09489 rsmC 16S ribosomal RN 98.3 1.9E-06 4E-11 78.1 8.6 71 193-263 197-274 (342)
52 PRK04457 spermidine synthase; 98.3 9.1E-07 2E-11 77.3 6.1 67 191-257 65-143 (262)
53 PLN02396 hexaprenyldihydroxybe 98.3 7.6E-07 1.6E-11 79.9 5.7 72 192-265 131-213 (322)
54 COG2890 HemK Methylase of poly 98.3 1.8E-06 3.8E-11 76.1 7.9 63 195-257 113-183 (280)
55 TIGR00452 methyltransferase, p 98.3 2.1E-06 4.6E-11 76.7 8.3 81 182-265 113-203 (314)
56 PF07021 MetW: Methionine bios 98.3 1.1E-06 2.4E-11 72.3 5.6 70 191-262 12-87 (193)
57 PRK11873 arsM arsenite S-adeno 98.3 3.1E-06 6.8E-11 74.1 7.8 76 190-265 75-161 (272)
58 PRK13944 protein-L-isoaspartat 98.3 6.3E-06 1.4E-10 69.3 9.3 80 182-263 64-155 (205)
59 PF05401 NodS: Nodulation prot 98.3 1.6E-06 3.5E-11 71.5 5.5 77 185-265 38-121 (201)
60 TIGR02081 metW methionine bios 98.2 3.2E-06 6.8E-11 70.4 7.3 72 192-265 13-90 (194)
61 COG2242 CobL Precorrin-6B meth 98.2 5E-06 1.1E-10 68.1 7.8 73 183-257 27-109 (187)
62 PRK14966 unknown domain/N5-glu 98.2 4.1E-06 9E-11 77.1 8.1 66 192-257 251-326 (423)
63 PRK13942 protein-L-isoaspartat 98.2 8.3E-06 1.8E-10 69.0 9.3 81 180-262 66-157 (212)
64 PRK12335 tellurite resistance 98.2 3.6E-06 7.8E-11 74.5 7.3 79 182-264 112-198 (287)
65 TIGR03534 RF_mod_PrmC protein- 98.2 6.2E-06 1.3E-10 71.0 8.4 65 192-256 87-160 (251)
66 PRK01544 bifunctional N5-gluta 98.2 3E-06 6.5E-11 80.6 6.3 64 193-256 139-212 (506)
67 TIGR00537 hemK_rel_arch HemK-r 98.2 6.6E-06 1.4E-10 67.5 7.6 70 192-263 19-95 (179)
68 smart00650 rADc Ribosomal RNA 98.2 6.9E-06 1.5E-10 66.8 7.5 74 180-257 3-84 (169)
69 TIGR00080 pimt protein-L-isoas 98.2 1.2E-05 2.6E-10 68.1 9.2 79 181-261 68-157 (215)
70 COG2813 RsmC 16S RNA G1207 met 98.2 1E-05 2.2E-10 71.1 8.6 80 181-262 149-236 (300)
71 PRK09328 N5-glutamine S-adenos 98.2 1E-05 2.2E-10 70.7 8.8 67 191-257 107-182 (275)
72 COG4123 Predicted O-methyltran 98.1 3.3E-06 7.1E-11 72.5 5.3 75 182-257 35-122 (248)
73 PLN02585 magnesium protoporphy 98.1 5.3E-06 1.1E-10 74.2 6.5 71 193-265 145-227 (315)
74 TIGR00091 tRNA (guanine-N(7)-) 98.1 2.5E-06 5.5E-11 71.1 3.8 66 192-257 16-94 (194)
75 KOG1271 Methyltransferases [Ge 98.1 1E-05 2.2E-10 65.8 6.6 69 192-260 67-146 (227)
76 PLN02336 phosphoethanolamine N 98.1 9.1E-06 2E-10 76.8 7.5 82 180-265 27-118 (475)
77 PRK14896 ksgA 16S ribosomal RN 98.1 1.5E-05 3.2E-10 69.4 8.3 75 179-257 18-98 (258)
78 PRK11088 rrmA 23S rRNA methylt 98.1 2.5E-05 5.4E-10 68.5 9.7 66 192-257 85-158 (272)
79 TIGR03704 PrmC_rel_meth putati 98.1 1.7E-05 3.6E-10 68.9 8.2 66 192-257 86-160 (251)
80 PF13659 Methyltransf_26: Meth 98.0 7.2E-06 1.6E-10 62.1 4.9 67 194-261 2-81 (117)
81 PF13489 Methyltransf_23: Meth 98.0 1.8E-05 3.9E-10 63.0 7.4 69 191-265 21-93 (161)
82 PRK00274 ksgA 16S ribosomal RN 98.0 1.6E-05 3.4E-10 69.8 7.6 67 180-250 32-103 (272)
83 PRK00121 trmB tRNA (guanine-N( 98.0 8.3E-06 1.8E-10 68.4 5.4 67 192-258 40-119 (202)
84 PRK14121 tRNA (guanine-N(7)-)- 98.0 1.9E-05 4.1E-10 72.2 7.7 66 192-257 122-199 (390)
85 TIGR03438 probable methyltrans 98.0 1.1E-05 2.3E-10 71.9 6.0 73 192-264 63-152 (301)
86 PRK07402 precorrin-6B methylas 98.0 3.8E-05 8.2E-10 64.0 8.6 73 182-256 32-115 (196)
87 COG2230 Cfa Cyclopropane fatty 98.0 4.2E-05 9E-10 67.0 8.7 82 179-263 61-150 (283)
88 TIGR00755 ksgA dimethyladenosi 97.9 2.8E-05 6E-10 67.5 7.2 77 180-260 19-103 (253)
89 PHA03411 putative methyltransf 97.9 2.2E-05 4.9E-10 68.4 6.5 69 193-261 65-137 (279)
90 PRK11705 cyclopropane fatty ac 97.9 6.7E-05 1.5E-09 69.1 9.5 80 181-263 158-241 (383)
91 PLN02366 spermidine synthase 97.9 2.5E-05 5.4E-10 69.7 6.3 65 191-256 90-171 (308)
92 COG2227 UbiG 2-polyprenyl-3-me 97.9 1E-05 2.2E-10 68.7 3.4 72 192-265 59-139 (243)
93 PRK00312 pcm protein-L-isoaspa 97.9 8.2E-05 1.8E-09 62.7 8.9 77 182-262 70-156 (212)
94 cd02440 AdoMet_MTases S-adenos 97.8 3.5E-05 7.5E-10 55.5 5.4 67 195-262 1-78 (107)
95 PF02353 CMAS: Mycolic acid cy 97.8 6.9E-05 1.5E-09 65.8 8.2 80 179-262 51-139 (273)
96 KOG1270 Methyltransferases [Co 97.8 1.9E-05 4.1E-10 67.8 4.3 70 194-265 91-173 (282)
97 TIGR03840 TMPT_Se_Te thiopurin 97.8 0.00013 2.8E-09 61.7 9.3 71 191-263 33-126 (213)
98 PF03848 TehB: Tellurite resis 97.8 8.3E-05 1.8E-09 61.7 7.7 80 180-263 20-107 (192)
99 PRK00811 spermidine synthase; 97.8 3.4E-05 7.4E-10 68.1 5.7 67 191-257 75-157 (283)
100 PHA03412 putative methyltransf 97.8 5.7E-05 1.2E-09 64.5 6.7 65 193-257 50-121 (241)
101 PRK14967 putative methyltransf 97.8 8.3E-05 1.8E-09 63.2 7.6 67 190-257 34-108 (223)
102 PTZ00338 dimethyladenosine tra 97.8 9.2E-05 2E-09 65.7 7.8 74 179-256 25-107 (294)
103 PRK01581 speE spermidine synth 97.8 5.1E-05 1.1E-09 68.7 6.3 67 191-257 149-233 (374)
104 PRK14968 putative methyltransf 97.8 0.00011 2.3E-09 60.3 7.5 67 191-259 22-99 (188)
105 PRK00377 cbiT cobalt-precorrin 97.7 0.00015 3.3E-09 60.5 8.5 68 190-257 38-118 (198)
106 PLN02672 methionine S-methyltr 97.7 7.4E-05 1.6E-09 76.3 7.4 64 193-256 119-209 (1082)
107 PRK11188 rrmJ 23S rRNA methylt 97.7 0.00026 5.6E-09 59.8 9.6 68 190-261 49-128 (209)
108 PRK05134 bifunctional 3-demeth 97.7 0.00016 3.6E-09 61.6 8.0 72 192-265 48-129 (233)
109 PRK13943 protein-L-isoaspartat 97.7 0.00018 3.9E-09 64.6 8.3 77 182-260 72-159 (322)
110 PRK04266 fibrillarin; Provisio 97.6 0.00044 9.5E-09 59.1 9.7 67 190-256 70-147 (226)
111 TIGR01983 UbiG ubiquinone bios 97.6 0.00011 2.3E-09 62.3 5.8 72 192-265 45-127 (224)
112 PRK04148 hypothetical protein; 97.6 0.00029 6.3E-09 55.0 7.6 72 182-258 8-85 (134)
113 TIGR00406 prmA ribosomal prote 97.6 0.00016 3.4E-09 64.1 6.6 66 192-258 159-233 (288)
114 PRK03612 spermidine synthase; 97.6 0.00013 2.9E-09 69.8 6.4 66 191-257 296-380 (521)
115 COG2263 Predicted RNA methylas 97.5 0.00023 5E-09 58.4 6.4 65 192-257 45-115 (198)
116 PRK00050 16S rRNA m(4)C1402 me 97.5 0.00025 5.4E-09 62.8 6.7 75 180-256 9-96 (296)
117 COG0421 SpeE Spermidine syntha 97.5 0.00019 4.2E-09 63.2 5.9 67 190-256 74-155 (282)
118 PF08123 DOT1: Histone methyla 97.5 0.00016 3.6E-09 60.7 5.0 79 181-261 33-133 (205)
119 PRK13255 thiopurine S-methyltr 97.5 0.00049 1.1E-08 58.5 8.0 72 191-264 36-130 (218)
120 PF01135 PCMT: Protein-L-isoas 97.5 0.00029 6.3E-09 59.4 6.5 79 180-260 62-151 (209)
121 PRK13168 rumA 23S rRNA m(5)U19 97.5 0.0002 4.2E-09 67.3 6.0 73 180-256 287-373 (443)
122 KOG2904 Predicted methyltransf 97.5 0.00046 1E-08 59.7 7.5 67 190-256 146-228 (328)
123 PRK00517 prmA ribosomal protei 97.5 0.00035 7.6E-09 60.5 6.8 61 191-257 118-186 (250)
124 PF02390 Methyltransf_4: Putat 97.5 0.00023 4.9E-09 59.4 5.4 53 194-246 19-78 (195)
125 TIGR00438 rrmJ cell division p 97.4 0.00065 1.4E-08 56.1 7.9 64 190-257 30-105 (188)
126 PF09339 HTH_IclR: IclR helix- 97.4 3.2E-05 6.9E-10 50.3 -0.0 47 36-88 6-52 (52)
127 PLN02823 spermine synthase 97.4 0.0003 6.6E-09 63.5 6.1 67 191-257 102-183 (336)
128 TIGR00417 speE spermidine synt 97.4 0.00031 6.8E-09 61.6 5.9 68 191-258 71-153 (270)
129 PRK10909 rsmD 16S rRNA m(2)G96 97.4 0.00038 8.1E-09 58.3 6.0 65 192-257 53-128 (199)
130 KOG2899 Predicted methyltransf 97.4 0.0004 8.8E-09 59.0 5.9 53 180-232 46-99 (288)
131 COG2518 Pcm Protein-L-isoaspar 97.4 0.0012 2.5E-08 55.4 8.5 73 181-257 63-145 (209)
132 PRK03522 rumB 23S rRNA methylu 97.3 0.0005 1.1E-08 61.7 6.7 63 193-257 174-247 (315)
133 PRK11727 23S rRNA mA1618 methy 97.3 0.00052 1.1E-08 61.6 6.4 66 192-257 114-196 (321)
134 KOG1500 Protein arginine N-met 97.3 0.00087 1.9E-08 59.6 7.4 62 194-256 179-249 (517)
135 KOG0820 Ribosomal RNA adenine 97.3 0.00092 2E-08 57.8 7.3 74 179-256 47-129 (315)
136 PF05185 PRMT5: PRMT5 arginine 97.3 0.00087 1.9E-08 62.9 7.8 98 152-256 151-264 (448)
137 COG2264 PrmA Ribosomal protein 97.3 0.0004 8.6E-09 61.4 5.1 48 182-233 155-203 (300)
138 PF06325 PrmA: Ribosomal prote 97.2 0.00043 9.3E-09 61.4 5.0 82 167-256 140-231 (295)
139 PLN02781 Probable caffeoyl-CoA 97.2 0.00048 1E-08 59.1 5.1 67 191-257 67-151 (234)
140 PRK00536 speE spermidine synth 97.2 0.00082 1.8E-08 58.5 6.2 63 191-257 71-146 (262)
141 PF10294 Methyltransf_16: Puta 97.2 0.00042 9.1E-09 56.7 4.0 74 190-263 43-132 (173)
142 PF08003 Methyltransf_9: Prote 97.2 0.002 4.4E-08 56.8 8.3 71 192-264 115-196 (315)
143 PF06080 DUF938: Protein of un 97.2 0.00077 1.7E-08 56.3 5.4 75 190-264 22-116 (204)
144 PRK14902 16S rRNA methyltransf 97.2 0.0013 2.9E-08 61.7 7.6 67 190-256 248-326 (444)
145 KOG1541 Predicted protein carb 97.1 0.00037 8.1E-09 58.5 3.1 73 182-259 40-121 (270)
146 TIGR01177 conserved hypothetic 97.1 0.0019 4.2E-08 58.2 7.7 66 190-257 180-255 (329)
147 PRK10901 16S rRNA methyltransf 97.1 0.0013 2.8E-08 61.5 6.6 67 190-256 242-319 (427)
148 smart00346 HTH_ICLR helix_turn 97.1 0.00055 1.2E-08 49.5 3.3 58 36-104 8-65 (91)
149 PTZ00146 fibrillarin; Provisio 97.0 0.0031 6.7E-08 55.7 8.0 70 190-259 130-211 (293)
150 COG0220 Predicted S-adenosylme 97.0 0.0012 2.6E-08 56.3 5.1 53 194-246 50-109 (227)
151 TIGR02085 meth_trns_rumB 23S r 97.0 0.0012 2.7E-08 60.6 5.4 62 193-256 234-306 (374)
152 smart00550 Zalpha Z-DNA-bindin 96.9 0.0011 2.3E-08 45.6 3.7 60 33-102 6-66 (68)
153 TIGR00479 rumA 23S rRNA (uraci 96.9 0.0012 2.5E-08 61.8 5.0 65 190-256 290-368 (431)
154 PF01564 Spermine_synth: Sperm 96.9 0.001 2.2E-08 57.6 4.2 66 191-256 75-156 (246)
155 COG1414 IclR Transcriptional r 96.8 0.0011 2.3E-08 57.4 3.3 58 36-104 7-64 (246)
156 TIGR02431 pcaR_pcaU beta-ketoa 96.8 0.0012 2.5E-08 57.1 3.4 56 36-104 12-67 (248)
157 PF00398 RrnaAD: Ribosomal RNA 96.8 0.0035 7.6E-08 54.7 6.5 67 179-249 19-91 (262)
158 PRK11569 transcriptional repre 96.7 0.0014 3.1E-08 57.5 3.8 58 36-104 31-88 (274)
159 KOG1499 Protein arginine N-met 96.7 0.0023 5.1E-08 57.2 5.1 64 192-256 60-133 (346)
160 PF01596 Methyltransf_3: O-met 96.7 0.00092 2E-08 56.2 2.4 67 191-257 44-128 (205)
161 PF01739 CheR: CheR methyltran 96.7 0.006 1.3E-07 50.9 7.2 74 192-265 31-151 (196)
162 PRK13256 thiopurine S-methyltr 96.7 0.0087 1.9E-07 51.1 8.2 72 191-264 42-138 (226)
163 KOG3010 Methyltransferase [Gen 96.7 0.0022 4.8E-08 54.6 4.5 73 191-265 32-115 (261)
164 TIGR00095 RNA methyltransferas 96.7 0.0017 3.6E-08 54.0 3.7 63 193-256 50-127 (189)
165 PF09445 Methyltransf_15: RNA 96.7 0.00099 2.1E-08 53.8 2.2 62 194-257 1-76 (163)
166 PRK10163 DNA-binding transcrip 96.7 0.0018 3.9E-08 56.8 3.9 58 36-104 28-85 (271)
167 TIGR00478 tly hemolysin TlyA f 96.7 0.011 2.3E-07 50.6 8.4 77 180-259 64-152 (228)
168 COG0030 KsgA Dimethyladenosine 96.7 0.012 2.7E-07 51.0 8.8 69 179-250 19-92 (259)
169 PF13679 Methyltransf_32: Meth 96.6 0.0021 4.6E-08 50.6 3.6 57 190-246 23-93 (141)
170 PF13463 HTH_27: Winged helix 96.6 0.0013 2.8E-08 44.7 2.0 63 36-104 6-68 (68)
171 PRK10611 chemotaxis methyltran 96.6 0.022 4.7E-07 50.4 10.0 74 192-265 115-238 (287)
172 PRK09834 DNA-binding transcrip 96.5 0.0025 5.4E-08 55.7 3.8 60 35-105 13-72 (263)
173 PRK14904 16S rRNA methyltransf 96.5 0.009 1.9E-07 56.2 7.7 66 191-256 249-324 (445)
174 TIGR01444 fkbM_fam methyltrans 96.5 0.0046 9.9E-08 48.3 4.8 52 195-246 1-59 (143)
175 PF12840 HTH_20: Helix-turn-he 96.5 0.00097 2.1E-08 44.7 0.7 55 27-88 4-58 (61)
176 PF05724 TPMT: Thiopurine S-me 96.4 0.0064 1.4E-07 51.6 5.7 72 190-263 35-129 (218)
177 PRK15090 DNA-binding transcrip 96.4 0.0028 6.1E-08 55.1 3.5 57 36-104 17-73 (257)
178 COG1352 CheR Methylase of chem 96.4 0.093 2E-06 45.9 12.8 73 192-264 96-216 (268)
179 PRK11783 rlmL 23S rRNA m(2)G24 96.4 0.0039 8.4E-08 61.9 4.6 64 192-256 538-614 (702)
180 PRK15128 23S rRNA m(5)C1962 me 96.4 0.0047 1E-07 57.1 4.9 65 192-257 220-300 (396)
181 PRK05031 tRNA (uracil-5-)-meth 96.3 0.0073 1.6E-07 55.2 5.8 51 194-246 208-265 (362)
182 TIGR02143 trmA_only tRNA (urac 96.3 0.0049 1.1E-07 56.2 4.7 51 194-246 199-256 (353)
183 PRK11760 putative 23S rRNA C24 96.3 0.015 3.3E-07 52.3 7.6 66 191-258 210-278 (357)
184 PF12147 Methyltransf_20: Puta 96.3 0.015 3.2E-07 51.1 7.1 75 191-265 134-224 (311)
185 PLN02476 O-methyltransferase 96.3 0.0062 1.3E-07 53.6 4.7 67 190-256 116-200 (278)
186 TIGR02337 HpaR homoprotocatech 96.2 0.016 3.5E-07 44.0 6.3 70 33-109 28-97 (118)
187 PRK10141 DNA-binding transcrip 96.2 0.0064 1.4E-07 46.4 3.8 65 25-102 8-75 (117)
188 TIGR00563 rsmB ribosomal RNA s 96.1 0.021 4.6E-07 53.4 7.6 67 190-256 236-315 (426)
189 KOG3115 Methyltransferase-like 96.0 0.0065 1.4E-07 50.5 3.4 57 193-249 61-131 (249)
190 smart00347 HTH_MARR helix_turn 96.0 0.011 2.4E-07 42.9 4.5 67 35-108 12-78 (101)
191 PRK01544 bifunctional N5-gluta 96.0 0.0097 2.1E-07 56.9 5.0 54 192-245 347-407 (506)
192 PRK14903 16S rRNA methyltransf 96.0 0.014 3E-07 54.7 5.9 67 190-256 235-313 (431)
193 KOG3420 Predicted RNA methylas 96.0 0.017 3.6E-07 45.6 5.2 73 181-257 39-121 (185)
194 smart00419 HTH_CRP helix_turn_ 95.9 0.0065 1.4E-07 38.0 2.5 42 47-101 7-48 (48)
195 PF02527 GidB: rRNA small subu 95.9 0.038 8.2E-07 45.6 7.5 64 195-259 51-124 (184)
196 PF04816 DUF633: Family of unk 95.9 0.012 2.5E-07 49.6 4.5 62 196-257 1-73 (205)
197 PRK14901 16S rRNA methyltransf 95.9 0.016 3.5E-07 54.3 5.9 67 190-256 250-331 (434)
198 PF01978 TrmB: Sugar-specific 95.9 0.002 4.3E-08 44.1 -0.2 47 35-88 10-56 (68)
199 cd00092 HTH_CRP helix_turn_hel 95.8 0.017 3.8E-07 38.8 4.5 44 47-102 24-67 (67)
200 PF14947 HTH_45: Winged helix- 95.8 0.0066 1.4E-07 42.7 2.4 55 38-107 11-65 (77)
201 PF01022 HTH_5: Bacterial regu 95.8 0.0028 6E-08 40.1 0.4 43 35-85 4-46 (47)
202 COG4262 Predicted spermidine s 95.8 0.019 4.1E-07 51.9 5.6 65 191-256 288-371 (508)
203 PF01170 UPF0020: Putative RNA 95.8 0.02 4.4E-07 47.0 5.5 67 190-256 26-112 (179)
204 PF03141 Methyltransf_29: Puta 95.8 0.0089 1.9E-07 56.0 3.7 72 191-265 116-196 (506)
205 TIGR00446 nop2p NOL1/NOP2/sun 95.7 0.039 8.5E-07 48.2 7.4 66 191-256 70-146 (264)
206 PF09243 Rsm22: Mitochondrial 95.7 0.028 6E-07 49.4 6.5 73 192-264 33-116 (274)
207 PF07091 FmrO: Ribosomal RNA m 95.7 0.0072 1.6E-07 52.0 2.5 71 192-262 105-183 (251)
208 PF13412 HTH_24: Winged helix- 95.6 0.006 1.3E-07 38.6 1.4 45 34-85 4-48 (48)
209 PRK11512 DNA-binding transcrip 95.6 0.08 1.7E-06 41.7 8.2 66 36-108 43-108 (144)
210 PF07757 AdoMet_MTase: Predict 95.6 0.022 4.8E-07 42.5 4.2 32 191-224 57-88 (112)
211 COG2519 GCD14 tRNA(1-methylade 95.5 0.077 1.7E-06 45.7 7.9 73 182-256 86-169 (256)
212 PF05148 Methyltransf_8: Hypot 95.5 0.034 7.4E-07 46.6 5.6 94 155-260 32-132 (219)
213 KOG1661 Protein-L-isoaspartate 95.4 0.037 8.1E-07 46.3 5.5 76 182-257 72-169 (237)
214 PF13601 HTH_34: Winged helix 95.3 0.0057 1.2E-07 43.4 0.5 65 34-105 1-66 (80)
215 COG4122 Predicted O-methyltran 95.3 0.038 8.3E-07 46.8 5.4 67 190-256 57-138 (219)
216 COG3963 Phospholipid N-methylt 95.2 0.068 1.5E-06 43.2 6.3 83 176-260 34-127 (194)
217 COG0357 GidB Predicted S-adeno 95.2 0.052 1.1E-06 45.9 5.9 65 193-258 68-143 (215)
218 PRK04338 N(2),N(2)-dimethylgua 95.1 0.032 6.8E-07 51.5 4.9 64 193-256 58-131 (382)
219 PRK11783 rlmL 23S rRNA m(2)G24 95.1 0.071 1.5E-06 53.1 7.8 77 179-257 178-310 (702)
220 PLN02589 caffeoyl-CoA O-methyl 95.1 0.036 7.8E-07 48.0 4.9 67 191-257 78-163 (247)
221 PHA00738 putative HTH transcri 95.1 0.022 4.8E-07 42.4 3.0 48 34-88 13-60 (108)
222 PF02082 Rrf2: Transcriptional 95.0 0.013 2.7E-07 41.8 1.6 47 47-103 24-70 (83)
223 PF08461 HTH_12: Ribonuclease 95.0 0.044 9.4E-07 37.4 4.1 61 38-105 3-63 (66)
224 PRK03902 manganese transport t 95.0 0.036 7.8E-07 43.7 4.3 51 46-108 20-70 (142)
225 PRK03573 transcriptional regul 95.0 0.049 1.1E-06 42.8 5.0 65 38-108 36-100 (144)
226 KOG2361 Predicted methyltransf 94.9 0.02 4.3E-07 48.9 2.6 68 194-261 73-155 (264)
227 TIGR00006 S-adenosyl-methyltra 94.8 0.099 2.1E-06 46.6 6.9 75 180-256 10-98 (305)
228 PRK10857 DNA-binding transcrip 94.7 0.039 8.5E-07 44.7 3.9 46 47-102 24-69 (164)
229 PF02475 Met_10: Met-10+ like- 94.7 0.051 1.1E-06 45.5 4.5 68 191-258 100-177 (200)
230 PF01795 Methyltransf_5: MraW 94.6 0.087 1.9E-06 47.0 6.1 65 180-246 10-80 (310)
231 PF01638 HxlR: HxlR-like helix 94.5 0.021 4.7E-07 41.3 1.8 63 38-108 10-73 (90)
232 COG4742 Predicted transcriptio 94.5 0.047 1E-06 47.3 4.0 65 30-109 10-74 (260)
233 KOG3191 Predicted N6-DNA-methy 94.4 0.087 1.9E-06 43.2 5.1 65 193-257 44-117 (209)
234 PF09012 FeoC: FeoC like trans 94.3 0.02 4.3E-07 39.3 1.1 44 38-88 5-48 (69)
235 COG2384 Predicted SAM-dependen 94.3 0.22 4.7E-06 42.1 7.4 66 192-257 16-92 (226)
236 PF04967 HTH_10: HTH DNA bindi 94.3 0.045 9.8E-07 35.6 2.6 42 26-77 5-46 (53)
237 PF03291 Pox_MCEL: mRNA cappin 94.2 0.17 3.7E-06 45.8 7.2 70 192-262 62-157 (331)
238 PRK11050 manganese transport r 94.2 0.061 1.3E-06 43.0 3.8 58 38-108 42-99 (152)
239 COG0293 FtsJ 23S rRNA methylas 94.2 0.19 4.2E-06 42.1 6.9 64 179-247 33-97 (205)
240 COG4976 Predicted methyltransf 94.1 0.071 1.5E-06 45.4 4.2 77 181-261 116-199 (287)
241 TIGR01889 Staph_reg_Sar staphy 94.1 0.067 1.5E-06 40.1 3.8 69 34-108 26-97 (109)
242 PF04703 FaeA: FaeA-like prote 94.0 0.022 4.7E-07 38.3 0.8 46 37-88 4-49 (62)
243 COG2345 Predicted transcriptio 94.0 0.064 1.4E-06 45.3 3.7 65 37-108 15-81 (218)
244 PF08220 HTH_DeoR: DeoR-like h 93.9 0.06 1.3E-06 35.5 2.8 45 37-88 4-48 (57)
245 KOG4300 Predicted methyltransf 93.9 0.16 3.5E-06 42.6 5.8 69 192-261 76-156 (252)
246 PF08704 GCD14: tRNA methyltra 93.8 0.29 6.2E-06 42.4 7.5 73 182-256 32-119 (247)
247 PF12802 MarR_2: MarR family; 93.7 0.026 5.5E-07 37.5 0.7 48 35-88 7-55 (62)
248 COG1321 TroR Mn-dependent tran 93.7 0.1 2.2E-06 41.9 4.2 51 46-108 22-72 (154)
249 COG4076 Predicted RNA methylas 93.6 0.14 3E-06 42.3 4.9 62 194-257 34-103 (252)
250 COG3355 Predicted transcriptio 93.6 0.072 1.6E-06 41.0 3.1 46 38-89 32-77 (126)
251 smart00420 HTH_DEOR helix_turn 93.6 0.074 1.6E-06 33.6 2.8 44 38-88 5-48 (53)
252 TIGR02702 SufR_cyano iron-sulf 93.6 0.093 2E-06 43.9 4.1 66 36-108 4-71 (203)
253 TIGR01884 cas_HTH CRISPR locus 93.5 0.07 1.5E-06 44.7 3.2 59 35-104 145-203 (203)
254 TIGR02944 suf_reg_Xantho FeS a 93.5 0.051 1.1E-06 42.0 2.2 46 47-102 24-69 (130)
255 TIGR02010 IscR iron-sulfur clu 93.4 0.069 1.5E-06 41.7 2.7 47 47-103 24-70 (135)
256 KOG1331 Predicted methyltransf 93.3 0.062 1.3E-06 47.0 2.6 69 192-264 45-117 (293)
257 cd00090 HTH_ARSR Arsenical Res 93.2 0.1 2.3E-06 35.2 3.2 57 35-102 9-65 (78)
258 cd07153 Fur_like Ferric uptake 93.2 0.12 2.7E-06 38.9 3.9 64 35-101 3-66 (116)
259 TIGR00738 rrf2_super rrf2 fami 93.0 0.096 2.1E-06 40.4 3.1 48 47-104 24-71 (132)
260 smart00418 HTH_ARSR helix_turn 93.0 0.15 3.2E-06 33.4 3.6 54 38-102 2-55 (66)
261 PF01726 LexA_DNA_bind: LexA D 92.8 0.065 1.4E-06 36.4 1.6 41 43-88 20-60 (65)
262 TIGR00122 birA_repr_reg BirA b 92.7 0.1 2.2E-06 35.6 2.5 56 35-104 2-57 (69)
263 TIGR01610 phage_O_Nterm phage 92.6 0.11 2.5E-06 37.9 2.9 44 47-101 46-89 (95)
264 smart00529 HTH_DTXR Helix-turn 92.6 0.14 3E-06 37.1 3.2 46 51-108 2-47 (96)
265 smart00344 HTH_ASNC helix_turn 92.5 0.099 2.1E-06 38.8 2.5 48 34-88 4-51 (108)
266 PF01047 MarR: MarR family; I 92.5 0.037 7.9E-07 36.4 0.1 47 35-88 5-51 (59)
267 COG0275 Predicted S-adenosylme 92.5 0.38 8.3E-06 42.6 6.3 65 180-246 13-84 (314)
268 PF05219 DREV: DREV methyltran 92.5 0.19 4.1E-06 43.6 4.4 68 192-262 94-163 (265)
269 PF01728 FtsJ: FtsJ-like methy 92.3 0.25 5.5E-06 40.2 4.9 61 181-246 11-74 (181)
270 PRK06266 transcription initiat 92.1 0.23 5E-06 40.8 4.3 46 36-88 25-70 (178)
271 PF02384 N6_Mtase: N-6 DNA Met 92.1 0.39 8.5E-06 42.7 6.1 68 190-257 44-132 (311)
272 PRK10870 transcriptional repre 92.1 0.19 4.1E-06 41.1 3.8 68 36-109 58-126 (176)
273 COG3897 Predicted methyltransf 92.0 0.65 1.4E-05 38.7 6.7 74 190-264 77-156 (218)
274 COG4189 Predicted transcriptio 92.0 0.23 4.9E-06 42.2 4.1 57 25-88 15-71 (308)
275 TIGR02987 met_A_Alw26 type II 92.0 0.22 4.7E-06 47.9 4.7 65 192-256 31-118 (524)
276 PF06163 DUF977: Bacterial pro 91.9 0.16 3.6E-06 38.8 3.0 51 31-88 10-60 (127)
277 KOG3045 Predicted RNA methylas 91.8 0.5 1.1E-05 41.0 6.1 94 153-260 138-238 (325)
278 PRK06474 hypothetical protein; 91.7 0.17 3.7E-06 41.5 3.2 72 27-104 5-79 (178)
279 PRK13777 transcriptional regul 91.7 0.31 6.7E-06 40.3 4.7 66 36-108 48-113 (185)
280 PF07381 DUF1495: Winged helix 91.7 0.21 4.6E-06 36.2 3.2 68 32-108 8-87 (90)
281 KOG4589 Cell division protein 91.6 0.7 1.5E-05 38.2 6.4 40 190-229 67-107 (232)
282 cd07377 WHTH_GntR Winged helix 91.5 0.33 7.2E-06 32.1 4.0 34 49-88 26-59 (66)
283 PRK11014 transcriptional repre 91.3 0.21 4.5E-06 39.3 3.1 47 46-102 23-69 (141)
284 PF03602 Cons_hypoth95: Conser 91.3 0.15 3.3E-06 42.0 2.4 64 192-256 42-120 (183)
285 PF03444 HrcA_DNA-bdg: Winged 91.2 0.44 9.6E-06 33.5 4.3 52 46-108 21-74 (78)
286 COG1959 Predicted transcriptio 91.2 0.19 4.1E-06 40.1 2.8 47 47-103 24-70 (150)
287 COG0116 Predicted N6-adenine-s 91.0 0.7 1.5E-05 42.4 6.6 68 190-257 189-306 (381)
288 PF10007 DUF2250: Uncharacteri 91.0 0.23 5.1E-06 36.1 2.9 48 34-88 8-55 (92)
289 PF04672 Methyltransf_19: S-ad 90.9 1 2.3E-05 39.3 7.3 74 192-265 68-165 (267)
290 smart00345 HTH_GNTR helix_turn 90.9 0.24 5.2E-06 32.1 2.7 36 47-88 18-54 (60)
291 PF08279 HTH_11: HTH domain; 90.8 0.18 4E-06 32.5 2.0 42 37-84 4-45 (55)
292 PF01325 Fe_dep_repress: Iron 90.8 0.15 3.2E-06 34.0 1.6 37 46-88 20-56 (60)
293 COG1846 MarR Transcriptional r 90.8 0.32 7E-06 36.3 3.7 70 32-108 21-90 (126)
294 PF14394 DUF4423: Domain of un 90.7 0.27 5.9E-06 40.1 3.3 46 47-104 38-85 (171)
295 COG4190 Predicted transcriptio 90.4 0.35 7.6E-06 37.3 3.4 56 26-88 57-112 (144)
296 KOG1975 mRNA cap methyltransfe 90.3 0.58 1.3E-05 41.9 5.3 78 181-262 109-208 (389)
297 PRK11920 rirA iron-responsive 90.2 0.26 5.5E-06 39.5 2.7 47 47-103 23-69 (153)
298 COG5459 Predicted rRNA methyla 90.1 0.12 2.5E-06 46.7 0.8 69 193-261 114-193 (484)
299 KOG4058 Uncharacterized conser 90.0 0.38 8.3E-06 38.2 3.5 69 180-251 62-139 (199)
300 PF00325 Crp: Bacterial regula 89.7 0.13 2.9E-06 29.7 0.5 31 48-84 2-32 (32)
301 TIGR00373 conserved hypothetic 89.5 0.32 6.9E-06 39.1 2.8 46 36-88 17-62 (158)
302 COG3432 Predicted transcriptio 89.3 0.24 5.2E-06 36.2 1.7 62 38-108 20-82 (95)
303 KOG2940 Predicted methyltransf 89.1 0.57 1.2E-05 40.0 4.1 72 191-263 71-150 (325)
304 PRK11179 DNA-binding transcrip 89.0 0.34 7.3E-06 38.6 2.6 48 34-88 10-57 (153)
305 TIGR00308 TRM1 tRNA(guanine-26 88.9 0.49 1.1E-05 43.5 3.9 63 194-256 46-120 (374)
306 COG2512 Predicted membrane-ass 88.6 0.31 6.7E-06 42.4 2.3 49 35-89 197-245 (258)
307 PLN02853 Probable phenylalanyl 88.5 0.39 8.4E-06 45.5 3.0 70 33-112 3-73 (492)
308 PF13545 HTH_Crp_2: Crp-like h 88.4 0.27 5.9E-06 33.8 1.5 43 47-102 27-69 (76)
309 PRK04172 pheS phenylalanyl-tRN 88.4 0.43 9.2E-06 45.5 3.3 65 34-109 7-71 (489)
310 PRK11169 leucine-responsive tr 88.3 0.36 7.9E-06 38.9 2.4 49 33-88 14-62 (164)
311 PRK14165 winged helix-turn-hel 88.3 0.56 1.2E-05 39.7 3.6 59 40-108 14-72 (217)
312 PF05891 Methyltransf_PK: AdoM 88.2 0.5 1.1E-05 40.0 3.2 73 192-265 55-137 (218)
313 PF04182 B-block_TFIIIC: B-blo 88.0 0.41 9E-06 33.3 2.2 49 34-88 3-52 (75)
314 COG1378 Predicted transcriptio 88.0 0.83 1.8E-05 39.5 4.5 60 38-108 21-80 (247)
315 PRK10742 putative methyltransf 87.9 1.4 3E-05 38.1 5.8 72 181-256 77-170 (250)
316 PF04072 LCM: Leucine carboxyl 87.7 1.1 2.4E-05 36.7 4.9 56 191-246 77-141 (183)
317 PF12324 HTH_15: Helix-turn-he 87.6 0.95 2.1E-05 31.7 3.8 41 38-88 29-69 (77)
318 COG1522 Lrp Transcriptional re 87.2 0.51 1.1E-05 37.2 2.6 48 34-88 9-56 (154)
319 TIGR00498 lexA SOS regulatory 87.0 0.7 1.5E-05 38.4 3.4 48 35-88 8-60 (199)
320 KOG2730 Methylase [General fun 87.0 0.49 1.1E-05 40.1 2.4 53 192-246 94-154 (263)
321 PF04989 CmcI: Cephalosporin h 87.0 1.2 2.6E-05 37.4 4.8 55 192-246 32-96 (206)
322 KOG0822 Protein kinase inhibit 86.9 3.2 6.8E-05 39.7 7.9 97 152-255 333-444 (649)
323 PTZ00326 phenylalanyl-tRNA syn 86.7 0.64 1.4E-05 44.2 3.3 70 33-112 6-76 (494)
324 PRK15431 ferrous iron transpor 86.7 0.68 1.5E-05 32.5 2.6 44 38-88 7-50 (78)
325 PF11968 DUF3321: Putative met 86.6 1.1 2.3E-05 37.9 4.2 62 193-265 52-119 (219)
326 PRK11639 zinc uptake transcrip 86.5 1.9 4.1E-05 35.0 5.6 56 32-88 25-80 (169)
327 PHA02943 hypothetical protein; 86.5 0.64 1.4E-05 36.9 2.7 44 37-88 15-58 (165)
328 PF02319 E2F_TDP: E2F/DP famil 86.3 0.26 5.7E-06 34.0 0.4 43 38-88 16-63 (71)
329 COG1733 Predicted transcriptio 86.2 1 2.3E-05 34.4 3.7 79 13-108 12-91 (120)
330 PF05732 RepL: Firmicute plasm 86.1 0.58 1.3E-05 37.9 2.4 44 49-104 76-119 (165)
331 KOG3924 Putative protein methy 86.0 1 2.2E-05 41.4 4.0 73 190-262 190-284 (419)
332 COG4565 CitB Response regulato 85.2 0.7 1.5E-05 38.9 2.4 45 38-88 163-207 (224)
333 TIGR02147 Fsuc_second hypothet 85.1 0.91 2E-05 39.8 3.3 53 40-104 129-183 (271)
334 KOG2793 Putative N2,N2-dimethy 85.0 2.4 5.2E-05 36.7 5.8 70 192-262 86-174 (248)
335 COG2265 TrmA SAM-dependent met 85.0 3 6.5E-05 39.2 6.9 72 181-256 284-368 (432)
336 PRK04214 rbn ribonuclease BN/u 85.0 0.8 1.7E-05 42.7 3.1 45 46-102 308-352 (412)
337 PF03059 NAS: Nicotianamine sy 84.8 1.7 3.8E-05 38.2 4.9 68 192-259 120-201 (276)
338 PF02002 TFIIE_alpha: TFIIE al 84.7 0.39 8.4E-06 35.7 0.7 45 37-88 17-61 (105)
339 PF07789 DUF1627: Protein of u 84.4 1.2 2.7E-05 35.0 3.4 47 47-102 5-51 (155)
340 KOG2187 tRNA uracil-5-methyltr 84.2 1.6 3.4E-05 41.5 4.5 51 190-242 381-438 (534)
341 COG3413 Predicted DNA binding 84.1 1.1 2.3E-05 37.8 3.2 36 25-64 159-194 (215)
342 PF08784 RPA_C: Replication pr 83.8 0.47 1E-05 35.0 0.8 48 34-87 48-98 (102)
343 COG1497 Predicted transcriptio 83.7 1.1 2.3E-05 38.4 2.9 83 47-142 24-109 (260)
344 PRK00215 LexA repressor; Valid 83.6 1.3 2.7E-05 37.0 3.4 37 46-88 21-58 (205)
345 PF05958 tRNA_U5-meth_tr: tRNA 83.5 1.7 3.8E-05 39.5 4.6 60 179-243 186-252 (352)
346 PF12793 SgrR_N: Sugar transpo 83.3 0.9 2E-05 34.5 2.2 36 47-88 18-53 (115)
347 COG1565 Uncharacterized conser 83.2 3.5 7.7E-05 37.5 6.2 59 160-224 51-117 (370)
348 COG5631 Predicted transcriptio 82.9 3.9 8.4E-05 32.8 5.6 76 21-105 64-147 (199)
349 PF14338 Mrr_N: Mrr N-terminal 82.5 8 0.00017 27.8 6.9 64 38-108 25-88 (92)
350 PF00392 GntR: Bacterial regul 82.2 1.1 2.5E-05 29.8 2.2 37 46-88 21-58 (64)
351 PLN02668 indole-3-acetate carb 81.4 9.3 0.0002 35.3 8.4 71 192-262 63-174 (386)
352 TIGR03439 methyl_EasF probable 81.3 7 0.00015 35.2 7.5 81 180-264 68-171 (319)
353 COG0500 SmtA SAM-dependent met 80.3 6.6 0.00014 29.0 6.2 65 196-262 52-130 (257)
354 PRK05638 threonine synthase; V 80.2 2.2 4.7E-05 40.2 4.0 61 36-107 374-437 (442)
355 COG0742 N6-adenine-specific me 79.9 2.9 6.4E-05 34.5 4.2 64 192-256 43-120 (187)
356 PF13404 HTH_AsnC-type: AsnC-t 79.9 1 2.2E-05 27.6 1.2 30 34-64 4-33 (42)
357 PF13730 HTH_36: Helix-turn-he 79.9 1.2 2.6E-05 28.5 1.6 29 50-84 27-55 (55)
358 PF05971 Methyltransf_10: Prot 79.8 3.9 8.5E-05 36.4 5.2 69 192-261 102-188 (299)
359 PF05206 TRM13: Methyltransfer 79.7 5.7 0.00012 34.6 6.2 36 190-225 16-56 (259)
360 PRK13509 transcriptional repre 79.5 1.5 3.3E-05 37.9 2.6 46 36-88 8-53 (251)
361 COG1510 Predicted transcriptio 79.5 2.2 4.7E-05 34.6 3.2 43 40-88 33-75 (177)
362 PF01475 FUR: Ferric uptake re 79.3 1.2 2.7E-05 33.6 1.8 67 33-102 8-74 (120)
363 KOG1562 Spermidine synthase [A 79.3 1.2 2.6E-05 39.4 1.8 66 190-256 119-201 (337)
364 COG0735 Fur Fe2+/Zn2+ uptake r 78.2 2.4 5.3E-05 33.5 3.2 68 33-103 21-88 (145)
365 PF01861 DUF43: Protein of unk 77.9 6.4 0.00014 33.9 5.8 64 192-256 44-118 (243)
366 TIGR01321 TrpR trp operon repr 77.8 2.3 5E-05 31.0 2.6 40 32-79 41-80 (94)
367 PRK11753 DNA-binding transcrip 77.8 1.8 4E-05 35.7 2.5 35 48-88 168-202 (211)
368 KOG1709 Guanidinoacetate methy 77.5 13 0.00028 31.7 7.3 65 191-255 100-174 (271)
369 PRK11886 bifunctional biotin-- 77.4 2.1 4.5E-05 38.4 2.9 56 36-103 7-62 (319)
370 PF06969 HemN_C: HemN C-termin 76.8 3 6.5E-05 27.8 2.9 47 47-105 19-65 (66)
371 PRK11161 fumarate/nitrate redu 76.7 2.1 4.5E-05 36.2 2.6 43 48-103 184-226 (235)
372 PRK09462 fur ferric uptake reg 76.6 3.8 8.1E-05 32.3 3.9 67 32-101 16-83 (148)
373 TIGR03879 near_KaiC_dom probab 76.6 1.2 2.6E-05 30.9 0.9 34 47-86 31-64 (73)
374 PF09821 AAA_assoc_C: C-termin 76.5 3.7 8.1E-05 31.4 3.6 75 53-141 2-76 (120)
375 TIGR03697 NtcA_cyano global ni 75.6 2.3 5E-05 34.5 2.5 36 47-88 142-177 (193)
376 TIGR02698 CopY_TcrY copper tra 75.6 2.8 6.1E-05 32.4 2.8 48 34-88 5-56 (130)
377 COG3682 Predicted transcriptio 75.5 5 0.00011 30.8 4.1 63 33-103 6-68 (123)
378 PF05584 Sulfolobus_pRN: Sulfo 75.1 3.5 7.7E-05 28.5 2.8 44 37-88 9-52 (72)
379 PRK13918 CRP/FNR family transc 75.1 2.7 5.9E-05 34.4 2.8 44 47-103 148-191 (202)
380 PRK10906 DNA-binding transcrip 74.6 2.1 4.5E-05 37.1 2.0 47 35-88 7-53 (252)
381 PRK10046 dpiA two-component re 74.6 2.6 5.6E-05 35.4 2.6 45 37-88 166-211 (225)
382 PF02295 z-alpha: Adenosine de 73.9 0.76 1.6E-05 31.3 -0.7 58 34-102 5-64 (66)
383 TIGR00635 ruvB Holliday juncti 73.8 3.1 6.8E-05 36.7 3.0 46 46-104 253-299 (305)
384 PRK09775 putative DNA-binding 73.8 3 6.5E-05 39.3 3.0 42 38-89 5-46 (442)
385 PF02796 HTH_7: Helix-turn-hel 73.7 1.5 3.1E-05 27.2 0.6 30 38-76 14-43 (45)
386 PRK09802 DNA-binding transcrip 73.5 2.3 5.1E-05 37.2 2.1 47 35-88 19-65 (269)
387 PRK01381 Trp operon repressor; 73.4 3.5 7.5E-05 30.4 2.6 40 32-79 41-80 (99)
388 COG1725 Predicted transcriptio 73.4 3.2 6.9E-05 32.0 2.5 41 49-100 36-76 (125)
389 PRK10411 DNA-binding transcrip 73.1 3.8 8.3E-05 35.2 3.3 46 36-88 7-52 (240)
390 PF03492 Methyltransf_7: SAM d 72.9 8.3 0.00018 34.9 5.6 75 190-264 14-121 (334)
391 PRK10434 srlR DNA-bindng trans 72.7 2.4 5.1E-05 36.8 1.9 47 35-88 7-53 (256)
392 KOG2915 tRNA(1-methyladenosine 72.7 23 0.00049 31.3 7.8 88 167-256 78-183 (314)
393 PF09929 DUF2161: Uncharacteri 72.4 5.9 0.00013 30.1 3.7 59 25-105 57-115 (118)
394 PF13518 HTH_28: Helix-turn-he 72.3 3.5 7.6E-05 25.8 2.2 37 38-83 5-41 (52)
395 TIGR02787 codY_Gpos GTP-sensin 72.2 3.3 7.2E-05 35.5 2.6 46 37-88 187-232 (251)
396 PF02636 Methyltransf_28: Puta 72.2 5 0.00011 34.6 3.8 32 193-224 19-58 (252)
397 PHA02701 ORF020 dsRNA-binding 72.0 4 8.6E-05 33.5 2.9 50 33-88 4-53 (183)
398 PRK00135 scpB segregation and 71.4 7.7 0.00017 32.1 4.6 59 36-104 93-152 (188)
399 PRK13239 alkylmercury lyase; P 71.0 8 0.00017 32.5 4.6 39 34-79 23-61 (206)
400 TIGR00027 mthyl_TIGR00027 meth 70.5 13 0.00028 32.4 6.0 54 192-246 81-143 (260)
401 PLN02232 ubiquinone biosynthes 70.4 4.2 9.2E-05 32.4 2.8 32 234-265 25-59 (160)
402 PF08221 HTH_9: RNA polymerase 70.3 2.1 4.5E-05 28.6 0.8 43 38-87 18-60 (62)
403 PF13384 HTH_23: Homeodomain-l 70.3 1.5 3.1E-05 27.6 0.0 40 35-83 7-46 (50)
404 PRK09391 fixK transcriptional 70.2 3.9 8.4E-05 34.6 2.7 43 48-102 179-221 (230)
405 PRK12423 LexA repressor; Provi 70.2 4.9 0.00011 33.5 3.2 36 47-88 24-60 (202)
406 TIGR03433 padR_acidobact trans 69.9 15 0.00033 26.8 5.5 63 38-108 9-81 (100)
407 COG1088 RfbB dTDP-D-glucose 4, 69.5 11 0.00023 33.7 5.2 48 199-246 5-62 (340)
408 PF11994 DUF3489: Protein of u 69.1 12 0.00025 25.9 4.3 55 38-100 15-71 (72)
409 smart00531 TFIIE Transcription 68.5 4 8.7E-05 32.3 2.3 41 37-84 5-45 (147)
410 COG2521 Predicted archaeal met 68.3 7.1 0.00015 33.6 3.7 64 191-255 133-210 (287)
411 PRK04424 fatty acid biosynthes 68.1 2.7 5.8E-05 34.6 1.2 46 36-88 10-55 (185)
412 PRK09954 putative kinase; Prov 67.5 4.3 9.4E-05 36.8 2.6 44 35-85 5-48 (362)
413 PRK06719 precorrin-2 dehydroge 67.2 19 0.00042 28.7 6.0 63 192-257 12-77 (157)
414 PRK11642 exoribonuclease R; Pr 67.2 8.7 0.00019 39.1 4.8 50 37-88 23-72 (813)
415 PF11312 DUF3115: Protein of u 67.0 9 0.0002 34.3 4.3 32 193-224 87-138 (315)
416 COG1255 Uncharacterized protei 66.9 26 0.00057 26.7 6.1 61 192-257 13-77 (129)
417 KOG2918 Carboxymethyl transfer 66.6 15 0.00032 32.9 5.5 41 190-230 85-127 (335)
418 PF03374 ANT: Phage antirepres 66.2 12 0.00026 27.8 4.3 44 36-88 12-55 (111)
419 PF05331 DUF742: Protein of un 66.0 7.5 0.00016 29.5 3.1 42 38-88 48-89 (114)
420 TIGR02719 repress_PhaQ poly-be 65.8 41 0.00089 26.4 7.4 69 30-106 21-97 (138)
421 PRK10402 DNA-binding transcrip 65.8 4.8 0.0001 33.9 2.3 42 48-102 169-210 (226)
422 PRK11534 DNA-binding transcrip 65.6 6.3 0.00014 33.1 3.1 37 46-88 28-64 (224)
423 PF13578 Methyltransf_24: Meth 65.3 4.9 0.00011 29.3 2.1 60 197-256 1-75 (106)
424 COG1675 TFA1 Transcription ini 65.2 5.3 0.00011 32.7 2.3 46 36-88 21-66 (176)
425 COG1802 GntR Transcriptional r 65.1 8.7 0.00019 32.4 3.8 47 46-104 37-83 (230)
426 TIGR03338 phnR_burk phosphonat 64.4 5.1 0.00011 33.3 2.3 37 46-88 32-68 (212)
427 COG1349 GlpR Transcriptional r 64.1 5.3 0.00011 34.6 2.3 46 36-88 8-53 (253)
428 PF00165 HTH_AraC: Bacterial r 63.2 3.9 8.4E-05 24.6 1.0 28 47-80 7-34 (42)
429 PF10668 Phage_terminase: Phag 63.1 5.2 0.00011 26.7 1.6 24 41-64 15-38 (60)
430 COG1568 Predicted methyltransf 62.9 8.1 0.00018 34.1 3.2 47 50-109 36-82 (354)
431 PF09681 Phage_rep_org_N: N-te 62.8 8.6 0.00019 29.4 3.0 50 47-108 52-101 (121)
432 PRK00082 hrcA heat-inducible t 62.7 9.9 0.00021 34.5 3.9 56 41-108 19-77 (339)
433 PRK10736 hypothetical protein; 62.6 7.4 0.00016 35.8 3.1 45 36-88 311-355 (374)
434 PF13814 Replic_Relax: Replica 62.5 14 0.0003 30.1 4.5 64 41-108 3-70 (191)
435 KOG2651 rRNA adenine N-6-methy 62.0 20 0.00044 33.1 5.6 38 190-228 151-188 (476)
436 PRK00080 ruvB Holliday junctio 62.0 6.9 0.00015 35.1 2.8 50 46-108 274-325 (328)
437 COG2520 Predicted methyltransf 61.3 13 0.00028 33.8 4.3 67 192-259 188-265 (341)
438 PF11972 HTH_13: HTH DNA bindi 60.7 8.6 0.00019 25.0 2.2 46 38-100 4-50 (54)
439 PF09904 HTH_43: Winged helix- 60.2 4.5 9.8E-05 29.2 1.0 58 38-103 13-71 (90)
440 PRK11414 colanic acid/biofilm 59.6 12 0.00026 31.3 3.7 37 46-88 32-68 (221)
441 PF04445 SAM_MT: Putative SAM- 59.5 13 0.00027 32.0 3.7 61 194-256 77-157 (234)
442 PF04492 Phage_rep_O: Bacterio 59.5 8.8 0.00019 28.3 2.5 36 47-88 53-88 (100)
443 PF04760 IF2_N: Translation in 59.5 4.8 0.0001 25.8 0.9 32 47-87 2-34 (54)
444 PF03965 Penicillinase_R: Peni 59.4 7.6 0.00016 29.1 2.2 53 33-88 3-55 (115)
445 PRK05562 precorrin-2 dehydroge 58.8 24 0.00051 30.1 5.3 65 192-257 24-92 (223)
446 COG1189 Predicted rRNA methyla 57.7 24 0.00051 30.4 5.0 59 182-242 70-130 (245)
447 COG2390 DeoR Transcriptional r 57.6 6.9 0.00015 35.2 2.0 36 47-88 25-60 (321)
448 PF06406 StbA: StbA protein; 57.5 34 0.00073 30.6 6.4 65 163-228 244-310 (318)
449 PF01371 Trp_repressor: Trp re 57.3 7.4 0.00016 28.0 1.7 40 31-79 34-74 (87)
450 PF03428 RP-C: Replication pro 57.2 7.5 0.00016 31.9 1.9 34 49-88 71-105 (177)
451 PRK09334 30S ribosomal protein 57.1 6.8 0.00015 28.1 1.5 36 47-88 40-75 (86)
452 COG1092 Predicted SAM-dependen 57.0 9.9 0.00022 35.2 2.9 64 192-256 217-296 (393)
453 PRK09464 pdhR transcriptional 56.9 9.7 0.00021 32.6 2.7 45 46-101 31-76 (254)
454 PRK15466 carboxysome structura 56.2 9 0.0002 30.8 2.2 43 47-102 123-165 (166)
455 PHA02591 hypothetical protein; 56.0 9.3 0.0002 26.8 1.9 31 38-76 51-81 (83)
456 PRK10225 DNA-binding transcrip 55.8 10 0.00022 32.6 2.7 37 46-88 30-67 (257)
457 PRK10430 DNA-binding transcrip 55.7 9.6 0.00021 32.2 2.5 36 47-88 177-212 (239)
458 PRK13626 transcriptional regul 55.4 9.3 0.0002 36.9 2.6 37 47-89 22-58 (552)
459 PRK04984 fatty acid metabolism 54.5 11 0.00024 31.9 2.7 44 46-100 28-72 (239)
460 TIGR01470 cysG_Nterm siroheme 54.4 26 0.00056 29.3 4.8 62 193-257 9-76 (205)
461 PRK09990 DNA-binding transcrip 54.4 11 0.00025 32.1 2.7 37 46-88 28-65 (251)
462 TIGR02812 fadR_gamma fatty aci 54.2 11 0.00024 31.8 2.7 37 46-88 27-64 (235)
463 PF00376 MerR: MerR family reg 54.2 15 0.00033 21.8 2.5 27 50-86 1-27 (38)
464 PF01358 PARP_regulatory: Poly 53.5 18 0.00039 32.0 3.8 55 191-246 57-115 (294)
465 smart00088 PINT motif in prote 53.3 19 0.00041 25.2 3.3 50 30-86 7-56 (88)
466 smart00753 PAM PCI/PINT associ 53.3 19 0.00041 25.2 3.3 50 30-86 7-56 (88)
467 PF09106 SelB-wing_2: Elongati 53.2 14 0.00029 24.2 2.4 36 47-88 16-54 (59)
468 COG0640 ArsR Predicted transcr 53.2 18 0.0004 25.2 3.3 55 27-88 19-73 (110)
469 PF13936 HTH_38: Helix-turn-he 53.1 7.2 0.00016 24.0 0.9 24 47-76 19-42 (44)
470 COG1386 scpB Chromosome segreg 53.0 30 0.00064 28.6 4.8 60 35-104 94-154 (184)
471 PF10672 Methyltrans_SAM: S-ad 52.8 14 0.00031 32.7 3.1 64 192-256 123-201 (286)
472 COG1064 AdhP Zn-dependent alco 52.8 30 0.00066 31.4 5.2 68 190-258 164-237 (339)
473 PF12692 Methyltransf_17: S-ad 52.8 1.1E+02 0.0023 24.6 7.6 56 165-224 5-60 (160)
474 PRK10421 DNA-binding transcrip 52.5 13 0.00027 32.0 2.7 37 46-88 23-60 (253)
475 PF09079 Cdc6_C: CDC6, C termi 52.5 24 0.00051 24.8 3.7 47 50-99 24-70 (85)
476 PF03551 PadR: Transcriptional 52.2 13 0.00028 25.5 2.2 64 40-105 3-70 (75)
477 PF14557 AphA_like: Putative A 51.7 32 0.0007 27.9 4.6 74 30-105 8-83 (175)
478 PRK03837 transcriptional regul 51.6 14 0.0003 31.3 2.8 37 46-88 34-71 (241)
479 smart00421 HTH_LUXR helix_turn 51.4 12 0.00025 23.3 1.8 32 37-77 10-41 (58)
480 KOG2165 Anaphase-promoting com 51.3 14 0.00029 36.6 2.9 48 47-102 615-662 (765)
481 COG5340 Predicted transcriptio 51.1 11 0.00023 32.1 1.9 45 47-103 29-73 (269)
482 PRK15418 transcriptional regul 51.1 11 0.00025 33.7 2.3 36 47-88 28-63 (318)
483 COG3315 O-Methyltransferase in 50.8 15 0.00033 32.6 3.0 74 171-249 74-158 (297)
484 TIGR03329 Phn_aa_oxid putative 50.8 20 0.00044 33.7 4.0 34 194-227 25-60 (460)
485 COG1654 BirA Biotin operon rep 50.8 16 0.00036 25.7 2.6 55 38-105 11-65 (79)
486 PRK09392 ftrB transcriptional 50.7 17 0.00037 30.5 3.2 43 48-104 173-215 (236)
487 PF08280 HTH_Mga: M protein tr 50.2 6.6 0.00014 25.8 0.5 39 34-79 6-44 (59)
488 PRK14999 histidine utilization 50.1 14 0.00031 31.4 2.7 45 46-101 33-78 (241)
489 PRK06718 precorrin-2 dehydroge 49.8 45 0.00098 27.7 5.6 63 192-257 9-77 (202)
490 COG4367 Uncharacterized protei 49.7 10 0.00023 27.1 1.4 26 47-78 22-47 (97)
491 cd04761 HTH_MerR-SF Helix-Turn 49.7 23 0.0005 21.5 3.0 27 49-85 1-27 (49)
492 PRK11523 DNA-binding transcrip 49.7 15 0.00033 31.5 2.7 37 46-88 29-66 (253)
493 KOG1663 O-methyltransferase [S 49.6 61 0.0013 27.8 6.2 57 191-247 72-137 (237)
494 PF04539 Sigma70_r3: Sigma-70 49.5 6.9 0.00015 26.9 0.5 37 46-88 18-54 (78)
495 PF03297 Ribosomal_S25: S25 ri 49.2 15 0.00033 27.4 2.3 36 47-88 58-93 (105)
496 PTZ00357 methyltransferase; Pr 49.1 76 0.0016 31.9 7.5 95 152-246 640-774 (1072)
497 COG2524 Predicted transcriptio 48.7 30 0.00066 30.2 4.3 55 44-108 21-76 (294)
498 TIGR02404 trehalos_R_Bsub treh 48.5 14 0.0003 31.3 2.3 41 50-101 26-66 (233)
499 TIGR01714 phage_rep_org_N phag 48.4 21 0.00045 27.3 3.0 48 47-106 50-97 (119)
500 PF13443 HTH_26: Cro/C1-type H 48.0 6.7 0.00014 25.7 0.2 31 38-76 2-32 (63)
No 1
>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]
Probab=100.00 E-value=6.4e-37 Score=268.58 Aligned_cols=247 Identities=36% Similarity=0.593 Sum_probs=221.3
Q ss_pred hhHHHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491 10 VLRGQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS 89 (266)
Q Consensus 10 ~~~~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~ 89 (266)
..+...+++++.+++..+++|.+|+||||||+|+.+ ++ +.|||..+-. |..++++.++.|+||.|++.++++..-.
T Consensus 3 e~~~~l~~~~l~~~~~~~~~lk~A~eL~v~d~l~~~-~~--p~~ia~~l~~-~~~~~~p~ll~r~lr~L~s~~i~k~~~~ 78 (342)
T KOG3178|consen 3 ENEASLRAMRLANGFALPMVLKAACELGVFDILANA-GS--PSEIASLLPT-PKNPEAPVLLDRILRLLVSYSILKCRLV 78 (342)
T ss_pred hhHHHHHHHHHHhhhhhHHHHHHHHHcChHHHHHhC-CC--HHHHHHhccC-CCCCCChhHHHHHHHHHHHhhhceeeee
Confidence 345667899999999999999999999999999974 22 8999999887 6667789999999999999999999873
Q ss_pred CCCCCCceEeCchhchhhhcCC-CCChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHH
Q 042491 90 SDGSEETMYGLTQISKWLLRDS-EMSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFN 168 (266)
Q Consensus 90 ~~~~g~~~y~lt~~s~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~ 168 (266)
. +. .|+++|+++++.+++ ..+++.++...++...++.|..|.++++.++.+|..++|...|++...++.....|+
T Consensus 79 ~---~~-~Y~~~~~~~~~l~~~~~~S~a~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~G~~l~~~~~~~~~~~~~~~ 154 (342)
T KOG3178|consen 79 G---GE-VYSATPVCKYFLKDSGGGSLAPLVLLNTSKVIMNTWQFLKDAILEGGDAFATAHGMMLGGYGGADERFSKDFN 154 (342)
T ss_pred c---ce-eeeccchhhhheecCCCCchhHHHHHhcccchhhhHHHHHHHHHhcccCCccccchhhhhhcccccccHHHHH
Confidence 1 12 799999998766443 357888888777778899999999999999999999999888999988888889999
Q ss_pred HHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCC-CCeEEEEccCCCC
Q 042491 169 KAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVY-EGVSHVGGDMLNA 247 (266)
Q Consensus 169 ~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~-~ri~~~~gd~~~~ 247 (266)
++|+..+....+.+++.|. +|++....||||||.|..+..++..||+++++.+|+|.+++.++.. +.|+.+.||||++
T Consensus 155 ~sm~~l~~~~~~~il~~~~-Gf~~v~~avDvGgGiG~v~k~ll~~fp~ik~infdlp~v~~~a~~~~~gV~~v~gdmfq~ 233 (342)
T KOG3178|consen 155 GSMSFLSTLVMKKILEVYT-GFKGVNVAVDVGGGIGRVLKNLLSKYPHIKGINFDLPFVLAAAPYLAPGVEHVAGDMFQD 233 (342)
T ss_pred HHHHHHHHHHHHhhhhhhc-ccccCceEEEcCCcHhHHHHHHHHhCCCCceeecCHHHHHhhhhhhcCCcceeccccccc
Confidence 9999999999989999887 5889999999999999999999999999999999999999998875 8899999999999
Q ss_pred CCCccEEEeccccccCCC
Q 042491 248 VPNADAVFMKVIVLIQDL 265 (266)
Q Consensus 248 ~p~aD~~~l~~vLHd~~~ 265 (266)
.|.+|+|+|++|||||+|
T Consensus 234 ~P~~daI~mkWiLhdwtD 251 (342)
T KOG3178|consen 234 TPKGDAIWMKWILHDWTD 251 (342)
T ss_pred CCCcCeEEEEeecccCCh
Confidence 999999999999999997
No 2
>PF00891 Methyltransf_2: O-methyltransferase; InterPro: IPR001077 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This domain includes a range of O-methyltransferases some of which utilise S-adenosyl methionine as substrate []. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. In eukaryotes, DNA methylation has been implicated in the control of several cellular processes, including differentiation, gene regulation, and embryonic development. O-methyltransferases have a common catalytic domain structure, which might be universal among S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases []. Comparative analysis of the predicted amino acid sequences of a number of plant O-methyltransferase cDNA clones show that they share some 32-71% sequence identity, and can be grouped according to the different compounds they utilise as substrates [].; GO: 0008171 O-methyltransferase activity; PDB: 1FPQ_A 1FP1_D 3P9K_B 3P9I_D 3P9C_A 3I53_A 3I5U_A 3I64_A 3I58_A 1ZG3_A ....
Probab=100.00 E-value=3.3e-35 Score=253.28 Aligned_cols=169 Identities=30% Similarity=0.536 Sum_probs=149.9
Q ss_pred CceEeCchhchhhhcCCC-CChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHHh
Q 042491 95 ETMYGLTQISKWLLRDSE-MSLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMAC 173 (266)
Q Consensus 95 ~~~y~lt~~s~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~ 173 (266)
.++|++|++|+.|+.+++ .++..++.++..+..++.|.+|.+++++|.++|+..+|.++|+++.++|+..+.|+.+|..
T Consensus 3 ~~~y~~t~~s~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~v~~g~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~ 82 (241)
T PF00891_consen 3 GDRYSLTPLSELLLSDHSSPSMRGFVLFMISPELYPAWFRLTEAVRTGKPPFEKAFGTPFFEYLEEDPELAKRFNAAMAE 82 (241)
T ss_dssp TEEEEE-HHHHGGSTTTTTTHHHHHHHHHTCHHHHHGGGGHHHHHHHSS-HHHHHHSS-HHHHHHCSHHHHHHHHHHHHH
T ss_pred CCEEeChHHHHHHhCCCCcCcHHHHHHHhcCHHHHHHHHHHHhhhccCCCHHHHhcCCcHHHhhhhChHHHHHHHHHHHh
Confidence 389999999997776664 5788888886677889999999999999999999999999999999999999999999999
Q ss_pred hhHHHH-HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCCCCCCcc
Q 042491 174 TAKIVM-STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVPNAD 252 (266)
Q Consensus 174 ~~~~~~-~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~~p~aD 252 (266)
.+.... +.++..++ |++.++|||||||+|.++.+++++||+++++++|+|+|++.+++.+||++++||||+++|.+|
T Consensus 83 ~~~~~~~~~~~~~~d--~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~v~~~~~~~~rv~~~~gd~f~~~P~~D 160 (241)
T PF00891_consen 83 YSRLNAFDILLEAFD--FSGFKTVVDVGGGSGHFAIALARAYPNLRATVFDLPEVIEQAKEADRVEFVPGDFFDPLPVAD 160 (241)
T ss_dssp HHHHHHHHHHHHHST--TTTSSEEEEET-TTSHHHHHHHHHSTTSEEEEEE-HHHHCCHHHTTTEEEEES-TTTCCSSES
T ss_pred hhhcchhhhhhcccc--ccCccEEEeccCcchHHHHHHHHHCCCCcceeeccHhhhhccccccccccccccHHhhhcccc
Confidence 988877 78888898 899999999999999999999999999999999999999988889999999999999999999
Q ss_pred EEEeccccccCCC
Q 042491 253 AVFMKVIVLIQDL 265 (266)
Q Consensus 253 ~~~l~~vLHd~~~ 265 (266)
+|+|++|||+|++
T Consensus 161 ~~~l~~vLh~~~d 173 (241)
T PF00891_consen 161 VYLLRHVLHDWSD 173 (241)
T ss_dssp EEEEESSGGGS-H
T ss_pred ceeeehhhhhcch
Confidence 9999999999986
No 3
>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU. Members of this protein family are the S-adenosylmethionine-depenedent C-20 methyltransferase BchU, part of the pathway of bacteriochlorophyll c production in photosynthetic green sulfur bacteria. The position modified by this enzyme represents the difference between bacteriochlorophylls c and d; strains lacking this protein can only produced bacteriochlorophyll d.
Probab=100.00 E-value=9.3e-34 Score=252.49 Aligned_cols=216 Identities=24% Similarity=0.366 Sum_probs=166.9
Q ss_pred HHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491 26 DSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK 105 (266)
Q Consensus 26 ~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~ 105 (266)
..++|++|++|||||+|.+ +|.|++|||+++|++++. +.|+||+|+++|+|++.+ ++|++|+.++
T Consensus 3 ~~~~l~aa~~Lglfd~L~~--gp~t~~eLA~~~~~~~~~------~~~lL~~L~~lgll~~~~-------~~y~~t~~~~ 67 (306)
T TIGR02716 3 EFSCMKAAIELDLFSHMAE--GPKDLATLAADTGSVPPR------LEMLLETLRQMRVINLED-------GKWSLTEFAD 67 (306)
T ss_pred hHHHHHHHHHcCcHHHHhc--CCCCHHHHHHHcCCChHH------HHHHHHHHHhCCCeEecC-------CcEecchhHH
Confidence 5689999999999999987 799999999999999887 999999999999999876 8999999997
Q ss_pred hhh-cCCCC---ChHHHHHHhcChhhhhhhhhhHHHHhcCCchhhhhhCCCcchhcccCchHHHHHHHHHHhhhHHHHHH
Q 042491 106 WLL-RDSEM---SLAPMILFQNSQLLQAPCHHLSQCVEEGGHAFKKAHGCEMWDFASQNSQFNNSFNKAMACTAKIVMST 181 (266)
Q Consensus 106 ~l~-~~~~~---~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~ 181 (266)
.+. ++++. ++.++..++. ......|.++.+++|+ +++|+... ++....++....|...++.......+.
T Consensus 68 ~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~r~-~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~ 140 (306)
T TIGR02716 68 YMFSPTPKEPNLHQTPVAKAMA-FLADDFYMGLSQAVRG-QKNFKGQV-----PYPPVTREDNLYFEEIHRSNAKFAIQL 140 (306)
T ss_pred hhccCCccchhhhcCchHHHHH-HHHHHHHHhHHHHhcC-Cccccccc-----CCCCCCHHHHHhHHHHHHhcchhHHHH
Confidence 544 43322 1123333331 1234678999999984 43443322 222222333333433333444455666
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCCCccE
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVPNADA 253 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p~aD~ 253 (266)
+++.++ +++..+|||||||+|.+++.+++++|+++++++|+|++++.+++ .+||+++++|+++ ++|++|+
T Consensus 141 l~~~~~--~~~~~~vlDiG~G~G~~~~~~~~~~p~~~~~~~D~~~~~~~a~~~~~~~gl~~rv~~~~~d~~~~~~~~~D~ 218 (306)
T TIGR02716 141 LLEEAK--LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAAEKGVADRMRGIAVDIYKESYPEADA 218 (306)
T ss_pred HHHHcC--CCCCCEEEEeCCchhHHHHHHHHHCCCCEEEEEecHHHHHHHHHHHHhCCccceEEEEecCccCCCCCCCCE
Confidence 777777 78889999999999999999999999999999999999987653 5799999999997 6888999
Q ss_pred EEeccccccCCC
Q 042491 254 VFMKVIVLIQDL 265 (266)
Q Consensus 254 ~~l~~vLHd~~~ 265 (266)
|+++++||+|++
T Consensus 219 v~~~~~lh~~~~ 230 (306)
T TIGR02716 219 VLFCRILYSANE 230 (306)
T ss_pred EEeEhhhhcCCh
Confidence 999999999975
No 4
>PRK06922 hypothetical protein; Provisional
Probab=99.03 E-value=7.9e-10 Score=105.83 Aligned_cols=111 Identities=18% Similarity=0.194 Sum_probs=83.8
Q ss_pred CcchhcccCchHHHHHHHHHHhhhHHH--HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHH
Q 042491 152 EMWDFASQNSQFNNSFNKAMACTAKIV--MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVV 228 (266)
Q Consensus 152 ~~~~~~~~~~~~~~~f~~~m~~~~~~~--~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~ 228 (266)
.+|+++..+++..++|...|....... .......++ +.+..+|||||||+|..+..+++.+|+.+++++|+ +.++
T Consensus 378 ~~fd~fg~r~D~~dRf~~~~~yle~m~~~~~~k~~i~d--~~~g~rVLDIGCGTG~ls~~LA~~~P~~kVtGIDIS~~ML 455 (677)
T PRK06922 378 LLFDFFGLRKDAYDRFHNEEVYLEHMNSSADDKRIILD--YIKGDTIVDVGAGGGVMLDMIEEETEDKRIYGIDISENVI 455 (677)
T ss_pred HHHHHhccChhhHhHHHhHHHHHHhccccHHHHHHHhh--hcCCCEEEEeCCCCCHHHHHHHHhCCCCEEEEEECCHHHH
Confidence 578888888888888887776543321 112233445 55678999999999999999999999999999999 5557
Q ss_pred hhCCC-----CCCeEEEEccCCC-C--CC-C-ccEEEeccccccCC
Q 042491 229 ATAPV-----YEGVSHVGGDMLN-A--VP-N-ADAVFMKVIVLIQD 264 (266)
Q Consensus 229 ~~a~~-----~~ri~~~~gd~~~-~--~p-~-aD~~~l~~vLHd~~ 264 (266)
+.+++ ..+++++.+|..+ + ++ + +|+|+++.++|+|.
T Consensus 456 e~Ararl~~~g~~ie~I~gDa~dLp~~fedeSFDvVVsn~vLH~L~ 501 (677)
T PRK06922 456 DTLKKKKQNEGRSWNVIKGDAINLSSSFEKESVDTIVYSSILHELF 501 (677)
T ss_pred HHHHHHhhhcCCCeEEEEcchHhCccccCCCCEEEEEEchHHHhhh
Confidence 66543 3568889999876 3 44 3 99999999999873
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=99.02 E-value=8.3e-10 Score=83.26 Aligned_cols=71 Identities=21% Similarity=0.352 Sum_probs=59.8
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccC-CC-CCC-CccEEEecc-cc
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDM-LN-AVP-NADAVFMKV-IV 260 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~-~~-~~p-~aD~~~l~~-vL 260 (266)
..+|||||||+|.++..+++.+|+.+++++|. |++++.+++ .+||+++.+|+ .. +.+ .||++++.. .+
T Consensus 2 ~~~vLDlGcG~G~~~~~l~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~D~v~~~~~~~ 81 (112)
T PF12847_consen 2 GGRVLDLGCGTGRLSIALARLFPGARVVGVDISPEMLEIARERAAEEGLSDRITFVQGDAEFDPDFLEPFDLVICSGFTL 81 (112)
T ss_dssp TCEEEEETTTTSHHHHHHHHHHTTSEEEEEESSHHHHHHHHHHHHHTTTTTTEEEEESCCHGGTTTSSCEEEEEECSGSG
T ss_pred CCEEEEEcCcCCHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECccccCcccCCCCCEEEECCCcc
Confidence 36899999999999999999999999999998 777776653 68999999999 33 333 599999999 56
Q ss_pred ccC
Q 042491 261 LIQ 263 (266)
Q Consensus 261 Hd~ 263 (266)
|.+
T Consensus 82 ~~~ 84 (112)
T PF12847_consen 82 HFL 84 (112)
T ss_dssp GGC
T ss_pred ccc
Confidence 643
No 6
>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=98.96 E-value=7e-10 Score=71.70 Aligned_cols=49 Identities=49% Similarity=0.761 Sum_probs=42.4
Q ss_pred HHHHHHHhcChhhHhhhCC-CCCCHHHHHhhcC-CCCCCCCchhhHHHHHHHHh
Q 042491 28 MALKSAVELRLADIMHCHG-SPITLPQLASGIN-SSCPDVHIIPSLTRIMRMLV 79 (266)
Q Consensus 28 ~~L~~a~elglfd~L~~~g-~~~t~~eLA~~~g-~~~~~~~~~~~l~rlLr~L~ 79 (266)
++|++|+||||||.|..+| +++|..||+.++. .++.+ +..+.|+||+|+
T Consensus 1 MaLk~aveLgI~dii~~~g~~~ls~~eia~~l~~~~p~~---~~~L~RimR~L~ 51 (51)
T PF08100_consen 1 MALKCAVELGIPDIIHNAGGGPLSLSEIAARLPTSNPSA---PPMLDRIMRLLV 51 (51)
T ss_dssp HHHHHHHHTTHHHHHHHHTTS-BEHHHHHHTSTCT-TTH---HHHHHHHHHHHH
T ss_pred CcHHHHHHcCcHHHHHHcCCCCCCHHHHHHHcCCCCcch---HHHHHHHHHHhC
Confidence 5899999999999999986 8999999999999 66554 889999999985
No 7
>PF13847 Methyltransf_31: Methyltransferase domain; PDB: 3T0I_B 3SVZ_B 3SXJ_A 3F4K_A 3GU3_B 2GH1_A 1R8Y_E 1R8X_B 2B3T_A 1T43_A ....
Probab=98.89 E-value=4e-09 Score=84.34 Aligned_cols=74 Identities=19% Similarity=0.356 Sum_probs=62.5
Q ss_pred CCceEEEecCCchHHHHHHH-HHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CC-CccEEEeccc
Q 042491 192 GIRSLVDVGGGTGEELAEIV-EFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VP-NADAVFMKVI 259 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~-~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p-~aD~~~l~~v 259 (266)
+..+|||+|||+|.++..++ +.+|..+++++|+ |++++.++. .+++++..+|+.+ + ++ .+|+++...+
T Consensus 3 ~~~~iLDlGcG~G~~~~~l~~~~~~~~~i~gvD~s~~~i~~a~~~~~~~~~~ni~~~~~d~~~l~~~~~~~~D~I~~~~~ 82 (152)
T PF13847_consen 3 SNKKILDLGCGTGRLLIQLAKELNPGAKIIGVDISEEMIEYAKKRAKELGLDNIEFIQGDIEDLPQELEEKFDIIISNGV 82 (152)
T ss_dssp TTSEEEEET-TTSHHHHHHHHHSTTTSEEEEEESSHHHHHHHHHHHHHTTSTTEEEEESBTTCGCGCSSTTEEEEEEEST
T ss_pred CCCEEEEecCcCcHHHHHHHHhcCCCCEEEEEECcHHHHHHhhcccccccccccceEEeehhccccccCCCeeEEEEcCc
Confidence 46799999999999999999 5689999999998 888877664 4689999999999 4 43 5999999999
Q ss_pred cccCCC
Q 042491 260 VLIQDL 265 (266)
Q Consensus 260 LHd~~~ 265 (266)
+|...+
T Consensus 83 l~~~~~ 88 (152)
T PF13847_consen 83 LHHFPD 88 (152)
T ss_dssp GGGTSH
T ss_pred hhhccC
Confidence 988653
No 8
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=98.89 E-value=1e-08 Score=89.10 Aligned_cols=83 Identities=25% Similarity=0.317 Sum_probs=69.3
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCCCCC--CccEEEe
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLNAVP--NADAVFM 256 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~~~p--~aD~~~l 256 (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 45667666 56678999999999999999999999999999998 888887764 468999999876323 4999999
Q ss_pred ccccccCCC
Q 042491 257 KVIVLIQDL 265 (266)
Q Consensus 257 ~~vLHd~~~ 265 (266)
..+||..++
T Consensus 96 ~~~l~~~~d 104 (255)
T PRK14103 96 NAALQWVPE 104 (255)
T ss_pred ehhhhhCCC
Confidence 999997654
No 9
>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=98.88 E-value=8.1e-09 Score=86.85 Aligned_cols=74 Identities=18% Similarity=0.320 Sum_probs=64.7
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCCC--CccEEEeccccccCC
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAVP--NADAVFMKVIVLIQD 264 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~p--~aD~~~l~~vLHd~~ 264 (266)
.+..+|||||||+|..+..+++..|..+++++|+ |++++.+++ .+++++..+|+.++++ .+|++++..+||.++
T Consensus 42 ~~~~~VLDiGCG~G~~~~~L~~~~~~~~v~giDiS~~~l~~A~~~~~~~~~~~~d~~~~~~~~sfD~V~~~~vL~hl~ 119 (204)
T TIGR03587 42 PKIASILELGANIGMNLAALKRLLPFKHIYGVEINEYAVEKAKAYLPNINIIQGSLFDPFKDNFFDLVLTKGVLIHIN 119 (204)
T ss_pred CCCCcEEEEecCCCHHHHHHHHhCCCCeEEEEECCHHHHHHHHhhCCCCcEEEeeccCCCCCCCEEEEEECChhhhCC
Confidence 3567999999999999999999999999999997 788888876 5678999999988765 399999999998765
No 10
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=98.84 E-value=2.5e-08 Score=86.60 Aligned_cols=85 Identities=24% Similarity=0.337 Sum_probs=70.1
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCCC--CccEE
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAVP--NADAV 254 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~p--~aD~~ 254 (266)
...++..++ ..+..+|||||||+|.++..+++.+|+.+++++|+ +.+++.+++ .++++++.+|+.+..+ .+|++
T Consensus 20 ~~~ll~~~~--~~~~~~vLDiGcG~G~~~~~la~~~~~~~v~gvD~s~~~i~~a~~~~~~~~~~~~d~~~~~~~~~fD~v 97 (258)
T PRK01683 20 ARDLLARVP--LENPRYVVDLGCGPGNSTELLVERWPAARITGIDSSPAMLAEARSRLPDCQFVEADIASWQPPQALDLI 97 (258)
T ss_pred HHHHHhhCC--CcCCCEEEEEcccCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhCCCCeEEECchhccCCCCCccEE
Confidence 345666666 66778999999999999999999999999999998 778877765 5679999999876333 59999
Q ss_pred EeccccccCCC
Q 042491 255 FMKVIVLIQDL 265 (266)
Q Consensus 255 ~l~~vLHd~~~ 265 (266)
++..++|...+
T Consensus 98 ~~~~~l~~~~d 108 (258)
T PRK01683 98 FANASLQWLPD 108 (258)
T ss_pred EEccChhhCCC
Confidence 99999986544
No 11
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=98.80 E-value=9.7e-08 Score=83.46 Aligned_cols=85 Identities=20% Similarity=0.284 Sum_probs=64.0
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchH----HHHHHHHHCC-----CCeEEEeec-HHHHhhCCCC--------------
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGE----ELAEIVEFYP-----HIKGVNFDL-PHVVATAPVY-------------- 234 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~----~~~~l~~~~P-----~l~~~~~Dl-p~v~~~a~~~-------------- 234 (266)
.|.++...+ .....+|+|+|||+|. ++..+.+.+| +.++++.|+ +.+++.|++.
T Consensus 88 lp~l~~~~~--~~~~~ri~d~GCgtGee~YslA~~l~e~~~~~~~~~~~I~g~Dis~~~L~~Ar~~~y~~~~~~~~~~~~ 165 (264)
T smart00138 88 LPLLIASRR--HGRRVRIWSAGCSTGEEPYSLAMLLAETLPKAREPDVKILATDIDLKALEKARAGIYPERELEDLPKAL 165 (264)
T ss_pred hHHHHHhcC--CCCCEEEEeccccCChHHHHHHHHHHHHhhhcCCCCeEEEEEECCHHHHHHHHcCCCCHHHHhcCCHHH
Confidence 455544322 3355799999999996 5667777765 578999998 7778766641
Q ss_pred -------------------CCeEEEEccCCCC-CC--CccEEEeccccccCCC
Q 042491 235 -------------------EGVSHVGGDMLNA-VP--NADAVFMKVIVLIQDL 265 (266)
Q Consensus 235 -------------------~ri~~~~gd~~~~-~p--~aD~~~l~~vLHd~~~ 265 (266)
.+|+|..+|+.++ .| .+|+|+++++||.+++
T Consensus 166 ~~~yf~~~~~~~~v~~~ir~~V~F~~~dl~~~~~~~~~fD~I~crnvl~yf~~ 218 (264)
T smart00138 166 LARYFSRVEDKYRVKPELKERVRFAKHNLLAESPPLGDFDLIFCRNVLIYFDE 218 (264)
T ss_pred HhhhEEeCCCeEEEChHHhCcCEEeeccCCCCCCccCCCCEEEechhHHhCCH
Confidence 3799999999994 43 3999999999999863
No 12
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=98.77 E-value=2.2e-08 Score=86.61 Aligned_cols=74 Identities=18% Similarity=0.249 Sum_probs=63.3
Q ss_pred CCCceEEEecCCchHHHHHHHH--HCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCCccEEEeccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVE--FYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPNADAVFMKVI 259 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~--~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~aD~~~l~~v 259 (266)
....+|||||||+|..+..+++ .+|+.+++++|. |.+++.+++ ..+|+++.+|+.+ +.+.+|++++..+
T Consensus 55 ~~~~~vLDlGcGtG~~~~~l~~~~~~~~~~v~gvD~S~~ml~~A~~~~~~~~~~~~v~~~~~d~~~~~~~~~D~vv~~~~ 134 (247)
T PRK15451 55 QPGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIRDIAIENASMVVLNFT 134 (247)
T ss_pred CCCCEEEEEcccCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEeCChhhCCCCCCCEEehhhH
Confidence 3567999999999999999988 469999999998 888887754 3489999999988 5667999999999
Q ss_pred cccCC
Q 042491 260 VLIQD 264 (266)
Q Consensus 260 LHd~~ 264 (266)
+|..+
T Consensus 135 l~~l~ 139 (247)
T PRK15451 135 LQFLE 139 (247)
T ss_pred HHhCC
Confidence 98764
No 13
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=98.77 E-value=2.5e-08 Score=85.33 Aligned_cols=75 Identities=23% Similarity=0.196 Sum_probs=66.7
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCC--ccEEEeccccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPN--ADAVFMKVIVL 261 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~--aD~~~l~~vLH 261 (266)
...+|||||||+|.++..+++..+..+++++|. +.+++.+++ ...|+++.||..+ |+|. +|+|.++..||
T Consensus 51 ~g~~vLDva~GTGd~a~~~~k~~g~g~v~~~D~s~~ML~~a~~k~~~~~~~~i~fv~~dAe~LPf~D~sFD~vt~~fglr 130 (238)
T COG2226 51 PGDKVLDVACGTGDMALLLAKSVGTGEVVGLDISESMLEVAREKLKKKGVQNVEFVVGDAENLPFPDNSFDAVTISFGLR 130 (238)
T ss_pred CCCEEEEecCCccHHHHHHHHhcCCceEEEEECCHHHHHHHHHHhhccCccceEEEEechhhCCCCCCccCEEEeeehhh
Confidence 568999999999999999999999999999998 888887775 1229999999999 8984 99999999999
Q ss_pred cCCCC
Q 042491 262 IQDLY 266 (266)
Q Consensus 262 d~~~~ 266 (266)
+.+|+
T Consensus 131 nv~d~ 135 (238)
T COG2226 131 NVTDI 135 (238)
T ss_pred cCCCH
Confidence 98874
No 14
>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase. This model represents the S-adenosylmethionine-dependent O-methyltransferase responsible for methylation of magnesium protoporphyrin IX. This step is essentiasl for the biosynthesis of both chlorophyll and bacteriochlorophyll. This model encompasses two closely related clades, from cyanobacteria (and plants) where it is called ChlM and other photosynthetic bacteria where it is known as BchM.
Probab=98.76 E-value=5.6e-08 Score=82.42 Aligned_cols=110 Identities=15% Similarity=0.102 Sum_probs=77.9
Q ss_pred cchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhC
Q 042491 153 MWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATA 231 (266)
Q Consensus 153 ~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a 231 (266)
.|+.+...+.....+...|..........+++.+.....+..+|||||||+|.++..+++. +.+++++|. |+++..+
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~~--~~~v~gvD~s~~~i~~a 93 (219)
T TIGR02021 16 RWARIYGSGDPVSRVRQTVREGRAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAKR--GAIVKAVDISEQMVQMA 93 (219)
T ss_pred HHHHhhCCchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHHC--CCEEEEEECCHHHHHHH
Confidence 4555555555555666666444444445555554411235689999999999999999886 458899997 7777766
Q ss_pred CC-------CCCeEEEEccCCCCCCCccEEEeccccccCC
Q 042491 232 PV-------YEGVSHVGGDMLNAVPNADAVFMKVIVLIQD 264 (266)
Q Consensus 232 ~~-------~~ri~~~~gd~~~~~p~aD~~~l~~vLHd~~ 264 (266)
++ .+++++..+|+.+..+.+|++++..++|.++
T Consensus 94 ~~~~~~~~~~~~i~~~~~d~~~~~~~fD~ii~~~~l~~~~ 133 (219)
T TIGR02021 94 RNRAQGRDVAGNVEFEVNDLLSLCGEFDIVVCMDVLIHYP 133 (219)
T ss_pred HHHHHhcCCCCceEEEECChhhCCCCcCEEEEhhHHHhCC
Confidence 54 2589999999887334599999999988765
No 15
>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=98.76 E-value=1.7e-08 Score=86.79 Aligned_cols=74 Identities=16% Similarity=0.180 Sum_probs=63.6
Q ss_pred CCCceEEEecCCchHHHHHHHHHC--CCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCCccEEEeccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFY--PHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPNADAVFMKVI 259 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~--P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~aD~~~l~~v 259 (266)
....+|||||||+|..+..+++.+ |+.+++++|+ |++++.+++ ..+++++.+|+.+ +++.+|++++..+
T Consensus 52 ~~~~~iLDlGcG~G~~~~~l~~~~~~p~~~v~gvD~s~~ml~~a~~~~~~~~~~~~v~~~~~d~~~~~~~~~d~v~~~~~ 131 (239)
T TIGR00740 52 TPDSNVYDLGCSRGAATLSARRNINQPNVKIIGIDNSQPMVERCRQHIAAYHSEIPVEILCNDIRHVEIKNASMVILNFT 131 (239)
T ss_pred CCCCEEEEecCCCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECChhhCCCCCCCEEeeecc
Confidence 355799999999999999999974 8899999999 888877654 3579999999998 6778999999999
Q ss_pred cccCC
Q 042491 260 VLIQD 264 (266)
Q Consensus 260 LHd~~ 264 (266)
||.++
T Consensus 132 l~~~~ 136 (239)
T TIGR00740 132 LQFLP 136 (239)
T ss_pred hhhCC
Confidence 99875
No 16
>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=98.73 E-value=4.2e-08 Score=83.72 Aligned_cols=83 Identities=16% Similarity=0.150 Sum_probs=66.4
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC--
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP-- 249 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p-- 249 (266)
.++..++ .....+|||||||+|.++..+++.+ |+.+++++|+ |++++.+++ .++++++.+|..+ ++|
T Consensus 36 ~~l~~l~--~~~~~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~ 113 (231)
T TIGR02752 36 DTMKRMN--VQAGTSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHGNAMELPFDDN 113 (231)
T ss_pred HHHHhcC--CCCCCEEEEeCCCcCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHhcCCCceEEEEechhcCCCCCC
Confidence 3444454 5566899999999999999999986 6789999998 677765543 4689999999987 565
Q ss_pred CccEEEeccccccCCC
Q 042491 250 NADAVFMKVIVLIQDL 265 (266)
Q Consensus 250 ~aD~~~l~~vLHd~~~ 265 (266)
.+|++++...+|..++
T Consensus 114 ~fD~V~~~~~l~~~~~ 129 (231)
T TIGR02752 114 SFDYVTIGFGLRNVPD 129 (231)
T ss_pred CccEEEEecccccCCC
Confidence 3999999999988765
No 17
>PF08242 Methyltransf_12: Methyltransferase domain; InterPro: IPR013217 Methyl transfer from the ubiquitous donor S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] Fatty acid synthase (2.3.1.85 from EC), a biosynthetic enzyme catalysing the formation of long-chain fatty acids Glycine N-methyltransferase (2.1.1.20 from EC) which catalyses the SAM-dependent methylation of glycine to form sarcosine and may play a role in regulating the methylation potential of the cell [] Enniatin synthetase, involved in non-ribosomal biosynthesis of cyclohexadepsipeptidase, enniatin [] Histamine N-methyltransferase (2.1.1.8 from EC), a SAM-dependent histamine-inactivating enzyme [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ].; PDB: 2VZ8_A 2VZ9_A.
Probab=98.69 E-value=4e-09 Score=77.97 Aligned_cols=68 Identities=24% Similarity=0.346 Sum_probs=44.9
Q ss_pred EEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------C---CCeEEEEccCCCCC-C-CccEEEeccccccCC
Q 042491 197 VDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------Y---EGVSHVGGDMLNAV-P-NADAVFMKVIVLIQD 264 (266)
Q Consensus 197 vDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~---~ri~~~~gd~~~~~-p-~aD~~~l~~vLHd~~ 264 (266)
||||||+|.++..+++++|..+.+++|. |.+++.+++ . .++++...|.++.. + .||+|++.++||.+.
T Consensus 1 LdiGcG~G~~~~~l~~~~~~~~~~~~D~s~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~V~~~~vl~~l~ 80 (99)
T PF08242_consen 1 LDIGCGTGRLLRALLEELPDARYTGVDISPSMLERARERLAELGNDNFERLRFDVLDLFDYDPPESFDLVVASNVLHHLE 80 (99)
T ss_dssp -EESTTTS-TTTTHHHHC-EEEEEEEESSSSTTSTTCCCHHHCT---EEEEE--SSS---CCC----SEEEEE-TTS--S
T ss_pred CEeCccChHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhcCCcceeEEEeecCChhhcccccccceehhhhhHhhhh
Confidence 7999999999999999999999999998 888877765 1 23555555665543 3 599999999999874
No 18
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=98.67 E-value=2.1e-07 Score=81.22 Aligned_cols=76 Identities=18% Similarity=0.162 Sum_probs=63.4
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC---------CCCeEEEEccCCC-CCCC--ccEEE
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV---------YEGVSHVGGDMLN-AVPN--ADAVF 255 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~~-~~p~--aD~~~ 255 (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 4456799999999999999999885 6789999998 777776642 3589999999987 6763 99999
Q ss_pred eccccccCCC
Q 042491 256 MKVIVLIQDL 265 (266)
Q Consensus 256 l~~vLHd~~~ 265 (266)
+..+||.+++
T Consensus 151 ~~~~l~~~~d 160 (261)
T PLN02233 151 MGYGLRNVVD 160 (261)
T ss_pred EecccccCCC
Confidence 9999998865
No 19
>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes.
Probab=98.66 E-value=4.8e-08 Score=82.97 Aligned_cols=72 Identities=19% Similarity=0.307 Sum_probs=60.1
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCCC-ccEEEeccccccC
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVPN-ADAVFMKVIVLIQ 263 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p~-aD~~~l~~vLHd~ 263 (266)
++|||||||.|..+..+++.+|+.+++++|+ |+.++.+++ .++++++.+|+.+ ++++ +|+++...++|..
T Consensus 1 ~~vLDiGcG~G~~~~~la~~~~~~~v~gid~s~~~~~~a~~~~~~~gl~~~i~~~~~d~~~~~~~~~fD~I~~~~~l~~~ 80 (224)
T smart00828 1 KRVLDFGCGYGSDLIDLAERHPHLQLHGYTISPEQAEVGRERIRALGLQGRIRIFYRDSAKDPFPDTYDLVFGFEVIHHI 80 (224)
T ss_pred CeEEEECCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhcCCCcceEEEecccccCCCCCCCCEeehHHHHHhC
Confidence 4799999999999999999999999999998 555554442 5689999999977 4555 9999999999876
Q ss_pred CC
Q 042491 264 DL 265 (266)
Q Consensus 264 ~~ 265 (266)
.+
T Consensus 81 ~~ 82 (224)
T smart00828 81 KD 82 (224)
T ss_pred CC
Confidence 54
No 20
>PLN02244 tocopherol O-methyltransferase
Probab=98.66 E-value=1.4e-07 Score=85.34 Aligned_cols=74 Identities=24% Similarity=0.185 Sum_probs=61.4
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC--CccEEEeccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP--NADAVFMKVI 259 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p--~aD~~~l~~v 259 (266)
....+|||||||+|.++..+++++ +.+++++|+ |.+++.+++ .++|+++.+|+.+ ++| .+|+|++...
T Consensus 117 ~~~~~VLDiGCG~G~~~~~La~~~-g~~v~gvD~s~~~i~~a~~~~~~~g~~~~v~~~~~D~~~~~~~~~~FD~V~s~~~ 195 (340)
T PLN02244 117 KRPKRIVDVGCGIGGSSRYLARKY-GANVKGITLSPVQAARANALAAAQGLSDKVSFQVADALNQPFEDGQFDLVWSMES 195 (340)
T ss_pred CCCCeEEEecCCCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEcCcccCCCCCCCccEEEECCc
Confidence 456899999999999999999988 679999998 565654432 4689999999988 666 3999999999
Q ss_pred cccCCC
Q 042491 260 VLIQDL 265 (266)
Q Consensus 260 LHd~~~ 265 (266)
+|++.+
T Consensus 196 ~~h~~d 201 (340)
T PLN02244 196 GEHMPD 201 (340)
T ss_pred hhccCC
Confidence 988765
No 21
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=98.64 E-value=1.7e-07 Score=77.59 Aligned_cols=77 Identities=23% Similarity=0.369 Sum_probs=62.1
Q ss_pred HhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCCC-ccEE
Q 042491 183 LSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVPN-ADAV 254 (266)
Q Consensus 183 ~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p~-aD~~ 254 (266)
+..++ .....+|||||||+|.++..+++.+|+.+++++|. |++++.+++ .++|+++.+|...++++ +|++
T Consensus 24 ~~~l~--~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~D~v 101 (187)
T PRK08287 24 LSKLE--LHRAKHLIDVGAGTGSVSIEAALQFPSLQVTAIERNPDALRLIKENRQRFGCGNIDIIPGEAPIELPGKADAI 101 (187)
T ss_pred HHhcC--CCCCCEEEEECCcCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCeEEEecCchhhcCcCCCEE
Confidence 34444 55678999999999999999999999999999999 777776653 35799999998666664 9999
Q ss_pred Eeccccc
Q 042491 255 FMKVIVL 261 (266)
Q Consensus 255 ~l~~vLH 261 (266)
++....+
T Consensus 102 ~~~~~~~ 108 (187)
T PRK08287 102 FIGGSGG 108 (187)
T ss_pred EECCCcc
Confidence 9876543
No 22
>PLN03075 nicotianamine synthase; Provisional
Probab=98.64 E-value=9.7e-08 Score=84.10 Aligned_cols=73 Identities=19% Similarity=0.221 Sum_probs=59.0
Q ss_pred CCCceEEEecCCch--HHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCCCC---CCccEEEe
Q 042491 191 DGIRSLVDVGGGTG--EELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLNAV---PNADAVFM 256 (266)
Q Consensus 191 ~~~~~vvDvGgG~G--~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~~~---p~aD~~~l 256 (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 37799999999988 44455556789999999998 677765553 478999999998742 35999999
Q ss_pred ccccccCC
Q 042491 257 KVIVLIQD 264 (266)
Q Consensus 257 ~~vLHd~~ 264 (266)
. +||+|+
T Consensus 202 ~-ALi~~d 208 (296)
T PLN03075 202 A-ALVGMD 208 (296)
T ss_pred e-cccccc
Confidence 9 999995
No 23
>PRK11207 tellurite resistance protein TehB; Provisional
Probab=98.63 E-value=1e-07 Score=79.65 Aligned_cols=81 Identities=17% Similarity=0.234 Sum_probs=63.5
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCC-
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPN- 250 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~- 250 (266)
+.+++.++ .....+|||+|||+|..+..++++ ..+++++|+ |.+++.+++ ..+|++..+|+.+ ++++
T Consensus 20 ~~l~~~l~--~~~~~~vLDiGcG~G~~a~~La~~--g~~V~gvD~S~~~i~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~ 95 (197)
T PRK11207 20 SEVLEAVK--VVKPGKTLDLGCGNGRNSLYLAAN--GFDVTAWDKNPMSIANLERIKAAENLDNLHTAVVDLNNLTFDGE 95 (197)
T ss_pred HHHHHhcc--cCCCCcEEEECCCCCHHHHHHHHC--CCEEEEEeCCHHHHHHHHHHHHHcCCCcceEEecChhhCCcCCC
Confidence 45566665 445689999999999999999986 468999998 777766553 3458899999887 4554
Q ss_pred ccEEEeccccccCC
Q 042491 251 ADAVFMKVIVLIQD 264 (266)
Q Consensus 251 aD~~~l~~vLHd~~ 264 (266)
+|+|++..++|.++
T Consensus 96 fD~I~~~~~~~~~~ 109 (197)
T PRK11207 96 YDFILSTVVLMFLE 109 (197)
T ss_pred cCEEEEecchhhCC
Confidence 99999999998754
No 24
>PRK06202 hypothetical protein; Provisional
Probab=98.61 E-value=3.2e-07 Score=78.54 Aligned_cols=75 Identities=21% Similarity=0.215 Sum_probs=57.6
Q ss_pred CCCceEEEecCCchHHHHHHHHH----CCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCC--CccEEEeccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEF----YPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVP--NADAVFMKVI 259 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~----~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p--~aD~~~l~~v 259 (266)
.+..+|||||||+|.++..|++. .|+.+++++|+ |++++.+++ ..++++..++... +.+ .+|+|++..+
T Consensus 59 ~~~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~~~~~l~~~~~~fD~V~~~~~ 138 (232)
T PRK06202 59 DRPLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDPDPRAVAFARANPRRPGVTFRQAVSDELVAEGERFDVVTSNHF 138 (232)
T ss_pred CCCcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcCCHHHHHHHHhccccCCCeEEEEecccccccCCCccEEEECCe
Confidence 45689999999999999888764 46789999998 888887665 3456666654433 223 4999999999
Q ss_pred cccCCC
Q 042491 260 VLIQDL 265 (266)
Q Consensus 260 LHd~~~ 265 (266)
||+.++
T Consensus 139 lhh~~d 144 (232)
T PRK06202 139 LHHLDD 144 (232)
T ss_pred eecCCh
Confidence 998865
No 25
>COG4106 Tam Trans-aconitate methyltransferase [General function prediction only]
Probab=98.61 E-value=7.3e-08 Score=80.09 Aligned_cols=84 Identities=20% Similarity=0.322 Sum_probs=72.5
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCCC--CccEE
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAVP--NADAV 254 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~p--~aD~~ 254 (266)
+..++..++ .....+|+|+|||.|..-..|++++|....+++|. |++++.++. ...++|..+|+-+-.| .+|++
T Consensus 19 a~dLla~Vp--~~~~~~v~DLGCGpGnsTelL~~RwP~A~i~GiDsS~~Mla~Aa~rlp~~~f~~aDl~~w~p~~~~dll 96 (257)
T COG4106 19 ARDLLARVP--LERPRRVVDLGCGPGNSTELLARRWPDAVITGIDSSPAMLAKAAQRLPDATFEEADLRTWKPEQPTDLL 96 (257)
T ss_pred HHHHHhhCC--ccccceeeecCCCCCHHHHHHHHhCCCCeEeeccCCHHHHHHHHHhCCCCceecccHhhcCCCCccchh
Confidence 346777787 77889999999999999999999999999999997 899988765 7889999999998555 59999
Q ss_pred EeccccccCC
Q 042491 255 FMKVIVLIQD 264 (266)
Q Consensus 255 ~l~~vLHd~~ 264 (266)
+-+-+||=-.
T Consensus 97 faNAvlqWlp 106 (257)
T COG4106 97 FANAVLQWLP 106 (257)
T ss_pred hhhhhhhhcc
Confidence 9888887443
No 26
>PRK08317 hypothetical protein; Provisional
Probab=98.60 E-value=2.7e-07 Score=78.46 Aligned_cols=82 Identities=23% Similarity=0.239 Sum_probs=65.8
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC--Cc
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP--NA 251 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p--~a 251 (266)
+++.++ .....+|||+|||+|.++..+++.+ |..+++++|+ |..++.+++ ..++++..+|+.. +++ .+
T Consensus 11 ~~~~~~--~~~~~~vLdiG~G~G~~~~~~a~~~~~~~~v~~~d~~~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~~~~ 88 (241)
T PRK08317 11 TFELLA--VQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKERAAGLGPNVEFVRGDADGLPFPDGSF 88 (241)
T ss_pred HHHHcC--CCCCCEEEEeCCCCCHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHHhhCCCCceEEEecccccCCCCCCCc
Confidence 445555 5677899999999999999999998 8889999998 555554432 4679999999887 554 39
Q ss_pred cEEEeccccccCCC
Q 042491 252 DAVFMKVIVLIQDL 265 (266)
Q Consensus 252 D~~~l~~vLHd~~~ 265 (266)
|++++.+++|.+.+
T Consensus 89 D~v~~~~~~~~~~~ 102 (241)
T PRK08317 89 DAVRSDRVLQHLED 102 (241)
T ss_pred eEEEEechhhccCC
Confidence 99999999998764
No 27
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=98.59 E-value=1.8e-07 Score=81.69 Aligned_cols=82 Identities=21% Similarity=0.353 Sum_probs=65.0
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCC--c
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPN--A 251 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~--a 251 (266)
..++..++ ..+..+|||||||+|..+..+++.+ ..+++++|+ |.+++.+++ .++|+++.+|+.+ ++|. +
T Consensus 42 ~~~l~~l~--l~~~~~VLDiGcG~G~~a~~la~~~-~~~v~giD~s~~~~~~a~~~~~~~~~i~~~~~D~~~~~~~~~~F 118 (263)
T PTZ00098 42 TKILSDIE--LNENSKVLDIGSGLGGGCKYINEKY-GAHVHGVDICEKMVNIAKLRNSDKNKIEFEANDILKKDFPENTF 118 (263)
T ss_pred HHHHHhCC--CCCCCEEEEEcCCCChhhHHHHhhc-CCEEEEEECCHHHHHHHHHHcCcCCceEEEECCcccCCCCCCCe
Confidence 34566665 6677899999999999999998876 579999998 666665543 4689999999987 6763 9
Q ss_pred cEEEeccccccCC
Q 042491 252 DAVFMKVIVLIQD 264 (266)
Q Consensus 252 D~~~l~~vLHd~~ 264 (266)
|+|+...++|.++
T Consensus 119 D~V~s~~~l~h~~ 131 (263)
T PTZ00098 119 DMIYSRDAILHLS 131 (263)
T ss_pred EEEEEhhhHHhCC
Confidence 9999988776654
No 28
>PF01209 Ubie_methyltran: ubiE/COQ5 methyltransferase family; InterPro: IPR004033 A number of methyltransferases have been shown to share regions of similarities []. Apart from the ubiquinone/menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the ubiE gene of Escherichia coli), the ubiquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the COQ5 gene of Saccharomyces cerevisiae) and the menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the MENH gene of Bacillus subtilis), this family also includes methyltransferases involved in biotin and sterol biosynthesis and in phosphatidylethanolamine methylation.; GO: 0008168 methyltransferase activity; PDB: 1VL5_C.
Probab=98.58 E-value=1e-07 Score=81.71 Aligned_cols=76 Identities=25% Similarity=0.290 Sum_probs=55.0
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCC--ccEEEecc
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPN--ADAVFMKV 258 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~--aD~~~l~~ 258 (266)
.....+|||||||+|..+..+++.. |+.+++++|. +.+++.+++ ..+|+++.+|..+ |+|. +|+++++.
T Consensus 45 ~~~g~~vLDv~~GtG~~~~~l~~~~~~~~~v~~vD~s~~ML~~a~~k~~~~~~~~i~~v~~da~~lp~~d~sfD~v~~~f 124 (233)
T PF01209_consen 45 LRPGDRVLDVACGTGDVTRELARRVGPNGKVVGVDISPGMLEVARKKLKREGLQNIEFVQGDAEDLPFPDNSFDAVTCSF 124 (233)
T ss_dssp --S--EEEEET-TTSHHHHHHGGGSS---EEEEEES-HHHHHHHHHHHHHTT--SEEEEE-BTTB--S-TT-EEEEEEES
T ss_pred CCCCCEEEEeCCChHHHHHHHHHHCCCccEEEEecCCHHHHHHHHHHHHhhCCCCeeEEEcCHHHhcCCCCceeEEEHHh
Confidence 3456799999999999999999985 6789999998 888887764 3589999999998 7884 99999999
Q ss_pred ccccCCC
Q 042491 259 IVLIQDL 265 (266)
Q Consensus 259 vLHd~~~ 265 (266)
.||+.+|
T Consensus 125 glrn~~d 131 (233)
T PF01209_consen 125 GLRNFPD 131 (233)
T ss_dssp -GGG-SS
T ss_pred hHHhhCC
Confidence 9999876
No 29
>PF08241 Methyltransf_11: Methyltransferase domain; InterPro: IPR013216 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Arsenite methyltransferase (2.1.1.137 from EC) which converts arsenical compounds to their methylated forms [] Biotin synthesis protein bioC, which is involved in the early stages of biotin biosyntheis [] Arginine N-methyltransferase 1, an arginine-methylating enzyme which acts on residues present in a glycine and argine-rich domain and can methylate histones [] Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Sterol 24-C-methyltransferase (2.1.1.41 from EC), shown to participate in ergosterol biosynthesis [] 3-demethylubiquinone-9 3-methyltransferase (2.1.1.64 from EC) involved in ubiquinone biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ]. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 3CGG_B 3CCF_B 3BKW_B 2PXX_A 3I9F_A 2YQZ_B 2YR0_A 3BUS_A 3EGE_A 3G5L_B ....
Probab=98.57 E-value=1.6e-07 Score=67.93 Aligned_cols=67 Identities=27% Similarity=0.390 Sum_probs=55.7
Q ss_pred EEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCCC--ccEEEeccccccCC
Q 042491 197 VDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVPN--ADAVFMKVIVLIQD 264 (266)
Q Consensus 197 vDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p~--aD~~~l~~vLHd~~ 264 (266)
||||||+|..+..++++ |..+++++|. ++.++.+++ ..+++++.+|+.+ ++|. +|++++.+++|.+.
T Consensus 1 LdiG~G~G~~~~~l~~~-~~~~v~~~D~~~~~~~~~~~~~~~~~~~~~~~d~~~l~~~~~sfD~v~~~~~~~~~~ 74 (95)
T PF08241_consen 1 LDIGCGTGRFAAALAKR-GGASVTGIDISEEMLEQARKRLKNEGVSFRQGDAEDLPFPDNSFDVVFSNSVLHHLE 74 (95)
T ss_dssp EEET-TTSHHHHHHHHT-TTCEEEEEES-HHHHHHHHHHTTTSTEEEEESBTTSSSS-TT-EEEEEEESHGGGSS
T ss_pred CEecCcCCHHHHHHHhc-cCCEEEEEeCCHHHHHHHHhcccccCchheeehHHhCccccccccccccccceeecc
Confidence 79999999999999999 9999999998 555665554 5678899999988 7773 99999999999874
No 30
>PRK05785 hypothetical protein; Provisional
Probab=98.57 E-value=3.8e-07 Score=77.94 Aligned_cols=71 Identities=18% Similarity=0.217 Sum_probs=59.6
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCCC--ccEEEeccccccCCC
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVPN--ADAVFMKVIVLIQDL 265 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p~--aD~~~l~~vLHd~~~ 265 (266)
...+|||||||+|.++..+++.+ +.+++++|. +++++.+++. ..++.+|+.+ |+|. +|++++...||.++|
T Consensus 51 ~~~~VLDlGcGtG~~~~~l~~~~-~~~v~gvD~S~~Ml~~a~~~--~~~~~~d~~~lp~~d~sfD~v~~~~~l~~~~d 125 (226)
T PRK05785 51 RPKKVLDVAAGKGELSYHFKKVF-KYYVVALDYAENMLKMNLVA--DDKVVGSFEALPFRDKSFDVVMSSFALHASDN 125 (226)
T ss_pred CCCeEEEEcCCCCHHHHHHHHhc-CCEEEEECCCHHHHHHHHhc--cceEEechhhCCCCCCCEEEEEecChhhccCC
Confidence 35799999999999999999998 578999998 8888877652 3467788887 6663 999999999998875
No 31
>PLN02490 MPBQ/MSBQ methyltransferase
Probab=98.55 E-value=2.7e-07 Score=83.13 Aligned_cols=74 Identities=27% Similarity=0.268 Sum_probs=63.4
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCCC--ccEEEeccccccCC
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVPN--ADAVFMKVIVLIQD 264 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p~--aD~~~l~~vLHd~~ 264 (266)
...+|||||||+|.++..+++.+|..+++++|. +++++.+++ ..+++++.+|+.+ +++. +|+|++..++|.|.
T Consensus 113 ~~~~VLDLGcGtG~~~l~La~~~~~~~VtgVD~S~~mL~~A~~k~~~~~i~~i~gD~e~lp~~~~sFDvVIs~~~L~~~~ 192 (340)
T PLN02490 113 RNLKVVDVGGGTGFTTLGIVKHVDAKNVTILDQSPHQLAKAKQKEPLKECKIIEGDAEDLPFPTDYADRYVSAGSIEYWP 192 (340)
T ss_pred CCCEEEEEecCCcHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhhhccCCeEEeccHHhCCCCCCceeEEEEcChhhhCC
Confidence 457999999999999999999999899999998 777776654 4679999999987 5653 99999999999987
Q ss_pred C
Q 042491 265 L 265 (266)
Q Consensus 265 ~ 265 (266)
+
T Consensus 193 d 193 (340)
T PLN02490 193 D 193 (340)
T ss_pred C
Confidence 5
No 32
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=98.55 E-value=8.2e-07 Score=75.64 Aligned_cols=83 Identities=18% Similarity=0.147 Sum_probs=65.2
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC-
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP- 249 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p- 249 (266)
.++..+. ..+..+|+|||||.|.++..+++.+| +.+++++|+ +.+++.+++ ..+++++.+|+.+ +.+
T Consensus 42 ~~~~~~~--~~~~~~vldiG~G~G~~~~~l~~~~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~~~~~~ 119 (239)
T PRK00216 42 KTIKWLG--VRPGDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGDAEALPFPD 119 (239)
T ss_pred HHHHHhC--CCCCCeEEEeCCCCCHHHHHHHHHcCCCCeEEEEeCCHHHHHHHHHhhcccccccCeEEEecccccCCCCC
Confidence 3444444 33557999999999999999999998 789999998 556555443 3579999999988 443
Q ss_pred -CccEEEeccccccCCC
Q 042491 250 -NADAVFMKVIVLIQDL 265 (266)
Q Consensus 250 -~aD~~~l~~vLHd~~~ 265 (266)
.+|+|++..++|.+++
T Consensus 120 ~~~D~I~~~~~l~~~~~ 136 (239)
T PRK00216 120 NSFDAVTIAFGLRNVPD 136 (239)
T ss_pred CCccEEEEecccccCCC
Confidence 3999999999998765
No 33
>TIGR02072 BioC biotin biosynthesis protein BioC. This enzyme, which is found in biotin biosynthetic gene clusters in proteobacteria, firmicutes, green-sulfur bacteria, fusobacterium and bacteroides, is believed to carry out an enzymatic step prior to the formation of pimeloyl-CoA (although attribution of this annotation is not traceable). The enzyme appears related to methyltransferases by homology.
Probab=98.54 E-value=3.3e-07 Score=77.99 Aligned_cols=73 Identities=22% Similarity=0.333 Sum_probs=60.5
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCCeEEEEccCCC-CCC--CccEEEeccccccCC
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQD 264 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~~ 264 (266)
...+|||||||+|.++..+++.+|+.+++++|. +.++..++. .++++++.+|+.+ ++| .+|+++...++|...
T Consensus 34 ~~~~vLDlG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~fD~vi~~~~l~~~~ 112 (240)
T TIGR02072 34 IPASVLDIGCGTGYLTRALLKRFPQAEFIALDISAGMLAQAKTKLSENVQFICGDAEKLPLEDSSFDLIVSNLALQWCD 112 (240)
T ss_pred CCCeEEEECCCccHHHHHHHHhCCCCcEEEEeChHHHHHHHHHhcCCCCeEEecchhhCCCCCCceeEEEEhhhhhhcc
Confidence 347999999999999999999999999999998 555555443 3589999999988 544 399999999998653
No 34
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=98.53 E-value=9.2e-08 Score=71.00 Aligned_cols=69 Identities=20% Similarity=0.320 Sum_probs=53.0
Q ss_pred EEEecCCchHHHHHHHHHC---CCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC--CccEEEec-ccccc
Q 042491 196 LVDVGGGTGEELAEIVEFY---PHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP--NADAVFMK-VIVLI 262 (266)
Q Consensus 196 vvDvGgG~G~~~~~l~~~~---P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p--~aD~~~l~-~vLHd 262 (266)
|||+|||+|..++.+.+.+ |+.+.+++|+ +++++.+++ ..+++++.+|+.+ +++ .+|+|++. .++|.
T Consensus 1 ILDlgcG~G~~~~~l~~~~~~~~~~~~~gvD~s~~~l~~~~~~~~~~~~~~~~~~~D~~~l~~~~~~~D~v~~~~~~~~~ 80 (101)
T PF13649_consen 1 ILDLGCGTGRVTRALARRFDAGPSSRVIGVDISPEMLELAKKRFSEDGPKVRFVQADARDLPFSDGKFDLVVCSGLSLHH 80 (101)
T ss_dssp -EEET-TTSHHHHHHHHHS-----SEEEEEES-HHHHHHHHHHSHHTTTTSEEEESCTTCHHHHSSSEEEEEE-TTGGGG
T ss_pred CEEeecCCcHHHHHHHHHhhhcccceEEEEECCHHHHHHHHHhchhcCCceEEEECCHhHCcccCCCeeEEEEcCCccCC
Confidence 7999999999999999997 6689999997 777776654 3589999999988 433 49999994 54777
Q ss_pred CC
Q 042491 263 QD 264 (266)
Q Consensus 263 ~~ 264 (266)
++
T Consensus 81 ~~ 82 (101)
T PF13649_consen 81 LS 82 (101)
T ss_dssp SS
T ss_pred CC
Confidence 65
No 35
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=98.53 E-value=3.4e-07 Score=86.48 Aligned_cols=82 Identities=20% Similarity=0.254 Sum_probs=65.4
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC-C-c
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP-N-A 251 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p-~-a 251 (266)
.+++.+. .....+|||||||+|..+..+++.+ +.+++++|+ +.+++.+++ ..+|+++.+|+++ ++| + +
T Consensus 257 ~l~~~~~--~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvDiS~~~l~~A~~~~~~~~~~v~~~~~d~~~~~~~~~~f 333 (475)
T PLN02336 257 EFVDKLD--LKPGQKVLDVGCGIGGGDFYMAENF-DVHVVGIDLSVNMISFALERAIGRKCSVEFEVADCTKKTYPDNSF 333 (475)
T ss_pred HHHHhcC--CCCCCEEEEEeccCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHhhcCCCceEEEEcCcccCCCCCCCE
Confidence 3555554 5566899999999999999998876 779999998 666665542 4689999999998 566 3 9
Q ss_pred cEEEeccccccCCC
Q 042491 252 DAVFMKVIVLIQDL 265 (266)
Q Consensus 252 D~~~l~~vLHd~~~ 265 (266)
|+|++..++|.+.+
T Consensus 334 D~I~s~~~l~h~~d 347 (475)
T PLN02336 334 DVIYSRDTILHIQD 347 (475)
T ss_pred EEEEECCcccccCC
Confidence 99999999987764
No 36
>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated
Probab=98.51 E-value=4.2e-07 Score=77.31 Aligned_cols=73 Identities=19% Similarity=0.170 Sum_probs=57.6
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCCCccEEEecccccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVPNADAVFMKVIVLI 262 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p~aD~~~l~~vLHd 262 (266)
.+..+|||||||+|.++..+++..+ +++++|. +.+++.+++ .++|++..+|+-..-..+|++++..++|.
T Consensus 62 ~~~~~vLDvGcG~G~~~~~l~~~~~--~v~~~D~s~~~i~~a~~~~~~~~~~~~i~~~~~d~~~~~~~fD~v~~~~~l~~ 139 (230)
T PRK07580 62 LTGLRILDAGCGVGSLSIPLARRGA--KVVASDISPQMVEEARERAPEAGLAGNITFEVGDLESLLGRFDTVVCLDVLIH 139 (230)
T ss_pred CCCCEEEEEeCCCCHHHHHHHHcCC--EEEEEECCHHHHHHHHHHHHhcCCccCcEEEEcCchhccCCcCEEEEcchhhc
Confidence 4567999999999999999998865 5899998 677766653 25899999994333335999999999987
Q ss_pred CCC
Q 042491 263 QDL 265 (266)
Q Consensus 263 ~~~ 265 (266)
|++
T Consensus 140 ~~~ 142 (230)
T PRK07580 140 YPQ 142 (230)
T ss_pred CCH
Confidence 763
No 37
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=98.49 E-value=1.2e-06 Score=75.70 Aligned_cols=82 Identities=20% Similarity=0.187 Sum_probs=62.5
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCCC--ccE
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVPN--ADA 253 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p~--aD~ 253 (266)
...+++.++ .....+|||||||+|.++..+.+. ..+++++|+ |.+++.++. ...+.++.+|+.+ +++. +|+
T Consensus 31 a~~l~~~l~--~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~~D~s~~~l~~a~~~~~~~~~~~~d~~~~~~~~~~fD~ 106 (251)
T PRK10258 31 ADALLAMLP--QRKFTHVLDAGCGPGWMSRYWRER--GSQVTALDLSPPMLAQARQKDAADHYLAGDIESLPLATATFDL 106 (251)
T ss_pred HHHHHHhcC--ccCCCeEEEeeCCCCHHHHHHHHc--CCeEEEEECCHHHHHHHHhhCCCCCEEEcCcccCcCCCCcEEE
Confidence 445566555 345689999999999999888764 468999998 888887765 3446788999977 5653 999
Q ss_pred EEeccccccCC
Q 042491 254 VFMKVIVLIQD 264 (266)
Q Consensus 254 ~~l~~vLHd~~ 264 (266)
++....+|..+
T Consensus 107 V~s~~~l~~~~ 117 (251)
T PRK10258 107 AWSNLAVQWCG 117 (251)
T ss_pred EEECchhhhcC
Confidence 99998887543
No 38
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=98.48 E-value=5.6e-07 Score=80.87 Aligned_cols=73 Identities=15% Similarity=0.120 Sum_probs=57.0
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHH-HHhhC-------CCCCCeEEEEccCCC-CCCC-ccEEEeccccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPH-VVATA-------PVYEGVSHVGGDMLN-AVPN-ADAVFMKVIVL 261 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~-v~~~a-------~~~~ri~~~~gd~~~-~~p~-aD~~~l~~vLH 261 (266)
..++|||||||+|.++..+++..|. +++++|... .+... ....+|.++.+|+.+ +.++ +|+|++..+||
T Consensus 122 ~g~~VLDIGCG~G~~~~~la~~g~~-~V~GiD~S~~~l~q~~a~~~~~~~~~~i~~~~~d~e~lp~~~~FD~V~s~~vl~ 200 (322)
T PRK15068 122 KGRTVLDVGCGNGYHMWRMLGAGAK-LVVGIDPSQLFLCQFEAVRKLLGNDQRAHLLPLGIEQLPALKAFDTVFSMGVLY 200 (322)
T ss_pred CCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHhcCCCCCeEEEeCCHHHCCCcCCcCEEEECChhh
Confidence 3479999999999999999999877 599999733 33221 114589999999877 5554 99999999998
Q ss_pred cCCC
Q 042491 262 IQDL 265 (266)
Q Consensus 262 d~~~ 265 (266)
+..+
T Consensus 201 H~~d 204 (322)
T PRK15068 201 HRRS 204 (322)
T ss_pred ccCC
Confidence 7654
No 39
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.47 E-value=3.8e-07 Score=79.23 Aligned_cols=72 Identities=14% Similarity=0.225 Sum_probs=59.3
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC--CCC--CccEEEeccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN--AVP--NADAVFMKVI 259 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~--~~p--~aD~~~l~~v 259 (266)
...+|||||||+|.++..+++. ..+++++|+ |++++.+++ .++++++.+|+.+ +.+ .+|++++..+
T Consensus 44 ~~~~vLDiGcG~G~~a~~la~~--g~~v~~vD~s~~~l~~a~~~~~~~g~~~~v~~~~~d~~~l~~~~~~~fD~V~~~~v 121 (255)
T PRK11036 44 RPLRVLDAGGGEGQTAIKLAEL--GHQVILCDLSAEMIQRAKQAAEAKGVSDNMQFIHCAAQDIAQHLETPVDLILFHAV 121 (255)
T ss_pred CCCEEEEeCCCchHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHhcCCccceEEEEcCHHHHhhhcCCCCCEEEehhH
Confidence 4579999999999999999987 468999998 788877654 3689999999876 333 3999999999
Q ss_pred cccCCC
Q 042491 260 VLIQDL 265 (266)
Q Consensus 260 LHd~~~ 265 (266)
||...+
T Consensus 122 l~~~~~ 127 (255)
T PRK11036 122 LEWVAD 127 (255)
T ss_pred HHhhCC
Confidence 997654
No 40
>TIGR00138 gidB 16S rRNA methyltransferase GidB. GidB (glucose-inhibited division protein B) appears to be present and in a single copy in nearly all complete eubacterial genomes. It is missing only from some obligate intracellular species of various lineages (Chlamydiae, Ehrlichia, Wolbachia, Anaplasma, Buchnera, etc.). GidB shows a methytransferase fold in its the crystal structure, and acts as a 7-methylguanosine (m(7)G) methyltransferase, apparently specific to 16S rRNA.
Probab=98.44 E-value=2.5e-07 Score=76.37 Aligned_cols=70 Identities=17% Similarity=0.173 Sum_probs=55.4
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CC-CCccEEEeccccccC
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AV-PNADAVFMKVIVLIQ 263 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~-p~aD~~~l~~vLHd~ 263 (266)
..+|+|||||+|..+..++..+|+.+++++|. +.+++.+++ .++|+++.+|+.+ +. +.+|+|++.. +|+.
T Consensus 43 ~~~vLDiGcGtG~~s~~la~~~~~~~V~~iD~s~~~~~~a~~~~~~~~~~~i~~i~~d~~~~~~~~~fD~I~s~~-~~~~ 121 (181)
T TIGR00138 43 GKKVIDIGSGAGFPGIPLAIARPELKLTLLESNHKKVAFLREVKAELGLNNVEIVNGRAEDFQHEEQFDVITSRA-LASL 121 (181)
T ss_pred CCeEEEecCCCCccHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHhCCCCeEEEecchhhccccCCccEEEehh-hhCH
Confidence 57999999999999999999999999999998 555554432 3579999999977 22 2599988765 5553
No 41
>TIGR02469 CbiT precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit. This model recognizes the CbiT methylase which is responsible, in part (along with CbiE), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiE subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=98.43 E-value=1.5e-06 Score=66.28 Aligned_cols=78 Identities=21% Similarity=0.230 Sum_probs=59.4
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC---CCC-C
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN---AVP-N 250 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~---~~p-~ 250 (266)
+++.+. .....+|+|+|||+|.++..+++++|+.+++.+|. +..++.++. .++++++.+|... ..+ .
T Consensus 11 ~~~~~~--~~~~~~vldlG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (124)
T TIGR02469 11 TLSKLR--LRPGDVLWDIGAGSGSITIEAARLVPNGRVYAIERNPEALRLIERNARRFGVSNIVIVEGDAPEALEDSLPE 88 (124)
T ss_pred HHHHcC--CCCCCEEEEeCCCCCHHHHHHHHHCCCceEEEEcCCHHHHHHHHHHHHHhCCCceEEEeccccccChhhcCC
Confidence 344444 44557999999999999999999999999999998 666655442 4679999998764 233 4
Q ss_pred ccEEEeccccc
Q 042491 251 ADAVFMKVIVL 261 (266)
Q Consensus 251 aD~~~l~~vLH 261 (266)
+|++++....+
T Consensus 89 ~D~v~~~~~~~ 99 (124)
T TIGR02469 89 PDRVFIGGSGG 99 (124)
T ss_pred CCEEEECCcch
Confidence 99999876544
No 42
>TIGR01934 MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis methyltransferases. Note that a number of non-orthologous genes which are members of pfam03737 have been erroneously annotated as MenG methyltransferases.
Probab=98.42 E-value=1.3e-06 Score=73.60 Aligned_cols=83 Identities=17% Similarity=0.110 Sum_probs=65.9
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCC--Cc
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVP--NA 251 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p--~a 251 (266)
.++..+. ..+..+|+|+|||.|..+..+++.+|. .+++++|. |.+++.+++ ..+++++.+|+.+ +.+ .+
T Consensus 30 ~~~~~~~--~~~~~~vldiG~G~G~~~~~~~~~~~~~~~~~~iD~~~~~~~~~~~~~~~~~~i~~~~~d~~~~~~~~~~~ 107 (223)
T TIGR01934 30 RAVKLIG--VFKGQKVLDVACGTGDLAIELAKSAPDRGKVTGVDFSSEMLEVAKKKSELPLNIEFIQADAEALPFEDNSF 107 (223)
T ss_pred HHHHHhc--cCCCCeEEEeCCCCChhHHHHHHhcCCCceEEEEECCHHHHHHHHHHhccCCCceEEecchhcCCCCCCcE
Confidence 3444444 346689999999999999999999998 79999998 666665543 3679999999988 444 39
Q ss_pred cEEEeccccccCCC
Q 042491 252 DAVFMKVIVLIQDL 265 (266)
Q Consensus 252 D~~~l~~vLHd~~~ 265 (266)
|++++...+|..++
T Consensus 108 D~i~~~~~~~~~~~ 121 (223)
T TIGR01934 108 DAVTIAFGLRNVTD 121 (223)
T ss_pred EEEEEeeeeCCccc
Confidence 99999999987654
No 43
>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=98.41 E-value=7.3e-07 Score=72.75 Aligned_cols=66 Identities=24% Similarity=0.353 Sum_probs=55.2
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--CccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD~~~l~ 257 (266)
...+|||+|||+|.++..+++.+|+.+++.+|. |.+++.+++ .+.++++..|.+++++ .+|++++.
T Consensus 31 ~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~v~~~~~d~~~~~~~~~fD~Iv~N 105 (170)
T PF05175_consen 31 KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLENVEVVQSDLFEALPDGKFDLIVSN 105 (170)
T ss_dssp TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTTEEEEESSTTTTCCTTCEEEEEE-
T ss_pred cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccccccccccccccccccceeEEEEc
Confidence 557999999999999999999999999999998 666665543 2339999999999876 39999985
No 44
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=98.41 E-value=9.2e-07 Score=80.86 Aligned_cols=78 Identities=22% Similarity=0.261 Sum_probs=60.5
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---------CCCeEEEEccCCCCCC--
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---------YEGVSHVGGDMLNAVP-- 249 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~~~~p-- 249 (266)
+++.++ .....+|||+|||+|.++..+++++|+.+++.+|. +.+++.++. ..+++++.+|.++.++
T Consensus 220 lL~~lp--~~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~~~~~~~v~~~~~D~l~~~~~~ 297 (378)
T PRK15001 220 FMQHLP--ENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMPEALDRCEFMINNALSGVEPF 297 (378)
T ss_pred HHHhCC--cccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCcccCceEEEEEccccccCCCC
Confidence 455555 22346999999999999999999999999999998 466655542 2478999999998654
Q ss_pred CccEEEeccccc
Q 042491 250 NADAVFMKVIVL 261 (266)
Q Consensus 250 ~aD~~~l~~vLH 261 (266)
.+|+|++.=-+|
T Consensus 298 ~fDlIlsNPPfh 309 (378)
T PRK15001 298 RFNAVLCNPPFH 309 (378)
T ss_pred CEEEEEECcCcc
Confidence 499999964433
No 45
>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=98.39 E-value=7.7e-07 Score=78.62 Aligned_cols=66 Identities=20% Similarity=0.381 Sum_probs=56.7
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~ 257 (266)
+..+|+|+|||+|.++..+++.+|+.+++.+|. +.+++.+++ .+||+++.+|+++++| .+|++++.
T Consensus 121 ~~~~vLDlG~GsG~i~~~la~~~~~~~v~avDis~~al~~A~~n~~~~~~~~~i~~~~~D~~~~~~~~~fD~Iv~N 196 (284)
T TIGR03533 121 PVKRILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINIERHGLEDRVTLIQSDLFAALPGRKYDLIVSN 196 (284)
T ss_pred CCCEEEEEeCchhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhccCCCCccEEEEC
Confidence 457899999999999999999999999999998 777776653 3689999999998776 39999974
No 46
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=98.38 E-value=1.9e-06 Score=71.51 Aligned_cols=67 Identities=22% Similarity=0.213 Sum_probs=55.3
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC-CccEEEecc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP-NADAVFMKV 258 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p-~aD~~~l~~ 258 (266)
...+|||||||+|..+..++++.|+.+++.+|. +++++.+++ .++|+++.+|+.+ +.+ .+|++++..
T Consensus 45 ~g~~VLDiGcGtG~~al~la~~~~~~~V~giD~s~~~l~~A~~~~~~~~l~~i~~~~~d~~~~~~~~~fDlV~~~~ 120 (187)
T PRK00107 45 GGERVLDVGSGAGFPGIPLAIARPELKVTLVDSLGKKIAFLREVAAELGLKNVTVVHGRAEEFGQEEKFDVVTSRA 120 (187)
T ss_pred CCCeEEEEcCCCCHHHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHcCCCCEEEEeccHhhCCCCCCccEEEEcc
Confidence 468999999999999999999999999999998 666665553 3459999999877 233 499999864
No 47
>KOG1540 consensus Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]
Probab=98.38 E-value=2.7e-06 Score=72.52 Aligned_cols=74 Identities=24% Similarity=0.272 Sum_probs=64.0
Q ss_pred CCceEEEecCCchHHHHHHHHHCCC------CeEEEeec-HHHHhhCCC---------CCCeEEEEccCCC-CCCC--cc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPH------IKGVNFDL-PHVVATAPV---------YEGVSHVGGDMLN-AVPN--AD 252 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~------l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~~-~~p~--aD 252 (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 3489999999999999999999999 79999998 888776543 5679999999999 8884 99
Q ss_pred EEEeccccccCCC
Q 042491 253 AVFMKVIVLIQDL 265 (266)
Q Consensus 253 ~~~l~~vLHd~~~ 265 (266)
.|.+.--+.+|++
T Consensus 180 ~yTiafGIRN~th 192 (296)
T KOG1540|consen 180 AYTIAFGIRNVTH 192 (296)
T ss_pred eEEEecceecCCC
Confidence 9999988888765
No 48
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=98.37 E-value=1.2e-06 Score=73.12 Aligned_cols=80 Identities=16% Similarity=0.141 Sum_probs=59.7
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCC-Ccc
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVP-NAD 252 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p-~aD 252 (266)
.+++.++ .....+|||||||+|..+..++++ ..+++++|. |.+++.+++ .-++++..+|+.. +++ .+|
T Consensus 21 ~l~~~~~--~~~~~~vLDiGcG~G~~a~~la~~--g~~V~~iD~s~~~l~~a~~~~~~~~~~v~~~~~d~~~~~~~~~fD 96 (195)
T TIGR00477 21 AVREAVK--TVAPCKTLDLGCGQGRNSLYLSLA--GYDVRAWDHNPASIASVLDMKARENLPLRTDAYDINAAALNEDYD 96 (195)
T ss_pred HHHHHhc--cCCCCcEEEeCCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHHhCCCceeEeccchhccccCCCC
Confidence 3445554 334579999999999999999986 468999998 667765543 2247788888765 344 499
Q ss_pred EEEeccccccCC
Q 042491 253 AVFMKVIVLIQD 264 (266)
Q Consensus 253 ~~~l~~vLHd~~ 264 (266)
++++..++|..+
T Consensus 97 ~I~~~~~~~~~~ 108 (195)
T TIGR00477 97 FIFSTVVFMFLQ 108 (195)
T ss_pred EEEEecccccCC
Confidence 999999998764
No 49
>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=98.35 E-value=1.8e-06 Score=76.19 Aligned_cols=64 Identities=17% Similarity=0.367 Sum_probs=55.3
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEec
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMK 257 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~ 257 (266)
.+|+|+|||+|.++..+++.+|+.+++.+|. +.+++.+++ .+|++++.+|++++++ .+|++++.
T Consensus 116 ~~vLDlG~GsG~i~l~la~~~~~~~v~avDis~~al~~a~~n~~~~~~~~~v~~~~~d~~~~~~~~~fDlIvsN 189 (284)
T TIGR00536 116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEPLAGQKIDIIVSN 189 (284)
T ss_pred CEEEEEeccHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhccCcCCCccEEEEC
Confidence 6899999999999999999999999999998 667766553 3579999999999776 49998874
No 50
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.35 E-value=8.8e-07 Score=79.09 Aligned_cols=64 Identities=20% Similarity=0.368 Sum_probs=55.9
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEec
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMK 257 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~ 257 (266)
.+|+|+|||+|.++..+++.+|+.+++.+|+ |.+++.+++ .+||+++.+|+++.+| .+|++++.
T Consensus 135 ~~VLDlG~GsG~iai~la~~~p~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~l~~~~fDlIvsN 208 (307)
T PRK11805 135 TRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAALPGRRYDLIVSN 208 (307)
T ss_pred CEEEEEechhhHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhhCCCCCccEEEEC
Confidence 6899999999999999999999999999998 777776654 3689999999988766 39999974
No 51
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=98.34 E-value=1.9e-06 Score=78.08 Aligned_cols=71 Identities=14% Similarity=0.135 Sum_probs=58.1
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCCC-ccEEEeccccccC
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVPN-ADAVFMKVIVLIQ 263 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p~-aD~~~l~~vLHd~ 263 (266)
..+|+|+|||+|.++..+++++|+.+++++|. +.+++.++. .-..+++.+|.+...++ +|+|++.--+|+.
T Consensus 197 ~g~VLDlGCG~G~ls~~la~~~p~~~v~~vDis~~Al~~A~~nl~~n~l~~~~~~~D~~~~~~~~fDlIvsNPPFH~g 274 (342)
T PRK09489 197 KGKVLDVGCGAGVLSAVLARHSPKIRLTLSDVSAAALESSRATLAANGLEGEVFASNVFSDIKGRFDMIISNPPFHDG 274 (342)
T ss_pred CCeEEEeccCcCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCEEEEcccccccCCCccEEEECCCccCC
Confidence 35899999999999999999999999999998 566665543 22457788998886664 9999998888863
No 52
>PRK04457 spermidine synthase; Provisional
Probab=98.33 E-value=9.1e-07 Score=77.26 Aligned_cols=67 Identities=18% Similarity=0.312 Sum_probs=57.4
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC---CCC-CccEEEec
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN---AVP-NADAVFMK 257 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~---~~p-~aD~~~l~ 257 (266)
++.++|||||||.|.++..+++.+|+.+++++|+ |++++.+++ .+|++++.+|..+ ..+ .+|+|++-
T Consensus 65 ~~~~~vL~IG~G~G~l~~~l~~~~p~~~v~~VEidp~vi~~A~~~f~~~~~~~rv~v~~~Da~~~l~~~~~~yD~I~~D 143 (262)
T PRK04457 65 PRPQHILQIGLGGGSLAKFIYTYLPDTRQTAVEINPQVIAVARNHFELPENGERFEVIEADGAEYIAVHRHSTDVILVD 143 (262)
T ss_pred CCCCEEEEECCCHhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHcCCCCCCCceEEEECCHHHHHHhCCCCCCEEEEe
Confidence 3568999999999999999999999999999999 999887664 4789999999865 345 49999874
No 53
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=98.33 E-value=7.6e-07 Score=79.88 Aligned_cols=72 Identities=15% Similarity=0.059 Sum_probs=58.2
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC--CccEEEecccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP--NADAVFMKVIV 260 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p--~aD~~~l~~vL 260 (266)
...+|||||||+|.++..+++ ++.+++++|. +++++.++. ..+|+++.+|+.+ +.+ .||++++..+|
T Consensus 131 ~g~~ILDIGCG~G~~s~~La~--~g~~V~GID~s~~~i~~Ar~~~~~~~~~~~i~~~~~dae~l~~~~~~FD~Vi~~~vL 208 (322)
T PLN02396 131 EGLKFIDIGCGGGLLSEPLAR--MGATVTGVDAVDKNVKIARLHADMDPVTSTIEYLCTTAEKLADEGRKFDAVLSLEVI 208 (322)
T ss_pred CCCEEEEeeCCCCHHHHHHHH--cCCEEEEEeCCHHHHHHHHHHHHhcCcccceeEEecCHHHhhhccCCCCEEEEhhHH
Confidence 346999999999999998876 4678999998 777776653 2489999999866 433 39999999999
Q ss_pred ccCCC
Q 042491 261 LIQDL 265 (266)
Q Consensus 261 Hd~~~ 265 (266)
|+..+
T Consensus 209 eHv~d 213 (322)
T PLN02396 209 EHVAN 213 (322)
T ss_pred HhcCC
Confidence 98765
No 54
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=98.33 E-value=1.8e-06 Score=76.14 Aligned_cols=63 Identities=21% Similarity=0.338 Sum_probs=54.6
Q ss_pred eEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCCC-ccEEEec
Q 042491 195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVPN-ADAVFMK 257 (266)
Q Consensus 195 ~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p~-aD~~~l~ 257 (266)
+|+|||||+|..+..++++.|+.+++..|+ |..++.|+. ..|+.++.+|+|+++++ +|+++.+
T Consensus 113 ~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l~~~~~~~~dlf~~~~~~fDlIVsN 183 (280)
T COG2890 113 RILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGLVRVLVVQSDLFEPLRGKFDLIVSN 183 (280)
T ss_pred cEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCCccEEEEeeecccccCCceeEEEeC
Confidence 899999999999999999999999999998 777776654 26777888899999875 9998764
No 55
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=98.32 E-value=2.1e-06 Score=76.70 Aligned_cols=81 Identities=16% Similarity=0.090 Sum_probs=59.4
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhC-------CCCCCeEEEEccCCC-CC-CCc
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATA-------PVYEGVSHVGGDMLN-AV-PNA 251 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a-------~~~~ri~~~~gd~~~-~~-p~a 251 (266)
++..+. .....+|+|||||+|.++..+++..++ +++++|. +.++..+ ....++.+..+++.+ +. +.|
T Consensus 113 ~l~~l~--~~~g~~VLDvGCG~G~~~~~~~~~g~~-~v~GiDpS~~ml~q~~~~~~~~~~~~~v~~~~~~ie~lp~~~~F 189 (314)
T TIGR00452 113 VLPHLS--PLKGRTILDVGCGSGYHMWRMLGHGAK-SLVGIDPTVLFLCQFEAVRKLLDNDKRAILEPLGIEQLHELYAF 189 (314)
T ss_pred HHHhcC--CCCCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHHhccCCCeEEEECCHHHCCCCCCc
Confidence 444443 234579999999999999999998875 7899997 4343321 124688888888766 32 259
Q ss_pred cEEEeccccccCCC
Q 042491 252 DAVFMKVIVLIQDL 265 (266)
Q Consensus 252 D~~~l~~vLHd~~~ 265 (266)
|+|++..+||.+.+
T Consensus 190 D~V~s~gvL~H~~d 203 (314)
T TIGR00452 190 DTVFSMGVLYHRKS 203 (314)
T ss_pred CEEEEcchhhccCC
Confidence 99999999998754
No 56
>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].
Probab=98.31 E-value=1.1e-06 Score=72.32 Aligned_cols=70 Identities=27% Similarity=0.396 Sum_probs=54.6
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHH-HhhCCCCCCeEEEEccCCCC---CCC--ccEEEecccccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHV-VATAPVYEGVSHVGGDMLNA---VPN--ADAVFMKVIVLI 262 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v-~~~a~~~~ri~~~~gd~~~~---~p~--aD~~~l~~vLHd 262 (266)
+...+|||+|||.|.++..|.+. .++++.++|+.+. +.. .-...++++.+|+-+. +|. ||.++|++.|-.
T Consensus 12 ~pgsrVLDLGCGdG~LL~~L~~~-k~v~g~GvEid~~~v~~-cv~rGv~Viq~Dld~gL~~f~d~sFD~VIlsqtLQ~ 87 (193)
T PF07021_consen 12 EPGSRVLDLGCGDGELLAYLKDE-KQVDGYGVEIDPDNVAA-CVARGVSVIQGDLDEGLADFPDQSFDYVILSQTLQA 87 (193)
T ss_pred CCCCEEEecCCCchHHHHHHHHh-cCCeEEEEecCHHHHHH-HHHcCCCEEECCHHHhHhhCCCCCccEEehHhHHHh
Confidence 35689999999999999888776 6899999998332 222 1246789999999884 663 999999998743
No 57
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=98.25 E-value=3.1e-06 Score=74.10 Aligned_cols=76 Identities=20% Similarity=0.322 Sum_probs=61.7
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC--CccEEEecc
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP--NADAVFMKV 258 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p--~aD~~~l~~ 258 (266)
.....+|||||||+|..+..+++.. |+.+++++|+ |.+++.+++ .++++++.+|+.+ ++| .+|+++...
T Consensus 75 ~~~g~~VLDiG~G~G~~~~~~a~~~g~~~~v~gvD~s~~~l~~A~~~~~~~g~~~v~~~~~d~~~l~~~~~~fD~Vi~~~ 154 (272)
T PRK11873 75 LKPGETVLDLGSGGGFDCFLAARRVGPTGKVIGVDMTPEMLAKARANARKAGYTNVEFRLGEIEALPVADNSVDVIISNC 154 (272)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEECCCHHHHHHHHHHHHHcCCCCEEEEEcchhhCCCCCCceeEEEEcC
Confidence 4566899999999999988877764 6678999998 777777654 3689999999887 565 399999999
Q ss_pred ccccCCC
Q 042491 259 IVLIQDL 265 (266)
Q Consensus 259 vLHd~~~ 265 (266)
++|.+.+
T Consensus 155 v~~~~~d 161 (272)
T PRK11873 155 VINLSPD 161 (272)
T ss_pred cccCCCC
Confidence 9987654
No 58
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=98.25 E-value=6.3e-06 Score=69.32 Aligned_cols=80 Identities=16% Similarity=0.124 Sum_probs=60.5
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC---
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--- 249 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--- 249 (266)
+++.++ .....+|||||||+|..+..+++..+ .-+++.+|. |++++.+++ .++++++.+|+.+.+|
T Consensus 64 ~~~~l~--~~~~~~VLDiG~GsG~~~~~la~~~~~~g~V~~iD~~~~~~~~a~~~l~~~~~~~~v~~~~~d~~~~~~~~~ 141 (205)
T PRK13944 64 MCELIE--PRPGMKILEVGTGSGYQAAVCAEAIERRGKVYTVEIVKELAIYAAQNIERLGYWGVVEVYHGDGKRGLEKHA 141 (205)
T ss_pred HHHhcC--CCCCCEEEEECcCccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCcEEEEECCcccCCccCC
Confidence 344444 44567999999999999999998875 558999998 666665543 3569999999988544
Q ss_pred CccEEEeccccccC
Q 042491 250 NADAVFMKVIVLIQ 263 (266)
Q Consensus 250 ~aD~~~l~~vLHd~ 263 (266)
.+|++++...++..
T Consensus 142 ~fD~Ii~~~~~~~~ 155 (205)
T PRK13944 142 PFDAIIVTAAASTI 155 (205)
T ss_pred CccEEEEccCcchh
Confidence 49999998776543
No 59
>PF05401 NodS: Nodulation protein S (NodS); InterPro: IPR008715 This entry consists of nodulation S (NodS) proteins. The products of the rhizobial nodulation genes are involved in the biosynthesis of lipochitin oligosaccharides (LCOs), which are host-specific signal molecules required for nodule formation. NodS is an S-adenosyl-L-methionine (SAM)-dependent methyltransferase involved in N methylation of LCOs. NodS uses N-deacetylated chitooligosaccharides, the products of the NodBC proteins, as its methyl acceptors [].; GO: 0008757 S-adenosylmethionine-dependent methyltransferase activity, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3OFK_D 3OFJ_A.
Probab=98.25 E-value=1.6e-06 Score=71.53 Aligned_cols=77 Identities=17% Similarity=0.210 Sum_probs=58.4
Q ss_pred hcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCCCCCC--ccEEEec
Q 042491 185 HYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLNAVPN--ADAVFMK 257 (266)
Q Consensus 185 ~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~~~p~--aD~~~l~ 257 (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 355 45678999999999999999999963 6788898 777777664 67899999999887773 9999999
Q ss_pred cccccCCC
Q 042491 258 VIVLIQDL 265 (266)
Q Consensus 258 ~vLHd~~~ 265 (266)
-|+|++++
T Consensus 114 EVlYYL~~ 121 (201)
T PF05401_consen 114 EVLYYLDD 121 (201)
T ss_dssp S-GGGSSS
T ss_pred hHhHcCCC
Confidence 99999975
No 60
>TIGR02081 metW methionine biosynthesis protein MetW. This protein is found alongside MetX, of the enzyme that acylates homoserine as a first step toward methionine biosynthesis, in many species. It appears to act in methionine biosynthesis but is not fully characterized.
Probab=98.25 E-value=3.2e-06 Score=70.38 Aligned_cols=72 Identities=24% Similarity=0.361 Sum_probs=56.2
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC---CCC--CccEEEeccccccCCC
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN---AVP--NADAVFMKVIVLIQDL 265 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~---~~p--~aD~~~l~~vLHd~~~ 265 (266)
...+|||||||+|.++..+++. ...+++++|. ++.++.++. .+++++.+|+.+ +++ .+|++++..+||+..+
T Consensus 13 ~~~~iLDiGcG~G~~~~~l~~~-~~~~~~giD~s~~~i~~a~~-~~~~~~~~d~~~~l~~~~~~sfD~Vi~~~~l~~~~d 90 (194)
T TIGR02081 13 PGSRVLDLGCGDGELLALLRDE-KQVRGYGIEIDQDGVLACVA-RGVNVIQGDLDEGLEAFPDKSFDYVILSQTLQATRN 90 (194)
T ss_pred CCCEEEEeCCCCCHHHHHHHhc-cCCcEEEEeCCHHHHHHHHH-cCCeEEEEEhhhcccccCCCCcCEEEEhhHhHcCcC
Confidence 4569999999999999888776 4567889998 666665543 468899999865 244 3999999999997654
No 61
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=98.23 E-value=5e-06 Score=68.07 Aligned_cols=73 Identities=25% Similarity=0.313 Sum_probs=59.5
Q ss_pred HhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---CCCcc
Q 042491 183 LSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---VPNAD 252 (266)
Q Consensus 183 ~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~p~aD 252 (266)
+..+. ..+..+++|||||+|..+++++...|+.|++.+|. ++.++..+. .++++++.||--+. .|.+|
T Consensus 27 ls~L~--~~~g~~l~DIGaGtGsi~iE~a~~~p~~~v~AIe~~~~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~~~d 104 (187)
T COG2242 27 LSKLR--PRPGDRLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARFGVDNLEVVEGDAPEALPDLPSPD 104 (187)
T ss_pred HHhhC--CCCCCEEEEeCCCccHHHHHHHHhCCCceEEEEecCHHHHHHHHHHHHHhCCCcEEEEeccchHhhcCCCCCC
Confidence 44454 56778999999999999999999999999999997 555555443 68999999998774 44699
Q ss_pred EEEec
Q 042491 253 AVFMK 257 (266)
Q Consensus 253 ~~~l~ 257 (266)
.+++.
T Consensus 105 aiFIG 109 (187)
T COG2242 105 AIFIG 109 (187)
T ss_pred EEEEC
Confidence 99874
No 62
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=98.22 E-value=4.1e-06 Score=77.09 Aligned_cols=66 Identities=20% Similarity=0.241 Sum_probs=55.9
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC-CC---CccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA-VP---NADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~-~p---~aD~~~l~ 257 (266)
...+|+|||||+|.++..+++++|+.+++.+|. |.+++.+++ ..||+++.+|++++ .| .+|++++.
T Consensus 251 ~~~rVLDLGcGSG~IaiaLA~~~p~a~VtAVDiS~~ALe~AreNa~~~g~rV~fi~gDl~e~~l~~~~~FDLIVSN 326 (423)
T PRK14966 251 ENGRVWDLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLGARVEFAHGSWFDTDMPSEGKWDIIVSN 326 (423)
T ss_pred CCCEEEEEeChhhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCcEEEEEcchhccccccCCCccEEEEC
Confidence 446999999999999999999999999999999 888876654 45899999999874 43 38999874
No 63
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=98.22 E-value=8.3e-06 Score=68.97 Aligned_cols=81 Identities=17% Similarity=0.229 Sum_probs=62.3
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP-- 249 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p-- 249 (266)
..++..++ .....+|||||||+|..+..+++.. ++.+++.+|. |++++.+++ .++|+++.+|..+.++
T Consensus 66 ~~~~~~l~--~~~g~~VLdIG~GsG~~t~~la~~~~~~~~V~~vE~~~~~~~~a~~~l~~~g~~~v~~~~gd~~~~~~~~ 143 (212)
T PRK13942 66 AIMCELLD--LKEGMKVLEIGTGSGYHAAVVAEIVGKSGKVVTIERIPELAEKAKKTLKKLGYDNVEVIVGDGTLGYEEN 143 (212)
T ss_pred HHHHHHcC--CCCcCEEEEECCcccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCeEEEECCcccCCCcC
Confidence 34555565 6677899999999999999988886 4578999997 777766654 3579999999987433
Q ss_pred -CccEEEecccccc
Q 042491 250 -NADAVFMKVIVLI 262 (266)
Q Consensus 250 -~aD~~~l~~vLHd 262 (266)
.||+|++...++.
T Consensus 144 ~~fD~I~~~~~~~~ 157 (212)
T PRK13942 144 APYDRIYVTAAGPD 157 (212)
T ss_pred CCcCEEEECCCccc
Confidence 4999998766554
No 64
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=98.21 E-value=3.6e-06 Score=74.45 Aligned_cols=79 Identities=13% Similarity=0.156 Sum_probs=59.8
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC-CCC-ccE
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA-VPN-ADA 253 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~-~p~-aD~ 253 (266)
++..++ .....+|||||||+|..+..+++. ..+++++|. +.+++.+++ .-++++..+|+... +++ +|+
T Consensus 112 ~~~~~~--~~~~~~vLDlGcG~G~~~~~la~~--g~~V~avD~s~~ai~~~~~~~~~~~l~v~~~~~D~~~~~~~~~fD~ 187 (287)
T PRK12335 112 VLEAVQ--TVKPGKALDLGCGQGRNSLYLALL--GFDVTAVDINQQSLENLQEIAEKENLNIRTGLYDINSASIQEEYDF 187 (287)
T ss_pred HHHHhh--ccCCCCEEEeCCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHHcCCceEEEEechhcccccCCccE
Confidence 444444 334569999999999999999885 578999998 666665543 23688888998873 554 999
Q ss_pred EEeccccccCC
Q 042491 254 VFMKVIVLIQD 264 (266)
Q Consensus 254 ~~l~~vLHd~~ 264 (266)
+++..+||..+
T Consensus 188 I~~~~vl~~l~ 198 (287)
T PRK12335 188 ILSTVVLMFLN 198 (287)
T ss_pred EEEcchhhhCC
Confidence 99999998653
No 65
>TIGR03534 RF_mod_PrmC protein-(glutamine-N5) methyltransferase, release factor-specific. Members of this protein family are HemK (PrmC), a protein once thought to be involved in heme biosynthesis but now recognized to be a protein-glutamine methyltransferase that modifies the peptide chain release factors. All members of the seed alignment are encoded next to the release factor 1 gene (prfA) and confirmed by phylogenetic analysis. SIMBAL analysis (manuscript in prep.) shows the motif [LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers specificity for the release factors rather than for ribosomal protein L3.
Probab=98.20 E-value=6.2e-06 Score=70.98 Aligned_cols=65 Identities=22% Similarity=0.413 Sum_probs=55.1
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--CccEEEe
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NADAVFM 256 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD~~~l 256 (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 346899999999999999999999999999997 777765553 3479999999998765 3999987
No 66
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=98.17 E-value=3e-06 Score=80.64 Aligned_cols=64 Identities=11% Similarity=0.246 Sum_probs=55.5
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEe
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFM 256 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l 256 (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 46899999999999999999999999999998 677776654 4689999999998665 3999987
No 67
>TIGR00537 hemK_rel_arch HemK-related putative methylase. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. This model represents an archaeal and eukaryotic protein family that lacks an N-terminal domain found in HemK and its eubacterial homologs. It is found in a single copy in the first six completed archaeal and eukaryotic genomes.
Probab=98.17 E-value=6.6e-06 Score=67.51 Aligned_cols=70 Identities=19% Similarity=0.204 Sum_probs=56.1
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC-CccEEEeccccccC
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP-NADAVFMKVIVLIQ 263 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p-~aD~~~l~~vLHd~ 263 (266)
...+|+|+|||+|.++..+.+..+ +++.+|+ |.+++.++. .-+++++.+|+++..+ .+|++++.-.+|..
T Consensus 19 ~~~~vLdlG~G~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~~~~~fD~Vi~n~p~~~~ 95 (179)
T TIGR00537 19 KPDDVLEIGAGTGLVAIRLKGKGK--CILTTDINPFAVKELRENAKLNNVGLDVVMTDLFKGVRGKFDVILFNPPYLPL 95 (179)
T ss_pred CCCeEEEeCCChhHHHHHHHhcCC--EEEEEECCHHHHHHHHHHHHHcCCceEEEEcccccccCCcccEEEECCCCCCC
Confidence 346899999999999999999987 8999998 777776554 3468889999988544 59999988766543
No 68
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=98.17 E-value=6.9e-06 Score=66.84 Aligned_cols=74 Identities=15% Similarity=0.313 Sum_probs=56.5
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCC--c
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPN--A 251 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~--a 251 (266)
..+++.++ +....+++|||||.|.++..++++ ..+++.+|. +.+++.+++ .++++++.+|+.+ +.++ +
T Consensus 3 ~~i~~~~~--~~~~~~vLEiG~G~G~lt~~l~~~--~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~~~ 78 (169)
T smart00650 3 DKIVRAAN--LRPGDTVLEIGPGKGALTEELLER--AARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKLQP 78 (169)
T ss_pred HHHHHhcC--CCCcCEEEEECCCccHHHHHHHhc--CCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCccccCC
Confidence 34556665 556679999999999999999998 468899998 556655443 4689999999998 5554 7
Q ss_pred cEEEec
Q 042491 252 DAVFMK 257 (266)
Q Consensus 252 D~~~l~ 257 (266)
|.++..
T Consensus 79 d~vi~n 84 (169)
T smart00650 79 YKVVGN 84 (169)
T ss_pred CEEEEC
Confidence 877653
No 69
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=98.17 E-value=1.2e-05 Score=68.05 Aligned_cols=79 Identities=15% Similarity=0.195 Sum_probs=60.5
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--- 249 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--- 249 (266)
.+++.++ .....+|||||||+|.++..+++..+ +.+++.+|. |++++.+++ .++++++.+|..+..+
T Consensus 68 ~~~~~l~--~~~~~~VLDiG~GsG~~a~~la~~~~~~g~V~~vD~~~~~~~~A~~~~~~~g~~~v~~~~~d~~~~~~~~~ 145 (215)
T TIGR00080 68 MMTELLE--LKPGMKVLEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKAERRLRKLGLDNVIVIVGDGTQGWEPLA 145 (215)
T ss_pred HHHHHhC--CCCcCEEEEECCCccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCeEEEECCcccCCcccC
Confidence 3445555 55678999999999999999999875 467899996 777776653 3679999999987433
Q ss_pred CccEEEeccccc
Q 042491 250 NADAVFMKVIVL 261 (266)
Q Consensus 250 ~aD~~~l~~vLH 261 (266)
.+|++++....+
T Consensus 146 ~fD~Ii~~~~~~ 157 (215)
T TIGR00080 146 PYDRIYVTAAGP 157 (215)
T ss_pred CCCEEEEcCCcc
Confidence 499999875443
No 70
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=98.15 E-value=1e-05 Score=71.09 Aligned_cols=80 Identities=19% Similarity=0.138 Sum_probs=62.4
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCCC-cc
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVPN-AD 252 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p~-aD 252 (266)
-+++.++ .....+|+|+|||.|.+++.+++.+|+.+.+..|. ...++.+++ .++..+...|.++++++ +|
T Consensus 149 lLl~~l~--~~~~~~vlDlGCG~Gvlg~~la~~~p~~~vtmvDvn~~Av~~ar~Nl~~N~~~~~~v~~s~~~~~v~~kfd 226 (300)
T COG2813 149 LLLETLP--PDLGGKVLDLGCGYGVLGLVLAKKSPQAKLTLVDVNARAVESARKNLAANGVENTEVWASNLYEPVEGKFD 226 (300)
T ss_pred HHHHhCC--ccCCCcEEEeCCCccHHHHHHHHhCCCCeEEEEecCHHHHHHHHHhHHHcCCCccEEEEeccccccccccc
Confidence 4566676 43344999999999999999999999999999998 455555554 23336788999998775 99
Q ss_pred EEEecccccc
Q 042491 253 AVFMKVIVLI 262 (266)
Q Consensus 253 ~~~l~~vLHd 262 (266)
.|++.==+|.
T Consensus 227 ~IisNPPfh~ 236 (300)
T COG2813 227 LIISNPPFHA 236 (300)
T ss_pred EEEeCCCccC
Confidence 9998765553
No 71
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.15 E-value=1e-05 Score=70.71 Aligned_cols=67 Identities=21% Similarity=0.344 Sum_probs=55.9
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--CccEEEec
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NADAVFMK 257 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD~~~l~ 257 (266)
.+..+|+|+|||+|..+..+++.+|..+++++|. +.+++.+++ ..+++++.+|++++.+ .+|+++..
T Consensus 107 ~~~~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~~~~~~~i~~~~~d~~~~~~~~~fD~Iv~n 182 (275)
T PRK09328 107 KEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAKHGLGARVEFLQGDWFEPLPGGRFDLIVSN 182 (275)
T ss_pred cCCCEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhCCCCcEEEEEccccCcCCCCceeEEEEC
Confidence 4567999999999999999999999999999998 566655443 4689999999998765 49999873
No 72
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=98.14 E-value=3.3e-06 Score=72.52 Aligned_cols=75 Identities=16% Similarity=0.217 Sum_probs=59.8
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CC-
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VP- 249 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p- 249 (266)
++..+.. ....++|+|+|||.|..+..+++++++.+++++|+ ++.++.|++ .+||+++..|+.+- .+
T Consensus 35 LL~~~~~-~~~~~~IlDlGaG~G~l~L~la~r~~~a~I~~VEiq~~~a~~A~~nv~ln~l~~ri~v~~~Di~~~~~~~~~ 113 (248)
T COG4123 35 LLAAFAP-VPKKGRILDLGAGNGALGLLLAQRTEKAKIVGVEIQEEAAEMAQRNVALNPLEERIQVIEADIKEFLKALVF 113 (248)
T ss_pred HHHhhcc-cccCCeEEEecCCcCHHHHHHhccCCCCcEEEEEeCHHHHHHHHHHHHhCcchhceeEehhhHHHhhhcccc
Confidence 4444431 34589999999999999999999999999999998 556666554 79999999999882 22
Q ss_pred -CccEEEec
Q 042491 250 -NADAVFMK 257 (266)
Q Consensus 250 -~aD~~~l~ 257 (266)
.+|+|++.
T Consensus 114 ~~fD~Ii~N 122 (248)
T COG4123 114 ASFDLIICN 122 (248)
T ss_pred cccCEEEeC
Confidence 38999875
No 73
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=98.13 E-value=5.3e-06 Score=74.25 Aligned_cols=71 Identities=17% Similarity=0.032 Sum_probs=55.7
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCCCCCccEEEecccc
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNAVPNADAVFMKVIV 260 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~~p~aD~~~l~~vL 260 (266)
..+|||||||+|.++..+++. +.+++++|+ +.+++.+++ ..++++..+|+.+.-..+|+|++..+|
T Consensus 145 ~~~VLDlGcGtG~~a~~la~~--g~~V~gvD~S~~ml~~A~~~~~~~~~~~~~~~~~~f~~~Dl~~l~~~fD~Vv~~~vL 222 (315)
T PLN02585 145 GVTVCDAGCGTGSLAIPLALE--GAIVSASDISAAMVAEAERRAKEALAALPPEVLPKFEANDLESLSGKYDTVTCLDVL 222 (315)
T ss_pred CCEEEEecCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcccccccccceEEEEcchhhcCCCcCEEEEcCEE
Confidence 479999999999999999986 568999998 667665543 136788889975422249999999999
Q ss_pred ccCCC
Q 042491 261 LIQDL 265 (266)
Q Consensus 261 Hd~~~ 265 (266)
|++.+
T Consensus 223 ~H~p~ 227 (315)
T PLN02585 223 IHYPQ 227 (315)
T ss_pred EecCH
Confidence 87754
No 74
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=98.10 E-value=2.5e-06 Score=71.08 Aligned_cols=66 Identities=18% Similarity=0.330 Sum_probs=53.2
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C---CC--CccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A---VP--NADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~---~p--~aD~~~l~ 257 (266)
...++||||||+|.++..+++++|+.+++++|+ +.+++.+.+ .++|+++.+|+.+ + +| .+|.+++.
T Consensus 16 ~~~~ilDiGcG~G~~~~~la~~~p~~~v~gvD~~~~~l~~a~~~~~~~~l~ni~~i~~d~~~~~~~~~~~~~~d~v~~~ 94 (194)
T TIGR00091 16 KAPLHLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKANKLGLKNLHVLCGDANELLDKFFPDGSLSKVFLN 94 (194)
T ss_pred CCceEEEeCCCccHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHhCCCCEEEEccCHHHHHHhhCCCCceeEEEEE
Confidence 457999999999999999999999999999998 666665542 3589999999875 1 44 27777764
No 75
>KOG1271 consensus Methyltransferases [General function prediction only]
Probab=98.08 E-value=1e-05 Score=65.84 Aligned_cols=69 Identities=19% Similarity=0.175 Sum_probs=51.4
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC--CCC-ccEEEecccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA--VPN-ADAVFMKVIV 260 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~--~p~-aD~~~l~~vL 260 (266)
+..+|||+|||.|+++..|+++-=.-+.++.|. +..++.|+. .+.|+|+..|+++| .++ +|+|+=+-.+
T Consensus 67 ~A~~VlDLGtGNG~~L~~L~~egf~~~L~GvDYs~~AV~LA~niAe~~~~~n~I~f~q~DI~~~~~~~~qfdlvlDKGT~ 146 (227)
T KOG1271|consen 67 QADRVLDLGTGNGHLLFQLAKEGFQSKLTGVDYSEKAVELAQNIAERDGFSNEIRFQQLDITDPDFLSGQFDLVLDKGTL 146 (227)
T ss_pred cccceeeccCCchHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHhcCCCcceeEEEeeccCCcccccceeEEeecCce
Confidence 344999999999999999998864445677787 555554442 45599999999996 444 8988765544
No 76
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=98.08 E-value=9.1e-06 Score=76.85 Aligned_cols=82 Identities=17% Similarity=0.295 Sum_probs=62.8
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC---CCC--
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN---AVP-- 249 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~---~~p-- 249 (266)
+.++..++ .....+|||||||+|.++..+++.+. +++++|. +.+++.+.. .++++++.+|+.+ ++|
T Consensus 27 ~~il~~l~--~~~~~~vLDlGcG~G~~~~~la~~~~--~v~giD~s~~~l~~a~~~~~~~~~i~~~~~d~~~~~~~~~~~ 102 (475)
T PLN02336 27 PEILSLLP--PYEGKSVLELGAGIGRFTGELAKKAG--QVIALDFIESVIKKNESINGHYKNVKFMCADVTSPDLNISDG 102 (475)
T ss_pred hHHHhhcC--ccCCCEEEEeCCCcCHHHHHHHhhCC--EEEEEeCCHHHHHHHHHHhccCCceEEEEecccccccCCCCC
Confidence 44555555 34557999999999999999999864 6889997 666665432 4679999999964 355
Q ss_pred CccEEEeccccccCCC
Q 042491 250 NADAVFMKVIVLIQDL 265 (266)
Q Consensus 250 ~aD~~~l~~vLHd~~~ 265 (266)
.+|+|++..++|.+++
T Consensus 103 ~fD~I~~~~~l~~l~~ 118 (475)
T PLN02336 103 SVDLIFSNWLLMYLSD 118 (475)
T ss_pred CEEEEehhhhHHhCCH
Confidence 3999999999998754
No 77
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=98.08 E-value=1.5e-05 Score=69.44 Aligned_cols=75 Identities=17% Similarity=0.251 Sum_probs=56.9
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCCcc
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPNAD 252 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~aD 252 (266)
...+++..+ .....+|+|||||.|.+...++++. .+++++|+ +.+++.+++ .++|+++.+|+.+ ++|.+|
T Consensus 18 ~~~iv~~~~--~~~~~~VLEIG~G~G~lt~~L~~~~--~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D~~~~~~~~~d 93 (258)
T PRK14896 18 VDRIVEYAE--DTDGDPVLEIGPGKGALTDELAKRA--KKVYAIELDPRLAEFLRDDEIAAGNVEIIEGDALKVDLPEFN 93 (258)
T ss_pred HHHHHHhcC--CCCcCeEEEEeCccCHHHHHHHHhC--CEEEEEECCHHHHHHHHHHhccCCCEEEEEeccccCCchhce
Confidence 344555555 5566899999999999999999984 47888998 555555443 4789999999998 677788
Q ss_pred EEEec
Q 042491 253 AVFMK 257 (266)
Q Consensus 253 ~~~l~ 257 (266)
.++..
T Consensus 94 ~Vv~N 98 (258)
T PRK14896 94 KVVSN 98 (258)
T ss_pred EEEEc
Confidence 76553
No 78
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=98.07 E-value=2.5e-05 Score=68.50 Aligned_cols=66 Identities=20% Similarity=0.295 Sum_probs=54.3
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCC---eEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCC--CccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHI---KGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVP--NADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l---~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p--~aD~~~l~ 257 (266)
...+|||||||+|.++..+++.+|.. +++++|+ +.+++.+++ .+++++..+|..+ |++ .+|+|+..
T Consensus 85 ~~~~vLDiGcG~G~~~~~l~~~~~~~~~~~v~giD~s~~~l~~A~~~~~~~~~~~~d~~~lp~~~~sfD~I~~~ 158 (272)
T PRK11088 85 KATALLDIGCGEGYYTHALADALPEITTMQLFGLDISKVAIKYAAKRYPQVTFCVASSHRLPFADQSLDAIIRI 158 (272)
T ss_pred CCCeEEEECCcCCHHHHHHHHhcccccCCeEEEECCCHHHHHHHHHhCCCCeEEEeecccCCCcCCceeEEEEe
Confidence 44789999999999999999998864 6799998 777777654 5779999999887 665 39999864
No 79
>TIGR03704 PrmC_rel_meth putative protein-(glutamine-N5) methyltransferase, unknown substrate-specific. This protein family is closely related to two different families of protein-(glutamine-N5) methyltransferase. The first is PrmB, which modifies ribosomal protein L3 in some bacteria. The second is PrmC (HemK), which modifies peptide chain release factors 1 and 2 in most bacteria and also in eukaryotes. The glutamine side chain-binding motif NPPY shared by PrmB and PrmC is N[VAT]PY in this family. The protein substrate is unknown.
Probab=98.06 E-value=1.7e-05 Score=68.86 Aligned_cols=66 Identities=26% Similarity=0.312 Sum_probs=54.2
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCCCCC-----CccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLNAVP-----NADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~~~p-----~aD~~~l~ 257 (266)
+..+|+|+|||+|.++..+++..|..+++++|. |.+++.+++ ..+++++.+|+++.++ .+|++++.
T Consensus 86 ~~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~~~~~~~~~D~~~~l~~~~~~~fDlVv~N 160 (251)
T TIGR03704 86 GTLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLADAGGTVHEGDLYDALPTALRGRVDILAAN 160 (251)
T ss_pred CCCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEeechhhcchhcCCCEeEEEEC
Confidence 345899999999999999999999999999998 888877664 2346899999987543 38998864
No 80
>PF13659 Methyltransf_26: Methyltransferase domain; PDB: 3GJY_A 3LPM_B 2NP6_D 1AQI_B 2ADM_B 2IH2_A 2JG3_A 2IBS_D 2NP7_A 2IBT_A ....
Probab=98.04 E-value=7.2e-06 Score=62.07 Aligned_cols=67 Identities=21% Similarity=0.250 Sum_probs=53.5
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-C--CC--CccEEEecccc
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-A--VP--NADAVFMKVIV 260 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~--~p--~aD~~~l~~vL 260 (266)
.+|+|+|||+|.++..+++.. ..+++++|+ |..++.++. .+|++++.+|+++ . ++ .+|++++.--.
T Consensus 2 ~~vlD~~~G~G~~~~~~~~~~-~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~D~Iv~npP~ 80 (117)
T PF13659_consen 2 DRVLDPGCGSGTFLLAALRRG-AARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLPEPLPDGKFDLIVTNPPY 80 (117)
T ss_dssp EEEEEETSTTCHHHHHHHHHC-TCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHHHTCTTT-EEEEEE--ST
T ss_pred CEEEEcCcchHHHHHHHHHHC-CCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhchhhccCceeEEEEECCCC
Confidence 589999999999999999999 889999998 666665553 5789999999988 2 44 49999986544
Q ss_pred c
Q 042491 261 L 261 (266)
Q Consensus 261 H 261 (266)
+
T Consensus 81 ~ 81 (117)
T PF13659_consen 81 G 81 (117)
T ss_dssp T
T ss_pred c
Confidence 4
No 81
>PF13489 Methyltransf_23: Methyltransferase domain; PDB: 3JWJ_A 3JWH_B 2AOV_B 2AOT_A 1JQD_B 2AOX_A 1JQE_A 2AOU_B 2AOW_A 3DLI_C ....
Probab=98.04 E-value=1.8e-05 Score=63.00 Aligned_cols=69 Identities=17% Similarity=0.223 Sum_probs=49.4
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCC--CccEEEeccccccCCC
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQDL 265 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~~~ 265 (266)
....+|||||||.|.++..+.+..+ +++++|. +.+++. ..+....-+... +.| .+|+|++..+||..++
T Consensus 21 ~~~~~vLDiGcG~G~~~~~l~~~~~--~~~g~D~~~~~~~~----~~~~~~~~~~~~~~~~~~~fD~i~~~~~l~~~~d 93 (161)
T PF13489_consen 21 KPGKRVLDIGCGTGSFLRALAKRGF--EVTGVDISPQMIEK----RNVVFDNFDAQDPPFPDGSFDLIICNDVLEHLPD 93 (161)
T ss_dssp TTTSEEEEESSTTSHHHHHHHHTTS--EEEEEESSHHHHHH----TTSEEEEEECHTHHCHSSSEEEEEEESSGGGSSH
T ss_pred CCCCEEEEEcCCCCHHHHHHHHhCC--EEEEEECCHHHHhh----hhhhhhhhhhhhhhccccchhhHhhHHHHhhccc
Confidence 4678999999999999999966644 9999998 666665 222222222223 222 4999999999998653
No 82
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=98.03 E-value=1.6e-05 Score=69.83 Aligned_cols=67 Identities=12% Similarity=0.218 Sum_probs=52.2
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCC-CCCC
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLN-AVPN 250 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~-~~p~ 250 (266)
..+++.++ .....+|||||||+|.++..++++.+ +++++|. +.+++.+++ .++++++.+|+.+ +++.
T Consensus 32 ~~i~~~l~--~~~~~~VLEiG~G~G~lt~~L~~~~~--~v~avE~d~~~~~~~~~~~~~~~v~~i~~D~~~~~~~~ 103 (272)
T PRK00274 32 DKIVDAAG--PQPGDNVLEIGPGLGALTEPLLERAA--KVTAVEIDRDLAPILAETFAEDNLTIIEGDALKVDLSE 103 (272)
T ss_pred HHHHHhcC--CCCcCeEEEeCCCccHHHHHHHHhCC--cEEEEECCHHHHHHHHHhhccCceEEEEChhhcCCHHH
Confidence 34455555 55667999999999999999999987 7888887 666766554 3789999999988 4544
No 83
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=98.02 E-value=8.3e-06 Score=68.42 Aligned_cols=67 Identities=21% Similarity=0.328 Sum_probs=54.5
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccC-CC-C--CC-C-ccEEEecc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDM-LN-A--VP-N-ADAVFMKV 258 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~-~~-~--~p-~-aD~~~l~~ 258 (266)
...+|||||||+|..+..+++.+|+.+++++|. +++++.+++ .++++++.+|+ .. + ++ + +|++++..
T Consensus 40 ~~~~VLDiGcGtG~~~~~la~~~p~~~v~gVD~s~~~i~~a~~~~~~~~~~~v~~~~~d~~~~l~~~~~~~~~D~V~~~~ 119 (202)
T PRK00121 40 DAPIHLEIGFGKGEFLVEMAKANPDINFIGIEVHEPGVGKALKKIEEEGLTNLRLLCGDAVEVLLDMFPDGSLDRIYLNF 119 (202)
T ss_pred CCCeEEEEccCCCHHHHHHHHHCCCccEEEEEechHHHHHHHHHHHHcCCCCEEEEecCHHHHHHHHcCccccceEEEEC
Confidence 457999999999999999999999999999998 667766543 36899999998 33 3 43 3 89998754
No 84
>PRK14121 tRNA (guanine-N(7)-)-methyltransferase; Provisional
Probab=98.00 E-value=1.9e-05 Score=72.24 Aligned_cols=66 Identities=14% Similarity=0.253 Sum_probs=52.8
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC---CCCC--ccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN---AVPN--ADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~---~~p~--aD~~~l~ 257 (266)
....+||||||+|.++..+++++|+..++++|+ +.+++.+.. .++|.++.+|... .+|. .|.+++.
T Consensus 122 ~~p~vLEIGcGsG~~ll~lA~~~P~~~~iGIEI~~~~i~~a~~ka~~~gL~NV~~i~~DA~~ll~~~~~~s~D~I~ln 199 (390)
T PRK14121 122 QEKILIEIGFGSGRHLLYQAKNNPNKLFIGIEIHTPSIEQVLKQIELLNLKNLLIINYDARLLLELLPSNSVEKIFVH 199 (390)
T ss_pred CCCeEEEEcCcccHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHHhhhhCCCCceeEEEEe
Confidence 456999999999999999999999999999998 555554432 4679999999743 4663 8888864
No 85
>TIGR03438 probable methyltransferase. This model represents a distinct set of uncharacterized proteins found in the bacteria. Analysis by PSI-BLAST shows remote sequence homology to methyltransferases
Probab=98.00 E-value=1.1e-05 Score=71.95 Aligned_cols=73 Identities=14% Similarity=0.178 Sum_probs=55.0
Q ss_pred CCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC--CCC-c-----cEE
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA--VPN-A-----DAV 254 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~--~p~-a-----D~~ 254 (266)
...+|||+|||+|...+.|+++.+ ..+++.+|+ +++++.+.+ .-+|.++.|||.+. ++. . .++
T Consensus 63 ~~~~iLELGcGtG~~t~~Ll~~l~~~~~~~~iDiS~~mL~~a~~~l~~~~p~~~v~~i~gD~~~~~~~~~~~~~~~~~~~ 142 (301)
T TIGR03438 63 AGCELVELGSGSSRKTRLLLDALRQPARYVPIDISADALKESAAALAADYPQLEVHGICADFTQPLALPPEPAAGRRLGF 142 (301)
T ss_pred CCCeEEecCCCcchhHHHHHHhhccCCeEEEEECCHHHHHHHHHHHHhhCCCceEEEEEEcccchhhhhcccccCCeEEE
Confidence 457899999999999999999998 589999998 556555432 23467789999873 432 2 366
Q ss_pred EeccccccCC
Q 042491 255 FMKVIVLIQD 264 (266)
Q Consensus 255 ~l~~vLHd~~ 264 (266)
++...+|+++
T Consensus 143 ~~gs~~~~~~ 152 (301)
T TIGR03438 143 FPGSTIGNFT 152 (301)
T ss_pred EecccccCCC
Confidence 6667888765
No 86
>PRK07402 precorrin-6B methylase; Provisional
Probab=97.98 E-value=3.8e-05 Score=63.96 Aligned_cols=73 Identities=23% Similarity=0.334 Sum_probs=55.8
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC---CC-CC
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN---AV-PN 250 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~---~~-p~ 250 (266)
++..++ .....+|+|+|||+|.++..+++..|..+++.+|. |++++.+++ .++|+++.+|..+ .+ +.
T Consensus 32 l~~~l~--~~~~~~VLDiG~G~G~~~~~la~~~~~~~V~~vD~s~~~~~~a~~n~~~~~~~~v~~~~~d~~~~~~~~~~~ 109 (196)
T PRK07402 32 LISQLR--LEPDSVLWDIGAGTGTIPVEAGLLCPKGRVIAIERDEEVVNLIRRNCDRFGVKNVEVIEGSAPECLAQLAPA 109 (196)
T ss_pred HHHhcC--CCCCCEEEEeCCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCeEEEECchHHHHhhCCCC
Confidence 344444 45667999999999999999999999999999998 878776653 3579999999865 23 23
Q ss_pred ccEEEe
Q 042491 251 ADAVFM 256 (266)
Q Consensus 251 aD~~~l 256 (266)
+|.+++
T Consensus 110 ~d~v~~ 115 (196)
T PRK07402 110 PDRVCI 115 (196)
T ss_pred CCEEEE
Confidence 566554
No 87
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=97.96 E-value=4.2e-05 Score=66.95 Aligned_cols=82 Identities=18% Similarity=0.110 Sum_probs=64.1
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCCC
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVPN 250 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p~ 250 (266)
...+++.+. +++..+|||||||-|.+++.++++| +.+++++++ ++..+.+++ .++|++.-.|+.+..+.
T Consensus 61 ~~~~~~kl~--L~~G~~lLDiGCGWG~l~~~aA~~y-~v~V~GvTlS~~Q~~~~~~r~~~~gl~~~v~v~l~d~rd~~e~ 137 (283)
T COG2230 61 LDLILEKLG--LKPGMTLLDIGCGWGGLAIYAAEEY-GVTVVGVTLSEEQLAYAEKRIAARGLEDNVEVRLQDYRDFEEP 137 (283)
T ss_pred HHHHHHhcC--CCCCCEEEEeCCChhHHHHHHHHHc-CCEEEEeeCCHHHHHHHHHHHHHcCCCcccEEEeccccccccc
Confidence 456777787 8899999999999999999999999 999999998 333333332 56899999998884434
Q ss_pred ccEEEeccccccC
Q 042491 251 ADAVFMKVIVLIQ 263 (266)
Q Consensus 251 aD~~~l~~vLHd~ 263 (266)
+|-|.-.-+++..
T Consensus 138 fDrIvSvgmfEhv 150 (283)
T COG2230 138 FDRIVSVGMFEHV 150 (283)
T ss_pred cceeeehhhHHHh
Confidence 8988876666554
No 88
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=97.94 E-value=2.8e-05 Score=67.54 Aligned_cols=77 Identities=13% Similarity=0.249 Sum_probs=56.7
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC-CCCCcc-
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN-AVPNAD- 252 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~-~~p~aD- 252 (266)
..+++..+ ..+..+|+|||||+|.+...++++.+. ++++|. +.+++.++. .++++++.+|+.+ +++.+|
T Consensus 19 ~~i~~~~~--~~~~~~VLEiG~G~G~lt~~L~~~~~~--v~~iE~d~~~~~~l~~~~~~~~~v~v~~~D~~~~~~~~~d~ 94 (253)
T TIGR00755 19 QKIVEAAN--VLEGDVVLEIGPGLGALTEPLLKRAKK--VTAIEIDPRLAEILRKLLSLYERLEVIEGDALKVDLPDFPK 94 (253)
T ss_pred HHHHHhcC--CCCcCEEEEeCCCCCHHHHHHHHhCCc--EEEEECCHHHHHHHHHHhCcCCcEEEEECchhcCChhHcCC
Confidence 34555555 566789999999999999999999975 777787 555554432 4789999999998 555555
Q ss_pred -EEEecccc
Q 042491 253 -AVFMKVIV 260 (266)
Q Consensus 253 -~~~l~~vL 260 (266)
.++++|.=
T Consensus 95 ~~~vvsNlP 103 (253)
T TIGR00755 95 QLKVVSNLP 103 (253)
T ss_pred cceEEEcCC
Confidence 45555543
No 89
>PHA03411 putative methyltransferase; Provisional
Probab=97.93 E-value=2.2e-05 Score=68.43 Aligned_cols=69 Identities=14% Similarity=0.107 Sum_probs=56.8
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCCCC-C-CccEEEeccccc
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLNAV-P-NADAVFMKVIVL 261 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~~~-p-~aD~~~l~~vLH 261 (266)
..+|||+|||+|.++..++++.+..+++++|+ |.+++.+++ .++++++.+|+++.. + .+|+|+..-=.+
T Consensus 65 ~grVLDLGcGsGilsl~la~r~~~~~V~gVDisp~al~~Ar~n~~~v~~v~~D~~e~~~~~kFDlIIsNPPF~ 137 (279)
T PHA03411 65 TGKVLDLCAGIGRLSFCMLHRCKPEKIVCVELNPEFARIGKRLLPEAEWITSDVFEFESNEKFDVVISNPPFG 137 (279)
T ss_pred CCeEEEcCCCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCcCCEEEECchhhhcccCCCcEEEEcCCcc
Confidence 46899999999999999999988889999998 777777665 568999999999843 3 499999854433
No 90
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=97.90 E-value=6.7e-05 Score=69.07 Aligned_cols=80 Identities=14% Similarity=0.030 Sum_probs=60.3
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEEEccCCCCCCCccEEEe
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHVGGDMLNAVPNADAVFM 256 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~~gd~~~~~p~aD~~~l 256 (266)
.+++.++ .....+|||||||.|.++..+++.+ +.+++++|+ ++.++.+++ ...+++..+|+.+.-..+|+++.
T Consensus 158 ~l~~~l~--l~~g~rVLDIGcG~G~~a~~la~~~-g~~V~giDlS~~~l~~A~~~~~~l~v~~~~~D~~~l~~~fD~Ivs 234 (383)
T PRK11705 158 LICRKLQ--LKPGMRVLDIGCGWGGLARYAAEHY-GVSVVGVTISAEQQKLAQERCAGLPVEIRLQDYRDLNGQFDRIVS 234 (383)
T ss_pred HHHHHhC--CCCCCEEEEeCCCccHHHHHHHHHC-CCEEEEEeCCHHHHHHHHHHhccCeEEEEECchhhcCCCCCEEEE
Confidence 4455555 5667899999999999999998876 579999998 677766554 23578888887653124999998
Q ss_pred ccccccC
Q 042491 257 KVIVLIQ 263 (266)
Q Consensus 257 ~~vLHd~ 263 (266)
..++|..
T Consensus 235 ~~~~ehv 241 (383)
T PRK11705 235 VGMFEHV 241 (383)
T ss_pred eCchhhC
Confidence 8877754
No 91
>PLN02366 spermidine synthase
Probab=97.89 E-value=2.5e-05 Score=69.70 Aligned_cols=65 Identities=23% Similarity=0.290 Sum_probs=51.7
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC---CCC--CccE
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN---AVP--NADA 253 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~---~~p--~aD~ 253 (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 46789999999999999999866 65 57899998 556766543 4799999999754 343 4999
Q ss_pred EEe
Q 042491 254 VFM 256 (266)
Q Consensus 254 ~~l 256 (266)
|++
T Consensus 169 Ii~ 171 (308)
T PLN02366 169 IIV 171 (308)
T ss_pred EEE
Confidence 987
No 92
>COG2227 UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]
Probab=97.88 E-value=1e-05 Score=68.70 Aligned_cols=72 Identities=15% Similarity=0.080 Sum_probs=55.4
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCC--eEEEEccCCC-CC--CCccEEEecccccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEG--VSHVGGDMLN-AV--PNADAVFMKVIVLI 262 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~r--i~~~~gd~~~-~~--p~aD~~~l~~vLHd 262 (266)
...+|||||||.|.++..+++.. .++++.|+ ++.|+.++. ... |.+......+ .. ..||+|++..||++
T Consensus 59 ~g~~vLDvGCGgG~Lse~mAr~G--a~VtgiD~se~~I~~Ak~ha~e~gv~i~y~~~~~edl~~~~~~FDvV~cmEVlEH 136 (243)
T COG2227 59 PGLRVLDVGCGGGILSEPLARLG--ASVTGIDASEKPIEVAKLHALESGVNIDYRQATVEDLASAGGQFDVVTCMEVLEH 136 (243)
T ss_pred CCCeEEEecCCccHhhHHHHHCC--CeeEEecCChHHHHHHHHhhhhccccccchhhhHHHHHhcCCCccEEEEhhHHHc
Confidence 34799999999999999999997 78999998 777887764 222 3455555544 22 34999999999998
Q ss_pred CCC
Q 042491 263 QDL 265 (266)
Q Consensus 263 ~~~ 265 (266)
.+|
T Consensus 137 v~d 139 (243)
T COG2227 137 VPD 139 (243)
T ss_pred cCC
Confidence 765
No 93
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=97.87 E-value=8.2e-05 Score=62.70 Aligned_cols=77 Identities=14% Similarity=0.180 Sum_probs=57.1
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---Cc
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---NA 251 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---~a 251 (266)
++..++ ..+..+|||||||+|..+..+++... +++.+|. ++.++.+++ ..+++++.+|+.+.++ .+
T Consensus 70 l~~~l~--~~~~~~VLeiG~GsG~~t~~la~~~~--~v~~vd~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~~~~~f 145 (212)
T PRK00312 70 MTELLE--LKPGDRVLEIGTGSGYQAAVLAHLVR--RVFSVERIKTLQWEAKRRLKQLGLHNVSVRHGDGWKGWPAYAPF 145 (212)
T ss_pred HHHhcC--CCCCCEEEEECCCccHHHHHHHHHhC--EEEEEeCCHHHHHHHHHHHHHCCCCceEEEECCcccCCCcCCCc
Confidence 344444 55678999999999999987777754 6888886 666665543 3469999999987544 39
Q ss_pred cEEEecccccc
Q 042491 252 DAVFMKVIVLI 262 (266)
Q Consensus 252 D~~~l~~vLHd 262 (266)
|++++...++.
T Consensus 146 D~I~~~~~~~~ 156 (212)
T PRK00312 146 DRILVTAAAPE 156 (212)
T ss_pred CEEEEccCchh
Confidence 99998876654
No 94
>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=97.85 E-value=3.5e-05 Score=55.49 Aligned_cols=67 Identities=19% Similarity=0.273 Sum_probs=54.0
Q ss_pred eEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------CCCCeEEEEccCCCCC---C-CccEEEecccccc
Q 042491 195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------VYEGVSHVGGDMLNAV---P-NADAVFMKVIVLI 262 (266)
Q Consensus 195 ~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------~~~ri~~~~gd~~~~~---p-~aD~~~l~~vLHd 262 (266)
+++|+|||.|..+..+++ .+..+.+++|+ +..+..++ ...+++++.+|+.+.. + ++|++++...+|.
T Consensus 1 ~ildig~G~G~~~~~~~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~i~~~~~~~~ 78 (107)
T cd02440 1 RVLDLGCGTGALALALAS-GPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPEADESFDVIISDPPLHH 78 (107)
T ss_pred CeEEEcCCccHHHHHHhc-CCCCEEEEEeCCHHHHHHHHHHHhcccccceEEEEcChhhhccccCCceEEEEEccceee
Confidence 589999999999999998 77889999998 44444333 1578999999999842 2 4999999998886
No 95
>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=97.84 E-value=6.9e-05 Score=65.80 Aligned_cols=80 Identities=16% Similarity=0.113 Sum_probs=54.0
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC----C---CCCeEEEEccCCCCCC-
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP----V---YEGVSHVGGDMLNAVP- 249 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~----~---~~ri~~~~gd~~~~~p- 249 (266)
...+++..+ ..+..+|||||||-|.++..++++| +++++++.+ ++-.+.++ + .++|++...|+.+ ++
T Consensus 51 ~~~~~~~~~--l~~G~~vLDiGcGwG~~~~~~a~~~-g~~v~gitlS~~Q~~~a~~~~~~~gl~~~v~v~~~D~~~-~~~ 126 (273)
T PF02353_consen 51 LDLLCEKLG--LKPGDRVLDIGCGWGGLAIYAAERY-GCHVTGITLSEEQAEYARERIREAGLEDRVEVRLQDYRD-LPG 126 (273)
T ss_dssp HHHHHTTTT----TT-EEEEES-TTSHHHHHHHHHH---EEEEEES-HHHHHHHHHHHHCSTSSSTEEEEES-GGG----
T ss_pred HHHHHHHhC--CCCCCEEEEeCCCccHHHHHHHHHc-CcEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEeeccc-cCC
Confidence 456677777 7788999999999999999999999 789999988 22233222 1 6799999999876 44
Q ss_pred CccEEEecccccc
Q 042491 250 NADAVFMKVIVLI 262 (266)
Q Consensus 250 ~aD~~~l~~vLHd 262 (266)
.+|.|+..-++..
T Consensus 127 ~fD~IvSi~~~Eh 139 (273)
T PF02353_consen 127 KFDRIVSIEMFEH 139 (273)
T ss_dssp S-SEEEEESEGGG
T ss_pred CCCEEEEEechhh
Confidence 6998887666544
No 96
>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]
Probab=97.84 E-value=1.9e-05 Score=67.76 Aligned_cols=70 Identities=17% Similarity=0.108 Sum_probs=56.6
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CC----CeEEEEccCCCCCCCccEEEecccc
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YE----GVSHVGGDMLNAVPNADAVFMKVIV 260 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~----ri~~~~gd~~~~~p~aD~~~l~~vL 260 (266)
.+|||||||.|-+..-|++.- ..++++|. +.+++.|++ .. |+++...|....-+.||+|++..||
T Consensus 91 ~~ilDvGCGgGLLSepLArlg--a~V~GID~s~~~V~vA~~h~~~dP~~~~~~~y~l~~~~~~~E~~~~~fDaVvcsevl 168 (282)
T KOG1270|consen 91 MKILDVGCGGGLLSEPLARLG--AQVTGIDASDDMVEVANEHKKMDPVLEGAIAYRLEYEDTDVEGLTGKFDAVVCSEVL 168 (282)
T ss_pred ceEEEeccCccccchhhHhhC--CeeEeecccHHHHHHHHHhhhcCchhccccceeeehhhcchhhcccccceeeeHHHH
Confidence 679999999999999999996 57888897 777777764 23 5777777777755569999999999
Q ss_pred ccCCC
Q 042491 261 LIQDL 265 (266)
Q Consensus 261 Hd~~~ 265 (266)
|+..|
T Consensus 169 eHV~d 173 (282)
T KOG1270|consen 169 EHVKD 173 (282)
T ss_pred HHHhC
Confidence 87643
No 97
>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=97.83 E-value=0.00013 Score=61.74 Aligned_cols=71 Identities=15% Similarity=0.114 Sum_probs=55.4
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------------------CCCCeEEEEccCCC-C---
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------------------VYEGVSHVGGDMLN-A--- 247 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------------------~~~ri~~~~gd~~~-~--- 247 (266)
....++||+|||.|..+..|+++ ..+++++|+ |..++.+. +..+|+++.+|+++ +
T Consensus 33 ~~~~rvLd~GCG~G~da~~LA~~--G~~V~gvD~S~~Ai~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~D~~~~~~~~ 110 (213)
T TIGR03840 33 PAGARVFVPLCGKSLDLAWLAEQ--GHRVLGVELSEIAVEQFFAENGLTPTVTQQGEFTRYRAGNIEIFCGDFFALTAAD 110 (213)
T ss_pred CCCCeEEEeCCCchhHHHHHHhC--CCeEEEEeCCHHHHHHHHHHcCCCcceeccccceeeecCceEEEEccCCCCCccc
Confidence 35579999999999999999976 678999998 66566421 13579999999998 3
Q ss_pred CCCccEEEeccccccC
Q 042491 248 VPNADAVFMKVIVLIQ 263 (266)
Q Consensus 248 ~p~aD~~~l~~vLHd~ 263 (266)
.+.+|.++-+.++|..
T Consensus 111 ~~~fD~i~D~~~~~~l 126 (213)
T TIGR03840 111 LGPVDAVYDRAALIAL 126 (213)
T ss_pred CCCcCEEEechhhccC
Confidence 2348999988877754
No 98
>PF03848 TehB: Tellurite resistance protein TehB; InterPro: IPR015985 Tellurite resistance protein TehB is part of a tellurite-reducing operon tehA and tehB. When present in high copy number, TehB is responsible for potassium tellurite resistance, probably by increasing the reduction rate of tellurite to metallic tellurium within the bacterium. TehB is a cytoplasmic protein which possesses three conserved motifs (I, II, and III) found in S-adenosyl-L-methionine (SAM)-dependent non-nucleic acid methyltransferases []. Conformational changes in TehB are observed upon binding of both tellurite and SAM, suggesting that TehB utilises a methyltransferase activity in the detoxification of tellurite. This entry represents the methyltransferase domain found in all TehB proteins.; PDB: 2KW5_A 3MER_B 3M70_A 2I6G_A 4DQ0_D 2XVA_B 2XVM_A.
Probab=97.81 E-value=8.3e-05 Score=61.73 Aligned_cols=80 Identities=15% Similarity=0.193 Sum_probs=55.9
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-CCCC-c
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-AVPN-A 251 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~~p~-a 251 (266)
+.+++.++ .-...++||+|||.|..+.-|++. +..++.+|. +..++.++. .-.|+....|+.+ .+|+ +
T Consensus 20 s~v~~a~~--~~~~g~~LDlgcG~GRNalyLA~~--G~~VtAvD~s~~al~~l~~~a~~~~l~i~~~~~Dl~~~~~~~~y 95 (192)
T PF03848_consen 20 SEVLEAVP--LLKPGKALDLGCGEGRNALYLASQ--GFDVTAVDISPVALEKLQRLAEEEGLDIRTRVADLNDFDFPEEY 95 (192)
T ss_dssp HHHHHHCT--TS-SSEEEEES-TTSHHHHHHHHT--T-EEEEEESSHHHHHHHHHHHHHTT-TEEEEE-BGCCBS-TTTE
T ss_pred HHHHHHHh--hcCCCcEEEcCCCCcHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHhhcCceeEEEEecchhccccCCc
Confidence 34666666 556789999999999999999999 678999998 434444332 3348999999988 5664 9
Q ss_pred cEEEeccccccC
Q 042491 252 DAVFMKVIVLIQ 263 (266)
Q Consensus 252 D~~~l~~vLHd~ 263 (266)
|+|+..-|+|..
T Consensus 96 D~I~st~v~~fL 107 (192)
T PF03848_consen 96 DFIVSTVVFMFL 107 (192)
T ss_dssp EEEEEESSGGGS
T ss_pred CEEEEEEEeccC
Confidence 999877676653
No 99
>PRK00811 spermidine synthase; Provisional
Probab=97.81 E-value=3.4e-05 Score=68.13 Aligned_cols=67 Identities=22% Similarity=0.288 Sum_probs=53.9
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----------CCCeEEEEccCCCCC---C-CccEE
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----------YEGVSHVGGDMLNAV---P-NADAV 254 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----------~~ri~~~~gd~~~~~---p-~aD~~ 254 (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 4678999999999999999998655568999998 777776653 478999999987622 2 49999
Q ss_pred Eec
Q 042491 255 FMK 257 (266)
Q Consensus 255 ~l~ 257 (266)
++-
T Consensus 155 i~D 157 (283)
T PRK00811 155 IVD 157 (283)
T ss_pred EEC
Confidence 874
No 100
>PHA03412 putative methyltransferase; Provisional
Probab=97.80 E-value=5.7e-05 Score=64.51 Aligned_cols=65 Identities=17% Similarity=0.130 Sum_probs=53.0
Q ss_pred CceEEEecCCchHHHHHHHHHC---CCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-CCC-CccEEEec
Q 042491 193 IRSLVDVGGGTGEELAEIVEFY---PHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-AVP-NADAVFMK 257 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~---P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~~p-~aD~~~l~ 257 (266)
..+|||+|||+|.++..++++. +..+++.+|+ +.+++.++. ..++.++.+|+.. +.+ .+|+|+..
T Consensus 50 ~grVLDlG~GSG~Lalala~~~~~~~~~~V~aVEID~~Al~~Ar~n~~~~~~~~~D~~~~~~~~~FDlIIsN 121 (241)
T PHA03412 50 SGSVVDLCAGIGGLSFAMVHMMMYAKPREIVCVELNHTYYKLGKRIVPEATWINADALTTEFDTLFDMAISN 121 (241)
T ss_pred CCEEEEccChHHHHHHHHHHhcccCCCcEEEEEECCHHHHHHHHhhccCCEEEEcchhcccccCCccEEEEC
Confidence 4699999999999999999886 4678999998 667776665 4679999999987 344 49999864
No 101
>PRK14967 putative methyltransferase; Provisional
Probab=97.79 E-value=8.3e-05 Score=63.24 Aligned_cols=67 Identities=21% Similarity=0.162 Sum_probs=51.6
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC--CccEEEec
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP--NADAVFMK 257 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p--~aD~~~l~ 257 (266)
.....+|||+|||+|.++..+++. +..+++++|+ |.+++.+++ .-+++++.+|+.+.++ .+|+|++.
T Consensus 34 ~~~~~~vLDlGcG~G~~~~~la~~-~~~~v~~vD~s~~~l~~a~~n~~~~~~~~~~~~~d~~~~~~~~~fD~Vi~n 108 (223)
T PRK14967 34 LGPGRRVLDLCTGSGALAVAAAAA-GAGSVTAVDISRRAVRSARLNALLAGVDVDVRRGDWARAVEFRPFDVVVSN 108 (223)
T ss_pred cCCCCeEEEecCCHHHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHhCCeeEEEECchhhhccCCCeeEEEEC
Confidence 344579999999999999998876 4458999998 666664443 2368899999988655 49999985
No 102
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=97.77 E-value=9.2e-05 Score=65.72 Aligned_cols=74 Identities=18% Similarity=0.381 Sum_probs=55.5
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP 249 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p 249 (266)
...+++..+ .....+|+|||||.|.+...+++... +++++|+ +.+++.+++ .++++++.+|+.+ +++
T Consensus 25 ~~~Iv~~~~--~~~~~~VLEIG~G~G~LT~~Ll~~~~--~V~avEiD~~li~~l~~~~~~~~~~~~v~ii~~Dal~~~~~ 100 (294)
T PTZ00338 25 LDKIVEKAA--IKPTDTVLEIGPGTGNLTEKLLQLAK--KVIAIEIDPRMVAELKKRFQNSPLASKLEVIEGDALKTEFP 100 (294)
T ss_pred HHHHHHhcC--CCCcCEEEEecCchHHHHHHHHHhCC--cEEEEECCHHHHHHHHHHHHhcCCCCcEEEEECCHhhhccc
Confidence 334555555 55668999999999999999999854 6788888 555554432 4689999999988 566
Q ss_pred CccEEEe
Q 042491 250 NADAVFM 256 (266)
Q Consensus 250 ~aD~~~l 256 (266)
.+|+++.
T Consensus 101 ~~d~Vva 107 (294)
T PTZ00338 101 YFDVCVA 107 (294)
T ss_pred ccCEEEe
Confidence 7887653
No 103
>PRK01581 speE spermidine synthase; Validated
Probab=97.77 E-value=5.1e-05 Score=68.72 Aligned_cols=67 Identities=18% Similarity=0.187 Sum_probs=54.7
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------------CCCeEEEEccCCCC---CC-Ccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------------YEGVSHVGGDMLNA---VP-NAD 252 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------------~~ri~~~~gd~~~~---~p-~aD 252 (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 4678999999999999999998656678999998 777776652 57999999998872 23 499
Q ss_pred EEEec
Q 042491 253 AVFMK 257 (266)
Q Consensus 253 ~~~l~ 257 (266)
+|++-
T Consensus 229 VIIvD 233 (374)
T PRK01581 229 VIIID 233 (374)
T ss_pred EEEEc
Confidence 99975
No 104
>PRK14968 putative methyltransferase; Provisional
Probab=97.75 E-value=0.00011 Score=60.30 Aligned_cols=67 Identities=19% Similarity=0.256 Sum_probs=53.0
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCC-eEEEEccCCCCCC--CccEEEeccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEG-VSHVGGDMLNAVP--NADAVFMKVI 259 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~r-i~~~~gd~~~~~p--~aD~~~l~~v 259 (266)
.+..+|||+|||+|.++..+++. ..+++++|+ |++++.+++ .++ +.++.+|+.++++ .+|++++..-
T Consensus 22 ~~~~~vLd~G~G~G~~~~~l~~~--~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~d~vi~n~p 99 (188)
T PRK14968 22 KKGDRVLEVGTGSGIVAIVAAKN--GKKVVGVDINPYAVECAKCNAKLNNIRNNGVEVIRSDLFEPFRGDKFDVILFNPP 99 (188)
T ss_pred cCCCEEEEEccccCHHHHHHHhh--cceEEEEECCHHHHHHHHHHHHHcCCCCcceEEEeccccccccccCceEEEECCC
Confidence 35578999999999999999998 578999998 667766542 233 8999999998755 3999987643
No 105
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=97.75 E-value=0.00015 Score=60.47 Aligned_cols=68 Identities=16% Similarity=0.227 Sum_probs=54.3
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C-CCccEEEe
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V-PNADAVFM 256 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~-p~aD~~~l 256 (266)
.....+|+|+|||+|.++..+++.. |..+++.+|. |+.++.+++ .++++++.+|+.+. . +.+|++++
T Consensus 38 ~~~~~~vlDlG~GtG~~s~~~a~~~~~~~~v~avD~~~~~~~~a~~n~~~~g~~~~v~~~~~d~~~~l~~~~~~~D~V~~ 117 (198)
T PRK00377 38 LRKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLNNIVLIKGEAPEILFTINEKFDRIFI 117 (198)
T ss_pred CCCcCEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHhCCCCCeEEEEechhhhHhhcCCCCCEEEE
Confidence 5567899999999999999998874 6789999998 777775542 36899999998762 3 34999998
Q ss_pred c
Q 042491 257 K 257 (266)
Q Consensus 257 ~ 257 (266)
.
T Consensus 118 ~ 118 (198)
T PRK00377 118 G 118 (198)
T ss_pred C
Confidence 3
No 106
>PLN02672 methionine S-methyltransferase
Probab=97.73 E-value=7.4e-05 Score=76.29 Aligned_cols=64 Identities=22% Similarity=0.288 Sum_probs=53.1
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------------------CCCeEEEEccCCCCCC
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------------------YEGVSHVGGDMLNAVP 249 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------------------~~ri~~~~gd~~~~~p 249 (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 36899999999999999999999999999998 666665532 2589999999998654
Q ss_pred ----CccEEEe
Q 042491 250 ----NADAVFM 256 (266)
Q Consensus 250 ----~aD~~~l 256 (266)
.+|+|+.
T Consensus 199 ~~~~~fDlIVS 209 (1082)
T PLN02672 199 DNNIELDRIVG 209 (1082)
T ss_pred ccCCceEEEEE
Confidence 3898875
No 107
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=97.73 E-value=0.00026 Score=59.75 Aligned_cols=68 Identities=19% Similarity=0.195 Sum_probs=52.6
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHHHHhhCCCCCCeEEEEccCCCC---------CC--CccEEEec
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNA---------VP--NADAVFMK 257 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~---------~p--~aD~~~l~ 257 (266)
+....+|||||||+|.+...+++.. |..+++.+|+.++. ...+|.++.+|+.++ ++ .+|+++..
T Consensus 49 ~~~~~~VLDlG~GtG~~t~~l~~~~~~~~~V~aVDi~~~~----~~~~v~~i~~D~~~~~~~~~i~~~~~~~~~D~V~S~ 124 (209)
T PRK11188 49 FKPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIACDILPMD----PIVGVDFLQGDFRDELVLKALLERVGDSKVQVVMSD 124 (209)
T ss_pred CCCCCEEEEEcccCCHHHHHHHHHcCCCceEEEEeccccc----CCCCcEEEecCCCChHHHHHHHHHhCCCCCCEEecC
Confidence 3456799999999999999999987 45789999996532 235699999999883 33 39999975
Q ss_pred cccc
Q 042491 258 VIVL 261 (266)
Q Consensus 258 ~vLH 261 (266)
-..|
T Consensus 125 ~~~~ 128 (209)
T PRK11188 125 MAPN 128 (209)
T ss_pred CCCc
Confidence 4443
No 108
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=97.69 E-value=0.00016 Score=61.60 Aligned_cols=72 Identities=15% Similarity=0.053 Sum_probs=54.0
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-C--CC-CccEEEeccccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-A--VP-NADAVFMKVIVL 261 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~--~p-~aD~~~l~~vLH 261 (266)
+..+|||||||+|.++..+++. ..+++++|. +..++.+++ ..+++++.+|+.+ + .+ .+|++++.++++
T Consensus 48 ~~~~vLdiG~G~G~~~~~l~~~--~~~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~fD~Ii~~~~l~ 125 (233)
T PRK05134 48 FGKRVLDVGCGGGILSESMARL--GADVTGIDASEENIEVARLHALESGLKIDYRQTTAEELAAEHPGQFDVVTCMEMLE 125 (233)
T ss_pred CCCeEEEeCCCCCHHHHHHHHc--CCeEEEEcCCHHHHHHHHHHHHHcCCceEEEecCHHHhhhhcCCCccEEEEhhHhh
Confidence 4578999999999999988886 457899998 455554442 3467888888765 2 22 399999999998
Q ss_pred cCCC
Q 042491 262 IQDL 265 (266)
Q Consensus 262 d~~~ 265 (266)
...+
T Consensus 126 ~~~~ 129 (233)
T PRK05134 126 HVPD 129 (233)
T ss_pred ccCC
Confidence 7654
No 109
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.68 E-value=0.00018 Score=64.64 Aligned_cols=77 Identities=26% Similarity=0.330 Sum_probs=57.6
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---C
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---N 250 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---~ 250 (266)
++...+ ..+..+|||||||+|.++..+++..+. -+++.+|. |++++.+++ .+++.++.+|..+..+ .
T Consensus 72 ll~~L~--i~~g~~VLDIG~GtG~~a~~LA~~~~~~g~VvgVDis~~~l~~Ar~~l~~~g~~nV~~i~gD~~~~~~~~~~ 149 (322)
T PRK13943 72 FMEWVG--LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFVCGDGYYGVPEFAP 149 (322)
T ss_pred HHHhcC--CCCCCEEEEEeCCccHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHHHHcCCCcEEEEeCChhhcccccCC
Confidence 444444 456689999999999999999998875 46888997 666665543 4679999999877433 4
Q ss_pred ccEEEecccc
Q 042491 251 ADAVFMKVIV 260 (266)
Q Consensus 251 aD~~~l~~vL 260 (266)
+|++++...+
T Consensus 150 fD~Ii~~~g~ 159 (322)
T PRK13943 150 YDVIFVTVGV 159 (322)
T ss_pred ccEEEECCch
Confidence 9999986443
No 110
>PRK04266 fibrillarin; Provisional
Probab=97.63 E-value=0.00044 Score=59.07 Aligned_cols=67 Identities=10% Similarity=0.199 Sum_probs=52.4
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHh----hCCCCCCeEEEEccCCCC-----CC-CccEEEe
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVA----TAPVYEGVSHVGGDMLNA-----VP-NADAVFM 256 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~----~a~~~~ri~~~~gd~~~~-----~p-~aD~~~l 256 (266)
.....+|+|+|||+|.++..+++..+.-+++.+|. |++++ .+++..+|.++.+|...+ ++ .+|+++.
T Consensus 70 i~~g~~VlD~G~G~G~~~~~la~~v~~g~V~avD~~~~ml~~l~~~a~~~~nv~~i~~D~~~~~~~~~l~~~~D~i~~ 147 (226)
T PRK04266 70 IKKGSKVLYLGAASGTTVSHVSDIVEEGVVYAVEFAPRPMRELLEVAEERKNIIPILADARKPERYAHVVEKVDVIYQ 147 (226)
T ss_pred CCCCCEEEEEccCCCHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHhhhcCCcEEEECCCCCcchhhhccccCCEEEE
Confidence 55678999999999999999999998668899998 65554 333346799999998753 23 3899874
No 111
>TIGR01983 UbiG ubiquinone biosynthesis O-methyltransferase. This model represents an O-methyltransferase believed to act at two points in the ubiquinone biosynthetic pathway in bacteria (UbiG) and fungi (COQ3). A separate methylase (MenG/UbiE) catalyzes the single C-methylation step. The most commonly used names for genes in this family do not indicate whether this gene is an O-methyl, or C-methyl transferase.
Probab=97.62 E-value=0.00011 Score=62.26 Aligned_cols=72 Identities=14% Similarity=0.005 Sum_probs=54.8
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----C-CCeEEEEccCCC-C--CC-CccEEEecccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----Y-EGVSHVGGDMLN-A--VP-NADAVFMKVIV 260 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~-~ri~~~~gd~~~-~--~p-~aD~~~l~~vL 260 (266)
+..+|||+|||+|.++..+++..+ +++++|+ +.+++.++. . .++++..+|+.+ + .+ .+|++++.+++
T Consensus 45 ~~~~vLdlG~G~G~~~~~l~~~~~--~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~D~i~~~~~l 122 (224)
T TIGR01983 45 FGLRVLDVGCGGGLLSEPLARLGA--NVTGIDASEENIEVAKLHAKKDPLLKIEYRCTSVEDLAEKGAKSFDVVTCMEVL 122 (224)
T ss_pred CCCeEEEECCCCCHHHHHHHhcCC--eEEEEeCCHHHHHHHHHHHHHcCCCceEEEeCCHHHhhcCCCCCccEEEehhHH
Confidence 467999999999999999988755 5888998 556555443 2 268888888766 2 22 39999999999
Q ss_pred ccCCC
Q 042491 261 LIQDL 265 (266)
Q Consensus 261 Hd~~~ 265 (266)
|...+
T Consensus 123 ~~~~~ 127 (224)
T TIGR01983 123 EHVPD 127 (224)
T ss_pred HhCCC
Confidence 87654
No 112
>PRK04148 hypothetical protein; Provisional
Probab=97.61 E-value=0.00029 Score=54.98 Aligned_cols=72 Identities=18% Similarity=0.217 Sum_probs=51.9
Q ss_pred HHhhcccCCCCCceEEEecCCchH-HHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCCCCC----CccEEE
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGE-ELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLNAVP----NADAVF 255 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~-~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~~~p----~aD~~~ 255 (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 344454 2244789999999997 77777754 568999998 666665543 457999999999633 599887
Q ss_pred ecc
Q 042491 256 MKV 258 (266)
Q Consensus 256 l~~ 258 (266)
-.+
T Consensus 83 sir 85 (134)
T PRK04148 83 SIR 85 (134)
T ss_pred EeC
Confidence 654
No 113
>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=97.59 E-value=0.00016 Score=64.08 Aligned_cols=66 Identities=20% Similarity=0.258 Sum_probs=48.0
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC-CccEEEecc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP-NADAVFMKV 258 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p-~aD~~~l~~ 258 (266)
...+|+|||||+|.++..+++. +..+++.+|. |.+++.+++ .+++.+..+|.....+ .+|++++.-
T Consensus 159 ~g~~VLDvGcGsG~lai~aa~~-g~~~V~avDid~~al~~a~~n~~~n~~~~~~~~~~~~~~~~~~~~fDlVvan~ 233 (288)
T TIGR00406 159 KDKNVIDVGCGSGILSIAALKL-GAAKVVGIDIDPLAVESARKNAELNQVSDRLQVKLIYLEQPIEGKADVIVANI 233 (288)
T ss_pred CCCEEEEeCCChhHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHcCCCcceEEEecccccccCCCceEEEEec
Confidence 4489999999999999888765 4458999998 566665543 3567777776433333 499998743
No 114
>PRK03612 spermidine synthase; Provisional
Probab=97.58 E-value=0.00013 Score=69.80 Aligned_cols=66 Identities=27% Similarity=0.434 Sum_probs=54.5
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC-------------CCCeEEEEccCCCC---CC-Cc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV-------------YEGVSHVGGDMLNA---VP-NA 251 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~-------------~~ri~~~~gd~~~~---~p-~a 251 (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 4678999999999999999997 566 79999998 888887654 37999999998772 34 49
Q ss_pred cEEEec
Q 042491 252 DAVFMK 257 (266)
Q Consensus 252 D~~~l~ 257 (266)
|+|++.
T Consensus 375 DvIi~D 380 (521)
T PRK03612 375 DVIIVD 380 (521)
T ss_pred CEEEEe
Confidence 999875
No 115
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=97.54 E-value=0.00023 Score=58.40 Aligned_cols=65 Identities=22% Similarity=0.282 Sum_probs=51.9
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCCCccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVPNADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p~aD~~~l~ 257 (266)
..++|+|+|||+|.+++..+-..|. +++.+|+ |+.++.+++ ..+|.++..|.-+--..+|.++|+
T Consensus 45 ~g~~V~DlG~GTG~La~ga~~lGa~-~V~~vdiD~~a~ei~r~N~~~l~g~v~f~~~dv~~~~~~~dtvimN 115 (198)
T COG2263 45 EGKTVLDLGAGTGILAIGAALLGAS-RVLAVDIDPEALEIARANAEELLGDVEFVVADVSDFRGKFDTVIMN 115 (198)
T ss_pred CCCEEEEcCCCcCHHHHHHHhcCCc-EEEEEecCHHHHHHHHHHHHhhCCceEEEEcchhhcCCccceEEEC
Confidence 4478999999999999998888775 8888898 777776654 568999999988744457777664
No 116
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=97.51 E-value=0.00025 Score=62.83 Aligned_cols=75 Identities=19% Similarity=0.249 Sum_probs=58.9
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC----CCCeEEEEccCCC--C-CC-
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV----YEGVSHVGGDMLN--A-VP- 249 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~----~~ri~~~~gd~~~--~-~p- 249 (266)
..+++.+. ......+||.+||.|.++..+++.+| +.+++++|. |++++.+++ .+||+++.+||-+ . ++
T Consensus 9 ~Evl~~L~--~~pg~~vlD~TlG~GGhS~~il~~~~~~g~VigiD~D~~al~~ak~~L~~~~ri~~i~~~f~~l~~~l~~ 86 (296)
T PRK00050 9 DEVVDALA--IKPDGIYVDGTFGGGGHSRAILERLGPKGRLIAIDRDPDAIAAAKDRLKPFGRFTLVHGNFSNLKEVLAE 86 (296)
T ss_pred HHHHHhhC--CCCCCEEEEeCcCChHHHHHHHHhCCCCCEEEEEcCCHHHHHHHHHhhccCCcEEEEeCCHHHHHHHHHc
Confidence 45566554 34557999999999999999999996 789999998 888877664 3699999999987 1 22
Q ss_pred ---CccEEEe
Q 042491 250 ---NADAVFM 256 (266)
Q Consensus 250 ---~aD~~~l 256 (266)
.+|.+++
T Consensus 87 ~~~~vDgIl~ 96 (296)
T PRK00050 87 GLGKVDGILL 96 (296)
T ss_pred CCCccCEEEE
Confidence 4787765
No 117
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=97.50 E-value=0.00019 Score=63.16 Aligned_cols=67 Identities=19% Similarity=0.325 Sum_probs=57.7
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC---CCC-CccEE
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN---AVP-NADAV 254 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~---~~p-~aD~~ 254 (266)
.+.+++||-||||.|..++++++..|--++++.|+ |+|++.+++ .+|++.+.+|-++ ..+ .+|+|
T Consensus 74 h~~pk~VLiiGgGdG~tlRevlkh~~ve~i~~VEID~~Vi~~ar~~l~~~~~~~~dpRv~i~i~Dg~~~v~~~~~~fDvI 153 (282)
T COG0421 74 HPNPKRVLIIGGGDGGTLREVLKHLPVERITMVEIDPAVIELARKYLPEPSGGADDPRVEIIIDDGVEFLRDCEEKFDVI 153 (282)
T ss_pred CCCCCeEEEECCCccHHHHHHHhcCCcceEEEEEcCHHHHHHHHHhccCcccccCCCceEEEeccHHHHHHhCCCcCCEE
Confidence 34567999999999999999999999889999999 888887764 4899999999877 344 49999
Q ss_pred Ee
Q 042491 255 FM 256 (266)
Q Consensus 255 ~l 256 (266)
++
T Consensus 154 i~ 155 (282)
T COG0421 154 IV 155 (282)
T ss_pred EE
Confidence 86
No 118
>PF08123 DOT1: Histone methylation protein DOT1 ; InterPro: IPR013110 The DOT1 domain regulates gene expression by methylating histone H3 []. H3 methylation by DOT1 has been shown to be required for the DNA damage checkpoint in yeast [].; GO: 0018024 histone-lysine N-methyltransferase activity; PDB: 4ER3_A 4ER6_A 4EQZ_A 1NW3_A 3UWP_A 4ER5_A 3QOX_A 3SX0_A 4ER7_A 3SR4_A ....
Probab=97.49 E-value=0.00016 Score=60.72 Aligned_cols=79 Identities=22% Similarity=0.321 Sum_probs=49.1
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---------------CCCeEEEEccC
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---------------YEGVSHVGGDM 244 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---------------~~ri~~~~gd~ 244 (266)
.+++.+. ......++|||||.|......+..++--+++++++ |...+.+.. ..+|++..|||
T Consensus 33 ~il~~~~--l~~~dvF~DlGSG~G~~v~~aal~~~~~~~~GIEi~~~~~~~a~~~~~~~~~~~~~~g~~~~~v~l~~gdf 110 (205)
T PF08123_consen 33 KILDELN--LTPDDVFYDLGSGVGNVVFQAALQTGCKKSVGIEILPELHDLAEELLEELKKRMKHYGKRPGKVELIHGDF 110 (205)
T ss_dssp HHHHHTT----TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE-SHHHHHHHHHHHHHHHHHHHHCTB---EEEEECS-T
T ss_pred HHHHHhC--CCCCCEEEECCCCCCHHHHHHHHHcCCcEEEEEEechHHHHHHHHHHHHHHHHHHHhhcccccceeeccCc
Confidence 3455555 55678999999999999999888887666999997 333322221 46789999999
Q ss_pred CCC------CCCccEEEeccccc
Q 042491 245 LNA------VPNADAVFMKVIVL 261 (266)
Q Consensus 245 ~~~------~p~aD~~~l~~vLH 261 (266)
.++ +.+||++++.+.+-
T Consensus 111 l~~~~~~~~~s~AdvVf~Nn~~F 133 (205)
T PF08123_consen 111 LDPDFVKDIWSDADVVFVNNTCF 133 (205)
T ss_dssp TTHHHHHHHGHC-SEEEE--TTT
T ss_pred cccHhHhhhhcCCCEEEEecccc
Confidence 983 24699999998763
No 119
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=97.49 E-value=0.00049 Score=58.46 Aligned_cols=72 Identities=13% Similarity=0.103 Sum_probs=55.5
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------------------CCCCeEEEEccCCCC----
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------------------VYEGVSHVGGDMLNA---- 247 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------------------~~~ri~~~~gd~~~~---- 247 (266)
....+|||+|||.|..+..|+++ +.+++++|+ |..++.+. ...+|++..+|+++.
T Consensus 36 ~~~~rvL~~gCG~G~da~~LA~~--G~~V~avD~s~~Ai~~~~~~~~l~~~~~~~~~~~~~~~~~v~~~~~D~~~l~~~~ 113 (218)
T PRK13255 36 PAGSRVLVPLCGKSLDMLWLAEQ--GHEVLGVELSELAVEQFFAENGLTPQTRQSGEFEHYQAGEITIYCGDFFALTAAD 113 (218)
T ss_pred CCCCeEEEeCCCChHhHHHHHhC--CCeEEEEccCHHHHHHHHHHcCCCccccccccccccccCceEEEECcccCCCccc
Confidence 34579999999999999999875 678999998 55555321 146799999999983
Q ss_pred CCCccEEEeccccccCC
Q 042491 248 VPNADAVFMKVIVLIQD 264 (266)
Q Consensus 248 ~p~aD~~~l~~vLHd~~ 264 (266)
.+.+|+++-+-++|..+
T Consensus 114 ~~~fd~v~D~~~~~~l~ 130 (218)
T PRK13255 114 LADVDAVYDRAALIALP 130 (218)
T ss_pred CCCeeEEEehHhHhhCC
Confidence 23489999888777553
No 120
>PF01135 PCMT: Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2.1.1.77 from EC) (PCMT) [] (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyses the transfer of a methyl group from S-adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerisation of normal L-aspartyl and L-asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process; PDB: 3LBF_A 1DL5_B 1JG3_B 1JG2_A 1JG1_A 1JG4_A 2YXE_A 2PBF_B 1VBF_C 1R18_A ....
Probab=97.48 E-value=0.00029 Score=59.44 Aligned_cols=79 Identities=19% Similarity=0.283 Sum_probs=57.5
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP-- 249 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p-- 249 (266)
..+++.++ .....+|||||+|+|..+..+++..-. -+++.+|. |..++.+++ ..+|+++.||-...+|
T Consensus 62 a~~l~~L~--l~pg~~VLeIGtGsGY~aAlla~lvg~~g~Vv~vE~~~~l~~~A~~~l~~~~~~nv~~~~gdg~~g~~~~ 139 (209)
T PF01135_consen 62 ARMLEALD--LKPGDRVLEIGTGSGYQAALLAHLVGPVGRVVSVERDPELAERARRNLARLGIDNVEVVVGDGSEGWPEE 139 (209)
T ss_dssp HHHHHHTT--C-TT-EEEEES-TTSHHHHHHHHHHSTTEEEEEEESBHHHHHHHHHHHHHHTTHSEEEEES-GGGTTGGG
T ss_pred HHHHHHHh--cCCCCEEEEecCCCcHHHHHHHHhcCccceEEEECccHHHHHHHHHHHHHhccCceeEEEcchhhccccC
Confidence 34566666 677899999999999999999988643 46788886 777776664 4589999999888655
Q ss_pred -CccEEEecccc
Q 042491 250 -NADAVFMKVIV 260 (266)
Q Consensus 250 -~aD~~~l~~vL 260 (266)
.||.|++.--+
T Consensus 140 apfD~I~v~~a~ 151 (209)
T PF01135_consen 140 APFDRIIVTAAV 151 (209)
T ss_dssp -SEEEEEESSBB
T ss_pred CCcCEEEEeecc
Confidence 39999886443
No 121
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=97.48 E-value=0.0002 Score=67.29 Aligned_cols=73 Identities=14% Similarity=0.097 Sum_probs=54.6
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC-----
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA----- 247 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~----- 247 (266)
..+++.++ .....+|+|+|||+|.++..+++.. .+++.+|. +++++.+++ .++++++.+|+.+.
T Consensus 287 ~~vl~~l~--~~~~~~VLDlgcGtG~~sl~la~~~--~~V~gvD~s~~al~~A~~n~~~~~~~~v~~~~~d~~~~l~~~~ 362 (443)
T PRK13168 287 ARALEWLD--PQPGDRVLDLFCGLGNFTLPLARQA--AEVVGVEGVEAMVERARENARRNGLDNVTFYHANLEEDFTDQP 362 (443)
T ss_pred HHHHHHhc--CCCCCEEEEEeccCCHHHHHHHHhC--CEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEeChHHhhhhhh
Confidence 34444444 3455799999999999999999886 57899998 777776653 35799999998752
Q ss_pred CC--CccEEEe
Q 042491 248 VP--NADAVFM 256 (266)
Q Consensus 248 ~p--~aD~~~l 256 (266)
++ .+|++++
T Consensus 363 ~~~~~fD~Vi~ 373 (443)
T PRK13168 363 WALGGFDKVLL 373 (443)
T ss_pred hhcCCCCEEEE
Confidence 22 3899886
No 122
>KOG2904 consensus Predicted methyltransferase [General function prediction only]
Probab=97.47 E-value=0.00046 Score=59.70 Aligned_cols=67 Identities=15% Similarity=0.237 Sum_probs=49.9
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEE----EccCCCCCC---C-ccE
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHV----GGDMLNAVP---N-ADA 253 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~----~gd~~~~~p---~-aD~ 253 (266)
+.....++|+|||+|..+..++...|..+++.+|. +.++..+.+ .+||.++ .+|.+.+.| + .|+
T Consensus 146 ~~~~~~ildlgtGSGaIslsll~~L~~~~v~AiD~S~~Ai~La~eN~qr~~l~g~i~v~~~~me~d~~~~~~l~~~~~dl 225 (328)
T KOG2904|consen 146 HSKHTHILDLGTGSGAISLSLLHGLPQCTVTAIDVSKAAIKLAKENAQRLKLSGRIEVIHNIMESDASDEHPLLEGKIDL 225 (328)
T ss_pred hcccceEEEecCCccHHHHHHHhcCCCceEEEEeccHHHHHHHHHHHHHHhhcCceEEEecccccccccccccccCceeE
Confidence 44567999999999999999999999999999998 444443332 7888887 455555443 3 666
Q ss_pred EEe
Q 042491 254 VFM 256 (266)
Q Consensus 254 ~~l 256 (266)
++.
T Consensus 226 lvs 228 (328)
T KOG2904|consen 226 LVS 228 (328)
T ss_pred Eec
Confidence 553
No 123
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=97.45 E-value=0.00035 Score=60.51 Aligned_cols=61 Identities=25% Similarity=0.305 Sum_probs=43.0
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCCCccEEEec
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVPNADAVFMK 257 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p~aD~~~l~ 257 (266)
....+|+|||||+|.++..+.+..+. +++++|. |.+++.+++ .+++.+..+|. .+|+++..
T Consensus 118 ~~~~~VLDiGcGsG~l~i~~~~~g~~-~v~giDis~~~l~~A~~n~~~~~~~~~~~~~~~~~-----~fD~Vvan 186 (250)
T PRK00517 118 LPGKTVLDVGCGSGILAIAAAKLGAK-KVLAVDIDPQAVEAARENAELNGVELNVYLPQGDL-----KADVIVAN 186 (250)
T ss_pred CCCCEEEEeCCcHHHHHHHHHHcCCC-eEEEEECCHHHHHHHHHHHHHcCCCceEEEccCCC-----CcCEEEEc
Confidence 35689999999999999987776554 7999998 677766553 23444444432 58888754
No 124
>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=97.45 E-value=0.00023 Score=59.43 Aligned_cols=53 Identities=26% Similarity=0.406 Sum_probs=42.1
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------CCCCeEEEEccCCC
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------VYEGVSHVGGDMLN 246 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------~~~ri~~~~gd~~~ 246 (266)
..+||||||.|.++.++++.+|+..++++|. ...+..+. ..+++.++.+|...
T Consensus 19 ~l~lEIG~G~G~~l~~~A~~~Pd~n~iGiE~~~~~v~~a~~~~~~~~l~Nv~~~~~da~~ 78 (195)
T PF02390_consen 19 PLILEIGCGKGEFLIELAKRNPDINFIGIEIRKKRVAKALRKAEKRGLKNVRFLRGDARE 78 (195)
T ss_dssp EEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHHTTSSEEEEES-CTT
T ss_pred CeEEEecCCCCHHHHHHHHHCCCCCEEEEecchHHHHHHHHHHHhhcccceEEEEccHHH
Confidence 4999999999999999999999999999998 33333322 16889999999777
No 125
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=97.43 E-value=0.00065 Score=56.12 Aligned_cols=64 Identities=22% Similarity=0.268 Sum_probs=50.6
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHHHHhhCCCCCCeEEEEccCCCC---------CC--CccEEEec
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNA---------VP--NADAVFMK 257 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~---------~p--~aD~~~l~ 257 (266)
.....+|||+|||+|.++..+++++ +..+++++|+.+.. ..++++++.+|+.++ .| .+|+++..
T Consensus 30 i~~g~~VLDiG~GtG~~~~~l~~~~~~~~~v~~vDis~~~----~~~~i~~~~~d~~~~~~~~~l~~~~~~~~~D~V~~~ 105 (188)
T TIGR00438 30 IKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMK----PIENVDFIRGDFTDEEVLNKIRERVGDDKVDVVMSD 105 (188)
T ss_pred cCCCCEEEEecCCCCHHHHHHHHHhCCCceEEEEeccccc----cCCCceEEEeeCCChhHHHHHHHHhCCCCccEEEcC
Confidence 3566899999999999999999987 66789999995533 245789999998762 33 39999974
No 126
>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=97.43 E-value=3.2e-05 Score=50.28 Aligned_cols=47 Identities=23% Similarity=0.482 Sum_probs=40.6
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
+.|+++|...+++.|..|||+++|++... +.|+|..|+..|++.+++
T Consensus 6 l~iL~~l~~~~~~~t~~eia~~~gl~~st------v~r~L~tL~~~g~v~~dp 52 (52)
T PF09339_consen 6 LRILEALAESGGPLTLSEIARALGLPKST------VHRLLQTLVEEGYVERDP 52 (52)
T ss_dssp HHHHHCHHCTBSCEEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEECS
T ss_pred HHHHHHHHcCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCcCeecCc
Confidence 46788888876788999999999999766 999999999999998763
No 127
>PLN02823 spermine synthase
Probab=97.41 E-value=0.0003 Score=63.52 Aligned_cols=67 Identities=18% Similarity=0.189 Sum_probs=55.5
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEE
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVF 255 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~ 255 (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 3678999999999999999999777778999998 788877663 47999999997773 23 499998
Q ss_pred ec
Q 042491 256 MK 257 (266)
Q Consensus 256 l~ 257 (266)
+-
T Consensus 182 ~D 183 (336)
T PLN02823 182 GD 183 (336)
T ss_pred ec
Confidence 74
No 128
>TIGR00417 speE spermidine synthase. the SpeE subunit of spermidine synthase catalysesthe reaction (putrescine + S-adenosylmethioninamine = spermidine + 5'-methylthioadenosine) and is involved in polyamine biosynthesis and in the biosynthesis of spermidine from arganine. The region between residues 77 and 120 of the seed alignment is thought to be involved in binding to decarboxylated SAM.
Probab=97.40 E-value=0.00031 Score=61.57 Aligned_cols=68 Identities=18% Similarity=0.234 Sum_probs=53.1
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC---CC-CccEEE
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA---VP-NADAVF 255 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~---~p-~aD~~~ 255 (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 3567999999999999999998776778999998 666665543 46899999997762 23 499998
Q ss_pred ecc
Q 042491 256 MKV 258 (266)
Q Consensus 256 l~~ 258 (266)
+-.
T Consensus 151 ~D~ 153 (270)
T TIGR00417 151 VDS 153 (270)
T ss_pred EeC
Confidence 754
No 129
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=97.39 E-value=0.00038 Score=58.31 Aligned_cols=65 Identities=15% Similarity=0.130 Sum_probs=49.1
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC----CccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP----NADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p----~aD~~~l~ 257 (266)
...+|||+|||+|.++.+++.+.. .+++.+|. |++++.+++ .++++++.+|+++.++ .+|++++.
T Consensus 53 ~~~~vLDl~~GsG~l~l~~lsr~a-~~V~~vE~~~~a~~~a~~Nl~~~~~~~v~~~~~D~~~~l~~~~~~fDlV~~D 128 (199)
T PRK10909 53 VDARCLDCFAGSGALGLEALSRYA-AGATLLEMDRAVAQQLIKNLATLKAGNARVVNTNALSFLAQPGTPHNVVFVD 128 (199)
T ss_pred CCCEEEEcCCCccHHHHHHHHcCC-CEEEEEECCHHHHHHHHHHHHHhCCCcEEEEEchHHHHHhhcCCCceEEEEC
Confidence 346999999999999998776664 58899997 666655443 3579999999887332 38998863
No 130
>KOG2899 consensus Predicted methyltransferase [General function prediction only]
Probab=97.37 E-value=0.0004 Score=59.05 Aligned_cols=53 Identities=15% Similarity=0.214 Sum_probs=42.7
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP 232 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~ 232 (266)
+..+..++..|-....+|||||.+|.+...+++.+-...++++|+ |..|..|+
T Consensus 46 D~rLk~L~~~~f~~~~~LDIGCNsG~lt~~iak~F~~r~iLGvDID~~LI~~Ar 99 (288)
T KOG2899|consen 46 DPRLKVLEKDWFEPKQALDIGCNSGFLTLSIAKDFGPRRILGVDIDPVLIQRAR 99 (288)
T ss_pred ChhhhhccccccCcceeEeccCCcchhHHHHHHhhccceeeEeeccHHHHHHHH
Confidence 445566654577789999999999999999999999999999999 44455444
No 131
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=97.36 E-value=0.0012 Score=55.35 Aligned_cols=73 Identities=19% Similarity=0.317 Sum_probs=57.5
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC---C
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP---N 250 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p---~ 250 (266)
.+++.++ .+...+||+||||+|..+.-+++-.- +++.+|+ ++..+.|++ .++|.++.||-.+-+| .
T Consensus 63 ~m~~~L~--~~~g~~VLEIGtGsGY~aAvla~l~~--~V~siEr~~~L~~~A~~~L~~lg~~nV~v~~gDG~~G~~~~aP 138 (209)
T COG2518 63 RMLQLLE--LKPGDRVLEIGTGSGYQAAVLARLVG--RVVSIERIEELAEQARRNLETLGYENVTVRHGDGSKGWPEEAP 138 (209)
T ss_pred HHHHHhC--CCCCCeEEEECCCchHHHHHHHHHhC--eEEEEEEcHHHHHHHHHHHHHcCCCceEEEECCcccCCCCCCC
Confidence 4556666 77789999999999999998888866 7788887 565665553 4569999999999766 3
Q ss_pred ccEEEec
Q 042491 251 ADAVFMK 257 (266)
Q Consensus 251 aD~~~l~ 257 (266)
||.|+..
T Consensus 139 yD~I~Vt 145 (209)
T COG2518 139 YDRIIVT 145 (209)
T ss_pred cCEEEEe
Confidence 9998864
No 132
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=97.34 E-value=0.0005 Score=61.66 Aligned_cols=63 Identities=17% Similarity=0.100 Sum_probs=49.7
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---CC-CccEEEec
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---VP-NADAVFMK 257 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~p-~aD~~~l~ 257 (266)
..+|||+|||+|.++..+++. ..+++++|. +.+++.+++ .++++++.+|+.+- .. .+|++++.
T Consensus 174 ~~~VLDl~cG~G~~sl~la~~--~~~V~gvD~s~~av~~A~~n~~~~~l~~v~~~~~D~~~~~~~~~~~~D~Vv~d 247 (315)
T PRK03522 174 PRSMWDLFCGVGGFGLHCATP--GMQLTGIEISAEAIACAKQSAAELGLTNVQFQALDSTQFATAQGEVPDLVLVN 247 (315)
T ss_pred CCEEEEccCCCCHHHHHHHhc--CCEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEcCHHHHHHhcCCCCeEEEEC
Confidence 479999999999999999984 468999998 777766553 35799999998762 22 38998864
No 133
>PRK11727 23S rRNA mA1618 methyltransferase; Provisional
Probab=97.32 E-value=0.00052 Score=61.56 Aligned_cols=66 Identities=17% Similarity=0.148 Sum_probs=50.6
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEE----ccCCCCC--C--CccEE
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVG----GDMLNAV--P--NADAV 254 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~----gd~~~~~--p--~aD~~ 254 (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 457999999999999999999999999999998 666665553 35787754 4555542 3 38999
Q ss_pred Eec
Q 042491 255 FMK 257 (266)
Q Consensus 255 ~l~ 257 (266)
++.
T Consensus 194 vcN 196 (321)
T PRK11727 194 LCN 196 (321)
T ss_pred EeC
Confidence 875
No 134
>KOG1500 consensus Protein arginine N-methyltransferase CARM1 [Posttranslational modification, protein turnover, chaperones; Transcription]
Probab=97.30 E-value=0.00087 Score=59.61 Aligned_cols=62 Identities=16% Similarity=0.240 Sum_probs=49.5
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCCC-ccEEEe
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVPN-ADAVFM 256 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p~-aD~~~l 256 (266)
+.|||||||+|.+..-.+++-. -++-.++-.++.+.+++ .+||++++|-+.+ ++|+ +|+++-
T Consensus 179 kiVlDVGaGSGILS~FAaqAGA-~~vYAvEAS~MAqyA~~Lv~~N~~~~rItVI~GKiEdieLPEk~DviIS 249 (517)
T KOG1500|consen 179 KIVLDVGAGSGILSFFAAQAGA-KKVYAVEASEMAQYARKLVASNNLADRITVIPGKIEDIELPEKVDVIIS 249 (517)
T ss_pred cEEEEecCCccHHHHHHHHhCc-ceEEEEehhHHHHHHHHHHhcCCccceEEEccCccccccCchhccEEEe
Confidence 7999999999998876666643 35666777777766553 7999999999999 8997 999873
No 135
>KOG0820 consensus Ribosomal RNA adenine dimethylase [RNA processing and modification]
Probab=97.29 E-value=0.00092 Score=57.84 Aligned_cols=74 Identities=22% Similarity=0.368 Sum_probs=56.4
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP 249 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p 249 (266)
...+++.-+ ......||+||+|+|.+...++++-. +++.+++ |.+++...+ +.+++++.||+++ ++|
T Consensus 47 ~~~I~~ka~--~k~tD~VLEvGPGTGnLT~~lLe~~k--kVvA~E~Dprmvael~krv~gtp~~~kLqV~~gD~lK~d~P 122 (315)
T KOG0820|consen 47 IDQIVEKAD--LKPTDVVLEVGPGTGNLTVKLLEAGK--KVVAVEIDPRMVAELEKRVQGTPKSGKLQVLHGDFLKTDLP 122 (315)
T ss_pred HHHHHhccC--CCCCCEEEEeCCCCCHHHHHHHHhcC--eEEEEecCcHHHHHHHHHhcCCCccceeeEEecccccCCCc
Confidence 344555555 67788999999999999999999955 5666666 455444332 5789999999999 799
Q ss_pred CccEEEe
Q 042491 250 NADAVFM 256 (266)
Q Consensus 250 ~aD~~~l 256 (266)
-+|.++-
T Consensus 123 ~fd~cVs 129 (315)
T KOG0820|consen 123 RFDGCVS 129 (315)
T ss_pred ccceeec
Confidence 8887764
No 136
>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=97.29 E-value=0.00087 Score=62.87 Aligned_cols=98 Identities=17% Similarity=0.266 Sum_probs=63.0
Q ss_pred CcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCC--CCCceEEEecCCchHHHHHHHHHC----CCCeEEEeec-
Q 042491 152 EMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGF--DGIRSLVDVGGGTGEELAEIVEFY----PHIKGVNFDL- 224 (266)
Q Consensus 152 ~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~--~~~~~vvDvGgG~G~~~~~l~~~~----P~l~~~~~Dl- 224 (266)
..|+.+++|+..-+.|.+++.. .+.+.....- .+...|+|||+|+|-++...+++. -..++..++-
T Consensus 151 ~tYe~fE~D~vKY~~Ye~AI~~-------al~D~~~~~~~~~~~~vVldVGAGrGpL~~~al~A~~~~~~a~~VyAVEkn 223 (448)
T PF05185_consen 151 QTYEVFEKDPVKYDQYERAIEE-------ALKDRVRKNSYSSKDKVVLDVGAGRGPLSMFALQAGARAGGAVKVYAVEKN 223 (448)
T ss_dssp HHHHHHCC-HHHHHHHHHHHHH-------HHHHHHTTS-SEETT-EEEEES-TTSHHHHHHHHTTHHHCCESEEEEEESS
T ss_pred ccHhhHhcCHHHHHHHHHHHHH-------HHHhhhhhccccccceEEEEeCCCccHHHHHHHHHHHHhCCCeEEEEEcCC
Confidence 4678888999887888887632 2233222000 135789999999999987666554 4567877775
Q ss_pred HHHHhhC------CC-CCCeEEEEccCCC-CCCC-ccEEEe
Q 042491 225 PHVVATA------PV-YEGVSHVGGDMLN-AVPN-ADAVFM 256 (266)
Q Consensus 225 p~v~~~a------~~-~~ri~~~~gd~~~-~~p~-aD~~~l 256 (266)
|.++... +. .++|+++.+|+.+ ..|+ +|+++-
T Consensus 224 ~~A~~~l~~~v~~n~w~~~V~vi~~d~r~v~lpekvDIIVS 264 (448)
T PF05185_consen 224 PNAVVTLQKRVNANGWGDKVTVIHGDMREVELPEKVDIIVS 264 (448)
T ss_dssp THHHHHHHHHHHHTTTTTTEEEEES-TTTSCHSS-EEEEEE
T ss_pred HhHHHHHHHHHHhcCCCCeEEEEeCcccCCCCCCceeEEEE
Confidence 4333221 12 6899999999999 6785 999863
No 137
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=97.28 E-value=0.0004 Score=61.37 Aligned_cols=48 Identities=25% Similarity=0.330 Sum_probs=37.4
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV 233 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~ 233 (266)
+++.+. .+..+++|+|||+|.++++.++--.. +++++|+ |..++.++.
T Consensus 155 ~Le~~~---~~g~~vlDvGcGSGILaIAa~kLGA~-~v~g~DiDp~AV~aa~e 203 (300)
T COG2264 155 ALEKLL---KKGKTVLDVGCGSGILAIAAAKLGAK-KVVGVDIDPQAVEAARE 203 (300)
T ss_pred HHHHhh---cCCCEEEEecCChhHHHHHHHHcCCc-eEEEecCCHHHHHHHHH
Confidence 455553 47799999999999999999888654 7899999 666666554
No 138
>PF06325 PrmA: Ribosomal protein L11 methyltransferase (PrmA); InterPro: IPR010456 This family consists of several Ribosomal protein L11 methyltransferase sequences. Its genetic determinant is prmA, which forms a bifunctional operon with the downstream panF gene []. The role of L11 methylation in ribosome function is, as yet, unknown. Deletion of the prmA gene in Escherichia coli showed no obvious effect [] except for the production of undermethylated forms of L11 []. Methylation is the most common post-transcriptional modification to ribosomal proteins in all organisms. PrmA is the only bacterial enzyme that catalyses the methylation of a ribosomal protein [].; GO: 0008276 protein methyltransferase activity, 0006479 protein methylation, 0005737 cytoplasm; PDB: 3GRZ_B 1F3L_A 2NXJ_B 3CJT_I 3CJQ_G 2NXE_A 2NXC_A 2ZBP_A 3EGV_A 3CJS_A ....
Probab=97.24 E-value=0.00043 Score=61.38 Aligned_cols=82 Identities=22% Similarity=0.307 Sum_probs=50.2
Q ss_pred HHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeE
Q 042491 167 FNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVS 238 (266)
Q Consensus 167 f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~ 238 (266)
|-.+-...++... .+++.+. .+..+|+|||||+|.++++.++.... +++.+|. |..++.+++ .+++.
T Consensus 140 FGTG~H~TT~lcl-~~l~~~~---~~g~~vLDvG~GSGILaiaA~klGA~-~v~a~DiDp~Av~~a~~N~~~N~~~~~~~ 214 (295)
T PF06325_consen 140 FGTGHHPTTRLCL-ELLEKYV---KPGKRVLDVGCGSGILAIAAAKLGAK-KVVAIDIDPLAVEAARENAELNGVEDRIE 214 (295)
T ss_dssp S-SSHCHHHHHHH-HHHHHHS---STTSEEEEES-TTSHHHHHHHHTTBS-EEEEEESSCHHHHHHHHHHHHTT-TTCEE
T ss_pred ccCCCCHHHHHHH-HHHHHhc---cCCCEEEEeCCcHHHHHHHHHHcCCC-eEEEecCCHHHHHHHHHHHHHcCCCeeEE
Confidence 3333333444433 3444453 34479999999999999999998553 7899998 666665553 45665
Q ss_pred EEEccCCCCCC--CccEEEe
Q 042491 239 HVGGDMLNAVP--NADAVFM 256 (266)
Q Consensus 239 ~~~gd~~~~~p--~aD~~~l 256 (266)
+. ...+.+ .||+|+.
T Consensus 215 v~---~~~~~~~~~~dlvvA 231 (295)
T PF06325_consen 215 VS---LSEDLVEGKFDLVVA 231 (295)
T ss_dssp ES---CTSCTCCS-EEEEEE
T ss_pred EE---EecccccccCCEEEE
Confidence 53 122333 4998874
No 139
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=97.24 E-value=0.00048 Score=59.13 Aligned_cols=67 Identities=18% Similarity=0.236 Sum_probs=53.6
Q ss_pred CCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C------CCcc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V------PNAD 252 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~------p~aD 252 (266)
.+.++|||||||+|.-+..+++..| +.+++.+|. |+.++.+++ .++|+++.||..+- + +.+|
T Consensus 67 ~~~~~vLEiGt~~G~s~l~la~~~~~~g~v~tiD~d~~~~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD 146 (234)
T PLN02781 67 MNAKNTLEIGVFTGYSLLTTALALPEDGRITAIDIDKEAYEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFD 146 (234)
T ss_pred hCCCEEEEecCcccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCC
Confidence 4678999999999999999998875 679999998 666665553 57899999998772 1 2499
Q ss_pred EEEec
Q 042491 253 AVFMK 257 (266)
Q Consensus 253 ~~~l~ 257 (266)
++++-
T Consensus 147 ~VfiD 151 (234)
T PLN02781 147 FAFVD 151 (234)
T ss_pred EEEEC
Confidence 99874
No 140
>PRK00536 speE spermidine synthase; Provisional
Probab=97.20 E-value=0.00082 Score=58.55 Aligned_cols=63 Identities=10% Similarity=0.055 Sum_probs=50.3
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCCC-CC-CccEEEec
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLNA-VP-NADAVFMK 257 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~~-~p-~aD~~~l~ 257 (266)
+.+++||=||||.|..++++++. |. +++.+|+ ++|++.+++ ++|++++. ++.+ -+ .+|+|+.=
T Consensus 71 ~~pk~VLIiGGGDGg~~REvLkh-~~-~v~mVeID~~Vv~~~k~~lP~~~~~~~DpRv~l~~--~~~~~~~~~fDVIIvD 146 (262)
T PRK00536 71 KELKEVLIVDGFDLELAHQLFKY-DT-HVDFVQADEKILDSFISFFPHFHEVKNNKNFTHAK--QLLDLDIKKYDLIICL 146 (262)
T ss_pred CCCCeEEEEcCCchHHHHHHHCc-CC-eeEEEECCHHHHHHHHHHCHHHHHhhcCCCEEEee--hhhhccCCcCCEEEEc
Confidence 47899999999999999999998 55 9999999 777776654 78999986 3333 22 49999864
No 141
>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=97.18 E-value=0.00042 Score=56.67 Aligned_cols=74 Identities=16% Similarity=0.149 Sum_probs=47.7
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC---------CCCeEEEEccCCCCC------C-CccE
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV---------YEGVSHVGGDMLNAV------P-NADA 253 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~---------~~ri~~~~gd~~~~~------p-~aD~ 253 (266)
....++||++|||.|..+..+++..+..++++-|.+++++..+. ..+|++.+.|+.++. + .+|+
T Consensus 43 ~~~~~~VLELGaG~Gl~gi~~a~~~~~~~Vv~TD~~~~l~~l~~Ni~~N~~~~~~~v~v~~L~Wg~~~~~~~~~~~~~D~ 122 (173)
T PF10294_consen 43 LFRGKRVLELGAGTGLPGIAAAKLFGAARVVLTDYNEVLELLRRNIELNGSLLDGRVSVRPLDWGDELDSDLLEPHSFDV 122 (173)
T ss_dssp GTTTSEEEETT-TTSHHHHHHHHT-T-SEEEEEE-S-HHHHHHHHHHTT--------EEEE--TTS-HHHHHHS-SSBSE
T ss_pred hcCCceEEEECCccchhHHHHHhccCCceEEEeccchhhHHHHHHHHhccccccccccCcEEEecCcccccccccccCCE
Confidence 34568999999999999999999987788999999877664432 478999999987732 2 3999
Q ss_pred EEeccccccC
Q 042491 254 VFMKVIVLIQ 263 (266)
Q Consensus 254 ~~l~~vLHd~ 263 (266)
|+.+.|+++-
T Consensus 123 IlasDv~Y~~ 132 (173)
T PF10294_consen 123 ILASDVLYDE 132 (173)
T ss_dssp EEEES--S-G
T ss_pred EEEecccchH
Confidence 9999999864
No 142
>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=97.17 E-value=0.002 Score=56.84 Aligned_cols=71 Identities=13% Similarity=0.090 Sum_probs=48.1
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeecH-------HHHhhCCC-CCCeEEEEccCCCCCC---CccEEEecccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLP-------HVVATAPV-YEGVSHVGGDMLNAVP---NADAVFMKVIV 260 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp-------~v~~~a~~-~~ri~~~~gd~~~~~p---~aD~~~l~~vL 260 (266)
..++|+|||||+|.++..++++.|. .++++|-- ..+...-. ..++.+++ ...+.+| .||++++--||
T Consensus 115 ~gk~VLDIGC~nGY~~frM~~~GA~-~ViGiDP~~lf~~QF~~i~~~lg~~~~~~~lp-lgvE~Lp~~~~FDtVF~MGVL 192 (315)
T PF08003_consen 115 KGKRVLDIGCNNGYYSFRMLGRGAK-SVIGIDPSPLFYLQFEAIKHFLGQDPPVFELP-LGVEDLPNLGAFDTVFSMGVL 192 (315)
T ss_pred CCCEEEEecCCCcHHHHHHhhcCCC-EEEEECCChHHHHHHHHHHHHhCCCccEEEcC-cchhhccccCCcCEEEEeeeh
Confidence 3479999999999999999999876 68888861 12222221 23344443 2333344 49999999999
Q ss_pred ccCC
Q 042491 261 LIQD 264 (266)
Q Consensus 261 Hd~~ 264 (266)
++-.
T Consensus 193 YHrr 196 (315)
T PF08003_consen 193 YHRR 196 (315)
T ss_pred hccC
Confidence 8743
No 143
>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=97.16 E-value=0.00077 Score=56.32 Aligned_cols=75 Identities=16% Similarity=0.223 Sum_probs=48.4
Q ss_pred CCCCc-eEEEecCCchHHHHHHHHHCCCCeEEEeecHHHH-hhC----CC--CCCe-EEEEccCCCC---CC--------
Q 042491 190 FDGIR-SLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVV-ATA----PV--YEGV-SHVGGDMLNA---VP-------- 249 (266)
Q Consensus 190 ~~~~~-~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~-~~a----~~--~~ri-~~~~gd~~~~---~p-------- 249 (266)
+.... +||+||+|+|+++..+++++|+++..==|..... ..+ .. .+++ .-+.-|..++ ++
T Consensus 22 l~~~~~~vLEiaSGtGqHa~~FA~~lP~l~WqPSD~~~~~~~sI~a~~~~~~~~Nv~~P~~lDv~~~~w~~~~~~~~~~~ 101 (204)
T PF06080_consen 22 LPDSGTRVLEIASGTGQHAVYFAQALPHLTWQPSDPDDNLRPSIRAWIAEAGLPNVRPPLALDVSAPPWPWELPAPLSPE 101 (204)
T ss_pred hCccCceEEEEcCCccHHHHHHHHHCCCCEEcCCCCChHHHhhHHHHHHhcCCcccCCCeEeecCCCCCccccccccCCC
Confidence 33444 5999999999999999999999987544553222 111 11 1221 2233454442 21
Q ss_pred CccEEEeccccccCC
Q 042491 250 NADAVFMKVIVLIQD 264 (266)
Q Consensus 250 ~aD~~~l~~vLHd~~ 264 (266)
.+|++++.|++|.-+
T Consensus 102 ~~D~i~~~N~lHI~p 116 (204)
T PF06080_consen 102 SFDAIFCINMLHISP 116 (204)
T ss_pred CcceeeehhHHHhcC
Confidence 389999999999743
No 144
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=97.15 E-value=0.0013 Score=61.75 Aligned_cols=67 Identities=16% Similarity=0.209 Sum_probs=53.3
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---CC-CccEEEe
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---VP-NADAVFM 256 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~p-~aD~~~l 256 (266)
..+..+|+|+|||+|..+..+++.. |..+++.+|+ +..++.+++ .+.|+++.+|+.+. ++ .+|+|++
T Consensus 248 ~~~g~~VLDlgaG~G~~t~~la~~~~~~~~v~avDi~~~~l~~~~~n~~~~g~~~v~~~~~D~~~~~~~~~~~fD~Vl~ 326 (444)
T PRK14902 248 PKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARKVHEKFAEKFDKILV 326 (444)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeCCcccccchhcccCCEEEE
Confidence 4456799999999999999999987 6789999998 666665543 24599999998762 44 4999986
No 145
>KOG1541 consensus Predicted protein carboxyl methylase [General function prediction only]
Probab=97.12 E-value=0.00037 Score=58.49 Aligned_cols=73 Identities=19% Similarity=0.256 Sum_probs=52.4
Q ss_pred HHhhcccCCCC--CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCe--EEEEccCCCCCC---C-cc
Q 042491 182 LLSHYKDGFDG--IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGV--SHVGGDMLNAVP---N-AD 252 (266)
Q Consensus 182 ~~~~~~~~~~~--~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri--~~~~gd~~~~~p---~-aD 252 (266)
.++-++ +++ ..-|||||||+|.-+..|...- ...+++|. |++++.+.+ ..+ .++-+||-+.+| + ||
T Consensus 40 aLELLa--lp~~~~~~iLDIGCGsGLSg~vL~~~G--h~wiGvDiSpsML~~a~~-~e~egdlil~DMG~GlpfrpGtFD 114 (270)
T KOG1541|consen 40 ALELLA--LPGPKSGLILDIGCGSGLSGSVLSDSG--HQWIGVDISPSMLEQAVE-RELEGDLILCDMGEGLPFRPGTFD 114 (270)
T ss_pred HHHHhh--CCCCCCcEEEEeccCCCcchheeccCC--ceEEeecCCHHHHHHHHH-hhhhcCeeeeecCCCCCCCCCccc
Confidence 344444 444 7899999999999888777654 67899997 899888764 223 467788888543 4 88
Q ss_pred EEEeccc
Q 042491 253 AVFMKVI 259 (266)
Q Consensus 253 ~~~l~~v 259 (266)
-++....
T Consensus 115 g~ISISA 121 (270)
T KOG1541|consen 115 GVISISA 121 (270)
T ss_pred eEEEeee
Confidence 7765443
No 146
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=97.08 E-value=0.0019 Score=58.22 Aligned_cols=66 Identities=24% Similarity=0.191 Sum_probs=50.8
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCC--CccEEEec
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVP--NADAVFMK 257 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p--~aD~~~l~ 257 (266)
+....+|+|+|||+|.++.+.+.. ..++++.|. +.++..++. .+.+.+..+|+.+ +++ .+|++++.
T Consensus 180 ~~~g~~vLDp~cGtG~~lieaa~~--~~~v~g~Di~~~~~~~a~~nl~~~g~~~i~~~~~D~~~l~~~~~~~D~Iv~d 255 (329)
T TIGR01177 180 VTEGDRVLDPFCGTGGFLIEAGLM--GAKVIGCDIDWKMVAGARINLEHYGIEDFFVKRGDATKLPLSSESVDAIATD 255 (329)
T ss_pred CCCcCEEEECCCCCCHHHHHHHHh--CCeEEEEcCCHHHHHHHHHHHHHhCCCCCeEEecchhcCCcccCCCCEEEEC
Confidence 556679999999999999886653 678899998 667765443 2348899999998 554 38999873
No 147
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=97.07 E-value=0.0013 Score=61.52 Aligned_cols=67 Identities=16% Similarity=0.218 Sum_probs=53.0
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC---CC--CccEEEe
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA---VP--NADAVFM 256 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~---~p--~aD~~~l 256 (266)
.....+|||+|||+|..+..+++..++.+++.+|. ++.++.+++ .-+++++.+|..+. .+ .+|.|++
T Consensus 242 ~~~g~~VLDlgaG~G~~t~~la~~~~~~~v~a~D~s~~~l~~~~~n~~~~g~~~~~~~~D~~~~~~~~~~~~fD~Vl~ 319 (427)
T PRK10901 242 PQNGERVLDACAAPGGKTAHILELAPQAQVVALDIDAQRLERVRENLQRLGLKATVIVGDARDPAQWWDGQPFDRILL 319 (427)
T ss_pred CCCCCEEEEeCCCCChHHHHHHHHcCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEcCcccchhhcccCCCCEEEE
Confidence 34567999999999999999999998889999998 666666543 23478999999863 22 3999984
No 148
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=97.07 E-value=0.00055 Score=49.46 Aligned_cols=58 Identities=19% Similarity=0.209 Sum_probs=48.6
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
+.|++.|...++++|..|||+.+|++... +.|.|+.|...|++.+... .+.|++++..
T Consensus 8 ~~Il~~l~~~~~~~t~~~ia~~l~i~~~t------v~r~l~~L~~~g~l~~~~~-----~~~y~l~~~~ 65 (91)
T smart00346 8 LAVLRALAEEPGGLTLAELAERLGLSKST------AHRLLNTLQELGYVEQDGQ-----NGRYRLGPKV 65 (91)
T ss_pred HHHHHHHHhCCCCcCHHHHHHHhCCCHHH------HHHHHHHHHHCCCeeecCC-----CCceeecHHH
Confidence 56788887643689999999999999877 9999999999999998742 3789998843
No 149
>PTZ00146 fibrillarin; Provisional
Probab=97.01 E-value=0.0031 Score=55.70 Aligned_cols=70 Identities=14% Similarity=0.222 Sum_probs=53.1
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeecHH-----HHhhCCCCCCeEEEEccCCCC------CCCccEEEec
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDLPH-----VVATAPVYEGVSHVGGDMLNA------VPNADAVFMK 257 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dlp~-----v~~~a~~~~ri~~~~gd~~~~------~p~aD~~~l~ 257 (266)
+....+|||+|||+|.+...+++... .=+++.+|..+ +++.+....+|.++.+|...+ .+.+|++++.
T Consensus 130 IkpG~~VLDLGaG~G~~t~~lAdiVG~~G~VyAVD~s~r~~~dLl~~ak~r~NI~~I~~Da~~p~~y~~~~~~vDvV~~D 209 (293)
T PTZ00146 130 IKPGSKVLYLGAASGTTVSHVSDLVGPEGVVYAVEFSHRSGRDLTNMAKKRPNIVPIIEDARYPQKYRMLVPMVDVIFAD 209 (293)
T ss_pred cCCCCEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECcHHHHHHHHHHhhhcCCCEEEECCccChhhhhcccCCCCEEEEe
Confidence 45668999999999999999999974 44788889743 455555457899999998764 2248999876
Q ss_pred cc
Q 042491 258 VI 259 (266)
Q Consensus 258 ~v 259 (266)
..
T Consensus 210 va 211 (293)
T PTZ00146 210 VA 211 (293)
T ss_pred CC
Confidence 53
No 150
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=96.98 E-value=0.0012 Score=56.32 Aligned_cols=53 Identities=21% Similarity=0.367 Sum_probs=42.3
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec--HHHHhhCCC-----CCCeEEEEccCCC
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--PHVVATAPV-----YEGVSHVGGDMLN 246 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--p~v~~~a~~-----~~ri~~~~gd~~~ 246 (266)
..+||||||.|.++..+++++|+..++++|+ +.+....+. .++|.++.+|..+
T Consensus 50 pi~lEIGfG~G~~l~~~A~~nP~~nfiGiEi~~~~v~~~l~k~~~~~l~Nlri~~~DA~~ 109 (227)
T COG0220 50 PIVLEIGFGMGEFLVEMAKKNPEKNFLGIEIRVPGVAKALKKIKELGLKNLRLLCGDAVE 109 (227)
T ss_pred cEEEEECCCCCHHHHHHHHHCCCCCEEEEEEehHHHHHHHHHHHHcCCCcEEEEcCCHHH
Confidence 5899999999999999999999999999998 443333222 3378888888655
No 151
>TIGR02085 meth_trns_rumB 23S rRNA (uracil-5-)-methyltransferase RumB. This family consists of RNA methyltransferases designated RumB, formerly YbjF. Members act on 23S rRNA U747 and the equivalent position in other proteobacterial species. This family is homologous to the other 23S rRNA methyltransferase RumA and to the tRNA methyltransferase TrmA.
Probab=96.97 E-value=0.0012 Score=60.56 Aligned_cols=62 Identities=13% Similarity=0.120 Sum_probs=47.9
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---C-CCccEEEe
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---V-PNADAVFM 256 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~-p~aD~~~l 256 (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 369999999999999999864 468999997 667765553 35799999998652 2 24898876
No 152
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=96.94 E-value=0.0011 Score=45.62 Aligned_cols=60 Identities=20% Similarity=0.356 Sum_probs=49.1
Q ss_pred HHhcChhhHhhhCCC-CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 33 AVELRLADIMHCHGS-PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 33 a~elglfd~L~~~g~-~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
..+-.|+..|..+|+ ++|+.|||+.+|++... +.|+|.-|...|++...+. .++.|+++.
T Consensus 6 ~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~------v~r~L~~L~~~G~V~~~~~----~~~~W~i~~ 66 (68)
T smart00550 6 SLEEKILEFLENSGDETSTALQLAKNLGLPKKE------VNRVLYSLEKKGKVCKQGG----TPPLWKLTD 66 (68)
T ss_pred HHHHHHHHHHHHCCCCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecCC----CCCceEeec
Confidence 345678889988754 39999999999999877 9999999999999998762 146787764
No 153
>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA. This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA.
Probab=96.93 E-value=0.0012 Score=61.83 Aligned_cols=65 Identities=18% Similarity=0.257 Sum_probs=50.7
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---C---C-CccEEE
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---V---P-NADAVF 255 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~---p-~aD~~~ 255 (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 44567999999999999999998753 7899998 777776654 36899999998652 2 1 278888
Q ss_pred e
Q 042491 256 M 256 (266)
Q Consensus 256 l 256 (266)
+
T Consensus 368 ~ 368 (431)
T TIGR00479 368 L 368 (431)
T ss_pred E
Confidence 6
No 154
>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=96.92 E-value=0.001 Score=57.56 Aligned_cols=66 Identities=21% Similarity=0.296 Sum_probs=52.6
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC----------CCCeEEEEccCCC---CCC--CccEE
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV----------YEGVSHVGGDMLN---AVP--NADAV 254 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----------~~ri~~~~gd~~~---~~p--~aD~~ 254 (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 4689999999999999999998877789999999 777777654 5799999999765 333 49998
Q ss_pred Ee
Q 042491 255 FM 256 (266)
Q Consensus 255 ~l 256 (266)
++
T Consensus 155 i~ 156 (246)
T PF01564_consen 155 IV 156 (246)
T ss_dssp EE
T ss_pred EE
Confidence 76
No 155
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=96.79 E-value=0.0011 Score=57.42 Aligned_cols=58 Identities=19% Similarity=0.293 Sum_probs=49.6
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
+.|+++|...+.+++..|||+++|++... +.|+|..|+..|++.+++. .++|++++..
T Consensus 7 l~iL~~l~~~~~~l~l~ela~~~glpksT------~~RlL~tL~~~G~v~~d~~-----~g~Y~Lg~~~ 64 (246)
T COG1414 7 LAILDLLAEGPGGLSLAELAERLGLPKST------VHRLLQTLVELGYVEQDPE-----DGRYRLGPRL 64 (246)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHhCcCHHH------HHHHHHHHHHCCCEEEcCC-----CCcEeehHHH
Confidence 56788888743456799999999999877 9999999999999999994 3799999954
No 156
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=96.77 E-value=0.0012 Score=57.14 Aligned_cols=56 Identities=18% Similarity=0.248 Sum_probs=48.8
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
+.|+++|.....++|+.|||+.+|++... +.|+|.-|+..|++.+++ ++|++.+..
T Consensus 12 l~IL~~l~~~~~~~~l~eia~~lglpksT------~~RlL~tL~~~G~l~~~~-------~~Y~lG~~~ 67 (248)
T TIGR02431 12 LAVIEAFGAERPRLTLTDVAEATGLTRAA------ARRFLLTLVELGYVTSDG-------RLFWLTPRV 67 (248)
T ss_pred HHHHHHHhcCCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeCC-------CEEEecHHH
Confidence 56788887655789999999999999877 999999999999999865 899999954
No 157
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=96.77 E-value=0.0035 Score=54.68 Aligned_cols=67 Identities=13% Similarity=0.301 Sum_probs=51.3
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC----CCCCeEEEEccCCC-CCC
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP----VYEGVSHVGGDMLN-AVP 249 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~----~~~ri~~~~gd~~~-~~p 249 (266)
+..+++..+ ......|+|||+|.|.+...|++.. -+.+++|. +..++..+ ..+|++++.+|+++ +.+
T Consensus 19 ~~~Iv~~~~--~~~~~~VlEiGpG~G~lT~~L~~~~--~~v~~vE~d~~~~~~L~~~~~~~~~~~vi~~D~l~~~~~ 91 (262)
T PF00398_consen 19 ADKIVDALD--LSEGDTVLEIGPGPGALTRELLKRG--KRVIAVEIDPDLAKHLKERFASNPNVEVINGDFLKWDLY 91 (262)
T ss_dssp HHHHHHHHT--CGTTSEEEEESSTTSCCHHHHHHHS--SEEEEEESSHHHHHHHHHHCTTCSSEEEEES-TTTSCGG
T ss_pred HHHHHHhcC--CCCCCEEEEeCCCCccchhhHhccc--CcceeecCcHhHHHHHHHHhhhcccceeeecchhccccH
Confidence 455666666 5677999999999999999999998 67888887 44444433 36899999999998 443
No 158
>PRK11569 transcriptional repressor IclR; Provisional
Probab=96.75 E-value=0.0014 Score=57.52 Aligned_cols=58 Identities=12% Similarity=0.214 Sum_probs=49.6
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
+.|+++|.+.+.++|..|||+.+|++... +.|+|.-|+..|++.+++. .++|++.+..
T Consensus 31 l~IL~~l~~~~~~~~lseia~~lglpksT------v~RlL~tL~~~G~l~~~~~-----~~~Y~lG~~l 88 (274)
T PRK11569 31 LKLLEWIAESNGSVALTELAQQAGLPNST------THRLLTTMQQQGFVRQVGE-----LGHWAIGAHA 88 (274)
T ss_pred HHHHHHHHhCCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEcCC-----CCeEecCHHH
Confidence 56777787655789999999999999877 9999999999999998763 4899998854
No 159
>KOG1499 consensus Protein arginine N-methyltransferase PRMT1 and related enzymes [Posttranslational modification, protein turnover, chaperones; Transcription; Signal transduction mechanisms]
Probab=96.75 E-value=0.0023 Score=57.24 Aligned_cols=64 Identities=17% Similarity=0.191 Sum_probs=52.2
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-------CCCeEEEEccCCC-CCC--CccEEEe
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-------YEGVSHVGGDMLN-AVP--NADAVFM 256 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-------~~ri~~~~gd~~~-~~p--~aD~~~l 256 (266)
+.++|+|||||+|.++.-.+++. ..++..+|-.++++.+.+ .+.|+++.|...+ ++| ..|+++-
T Consensus 60 ~dK~VlDVGcGtGILS~F~akAG-A~~V~aVe~S~ia~~a~~iv~~N~~~~ii~vi~gkvEdi~LP~eKVDiIvS 133 (346)
T KOG1499|consen 60 KDKTVLDVGCGTGILSMFAAKAG-ARKVYAVEASSIADFARKIVKDNGLEDVITVIKGKVEDIELPVEKVDIIVS 133 (346)
T ss_pred CCCEEEEcCCCccHHHHHHHHhC-cceEEEEechHHHHHHHHHHHhcCccceEEEeecceEEEecCccceeEEee
Confidence 34899999999999999888887 568889998888776654 6779999998888 676 3888764
No 160
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=96.74 E-value=0.00092 Score=56.22 Aligned_cols=67 Identities=21% Similarity=0.298 Sum_probs=52.3
Q ss_pred CCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCC---------CCcc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAV---------PNAD 252 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~---------p~aD 252 (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 3678999999999999999999988 489999998 656655543 579999999987621 1489
Q ss_pred EEEec
Q 042491 253 AVFMK 257 (266)
Q Consensus 253 ~~~l~ 257 (266)
++++=
T Consensus 124 ~VFiD 128 (205)
T PF01596_consen 124 FVFID 128 (205)
T ss_dssp EEEEE
T ss_pred EEEEc
Confidence 99874
No 161
>PF01739 CheR: CheR methyltransferase, SAM binding domain; InterPro: IPR022642 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region []. CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the C-terminal SAM-binding domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF03705 from PFAM. ; PDB: 1AF7_A 1BC5_A.
Probab=96.73 E-value=0.006 Score=50.94 Aligned_cols=74 Identities=19% Similarity=0.233 Sum_probs=45.6
Q ss_pred CCceEEEecCCchHHH----HHHHHH---CC--CCeEEEeec-HHHHhhCCC----------------------------
Q 042491 192 GIRSLVDVGGGTGEEL----AEIVEF---YP--HIKGVNFDL-PHVVATAPV---------------------------- 233 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~----~~l~~~---~P--~l~~~~~Dl-p~v~~~a~~---------------------------- 233 (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 5689999999999643 333331 22 356777787 666665542
Q ss_pred ------CCCeEEEEccCCC-C-CC-CccEEEeccccccCCC
Q 042491 234 ------YEGVSHVGGDMLN-A-VP-NADAVFMKVIVLIQDL 265 (266)
Q Consensus 234 ------~~ri~~~~gd~~~-~-~p-~aD~~~l~~vLHd~~~ 265 (266)
..+|+|..+|..+ + .+ .+|+|+|+|||-++++
T Consensus 111 ~v~~~lr~~V~F~~~NL~~~~~~~~~fD~I~CRNVlIYF~~ 151 (196)
T PF01739_consen 111 RVKPELRKMVRFRRHNLLDPDPPFGRFDLIFCRNVLIYFDP 151 (196)
T ss_dssp TE-HHHHTTEEEEE--TT-S------EEEEEE-SSGGGS-H
T ss_pred eEChHHcCceEEEecccCCCCcccCCccEEEecCEEEEeCH
Confidence 3679999999999 3 22 4999999999988763
No 162
>PRK13256 thiopurine S-methyltransferase; Reviewed
Probab=96.71 E-value=0.0087 Score=51.06 Aligned_cols=72 Identities=11% Similarity=0.061 Sum_probs=55.8
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC------------------CCCCeEEEEccCCC-CC--
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP------------------VYEGVSHVGGDMLN-AV-- 248 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~------------------~~~ri~~~~gd~~~-~~-- 248 (266)
.+..+|++.|||.|..+.-|++. +.+++++|+ |..++.+. ...+|++..||||+ +.
T Consensus 42 ~~~~rvLvPgCGkg~D~~~LA~~--G~~V~GvDlS~~Ai~~~~~e~~~~~~~~~~~~~~~~~~~~i~~~~gD~f~l~~~~ 119 (226)
T PRK13256 42 NDSSVCLIPMCGCSIDMLFFLSK--GVKVIGIELSEKAVLSFFSQNTINYEVIHGNDYKLYKGDDIEIYVADIFNLPKIA 119 (226)
T ss_pred CCCCeEEEeCCCChHHHHHHHhC--CCcEEEEecCHHHHHHHHHHcCCCcceecccccceeccCceEEEEccCcCCCccc
Confidence 34579999999999999999987 567999998 55555521 14689999999999 32
Q ss_pred ---CCccEEEeccccccCC
Q 042491 249 ---PNADAVFMKVIVLIQD 264 (266)
Q Consensus 249 ---p~aD~~~l~~vLHd~~ 264 (266)
..+|+|+=+-+|+..+
T Consensus 120 ~~~~~fD~VyDra~~~Alp 138 (226)
T PRK13256 120 NNLPVFDIWYDRGAYIALP 138 (226)
T ss_pred cccCCcCeeeeehhHhcCC
Confidence 2489999888877654
No 163
>KOG3010 consensus Methyltransferase [General function prediction only]
Probab=96.71 E-value=0.0022 Score=54.58 Aligned_cols=73 Identities=25% Similarity=0.287 Sum_probs=51.8
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEE--ccCCC----C-C--CC-ccEEEeccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVG--GDMLN----A-V--PN-ADAVFMKVI 259 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~--gd~~~----~-~--p~-aD~~~l~~v 259 (266)
++.+.++|||||+|+.++.++..|.+ +|..|. +.+++.+.+..+++++. --|-+ + . ++ .|+|...+.
T Consensus 32 ~~h~~a~DvG~G~Gqa~~~iae~~k~--VIatD~s~~mL~~a~k~~~~~y~~t~~~ms~~~~v~L~g~e~SVDlI~~Aqa 109 (261)
T KOG3010|consen 32 EGHRLAWDVGTGNGQAARGIAEHYKE--VIATDVSEAMLKVAKKHPPVTYCHTPSTMSSDEMVDLLGGEESVDLITAAQA 109 (261)
T ss_pred CCcceEEEeccCCCcchHHHHHhhhh--heeecCCHHHHHHhhcCCCcccccCCccccccccccccCCCcceeeehhhhh
Confidence 35569999999999777777777664 666687 78888888755544432 22332 1 2 33 899999999
Q ss_pred cccCCC
Q 042491 260 VLIQDL 265 (266)
Q Consensus 260 LHd~~~ 265 (266)
+|-++.
T Consensus 110 ~HWFdl 115 (261)
T KOG3010|consen 110 VHWFDL 115 (261)
T ss_pred HHhhch
Confidence 998763
No 164
>TIGR00095 RNA methyltransferase, RsmD family. This model represents a family of uncharacterized bacterial proteins. Members are present in nearly every complete bacterial genome, always in a single copy. PSI-BLAST analysis shows homology to several families of SAM-dependent methyltransferases, including ribosomal RNA adenine dimethylases.
Probab=96.71 E-value=0.0017 Score=53.96 Aligned_cols=63 Identities=17% Similarity=0.074 Sum_probs=47.4
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C--CC--ccEEEe
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V--PN--ADAVFM 256 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~--p~--aD~~~l 256 (266)
..+|||++||+|.++.+++.+... +++.+|. +.+++.+++ .++++++.+|.++. + ++ +|++++
T Consensus 50 g~~vLDLfaGsG~lglea~srga~-~v~~vE~~~~a~~~~~~N~~~~~~~~~~~~~~~D~~~~l~~~~~~~~~~dvv~~ 127 (189)
T TIGR00095 50 GAHLLDVFAGSGLLGEEALSRGAK-VAFLEEDDRKANQTLKENLALLKSGEQAEVVRNSALRALKFLAKKPTFDNVIYL 127 (189)
T ss_pred CCEEEEecCCCcHHHHHHHhCCCC-EEEEEeCCHHHHHHHHHHHHHhCCcccEEEEehhHHHHHHHhhccCCCceEEEE
Confidence 478999999999999999999764 7888897 555554432 35899999998662 2 12 677765
No 165
>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=96.70 E-value=0.00099 Score=53.84 Aligned_cols=62 Identities=18% Similarity=0.392 Sum_probs=44.5
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---CC--C-ccEEEec
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---VP--N-ADAVFMK 257 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~p--~-aD~~~l~ 257 (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 47999999999999999999764 777787 555555442 67999999999983 33 2 7999875
No 166
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=96.67 E-value=0.0018 Score=56.83 Aligned_cols=58 Identities=5% Similarity=0.129 Sum_probs=49.5
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
+.|+++|...+.++|+.|||+.+|++... +.|+|.-|+..|++.+++. .++|++++..
T Consensus 28 l~IL~~~~~~~~~~tl~eIa~~lglpkSt------v~RlL~tL~~~G~l~~~~~-----~~~Y~lG~~l 85 (271)
T PRK10163 28 IAILQYLEKSGGSSSVSDISLNLDLPLST------TFRLLKVLQAADFVYQDSQ-----LGWWHIGLGV 85 (271)
T ss_pred HHHHHHHHhCCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEcCC-----CCeEEecHHH
Confidence 55777787655689999999999999877 9999999999999988763 4899999854
No 167
>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=96.67 E-value=0.011 Score=50.63 Aligned_cols=77 Identities=16% Similarity=0.151 Sum_probs=50.1
Q ss_pred HHHHhhcccCC-CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-H-HHHhhCCCCCCeEE-EEccCCC--------C
Q 042491 180 STLLSHYKDGF-DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-P-HVVATAPVYEGVSH-VGGDMLN--------A 247 (266)
Q Consensus 180 ~~~~~~~~~~~-~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p-~v~~~a~~~~ri~~-~~gd~~~--------~ 247 (266)
..+++.++ . ....+++|||||+|.+...+++. +.-+++.+|. + ++....+..+|+.. ...|+.. +
T Consensus 64 ~~~l~~~~--~~~~~~~vlDiG~gtG~~t~~l~~~-ga~~v~avD~~~~~l~~~l~~~~~v~~~~~~ni~~~~~~~~~~d 140 (228)
T TIGR00478 64 KEALEEFN--IDVKNKIVLDVGSSTGGFTDCALQK-GAKEVYGVDVGYNQLAEKLRQDERVKVLERTNIRYVTPADIFPD 140 (228)
T ss_pred HHHHHhcC--CCCCCCEEEEcccCCCHHHHHHHHc-CCCEEEEEeCCHHHHHHHHhcCCCeeEeecCCcccCCHhHcCCC
Confidence 34555554 2 24579999999999999999987 4568999998 3 34444555666543 3334442 1
Q ss_pred CCCccEEEeccc
Q 042491 248 VPNADAVFMKVI 259 (266)
Q Consensus 248 ~p~aD~~~l~~v 259 (266)
++.+|+.+.+..
T Consensus 141 ~~~~DvsfiS~~ 152 (228)
T TIGR00478 141 FATFDVSFISLI 152 (228)
T ss_pred ceeeeEEEeehH
Confidence 234888887654
No 168
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=96.66 E-value=0.012 Score=51.02 Aligned_cols=69 Identities=14% Similarity=0.376 Sum_probs=50.9
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhC----CCCCCeEEEEccCCC-CCCC
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATA----PVYEGVSHVGGDMLN-AVPN 250 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a----~~~~ri~~~~gd~~~-~~p~ 250 (266)
...+++..+ ......|++||+|.|.+-..|+++...+.++=+|. ..++.. ...++++++.||+.+ ++|+
T Consensus 19 ~~kIv~~a~--~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~-~l~~~L~~~~~~~~n~~vi~~DaLk~d~~~ 92 (259)
T COG0030 19 IDKIVEAAN--ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDR-RLAEVLKERFAPYDNLTVINGDALKFDFPS 92 (259)
T ss_pred HHHHHHhcC--CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCH-HHHHHHHHhcccccceEEEeCchhcCcchh
Confidence 455666665 55578999999999999999999988755554443 222222 236899999999999 6774
No 169
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=96.62 E-value=0.0021 Score=50.63 Aligned_cols=57 Identities=21% Similarity=0.376 Sum_probs=42.8
Q ss_pred CCCCceEEEecCCchHHHHHHHHH----CCCCeEEEeec-HHHHhhCCC---------CCCeEEEEccCCC
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEF----YPHIKGVNFDL-PHVVATAPV---------YEGVSHVGGDMLN 246 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~----~P~l~~~~~Dl-p~v~~~a~~---------~~ri~~~~gd~~~ 246 (266)
-.+..+|||+|||.|.++..|... .|+++++.+|. ++.++.+.. ..++++..+++..
T Consensus 23 ~~~~~~vvD~GsG~GyLs~~La~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ 93 (141)
T PF13679_consen 23 SKRCITVVDLGSGKGYLSRALAHLLCNSSPNLRVLGIDCNESLVESAQKRAQKLGSDLEKRLSFIQGDIAD 93 (141)
T ss_pred cCCCCEEEEeCCChhHHHHHHHHHHHhcCCCCeEEEEECCcHHHHHHHHHHHHhcchhhccchhhccchhh
Confidence 357789999999999999999992 28899999997 444444332 3567777776655
No 170
>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=96.60 E-value=0.0013 Score=44.73 Aligned_cols=63 Identities=22% Similarity=0.363 Sum_probs=42.9
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
+-|...|...+++.+..+||+.++++... +.+.++-|...|++++.....+.....|++|+.+
T Consensus 6 ~~vL~~l~~~~~~~t~~~l~~~~~~~~~~------vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~G 68 (68)
T PF13463_consen 6 WQVLRALAHSDGPMTQSDLAERLGISKST------VSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPAG 68 (68)
T ss_dssp HHHHHHHT--TS-BEHHHHHHHTT--HHH------HHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HHH
T ss_pred HHHHHHHHccCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCCC
Confidence 33455555223899999999999999766 9999999999999977763222233579999864
No 171
>PRK10611 chemotaxis methyltransferase CheR; Provisional
Probab=96.57 E-value=0.022 Score=50.40 Aligned_cols=74 Identities=20% Similarity=0.213 Sum_probs=53.2
Q ss_pred CCceEEEecCCchHH----HHHHHHHCC----CCeEEEeec-HHHHhhCCC-----------------------------
Q 042491 192 GIRSLVDVGGGTGEE----LAEIVEFYP----HIKGVNFDL-PHVVATAPV----------------------------- 233 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~----~~~l~~~~P----~l~~~~~Dl-p~v~~~a~~----------------------------- 233 (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 347999999999964 344444433 367888898 555544432
Q ss_pred --------CCCeEEEEccCCC-CCC---CccEEEeccccccCCC
Q 042491 234 --------YEGVSHVGGDMLN-AVP---NADAVFMKVIVLIQDL 265 (266)
Q Consensus 234 --------~~ri~~~~gd~~~-~~p---~aD~~~l~~vLHd~~~ 265 (266)
..+|+|..+|..+ ++| .+|+|+++|||.++++
T Consensus 195 ~~~v~~~lr~~V~F~~~NL~~~~~~~~~~fD~I~cRNvliyF~~ 238 (287)
T PRK10611 195 LVRVRQELANYVDFQQLNLLAKQWAVPGPFDAIFCRNVMIYFDK 238 (287)
T ss_pred eEEEChHHHccCEEEcccCCCCCCccCCCcceeeHhhHHhcCCH
Confidence 2568999999998 454 4999999999998864
No 172
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=96.53 E-value=0.0025 Score=55.66 Aligned_cols=60 Identities=17% Similarity=0.164 Sum_probs=50.3
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK 105 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~ 105 (266)
-+.|+++|...+.++|..|||+.+|++... +.|+|+.|...|++.++.. .++|++++...
T Consensus 13 al~iL~~l~~~~~~ls~~eia~~lgl~kst------v~RlL~tL~~~g~v~~~~~-----~~~Y~Lg~~~~ 72 (263)
T PRK09834 13 GLMVLRALNRLDGGATVGLLAELTGLHRTT------VRRLLETLQEEGYVRRSAS-----DDSFRLTLKVR 72 (263)
T ss_pred HHHHHHHHHhcCCCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEecC-----CCcEEEcHHHH
Confidence 356777887654679999999999999877 9999999999999998753 47899998654
No 173
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=96.52 E-value=0.009 Score=56.18 Aligned_cols=66 Identities=15% Similarity=0.234 Sum_probs=50.9
Q ss_pred CCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCCCC--CccEEEe
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAVP--NADAVFM 256 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~p--~aD~~~l 256 (266)
....+|||+|||+|..+..+++..+ .-+++.+|. ++.++.+++ .++|+++.+|..+..| .+|+|++
T Consensus 249 ~~g~~VLDlgaG~G~kt~~la~~~~~~~~V~avD~s~~~l~~~~~~~~~~g~~~v~~~~~Da~~~~~~~~fD~Vl~ 324 (445)
T PRK14904 249 QPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHASALGITIIETIEGDARSFSPEEQPDAILL 324 (445)
T ss_pred CCCCEEEEECCCCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHhCCCeEEEEeCcccccccCCCCCEEEE
Confidence 3457999999999999988888764 458999998 666665543 3568999999887333 3999986
No 174
>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=96.50 E-value=0.0046 Score=48.33 Aligned_cols=52 Identities=13% Similarity=0.176 Sum_probs=40.6
Q ss_pred eEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC
Q 042491 195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN 246 (266)
Q Consensus 195 ~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~ 246 (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 589999999999999999999999999997 666654443 2457776655554
No 175
>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=96.47 E-value=0.00097 Score=44.70 Aligned_cols=55 Identities=22% Similarity=0.384 Sum_probs=45.3
Q ss_pred HHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 27 SMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 27 ~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
+.+|.--.++.|+..|.. +++.|+.|||+.+|+++.. +.+.|+.|...|+++...
T Consensus 4 ~~aL~~p~R~~Il~~L~~-~~~~t~~ela~~l~~~~~t------~s~hL~~L~~aGli~~~~ 58 (61)
T PF12840_consen 4 FKALSDPTRLRILRLLAS-NGPMTVSELAEELGISQST------VSYHLKKLEEAGLIEVER 58 (61)
T ss_dssp HHHHTSHHHHHHHHHHHH-CSTBEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEEE
T ss_pred HHHhCCHHHHHHHHHHhc-CCCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCeEEec
Confidence 345555667888888844 3899999999999999776 999999999999998876
No 176
>PF05724 TPMT: Thiopurine S-methyltransferase (TPMT); InterPro: IPR008854 This family consists of thiopurine S-methyltransferase proteins from both eukaryotes and prokaryotes. Thiopurine S-methyltransferase (TPMT) is a cytosolic enzyme that catalyses S-methylation of aromatic and heterocyclic sulphydryl compounds, including anticancer and immunosuppressive thiopurines [].; GO: 0008119 thiopurine S-methyltransferase activity, 0008152 metabolic process, 0005737 cytoplasm; PDB: 1PJZ_A 2H11_A 2BZG_A 3LCC_A 3BGD_A 2GB4_A 3BGI_B.
Probab=96.44 E-value=0.0064 Score=51.65 Aligned_cols=72 Identities=17% Similarity=0.227 Sum_probs=54.5
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhC----CC--------------CCCeEEEEccCCC-C--
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATA----PV--------------YEGVSHVGGDMLN-A-- 247 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a----~~--------------~~ri~~~~gd~~~-~-- 247 (266)
.....+|++.|||.|.-+..|+++ +.+++++|+ |..|+.+ .. .++|++..||||+ +
T Consensus 35 ~~~~~rvLvPgCG~g~D~~~La~~--G~~VvGvDls~~Ai~~~~~e~~~~~~~~~~~~~~~~~~~~i~~~~gDfF~l~~~ 112 (218)
T PF05724_consen 35 LKPGGRVLVPGCGKGYDMLWLAEQ--GHDVVGVDLSPTAIEQAFEENNLEPTVTSVGGFKRYQAGRITIYCGDFFELPPE 112 (218)
T ss_dssp TSTSEEEEETTTTTSCHHHHHHHT--TEEEEEEES-HHHHHHHHHHCTTEEECTTCTTEEEETTSSEEEEES-TTTGGGS
T ss_pred CCCCCeEEEeCCCChHHHHHHHHC--CCeEEEEecCHHHHHHHHHHhccCCCcccccceeeecCCceEEEEcccccCChh
Confidence 446679999999999999999987 568999998 5555543 10 4689999999999 2
Q ss_pred CC-CccEEEeccccccC
Q 042491 248 VP-NADAVFMKVIVLIQ 263 (266)
Q Consensus 248 ~p-~aD~~~l~~vLHd~ 263 (266)
.. .+|+|+=+-.|+-.
T Consensus 113 ~~g~fD~iyDr~~l~Al 129 (218)
T PF05724_consen 113 DVGKFDLIYDRTFLCAL 129 (218)
T ss_dssp CHHSEEEEEECSSTTTS
T ss_pred hcCCceEEEEecccccC
Confidence 11 48999877776643
No 177
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=96.43 E-value=0.0028 Score=55.08 Aligned_cols=57 Identities=16% Similarity=0.207 Sum_probs=48.2
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
+.|++.|... +++|+.|||+.+|++... +.|+|+-|+..|++.++.. .++|++++..
T Consensus 17 l~IL~~l~~~-~~l~l~eia~~lgl~kst------v~Rll~tL~~~G~l~~~~~-----~~~Y~lG~~~ 73 (257)
T PRK15090 17 FGILQALGEE-REIGITELSQRVMMSKST------VYRFLQTMKTLGYVAQEGE-----SEKYSLTLKL 73 (257)
T ss_pred HHHHHHhhcC-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEcCC-----CCcEEecHHH
Confidence 4566777654 689999999999999877 9999999999999998753 4899999854
No 178
>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=96.40 E-value=0.093 Score=45.94 Aligned_cols=73 Identities=18% Similarity=0.186 Sum_probs=55.9
Q ss_pred CCceEEEecCCchH----HHHHHHHHCCC-----CeEEEeec-HHHHhhCCC----------------------------
Q 042491 192 GIRSLVDVGGGTGE----ELAEIVEFYPH-----IKGVNFDL-PHVVATAPV---------------------------- 233 (266)
Q Consensus 192 ~~~~vvDvGgG~G~----~~~~l~~~~P~-----l~~~~~Dl-p~v~~~a~~---------------------------- 233 (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 57899999999995 66778888874 57777787 555554442
Q ss_pred -------CCCeEEEEccCCCC--CCC-ccEEEeccccccCC
Q 042491 234 -------YEGVSHVGGDMLNA--VPN-ADAVFMKVIVLIQD 264 (266)
Q Consensus 234 -------~~ri~~~~gd~~~~--~p~-aD~~~l~~vLHd~~ 264 (266)
...|.|..+|.+++ .++ +|+|+|+|||=+++
T Consensus 176 y~v~~~ir~~V~F~~~NLl~~~~~~~~fD~IfCRNVLIYFd 216 (268)
T COG1352 176 YRVKEELRKMVRFRRHNLLDDSPFLGKFDLIFCRNVLIYFD 216 (268)
T ss_pred EEEChHHhcccEEeecCCCCCccccCCCCEEEEcceEEeeC
Confidence 24688999999984 444 99999999997765
No 179
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=96.39 E-value=0.0039 Score=61.93 Aligned_cols=64 Identities=13% Similarity=0.041 Sum_probs=50.6
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------C-CCeEEEEccCCCC---CC-CccEEEe
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------Y-EGVSHVGGDMLNA---VP-NADAVFM 256 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~-~ri~~~~gd~~~~---~p-~aD~~~l 256 (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 4579999999999999999986 3447999998 666665553 2 5899999998873 23 4999987
No 180
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=96.38 E-value=0.0047 Score=57.13 Aligned_cols=65 Identities=14% Similarity=0.075 Sum_probs=48.9
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------C-CCeEEEEccCCCCC------C-CccEEE
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------Y-EGVSHVGGDMLNAV------P-NADAVF 255 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~-~ri~~~~gd~~~~~------p-~aD~~~ 255 (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 4579999999999998876643 4458999998 666665543 2 48999999998732 2 399998
Q ss_pred ec
Q 042491 256 MK 257 (266)
Q Consensus 256 l~ 257 (266)
+-
T Consensus 299 lD 300 (396)
T PRK15128 299 MD 300 (396)
T ss_pred EC
Confidence 74
No 181
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=96.34 E-value=0.0073 Score=55.24 Aligned_cols=51 Identities=14% Similarity=0.170 Sum_probs=41.5
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN 246 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~ 246 (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 5799999999999999998865 7889997 666665543 3589999999865
No 182
>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase. This family consists exclusively of proteins believed to act as tRNA (uracil-5-)-methyltransferase. All members of far are proteobacterial. The seed alignment was taken directly from pfam05958 in Pfam 12.0, but higher cutoffs are used to select only functionally equivalent proteins. Homologous proteins excluded by the higher cutoff scores of this model include other uracil methyltransferases, such as RumA, active on rRNA.
Probab=96.33 E-value=0.0049 Score=56.18 Aligned_cols=51 Identities=12% Similarity=0.156 Sum_probs=42.0
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN 246 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~ 246 (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 4699999999999999998874 7899997 777776654 3579999999865
No 183
>PRK11760 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional
Probab=96.33 E-value=0.015 Score=52.34 Aligned_cols=66 Identities=18% Similarity=0.121 Sum_probs=54.5
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCCCCC---CccEEEecc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNAVP---NADAVFMKV 258 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~~p---~aD~~~l~~ 258 (266)
....++||||+++|.+...++++ +.+++.+|.-++.+.....+||+++.+|-+...| .+|++++=.
T Consensus 210 ~~g~~vlDLGAsPGGWT~~L~~r--G~~V~AVD~g~l~~~L~~~~~V~h~~~d~fr~~p~~~~vDwvVcDm 278 (357)
T PRK11760 210 APGMRAVDLGAAPGGWTYQLVRR--GMFVTAVDNGPMAQSLMDTGQVEHLRADGFKFRPPRKNVDWLVCDM 278 (357)
T ss_pred CCCCEEEEeCCCCcHHHHHHHHc--CCEEEEEechhcCHhhhCCCCEEEEeccCcccCCCCCCCCEEEEec
Confidence 45689999999999999999998 4599999987776666668999999999988543 378877643
No 184
>PF12147 Methyltransf_20: Putative methyltransferase; InterPro: IPR022744 This C-terminal region is found in bacteria and eukaryotes and is approximately 110 amino acids in length. It is found in association with PF00561 from PFAM. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins. This domain belongs to the S-adenosyl-L-methionine-dependent methyltransferases superfamily.
Probab=96.30 E-value=0.015 Score=51.11 Aligned_cols=75 Identities=15% Similarity=0.141 Sum_probs=59.3
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCC--CeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC------CCCccEE
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPH--IKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA------VPNADAV 254 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~--l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~------~p~aD~~ 254 (266)
....+||||.||+|.+....++.+|. .++.+.|. |..++..++ .+-++|..+|-|+. -|..+++
T Consensus 134 g~pvrIlDIAaG~GRYvlDal~~~~~~~~~i~LrDys~~Nv~~g~~li~~~gL~~i~~f~~~dAfd~~~l~~l~p~P~l~ 213 (311)
T PF12147_consen 134 GRPVRILDIAAGHGRYVLDALEKHPERPDSILLRDYSPINVEKGRALIAERGLEDIARFEQGDAFDRDSLAALDPAPTLA 213 (311)
T ss_pred CCceEEEEeccCCcHHHHHHHHhCCCCCceEEEEeCCHHHHHHHHHHHHHcCCccceEEEecCCCCHhHhhccCCCCCEE
Confidence 35789999999999999999999998 68888897 555555443 34459999999983 3457999
Q ss_pred EeccccccCCC
Q 042491 255 FMKVIVLIQDL 265 (266)
Q Consensus 255 ~l~~vLHd~~~ 265 (266)
+.+-+.-.++|
T Consensus 214 iVsGL~ElF~D 224 (311)
T PF12147_consen 214 IVSGLYELFPD 224 (311)
T ss_pred EEecchhhCCc
Confidence 98887766665
No 185
>PLN02476 O-methyltransferase
Probab=96.27 E-value=0.0062 Score=53.55 Aligned_cols=67 Identities=18% Similarity=0.129 Sum_probs=53.0
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C------CCc
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V------PNA 251 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~------p~a 251 (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 557888898 555665543 57999999998762 2 248
Q ss_pred cEEEe
Q 042491 252 DAVFM 256 (266)
Q Consensus 252 D~~~l 256 (266)
|++++
T Consensus 196 D~VFI 200 (278)
T PLN02476 196 DFAFV 200 (278)
T ss_pred CEEEE
Confidence 98876
No 186
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=96.21 E-value=0.016 Score=44.00 Aligned_cols=70 Identities=23% Similarity=0.297 Sum_probs=54.4
Q ss_pred HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491 33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR 109 (266)
Q Consensus 33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~ 109 (266)
..++.|+..|... +++|..+||+.++++... +.+.++-|...|++.+.....+...-.|.+|+.++.+..
T Consensus 28 ~~q~~iL~~l~~~-~~~t~~ela~~~~~~~~t------vs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~~ 97 (118)
T TIGR02337 28 EQQWRILRILAEQ-GSMEFTQLANQACILRPS------LTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALYA 97 (118)
T ss_pred HHHHHHHHHHHHc-CCcCHHHHHHHhCCCchh------HHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHH
Confidence 3445677888764 689999999999999877 999999999999999875322122346999999975543
No 187
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=96.16 E-value=0.0064 Score=46.41 Aligned_cols=65 Identities=15% Similarity=0.309 Sum_probs=54.3
Q ss_pred HHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCce---EeCc
Q 042491 25 ADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETM---YGLT 101 (266)
Q Consensus 25 ~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~---y~lt 101 (266)
-.+++|.--.++.|+..|... ++.++.||++.+++++.. +.+.|+.|...|++.... .|+ |+++
T Consensus 8 ~~fkaLadptRl~IL~~L~~~-~~~~v~ela~~l~lsqst------vS~HL~~L~~AGLV~~~r------~Gr~~~Y~l~ 74 (117)
T PRK10141 8 QLFKILSDETRLGIVLLLRES-GELCVCDLCTALDQSQPK------ISRHLALLRESGLLLDRK------QGKWVHYRLS 74 (117)
T ss_pred HHHHHhCCHHHHHHHHHHHHc-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCceEEEE------EcCEEEEEEC
Confidence 456677777888999999753 689999999999999887 999999999999998877 344 7776
Q ss_pred h
Q 042491 102 Q 102 (266)
Q Consensus 102 ~ 102 (266)
+
T Consensus 75 ~ 75 (117)
T PRK10141 75 P 75 (117)
T ss_pred c
Confidence 5
No 188
>TIGR00563 rsmB ribosomal RNA small subunit methyltransferase RsmB. The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles.
Probab=96.07 E-value=0.021 Score=53.37 Aligned_cols=67 Identities=16% Similarity=0.236 Sum_probs=49.8
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC-C--C--CccEEEe
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA-V--P--NADAVFM 256 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~-~--p--~aD~~~l 256 (266)
.....+|+|+|||+|..+..+++..|+.+++.+|. ++.++.+++ ..++.++.+|.... . + .+|.|++
T Consensus 236 ~~~g~~VLDlcag~G~kt~~la~~~~~~~v~a~D~~~~~l~~~~~n~~r~g~~~~v~~~~~d~~~~~~~~~~~~fD~Vll 315 (426)
T TIGR00563 236 PQNEETILDACAAPGGKTTHILELAPQAQVVALDIHEHRLKRVYENLKRLGLTIKAETKDGDGRGPSQWAENEQFDRILL 315 (426)
T ss_pred CCCCCeEEEeCCCccHHHHHHHHHcCCCeEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeccccccccccccccccCEEEE
Confidence 34557999999999999999999998788999998 666665543 12344477887652 2 2 3999986
No 189
>KOG3115 consensus Methyltransferase-like protein [General function prediction only]
Probab=96.03 E-value=0.0065 Score=50.51 Aligned_cols=57 Identities=16% Similarity=0.336 Sum_probs=41.1
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec--------HHHHhhCCC------CCCeEEEEccCCCCCC
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--------PHVVATAPV------YEGVSHVGGDMLNAVP 249 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--------p~v~~~a~~------~~ri~~~~gd~~~~~p 249 (266)
.-.++|||||-|.++..|...||+.-..++++ .+-|..++. ..+|.++..|-+.-+|
T Consensus 61 kvefaDIGCGyGGLlv~Lsp~fPdtLiLGmEIR~KVsdYVk~RI~ALR~~~a~~~~~ni~vlr~namk~lp 131 (249)
T KOG3115|consen 61 KVEFADIGCGYGGLLMKLAPKFPDTLILGMEIRDKVSDYVKERIQALRRTSAEGQYPNISVLRTNAMKFLP 131 (249)
T ss_pred cceEEeeccCccchhhhccccCccceeeeehhhHHHHHHHHHHHHHHhccccccccccceeeeccchhhcc
Confidence 35799999999999999999999988888887 222333321 3557777666555444
No 190
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=96.02 E-value=0.011 Score=42.86 Aligned_cols=67 Identities=21% Similarity=0.362 Sum_probs=51.5
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
++.++..|... ++.|..+||+.+++++.. +.+.++-|...|++.......+.....|.+|+.+..+.
T Consensus 12 ~~~il~~l~~~-~~~~~~~la~~~~~s~~~------i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~~~ 78 (101)
T smart00347 12 QFLVLRILYEE-GPLSVSELAKRLGVSPST------VTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELI 78 (101)
T ss_pred HHHHHHHHHHc-CCcCHHHHHHHHCCCchh------HHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHHHH
Confidence 55677778764 579999999999999887 99999999999999877532111224688888886544
No 191
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=95.99 E-value=0.0097 Score=56.85 Aligned_cols=54 Identities=11% Similarity=0.199 Sum_probs=42.2
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec--HHHHhhCCC-----CCCeEEEEccCC
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--PHVVATAPV-----YEGVSHVGGDML 245 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--p~v~~~a~~-----~~ri~~~~gd~~ 245 (266)
....+||||||.|.++..+++.+|+..++++|. +.+...++. ..++.++.+|+.
T Consensus 347 ~~p~~lEIG~G~G~~~~~~A~~~p~~~~iGiE~~~~~~~~~~~~~~~~~l~N~~~~~~~~~ 407 (506)
T PRK01544 347 KRKVFLEIGFGMGEHFINQAKMNPDALFIGVEVYLNGVANVLKLAGEQNITNFLLFPNNLD 407 (506)
T ss_pred CCceEEEECCCchHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHcCCCeEEEEcCCHH
Confidence 468999999999999999999999999999998 333332222 456777877763
No 192
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=95.98 E-value=0.014 Score=54.66 Aligned_cols=67 Identities=13% Similarity=0.164 Sum_probs=51.4
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CCC-ccEEEe
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VPN-ADAVFM 256 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p~-aD~~~l 256 (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 3456799999999999999999886 4578999998 666655543 3468999999876 2 233 999986
No 193
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=95.96 E-value=0.017 Score=45.63 Aligned_cols=73 Identities=22% Similarity=0.294 Sum_probs=51.5
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCC-eEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC--C-
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHI-KGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP--N- 250 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p--~- 250 (266)
.+-+.|++ + ....+.|+|||.|.+. ++-.+|.. .++++|+ |+.++..+. .-.+.+...|+.++.+ +
T Consensus 39 ~Ih~Tygd-i-Egkkl~DLgcgcGmLs--~a~sm~~~e~vlGfDIdpeALEIf~rNaeEfEvqidlLqcdildle~~~g~ 114 (185)
T KOG3420|consen 39 TIHNTYGD-I-EGKKLKDLGCGCGMLS--IAFSMPKNESVLGFDIDPEALEIFTRNAEEFEVQIDLLQCDILDLELKGGI 114 (185)
T ss_pred HHHhhhcc-c-cCcchhhhcCchhhhH--HHhhcCCCceEEeeecCHHHHHHHhhchHHhhhhhheeeeeccchhccCCe
Confidence 34555652 2 3489999999999998 55566665 5789999 777776654 3456888888888533 3
Q ss_pred ccEEEec
Q 042491 251 ADAVFMK 257 (266)
Q Consensus 251 aD~~~l~ 257 (266)
+|..++.
T Consensus 115 fDtaviN 121 (185)
T KOG3420|consen 115 FDTAVIN 121 (185)
T ss_pred EeeEEec
Confidence 7776654
No 194
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=95.95 E-value=0.0065 Score=38.04 Aligned_cols=42 Identities=14% Similarity=0.257 Sum_probs=36.7
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT 101 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt 101 (266)
-++|..+||+.+|++... +.+.|+.|...|++.... +.|.++
T Consensus 7 ~~~s~~~la~~l~~s~~t------v~~~l~~L~~~g~l~~~~-------~~~~i~ 48 (48)
T smart00419 7 LPLTRQEIAELLGLTRET------VSRTLKRLEKEGLISREG-------GRIVIL 48 (48)
T ss_pred eccCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEeC-------CEEEEC
Confidence 368999999999999777 999999999999998776 677654
No 195
>PF02527 GidB: rRNA small subunit methyltransferase G; InterPro: IPR003682 This entry represents a rRNA small subunit methyltransferase G. Previously identified as a glucose-inhibited division protein B that appears to be present and in a single copy in all complete eubacterial genomes so far sequenced. Specifically methylates the N7 position of a guanosine in 16S rRNA [, , ].; GO: 0008649 rRNA methyltransferase activity, 0006364 rRNA processing, 0005737 cytoplasm; PDB: 1XDZ_A 3G88_A 3G8A_B 3G89_B 3G8B_B 1JSX_A.
Probab=95.91 E-value=0.038 Score=45.65 Aligned_cols=64 Identities=17% Similarity=0.238 Sum_probs=48.2
Q ss_pred eEEEecCCchHHHHHHHHHCCCCeEEEeec--------HHHHhhCCCCCCeEEEEccCCC-CCC-CccEEEeccc
Q 042491 195 SLVDVGGGTGEELAEIVEFYPHIKGVNFDL--------PHVVATAPVYEGVSHVGGDMLN-AVP-NADAVFMKVI 259 (266)
Q Consensus 195 ~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--------p~v~~~a~~~~ri~~~~gd~~~-~~p-~aD~~~l~~v 259 (266)
+++|||.|.|.=++-++=.+|+++++++|. ..++.... .++++++.+...+ ..+ .||+++.+-+
T Consensus 51 ~~lDiGSGaGfPGipLaI~~p~~~~~LvEs~~KK~~FL~~~~~~L~-L~nv~v~~~R~E~~~~~~~fd~v~aRAv 124 (184)
T PF02527_consen 51 KVLDIGSGAGFPGIPLAIARPDLQVTLVESVGKKVAFLKEVVRELG-LSNVEVINGRAEEPEYRESFDVVTARAV 124 (184)
T ss_dssp EEEEETSTTTTTHHHHHHH-TTSEEEEEESSHHHHHHHHHHHHHHT--SSEEEEES-HHHTTTTT-EEEEEEESS
T ss_pred eEEecCCCCCChhHHHHHhCCCCcEEEEeCCchHHHHHHHHHHHhC-CCCEEEEEeeecccccCCCccEEEeehh
Confidence 899999999999999999999999999997 23333222 4679999888877 344 4999987754
No 196
>PF04816 DUF633: Family of unknown function (DUF633) ; InterPro: IPR006901 This is a family of uncharacterised bacterial proteins.; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity; PDB: 3LEC_A 3KU1_G 3KR9_A 3GNL_B.
Probab=95.90 E-value=0.012 Score=49.56 Aligned_cols=62 Identities=18% Similarity=0.243 Sum_probs=46.6
Q ss_pred EEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--C-ccEEEec
Q 042491 196 LVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--N-ADAVFMK 257 (266)
Q Consensus 196 vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~-aD~~~l~ 257 (266)
|.||||-+|.+.+.|+++...-+++..|+ |.-.+.+++ .++|++.-||-++.++ + .|+++++
T Consensus 1 vaDIGtDHgyLpi~L~~~~~~~~~ia~DI~~gpL~~A~~~i~~~~l~~~i~~rlgdGL~~l~~~e~~d~ivIA 73 (205)
T PF04816_consen 1 VADIGTDHGYLPIYLLKNGKAPKAIAVDINPGPLEKAKENIAKYGLEDRIEVRLGDGLEVLKPGEDVDTIVIA 73 (205)
T ss_dssp EEEET-STTHHHHHHHHTTSEEEEEEEESSHHHHHHHHHHHHHTT-TTTEEEEE-SGGGG--GGG---EEEEE
T ss_pred CceeccchhHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCcccEEEEECCcccccCCCCCCCEEEEe
Confidence 68999999999999999999999999998 444444432 6899999999998755 3 8888775
No 197
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=95.88 E-value=0.016 Score=54.30 Aligned_cols=67 Identities=12% Similarity=0.091 Sum_probs=51.4
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C----C-C-CccEE
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A----V-P-NADAV 254 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~----~-p-~aD~~ 254 (266)
.....+|+|+|||+|..+..+++..+ .-+++.+|. ++.++.+++ .++|+++.+|..+ + . + .+|.|
T Consensus 250 ~~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~rl~~~~~n~~r~g~~~v~~~~~D~~~~~~~~~~~~~~fD~V 329 (434)
T PRK14901 250 PQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRNLLELKPQWRGYFDRI 329 (434)
T ss_pred CCCcCEEEEeCCCCchhHHHHHHHhCCCceEEEEcCCHHHHHHHHHHHHHcCCCeEEEEeCChhhcccccccccccCCEE
Confidence 34557999999999999999999864 468899998 666665543 3569999999876 2 1 2 39999
Q ss_pred Ee
Q 042491 255 FM 256 (266)
Q Consensus 255 ~l 256 (266)
++
T Consensus 330 l~ 331 (434)
T PRK14901 330 LL 331 (434)
T ss_pred EE
Confidence 97
No 198
>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=95.86 E-value=0.002 Score=44.10 Aligned_cols=47 Identities=19% Similarity=0.268 Sum_probs=40.4
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..|+..|-.. ++.|+.|||+.+|++... +.+.|+-|...|++.+..
T Consensus 10 E~~vy~~Ll~~-~~~t~~eIa~~l~i~~~~------v~~~L~~L~~~GlV~~~~ 56 (68)
T PF01978_consen 10 EAKVYLALLKN-GPATAEEIAEELGISRST------VYRALKSLEEKGLVEREE 56 (68)
T ss_dssp HHHHHHHHHHH-CHEEHHHHHHHHTSSHHH------HHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEc
Confidence 45566666443 799999999999999877 999999999999999987
No 199
>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=95.85 E-value=0.017 Score=38.84 Aligned_cols=44 Identities=16% Similarity=0.324 Sum_probs=39.3
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
.++|..|||+.+|++... +.+.++.|...|++.... .+.|.++|
T Consensus 24 ~~~s~~ela~~~g~s~~t------v~r~l~~L~~~g~i~~~~------~~~~~l~~ 67 (67)
T cd00092 24 LPLTRQEIADYLGLTRET------VSRTLKELEEEGLISRRG------RGKYRVNP 67 (67)
T ss_pred CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecC------CCeEEeCC
Confidence 689999999999999877 999999999999999876 37888765
No 200
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=95.84 E-value=0.0066 Score=42.73 Aligned_cols=55 Identities=18% Similarity=0.247 Sum_probs=41.2
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhh
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWL 107 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l 107 (266)
|...+.. ++.+..+|+..++++... +.+.|..|...|++...+ +.|.+|+.|.-+
T Consensus 11 IL~~l~~--~~~~~t~i~~~~~L~~~~------~~~yL~~L~~~gLI~~~~-------~~Y~lTekG~~~ 65 (77)
T PF14947_consen 11 ILKILSK--GGAKKTEIMYKANLNYST------LKKYLKELEEKGLIKKKD-------GKYRLTEKGKEF 65 (77)
T ss_dssp HHHHH-T--T-B-HHHHHTTST--HHH------HHHHHHHHHHTTSEEEET-------TEEEE-HHHHHH
T ss_pred HHHHHHc--CCCCHHHHHHHhCcCHHH------HHHHHHHHHHCcCeeCCC-------CEEEECccHHHH
Confidence 3444543 789999999999999877 999999999999997754 999999999643
No 201
>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=95.84 E-value=0.0028 Score=40.12 Aligned_cols=43 Identities=21% Similarity=0.421 Sum_probs=37.6
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA 85 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~ 85 (266)
++.|...|.. ++.++.||++.+|+++.. +.+.|+.|...|++.
T Consensus 4 R~~Il~~L~~--~~~~~~el~~~l~~s~~~------vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 4 RLRILKLLSE--GPLTVSELAEELGLSQST------VSHHLKKLREAGLVE 46 (47)
T ss_dssp HHHHHHHHTT--SSEEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHh--CCCchhhHHHhccccchH------HHHHHHHHHHCcCee
Confidence 4567788887 899999999999999877 999999999999986
No 202
>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]
Probab=95.81 E-value=0.019 Score=51.89 Aligned_cols=65 Identities=31% Similarity=0.509 Sum_probs=52.7
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCC-eEEEeec-HHHHhhCCC-------------CCCeEEEEccCCCCCC----Cc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHI-KGVNFDL-PHVVATAPV-------------YEGVSHVGGDMLNAVP----NA 251 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dl-p~v~~~a~~-------------~~ri~~~~gd~~~~~p----~a 251 (266)
.+..+++-+|||.|-.++++++ ||.. +.+..|+ |+||+.++. ++|++++.-|-|+-+. .+
T Consensus 288 ~~a~~vLvlGGGDGLAlRellk-yP~~~qI~lVdLDP~miela~~~~vlr~~N~~sf~dpRv~Vv~dDAf~wlr~a~~~f 366 (508)
T COG4262 288 RGARSVLVLGGGDGLALRELLK-YPQVEQITLVDLDPRMIELASHATVLRALNQGSFSDPRVTVVNDDAFQWLRTAADMF 366 (508)
T ss_pred cccceEEEEcCCchHHHHHHHh-CCCcceEEEEecCHHHHHHhhhhhHhhhhccCCccCCeeEEEeccHHHHHHhhcccc
Confidence 4778999999999999999876 6865 7888999 999998772 6899999999888432 27
Q ss_pred cEEEe
Q 042491 252 DAVFM 256 (266)
Q Consensus 252 D~~~l 256 (266)
|.++.
T Consensus 367 D~vIV 371 (508)
T COG4262 367 DVVIV 371 (508)
T ss_pred cEEEE
Confidence 77654
No 203
>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.
Probab=95.79 E-value=0.02 Score=47.00 Aligned_cols=67 Identities=21% Similarity=0.233 Sum_probs=48.5
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCe---------EEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC-C
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIK---------GVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP-N 250 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~---------~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p-~ 250 (266)
+.+...|+|-=||+|+++++.+...++.. +++.|. +++++.++. ...|.+..+|+.+ +++ +
T Consensus 26 ~~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D~~~l~~~~~ 105 (179)
T PF01170_consen 26 WRPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWDARELPLPDG 105 (179)
T ss_dssp --TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--GGGGGGTTS
T ss_pred CCCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecchhhcccccC
Confidence 55678999999999999999888888877 889998 666665543 5678999999998 533 3
Q ss_pred -ccEEEe
Q 042491 251 -ADAVFM 256 (266)
Q Consensus 251 -aD~~~l 256 (266)
.|+++.
T Consensus 106 ~~d~Ivt 112 (179)
T PF01170_consen 106 SVDAIVT 112 (179)
T ss_dssp BSCEEEE
T ss_pred CCCEEEE
Confidence 788775
No 204
>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=95.79 E-value=0.0089 Score=56.04 Aligned_cols=72 Identities=25% Similarity=0.258 Sum_probs=46.2
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec----HHHHhhCCCCCCeEEEEccCCC---CCCC--ccEEEeccccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL----PHVVATAPVYEGVSHVGGDMLN---AVPN--ADAVFMKVIVL 261 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl----p~v~~~a~~~~ri~~~~gd~~~---~~p~--aD~~~l~~vLH 261 (266)
...+++||||||.|.++..|+++. +..+-+-. +.-+.-+.+ ..|-.+-+-+-+ |+|. +|++.+++++.
T Consensus 116 g~iR~~LDvGcG~aSF~a~l~~r~--V~t~s~a~~d~~~~qvqfale-RGvpa~~~~~~s~rLPfp~~~fDmvHcsrc~i 192 (506)
T PF03141_consen 116 GGIRTALDVGCGVASFGAYLLERN--VTTMSFAPNDEHEAQVQFALE-RGVPAMIGVLGSQRLPFPSNAFDMVHCSRCLI 192 (506)
T ss_pred CceEEEEeccceeehhHHHHhhCC--ceEEEcccccCCchhhhhhhh-cCcchhhhhhccccccCCccchhhhhcccccc
Confidence 457899999999999999999984 33322222 111222211 224333344422 6774 99999999999
Q ss_pred cCCC
Q 042491 262 IQDL 265 (266)
Q Consensus 262 d~~~ 265 (266)
.|..
T Consensus 193 ~W~~ 196 (506)
T PF03141_consen 193 PWHP 196 (506)
T ss_pred cchh
Confidence 9975
No 205
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=95.75 E-value=0.039 Score=48.17 Aligned_cols=66 Identities=17% Similarity=0.154 Sum_probs=49.9
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-C--CCCccEEEe
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-A--VPNADAVFM 256 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~--~p~aD~~~l 256 (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 35579999999999999999998754 57899998 666654443 3568899898654 2 235999986
No 206
>PF09243 Rsm22: Mitochondrial small ribosomal subunit Rsm22; InterPro: IPR015324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Rsm22 has been identified as a mitochondrial small ribosomal subunit [] and is a methyltransferase. In Schizosaccharomyces pombe (Fission yeast), Rsm22 is tandemly fused to Cox11 (a factor required for copper insertion into cytochrome oxidase) and the two proteins are proteolytically cleaved after import into the mitochondria []. This entry consists of mitochondrial Rsm22 and homologous sequences from bacteria.; GO: 0008168 methyltransferase activity, 0006412 translation
Probab=95.75 E-value=0.028 Score=49.43 Aligned_cols=73 Identities=21% Similarity=0.258 Sum_probs=48.9
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCC-eEEEeec-HHHHhhCCC----CCCe--EEEEccCCC---CCCCccEEEecccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHI-KGVNFDL-PHVVATAPV----YEGV--SHVGGDMLN---AVPNADAVFMKVIV 260 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dl-p~v~~~a~~----~~ri--~~~~gd~~~---~~p~aD~~~l~~vL 260 (266)
.+++|||+|+|.|+.+-++...+|++ +++.+|. +.+.+.++. .... .....++.. +++..|+++++++|
T Consensus 33 ~P~~vLD~GsGpGta~wAa~~~~~~~~~~~~vd~s~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~DLvi~s~~L 112 (274)
T PF09243_consen 33 RPRSVLDFGSGPGTALWAAREVWPSLKEYTCVDRSPEMLELAKRLLRAGPNNRNAEWRRVLYRDFLPFPPDDLVIASYVL 112 (274)
T ss_pred CCceEEEecCChHHHHHHHHHHhcCceeeeeecCCHHHHHHHHHHHhcccccccchhhhhhhcccccCCCCcEEEEehhh
Confidence 45799999999999999999999965 4778887 555554332 1111 111122222 35567999999998
Q ss_pred ccCC
Q 042491 261 LIQD 264 (266)
Q Consensus 261 Hd~~ 264 (266)
-.-+
T Consensus 113 ~EL~ 116 (274)
T PF09243_consen 113 NELP 116 (274)
T ss_pred hcCC
Confidence 7643
No 207
>PF07091 FmrO: Ribosomal RNA methyltransferase (FmrO); PDB: 3LCU_A 3LCV_B 3FRH_A 3FRI_A 3B89_A 3FZG_A.
Probab=95.70 E-value=0.0072 Score=51.95 Aligned_cols=71 Identities=17% Similarity=0.158 Sum_probs=53.1
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCCC--ccEEEecccccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVPN--ADAVFMKVIVLI 262 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p~--aD~~~l~~vLHd 262 (266)
.+.+|+|||||-=-++.-.....|+.+.+..|+ .+.++..+. ..+.+....|.....|. +|+.++-.++|.
T Consensus 105 ~p~sVlDigCGlNPlalp~~~~~~~a~Y~a~DID~~~ve~l~~~l~~l~~~~~~~v~Dl~~~~~~~~~DlaLllK~lp~ 183 (251)
T PF07091_consen 105 PPDSVLDIGCGLNPLALPWMPEAPGATYIAYDIDSQLVEFLNAFLAVLGVPHDARVRDLLSDPPKEPADLALLLKTLPC 183 (251)
T ss_dssp --SEEEEET-TTCHHHHHTTTSSTT-EEEEEESBHHHHHHHHHHHHHTT-CEEEEEE-TTTSHTTSEESEEEEET-HHH
T ss_pred CCchhhhhhccCCceehhhcccCCCcEEEEEeCCHHHHHHHHHHHHhhCCCcceeEeeeeccCCCCCcchhhHHHHHHH
Confidence 479999999999999999999999999999999 555554443 56778888899997653 999999988874
No 208
>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=95.64 E-value=0.006 Score=38.60 Aligned_cols=45 Identities=20% Similarity=0.336 Sum_probs=37.0
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA 85 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~ 85 (266)
.+..|+..|.++ +.+|..|||+.+|++... +.+.++-|...|+++
T Consensus 4 ~~~~Il~~l~~~-~~~t~~ela~~~~is~~t------v~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 4 TQRKILNYLREN-PRITQKELAEKLGISRST------VNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHHHHHC-TTS-HHHHHHHHTS-HHH------HHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHc-CCCCHHHHHHHhCCCHHH------HHHHHHHHHHCcCcC
Confidence 356788889885 679999999999999766 999999999999874
No 209
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=95.63 E-value=0.08 Score=41.68 Aligned_cols=66 Identities=20% Similarity=0.236 Sum_probs=51.1
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
+.|+-.|... +++|..|||+.+++++.. +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus 43 ~~vL~~l~~~-~~~t~~eLa~~l~i~~~t------vsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~~G~~~~ 108 (144)
T PRK11512 43 FKVLCSIRCA-ACITPVELKKVLSVDLGA------LTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAAIC 108 (144)
T ss_pred HHHHHHHHHc-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEeccCcccCCeeEeEEChhHHHHH
Confidence 4456677653 689999999999999887 99999999999999987632212234578899887554
No 210
>PF07757 AdoMet_MTase: Predicted AdoMet-dependent methyltransferase; InterPro: IPR011671 tRNA (uracil-O(2)-)-methyltransferase catalyses the formation of O(2)-methyl-uracil at position 44 (m2U44) in tRNA(Ser) [].; GO: 0008168 methyltransferase activity
Probab=95.55 E-value=0.022 Score=42.54 Aligned_cols=32 Identities=22% Similarity=0.286 Sum_probs=26.4
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL 224 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl 224 (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 46789999999999998877776 456888886
No 211
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=95.47 E-value=0.077 Score=45.72 Aligned_cols=73 Identities=19% Similarity=0.282 Sum_probs=56.9
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHH-HCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC-CC-C
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVE-FYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA-VP-N 250 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~-~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~-~p-~ 250 (266)
++.... .....+|+|.|-|+|.++..|+. -.|.=+++.+|. ++-.+.|.+ .++|++..+|+.+. .+ .
T Consensus 86 I~~~~g--i~pg~rVlEAGtGSG~lt~~La~~vg~~G~v~tyE~r~d~~k~A~~Nl~~~~l~d~v~~~~~Dv~~~~~~~~ 163 (256)
T COG2519 86 IVARLG--ISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGLGDRVTLKLGDVREGIDEED 163 (256)
T ss_pred HHHHcC--CCCCCEEEEcccCchHHHHHHHHhhCCCceEEEEEecHHHHHHHHHHHHHhccccceEEEeccccccccccc
Confidence 444444 67789999999999999999997 557789999997 555555443 67799999999994 44 4
Q ss_pred ccEEEe
Q 042491 251 ADAVFM 256 (266)
Q Consensus 251 aD~~~l 256 (266)
+|+++|
T Consensus 164 vDav~L 169 (256)
T COG2519 164 VDAVFL 169 (256)
T ss_pred cCEEEE
Confidence 998886
No 212
>PF05148 Methyltransf_8: Hypothetical methyltransferase; InterPro: IPR007823 This family consists of uncharacterised eukaryotic proteins which are related to S-adenosyl-L-methionine-dependent methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 2ZFU_B.
Probab=95.46 E-value=0.034 Score=46.63 Aligned_cols=94 Identities=12% Similarity=0.152 Sum_probs=47.6
Q ss_pred hhcccCchHHHHHHHHHH----hhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhh
Q 042491 155 DFASQNSQFNNSFNKAMA----CTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVAT 230 (266)
Q Consensus 155 ~~~~~~~~~~~~f~~~m~----~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~ 230 (266)
+.+.++|+.-..|+++-+ .+-......+++.+. ..+....|.|.|||.+.++..+.+ ..++.-||+-..
T Consensus 32 ~lf~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~-~~~~~~viaD~GCGdA~la~~~~~---~~~V~SfDLva~--- 104 (219)
T PF05148_consen 32 KLFQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLK-KRPKSLVIADFGCGDAKLAKAVPN---KHKVHSFDLVAP--- 104 (219)
T ss_dssp HHHHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHC-TS-TTS-EEEES-TT-HHHHH--S------EEEEESS-S---
T ss_pred HHHHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHH-hcCCCEEEEECCCchHHHHHhccc---CceEEEeeccCC---
Confidence 444556655444444433 222223444555554 134567999999999999966532 257888998442
Q ss_pred CCCCCCeEEEEccCCC-CCCC--ccEEEecccc
Q 042491 231 APVYEGVSHVGGDMLN-AVPN--ADAVFMKVIV 260 (266)
Q Consensus 231 a~~~~ri~~~~gd~~~-~~p~--aD~~~l~~vL 260 (266)
.+ .+.+.|+-. |++. .|+++++--|
T Consensus 105 ---n~--~Vtacdia~vPL~~~svDv~VfcLSL 132 (219)
T PF05148_consen 105 ---NP--RVTACDIANVPLEDESVDVAVFCLSL 132 (219)
T ss_dssp ---ST--TEEES-TTS-S--TT-EEEEEEES--
T ss_pred ---CC--CEEEecCccCcCCCCceeEEEEEhhh
Confidence 22 467789976 7663 8988887554
No 213
>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=95.39 E-value=0.037 Score=46.33 Aligned_cols=76 Identities=22% Similarity=0.201 Sum_probs=52.7
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHC--CCCeEEEeec-HHHHhhCCC----------------CCCeEEEEc
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY--PHIKGVNFDL-PHVVATAPV----------------YEGVSHVGG 242 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~--P~l~~~~~Dl-p~v~~~a~~----------------~~ri~~~~g 242 (266)
+++.++..+....++||||+|+|.+...+..-. |....+++|+ |++++.+.+ ..+++++.|
T Consensus 72 ~le~L~~~L~pG~s~LdvGsGSGYLt~~~~~mvg~~g~~~~GIEh~~eLVe~Sk~nl~k~i~~~e~~~~~~~~~l~ivvG 151 (237)
T KOG1661|consen 72 ALEYLDDHLQPGASFLDVGSGSGYLTACFARMVGATGGNVHGIEHIPELVEYSKKNLDKDITTSESSSKLKRGELSIVVG 151 (237)
T ss_pred HHHHHHHhhccCcceeecCCCccHHHHHHHHHhcCCCccccchhhhHHHHHHHHHHHHhhccCchhhhhhccCceEEEeC
Confidence 344444345567899999999999987776443 3333477786 777765442 467899999
Q ss_pred cCCCCCC---CccEEEec
Q 042491 243 DMLNAVP---NADAVFMK 257 (266)
Q Consensus 243 d~~~~~p---~aD~~~l~ 257 (266)
|-.+-.+ .||.|+.-
T Consensus 152 Dgr~g~~e~a~YDaIhvG 169 (237)
T KOG1661|consen 152 DGRKGYAEQAPYDAIHVG 169 (237)
T ss_pred CccccCCccCCcceEEEc
Confidence 9887333 48988763
No 214
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=95.31 E-value=0.0057 Score=43.43 Aligned_cols=65 Identities=18% Similarity=0.348 Sum_probs=48.6
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCC-ceEeCchhch
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEE-TMYGLTQISK 105 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~-~~y~lt~~s~ 105 (266)
++++|...|... +.+++.+|.+.+|++... +.+.|+.|...|+++....-.+..+ -.|++|+.++
T Consensus 1 vRl~Il~~L~~~-~~~~f~~L~~~l~lt~g~------Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr 66 (80)
T PF13601_consen 1 VRLAILALLYAN-EEATFSELKEELGLTDGN------LSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGR 66 (80)
T ss_dssp HHHHHHHHHHHH-SEEEHHHHHHHTT--HHH------HHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHH
T ss_pred CHHHHHHHHhhc-CCCCHHHHHHHhCcCHHH------HHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHH
Confidence 467788888764 789999999999999877 9999999999999988764322222 2499999986
No 215
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=95.27 E-value=0.038 Score=46.84 Aligned_cols=67 Identities=16% Similarity=0.249 Sum_probs=54.6
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEE-ccCCC---C-C-CCccEE
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVG-GDMLN---A-V-PNADAV 254 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~-gd~~~---~-~-p~aD~~ 254 (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 45889999999999999999999999 788899998 666766664 67899988 57665 2 2 349998
Q ss_pred Ee
Q 042491 255 FM 256 (266)
Q Consensus 255 ~l 256 (266)
++
T Consensus 137 FI 138 (219)
T COG4122 137 FI 138 (219)
T ss_pred EE
Confidence 86
No 216
>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]
Probab=95.21 E-value=0.068 Score=43.25 Aligned_cols=83 Identities=19% Similarity=0.234 Sum_probs=61.2
Q ss_pred HHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-CCCeEEEEccCCC-C----
Q 042491 176 KIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-YEGVSHVGGDMLN-A---- 247 (266)
Q Consensus 176 ~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-~~ri~~~~gd~~~-~---- 247 (266)
...+..+...++ +++..-|+++|.|+|.+-++++++- +.-..+.++. |+-.....+ -+.++++.||-+. .
T Consensus 34 s~lA~~M~s~I~--pesglpVlElGPGTGV~TkaIL~~gv~~~~L~~iE~~~dF~~~L~~~~p~~~ii~gda~~l~~~l~ 111 (194)
T COG3963 34 SILARKMASVID--PESGLPVLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLNQLYPGVNIINGDAFDLRTTLG 111 (194)
T ss_pred HHHHHHHHhccC--cccCCeeEEEcCCccHhHHHHHhcCCCccceEEEEeCHHHHHHHHHhCCCccccccchhhHHHHHh
Confidence 344566677778 8888999999999999999988875 5566777775 666665554 6777899999876 2
Q ss_pred -CC--CccEEEecccc
Q 042491 248 -VP--NADAVFMKVIV 260 (266)
Q Consensus 248 -~p--~aD~~~l~~vL 260 (266)
.+ .+|+++..-=|
T Consensus 112 e~~gq~~D~viS~lPl 127 (194)
T COG3963 112 EHKGQFFDSVISGLPL 127 (194)
T ss_pred hcCCCeeeeEEecccc
Confidence 33 39998875433
No 217
>COG0357 GidB Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]
Probab=95.17 E-value=0.052 Score=45.88 Aligned_cols=65 Identities=20% Similarity=0.244 Sum_probs=50.2
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec--------HHHHhhCCCCCCeEEEEccCCCC--CCC-ccEEEecc
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--------PHVVATAPVYEGVSHVGGDMLNA--VPN-ADAVFMKV 258 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--------p~v~~~a~~~~ri~~~~gd~~~~--~p~-aD~~~l~~ 258 (266)
..+++|||.|.|.=+.-++=.+|+++++++|. ..++.... .++++++.+-..+- .+. +|++..+-
T Consensus 68 ~~~~~DIGSGaGfPGipLAI~~p~~~vtLles~~Kk~~FL~~~~~eL~-L~nv~i~~~RaE~~~~~~~~~D~vtsRA 143 (215)
T COG0357 68 AKRVLDIGSGAGFPGIPLAIAFPDLKVTLLESLGKKIAFLREVKKELG-LENVEIVHGRAEEFGQEKKQYDVVTSRA 143 (215)
T ss_pred CCEEEEeCCCCCCchhhHHHhccCCcEEEEccCchHHHHHHHHHHHhC-CCCeEEehhhHhhcccccccCcEEEeeh
Confidence 58999999999999999999999999999997 22222222 57788888876662 234 99988764
No 218
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=95.15 E-value=0.032 Score=51.45 Aligned_cols=64 Identities=17% Similarity=0.003 Sum_probs=49.7
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCCC---CCCccEEEe
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLNA---VPNADAVFM 256 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~---~p~aD~~~l 256 (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 35899999999999999999988668999998 777766553 34567888887652 234898876
No 219
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=95.14 E-value=0.071 Score=53.07 Aligned_cols=77 Identities=22% Similarity=0.230 Sum_probs=54.3
Q ss_pred HHHHHhhcccCC-CCCceEEEecCCchHHHHHHHHHC----C--------------------------------------
Q 042491 179 MSTLLSHYKDGF-DGIRSLVDVGGGTGEELAEIVEFY----P-------------------------------------- 215 (266)
Q Consensus 179 ~~~~~~~~~~~~-~~~~~vvDvGgG~G~~~~~l~~~~----P-------------------------------------- 215 (266)
+..++.... | .+...++|.+||+|+++++.+... |
T Consensus 178 Aaa~l~~a~--w~~~~~~l~DP~CGSGTilIEAa~~~~~~~pg~~r~~f~f~~~~~~~~~~w~~~~~~a~~~~~~~~~~~ 255 (702)
T PRK11783 178 AAAILLRSG--WPQEGTPLLDPMCGSGTLLIEAAMMAADIAPGLHRERWGFSGWLGHDEALWQELLEEAQERARAGLAEL 255 (702)
T ss_pred HHHHHHHcC--CCCCCCeEEccCCCccHHHHHHHHHHhcCCCCccccccccccCCCCCHHHHHHHHHHHHHHHhhccccc
Confidence 334444444 5 456899999999999999876531 1
Q ss_pred CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC-CCC----CccEEEec
Q 042491 216 HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN-AVP----NADAVFMK 257 (266)
Q Consensus 216 ~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~-~~p----~aD~~~l~ 257 (266)
..+++++|+ |.+++.++. .++|.+..+|+.+ +.| .+|+++..
T Consensus 256 ~~~i~G~Did~~av~~A~~N~~~~g~~~~i~~~~~D~~~~~~~~~~~~~d~IvtN 310 (702)
T PRK11783 256 PSKFYGSDIDPRVIQAARKNARRAGVAELITFEVKDVADLKNPLPKGPTGLVISN 310 (702)
T ss_pred CceEEEEECCHHHHHHHHHHHHHcCCCcceEEEeCChhhcccccccCCCCEEEEC
Confidence 236789997 777776654 5679999999988 332 28887654
No 220
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=95.12 E-value=0.036 Score=47.98 Aligned_cols=67 Identities=16% Similarity=0.160 Sum_probs=52.6
Q ss_pred CCCceEEEecCCchHHHHHHHHHCC-CCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C-------CCc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V-------PNA 251 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~-------p~a 251 (266)
.+.+++|+||.+.|.-+..+++..| +.+++-+|. |+..+.|++ .++|+++.||..+- + ..+
T Consensus 78 ~~ak~iLEiGT~~GySal~la~al~~~g~v~tiE~~~~~~~~Ar~~~~~ag~~~~I~~~~G~a~e~L~~l~~~~~~~~~f 157 (247)
T PLN02589 78 INAKNTMEIGVYTGYSLLATALALPEDGKILAMDINRENYELGLPVIQKAGVAHKIDFREGPALPVLDQMIEDGKYHGTF 157 (247)
T ss_pred hCCCEEEEEeChhhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCceEEEeccHHHHHHHHHhccccCCcc
Confidence 4678999999999999999998875 678899998 555555543 68999999998762 1 248
Q ss_pred cEEEec
Q 042491 252 DAVFMK 257 (266)
Q Consensus 252 D~~~l~ 257 (266)
|++++=
T Consensus 158 D~iFiD 163 (247)
T PLN02589 158 DFIFVD 163 (247)
T ss_pred cEEEec
Confidence 988763
No 221
>PHA00738 putative HTH transcription regulator
Probab=95.07 E-value=0.022 Score=42.41 Aligned_cols=48 Identities=8% Similarity=0.202 Sum_probs=42.7
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.++.|++.|.. +++.++.+|++.+++++.. +.+.|+.|...|++....
T Consensus 13 tRr~IL~lL~~-~e~~~V~eLae~l~lSQpt------VS~HLKvLreAGLV~srK 60 (108)
T PHA00738 13 LRRKILELIAE-NYILSASLISHTLLLSYTT------VLRHLKILNEQGYIELYK 60 (108)
T ss_pred HHHHHHHHHHH-cCCccHHHHHHhhCCCHHH------HHHHHHHHHHCCceEEEE
Confidence 46778888986 3579999999999999887 999999999999999887
No 222
>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=95.04 E-value=0.013 Score=41.84 Aligned_cols=47 Identities=21% Similarity=0.374 Sum_probs=37.6
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI 103 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~ 103 (266)
++.|.+|||+++++++.. +.+++..|...|+++.... ..|.|.++.-
T Consensus 24 ~~~s~~eiA~~~~i~~~~------l~kil~~L~~~Gli~s~~G----~~GGy~L~~~ 70 (83)
T PF02082_consen 24 KPVSSKEIAERLGISPSY------LRKILQKLKKAGLIESSRG----RGGGYRLARP 70 (83)
T ss_dssp C-BEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEETS----TTSEEEESS-
T ss_pred CCCCHHHHHHHHCcCHHH------HHHHHHHHhhCCeeEecCC----CCCceeecCC
Confidence 469999999999999866 9999999999999987762 1378888764
No 223
>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=95.02 E-value=0.044 Score=37.38 Aligned_cols=61 Identities=16% Similarity=0.154 Sum_probs=46.2
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK 105 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~ 105 (266)
|+++|.++++|++..+|++.+...... .-.+.+.|.|++|...|+..+.+ .+.+.+|+.+.
T Consensus 3 IL~~L~~~~~P~g~~~l~~~L~~~g~~-~se~avRrrLr~me~~Glt~~~g------~~G~~iT~~G~ 63 (66)
T PF08461_consen 3 ILRILAESDKPLGRKQLAEELKLRGEE-LSEEAVRRRLRAMERDGLTRKVG------RQGRIITEKGL 63 (66)
T ss_pred HHHHHHHcCCCCCHHHHHHHHHhcChh-hhHHHHHHHHHHHHHCCCccccC------CcccccCHHHH
Confidence 567888877999999999999754221 01255999999999999877665 45667888764
No 224
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=95.01 E-value=0.036 Score=43.66 Aligned_cols=51 Identities=12% Similarity=0.089 Sum_probs=44.1
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
+++.+..+||+.+++++.. +.+.++.|...|++.... .+.|++|+.++.+.
T Consensus 20 ~~~~~~~ela~~l~vs~~s------vs~~l~~L~~~Gli~~~~------~~~i~LT~~G~~~a 70 (142)
T PRK03902 20 KGYARVSDIAEALSVHPSS------VTKMVQKLDKDEYLIYEK------YRGLVLTPKGKKIG 70 (142)
T ss_pred CCCcCHHHHHHHhCCChhH------HHHHHHHHHHCCCEEEec------CceEEECHHHHHHH
Confidence 4788999999999999877 999999999999998655 37899999986543
No 225
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=94.98 E-value=0.049 Score=42.83 Aligned_cols=65 Identities=22% Similarity=0.239 Sum_probs=50.1
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
++..|...+++.|..|||+.+++++.. +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus 36 vL~~l~~~~~~~t~~eLa~~l~~~~~t------vt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~ 100 (144)
T PRK03573 36 TLHNIHQLPPEQSQIQLAKAIGIEQPS------LVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLI 100 (144)
T ss_pred HHHHHHHcCCCCCHHHHHHHhCCChhh------HHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHHHHHH
Confidence 566665433568999999999999888 99999999999999988632222234688999887654
No 226
>KOG2361 consensus Predicted methyltransferase [General function prediction only]
Probab=94.88 E-value=0.02 Score=48.89 Aligned_cols=68 Identities=16% Similarity=0.305 Sum_probs=53.4
Q ss_pred ceEEEecCCchHHHHHHHHHCCC--CeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCC-----CC-C-ccEEEecc
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPH--IKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNA-----VP-N-ADAVFMKV 258 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~--l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~-----~p-~-aD~~~l~~ 258 (266)
.+|++||||.|...--|++.+|+ ++...+|. |..++..++ ..|+..-..|+-.+ .+ + .|++.|.-
T Consensus 73 ~~ilEvGCGvGNtvfPll~~~~n~~l~v~acDfsp~Ai~~vk~~~~~~e~~~~afv~Dlt~~~~~~~~~~~svD~it~IF 152 (264)
T KOG2361|consen 73 ETILEVGCGVGNTVFPLLKTSPNNRLKVYACDFSPRAIELVKKSSGYDESRVEAFVWDLTSPSLKEPPEEGSVDIITLIF 152 (264)
T ss_pred hhheeeccCCCcccchhhhcCCCCCeEEEEcCCChHHHHHHHhccccchhhhcccceeccchhccCCCCcCccceEEEEE
Confidence 48999999999999999999999 89999996 888887765 35666666777663 21 2 88888876
Q ss_pred ccc
Q 042491 259 IVL 261 (266)
Q Consensus 259 vLH 261 (266)
||-
T Consensus 153 vLS 155 (264)
T KOG2361|consen 153 VLS 155 (264)
T ss_pred EEe
Confidence 664
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=94.81 E-value=0.099 Score=46.61 Aligned_cols=75 Identities=16% Similarity=0.183 Sum_probs=58.3
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC-C--C--
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN-A--V-- 248 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~-~--~-- 248 (266)
.++++.+. ......+||.=+|.|..+..++++.|+.+++++|. |.+++.+++ .+|++++.++|-+ . +
T Consensus 10 ~Evl~~L~--~~~ggiyVD~TlG~GGHS~~iL~~l~~g~vigiD~D~~Al~~ak~~L~~~~~R~~~i~~nF~~l~~~l~~ 87 (305)
T TIGR00006 10 DEVVEGLN--IKPDGIYIDCTLGFGGHSKAILEQLGTGRLIGIDRDPQAIAFAKERLSDFEGRVVLIHDNFANFFEHLDE 87 (305)
T ss_pred HHHHHhcC--cCCCCEEEEeCCCChHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHhhcCCcEEEEeCCHHHHHHHHHh
Confidence 45566554 34557999999999999999999998899999998 777776654 4699999999886 1 2
Q ss_pred ---CCccEEEe
Q 042491 249 ---PNADAVFM 256 (266)
Q Consensus 249 ---p~aD~~~l 256 (266)
..+|.+++
T Consensus 88 ~~~~~vDgIl~ 98 (305)
T TIGR00006 88 LLVTKIDGILV 98 (305)
T ss_pred cCCCcccEEEE
Confidence 23787765
No 228
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=94.70 E-value=0.039 Score=44.69 Aligned_cols=46 Identities=20% Similarity=0.317 Sum_probs=39.0
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
+++|+++||+.+++++.- +.++|..|...|++..... ..|.|.+..
T Consensus 24 ~~vs~~eIA~~~~ip~~~------l~kIl~~L~~aGLv~s~rG----~~GGy~Lar 69 (164)
T PRK10857 24 GPVPLADISERQGISLSY------LEQLFSRLRKNGLVSSVRG----PGGGYLLGK 69 (164)
T ss_pred CcCcHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeCCC----CCCCeeccC
Confidence 689999999999999765 9999999999999997642 146788765
No 229
>PF02475 Met_10: Met-10+ like-protein; InterPro: IPR003402 This entry represents the Trm5 family. Trm5 specifically methylates the N1 position of guanosine-37 in various tRNAs [, , ]. Another members of this family, tRNA wybutosine-synthesizing protein 2 (Tyw2) and its homologues, are S-adenosyl-L-methionine-dependent transferases that act as a component of the wybutosine biosynthesis pathway [, ]. tRNA wybutosine-synthesizing protein 2 was originally thought to be a methyltransferase [].; GO: 0016740 transferase activity; PDB: 3A27_A 2ZZN_B 2YX1_A 2ZZM_A 3AY0_B 3K6R_A 3A26_A 3A25_A.
Probab=94.67 E-value=0.051 Score=45.50 Aligned_cols=68 Identities=21% Similarity=0.228 Sum_probs=48.8
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCCCC--CccEEEecc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNAVP--NADAVFMKV 258 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~~p--~aD~~~l~~ 258 (266)
....+|+|.-||.|.++..+++..+..+++..|+ |..++-+++ .++|..+.+|..+-.+ .+|-++|..
T Consensus 100 ~~~e~VlD~faGIG~f~l~~ak~~~~~~V~A~d~Np~a~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~~~~~drvim~l 177 (200)
T PF02475_consen 100 KPGEVVLDMFAGIGPFSLPIAKHGKAKRVYAVDLNPDAVEYLKENIRLNKVENRIEVINGDAREFLPEGKFDRVIMNL 177 (200)
T ss_dssp -TT-EEEETT-TTTTTHHHHHHHT-SSEEEEEES-HHHHHHHHHHHHHTT-TTTEEEEES-GGG---TT-EEEEEE--
T ss_pred CcceEEEEccCCccHHHHHHhhhcCccEEEEecCCHHHHHHHHHHHHHcCCCCeEEEEcCCHHHhcCccccCEEEECC
Confidence 3568999999999999999999888888999998 676665442 6889999999887432 389888854
No 230
>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=94.60 E-value=0.087 Score=47.00 Aligned_cols=65 Identities=20% Similarity=0.212 Sum_probs=48.6
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCC
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLN 246 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~ 246 (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 45566665 45667999999999999999999999999999999 777766553 6899999999876
No 231
>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=94.55 E-value=0.021 Score=41.30 Aligned_cols=63 Identities=19% Similarity=0.263 Sum_probs=46.9
Q ss_pred hhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 38 LADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
|+..|.. ++..+.||.+.+ |+++.- |.+-|+-|...|++.+....+.+..-.|++|+.++.|.
T Consensus 10 IL~~l~~--g~~rf~el~~~l~~is~~~------L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G~~l~ 73 (90)
T PF01638_consen 10 ILRALFQ--GPMRFSELQRRLPGISPKV------LSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELL 73 (90)
T ss_dssp HHHHHTT--SSEEHHHHHHHSTTS-HHH------HHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHH
T ss_pred HHHHHHh--CCCcHHHHHHhcchhHHHH------HHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHH
Confidence 4455565 799999999999 888765 99999999999999887532111123699999998766
No 232
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=94.47 E-value=0.047 Score=47.33 Aligned_cols=65 Identities=18% Similarity=0.312 Sum_probs=57.2
Q ss_pred HHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491 30 LKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR 109 (266)
Q Consensus 30 L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~ 109 (266)
+...-+.+|+=.|.+ +|.|.+||-..+++++.. +..-++-|...|++.+.+ +.|++|..++.++.
T Consensus 10 f~SekRk~lLllL~e--gPkti~EI~~~l~vs~~a------i~pqiKkL~~~~LV~~~~-------~~Y~LS~~G~iiv~ 74 (260)
T COG4742 10 FLSEKRKDLLLLLKE--GPKTIEEIKNELNVSSSA------ILPQIKKLKDKGLVVQEG-------DRYSLSSLGKIIVE 74 (260)
T ss_pred HccHHHHHHHHHHHh--CCCCHHHHHHHhCCCcHH------HHHHHHHHhhCCCEEecC-------CEEEecchHHHHHH
Confidence 344556778888887 899999999999999877 899999999999999998 99999999987764
No 233
>KOG3191 consensus Predicted N6-DNA-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=94.43 E-value=0.087 Score=43.22 Aligned_cols=65 Identities=15% Similarity=0.268 Sum_probs=48.8
Q ss_pred CceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC--CccEEEec
Q 042491 193 IRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP--NADAVFMK 257 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p--~aD~~~l~ 257 (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 6789999999999998887776 6777777788 776665332 4457888889888532 37877764
No 234
>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=94.29 E-value=0.02 Score=39.31 Aligned_cols=44 Identities=20% Similarity=0.339 Sum_probs=36.7
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|-+.|... +.+|..|||..+++++.. ++.+|..|+..|.+.+..
T Consensus 5 i~~~l~~~-~~~S~~eLa~~~~~s~~~------ve~mL~~l~~kG~I~~~~ 48 (69)
T PF09012_consen 5 IRDYLRER-GRVSLAELAREFGISPEA------VEAMLEQLIRKGYIRKVD 48 (69)
T ss_dssp HHHHHHHS--SEEHHHHHHHTT--HHH------HHHHHHHHHCCTSCEEEE
T ss_pred HHHHHHHc-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCcEEEec
Confidence 56777774 789999999999999877 999999999999999887
No 235
>COG2384 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=94.28 E-value=0.22 Score=42.10 Aligned_cols=66 Identities=15% Similarity=0.147 Sum_probs=52.1
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-----HHHHhhCCC---CCCeEEEEccCCCCC-CC--ccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-----PHVVATAPV---YEGVSHVGGDMLNAV-PN--ADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-----p~v~~~a~~---~~ri~~~~gd~~~~~-p~--aD~~~l~ 257 (266)
+...+.||||-+|.+.+.|++.+|..+++.-|. ..++...++ .+||++..||-+.++ ++ .|++...
T Consensus 16 ~~~~iaDIGsDHAYLp~~Lv~~~~~~~~va~eV~~gpl~~a~~~v~~~~l~~~i~vr~~dgl~~l~~~d~~d~ivIA 92 (226)
T COG2384 16 QGARIADIGSDHAYLPIYLVKNNPASTAVAGEVVPGPLESAIRNVKKNNLSERIDVRLGDGLAVLELEDEIDVIVIA 92 (226)
T ss_pred cCCceeeccCchhHhHHHHHhcCCcceEEEeecccCHHHHHHHHHHhcCCcceEEEeccCCccccCccCCcCEEEEe
Confidence 445699999999999999999999999999887 333443333 789999999998874 33 7777654
No 236
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=94.26 E-value=0.045 Score=35.57 Aligned_cols=42 Identities=31% Similarity=0.346 Sum_probs=33.9
Q ss_pred HHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHH
Q 042491 26 DSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRM 77 (266)
Q Consensus 26 ~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~ 77 (266)
.-.+|.+|.++|-||. + ..+|..|||+.+|+++.. +...||-
T Consensus 5 Q~e~L~~A~~~GYfd~-P---R~~tl~elA~~lgis~st------~~~~LRr 46 (53)
T PF04967_consen 5 QREILKAAYELGYFDV-P---RRITLEELAEELGISKST------VSEHLRR 46 (53)
T ss_pred HHHHHHHHHHcCCCCC-C---CcCCHHHHHHHhCCCHHH------HHHHHHH
Confidence 4578999999999998 4 369999999999998755 5555553
No 237
>PF03291 Pox_MCEL: mRNA capping enzyme; InterPro: IPR004971 This is a family of viral mRNA capping enzymes. The enzyme catalyses the first two reactions in the mRNA cap formation pathway. It is a heterodimer consisting of a large and small subunit. This entry is the large subunit. ; GO: 0006370 mRNA capping; PDB: 3EPP_A 3BGV_C 2VDW_C 1RI5_A 1RI3_A 1RI1_A 1Z3C_A 1RI2_A 2HV9_A 1RI4_A.
Probab=94.23 E-value=0.17 Score=45.76 Aligned_cols=70 Identities=16% Similarity=0.167 Sum_probs=47.2
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------------C----CCeEEEEccCCCC-----CC
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------------Y----EGVSHVGGDMLNA-----VP 249 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------------~----~ri~~~~gd~~~~-----~p 249 (266)
...+|||+|||.|.-+.-..+..+. ..+++|+ +..|+.+++ . =...++.+|-+.. ++
T Consensus 62 ~~~~VLDl~CGkGGDL~Kw~~~~i~-~~vg~Dis~~si~ea~~Ry~~~~~~~~~~~~~~~f~a~f~~~D~f~~~l~~~~~ 140 (331)
T PF03291_consen 62 PGLTVLDLCCGKGGDLQKWQKAKIK-HYVGIDISEESIEEARERYKQLKKRNNSKQYRFDFIAEFIAADCFSESLREKLP 140 (331)
T ss_dssp TT-EEEEET-TTTTTHHHHHHTT-S-EEEEEES-HHHHHHHHHHHHHHHTSTT-HTSEECCEEEEEESTTCCSHHHCTSS
T ss_pred CCCeEEEecCCCchhHHHHHhcCCC-EEEEEeCCHHHHHHHHHHHHHhccccccccccccchhheeccccccchhhhhcc
Confidence 5689999999999998888877443 6788998 444554432 1 1246688887752 22
Q ss_pred ----CccEEEecccccc
Q 042491 250 ----NADAVFMKVIVLI 262 (266)
Q Consensus 250 ----~aD~~~l~~vLHd 262 (266)
.+|+|-+--.||+
T Consensus 141 ~~~~~FDvVScQFalHY 157 (331)
T PF03291_consen 141 PRSRKFDVVSCQFALHY 157 (331)
T ss_dssp STTS-EEEEEEES-GGG
T ss_pred ccCCCcceeehHHHHHH
Confidence 4999999999997
No 238
>PRK11050 manganese transport regulator MntR; Provisional
Probab=94.18 E-value=0.061 Score=42.97 Aligned_cols=58 Identities=19% Similarity=0.228 Sum_probs=47.6
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
|..++.. +++.+..+||+.+++++.. +.+.++-|...|++.... ...+.+|+.++.+.
T Consensus 42 I~~~l~~-~~~~t~~eLA~~l~is~st------Vsr~l~~Le~~GlI~r~~------~~~v~LT~~G~~l~ 99 (152)
T PRK11050 42 IADLIAE-VGEARQVDIAARLGVSQPT------VAKMLKRLARDGLVEMRP------YRGVFLTPEGEKLA 99 (152)
T ss_pred HHHHHHh-cCCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEec------CCceEECchHHHHH
Confidence 5556654 3789999999999999877 999999999999998765 35788999886544
No 239
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=94.16 E-value=0.19 Score=42.06 Aligned_cols=64 Identities=22% Similarity=0.213 Sum_probs=49.9
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCC-CeEEEeecHHHHhhCCCCCCeEEEEccCCCC
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPH-IKGVNFDLPHVVATAPVYEGVSHVGGDMLNA 247 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~ 247 (266)
...+.+.|. .+++...|+|+|+-.|.++..+.+.-.. .+++.+|+-++-. -+.|.++.+||+.+
T Consensus 33 L~el~~k~~-i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ivavDi~p~~~----~~~V~~iq~d~~~~ 97 (205)
T COG0293 33 LLELNEKFK-LFKPGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDILPMKP----IPGVIFLQGDITDE 97 (205)
T ss_pred HHHHHHhcC-eecCCCEEEEcCCCCCcHHHHHHHHhCCCCcEEEEECccccc----CCCceEEeeeccCc
Confidence 345666663 4678899999999999999988887754 5689999866544 34599999999983
No 240
>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]
Probab=94.13 E-value=0.071 Score=45.37 Aligned_cols=77 Identities=16% Similarity=0.242 Sum_probs=46.8
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC---CCCeEEE-EccCCCC--CCCccE
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV---YEGVSHV-GGDMLNA--VPNADA 253 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~---~~ri~~~-~gd~~~~--~p~aD~ 253 (266)
.++...+ ...+++++|+|||+|..+..|...--. .+++|+ ..+++.+.+ .+.+..- ..+|... ...+|+
T Consensus 116 emI~~~~--~g~F~~~lDLGCGTGL~G~~lR~~a~~--ltGvDiS~nMl~kA~eKg~YD~L~~Aea~~Fl~~~~~er~DL 191 (287)
T COG4976 116 EMIGKAD--LGPFRRMLDLGCGTGLTGEALRDMADR--LTGVDISENMLAKAHEKGLYDTLYVAEAVLFLEDLTQERFDL 191 (287)
T ss_pred HHHHhcc--CCccceeeecccCcCcccHhHHHHHhh--ccCCchhHHHHHHHHhccchHHHHHHHHHHHhhhccCCcccc
Confidence 3445555 445899999999999999988877554 456687 556665554 1221111 1124432 223777
Q ss_pred EEeccccc
Q 042491 254 VFMKVIVL 261 (266)
Q Consensus 254 ~~l~~vLH 261 (266)
|.-..||-
T Consensus 192 i~AaDVl~ 199 (287)
T COG4976 192 IVAADVLP 199 (287)
T ss_pred hhhhhHHH
Confidence 77666654
No 241
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=94.12 E-value=0.067 Score=40.10 Aligned_cols=69 Identities=19% Similarity=0.288 Sum_probs=51.1
Q ss_pred HhcChhhHhh--hC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 34 VELRLADIMH--CH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 34 ~elglfd~L~--~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
.++.++..|. .. ++++|..+||+.+++++.. +.++++-|...|++.+....++...-.+.+|+.+..+.
T Consensus 26 ~q~~vL~~l~~~~~~~~~~t~~eL~~~l~~~~st------vs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~ 97 (109)
T TIGR01889 26 EELLILYYLGKLENNEGKLTLKEIIKEILIKQSA------LVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKI 97 (109)
T ss_pred HHHHHHHHHHhhhccCCcCcHHHHHHHHCCCHHH------HHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHH
Confidence 3455666665 21 3689999999999999877 99999999999999987632211233588888886544
No 242
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=94.03 E-value=0.022 Score=38.34 Aligned_cols=46 Identities=11% Similarity=0.232 Sum_probs=37.2
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|.+.|....+|.+..|||+.+|++... ++++|..|...|.++...
T Consensus 4 ~Il~~i~~~~~p~~T~eiA~~~gls~~~------aR~yL~~Le~eG~V~~~~ 49 (62)
T PF04703_consen 4 KILEYIKEQNGPLKTREIADALGLSIYQ------ARYYLEKLEKEGKVERSP 49 (62)
T ss_dssp CHHHHHHHHTS-EEHHHHHHHHTS-HHH------HHHHHHHHHHCTSEEEES
T ss_pred HHHHHHHHcCCCCCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEec
Confidence 4566666534899999999999999877 999999999999998755
No 243
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=93.98 E-value=0.064 Score=45.34 Aligned_cols=65 Identities=20% Similarity=0.357 Sum_probs=49.5
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhchhhh
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQISKWLL 108 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s~~l~ 108 (266)
.|...|..+ +|+|+.|||+++|+++.. +++.|..|.+.|++......-+.| .-.|++|..+....
T Consensus 15 ~il~lL~~~-g~~sa~elA~~Lgis~~a------vR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~Lt~~g~~~f 81 (218)
T COG2345 15 RILELLKKS-GPVSADELAEELGISPMA------VRRHLDDLEAEGLVEVERQQGGRGRPAKLYRLTEKGREQF 81 (218)
T ss_pred HHHHHHhcc-CCccHHHHHHHhCCCHHH------HHHHHHHHHhCcceeeeeccCCCCCCceeeeecccchhhc
Confidence 355566655 799999999999999887 999999999999998775321111 13599999876533
No 244
>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=93.95 E-value=0.06 Score=35.47 Aligned_cols=45 Identities=13% Similarity=0.299 Sum_probs=40.1
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|.+.|... +.+|++|||+.+|+++.. ++|=|..|...|++.+.-
T Consensus 4 ~Il~~l~~~-~~~s~~ela~~~~VS~~T------iRRDl~~L~~~g~i~r~~ 48 (57)
T PF08220_consen 4 QILELLKEK-GKVSVKELAEEFGVSEMT------IRRDLNKLEKQGLIKRTH 48 (57)
T ss_pred HHHHHHHHc-CCEEHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEc
Confidence 366777775 789999999999999877 999999999999999887
No 245
>KOG4300 consensus Predicted methyltransferase [General function prediction only]
Probab=93.91 E-value=0.16 Score=42.57 Aligned_cols=69 Identities=22% Similarity=0.231 Sum_probs=44.3
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeE-EEEccCCC-C-CC--CccEEEeccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVS-HVGGDMLN-A-VP--NADAVFMKVI 259 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~-~~~gd~~~-~-~p--~aD~~~l~~v 259 (266)
+...||+||||+|..-.- -.--|..++|.+|. |.+-+.+.+ ...+. |+.++-.+ + ++ .+|+|+..-+
T Consensus 76 ~K~~vLEvgcGtG~Nfkf-y~~~p~~svt~lDpn~~mee~~~ks~~E~k~~~~~~fvva~ge~l~~l~d~s~DtVV~Tlv 154 (252)
T KOG4300|consen 76 GKGDVLEVGCGTGANFKF-YPWKPINSVTCLDPNEKMEEIADKSAAEKKPLQVERFVVADGENLPQLADGSYDTVVCTLV 154 (252)
T ss_pred CccceEEecccCCCCccc-ccCCCCceEEEeCCcHHHHHHHHHHHhhccCcceEEEEeechhcCcccccCCeeeEEEEEE
Confidence 446789999999986431 12224668899997 444333221 44565 77777666 3 45 3999988766
Q ss_pred cc
Q 042491 260 VL 261 (266)
Q Consensus 260 LH 261 (266)
|-
T Consensus 155 LC 156 (252)
T KOG4300|consen 155 LC 156 (252)
T ss_pred Ee
Confidence 63
No 246
>PF08704 GCD14: tRNA methyltransferase complex GCD14 subunit; InterPro: IPR014816 GCD14 is a subunit of the tRNA methyltransferase complex and is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA []. ; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity, 0030488 tRNA methylation; PDB: 2YVL_C 1YB2_A 2B25_B 1O54_A 2PWY_B 1I9G_A 3LGA_B 3LHD_C 3MB5_A.
Probab=93.78 E-value=0.29 Score=42.37 Aligned_cols=73 Identities=16% Similarity=0.247 Sum_probs=50.5
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC-CC--
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA-VP-- 249 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~-~p-- 249 (266)
++...+ .....+||+.|-|+|.+...|++.. |+=++.-+|. ++-++.|++ .++|++..+|+-++ ++
T Consensus 32 I~~~l~--i~pG~~VlEaGtGSG~lt~~l~r~v~p~G~v~t~E~~~~~~~~A~~n~~~~gl~~~v~~~~~Dv~~~g~~~~ 109 (247)
T PF08704_consen 32 ILMRLD--IRPGSRVLEAGTGSGSLTHALARAVGPTGHVYTYEFREDRAEKARKNFERHGLDDNVTVHHRDVCEEGFDEE 109 (247)
T ss_dssp HHHHTT----TT-EEEEE--TTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHHHTTCCTTEEEEES-GGCG--STT
T ss_pred HHHHcC--CCCCCEEEEecCCcHHHHHHHHHHhCCCeEEEccccCHHHHHHHHHHHHHcCCCCCceeEecceeccccccc
Confidence 455566 6778999999999999999999754 8888899997 444544443 57899999998653 32
Q ss_pred ---CccEEEe
Q 042491 250 ---NADAVFM 256 (266)
Q Consensus 250 ---~aD~~~l 256 (266)
.+|.++|
T Consensus 110 ~~~~~DavfL 119 (247)
T PF08704_consen 110 LESDFDAVFL 119 (247)
T ss_dssp -TTSEEEEEE
T ss_pred ccCcccEEEE
Confidence 3899887
No 247
>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=93.71 E-value=0.026 Score=37.47 Aligned_cols=48 Identities=25% Similarity=0.401 Sum_probs=38.6
Q ss_pred hcChhhHhhhCCCC-CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 35 ELRLADIMHCHGSP-ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 35 elglfd~L~~~g~~-~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
++.|+-.|...++. +|..|||+.+++++.. +.++++.|...|++.+..
T Consensus 7 q~~vL~~l~~~~~~~~t~~~la~~l~~~~~~------vs~~v~~L~~~Glv~r~~ 55 (62)
T PF12802_consen 7 QFRVLMALARHPGEELTQSELAERLGISKST------VSRIVKRLEKKGLVERER 55 (62)
T ss_dssp HHHHHHHHHHSTTSGEEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHHCCCCCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEeC
Confidence 44566667664322 8999999999999776 999999999999999876
No 248
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=93.68 E-value=0.1 Score=41.89 Aligned_cols=51 Identities=18% Similarity=0.141 Sum_probs=46.1
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
++++...+||+.+++.|.. +...++-|...|+++... .+.|.+|+.++...
T Consensus 22 ~~~~~~~diA~~L~Vsp~s------Vt~ml~rL~~~GlV~~~~------y~gi~LT~~G~~~a 72 (154)
T COG1321 22 KGFARTKDIAERLKVSPPS------VTEMLKRLERLGLVEYEP------YGGVTLTEKGREKA 72 (154)
T ss_pred cCcccHHHHHHHhCCCcHH------HHHHHHHHHHCCCeEEec------CCCeEEChhhHHHH
Confidence 4899999999999999887 999999999999999987 58999999887544
No 249
>COG4076 Predicted RNA methylase [General function prediction only]
Probab=93.61 E-value=0.14 Score=42.30 Aligned_cols=62 Identities=21% Similarity=0.224 Sum_probs=47.8
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC-CCCCccEEEec
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN-AVPNADAVFMK 257 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~-~~p~aD~~~l~ 257 (266)
.++.|+|.|+|.++.-.+++ .-|++.+++ |....-+.+ ..+++++.||..+ ++..||++++-
T Consensus 34 d~~~DLGaGsGiLs~~Aa~~--A~rViAiE~dPk~a~~a~eN~~v~g~~n~evv~gDA~~y~fe~ADvvicE 103 (252)
T COG4076 34 DTFADLGAGSGILSVVAAHA--AERVIAIEKDPKRARLAEENLHVPGDVNWEVVVGDARDYDFENADVVICE 103 (252)
T ss_pred hceeeccCCcchHHHHHHhh--hceEEEEecCcHHHHHhhhcCCCCCCcceEEEecccccccccccceeHHH
Confidence 48899999999998766665 447777777 555554443 5789999999998 68679998764
No 250
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=93.60 E-value=0.072 Score=41.01 Aligned_cols=46 Identities=20% Similarity=0.318 Sum_probs=38.1
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS 89 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~ 89 (266)
++-+|-...+|.|+++||+.++.+... +.|-|+-|...|++.+...
T Consensus 32 v~~~LL~~~~~~tvdelae~lnr~rSt------v~rsl~~L~~~GlV~Rek~ 77 (126)
T COG3355 32 VYKALLEENGPLTVDELAEILNRSRST------VYRSLQNLLEAGLVEREKV 77 (126)
T ss_pred HHHHHHhhcCCcCHHHHHHHHCccHHH------HHHHHHHHHHcCCeeeeee
Confidence 444444213899999999999998766 9999999999999999874
No 251
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=93.59 E-value=0.074 Score=33.62 Aligned_cols=44 Identities=14% Similarity=0.264 Sum_probs=37.4
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
+++.|... ++.|..+|++.+++++.. +.+.+..|...|++.+..
T Consensus 5 il~~l~~~-~~~s~~~l~~~l~~s~~t------v~~~l~~L~~~g~i~~~~ 48 (53)
T smart00420 5 ILELLAQQ-GKVSVEELAELLGVSEMT------IRRDLNKLEEQGLLTRVH 48 (53)
T ss_pred HHHHHHHc-CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEee
Confidence 45555554 679999999999998877 999999999999998776
No 252
>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=93.59 E-value=0.093 Score=43.92 Aligned_cols=66 Identities=15% Similarity=0.176 Sum_probs=49.4
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhchhhh
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQISKWLL 108 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s~~l~ 108 (266)
..|+..|... ++.|..|||+.+|+++.. +.+.|+.|...|++.......+.| .-.|++|+.+..+.
T Consensus 4 ~~IL~~L~~~-~~~t~~eLA~~lgis~~t------V~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~~ 71 (203)
T TIGR02702 4 EDILSYLLKQ-GQATAAALAEALAISPQA------VRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQF 71 (203)
T ss_pred HHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhhc
Confidence 3567777664 689999999999999877 999999999999998763111111 23489999886544
No 253
>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=93.53 E-value=0.07 Score=44.68 Aligned_cols=59 Identities=20% Similarity=0.436 Sum_probs=47.9
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
++.++..|..+ ++.+..|||+.+++++.. +.|.|..|...|++.+.+. ....|.+|+.+
T Consensus 145 ~~~IL~~l~~~-g~~s~~eia~~l~is~st------v~r~L~~Le~~GlI~r~~~----r~~~~~lT~~G 203 (203)
T TIGR01884 145 ELKVLEVLKAE-GEKSVKNIAKKLGKSLST------ISRHLRELEKKGLVEQKGR----KGKRYSLTKLG 203 (203)
T ss_pred HHHHHHHHHHc-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEcC----CccEEEeCCCC
Confidence 45677777764 579999999999999877 9999999999999998861 13578888754
No 254
>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=93.49 E-value=0.051 Score=42.02 Aligned_cols=46 Identities=22% Similarity=0.454 Sum_probs=37.5
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
++.|..|||+++++++.. +.++|+.|...|++..... ..+.|.+..
T Consensus 24 ~~~s~~eia~~l~is~~~------v~~~l~~L~~~Gli~~~~g----~~ggy~l~~ 69 (130)
T TIGR02944 24 QPYSAAEIAEQTGLNAPT------VSKILKQLSLAGIVTSKRG----VEGGYTLAR 69 (130)
T ss_pred CCccHHHHHHHHCcCHHH------HHHHHHHHHHCCcEEecCC----CCCChhhcC
Confidence 689999999999999876 9999999999999986531 135666644
No 255
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR. This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.
Probab=93.35 E-value=0.069 Score=41.69 Aligned_cols=47 Identities=21% Similarity=0.314 Sum_probs=39.0
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI 103 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~ 103 (266)
++.|.++||+.+++++.- +.++|+.|...|++..... ..|.|+++.-
T Consensus 24 ~~~s~~~ia~~~~ip~~~------l~kil~~L~~~glv~s~~G----~~Ggy~l~~~ 70 (135)
T TIGR02010 24 GPVTLADISERQGISLSY------LEQLFAKLRKAGLVKSVRG----PGGGYQLGRP 70 (135)
T ss_pred CcCcHHHHHHHHCcCHHH------HHHHHHHHHHCCceEEEeC----CCCCEeccCC
Confidence 689999999999999766 9999999999999987541 1367887663
No 256
>KOG1331 consensus Predicted methyltransferase [General function prediction only]
Probab=93.33 E-value=0.062 Score=47.02 Aligned_cols=69 Identities=22% Similarity=0.193 Sum_probs=53.1
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeecH-HHHhhCCCCCCeEEEEccCCC-CCC--CccEEEeccccccCC
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLP-HVVATAPVYEGVSHVGGDMLN-AVP--NADAVFMKVIVLIQD 264 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp-~v~~~a~~~~ri~~~~gd~~~-~~p--~aD~~~l~~vLHd~~ 264 (266)
....++|+|||.|.++. -+|.+-.+++|+- ..+..+++.+.......|+.+ |.+ .+|..+-..++|.|+
T Consensus 45 ~gsv~~d~gCGngky~~----~~p~~~~ig~D~c~~l~~~ak~~~~~~~~~ad~l~~p~~~~s~d~~lsiavihhls 117 (293)
T KOG1331|consen 45 TGSVGLDVGCGNGKYLG----VNPLCLIIGCDLCTGLLGGAKRSGGDNVCRADALKLPFREESFDAALSIAVIHHLS 117 (293)
T ss_pred CcceeeecccCCcccCc----CCCcceeeecchhhhhccccccCCCceeehhhhhcCCCCCCccccchhhhhhhhhh
Confidence 56899999999998764 3488899999994 444445544443677789888 655 499999999999986
No 257
>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=93.24 E-value=0.1 Score=35.21 Aligned_cols=57 Identities=25% Similarity=0.462 Sum_probs=44.2
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
+..|+..|.. ++.+..||++.++++... +.+.++.|...|++...... ....|++|+
T Consensus 9 ~~~il~~l~~--~~~~~~ei~~~~~i~~~~------i~~~l~~L~~~g~i~~~~~~---~~~~~~~~~ 65 (78)
T cd00090 9 RLRILRLLLE--GPLTVSELAERLGLSQST------VSRHLKKLEEAGLVESRREG---RRVYYSLTD 65 (78)
T ss_pred HHHHHHHHHH--CCcCHHHHHHHHCcCHhH------HHHHHHHHHHCCCeEEEEec---cEEEEEeCC
Confidence 3446666666 349999999999999877 99999999999999976521 235677776
No 258
>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=93.20 E-value=0.12 Score=38.86 Aligned_cols=64 Identities=13% Similarity=0.261 Sum_probs=44.2
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT 101 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt 101 (266)
+..|++.|...+++.|++||.+.+.-... ......+.|.|+.|+..|++.+...+ ++..+|.++
T Consensus 3 R~~Il~~l~~~~~~~sa~ei~~~l~~~~~-~i~~~TVYR~L~~L~~~Gli~~~~~~--~~~~~y~~~ 66 (116)
T cd07153 3 RLAILEVLLESDGHLTAEEIYERLRKKGP-SISLATVYRTLELLEEAGLVREIELG--DGKARYELN 66 (116)
T ss_pred HHHHHHHHHhCCCCCCHHHHHHHHHhcCC-CCCHHHHHHHHHHHHhCCCEEEEEeC--CCceEEEeC
Confidence 34578888775578999999999842110 11134599999999999999987632 123456553
No 259
>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=93.03 E-value=0.096 Score=40.43 Aligned_cols=48 Identities=25% Similarity=0.387 Sum_probs=39.2
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
++.|.++||+.+++++.. +.++++.|...|++..... ..|.|.++.-.
T Consensus 24 ~~~s~~eia~~~~i~~~~------v~~il~~L~~~gli~~~~g----~~ggy~l~~~~ 71 (132)
T TIGR00738 24 GPVSVKEIAERQGISRSY------LEKILRTLRRAGLVESVRG----PGGGYRLARPP 71 (132)
T ss_pred CcCcHHHHHHHHCcCHHH------HHHHHHHHHHCCcEEeccC----CCCCccCCCCH
Confidence 589999999999999876 9999999999999987531 13568776543
No 260
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=92.97 E-value=0.15 Score=33.35 Aligned_cols=54 Identities=17% Similarity=0.311 Sum_probs=41.5
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
|+..|.. ++.|..+|++.++++... +.+.++.|...|++..... .+...|.+|.
T Consensus 2 il~~l~~--~~~~~~~i~~~l~is~~~------v~~~l~~L~~~g~i~~~~~---~~~~~~~~~~ 55 (66)
T smart00418 2 ILKLLAE--GELCVCELAEILGLSQST------VSHHLKKLREAGLVESRRE---GKRVYYSLTD 55 (66)
T ss_pred HHHHhhc--CCccHHHHHHHHCCCHHH------HHHHHHHHHHCCCeeeeec---CCEEEEEEch
Confidence 4555653 789999999999998877 9999999999999986551 1134566665
No 261
>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=92.79 E-value=0.065 Score=36.42 Aligned_cols=41 Identities=22% Similarity=0.374 Sum_probs=32.0
Q ss_pred hhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 43 HCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 43 ~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.++|-|-|+.|||+.+|+.. ...+.+.|+.|...|++.+..
T Consensus 20 ~~~G~~Pt~rEIa~~~g~~S-----~~tv~~~L~~Le~kG~I~r~~ 60 (65)
T PF01726_consen 20 EENGYPPTVREIAEALGLKS-----TSTVQRHLKALERKGYIRRDP 60 (65)
T ss_dssp HHHSS---HHHHHHHHTSSS-----HHHHHHHHHHHHHTTSEEEGC
T ss_pred HHcCCCCCHHHHHHHhCCCC-----hHHHHHHHHHHHHCcCccCCC
Confidence 34567889999999999972 234999999999999999886
No 262
>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=92.66 E-value=0.1 Score=35.58 Aligned_cols=56 Identities=20% Similarity=0.216 Sum_probs=43.5
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
++.++..|.+ ++.|..+||+.+|++... +.+-++.|...|+..... ...|++.+..
T Consensus 2 ~~~il~~L~~--~~~~~~eLa~~l~vS~~t------v~~~l~~L~~~g~~i~~~------~~g~~l~~~~ 57 (69)
T TIGR00122 2 PLRLLALLAD--NPFSGEKLGEALGMSRTA------VNKHIQTLREWGVDVLTV------GKGYRLPPPI 57 (69)
T ss_pred hHHHHHHHHc--CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCeEEec------CCceEecCcc
Confidence 3457778886 689999999999999877 999999999999965443 1566665543
No 263
>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=92.65 E-value=0.11 Score=37.94 Aligned_cols=44 Identities=14% Similarity=0.191 Sum_probs=39.1
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT 101 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt 101 (266)
.++|..|||+.+|+++.. +.|.|..|...|++...+ |.+.|+.+
T Consensus 46 ~~is~~eLa~~~g~sr~t------Vsr~L~~Le~~GlI~r~~-----~~~~~~~n 89 (95)
T TIGR01610 46 DRVTATVIAELTGLSRTH------VSDAIKSLARRRIIFRQG-----MMGIVGVN 89 (95)
T ss_pred CccCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeeeec-----CCceeecC
Confidence 689999999999999877 999999999999999877 35778776
No 264
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=92.56 E-value=0.14 Score=37.12 Aligned_cols=46 Identities=22% Similarity=0.315 Sum_probs=40.2
Q ss_pred HHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 51 LPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 51 ~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
+.+||+.+++++.. +.+.++-|...|++.... ...|.+|+.+..+.
T Consensus 2 ~~ela~~l~is~st------vs~~l~~L~~~glI~r~~------~~~~~lT~~g~~~~ 47 (96)
T smart00529 2 TSEIAERLNVSPPT------VTQMLKKLEKDGLVEYEP------YRGITLTEKGRRLA 47 (96)
T ss_pred HHHHHHHhCCChHH------HHHHHHHHHHCCCEEEcC------CCceEechhHHHHH
Confidence 56899999999877 999999999999999987 35899999886544
No 265
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=92.53 E-value=0.099 Score=38.85 Aligned_cols=48 Identities=17% Similarity=0.292 Sum_probs=41.6
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.+..|+..|... ++.|..+||+.+|+++.. +.+.++.|...|++....
T Consensus 4 ~D~~il~~L~~~-~~~~~~~la~~l~~s~~t------v~~~l~~L~~~g~i~~~~ 51 (108)
T smart00344 4 IDRKILEELQKD-ARISLAELAKKVGLSPST------VHNRVKRLEEEGVIKGYT 51 (108)
T ss_pred HHHHHHHHHHHh-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeeceE
Confidence 456788888874 689999999999999887 999999999999998543
No 266
>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=92.52 E-value=0.037 Score=36.40 Aligned_cols=47 Identities=30% Similarity=0.455 Sum_probs=38.7
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
++.++..|... +++|..+||+.+++++.. +.++++-|...|++.+..
T Consensus 5 q~~iL~~l~~~-~~~~~~~la~~~~~~~~~------~t~~i~~L~~~g~I~r~~ 51 (59)
T PF01047_consen 5 QFRILRILYEN-GGITQSELAEKLGISRST------VTRIIKRLEKKGLIERER 51 (59)
T ss_dssp HHHHHHHHHHH-SSEEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHHc-CCCCHHHHHHHHCCChhH------HHHHHHHHHHCCCEEecc
Confidence 34455566665 679999999999998776 999999999999998876
No 267
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=92.50 E-value=0.38 Score=42.57 Aligned_cols=65 Identities=22% Similarity=0.238 Sum_probs=53.9
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCe-EEEeec-HHHHhhCCC-----CCCeEEEEccCCC
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIK-GVNFDL-PHVVATAPV-----YEGVSHVGGDMLN 246 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~-~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~ 246 (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 34555555 44558999999999999999999999875 999999 888888775 6799999998876
No 268
>PF05219 DREV: DREV methyltransferase; InterPro: IPR007884 This family contains DREV protein homologues from several eukaryotes. The function of this protein is unknown []. However, these proteins appear to be related to other methyltransferases.
Probab=92.48 E-value=0.19 Score=43.58 Aligned_cols=68 Identities=16% Similarity=0.235 Sum_probs=48.5
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCCCCC-CccEEEecccccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLNAVP-NADAVFMKVIVLI 262 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~~~p-~aD~~~l~~vLHd 262 (266)
+..++||||.|.|.....++..+.++.+| +. +.+....+ ..+++++..|=+..-+ .+|+|.+-|+|--
T Consensus 94 ~~~~lLDlGAGdG~VT~~l~~~f~~v~aT--E~S~~Mr~rL~-~kg~~vl~~~~w~~~~~~fDvIscLNvLDR 163 (265)
T PF05219_consen 94 KDKSLLDLGAGDGEVTERLAPLFKEVYAT--EASPPMRWRLS-KKGFTVLDIDDWQQTDFKFDVISCLNVLDR 163 (265)
T ss_pred cCCceEEecCCCcHHHHHHHhhcceEEee--cCCHHHHHHHH-hCCCeEEehhhhhccCCceEEEeehhhhhc
Confidence 45799999999999999999999986665 43 33333333 3556666655444333 4999999999853
No 269
>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=92.35 E-value=0.25 Score=40.21 Aligned_cols=61 Identities=23% Similarity=0.294 Sum_probs=41.7
Q ss_pred HHHhhcccCCC--CCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHHHHhhCCCCCCeEEEEccCCC
Q 042491 181 TLLSHYKDGFD--GIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN 246 (266)
Q Consensus 181 ~~~~~~~~~~~--~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~ 246 (266)
++.+.|+ .++ +..++||+||++|.+...++++. +..+++.+|+...-+ ...+..+.||+.+
T Consensus 11 ei~~~~~-~~~~~~~~~vlDlG~aPGGws~~~~~~~~~~~~v~avDl~~~~~----~~~~~~i~~d~~~ 74 (181)
T PF01728_consen 11 EIDEKFK-IFKPGKGFTVLDLGAAPGGWSQVLLQRGGPAGRVVAVDLGPMDP----LQNVSFIQGDITN 74 (181)
T ss_dssp HHHHTTS-SS-TTTTEEEEEET-TTSHHHHHHHTSTTTEEEEEEEESSSTGS-----TTEEBTTGGGEE
T ss_pred HHHHHCC-CCCcccccEEEEcCCcccceeeeeeecccccceEEEEecccccc----ccceeeeecccch
Confidence 4556665 122 45899999999999999999998 778999999965522 2334444555443
No 270
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=92.08 E-value=0.23 Score=40.80 Aligned_cols=46 Identities=11% Similarity=0.113 Sum_probs=40.4
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..|+++|..+ +.+|.+|||+.+|++... ++++|..|...|++....
T Consensus 25 ~~Vl~~L~~~-g~~tdeeLA~~Lgi~~~~------VRk~L~~L~e~gLv~~~r 70 (178)
T PRK06266 25 FEVLKALIKK-GEVTDEEIAEQTGIKLNT------VRKILYKLYDARLADYKR 70 (178)
T ss_pred hHHHHHHHHc-CCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCeEEee
Confidence 3488988875 689999999999999877 999999999999998544
No 271
>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=92.06 E-value=0.39 Score=42.67 Aligned_cols=68 Identities=22% Similarity=0.284 Sum_probs=46.2
Q ss_pred CCCCceEEEecCCchHHHHHHHHH-------CCCCeEEEeec-HHHHhhCC------C--CCCeEEEEccCCCC--CC--
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEF-------YPHIKGVNFDL-PHVVATAP------V--YEGVSHVGGDMLNA--VP-- 249 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~-------~P~l~~~~~Dl-p~v~~~a~------~--~~ri~~~~gd~~~~--~p-- 249 (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 345578999999999999998875 48888999998 44443322 1 33356888998873 32
Q ss_pred -CccEEEec
Q 042491 250 -NADAVFMK 257 (266)
Q Consensus 250 -~aD~~~l~ 257 (266)
.+|++++.
T Consensus 124 ~~~D~ii~N 132 (311)
T PF02384_consen 124 QKFDVIIGN 132 (311)
T ss_dssp --EEEEEEE
T ss_pred cccccccCC
Confidence 49998864
No 272
>PRK10870 transcriptional repressor MprA; Provisional
Probab=92.05 E-value=0.19 Score=41.12 Aligned_cols=68 Identities=21% Similarity=0.236 Sum_probs=51.4
Q ss_pred cChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491 36 LRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR 109 (266)
Q Consensus 36 lglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~ 109 (266)
+.++-.|... ++++|..|||+.++++... +.+++.-|...|++.+....++...-.+++|+.++.+..
T Consensus 58 ~~iL~~L~~~~~~~it~~eLa~~l~l~~~t------vsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~~~~ 126 (176)
T PRK10870 58 FMALITLESQENHSIQPSELSCALGSSRTN------ATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHEFLR 126 (176)
T ss_pred HHHHHHHhcCCCCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHH
Confidence 4455566532 2578999999999999877 999999999999999887432223346889999876553
No 273
>COG3897 Predicted methyltransferase [General function prediction only]
Probab=92.01 E-value=0.65 Score=38.66 Aligned_cols=74 Identities=14% Similarity=0.168 Sum_probs=52.2
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCCCccEEEeccccccC
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVPNADAVFMKVIVLIQ 263 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p~aD~~~l~~vLHd~ 263 (266)
+-..++|+|.|.|+|..+++.++.--. .++.-|. |..+..++- .-.|.+..-|..-+-|++|++++..++.+.
T Consensus 77 tVrgkrVLd~gagsgLvaIAaa~aGA~-~v~a~d~~P~~~~ai~lNa~angv~i~~~~~d~~g~~~~~Dl~LagDlfy~~ 155 (218)
T COG3897 77 TVRGKRVLDLGAGSGLVAIAAARAGAA-EVVAADIDPWLEQAIRLNAAANGVSILFTHADLIGSPPAFDLLLAGDLFYNH 155 (218)
T ss_pred ccccceeeecccccChHHHHHHHhhhH-HHHhcCCChHHHHHhhcchhhccceeEEeeccccCCCcceeEEEeeceecCc
Confidence 446799999999999999888777433 3333333 554444332 345788888877755569999999998875
Q ss_pred C
Q 042491 264 D 264 (266)
Q Consensus 264 ~ 264 (266)
+
T Consensus 156 ~ 156 (218)
T COG3897 156 T 156 (218)
T ss_pred h
Confidence 4
No 274
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=91.98 E-value=0.23 Score=42.21 Aligned_cols=57 Identities=16% Similarity=0.350 Sum_probs=50.4
Q ss_pred HHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 25 ADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 25 ~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
-..++|...++..|+++|+.. +|+.+.|||+++|+++.. +..-+..|...|++....
T Consensus 15 dv~kalaS~vRv~Il~lL~~k-~plNvneiAe~lgLpqst------~s~~ik~Le~aGlirT~t 71 (308)
T COG4189 15 DVLKALASKVRVAILQLLHRK-GPLNVNEIAEALGLPQST------MSANIKVLEKAGLIRTET 71 (308)
T ss_pred hHHHHHHHHHHHHHHHHHHHh-CCCCHHHHHHHhCCchhh------hhhhHHHHHhcCceeeee
Confidence 356788889999999999984 799999999999999877 999999999999997654
No 275
>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=91.97 E-value=0.22 Score=47.88 Aligned_cols=65 Identities=14% Similarity=0.154 Sum_probs=44.2
Q ss_pred CCceEEEecCCchHHHHHHHHHCCC--------CeEEEeec-HHHHhhCCC----C--CCeEEEEccCCCC--------C
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPH--------IKGVNFDL-PHVVATAPV----Y--EGVSHVGGDMLNA--------V 248 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~--------l~~~~~Dl-p~v~~~a~~----~--~ri~~~~gd~~~~--------~ 248 (266)
...+|+|.|||+|.++.+++++.+. +...++|+ |.+++.++. . -.++...+|+... .
T Consensus 31 ~~~~ilDP~cGsG~fl~~~~~~~~~~~~~~~~~~~i~g~DId~~a~~~a~~~l~~~~~~~~~i~~~d~l~~~~~~~~~~~ 110 (524)
T TIGR02987 31 TKTKIIDPCCGDGRLIAALLKKNEEINYFKEVELNIYFADIDKTLLKRAKKLLGEFALLEINVINFNSLSYVLLNIESYL 110 (524)
T ss_pred cceEEEeCCCCccHHHHHHHHHHHhcCCcccceeeeeeechhHHHHHHHHHHHhhcCCCCceeeeccccccccccccccc
Confidence 4569999999999999999988863 45678887 444443332 1 2456666665541 1
Q ss_pred CCccEEEe
Q 042491 249 PNADAVFM 256 (266)
Q Consensus 249 p~aD~~~l 256 (266)
+.||+|+.
T Consensus 111 ~~fD~IIg 118 (524)
T TIGR02987 111 DLFDIVIT 118 (524)
T ss_pred CcccEEEe
Confidence 24898875
No 276
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=91.95 E-value=0.16 Score=38.83 Aligned_cols=51 Identities=25% Similarity=0.438 Sum_probs=44.5
Q ss_pred HHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 31 KSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 31 ~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
+..+...|.+.+.++ |.+|..|++..+|++-.. +.++++-|++.|-|...+
T Consensus 10 r~eLk~rIvElVRe~-GRiTi~ql~~~TGasR~T------vk~~lreLVa~G~l~~~G 60 (127)
T PF06163_consen 10 REELKARIVELVREH-GRITIKQLVAKTGASRNT------VKRYLRELVARGDLYRHG 60 (127)
T ss_pred HHHHHHHHHHHHHHc-CCccHHHHHHHHCCCHHH------HHHHHHHHHHcCCeEeCC
Confidence 345566788888887 799999999999998766 999999999999999987
No 277
>KOG3045 consensus Predicted RNA methylase involved in rRNA processing [RNA processing and modification]
Probab=91.82 E-value=0.5 Score=41.04 Aligned_cols=94 Identities=15% Similarity=0.174 Sum_probs=55.8
Q ss_pred cchhcccCchHHHHHHHHHHh----hhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHH
Q 042491 153 MWDFASQNSQFNNSFNKAMAC----TAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVV 228 (266)
Q Consensus 153 ~~~~~~~~~~~~~~f~~~m~~----~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~ 228 (266)
.+..+.++|..-..|+++.+. +-..-...++..+. .-++...|-|+|||.+.++. .-+ -++.-|||-.+-
T Consensus 138 A~~lfkedp~afdlYH~gfr~QV~kWP~nPld~ii~~ik-~r~~~~vIaD~GCGEakiA~----~~~-~kV~SfDL~a~~ 211 (325)
T KOG3045|consen 138 AFDLFKEDPTAFDLYHAGFRSQVKKWPENPLDVIIRKIK-RRPKNIVIADFGCGEAKIAS----SER-HKVHSFDLVAVN 211 (325)
T ss_pred HHHHHhcCcHHHHHHHHHHHHHHHhCCCChHHHHHHHHH-hCcCceEEEecccchhhhhh----ccc-cceeeeeeecCC
Confidence 344556677655555554432 22222344555544 12467899999999999887 112 257778875432
Q ss_pred hhCCCCCCeEEEEccCCC-CCCC--ccEEEecccc
Q 042491 229 ATAPVYEGVSHVGGDMLN-AVPN--ADAVFMKVIV 260 (266)
Q Consensus 229 ~~a~~~~ri~~~~gd~~~-~~p~--aD~~~l~~vL 260 (266)
+ ++++.||-+ |++. .|+.+++--|
T Consensus 212 ~--------~V~~cDm~~vPl~d~svDvaV~CLSL 238 (325)
T KOG3045|consen 212 E--------RVIACDMRNVPLEDESVDVAVFCLSL 238 (325)
T ss_pred C--------ceeeccccCCcCccCcccEEEeeHhh
Confidence 2 456778888 6552 7877665443
No 278
>PRK06474 hypothetical protein; Provisional
Probab=91.74 E-value=0.17 Score=41.52 Aligned_cols=72 Identities=15% Similarity=0.283 Sum_probs=52.6
Q ss_pred HHHHHHHHhcChhhHhhhCCCCCCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccccCC-CCC-CceEeCchh
Q 042491 27 SMALKSAVELRLADIMHCHGSPITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD-GSE-ETMYGLTQI 103 (266)
Q Consensus 27 ~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~-~~g-~~~y~lt~~ 103 (266)
..+|.-..++.|++.|...+++.|+.||++.+ +++... +.|.|+.|...|++....... .++ +..|++++.
T Consensus 5 ~~~La~p~R~~Il~~L~~~~~~~ta~el~~~l~~is~aT------vYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~~~~ 78 (178)
T PRK06474 5 AEILMHPVRMKICQVLMRNKEGLTPLELVKILKDVPQAT------LYRHLQTMVDSGILHVVKEKKVRSVSEKYYAINEE 78 (178)
T ss_pred HHhhCCHHHHHHHHHHHhCCCCCCHHHHHHHhcCCCHHH------HHHHHHHHHHCCCEEEeecccccCceeEEEEeccc
Confidence 34566667888999998754459999999999 566555 999999999999999865210 001 234778775
Q ss_pred c
Q 042491 104 S 104 (266)
Q Consensus 104 s 104 (266)
+
T Consensus 79 ~ 79 (178)
T PRK06474 79 D 79 (178)
T ss_pred e
Confidence 5
No 279
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=91.74 E-value=0.31 Score=40.30 Aligned_cols=66 Identities=15% Similarity=0.100 Sum_probs=51.3
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
+.+.-.|... +++|..+||+.++++... +.++++-|...|++.+....++...-...+|+.++.+.
T Consensus 48 ~~iL~~L~~~-~~itq~eLa~~l~l~~sT------vtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~l~ 113 (185)
T PRK13777 48 HHILWIAYHL-KGASISEIAKFGVMHVST------AFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEELL 113 (185)
T ss_pred HHHHHHHHhC-CCcCHHHHHHHHCCCHhh------HHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHH
Confidence 4566777664 689999999999998776 99999999999999987532222334588999987655
No 280
>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=91.67 E-value=0.21 Score=36.16 Aligned_cols=68 Identities=19% Similarity=0.265 Sum_probs=50.1
Q ss_pred HHHhcChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHH----------HhccCcc-cccccCCCCCCceEe
Q 042491 32 SAVELRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRM----------LVRKGVF-AAHRSSDGSEETMYG 99 (266)
Q Consensus 32 ~a~elglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~----------L~~~gil-~~~~~~~~~g~~~y~ 99 (266)
.=++.+|+..|... ..+.++.|||..+++++.. +..-|+- |+.+|++ .+... .|...|+
T Consensus 8 S~~R~~vl~~L~~~yp~~~~~~eIar~v~~~~sn------V~GaL~G~g~rY~~e~SLv~lGLV~~~~~~---~g~k~Y~ 78 (90)
T PF07381_consen 8 SKVRKKVLEYLCSIYPEPAYPSEIARSVGSDYSN------VLGALRGDGKRYNKEDSLVGLGLVEEEEEK---GGFKYYR 78 (90)
T ss_pred HHHHHHHHHHHHHcCCCcCCHHHHHHHHCCCHHH------HHHHHhcCCCCcCcchhHHHcCCeeEeeec---CCeeEEE
Confidence 44567788888776 4789999999999999876 6666654 8899999 33331 1345799
Q ss_pred Cchhchhhh
Q 042491 100 LTQISKWLL 108 (266)
Q Consensus 100 lt~~s~~l~ 108 (266)
+|+.++.++
T Consensus 79 lT~~G~~~~ 87 (90)
T PF07381_consen 79 LTEKGKRIA 87 (90)
T ss_pred eChhhhhHH
Confidence 999886543
No 281
>KOG4589 consensus Cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning]
Probab=91.63 E-value=0.7 Score=38.25 Aligned_cols=40 Identities=20% Similarity=0.241 Sum_probs=33.3
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHHHHh
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPHVVA 229 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~v~~ 229 (266)
+....+|+|+|+-.|.++.-..++. |+-.+.++|+-.+.+
T Consensus 67 l~p~~~VlD~G~APGsWsQVavqr~~p~g~v~gVDllh~~p 107 (232)
T KOG4589|consen 67 LRPEDTVLDCGAAPGSWSQVAVQRVNPNGMVLGVDLLHIEP 107 (232)
T ss_pred cCCCCEEEEccCCCChHHHHHHHhhCCCceEEEEeeeeccC
Confidence 4567899999999999998887776 999999999855443
No 282
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=91.53 E-value=0.33 Score=32.07 Aligned_cols=34 Identities=18% Similarity=0.218 Sum_probs=30.2
Q ss_pred CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 49 ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 49 ~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|..+||+.++++... +.+.+..|...|++....
T Consensus 26 ~~~~~la~~~~is~~~------v~~~l~~L~~~G~i~~~~ 59 (66)
T cd07377 26 PSERELAEELGVSRTT------VREALRELEAEGLVERRP 59 (66)
T ss_pred CCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecC
Confidence 3599999999998776 999999999999998665
No 283
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=91.29 E-value=0.21 Score=39.27 Aligned_cols=47 Identities=19% Similarity=0.262 Sum_probs=39.1
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
|.+.|..+||+.+|+++.. ++++|+.|...|+++-.... .|.|.++.
T Consensus 23 g~~~s~~~ia~~~~is~~~------vrk~l~~L~~~Glv~s~~G~----~GG~~l~~ 69 (141)
T PRK11014 23 GRMTSISEVTEVYGVSRNH------MVKIINQLSRAGYVTAVRGK----NGGIRLGK 69 (141)
T ss_pred CCccCHHHHHHHHCcCHHH------HHHHHHHHHhCCEEEEecCC----CCCeeecC
Confidence 4678999999999999876 99999999999999888721 35677754
No 284
>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=91.28 E-value=0.15 Score=42.00 Aligned_cols=64 Identities=14% Similarity=0.159 Sum_probs=46.0
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC---C--C--CccEEEe
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA---V--P--NADAVFM 256 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~---~--p--~aD~~~l 256 (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 4589999999999999999998643 7888887 555554443 46799999997662 2 2 3999986
No 285
>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=91.22 E-value=0.44 Score=33.46 Aligned_cols=52 Identities=17% Similarity=0.106 Sum_probs=42.7
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccc-cccCCCCCCceEeCchhch-hhh
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA-HRSSDGSEETMYGLTQISK-WLL 108 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~-~~~~~~~g~~~y~lt~~s~-~l~ 108 (266)
+.|+...+||+.+++++.- ++..|..|..+|+++. ... .+.|..|..+. ++.
T Consensus 21 ~~PVgSk~ia~~l~~s~aT------IRN~M~~Le~lGlve~~p~~-----s~GriPT~~aYr~~~ 74 (78)
T PF03444_consen 21 GEPVGSKTIAEELGRSPAT------IRNEMADLEELGLVESQPHP-----SGGRIPTDKAYRALN 74 (78)
T ss_pred CCCcCHHHHHHHHCCChHH------HHHHHHHHHHCCCccCCCCC-----CCCCCcCHHHHHHHc
Confidence 5899999999999998766 9999999999999984 443 37788888773 443
No 286
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=91.20 E-value=0.19 Score=40.08 Aligned_cols=47 Identities=21% Similarity=0.311 Sum_probs=40.1
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI 103 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~ 103 (266)
++.|.++||+..|+++.- |.+++..|...|+++-.... .|.|+|+.-
T Consensus 24 ~~~s~~~IA~~~~is~~~------L~kil~~L~kaGlV~S~rG~----~GGy~Lar~ 70 (150)
T COG1959 24 GPVSSAEIAERQGISPSY------LEKILSKLRKAGLVKSVRGK----GGGYRLARP 70 (150)
T ss_pred CcccHHHHHHHhCcCHHH------HHHHHHHHHHcCCEEeecCC----CCCccCCCC
Confidence 389999999999999755 99999999999999988731 578888764
No 287
>COG0116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]
Probab=91.00 E-value=0.7 Score=42.36 Aligned_cols=68 Identities=19% Similarity=0.188 Sum_probs=52.6
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCC---------------------------------------eEEEeec-HHHHh
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHI---------------------------------------KGVNFDL-PHVVA 229 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l---------------------------------------~~~~~Dl-p~v~~ 229 (266)
|...+.++|-=||+|+++++.+...+++ ..++.|. |.+++
T Consensus 189 w~~~~pl~DPmCGSGTi~IEAAl~~~niAPg~~R~~~f~~w~~~~~~lw~~~~~ea~~~a~~~~~~~~~~G~Did~r~i~ 268 (381)
T COG0116 189 WKPDEPLLDPMCGSGTILIEAALIAANIAPGLNRRFGFEFWDWFDKDLWDKLREEAEERARRGKELPIIYGSDIDPRHIE 268 (381)
T ss_pred CCCCCccccCCCCccHHHHHHHHhccccCCccccccchhhhhhccHHHHHHHHHHHHHHHhhcCccceEEEecCCHHHHH
Confidence 6566899999999999999988888652 1568887 77776
Q ss_pred hCCC-------CCCeEEEEccCCC-CCC--CccEEEec
Q 042491 230 TAPV-------YEGVSHVGGDMLN-AVP--NADAVFMK 257 (266)
Q Consensus 230 ~a~~-------~~ri~~~~gd~~~-~~p--~aD~~~l~ 257 (266)
.|+. .+.|+|..+|+.. +-| ++|++++.
T Consensus 269 ~Ak~NA~~AGv~d~I~f~~~d~~~l~~~~~~~gvvI~N 306 (381)
T COG0116 269 GAKANARAAGVGDLIEFKQADATDLKEPLEEYGVVISN 306 (381)
T ss_pred HHHHHHHhcCCCceEEEEEcchhhCCCCCCcCCEEEeC
Confidence 6553 6889999999886 333 58888764
No 288
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=90.99 E-value=0.23 Score=36.10 Aligned_cols=48 Identities=10% Similarity=0.218 Sum_probs=42.5
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.++.|..+|... +|-.+.-||..++++... +...|+-|..+|++++..
T Consensus 8 l~~~IL~hl~~~-~~Dy~k~ia~~l~~~~~~------v~~~l~~Le~~GLler~~ 55 (92)
T PF10007_consen 8 LDLKILQHLKKA-GPDYAKSIARRLKIPLEE------VREALEKLEEMGLLERVE 55 (92)
T ss_pred hHHHHHHHHHHH-CCCcHHHHHHHHCCCHHH------HHHHHHHHHHCCCeEEec
Confidence 356678888875 788999999999999877 999999999999999998
No 289
>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins.; PDB: 3GIW_A 3GO4_A 2QE6_A.
Probab=90.94 E-value=1 Score=39.28 Aligned_cols=74 Identities=26% Similarity=0.354 Sum_probs=43.0
Q ss_pred CCceEEEecCCchH---HHHHHHHHCCCCeEEEeec-HHHHhhCCC----CCC--eEEEEccCCCC---C--C---C-cc
Q 042491 192 GIRSLVDVGGGTGE---ELAEIVEFYPHIKGVNFDL-PHVVATAPV----YEG--VSHVGGDMLNA---V--P---N-AD 252 (266)
Q Consensus 192 ~~~~vvDvGgG~G~---~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~----~~r--i~~~~gd~~~~---~--p---~-aD 252 (266)
++..+||||||.=+ .=.-..+..|+.+++=.|. |-|+.+++. .++ ..++.+|+.+| + | + -|
T Consensus 68 GIrQFLDlGsGlPT~~nvHevAq~~~P~aRVVYVD~DPvv~ah~ralL~~~~~g~t~~v~aD~r~p~~iL~~p~~~~~lD 147 (267)
T PF04672_consen 68 GIRQFLDLGSGLPTAGNVHEVAQRVAPDARVVYVDNDPVVLAHARALLADNPRGRTAYVQADLRDPEAILAHPEVRGLLD 147 (267)
T ss_dssp ---EEEEET--S--SS-HHHHHHHH-TT-EEEEEESSHHHHHCCHHHHTT-TTSEEEEEE--TT-HHHHHCSHHHHCC--
T ss_pred CcceEEEcccCCCCCCCHhHHHHhhCCCceEEEECCCchHHHHHHhhhcCCCCccEEEEeCCCCCHHHHhcCHHHHhcCC
Confidence 88999999998642 2233456689999999998 777777664 344 89999999984 2 2 1 23
Q ss_pred -----EEEeccccccCCC
Q 042491 253 -----AVFMKVIVLIQDL 265 (266)
Q Consensus 253 -----~~~l~~vLHd~~~ 265 (266)
.++|..|||.-+|
T Consensus 148 ~~rPVavll~~vLh~v~D 165 (267)
T PF04672_consen 148 FDRPVAVLLVAVLHFVPD 165 (267)
T ss_dssp TTS--EEEECT-GGGS-C
T ss_pred CCCCeeeeeeeeeccCCC
Confidence 7899999998765
No 290
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=90.89 E-value=0.24 Score=32.08 Aligned_cols=36 Identities=14% Similarity=0.217 Sum_probs=32.1
Q ss_pred CCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..+ |..+||+.+|++... +.+.++.|...|++....
T Consensus 18 ~~l~s~~~la~~~~vs~~t------v~~~l~~L~~~g~i~~~~ 54 (60)
T smart00345 18 DKLPSERELAAQLGVSRTT------VREALSRLEAEGLVQRRP 54 (60)
T ss_pred CcCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEec
Confidence 456 899999999998776 999999999999998765
No 291
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=90.77 E-value=0.18 Score=32.52 Aligned_cols=42 Identities=21% Similarity=0.286 Sum_probs=33.1
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcc
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVF 84 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil 84 (266)
.|+..|..+++++|.++||+.++++.+. +.+-+..|...|+.
T Consensus 4 ~il~~L~~~~~~it~~eLa~~l~vS~rT------i~~~i~~L~~~~~~ 45 (55)
T PF08279_consen 4 QILKLLLESKEPITAKELAEELGVSRRT------IRRDIKELREWGIP 45 (55)
T ss_dssp HHHHHHHHTTTSBEHHHHHHHCTS-HHH------HHHHHHHHHHTT-E
T ss_pred HHHHHHHHcCCCcCHHHHHHHhCCCHHH------HHHHHHHHHHCCCe
Confidence 4566774444679999999999999876 99999999999933
No 292
>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=90.76 E-value=0.15 Score=34.02 Aligned_cols=37 Identities=24% Similarity=0.490 Sum_probs=33.1
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
+++++..+||+.+|+.+.. +...++-|...|+++...
T Consensus 20 ~~~v~~~~iA~~L~vs~~t------vt~ml~~L~~~GlV~~~~ 56 (60)
T PF01325_consen 20 GGPVRTKDIAERLGVSPPT------VTEMLKRLAEKGLVEYEP 56 (60)
T ss_dssp TSSBBHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEET
T ss_pred CCCccHHHHHHHHCCChHH------HHHHHHHHHHCCCEEecC
Confidence 5899999999999999776 999999999999998775
No 293
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=90.76 E-value=0.32 Score=36.27 Aligned_cols=70 Identities=20% Similarity=0.283 Sum_probs=52.4
Q ss_pred HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 32 SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 32 ~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
...++.++..|... ++.+..+||+.+++++.. +.++++-|...|++.+....++...-.+.+|+.++.+.
T Consensus 21 t~~q~~~L~~l~~~-~~~~~~~la~~l~i~~~~------vt~~l~~Le~~glv~r~~~~~DrR~~~l~lT~~G~~~~ 90 (126)
T COG1846 21 TPPQYQVLLALYEA-GGITVKELAERLGLDRST------VTRLLKRLEDKGLIERLRDPEDRRAVLVRLTEKGRELL 90 (126)
T ss_pred CHHHHHHHHHHHHh-CCCcHHHHHHHHCCCHHH------HHHHHHHHHHCCCeeecCCccccceeeEEECccHHHHH
Confidence 34456677777764 344449999999999887 99999999999999998843222344689999887544
No 294
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=90.66 E-value=0.27 Score=40.09 Aligned_cols=46 Identities=15% Similarity=0.161 Sum_probs=41.2
Q ss_pred CCCCHHHHHhhc--CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 47 SPITLPQLASGI--NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 47 ~~~t~~eLA~~~--g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
+..++.+||+++ +++... ++.-|..|...|++++.+ +|.|..|..+
T Consensus 38 ~~~d~~~iak~l~p~is~~e------v~~sL~~L~~~gli~k~~------~g~y~~t~~~ 85 (171)
T PF14394_consen 38 FAPDPEWIAKRLRPKISAEE------VRDSLEFLEKLGLIKKDG------DGKYVQTDKS 85 (171)
T ss_pred CCCCHHHHHHHhcCCCCHHH------HHHHHHHHHHCCCeEECC------CCcEEEecce
Confidence 334999999999 999888 999999999999999999 5899998866
No 295
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=90.41 E-value=0.35 Score=37.34 Aligned_cols=56 Identities=18% Similarity=0.296 Sum_probs=47.2
Q ss_pred HHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 26 DSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 26 ~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..+.+-+--.+.|...|+.. +|.|..|+|+..|-+... +.|-|+.|.-.|++....
T Consensus 57 ~la~vLsp~nleLl~~Ia~~-~P~Si~ElAe~vgRdv~n------vhr~Ls~l~~~GlI~fe~ 112 (144)
T COG4190 57 DLARVLSPRNLELLELIAQE-EPASINELAELVGRDVKN------VHRTLSTLADLGLIFFEE 112 (144)
T ss_pred HHHHHhChhHHHHHHHHHhc-CcccHHHHHHHhCcchHH------HHHHHHHHHhcCeEEEec
Confidence 34444445567788999875 899999999999999888 999999999999998776
No 296
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=90.35 E-value=0.58 Score=41.87 Aligned_cols=78 Identities=18% Similarity=0.297 Sum_probs=55.5
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHH-HhhCCC--------CC----CeEEEEccCCCC
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHV-VATAPV--------YE----GVSHVGGDMLNA 247 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v-~~~a~~--------~~----ri~~~~gd~~~~ 247 (266)
.+++.|. +....++|+|||-|.-++-.-++--+ ..++.|+.+| |.++++ .. .+.|+.+|=+..
T Consensus 109 ~LI~~y~---~~~~~~~~LgCGKGGDLlKw~kAgI~-~~igiDIAevSI~qa~~RYrdm~~r~~~~~f~a~f~~~Dc~~~ 184 (389)
T KOG1975|consen 109 VLINLYT---KRGDDVLDLGCGKGGDLLKWDKAGIG-EYIGIDIAEVSINQARKRYRDMKNRFKKFIFTAVFIAADCFKE 184 (389)
T ss_pred HHHHHHh---ccccccceeccCCcccHhHhhhhccc-ceEeeehhhccHHHHHHHHHHHHhhhhcccceeEEEEeccchh
Confidence 4556553 46678999999999998887766322 5788899665 555553 12 257888886652
Q ss_pred -----C----CCccEEEecccccc
Q 042491 248 -----V----PNADAVFMKVIVLI 262 (266)
Q Consensus 248 -----~----p~aD~~~l~~vLHd 262 (266)
+ |.+|++-+--++|+
T Consensus 185 ~l~d~~e~~dp~fDivScQF~~HY 208 (389)
T KOG1975|consen 185 RLMDLLEFKDPRFDIVSCQFAFHY 208 (389)
T ss_pred HHHHhccCCCCCcceeeeeeeEee
Confidence 2 34999999999997
No 297
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=90.18 E-value=0.26 Score=39.45 Aligned_cols=47 Identities=21% Similarity=0.221 Sum_probs=39.8
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI 103 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~ 103 (266)
+++|..+||+..++++.- |.+++..|+..|++.-... ..|.|+++.-
T Consensus 23 ~~~s~~eIA~~~~is~~~------L~kIl~~L~~aGlv~S~rG----~~GGy~La~~ 69 (153)
T PRK11920 23 KLSRIPEIARAYGVSELF------LFKILQPLVEAGLVETVRG----RNGGVRLGRP 69 (153)
T ss_pred CcCcHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeecC----CCCCeeecCC
Confidence 578999999999999765 9999999999999998872 1467887663
No 298
>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=90.14 E-value=0.12 Score=46.68 Aligned_cols=69 Identities=26% Similarity=0.449 Sum_probs=45.0
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCe-EEEeec-H---HHHhhCCC---CCCeEEEEccCCC---CCCCccEEEeccccc
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIK-GVNFDL-P---HVVATAPV---YEGVSHVGGDMLN---AVPNADAVFMKVIVL 261 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~-~~~~Dl-p---~v~~~a~~---~~ri~~~~gd~~~---~~p~aD~~~l~~vLH 261 (266)
+++|||||-|.|+-+-++-.-+|+++ +++++. | +|+..... ..+......|+.. ++|.+|.|.+.-++|
T Consensus 114 pqsiLDvG~GPgtgl~A~n~i~Pdl~sa~ile~sp~lrkV~~tl~~nv~t~~td~r~s~vt~dRl~lp~ad~ytl~i~~~ 193 (484)
T COG5459 114 PQSILDVGAGPGTGLWALNDIWPDLKSAVILEASPALRKVGDTLAENVSTEKTDWRASDVTEDRLSLPAADLYTLAIVLD 193 (484)
T ss_pred cchhhccCCCCchhhhhhcccCCCchhhhhhccCHHHHHHHHHHHhhcccccCCCCCCccchhccCCCccceeehhhhhh
Confidence 47799999999999999999999996 566665 3 23332221 1222233445544 477788777665554
No 299
>KOG4058 consensus Uncharacterized conserved protein [Function unknown]
Probab=90.04 E-value=0.38 Score=38.20 Aligned_cols=69 Identities=20% Similarity=0.250 Sum_probs=48.4
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC-----C--CCCeEEEEccCCC-CCCC
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP-----V--YEGVSHVGGDMLN-AVPN 250 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~-----~--~~ri~~~~gd~~~-~~p~ 250 (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 34555555 3445899999999999988877775 456788888 54444332 1 6778888889888 5654
Q ss_pred c
Q 042491 251 A 251 (266)
Q Consensus 251 a 251 (266)
+
T Consensus 139 y 139 (199)
T KOG4058|consen 139 Y 139 (199)
T ss_pred c
Confidence 3
No 300
>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=89.69 E-value=0.13 Score=29.66 Aligned_cols=31 Identities=26% Similarity=0.501 Sum_probs=24.6
Q ss_pred CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcc
Q 042491 48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVF 84 (266)
Q Consensus 48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil 84 (266)
++|-+|||+.+|+..+- +.|+|.-|...|++
T Consensus 2 ~mtr~diA~~lG~t~ET------VSR~l~~l~~~glI 32 (32)
T PF00325_consen 2 PMTRQDIADYLGLTRET------VSRILKKLERQGLI 32 (32)
T ss_dssp E--HHHHHHHHTS-HHH------HHHHHHHHHHTTSE
T ss_pred CcCHHHHHHHhCCcHHH------HHHHHHHHHHcCCC
Confidence 47889999999998765 99999999988874
No 301
>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=89.46 E-value=0.32 Score=39.14 Aligned_cols=46 Identities=9% Similarity=0.052 Sum_probs=39.4
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..|+++|..+ +.+|-+|||+.+|++... ++++|..|...|++....
T Consensus 17 v~Vl~aL~~~-~~~tdEeLa~~Lgi~~~~------VRk~L~~L~e~~Lv~~~r 62 (158)
T TIGR00373 17 GLVLFSLGIK-GEFTDEEISLELGIKLNE------VRKALYALYDAGLADYKR 62 (158)
T ss_pred HHHHHHHhcc-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCceeee
Confidence 4478888754 689999999999999877 999999999999996443
No 302
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=89.27 E-value=0.24 Score=36.19 Aligned_cols=62 Identities=24% Similarity=0.413 Sum_probs=46.3
Q ss_pred hhhHhh-hCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 38 LADIMH-CHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 38 lfd~L~-~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
+||.|. ..+++....-|.-.++++-.. ...+++.|+..|++..... .....|.+|+.+.-|.
T Consensus 20 i~dIL~~~~~~~~~~Tri~y~aNlny~~------~~~yi~~L~~~Gli~~~~~---~~~~~y~lT~KG~~fl 82 (95)
T COG3432 20 IFDILKAISEGGIGITRIIYGANLNYKR------AQKYIEMLVEKGLIIKQDN---GRRKVYELTEKGKRFL 82 (95)
T ss_pred HHHHHHHhcCCCCCceeeeeecCcCHHH------HHHHHHHHHhCCCEEeccC---CccceEEEChhHHHHH
Confidence 456665 334788888899999998777 9999999999996655551 1123799999997543
No 303
>KOG2940 consensus Predicted methyltransferase [General function prediction only]
Probab=89.15 E-value=0.57 Score=40.01 Aligned_cols=72 Identities=13% Similarity=0.060 Sum_probs=51.1
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--CCC--eEEEEccCCC-CCC--CccEEEecccccc
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--YEG--VSHVGGDMLN-AVP--NADAVFMKVIVLI 262 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--~~r--i~~~~gd~~~-~~p--~aD~~~l~~vLHd 262 (266)
..+..+.|||||-|...+.|..+.-+ +.+..|. -.+++..+. .+. ++...+|=.. ++. ..|+++-+.-||=
T Consensus 71 k~fp~a~diGcs~G~v~rhl~~e~ve-kli~~DtS~~M~~s~~~~qdp~i~~~~~v~DEE~Ldf~ens~DLiisSlslHW 149 (325)
T KOG2940|consen 71 KSFPTAFDIGCSLGAVKRHLRGEGVE-KLIMMDTSYDMIKSCRDAQDPSIETSYFVGDEEFLDFKENSVDLIISSLSLHW 149 (325)
T ss_pred hhCcceeecccchhhhhHHHHhcchh-heeeeecchHHHHHhhccCCCceEEEEEecchhcccccccchhhhhhhhhhhh
Confidence 45679999999999999999999732 6677786 566666554 233 3455566333 454 3999998888884
Q ss_pred C
Q 042491 263 Q 263 (266)
Q Consensus 263 ~ 263 (266)
-
T Consensus 150 ~ 150 (325)
T KOG2940|consen 150 T 150 (325)
T ss_pred h
Confidence 3
No 304
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=88.96 E-value=0.34 Score=38.63 Aligned_cols=48 Identities=10% Similarity=0.187 Sum_probs=42.6
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.+..|.++|..+ +..|..+||+.+|+++.. +.+=++-|...|++....
T Consensus 10 ~D~~Il~~Lq~d-~R~s~~eiA~~lglS~~t------V~~Ri~rL~~~GvI~~~~ 57 (153)
T PRK11179 10 LDRGILEALMEN-ARTPYAELAKQFGVSPGT------IHVRVEKMKQAGIITGTR 57 (153)
T ss_pred HHHHHHHHHHHc-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeeeEE
Confidence 567889999885 799999999999999887 999999999999998554
No 305
>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=88.89 E-value=0.49 Score=43.55 Aligned_cols=63 Identities=13% Similarity=0.133 Sum_probs=48.0
Q ss_pred ceEEEecCCchHHHHHHHHHCCCC-eEEEeec-HHHHhhCCC------CCCeEEEEccCCCCC----CCccEEEe
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHI-KGVNFDL-PHVVATAPV------YEGVSHVGGDMLNAV----PNADAVFM 256 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~~~----p~aD~~~l 256 (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 589999999999999999997665 6788898 777665543 345788888877631 23888865
No 306
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=88.58 E-value=0.31 Score=42.42 Aligned_cols=49 Identities=24% Similarity=0.453 Sum_probs=44.3
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS 89 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~ 89 (266)
|..+.++|..+||.++-+||.+++|++... +.|.|+-|...|++++...
T Consensus 197 e~~il~~i~~~GGri~Q~eL~r~lglsktT------vsR~L~~LEk~GlIe~~K~ 245 (258)
T COG2512 197 EKEILDLIRERGGRITQAELRRALGLSKTT------VSRILRRLEKRGLIEKEKK 245 (258)
T ss_pred HHHHHHHHHHhCCEEeHHHHHHhhCCChHH------HHHHHHHHHhCCceEEEEe
Confidence 356888998888889999999999999888 9999999999999998873
No 307
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=88.50 E-value=0.39 Score=45.46 Aligned_cols=70 Identities=14% Similarity=0.092 Sum_probs=56.2
Q ss_pred HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch-hhhcCC
Q 042491 33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK-WLLRDS 111 (266)
Q Consensus 33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~-~l~~~~ 111 (266)
+.+..|+..|...+...+.++||+.+|++... +.+.+..|.+.|+++-.... ...|.+|..++ ++..+.
T Consensus 3 ~~e~~iL~~l~~~~~~~~~~~la~~~g~~~~~------v~~~~~~L~~kg~v~~~~~~----~~~~~LT~eG~~~l~~G~ 72 (492)
T PLN02853 3 MAEEALLGALSNNEEISDSGQFAASHGLDHNE------VVGVIKSLHGFRYVDAQDIK----RETWVLTEEGKKYAAEGS 72 (492)
T ss_pred hHHHHHHHHHHhcCCCCCHHHHHHHcCCCHHH------HHHHHHHHHhCCCEEEEEEE----EEEEEECHHHHHHHHcCC
Confidence 45677888888642238999999999999887 99999999999998777642 46899999997 666665
Q ss_pred C
Q 042491 112 E 112 (266)
Q Consensus 112 ~ 112 (266)
|
T Consensus 73 P 73 (492)
T PLN02853 73 P 73 (492)
T ss_pred H
Confidence 5
No 308
>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=88.45 E-value=0.27 Score=33.84 Aligned_cols=43 Identities=21% Similarity=0.343 Sum_probs=37.4
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
-++|-++||..+|++... +.|+|+.|...|++...+ +.+.+..
T Consensus 27 ~~lt~~~iA~~~g~sr~t------v~r~l~~l~~~g~I~~~~-------~~i~I~d 69 (76)
T PF13545_consen 27 LPLTQEEIADMLGVSRET------VSRILKRLKDEGIIEVKR-------GKIIILD 69 (76)
T ss_dssp EESSHHHHHHHHTSCHHH------HHHHHHHHHHTTSEEEET-------TEEEESS
T ss_pred ecCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEcC-------CEEEECC
Confidence 479999999999999766 999999999999999877 6666554
No 309
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=88.41 E-value=0.43 Score=45.53 Aligned_cols=65 Identities=22% Similarity=0.213 Sum_probs=52.2
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR 109 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~ 109 (266)
.+..|+..|... +++|..+||+.+++++.. +.+.++-|.+.|++..... ....|.+|+.++.+..
T Consensus 7 ~e~~vL~~L~~~-~~~s~~eLA~~l~l~~~t------Vt~~i~~Le~kGlV~~~~~----~~~~i~LTeeG~~~~~ 71 (489)
T PRK04172 7 NEKKVLKALKEL-KEATLEELAEKLGLPPEA------VMRAAEWLEEKGLVKVEER----VEEVYVLTEEGKKYAE 71 (489)
T ss_pred HHHHHHHHHHhC-CCCCHHHHHHHhCcCHHH------HHHHHHHHHhCCCEEEEee----eEEEEEECHHHHHHHH
Confidence 455666777654 689999999999999877 9999999999999998762 1356999999975443
No 310
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=88.31 E-value=0.36 Score=38.92 Aligned_cols=49 Identities=14% Similarity=0.177 Sum_probs=43.0
Q ss_pred HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..+..|+.+|..+ +.+|..|||+++|+++.. +.+=++-|...|++....
T Consensus 14 ~~D~~IL~~Lq~d-~R~s~~eiA~~lglS~~t------v~~Ri~rL~~~GvI~~~~ 62 (164)
T PRK11169 14 RIDRNILNELQKD-GRISNVELSKRVGLSPTP------CLERVRRLERQGFIQGYT 62 (164)
T ss_pred HHHHHHHHHhccC-CCCCHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEEEE
Confidence 3678899999885 799999999999999877 999999999999998543
No 311
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=88.27 E-value=0.56 Score=39.74 Aligned_cols=59 Identities=15% Similarity=0.194 Sum_probs=45.7
Q ss_pred hHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 40 DIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 40 d~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
..+... ..+|..|||+.+++++.. +.|.|+-|...|++.+.... ....+++|+.++.+.
T Consensus 14 g~l~~~-~~IS~~eLA~~L~iS~~T------vsr~Lk~LEe~GlI~R~~~~---r~~~v~LTekG~~ll 72 (217)
T PRK14165 14 GAVNNT-VKISSSEFANHTGTSSKT------AARILKQLEDEGYITRTIVP---RGQLITITEKGLDVL 72 (217)
T ss_pred hccCCC-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEEEcC---CceEEEECHHHHHHH
Confidence 344432 468999999999999877 99999999999999887521 135689999886443
No 312
>PF05891 Methyltransf_PK: AdoMet dependent proline di-methyltransferase; InterPro: IPR008576 This family consists of several eukaryotic proteins of unknown function that are S-adenosyl-L-methionine-dependent methyltransferase-like.; GO: 0008168 methyltransferase activity; PDB: 1XTP_A 2EX4_B.
Probab=88.20 E-value=0.5 Score=39.95 Aligned_cols=73 Identities=10% Similarity=-0.004 Sum_probs=42.8
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCe-EEEEccCCC--CCCC-ccEEEeccccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGV-SHVGGDMLN--AVPN-ADAVFMKVIVL 261 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri-~~~~gd~~~--~~p~-aD~~~l~~vLH 261 (266)
+..+.||+|+|.|.....++..+= -++-++|. +.-++.+++ ..++ ++...-+-+ |.++ ||+|++-+++-
T Consensus 55 ~~~~alDcGAGIGRVTk~lLl~~f-~~VDlVEp~~~Fl~~a~~~l~~~~~~v~~~~~~gLQ~f~P~~~~YDlIW~QW~lg 133 (218)
T PF05891_consen 55 KFNRALDCGAGIGRVTKGLLLPVF-DEVDLVEPVEKFLEQAKEYLGKDNPRVGEFYCVGLQDFTPEEGKYDLIWIQWCLG 133 (218)
T ss_dssp --SEEEEET-TTTHHHHHTCCCC--SEEEEEES-HHHHHHHHHHTCCGGCCEEEEEES-GGG----TT-EEEEEEES-GG
T ss_pred CcceEEecccccchhHHHHHHHhc-CEeEEeccCHHHHHHHHHHhcccCCCcceEEecCHhhccCCCCcEeEEEehHhhc
Confidence 578999999999999998876542 14556664 666665552 2343 333333333 3333 99999999987
Q ss_pred cCCC
Q 042491 262 IQDL 265 (266)
Q Consensus 262 d~~~ 265 (266)
+-+|
T Consensus 134 hLTD 137 (218)
T PF05891_consen 134 HLTD 137 (218)
T ss_dssp GS-H
T ss_pred cCCH
Confidence 6553
No 313
>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=88.04 E-value=0.41 Score=33.32 Aligned_cols=49 Identities=14% Similarity=0.188 Sum_probs=42.7
Q ss_pred HhcChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 34 VELRLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 34 ~elglfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.+..+++.|..+. .+++..||++.+|.+++. +...++.|...|++.+..
T Consensus 3 ~~~~~Le~I~rsR~~Gi~q~~L~~~~~~D~r~------i~~~~k~L~~~gLI~k~~ 52 (75)
T PF04182_consen 3 IQYCLLERIARSRYNGITQSDLSKLLGIDPRS------IFYRLKKLEKKGLIVKQS 52 (75)
T ss_pred hHHHHHHHHHhcCCCCEehhHHHHHhCCCchH------HHHHHHHHHHCCCEEEEE
Confidence 4556778887754 689999999999999988 999999999999999887
No 314
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=87.95 E-value=0.83 Score=39.55 Aligned_cols=60 Identities=13% Similarity=0.232 Sum_probs=48.2
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
+.-.|-.. |+.|+.|||+.+|+|..+ +..+|+-|...|++....+ .+..|+.-+....+.
T Consensus 21 vY~aLl~~-g~~tA~eis~~sgvP~~k------vY~vl~sLe~kG~v~~~~g----~P~~y~av~p~~~i~ 80 (247)
T COG1378 21 VYLALLCL-GEATAKEISEASGVPRPK------VYDVLRSLEKKGLVEVIEG----RPKKYRAVPPEELIE 80 (247)
T ss_pred HHHHHHHh-CCccHHHHHHHcCCCchh------HHHHHHHHHHCCCEEeeCC----CCceEEeCCHHHHHH
Confidence 44444443 799999999999999999 9999999999999998763 267898877655443
No 315
>PRK10742 putative methyltransferase; Provisional
Probab=87.89 E-value=1.4 Score=38.13 Aligned_cols=72 Identities=15% Similarity=0.191 Sum_probs=50.6
Q ss_pred HHHhhcccCCCCCc--eEEEecCCchHHHHHHHHHCCCCeEEEeecH-HHHh-------hCC------C--CCCeEEEEc
Q 042491 181 TLLSHYKDGFDGIR--SLVDVGGGTGEELAEIVEFYPHIKGVNFDLP-HVVA-------TAP------V--YEGVSHVGG 242 (266)
Q Consensus 181 ~~~~~~~~~~~~~~--~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp-~v~~-------~a~------~--~~ri~~~~g 242 (266)
.++.... +.+.. +|||.=+|.|..+..++.+ +.+++.+|.. .+.. .+. . ..|++++.+
T Consensus 77 ~l~kAvg--lk~g~~p~VLD~TAGlG~Da~~las~--G~~V~~vEr~p~vaalL~dgL~ra~~~~~~~~~~~~ri~l~~~ 152 (250)
T PRK10742 77 AVAKAVG--IKGDYLPDVVDATAGLGRDAFVLASV--GCRVRMLERNPVVAALLDDGLARGYADAEIGGWLQERLQLIHA 152 (250)
T ss_pred HHHHHhC--CCCCCCCEEEECCCCccHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHHhhhccccchhhhceEEEEeC
Confidence 3444444 44433 9999999999999999998 6779999983 3222 221 1 167999999
Q ss_pred cCCCC---CC-CccEEEe
Q 042491 243 DMLNA---VP-NADAVFM 256 (266)
Q Consensus 243 d~~~~---~p-~aD~~~l 256 (266)
|..+- .+ .+|+|++
T Consensus 153 da~~~L~~~~~~fDVVYl 170 (250)
T PRK10742 153 SSLTALTDITPRPQVVYL 170 (250)
T ss_pred cHHHHHhhCCCCCcEEEE
Confidence 97763 34 4999986
No 316
>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=87.72 E-value=1.1 Score=36.73 Aligned_cols=56 Identities=21% Similarity=0.289 Sum_probs=42.5
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC---------CCCeEEEEccCCC
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV---------YEGVSHVGGDMLN 246 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~---------~~ri~~~~gd~~~ 246 (266)
++...||-+|||-=+..-.+...+|+++..=+|+|++++..++ ..++++++.|+.+
T Consensus 77 ~~~~qvV~LGaGlDTr~~Rl~~~~~~~~~~evD~p~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~~ 141 (183)
T PF04072_consen 77 PGARQVVNLGAGLDTRAYRLDNPAGGVRWFEVDLPEVIALKRRLLPESGARPPANYRYVPADLRD 141 (183)
T ss_dssp TTESEEEEET-TT--HHHHHHHTTTTEEEEEEE-HHHHHHHHHHHHHTHHHHHEESSEEES-TTS
T ss_pred CCCcEEEEcCCCCCchHHHhhccccceEEEEeCCHHHHHHHHHHHHhCcccCCcceeEEeccccc
Confidence 3567999999999999999999999999999999999886553 1236789999997
No 317
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=87.61 E-value=0.95 Score=31.68 Aligned_cols=41 Identities=20% Similarity=0.264 Sum_probs=25.9
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
++..|+. |.|+|..+||..+|.+ +.++-.+|...-=.+.++
T Consensus 29 LLr~LA~-G~PVt~~~LA~a~g~~---------~e~v~~~L~~~p~tEyD~ 69 (77)
T PF12324_consen 29 LLRLLAK-GQPVTVEQLAAALGWP---------VEEVRAALAAMPDTEYDD 69 (77)
T ss_dssp HHHHHTT-TS-B-HHHHHHHHT-----------HHHHHHHHHH-TTSEEET
T ss_pred HHHHHHc-CCCcCHHHHHHHHCCC---------HHHHHHHHHhCCCceEcC
Confidence 7788887 8999999999999997 555555555543344443
No 318
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=87.23 E-value=0.51 Score=37.21 Aligned_cols=48 Identities=19% Similarity=0.305 Sum_probs=43.1
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.+..|...|..+ ++.|..+||+++|+++.. +.+-++-|...|++....
T Consensus 9 ~D~~IL~~L~~d-~r~~~~eia~~lglS~~~------v~~Ri~~L~~~GiI~~~~ 56 (154)
T COG1522 9 IDRRILRLLQED-ARISNAELAERVGLSPST------VLRRIKRLEEEGVIKGYT 56 (154)
T ss_pred HHHHHHHHHHHh-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCceeeEE
Confidence 466788899885 789999999999999888 999999999999999886
No 319
>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=87.01 E-value=0.7 Score=38.36 Aligned_cols=48 Identities=17% Similarity=0.331 Sum_probs=38.5
Q ss_pred hcChhhHhhh----CCCCCCHHHHHhhcCCC-CCCCCchhhHHHHHHHHhccCcccccc
Q 042491 35 ELRLADIMHC----HGSPITLPQLASGINSS-CPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 35 elglfd~L~~----~g~~~t~~eLA~~~g~~-~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
+..|++.|.+ .+-+.|..|||+.+|++ ... +.+.|+.|...|++....
T Consensus 8 q~~iL~~l~~~~~~~~~~~~~~ela~~~~~~s~~t------v~~~l~~L~~~g~i~~~~ 60 (199)
T TIGR00498 8 QQEVLDLIRAHIESTGYPPSIREIARAVGLRSPSA------AEEHLKALERKGYIERDP 60 (199)
T ss_pred HHHHHHHHHHHHHhcCCCCcHHHHHHHhCCCChHH------HHHHHHHHHHCCCEecCC
Confidence 4445555553 24578999999999998 666 999999999999999987
No 320
>KOG2730 consensus Methylase [General function prediction only]
Probab=86.97 E-value=0.49 Score=40.12 Aligned_cols=53 Identities=23% Similarity=0.332 Sum_probs=42.0
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCC
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLN 246 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~ 246 (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 5578999999999999999999996 555566 444555543 5799999999997
No 321
>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=86.96 E-value=1.2 Score=37.36 Aligned_cols=55 Identities=18% Similarity=0.366 Sum_probs=35.4
Q ss_pred CCceEEEec---CCchHHHHHHHHHC-CCCeEEEeec--HH----HHhhCCCCCCeEEEEccCCC
Q 042491 192 GIRSLVDVG---GGTGEELAEIVEFY-PHIKGVNFDL--PH----VVATAPVYEGVSHVGGDMLN 246 (266)
Q Consensus 192 ~~~~vvDvG---gG~G~~~~~l~~~~-P~l~~~~~Dl--p~----v~~~a~~~~ri~~~~gd~~~ 246 (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 568999999 78888888888888 8889999998 22 22211115999999999876
No 322
>KOG0822 consensus Protein kinase inhibitor [Cell cycle control, cell division, chromosome partitioning]
Probab=86.92 E-value=3.2 Score=39.71 Aligned_cols=97 Identities=16% Similarity=0.294 Sum_probs=64.9
Q ss_pred CcchhcccCchHHHHHHHHHHhhhHHHHHHHHhhcccCC-CCCceEEEecCCchHHHHHHHHHCCC----CeEEEeec-H
Q 042491 152 EMWDFASQNSQFNNSFNKAMACTAKIVMSTLLSHYKDGF-DGIRSLVDVGGGTGEELAEIVEFYPH----IKGVNFDL-P 225 (266)
Q Consensus 152 ~~~~~~~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~-~~~~~vvDvGgG~G~~~~~l~~~~P~----l~~~~~Dl-p 225 (266)
.-|+-+++||-.-..|++++ ...+++..++.- +..+.|.-+|+|.|-+..+.+++--. ++...++- |
T Consensus 333 ~TYetFEkD~VKY~~Yq~Ai-------~~AL~Drvpd~~a~~~tVimvlGaGRGPLv~~~lkaa~~~~RkVklyavEKNP 405 (649)
T KOG0822|consen 333 QTYETFEKDPVKYDQYQQAI-------LKALLDRVPDESAKTTTVIMVLGAGRGPLVDASLKAAEETDRKVKLYAVEKNP 405 (649)
T ss_pred hhhhhhhccchHHHHHHHHH-------HHHHHhhCcccccCceEEEEEecCCCccHHHHHHHHHHHhcCceEEEEEecCc
Confidence 45777888887767777765 334555555321 23577888999999998776665433 34455543 6
Q ss_pred HHHhhCCC------CCCeEEEEccCCC-CCC--CccEEE
Q 042491 226 HVVATAPV------YEGVSHVGGDMLN-AVP--NADAVF 255 (266)
Q Consensus 226 ~v~~~a~~------~~ri~~~~gd~~~-~~p--~aD~~~ 255 (266)
.++..... .+||+.+..||.+ .-| ++|+++
T Consensus 406 NAivtL~~~n~~~W~~~Vtii~~DMR~w~ap~eq~DI~V 444 (649)
T KOG0822|consen 406 NAIVTLQNRNFECWDNRVTIISSDMRKWNAPREQADIIV 444 (649)
T ss_pred chhhhhhhhchhhhcCeeEEEeccccccCCchhhccchH
Confidence 66654442 7899999999998 344 388753
No 323
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=86.69 E-value=0.64 Score=44.16 Aligned_cols=70 Identities=13% Similarity=0.161 Sum_probs=55.6
Q ss_pred HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch-hhhcCC
Q 042491 33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK-WLLRDS 111 (266)
Q Consensus 33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~-~l~~~~ 111 (266)
..+..|+..|...++..+..+||+.+|++... +.+.+..|.+.|+++-.... ...|.+|+.++ ++..+.
T Consensus 6 ~~e~~iL~~l~~~~~~~~~~~la~~~~~~~~~------v~~~~~~L~~kg~v~~~~~~----~~~~~LT~eG~~~~~~G~ 75 (494)
T PTZ00326 6 LEENTILSKLESENEIVNSLALAESLNIDHQK------VVGAIKSLESANYITTEMKK----SNTWTLTEEGEDYLKNGS 75 (494)
T ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHcCCCHHH------HHHHHHHHHhCCCEEEEEEE----EEEEEECHHHHHHHHcCC
Confidence 34556777777533579999999999998877 99999999999999877642 46899999997 666666
Q ss_pred C
Q 042491 112 E 112 (266)
Q Consensus 112 ~ 112 (266)
|
T Consensus 76 P 76 (494)
T PTZ00326 76 P 76 (494)
T ss_pred H
Confidence 5
No 324
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=86.68 E-value=0.68 Score=32.51 Aligned_cols=44 Identities=14% Similarity=0.286 Sum_probs=38.9
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|=|.|+.+ +..++.+||..++++++. ++..|..++..|-+.+..
T Consensus 7 lRd~l~~~-gr~s~~~Ls~~~~~p~~~------VeaMLe~l~~kGkverv~ 50 (78)
T PRK15431 7 VRDLLALR-GRMEAAQISQTLNTPQPM------INAMLQQLESMGKAVRIQ 50 (78)
T ss_pred HHHHHHHc-CcccHHHHHHHHCcCHHH------HHHHHHHHHHCCCeEeec
Confidence 44677775 789999999999999876 999999999999999886
No 325
>PF11968 DUF3321: Putative methyltransferase (DUF3321); InterPro: IPR021867 This family is conserved in fungi and is annotated as being a nucleolar protein.
Probab=86.55 E-value=1.1 Score=37.92 Aligned_cols=62 Identities=13% Similarity=0.178 Sum_probs=44.9
Q ss_pred CceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCC-CCC-----CccEEEeccccccCCC
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN-AVP-----NADAVFMKVIVLIQDL 265 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~-~~p-----~aD~~~l~~vLHd~~~ 265 (266)
.-++||||+=+....+. .++-+.++-+|+-.. .+ .+...||++ |+| .||+|.++-||..-++
T Consensus 52 ~lrlLEVGals~~N~~s---~~~~fdvt~IDLns~------~~--~I~qqDFm~rplp~~~~e~FdvIs~SLVLNfVP~ 119 (219)
T PF11968_consen 52 KLRLLEVGALSTDNACS---TSGWFDVTRIDLNSQ------HP--GILQQDFMERPLPKNESEKFDVISLSLVLNFVPD 119 (219)
T ss_pred cceEEeecccCCCCccc---ccCceeeEEeecCCC------CC--CceeeccccCCCCCCcccceeEEEEEEEEeeCCC
Confidence 46999999876654443 456677888898541 12 446689999 887 2999999999976553
No 326
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=86.51 E-value=1.9 Score=35.03 Aligned_cols=56 Identities=16% Similarity=0.256 Sum_probs=42.2
Q ss_pred HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 32 SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 32 ~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
+-.+.-|++.|...++++|++||.+.+.-... +.....+.|.|+.|...|++.+..
T Consensus 25 T~qR~~IL~~l~~~~~hlSa~eI~~~L~~~~~-~is~aTVYRtL~~L~e~Glv~~~~ 80 (169)
T PRK11639 25 TPQRLEVLRLMSLQPGAISAYDLLDLLREAEP-QAKPPTVYRALDFLLEQGFVHKVE 80 (169)
T ss_pred CHHHHHHHHHHHhcCCCCCHHHHHHHHHhhCC-CCCcchHHHHHHHHHHCCCEEEEe
Confidence 44556688888765579999999998853211 122455999999999999999986
No 327
>PHA02943 hypothetical protein; Provisional
Probab=86.46 E-value=0.64 Score=36.86 Aligned_cols=44 Identities=11% Similarity=0.127 Sum_probs=38.6
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|.+.|.. |+.|..|||+++|++-.. ++-.|..|...|.+.+..
T Consensus 15 eILE~Lk~--G~~TtseIAkaLGlS~~q------a~~~LyvLErEG~VkrV~ 58 (165)
T PHA02943 15 KTLRLLAD--GCKTTSRIANKLGVSHSM------ARNALYQLAKEGMVLKVE 58 (165)
T ss_pred HHHHHHhc--CCccHHHHHHHHCCCHHH------HHHHHHHHHHcCceEEEe
Confidence 46667743 789999999999999887 999999999999999887
No 328
>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=86.35 E-value=0.26 Score=34.00 Aligned_cols=43 Identities=21% Similarity=0.268 Sum_probs=36.2
Q ss_pred hhhHhhhCCCCCCHHHHHhhc---CC--CCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 38 LADIMHCHGSPITLPQLASGI---NS--SCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~---g~--~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
+|...+. +.+++.++|+.+ +. ..++ +.-++.+|.+.|++++.+
T Consensus 16 ~~~~~~~--~~i~l~~ia~~l~~~~~k~~~RR------lYDI~NVLealgli~K~~ 63 (71)
T PF02319_consen 16 LFESSPD--KSISLNEIADKLISENVKTQRRR------LYDIINVLEALGLIEKQS 63 (71)
T ss_dssp HHHHCCC--TEEEHHHHHHHCHHHCCHHHCHH------HHHHHHHHHHCTSEEEEE
T ss_pred HHHHCCC--CcccHHHHHHHHcccccccccch------hhHHHHHHHHhCceeecC
Confidence 3444443 789999999999 98 7777 999999999999999966
No 329
>COG1733 Predicted transcriptional regulators [Transcription]
Probab=86.20 E-value=1 Score=34.43 Aligned_cols=79 Identities=18% Similarity=0.175 Sum_probs=57.6
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcC-CCCCCCCchhhHHHHHHHHhccCcccccccCC
Q 042491 13 GQAQVWQLMFAFADSMALKSAVELRLADIMHCHGSPITLPQLASGIN-SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSD 91 (266)
Q Consensus 13 ~~~~l~~~~~g~~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g-~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~ 91 (266)
+.+...+++.+=|..-+|+.. .. ++....||-..++ +++.- |.+-|+.|...|++.+..-.+
T Consensus 12 ~~~~~l~~ig~kW~~lIl~~L---------~~--g~~RF~eL~r~i~~Is~k~------Ls~~Lk~Le~~Glv~R~~~~~ 74 (120)
T COG1733 12 PVEEALEVIGGKWTLLILRDL---------FD--GPKRFNELRRSIGGISPKM------LSRRLKELEEDGLVERVVYPE 74 (120)
T ss_pred CHHHHHHHHcCccHHHHHHHH---------hc--CCCcHHHHHHHccccCHHH------HHHHHHHHHHCCCEEeeecCC
Confidence 455666666666666665543 32 6888999999987 88766 999999999999999887421
Q ss_pred CCCCceEeCchhchhhh
Q 042491 92 GSEETMYGLTQISKWLL 108 (266)
Q Consensus 92 ~~g~~~y~lt~~s~~l~ 108 (266)
-+-.-.|++|+.++.|.
T Consensus 75 ~PprveY~LT~~G~~L~ 91 (120)
T COG1733 75 EPPRVEYRLTEKGRDLL 91 (120)
T ss_pred CCceeEEEEhhhHHHHH
Confidence 11234699999987655
No 330
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=86.14 E-value=0.58 Score=37.94 Aligned_cols=44 Identities=20% Similarity=0.283 Sum_probs=39.7
Q ss_pred CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 49 ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 49 ~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
.|..+||+.+|++... +.|.+..|...+|+.+.. .|.|.++|.-
T Consensus 76 ~t~~~ia~~l~iS~~T------v~r~ik~L~e~~iI~k~~------~G~Y~iNP~~ 119 (165)
T PF05732_consen 76 ATQKEIAEKLGISKPT------VSRAIKELEEKNIIKKIR------NGAYMINPNF 119 (165)
T ss_pred eeHHHHHHHhCCCHHH------HHHHHHHHHhCCcEEEcc------CCeEEECcHH
Confidence 5899999999999776 999999999999999987 5999999953
No 331
>KOG3924 consensus Putative protein methyltransferase involved in meiosis and transcriptional silencing (Dot1) [Cell cycle control, cell division, chromosome partitioning; Transcription]
Probab=85.98 E-value=1 Score=41.36 Aligned_cols=73 Identities=18% Similarity=0.374 Sum_probs=52.5
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec---HHHHhhCCC-------------CCCeEEEEccCCCC------
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL---PHVVATAPV-------------YEGVSHVGGDMLNA------ 247 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl---p~v~~~a~~-------------~~ri~~~~gd~~~~------ 247 (266)
......++|+|+|.|.....++...-.-+-+++++ |.-+...+. ...++.+.|+|..+
T Consensus 190 ~g~~D~F~DLGSGVGqlv~~~aa~a~~k~svG~eim~~pS~~a~~~~~~~kk~~k~fGk~~~~~~~i~gsf~~~~~v~eI 269 (419)
T KOG3924|consen 190 LGPADVFMDLGSGVGQLVCFVAAYAGCKKSVGFEIMDKPSQCAELNKEEFKKLMKHFGKKPNKIETIHGSFLDPKRVTEI 269 (419)
T ss_pred cCCCCcccCCCcccchhhHHHHHhhccccccceeeecCcHHHHHHHHHHHHHHHHHhCCCcCceeecccccCCHHHHHHH
Confidence 45678999999999999988777665555555554 444433321 34588899999984
Q ss_pred CCCccEEEecccccc
Q 042491 248 VPNADAVFMKVIVLI 262 (266)
Q Consensus 248 ~p~aD~~~l~~vLHd 262 (266)
.++|+++++.++.-|
T Consensus 270 ~~eatvi~vNN~~Fd 284 (419)
T KOG3924|consen 270 QTEATVIFVNNVAFD 284 (419)
T ss_pred hhcceEEEEecccCC
Confidence 356999999988654
No 332
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=85.15 E-value=0.7 Score=38.88 Aligned_cols=45 Identities=20% Similarity=0.297 Sum_probs=37.1
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|.+.|...+.+.|++|+|+++|++.-. .+|-|.+|++.|+++..-
T Consensus 163 i~~~~~~~~~~~Taeela~~~giSRvT------aRRYLeyl~~~~~l~a~i 207 (224)
T COG4565 163 VREALKEPDQELTAEELAQALGISRVT------ARRYLEYLVSNGILEAEI 207 (224)
T ss_pred HHHHHhCcCCccCHHHHHHHhCccHHH------HHHHHHHHHhcCeeeEEe
Confidence 445555334799999999999998766 999999999999998654
No 333
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=85.12 E-value=0.91 Score=39.84 Aligned_cols=53 Identities=15% Similarity=0.194 Sum_probs=42.2
Q ss_pred hHhhhCCCCCCHHHHHhhcC--CCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 40 DIMHCHGSPITLPQLASGIN--SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 40 d~L~~~g~~~t~~eLA~~~g--~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
++++..++..++.+||++++ ++... ++.-|..|...|++++++ +|.|..|..+
T Consensus 129 el~~~~~~~~~~~~ia~~l~p~is~~e------v~~sL~~L~~~glikk~~------~g~y~~t~~~ 183 (271)
T TIGR02147 129 ELLGVMPFADDPEELAKRCFPKISAEQ------VKESLDLLERLGLIKKNE------DGFYKQTDKA 183 (271)
T ss_pred HHhhcCCCCCCHHHHHHHhCCCCCHHH------HHHHHHHHHHCCCeeECC------CCcEEeecce
Confidence 33433324447899999999 66666 999999999999999998 5899998865
No 334
>KOG2793 consensus Putative N2,N2-dimethylguanosine tRNA methyltransferase [RNA processing and modification]
Probab=85.02 E-value=2.4 Score=36.68 Aligned_cols=70 Identities=24% Similarity=0.227 Sum_probs=47.4
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC------------CCCeEEEEccCCCC------CCC-cc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV------------YEGVSHVGGDMLNA------VPN-AD 252 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~------------~~ri~~~~gd~~~~------~p~-aD 252 (266)
....+|.+|+|+| +...++.......++.-|.|.+++..+. ...+.+..-++-.+ .|. +|
T Consensus 86 ~~~~vlELGsGtg-lvG~~aa~~~~~~v~ltD~~~~~~~L~~~~~~~~~~l~~~g~~v~v~~L~Wg~~~~~~~~~~~~~D 164 (248)
T KOG2793|consen 86 KYINVLELGSGTG-LVGILAALLLGAEVVLTDLPKVVENLKFNRDKNNIALNQLGGSVIVAILVWGNALDVSFRLPNPFD 164 (248)
T ss_pred cceeEEEecCCcc-HHHHHHHHHhcceeccCCchhhHHHHHHhhhhhhhhhhhcCCceeEEEEecCCcccHhhccCCccc
Confidence 4678999999999 4444445556778888899888765442 23555555555442 234 79
Q ss_pred EEEecccccc
Q 042491 253 AVFMKVIVLI 262 (266)
Q Consensus 253 ~~~l~~vLHd 262 (266)
+++.+.++.+
T Consensus 165 lilasDvvy~ 174 (248)
T KOG2793|consen 165 LILASDVVYE 174 (248)
T ss_pred EEEEeeeeec
Confidence 9999888764
No 335
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=85.02 E-value=3 Score=39.16 Aligned_cols=72 Identities=21% Similarity=0.247 Sum_probs=51.2
Q ss_pred HHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEccCCC--C-CC-
Q 042491 181 TLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGDMLN--A-VP- 249 (266)
Q Consensus 181 ~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd~~~--~-~p- 249 (266)
.+++..+ ..+..+|+|+=||.|.++..|+++. -++++.|. |+.++.+++ -++++|+.+|-.+ + +.
T Consensus 284 ~a~~~~~--~~~~~~vlDlYCGvG~f~l~lA~~~--~~V~gvEi~~~aV~~A~~NA~~n~i~N~~f~~~~ae~~~~~~~~ 359 (432)
T COG2265 284 TALEWLE--LAGGERVLDLYCGVGTFGLPLAKRV--KKVHGVEISPEAVEAAQENAAANGIDNVEFIAGDAEEFTPAWWE 359 (432)
T ss_pred HHHHHHh--hcCCCEEEEeccCCChhhhhhcccC--CEEEEEecCHHHHHHHHHHHHHcCCCcEEEEeCCHHHHhhhccc
Confidence 3444444 3456799999999999999999553 46777786 777766653 4569999999776 2 32
Q ss_pred --CccEEEe
Q 042491 250 --NADAVFM 256 (266)
Q Consensus 250 --~aD~~~l 256 (266)
.+|++++
T Consensus 360 ~~~~d~Vvv 368 (432)
T COG2265 360 GYKPDVVVV 368 (432)
T ss_pred cCCCCEEEE
Confidence 3787765
No 336
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=85.02 E-value=0.8 Score=42.69 Aligned_cols=45 Identities=13% Similarity=0.238 Sum_probs=38.6
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
|++.|.++|+++++++++. ++++|..|...|++.+.+ ++.|.+..
T Consensus 308 g~~~t~~~La~~l~~~~~~------v~~iL~~L~~agLI~~~~------~g~~~l~r 352 (412)
T PRK04214 308 GKALDVDEIRRLEPMGYDE------LGELLCELARIGLLRRGE------RGQWVLAR 352 (412)
T ss_pred CCCCCHHHHHHHhCCCHHH------HHHHHHHHHhCCCeEecC------CCceEecC
Confidence 5799999999999999877 999999999999999765 36676543
No 337
>PF03059 NAS: Nicotianamine synthase protein; InterPro: IPR004298 Nicotianamine synthase 2.5.1.43 from EC catalyzes the trimerization of S-adenosylmethionine to yield one molecule of nicotianamine. Nicotianamine has an important role in plant iron uptake mechanisms. Plants adopt two strategies (termed I and II) of iron acquisition. Strategy I is adopted by all higher plants except graminaceous plants, which adopt strategy II [, ]. In strategy I plants, the role of nicotianamine is not fully determined: possible roles include the formation of more stable complexes with ferrous than with ferric ion, which might serve as a sensor of the physiological status of iron within a plant, or which might be involved in the transport of iron []. In strategy II (graminaceous) plants, nicotianamine is the key intermediate (and nicotianamine synthase the key enzyme) in the synthesis of the mugineic family (the only known family in plants) of phytosiderophores. Phytosiderophores are iron chelators whose secretion by the roots is greatly increased in instances of iron deficiency []. The 3D structures of five example NAS from Methanothermobacter thermautotrophicus reveal the monomer to consist of a five-helical bundle N-terminal domain on top of a classic Rossmann fold C-terminal domain. The N-terminal domain is unique to the NAS family, whereas the C-terminal domain is homologous to the class I family of SAM-dependent methyltransferases. An active site is created at the interface of the two domains, at the rim of a large cavity that corresponds to the nucleotide binding site such as is found in other proteins adopting a Rossmann fold [].; GO: 0030410 nicotianamine synthase activity, 0030418 nicotianamine biosynthetic process; PDB: 3O31_B 3FPH_A 3FPJ_A 3FPE_B 3FPF_B 3FPG_B.
Probab=84.76 E-value=1.7 Score=38.18 Aligned_cols=68 Identities=19% Similarity=0.264 Sum_probs=37.6
Q ss_pred CCceEEEecCCchHHH-HHHHHHC-CCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCC---CCCCccEEEec
Q 042491 192 GIRSLVDVGGGTGEEL-AEIVEFY-PHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLN---AVPNADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~-~~l~~~~-P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~---~~p~aD~~~l~ 257 (266)
.+.+|+=||+|.==+. ..+++.+ ++.+++++|. |+.++.+++ ..|++|+.+|..+ ++.++|+|++.
T Consensus 120 ~p~rVaFIGSGPLPlT~i~la~~~~~~~~v~~iD~d~~A~~~a~~lv~~~~~L~~~m~f~~~d~~~~~~dl~~~DvV~lA 199 (276)
T PF03059_consen 120 PPSRVAFIGSGPLPLTSIVLAKQHGPGARVHNIDIDPEANELARRLVASDLGLSKRMSFITADVLDVTYDLKEYDVVFLA 199 (276)
T ss_dssp ---EEEEE---SS-HHHHHHH--HTT--EEEEEESSHHHHHHHHHHHH---HH-SSEEEEES-GGGG-GG----SEEEE-
T ss_pred ccceEEEEcCCCcchHHHHHHHHhCCCCeEEEEeCCHHHHHHHHHHHhhcccccCCeEEEecchhccccccccCCEEEEh
Confidence 4579999999965554 4455444 7889999998 666665543 7899999999876 24579999986
Q ss_pred cc
Q 042491 258 VI 259 (266)
Q Consensus 258 ~v 259 (266)
-.
T Consensus 200 al 201 (276)
T PF03059_consen 200 AL 201 (276)
T ss_dssp TT
T ss_pred hh
Confidence 53
No 338
>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=84.68 E-value=0.39 Score=35.66 Aligned_cols=45 Identities=20% Similarity=0.306 Sum_probs=33.9
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|++.|... +.++-++||+.+|+++.. ++++|..|...|++....
T Consensus 17 ~Il~~L~~~-~~l~de~la~~~~l~~~~------vRkiL~~L~~~~lv~~~~ 61 (105)
T PF02002_consen 17 RILDALLRK-GELTDEDLAKKLGLKPKE------VRKILYKLYEDGLVSYRR 61 (105)
T ss_dssp HHHHHHHHH---B-HHHHHHTT-S-HHH------HHHHHHHHHHHSS-EEEE
T ss_pred HHHHHHHHc-CCcCHHHHHHHhCCCHHH------HHHHHHHHHHCCCeEEEE
Confidence 368888764 689999999999999877 999999999999997665
No 339
>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=84.41 E-value=1.2 Score=35.02 Aligned_cols=47 Identities=13% Similarity=0.186 Sum_probs=40.1
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
|+.|++|||.+.|+..++ +..-|-++++.|-|.+.+.. |.=+|+++.
T Consensus 5 Ga~T~eELA~~FGvttRk------vaStLa~~ta~Grl~Rv~q~---gkfRy~iPg 51 (155)
T PF07789_consen 5 GAKTAEELAGKFGVTTRK------VASTLAMVTATGRLIRVNQN---GKFRYCIPG 51 (155)
T ss_pred CcccHHHHHHHhCcchhh------hHHHHHHHHhcceeEEecCC---CceEEeCCC
Confidence 899999999999999999 99999999999999998852 233577753
No 340
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=84.17 E-value=1.6 Score=41.50 Aligned_cols=51 Identities=20% Similarity=0.288 Sum_probs=40.1
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEc
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGG 242 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~g 242 (266)
++.-+.++||-||+|.++.++++..- +++++++ |+.++.|+. -.+.+|+.|
T Consensus 381 l~~~k~llDv~CGTG~iglala~~~~--~ViGvEi~~~aV~dA~~nA~~NgisNa~Fi~g 438 (534)
T KOG2187|consen 381 LPADKTLLDVCCGTGTIGLALARGVK--RVIGVEISPDAVEDAEKNAQINGISNATFIVG 438 (534)
T ss_pred CCCCcEEEEEeecCCceehhhhcccc--ceeeeecChhhcchhhhcchhcCccceeeeec
Confidence 45569999999999999999988754 6777765 777776664 467788888
No 341
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=84.09 E-value=1.1 Score=37.85 Aligned_cols=36 Identities=19% Similarity=0.192 Sum_probs=31.4
Q ss_pred HHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCC
Q 042491 25 ADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPD 64 (266)
Q Consensus 25 ~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~ 64 (266)
..-.+|+.|.++|-||. + ..++..|||+.+|+++..
T Consensus 159 rQ~~vL~~A~~~GYFd~-P---R~~~l~dLA~~lGISkst 194 (215)
T COG3413 159 RQLEVLRLAYKMGYFDY-P---RRVSLKDLAKELGISKST 194 (215)
T ss_pred HHHHHHHHHHHcCCCCC-C---ccCCHHHHHHHhCCCHHH
Confidence 46789999999999998 5 469999999999998754
No 342
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=83.81 E-value=0.47 Score=34.96 Aligned_cols=48 Identities=8% Similarity=0.234 Sum_probs=37.8
Q ss_pred HhcChhhHhhh---CCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccc
Q 042491 34 VELRLADIMHC---HGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAH 87 (266)
Q Consensus 34 ~elglfd~L~~---~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~ 87 (266)
+.-.|++.|.. ...++++++|+++++++... ++..++.|...|++-..
T Consensus 48 ~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~~~~~------v~~al~~L~~eG~IYsT 98 (102)
T PF08784_consen 48 LQDKVLNFIKQQPNSEEGVHVDEIAQQLGMSENE------VRKALDFLSNEGHIYST 98 (102)
T ss_dssp HHHHHHHHHHC----TTTEEHHHHHHHSTS-HHH------HHHHHHHHHHTTSEEES
T ss_pred HHHHHHHHHHhcCCCCCcccHHHHHHHhCcCHHH------HHHHHHHHHhCCeEecc
Confidence 34557777765 23679999999999999888 99999999999988654
No 343
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=83.66 E-value=1.1 Score=38.41 Aligned_cols=83 Identities=14% Similarity=0.234 Sum_probs=56.9
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch-hhhcCCCCChHHHHHHhcCh
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK-WLLRDSEMSLAPMILFQNSQ 125 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~-~l~~~~~~~~~~~~~~~~~~ 125 (266)
..+...|||+++|+.+.. +...++-|+..|++++.+ .++|..|..+. ++.. .-..++.+..+....
T Consensus 24 p~v~q~eIA~~lgiT~Qa------VsehiK~Lv~eG~i~~~g------R~~Y~iTkkG~e~l~~-~~~dlr~f~~ev~~~ 90 (260)
T COG1497 24 PRVKQKEIAKKLGITLQA------VSEHIKELVKEGLIEKEG------RGEYEITKKGAEWLLE-QLSDLRRFSEEVELV 90 (260)
T ss_pred CCCCHHHHHHHcCCCHHH------HHHHHHHHHhccceeecC------CeeEEEehhHHHHHHH-HHHHHHHHHHHHHHH
Confidence 567999999999998776 999999999999999977 57999999985 4442 212344444433110
Q ss_pred -hhhhhhhhhHH-HHhcCC
Q 042491 126 -LLQAPCHHLSQ-CVEEGG 142 (266)
Q Consensus 126 -~~~~~~~~l~~-~l~~~~ 142 (266)
.+...|..++. -+++|.
T Consensus 91 l~~~~vw~AIA~edI~~Gd 109 (260)
T COG1497 91 LDYVMVWTAIAKEDIKEGD 109 (260)
T ss_pred HhhHHHHHHhhHhhhccCC
Confidence 12346766654 355553
No 344
>PRK00215 LexA repressor; Validated
Probab=83.59 E-value=1.3 Score=36.99 Aligned_cols=37 Identities=22% Similarity=0.333 Sum_probs=33.7
Q ss_pred CCCCCHHHHHhhcCC-CCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPITLPQLASGINS-SCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~t~~eLA~~~g~-~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
+.+.|..|||+.+|+ +... +.|+|+.|...|++.+..
T Consensus 21 ~~~~s~~ela~~~~~~~~~t------v~~~l~~L~~~g~i~~~~ 58 (205)
T PRK00215 21 GYPPSRREIADALGLRSPSA------VHEHLKALERKGFIRRDP 58 (205)
T ss_pred CCCCCHHHHHHHhCCCChHH------HHHHHHHHHHCCCEEeCC
Confidence 468899999999999 7766 999999999999998887
No 345
>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=83.50 E-value=1.7 Score=39.55 Aligned_cols=60 Identities=17% Similarity=0.237 Sum_probs=39.3
Q ss_pred HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC------CCCeEEEEcc
Q 042491 179 MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV------YEGVSHVGGD 243 (266)
Q Consensus 179 ~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~------~~ri~~~~gd 243 (266)
...+++.++ ..+ ..|+|+=||.|.++..+++..- +++++|. ++.++.|+. -++++|+.++
T Consensus 186 ~~~~~~~l~--~~~-~~vlDlycG~G~fsl~la~~~~--~V~gvE~~~~av~~A~~Na~~N~i~n~~f~~~~ 252 (352)
T PF05958_consen 186 YEQALEWLD--LSK-GDVLDLYCGVGTFSLPLAKKAK--KVIGVEIVEEAVEDARENAKLNGIDNVEFIRGD 252 (352)
T ss_dssp HHHHHHHCT--T-T-TEEEEES-TTTCCHHHHHCCSS--EEEEEES-HHHHHHHHHHHHHTT--SEEEEE--
T ss_pred HHHHHHHhh--cCC-CcEEEEeecCCHHHHHHHhhCC--eEEEeeCCHHHHHHHHHHHHHcCCCcceEEEee
Confidence 334455444 333 3799999999999999998875 5777786 677766653 4678888654
No 346
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=83.33 E-value=0.9 Score=34.50 Aligned_cols=36 Identities=17% Similarity=0.214 Sum_probs=34.2
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.++|++|||+.+.++++. ++.+|+-|...|.+....
T Consensus 18 ~~vtl~elA~~l~cS~Rn------~r~lLkkm~~~gWi~W~p 53 (115)
T PF12793_consen 18 VEVTLDELAELLFCSRRN------ARTLLKKMQEEGWITWQP 53 (115)
T ss_pred cceeHHHHHHHhCCCHHH------HHHHHHHHHHCCCeeeeC
Confidence 578999999999999988 999999999999999998
No 347
>COG1565 Uncharacterized conserved protein [Function unknown]
Probab=83.17 E-value=3.5 Score=37.52 Aligned_cols=59 Identities=19% Similarity=0.318 Sum_probs=38.5
Q ss_pred CchHHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHH----CC----CCeEEEeec
Q 042491 160 NSQFNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEF----YP----HIKGVNFDL 224 (266)
Q Consensus 160 ~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~----~P----~l~~~~~Dl 224 (266)
-|+..+.|-+.++..- . .++.... .+..-.+|++|.|+|.++.-+++. +| .+++.+++.
T Consensus 51 Apels~lFGella~~~---~-~~wq~~g--~p~~~~lvEiGaG~G~l~~DiL~~l~~L~P~~~~~~~~~iiE~ 117 (370)
T COG1565 51 APELSQLFGELLAEQF---L-QLWQELG--RPAPLKLVEIGAGRGTLASDILRTLRRLYPELYEALSYYIIEP 117 (370)
T ss_pred chhHHHHHHHHHHHHH---H-HHHHHhc--CCCCceEEEeCCCcChHHHHHHHHHHHhCHHHHhcceEEEEec
Confidence 4677777777664331 1 1222222 345678999999999999776654 46 457788886
No 348
>COG5631 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]
Probab=82.91 E-value=3.9 Score=32.84 Aligned_cols=76 Identities=21% Similarity=0.327 Sum_probs=58.1
Q ss_pred HHhHHHHHHHHHHHhcC-------hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCC
Q 042491 21 MFAFADSMALKSAVELR-------LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGS 93 (266)
Q Consensus 21 ~~g~~~~~~L~~a~elg-------lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~ 93 (266)
.++.|...|+.+|.+.+ |.-++...+.++++.+|+..++.+.- ..+..-||-|...|+++..+.
T Consensus 64 Af~rW~vrCmAaag~~~ls~~e~l~lH~irhrdR~K~laDic~~ln~eDt-----h~itYslrKL~k~gLit~t~~---- 134 (199)
T COG5631 64 AFGRWQVRCMAAAGEFSLSGPENLLLHIIRHRDRPKSLADICQMLNREDT-----HNITYSLRKLLKGGLITRTGS---- 134 (199)
T ss_pred HHHHHHHHHHHHhcCCCCcchHHHHHHHHhhcCchhhHHHHHHHhccccc-----hhHHHHHHHHHhccceecCCC----
Confidence 45778888888887765 34455555689999999999998643 357888999999999998872
Q ss_pred C-CceEeCchhch
Q 042491 94 E-ETMYGLTQISK 105 (266)
Q Consensus 94 g-~~~y~lt~~s~ 105 (266)
| +-.|..|+++.
T Consensus 135 gkevTy~vTa~G~ 147 (199)
T COG5631 135 GKEVTYEVTALGH 147 (199)
T ss_pred CceEEEEEecchH
Confidence 2 23699999874
No 349
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=82.54 E-value=8 Score=27.79 Aligned_cols=64 Identities=8% Similarity=0.073 Sum_probs=38.1
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
|.+.+.+. -.+|.+|....+.-....+.....+.=-+-.|...|+++... .|.|++|+.++.+.
T Consensus 25 i~~~v~~~-~~ls~e~~~~~~~sg~~~~~~~~ri~Wa~~~L~~aGli~~~~------rG~~~iT~~G~~~l 88 (92)
T PF14338_consen 25 IYERVAER-FGLSDEERNERLPSGQGYSRFKNRIRWARSYLKKAGLIERPK------RGIWRITEKGRKAL 88 (92)
T ss_pred HHHHHHHH-hCCCHHHHHHHcccCCcchhHHHhHHHHHHHHHHCCCccCCC------CCceEECHhHHHHH
Confidence 55555543 456666666554311110001122444467889999998877 59999999997443
No 350
>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=82.23 E-value=1.1 Score=29.81 Aligned_cols=37 Identities=19% Similarity=0.282 Sum_probs=31.6
Q ss_pred CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..+ |..+||+.+|++... +.+-|+.|...|++....
T Consensus 21 g~~lps~~~la~~~~vsr~t------vr~al~~L~~~g~i~~~~ 58 (64)
T PF00392_consen 21 GDRLPSERELAERYGVSRTT------VREALRRLEAEGLIERRP 58 (64)
T ss_dssp TSBE--HHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEET
T ss_pred CCEeCCHHHHHHHhccCCcH------HHHHHHHHHHCCcEEEEC
Confidence 4677 999999999999766 999999999999998876
No 351
>PLN02668 indole-3-acetate carboxyl methyltransferase
Probab=81.40 E-value=9.3 Score=35.31 Aligned_cols=71 Identities=18% Similarity=0.223 Sum_probs=45.6
Q ss_pred CCceEEEecCCchHHHH--------HHHHH-------CCCCeEEEeecHH-----HHhhCC---------------CCCC
Q 042491 192 GIRSLVDVGGGTGEELA--------EIVEF-------YPHIKGVNFDLPH-----VVATAP---------------VYEG 236 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~--------~l~~~-------~P~l~~~~~Dlp~-----v~~~a~---------------~~~r 236 (266)
+.-+|+|+|||+|..+. .+.++ -|++++..=|+|. +..... ...+
T Consensus 63 ~~~~iaDlGcs~G~ntl~~vs~iI~~i~~~~~~~~~~~pe~qv~~nDLP~NDFNtlF~~L~~~~~~~~~~~~~~~~~~~~ 142 (386)
T PLN02668 63 VPFTAVDLGCSSGSNTIHIIDVIVKHMSKRYESAGLDPPEFSAFFSDLPSNDFNTLFQLLPPLANYGGSMEECLAASGHR 142 (386)
T ss_pred cceeEEEecCCCCccHHHHHHHHHHHHHHHhhhcCCCCCcceEEecCCCCCCHHHHHhhchhhhhhhcchhhhccccCCC
Confidence 46699999999995542 23333 3567777778862 111111 0112
Q ss_pred ---eEEEEccCCCC-CCC--ccEEEecccccc
Q 042491 237 ---VSHVGGDMLNA-VPN--ADAVFMKVIVLI 262 (266)
Q Consensus 237 ---i~~~~gd~~~~-~p~--aD~~~l~~vLHd 262 (266)
+..++|+|+.- +|. -++++.+..||=
T Consensus 143 ~~f~~gvpGSFY~RLfP~~Slh~~~Ss~slHW 174 (386)
T PLN02668 143 SYFAAGVPGSFYRRLFPARSIDVFHSAFSLHW 174 (386)
T ss_pred ceEEEecCccccccccCCCceEEEEeecccee
Confidence 46678999995 784 788888888873
No 352
>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=81.26 E-value=7 Score=35.17 Aligned_cols=81 Identities=14% Similarity=0.188 Sum_probs=51.4
Q ss_pred HHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC----CCeEEEeecH-HHH----hhCC-C-CCCeEE--EEccCCC
Q 042491 180 STLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP----HIKGVNFDLP-HVV----ATAP-V-YEGVSH--VGGDMLN 246 (266)
Q Consensus 180 ~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P----~l~~~~~Dlp-~v~----~~a~-~-~~ri~~--~~gd~~~ 246 (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 34455444 456899999999998777666663 4678999983 233 3333 2 355555 7899977
Q ss_pred C---CC------Cc-cEEEeccccccCC
Q 042491 247 A---VP------NA-DAVFMKVIVLIQD 264 (266)
Q Consensus 247 ~---~p------~a-D~~~l~~vLHd~~ 264 (266)
. +| .. -++++-+.+.+++
T Consensus 144 ~l~~l~~~~~~~~~r~~~flGSsiGNf~ 171 (319)
T TIGR03439 144 GLAWLKRPENRSRPTTILWLGSSIGNFS 171 (319)
T ss_pred HHhhcccccccCCccEEEEeCccccCCC
Confidence 3 22 12 4556666777765
No 353
>COG0500 SmtA SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]
Probab=80.27 E-value=6.6 Score=29.03 Aligned_cols=65 Identities=31% Similarity=0.417 Sum_probs=39.4
Q ss_pred EEEecCCchHHHHHHHHHCCC-CeEEEeec-HHHHhhCCC-C--CC---eEEEEccCCC---CCC---CccEEEeccccc
Q 042491 196 LVDVGGGTGEELAEIVEFYPH-IKGVNFDL-PHVVATAPV-Y--EG---VSHVGGDMLN---AVP---NADAVFMKVIVL 261 (266)
Q Consensus 196 vvDvGgG~G~~~~~l~~~~P~-l~~~~~Dl-p~v~~~a~~-~--~r---i~~~~gd~~~---~~p---~aD~~~l~~vLH 261 (266)
++|+|||.|... .+.+..+. ...+++|. +..+..... . .. +.+..+|... +++ .+|++ .....+
T Consensus 52 ~ld~~~g~g~~~-~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~-~~~~~~ 129 (257)
T COG0500 52 VLDIGCGTGRLA-LLARLGGRGAYVVGVDLSPEMLALARARAEGAGLGLVDFVVADALGGVLPFEDSASFDLV-ISLLVL 129 (257)
T ss_pred eEEecCCcCHHH-HHHHhCCCCceEEEEeCCHHHHHHHHhhhhhcCCCceEEEEeccccCCCCCCCCCceeEE-eeeeeh
Confidence 999999999977 44444443 36677787 434443221 1 11 6788888775 333 38888 444444
Q ss_pred c
Q 042491 262 I 262 (266)
Q Consensus 262 d 262 (266)
.
T Consensus 130 ~ 130 (257)
T COG0500 130 H 130 (257)
T ss_pred h
Confidence 3
No 354
>PRK05638 threonine synthase; Validated
Probab=80.18 E-value=2.2 Score=40.18 Aligned_cols=61 Identities=13% Similarity=0.174 Sum_probs=46.0
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcC--CCCCCCCchhhHHHHHHHHhccCcccccccCCCCCC-ceEeCchhchhh
Q 042491 36 LRLADIMHCHGSPITLPQLASGIN--SSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEE-TMYGLTQISKWL 107 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g--~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~-~~y~lt~~s~~l 107 (266)
+.|+..|.. ++.+.-||++.++ +++.. +.+.|+.|...|++..... .|. -.|++|+.++.+
T Consensus 374 ~~IL~~L~~--~~~~~~el~~~l~~~~s~~~------v~~hL~~Le~~GLV~~~~~---~g~~~~Y~Lt~~g~~~ 437 (442)
T PRK05638 374 LEILKILSE--REMYGYEIWKALGKPLKYQA------VYQHIKELEELGLIEEAYR---KGRRVYYKLTEKGRRL 437 (442)
T ss_pred HHHHHHHhh--CCccHHHHHHHHcccCCcch------HHHHHHHHHHCCCEEEeec---CCCcEEEEECcHHHHH
Confidence 336666765 6899999999998 66666 9999999999999975311 012 349999988643
No 355
>COG0742 N6-adenine-specific methylase [DNA replication, recombination, and repair]
Probab=79.95 E-value=2.9 Score=34.52 Aligned_cols=64 Identities=19% Similarity=0.130 Sum_probs=46.6
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCC-------CCCCeEEEEccCCCC---CC---CccEEEe
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAP-------VYEGVSHVGGDMLNA---VP---NADAVFM 256 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~-------~~~ri~~~~gd~~~~---~p---~aD~~~l 256 (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 4589999999999999999999764 7788887 33333322 257888888887641 11 3899886
No 356
>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=79.89 E-value=1 Score=27.64 Aligned_cols=30 Identities=10% Similarity=0.197 Sum_probs=22.6
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCC
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPD 64 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~ 64 (266)
++..|...|... +..|+.+||+.+|+++..
T Consensus 4 ~D~~Il~~Lq~d-~r~s~~~la~~lglS~~~ 33 (42)
T PF13404_consen 4 LDRKILRLLQED-GRRSYAELAEELGLSEST 33 (42)
T ss_dssp HHHHHHHHHHH--TTS-HHHHHHHHTS-HHH
T ss_pred HHHHHHHHHHHc-CCccHHHHHHHHCcCHHH
Confidence 456788889885 789999999999998743
No 357
>PF13730 HTH_36: Helix-turn-helix domain
Probab=79.86 E-value=1.2 Score=28.55 Aligned_cols=29 Identities=24% Similarity=0.361 Sum_probs=26.9
Q ss_pred CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcc
Q 042491 50 TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVF 84 (266)
Q Consensus 50 t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil 84 (266)
|.+.||+.+|++.+. +.+.++.|...|++
T Consensus 27 S~~~la~~~g~s~~T------v~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLGVSRRT------VQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHCcCHHH------HHHHHHHHHHCcCC
Confidence 899999999999777 99999999999985
No 358
>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=79.78 E-value=3.9 Score=36.39 Aligned_cols=69 Identities=14% Similarity=0.147 Sum_probs=38.2
Q ss_pred CCceEEEecCCchHH-HHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEEc----cCCCCC--C-C-ccE
Q 042491 192 GIRSLVDVGGGTGEE-LAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVGG----DMLNAV--P-N-ADA 253 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~-~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~g----d~~~~~--p-~-aD~ 253 (266)
...+++|||+|.-.. ..--++.| +.+++.-|. +..++.|++ .+||+++.. ++|..+ + + +|.
T Consensus 102 ~~v~glDIGTGAscIYpLLg~~~~-~W~fvaTdID~~sl~~A~~nv~~N~~L~~~I~l~~~~~~~~i~~~i~~~~e~~df 180 (299)
T PF05971_consen 102 EKVRGLDIGTGASCIYPLLGAKLY-GWSFVATDIDPKSLESARENVERNPNLESRIELRKQKNPDNIFDGIIQPNERFDF 180 (299)
T ss_dssp ---EEEEES-TTTTHHHHHHHHHH---EEEEEES-HHHHHHHHHHHHHT-T-TTTEEEEE--ST-SSTTTSTT--S-EEE
T ss_pred cceEeecCCccHHHHHHHHhhhhc-CCeEEEecCCHHHHHHHHHHHHhccccccceEEEEcCCccccchhhhcccceeeE
Confidence 467999999887754 44445555 899999998 444544432 678988753 566643 2 2 777
Q ss_pred EEeccccc
Q 042491 254 VFMKVIVL 261 (266)
Q Consensus 254 ~~l~~vLH 261 (266)
.++.==+|
T Consensus 181 tmCNPPFy 188 (299)
T PF05971_consen 181 TMCNPPFY 188 (299)
T ss_dssp EEE-----
T ss_pred EecCCccc
Confidence 77654333
No 359
>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=79.73 E-value=5.7 Score=34.63 Aligned_cols=36 Identities=19% Similarity=0.232 Sum_probs=31.7
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC-----CCCeEEEeecH
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY-----PHIKGVNFDLP 225 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~-----P~l~~~~~Dlp 225 (266)
+.....+|+.|||.|.++..+.+.. +..+++++|+.
T Consensus 16 l~~~~~~vEfGaGrg~LS~~v~~~~~~~~~~~~~~~lIDR~ 56 (259)
T PF05206_consen 16 LNPDSCFVEFGAGRGELSRWVAQALQEDKPSNSRFVLIDRA 56 (259)
T ss_pred CCCCCEEEEECCCchHHHHHHHHHhhhcccCCccEEEEecC
Confidence 4567899999999999999999999 56789999983
No 360
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=79.55 E-value=1.5 Score=37.93 Aligned_cols=46 Identities=15% Similarity=0.142 Sum_probs=40.6
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..|.+.|... +.++..|||+.+|+++.. ++|-|+.|...|++.+..
T Consensus 8 ~~Il~~l~~~-~~~~~~ela~~l~vS~~T------irRdL~~Le~~g~i~r~~ 53 (251)
T PRK13509 8 QILLELLAQL-GFVTVEKVIERLGISPAT------ARRDINKLDESGKLKKVR 53 (251)
T ss_pred HHHHHHHHHc-CCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEec
Confidence 3477888874 789999999999999877 999999999999998876
No 361
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=79.48 E-value=2.2 Score=34.63 Aligned_cols=43 Identities=16% Similarity=0.203 Sum_probs=36.4
Q ss_pred hHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 40 DIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 40 d~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.+|=-+.+|+|++||++++|++..+ +..-++-|...+++.+.-
T Consensus 33 gilyls~~Pmtl~Ei~E~lg~Sks~------vS~~lkkL~~~~lV~~~~ 75 (177)
T COG1510 33 GILYLSRKPLTLDEIAEALGMSKSN------VSMGLKKLQDWNLVKKVF 75 (177)
T ss_pred hhheecCCCccHHHHHHHHCCCcch------HHHHHHHHHhcchHHhhh
Confidence 3333334899999999999999888 999999999999998765
No 362
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=79.35 E-value=1.2 Score=33.64 Aligned_cols=67 Identities=12% Similarity=0.218 Sum_probs=48.0
Q ss_pred HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
..+.-|++.|...+++.|++||-+.+.-. ........+.|.|+.|...|++.+.... ++..+|....
T Consensus 8 ~~R~~Il~~l~~~~~~~ta~ei~~~l~~~-~~~is~~TVYR~L~~L~e~Gli~~~~~~--~~~~~Y~~~~ 74 (120)
T PF01475_consen 8 PQRLAILELLKESPEHLTAEEIYDKLRKK-GPRISLATVYRTLDLLEEAGLIRKIEFG--DGESRYELST 74 (120)
T ss_dssp HHHHHHHHHHHHHSSSEEHHHHHHHHHHT-TTT--HHHHHHHHHHHHHTTSEEEEEET--TSEEEEEESS
T ss_pred HHHHHHHHHHHcCCCCCCHHHHHHHhhhc-cCCcCHHHHHHHHHHHHHCCeEEEEEcC--CCcceEeecC
Confidence 34566888888766799999999998632 1222356799999999999999998742 2334676654
No 363
>KOG1562 consensus Spermidine synthase [Amino acid transport and metabolism]
Probab=79.26 E-value=1.2 Score=39.42 Aligned_cols=66 Identities=18% Similarity=0.297 Sum_probs=49.5
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCC-eEEEeecHH-HHhhCCC----------CCCeEEEEccCCC---CCC--Ccc
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHI-KGVNFDLPH-VVATAPV----------YEGVSHVGGDMLN---AVP--NAD 252 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dlp~-v~~~a~~----------~~ri~~~~gd~~~---~~p--~aD 252 (266)
...++.++-||||.|-++++..++ +.+ ...++|.-+ |++.... .+||....||-+. ..+ .+|
T Consensus 119 ~~npkkvlVVgggDggvlrevikH-~~ve~i~~~eiD~~Vie~sk~y~p~la~gy~~~~v~l~iGDG~~fl~~~~~~~~d 197 (337)
T KOG1562|consen 119 HPNPKKVLVVGGGDGGVLREVIKH-KSVENILLCEIDENVIESSKQYLPTLACGYEGKKVKLLIGDGFLFLEDLKENPFD 197 (337)
T ss_pred CCCCCeEEEEecCCccceeeeecc-ccccceeeehhhHHHHHHHHHHhHHHhcccCCCceEEEeccHHHHHHHhccCCce
Confidence 346799999999999999999988 776 466777743 4443322 7899999999665 344 389
Q ss_pred EEEe
Q 042491 253 AVFM 256 (266)
Q Consensus 253 ~~~l 256 (266)
+++.
T Consensus 198 Vii~ 201 (337)
T KOG1562|consen 198 VIIT 201 (337)
T ss_pred EEEE
Confidence 8875
No 364
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=78.20 E-value=2.4 Score=33.47 Aligned_cols=68 Identities=13% Similarity=0.223 Sum_probs=48.3
Q ss_pred HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491 33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI 103 (266)
Q Consensus 33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~ 103 (266)
--++.|++.|..++++.|+++|=+.+.-.-. .+-...+.|.|+.|...|++.+.... +|.-+|.++.-
T Consensus 21 ~qR~~vl~~L~~~~~~~sAeei~~~l~~~~p-~islaTVYr~L~~l~e~Glv~~~~~~--~~~~~y~~~~~ 88 (145)
T COG0735 21 PQRLAVLELLLEADGHLSAEELYEELREEGP-GISLATVYRTLKLLEEAGLVHRLEFE--GGKTRYELNSE 88 (145)
T ss_pred HHHHHHHHHHHhcCCCCCHHHHHHHHHHhCC-CCCHhHHHHHHHHHHHCCCEEEEEeC--CCEEEEecCCC
Confidence 3467789999887678999999988863211 11256699999999999999998842 12234655554
No 365
>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=77.93 E-value=6.4 Score=33.89 Aligned_cols=64 Identities=11% Similarity=0.047 Sum_probs=34.0
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-----CCCeEEEEccCCCCCC----C-ccEEEe
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-----YEGVSHVGGDMLNAVP----N-ADAVFM 256 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-----~~ri~~~~gd~~~~~p----~-aD~~~l 256 (266)
..++|+=||=..-.- .+++-..+..+++|+|+ +.+++-.++ .-.|+.+.+|+-+++| + ||+++.
T Consensus 44 ~gk~il~lGDDDLtS-lA~al~~~~~~I~VvDiDeRll~fI~~~a~~~gl~i~~~~~DlR~~LP~~~~~~fD~f~T 118 (243)
T PF01861_consen 44 EGKRILFLGDDDLTS-LALALTGLPKRITVVDIDERLLDFINRVAEEEGLPIEAVHYDLRDPLPEELRGKFDVFFT 118 (243)
T ss_dssp TT-EEEEES-TT-HH-HHHHHHT--SEEEEE-S-HHHHHHHHHHHHHHT--EEEE---TTS---TTTSS-BSEEEE
T ss_pred cCCEEEEEcCCcHHH-HHHHhhCCCCeEEEEEcCHHHHHHHHHHHHHcCCceEEEEecccccCCHHHhcCCCEEEe
Confidence 347899999655544 44444556679999999 444443332 3349999999999988 2 899874
No 366
>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=77.80 E-value=2.3 Score=31.03 Aligned_cols=40 Identities=18% Similarity=0.185 Sum_probs=32.3
Q ss_pred HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHh
Q 042491 32 SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLV 79 (266)
Q Consensus 32 ~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~ 79 (266)
.+.+.+|+..|-. +++|..|||+.+|++..- +.|.-+.|.
T Consensus 41 l~~R~~i~~~Ll~--~~~tQrEIa~~lGiS~at------IsR~sn~lk 80 (94)
T TIGR01321 41 LGDRIRIVNELLN--GNMSQREIASKLGVSIAT------ITRGSNNLK 80 (94)
T ss_pred HHHHHHHHHHHHh--CCCCHHHHHHHhCCChhh------hhHHHhhcc
Confidence 4567899998876 789999999999998655 777766665
No 367
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=77.76 E-value=1.8 Score=35.68 Aligned_cols=35 Identities=26% Similarity=0.414 Sum_probs=32.7
Q ss_pred CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
++|-.+||+.+|+.+.. +.|+|+.|...|++...+
T Consensus 168 ~~t~~~lA~~lG~tr~t------vsR~l~~l~~~gii~~~~ 202 (211)
T PRK11753 168 KITRQEIGRIVGCSREM------VGRVLKMLEDQGLISAHG 202 (211)
T ss_pred CCCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEecC
Confidence 78999999999999877 999999999999998877
No 368
>KOG1709 consensus Guanidinoacetate methyltransferase and related proteins [Amino acid transport and metabolism]
Probab=77.49 E-value=13 Score=31.67 Aligned_cols=65 Identities=22% Similarity=0.201 Sum_probs=51.8
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC-----CCCeEEEEccCCC---CCCC--ccEEE
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV-----YEGVSHVGGDMLN---AVPN--ADAVF 255 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~-----~~ri~~~~gd~~~---~~p~--aD~~~ 255 (266)
.+..+||.||=|-|.....+.++-|....++---|.|....+. .++|-...|-+.+ .+|. ||=|+
T Consensus 100 tkggrvLnVGFGMgIidT~iQe~~p~~H~IiE~hp~V~krmr~~gw~ek~nViil~g~WeDvl~~L~d~~FDGI~ 174 (271)
T KOG1709|consen 100 TKGGRVLNVGFGMGIIDTFIQEAPPDEHWIIEAHPDVLKRMRDWGWREKENVIILEGRWEDVLNTLPDKHFDGIY 174 (271)
T ss_pred hCCceEEEeccchHHHHHHHhhcCCcceEEEecCHHHHHHHHhcccccccceEEEecchHhhhccccccCcceeE
Confidence 4678999999999999999999999988888888999988775 5678888875555 3552 66444
No 369
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=77.43 E-value=2.1 Score=38.39 Aligned_cols=56 Identities=18% Similarity=0.141 Sum_probs=42.8
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI 103 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~ 103 (266)
..|.+.|.. +.+.+..+||+.+|++... +.+.++.|...|+...... ...|++.+.
T Consensus 7 ~~il~~L~~-~~~~s~~~LA~~lgvsr~t------V~~~l~~L~~~G~~i~~~~-----~~Gy~L~~~ 62 (319)
T PRK11886 7 LQLLSLLAD-GDFHSGEQLGEELGISRAA------IWKHIQTLEEWGLDIFSVK-----GKGYRLAEP 62 (319)
T ss_pred HHHHHHHHc-CCCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCceEEec-----CCeEEecCc
Confidence 456777776 3689999999999999877 9999999999999444431 135776543
No 370
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=76.83 E-value=3 Score=27.79 Aligned_cols=47 Identities=13% Similarity=0.208 Sum_probs=35.8
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK 105 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~ 105 (266)
.+++.+++.++.|.+. .+.....+.-+...|+++.++ +++++|+.+.
T Consensus 19 ~Gi~~~~~~~~~g~~~-----~~~~~~~l~~l~~~Gll~~~~-------~~l~lT~~G~ 65 (66)
T PF06969_consen 19 EGIDLSEFEQRFGIDF-----AEEFQKELEELQEDGLLEIDG-------GRLRLTEKGR 65 (66)
T ss_dssp SEEEHHHHHHHTT--T-----HHH-HHHHHHHHHTTSEEE-S-------SEEEE-TTTG
T ss_pred CCcCHHHHHHHHCcCH-----HHHHHHHHHHHHHCCCEEEeC-------CEEEECcccC
Confidence 5799999999999874 234588899999999999998 8999999774
No 371
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=76.72 E-value=2.1 Score=36.18 Aligned_cols=43 Identities=9% Similarity=0.240 Sum_probs=37.7
Q ss_pred CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491 48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI 103 (266)
Q Consensus 48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~ 103 (266)
++|-++||+.+|+.... +.|+|+-|...|++...+ +.+.+...
T Consensus 184 ~lt~~~iA~~lG~sr~t------vsR~l~~l~~~g~I~~~~-------~~i~i~d~ 226 (235)
T PRK11161 184 TMTRGDIGNYLGLTVET------ISRLLGRFQKSGMLAVKG-------KYITIENN 226 (235)
T ss_pred cccHHHHHHHhCCcHHH------HHHHHHHHHHCCCEEecC-------CEEEEcCH
Confidence 68999999999999877 999999999999999988 66766543
No 372
>PRK09462 fur ferric uptake regulator; Provisional
Probab=76.56 E-value=3.8 Score=32.34 Aligned_cols=67 Identities=10% Similarity=0.229 Sum_probs=45.6
Q ss_pred HHHhcChhhHhhhC-CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491 32 SAVELRLADIMHCH-GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT 101 (266)
Q Consensus 32 ~a~elglfd~L~~~-g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt 101 (266)
+..+.-|++.|... +++.|++||-+.+.-... ......+.|.|+.|+..|++.+...+ +|..+|.++
T Consensus 16 T~qR~~Il~~l~~~~~~h~sa~eI~~~l~~~~~-~i~~aTVYR~L~~L~e~Gli~~~~~~--~~~~~y~~~ 83 (148)
T PRK09462 16 TLPRLKILEVLQEPDNHHVSAEDLYKRLIDMGE-EIGLATVYRVLNQFDDAGIVTRHNFE--GGKSVFELT 83 (148)
T ss_pred CHHHHHHHHHHHhCCCCCCCHHHHHHHHHhhCC-CCCHHHHHHHHHHHHHCCCEEEEEcC--CCcEEEEeC
Confidence 34456688888753 369999999998843211 12245699999999999999887521 123467653
No 373
>TIGR03879 near_KaiC_dom probable regulatory domain. This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation.
Probab=76.56 E-value=1.2 Score=30.91 Aligned_cols=34 Identities=9% Similarity=0.129 Sum_probs=30.1
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA 86 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~ 86 (266)
...|..|||+.+|+++.. ++.+++.+...|.+.+
T Consensus 31 eGlS~kEIAe~LGIS~~T------Vk~~l~~~~~~~~~~~ 64 (73)
T TIGR03879 31 AGKTASEIAEELGRTEQT------VRNHLKGETKAGGLVK 64 (73)
T ss_pred cCCCHHHHHHHHCcCHHH------HHHHHhcCcccchHHH
Confidence 579999999999999887 9999999888888764
No 374
>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=76.47 E-value=3.7 Score=31.39 Aligned_cols=75 Identities=16% Similarity=0.086 Sum_probs=51.8
Q ss_pred HHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhcCCCCChHHHHHHhcChhhhhhhh
Q 042491 53 QLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLRDSEMSLAPMILFQNSQLLQAPCH 132 (266)
Q Consensus 53 eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 132 (266)
+||+.++++-+. |--++.++.-+|+++..+ |-..+|+.++.++..+...-..++.-.. ....|...
T Consensus 2 ~La~~l~~eiDd------L~p~~eAaelLgf~~~~~-------Gdi~LT~~G~~f~~a~~~~rK~if~~~l-~~~~Pl~~ 67 (120)
T PF09821_consen 2 QLADELHLEIDD------LLPIVEAAELLGFAEVEE-------GDIRLTPLGRRFAEADIDERKEIFREQL-LRHVPLAA 67 (120)
T ss_pred chHHHhCCcHHH------HHHHHHHHHHcCCeeecC-------CcEEeccchHHHHHCChHHHHHHHHHHH-HhcCCHHH
Confidence 578889988777 999999999999999998 8999999999777655322223333221 01134445
Q ss_pred hhHHHHhcC
Q 042491 133 HLSQCVEEG 141 (266)
Q Consensus 133 ~l~~~l~~~ 141 (266)
.+...+++.
T Consensus 68 ~I~~~L~~~ 76 (120)
T PF09821_consen 68 HIRRVLRER 76 (120)
T ss_pred HHHHHHHhC
Confidence 566666653
No 375
>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=75.65 E-value=2.3 Score=34.48 Aligned_cols=36 Identities=22% Similarity=0.364 Sum_probs=33.1
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
-++|-+|||+.+|+.... +.|.|+.|...|++....
T Consensus 142 ~~~t~~~iA~~lG~tret------vsR~l~~l~~~g~I~~~~ 177 (193)
T TIGR03697 142 LRLSHQAIAEAIGSTRVT------ITRLLGDLRKKKLISIHK 177 (193)
T ss_pred CCCCHHHHHHHhCCcHHH------HHHHHHHHHHCCCEEecC
Confidence 368999999999999776 999999999999999887
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=75.64 E-value=2.8 Score=32.45 Aligned_cols=48 Identities=15% Similarity=0.239 Sum_probs=38.3
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhc----CCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 34 VELRLADIMHCHGSPITLPQLASGI----NSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~----g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|+.|...|... ++.|+.||.+.+ ++.. ..+..+|+-|...|++....
T Consensus 5 ~E~~VM~vlW~~-~~~t~~eI~~~l~~~~~~~~------tTv~T~L~rL~~KG~v~~~k 56 (130)
T TIGR02698 5 AEWEVMRVVWTL-GETTSRDIIRILAEKKDWSD------STIKTLLGRLVDKGCLTTEK 56 (130)
T ss_pred HHHHHHHHHHcC-CCCCHHHHHHHHhhccCCcH------HHHHHHHHHHHHCCceeeec
Confidence 467788888775 689999977776 4544 44999999999999998764
No 377
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=75.53 E-value=5 Score=30.79 Aligned_cols=63 Identities=14% Similarity=0.345 Sum_probs=49.9
Q ss_pred HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491 33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI 103 (266)
Q Consensus 33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~ 103 (266)
+.|+.|.++|... +|.|+.||-+.+.-+.+. ....+.-+|+-|+-.|++..... .++|.-+|+
T Consensus 6 ~aE~eVM~ilW~~-~~~t~~eI~~~l~~~~ew--s~sTV~TLl~RL~KKg~l~~~kd-----gr~~~y~pL 68 (123)
T COG3682 6 AAEWEVMEILWSR-GPATVREIIEELPADREW--SYSTVKTLLNRLVKKGLLTRKKD-----GRAFRYSPL 68 (123)
T ss_pred HHHHHHHHHHHHc-CCccHHHHHHHHhhcccc--cHHHHHHHHHHHHhccchhhhhc-----CCeeeeecc
Confidence 4678899999987 799999999988765332 23558999999999999998884 367777774
No 378
>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=75.12 E-value=3.5 Score=28.46 Aligned_cols=44 Identities=18% Similarity=0.204 Sum_probs=37.9
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|...++. +..|.+||-+.+|++... +...|.-|...|++.+.-
T Consensus 9 ~IL~~ls~--~c~TLeeL~ekTgi~k~~------LlV~LsrL~k~GiI~Rkw 52 (72)
T PF05584_consen 9 KILIILSK--RCCTLEELEEKTGISKNT------LLVYLSRLAKRGIIERKW 52 (72)
T ss_pred HHHHHHHh--ccCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCeeeee
Confidence 35556665 689999999999999887 999999999999998873
No 379
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=75.11 E-value=2.7 Score=34.43 Aligned_cols=44 Identities=20% Similarity=0.232 Sum_probs=37.0
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI 103 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~ 103 (266)
-++|-++||+.+|+.+.. +.|+|.-|...|++...+ +.+.+...
T Consensus 148 ~~~t~~~iA~~lG~tret------vsR~l~~l~~~g~I~~~~-------~~i~I~d~ 191 (202)
T PRK13918 148 IYATHDELAAAVGSVRET------VTKVIGELSREGYIRSGY-------GKIQLLDL 191 (202)
T ss_pred ecCCHHHHHHHhCccHHH------HHHHHHHHHHCCCEEcCC-------CEEEEECH
Confidence 368999999999999877 999999999999999765 56655443
No 380
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=74.65 E-value=2.1 Score=37.15 Aligned_cols=47 Identities=11% Similarity=0.164 Sum_probs=40.9
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
...|.+.|... +.+++.|||+.+++++.- ++|-|..|...|++.+.-
T Consensus 7 ~~~Il~~l~~~-~~~~~~ela~~l~vS~~T------iRRdL~~Le~~g~l~r~~ 53 (252)
T PRK10906 7 HDAIIELVKQQ-GYVSTEELVEHFSVSPQT------IRRDLNDLAEQNKILRHH 53 (252)
T ss_pred HHHHHHHHHHc-CCEeHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEec
Confidence 34577888774 689999999999999876 999999999999998876
No 381
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=74.58 E-value=2.6 Score=35.39 Aligned_cols=45 Identities=11% Similarity=0.099 Sum_probs=38.0
Q ss_pred ChhhHhhhCC-CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 37 RLADIMHCHG-SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 37 glfd~L~~~g-~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|++.+.. | ++.|.+|||+++++++.. +++.+..|+..|++...-
T Consensus 166 ~Vl~~~~~-g~~g~s~~eIa~~l~iS~~T------v~~~~~~~~~~~~~~~~~ 211 (225)
T PRK10046 166 AVRKLFKE-PGVQHTAETVAQALTISRTT------ARRYLEYCASRHLIIAEI 211 (225)
T ss_pred HHHHHHHc-CCCCcCHHHHHHHhCccHHH------HHHHHHHHHhCCeEEEEe
Confidence 45667765 2 268999999999999887 999999999999998764
No 382
>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=73.91 E-value=0.76 Score=31.25 Aligned_cols=58 Identities=19% Similarity=0.328 Sum_probs=42.4
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCC--CCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSS--CPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~--~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (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-GSTATAIAKALGLSVPKKE------VNRVLYRLEKQGKVCKEGGT----PPKWSLTE 64 (66)
T ss_dssp HHHHHHHHHHHHT-SSEEEHHHHHHHHTS-HHH------HHHHHHHHHHTTSEEEECSS----STEEEE-H
T ss_pred HHHHHHHHHHhcC-CccHHHHHHHhCcchhHHH------HHHHHHHHHHCCCEeeCCCC----CCceEecc
Confidence 4667888888875 66666666666554 444 99999999999999987742 66787765
No 383
>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=73.84 E-value=3.1 Score=36.66 Aligned_cols=46 Identities=17% Similarity=0.385 Sum_probs=38.4
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHH-HHhccCcccccccCCCCCCceEeCchhc
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMR-MLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr-~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
|++.+.+++|+.+|.++.. +.++++ .|+..|++...+ .|++ .|..+
T Consensus 253 ~~~~~~~~ia~~lg~~~~~------~~~~~e~~Li~~~li~~~~------~g~~-~~~~~ 299 (305)
T TIGR00635 253 GGPVGLKTLAAALGEDADT------IEDVYEPYLLQIGFLQRTP------RGRI-ATELA 299 (305)
T ss_pred CCcccHHHHHHHhCCCcch------HHHhhhHHHHHcCCcccCC------chhh-hhHHH
Confidence 4789999999999999988 999999 799999998666 3554 55555
No 384
>PRK09775 putative DNA-binding transcriptional regulator; Provisional
Probab=73.83 E-value=3 Score=39.26 Aligned_cols=42 Identities=19% Similarity=0.338 Sum_probs=35.1
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS 89 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~ 89 (266)
|-.+|.. ++.|+.||++.+|++... +.|.|+.| .|++...++
T Consensus 5 ~~~~L~~--g~~~~~eL~~~l~~sq~~------~s~~L~~L--~~~V~~~~~ 46 (442)
T PRK09775 5 LTTLLLQ--GPLSAAELAARLGVSQAT------LSRLLAAL--GDQVVRFGK 46 (442)
T ss_pred HHHHHhc--CCCCHHHHHHHhCCCHHH------HHHHHHHh--hcceeEecc
Confidence 4556675 899999999999999877 99999999 888877763
No 385
>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=73.67 E-value=1.5 Score=27.23 Aligned_cols=30 Identities=10% Similarity=0.259 Sum_probs=18.7
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHH
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMR 76 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr 76 (266)
+..++.. +.|+.+||+.+|++... +.|+|+
T Consensus 14 i~~l~~~---G~si~~IA~~~gvsr~T------vyR~l~ 43 (45)
T PF02796_consen 14 IKELYAE---GMSIAEIAKQFGVSRST------VYRYLN 43 (45)
T ss_dssp HHHHHHT---T--HHHHHHHTTS-HHH------HHHHHC
T ss_pred HHHHHHC---CCCHHHHHHHHCcCHHH------HHHHHh
Confidence 3445553 49999999999998544 666653
No 386
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=73.54 E-value=2.3 Score=37.19 Aligned_cols=47 Identities=9% Similarity=0.154 Sum_probs=41.6
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
...|.+.|... +.+++.|||+.+++++.- ++|=|..|...|++.+..
T Consensus 19 ~~~Il~~L~~~-~~vtv~eLa~~l~VS~~T------IRRDL~~Le~~G~l~r~~ 65 (269)
T PRK09802 19 REQIIQRLRQQ-GSVQVNDLSALYGVSTVT------IRNDLAFLEKQGIAVRAY 65 (269)
T ss_pred HHHHHHHHHHc-CCEeHHHHHHHHCCCHHH------HHHHHHHHHhCCCeEEEe
Confidence 45678888875 679999999999999877 999999999999999887
No 387
>PRK01381 Trp operon repressor; Provisional
Probab=73.40 E-value=3.5 Score=30.38 Aligned_cols=40 Identities=10% Similarity=0.162 Sum_probs=30.8
Q ss_pred HHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHh
Q 042491 32 SAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLV 79 (266)
Q Consensus 32 ~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~ 79 (266)
.+.+++|+..|.. +.+|..|||+.+|++-.- +.|.-+.|-
T Consensus 41 l~~R~~I~~~L~~--g~~sQREIa~~lGvSiaT------ITRgsn~Lk 80 (99)
T PRK01381 41 LGTRVRIVEELLR--GELSQREIKQELGVGIAT------ITRGSNSLK 80 (99)
T ss_pred HHHHHHHHHHHHc--CCcCHHHHHHHhCCceee------ehhhHHHhc
Confidence 3567999999986 789999999999997544 555555443
No 388
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=73.35 E-value=3.2 Score=32.01 Aligned_cols=41 Identities=17% Similarity=0.287 Sum_probs=35.8
Q ss_pred CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeC
Q 042491 49 ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGL 100 (266)
Q Consensus 49 ~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~l 100 (266)
-|+.|||..+|+++.- +.|-.+.|...||+.... |.|.|-.
T Consensus 36 PSvRelA~~~~VNpnT------v~raY~eLE~eG~i~t~r-----g~G~fV~ 76 (125)
T COG1725 36 PSVRELAKDLGVNPNT------VQRAYQELEREGIVETKR-----GKGTFVT 76 (125)
T ss_pred CcHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEec-----CeeEEEc
Confidence 4999999999999877 999999999999999888 3577743
No 389
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=73.07 E-value=3.8 Score=35.20 Aligned_cols=46 Identities=22% Similarity=0.312 Sum_probs=39.8
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..|.+.|... +.++.+|||+.+++++.. ++|-|..|...|.+.+..
T Consensus 7 ~~Il~~l~~~-~~~~~~eLa~~l~VS~~T------iRRdL~~L~~~~~l~r~~ 52 (240)
T PRK10411 7 QAIVDLLLNH-TSLTTEALAEQLNVSKET------IRRDLNELQTQGKILRNH 52 (240)
T ss_pred HHHHHHHHHc-CCCcHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEec
Confidence 3467788765 789999999999999877 999999999999998765
No 390
>PF03492 Methyltransf_7: SAM dependent carboxyl methyltransferase; InterPro: IPR005299 This family of plant methyltransferases contains enzymes that act on a variety of substrates including salicylic acid, jasmonic acid and 7-Methylxanthine. Caffeine is synthesized through sequential three-step methylation of xanthine derivatives at positions 7-N, 3-N, and 1-N. The protein 7-methylxanthine methyltransferase (designated as CaMXMT) catalyses the second step to produce theobromine [].; GO: 0008168 methyltransferase activity; PDB: 2EFJ_A 1M6E_X 2EG5_C 3B5I_B.
Probab=72.89 E-value=8.3 Score=34.91 Aligned_cols=75 Identities=20% Similarity=0.231 Sum_probs=43.2
Q ss_pred CCCCceEEEecCCchHHHHHHH--------HHC--------CCCeEEEeecHH-----HHhhCCC-------CCC--eEE
Q 042491 190 FDGIRSLVDVGGGTGEELAEIV--------EFY--------PHIKGVNFDLPH-----VVATAPV-------YEG--VSH 239 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~--------~~~--------P~l~~~~~Dlp~-----v~~~a~~-------~~r--i~~ 239 (266)
.++.-+|+|+||.+|..+..++ +++ |.+.+..=|+|. +...... ... +..
T Consensus 14 ~~~~~~iaD~GcS~G~Nsl~~~~~ii~~i~~~~~~~~~~~~~e~~v~~nDlP~NDFn~lF~~l~~~~~~~~~~~~~f~~g 93 (334)
T PF03492_consen 14 NPKPFRIADLGCSSGPNSLLAVSNIIDAIRERCRSSNNQPPPEFQVFFNDLPSNDFNTLFKSLPSFQQSLKKFRNYFVSG 93 (334)
T ss_dssp TTTEEEEEEES--SSHHHHHHHHHHHHHHHHHHHCTT-SS--EEEEEEEE-TTS-HHHHHHCHHHHHHHHHHTTSEEEEE
T ss_pred CCCceEEEecCCCCCccHHHHHHHHHHHHHHHhhhhcCCCCCeEEEEeCCCCCccHHHHHHhChhhhhccCCCceEEEEe
Confidence 4567899999999998775433 232 345666779863 1111111 123 577
Q ss_pred EEccCCCC-CCC--ccEEEeccccccCC
Q 042491 240 VGGDMLNA-VPN--ADAVFMKVIVLIQD 264 (266)
Q Consensus 240 ~~gd~~~~-~p~--aD~~~l~~vLHd~~ 264 (266)
++|.|+.. +|. .|+++.+..||=-+
T Consensus 94 vpgSFy~rLfP~~Svh~~~Ss~alHWLS 121 (334)
T PF03492_consen 94 VPGSFYGRLFPSNSVHFGHSSYALHWLS 121 (334)
T ss_dssp EES-TTS--S-TT-EEEEEEES-TTB-S
T ss_pred cCchhhhccCCCCceEEEEEechhhhcc
Confidence 88999996 784 89999999999543
No 391
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=72.69 E-value=2.4 Score=36.83 Aligned_cols=47 Identities=9% Similarity=0.192 Sum_probs=41.1
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
+..|.+.|.+. +.+++.|||+.+++++.. ++|=|..|...|++.+.-
T Consensus 7 ~~~Il~~L~~~-~~v~v~eLa~~l~VS~~T------IRRDL~~Le~~g~l~r~~ 53 (256)
T PRK10434 7 QAAILEYLQKQ-GKTSVEELAQYFDTTGTT------IRKDLVILEHAGTVIRTY 53 (256)
T ss_pred HHHHHHHHHHc-CCEEHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEEE
Confidence 34578888875 789999999999999876 999999999999998776
No 392
>KOG2915 consensus tRNA(1-methyladenosine) methyltransferase, subunit GCD14 [Translation, ribosomal structure and biogenesis]
Probab=72.66 E-value=23 Score=31.26 Aligned_cols=88 Identities=19% Similarity=0.280 Sum_probs=59.7
Q ss_pred HHHHHHhhhHHH----HHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHC-CCCeEEEeecHHH-----HhhCCC---
Q 042491 167 FNKAMACTAKIV----MSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFY-PHIKGVNFDLPHV-----VATAPV--- 233 (266)
Q Consensus 167 f~~~m~~~~~~~----~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~-P~l~~~~~Dlp~v-----~~~a~~--- 233 (266)
|...|-..++.. +.-++..++ .....+|++-|-|+|.++-++++.. |.=+..-||.-+. .+.-++
T Consensus 78 WTl~LphRTQI~Yt~Dia~I~~~L~--i~PGsvV~EsGTGSGSlShaiaraV~ptGhl~tfefH~~Ra~ka~eeFr~hgi 155 (314)
T KOG2915|consen 78 WTLALPHRTQILYTPDIAMILSMLE--IRPGSVVLESGTGSGSLSHAIARAVAPTGHLYTFEFHETRAEKALEEFREHGI 155 (314)
T ss_pred hhhhccCcceEEecccHHHHHHHhc--CCCCCEEEecCCCcchHHHHHHHhhCcCcceEEEEecHHHHHHHHHHHHHhCC
Confidence 444554444331 234566666 6778999999999999999999997 5556777777322 222222
Q ss_pred CCCeEEEEccCCCC-CC----CccEEEe
Q 042491 234 YEGVSHVGGDMLNA-VP----NADAVFM 256 (266)
Q Consensus 234 ~~ri~~~~gd~~~~-~p----~aD~~~l 256 (266)
.+.+++...|.-.. ++ .||.|+|
T Consensus 156 ~~~vt~~hrDVc~~GF~~ks~~aDaVFL 183 (314)
T KOG2915|consen 156 GDNVTVTHRDVCGSGFLIKSLKADAVFL 183 (314)
T ss_pred CcceEEEEeecccCCccccccccceEEE
Confidence 68889988888774 33 2888887
No 393
>PF09929 DUF2161: Uncharacterized conserved protein (DUF2161); InterPro: IPR018679 This family of various hypothetical prokaryotic proteins has no known function.
Probab=72.42 E-value=5.9 Score=30.09 Aligned_cols=59 Identities=24% Similarity=0.275 Sum_probs=44.3
Q ss_pred HHHHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 25 ADSMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 25 ~~~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
+.-.||++|. +|..+ +|.+..+|++.++++. ..++|+- --.|-|++.+ .|.|.||+.+
T Consensus 57 YRQ~Al~~A~------~L~~~-Gp~~~~~l~~~~~~~~--------A~~IL~~-N~YGWFeRv~------rGvY~LT~~G 114 (118)
T PF09929_consen 57 YRQDALRCAA------ALAEH-GPSRPADLRKATGVPK--------ATSILRD-NHYGWFERVE------RGVYALTPAG 114 (118)
T ss_pred hHHHHHHHHH------HHHHc-CCCCHHHHHHhcCCCh--------HHHHHHh-Ccccceeeec------cceEecCcch
Confidence 4455666664 56654 7999999999999974 5555543 3468899988 6999999987
Q ss_pred h
Q 042491 105 K 105 (266)
Q Consensus 105 ~ 105 (266)
+
T Consensus 115 ~ 115 (118)
T PF09929_consen 115 R 115 (118)
T ss_pred h
Confidence 5
No 394
>PF13518 HTH_28: Helix-turn-helix domain
Probab=72.29 E-value=3.5 Score=25.79 Aligned_cols=37 Identities=11% Similarity=0.205 Sum_probs=29.4
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCc
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGV 83 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gi 83 (266)
+...+.+ + .|..++|+.+|++... +.+|++.....|+
T Consensus 5 iv~~~~~--g-~s~~~~a~~~gis~~t------v~~w~~~y~~~G~ 41 (52)
T PF13518_consen 5 IVELYLE--G-ESVREIAREFGISRST------VYRWIKRYREGGI 41 (52)
T ss_pred HHHHHHc--C-CCHHHHHHHHCCCHhH------HHHHHHHHHhcCH
Confidence 3444443 3 4999999999998877 9999999988775
No 395
>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=72.22 E-value=3.3 Score=35.54 Aligned_cols=46 Identities=11% Similarity=0.218 Sum_probs=40.1
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|++.|...++-++..+||+++|++... +.+=+|.|.+.|+++-..
T Consensus 187 ~IL~~L~~~egrlse~eLAerlGVSRs~------ireAlrkLE~aGvIe~r~ 232 (251)
T TIGR02787 187 HIFEELDGNEGLLVASKIADRVGITRSV------IVNALRKLESAGVIESRS 232 (251)
T ss_pred HHHHHhccccccccHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEecc
Confidence 4788887633689999999999999877 999999999999998775
No 396
>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=72.18 E-value=5 Score=34.58 Aligned_cols=32 Identities=16% Similarity=0.401 Sum_probs=24.5
Q ss_pred CceEEEecCCchHHHHHHHHHCCC--------CeEEEeec
Q 042491 193 IRSLVDVGGGTGEELAEIVEFYPH--------IKGVNFDL 224 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~P~--------l~~~~~Dl 224 (266)
.-+||++|+|+|.++..+++.... ++.+++|.
T Consensus 19 ~~~ivE~GaG~G~La~diL~~l~~~~p~~~~~~~y~ivE~ 58 (252)
T PF02636_consen 19 PLRIVEIGAGRGTLARDILRYLRKFSPEVYKRLRYHIVEI 58 (252)
T ss_dssp -EEEEEES-TTSHHHHHHHHHHCCTTHHHHTTCEEEEE-T
T ss_pred CcEEEEECCCchHHHHHHHHHHHHhChhhhhcceEEEEcC
Confidence 479999999999999998876544 47888887
No 397
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=72.00 E-value=4 Score=33.52 Aligned_cols=50 Identities=10% Similarity=0.194 Sum_probs=42.1
Q ss_pred HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
-++..|.|.|..+|...|+.+||+++|++... +.|-|--|...|.+....
T Consensus 4 ~~~~~i~~~l~~~~~~~~a~~i~k~l~i~k~~------vNr~LY~L~~~~~v~~~~ 53 (183)
T PHA02701 4 DCASLILTLLSSSGDKLPAKRIAKELGISKHE------ANRCLYRLLESDAVSCED 53 (183)
T ss_pred hHHHHHHHHHHhcCCCCcHHHHHHHhCccHHH------HHHHHHHHhhcCcEecCC
Confidence 35778999999876469999999999999877 999998888888886555
No 398
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=71.44 E-value=7.7 Score=32.11 Aligned_cols=59 Identities=19% Similarity=0.248 Sum_probs=44.2
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC-CceEeCchhc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE-ETMYGLTQIS 104 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g-~~~y~lt~~s 104 (266)
+.+...|+-. +|+|..||++..|++ ...+++-|...|++.+.+..+..| +-.|..|+..
T Consensus 93 LEtLaiIay~-qPiTr~eI~~irGv~---------~~~ii~~L~~~gLI~e~gr~~~~Grp~ly~tT~~F 152 (188)
T PRK00135 93 LEVLAIIAYK-QPITRIEIDEIRGVN---------SDGALQTLLAKGLIKEVGRKEVPGRPILYGTTDEF 152 (188)
T ss_pred HHHHHHHHHc-CCcCHHHHHHHHCCC---------HHHHHHHHHHCCCeEEcCcCCCCCCCeeeehhHHH
Confidence 4466777765 899999999999997 578999999999998865433233 3357677754
No 399
>PRK13239 alkylmercury lyase; Provisional
Probab=70.98 E-value=8 Score=32.49 Aligned_cols=39 Identities=13% Similarity=0.370 Sum_probs=29.3
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHh
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLV 79 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~ 79 (266)
+..-|+.+|++ |.|.|..+||+.+|.+.+. +++.|+.|.
T Consensus 23 ~~~~llr~la~-G~pvt~~~lA~~~~~~~~~------v~~~L~~l~ 61 (206)
T PRK13239 23 LLVPLLRLLAK-GRPVSVTTLAAALGWPVEE------VEAVLEAMP 61 (206)
T ss_pred HHHHHHHHHHc-CCCCCHHHHHHHhCCCHHH------HHHHHHhCC
Confidence 33446777885 8999999999999998655 666655554
No 400
>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=70.45 E-value=13 Score=32.39 Aligned_cols=54 Identities=22% Similarity=0.180 Sum_probs=41.6
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCC---------CCCeEEEEccCCC
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPV---------YEGVSHVGGDMLN 246 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~---------~~ri~~~~gd~~~ 246 (266)
+...||.+|||-=+..-.+-.. ++++..=+|+|++++..++ ..++.+++.|+..
T Consensus 81 g~~qvV~LGaGlDTr~~Rl~~~-~~~~~~EvD~P~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~~ 143 (260)
T TIGR00027 81 GIRQVVILGAGLDTRAYRLPWP-DGTRVFEVDQPAVLAFKEKVLAELGAEPPAHRRAVPVDLRQ 143 (260)
T ss_pred CCcEEEEeCCccccHHHhcCCC-CCCeEEECCChHHHHHHHHHHHHcCCCCCCceEEeccCchh
Confidence 5678999999999888877322 3577888889999874332 5789999999974
No 401
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=70.44 E-value=4.2 Score=32.41 Aligned_cols=32 Identities=22% Similarity=0.224 Sum_probs=27.0
Q ss_pred CCCeEEEEccCCC-CCCC--ccEEEeccccccCCC
Q 042491 234 YEGVSHVGGDMLN-AVPN--ADAVFMKVIVLIQDL 265 (266)
Q Consensus 234 ~~ri~~~~gd~~~-~~p~--aD~~~l~~vLHd~~~ 265 (266)
..+|+++.+|..+ |++. +|++++..++|.+.|
T Consensus 25 ~~~i~~~~~d~~~lp~~~~~fD~v~~~~~l~~~~d 59 (160)
T PLN02232 25 YKCIEWIEGDAIDLPFDDCEFDAVTMGYGLRNVVD 59 (160)
T ss_pred CCceEEEEechhhCCCCCCCeeEEEecchhhcCCC
Confidence 4579999999987 6653 999999999999875
No 402
>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=70.29 E-value=2.1 Score=28.62 Aligned_cols=43 Identities=9% Similarity=0.260 Sum_probs=33.3
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccc
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAH 87 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~ 87 (266)
|++.|-.. |..|..+|++.++++++. ++.-|-.|...+++...
T Consensus 18 V~~~Ll~~-G~ltl~~i~~~t~l~~~~------Vk~~L~~LiQh~~v~y~ 60 (62)
T PF08221_consen 18 VGEVLLSR-GRLTLREIVRRTGLSPKQ------VKKALVVLIQHNLVQYF 60 (62)
T ss_dssp HHHHHHHC--SEEHHHHHHHHT--HHH------HHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHc-CCcCHHHHHHHhCCCHHH------HHHHHHHHHHcCCeeee
Confidence 55666554 789999999999999877 99999999999988654
No 403
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=70.26 E-value=1.5 Score=27.55 Aligned_cols=40 Identities=10% Similarity=0.239 Sum_probs=22.2
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGV 83 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gi 83 (266)
++.+...+.+ +.|..+||+.+|+++.. +.+|++-....|+
T Consensus 7 R~~ii~l~~~---G~s~~~ia~~lgvs~~T------v~~w~kr~~~~G~ 46 (50)
T PF13384_consen 7 RAQIIRLLRE---GWSIREIAKRLGVSRST------VYRWIKRYREEGL 46 (50)
T ss_dssp ---HHHHHHH---T--HHHHHHHHTS-HHH------HHHHHT-------
T ss_pred HHHHHHHHHC---CCCHHHHHHHHCcCHHH------HHHHHHHcccccc
Confidence 4455556664 69999999999999766 9999887766663
No 404
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=70.20 E-value=3.9 Score=34.62 Aligned_cols=43 Identities=14% Similarity=0.274 Sum_probs=35.9
Q ss_pred CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
++|-++||+.+|+.+.. +.|+|+-|...|++...+ .+++.+..
T Consensus 179 ~lt~~~IA~~lGisret------lsR~L~~L~~~GlI~~~~------~~~i~I~D 221 (230)
T PRK09391 179 PMSRRDIADYLGLTIET------VSRALSQLQDRGLIGLSG------ARQIELRN 221 (230)
T ss_pred cCCHHHHHHHHCCCHHH------HHHHHHHHHHCCcEEecC------CceEEEcC
Confidence 68899999999999877 999999999999998764 24666544
No 405
>PRK12423 LexA repressor; Provisional
Probab=70.19 E-value=4.9 Score=33.51 Aligned_cols=36 Identities=17% Similarity=0.251 Sum_probs=31.2
Q ss_pred CCCCHHHHHhhcCC-CCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPITLPQLASGINS-SCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~t~~eLA~~~g~-~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
-+-|..|||+.+|+ ++.. +.+.|+.|...|+++...
T Consensus 24 ~~Ps~~eia~~~g~~s~~~------v~~~l~~L~~~G~l~~~~ 60 (202)
T PRK12423 24 QPPSLAEIAQAFGFASRSV------ARKHVQALAEAGLIEVVP 60 (202)
T ss_pred CCCCHHHHHHHhCCCChHH------HHHHHHHHHHCCCEEecC
Confidence 35699999999996 5545 899999999999999876
No 406
>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=69.89 E-value=15 Score=26.81 Aligned_cols=63 Identities=21% Similarity=0.266 Sum_probs=43.7
Q ss_pred hhhHhhhCCCCCCHHHHHhhc--------CCCCCCCCchhhHHHHHHHHhccCcccccccC-CCCC-CceEeCchhchhh
Q 042491 38 LADIMHCHGSPITLPQLASGI--------NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSS-DGSE-ETMYGLTQISKWL 107 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~--------g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~-~~~g-~~~y~lt~~s~~l 107 (266)
|+-.|.. +|.+--||.+.+ .+++.. +.++|+-|...|++...... +++. .-.|++|+.++.+
T Consensus 9 iL~~L~~--~~~~GYei~~~l~~~~~~~~~i~~gt------lY~~L~rLe~~GlI~~~~~~~~~~~~rk~y~iT~~Gr~~ 80 (100)
T TIGR03433 9 ILKTLSL--GPLHGYGIAQRIQQISEDVLQVEEGS------LYPALHRLERRGWIAAEWGESENNRRAKFYRLTAAGRKQ 80 (100)
T ss_pred HHHHHhc--CCCCHHHHHHHHHHHcCCccccCCCc------HHHHHHHHHHCCCeEEEeeecCCCCCceEEEECHHHHHH
Confidence 4445554 678877877764 456666 99999999999999985221 1122 3469999999743
Q ss_pred h
Q 042491 108 L 108 (266)
Q Consensus 108 ~ 108 (266)
.
T Consensus 81 l 81 (100)
T TIGR03433 81 L 81 (100)
T ss_pred H
Confidence 3
No 407
>COG1088 RfbB dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]
Probab=69.50 E-value=11 Score=33.71 Aligned_cols=48 Identities=27% Similarity=0.223 Sum_probs=36.8
Q ss_pred ecCCchHHH----HHHHHHCCCCeEEEeec------HHHHhhCCCCCCeEEEEccCCC
Q 042491 199 VGGGTGEEL----AEIVEFYPHIKGVNFDL------PHVVATAPVYEGVSHVGGDMLN 246 (266)
Q Consensus 199 vGgG~G~~~----~~l~~~~P~l~~~~~Dl------p~v~~~a~~~~ri~~~~gd~~~ 246 (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 446777655 55778899988999996 5555555557899999999986
No 408
>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=69.08 E-value=12 Score=25.91 Aligned_cols=55 Identities=11% Similarity=0.156 Sum_probs=35.6
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHH--hccCcccccccCCCCCCceEeC
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRML--VRKGVFAAHRSSDGSEETMYGL 100 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L--~~~gil~~~~~~~~~g~~~y~l 100 (266)
|.+.|... ++.|++||++++|+.+.. ++-.|--+ ...|+-......+ ++..+|++
T Consensus 15 li~mL~rp-~GATi~ei~~atGWq~HT------vRgalsg~~kKklGl~i~s~k~~-g~~r~YrI 71 (72)
T PF11994_consen 15 LIAMLRRP-EGATIAEICEATGWQPHT------VRGALSGLLKKKLGLTITSEKVD-GGGRRYRI 71 (72)
T ss_pred HHHHHcCC-CCCCHHHHHHhhCCchhh------HHHHHHHHHHHhcCcEEEeeecC-CCeeeEee
Confidence 55666653 689999999999998776 66666655 4556554443221 12446765
No 409
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=68.51 E-value=4 Score=32.27 Aligned_cols=41 Identities=17% Similarity=0.203 Sum_probs=34.8
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcc
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVF 84 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil 84 (266)
-|+|+|-.+ +.+|-++||+.+|++... ++++|..|...+++
T Consensus 5 ~v~d~L~~~-~~~~dedLa~~l~i~~n~------vRkiL~~L~ed~~~ 45 (147)
T smart00531 5 LVLDALMRN-GCVTEEDLAELLGIKQKQ------LRKILYLLYDEKLI 45 (147)
T ss_pred eehHHHHhc-CCcCHHHHHHHhCCCHHH------HHHHHHHHHhhhcc
Confidence 477877665 689999999999999887 99999999995554
No 410
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=68.27 E-value=7.1 Score=33.62 Aligned_cols=64 Identities=19% Similarity=0.215 Sum_probs=47.0
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCC---CCCC--ccEEE
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLN---AVPN--ADAVF 255 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~---~~p~--aD~~~ 255 (266)
++..+|+|...|-|..+++.+++-.- .++-++- |.|++.+.- ..+|+.+-||..+ .++. +|+++
T Consensus 133 ~~G~rVLDtC~GLGYtAi~a~~rGA~-~VitvEkdp~VLeLa~lNPwSr~l~~~~i~iilGD~~e~V~~~~D~sfDaIi 210 (287)
T COG2521 133 KRGERVLDTCTGLGYTAIEALERGAI-HVITVEKDPNVLELAKLNPWSRELFEIAIKIILGDAYEVVKDFDDESFDAII 210 (287)
T ss_pred ccCCEeeeeccCccHHHHHHHHcCCc-EEEEEeeCCCeEEeeccCCCCccccccccEEecccHHHHHhcCCccccceEe
Confidence 46789999999999999999998552 3444443 677665542 4578999999887 3663 88764
No 411
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=68.10 E-value=2.7 Score=34.64 Aligned_cols=46 Identities=15% Similarity=0.013 Sum_probs=40.1
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..|.+.|... +.++..+||+.+++++.. ++|=|+.|...|.+.+.-
T Consensus 10 ~~Il~~l~~~-~~~~~~~La~~~~vS~~T------iRRDl~~L~~~g~~~r~~ 55 (185)
T PRK04424 10 KALQELIEEN-PFITDEELAEKFGVSIQT------IRLDRMELGIPELRERIK 55 (185)
T ss_pred HHHHHHHHHC-CCEEHHHHHHHHCcCHHH------HHHHHHHHhcchHHHHHH
Confidence 4467788875 789999999999999876 999999999999998765
No 412
>PRK09954 putative kinase; Provisional
Probab=67.49 E-value=4.3 Score=36.84 Aligned_cols=44 Identities=20% Similarity=0.229 Sum_probs=38.5
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA 85 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~ 85 (266)
+..|+..|.++ +.+|..|||+.++++... +.+.++-|...|++.
T Consensus 5 ~~~il~~l~~~-~~~s~~~la~~l~~s~~~------v~~~i~~L~~~g~i~ 48 (362)
T PRK09954 5 EKEILAILRRN-PLIQQNEIADILQISRSR------VAAHIMDLMRKGRIK 48 (362)
T ss_pred HHHHHHHHHHC-CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCcC
Confidence 34578888875 689999999999999877 999999999999985
No 413
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=67.22 E-value=19 Score=28.69 Aligned_cols=63 Identities=11% Similarity=0.125 Sum_probs=38.8
Q ss_pred CCceEEEecCCchHHH--HHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCC-CCCCccEEEec
Q 042491 192 GIRSLVDVGGGTGEEL--AEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLN-AVPNADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~--~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~-~~p~aD~~~l~ 257 (266)
..++||=||||.=..- ..|++. +.++++++ |+..+.....+++++....|.+ .+.++|+++..
T Consensus 12 ~~~~vlVvGGG~va~rka~~Ll~~--ga~V~VIs-p~~~~~l~~l~~i~~~~~~~~~~dl~~a~lViaa 77 (157)
T PRK06719 12 HNKVVVIIGGGKIAYRKASGLKDT--GAFVTVVS-PEICKEMKELPYITWKQKTFSNDDIKDAHLIYAA 77 (157)
T ss_pred CCCEEEEECCCHHHHHHHHHHHhC--CCEEEEEc-CccCHHHHhccCcEEEecccChhcCCCceEEEEC
Confidence 4478889998875553 345554 34566665 4444433334567777666666 36678888764
No 414
>PRK11642 exoribonuclease R; Provisional
Probab=67.17 E-value=8.7 Score=39.09 Aligned_cols=50 Identities=20% Similarity=0.304 Sum_probs=39.4
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|++.|...+.|++..+|++.++++... ....+.+.|+.|...|.+.+..
T Consensus 23 ~Il~~l~~~~~~~~~~~L~~~l~l~~~~--~~~~l~~~L~~L~~~g~l~~~~ 72 (813)
T PRK11642 23 FILEHLTKREKPASREELAVELNIEGEE--QLEALRRRLRAMERDGQLVFTR 72 (813)
T ss_pred HHHHHHHhcCCCCCHHHHHHHhCCCChH--HHHHHHHHHHHHHHCCCEEEcC
Confidence 3667776545899999999999996421 1345999999999999998766
No 415
>PF11312 DUF3115: Protein of unknown function (DUF3115); InterPro: IPR021463 This eukaryotic family of proteins has no known function.
Probab=67.01 E-value=9 Score=34.26 Aligned_cols=32 Identities=25% Similarity=0.523 Sum_probs=26.4
Q ss_pred CceEEEecCCchHHHHHHHHHC--------------------CCCeEEEeec
Q 042491 193 IRSLVDVGGGTGEELAEIVEFY--------------------PHIKGVNFDL 224 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~~~l~~~~--------------------P~l~~~~~Dl 224 (266)
..+||-||||.|.-+.+++..+ |.++.+++|.
T Consensus 87 ~~~VlCIGGGAGAElVAlAa~~~~~~~~~~s~~~~~~~~~~~~~l~itlvDi 138 (315)
T PF11312_consen 87 SLRVLCIGGGAGAELVALAAAFRTRSSEFLSKSPSGVSLSSPPSLSITLVDI 138 (315)
T ss_pred CceEEEECCChHHHHHHHHHHHhhcccccCCcccccccccCCCcceEEEEEe
Confidence 4799999999999888887777 3367888887
No 416
>COG1255 Uncharacterized protein conserved in archaea [Function unknown]
Probab=66.90 E-value=26 Score=26.68 Aligned_cols=61 Identities=25% Similarity=0.260 Sum_probs=44.5
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhCCCCCCeEEEEccCCCC-C---CCccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATAPVYEGVSHVGGDMLNA-V---PNADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a~~~~ri~~~~gd~~~~-~---p~aD~~~l~ 257 (266)
...+||+||-|.=......++++. ...+..|..+- .+ ...++++.-|+|+| + .++|+++.-
T Consensus 13 ~~gkVvEVGiG~~~~VA~~L~e~g-~dv~atDI~~~--~a--~~g~~~v~DDitnP~~~iY~~A~lIYSi 77 (129)
T COG1255 13 ARGKVVEVGIGFFLDVAKRLAERG-FDVLATDINEK--TA--PEGLRFVVDDITNPNISIYEGADLIYSI 77 (129)
T ss_pred cCCcEEEEccchHHHHHHHHHHcC-CcEEEEecccc--cC--cccceEEEccCCCccHHHhhCccceeec
Confidence 556999999888777766666654 66777787554 22 26789999999997 3 368877653
No 417
>KOG2918 consensus Carboxymethyl transferase [Posttranslational modification, protein turnover, chaperones]
Probab=66.63 E-value=15 Score=32.90 Aligned_cols=41 Identities=24% Similarity=0.418 Sum_probs=37.1
Q ss_pred CCCCceEEEecCCchHHHHHHHHHC--CCCeEEEeecHHHHhh
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFY--PHIKGVNFDLPHVVAT 230 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~--P~l~~~~~Dlp~v~~~ 230 (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 4588999999999999999999999 8889999999998874
No 418
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=66.17 E-value=12 Score=27.76 Aligned_cols=44 Identities=14% Similarity=0.121 Sum_probs=34.1
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
-..+|.+..+++.+|+.++|+.+|+.+ .++.+.|...|++...+
T Consensus 12 a~~~d~~~~~~~~~ti~~~AK~L~i~~---------~~l~~~Lr~~g~l~~~~ 55 (111)
T PF03374_consen 12 AEFYDAFVDSDGLYTIREAAKLLGIGR---------NKLFQWLREKGWLYRRG 55 (111)
T ss_pred hHHHHHHHcCCCCccHHHHHHHhCCCH---------HHHHHHHHhCCceEECC
Confidence 345677776668899999999999975 45666666799999853
No 419
>PF05331 DUF742: Protein of unknown function (DUF742); InterPro: IPR007995 This family consists of several uncharacterised Streptomyces proteins as well as one from Mycobacterium tuberculosis. The function of these proteins is unknown.
Probab=65.97 E-value=7.5 Score=29.47 Aligned_cols=42 Identities=10% Similarity=0.282 Sum_probs=36.2
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|.++.. .+.|+.|||..++++-.- ++-++--|...|++....
T Consensus 48 Il~lC~---~~~SVAEiAA~L~lPlgV------vrVLvsDL~~~G~v~v~~ 89 (114)
T PF05331_consen 48 ILELCR---RPLSVAEIAARLGLPLGV------VRVLVSDLADAGLVRVRA 89 (114)
T ss_pred HHHHHC---CCccHHHHHHhhCCCchh------hhhhHHHHHhCCCEEEeC
Confidence 455555 599999999999999877 999999999999998877
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=65.82 E-value=41 Score=26.36 Aligned_cols=69 Identities=13% Similarity=0.117 Sum_probs=41.5
Q ss_pred HHHHHhcChhhHhhhCCCCCCHHHHHhhc------CCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCC--ceEeCc
Q 042491 30 LKSAVELRLADIMHCHGSPITLPQLASGI------NSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEE--TMYGLT 101 (266)
Q Consensus 30 L~~a~elglfd~L~~~g~~~t~~eLA~~~------g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~--~~y~lt 101 (266)
.+-.+++=|+-.|.. +|..-=+|.+.+ .+++.. +..+|+-|...|++.......+.|. -.|++|
T Consensus 21 ~kg~l~~~IL~~L~~--~p~hGYeI~q~l~~~g~~~v~~Gt------LYp~L~RLE~~GlI~~~~~~~~~gp~RK~Y~LT 92 (138)
T TIGR02719 21 PKNFLVPFLLLCLKD--WNLHGYKLIQMLMDFGFSSVDQGN------VYRTLRKLEKDNLISSQWDTSAEGPAKRIYSLT 92 (138)
T ss_pred HHHHHHHHHHHHHcc--CCCCHHHHHHHHHHcCCCCCCcCh------HHHHHHHHHHCCCEEEEeeecCCCCCcEEEEEC
Confidence 333334444445554 455544444433 345555 9999999999999986432211222 359999
Q ss_pred hhchh
Q 042491 102 QISKW 106 (266)
Q Consensus 102 ~~s~~ 106 (266)
+.++.
T Consensus 93 e~Gr~ 97 (138)
T TIGR02719 93 DAGEQ 97 (138)
T ss_pred HHHHH
Confidence 99974
No 421
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=65.78 E-value=4.8 Score=33.91 Aligned_cols=42 Identities=14% Similarity=0.183 Sum_probs=36.3
Q ss_pred CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
+.|-.+||+.+|+.++. +.|.|.-|...|+++..+ +++.+..
T Consensus 169 ~~t~~~lA~~lG~sret------vsR~L~~L~~~G~I~~~~-------~~i~I~d 210 (226)
T PRK10402 169 HEKHTQAAEYLGVSYRH------LLYVLAQFIQDGYLKKSK-------RGYLIKN 210 (226)
T ss_pred cchHHHHHHHHCCcHHH------HHHHHHHHHHCCCEEeeC-------CEEEEeC
Confidence 46889999999999877 999999999999999887 6666643
No 422
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=65.62 E-value=6.3 Score=33.11 Aligned_cols=37 Identities=14% Similarity=0.161 Sum_probs=34.1
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..++..+||+.+|++... ++.-|+.|...|+++...
T Consensus 28 G~~L~e~eLae~lgVSRtp------VREAL~~L~~eGlv~~~~ 64 (224)
T PRK11534 28 DEKLRMSLLTSRYALGVGP------LREALSQLVAERLVTVVN 64 (224)
T ss_pred CCcCCHHHHHHHHCCChHH------HHHHHHHHHHCCCEEEeC
Confidence 6788999999999999888 999999999999998776
No 423
>PF13578 Methyltransf_24: Methyltransferase domain; PDB: 3SSO_A 3SSN_C 3SSM_D.
Probab=65.26 E-value=4.9 Score=29.29 Aligned_cols=60 Identities=17% Similarity=0.186 Sum_probs=19.9
Q ss_pred EEecCCchHHHHHHHHHCCCC---eEEEeecHH----HHhhCCC---CCCeEEEEccCCCC---CC--CccEEEe
Q 042491 197 VDVGGGTGEELAEIVEFYPHI---KGVNFDLPH----VVATAPV---YEGVSHVGGDMLNA---VP--NADAVFM 256 (266)
Q Consensus 197 vDvGgG~G~~~~~l~~~~P~l---~~~~~Dlp~----v~~~a~~---~~ri~~~~gd~~~~---~p--~aD~~~l 256 (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 689999999988888877665 578888744 3333332 57899999998762 33 3777765
No 424
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=65.15 E-value=5.3 Score=32.69 Aligned_cols=46 Identities=17% Similarity=0.255 Sum_probs=39.4
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..|++.|.+. +-+|=++||+.+|+.... ++|+|..|...|++....
T Consensus 21 ~~v~~~l~~k-ge~tDeela~~l~i~~~~------vrriL~~L~e~~li~~~k 66 (176)
T COG1675 21 VLVVDALLEK-GELTDEELAELLGIKKNE------VRRILYALYEDGLISYRK 66 (176)
T ss_pred hHHHHHHHhc-CCcChHHHHHHhCccHHH------HHHHHHHHHhCCceEEEe
Confidence 4578888873 479999999999998777 999999999999998554
No 425
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=65.08 E-value=8.7 Score=32.45 Aligned_cols=47 Identities=17% Similarity=0.214 Sum_probs=40.2
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
|..++-.+||+.+|++... ++.-|.-|...|++.... ...+..++++
T Consensus 37 G~~l~e~~La~~~gvSrtP------VReAL~rL~~eGlv~~~p------~rG~~V~~~~ 83 (230)
T COG1802 37 GERLSEEELAEELGVSRTP------VREALRRLEAEGLVEIEP------NRGAFVAPLS 83 (230)
T ss_pred CCCccHHHHHHHhCCCCcc------HHHHHHHHHHCCCeEecC------CCCCeeCCCC
Confidence 6899999999999999988 999999999999999987 2444455554
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=64.40 E-value=5.1 Score=33.27 Aligned_cols=37 Identities=16% Similarity=0.305 Sum_probs=34.4
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..++-.+||+.+|++... ++.-|+.|...|+++...
T Consensus 32 G~~L~e~~La~~lgVSRtp------VReAL~~L~~eGlv~~~~ 68 (212)
T TIGR03338 32 GAKLNESDIAARLGVSRGP------VREAFRALEEAGLVRNEK 68 (212)
T ss_pred CCEecHHHHHHHhCCChHH------HHHHHHHHHHCCCEEEec
Confidence 6788999999999999888 999999999999998776
No 427
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=64.10 E-value=5.3 Score=34.62 Aligned_cols=46 Identities=13% Similarity=0.232 Sum_probs=41.2
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..|.+.|.+. +.++++|||+.+++++.- ++|=|+.|...|++.+.-
T Consensus 8 ~~Il~~l~~~-g~v~v~eLa~~~~VS~~T------IRRDL~~Le~~g~l~R~h 53 (253)
T COG1349 8 QKILELLKEK-GKVSVEELAELFGVSEMT------IRRDLNELEEQGLLLRVH 53 (253)
T ss_pred HHHHHHHHHc-CcEEHHHHHHHhCCCHHH------HHHhHHHHHHCCcEEEEe
Confidence 4577888886 789999999999999876 999999999999999966
No 428
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=63.20 E-value=3.9 Score=24.64 Aligned_cols=28 Identities=18% Similarity=0.208 Sum_probs=19.4
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVR 80 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~ 80 (266)
.+.++++||+.+|+++.. +.|.++....
T Consensus 7 ~~~~l~~iA~~~g~S~~~------f~r~Fk~~~g 34 (42)
T PF00165_consen 7 QKLTLEDIAEQAGFSPSY------FSRLFKKETG 34 (42)
T ss_dssp SS--HHHHHHHHTS-HHH------HHHHHHHHTS
T ss_pred CCCCHHHHHHHHCCCHHH------HHHHHHHHHC
Confidence 579999999999997544 8887775543
No 429
>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=63.14 E-value=5.2 Score=26.65 Aligned_cols=24 Identities=21% Similarity=0.223 Sum_probs=18.9
Q ss_pred HhhhCCCCCCHHHHHhhcCCCCCC
Q 042491 41 IMHCHGSPITLPQLASGINSSCPD 64 (266)
Q Consensus 41 ~L~~~g~~~t~~eLA~~~g~~~~~ 64 (266)
+--+++|.++..|||+.+|+++..
T Consensus 15 ~y~~~~g~i~lkdIA~~Lgvs~~t 38 (60)
T PF10668_consen 15 IYKESNGKIKLKDIAEKLGVSEST 38 (60)
T ss_pred HHHHhCCCccHHHHHHHHCCCHHH
Confidence 333445899999999999998765
No 430
>COG1568 Predicted methyltransferases [General function prediction only]
Probab=62.95 E-value=8.1 Score=34.07 Aligned_cols=47 Identities=15% Similarity=0.166 Sum_probs=40.9
Q ss_pred CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhhc
Q 042491 50 TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLLR 109 (266)
Q Consensus 50 t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~~ 109 (266)
+.-.|+....+|-+. +..+++.|...|+++... +...+|..++-|+.
T Consensus 36 d~wkIvd~s~~plp~------v~~i~~~l~~egiv~~~~-------g~v~~TekG~E~~e 82 (354)
T COG1568 36 DFWKIVDYSDLPLPL------VASILEILEDEGIVKIEE-------GGVELTEKGEELAE 82 (354)
T ss_pred chHhhhhhccCCchH------HHHHHHHHHhcCcEEEec-------CcEeehhhhHHHHH
Confidence 888888888888665 999999999999999998 66999999987664
No 431
>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=62.83 E-value=8.6 Score=29.44 Aligned_cols=50 Identities=12% Similarity=0.141 Sum_probs=43.2
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchhhh
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKWLL 108 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~l~ 108 (266)
-|.|.++||..++-+... ++.-|.++...|+++..+ ++.|.++...+..-
T Consensus 52 ipy~~e~LA~~~~~~~~~------V~~AL~~f~k~glIe~~e------d~~i~i~~~~~~~g 101 (121)
T PF09681_consen 52 IPYTAEMLALEFDRPVDT------VRLALAVFQKLGLIEIDE------DGVIYIPNWEKHQG 101 (121)
T ss_pred CCCcHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEec------CCeEEeecHHHHhC
Confidence 699999999999998877 999999999999999987 58888887655433
No 432
>PRK00082 hrcA heat-inducible transcription repressor; Provisional
Probab=62.67 E-value=9.9 Score=34.51 Aligned_cols=56 Identities=16% Similarity=0.230 Sum_probs=42.8
Q ss_pred HhhhCCCCCCHHHHHhh--cCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc-hhhh
Q 042491 41 IMHCHGSPITLPQLASG--INSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS-KWLL 108 (266)
Q Consensus 41 ~L~~~g~~~t~~eLA~~--~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s-~~l~ 108 (266)
.+.. ++|++..+||+. +++++.. +++-|..|...|++.+.-.+ ..+-.|..+ ++++
T Consensus 19 yi~~-~~pv~s~~l~~~~~l~~S~aT------IR~dm~~Le~~G~l~~~h~s-----agrIPT~kGYR~YV 77 (339)
T PRK00082 19 YIAT-GEPVGSKTLSKRYGLGVSSAT------IRNDMADLEELGLLEKPHTS-----SGRIPTDKGYRYFV 77 (339)
T ss_pred HHhc-CCCcCHHHHHHHhCCCCChHH------HHHHHHHHHhCCCcCCCcCC-----CCCCcCHHHHHHHH
Confidence 3444 589999999977 8888766 99999999999999988743 344566666 4444
No 433
>PRK10736 hypothetical protein; Provisional
Probab=62.65 E-value=7.4 Score=35.82 Aligned_cols=45 Identities=16% Similarity=0.083 Sum_probs=39.4
Q ss_pred cChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 36 LRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 36 lglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..|++.|.. .|.++++|+.++|++... +...|-.|.-.|++.+..
T Consensus 311 ~~v~~~l~~--~~~~iD~L~~~~~l~~~~------v~~~L~~LEl~G~v~~~~ 355 (374)
T PRK10736 311 PELLANVGD--EVTPVDVVAERAGQPVPE------VVTQLLELELAGWIAAVP 355 (374)
T ss_pred HHHHHhcCC--CCCCHHHHHHHHCcCHHH------HHHHHHHHHhCCcEEEcC
Confidence 357777764 689999999999999877 999999999999999987
No 434
>PF13814 Replic_Relax: Replication-relaxation
Probab=62.53 E-value=14 Score=30.05 Aligned_cols=64 Identities=25% Similarity=0.281 Sum_probs=47.1
Q ss_pred HhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccC----CCCCCceEeCchhchhhh
Q 042491 41 IMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSS----DGSEETMYGLTQISKWLL 108 (266)
Q Consensus 41 ~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~----~~~g~~~y~lt~~s~~l~ 108 (266)
.|... ..+|.++|+..+..+... ...+.+.|+-|...|++...... .+..+-.|.+|+.+..++
T Consensus 3 ~L~~~-r~lt~~Qi~~l~~~~~~~---~~~~~rrL~~L~~~glv~~~~~~~~~~~g~~~~vy~Lt~~G~~~l 70 (191)
T PF13814_consen 3 LLARH-RFLTTDQIARLLFPSSKS---ERTARRRLKRLRELGLVDRFRRRVGARGGSQPYVYYLTPAGARLL 70 (191)
T ss_pred hHHHh-cCcCHHHHHHHHcCCCcc---hHHHHHHHHHHhhCCcEEeecccccccCCCcceEEEECHHHHHHH
Confidence 34444 689999999999998762 22499999999999999887631 011245799999986433
No 435
>KOG2651 consensus rRNA adenine N-6-methyltransferase [RNA processing and modification]
Probab=62.02 E-value=20 Score=33.06 Aligned_cols=38 Identities=26% Similarity=0.357 Sum_probs=30.5
Q ss_pred CCCCceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHH
Q 042491 190 FDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVV 228 (266)
Q Consensus 190 ~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~ 228 (266)
+.+..+|||||.|.|++++-+.-.| ++++..+|-.+..
T Consensus 151 f~gi~~vvD~GaG~G~LSr~lSl~y-~lsV~aIegsq~~ 188 (476)
T KOG2651|consen 151 FTGIDQVVDVGAGQGHLSRFLSLGY-GLSVKAIEGSQRL 188 (476)
T ss_pred hcCCCeeEEcCCCchHHHHHHhhcc-CceEEEeccchHH
Confidence 6689999999999999998777666 4688888875443
No 436
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=61.98 E-value=6.9 Score=35.07 Aligned_cols=50 Identities=18% Similarity=0.290 Sum_probs=40.7
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHH-HHhccCcccccccCCCCCCceEeCchhch-hhh
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMR-MLVRKGVFAAHRSSDGSEETMYGLTQISK-WLL 108 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr-~L~~~gil~~~~~~~~~g~~~y~lt~~s~-~l~ 108 (266)
|++.+++.+|+.+|.+... +...++ .|+..|++...+ .|+. .|+.+. +|.
T Consensus 274 ~~~~~~~~~a~~lg~~~~~------~~~~~e~~Li~~~li~~~~------~gr~-~~~~~~~~~~ 325 (328)
T PRK00080 274 GGPVGLDTLAAALGEERDT------IEDVYEPYLIQQGFIQRTP------RGRV-ATPKAYEHLG 325 (328)
T ss_pred CCceeHHHHHHHHCCCcch------HHHHhhHHHHHcCCcccCC------chHH-HHHHHHHHhC
Confidence 5799999999999999988 999999 999999998666 3444 666663 443
No 437
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=61.27 E-value=13 Score=33.83 Aligned_cols=67 Identities=19% Similarity=0.123 Sum_probs=53.8
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC-------CCCeEEEEccCCCC--C-CCccEEEeccc
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV-------YEGVSHVGGDMLNA--V-PNADAVFMKVI 259 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~-------~~ri~~~~gd~~~~--~-p~aD~~~l~~v 259 (266)
...+|||.=+|.|.++..+++.-.-- ++.+|+ |..++-+++ .++|+.+.||-.+- . +.||-++|...
T Consensus 188 ~GE~V~DmFAGVGpfsi~~Ak~g~~~-V~A~diNP~A~~~L~eNi~LN~v~~~v~~i~gD~rev~~~~~~aDrIim~~p 265 (341)
T COG2520 188 EGETVLDMFAGVGPFSIPIAKKGRPK-VYAIDINPDAVEYLKENIRLNKVEGRVEPILGDAREVAPELGVADRIIMGLP 265 (341)
T ss_pred CCCEEEEccCCcccchhhhhhcCCce-EEEEecCHHHHHHHHHHHHhcCccceeeEEeccHHHhhhccccCCEEEeCCC
Confidence 46899999999999999998886543 888898 877765543 57799999998883 3 45999998765
No 438
>PF11972 HTH_13: HTH DNA binding domain; InterPro: IPR021068 The proteins in this entry have not been characterised. They contain a C-terminal helix-turn-helix DNA binding domain.
Probab=60.68 E-value=8.6 Score=25.01 Aligned_cols=46 Identities=17% Similarity=0.325 Sum_probs=30.5
Q ss_pred hhhHhhhCCCC-CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeC
Q 042491 38 LADIMHCHGSP-ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGL 100 (266)
Q Consensus 38 lfd~L~~~g~~-~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~l 100 (266)
+.|.+-. .| +|+..+|+.+|+.+.. ..++++- +|+ .|-- |.++|+.
T Consensus 4 Lidll~~--~P~Vsa~mva~~L~vT~~~------A~~li~e---Lg~-rEiT-----Gr~R~Ra 50 (54)
T PF11972_consen 4 LIDLLLS--RPLVSAPMVAKELGVTPQA------AQRLIAE---LGL-REIT-----GRGRYRA 50 (54)
T ss_pred HHHHHHh--CccccHHHHHHHhCCCHHH------HHHHHHH---hhc-eeec-----CCcccch
Confidence 5666665 44 4999999999999766 7776644 455 3322 3567753
No 439
>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=60.17 E-value=4.5 Score=29.16 Aligned_cols=58 Identities=12% Similarity=0.214 Sum_probs=34.4
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCC-CCceEeCchh
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGS-EETMYGLTQI 103 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~-g~~~y~lt~~ 103 (266)
|.-+|.. +..++..|-+.+|+|.+. ++..+.+|..+||-.+-..+.+. ..|.|+++.=
T Consensus 13 la~li~~--~~~nvp~L~~~TGmPrRT------~Qd~i~aL~~~~I~~~Fvq~G~R~~~GyY~i~~W 71 (90)
T PF09904_consen 13 LAYLIDS--GERNVPALMEATGMPRRT------IQDTIKALPELGIECEFVQDGERNNAGYYRISDW 71 (90)
T ss_dssp HHHHHHH--S-B-HHHHHHHH---HHH------HHHHHHGGGGGT-EEEEE--TTS-S--EEEEEE-
T ss_pred HHHHHhc--CCccHHHHHHHhCCCHhH------HHHHHHHhhcCCeEEEEEecCccCCCCcEEeeec
Confidence 3445555 445999999999999877 99999999999997763321111 2467887653
No 440
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=59.61 E-value=12 Score=31.34 Aligned_cols=37 Identities=16% Similarity=0.212 Sum_probs=34.1
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..++..+||+.+|++... ++.-|+.|...|+++...
T Consensus 32 G~~L~e~~La~~lgVSRtp------VREAL~~L~~eGLV~~~~ 68 (221)
T PRK11414 32 GARLITKNLAEQLGMSITP------VREALLRLVSVNALSVAP 68 (221)
T ss_pred CCccCHHHHHHHHCCCchh------HHHHHHHHHHCCCEEecC
Confidence 5778899999999999888 999999999999998776
No 441
>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=59.51 E-value=13 Score=31.99 Aligned_cols=61 Identities=21% Similarity=0.353 Sum_probs=38.8
Q ss_pred ceEEEecCCchHHHHHHHHHCCCCeEEEeecHHHHhhC-C----------C-----CCCeEEEEccCCCC--CC--CccE
Q 042491 194 RSLVDVGGGTGEELAEIVEFYPHIKGVNFDLPHVVATA-P----------V-----YEGVSHVGGDMLNA--VP--NADA 253 (266)
Q Consensus 194 ~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp~v~~~a-~----------~-----~~ri~~~~gd~~~~--~p--~aD~ 253 (266)
.+|||.=+|-|.-+.-++.. +.++++++...++... + . ..||+++.+|..+- .| .+|+
T Consensus 77 ~~VLDaTaGLG~Da~vlA~~--G~~V~~lErspvia~Ll~dGL~r~~~~~~~~~~~~~ri~l~~~d~~~~L~~~~~s~DV 154 (234)
T PF04445_consen 77 PSVLDATAGLGRDAFVLASL--GCKVTGLERSPVIAALLKDGLKRAQQDPELLAEAMRRIQLIHGDALEYLRQPDNSFDV 154 (234)
T ss_dssp --EEETT-TTSHHHHHHHHH--T--EEEEE--HHHHHHHHHHHHHHHHSTTTHHHHHHHEEEEES-CCCHCCCHSS--SE
T ss_pred CEEEECCCcchHHHHHHHcc--CCeEEEEECCHHHHHHHHHHHHHHHhCcHhHHHHHhCCEEEcCCHHHHHhhcCCCCCE
Confidence 49999999999999988764 6789999985554321 1 1 25899999998883 33 4999
Q ss_pred EEe
Q 042491 254 VFM 256 (266)
Q Consensus 254 ~~l 256 (266)
|++
T Consensus 155 VY~ 157 (234)
T PF04445_consen 155 VYF 157 (234)
T ss_dssp EEE
T ss_pred EEE
Confidence 987
No 442
>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=59.48 E-value=8.8 Score=28.35 Aligned_cols=36 Identities=22% Similarity=0.319 Sum_probs=33.2
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.-+|..++++.+|+++.. +.+-+..|+..|++...+
T Consensus 53 d~Is~sq~~e~tg~~~~~------V~~al~~Li~~~vI~~~g 88 (100)
T PF04492_consen 53 DRISNSQIAEMTGLSRDH------VSKALNELIRRGVIIRDG 88 (100)
T ss_pred ceeeHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEeCC
Confidence 578999999999999887 999999999999998776
No 443
>PF04760 IF2_N: Translation initiation factor IF-2, N-terminal region; InterPro: IPR006847 This region is found in the N-terminal half of translation initiation factor IF-2. It is found in two copies in IF-2 alpha isoforms, and in only one copy in the N-terminally truncated beta and gamma isoforms []. Its function is unknown.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1ND9_A.
Probab=59.46 E-value=4.8 Score=25.84 Aligned_cols=32 Identities=19% Similarity=0.390 Sum_probs=22.5
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhc-cCccccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVR-KGVFAAH 87 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~-~gil~~~ 87 (266)
+++++.|||+.+|++ ...+++.|.. .|+....
T Consensus 2 ~~i~V~elAk~l~v~---------~~~ii~~l~~~~Gi~~~~ 34 (54)
T PF04760_consen 2 EKIRVSELAKELGVP---------SKEIIKKLFKELGIMVKS 34 (54)
T ss_dssp -EE-TTHHHHHHSSS---------HHHHHHHH-HHHTS---S
T ss_pred CceEHHHHHHHHCcC---------HHHHHHHHHHhCCcCcCC
Confidence 357899999999997 7889999955 8988333
No 444
>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=59.41 E-value=7.6 Score=29.12 Aligned_cols=53 Identities=15% Similarity=0.324 Sum_probs=42.8
Q ss_pred HHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 33 AVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 33 a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
-.|+.|.+.|.+. +++|+.||.+.+.-+. .-....+.-+|+-|+..|++....
T Consensus 3 ~~E~~IM~~lW~~-~~~t~~eI~~~l~~~~--~~~~sTv~t~L~rL~~Kg~l~~~~ 55 (115)
T PF03965_consen 3 DLELEIMEILWES-GEATVREIHEALPEER--SWAYSTVQTLLNRLVEKGFLTREK 55 (115)
T ss_dssp HHHHHHHHHHHHH-SSEEHHHHHHHHCTTS--S--HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHHHhC-CCCCHHHHHHHHHhcc--ccchhHHHHHHHHHHhCCceeEee
Confidence 3577889999887 5699999999987651 123677999999999999999987
No 445
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=58.81 E-value=24 Score=30.08 Aligned_cols=65 Identities=8% Similarity=0.135 Sum_probs=42.0
Q ss_pred CCceEEEecCCchHHHHH--HHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEccCCC-CCCCccEEEec
Q 042491 192 GIRSLVDVGGGTGEELAE--IVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGGDMLN-AVPNADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~--l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~gd~~~-~~p~aD~~~l~ 257 (266)
+..+||-||||.-..-+. |++.-.+++++--+. |++.+. ...++|+++..+|-. .+.++++++..
T Consensus 24 ~~~~VLVVGGG~VA~RK~~~Ll~~gA~VtVVap~i~~el~~l-~~~~~i~~~~r~~~~~dl~g~~LViaA 92 (223)
T PRK05562 24 NKIKVLIIGGGKAAFIKGKTFLKKGCYVYILSKKFSKEFLDL-KKYGNLKLIKGNYDKEFIKDKHLIVIA 92 (223)
T ss_pred CCCEEEEECCCHHHHHHHHHHHhCCCEEEEEcCCCCHHHHHH-HhCCCEEEEeCCCChHHhCCCcEEEEC
Confidence 457899999998887643 555444444444354 343332 236789999988866 36678877765
No 446
>COG1189 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=57.70 E-value=24 Score=30.43 Aligned_cols=59 Identities=12% Similarity=0.020 Sum_probs=38.6
Q ss_pred HHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec--HHHHhhCCCCCCeEEEEc
Q 042491 182 LLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL--PHVVATAPVYEGVSHVGG 242 (266)
Q Consensus 182 ~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl--p~v~~~a~~~~ri~~~~g 242 (266)
.++.|+ .......++|||.++|.+.-.++++--. ++..+|. -+.....+..+||..++.
T Consensus 70 ale~F~-l~~k~kv~LDiGsSTGGFTd~lLq~gAk-~VyavDVG~~Ql~~kLR~d~rV~~~E~ 130 (245)
T COG1189 70 ALEEFE-LDVKGKVVLDIGSSTGGFTDVLLQRGAK-HVYAVDVGYGQLHWKLRNDPRVIVLER 130 (245)
T ss_pred HHHhcC-cCCCCCEEEEecCCCccHHHHHHHcCCc-EEEEEEccCCccCHhHhcCCcEEEEec
Confidence 455554 2246789999999999999988887332 4556665 344444444666665553
No 447
>COG2390 DeoR Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]
Probab=57.56 E-value=6.9 Score=35.22 Aligned_cols=36 Identities=14% Similarity=0.247 Sum_probs=33.1
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.++|-.|||+++|++... +.|+|..+...|+++-.-
T Consensus 25 ~gltQ~eIA~~LgiSR~~------v~rlL~~Ar~~GiV~I~i 60 (321)
T COG2390 25 EGLTQSEIAERLGISRAT------VSRLLAKAREEGIVKISI 60 (321)
T ss_pred cCCCHHHHHHHhCCCHHH------HHHHHHHHHHCCeEEEEe
Confidence 579999999999999887 999999999999998665
No 448
>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=57.48 E-value=34 Score=30.60 Aligned_cols=65 Identities=20% Similarity=0.290 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC--CCeEEEeecHHHH
Q 042491 163 FNNSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP--HIKGVNFDLPHVV 228 (266)
Q Consensus 163 ~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P--~l~~~~~Dlp~v~ 228 (266)
......+.+..........+.+.+. .+.+..+|+=+|||.-.+...+.+.+| +-++++.|-|+..
T Consensus 244 ~~~~v~~~i~~~~~~l~~~i~~~~~-~~~~~~~I~~vGGGA~ll~~~Ik~~~~~~~~~i~i~~~pqfA 310 (318)
T PF06406_consen 244 VIDDVSEVIEEAVEELINRILRELG-DFSDIDRIFFVGGGAILLKDAIKEAFPVPNERIVIVDDPQFA 310 (318)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHT-TS-S-SEEEEESTTHHHHHHHHHHHHT--GGGEE--SSGGGH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHh-hhccCCeEEEECCcHHHHHHHHHHhhCCCCCcEEECCCchhh
Confidence 3344445555544444555555543 266778999999999999999999987 5678888888754
No 449
>PF01371 Trp_repressor: Trp repressor protein; InterPro: IPR000831 The Trp repressor (TrpR) binds to at least five operators in the Escherichia coli genome, repressing gene expression. The operators at which it binds vary considerably in DNA sequence and location within the promoter; when bound to the Trp operon it recognises the sequence 5'-ACTAGT-3' and acts to prevent the initiation of transcription. The TrpR controls the trpEDCBA (trpO) operon and the genes for trpR, aroH, mtr and aroL, which are involved in the biosynthesis and uptake of the amino acid tryptophan []. The repressor binds to the operators only in the presence of L-tryptophan, thereby controlling the intracellular level of its effector; the complex also regulates Trp repressor biosynthesis by binding to its own regulatory region. TrpR acts as a dimer that is composed of identical 6-helical subunits, where four of the helices form the core of the protein and intertwine with the corresponding helices from the other subunit.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3FRW_H 3KOR_A 3SSW_N 1P6Z_N 1CO0_B 1JHG_A 1WRT_S 1WRS_R 1WRP_R 1RCS_B ....
Probab=57.30 E-value=7.4 Score=27.98 Aligned_cols=40 Identities=20% Similarity=0.266 Sum_probs=30.1
Q ss_pred HHHHhcChhh-HhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHh
Q 042491 31 KSAVELRLAD-IMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLV 79 (266)
Q Consensus 31 ~~a~elglfd-~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~ 79 (266)
..+-++.|+. .|. +..|..|||+.+|++--. +.|.-|.|.
T Consensus 34 ~l~~R~~va~~lL~---~g~syreIa~~tgvS~aT------ItRvsr~Lk 74 (87)
T PF01371_consen 34 ALAQRWQVAKELLD---EGKSYREIAEETGVSIAT------ITRVSRCLK 74 (87)
T ss_dssp HHHHHHHHHHHHHH---TTSSHHHHHHHHTSTHHH------HHHHHHHHH
T ss_pred HHHHHHHHHHHHHH---CCCCHHHHHHHhCCCHHH------HHHHHHHHH
Confidence 3456889998 776 579999999999998544 666655553
No 450
>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=57.17 E-value=7.5 Score=31.87 Aligned_cols=34 Identities=26% Similarity=0.276 Sum_probs=31.5
Q ss_pred CCHHHHHhhc-CCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 49 ITLPQLASGI-NSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 49 ~t~~eLA~~~-g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.|-.+||+.+ |+++.. +.|.++.|+..|++...+
T Consensus 71 pSN~~La~r~~G~s~~t------lrR~l~~LveaGLI~rrD 105 (177)
T PF03428_consen 71 PSNAQLAERLNGMSERT------LRRHLARLVEAGLIVRRD 105 (177)
T ss_pred cCHHHHHHHHcCCCHHH------HHHHHHHHHHCCCeeecc
Confidence 4789999999 999888 999999999999999976
No 451
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=57.13 E-value=6.8 Score=28.09 Aligned_cols=36 Identities=22% Similarity=0.258 Sum_probs=31.7
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.-+|+..||+++++.- ++.++.||-|...|++....
T Consensus 40 K~ITps~lserlkI~~------SlAr~~Lr~L~~kG~Ik~V~ 75 (86)
T PRK09334 40 KIVTPYTLASKYGIKI------SVAKKVLRELEKRGVLVLYS 75 (86)
T ss_pred cEEcHHHHHHHhcchH------HHHHHHHHHHHHCCCEEEEe
Confidence 6789999999999975 45999999999999997765
No 452
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=57.01 E-value=9.9 Score=35.23 Aligned_cols=64 Identities=13% Similarity=0.052 Sum_probs=48.2
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeecH-HHHhhCCC--------CCCeEEEEccCCCCC----C---CccEEE
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDLP-HVVATAPV--------YEGVSHVGGDMLNAV----P---NADAVF 255 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dlp-~v~~~a~~--------~~ri~~~~gd~~~~~----p---~aD~~~ 255 (266)
..++|||+=|=+|.++...+..-- .++|.+|+. ..++-+++ .+++.++.+|.|+-+ . .||+|+
T Consensus 217 ~GkrvLNlFsYTGgfSv~Aa~gGA-~~vt~VD~S~~al~~a~~N~~LNg~~~~~~~~i~~Dvf~~l~~~~~~g~~fDlIi 295 (393)
T COG1092 217 AGKRVLNLFSYTGGFSVHAALGGA-SEVTSVDLSKRALEWARENAELNGLDGDRHRFIVGDVFKWLRKAERRGEKFDLII 295 (393)
T ss_pred cCCeEEEecccCcHHHHHHHhcCC-CceEEEeccHHHHHHHHHHHHhcCCCccceeeehhhHHHHHHHHHhcCCcccEEE
Confidence 378999999999999988877633 278888983 33443332 578999999999832 2 399998
Q ss_pred e
Q 042491 256 M 256 (266)
Q Consensus 256 l 256 (266)
+
T Consensus 296 l 296 (393)
T COG1092 296 L 296 (393)
T ss_pred E
Confidence 6
No 453
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=56.91 E-value=9.7 Score=32.63 Aligned_cols=45 Identities=20% Similarity=0.316 Sum_probs=37.3
Q ss_pred CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491 46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT 101 (266)
Q Consensus 46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt 101 (266)
|..+ |-.+||+.+|++... ++.-|+.|.+.|+++... |.|.|-..
T Consensus 31 G~~LpsE~eLa~~lgVSRtp------VREAL~~L~~eGlv~~~~-----~~G~~V~~ 76 (254)
T PRK09464 31 GEKLPPERELAKQFDVSRPS------LREAIQRLEAKGLLLRRQ-----GGGTFVQS 76 (254)
T ss_pred CCcCCCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEec-----CceeEEec
Confidence 5667 889999999999877 999999999999998776 24656544
No 454
>PRK15466 carboxysome structural protein EutK; Provisional
Probab=56.24 E-value=9 Score=30.82 Aligned_cols=43 Identities=14% Similarity=0.201 Sum_probs=38.4
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
.++|+.|+|...+++-++ .+.-|..|.+.|-|.+.+ .+|++.+
T Consensus 123 ~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~-------~~~~~~~ 165 (166)
T PRK15466 123 QGMTAGEVAAHFGWPLEK------ARNALEQLFSAGTLRKRS-------SRYRLKP 165 (166)
T ss_pred ccccHHHHHHHhCCcHHH------HHHHHHHHHhccchhhcc-------ccccccC
Confidence 679999999999999877 888999999999999988 7898754
No 455
>PHA02591 hypothetical protein; Provisional
Probab=55.99 E-value=9.3 Score=26.77 Aligned_cols=31 Identities=16% Similarity=0.222 Sum_probs=23.4
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHH
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMR 76 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr 76 (266)
+...|.+ .+.|.++||+.+|++... +.+.++
T Consensus 51 vA~eL~e--qGlSqeqIA~~LGVsqet------VrKYL~ 81 (83)
T PHA02591 51 VTHELAR--KGFTVEKIASLLGVSVRK------VRRYLE 81 (83)
T ss_pred HHHHHHH--cCCCHHHHHHHhCCCHHH------HHHHHh
Confidence 3445565 579999999999998765 666654
No 456
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=55.79 E-value=10 Score=32.61 Aligned_cols=37 Identities=19% Similarity=0.289 Sum_probs=33.4
Q ss_pred CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..+ |-.+||+.+|++... ++.-|+.|.+.|+++...
T Consensus 30 G~~LpsE~eLa~~~gVSRtp------VREAL~~L~~eGlV~~~~ 67 (257)
T PRK10225 30 GERLPPEREIAEMLDVTRTV------VREALIMLEIKGLVEVRR 67 (257)
T ss_pred CCcCcCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEec
Confidence 5677 688999999999877 999999999999998776
No 457
>PRK10430 DNA-binding transcriptional activator DcuR; Provisional
Probab=55.71 E-value=9.6 Score=32.16 Aligned_cols=36 Identities=17% Similarity=0.145 Sum_probs=32.6
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.+.|.++||+.+++++.. ++..++.|+..|++.+.-
T Consensus 177 ~g~s~~eIA~~l~iS~~T------v~~~~~~~~~~~~~~~~~ 212 (239)
T PRK10430 177 YEFSTDELANAVNISRVS------CRKYLIWLVNCHILFTSI 212 (239)
T ss_pred CCcCHHHHHHHhCchHHH------HHHHHHHHHhCCEEEEEe
Confidence 578999999999999888 999999999999996554
No 458
>PRK13626 transcriptional regulator SgrR; Provisional
Probab=55.39 E-value=9.3 Score=36.94 Aligned_cols=37 Identities=19% Similarity=0.288 Sum_probs=34.8
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccccccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRS 89 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~ 89 (266)
..+|++|||+.+.++++. ++.+|+-|...|.+.....
T Consensus 22 ~~~~l~~la~~l~cs~R~------~~~~l~~~~~~gwl~w~~~ 58 (552)
T PRK13626 22 QETTLNELAELLNCSRRH------MRTLLNTMQQRGWLTWQAE 58 (552)
T ss_pred ceeeHHHHHHHhcCChhH------HHHHHHHHHHCCCeeeecC
Confidence 578999999999999998 9999999999999999883
No 459
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=54.49 E-value=11 Score=31.87 Aligned_cols=44 Identities=18% Similarity=0.226 Sum_probs=37.0
Q ss_pred CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeC
Q 042491 46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGL 100 (266)
Q Consensus 46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~l 100 (266)
|..+ |-.+||+.+|++... ++.-|+.|...|++.... |.|.|-.
T Consensus 28 G~~LPsE~eLae~~gVSRt~------VReAL~~L~~eGlv~~~~-----g~G~~V~ 72 (239)
T PRK04984 28 GSILPAERELSELIGVTRTT------LREVLQRLARDGWLTIQH-----GKPTKVN 72 (239)
T ss_pred CCcCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEeC-----CCeeEeC
Confidence 5677 788999999999777 999999999999999876 3466654
No 460
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=54.40 E-value=26 Score=29.27 Aligned_cols=62 Identities=13% Similarity=0.033 Sum_probs=39.5
Q ss_pred CceEEEecCCchHHH--HHHHHHCCCCeEEEeec---HHHHhhCCCCCCeEEEEccCCC-CCCCccEEEec
Q 042491 193 IRSLVDVGGGTGEEL--AEIVEFYPHIKGVNFDL---PHVVATAPVYEGVSHVGGDMLN-AVPNADAVFMK 257 (266)
Q Consensus 193 ~~~vvDvGgG~G~~~--~~l~~~~P~l~~~~~Dl---p~v~~~a~~~~ri~~~~gd~~~-~~p~aD~~~l~ 257 (266)
.++||=||||.-... ..|++.- .++++++. ++..+. ....+|+++.+++-. .+.++|+++.+
T Consensus 9 gk~vlVvGgG~va~rk~~~Ll~~g--a~VtVvsp~~~~~l~~l-~~~~~i~~~~~~~~~~dl~~~~lVi~a 76 (205)
T TIGR01470 9 GRAVLVVGGGDVALRKARLLLKAG--AQLRVIAEELESELTLL-AEQGGITWLARCFDADILEGAFLVIAA 76 (205)
T ss_pred CCeEEEECcCHHHHHHHHHHHHCC--CEEEEEcCCCCHHHHHH-HHcCCEEEEeCCCCHHHhCCcEEEEEC
Confidence 368899998875544 3344433 46777764 232222 224589999999876 36678888764
No 461
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=54.36 E-value=11 Score=32.13 Aligned_cols=37 Identities=16% Similarity=0.298 Sum_probs=33.8
Q ss_pred CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..+ +-.+||+.+|++... ++.-|+.|...|+++...
T Consensus 28 G~~LPsE~eLa~~~gVSRtp------VREAL~~L~~eGlV~~~~ 65 (251)
T PRK09990 28 GQALPSERRLCEKLGFSRSA------LREGLTVLRGRGIIETAQ 65 (251)
T ss_pred CCcCcCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEeC
Confidence 6778 789999999999877 999999999999998776
No 462
>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=54.20 E-value=11 Score=31.81 Aligned_cols=37 Identities=22% Similarity=0.345 Sum_probs=33.7
Q ss_pred CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..+ |-.+||+.+|++... ++.-|+.|...|+++...
T Consensus 27 G~~LpsE~~La~~lgVSRtp------VREAL~~Le~eGlV~~~~ 64 (235)
T TIGR02812 27 GSILPAERELSELIGVTRTT------LREVLQRLARDGWLTIQH 64 (235)
T ss_pred CCcCcCHHHHHHHHCcCHHH------HHHHHHHHHHCCCEEEeC
Confidence 5678 799999999999877 999999999999998776
No 463
>PF00376 MerR: MerR family regulatory protein; InterPro: IPR000551 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 is the MerR subfamily. MerR, which is found in many bacterial species mediates the mercuric-dependent induction of the mercury resistance operon. In the absence of mercury merR represses transcription by binding tightly, as a dimer, to the 'mer' operator region; when mercury is present the dimeric complex binds a single ion and becomes a potent transcriptional activator, while remaining bound to the mer site. Members of the family include the mercuric resistance operon regulatory protein merR; Bacillus subtilis bltR and bmrR; Bacillus glnR; Streptomyces coelicolor hspR; Bradyrhizobium japonicum nolA; Escherichia coli superoxide response regulator soxR; and Streptomyces lividans transcriptional activator tipA [, , , , , ]. Other members include hypothetical proteins from E. coli, B. subtilis and Haemophilus influenzae. 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; PDB: 3HH0_A 2DG6_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q07_A 1Q06_A 1Q05_B ....
Probab=54.16 E-value=15 Score=21.81 Aligned_cols=27 Identities=22% Similarity=0.395 Sum_probs=21.5
Q ss_pred CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccc
Q 042491 50 TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA 86 (266)
Q Consensus 50 t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~ 86 (266)
|+.|+|+.+|+ -.+.||.....|++..
T Consensus 1 ti~e~A~~~gv----------s~~tlR~ye~~Gll~~ 27 (38)
T PF00376_consen 1 TIGEVAKLLGV----------SPRTLRYYEREGLLPP 27 (38)
T ss_dssp EHHHHHHHHTS-----------HHHHHHHHHTTSS-S
T ss_pred CHHHHHHHHCC----------CHHHHHHHHHCCCCCC
Confidence 46899999999 5678899999999943
No 464
>PF01358 PARP_regulatory: Poly A polymerase regulatory subunit; InterPro: IPR000176 This family contains viral proteins that are bifunctional, acting as both an mRNA cap-specific RNA 2'-O-methyltransferase, which methylates the ribose 2' OH group of the first transcribed nucleotide, thereby producing a 2'-o-methylpurine cap and a poly(A) polymerase processivity factor which binds to Poly(A) but has no catalytic activity. The structure of this protein is known [].; GO: 0004483 mRNA (nucleoside-2'-O-)-methyltransferase activity, 0006370 mRNA capping, 0006397 mRNA processing; PDB: 4DCG_A 1B42_A 3ERC_A 1AV6_A 2VP3_A 1JTF_A 1JTE_A 1VP3_A 3ER9_A 1P39_A ....
Probab=53.55 E-value=18 Score=31.96 Aligned_cols=55 Identities=18% Similarity=0.356 Sum_probs=36.6
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCCe----EEEeecHHHHhhCCCCCCeEEEEccCCC
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHIK----GVNFDLPHVVATAPVYEGVSHVGGDMLN 246 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l~----~~~~Dlp~v~~~a~~~~ri~~~~gd~~~ 246 (266)
.+...||=+|.+.|.+..-|...||+++ .+++|-..-+...++...|+++ -+||+
T Consensus 57 ~~~~~VVYiGsApG~Hi~~L~~lf~~~~~~i~wvLiDp~~f~~~l~~l~~v~l~-~~fft 115 (294)
T PF01358_consen 57 DGPVTVVYIGSAPGTHIPFLFDLFPDLKVPIKWVLIDPRPFCISLEELSNVTLI-QRFFT 115 (294)
T ss_dssp TT-EEEEEES-SS-HHHHHHHHHHHHTT--EEEEEEESS---GGGTT-TTEEEE-ES---
T ss_pred CCceEEEEecCCCcchHHHHHHHHHhcCCceEEEEECCcchhhhhcccCcEEee-hhhCC
Confidence 4568999999999999999999999966 8999985555455555558877 45555
No 465
>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=53.26 E-value=19 Score=25.24 Aligned_cols=50 Identities=22% Similarity=0.317 Sum_probs=38.6
Q ss_pred HHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccc
Q 042491 30 LKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA 86 (266)
Q Consensus 30 L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~ 86 (266)
.....+..++...... ..++.++||+.++++.+. +++++.-+...|.+.-
T Consensus 7 ~~~~~~~~l~~l~~~y-~~i~~~~i~~~~~l~~~~------vE~~i~~~i~~~~l~~ 56 (88)
T smart00088 7 QRKIRLTNLLQLSEPY-SSISLSDLAKLLGLSVPE------VEKLVSKAIRDGEISA 56 (88)
T ss_pred HHHHHHHHHHHHhHHh-ceeeHHHHHHHhCcCHHH------HHHHHHHHHHCCCeEE
Confidence 3444455555555543 789999999999998776 9999999999998864
No 466
>smart00753 PAM PCI/PINT associated module.
Probab=53.26 E-value=19 Score=25.24 Aligned_cols=50 Identities=22% Similarity=0.317 Sum_probs=38.6
Q ss_pred HHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccc
Q 042491 30 LKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAA 86 (266)
Q Consensus 30 L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~ 86 (266)
.....+..++...... ..++.++||+.++++.+. +++++.-+...|.+.-
T Consensus 7 ~~~~~~~~l~~l~~~y-~~i~~~~i~~~~~l~~~~------vE~~i~~~i~~~~l~~ 56 (88)
T smart00753 7 QRKIRLTNLLQLSEPY-SSISLSDLAKLLGLSVPE------VEKLVSKAIRDGEISA 56 (88)
T ss_pred HHHHHHHHHHHHhHHh-ceeeHHHHHHHhCcCHHH------HHHHHHHHHHCCCeEE
Confidence 3444455555555543 789999999999998776 9999999999998864
No 467
>PF09106 SelB-wing_2: Elongation factor SelB, winged helix ; InterPro: IPR015190 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 2". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2V9V_A 1LVA_A 2PLY_A 2UWM_A.
Probab=53.22 E-value=14 Score=24.21 Aligned_cols=36 Identities=14% Similarity=0.184 Sum_probs=30.0
Q ss_pred CCCCHHHHHhhc---CCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPITLPQLASGI---NSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~t~~eLA~~~---g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.+++.++|-+++ ++++.. ...+|..|+..|.+...+
T Consensus 16 ~G~~keeLrsrl~~~~l~~k~------~~~ll~~l~~~g~l~~~g 54 (59)
T PF09106_consen 16 PGMPKEELRSRLFKPRLPPKL------FNALLEALVAEGRLKVEG 54 (59)
T ss_dssp S-EEHHHHHHHCST-TS-HCC------HHHHHHHHHHTTSEEEES
T ss_pred cCcCHHHHHHHHhhccCCHHH------HHHHHHHHHHCCCeeeEC
Confidence 468889999888 667666 999999999999999987
No 468
>COG0640 ArsR Predicted transcriptional regulators [Transcription]
Probab=53.21 E-value=18 Score=25.17 Aligned_cols=55 Identities=18% Similarity=0.302 Sum_probs=45.6
Q ss_pred HHHHHHHHhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 27 SMALKSAVELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 27 ~~~L~~a~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..+|....+..++..|.+. .+.++.+|+..++++... +.+.|..|...|++....
T Consensus 19 ~~~l~~~~r~~il~~l~~~-~~~~~~~l~~~~~~~~~~------v~~hL~~L~~~glv~~~~ 73 (110)
T COG0640 19 LKALADPTRLEILSLLAEG-GELTVGELAEALGLSQST------VSHHLKVLREAGLVELRR 73 (110)
T ss_pred HHHhCCHHHHHHHHHHHhc-CCccHHHHHHHHCCChhH------HHHHHHHHHHCCCeEEEe
Confidence 3455555777888888862 478999999999998877 999999999999999966
No 469
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=53.06 E-value=7.2 Score=23.97 Aligned_cols=24 Identities=13% Similarity=0.344 Sum_probs=14.9
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHH
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMR 76 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr 76 (266)
.+.|..+||+.+|.++.. +.+.|+
T Consensus 19 ~G~s~~~IA~~lg~s~sT------V~relk 42 (44)
T PF13936_consen 19 QGMSIREIAKRLGRSRST------VSRELK 42 (44)
T ss_dssp S---HHHHHHHTT--HHH------HHHHHH
T ss_pred cCCCHHHHHHHHCcCcHH------HHHHHh
Confidence 569999999999998654 766654
No 470
>COG1386 scpB Chromosome segregation and condensation protein B [DNA replication, recombination and repair]
Probab=52.98 E-value=30 Score=28.56 Aligned_cols=60 Identities=17% Similarity=0.319 Sum_probs=47.5
Q ss_pred hcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCC-CceEeCchhc
Q 042491 35 ELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE-ETMYGLTQIS 104 (266)
Q Consensus 35 elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g-~~~y~lt~~s 104 (266)
.+.+..+|+=. .|+|-.+|-+.-|+. ..++++.|...|++.+.+..|..| +-.|..|+..
T Consensus 94 alEtLAiIAY~-QPiTR~eI~~iRGv~---------~~~~i~~L~e~glI~~~g~~~~~Grp~ly~tT~~F 154 (184)
T COG1386 94 ALETLAIIAYK-QPVTRSEIEEIRGVA---------VSQVISTLLERGLIREVGRRDTPGRPYLYGTTEKF 154 (184)
T ss_pred HHHHHHHHHHc-CCccHHHHHHHhCcc---------HHHHHHHHHHCCCeEecCCCCCCCCceeeeccHHH
Confidence 34566666654 799999999999996 788999999999999998654444 4568888854
No 471
>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.
Probab=52.84 E-value=14 Score=32.68 Aligned_cols=64 Identities=13% Similarity=0.077 Sum_probs=45.9
Q ss_pred CCceEEEecCCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCC--------CCCeEEEEccCCCCC------CCccEEEe
Q 042491 192 GIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPV--------YEGVSHVGGDMLNAV------PNADAVFM 256 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~--------~~ri~~~~gd~~~~~------p~aD~~~l 256 (266)
..++|||+=|=+|.++...++. ...+++.+|. ...++.+++ .++++++.+|.|+.+ ..||+|++
T Consensus 123 ~gkrvLnlFsYTGgfsv~Aa~g-GA~~v~~VD~S~~al~~a~~N~~lNg~~~~~~~~~~~Dvf~~l~~~~~~~~fD~IIl 201 (286)
T PF10672_consen 123 KGKRVLNLFSYTGGFSVAAAAG-GAKEVVSVDSSKRALEWAKENAALNGLDLDRHRFIQGDVFKFLKRLKKGGRFDLIIL 201 (286)
T ss_dssp TTCEEEEET-TTTHHHHHHHHT-TESEEEEEES-HHHHHHHHHHHHHTT-CCTCEEEEES-HHHHHHHHHHTT-EEEEEE
T ss_pred CCCceEEecCCCCHHHHHHHHC-CCCEEEEEeCCHHHHHHHHHHHHHcCCCccceEEEecCHHHHHHHHhcCCCCCEEEE
Confidence 4579999999999999986653 4457899998 444544432 478999999998732 13999986
No 472
>COG1064 AdhP Zn-dependent alcohol dehydrogenases [General function prediction only]
Probab=52.81 E-value=30 Score=31.40 Aligned_cols=68 Identities=21% Similarity=0.208 Sum_probs=45.1
Q ss_pred CCCCceEEEec-CCchHHHHHHHHHCCCCeEEEeec-HHHHhhCCCCCCeEEEEc---cCCCCCCC-ccEEEecc
Q 042491 190 FDGIRSLVDVG-GGTGEELAEIVEFYPHIKGVNFDL-PHVVATAPVYEGVSHVGG---DMLNAVPN-ADAVFMKV 258 (266)
Q Consensus 190 ~~~~~~vvDvG-gG~G~~~~~l~~~~P~l~~~~~Dl-p~v~~~a~~~~ri~~~~g---d~~~~~p~-aD~~~l~~ 258 (266)
.....+|+=+| ||-|+++.+++++.- .+++.+|. ++-.+.+++...-.++.. |+.+++++ +|+++-.-
T Consensus 164 ~~pG~~V~I~G~GGlGh~avQ~Aka~g-a~Via~~~~~~K~e~a~~lGAd~~i~~~~~~~~~~~~~~~d~ii~tv 237 (339)
T COG1064 164 VKPGKWVAVVGAGGLGHMAVQYAKAMG-AEVIAITRSEEKLELAKKLGADHVINSSDSDALEAVKEIADAIIDTV 237 (339)
T ss_pred CCCCCEEEEECCcHHHHHHHHHHHHcC-CeEEEEeCChHHHHHHHHhCCcEEEEcCCchhhHHhHhhCcEEEECC
Confidence 34456777777 588999999999877 89999998 555555555333344443 33344444 88877543
No 473
>PF12692 Methyltransf_17: S-adenosyl-L-methionine methyltransferase; PDB: 3IHT_B.
Probab=52.77 E-value=1.1e+02 Score=24.57 Aligned_cols=56 Identities=18% Similarity=0.304 Sum_probs=33.1
Q ss_pred HHHHHHHHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCCCCeEEEeec
Q 042491 165 NSFNKAMACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYPHIKGVNFDL 224 (266)
Q Consensus 165 ~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P~l~~~~~Dl 224 (266)
..|.+-|++-... .......+. .-..-|+|+|=|.|..=-.|.+.+|+-++.+||+
T Consensus 5 Dsfi~RmtaQR~~-L~~a~~~v~---~~~G~VlElGLGNGRTydHLRe~~p~R~I~vfDR 60 (160)
T PF12692_consen 5 DSFIRRMTAQRDC-LNWAAAQVA---GLPGPVLELGLGNGRTYDHLREIFPDRRIYVFDR 60 (160)
T ss_dssp HHHHHHHHHHHHH-HHHHHHHTT---T--S-EEEE--TTSHHHHHHHHH--SS-EEEEES
T ss_pred HHHHHHHHHHHHH-HHHHHHHhc---CCCCceEEeccCCCccHHHHHHhCCCCeEEEEee
Confidence 4555556443222 223333332 1237999999999999999999999999999998
No 474
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=52.53 E-value=13 Score=31.96 Aligned_cols=37 Identities=30% Similarity=0.385 Sum_probs=32.8
Q ss_pred CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..+ +-.|||+.+|++... ++.-|+.|...|+++...
T Consensus 23 G~~LpsE~eLae~~gVSRtp------VREAL~~Le~~GlV~~~~ 60 (253)
T PRK10421 23 GMKLPAERQLAMQLGVSRNS------LREALAKLVSEGVLLSRR 60 (253)
T ss_pred CCcCCCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEeC
Confidence 5667 688999999999877 999999999999998765
No 475
>PF09079 Cdc6_C: CDC6, C terminal ; InterPro: IPR015163 The C-terminal domain of CDC6 assumes a winged helix fold, with a five alpha-helical bundle (alpha15-alpha19) structure, backed on one side by three beta strands (beta6-beta8). It has been shown that this domain acts as a DNA-localisation factor, however its exact function is, as yet, unknown. Putative functions include: (1) mediation of protein-protein interactions and (2) regulation of nucleotide binding and hydrolysis. Mutagenesis studies have shown that this domain is essential for appropriate Cdc6 activity []. ; PDB: 2QBY_A 2V1U_A 1W5T_A 1W5S_B 1FNN_B.
Probab=52.48 E-value=24 Score=24.76 Aligned_cols=47 Identities=11% Similarity=0.142 Sum_probs=30.5
Q ss_pred CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEe
Q 042491 50 TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYG 99 (266)
Q Consensus 50 t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~ 99 (266)
.+.+|++..|++|.. .+.+..+|.-|...||+.....+.+.+.|+++
T Consensus 24 ~Y~~lc~~~~~~pls---~~r~~~~l~eL~~~gli~~~~~~~G~~~G~~~ 70 (85)
T PF09079_consen 24 VYEELCESLGVDPLS---YRRFSDYLSELEMLGLIESERKGRGRGRGRTR 70 (85)
T ss_dssp HHHHHHHHTTS-------HHHHHHHHHHHHHTTSEEEEEEE-TT-CTEEE
T ss_pred HHHHHHHHcCCCCCC---HHHHHHHHHHHHhCCCeEEEeecCCCCCCeEE
Confidence 467899999998887 66788888899999999877643222234443
No 476
>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=52.16 E-value=13 Score=25.45 Aligned_cols=64 Identities=13% Similarity=0.189 Sum_probs=40.5
Q ss_pred hHhhhCCCCCCHHHHHhhcCCC--CCCCCchhhHHHHHHHHhccCcccccccCCCCC--CceEeCchhch
Q 042491 40 DIMHCHGSPITLPQLASGINSS--CPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSE--ETMYGLTQISK 105 (266)
Q Consensus 40 d~L~~~g~~~t~~eLA~~~g~~--~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g--~~~y~lt~~s~ 105 (266)
-.|.. +|.+--+|.+.+.-. .........+...|+-|...|++........++ ...|++|+.++
T Consensus 3 ~~L~~--~~~~Gyei~~~l~~~~~~~~~i~~g~lY~~L~~Le~~gli~~~~~~~~~~~~rk~Y~iT~~G~ 70 (75)
T PF03551_consen 3 GLLSE--GPMHGYEIKQELEERTGGFWKISPGSLYPALKRLEEEGLIESRWEEEGNGRPRKYYRITEKGR 70 (75)
T ss_dssp HHHHH--S-EEHHHHHHHHHHCSTTTEETTHHHHHHHHHHHHHTTSEEEEEEEETTSSEEEEEEESHHHH
T ss_pred hhhcc--CCCcHHHHHHHHHHHhCCCcccChhHHHHHHHHHHhCCCEEEeeeccCCCCCCEEEEECHHHH
Confidence 34444 567777776655321 101122456999999999999999887532122 23599999986
No 477
>PF14557 AphA_like: Putative AphA-like transcriptional regulator
Probab=51.67 E-value=32 Score=27.88 Aligned_cols=74 Identities=15% Similarity=0.189 Sum_probs=51.6
Q ss_pred HHHHHhcChhhHhhhCCCCCCHHHHHhhcCC--CCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491 30 LKSAVELRLADIMHCHGSPITLPQLASGINS--SCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK 105 (266)
Q Consensus 30 L~~a~elglfd~L~~~g~~~t~~eLA~~~g~--~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~ 105 (266)
-+-++++++.-.|+. +|.+++++|+.+.- +.-...-..++.--+..|.-.|+++..+.........|.+|+-++
T Consensus 8 pre~v~L~vLG~la~--~p~~~~~va~~vrh~~sr~~gps~~Ll~~sie~Lr~eGlve~~~g~g~e~~a~l~iT~~Gr 83 (175)
T PF14557_consen 8 PREAVRLCVLGTLAR--GPRRYEEVAGAVRHFASRIWGPSLDLLGTSIELLREEGLVEAVDGEGMEDNALLAITDAGR 83 (175)
T ss_pred HHHHHHHHHHHHHhc--CCcCHHHHHHHHHHhccccccCchhhhhhHHHHHHhcCCcccccccCCCccceeeeCcchH
Confidence 356788888899997 89999999997741 111111135689999999999999988421000134688988764
No 478
>PRK03837 transcriptional regulator NanR; Provisional
Probab=51.56 E-value=14 Score=31.26 Aligned_cols=37 Identities=19% Similarity=0.337 Sum_probs=33.7
Q ss_pred CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..+ +-.+||+.+|++... ++.-|+.|...|+++...
T Consensus 34 G~~Lp~E~~Lae~~gVSRt~------VREAL~~L~~eGlv~~~~ 71 (241)
T PRK03837 34 GDQLPSERELMAFFGVGRPA------VREALQALKRKGLVQISH 71 (241)
T ss_pred CCCCCCHHHHHHHhCCCHHH------HHHHHHHHHHCCCEEEec
Confidence 5678 899999999999877 999999999999999876
No 479
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=51.41 E-value=12 Score=23.34 Aligned_cols=32 Identities=9% Similarity=0.125 Sum_probs=22.5
Q ss_pred ChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHH
Q 042491 37 RLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRM 77 (266)
Q Consensus 37 glfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~ 77 (266)
.++..+. .+.+..+||+.+|++... +.+.++-
T Consensus 10 ~i~~~~~---~g~s~~eia~~l~is~~t------v~~~~~~ 41 (58)
T smart00421 10 EVLRLLA---EGLTNKEIAERLGISEKT------VKTHLSN 41 (58)
T ss_pred HHHHHHH---cCCCHHHHHHHHCCCHHH------HHHHHHH
Confidence 3444443 458999999999998765 6655553
No 480
>KOG2165 consensus Anaphase-promoting complex (APC), subunit 2 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=51.31 E-value=14 Score=36.55 Aligned_cols=48 Identities=21% Similarity=0.358 Sum_probs=40.1
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCch
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQ 102 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~ 102 (266)
..-|.+|+|+.+|++... ++|.|......|++.+.... ..++.|+.++
T Consensus 615 ~twt~eelse~l~ip~~~------lrrrL~fWi~~GvL~e~~~~--s~tgt~T~iE 662 (765)
T KOG2165|consen 615 NTWTLEELSESLGIPVPA------LRRRLSFWIQKGVLREEPII--SDTGTLTVIE 662 (765)
T ss_pred ccccHHHHHHHhCCCHHH------HHHHHHHHHHcCeeecCCCC--CCCceeeecc
Confidence 579999999999999877 99999999999999988721 1146777777
No 481
>COG5340 Predicted transcriptional regulator [Transcription]
Probab=51.14 E-value=11 Score=32.10 Aligned_cols=45 Identities=18% Similarity=0.217 Sum_probs=40.6
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchh
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQI 103 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~ 103 (266)
+-+|++|+|+..++++.. ++.++--|...|.|.+.. .|+|..-++
T Consensus 29 kiiTirdvae~~ev~~n~------lr~lasrLekkG~LeRi~------rG~YlI~~l 73 (269)
T COG5340 29 KIITIRDVAETLEVAPNT------LRELASRLEKKGWLERIL------RGRYLIIPL 73 (269)
T ss_pred ceEEeHHhhhhccCCHHH------HHHHHhhhhhcchhhhhc------CccEEEeec
Confidence 678999999999999877 999999999999999998 699988875
No 482
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=51.12 E-value=11 Score=33.74 Aligned_cols=36 Identities=8% Similarity=0.211 Sum_probs=32.4
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
..+|-+|||+++|++... +.|+|......|+++=.=
T Consensus 28 ~g~tQ~eIA~~lgiSR~~------VsRlL~~Ar~~GiV~I~I 63 (318)
T PRK15418 28 DGLTQSEIGERLGLTRLK------VSRLLEKGRQSGIIRVQI 63 (318)
T ss_pred cCCCHHHHHHHhCCCHHH------HHHHHHHHHHcCcEEEEE
Confidence 579999999999999877 999999999999996553
No 483
>COG3315 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=50.79 E-value=15 Score=32.62 Aligned_cols=74 Identities=20% Similarity=0.286 Sum_probs=46.9
Q ss_pred HHhhhHHHHHHHHhhcccCCCCCceEEEecCCchHHHHHHHHHCC-CCeEEEeecHHHHhhCCC----C-----CCeEEE
Q 042491 171 MACTAKIVMSTLLSHYKDGFDGIRSLVDVGGGTGEELAEIVEFYP-HIKGVNFDLPHVVATAPV----Y-----EGVSHV 240 (266)
Q Consensus 171 m~~~~~~~~~~~~~~~~~~~~~~~~vvDvGgG~G~~~~~l~~~~P-~l~~~~~Dlp~v~~~a~~----~-----~ri~~~ 240 (266)
+...+..+-..+....+ .+...||=+|||==+-+-.+ .+| .+++.=+|+|+|++.-++ . .+++++
T Consensus 74 ~a~Rtr~fD~~~~~~~~---~g~~qvViLgaGLDTRayRl--~~~~~~~vfEvD~Pevi~~K~~~l~e~~~~~~~~~~~V 148 (297)
T COG3315 74 LAARTRYFDDFVRAALD---AGIRQVVILGAGLDTRAYRL--DWPKGTRVFEVDLPEVIEFKKKLLAERGATPPAHRRLV 148 (297)
T ss_pred HHHHHHHHHHHHHHHHH---hcccEEEEeccccccceeec--CCCCCCeEEECCCcHHHHHHHHHhhhcCCCCCceEEEE
Confidence 33334443333344343 24789999999866555443 334 366666788999986443 2 389999
Q ss_pred EccCCC-CCC
Q 042491 241 GGDMLN-AVP 249 (266)
Q Consensus 241 ~gd~~~-~~p 249 (266)
+.|+++ ++|
T Consensus 149 a~Dl~~~dw~ 158 (297)
T COG3315 149 AVDLREDDWP 158 (297)
T ss_pred eccccccchH
Confidence 999995 555
No 484
>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=50.76 E-value=20 Score=33.68 Aligned_cols=34 Identities=26% Similarity=0.287 Sum_probs=27.2
Q ss_pred ceEEEecCC-chHHHH-HHHHHCCCCeEEEeecHHH
Q 042491 194 RSLVDVGGG-TGEELA-EIVEFYPHIKGVNFDLPHV 227 (266)
Q Consensus 194 ~~vvDvGgG-~G~~~~-~l~~~~P~l~~~~~Dlp~v 227 (266)
..|+-|||| +|.... .|+++.|..+++++|...+
T Consensus 25 ~DVvIIGgGi~Gls~A~~La~~~~G~~V~vlE~~~~ 60 (460)
T TIGR03329 25 ADVCIVGGGFTGLWTAIMIKQQRPALDVLVLEADLC 60 (460)
T ss_pred eCEEEECCCHHHHHHHHHHHHhCCCCeEEEEeCCcc
Confidence 579999999 676665 5777789999999997544
No 485
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=50.76 E-value=16 Score=25.68 Aligned_cols=55 Identities=20% Similarity=0.204 Sum_probs=42.7
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK 105 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~ 105 (266)
++..+. +.+.|=++||+.+|++... +....+.|...|+=.+... ...|++.....
T Consensus 11 ll~~~~--~~~~SGe~La~~LgiSRta------VwK~Iq~Lr~~G~~I~s~~-----~kGY~L~~~~~ 65 (79)
T COG1654 11 LLLLLT--GNFVSGEKLAEELGISRTA------VWKHIQQLREEGVDIESVR-----GKGYLLPQLPD 65 (79)
T ss_pred HHHHcC--CCcccHHHHHHHHCccHHH------HHHHHHHHHHhCCceEecC-----CCceeccCccc
Confidence 444444 3799999999999999877 9999999999999777762 23687766543
No 486
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=50.69 E-value=17 Score=30.54 Aligned_cols=43 Identities=23% Similarity=0.273 Sum_probs=34.5
Q ss_pred CCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhc
Q 042491 48 PITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQIS 104 (266)
Q Consensus 48 ~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s 104 (266)
+.|-++||+.+|+.+.. +.|+|+-|...|+ ...+ +.+.+....
T Consensus 173 ~~t~~~iA~~lG~tret------vsR~l~~L~~~gl-~~~~-------~~i~I~d~~ 215 (236)
T PRK09392 173 PYEKRVLASYLGMTPEN------LSRAFAALASHGV-HVDG-------SAVTITDPA 215 (236)
T ss_pred eCCHHHHHHHhCCChhH------HHHHHHHHHhCCe-EeeC-------CEEEEcCHH
Confidence 56779999999999877 9999999999996 4433 567666544
No 487
>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=50.16 E-value=6.6 Score=25.77 Aligned_cols=39 Identities=26% Similarity=0.262 Sum_probs=28.5
Q ss_pred HhcChhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHh
Q 042491 34 VELRLADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLV 79 (266)
Q Consensus 34 ~elglfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~ 79 (266)
-++.|++.|-. .+..|.+|||+.+|++++. +..-+..|.
T Consensus 6 rq~~Ll~~L~~-~~~~~~~ela~~l~~S~rt------i~~~i~~L~ 44 (59)
T PF08280_consen 6 RQLKLLELLLK-NKWITLKELAKKLNISERT------IKNDINELN 44 (59)
T ss_dssp HHHHHHHHHHH-HTSBBHHHHHHHCTS-HHH------HHHHHHHHH
T ss_pred HHHHHHHHHHc-CCCCcHHHHHHHHCCCHHH------HHHHHHHHH
Confidence 35667788866 3789999999999998665 666655554
No 488
>PRK14999 histidine utilization repressor; Provisional
Probab=50.13 E-value=14 Score=31.39 Aligned_cols=45 Identities=16% Similarity=0.153 Sum_probs=38.0
Q ss_pred CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491 46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT 101 (266)
Q Consensus 46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt 101 (266)
|..+ |-.|||+..|++... +++-|..|+..|++.+.. |.|.|-..
T Consensus 33 G~~LPsE~eLa~~~gVSR~T------VR~Al~~L~~eGli~r~~-----GkGTfV~~ 78 (241)
T PRK14999 33 HDRIPSEAELVAQYGFSRMT------INRALRELTDEGWLVRLQ-----GVGTFVAE 78 (241)
T ss_pred CCcCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEec-----CcEEEECC
Confidence 3445 889999999998766 999999999999999988 46888644
No 489
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=49.83 E-value=45 Score=27.72 Aligned_cols=63 Identities=14% Similarity=0.116 Sum_probs=36.8
Q ss_pred CCceEEEecCCchHHH--HHHHHHCCCCeEEEeec---HHHHhhCCCCCCeEEEEccCCC-CCCCccEEEec
Q 042491 192 GIRSLVDVGGGTGEEL--AEIVEFYPHIKGVNFDL---PHVVATAPVYEGVSHVGGDMLN-AVPNADAVFMK 257 (266)
Q Consensus 192 ~~~~vvDvGgG~G~~~--~~l~~~~P~l~~~~~Dl---p~v~~~a~~~~ri~~~~gd~~~-~~p~aD~~~l~ 257 (266)
..+++|=||||.=... ..|++.. .++++++. ++..+.+. ..+|.+....+.. .+.++|+++..
T Consensus 9 ~~k~vLVIGgG~va~~ka~~Ll~~g--a~V~VIs~~~~~~l~~l~~-~~~i~~~~~~~~~~~l~~adlViaa 77 (202)
T PRK06718 9 SNKRVVIVGGGKVAGRRAITLLKYG--AHIVVISPELTENLVKLVE-EGKIRWKQKEFEPSDIVDAFLVIAA 77 (202)
T ss_pred CCCEEEEECCCHHHHHHHHHHHHCC--CeEEEEcCCCCHHHHHHHh-CCCEEEEecCCChhhcCCceEEEEc
Confidence 3468888998765443 3455543 45666643 22222222 3568887766665 36679988764
No 490
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.73 E-value=10 Score=27.14 Aligned_cols=26 Identities=19% Similarity=0.413 Sum_probs=22.8
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHH
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRML 78 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L 78 (266)
.++|.++||+++++.+.+ ++++|.+-
T Consensus 22 ~~LS~~~iA~~Ln~t~~~------lekil~~t 47 (97)
T COG4367 22 CPLSDEEIATALNWTEVK------LEKILQVT 47 (97)
T ss_pred ccccHHHHHHHhCCCHHH------HHHHHHHh
Confidence 689999999999999988 88888654
No 491
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=49.71 E-value=23 Score=21.52 Aligned_cols=27 Identities=26% Similarity=0.290 Sum_probs=21.1
Q ss_pred CCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCccc
Q 042491 49 ITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFA 85 (266)
Q Consensus 49 ~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~ 85 (266)
.|..|+|+.+|+++ +.+|.....|++.
T Consensus 1 ~~~~e~a~~~gv~~----------~tlr~~~~~g~l~ 27 (49)
T cd04761 1 YTIGELAKLTGVSP----------STLRYYERIGLLS 27 (49)
T ss_pred CcHHHHHHHHCcCH----------HHHHHHHHCCCCC
Confidence 47899999999964 4566667888876
No 492
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=49.68 E-value=15 Score=31.49 Aligned_cols=37 Identities=19% Similarity=0.203 Sum_probs=33.1
Q ss_pred CCCC-CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPI-TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~-t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..+ |-.+||+.+|++... ++.-|+.|...|+++...
T Consensus 29 G~~LpsE~eLae~~gVSRtp------VREAL~~L~~eGlV~~~~ 66 (253)
T PRK11523 29 GDKLPAERFIADEKNVSRTV------VREAIIMLEVEGYVEVRK 66 (253)
T ss_pred CCCCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEec
Confidence 5677 478999999999877 999999999999998776
No 493
>KOG1663 consensus O-methyltransferase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=49.62 E-value=61 Score=27.77 Aligned_cols=57 Identities=18% Similarity=0.228 Sum_probs=44.6
Q ss_pred CCCceEEEecCCchHHHHHHHHHCCCC-eEEEeecH--------HHHhhCCCCCCeEEEEccCCCC
Q 042491 191 DGIRSLVDVGGGTGEELAEIVEFYPHI-KGVNFDLP--------HVVATAPVYEGVSHVGGDMLNA 247 (266)
Q Consensus 191 ~~~~~vvDvGgG~G~~~~~l~~~~P~l-~~~~~Dlp--------~v~~~a~~~~ri~~~~gd~~~~ 247 (266)
-+.++++|||.=+|.-+.+.+.+.|+= +++-+|.+ +.++.+.....|+++.|+-.+.
T Consensus 72 ~~ak~~lelGvfTGySaL~~Alalp~dGrv~a~eid~~~~~~~~~~~k~agv~~KI~~i~g~a~es 137 (237)
T KOG1663|consen 72 LNAKRTLELGVFTGYSALAVALALPEDGRVVAIEIDADAYEIGLELVKLAGVDHKITFIEGPALES 137 (237)
T ss_pred hCCceEEEEecccCHHHHHHHHhcCCCceEEEEecChHHHHHhHHHHHhccccceeeeeecchhhh
Confidence 367899999999999999999999983 66777873 3334444478899999987763
No 494
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=49.52 E-value=6.9 Score=26.92 Aligned_cols=37 Identities=14% Similarity=0.136 Sum_probs=26.1
Q ss_pred CCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 46 GSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 46 g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
|..-|.+|||+.+|++... +..++......-.|....
T Consensus 18 gr~Pt~eEiA~~lgis~~~------v~~~l~~~~~~~Sl~~~~ 54 (78)
T PF04539_consen 18 GREPTDEEIAEELGISVEE------VRELLQASRRPVSLDLPV 54 (78)
T ss_dssp SS--BHHHHHHHHTS-HHH------HHHHHHHHSCCEESSHCC
T ss_pred CCCCCHHHHHHHHcccHHH------HHHHHHhCCCCeEEeeee
Confidence 4678999999999999877 888888766655555544
No 495
>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=49.20 E-value=15 Score=27.40 Aligned_cols=36 Identities=19% Similarity=0.209 Sum_probs=32.2
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccc
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHR 88 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~ 88 (266)
.-+|+..||+++++.- ++.+++||.|...|++....
T Consensus 58 K~ITp~~lserlkI~~------SlAr~~Lr~L~~kG~Ik~V~ 93 (105)
T PF03297_consen 58 KLITPSVLSERLKING------SLARKALRELESKGLIKPVS 93 (105)
T ss_dssp SCECHHHHHHHHCCSC------HHHHHHHHHHHHCCSSEEEE
T ss_pred cEeeHHHHHHhHhhHH------HHHHHHHHHHHHCCCEEEEe
Confidence 6789999999999985 45999999999999998775
No 496
>PTZ00357 methyltransferase; Provisional
Probab=49.14 E-value=76 Score=31.95 Aligned_cols=95 Identities=8% Similarity=0.057 Sum_probs=54.1
Q ss_pred CcchhcccCchHHHHHHHHHHhhhHHHHH------------HH------Hhhccc-C-CCCCceEEEecCCchHHHHHHH
Q 042491 152 EMWDFASQNSQFNNSFNKAMACTAKIVMS------------TL------LSHYKD-G-FDGIRSLVDVGGGTGEELAEIV 211 (266)
Q Consensus 152 ~~~~~~~~~~~~~~~f~~~m~~~~~~~~~------------~~------~~~~~~-~-~~~~~~vvDvGgG~G~~~~~l~ 211 (266)
..||.+++|+-.-..|.+++...=..... .+ +...+. . -.....|+-||+|.|-+....+
T Consensus 640 ~TYEVFEKDpVKYdqYE~AI~kAL~Dw~~~~~~~~~~~~ns~~~~k~~~mdrvp~~~~d~~~vVImVVGAGRGPLVdraL 719 (1072)
T PTZ00357 640 GVYEVFERDARKYRQYREAVFHYVRDWYAAGAEQQHAHQNSEFFAKHGVMQRVPVPSPDERTLHLVLLGCGRGPLIDECL 719 (1072)
T ss_pred hhHHHHcCCcHHHHHHHHHHHHHHHHhhhccccccccccccccccccccccccccccCCCceEEEEEEcCCccHHHHHHH
Confidence 46888888987777788877543111000 00 000110 0 0122468999999999998877
Q ss_pred HHCCC----CeEEEeec-HHHH----hhC-C-C---------CCCeEEEEccCCC
Q 042491 212 EFYPH----IKGVNFDL-PHVV----ATA-P-V---------YEGVSHVGGDMLN 246 (266)
Q Consensus 212 ~~~P~----l~~~~~Dl-p~v~----~~a-~-~---------~~ri~~~~gd~~~ 246 (266)
++.-. +++..++- |..+ ..- + + .++|+++..||-+
T Consensus 720 rAak~~gvkVrIyAVEKNPpAA~~tllr~~N~eeW~n~~~~~G~~VtII~sDMR~ 774 (1072)
T PTZ00357 720 HAVSALGVRLRIFAIEKNLPAAAFTRMRWANDPEWTQLAYTFGHTLEVIVADGRT 774 (1072)
T ss_pred HHHHHcCCcEEEEEEecCcchHHHHHHHHhcccccccccccCCCeEEEEeCcccc
Confidence 77654 33444443 3311 111 1 1 3579999999988
No 497
>COG2524 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]
Probab=48.75 E-value=30 Score=30.17 Aligned_cols=55 Identities=18% Similarity=0.118 Sum_probs=45.3
Q ss_pred hCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhch-hhh
Q 042491 44 CHGSPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISK-WLL 108 (266)
Q Consensus 44 ~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~-~l~ 108 (266)
..+.++--+|||+.++-+|.- ++-.+..|.++|+++-... -.|.|..|-.+. .|.
T Consensus 21 ~~~r~IKgeeIA~~l~rnpGT------VRNqmq~LkaLgLVegvpG----PkGGY~PT~kAYe~L~ 76 (294)
T COG2524 21 RKKRPIKGEEIAEVLNRNPGT------VRNQMQSLKALGLVEGVPG----PKGGYKPTSKAYEALS 76 (294)
T ss_pred hcCCCcchHHHHHHHccCcch------HHHHHHHHHhcCccccccC----CCCCccccHHHHHHhc
Confidence 334789999999999999998 9999999999999987762 147899988764 444
No 498
>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=48.52 E-value=14 Score=31.27 Aligned_cols=41 Identities=12% Similarity=0.160 Sum_probs=36.2
Q ss_pred CHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCc
Q 042491 50 TLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLT 101 (266)
Q Consensus 50 t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt 101 (266)
|-.|||+..|++..- +++-|+.|+..|++.+.. |.|.|-..
T Consensus 26 sE~eLa~~~gVSR~T------VR~Al~~L~~eGli~r~~-----G~GTfV~~ 66 (233)
T TIGR02404 26 SEHELMDQYGASRET------VRKALNLLTEAGYIQKIQ-----GKGSIVLN 66 (233)
T ss_pred CHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEeC-----CceEEEec
Confidence 789999999998766 999999999999999998 56888643
No 499
>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=48.43 E-value=21 Score=27.29 Aligned_cols=48 Identities=19% Similarity=0.197 Sum_probs=41.8
Q ss_pred CCCCHHHHHhhcCCCCCCCCchhhHHHHHHHHhccCcccccccCCCCCCceEeCchhchh
Q 042491 47 SPITLPQLASGINSSCPDVHIIPSLTRIMRMLVRKGVFAAHRSSDGSEETMYGLTQISKW 106 (266)
Q Consensus 47 ~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr~L~~~gil~~~~~~~~~g~~~y~lt~~s~~ 106 (266)
-|.+.+.||..++-+... ++.-|..+...|+++..+ +|.|.++.....
T Consensus 50 ipy~~e~LA~~~~~~~~~------V~~Al~~f~k~glIe~~d------~g~i~i~~~~~~ 97 (119)
T TIGR01714 50 APYNAEMLATMFNRNVGD------IRITLQTLESLGLIEKKN------NGDIFLENWEKH 97 (119)
T ss_pred CCCCHHHHHHHHCCCHHH------HHHHHHHHHHCCCEEEec------CCcEEehhHHHH
Confidence 689999999999998777 999999999999999987 477888775544
No 500
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=47.97 E-value=6.7 Score=25.67 Aligned_cols=31 Identities=32% Similarity=0.365 Sum_probs=19.3
Q ss_pred hhhHhhhCCCCCCHHHHHhhcCCCCCCCCchhhHHHHHH
Q 042491 38 LADIMHCHGSPITLPQLASGINSSCPDVHIIPSLTRIMR 76 (266)
Q Consensus 38 lfd~L~~~g~~~t~~eLA~~~g~~~~~~~~~~~l~rlLr 76 (266)
|-..+.+ ..+|..+||+.+|+++.. +.+++.
T Consensus 2 L~~~m~~--~~it~~~La~~~gis~~t------l~~~~~ 32 (63)
T PF13443_consen 2 LKELMAE--RGITQKDLARKTGISRST------LSRILN 32 (63)
T ss_dssp HHHHHHH--TT--HHHHHHHHT--HHH------HHHHHT
T ss_pred HHHHHHH--cCCCHHHHHHHHCcCHHH------HHHHHh
Confidence 3455666 578999999999998655 666654
Done!