Query 002563
Match_columns 907
No_of_seqs 35 out of 37
Neff 2.1
Searched_HMMs 46136
Date Fri Mar 29 02:31:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002563.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002563hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00274 ksgA 16S ribosomal RN 97.8 2.1E-05 4.6E-10 79.4 4.0 152 207-367 18-188 (272)
2 PHA03412 putative methyltransf 97.6 0.00015 3.2E-09 75.0 7.2 173 208-394 29-230 (241)
3 PF02384 N6_Mtase: N-6 DNA Met 97.6 0.0001 2.2E-09 74.2 5.8 124 208-334 24-187 (311)
4 TIGR02987 met_A_Alw26 type II 97.4 0.00067 1.4E-08 74.2 9.4 49 208-256 2-55 (524)
5 TIGR00755 ksgA dimethyladenosi 97.2 0.00086 1.9E-08 66.8 7.5 148 208-367 6-176 (253)
6 PRK14896 ksgA 16S ribosomal RN 97.2 0.00027 5.9E-09 70.9 3.7 149 208-367 6-172 (258)
7 PTZ00338 dimethyladenosine tra 97.0 0.00092 2E-08 69.7 5.8 154 202-367 6-184 (294)
8 PF01170 UPF0020: Putative RNA 96.8 0.0028 6.2E-08 61.1 6.7 99 231-332 27-152 (179)
9 PF13659 Methyltransf_26: Meth 96.2 0.003 6.5E-08 54.0 2.1 87 233-320 1-103 (117)
10 PRK10909 rsmD 16S rRNA m(2)G96 95.6 0.047 1E-06 54.4 8.1 120 231-359 52-184 (199)
11 PF00398 RrnaAD: Ribosomal RNA 95.6 0.017 3.7E-07 58.4 5.0 155 207-367 6-181 (262)
12 TIGR00479 rumA 23S rRNA (uraci 95.2 0.034 7.3E-07 59.6 6.0 129 215-347 273-416 (431)
13 TIGR01177 conserved hypothetic 94.5 0.19 4.1E-06 52.5 9.2 104 219-334 171-298 (329)
14 smart00650 rADc Ribosomal RNA 94.4 0.039 8.5E-07 51.7 3.5 111 219-340 2-122 (169)
15 TIGR02085 meth_trns_rumB 23S r 94.2 0.048 1E-06 58.2 4.1 115 214-334 213-338 (374)
16 PF05175 MTS: Methyltransferas 93.8 0.058 1.3E-06 51.0 3.5 84 232-320 31-128 (170)
17 PRK03522 rumB 23S rRNA methylu 93.6 0.075 1.6E-06 55.1 4.2 109 215-329 154-272 (315)
18 PRK13168 rumA 23S rRNA m(5)U19 93.4 0.11 2.5E-06 56.3 5.3 124 219-347 282-420 (443)
19 TIGR03534 RF_mod_PrmC protein- 92.7 0.22 4.8E-06 48.1 5.7 69 231-308 86-168 (251)
20 COG2263 Predicted RNA methylas 92.7 0.38 8.2E-06 49.6 7.6 125 186-334 4-148 (198)
21 TIGR03533 L3_gln_methyl protei 92.5 0.22 4.7E-06 51.6 5.6 72 231-307 120-202 (284)
22 PRK11805 N5-glutamine S-adenos 91.7 0.29 6.4E-06 51.4 5.6 69 234-307 135-214 (307)
23 COG2226 UbiE Methylase involve 91.4 0.25 5.3E-06 51.3 4.6 58 181-253 15-72 (238)
24 PRK11188 rrmJ 23S rRNA methylt 91.4 1.4 2.9E-05 43.8 9.5 65 216-284 36-102 (209)
25 PHA03411 putative methyltransf 91.4 0.12 2.7E-06 54.9 2.4 40 209-252 45-84 (279)
26 PRK14967 putative methyltransf 91.3 0.79 1.7E-05 45.1 7.7 34 217-252 23-56 (223)
27 COG2265 TrmA SAM-dependent met 90.9 0.39 8.5E-06 53.3 5.8 116 203-330 260-395 (432)
28 PF07669 Eco57I: Eco57I restri 89.8 0.28 6.1E-06 44.2 3.0 39 296-335 5-56 (106)
29 PRK05785 hypothetical protein; 88.7 0.59 1.3E-05 46.8 4.5 58 183-253 15-72 (226)
30 PF02475 Met_10: Met-10+ like- 88.5 0.16 3.5E-06 51.1 0.5 86 225-323 94-193 (200)
31 PRK09328 N5-glutamine S-adenos 88.3 0.68 1.5E-05 45.7 4.7 74 230-309 106-190 (275)
32 TIGR00095 RNA methyltransferas 87.8 2 4.2E-05 42.3 7.4 110 216-329 33-157 (189)
33 TIGR02143 trmA_only tRNA (urac 87.6 0.57 1.2E-05 50.1 3.9 116 219-339 183-320 (353)
34 TIGR03704 PrmC_rel_meth putati 87.4 0.35 7.5E-06 49.2 2.1 68 233-305 87-164 (251)
35 PRK05031 tRNA (uracil-5-)-meth 86.9 0.95 2.1E-05 48.5 5.1 115 215-334 188-324 (362)
36 COG0030 KsgA Dimethyladenosine 85.1 1.5 3.2E-05 46.5 5.3 117 207-340 6-140 (259)
37 TIGR03587 Pse_Me-ase pseudamin 84.0 1.2 2.7E-05 44.1 4.0 51 203-253 14-64 (204)
38 TIGR00536 hemK_fam HemK family 83.3 0.95 2.1E-05 46.4 3.0 68 234-306 116-194 (284)
39 PF13679 Methyltransf_32: Meth 81.5 9.6 0.00021 35.5 8.6 109 215-331 5-132 (141)
40 PF13489 Methyltransf_23: Meth 81.2 2 4.3E-05 38.2 3.8 36 217-252 7-42 (161)
41 COG0286 HsdM Type I restrictio 80.2 2.1 4.5E-05 48.1 4.5 49 208-258 164-212 (489)
42 COG2520 Predicted methyltransf 79.2 0.85 1.8E-05 49.9 1.1 89 225-321 181-278 (341)
43 PF01209 Ubie_methyltran: ubiE 78.2 1.2 2.6E-05 45.3 1.7 56 182-252 12-67 (233)
44 PRK00312 pcm protein-L-isoaspa 78.0 7.6 0.00017 37.7 7.0 44 208-253 56-99 (212)
45 PLN02672 methionine S-methyltr 78.0 5.4 0.00012 49.5 7.3 149 153-308 22-217 (1082)
46 KOG2904 Predicted methyltransf 77.4 8.7 0.00019 42.4 7.8 264 90-402 23-315 (328)
47 TIGR02021 BchM-ChlM magnesium 76.0 2.4 5.1E-05 41.2 3.0 35 219-253 38-76 (219)
48 PRK14968 putative methyltransf 75.3 8.5 0.00018 35.5 6.3 23 231-253 22-44 (188)
49 TIGR02752 MenG_heptapren 2-hep 74.9 3.3 7.2E-05 40.1 3.6 44 205-253 23-66 (231)
50 PRK14966 unknown domain/N5-glu 74.7 2.4 5.2E-05 47.7 3.0 83 220-307 239-332 (423)
51 TIGR02081 metW methionine bios 73.4 4.2 9.1E-05 39.1 3.9 30 219-252 4-33 (194)
52 PRK15001 SAM-dependent 23S rib 73.2 5.3 0.00011 44.1 5.1 122 204-330 199-339 (378)
53 TIGR00080 pimt protein-L-isoas 73.0 5.2 0.00011 39.2 4.5 45 209-255 56-100 (215)
54 PRK13942 protein-L-isoaspartat 72.8 4.5 9.7E-05 40.1 4.1 45 208-254 54-98 (212)
55 TIGR02469 CbiT precorrin-6Y C5 71.5 6.3 0.00014 33.6 4.2 36 215-252 4-39 (124)
56 PRK13944 protein-L-isoaspartat 71.1 5.2 0.00011 39.2 4.1 45 209-255 51-95 (205)
57 PRK09489 rsmC 16S ribosomal RN 71.1 14 0.00029 40.1 7.5 21 233-253 197-217 (342)
58 COG0293 FtsJ 23S rRNA methylas 69.7 5.5 0.00012 41.3 4.0 44 215-259 29-72 (205)
59 PF05958 tRNA_U5-meth_tr: tRNA 69.6 5.8 0.00012 42.6 4.3 114 216-334 179-314 (352)
60 PLN02585 magnesium protoporphy 68.5 4 8.6E-05 43.7 2.8 22 232-253 144-165 (315)
61 PRK01544 bifunctional N5-gluta 68.5 3.3 7.1E-05 46.7 2.3 72 232-307 138-219 (506)
62 TIGR00406 prmA ribosomal prote 68.0 6.6 0.00014 40.7 4.2 60 188-251 94-178 (288)
63 KOG3420 Predicted RNA methylas 66.5 1.5 3.2E-05 44.7 -0.7 99 214-322 28-143 (185)
64 PRK11783 rlmL 23S rRNA m(2)G24 65.8 13 0.00029 43.5 6.5 67 180-247 135-205 (702)
65 PF01555 N6_N4_Mtase: DNA meth 64.9 4.3 9.3E-05 37.9 2.0 51 194-247 150-206 (231)
66 PTZ00098 phosphoethanolamine N 64.6 8.4 0.00018 39.5 4.2 51 200-252 10-72 (263)
67 PF01728 FtsJ: FtsJ-like methy 64.6 5.1 0.00011 37.9 2.4 38 217-254 7-45 (181)
68 COG3802 GguC Uncharacterized p 63.8 3.6 7.7E-05 44.8 1.4 66 303-369 186-285 (333)
69 PRK00050 16S rRNA m(4)C1402 me 63.7 8.6 0.00019 41.3 4.2 45 218-267 7-51 (296)
70 COG2230 Cfa Cyclopropane fatty 63.0 8 0.00017 41.7 3.8 35 217-253 59-93 (283)
71 PF04405 ScdA_N: Domain of Unk 62.6 4.9 0.00011 34.0 1.7 19 237-258 24-42 (56)
72 TIGR00438 rrmJ cell division p 61.9 10 0.00023 36.2 4.0 36 218-254 19-54 (188)
73 cd00315 Cyt_C5_DNA_methylase C 61.7 24 0.00052 36.6 6.8 89 235-335 2-116 (275)
74 PRK08287 cobalt-precorrin-6Y C 59.6 16 0.00034 34.9 4.8 42 210-253 11-52 (187)
75 PRK07402 precorrin-6B methylas 59.0 16 0.00034 35.3 4.7 41 210-252 20-60 (196)
76 TIGR00446 nop2p NOL1/NOP2/sun 56.4 8.4 0.00018 39.5 2.5 41 213-254 53-93 (264)
77 PRK00121 trmB tRNA (guanine-N( 56.0 6.4 0.00014 38.7 1.6 29 226-254 34-62 (202)
78 TIGR00675 dcm DNA-methyltransf 54.4 15 0.00032 38.9 4.0 91 236-332 1-110 (315)
79 cd02440 AdoMet_MTases S-adenos 54.2 15 0.00032 28.5 3.1 89 235-330 1-103 (107)
80 COG2890 HemK Methylase of poly 53.3 12 0.00027 39.3 3.2 65 235-305 113-187 (280)
81 PTZ00146 fibrillarin; Provisio 53.2 10 0.00023 40.9 2.7 39 218-256 116-156 (293)
82 PRK06202 hypothetical protein; 52.1 15 0.00032 36.2 3.4 38 231-268 59-96 (232)
83 PF02353 CMAS: Mycolic acid cy 52.0 16 0.00036 38.3 3.9 34 218-253 50-83 (273)
84 PRK14902 16S rRNA methyltransf 51.7 21 0.00046 39.2 4.8 25 230-254 248-272 (444)
85 PRK00377 cbiT cobalt-precorrin 51.1 24 0.00053 34.2 4.6 39 213-253 23-61 (198)
86 PRK10458 DNA cytosine methylas 50.0 77 0.0017 36.3 8.9 120 235-363 90-276 (467)
87 TIGR00762 DegV EDD domain prot 48.9 70 0.0015 33.2 7.7 92 156-256 124-246 (275)
88 PRK04266 fibrillarin; Provisio 47.5 25 0.00054 36.0 4.2 38 217-254 56-94 (226)
89 PRK00216 ubiE ubiquinone/menaq 46.2 31 0.00066 33.0 4.4 36 217-254 38-73 (239)
90 PF00145 DNA_methylase: C-5 cy 45.4 6.7 0.00015 38.9 -0.1 81 235-328 2-108 (335)
91 PRK08317 hypothetical protein; 45.2 19 0.00042 33.9 2.9 25 230-254 17-41 (241)
92 PRK14904 16S rRNA methyltransf 44.1 18 0.00039 39.9 2.8 25 230-254 248-272 (445)
93 PLN02233 ubiquinone biosynthes 43.9 27 0.00057 35.9 3.8 24 230-253 71-94 (261)
94 TIGR01712 phage_N6A_met phage 43.6 20 0.00043 36.4 2.8 35 297-335 64-101 (166)
95 PF14881 Tubulin_3: Tubulin do 43.5 20 0.00043 36.0 2.8 45 211-255 48-99 (180)
96 PF05869 Dam: DNA N-6-adenine- 43.3 25 0.00054 35.6 3.4 131 213-388 15-152 (181)
97 TIGR01934 MenG_MenH_UbiE ubiqu 43.1 34 0.00074 32.3 4.2 33 220-254 29-61 (223)
98 cd01425 RPS2 Ribosomal protein 43.0 1E+02 0.0023 30.8 7.7 68 197-270 19-90 (193)
99 PRK14901 16S rRNA methyltransf 43.0 18 0.00039 39.8 2.6 25 230-254 250-274 (434)
100 PLN02336 phosphoethanolamine N 42.9 30 0.00066 37.8 4.3 35 217-253 253-287 (475)
101 PRK11524 putative methyltransf 41.7 22 0.00049 36.8 3.0 35 210-246 187-222 (284)
102 KOG2187 tRNA uracil-5-methyltr 41.6 41 0.00088 39.6 5.2 119 201-330 348-489 (534)
103 COG2264 PrmA Ribosomal protein 41.4 36 0.00078 37.2 4.5 61 188-252 97-182 (300)
104 PF03602 Cons_hypoth95: Conser 41.1 18 0.00039 35.9 2.1 31 217-247 26-57 (183)
105 PF12847 Methyltransf_18: Meth 39.7 28 0.00061 29.6 2.8 21 232-252 1-21 (112)
106 PRK00107 gidB 16S rRNA methylt 39.7 48 0.001 33.1 4.8 25 228-252 41-65 (187)
107 PF06325 PrmA: Ribosomal prote 37.2 27 0.00059 37.5 2.8 60 189-252 97-181 (295)
108 TIGR00497 hsdM type I restrict 37.1 22 0.00047 39.9 2.2 47 202-248 187-233 (501)
109 PRK04338 N(2),N(2)-dimethylgua 37.0 15 0.00033 40.4 0.9 99 233-339 58-166 (382)
110 PF10237 N6-adenineMlase: Prob 36.9 1.3E+02 0.0027 30.2 7.1 112 215-335 8-128 (162)
111 PLN02271 serine hydroxymethylt 36.3 21 0.00046 42.1 2.0 17 288-305 233-249 (586)
112 PRK10992 iron-sulfur cluster r 36.2 13 0.00029 38.1 0.4 21 237-260 27-47 (220)
113 TIGR02072 BioC biotin biosynth 35.9 49 0.0011 31.4 4.0 36 218-253 19-55 (240)
114 PF13847 Methyltransf_31: Meth 35.7 1.1E+02 0.0025 28.1 6.2 68 231-304 2-83 (152)
115 PRK11705 cyclopropane fatty ac 35.6 48 0.001 36.4 4.4 34 218-253 155-188 (383)
116 PF09445 Methyltransf_15: RNA 34.6 12 0.00026 37.3 -0.2 100 234-335 1-124 (163)
117 TIGR00563 rsmB ribosomal RNA s 34.1 44 0.00096 36.7 3.9 34 219-254 227-260 (426)
118 PRK07580 Mg-protoporphyrin IX 32.3 3.3E+02 0.0072 26.3 9.0 22 231-252 62-83 (230)
119 PF13412 HTH_24: Winged helix- 31.9 1.2E+02 0.0026 23.5 4.9 27 102-129 3-29 (48)
120 PRK01683 trans-aconitate 2-met 31.7 52 0.0011 32.7 3.6 32 220-253 21-52 (258)
121 COG4123 Predicted O-methyltran 31.6 40 0.00086 36.0 2.9 22 232-253 44-65 (248)
122 COG2813 RsmC 16S RNA G1207 met 31.5 53 0.0012 36.1 3.9 195 95-329 44-266 (300)
123 TIGR00537 hemK_rel_arch HemK-r 31.4 16 0.00035 34.6 0.1 23 231-253 18-40 (179)
124 PRK00517 prmA ribosomal protei 31.4 61 0.0013 32.9 4.1 37 211-251 102-138 (250)
125 COG0270 Dcm Site-specific DNA 30.7 75 0.0016 33.9 4.8 95 235-335 5-122 (328)
126 cd06253 M14_ASTE_ASPA_like_3 A 30.5 49 0.0011 35.1 3.4 46 201-246 73-126 (298)
127 cd04813 PA_1 PA_1: Protease-as 29.3 23 0.00051 33.2 0.7 16 201-216 2-17 (117)
128 COG1041 Predicted DNA modifica 29.1 1.1E+02 0.0024 34.3 5.9 91 230-331 195-311 (347)
129 PRK14903 16S rRNA methyltransf 29.0 40 0.00087 37.4 2.6 24 230-253 235-258 (431)
130 PF13651 EcoRI_methylase: Aden 28.9 51 0.0011 36.9 3.3 62 297-366 138-204 (336)
131 PF03291 Pox_MCEL: mRNA cappin 28.7 25 0.00053 38.2 0.9 15 232-246 62-77 (331)
132 PRK10901 16S rRNA methyltransf 28.5 44 0.00096 36.7 2.7 31 222-254 236-266 (427)
133 PRK11036 putative S-adenosyl-L 28.4 65 0.0014 32.5 3.7 33 217-252 32-64 (255)
134 PRK13699 putative methylase; P 28.0 42 0.00092 34.3 2.4 26 221-246 151-177 (227)
135 PF08003 Methyltransf_9: Prote 27.8 1.4E+02 0.003 33.3 6.3 71 232-348 115-187 (315)
136 PF05413 Peptidase_C34: Putati 27.7 24 0.00052 33.1 0.5 13 167-179 42-54 (92)
137 COG4798 Predicted methyltransf 27.5 33 0.00073 36.6 1.5 48 227-274 43-90 (238)
138 PF07091 FmrO: Ribosomal RNA m 27.1 53 0.0011 35.4 2.9 104 218-331 91-209 (251)
139 COG2846 Regulator of cell morp 27.0 22 0.00047 37.7 0.1 9 237-245 27-35 (221)
140 TIGR03821 AblA_like_1 lysine-2 26.9 90 0.0019 33.6 4.6 73 155-230 220-300 (321)
141 cd06209 BenDO_FAD_NAD Benzoate 26.9 1.4E+02 0.003 29.2 5.5 72 178-259 146-217 (228)
142 cd03360 LbH_AT_putative Putati 26.6 3.5E+02 0.0076 24.6 7.7 83 242-332 3-90 (197)
143 PF01135 PCMT: Protein-L-isoas 26.4 1E+02 0.0022 31.5 4.6 49 208-258 50-98 (209)
144 PLN02244 tocopherol O-methyltr 26.0 97 0.0021 33.2 4.6 24 231-254 117-140 (340)
145 PF08784 RPA_C: Replication pr 25.5 1.3E+02 0.0027 26.9 4.6 46 101-169 46-94 (102)
146 TIGR00091 tRNA (guanine-N(7)-) 24.4 25 0.00055 34.2 0.0 23 231-253 15-37 (194)
147 CHL00067 rps2 ribosomal protei 24.0 1.1E+02 0.0023 32.0 4.4 68 197-270 31-102 (230)
148 smart00550 Zalpha Z-DNA-bindin 24.0 60 0.0013 27.7 2.2 31 100-130 4-35 (68)
149 KOG0990 Replication factor C, 24.0 56 0.0012 36.9 2.5 39 782-831 34-75 (360)
150 PRK09287 6-phosphogluconate de 24.0 1E+02 0.0022 35.1 4.6 31 217-249 66-96 (459)
151 TIGR00478 tly hemolysin TlyA f 23.9 95 0.0021 32.3 4.0 42 206-253 55-96 (228)
152 PRK14103 trans-aconitate 2-met 23.7 96 0.0021 31.2 3.9 32 221-254 20-51 (255)
153 PRK05134 bifunctional 3-demeth 23.6 1E+02 0.0022 30.2 3.9 32 219-252 37-68 (233)
154 TIGR00740 methyltransferase, p 23.4 99 0.0022 30.7 3.9 27 228-254 49-75 (239)
155 cd07385 MPP_YkuE_C Bacillus su 23.1 2.9E+02 0.0062 26.6 6.8 65 294-363 108-172 (223)
156 COG1307 DegV Uncharacterized p 22.6 2.8E+02 0.0061 29.7 7.2 94 157-259 128-252 (282)
157 KOG4589 Cell division protein 21.4 1.7E+02 0.0037 31.4 5.3 78 217-319 55-132 (232)
158 PRK05625 5-amino-6-(5-phosphor 21.3 55 0.0012 32.5 1.6 44 159-204 131-176 (217)
159 PRK15068 tRNA mo(5)U34 methylt 21.2 2E+02 0.0043 30.9 5.8 22 231-252 121-142 (322)
160 cd07952 ED_3B_like Uncharacter 21.0 1.1E+02 0.0025 31.5 3.9 42 290-335 5-48 (256)
161 PF15584 Imm44: Immunity prote 20.7 60 0.0013 30.9 1.7 46 293-356 38-83 (94)
No 1
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=97.76 E-value=2.1e-05 Score=79.38 Aligned_cols=152 Identities=22% Similarity=0.300 Sum_probs=92.5
Q ss_pred cccCcccc-hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh-hCccccccccccCC---CCCCccccccc
Q 002563 207 TSFGRHFT-KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCLYKNYDILP---AKNDFNFEKRD 281 (907)
Q Consensus 207 TSfGRHFT-K~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~-~gK~C~fKNyDliq---pKN~fnFEkrD 281 (907)
.+||.||. ..+-+..|++.+. +.+|++|+|+.||.-.++..+-++... ++.+..-.-.+... ....+++...|
T Consensus 18 k~~gq~fl~~~~i~~~i~~~l~--~~~~~~VLEiG~G~G~lt~~L~~~~~~v~avE~d~~~~~~~~~~~~~~~v~~i~~D 95 (272)
T PRK00274 18 KSLGQNFLIDENILDKIVDAAG--PQPGDNVLEIGPGLGALTEPLLERAAKVTAVEIDRDLAPILAETFAEDNLTIIEGD 95 (272)
T ss_pred cccCcCcCCCHHHHHHHHHhcC--CCCcCeEEEeCCCccHHHHHHHHhCCcEEEEECCHHHHHHHHHhhccCceEEEECh
Confidence 37999995 5556677888774 478999999999999999888664210 01111100011110 01457788888
Q ss_pred cccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhcc--CCcEEEEecCCcc-ccccccCC--Cc---e------ee
Q 002563 282 WMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEF--NPKLLILIVPPET-ERLDRKES--AY---E------LV 347 (907)
Q Consensus 282 WmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~F--kPKLIILIvPpeT-eRLD~K~~--pY---~------Li 347 (907)
+.++...++. ..+|+| ||||.+- ..+|.+.|.. ...-++|++.+|. +||=.++. -| . .-
T Consensus 96 ~~~~~~~~~~--~~~vv~-NlPY~is----s~ii~~~l~~~~~~~~~~l~~QkE~A~Rl~a~pg~~~y~~lSv~~~~~~~ 168 (272)
T PRK00274 96 ALKVDLSELQ--PLKVVA-NLPYNIT----TPLLFHLLEERDPIRDMVVMVQKEVAERIVAKPGSKAYGRLSVLVQYYCD 168 (272)
T ss_pred hhcCCHHHcC--cceEEE-eCCccch----HHHHHHHHhcCCCCCeeEEEeHHHHHHHHcCCCCCccccHHHHHHHHHcc
Confidence 8888765543 357787 9999954 5555555543 3456899999887 77743321 12 1 12
Q ss_pred eccccccCCcceecCCCccc
Q 002563 348 WEDDQFLSGKSFYLPGSVDE 367 (907)
Q Consensus 348 WED~~~LsGkSFYlPGSVDv 367 (907)
++--.-+.-++||=|--||.
T Consensus 169 ~~~~~~v~~~~F~P~PkV~s 188 (272)
T PRK00274 169 VEKVFDVPPSAFVPPPKVDS 188 (272)
T ss_pred eEEEEEeChhhCCCCCCceE
Confidence 22223445677777666654
No 2
>PHA03412 putative methyltransferase; Provisional
Probab=97.59 E-value=0.00015 Score=75.00 Aligned_cols=173 Identities=17% Similarity=0.273 Sum_probs=93.8
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhC------ccccccccccCCCCC--Cccccc
Q 002563 208 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETG------KNCLYKNYDILPAKN--DFNFEK 279 (907)
Q Consensus 208 SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~g------K~C~fKNyDliqpKN--~fnFEk 279 (907)
..|.+||-..-.+.++ .|.. .+..|||+|||+-.|+.+|.++..+.. .+..-....+.. +| ...|..
T Consensus 29 ~~GqFfTP~~iAr~~~---i~~~-~~grVLDlG~GSG~Lalala~~~~~~~~~~V~aVEID~~Al~~Ar-~n~~~~~~~~ 103 (241)
T PHA03412 29 ELGAFFTPIGLARDFT---IDAC-TSGSVVDLCAGIGGLSFAMVHMMMYAKPREIVCVELNHTYYKLGK-RIVPEATWIN 103 (241)
T ss_pred cCCccCCCHHHHHHHH---Hhcc-CCCEEEEccChHHHHHHHHHHhcccCCCcEEEEEECCHHHHHHHH-hhccCCEEEE
Confidence 5688999888656554 2333 478999999999999998876532111 111111111111 11 123333
Q ss_pred cccccccCCCCCCCCeeeeeeCCCccchh-----------hhHHHHHHhhhccCCcEEEEecCCccccccccCCCceeee
Q 002563 280 RDWMTVEPKELAPGSRLIMGLNPPFGVKA-----------GLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVW 348 (907)
Q Consensus 280 rDWmtVqp~ELP~Gs~LIMGLNPPFG~kA-----------~LANKFIdkAL~FkPKLIILIvPpeTeRLD~K~~pY~LiW 348 (907)
.|.+... +..-=-|||+ ||||+.-+ .+.++||.+|+..-+.=. ||+|.-.--.+---.+| +
T Consensus 104 ~D~~~~~---~~~~FDlIIs-NPPY~~~~~~d~~ar~~g~~~~~~li~~A~~Ll~~G~-~ILP~~~~~~~y~~~~~---~ 175 (241)
T PHA03412 104 ADALTTE---FDTLFDMAIS-NPPFGKIKTSDFKGKYTGAEFEYKVIERASQIARQGT-FIIPQMSANFRYSGTHY---F 175 (241)
T ss_pred cchhccc---ccCCccEEEE-CCCCCCccccccCCcccccHHHHHHHHHHHHHcCCCE-EEeCcccccCcccCccc---e
Confidence 3333222 1111238888 99999322 457889999998765554 49998765333222222 2
Q ss_pred ccccccCCcce----------ecCCCcccCchhhcccccCCCCeeeeecchhHHHH
Q 002563 349 EDDQFLSGKSF----------YLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHH 394 (907)
Q Consensus 349 ED~~~LsGkSF----------YlPGSVDvnDKqieqWN~vPPpLyLWSRpDwt~kH 394 (907)
+...-..|+.+ .-||.=-.-.--+++|.-+-|. +=-+.-||+++.
T Consensus 176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 230 (241)
T PHA03412 176 RQDESTTSSKCKKFLDETGLEMNPGCGIDTGYYLEDWKGVKPL-CEVVCMEFNEPE 230 (241)
T ss_pred eeccCcccHHHHHHHHhcCeeecCCCCccceeehhhccCCCcc-ceEEEEeecCcC
Confidence 22222233322 2355422223446888877654 444666776654
No 3
>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=97.58 E-value=0.0001 Score=74.24 Aligned_cols=124 Identities=24% Similarity=0.379 Sum_probs=63.7
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh---hCcccccccccc-------------CCC
Q 002563 208 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE---TGKNCLYKNYDI-------------LPA 271 (907)
Q Consensus 208 SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~---~gK~C~fKNyDl-------------iqp 271 (907)
+.|.+||-.+-.+-+++.| =.+++++|+|+|||+-.|.--..+.+.+ ..+.+.+==.|+ +..
T Consensus 24 ~~G~~~TP~~i~~l~~~~~--~~~~~~~VlDPacGsG~fL~~~~~~i~~~~~~~~~~~i~G~ei~~~~~~la~~nl~l~~ 101 (311)
T PF02384_consen 24 KLGQFYTPREIVDLMVKLL--NPKKGDSVLDPACGSGGFLVAAMEYIKEKRNKIKEINIYGIEIDPEAVALAKLNLLLHG 101 (311)
T ss_dssp SCGGC---HHHHHHHHHHH--TT-TTEEEEETT-TTSHHHHHHHHHHHTCHHHHCCEEEEEEES-HHHHHHHHHHHHHTT
T ss_pred ccceeehHHHHHHHHHhhh--hccccceeechhhhHHHHHHHHHHhhcccccccccceeEeecCcHHHHHHHHhhhhhhc
Confidence 5789999988888888877 4567889999999999996555444311 011111100111 000
Q ss_pred --CCCccccccccccccCCCCCCCCeeeeeeCCCccchh--------------------hhHHHHHHhhhccCCc--EEE
Q 002563 272 --KNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKA--------------------GLANKFINKALEFNPK--LLI 327 (907)
Q Consensus 272 --KN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA--------------------~LANKFIdkAL~FkPK--LII 327 (907)
.+.+++...|++.-....-..-=-+|++ |||||.+. ..-.-||.+|+.+=-+ .++
T Consensus 102 ~~~~~~~i~~~d~l~~~~~~~~~~~D~ii~-NPPf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fi~~~l~~Lk~~G~~~ 180 (311)
T PF02384_consen 102 IDNSNINIIQGDSLENDKFIKNQKFDVIIG-NPPFGSKEWKDEELEKDERFKKYFPPKSNAEYAFIEHALSLLKPGGRAA 180 (311)
T ss_dssp HHCBGCEEEES-TTTSHSCTST--EEEEEE-E--CTCES-STGGGCTTCCCTTCSSSTTEHHHHHHHHHHHTEEEEEEEE
T ss_pred cccccccccccccccccccccccccccccC-CCCccccccccccccccccccccCCCccchhhhhHHHHHhhccccccee
Confidence 1112244444443322211122237787 99999881 1112499999876522 578
Q ss_pred EecCCcc
Q 002563 328 LIVPPET 334 (907)
Q Consensus 328 LIvPpeT 334 (907)
+|+|...
T Consensus 181 ~Ilp~~~ 187 (311)
T PF02384_consen 181 IILPNGF 187 (311)
T ss_dssp EEEEHHH
T ss_pred EEecchh
Confidence 8888754
No 4
>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=97.38 E-value=0.00067 Score=74.22 Aligned_cols=49 Identities=31% Similarity=0.513 Sum_probs=40.7
Q ss_pred ccCcccchhhhHHHHHHhhccccc-----CCCcEEeccCCcchHHHHHHHHHHh
Q 002563 208 SFGRHFTKVDKLQAIVDKLHWYVN-----DGDMIVDFCCGANDFSCLMKKKLDE 256 (907)
Q Consensus 208 SfGRHFTK~ekL~eIvdkLhwyV~-----~GDtiVDfcCG~NdFS~LMk~KLe~ 256 (907)
++|.+||-..-.+.+++.+.-+.. .+.+|+|+|||+-.|..-+-+++.+
T Consensus 2 ~~GqfyTP~~ia~~mv~~~~~~~~~~~~~~~~~ilDP~cGsG~fl~~~~~~~~~ 55 (524)
T TIGR02987 2 AYGTFFTPPDIAKAMVANLVNEIGKNDKSTKTKIIDPCCGDGRLIAALLKKNEE 55 (524)
T ss_pred CCcccCCcHHHHHHHHHHHhhhcchhhcccceEEEeCCCCccHHHHHHHHHHHh
Confidence 589999999999999998865543 3457999999999999888877754
No 5
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=97.23 E-value=0.00086 Score=66.76 Aligned_cols=148 Identities=22% Similarity=0.342 Sum_probs=91.6
Q ss_pred ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCcccc-c-ccccc-------CCCCCCccc
Q 002563 208 SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCL-Y-KNYDI-------LPAKNDFNF 277 (907)
Q Consensus 208 SfGRHF-TK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~-f-KNyDl-------iqpKN~fnF 277 (907)
+||-|| +...-+.+|++.+. +.++++|+|+.||.-.++..|.++.. .+. + .+-++ +.....+.+
T Consensus 6 ~~gq~fl~d~~i~~~i~~~~~--~~~~~~VLEiG~G~G~lt~~L~~~~~----~v~~iE~d~~~~~~l~~~~~~~~~v~v 79 (253)
T TIGR00755 6 SLGQNFLIDESVIQKIVEAAN--VLEGDVVLEIGPGLGALTEPLLKRAK----KVTAIEIDPRLAEILRKLLSLYERLEV 79 (253)
T ss_pred CCCCccCCCHHHHHHHHHhcC--CCCcCEEEEeCCCCCHHHHHHHHhCC----cEEEEECCHHHHHHHHHHhCcCCcEEE
Confidence 689999 67777888888875 36899999999999999999966431 111 0 00000 111234555
Q ss_pred cccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhh-ccCCcEEEEecCCc-ccccccc-----CCCceeee--
Q 002563 278 EKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKAL-EFNPKLLILIVPPE-TERLDRK-----ESAYELVW-- 348 (907)
Q Consensus 278 EkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL-~FkPKLIILIvPpe-TeRLD~K-----~~pY~LiW-- 348 (907)
...|.+.+...++.. .-+|+| |+||. ++..++.+.| ...+..++|++..| .+||=.+ .....++|
T Consensus 80 ~~~D~~~~~~~~~d~-~~~vvs-NlPy~----i~~~il~~ll~~~~~~~~~~~~q~e~a~Rl~a~pg~~~y~~lsv~~~~ 153 (253)
T TIGR00755 80 IEGDALKVDLPDFPK-QLKVVS-NLPYN----ISSPLIFKLLEKPKFRLAVLMVQKEVAERLTAKPGSKDYGRLSVLVQY 153 (253)
T ss_pred EECchhcCChhHcCC-cceEEE-cCChh----hHHHHHHHHhccCCCceEEEEehHHHHHHHccCCCCCcccHHHHHHHH
Confidence 666666655443321 247888 99999 4555666666 67778899999988 3444322 11111111
Q ss_pred ----ccccccCCcceecCCCccc
Q 002563 349 ----EDDQFLSGKSFYLPGSVDE 367 (907)
Q Consensus 349 ----ED~~~LsGkSFYlPGSVDv 367 (907)
+--.-+...+||-|--||.
T Consensus 154 ~~~~~~~~~v~~~~F~P~PkVds 176 (253)
T TIGR00755 154 FANVEIVFKVPPSAFYPPPKVDS 176 (253)
T ss_pred HcceEEEEEEchhhCcCCCCeeE
Confidence 1223345788998887775
No 6
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=97.20 E-value=0.00027 Score=70.89 Aligned_cols=149 Identities=19% Similarity=0.247 Sum_probs=85.2
Q ss_pred ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh-hCccccccccccC----CCCCCccccccc
Q 002563 208 SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCLYKNYDIL----PAKNDFNFEKRD 281 (907)
Q Consensus 208 SfGRHF-TK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~-~gK~C~fKNyDli----qpKN~fnFEkrD 281 (907)
+||.|| +....++.|++.+. +.+|++|||+.||.-.++..|-++... ++.+..-+-++.+ .....+.|...|
T Consensus 6 ~~GQnfl~d~~~~~~iv~~~~--~~~~~~VLEIG~G~G~lt~~L~~~~~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D 83 (258)
T PRK14896 6 KLGQHFLIDDRVVDRIVEYAE--DTDGDPVLEIGPGKGALTDELAKRAKKVYAIELDPRLAEFLRDDEIAAGNVEIIEGD 83 (258)
T ss_pred cCCccccCCHHHHHHHHHhcC--CCCcCeEEEEeCccCHHHHHHHHhCCEEEEEECCHHHHHHHHHHhccCCCEEEEEec
Confidence 799999 68888899999875 678999999999999999988764110 0011110001000 111345555666
Q ss_pred cccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-cccccccC-----CCceee------ec
Q 002563 282 WMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRKE-----SAYELV------WE 349 (907)
Q Consensus 282 WmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpe-TeRLD~K~-----~pY~Li------WE 349 (907)
++.+....+ .+|+| ||||.+- ...+.+.+.+...-.+|.+..| .+||=.+. ....++ .+
T Consensus 84 ~~~~~~~~~----d~Vv~-NlPy~i~----s~~~~~l~~~~~~~~~l~~q~e~A~rl~a~~g~~~yg~lsv~~~~~~~~~ 154 (258)
T PRK14896 84 ALKVDLPEF----NKVVS-NLPYQIS----SPITFKLLKHGFEPAVLMYQKEFAERMVAKPGTKEYGRLSVMVQYYADVE 154 (258)
T ss_pred cccCCchhc----eEEEE-cCCcccC----cHHHHHHHhhccceeEEEeeHHHHHHhcCCCCCccccHHHHHHHHHeeeE
Confidence 665543322 47888 9999864 4555555555554345544443 34443221 111222 22
Q ss_pred cccccCCcceecCCCccc
Q 002563 350 DDQFLSGKSFYLPGSVDE 367 (907)
Q Consensus 350 D~~~LsGkSFYlPGSVDv 367 (907)
--..+.-+.|+-|-.||.
T Consensus 155 ~~~~v~~~~F~P~PkV~s 172 (258)
T PRK14896 155 IVEKVPPGAFSPKPKVDS 172 (258)
T ss_pred EEEEeChHhCCCCCCceE
Confidence 223345678887666663
No 7
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=97.04 E-value=0.00092 Score=69.65 Aligned_cols=154 Identities=19% Similarity=0.276 Sum_probs=92.5
Q ss_pred cccccc-ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccc-cc----------ccccc
Q 002563 202 HGMRYT-SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNC-LY----------KNYDI 268 (907)
Q Consensus 202 hG~RYT-SfGRHF-TK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C-~f----------KNyDl 268 (907)
||+|.. +||.|| +...-+..|++.+. +.+|++|||+.||.-.+...+-++ ..+-+ .= +|+.-
T Consensus 6 ~~~~~kk~~GQnFL~d~~i~~~Iv~~~~--~~~~~~VLEIG~G~G~LT~~Ll~~---~~~V~avEiD~~li~~l~~~~~~ 80 (294)
T PTZ00338 6 SGMVFNKKFGQHILKNPLVLDKIVEKAA--IKPTDTVLEIGPGTGNLTEKLLQL---AKKVIAIEIDPRMVAELKKRFQN 80 (294)
T ss_pred CCcCcCCCCCccccCCHHHHHHHHHhcC--CCCcCEEEEecCchHHHHHHHHHh---CCcEEEEECCHHHHHHHHHHHHh
Confidence 455544 899999 78888899999874 679999999999999998777442 11100 00 11110
Q ss_pred CCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCcc-ccccccC--CCc-
Q 002563 269 LPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET-ERLDRKE--SAY- 344 (907)
Q Consensus 269 iqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeT-eRLD~K~--~pY- 344 (907)
......+.+...|++.+...++ + +|++ ||||.+-..+--|++.... ..+-.+|++-+|. +||=.++ .-|
T Consensus 81 ~~~~~~v~ii~~Dal~~~~~~~---d-~Vva-NlPY~Istpil~~ll~~~~--~~~~~vlm~QkEvA~Rl~A~pg~k~y~ 153 (294)
T PTZ00338 81 SPLASKLEVIEGDALKTEFPYF---D-VCVA-NVPYQISSPLVFKLLAHRP--LFRCAVLMFQKEFALRLLAQPGDELYC 153 (294)
T ss_pred cCCCCcEEEEECCHhhhccccc---C-EEEe-cCCcccCcHHHHHHHhcCC--CCceeeeeehHHHHHHHhcCCCCcccC
Confidence 0002346666677766554333 2 6666 9999966665555554432 3346777777776 7774331 112
Q ss_pred --eeee------ccccccCCcceecCCCccc
Q 002563 345 --ELVW------EDDQFLSGKSFYLPGSVDE 367 (907)
Q Consensus 345 --~LiW------ED~~~LsGkSFYlPGSVDv 367 (907)
.++| +--.-+.-.+||=|=-||-
T Consensus 154 ~LSv~~q~~~~~~~~~~V~~~~F~P~PkVdS 184 (294)
T PTZ00338 154 RLSVNTQLLCRVTHLMKVSKNSFNPPPKVES 184 (294)
T ss_pred HHHHHHHHHhceEEEEEeCchhCCCCCCcEE
Confidence 1221 2223355678887766663
No 8
>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.
Probab=96.82 E-value=0.0028 Score=61.12 Aligned_cols=99 Identities=23% Similarity=0.418 Sum_probs=53.1
Q ss_pred cCCCcEEeccCCcchHHH---HHHHHHH---------hhCcccc-------ccccccCCCCCCccccccccccccCCCCC
Q 002563 231 NDGDMIVDFCCGANDFSC---LMKKKLD---------ETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELA 291 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~---LMk~KLe---------~~gK~C~-------fKNyDliqpKN~fnFEkrDWmtVqp~ELP 291 (907)
++|++|+|.+||+-.|.. +|....- -.|.+.. -.|..-..-.+...|...|...+. ++
T Consensus 27 ~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D~~~l~---~~ 103 (179)
T PF01170_consen 27 RPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWDARELP---LP 103 (179)
T ss_dssp -TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--GGGGG---GT
T ss_pred CCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecchhhcc---cc
Confidence 789999999999999862 2211111 0011110 122222222344566666666665 45
Q ss_pred CCCeeeeeeCCCccchhh-------hHHHHHHhhhc-cCCcEEEEecCC
Q 002563 292 PGSRLIMGLNPPFGVKAG-------LANKFINKALE-FNPKLLILIVPP 332 (907)
Q Consensus 292 ~Gs~LIMGLNPPFG~kA~-------LANKFIdkAL~-FkPKLIILIvPp 332 (907)
.|+.=+|--|||||.+.. |-.+|++.+-. ++|++++|+...
T Consensus 104 ~~~~d~IvtnPPyG~r~~~~~~~~~ly~~~~~~~~~~l~~~~v~l~~~~ 152 (179)
T PF01170_consen 104 DGSVDAIVTNPPYGRRLGSKKDLEKLYRQFLRELKRVLKPRAVFLTTSN 152 (179)
T ss_dssp TSBSCEEEEE--STTSHCHHHHHHHHHHHHHHHHHCHSTTCEEEEEESC
T ss_pred cCCCCEEEECcchhhhccCHHHHHHHHHHHHHHHHHHCCCCEEEEEECC
Confidence 666656667999999855 34567777777 898666666553
No 9
>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=96.15 E-value=0.003 Score=54.05 Aligned_cols=87 Identities=22% Similarity=0.316 Sum_probs=55.5
Q ss_pred CCcEEeccCCcchHHHHHHHHH--HhhCcccc-------ccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCCC
Q 002563 233 GDMIVDFCCGANDFSCLMKKKL--DETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPP 303 (907)
Q Consensus 233 GDtiVDfcCG~NdFS~LMk~KL--e~~gK~C~-------fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPP 303 (907)
|++|+|+|||.-.|...+-++. .-+|.+.. -+|+....-.....|...|+.++. ++++.+..=++-.|||
T Consensus 1 g~~vlD~~~G~G~~~~~~~~~~~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~-~~~~~~~~D~Iv~npP 79 (117)
T PF13659_consen 1 GDRVLDPGCGSGTFLLAALRRGAARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLP-EPLPDGKFDLIVTNPP 79 (117)
T ss_dssp TEEEEEETSTTCHHHHHHHHHCTCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHH-HTCTTT-EEEEEE--S
T ss_pred CCEEEEcCcchHHHHHHHHHHCCCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhch-hhccCceeEEEEECCC
Confidence 7889999999999999997764 01111111 134444433456888889998886 5566666644444999
Q ss_pred ccch-------hhhHHHHHHhhhc
Q 002563 304 FGVK-------AGLANKFINKALE 320 (907)
Q Consensus 304 FG~k-------A~LANKFIdkAL~ 320 (907)
|+.. ..+...|+.+|..
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~ 103 (117)
T PF13659_consen 80 YGPRSGDKAALRRLYSRFLEAAAR 103 (117)
T ss_dssp TTSBTT----GGCHHHHHHHHHHH
T ss_pred CccccccchhhHHHHHHHHHHHHH
Confidence 9954 2367788888764
No 10
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=95.61 E-value=0.047 Score=54.39 Aligned_cols=120 Identities=18% Similarity=0.211 Sum_probs=62.1
Q ss_pred cCCCcEEeccCCcchHHHH-HHHH-HHhhCccc-------cccccccCCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 002563 231 NDGDMIVDFCCGANDFSCL-MKKK-LDETGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 301 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~L-Mk~K-Le~~gK~C-------~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLN 301 (907)
..|.+|+|++||+-.|+-. +... ..-++.+. .-+|.....- ++..|...|++..-+. ..+..=++-+|
T Consensus 52 ~~~~~vLDl~~GsG~l~l~~lsr~a~~V~~vE~~~~a~~~a~~Nl~~~~~-~~v~~~~~D~~~~l~~--~~~~fDlV~~D 128 (199)
T PRK10909 52 IVDARCLDCFAGSGALGLEALSRYAAGATLLEMDRAVAQQLIKNLATLKA-GNARVVNTNALSFLAQ--PGTPHNVVFVD 128 (199)
T ss_pred cCCCEEEEcCCCccHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHHHhCC-CcEEEEEchHHHHHhh--cCCCceEEEEC
Confidence 5788999999999999964 3321 01111111 1245544432 2466777777653222 12334456689
Q ss_pred CCccchhhhHHHHHHhhhc---cCCcEEEEec-CCccccccccCCCceeeeccccccCCcce
Q 002563 302 PPFGVKAGLANKFINKALE---FNPKLLILIV-PPETERLDRKESAYELVWEDDQFLSGKSF 359 (907)
Q Consensus 302 PPFG~kA~LANKFIdkAL~---FkPKLIILIv-PpeTeRLD~K~~pY~LiWED~~~LsGkSF 359 (907)
|||-. .+..+-++.... ..|+=||.|- +..++ +......+.++ ..+.. |+++
T Consensus 129 PPy~~--g~~~~~l~~l~~~~~l~~~~iv~ve~~~~~~-~~~~~~~~~~~-~~k~y--G~s~ 184 (199)
T PRK10909 129 PPFRK--GLLEETINLLEDNGWLADEALIYVESEVENG-LPTVPANWQLH-REKVA--GQVA 184 (199)
T ss_pred CCCCC--ChHHHHHHHHHHCCCcCCCcEEEEEecCCCC-cccCCCccEEE-EEecC--CCEE
Confidence 99843 344443333333 3677666665 43332 33333345554 33333 6654
No 11
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=95.58 E-value=0.017 Score=58.39 Aligned_cols=155 Identities=21% Similarity=0.331 Sum_probs=86.6
Q ss_pred cccCcccc-hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhh---CccccccccccC----CCCCCcccc
Q 002563 207 TSFGRHFT-KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET---GKNCLYKNYDIL----PAKNDFNFE 278 (907)
Q Consensus 207 TSfGRHFT-K~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~---gK~C~fKNyDli----qpKN~fnFE 278 (907)
.+||-||- ...-++.|++.+..- .+++|||+-.|...|++.|-++...+ .++-.| ++.+ ....++..-
T Consensus 6 k~~gQnFL~~~~~~~~Iv~~~~~~--~~~~VlEiGpG~G~lT~~L~~~~~~v~~vE~d~~~--~~~L~~~~~~~~~~~vi 81 (262)
T PF00398_consen 6 KSLGQNFLVDPNIADKIVDALDLS--EGDTVLEIGPGPGALTRELLKRGKRVIAVEIDPDL--AKHLKERFASNPNVEVI 81 (262)
T ss_dssp CGCTSSEEEHHHHHHHHHHHHTCG--TTSEEEEESSTTSCCHHHHHHHSSEEEEEESSHHH--HHHHHHHCTTCSSEEEE
T ss_pred CCCCcCeeCCHHHHHHHHHhcCCC--CCCEEEEeCCCCccchhhHhcccCcceeecCcHhH--HHHHHHHhhhcccceee
Confidence 47899997 667778899988544 89999999999999999886644110 000000 1111 112334444
Q ss_pred ccccccccCCC-CCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-cccccccC-----CCceee----
Q 002563 279 KRDWMTVEPKE-LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRKE-----SAYELV---- 347 (907)
Q Consensus 279 krDWmtVqp~E-LP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpe-TeRLD~K~-----~pY~Li---- 347 (907)
..|.++++..+ +.....+|+| |.||.+-..|-.+++. ...+...-++|+++.| .+||=.+. ..-.++
T Consensus 82 ~~D~l~~~~~~~~~~~~~~vv~-NlPy~is~~il~~ll~-~~~~g~~~~~l~vq~e~a~rl~a~pg~~~~~~lsv~~q~~ 159 (262)
T PF00398_consen 82 NGDFLKWDLYDLLKNQPLLVVG-NLPYNISSPILRKLLE-LYRFGRVRMVLMVQKEVAERLLAKPGSKRYSRLSVLAQAF 159 (262)
T ss_dssp ES-TTTSCGGGHCSSSEEEEEE-EETGTGHHHHHHHHHH-HGGGCEEEEEEEEEHHHHHHHHTSTTSTTCSHHHHHHHHH
T ss_pred ecchhccccHHhhcCCceEEEE-EecccchHHHHHHHhh-cccccccceEEEEehhhhhhccCCCCCCccchhhhhhhhh
Confidence 56666666554 3456667777 9999755555555554 1122224566666655 46665532 111122
Q ss_pred --eccccccCCcceecCCCccc
Q 002563 348 --WEDDQFLSGKSFYLPGSVDE 367 (907)
Q Consensus 348 --WED~~~LsGkSFYlPGSVDv 367 (907)
++--.-+....||=+-.||.
T Consensus 160 ~~i~~l~~v~~~~F~P~PkVds 181 (262)
T PF00398_consen 160 FDIKLLFKVPPSCFYPPPKVDS 181 (262)
T ss_dssp EEEEEEEEE-GGGEESSSSS-E
T ss_pred hceeEecccCCccccCCCCCce
Confidence 22223344567775555664
No 12
>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA. This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA.
Probab=95.19 E-value=0.034 Score=59.60 Aligned_cols=129 Identities=21% Similarity=0.365 Sum_probs=73.5
Q ss_pred hhhhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHHHHh-hCcccc-------ccccccCCCCCCcccccccccc
Q 002563 215 KVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKKLDE-TGKNCL-------YKNYDILPAKNDFNFEKRDWMT 284 (907)
Q Consensus 215 K~ekL~eIvdkLhwyV~--~GDtiVDfcCG~NdFS~LMk~KLe~-~gK~C~-------fKNyDliqpKN~fnFEkrDWmt 284 (907)
..+-.+.+++++..+++ ++++|+|++||.-.|+..|.++... ++.+.. =+|..... -++..|...|+..
T Consensus 273 N~~~~~~l~~~~~~~l~~~~~~~vLDl~cG~G~~sl~la~~~~~V~~vE~~~~av~~a~~n~~~~~-~~nv~~~~~d~~~ 351 (431)
T TIGR00479 273 NSGQNEKLVDRALEALELQGEELVVDAYCGVGTFTLPLAKQAKSVVGIEVVPESVEKAQQNAELNG-IANVEFLAGTLET 351 (431)
T ss_pred CHHHHHHHHHHHHHHhccCCCCEEEEcCCCcCHHHHHHHHhCCEEEEEEcCHHHHHHHHHHHHHhC-CCceEEEeCCHHH
Confidence 56667777777777764 6789999999999999888653210 111110 12222211 1235566666654
Q ss_pred ccCCC-CCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec-CCcccccccc---CCCceee
Q 002563 285 VEPKE-LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV-PPETERLDRK---ESAYELV 347 (907)
Q Consensus 285 Vqp~E-LP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIv-PpeTeRLD~K---~~pY~Li 347 (907)
.-++. +..++.=++-+|||- +.++..|++.....+|+-||.|. -|.|---|-+ ..+|.+.
T Consensus 352 ~l~~~~~~~~~~D~vi~dPPr---~G~~~~~l~~l~~l~~~~ivyvsc~p~tlard~~~l~~~gy~~~ 416 (431)
T TIGR00479 352 VLPKQPWAGQIPDVLLLDPPR---KGCAAEVLRTIIELKPERIVYVSCNPATLARDLEFLCKEGYGIT 416 (431)
T ss_pred HHHHHHhcCCCCCEEEECcCC---CCCCHHHHHHHHhcCCCEEEEEcCCHHHHHHHHHHHHHCCeeEE
Confidence 32211 112222233469994 34778888887788898777665 4555433432 2356543
No 13
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=94.51 E-value=0.19 Score=52.45 Aligned_cols=104 Identities=21% Similarity=0.344 Sum_probs=53.7
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCC--------------CCCCcccccccccc
Q 002563 219 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP--------------AKNDFNFEKRDWMT 284 (907)
Q Consensus 219 L~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq--------------pKN~fnFEkrDWmt 284 (907)
...+++.+. +++|++|+|++||.-.|..-+.. .|. ..--.|+-+ -.+ ..|...|-..
T Consensus 171 a~~~~~l~~--~~~g~~vLDp~cGtG~~lieaa~----~~~--~v~g~Di~~~~~~~a~~nl~~~g~~~-i~~~~~D~~~ 241 (329)
T TIGR01177 171 ARAMVNLAR--VTEGDRVLDPFCGTGGFLIEAGL----MGA--KVIGCDIDWKMVAGARINLEHYGIED-FFVKRGDATK 241 (329)
T ss_pred HHHHHHHhC--CCCcCEEEECCCCCCHHHHHHHH----hCC--eEEEEcCCHHHHHHHHHHHHHhCCCC-CeEEecchhc
Confidence 344454444 48999999999999988543211 121 111122211 111 3344444333
Q ss_pred ccCCCCCCCCeeeeeeCCCccchhhh--------HHHHHHhhhc-cCCc-EEEEecCCcc
Q 002563 285 VEPKELAPGSRLIMGLNPPFGVKAGL--------ANKFINKALE-FNPK-LLILIVPPET 334 (907)
Q Consensus 285 Vqp~ELP~Gs~LIMGLNPPFG~kA~L--------ANKFIdkAL~-FkPK-LIILIvPpeT 334 (907)
.. ++.+..=++-.|||||.+... -.+|++.+.. .+|. .+++++|...
T Consensus 242 l~---~~~~~~D~Iv~dPPyg~~~~~~~~~~~~l~~~~l~~~~r~Lk~gG~lv~~~~~~~ 298 (329)
T TIGR01177 242 LP---LSSESVDAIATDPPYGRSTTAAGDGLESLYERSLEEFHEVLKSEGWIVYAVPTRI 298 (329)
T ss_pred CC---cccCCCCEEEECCCCcCcccccCCchHHHHHHHHHHHHHHccCCcEEEEEEcCCC
Confidence 21 123433344459999986533 4566666654 4554 3555666643
No 14
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=94.36 E-value=0.039 Score=51.73 Aligned_cols=111 Identities=17% Similarity=0.283 Sum_probs=61.4
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccccc--cc---cccC----CCCCCccccccccccccCCC
Q 002563 219 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLY--KN---YDIL----PAKNDFNFEKRDWMTVEPKE 289 (907)
Q Consensus 219 L~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~f--KN---yDli----qpKN~fnFEkrDWmtVqp~E 289 (907)
++.|++.+.+ .+|++|+|+.||.-.++..+-++ +..+.. .| .++. ...+.+.|...|.+.+...+
T Consensus 2 ~~~i~~~~~~--~~~~~vLEiG~G~G~lt~~l~~~----~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~ 75 (169)
T smart00650 2 IDKIVRAANL--RPGDTVLEIGPGKGALTEELLER----AARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPK 75 (169)
T ss_pred HHHHHHhcCC--CCcCEEEEECCCccHHHHHHHhc----CCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCccc
Confidence 3556776664 67899999999999999887553 111110 00 1111 11234556667776664332
Q ss_pred CCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-ccccccc
Q 002563 290 LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRK 340 (907)
Q Consensus 290 LP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpe-TeRLD~K 340 (907)
. .--+|++ ||||.+...+-.+++.... ..+.. +|++-.| .+||-.+
T Consensus 76 ~--~~d~vi~-n~Py~~~~~~i~~~l~~~~-~~~~~-~l~~q~e~a~rl~~~ 122 (169)
T smart00650 76 L--QPYKVVG-NLPYNISTPILFKLLEEPP-AFRDA-VLMVQKEVARRLAAK 122 (169)
T ss_pred c--CCCEEEE-CCCcccHHHHHHHHHhcCC-CcceE-EEEEEHHHhHHhcCC
Confidence 1 1246777 9999864444444444332 22344 4455544 4577665
No 15
>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=94.17 E-value=0.048 Score=58.19 Aligned_cols=115 Identities=16% Similarity=0.246 Sum_probs=64.3
Q ss_pred chhhhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHHHHh-hCcccc-------ccccccCCCCCCccccccccc
Q 002563 214 TKVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKKLDE-TGKNCL-------YKNYDILPAKNDFNFEKRDWM 283 (907)
Q Consensus 214 TK~ekL~eIvdkLhwyV~--~GDtiVDfcCG~NdFS~LMk~KLe~-~gK~C~-------fKNyDliqpKN~fnFEkrDWm 283 (907)
|..+-.+.+++.+.-++. ++.+|+|++||.-.|+..+-.+... +|.++. -+|.....-. +..|...|..
T Consensus 213 ~n~~~~~~l~~~~~~~l~~~~~~~vLDL~cG~G~~~l~la~~~~~v~~vE~~~~av~~a~~N~~~~~~~-~~~~~~~d~~ 291 (374)
T TIGR02085 213 TNPKVAAQLYATARQWVREIPVTQMWDLFCGVGGFGLHCAGPDTQLTGIEIESEAIACAQQSAQMLGLD-NLSFAALDSA 291 (374)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCCEEEEccCCccHHHHHHhhcCCeEEEEECCHHHHHHHHHHHHHcCCC-cEEEEECCHH
Confidence 444445555555544443 5789999999999999877543211 122211 1222222111 3445555543
Q ss_pred cccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEe-cCCcc
Q 002563 284 TVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILI-VPPET 334 (907)
Q Consensus 284 tVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILI-vPpeT 334 (907)
+.-+. + .+..=++-+|||. +.+..++|+.++.++|+-||.| .-|.|
T Consensus 292 ~~~~~-~-~~~~D~vi~DPPr---~G~~~~~l~~l~~~~p~~ivyvsc~p~T 338 (374)
T TIGR02085 292 KFATA-Q-MSAPELVLVNPPR---RGIGKELCDYLSQMAPKFILYSSCNAQT 338 (374)
T ss_pred HHHHh-c-CCCCCEEEECCCC---CCCcHHHHHHHHhcCCCeEEEEEeCHHH
Confidence 32211 1 1122345569996 4788999999999999655544 45554
No 16
>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=93.84 E-value=0.058 Score=51.04 Aligned_cols=84 Identities=23% Similarity=0.344 Sum_probs=53.8
Q ss_pred CCCcEEeccCCcchHHHHHHHHHHhhC----------ccccccccccCCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 002563 232 DGDMIVDFCCGANDFSCLMKKKLDETG----------KNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 301 (907)
Q Consensus 232 ~GDtiVDfcCG~NdFS~LMk~KLe~~g----------K~C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLN 301 (907)
.+..|+|+|||+--.+-++.++..... ..|.-+|.....-.+ ..+...||+. .++.+..=++-.|
T Consensus 31 ~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~-v~~~~~d~~~----~~~~~~fD~Iv~N 105 (170)
T PF05175_consen 31 KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLEN-VEVVQSDLFE----ALPDGKFDLIVSN 105 (170)
T ss_dssp TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTT-EEEEESSTTT----TCCTTCEEEEEE-
T ss_pred cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccc-cccccccccc----cccccceeEEEEc
Confidence 788999999999999999877544311 123445655555444 6777788864 3444555455559
Q ss_pred CCccchhh----hHHHHHHhhhc
Q 002563 302 PPFGVKAG----LANKFINKALE 320 (907)
Q Consensus 302 PPFG~kA~----LANKFIdkAL~ 320 (907)
|||--... +..+||..|..
T Consensus 106 PP~~~~~~~~~~~~~~~i~~a~~ 128 (170)
T PF05175_consen 106 PPFHAGGDDGLDLLRDFIEQARR 128 (170)
T ss_dssp --SBTTSHCHHHHHHHHHHHHHH
T ss_pred cchhcccccchhhHHHHHHHHHH
Confidence 99965444 77899988754
No 17
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=93.63 E-value=0.075 Score=55.13 Aligned_cols=109 Identities=14% Similarity=0.202 Sum_probs=57.4
Q ss_pred hhhhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHHHH-hhCccccc-------cccccCCCCCCcccccccccc
Q 002563 215 KVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKKLD-ETGKNCLY-------KNYDILPAKNDFNFEKRDWMT 284 (907)
Q Consensus 215 K~ekL~eIvdkLhwyV~--~GDtiVDfcCG~NdFS~LMk~KLe-~~gK~C~f-------KNyDliqpKN~fnFEkrDWmt 284 (907)
..+-.+.+++.+.-+++ ++++|+|+|||.-.|+..+-++.. -+|.+.+- +|.....- ++..|...|..+
T Consensus 154 n~~~~~~l~~~v~~~l~~~~~~~VLDl~cG~G~~sl~la~~~~~V~gvD~s~~av~~A~~n~~~~~l-~~v~~~~~D~~~ 232 (315)
T PRK03522 154 NPAVAAQLYATARDWVRELPPRSMWDLFCGVGGFGLHCATPGMQLTGIEISAEAIACAKQSAAELGL-TNVQFQALDSTQ 232 (315)
T ss_pred CHHHHHHHHHHHHHHHHhcCCCEEEEccCCCCHHHHHHHhcCCEEEEEeCCHHHHHHHHHHHHHcCC-CceEEEEcCHHH
Confidence 33333444443333333 579999999999999987765321 11222111 12211111 234566665544
Q ss_pred ccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEe
Q 002563 285 VEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILI 329 (907)
Q Consensus 285 Vqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILI 329 (907)
..+. ..+..=++-+||| ++.+..+.+.-....+|+-||.|
T Consensus 233 ~~~~--~~~~~D~Vv~dPP---r~G~~~~~~~~l~~~~~~~ivyv 272 (315)
T PRK03522 233 FATA--QGEVPDLVLVNPP---RRGIGKELCDYLSQMAPRFILYS 272 (315)
T ss_pred HHHh--cCCCCeEEEECCC---CCCccHHHHHHHHHcCCCeEEEE
Confidence 3221 1122223446999 45566777777777888777665
No 18
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=93.36 E-value=0.11 Score=56.27 Aligned_cols=124 Identities=21% Similarity=0.307 Sum_probs=68.7
Q ss_pred HHHHHHhhcccc--cCCCcEEeccCCcchHHHHHHHHHHh-hCcccc-------ccccccCCCCCCccccccccccccCC
Q 002563 219 LQAIVDKLHWYV--NDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPK 288 (907)
Q Consensus 219 L~eIvdkLhwyV--~~GDtiVDfcCG~NdFS~LMk~KLe~-~gK~C~-------fKNyDliqpKN~fnFEkrDWmtVqp~ 288 (907)
.+.+++.+.-++ .+|++|+|+|||.-.|+..|-++... +|.+.+ -+|.....-+ +..|...||...-++
T Consensus 282 ~e~l~~~vl~~l~~~~~~~VLDlgcGtG~~sl~la~~~~~V~gvD~s~~al~~A~~n~~~~~~~-~v~~~~~d~~~~l~~ 360 (443)
T PRK13168 282 NQKMVARALEWLDPQPGDRVLDLFCGLGNFTLPLARQAAEVVGVEGVEAMVERARENARRNGLD-NVTFYHANLEEDFTD 360 (443)
T ss_pred HHHHHHHHHHHhcCCCCCEEEEEeccCCHHHHHHHHhCCEEEEEeCCHHHHHHHHHHHHHcCCC-ceEEEEeChHHhhhh
Confidence 444555554444 57899999999999999988654211 111111 1333222222 367888887654221
Q ss_pred -CCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec-CCcccccccc---CCCceee
Q 002563 289 -ELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV-PPETERLDRK---ESAYELV 347 (907)
Q Consensus 289 -ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIv-PpeTeRLD~K---~~pY~Li 347 (907)
.++.++.=++-+|||..- +.+++......+|+-||.|. -|.|---|-+ +.+|.|.
T Consensus 361 ~~~~~~~fD~Vi~dPPr~g----~~~~~~~l~~~~~~~ivyvSCnp~tlaRDl~~L~~~gY~l~ 420 (443)
T PRK13168 361 QPWALGGFDKVLLDPPRAG----AAEVMQALAKLGPKRIVYVSCNPATLARDAGVLVEAGYRLK 420 (443)
T ss_pred hhhhcCCCCEEEECcCCcC----hHHHHHHHHhcCCCeEEEEEeChHHhhccHHHHhhCCcEEE
Confidence 122332223346999863 23556666666777776665 5555433432 2467664
No 19
>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=92.75 E-value=0.22 Score=48.08 Aligned_cols=69 Identities=25% Similarity=0.456 Sum_probs=40.6
Q ss_pred cCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCC-------------CCCCccccccccccccCCCCCCCC-ee
Q 002563 231 NDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP-------------AKNDFNFEKRDWMTVEPKELAPGS-RL 296 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq-------------pKN~fnFEkrDWmtVqp~ELP~Gs-~L 296 (907)
..+.+|+|+|||.-.|...+.+.+. .+.+--.|+-+ .-.+..|...||.+. ++.++ -+
T Consensus 86 ~~~~~ilDig~G~G~~~~~l~~~~~----~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~d~~~~----~~~~~fD~ 157 (251)
T TIGR03534 86 KGPLRVLDLGTGSGAIALALAKERP----DARVTAVDISPEALAVARKNAARLGLDNVTFLQSDWFEP----LPGGKFDL 157 (251)
T ss_pred cCCCeEEEEeCcHhHHHHHHHHHCC----CCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchhcc----CcCCceeE
Confidence 4556899999999999888876432 12222222210 011366777777652 23343 35
Q ss_pred eeeeCCCccchh
Q 002563 297 IMGLNPPFGVKA 308 (907)
Q Consensus 297 IMGLNPPFG~kA 308 (907)
|+. ||||....
T Consensus 158 Vi~-npPy~~~~ 168 (251)
T TIGR03534 158 IVS-NPPYIPEA 168 (251)
T ss_pred EEE-CCCCCchh
Confidence 554 99998543
No 20
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=92.75 E-value=0.38 Score=49.58 Aligned_cols=125 Identities=23% Similarity=0.325 Sum_probs=70.1
Q ss_pred HHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccc-----cCCCcEEeccCCcchHHHHHH---------
Q 002563 186 IFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYV-----NDGDMIVDFCCGANDFSCLMK--------- 251 (907)
Q Consensus 186 L~rwk~kLkvYLAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV-----~~GDtiVDfcCG~NdFS~LMk--------- 251 (907)
|..--.||+-+..|=+.=.-|+-=+ .++..+.|.+ ..|-+|+|++||.--|++-..
T Consensus 4 Le~~l~kl~~f~~p~~~LEQY~Tp~----------~~Aa~il~~a~~~g~l~g~~V~DlG~GTG~La~ga~~lGa~~V~~ 73 (198)
T COG2263 4 LEILLEKLKGFPNPKLGLEQYRTPA----------PLAAYILWVAYLRGDLEGKTVLDLGAGTGILAIGAALLGASRVLA 73 (198)
T ss_pred hhhhhhhhcCCCCCCccceecCCCh----------HHHHHHHHHHHHcCCcCCCEEEEcCCCcCHHHHHHHhcCCcEEEE
Confidence 3444456666666655555554322 2566666766 345579999999999886432
Q ss_pred -----HHHHhhCccccccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhH-HHHHHhhhccCCcE
Q 002563 252 -----KKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLA-NKFINKALEFNPKL 325 (907)
Q Consensus 252 -----~KLe~~gK~C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LA-NKFIdkAL~FkPKL 325 (907)
+.++.....|.= + ..++.|...|=-.+..+- +..| .|||||.+..=| ..|++|||+-. +.
T Consensus 74 vdiD~~a~ei~r~N~~~----l---~g~v~f~~~dv~~~~~~~----dtvi--mNPPFG~~~rhaDr~Fl~~Ale~s-~v 139 (198)
T COG2263 74 VDIDPEALEIARANAEE----L---LGDVEFVVADVSDFRGKF----DTVI--MNPPFGSQRRHADRPFLLKALEIS-DV 139 (198)
T ss_pred EecCHHHHHHHHHHHHh----h---CCceEEEEcchhhcCCcc----ceEE--ECCCCccccccCCHHHHHHHHHhh-he
Confidence 222221111210 0 134445444433322221 1233 399999986655 36999999998 77
Q ss_pred EEEecCCcc
Q 002563 326 LILIVPPET 334 (907)
Q Consensus 326 IILIvPpeT 334 (907)
|--|---.+
T Consensus 140 VYsiH~a~~ 148 (198)
T COG2263 140 VYSIHKAGS 148 (198)
T ss_pred EEEeecccc
Confidence 766654443
No 21
>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=92.48 E-value=0.22 Score=51.55 Aligned_cols=72 Identities=18% Similarity=0.260 Sum_probs=43.1
Q ss_pred cCCCcEEeccCCcchHHHHHHHHHHh---hCcc-------ccccccccCCCCCCccccccccccccCCCCCCCC-eeeee
Q 002563 231 NDGDMIVDFCCGANDFSCLMKKKLDE---TGKN-------CLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGS-RLIMG 299 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~LMk~KLe~---~gK~-------C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs-~LIMG 299 (907)
.++..|+|+|||+--++..+.++... ++.+ +.-+|.....-.+...|...||++. ++.+. -+|+
T Consensus 120 ~~~~~vLDlG~GsG~i~~~la~~~~~~~v~avDis~~al~~A~~n~~~~~~~~~i~~~~~D~~~~----~~~~~fD~Iv- 194 (284)
T TIGR03533 120 EPVKRILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINIERHGLEDRVTLIQSDLFAA----LPGRKYDLIV- 194 (284)
T ss_pred CCCCEEEEEeCchhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhc----cCCCCccEEE-
Confidence 45678999999999999888765321 1111 1123333222235677888888642 33332 3555
Q ss_pred eCCCccch
Q 002563 300 LNPPFGVK 307 (907)
Q Consensus 300 LNPPFG~k 307 (907)
.||||.-.
T Consensus 195 ~NPPy~~~ 202 (284)
T TIGR03533 195 SNPPYVDA 202 (284)
T ss_pred ECCCCCCc
Confidence 49999643
No 22
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=91.71 E-value=0.29 Score=51.37 Aligned_cols=69 Identities=17% Similarity=0.279 Sum_probs=40.8
Q ss_pred CcEEeccCCcchHHHHHHHHHHh---hCcccc-------ccccccCCCCCCccccccccccccCCCCCCCC-eeeeeeCC
Q 002563 234 DMIVDFCCGANDFSCLMKKKLDE---TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGS-RLIMGLNP 302 (907)
Q Consensus 234 DtiVDfcCG~NdFS~LMk~KLe~---~gK~C~-------fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs-~LIMGLNP 302 (907)
.+|+|+|||+-.++..+.++... ++.+.+ =+|.....-.+...|...||.+. +|.++ -+|+. ||
T Consensus 135 ~~VLDlG~GsG~iai~la~~~p~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~----l~~~~fDlIvs-NP 209 (307)
T PRK11805 135 TRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAA----LPGRRYDLIVS-NP 209 (307)
T ss_pred CEEEEEechhhHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhh----CCCCCccEEEE-CC
Confidence 68999999999999888664321 111111 12322222234577888888653 33333 35655 99
Q ss_pred Cccch
Q 002563 303 PFGVK 307 (907)
Q Consensus 303 PFG~k 307 (907)
||--.
T Consensus 210 Pyi~~ 214 (307)
T PRK11805 210 PYVDA 214 (307)
T ss_pred CCCCc
Confidence 99643
No 23
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=91.43 E-value=0.25 Score=51.34 Aligned_cols=58 Identities=26% Similarity=0.441 Sum_probs=47.5
Q ss_pred hHHhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 181 EVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 181 ~vL~QL~rwk~kLkvYLAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
++..++.++.|... +--|||.|.+-...|.+....- +|+.|+|.|||.-|+..++.+.
T Consensus 15 ~vF~~ia~~YD~~n----------~~~S~g~~~~Wr~~~i~~~~~~-----~g~~vLDva~GTGd~a~~~~k~ 72 (238)
T COG2226 15 KVFDKVAKKYDLMN----------DLMSFGLHRLWRRALISLLGIK-----PGDKVLDVACGTGDMALLLAKS 72 (238)
T ss_pred HHHHhhHHHHHhhc----------ccccCcchHHHHHHHHHhhCCC-----CCCEEEEecCCccHHHHHHHHh
Confidence 45568888888876 4448999999999887765432 9999999999999999998773
No 24
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=91.37 E-value=1.4 Score=43.84 Aligned_cols=65 Identities=22% Similarity=0.254 Sum_probs=44.7
Q ss_pred hhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCC--CCCCcccccccccc
Q 002563 216 VDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP--AKNDFNFEKRDWMT 284 (907)
Q Consensus 216 ~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq--pKN~fnFEkrDWmt 284 (907)
..||.+|.+++. ++.+|++|||++||.-.|+..+-+ ..+..|..--.|+-+ +..+..|..-|+.+
T Consensus 36 ~~kl~~~~~~~~-~~~~~~~VLDlG~GtG~~t~~l~~---~~~~~~~V~aVDi~~~~~~~~v~~i~~D~~~ 102 (209)
T PRK11188 36 WFKLDEIQQSDK-LFKPGMTVVDLGAAPGGWSQYAVT---QIGDKGRVIACDILPMDPIVGVDFLQGDFRD 102 (209)
T ss_pred HHhhHHHHHHhc-cCCCCCEEEEEcccCCHHHHHHHH---HcCCCceEEEEecccccCCCCcEEEecCCCC
Confidence 457888888764 678999999999999999998755 344455555556543 11234555566554
No 25
>PHA03411 putative methyltransferase; Provisional
Probab=91.35 E-value=0.12 Score=54.92 Aligned_cols=40 Identities=20% Similarity=0.253 Sum_probs=30.5
Q ss_pred cCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563 209 FGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 209 fGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
.|-+||-..-+..++ +....+.+|+|+|||.-.|+.++-+
T Consensus 45 ~G~FfTP~~i~~~f~----~~~~~~grVLDLGcGsGilsl~la~ 84 (279)
T PHA03411 45 SGAFFTPEGLAWDFT----IDAHCTGKVLDLCAGIGRLSFCMLH 84 (279)
T ss_pred ceeEcCCHHHHHHHH----hccccCCeEEEcCCCCCHHHHHHHH
Confidence 499999887765543 2334578999999999999887754
No 26
>PRK14967 putative methyltransferase; Provisional
Probab=91.30 E-value=0.79 Score=45.05 Aligned_cols=34 Identities=15% Similarity=0.322 Sum_probs=26.0
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563 217 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 217 ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
+.|.+++.++ .+.+|++|+|++||.--|+..+.+
T Consensus 23 ~~l~~~l~~~--~~~~~~~vLDlGcG~G~~~~~la~ 56 (223)
T PRK14967 23 QLLADALAAE--GLGPGRRVLDLCTGSGALAVAAAA 56 (223)
T ss_pred HHHHHHHHhc--ccCCCCeEEEecCCHHHHHHHHHH
Confidence 4455555554 368899999999999999888765
No 27
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=90.93 E-value=0.39 Score=53.34 Aligned_cols=116 Identities=19% Similarity=0.458 Sum_probs=80.1
Q ss_pred cccccccCcccchh--hhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHH-------------HHhhCcccc---
Q 002563 203 GMRYTSFGRHFTKV--DKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKK-------------LDETGKNCL--- 262 (907)
Q Consensus 203 G~RYTSfGRHFTK~--ekL~eIvdkLhwyV~--~GDtiVDfcCG~NdFS~LMk~K-------------Le~~gK~C~--- 262 (907)
|..|.=..|.|+++ +-.+.+++...-+++ .+|+++|+.||.-.|+-.|-++ .++....+-
T Consensus 260 ~~~~~~~~~sF~Q~N~~~~ekl~~~a~~~~~~~~~~~vlDlYCGvG~f~l~lA~~~~~V~gvEi~~~aV~~A~~NA~~n~ 339 (432)
T COG2265 260 GVSFQISPRSFFQVNPAVAEKLYETALEWLELAGGERVLDLYCGVGTFGLPLAKRVKKVHGVEISPEAVEAAQENAAANG 339 (432)
T ss_pred ceEEEeCCCCceecCHHHHHHHHHHHHHHHhhcCCCEEEEeccCCChhhhhhcccCCEEEEEecCHHHHHHHHHHHHHcC
Confidence 56777778899865 445566666666676 6789999999999999887532 222222222
Q ss_pred ccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec
Q 002563 263 YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV 330 (907)
Q Consensus 263 fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIv 330 (907)
..| --|..-..+.|..+-|..-.|+ +|+ ++|| ++-+...|++..++++|+-||-|.
T Consensus 340 i~N-~~f~~~~ae~~~~~~~~~~~~d-------~Vv-vDPP---R~G~~~~~lk~l~~~~p~~IvYVS 395 (432)
T COG2265 340 IDN-VEFIAGDAEEFTPAWWEGYKPD-------VVV-VDPP---RAGADREVLKQLAKLKPKRIVYVS 395 (432)
T ss_pred CCc-EEEEeCCHHHHhhhccccCCCC-------EEE-ECCC---CCCCCHHHHHHHHhcCCCcEEEEe
Confidence 344 3455556666666666333344 444 5999 566899999999999999988885
No 28
>PF07669 Eco57I: Eco57I restriction-modification methylase; InterPro: IPR011639 This entry contains restriction modification methylases, which in the case of endonuclease Eco57I is found adjacent to the DNA cleavage domain, which recognises asymmetric DNA sequence 5'-CTGAAG [, ]. The methylase causes specific methylation on A-5 on one strand, the other strand being methylated by the Eco57IB methylase []. ; GO: 0003677 DNA binding, 0003824 catalytic activity, 0006304 DNA modification
Probab=89.84 E-value=0.28 Score=44.16 Aligned_cols=39 Identities=31% Similarity=0.498 Sum_probs=30.8
Q ss_pred eeeeeCCCccchhhhH-------------HHHHHhhhccCCcEEEEecCCccc
Q 002563 296 LIMGLNPPFGVKAGLA-------------NKFINKALEFNPKLLILIVPPETE 335 (907)
Q Consensus 296 LIMGLNPPFG~kA~LA-------------NKFIdkAL~FkPKLIILIvPpeTe 335 (907)
+|+| |||++....+. .-||.+|++.-.-.+.+|+|...=
T Consensus 5 ~VIG-NPPY~~~~~~~~~~~~~~~~~dlY~~Fie~~~~ll~G~~~~I~P~~~l 56 (106)
T PF07669_consen 5 VVIG-NPPYIKIKSLSKKKKKKKKKSDLYILFIEKSLNLLNGYLSFITPNSFL 56 (106)
T ss_pred EEEE-CCCChhhccccchhhcccccCcHHHHHHHHHHHHhCCeEEEEeChHHh
Confidence 8999 99998765322 129999998888999999997654
No 29
>PRK05785 hypothetical protein; Provisional
Probab=88.66 E-value=0.59 Score=46.77 Aligned_cols=58 Identities=21% Similarity=0.329 Sum_probs=41.1
Q ss_pred HhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 183 LSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 183 L~QL~rwk~kLkvYLAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
-+.+..+.|.+. |..|||++--- -+++++.|..+..++.+|+|++||.-++...+.++
T Consensus 15 f~~iA~~YD~~n----------~~~s~g~~~~w---r~~~~~~l~~~~~~~~~VLDlGcGtG~~~~~l~~~ 72 (226)
T PRK05785 15 YNKIPKAYDRAN----------RFISFNQDVRW---RAELVKTILKYCGRPKKVLDVAAGKGELSYHFKKV 72 (226)
T ss_pred HHhhhHHHHHhh----------hhccCCCcHHH---HHHHHHHHHHhcCCCCeEEEEcCCCCHHHHHHHHh
Confidence 445666666553 55678877322 23456666666667899999999999999998776
No 30
>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=88.48 E-value=0.16 Score=51.12 Aligned_cols=86 Identities=24% Similarity=0.338 Sum_probs=43.3
Q ss_pred hhcccccCCCcEEeccCCcchHHHHHHHHHHhhCcccccccccc--------------CCCCCCccccccccccccCCCC
Q 002563 225 KLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDI--------------LPAKNDFNFEKRDWMTVEPKEL 290 (907)
Q Consensus 225 kLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDl--------------iqpKN~fnFEkrDWmtVqp~EL 290 (907)
||--.|.+|++|+|++||---|+-.+-+. ++.|..-.-|+ =.-++....-.-|..++-+ -
T Consensus 94 Ri~~~v~~~e~VlD~faGIG~f~l~~ak~----~~~~~V~A~d~Np~a~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~--~ 167 (200)
T PF02475_consen 94 RIANLVKPGEVVLDMFAGIGPFSLPIAKH----GKAKRVYAVDLNPDAVEYLKENIRLNKVENRIEVINGDAREFLP--E 167 (200)
T ss_dssp HHHTC--TT-EEEETT-TTTTTHHHHHHH----T-SSEEEEEES-HHHHHHHHHHHHHTT-TTTEEEEES-GGG-----T
T ss_pred HHHhcCCcceEEEEccCCccHHHHHHhhh----cCccEEEEecCCHHHHHHHHHHHHHcCCCCeEEEEcCCHHHhcC--c
Confidence 44445999999999999999999988551 33332222222 1112333233334443333 2
Q ss_pred CCCCeeeeeeCCCccchhhhHHHHHHhhhccCC
Q 002563 291 APGSRLIMGLNPPFGVKAGLANKFINKALEFNP 323 (907)
Q Consensus 291 P~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkP 323 (907)
..-+.+|||| |+. |..|++.|+....
T Consensus 168 ~~~drvim~l-p~~------~~~fl~~~~~~~~ 193 (200)
T PF02475_consen 168 GKFDRVIMNL-PES------SLEFLDAALSLLK 193 (200)
T ss_dssp T-EEEEEE---TSS------GGGGHHHHHHHEE
T ss_pred cccCEEEECC-hHH------HHHHHHHHHHHhc
Confidence 3445899995 664 4578888876543
No 31
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=88.29 E-value=0.68 Score=45.74 Aligned_cols=74 Identities=20% Similarity=0.349 Sum_probs=42.4
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHHHhh---Cc-------cccccccccCCCCCCccccccccccccCCCCCCCCe-eee
Q 002563 230 VNDGDMIVDFCCGANDFSCLMKKKLDET---GK-------NCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSR-LIM 298 (907)
Q Consensus 230 V~~GDtiVDfcCG~NdFS~LMk~KLe~~---gK-------~C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~-LIM 298 (907)
..++.+|+|+|||.-.+...|.+.+... +. .+.-+|.. ....+...|...||+.- ++.+.. +|+
T Consensus 106 ~~~~~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~-~~~~~~i~~~~~d~~~~----~~~~~fD~Iv 180 (275)
T PRK09328 106 LKEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAK-HGLGARVEFLQGDWFEP----LPGGRFDLIV 180 (275)
T ss_pred ccCCCEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHH-hCCCCcEEEEEccccCc----CCCCceeEEE
Confidence 3577899999999999988886654110 00 11112222 11234567777788542 223333 555
Q ss_pred eeCCCccchhh
Q 002563 299 GLNPPFGVKAG 309 (907)
Q Consensus 299 GLNPPFG~kA~ 309 (907)
. ||||.-...
T Consensus 181 ~-npPy~~~~~ 190 (275)
T PRK09328 181 S-NPPYIPEAD 190 (275)
T ss_pred E-CCCcCCcch
Confidence 4 999975443
No 32
>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=87.75 E-value=2 Score=42.33 Aligned_cols=110 Identities=14% Similarity=0.149 Sum_probs=56.1
Q ss_pred hhhHH-HHHHhhcccccCCCcEEeccCCcchHHHHHHHHHH--hhCcccc-------ccccccCCCCCCccccccccccc
Q 002563 216 VDKLQ-AIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD--ETGKNCL-------YKNYDILPAKNDFNFEKRDWMTV 285 (907)
Q Consensus 216 ~ekL~-eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe--~~gK~C~-------fKNyDliqpKN~fnFEkrDWmtV 285 (907)
.++++ .+...|.-++ .|..|+|+|||+-.|+-..-.+.. -+..+.. -+|.....-.+...|.+.|-+..
T Consensus 33 ~~~vrea~f~~l~~~~-~g~~vLDLfaGsG~lglea~srga~~v~~vE~~~~a~~~~~~N~~~~~~~~~~~~~~~D~~~~ 111 (189)
T TIGR00095 33 TRVVRELFFNILRPEI-QGAHLLDVFAGSGLLGEEALSRGAKVAFLEEDDRKANQTLKENLALLKSGEQAEVVRNSALRA 111 (189)
T ss_pred hHHHHHHHHHHHHHhc-CCCEEEEecCCCcHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHhCCcccEEEEehhHHHH
Confidence 34444 4556554444 588999999999999876644321 1111111 24444443333344555554332
Q ss_pred cCCCCC-CCC-eeeeeeCCCccchhhhHHHHHH---hhhccCCcEEEEe
Q 002563 286 EPKELA-PGS-RLIMGLNPPFGVKAGLANKFIN---KALEFNPKLLILI 329 (907)
Q Consensus 286 qp~ELP-~Gs-~LIMGLNPPFG~kA~LANKFId---kAL~FkPKLIILI 329 (907)
-. .+. .+. -.|+=++|||+... -.+-+. +.--.++.-||++
T Consensus 112 l~-~~~~~~~~~dvv~~DPPy~~~~--~~~~l~~l~~~~~l~~~~iiv~ 157 (189)
T TIGR00095 112 LK-FLAKKPTFDNVIYLDPPFFNGA--LQALLELCENNWILEDTVLIVV 157 (189)
T ss_pred HH-HhhccCCCceEEEECcCCCCCc--HHHHHHHHHHCCCCCCCeEEEE
Confidence 11 121 222 47778899998532 222222 2222566766555
No 33
>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=87.56 E-value=0.57 Score=50.06 Aligned_cols=116 Identities=16% Similarity=0.234 Sum_probs=62.8
Q ss_pred HHHHHHhhccccc-CCCcEEeccCCcchHHHHHHHHHHh-hC-------ccccccccccCCCCCCccccccccccccCC-
Q 002563 219 LQAIVDKLHWYVN-DGDMIVDFCCGANDFSCLMKKKLDE-TG-------KNCLYKNYDILPAKNDFNFEKRDWMTVEPK- 288 (907)
Q Consensus 219 L~eIvdkLhwyV~-~GDtiVDfcCG~NdFS~LMk~KLe~-~g-------K~C~fKNyDliqpKN~fnFEkrDWmtVqp~- 288 (907)
.+.+++.+.-++. .++.|+|++||.-.|+..+.++... ++ ..+-=+|..+-.-+ +..|...|..+.-+.
T Consensus 183 ~~~l~~~v~~~~~~~~~~vlDl~~G~G~~sl~la~~~~~v~~vE~~~~av~~a~~n~~~~~~~-~v~~~~~d~~~~~~~~ 261 (353)
T TIGR02143 183 NIKMLEWACEVTQGSKGDLLELYCGNGNFSLALAQNFRRVLATEIAKPSVNAAQYNIAANNID-NVQIIRMSAEEFTQAM 261 (353)
T ss_pred HHHHHHHHHHHhhcCCCcEEEEeccccHHHHHHHHhCCEEEEEECCHHHHHHHHHHHHHcCCC-cEEEEEcCHHHHHHHH
Confidence 3444444433454 3457999999999999988765210 00 01112344333322 255666665442221
Q ss_pred ----CCC--CC----C--eeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCccccccc
Q 002563 289 ----ELA--PG----S--RLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDR 339 (907)
Q Consensus 289 ----ELP--~G----s--~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeTeRLD~ 339 (907)
.++ .| . .=++-|+|| ++.+..++++..+.. .++|.+=.-|.|=-=|-
T Consensus 262 ~~~~~~~~~~~~~~~~~~~d~v~lDPP---R~G~~~~~l~~l~~~-~~ivYvsC~p~tlaRDl 320 (353)
T TIGR02143 262 NGVREFRRLKGIDLKSYNCSTIFVDPP---RAGLDPDTCKLVQAY-ERILYISCNPETLKANL 320 (353)
T ss_pred hhccccccccccccccCCCCEEEECCC---CCCCcHHHHHHHHcC-CcEEEEEcCHHHHHHHH
Confidence 110 11 0 124567999 678888998877772 35555555666544443
No 34
>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=87.43 E-value=0.35 Score=49.25 Aligned_cols=68 Identities=22% Similarity=0.384 Sum_probs=38.7
Q ss_pred CCcEEeccCCcchHHHHHHHHHHh---hCccc-------cccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCC
Q 002563 233 GDMIVDFCCGANDFSCLMKKKLDE---TGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNP 302 (907)
Q Consensus 233 GDtiVDfcCG~NdFS~LMk~KLe~---~gK~C-------~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNP 302 (907)
+..|+|+|||+--|+..+.++... ++.+. .-+|... |...|...||...-++.+. +..=++-+||
T Consensus 87 ~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~----~~~~~~~~D~~~~l~~~~~-~~fDlVv~NP 161 (251)
T TIGR03704 87 TLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLAD----AGGTVHEGDLYDALPTALR-GRVDILAANA 161 (251)
T ss_pred CCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHH----cCCEEEEeechhhcchhcC-CCEeEEEECC
Confidence 357999999999999887654321 11111 1233322 2246777888764443332 3323344599
Q ss_pred Ccc
Q 002563 303 PFG 305 (907)
Q Consensus 303 PFG 305 (907)
||-
T Consensus 162 Py~ 164 (251)
T TIGR03704 162 PYV 164 (251)
T ss_pred CCC
Confidence 985
No 35
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=86.87 E-value=0.95 Score=48.51 Aligned_cols=115 Identities=12% Similarity=0.215 Sum_probs=62.6
Q ss_pred hhhhHHHHHHhhcccccC-CCcEEeccCCcchHHHHHHHHHHh-hCc-------cccccccccCCCCCCccccccccccc
Q 002563 215 KVDKLQAIVDKLHWYVND-GDMIVDFCCGANDFSCLMKKKLDE-TGK-------NCLYKNYDILPAKNDFNFEKRDWMTV 285 (907)
Q Consensus 215 K~ekL~eIvdkLhwyV~~-GDtiVDfcCG~NdFS~LMk~KLe~-~gK-------~C~fKNyDliqpKN~fnFEkrDWmtV 285 (907)
+.+-.+.+++.+..+++. +..|+|++||...|+..+.++... ++. .+.=+|..+-.- ++..|...|..+.
T Consensus 188 N~~~~e~l~~~v~~~~~~~~~~vLDl~~G~G~~sl~la~~~~~v~~vE~~~~ai~~a~~N~~~~~~-~~v~~~~~d~~~~ 266 (362)
T PRK05031 188 NAAVNEKMLEWALDATKGSKGDLLELYCGNGNFTLALARNFRRVLATEISKPSVAAAQYNIAANGI-DNVQIIRMSAEEF 266 (362)
T ss_pred CHHHHHHHHHHHHHHhhcCCCeEEEEeccccHHHHHHHhhCCEEEEEECCHHHHHHHHHHHHHhCC-CcEEEEECCHHHH
Confidence 344566777777777763 457999999999999988764220 000 111133322221 1344555554442
Q ss_pred cCC-----CC--CC-----C-CeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCcc
Q 002563 286 EPK-----EL--AP-----G-SRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET 334 (907)
Q Consensus 286 qp~-----EL--P~-----G-s~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeT 334 (907)
-++ ++ +. + ..=++-|+||. +.+..+.|...++. .++|++=.-|.|
T Consensus 267 l~~~~~~~~~~~~~~~~~~~~~~D~v~lDPPR---~G~~~~~l~~l~~~-~~ivyvSC~p~t 324 (362)
T PRK05031 267 TQAMNGVREFNRLKGIDLKSYNFSTIFVDPPR---AGLDDETLKLVQAY-ERILYISCNPET 324 (362)
T ss_pred HHHHhhcccccccccccccCCCCCEEEECCCC---CCCcHHHHHHHHcc-CCEEEEEeCHHH
Confidence 111 00 01 1 11255579995 57889998888773 355554444544
No 36
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=85.13 E-value=1.5 Score=46.51 Aligned_cols=117 Identities=21% Similarity=0.346 Sum_probs=73.5
Q ss_pred cccCcccchhhh-HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh-----hCccc---------cccccccCCC
Q 002563 207 TSFGRHFTKVDK-LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-----TGKNC---------LYKNYDILPA 271 (907)
Q Consensus 207 TSfGRHFTK~ek-L~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~-----~gK~C---------~fKNyDliqp 271 (907)
-+||.||..-.. +.+||+... ++++|+||+.-+|--.+-.-|-++... ....| .+.|++||.
T Consensus 6 K~~GQnFL~d~~v~~kIv~~a~--~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~~l~~~L~~~~~~~~n~~vi~- 82 (259)
T COG0030 6 KRLGQNFLIDKNVIDKIVEAAN--ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDRRLAEVLKERFAPYDNLTVIN- 82 (259)
T ss_pred CCcccccccCHHHHHHHHHhcC--CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCHHHHHHHHHhcccccceEEEe-
Confidence 489999976544 577887764 567999999999999887665433221 00000 355666664
Q ss_pred CCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCc--EEEEecCCc-ccccccc
Q 002563 272 KNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPK--LLILIVPPE-TERLDRK 340 (907)
Q Consensus 272 KN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPK--LIILIvPpe-TeRLD~K 340 (907)
.|-|.++..+|- +...|+| |.||. ++..+|-|.|+..+. -.++.+=.| -+||=.+
T Consensus 83 --------~DaLk~d~~~l~-~~~~vVa-NlPY~----Isspii~kll~~~~~~~~~v~M~QkEva~Rl~A~ 140 (259)
T COG0030 83 --------GDALKFDFPSLA-QPYKVVA-NLPYN----ISSPILFKLLEEKFIIQDMVLMVQKEVAERLVAK 140 (259)
T ss_pred --------CchhcCcchhhc-CCCEEEE-cCCCc----ccHHHHHHHHhccCccceEEEEeHHHHHHHHhCC
Confidence 444555555544 6668888 99999 566666666666654 445544333 3444433
No 37
>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=84.00 E-value=1.2 Score=44.06 Aligned_cols=51 Identities=12% Similarity=0.051 Sum_probs=45.2
Q ss_pred cccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 203 GMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 203 G~RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
|.+|+.-+|...-+.+..+.+.++...+.++++|+|+.||.-.+...|.+.
T Consensus 14 g~~~~~rn~~~~~~~~~~~~~~~~l~~~~~~~~VLDiGCG~G~~~~~L~~~ 64 (204)
T TIGR03587 14 GKEYIDRNSRQSLVAAKLAMFARALNRLPKIASILELGANIGMNLAALKRL 64 (204)
T ss_pred cchhhhccccHHHHHHHHHHHHHHHHhcCCCCcEEEEecCCCHHHHHHHHh
Confidence 779999999888888887888888888999999999999999999988664
No 38
>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=83.27 E-value=0.95 Score=46.44 Aligned_cols=68 Identities=16% Similarity=0.218 Sum_probs=39.7
Q ss_pred CcEEeccCCcchHHHHHHHHHHh---hCccc-------cccccccCCCCCCccccccccccccCCCCCCC-CeeeeeeCC
Q 002563 234 DMIVDFCCGANDFSCLMKKKLDE---TGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPG-SRLIMGLNP 302 (907)
Q Consensus 234 DtiVDfcCG~NdFS~LMk~KLe~---~gK~C-------~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~G-s~LIMGLNP 302 (907)
..|+|+|||+--+...+...+.. ++.+. --+|.....-.+...|...||+.. ++.. =-+|+. ||
T Consensus 116 ~~vLDlG~GsG~i~l~la~~~~~~~v~avDis~~al~~a~~n~~~~~~~~~v~~~~~d~~~~----~~~~~fDlIvs-NP 190 (284)
T TIGR00536 116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEP----LAGQKIDIIVS-NP 190 (284)
T ss_pred CEEEEEeccHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhcc----CcCCCccEEEE-CC
Confidence 68999999999998888664321 11111 113332222234578888898763 2321 235554 99
Q ss_pred Cccc
Q 002563 303 PFGV 306 (907)
Q Consensus 303 PFG~ 306 (907)
||--
T Consensus 191 Pyi~ 194 (284)
T TIGR00536 191 PYID 194 (284)
T ss_pred CCCC
Confidence 9853
No 39
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=81.51 E-value=9.6 Score=35.46 Aligned_cols=109 Identities=17% Similarity=0.266 Sum_probs=65.3
Q ss_pred hhhhHHHHHHhhccc---ccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCC----------------CCCCc
Q 002563 215 KVDKLQAIVDKLHWY---VNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP----------------AKNDF 275 (907)
Q Consensus 215 K~ekL~eIvdkLhwy---V~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq----------------pKN~f 275 (907)
.++.+.++++.+.-. ..+..+|||||||---.++++-..|......+..--.|.=+ -.+.+
T Consensus 5 Ei~~~~~~i~~~~~~~~~~~~~~~vvD~GsG~GyLs~~La~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~ 84 (141)
T PF13679_consen 5 EIERMAELIDSLCDSVGESKRCITVVDLGSGKGYLSRALAHLLCNSSPNLRVLGIDCNESLVESAQKRAQKLGSDLEKRL 84 (141)
T ss_pred HHHHHHHHHHHHHHHhhccCCCCEEEEeCCChhHHHHHHHHHHHhcCCCCeEEEEECCcHHHHHHHHHHHHhcchhhccc
Confidence 345566666666544 46788899999999999999988666554444433333211 11334
Q ss_pred cccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecC
Q 002563 276 NFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVP 331 (907)
Q Consensus 276 nFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvP 331 (907)
.|.+-+.-... ...+..+++||-. =+.|+-.-|..+..-+.+.|+ +||
T Consensus 85 ~~~~~~~~~~~---~~~~~~~~vgLHa----CG~Ls~~~l~~~~~~~~~~l~-~vp 132 (141)
T PF13679_consen 85 SFIQGDIADES---SSDPPDILVGLHA----CGDLSDRALRLFIRPNARFLV-LVP 132 (141)
T ss_pred hhhccchhhhc---ccCCCeEEEEeec----ccchHHHHHHHHHHcCCCEEE-EcC
Confidence 44433322221 1566678888764 346888888888883344443 344
No 40
>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=81.17 E-value=2 Score=38.16 Aligned_cols=36 Identities=19% Similarity=0.433 Sum_probs=30.3
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563 217 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 217 ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
+.+.+++.+|..+..++..|+|+-||...|+..|++
T Consensus 7 ~~~~~~~~~~~~~~~~~~~vLDiGcG~G~~~~~l~~ 42 (161)
T PF13489_consen 7 RAYADLLERLLPRLKPGKRVLDIGCGTGSFLRALAK 42 (161)
T ss_dssp HCHHHHHHHHHTCTTTTSEEEEESSTTSHHHHHHHH
T ss_pred HHHHHHHHHHhcccCCCCEEEEEcCCCCHHHHHHHH
Confidence 345667777877789999999999999999999955
No 41
>COG0286 HsdM Type I restriction-modification system methyltransferase subunit [Defense mechanisms]
Probab=80.20 E-value=2.1 Score=48.07 Aligned_cols=49 Identities=22% Similarity=0.278 Sum_probs=43.7
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhC
Q 002563 208 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETG 258 (907)
Q Consensus 208 SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~g 258 (907)
+.|.+||-.+-.+=||+.|-. +++++|.|.|||+-.|.....+.+.+..
T Consensus 164 ~~GEfyTP~~v~~liv~~l~~--~~~~~i~DpacGsgg~l~~a~~~~~~~~ 212 (489)
T COG0286 164 EAGEFYTPREVSELIVELLDP--EPRNSIYDPACGSGGMLLQAAKYLKRHQ 212 (489)
T ss_pred CCCccCChHHHHHHHHHHcCC--CCCCeecCCCCchhHHHHHHHHHHHhhc
Confidence 789999999999999999988 9999999999999999988888776533
No 42
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=79.24 E-value=0.85 Score=49.85 Aligned_cols=89 Identities=29% Similarity=0.399 Sum_probs=51.3
Q ss_pred hhcccccCCCcEEeccCCcchHHHHHHHHHHhh----Ccc-----ccccccccCCCCCCccccccccccccCCCCCCCCe
Q 002563 225 KLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET----GKN-----CLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSR 295 (907)
Q Consensus 225 kLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~----gK~-----C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~ 295 (907)
|+--.|.+|++|||+-+|---||-.+-++-... .++ |.=+|--|=.-++....---|=-.|-+ +++..+.
T Consensus 181 Rva~~v~~GE~V~DmFAGVGpfsi~~Ak~g~~~V~A~diNP~A~~~L~eNi~LN~v~~~v~~i~gD~rev~~-~~~~aDr 259 (341)
T COG2520 181 RVAELVKEGETVLDMFAGVGPFSIPIAKKGRPKVYAIDINPDAVEYLKENIRLNKVEGRVEPILGDAREVAP-ELGVADR 259 (341)
T ss_pred HHHhhhcCCCEEEEccCCcccchhhhhhcCCceEEEEecCHHHHHHHHHHHHhcCccceeeEEeccHHHhhh-ccccCCE
Confidence 455567789999999999999998876643331 111 112222221112211111111111222 2377899
Q ss_pred eeeeeCCCccchhhhHHHHHHhhhcc
Q 002563 296 LIMGLNPPFGVKAGLANKFINKALEF 321 (907)
Q Consensus 296 LIMGLNPPFG~kA~LANKFIdkAL~F 321 (907)
+||| .|+ .|-+|+..|++.
T Consensus 260 Iim~-~p~------~a~~fl~~A~~~ 278 (341)
T COG2520 260 IIMG-LPK------SAHEFLPLALEL 278 (341)
T ss_pred EEeC-CCC------cchhhHHHHHHH
Confidence 9999 555 678999999864
No 43
>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=78.25 E-value=1.2 Score=45.35 Aligned_cols=56 Identities=21% Similarity=0.421 Sum_probs=19.9
Q ss_pred HHhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563 182 VLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 182 vL~QL~rwk~kLkvYLAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
..+++....|.+. +--|||.|---..++.+++ -+.+|++|+|+|||.-+++..+-+
T Consensus 12 ~Fd~ia~~YD~~n----------~~ls~g~~~~wr~~~~~~~-----~~~~g~~vLDv~~GtG~~~~~l~~ 67 (233)
T PF01209_consen 12 MFDRIAPRYDRMN----------DLLSFGQDRRWRRKLIKLL-----GLRPGDRVLDVACGTGDVTRELAR 67 (233)
T ss_dssp -----------------------------------SHHHHHH-----T--S--EEEEET-TTSHHHHHHGG
T ss_pred HHHHHHHHhCCCc----------cccCCcHHHHHHHHHHhcc-----CCCCCCEEEEeCCChHHHHHHHHH
Confidence 3456666666654 4468887765555554443 368999999999999999988744
No 44
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=78.01 E-value=7.6 Score=37.72 Aligned_cols=44 Identities=11% Similarity=0.293 Sum_probs=34.3
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 208 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 208 SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
.+|+..+.++-...+.+.|. +++++.|+|++||.-.++.+|.+.
T Consensus 56 ~~~~~~~~p~~~~~l~~~l~--~~~~~~VLeiG~GsG~~t~~la~~ 99 (212)
T PRK00312 56 GCGQTISQPYMVARMTELLE--LKPGDRVLEIGTGSGYQAAVLAHL 99 (212)
T ss_pred CCCCeeCcHHHHHHHHHhcC--CCCCCEEEEECCCccHHHHHHHHH
Confidence 45666778777777776665 578999999999999999887653
No 45
>PLN02672 methionine S-methyltransferase
Probab=77.98 E-value=5.4 Score=49.46 Aligned_cols=149 Identities=13% Similarity=0.121 Sum_probs=77.3
Q ss_pred HHHHHHHHHhhcccCCCChhhhhhccChhHHhHHHHH-----------hh-ccccccccccccccccccCcccc------
Q 002563 153 SVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKW-----------KN-KLKVYLAPFLHGMRYTSFGRHFT------ 214 (907)
Q Consensus 153 SVqAvr~AL~kLe~~G~siedAKAvCeP~vL~QL~rw-----------k~-kLkvYLAPfLhG~RYTSfGRHFT------ 214 (907)
.-+|.|..|++|+ +-.+--+|.+.- ..|...+.- += -=.|+|.|.- |.+ -=||+-|.
T Consensus 22 ~~~~~~~~~~~~~-~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-G~~-~F~~l~~~V~p~VL 96 (1082)
T PLN02672 22 AYGAFKGVLERLE-DPTTRSDARKLL--SAVEKRVAASEAGEDCFATYHFRIHDLVLDDYE-GFR-NRKKLTMMEIPSIF 96 (1082)
T ss_pred HHHHHHHHHHHhc-CccccHHHHHHH--HHHHHHhcccCcccchhhhcceEEeeEEEcCCC-CeE-EecCCceeeCCCcc
Confidence 4567777777777 555555554432 112222211 11 1246788766 655 33555553
Q ss_pred ----hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh---hCccc-------cccccccC-----------
Q 002563 215 ----KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE---TGKNC-------LYKNYDIL----------- 269 (907)
Q Consensus 215 ----K~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~---~gK~C-------~fKNyDli----------- 269 (907)
-.|.|.+..++...-.-.|.+|+|+|||+--.+..+.++... ++.+. --+|-.+-
T Consensus 97 IPRpeTE~lve~L~~~~~~~~~~~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~~~ 176 (1082)
T PLN02672 97 IPEDWSFTFYEGLNRHPDSIFRDKTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPVYD 176 (1082)
T ss_pred cCchhHHHHHHHHHhcccccCCCCEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCcccccccccc
Confidence 123333332222111113568999999999999988775431 11111 12333321
Q ss_pred ----CCCCCccccccccccccCCCCCCCCeeeeeeCCCccchh
Q 002563 270 ----PAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKA 308 (907)
Q Consensus 270 ----qpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA 308 (907)
...+...|...||++.-+. ...-=-||++ |||+=..+
T Consensus 177 ~~~~~l~~rV~f~~sDl~~~~~~-~~~~fDlIVS-NPPYI~~~ 217 (1082)
T PLN02672 177 GEGKTLLDRVEFYESDLLGYCRD-NNIELDRIVG-CIPQILNP 217 (1082)
T ss_pred cccccccccEEEEECchhhhccc-cCCceEEEEE-CCCcCCCc
Confidence 0124689999999864321 1001247888 99986444
No 46
>KOG2904 consensus Predicted methyltransferase [General function prediction only]
Probab=77.37 E-value=8.7 Score=42.37 Aligned_cols=264 Identities=16% Similarity=0.197 Sum_probs=148.3
Q ss_pred ccccccCCCCchHHHHH-----HHHHHHHhhccccHHHHHHhccCCCcccccccc-ccccchhccchhhHHHHHHHHHhh
Q 002563 90 KKLISELPSLDEDSKRR-----LSSLMKDAASSVRMEEILKRHKIPSTHAYASKS-AVDKAITLGKVEGSVEAIRTALKK 163 (907)
Q Consensus 90 k~~~Ss~P~~Da~terR-----llaL~kEaaSsiTledV~kk~~~pSth~~~~rn-vvdk~IT~GKlEgSVqAvr~AL~k 163 (907)
+.|.-+.-++++..+.+ +++-.++..+.++-+.+.+ |.++--. .+.+. .+|.-++-+.||..+.|++.-++.
T Consensus 23 ~~P~p~hat~~sal~~~~~W~~~l~~~~~e~~k~~~~~i~s-hvL~~Kf-~si~ds~~~~pl~~~ql~~i~~~~~~R~~r 100 (328)
T KOG2904|consen 23 IRPTPSHATSLSALELLLPWTRTLEQAGEESSKLSYKWIVS-HVLPDKF-WSIEDSIVDDPLVILQLESIRWACLQRYKR 100 (328)
T ss_pred CCCCCccCccchhhHhhchHHHHHHHhcCchhhhhhHHHHH-hhhhhhh-ccccchhhccccchhHHHHHHHHHHHHHhc
Confidence 44444555566666555 5555555555566555543 2222111 11122 255667788899999998875553
Q ss_pred ccc---CC-CChhhhhhccChhHHhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEec
Q 002563 164 LDV---DG-SSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDF 239 (907)
Q Consensus 164 Le~---~G-~siedAKAvCeP~vL~QL~rwk~kLkvYLAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDf 239 (907)
.-. -| -...|-..+|.|.|| |=||+-..= +|-..+-+.+.-|+. |+.|+|.
T Consensus 101 ~PlQYIlg~~~F~~l~l~~~pgVl--IPRpETEE~---------------------V~~Vid~~~~~~~~~--~~~ildl 155 (328)
T KOG2904|consen 101 MPLQYILGSQPFGDLDLVCKPGVL--IPRPETEEW---------------------VEAVIDALNNSEHSK--HTHILDL 155 (328)
T ss_pred CChhheeccCccCCceEEecCCee--ecCccHHHH---------------------HHHHHHHHhhhhhcc--cceEEEe
Confidence 210 01 124567889999997 667773221 333444455566664 5589999
Q ss_pred cCCcchHHHHHHHHHHhhCccccccccccCCC--------------CCCc---cc-cccccccccCCCCCCCCeeeeeeC
Q 002563 240 CCGANDFSCLMKKKLDETGKNCLYKNYDILPA--------------KNDF---NF-EKRDWMTVEPKELAPGSRLIMGLN 301 (907)
Q Consensus 240 cCG~NdFS~LMk~KLe~~gK~C~fKNyDliqp--------------KN~f---nF-EkrDWmtVqp~ELP~Gs~LIMGLN 301 (907)
|||+.--|--|-. ..+ .|.+-.-|+=.. .+.+ || -..||..-- +|+.|..-++-=|
T Consensus 156 gtGSGaIslsll~---~L~-~~~v~AiD~S~~Ai~La~eN~qr~~l~g~i~v~~~~me~d~~~~~--~l~~~~~dllvsN 229 (328)
T KOG2904|consen 156 GTGSGAISLSLLH---GLP-QCTVTAIDVSKAAIKLAKENAQRLKLSGRIEVIHNIMESDASDEH--PLLEGKIDLLVSN 229 (328)
T ss_pred cCCccHHHHHHHh---cCC-CceEEEEeccHHHHHHHHHHHHHHhhcCceEEEeccccccccccc--ccccCceeEEecC
Confidence 9999999887733 334 566555444222 2222 22 245666543 3777877666669
Q ss_pred CCccchhhhHHHHHH-hhhccCCcEEEEecCCccccccccCCCceeeeccccccCCcceecCCCcccCchhhcccccCCC
Q 002563 302 PPFGVKAGLANKFIN-KALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAP 380 (907)
Q Consensus 302 PPFG~kA~LANKFId-kAL~FkPKLIILIvPpeTeRLD~K~~pY~LiWED~~~LsGkSFYlPGSVDvnDKqieqWN~vPP 380 (907)
||+=.+-. +.|++ .+-.|.||| -||++..+|+.+.-.-++ -.--..||.+-. =.+...+.-|+
T Consensus 230 PPYI~~dD--~~~l~~eV~~yEp~l----------ALdGg~eG~~~~~~~~~~--a~R~Lq~gg~~~--le~~~~~~~~~ 293 (328)
T KOG2904|consen 230 PPYIRKDD--NRQLKPEVRLYEPKL----------ALDGGLEGYDNLVHYWLL--ATRMLQPGGFEQ--LELVERKEHSY 293 (328)
T ss_pred CCcccccc--hhhcCchheecCchh----------hhccccchhHHHHHHHHh--hHhhcccCCeEE--EEecccccCcH
Confidence 99987766 44432 233344443 388888888765433222 111223442110 00111145688
Q ss_pred CeeeeecchhHHHHHHHHHHhC
Q 002563 381 PLYLWSRHDYAAHHKALAEKHG 402 (907)
Q Consensus 381 pLyLWSRpDwt~kH~~IA~khG 402 (907)
....|.-.++-.....+|-..+
T Consensus 294 lv~~~m~s~~~d~~~~~~v~~D 315 (328)
T KOG2904|consen 294 LVRIWMISLKDDSNGKAAVVSD 315 (328)
T ss_pred HHHHHHHhchhhccchhheeec
Confidence 8888888877777777665544
No 47
>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=75.97 E-value=2.4 Score=41.22 Aligned_cols=35 Identities=26% Similarity=0.384 Sum_probs=27.3
Q ss_pred HHHHHHhhccccc----CCCcEEeccCCcchHHHHHHHH
Q 002563 219 LQAIVDKLHWYVN----DGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 219 L~eIvdkLhwyV~----~GDtiVDfcCG~NdFS~LMk~K 253 (907)
...+++++.++++ .+++|+|++||.-.|+..+.++
T Consensus 38 ~~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~~ 76 (219)
T TIGR02021 38 RAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAKR 76 (219)
T ss_pred HHHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHHC
Confidence 3456666777766 4889999999999999888653
No 48
>PRK14968 putative methyltransferase; Provisional
Probab=75.30 E-value=8.5 Score=35.53 Aligned_cols=23 Identities=17% Similarity=0.367 Sum_probs=20.0
Q ss_pred cCCCcEEeccCCcchHHHHHHHH
Q 002563 231 NDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
.+|+.|+|++||.--++..+.+.
T Consensus 22 ~~~~~vLd~G~G~G~~~~~l~~~ 44 (188)
T PRK14968 22 KKGDRVLEVGTGSGIVAIVAAKN 44 (188)
T ss_pred cCCCEEEEEccccCHHHHHHHhh
Confidence 78999999999999998887553
No 49
>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=74.86 E-value=3.3 Score=40.12 Aligned_cols=44 Identities=27% Similarity=0.533 Sum_probs=31.0
Q ss_pred cccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 205 RYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 205 RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
.+.||+++....+ +++.+| -+++|++|+|++||...+.+.|.+.
T Consensus 23 ~~~~~~~~~~~~~---~~l~~l--~~~~~~~vLDiGcG~G~~~~~la~~ 66 (231)
T TIGR02752 23 SVISFQRHKKWRK---DTMKRM--NVQAGTSALDVCCGTADWSIALAEA 66 (231)
T ss_pred HHhcCCchHHHHH---HHHHhc--CCCCCCEEEEeCCCcCHHHHHHHHH
Confidence 3456666654443 344443 3678999999999999999988664
No 50
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=74.68 E-value=2.4 Score=47.69 Aligned_cols=83 Identities=16% Similarity=0.278 Sum_probs=45.8
Q ss_pred HHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh---hCcccc-------ccccccCCCCCCccccccccccccCCC
Q 002563 220 QAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE---TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKE 289 (907)
Q Consensus 220 ~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~---~gK~C~-------fKNyDliqpKN~fnFEkrDWmtVqp~E 289 (907)
+.+++.+.-.+.++.+|+|+|||+-.++..+.++.-. ++.+.+ =+|..... .+..|...||++..
T Consensus 239 E~LVe~aL~~l~~~~rVLDLGcGSG~IaiaLA~~~p~a~VtAVDiS~~ALe~AreNa~~~g--~rV~fi~gDl~e~~--- 313 (423)
T PRK14966 239 EHLVEAVLARLPENGRVWDLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLG--ARVEFAHGSWFDTD--- 313 (423)
T ss_pred HHHHHHhhhccCCCCEEEEEeChhhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcC--CcEEEEEcchhccc---
Confidence 3444444434567789999999999999876543211 111111 12222111 24678888886532
Q ss_pred CC-CCCeeeeeeCCCccch
Q 002563 290 LA-PGSRLIMGLNPPFGVK 307 (907)
Q Consensus 290 LP-~Gs~LIMGLNPPFG~k 307 (907)
++ .++.=++-.||||-..
T Consensus 314 l~~~~~FDLIVSNPPYI~~ 332 (423)
T PRK14966 314 MPSEGKWDIIVSNPPYIEN 332 (423)
T ss_pred cccCCCccEEEECCCCCCc
Confidence 12 2333344469998643
No 51
>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=73.36 E-value=4.2 Score=39.05 Aligned_cols=30 Identities=23% Similarity=0.696 Sum_probs=23.4
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563 219 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 219 L~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
|+++.+ ++.++++|+|+.||.-.|...+.+
T Consensus 4 ~~~i~~----~i~~~~~iLDiGcG~G~~~~~l~~ 33 (194)
T TIGR02081 4 LESILN----LIPPGSRVLDLGCGDGELLALLRD 33 (194)
T ss_pred HHHHHH----hcCCCCEEEEeCCCCCHHHHHHHh
Confidence 444444 456899999999999999988754
No 52
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=73.18 E-value=5.3 Score=44.06 Aligned_cols=122 Identities=16% Similarity=0.131 Sum_probs=66.9
Q ss_pred ccccccCcccchhhhHHHHHHhhcccccC--CCcEEeccCCcchHHHHHHHHHH---hhCcccccc-------ccccCCC
Q 002563 204 MRYTSFGRHFTKVDKLQAIVDKLHWYVND--GDMIVDFCCGANDFSCLMKKKLD---ETGKNCLYK-------NYDILPA 271 (907)
Q Consensus 204 ~RYTSfGRHFTK~ekL~eIvdkLhwyV~~--GDtiVDfcCG~NdFS~LMk~KLe---~~gK~C~fK-------NyDliqp 271 (907)
..+.+..--|.. ++|-.=.+-|.-++.. +..|||++||.-..+..+.++.- -++.+.++. |+..-.+
T Consensus 199 ~~~~~~~gVFs~-~~LD~GtrllL~~lp~~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~~ 277 (378)
T PRK15001 199 WTIHNHANVFSR-TGLDIGARFFMQHLPENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMP 277 (378)
T ss_pred EEEEecCCccCC-CCcChHHHHHHHhCCcccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCc
Confidence 344566666764 3444333334444432 45899999999999988877532 223333332 3322222
Q ss_pred C--CCccccccccccccCCCCCCCCeeeeeeCCCccch----hhhHHHHHHhhhc-cCCcEEEEec
Q 002563 272 K--NDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVK----AGLANKFINKALE-FNPKLLILIV 330 (907)
Q Consensus 272 K--N~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~k----A~LANKFIdkAL~-FkPKLIILIv 330 (907)
. ...+|...|.++ .++.++.=++-.||||-.. ..+|.+|+..|.. -+|.=.++||
T Consensus 278 ~~~~~v~~~~~D~l~----~~~~~~fDlIlsNPPfh~~~~~~~~ia~~l~~~a~~~LkpGG~L~iV 339 (378)
T PRK15001 278 EALDRCEFMINNALS----GVEPFRFNAVLCNPPFHQQHALTDNVAWEMFHHARRCLKINGELYIV 339 (378)
T ss_pred ccCceEEEEEccccc----cCCCCCEEEEEECcCcccCccCCHHHHHHHHHHHHHhcccCCEEEEE
Confidence 1 245666666654 2333333334449999643 3578899877763 3555444444
No 53
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=72.96 E-value=5.2 Score=39.20 Aligned_cols=45 Identities=9% Similarity=0.300 Sum_probs=36.2
Q ss_pred cCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHH
Q 002563 209 FGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD 255 (907)
Q Consensus 209 fGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe 255 (907)
+|++++.+.....+++.|- +++|+.|+|+.||.--++.+|-++..
T Consensus 56 ~~~~~~~p~~~~~~~~~l~--~~~~~~VLDiG~GsG~~a~~la~~~~ 100 (215)
T TIGR00080 56 YGQTISAPHMVAMMTELLE--LKPGMKVLEIGTGSGYQAAVLAEIVG 100 (215)
T ss_pred CCCEechHHHHHHHHHHhC--CCCcCEEEEECCCccHHHHHHHHHhC
Confidence 3677777776777777764 78999999999999999998877543
No 54
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=72.84 E-value=4.5 Score=40.07 Aligned_cols=45 Identities=9% Similarity=0.372 Sum_probs=38.5
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 208 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 208 SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
-+|++-+.+.-+..+++.|. +++|++|+|++||.--++.+|.+.+
T Consensus 54 ~~g~~~~~p~~~~~~~~~l~--~~~g~~VLdIG~GsG~~t~~la~~~ 98 (212)
T PRK13942 54 GYGQTISAIHMVAIMCELLD--LKEGMKVLEIGTGSGYHAAVVAEIV 98 (212)
T ss_pred CCCCEeCcHHHHHHHHHHcC--CCCcCEEEEECCcccHHHHHHHHhc
Confidence 35788888888888888885 6899999999999999999997744
No 55
>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=71.50 E-value=6.3 Score=33.61 Aligned_cols=36 Identities=19% Similarity=0.309 Sum_probs=26.5
Q ss_pred hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563 215 KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 215 K~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
+.+....+++.| ++.+++.|+|+.||...+...+-+
T Consensus 4 ~~~~~~~~~~~~--~~~~~~~vldlG~G~G~~~~~l~~ 39 (124)
T TIGR02469 4 KREVRALTLSKL--RLRPGDVLWDIGAGSGSITIEAAR 39 (124)
T ss_pred hHHHHHHHHHHc--CCCCCCEEEEeCCCCCHHHHHHHH
Confidence 334444455554 567889999999999999987755
No 56
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=71.14 E-value=5.2 Score=39.22 Aligned_cols=45 Identities=9% Similarity=0.203 Sum_probs=35.8
Q ss_pred cCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHH
Q 002563 209 FGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD 255 (907)
Q Consensus 209 fGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe 255 (907)
+|++++.+..+..+.+.|- +.+|+.|+|+.||.--++.+|.+++.
T Consensus 51 ~~~~~~~p~~~~~~~~~l~--~~~~~~VLDiG~GsG~~~~~la~~~~ 95 (205)
T PRK13944 51 AGATISAPHMVAMMCELIE--PRPGMKILEVGTGSGYQAAVCAEAIE 95 (205)
T ss_pred CCCEechHHHHHHHHHhcC--CCCCCEEEEECcCccHHHHHHHHhcC
Confidence 5677777777777777664 57899999999999999999877553
No 57
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=71.11 E-value=14 Score=40.05 Aligned_cols=21 Identities=24% Similarity=0.564 Sum_probs=18.3
Q ss_pred CCcEEeccCCcchHHHHHHHH
Q 002563 233 GDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 233 GDtiVDfcCG~NdFS~LMk~K 253 (907)
...|+||.||.-.++..+.++
T Consensus 197 ~g~VLDlGCG~G~ls~~la~~ 217 (342)
T PRK09489 197 KGKVLDVGCGAGVLSAVLARH 217 (342)
T ss_pred CCeEEEeccCcCHHHHHHHHh
Confidence 457999999999999988775
No 58
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=69.68 E-value=5.5 Score=41.26 Aligned_cols=44 Identities=27% Similarity=0.374 Sum_probs=40.1
Q ss_pred hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCc
Q 002563 215 KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGK 259 (907)
Q Consensus 215 K~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK 259 (907)
-..||.||.+|- -.+.+|+.|||+|+-=-.||+...+++.+.++
T Consensus 29 Aa~KL~el~~k~-~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ 72 (205)
T COG0293 29 AAYKLLELNEKF-KLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGK 72 (205)
T ss_pred HHHHHHHHHHhc-CeecCCCEEEEcCCCCCcHHHHHHHHhCCCCc
Confidence 357999999998 88999999999999999999999998888666
No 59
>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=69.55 E-value=5.8 Score=42.65 Aligned_cols=114 Identities=19% Similarity=0.362 Sum_probs=52.2
Q ss_pred hhhHHHHHHhhcccccC-CCcEEeccCCcchHHHHHHHHH-------------HhhCcccc---ccccccCCCCCCcccc
Q 002563 216 VDKLQAIVDKLHWYVND-GDMIVDFCCGANDFSCLMKKKL-------------DETGKNCL---YKNYDILPAKNDFNFE 278 (907)
Q Consensus 216 ~ekL~eIvdkLhwyV~~-GDtiVDfcCG~NdFS~LMk~KL-------------e~~gK~C~---fKNyDliqpKN~fnFE 278 (907)
.+-.+.+++.+.-++.+ ++.|+|++||.-.|+..|-++. ++..+.+. .+|..++.-. -.+|.
T Consensus 179 ~~~~~~l~~~~~~~l~~~~~~vlDlycG~G~fsl~la~~~~~V~gvE~~~~av~~A~~Na~~N~i~n~~f~~~~-~~~~~ 257 (352)
T PF05958_consen 179 PEQNEKLYEQALEWLDLSKGDVLDLYCGVGTFSLPLAKKAKKVIGVEIVEEAVEDARENAKLNGIDNVEFIRGD-AEDFA 257 (352)
T ss_dssp HHHHHHHHHHHHHHCTT-TTEEEEES-TTTCCHHHHHCCSSEEEEEES-HHHHHHHHHHHHHTT--SEEEEE---SHHCC
T ss_pred HHHHHHHHHHHHHHhhcCCCcEEEEeecCCHHHHHHHhhCCeEEEeeCCHHHHHHHHHHHHHcCCCcceEEEee-ccchh
Confidence 34555666665555554 3479999999999999985542 22222222 3344443311 11111
Q ss_pred -----ccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCcc
Q 002563 279 -----KRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET 334 (907)
Q Consensus 279 -----krDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeT 334 (907)
.|++-..+.-+|..-..=++-|+|| ++-+..++++.+..++ ++|-+=.=|.|
T Consensus 258 ~~~~~~r~~~~~~~~~~~~~~~d~vilDPP---R~G~~~~~~~~~~~~~-~ivYvSCnP~t 314 (352)
T PF05958_consen 258 KALAKAREFNRLKGIDLKSFKFDAVILDPP---RAGLDEKVIELIKKLK-RIVYVSCNPAT 314 (352)
T ss_dssp CHHCCS-GGTTGGGS-GGCTTESEEEE------TT-SCHHHHHHHHHSS-EEEEEES-HHH
T ss_pred HHHHhhHHHHhhhhhhhhhcCCCEEEEcCC---CCCchHHHHHHHhcCC-eEEEEECCHHH
Confidence 1111111111222111224457999 4557778888777663 65544444544
No 60
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=68.52 E-value=4 Score=43.75 Aligned_cols=22 Identities=18% Similarity=0.412 Sum_probs=19.0
Q ss_pred CCCcEEeccCCcchHHHHHHHH
Q 002563 232 DGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 232 ~GDtiVDfcCG~NdFS~LMk~K 253 (907)
+|.+|+|++||.-.++..+.++
T Consensus 144 ~~~~VLDlGcGtG~~a~~la~~ 165 (315)
T PLN02585 144 AGVTVCDAGCGTGSLAIPLALE 165 (315)
T ss_pred CCCEEEEecCCCCHHHHHHHHC
Confidence 5789999999999999887653
No 61
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=68.49 E-value=3.3 Score=46.67 Aligned_cols=72 Identities=11% Similarity=0.119 Sum_probs=41.0
Q ss_pred CCCcEEeccCCcchHHHHHHHHHH---hhCccccc-------cccccCCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 002563 232 DGDMIVDFCCGANDFSCLMKKKLD---ETGKNCLY-------KNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 301 (907)
Q Consensus 232 ~GDtiVDfcCG~NdFS~LMk~KLe---~~gK~C~f-------KNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLN 301 (907)
.+..|+|+|||+--++..+...+. -++.+.+- +|.....-.+...|...||++. ++.+..=++-.|
T Consensus 138 ~~~~VLDlG~GsG~iai~la~~~p~~~v~avDis~~al~~A~~N~~~~~l~~~v~~~~~D~~~~----~~~~~fDlIvsN 213 (506)
T PRK01544 138 KFLNILELGTGSGCIAISLLCELPNANVIATDISLDAIEVAKSNAIKYEVTDRIQIIHSNWFEN----IEKQKFDFIVSN 213 (506)
T ss_pred CCCEEEEccCchhHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHcCCccceeeeecchhhh----CcCCCccEEEEC
Confidence 456899999999999987755431 11222221 2221111124567888888752 333333344469
Q ss_pred CCccch
Q 002563 302 PPFGVK 307 (907)
Q Consensus 302 PPFG~k 307 (907)
|||-..
T Consensus 214 PPYi~~ 219 (506)
T PRK01544 214 PPYISH 219 (506)
T ss_pred CCCCCc
Confidence 999743
No 62
>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=67.99 E-value=6.6 Score=40.72 Aligned_cols=60 Identities=23% Similarity=0.341 Sum_probs=40.5
Q ss_pred HHhhcccccccccccccccc-----------------------cc--CcccchhhhHHHHHHhhcccccCCCcEEeccCC
Q 002563 188 KWKNKLKVYLAPFLHGMRYT-----------------------SF--GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCG 242 (907)
Q Consensus 188 rwk~kLkvYLAPfLhG~RYT-----------------------Sf--GRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG 242 (907)
-|.+.-|=|..|+=.|.|++ .| |.|-|..-+|+.+ .-|+.+|++|+|+.||
T Consensus 94 dW~~~w~~~~~p~~~g~~~~i~p~w~~~~~~~~~~~i~ldpg~aFgtG~h~tt~l~l~~l----~~~~~~g~~VLDvGcG 169 (288)
T TIGR00406 94 DWERAWKDNFHPVQFGKRFWICPSWRDVPSDEDALIIMLDPGLAFGTGTHPTTSLCLEWL----EDLDLKDKNVIDVGCG 169 (288)
T ss_pred hHHHHHHHhCCCEEEcCeEEEECCCcCCCCCCCcEEEEECCCCcccCCCCHHHHHHHHHH----HhhcCCCCEEEEeCCC
Confidence 45555555666776776443 24 4777766655543 3357799999999999
Q ss_pred cchHHHHHH
Q 002563 243 ANDFSCLMK 251 (907)
Q Consensus 243 ~NdFS~LMk 251 (907)
+--++..+.
T Consensus 170 sG~lai~aa 178 (288)
T TIGR00406 170 SGILSIAAL 178 (288)
T ss_pred hhHHHHHHH
Confidence 988776654
No 63
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=66.51 E-value=1.5 Score=44.67 Aligned_cols=99 Identities=28% Similarity=0.428 Sum_probs=53.8
Q ss_pred chhhhHHHHHHhhccccc--CCCcEEeccCCcchHH--HHHHHHHHhhCcccccccccc------CCCCCCccccc----
Q 002563 214 TKVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFS--CLMKKKLDETGKNCLYKNYDI------LPAKNDFNFEK---- 279 (907)
Q Consensus 214 TK~ekL~eIvdkLhwyV~--~GDtiVDfcCG~NdFS--~LMk~KLe~~gK~C~fKNyDl------iqpKN~fnFEk---- 279 (907)
|.++-....+.-+|--.- .|-.+.|+|||-.+.| +-|-+- -.| --||| |...|-..||=
T Consensus 28 T~p~iAasM~~~Ih~TygdiEgkkl~DLgcgcGmLs~a~sm~~~-----e~v--lGfDIdpeALEIf~rNaeEfEvqidl 100 (185)
T KOG3420|consen 28 TRPHIAASMLYTIHNTYGDIEGKKLKDLGCGCGMLSIAFSMPKN-----ESV--LGFDIDPEALEIFTRNAEEFEVQIDL 100 (185)
T ss_pred CcHHHHHHHHHHHHhhhccccCcchhhhcCchhhhHHHhhcCCC-----ceE--EeeecCHHHHHHHhhchHHhhhhhhe
Confidence 445555555555553322 2455899999877655 223110 011 11333 22355555552
Q ss_pred --cccccccCCCCCCCCeeeeeeCCCccchhhhH-HHHHHhhhccC
Q 002563 280 --RDWMTVEPKELAPGSRLIMGLNPPFGVKAGLA-NKFINKALEFN 322 (907)
Q Consensus 280 --rDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LA-NKFIdkAL~Fk 322 (907)
-|..+. |+..|-.=.-..|||||-|-.=| -.||++||+.-
T Consensus 101 Lqcdildl---e~~~g~fDtaviNppFGTk~~~aDm~fv~~al~~~ 143 (185)
T KOG3420|consen 101 LQCDILDL---ELKGGIFDTAVINPPFGTKKKGADMEFVSAALKVA 143 (185)
T ss_pred eeeeccch---hccCCeEeeEEecCCCCcccccccHHHHHHHHHHH
Confidence 233332 33345555566799999875545 57999999865
No 64
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=65.80 E-value=13 Score=43.48 Aligned_cols=67 Identities=21% Similarity=0.314 Sum_probs=35.1
Q ss_pred hhHHhHHHHHhhccccccccc---cccccccccCcccchhhhHHH-HHHhhcccccCCCcEEeccCCcchHH
Q 002563 180 PEVLSQIFKWKNKLKVYLAPF---LHGMRYTSFGRHFTKVDKLQA-IVDKLHWYVNDGDMIVDFCCGANDFS 247 (907)
Q Consensus 180 P~vL~QL~rwk~kLkvYLAPf---LhG~RYTSfGRHFTK~ekL~e-IvdkLhwyV~~GDtiVDfcCG~NdFS 247 (907)
|++.-.+..-++++.|||--. ||=.-|-.+.---.-.|.|-. ++..-.| ..+++.+||++||+--|.
T Consensus 135 pdv~i~~~~~~~~~~l~ld~sg~~L~rRgyr~~~~~Apl~etlAaa~l~~a~w-~~~~~~l~DP~CGSGTil 205 (702)
T PRK11783 135 PDIRINARLNKGEATISLDLSGESLHQRGYRQATGEAPLKENLAAAILLRSGW-PQEGTPLLDPMCGSGTLL 205 (702)
T ss_pred CCEEEEEEEeCCEEEEEEECCCCchhhccCccCCCCCCCcHHHHHHHHHHcCC-CCCCCeEEccCCCccHHH
Confidence 444334444456666665421 222224332222223444444 4433345 357899999999998875
No 65
>PF01555 N6_N4_Mtase: DNA methylase; InterPro: IPR002941 This domain is found in DNA methylases. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. This family contains both N-4 cytosine-specific DNA methylases and N-6 Adenine-specific DNA methylases. N-4 cytosine-specific DNA methylases (2.1.1.113 from EC) [] are enzymes that specifically methylate the amino group at the C-4 position of cytosines in DNA. Such enzymes are found as components of type II restriction-modification systems in prokaryotes. Such enzymes recognise a specific sequence in DNA and methylate a cytosine in that sequence. By this action they protect DNA from cleavage by type II restriction enzymes that recognise the same sequence. N-6 adenine-specific DNA methylases (2.1.1.72 from EC) (A-Mtase) are enzymes that specifically methylate the amino group at the C-6 position of adenines in DNA. Such enzymes are found in the three existing types of bacterial restriction-modification systems (in type I system the A-Mtase is the product of the hsdM gene, and in type III it is the product of the mod gene). All of these enzymes recognise a specific sequence in DNA and methylate an adenine in that sequence.; GO: 0003677 DNA binding, 0008170 N-methyltransferase activity, 0006306 DNA methylation; PDB: 2ZIF_A 2ZIE_A 2ZIG_A 1NW6_A 1NW8_A 1NW7_A 1NW5_A 1EG2_A 1BOO_A 1G60_B ....
Probab=64.88 E-value=4.3 Score=37.92 Aligned_cols=51 Identities=24% Similarity=0.346 Sum_probs=25.2
Q ss_pred cccccccccccccccc----Ccccch-hhhH-HHHHHhhcccccCCCcEEeccCCcchHH
Q 002563 194 KVYLAPFLHGMRYTSF----GRHFTK-VDKL-QAIVDKLHWYVNDGDMIVDFCCGANDFS 247 (907)
Q Consensus 194 kvYLAPfLhG~RYTSf----GRHFTK-~ekL-~eIvdkLhwyV~~GDtiVDfcCG~NdFS 247 (907)
.|+..+.+...+..+- +.|-|. +.+| +.+ +..+-++||+|+|+.||+..=.
T Consensus 150 ~~w~~~~~~~~~~~~~~~~~~~h~~~kP~~l~~~l---I~~~t~~gdiVlDpF~GSGTT~ 206 (231)
T PF01555_consen 150 DVWPFSIIPPSRKNSKGNTKGKHPTQKPVELIERL---IKASTNPGDIVLDPFAGSGTTA 206 (231)
T ss_dssp SEEE-SEEETTSTT--CHH----TT-S-HHHHHHH---HHHHS-TT-EEEETT-TTTHHH
T ss_pred cccccccccccccccccccccceeecCCHHHHHHH---HHhhhccceeeehhhhccChHH
Confidence 3444556666666654 356553 3333 223 3467899999999999997543
No 66
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=64.62 E-value=8.4 Score=39.46 Aligned_cols=51 Identities=16% Similarity=0.401 Sum_probs=36.7
Q ss_pred cccccccc---------ccCcccchh---hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563 200 FLHGMRYT---------SFGRHFTKV---DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 200 fLhG~RYT---------SfGRHFTK~---ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
||--.+|| -||..|-.+ +-.++++++| -+.++..|+|++||.-.++..|.+
T Consensus 10 ~~~~~~y~~~~~~~~e~~~g~~~~~~gg~~~~~~~l~~l--~l~~~~~VLDiGcG~G~~a~~la~ 72 (263)
T PTZ00098 10 YLENNQYSDEGIKAYEFIFGEDYISSGGIEATTKILSDI--ELNENSKVLDIGSGLGGGCKYINE 72 (263)
T ss_pred hhhccccccccchhHHHHhCCCCCCCCchHHHHHHHHhC--CCCCCCEEEEEcCCCChhhHHHHh
Confidence 45555666 477666666 4455666665 578999999999999998877743
No 67
>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=64.60 E-value=5.1 Score=37.90 Aligned_cols=38 Identities=18% Similarity=0.268 Sum_probs=30.3
Q ss_pred hhHHHHHHhhccccc-CCCcEEeccCCcchHHHHHHHHH
Q 002563 217 DKLQAIVDKLHWYVN-DGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 217 ekL~eIvdkLhwyV~-~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
.||.||.++..++-. .+.+|||+||+---|+..+-+++
T Consensus 7 ~KL~ei~~~~~~~~~~~~~~vlDlG~aPGGws~~~~~~~ 45 (181)
T PF01728_consen 7 FKLYEIDEKFKIFKPGKGFTVLDLGAAPGGWSQVLLQRG 45 (181)
T ss_dssp HHHHHHHHTTSSS-TTTTEEEEEET-TTSHHHHHHHTST
T ss_pred HHHHHHHHHCCCCCcccccEEEEcCCcccceeeeeeecc
Confidence 589999999985533 45889999999999999996654
No 68
>COG3802 GguC Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.85 E-value=3.6 Score=44.77 Aligned_cols=66 Identities=33% Similarity=0.630 Sum_probs=56.1
Q ss_pred CccchhhhHHHHHHhhh----------------ccCCcEEEEecCCccccccccCCCceeeeccccccCCcc--------
Q 002563 303 PFGVKAGLANKFINKAL----------------EFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKS-------- 358 (907)
Q Consensus 303 PFG~kA~LANKFIdkAL----------------~FkPKLIILIvPpeTeRLD~K~~pY~LiWED~~~LsGkS-------- 358 (907)
||-+--+|||.|-||.- .|-|.|+|=-+|.+.+-.-++.+.=++||| +-||||..
T Consensus 186 p~RlGfal~NEfSDHvtEr~NYL~LAHSKLR~as~GPEl~vG~lP~~vrG~SRI~Rdg~viwe-k~FlSGE~nMsHs~aN 264 (333)
T COG3802 186 PYRLGFALANEFSDHVTERVNYLYLAHSKLRNASFGPELLVGALPEDVRGVSRILRDGEVIWE-KPFLSGEANMSHSIAN 264 (333)
T ss_pred eeEEeeeecchhhhhhhhccceEEeehhhhhccccCcceeeccCchhhcCceeeecCCEEEEe-cccccCccchhhhhhh
Confidence 99999999999999974 589999999999998877778888899998 46888874
Q ss_pred ----------eecCCCcccCc
Q 002563 359 ----------FYLPGSVDEND 369 (907)
Q Consensus 359 ----------FYlPGSVDvnD 369 (907)
|--||.|+|+.
T Consensus 265 LEhhHFkY~lfrrpGDvHvh~ 285 (333)
T COG3802 265 LEHHHFKYALFRRPGDVHVHF 285 (333)
T ss_pred hhhhhhhhhhhcCCCceEEEE
Confidence 56788888764
No 69
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=63.71 E-value=8.6 Score=41.33 Aligned_cols=45 Identities=22% Similarity=0.259 Sum_probs=34.0
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccc
Q 002563 218 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYD 267 (907)
Q Consensus 218 kL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyD 267 (907)
.|+|+++.|- +++|+++||.+||.--++..+-+ ..+..|..--+|
T Consensus 7 ll~Evl~~L~--~~pg~~vlD~TlG~GGhS~~il~---~~~~~g~VigiD 51 (296)
T PRK00050 7 LLDEVVDALA--IKPDGIYVDGTFGGGGHSRAILE---RLGPKGRLIAID 51 (296)
T ss_pred cHHHHHHhhC--CCCCCEEEEeCcCChHHHHHHHH---hCCCCCEEEEEc
Confidence 4788888886 58999999999999999999944 444344444444
No 70
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=63.01 E-value=8 Score=41.73 Aligned_cols=35 Identities=26% Similarity=0.500 Sum_probs=31.1
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 217 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 217 ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
-||+.|.++|+ +++|++|+||-||--..+..+-++
T Consensus 59 ~k~~~~~~kl~--L~~G~~lLDiGCGWG~l~~~aA~~ 93 (283)
T COG2230 59 AKLDLILEKLG--LKPGMTLLDIGCGWGGLAIYAAEE 93 (283)
T ss_pred HHHHHHHHhcC--CCCCCEEEEeCCChhHHHHHHHHH
Confidence 47888999998 899999999999999998888665
No 71
>PF04405 ScdA_N: Domain of Unknown function (DUF542) ; InterPro: IPR007500 This is a domain of unknown function found at the N terminus of genes involved in cell wall development and nitrous oxide protection. ScdA is required for normal cell growth and development; mutants have an increased level of peptidoglycan cross-linking and aberrant cellular morphology suggesting a role for ScdA in cell wall metabolism []. NorA1, NorA2, and YtfE are involved in the nitrous oxide response. NorA1 and NorA2, which are similar to YtfE, are co-transcribed with the membrane-bound nitrous oxide (NO) reductases. The genes appear to be involved in NO protection but their function is unknown [, ].
Probab=62.57 E-value=4.9 Score=34.02 Aligned_cols=19 Identities=42% Similarity=1.097 Sum_probs=12.4
Q ss_pred EeccCCcchHHHHHHHHHHhhC
Q 002563 237 VDFCCGANDFSCLMKKKLDETG 258 (907)
Q Consensus 237 VDfcCG~NdFS~LMk~KLe~~g 258 (907)
+|||||.|. -+.+...+.|
T Consensus 24 IDfCCgG~~---~L~eA~~~~~ 42 (56)
T PF04405_consen 24 IDFCCGGNR---SLEEACEEKG 42 (56)
T ss_pred CcccCCCCc---hHHHHHHHcC
Confidence 899999985 4444444433
No 72
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=61.89 E-value=10 Score=36.22 Aligned_cols=36 Identities=19% Similarity=0.421 Sum_probs=29.4
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 218 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 218 kL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
+|.++.+++. .+++|++|+|++||.-.++..+.++.
T Consensus 19 ~~~~~~~~~~-~i~~g~~VLDiG~GtG~~~~~l~~~~ 54 (188)
T TIGR00438 19 KLLQLNQKFK-LIKPGDTVLDLGAAPGGWSQVAVEQV 54 (188)
T ss_pred HHHHHHHHhc-ccCCCCEEEEecCCCCHHHHHHHHHh
Confidence 6777777765 45789999999999999999887654
No 73
>cd00315 Cyt_C5_DNA_methylase Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the mammalian genome. These effects include transcriptional repression via inhibition of transcription factor binding or the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability.
Probab=61.73 E-value=24 Score=36.65 Aligned_cols=89 Identities=20% Similarity=0.303 Sum_probs=56.3
Q ss_pred cEEeccCCcchHHHHHHHHHHhhCccccc-------------cccccCCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 002563 235 MIVDFCCGANDFSCLMKKKLDETGKNCLY-------------KNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 301 (907)
Q Consensus 235 tiVDfcCG~NdFS~LMk~KLe~~gK~C~f-------------KNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLN 301 (907)
+|+|++||.--++.=+++ .|-.|.+ +||.- . +...|.-++.+.+++..--||+| -
T Consensus 2 ~v~dLFsG~Gg~~~gl~~----~G~~~v~a~e~~~~a~~~~~~N~~~-----~--~~~~Di~~~~~~~~~~~~D~l~~-g 69 (275)
T cd00315 2 RVIDLFAGIGGFRLGLEK----AGFEIVAANEIDKSAAETYEANFPN-----K--LIEGDITKIDEKDFIPDIDLLTG-G 69 (275)
T ss_pred cEEEEccCcchHHHHHHH----cCCEEEEEEeCCHHHHHHHHHhCCC-----C--CccCccccCchhhcCCCCCEEEe-C
Confidence 589999999999876654 4544433 34421 1 33456666666663333446666 4
Q ss_pred CCc-------------cchhhhHHHHHHhhhccCCcEEEEecCCccc
Q 002563 302 PPF-------------GVKAGLANKFINKALEFNPKLLILIVPPETE 335 (907)
Q Consensus 302 PPF-------------G~kA~LANKFIdkAL~FkPKLIILIvPpeTe 335 (907)
||- +-++.|.-.|++-+-.++|+++|+==-+...
T Consensus 70 pPCq~fS~ag~~~~~~d~r~~L~~~~~~~i~~~~P~~~v~ENV~g~~ 116 (275)
T cd00315 70 FPCQPFSIAGKRKGFEDTRGTLFFEIIRILKEKKPKYFLLENVKGLL 116 (275)
T ss_pred CCChhhhHHhhcCCCCCchHHHHHHHHHHHHhcCCCEEEEEcCcchh
Confidence 653 2356688889988889999999885444443
No 74
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=59.59 E-value=16 Score=34.94 Aligned_cols=42 Identities=17% Similarity=0.193 Sum_probs=33.9
Q ss_pred CcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 210 GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 210 GRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
.+..|+.+.-..+++.|. +.++++|+|++||.-.++..+.++
T Consensus 11 ~~~~~~~~~r~~~~~~l~--~~~~~~vLDiG~G~G~~~~~la~~ 52 (187)
T PRK08287 11 KVPMTKEEVRALALSKLE--LHRAKHLIDVGAGTGSVSIEAALQ 52 (187)
T ss_pred CCCCchHHHHHHHHHhcC--CCCCCEEEEECCcCCHHHHHHHHH
Confidence 456788877777778885 458999999999999999888653
No 75
>PRK07402 precorrin-6B methylase; Provisional
Probab=58.98 E-value=16 Score=35.27 Aligned_cols=41 Identities=15% Similarity=0.231 Sum_probs=32.7
Q ss_pred CcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563 210 GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 210 GRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
|.-.|+.+....+++.|. +.+|++|+|++||.-.|...+.+
T Consensus 20 ~~p~t~~~v~~~l~~~l~--~~~~~~VLDiG~G~G~~~~~la~ 60 (196)
T PRK07402 20 GIPLTKREVRLLLISQLR--LEPDSVLWDIGAGTGTIPVEAGL 60 (196)
T ss_pred CCCCCHHHHHHHHHHhcC--CCCCCEEEEeCCCCCHHHHHHHH
Confidence 434777777777888874 57899999999999999887754
No 76
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=56.35 E-value=8.4 Score=39.50 Aligned_cols=41 Identities=5% Similarity=0.039 Sum_probs=28.0
Q ss_pred cchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 213 FTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 213 FTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
|+-.+..-.++-.+. -+++|++|+|+|||.-.++..|-+.+
T Consensus 53 ~~~qd~~s~~~~~~l-~~~~g~~VLDl~ag~G~kt~~la~~~ 93 (264)
T TIGR00446 53 YYIQEASSMIPPLAL-EPDPPERVLDMAAAPGGKTTQISALM 93 (264)
T ss_pred EEEECHHHHHHHHHh-CCCCcCEEEEECCCchHHHHHHHHHc
Confidence 333344444443322 46899999999999999998886644
No 77
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=56.00 E-value=6.4 Score=38.66 Aligned_cols=29 Identities=21% Similarity=0.308 Sum_probs=23.1
Q ss_pred hcccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 226 LHWYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 226 LhwyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
+-.|.+++..|||++||.-.++..|.++.
T Consensus 34 ~~~~~~~~~~VLDiGcGtG~~~~~la~~~ 62 (202)
T PRK00121 34 AELFGNDAPIHLEIGFGKGEFLVEMAKAN 62 (202)
T ss_pred HHHcCCCCCeEEEEccCCCHHHHHHHHHC
Confidence 34456678999999999999999886643
No 78
>TIGR00675 dcm DNA-methyltransferase (dcm). All proteins in this family for which functions are known are DNA-cytosine methyltransferases. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=54.39 E-value=15 Score=38.90 Aligned_cols=91 Identities=20% Similarity=0.369 Sum_probs=55.4
Q ss_pred EEeccCCcchHHHHHHHHHHhhCccccccccccCCC-----CCCc--cccccccccccCCCCCCCCeeeeeeCC--Ccc-
Q 002563 236 IVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPA-----KNDF--NFEKRDWMTVEPKELAPGSRLIMGLNP--PFG- 305 (907)
Q Consensus 236 iVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliqp-----KN~f--nFEkrDWmtVqp~ELP~Gs~LIMGLNP--PFG- 305 (907)
||||+||+--++.=++ ..|-.|.+ -+|+-+. +.+| .+...|=-++.+.++|.=+-|+.| =| +|-
T Consensus 1 vidLF~G~GG~~~Gl~----~aG~~~~~-a~e~~~~a~~ty~~N~~~~~~~~Di~~~~~~~~~~~dvl~gg-~PCq~fS~ 74 (315)
T TIGR00675 1 FIDLFAGIGGIRLGFE----QAGFKCVF-ASEIDKYAQKTYEANFGNKVPFGDITKISPSDIPDFDILLGG-FPCQPFSI 74 (315)
T ss_pred CEEEecCccHHHHHHH----HcCCeEEE-EEeCCHHHHHHHHHhCCCCCCccChhhhhhhhCCCcCEEEec-CCCcccch
Confidence 6899999999997664 34644432 1111000 0000 223356666777778876655555 33 343
Q ss_pred ---------chhhhHHHHHHhhhccCCcEEEEecCC
Q 002563 306 ---------VKAGLANKFINKALEFNPKLLILIVPP 332 (907)
Q Consensus 306 ---------~kA~LANKFIdkAL~FkPKLIILIvPp 332 (907)
.++.|.-.|++-+-.++|+++|+==-+
T Consensus 75 ag~~~~~~d~r~~L~~~~~r~i~~~~P~~~v~ENV~ 110 (315)
T TIGR00675 75 AGKRKGFEDTRGTLFFEIVRILKEKKPKFFLLENVK 110 (315)
T ss_pred hcccCCCCCchhhHHHHHHHHHhhcCCCEEEeeccH
Confidence 356688889999999999998874333
No 79
>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=54.24 E-value=15 Score=28.51 Aligned_cols=89 Identities=17% Similarity=0.346 Sum_probs=44.5
Q ss_pred cEEeccCCcchHHHHHHHHHHhhCcccccccccc-------CC------CCCCccccccccccccCCCCCCCCeeeeeeC
Q 002563 235 MIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDI-------LP------AKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 301 (907)
Q Consensus 235 tiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDl-------iq------pKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLN 301 (907)
+|+|++||...++..|-+ ... +.+--.|+ .+ ......|...|+...... .+.+=.+|+- +
T Consensus 1 ~ildig~G~G~~~~~~~~---~~~--~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~d~i~~-~ 73 (107)
T cd02440 1 RVLDLGCGTGALALALAS---GPG--ARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPE-ADESFDVIIS-D 73 (107)
T ss_pred CeEEEcCCccHHHHHHhc---CCC--CEEEEEeCCHHHHHHHHHHHhcccccceEEEEcChhhhccc-cCCceEEEEE-c
Confidence 589999999998887754 111 11111111 11 112344555555554431 1222234444 7
Q ss_pred CCccchhhhHHHHHHhhhc-cCCcEEEEec
Q 002563 302 PPFGVKAGLANKFINKALE-FNPKLLILIV 330 (907)
Q Consensus 302 PPFG~kA~LANKFIdkAL~-FkPKLIILIv 330 (907)
+||..-.....+++..++. .+|.=++++.
T Consensus 74 ~~~~~~~~~~~~~l~~~~~~l~~~g~~~~~ 103 (107)
T cd02440 74 PPLHHLVEDLARFLEEARRLLKPGGVLVLT 103 (107)
T ss_pred cceeehhhHHHHHHHHHHHHcCCCCEEEEE
Confidence 7877523345555555443 3565555544
No 80
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=53.33 E-value=12 Score=39.26 Aligned_cols=65 Identities=17% Similarity=0.163 Sum_probs=37.4
Q ss_pred cEEeccCCcchHHHHHHHHHHh---hCcccc-------ccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCCCc
Q 002563 235 MIVDFCCGANDFSCLMKKKLDE---TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPF 304 (907)
Q Consensus 235 tiVDfcCG~NdFS~LMk~KLe~---~gK~C~-------fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPF 304 (907)
+|+|+|||+---.--+..+.-. ++-+++ =+|-....- .++.|...||+.--.+ .=-||+- ||||
T Consensus 113 ~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l-~~~~~~~~dlf~~~~~----~fDlIVs-NPPY 186 (280)
T COG2890 113 RILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGL-VRVLVVQSDLFEPLRG----KFDLIVS-NPPY 186 (280)
T ss_pred cEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCC-ccEEEEeeecccccCC----ceeEEEe-CCCC
Confidence 7999999999888777665532 122222 223333332 3355555688764333 2235555 9998
Q ss_pred c
Q 002563 305 G 305 (907)
Q Consensus 305 G 305 (907)
=
T Consensus 187 i 187 (280)
T COG2890 187 I 187 (280)
T ss_pred C
Confidence 5
No 81
>PTZ00146 fibrillarin; Provisional
Probab=53.25 E-value=10 Score=40.94 Aligned_cols=39 Identities=13% Similarity=0.187 Sum_probs=29.1
Q ss_pred hHH-HHHHhhc-ccccCCCcEEeccCCcchHHHHHHHHHHh
Q 002563 218 KLQ-AIVDKLH-WYVNDGDMIVDFCCGANDFSCLMKKKLDE 256 (907)
Q Consensus 218 kL~-eIvdkLh-wyV~~GDtiVDfcCG~NdFS~LMk~KLe~ 256 (907)
||- .|+.-|- -++.+|++|+|+|||.-.|+..|-+.+..
T Consensus 116 Klaa~i~~g~~~l~IkpG~~VLDLGaG~G~~t~~lAdiVG~ 156 (293)
T PTZ00146 116 KLAAAIIGGVANIPIKPGSKVLYLGAASGTTVSHVSDLVGP 156 (293)
T ss_pred HHHHHHHCCcceeccCCCCEEEEeCCcCCHHHHHHHHHhCC
Confidence 454 3434443 35899999999999999999999775533
No 82
>PRK06202 hypothetical protein; Provisional
Probab=52.12 E-value=15 Score=36.23 Aligned_cols=38 Identities=16% Similarity=0.237 Sum_probs=27.5
Q ss_pred cCCCcEEeccCCcchHHHHHHHHHHhhCcccccccccc
Q 002563 231 NDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDI 268 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDl 268 (907)
..+.+|+|++||.-+++..|.+.+.+.|..+.+--.|+
T Consensus 59 ~~~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~ 96 (232)
T PRK06202 59 DRPLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDP 96 (232)
T ss_pred CCCcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcC
Confidence 57789999999999999888766555454444444444
No 83
>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=52.00 E-value=16 Score=38.28 Aligned_cols=34 Identities=26% Similarity=0.545 Sum_probs=24.6
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 218 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 218 kL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
||+.|++|| -+++|++|+|+-||--.|+..|-++
T Consensus 50 k~~~~~~~~--~l~~G~~vLDiGcGwG~~~~~~a~~ 83 (273)
T PF02353_consen 50 KLDLLCEKL--GLKPGDRVLDIGCGWGGLAIYAAER 83 (273)
T ss_dssp HHHHHHTTT--T--TT-EEEEES-TTSHHHHHHHHH
T ss_pred HHHHHHHHh--CCCCCCEEEEeCCCccHHHHHHHHH
Confidence 455566666 3899999999999999999999776
No 84
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=51.66 E-value=21 Score=39.21 Aligned_cols=25 Identities=20% Similarity=0.420 Sum_probs=21.6
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 002563 230 VNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 230 V~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
+++|++|+|+|||.-.++..|-+++
T Consensus 248 ~~~g~~VLDlgaG~G~~t~~la~~~ 272 (444)
T PRK14902 248 PKGGDTVLDACAAPGGKTTHIAELL 272 (444)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHHh
Confidence 4789999999999999998887654
No 85
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=51.07 E-value=24 Score=34.23 Aligned_cols=39 Identities=28% Similarity=0.454 Sum_probs=29.9
Q ss_pred cchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 213 FTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 213 FTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
+||.|.=.-++.+|. +.+|++|+|++||.-.|+..+-+.
T Consensus 23 ~t~~~~r~~~l~~l~--~~~~~~vlDlG~GtG~~s~~~a~~ 61 (198)
T PRK00377 23 MTKEEIRALALSKLR--LRKGDMILDIGCGTGSVTVEASLL 61 (198)
T ss_pred CCHHHHHHHHHHHcC--CCCcCEEEEeCCcCCHHHHHHHHH
Confidence 777766444456664 669999999999999999877543
No 86
>PRK10458 DNA cytosine methylase; Provisional
Probab=50.01 E-value=77 Score=36.32 Aligned_cols=120 Identities=22% Similarity=0.397 Sum_probs=68.2
Q ss_pred cEEeccCCcchHHHHHHHHHHhhCccccc-------------cccccCCCCCCccccccccccccC--------------
Q 002563 235 MIVDFCCGANDFSCLMKKKLDETGKNCLY-------------KNYDILPAKNDFNFEKRDWMTVEP-------------- 287 (907)
Q Consensus 235 tiVDfcCG~NdFS~LMk~KLe~~gK~C~f-------------KNyDliqpKN~fnFEkrDWmtVqp-------------- 287 (907)
++|||+||.--|+.=++. .|..|.| .||--.+....| ..|=-+|..
T Consensus 90 ~~iDLFsGiGGl~lGfe~----aG~~~v~a~Eid~~A~~TY~~N~~~~p~~~~~---~~DI~~i~~~~~~~~~~~~~~~~ 162 (467)
T PRK10458 90 RFIDLFAGIGGIRRGFEA----IGGQCVFTSEWNKHAVRTYKANWYCDPATHRF---NEDIRDITLSHKEGVSDEEAAEH 162 (467)
T ss_pred eEEEeCcCccHHHHHHHH----cCCEEEEEEechHHHHHHHHHHcCCCCcccee---ccChhhCccccccccchhhhhhh
Confidence 699999999999987754 5777754 233100100111 122223322
Q ss_pred --CCCCCCCeeeeeeCC--Cccch-------------------hhhHHHHHHhhhccCCcEEEEecCCcccccccc----
Q 002563 288 --KELAPGSRLIMGLNP--PFGVK-------------------AGLANKFINKALEFNPKLLILIVPPETERLDRK---- 340 (907)
Q Consensus 288 --~ELP~Gs~LIMGLNP--PFG~k-------------------A~LANKFIdkAL~FkPKLIILIvPpeTeRLD~K---- 340 (907)
.++|.=+-|+.| =| ||-+. +.|.-.|+.-+-.++||++||===+.....|..
T Consensus 163 ~~~~~p~~DvL~gG-pPCQ~FS~AG~~k~~~~gr~~g~~~d~rg~Lf~~~~rii~~~kPk~fvlENV~gl~s~~~g~~f~ 241 (467)
T PRK10458 163 IRQHIPDHDVLLAG-FPCQPFSLAGVSKKNSLGRAHGFECETQGTLFFDVARIIDAKRPAIFVLENVKNLKSHDKGKTFR 241 (467)
T ss_pred hhccCCCCCEEEEc-CCCCccchhcccccccccccccccCCccccHHHHHHHHHHHhCCCEEEEeCcHhhhcccccHHHH
Confidence 245555555555 45 67532 236677777777899999887422222222221
Q ss_pred -------CCCceeeec------cccccCCcceecCC
Q 002563 341 -------ESAYELVWE------DDQFLSGKSFYLPG 363 (907)
Q Consensus 341 -------~~pY~LiWE------D~~~LsGkSFYlPG 363 (907)
.-+|.+.|- +-.+|...-| +|=
T Consensus 242 ~i~~~L~~lGY~v~~~~~~g~~~~~vlna~~f-VPQ 276 (467)
T PRK10458 242 IIMQTLDELGYDVADAEDNGPDDPKIIDGKHF-LPQ 276 (467)
T ss_pred HHHHHHHHcCCeEEeccccCcccceEeehhhC-CCc
Confidence 358998763 3456666666 775
No 87
>TIGR00762 DegV EDD domain protein, DegV family. This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each than to most homologs from other species. This suggests both recent paralogy and diversity of function. DegV itself is encoded immediately downstream of DegU, a transcriptional regulator of degradation, but is itself uncharacterized. Crystallography suggested a lipid-binding site, while comparison of the crystal structure to dihydroxyacetone kinase and to a mannose transporter EIIA domain suggests a conserved domain, EDD, with phosphotransferase activity.
Probab=48.89 E-value=70 Score=33.16 Aligned_cols=92 Identities=20% Similarity=0.318 Sum_probs=60.6
Q ss_pred HHHHHHhhcccCCCChhhhhhccChhHHhHHHHHhhcccccccc---------------------------cc--ccccc
Q 002563 156 AIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAP---------------------------FL--HGMRY 206 (907)
Q Consensus 156 Avr~AL~kLe~~G~siedAKAvCeP~vL~QL~rwk~kLkvYLAP---------------------------fL--hG~RY 206 (907)
.|..|.++++ +|.+++|. +.+|..+.++.++|+.| .| ..-..
T Consensus 124 ~v~~a~~~~~-~G~s~~eI--------~~~l~~~~~~~~~~f~v~~L~~L~~gGRis~~~~~~g~lL~ikPIi~~~~G~i 194 (275)
T TIGR00762 124 LVLEAAKLAE-EGKSLEEI--------LAKLEELRERTKLYFVVDTLEYLVKGGRISKAAALIGSLLNIKPILTVDDGKL 194 (275)
T ss_pred HHHHHHHHHH-cCCCHHHH--------HHHHHHHHhhcEEEEEECcHHHHHhcCCccHHHHHHHHhhcceeEEEEeCCEE
Confidence 4555677777 78886653 44666667776666543 33 23456
Q ss_pred cccCcccchhhhHHHHHHhhcccccCCC-cEEe-ccCCcchHHHHHHHHHHh
Q 002563 207 TSFGRHFTKVDKLQAIVDKLHWYVNDGD-MIVD-FCCGANDFSCLMKKKLDE 256 (907)
Q Consensus 207 TSfGRHFTK~ekL~eIvdkLhwyV~~GD-tiVD-fcCG~NdFS~LMk~KLe~ 256 (907)
..+++.++..-.++++++.+.-++..++ -.|. ..||..+=...++++|.+
T Consensus 195 ~~~~k~Rg~kka~~~l~~~~~~~~~~~~~~~i~i~~~~~~e~~~~l~~~l~~ 246 (275)
T TIGR00762 195 VPIEKVRGRKKAIKKLVELVKEDIKDGKPKRVAIIHADAEEEAEELKEKLKE 246 (275)
T ss_pred EEeeccccHHHHHHHHHHHHHHhhccCCCcEEEEEeCCCHHHHHHHHHHHHh
Confidence 6889999998889999999888776543 2333 345655555666666665
No 88
>PRK04266 fibrillarin; Provisional
Probab=47.54 E-value=25 Score=35.99 Aligned_cols=38 Identities=11% Similarity=0.194 Sum_probs=27.7
Q ss_pred hhHHHHHHhh-cccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 217 DKLQAIVDKL-HWYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 217 ekL~eIvdkL-hwyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
.....|...+ .--+.+|++|+|+|||..-|+..+.+..
T Consensus 56 ~~~~~ll~~~~~l~i~~g~~VlD~G~G~G~~~~~la~~v 94 (226)
T PRK04266 56 KLAAAILKGLKNFPIKKGSKVLYLGAASGTTVSHVSDIV 94 (226)
T ss_pred chHHHHHhhHhhCCCCCCCEEEEEccCCCHHHHHHHHhc
Confidence 3334444444 2357899999999999999999886644
No 89
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=46.24 E-value=31 Score=32.96 Aligned_cols=36 Identities=22% Similarity=0.420 Sum_probs=27.1
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 217 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 217 ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
..+..+++.|.. .++.+|+|++||...++..+.+.+
T Consensus 38 ~~~~~~~~~~~~--~~~~~vldiG~G~G~~~~~l~~~~ 73 (239)
T PRK00216 38 VWRRKTIKWLGV--RPGDKVLDLACGTGDLAIALAKAV 73 (239)
T ss_pred HHHHHHHHHhCC--CCCCeEEEeCCCCCHHHHHHHHHc
Confidence 444556666653 378899999999999999886654
No 90
>PF00145 DNA_methylase: C-5 cytosine-specific DNA methylase; InterPro: IPR001525 C-5 cytosine-specific DNA methylases (2.1.1.37 from EC) (C5 Mtase) are enzymes that specifically methylate the C-5 carbon of cytosines in DNA to produce C5-methylcytosine [, , ]. In mammalian cells, cytosine-specific methyltransferases methylate certain CpG sequences, which are believed to modulate gene expression and cell differentiation. In bacteria, these enzymes are a component of restriction-modification systems and serve as valuable tools for the manipulation of DNA [, ]. The structure of HhaI methyltransferase (M.HhaI) has been resolved to 2.5 A []: the molecule folds into 2 domains - a larger catalytic domain containing catalytic and cofactor binding sites, and a smaller DNA recognition domain.; GO: 0003677 DNA binding, 0006306 DNA methylation; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 1DCT_A 3LX6_A 3ME5_A 2QRV_A ....
Probab=45.39 E-value=6.7 Score=38.87 Aligned_cols=81 Identities=23% Similarity=0.494 Sum_probs=49.5
Q ss_pred cEEeccCCcchHHHHHHHHHHhhCccccc-------------cccccCCCCCCccccccccccccCCCCCC-CCeeeeee
Q 002563 235 MIVDFCCGANDFSCLMKKKLDETGKNCLY-------------KNYDILPAKNDFNFEKRDWMTVEPKELAP-GSRLIMGL 300 (907)
Q Consensus 235 tiVDfcCG~NdFS~LMk~KLe~~gK~C~f-------------KNyDliqpKN~fnFEkrDWmtVqp~ELP~-Gs~LIMGL 300 (907)
++|||+||.--|+.=+++ .|-.|.+ +||. ...-.|=-.+..++||. =+ ||+|=
T Consensus 2 ~~~dlFsG~Gg~~~g~~~----ag~~~~~a~e~~~~a~~~y~~N~~--------~~~~~Di~~~~~~~l~~~~D-~l~gg 68 (335)
T PF00145_consen 2 KVIDLFSGIGGFSLGLEQ----AGFEVVWAVEIDPDACETYKANFP--------EVICGDITEIDPSDLPKDVD-LLIGG 68 (335)
T ss_dssp EEEEET-TTTHHHHHHHH----TTEEEEEEEESSHHHHHHHHHHHT--------EEEESHGGGCHHHHHHHT-S-EEEEE
T ss_pred cEEEEccCccHHHHHHHh----cCcEEEEEeecCHHHHHhhhhccc--------ccccccccccccccccccce-EEEec
Confidence 589999999998886654 5544432 3443 22233444444556773 44 55553
Q ss_pred CC--Cccc----------hhhhHHHHHHhhhccCCcEEEE
Q 002563 301 NP--PFGV----------KAGLANKFINKALEFNPKLLIL 328 (907)
Q Consensus 301 NP--PFG~----------kA~LANKFIdkAL~FkPKLIIL 328 (907)
=| ||-. ++.|.-.|++-+-.+|||++||
T Consensus 69 pPCQ~fS~ag~~~~~~d~r~~L~~~~~~~v~~~~Pk~~~~ 108 (335)
T PF00145_consen 69 PPCQGFSIAGKRKGFDDPRNSLFFEFLRIVKELKPKYFLL 108 (335)
T ss_dssp ---TTTSTTSTHHCCCCHTTSHHHHHHHHHHHHS-SEEEE
T ss_pred cCCceEeccccccccccccchhhHHHHHHHhhccceEEEe
Confidence 44 4532 4468889999999999999987
No 91
>PRK08317 hypothetical protein; Provisional
Probab=45.24 E-value=19 Score=33.88 Aligned_cols=25 Identities=24% Similarity=0.573 Sum_probs=21.3
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 002563 230 VNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 230 V~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
+.++++|||++||...|+..|.+.+
T Consensus 17 ~~~~~~vLdiG~G~G~~~~~~a~~~ 41 (241)
T PRK08317 17 VQPGDRVLDVGCGPGNDARELARRV 41 (241)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHhc
Confidence 4678999999999999999887654
No 92
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=44.13 E-value=18 Score=39.92 Aligned_cols=25 Identities=20% Similarity=0.478 Sum_probs=21.4
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 002563 230 VNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 230 V~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
.++|++|+|+|||.-.++..|-+.+
T Consensus 248 ~~~g~~VLDlgaG~G~kt~~la~~~ 272 (445)
T PRK14904 248 PQPGSTVLDLCAAPGGKSTFMAELM 272 (445)
T ss_pred CCCCCEEEEECCCCCHHHHHHHHHh
Confidence 4789999999999999998886654
No 93
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=43.92 E-value=27 Score=35.90 Aligned_cols=24 Identities=38% Similarity=0.951 Sum_probs=21.0
Q ss_pred ccCCCcEEeccCCcchHHHHHHHH
Q 002563 230 VNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 230 V~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
+.+|++|+|++||.-.|..++.++
T Consensus 71 ~~~~~~VLDlGcGtG~~~~~la~~ 94 (261)
T PLN02233 71 AKMGDRVLDLCCGSGDLAFLLSEK 94 (261)
T ss_pred CCCCCEEEEECCcCCHHHHHHHHH
Confidence 578999999999999999887653
No 94
>TIGR01712 phage_N6A_met phage N-6-adenine-methyltransferase. This is a model for a phage-borne DNA N-6-adenine-methyltransferase.
Probab=43.56 E-value=20 Score=36.41 Aligned_cols=35 Identities=23% Similarity=0.494 Sum_probs=26.2
Q ss_pred eeeeCCCccchhhhHHHHHHhhhcc---CCcEEEEecCCccc
Q 002563 297 IMGLNPPFGVKAGLANKFINKALEF---NPKLLILIVPPETE 335 (907)
Q Consensus 297 IMGLNPPFG~kA~LANKFIdkAL~F---kPKLIILIvPpeTe 335 (907)
-+=+||||+- +..||.||.++ +=..+|+.+|-.|.
T Consensus 64 ~vf~NPPYS~----~~~~v~kaae~~~~~g~~~VmLlpa~ts 101 (166)
T TIGR01712 64 AVWLNPPYSR----PDIFVNKTAWFTEARQAAEVILIEADLS 101 (166)
T ss_pred eEEecCCCCc----HHHHHHHHHHHHHhhCCeEEEEEecCCc
Confidence 4556999983 47999999765 22468888888875
No 95
>PF14881 Tubulin_3: Tubulin domain
Probab=43.49 E-value=20 Score=35.96 Aligned_cols=45 Identities=20% Similarity=0.403 Sum_probs=34.9
Q ss_pred cccchhhhHHHHHHh-hcccccCCCc------EEeccCCcchHHHHHHHHHH
Q 002563 211 RHFTKVDKLQAIVDK-LHWYVNDGDM------IVDFCCGANDFSCLMKKKLD 255 (907)
Q Consensus 211 RHFTK~ekL~eIvdk-LhwyV~~GDt------iVDfcCG~NdFS~LMk~KLe 255 (907)
..|...++..++.|+ ||+||+.=|. ++|...|---|..=|-+.|.
T Consensus 48 ~~f~~~~~~~d~~D~~lR~f~EECD~lQGfQ~~~d~d~gwgGfas~~Le~L~ 99 (180)
T PF14881_consen 48 ELFKSLDYEEDFFDRDLRFFLEECDSLQGFQVLTDVDDGWGGFASSLLEHLR 99 (180)
T ss_pred HHHhhhhhhhHHHHHHHHHHHHHcccccceEEEecCCCchHhHHHHHHHHHH
Confidence 478888889999997 9999999988 68887777777655444443
No 96
>PF05869 Dam: DNA N-6-adenine-methyltransferase (Dam); InterPro: IPR008593 This family consists of several bacterial and phage DNA N-6-adenine-methyltransferase (Dam) like sequences [].; GO: 0003677 DNA binding, 0009007 site-specific DNA-methyltransferase (adenine-specific) activity, 0032775 DNA methylation on adenine
Probab=43.28 E-value=25 Score=35.60 Aligned_cols=131 Identities=21% Similarity=0.352 Sum_probs=68.6
Q ss_pred cchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCCCCCCccccccccccccCCCCCC
Q 002563 213 FTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAP 292 (907)
Q Consensus 213 FTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~ 292 (907)
-|-.+-+..+...+++| .||.||-..+ ..|. +-|.. .. |.=..||-.. |.
T Consensus 15 ~TP~~lf~~l~~~fg~f------~LD~aa~~~N-------------a~~~-~y~T~--~~---DgL~~~W~~~----~~- 64 (181)
T PF05869_consen 15 QTPPELFDALNREFGPF------DLDPAASDEN-------------AKCP-RYYTE--ED---DGLAQDWSAE----LM- 64 (181)
T ss_pred cCCHHHHHHHHHHhCCc------cccccCCCCC-------------hhhh-hhcCc--cc---cHhhhhhhhc----cc-
Confidence 46667777777777774 5899985432 1232 12221 12 3334556432 11
Q ss_pred CCeeeeeeCCCccchhhhHHHHHHhhhccC---CcEEEEecCCccccccccCCCceeeeccc---cccCCc-ceecCCCc
Q 002563 293 GSRLIMGLNPPFGVKAGLANKFINKALEFN---PKLLILIVPPETERLDRKESAYELVWEDD---QFLSGK-SFYLPGSV 365 (907)
Q Consensus 293 Gs~LIMGLNPPFG~kA~LANKFIdkAL~Fk---PKLIILIvPpeTeRLD~K~~pY~LiWED~---~~LsGk-SFYlPGSV 365 (907)
|. | =+||||+.. ...||.||.+.. =..|+||+|-.+.. .=|+.+++.. .+|.|. .|+.|.
T Consensus 65 g~--v-f~NPPYs~~---i~~wv~Ka~~e~~~g~~~VvLL~~~~~st-----~W~~~~~~~a~~I~fi~GRl~F~~p~-- 131 (181)
T PF05869_consen 65 GR--V-FCNPPYSRG---IGPWVEKAIEEYERGNQTVVLLPPADTST-----WWFEDALENADEIRFIRGRLKFINPV-- 131 (181)
T ss_pred ce--E-EecCchhhh---HHHHHHHHHHHHHhCCcEEEEEeccCCCc-----cHHHHHHhcCCEEEEecCceeeccCC--
Confidence 22 2 459999942 667777777532 14566777765541 1333333211 233343 677772
Q ss_pred ccCchhhcccccCCCCeeeeecc
Q 002563 366 DENDKQMDQWNMTAPPLYLWSRH 388 (907)
Q Consensus 366 DvnDKqieqWN~vPPpLyLWSRp 388 (907)
.++.-.+.|..|-.|.+|.-.
T Consensus 132 --~g~~~~~~~~~gs~l~if~p~ 152 (181)
T PF05869_consen 132 --TGKEGKNGNPKGSMLVIFRPT 152 (181)
T ss_pred --CCccCCCCCCCceEEEEECCC
Confidence 244434556666667777543
No 97
>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=43.11 E-value=34 Score=32.27 Aligned_cols=33 Identities=21% Similarity=0.424 Sum_probs=24.7
Q ss_pred HHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 220 QAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 220 ~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
..+++.+.. .++.+|+|++||...++..+.+++
T Consensus 29 ~~~~~~~~~--~~~~~vldiG~G~G~~~~~~~~~~ 61 (223)
T TIGR01934 29 RRAVKLIGV--FKGQKVLDVACGTGDLAIELAKSA 61 (223)
T ss_pred HHHHHHhcc--CCCCeEEEeCCCCChhHHHHHHhc
Confidence 344555443 278999999999999999886654
No 98
>cd01425 RPS2 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of ribosomal protein S1 to the 30s ribosomal subunit. In humans, most likely in all vertebrates, and perhaps in all metazoans, the protein also functions as the 67 kDa laminin receptor (LAMR1 or 67LR), which is formed from a 37 kDa precursor, and is overexpressed in many tumors. 67LR is a cell surface receptor which interacts with a variety of ligands, laminin-1 and others. It is assumed that the ligand interactions are mediated via the conserved C-terminus, which becomes extracellular as the protein undergoes conformational changes which are not well understood. Specifically, a conserved palindromic motif, LMWWML, may participate in the interactions. 67LR plays essential roles in the adhesion of cells to the basement membrane an
Probab=43.00 E-value=1e+02 Score=30.83 Aligned_cols=68 Identities=22% Similarity=0.296 Sum_probs=43.4
Q ss_pred cccccccccccccCcccchhhhHHHHHHh----hcccccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCC
Q 002563 197 LAPFLHGMRYTSFGRHFTKVDKLQAIVDK----LHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP 270 (907)
Q Consensus 197 LAPfLhG~RYTSfGRHFTK~ekL~eIvdk----LhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq 270 (907)
++|||||.| .|.|+-.+++.....++ +.-++..|-.|+ |-+--+.+..++++..+.+ .|.|-|...+.
T Consensus 19 m~~yiyg~r---~~~~Iidl~~T~~~L~~A~~~i~~i~~~~g~iL-fV~t~~~~~~~v~~~a~~~--~~~~i~~rw~~ 90 (193)
T cd01425 19 MKPYIYGER---NGIHIIDLEKTLEKLRLALNFIANIAAKGGKIL-FVGTKPQAQRAVKKFAERT--GSFYVNGRWLG 90 (193)
T ss_pred chhheeccc---CCeEEEeHHHHHHHHHHHHHHHHHHHhCCCEEE-EEECCHHHHHHHHHHHHHc--CCeeecCeecC
Confidence 569999999 89999887765555554 444445555554 3334447777777655544 56666665553
No 99
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=42.97 E-value=18 Score=39.76 Aligned_cols=25 Identities=16% Similarity=0.407 Sum_probs=21.4
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 002563 230 VNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 230 V~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
+++|++|+|+|||.-.++..|-+++
T Consensus 250 ~~~g~~VLDl~ag~G~kt~~la~~~ 274 (434)
T PRK14901 250 PQPGEVILDACAAPGGKTTHIAELM 274 (434)
T ss_pred CCCcCEEEEeCCCCchhHHHHHHHh
Confidence 5789999999999999998886643
No 100
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=42.95 E-value=30 Score=37.75 Aligned_cols=35 Identities=26% Similarity=0.511 Sum_probs=27.1
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 217 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 217 ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
+..+.+++.+- +.+|..|+|++||.-.+...|.++
T Consensus 253 ~~te~l~~~~~--~~~~~~vLDiGcG~G~~~~~la~~ 287 (475)
T PLN02336 253 ETTKEFVDKLD--LKPGQKVLDVGCGIGGGDFYMAEN 287 (475)
T ss_pred HHHHHHHHhcC--CCCCCEEEEEeccCCHHHHHHHHh
Confidence 34456667665 578999999999999998877654
No 101
>PRK11524 putative methyltransferase; Provisional
Probab=41.67 E-value=22 Score=36.83 Aligned_cols=35 Identities=26% Similarity=0.358 Sum_probs=23.2
Q ss_pred CcccchhhhHHHHHHhhc-ccccCCCcEEeccCCcchH
Q 002563 210 GRHFTKVDKLQAIVDKLH-WYVNDGDMIVDFCCGANDF 246 (907)
Q Consensus 210 GRHFTK~ekL~eIvdkLh-wyV~~GDtiVDfcCG~NdF 246 (907)
+.|.|. |=++++++|. -+-++||+|+|++||+..=
T Consensus 187 ~~HPt~--kP~~L~erlI~~~S~~GD~VLDPF~GSGTT 222 (284)
T PRK11524 187 ENHPTQ--KPEALLKRIILASSNPGDIVLDPFAGSFTT 222 (284)
T ss_pred ccCccc--ChHHHHHHHHHHhCCCCCEEEECCCCCcHH
Confidence 347764 3334444433 3458999999999999753
No 102
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=41.61 E-value=41 Score=39.55 Aligned_cols=119 Identities=20% Similarity=0.410 Sum_probs=71.1
Q ss_pred ccccccc-ccCcccchh----hhHHHHHHhhcccccC-CCcEEeccCCcchHHHHHHHHHH-------------hhCcc-
Q 002563 201 LHGMRYT-SFGRHFTKV----DKLQAIVDKLHWYVND-GDMIVDFCCGANDFSCLMKKKLD-------------ETGKN- 260 (907)
Q Consensus 201 LhG~RYT-SfGRHFTK~----ekL~eIvdkLhwyV~~-GDtiVDfcCG~NdFS~LMk~KLe-------------~~gK~- 260 (907)
|.|-|++ |=|-+|-.- |+|-.+|.- |--.+ +.++||.|||..-|+--+.++-. ++.+.
T Consensus 348 l~~ltF~iSp~AFFQ~Nt~~aevLys~i~e--~~~l~~~k~llDv~CGTG~iglala~~~~~ViGvEi~~~aV~dA~~nA 425 (534)
T KOG2187|consen 348 LLGLTFRISPGAFFQTNTSAAEVLYSTIGE--WAGLPADKTLLDVCCGTGTIGLALARGVKRVIGVEISPDAVEDAEKNA 425 (534)
T ss_pred cCCeEEEECCchhhccCcHHHHHHHHHHHH--HhCCCCCcEEEEEeecCCceehhhhccccceeeeecChhhcchhhhcc
Confidence 3344443 666777432 333333322 33334 45589999999999866544321 11111
Q ss_pred --ccccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccC-CcEEEEec
Q 002563 261 --CLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFN-PKLLILIV 330 (907)
Q Consensus 261 --C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~Fk-PKLIILIv 330 (907)
=---|=++|+.+.- |-|+.--+-...+..||+-++||= +-|=-|||.-.+.++ |+.||.|+
T Consensus 426 ~~NgisNa~Fi~gqaE------~~~~sl~~~~~~~~~~v~iiDPpR---~Glh~~~ik~l~~~~~~~rlvyvS 489 (534)
T KOG2187|consen 426 QINGISNATFIVGQAE------DLFPSLLTPCCDSETLVAIIDPPR---KGLHMKVIKALRAYKNPRRLVYVS 489 (534)
T ss_pred hhcCccceeeeecchh------hccchhcccCCCCCceEEEECCCc---ccccHHHHHHHHhccCccceEEEE
Confidence 12446666664221 222222333334667999999995 679999999999999 99988886
No 103
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=41.43 E-value=36 Score=37.21 Aligned_cols=61 Identities=28% Similarity=0.558 Sum_probs=48.1
Q ss_pred HHhhcccccccccccccccc-----------------------cc--CcccchhhhHHHHHHhhcccccCCCcEEeccCC
Q 002563 188 KWKNKLKVYLAPFLHGMRYT-----------------------SF--GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCG 242 (907)
Q Consensus 188 rwk~kLkvYLAPfLhG~RYT-----------------------Sf--GRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG 242 (907)
.|...-+=|+-|+.-|.|.+ .| |-|=|..-||+.+=+ |+++|.+|+||-||
T Consensus 97 DW~~~wk~~~~P~rig~~f~I~Psw~~~~~~~~~~~i~lDPGlAFGTG~HpTT~lcL~~Le~----~~~~g~~vlDvGcG 172 (300)
T COG2264 97 DWEREWKKYFHPVRIGERFVIVPSWREYPEPSDELNIELDPGLAFGTGTHPTTSLCLEALEK----LLKKGKTVLDVGCG 172 (300)
T ss_pred HHHHHHHhcCCcEEeeeeEEECCCCccCCCCCCceEEEEccccccCCCCChhHHHHHHHHHH----hhcCCCEEEEecCC
Confidence 56666667888999999766 24 467788777776555 55699999999999
Q ss_pred cchHHHHHHH
Q 002563 243 ANDFSCLMKK 252 (907)
Q Consensus 243 ~NdFS~LMk~ 252 (907)
+-.++--+.+
T Consensus 173 SGILaIAa~k 182 (300)
T COG2264 173 SGILAIAAAK 182 (300)
T ss_pred hhHHHHHHHH
Confidence 9999998866
No 104
>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=41.13 E-value=18 Score=35.90 Aligned_cols=31 Identities=16% Similarity=0.385 Sum_probs=20.6
Q ss_pred hhHHH-HHHhhcccccCCCcEEeccCCcchHH
Q 002563 217 DKLQA-IVDKLHWYVNDGDMIVDFCCGANDFS 247 (907)
Q Consensus 217 ekL~e-IvdkLhwyV~~GDtiVDfcCG~NdFS 247 (907)
++++| +.+-|..+.-.|-.|+|+|||+-.+.
T Consensus 26 drvrealFniL~~~~~~g~~vLDLFaGSGalG 57 (183)
T PF03602_consen 26 DRVREALFNILQPRNLEGARVLDLFAGSGALG 57 (183)
T ss_dssp HHHHHHHHHHHHCH-HTT-EEEETT-TTSHHH
T ss_pred HHHHHHHHHHhcccccCCCeEEEcCCccCccH
Confidence 44544 45666666567889999999998776
No 105
>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=39.73 E-value=28 Score=29.59 Aligned_cols=21 Identities=24% Similarity=0.631 Sum_probs=19.0
Q ss_pred CCCcEEeccCCcchHHHHHHH
Q 002563 232 DGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 232 ~GDtiVDfcCG~NdFS~LMk~ 252 (907)
||.+|+|+.||.-.++..+.+
T Consensus 1 p~~~vLDlGcG~G~~~~~l~~ 21 (112)
T PF12847_consen 1 PGGRVLDLGCGTGRLSIALAR 21 (112)
T ss_dssp TTCEEEEETTTTSHHHHHHHH
T ss_pred CCCEEEEEcCcCCHHHHHHHh
Confidence 688999999999999988866
No 106
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=39.66 E-value=48 Score=33.06 Aligned_cols=25 Identities=20% Similarity=0.236 Sum_probs=21.5
Q ss_pred ccccCCCcEEeccCCcchHHHHHHH
Q 002563 228 WYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 228 wyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
.|+.+|.+|+|++||.-.++..|..
T Consensus 41 ~~l~~g~~VLDiGcGtG~~al~la~ 65 (187)
T PRK00107 41 PYLPGGERVLDVGSGAGFPGIPLAI 65 (187)
T ss_pred hhcCCCCeEEEEcCCCCHHHHHHHH
Confidence 5566799999999999999998865
No 107
>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=37.22 E-value=27 Score=37.52 Aligned_cols=60 Identities=30% Similarity=0.551 Sum_probs=40.4
Q ss_pred Hhhcccccccccccccccc-----------------------cc--CcccchhhhHHHHHHhhcccccCCCcEEeccCCc
Q 002563 189 WKNKLKVYLAPFLHGMRYT-----------------------SF--GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGA 243 (907)
Q Consensus 189 wk~kLkvYLAPfLhG~RYT-----------------------Sf--GRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~ 243 (907)
|.+.-|=|+-||--|.|+. +| |.|=|..=+|+.+-+ |+.+|++|+|+-||+
T Consensus 97 W~~~Wk~~~~P~~vg~~~~I~P~w~~~~~~~~~~~I~idPg~AFGTG~H~TT~lcl~~l~~----~~~~g~~vLDvG~GS 172 (295)
T PF06325_consen 97 WEEAWKKYFKPIRVGDRLVIVPSWEEYPEPPDEIVIEIDPGMAFGTGHHPTTRLCLELLEK----YVKPGKRVLDVGCGS 172 (295)
T ss_dssp HHHHHHHH---EEECTTEEEEETT----SSTTSEEEEESTTSSS-SSHCHHHHHHHHHHHH----HSSTTSEEEEES-TT
T ss_pred chHHHHhcCccEEECCcEEEECCCcccCCCCCcEEEEECCCCcccCCCCHHHHHHHHHHHH----hccCCCEEEEeCCcH
Confidence 4444445666777777654 56 468888877776655 489999999999999
Q ss_pred chHHHHHHH
Q 002563 244 NDFSCLMKK 252 (907)
Q Consensus 244 NdFS~LMk~ 252 (907)
-=.+-...+
T Consensus 173 GILaiaA~k 181 (295)
T PF06325_consen 173 GILAIAAAK 181 (295)
T ss_dssp SHHHHHHHH
T ss_pred HHHHHHHHH
Confidence 988865543
No 108
>TIGR00497 hsdM type I restriction system adenine methylase (hsdM). Function: methylation of specific adenine residues; required for both restriction and modification activities. The ECOR124/3 I enzyme recognizes 5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257: 960-969 (1996)).
Probab=37.11 E-value=22 Score=39.93 Aligned_cols=47 Identities=19% Similarity=0.151 Sum_probs=35.2
Q ss_pred ccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHH
Q 002563 202 HGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSC 248 (907)
Q Consensus 202 hG~RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~ 248 (907)
-|.=||+-|.+||-.+-++-+++-+-.--.++.+|-|+|||+-.|..
T Consensus 187 a~e~~t~~g~~~Tp~~Iv~l~~~~~~~~~dp~~~~~Dp~~Gsg~~L~ 233 (501)
T TIGR00497 187 AQNAGKSGGEFFTPQDISELLARIAIGKKDTVDDVYDMACGSGSLLL 233 (501)
T ss_pred HHhcCCcCceeeCcHHHHHHHHHHhccCCCCCCcccccccchHHHHH
Confidence 36678999999997766555555444434578899999999999863
No 109
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=36.99 E-value=15 Score=40.41 Aligned_cols=99 Identities=11% Similarity=0.076 Sum_probs=54.6
Q ss_pred CCcEEeccCCcchHHHHHHHHHH---hhCccccccccccCCC---CC---CccccccccccccCCCCCCCCeeeeeeCCC
Q 002563 233 GDMIVDFCCGANDFSCLMKKKLD---ETGKNCLYKNYDILPA---KN---DFNFEKRDWMTVEPKELAPGSRLIMGLNPP 303 (907)
Q Consensus 233 GDtiVDfcCG~NdFS~LMk~KLe---~~gK~C~fKNyDliqp---KN---~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPP 303 (907)
+++|+|++||.--|+-.+-.... -++.+.+-...+++.. .| +..|...|.-.+-.+ .+..=++-||||
T Consensus 58 ~~~vLDl~aGsG~~~l~~a~~~~~~~V~a~Din~~Av~~a~~N~~~N~~~~~~v~~~Da~~~l~~---~~~fD~V~lDP~ 134 (382)
T PRK04338 58 RESVLDALSASGIRGIRYALETGVEKVTLNDINPDAVELIKKNLELNGLENEKVFNKDANALLHE---ERKFDVVDIDPF 134 (382)
T ss_pred CCEEEECCCcccHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCceEEEhhhHHHHHhh---cCCCCEEEECCC
Confidence 57899999999999988854322 1222222222222220 01 112444443221111 122234445986
Q ss_pred ccchhhhHHHHHHhh-hccCCcEEEEecCCccccccc
Q 002563 304 FGVKAGLANKFINKA-LEFNPKLLILIVPPETERLDR 339 (907)
Q Consensus 304 FG~kA~LANKFIdkA-L~FkPKLIILIvPpeTeRLD~ 339 (907)
| ++..|++.| ...+|+=||-|.=.++..|=+
T Consensus 135 -G----s~~~~l~~al~~~~~~gilyvSAtD~~~L~g 166 (382)
T PRK04338 135 -G----SPAPFLDSAIRSVKRGGLLCVTATDTAPLCG 166 (382)
T ss_pred -C----CcHHHHHHHHHHhcCCCEEEEEecCchhhcC
Confidence 7 567899995 456888899998777666633
No 110
>PF10237 N6-adenineMlase: Probable N6-adenine methyltransferase; InterPro: IPR019369 This family of proteins, which are of approximately 200 residues in length, contain a highly conserved Glu-Phe-Trp (QFW) motif close to the N terminus and an Asp/Asn-Pro-Pro-Tyr/Phe motif in the centre. This latter motif is characteristic of N-6 adenine-specific DNA methylases and could be involved in substrate binding or in the catalytic activity (, ).
Probab=36.93 E-value=1.3e+02 Score=30.21 Aligned_cols=112 Identities=20% Similarity=0.268 Sum_probs=57.6
Q ss_pred hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCcccccccc----ccCCCCCCccccccccccccCCCC
Q 002563 215 KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNY----DILPAKNDFNFEKRDWMTVEPKEL 290 (907)
Q Consensus 215 K~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNy----DliqpKN~fnFEkrDWmtVqp~EL 290 (907)
..+.+.-+++.|.-...++..|.-+||=+- |-.|.+ -...++.|.--=| ..+..+ .|.|=.-+ +|.+|
T Consensus 8 s~~T~~~l~~~l~~~~~~~~~iaclstPsl-~~~l~~--~~~~~~~~~Lle~D~RF~~~~~~-~F~fyD~~----~p~~~ 79 (162)
T PF10237_consen 8 SDETAEFLARELLDGALDDTRIACLSTPSL-YEALKK--ESKPRIQSFLLEYDRRFEQFGGD-EFVFYDYN----EPEEL 79 (162)
T ss_pred CHHHHHHHHHHHHHhcCCCCEEEEEeCcHH-HHHHHh--hcCCCccEEEEeecchHHhcCCc-ceEECCCC----Chhhh
Confidence 345566677777776777788888888652 222222 1124444442222 233322 23322111 34444
Q ss_pred C---CCCeeeeeeCCCccchhhhHHHHHHhhhc-cCC-cEEEEecCCccc
Q 002563 291 A---PGSRLIMGLNPPFGVKAGLANKFINKALE-FNP-KLLILIVPPETE 335 (907)
Q Consensus 291 P---~Gs~LIMGLNPPFG~kA~LANKFIdkAL~-FkP-KLIILIvPpeTe 335 (907)
| +|+..+|-.+||| +.-.++.|+..-+-- .+| --||++.+.+-+
T Consensus 80 ~~~l~~~~d~vv~DPPF-l~~ec~~k~a~ti~~L~k~~~kii~~Tg~~~~ 128 (162)
T PF10237_consen 80 PEELKGKFDVVVIDPPF-LSEECLTKTAETIRLLLKPGGKIILCTGEEME 128 (162)
T ss_pred hhhcCCCceEEEECCCC-CCHHHHHHHHHHHHHHhCccceEEEecHHHHH
Confidence 4 7899999999999 444444444332211 122 234566665543
No 111
>PLN02271 serine hydroxymethyltransferase
Probab=36.29 E-value=21 Score=42.08 Aligned_cols=17 Identities=53% Similarity=0.868 Sum_probs=12.8
Q ss_pred CCCCCCCeeeeeeCCCcc
Q 002563 288 KELAPGSRLIMGLNPPFG 305 (907)
Q Consensus 288 ~ELP~Gs~LIMGLNPPFG 305 (907)
-=|..|+ -||||+.++|
T Consensus 233 ALl~PGD-~IL~ldl~~G 249 (586)
T PLN02271 233 GLLLPGD-RIMGLDSPSG 249 (586)
T ss_pred HhcCCCC-EEEEecCCCC
Confidence 4467787 5788888887
No 112
>PRK10992 iron-sulfur cluster repair di-iron protein; Provisional
Probab=36.17 E-value=13 Score=38.10 Aligned_cols=21 Identities=24% Similarity=0.765 Sum_probs=13.1
Q ss_pred EeccCCcchHHHHHHHHHHhhCcc
Q 002563 237 VDFCCGANDFSCLMKKKLDETGKN 260 (907)
Q Consensus 237 VDfcCG~NdFS~LMk~KLe~~gK~ 260 (907)
+|||||.|. -+.+...+.|.+
T Consensus 27 idfCcgG~~---~l~ea~~~~~i~ 47 (220)
T PRK10992 27 LDFCCGGKQ---TLARAAARKNLD 47 (220)
T ss_pred CcccCCCCc---hHHHHHHHcCCC
Confidence 899999985 334444444443
No 113
>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=35.89 E-value=49 Score=31.43 Aligned_cols=36 Identities=14% Similarity=0.158 Sum_probs=25.9
Q ss_pred hHHHHHHhhcccc-cCCCcEEeccCCcchHHHHHHHH
Q 002563 218 KLQAIVDKLHWYV-NDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 218 kL~eIvdkLhwyV-~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
....++++|...- ..+.+|||+.||...|+..|.+.
T Consensus 19 ~~~~l~~~~~~~~~~~~~~vLDlG~G~G~~~~~l~~~ 55 (240)
T TIGR02072 19 MAKRLLALLKEKGIFIPASVLDIGCGTGYLTRALLKR 55 (240)
T ss_pred HHHHHHHHhhhhccCCCCeEEEECCCccHHHHHHHHh
Confidence 3445666666543 44578999999999999988664
No 114
>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=35.72 E-value=1.1e+02 Score=28.07 Aligned_cols=68 Identities=18% Similarity=0.288 Sum_probs=40.3
Q ss_pred cCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCCC-------------CCCccccccccccccCCCCCCCCe-e
Q 002563 231 NDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPA-------------KNDFNFEKRDWMTVEPKELAPGSR-L 296 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliqp-------------KN~fnFEkrDWmtVqp~ELP~Gs~-L 296 (907)
+.+.+|+|+.||.--|...|.++ .+....+-..|+-+. -.+..|...|+.++... ++ +.. +
T Consensus 2 ~~~~~iLDlGcG~G~~~~~l~~~---~~~~~~i~gvD~s~~~i~~a~~~~~~~~~~ni~~~~~d~~~l~~~-~~-~~~D~ 76 (152)
T PF13847_consen 2 KSNKKILDLGCGTGRLLIQLAKE---LNPGAKIIGVDISEEMIEYAKKRAKELGLDNIEFIQGDIEDLPQE-LE-EKFDI 76 (152)
T ss_dssp TTTSEEEEET-TTSHHHHHHHHH---STTTSEEEEEESSHHHHHHHHHHHHHTTSTTEEEEESBTTCGCGC-SS-TTEEE
T ss_pred CCCCEEEEecCcCcHHHHHHHHh---cCCCCEEEEEECcHHHHHHhhcccccccccccceEEeehhccccc-cC-CCeeE
Confidence 56889999999999999988752 222333444443321 11467888888886544 55 332 4
Q ss_pred eeeeCCCc
Q 002563 297 IMGLNPPF 304 (907)
Q Consensus 297 IMGLNPPF 304 (907)
|+- +++|
T Consensus 77 I~~-~~~l 83 (152)
T PF13847_consen 77 IIS-NGVL 83 (152)
T ss_dssp EEE-ESTG
T ss_pred EEE-cCch
Confidence 443 5555
No 115
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=35.58 E-value=48 Score=36.39 Aligned_cols=34 Identities=26% Similarity=0.443 Sum_probs=25.9
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 218 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 218 kL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
|+..|+++| .+.+|++|+|++||.-.+...+.+.
T Consensus 155 k~~~l~~~l--~l~~g~rVLDIGcG~G~~a~~la~~ 188 (383)
T PRK11705 155 KLDLICRKL--QLKPGMRVLDIGCGWGGLARYAAEH 188 (383)
T ss_pred HHHHHHHHh--CCCCCCEEEEeCCCccHHHHHHHHH
Confidence 344455554 3689999999999999999888653
No 116
>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=34.57 E-value=12 Score=37.32 Aligned_cols=100 Identities=19% Similarity=0.471 Sum_probs=48.2
Q ss_pred CcEEeccCCcch----HHHHHHH----HHHhhCccccccccccCCCCCCccccccccccccCCCCCCCC-eeeeeeCCCc
Q 002563 234 DMIVDFCCGAND----FSCLMKK----KLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGS-RLIMGLNPPF 304 (907)
Q Consensus 234 DtiVDfcCG~Nd----FS~LMk~----KLe~~gK~C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs-~LIMGLNPPF 304 (907)
++|||.|||.-- |.+.-+. -++..-..|.-.|-.+.--.+...|-.-||+++-++ +.... .=++=|.||+
T Consensus 1 ~~vlD~fcG~GGNtIqFA~~~~~Viaidid~~~~~~a~hNa~vYGv~~~I~~i~gD~~~~~~~-~~~~~~~D~vFlSPPW 79 (163)
T PF09445_consen 1 TTVLDAFCGVGGNTIQFARTFDRVIAIDIDPERLECAKHNAEVYGVADNIDFICGDFFELLKR-LKSNKIFDVVFLSPPW 79 (163)
T ss_dssp SEEEETT-TTSHHHHHHHHTT-EEEEEES-HHHHHHHHHHHHHTT-GGGEEEEES-HHHHGGG-B------SEEEE---B
T ss_pred CEEEEeccCcCHHHHHHHHhCCeEEEEECCHHHHHHHHHHHHHcCCCCcEEEEeCCHHHHHhh-ccccccccEEEECCCC
Confidence 479999998642 3322100 012223345566766665567789999999998665 22222 1244569999
Q ss_pred cchh-------hh--------HHHHHHhhhccCCcEEEEecCCccc
Q 002563 305 GVKA-------GL--------ANKFINKALEFNPKLLILIVPPETE 335 (907)
Q Consensus 305 G~kA-------~L--------ANKFIdkAL~FkPKLIILIvPpeTe 335 (907)
|=.. .| ..+.+..+...-|. |||.+|.-++
T Consensus 80 GGp~Y~~~~~fdL~~~~~p~~~~~l~~~~~~~t~n-v~l~LPRn~d 124 (163)
T PF09445_consen 80 GGPSYSKKDVFDLEKSMQPFNLEDLLKAARKITPN-VVLFLPRNSD 124 (163)
T ss_dssp SSGGGGGSSSB-TTTSSSS--HHHHHHHHHHH-S--EEEEEETTB-
T ss_pred CCccccccCccCHHHccCCCCHHHHHHHHHhhCCC-EEEEeCCCCC
Confidence 8322 12 22445555555543 4466777665
No 117
>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=34.06 E-value=44 Score=36.66 Aligned_cols=34 Identities=15% Similarity=0.186 Sum_probs=25.5
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 219 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 219 L~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
-..++..|. +++|++|+|+|||...++..|-+.+
T Consensus 227 s~~~~~~L~--~~~g~~VLDlcag~G~kt~~la~~~ 260 (426)
T TIGR00563 227 AQWVATWLA--PQNEETILDACAAPGGKTTHILELA 260 (426)
T ss_pred HHHHHHHhC--CCCCCeEEEeCCCccHHHHHHHHHc
Confidence 344455554 5689999999999999998886543
No 118
>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated
Probab=32.33 E-value=3.3e+02 Score=26.31 Aligned_cols=22 Identities=27% Similarity=0.442 Sum_probs=18.5
Q ss_pred cCCCcEEeccCCcchHHHHHHH
Q 002563 231 NDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
.++.+|+|+.||...|...+.+
T Consensus 62 ~~~~~vLDvGcG~G~~~~~l~~ 83 (230)
T PRK07580 62 LTGLRILDAGCGVGSLSIPLAR 83 (230)
T ss_pred CCCCEEEEEeCCCCHHHHHHHH
Confidence 4678999999999999887743
No 119
>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=31.89 E-value=1.2e+02 Score=23.54 Aligned_cols=27 Identities=11% Similarity=0.445 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHhhccccHHHHHHhccC
Q 002563 102 DSKRRLSSLMKDAASSVRMEEILKRHKI 129 (907)
Q Consensus 102 ~terRllaL~kEaaSsiTledV~kk~~~ 129 (907)
+++++|+.++.+ .+.+|..++.+++.+
T Consensus 3 ~~~~~Il~~l~~-~~~~t~~ela~~~~i 29 (48)
T PF13412_consen 3 ETQRKILNYLRE-NPRITQKELAEKLGI 29 (48)
T ss_dssp HHHHHHHHHHHH-CTTS-HHHHHHHHTS
T ss_pred HHHHHHHHHHHH-cCCCCHHHHHHHhCC
Confidence 678899999988 555999999998664
No 120
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=31.68 E-value=52 Score=32.74 Aligned_cols=32 Identities=16% Similarity=0.486 Sum_probs=24.6
Q ss_pred HHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 220 QAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 220 ~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
++++++| -+.+++.|+|+.||...|...+.++
T Consensus 21 ~~ll~~~--~~~~~~~vLDiGcG~G~~~~~la~~ 52 (258)
T PRK01683 21 RDLLARV--PLENPRYVVDLGCGPGNSTELLVER 52 (258)
T ss_pred HHHHhhC--CCcCCCEEEEEcccCCHHHHHHHHH
Confidence 3455544 2467899999999999999888764
No 121
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=31.55 E-value=40 Score=35.96 Aligned_cols=22 Identities=18% Similarity=0.406 Sum_probs=17.9
Q ss_pred CCCcEEeccCCcchHHHHHHHH
Q 002563 232 DGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 232 ~GDtiVDfcCG~NdFS~LMk~K 253 (907)
....|+|+|||.---+-++..+
T Consensus 44 ~~~~IlDlGaG~G~l~L~la~r 65 (248)
T COG4123 44 KKGRILDLGAGNGALGLLLAQR 65 (248)
T ss_pred cCCeEEEecCCcCHHHHHHhcc
Confidence 3667999999998888777665
No 122
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=31.45 E-value=53 Score=36.10 Aligned_cols=195 Identities=21% Similarity=0.299 Sum_probs=101.4
Q ss_pred cCCCCchHHHHHHHHHHHHhhccccHHHHHHhccCCCccccccccccccchhccchhhHHHHHHHHHhhcccCCC-Chhh
Q 002563 95 ELPSLDEDSKRRLSSLMKDAASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGS-SIED 173 (907)
Q Consensus 95 s~P~~Da~terRllaL~kEaaSsiTledV~kk~~~pSth~~~~rnvvdk~IT~GKlEgSVqAvr~AL~kLe~~G~-sied 173 (907)
-.|--.++.|-+|..|+....+ .. .++.-|+.+.-|..+ +++|+.-|+ +-.|
T Consensus 44 ~~pK~~~e~e~qLa~ll~~~~~--------------------g~----~i~v~g~~~~g~~s~---~k~l~~~~~~~~~~ 96 (300)
T COG2813 44 YWPKHKAEAEFQLAQLLARLPP--------------------GG----EIVVVGEKRDGVRSA---EKMLEKYGGPTKTD 96 (300)
T ss_pred EccCchHHHHHHHHHHHhhCCC--------------------CC----eEEEEecccchHHHH---HHHHHHhcCccccc
Confidence 3566678888888887754321 11 335667766665544 445543333 2233
Q ss_pred hhhcc--------ChhHHhHHHHHhhccccccccccccccccccCcccch--hhhHHHHHHhhcccccCCCcEEeccCCc
Q 002563 174 AKAVC--------EPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTK--VDKLQAIVDKLHWYVNDGDMIVDFCCGA 243 (907)
Q Consensus 174 AKAvC--------eP~vL~QL~rwk~kLkvYLAPfLhG~RYTSfGRHFTK--~ekL~eIvdkLhwyV~~GDtiVDfcCG~ 243 (907)
++-.| +|.....+-.|+..++ .++.+.++-==-|.+ ++.=-++.=.=...-..| .|+||.||+
T Consensus 97 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~t~pGVFS~~~lD~GS~lLl~~l~~~~~~-~vlDlGCG~ 169 (300)
T COG2813 97 SARHCMRLHYYSENPPPFADEPEWKVYLL------GHELTFKTLPGVFSRDKLDKGSRLLLETLPPDLGG-KVLDLGCGY 169 (300)
T ss_pred hHhhcceeEeecCCCCcccchhhhhhhhc------cCceEEEeCCCCCcCCCcChHHHHHHHhCCccCCC-cEEEeCCCc
Confidence 44444 2333333444443333 566666644334432 222222211111222234 899999999
Q ss_pred chHHHHHHHHHHhhCcccc----------ccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCCCccc----hhh
Q 002563 244 NDFSCLMKKKLDETGKNCL----------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGV----KAG 309 (907)
Q Consensus 244 NdFS~LMk~KLe~~gK~C~----------fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~----kA~ 309 (907)
---+..|.++.-.....+. =+|-..=..+|. +. |++--.+.+..=-.+|+= ||||-- --.
T Consensus 170 Gvlg~~la~~~p~~~vtmvDvn~~Av~~ar~Nl~~N~~~~~--~v---~~s~~~~~v~~kfd~Iis-NPPfh~G~~v~~~ 243 (300)
T COG2813 170 GVLGLVLAKKSPQAKLTLVDVNARAVESARKNLAANGVENT--EV---WASNLYEPVEGKFDLIIS-NPPFHAGKAVVHS 243 (300)
T ss_pred cHHHHHHHHhCCCCeEEEEecCHHHHHHHHHhHHHcCCCcc--EE---EEecccccccccccEEEe-CCCccCCcchhHH
Confidence 9999999887654444433 233333333443 11 333333444442335555 999942 234
Q ss_pred hHHHHHHhhhc---cCCcEEEEe
Q 002563 310 LANKFINKALE---FNPKLLILI 329 (907)
Q Consensus 310 LANKFIdkAL~---FkPKLIILI 329 (907)
+|.+||..|.. -.=+|-|+|
T Consensus 244 ~~~~~i~~A~~~L~~gGeL~iVa 266 (300)
T COG2813 244 LAQEIIAAAARHLKPGGELWIVA 266 (300)
T ss_pred HHHHHHHHHHHhhccCCEEEEEE
Confidence 57799988754 344566655
No 123
>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=31.45 E-value=16 Score=34.62 Aligned_cols=23 Identities=17% Similarity=0.209 Sum_probs=18.9
Q ss_pred cCCCcEEeccCCcchHHHHHHHH
Q 002563 231 NDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
.+++.|+|++||.--++..+.+.
T Consensus 18 ~~~~~vLdlG~G~G~~~~~l~~~ 40 (179)
T TIGR00537 18 LKPDDVLEIGAGTGLVAIRLKGK 40 (179)
T ss_pred cCCCeEEEeCCChhHHHHHHHhc
Confidence 46788999999999998777653
No 124
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=31.39 E-value=61 Score=32.90 Aligned_cols=37 Identities=24% Similarity=0.278 Sum_probs=24.6
Q ss_pred cccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHH
Q 002563 211 RHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMK 251 (907)
Q Consensus 211 RHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk 251 (907)
-|-|..-.|+.+. -++.+|+.|+|+.||.--.+..+.
T Consensus 102 ~h~tt~~~l~~l~----~~~~~~~~VLDiGcGsG~l~i~~~ 138 (250)
T PRK00517 102 THPTTRLCLEALE----KLVLPGKTVLDVGCGSGILAIAAA 138 (250)
T ss_pred CCHHHHHHHHHHH----hhcCCCCEEEEeCCcHHHHHHHHH
Confidence 4555444444443 357899999999999976555443
No 125
>COG0270 Dcm Site-specific DNA methylase [DNA replication, recombination, and repair]
Probab=30.68 E-value=75 Score=33.92 Aligned_cols=95 Identities=23% Similarity=0.393 Sum_probs=53.5
Q ss_pred cEEeccCCcchHHHHHHHHHHhhCccccccccccCC-----CCCCc---cccccccccccCCCCCC--CCeeeeeeCC--
Q 002563 235 MIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP-----AKNDF---NFEKRDWMTVEPKELAP--GSRLIMGLNP-- 302 (907)
Q Consensus 235 tiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq-----pKN~f---nFEkrDWmtVqp~ELP~--Gs~LIMGLNP-- 302 (907)
++|||+||+--|+.= ++..|-+|.+-| |+-+ -+.+| .+...|=.++..++++. =+ +|+|==|
T Consensus 5 ~~idLFsG~GG~~lG----f~~agf~~~~a~-Eid~~a~~ty~~n~~~~~~~~~di~~~~~~~~~~~~~D-vligGpPCQ 78 (328)
T COG0270 5 KVIDLFAGIGGLSLG----FEEAGFEIVFAN-EIDPPAVATYKANFPHGDIILGDIKELDGEALRKSDVD-VLIGGPPCQ 78 (328)
T ss_pred eEEeeccCCchHHHH----HHhcCCeEEEEE-ecCHHHHHHHHHhCCCCceeechHhhcChhhccccCCC-EEEeCCCCc
Confidence 589999999999954 455676665422 1100 01111 12222323334445442 34 5555233
Q ss_pred Ccc----------chhhhHHHHHHhhhccCCcEEEEe-cCCccc
Q 002563 303 PFG----------VKAGLANKFINKALEFNPKLLILI-VPPETE 335 (907)
Q Consensus 303 PFG----------~kA~LANKFIdkAL~FkPKLIILI-vPpeTe 335 (907)
+|- -++.|.-.||.=+-++||+++|+= ||-...
T Consensus 79 ~FS~aG~r~~~~D~R~~L~~~~~r~I~~~~P~~fv~ENV~gl~~ 122 (328)
T COG0270 79 DFSIAGKRRGYDDPRGSLFLEFIRLIEQLRPKFFVLENVKGLLS 122 (328)
T ss_pred chhhcCcccCCcCccceeeHHHHHHHHhhCCCEEEEecCchHHh
Confidence 453 356788889999999999888773 443333
No 126
>cd06253 M14_ASTE_ASPA_like_3 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=30.52 E-value=49 Score=35.13 Aligned_cols=46 Identities=20% Similarity=0.211 Sum_probs=33.2
Q ss_pred cccccccc-----cCcccchh---hhHHHHHHhhcccccCCCcEEeccCCcchH
Q 002563 201 LHGMRYTS-----FGRHFTKV---DKLQAIVDKLHWYVNDGDMIVDFCCGANDF 246 (907)
Q Consensus 201 LhG~RYTS-----fGRHFTK~---ekL~eIvdkLhwyV~~GDtiVDfcCG~NdF 246 (907)
..+.||.+ +.|.|.-. +--+.|+..|.-.+..-|.+|||-||...+
T Consensus 73 ~~~~R~~p~d~~dlNR~Fpg~~~g~~~~riA~~~~~~~~~~d~~iDLHsg~~~~ 126 (298)
T cd06253 73 NLGTRFWPTDNSDINRMFPGDPQGETTQRIAAAVFEDVKGADYCIDLHSSNIFL 126 (298)
T ss_pred HHhhCcCCCCCCcccccCCCCCCCcHHHHHHHHHHHHhcCCCEEEEccCCCccc
Confidence 35888875 88888722 235667777766678889999999987443
No 127
>cd04813 PA_1 PA_1: Protease-associated (PA) domain subgroup 1. A subgroup of PA-domain containing proteins. Proteins in this subgroup contain a RING-finger (Really Interesting New Gene) domain C-terminal to this PA domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins in this group contain a C-terminal RING-finger domain. Proteins into which the PA domain is inserted include the following: i) various signal peptide peptidases: such as hSPPL2a and 2b, ii) various E3 ubiquitin ligases similar to human GRAIL (gene related to anergy in lymphocytes) protein, iii) various proteins containing a RING finger motif such as Arabid
Probab=29.29 E-value=23 Score=33.17 Aligned_cols=16 Identities=38% Similarity=0.509 Sum_probs=14.4
Q ss_pred cccccccccCcccchh
Q 002563 201 LHGMRYTSFGRHFTKV 216 (907)
Q Consensus 201 LhG~RYTSfGRHFTK~ 216 (907)
|-|.||.|||-+|+..
T Consensus 2 ~~~~~~~~~~~~~~~~ 17 (117)
T cd04813 2 LIGGRYASFSPILNPH 17 (117)
T ss_pred cccccccccCCccCcc
Confidence 5699999999999986
No 128
>COG1041 Predicted DNA modification methylase [DNA replication, recombination, and repair]
Probab=29.12 E-value=1.1e+02 Score=34.33 Aligned_cols=91 Identities=21% Similarity=0.490 Sum_probs=49.8
Q ss_pred ccCCCcEEeccCCcchHHH---HH----------HHHHHhhCccccccccccCCCCCCccccccccccc-cCCCCCCCCe
Q 002563 230 VNDGDMIVDFCCGANDFSC---LM----------KKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTV-EPKELAPGSR 295 (907)
Q Consensus 230 V~~GDtiVDfcCG~NdFS~---LM----------k~KLe~~gK~C~fKNyDliqpKN~fnFEkrDWmtV-qp~ELP~Gs~ 295 (907)
|..|+.|+|.-||.-.|.- || .++++. -.-+++=|- | .+|.| +++ +.+.||==++
T Consensus 195 v~~G~~vlDPFcGTGgiLiEagl~G~~viG~Did~~mv~g--ak~Nl~~y~-i---~~~~~-----~~~~Da~~lpl~~~ 263 (347)
T COG1041 195 VKRGELVLDPFCGTGGILIEAGLMGARVIGSDIDERMVRG--AKINLEYYG-I---EDYPV-----LKVLDATNLPLRDN 263 (347)
T ss_pred cccCCEeecCcCCccHHHHhhhhcCceEeecchHHHHHhh--hhhhhhhhC-c---CceeE-----EEecccccCCCCCC
Confidence 6789999999999988831 11 122222 111222221 0 11111 444 5666663333
Q ss_pred e--eeeeCCCccchh--------hhHHHHHHhhhcc-CC-cEEEEecC
Q 002563 296 L--IMGLNPPFGVKA--------GLANKFINKALEF-NP-KLLILIVP 331 (907)
Q Consensus 296 L--IMGLNPPFG~kA--------~LANKFIdkAL~F-kP-KLIILIvP 331 (907)
. -|--+||+|..+ .|-.+|++.|.+- +| -.|++.+|
T Consensus 264 ~vdaIatDPPYGrst~~~~~~l~~Ly~~~le~~~evLk~gG~~vf~~p 311 (347)
T COG1041 264 SVDAIATDPPYGRSTKIKGEGLDELYEEALESASEVLKPGGRIVFAAP 311 (347)
T ss_pred ccceEEecCCCCcccccccccHHHHHHHHHHHHHHHhhcCcEEEEecC
Confidence 2 244599999988 4555666666553 33 24677777
No 129
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=28.97 E-value=40 Score=37.44 Aligned_cols=24 Identities=13% Similarity=0.297 Sum_probs=20.3
Q ss_pred ccCCCcEEeccCCcchHHHHHHHH
Q 002563 230 VNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 230 V~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
+++|++|+|+|||....+..|-+.
T Consensus 235 ~~~g~~VLD~cagpGgkt~~la~~ 258 (431)
T PRK14903 235 LEPGLRVLDTCAAPGGKTTAIAEL 258 (431)
T ss_pred CCCCCEEEEeCCCccHHHHHHHHH
Confidence 568999999999999998877553
No 130
>PF13651 EcoRI_methylase: Adenine-specific methyltransferase EcoRI
Probab=28.90 E-value=51 Score=36.92 Aligned_cols=62 Identities=27% Similarity=0.530 Sum_probs=39.6
Q ss_pred eeeeCCCccchhhhHHHHHHhhhccCCcEEEE-----ecCCccccccccCCCceeeeccccccCCcceecCCCcc
Q 002563 297 IMGLNPPFGVKAGLANKFINKALEFNPKLLIL-----IVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVD 366 (907)
Q Consensus 297 IMGLNPPFG~kA~LANKFIdkAL~FkPKLIIL-----IvPpeTeRLD~K~~pY~LiWED~~~LsGkSFYlPGSVD 366 (907)
|+.-||||. |+..||....+-+=|+||| |+-+|.=-|=+. +-+|=--.+=....|.+|-...
T Consensus 138 IVVTNPPFS----LFrEyv~~Li~~~KkFlIIGN~NaiTYkeiFplik~----nk~WlG~~~~g~~~F~vP~~~~ 204 (336)
T PF13651_consen 138 IVVTNPPFS----LFREYVAQLIEYDKKFLIIGNINAITYKEIFPLIKE----NKIWLGYTFRGDMWFRVPDDYE 204 (336)
T ss_pred EEEeCCCcH----HHHHHHHHHHHhCCCEEEEeccccccHHHHHHHHhc----CcEEeccccCCceeeecCCCCc
Confidence 566699998 9999999999999899887 333332211000 2356555552234577886443
No 131
>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=28.75 E-value=25 Score=38.23 Aligned_cols=15 Identities=40% Similarity=1.112 Sum_probs=10.7
Q ss_pred CCCcEEeccCC-cchH
Q 002563 232 DGDMIVDFCCG-ANDF 246 (907)
Q Consensus 232 ~GDtiVDfcCG-~NdF 246 (907)
++.+|+|+||| .-|.
T Consensus 62 ~~~~VLDl~CGkGGDL 77 (331)
T PF03291_consen 62 PGLTVLDLCCGKGGDL 77 (331)
T ss_dssp TT-EEEEET-TTTTTH
T ss_pred CCCeEEEecCCCchhH
Confidence 89999999999 5553
No 132
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=28.50 E-value=44 Score=36.74 Aligned_cols=31 Identities=13% Similarity=0.268 Sum_probs=23.7
Q ss_pred HHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 222 IVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 222 IvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
++..|. +++|++|+|+|||.-.++..|-+..
T Consensus 236 ~~~~l~--~~~g~~VLDlgaG~G~~t~~la~~~ 266 (427)
T PRK10901 236 AATLLA--PQNGERVLDACAAPGGKTAHILELA 266 (427)
T ss_pred HHHHcC--CCCCCEEEEeCCCCChHHHHHHHHc
Confidence 444443 5789999999999999998886543
No 133
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=28.41 E-value=65 Score=32.47 Aligned_cols=33 Identities=12% Similarity=0.165 Sum_probs=25.0
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563 217 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 217 ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
..|.++++.|- ..+.+|+|+.||.-.++..|.+
T Consensus 32 ~~~~~~l~~l~---~~~~~vLDiGcG~G~~a~~la~ 64 (255)
T PRK11036 32 QDLDRLLAELP---PRPLRVLDAGGGEGQTAIKLAE 64 (255)
T ss_pred HHHHHHHHhcC---CCCCEEEEeCCCchHHHHHHHH
Confidence 34555655553 6788999999999999988855
No 134
>PRK13699 putative methylase; Provisional
Probab=28.03 E-value=42 Score=34.30 Aligned_cols=26 Identities=12% Similarity=0.252 Sum_probs=19.2
Q ss_pred HHHHhhc-ccccCCCcEEeccCCcchH
Q 002563 221 AIVDKLH-WYVNDGDMIVDFCCGANDF 246 (907)
Q Consensus 221 eIvdkLh-wyV~~GDtiVDfcCG~NdF 246 (907)
+++++|. -|-++||+|+|+.||+-..
T Consensus 151 ~l~~~~i~~~s~~g~~vlDpf~Gsgtt 177 (227)
T PRK13699 151 TSLQPLIESFTHPNAIVLDPFAGSGST 177 (227)
T ss_pred HHHHHHHHHhCCCCCEEEeCCCCCCHH
Confidence 3444433 4678999999999999654
No 135
>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=27.79 E-value=1.4e+02 Score=33.31 Aligned_cols=71 Identities=21% Similarity=0.478 Sum_probs=46.6
Q ss_pred CCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCC--Cccchhh
Q 002563 232 DGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNP--PFGVKAG 309 (907)
Q Consensus 232 ~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNP--PFG~kA~ 309 (907)
.|-+|+|+-||.-=|+=-|. ..|-++|+|+.| .|=.+..
T Consensus 115 ~gk~VLDIGC~nGY~~frM~---------------------------------------~~GA~~ViGiDP~~lf~~QF~ 155 (315)
T PF08003_consen 115 KGKRVLDIGCNNGYYSFRML---------------------------------------GRGAKSVIGIDPSPLFYLQFE 155 (315)
T ss_pred CCCEEEEecCCCcHHHHHHh---------------------------------------hcCCCEEEEECCChHHHHHHH
Confidence 68899999999998886663 456679999998 6666666
Q ss_pred hHHHHHHhhhccCCcEEEEecCCccccccccCCCceeee
Q 002563 310 LANKFINKALEFNPKLLILIVPPETERLDRKESAYELVW 348 (907)
Q Consensus 310 LANKFIdkAL~FkPKLIILIvPpeTeRLD~K~~pY~LiW 348 (907)
++++|+.. + ..+..+|-..|-|-. ...||+|.
T Consensus 156 ~i~~~lg~----~--~~~~~lplgvE~Lp~-~~~FDtVF 187 (315)
T PF08003_consen 156 AIKHFLGQ----D--PPVFELPLGVEDLPN-LGAFDTVF 187 (315)
T ss_pred HHHHHhCC----C--ccEEEcCcchhhccc-cCCcCEEE
Confidence 77777742 2 233444545554443 23455544
No 136
>PF05413 Peptidase_C34: Putative closterovirus papain-like endopeptidase; InterPro: IPR008744 RNA-directed RNA polymerase (RdRp) (2.7.7.48 from EC) is an essential protein encoded in the genomes of all RNA containing viruses with no DNA stage [, ]. It catalyses synthesis of the RNA strand complementary to a given RNA template, but the precise molecular mechanism remains unclear. The postulated RNA replication process is a two-step mechanism. First, the initiation step of RNA synthesis begins at or near the 3' end of the RNA template by means of a primer-independent (de novo) mechanism. The de novo initiation consists in the addition of a nucleotide tri-phosphate (NTP) to the 3'-OH of the first initiating NTP. During the following so-called elongation phase, this nucleotidyl transfer reaction is repeated with subsequent NTPs to generate the complementary RNA product []. All the RNA-directed RNA polymerases, and many DNA-directed polymerases, employ a fold whose organisation has been likened to the shape of a right hand with three subdomains termed fingers, palm and thumb []. Only the catalytic palm subdomain, composed of a four-stranded antiparallel beta-sheet with two alpha-helices, is well conserved among all of these enzymes. In RdRp, the palm subdomain comprises three well conserved motifs (A, B and C). Motif A (D-x(4,5)-D) and motif C (GDD) are spatially juxtaposed; the Asp residues of these motifs are implied in the binding of Mg2+ and/or Mn2+. The Asn residue of motif B is involved in selection of ribonucleoside triphosphates over dNTPs and thus determines whether RNA is synthesised rather than DNA []. The domain organisation [] and the 3D structure of the catalytic centre of a wide range of RdPp's, even those with a low overall sequence homology, are conserved. The catalytic centre is formed by several motifs containing a number of conserved amino acid residues. There are 4 superfamilies of viruses that cover all RNA containing viruses with no DNA stage: Viruses containing positive-strand RNA or double-strand RNA, except retroviruses and Birnaviridae: viral RNA-directed RNA polymerases including all positive-strand RNA viruses with no DNA stage, double-strand RNA viruses, and the Cystoviridae, Reoviridae, Hypoviridae, Partitiviridae, Totiviridae families. Mononegavirales (negative-strand RNA viruses with non-segmented genomes). Negative-strand RNA viruses with segmented genomes, i.e. Orthomyxoviruses (including influenza A, B, and C viruses, Thogotoviruses, and the infectious salmon anemia virus), Arenaviruses, Bunyaviruses, Hantaviruses, Nairoviruses, Phleboviruses, Tenuiviruses and Tospoviruses. Birnaviridae family of dsRNA viruses. The RNA-directed RNA polymerases in the first of the above superfamilies can be divided into the following three subgroups: All positive-strand RNA eukaryotic viruses with no DNA stage. All RNA-containing bacteriophages -there are two families of RNA-containing bacteriophages: Leviviridae (positive ssRNA phages) and Cystoviridae (dsRNA phages). Reoviridae family of dsRNA viruses. This signature is found in the RNA-direct RNA polymerase of apple chlorotic leaf spot virus and cherry mottle virus.; GO: 0003723 RNA binding, 0003968 RNA-directed RNA polymerase activity, 0005524 ATP binding, 0019079 viral genome replication
Probab=27.74 E-value=24 Score=33.10 Aligned_cols=13 Identities=62% Similarity=1.112 Sum_probs=12.2
Q ss_pred CCCChhhhhhccC
Q 002563 167 DGSSIEDAKAVCE 179 (907)
Q Consensus 167 ~G~siedAKAvCe 179 (907)
+|||+.||||+|+
T Consensus 42 kGCsidD~k~iC~ 54 (92)
T PF05413_consen 42 KGCSIDDLKAICE 54 (92)
T ss_pred CCCCHHHHHHHHh
Confidence 7999999999994
No 137
>COG4798 Predicted methyltransferase [General function prediction only]
Probab=27.46 E-value=33 Score=36.62 Aligned_cols=48 Identities=15% Similarity=0.244 Sum_probs=36.9
Q ss_pred cccccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCCCCCC
Q 002563 227 HWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKND 274 (907)
Q Consensus 227 hwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliqpKN~ 274 (907)
-|=|.+|+||||+..|.-.|-+++..-+-..|+--.|---+++-++++
T Consensus 43 FaGlkpg~tVid~~PGgGy~TrI~s~~vgp~G~Vy~~~p~e~~~~~~~ 90 (238)
T COG4798 43 FAGLKPGATVIDLIPGGGYFTRIFSPAVGPKGKVYAYVPAELTKFAKR 90 (238)
T ss_pred EeccCCCCEEEEEecCCccHhhhhchhcCCceeEEEecchhhcccccc
Confidence 366899999999999999999999998877775555554455444443
No 138
>PF07091 FmrO: Ribosomal RNA methyltransferase (FmrO); PDB: 3LCU_A 3LCV_B 3FRH_A 3FRI_A 3B89_A 3FZG_A.
Probab=27.13 E-value=53 Score=35.38 Aligned_cols=104 Identities=19% Similarity=0.314 Sum_probs=54.5
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccc--cccccccCCC------------CCCccccccccc
Q 002563 218 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNC--LYKNYDILPA------------KNDFNFEKRDWM 283 (907)
Q Consensus 218 kL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C--~fKNyDliqp------------KN~fnFEkrDWm 283 (907)
-|.++++.+-=.+-+-++|+|+-||.|-|+-- .+.+.+ .|--|||=.. +-.++++-.|=|
T Consensus 91 ~Ld~fY~~if~~~~~p~sVlDigCGlNPlalp------~~~~~~~a~Y~a~DID~~~ve~l~~~l~~l~~~~~~~v~Dl~ 164 (251)
T PF07091_consen 91 NLDEFYDEIFGRIPPPDSVLDIGCGLNPLALP------WMPEAPGATYIAYDIDSQLVEFLNAFLAVLGVPHDARVRDLL 164 (251)
T ss_dssp GHHHHHHHHCCCS---SEEEEET-TTCHHHHH------TTTSSTT-EEEEEESBHHHHHHHHHHHHHTT-CEEEEEE-TT
T ss_pred hHHHHHHHHHhcCCCCchhhhhhccCCceehh------hcccCCCcEEEEEeCCHHHHHHHHHHHHhhCCCcceeEeeee
Confidence 47888999888888899999999999998742 223332 6777776332 234455555666
Q ss_pred cccCCCCCCCCeeeeeeCCCccc-hhhhHHHHHHhhhccCCcEEEEecC
Q 002563 284 TVEPKELAPGSRLIMGLNPPFGV-KAGLANKFINKALEFNPKLLILIVP 331 (907)
Q Consensus 284 tVqp~ELP~Gs~LIMGLNPPFG~-kA~LANKFIdkAL~FkPKLIILIvP 331 (907)
+-.|++ +..--|++=+.|=.-- +...+-+||+. ++-++||+--|
T Consensus 165 ~~~~~~-~~DlaLllK~lp~le~q~~g~g~~ll~~---~~~~~~vVSfP 209 (251)
T PF07091_consen 165 SDPPKE-PADLALLLKTLPCLERQRRGAGLELLDA---LRSPHVVVSFP 209 (251)
T ss_dssp TSHTTS-EESEEEEET-HHHHHHHSTTHHHHHHHH---SCESEEEEEEE
T ss_pred ccCCCC-CcchhhHHHHHHHHHHHhcchHHHHHHH---hCCCeEEEecc
Confidence 554442 2222345444442211 22234566653 23344444444
No 139
>COG2846 Regulator of cell morphogenesis and NO signaling [Cell division and chromosome partitioning]
Probab=27.04 E-value=22 Score=37.74 Aligned_cols=9 Identities=56% Similarity=1.582 Sum_probs=8.0
Q ss_pred EeccCCcch
Q 002563 237 VDFCCGAND 245 (907)
Q Consensus 237 VDfcCG~Nd 245 (907)
+|||||.+.
T Consensus 27 iDFCCGG~~ 35 (221)
T COG2846 27 IDFCCGGKV 35 (221)
T ss_pred CceecCChH
Confidence 799999975
No 140
>TIGR03821 AblA_like_1 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in E. coli, Buchnera, Yersinia, etc.
Probab=26.94 E-value=90 Score=33.63 Aligned_cols=73 Identities=19% Similarity=0.277 Sum_probs=51.5
Q ss_pred HHHHHHHhhcccCCCChhhhhhcc------ChhHHhHHHHHhhccccccccc-cccccccccCccc-chhhhHHHHHHhh
Q 002563 155 EAIRTALKKLDVDGSSIEDAKAVC------EPEVLSQIFKWKNKLKVYLAPF-LHGMRYTSFGRHF-TKVDKLQAIVDKL 226 (907)
Q Consensus 155 qAvr~AL~kLe~~G~siedAKAvC------eP~vL~QL~rwk~kLkvYLAPf-LhG~RYTSfGRHF-TK~ekL~eIvdkL 226 (907)
.+++.|+++|...|..+ .-+.|- +++.|..|++.-.+++ +.|+ ||-.+.+.-+.|| +.+++..+|++.|
T Consensus 220 d~~~~ai~~L~~~Gi~v-~~qtvllkgiNDn~~~l~~L~~~l~~~g--v~pyyl~~~~p~gg~~~f~v~~~~~~~i~~~l 296 (321)
T TIGR03821 220 AEVADALAKLRNAGITL-LNQSVLLRGVNDNADTLAALSERLFDAG--VLPYYLHLLDKVQGAAHFDVDDERARALMAEL 296 (321)
T ss_pred HHHHHHHHHHHHcCCEE-EecceeeCCCCCCHHHHHHHHHHHHHcC--CeeCcccccCCCCCcccccCCHHHHHHHHHHH
Confidence 44666888888788776 455555 6788888888877665 4454 5666666655677 6778888888887
Q ss_pred cccc
Q 002563 227 HWYV 230 (907)
Q Consensus 227 hwyV 230 (907)
.-.+
T Consensus 297 ~~~~ 300 (321)
T TIGR03821 297 LARL 300 (321)
T ss_pred HHhC
Confidence 7654
No 141
>cd06209 BenDO_FAD_NAD Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal ferredoxin at the end fused to an FAD/NADP(P) domain. In dioxygenase FAD/NAD(P) binding domain, the reductase transfers 2 electrons from NAD(P)H to the oxygenase which insert into an aromatic substrate, an initial step in microbial aerobic degradation of aromatic rings. Flavin oxidoreductases use flavins as substrates, unlike flavoenzymes which have a flavin prosthetic group.
Probab=26.93 E-value=1.4e+02 Score=29.20 Aligned_cols=72 Identities=19% Similarity=0.224 Sum_probs=39.8
Q ss_pred cChhHHhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhh
Q 002563 178 CEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET 257 (907)
Q Consensus 178 CeP~vL~QL~rwk~kLkvYLAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~ 257 (907)
.--+.|.+|.++..++++.+. +.- .-...|+.- .+.+.+..+ .+.+.++.| +.||...|-.-+++.|.+.
T Consensus 146 ~~~~~l~~l~~~~~~~~~~~~--~s~-~~~~~~~~g----~v~~~~~~~--~~~~~~~~v-~icGp~~m~~~~~~~l~~~ 215 (228)
T cd06209 146 VELDRLEALAERLPGFSFRTV--VAD-PDSWHPRKG----YVTDHLEAE--DLNDGDVDV-YLCGPPPMVDAVRSWLDEQ 215 (228)
T ss_pred ccHHHHHHHHHhCCCeEEEEE--EcC-CCccCCCcC----CccHHHHHh--hccCCCcEE-EEeCCHHHHHHHHHHHHHc
Confidence 345667777766666664432 211 011223221 122222222 133455554 7999999999999999887
Q ss_pred Cc
Q 002563 258 GK 259 (907)
Q Consensus 258 gK 259 (907)
|.
T Consensus 216 G~ 217 (228)
T cd06209 216 GI 217 (228)
T ss_pred CC
Confidence 75
No 142
>cd03360 LbH_AT_putative Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes showing acyltransferase activity. A few members are identified as NeuD, a sialic acid (Sia) O-acetyltransferase that is required for Sia synthesis and surface polysaccharide sialylation.
Probab=26.62 E-value=3.5e+02 Score=24.57 Aligned_cols=83 Identities=18% Similarity=0.240 Sum_probs=44.2
Q ss_pred CcchHHHHHHHHHHhhCccccccccccCCCCCCccccccccccc---cC--CCCCCCCeeeeeeCCCccchhhhHHHHHH
Q 002563 242 GANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTV---EP--KELAPGSRLIMGLNPPFGVKAGLANKFIN 316 (907)
Q Consensus 242 G~NdFS~LMk~KLe~~gK~C~fKNyDliqpKN~fnFEkrDWmtV---qp--~ELP~Gs~LIMGLNPPFG~kA~LANKFId 316 (907)
|+.+|.+.+-+.|...+ .|+-+.++.......-..-.|+.| .. ...+....+++++-.+ ..+..+..+
T Consensus 3 Gag~~g~~i~~~l~~~~---~~~~vgfidd~~~~~~~~~~~~~V~~~~~~~~~~~~~~~~iiai~~~-~~~~~i~~~--- 75 (197)
T cd03360 3 GAGGHARVVADILEADS---GYEVVGFLDDDPELKGTEGLGLPVGLDELLLLYPPPDDEFVVAIGDN-KLRRKLAEK--- 75 (197)
T ss_pred ecCHHHHHHHHHHHhCC---CceEEEEEeCCccccccccccccccCchhhhhccccCcEEEEecCCH-HHHHHHHHH---
Confidence 78899999988887654 366666665322222223357766 11 1123456677765333 444444444
Q ss_pred hhhccCCcEEEEecCC
Q 002563 317 KALEFNPKLLILIVPP 332 (907)
Q Consensus 317 kAL~FkPKLIILIvPp 332 (907)
......++.++|-|.
T Consensus 76 -~~~~~~~~~~~i~~~ 90 (197)
T cd03360 76 -LLAAGYRFATLIHPS 90 (197)
T ss_pred -HHhcCCccceEECCC
Confidence 333334455566554
No 143
>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=26.36 E-value=1e+02 Score=31.54 Aligned_cols=49 Identities=14% Similarity=0.366 Sum_probs=38.3
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhC
Q 002563 208 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETG 258 (907)
Q Consensus 208 SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~g 258 (907)
.+|++-+.+.-.-.+.+-|- +++|++|+|+-||+-=++.+|-......|
T Consensus 50 ~~~~~is~P~~~a~~l~~L~--l~pg~~VLeIGtGsGY~aAlla~lvg~~g 98 (209)
T PF01135_consen 50 GCGQTISAPSMVARMLEALD--LKPGDRVLEIGTGSGYQAALLAHLVGPVG 98 (209)
T ss_dssp ETTEEE--HHHHHHHHHHTT--C-TT-EEEEES-TTSHHHHHHHHHHSTTE
T ss_pred cceeechHHHHHHHHHHHHh--cCCCCEEEEecCCCcHHHHHHHHhcCccc
Confidence 57789999999999999998 99999999999999999999987655444
No 144
>PLN02244 tocopherol O-methyltransferase
Probab=26.03 E-value=97 Score=33.18 Aligned_cols=24 Identities=29% Similarity=0.434 Sum_probs=21.1
Q ss_pred cCCCcEEeccCCcchHHHHHHHHH
Q 002563 231 NDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
.+++.|+|+.||.-.++..|.++.
T Consensus 117 ~~~~~VLDiGCG~G~~~~~La~~~ 140 (340)
T PLN02244 117 KRPKRIVDVGCGIGGSSRYLARKY 140 (340)
T ss_pred CCCCeEEEecCCCCHHHHHHHHhc
Confidence 578999999999999999887754
No 145
>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=25.51 E-value=1.3e+02 Score=26.88 Aligned_cols=46 Identities=22% Similarity=0.389 Sum_probs=32.4
Q ss_pred hHHHHHHHHHHHH---hhccccHHHHHHhccCCCccccccccccccchhccchhhHHHHHHHHHhhcccCCC
Q 002563 101 EDSKRRLSSLMKD---AASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGS 169 (907)
Q Consensus 101 a~terRllaL~kE---aaSsiTledV~kk~~~pSth~~~~rnvvdk~IT~GKlEgSVqAvr~AL~kLe~~G~ 169 (907)
...+++|+.++++ ...-+.+++|.+++.+ .++.||.||+.|-.+|.
T Consensus 46 ~~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~-----------------------~~~~v~~al~~L~~eG~ 94 (102)
T PF08784_consen 46 SPLQDKVLNFIKQQPNSEEGVHVDEIAQQLGM-----------------------SENEVRKALDFLSNEGH 94 (102)
T ss_dssp -HHHHHHHHHHHC----TTTEEHHHHHHHSTS------------------------HHHHHHHHHHHHHTTS
T ss_pred CHHHHHHHHHHHhcCCCCCcccHHHHHHHhCc-----------------------CHHHHHHHHHHHHhCCe
Confidence 4568999999999 2445788888877532 45567888888876664
No 146
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=24.41 E-value=25 Score=34.21 Aligned_cols=23 Identities=26% Similarity=0.499 Sum_probs=19.2
Q ss_pred cCCCcEEeccCCcchHHHHHHHH
Q 002563 231 NDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
++.-.|||++||.-.|+..|.++
T Consensus 15 ~~~~~ilDiGcG~G~~~~~la~~ 37 (194)
T TIGR00091 15 NKAPLHLEIGCGKGRFLIDMAKQ 37 (194)
T ss_pred CCCceEEEeCCCccHHHHHHHHh
Confidence 45668999999999999888664
No 147
>CHL00067 rps2 ribosomal protein S2
Probab=24.05 E-value=1.1e+02 Score=31.99 Aligned_cols=68 Identities=19% Similarity=0.286 Sum_probs=50.1
Q ss_pred cccccccccccccCcccchhhhHHHHHHhhcccc----cCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCC
Q 002563 197 LAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYV----NDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP 270 (907)
Q Consensus 197 LAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV----~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq 270 (907)
.+|||||.| -|-|+-.+++-....++.-.|+ +.|-.|+ |.+.-..+..+.++.-+.+ .|.|=|...++
T Consensus 31 m~~yIyg~r---~g~~IIdl~~T~~~L~~A~~~i~~i~~~~g~IL-fV~t~~~~~~~v~~~a~~~--~~~yv~~rWig 102 (230)
T CHL00067 31 MAPYIYAER---NGIHIINLVQTARFLSEACDLVFDAASKGKKFL-FVGTKKQAADLVASAAIRA--RCHYVNKRWLG 102 (230)
T ss_pred hhhhhhccc---CCcEEEcHHHHHHHHHHHHHHHHHHHhCCCeEE-EEeCcHHHHHHHHHHHHHh--CCcCccCcccC
Confidence 568999988 6999988887666666655554 4677777 6666678888888877776 46777766665
No 148
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=24.05 E-value=60 Score=27.69 Aligned_cols=31 Identities=6% Similarity=0.308 Sum_probs=26.0
Q ss_pred chHHHHHHHHHHHHhhc-cccHHHHHHhccCC
Q 002563 100 DEDSKRRLSSLMKDAAS-SVRMEEILKRHKIP 130 (907)
Q Consensus 100 Da~terRllaL~kEaaS-siTledV~kk~~~p 130 (907)
..+++++|+.++++.-. .+|..+|.+.+.++
T Consensus 4 ~~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~ 35 (68)
T smart00550 4 QDSLEEKILEFLENSGDETSTALQLAKNLGLP 35 (68)
T ss_pred chHHHHHHHHHHHHCCCCCcCHHHHHHHHCCC
Confidence 45789999999999866 59999999997753
No 149
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=24.01 E-value=56 Score=36.85 Aligned_cols=39 Identities=26% Similarity=0.575 Sum_probs=31.2
Q ss_pred CcccCcccc--ccccchhhhhhcCCCCCCCCCCCCCCCCCCCC-CCCCCCCCc
Q 002563 782 GYRPSMSTD--RELTMWPLARIYGQDFPAPTPGYGQMGSVPSN-LYGNLGSSA 831 (907)
Q Consensus 782 gyr~~~~~~--r~~d~r~qv~~YG~~~p~~~p~ygqmgS~ps~-~y~~lGS~s 831 (907)
||||.+.++ -..++|++++.| .-|++.|++ .||.+|.+.
T Consensus 34 kyrP~~l~dv~~~~ei~st~~~~-----------~~~~~lPh~L~YgPPGtGk 75 (360)
T KOG0990|consen 34 KYRPPFLGIVIKQEPIWSTENRY-----------SGMPGLPHLLFYGPPGTGK 75 (360)
T ss_pred CCCCchhhhHhcCCchhhHHHHh-----------ccCCCCCcccccCCCCCCC
Confidence 899999998 677899999887 556666664 588888866
No 150
>PRK09287 6-phosphogluconate dehydrogenase; Validated
Probab=23.96 E-value=1e+02 Score=35.09 Aligned_cols=31 Identities=23% Similarity=0.523 Sum_probs=23.2
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHH
Q 002563 217 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCL 249 (907)
Q Consensus 217 ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~L 249 (907)
+-.+++++.|..++++||+||| ||..+|..-
T Consensus 66 ~~v~~Vi~~l~~~l~~GdiiID--~gn~~~~~t 96 (459)
T PRK09287 66 APVDAVIEQLLPLLEKGDIIID--GGNSNYKDT 96 (459)
T ss_pred hHHHHHHHHHHhcCCCCCEEEE--CCCCCHHHH
Confidence 4567778899999999999999 444444443
No 151
>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=23.85 E-value=95 Score=32.31 Aligned_cols=42 Identities=17% Similarity=0.310 Sum_probs=33.1
Q ss_pred ccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563 206 YTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 253 (907)
Q Consensus 206 YTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K 253 (907)
|.|-| -+||+++.+++.- .-.|.+|+|+.||.--|+..+-++
T Consensus 55 ~vsr~-----~~kL~~~l~~~~~-~~~~~~vlDiG~gtG~~t~~l~~~ 96 (228)
T TIGR00478 55 FVSRG-----GEKLKEALEEFNI-DVKNKIVLDVGSSTGGFTDCALQK 96 (228)
T ss_pred hhhhh-----HHHHHHHHHhcCC-CCCCCEEEEcccCCCHHHHHHHHc
Confidence 66655 6789999988763 246889999999999999887553
No 152
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=23.67 E-value=96 Score=31.20 Aligned_cols=32 Identities=13% Similarity=0.489 Sum_probs=24.7
Q ss_pred HHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 221 AIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 221 eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
.+++.|. ..++..|||+-||.-.+++.|.+++
T Consensus 20 ~ll~~l~--~~~~~~vLDlGcG~G~~~~~l~~~~ 51 (255)
T PRK14103 20 DLLARVG--AERARRVVDLGCGPGNLTRYLARRW 51 (255)
T ss_pred HHHHhCC--CCCCCEEEEEcCCCCHHHHHHHHHC
Confidence 3445443 3678999999999999999987753
No 153
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=23.62 E-value=1e+02 Score=30.24 Aligned_cols=32 Identities=25% Similarity=0.297 Sum_probs=23.4
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563 219 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 219 L~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
+..+...++ ..++..|||++||...|+..|.+
T Consensus 37 ~~~l~~~~~--~~~~~~vLdiG~G~G~~~~~l~~ 68 (233)
T PRK05134 37 LNYIREHAG--GLFGKRVLDVGCGGGILSESMAR 68 (233)
T ss_pred HHHHHHhcc--CCCCCeEEEeCCCCCHHHHHHHH
Confidence 444555555 34788899999999999877754
No 154
>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=23.44 E-value=99 Score=30.72 Aligned_cols=27 Identities=11% Similarity=0.336 Sum_probs=21.6
Q ss_pred ccccCCCcEEeccCCcchHHHHHHHHH
Q 002563 228 WYVNDGDMIVDFCCGANDFSCLMKKKL 254 (907)
Q Consensus 228 wyV~~GDtiVDfcCG~NdFS~LMk~KL 254 (907)
.++.++..|||+-||...++..+-+++
T Consensus 49 ~~~~~~~~iLDlGcG~G~~~~~l~~~~ 75 (239)
T TIGR00740 49 RFVTPDSNVYDLGCSRGAATLSARRNI 75 (239)
T ss_pred HhCCCCCEEEEecCCCCHHHHHHHHhc
Confidence 345688999999999999987775543
No 155
>cd07385 MPP_YkuE_C Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain. YkuE is an uncharacterized Bacillus subtilis protein with a C-terminal metallophosphatase domain and an N-terminal twin-arginine (RR) motif. An RR-signal peptide derived from the Bacillus subtilis YkuE protein can direct Tat-dependent secretion of agarase in Streptomyces lividans. This is an indication that YkuE is transported by the Bacillus subtilis Tat (Twin-arginine translocation) pathway machinery. YkuE belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-dia
Probab=23.08 E-value=2.9e+02 Score=26.61 Aligned_cols=65 Identities=22% Similarity=0.330 Sum_probs=40.5
Q ss_pred CeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCccccccccCCCceeeeccccccCCcceecCC
Q 002563 294 SRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPG 363 (907)
Q Consensus 294 s~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeTeRLD~K~~pY~LiWED~~~LsGkSFYlPG 363 (907)
.-.|+|+..++.....+++.+-. .=.=++.|++.=.|...+++ ...+++|+-.-+.+ |--+++|+
T Consensus 108 ~i~i~G~~~~~~~~~~~~~~~~~-~~~~~~~I~l~H~P~~~~~~--~~~~~dl~l~GHtH--ggqi~~~~ 172 (223)
T cd07385 108 TIGIAGVDDGLGRRPDLEKALKG-LDEDDPNILLAHQPDTAEEA--AAWGVDLQLSGHTH--GGQIRLPG 172 (223)
T ss_pred EEEEEeccCccccCCCHHHHHhC-CCCCCCEEEEecCCChhHHh--cccCccEEEeccCC--CCEEeccc
Confidence 34578888887767776655432 11223455555567766665 34578888877766 55677776
No 156
>COG1307 DegV Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.57 E-value=2.8e+02 Score=29.75 Aligned_cols=94 Identities=19% Similarity=0.217 Sum_probs=59.6
Q ss_pred HHHHHhhcccCCCChhhhhhccChhHHhHHHHHhhccccccc---------------------------cccccc--ccc
Q 002563 157 IRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLA---------------------------PFLHGM--RYT 207 (907)
Q Consensus 157 vr~AL~kLe~~G~siedAKAvCeP~vL~QL~rwk~kLkvYLA---------------------------PfLhG~--RYT 207 (907)
|..|.++++ +|.+.++ +++.|..++++.+.|++ |.|.-. ++.
T Consensus 128 v~~a~~l~~-~G~s~~e--------i~~~l~~~~~~t~~~~~v~~L~~L~kgGRIs~~~a~lg~lL~ikPIl~~~~G~~~ 198 (282)
T COG1307 128 VLEAAELAK-AGKSFEE--------ILKKLEEIREKTKAYFVVDDLDNLVKGGRISKAAAFLGNLLKIKPILSFEDGELV 198 (282)
T ss_pred HHHHHHHHH-cCCCHHH--------HHHHHHHHHhhcEEEEEECchhHHHhCCCcchhHHHHHhhhcceEEEEEeCCEEE
Confidence 334455566 7777443 45566777776666654 555444 788
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCc--chHHHHHHHHHHhhCc
Q 002563 208 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGA--NDFSCLMKKKLDETGK 259 (907)
Q Consensus 208 SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~--NdFS~LMk~KLe~~gK 259 (907)
.++|-+|..-.++.+++.+.-.+.++....-.++.. ++--..++++|.+...
T Consensus 199 ~~~K~R~~kka~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~l~~~~~ 252 (282)
T COG1307 199 LLGKVRGQKKAIKKLIELLKKEVKDGAGYRVAVLHGDAPEAAEQLKEKLLNKFI 252 (282)
T ss_pred EEeecccHHHHHHHHHHHHHHHhccCCceEEEEEeCCchhHHHHHHHHHHhhcC
Confidence 999999999999999999998886444433333333 3334455565655433
No 157
>KOG4589 consensus Cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning]
Probab=21.42 E-value=1.7e+02 Score=31.43 Aligned_cols=78 Identities=22% Similarity=0.256 Sum_probs=54.2
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCCCCCCccccccccccccCCCCCCCCee
Q 002563 217 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRL 296 (907)
Q Consensus 217 ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~L 296 (907)
.||-||.+|- -++.+||||+|.-|--.+||+.-.+|-.- |-+-|- +++++=+-|+|-.
T Consensus 55 FKLiEindKy-~~l~p~~~VlD~G~APGsWsQVavqr~~p----------------~g~v~g----VDllh~~p~~Ga~- 112 (232)
T KOG4589|consen 55 FKLIEINDKY-RFLRPEDTVLDCGAAPGSWSQVAVQRVNP----------------NGMVLG----VDLLHIEPPEGAT- 112 (232)
T ss_pred hhheeehhhc-cccCCCCEEEEccCCCChHHHHHHHhhCC----------------CceEEE----EeeeeccCCCCcc-
Confidence 4788888884 57899999999888889999999875432 233332 3444555577774
Q ss_pred eeeeCCCccchhhhHHHHHHhhh
Q 002563 297 IMGLNPPFGVKAGLANKFINKAL 319 (907)
Q Consensus 297 IMGLNPPFG~kA~LANKFIdkAL 319 (907)
|++.| .++-..+.+=|-.||
T Consensus 113 ~i~~~---dvtdp~~~~ki~e~l 132 (232)
T KOG4589|consen 113 IIQGN---DVTDPETYRKIFEAL 132 (232)
T ss_pred ccccc---ccCCHHHHHHHHHhC
Confidence 44434 667777777777777
No 158
>PRK05625 5-amino-6-(5-phosphoribosylamino)uracil reductase; Validated
Probab=21.32 E-value=55 Score=32.47 Aligned_cols=44 Identities=20% Similarity=0.259 Sum_probs=31.9
Q ss_pred HHHhhcccCCCChhhhhhccChhHHhHHHHH--hhccccccccccccc
Q 002563 159 TALKKLDVDGSSIEDAKAVCEPEVLSQIFKW--KNKLKVYLAPFLHGM 204 (907)
Q Consensus 159 ~AL~kLe~~G~siedAKAvCeP~vL~QL~rw--k~kLkvYLAPfLhG~ 204 (907)
.+|+.|...| +.+.--.+.+.++.++++. -|.|.+|+||.+.|.
T Consensus 131 ~~l~~L~~~g--~~~vlveGG~~l~~~fl~~~LvDel~l~i~P~ilG~ 176 (217)
T PRK05625 131 DLLEDLYERG--IKRLMVEGGGTLIWSMFKEGLVDEVRVTVGPKIIGG 176 (217)
T ss_pred HHHHHHHHCC--CCEEEEecCHHHHHHHHHCCCCcEEEEEEcCeeecC
Confidence 3455555333 4455555778899999966 499999999999993
No 159
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=21.17 E-value=2e+02 Score=30.95 Aligned_cols=22 Identities=23% Similarity=0.345 Sum_probs=18.9
Q ss_pred cCCCcEEeccCCcchHHHHHHH
Q 002563 231 NDGDMIVDFCCGANDFSCLMKK 252 (907)
Q Consensus 231 ~~GDtiVDfcCG~NdFS~LMk~ 252 (907)
..|.+|+|+-||.-.|+..|-+
T Consensus 121 l~g~~VLDIGCG~G~~~~~la~ 142 (322)
T PRK15068 121 LKGRTVLDVGCGNGYHMWRMLG 142 (322)
T ss_pred CCCCEEEEeccCCcHHHHHHHH
Confidence 4689999999999999987744
No 160
>cd07952 ED_3B_like Uncharacterized class III extradiol dioxygenases. This subfamily is composed of proteins of unknown function with similarity to the catalytic B subunit of class III extradiol dioxygenases. Class III extradiol dioxygenases use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. They play key roles in the degradation of aromatic compounds.
Probab=20.97 E-value=1.1e+02 Score=31.54 Aligned_cols=42 Identities=19% Similarity=0.383 Sum_probs=30.1
Q ss_pred CCCCCeeeeeeCCCccchhhhHHHHHHhh--hccCCcEEEEecCCccc
Q 002563 290 LAPGSRLIMGLNPPFGVKAGLANKFINKA--LEFNPKLLILIVPPETE 335 (907)
Q Consensus 290 LP~Gs~LIMGLNPPFG~kA~LANKFIdkA--L~FkPKLIILIvPpeTe 335 (907)
|+||+- +.|......+-|.+|++.. -.++||.||+|.|--+.
T Consensus 5 i~HG~~----~~~~~~~~~~~~~~~l~~~~~~~~~Pd~IvvispH~~~ 48 (256)
T cd07952 5 IPHGDE----IIDPLDEESRKLNEAIKEEGAKNDDPDVLVVITPHGIR 48 (256)
T ss_pred cCCCCc----cCCCCCcchHHHHHHHHHHHHHhcCCCEEEEECCCccc
Confidence 577872 3566666666677787743 23699999999998775
No 161
>PF15584 Imm44: Immunity protein 44
Probab=20.74 E-value=60 Score=30.91 Aligned_cols=46 Identities=22% Similarity=0.605 Sum_probs=27.5
Q ss_pred CCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCccccccccCCCceeeeccccccCC
Q 002563 293 GSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSG 356 (907)
Q Consensus 293 Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeTeRLD~K~~pY~LiWED~~~LsG 356 (907)
+++|++| -|=+=++++.|-++-+-.-. +....-..|||||++-.+|
T Consensus 38 ~~K~~~g-c~NYf~~gs~Ap~~~~e~~~-----------------~~~~t~WRLiWeD~RY~DG 83 (94)
T PF15584_consen 38 KPKLNVG-CPNYFLGGSIAPNYRDEGTD-----------------DEVDTRWRLIWEDKRYEDG 83 (94)
T ss_pred CCccccC-cchhhcCCcccchhhhcccC-----------------CccceEEEEEEecccccCC
Confidence 4445555 34444555555555443332 3345679999999997776
Done!