Query 047000
Match_columns 231
No_of_seqs 150 out of 1074
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 06:36:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047000.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047000hhsearch_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 2E-30 4.4E-35 220.7 18.2 217 5-231 2-236 (342)
2 TIGR02716 C20_methyl_CrtF C-20 100.0 2.9E-29 6.3E-34 216.3 17.0 186 21-230 2-214 (306)
3 PF00891 Methyltransf_2: O-met 100.0 2.1E-28 4.5E-33 204.2 9.3 139 92-231 3-158 (241)
4 PF08100 Dimerisation: Dimeris 99.1 1.8E-10 3.9E-15 72.3 5.0 51 24-76 1-51 (51)
5 PF12847 Methyltransf_18: Meth 98.5 1.4E-07 3E-12 68.8 3.6 52 174-225 2-61 (112)
6 PRK06922 hypothetical protein; 98.3 9.1E-07 2E-11 82.5 6.3 94 133-227 377-478 (677)
7 PRK08287 cobalt-precorrin-6Y C 98.3 8.9E-07 1.9E-11 70.9 5.5 63 165-228 24-93 (187)
8 PRK14103 trans-aconitate 2-met 98.2 4.8E-06 1E-10 70.0 8.4 64 162-227 19-83 (255)
9 PRK01683 trans-aconitate 2-met 98.2 3.2E-06 7E-11 71.0 7.3 66 161-227 20-87 (258)
10 PF13847 Methyltransf_31: Meth 98.2 1.4E-06 3.1E-11 67.3 4.1 55 173-227 3-65 (152)
11 COG4106 Tam Trans-aconitate me 98.2 2.6E-06 5.6E-11 68.9 5.6 69 161-230 19-89 (257)
12 TIGR03587 Pse_Me-ase pseudamin 98.1 5.6E-06 1.2E-10 67.4 6.3 59 172-230 42-102 (204)
13 TIGR03533 L3_gln_methyl protei 98.1 4.4E-06 9.5E-11 71.5 4.9 58 173-230 121-186 (284)
14 PRK11805 N5-glutamine S-adenos 98.1 3.6E-06 7.7E-11 72.8 4.2 56 175-230 135-198 (307)
15 TIGR02469 CbiT precorrin-6Y C5 98.0 1.6E-05 3.4E-10 58.6 6.7 62 164-226 11-79 (124)
16 PRK15001 SAM-dependent 23S rib 98.0 9.5E-06 2.1E-10 71.9 6.0 66 163-229 219-294 (378)
17 PF05175 MTS: Methyltransferas 98.0 8.1E-06 1.8E-10 64.5 4.4 58 173-230 31-95 (170)
18 PRK07402 precorrin-6B methylas 98.0 1.5E-05 3.3E-10 64.3 5.9 63 164-227 32-101 (196)
19 TIGR00536 hemK_fam HemK family 98.0 9.7E-06 2.1E-10 69.3 4.7 56 175-230 116-179 (284)
20 PRK04457 spermidine synthase; 98.0 1.1E-05 2.4E-10 68.2 5.0 56 172-227 65-128 (262)
21 TIGR02752 MenG_heptapren 2-hep 97.9 1.8E-05 3.9E-10 65.3 5.8 64 163-227 36-107 (231)
22 TIGR03704 PrmC_rel_meth putati 97.9 2.4E-05 5.2E-10 65.7 6.4 57 173-229 86-146 (251)
23 TIGR00740 methyltransferase, p 97.9 1.1E-05 2.5E-10 67.0 4.4 56 172-227 52-117 (239)
24 PRK14966 unknown domain/N5-glu 97.9 1.8E-05 4E-10 70.6 5.7 56 173-228 251-312 (423)
25 TIGR00091 tRNA (guanine-N(7)-) 97.9 1.3E-05 2.8E-10 64.7 4.0 55 173-227 16-77 (194)
26 PRK15451 tRNA cmo(5)U34 methyl 97.9 1.5E-05 3.3E-10 66.7 4.2 56 172-227 55-120 (247)
27 COG2890 HemK Methylase of poly 97.9 1.5E-05 3.3E-10 68.0 4.2 55 176-230 113-174 (280)
28 PRK00107 gidB 16S rRNA methylt 97.8 3.7E-05 8E-10 61.8 5.8 55 173-227 45-106 (187)
29 PRK01544 bifunctional N5-gluta 97.8 1.9E-05 4.2E-10 72.8 4.7 56 174-229 139-202 (506)
30 COG2813 RsmC 16S RNA G1207 met 97.8 5.1E-05 1.1E-09 64.7 6.8 68 162-230 148-222 (300)
31 TIGR03534 RF_mod_PrmC protein- 97.8 4.3E-05 9.2E-10 63.6 6.3 57 173-229 87-150 (251)
32 TIGR00138 gidB 16S rRNA methyl 97.8 2.1E-05 4.6E-10 62.8 3.5 54 174-227 43-103 (181)
33 PRK00274 ksgA 16S ribosomal RN 97.8 6.2E-05 1.3E-09 64.0 6.3 63 162-227 32-98 (272)
34 PRK00121 trmB tRNA (guanine-N( 97.7 4.4E-05 9.5E-10 62.0 4.9 60 164-225 33-99 (202)
35 TIGR02021 BchM-ChlM magnesium 97.7 8.1E-05 1.8E-09 61.0 6.5 90 136-227 17-115 (219)
36 PRK09328 N5-glutamine S-adenos 97.7 8.8E-05 1.9E-09 62.7 6.7 59 171-229 106-171 (275)
37 smart00650 rADc Ribosomal RNA 97.7 7E-05 1.5E-09 58.9 5.7 64 162-228 3-71 (169)
38 COG2226 UbiE Methylase involve 97.7 8.3E-05 1.8E-09 61.8 6.1 55 173-227 51-112 (238)
39 PTZ00098 phosphoethanolamine N 97.7 0.00012 2.5E-09 62.0 6.7 64 162-227 42-110 (263)
40 COG2242 CobL Precorrin-6B meth 97.7 8.2E-05 1.8E-09 59.2 5.2 62 166-228 28-96 (187)
41 PF08242 Methyltransf_12: Meth 97.7 9.6E-06 2.1E-10 57.8 -0.0 51 178-228 1-61 (99)
42 PRK11207 tellurite resistance 97.6 8E-05 1.7E-09 60.2 5.1 63 162-227 20-89 (197)
43 COG4123 Predicted O-methyltran 97.6 5.2E-05 1.1E-09 63.2 3.8 57 171-227 42-106 (248)
44 PRK09489 rsmC 16S ribosomal RN 97.6 0.00014 3.1E-09 63.8 6.6 65 164-229 188-258 (342)
45 PRK14121 tRNA (guanine-N(7)-)- 97.6 0.0001 2.2E-09 65.4 5.7 61 164-225 114-181 (390)
46 TIGR00080 pimt protein-L-isoas 97.6 0.00016 3.4E-09 59.3 6.4 65 163-228 68-140 (215)
47 PLN02244 tocopherol O-methyltr 97.6 0.00012 2.6E-09 64.2 6.2 55 172-227 117-179 (340)
48 PLN02336 phosphoethanolamine N 97.6 0.00014 3.1E-09 66.4 6.8 64 163-228 257-326 (475)
49 PRK13942 protein-L-isoaspartat 97.6 0.00024 5.2E-09 58.1 7.0 66 163-229 67-140 (212)
50 PRK13944 protein-L-isoaspartat 97.6 0.00024 5.1E-09 57.8 6.8 66 164-230 64-138 (205)
51 PF13649 Methyltransf_25: Meth 97.6 8.2E-05 1.8E-09 53.3 3.7 51 177-227 1-60 (101)
52 PRK10258 biotin biosynthesis p 97.6 0.00042 9E-09 57.9 8.3 64 161-227 31-96 (251)
53 PRK00216 ubiE ubiquinone/menaq 97.5 0.00025 5.4E-09 58.3 6.6 64 163-227 42-114 (239)
54 TIGR01934 MenG_MenH_UbiE ubiqu 97.5 0.00026 5.7E-09 57.5 6.2 64 163-227 30-99 (223)
55 PRK08317 hypothetical protein; 97.5 0.00027 5.8E-09 57.9 6.2 63 164-227 11-80 (241)
56 TIGR02072 BioC biotin biosynth 97.5 0.00044 9.5E-09 56.7 7.3 55 173-227 34-91 (240)
57 smart00138 MeTrc Methyltransfe 97.4 0.0015 3.3E-08 55.3 10.5 68 162-230 89-199 (264)
58 PRK06202 hypothetical protein; 97.4 0.00057 1.2E-08 56.5 7.7 52 172-223 59-118 (232)
59 PHA03411 putative methyltransf 97.4 0.0002 4.3E-09 60.6 4.9 55 174-228 65-121 (279)
60 PRK11188 rrmJ 23S rRNA methylt 97.4 0.00054 1.2E-08 56.0 7.3 60 164-227 42-102 (209)
61 PF09339 HTH_IclR: IclR helix- 97.4 8.3E-05 1.8E-09 46.9 2.0 45 32-83 6-50 (52)
62 PF13659 Methyltransf_26: Meth 97.4 6.5E-05 1.4E-09 55.0 1.7 52 175-227 2-61 (117)
63 PRK14896 ksgA 16S ribosomal RN 97.4 0.00032 7E-09 59.1 6.1 64 161-227 18-86 (258)
64 PF02390 Methyltransf_4: Putat 97.4 0.0002 4.4E-09 57.9 4.6 54 174-227 18-78 (195)
65 PRK11088 rrmA 23S rRNA methylt 97.4 0.00043 9.2E-09 58.8 6.6 55 173-227 85-144 (272)
66 COG2230 Cfa Cyclopropane fatty 97.4 0.00037 8.1E-09 59.2 6.1 63 162-226 62-132 (283)
67 PRK11036 putative S-adenosyl-L 97.4 0.00029 6.4E-09 59.1 5.2 60 163-226 36-103 (255)
68 TIGR00755 ksgA dimethyladenosi 97.3 0.00047 1E-08 57.9 6.2 64 162-228 19-87 (253)
69 PLN02490 MPBQ/MSBQ methyltrans 97.3 0.00045 9.7E-09 60.5 6.2 55 173-227 113-171 (340)
70 PLN02233 ubiquinone biosynthes 97.3 0.00056 1.2E-08 57.8 6.6 57 171-227 71-138 (261)
71 PLN02366 spermidine synthase 97.3 0.00021 4.5E-09 61.8 3.9 54 172-226 90-155 (308)
72 PLN02672 methionine S-methyltr 97.3 0.00037 8E-09 69.1 6.0 56 174-229 119-197 (1082)
73 PLN03075 nicotianamine synthas 97.3 0.00048 1.1E-08 59.0 5.9 56 173-228 123-189 (296)
74 TIGR00537 hemK_rel_arch HemK-r 97.3 0.00038 8.3E-09 55.2 4.9 53 174-228 20-78 (179)
75 TIGR03438 probable methyltrans 97.3 0.00038 8.2E-09 60.1 5.1 56 173-228 63-127 (301)
76 PF01209 Ubie_methyltran: ubiE 97.3 0.00024 5.2E-09 59.1 3.7 57 171-227 45-109 (233)
77 PRK14968 putative methyltransf 97.3 0.0004 8.7E-09 55.0 4.9 57 172-230 22-87 (188)
78 PRK00050 16S rRNA m(4)C1402 me 97.3 0.00063 1.4E-08 58.4 6.3 65 162-227 9-79 (296)
79 KOG2904 Predicted methyltransf 97.3 0.00052 1.1E-08 57.7 5.6 58 171-228 146-215 (328)
80 PRK00377 cbiT cobalt-precorrin 97.3 0.00038 8.3E-09 56.2 4.8 61 166-227 34-103 (198)
81 smart00550 Zalpha Z-DNA-bindin 97.3 0.00078 1.7E-08 44.9 5.2 60 29-99 6-66 (68)
82 PRK04266 fibrillarin; Provisio 97.2 0.001 2.3E-08 55.0 7.0 60 167-227 67-131 (226)
83 TIGR00438 rrmJ cell division p 97.2 0.00091 2E-08 53.5 6.3 60 164-227 23-83 (188)
84 TIGR03840 TMPT_Se_Te thiopurin 97.2 0.0011 2.3E-08 54.4 6.6 55 172-228 33-106 (213)
85 PRK00811 spermidine synthase; 97.2 0.00049 1.1E-08 58.9 4.5 56 172-227 75-142 (283)
86 PRK07580 Mg-protoporphyrin IX 97.2 0.00065 1.4E-08 55.8 5.0 53 171-225 61-121 (230)
87 PF02353 CMAS: Mycolic acid cy 97.2 0.00098 2.1E-08 56.7 6.1 64 162-227 52-123 (273)
88 PHA03412 putative methyltransf 97.1 0.00088 1.9E-08 55.6 5.4 54 174-227 50-108 (241)
89 smart00346 HTH_ICLR helix_turn 97.1 0.00098 2.1E-08 46.6 4.9 59 31-101 7-65 (91)
90 PF07021 MetW: Methionine bios 97.1 0.00049 1.1E-08 55.1 3.7 55 172-227 12-66 (193)
91 KOG1540 Ubiquinone biosynthesi 97.1 0.0018 3.9E-08 54.0 6.8 54 173-226 100-169 (296)
92 PRK01581 speE spermidine synth 97.1 0.0011 2.3E-08 58.4 5.6 56 172-227 149-218 (374)
93 PRK14967 putative methyltransf 97.1 0.0011 2.5E-08 54.5 5.4 58 171-229 34-97 (223)
94 PRK15068 tRNA mo(5)U34 methylt 97.0 0.0023 5.1E-08 55.7 7.2 60 165-226 115-182 (322)
95 PRK11873 arsM arsenite S-adeno 97.0 0.00095 2.1E-08 56.5 4.6 57 171-227 75-139 (272)
96 PRK13255 thiopurine S-methyltr 97.0 0.0021 4.6E-08 52.9 6.5 57 171-229 35-110 (218)
97 PF08241 Methyltransf_11: Meth 97.0 0.00078 1.7E-08 46.7 3.3 49 178-227 1-53 (95)
98 TIGR00477 tehB tellurite resis 97.0 0.0014 3E-08 52.9 5.1 61 163-226 21-87 (195)
99 PRK13943 protein-L-isoaspartat 97.0 0.0019 4.1E-08 56.2 6.1 64 164-228 72-143 (322)
100 cd02440 AdoMet_MTases S-adenos 96.9 0.0013 2.8E-08 45.6 4.1 53 176-229 1-60 (107)
101 PTZ00338 dimethyladenosine tra 96.9 0.0022 4.7E-08 55.2 6.2 63 162-227 26-96 (294)
102 PRK11705 cyclopropane fatty ac 96.9 0.0018 4E-08 57.7 5.9 62 163-226 158-223 (383)
103 PRK13168 rumA 23S rRNA m(5)U19 96.9 0.00073 1.6E-08 61.4 3.1 62 163-227 288-356 (443)
104 PRK03612 spermidine synthase; 96.9 0.0012 2.6E-08 61.2 4.4 55 172-227 296-365 (521)
105 PRK12335 tellurite resistance 96.9 0.0017 3.7E-08 55.6 5.0 62 163-227 111-178 (287)
106 PF02082 Rrf2: Transcriptional 96.8 0.002 4.4E-08 44.6 4.5 56 37-101 16-71 (83)
107 TIGR00452 methyltransferase, p 96.8 0.0044 9.6E-08 53.8 7.5 61 163-225 112-180 (314)
108 KOG1271 Methyltransferases [Ge 96.8 0.0019 4.2E-08 51.2 4.6 56 173-228 67-130 (227)
109 PLN02336 phosphoethanolamine N 96.8 0.0031 6.7E-08 57.7 6.6 64 161-227 26-94 (475)
110 COG1414 IclR Transcriptional r 96.8 0.0019 4.1E-08 54.1 4.8 61 32-104 7-67 (246)
111 PRK04148 hypothetical protein; 96.8 0.003 6.4E-08 47.9 5.4 62 164-229 8-71 (134)
112 PRK00312 pcm protein-L-isoaspa 96.8 0.0031 6.7E-08 51.4 5.9 64 164-230 70-140 (212)
113 COG0220 Predicted S-adenosylme 96.8 0.0024 5.2E-08 52.8 5.1 51 174-224 49-106 (227)
114 TIGR02081 metW methionine bios 96.8 0.0027 5.9E-08 51.0 5.3 53 173-227 13-66 (194)
115 PLN02396 hexaprenyldihydroxybe 96.8 0.0014 3.1E-08 57.0 3.8 51 173-225 131-189 (322)
116 PF01978 TrmB: Sugar-specific 96.7 0.0011 2.3E-08 44.1 2.3 48 30-85 9-56 (68)
117 PRK10909 rsmD 16S rRNA m(2)G96 96.7 0.0012 2.7E-08 53.5 2.9 55 173-228 53-114 (199)
118 PRK05785 hypothetical protein; 96.7 0.0022 4.7E-08 53.1 4.4 51 173-226 51-102 (226)
119 TIGR02431 pcaR_pcaU beta-ketoa 96.7 0.0021 4.6E-08 53.7 4.4 61 31-105 11-71 (248)
120 PRK03522 rumB 23S rRNA methylu 96.7 0.0018 3.9E-08 56.2 4.0 52 174-227 174-232 (315)
121 PRK11569 transcriptional repre 96.7 0.0023 5E-08 54.4 4.5 62 31-104 30-91 (274)
122 PRK10163 DNA-binding transcrip 96.6 0.0029 6.3E-08 53.7 4.8 63 31-105 27-89 (271)
123 PRK00517 prmA ribosomal protei 96.6 0.0019 4.1E-08 54.1 3.3 42 172-214 118-160 (250)
124 PF06325 PrmA: Ribosomal prote 96.6 0.0019 4E-08 55.6 3.2 63 148-214 139-202 (295)
125 TIGR00406 prmA ribosomal prote 96.6 0.0031 6.7E-08 54.1 4.6 72 149-224 138-217 (288)
126 PRK14902 16S rRNA methyltransf 96.5 0.0031 6.7E-08 57.3 4.7 64 163-227 241-312 (444)
127 PRK15090 DNA-binding transcrip 96.5 0.0033 7.1E-08 52.9 4.5 61 32-105 17-77 (257)
128 TIGR00417 speE spermidine synt 96.5 0.0027 5.8E-08 53.9 3.7 56 172-227 71-137 (270)
129 COG2264 PrmA Ribosomal protein 96.5 0.0021 4.5E-08 55.1 3.0 63 148-214 140-203 (300)
130 PRK09834 DNA-binding transcrip 96.5 0.004 8.7E-08 52.6 4.5 63 31-105 13-75 (263)
131 TIGR01444 fkbM_fam methyltrans 96.4 0.0035 7.7E-08 47.4 3.7 38 176-213 1-39 (143)
132 COG2263 Predicted RNA methylas 96.4 0.0048 1E-07 49.3 4.3 53 173-226 45-103 (198)
133 PF13463 HTH_27: Winged helix 96.4 0.0053 1.2E-07 40.4 4.0 61 32-101 6-68 (68)
134 PF01022 HTH_5: Bacterial regu 96.4 0.0033 7.1E-08 38.6 2.6 44 31-83 4-47 (47)
135 PLN02823 spermine synthase 96.4 0.0052 1.1E-07 53.8 4.8 56 172-227 102-168 (336)
136 PF13412 HTH_24: Winged helix- 96.3 0.0073 1.6E-07 37.1 4.1 45 30-82 4-48 (48)
137 PLN02781 Probable caffeoyl-CoA 96.3 0.0075 1.6E-07 50.1 5.4 57 171-227 66-131 (234)
138 COG0421 SpeE Spermidine syntha 96.3 0.0052 1.1E-07 52.5 4.5 57 171-227 74-141 (282)
139 PLN02585 magnesium protoporphy 96.3 0.0051 1.1E-07 53.4 4.2 52 173-226 144-207 (315)
140 PRK10901 16S rRNA methyltransf 96.3 0.0067 1.5E-07 54.9 5.1 64 163-227 235-304 (427)
141 PF13489 Methyltransf_23: Meth 96.2 0.011 2.5E-07 45.1 5.6 34 172-207 21-54 (161)
142 PF05401 NodS: Nodulation prot 96.2 0.0037 7.9E-08 50.3 2.6 61 167-230 38-103 (201)
143 PF12840 HTH_20: Helix-turn-he 96.2 0.0078 1.7E-07 39.0 3.7 53 24-84 5-57 (61)
144 PF00398 RrnaAD: Ribosomal RNA 96.2 0.017 3.6E-07 48.8 6.7 65 161-228 19-88 (262)
145 KOG2899 Predicted methyltransf 96.2 0.0078 1.7E-07 49.9 4.4 54 162-215 46-101 (288)
146 TIGR00479 rumA 23S rRNA (uraci 96.1 0.0062 1.3E-07 55.1 4.2 61 164-227 284-351 (431)
147 COG1959 Predicted transcriptio 96.1 0.012 2.5E-07 45.6 5.1 56 35-99 14-69 (150)
148 PRK10857 DNA-binding transcrip 96.1 0.012 2.5E-07 46.3 5.1 61 45-121 24-84 (164)
149 PF01135 PCMT: Protein-L-isoas 96.1 0.0067 1.4E-07 49.6 3.8 67 163-230 63-137 (209)
150 PRK11760 putative 23S rRNA C24 96.1 0.014 3E-07 51.0 5.9 57 172-230 210-266 (357)
151 PF05724 TPMT: Thiopurine S-me 96.1 0.017 3.8E-07 47.4 6.3 55 171-227 35-108 (218)
152 TIGR00478 tly hemolysin TlyA f 96.1 0.026 5.7E-07 46.7 7.3 55 163-219 65-122 (228)
153 TIGR02010 IscR iron-sulfur clu 96.1 0.012 2.6E-07 44.6 4.8 46 45-99 24-69 (135)
154 TIGR02085 meth_trns_rumB 23S r 96.0 0.0058 1.3E-07 54.3 3.5 52 174-227 234-292 (374)
155 TIGR00095 RNA methyltransferas 96.0 0.0046 1E-07 49.7 2.5 53 174-227 50-110 (189)
156 PF09012 FeoC: FeoC like trans 96.0 0.0092 2E-07 39.8 3.6 44 33-84 4-47 (69)
157 PF13679 Methyltransf_32: Meth 96.0 0.0098 2.1E-07 45.3 4.2 55 171-225 23-91 (141)
158 PF03848 TehB: Tellurite resis 96.0 0.013 2.8E-07 47.2 5.1 64 162-228 20-89 (192)
159 PRK13256 thiopurine S-methyltr 96.0 0.018 4E-07 47.5 6.0 55 172-228 42-115 (226)
160 smart00419 HTH_CRP helix_turn_ 96.0 0.0095 2.1E-07 36.2 3.3 40 46-97 8-47 (48)
161 cd00092 HTH_CRP helix_turn_hel 96.0 0.011 2.5E-07 38.5 3.8 44 45-99 24-67 (67)
162 PTZ00146 fibrillarin; Provisio 96.0 0.02 4.4E-07 49.0 6.2 58 171-228 130-193 (293)
163 KOG3420 Predicted RNA methylas 95.9 0.0069 1.5E-07 46.4 2.9 63 164-229 40-109 (185)
164 TIGR01177 conserved hypothetic 95.9 0.016 3.4E-07 50.6 5.6 61 164-227 174-241 (329)
165 PRK00536 speE spermidine synth 95.9 0.0092 2E-07 50.4 3.9 49 172-222 71-130 (262)
166 COG2227 UbiG 2-polyprenyl-3-me 95.9 0.0074 1.6E-07 49.9 3.2 41 173-215 59-100 (243)
167 TIGR00738 rrf2_super rrf2 fami 95.9 0.018 4E-07 43.1 5.1 46 45-99 24-69 (132)
168 PF01728 FtsJ: FtsJ-like methy 95.8 0.0061 1.3E-07 48.3 2.4 47 162-208 10-59 (181)
169 PF14947 HTH_45: Winged helix- 95.8 0.012 2.6E-07 40.1 3.4 46 45-102 18-63 (77)
170 PRK11727 23S rRNA mA1618 methy 95.7 0.013 2.9E-07 50.9 4.2 49 173-221 114-171 (321)
171 PF01564 Spermine_synth: Sperm 95.6 0.0086 1.9E-07 50.2 2.7 55 172-226 75-140 (246)
172 PF08123 DOT1: Histone methyla 95.6 0.013 2.9E-07 47.7 3.6 65 163-228 33-113 (205)
173 PF12802 MarR_2: MarR family; 95.5 0.02 4.4E-07 36.8 3.7 50 30-85 6-55 (62)
174 PF13601 HTH_34: Winged helix 95.5 0.014 3.1E-07 40.1 3.1 62 30-102 1-66 (80)
175 TIGR02337 HpaR homoprotocatech 95.5 0.042 9E-07 40.4 5.7 68 29-105 28-96 (118)
176 PF01795 Methyltransf_5: MraW 95.5 0.033 7.2E-07 48.1 5.8 64 162-226 10-79 (310)
177 TIGR02143 trmA_only tRNA (urac 95.5 0.011 2.4E-07 52.1 3.0 51 175-227 199-256 (353)
178 TIGR02944 suf_reg_Xantho FeS a 95.5 0.026 5.7E-07 42.3 4.7 62 45-122 24-85 (130)
179 PF07757 AdoMet_MTase: Predict 95.5 0.021 4.7E-07 41.3 3.9 43 160-205 46-88 (112)
180 KOG1270 Methyltransferases [Co 95.4 0.011 2.3E-07 49.6 2.3 40 174-215 90-130 (282)
181 PF09445 Methyltransf_15: RNA 95.3 0.0058 1.3E-07 47.9 0.7 51 175-227 1-59 (163)
182 TIGR00006 S-adenosyl-methyltra 95.3 0.047 1E-06 47.2 6.1 64 162-226 10-79 (305)
183 PRK01544 bifunctional N5-gluta 95.2 0.023 4.9E-07 52.6 4.3 53 173-225 347-406 (506)
184 KOG0820 Ribosomal RNA adenine 95.2 0.1 2.2E-06 44.1 7.7 67 161-230 47-122 (315)
185 COG3355 Predicted transcriptio 95.1 0.047 1E-06 40.8 4.8 47 31-85 29-76 (126)
186 PRK05031 tRNA (uracil-5-)-meth 95.1 0.016 3.4E-07 51.4 2.7 51 175-227 208-265 (362)
187 COG2518 Pcm Protein-L-isoaspar 95.1 0.06 1.3E-06 43.8 5.8 65 163-230 63-134 (209)
188 PF01047 MarR: MarR family; I 95.0 0.025 5.5E-07 36.0 2.9 47 31-85 5-51 (59)
189 PF08003 Methyltransf_9: Prote 95.0 0.04 8.6E-07 47.4 4.8 41 163-205 106-146 (315)
190 smart00347 HTH_MARR helix_turn 94.9 0.056 1.2E-06 37.9 4.8 47 30-84 11-57 (101)
191 COG0293 FtsJ 23S rRNA methylas 94.9 0.093 2E-06 42.6 6.5 71 154-228 26-97 (205)
192 PF10294 Methyltransf_16: Puta 94.9 0.029 6.3E-07 44.4 3.4 56 172-227 44-108 (173)
193 KOG1541 Predicted protein carb 94.9 0.021 4.5E-07 46.8 2.6 40 173-214 50-90 (270)
194 COG0030 KsgA Dimethyladenosine 94.8 0.12 2.7E-06 43.5 7.2 66 161-227 19-87 (259)
195 PRK15128 23S rRNA m(5)C1962 me 94.8 0.023 4.9E-07 51.0 3.0 54 173-227 220-282 (396)
196 PRK10141 DNA-binding transcrip 94.7 0.053 1.2E-06 40.1 4.3 56 21-84 8-63 (117)
197 TIGR01983 UbiG ubiquinone bios 94.7 0.031 6.8E-07 45.5 3.3 52 173-226 45-103 (224)
198 PF08461 HTH_12: Ribonuclease 94.7 0.068 1.5E-06 35.3 4.3 60 34-102 3-63 (66)
199 PRK11920 rirA iron-responsive 94.7 0.046 1E-06 42.4 4.0 46 45-99 23-68 (153)
200 smart00418 HTH_ARSR helix_turn 94.7 0.071 1.5E-06 33.9 4.3 42 34-84 2-43 (66)
201 PRK11783 rlmL 23S rRNA m(2)G24 94.6 0.025 5.5E-07 54.4 3.0 54 173-227 538-600 (702)
202 KOG1499 Protein arginine N-met 94.6 0.036 7.7E-07 48.3 3.6 54 173-227 60-120 (346)
203 KOG3115 Methyltransferase-like 94.6 0.016 3.4E-07 46.9 1.3 33 174-206 61-93 (249)
204 PF07381 DUF1495: Winged helix 94.6 0.074 1.6E-06 37.4 4.5 68 28-104 8-86 (90)
205 PF01596 Methyltransf_3: O-met 94.6 0.034 7.4E-07 45.3 3.2 55 172-226 44-107 (205)
206 PRK06266 transcription initiat 94.5 0.1 2.3E-06 41.5 5.8 45 32-84 25-69 (178)
207 PRK14904 16S rRNA methyltransf 94.4 0.064 1.4E-06 48.9 4.9 57 171-227 248-312 (445)
208 PRK03902 manganese transport t 94.4 0.077 1.7E-06 40.4 4.6 50 45-105 21-70 (142)
209 COG4262 Predicted spermidine s 94.4 0.066 1.4E-06 47.1 4.6 55 172-227 288-357 (508)
210 PF06080 DUF938: Protein of un 94.3 0.073 1.6E-06 43.2 4.6 31 176-206 28-58 (204)
211 PF04703 FaeA: FaeA-like prote 94.3 0.059 1.3E-06 35.2 3.3 45 33-84 4-48 (62)
212 smart00420 HTH_DEOR helix_turn 94.3 0.1 2.2E-06 31.9 4.4 43 34-84 5-47 (53)
213 TIGR01884 cas_HTH CRISPR locus 94.3 0.075 1.6E-06 43.1 4.7 59 30-100 144-202 (203)
214 TIGR02702 SufR_cyano iron-sulf 94.3 0.083 1.8E-06 42.8 4.9 65 31-106 3-72 (203)
215 PLN02476 O-methyltransferase 94.3 0.03 6.5E-07 47.7 2.3 57 171-227 116-181 (278)
216 PRK05134 bifunctional 3-demeth 94.2 0.13 2.8E-06 42.3 6.0 51 173-225 48-104 (233)
217 PF12147 Methyltransf_20: Puta 94.2 0.078 1.7E-06 45.3 4.6 57 172-228 134-200 (311)
218 PRK11014 transcriptional repre 94.2 0.072 1.6E-06 40.6 4.1 46 45-99 24-69 (141)
219 PRK11512 DNA-binding transcrip 94.0 0.13 2.8E-06 39.2 5.2 63 31-104 42-107 (144)
220 smart00344 HTH_ASNC helix_turn 93.9 0.11 2.3E-06 37.5 4.4 46 30-83 4-49 (108)
221 PRK14901 16S rRNA methyltransf 93.8 0.079 1.7E-06 48.1 4.3 63 164-227 244-314 (434)
222 PF03444 HrcA_DNA-bdg: Winged 93.8 0.24 5.2E-06 33.8 5.5 49 45-102 22-70 (78)
223 KOG1500 Protein arginine N-met 93.8 0.084 1.8E-06 46.0 4.1 55 171-227 176-237 (517)
224 KOG3010 Methyltransferase [Gen 93.7 0.068 1.5E-06 44.4 3.3 41 173-215 33-74 (261)
225 PRK14903 16S rRNA methyltransf 93.7 0.087 1.9E-06 47.8 4.4 60 166-226 231-298 (431)
226 PF08220 HTH_DeoR: DeoR-like h 93.7 0.13 2.8E-06 32.9 4.0 44 33-84 4-47 (57)
227 cd00090 HTH_ARSR Arsenical Res 93.7 0.13 2.7E-06 33.7 4.2 57 31-99 9-65 (78)
228 PHA00738 putative HTH transcri 93.7 0.13 2.7E-06 37.3 4.2 48 30-85 13-60 (108)
229 PF01170 UPF0020: Putative RNA 93.7 0.071 1.5E-06 42.4 3.3 65 162-227 18-99 (179)
230 PF01638 HxlR: HxlR-like helix 93.6 0.094 2E-06 36.7 3.5 63 34-105 10-73 (90)
231 PF05185 PRMT5: PRMT5 arginine 93.5 0.088 1.9E-06 48.0 4.0 87 135-228 152-253 (448)
232 PRK15431 ferrous iron transpor 93.4 0.16 3.4E-06 34.7 4.1 44 34-85 7-50 (78)
233 PF10007 DUF2250: Uncharacteri 93.4 0.13 2.7E-06 36.4 3.8 47 30-84 8-54 (92)
234 PRK11050 manganese transport r 93.3 0.14 3.1E-06 39.5 4.5 57 34-104 42-98 (152)
235 TIGR01889 Staph_reg_Sar staphy 93.3 0.18 3.8E-06 36.6 4.7 65 29-102 25-94 (109)
236 PRK03573 transcriptional regul 93.3 0.21 4.5E-06 38.0 5.2 63 33-105 35-100 (144)
237 PF04967 HTH_10: HTH DNA bindi 93.2 0.094 2E-06 33.1 2.6 43 22-75 5-47 (53)
238 COG0275 Predicted S-adenosylme 93.2 0.21 4.5E-06 42.9 5.4 64 162-226 13-83 (314)
239 COG1321 TroR Mn-dependent tran 93.1 0.17 3.7E-06 39.3 4.6 52 45-107 23-74 (154)
240 TIGR00122 birA_repr_reg BirA b 93.0 0.22 4.8E-06 32.9 4.4 44 31-83 2-45 (69)
241 COG4190 Predicted transcriptio 93.0 0.19 4.1E-06 37.7 4.4 57 20-84 55-111 (144)
242 COG4976 Predicted methyltransf 93.0 0.11 2.3E-06 43.0 3.4 67 145-214 94-165 (287)
243 PF00325 Crp: Bacterial regula 92.9 0.12 2.6E-06 29.0 2.5 31 46-81 2-32 (32)
244 TIGR00373 conserved hypothetic 92.6 0.2 4.3E-06 39.1 4.3 45 32-84 17-61 (158)
245 TIGR00446 nop2p NOL1/NOP2/sun 92.4 0.21 4.5E-06 42.2 4.5 55 171-225 69-131 (264)
246 PF01726 LexA_DNA_bind: LexA D 92.4 0.24 5.3E-06 32.6 3.9 40 38-84 19-59 (65)
247 COG4742 Predicted transcriptio 92.4 0.2 4.3E-06 42.2 4.3 67 25-107 9-75 (260)
248 PRK11783 rlmL 23S rRNA m(2)G24 92.4 0.27 5.9E-06 47.4 5.8 67 160-227 177-294 (702)
249 TIGR00563 rsmB ribosomal RNA s 92.4 0.17 3.7E-06 45.8 4.2 64 163-227 229-300 (426)
250 cd07153 Fur_like Ferric uptake 92.3 0.24 5.3E-06 36.1 4.3 52 31-85 3-55 (116)
251 PF08279 HTH_11: HTH domain; 92.1 0.29 6.3E-06 30.6 3.9 43 33-82 4-46 (55)
252 COG2345 Predicted transcriptio 92.1 0.22 4.9E-06 40.8 4.2 63 33-103 15-79 (218)
253 PF02475 Met_10: Met-10+ like- 91.8 0.15 3.2E-06 41.4 2.8 57 171-227 99-163 (200)
254 smart00345 HTH_GNTR helix_turn 91.7 0.35 7.6E-06 30.3 4.0 35 45-84 18-53 (60)
255 PF01325 Fe_dep_repress: Iron 91.6 0.31 6.8E-06 31.5 3.7 35 45-84 21-55 (60)
256 KOG2361 Predicted methyltransf 91.4 0.2 4.2E-06 41.7 3.1 52 175-226 73-132 (264)
257 COG1378 Predicted transcriptio 91.3 0.4 8.7E-06 40.2 4.9 62 29-102 16-77 (247)
258 PF04182 B-block_TFIIIC: B-blo 91.3 0.31 6.7E-06 32.9 3.5 49 30-84 3-51 (75)
259 TIGR01610 phage_O_Nterm phage 91.1 0.33 7.2E-06 34.4 3.8 44 45-98 46-89 (95)
260 PRK04338 N(2),N(2)-dimethylgua 91.0 0.3 6.5E-06 43.6 4.1 53 174-226 58-117 (382)
261 PRK06474 hypothetical protein; 90.8 0.46 9.9E-06 37.8 4.6 76 23-104 5-82 (178)
262 PF06163 DUF977: Bacterial pro 90.7 0.7 1.5E-05 34.4 5.2 50 27-84 10-59 (127)
263 PF02002 TFIIE_alpha: TFIIE al 90.7 0.3 6.5E-06 35.1 3.3 44 33-84 17-60 (105)
264 KOG2730 Methylase [General fun 90.7 0.22 4.7E-06 41.0 2.7 53 173-227 94-154 (263)
265 PRK11179 DNA-binding transcrip 90.6 0.47 1E-05 36.6 4.5 46 30-83 10-55 (153)
266 smart00529 HTH_DTXR Helix-turn 90.4 0.36 7.8E-06 33.8 3.4 46 49-105 2-47 (96)
267 PRK04172 pheS phenylalanyl-tRN 90.1 0.29 6.2E-06 45.2 3.3 68 30-109 7-75 (489)
268 COG2384 Predicted SAM-dependen 89.9 0.69 1.5E-05 38.0 4.9 55 174-228 17-79 (226)
269 COG4189 Predicted transcriptio 89.8 0.73 1.6E-05 38.1 5.0 56 21-84 15-70 (308)
270 PRK14165 winged helix-turn-hel 89.7 0.47 1E-05 39.0 4.0 51 45-103 20-70 (217)
271 cd07377 WHTH_GntR Winged helix 89.7 0.75 1.6E-05 29.4 4.3 33 47-84 26-58 (66)
272 PRK11169 leucine-responsive tr 89.7 0.49 1.1E-05 37.0 3.9 47 29-83 14-60 (164)
273 COG3963 Phospholipid N-methylt 89.6 0.84 1.8E-05 36.0 5.0 68 159-227 35-105 (194)
274 PRK10870 transcriptional repre 89.6 0.57 1.2E-05 37.1 4.3 66 32-106 58-126 (176)
275 PLN02853 Probable phenylalanyl 89.6 0.36 7.8E-06 44.3 3.5 70 29-110 3-74 (492)
276 PLN02589 caffeoyl-CoA O-methyl 89.3 0.58 1.3E-05 39.2 4.3 57 171-227 77-142 (247)
277 COG1522 Lrp Transcriptional re 89.3 0.66 1.4E-05 35.4 4.4 47 30-84 9-55 (154)
278 COG2519 GCD14 tRNA(1-methylade 89.2 1.2 2.5E-05 37.4 6.0 80 148-228 66-158 (256)
279 KOG2187 tRNA uracil-5-methyltr 89.2 0.46 1E-05 43.6 3.8 55 171-227 381-445 (534)
280 PF05148 Methyltransf_8: Hypot 89.2 1.1 2.3E-05 36.7 5.5 64 139-205 34-101 (219)
281 PF02527 GidB: rRNA small subu 89.0 0.47 1E-05 38.0 3.4 30 176-205 51-80 (184)
282 PF13545 HTH_Crp_2: Crp-like h 88.9 0.41 8.9E-06 31.9 2.6 35 45-84 27-61 (76)
283 COG0357 GidB Predicted S-adeno 88.7 0.42 9.1E-06 39.2 3.0 32 174-205 68-99 (215)
284 PF07789 DUF1627: Protein of u 88.5 0.63 1.4E-05 35.6 3.6 35 45-84 5-39 (155)
285 PF09243 Rsm22: Mitochondrial 88.5 1 2.2E-05 38.3 5.4 43 163-206 24-67 (274)
286 PF08784 RPA_C: Replication pr 88.3 0.68 1.5E-05 33.0 3.6 50 29-83 47-97 (102)
287 COG1846 MarR Transcriptional r 88.1 0.99 2.1E-05 32.5 4.5 66 28-104 21-89 (126)
288 COG5631 Predicted transcriptio 88.0 2.6 5.6E-05 32.8 6.6 77 17-102 64-147 (199)
289 COG4122 Predicted O-methyltran 88.0 0.75 1.6E-05 37.8 4.0 53 171-223 57-118 (219)
290 COG3432 Predicted transcriptio 87.7 0.39 8.5E-06 34.0 1.9 61 34-104 20-81 (95)
291 PF13404 HTH_AsnC-type: AsnC-t 87.6 1 2.2E-05 26.8 3.5 37 30-74 4-40 (42)
292 PTZ00326 phenylalanyl-tRNA syn 87.6 0.68 1.5E-05 42.6 3.9 71 29-110 6-77 (494)
293 TIGR00498 lexA SOS regulatory 87.6 1.3 2.8E-05 35.6 5.2 48 30-84 7-59 (199)
294 KOG3191 Predicted N6-DNA-methy 87.4 0.63 1.4E-05 37.2 3.1 54 174-227 44-104 (209)
295 PHA02943 hypothetical protein; 87.2 1.1 2.3E-05 34.6 4.1 44 33-85 15-58 (165)
296 COG2512 Predicted membrane-ass 87.2 0.75 1.6E-05 38.8 3.7 48 31-85 197-244 (258)
297 PF03141 Methyltransf_29: Puta 87.1 0.53 1.1E-05 43.1 2.9 24 172-195 116-139 (506)
298 PRK13777 transcriptional regul 87.0 1.3 2.7E-05 35.5 4.7 85 32-128 48-135 (185)
299 PF00392 GntR: Bacterial regul 86.9 0.82 1.8E-05 29.6 3.0 36 44-84 21-57 (64)
300 PF14394 DUF4423: Domain of un 86.9 1.3 2.9E-05 34.9 4.8 47 46-103 39-87 (171)
301 KOG4589 Cell division protein 86.9 1.6 3.6E-05 35.1 5.2 42 165-206 61-103 (232)
302 PF04672 Methyltransf_19: S-ad 86.1 2.1 4.5E-05 36.3 5.7 56 173-228 68-133 (267)
303 PRK04214 rbn ribonuclease BN/u 85.8 1.1 2.3E-05 40.5 4.2 34 45-83 309-342 (412)
304 TIGR01321 TrpR trp operon repr 84.8 1.5 3.2E-05 31.1 3.6 41 28-77 41-81 (94)
305 PF08221 HTH_9: RNA polymerase 84.3 1.5 3.2E-05 28.5 3.2 43 33-83 17-59 (62)
306 PF08704 GCD14: tRNA methyltra 84.1 2.1 4.5E-05 36.0 4.8 79 148-227 12-103 (247)
307 PF13730 HTH_36: Helix-turn-he 83.9 1.4 3E-05 27.4 3.0 29 48-81 27-55 (55)
308 PF12324 HTH_15: Helix-turn-he 83.9 1.2 2.6E-05 30.2 2.7 35 34-76 29-63 (77)
309 PRK13509 transcriptional repre 83.8 1.8 3.8E-05 36.4 4.3 46 31-84 7-52 (251)
310 COG4565 CitB Response regulato 83.6 1.8 3.9E-05 35.4 4.1 44 34-84 163-206 (224)
311 PF12793 SgrR_N: Sugar transpo 82.8 1.5 3.2E-05 32.3 3.1 36 45-85 18-53 (115)
312 KOG1661 Protein-L-isoaspartate 82.2 1.4 3E-05 36.0 3.0 57 171-227 80-155 (237)
313 PHA02701 ORF020 dsRNA-binding 81.8 3.6 7.8E-05 32.7 5.1 60 30-100 5-64 (183)
314 PF05584 Sulfolobus_pRN: Sulfo 81.7 3.7 8.1E-05 27.5 4.4 43 33-84 9-51 (72)
315 PF04072 LCM: Leucine carboxyl 81.4 3.7 7.9E-05 32.5 5.2 56 172-227 77-141 (183)
316 PRK01381 Trp operon repressor; 81.4 2.2 4.7E-05 30.5 3.4 41 28-77 41-81 (99)
317 TIGR03439 methyl_EasF probable 81.2 5.2 0.00011 34.9 6.4 64 162-228 68-144 (319)
318 PF01475 FUR: Ferric uptake re 80.7 2.2 4.7E-05 31.2 3.4 55 28-85 7-62 (120)
319 PF02295 z-alpha: Adenosine de 80.6 2.5 5.5E-05 27.8 3.3 60 30-99 5-64 (66)
320 PF05206 TRM13: Methyltransfer 80.5 2.8 6E-05 35.4 4.4 36 171-206 16-56 (259)
321 COG1510 Predicted transcriptio 80.2 2 4.4E-05 33.8 3.1 35 45-84 40-74 (177)
322 COG0116 Predicted N6-adenine-s 80.1 3 6.5E-05 37.2 4.5 65 161-226 180-291 (381)
323 PF13384 HTH_23: Homeodomain-l 79.8 2 4.2E-05 26.1 2.5 39 31-79 7-45 (50)
324 TIGR02987 met_A_Alw26 type II 79.8 1.7 3.7E-05 40.4 3.2 40 173-212 31-79 (524)
325 PRK10906 DNA-binding transcrip 79.8 2.6 5.5E-05 35.4 3.9 46 31-84 7-52 (252)
326 PF05732 RepL: Firmicute plasm 79.6 2.1 4.4E-05 33.7 3.1 47 46-103 75-121 (165)
327 PF02796 HTH_7: Helix-turn-hel 79.3 3.1 6.7E-05 24.9 3.2 23 46-73 21-43 (45)
328 smart00531 TFIIE Transcription 79.3 2.9 6.2E-05 32.1 3.8 41 33-81 5-45 (147)
329 COG3413 Predicted DNA binding 79.0 1.8 4E-05 35.3 2.8 43 21-74 159-201 (215)
330 PRK09954 putative kinase; Prov 78.8 3.3 7.3E-05 36.4 4.6 45 31-83 5-49 (362)
331 PF13518 HTH_28: Helix-turn-he 78.4 4.3 9.3E-05 24.6 3.8 29 47-80 13-41 (52)
332 COG1675 TFA1 Transcription ini 78.1 3.7 8.1E-05 32.6 4.1 45 32-84 21-65 (176)
333 PRK09802 DNA-binding transcrip 77.5 3.3 7.2E-05 35.1 4.0 47 30-84 18-64 (269)
334 KOG3045 Predicted RNA methylas 77.3 4.7 0.0001 34.2 4.6 52 138-189 141-196 (325)
335 PRK11639 zinc uptake transcrip 77.2 3.5 7.5E-05 32.4 3.8 54 28-84 25-79 (169)
336 TIGR00308 TRM1 tRNA(guanine-26 77.1 2 4.3E-05 38.4 2.6 53 174-226 45-105 (374)
337 KOG2651 rRNA adenine N-6-methy 76.7 4.2 9.2E-05 36.3 4.4 38 171-209 151-188 (476)
338 PF00165 HTH_AraC: Bacterial r 76.7 1.9 4.1E-05 25.3 1.6 28 45-77 7-34 (42)
339 PRK11753 DNA-binding transcrip 76.7 3.1 6.8E-05 33.2 3.5 33 46-83 168-200 (211)
340 PRK10411 DNA-binding transcrip 76.4 4.2 9E-05 33.9 4.2 46 31-84 6-51 (240)
341 PF05219 DREV: DREV methyltran 76.2 2.9 6.3E-05 35.3 3.2 29 173-201 94-122 (265)
342 PRK10434 srlR DNA-bindng trans 75.9 3.7 8E-05 34.5 3.8 46 31-84 7-52 (256)
343 PRK11161 fumarate/nitrate redu 75.7 3 6.5E-05 34.0 3.2 33 46-83 184-216 (235)
344 COG2524 Predicted transcriptio 75.7 7.1 0.00015 32.9 5.3 52 45-105 24-76 (294)
345 PRK11534 DNA-binding transcrip 75.5 4.3 9.2E-05 33.1 4.0 37 43-84 27-63 (224)
346 PF06969 HemN_C: HemN C-termin 75.4 5.2 0.00011 25.8 3.7 46 45-102 19-65 (66)
347 PHA02591 hypothetical protein; 75.4 5.1 0.00011 27.2 3.6 33 33-74 50-82 (83)
348 PF05958 tRNA_U5-meth_tr: tRNA 75.4 2 4.3E-05 38.0 2.1 58 163-224 188-252 (352)
349 PF02384 N6_Mtase: N-6 DNA Met 75.2 5.7 0.00012 34.0 4.9 58 171-228 44-117 (311)
350 PRK11886 bifunctional biotin-- 75.2 5 0.00011 34.8 4.5 45 31-83 6-50 (319)
351 COG1497 Predicted transcriptio 74.9 6.2 0.00013 32.9 4.7 51 45-106 24-75 (260)
352 TIGR03697 NtcA_cyano global ni 74.8 3.5 7.6E-05 32.3 3.3 34 46-84 143-176 (193)
353 COG1352 CheR Methylase of chem 74.7 17 0.00036 30.9 7.4 42 173-214 96-147 (268)
354 COG1802 GntR Transcriptional r 74.6 5 0.00011 32.8 4.3 37 43-84 36-72 (230)
355 TIGR00589 ogt O-6-methylguanin 74.2 8.5 0.00018 26.3 4.6 45 30-80 3-47 (80)
356 PF08280 HTH_Mga: M protein tr 74.1 5.4 0.00012 25.4 3.4 39 30-76 6-44 (59)
357 PF00126 HTH_1: Bacterial regu 73.8 8.1 0.00018 24.5 4.2 54 31-101 3-59 (60)
358 PF03291 Pox_MCEL: mRNA cappin 73.5 5.9 0.00013 34.7 4.6 54 173-228 62-133 (331)
359 PF04989 CmcI: Cephalosporin h 73.3 7.3 0.00016 31.7 4.7 54 174-227 33-96 (206)
360 TIGR03338 phnR_burk phosphonat 73.1 4.8 0.00011 32.4 3.8 37 43-84 31-67 (212)
361 TIGR02787 codY_Gpos GTP-sensin 73.1 15 0.00033 30.6 6.6 45 33-84 187-231 (251)
362 COG2265 TrmA SAM-dependent met 73.1 3.4 7.4E-05 37.6 3.1 55 171-227 291-352 (432)
363 PRK04424 fatty acid biosynthes 73.1 3.4 7.4E-05 33.0 2.8 46 31-84 9-54 (185)
364 PF02319 E2F_TDP: E2F/DP famil 72.4 1 2.3E-05 30.0 -0.3 37 45-84 23-62 (71)
365 PRK13918 CRP/FNR family transc 72.3 4.3 9.4E-05 32.2 3.3 34 45-83 148-181 (202)
366 PRK00215 LexA repressor; Valid 72.3 8.2 0.00018 31.0 4.9 36 45-84 22-57 (205)
367 PF01371 Trp_repressor: Trp re 72.2 7.8 0.00017 27.0 4.0 42 27-77 34-75 (87)
368 PRK05638 threonine synthase; V 72.2 6.3 0.00014 35.9 4.6 62 31-102 373-435 (442)
369 TIGR00635 ruvB Holliday juncti 72.1 5.8 0.00013 33.8 4.2 34 45-83 254-288 (305)
370 PF13936 HTH_38: Helix-turn-he 72.0 6 0.00013 23.6 3.1 31 34-73 12-42 (44)
371 PRK09334 30S ribosomal protein 71.6 4.7 0.0001 28.1 2.8 35 45-84 40-74 (86)
372 PRK09462 fur ferric uptake reg 71.6 7.5 0.00016 29.6 4.3 55 28-84 16-71 (148)
373 TIGR03879 near_KaiC_dom probab 71.4 4.3 9.4E-05 27.3 2.5 34 45-83 31-64 (73)
374 PF03602 Cons_hypoth95: Conser 71.1 2.9 6.4E-05 33.3 2.0 54 173-227 42-103 (183)
375 PF03514 GRAS: GRAS domain fam 71.1 5.2 0.00011 35.6 3.8 46 161-207 99-151 (374)
376 COG0735 Fur Fe2+/Zn2+ uptake r 71.0 6.7 0.00015 30.0 3.9 54 30-85 22-75 (145)
377 PF02636 Methyltransf_28: Puta 70.8 4.9 0.00011 33.5 3.4 34 174-207 19-60 (252)
378 PRK13239 alkylmercury lyase; P 70.6 5.4 0.00012 32.5 3.4 41 30-78 23-63 (206)
379 COG1349 GlpR Transcriptional r 70.5 5.9 0.00013 33.3 3.8 45 32-84 8-52 (253)
380 cd00006 PTS_IIA_man PTS_IIA, P 70.0 13 0.00027 27.3 5.1 49 165-213 51-101 (122)
381 PF10668 Phage_terminase: Phag 69.9 7 0.00015 25.3 3.1 22 45-71 21-42 (60)
382 KOG0822 Protein kinase inhibit 69.7 21 0.00046 33.3 7.3 89 135-230 334-435 (649)
383 PRK10046 dpiA two-component re 69.4 7.2 0.00016 31.6 4.0 45 33-84 166-210 (225)
384 COG5459 Predicted rRNA methyla 69.1 2.1 4.5E-05 37.8 0.8 40 166-206 107-147 (484)
385 smart00753 PAM PCI/PINT associ 69.0 17 0.00037 24.7 5.3 51 26-84 7-57 (88)
386 smart00088 PINT motif in prote 69.0 17 0.00037 24.7 5.3 51 26-84 7-57 (88)
387 PF07091 FmrO: Ribosomal RNA m 68.9 3.1 6.7E-05 34.9 1.7 59 173-231 105-169 (251)
388 COG4076 Predicted RNA methylas 68.7 9.5 0.0002 30.9 4.3 50 175-226 34-90 (252)
389 COG3695 Predicted methylated D 68.7 7.8 0.00017 27.7 3.4 47 30-81 7-55 (103)
390 PRK09391 fixK transcriptional 68.4 5.7 0.00012 32.5 3.3 33 46-83 179-211 (230)
391 PHA03103 double-strand RNA-bin 68.4 10 0.00022 30.3 4.5 43 34-84 18-60 (183)
392 PRK11414 colanic acid/biofilm 67.9 7.2 0.00016 31.7 3.7 37 43-84 31-67 (221)
393 KOG4062 6-O-methylguanine-DNA 67.3 8.8 0.00019 29.9 3.7 50 28-83 88-137 (178)
394 COG1733 Predicted transcriptio 67.0 13 0.00028 27.5 4.6 80 9-105 12-91 (120)
395 PF03428 RP-C: Replication pro 66.6 8.9 0.00019 30.5 3.8 33 47-84 71-104 (177)
396 PRK10402 DNA-binding transcrip 66.5 5.8 0.00013 32.3 2.9 33 46-83 169-201 (226)
397 COG1189 Predicted rRNA methyla 65.9 13 0.00028 31.0 4.7 42 163-205 69-110 (245)
398 TIGR02147 Fsuc_second hypothet 65.8 13 0.00029 31.6 5.0 49 45-102 136-184 (271)
399 PRK09464 pdhR transcriptional 65.8 8.8 0.00019 31.9 3.9 38 43-85 30-68 (254)
400 PRK09775 putative DNA-binding 65.7 8.3 0.00018 35.2 4.0 40 34-84 5-44 (442)
401 cd06445 ATase The DNA repair p 65.4 16 0.00035 24.7 4.5 42 33-80 4-45 (79)
402 PF03297 Ribosomal_S25: S25 ri 65.3 7.6 0.00016 28.1 2.9 46 34-84 46-92 (105)
403 TIGR00824 EIIA-man PTS system, 65.3 22 0.00047 26.0 5.5 49 165-213 52-102 (116)
404 PF06406 StbA: StbA protein; 65.3 18 0.0004 31.3 5.9 62 147-208 246-309 (318)
405 KOG4058 Uncharacterized conser 65.1 4.2 9.1E-05 31.5 1.6 43 163-207 63-105 (199)
406 PLN02668 indole-3-acetate carb 63.9 16 0.00034 32.8 5.3 34 173-206 63-111 (386)
407 PRK11642 exoribonuclease R; Pr 63.8 12 0.00025 37.0 4.8 49 33-84 23-71 (813)
408 TIGR03826 YvyF flagellar opero 63.7 12 0.00026 28.5 3.8 35 33-73 34-68 (137)
409 PRK09990 DNA-binding transcrip 63.7 10 0.00022 31.4 3.9 38 43-85 27-65 (251)
410 COG4367 Uncharacterized protei 63.6 8.1 0.00018 26.9 2.6 26 45-75 22-47 (97)
411 COG1565 Uncharacterized conser 63.6 21 0.00045 31.7 5.8 61 141-206 50-118 (370)
412 PF09681 Phage_rep_org_N: N-te 63.5 10 0.00022 28.1 3.5 49 45-104 52-100 (121)
413 PRK10225 DNA-binding transcrip 63.2 10 0.00022 31.6 3.8 37 43-84 29-66 (257)
414 KOG1709 Guanidinoacetate methy 63.1 23 0.00051 29.3 5.6 43 172-214 100-142 (271)
415 TIGR00027 mthyl_TIGR00027 meth 62.9 13 0.00029 31.3 4.5 54 172-226 80-142 (260)
416 PF04492 Phage_rep_O: Bacterio 62.8 10 0.00022 27.2 3.2 51 28-83 31-86 (100)
417 PF01418 HTH_6: Helix-turn-hel 62.5 10 0.00022 25.5 3.1 33 45-82 33-65 (77)
418 PRK10736 hypothetical protein; 62.4 10 0.00022 33.9 3.8 44 32-84 311-354 (374)
419 PF11312 DUF3115: Protein of u 62.1 12 0.00026 32.5 4.0 38 174-211 87-147 (315)
420 COG1725 Predicted transcriptio 62.0 11 0.00024 28.1 3.4 34 46-84 35-68 (125)
421 PF14338 Mrr_N: Mrr N-terminal 61.6 47 0.001 23.0 6.4 60 34-104 25-87 (92)
422 COG0350 Ada Methylated DNA-pro 61.5 10 0.00022 29.8 3.3 46 28-79 87-132 (168)
423 TIGR03329 Phn_aa_oxid putative 61.4 11 0.00023 34.4 3.9 34 175-208 25-60 (460)
424 PRK10421 DNA-binding transcrip 61.4 12 0.00025 31.2 3.9 37 43-84 22-59 (253)
425 PRK11511 DNA-binding transcrip 61.2 15 0.00033 27.2 4.1 43 35-83 15-57 (127)
426 PF05331 DUF742: Protein of un 61.2 13 0.00027 27.4 3.5 35 45-84 54-88 (114)
427 PRK00082 hrcA heat-inducible t 61.2 22 0.00047 31.3 5.6 47 45-101 24-72 (339)
428 KOG1562 Spermidine synthase [A 61.2 4.2 9.1E-05 35.1 1.1 55 171-226 119-185 (337)
429 TIGR02698 CopY_TcrY copper tra 61.1 18 0.0004 27.0 4.5 47 30-84 5-55 (130)
430 PRK04984 fatty acid metabolism 61.1 12 0.00026 30.6 3.9 38 43-85 27-65 (239)
431 PF09821 AAA_assoc_C: C-termin 61.1 7.2 0.00016 28.9 2.2 46 51-108 2-47 (120)
432 COG2390 DeoR Transcriptional r 60.9 9.9 0.00021 33.2 3.4 35 45-84 25-59 (321)
433 TIGR02812 fadR_gamma fatty aci 60.9 13 0.00029 30.4 4.1 37 43-84 26-63 (235)
434 PRK00135 scpB segregation and 60.9 14 0.00031 29.6 4.0 41 32-83 93-133 (188)
435 PRK00901 methylated-DNA--prote 60.5 14 0.00031 28.6 3.9 48 28-81 72-119 (155)
436 PF01739 CheR: CheR methyltran 60.3 24 0.00052 28.4 5.4 42 173-214 31-82 (196)
437 PF04539 Sigma70_r3: Sigma-70 60.1 8.3 0.00018 25.7 2.3 34 45-83 19-52 (78)
438 PF13443 HTH_26: Cro/C1-type H 59.9 9.2 0.0002 24.2 2.4 31 34-73 2-32 (63)
439 smart00421 HTH_LUXR helix_turn 59.7 18 0.00038 21.7 3.7 25 46-75 18-42 (58)
440 PF00356 LacI: Bacterial regul 59.5 7 0.00015 23.7 1.6 32 48-80 1-43 (46)
441 smart00342 HTH_ARAC helix_turn 59.5 11 0.00025 24.5 2.9 30 46-80 1-30 (84)
442 TIGR00331 hrcA heat shock gene 59.1 18 0.0004 31.7 4.8 35 45-84 20-56 (337)
443 PRK10742 putative methyltransf 58.9 25 0.00054 29.6 5.3 63 162-227 76-156 (250)
444 PF10771 DUF2582: Protein of u 58.8 14 0.0003 24.3 3.0 42 34-83 13-54 (65)
445 TIGR02844 spore_III_D sporulat 58.7 14 0.00031 25.2 3.2 31 33-72 10-40 (80)
446 PF14314 Methyltrans_Mon: Viru 58.7 21 0.00046 34.3 5.4 63 141-205 292-357 (675)
447 PRK00080 ruvB Holliday junctio 58.5 13 0.00029 32.1 3.9 48 45-104 275-324 (328)
448 PF05971 Methyltransf_10: Prot 58.5 7.3 0.00016 33.7 2.1 55 173-228 102-170 (299)
449 PRK03837 transcriptional regul 57.4 17 0.00037 29.7 4.2 38 43-85 33-71 (241)
450 PF13578 Methyltransf_24: Meth 57.4 6.2 0.00013 27.8 1.3 50 178-227 1-60 (106)
451 PF13542 HTH_Tnp_ISL3: Helix-t 57.2 20 0.00044 21.6 3.5 35 30-74 16-50 (52)
452 PF09904 HTH_43: Winged helix- 57.1 14 0.00031 25.8 3.0 44 31-83 10-53 (90)
453 PRK12423 LexA repressor; Provi 56.9 24 0.00052 28.4 4.9 36 45-84 24-59 (202)
454 PF03374 ANT: Phage antirepres 56.8 16 0.00035 26.2 3.5 41 33-83 13-53 (111)
455 PF04545 Sigma70_r4: Sigma-70, 56.4 12 0.00025 22.7 2.3 26 45-75 19-44 (50)
456 PRK11523 DNA-binding transcrip 56.4 16 0.00035 30.3 3.9 38 43-85 28-66 (253)
457 cd06170 LuxR_C_like C-terminal 56.3 22 0.00048 21.4 3.7 25 46-75 15-39 (57)
458 TIGR02531 yecD_yerC TrpR-relat 55.8 16 0.00036 25.4 3.2 36 31-76 40-75 (88)
459 PF01035 DNA_binding_1: 6-O-me 55.6 18 0.00039 24.9 3.4 44 30-79 3-46 (85)
460 cd02190 epsilon_tubulin The tu 55.1 23 0.00051 31.6 4.9 37 163-199 91-132 (379)
461 TIGR01764 excise DNA binding d 55.1 13 0.00028 21.8 2.4 22 47-73 2-23 (49)
462 COG3315 O-Methyltransferase in 54.9 9.5 0.00021 32.9 2.3 71 153-227 74-154 (297)
463 KOG1975 mRNA cap methyltransfe 54.6 16 0.00034 32.1 3.5 70 147-227 100-183 (389)
464 PRK15418 transcriptional regul 54.6 14 0.00031 32.1 3.4 35 45-84 28-62 (318)
465 cd04762 HTH_MerR-trunc Helix-T 54.6 13 0.00028 21.6 2.3 23 47-74 1-23 (49)
466 PRK09273 hypothetical protein; 54.6 13 0.00027 30.4 2.8 41 175-215 64-104 (211)
467 KOG2918 Carboxymethyl transfer 54.5 32 0.00069 30.0 5.3 41 171-211 85-127 (335)
468 PRK13917 plasmid segregation p 54.5 49 0.0011 29.0 6.8 57 149-207 267-323 (344)
469 PF09929 DUF2161: Uncharacteri 54.5 24 0.00052 26.0 4.0 52 34-102 64-115 (118)
470 PRK10219 DNA-binding transcrip 54.4 16 0.00034 25.9 3.1 49 45-106 20-68 (107)
471 PF00196 GerE: Bacterial regul 54.0 15 0.00033 23.0 2.6 35 30-74 7-41 (58)
472 COG4901 Ribosomal protein S25 54.0 16 0.00034 26.2 2.9 49 31-84 43-92 (107)
473 KOG2782 Putative SAM dependent 53.2 12 0.00027 30.9 2.5 48 163-211 34-81 (303)
474 PF08222 HTH_CodY: CodY helix- 53.2 9.1 0.0002 24.5 1.4 35 45-84 3-37 (61)
475 PF11972 HTH_13: HTH DNA bindi 53.0 35 0.00076 21.5 4.0 36 34-77 4-39 (54)
476 COG2521 Predicted archaeal met 52.9 12 0.00026 31.3 2.4 55 172-227 133-196 (287)
477 PF12728 HTH_17: Helix-turn-he 52.7 14 0.00031 22.3 2.3 22 47-73 2-23 (51)
478 COG0500 SmtA SAM-dependent met 52.3 21 0.00045 25.3 3.6 50 177-227 52-109 (257)
479 KOG2793 Putative N2,N2-dimethy 52.1 14 0.00031 30.9 2.8 43 171-214 83-126 (248)
480 KOG2940 Predicted methyltransf 52.0 11 0.00023 31.6 2.0 40 173-213 72-112 (325)
481 TIGR03433 padR_acidobact trans 51.8 42 0.00091 23.6 4.9 82 34-120 9-95 (100)
482 TIGR01714 phage_rep_org_N phag 51.2 25 0.00055 26.0 3.7 48 45-103 50-97 (119)
483 cd00286 Tubulin_FtsZ Tubulin/F 51.2 31 0.00068 29.9 5.0 36 163-198 81-121 (328)
484 cd06059 Tubulin The tubulin su 50.5 33 0.00072 30.5 5.1 38 162-199 80-122 (382)
485 COG0640 ArsR Predicted transcr 50.2 39 0.00084 22.6 4.5 54 23-84 19-72 (110)
486 PRK13626 transcriptional regul 50.1 15 0.00032 34.4 2.9 36 45-85 22-57 (552)
487 PRK14999 histidine utilization 50.1 23 0.0005 29.1 3.8 43 45-97 34-77 (241)
488 KOG2165 Anaphase-promoting com 50.0 18 0.00038 34.8 3.3 48 45-99 615-662 (765)
489 COG1654 BirA Biotin operon rep 49.8 35 0.00075 23.3 4.0 48 45-102 18-65 (79)
490 PF06971 Put_DNA-bind_N: Putat 49.5 20 0.00044 22.2 2.5 37 28-70 11-47 (50)
491 TIGR03739 PRTRC_D PRTRC system 49.5 76 0.0017 27.4 7.1 45 163-207 263-307 (320)
492 PF11994 DUF3489: Protein of u 49.2 37 0.00081 22.7 3.9 43 34-84 15-59 (72)
493 PRK09764 DNA-binding transcrip 49.0 26 0.00056 28.8 4.0 43 45-97 27-70 (240)
494 COG3682 Predicted transcriptio 49.0 38 0.00082 25.3 4.3 62 29-99 6-67 (123)
495 PF03610 EIIA-man: PTS system 49.0 27 0.00059 25.2 3.7 47 166-212 52-100 (116)
496 PRK09392 ftrB transcriptional 48.9 21 0.00047 29.0 3.5 30 46-80 173-202 (236)
497 COG3398 Uncharacterized protei 48.4 41 0.00088 27.8 4.8 49 28-84 100-148 (240)
498 PF13551 HTH_29: Winged helix- 48.3 25 0.00054 24.7 3.4 30 46-80 11-41 (112)
499 PF01381 HTH_3: Helix-turn-hel 48.1 20 0.00044 21.8 2.5 25 45-74 8-32 (55)
500 TIGR02018 his_ut_repres histid 48.0 26 0.00056 28.6 3.8 43 45-97 23-66 (230)
No 1
>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]
Probab=99.97 E-value=2e-30 Score=220.69 Aligned_cols=217 Identities=49% Similarity=0.796 Sum_probs=191.8
Q ss_pred cccHHHHHHHHHHhhchHHHHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCC-CCCCCcchHHHHHHHHHhCCcccc
Q 047000 5 GRDESFAYANQLVTASVLPMAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPAT-KNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 5 ~~~~~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~-~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
++.++..+++++++++..+++|.+|+||||||.|++.+ + +.|||..+. . .+|.+|..+.|+||.|++.+++++
T Consensus 2 ~e~~~~l~~~~l~~~~~~~~~lk~A~eL~v~d~l~~~~---~--p~~ia~~l~-~~~~~~~p~ll~r~lr~L~s~~i~k~ 75 (342)
T KOG3178|consen 2 EENEASLRAMRLANGFALPMVLKAACELGVFDILANAG---S--PSEIASLLP-TPKNPEAPVLLDRILRLLVSYSILKC 75 (342)
T ss_pred chhHHHHHHHHHHhhhhhHHHHHHHHHcChHHHHHhCC---C--HHHHHHhcc-CCCCCCChhHHHHHHHHHHHhhhcee
Confidence 45677889999999999999999999999999999953 2 788888776 4 466789999999999999999998
Q ss_pred cccCCCCcCcccccchhhccccCCCC-CC---------------chhhHHHHHhcCCChhhhhcCCCccccCCCCchHHH
Q 047000 84 SIDDADDSQRLYGLNDVSNYFVPNKD-GS---------------YRSQLKEAITEGGVPFDRVHGTHAFEYPGLDPRFNE 147 (231)
Q Consensus 84 ~~~~~~~~~~~y~~t~~s~~L~~~~~-~~---------------~~~~L~~~l~~g~~~~~~~~g~~~~~~l~~~~~~~~ 147 (231)
.... ...|++++.++++.++.. .+ .|..|.++++.+..+|..++|+..|+|...+.....
T Consensus 76 ~~~~----~~~Y~~~~~~~~~l~~~~~~S~a~~~~~~~~~v~~~~w~~l~dai~eg~~~~~~~~G~~l~~~~~~~~~~~~ 151 (342)
T KOG3178|consen 76 RLVG----GEVYSATPVCKYFLKDSGGGSLAPLVLLNTSKVIMNTWQFLKDAILEGGDAFATAHGMMLGGYGGADERFSK 151 (342)
T ss_pred eeec----ceeeeccchhhhheecCCCCchhHHHHHhcccchhhhHHHHHHHHHhcccCCccccchhhhhhcccccccHH
Confidence 6311 128999999996664432 22 199999999999889999999889999999888889
Q ss_pred HHHHHHHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCCC-CCceEeecCCC
Q 047000 148 VFNIAMYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPKY-PGVEHVGGDMF 226 (231)
Q Consensus 148 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~-~ri~~~~gDff 226 (231)
.|+++|+..+....+.+++.|.+|++...+||||||.|..+..++..||+++++.||+|.|++.++.+ ++|+.+.||+|
T Consensus 152 ~~~~sm~~l~~~~~~~il~~~~Gf~~v~~avDvGgGiG~v~k~ll~~fp~ik~infdlp~v~~~a~~~~~gV~~v~gdmf 231 (342)
T KOG3178|consen 152 DFNGSMSFLSTLVMKKILEVYTGFKGVNVAVDVGGGIGRVLKNLLSKYPHIKGINFDLPFVLAAAPYLAPGVEHVAGDMF 231 (342)
T ss_pred HHHHHHHHHHHHHHHhhhhhhcccccCceEEEcCCcHhHHHHHHHHhCCCCceeecCHHHHHhhhhhhcCCcceeccccc
Confidence 99999999999888889999988999999999999999999999999999999999999999999998 99999999999
Q ss_pred CCCCC
Q 047000 227 QNVPK 231 (231)
Q Consensus 227 ~~~P~ 231 (231)
++.|+
T Consensus 232 q~~P~ 236 (342)
T KOG3178|consen 232 QDTPK 236 (342)
T ss_pred ccCCC
Confidence 99885
No 2
>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU. Members of this protein family are the S-adenosylmethionine-depenedent C-20 methyltransferase BchU, part of the pathway of bacteriochlorophyll c production in photosynthetic green sulfur bacteria. The position modified by this enzyme represents the difference between bacteriochlorophylls c and d; strains lacking this protein can only produced bacteriochlorophyll d.
Probab=99.97 E-value=2.9e-29 Score=216.32 Aligned_cols=186 Identities=20% Similarity=0.403 Sum_probs=146.4
Q ss_pred hHHHHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchh
Q 047000 21 VLPMAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDV 100 (231)
Q Consensus 21 ~~~~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~ 100 (231)
+..++|++|++|||||+|.+ +|.|++|||++++ + +++.++|+||+|+++|+|++. +++|++|+.
T Consensus 2 ~~~~~l~aa~~Lglfd~L~~----gp~t~~eLA~~~~-~----~~~~~~~lL~~L~~lgll~~~-------~~~y~~t~~ 65 (306)
T TIGR02716 2 IEFSCMKAAIELDLFSHMAE----GPKDLATLAADTG-S----VPPRLEMLLETLRQMRVINLE-------DGKWSLTEF 65 (306)
T ss_pred chHHHHHHHHHcCcHHHHhc----CCCCHHHHHHHcC-C----ChHHHHHHHHHHHhCCCeEec-------CCcEecchh
Confidence 45789999999999999987 6999999999999 9 999999999999999999983 689999999
Q ss_pred hc-cccCCCCCC-----------------chhhHHHHHhcCCChhhhhcCCCccccCCCCchHHHHHHHHHH-hchhhhH
Q 047000 101 SN-YFVPNKDGS-----------------YRSQLKEAITEGGVPFDRVHGTHAFEYPGLDPRFNEVFNIAMY-NYTNLVI 161 (231)
Q Consensus 101 s~-~L~~~~~~~-----------------~~~~L~~~l~~g~~~~~~~~g~~~~~~l~~~~~~~~~f~~~m~-~~~~~~~ 161 (231)
+. +|.++++.+ .|.+|.++++ ++++|... +++....+.. ..|...|. .......
T Consensus 66 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~r-~~~~~~~~-----~~~~~~~~~~-~~~~~~~~~~~~~~~~ 138 (306)
T TIGR02716 66 ADYMFSPTPKEPNLHQTPVAKAMAFLADDFYMGLSQAVR-GQKNFKGQ-----VPYPPVTRED-NLYFEEIHRSNAKFAI 138 (306)
T ss_pred HHhhccCCccchhhhcCchHHHHHHHHHHHHHhHHHHhc-CCcccccc-----cCCCCCCHHH-HHhHHHHHHhcchhHH
Confidence 98 554433211 1778888887 44444322 2232223333 33445554 4444455
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCCC-------CCceEeecCCCCC-CC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPKY-------PGVEHVGGDMFQN-VP 230 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~-------~ri~~~~gDff~~-~P 230 (231)
+.+++.++ +++..+|||||||+|.+++.+++++|+++++++|+|++++.++++ +||+++.+|||+. .|
T Consensus 139 ~~l~~~~~-~~~~~~vlDiG~G~G~~~~~~~~~~p~~~~~~~D~~~~~~~a~~~~~~~gl~~rv~~~~~d~~~~~~~ 214 (306)
T TIGR02716 139 QLLLEEAK-LDGVKKMIDVGGGIGDISAAMLKHFPELDSTILNLPGAIDLVNENAAEKGVADRMRGIAVDIYKESYP 214 (306)
T ss_pred HHHHHHcC-CCCCCEEEEeCCchhHHHHHHHHHCCCCEEEEEecHHHHHHHHHHHHhCCccceEEEEecCccCCCCC
Confidence 66778787 888899999999999999999999999999999999999887642 7899999999974 54
No 3
>PF00891 Methyltransf_2: O-methyltransferase; InterPro: IPR001077 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This domain includes a range of O-methyltransferases some of which utilise S-adenosyl methionine as substrate []. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. In eukaryotes, DNA methylation has been implicated in the control of several cellular processes, including differentiation, gene regulation, and embryonic development. O-methyltransferases have a common catalytic domain structure, which might be universal among S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases []. Comparative analysis of the predicted amino acid sequences of a number of plant O-methyltransferase cDNA clones show that they share some 32-71% sequence identity, and can be grouped according to the different compounds they utilise as substrates [].; GO: 0008171 O-methyltransferase activity; PDB: 1FPQ_A 1FP1_D 3P9K_B 3P9I_D 3P9C_A 3I53_A 3I5U_A 3I64_A 3I58_A 1ZG3_A ....
Probab=99.95 E-value=2.1e-28 Score=204.15 Aligned_cols=139 Identities=36% Similarity=0.613 Sum_probs=122.2
Q ss_pred CcccccchhhccccCCCC-CC---------------chhhHHHHHhcCCChhhhhcCCCccccCCCCchHHHHHHHHHHh
Q 047000 92 QRLYGLNDVSNYFVPNKD-GS---------------YRSQLKEAITEGGVPFDRVHGTHAFEYPGLDPRFNEVFNIAMYN 155 (231)
Q Consensus 92 ~~~y~~t~~s~~L~~~~~-~~---------------~~~~L~~~l~~g~~~~~~~~g~~~~~~l~~~~~~~~~f~~~m~~ 155 (231)
+++|++|+.|+.|..+.+ .+ .|.+|.+++++|+++|+..+|.++|+|+.++|+..+.|+.+|..
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 689999999997776654 22 28999999999999999999999999999999999999999999
Q ss_pred chhhhH-HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCCCCCceEeecCCCCCCCC
Q 047000 156 YTNLVI-QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPKYPGVEHVGGDMFQNVPK 231 (231)
Q Consensus 156 ~~~~~~-~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~~ri~~~~gDff~~~P~ 231 (231)
.+.... +.+.+.++ |++.++|||||||+|+++.+++++||+++++++|+|+|++.+++.+||++++||||+++|.
T Consensus 83 ~~~~~~~~~~~~~~d-~~~~~~vvDvGGG~G~~~~~l~~~~P~l~~~v~Dlp~v~~~~~~~~rv~~~~gd~f~~~P~ 158 (241)
T PF00891_consen 83 YSRLNAFDILLEAFD-FSGFKTVVDVGGGSGHFAIALARAYPNLRATVFDLPEVIEQAKEADRVEFVPGDFFDPLPV 158 (241)
T ss_dssp HHHHHHHHHHHHHST-TTTSSEEEEET-TTSHHHHHHHHHSTTSEEEEEE-HHHHCCHHHTTTEEEEES-TTTCCSS
T ss_pred hhhcchhhhhhcccc-ccCccEEEeccCcchHHHHHHHHHCCCCcceeeccHhhhhccccccccccccccHHhhhcc
Confidence 988877 77888899 9999999999999999999999999999999999999999998899999999999988984
No 4
>PF08100 Dimerisation: Dimerisation domain; InterPro: IPR012967 This domain is found at the N terminus of a variety of plant O-methyltransferases. It has been shown to mediate dimerisation of these proteins [].; GO: 0008168 methyltransferase activity, 0046983 protein dimerization activity; PDB: 1ZGJ_A 1ZG3_A 1ZHF_A 1ZGA_A 2QYO_A 1KYW_A 1KYZ_A 3REO_D 1FPX_A 1FP2_A ....
Probab=99.09 E-value=1.8e-10 Score=72.34 Aligned_cols=51 Identities=57% Similarity=0.865 Sum_probs=44.0
Q ss_pred HHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHH
Q 047000 24 MAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLA 76 (231)
Q Consensus 24 ~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~ 76 (231)
++|++|++|||||.|++.| ++|+|++||+.++. ..+|.++..|+|+||+|+
T Consensus 1 MaLk~aveLgI~dii~~~g-~~~ls~~eia~~l~-~~~p~~~~~L~RimR~L~ 51 (51)
T PF08100_consen 1 MALKCAVELGIPDIIHNAG-GGPLSLSEIAARLP-TSNPSAPPMLDRIMRLLV 51 (51)
T ss_dssp HHHHHHHHTTHHHHHHHHT-TS-BEHHHHHHTST-CT-TTHHHHHHHHHHHHH
T ss_pred CcHHHHHHcCcHHHHHHcC-CCCCCHHHHHHHcC-CCCcchHHHHHHHHHHhC
Confidence 5899999999999999986 47999999999999 667778889999999985
No 5
>PF12847 Methyltransf_18: Methyltransferase domain; PDB: 3G2Q_A 3G2O_A 3G2M_B 3G2P_B 3D2L_B 1IM8_B 3NJR_A 3E05_H 3EVZ_A 3HM2_A ....
Probab=98.47 E-value=1.4e-07 Score=68.80 Aligned_cols=52 Identities=21% Similarity=0.387 Sum_probs=46.4
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC-------CCCceEeecCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK-------YPGVEHVGGDM 225 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~-------~~ri~~~~gDf 225 (231)
..+|||||||+|.++..+++.+|+.+++.+|. |..++.+++ .+||+++.+|+
T Consensus 2 ~~~vLDlGcG~G~~~~~l~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~~i~~~~~d~ 61 (112)
T PF12847_consen 2 GGRVLDLGCGTGRLSIALARLFPGARVVGVDISPEMLEIARERAAEEGLSDRITFVQGDA 61 (112)
T ss_dssp TCEEEEETTTTSHHHHHHHHHHTTSEEEEEESSHHHHHHHHHHHHHTTTTTTEEEEESCC
T ss_pred CCEEEEEcCcCCHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECcc
Confidence 46899999999999999999999999999998 667776654 38999999999
No 6
>PRK06922 hypothetical protein; Provisional
Probab=98.33 E-value=9.1e-07 Score=82.52 Aligned_cols=94 Identities=18% Similarity=0.208 Sum_probs=69.4
Q ss_pred CCccccCCCCchHHHHHHHHHHhchhhh--HHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HH
Q 047000 133 THAFEYPGLDPRFNEVFNIAMYNYTNLV--IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VI 209 (231)
Q Consensus 133 ~~~~~~l~~~~~~~~~f~~~m~~~~~~~--~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi 209 (231)
..+|+++...++..+.|...|....... .......++ |.+..+|||||||+|.++..+++.+|+.+++++|+.+ ++
T Consensus 377 ~~~fd~fg~r~D~~dRf~~~~~yle~m~~~~~~k~~i~d-~~~g~rVLDIGCGTG~ls~~LA~~~P~~kVtGIDIS~~ML 455 (677)
T PRK06922 377 VLLFDFFGLRKDAYDRFHNEEVYLEHMNSSADDKRIILD-YIKGDTIVDVGAGGGVMLDMIEEETEDKRIYGIDISENVI 455 (677)
T ss_pred hHHHHHhccChhhHhHHHhHHHHHHhccccHHHHHHHhh-hcCCCEEEEeCCCCCHHHHHHHHhCCCCEEEEEECCHHHH
Confidence 3578888888877788887776543321 112233455 6677899999999999999999999999999999975 46
Q ss_pred hhCCCC-----CCceEeecCCCC
Q 047000 210 QHAPKY-----PGVEHVGGDMFQ 227 (231)
Q Consensus 210 ~~a~~~-----~ri~~~~gDff~ 227 (231)
+.++.. .+++++.+|..+
T Consensus 456 e~Ararl~~~g~~ie~I~gDa~d 478 (677)
T PRK06922 456 DTLKKKKQNEGRSWNVIKGDAIN 478 (677)
T ss_pred HHHHHHhhhcCCCeEEEEcchHh
Confidence 665532 467788888643
No 7
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=98.33 E-value=8.9e-07 Score=70.91 Aligned_cols=63 Identities=14% Similarity=0.330 Sum_probs=51.2
Q ss_pred HHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCCC
Q 047000 165 LEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQN 228 (231)
Q Consensus 165 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~~ 228 (231)
+..++ .....+|||||||+|.++..+++++|+.+++.+|. |..++.++++ ++|+++.+|...+
T Consensus 24 ~~~l~-~~~~~~vLDiG~G~G~~~~~la~~~~~~~v~~vD~s~~~~~~a~~n~~~~~~~~i~~~~~d~~~~ 93 (187)
T PRK08287 24 LSKLE-LHRAKHLIDVGAGTGSVSIEAALQFPSLQVTAIERNPDALRLIKENRQRFGCGNIDIIPGEAPIE 93 (187)
T ss_pred HHhcC-CCCCCEEEEECCcCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHhCCCCeEEEecCchhh
Confidence 34455 66778999999999999999999999999999999 6677766542 5789998887543
No 8
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=98.24 E-value=4.8e-06 Score=69.95 Aligned_cols=64 Identities=23% Similarity=0.366 Sum_probs=53.5
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCCCCceEeecCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKYPGVEHVGGDMFQ 227 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~~ri~~~~gDff~ 227 (231)
..+++.++ .....+|||||||+|.++..+++++|+.+++++|+ |..++.+++. +++++.+|+.+
T Consensus 19 ~~ll~~l~-~~~~~~vLDlGcG~G~~~~~l~~~~p~~~v~gvD~s~~~~~~a~~~-~~~~~~~d~~~ 83 (255)
T PRK14103 19 YDLLARVG-AERARRVVDLGCGPGNLTRYLARRWPGAVIEALDSSPEMVAAARER-GVDARTGDVRD 83 (255)
T ss_pred HHHHHhCC-CCCCCEEEEEcCCCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHhc-CCcEEEcChhh
Confidence 45667676 66778999999999999999999999999999999 6677777653 68888888754
No 9
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=98.24 E-value=3.2e-06 Score=70.97 Aligned_cols=66 Identities=21% Similarity=0.397 Sum_probs=55.8
Q ss_pred HHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-CCceEeecCCCC
Q 047000 161 IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-PGVEHVGGDMFQ 227 (231)
Q Consensus 161 ~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-~ri~~~~gDff~ 227 (231)
...++..++ ..+..+|+|||||+|.++..+++.+|+.+++.+|. |..++.+++. ++++++.+|+.+
T Consensus 20 ~~~ll~~~~-~~~~~~vLDiGcG~G~~~~~la~~~~~~~v~gvD~s~~~i~~a~~~~~~~~~~~~d~~~ 87 (258)
T PRK01683 20 ARDLLARVP-LENPRYVVDLGCGPGNSTELLVERWPAARITGIDSSPAMLAEARSRLPDCQFVEADIAS 87 (258)
T ss_pred HHHHHhhCC-CcCCCEEEEEcccCCHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhCCCCeEEECchhc
Confidence 346667676 67789999999999999999999999999999999 5677777664 789999999865
No 10
>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=98.21 E-value=1.4e-06 Score=67.32 Aligned_cols=55 Identities=25% Similarity=0.396 Sum_probs=47.0
Q ss_pred CCceEEEccCChhHHHHHHH-HHCCCCeEEEeec-hHHHhhCCC------CCCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAIT-SKYPHIKGINFDL-PHVIQHAPK------YPGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~-~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gDff~ 227 (231)
+..+|+|+|||+|.++..++ +.+|+.+++++|+ |..++.++. .++++|..+|+++
T Consensus 3 ~~~~iLDlGcG~G~~~~~l~~~~~~~~~i~gvD~s~~~i~~a~~~~~~~~~~ni~~~~~d~~~ 65 (152)
T PF13847_consen 3 SNKKILDLGCGTGRLLIQLAKELNPGAKIIGVDISEEMIEYAKKRAKELGLDNIEFIQGDIED 65 (152)
T ss_dssp TTSEEEEET-TTSHHHHHHHHHSTTTSEEEEEESSHHHHHHHHHHHHHTTSTTEEEEESBTTC
T ss_pred CCCEEEEecCcCcHHHHHHHHhcCCCCEEEEEECcHHHHHHhhcccccccccccceEEeehhc
Confidence 56799999999999999999 5689999999998 567777765 2789999999988
No 11
>COG4106 Tam Trans-aconitate methyltransferase [General function prediction only]
Probab=98.21 E-value=2.6e-06 Score=68.94 Aligned_cols=69 Identities=20% Similarity=0.365 Sum_probs=59.8
Q ss_pred HHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-CCceEeecCCCCCCC
Q 047000 161 IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-PGVEHVGGDMFQNVP 230 (231)
Q Consensus 161 ~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-~ri~~~~gDff~~~P 230 (231)
+..++...+ .....+|+|+|||.|....-|++++|....+++|- |..++.|++. +.++|..+|+-+-.|
T Consensus 19 a~dLla~Vp-~~~~~~v~DLGCGpGnsTelL~~RwP~A~i~GiDsS~~Mla~Aa~rlp~~~f~~aDl~~w~p 89 (257)
T COG4106 19 ARDLLARVP-LERPRRVVDLGCGPGNSTELLARRWPDAVITGIDSSPAMLAKAAQRLPDATFEEADLRTWKP 89 (257)
T ss_pred HHHHHhhCC-ccccceeeecCCCCCHHHHHHHHhCCCCeEeeccCCHHHHHHHHHhCCCCceecccHhhcCC
Confidence 346777777 78899999999999999999999999999999996 6788888764 889999999877655
No 12
>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase. Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme
Probab=98.14 E-value=5.6e-06 Score=67.45 Aligned_cols=59 Identities=17% Similarity=0.408 Sum_probs=50.6
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC-CCCceEeecCCCCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK-YPGVEHVGGDMFQNVP 230 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~-~~ri~~~~gDff~~~P 230 (231)
....+|||||||+|.++..+++..|+.+++.+|+ |..++.+++ .+++++..+|++++.|
T Consensus 42 ~~~~~VLDiGCG~G~~~~~L~~~~~~~~v~giDiS~~~l~~A~~~~~~~~~~~~d~~~~~~ 102 (204)
T TIGR03587 42 PKIASILELGANIGMNLAALKRLLPFKHIYGVEINEYAVEKAKAYLPNINIIQGSLFDPFK 102 (204)
T ss_pred CCCCcEEEEecCCCHHHHHHHHhCCCCeEEEEECCHHHHHHHHhhCCCCcEEEeeccCCCC
Confidence 3567899999999999999999999999999997 568888877 4788999999887543
No 13
>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=98.08 E-value=4.4e-06 Score=71.48 Aligned_cols=58 Identities=19% Similarity=0.322 Sum_probs=49.7
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEeecCCCCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMFQNVP 230 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff~~~P 230 (231)
+..+|+|+|||+|.++..+++++|+.+++.+|. |..++.++.+ ++|+++.+|++++.|
T Consensus 121 ~~~~vLDlG~GsG~i~~~la~~~~~~~v~avDis~~al~~A~~n~~~~~~~~~i~~~~~D~~~~~~ 186 (284)
T TIGR03533 121 PVKRILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINIERHGLEDRVTLIQSDLFAALP 186 (284)
T ss_pred CCCEEEEEeCchhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhccC
Confidence 356899999999999999999999999999999 5677766542 589999999987654
No 14
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.07 E-value=3.6e-06 Score=72.80 Aligned_cols=56 Identities=20% Similarity=0.314 Sum_probs=49.0
Q ss_pred ceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEeecCCCCCCC
Q 047000 175 QQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMFQNVP 230 (231)
Q Consensus 175 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff~~~P 230 (231)
.+|+|+|||+|.++..+++.+|+.+++.+|+ |.+++.++.+ +||+++.+|+++..|
T Consensus 135 ~~VLDlG~GsG~iai~la~~~p~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~l~ 198 (307)
T PRK11805 135 TRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAALP 198 (307)
T ss_pred CEEEEEechhhHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhhCC
Confidence 6899999999999999999999999999999 6777776542 579999999987654
No 15
>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=98.04 E-value=1.6e-05 Score=58.61 Aligned_cols=62 Identities=16% Similarity=0.208 Sum_probs=48.4
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEeecCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK------YPGVEHVGGDMF 226 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gDff 226 (231)
+++.+. .....+++|+|||.|.++..+++++|+.+++.+|. +..++.++. .++++++.+|..
T Consensus 11 ~~~~~~-~~~~~~vldlG~G~G~~~~~l~~~~~~~~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~~~~~ 79 (124)
T TIGR02469 11 TLSKLR-LRPGDVLWDIGAGSGSITIEAARLVPNGRVYAIERNPEALRLIERNARRFGVSNIVIVEGDAP 79 (124)
T ss_pred HHHHcC-CCCCCEEEEeCCCCCHHHHHHHHHCCCceEEEEcCCHHHHHHHHHHHHHhCCCceEEEecccc
Confidence 344455 55567999999999999999999999999999998 455555543 267888888765
No 16
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=98.02 E-value=9.5e-06 Score=71.90 Aligned_cols=66 Identities=15% Similarity=0.119 Sum_probs=52.1
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC---------CCceEeecCCCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY---------PGVEHVGGDMFQNV 229 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~---------~ri~~~~gDff~~~ 229 (231)
-+++.++ .....+|||+|||+|.+++.+++++|+.+++.+|.. .+++.++.+ .+++++.+|.++.+
T Consensus 219 llL~~lp-~~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~~~~~~~v~~~~~D~l~~~ 294 (378)
T PRK15001 219 FFMQHLP-ENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMPEALDRCEFMINNALSGV 294 (378)
T ss_pred HHHHhCC-cccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCcccCceEEEEEccccccC
Confidence 4555566 333469999999999999999999999999999996 466655531 37899999988764
No 17
>PF05175 MTS: Methyltransferase small domain; InterPro: IPR007848 This domain is found in ribosomal RNA small subunit methyltransferase C and in other methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 1WY7_A 1DUS_A 2OZV_A 2PJD_A 1VQ1_A 1NV9_A 1SG9_C 1NV8_A 3Q87_B 3DMF_A ....
Probab=97.98 E-value=8.1e-06 Score=64.47 Aligned_cols=58 Identities=24% Similarity=0.366 Sum_probs=48.9
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEeecCCCCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY------PGVEHVGGDMFQNVP 230 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gDff~~~P 230 (231)
...++||+|||+|.++..+++++|+.+++..|.. .+++.++.+ +.++++.+|++++.+
T Consensus 31 ~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~v~~~~~d~~~~~~ 95 (170)
T PF05175_consen 31 KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLENVEVVQSDLFEALP 95 (170)
T ss_dssp TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTTEEEEESSTTTTCC
T ss_pred cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCcccccccccccccccc
Confidence 4678999999999999999999999999999984 566666542 339999999999865
No 18
>PRK07402 precorrin-6B methylase; Provisional
Probab=97.98 E-value=1.5e-05 Score=64.28 Aligned_cols=63 Identities=17% Similarity=0.219 Sum_probs=51.3
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
++..++ .....+|+|+|||+|.++..+++.+|+.+++.+|+ |..++.++++ ++++++.+|..+
T Consensus 32 l~~~l~-~~~~~~VLDiG~G~G~~~~~la~~~~~~~V~~vD~s~~~~~~a~~n~~~~~~~~v~~~~~d~~~ 101 (196)
T PRK07402 32 LISQLR-LEPDSVLWDIGAGTGTIPVEAGLLCPKGRVIAIERDEEVVNLIRRNCDRFGVKNVEVIEGSAPE 101 (196)
T ss_pred HHHhcC-CCCCCEEEEeCCCCCHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCeEEEECchHH
Confidence 445555 56678999999999999999999999999999999 7777776542 578999888754
No 19
>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=97.96 E-value=9.7e-06 Score=69.31 Aligned_cols=56 Identities=21% Similarity=0.436 Sum_probs=48.4
Q ss_pred ceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEeecCCCCCCC
Q 047000 175 QQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMFQNVP 230 (231)
Q Consensus 175 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff~~~P 230 (231)
.+|+|+|||+|.++..+++.+|+.+++.+|. |..++.++.+ +|++++.+|++++.|
T Consensus 116 ~~vLDlG~GsG~i~l~la~~~~~~~v~avDis~~al~~a~~n~~~~~~~~~v~~~~~d~~~~~~ 179 (284)
T TIGR00536 116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEPLA 179 (284)
T ss_pred CEEEEEeccHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhccCc
Confidence 6899999999999999999999999999998 5677666542 469999999998654
No 20
>PRK04457 spermidine synthase; Provisional
Probab=97.96 E-value=1.1e-05 Score=68.18 Aligned_cols=56 Identities=21% Similarity=0.268 Sum_probs=48.9
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff~ 227 (231)
+..++|+|||||.|.++..+++.+|+.+++++|+ |++++.++++ +|++++.+|..+
T Consensus 65 ~~~~~vL~IG~G~G~l~~~l~~~~p~~~v~~VEidp~vi~~A~~~f~~~~~~~rv~v~~~Da~~ 128 (262)
T PRK04457 65 PRPQHILQIGLGGGSLAKFIYTYLPDTRQTAVEINPQVIAVARNHFELPENGERFEVIEADGAE 128 (262)
T ss_pred CCCCEEEEECCCHhHHHHHHHHhCCCCeEEEEECCHHHHHHHHHHcCCCCCCCceEEEECCHHH
Confidence 3567899999999999999999999999999999 8898887642 689999999753
No 21
>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=97.93 E-value=1.8e-05 Score=65.25 Aligned_cols=64 Identities=16% Similarity=0.198 Sum_probs=50.9
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeec-hHHHhhCCC------CCCceEeecCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDL-PHVIQHAPK------YPGVEHVGGDMFQ 227 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gDff~ 227 (231)
.++..++ .....+|||||||+|.++..+++.+ |+.+++.+|+ |..++.++. .++++++.+|+.+
T Consensus 36 ~~l~~l~-~~~~~~vLDiGcG~G~~~~~la~~~~~~~~v~gvD~s~~~~~~a~~~~~~~~~~~v~~~~~d~~~ 107 (231)
T TIGR02752 36 DTMKRMN-VQAGTSALDVCCGTADWSIALAEAVGPEGHVIGLDFSENMLSVGRQKVKDAGLHNVELVHGNAME 107 (231)
T ss_pred HHHHhcC-CCCCCEEEEeCCCcCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHhcCCCceEEEEechhc
Confidence 4455555 6667899999999999999999986 7789999999 566665543 2689999998865
No 22
>TIGR03704 PrmC_rel_meth putative protein-(glutamine-N5) methyltransferase, unknown substrate-specific. This protein family is closely related to two different families of protein-(glutamine-N5) methyltransferase. The first is PrmB, which modifies ribosomal protein L3 in some bacteria. The second is PrmC (HemK), which modifies peptide chain release factors 1 and 2 in most bacteria and also in eukaryotes. The glutamine side chain-binding motif NPPY shared by PrmB and PrmC is N[VAT]PY in this family. The protein substrate is unknown.
Probab=97.92 E-value=2.4e-05 Score=65.73 Aligned_cols=57 Identities=19% Similarity=0.243 Sum_probs=48.4
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC---CCceEeecCCCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY---PGVEHVGGDMFQNV 229 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~---~ri~~~~gDff~~~ 229 (231)
...+++|+|||+|.++..+++.+|..+++.+|. |.+++.++.+ .+++++.+|+++.+
T Consensus 86 ~~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~~~~~~~~~D~~~~l 146 (251)
T TIGR03704 86 GTLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLADAGGTVHEGDLYDAL 146 (251)
T ss_pred CCCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCEEEEeechhhc
Confidence 345899999999999999999999999999998 6788877754 44789999998754
No 23
>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=97.92 E-value=1.1e-05 Score=66.98 Aligned_cols=56 Identities=18% Similarity=0.219 Sum_probs=47.5
Q ss_pred CCCceEEEccCChhHHHHHHHHH--CCCCeEEEeec-hHHHhhCCCC-------CCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSK--YPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~--~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff~ 227 (231)
....+|||||||+|.++..++++ +|+.+++.+|+ |.+++.+++. .+++++.+|+.+
T Consensus 52 ~~~~~iLDlGcG~G~~~~~l~~~~~~p~~~v~gvD~s~~ml~~a~~~~~~~~~~~~v~~~~~d~~~ 117 (239)
T TIGR00740 52 TPDSNVYDLGCSRGAATLSARRNINQPNVKIIGIDNSQPMVERCRQHIAAYHSEIPVEILCNDIRH 117 (239)
T ss_pred CCCCEEEEecCCCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEECChhh
Confidence 35678999999999999999997 48899999999 7788777542 479999999875
No 24
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=97.91 E-value=1.8e-05 Score=70.61 Aligned_cols=56 Identities=21% Similarity=0.277 Sum_probs=48.9
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEeecCCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-----PGVEHVGGDMFQN 228 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff~~ 228 (231)
...+++|+|||+|.+++.+++++|+.+++.+|. |..++.++++ .+++++.+|++++
T Consensus 251 ~~~rVLDLGcGSG~IaiaLA~~~p~a~VtAVDiS~~ALe~AreNa~~~g~rV~fi~gDl~e~ 312 (423)
T PRK14966 251 ENGRVWDLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLGARVEFAHGSWFDT 312 (423)
T ss_pred CCCEEEEEeChhhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCcEEEEEcchhcc
Confidence 446899999999999999999999999999999 7788777653 4799999999875
No 25
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=97.89 E-value=1.3e-05 Score=64.71 Aligned_cols=55 Identities=13% Similarity=0.239 Sum_probs=46.0
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK------YPGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gDff~ 227 (231)
...++||||||.|.++..+++++|+.+++.+|+ +..++.++. ..+|+++.+|+.+
T Consensus 16 ~~~~ilDiGcG~G~~~~~la~~~p~~~v~gvD~~~~~l~~a~~~~~~~~l~ni~~i~~d~~~ 77 (194)
T TIGR00091 16 KAPLHLEIGCGKGRFLIDMAKQNPDKNFLGIEIHTPIVLAANNKANKLGLKNLHVLCGDANE 77 (194)
T ss_pred CCceEEEeCCCccHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHhCCCCEEEEccCHHH
Confidence 457999999999999999999999999999998 556665543 2579999998753
No 26
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=97.87 E-value=1.5e-05 Score=66.72 Aligned_cols=56 Identities=23% Similarity=0.335 Sum_probs=47.6
Q ss_pred CCCceEEEccCChhHHHHHHHH--HCCCCeEEEeec-hHHHhhCCCC-------CCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITS--KYPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~--~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff~ 227 (231)
....+|+|||||+|..+..+++ .+|+.+++.+|. |..++.+++. .+|+++.+|+.+
T Consensus 55 ~~~~~vLDlGcGtG~~~~~l~~~~~~~~~~v~gvD~S~~ml~~A~~~~~~~~~~~~v~~~~~d~~~ 120 (247)
T PRK15451 55 QPGTQVYDLGCSLGAATLSVRRNIHHDNCKIIAIDNSPAMIERCRRHIDAYKAPTPVDVIEGDIRD 120 (247)
T ss_pred CCCCEEEEEcccCCHHHHHHHHhcCCCCCeEEEEeCCHHHHHHHHHHHHhcCCCCCeEEEeCChhh
Confidence 3567999999999999999988 469999999998 7788877652 489999999865
No 27
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=97.86 E-value=1.5e-05 Score=68.01 Aligned_cols=55 Identities=24% Similarity=0.370 Sum_probs=47.1
Q ss_pred eEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCCCCC
Q 047000 176 QLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQNVP 230 (231)
Q Consensus 176 ~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~~~P 230 (231)
+|+|+|+|+|..+++++++.|+++++..|+ |.+++.|+.+ .++.++.+|+|++++
T Consensus 113 ~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l~~~~~~~~dlf~~~~ 174 (280)
T COG2890 113 RILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGLVRVLVVQSDLFEPLR 174 (280)
T ss_pred cEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCCccEEEEeeecccccC
Confidence 899999999999999999999999999998 5677766542 567777779998764
No 28
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=97.83 E-value=3.7e-05 Score=61.76 Aligned_cols=55 Identities=20% Similarity=0.153 Sum_probs=45.9
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
...+|+|||||+|.++..+++++|+.+++.+|. +..++.+++. ++|+++.+|..+
T Consensus 45 ~g~~VLDiGcGtG~~al~la~~~~~~~V~giD~s~~~l~~A~~~~~~~~l~~i~~~~~d~~~ 106 (187)
T PRK00107 45 GGERVLDVGSGAGFPGIPLAIARPELKVTLVDSLGKKIAFLREVAAELGLKNVTVVHGRAEE 106 (187)
T ss_pred CCCeEEEEcCCCCHHHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHcCCCCEEEEeccHhh
Confidence 468999999999999999999999999999998 5566665542 459999998754
No 29
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=97.83 E-value=1.9e-05 Score=72.76 Aligned_cols=56 Identities=16% Similarity=0.312 Sum_probs=48.4
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEeecCCCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMFQNV 229 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff~~~ 229 (231)
..+|||||||+|.+++.+++.+|+.+++.+|+ |.+++.++.+ ++|+++.+|+++..
T Consensus 139 ~~~VLDlG~GsG~iai~la~~~p~~~v~avDis~~al~~A~~N~~~~~l~~~v~~~~~D~~~~~ 202 (506)
T PRK01544 139 FLNILELGTGSGCIAISLLCELPNANVIATDISLDAIEVAKSNAIKYEVTDRIQIIHSNWFENI 202 (506)
T ss_pred CCEEEEccCchhHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHcCCccceeeeecchhhhC
Confidence 46899999999999999999999999999998 5677776642 58999999998754
No 30
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=97.83 E-value=5.1e-05 Score=64.66 Aligned_cols=68 Identities=19% Similarity=0.238 Sum_probs=53.7
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEeecCCCCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY------PGVEHVGGDMFQNVP 230 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gDff~~~P 230 (231)
+-+++.++ .....+|+|+|||.|.+++.+++.+|+.+.+.+|.. ..++.++.+ ++.++...|.|++++
T Consensus 148 ~lLl~~l~-~~~~~~vlDlGCG~Gvlg~~la~~~p~~~vtmvDvn~~Av~~ar~Nl~~N~~~~~~v~~s~~~~~v~ 222 (300)
T COG2813 148 RLLLETLP-PDLGGKVLDLGCGYGVLGLVLAKKSPQAKLTLVDVNARAVESARKNLAANGVENTEVWASNLYEPVE 222 (300)
T ss_pred HHHHHhCC-ccCCCcEEEeCCCccHHHHHHHHhCCCCeEEEEecCHHHHHHHHHhHHHcCCCccEEEEeccccccc
Confidence 45667777 444449999999999999999999999999999986 467777653 334678888888754
No 31
>TIGR03534 RF_mod_PrmC protein-(glutamine-N5) methyltransferase, release factor-specific. Members of this protein family are HemK (PrmC), a protein once thought to be involved in heme biosynthesis but now recognized to be a protein-glutamine methyltransferase that modifies the peptide chain release factors. All members of the seed alignment are encoded next to the release factor 1 gene (prfA) and confirmed by phylogenetic analysis. SIMBAL analysis (manuscript in prep.) shows the motif [LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers specificity for the release factors rather than for ribosomal protein L3.
Probab=97.82 E-value=4.3e-05 Score=63.62 Aligned_cols=57 Identities=21% Similarity=0.339 Sum_probs=48.0
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQNV 229 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~~~ 229 (231)
...+|+|+|||+|.++..+++.+|+.+++.+|. |..++.++.. ++++++.+|++++.
T Consensus 87 ~~~~ilDig~G~G~~~~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~d~~~~~ 150 (251)
T TIGR03534 87 GPLRVLDLGTGSGAIALALAKERPDARVTAVDISPEALAVARKNAARLGLDNVTFLQSDWFEPL 150 (251)
T ss_pred CCCeEEEEeCcHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchhccC
Confidence 346899999999999999999999999999997 5666666542 57999999998754
No 32
>TIGR00138 gidB 16S rRNA methyltransferase GidB. GidB (glucose-inhibited division protein B) appears to be present and in a single copy in nearly all complete eubacterial genomes. It is missing only from some obligate intracellular species of various lineages (Chlamydiae, Ehrlichia, Wolbachia, Anaplasma, Buchnera, etc.). GidB shows a methytransferase fold in its the crystal structure, and acts as a 7-methylguanosine (m(7)G) methyltransferase, apparently specific to 16S rRNA.
Probab=97.78 E-value=2.1e-05 Score=62.80 Aligned_cols=54 Identities=19% Similarity=0.226 Sum_probs=44.4
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCC------CCCceEeecCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPK------YPGVEHVGGDMFQ 227 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~------~~ri~~~~gDff~ 227 (231)
..+|+|||||+|.++..+++.+|+.+++.+|..+ .++.++. .++|+++.+|+.+
T Consensus 43 ~~~vLDiGcGtG~~s~~la~~~~~~~V~~iD~s~~~~~~a~~~~~~~~~~~i~~i~~d~~~ 103 (181)
T TIGR00138 43 GKKVIDIGSGAGFPGIPLAIARPELKLTLLESNHKKVAFLREVKAELGLNNVEIVNGRAED 103 (181)
T ss_pred CCeEEEecCCCCccHHHHHHHCCCCeEEEEeCcHHHHHHHHHHHHHhCCCCeEEEecchhh
Confidence 5799999999999999999999999999999864 4444432 2579999999865
No 33
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=97.75 E-value=6.2e-05 Score=63.97 Aligned_cols=63 Identities=14% Similarity=0.248 Sum_probs=49.2
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC---CCceEeecCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY---PGVEHVGGDMFQ 227 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~---~ri~~~~gDff~ 227 (231)
..+++.++ .....+|+|||||+|.++..++++.+ +++.+|.. ..++.+++. ++++++.+|+.+
T Consensus 32 ~~i~~~l~-~~~~~~VLEiG~G~G~lt~~L~~~~~--~v~avE~d~~~~~~~~~~~~~~~v~~i~~D~~~ 98 (272)
T PRK00274 32 DKIVDAAG-PQPGDNVLEIGPGLGALTEPLLERAA--KVTAVEIDRDLAPILAETFAEDNLTIIEGDALK 98 (272)
T ss_pred HHHHHhcC-CCCcCeEEEeCCCccHHHHHHHHhCC--cEEEEECCHHHHHHHHHhhccCceEEEEChhhc
Confidence 34555555 66678999999999999999999986 78888874 455555442 689999999876
No 34
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=97.74 E-value=4.4e-05 Score=62.02 Aligned_cols=60 Identities=18% Similarity=0.244 Sum_probs=48.0
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEeecCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK------YPGVEHVGGDM 225 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gDf 225 (231)
+.+.+. .+..+|||||||+|.++..+++.+|+.+++.+|. |..++.++. .++++++.+|+
T Consensus 33 ~~~~~~--~~~~~VLDiGcGtG~~~~~la~~~p~~~v~gVD~s~~~i~~a~~~~~~~~~~~v~~~~~d~ 99 (202)
T PRK00121 33 WAELFG--NDAPIHLEIGFGKGEFLVEMAKANPDINFIGIEVHEPGVGKALKKIEEEGLTNLRLLCGDA 99 (202)
T ss_pred HHHHcC--CCCCeEEEEccCCCHHHHHHHHHCCCccEEEEEechHHHHHHHHHHHHcCCCCEEEEecCH
Confidence 344444 2568999999999999999999999999999998 456665543 26799999997
No 35
>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase. This model represents the S-adenosylmethionine-dependent O-methyltransferase responsible for methylation of magnesium protoporphyrin IX. This step is essentiasl for the biosynthesis of both chlorophyll and bacteriochlorophyll. This model encompasses two closely related clades, from cyanobacteria (and plants) where it is called ChlM and other photosynthetic bacteria where it is known as BchM.
Probab=97.74 E-value=8.1e-05 Score=61.00 Aligned_cols=90 Identities=12% Similarity=0.024 Sum_probs=56.8
Q ss_pred cccCCCCchHHHHHHHHHHhchhhhHHHHHHhCCC-CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCC
Q 047000 136 FEYPGLDPRFNEVFNIAMYNYTNLVIQKILEAYKG-FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAP 213 (231)
Q Consensus 136 ~~~l~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~-~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~ 213 (231)
|+-+..++.....+...|..........+++.+.. ..+..+++|||||.|.++..+++. +.+++++|. |..++.++
T Consensus 17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~~--~~~v~gvD~s~~~i~~a~ 94 (219)
T TIGR02021 17 WARIYGSGDPVSRVRQTVREGRAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAKR--GAIVKAVDISEQMVQMAR 94 (219)
T ss_pred HHHhhCCchhhHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHH
Confidence 44344433334445554533333333334443331 335789999999999999999886 457899997 55776665
Q ss_pred CC-------CCceEeecCCCC
Q 047000 214 KY-------PGVEHVGGDMFQ 227 (231)
Q Consensus 214 ~~-------~ri~~~~gDff~ 227 (231)
+. .++++..+|+.+
T Consensus 95 ~~~~~~~~~~~i~~~~~d~~~ 115 (219)
T TIGR02021 95 NRAQGRDVAGNVEFEVNDLLS 115 (219)
T ss_pred HHHHhcCCCCceEEEECChhh
Confidence 42 478999988754
No 36
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=97.72 E-value=8.8e-05 Score=62.72 Aligned_cols=59 Identities=20% Similarity=0.343 Sum_probs=48.8
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC------CCCceEeecCCCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK------YPGVEHVGGDMFQNV 229 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~------~~ri~~~~gDff~~~ 229 (231)
..+..+|+|+|||+|.++..+++.+|..+++..|.. ..++.++. ..+++++.+|++++.
T Consensus 106 ~~~~~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~~~~~~~i~~~~~d~~~~~ 171 (275)
T PRK09328 106 LKEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAKHGLGARVEFLQGDWFEPL 171 (275)
T ss_pred ccCCCEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHhCCCCcEEEEEccccCcC
Confidence 345678999999999999999999999999999984 45555543 268999999998764
No 37
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=97.72 E-value=7e-05 Score=58.94 Aligned_cols=64 Identities=11% Similarity=0.213 Sum_probs=50.0
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCC----CCCceEeecCCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPK----YPGVEHVGGDMFQN 228 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~----~~ri~~~~gDff~~ 228 (231)
..+++.++ +....+++|||||.|.++..++++ ..+++.+|..+ .++.+++ .++++++.+|+.+-
T Consensus 3 ~~i~~~~~-~~~~~~vLEiG~G~G~lt~~l~~~--~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~ 71 (169)
T smart00650 3 DKIVRAAN-LRPGDTVLEIGPGKGALTEELLER--AARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKF 71 (169)
T ss_pred HHHHHhcC-CCCcCEEEEECCCccHHHHHHHhc--CCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcC
Confidence 34566666 667789999999999999999998 56789999863 5554443 36899999999863
No 38
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=97.71 E-value=8.3e-05 Score=61.80 Aligned_cols=55 Identities=18% Similarity=0.207 Sum_probs=47.3
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gDff~ 227 (231)
...+|||||||+|.++..+++..+..+++++|.. ..++.+++. ..|+|+.+|..+
T Consensus 51 ~g~~vLDva~GTGd~a~~~~k~~g~g~v~~~D~s~~ML~~a~~k~~~~~~~~i~fv~~dAe~ 112 (238)
T COG2226 51 PGDKVLDVACGTGDMALLLAKSVGTGEVVGLDISESMLEVAREKLKKKGVQNVEFVVGDAEN 112 (238)
T ss_pred CCCEEEEecCCccHHHHHHHHhcCCceEEEEECCHHHHHHHHHHhhccCccceEEEEechhh
Confidence 5789999999999999999999999999999984 577777653 239999999865
No 39
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=97.67 E-value=0.00012 Score=62.01 Aligned_cols=64 Identities=23% Similarity=0.360 Sum_probs=51.1
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC----CCCceEeecCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK----YPGVEHVGGDMFQ 227 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----~~ri~~~~gDff~ 227 (231)
..++..++ ..+..+|||||||.|..+..+++.+ +.+++.+|+. ..++.++. .++|+++.+|+.+
T Consensus 42 ~~~l~~l~-l~~~~~VLDiGcG~G~~a~~la~~~-~~~v~giD~s~~~~~~a~~~~~~~~~i~~~~~D~~~ 110 (263)
T PTZ00098 42 TKILSDIE-LNENSKVLDIGSGLGGGCKYINEKY-GAHVHGVDICEKMVNIAKLRNSDKNKIEFEANDILK 110 (263)
T ss_pred HHHHHhCC-CCCCCEEEEEcCCCChhhHHHHhhc-CCEEEEEECCHHHHHHHHHHcCcCCceEEEECCccc
Confidence 45666666 7778899999999999999998876 6799999984 55665553 3689999999875
No 40
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=97.67 E-value=8.2e-05 Score=59.18 Aligned_cols=62 Identities=16% Similarity=0.156 Sum_probs=50.1
Q ss_pred HhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCCC
Q 047000 166 EAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQN 228 (231)
Q Consensus 166 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~~ 228 (231)
..+. ..+..+++|||||+|.++++.+..+|+.+++.+|. ++.++.++.+ ++++.+.||--+.
T Consensus 28 s~L~-~~~g~~l~DIGaGtGsi~iE~a~~~p~~~v~AIe~~~~a~~~~~~N~~~fg~~n~~vv~g~Ap~~ 96 (187)
T COG2242 28 SKLR-PRPGDRLWDIGAGTGSITIEWALAGPSGRVIAIERDEEALELIERNAARFGVDNLEVVEGDAPEA 96 (187)
T ss_pred HhhC-CCCCCEEEEeCCCccHHHHHHHHhCCCceEEEEecCHHHHHHHHHHHHHhCCCcEEEEeccchHh
Confidence 3344 56788999999999999999999999999999997 4566655442 8899999886543
No 41
>PF08242 Methyltransf_12: Methyltransferase domain; InterPro: IPR013217 Methyl transfer from the ubiquitous donor S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] Fatty acid synthase (2.3.1.85 from EC), a biosynthetic enzyme catalysing the formation of long-chain fatty acids Glycine N-methyltransferase (2.1.1.20 from EC) which catalyses the SAM-dependent methylation of glycine to form sarcosine and may play a role in regulating the methylation potential of the cell [] Enniatin synthetase, involved in non-ribosomal biosynthesis of cyclohexadepsipeptidase, enniatin [] Histamine N-methyltransferase (2.1.1.8 from EC), a SAM-dependent histamine-inactivating enzyme [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ].; PDB: 2VZ8_A 2VZ9_A.
Probab=97.66 E-value=9.6e-06 Score=57.82 Aligned_cols=51 Identities=22% Similarity=0.399 Sum_probs=35.2
Q ss_pred EEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC---------CCceEeecCCCCC
Q 047000 178 VDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY---------PGVEHVGGDMFQN 228 (231)
Q Consensus 178 vDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~---------~ri~~~~gDff~~ 228 (231)
||||||+|.++..+++++|..+.+.+|. |..++.+++. .++++...|.++.
T Consensus 1 LdiGcG~G~~~~~l~~~~~~~~~~~~D~s~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (99)
T PF08242_consen 1 LDIGCGTGRLLRALLEELPDARYTGVDISPSMLERARERLAELGNDNFERLRFDVLDLFDY 61 (99)
T ss_dssp -EESTTTS-TTTTHHHHC-EEEEEEEESSSSTTSTTCCCHHHCT---EEEEE--SSS---C
T ss_pred CEeCccChHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhcCCcceeEEEeecCChhhc
Confidence 7999999999999999999999999998 5677777763 2455555555543
No 42
>PRK11207 tellurite resistance protein TehB; Provisional
Probab=97.65 E-value=8e-05 Score=60.22 Aligned_cols=63 Identities=17% Similarity=0.209 Sum_probs=48.3
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
+.+++.++ .....+|||+|||.|.++..++++ +.+++.+|+ |..++.++.. ..|++...|+.+
T Consensus 20 ~~l~~~l~-~~~~~~vLDiGcG~G~~a~~La~~--g~~V~gvD~S~~~i~~a~~~~~~~~~~~v~~~~~d~~~ 89 (197)
T PRK11207 20 SEVLEAVK-VVKPGKTLDLGCGNGRNSLYLAAN--GFDVTAWDKNPMSIANLERIKAAENLDNLHTAVVDLNN 89 (197)
T ss_pred HHHHHhcc-cCCCCcEEEECCCCCHHHHHHHHC--CCEEEEEeCCHHHHHHHHHHHHHcCCCcceEEecChhh
Confidence 45666666 555689999999999999999987 568999999 5566665532 457888888764
No 43
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=97.63 E-value=5.2e-05 Score=63.17 Aligned_cols=57 Identities=11% Similarity=0.191 Sum_probs=48.0
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCC-------CCCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-------~~ri~~~~gDff~ 227 (231)
.....+|+|+|+|.|..+..+++++++.+.+.+|+.+ .++.|+. .+||+++..|+-+
T Consensus 42 ~~~~~~IlDlGaG~G~l~L~la~r~~~a~I~~VEiq~~~a~~A~~nv~ln~l~~ri~v~~~Di~~ 106 (248)
T COG4123 42 VPKKGRILDLGAGNGALGLLLAQRTEKAKIVGVEIQEEAAEMAQRNVALNPLEERIQVIEADIKE 106 (248)
T ss_pred cccCCeEEEecCCcCHHHHHHhccCCCCcEEEEEeCHHHHHHHHHHHHhCcchhceeEehhhHHH
Confidence 3458999999999999999999999999999999964 5555544 2899999999865
No 44
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=97.62 E-value=0.00014 Score=63.80 Aligned_cols=65 Identities=15% Similarity=0.223 Sum_probs=48.2
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-----CCceEeecCCCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY-----PGVEHVGGDMFQNV 229 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-----~ri~~~~gDff~~~ 229 (231)
++..++ -....+|+|+|||.|.++..+++++|+.+++.+|.. .+++.++.+ -..+++.+|.+++.
T Consensus 188 Ll~~l~-~~~~g~VLDlGCG~G~ls~~la~~~p~~~v~~vDis~~Al~~A~~nl~~n~l~~~~~~~D~~~~~ 258 (342)
T PRK09489 188 LLSTLT-PHTKGKVLDVGCGAGVLSAVLARHSPKIRLTLSDVSAAALESSRATLAANGLEGEVFASNVFSDI 258 (342)
T ss_pred HHHhcc-ccCCCeEEEeccCcCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCCCCEEEEccccccc
Confidence 344444 223458999999999999999999999999999985 566666542 23567788877643
No 45
>PRK14121 tRNA (guanine-N(7)-)-methyltransferase; Provisional
Probab=97.62 E-value=0.0001 Score=65.44 Aligned_cols=61 Identities=16% Similarity=0.174 Sum_probs=46.8
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEeecCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK------YPGVEHVGGDM 225 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gDf 225 (231)
+++.+. -.....+||||||+|.++..+++++|+..++++|+ +.+++.+.. .+.|.++.+|.
T Consensus 114 ~~~~~~-~~~~p~vLEIGcGsG~~ll~lA~~~P~~~~iGIEI~~~~i~~a~~ka~~~gL~NV~~i~~DA 181 (390)
T PRK14121 114 FLDFIS-KNQEKILIEIGFGSGRHLLYQAKNNPNKLFIGIEIHTPSIEQVLKQIELLNLKNLLIINYDA 181 (390)
T ss_pred HHHHhc-CCCCCeEEEEcCcccHHHHHHHHhCCCCCEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCH
Confidence 444443 23457999999999999999999999999999997 445544432 26788998886
No 46
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=97.61 E-value=0.00016 Score=59.27 Aligned_cols=65 Identities=14% Similarity=0.165 Sum_probs=50.5
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeec-hHHHhhCCCC------CCceEeecCCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQN 228 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~~ 228 (231)
.+++.++ ..+..+|+|||||+|.++..+++..+ +.+++.+|. |..++.++++ ++++++.+|..+.
T Consensus 68 ~~~~~l~-~~~~~~VLDiG~GsG~~a~~la~~~~~~g~V~~vD~~~~~~~~A~~~~~~~g~~~v~~~~~d~~~~ 140 (215)
T TIGR00080 68 MMTELLE-LKPGMKVLEIGTGSGYQAAVLAEIVGRDGLVVSIERIPELAEKAERRLRKLGLDNVIVIVGDGTQG 140 (215)
T ss_pred HHHHHhC-CCCcCEEEEECCCccHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCeEEEECCcccC
Confidence 3445555 56778999999999999999999865 467889996 6677666542 6799999998764
No 47
>PLN02244 tocopherol O-methyltransferase
Probab=97.61 E-value=0.00012 Score=64.18 Aligned_cols=55 Identities=20% Similarity=0.253 Sum_probs=44.9
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------CCCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gDff~ 227 (231)
....+|||||||.|.++..+++++ +.+++.+|+. ..++.+++ .++|+++.+|+.+
T Consensus 117 ~~~~~VLDiGCG~G~~~~~La~~~-g~~v~gvD~s~~~i~~a~~~~~~~g~~~~v~~~~~D~~~ 179 (340)
T PLN02244 117 KRPKRIVDVGCGIGGSSRYLARKY-GANVKGITLSPVQAARANALAAAQGLSDKVSFQVADALN 179 (340)
T ss_pred CCCCeEEEecCCCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEcCccc
Confidence 456899999999999999999998 7899999985 45554443 2579999999865
No 48
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=97.61 E-value=0.00014 Score=66.43 Aligned_cols=64 Identities=19% Similarity=0.289 Sum_probs=50.8
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC-----CCCceEeecCCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK-----YPGVEHVGGDMFQN 228 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-----~~ri~~~~gDff~~ 228 (231)
.+++.+. .+...+|||||||+|..+..+++.+ +.+++.+|+. ..++.++. ..+++|+.+|+++.
T Consensus 257 ~l~~~~~-~~~~~~vLDiGcG~G~~~~~la~~~-~~~v~gvDiS~~~l~~A~~~~~~~~~~v~~~~~d~~~~ 326 (475)
T PLN02336 257 EFVDKLD-LKPGQKVLDVGCGIGGGDFYMAENF-DVHVVGIDLSVNMISFALERAIGRKCSVEFEVADCTKK 326 (475)
T ss_pred HHHHhcC-CCCCCEEEEEeccCCHHHHHHHHhc-CCEEEEEECCHHHHHHHHHHhhcCCCceEEEEcCcccC
Confidence 4555555 6667899999999999999999876 7899999994 56665543 25899999999874
No 49
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.58 E-value=0.00024 Score=58.12 Aligned_cols=66 Identities=17% Similarity=0.195 Sum_probs=51.2
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeec-hHHHhhCCCC------CCceEeecCCCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQNV 229 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~~~ 229 (231)
.+++.++ .....+|||||||+|.++..+++.. ++.+++.+|. |..++.++++ ++|+++.+|.++..
T Consensus 67 ~~~~~l~-~~~g~~VLdIG~GsG~~t~~la~~~~~~~~V~~vE~~~~~~~~a~~~l~~~g~~~v~~~~gd~~~~~ 140 (212)
T PRK13942 67 IMCELLD-LKEGMKVLEIGTGSGYHAAVVAEIVGKSGKVVTIERIPELAEKAKKTLKKLGYDNVEVIVGDGTLGY 140 (212)
T ss_pred HHHHHcC-CCCcCEEEEECCcccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCeEEEECCcccCC
Confidence 4455566 6778899999999999999988885 4578899997 4566666542 67999999987643
No 50
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=97.57 E-value=0.00024 Score=57.83 Aligned_cols=66 Identities=15% Similarity=0.081 Sum_probs=49.5
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeec-hHHHhhCCCC-------CCceEeecCCCCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMFQNVP 230 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff~~~P 230 (231)
+++.++ .....+|+|||||+|.++..+++..+ .-+++.+|. |..++.++++ .+++++.+|+.+..|
T Consensus 64 ~~~~l~-~~~~~~VLDiG~GsG~~~~~la~~~~~~g~V~~iD~~~~~~~~a~~~l~~~~~~~~v~~~~~d~~~~~~ 138 (205)
T PRK13944 64 MCELIE-PRPGMKILEVGTGSGYQAAVCAEAIERRGKVYTVEIVKELAIYAAQNIERLGYWGVVEVYHGDGKRGLE 138 (205)
T ss_pred HHHhcC-CCCCCEEEEECcCccHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHHHHcCCCCcEEEEECCcccCCc
Confidence 444454 45668999999999999999998875 567899998 4566555431 468999999877543
No 51
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=97.56 E-value=8.2e-05 Score=53.27 Aligned_cols=51 Identities=27% Similarity=0.532 Sum_probs=38.9
Q ss_pred EEEccCChhHHHHHHHHHC---CCCeEEEeec-hHHHhhCCCC-----CCceEeecCCCC
Q 047000 177 LVDVGGCLGNTLKAITSKY---PHIKGINFDL-PHVIQHAPKY-----PGVEHVGGDMFQ 227 (231)
Q Consensus 177 vvDVGGG~G~~~~~l~~~~---P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff~ 227 (231)
|||+|||+|..++.+++.+ |+.+.+.+|+ |..++.+++. .+++++..|+-+
T Consensus 1 ILDlgcG~G~~~~~l~~~~~~~~~~~~~gvD~s~~~l~~~~~~~~~~~~~~~~~~~D~~~ 60 (101)
T PF13649_consen 1 ILDLGCGTGRVTRALARRFDAGPSSRVIGVDISPEMLELAKKRFSEDGPKVRFVQADARD 60 (101)
T ss_dssp -EEET-TTSHHHHHHHHHS-----SEEEEEES-HHHHHHHHHHSHHTTTTSEEEESCTTC
T ss_pred CEEeecCCcHHHHHHHHHhhhcccceEEEEECCHHHHHHHHHhchhcCCceEEEECCHhH
Confidence 7999999999999999997 6789999997 4566666542 488999998854
No 52
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=97.55 E-value=0.00042 Score=57.95 Aligned_cols=64 Identities=16% Similarity=0.222 Sum_probs=47.7
Q ss_pred HHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-CCceEeecCCCC
Q 047000 161 IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-PGVEHVGGDMFQ 227 (231)
Q Consensus 161 ~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-~ri~~~~gDff~ 227 (231)
+..+++.++ .....+|||+|||+|.++..+.+. +.+++.+|+ |..++.++.. ..+.++.+|+-+
T Consensus 31 a~~l~~~l~-~~~~~~vLDiGcG~G~~~~~l~~~--~~~v~~~D~s~~~l~~a~~~~~~~~~~~~d~~~ 96 (251)
T PRK10258 31 ADALLAMLP-QRKFTHVLDAGCGPGWMSRYWRER--GSQVTALDLSPPMLAQARQKDAADHYLAGDIES 96 (251)
T ss_pred HHHHHHhcC-ccCCCeEEEeeCCCCHHHHHHHHc--CCeEEEEECCHHHHHHHHhhCCCCCEEEcCccc
Confidence 344555555 445689999999999999988774 578999999 6788777664 446777777744
No 53
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=97.53 E-value=0.00025 Score=58.31 Aligned_cols=64 Identities=16% Similarity=0.166 Sum_probs=49.7
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeech-HHHhhCCC-------CCCceEeecCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDLP-HVIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gDff~ 227 (231)
.++..+. ..+..+|+|||||.|.++..+++.+| +.+++++|+. ..++.+++ ..+++++.+|+.+
T Consensus 42 ~~~~~~~-~~~~~~vldiG~G~G~~~~~l~~~~~~~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~d~~~ 114 (239)
T PRK00216 42 KTIKWLG-VRPGDKVLDLACGTGDLAIALAKAVGKTGEVVGLDFSEGMLAVGREKLRDLGLSGNVEFVQGDAEA 114 (239)
T ss_pred HHHHHhC-CCCCCeEEEeCCCCCHHHHHHHHHcCCCCeEEEEeCCHHHHHHHHHhhcccccccCeEEEeccccc
Confidence 3444454 44568999999999999999999998 7899999984 45555543 2578999999875
No 54
>TIGR01934 MenG_MenH_UbiE ubiquinone/menaquinone biosynthesis methyltransferases. Note that a number of non-orthologous genes which are members of pfam03737 have been erroneously annotated as MenG methyltransferases.
Probab=97.49 E-value=0.00026 Score=57.55 Aligned_cols=64 Identities=17% Similarity=0.184 Sum_probs=50.2
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCC-CeEEEeec-hHHHhhCCC----CCCceEeecCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPH-IKGINFDL-PHVIQHAPK----YPGVEHVGGDMFQ 227 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dl-p~vi~~a~~----~~ri~~~~gDff~ 227 (231)
.+++... .....+|+|+|||.|.++..+++.+|. .+++++|. |..++.++. ..+++++.+|+.+
T Consensus 30 ~~~~~~~-~~~~~~vldiG~G~G~~~~~~~~~~~~~~~~~~iD~~~~~~~~~~~~~~~~~~i~~~~~d~~~ 99 (223)
T TIGR01934 30 RAVKLIG-VFKGQKVLDVACGTGDLAIELAKSAPDRGKVTGVDFSSEMLEVAKKKSELPLNIEFIQADAEA 99 (223)
T ss_pred HHHHHhc-cCCCCeEEEeCCCCChhHHHHHHhcCCCceEEEEECCHHHHHHHHHHhccCCCceEEecchhc
Confidence 3444444 446789999999999999999999997 78999998 456655543 2579999999875
No 55
>PRK08317 hypothetical protein; Provisional
Probab=97.48 E-value=0.00027 Score=57.92 Aligned_cols=63 Identities=24% Similarity=0.340 Sum_probs=49.4
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeech-HHHhhCCC-----CCCceEeecCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDLP-HVIQHAPK-----YPGVEHVGGDMFQ 227 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp-~vi~~a~~-----~~ri~~~~gDff~ 227 (231)
+++.++ .....+|||+|||.|.++..+++.+ |..+++.+|+. ..++.++. ..++++..+|+.+
T Consensus 11 ~~~~~~-~~~~~~vLdiG~G~G~~~~~~a~~~~~~~~v~~~d~~~~~~~~a~~~~~~~~~~~~~~~~d~~~ 80 (241)
T PRK08317 11 TFELLA-VQPGDRVLDVGCGPGNDARELARRVGPEGRVVGIDRSEAMLALAKERAAGLGPNVEFVRGDADG 80 (241)
T ss_pred HHHHcC-CCCCCEEEEeCCCCCHHHHHHHHhcCCCcEEEEEeCCHHHHHHHHHHhhCCCCceEEEeccccc
Confidence 445555 6677899999999999999999998 88899999985 44554433 2678888888764
No 56
>TIGR02072 BioC biotin biosynthesis protein BioC. This enzyme, which is found in biotin biosynthetic gene clusters in proteobacteria, firmicutes, green-sulfur bacteria, fusobacterium and bacteroides, is believed to carry out an enzymatic step prior to the formation of pimeloyl-CoA (although attribution of this annotation is not traceable). The enzyme appears related to methyltransferases by homology.
Probab=97.46 E-value=0.00044 Score=56.74 Aligned_cols=55 Identities=20% Similarity=0.369 Sum_probs=45.1
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC--CCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY--PGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~--~ri~~~~gDff~ 227 (231)
...+|||||||.|.++..+++.+|+.++++.|.. ..+..++.. ++++++.+|+.+
T Consensus 34 ~~~~vLDlG~G~G~~~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~~~~~d~~~ 91 (240)
T TIGR02072 34 IPASVLDIGCGTGYLTRALLKRFPQAEFIALDISAGMLAQAKTKLSENVQFICGDAEK 91 (240)
T ss_pred CCCeEEEECCCccHHHHHHHHhCCCCcEEEEeChHHHHHHHHHhcCCCCeEEecchhh
Confidence 3478999999999999999999999999999985 455555442 578899888765
No 57
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=97.45 E-value=0.0015 Score=55.26 Aligned_cols=68 Identities=12% Similarity=0.231 Sum_probs=49.4
Q ss_pred HHHHHhCCCCCCCceEEEccCChhH----HHHHHHHHCC-----CCeEEEeech-HHHhhCCCC----------------
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGN----TLKAITSKYP-----HIKGINFDLP-HVIQHAPKY---------------- 215 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~----~~~~l~~~~P-----~l~~~v~Dlp-~vi~~a~~~---------------- 215 (231)
+.+.+..+ ..+..+|+|+|||+|. +++.+++.+| +.+++..|+. .+++.|+..
T Consensus 89 p~l~~~~~-~~~~~ri~d~GCgtGee~YslA~~l~e~~~~~~~~~~~I~g~Dis~~~L~~Ar~~~y~~~~~~~~~~~~~~ 167 (264)
T smart00138 89 PLLIASRR-HGRRVRIWSAGCSTGEEPYSLAMLLAETLPKAREPDVKILATDIDLKALEKARAGIYPERELEDLPKALLA 167 (264)
T ss_pred HHHHHhcC-CCCCEEEEeccccCChHHHHHHHHHHHHhhhcCCCCeEEEEEECCHHHHHHHHcCCCCHHHHhcCCHHHHh
Confidence 44444333 3456799999999996 6777777766 5789999984 577766641
Q ss_pred -----------------CCceEeecCCCCCCC
Q 047000 216 -----------------PGVEHVGGDMFQNVP 230 (231)
Q Consensus 216 -----------------~ri~~~~gDff~~~P 230 (231)
.+|+|..+|+.++.|
T Consensus 168 ~yf~~~~~~~~v~~~ir~~V~F~~~dl~~~~~ 199 (264)
T smart00138 168 RYFSRVEDKYRVKPELKERVRFAKHNLLAESP 199 (264)
T ss_pred hhEEeCCCeEEEChHHhCcCEEeeccCCCCCC
Confidence 379999999988643
No 58
>PRK06202 hypothetical protein; Provisional
Probab=97.44 E-value=0.00057 Score=56.49 Aligned_cols=52 Identities=19% Similarity=0.243 Sum_probs=39.7
Q ss_pred CCCceEEEccCChhHHHHHHHHH----CCCCeEEEeec-hHHHhhCCCC---CCceEeec
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSK----YPHIKGINFDL-PHVIQHAPKY---PGVEHVGG 223 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~----~P~l~~~v~Dl-p~vi~~a~~~---~ri~~~~g 223 (231)
.+..+|+|||||+|.++..+++. .|+.+++++|+ |..++.++.. .++++..+
T Consensus 59 ~~~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~s~~~l~~a~~~~~~~~~~~~~~ 118 (232)
T PRK06202 59 DRPLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDPDPRAVAFARANPRRPGVTFRQA 118 (232)
T ss_pred CCCcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcCCHHHHHHHHhccccCCCeEEEE
Confidence 45689999999999999888764 56789999998 6777777653 44555443
No 59
>PHA03411 putative methyltransferase; Provisional
Probab=97.44 E-value=0.0002 Score=60.64 Aligned_cols=55 Identities=16% Similarity=0.297 Sum_probs=46.9
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-CCceEeecCCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-PGVEHVGGDMFQN 228 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-~ri~~~~gDff~~ 228 (231)
..+|+|+|||+|.++..++++.+..+++.+|+ |..++.++.. ++++++.+|+++.
T Consensus 65 ~grVLDLGcGsGilsl~la~r~~~~~V~gVDisp~al~~Ar~n~~~v~~v~~D~~e~ 121 (279)
T PHA03411 65 TGKVLDLCAGIGRLSFCMLHRCKPEKIVCVELNPEFARIGKRLLPEAEWITSDVFEF 121 (279)
T ss_pred CCeEEEcCCCCCHHHHHHHHhCCCCEEEEEECCHHHHHHHHHhCcCCEEEECchhhh
Confidence 46899999999999999999988889999998 4567666653 7899999999864
No 60
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=97.43 E-value=0.00054 Score=55.99 Aligned_cols=60 Identities=22% Similarity=0.255 Sum_probs=45.3
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeechHHHhhCCCCCCceEeecCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDLPHVIQHAPKYPGVEHVGGDMFQ 227 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp~vi~~a~~~~ri~~~~gDff~ 227 (231)
+.+.|..+.+..+|||||||+|.++..++++. |..+++.+|+-+. ...++++++.+|+.+
T Consensus 42 ~~~~~~~~~~~~~VLDlG~GtG~~t~~l~~~~~~~~~V~aVDi~~~----~~~~~v~~i~~D~~~ 102 (209)
T PRK11188 42 IQQSDKLFKPGMTVVDLGAAPGGWSQYAVTQIGDKGRVIACDILPM----DPIVGVDFLQGDFRD 102 (209)
T ss_pred HHHHhccCCCCCEEEEEcccCCHHHHHHHHHcCCCceEEEEecccc----cCCCCcEEEecCCCC
Confidence 33444424567899999999999999999987 5578999998652 233568888888776
No 61
>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=8.3e-05 Score=46.86 Aligned_cols=45 Identities=33% Similarity=0.453 Sum_probs=39.9
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
+.|++.|...+ +++|+.|||+++| + +...+.|+|..|+..|++++
T Consensus 6 l~iL~~l~~~~--~~~t~~eia~~~g-l----~~stv~r~L~tL~~~g~v~~ 50 (52)
T PF09339_consen 6 LRILEALAESG--GPLTLSEIARALG-L----PKSTVHRLLQTLVEEGYVER 50 (52)
T ss_dssp HHHHHCHHCTB--SCEEHHHHHHHHT-S-----HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHcCC--CCCCHHHHHHHHC-c----CHHHHHHHHHHHHHCcCeec
Confidence 45788888765 6789999999999 9 99999999999999999997
No 62
>PF13659 Methyltransf_26: Methyltransferase domain; PDB: 3GJY_A 3LPM_B 2NP6_D 1AQI_B 2ADM_B 2IH2_A 2JG3_A 2IBS_D 2NP7_A 2IBT_A ....
Probab=97.43 E-value=6.5e-05 Score=54.96 Aligned_cols=52 Identities=21% Similarity=0.231 Sum_probs=43.4
Q ss_pred ceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------CCCceEeecCCCC
Q 047000 175 QQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 175 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gDff~ 227 (231)
.+|+|+|||+|.++..+++.. ..+++.+|+. ..++.++. .+|++++.+|+++
T Consensus 2 ~~vlD~~~G~G~~~~~~~~~~-~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~ 61 (117)
T PF13659_consen 2 DRVLDPGCGSGTFLLAALRRG-AARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARD 61 (117)
T ss_dssp EEEEEETSTTCHHHHHHHHHC-TCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHH
T ss_pred CEEEEcCcchHHHHHHHHHHC-CCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhh
Confidence 589999999999999999998 8899999984 55555543 2689999999764
No 63
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=97.43 E-value=0.00032 Score=59.13 Aligned_cols=64 Identities=16% Similarity=0.244 Sum_probs=49.1
Q ss_pred HHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC----CCCceEeecCCCC
Q 047000 161 IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK----YPGVEHVGGDMFQ 227 (231)
Q Consensus 161 ~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----~~ri~~~~gDff~ 227 (231)
...+++..+ ..+..+|+|||||.|.++..++++. .+++++|+. ..++.+++ .++++++.+|+++
T Consensus 18 ~~~iv~~~~-~~~~~~VLEIG~G~G~lt~~L~~~~--~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D~~~ 86 (258)
T PRK14896 18 VDRIVEYAE-DTDGDPVLEIGPGKGALTDELAKRA--KKVYAIELDPRLAEFLRDDEIAAGNVEIIEGDALK 86 (258)
T ss_pred HHHHHHhcC-CCCcCeEEEEeCccCHHHHHHHHhC--CEEEEEECCHHHHHHHHHHhccCCCEEEEEecccc
Confidence 335555555 5567899999999999999999994 478999985 35544443 3689999999986
No 64
>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=97.41 E-value=0.0002 Score=57.86 Aligned_cols=54 Identities=19% Similarity=0.313 Sum_probs=41.2
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCC------CCCCceEeecCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAP------KYPGVEHVGGDMFQ 227 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~------~~~ri~~~~gDff~ 227 (231)
...+||||||.|.++.++++.+|+..++++|.- ..+..+. ..+++.++.+|...
T Consensus 18 ~~l~lEIG~G~G~~l~~~A~~~Pd~n~iGiE~~~~~v~~a~~~~~~~~l~Nv~~~~~da~~ 78 (195)
T PF02390_consen 18 NPLILEIGCGKGEFLIELAKRNPDINFIGIEIRKKRVAKALRKAEKRGLKNVRFLRGDARE 78 (195)
T ss_dssp CEEEEEET-TTSHHHHHHHHHSTTSEEEEEES-HHHHHHHHHHHHHHTTSSEEEEES-CTT
T ss_pred CCeEEEecCCCCHHHHHHHHHCCCCCEEEEecchHHHHHHHHHHHhhcccceEEEEccHHH
Confidence 349999999999999999999999999999973 3444332 23788888888654
No 65
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=97.41 E-value=0.00043 Score=58.76 Aligned_cols=55 Identities=24% Similarity=0.328 Sum_probs=44.9
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCC---eEEEeec-hHHHhhCCCC-CCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHI---KGINFDL-PHVIQHAPKY-PGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l---~~~v~Dl-p~vi~~a~~~-~ri~~~~gDff~ 227 (231)
...+|||||||+|.++..+++.+|.. +++.+|+ |..++.+++. ++++++.+|..+
T Consensus 85 ~~~~vLDiGcG~G~~~~~l~~~~~~~~~~~v~giD~s~~~l~~A~~~~~~~~~~~~d~~~ 144 (272)
T PRK11088 85 KATALLDIGCGEGYYTHALADALPEITTMQLFGLDISKVAIKYAAKRYPQVTFCVASSHR 144 (272)
T ss_pred CCCeEEEECCcCCHHHHHHHHhcccccCCeEEEECCCHHHHHHHHHhCCCCeEEEeeccc
Confidence 45789999999999999999998864 6799998 5677766553 778999888765
No 66
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=97.40 E-value=0.00037 Score=59.16 Aligned_cols=63 Identities=22% Similarity=0.198 Sum_probs=49.1
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCC-------CCCceEeecCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPK-------YPGVEHVGGDMF 226 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-------~~ri~~~~gDff 226 (231)
+.+++.+. +++..+|||||||-|.+++-.+++| +.+++.+++.+ -.+.+++ ..+|++...|.-
T Consensus 62 ~~~~~kl~-L~~G~~lLDiGCGWG~l~~~aA~~y-~v~V~GvTlS~~Q~~~~~~r~~~~gl~~~v~v~l~d~r 132 (283)
T COG2230 62 DLILEKLG-LKPGMTLLDIGCGWGGLAIYAAEEY-GVTVVGVTLSEEQLAYAEKRIAARGLEDNVEVRLQDYR 132 (283)
T ss_pred HHHHHhcC-CCCCCEEEEeCCChhHHHHHHHHHc-CCEEEEeeCCHHHHHHHHHHHHHcCCCcccEEEecccc
Confidence 46677787 8999999999999999999999999 99999999853 3333322 147777766654
No 67
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=97.37 E-value=0.00029 Score=59.13 Aligned_cols=60 Identities=20% Similarity=0.246 Sum_probs=46.1
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEeecCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMF 226 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff 226 (231)
.+++.++ ++..+|+|||||+|.++..+++. +.+++++|+ |..++.+++. ++++++.+|+.
T Consensus 36 ~~l~~l~--~~~~~vLDiGcG~G~~a~~la~~--g~~v~~vD~s~~~l~~a~~~~~~~g~~~~v~~~~~d~~ 103 (255)
T PRK11036 36 RLLAELP--PRPLRVLDAGGGEGQTAIKLAEL--GHQVILCDLSAEMIQRAKQAAEAKGVSDNMQFIHCAAQ 103 (255)
T ss_pred HHHHhcC--CCCCEEEEeCCCchHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHhcCCccceEEEEcCHH
Confidence 3444444 35679999999999999999997 467899999 6777776542 57889888874
No 68
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=97.35 E-value=0.00047 Score=57.91 Aligned_cols=64 Identities=20% Similarity=0.316 Sum_probs=48.9
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC----CCCceEeecCCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK----YPGVEHVGGDMFQN 228 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----~~ri~~~~gDff~~ 228 (231)
..+++..+ ..+..+|+|||||.|.++..++++++. ++.+|.. ..++.++. .++++++.+|+.+.
T Consensus 19 ~~i~~~~~-~~~~~~VLEiG~G~G~lt~~L~~~~~~--v~~iE~d~~~~~~l~~~~~~~~~v~v~~~D~~~~ 87 (253)
T TIGR00755 19 QKIVEAAN-VLEGDVVLEIGPGLGALTEPLLKRAKK--VTAIEIDPRLAEILRKLLSLYERLEVIEGDALKV 87 (253)
T ss_pred HHHHHhcC-CCCcCEEEEeCCCCCHHHHHHHHhCCc--EEEEECCHHHHHHHHHHhCcCCcEEEEECchhcC
Confidence 35556666 667789999999999999999999875 7778874 34444432 37899999998763
No 69
>PLN02490 MPBQ/MSBQ methyltransferase
Probab=97.34 E-value=0.00045 Score=60.52 Aligned_cols=55 Identities=25% Similarity=0.288 Sum_probs=46.2
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC---CCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY---PGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~---~ri~~~~gDff~ 227 (231)
...+|||||||+|.++..+++.+|..+++++|+ |..++.+++. .+++++.+|+.+
T Consensus 113 ~~~~VLDLGcGtG~~~l~La~~~~~~~VtgVD~S~~mL~~A~~k~~~~~i~~i~gD~e~ 171 (340)
T PLN02490 113 RNLKVVDVGGGTGFTTLGIVKHVDAKNVTILDQSPHQLAKAKQKEPLKECKIIEGDAED 171 (340)
T ss_pred CCCEEEEEecCCcHHHHHHHHHCCCCEEEEEECCHHHHHHHHHhhhccCCeEEeccHHh
Confidence 457999999999999999999999999999998 5666766653 578899988764
No 70
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=97.34 E-value=0.00056 Score=57.79 Aligned_cols=57 Identities=18% Similarity=0.244 Sum_probs=45.6
Q ss_pred CCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeec-hHHHhhCCC---------CCCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDL-PHVIQHAPK---------YPGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~---------~~ri~~~~gDff~ 227 (231)
.....+|+|||||+|.++..+++.+ |+.+++.+|. |..++.+++ .++|+++.+|..+
T Consensus 71 ~~~~~~VLDlGcGtG~~~~~la~~~~~~~~V~gvD~S~~ml~~A~~r~~~~~~~~~~~i~~~~~d~~~ 138 (261)
T PLN02233 71 AKMGDRVLDLCCGSGDLAFLLSEKVGSDGKVMGLDFSSEQLAVAASRQELKAKSCYKNIEWIEGDATD 138 (261)
T ss_pred CCCCCEEEEECCcCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHhhhhhhccCCCeEEEEccccc
Confidence 4567899999999999999999885 6789999998 456666542 2579999999764
No 71
>PLN02366 spermidine synthase
Probab=97.33 E-value=0.00021 Score=61.85 Aligned_cols=54 Identities=24% Similarity=0.305 Sum_probs=44.1
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCC-CeEEEeechH-HHhhCCCC----------CCceEeecCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPH-IKGINFDLPH-VIQHAPKY----------PGVEHVGGDMF 226 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dlp~-vi~~a~~~----------~ri~~~~gDff 226 (231)
++.++||+||||.|..++++++. |. .+++++|+.+ |++.++++ +|++++.+|.+
T Consensus 90 ~~pkrVLiIGgG~G~~~rellk~-~~v~~V~~VEiD~~Vi~~ar~~f~~~~~~~~dpRv~vi~~Da~ 155 (308)
T PLN02366 90 PNPKKVLVVGGGDGGVLREIARH-SSVEQIDICEIDKMVIDVSKKFFPDLAVGFDDPRVNLHIGDGV 155 (308)
T ss_pred CCCCeEEEEcCCccHHHHHHHhC-CCCCeEEEEECCHHHHHHHHHhhhhhccccCCCceEEEEChHH
Confidence 46789999999999999999866 65 5789999865 77776552 68999999964
No 72
>PLN02672 methionine S-methyltransferase
Probab=97.32 E-value=0.00037 Score=69.07 Aligned_cols=56 Identities=21% Similarity=0.224 Sum_probs=46.6
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----------------------CCCceEeecCCCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK----------------------YPGVEHVGGDMFQNV 229 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----------------------~~ri~~~~gDff~~~ 229 (231)
..+|+|||||+|.+++.+++++|+.+++.+|+ |.+++.++. .+||+++.+|+++..
T Consensus 119 ~~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~~~~~~~~l~~rV~f~~sDl~~~~ 197 (1082)
T PLN02672 119 DKTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPVYDGEGKTLLDRVEFYESDLLGYC 197 (1082)
T ss_pred CCEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCcccccccccccccccccccEEEEECchhhhc
Confidence 36899999999999999999999999999998 456655421 148999999999764
No 73
>PLN03075 nicotianamine synthase; Provisional
Probab=97.31 E-value=0.00048 Score=59.00 Aligned_cols=56 Identities=14% Similarity=0.079 Sum_probs=43.8
Q ss_pred CCceEEEccCChh--HHHHHHHHHCCCCeEEEeech-HHHhhCCC--------CCCceEeecCCCCC
Q 047000 173 HIQQLVDVGGCLG--NTLKAITSKYPHIKGINFDLP-HVIQHAPK--------YPGVEHVGGDMFQN 228 (231)
Q Consensus 173 ~~~~vvDVGGG~G--~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~--------~~ri~~~~gDff~~ 228 (231)
..++|+|||||.| ...+..++.+|+.+++.+|.. +.++.|+. .+||+|..+|..+.
T Consensus 123 ~p~~VldIGcGpgpltaiilaa~~~p~~~~~giD~d~~ai~~Ar~~~~~~~gL~~rV~F~~~Da~~~ 189 (296)
T PLN03075 123 VPTKVAFVGSGPLPLTSIVLAKHHLPTTSFHNFDIDPSANDVARRLVSSDPDLSKRMFFHTADVMDV 189 (296)
T ss_pred CCCEEEEECCCCcHHHHHHHHHhcCCCCEEEEEeCCHHHHHHHHHHhhhccCccCCcEEEECchhhc
Confidence 6799999999988 444555567899999999984 56665543 26899999998763
No 74
>TIGR00537 hemK_rel_arch HemK-related putative methylase. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. This model represents an archaeal and eukaryotic protein family that lacks an N-terminal domain found in HemK and its eubacterial homologs. It is found in a single copy in the first six completed archaeal and eukaryotic genomes.
Probab=97.31 E-value=0.00038 Score=55.18 Aligned_cols=53 Identities=17% Similarity=0.304 Sum_probs=43.2
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEeecCCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-----PGVEHVGGDMFQN 228 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff~~ 228 (231)
..+|+|+|||+|.++..+++..+ +++.+|+ |..++.++.+ -+++++.+|+++.
T Consensus 20 ~~~vLdlG~G~G~~~~~l~~~~~--~v~~vD~s~~~~~~a~~~~~~~~~~~~~~~~d~~~~ 78 (179)
T TIGR00537 20 PDDVLEIGAGTGLVAIRLKGKGK--CILTTDINPFAVKELRENAKLNNVGLDVVMTDLFKG 78 (179)
T ss_pred CCeEEEeCCChhHHHHHHHhcCC--EEEEEECCHHHHHHHHHHHHHcCCceEEEEcccccc
Confidence 46899999999999999999987 8999998 5667666542 3588888998764
No 75
>TIGR03438 probable methyltransferase. This model represents a distinct set of uncharacterized proteins found in the bacteria. Analysis by PSI-BLAST shows remote sequence homology to methyltransferases
Probab=97.29 E-value=0.00038 Score=60.06 Aligned_cols=56 Identities=16% Similarity=0.287 Sum_probs=44.3
Q ss_pred CCceEEEccCChhHHHHHHHHHCC-CCeEEEeechH-HHhhCCC-----CC--CceEeecCCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDLPH-VIQHAPK-----YP--GVEHVGGDMFQN 228 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp~-vi~~a~~-----~~--ri~~~~gDff~~ 228 (231)
...+|||+|||+|..+..|+++.+ ..+++.+|+.+ .++.+.+ .+ +|+++.+||++.
T Consensus 63 ~~~~iLELGcGtG~~t~~Ll~~l~~~~~~~~iDiS~~mL~~a~~~l~~~~p~~~v~~i~gD~~~~ 127 (301)
T TIGR03438 63 AGCELVELGSGSSRKTRLLLDALRQPARYVPIDISADALKESAAALAADYPQLEVHGICADFTQP 127 (301)
T ss_pred CCCeEEecCCCcchhHHHHHHhhccCCeEEEEECCHHHHHHHHHHHHhhCCCceEEEEEEcccch
Confidence 457899999999999999999998 68899999964 4444432 23 467789999864
No 76
>PF01209 Ubie_methyltran: ubiE/COQ5 methyltransferase family; InterPro: IPR004033 A number of methyltransferases have been shown to share regions of similarities []. Apart from the ubiquinone/menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the ubiE gene of Escherichia coli), the ubiquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the COQ5 gene of Saccharomyces cerevisiae) and the menaquinone biosynthesis methyltransferases (for example, the C-methyltransferase from the MENH gene of Bacillus subtilis), this family also includes methyltransferases involved in biotin and sterol biosynthesis and in phosphatidylethanolamine methylation.; GO: 0008168 methyltransferase activity; PDB: 1VL5_C.
Probab=97.29 E-value=0.00024 Score=59.06 Aligned_cols=57 Identities=23% Similarity=0.400 Sum_probs=39.5
Q ss_pred CCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeec-hHHHhhCCC------CCCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDL-PHVIQHAPK------YPGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gDff~ 227 (231)
.....+|||||||+|.++..++++. |+.+++++|. |..++.+++ ..+|+++.+|.-+
T Consensus 45 ~~~g~~vLDv~~GtG~~~~~l~~~~~~~~~v~~vD~s~~ML~~a~~k~~~~~~~~i~~v~~da~~ 109 (233)
T PF01209_consen 45 LRPGDRVLDVACGTGDVTRELARRVGPNGKVVGVDISPGMLEVARKKLKREGLQNIEFVQGDAED 109 (233)
T ss_dssp --S--EEEEET-TTSHHHHHHGGGSS---EEEEEES-HHHHHHHHHHHHHTT--SEEEEE-BTTB
T ss_pred CCCCCEEEEeCCChHHHHHHHHHHCCCccEEEEecCCHHHHHHHHHHHHhhCCCCeeEEEcCHHH
Confidence 4456799999999999999999885 6789999998 467777764 2589999999754
No 77
>PRK14968 putative methyltransferase; Provisional
Probab=97.29 E-value=0.0004 Score=55.01 Aligned_cols=57 Identities=19% Similarity=0.281 Sum_probs=45.1
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CC-ceEeecCCCCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-------PG-VEHVGGDMFQNVP 230 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~r-i~~~~gDff~~~P 230 (231)
.+..+++|+|||.|.++..++++ ..+++.+|+ |.+++.+++. ++ +.++.+|++++.+
T Consensus 22 ~~~~~vLd~G~G~G~~~~~l~~~--~~~v~~~D~s~~~~~~a~~~~~~~~~~~~~~~~~~~d~~~~~~ 87 (188)
T PRK14968 22 KKGDRVLEVGTGSGIVAIVAAKN--GKKVVGVDINPYAVECAKCNAKLNNIRNNGVEVIRSDLFEPFR 87 (188)
T ss_pred cCCCEEEEEccccCHHHHHHHhh--cceEEEEECCHHHHHHHHHHHHHcCCCCcceEEEecccccccc
Confidence 35678999999999999999998 678999998 5566666431 23 8999999887643
No 78
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=97.29 E-value=0.00063 Score=58.44 Aligned_cols=65 Identities=20% Similarity=0.196 Sum_probs=52.1
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeec-hHHHhhCCC----CCCceEeecCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDL-PHVIQHAPK----YPGVEHVGGDMFQ 227 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dl-p~vi~~a~~----~~ri~~~~gDff~ 227 (231)
..+++.+. -.....+||++||.|.++.++++.+| +.+++.+|. |++++.+++ .+|++++.+||-+
T Consensus 9 ~Evl~~L~-~~pg~~vlD~TlG~GGhS~~il~~~~~~g~VigiD~D~~al~~ak~~L~~~~ri~~i~~~f~~ 79 (296)
T PRK00050 9 DEVVDALA-IKPDGIYVDGTFGGGGHSRAILERLGPKGRLIAIDRDPDAIAAAKDRLKPFGRFTLVHGNFSN 79 (296)
T ss_pred HHHHHhhC-CCCCCEEEEeCcCChHHHHHHHHhCCCCCEEEEEcCCHHHHHHHHHhhccCCcEEEEeCCHHH
Confidence 45566654 44567999999999999999999996 789999998 567777654 2589999998853
No 79
>KOG2904 consensus Predicted methyltransferase [General function prediction only]
Probab=97.29 E-value=0.00052 Score=57.67 Aligned_cols=58 Identities=16% Similarity=0.230 Sum_probs=45.1
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCC-------CCCceEe----ecCCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPK-------YPGVEHV----GGDMFQN 228 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-------~~ri~~~----~gDff~~ 228 (231)
+.....++|+|||+|.++..++...|+.+++..|+.. ++.-|.+ .+||..+ ..|-+.+
T Consensus 146 ~~~~~~ildlgtGSGaIslsll~~L~~~~v~AiD~S~~Ai~La~eN~qr~~l~g~i~v~~~~me~d~~~~ 215 (328)
T KOG2904|consen 146 HSKHTHILDLGTGSGAISLSLLHGLPQCTVTAIDVSKAAIKLAKENAQRLKLSGRIEVIHNIMESDASDE 215 (328)
T ss_pred hcccceEEEecCCccHHHHHHHhcCCCceEEEEeccHHHHHHHHHHHHHHhhcCceEEEecccccccccc
Confidence 4456799999999999999999999999999999854 4444443 2788887 4455544
No 80
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=97.28 E-value=0.00038 Score=56.20 Aligned_cols=61 Identities=11% Similarity=0.131 Sum_probs=47.8
Q ss_pred HhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeec-hHHHhhCCC-------CCCceEeecCCCC
Q 047000 166 EAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDL-PHVIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 166 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~-------~~ri~~~~gDff~ 227 (231)
..++ .....+++|+|||+|.++..+++.. |..+++.+|. |..++.+++ .++++++.+|+.+
T Consensus 34 ~~l~-~~~~~~vlDlG~GtG~~s~~~a~~~~~~~~v~avD~~~~~~~~a~~n~~~~g~~~~v~~~~~d~~~ 103 (198)
T PRK00377 34 SKLR-LRKGDMILDIGCGTGSVTVEASLLVGETGKVYAVDKDEKAINLTRRNAEKFGVLNNIVLIKGEAPE 103 (198)
T ss_pred HHcC-CCCcCEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHhCCCCCeEEEEechhh
Confidence 3345 6677899999999999999998874 6789999998 667765543 2578888888864
No 81
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=97.25 E-value=0.00078 Score=44.94 Aligned_cols=60 Identities=20% Similarity=0.259 Sum_probs=49.1
Q ss_pred HHhhChHHHHHhcCCCC-CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 29 VIGLGVFEIIAKAGPGA-KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 29 a~~lglfd~L~~~g~~~-~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
..+-.|++.|...| + ++|+.|||+.+| + +...+.|+|..|...|+|+.... . ++.|.++.
T Consensus 6 ~~~~~IL~~L~~~g--~~~~ta~eLa~~lg-l----~~~~v~r~L~~L~~~G~V~~~~~-~---~~~W~i~~ 66 (68)
T smart00550 6 SLEEKILEFLENSG--DETSTALQLAKNLG-L----PKKEVNRVLYSLEKKGKVCKQGG-T---PPLWKLTD 66 (68)
T ss_pred HHHHHHHHHHHHCC--CCCcCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEecCC-C---CCceEeec
Confidence 35567889999875 3 399999999999 9 99999999999999999998521 1 47787764
No 82
>PRK04266 fibrillarin; Provisional
Probab=97.24 E-value=0.001 Score=54.97 Aligned_cols=60 Identities=8% Similarity=0.125 Sum_probs=47.5
Q ss_pred hCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHh----hCCCCCCceEeecCCCC
Q 047000 167 AYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQ----HAPKYPGVEHVGGDMFQ 227 (231)
Q Consensus 167 ~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~----~a~~~~ri~~~~gDff~ 227 (231)
.++ ..+..+|+|+|||+|.++..+++..+.-+++.+|+- ..++ .++...+|.++.+|..+
T Consensus 67 ~l~-i~~g~~VlD~G~G~G~~~~~la~~v~~g~V~avD~~~~ml~~l~~~a~~~~nv~~i~~D~~~ 131 (226)
T PRK04266 67 NFP-IKKGSKVLYLGAASGTTVSHVSDIVEEGVVYAVEFAPRPMRELLEVAEERKNIIPILADARK 131 (226)
T ss_pred hCC-CCCCCEEEEEccCCCHHHHHHHHhcCCCeEEEEECCHHHHHHHHHHhhhcCCcEEEECCCCC
Confidence 355 667789999999999999999999986678999984 3443 44445778999888764
No 83
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=97.22 E-value=0.00091 Score=53.50 Aligned_cols=60 Identities=17% Similarity=0.244 Sum_probs=45.3
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeechHHHhhCCCCCCceEeecCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDLPHVIQHAPKYPGVEHVGGDMFQ 227 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp~vi~~a~~~~ri~~~~gDff~ 227 (231)
+.+.+....+..+|||+|||+|.++..+++++ +..+++.+|+-+.. ..++++++.+|+.+
T Consensus 23 ~~~~~~~i~~g~~VLDiG~GtG~~~~~l~~~~~~~~~v~~vDis~~~----~~~~i~~~~~d~~~ 83 (188)
T TIGR00438 23 LNQKFKLIKPGDTVLDLGAAPGGWSQVAVEQVGGKGRVIAVDLQPMK----PIENVDFIRGDFTD 83 (188)
T ss_pred HHHHhcccCCCCEEEEecCCCCHHHHHHHHHhCCCceEEEEeccccc----cCCCceEEEeeCCC
Confidence 33444435677899999999999999999987 66789999986532 23567777777754
No 84
>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=97.20 E-value=0.0011 Score=54.40 Aligned_cols=55 Identities=11% Similarity=0.047 Sum_probs=44.1
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCC------------------CCCCceEeecCCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAP------------------KYPGVEHVGGDMFQN 228 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~------------------~~~ri~~~~gDff~~ 228 (231)
....+++|+|||.|..+..++++ +.+++.+|+- ..++.+. ...+|+++.+|+|+.
T Consensus 33 ~~~~rvLd~GCG~G~da~~LA~~--G~~V~gvD~S~~Ai~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~D~~~~ 106 (213)
T TIGR03840 33 PAGARVFVPLCGKSLDLAWLAEQ--GHRVLGVELSEIAVEQFFAENGLTPTVTQQGEFTRYRAGNIEIFCGDFFAL 106 (213)
T ss_pred CCCCeEEEeCCCchhHHHHHHhC--CCeEEEEeCCHHHHHHHHHHcCCCcceeccccceeeecCceEEEEccCCCC
Confidence 45679999999999999999987 8889999985 4555421 125799999999974
No 85
>PRK00811 spermidine synthase; Provisional
Probab=97.17 E-value=0.00049 Score=58.88 Aligned_cols=56 Identities=25% Similarity=0.302 Sum_probs=44.9
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC-----------CCCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK-----------YPGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~-----------~~ri~~~~gDff~ 227 (231)
++.++||+||||.|..++++++..+..+++++|+ |.+++.+++ .+|++++.+|.++
T Consensus 75 ~~p~~VL~iG~G~G~~~~~~l~~~~~~~V~~VEid~~vv~~a~~~~~~~~~~~~~d~rv~v~~~Da~~ 142 (283)
T PRK00811 75 PNPKRVLIIGGGDGGTLREVLKHPSVEKITLVEIDERVVEVCRKYLPEIAGGAYDDPRVELVIGDGIK 142 (283)
T ss_pred CCCCEEEEEecCchHHHHHHHcCCCCCEEEEEeCCHHHHHHHHHHhHHhccccccCCceEEEECchHH
Confidence 3578999999999999999998655568999998 457766654 2689999998754
No 86
>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated
Probab=97.16 E-value=0.00065 Score=55.75 Aligned_cols=53 Identities=17% Similarity=0.257 Sum_probs=41.8
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEeecCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDM 225 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDf 225 (231)
..+..+|||||||+|.++..+++..+ +++++|+ +..++.++.. ++|++..+|+
T Consensus 61 ~~~~~~vLDvGcG~G~~~~~l~~~~~--~v~~~D~s~~~i~~a~~~~~~~~~~~~i~~~~~d~ 121 (230)
T PRK07580 61 DLTGLRILDAGCGVGSLSIPLARRGA--KVVASDISPQMVEEARERAPEAGLAGNITFEVGDL 121 (230)
T ss_pred CCCCCEEEEEeCCCCHHHHHHHHcCC--EEEEEECCHHHHHHHHHHHHhcCCccCcEEEEcCc
Confidence 34567999999999999999998864 4899998 5566666542 4789998883
No 87
>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=97.16 E-value=0.00098 Score=56.72 Aligned_cols=64 Identities=16% Similarity=0.116 Sum_probs=42.9
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCC----C---CCCceEeecCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAP----K---YPGVEHVGGDMFQ 227 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~----~---~~ri~~~~gDff~ 227 (231)
..+++.++ .++..+|||||||-|.+++.++++| +++++++.+.+ -.+.++ + .+++++.-.|+.+
T Consensus 52 ~~~~~~~~-l~~G~~vLDiGcGwG~~~~~~a~~~-g~~v~gitlS~~Q~~~a~~~~~~~gl~~~v~v~~~D~~~ 123 (273)
T PF02353_consen 52 DLLCEKLG-LKPGDRVLDIGCGWGGLAIYAAERY-GCHVTGITLSEEQAEYARERIREAGLEDRVEVRLQDYRD 123 (273)
T ss_dssp HHHHTTTT---TT-EEEEES-TTSHHHHHHHHHH---EEEEEES-HHHHHHHHHHHHCSTSSSTEEEEES-GGG
T ss_pred HHHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHc-CcEEEEEECCHHHHHHHHHHHHhcCCCCceEEEEeeccc
Confidence 35666677 8889999999999999999999999 89999999853 222222 2 2788888888753
No 88
>PHA03412 putative methyltransferase; Provisional
Probab=97.13 E-value=0.00088 Score=55.57 Aligned_cols=54 Identities=13% Similarity=0.169 Sum_probs=45.2
Q ss_pred CceEEEccCChhHHHHHHHHHC---CCCeEEEeech-HHHhhCCCC-CCceEeecCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKY---PHIKGINFDLP-HVIQHAPKY-PGVEHVGGDMFQ 227 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~---P~l~~~v~Dlp-~vi~~a~~~-~ri~~~~gDff~ 227 (231)
..+|||+|||+|.++..++++. +..+++.+|+. ..++.++.+ .++.++.+|++.
T Consensus 50 ~grVLDlG~GSG~Lalala~~~~~~~~~~V~aVEID~~Al~~Ar~n~~~~~~~~~D~~~ 108 (241)
T PHA03412 50 SGSVVDLCAGIGGLSFAMVHMMMYAKPREIVCVELNHTYYKLGKRIVPEATWINADALT 108 (241)
T ss_pred CCEEEEccChHHHHHHHHHHhcccCCCcEEEEEECCHHHHHHHHhhccCCEEEEcchhc
Confidence 5699999999999999999986 46789999985 466677665 779999999975
No 89
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=97.13 E-value=0.00098 Score=46.63 Aligned_cols=59 Identities=25% Similarity=0.291 Sum_probs=48.6
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhh
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVS 101 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s 101 (231)
-+.|++.|...+ +++|..|||+.++ + +...+.|.|..|...|++.+.. . ++.|.+++..
T Consensus 7 ~~~Il~~l~~~~--~~~t~~~ia~~l~-i----~~~tv~r~l~~L~~~g~l~~~~--~---~~~y~l~~~~ 65 (91)
T smart00346 7 GLAVLRALAEEP--GGLTLAELAERLG-L----SKSTAHRLLNTLQELGYVEQDG--Q---NGRYRLGPKV 65 (91)
T ss_pred HHHHHHHHHhCC--CCcCHHHHHHHhC-C----CHHHHHHHHHHHHHCCCeeecC--C---CCceeecHHH
Confidence 356788888753 5899999999999 9 9999999999999999999842 1 5678887643
No 90
>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].
Probab=97.12 E-value=0.00049 Score=55.10 Aligned_cols=55 Identities=20% Similarity=0.262 Sum_probs=37.8
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCCCCCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPKYPGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~~ri~~~~gDff~ 227 (231)
+...+|+|+|||.|.++..|.+. .++++.++|+.+..-.+.-..++.++.+|+-+
T Consensus 12 ~pgsrVLDLGCGdG~LL~~L~~~-k~v~g~GvEid~~~v~~cv~rGv~Viq~Dld~ 66 (193)
T PF07021_consen 12 EPGSRVLDLGCGDGELLAYLKDE-KQVDGYGVEIDPDNVAACVARGVSVIQGDLDE 66 (193)
T ss_pred CCCCEEEecCCCchHHHHHHHHh-cCCeEEEEecCHHHHHHHHHcCCCEEECCHHH
Confidence 46799999999999999777775 69999888885432222222345566666543
No 91
>KOG1540 consensus Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]
Probab=97.09 E-value=0.0018 Score=54.00 Aligned_cols=54 Identities=26% Similarity=0.319 Sum_probs=43.9
Q ss_pred CCceEEEccCChhHHHHHHHHHCCC------CeEEEeec-hHHHhhCCC---------CCCceEeecCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPH------IKGINFDL-PHVIQHAPK---------YPGVEHVGGDMF 226 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~------l~~~v~Dl-p~vi~~a~~---------~~ri~~~~gDff 226 (231)
..-++|||+||+|-.+..|++.-++ .+++++|. |+.++.+++ ..|+.++.+|--
T Consensus 100 ~~m~~lDvaGGTGDiaFril~~v~s~~~~~~~~V~v~Dinp~mL~vgkqRa~~~~l~~~~~~~w~~~dAE 169 (296)
T KOG1540|consen 100 KGMKVLDVAGGTGDIAFRILRHVKSQFGDRESKVTVLDINPHMLAVGKQRAKKRPLKASSRVEWVEGDAE 169 (296)
T ss_pred CCCeEEEecCCcchhHHHHHHhhccccCCCCceEEEEeCCHHHHHHHHHHHhhcCCCcCCceEEEeCCcc
Confidence 4589999999999999999999888 78999998 566665543 156999988853
No 92
>PRK01581 speE spermidine synthase; Validated
Probab=97.06 E-value=0.0011 Score=58.41 Aligned_cols=56 Identities=18% Similarity=0.087 Sum_probs=45.0
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------------CCCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK-------------YPGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------------~~ri~~~~gDff~ 227 (231)
.+.++||+||||.|..++++++..|..+++++|+. .|++.++. .+|++++.+|.++
T Consensus 149 ~~PkrVLIIGgGdG~tlrelLk~~~v~~It~VEIDpeVIelAr~~~~L~~~~~~~~~DpRV~vvi~Da~~ 218 (374)
T PRK01581 149 IDPKRVLILGGGDGLALREVLKYETVLHVDLVDLDGSMINMARNVPELVSLNKSAFFDNRVNVHVCDAKE 218 (374)
T ss_pred CCCCEEEEECCCHHHHHHHHHhcCCCCeEEEEeCCHHHHHHHHhccccchhccccCCCCceEEEECcHHH
Confidence 45789999999999999999986556789999984 57777663 2688888888664
No 93
>PRK14967 putative methyltransferase; Provisional
Probab=97.05 E-value=0.0011 Score=54.47 Aligned_cols=58 Identities=16% Similarity=0.109 Sum_probs=43.5
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-----CCceEeecCCCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY-----PGVEHVGGDMFQNV 229 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-----~ri~~~~gDff~~~ 229 (231)
.....+|+|+|||+|.++..+++. +..+++.+|+. ..++.++.+ -+++++.+|+++..
T Consensus 34 ~~~~~~vLDlGcG~G~~~~~la~~-~~~~v~~vD~s~~~l~~a~~n~~~~~~~~~~~~~d~~~~~ 97 (223)
T PRK14967 34 LGPGRRVLDLCTGSGALAVAAAAA-GAGSVTAVDISRRAVRSARLNALLAGVDVDVRRGDWARAV 97 (223)
T ss_pred cCCCCeEEEecCCHHHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHhCCeeEEEECchhhhc
Confidence 445679999999999999999886 34588999985 456555432 35788888887643
No 94
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=97.01 E-value=0.0023 Score=55.71 Aligned_cols=60 Identities=12% Similarity=0.063 Sum_probs=42.6
Q ss_pred HHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHH-Hhh--C-----CCCCCceEeecCCC
Q 047000 165 LEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHV-IQH--A-----PKYPGVEHVGGDMF 226 (231)
Q Consensus 165 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~v-i~~--a-----~~~~ri~~~~gDff 226 (231)
...++.. ..++|+|||||.|.++..+++..|. +++++|..+. +.. + ....+|+++.+|+.
T Consensus 115 ~~~l~~l-~g~~VLDIGCG~G~~~~~la~~g~~-~V~GiD~S~~~l~q~~a~~~~~~~~~~i~~~~~d~e 182 (322)
T PRK15068 115 LPHLSPL-KGRTVLDVGCGNGYHMWRMLGAGAK-LVVGIDPSQLFLCQFEAVRKLLGNDQRAHLLPLGIE 182 (322)
T ss_pred HHhhCCC-CCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHhcCCCCCeEEEeCCHH
Confidence 3444313 3589999999999999999999876 4999996542 221 1 11357999988864
No 95
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=97.00 E-value=0.00095 Score=56.50 Aligned_cols=57 Identities=21% Similarity=0.262 Sum_probs=45.9
Q ss_pred CCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
.....+|||||||.|..+..+++.. |+.+++.+|+ |..++.++++ ++++++.+|+.+
T Consensus 75 ~~~g~~VLDiG~G~G~~~~~~a~~~g~~~~v~gvD~s~~~l~~A~~~~~~~g~~~v~~~~~d~~~ 139 (272)
T PRK11873 75 LKPGETVLDLGSGGGFDCFLAARRVGPTGKVIGVDMTPEMLAKARANARKAGYTNVEFRLGEIEA 139 (272)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEECCCHHHHHHHHHHHHHcCCCCEEEEEcchhh
Confidence 5567899999999999988877764 6678999998 6677777642 688999998764
No 96
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=96.99 E-value=0.0021 Score=52.87 Aligned_cols=57 Identities=7% Similarity=0.016 Sum_probs=44.6
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCC------------------CCCCceEeecCCCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAP------------------KYPGVEHVGGDMFQNV 229 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~------------------~~~ri~~~~gDff~~~ 229 (231)
.....+|+|+|||.|..+..|+++ +.+++.+|+.+ .++.+. ...+|++..+|+|+..
T Consensus 35 ~~~~~rvL~~gCG~G~da~~LA~~--G~~V~avD~s~~Ai~~~~~~~~l~~~~~~~~~~~~~~~~~v~~~~~D~~~l~ 110 (218)
T PRK13255 35 LPAGSRVLVPLCGKSLDMLWLAEQ--GHEVLGVELSELAVEQFFAENGLTPQTRQSGEFEHYQAGEITIYCGDFFALT 110 (218)
T ss_pred CCCCCeEEEeCCCChHhHHHHHhC--CCeEEEEccCHHHHHHHHHHcCCCccccccccccccccCceEEEECcccCCC
Confidence 345579999999999999999986 88899999854 455431 1257999999999753
No 97
>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=96.98 E-value=0.00078 Score=46.73 Aligned_cols=49 Identities=22% Similarity=0.338 Sum_probs=38.7
Q ss_pred EEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCC---CCCceEeecCCCC
Q 047000 178 VDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPK---YPGVEHVGGDMFQ 227 (231)
Q Consensus 178 vDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~---~~ri~~~~gDff~ 227 (231)
||||||.|..+..++++ |..+++.+|..+ .++.+++ ..+++++.+|+.+
T Consensus 1 LdiG~G~G~~~~~l~~~-~~~~v~~~D~~~~~~~~~~~~~~~~~~~~~~~d~~~ 53 (95)
T PF08241_consen 1 LDIGCGTGRFAAALAKR-GGASVTGIDISEEMLEQARKRLKNEGVSFRQGDAED 53 (95)
T ss_dssp EEET-TTSHHHHHHHHT-TTCEEEEEES-HHHHHHHHHHTTTSTEEEEESBTTS
T ss_pred CEecCcCCHHHHHHHhc-cCCEEEEEeCCHHHHHHHHhcccccCchheeehHHh
Confidence 79999999999999999 999999999854 4666654 3567788888765
No 98
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=96.97 E-value=0.0014 Score=52.88 Aligned_cols=61 Identities=16% Similarity=0.073 Sum_probs=42.8
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEeecCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-----PGVEHVGGDMF 226 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff 226 (231)
.+++.++ .....+|||||||+|.++..++++ +.+++.+|. |..++.++.. -.+++..+|+.
T Consensus 21 ~l~~~~~-~~~~~~vLDiGcG~G~~a~~la~~--g~~V~~iD~s~~~l~~a~~~~~~~~~~v~~~~~d~~ 87 (195)
T TIGR00477 21 AVREAVK-TVAPCKTLDLGCGQGRNSLYLSLA--GYDVRAWDHNPASIASVLDMKARENLPLRTDAYDIN 87 (195)
T ss_pred HHHHHhc-cCCCCcEEEeCCCCCHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHHHhCCCceeEeccch
Confidence 4555555 334579999999999999999986 578999998 4566654431 13566666654
No 99
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=96.95 E-value=0.0019 Score=56.22 Aligned_cols=64 Identities=14% Similarity=0.218 Sum_probs=48.0
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCC-CeEEEeec-hHHHhhCCC------CCCceEeecCCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPH-IKGINFDL-PHVIQHAPK------YPGVEHVGGDMFQN 228 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dl-p~vi~~a~~------~~ri~~~~gDff~~ 228 (231)
+++..+ ..+..+|||||||+|.++..+++..+. -+++.+|. |..++.+++ .++++++.+|..+.
T Consensus 72 ll~~L~-i~~g~~VLDIG~GtG~~a~~LA~~~~~~g~VvgVDis~~~l~~Ar~~l~~~g~~nV~~i~gD~~~~ 143 (322)
T PRK13943 72 FMEWVG-LDKGMRVLEIGGGTGYNAAVMSRVVGEKGLVVSVEYSRKICEIAKRNVRRLGIENVIFVCGDGYYG 143 (322)
T ss_pred HHHhcC-CCCCCEEEEEeCCccHHHHHHHHhcCCCCEEEEEECCHHHHHHHHHHHHHcCCCcEEEEeCChhhc
Confidence 334444 556789999999999999999998874 46888997 456655543 26799999997654
No 100
>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=96.93 E-value=0.0013 Score=45.57 Aligned_cols=53 Identities=23% Similarity=0.247 Sum_probs=42.2
Q ss_pred eEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCC------CCCCceEeecCCCCCC
Q 047000 176 QLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAP------KYPGVEHVGGDMFQNV 229 (231)
Q Consensus 176 ~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~------~~~ri~~~~gDff~~~ 229 (231)
+++|+|||.|.++..+++ .+..+++++|+.+ .+..++ ...+++++.+|+++..
T Consensus 1 ~ildig~G~G~~~~~~~~-~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (107)
T cd02440 1 RVLDLGCGTGALALALAS-GPGARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELP 60 (107)
T ss_pred CeEEEcCCccHHHHHHhc-CCCCEEEEEeCCHHHHHHHHHHHhcccccceEEEEcChhhhc
Confidence 589999999999999999 7888999999864 444333 2378999999988754
No 101
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=96.92 E-value=0.0022 Score=55.18 Aligned_cols=63 Identities=19% Similarity=0.327 Sum_probs=47.4
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------CCCceEeecCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gDff~ 227 (231)
..+++..+ .....+|+|||||.|.+...+++... +++.+|+. ..++.+++ .++++++.+|+.+
T Consensus 26 ~~Iv~~~~-~~~~~~VLEIG~G~G~LT~~Ll~~~~--~V~avEiD~~li~~l~~~~~~~~~~~~v~ii~~Dal~ 96 (294)
T PTZ00338 26 DKIVEKAA-IKPTDTVLEIGPGTGNLTEKLLQLAK--KVIAIEIDPRMVAELKKRFQNSPLASKLEVIEGDALK 96 (294)
T ss_pred HHHHHhcC-CCCcCEEEEecCchHHHHHHHHHhCC--cEEEEECCHHHHHHHHHHHHhcCCCCcEEEEECCHhh
Confidence 35555555 56678999999999999999999854 58888874 34444432 3689999999975
No 102
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=96.92 E-value=0.0018 Score=57.70 Aligned_cols=62 Identities=15% Similarity=0.136 Sum_probs=45.8
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC---CCceEeecCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY---PGVEHVGGDMF 226 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~---~ri~~~~gDff 226 (231)
.+++.++ ..+..+|||||||.|.++..+++.+ +.+++.+|+ |..++.+++. ..+++..+|+.
T Consensus 158 ~l~~~l~-l~~g~rVLDIGcG~G~~a~~la~~~-g~~V~giDlS~~~l~~A~~~~~~l~v~~~~~D~~ 223 (383)
T PRK11705 158 LICRKLQ-LKPGMRVLDIGCGWGGLARYAAEHY-GVSVVGVTISAEQQKLAQERCAGLPVEIRLQDYR 223 (383)
T ss_pred HHHHHhC-CCCCCEEEEeCCCccHHHHHHHHHC-CCEEEEEeCCHHHHHHHHHHhccCeEEEEECchh
Confidence 4555565 6677899999999999999999876 679999998 4566655442 24666666653
No 103
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=96.88 E-value=0.00073 Score=61.40 Aligned_cols=62 Identities=13% Similarity=0.127 Sum_probs=47.4
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
.+++.++ ..+..+|+|+|||+|.++..+++.. .+++.+|. |..++.++.+ ++++++.+|+.+
T Consensus 288 ~vl~~l~-~~~~~~VLDlgcGtG~~sl~la~~~--~~V~gvD~s~~al~~A~~n~~~~~~~~v~~~~~d~~~ 356 (443)
T PRK13168 288 RALEWLD-PQPGDRVLDLFCGLGNFTLPLARQA--AEVVGVEGVEAMVERARENARRNGLDNVTFYHANLEE 356 (443)
T ss_pred HHHHHhc-CCCCCEEEEEeccCCHHHHHHHHhC--CEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEeChHH
Confidence 3444444 4456799999999999999999886 57899998 4577666542 579999999864
No 104
>PRK03612 spermidine synthase; Provisional
Probab=96.86 E-value=0.0012 Score=61.23 Aligned_cols=55 Identities=27% Similarity=0.425 Sum_probs=46.1
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCC-CeEEEeec-hHHHhhCCC-------------CCCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPH-IKGINFDL-PHVIQHAPK-------------YPGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dl-p~vi~~a~~-------------~~ri~~~~gDff~ 227 (231)
.+.++|+|||||.|..++++++ +|. .+++++|+ |++++.+++ .+|++++.+|.++
T Consensus 296 ~~~~rVL~IG~G~G~~~~~ll~-~~~v~~v~~VEid~~vi~~ar~~~~l~~~~~~~~~dprv~vi~~Da~~ 365 (521)
T PRK03612 296 ARPRRVLVLGGGDGLALREVLK-YPDVEQVTLVDLDPAMTELARTSPALRALNGGALDDPRVTVVNDDAFN 365 (521)
T ss_pred CCCCeEEEEcCCccHHHHHHHh-CCCcCeEEEEECCHHHHHHHHhCCcchhhhccccCCCceEEEEChHHH
Confidence 4578999999999999999997 566 78999998 778888765 1689999998765
No 105
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=96.86 E-value=0.0017 Score=55.58 Aligned_cols=62 Identities=13% Similarity=0.108 Sum_probs=44.3
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEeecCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-----PGVEHVGGDMFQ 227 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff~ 227 (231)
.++..++ .....+|||||||+|..+..+++. +.+++.+|. |.+++.+++. -++++..+|+..
T Consensus 111 ~~~~~~~-~~~~~~vLDlGcG~G~~~~~la~~--g~~V~avD~s~~ai~~~~~~~~~~~l~v~~~~~D~~~ 178 (287)
T PRK12335 111 EVLEAVQ-TVKPGKALDLGCGQGRNSLYLALL--GFDVTAVDINQQSLENLQEIAEKENLNIRTGLYDINS 178 (287)
T ss_pred HHHHHhh-ccCCCCEEEeCCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHHcCCceEEEEechhc
Confidence 3444444 334469999999999999999986 578999999 4566655432 357777777754
No 106
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=96.84 E-value=0.002 Score=44.56 Aligned_cols=56 Identities=27% Similarity=0.350 Sum_probs=41.4
Q ss_pred HHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhh
Q 047000 37 IIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVS 101 (231)
Q Consensus 37 ~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s 101 (231)
.|...+.+++.|.++||+.++ + ++..+++++..|...|+++...+. +|.|.++.-.
T Consensus 16 ~la~~~~~~~~s~~eiA~~~~-i----~~~~l~kil~~L~~~Gli~s~~G~----~GGy~L~~~~ 71 (83)
T PF02082_consen 16 YLARHPDGKPVSSKEIAERLG-I----SPSYLRKILQKLKKAGLIESSRGR----GGGYRLARPP 71 (83)
T ss_dssp HHHCTTTSC-BEHHHHHHHHT-S-----HHHHHHHHHHHHHTTSEEEETST----TSEEEESS-C
T ss_pred HHHhCCCCCCCCHHHHHHHHC-c----CHHHHHHHHHHHhhCCeeEecCCC----CCceeecCCH
Confidence 334433335799999999999 9 999999999999999999975322 4778776543
No 107
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=96.84 E-value=0.0044 Score=53.76 Aligned_cols=61 Identities=10% Similarity=0.011 Sum_probs=41.3
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhC-------CCCCCceEeecCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHA-------PKYPGVEHVGGDM 225 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a-------~~~~ri~~~~gDf 225 (231)
.++..+. .....+|+|||||+|.++..+++.+++ +++.+|... .+..+ ....++.+..+|+
T Consensus 112 ~~l~~l~-~~~g~~VLDvGCG~G~~~~~~~~~g~~-~v~GiDpS~~ml~q~~~~~~~~~~~~~v~~~~~~i 180 (314)
T TIGR00452 112 RVLPHLS-PLKGRTILDVGCGSGYHMWRMLGHGAK-SLVGIDPTVLFLCQFEAVRKLLDNDKRAILEPLGI 180 (314)
T ss_pred HHHHhcC-CCCCCEEEEeccCCcHHHHHHHHcCCC-EEEEEcCCHHHHHHHHHHHHHhccCCCeEEEECCH
Confidence 3444443 334589999999999999999998775 689999744 32221 1235677776654
No 108
>KOG1271 consensus Methyltransferases [General function prediction only]
Probab=96.83 E-value=0.0019 Score=51.23 Aligned_cols=56 Identities=14% Similarity=0.181 Sum_probs=39.7
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCC------CC-CCceEeecCCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAP------KY-PGVEHVGGDMFQN 228 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~------~~-~ri~~~~gDff~~ 228 (231)
...+|||+|||.|+++..|++.-=.-+-+..|.. .+++-|+ .. +-|+|+.-|+++|
T Consensus 67 ~A~~VlDLGtGNG~~L~~L~~egf~~~L~GvDYs~~AV~LA~niAe~~~~~n~I~f~q~DI~~~ 130 (227)
T KOG1271|consen 67 QADRVLDLGTGNGHLLFQLAKEGFQSKLTGVDYSEKAVELAQNIAERDGFSNEIRFQQLDITDP 130 (227)
T ss_pred cccceeeccCCchHHHHHHHHhcCCCCccccccCHHHHHHHHHHHHhcCCCcceeEEEeeccCC
Confidence 3459999999999999999988423234556653 3444333 23 4499999999986
No 109
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=96.81 E-value=0.0031 Score=57.73 Aligned_cols=64 Identities=19% Similarity=0.275 Sum_probs=47.6
Q ss_pred HHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----CCCceEeecCCCC
Q 047000 161 IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK----YPGVEHVGGDMFQ 227 (231)
Q Consensus 161 ~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----~~ri~~~~gDff~ 227 (231)
.+.+++.++ .....++||||||+|.++..+++.+. +++.+|. |..++.++. .++++++.+|+.+
T Consensus 26 ~~~il~~l~-~~~~~~vLDlGcG~G~~~~~la~~~~--~v~giD~s~~~l~~a~~~~~~~~~i~~~~~d~~~ 94 (475)
T PLN02336 26 RPEILSLLP-PYEGKSVLELGAGIGRFTGELAKKAG--QVIALDFIESVIKKNESINGHYKNVKFMCADVTS 94 (475)
T ss_pred hhHHHhhcC-ccCCCEEEEeCCCcCHHHHHHHhhCC--EEEEEeCCHHHHHHHHHHhccCCceEEEEecccc
Confidence 345666665 44567999999999999999999864 6789997 445554432 3679999999863
No 110
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=96.81 E-value=0.0019 Score=54.12 Aligned_cols=61 Identities=23% Similarity=0.288 Sum_probs=50.4
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccc
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYF 104 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L 104 (231)
+.|++.|...+ .++++.|||+++| + +...++|+|..|+..|+++++. . +++|.+++....|
T Consensus 7 l~iL~~l~~~~--~~l~l~ela~~~g-l----pksT~~RlL~tL~~~G~v~~d~--~---~g~Y~Lg~~~~~l 67 (246)
T COG1414 7 LAILDLLAEGP--GGLSLAELAERLG-L----PKSTVHRLLQTLVELGYVEQDP--E---DGRYRLGPRLLEL 67 (246)
T ss_pred HHHHHHHHhCC--CCCCHHHHHHHhC-c----CHHHHHHHHHHHHHCCCEEEcC--C---CCcEeehHHHHHH
Confidence 56888888732 4577999999999 9 9999999999999999999952 1 5789999876533
No 111
>PRK04148 hypothetical protein; Provisional
Probab=96.80 E-value=0.003 Score=47.87 Aligned_cols=62 Identities=21% Similarity=0.311 Sum_probs=45.7
Q ss_pred HHHhCCCCCCCceEEEccCChhH-HHHHHHHHCCCCeEEEeec-hHHHhhCCCCCCceEeecCCCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGN-TLKAITSKYPHIKGINFDL-PHVIQHAPKYPGVEHVGGDMFQNV 229 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~-~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~~ri~~~~gDff~~~ 229 (231)
+.+.++ -.+..+++|||+|.|. ++..+.+. +..++..|. |..++.+++. .++++.+|+|++=
T Consensus 8 l~~~~~-~~~~~kileIG~GfG~~vA~~L~~~--G~~ViaIDi~~~aV~~a~~~-~~~~v~dDlf~p~ 71 (134)
T PRK04148 8 IAENYE-KGKNKKIVELGIGFYFKVAKKLKES--GFDVIVIDINEKAVEKAKKL-GLNAFVDDLFNPN 71 (134)
T ss_pred HHHhcc-cccCCEEEEEEecCCHHHHHHHHHC--CCEEEEEECCHHHHHHHHHh-CCeEEECcCCCCC
Confidence 444454 2345789999999996 77777765 678999997 4566666543 5799999999873
No 112
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=96.80 E-value=0.0031 Score=51.35 Aligned_cols=64 Identities=13% Similarity=0.196 Sum_probs=46.7
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEeecCCCCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK------YPGVEHVGGDMFQNVP 230 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gDff~~~P 230 (231)
++..++ ..+..+|+|||||+|.++..+++... +++.+|. |..++.++. ...++++.+|+++..|
T Consensus 70 l~~~l~-~~~~~~VLeiG~GsG~~t~~la~~~~--~v~~vd~~~~~~~~a~~~~~~~~~~~v~~~~~d~~~~~~ 140 (212)
T PRK00312 70 MTELLE-LKPGDRVLEIGTGSGYQAAVLAHLVR--RVFSVERIKTLQWEAKRRLKQLGLHNVSVRHGDGWKGWP 140 (212)
T ss_pred HHHhcC-CCCCCEEEEECCCccHHHHHHHHHhC--EEEEEeCCHHHHHHHHHHHHHCCCCceEEEECCcccCCC
Confidence 344455 56778999999999999988777753 6788886 455555543 2569999999877543
No 113
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=96.78 E-value=0.0024 Score=52.84 Aligned_cols=51 Identities=16% Similarity=0.289 Sum_probs=38.5
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhC-C---CC--CCceEeecC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHA-P---KY--PGVEHVGGD 224 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a-~---~~--~ri~~~~gD 224 (231)
...+|+||||.|.+..++++++|+..+++++. ..++..+ + +. ..|.++.+|
T Consensus 49 ~pi~lEIGfG~G~~l~~~A~~nP~~nfiGiEi~~~~v~~~l~k~~~~~l~Nlri~~~D 106 (227)
T COG0220 49 APIVLEIGFGMGEFLVEMAKKNPEKNFLGIEIRVPGVAKALKKIKELGLKNLRLLCGD 106 (227)
T ss_pred CcEEEEECCCCCHHHHHHHHHCCCCCEEEEEEehHHHHHHHHHHHHcCCCcEEEEcCC
Confidence 36899999999999999999999999999997 2333332 2 11 356666655
No 114
>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=96.77 E-value=0.0027 Score=50.99 Aligned_cols=53 Identities=17% Similarity=0.339 Sum_probs=39.9
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCCCCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKYPGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~~ri~~~~gDff~ 227 (231)
...+|+|||||+|.++..+++. ...+++.+|.- +.++.++. .+++++.+|+.+
T Consensus 13 ~~~~iLDiGcG~G~~~~~l~~~-~~~~~~giD~s~~~i~~a~~-~~~~~~~~d~~~ 66 (194)
T TIGR02081 13 PGSRVLDLGCGDGELLALLRDE-KQVRGYGIEIDQDGVLACVA-RGVNVIQGDLDE 66 (194)
T ss_pred CCCEEEEeCCCCCHHHHHHHhc-cCCcEEEEeCCHHHHHHHHH-cCCeEEEEEhhh
Confidence 4569999999999999988876 46678889974 45555543 457888888754
No 115
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=96.75 E-value=0.0014 Score=56.99 Aligned_cols=51 Identities=12% Similarity=0.045 Sum_probs=39.9
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEeecCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDM 225 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDf 225 (231)
...+|||||||.|.++..+++ ++.+++++|. +..++.++.+ .+|+++.+|+
T Consensus 131 ~g~~ILDIGCG~G~~s~~La~--~g~~V~GID~s~~~i~~Ar~~~~~~~~~~~i~~~~~da 189 (322)
T PLN02396 131 EGLKFIDIGCGGGLLSEPLAR--MGATVTGVDAVDKNVKIARLHADMDPVTSTIEYLCTTA 189 (322)
T ss_pred CCCEEEEeeCCCCHHHHHHHH--cCCEEEEEeCCHHHHHHHHHHHHhcCcccceeEEecCH
Confidence 346899999999999998886 4778999998 4566666532 4788888775
No 116
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=96.75 E-value=0.0011 Score=44.06 Aligned_cols=48 Identities=25% Similarity=0.223 Sum_probs=42.2
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
.+..|+..|... ++.|+++||+.+| + +...+.+.|+.|...|++++..
T Consensus 9 ~E~~vy~~Ll~~---~~~t~~eIa~~l~-i----~~~~v~~~L~~L~~~GlV~~~~ 56 (68)
T PF01978_consen 9 NEAKVYLALLKN---GPATAEEIAEELG-I----SRSTVYRALKSLEEKGLVEREE 56 (68)
T ss_dssp HHHHHHHHHHHH---CHEEHHHHHHHHT-S----SHHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHHHc---CCCCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEEc
Confidence 456677787655 6999999999999 9 9999999999999999999863
No 117
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=96.72 E-value=0.0012 Score=53.46 Aligned_cols=55 Identities=15% Similarity=0.045 Sum_probs=42.0
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQN 228 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~~ 228 (231)
...+++|+|||+|.++.+++.+.. .+++.+|. |.+++.++.+ .+++++.+|+++.
T Consensus 53 ~~~~vLDl~~GsG~l~l~~lsr~a-~~V~~vE~~~~a~~~a~~Nl~~~~~~~v~~~~~D~~~~ 114 (199)
T PRK10909 53 VDARCLDCFAGSGALGLEALSRYA-AGATLLEMDRAVAQQLIKNLATLKAGNARVVNTNALSF 114 (199)
T ss_pred CCCEEEEcCCCccHHHHHHHHcCC-CEEEEEECCHHHHHHHHHHHHHhCCCcEEEEEchHHHH
Confidence 356899999999999998776654 57888897 4566655442 5789999998753
No 118
>PRK05785 hypothetical protein; Provisional
Probab=96.71 E-value=0.0022 Score=53.06 Aligned_cols=51 Identities=12% Similarity=0.156 Sum_probs=39.4
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCCCCceEeecCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKYPGVEHVGGDMF 226 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~~ri~~~~gDff 226 (231)
...+|||||||+|.++..+++.+ +.+++.+|. |+.++.++.. ..++.+|+.
T Consensus 51 ~~~~VLDlGcGtG~~~~~l~~~~-~~~v~gvD~S~~Ml~~a~~~--~~~~~~d~~ 102 (226)
T PRK05785 51 RPKKVLDVAAGKGELSYHFKKVF-KYYVVALDYAENMLKMNLVA--DDKVVGSFE 102 (226)
T ss_pred CCCeEEEEcCCCCHHHHHHHHhc-CCEEEEECCCHHHHHHHHhc--cceEEechh
Confidence 36799999999999999999998 678999998 5677776653 234455543
No 119
>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=96.70 E-value=0.0021 Score=53.71 Aligned_cols=61 Identities=23% Similarity=0.257 Sum_probs=51.0
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFV 105 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~ 105 (231)
-+.|.+.|.... .|+|+.|||+.+| + +...+.|+|..|+..|++++ + +++|.+.+....|.
T Consensus 11 al~IL~~l~~~~--~~~~l~eia~~lg-l----pksT~~RlL~tL~~~G~l~~---~----~~~Y~lG~~~~~lg 71 (248)
T TIGR02431 11 GLAVIEAFGAER--PRLTLTDVAEATG-L----TRAAARRFLLTLVELGYVTS---D----GRLFWLTPRVLRLG 71 (248)
T ss_pred HHHHHHHHhcCC--CCCCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEe---C----CCEEEecHHHHHHH
Confidence 356788887643 6899999999999 9 99999999999999999997 2 57899988765443
No 120
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=96.69 E-value=0.0018 Score=56.22 Aligned_cols=52 Identities=13% Similarity=0.063 Sum_probs=42.5
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
..+|+|+|||+|.++..+++. ..+++.+|. |..++.++++ ++++|+.+|+.+
T Consensus 174 ~~~VLDl~cG~G~~sl~la~~--~~~V~gvD~s~~av~~A~~n~~~~~l~~v~~~~~D~~~ 232 (315)
T PRK03522 174 PRSMWDLFCGVGGFGLHCATP--GMQLTGIEISAEAIACAKQSAAELGLTNVQFQALDSTQ 232 (315)
T ss_pred CCEEEEccCCCCHHHHHHHhc--CCEEEEEeCCHHHHHHHHHHHHHcCCCceEEEEcCHHH
Confidence 479999999999999999984 468999998 5677666542 579999999854
No 121
>PRK11569 transcriptional repressor IclR; Provisional
Probab=96.67 E-value=0.0023 Score=54.41 Aligned_cols=62 Identities=18% Similarity=0.207 Sum_probs=50.9
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYF 104 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L 104 (231)
-+.|.+.|.+.. .++|+.|||+.+| + +...+.|+|..|+..|+++++. . .++|++.+....|
T Consensus 30 al~IL~~l~~~~--~~~~lseia~~lg-l----pksTv~RlL~tL~~~G~l~~~~--~---~~~Y~lG~~l~~L 91 (274)
T PRK11569 30 GLKLLEWIAESN--GSVALTELAQQAG-L----PNSTTHRLLTTMQQQGFVRQVG--E---LGHWAIGAHAFIV 91 (274)
T ss_pred HHHHHHHHHhCC--CCcCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEcC--C---CCeEecCHHHHHH
Confidence 356788887753 6899999999999 9 9999999999999999999742 2 5889988775433
No 122
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=96.63 E-value=0.0029 Score=53.71 Aligned_cols=63 Identities=17% Similarity=0.181 Sum_probs=51.5
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFV 105 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~ 105 (231)
-+.|++.|...+ .++|+.|||+.+| + +...+.|+|..|+..|++.++. . .++|.+++....|.
T Consensus 27 ~l~IL~~~~~~~--~~~tl~eIa~~lg-l----pkStv~RlL~tL~~~G~l~~~~--~---~~~Y~lG~~l~~Lg 89 (271)
T PRK10163 27 GIAILQYLEKSG--GSSSVSDISLNLD-L----PLSTTFRLLKVLQAADFVYQDS--Q---LGWWHIGLGVFNVG 89 (271)
T ss_pred HHHHHHHHHhCC--CCcCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEcC--C---CCeEEecHHHHHHH
Confidence 356788887754 5899999999999 9 9999999999999999998842 2 57899887764433
No 123
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=96.59 E-value=0.0019 Score=54.14 Aligned_cols=42 Identities=21% Similarity=0.218 Sum_probs=32.7
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK 214 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~ 214 (231)
....+|+|||||+|.+++.+++..+. +++.+|. |..++.+++
T Consensus 118 ~~~~~VLDiGcGsG~l~i~~~~~g~~-~v~giDis~~~l~~A~~ 160 (250)
T PRK00517 118 LPGKTVLDVGCGSGILAIAAAKLGAK-KVLAVDIDPQAVEAARE 160 (250)
T ss_pred CCCCEEEEeCCcHHHHHHHHHHcCCC-eEEEEECCHHHHHHHHH
Confidence 35689999999999999988776554 6899998 456666554
No 124
>PF06325 PrmA: Ribosomal protein L11 methyltransferase (PrmA); InterPro: IPR010456 This family consists of several Ribosomal protein L11 methyltransferase sequences. Its genetic determinant is prmA, which forms a bifunctional operon with the downstream panF gene []. The role of L11 methylation in ribosome function is, as yet, unknown. Deletion of the prmA gene in Escherichia coli showed no obvious effect [] except for the production of undermethylated forms of L11 []. Methylation is the most common post-transcriptional modification to ribosomal proteins in all organisms. PrmA is the only bacterial enzyme that catalyses the methylation of a ribosomal protein [].; GO: 0008276 protein methyltransferase activity, 0006479 protein methylation, 0005737 cytoplasm; PDB: 3GRZ_B 1F3L_A 2NXJ_B 3CJT_I 3CJQ_G 2NXE_A 2NXC_A 2ZBP_A 3EGV_A 3CJS_A ....
Probab=96.58 E-value=0.0019 Score=55.58 Aligned_cols=63 Identities=21% Similarity=0.244 Sum_probs=44.5
Q ss_pred HHHHHHHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC
Q 047000 148 VFNIAMYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK 214 (231)
Q Consensus 148 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~ 214 (231)
.|..+-+.+++.....+-+ +. .+..+|+|||||+|.++++.++... -+++.+|. |.+++.+++
T Consensus 139 AFGTG~H~TT~lcl~~l~~-~~--~~g~~vLDvG~GSGILaiaA~klGA-~~v~a~DiDp~Av~~a~~ 202 (295)
T PF06325_consen 139 AFGTGHHPTTRLCLELLEK-YV--KPGKRVLDVGCGSGILAIAAAKLGA-KKVVAIDIDPLAVEAARE 202 (295)
T ss_dssp SS-SSHCHHHHHHHHHHHH-HS--STTSEEEEES-TTSHHHHHHHHTTB-SEEEEEESSCHHHHHHHH
T ss_pred cccCCCCHHHHHHHHHHHH-hc--cCCCEEEEeCCcHHHHHHHHHHcCC-CeEEEecCCHHHHHHHHH
Confidence 4777777777777654444 44 3457999999999999999999844 36899998 456666654
No 125
>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=96.57 E-value=0.0031 Score=54.05 Aligned_cols=72 Identities=19% Similarity=0.147 Sum_probs=45.8
Q ss_pred HHHHHHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-------CCceE
Q 047000 149 FNIAMYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY-------PGVEH 220 (231)
Q Consensus 149 f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-------~ri~~ 220 (231)
|..+....+..... ++..+. . ...+|+|||||+|.++..+++. +..+++.+|+. ..++.++++ .++.+
T Consensus 138 FgtG~h~tt~l~l~-~l~~~~-~-~g~~VLDvGcGsG~lai~aa~~-g~~~V~avDid~~al~~a~~n~~~n~~~~~~~~ 213 (288)
T TIGR00406 138 FGTGTHPTTSLCLE-WLEDLD-L-KDKNVIDVGCGSGILSIAALKL-GAAKVVGIDIDPLAVESARKNAELNQVSDRLQV 213 (288)
T ss_pred ccCCCCHHHHHHHH-HHHhhc-C-CCCEEEEeCCChhHHHHHHHHc-CCCeEEEEECCHHHHHHHHHHHHHcCCCcceEE
Confidence 54444444444332 333343 2 4589999999999999988875 44589999985 456555442 45555
Q ss_pred eecC
Q 047000 221 VGGD 224 (231)
Q Consensus 221 ~~gD 224 (231)
..+|
T Consensus 214 ~~~~ 217 (288)
T TIGR00406 214 KLIY 217 (288)
T ss_pred Eecc
Confidence 5554
No 126
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=96.55 E-value=0.0031 Score=57.34 Aligned_cols=64 Identities=14% Similarity=0.118 Sum_probs=49.6
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
.+...++ ..+..+|+|+|||+|..+..+++.. |+.+++.+|+ +..++.++++ +.|+++.+|+.+
T Consensus 241 lv~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~~~~v~avDi~~~~l~~~~~n~~~~g~~~v~~~~~D~~~ 312 (444)
T PRK14902 241 LVAPALD-PKGGDTVLDACAAPGGKTTHIAELLKNTGKVVALDIHEHKLKLIEENAKRLGLTNIETKALDARK 312 (444)
T ss_pred HHHHHhC-CCCCCEEEEeCCCCCHHHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEeCCccc
Confidence 3344455 5567899999999999999999986 6789999999 5666665432 458999999865
No 127
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=96.54 E-value=0.0033 Score=52.89 Aligned_cols=61 Identities=11% Similarity=0.179 Sum_probs=49.9
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcccc
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFV 105 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~ 105 (231)
+.|.+.|... +++|+.|||+.+| + +...+.|+|+.|+..|++++.. . .++|.+++....|.
T Consensus 17 l~IL~~l~~~---~~l~l~eia~~lg-l----~kstv~Rll~tL~~~G~l~~~~--~---~~~Y~lG~~~~~lg 77 (257)
T PRK15090 17 FGILQALGEE---REIGITELSQRVM-M----SKSTVYRFLQTMKTLGYVAQEG--E---SEKYSLTLKLFELG 77 (257)
T ss_pred HHHHHHhhcC---CCCCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEcC--C---CCcEEecHHHHHHH
Confidence 4567777654 5899999999999 9 9999999999999999999842 2 57899988764333
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=96.49 E-value=0.0027 Score=53.90 Aligned_cols=56 Identities=23% Similarity=0.310 Sum_probs=43.7
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC----------CCCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK----------YPGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~----------~~ri~~~~gDff~ 227 (231)
++.++|++||||.|.++.++++..+..++++.|+. .+++.+++ .+|++++.+|.++
T Consensus 71 ~~p~~VL~iG~G~G~~~~~ll~~~~~~~v~~veid~~vi~~a~~~~~~~~~~~~~~~v~i~~~D~~~ 137 (270)
T TIGR00417 71 PNPKHVLVIGGGDGGVLREVLKHKSVEKATLVDIDEKVIELSKKFLPSLAGSYDDPRVDLQIDDGFK 137 (270)
T ss_pred CCCCEEEEEcCCchHHHHHHHhCCCcceEEEEeCCHHHHHHHHHHhHhhcccccCCceEEEECchHH
Confidence 35679999999999999999987767789999985 56665543 2678888888654
No 129
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=96.49 E-value=0.0021 Score=55.12 Aligned_cols=63 Identities=21% Similarity=0.210 Sum_probs=44.6
Q ss_pred HHHHHHHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC
Q 047000 148 VFNIAMYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK 214 (231)
Q Consensus 148 ~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~ 214 (231)
.|..+-+..++... .+++.+. .+..+++|||||+|.++++.++-- -.+++.+|+. .+++.+++
T Consensus 140 AFGTG~HpTT~lcL-~~Le~~~--~~g~~vlDvGcGSGILaIAa~kLG-A~~v~g~DiDp~AV~aa~e 203 (300)
T COG2264 140 AFGTGTHPTTSLCL-EALEKLL--KKGKTVLDVGCGSGILAIAAAKLG-AKKVVGVDIDPQAVEAARE 203 (300)
T ss_pred ccCCCCChhHHHHH-HHHHHhh--cCCCEEEEecCChhHHHHHHHHcC-CceEEEecCCHHHHHHHHH
Confidence 46655555655554 3445554 378999999999999999999884 3358999984 46666554
No 130
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=96.45 E-value=0.004 Score=52.60 Aligned_cols=63 Identities=16% Similarity=0.155 Sum_probs=51.8
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFV 105 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~ 105 (231)
-+.|++.|...+ +++|..|||+.+| + +...+.|+|..|...|++++.+ . ++.|++++....|.
T Consensus 13 al~iL~~l~~~~--~~ls~~eia~~lg-l----~kstv~RlL~tL~~~g~v~~~~--~---~~~Y~Lg~~~~~l~ 75 (263)
T PRK09834 13 GLMVLRALNRLD--GGATVGLLAELTG-L----HRTTVRRLLETLQEEGYVRRSA--S---DDSFRLTLKVRQLS 75 (263)
T ss_pred HHHHHHHHHhcC--CCCCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEec--C---CCcEEEcHHHHHHH
Confidence 356778887653 5799999999999 9 9999999999999999999853 2 57899998775444
No 131
>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=96.44 E-value=0.0035 Score=47.43 Aligned_cols=38 Identities=24% Similarity=0.326 Sum_probs=32.2
Q ss_pred eEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCC
Q 047000 176 QLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAP 213 (231)
Q Consensus 176 ~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~ 213 (231)
+++|||||.|.++..+++.+|+.+++.+|. |...+.++
T Consensus 1 ~vlDiGa~~G~~~~~~~~~~~~~~v~~~E~~~~~~~~l~ 39 (143)
T TIGR01444 1 VVIDVGANIGDTSLYFARKGAEGRVIAFEPLPDAYEILE 39 (143)
T ss_pred CEEEccCCccHHHHHHHHhCCCCEEEEEecCHHHHHHHH
Confidence 489999999999999999999999999996 44554443
No 132
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=96.41 E-value=0.0048 Score=49.28 Aligned_cols=53 Identities=19% Similarity=0.202 Sum_probs=41.9
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEeecCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-----PGVEHVGGDMF 226 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff 226 (231)
..++|+|+|||+|.++++.+-..|. +++.+|+ |+.++.++++ .+|+|+..|.-
T Consensus 45 ~g~~V~DlG~GTG~La~ga~~lGa~-~V~~vdiD~~a~ei~r~N~~~l~g~v~f~~~dv~ 103 (198)
T COG2263 45 EGKTVLDLGAGTGILAIGAALLGAS-RVLAVDIDPEALEIARANAEELLGDVEFVVADVS 103 (198)
T ss_pred CCCEEEEcCCCcCHHHHHHHhcCCc-EEEEEecCHHHHHHHHHHHHhhCCceEEEEcchh
Confidence 4678999999999999998877654 5778887 5677777664 57888888764
No 133
>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=96.40 E-value=0.0053 Score=40.36 Aligned_cols=61 Identities=21% Similarity=0.345 Sum_probs=41.0
Q ss_pred hChHHHHH-hcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCc-Ccccccchhh
Q 047000 32 LGVFEIIA-KAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDS-QRLYGLNDVS 101 (231)
Q Consensus 32 lglfd~L~-~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~-~~~y~~t~~s 101 (231)
.-|...|. .. ++++..+|++.++ + +...+.++++.|...|++++..... +. ...|++|+.+
T Consensus 6 ~~vL~~l~~~~---~~~t~~~l~~~~~-~----~~~~vs~~i~~L~~~glv~~~~~~~-d~R~~~~~LT~~G 68 (68)
T PF13463_consen 6 WQVLRALAHSD---GPMTQSDLAERLG-I----SKSTVSRIIKKLEEKGLVEKERDPH-DKRSKRYRLTPAG 68 (68)
T ss_dssp HHHHHHHT--T---S-BEHHHHHHHTT-------HHHHHHHHHHHHHTTSEEEEEESS-CTTSEEEEE-HHH
T ss_pred HHHHHHHHccC---CCcCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEecCCCC-cCCeeEEEeCCCC
Confidence 33445555 32 6999999999999 9 9999999999999999998753211 10 1248888753
No 134
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=96.38 E-value=0.0033 Score=38.61 Aligned_cols=44 Identities=23% Similarity=0.356 Sum_probs=38.9
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
++.|...|.+ +|.++.||++.++ + +...+.+-|+.|...|++++
T Consensus 4 R~~Il~~L~~----~~~~~~el~~~l~-~----s~~~vs~hL~~L~~~glV~~ 47 (47)
T PF01022_consen 4 RLRILKLLSE----GPLTVSELAEELG-L----SQSTVSHHLKKLREAGLVEK 47 (47)
T ss_dssp HHHHHHHHTT----SSEEHHHHHHHHT-S-----HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHh----CCCchhhHHHhcc-c----cchHHHHHHHHHHHCcCeeC
Confidence 5677888888 6999999999999 9 99999999999999999863
No 135
>PLN02823 spermine synthase
Probab=96.37 E-value=0.0052 Score=53.84 Aligned_cols=56 Identities=18% Similarity=0.188 Sum_probs=45.6
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----------CCCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK----------YPGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----------~~ri~~~~gDff~ 227 (231)
.+.++||-||||.|..++++++..+..+++++|+ |.|++.+++ .+|++++.+|-++
T Consensus 102 ~~pk~VLiiGgG~G~~~re~l~~~~~~~v~~VEiD~~vv~lar~~~~~~~~~~~dprv~v~~~Da~~ 168 (336)
T PLN02823 102 PNPKTVFIMGGGEGSTAREVLRHKTVEKVVMCDIDQEVVDFCRKHLTVNREAFCDKRLELIINDARA 168 (336)
T ss_pred CCCCEEEEECCCchHHHHHHHhCCCCCeEEEEECCHHHHHHHHHhcccccccccCCceEEEEChhHH
Confidence 3568999999999999999999777778999998 567777764 2688888887654
No 136
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=96.34 E-value=0.0073 Score=37.06 Aligned_cols=45 Identities=16% Similarity=0.333 Sum_probs=38.4
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVE 82 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~ 82 (231)
.+..|+..|.++ +++|..|||+.+| + +...+.+.++.|...|+++
T Consensus 4 ~~~~Il~~l~~~---~~~t~~ela~~~~-i----s~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 4 TQRKILNYLREN---PRITQKELAEKLG-I----SRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHHHHHC---TTS-HHHHHHHHT-S-----HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHc---CCCCHHHHHHHhC-C----CHHHHHHHHHHHHHCcCcC
Confidence 456788999986 4799999999999 9 9999999999999999874
No 137
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=96.34 E-value=0.0075 Score=50.11 Aligned_cols=57 Identities=11% Similarity=0.229 Sum_probs=46.2
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeech-HHHhhCCCC-------CCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDLP-HVIQHAPKY-------PGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gDff~ 227 (231)
..+.+++||||+|+|.-+..+++..| +-+++.+|.. +.++.++++ ++|+++.||..+
T Consensus 66 ~~~~~~vLEiGt~~G~s~l~la~~~~~~g~v~tiD~d~~~~~~A~~n~~~~gl~~~i~~~~gda~~ 131 (234)
T PLN02781 66 IMNAKNTLEIGVFTGYSLLTTALALPEDGRITAIDIDKEAYEVGLEFIKKAGVDHKINFIQSDALS 131 (234)
T ss_pred HhCCCEEEEecCcccHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEccHHH
Confidence 34688999999999999999998865 6789999985 556666542 789999999865
No 138
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=96.33 E-value=0.0052 Score=52.48 Aligned_cols=57 Identities=28% Similarity=0.430 Sum_probs=47.8
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC----------CCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY----------PGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~----------~ri~~~~gDff~ 227 (231)
.++.++||=||||.|..++++++..|--+.+++|+ |.|++.++++ +|++.+.+|-++
T Consensus 74 h~~pk~VLiiGgGdG~tlRevlkh~~ve~i~~VEID~~Vi~~ar~~l~~~~~~~~dpRv~i~i~Dg~~ 141 (282)
T COG0421 74 HPNPKRVLIIGGGDGGTLREVLKHLPVERITMVEIDPAVIELARKYLPEPSGGADDPRVEIIIDDGVE 141 (282)
T ss_pred CCCCCeEEEECCCccHHHHHHHhcCCcceEEEEEcCHHHHHHHHHhccCcccccCCCceEEEeccHHH
Confidence 34567999999999999999999999889999998 5688887652 788888887553
No 139
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=96.27 E-value=0.0051 Score=53.43 Aligned_cols=52 Identities=12% Similarity=0.033 Sum_probs=39.8
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCCC-----------CCceEeecCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPKY-----------PGVEHVGGDMF 226 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~-----------~ri~~~~gDff 226 (231)
...+|||||||+|.++..+++. +.+++.+|+.+ .++.+++. .+++|..+|+.
T Consensus 144 ~~~~VLDlGcGtG~~a~~la~~--g~~V~gvD~S~~ml~~A~~~~~~~~~~~~~~~~~~f~~~Dl~ 207 (315)
T PLN02585 144 AGVTVCDAGCGTGSLAIPLALE--GAIVSASDISAAMVAEAERRAKEALAALPPEVLPKFEANDLE 207 (315)
T ss_pred CCCEEEEecCCCCHHHHHHHHC--CCEEEEEECCHHHHHHHHHHHHhcccccccccceEEEEcchh
Confidence 3579999999999999999986 57899999854 55555432 35777777763
No 140
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=96.26 E-value=0.0067 Score=54.90 Aligned_cols=64 Identities=11% Similarity=0.133 Sum_probs=49.3
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEeecCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-----PGVEHVGGDMFQ 227 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff~ 227 (231)
.++..++ .....+|+|+|||+|..+..+++..++.+++.+|. |..++.++.+ -+++++.+|..+
T Consensus 235 ~~~~~l~-~~~g~~VLDlgaG~G~~t~~la~~~~~~~v~a~D~s~~~l~~~~~n~~~~g~~~~~~~~D~~~ 304 (427)
T PRK10901 235 LAATLLA-PQNGERVLDACAAPGGKTAHILELAPQAQVVALDIDAQRLERVRENLQRLGLKATVIVGDARD 304 (427)
T ss_pred HHHHHcC-CCCCCEEEEeCCCCChHHHHHHHHcCCCEEEEEeCCHHHHHHHHHHHHHcCCCeEEEEcCccc
Confidence 3444555 45678999999999999999999998888999998 5566665542 247888888864
No 141
>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=96.24 E-value=0.011 Score=45.10 Aligned_cols=34 Identities=18% Similarity=0.283 Sum_probs=28.8
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH 207 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~ 207 (231)
....+|||||||.|.++..+.+..+ +++++|.-+
T Consensus 21 ~~~~~vLDiGcG~G~~~~~l~~~~~--~~~g~D~~~ 54 (161)
T PF13489_consen 21 KPGKRVLDIGCGTGSFLRALAKRGF--EVTGVDISP 54 (161)
T ss_dssp TTTSEEEEESSTTSHHHHHHHHTTS--EEEEEESSH
T ss_pred CCCCEEEEEcCCCCHHHHHHHHhCC--EEEEEECCH
Confidence 4678999999999999999977644 899999853
No 142
>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=96.19 E-value=0.0037 Score=50.34 Aligned_cols=61 Identities=20% Similarity=0.353 Sum_probs=45.3
Q ss_pred hCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----CCCceEeecCCCCCCC
Q 047000 167 AYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK----YPGVEHVGGDMFQNVP 230 (231)
Q Consensus 167 ~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----~~ri~~~~gDff~~~P 230 (231)
.++ -....++++||||.|.+...|+.++ -+.++.|. |..++.+++ .++|+++..|+=+..|
T Consensus 38 aLp-~~ry~~alEvGCs~G~lT~~LA~rC--d~LlavDis~~Al~~Ar~Rl~~~~~V~~~~~dvp~~~P 103 (201)
T PF05401_consen 38 ALP-RRRYRRALEVGCSIGVLTERLAPRC--DRLLAVDISPRALARARERLAGLPHVEWIQADVPEFWP 103 (201)
T ss_dssp HHT-TSSEEEEEEE--TTSHHHHHHGGGE--EEEEEEES-HHHHHHHHHHTTT-SSEEEEES-TTT---
T ss_pred hcC-ccccceeEecCCCccHHHHHHHHhh--CceEEEeCCHHHHHHHHHhcCCCCCeEEEECcCCCCCC
Confidence 455 5667899999999999999999996 46899998 778887764 4889999999876655
No 143
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=96.17 E-value=0.0078 Score=39.01 Aligned_cols=53 Identities=19% Similarity=0.301 Sum_probs=44.9
Q ss_pred HHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 24 MAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 24 ~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.+|.--.++.|++.|... +|.|+.+||+.+| + ++..+.+-|+.|...|+++..
T Consensus 5 ~aL~~p~R~~Il~~L~~~---~~~t~~ela~~l~-~----~~~t~s~hL~~L~~aGli~~~ 57 (61)
T PF12840_consen 5 KALSDPTRLRILRLLASN---GPMTVSELAEELG-I----SQSTVSYHLKKLEEAGLIEVE 57 (61)
T ss_dssp HHHTSHHHHHHHHHHHHC---STBEHHHHHHHHT-S-----HHHHHHHHHHHHHTTSEEEE
T ss_pred HHhCCHHHHHHHHHHhcC---CCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCeEEe
Confidence 445556788899999543 6999999999999 9 999999999999999999975
No 144
>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=96.17 E-value=0.017 Score=48.82 Aligned_cols=65 Identities=18% Similarity=0.360 Sum_probs=49.9
Q ss_pred HHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCC----CCCCceEeecCCCCC
Q 047000 161 IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAP----KYPGVEHVGGDMFQN 228 (231)
Q Consensus 161 ~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~----~~~ri~~~~gDff~~ 228 (231)
+..+++..+ ..+...|+|||.|.|.+...|++.. -+.+++|..+ -++..+ ..++++++.+|+++-
T Consensus 19 ~~~Iv~~~~-~~~~~~VlEiGpG~G~lT~~L~~~~--~~v~~vE~d~~~~~~L~~~~~~~~~~~vi~~D~l~~ 88 (262)
T PF00398_consen 19 ADKIVDALD-LSEGDTVLEIGPGPGALTRELLKRG--KRVIAVEIDPDLAKHLKERFASNPNVEVINGDFLKW 88 (262)
T ss_dssp HHHHHHHHT-CGTTSEEEEESSTTSCCHHHHHHHS--SEEEEEESSHHHHHHHHHHCTTCSSEEEEES-TTTS
T ss_pred HHHHHHhcC-CCCCCEEEEeCCCCccchhhHhccc--CcceeecCcHhHHHHHHHHhhhcccceeeecchhcc
Confidence 456667666 6678999999999999999999998 6688888743 333333 358999999999873
No 145
>KOG2899 consensus Predicted methyltransferase [General function prediction only]
Probab=96.15 E-value=0.0078 Score=49.91 Aligned_cols=54 Identities=20% Similarity=0.241 Sum_probs=43.2
Q ss_pred HHHHHhCC-CCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCCC
Q 047000 162 QKILEAYK-GFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPKY 215 (231)
Q Consensus 162 ~~~~~~~~-~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~~ 215 (231)
+..++.++ .|-....+|||||..|.+...|++.+-....+.+|+.+ -|..|+.+
T Consensus 46 D~rLk~L~~~~f~~~~~LDIGCNsG~lt~~iak~F~~r~iLGvDID~~LI~~Ark~ 101 (288)
T KOG2899|consen 46 DPRLKVLEKDWFEPKQALDIGCNSGFLTLSIAKDFGPRRILGVDIDPVLIQRARKE 101 (288)
T ss_pred ChhhhhccccccCcceeEeccCCcchhHHHHHHhhccceeeEeeccHHHHHHHHHh
Confidence 34555554 36677899999999999999999999999999999965 56677653
No 146
>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=96.14 E-value=0.0062 Score=55.14 Aligned_cols=61 Identities=18% Similarity=0.287 Sum_probs=47.2
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
+.+.+. ..+..+|+|+|||+|.++..+++.. -+++.+|. |..++.++.+ .+|+++.+|+.+
T Consensus 284 ~~~~l~-~~~~~~vLDl~cG~G~~sl~la~~~--~~V~~vE~~~~av~~a~~n~~~~~~~nv~~~~~d~~~ 351 (431)
T TIGR00479 284 ALEALE-LQGEELVVDAYCGVGTFTLPLAKQA--KSVVGIEVVPESVEKAQQNAELNGIANVEFLAGTLET 351 (431)
T ss_pred HHHHhc-cCCCCEEEEcCCCcCHHHHHHHHhC--CEEEEEEcCHHHHHHHHHHHHHhCCCceEEEeCCHHH
Confidence 334344 5566899999999999999999875 36899998 6677777652 679999999753
No 147
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=96.14 E-value=0.012 Score=45.62 Aligned_cols=56 Identities=23% Similarity=0.275 Sum_probs=44.3
Q ss_pred HHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 35 FEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 35 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
.-.|+..+.+++.|.++||+..+ + ++..|.++|..|...|+++-..+. +|.|.+..
T Consensus 14 L~~LA~~~~~~~~s~~~IA~~~~-i----s~~~L~kil~~L~kaGlV~S~rG~----~GGy~Lar 69 (150)
T COG1959 14 LLYLALLPGGGPVSSAEIAERQG-I----SPSYLEKILSKLRKAGLVKSVRGK----GGGYRLAR 69 (150)
T ss_pred HHHHHhCCCCCcccHHHHHHHhC-c----CHHHHHHHHHHHHHcCCEEeecCC----CCCccCCC
Confidence 33455443334899999999999 9 999999999999999999986432 57787755
No 148
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=96.11 E-value=0.012 Score=46.32 Aligned_cols=61 Identities=11% Similarity=0.139 Sum_probs=45.8
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccccCCCCCCchhhHHHHHh
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFVPNKDGSYRSQLKEAIT 121 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~~~~~~~~~~~L~~~l~ 121 (231)
++.|.++||+.++ + ++..|.++|..|...|++....+. +|.|.+.. +....+..++.+++.
T Consensus 24 ~~vs~~eIA~~~~-i----p~~~l~kIl~~L~~aGLv~s~rG~----~GGy~Lar-------~p~~Itl~dIl~aie 84 (164)
T PRK10857 24 GPVPLADISERQG-I----SLSYLEQLFSRLRKNGLVSSVRGP----GGGYLLGK-------DASSIAVGEVISAVD 84 (164)
T ss_pred CcCcHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEeCCCC----CCCeeccC-------CHHHCCHHHHHHHHc
Confidence 6999999999999 9 999999999999999999974221 46676543 332234555566664
No 149
>PF01135 PCMT: Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2.1.1.77 from EC) (PCMT) [] (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyses the transfer of a methyl group from S-adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerisation of normal L-aspartyl and L-asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process; PDB: 3LBF_A 1DL5_B 1JG3_B 1JG2_A 1JG1_A 1JG4_A 2YXE_A 2PBF_B 1VBF_C 1R18_A ....
Probab=96.09 E-value=0.0067 Score=49.59 Aligned_cols=67 Identities=21% Similarity=0.325 Sum_probs=47.8
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeec-hHHHhhCCCC------CCceEeecCCCCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQNVP 230 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~~~P 230 (231)
.+++.++ ..+..+|+|||+|+|.++..+++.. +.-+++.+|. |..++.|+.. .+|+++.||-....|
T Consensus 63 ~~l~~L~-l~pg~~VLeIGtGsGY~aAlla~lvg~~g~Vv~vE~~~~l~~~A~~~l~~~~~~nv~~~~gdg~~g~~ 137 (209)
T PF01135_consen 63 RMLEALD-LKPGDRVLEIGTGSGYQAALLAHLVGPVGRVVSVERDPELAERARRNLARLGIDNVEVVVGDGSEGWP 137 (209)
T ss_dssp HHHHHTT-C-TT-EEEEES-TTSHHHHHHHHHHSTTEEEEEEESBHHHHHHHHHHHHHHTTHSEEEEES-GGGTTG
T ss_pred HHHHHHh-cCCCCEEEEecCCCcHHHHHHHHhcCccceEEEECccHHHHHHHHHHHHHhccCceeEEEcchhhccc
Confidence 4566677 7888999999999999999998875 4445777885 6667777652 689999999776543
No 150
>PRK11760 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional
Probab=96.09 E-value=0.014 Score=51.00 Aligned_cols=57 Identities=21% Similarity=0.172 Sum_probs=49.6
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCCCCCceEeecCCCCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPKYPGVEHVGGDMFQNVP 230 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~~ri~~~~gDff~~~P 230 (231)
....++||||+++|.+...++++ +.+++.+|.-+..+.....+||+.+.+|-|...|
T Consensus 210 ~~g~~vlDLGAsPGGWT~~L~~r--G~~V~AVD~g~l~~~L~~~~~V~h~~~d~fr~~p 266 (357)
T PRK11760 210 APGMRAVDLGAAPGGWTYQLVRR--GMFVTAVDNGPMAQSLMDTGQVEHLRADGFKFRP 266 (357)
T ss_pred CCCCEEEEeCCCCcHHHHHHHHc--CCEEEEEechhcCHhhhCCCCEEEEeccCcccCC
Confidence 46789999999999999999998 6699999977766677778999999999988765
No 151
>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=96.08 E-value=0.017 Score=47.44 Aligned_cols=55 Identities=16% Similarity=0.212 Sum_probs=43.1
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhC---CC---------------CCCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHA---PK---------------YPGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a---~~---------------~~ri~~~~gDff~ 227 (231)
.....++++.|||.|+.+..|+++ +.+++++|+- .+|+.+ .. ..+|++..||||+
T Consensus 35 ~~~~~rvLvPgCG~g~D~~~La~~--G~~VvGvDls~~Ai~~~~~e~~~~~~~~~~~~~~~~~~~~i~~~~gDfF~ 108 (218)
T PF05724_consen 35 LKPGGRVLVPGCGKGYDMLWLAEQ--GHDVVGVDLSPTAIEQAFEENNLEPTVTSVGGFKRYQAGRITIYCGDFFE 108 (218)
T ss_dssp TSTSEEEEETTTTTSCHHHHHHHT--TEEEEEEES-HHHHHHHHHHCTTEEECTTCTTEEEETTSSEEEEES-TTT
T ss_pred CCCCCeEEEeCCCChHHHHHHHHC--CCeEEEEecCHHHHHHHHHHhccCCCcccccceeeecCCceEEEEccccc
Confidence 455679999999999999999998 6789999995 466554 11 1579999999998
No 152
>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=96.08 E-value=0.026 Score=46.74 Aligned_cols=55 Identities=16% Similarity=0.199 Sum_probs=39.7
Q ss_pred HHHHhCCCC-CCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH--HHhhCCCCCCce
Q 047000 163 KILEAYKGF-EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH--VIQHAPKYPGVE 219 (231)
Q Consensus 163 ~~~~~~~~~-~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~--vi~~a~~~~ri~ 219 (231)
.+++.++ . -...+++|||||+|.++..++++ +--+++.+|.-. .....+.++|+.
T Consensus 65 ~~l~~~~-~~~~~~~vlDiG~gtG~~t~~l~~~-ga~~v~avD~~~~~l~~~l~~~~~v~ 122 (228)
T TIGR00478 65 EALEEFN-IDVKNKIVLDVGSSTGGFTDCALQK-GAKEVYGVDVGYNQLAEKLRQDERVK 122 (228)
T ss_pred HHHHhcC-CCCCCCEEEEcccCCCHHHHHHHHc-CCCEEEEEeCCHHHHHHHHhcCCCee
Confidence 4555554 3 25679999999999999999987 455789999854 444556656654
No 153
>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=96.06 E-value=0.012 Score=44.59 Aligned_cols=46 Identities=13% Similarity=0.170 Sum_probs=38.4
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
++.|.++||+.++ + ++..++++|+.|...|++....+. +|.|.++.
T Consensus 24 ~~~s~~~ia~~~~-i----p~~~l~kil~~L~~~glv~s~~G~----~Ggy~l~~ 69 (135)
T TIGR02010 24 GPVTLADISERQG-I----SLSYLEQLFAKLRKAGLVKSVRGP----GGGYQLGR 69 (135)
T ss_pred CcCcHHHHHHHHC-c----CHHHHHHHHHHHHHCCceEEEeCC----CCCEeccC
Confidence 5899999999999 9 999999999999999999864221 45676654
No 154
>TIGR02085 meth_trns_rumB 23S rRNA (uracil-5-)-methyltransferase RumB. This family consists of RNA methyltransferases designated RumB, formerly YbjF. Members act on 23S rRNA U747 and the equivalent position in other proteobacterial species. This family is homologous to the other 23S rRNA methyltransferase RumA and to the tRNA methyltransferase TrmA.
Probab=96.04 E-value=0.0058 Score=54.34 Aligned_cols=52 Identities=12% Similarity=0.070 Sum_probs=41.6
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
..+|+|+|||+|.++..++.. ..+++.+|. |..++.++.+ ++++++.+|+.+
T Consensus 234 ~~~vLDL~cG~G~~~l~la~~--~~~v~~vE~~~~av~~a~~N~~~~~~~~~~~~~~d~~~ 292 (374)
T TIGR02085 234 VTQMWDLFCGVGGFGLHCAGP--DTQLTGIEIESEAIACAQQSAQMLGLDNLSFAALDSAK 292 (374)
T ss_pred CCEEEEccCCccHHHHHHhhc--CCeEEEEECCHHHHHHHHHHHHHcCCCcEEEEECCHHH
Confidence 468999999999999999964 467899997 5677766542 578999999754
No 155
>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=96.03 E-value=0.0046 Score=49.70 Aligned_cols=53 Identities=15% Similarity=-0.023 Sum_probs=41.7
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-------CCceEeecCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY-------PGVEHVGGDMFQ 227 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gDff~ 227 (231)
..+++|++||+|.++.+++++... +++.+|.. .+++.++.+ ++++++.+|.++
T Consensus 50 g~~vLDLfaGsG~lglea~srga~-~v~~vE~~~~a~~~~~~N~~~~~~~~~~~~~~~D~~~ 110 (189)
T TIGR00095 50 GAHLLDVFAGSGLLGEEALSRGAK-VAFLEEDDRKANQTLKENLALLKSGEQAEVVRNSALR 110 (189)
T ss_pred CCEEEEecCCCcHHHHHHHhCCCC-EEEEEeCCHHHHHHHHHHHHHhCCcccEEEEehhHHH
Confidence 578999999999999999999764 78888985 455554432 478899998854
No 156
>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=96.03 E-value=0.0092 Score=39.75 Aligned_cols=44 Identities=16% Similarity=0.298 Sum_probs=37.3
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|-+.|... +.+|..|||..++ + ++..++.+|+.|...|.+.+.
T Consensus 4 ~i~~~l~~~---~~~S~~eLa~~~~-~----s~~~ve~mL~~l~~kG~I~~~ 47 (69)
T PF09012_consen 4 EIRDYLRER---GRVSLAELAREFG-I----SPEAVEAMLEQLIRKGYIRKV 47 (69)
T ss_dssp HHHHHHHHS----SEEHHHHHHHTT-------HHHHHHHHHHHHCCTSCEEE
T ss_pred HHHHHHHHc---CCcCHHHHHHHHC-c----CHHHHHHHHHHHHHCCcEEEe
Confidence 356778776 5899999999999 9 999999999999999999985
No 157
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=96.02 E-value=0.0098 Score=45.35 Aligned_cols=55 Identities=20% Similarity=0.361 Sum_probs=39.6
Q ss_pred CCCCceEEEccCChhHHHHHHHHH----CCCCeEEEeech-HHHhhCCC---------CCCceEeecCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSK----YPHIKGINFDLP-HVIQHAPK---------YPGVEHVGGDM 225 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~----~P~l~~~v~Dlp-~vi~~a~~---------~~ri~~~~gDf 225 (231)
-.+..+|||+|||.|.++..++.. .|+++++.+|.- +.++.+.. ..++++..+++
T Consensus 23 ~~~~~~vvD~GsG~GyLs~~La~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ 91 (141)
T PF13679_consen 23 SKRCITVVDLGSGKGYLSRALAHLLCNSSPNLRVLGIDCNESLVESAQKRAQKLGSDLEKRLSFIQGDI 91 (141)
T ss_pred cCCCCEEEEeCCChhHHHHHHHHHHHhcCCCCeEEEEECCcHHHHHHHHHHHHhcchhhccchhhccch
Confidence 356899999999999999999992 289999999974 33333322 14566666554
No 158
>PF03848 TehB: Tellurite resistance protein TehB; InterPro: IPR015985 Tellurite resistance protein TehB is part of a tellurite-reducing operon tehA and tehB. When present in high copy number, TehB is responsible for potassium tellurite resistance, probably by increasing the reduction rate of tellurite to metallic tellurium within the bacterium. TehB is a cytoplasmic protein which possesses three conserved motifs (I, II, and III) found in S-adenosyl-L-methionine (SAM)-dependent non-nucleic acid methyltransferases []. Conformational changes in TehB are observed upon binding of both tellurite and SAM, suggesting that TehB utilises a methyltransferase activity in the detoxification of tellurite. This entry represents the methyltransferase domain found in all TehB proteins.; PDB: 2KW5_A 3MER_B 3M70_A 2I6G_A 4DQ0_D 2XVA_B 2XVM_A.
Probab=96.02 E-value=0.013 Score=47.21 Aligned_cols=64 Identities=14% Similarity=0.159 Sum_probs=43.9
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCC-----CCCceEeecCCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPK-----YPGVEHVGGDMFQN 228 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-----~~ri~~~~gDff~~ 228 (231)
+.+++.++ .-+..++||+|||.|..+.-|+++ +..++.+|..+ .++.++. .-.|+....|+.+.
T Consensus 20 s~v~~a~~-~~~~g~~LDlgcG~GRNalyLA~~--G~~VtAvD~s~~al~~l~~~a~~~~l~i~~~~~Dl~~~ 89 (192)
T PF03848_consen 20 SEVLEAVP-LLKPGKALDLGCGEGRNALYLASQ--GFDVTAVDISPVALEKLQRLAEEEGLDIRTRVADLNDF 89 (192)
T ss_dssp HHHHHHCT-TS-SSEEEEES-TTSHHHHHHHHT--T-EEEEEESSHHHHHHHHHHHHHTT-TEEEEE-BGCCB
T ss_pred HHHHHHHh-hcCCCcEEEcCCCCcHHHHHHHHC--CCeEEEEECCHHHHHHHHHHHhhcCceeEEEEecchhc
Confidence 35667777 556789999999999999999999 88899999854 4444332 12377777777653
No 159
>PRK13256 thiopurine S-methyltransferase; Reviewed
Probab=96.00 E-value=0.018 Score=47.54 Aligned_cols=55 Identities=15% Similarity=0.021 Sum_probs=44.2
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC------------------CCCceEeecCCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK------------------YPGVEHVGGDMFQN 228 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~------------------~~ri~~~~gDff~~ 228 (231)
....+|++.|||.|..+.-|++. +.+++.+|+. ..|+.+.. ..+|+++.+|||+-
T Consensus 42 ~~~~rvLvPgCGkg~D~~~LA~~--G~~V~GvDlS~~Ai~~~~~e~~~~~~~~~~~~~~~~~~~~i~~~~gD~f~l 115 (226)
T PRK13256 42 NDSSVCLIPMCGCSIDMLFFLSK--GVKVIGIELSEKAVLSFFSQNTINYEVIHGNDYKLYKGDDIEIYVADIFNL 115 (226)
T ss_pred CCCCeEEEeCCCChHHHHHHHhC--CCcEEEEecCHHHHHHHHHHcCCCcceecccccceeccCceEEEEccCcCC
Confidence 34579999999999999999997 7789999995 45555311 25899999999985
No 160
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=95.99 E-value=0.0095 Score=36.15 Aligned_cols=40 Identities=20% Similarity=0.182 Sum_probs=35.5
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCccccc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGL 97 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~ 97 (231)
++|..+||+.++ + +...+.+.|+.|...|+++.. .+.|.+
T Consensus 8 ~~s~~~la~~l~-~----s~~tv~~~l~~L~~~g~l~~~-------~~~~~i 47 (48)
T smart00419 8 PLTRQEIAELLG-L----TRETVSRTLKRLEKEGLISRE-------GGRIVI 47 (48)
T ss_pred ccCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEe-------CCEEEE
Confidence 789999999999 9 999999999999999999873 456654
No 161
>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=95.96 E-value=0.011 Score=38.53 Aligned_cols=44 Identities=23% Similarity=0.268 Sum_probs=38.5
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
.++|..+||+.+| + +...+.++|+.|...|++... . .+.|.+++
T Consensus 24 ~~~s~~ela~~~g-~----s~~tv~r~l~~L~~~g~i~~~---~---~~~~~l~~ 67 (67)
T cd00092 24 LPLTRQEIADYLG-L----TRETVSRTLKELEEEGLISRR---G---RGKYRVNP 67 (67)
T ss_pred CCcCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEec---C---CCeEEeCC
Confidence 5899999999999 9 999999999999999999984 1 26787764
No 162
>PTZ00146 fibrillarin; Provisional
Probab=95.96 E-value=0.02 Score=49.04 Aligned_cols=58 Identities=16% Similarity=0.206 Sum_probs=45.3
Q ss_pred CCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeechH-----HHhhCCCCCCceEeecCCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDLPH-----VIQHAPKYPGVEHVGGDMFQN 228 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp~-----vi~~a~~~~ri~~~~gDff~~ 228 (231)
+....+|||+|||+|.++..+++.. |.=+++.+|..+ .++.++..++|.++.+|...+
T Consensus 130 IkpG~~VLDLGaG~G~~t~~lAdiVG~~G~VyAVD~s~r~~~dLl~~ak~r~NI~~I~~Da~~p 193 (293)
T PTZ00146 130 IKPGSKVLYLGAASGTTVSHVSDLVGPEGVVYAVEFSHRSGRDLTNMAKKRPNIVPIIEDARYP 193 (293)
T ss_pred cCCCCEEEEeCCcCCHHHHHHHHHhCCCCEEEEEECcHHHHHHHHHHhhhcCCCEEEECCccCh
Confidence 5667899999999999999999987 345788899754 445555557888888887653
No 163
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=95.93 E-value=0.0069 Score=46.38 Aligned_cols=63 Identities=21% Similarity=0.328 Sum_probs=44.8
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCe-EEEeec-hHHHhhCCCC-----CCceEeecCCCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIK-GINFDL-PHVIQHAPKY-----PGVEHVGGDMFQNV 229 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff~~~ 229 (231)
+-..|++++ .+.+.|+|||.|.++ ++-.+|..+ ++++|+ |++++....+ -.|.+...|+.+..
T Consensus 40 Ih~TygdiE-gkkl~DLgcgcGmLs--~a~sm~~~e~vlGfDIdpeALEIf~rNaeEfEvqidlLqcdildle 109 (185)
T KOG3420|consen 40 IHNTYGDIE-GKKLKDLGCGCGMLS--IAFSMPKNESVLGFDIDPEALEIFTRNAEEFEVQIDLLQCDILDLE 109 (185)
T ss_pred HHhhhcccc-CcchhhhcCchhhhH--HHhhcCCCceEEeeecCHHHHHHHhhchHHhhhhhheeeeeccchh
Confidence 334555354 478999999999998 666778876 799998 5677776654 35666666666543
No 164
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=95.93 E-value=0.016 Score=50.64 Aligned_cols=61 Identities=15% Similarity=0.038 Sum_probs=45.1
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
++.... +.+..+|+|+|||+|.++.+.+.. +.+++..|. |..+..++.+ +.+.++.+|+.+
T Consensus 174 ~~~l~~-~~~g~~vLDp~cGtG~~lieaa~~--~~~v~g~Di~~~~~~~a~~nl~~~g~~~i~~~~~D~~~ 241 (329)
T TIGR01177 174 MVNLAR-VTEGDRVLDPFCGTGGFLIEAGLM--GAKVIGCDIDWKMVAGARINLEHYGIEDFFVKRGDATK 241 (329)
T ss_pred HHHHhC-CCCcCEEEECCCCCCHHHHHHHHh--CCeEEEEcCCHHHHHHHHHHHHHhCCCCCeEEecchhc
Confidence 333344 667789999999999999887654 678899998 4566655432 448888899875
No 165
>PRK00536 speE spermidine synthase; Provisional
Probab=95.91 E-value=0.0092 Score=50.43 Aligned_cols=49 Identities=6% Similarity=0.047 Sum_probs=40.5
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC----------CCceEee
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY----------PGVEHVG 222 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~----------~ri~~~~ 222 (231)
+..++||=||||.|..+++++|. |. +++.+|+. .|++.++++ +|++++.
T Consensus 71 ~~pk~VLIiGGGDGg~~REvLkh-~~-~v~mVeID~~Vv~~~k~~lP~~~~~~~DpRv~l~~ 130 (262)
T PRK00536 71 KELKEVLIVDGFDLELAHQLFKY-DT-HVDFVQADEKILDSFISFFPHFHEVKNNKNFTHAK 130 (262)
T ss_pred CCCCeEEEEcCCchHHHHHHHCc-CC-eeEEEECCHHHHHHHHHHCHHHHHhhcCCCEEEee
Confidence 46899999999999999999988 55 99999985 588777662 7777765
No 166
>COG2227 UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]
Probab=95.89 E-value=0.0074 Score=49.94 Aligned_cols=41 Identities=17% Similarity=0.034 Sum_probs=34.3
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY 215 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~ 215 (231)
...+|||||||-|.++..+++.. .+++..|+- ..|+.|+.+
T Consensus 59 ~g~~vLDvGCGgG~Lse~mAr~G--a~VtgiD~se~~I~~Ak~h 100 (243)
T COG2227 59 PGLRVLDVGCGGGILSEPLARLG--ASVTGIDASEKPIEVAKLH 100 (243)
T ss_pred CCCeEEEecCCccHhhHHHHHCC--CeeEEecCChHHHHHHHHh
Confidence 35789999999999999999995 889999974 577777654
No 167
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=95.87 E-value=0.018 Score=43.15 Aligned_cols=46 Identities=26% Similarity=0.278 Sum_probs=38.0
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
++.|.++||+.++ + ++..++++|+.|...|++....+. .|.|.++.
T Consensus 24 ~~~s~~eia~~~~-i----~~~~v~~il~~L~~~gli~~~~g~----~ggy~l~~ 69 (132)
T TIGR00738 24 GPVSVKEIAERQG-I----SRSYLEKILRTLRRAGLVESVRGP----GGGYRLAR 69 (132)
T ss_pred CcCcHHHHHHHHC-c----CHHHHHHHHHHHHHCCcEEeccCC----CCCccCCC
Confidence 5999999999999 9 999999999999999999864211 35676644
No 168
>PF01728 FtsJ: FtsJ-like methyltransferase; InterPro: IPR002877 RrmJ (FtsJ) is a well conserved heat shock protein present in prokaryotes, archaea, and eukaryotes. RrmJ is responsible for methylating 23 S rRNA at position U2552 in the aminoacyl (A)1-site of the ribosome []. U2552 is one of the five universally conserved A-loop residues and has been shown to be methylated at the ribose 2'-OH group in the majority of organisms investigated so far. This suggests that this modification plays an important role in the A-loop function. RrmJ recognises its methylation target only when the 23 S rRNA is present in 50 S ribosomal subunits. This suggests that the RrmJ-mediated methylation must occur late in the maturation process of the ribosome. This is in contrast to other known 23 S rRNA modifications that occur in earlier maturation steps. The 1.5 A crystal structure of RrmJ in complex with its cofactor S-adenosylmethionine revealed that RrmJ has a methyltransferase fold. The active site of RrmJ appears to be formed by a catalytic triad consisting of two lysine residues and the negatively charged aspartate residue. Another highly conserved glutamate residue that is present in the active site of RrmJ appears to play only a minor role in the methyltransfer reaction in vivo []. ; GO: 0003676 nucleic acid binding, 0008168 methyltransferase activity, 0032259 methylation; PDB: 3GCZ_A 2PLW_A 2NYU_A 2OXT_C 3EMD_A 3ELY_A 3ELW_A 3ELU_A 3ELD_A 3EMB_A ....
Probab=95.81 E-value=0.0061 Score=48.28 Aligned_cols=47 Identities=21% Similarity=0.280 Sum_probs=36.6
Q ss_pred HHHHHhCCCCC--CCceEEEccCChhHHHHHHHHHC-CCCeEEEeechHH
Q 047000 162 QKILEAYKGFE--HIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDLPHV 208 (231)
Q Consensus 162 ~~~~~~~~~~~--~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp~v 208 (231)
..+.+.|+-++ +..++||+|+++|.++..++++. +..+++.+|+...
T Consensus 10 ~ei~~~~~~~~~~~~~~vlDlG~aPGGws~~~~~~~~~~~~v~avDl~~~ 59 (181)
T PF01728_consen 10 YEIDEKFKIFKPGKGFTVLDLGAAPGGWSQVLLQRGGPAGRVVAVDLGPM 59 (181)
T ss_dssp HHHHHTTSSS-TTTTEEEEEET-TTSHHHHHHHTSTTTEEEEEEEESSST
T ss_pred HHHHHHCCCCCcccccEEEEcCCcccceeeeeeecccccceEEEEecccc
Confidence 35556666333 45999999999999999999998 7888999998655
No 169
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=95.77 E-value=0.012 Score=40.12 Aligned_cols=46 Identities=15% Similarity=0.180 Sum_probs=38.0
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN 102 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~ 102 (231)
++.+..+|+..++ + +...+.+.|..|...|+++.. ++.|.+|+.+.
T Consensus 18 ~~~~~t~i~~~~~-L----~~~~~~~yL~~L~~~gLI~~~-------~~~Y~lTekG~ 63 (77)
T PF14947_consen 18 GGAKKTEIMYKAN-L----NYSTLKKYLKELEEKGLIKKK-------DGKYRLTEKGK 63 (77)
T ss_dssp T-B-HHHHHTTST-------HHHHHHHHHHHHHTTSEEEE-------TTEEEE-HHHH
T ss_pred CCCCHHHHHHHhC-c----CHHHHHHHHHHHHHCcCeeCC-------CCEEEECccHH
Confidence 6899999999999 9 999999999999999999762 78999999986
No 170
>PRK11727 23S rRNA mA1618 methyltransferase; Provisional
Probab=95.69 E-value=0.013 Score=50.89 Aligned_cols=49 Identities=10% Similarity=0.043 Sum_probs=39.3
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC--------CCceEe
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY--------PGVEHV 221 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~--------~ri~~~ 221 (231)
...++||||||+|.+..-++.+.|+.+++..|+. .+++.|+.+ +||++.
T Consensus 114 ~~~~vLDIGtGag~I~~lLa~~~~~~~~~atDId~~Al~~A~~Nv~~Np~l~~~I~~~ 171 (321)
T PRK11727 114 ANVRVLDIGVGANCIYPLIGVHEYGWRFVGSDIDPQALASAQAIISANPGLNGAIRLR 171 (321)
T ss_pred CCceEEEecCCccHHHHHHHhhCCCCEEEEEeCCHHHHHHHHHHHHhccCCcCcEEEE
Confidence 4588999999999999889999999999999984 566665531 477775
No 171
>PF01564 Spermine_synth: Spermine/spermidine synthase; InterPro: IPR001045 Synonym(s): Spermidine aminopropyltransferase A group of polyamine biosynthetic enzymes involved in the fifth (last) step in the biosynthesis of spermidine from arginine and methionine which includes; spermidine synthase (2.5.1.16 from EC), spermine synthase (2.5.1.22 from EC) and putrescine N-methyltransferase (2.1.1.53 from EC) []. The Thermotoga maritima spermidine synthase monomer consists of two domains: an N-terminal domain composed of six beta-strands, and a Rossmann-like C- terminal domain []. The larger C-terminal catalytic core domain consists of a seven-stranded beta-sheet flanked by nine alpha helices. This domain resembles a topology observed in a number of nucleotide and dinucleotide-binding enzymes, and in S-adenosyl-L-methionine (AdoMet)- dependent methyltransferase (MTases) [].; GO: 0003824 catalytic activity; PDB: 2E5W_C 2ZSU_E 2O0L_B 2O05_B 2O06_B 2O07_B 3RW9_B 2PWP_A 2HTE_B 3RIE_B ....
Probab=95.63 E-value=0.0086 Score=50.18 Aligned_cols=55 Identities=24% Similarity=0.306 Sum_probs=42.8
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----------CCCceEeecCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK----------YPGVEHVGGDMF 226 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----------~~ri~~~~gDff 226 (231)
++.++||=||||.|..++++++..|-.+++++|+ |.|++.++. .+|++++.+|-+
T Consensus 75 ~~p~~VLiiGgG~G~~~~ell~~~~~~~i~~VEiD~~Vv~~a~~~f~~~~~~~~d~r~~i~~~Dg~ 140 (246)
T PF01564_consen 75 PNPKRVLIIGGGDGGTARELLKHPPVESITVVEIDPEVVELARKYFPEFSEGLDDPRVRIIIGDGR 140 (246)
T ss_dssp SST-EEEEEESTTSHHHHHHTTSTT-SEEEEEES-HHHHHHHHHHTHHHHTTGGSTTEEEEESTHH
T ss_pred CCcCceEEEcCCChhhhhhhhhcCCcceEEEEecChHHHHHHHHhchhhccccCCCceEEEEhhhH
Confidence 3689999999999999999998777788999998 457777654 268888877743
No 172
>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=95.59 E-value=0.013 Score=47.66 Aligned_cols=65 Identities=20% Similarity=0.287 Sum_probs=40.7
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC---------------CCCceEeecCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK---------------YPGVEHVGGDMF 226 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~---------------~~ri~~~~gDff 226 (231)
.+++.+. ......++|+|+|.|....+.+-.++--+++++++- ...+.+.. ..++++..|||.
T Consensus 33 ~il~~~~-l~~~dvF~DlGSG~G~~v~~aal~~~~~~~~GIEi~~~~~~~a~~~~~~~~~~~~~~g~~~~~v~l~~gdfl 111 (205)
T PF08123_consen 33 KILDELN-LTPDDVFYDLGSGVGNVVFQAALQTGCKKSVGIEILPELHDLAEELLEELKKRMKHYGKRPGKVELIHGDFL 111 (205)
T ss_dssp HHHHHTT---TT-EEEEES-TTSHHHHHHHHHH--SEEEEEE-SHHHHHHHHHHHHHHHHHHHHCTB---EEEEECS-TT
T ss_pred HHHHHhC-CCCCCEEEECCCCCCHHHHHHHHHcCCcEEEEEEechHHHHHHHHHHHHHHHHHHHhhcccccceeeccCcc
Confidence 4455566 667889999999999999998888766669999973 33322221 267899999998
Q ss_pred CC
Q 047000 227 QN 228 (231)
Q Consensus 227 ~~ 228 (231)
++
T Consensus 112 ~~ 113 (205)
T PF08123_consen 112 DP 113 (205)
T ss_dssp TH
T ss_pred cc
Confidence 63
No 173
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=95.54 E-value=0.02 Score=36.80 Aligned_cols=50 Identities=22% Similarity=0.284 Sum_probs=40.5
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
.++.|+-.|...++ ..+|..+||+.++ + ++..+.++++.|...|++++..
T Consensus 6 ~q~~vL~~l~~~~~-~~~t~~~la~~l~-~----~~~~vs~~v~~L~~~Glv~r~~ 55 (62)
T PF12802_consen 6 SQFRVLMALARHPG-EELTQSELAERLG-I----SKSTVSRIVKRLEKKGLVERER 55 (62)
T ss_dssp HHHHHHHHHHHSTT-SGEEHHHHHHHHT-S-----HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHHHCCC-CCcCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEeC
Confidence 35567777877531 1289999999999 9 9999999999999999999864
No 174
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=95.53 E-value=0.014 Score=40.09 Aligned_cols=62 Identities=21% Similarity=0.290 Sum_probs=48.1
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCc----ccccchhhc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQR----LYGLNDVSN 102 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~----~y~~t~~s~ 102 (231)
++++|...|... +.++..+|.+.++ + +...|.+-|..|...|+++....-. ++ .|++|+.++
T Consensus 1 vRl~Il~~L~~~---~~~~f~~L~~~l~-l----t~g~Ls~hL~~Le~~GyV~~~k~~~---~~~p~t~~~lT~~Gr 66 (80)
T PF13601_consen 1 VRLAILALLYAN---EEATFSELKEELG-L----TDGNLSKHLKKLEEAGYVEVEKEFE---GRRPRTWYSLTDKGR 66 (80)
T ss_dssp HHHHHHHHHHHH---SEEEHHHHHHHTT-------HHHHHHHHHHHHHTTSEEEEEE-S---SS--EEEEEE-HHHH
T ss_pred CHHHHHHHHhhc---CCCCHHHHHHHhC-c----CHHHHHHHHHHHHHCCCEEEEEecc---CCCCeEEEEECHHHH
Confidence 478888899876 5899999999999 9 9999999999999999999753211 12 388888775
No 175
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=95.51 E-value=0.042 Score=40.42 Aligned_cols=68 Identities=15% Similarity=0.117 Sum_probs=51.9
Q ss_pred HHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCc-Ccccccchhhcccc
Q 047000 29 VIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDS-QRLYGLNDVSNYFV 105 (231)
Q Consensus 29 a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~-~~~y~~t~~s~~L~ 105 (231)
..++.|+..|... +++|..+||+.++ + +...+.++++-|...|++++..... +. .-.+.+|+.+..+.
T Consensus 28 ~~q~~iL~~l~~~---~~~t~~ela~~~~-~----~~~tvs~~l~~Le~~GlI~r~~~~~-D~R~~~v~LT~~G~~~~ 96 (118)
T TIGR02337 28 EQQWRILRILAEQ---GSMEFTQLANQAC-I----LRPSLTGILARLERDGLVTRLKASN-DQRRVYISLTPKGQALY 96 (118)
T ss_pred HHHHHHHHHHHHc---CCcCHHHHHHHhC-C----CchhHHHHHHHHHHCCCEEeccCCC-CCCeeEEEECHhHHHHH
Confidence 4455677888775 5899999999999 9 9999999999999999999864211 10 12588888887444
No 176
>PF01795 Methyltransf_5: MraW methylase family; InterPro: IPR002903 This is a family of S-adenosyl-L-methionine-dependent methyltransferases, which are found primarily, though not exclusively, in bacteria. The Escherichia coli protein is essential and has been linked to peptidoglycan biosynthesis [, ].; GO: 0008168 methyltransferase activity; PDB: 1N2X_A 1M6Y_A 1WG8_A 3TKA_A.
Probab=95.50 E-value=0.033 Score=48.11 Aligned_cols=64 Identities=25% Similarity=0.246 Sum_probs=46.9
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-----CCceEeecCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-----PGVEHVGGDMF 226 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff 226 (231)
..+++.+. -.....+||.==|.|.++.+|++++|+.+.+.+|. |.+++.+++. +|+.++.++|=
T Consensus 10 ~Evl~~L~-~~~~g~~vD~T~G~GGHS~aiL~~~~~~~li~~DrD~~a~~~a~~~l~~~~~r~~~~~~~F~ 79 (310)
T PF01795_consen 10 KEVLEALN-PKPGGIYVDCTFGGGGHSKAILEKLPNGRLIGIDRDPEALERAKERLKKFDDRFIFIHGNFS 79 (310)
T ss_dssp HHHHHHHT---TT-EEEETT-TTSHHHHHHHHT-TT-EEEEEES-HHHHHHHHCCTCCCCTTEEEEES-GG
T ss_pred HHHHHhhC-cCCCceEEeecCCcHHHHHHHHHhCCCCeEEEecCCHHHHHHHHHHHhhccceEEEEeccHH
Confidence 45666665 56678999999999999999999999999999998 5677666542 89999998873
No 177
>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase. This family consists exclusively of proteins believed to act as tRNA (uracil-5-)-methyltransferase. All members of far are proteobacterial. The seed alignment was taken directly from pfam05958 in Pfam 12.0, but higher cutoffs are used to select only functionally equivalent proteins. Homologous proteins excluded by the higher cutoff scores of this model include other uracil methyltransferases, such as RumA, active on rRNA.
Probab=95.49 E-value=0.011 Score=52.14 Aligned_cols=51 Identities=12% Similarity=0.115 Sum_probs=41.3
Q ss_pred ceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 175 QQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 175 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
.+++|++||+|.++..+++... +++.+|. ++.++.++++ ++++++.+|..+
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 3699999999999999998874 7899997 5677776653 578999988754
No 178
>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=95.49 E-value=0.026 Score=42.32 Aligned_cols=62 Identities=19% Similarity=0.172 Sum_probs=46.1
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccccCCCCCCchhhHHHHHhc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFVPNKDGSYRSQLKEAITE 122 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~~~~~~~~~~~L~~~l~~ 122 (231)
++.|..+||++++ + ++..+.++|+.|...|++...... .|.|.+.. +.......++.+.+..
T Consensus 24 ~~~s~~eia~~l~-i----s~~~v~~~l~~L~~~Gli~~~~g~----~ggy~l~~-------~~~~it~~~v~~~l~~ 85 (130)
T TIGR02944 24 QPYSAAEIAEQTG-L----NAPTVSKILKQLSLAGIVTSKRGV----EGGYTLAR-------APRDITVADIVKAVEG 85 (130)
T ss_pred CCccHHHHHHHHC-c----CHHHHHHHHHHHHHCCcEEecCCC----CCChhhcC-------CccccCHHHHHHHHcC
Confidence 6899999999999 9 999999999999999999864211 45676643 2222336666676653
No 179
>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=95.48 E-value=0.021 Score=41.34 Aligned_cols=43 Identities=23% Similarity=0.293 Sum_probs=30.8
Q ss_pred hHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec
Q 047000 160 VIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL 205 (231)
Q Consensus 160 ~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl 205 (231)
...-|-..+. -.....+||||||.|.+.--|.+. +.+|.++|.
T Consensus 46 Li~LW~~~~~-~~~~~~FVDlGCGNGLLV~IL~~E--Gy~G~GiD~ 88 (112)
T PF07757_consen 46 LIELWRDMYG-EQKFQGFVDLGCGNGLLVYILNSE--GYPGWGIDA 88 (112)
T ss_pred HHHHHhcccC-CCCCCceEEccCCchHHHHHHHhC--CCCcccccc
Confidence 3334444444 245788999999999988777766 667888886
No 180
>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]
Probab=95.37 E-value=0.011 Score=49.63 Aligned_cols=40 Identities=15% Similarity=0.111 Sum_probs=33.0
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY 215 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~ 215 (231)
..+|||||||.|.++..|++.. ..++..|.- ..|+.|+++
T Consensus 90 g~~ilDvGCGgGLLSepLArlg--a~V~GID~s~~~V~vA~~h 130 (282)
T KOG1270|consen 90 GMKILDVGCGGGLLSEPLARLG--AQVTGIDASDDMVEVANEH 130 (282)
T ss_pred CceEEEeccCccccchhhHhhC--CeeEeecccHHHHHHHHHh
Confidence 3779999999999999999985 668888974 577777664
No 181
>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=95.34 E-value=0.0058 Score=47.88 Aligned_cols=51 Identities=16% Similarity=0.325 Sum_probs=38.2
Q ss_pred ceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC-------CCCceEeecCCCC
Q 047000 175 QQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 175 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gDff~ 227 (231)
.+|+|+-||.|..++++++.+.. ++.+|+. .-++.++. .+||+++.||+++
T Consensus 1 ~~vlD~fcG~GGNtIqFA~~~~~--Viaidid~~~~~~a~hNa~vYGv~~~I~~i~gD~~~ 59 (163)
T PF09445_consen 1 TTVLDAFCGVGGNTIQFARTFDR--VIAIDIDPERLECAKHNAEVYGVADNIDFICGDFFE 59 (163)
T ss_dssp SEEEETT-TTSHHHHHHHHTT-E--EEEEES-HHHHHHHHHHHHHTT-GGGEEEEES-HHH
T ss_pred CEEEEeccCcCHHHHHHHHhCCe--EEEEECCHHHHHHHHHHHHHcCCCCcEEEEeCCHHH
Confidence 47999999999999999999755 7778874 45555543 2799999999986
No 182
>TIGR00006 S-adenosyl-methyltransferase MraW. Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.
Probab=95.29 E-value=0.047 Score=47.16 Aligned_cols=64 Identities=19% Similarity=0.231 Sum_probs=50.9
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC----C-CCceEeecCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK----Y-PGVEHVGGDMF 226 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----~-~ri~~~~gDff 226 (231)
..+++.+. -.....+||.=.|.|.++.+++++.|+.+.+.+|. |.+++.+++ + +|++++.++|-
T Consensus 10 ~Evl~~L~-~~~ggiyVD~TlG~GGHS~~iL~~l~~g~vigiD~D~~Al~~ak~~L~~~~~R~~~i~~nF~ 79 (305)
T TIGR00006 10 DEVVEGLN-IKPDGIYIDCTLGFGGHSKAILEQLGTGRLIGIDRDPQAIAFAKERLSDFEGRVVLIHDNFA 79 (305)
T ss_pred HHHHHhcC-cCCCCEEEEeCCCChHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHhhcCCcEEEEeCCHH
Confidence 35556555 45567999999999999999999998889999998 567766654 2 68999988874
No 183
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=95.25 E-value=0.023 Score=52.64 Aligned_cols=53 Identities=9% Similarity=0.088 Sum_probs=39.7
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech--HHHhhCCC-----CCCceEeecCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP--HVIQHAPK-----YPGVEHVGGDM 225 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp--~vi~~a~~-----~~ri~~~~gDf 225 (231)
+...+||||||.|.++.++++++|+..++++|.- .+...++. ..++.++.+|+
T Consensus 347 ~~p~~lEIG~G~G~~~~~~A~~~p~~~~iGiE~~~~~~~~~~~~~~~~~l~N~~~~~~~~ 406 (506)
T PRK01544 347 KRKVFLEIGFGMGEHFINQAKMNPDALFIGVEVYLNGVANVLKLAGEQNITNFLLFPNNL 406 (506)
T ss_pred CCceEEEECCCchHHHHHHHHhCCCCCEEEEEeeHHHHHHHHHHHHHcCCCeEEEEcCCH
Confidence 4689999999999999999999999999999973 33332222 24555665553
No 184
>KOG0820 consensus Ribosomal RNA adenine dimethylase [RNA processing and modification]
Probab=95.23 E-value=0.1 Score=44.14 Aligned_cols=67 Identities=18% Similarity=0.347 Sum_probs=50.5
Q ss_pred HHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-h----HHHhhCCCC---CCceEeecCCCCC-CC
Q 047000 161 IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-P----HVIQHAPKY---PGVEHVGGDMFQN-VP 230 (231)
Q Consensus 161 ~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p----~vi~~a~~~---~ri~~~~gDff~~-~P 230 (231)
+..++..-+ ......|+.||.|+|.+...++++ .-+++.+++ | ++-+..+.. ...+++.|||++- .|
T Consensus 47 ~~~I~~ka~-~k~tD~VLEvGPGTGnLT~~lLe~--~kkVvA~E~Dprmvael~krv~gtp~~~kLqV~~gD~lK~d~P 122 (315)
T KOG0820|consen 47 IDQIVEKAD-LKPTDVVLEVGPGTGNLTVKLLEA--GKKVVAVEIDPRMVAELEKRVQGTPKSGKLQVLHGDFLKTDLP 122 (315)
T ss_pred HHHHHhccC-CCCCCEEEEeCCCCCHHHHHHHHh--cCeEEEEecCcHHHHHHHHHhcCCCccceeeEEecccccCCCc
Confidence 445666666 777889999999999999999999 566777776 2 333333433 6899999999984 55
No 185
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=95.09 E-value=0.047 Score=40.76 Aligned_cols=47 Identities=21% Similarity=0.254 Sum_probs=40.8
Q ss_pred hhChHHHHH-hcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 31 GLGVFEIIA-KAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 31 ~lglfd~L~-~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
+..++.+|- .+ +|.|.++||+.++ . +...+.|-|+-|...|++.+.+
T Consensus 29 Dv~v~~~LL~~~---~~~tvdelae~ln-r----~rStv~rsl~~L~~~GlV~Rek 76 (126)
T COG3355 29 DVEVYKALLEEN---GPLTVDELAEILN-R----SRSTVYRSLQNLLEAGLVEREK 76 (126)
T ss_pred HHHHHHHHHhhc---CCcCHHHHHHHHC-c----cHHHHHHHHHHHHHcCCeeeee
Confidence 445777776 44 7999999999999 8 9999999999999999999864
No 186
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=95.09 E-value=0.016 Score=51.40 Aligned_cols=51 Identities=12% Similarity=0.111 Sum_probs=40.9
Q ss_pred ceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 175 QQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 175 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
.+++|++||+|.++..+++... +++.+|. +..++.++++ ++++++.+|.++
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 4699999999999999998864 7899997 4566666542 578999998754
No 187
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=95.08 E-value=0.06 Score=43.83 Aligned_cols=65 Identities=14% Similarity=0.280 Sum_probs=49.5
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC------CCCceEeecCCCCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK------YPGVEHVGGDMFQNVP 230 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~------~~ri~~~~gDff~~~P 230 (231)
.+++.++ .+...+||+||+|+|..+.-+++--- +++.+|+ ++.++.|+. +.+|.++.||=.+.+|
T Consensus 63 ~m~~~L~-~~~g~~VLEIGtGsGY~aAvla~l~~--~V~siEr~~~L~~~A~~~L~~lg~~nV~v~~gDG~~G~~ 134 (209)
T COG2518 63 RMLQLLE-LKPGDRVLEIGTGSGYQAAVLARLVG--RVVSIERIEELAEQARRNLETLGYENVTVRHGDGSKGWP 134 (209)
T ss_pred HHHHHhC-CCCCCeEEEECCCchHHHHHHHHHhC--eEEEEEEcHHHHHHHHHHHHHcCCCceEEEECCcccCCC
Confidence 3455666 77889999999999999988888755 7777886 445555654 2569999999887655
No 188
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=95.03 E-value=0.025 Score=36.04 Aligned_cols=47 Identities=17% Similarity=0.324 Sum_probs=40.1
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
++.+...|... +++|..+||+.++ + +...+.++++.|...|++++..
T Consensus 5 q~~iL~~l~~~---~~~~~~~la~~~~-~----~~~~~t~~i~~L~~~g~I~r~~ 51 (59)
T PF01047_consen 5 QFRILRILYEN---GGITQSELAEKLG-I----SRSTVTRIIKRLEKKGLIERER 51 (59)
T ss_dssp HHHHHHHHHHH---SSEEHHHHHHHHT-S-----HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHHHc---CCCCHHHHHHHHC-C----ChhHHHHHHHHHHHCCCEEecc
Confidence 45566677776 5899999999999 9 9999999999999999999864
No 189
>PF08003 Methyltransf_9: Protein of unknown function (DUF1698); InterPro: IPR010017 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This entry represents a set of bacterial AdoMet-dependent tRNA (mo5U34)-methyltransferases. These enzymes catalyse the conversion of 5-hydroxyuridine (ho5U) to 5-methoxyuridine (mo5U) at the wobble position (34) of tRNA []. The 5-methoxyuridine is subsequently converted to uridine-5-oxyacetic acid, a modified nucleoside that is apparently necessary for the efficient decoding of G-ending Pro, Ala, and Val codons in these organisms [].; GO: 0016300 tRNA (uracil) methyltransferase activity, 0002098 tRNA wobble uridine modification
Probab=95.02 E-value=0.04 Score=47.36 Aligned_cols=41 Identities=15% Similarity=0.190 Sum_probs=30.4
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL 205 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl 205 (231)
.+...++.+ ..++|+|||||.|.++..++++.|. .++++|-
T Consensus 106 rl~p~l~~L-~gk~VLDIGC~nGY~~frM~~~GA~-~ViGiDP 146 (315)
T PF08003_consen 106 RLLPHLPDL-KGKRVLDIGCNNGYYSFRMLGRGAK-SVIGIDP 146 (315)
T ss_pred HHHhhhCCc-CCCEEEEecCCCcHHHHHHhhcCCC-EEEEECC
Confidence 344444324 3589999999999999999999665 3677774
No 190
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=94.95 E-value=0.056 Score=37.85 Aligned_cols=47 Identities=26% Similarity=0.340 Sum_probs=41.4
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.++.|+..|... +++|..+||+.++ + ++..+.+.++-|...|++++.
T Consensus 11 ~~~~il~~l~~~---~~~~~~~la~~~~-~----s~~~i~~~l~~L~~~g~v~~~ 57 (101)
T smart00347 11 TQFLVLRILYEE---GPLSVSELAKRLG-V----SPSTVTRVLDRLEKKGLIRRL 57 (101)
T ss_pred HHHHHHHHHHHc---CCcCHHHHHHHHC-C----CchhHHHHHHHHHHCCCeEec
Confidence 356778888775 4799999999999 9 999999999999999999974
No 191
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=94.94 E-value=0.093 Score=42.63 Aligned_cols=71 Identities=21% Similarity=0.270 Sum_probs=51.3
Q ss_pred HhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeechHHHhhCCCCCCceEeecCCCCC
Q 047000 154 YNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDLPHVIQHAPKYPGVEHVGGDMFQN 228 (231)
Q Consensus 154 ~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp~vi~~a~~~~ri~~~~gDff~~ 228 (231)
++.+.+-...+.+.|.-+++...|+|+|...|..+.-+++.- ++-+++.+|+-+. ...+.|.++.+||+.+
T Consensus 26 RSRAa~KL~el~~k~~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ivavDi~p~----~~~~~V~~iq~d~~~~ 97 (205)
T COG0293 26 RSRAAYKLLELNEKFKLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGKIVAVDILPM----KPIPGVIFLQGDITDE 97 (205)
T ss_pred cchHHHHHHHHHHhcCeecCCCEEEEcCCCCCcHHHHHHHHhCCCCcEEEEECccc----ccCCCceEEeeeccCc
Confidence 334444445666767657889999999999999999887775 4466899997432 3335588888888864
No 192
>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=94.88 E-value=0.029 Score=44.35 Aligned_cols=56 Identities=13% Similarity=0.015 Sum_probs=36.8
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCC---------CCCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPK---------YPGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~---------~~ri~~~~gDff~ 227 (231)
.+..+|+++|+|.|..++.+++.++..++++-|.+++++..+. ..++++.+.|--+
T Consensus 44 ~~~~~VLELGaG~Gl~gi~~a~~~~~~~Vv~TD~~~~l~~l~~Ni~~N~~~~~~~v~v~~L~Wg~ 108 (173)
T PF10294_consen 44 FRGKRVLELGAGTGLPGIAAAKLFGAARVVLTDYNEVLELLRRNIELNGSLLDGRVSVRPLDWGD 108 (173)
T ss_dssp TTTSEEEETT-TTSHHHHHHHHT-T-SEEEEEE-S-HHHHHHHHHHTT--------EEEE--TTS
T ss_pred cCCceEEEECCccchhHHHHHhccCCceEEEeccchhhHHHHHHHHhccccccccccCcEEEecC
Confidence 3578999999999999999999988889999999987765432 1567777766543
No 193
>KOG1541 consensus Predicted protein carboxyl methylase [General function prediction only]
Probab=94.88 E-value=0.021 Score=46.84 Aligned_cols=40 Identities=18% Similarity=0.312 Sum_probs=31.8
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK 214 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~ 214 (231)
...-|||||||+|..+..+... +...+.+|. |+.++.|.+
T Consensus 50 ~~~~iLDIGCGsGLSg~vL~~~--Gh~wiGvDiSpsML~~a~~ 90 (270)
T KOG1541|consen 50 KSGLILDIGCGSGLSGSVLSDS--GHQWIGVDISPSMLEQAVE 90 (270)
T ss_pred CCcEEEEeccCCCcchheeccC--CceEEeecCCHHHHHHHHH
Confidence 3789999999999988877665 577899997 567776653
No 194
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=94.83 E-value=0.12 Score=43.48 Aligned_cols=66 Identities=21% Similarity=0.411 Sum_probs=47.5
Q ss_pred HHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec--hHHHhhCC-CCCCceEeecCCCC
Q 047000 161 IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL--PHVIQHAP-KYPGVEHVGGDMFQ 227 (231)
Q Consensus 161 ~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl--p~vi~~a~-~~~ri~~~~gDff~ 227 (231)
...+++..+ -.....|+.||+|.|.+...++++...+.++=.|. -+++.... ..++++.+.||+.+
T Consensus 19 ~~kIv~~a~-~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~~l~~~L~~~~~~~~n~~vi~~DaLk 87 (259)
T COG0030 19 IDKIVEAAN-ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDRRLAEVLKERFAPYDNLTVINGDALK 87 (259)
T ss_pred HHHHHHhcC-CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCHHHHHHHHHhcccccceEEEeCchhc
Confidence 456667666 55578999999999999999999977744444442 12333322 35899999999986
No 195
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=94.81 E-value=0.023 Score=50.99 Aligned_cols=54 Identities=13% Similarity=0.147 Sum_probs=41.5
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC--------CCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY--------PGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~--------~ri~~~~gDff~ 227 (231)
...+|||+|||+|.++.+.+.. ...+++.+|+. ..++.++++ ++++++.+|.|+
T Consensus 220 ~g~rVLDlfsgtG~~~l~aa~~-ga~~V~~VD~s~~al~~a~~N~~~Ngl~~~~v~~i~~D~~~ 282 (396)
T PRK15128 220 ENKRVLNCFSYTGGFAVSALMG-GCSQVVSVDTSQEALDIARQNVELNKLDLSKAEFVRDDVFK 282 (396)
T ss_pred CCCeEEEeccCCCHHHHHHHhC-CCCEEEEEECCHHHHHHHHHHHHHcCCCCCcEEEEEccHHH
Confidence 4689999999999998877653 34579999984 466555542 378999999886
No 196
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=94.74 E-value=0.053 Score=40.11 Aligned_cols=56 Identities=16% Similarity=0.234 Sum_probs=48.9
Q ss_pred hHHHHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 21 VLPMAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 21 ~~~~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
-...+|.--.++.|+..|... ++.++.||++.++ + .+..+.+-|+.|...|+++..
T Consensus 8 ~~fkaLadptRl~IL~~L~~~---~~~~v~ela~~l~-l----sqstvS~HL~~L~~AGLV~~~ 63 (117)
T PRK10141 8 QLFKILSDETRLGIVLLLRES---GELCVCDLCTALD-Q----SQPKISRHLALLRESGLLLDR 63 (117)
T ss_pred HHHHHhCCHHHHHHHHHHHHc---CCcCHHHHHHHHC-c----CHHHHHHHHHHHHHCCceEEE
Confidence 345667777889999999864 5899999999999 9 999999999999999999975
No 197
>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=94.70 E-value=0.031 Score=45.54 Aligned_cols=52 Identities=15% Similarity=0.003 Sum_probs=38.4
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEeecCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY------PGVEHVGGDMF 226 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gDff 226 (231)
...+|+|+|||+|.++..+++..+ +++..|+. ..++.++.. .++++..+|+.
T Consensus 45 ~~~~vLdlG~G~G~~~~~l~~~~~--~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~d~~ 103 (224)
T TIGR01983 45 FGLRVLDVGCGGGLLSEPLARLGA--NVTGIDASEENIEVAKLHAKKDPLLKIEYRCTSVE 103 (224)
T ss_pred CCCeEEEECCCCCHHHHHHHhcCC--eEEEEeCCHHHHHHHHHHHHHcCCCceEEEeCCHH
Confidence 367899999999999999988754 58899985 455555431 25777777654
No 198
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=94.69 E-value=0.068 Score=35.32 Aligned_cols=60 Identities=13% Similarity=0.195 Sum_probs=45.0
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCC-CCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATK-NKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN 102 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~-~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~ 102 (231)
|.+.|.+.+ +|++..+|++.+. .. ....+..++|-|+.|-..|++.+. + .+.+.+|+.+.
T Consensus 3 IL~~L~~~~--~P~g~~~l~~~L~-~~g~~~se~avRrrLr~me~~Glt~~~---g---~~G~~iT~~G~ 63 (66)
T PF08461_consen 3 ILRILAESD--KPLGRKQLAEELK-LRGEELSEEAVRRRLRAMERDGLTRKV---G---RQGRIITEKGL 63 (66)
T ss_pred HHHHHHHcC--CCCCHHHHHHHHH-hcChhhhHHHHHHHHHHHHHCCCcccc---C---CcccccCHHHH
Confidence 567888765 8999999999987 41 111468999999999999977763 2 34567887764
No 199
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=94.69 E-value=0.046 Score=42.41 Aligned_cols=46 Identities=20% Similarity=0.134 Sum_probs=39.6
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
++.|.++||+..+ + ++..|+++|..|...|+++-..+. .|.|.++.
T Consensus 23 ~~~s~~eIA~~~~-i----s~~~L~kIl~~L~~aGlv~S~rG~----~GGy~La~ 68 (153)
T PRK11920 23 KLSRIPEIARAYG-V----SELFLFKILQPLVEAGLVETVRGR----NGGVRLGR 68 (153)
T ss_pred CcCcHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEeecCC----CCCeeecC
Confidence 5789999999999 9 999999999999999999986422 57787654
No 200
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=94.66 E-value=0.071 Score=33.87 Aligned_cols=42 Identities=21% Similarity=0.347 Sum_probs=36.7
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
|+..|.. ++.|..+|++.++ + +...+.+.++.|...|++...
T Consensus 2 il~~l~~----~~~~~~~i~~~l~-i----s~~~v~~~l~~L~~~g~i~~~ 43 (66)
T smart00418 2 ILKLLAE----GELCVCELAEILG-L----SQSTVSHHLKKLREAGLVESR 43 (66)
T ss_pred HHHHhhc----CCccHHHHHHHHC-C----CHHHHHHHHHHHHHCCCeeee
Confidence 4555653 5899999999999 9 999999999999999999974
No 201
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=94.65 E-value=0.025 Score=54.40 Aligned_cols=54 Identities=7% Similarity=0.065 Sum_probs=43.3
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC--------CCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY--------PGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~--------~ri~~~~gDff~ 227 (231)
..++|||+|||+|.++..+++. ...+++.+|.. ..++.++++ ++++++.+|.|+
T Consensus 538 ~g~rVLDlf~gtG~~sl~aa~~-Ga~~V~~vD~s~~al~~a~~N~~~ng~~~~~v~~i~~D~~~ 600 (702)
T PRK11783 538 KGKDFLNLFAYTGTASVHAALG-GAKSTTTVDMSNTYLEWAERNFALNGLSGRQHRLIQADCLA 600 (702)
T ss_pred CCCeEEEcCCCCCHHHHHHHHC-CCCEEEEEeCCHHHHHHHHHHHHHhCCCccceEEEEccHHH
Confidence 4689999999999999999986 33469999984 566666542 489999999875
No 202
>KOG1499 consensus Protein arginine N-methyltransferase PRMT1 and related enzymes [Posttranslational modification, protein turnover, chaperones; Transcription; Signal transduction mechanisms]
Probab=94.64 E-value=0.036 Score=48.29 Aligned_cols=54 Identities=15% Similarity=0.069 Sum_probs=42.4
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCC-------CCCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~-------~~ri~~~~gDff~ 227 (231)
+.++|+|||||+|.+++-.+++. -.++..+|--.+++.+.+ .+.|+++.|..-+
T Consensus 60 ~dK~VlDVGcGtGILS~F~akAG-A~~V~aVe~S~ia~~a~~iv~~N~~~~ii~vi~gkvEd 120 (346)
T KOG1499|consen 60 KDKTVLDVGCGTGILSMFAAKAG-ARKVYAVEASSIADFARKIVKDNGLEDVITVIKGKVED 120 (346)
T ss_pred CCCEEEEcCCCccHHHHHHHHhC-cceEEEEechHHHHHHHHHHHhcCccceEEEeecceEE
Confidence 46899999999999999999997 667888998877766554 1567777775543
No 203
>KOG3115 consensus Methyltransferase-like protein [General function prediction only]
Probab=94.63 E-value=0.016 Score=46.88 Aligned_cols=33 Identities=18% Similarity=0.413 Sum_probs=29.9
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeech
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP 206 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp 206 (231)
-.-++|||||.|.+++.+.-.||+.-.+++++-
T Consensus 61 kvefaDIGCGyGGLlv~Lsp~fPdtLiLGmEIR 93 (249)
T KOG3115|consen 61 KVEFADIGCGYGGLLMKLAPKFPDTLILGMEIR 93 (249)
T ss_pred cceEEeeccCccchhhhccccCccceeeeehhh
Confidence 367999999999999999999999998888874
No 204
>PF07381 DUF1495: Winged helix DNA-binding domain (DUF1495); InterPro: IPR010863 This family consists of several hypothetical archaeal proteins of around 110 residues in length. The function of this family is unknown, although one sequence (Q8U3W1 from SWISSPROT) is described as a putative HTH transcription regulator.
Probab=94.61 E-value=0.074 Score=37.40 Aligned_cols=68 Identities=21% Similarity=0.166 Sum_probs=52.2
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHH----------HHhCCcc-cccccCCCCcCcccc
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRL----------LASHSAV-ECSIDDADDSQRLYG 96 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~----------L~~~g~l-~~~~~~~~~~~~~y~ 96 (231)
.-++..|+..|....| .+.++.|||..++ + ++..+.-.|+- |+.+|++ .+....+ ...|+
T Consensus 8 S~~R~~vl~~L~~~yp-~~~~~~eIar~v~-~----~~snV~GaL~G~g~rY~~e~SLv~lGLV~~~~~~~g---~k~Y~ 78 (90)
T PF07381_consen 8 SKVRKKVLEYLCSIYP-EPAYPSEIARSVG-S----DYSNVLGALRGDGKRYNKEDSLVGLGLVEEEEEKGG---FKYYR 78 (90)
T ss_pred HHHHHHHHHHHHHcCC-CcCCHHHHHHHHC-C----CHHHHHHHHhcCCCCcCcchhHHHcCCeeEeeecCC---eeEEE
Confidence 5678889999988744 6999999999999 9 99988777764 8999999 4322111 34799
Q ss_pred cchhhccc
Q 047000 97 LNDVSNYF 104 (231)
Q Consensus 97 ~t~~s~~L 104 (231)
+|+.+..+
T Consensus 79 lT~~G~~~ 86 (90)
T PF07381_consen 79 LTEKGKRI 86 (90)
T ss_pred eChhhhhH
Confidence 99987643
No 205
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=94.55 E-value=0.034 Score=45.28 Aligned_cols=55 Identities=15% Similarity=0.241 Sum_probs=43.2
Q ss_pred CCCceEEEccCChhHHHHHHHHHCC-CCeEEEeech-HHHhhCCC-------CCCceEeecCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDLP-HVIQHAPK-------YPGVEHVGGDMF 226 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gDff 226 (231)
.+.++||+||++.|.-++.+++..| +.+.+.+|.. +-.+.|++ .+||+++.||..
T Consensus 44 ~~~k~vLEIGt~~GySal~la~~l~~~g~i~tiE~~~~~~~~A~~~~~~ag~~~~I~~~~gda~ 107 (205)
T PF01596_consen 44 TRPKRVLEIGTFTGYSALWLAEALPEDGKITTIEIDPERAEIARENFRKAGLDDRIEVIEGDAL 107 (205)
T ss_dssp HT-SEEEEESTTTSHHHHHHHHTSTTTSEEEEEESSHHHHHHHHHHHHHTTGGGGEEEEES-HH
T ss_pred cCCceEEEeccccccHHHHHHHhhcccceEEEecCcHHHHHHHHHHHHhcCCCCcEEEEEeccH
Confidence 3588999999999999999999987 5889999985 45555544 278999998864
No 206
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=94.51 E-value=0.1 Score=41.49 Aligned_cols=45 Identities=18% Similarity=0.222 Sum_probs=40.8
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
..|+++|... +++|.++||+.+| + +...++++|..|...|++...
T Consensus 25 ~~Vl~~L~~~---g~~tdeeLA~~Lg-i----~~~~VRk~L~~L~e~gLv~~~ 69 (178)
T PRK06266 25 FEVLKALIKK---GEVTDEEIAEQTG-I----KLNTVRKILYKLYDARLADYK 69 (178)
T ss_pred hHHHHHHHHc---CCcCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCeEEe
Confidence 4488999886 5899999999999 9 999999999999999999953
No 207
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=94.39 E-value=0.064 Score=48.85 Aligned_cols=57 Identities=11% Similarity=0.045 Sum_probs=43.4
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeech-HHHhhCCCC------CCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDLP-HVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gDff~ 227 (231)
.....+|+|+|||+|..+..+++..+ .-+++.+|+. ..++.++++ ++|+++.+|..+
T Consensus 248 ~~~g~~VLDlgaG~G~kt~~la~~~~~~~~V~avD~s~~~l~~~~~~~~~~g~~~v~~~~~Da~~ 312 (445)
T PRK14904 248 PQPGSTVLDLCAAPGGKSTFMAELMQNRGQITAVDRYPQKLEKIRSHASALGITIIETIEGDARS 312 (445)
T ss_pred CCCCCEEEEECCCCCHHHHHHHHHhCCCcEEEEEECCHHHHHHHHHHHHHhCCCeEEEEeCcccc
Confidence 44568999999999999999988764 4578999984 455555432 568899888765
No 208
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=94.38 E-value=0.077 Score=40.43 Aligned_cols=50 Identities=18% Similarity=0.151 Sum_probs=43.6
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFV 105 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~ 105 (231)
++.+..+||+.++ + ++..+.+.++.|...|++.+. . .+.|.+|+.+..+.
T Consensus 21 ~~~~~~ela~~l~-v----s~~svs~~l~~L~~~Gli~~~--~----~~~i~LT~~G~~~a 70 (142)
T PRK03902 21 GYARVSDIAEALS-V----HPSSVTKMVQKLDKDEYLIYE--K----YRGLVLTPKGKKIG 70 (142)
T ss_pred CCcCHHHHHHHhC-C----ChhHHHHHHHHHHHCCCEEEe--c----CceEEECHHHHHHH
Confidence 6899999999999 9 999999999999999999863 2 46799999987544
No 209
>COG4262 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]
Probab=94.38 E-value=0.066 Score=47.11 Aligned_cols=55 Identities=31% Similarity=0.508 Sum_probs=45.2
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCC-eEEEeec-hHHHhhCCC-------------CCCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHI-KGINFDL-PHVIQHAPK-------------YPGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l-~~~v~Dl-p~vi~~a~~-------------~~ri~~~~gDff~ 227 (231)
.+..+++-+|||.|..+++++| ||+. +++.+|+ |.+|+-++. .+|++.+.-|-|+
T Consensus 288 ~~a~~vLvlGGGDGLAlRellk-yP~~~qI~lVdLDP~miela~~~~vlr~~N~~sf~dpRv~Vv~dDAf~ 357 (508)
T COG4262 288 RGARSVLVLGGGDGLALRELLK-YPQVEQITLVDLDPRMIELASHATVLRALNQGSFSDPRVTVVNDDAFQ 357 (508)
T ss_pred cccceEEEEcCCchHHHHHHHh-CCCcceEEEEecCHHHHHHhhhhhHhhhhccCCccCCeeEEEeccHHH
Confidence 4678999999999999999875 7865 5899998 678888773 1899999888775
No 210
>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=94.34 E-value=0.073 Score=43.19 Aligned_cols=31 Identities=13% Similarity=0.221 Sum_probs=27.5
Q ss_pred eEEEccCChhHHHHHHHHHCCCCeEEEeech
Q 047000 176 QLVDVGGCLGNTLKAITSKYPHIKGINFDLP 206 (231)
Q Consensus 176 ~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp 206 (231)
+||.||+|+|.++..+++++|+++.--=|.+
T Consensus 28 ~vLEiaSGtGqHa~~FA~~lP~l~WqPSD~~ 58 (204)
T PF06080_consen 28 RVLEIASGTGQHAVYFAQALPHLTWQPSDPD 58 (204)
T ss_pred eEEEEcCCccHHHHHHHHHCCCCEEcCCCCC
Confidence 5999999999999999999999987655654
No 211
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=94.33 E-value=0.059 Score=35.16 Aligned_cols=45 Identities=27% Similarity=0.257 Sum_probs=37.5
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|.+.|.... +|++..|||+.+| + +....+++|..|...|.+++.
T Consensus 4 ~Il~~i~~~~--~p~~T~eiA~~~g-l----s~~~aR~yL~~Le~eG~V~~~ 48 (62)
T PF04703_consen 4 KILEYIKEQN--GPLKTREIADALG-L----SIYQARYYLEKLEKEGKVERS 48 (62)
T ss_dssp CHHHHHHHHT--S-EEHHHHHHHHT-S-----HHHHHHHHHHHHHCTSEEEE
T ss_pred HHHHHHHHcC--CCCCHHHHHHHhC-C----CHHHHHHHHHHHHHCCCEEEe
Confidence 4667777632 6999999999999 9 999999999999999999975
No 212
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=94.33 E-value=0.1 Score=31.90 Aligned_cols=43 Identities=26% Similarity=0.384 Sum_probs=37.8
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
|++.|... ++.+..+|++.++ + ++..+.+.|..|...|++.+.
T Consensus 5 il~~l~~~---~~~s~~~l~~~l~-~----s~~tv~~~l~~L~~~g~i~~~ 47 (53)
T smart00420 5 ILELLAQQ---GKVSVEELAELLG-V----SEMTIRRDLNKLEEQGLLTRV 47 (53)
T ss_pred HHHHHHHc---CCcCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEe
Confidence 56666654 5799999999999 9 999999999999999999974
No 213
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=94.30 E-value=0.075 Score=43.07 Aligned_cols=59 Identities=25% Similarity=0.305 Sum_probs=47.7
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchh
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDV 100 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~ 100 (231)
.++.|...|... ++++..+||+.++ + ++..+.+.|..|...|++.+... . ...|.+|+.
T Consensus 144 ~~~~IL~~l~~~---g~~s~~eia~~l~-i----s~stv~r~L~~Le~~GlI~r~~~-r---~~~~~lT~~ 202 (203)
T TIGR01884 144 EELKVLEVLKAE---GEKSVKNIAKKLG-K----SLSTISRHLRELEKKGLVEQKGR-K---GKRYSLTKL 202 (203)
T ss_pred HHHHHHHHHHHc---CCcCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEEcC-C---ccEEEeCCC
Confidence 345677888775 4799999999999 9 99999999999999999998521 1 356777765
No 214
>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=94.27 E-value=0.083 Score=42.82 Aligned_cols=65 Identities=18% Similarity=0.272 Sum_probs=50.0
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccccc-CCCCcCc----ccccchhhcccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSID-DADDSQR----LYGLNDVSNYFV 105 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~-~~~~~~~----~y~~t~~s~~L~ 105 (231)
+..|+..|... +++|..+||+.++ + ++..+.+.|+.|...|++++... .+ .| .|.+|+.+..+.
T Consensus 3 r~~IL~~L~~~---~~~t~~eLA~~lg-i----s~~tV~~~L~~Le~~GlV~r~~~~~~---~gRp~~~y~LT~~G~~~~ 71 (203)
T TIGR02702 3 KEDILSYLLKQ---GQATAAALAEALA-I----SPQAVRRHLKDLETEGLIEYEAVVQG---MGRPQYHYQLSRQGREQF 71 (203)
T ss_pred HHHHHHHHHHc---CCCCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCeEEeecccC---CCCCceEEEECcchhhhc
Confidence 34577778765 5899999999999 9 99999999999999999987521 11 22 378888886443
Q ss_pred C
Q 047000 106 P 106 (231)
Q Consensus 106 ~ 106 (231)
.
T Consensus 72 ~ 72 (203)
T TIGR02702 72 P 72 (203)
T ss_pred c
Confidence 3
No 215
>PLN02476 O-methyltransferase
Probab=94.25 E-value=0.03 Score=47.74 Aligned_cols=57 Identities=16% Similarity=0.142 Sum_probs=46.2
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeech-HHHhhCCCC-------CCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDLP-HVIQHAPKY-------PGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gDff~ 227 (231)
..+.+++|+||.++|..++.+++..| +-+.+-+|.. +.++.|+++ ++|+++.||..+
T Consensus 116 ~~~ak~VLEIGT~tGySal~lA~al~~~G~V~TiE~d~e~~~~Ar~n~~~aGl~~~I~li~GdA~e 181 (278)
T PLN02476 116 ILGAERCIEVGVYTGYSSLAVALVLPESGCLVACERDSNSLEVAKRYYELAGVSHKVNVKHGLAAE 181 (278)
T ss_pred hcCCCeEEEecCCCCHHHHHHHHhCCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEEcCHHH
Confidence 45689999999999999999999876 5678999985 455666542 799999998765
No 216
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=94.24 E-value=0.13 Score=42.26 Aligned_cols=51 Identities=14% Similarity=0.030 Sum_probs=36.6
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCC-----CCCceEeecCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPK-----YPGVEHVGGDM 225 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~-----~~ri~~~~gDf 225 (231)
+..+|||||||.|.++..+++. ..+++..|.. ..++.++. ..+++++.+|+
T Consensus 48 ~~~~vLdiG~G~G~~~~~l~~~--~~~v~~iD~s~~~~~~a~~~~~~~~~~~~~~~~~~ 104 (233)
T PRK05134 48 FGKRVLDVGCGGGILSESMARL--GADVTGIDASEENIEVARLHALESGLKIDYRQTTA 104 (233)
T ss_pred CCCeEEEeCCCCCHHHHHHHHc--CCeEEEEcCCHHHHHHHHHHHHHcCCceEEEecCH
Confidence 4678999999999999999886 4678999985 34444432 13456666554
No 217
>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=94.19 E-value=0.078 Score=45.27 Aligned_cols=57 Identities=16% Similarity=0.207 Sum_probs=45.5
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCC--CeEEEeec-hHHHhhCCC------CCC-ceEeecCCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPH--IKGINFDL-PHVIQHAPK------YPG-VEHVGGDMFQN 228 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~--l~~~v~Dl-p~vi~~a~~------~~r-i~~~~gDff~~ 228 (231)
....+||||.||+|.+...+++.+|. .++.+.|. |.-++..+. ... ++|..+|-|..
T Consensus 134 g~pvrIlDIAaG~GRYvlDal~~~~~~~~~i~LrDys~~Nv~~g~~li~~~gL~~i~~f~~~dAfd~ 200 (311)
T PF12147_consen 134 GRPVRILDIAAGHGRYVLDALEKHPERPDSILLRDYSPINVEKGRALIAERGLEDIARFEQGDAFDR 200 (311)
T ss_pred CCceEEEEeccCCcHHHHHHHHhCCCCCceEEEEeCCHHHHHHHHHHHHHcCCccceEEEecCCCCH
Confidence 36789999999999999999999998 77888887 445555443 244 49999999964
No 218
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=94.16 E-value=0.072 Score=40.59 Aligned_cols=46 Identities=13% Similarity=0.072 Sum_probs=39.0
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
.+.|..+||+..+ + ++..++++|+.|...|+++..++. +|.|.+..
T Consensus 24 ~~~s~~~ia~~~~-i----s~~~vrk~l~~L~~~Glv~s~~G~----~GG~~l~~ 69 (141)
T PRK11014 24 RMTSISEVTEVYG-V----SRNHMVKIINQLSRAGYVTAVRGK----NGGIRLGK 69 (141)
T ss_pred CccCHHHHHHHHC-c----CHHHHHHHHHHHHhCCEEEEecCC----CCCeeecC
Confidence 6889999999999 9 999999999999999999986422 46676653
No 219
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=94.00 E-value=0.13 Score=39.22 Aligned_cols=63 Identities=24% Similarity=0.180 Sum_probs=47.8
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCc---ccccchhhccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQR---LYGLNDVSNYF 104 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~---~y~~t~~s~~L 104 (231)
++.|+-.|... +++|..+||+.++ + ++..+.+++.-|...|++++..... ++ .+.+|+.+..+
T Consensus 42 q~~vL~~l~~~---~~~t~~eLa~~l~-i----~~~tvsr~l~~Le~~GlI~R~~~~~---DrR~~~l~LT~~G~~~ 107 (144)
T PRK11512 42 QFKVLCSIRCA---ACITPVELKKVLS-V----DLGALTRMLDRLVCKGWVERLPNPN---DKRGVLVKLTTSGAAI 107 (144)
T ss_pred HHHHHHHHHHc---CCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEeccCcc---cCCeeEeEEChhHHHH
Confidence 34456677654 5899999999999 9 9999999999999999999864211 22 25667766643
No 220
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=93.92 E-value=0.11 Score=37.48 Aligned_cols=46 Identities=20% Similarity=0.351 Sum_probs=41.7
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
.+..|+..|..+ +++|..+||+.+| + ++..+.+.++.|...|++..
T Consensus 4 ~D~~il~~L~~~---~~~~~~~la~~l~-~----s~~tv~~~l~~L~~~g~i~~ 49 (108)
T smart00344 4 IDRKILEELQKD---ARISLAELAKKVG-L----SPSTVHNRVKRLEEEGVIKG 49 (108)
T ss_pred HHHHHHHHHHHh---CCCCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCeec
Confidence 467788899886 5899999999999 9 99999999999999999984
No 221
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=93.83 E-value=0.079 Score=48.09 Aligned_cols=63 Identities=8% Similarity=0.035 Sum_probs=46.6
Q ss_pred HHHhCCCCCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 164 ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 164 ~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
+...++ .....+|+|+|||+|..+..+++... .-+++.+|. ++.++.++++ ..|+++.+|..+
T Consensus 244 ~~~~l~-~~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~rl~~~~~n~~r~g~~~v~~~~~D~~~ 314 (434)
T PRK14901 244 VAPLLD-PQPGEVILDACAAPGGKTTHIAELMGDQGEIWAVDRSASRLKKLQENAQRLGLKSIKILAADSRN 314 (434)
T ss_pred HHHHhC-CCCcCEEEEeCCCCchhHHHHHHHhCCCceEEEEcCCHHHHHHHHHHHHHcCCCeEEEEeCChhh
Confidence 334454 45678999999999999999999864 468899998 4566555432 468888888753
No 222
>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=93.78 E-value=0.24 Score=33.76 Aligned_cols=49 Identities=16% Similarity=0.102 Sum_probs=41.3
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN 102 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~ 102 (231)
.|+...+||+.++ + ++.-++..|..|..+|+++..++. .+.|..|..+-
T Consensus 22 ~PVgSk~ia~~l~-~----s~aTIRN~M~~Le~lGlve~~p~~----s~GriPT~~aY 70 (78)
T PF03444_consen 22 EPVGSKTIAEELG-R----SPATIRNEMADLEELGLVESQPHP----SGGRIPTDKAY 70 (78)
T ss_pred CCcCHHHHHHHHC-C----ChHHHHHHHHHHHHCCCccCCCCC----CCCCCcCHHHH
Confidence 7999999999999 9 999999999999999999864322 46677777764
No 223
>KOG1500 consensus Protein arginine N-methyltransferase CARM1 [Posttranslational modification, protein turnover, chaperones; Transcription]
Probab=93.77 E-value=0.084 Score=45.96 Aligned_cols=55 Identities=18% Similarity=0.119 Sum_probs=40.9
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCC-------CCCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~-------~~ri~~~~gDff~ 227 (231)
|. .+.|||||+|+|.++.-.+++- .-++..++-.+..+-|+. .+||.+++|-+=+
T Consensus 176 F~-~kiVlDVGaGSGILS~FAaqAG-A~~vYAvEAS~MAqyA~~Lv~~N~~~~rItVI~GKiEd 237 (517)
T KOG1500|consen 176 FQ-DKIVLDVGAGSGILSFFAAQAG-AKKVYAVEASEMAQYARKLVASNNLADRITVIPGKIED 237 (517)
T ss_pred cC-CcEEEEecCCccHHHHHHHHhC-cceEEEEehhHHHHHHHHHHhcCCccceEEEccCcccc
Confidence 64 4789999999999988777773 334667777666666554 2899999997654
No 224
>KOG3010 consensus Methyltransferase [General function prediction only]
Probab=93.74 E-value=0.068 Score=44.38 Aligned_cols=41 Identities=24% Similarity=0.286 Sum_probs=32.4
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY 215 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~ 215 (231)
+.+.++|||||+|..++.++..|-+ +|..|.- ..++.++++
T Consensus 33 ~h~~a~DvG~G~Gqa~~~iae~~k~--VIatD~s~~mL~~a~k~ 74 (261)
T KOG3010|consen 33 GHRLAWDVGTGNGQAARGIAEHYKE--VIATDVSEAMLKVAKKH 74 (261)
T ss_pred CcceEEEeccCCCcchHHHHHhhhh--heeecCCHHHHHHhhcC
Confidence 4459999999999888888888665 6778874 577777765
No 225
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=93.73 E-value=0.087 Score=47.82 Aligned_cols=60 Identities=20% Similarity=0.123 Sum_probs=45.2
Q ss_pred HhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeech-HHHhhCCCC------CCceEeecCCC
Q 047000 166 EAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDLP-HVIQHAPKY------PGVEHVGGDMF 226 (231)
Q Consensus 166 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gDff 226 (231)
...+ .....+|+|+|||+|..+..+++.. +.-+++.+|+. ..++.++++ ..|+++.+|..
T Consensus 231 ~~l~-~~~g~~VLD~cagpGgkt~~la~~~~~~g~V~a~Dis~~rl~~~~~n~~r~g~~~v~~~~~Da~ 298 (431)
T PRK14903 231 LLME-LEPGLRVLDTCAAPGGKTTAIAELMKDQGKILAVDISREKIQLVEKHAKRLKLSSIEIKIADAE 298 (431)
T ss_pred HHhC-CCCCCEEEEeCCCccHHHHHHHHHcCCCCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchh
Confidence 3444 5567899999999999999999886 56789999984 455555432 45788888864
No 226
>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=93.72 E-value=0.13 Score=32.85 Aligned_cols=44 Identities=20% Similarity=0.390 Sum_probs=39.7
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|.+.|... +.+|.++||+.++ + ++.-++|=|..|...|++.+.
T Consensus 4 ~Il~~l~~~---~~~s~~ela~~~~-V----S~~TiRRDl~~L~~~g~i~r~ 47 (57)
T PF08220_consen 4 QILELLKEK---GKVSVKELAEEFG-V----SEMTIRRDLNKLEKQGLIKRT 47 (57)
T ss_pred HHHHHHHHc---CCEEHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEE
Confidence 367788776 6999999999999 9 999999999999999999984
No 227
>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=93.71 E-value=0.13 Score=33.72 Aligned_cols=57 Identities=25% Similarity=0.397 Sum_probs=43.6
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
+..|+..+.. ++.+..+|++.++ + +...+.+.|+.|...|++....... ...|.+|+
T Consensus 9 ~~~il~~l~~----~~~~~~ei~~~~~-i----~~~~i~~~l~~L~~~g~i~~~~~~~---~~~~~~~~ 65 (78)
T cd00090 9 RLRILRLLLE----GPLTVSELAERLG-L----SQSTVSRHLKKLEEAGLVESRREGR---RVYYSLTD 65 (78)
T ss_pred HHHHHHHHHH----CCcCHHHHHHHHC-c----CHhHHHHHHHHHHHCCCeEEEEecc---EEEEEeCC
Confidence 4456777776 3599999999999 9 9999999999999999999742110 24566664
No 228
>PHA00738 putative HTH transcription regulator
Probab=93.69 E-value=0.13 Score=37.32 Aligned_cols=48 Identities=27% Similarity=0.263 Sum_probs=43.1
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
.++.|++.|... +++++.+|++.++ + ....+.+-|+.|...|+++...
T Consensus 13 tRr~IL~lL~~~---e~~~V~eLae~l~-l----SQptVS~HLKvLreAGLV~srK 60 (108)
T PHA00738 13 LRRKILELIAEN---YILSASLISHTLL-L----SYTTVLRHLKILNEQGYIELYK 60 (108)
T ss_pred HHHHHHHHHHHc---CCccHHHHHHhhC-C----CHHHHHHHHHHHHHCCceEEEE
Confidence 577899999873 4799999999999 9 9999999999999999999853
No 229
>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=93.67 E-value=0.071 Score=42.40 Aligned_cols=65 Identities=15% Similarity=0.106 Sum_probs=45.0
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCe---------EEEeec-hHHHhhCCCC-------CCceEeecC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIK---------GINFDL-PHVIQHAPKY-------PGVEHVGGD 224 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~---------~~v~Dl-p~vi~~a~~~-------~ri~~~~gD 224 (231)
..++.... |.+...|+|-=||+|+++++.+...++.. ++..|. +..++.++.+ ..|.+...|
T Consensus 18 ~~ll~la~-~~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D 96 (179)
T PF01170_consen 18 AALLNLAG-WRPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWD 96 (179)
T ss_dssp HHHHHHTT---TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--
T ss_pred HHHHHHhC-CCCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecc
Confidence 34455555 77788999999999999999988888877 899997 4566665542 568888888
Q ss_pred CCC
Q 047000 225 MFQ 227 (231)
Q Consensus 225 ff~ 227 (231)
+++
T Consensus 97 ~~~ 99 (179)
T PF01170_consen 97 ARE 99 (179)
T ss_dssp GGG
T ss_pred hhh
Confidence 875
No 230
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=93.58 E-value=0.094 Score=36.74 Aligned_cols=63 Identities=17% Similarity=0.274 Sum_probs=45.5
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhC-CCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQL-PATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFV 105 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~-g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~ 105 (231)
|...|.. ++....||.+.+ + + ++..|.+-|+.|...|++++......+..-.|++|+.+..|.
T Consensus 10 IL~~l~~----g~~rf~el~~~l~~-i----s~~~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G~~l~ 73 (90)
T PF01638_consen 10 ILRALFQ----GPMRFSELQRRLPG-I----SPKVLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKGKELL 73 (90)
T ss_dssp HHHHHTT----SSEEHHHHHHHSTT-S-----HHHHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHHHHHH
T ss_pred HHHHHHh----CCCcHHHHHHhcch-h----HHHHHHHHHHHHHHcchhhcccccCCCCCCccCCCcCHHHHH
Confidence 4455665 699999999999 7 8 999999999999999999985321100012499999887543
No 231
>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=93.52 E-value=0.088 Score=48.00 Aligned_cols=87 Identities=15% Similarity=0.107 Sum_probs=51.2
Q ss_pred ccccCCCCchHHHHHHHHHHhchhhhHHHHHHhCCCC---CCCceEEEccCChhHHHHHHHHHC----CCCeEEEeech-
Q 047000 135 AFEYPGLDPRFNEVFNIAMYNYTNLVIQKILEAYKGF---EHIQQLVDVGGCLGNTLKAITSKY----PHIKGINFDLP- 206 (231)
Q Consensus 135 ~~~~l~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~---~~~~~vvDVGGG~G~~~~~l~~~~----P~l~~~v~Dlp- 206 (231)
.|+.+++|+..-+.|.+|+.. .+.+....- .+...|+|||+|+|-++...+++. -..++..++-.
T Consensus 152 tYe~fE~D~vKY~~Ye~AI~~-------al~D~~~~~~~~~~~~vVldVGAGrGpL~~~al~A~~~~~~a~~VyAVEkn~ 224 (448)
T PF05185_consen 152 TYEVFEKDPVKYDQYERAIEE-------ALKDRVRKNSYSSKDKVVLDVGAGRGPLSMFALQAGARAGGAVKVYAVEKNP 224 (448)
T ss_dssp HHHHHCC-HHHHHHHHHHHHH-------HHHHHHTTS-SEETT-EEEEES-TTSHHHHHHHHTTHHHCCESEEEEEESST
T ss_pred cHhhHhcCHHHHHHHHHHHHH-------HHHhhhhhccccccceEEEEeCCCccHHHHHHHHHHHHhCCCeEEEEEcCCH
Confidence 466666777665666666522 222322201 135889999999999987766653 45778888863
Q ss_pred HHHhhC----CC---CCCceEeecCCCCC
Q 047000 207 HVIQHA----PK---YPGVEHVGGDMFQN 228 (231)
Q Consensus 207 ~vi~~a----~~---~~ri~~~~gDff~~ 228 (231)
.++... +. .++|+++.+|+-+-
T Consensus 225 ~A~~~l~~~v~~n~w~~~V~vi~~d~r~v 253 (448)
T PF05185_consen 225 NAVVTLQKRVNANGWGDKVTVIHGDMREV 253 (448)
T ss_dssp HHHHHHHHHHHHTTTTTTEEEEES-TTTS
T ss_pred hHHHHHHHHHHhcCCCCeEEEEeCcccCC
Confidence 322211 21 28999999999874
No 232
>PRK15431 ferrous iron transport protein FeoC; Provisional
Probab=93.44 E-value=0.16 Score=34.65 Aligned_cols=44 Identities=25% Similarity=0.319 Sum_probs=39.8
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
|=|+|..+ +-.++.+||..++ . ++..++.+|..|+.+|-+++.+
T Consensus 7 lRd~l~~~---gr~s~~~Ls~~~~-~----p~~~VeaMLe~l~~kGkverv~ 50 (78)
T PRK15431 7 VRDLLALR---GRMEAAQISQTLN-T----PQPMINAMLQQLESMGKAVRIQ 50 (78)
T ss_pred HHHHHHHc---CcccHHHHHHHHC-c----CHHHHHHHHHHHHHCCCeEeec
Confidence 45788887 5999999999999 9 9999999999999999999863
No 233
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=93.41 E-value=0.13 Score=36.38 Aligned_cols=47 Identities=21% Similarity=0.193 Sum_probs=42.3
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
..+.|..+|... +|-.+.-||..++ + +.+.+...++-|..+|++++.
T Consensus 8 l~~~IL~hl~~~---~~Dy~k~ia~~l~-~----~~~~v~~~l~~Le~~GLler~ 54 (92)
T PF10007_consen 8 LDLKILQHLKKA---GPDYAKSIARRLK-I----PLEEVREALEKLEEMGLLERV 54 (92)
T ss_pred hHHHHHHHHHHH---CCCcHHHHHHHHC-C----CHHHHHHHHHHHHHCCCeEEe
Confidence 356788889887 5889999999999 9 999999999999999999996
No 234
>PRK11050 manganese transport regulator MntR; Provisional
Probab=93.35 E-value=0.14 Score=39.55 Aligned_cols=57 Identities=25% Similarity=0.258 Sum_probs=46.6
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYF 104 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L 104 (231)
|...+... ++.+..+||+.++ + +...+.++++.|...|++.... .+.+.+|+.+..+
T Consensus 42 I~~~l~~~---~~~t~~eLA~~l~-i----s~stVsr~l~~Le~~GlI~r~~------~~~v~LT~~G~~l 98 (152)
T PRK11050 42 IADLIAEV---GEARQVDIAARLG-V----SQPTVAKMLKRLARDGLVEMRP------YRGVFLTPEGEKL 98 (152)
T ss_pred HHHHHHhc---CCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEec------CCceEECchHHHH
Confidence 55666653 5899999999999 9 9999999999999999998741 3567788877644
No 235
>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=93.33 E-value=0.18 Score=36.63 Aligned_cols=65 Identities=12% Similarity=0.174 Sum_probs=47.4
Q ss_pred HHhhChHHHHH--hcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcc---cccchhhc
Q 047000 29 VIGLGVFEIIA--KAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRL---YGLNDVSN 102 (231)
Q Consensus 29 a~~lglfd~L~--~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~---y~~t~~s~ 102 (231)
..++.++..|. .+ +++++|..+||..++ + +...+.++++.|...|++.+..... +.+ +.+|+.+.
T Consensus 25 ~~q~~vL~~l~~~~~-~~~~~t~~eL~~~l~-~----~~stvs~~i~~Le~kg~I~r~~~~~---D~R~~~i~lT~~G~ 94 (109)
T TIGR01889 25 LEELLILYYLGKLEN-NEGKLTLKEIIKEIL-I----KQSALVKIIKKLSKKGYLSKERSED---DERKVIISINKEQR 94 (109)
T ss_pred HHHHHHHHHHHhhhc-cCCcCcHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEeccCCcc---cCCeEEEEECHHHH
Confidence 34455666666 21 126899999999999 9 9999999999999999999864221 232 55666654
No 236
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=93.27 E-value=0.21 Score=37.99 Aligned_cols=63 Identities=14% Similarity=0.118 Sum_probs=47.0
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCc---ccccchhhcccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQR---LYGLNDVSNYFV 105 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~---~y~~t~~s~~L~ 105 (231)
.+...|...+ ++.|..+||+.++ + ++..+.+++.-|...|++++..... +. .+.+|+.+..+.
T Consensus 35 ~vL~~l~~~~--~~~t~~eLa~~l~-~----~~~tvt~~v~~Le~~GlV~r~~~~~---DrR~~~l~LT~~G~~~~ 100 (144)
T PRK03573 35 VTLHNIHQLP--PEQSQIQLAKAIG-I----EQPSLVRTLDQLEEKGLISRQTCAS---DRRAKRIKLTEKAEPLI 100 (144)
T ss_pred HHHHHHHHcC--CCCCHHHHHHHhC-C----ChhhHHHHHHHHHHCCCEeeecCCC---CcCeeeeEEChHHHHHH
Confidence 3566666543 4689999999999 9 9999999999999999999864211 22 356777776433
No 237
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=93.22 E-value=0.094 Score=33.07 Aligned_cols=43 Identities=21% Similarity=0.332 Sum_probs=35.1
Q ss_pred HHHHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHH
Q 047000 22 LPMAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLL 75 (231)
Q Consensus 22 ~~~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L 75 (231)
.-.+|.+|++.|-||.=. .+|++|||+.+| + ++..+..-||-.
T Consensus 5 Q~e~L~~A~~~GYfd~PR------~~tl~elA~~lg-i----s~st~~~~LRra 47 (53)
T PF04967_consen 5 QREILKAAYELGYFDVPR------RITLEELAEELG-I----SKSTVSEHLRRA 47 (53)
T ss_pred HHHHHHHHHHcCCCCCCC------cCCHHHHHHHhC-C----CHHHHHHHHHHH
Confidence 456899999999998633 589999999999 9 888777776643
No 238
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=93.16 E-value=0.21 Score=42.90 Aligned_cols=64 Identities=23% Similarity=0.230 Sum_probs=52.5
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCe-EEEeec-hHHHhhCCCC-----CCceEeecCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIK-GINFDL-PHVIQHAPKY-----PGVEHVGGDMF 226 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff 226 (231)
..+++.+. .......||.-=|.|.++.+|++++|... .+.+|. |.+++.+++. +|+.++.++|-
T Consensus 13 ~E~i~~L~-~~~~giyiD~TlG~GGHS~~iL~~l~~~~~li~~DrD~~Ai~~a~~~l~~~~~r~~~v~~~F~ 83 (314)
T COG0275 13 NEVVELLA-PKPDGIYIDGTLGAGGHSRAILEKLPDLGRLIGIDRDPQAIAIAKERLKEFDGRVTLVHGNFA 83 (314)
T ss_pred HHHHHhcc-cCCCcEEEEecCCCcHhHHHHHHhCCCCCeEEEEcCCHHHHHHHHHHhhccCCcEEEEeCcHH
Confidence 34556565 55668999999999999999999999887 899998 6788888752 79999998873
No 239
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=93.12 E-value=0.17 Score=39.28 Aligned_cols=52 Identities=19% Similarity=0.149 Sum_probs=45.6
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccccCC
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFVPN 107 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~~~ 107 (231)
+++...+||+.++ + .+..+..+++-|...|+++..+ .+.+.+|+.+.-++..
T Consensus 23 ~~~~~~diA~~L~-V----sp~sVt~ml~rL~~~GlV~~~~------y~gi~LT~~G~~~a~~ 74 (154)
T COG1321 23 GFARTKDIAERLK-V----SPPSVTEMLKRLERLGLVEYEP------YGGVTLTEKGREKAKE 74 (154)
T ss_pred CcccHHHHHHHhC-C----CcHHHHHHHHHHHHCCCeEEec------CCCeEEChhhHHHHHH
Confidence 6999999999999 9 9999999999999999999952 5789999988754443
No 240
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain. This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.
Probab=93.02 E-value=0.22 Score=32.87 Aligned_cols=44 Identities=11% Similarity=0.215 Sum_probs=38.6
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
++.|+..|.+ ++.+..+||+.++ + ....+.+-++.|...|+...
T Consensus 2 ~~~il~~L~~----~~~~~~eLa~~l~-v----S~~tv~~~l~~L~~~g~~i~ 45 (69)
T TIGR00122 2 PLRLLALLAD----NPFSGEKLGEALG-M----SRTAVNKHIQTLREWGVDVL 45 (69)
T ss_pred hHHHHHHHHc----CCcCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCeEE
Confidence 4567788886 5899999999999 9 99999999999999999665
No 241
>COG4190 Predicted transcriptional regulator [Transcription]
Probab=93.01 E-value=0.19 Score=37.66 Aligned_cols=57 Identities=19% Similarity=0.124 Sum_probs=48.0
Q ss_pred chHHHHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 20 SVLPMAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 20 ~~~~~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
|-..+.+.+=-.+.|.+.|+.. +|.|..|+|+.+| - +...|+|-|+.|...|++..+
T Consensus 55 ye~la~vLsp~nleLl~~Ia~~---~P~Si~ElAe~vg-R----dv~nvhr~Ls~l~~~GlI~fe 111 (144)
T COG4190 55 YEDLARVLSPRNLELLELIAQE---EPASINELAELVG-R----DVKNVHRTLSTLADLGLIFFE 111 (144)
T ss_pred HHHHHHHhChhHHHHHHHHHhc---CcccHHHHHHHhC-c----chHHHHHHHHHHHhcCeEEEe
Confidence 3344445555677889999986 6999999999999 7 999999999999999999985
No 242
>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]
Probab=92.99 E-value=0.11 Score=43.01 Aligned_cols=67 Identities=13% Similarity=0.257 Sum_probs=41.5
Q ss_pred HHHHHHHHHHhchhhhHHH----HHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCC
Q 047000 145 FNEVFNIAMYNYTNLVIQK----ILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPK 214 (231)
Q Consensus 145 ~~~~f~~~m~~~~~~~~~~----~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~ 214 (231)
..+.|.......-....|. .+...+ ....++++|+|||+|.++.+|-..--. .+.+|+.+ .++.+.+
T Consensus 94 ~Ae~Fd~~LVdkL~Y~vP~~l~emI~~~~-~g~F~~~lDLGCGTGL~G~~lR~~a~~--ltGvDiS~nMl~kA~e 165 (287)
T COG4976 94 YAERFDHILVDKLGYSVPELLAEMIGKAD-LGPFRRMLDLGCGTGLTGEALRDMADR--LTGVDISENMLAKAHE 165 (287)
T ss_pred HHHHHHHHHHHHhcCccHHHHHHHHHhcc-CCccceeeecccCcCcccHhHHHHHhh--ccCCchhHHHHHHHHh
Confidence 3445666555433333333 233334 345899999999999999888776444 45678864 5555544
No 243
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=92.86 E-value=0.12 Score=28.98 Aligned_cols=31 Identities=19% Similarity=0.324 Sum_probs=25.8
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAV 81 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l 81 (231)
|+|-+|||..+| + ..+-+.|+|..|...|++
T Consensus 2 ~mtr~diA~~lG-~----t~ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 2 PMTRQDIADYLG-L----TRETVSRILKKLERQGLI 32 (32)
T ss_dssp E--HHHHHHHHT-S-----HHHHHHHHHHHHHTTSE
T ss_pred CcCHHHHHHHhC-C----cHHHHHHHHHHHHHcCCC
Confidence 578999999999 9 999999999999988874
No 244
>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=92.59 E-value=0.2 Score=39.07 Aligned_cols=45 Identities=13% Similarity=0.065 Sum_probs=40.1
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
..|+++|... +.+|-++||+.+| + +...++++|..|...|++...
T Consensus 17 v~Vl~aL~~~---~~~tdEeLa~~Lg-i----~~~~VRk~L~~L~e~~Lv~~~ 61 (158)
T TIGR00373 17 GLVLFSLGIK---GEFTDEEISLELG-I----KLNEVRKALYALYDAGLADYK 61 (158)
T ss_pred HHHHHHHhcc---CCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCceee
Confidence 4578888865 5899999999999 9 999999999999999999753
No 245
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=92.41 E-value=0.21 Score=42.22 Aligned_cols=55 Identities=9% Similarity=-0.000 Sum_probs=40.9
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCC-CeEEEeec-hHHHhhCCCC------CCceEeecCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPH-IKGINFDL-PHVIQHAPKY------PGVEHVGGDM 225 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDf 225 (231)
-....+|+|+|||+|..+..+++...+ -+++.+|. +..++.++++ ..|+++.+|.
T Consensus 69 ~~~g~~VLDl~ag~G~kt~~la~~~~~~g~v~a~D~~~~~l~~~~~n~~~~g~~~v~~~~~D~ 131 (264)
T TIGR00446 69 PDPPERVLDMAAAPGGKTTQISALMKNEGAIVANEFSKSRTKVLIANINRCGVLNVAVTNFDG 131 (264)
T ss_pred CCCcCEEEEECCCchHHHHHHHHHcCCCCEEEEEcCCHHHHHHHHHHHHHcCCCcEEEecCCH
Confidence 345679999999999999999998754 57899998 4455544431 4577777774
No 246
>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=92.41 E-value=0.24 Score=32.55 Aligned_cols=40 Identities=23% Similarity=0.272 Sum_probs=32.3
Q ss_pred HHhcCCCCCCCHHHHHHhCCCCCCCCC-cchHHHHHHHHHhCCccccc
Q 047000 38 IAKAGPGAKLSASEIAAQLPATKNKDA-PMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 38 L~~~g~~~~~t~~eLA~~~g~~~~~~~-~~~l~rlL~~L~~~g~l~~~ 84 (231)
+.+.| -|-|+.|||+.+| + . +..+.+.|..|...|++.+.
T Consensus 19 ~~~~G--~~Pt~rEIa~~~g-~----~S~~tv~~~L~~Le~kG~I~r~ 59 (65)
T PF01726_consen 19 IEENG--YPPTVREIAEALG-L----KSTSTVQRHLKALERKGYIRRD 59 (65)
T ss_dssp HHHHS--S---HHHHHHHHT-S----SSHHHHHHHHHHHHHTTSEEEG
T ss_pred HHHcC--CCCCHHHHHHHhC-C----CChHHHHHHHHHHHHCcCccCC
Confidence 34455 6889999999999 8 6 88999999999999999984
No 247
>COG4742 Predicted transcriptional regulator [Transcription]
Probab=92.41 E-value=0.2 Score=42.18 Aligned_cols=67 Identities=12% Similarity=0.155 Sum_probs=57.9
Q ss_pred HHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccc
Q 047000 25 AMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYF 104 (231)
Q Consensus 25 ~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L 104 (231)
.+...-+.+|+=.|.+ +|.|.+||-..++ + ++..+..=+.-|...|++.+. ++.|++|..+..+
T Consensus 9 if~SekRk~lLllL~e----gPkti~EI~~~l~-v----s~~ai~pqiKkL~~~~LV~~~-------~~~Y~LS~~G~ii 72 (260)
T COG4742 9 LFLSEKRKDLLLLLKE----GPKTIEEIKNELN-V----SSSAILPQIKKLKDKGLVVQE-------GDRYSLSSLGKII 72 (260)
T ss_pred HHccHHHHHHHHHHHh----CCCCHHHHHHHhC-C----CcHHHHHHHHHHhhCCCEEec-------CCEEEecchHHHH
Confidence 3445567888888988 6999999999999 9 999999999999999999983 7899999999876
Q ss_pred cCC
Q 047000 105 VPN 107 (231)
Q Consensus 105 ~~~ 107 (231)
+..
T Consensus 73 v~k 75 (260)
T COG4742 73 VEK 75 (260)
T ss_pred HHH
Confidence 643
No 248
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=92.38 E-value=0.27 Score=47.42 Aligned_cols=67 Identities=24% Similarity=0.147 Sum_probs=49.4
Q ss_pred hHHHHHHhCCCC-CCCceEEEccCChhHHHHHHHHH----CC--------------------------------------
Q 047000 160 VIQKILEAYKGF-EHIQQLVDVGGCLGNTLKAITSK----YP-------------------------------------- 196 (231)
Q Consensus 160 ~~~~~~~~~~~~-~~~~~vvDVGGG~G~~~~~l~~~----~P-------------------------------------- 196 (231)
.+..++.... | .+...++|-.||+|+++++.+.. .|
T Consensus 177 lAaa~l~~a~-w~~~~~~l~DP~CGSGTilIEAa~~~~~~~pg~~r~~f~f~~~~~~~~~~w~~~~~~a~~~~~~~~~~~ 255 (702)
T PRK11783 177 LAAAILLRSG-WPQEGTPLLDPMCGSGTLLIEAAMMAADIAPGLHRERWGFSGWLGHDEALWQELLEEAQERARAGLAEL 255 (702)
T ss_pred HHHHHHHHcC-CCCCCCeEEccCCCccHHHHHHHHHHhcCCCCccccccccccCCCCCHHHHHHHHHHHHHHHhhccccc
Confidence 3445665555 7 55689999999999999998763 11
Q ss_pred CCeEEEeec-hHHHhhCCCC-------CCceEeecCCCC
Q 047000 197 HIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMFQ 227 (231)
Q Consensus 197 ~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff~ 227 (231)
..+++.+|+ |.+++.++.+ ++|++..+|+++
T Consensus 256 ~~~i~G~Did~~av~~A~~N~~~~g~~~~i~~~~~D~~~ 294 (702)
T PRK11783 256 PSKFYGSDIDPRVIQAARKNARRAGVAELITFEVKDVAD 294 (702)
T ss_pred CceEEEEECCHHHHHHHHHHHHHcCCCcceEEEeCChhh
Confidence 236789997 5677776653 679999999976
No 249
>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=92.36 E-value=0.17 Score=45.77 Aligned_cols=64 Identities=14% Similarity=0.160 Sum_probs=45.8
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------C-CceEeecCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------P-GVEHVGGDMFQ 227 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~-ri~~~~gDff~ 227 (231)
.++..++ .....+|+|+|||+|..+..+++..|+.+++.+|. +..++.++++ + ++.++.+|.+.
T Consensus 229 ~~~~~L~-~~~g~~VLDlcag~G~kt~~la~~~~~~~v~a~D~~~~~l~~~~~n~~r~g~~~~v~~~~~d~~~ 300 (426)
T TIGR00563 229 WVATWLA-PQNEETILDACAAPGGKTTHILELAPQAQVVALDIHEHRLKRVYENLKRLGLTIKAETKDGDGRG 300 (426)
T ss_pred HHHHHhC-CCCCCeEEEeCCCccHHHHHHHHHcCCCeEEEEeCCHHHHHHHHHHHHHcCCCeEEEEecccccc
Confidence 3444455 55678999999999999999999998788999998 4566555432 2 33446666543
No 250
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=92.32 E-value=0.24 Score=36.06 Aligned_cols=52 Identities=25% Similarity=0.291 Sum_probs=41.3
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCC-CCCCcchHHHHHHHHHhCCcccccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATK-NKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~-~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
+.-|++.|...+ ++.|++||.+.+. -. .+.+...+.|.|+.|+..|++.+..
T Consensus 3 R~~Il~~l~~~~--~~~sa~ei~~~l~-~~~~~i~~~TVYR~L~~L~~~Gli~~~~ 55 (116)
T cd07153 3 RLAILEVLLESD--GHLTAEEIYERLR-KKGPSISLATVYRTLELLEEAGLVREIE 55 (116)
T ss_pred HHHHHHHHHhCC--CCCCHHHHHHHHH-hcCCCCCHHHHHHHHHHHHhCCCEEEEE
Confidence 456888888754 7999999999984 11 1227889999999999999999863
No 251
>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=92.13 E-value=0.29 Score=30.60 Aligned_cols=43 Identities=14% Similarity=0.255 Sum_probs=34.4
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVE 82 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~ 82 (231)
.|...|...+ +++|.++||+.++ + +.+.+.+-+..|...|+.-
T Consensus 4 ~il~~L~~~~--~~it~~eLa~~l~-v----S~rTi~~~i~~L~~~~~~I 46 (55)
T PF08279_consen 4 QILKLLLESK--EPITAKELAEELG-V----SRRTIRRDIKELREWGIPI 46 (55)
T ss_dssp HHHHHHHHTT--TSBEHHHHHHHCT-S-----HHHHHHHHHHHHHTT-EE
T ss_pred HHHHHHHHcC--CCcCHHHHHHHhC-C----CHHHHHHHHHHHHHCCCeE
Confidence 4667775443 5799999999999 9 9999999999999999333
No 252
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=92.12 E-value=0.22 Score=40.78 Aligned_cols=63 Identities=27% Similarity=0.435 Sum_probs=47.3
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCc--Ccccccchhhcc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDS--QRLYGLNDVSNY 103 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~--~~~y~~t~~s~~ 103 (231)
.|...|.+. +|+|+.|||+++| + ++..+++-|..|.+.|+++.......-+ .-.|++|..+.-
T Consensus 15 ~il~lL~~~---g~~sa~elA~~Lg-i----s~~avR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~Lt~~g~~ 79 (218)
T COG2345 15 RILELLKKS---GPVSADELAEELG-I----SPMAVRRHLDDLEAEGLVEVERQQGGRGRPAKLYRLTEKGRE 79 (218)
T ss_pred HHHHHHhcc---CCccHHHHHHHhC-C----CHHHHHHHHHHHHhCcceeeeeccCCCCCCceeeeecccchh
Confidence 456667765 6999999999999 9 9999999999999999998752110000 124888887763
No 253
>PF02475 Met_10: Met-10+ like-protein; InterPro: IPR003402 This entry represents the Trm5 family. Trm5 specifically methylates the N1 position of guanosine-37 in various tRNAs [, , ]. Another members of this family, tRNA wybutosine-synthesizing protein 2 (Tyw2) and its homologues, are S-adenosyl-L-methionine-dependent transferases that act as a component of the wybutosine biosynthesis pathway [, ]. tRNA wybutosine-synthesizing protein 2 was originally thought to be a methyltransferase [].; GO: 0016740 transferase activity; PDB: 3A27_A 2ZZN_B 2YX1_A 2ZZM_A 3AY0_B 3K6R_A 3A26_A 3A25_A.
Probab=91.77 E-value=0.15 Score=41.42 Aligned_cols=57 Identities=16% Similarity=0.173 Sum_probs=42.1
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCC-------CCCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~-------~~ri~~~~gDff~ 227 (231)
..+..+|+|.-||.|.|+..+++..+..+++..|+ |..++-+++ .++|..+.+|..+
T Consensus 99 v~~~e~VlD~faGIG~f~l~~ak~~~~~~V~A~d~Np~a~~~L~~Ni~lNkv~~~i~~~~~D~~~ 163 (200)
T PF02475_consen 99 VKPGEVVLDMFAGIGPFSLPIAKHGKAKRVYAVDLNPDAVEYLKENIRLNKVENRIEVINGDARE 163 (200)
T ss_dssp --TT-EEEETT-TTTTTHHHHHHHT-SSEEEEEES-HHHHHHHHHHHHHTT-TTTEEEEES-GGG
T ss_pred CCcceEEEEccCCccHHHHHHhhhcCccEEEEecCCHHHHHHHHHHHHHcCCCCeEEEEcCCHHH
Confidence 34678999999999999999999888888999998 456655443 2788899998764
No 254
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=91.70 E-value=0.35 Score=30.30 Aligned_cols=35 Identities=31% Similarity=0.329 Sum_probs=32.1
Q ss_pred CCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
..+ |..+||+.++ + +...+++.+..|...|+++..
T Consensus 18 ~~l~s~~~la~~~~-v----s~~tv~~~l~~L~~~g~i~~~ 53 (60)
T smart00345 18 DKLPSERELAAQLG-V----SRTTVREALSRLEAEGLVQRR 53 (60)
T ss_pred CcCcCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEe
Confidence 456 8999999999 9 999999999999999999874
No 255
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=91.65 E-value=0.31 Score=31.46 Aligned_cols=35 Identities=29% Similarity=0.430 Sum_probs=32.6
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
++++..+||+.++ + .+..+..++.-|...|+++..
T Consensus 21 ~~v~~~~iA~~L~-v----s~~tvt~ml~~L~~~GlV~~~ 55 (60)
T PF01325_consen 21 GPVRTKDIAERLG-V----SPPTVTEMLKRLAEKGLVEYE 55 (60)
T ss_dssp SSBBHHHHHHHHT-S-----HHHHHHHHHHHHHTTSEEEE
T ss_pred CCccHHHHHHHHC-C----ChHHHHHHHHHHHHCCCEEec
Confidence 7999999999999 9 999999999999999999984
No 256
>KOG2361 consensus Predicted methyltransferase [General function prediction only]
Probab=91.41 E-value=0.2 Score=41.72 Aligned_cols=52 Identities=27% Similarity=0.394 Sum_probs=41.4
Q ss_pred ceEEEccCChhHHHHHHHHHCCC--CeEEEeec-hHHHhhCCCC-----CCceEeecCCC
Q 047000 175 QQLVDVGGCLGNTLKAITSKYPH--IKGINFDL-PHVIQHAPKY-----PGVEHVGGDMF 226 (231)
Q Consensus 175 ~~vvDVGGG~G~~~~~l~~~~P~--l~~~v~Dl-p~vi~~a~~~-----~ri~~~~gDff 226 (231)
.+++.||||.|...--|++.+|+ ++...+|. |.+|+..+.+ .|+.....|+=
T Consensus 73 ~~ilEvGCGvGNtvfPll~~~~n~~l~v~acDfsp~Ai~~vk~~~~~~e~~~~afv~Dlt 132 (264)
T KOG2361|consen 73 ETILEVGCGVGNTVFPLLKTSPNNRLKVYACDFSPRAIELVKKSSGYDESRVEAFVWDLT 132 (264)
T ss_pred hhheeeccCCCcccchhhhcCCCCCeEEEEcCCChHHHHHHHhccccchhhhcccceecc
Confidence 38999999999999999999999 88999997 6677777654 45555555553
No 257
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=91.25 E-value=0.4 Score=40.20 Aligned_cols=62 Identities=16% Similarity=0.095 Sum_probs=49.5
Q ss_pred HHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc
Q 047000 29 VIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN 102 (231)
Q Consensus 29 a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~ 102 (231)
..|..++-+|-.. |+.|+.|||+.+| + +-..+..+|+.|...|+++..+.. +..|+.-+-..
T Consensus 16 ~yEa~vY~aLl~~---g~~tA~eis~~sg-v----P~~kvY~vl~sLe~kG~v~~~~g~----P~~y~av~p~~ 77 (247)
T COG1378 16 EYEAKVYLALLCL---GEATAKEISEASG-V----PRPKVYDVLRSLEKKGLVEVIEGR----PKKYRAVPPEE 77 (247)
T ss_pred HHHHHHHHHHHHh---CCccHHHHHHHcC-C----CchhHHHHHHHHHHCCCEEeeCCC----CceEEeCCHHH
Confidence 3455677777776 5999999999999 9 999999999999999999986322 56777665544
No 258
>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=91.25 E-value=0.31 Score=32.95 Aligned_cols=49 Identities=18% Similarity=0.203 Sum_probs=43.3
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.+..+++.|+..+. .+++-.+|++.++ . |++.+...+..|...|++.+.
T Consensus 3 ~~~~~Le~I~rsR~-~Gi~q~~L~~~~~-~----D~r~i~~~~k~L~~~gLI~k~ 51 (75)
T PF04182_consen 3 IQYCLLERIARSRY-NGITQSDLSKLLG-I----DPRSIFYRLKKLEKKGLIVKQ 51 (75)
T ss_pred hHHHHHHHHHhcCC-CCEehhHHHHHhC-C----CchHHHHHHHHHHHCCCEEEE
Confidence 46678888887654 5899999999999 9 999999999999999999985
No 259
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=91.15 E-value=0.33 Score=34.37 Aligned_cols=44 Identities=16% Similarity=0.161 Sum_probs=37.8
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLN 98 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t 98 (231)
.++|..|||+.+| + +...+.|.|..|...|++.... + -+.|..|
T Consensus 46 ~~is~~eLa~~~g-~----sr~tVsr~L~~Le~~GlI~r~~--~---~~~~~~n 89 (95)
T TIGR01610 46 DRVTATVIAELTG-L----SRTHVSDAIKSLARRRIIFRQG--M---MGIVGVN 89 (95)
T ss_pred CccCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCeeeec--C---CceeecC
Confidence 5899999999999 9 9999999999999999999741 1 3667665
No 260
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=90.95 E-value=0.3 Score=43.62 Aligned_cols=53 Identities=13% Similarity=-0.002 Sum_probs=40.9
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMF 226 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff 226 (231)
..+++|++||+|.+++.+++..+-.+++..|. |..++.++.+ +.+++..+|..
T Consensus 58 ~~~vLDl~aGsG~~~l~~a~~~~~~~V~a~Din~~Av~~a~~N~~~N~~~~~~v~~~Da~ 117 (382)
T PRK04338 58 RESVLDALSASGIRGIRYALETGVEKVTLNDINPDAVELIKKNLELNGLENEKVFNKDAN 117 (382)
T ss_pred CCEEEECCCcccHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCceEEEhhhHH
Confidence 35899999999999999999888668999998 5577666542 44556766653
No 261
>PRK06474 hypothetical protein; Provisional
Probab=90.79 E-value=0.46 Score=37.80 Aligned_cols=76 Identities=12% Similarity=0.230 Sum_probs=54.1
Q ss_pred HHHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccC--CCCcCcccccchh
Q 047000 23 PMAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDD--ADDSQRLYGLNDV 100 (231)
Q Consensus 23 ~~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~--~~~~~~~y~~t~~ 100 (231)
..+|.--.++.|++.|...+ ++.|+.+|++.++++ +...+.|.|+.|...|+++..... .......|++++.
T Consensus 5 ~~~La~p~R~~Il~~L~~~~--~~~ta~el~~~l~~i----s~aTvYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~~~~ 78 (178)
T PRK06474 5 AEILMHPVRMKICQVLMRNK--EGLTPLELVKILKDV----PQATLYRHLQTMVDSGILHVVKEKKVRSVSEKYYAINEE 78 (178)
T ss_pred HHhhCCHHHHHHHHHHHhCC--CCCCHHHHHHHhcCC----CHHHHHHHHHHHHHCCCEEEeecccccCceeEEEEeccc
Confidence 34566677889999998753 359999999999327 778899999999999999975311 0000124777776
Q ss_pred hccc
Q 047000 101 SNYF 104 (231)
Q Consensus 101 s~~L 104 (231)
+..+
T Consensus 79 ~~~~ 82 (178)
T PRK06474 79 DAKI 82 (178)
T ss_pred eeee
Confidence 5443
No 262
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=90.74 E-value=0.7 Score=34.40 Aligned_cols=50 Identities=12% Similarity=0.250 Sum_probs=44.8
Q ss_pred HHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 27 QAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 27 ~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+..+...|.+.+.++ |.+|..|++..+| + +-..+.+.++.|++.|-|...
T Consensus 10 r~eLk~rIvElVRe~---GRiTi~ql~~~TG-a----sR~Tvk~~lreLVa~G~l~~~ 59 (127)
T PF06163_consen 10 REELKARIVELVREH---GRITIKQLVAKTG-A----SRNTVKRYLRELVARGDLYRH 59 (127)
T ss_pred HHHHHHHHHHHHHHc---CCccHHHHHHHHC-C----CHHHHHHHHHHHHHcCCeEeC
Confidence 455677899999987 5999999999999 9 999999999999999999973
No 263
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=90.69 E-value=0.3 Score=35.14 Aligned_cols=44 Identities=16% Similarity=0.321 Sum_probs=34.2
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|++.|... +.++-++||+.++ + ++..++++|..|...|++...
T Consensus 17 ~Il~~L~~~---~~l~de~la~~~~-l----~~~~vRkiL~~L~~~~lv~~~ 60 (105)
T PF02002_consen 17 RILDALLRK---GELTDEDLAKKLG-L----KPKEVRKILYKLYEDGLVSYR 60 (105)
T ss_dssp HHHHHHHHH-----B-HHHHHHTT--S-----HHHHHHHHHHHHHHSS-EEE
T ss_pred HHHHHHHHc---CCcCHHHHHHHhC-C----CHHHHHHHHHHHHHCCCeEEE
Confidence 378888865 5899999999999 9 999999999999999999764
No 264
>KOG2730 consensus Methylase [General function prediction only]
Probab=90.66 E-value=0.22 Score=40.95 Aligned_cols=53 Identities=21% Similarity=0.282 Sum_probs=43.3
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC-------CCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY-------PGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~-------~ri~~~~gDff~ 227 (231)
....|||.-||-|.-.+.++.++|. ++..|. |.-|..|+.+ +||.|+.|||+.
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 5678999999999999999999887 566676 4556666653 899999999974
No 265
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=90.55 E-value=0.47 Score=36.58 Aligned_cols=46 Identities=15% Similarity=0.287 Sum_probs=42.5
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
.+..|.+.|..+ +..|..+||+++| + ++..+.+=++-|...|++..
T Consensus 10 ~D~~Il~~Lq~d---~R~s~~eiA~~lg-l----S~~tV~~Ri~rL~~~GvI~~ 55 (153)
T PRK11179 10 LDRGILEALMEN---ARTPYAELAKQFG-V----SPGTIHVRVEKMKQAGIITG 55 (153)
T ss_pred HHHHHHHHHHHc---CCCCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCeee
Confidence 577899999986 6999999999999 9 99999999999999999984
No 266
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=90.39 E-value=0.36 Score=33.80 Aligned_cols=46 Identities=28% Similarity=0.338 Sum_probs=38.9
Q ss_pred HHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcccc
Q 047000 49 ASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFV 105 (231)
Q Consensus 49 ~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~ 105 (231)
+.+||+.++ + ++..+.+.++.|...|++.+.+ +..|.+|+.+..+.
T Consensus 2 ~~ela~~l~-i----s~stvs~~l~~L~~~glI~r~~------~~~~~lT~~g~~~~ 47 (96)
T smart00529 2 TSEIAERLN-V----SPPTVTQMLKKLEKDGLVEYEP------YRGITLTEKGRRLA 47 (96)
T ss_pred HHHHHHHhC-C----ChHHHHHHHHHHHHCCCEEEcC------CCceEechhHHHHH
Confidence 468999999 9 9999999999999999999841 45788888876543
No 267
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=90.08 E-value=0.29 Score=45.21 Aligned_cols=68 Identities=15% Similarity=0.185 Sum_probs=53.7
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcccc-CCC
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFV-PNK 108 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~-~~~ 108 (231)
.+..|...|... +++|..+||+.++ + ++..+.+++..|.+.|+++..... ...|.+|+.++.+. ...
T Consensus 7 ~e~~vL~~L~~~---~~~s~~eLA~~l~-l----~~~tVt~~i~~Le~kGlV~~~~~~----~~~i~LTeeG~~~~~~g~ 74 (489)
T PRK04172 7 NEKKVLKALKEL---KEATLEELAEKLG-L----PPEAVMRAAEWLEEKGLVKVEERV----EEVYVLTEEGKKYAEEGL 74 (489)
T ss_pred HHHHHHHHHHhC---CCCCHHHHHHHhC-c----CHHHHHHHHHHHHhCCCEEEEeee----EEEEEECHHHHHHHHhcC
Confidence 456677777765 5899999999999 9 999999999999999999985211 35689999998444 444
Q ss_pred C
Q 047000 109 D 109 (231)
Q Consensus 109 ~ 109 (231)
+
T Consensus 75 p 75 (489)
T PRK04172 75 P 75 (489)
T ss_pred H
Confidence 3
No 268
>COG2384 Predicted SAM-dependent methyltransferase [General function prediction only]
Probab=89.86 E-value=0.69 Score=37.97 Aligned_cols=55 Identities=13% Similarity=0.123 Sum_probs=44.2
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeech-----HHHhhCCCC---CCceEeecCCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-----HVIQHAPKY---PGVEHVGGDMFQN 228 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-----~vi~~a~~~---~ri~~~~gDff~~ 228 (231)
...+.||||-+|.+.+.+++.+|..+++.-|.- .++...+.+ +||+..-+|-|.+
T Consensus 17 ~~~iaDIGsDHAYLp~~Lv~~~~~~~~va~eV~~gpl~~a~~~v~~~~l~~~i~vr~~dgl~~ 79 (226)
T COG2384 17 GARIADIGSDHAYLPIYLVKNNPASTAVAGEVVPGPLESAIRNVKKNNLSERIDVRLGDGLAV 79 (226)
T ss_pred CCceeeccCchhHhHHHHHhcCCcceEEEeecccCHHHHHHHHHHhcCCcceEEEeccCCccc
Confidence 344999999999999999999999999999972 344444433 8899998888765
No 269
>COG4189 Predicted transcriptional regulator [Transcription]
Probab=89.78 E-value=0.73 Score=38.11 Aligned_cols=56 Identities=13% Similarity=0.277 Sum_probs=49.8
Q ss_pred hHHHHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 21 VLPMAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 21 ~~~~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
-..++|...++..|.+.|+.. +|+.+.|||+++| + +...+..=+..|...|++...
T Consensus 15 dv~kalaS~vRv~Il~lL~~k---~plNvneiAe~lg-L----pqst~s~~ik~Le~aGlirT~ 70 (308)
T COG4189 15 DVLKALASKVRVAILQLLHRK---GPLNVNEIAEALG-L----PQSTMSANIKVLEKAGLIRTE 70 (308)
T ss_pred hHHHHHHHHHHHHHHHHHHHh---CCCCHHHHHHHhC-C----chhhhhhhHHHHHhcCceeee
Confidence 345788899999999999987 5999999999999 9 888888889999999999863
No 270
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=89.74 E-value=0.47 Score=38.99 Aligned_cols=51 Identities=22% Similarity=0.238 Sum_probs=42.4
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNY 103 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~ 103 (231)
..+|..+||+.++ + ++..+.|+|+.|...|++++..... ...+.+|+.+..
T Consensus 20 ~~IS~~eLA~~L~-i----S~~Tvsr~Lk~LEe~GlI~R~~~~r---~~~v~LTekG~~ 70 (217)
T PRK14165 20 VKISSSEFANHTG-T----SSKTAARILKQLEDEGYITRTIVPR---GQLITITEKGLD 70 (217)
T ss_pred CCcCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEEEcCC---ceEEEECHHHHH
Confidence 4699999999999 9 9999999999999999999853111 356888888763
No 271
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=89.71 E-value=0.75 Score=29.36 Aligned_cols=33 Identities=27% Similarity=0.284 Sum_probs=30.3
Q ss_pred CCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 47 LSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 47 ~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|..+||..++ + +...+.+.+..|...|+++..
T Consensus 26 ~~~~~la~~~~-i----s~~~v~~~l~~L~~~G~i~~~ 58 (66)
T cd07377 26 PSERELAEELG-V----SRTTVREALRELEAEGLVERR 58 (66)
T ss_pred CCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEec
Confidence 35999999999 9 999999999999999999863
No 272
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=89.67 E-value=0.49 Score=36.97 Aligned_cols=47 Identities=15% Similarity=0.233 Sum_probs=43.0
Q ss_pred HHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 29 VIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 29 a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
..+..|...|.++ +.+|..+||+++| + ++..+.+=++-|...|++..
T Consensus 14 ~~D~~IL~~Lq~d---~R~s~~eiA~~lg-l----S~~tv~~Ri~rL~~~GvI~~ 60 (164)
T PRK11169 14 RIDRNILNELQKD---GRISNVELSKRVG-L----SPTPCLERVRRLERQGFIQG 60 (164)
T ss_pred HHHHHHHHHhccC---CCCCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCeEE
Confidence 4678899999986 6999999999999 9 99999999999999999984
No 273
>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]
Probab=89.62 E-value=0.84 Score=36.01 Aligned_cols=68 Identities=25% Similarity=0.370 Sum_probs=47.3
Q ss_pred hhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeec-hHHHhhCC-CCCCceEeecCCCC
Q 047000 159 LVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDL-PHVIQHAP-KYPGVEHVGGDMFQ 227 (231)
Q Consensus 159 ~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~-~~~ri~~~~gDff~ 227 (231)
..++......+ |+...-|+.+|.|+|.+..+|+++- +.-..+..+. |+-+.... .++.++++.||-|.
T Consensus 35 ~lA~~M~s~I~-pesglpVlElGPGTGV~TkaIL~~gv~~~~L~~iE~~~dF~~~L~~~~p~~~ii~gda~~ 105 (194)
T COG3963 35 ILARKMASVID-PESGLPVLELGPGTGVITKAILSRGVRPESLTAIEYSPDFVCHLNQLYPGVNIINGDAFD 105 (194)
T ss_pred HHHHHHHhccC-cccCCeeEEEcCCccHhHHHHHhcCCCccceEEEEeCHHHHHHHHHhCCCccccccchhh
Confidence 33455666677 8899999999999999999999873 4444455554 34333333 35777788888763
No 274
>PRK10870 transcriptional repressor MprA; Provisional
Probab=89.61 E-value=0.57 Score=37.10 Aligned_cols=66 Identities=15% Similarity=0.195 Sum_probs=48.0
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCc---ccccchhhccccC
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQR---LYGLNDVSNYFVP 106 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~---~y~~t~~s~~L~~ 106 (231)
+.|.-.|...+ ++++|..+||+.++ + +...+.+++.-|...|++++..... ++ ...+|+.+..+..
T Consensus 58 ~~iL~~L~~~~-~~~it~~eLa~~l~-l----~~~tvsr~v~rLe~kGlV~R~~~~~---DrR~~~v~LT~~G~~~~~ 126 (176)
T PRK10870 58 FMALITLESQE-NHSIQPSELSCALG-S----SRTNATRIADELEKRGWIERRESDN---DRRCLHLQLTEKGHEFLR 126 (176)
T ss_pred HHHHHHHhcCC-CCCcCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEecCCCC---CCCeeEEEECHHHHHHHH
Confidence 34555555321 25799999999999 9 9999999999999999999864211 22 3567777764443
No 275
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=89.60 E-value=0.36 Score=44.29 Aligned_cols=70 Identities=9% Similarity=0.090 Sum_probs=57.4
Q ss_pred HHhhChHHHHHhcCCCCC-CCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc-cccC
Q 047000 29 VIGLGVFEIIAKAGPGAK-LSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN-YFVP 106 (231)
Q Consensus 29 a~~lglfd~L~~~g~~~~-~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~-~L~~ 106 (231)
+.+..|...|... ++ .+.++||+.+| + +...+.+.+..|.+.|+++..... ...|.+|+.+. ++..
T Consensus 3 ~~e~~iL~~l~~~---~~~~~~~~la~~~g-~----~~~~v~~~~~~L~~kg~v~~~~~~----~~~~~LT~eG~~~l~~ 70 (492)
T PLN02853 3 MAEEALLGALSNN---EEISDSGQFAASHG-L----DHNEVVGVIKSLHGFRYVDAQDIK----RETWVLTEEGKKYAAE 70 (492)
T ss_pred hHHHHHHHHHHhc---CCCCCHHHHHHHcC-C----CHHHHHHHHHHHHhCCCEEEEEEE----EEEEEECHHHHHHHHc
Confidence 4677888889875 34 89999999999 9 999999999999999999875422 57899999998 6666
Q ss_pred CCCC
Q 047000 107 NKDG 110 (231)
Q Consensus 107 ~~~~ 110 (231)
+.|.
T Consensus 71 G~PE 74 (492)
T PLN02853 71 GSPE 74 (492)
T ss_pred CCHH
Confidence 6653
No 276
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=89.32 E-value=0.58 Score=39.24 Aligned_cols=57 Identities=14% Similarity=0.185 Sum_probs=45.1
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeech-HHHhhCCC-------CCCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDLP-HVIQHAPK-------YPGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~-------~~ri~~~~gDff~ 227 (231)
..+.+++|+||.+.|.-+..+++..| +-+.+-+|.. +..+.|++ .++|+++.||..+
T Consensus 77 ~~~ak~iLEiGT~~GySal~la~al~~~g~v~tiE~~~~~~~~Ar~~~~~ag~~~~I~~~~G~a~e 142 (247)
T PLN02589 77 LINAKNTMEIGVYTGYSLLATALALPEDGKILAMDINRENYELGLPVIQKAGVAHKIDFREGPALP 142 (247)
T ss_pred HhCCCEEEEEeChhhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHHCCCCCceEEEeccHHH
Confidence 34688999999999999999999874 6788999985 45555544 2899999998654
No 277
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=89.31 E-value=0.66 Score=35.40 Aligned_cols=47 Identities=17% Similarity=0.350 Sum_probs=42.8
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.+..|.+.|..+ ++.|..+||+++| + ++..+.+-++-|...|++...
T Consensus 9 ~D~~IL~~L~~d---~r~~~~eia~~lg-l----S~~~v~~Ri~~L~~~GiI~~~ 55 (154)
T COG1522 9 IDRRILRLLQED---ARISNAELAERVG-L----SPSTVLRRIKRLEEEGVIKGY 55 (154)
T ss_pred HHHHHHHHHHHh---CCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCceeeE
Confidence 567788999986 5899999999999 9 999999999999999999974
No 278
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=89.24 E-value=1.2 Score=37.43 Aligned_cols=80 Identities=13% Similarity=0.147 Sum_probs=58.0
Q ss_pred HHHHHHHhchhhh----HHHHHHhCCCCCCCceEEEccCChhHHHHHHHH-HCCCCeEEEeech-HHHhhCCCC------
Q 047000 148 VFNIAMYNYTNLV----IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITS-KYPHIKGINFDLP-HVIQHAPKY------ 215 (231)
Q Consensus 148 ~f~~~m~~~~~~~----~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~-~~P~l~~~v~Dlp-~vi~~a~~~------ 215 (231)
.|...|...++.. +..|+.... .....+|+|.|-|+|.++..|+. -.|.=+.+.+|.- .-.+.|+++
T Consensus 66 d~~~~~~R~tQiIyPKD~~~I~~~~g-i~pg~rVlEAGtGSG~lt~~La~~vg~~G~v~tyE~r~d~~k~A~~Nl~~~~l 144 (256)
T COG2519 66 DYLLSMKRRTQIIYPKDAGYIVARLG-ISPGSRVLEAGTGSGALTAYLARAVGPEGHVTTYEIREDFAKTARENLSEFGL 144 (256)
T ss_pred HHHHhCcCCCceecCCCHHHHHHHcC-CCCCCEEEEcccCchHHHHHHHHhhCCCceEEEEEecHHHHHHHHHHHHHhcc
Confidence 3444466665543 234556566 78899999999999999999997 5788889999964 444445442
Q ss_pred -CCceEeecCCCCC
Q 047000 216 -PGVEHVGGDMFQN 228 (231)
Q Consensus 216 -~ri~~~~gDff~~ 228 (231)
++|++..+|+-+.
T Consensus 145 ~d~v~~~~~Dv~~~ 158 (256)
T COG2519 145 GDRVTLKLGDVREG 158 (256)
T ss_pred ccceEEEecccccc
Confidence 6788888988764
No 279
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=89.18 E-value=0.46 Score=43.59 Aligned_cols=55 Identities=22% Similarity=0.329 Sum_probs=42.7
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeec---CCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGG---DMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~g---Dff~ 227 (231)
.+..+.++||=||+|.++.++++.. .+++.+++ |+.++.|+.+ ...+|+.| |.|.
T Consensus 381 l~~~k~llDv~CGTG~iglala~~~--~~ViGvEi~~~aV~dA~~nA~~NgisNa~Fi~gqaE~~~~ 445 (534)
T KOG2187|consen 381 LPADKTLLDVCCGTGTIGLALARGV--KRVIGVEISPDAVEDAEKNAQINGISNATFIVGQAEDLFP 445 (534)
T ss_pred CCCCcEEEEEeecCCceehhhhccc--cceeeeecChhhcchhhhcchhcCccceeeeecchhhccc
Confidence 5566999999999999999999874 45666665 7788877653 67888888 5554
No 280
>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=89.17 E-value=1.1 Score=36.72 Aligned_cols=64 Identities=20% Similarity=0.217 Sum_probs=32.4
Q ss_pred CCCCchHHHHH----HHHHHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec
Q 047000 139 PGLDPRFNEVF----NIAMYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL 205 (231)
Q Consensus 139 l~~~~~~~~~f----~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl 205 (231)
+.++|+.-..| .+.+..+.......+++.+..-++...|.|.|||.+.++.++.+ ..++--|||
T Consensus 34 f~~dP~~F~~YH~Gfr~Qv~~WP~nPvd~iI~~l~~~~~~~viaD~GCGdA~la~~~~~---~~~V~SfDL 101 (219)
T PF05148_consen 34 FQEDPELFDIYHEGFRQQVKKWPVNPVDVIIEWLKKRPKSLVIADFGCGDAKLAKAVPN---KHKVHSFDL 101 (219)
T ss_dssp HHH-HHHHHHHHHHHHHHHCTSSS-HHHHHHHHHCTS-TTS-EEEES-TT-HHHHH--S------EEEEES
T ss_pred HHhCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHHHhcCCCEEEEECCCchHHHHHhccc---CceEEEeec
Confidence 34566544444 44444444344455666554244567999999999999976642 345677776
No 281
>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=89.00 E-value=0.47 Score=37.97 Aligned_cols=30 Identities=13% Similarity=0.220 Sum_probs=27.7
Q ss_pred eEEEccCChhHHHHHHHHHCCCCeEEEeec
Q 047000 176 QLVDVGGCLGNTLKAITSKYPHIKGINFDL 205 (231)
Q Consensus 176 ~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl 205 (231)
+++|||.|.|.=++-++=.+|+++++++|-
T Consensus 51 ~~lDiGSGaGfPGipLaI~~p~~~~~LvEs 80 (184)
T PF02527_consen 51 KVLDIGSGAGFPGIPLAIARPDLQVTLVES 80 (184)
T ss_dssp EEEEETSTTTTTHHHHHHH-TTSEEEEEES
T ss_pred eEEecCCCCCChhHHHHHhCCCCcEEEEeC
Confidence 899999999999999999999999999995
No 282
>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=88.90 E-value=0.41 Score=31.90 Aligned_cols=35 Identities=26% Similarity=0.357 Sum_probs=32.7
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
-++|-++||..+| + +...+.|+|+.|...|+++..
T Consensus 27 ~~lt~~~iA~~~g-~----sr~tv~r~l~~l~~~g~I~~~ 61 (76)
T PF13545_consen 27 LPLTQEEIADMLG-V----SRETVSRILKRLKDEGIIEVK 61 (76)
T ss_dssp EESSHHHHHHHHT-S----CHHHHHHHHHHHHHTTSEEEE
T ss_pred ecCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEc
Confidence 3789999999999 9 999999999999999999973
No 283
>COG0357 GidB Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]
Probab=88.73 E-value=0.42 Score=39.19 Aligned_cols=32 Identities=16% Similarity=0.322 Sum_probs=30.0
Q ss_pred CceEEEccCChhHHHHHHHHHCCCCeEEEeec
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHIKGINFDL 205 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl 205 (231)
..+++|||.|.|.=++-++=.+|+++++++|-
T Consensus 68 ~~~~~DIGSGaGfPGipLAI~~p~~~vtLles 99 (215)
T COG0357 68 AKRVLDIGSGAGFPGIPLAIAFPDLKVTLLES 99 (215)
T ss_pred CCEEEEeCCCCCCchhhHHHhccCCcEEEEcc
Confidence 58999999999999999999999999999994
No 284
>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=88.53 E-value=0.63 Score=35.57 Aligned_cols=35 Identities=11% Similarity=0.161 Sum_probs=33.5
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
|++|++|||.+.| + ..+.+---|.++++-|-+.+.
T Consensus 5 Ga~T~eELA~~FG-v----ttRkvaStLa~~ta~Grl~Rv 39 (155)
T PF07789_consen 5 GAKTAEELAGKFG-V----TTRKVASTLAMVTATGRLIRV 39 (155)
T ss_pred CcccHHHHHHHhC-c----chhhhHHHHHHHHhcceeEEe
Confidence 7999999999999 9 999999999999999999986
No 285
>PF09243 Rsm22: Mitochondrial small ribosomal subunit Rsm22; InterPro: IPR015324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Rsm22 has been identified as a mitochondrial small ribosomal subunit [] and is a methyltransferase. In Schizosaccharomyces pombe (Fission yeast), Rsm22 is tandemly fused to Cox11 (a factor required for copper insertion into cytochrome oxidase) and the two proteins are proteolytically cleaved after import into the mitochondria []. This entry consists of mitochondrial Rsm22 and homologous sequences from bacteria.; GO: 0008168 methyltransferase activity, 0006412 translation
Probab=88.46 E-value=1 Score=38.27 Aligned_cols=43 Identities=21% Similarity=0.326 Sum_probs=33.2
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCe-EEEeech
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIK-GINFDLP 206 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dlp 206 (231)
.+....+.| ...+|||+|+|.|+.+-++...+|++. .+.+|..
T Consensus 24 El~~r~p~f-~P~~vLD~GsGpGta~wAa~~~~~~~~~~~~vd~s 67 (274)
T PF09243_consen 24 ELRKRLPDF-RPRSVLDFGSGPGTALWAAREVWPSLKEYTCVDRS 67 (274)
T ss_pred HHHHhCcCC-CCceEEEecCChHHHHHHHHHHhcCceeeeeecCC
Confidence 344444534 357899999999999999999999765 6888874
No 286
>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=88.29 E-value=0.68 Score=33.04 Aligned_cols=50 Identities=18% Similarity=0.236 Sum_probs=39.9
Q ss_pred HHhhChHHHHHh-cCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 29 VIGLGVFEIIAK-AGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 29 a~~lglfd~L~~-~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
.+.-.|++.|.. ...+.++++.+|+++++ + ++..++..++.|+..|++-.
T Consensus 47 ~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~-~----~~~~v~~al~~L~~eG~IYs 97 (102)
T PF08784_consen 47 PLQDKVLNFIKQQPNSEEGVHVDEIAQQLG-M----SENEVRKALDFLSNEGHIYS 97 (102)
T ss_dssp HHHHHHHHHHHC----TTTEEHHHHHHHST-S-----HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHhcCCCCCcccHHHHHHHhC-c----CHHHHHHHHHHHHhCCeEec
Confidence 345668888876 22236899999999999 9 99999999999999999875
No 287
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=88.07 E-value=0.99 Score=32.46 Aligned_cols=66 Identities=21% Similarity=0.272 Sum_probs=48.9
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCc---ccccchhhccc
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQR---LYGLNDVSNYF 104 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~---~y~~t~~s~~L 104 (231)
.-.++.+...|...+ +.+..+||+.++ + ++..+.++++-|...|++++..... ++ .+.+|+.+..+
T Consensus 21 t~~q~~~L~~l~~~~---~~~~~~la~~l~-i----~~~~vt~~l~~Le~~glv~r~~~~~---DrR~~~l~lT~~G~~~ 89 (126)
T COG1846 21 TPPQYQVLLALYEAG---GITVKELAERLG-L----DRSTVTRLLKRLEDKGLIERLRDPE---DRRAVLVRLTEKGREL 89 (126)
T ss_pred CHHHHHHHHHHHHhC---CCcHHHHHHHHC-C----CHHHHHHHHHHHHHCCCeeecCCcc---ccceeeEEECccHHHH
Confidence 445666777777752 444499999999 9 9999999999999999999864211 22 36677776633
No 288
>COG5631 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]
Probab=87.98 E-value=2.6 Score=32.84 Aligned_cols=77 Identities=14% Similarity=0.144 Sum_probs=56.6
Q ss_pred HhhchHHHHHHHHHhhC-------hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCC
Q 047000 17 VTASVLPMAMQAVIGLG-------VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDAD 89 (231)
Q Consensus 17 ~~~~~~~~~L~~a~~lg-------lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~ 89 (231)
.++.|...|+.+|.+.+ |..++...+ .|+++.+|+..++ .+ |...+..-||.|...|+++.. +.
T Consensus 64 Af~rW~vrCmAaag~~~ls~~e~l~lH~irhrd--R~K~laDic~~ln-~e---Dth~itYslrKL~k~gLit~t---~~ 134 (199)
T COG5631 64 AFGRWQVRCMAAAGEFSLSGPENLLLHIIRHRD--RPKSLADICQMLN-RE---DTHNITYSLRKLLKGGLITRT---GS 134 (199)
T ss_pred HHHHHHHHHHHHhcCCCCcchHHHHHHHHhhcC--chhhHHHHHHHhc-cc---cchhHHHHHHHHHhccceecC---CC
Confidence 55677778888877665 455665555 8999999999999 63 566788889999999999973 20
Q ss_pred CcCcccccchhhc
Q 047000 90 DSQRLYGLNDVSN 102 (231)
Q Consensus 90 ~~~~~y~~t~~s~ 102 (231)
...-+|..|+.+.
T Consensus 135 gkevTy~vTa~G~ 147 (199)
T COG5631 135 GKEVTYEVTALGH 147 (199)
T ss_pred CceEEEEEecchH
Confidence 0023588888765
No 289
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=87.96 E-value=0.75 Score=37.85 Aligned_cols=53 Identities=11% Similarity=0.183 Sum_probs=43.8
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeech-HHHhhCCCC-------CCceEeec
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDLP-HVIQHAPKY-------PGVEHVGG 223 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~g 223 (231)
..+.++++.||.+.|.-++.++..-| +-+.+-+|+. +-++.|+++ ++|+.+.+
T Consensus 57 ~~~~k~iLEiGT~~GySal~mA~~l~~~g~l~tiE~~~e~~~~A~~n~~~ag~~~~i~~~~~ 118 (219)
T COG4122 57 LSGPKRILEIGTAIGYSALWMALALPDDGRLTTIERDEERAEIARENLAEAGVDDRIELLLG 118 (219)
T ss_pred hcCCceEEEeecccCHHHHHHHhhCCCCCeEEEEeCCHHHHHHHHHHHHHcCCcceEEEEec
Confidence 45789999999999999999999999 7788999985 466666652 67888773
No 290
>COG3432 Predicted transcriptional regulator [Transcription]
Probab=87.68 E-value=0.39 Score=34.03 Aligned_cols=61 Identities=11% Similarity=0.247 Sum_probs=46.2
Q ss_pred hHHHHH-hcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccc
Q 047000 34 VFEIIA-KAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYF 104 (231)
Q Consensus 34 lfd~L~-~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L 104 (231)
+||.|. ..+ +++...-|.-.++ + +-.....+++.|+..|++...++ + ....|.+|+.+.-|
T Consensus 20 i~dIL~~~~~--~~~~~Tri~y~aN-l----ny~~~~~yi~~L~~~Gli~~~~~-~--~~~~y~lT~KG~~f 81 (95)
T COG3432 20 IFDILKAISE--GGIGITRIIYGAN-L----NYKRAQKYIEMLVEKGLIIKQDN-G--RRKVYELTEKGKRF 81 (95)
T ss_pred HHHHHHHhcC--CCCCceeeeeecC-c----CHHHHHHHHHHHHhCCCEEeccC-C--ccceEEEChhHHHH
Confidence 566676 222 6888889999999 9 99999999999999997776421 0 01269999999743
No 291
>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=87.64 E-value=1 Score=26.80 Aligned_cols=37 Identities=16% Similarity=0.303 Sum_probs=27.1
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHH
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRL 74 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~ 74 (231)
++..|...|..+ +..|+.+||+.+| + ++..+.+=++.
T Consensus 4 ~D~~Il~~Lq~d---~r~s~~~la~~lg-l----S~~~v~~Ri~r 40 (42)
T PF13404_consen 4 LDRKILRLLQED---GRRSYAELAEELG-L----SESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHH----TTS-HHHHHHHHT-S-----HHHHHHHHHH
T ss_pred HHHHHHHHHHHc---CCccHHHHHHHHC-c----CHHHHHHHHHH
Confidence 466788999886 6999999999999 9 88776554443
No 292
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=87.62 E-value=0.68 Score=42.60 Aligned_cols=71 Identities=8% Similarity=0.144 Sum_probs=57.2
Q ss_pred HHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc-cccCC
Q 047000 29 VIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN-YFVPN 107 (231)
Q Consensus 29 a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~-~L~~~ 107 (231)
..+..|...|...+ +..+..+||+.+| + ++..+.+.+..|.+.|+++..... ...|.+|+.+. ++..+
T Consensus 6 ~~e~~iL~~l~~~~--~~~~~~~la~~~~-~----~~~~v~~~~~~L~~kg~v~~~~~~----~~~~~LT~eG~~~~~~G 74 (494)
T PTZ00326 6 LEENTILSKLESEN--EIVNSLALAESLN-I----DHQKVVGAIKSLESANYITTEMKK----SNTWTLTEEGEDYLKNG 74 (494)
T ss_pred HHHHHHHHHHHhcC--CCCCHHHHHHHcC-C----CHHHHHHHHHHHHhCCCEEEEEEE----EEEEEECHHHHHHHHcC
Confidence 35667788887622 4799999999999 9 999999999999999999875422 57899999998 66666
Q ss_pred CCC
Q 047000 108 KDG 110 (231)
Q Consensus 108 ~~~ 110 (231)
.|.
T Consensus 75 ~PE 77 (494)
T PTZ00326 75 SPE 77 (494)
T ss_pred CHH
Confidence 654
No 293
>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=87.60 E-value=1.3 Score=35.60 Aligned_cols=48 Identities=23% Similarity=0.266 Sum_probs=38.5
Q ss_pred HhhChHHHHHh----cCCCCCCCHHHHHHhCCCCCCCCC-cchHHHHHHHHHhCCccccc
Q 047000 30 IGLGVFEIIAK----AGPGAKLSASEIAAQLPATKNKDA-PMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 30 ~~lglfd~L~~----~g~~~~~t~~eLA~~~g~~~~~~~-~~~l~rlL~~L~~~g~l~~~ 84 (231)
.+..|++.|.+ .+ -|.|..|||+.++ + + +..+.+.|+.|...|+++..
T Consensus 7 ~q~~iL~~l~~~~~~~~--~~~~~~ela~~~~-~----~s~~tv~~~l~~L~~~g~i~~~ 59 (199)
T TIGR00498 7 RQQEVLDLIRAHIESTG--YPPSIREIARAVG-L----RSPSAAEEHLKALERKGYIERD 59 (199)
T ss_pred HHHHHHHHHHHHHHhcC--CCCcHHHHHHHhC-C----CChHHHHHHHHHHHHCCCEecC
Confidence 34445555553 23 5789999999999 9 8 89999999999999999984
No 294
>KOG3191 consensus Predicted N6-DNA-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=87.36 E-value=0.63 Score=37.17 Aligned_cols=54 Identities=15% Similarity=0.238 Sum_probs=38.9
Q ss_pred CceEEEccCChhHHHHHHHHHC-CCCeEEEeec-hHHHhhCCC----C-CCceEeecCCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKY-PHIKGINFDL-PHVIQHAPK----Y-PGVEHVGGDMFQ 227 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dl-p~vi~~a~~----~-~ri~~~~gDff~ 227 (231)
...+++||||+|..+..+++.. |+.....-|+ |++++...+ + -++..+-.|++.
T Consensus 44 ~~i~lEIG~GSGvvstfL~~~i~~~~~~latDiNp~A~~~Tl~TA~~n~~~~~~V~tdl~~ 104 (209)
T KOG3191|consen 44 PEICLEIGCGSGVVSTFLASVIGPQALYLATDINPEALEATLETARCNRVHIDVVRTDLLS 104 (209)
T ss_pred ceeEEEecCCcchHHHHHHHhcCCCceEEEecCCHHHHHHHHHHHHhcCCccceeehhHHh
Confidence 6889999999999998887764 7777888898 455555333 2 345666666654
No 295
>PHA02943 hypothetical protein; Provisional
Probab=87.25 E-value=1.1 Score=34.62 Aligned_cols=44 Identities=23% Similarity=0.172 Sum_probs=38.3
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
.|.+.|.. |..|..|||+++| + +-..++-.|..|...|.+.+.+
T Consensus 15 eILE~Lk~----G~~TtseIAkaLG-l----S~~qa~~~LyvLErEG~VkrV~ 58 (165)
T PHA02943 15 KTLRLLAD----GCKTTSRIANKLG-V----SHSMARNALYQLAKEGMVLKVE 58 (165)
T ss_pred HHHHHHhc----CCccHHHHHHHHC-C----CHHHHHHHHHHHHHcCceEEEe
Confidence 46677733 6899999999999 9 9999999999999999999863
No 296
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=87.23 E-value=0.75 Score=38.81 Aligned_cols=48 Identities=19% Similarity=0.371 Sum_probs=43.1
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
+..+.+.|...| |-++-+||.+++| . +...+.|+|+-|..+|++++.+
T Consensus 197 e~~il~~i~~~G--Gri~Q~eL~r~lg-l----sktTvsR~L~~LEk~GlIe~~K 244 (258)
T COG2512 197 EKEILDLIRERG--GRITQAELRRALG-L----SKTTVSRILRRLEKRGLIEKEK 244 (258)
T ss_pred HHHHHHHHHHhC--CEEeHHHHHHhhC-C----ChHHHHHHHHHHHhCCceEEEE
Confidence 445788888876 7899999999999 9 9999999999999999999864
No 297
>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=87.08 E-value=0.53 Score=43.14 Aligned_cols=24 Identities=17% Similarity=0.163 Sum_probs=21.6
Q ss_pred CCCceEEEccCChhHHHHHHHHHC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKY 195 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~ 195 (231)
...+++||||||.|.|+..+++++
T Consensus 116 g~iR~~LDvGcG~aSF~a~l~~r~ 139 (506)
T PF03141_consen 116 GGIRTALDVGCGVASFGAYLLERN 139 (506)
T ss_pred CceEEEEeccceeehhHHHHhhCC
Confidence 357999999999999999999984
No 298
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=87.00 E-value=1.3 Score=35.55 Aligned_cols=85 Identities=13% Similarity=0.072 Sum_probs=55.9
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCc---ccccchhhccccCCC
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQR---LYGLNDVSNYFVPNK 108 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~---~y~~t~~s~~L~~~~ 108 (231)
..|.-.|... +++|..+||+.+. + +...+.+++.-|...|++++..... +. ...+|+.++.+...-
T Consensus 48 ~~iL~~L~~~---~~itq~eLa~~l~-l----~~sTvtr~l~rLE~kGlI~R~~~~~---DrR~~~I~LTekG~~l~~~l 116 (185)
T PRK13777 48 HHILWIAYHL---KGASISEIAKFGV-M----HVSTAFNFSKKLEERGYLTFSKKED---DKRNTYIELTEKGEELLLET 116 (185)
T ss_pred HHHHHHHHhC---CCcCHHHHHHHHC-C----CHhhHHHHHHHHHHCCCEEecCCCC---CCCeeEEEECHHHHHHHHHH
Confidence 3566667665 5899999999999 9 8899999999999999999863211 22 255777776443321
Q ss_pred CCCchhhHHHHHhcCCChhh
Q 047000 109 DGSYRSQLKEAITEGGVPFD 128 (231)
Q Consensus 109 ~~~~~~~L~~~l~~g~~~~~ 128 (231)
. ..+....+.+..|-++..
T Consensus 117 ~-~~~~~~e~~~~~~~s~~~ 135 (185)
T PRK13777 117 M-EEYDPENNSVFNGALPLR 135 (185)
T ss_pred H-HHHHHHHHHHHhcccHHH
Confidence 0 013344444444544433
No 299
>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=86.87 E-value=0.82 Score=29.60 Aligned_cols=36 Identities=25% Similarity=0.366 Sum_probs=31.6
Q ss_pred CCCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 44 GAKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 44 ~~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
|..+ |..+||+..+ + +...+++.|+.|...|+++..
T Consensus 21 g~~lps~~~la~~~~-v----sr~tvr~al~~L~~~g~i~~~ 57 (64)
T PF00392_consen 21 GDRLPSERELAERYG-V----SRTTVREALRRLEAEGLIERR 57 (64)
T ss_dssp TSBE--HHHHHHHHT-S-----HHHHHHHHHHHHHTTSEEEE
T ss_pred CCEeCCHHHHHHHhc-c----CCcHHHHHHHHHHHCCcEEEE
Confidence 3678 9999999999 9 999999999999999999985
No 300
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=86.86 E-value=1.3 Score=34.90 Aligned_cols=47 Identities=17% Similarity=0.097 Sum_probs=40.6
Q ss_pred CCCHHHHHHhC--CCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcc
Q 047000 46 KLSASEIAAQL--PATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNY 103 (231)
Q Consensus 46 ~~t~~eLA~~~--g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~ 103 (231)
.-++.+||+++ + + +..-++.-|..|..+|++++. + +|.|..|..+-.
T Consensus 39 ~~d~~~iak~l~p~-i----s~~ev~~sL~~L~~~gli~k~---~---~g~y~~t~~~l~ 87 (171)
T PF14394_consen 39 APDPEWIAKRLRPK-I----SAEEVRDSLEFLEKLGLIKKD---G---DGKYVQTDKSLT 87 (171)
T ss_pred CCCHHHHHHHhcCC-C----CHHHHHHHHHHHHHCCCeEEC---C---CCcEEEecceee
Confidence 34999999999 8 8 999999999999999999994 3 679988876654
No 301
>KOG4589 consensus Cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning]
Probab=86.86 E-value=1.6 Score=35.07 Aligned_cols=42 Identities=17% Similarity=0.252 Sum_probs=33.8
Q ss_pred HHhCCCCCCCceEEEccCChhHHHHHHHHHC-CCCeEEEeech
Q 047000 165 LEAYKGFEHIQQLVDVGGCLGNTLKAITSKY-PHIKGINFDLP 206 (231)
Q Consensus 165 ~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~-P~l~~~v~Dlp 206 (231)
-+.|.-+....+|+|+|+..|..+.-..++. |+=.+..+|+=
T Consensus 61 ndKy~~l~p~~~VlD~G~APGsWsQVavqr~~p~g~v~gVDll 103 (232)
T KOG4589|consen 61 NDKYRFLRPEDTVLDCGAAPGSWSQVAVQRVNPNGMVLGVDLL 103 (232)
T ss_pred hhhccccCCCCEEEEccCCCChHHHHHHHhhCCCceEEEEeee
Confidence 3445534578999999999999998888776 99888999973
No 302
>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins.; PDB: 3GIW_A 3GO4_A 2QE6_A.
Probab=86.05 E-value=2.1 Score=36.28 Aligned_cols=56 Identities=25% Similarity=0.350 Sum_probs=32.2
Q ss_pred CCceEEEccCChhH---HHHHHHHHCCCCeEEEeec-hHHHhhCCC----CCC--ceEeecCCCCC
Q 047000 173 HIQQLVDVGGCLGN---TLKAITSKYPHIKGINFDL-PHVIQHAPK----YPG--VEHVGGDMFQN 228 (231)
Q Consensus 173 ~~~~vvDVGGG~G~---~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~----~~r--i~~~~gDff~~ 228 (231)
++..+||||+|.-+ .-.-..+..|+.+++=.|. |-|+..++. .++ ..++.+|+.++
T Consensus 68 GIrQFLDlGsGlPT~~nvHevAq~~~P~aRVVYVD~DPvv~ah~ralL~~~~~g~t~~v~aD~r~p 133 (267)
T PF04672_consen 68 GIRQFLDLGSGLPTAGNVHEVAQRVAPDARVVYVDNDPVVLAHARALLADNPRGRTAYVQADLRDP 133 (267)
T ss_dssp ---EEEEET--S--SS-HHHHHHHH-TT-EEEEEESSHHHHHCCHHHHTT-TTSEEEEEE--TT-H
T ss_pred CcceEEEcccCCCCCCCHhHHHHhhCCCceEEEECCCchHHHHHHhhhcCCCCccEEEEeCCCCCH
Confidence 78999999999753 3333355689999999997 557777654 344 89999999864
No 303
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=85.82 E-value=1.1 Score=40.54 Aligned_cols=34 Identities=24% Similarity=0.151 Sum_probs=32.9
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
+|.|.++|+++++ + +++.++++|+.|...|++.+
T Consensus 309 ~~~t~~~La~~l~-~----~~~~v~~iL~~L~~agLI~~ 342 (412)
T PRK04214 309 KALDVDEIRRLEP-M----GYDELGELLCELARIGLLRR 342 (412)
T ss_pred CCCCHHHHHHHhC-C----CHHHHHHHHHHHHhCCCeEe
Confidence 6999999999999 9 99999999999999999997
No 304
>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=84.80 E-value=1.5 Score=31.11 Aligned_cols=41 Identities=17% Similarity=0.154 Sum_probs=34.7
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHh
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLAS 77 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~ 77 (231)
.+.+++|+..|-. +++|..|||+++| + +...+.|+=+.|..
T Consensus 41 l~~R~~i~~~Ll~----~~~tQrEIa~~lG-i----S~atIsR~sn~lk~ 81 (94)
T TIGR01321 41 LGDRIRIVNELLN----GNMSQREIASKLG-V----SIATITRGSNNLKT 81 (94)
T ss_pred HHHHHHHHHHHHh----CCCCHHHHHHHhC-C----ChhhhhHHHhhccc
Confidence 5678999999987 5899999999999 9 88888887776653
No 305
>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=84.30 E-value=1.5 Score=28.49 Aligned_cols=43 Identities=23% Similarity=0.348 Sum_probs=36.0
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
.|++.|-.. |..|+.+|++.++ + +++.++.-|-.|...+++..
T Consensus 17 ~V~~~Ll~~---G~ltl~~i~~~t~-l----~~~~Vk~~L~~LiQh~~v~y 59 (62)
T PF08221_consen 17 KVGEVLLSR---GRLTLREIVRRTG-L----SPKQVKKALVVLIQHNLVQY 59 (62)
T ss_dssp HHHHHHHHC----SEEHHHHHHHHT-------HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHc---CCcCHHHHHHHhC-C----CHHHHHHHHHHHHHcCCeee
Confidence 367788776 5999999999999 9 99999999999999999876
No 306
>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=84.05 E-value=2.1 Score=35.96 Aligned_cols=79 Identities=14% Similarity=0.199 Sum_probs=49.6
Q ss_pred HHHHHHHhchhhhH----HHHHHhCCCCCCCceEEEccCChhHHHHHHHHH-CCCCeEEEeech-HHHhhCCC-------
Q 047000 148 VFNIAMYNYTNLVI----QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSK-YPHIKGINFDLP-HVIQHAPK------- 214 (231)
Q Consensus 148 ~f~~~m~~~~~~~~----~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~-~P~l~~~v~Dlp-~vi~~a~~------- 214 (231)
.|...|...++... ..|+-.++ .....+||+.|-|+|.++..|++. .|+=+..-+|.- +-++.|++
T Consensus 12 ~~~~~l~rrtQIiYpkD~~~I~~~l~-i~pG~~VlEaGtGSG~lt~~l~r~v~p~G~v~t~E~~~~~~~~A~~n~~~~gl 90 (247)
T PF08704_consen 12 LWTLSLPRRTQIIYPKDISYILMRLD-IRPGSRVLEAGTGSGSLTHALARAVGPTGHVYTYEFREDRAEKARKNFERHGL 90 (247)
T ss_dssp HHHHTS-SSS----HHHHHHHHHHTT---TT-EEEEE--TTSHHHHHHHHHHTTTSEEEEEESSHHHHHHHHHHHHHTTC
T ss_pred HHHHhccCCcceeeCchHHHHHHHcC-CCCCCEEEEecCCcHHHHHHHHHHhCCCeEEEccccCHHHHHHHHHHHHHcCC
Confidence 56666666666442 24555666 778999999999999999999975 688888999974 34444433
Q ss_pred CCCceEeecCCCC
Q 047000 215 YPGVEHVGGDMFQ 227 (231)
Q Consensus 215 ~~ri~~~~gDff~ 227 (231)
.+.|++...|+-+
T Consensus 91 ~~~v~~~~~Dv~~ 103 (247)
T PF08704_consen 91 DDNVTVHHRDVCE 103 (247)
T ss_dssp CTTEEEEES-GGC
T ss_pred CCCceeEecceec
Confidence 2678888888753
No 307
>PF13730 HTH_36: Helix-turn-helix domain
Probab=83.92 E-value=1.4 Score=27.38 Aligned_cols=29 Identities=17% Similarity=0.284 Sum_probs=27.5
Q ss_pred CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcc
Q 047000 48 SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAV 81 (231)
Q Consensus 48 t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l 81 (231)
|.+.||+.+| + ..+.+.+.+..|...|++
T Consensus 27 S~~~la~~~g-~----s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 27 SQETLAKDLG-V----SRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CHHHHHHHHC-c----CHHHHHHHHHHHHHCcCC
Confidence 8999999999 9 999999999999999975
No 308
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=83.87 E-value=1.2 Score=30.24 Aligned_cols=35 Identities=20% Similarity=0.314 Sum_probs=25.0
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHH
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLA 76 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~ 76 (231)
|+..|+. | +|+|.++||..+| + +.+.+...|..+-
T Consensus 29 LLr~LA~-G--~PVt~~~LA~a~g-~----~~e~v~~~L~~~p 63 (77)
T PF12324_consen 29 LLRLLAK-G--QPVTVEQLAAALG-W----PVEEVRAALAAMP 63 (77)
T ss_dssp HHHHHTT-T--S-B-HHHHHHHHT-------HHHHHHHHHH-T
T ss_pred HHHHHHc-C--CCcCHHHHHHHHC-C----CHHHHHHHHHhCC
Confidence 7778887 4 8999999999999 8 8787777777765
No 309
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=83.77 E-value=1.8 Score=36.36 Aligned_cols=46 Identities=13% Similarity=0.200 Sum_probs=41.0
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+..|.+.|.+. +.++.+|||+.++ + ++.-++|-|+.|...|++.+.
T Consensus 7 ~~~Il~~l~~~---~~~~~~ela~~l~-v----S~~TirRdL~~Le~~g~i~r~ 52 (251)
T PRK13509 7 HQILLELLAQL---GFVTVEKVIERLG-I----SPATARRDINKLDESGKLKKV 52 (251)
T ss_pred HHHHHHHHHHc---CCcCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEe
Confidence 34478888876 5899999999999 9 999999999999999999984
No 310
>COG4565 CitB Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]
Probab=83.60 E-value=1.8 Score=35.39 Aligned_cols=44 Identities=30% Similarity=0.421 Sum_probs=37.4
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
|.+.|.. ++.+.|++|+|+++| + +.--.+|-|.+|++.|+++.+
T Consensus 163 i~~~~~~--~~~~~Taeela~~~g-i----SRvTaRRYLeyl~~~~~l~a~ 206 (224)
T COG4565 163 VREALKE--PDQELTAEELAQALG-I----SRVTARRYLEYLVSNGILEAE 206 (224)
T ss_pred HHHHHhC--cCCccCHHHHHHHhC-c----cHHHHHHHHHHHHhcCeeeEE
Confidence 5566663 237999999999999 9 888999999999999999864
No 311
>PF12793 SgrR_N: Sugar transport-related sRNA regulator N-term
Probab=82.82 E-value=1.5 Score=32.31 Aligned_cols=36 Identities=11% Similarity=0.117 Sum_probs=33.8
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
.++|++|||+.+. + .++.++.+|+.|...|.++-.+
T Consensus 18 ~~vtl~elA~~l~-c----S~Rn~r~lLkkm~~~gWi~W~p 53 (115)
T PF12793_consen 18 VEVTLDELAELLF-C----SRRNARTLLKKMQEEGWITWQP 53 (115)
T ss_pred cceeHHHHHHHhC-C----CHHHHHHHHHHHHHCCCeeeeC
Confidence 5789999999999 9 9999999999999999999864
No 312
>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=82.20 E-value=1.4 Score=36.04 Aligned_cols=57 Identities=16% Similarity=0.139 Sum_probs=38.8
Q ss_pred CCCCceEEEccCChhHHHHHHHHH--CCCCeEEEeec-hHHHhhCCCC----------------CCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSK--YPHIKGINFDL-PHVIQHAPKY----------------PGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~--~P~l~~~v~Dl-p~vi~~a~~~----------------~ri~~~~gDff~ 227 (231)
+....++||||+|+|.+...++.- -|....+.+|+ |++++.++++ .+++++.||-.+
T Consensus 80 L~pG~s~LdvGsGSGYLt~~~~~mvg~~g~~~~GIEh~~eLVe~Sk~nl~k~i~~~e~~~~~~~~~l~ivvGDgr~ 155 (237)
T KOG1661|consen 80 LQPGASFLDVGSGSGYLTACFARMVGATGGNVHGIEHIPELVEYSKKNLDKDITTSESSSKLKRGELSIVVGDGRK 155 (237)
T ss_pred hccCcceeecCCCccHHHHHHHHHhcCCCccccchhhhHHHHHHHHHHHHhhccCchhhhhhccCceEEEeCCccc
Confidence 445778999999999988777643 23333366675 7777665431 568888888654
No 313
>PHA02701 ORF020 dsRNA-binding PKR inhibitor; Provisional
Probab=81.83 E-value=3.6 Score=32.74 Aligned_cols=60 Identities=23% Similarity=0.297 Sum_probs=47.3
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchh
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDV 100 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~ 100 (231)
.+..|.|.|...| ...|+-+||+++| + +...+.|-|.-|...+.|...+.. +.+|..+..
T Consensus 5 ~~~~i~~~l~~~~--~~~~a~~i~k~l~-i----~k~~vNr~LY~L~~~~~v~~~~~~----pP~W~~~~~ 64 (183)
T PHA02701 5 CASLILTLLSSSG--DKLPAKRIAKELG-I----SKHEANRCLYRLLESDAVSCEDGC----PPLWSVECE 64 (183)
T ss_pred HHHHHHHHHHhcC--CCCcHHHHHHHhC-c----cHHHHHHHHHHHhhcCcEecCCCC----CCccccccC
Confidence 4667899999875 3699999999999 9 888899999999999999764211 456555444
No 314
>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=81.69 E-value=3.7 Score=27.51 Aligned_cols=43 Identities=19% Similarity=0.163 Sum_probs=38.1
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|...|+. +..|+++|-+.+| + +...|...|.-|...|++++.
T Consensus 9 ~IL~~ls~----~c~TLeeL~ekTg-i----~k~~LlV~LsrL~k~GiI~Rk 51 (72)
T PF05584_consen 9 KILIILSK----RCCTLEELEEKTG-I----SKNTLLVYLSRLAKRGIIERK 51 (72)
T ss_pred HHHHHHHh----ccCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCeeee
Confidence 45566776 5899999999999 9 999999999999999999985
No 315
>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=81.39 E-value=3.7 Score=32.53 Aligned_cols=56 Identities=20% Similarity=0.268 Sum_probs=41.8
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCC----C-----CCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPK----Y-----PGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~----~-----~ri~~~~gDff~ 227 (231)
++...||-+|||-=+....+...+++++.+=+|+|+|++.=++ . ...++++.|+.+
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 3566999999999999999999999999999999999876433 1 236789999985
No 316
>PRK01381 Trp operon repressor; Provisional
Probab=81.37 E-value=2.2 Score=30.51 Aligned_cols=41 Identities=20% Similarity=0.193 Sum_probs=33.9
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHh
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLAS 77 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~ 77 (231)
.+.+++|+..|.. +.+|..|||+.+| + ....+.|.=+.|-.
T Consensus 41 l~~R~~I~~~L~~----g~~sQREIa~~lG-v----SiaTITRgsn~Lk~ 81 (99)
T PRK01381 41 LGTRVRIVEELLR----GELSQREIKQELG-V----GIATITRGSNSLKT 81 (99)
T ss_pred HHHHHHHHHHHHc----CCcCHHHHHHHhC-C----ceeeehhhHHHhcc
Confidence 4679999999998 6899999999999 8 77777776666643
No 317
>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=81.18 E-value=5.2 Score=34.86 Aligned_cols=64 Identities=13% Similarity=0.167 Sum_probs=42.2
Q ss_pred HHHHHhCCCCCCCceEEEccCChhHHHHHHHHHC----CCCeEEEeechH-HH----hhCC--CCCCceE--eecCCCCC
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKY----PHIKGINFDLPH-VI----QHAP--KYPGVEH--VGGDMFQN 228 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~----P~l~~~v~Dlp~-vi----~~a~--~~~ri~~--~~gDff~~ 228 (231)
..++..++ ....|||+|||.|.=..-|++.. ...+.+-+|+.. .+ +... .++.|++ +.|||...
T Consensus 68 ~~Ia~~i~---~~~~lIELGsG~~~Kt~~LL~aL~~~~~~~~Y~plDIS~~~L~~a~~~L~~~~~p~l~v~~l~gdy~~~ 144 (319)
T TIGR03439 68 SDIAASIP---SGSMLVELGSGNLRKVGILLEALERQKKSVDYYALDVSRSELQRTLAELPLGNFSHVRCAGLLGTYDDG 144 (319)
T ss_pred HHHHHhcC---CCCEEEEECCCchHHHHHHHHHHHhcCCCceEEEEECCHHHHHHHHHhhhhccCCCeEEEEEEecHHHH
Confidence 45555544 45689999999999766655554 356789999852 33 3333 2366665 78888664
No 318
>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=80.70 E-value=2.2 Score=31.25 Aligned_cols=55 Identities=22% Similarity=0.255 Sum_probs=42.6
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCC-CCCCcchHHHHHHHHHhCCcccccc
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATK-NKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~-~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
+.-+.-|++.|...+ ++.|+++|-+.+. -. .+.+..-+.|.|+.|...|++.+..
T Consensus 7 T~~R~~Il~~l~~~~--~~~ta~ei~~~l~-~~~~~is~~TVYR~L~~L~e~Gli~~~~ 62 (120)
T PF01475_consen 7 TPQRLAILELLKESP--EHLTAEEIYDKLR-KKGPRISLATVYRTLDLLEEAGLIRKIE 62 (120)
T ss_dssp HHHHHHHHHHHHHHS--SSEEHHHHHHHHH-HTTTT--HHHHHHHHHHHHHTTSEEEEE
T ss_pred CHHHHHHHHHHHcCC--CCCCHHHHHHHhh-hccCCcCHHHHHHHHHHHHHCCeEEEEE
Confidence 445777899998865 6999999999885 21 1226667999999999999999864
No 319
>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=80.60 E-value=2.5 Score=27.80 Aligned_cols=60 Identities=17% Similarity=0.205 Sum_probs=40.5
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
.+-.|.+.|...| +.++..||...| +. .+...+.++|..|...|.+.+... . +-.|+++.
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---GSTATAIAKALG-LS--VPKKEVNRVLYRLEKQGKVCKEGG-T---PPKWSLTE 64 (66)
T ss_dssp HHHHHHHHHHHHT---SSEEEHHHHHHH-HT--S-HHHHHHHHHHHHHTTSEEEECS-S---STEEEE-H
T ss_pred HHHHHHHHHHhcC---CccHHHHHHHhC-cc--hhHHHHHHHHHHHHHCCCEeeCCC-C---CCceEecc
Confidence 4567888998874 455555555555 40 057899999999999999998531 1 56777664
No 320
>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=80.49 E-value=2.8 Score=35.44 Aligned_cols=36 Identities=11% Similarity=0.139 Sum_probs=32.0
Q ss_pred CCCCceEEEccCChhHHHHHHHHHC-----CCCeEEEeech
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKY-----PHIKGINFDLP 206 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~-----P~l~~~v~Dlp 206 (231)
+.+...+|+.|+|.|.++..+.+.. +..+++++|+-
T Consensus 16 l~~~~~~vEfGaGrg~LS~~v~~~~~~~~~~~~~~~lIDR~ 56 (259)
T PF05206_consen 16 LNPDSCFVEFGAGRGELSRWVAQALQEDKPSNSRFVLIDRA 56 (259)
T ss_pred CCCCCEEEEECCCchHHHHHHHHHhhhcccCCccEEEEecC
Confidence 5677899999999999999999999 66789999984
No 321
>COG1510 Predicted transcriptional regulators [Transcription]
Probab=80.24 E-value=2 Score=33.81 Aligned_cols=35 Identities=23% Similarity=0.173 Sum_probs=33.5
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+|+|++||++++| . +...+..-++.|...+++.+.
T Consensus 40 ~Pmtl~Ei~E~lg-~----Sks~vS~~lkkL~~~~lV~~~ 74 (177)
T COG1510 40 KPLTLDEIAEALG-M----SKSNVSMGLKKLQDWNLVKKV 74 (177)
T ss_pred CCccHHHHHHHHC-C----CcchHHHHHHHHHhcchHHhh
Confidence 7999999999999 9 999999999999999999985
No 322
>COG0116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]
Probab=80.08 E-value=3 Score=37.16 Aligned_cols=65 Identities=20% Similarity=0.096 Sum_probs=49.6
Q ss_pred HHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCe---------------------------------------EE
Q 047000 161 IQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIK---------------------------------------GI 201 (231)
Q Consensus 161 ~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~---------------------------------------~~ 201 (231)
+..++..-. |.+...++|==||+|+++++.+-..+++- .+
T Consensus 180 AaAil~lag-w~~~~pl~DPmCGSGTi~IEAAl~~~niAPg~~R~~~f~~w~~~~~~lw~~~~~ea~~~a~~~~~~~~~~ 258 (381)
T COG0116 180 AAAILLLAG-WKPDEPLLDPMCGSGTILIEAALIAANIAPGLNRRFGFEFWDWFDKDLWDKLREEAEERARRGKELPIIY 258 (381)
T ss_pred HHHHHHHcC-CCCCCccccCCCCccHHHHHHHHhccccCCccccccchhhhhhccHHHHHHHHHHHHHHHhhcCccceEE
Confidence 445555445 88789999999999999999998886422 56
Q ss_pred Eeec-hHHHhhCCCC-------CCceEeecCCC
Q 047000 202 NFDL-PHVIQHAPKY-------PGVEHVGGDMF 226 (231)
Q Consensus 202 v~Dl-p~vi~~a~~~-------~ri~~~~gDff 226 (231)
..|. |.+++.|+.+ +.|+|..+|+-
T Consensus 259 G~Did~r~i~~Ak~NA~~AGv~d~I~f~~~d~~ 291 (381)
T COG0116 259 GSDIDPRHIEGAKANARAAGVGDLIEFKQADAT 291 (381)
T ss_pred EecCCHHHHHHHHHHHHhcCCCceEEEEEcchh
Confidence 8887 4577776653 77999988864
No 323
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=79.84 E-value=2 Score=26.10 Aligned_cols=39 Identities=15% Similarity=0.216 Sum_probs=23.1
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCC
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHS 79 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g 79 (231)
++.+...+.+ +.|..+||+.+| + +...+.+|++.....|
T Consensus 7 R~~ii~l~~~-----G~s~~~ia~~lg-v----s~~Tv~~w~kr~~~~G 45 (50)
T PF13384_consen 7 RAQIIRLLRE-----GWSIREIAKRLG-V----SRSTVYRWIKRYREEG 45 (50)
T ss_dssp ---HHHHHHH-----T--HHHHHHHHT-S-----HHHHHHHHT------
T ss_pred HHHHHHHHHC-----CCCHHHHHHHHC-c----CHHHHHHHHHHccccc
Confidence 4455555665 589999999999 9 9999999988766555
No 324
>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=79.83 E-value=1.7 Score=40.40 Aligned_cols=40 Identities=15% Similarity=0.178 Sum_probs=30.8
Q ss_pred CCceEEEccCChhHHHHHHHHHCCC--------CeEEEeechH-HHhhC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPH--------IKGINFDLPH-VIQHA 212 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~--------l~~~v~Dlp~-vi~~a 212 (231)
...+|+|.+||+|.++.+++++.+. +....+|+.+ +++.+
T Consensus 31 ~~~~ilDP~cGsG~fl~~~~~~~~~~~~~~~~~~~i~g~DId~~a~~~a 79 (524)
T TIGR02987 31 TKTKIIDPCCGDGRLIAALLKKNEEINYFKEVELNIYFADIDKTLLKRA 79 (524)
T ss_pred cceEEEeCCCCccHHHHHHHHHHHhcCCcccceeeeeeechhHHHHHHH
Confidence 4568999999999999999988763 4568888743 44443
No 325
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=79.82 E-value=2.6 Score=35.42 Aligned_cols=46 Identities=17% Similarity=0.296 Sum_probs=41.0
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+..|.+.|.+. +.++..|||+.++ + ++.-++|-|..|...|++.+.
T Consensus 7 ~~~Il~~l~~~---~~~~~~ela~~l~-v----S~~TiRRdL~~Le~~g~l~r~ 52 (252)
T PRK10906 7 HDAIIELVKQQ---GYVSTEELVEHFS-V----SPQTIRRDLNDLAEQNKILRH 52 (252)
T ss_pred HHHHHHHHHHc---CCEeHHHHHHHhC-C----CHHHHHHHHHHHHHCCCEEEe
Confidence 44577888776 5899999999999 9 999999999999999999984
No 326
>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=79.61 E-value=2.1 Score=33.67 Aligned_cols=47 Identities=17% Similarity=0.200 Sum_probs=41.0
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNY 103 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~ 103 (231)
-.|..+||+.++ + +...+.|.+..|...+++.+. . .|.|.++|.-.+
T Consensus 75 ~~t~~~ia~~l~-i----S~~Tv~r~ik~L~e~~iI~k~---~---~G~Y~iNP~~~~ 121 (165)
T PF05732_consen 75 VATQKEIAEKLG-I----SKPTVSRAIKELEEKNIIKKI---R---NGAYMINPNFFF 121 (165)
T ss_pred EeeHHHHHHHhC-C----CHHHHHHHHHHHHhCCcEEEc---c---CCeEEECcHHhe
Confidence 358999999999 9 999999999999999999984 2 689999986554
No 327
>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=79.34 E-value=3.1 Score=24.94 Aligned_cols=23 Identities=30% Similarity=0.333 Sum_probs=17.6
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHH
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLR 73 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~ 73 (231)
+.|..+||+.+| + ...-+.|+|+
T Consensus 21 G~si~~IA~~~g-v----sr~TvyR~l~ 43 (45)
T PF02796_consen 21 GMSIAEIAKQFG-V----SRSTVYRYLN 43 (45)
T ss_dssp T--HHHHHHHTT-S-----HHHHHHHHC
T ss_pred CCCHHHHHHHHC-c----CHHHHHHHHh
Confidence 499999999999 9 8888888874
No 328
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=79.30 E-value=2.9 Score=32.07 Aligned_cols=41 Identities=17% Similarity=0.274 Sum_probs=35.5
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAV 81 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l 81 (231)
-|+|+|-.+ +.+|-++||+.+| + +...++++|..|..-+++
T Consensus 5 ~v~d~L~~~---~~~~dedLa~~l~-i----~~n~vRkiL~~L~ed~~~ 45 (147)
T smart00531 5 LVLDALMRN---GCVTEEDLAELLG-I----KQKQLRKILYLLYDEKLI 45 (147)
T ss_pred eehHHHHhc---CCcCHHHHHHHhC-C----CHHHHHHHHHHHHhhhcc
Confidence 478888776 5899999999999 9 999999999999994443
No 329
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=78.98 E-value=1.8 Score=35.27 Aligned_cols=43 Identities=19% Similarity=0.257 Sum_probs=34.4
Q ss_pred hHHHHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHH
Q 047000 21 VLPMAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRL 74 (231)
Q Consensus 21 ~~~~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~ 74 (231)
..-.+|+.|++.|-||.=. .+++.|||+.+| + .+..+...||-
T Consensus 159 rQ~~vL~~A~~~GYFd~PR------~~~l~dLA~~lG-I----Skst~~ehLRr 201 (215)
T COG3413 159 RQLEVLRLAYKMGYFDYPR------RVSLKDLAKELG-I----SKSTLSEHLRR 201 (215)
T ss_pred HHHHHHHHHHHcCCCCCCc------cCCHHHHHHHhC-C----CHHHHHHHHHH
Confidence 4567999999999999643 589999999999 9 77766555554
No 330
>PRK09954 putative kinase; Provisional
Probab=78.78 E-value=3.3 Score=36.35 Aligned_cols=45 Identities=13% Similarity=0.169 Sum_probs=39.9
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
+..|.+.|.++ +.+|..+||+.++ + ....+.+.++.|...|++..
T Consensus 5 ~~~il~~l~~~---~~~s~~~la~~l~-~----s~~~v~~~i~~L~~~g~i~~ 49 (362)
T PRK09954 5 EKEILAILRRN---PLIQQNEIADILQ-I----SRSRVAAHIMDLMRKGRIKG 49 (362)
T ss_pred HHHHHHHHHHC---CCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCcCC
Confidence 44588888886 5999999999999 9 99999999999999999863
No 331
>PF13518 HTH_28: Helix-turn-helix domain
Probab=78.35 E-value=4.3 Score=24.57 Aligned_cols=29 Identities=17% Similarity=0.142 Sum_probs=26.7
Q ss_pred CCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCc
Q 047000 47 LSASEIAAQLPATKNKDAPMMLDRMLRLLASHSA 80 (231)
Q Consensus 47 ~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~ 80 (231)
.|..++|+..| + +...+.+|++.....|+
T Consensus 13 ~s~~~~a~~~g-i----s~~tv~~w~~~y~~~G~ 41 (52)
T PF13518_consen 13 ESVREIAREFG-I----SRSTVYRWIKRYREGGI 41 (52)
T ss_pred CCHHHHHHHHC-C----CHhHHHHHHHHHHhcCH
Confidence 49999999999 9 99999999999988775
No 332
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=78.06 E-value=3.7 Score=32.56 Aligned_cols=45 Identities=18% Similarity=0.224 Sum_probs=40.0
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.-|++.|.+. +-+|-++||..+| + ...-++|+|..|...|++...
T Consensus 21 ~~v~~~l~~k---ge~tDeela~~l~-i----~~~~vrriL~~L~e~~li~~~ 65 (176)
T COG1675 21 VLVVDALLEK---GELTDEELAELLG-I----KKNEVRRILYALYEDGLISYR 65 (176)
T ss_pred hHHHHHHHhc---CCcChHHHHHHhC-c----cHHHHHHHHHHHHhCCceEEE
Confidence 4578888885 3799999999999 9 999999999999999999964
No 333
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=77.55 E-value=3.3 Score=35.10 Aligned_cols=47 Identities=6% Similarity=0.133 Sum_probs=42.0
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
-...|.+.|... +.+++.|||+.++ + ++.-++|=|..|...|++.+.
T Consensus 18 R~~~Il~~L~~~---~~vtv~eLa~~l~-V----S~~TIRRDL~~Le~~G~l~r~ 64 (269)
T PRK09802 18 RREQIIQRLRQQ---GSVQVNDLSALYG-V----STVTIRNDLAFLEKQGIAVRA 64 (269)
T ss_pred HHHHHHHHHHHc---CCEeHHHHHHHHC-C----CHHHHHHHHHHHHhCCCeEEE
Confidence 445688889886 5899999999999 9 999999999999999999984
No 334
>KOG3045 consensus Predicted RNA methylase involved in rRNA processing [RNA processing and modification]
Probab=77.30 E-value=4.7 Score=34.18 Aligned_cols=52 Identities=12% Similarity=0.121 Sum_probs=32.0
Q ss_pred cCCCCchHHHHHHHHHHh----chhhhHHHHHHhCCCCCCCceEEEccCChhHHHH
Q 047000 138 YPGLDPRFNEVFNIAMYN----YTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLK 189 (231)
Q Consensus 138 ~l~~~~~~~~~f~~~m~~----~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~ 189 (231)
...++|..-..|+.+.+. +-......+++.+..-++...|.|+|||.+-++.
T Consensus 141 lfkedp~afdlYH~gfr~QV~kWP~nPld~ii~~ik~r~~~~vIaD~GCGEakiA~ 196 (325)
T KOG3045|consen 141 LFKEDPTAFDLYHAGFRSQVKKWPENPLDVIIRKIKRRPKNIVIADFGCGEAKIAS 196 (325)
T ss_pred HHhcCcHHHHHHHHHHHHHHHhCCCChHHHHHHHHHhCcCceEEEecccchhhhhh
Confidence 345666655555555443 3222334455544423567899999999999886
No 335
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=77.20 E-value=3.5 Score=32.41 Aligned_cols=54 Identities=19% Similarity=0.209 Sum_probs=43.4
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCC-CCCCcchHHHHHHHHHhCCccccc
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATK-NKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~-~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+--+.-|++.|.... +++|+++|.+.+. -. .+.+..-++|.|+.|+..|++.+.
T Consensus 25 T~qR~~IL~~l~~~~--~hlSa~eI~~~L~-~~~~~is~aTVYRtL~~L~e~Glv~~~ 79 (169)
T PRK11639 25 TPQRLEVLRLMSLQP--GAISAYDLLDLLR-EAEPQAKPPTVYRALDFLLEQGFVHKV 79 (169)
T ss_pred CHHHHHHHHHHHhcC--CCCCHHHHHHHHH-hhCCCCCcchHHHHHHHHHHCCCEEEE
Confidence 455677899998754 7999999999987 21 223677899999999999999986
No 336
>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=77.06 E-value=2 Score=38.35 Aligned_cols=53 Identities=11% Similarity=0.124 Sum_probs=38.6
Q ss_pred CceEEEccCChhHHHHHHHHHCCCC-eEEEeec-hHHHhhCCCC------CCceEeecCCC
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYPHI-KGINFDL-PHVIQHAPKY------PGVEHVGGDMF 226 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P~l-~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff 226 (231)
..+++|.-+|+|..+++++++.++. +++..|+ |.+++.++.+ ..++++.+|.+
T Consensus 45 ~~~vLD~faGsG~rgir~a~e~~ga~~Vv~nD~n~~Av~~i~~N~~~N~~~~~~v~~~Da~ 105 (374)
T TIGR00308 45 YINIADALSASGIRAIRYAHEIEGVREVFANDINPKAVESIKNNVEYNSVENIEVPNEDAA 105 (374)
T ss_pred CCEEEECCCchhHHHHHHHhhCCCCCEEEEEeCCHHHHHHHHHHHHHhCCCcEEEEchhHH
Confidence 3589999999999999999997765 4788897 5566665442 23555555543
No 337
>KOG2651 consensus rRNA adenine N-6-methyltransferase [RNA processing and modification]
Probab=76.69 E-value=4.2 Score=36.26 Aligned_cols=38 Identities=24% Similarity=0.362 Sum_probs=31.9
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHH
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVI 209 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi 209 (231)
|.+...+||||.|.|+++.-+.=.| ++++..+|-.++.
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 7789999999999999998887776 7888888866544
No 338
>PF00165 HTH_AraC: Bacterial regulatory helix-turn-helix proteins, AraC family; PDB: 1WPK_A 1ZGW_A 1U8B_A.
Probab=76.67 E-value=1.9 Score=25.29 Aligned_cols=28 Identities=25% Similarity=0.385 Sum_probs=21.5
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHh
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLAS 77 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~ 77 (231)
.+.++++||..+| . ++..+.|+.+....
T Consensus 7 ~~~~l~~iA~~~g-~----S~~~f~r~Fk~~~g 34 (42)
T PF00165_consen 7 QKLTLEDIAEQAG-F----SPSYFSRLFKKETG 34 (42)
T ss_dssp SS--HHHHHHHHT-S-----HHHHHHHHHHHTS
T ss_pred CCCCHHHHHHHHC-C----CHHHHHHHHHHHHC
Confidence 4799999999999 9 99999998876543
No 339
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=76.66 E-value=3.1 Score=33.17 Aligned_cols=33 Identities=21% Similarity=0.418 Sum_probs=31.8
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
++|-++||..+| + .+..+.|+|..|...|++..
T Consensus 168 ~~t~~~lA~~lG-~----tr~tvsR~l~~l~~~gii~~ 200 (211)
T PRK11753 168 KITRQEIGRIVG-C----SREMVGRVLKMLEDQGLISA 200 (211)
T ss_pred CCCHHHHHHHhC-C----CHHHHHHHHHHHHHCCCEEe
Confidence 788999999999 9 99999999999999999997
No 340
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=76.40 E-value=4.2 Score=33.87 Aligned_cols=46 Identities=15% Similarity=0.257 Sum_probs=40.4
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+..|.+.|.+. +.++.+|||+.++ + ++.-++|-|..|...|.+.+.
T Consensus 6 ~~~Il~~l~~~---~~~~~~eLa~~l~-V----S~~TiRRdL~~L~~~~~l~r~ 51 (240)
T PRK10411 6 QQAIVDLLLNH---TSLTTEALAEQLN-V----SKETIRRDLNELQTQGKILRN 51 (240)
T ss_pred HHHHHHHHHHc---CCCcHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEe
Confidence 34577888876 6999999999999 9 999999999999999999873
No 341
>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=76.25 E-value=2.9 Score=35.28 Aligned_cols=29 Identities=14% Similarity=0.303 Sum_probs=24.8
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEE
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGI 201 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~ 201 (231)
+..+++|||.|.|.....++..|.++..|
T Consensus 94 ~~~~lLDlGAGdG~VT~~l~~~f~~v~aT 122 (265)
T PF05219_consen 94 KDKSLLDLGAGDGEVTERLAPLFKEVYAT 122 (265)
T ss_pred cCCceEEecCCCcHHHHHHHhhcceEEee
Confidence 45789999999999999999998885543
No 342
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=75.91 E-value=3.7 Score=34.50 Aligned_cols=46 Identities=22% Similarity=0.265 Sum_probs=41.4
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+..|.+.|.+. +.+++.|||+.++ + ++.-++|=|..|...|++.+.
T Consensus 7 ~~~Il~~L~~~---~~v~v~eLa~~l~-V----S~~TIRRDL~~Le~~g~l~r~ 52 (256)
T PRK10434 7 QAAILEYLQKQ---GKTSVEELAQYFD-T----TGTTIRKDLVILEHAGTVIRT 52 (256)
T ss_pred HHHHHHHHHHc---CCEEHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEE
Confidence 44678889886 5899999999999 9 999999999999999999984
No 343
>PRK11161 fumarate/nitrate reduction transcriptional regulator; Provisional
Probab=75.71 E-value=3 Score=34.03 Aligned_cols=33 Identities=12% Similarity=0.219 Sum_probs=31.8
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
|+|-++||..+| + ....+.|+|..|...|+++.
T Consensus 184 ~lt~~~iA~~lG-~----sr~tvsR~l~~l~~~g~I~~ 216 (235)
T PRK11161 184 TMTRGDIGNYLG-L----TVETISRLLGRFQKSGMLAV 216 (235)
T ss_pred cccHHHHHHHhC-C----cHHHHHHHHHHHHHCCCEEe
Confidence 689999999999 9 99999999999999999998
No 344
>COG2524 Predicted transcriptional regulator, contains C-terminal CBS domains [Transcription]
Probab=75.70 E-value=7.1 Score=32.94 Aligned_cols=52 Identities=17% Similarity=0.137 Sum_probs=44.5
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc-ccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN-YFV 105 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~-~L~ 105 (231)
+++--+|||+.++ - +|-.++-.|..|-++|+++-.+.- .|.|..|..+- .|.
T Consensus 24 r~IKgeeIA~~l~-r----npGTVRNqmq~LkaLgLVegvpGP----kGGY~PT~kAYe~L~ 76 (294)
T COG2524 24 RPIKGEEIAEVLN-R----NPGTVRNQMQSLKALGLVEGVPGP----KGGYKPTSKAYEALS 76 (294)
T ss_pred CCcchHHHHHHHc-c----CcchHHHHHHHHHhcCccccccCC----CCCccccHHHHHHhc
Confidence 7999999999999 7 999999999999999999976421 57899988874 444
No 345
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=75.55 E-value=4.3 Score=33.06 Aligned_cols=37 Identities=22% Similarity=0.212 Sum_probs=34.3
Q ss_pred CCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 43 PGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 43 ~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
||..++..+||+.+| + +...++.-|+.|...|+|+..
T Consensus 27 pG~~L~e~eLae~lg-V----SRtpVREAL~~L~~eGlv~~~ 63 (224)
T PRK11534 27 PDEKLRMSLLTSRYA-L----GVGPLREALSQLVAERLVTVV 63 (224)
T ss_pred CCCcCCHHHHHHHHC-C----ChHHHHHHHHHHHHCCCEEEe
Confidence 457999999999999 9 999999999999999999975
No 346
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=75.43 E-value=5.2 Score=25.78 Aligned_cols=46 Identities=13% Similarity=0.114 Sum_probs=34.9
Q ss_pred CCCCHHHHHHhCCCCCCCCCc-chHHHHHHHHHhCCcccccccCCCCcCcccccchhhc
Q 047000 45 AKLSASEIAAQLPATKNKDAP-MMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN 102 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~-~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~ 102 (231)
.+++.+++.++.| . +- ......+..+...|+++.. ++++++|+.+.
T Consensus 19 ~Gi~~~~~~~~~g-~----~~~~~~~~~l~~l~~~Gll~~~-------~~~l~lT~~G~ 65 (66)
T PF06969_consen 19 EGIDLSEFEQRFG-I----DFAEEFQKELEELQEDGLLEID-------GGRLRLTEKGR 65 (66)
T ss_dssp SEEEHHHHHHHTT-------THHH-HHHHHHHHHTTSEEE--------SSEEEE-TTTG
T ss_pred CCcCHHHHHHHHC-c----CHHHHHHHHHHHHHHCCCEEEe-------CCEEEECcccC
Confidence 4799999999999 6 53 3447789999999999983 78999998764
No 347
>PHA02591 hypothetical protein; Provisional
Probab=75.38 E-value=5.1 Score=27.23 Aligned_cols=33 Identities=21% Similarity=0.239 Sum_probs=27.9
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHH
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRL 74 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~ 74 (231)
.|...|.+ .+.|.++||+.+| + +.+.+++.++.
T Consensus 50 ~vA~eL~e----qGlSqeqIA~~LG-V----sqetVrKYL~~ 82 (83)
T PHA02591 50 SVTHELAR----KGFTVEKIASLLG-V----SVRKVRRYLES 82 (83)
T ss_pred HHHHHHHH----cCCCHHHHHHHhC-C----CHHHHHHHHhc
Confidence 46777888 4799999999999 9 99999888764
No 348
>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=75.36 E-value=2 Score=37.96 Aligned_cols=58 Identities=21% Similarity=0.287 Sum_probs=38.2
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGD 224 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gD 224 (231)
.+.+..+ ..+. .++|+=||.|.++..+++..- +++.+|. ++.++.|+.+ ++++|+.++
T Consensus 188 ~~~~~l~-~~~~-~vlDlycG~G~fsl~la~~~~--~V~gvE~~~~av~~A~~Na~~N~i~n~~f~~~~ 252 (352)
T PF05958_consen 188 QALEWLD-LSKG-DVLDLYCGVGTFSLPLAKKAK--KVIGVEIVEEAVEDARENAKLNGIDNVEFIRGD 252 (352)
T ss_dssp HHHHHCT-T-TT-EEEEES-TTTCCHHHHHCCSS--EEEEEES-HHHHHHHHHHHHHTT--SEEEEE--
T ss_pred HHHHHhh-cCCC-cEEEEeecCCHHHHHHHhhCC--eEEEeeCCHHHHHHHHHHHHHcCCCcceEEEee
Confidence 3444444 3333 799999999999999999875 4666775 5677777642 678887654
No 349
>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=75.19 E-value=5.7 Score=34.04 Aligned_cols=58 Identities=16% Similarity=0.157 Sum_probs=38.8
Q ss_pred CCCCceEEEccCChhHHHHHHHHH-------CCCCeEEEeechH-HHhhCCC--------CCCceEeecCCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSK-------YPHIKGINFDLPH-VIQHAPK--------YPGVEHVGGDMFQN 228 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~-------~P~l~~~v~Dlp~-vi~~a~~--------~~ri~~~~gDff~~ 228 (231)
-....+|+|-.||+|.++.++.+. .+..+..++|..+ ++..++. ...+....+|.|..
T Consensus 44 ~~~~~~VlDPacGsG~fL~~~~~~i~~~~~~~~~~~i~G~ei~~~~~~la~~nl~l~~~~~~~~~i~~~d~l~~ 117 (311)
T PF02384_consen 44 PKKGDSVLDPACGSGGFLVAAMEYIKEKRNKIKEINIYGIEIDPEAVALAKLNLLLHGIDNSNINIIQGDSLEN 117 (311)
T ss_dssp T-TTEEEEETT-TTSHHHHHHHHHHHTCHHHHCCEEEEEEES-HHHHHHHHHHHHHTTHHCBGCEEEES-TTTS
T ss_pred ccccceeechhhhHHHHHHHHHHhhcccccccccceeEeecCcHHHHHHHHhhhhhhccccccccccccccccc
Confidence 445678999999999999999874 5888899999854 3333321 13345777787754
No 350
>PRK11886 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional
Probab=75.18 E-value=5 Score=34.78 Aligned_cols=45 Identities=11% Similarity=0.116 Sum_probs=38.2
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
...|.+.|.+. .+.+.++||++++ + +...+.+.++.|...|++..
T Consensus 6 ~~~il~~L~~~---~~~s~~~LA~~lg-v----sr~tV~~~l~~L~~~G~~i~ 50 (319)
T PRK11886 6 MLQLLSLLADG---DFHSGEQLGEELG-I----SRAAIWKHIQTLEEWGLDIF 50 (319)
T ss_pred HHHHHHHHHcC---CCcCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCceE
Confidence 34567777763 5899999999999 9 99999999999999999554
No 351
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=74.90 E-value=6.2 Score=32.89 Aligned_cols=51 Identities=14% Similarity=0.270 Sum_probs=44.1
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc-cccC
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN-YFVP 106 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~-~L~~ 106 (231)
.-....|||+++| + .+..+..-+.-|+..|++++. + -+.|..|..+. ++..
T Consensus 24 p~v~q~eIA~~lg-i----T~QaVsehiK~Lv~eG~i~~~---g---R~~Y~iTkkG~e~l~~ 75 (260)
T COG1497 24 PRVKQKEIAKKLG-I----TLQAVSEHIKELVKEGLIEKE---G---RGEYEITKKGAEWLLE 75 (260)
T ss_pred CCCCHHHHHHHcC-C----CHHHHHHHHHHHHhccceeec---C---CeeEEEehhHHHHHHH
Confidence 3689999999999 9 999999999999999999983 2 46899999986 5543
No 352
>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=74.80 E-value=3.5 Score=32.32 Aligned_cols=34 Identities=21% Similarity=0.317 Sum_probs=32.3
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
|+|-+|||..+| + ..+.+.|+|..|...|+++..
T Consensus 143 ~~t~~~iA~~lG-~----tretvsR~l~~l~~~g~I~~~ 176 (193)
T TIGR03697 143 RLSHQAIAEAIG-S----TRVTITRLLGDLRKKKLISIH 176 (193)
T ss_pred CCCHHHHHHHhC-C----cHHHHHHHHHHHHHCCCEEec
Confidence 789999999999 9 999999999999999999973
No 353
>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=74.69 E-value=17 Score=30.94 Aligned_cols=42 Identities=12% Similarity=0.135 Sum_probs=33.2
Q ss_pred CCceEEEccCChhH----HHHHHHHHCCC-----CeEEEeech-HHHhhCCC
Q 047000 173 HIQQLVDVGGCLGN----TLKAITSKYPH-----IKGINFDLP-HVIQHAPK 214 (231)
Q Consensus 173 ~~~~vvDVGGG~G~----~~~~l~~~~P~-----l~~~v~Dlp-~vi~~a~~ 214 (231)
+.-+|--.||++|. +++.+.+.+|. .+++.-|+. .+++.|+.
T Consensus 96 ~~irIWSaaCStGEEpYSiAm~l~e~~~~~~~~~~~I~AtDId~~~L~~A~~ 147 (268)
T COG1352 96 RPIRIWSAACSTGEEPYSLAMLLLEALGKLAGFRVKILATDIDLSVLEKARA 147 (268)
T ss_pred CceEEEecCcCCCccHHHHHHHHHHHhccccCCceEEEEEECCHHHHHHHhc
Confidence 57889999999997 77888888874 677888985 47766653
No 354
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=74.57 E-value=5 Score=32.84 Aligned_cols=37 Identities=32% Similarity=0.469 Sum_probs=34.9
Q ss_pred CCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 43 PGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 43 ~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
||.+++-.+||+.+| + +.-.++.-|..|.+.|+++..
T Consensus 36 pG~~l~e~~La~~~g-v----SrtPVReAL~rL~~eGlv~~~ 72 (230)
T COG1802 36 PGERLSEEELAEELG-V----SRTPVREALRRLEAEGLVEIE 72 (230)
T ss_pred CCCCccHHHHHHHhC-C----CCccHHHHHHHHHHCCCeEec
Confidence 458999999999999 9 999999999999999999985
No 355
>TIGR00589 ogt O-6-methylguanine DNA methyltransferase. All proteins in this family for which functions are known are involved alkyl-DNA transferases which remove alkyl groups from DNA as part of alkylation DNA repair. Some of the proteins in this family are also transcription regulators and have a distinct transcription regulatory domain. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=74.19 E-value=8.5 Score=26.33 Aligned_cols=45 Identities=13% Similarity=0.141 Sum_probs=33.2
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSA 80 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~ 80 (231)
+...|++.|.+...|.-.|+.+||+.+| . +...+.+-.+|..+-+
T Consensus 3 f~~~V~~~l~~IP~G~v~TYg~iA~~~g-~-----p~~~RaVg~al~~np~ 47 (80)
T TIGR00589 3 FQQRVWQALRTIPYGETKSYGQLAARIG-N-----PKAVRAVGGANGRNPL 47 (80)
T ss_pred HHHHHHHHHhCCCCCCcCCHHHHHHHhC-C-----CChHHHHHHHHHhCCC
Confidence 4556888888776668999999999999 4 5566666666665543
No 356
>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=74.07 E-value=5.4 Score=25.39 Aligned_cols=39 Identities=18% Similarity=0.248 Sum_probs=32.3
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHH
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLA 76 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~ 76 (231)
-++.|++.|-+. +.+|+.+||+.++ + .++.+..-+..|.
T Consensus 6 rq~~Ll~~L~~~---~~~~~~ela~~l~-~----S~rti~~~i~~L~ 44 (59)
T PF08280_consen 6 RQLKLLELLLKN---KWITLKELAKKLN-I----SERTIKNDINELN 44 (59)
T ss_dssp HHHHHHHHHHHH---TSBBHHHHHHHCT-S-----HHHHHHHHHHHH
T ss_pred HHHHHHHHHHcC---CCCcHHHHHHHHC-C----CHHHHHHHHHHHH
Confidence 467788888775 6999999999999 9 9999988887776
No 357
>PF00126 HTH_1: Bacterial regulatory helix-turn-helix protein, lysR family; InterPro: IPR000847 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family, the lysR family, groups together a range of proteins, including ampR, catM, catR, cynR, cysB, gltC, iciA, ilvY, irgB, lysR, metR, mkaC, mleR, nahR, nhaR, nodD, nolR, oxyR, pssR, rbcR, syrM, tcbR, tfdS and trpI [, , , , ]. The majority of these proteins appear to be transcription activators and most are known to negatively regulate their own expression. All possess a potential HTH DNA-binding motif towards their N-termini.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3T1B_D 3SZP_A 1O7L_C 1B9N_A 1B9M_A 3FZJ_J 3FXR_B 3FXQ_A 3FXU_A 2IJL_B ....
Probab=73.75 E-value=8.1 Score=24.48 Aligned_cols=54 Identities=24% Similarity=0.216 Sum_probs=41.0
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHH---HhCCcccccccCCCCcCcccccchhh
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLL---ASHSAVECSIDDADDSQRLYGLNDVS 101 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L---~~~g~l~~~~~~~~~~~~~y~~t~~s 101 (231)
++.+|..+.+. .|+..-|+.++ + ++..+.+-++.| ...-+|++. ++.+.+|+.+
T Consensus 3 ~l~~f~~v~~~-----gs~~~AA~~l~-i----s~~~vs~~i~~LE~~lg~~Lf~r~-------~~~~~lT~~G 59 (60)
T PF00126_consen 3 QLRYFLAVAET-----GSISAAAEELG-I----SQSAVSRQIKQLEEELGVPLFERS-------GRGLRLTEAG 59 (60)
T ss_dssp HHHHHHHHHHH-----SSHHHHHHHCT-S----SHHHHHHHHHHHHHHHTS-SEEEC-------SSSEEE-HHH
T ss_pred HHHHHHHHHHh-----CCHHHHHHHhh-c----cchHHHHHHHHHHHHhCCeEEEEC-------CCCeeEChhh
Confidence 46678888884 49999999999 9 999998887777 456788873 5668888865
No 358
>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=73.47 E-value=5.9 Score=34.71 Aligned_cols=54 Identities=20% Similarity=0.241 Sum_probs=35.7
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCe-EEEeech-HHHhhCCCC----------------CCceEeecCCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIK-GINFDLP-HVIQHAPKY----------------PGVEHVGGDMFQN 228 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dlp-~vi~~a~~~----------------~ri~~~~gDff~~ 228 (231)
...+|||+|||.|..+.--.+. +++ .+.+|+. ..|+.|++. -...|+.+|-|..
T Consensus 62 ~~~~VLDl~CGkGGDL~Kw~~~--~i~~~vg~Dis~~si~ea~~Ry~~~~~~~~~~~~~~~f~a~f~~~D~f~~ 133 (331)
T PF03291_consen 62 PGLTVLDLCCGKGGDLQKWQKA--KIKHYVGIDISEESIEEARERYKQLKKRNNSKQYRFDFIAEFIAADCFSE 133 (331)
T ss_dssp TT-EEEEET-TTTTTHHHHHHT--T-SEEEEEES-HHHHHHHHHHHHHHHTSTT-HTSEECCEEEEEESTTCCS
T ss_pred CCCeEEEecCCCchhHHHHHhc--CCCEEEEEeCCHHHHHHHHHHHHHhccccccccccccchhheeccccccc
Confidence 5789999999999998888776 444 6889985 456655431 1356677777753
No 359
>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=73.29 E-value=7.3 Score=31.74 Aligned_cols=54 Identities=19% Similarity=0.238 Sum_probs=30.4
Q ss_pred CceEEEccC---ChhHHHHHHHHHC-CCCeEEEeech---H---HHhhCCCCCCceEeecCCCC
Q 047000 174 IQQLVDVGG---CLGNTLKAITSKY-PHIKGINFDLP---H---VIQHAPKYPGVEHVGGDMFQ 227 (231)
Q Consensus 174 ~~~vvDVGG---G~G~~~~~l~~~~-P~l~~~v~Dlp---~---vi~~a~~~~ri~~~~gDff~ 227 (231)
..+|+.+|- |+-.+...+++.. ++.+++.+|+. . +++.-+..+||+++.||--.
T Consensus 33 Pd~IIE~Gi~~GGSli~~A~ml~~~~~~~~VigiDIdir~~~~~a~e~hp~~~rI~~i~Gds~d 96 (206)
T PF04989_consen 33 PDLIIETGIAHGGSLIFWASMLELLGGKGKVIGIDIDIRPHNRKAIESHPMSPRITFIQGDSID 96 (206)
T ss_dssp -SEEEEE--TTSHHHHHHHHHHHHTT---EEEEEES-GTT--S-GGGG----TTEEEEES-SSS
T ss_pred CCeEEEEecCCCchHHHHHHHHHHhCCCceEEEEeCCcchhchHHHhhccccCceEEEECCCCC
Confidence 678999984 5555566667777 88899999982 2 22222223899999998643
No 360
>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=73.10 E-value=4.8 Score=32.36 Aligned_cols=37 Identities=35% Similarity=0.434 Sum_probs=34.2
Q ss_pred CCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 43 PGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 43 ~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+|..++-.+||+.+| + +...++.-|+.|...|+|+..
T Consensus 31 pG~~L~e~~La~~lg-V----SRtpVReAL~~L~~eGlv~~~ 67 (212)
T TIGR03338 31 PGAKLNESDIAARLG-V----SRGPVREAFRALEEAGLVRNE 67 (212)
T ss_pred CCCEecHHHHHHHhC-C----ChHHHHHHHHHHHHCCCEEEe
Confidence 447899999999999 9 999999999999999999975
No 361
>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=73.09 E-value=15 Score=30.65 Aligned_cols=45 Identities=27% Similarity=0.319 Sum_probs=39.6
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|++.|..+ ++-++..+||+++| + +...+++-++.|.+.|+++..
T Consensus 187 ~IL~~L~~~--egrlse~eLAerlG-V----SRs~ireAlrkLE~aGvIe~r 231 (251)
T TIGR02787 187 HIFEELDGN--EGLLVASKIADRVG-I----TRSVIVNALRKLESAGVIESR 231 (251)
T ss_pred HHHHHhccc--cccccHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEec
Confidence 478888762 16899999999999 9 999999999999999999974
No 362
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=73.08 E-value=3.4 Score=37.58 Aligned_cols=55 Identities=16% Similarity=0.247 Sum_probs=41.8
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec-hHHHhhCCCC------CCceEeecCCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL-PHVIQHAPKY------PGVEHVGGDMFQ 227 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl-p~vi~~a~~~------~ri~~~~gDff~ 227 (231)
-.+..+|+|.=||.|.|+..++++ --+++..|. |+.++.|+.+ ++++|+.+|-++
T Consensus 291 ~~~~~~vlDlYCGvG~f~l~lA~~--~~~V~gvEi~~~aV~~A~~NA~~n~i~N~~f~~~~ae~ 352 (432)
T COG2265 291 LAGGERVLDLYCGVGTFGLPLAKR--VKKVHGVEISPEAVEAAQENAAANGIDNVEFIAGDAEE 352 (432)
T ss_pred hcCCCEEEEeccCCChhhhhhccc--CCEEEEEecCHHHHHHHHHHHHHcCCCcEEEEeCCHHH
Confidence 345679999999999999999965 455777776 5677766542 568999888654
No 363
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=73.08 E-value=3.4 Score=32.98 Aligned_cols=46 Identities=13% Similarity=0.042 Sum_probs=41.0
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+-.|.+.|... +.++.++||+.++ + ++.-++|=|..|...|++.+.
T Consensus 9 ~~~Il~~l~~~---~~~~~~~La~~~~-v----S~~TiRRDl~~L~~~g~~~r~ 54 (185)
T PRK04424 9 QKALQELIEEN---PFITDEELAEKFG-V----SIQTIRLDRMELGIPELRERI 54 (185)
T ss_pred HHHHHHHHHHC---CCEEHHHHHHHHC-c----CHHHHHHHHHHHhcchHHHHH
Confidence 34577888886 5899999999999 9 999999999999999999974
No 364
>PF02319 E2F_TDP: E2F/DP family winged-helix DNA-binding domain; InterPro: IPR003316 The mammalian transcription factor E2F plays an important role in regulating the expression of genes that are required for passage through the cell cycle. Multiple E2F family members have been identified that bind to DNA as heterodimers, interacting with proteins known as DP - the dimerisation partners [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005667 transcription factor complex; PDB: 1CF7_B.
Probab=72.40 E-value=1 Score=30.02 Aligned_cols=37 Identities=24% Similarity=0.292 Sum_probs=31.5
Q ss_pred CCCCHHHHHHhC---CCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQL---PATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~---g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+.+++.++|+.+ + . +-..+++..++.+|.++|++++.
T Consensus 23 ~~i~l~~ia~~l~~~~-~--k~~~RRlYDI~NVLealgli~K~ 62 (71)
T PF02319_consen 23 KSISLNEIADKLISEN-V--KTQRRRLYDIINVLEALGLIEKQ 62 (71)
T ss_dssp TEEEHHHHHHHCHHHC-C--HHHCHHHHHHHHHHHHCTSEEEE
T ss_pred CcccHHHHHHHHcccc-c--ccccchhhHHHHHHHHhCceeec
Confidence 699999999999 6 3 00467999999999999999984
No 365
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=72.33 E-value=4.3 Score=32.15 Aligned_cols=34 Identities=12% Similarity=0.184 Sum_probs=32.1
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
-++|-++||..+| + .++.+.|+|..|...|++..
T Consensus 148 ~~~t~~~iA~~lG-~----tretvsR~l~~l~~~g~I~~ 181 (202)
T PRK13918 148 IYATHDELAAAVG-S----VRETVTKVIGELSREGYIRS 181 (202)
T ss_pred ecCCHHHHHHHhC-c----cHHHHHHHHHHHHHCCCEEc
Confidence 3689999999999 9 99999999999999999996
No 366
>PRK00215 LexA repressor; Validated
Probab=72.29 E-value=8.2 Score=31.01 Aligned_cols=36 Identities=22% Similarity=0.254 Sum_probs=31.7
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.+.|..|||+.+| ++ +...+.|+|..|...|++++.
T Consensus 22 ~~~s~~ela~~~~-~~---~~~tv~~~l~~L~~~g~i~~~ 57 (205)
T PRK00215 22 YPPSRREIADALG-LR---SPSAVHEHLKALERKGFIRRD 57 (205)
T ss_pred CCCCHHHHHHHhC-CC---ChHHHHHHHHHHHHCCCEEeC
Confidence 6889999999999 72 357899999999999999985
No 367
>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=72.18 E-value=7.8 Score=27.04 Aligned_cols=42 Identities=19% Similarity=0.084 Sum_probs=33.9
Q ss_pred HHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHh
Q 047000 27 QAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLAS 77 (231)
Q Consensus 27 ~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~ 77 (231)
..+-++.|+..+-. +..|..+||+.+| + +..-+.|+=|.|-.
T Consensus 34 ~l~~R~~va~~lL~----~g~syreIa~~tg-v----S~aTItRvsr~Lk~ 75 (87)
T PF01371_consen 34 ALAQRWQVAKELLD----EGKSYREIAEETG-V----SIATITRVSRCLKY 75 (87)
T ss_dssp HHHHHHHHHHHHHH----TTSSHHHHHHHHT-S----THHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH----CCCCHHHHHHHhC-C----CHHHHHHHHHHHHc
Confidence 35678999995554 3799999999999 9 88888888887753
No 368
>PRK05638 threonine synthase; Validated
Probab=72.18 E-value=6.3 Score=35.87 Aligned_cols=62 Identities=15% Similarity=0.200 Sum_probs=46.6
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCC-CCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPA-TKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN 102 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~-~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~ 102 (231)
++.|+..|.+ ++++..||++.++. + +...+.+.|+.|...|+++.....+ ..-.|++|+.+.
T Consensus 373 r~~IL~~L~~----~~~~~~el~~~l~~~~----s~~~v~~hL~~Le~~GLV~~~~~~g--~~~~Y~Lt~~g~ 435 (442)
T PRK05638 373 KLEILKILSE----REMYGYEIWKALGKPL----KYQAVYQHIKELEELGLIEEAYRKG--RRVYYKLTEKGR 435 (442)
T ss_pred HHHHHHHHhh----CCccHHHHHHHHcccC----CcchHHHHHHHHHHCCCEEEeecCC--CcEEEEECcHHH
Confidence 4557777876 58999999999971 4 6789999999999999998531111 012488998876
No 369
>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=72.14 E-value=5.8 Score=33.78 Aligned_cols=34 Identities=12% Similarity=0.143 Sum_probs=32.1
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHH-HHHhCCcccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLR-LLASHSAVEC 83 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~-~L~~~g~l~~ 83 (231)
++.+.+++|+.+| . ++..++++++ .|+..|++..
T Consensus 254 ~~~~~~~ia~~lg-~----~~~~~~~~~e~~Li~~~li~~ 288 (305)
T TIGR00635 254 GPVGLKTLAAALG-E----DADTIEDVYEPYLLQIGFLQR 288 (305)
T ss_pred CcccHHHHHHHhC-C----CcchHHHhhhHHHHHcCCccc
Confidence 6899999999999 9 9999999999 7999999986
No 370
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=72.00 E-value=6 Score=23.58 Aligned_cols=31 Identities=26% Similarity=0.335 Sum_probs=19.8
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHH
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLR 73 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~ 73 (231)
....+.. .+.|..+||+.+| . ++.-+.+.|+
T Consensus 12 ~I~~l~~----~G~s~~~IA~~lg-~----s~sTV~relk 42 (44)
T PF13936_consen 12 QIEALLE----QGMSIREIAKRLG-R----SRSTVSRELK 42 (44)
T ss_dssp HHHHHHC----S---HHHHHHHTT-------HHHHHHHHH
T ss_pred HHHHHHH----cCCCHHHHHHHHC-c----CcHHHHHHHh
Confidence 3444554 3699999999999 8 9998888775
No 371
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=71.63 E-value=4.7 Score=28.06 Aligned_cols=35 Identities=11% Similarity=0.127 Sum_probs=32.5
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.-+|+..||++++ + .-...+++||.|...|++...
T Consensus 40 K~ITps~lserlk-I----~~SlAr~~Lr~L~~kG~Ik~V 74 (86)
T PRK09334 40 KIVTPYTLASKYG-I----KISVAKKVLRELEKRGVLVLY 74 (86)
T ss_pred cEEcHHHHHHHhc-c----hHHHHHHHHHHHHHCCCEEEE
Confidence 5789999999999 9 999999999999999999764
No 372
>PRK09462 fur ferric uptake regulator; Provisional
Probab=71.55 E-value=7.5 Score=29.65 Aligned_cols=55 Identities=15% Similarity=0.208 Sum_probs=42.1
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCC-CCCCcchHHHHHHHHHhCCccccc
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATK-NKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~-~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+--+.-|++.|.... +++.|++||-+.+. -. .+.+..-++|.|+.|+..|++.+.
T Consensus 16 T~qR~~Il~~l~~~~-~~h~sa~eI~~~l~-~~~~~i~~aTVYR~L~~L~e~Gli~~~ 71 (148)
T PRK09462 16 TLPRLKILEVLQEPD-NHHVSAEDLYKRLI-DMGEEIGLATVYRVLNQFDDAGIVTRH 71 (148)
T ss_pred CHHHHHHHHHHHhCC-CCCCCHHHHHHHHH-hhCCCCCHHHHHHHHHHHHHCCCEEEE
Confidence 445677899998631 15999999999885 21 223677899999999999999875
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=71.39 E-value=4.3 Score=27.32 Aligned_cols=34 Identities=24% Similarity=0.155 Sum_probs=30.0
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
..+|.+|||+.+| + ++..++..+..+...|.+.+
T Consensus 31 eGlS~kEIAe~LG-I----S~~TVk~~l~~~~~~~~~~~ 64 (73)
T TIGR03879 31 AGKTASEIAEELG-R----TEQTVRNHLKGETKAGGLVK 64 (73)
T ss_pred cCCCHHHHHHHHC-c----CHHHHHHHHhcCcccchHHH
Confidence 3699999999999 9 99999999998888887764
No 374
>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=71.09 E-value=2.9 Score=33.29 Aligned_cols=54 Identities=15% Similarity=0.093 Sum_probs=37.7
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC-------CCceEeecCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY-------PGVEHVGGDMFQ 227 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~-------~ri~~~~gDff~ 227 (231)
...++||+=+|+|.++.+.+.+. --+++.+|.. .++..++++ ++++.+.+|.+.
T Consensus 42 ~g~~vLDLFaGSGalGlEALSRG-A~~v~fVE~~~~a~~~i~~N~~~l~~~~~~~v~~~d~~~ 103 (183)
T PF03602_consen 42 EGARVLDLFAGSGALGLEALSRG-AKSVVFVEKNRKAIKIIKKNLEKLGLEDKIRVIKGDAFK 103 (183)
T ss_dssp TT-EEEETT-TTSHHHHHHHHTT--SEEEEEES-HHHHHHHHHHHHHHT-GGGEEEEESSHHH
T ss_pred CCCeEEEcCCccCccHHHHHhcC-CCeEEEEECCHHHHHHHHHHHHHhCCCcceeeeccCHHH
Confidence 36899999999999999999995 2358888874 455555442 567777777653
No 375
>PF03514 GRAS: GRAS domain family; InterPro: IPR005202 Sequence analysis of the products of the GRAS (GAI, RGA, SCR) gene family indicates that they share a variable N terminus and a highly conserved C terminus that contains five recognizable motifs []. Proteins in the GRAS family are transcription factors that seem to be involved in development and other processes. Mutation of the SCARECROW (SCR) gene results in a radial pattern defect, loss of a ground tissue layer, in the root. The PAT1 protein is involved in phytochrome A signal transduction []. GRAS proteins contain a conserved region of about 350 amino acids that can be divided in 5 motifs, found in the following order: leucine heptad repeat I, the VHIID motif, leucine heptad repeat II, the PFYRE motif and the SAW motif [, ]. Plant specific GRAS proteins have parallels in their motif structure to the animal Signal Transducers and Activators of Transcription (STAT) family of proteins [] which suggests also some parallels in their functions.
Probab=71.05 E-value=5.2 Score=35.63 Aligned_cols=46 Identities=28% Similarity=0.434 Sum_probs=37.0
Q ss_pred HHHHHHhCCCCCCCceEEEccCChhH----HHHHHHHHC---CCCeEEEeechH
Q 047000 161 IQKILEAYKGFEHIQQLVDVGGCLGN----TLKAITSKY---PHIKGINFDLPH 207 (231)
Q Consensus 161 ~~~~~~~~~~~~~~~~vvDVGGG~G~----~~~~l~~~~---P~l~~~v~Dlp~ 207 (231)
.+.|++++. -++..+|||+|-|.|. +..+|+++. |.+|+|+++.|.
T Consensus 99 NqaIleA~~-g~~~vHIID~~i~~G~QW~~LiqaLa~R~~gpp~LrIT~i~~~~ 151 (374)
T PF03514_consen 99 NQAILEAFE-GERRVHIIDFGIGFGVQWPSLIQALASRPGGPPSLRITGIGPPN 151 (374)
T ss_pred hHHHHHHhc-cCcceEEEeccCCcchHHHHHHHHHhcCCCCCCeEEEEeccCCC
Confidence 457888877 5577899999999997 667777764 889999999954
No 376
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=71.02 E-value=6.7 Score=29.98 Aligned_cols=54 Identities=26% Similarity=0.257 Sum_probs=43.0
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
-++.|++.|.+.+ ++.|+++|=..+.+...++...-++|.|+.|...|++.+..
T Consensus 22 qR~~vl~~L~~~~--~~~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv~~~~ 75 (145)
T COG0735 22 QRLAVLELLLEAD--GHLSAEELYEELREEGPGISLATVYRTLKLLEEAGLVHRLE 75 (145)
T ss_pred HHHHHHHHHHhcC--CCCCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEEEEE
Confidence 4677999998765 67999999888762113347788999999999999999863
No 377
>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=70.81 E-value=4.9 Score=33.50 Aligned_cols=34 Identities=12% Similarity=0.205 Sum_probs=25.1
Q ss_pred CceEEEccCChhHHHHHHHHHCC--------CCeEEEeechH
Q 047000 174 IQQLVDVGGCLGNTLKAITSKYP--------HIKGINFDLPH 207 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~P--------~l~~~v~Dlp~ 207 (231)
.-+||++|+|+|.++..+++..- .++.++++..+
T Consensus 19 ~~~ivE~GaG~G~La~diL~~l~~~~p~~~~~~~y~ivE~Sp 60 (252)
T PF02636_consen 19 PLRIVEIGAGRGTLARDILRYLRKFSPEVYKRLRYHIVEISP 60 (252)
T ss_dssp -EEEEEES-TTSHHHHHHHHHHCCTTHHHHTTCEEEEE-TTC
T ss_pred CcEEEEECCCchHHHHHHHHHHHHhChhhhhcceEEEEcCCH
Confidence 47999999999999999987643 35788888753
No 378
>PRK13239 alkylmercury lyase; Provisional
Probab=70.62 E-value=5.4 Score=32.48 Aligned_cols=41 Identities=20% Similarity=0.308 Sum_probs=33.4
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhC
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASH 78 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~ 78 (231)
+..-|+..|.+ | +|.|.++||+.+| + +.+.+++.|+.|...
T Consensus 23 ~~~~llr~la~-G--~pvt~~~lA~~~~-~----~~~~v~~~L~~l~~~ 63 (206)
T PRK13239 23 LLVPLLRLLAK-G--RPVSVTTLAAALG-W----PVEEVEAVLEAMPDT 63 (206)
T ss_pred HHHHHHHHHHc-C--CCCCHHHHHHHhC-C----CHHHHHHHHHhCCCe
Confidence 44557788885 4 8999999999999 9 999888888887544
No 379
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=70.53 E-value=5.9 Score=33.25 Aligned_cols=45 Identities=20% Similarity=0.283 Sum_probs=41.3
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
-.|.+.|.+. +.++++|||+.++ + ++.-++|=|+.|...|++.+.
T Consensus 8 ~~Il~~l~~~---g~v~v~eLa~~~~-V----S~~TIRRDL~~Le~~g~l~R~ 52 (253)
T COG1349 8 QKILELLKEK---GKVSVEELAELFG-V----SEMTIRRDLNELEEQGLLLRV 52 (253)
T ss_pred HHHHHHHHHc---CcEEHHHHHHHhC-C----CHHHHHHhHHHHHHCCcEEEE
Confidence 4578889887 5999999999999 9 999999999999999999995
No 380
>cd00006 PTS_IIA_man PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIA PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. IIA subunits receive phosphoryl groups from HPr and transfer them to IIB subunits, which in turn phosphorylate the substrate.
Probab=70.00 E-value=13 Score=27.31 Aligned_cols=49 Identities=22% Similarity=0.362 Sum_probs=34.5
Q ss_pred HHhCCCCCCCceEEEc-cCChhHHHHHHHHHCCCCe-EEEeechHHHhhCC
Q 047000 165 LEAYKGFEHIQQLVDV-GGCLGNTLKAITSKYPHIK-GINFDLPHVIQHAP 213 (231)
Q Consensus 165 ~~~~~~~~~~~~vvDV-GGG~G~~~~~l~~~~P~l~-~~v~Dlp~vi~~a~ 213 (231)
++.++.-++.-.++|+ ||..-..+..+...++++. ..++++|-+++.+.
T Consensus 51 i~~~~~~~~viil~Dl~GGSp~n~~~~~~~~~~~~~visG~nlpmlle~~~ 101 (122)
T cd00006 51 LAELDSGEGVLILTDLFGGSPNNAAARLSMEHPPVEVIAGVNLPMLLEAAR 101 (122)
T ss_pred HHHhCCCCcEEEEEeCCCCCHHHHHHHHHhcCCCEEEEEccCHHHHHHHHH
Confidence 3444424567889999 5555556677777778877 58999998887653
No 381
>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=69.95 E-value=7 Score=25.26 Aligned_cols=22 Identities=18% Similarity=0.324 Sum_probs=19.7
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHH
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRM 71 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rl 71 (231)
|.+++.+||+++| + ++..+++|
T Consensus 21 g~i~lkdIA~~Lg-v----s~~tIr~W 42 (60)
T PF10668_consen 21 GKIKLKDIAEKLG-V----SESTIRKW 42 (60)
T ss_pred CCccHHHHHHHHC-C----CHHHHHHH
Confidence 7999999999999 9 88888766
No 382
>KOG0822 consensus Protein kinase inhibitor [Cell cycle control, cell division, chromosome partitioning]
Probab=69.71 E-value=21 Score=33.34 Aligned_cols=89 Identities=16% Similarity=0.168 Sum_probs=53.9
Q ss_pred ccccCCCCchHHHHHHHHHHhchhhhHHHHHHhCCCCC--CCceEEEccCChhHHHHHHHHH----CCCCeEEEeec-hH
Q 047000 135 AFEYPGLDPRFNEVFNIAMYNYTNLVIQKILEAYKGFE--HIQQLVDVGGCLGNTLKAITSK----YPHIKGINFDL-PH 207 (231)
Q Consensus 135 ~~~~l~~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~--~~~~vvDVGGG~G~~~~~l~~~----~P~l~~~v~Dl-p~ 207 (231)
.|+.+++||---..+++|. ..++.+..++-+ ....|.-+|||+|-+..+.+++ .-.++.+.++= |.
T Consensus 334 TYetFEkD~VKY~~Yq~Ai-------~~AL~Drvpd~~a~~~tVimvlGaGRGPLv~~~lkaa~~~~RkVklyavEKNPN 406 (649)
T KOG0822|consen 334 TYETFEKDPVKYDQYQQAI-------LKALLDRVPDESAKTTTVIMVLGAGRGPLVDASLKAAEETDRKVKLYAVEKNPN 406 (649)
T ss_pred hhhhhhccchHHHHHHHHH-------HHHHHhhCcccccCceEEEEEecCCCccHHHHHHHHHHHhcCceEEEEEecCcc
Confidence 4555566664444455543 224444444222 2677888999999988877665 33455555553 54
Q ss_pred HHhhCCC------CCCceEeecCCCCCCC
Q 047000 208 VIQHAPK------YPGVEHVGGDMFQNVP 230 (231)
Q Consensus 208 vi~~a~~------~~ri~~~~gDff~~~P 230 (231)
++--... ..||+.+.+||-+-+|
T Consensus 407 AivtL~~~n~~~W~~~Vtii~~DMR~w~a 435 (649)
T KOG0822|consen 407 AIVTLQNRNFECWDNRVTIISSDMRKWNA 435 (649)
T ss_pred hhhhhhhhchhhhcCeeEEEeccccccCC
Confidence 4433322 2899999999988655
No 383
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=69.43 E-value=7.2 Score=31.59 Aligned_cols=45 Identities=20% Similarity=0.265 Sum_probs=37.4
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|.+.+.... .+.|.+|||++++ + .+.-+++-+..|+..|++...
T Consensus 166 ~Vl~~~~~g~--~g~s~~eIa~~l~-i----S~~Tv~~~~~~~~~~~~~~~~ 210 (225)
T PRK10046 166 AVRKLFKEPG--VQHTAETVAQALT-I----SRTTARRYLEYCASRHLIIAE 210 (225)
T ss_pred HHHHHHHcCC--CCcCHHHHHHHhC-c----cHHHHHHHHHHHHhCCeEEEE
Confidence 4566666521 2689999999999 9 999999999999999999973
No 384
>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=69.15 E-value=2.1 Score=37.82 Aligned_cols=40 Identities=25% Similarity=0.461 Sum_probs=31.7
Q ss_pred HhCCCCCCCceEEEccCChhHHHHHHHHHCCCCe-EEEeech
Q 047000 166 EAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIK-GINFDLP 206 (231)
Q Consensus 166 ~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dlp 206 (231)
...++|. .++|||||-|.|+-+.++-.-+|+++ +++++..
T Consensus 107 ~~~~dfa-pqsiLDvG~GPgtgl~A~n~i~Pdl~sa~ile~s 147 (484)
T COG5459 107 KRVPDFA-PQSILDVGAGPGTGLWALNDIWPDLKSAVILEAS 147 (484)
T ss_pred HhCCCcC-cchhhccCCCCchhhhhhcccCCCchhhhhhccC
Confidence 3445454 46699999999999999999999998 4666654
No 385
>smart00753 PAM PCI/PINT associated module.
Probab=69.02 E-value=17 Score=24.68 Aligned_cols=51 Identities=8% Similarity=0.135 Sum_probs=40.4
Q ss_pred HHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 26 MQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 26 L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.....+..|+...... ..++.++||+.++ + +.+.+++++.-+...|.+.-.
T Consensus 7 ~~~~~~~~l~~l~~~y---~~i~~~~i~~~~~-l----~~~~vE~~i~~~i~~~~l~~~ 57 (88)
T smart00753 7 QRKIRLTNLLQLSEPY---SSISLSDLAKLLG-L----SVPEVEKLVSKAIRDGEISAK 57 (88)
T ss_pred HHHHHHHHHHHHhHHh---ceeeHHHHHHHhC-c----CHHHHHHHHHHHHHCCCeEEE
Confidence 3444555566666554 6899999999999 9 888999999999999988753
No 386
>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=69.02 E-value=17 Score=24.68 Aligned_cols=51 Identities=8% Similarity=0.135 Sum_probs=40.4
Q ss_pred HHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 26 MQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 26 L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.....+..|+...... ..++.++||+.++ + +.+.+++++.-+...|.+.-.
T Consensus 7 ~~~~~~~~l~~l~~~y---~~i~~~~i~~~~~-l----~~~~vE~~i~~~i~~~~l~~~ 57 (88)
T smart00088 7 QRKIRLTNLLQLSEPY---SSISLSDLAKLLG-L----SVPEVEKLVSKAIRDGEISAK 57 (88)
T ss_pred HHHHHHHHHHHHhHHh---ceeeHHHHHHHhC-c----CHHHHHHHHHHHHHCCCeEEE
Confidence 3444555566666554 6899999999999 9 888999999999999988753
No 387
>PF07091 FmrO: Ribosomal RNA methyltransferase (FmrO); PDB: 3LCU_A 3LCV_B 3FRH_A 3FRI_A 3B89_A 3FZG_A.
Probab=68.94 E-value=3.1 Score=34.90 Aligned_cols=59 Identities=15% Similarity=0.203 Sum_probs=40.8
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCCC-----CCCceEeecCCCCCCCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAPK-----YPGVEHVGGDMFQNVPK 231 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~~-----~~ri~~~~gDff~~~P~ 231 (231)
...+|+|||||-==++.-.....|+.+.+..|+.. .++.... ..+.+....|++..+|+
T Consensus 105 ~p~sVlDigCGlNPlalp~~~~~~~a~Y~a~DID~~~ve~l~~~l~~l~~~~~~~v~Dl~~~~~~ 169 (251)
T PF07091_consen 105 PPDSVLDIGCGLNPLALPWMPEAPGATYIAYDIDSQLVEFLNAFLAVLGVPHDARVRDLLSDPPK 169 (251)
T ss_dssp --SEEEEET-TTCHHHHHTTTSSTT-EEEEEESBHHHHHHHHHHHHHTT-CEEEEEE-TTTSHTT
T ss_pred CCchhhhhhccCCceehhhcccCCCcEEEEEeCCHHHHHHHHHHHHhhCCCcceeEeeeeccCCC
Confidence 47999999999999998888889999999999964 3333332 25677777788877553
No 388
>COG4076 Predicted RNA methylase [General function prediction only]
Probab=68.69 E-value=9.5 Score=30.87 Aligned_cols=50 Identities=18% Similarity=0.104 Sum_probs=36.9
Q ss_pred ceEEEccCChhHHHHHHHHHCCCCeEEEeech-HHHhhCCCC------CCceEeecCCC
Q 047000 175 QQLVDVGGCLGNTLKAITSKYPHIKGINFDLP-HVIQHAPKY------PGVEHVGGDMF 226 (231)
Q Consensus 175 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~~------~ri~~~~gDff 226 (231)
..+-|+|.|+|.++.-.+++ --|++..++. .....+.++ ..++.+.||-.
T Consensus 34 d~~~DLGaGsGiLs~~Aa~~--A~rViAiE~dPk~a~~a~eN~~v~g~~n~evv~gDA~ 90 (252)
T COG4076 34 DTFADLGAGSGILSVVAAHA--AERVIAIEKDPKRARLAEENLHVPGDVNWEVVVGDAR 90 (252)
T ss_pred hceeeccCCcchHHHHHHhh--hceEEEEecCcHHHHHhhhcCCCCCCcceEEEecccc
Confidence 37899999999998877766 5567888874 444455543 67999988854
No 389
>COG3695 Predicted methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]
Probab=68.67 E-value=7.8 Score=27.75 Aligned_cols=47 Identities=19% Similarity=0.246 Sum_probs=34.8
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCC--cchHHHHHHHHHhCCcc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDA--PMMLDRMLRLLASHSAV 81 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~--~~~l~rlL~~L~~~g~l 81 (231)
..-.|++.+....+|.-.|+-|||+.+| . + ++.+.++|..|..-..+
T Consensus 7 f~~~v~~vv~~IP~GkV~TYGdIA~laG-~----p~~ARqVG~il~~l~~~s~l 55 (103)
T COG3695 7 FTQRVLDVVAAIPEGKVSTYGDIAKLAG-L----PRAARQVGRILKHLPEGSDL 55 (103)
T ss_pred HHHHHHHHHHhCCCCceeeHHHHHHHhC-C----ChhHHHHHHHHhhCCCCCCC
Confidence 3445777777765568899999999999 7 5 77888888776554444
No 390
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=68.45 E-value=5.7 Score=32.52 Aligned_cols=33 Identities=21% Similarity=0.210 Sum_probs=31.4
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
++|-++||..+| + .+..+.|+|..|...|+++.
T Consensus 179 ~lt~~~IA~~lG-i----sretlsR~L~~L~~~GlI~~ 211 (230)
T PRK09391 179 PMSRRDIADYLG-L----TIETVSRALSQLQDRGLIGL 211 (230)
T ss_pred cCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCcEEe
Confidence 678999999999 9 99999999999999999986
No 391
>PHA03103 double-strand RNA-binding protein; Provisional
Probab=68.39 E-value=10 Score=30.25 Aligned_cols=43 Identities=19% Similarity=0.170 Sum_probs=37.0
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+.+.|... +..|+.+||+++| + +..-+-|.|.-|...|.|...
T Consensus 18 ~~~~l~~~---~~~~a~~i~~~l~-~----~k~~vNr~LY~l~~~~~v~~~ 60 (183)
T PHA03103 18 EVKNLGLG---EGITAIEISRKLN-I----EKSEVNKQLYKLQREGMVYMS 60 (183)
T ss_pred HHHHhccC---CCccHHHHHHHhC-C----CHHHHHHHHHHHHhcCceecC
Confidence 45556653 6999999999999 9 888999999999999999875
No 392
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=67.90 E-value=7.2 Score=31.66 Aligned_cols=37 Identities=30% Similarity=0.360 Sum_probs=34.3
Q ss_pred CCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 43 PGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 43 ~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
||..++..+||+.+| + +...++.-|+.|...|+|+..
T Consensus 31 pG~~L~e~~La~~lg-V----SRtpVREAL~~L~~eGLV~~~ 67 (221)
T PRK11414 31 PGARLITKNLAEQLG-M----SITPVREALLRLVSVNALSVA 67 (221)
T ss_pred CCCccCHHHHHHHHC-C----CchhHHHHHHHHHHCCCEEec
Confidence 557899999999999 9 999999999999999999974
No 393
>KOG4062 consensus 6-O-methylguanine-DNA methyltransferase MGMT/MGT1, involved in DNA repair [Replication, recombination and repair]
Probab=67.32 E-value=8.8 Score=29.89 Aligned_cols=50 Identities=12% Similarity=0.107 Sum_probs=40.9
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
..+...|+++|-...-|.-.|+.|||+.+| .|.+.+.+-+++..+.+-..
T Consensus 88 t~F~~kVw~al~~i~~Gev~tY~~iA~~iG------~PsaaRaVg~A~~~n~la~l 137 (178)
T KOG4062|consen 88 TDFQRKVWDALCEIPYGEVSTYGQIARRIG------NPSAARAVGSAMAHNNLAIL 137 (178)
T ss_pred chHHHHHHHHHhccCCCceeeHHHHHHHhC------CcHHHHHHHHHHccCCCcEE
Confidence 566778899997654447899999999999 68999999999888777654
No 394
>COG1733 Predicted transcriptional regulators [Transcription]
Probab=67.04 E-value=13 Score=27.52 Aligned_cols=80 Identities=15% Similarity=0.206 Sum_probs=56.3
Q ss_pred HHHHHHHHHhhchHHHHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCC
Q 047000 9 SFAYANQLVTASVLPMAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDA 88 (231)
Q Consensus 9 ~~~~l~~~~~~~~~~~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~ 88 (231)
+....++++.+-|..-.|+.. .. ++.-..||-..++.+ ++..|.+-|+.|...|++++..-..
T Consensus 12 ~~~~~l~~ig~kW~~lIl~~L---------~~----g~~RF~eL~r~i~~I----s~k~Ls~~Lk~Le~~Glv~R~~~~~ 74 (120)
T COG1733 12 PVEEALEVIGGKWTLLILRDL---------FD----GPKRFNELRRSIGGI----SPKMLSRRLKELEEDGLVERVVYPE 74 (120)
T ss_pred CHHHHHHHHcCccHHHHHHHH---------hc----CCCcHHHHHHHcccc----CHHHHHHHHHHHHHCCCEEeeecCC
Confidence 466677777777777666543 33 488999999998756 8999999999999999999853111
Q ss_pred CCcCcccccchhhcccc
Q 047000 89 DDSQRLYGLNDVSNYFV 105 (231)
Q Consensus 89 ~~~~~~y~~t~~s~~L~ 105 (231)
.+-.-.|++|+.+.-|.
T Consensus 75 ~PprveY~LT~~G~~L~ 91 (120)
T COG1733 75 EPPRVEYRLTEKGRDLL 91 (120)
T ss_pred CCceeEEEEhhhHHHHH
Confidence 00012488888876443
No 395
>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=66.59 E-value=8.9 Score=30.46 Aligned_cols=33 Identities=21% Similarity=0.194 Sum_probs=30.7
Q ss_pred CCHHHHHHhC-CCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 47 LSASEIAAQL-PATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 47 ~t~~eLA~~~-g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|-.+|+..+ | + ++..|+|.++.|+..|++...
T Consensus 71 pSN~~La~r~~G-~----s~~tlrR~l~~LveaGLI~rr 104 (177)
T PF03428_consen 71 PSNAQLAERLNG-M----SERTLRRHLARLVEAGLIVRR 104 (177)
T ss_pred cCHHHHHHHHcC-C----CHHHHHHHHHHHHHCCCeeec
Confidence 4679999999 9 9 999999999999999999985
No 396
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=66.46 E-value=5.8 Score=32.32 Aligned_cols=33 Identities=12% Similarity=-0.004 Sum_probs=31.4
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
+.|-++||..+| + .++.|.|+|..|...|+++.
T Consensus 169 ~~t~~~lA~~lG-~----sretvsR~L~~L~~~G~I~~ 201 (226)
T PRK10402 169 HEKHTQAAEYLG-V----SYRHLLYVLAQFIQDGYLKK 201 (226)
T ss_pred cchHHHHHHHHC-C----cHHHHHHHHHHHHHCCCEEe
Confidence 568899999999 9 99999999999999999997
No 397
>COG1189 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=65.89 E-value=13 Score=31.03 Aligned_cols=42 Identities=17% Similarity=0.187 Sum_probs=29.5
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeec
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDL 205 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dl 205 (231)
..++.|+-....+.++|||.++|.|...++++- -.++..+|.
T Consensus 69 ~ale~F~l~~k~kv~LDiGsSTGGFTd~lLq~g-Ak~VyavDV 110 (245)
T COG1189 69 KALEEFELDVKGKVVLDIGSSTGGFTDVLLQRG-AKHVYAVDV 110 (245)
T ss_pred HHHHhcCcCCCCCEEEEecCCCccHHHHHHHcC-CcEEEEEEc
Confidence 444555522367999999999999999999982 223455554
No 398
>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=65.80 E-value=13 Score=31.59 Aligned_cols=49 Identities=16% Similarity=0.129 Sum_probs=39.3
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN 102 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~ 102 (231)
+..++++||+.++ - +++..-++..|+.|..+|++++. + +|.|..|..+-
T Consensus 136 ~~~~~~~ia~~l~-p--~is~~ev~~sL~~L~~~glikk~---~---~g~y~~t~~~l 184 (271)
T TIGR02147 136 FADDPEELAKRCF-P--KISAEQVKESLDLLERLGLIKKN---E---DGFYKQTDKAV 184 (271)
T ss_pred CCCCHHHHHHHhC-C--CCCHHHHHHHHHHHHHCCCeeEC---C---CCcEEeeccee
Confidence 3447899999988 2 33678899999999999999984 3 68898887653
No 399
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=65.77 E-value=8.8 Score=31.85 Aligned_cols=38 Identities=24% Similarity=0.313 Sum_probs=34.1
Q ss_pred CCCCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 43 PGAKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 43 ~~~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
||..+ +-.+||+.+| + +...++.-|+.|.+.|+++..+
T Consensus 30 pG~~LpsE~eLa~~lg-V----SRtpVREAL~~L~~eGlv~~~~ 68 (254)
T PRK09464 30 PGEKLPPERELAKQFD-V----SRPSLREAIQRLEAKGLLLRRQ 68 (254)
T ss_pred CCCcCCCHHHHHHHhC-C----CHHHHHHHHHHHHHCCCEEEec
Confidence 44678 8999999999 9 9999999999999999999753
No 400
>PRK09775 putative DNA-binding transcriptional regulator; Provisional
Probab=65.72 E-value=8.3 Score=35.21 Aligned_cols=40 Identities=30% Similarity=0.362 Sum_probs=34.1
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
|-..|.. +|.|+.||++.++ + +...+.+.|+.| .|+|...
T Consensus 5 ~~~~L~~----g~~~~~eL~~~l~-~----sq~~~s~~L~~L--~~~V~~~ 44 (442)
T PRK09775 5 LTTLLLQ----GPLSAAELAARLG-V----SQATLSRLLAAL--GDQVVRF 44 (442)
T ss_pred HHHHHhc----CCCCHHHHHHHhC-C----CHHHHHHHHHHh--hcceeEe
Confidence 4456665 7999999999999 9 999999999999 7777764
No 401
>cd06445 ATase The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases are specific for repair of guanines with O6-alkyl adducts, however human ATase is not limited to O6-methylguanine, repairing many other adducts at the O6-position of guanine as well. ATase is widely distributed among species. Most ATases have N- and C-terminal domains. The C-terminal domain contains the conserved active-site cysteine motif (PCHR), the O6-alkylguanine binding channel, and the helix-turn-helix (HTH) DNA-binding motif. The active site is located near the recognition helix of the HTH motif. While the C-terminal domain of ATase contains residues that are necessary for DNA binding and alkyl transfer, the function of the N-terminal domain is still unknown. Removal of the N-terminal domain abolishes the activity of
Probab=65.36 E-value=16 Score=24.68 Aligned_cols=42 Identities=21% Similarity=0.179 Sum_probs=30.6
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSA 80 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~ 80 (231)
.|++.+.....|.-.|+.+||+.+| . +...+.+-.+|..+.+
T Consensus 4 ~V~~~v~~IP~G~v~TYg~iA~~~g-~-----p~~~R~Vg~al~~np~ 45 (79)
T cd06445 4 RVWEALRQIPYGEVTTYGQIAKLAG-T-----PKAARAVGSALARNPI 45 (79)
T ss_pred HHHHHHhcCCCCCcCcHHHHHHHHC-C-----CCcHHHHHHHHHhCCC
Confidence 4566666655558999999999999 5 5666666666666655
No 402
>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=65.35 E-value=7.6 Score=28.11 Aligned_cols=46 Identities=17% Similarity=0.265 Sum_probs=36.9
Q ss_pred hHHHHHhcCCC-CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 34 VFEIIAKAGPG-AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 34 lfd~L~~~g~~-~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
++|.|...-++ .-+|+..||++++ + .-...+++|+.|...|++...
T Consensus 46 ~~~kl~kEV~~~K~ITp~~lserlk-I----~~SlAr~~Lr~L~~kG~Ik~V 92 (105)
T PF03297_consen 46 TYDKLLKEVPKMKLITPSVLSERLK-I----NGSLARKALRELESKGLIKPV 92 (105)
T ss_dssp HHHHHHHHCTTSSCECHHHHHHHHC-C----SCHHHHHHHHHHHHCCSSEEE
T ss_pred HHHHHHHHhccCcEeeHHHHHHhHh-h----HHHHHHHHHHHHHHCCCEEEE
Confidence 45555432111 5699999999999 9 999999999999999999875
No 403
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=65.33 E-value=22 Score=25.97 Aligned_cols=49 Identities=22% Similarity=0.253 Sum_probs=33.8
Q ss_pred HHhCCCCCCCceEEEccCChhH-HHHHHHHHCCCCe-EEEeechHHHhhCC
Q 047000 165 LEAYKGFEHIQQLVDVGGCLGN-TLKAITSKYPHIK-GINFDLPHVIQHAP 213 (231)
Q Consensus 165 ~~~~~~~~~~~~vvDVGGG~G~-~~~~l~~~~P~l~-~~v~Dlp~vi~~a~ 213 (231)
++.++.=++.-.+.|+=||+=. .+..+..++|+++ +.++++|-+++.+.
T Consensus 52 i~~~~~~~~vivltDl~GGSp~n~a~~~~~~~~~~~vIsG~NLpmlle~~~ 102 (116)
T TIGR00824 52 LADLDTEEEVLFLVDIFGGSPYNAAARIIVDKPHMDVIAGVNLPLLLETLM 102 (116)
T ss_pred HHhcCCCCCEEEEEeCCCCCHHHHHHHHHhhcCCEEEEEecCHHHHHHHHH
Confidence 3444422456889998555554 5666777889998 48999998887653
No 404
>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=65.31 E-value=18 Score=31.29 Aligned_cols=62 Identities=21% Similarity=0.284 Sum_probs=40.3
Q ss_pred HHHHHHHHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCC--CCeEEEeechHH
Q 047000 147 EVFNIAMYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYP--HIKGINFDLPHV 208 (231)
Q Consensus 147 ~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P--~l~~~v~Dlp~v 208 (231)
....+.+..........+.+.+..+.+..+|+=||||.-.+..+|.+.+| +-++++.|-|+-
T Consensus 246 ~~v~~~i~~~~~~l~~~i~~~~~~~~~~~~I~~vGGGA~ll~~~Ik~~~~~~~~~i~i~~~pqf 309 (318)
T PF06406_consen 246 DDVSEVIEEAVEELINRILRELGDFSDIDRIFFVGGGAILLKDAIKEAFPVPNERIVIVDDPQF 309 (318)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTS-S-SEEEEESTTHHHHHHHHHHHHT--GGGEE--SSGGG
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhccCCeEEEECCcHHHHHHHHHHhhCCCCCcEEECCCchh
Confidence 33444444443333444555543377788899999999999999999987 567899998863
No 405
>KOG4058 consensus Uncharacterized conserved protein [Function unknown]
Probab=65.05 E-value=4.2 Score=31.51 Aligned_cols=43 Identities=19% Similarity=0.177 Sum_probs=31.8
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH 207 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~ 207 (231)
.++..++ -.+..+++|+|.|.|..-.+.++.. -.+.+.++|.+
T Consensus 63 nVLSll~-~n~~GklvDlGSGDGRiVlaaar~g-~~~a~GvELNp 105 (199)
T KOG4058|consen 63 NVLSLLR-GNPKGKLVDLGSGDGRIVLAAARCG-LRPAVGVELNP 105 (199)
T ss_pred HHHHHcc-CCCCCcEEeccCCCceeehhhhhhC-CCcCCceeccH
Confidence 4455554 3345789999999999988888875 45578888864
No 406
>PLN02668 indole-3-acetate carboxyl methyltransferase
Probab=63.91 E-value=16 Score=32.80 Aligned_cols=34 Identities=24% Similarity=0.321 Sum_probs=24.9
Q ss_pred CCceEEEccCChhHHHH--------HHHHH-------CCCCeEEEeech
Q 047000 173 HIQQLVDVGGCLGNTLK--------AITSK-------YPHIKGINFDLP 206 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~--------~l~~~-------~P~l~~~v~Dlp 206 (231)
+.-+|+|+|||+|..+. ++.++ -|++++..=|||
T Consensus 63 ~~~~iaDlGcs~G~ntl~~vs~iI~~i~~~~~~~~~~~pe~qv~~nDLP 111 (386)
T PLN02668 63 VPFTAVDLGCSSGSNTIHIIDVIVKHMSKRYESAGLDPPEFSAFFSDLP 111 (386)
T ss_pred cceeEEEecCCCCccHHHHHHHHHHHHHHHhhhcCCCCCcceEEecCCC
Confidence 46789999999996543 33333 367888888998
No 407
>PRK11642 exoribonuclease R; Provisional
Probab=63.85 E-value=12 Score=37.04 Aligned_cols=49 Identities=20% Similarity=0.257 Sum_probs=37.7
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|.+.|...+ .|++..+|+++++ +........|.+.|+.|...|.+.+.
T Consensus 23 ~Il~~l~~~~--~~~~~~~L~~~l~-l~~~~~~~~l~~~L~~L~~~g~l~~~ 71 (813)
T PRK11642 23 FILEHLTKRE--KPASREELAVELN-IEGEEQLEALRRRLRAMERDGQLVFT 71 (813)
T ss_pred HHHHHHHhcC--CCCCHHHHHHHhC-CCChHHHHHHHHHHHHHHHCCCEEEc
Confidence 3677776543 7999999999999 82111235699999999999999874
No 408
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=63.72 E-value=12 Score=28.48 Aligned_cols=35 Identities=17% Similarity=0.351 Sum_probs=26.4
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHH
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLR 73 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~ 73 (231)
.|-+.|.++ |+...|+.+|++.+| + ++..+.+|++
T Consensus 34 kV~~yLr~~-p~~~ati~eV~e~tg-V----s~~~I~~~Ir 68 (137)
T TIGR03826 34 KVYKFLRKH-ENRQATVSEIVEETG-V----SEKLILKFIR 68 (137)
T ss_pred HHHHHHHHC-CCCCCCHHHHHHHHC-c----CHHHHHHHHH
Confidence 456667765 224589999999999 9 8888877765
No 409
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=63.69 E-value=10 Score=31.42 Aligned_cols=38 Identities=21% Similarity=0.259 Sum_probs=34.4
Q ss_pred CCCCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 43 PGAKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 43 ~~~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
||..+ +-.+||+.+| + +...++.-|+.|...|+|+..+
T Consensus 27 pG~~LPsE~eLa~~~g-V----SRtpVREAL~~L~~eGlV~~~~ 65 (251)
T PRK09990 27 VGQALPSERRLCEKLG-F----SRSALREGLTVLRGRGIIETAQ 65 (251)
T ss_pred CCCcCcCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEeC
Confidence 45788 7899999999 9 9999999999999999999753
No 410
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.60 E-value=8.1 Score=26.88 Aligned_cols=26 Identities=31% Similarity=0.440 Sum_probs=23.4
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHH
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLL 75 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L 75 (231)
.++|.++||++++ + .+..++++|.+-
T Consensus 22 ~~LS~~~iA~~Ln-~----t~~~lekil~~t 47 (97)
T COG4367 22 CPLSDEEIATALN-W----TEVKLEKILQVT 47 (97)
T ss_pred ccccHHHHHHHhC-C----CHHHHHHHHHHh
Confidence 6899999999999 9 999999998654
No 411
>COG1565 Uncharacterized conserved protein [Function unknown]
Probab=63.59 E-value=21 Score=31.71 Aligned_cols=61 Identities=18% Similarity=0.243 Sum_probs=40.2
Q ss_pred CCchHHHHHHHHHHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHH----CC----CCeEEEeech
Q 047000 141 LDPRFNEVFNIAMYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSK----YP----HIKGINFDLP 206 (231)
Q Consensus 141 ~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~----~P----~l~~~v~Dlp 206 (231)
..|+..+.|.+..+..- .+.|-+ .. -.....+|.+|.|+|+++..+++. +| .+++.+++..
T Consensus 50 TApels~lFGella~~~---~~~wq~-~g-~p~~~~lvEiGaG~G~l~~DiL~~l~~L~P~~~~~~~~~iiE~s 118 (370)
T COG1565 50 TAPELSQLFGELLAEQF---LQLWQE-LG-RPAPLKLVEIGAGRGTLASDILRTLRRLYPELYEALSYYIIEPS 118 (370)
T ss_pred echhHHHHHHHHHHHHH---HHHHHH-hc-CCCCceEEEeCCCcChHHHHHHHHHHHhCHHHHhcceEEEEecC
Confidence 35677888888765432 222222 22 234678999999999998888765 56 4677777753
No 412
>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=63.49 E-value=10 Score=28.12 Aligned_cols=49 Identities=8% Similarity=0.045 Sum_probs=41.8
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYF 104 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L 104 (231)
-|.|.++||..++ - +...++.-|..+...|+++.. . ++.|..+....+.
T Consensus 52 ipy~~e~LA~~~~-~----~~~~V~~AL~~f~k~glIe~~---e---d~~i~i~~~~~~~ 100 (121)
T PF09681_consen 52 IPYTAEMLALEFD-R----PVDTVRLALAVFQKLGLIEID---E---DGVIYIPNWEKHQ 100 (121)
T ss_pred CCCcHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEe---c---CCeEEeecHHHHh
Confidence 6999999999999 8 999999999999999999984 2 6778777655543
No 413
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=63.24 E-value=10 Score=31.59 Aligned_cols=37 Identities=30% Similarity=0.438 Sum_probs=33.8
Q ss_pred CCCCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 43 PGAKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 43 ~~~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
||..+ |-.+||+.+| + +...++.-|+.|.+.|+++..
T Consensus 29 pG~~LpsE~eLa~~~g-V----SRtpVREAL~~L~~eGlV~~~ 66 (257)
T PRK10225 29 PGERLPPEREIAEMLD-V----TRTVVREALIMLEIKGLVEVR 66 (257)
T ss_pred CCCcCcCHHHHHHHhC-C----CHHHHHHHHHHHHHCCCEEEe
Confidence 45788 6889999999 9 999999999999999999975
No 414
>KOG1709 consensus Guanidinoacetate methyltransferase and related proteins [Amino acid transport and metabolism]
Probab=63.08 E-value=23 Score=29.29 Aligned_cols=43 Identities=19% Similarity=0.140 Sum_probs=40.1
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPK 214 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~ 214 (231)
.+..+|+.||=|-|.....+.++.|..+.|+-=-|.|.++.+.
T Consensus 100 tkggrvLnVGFGMgIidT~iQe~~p~~H~IiE~hp~V~krmr~ 142 (271)
T KOG1709|consen 100 TKGGRVLNVGFGMGIIDTFIQEAPPDEHWIIEAHPDVLKRMRD 142 (271)
T ss_pred hCCceEEEeccchHHHHHHHhhcCCcceEEEecCHHHHHHHHh
Confidence 5788999999999999999999999999999999999999876
No 415
>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=62.87 E-value=13 Score=31.28 Aligned_cols=54 Identities=19% Similarity=0.154 Sum_probs=41.2
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhC----C-----CCCCceEeecCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHA----P-----KYPGVEHVGGDMF 226 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a----~-----~~~ri~~~~gDff 226 (231)
.+...||.+|||-=+-+..+... +++++.=+|+|+|++.= + ...+..+++.|++
T Consensus 80 ~g~~qvV~LGaGlDTr~~Rl~~~-~~~~~~EvD~P~v~~~K~~~l~~~~~~~~~~~~~v~~Dl~ 142 (260)
T TIGR00027 80 AGIRQVVILGAGLDTRAYRLPWP-DGTRVFEVDQPAVLAFKEKVLAELGAEPPAHRRAVPVDLR 142 (260)
T ss_pred cCCcEEEEeCCccccHHHhcCCC-CCCeEEECCChHHHHHHHHHHHHcCCCCCCceEEeccCch
Confidence 34678999999998888777322 36888999999988642 2 2378999999987
No 416
>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=62.84 E-value=10 Score=27.18 Aligned_cols=51 Identities=16% Similarity=0.102 Sum_probs=40.5
Q ss_pred HHHhhChHHHHHhc-----CCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 28 AVIGLGVFEIIAKA-----GPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 28 ~a~~lglfd~L~~~-----g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
.+.++.|+.++-.. .+..-+|.+++++.+| + ++..+.+.+..|..++++..
T Consensus 31 s~rq~ki~~ai~RkTyG~nKk~d~Is~sq~~e~tg-~----~~~~V~~al~~Li~~~vI~~ 86 (100)
T PF04492_consen 31 SGRQLKILLAIIRKTYGWNKKMDRISNSQIAEMTG-L----SRDHVSKALNELIRRGVIIR 86 (100)
T ss_pred cHHHHHHHHHHHHHccCCCCccceeeHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEe
Confidence 34455666666542 1225789999999999 9 99999999999999999987
No 417
>PF01418 HTH_6: Helix-turn-helix domain, rpiR family; InterPro: IPR000281 This domain contains a helix-turn-helix motif []. Every member of this family is N-terminal to a SIS domain IPR001347 from INTERPRO. Members of this family are probably regulators of genes involved in phosphosugar metobolism.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2O3F_B 3IWF_B.
Probab=62.47 E-value=10 Score=25.47 Aligned_cols=33 Identities=27% Similarity=0.269 Sum_probs=25.0
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVE 82 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~ 82 (231)
...|..+||+.++ + .+..+.|+.+.|--.|+-+
T Consensus 33 ~~~si~elA~~~~-v----S~sti~Rf~kkLG~~gf~e 65 (77)
T PF01418_consen 33 AFMSISELAEKAG-V----SPSTIVRFCKKLGFSGFKE 65 (77)
T ss_dssp CT--HHHHHHHCT-S-----HHHHHHHHHHCTTTCHHH
T ss_pred HHccHHHHHHHcC-C----CHHHHHHHHHHhCCCCHHH
Confidence 4689999999999 9 9999999988876666544
No 418
>PRK10736 hypothetical protein; Provisional
Probab=62.42 E-value=10 Score=33.85 Aligned_cols=44 Identities=7% Similarity=-0.046 Sum_probs=38.6
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
..|++.|.. .|.+.++|+.+++ + +...+..+|-.|.-.|++++.
T Consensus 311 ~~v~~~l~~----~~~~iD~L~~~~~-l----~~~~v~~~L~~LEl~G~v~~~ 354 (374)
T PRK10736 311 PELLANVGD----EVTPVDVVAERAG-Q----PVPEVVTQLLELELAGWIAAV 354 (374)
T ss_pred HHHHHhcCC----CCCCHHHHHHHHC-c----CHHHHHHHHHHHHhCCcEEEc
Confidence 356676665 5899999999999 9 999999999999999999984
No 419
>PF11312 DUF3115: Protein of unknown function (DUF3115); InterPro: IPR021463 This eukaryotic family of proteins has no known function.
Probab=62.07 E-value=12 Score=32.49 Aligned_cols=38 Identities=21% Similarity=0.436 Sum_probs=28.8
Q ss_pred CceEEEccCChhHHHHHHHHHC--------------------CCCeEEEeech---HHHhh
Q 047000 174 IQQLVDVGGCLGNTLKAITSKY--------------------PHIKGINFDLP---HVIQH 211 (231)
Q Consensus 174 ~~~vvDVGGG~G~~~~~l~~~~--------------------P~l~~~v~Dlp---~vi~~ 211 (231)
..+||-||||.|.=..+++..+ |.++.+++|.. .|+..
T Consensus 87 ~~~VlCIGGGAGAElVAlAa~~~~~~~~~~s~~~~~~~~~~~~~l~itlvDiAdWs~VV~~ 147 (315)
T PF11312_consen 87 SLRVLCIGGGAGAELVALAAAFRTRSSEFLSKSPSGVSLSSPPSLSITLVDIADWSSVVDR 147 (315)
T ss_pred CceEEEECCChHHHHHHHHHHHhhcccccCCcccccccccCCCcceEEEEEecChHHHHHH
Confidence 4799999999998777776665 34778999974 45544
No 420
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=62.00 E-value=11 Score=28.13 Aligned_cols=34 Identities=26% Similarity=0.293 Sum_probs=31.8
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
=-|..+||..++ + ++.-+.|..+.|...|++...
T Consensus 35 LPSvRelA~~~~-V----NpnTv~raY~eLE~eG~i~t~ 68 (125)
T COG1725 35 LPSVRELAKDLG-V----NPNTVQRAYQELEREGIVETK 68 (125)
T ss_pred CCcHHHHHHHhC-C----CHHHHHHHHHHHHHCCCEEEe
Confidence 458999999999 9 999999999999999999975
No 421
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=61.63 E-value=47 Score=22.98 Aligned_cols=60 Identities=17% Similarity=0.292 Sum_probs=36.5
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHH---HHHHHhCCcccccccCCCCcCcccccchhhccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRM---LRLLASHSAVECSIDDADDSQRLYGLNDVSNYF 104 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rl---L~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L 104 (231)
|.+.+.+. -++|.++....+. - .+..+..-.|+ +-.|...|+++.+ . .|.|++|+.++.+
T Consensus 25 i~~~v~~~---~~ls~e~~~~~~~-s-g~~~~~~~~ri~Wa~~~L~~aGli~~~---~---rG~~~iT~~G~~~ 87 (92)
T PF14338_consen 25 IYERVAER---FGLSDEERNERLP-S-GQGYSRFKNRIRWARSYLKKAGLIERP---K---RGIWRITEKGRKA 87 (92)
T ss_pred HHHHHHHH---hCCCHHHHHHHcc-c-CCcchhHHHhHHHHHHHHHHCCCccCC---C---CCceEECHhHHHH
Confidence 55555554 3566666666542 1 00011222333 7789999999884 2 6899999999843
No 422
>COG0350 Ada Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]
Probab=61.49 E-value=10 Score=29.79 Aligned_cols=46 Identities=15% Similarity=0.164 Sum_probs=35.6
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCC
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHS 79 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g 79 (231)
+..+..|+++|.+..-|.-.|+.|||+++| .|...+.+-.++.++=
T Consensus 87 t~Fq~~Vw~aL~~IP~Get~TY~eiA~~ig------~p~a~rAVG~A~~~NP 132 (168)
T COG0350 87 TGFQGRVWQALREIPYGETVTYGEIARRLG------RPTAVRAVGNANGANP 132 (168)
T ss_pred ChHHHHHHHHHhcCCCCCcEeHHHHHHHhC------CCcHHHHHHHHhccCC
Confidence 578889999998875558999999999999 4566665666665553
No 423
>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=61.41 E-value=11 Score=34.43 Aligned_cols=34 Identities=18% Similarity=0.218 Sum_probs=26.9
Q ss_pred ceEEEccCC-hhHHHH-HHHHHCCCCeEEEeechHH
Q 047000 175 QQLVDVGGC-LGNTLK-AITSKYPHIKGINFDLPHV 208 (231)
Q Consensus 175 ~~vvDVGGG-~G~~~~-~l~~~~P~l~~~v~Dlp~v 208 (231)
.-|+-|||| +|..+. .|+++.|+.+++|+|.-.+
T Consensus 25 ~DVvIIGgGi~Gls~A~~La~~~~G~~V~vlE~~~~ 60 (460)
T TIGR03329 25 ADVCIVGGGFTGLWTAIMIKQQRPALDVLVLEADLC 60 (460)
T ss_pred eCEEEECCCHHHHHHHHHHHHhCCCCeEEEEeCCcc
Confidence 458999999 677554 6788889999999997543
No 424
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=61.37 E-value=12 Score=31.15 Aligned_cols=37 Identities=27% Similarity=0.299 Sum_probs=33.4
Q ss_pred CCCCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 43 PGAKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 43 ~~~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
||..+ +-.+||+.+| + +...++.-|+.|.+.|+++..
T Consensus 22 pG~~LpsE~eLae~~g-V----SRtpVREAL~~Le~~GlV~~~ 59 (253)
T PRK10421 22 AGMKLPAERQLAMQLG-V----SRNSLREALAKLVSEGVLLSR 59 (253)
T ss_pred CCCcCCCHHHHHHHhC-C----CHHHHHHHHHHHHHCCCEEEe
Confidence 44778 6889999999 9 999999999999999999975
No 425
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=61.24 E-value=15 Score=27.17 Aligned_cols=43 Identities=19% Similarity=0.225 Sum_probs=34.2
Q ss_pred HHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 35 FEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 35 fd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
.+.|..+ ...+.|+++||+.+| + ++..+.|+++....+.+-+.
T Consensus 15 ~~~I~~~-~~~~~sl~~lA~~~g-~----S~~~l~r~Fk~~~G~s~~~~ 57 (127)
T PRK11511 15 LDWIEDN-LESPLSLEKVSERSG-Y----SKWHLQRMFKKETGHSLGQY 57 (127)
T ss_pred HHHHHHh-cCCCCCHHHHHHHHC-c----CHHHHHHHHHHHHCcCHHHH
Confidence 4444443 125899999999999 9 99999999998888877776
No 426
>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=61.24 E-value=13 Score=27.38 Aligned_cols=35 Identities=29% Similarity=0.250 Sum_probs=31.6
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.|.|+.|||..++ + +...++-++.-|...|++.-.
T Consensus 54 ~~~SVAEiAA~L~-l----PlgVvrVLvsDL~~~G~v~v~ 88 (114)
T PF05331_consen 54 RPLSVAEIAARLG-L----PLGVVRVLVSDLADAGLVRVR 88 (114)
T ss_pred CCccHHHHHHhhC-C----CchhhhhhHHHHHhCCCEEEe
Confidence 3899999999999 9 888888889999999999974
No 427
>PRK00082 hrcA heat-inducible transcription repressor; Provisional
Probab=61.22 E-value=22 Score=31.31 Aligned_cols=47 Identities=9% Similarity=0.032 Sum_probs=38.0
Q ss_pred CCCCHHHHHHh--CCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhh
Q 047000 45 AKLSASEIAAQ--LPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVS 101 (231)
Q Consensus 45 ~~~t~~eLA~~--~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s 101 (231)
+|++.++||+. ++ + ++.-+++-|..|...|++++. +. ....-.|..+
T Consensus 24 ~pv~s~~l~~~~~l~-~----S~aTIR~dm~~Le~~G~l~~~-h~----sagrIPT~kG 72 (339)
T PRK00082 24 EPVGSKTLSKRYGLG-V----SSATIRNDMADLEELGLLEKP-HT----SSGRIPTDKG 72 (339)
T ss_pred CCcCHHHHHHHhCCC-C----ChHHHHHHHHHHHhCCCcCCC-cC----CCCCCcCHHH
Confidence 79999999977 88 8 999999999999999999985 22 2333455555
No 428
>KOG1562 consensus Spermidine synthase [Amino acid transport and metabolism]
Probab=61.19 E-value=4.2 Score=35.05 Aligned_cols=55 Identities=22% Similarity=0.390 Sum_probs=42.5
Q ss_pred CCCCceEEEccCChhHHHHHHHHHCCCCe-EEEeechH-HHhhCCCC----------CCceEeecCCC
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKYPHIK-GINFDLPH-VIQHAPKY----------PGVEHVGGDMF 226 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dlp~-vi~~a~~~----------~ri~~~~gDff 226 (231)
..+.++++-||||.|.+++...++ +.+. ..++|... |++..+++ +||....||=|
T Consensus 119 ~~npkkvlVVgggDggvlrevikH-~~ve~i~~~eiD~~Vie~sk~y~p~la~gy~~~~v~l~iGDG~ 185 (337)
T KOG1562|consen 119 HPNPKKVLVVGGGDGGVLREVIKH-KSVENILLCEIDENVIESSKQYLPTLACGYEGKKVKLLIGDGF 185 (337)
T ss_pred CCCCCeEEEEecCCccceeeeecc-ccccceeeehhhHHHHHHHHHHhHHHhcccCCCceEEEeccHH
Confidence 346799999999999999999998 7876 67788765 55544432 78988888744
No 429
>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=61.14 E-value=18 Score=27.01 Aligned_cols=47 Identities=11% Similarity=0.161 Sum_probs=37.5
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhC----CCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQL----PATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~----g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.++.|.+.|=.. ++.|+.+|.+.+ + + ...-+..+|+-|...|+++..
T Consensus 5 ~E~~VM~vlW~~---~~~t~~eI~~~l~~~~~-~----~~tTv~T~L~rL~~KG~v~~~ 55 (130)
T TIGR02698 5 AEWEVMRVVWTL---GETTSRDIIRILAEKKD-W----SDSTIKTLLGRLVDKGCLTTE 55 (130)
T ss_pred HHHHHHHHHHcC---CCCCHHHHHHHHhhccC-C----cHHHHHHHHHHHHHCCceeee
Confidence 456677777554 589999977766 5 5 788999999999999999974
No 430
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=61.13 E-value=12 Score=30.64 Aligned_cols=38 Identities=21% Similarity=0.306 Sum_probs=34.0
Q ss_pred CCCCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 43 PGAKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 43 ~~~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
+|..+ |-.+||+..| + +-..++.-|+.|...|+++..+
T Consensus 27 pG~~LPsE~eLae~~g-V----SRt~VReAL~~L~~eGlv~~~~ 65 (239)
T PRK04984 27 PGSILPAERELSELIG-V----TRTTLREVLQRLARDGWLTIQH 65 (239)
T ss_pred CCCcCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEeC
Confidence 44778 7889999999 9 9999999999999999999863
No 431
>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=61.09 E-value=7.2 Score=28.90 Aligned_cols=46 Identities=13% Similarity=0.053 Sum_probs=39.7
Q ss_pred HHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccccCCC
Q 047000 51 EIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFVPNK 108 (231)
Q Consensus 51 eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~~~~ 108 (231)
+||+.++ + +-+-|--+++++..+||++.. +|-..+|+.++.++...
T Consensus 2 ~La~~l~-~----eiDdL~p~~eAaelLgf~~~~-------~Gdi~LT~~G~~f~~a~ 47 (120)
T PF09821_consen 2 QLADELH-L----EIDDLLPIVEAAELLGFAEVE-------EGDIRLTPLGRRFAEAD 47 (120)
T ss_pred chHHHhC-C----cHHHHHHHHHHHHHcCCeeec-------CCcEEeccchHHHHHCC
Confidence 5888999 8 999999999999999999983 67899999998666443
No 432
>COG2390 DeoR Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]
Probab=60.93 E-value=9.9 Score=33.20 Aligned_cols=35 Identities=29% Similarity=0.323 Sum_probs=33.1
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.++|-.|||+++| + +...+.|+|..+...|+|+-.
T Consensus 25 ~gltQ~eIA~~Lg-i----SR~~v~rlL~~Ar~~GiV~I~ 59 (321)
T COG2390 25 EGLTQSEIAERLG-I----SRATVSRLLAKAREEGIVKIS 59 (321)
T ss_pred cCCCHHHHHHHhC-C----CHHHHHHHHHHHHHCCeEEEE
Confidence 4899999999999 9 999999999999999999975
No 433
>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=60.91 E-value=13 Score=30.39 Aligned_cols=37 Identities=22% Similarity=0.334 Sum_probs=34.0
Q ss_pred CCCCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 43 PGAKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 43 ~~~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
||..+ |-.+||+.+| + +...++.-|+.|...|+++..
T Consensus 26 pG~~LpsE~~La~~lg-V----SRtpVREAL~~Le~eGlV~~~ 63 (235)
T TIGR02812 26 PGSILPAERELSELIG-V----TRTTLREVLQRLARDGWLTIQ 63 (235)
T ss_pred CCCcCcCHHHHHHHHC-c----CHHHHHHHHHHHHHCCCEEEe
Confidence 45788 7999999999 9 999999999999999999975
No 434
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=60.85 E-value=14 Score=29.63 Aligned_cols=41 Identities=24% Similarity=0.258 Sum_probs=35.3
Q ss_pred hChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 32 LGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 32 lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
+.+...|..+ +|+|..+|++..| + +. ..+++.|...|++.+
T Consensus 93 LEtLaiIay~---qPiTr~eI~~irG-v----~~---~~ii~~L~~~gLI~e 133 (188)
T PRK00135 93 LEVLAIIAYK---QPITRIEIDEIRG-V----NS---DGALQTLLAKGLIKE 133 (188)
T ss_pred HHHHHHHHHc---CCcCHHHHHHHHC-C----CH---HHHHHHHHHCCCeEE
Confidence 4467778776 6999999999999 8 64 799999999999986
No 435
>PRK00901 methylated-DNA--protein-cysteine methyltransferase; Provisional
Probab=60.46 E-value=14 Score=28.63 Aligned_cols=48 Identities=15% Similarity=0.073 Sum_probs=38.4
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcc
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAV 81 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l 81 (231)
+.++..|++.|.+...|...|+.|||+.+| .|...+.+=.+|..+-+.
T Consensus 72 t~fq~~Vw~~l~~Ip~G~t~tY~~lA~~~g------~p~a~RAVg~A~~~NP~~ 119 (155)
T PRK00901 72 TEFQKKVWKALQEIPYGETRSYKEIAVNIG------NPKACRAVGLANNKNPIP 119 (155)
T ss_pred ChHHHHHHHHHccCCCCCcCCHHHHHHHHC------CCchHHHHHHHHHhCCCC
Confidence 567788999999876678999999999999 467777777777665553
No 436
>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=60.33 E-value=24 Score=28.41 Aligned_cols=42 Identities=10% Similarity=0.109 Sum_probs=26.6
Q ss_pred CCceEEEccCChhH----HHHHHHHH---CC--CCeEEEeech-HHHhhCCC
Q 047000 173 HIQQLVDVGGCLGN----TLKAITSK---YP--HIKGINFDLP-HVIQHAPK 214 (231)
Q Consensus 173 ~~~~vvDVGGG~G~----~~~~l~~~---~P--~l~~~v~Dlp-~vi~~a~~ 214 (231)
+.-+|...||++|. +++.+.+. .. +++++.-|+. .+++.|+.
T Consensus 31 ~~lrIWSagCStGeE~YSlAmll~e~~~~~~~~~~~I~atDi~~~~L~~Ar~ 82 (196)
T PF01739_consen 31 RPLRIWSAGCSTGEEPYSLAMLLLELLPGALGWDFRILATDISPSALEKARA 82 (196)
T ss_dssp S-EEEEETT-TTTHHHHHHHHHHHHHH-S-TT-SEEEEEEES-HHHHHHHHH
T ss_pred CCeEEEECCCCCChhHHHHHHHHHHHhcccCCCceEEEEEECCHHHHHHHHh
Confidence 56899999999997 44445552 12 3567888884 57766653
No 437
>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=60.09 E-value=8.3 Score=25.67 Aligned_cols=34 Identities=15% Similarity=0.165 Sum_probs=25.9
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
..-|.+|||+.+| + +...+..++......-.+..
T Consensus 19 r~Pt~eEiA~~lg-i----s~~~v~~~l~~~~~~~Sl~~ 52 (78)
T PF04539_consen 19 REPTDEEIAEELG-I----SVEEVRELLQASRRPVSLDL 52 (78)
T ss_dssp S--BHHHHHHHHT-S-----HHHHHHHHHHHSCCEESSH
T ss_pred CCCCHHHHHHHHc-c----cHHHHHHHHHhCCCCeEEee
Confidence 5789999999999 9 99999999998766555554
No 438
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=59.87 E-value=9.2 Score=24.18 Aligned_cols=31 Identities=19% Similarity=0.356 Sum_probs=20.9
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHH
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLR 73 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~ 73 (231)
|-+.+.+ ..+|..+||+.+| + ++..+.+++.
T Consensus 2 L~~~m~~----~~it~~~La~~~g-i----s~~tl~~~~~ 32 (63)
T PF13443_consen 2 LKELMAE----RGITQKDLARKTG-I----SRSTLSRILN 32 (63)
T ss_dssp HHHHHHH----TT--HHHHHHHHT-------HHHHHHHHT
T ss_pred HHHHHHH----cCCCHHHHHHHHC-c----CHHHHHHHHh
Confidence 4456666 4689999999999 9 8888887765
No 439
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=59.70 E-value=18 Score=21.73 Aligned_cols=25 Identities=24% Similarity=0.275 Sum_probs=21.4
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHH
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLL 75 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L 75 (231)
+.+..+||+.++ + ++..+++.++.+
T Consensus 18 g~s~~eia~~l~-i----s~~tv~~~~~~~ 42 (58)
T smart00421 18 GLTNKEIAERLG-I----SEKTVKTHLSNI 42 (58)
T ss_pred CCCHHHHHHHHC-C----CHHHHHHHHHHH
Confidence 589999999999 9 888888776654
No 440
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=59.53 E-value=7 Score=23.69 Aligned_cols=32 Identities=13% Similarity=0.114 Sum_probs=16.4
Q ss_pred CHHHHHHhCCCC-----------CCCCCcchHHHHHHHHHhCCc
Q 047000 48 SASEIAAQLPAT-----------KNKDAPMMLDRMLRLLASHSA 80 (231)
Q Consensus 48 t~~eLA~~~g~~-----------~~~~~~~~l~rlL~~L~~~g~ 80 (231)
|+.|||+.+| + .....++.-.|+++.+..+|+
T Consensus 1 Ti~dIA~~ag-vS~~TVSr~ln~~~~vs~~tr~rI~~~a~~lgY 43 (46)
T PF00356_consen 1 TIKDIAREAG-VSKSTVSRVLNGPPRVSEETRERILEAAEELGY 43 (46)
T ss_dssp CHHHHHHHHT-SSHHHHHHHHTTCSSSTHHHHHHHHHHHHHHTB
T ss_pred CHHHHHHHHC-cCHHHHHHHHhCCCCCCHHHHHHHHHHHHHHCC
Confidence 4556666666 5 122244455555555555554
No 441
>smart00342 HTH_ARAC helix_turn_helix, arabinose operon control protein.
Probab=59.45 E-value=11 Score=24.53 Aligned_cols=30 Identities=20% Similarity=0.377 Sum_probs=25.0
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSA 80 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~ 80 (231)
+.|+++||+.++ + ++..+.+++.......+
T Consensus 1 ~~~~~~la~~~~-~----s~~~l~~~f~~~~~~s~ 30 (84)
T smart00342 1 PLTLEDLAEALG-M----SPRHLQRLFKKETGTTP 30 (84)
T ss_pred CCCHHHHHHHhC-C----CHHHHHHHHHHHhCcCH
Confidence 478999999999 9 99999999887755443
No 442
>TIGR00331 hrcA heat shock gene repressor HrcA. In Bacillus subtilis, hrcA is the first gene of the dnaK operon and so is itself a heat shock gene.
Probab=59.06 E-value=18 Score=31.72 Aligned_cols=35 Identities=9% Similarity=0.097 Sum_probs=33.4
Q ss_pred CCCCHHHHHHh--CCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQ--LPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~--~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+|++..+|++. ++ + ++.-++|-|..|...|++.+.
T Consensus 20 ~pv~s~~l~~~~~~~-v----S~aTiR~d~~~Le~~G~l~~~ 56 (337)
T TIGR00331 20 QPVGSKTLLEKYNLG-L----SSATIRNDMADLEDLGFIEKP 56 (337)
T ss_pred CCcCHHHHHhhcCCC-C----ChHHHHHHHHHHHHCCCccCC
Confidence 79999999999 99 8 999999999999999999985
No 443
>PRK10742 putative methyltransferase; Provisional
Probab=58.91 E-value=25 Score=29.57 Aligned_cols=63 Identities=11% Similarity=0.090 Sum_probs=45.3
Q ss_pred HHHHHhCCCCCCCc--eEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhh--------CC------C-C-CCceEeec
Q 047000 162 QKILEAYKGFEHIQ--QLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQH--------AP------K-Y-PGVEHVGG 223 (231)
Q Consensus 162 ~~~~~~~~~~~~~~--~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~--------a~------~-~-~ri~~~~g 223 (231)
+.++++.. .++.. +|||.=+|.|..+..++.+ +.+++.+|...++.. +. . . .||+.+.+
T Consensus 76 ~~l~kAvg-lk~g~~p~VLD~TAGlG~Da~~las~--G~~V~~vEr~p~vaalL~dgL~ra~~~~~~~~~~~~ri~l~~~ 152 (250)
T PRK10742 76 EAVAKAVG-IKGDYLPDVVDATAGLGRDAFVLASV--GCRVRMLERNPVVAALLDDGLARGYADAEIGGWLQERLQLIHA 152 (250)
T ss_pred cHHHHHhC-CCCCCCCEEEECCCCccHHHHHHHHc--CCEEEEEECCHHHHHHHHHHHHHhhhccccchhhhceEEEEeC
Confidence 45667665 55544 9999999999999999998 778999998654422 21 1 1 46888887
Q ss_pred CCCC
Q 047000 224 DMFQ 227 (231)
Q Consensus 224 Dff~ 227 (231)
|..+
T Consensus 153 da~~ 156 (250)
T PRK10742 153 SSLT 156 (250)
T ss_pred cHHH
Confidence 7653
No 444
>PF10771 DUF2582: Protein of unknown function (DUF2582); InterPro: IPR019707 This entry represents conserved proteins found in bacteria and archaea. The function is not known. ; PDB: 2L02_B 2L01_A.
Probab=58.84 E-value=14 Score=24.27 Aligned_cols=42 Identities=17% Similarity=0.230 Sum_probs=31.1
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
|++.|... ++.|+.+|++.++ + +...+..-+--|...+=+..
T Consensus 13 Vw~~L~~~---~~~s~~el~k~~~-l----~~~~~~~AiGWLarE~KI~~ 54 (65)
T PF10771_consen 13 VWQLLNEN---GEWSVSELKKATG-L----SDKEVYLAIGWLARENKIEF 54 (65)
T ss_dssp HHHHHCCS---SSEEHHHHHHHCT------SCHHHHHHHHHHHCTTSEEE
T ss_pred HHHHHhhC---CCcCHHHHHHHhC-c----CHHHHHHHHHHHhccCceeE
Confidence 78888875 6999999999999 8 87777666666655554443
No 445
>TIGR02844 spore_III_D sporulation transcriptional regulator SpoIIID. Members of this protein are the transcriptional regulator SpoIIID, or stage III sporulation protein D. It is present in genomes if and only if the species is capable of endospore formation as occurs in the model species Bacillus subtilis. SpoIIID is a DNA binding protein that, in B. subtilis, downregulates many genes but also turns on ten genes.
Probab=58.66 E-value=14 Score=25.24 Aligned_cols=31 Identities=13% Similarity=0.124 Sum_probs=25.7
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHH
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRML 72 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL 72 (231)
-|.+.|.. | ..|+.+||+.+| + +...++|.|
T Consensus 10 ~I~e~l~~-~---~~ti~dvA~~~g-v----S~~TVsr~L 40 (80)
T TIGR02844 10 EIGKYIVE-T---KATVRETAKVFG-V----SKSTVHKDV 40 (80)
T ss_pred HHHHHHHH-C---CCCHHHHHHHhC-C----CHHHHHHHh
Confidence 46677777 4 899999999999 9 888888855
No 446
>PF14314 Methyltrans_Mon: Virus-capping methyltransferase
Probab=58.65 E-value=21 Score=34.33 Aligned_cols=63 Identities=13% Similarity=0.199 Sum_probs=42.8
Q ss_pred CCchHHHHHHHHHHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeE---EEeec
Q 047000 141 LDPRFNEVFNIAMYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKG---INFDL 205 (231)
Q Consensus 141 ~~~~~~~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~---~v~Dl 205 (231)
+||-..-.-...++..+......++..++ . ..+-.+-+|=|+|.+...+++.||..++ .++++
T Consensus 292 qnPlISGLR~~Q~ATGAHYKlRsIL~~~~-i-~~~d~l~~GDGSGGita~lLR~~p~sr~iFNSLL~~ 357 (675)
T PF14314_consen 292 QNPLISGLRLFQLATGAHYKLRSILKNLN-I-KYRDALCGGDGSGGITACLLRMNPTSRGIFNSLLEL 357 (675)
T ss_pred cCcchhhhhhhcccccchhhHHHHHHhcC-C-CcceeEEEecCchHHHHHHHHhCcccceeeeccccc
Confidence 35544333333344455556677888766 2 2355688999999999999999999997 45554
No 447
>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed
Probab=58.53 E-value=13 Score=32.13 Aligned_cols=48 Identities=10% Similarity=0.074 Sum_probs=39.1
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHH-HHHhCCcccccccCCCCcCcccccchhhc-cc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLR-LLASHSAVECSIDDADDSQRLYGLNDVSN-YF 104 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~-~L~~~g~l~~~~~~~~~~~~~y~~t~~s~-~L 104 (231)
++.+++.+|+.+| . ++..++.+++ .|...|+++. + +..-..|+.+. +|
T Consensus 275 ~~~~~~~~a~~lg-~----~~~~~~~~~e~~Li~~~li~~---~----~~gr~~~~~~~~~~ 324 (328)
T PRK00080 275 GPVGLDTLAAALG-E----ERDTIEDVYEPYLIQQGFIQR---T----PRGRVATPKAYEHL 324 (328)
T ss_pred CceeHHHHHHHHC-C----CcchHHHHhhHHHHHcCCccc---C----CchHHHHHHHHHHh
Confidence 7999999999999 8 9999999999 9999999986 3 33344666664 44
No 448
>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=58.47 E-value=7.3 Score=33.65 Aligned_cols=55 Identities=13% Similarity=0.093 Sum_probs=32.6
Q ss_pred CCceEEEccCChhH-HHHHHHHHCCCCeEEEeech-HHHhhCCC--------CCCceEeec----CCCCC
Q 047000 173 HIQQLVDVGGCLGN-TLKAITSKYPHIKGINFDLP-HVIQHAPK--------YPGVEHVGG----DMFQN 228 (231)
Q Consensus 173 ~~~~vvDVGGG~G~-~~~~l~~~~P~l~~~v~Dlp-~vi~~a~~--------~~ri~~~~g----Dff~~ 228 (231)
...+++|||.|.-. +.+--++.| +.+++.-|.. ..++.|+. .+||+++.. ++|..
T Consensus 102 ~~v~glDIGTGAscIYpLLg~~~~-~W~fvaTdID~~sl~~A~~nv~~N~~L~~~I~l~~~~~~~~i~~~ 170 (299)
T PF05971_consen 102 EKVRGLDIGTGASCIYPLLGAKLY-GWSFVATDIDPKSLESARENVERNPNLESRIELRKQKNPDNIFDG 170 (299)
T ss_dssp ---EEEEES-TTTTHHHHHHHHHH---EEEEEES-HHHHHHHHHHHHHT-T-TTTEEEEE--ST-SSTTT
T ss_pred cceEeecCCccHHHHHHHHhhhhc-CCeEEEecCCHHHHHHHHHHHHhccccccceEEEEcCCccccchh
Confidence 36789999999875 445555655 9999999984 46666543 267877633 55654
No 449
>PRK03837 transcriptional regulator NanR; Provisional
Probab=57.41 E-value=17 Score=29.73 Aligned_cols=38 Identities=26% Similarity=0.322 Sum_probs=34.2
Q ss_pred CCCCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 43 PGAKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 43 ~~~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
+|..+ +-.+||+.+| + +...++.-|+.|...|+++..+
T Consensus 33 pG~~Lp~E~~Lae~~g-V----SRt~VREAL~~L~~eGlv~~~~ 71 (241)
T PRK03837 33 PGDQLPSERELMAFFG-V----GRPAVREALQALKRKGLVQISH 71 (241)
T ss_pred CCCCCCCHHHHHHHhC-C----CHHHHHHHHHHHHHCCCEEEec
Confidence 44678 8999999999 9 9999999999999999999853
No 450
>PF13578 Methyltransf_24: Methyltransferase domain; PDB: 3SSO_A 3SSN_C 3SSM_D.
Probab=57.36 E-value=6.2 Score=27.83 Aligned_cols=50 Identities=20% Similarity=0.139 Sum_probs=13.8
Q ss_pred EEccCChhHHHHHHHHHCCCC---eEEEeechH----HHhhCCC---CCCceEeecCCCC
Q 047000 178 VDVGGCLGNTLKAITSKYPHI---KGINFDLPH----VIQHAPK---YPGVEHVGGDMFQ 227 (231)
Q Consensus 178 vDVGGG~G~~~~~l~~~~P~l---~~~v~Dlp~----vi~~a~~---~~ri~~~~gDff~ 227 (231)
|.||...|..+..+++..+.. +++.+|..+ +-+..++ .++++++.+|+.+
T Consensus 1 lEiG~~~G~st~~l~~~~~~~~~~~~~~vD~~~~~~~~~~~~~~~~~~~~~~~~~g~s~~ 60 (106)
T PF13578_consen 1 LEIGTYSGYSTLWLASALRDNGRGKLYSVDPFPGDEQAQEIIKKAGLSDRVEFIQGDSPD 60 (106)
T ss_dssp --------------------------EEEESS------------GGG-BTEEEEES-THH
T ss_pred CccccccccccccccccccccccCCEEEEECCCcccccchhhhhcCCCCeEEEEEcCcHH
Confidence 578988999888888877665 578889765 2223332 2789999998743
No 451
>PF13542 HTH_Tnp_ISL3: Helix-turn-helix domain of transposase family ISL3
Probab=57.21 E-value=20 Score=21.63 Aligned_cols=35 Identities=11% Similarity=0.200 Sum_probs=27.7
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHH
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRL 74 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~ 74 (231)
++.-|.+.+.. ..|..++|+.+| + +...+.|+++.
T Consensus 16 ~~~~i~~~~~~-----~~s~~~vA~~~~-v----s~~TV~ri~~~ 50 (52)
T PF13542_consen 16 LEQYILKLLRE-----SRSFKDVARELG-V----SWSTVRRIFDR 50 (52)
T ss_pred HHHHHHHHHhh-----cCCHHHHHHHHC-C----CHHHHHHHHHh
Confidence 34456666665 379999999999 9 99999999864
No 452
>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=57.13 E-value=14 Score=25.82 Aligned_cols=44 Identities=7% Similarity=0.004 Sum_probs=31.0
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
+|-|.-.+.. +..++..|-+.+| + +.+-++..+.+|..+|+..+
T Consensus 10 rlyla~li~~----~~~nvp~L~~~TG-m----PrRT~Qd~i~aL~~~~I~~~ 53 (90)
T PF09904_consen 10 RLYLAYLIDS----GERNVPALMEATG-M----PRRTIQDTIKALPELGIECE 53 (90)
T ss_dssp HHHHHHHHHH----S-B-HHHHHHHH--------HHHHHHHHHGGGGGT-EEE
T ss_pred HHHHHHHHhc----CCccHHHHHHHhC-C----CHhHHHHHHHHhhcCCeEEE
Confidence 4455556666 3449999999999 9 99999999999999998776
No 453
>PRK12423 LexA repressor; Provisional
Probab=56.85 E-value=24 Score=28.39 Aligned_cols=36 Identities=19% Similarity=0.182 Sum_probs=30.5
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
-+-|..|||+.+| +. .+..+++-|+.|...|+++..
T Consensus 24 ~~Ps~~eia~~~g-~~---s~~~v~~~l~~L~~~G~l~~~ 59 (202)
T PRK12423 24 QPPSLAEIAQAFG-FA---SRSVARKHVQALAEAGLIEVV 59 (202)
T ss_pred CCCCHHHHHHHhC-CC---ChHHHHHHHHHHHHCCCEEec
Confidence 3669999999999 71 355789999999999999985
No 454
>PF03374 ANT: Phage antirepressor protein KilAC domain; InterPro: IPR005039 This entry is represented by Bacteriophage P1, Ant1 C-terminal domain, which represents the processed Ant2 chain. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Prophages P1 and P7 exist as unit copy DNA plasmids in the bacterial cell. Maintenance of the prophage state requires the continuous expression of two repressors: (i) C1 is a protein which negatively regulates the expression of lytic genes including the C1 inactivator gene coi, and (ii) C4 is an antisense RNA which specifically inhibits the synthesis of an anti-repressor Ant.; GO: 0003677 DNA binding
Probab=56.80 E-value=16 Score=26.18 Aligned_cols=41 Identities=15% Similarity=0.101 Sum_probs=32.6
Q ss_pred ChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccc
Q 047000 33 GVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVEC 83 (231)
Q Consensus 33 glfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~ 83 (231)
..+|.+.... +.+|+.++|+.+| + .+..|.++|| ..|++.+
T Consensus 13 ~~~d~~~~~~--~~~ti~~~AK~L~-i----~~~~l~~~Lr---~~g~l~~ 53 (111)
T PF03374_consen 13 EFYDAFVDSD--GLYTIREAAKLLG-I----GRNKLFQWLR---EKGWLYR 53 (111)
T ss_pred HHHHHHHcCC--CCccHHHHHHHhC-C----CHHHHHHHHH---hCCceEE
Confidence 4577777654 7899999999999 9 8776666665 4899987
No 455
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=56.44 E-value=12 Score=22.68 Aligned_cols=26 Identities=27% Similarity=0.346 Sum_probs=21.2
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHH
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLL 75 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L 75 (231)
.+.|.+|||+.+| + +...++++.+..
T Consensus 19 ~~~t~~eIa~~lg-~----s~~~V~~~~~~a 44 (50)
T PF04545_consen 19 EGLTLEEIAERLG-I----SRSTVRRILKRA 44 (50)
T ss_dssp ST-SHHHHHHHHT-S----CHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHC-C----cHHHHHHHHHHH
Confidence 4799999999999 9 999888876543
No 456
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=56.37 E-value=16 Score=30.28 Aligned_cols=38 Identities=21% Similarity=0.225 Sum_probs=33.6
Q ss_pred CCCCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 43 PGAKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 43 ~~~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
||..+ |-.+||+.+| + +...++.-|+.|...|+|+..+
T Consensus 28 pG~~LpsE~eLae~~g-V----SRtpVREAL~~L~~eGlV~~~~ 66 (253)
T PRK11523 28 VGDKLPAERFIADEKN-V----SRTVVREAIIMLEVEGYVEVRK 66 (253)
T ss_pred CCCCCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEec
Confidence 44788 4789999999 9 9999999999999999999753
No 457
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental
Probab=56.26 E-value=22 Score=21.37 Aligned_cols=25 Identities=24% Similarity=0.210 Sum_probs=21.3
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHH
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLL 75 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L 75 (231)
+.|..+||+.++ + ++..+++.++.+
T Consensus 15 ~~s~~eia~~l~-~----s~~tv~~~~~~~ 39 (57)
T cd06170 15 GKTNKEIADILG-I----SEKTVKTHLRNI 39 (57)
T ss_pred CCCHHHHHHHHC-C----CHHHHHHHHHHH
Confidence 689999999999 9 888887776654
No 458
>TIGR02531 yecD_yerC TrpR-related protein YerC/YecD. This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence.
Probab=55.81 E-value=16 Score=25.43 Aligned_cols=36 Identities=22% Similarity=0.296 Sum_probs=28.7
Q ss_pred hhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHH
Q 047000 31 GLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLA 76 (231)
Q Consensus 31 ~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~ 76 (231)
+..|+..+.. +.|..+||+.+| + +..-+.|+.+.+.
T Consensus 40 R~~I~~ll~~-----G~S~~eIA~~Lg-I----SrsTIyRi~R~~n 75 (88)
T TIGR02531 40 RLQVAKMLKQ-----GKTYSDIEAETG-A----STATISRVKRCLN 75 (88)
T ss_pred HHHHHHHHHC-----CCCHHHHHHHHC-c----CHHHHHHHHHhcc
Confidence 3556666665 589999999999 9 9999999887643
No 459
>PF01035 DNA_binding_1: 6-O-methylguanine DNA methyltransferase, DNA binding domain; InterPro: IPR014048 Synonym(s): 6-O-methylguanine-DNA methyltransferase, O-6-methylguanine-DNA-alkyltransferase This entry represents the DNA binding region of 6-O-methylguanine-DNA methyltransferases. The repair of DNA containing O6-alkylated guanine is carried out by DNA-[protein]-cysteine S-methyltransferase (2.1.1.63 from EC). The major mutagenic and carcinogenic effect of methylating agents in DNA is the formation of O6-alkylguanine. The alkyl group at the O-6 position is transferred to a cysteine residue in the enzyme []. This is a suicide reaction since the enzyme is irreversibly inactivated and the methylated protein accumulates as a dead-end product. Most, but not all of the methyltransferases are also able to repair O-4-methylthymine. DNA-[protein]-cysteine S-methyltransferases are widely distributed and are found in various prokaryotic and eukaryotic sources [].; GO: 0003824 catalytic activity, 0006281 DNA repair; PDB: 1SFE_A 1T39_B 1T38_A 1EH7_A 1EH6_A 1YFH_C 1EH8_A 1QNT_A 2KIM_A 2KIF_A ....
Probab=55.61 E-value=18 Score=24.89 Aligned_cols=44 Identities=23% Similarity=0.188 Sum_probs=30.2
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCC
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHS 79 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g 79 (231)
+...|++.+.....|.-.|+.+||+.+| .+...+.+-.+|..+-
T Consensus 3 f~~~V~~~v~~IP~G~v~TYg~iA~~~g------~p~~ar~Vg~al~~np 46 (85)
T PF01035_consen 3 FQRRVWEAVRQIPYGKVTTYGEIARLLG------RPKAARAVGSALARNP 46 (85)
T ss_dssp HHHHHHHHHTTS-TT-BEEHHHHHHHTT-------TTCHHHHHHHHHTSS
T ss_pred HHHHHHHHHHcCCCCceEeHHHHHHHHh------hcccHHHHHHHhcccc
Confidence 3445677776665558999999999999 4667777777776644
No 460
>cd02190 epsilon_tubulin The tubulin superfamily includes five distinct families, the alpha-, beta-, gamma-, delta-, and epsilon-tubulins and a sixth family (zeta-tubulin) which is present only in kinetoplastid protozoa. The epsilon-tubulins which are widespread but not ubiquitous among eukaryotes play a role in basal body/centriole morphogenesis.
Probab=55.09 E-value=23 Score=31.59 Aligned_cols=37 Identities=22% Similarity=0.428 Sum_probs=29.1
Q ss_pred HHHHhCCCCCCCceEEEccCChh-----HHHHHHHHHCCCCe
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLG-----NTLKAITSKYPHIK 199 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G-----~~~~~l~~~~P~l~ 199 (231)
..++.+|.+++...+..+|||+| .++..+...||+..
T Consensus 91 ~~~E~cd~l~gf~i~~sl~GGTGSG~gs~l~e~l~~~y~~~~ 132 (379)
T cd02190 91 KAAEKCDSLQSFFILHSLGGGTGSGLGTYVLELLADEFPEVY 132 (379)
T ss_pred HHHhhCcCcceEEEEeecCCCcchhHHHHHHHHHHHhcCccc
Confidence 45577887888999999999997 46666777899764
No 461
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=55.07 E-value=13 Score=21.75 Aligned_cols=22 Identities=23% Similarity=0.282 Sum_probs=18.8
Q ss_pred CCHHHHHHhCCCCCCCCCcchHHHHHH
Q 047000 47 LSASEIAAQLPATKNKDAPMMLDRMLR 73 (231)
Q Consensus 47 ~t~~eLA~~~g~~~~~~~~~~l~rlL~ 73 (231)
+|.+|+|+.+| + ++..+.++++
T Consensus 2 lt~~e~a~~lg-i----s~~ti~~~~~ 23 (49)
T TIGR01764 2 LTVEEAAEYLG-V----SKDTVYRLIH 23 (49)
T ss_pred CCHHHHHHHHC-C----CHHHHHHHHH
Confidence 58899999999 9 8888887764
No 462
>COG3315 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=54.91 E-value=9.5 Score=32.89 Aligned_cols=71 Identities=21% Similarity=0.265 Sum_probs=45.9
Q ss_pred HHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCC-CCeEEEeechHHHhhC----CCC-----CCceEee
Q 047000 153 MYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYP-HIKGINFDLPHVIQHA----PKY-----PGVEHVG 222 (231)
Q Consensus 153 m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P-~l~~~v~Dlp~vi~~a----~~~-----~ri~~~~ 222 (231)
+...+.+.=+.+.+..+ .+...||=+|||-=+-+-.+ .+| +++..=+|+|+|++.= ++. .++++++
T Consensus 74 ~a~Rtr~fD~~~~~~~~--~g~~qvViLgaGLDTRayRl--~~~~~~~vfEvD~Pevi~~K~~~l~e~~~~~~~~~~~Va 149 (297)
T COG3315 74 LAARTRYFDDFVRAALD--AGIRQVVILGAGLDTRAYRL--DWPKGTRVFEVDLPEVIEFKKKLLAERGATPPAHRRLVA 149 (297)
T ss_pred HHHHHHHHHHHHHHHHH--hcccEEEEeccccccceeec--CCCCCCeEEECCCcHHHHHHHHHhhhcCCCCCceEEEEe
Confidence 33333333223334444 34789999999876655544 334 4777888899999752 223 3899999
Q ss_pred cCCCC
Q 047000 223 GDMFQ 227 (231)
Q Consensus 223 gDff~ 227 (231)
.||++
T Consensus 150 ~Dl~~ 154 (297)
T COG3315 150 VDLRE 154 (297)
T ss_pred ccccc
Confidence 99994
No 463
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=54.64 E-value=16 Score=32.13 Aligned_cols=70 Identities=21% Similarity=0.302 Sum_probs=46.7
Q ss_pred HHHHHHHHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCe-EEEeechH-HHhhCCCC--------C
Q 047000 147 EVFNIAMYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIK-GINFDLPH-VIQHAPKY--------P 216 (231)
Q Consensus 147 ~~f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~-~~v~Dlp~-vi~~a~~~--------~ 216 (231)
++|+.+|.+ .++..|- +....++|+|||-|.-++.--++ ++. .|..|+.+ .|++++.. .
T Consensus 100 RnfNNwIKs-------~LI~~y~--~~~~~~~~LgCGKGGDLlKw~kA--gI~~~igiDIAevSI~qa~~RYrdm~~r~~ 168 (389)
T KOG1975|consen 100 RNFNNWIKS-------VLINLYT--KRGDDVLDLGCGKGGDLLKWDKA--GIGEYIGIDIAEVSINQARKRYRDMKNRFK 168 (389)
T ss_pred hhhhHHHHH-------HHHHHHh--ccccccceeccCCcccHhHhhhh--cccceEeeehhhccHHHHHHHHHHHHhhhh
Confidence 455555533 3444443 46778999999999999888766 444 68899976 56666541 1
Q ss_pred ----CceEeecCCCC
Q 047000 217 ----GVEHVGGDMFQ 227 (231)
Q Consensus 217 ----ri~~~~gDff~ 227 (231)
...|+.+|=|.
T Consensus 169 ~~~f~a~f~~~Dc~~ 183 (389)
T KOG1975|consen 169 KFIFTAVFIAADCFK 183 (389)
T ss_pred cccceeEEEEeccch
Confidence 25677777664
No 464
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=54.62 E-value=14 Score=32.06 Aligned_cols=35 Identities=20% Similarity=0.271 Sum_probs=32.7
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
..+|-+|||+++| + +...+.|+|......|+|+-.
T Consensus 28 ~g~tQ~eIA~~lg-i----SR~~VsRlL~~Ar~~GiV~I~ 62 (318)
T PRK15418 28 DGLTQSEIGERLG-L----TRLKVSRLLEKGRQSGIIRVQ 62 (318)
T ss_pred cCCCHHHHHHHhC-C----CHHHHHHHHHHHHHcCcEEEE
Confidence 4799999999999 9 999999999999999999874
No 465
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=54.60 E-value=13 Score=21.61 Aligned_cols=23 Identities=30% Similarity=0.407 Sum_probs=19.4
Q ss_pred CCHHHHHHhCCCCCCCCCcchHHHHHHH
Q 047000 47 LSASEIAAQLPATKNKDAPMMLDRMLRL 74 (231)
Q Consensus 47 ~t~~eLA~~~g~~~~~~~~~~l~rlL~~ 74 (231)
+|..|+|+.+| + ++..+.++.+.
T Consensus 1 ~s~~e~a~~lg-v----s~~tl~~~~~~ 23 (49)
T cd04762 1 LTTKEAAELLG-V----SPSTLRRWVKE 23 (49)
T ss_pred CCHHHHHHHHC-c----CHHHHHHHHHc
Confidence 47899999999 9 98888888764
No 466
>PRK09273 hypothetical protein; Provisional
Probab=54.59 E-value=13 Score=30.43 Aligned_cols=41 Identities=12% Similarity=-0.002 Sum_probs=33.5
Q ss_pred ceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCCC
Q 047000 175 QQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPKY 215 (231)
Q Consensus 175 ~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~~ 215 (231)
....=++||+|.=..-.+.++|++++.++--|.....++++
T Consensus 64 ~d~GIliCGTGiG~siAANK~pGIraalc~d~~sA~lar~h 104 (211)
T PRK09273 64 VDFVVTGCGTGQGAMLALNSFPGVVCGYCIDPTDAYLFAQI 104 (211)
T ss_pred CCEEEEEcCcHHHHHHHHhcCCCeEEEEeCCHHHHHHHHHh
Confidence 34566889999988888999999999777778888777765
No 467
>KOG2918 consensus Carboxymethyl transferase [Posttranslational modification, protein turnover, chaperones]
Probab=54.51 E-value=32 Score=29.98 Aligned_cols=41 Identities=22% Similarity=0.353 Sum_probs=37.0
Q ss_pred CCCCceEEEccCChhHHHHHHHHHC--CCCeEEEeechHHHhh
Q 047000 171 FEHIQQLVDVGGCLGNTLKAITSKY--PHIKGINFDLPHVIQH 211 (231)
Q Consensus 171 ~~~~~~vvDVGGG~G~~~~~l~~~~--P~l~~~v~Dlp~vi~~ 211 (231)
+.+...||-+|||.=...-.++..+ +.++++=+|.|++++.
T Consensus 85 ~~~~~qivnLGcG~D~l~frL~s~~~~~~~~fievDfp~~~~r 127 (335)
T KOG2918|consen 85 TDGKKQIVNLGAGFDTLYFRLLSSGELDRVKFIEVDFPEVVER 127 (335)
T ss_pred cCCceEEEEcCCCccchhhhhhccCCCCcceEEEecCcHHHHH
Confidence 4578899999999999999999998 8899999999998864
No 468
>PRK13917 plasmid segregation protein ParM; Provisional
Probab=54.50 E-value=49 Score=29.03 Aligned_cols=57 Identities=12% Similarity=0.161 Sum_probs=38.3
Q ss_pred HHHHHHhchhhhHHHHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH
Q 047000 149 FNIAMYNYTNLVIQKILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH 207 (231)
Q Consensus 149 f~~~m~~~~~~~~~~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~ 207 (231)
+.+............+...+..+.+..+|+=+|||.-.+-..|.+.||+. .+.|-|.
T Consensus 267 ~~~~~~~~~~~i~~~i~~~~~~~~~~d~IiL~GGGA~ll~~~lk~~f~~~--~~~~~p~ 323 (344)
T PRK13917 267 FYKEQDSVIDEVMSGFEIAVGNINSFDRVIVTGGGANIFFDSLSHWYSDV--EKADESQ 323 (344)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccCCCCEEEEECCcHHHHHHHHHHHcCCe--EEcCChH
Confidence 33444444443444444444435677889999999999998999999975 5666654
No 469
>PF09929 DUF2161: Uncharacterized conserved protein (DUF2161); InterPro: IPR018679 This family of various hypothetical prokaryotic proteins has no known function.
Probab=54.49 E-value=24 Score=26.02 Aligned_cols=52 Identities=13% Similarity=0.160 Sum_probs=38.0
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN 102 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~ 102 (231)
+..+|... ||.+..+|++.++ + + ...+||+. -.-|.|++. + -|.|.+|+.++
T Consensus 64 ~A~~L~~~---Gp~~~~~l~~~~~-~-----~-~A~~IL~~-N~YGWFeRv---~---rGvY~LT~~G~ 115 (118)
T PF09929_consen 64 CAAALAEH---GPSRPADLRKATG-V-----P-KATSILRD-NHYGWFERV---E---RGVYALTPAGR 115 (118)
T ss_pred HHHHHHHc---CCCCHHHHHHhcC-C-----C-hHHHHHHh-Ccccceeee---c---cceEecCcchh
Confidence 34567765 6999999999999 6 3 44455543 345789985 2 79999999875
No 470
>PRK10219 DNA-binding transcriptional regulator SoxS; Provisional
Probab=54.39 E-value=16 Score=25.92 Aligned_cols=49 Identities=16% Similarity=0.111 Sum_probs=36.8
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhccccC
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNYFVP 106 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~L~~ 106 (231)
.+.|+++||+.++ + +++.|.|+.+....+.+-+.. ..+++......|..
T Consensus 20 ~~~~~~~lA~~~~-~----S~~~l~r~f~~~~g~s~~~~i--------~~~Rl~~a~~~L~~ 68 (107)
T PRK10219 20 QPLNIDVVAKKSG-Y----SKWYLQRMFRTVTHQTLGDYI--------RQRRLLLAAVELRT 68 (107)
T ss_pred CCCCHHHHHHHHC-C----CHHHHHHHHHHHHCcCHHHHH--------HHHHHHHHHHHHHc
Confidence 5899999999999 9 999999999988777766652 34455444444544
No 471
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=54.02 E-value=15 Score=22.96 Aligned_cols=35 Identities=26% Similarity=0.308 Sum_probs=26.8
Q ss_pred HhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHH
Q 047000 30 IGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRL 74 (231)
Q Consensus 30 ~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~ 74 (231)
-|..|+..+.. +.+..+||+.++ + ++..+...++.
T Consensus 7 ~E~~vl~~l~~-----G~~~~eIA~~l~-i----s~~tV~~~~~~ 41 (58)
T PF00196_consen 7 RELEVLRLLAQ-----GMSNKEIAEELG-I----SEKTVKSHRRR 41 (58)
T ss_dssp HHHHHHHHHHT-----TS-HHHHHHHHT-S----HHHHHHHHHHH
T ss_pred HHHHHHHHHHh-----cCCcchhHHhcC-c----chhhHHHHHHH
Confidence 46678888886 699999999999 9 88877655443
No 472
>COG4901 Ribosomal protein S25 [Translation, ribosomal structure and biogenesis]
Probab=53.97 E-value=16 Score=26.22 Aligned_cols=49 Identities=14% Similarity=0.123 Sum_probs=39.1
Q ss_pred hhChHHHHHhc-CCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 31 GLGVFEIIAKA-GPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 31 ~lglfd~L~~~-g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+-.+++.+.+. +...-+|+..||.+.| + .-...+.+||.|...|++...
T Consensus 43 dee~~~ki~KEV~~~r~VTpy~la~r~g-I----~~SvAr~vLR~LeeeGvv~lv 92 (107)
T COG4901 43 DEELLDKIRKEVPRERVVTPYVLASRYG-I----NGSVARIVLRHLEEEGVVQLV 92 (107)
T ss_pred cHHHHHHHHHhcccceeecHHHHHHHhc-c----chHHHHHHHHHHHhCCceeee
Confidence 34466666543 1226789999999999 9 999999999999999999975
No 473
>KOG2782 consensus Putative SAM dependent methyltransferases [General function prediction only]
Probab=53.24 E-value=12 Score=30.92 Aligned_cols=48 Identities=19% Similarity=0.201 Sum_probs=38.6
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhh
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQH 211 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~ 211 (231)
.+++.+. --+..+++|.-=|.|.....|++++|+++..++|+.++.-.
T Consensus 34 evl~~ls-pv~g~sf~DmTfGagGHt~~ilqk~se~k~yalDrDP~A~~ 81 (303)
T KOG2782|consen 34 EVLDILS-PVRGRSFVDMTFGAGGHTSSILQKHSELKNYALDRDPVARK 81 (303)
T ss_pred hHHHHcC-CCCCceEEEEeccCCcchHHHHHhCcHhhhhhhccChHHHH
Confidence 3444433 23578999999999999999999999999988999776644
No 474
>PF08222 HTH_CodY: CodY helix-turn-helix domain; InterPro: IPR013198 This family consists of the C-terminal helix-turn-helix domain found in several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; PDB: 2B0L_C.
Probab=53.18 E-value=9.1 Score=24.45 Aligned_cols=35 Identities=29% Similarity=0.360 Sum_probs=28.8
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
+-++++.||.+.| + ....+..-||-|.+.|+++..
T Consensus 3 g~lvas~iAd~~G-i----TRSvIVNALRKleSaGvIesr 37 (61)
T PF08222_consen 3 GRLVASKIADRVG-I----TRSVIVNALRKLESAGVIESR 37 (61)
T ss_dssp EEE-HHHHHHHHT-------HHHHHHHHHHHHHTTSEEEE
T ss_pred ceehHHHHHHHhC-c----cHHHHHHHHHHHHhcCceeec
Confidence 4678999999999 8 888889999999999999964
No 475
>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=53.02 E-value=35 Score=21.51 Aligned_cols=36 Identities=19% Similarity=0.345 Sum_probs=28.2
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHh
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLAS 77 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~ 77 (231)
+.|.|-.. -=+|+..+++.++ + .+....++++-|..
T Consensus 4 Lidll~~~---P~Vsa~mva~~L~-v----T~~~A~~li~eLg~ 39 (54)
T PF11972_consen 4 LIDLLLSR---PLVSAPMVAKELG-V----TPQAAQRLIAELGL 39 (54)
T ss_pred HHHHHHhC---ccccHHHHHHHhC-C----CHHHHHHHHHHhhc
Confidence 56667664 2579999999999 9 99999998766544
No 476
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=52.92 E-value=12 Score=31.34 Aligned_cols=55 Identities=18% Similarity=0.225 Sum_probs=41.7
Q ss_pred CCCceEEEccCChhHHHHHHHHHCCCCeEEEee-chHHHhhCCCC--------CCceEeecCCCC
Q 047000 172 EHIQQLVDVGGCLGNTLKAITSKYPHIKGINFD-LPHVIQHAPKY--------PGVEHVGGDMFQ 227 (231)
Q Consensus 172 ~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~D-lp~vi~~a~~~--------~ri~~~~gDff~ 227 (231)
+...+|+|.-+|-|..+++.+++--. .++-++ -|.|++.|.-+ .+|+.+-||-++
T Consensus 133 ~~G~rVLDtC~GLGYtAi~a~~rGA~-~VitvEkdp~VLeLa~lNPwSr~l~~~~i~iilGD~~e 196 (287)
T COG2521 133 KRGERVLDTCTGLGYTAIEALERGAI-HVITVEKDPNVLELAKLNPWSRELFEIAIKIILGDAYE 196 (287)
T ss_pred ccCCEeeeeccCccHHHHHHHHcCCc-EEEEEeeCCCeEEeeccCCCCccccccccEEecccHHH
Confidence 46789999999999999999999432 444444 57788877653 468888888764
No 477
>PF12728 HTH_17: Helix-turn-helix domain
Probab=52.70 E-value=14 Score=22.27 Aligned_cols=22 Identities=27% Similarity=0.297 Sum_probs=19.1
Q ss_pred CCHHHHHHhCCCCCCCCCcchHHHHHH
Q 047000 47 LSASEIAAQLPATKNKDAPMMLDRMLR 73 (231)
Q Consensus 47 ~t~~eLA~~~g~~~~~~~~~~l~rlL~ 73 (231)
+|.+|+|+.+| + +...+.++++
T Consensus 2 lt~~e~a~~l~-i----s~~tv~~~~~ 23 (51)
T PF12728_consen 2 LTVKEAAELLG-I----SRSTVYRWIR 23 (51)
T ss_pred CCHHHHHHHHC-c----CHHHHHHHHH
Confidence 58999999999 9 8888887774
No 478
>COG0500 SmtA SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]
Probab=52.25 E-value=21 Score=25.32 Aligned_cols=50 Identities=20% Similarity=0.252 Sum_probs=29.5
Q ss_pred EEEccCChhHHHHHHHHHCCC-CeEEEeechH-HHhhCCCC---CC---ceEeecCCCC
Q 047000 177 LVDVGGCLGNTLKAITSKYPH-IKGINFDLPH-VIQHAPKY---PG---VEHVGGDMFQ 227 (231)
Q Consensus 177 vvDVGGG~G~~~~~l~~~~P~-l~~~v~Dlp~-vi~~a~~~---~r---i~~~~gDff~ 227 (231)
++|+|||.|... .+.+..+. ...+.+|... .+...+.. .. +.++.+|...
T Consensus 52 ~ld~~~g~g~~~-~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 109 (257)
T COG0500 52 VLDIGCGTGRLA-LLARLGGRGAYVVGVDLSPEMLALARARAEGAGLGLVDFVVADALG 109 (257)
T ss_pred eEEecCCcCHHH-HHHHhCCCCceEEEEeCCHHHHHHHHhhhhhcCCCceEEEEecccc
Confidence 999999999977 44444443 3666678753 33332211 11 5667666554
No 479
>KOG2793 consensus Putative N2,N2-dimethylguanosine tRNA methyltransferase [RNA processing and modification]
Probab=52.05 E-value=14 Score=30.94 Aligned_cols=43 Identities=16% Similarity=0.194 Sum_probs=32.4
Q ss_pred CC-CCceEEEccCChhHHHHHHHHHCCCCeEEEeechHHHhhCCC
Q 047000 171 FE-HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPHVIQHAPK 214 (231)
Q Consensus 171 ~~-~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~vi~~a~~ 214 (231)
|. ....+|.+|+|+|..++..+ .+....++.-|.|.+++..+.
T Consensus 83 ~~~~~~~vlELGsGtglvG~~aa-~~~~~~v~ltD~~~~~~~L~~ 126 (248)
T KOG2793|consen 83 FKTKYINVLELGSGTGLVGILAA-LLLGAEVVLTDLPKVVENLKF 126 (248)
T ss_pred ccccceeEEEecCCccHHHHHHH-HHhcceeccCCchhhHHHHHH
Confidence 54 46789999999995555444 446888999999988876543
No 480
>KOG2940 consensus Predicted methyltransferase [General function prediction only]
Probab=51.97 E-value=11 Score=31.57 Aligned_cols=40 Identities=20% Similarity=0.234 Sum_probs=29.8
Q ss_pred CCceEEEccCChhHHHHHHHHHCCCCeEEEeechH-HHhhCC
Q 047000 173 HIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH-VIQHAP 213 (231)
Q Consensus 173 ~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~-vi~~a~ 213 (231)
......|||||.|+....+.++. ==+.|..|... .++.++
T Consensus 72 ~fp~a~diGcs~G~v~rhl~~e~-vekli~~DtS~~M~~s~~ 112 (325)
T KOG2940|consen 72 SFPTAFDIGCSLGAVKRHLRGEG-VEKLIMMDTSYDMIKSCR 112 (325)
T ss_pred hCcceeecccchhhhhHHHHhcc-hhheeeeecchHHHHHhh
Confidence 46789999999999999999986 22467778753 444444
No 481
>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=51.85 E-value=42 Score=23.65 Aligned_cols=82 Identities=13% Similarity=0.186 Sum_probs=49.8
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCC---CCCCCcchHHHHHHHHHhCCcccccccCCC-C-cCcccccchhhccccCCC
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPAT---KNKDAPMMLDRMLRLLASHSAVECSIDDAD-D-SQRLYGLNDVSNYFVPNK 108 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~---~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~-~-~~~~y~~t~~s~~L~~~~ 108 (231)
|.-.|.. +|.+--||.+.+.+. .-+.++..+.++|+-|...|+++.....++ + ..-.|++|+.++.+....
T Consensus 9 iL~~L~~----~~~~GYei~~~l~~~~~~~~~i~~gtlY~~L~rLe~~GlI~~~~~~~~~~~~rk~y~iT~~Gr~~l~~~ 84 (100)
T TIGR03433 9 ILKTLSL----GPLHGYGIAQRIQQISEDVLQVEEGSLYPALHRLERRGWIAAEWGESENNRRAKFYRLTAAGRKQLAAE 84 (100)
T ss_pred HHHHHhc----CCCCHHHHHHHHHHHcCCccccCCCcHHHHHHHHHHCCCeEEEeeecCCCCCceEEEECHHHHHHHHHH
Confidence 4455554 588999998886410 012378899999999999999997321110 0 013599999887333221
Q ss_pred CCCchhhHHHHH
Q 047000 109 DGSYRSQLKEAI 120 (231)
Q Consensus 109 ~~~~~~~L~~~l 120 (231)
. ..|..+.+.+
T Consensus 85 ~-~~~~~~~~~i 95 (100)
T TIGR03433 85 T-ESWARLSAAI 95 (100)
T ss_pred H-HHHHHHHHHH
Confidence 0 1255555544
No 482
>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=51.23 E-value=25 Score=26.02 Aligned_cols=48 Identities=17% Similarity=0.050 Sum_probs=40.8
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhcc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSNY 103 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~~ 103 (231)
-|-+.++||..++ - +...++.-|..+...|+++.. + +|.|..+....+
T Consensus 50 ipy~~e~LA~~~~-~----~~~~V~~Al~~f~k~glIe~~--d----~g~i~i~~~~~~ 97 (119)
T TIGR01714 50 APYNAEMLATMFN-R----NVGDIRITLQTLESLGLIEKK--N----NGDIFLENWEKH 97 (119)
T ss_pred CCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEe--c----CCcEEehhHHHH
Confidence 6999999999999 7 889999999999999999984 2 577777765544
No 483
>cd00286 Tubulin_FtsZ Tubulin/FtsZ: Family includes tubulin alpha-, beta-, gamma-, delta-, and epsilon-tubulins as well as FtsZ, all of which are involved in polymer formation. Tubulin is the major component of microtubules, but also exists as a heterodimer and as a curved oligomer. Microtubules exist in all eukaryotic cells and are responsible for many functions, including cellular transport, cell motility, and mitosis. FtsZ forms a ring-shaped septum at the site of bacterial cell division, which is required for constriction of cell membrane and cell envelope to yield two daughter cells. FtsZ can polymerize into tubes, sheets, and rings in vitro and is ubiquitous in eubacteria, archaea, and chloroplasts.
Probab=51.16 E-value=31 Score=29.89 Aligned_cols=36 Identities=19% Similarity=0.324 Sum_probs=28.2
Q ss_pred HHHHhCCCCCCCceEEEccCChhH-----HHHHHHHHCCCC
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGN-----TLKAITSKYPHI 198 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~-----~~~~l~~~~P~l 198 (231)
..++.+|.++....+.++|||+|. ++..+.+.||+.
T Consensus 81 ~~~E~cD~~~gf~i~~slgGGTGsG~~~~i~e~l~d~y~~~ 121 (328)
T cd00286 81 KEAEECDSLQGFFITHSLGGGTGSGLGPVLAERLKDEYPKR 121 (328)
T ss_pred HHHHhCCCccceEEEeecCCCccccHHHHHHHHHHHHcCcc
Confidence 455778867888999999998883 667778889853
No 484
>cd06059 Tubulin The tubulin superfamily includes five distinct families, the alpha-, beta-, gamma-, delta-, and epsilon-tubulins and a sixth family (zeta-tubulin) which is present only in kinetoplastid protozoa. The alpha- and beta-tubulins are the major components of microtubules, while gamma-tubulin plays a major role in the nucleation of microtubule assembly. The delta- and epsilon-tubulins are widespread but unlike the alpha, beta, and gamma-tubulins they are not ubiquitous among eukaryotes. The alpha/beta-tubulin heterodimer is the structural subunit of microtubules. The alpha- and beta-tubulins share 40% amino-acid sequence identity, exist in several isotype forms, and undergo a variety of posttranslational modifications. The structures of alpha- and beta-tubulin are basically identical: each monomer is formed by a core of two beta-sheets surrounded by alpha-helices. The monomer structure is very compact, but can be divided into three regions based on function: the amino-termi
Probab=50.50 E-value=33 Score=30.54 Aligned_cols=38 Identities=26% Similarity=0.486 Sum_probs=27.8
Q ss_pred HHHHHhCCCCCCCceEEEccCChhH-----HHHHHHHHCCCCe
Q 047000 162 QKILEAYKGFEHIQQLVDVGGCLGN-----TLKAITSKYPHIK 199 (231)
Q Consensus 162 ~~~~~~~~~~~~~~~vvDVGGG~G~-----~~~~l~~~~P~l~ 199 (231)
+..++.+|.+++...+.++|||+|. ++..+...||+..
T Consensus 80 r~~~E~cD~l~gf~i~~sl~GGTGSG~gs~l~e~l~d~y~~~~ 122 (382)
T cd06059 80 RKQVEKCDSLQGFQITHSLGGGTGSGLGSLLLELLSDEYPKIL 122 (382)
T ss_pred HHHHHhCCCcCceEEEEecCCCcchhHHHHHHHHHHHhcCccc
Confidence 4556888878889999999998863 3444566688654
No 485
>COG0640 ArsR Predicted transcriptional regulators [Transcription]
Probab=50.22 E-value=39 Score=22.64 Aligned_cols=54 Identities=20% Similarity=0.307 Sum_probs=45.6
Q ss_pred HHHHHHHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 23 PMAMQAVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 23 ~~~L~~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
..+|....++.+...|.+. .+.++.+|+..++ . +...+.+-|..|...|+++..
T Consensus 19 ~~~l~~~~r~~il~~l~~~---~~~~~~~l~~~~~-~----~~~~v~~hL~~L~~~glv~~~ 72 (110)
T COG0640 19 LKALADPTRLEILSLLAEG---GELTVGELAEALG-L----SQSTVSHHLKVLREAGLVELR 72 (110)
T ss_pred HHHhCCHHHHHHHHHHHhc---CCccHHHHHHHHC-C----ChhHHHHHHHHHHHCCCeEEE
Confidence 3455555778888888873 3789999999999 8 999999999999999999985
No 486
>PRK13626 transcriptional regulator SgrR; Provisional
Probab=50.12 E-value=15 Score=34.45 Aligned_cols=36 Identities=11% Similarity=0.153 Sum_probs=33.9
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSI 85 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~ 85 (231)
..+|++|||+.+. + .++.++.+|+.|...|.++-.+
T Consensus 22 ~~~~l~~la~~l~-c----s~R~~~~~l~~~~~~gwl~w~~ 57 (552)
T PRK13626 22 QETTLNELAELLN-C----SRRHMRTLLNTMQQRGWLTWQA 57 (552)
T ss_pred ceeeHHHHHHHhc-C----ChhHHHHHHHHHHHCCCeeeec
Confidence 5789999999999 9 9999999999999999999864
No 487
>PRK14999 histidine utilization repressor; Provisional
Probab=50.08 E-value=23 Score=29.15 Aligned_cols=43 Identities=21% Similarity=0.222 Sum_probs=36.9
Q ss_pred CCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCccccc
Q 047000 45 AKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGL 97 (231)
Q Consensus 45 ~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~ 97 (231)
..+ |-.+||+..| + +..-+++-|..|+..|++.+.+ + .|.|-.
T Consensus 34 ~~LPsE~eLa~~~g-V----SR~TVR~Al~~L~~eGli~r~~--G---kGTfV~ 77 (241)
T PRK14999 34 DRIPSEAELVAQYG-F----SRMTINRALRELTDEGWLVRLQ--G---VGTFVA 77 (241)
T ss_pred CcCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEec--C---cEEEEC
Confidence 556 8999999999 9 9999999999999999999864 3 577753
No 488
>KOG2165 consensus Anaphase-promoting complex (APC), subunit 2 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=50.02 E-value=18 Score=34.78 Aligned_cols=48 Identities=13% Similarity=0.072 Sum_probs=38.9
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
..-|+++||+.+| + +...|+|-|..+...|++.+....++ .|.|+.++
T Consensus 615 ~twt~eelse~l~-i----p~~~lrrrL~fWi~~GvL~e~~~~s~--tgt~T~iE 662 (765)
T KOG2165|consen 615 NTWTLEELSESLG-I----PVPALRRRLSFWIQKGVLREEPIISD--TGTLTVIE 662 (765)
T ss_pred ccccHHHHHHHhC-C----CHHHHHHHHHHHHHcCeeecCCCCCC--Cceeeecc
Confidence 4699999999999 9 99999999999999999998521110 36676666
No 489
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=49.76 E-value=35 Score=23.31 Aligned_cols=48 Identities=15% Similarity=0.143 Sum_probs=39.0
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccchhhc
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLNDVSN 102 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~~s~ 102 (231)
.+.|-++||+++| + ....+..-++.|...|+=.+.. . +..|.+.....
T Consensus 18 ~~~SGe~La~~Lg-i----SRtaVwK~Iq~Lr~~G~~I~s~--~---~kGY~L~~~~~ 65 (79)
T COG1654 18 NFVSGEKLAEELG-I----SRTAVWKHIQQLREEGVDIESV--R---GKGYLLPQLPD 65 (79)
T ss_pred CcccHHHHHHHHC-c----cHHHHHHHHHHHHHhCCceEec--C---CCceeccCccc
Confidence 6999999999999 9 9999999999999999977642 1 34677765444
No 490
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=49.54 E-value=20 Score=22.16 Aligned_cols=37 Identities=22% Similarity=0.352 Sum_probs=25.7
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHH
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDR 70 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~r 70 (231)
...=+.+++.|...|. .-+|..+||+.+| + ++..+++
T Consensus 11 L~~Y~r~L~~l~~~G~-~~vSS~~La~~~g-i----~~~qVRK 47 (50)
T PF06971_consen 11 LPLYLRYLEQLKEEGV-ERVSSQELAEALG-I----TPAQVRK 47 (50)
T ss_dssp HHHHHHHHHHHHHTT--SEE-HHHHHHHHT-S-----HHHHHH
T ss_pred HHHHHHHHHHHHHcCC-eeECHHHHHHHHC-C----CHHHhcc
Confidence 3344567778877653 5799999999999 9 8877765
No 491
>TIGR03739 PRTRC_D PRTRC system protein D. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated PRTRC system protein D. The gray zone, between trusted and noise, includes proteins found in the same genomes as other proteins of the PRTRC systems, but not in the same contiguous gene region.
Probab=49.53 E-value=76 Score=27.37 Aligned_cols=45 Identities=27% Similarity=0.310 Sum_probs=33.2
Q ss_pred HHHHhCCCCCCCceEEEccCChhHHHHHHHHHCCCCeEEEeechH
Q 047000 163 KILEAYKGFEHIQQLVDVGGCLGNTLKAITSKYPHIKGINFDLPH 207 (231)
Q Consensus 163 ~~~~~~~~~~~~~~vvDVGGG~G~~~~~l~~~~P~l~~~v~Dlp~ 207 (231)
.+...+....+..+|+=+|||.-.+...+.+.||+.+.++.|-|.
T Consensus 263 ~i~~~~~~~~~~~~Iil~GGGa~ll~~~l~~~f~~~~i~~~~dp~ 307 (320)
T TIGR03739 263 TMMTWIGAPESIQNIVLVGGGAFLFKKAVKAAFPKHRIVEVDEPM 307 (320)
T ss_pred HHHHhcccCCcccEEEEeCCcHHHHHHHHHHHCCCCeeEecCCcH
Confidence 344433223357789999999999999999999998876666654
No 492
>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=49.19 E-value=37 Score=22.75 Aligned_cols=43 Identities=14% Similarity=0.128 Sum_probs=33.0
Q ss_pred hHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHH--HhCCccccc
Q 047000 34 VFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLL--ASHSAVECS 84 (231)
Q Consensus 34 lfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L--~~~g~l~~~ 84 (231)
|.+.|... ++.|+++|++++| + .+..++-.|--+ -..|+-...
T Consensus 15 li~mL~rp---~GATi~ei~~atG-W----q~HTvRgalsg~~kKklGl~i~s 59 (72)
T PF11994_consen 15 LIAMLRRP---EGATIAEICEATG-W----QPHTVRGALSGLLKKKLGLTITS 59 (72)
T ss_pred HHHHHcCC---CCCCHHHHHHhhC-C----chhhHHHHHHHHHHHhcCcEEEe
Confidence 55666654 5899999999999 9 999888777777 566666543
No 493
>PRK09764 DNA-binding transcriptional repressor MngR; Provisional
Probab=49.01 E-value=26 Score=28.84 Aligned_cols=43 Identities=16% Similarity=0.237 Sum_probs=36.6
Q ss_pred CCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCccccc
Q 047000 45 AKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGL 97 (231)
Q Consensus 45 ~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~ 97 (231)
..+ |-.+||+..| + +..-+++-|..|+..|++.+.+ + .|+|-.
T Consensus 27 ~~LPsE~eL~~~~~-V----SR~TvR~Al~~L~~eGli~r~~--G---~GtfV~ 70 (240)
T PRK09764 27 DALPTESALQTEFG-V----SRVTVRQALRQLVEQQILESIQ--G---SGTYVK 70 (240)
T ss_pred CcCCCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEec--C---ceeEEc
Confidence 566 7799999999 9 9999999999999999999864 3 566653
No 494
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=49.01 E-value=38 Score=25.25 Aligned_cols=62 Identities=16% Similarity=0.200 Sum_probs=45.6
Q ss_pred HHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCcccccch
Q 047000 29 VIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGLND 99 (231)
Q Consensus 29 a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~t~ 99 (231)
+.|.-|.++|=.. +|.|+.||-+.+. ......+.-+.-+|+-|+.-|++.... + ++.|.-+|
T Consensus 6 ~aE~eVM~ilW~~---~~~t~~eI~~~l~-~~~ews~sTV~TLl~RL~KKg~l~~~k--d---gr~~~y~p 67 (123)
T COG3682 6 AAEWEVMEILWSR---GPATVREIIEELP-ADREWSYSTVKTLLNRLVKKGLLTRKK--D---GRAFRYSP 67 (123)
T ss_pred HHHHHHHHHHHHc---CCccHHHHHHHHh-hcccccHHHHHHHHHHHHhccchhhhh--c---CCeeeeec
Confidence 4566777888665 5999999988877 411115667889999999999999863 2 56776655
No 495
>PF03610 EIIA-man: PTS system fructose IIA component; InterPro: IPR004701 The phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS) [, ] is a major carbohydrate transport system in bacteria. The PTS catalyses the phosphorylation of incoming sugar substrates and coupled with translocation across the cell membrane, makes the PTS a link between the uptake and metabolism of sugars. The general mechanism of the PTS is the following: a phosphoryl group from phosphoenolpyruvate (PEP) is transferred via a signal transduction pathway, to enzyme I (EI) which in turn transfers it to a phosphoryl carrier, the histidine protein (HPr). Phospho-HPr then transfers the phosphoryl group to a sugar-specific permease, a membrane-bound complex known as enzyme 2 (EII), which transports the sugar to the cell. EII consists of at least three structurally distinct domains IIA, IIB and IIC []. These can either be fused together in a single polypeptide chain or exist as two or three interactive chains, formerly called enzymes II (EII) and III (EIII). The first domain (IIA or EIIA) carries the first permease-specific phosphorylation site, a histidine which is phosphorylated by phospho-HPr. The second domain (IIB or EIIB) is phosphorylated by phospho-IIA on a cysteinyl or histidyl residue, depending on the sugar transported. Finally, the phosphoryl group is transferred from the IIB domain to the sugar substrate concomitantly with the sugar uptake processed by the IIC domain. This third domain (IIC or EIIC) forms the translocation channel and the specific substrate-binding site. An additional transmembrane domain IID, homologous to IIC, can be found in some PTSs, e.g. for mannose [, , , ]. The Man family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for IIA and IIB components.; GO: 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0016021 integral to membrane; PDB: 3GDW_B 2JZN_A 1VSQ_A 2JZO_B 1VRC_A 1PDO_A 3GX1_A 3B48_B 3BED_B 3IPR_C ....
Probab=49.01 E-value=27 Score=25.21 Aligned_cols=47 Identities=19% Similarity=0.261 Sum_probs=32.0
Q ss_pred HhCCCCCCCceEEEccCChhHH-HHHHHHHCCCCe-EEEeechHHHhhC
Q 047000 166 EAYKGFEHIQQLVDVGGCLGNT-LKAITSKYPHIK-GINFDLPHVIQHA 212 (231)
Q Consensus 166 ~~~~~~~~~~~vvDVGGG~G~~-~~~l~~~~P~l~-~~v~Dlp~vi~~a 212 (231)
+.++.-++.-.++|++||+-.. +......+|+++ +.++++|-+++.+
T Consensus 52 ~~~~~~~~vlil~Dl~ggsp~n~a~~~~~~~~~~~vi~G~Nlpmlle~~ 100 (116)
T PF03610_consen 52 EELDEGDGVLILTDLGGGSPFNEAARLLLDKPNIRVISGVNLPMLLEAL 100 (116)
T ss_dssp HHCCTTSEEEEEESSTTSHHHHHHHHHHCTSTTEEEEES--HHHHHHHH
T ss_pred HhccCCCcEEEEeeCCCCccchHHHHHhccCCCEEEEecccHHHHHHHH
Confidence 4444234678999999999764 445566777875 5899999887654
No 496
>PRK09392 ftrB transcriptional activator FtrB; Provisional
Probab=48.91 E-value=21 Score=28.96 Aligned_cols=30 Identities=30% Similarity=0.349 Sum_probs=27.8
Q ss_pred CCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCc
Q 047000 46 KLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSA 80 (231)
Q Consensus 46 ~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~ 80 (231)
|.|-++||..+| + .++.+.|+|..|...|+
T Consensus 173 ~~t~~~iA~~lG-~----tretvsR~l~~L~~~gl 202 (236)
T PRK09392 173 PYEKRVLASYLG-M----TPENLSRAFAALASHGV 202 (236)
T ss_pred eCCHHHHHHHhC-C----ChhHHHHHHHHHHhCCe
Confidence 566789999999 9 99999999999999996
No 497
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=48.36 E-value=41 Score=27.80 Aligned_cols=49 Identities=27% Similarity=0.314 Sum_probs=41.8
Q ss_pred HHHhhChHHHHHhcCCCCCCCHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCccccc
Q 047000 28 AVIGLGVFEIIAKAGPGAKLSASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECS 84 (231)
Q Consensus 28 ~a~~lglfd~L~~~g~~~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~ 84 (231)
.-.+.+++..+..+ .+.++.|+++.++ + +...++-.+|.|.+.++++-.
T Consensus 100 ns~R~~Iy~~i~~n---PG~~lsEl~~nl~-i----~R~TlRyhlriLe~~~li~a~ 148 (240)
T COG3398 100 NSKRDGIYNYIKPN---PGFSLSELRANLY-I----NRSTLRYHLRILESNPLIEAG 148 (240)
T ss_pred hhhHHHHHHHhccC---CCccHHHHHHhcC-C----ChHHHHHHHHHHHhCcchhhh
Confidence 34566788888876 5899999999999 8 888999999999999999863
No 498
>PF13551 HTH_29: Winged helix-turn helix
Probab=48.29 E-value=25 Score=24.70 Aligned_cols=30 Identities=20% Similarity=0.203 Sum_probs=27.2
Q ss_pred CC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCc
Q 047000 46 KL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSA 80 (231)
Q Consensus 46 ~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~ 80 (231)
.. |..++|+.+| + ++..+.++++.....|+
T Consensus 11 g~~~~~~ia~~lg-~----s~~Tv~r~~~~~~~~G~ 41 (112)
T PF13551_consen 11 GVSTIAEIARRLG-I----SRRTVYRWLKRYREGGI 41 (112)
T ss_pred CCCcHHHHHHHHC-c----CHHHHHHHHHHHHcccH
Confidence 35 6999999999 9 99999999999998883
No 499
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=48.09 E-value=20 Score=21.77 Aligned_cols=25 Identities=24% Similarity=0.248 Sum_probs=19.3
Q ss_pred CCCCHHHHHHhCCCCCCCCCcchHHHHHHH
Q 047000 45 AKLSASEIAAQLPATKNKDAPMMLDRMLRL 74 (231)
Q Consensus 45 ~~~t~~eLA~~~g~~~~~~~~~~l~rlL~~ 74 (231)
..+|..|||+.+| + ++..+.+++..
T Consensus 8 ~gls~~~la~~~g-i----s~~~i~~~~~g 32 (55)
T PF01381_consen 8 KGLSQKELAEKLG-I----SRSTISRIENG 32 (55)
T ss_dssp TTS-HHHHHHHHT-S-----HHHHHHHHTT
T ss_pred cCCCHHHHHHHhC-C----CcchhHHHhcC
Confidence 4799999999999 9 88888877654
No 500
>TIGR02018 his_ut_repres histidine utilization repressor, proteobacterial. This model represents a proteobacterial histidine utilization repressor. It is usually found clustered with the enzymes HutUHIG so that it can regulate its own expression as well. A number of species have several paralogs and may fine-tune the regulation according to levels of degradation intermediates such as urocanate. This family belongs to the larger GntR family of transcriptional regulators.
Probab=48.01 E-value=26 Score=28.57 Aligned_cols=43 Identities=23% Similarity=0.280 Sum_probs=36.7
Q ss_pred CCC-CHHHHHHhCCCCCCCCCcchHHHHHHHHHhCCcccccccCCCCcCccccc
Q 047000 45 AKL-SASEIAAQLPATKNKDAPMMLDRMLRLLASHSAVECSIDDADDSQRLYGL 97 (231)
Q Consensus 45 ~~~-t~~eLA~~~g~~~~~~~~~~l~rlL~~L~~~g~l~~~~~~~~~~~~~y~~ 97 (231)
..+ |-.+||+..| + +..-+++-|..|+..|++.+.+ + .|.|-.
T Consensus 23 ~~LPsE~eLa~~~~-V----SR~TVR~Al~~L~~eGli~r~~--G---~GtfV~ 66 (230)
T TIGR02018 23 HRIPSEHELVAQYG-C----SRMTVNRALRELTDAGLLERRQ--G---VGTFVA 66 (230)
T ss_pred CcCcCHHHHHHHHC-C----CHHHHHHHHHHHHHCCCEEEec--C---CEEEEc
Confidence 556 7889999999 9 9999999999999999999974 3 577754
Done!