Query 045201
Match_columns 66
No_of_seqs 100 out of 271
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 10:48:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045201.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045201hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03141 Methyltransf_29: Puta 99.9 5.3E-23 1.1E-27 158.6 5.9 54 1-54 453-506 (506)
2 PF03141 Methyltransf_29: Puta 97.5 7.9E-05 1.7E-09 58.6 2.6 48 1-56 205-262 (506)
3 PRK00107 gidB 16S rRNA methylt 96.2 0.013 2.9E-07 39.9 5.2 53 3-55 133-187 (187)
4 TIGR00537 hemK_rel_arch HemK-r 92.0 0.37 8.1E-06 31.4 4.4 40 2-41 127-167 (179)
5 PRK11188 rrmJ 23S rRNA methylt 91.9 0.18 4E-06 34.4 2.9 49 3-54 153-206 (209)
6 PRK09328 N5-glutamine S-adenos 90.0 0.83 1.8E-05 31.2 4.8 49 3-54 226-275 (275)
7 PRK00121 trmB tRNA (guanine-N( 90.0 0.37 8E-06 32.5 3.0 36 2-37 143-179 (202)
8 PRK14968 putative methyltransf 89.8 0.76 1.6E-05 29.3 4.2 52 2-53 135-187 (188)
9 TIGR00438 rrmJ cell division p 88.0 1 2.2E-05 29.6 4.0 47 3-53 134-186 (188)
10 PRK04266 fibrillarin; Provisio 87.4 2.2 4.8E-05 29.8 5.6 12 2-13 163-174 (226)
11 TIGR03704 PrmC_rel_meth putati 86.9 0.84 1.8E-05 32.1 3.2 40 3-42 204-243 (251)
12 PRK00517 prmA ribosomal protei 86.5 2.6 5.7E-05 29.2 5.5 48 3-54 201-249 (250)
13 PLN02232 ubiquinone biosynthes 85.8 0.3 6.4E-06 31.8 0.4 16 2-17 68-83 (160)
14 KOG2361 Predicted methyltransf 85.8 0.39 8.4E-06 35.5 1.1 14 3-16 171-184 (264)
15 TIGR00536 hemK_fam HemK family 85.8 2.9 6.4E-05 29.5 5.5 49 3-54 232-282 (284)
16 TIGR00138 gidB 16S rRNA methyl 85.3 0.46 9.9E-06 31.9 1.2 36 2-37 129-165 (181)
17 COG2890 HemK Methylase of poly 84.6 2 4.3E-05 30.9 4.2 51 3-54 226-276 (280)
18 KOG4300 Predicted methyltransf 83.7 0.54 1.2E-05 34.5 1.1 16 2-17 169-184 (252)
19 TIGR00091 tRNA (guanine-N(7)-) 82.7 1.5 3.2E-05 29.3 2.8 28 3-30 120-148 (194)
20 PRK00377 cbiT cobalt-precorrin 81.8 2.6 5.7E-05 28.0 3.8 33 3-35 133-166 (198)
21 PRK08287 cobalt-precorrin-6Y C 81.7 1.6 3.5E-05 28.6 2.7 31 3-33 119-150 (187)
22 TIGR03534 RF_mod_PrmC protein- 81.5 2.8 6.1E-05 28.0 3.8 31 3-33 205-235 (251)
23 PF01728 FtsJ: FtsJ-like methy 81.4 2.1 4.4E-05 27.9 3.1 47 4-54 128-180 (181)
24 PLN02781 Probable caffeoyl-CoA 81.3 5.2 0.00011 27.8 5.2 47 3-55 166-233 (234)
25 PRK04457 spermidine synthase; 80.5 5.5 0.00012 28.2 5.2 49 3-54 165-216 (262)
26 PRK14966 unknown domain/N5-glu 80.1 5.3 0.00012 31.1 5.4 50 3-55 369-419 (423)
27 PF01209 Ubie_methyltran: ubiE 78.9 0.6 1.3E-05 32.7 -0.1 15 2-16 140-154 (233)
28 PLN02233 ubiquinone biosynthes 77.4 1.2 2.7E-05 31.2 1.1 14 2-15 169-182 (261)
29 PF13489 Methyltransf_23: Meth 76.3 0.89 1.9E-05 27.9 0.1 15 3-17 103-117 (161)
30 PTZ00098 phosphoethanolamine N 75.5 1.6 3.4E-05 30.7 1.2 14 3-16 144-157 (263)
31 PF06962 rRNA_methylase: Putat 75.4 4.3 9.3E-05 27.2 3.2 52 3-54 80-140 (140)
32 COG4627 Uncharacterized protei 74.8 1.4 3.1E-05 31.0 0.9 12 2-13 73-84 (185)
33 KOG3045 Predicted RNA methylas 74.8 1.3 2.8E-05 33.5 0.7 40 2-41 251-293 (325)
34 TIGR02752 MenG_heptapren 2-hep 74.5 1.8 3.8E-05 28.9 1.2 15 2-16 138-152 (231)
35 PRK11873 arsM arsenite S-adeno 74.1 1.7 3.8E-05 30.0 1.1 13 3-15 171-183 (272)
36 PF05148 Methyltransf_8: Hypot 73.8 2 4.3E-05 31.0 1.4 39 3-41 146-187 (219)
37 COG4123 Predicted O-methyltran 73.1 13 0.00028 27.0 5.5 33 3-35 158-190 (248)
38 smart00828 PKS_MT Methyltransf 72.8 2.1 4.5E-05 28.5 1.2 15 2-16 91-105 (224)
39 TIGR00740 methyltransferase, p 72.5 1.4 3.1E-05 29.9 0.4 15 2-16 148-162 (239)
40 PRK11088 rrmA 23S rRNA methylt 72.2 1.7 3.6E-05 30.4 0.7 15 2-16 168-182 (272)
41 PRK14967 putative methyltransf 70.8 5.8 0.00013 26.8 3.1 35 3-37 147-182 (223)
42 PF01596 Methyltransf_3: O-met 66.7 11 0.00024 26.1 3.8 47 3-55 143-205 (205)
43 PLN02336 phosphoethanolamine N 66.2 2.4 5.3E-05 31.7 0.6 15 2-16 129-143 (475)
44 COG4122 Predicted O-methyltran 65.2 5.7 0.00012 28.2 2.2 51 3-55 154-218 (219)
45 PLN02244 tocopherol O-methyltr 64.9 3.4 7.5E-05 30.1 1.1 14 2-15 210-223 (340)
46 PRK15451 tRNA cmo(5)U34 methyl 64.0 4 8.8E-05 28.1 1.3 15 2-16 151-165 (247)
47 TIGR00406 prmA ribosomal prote 63.5 13 0.00029 26.4 3.9 32 3-35 247-279 (288)
48 TIGR01934 MenG_MenH_UbiE ubiqu 63.4 4.2 9.2E-05 26.4 1.2 14 3-16 131-144 (223)
49 CHL00125 psaE photosystem I su 62.4 3.7 8.1E-05 24.6 0.7 9 3-11 9-17 (64)
50 TIGR02519 pilus_MshL pilus (MS 61.9 7.8 0.00017 27.5 2.4 25 7-31 6-30 (290)
51 PF02427 PSI_PsaE: Photosystem 61.8 3.1 6.8E-05 24.7 0.3 7 3-9 8-14 (61)
52 PTZ00146 fibrillarin; Provisio 61.7 21 0.00044 26.5 4.7 12 2-13 224-235 (293)
53 PRK02749 photosystem I reactio 61.6 3.9 8.5E-05 24.9 0.7 9 3-11 10-18 (71)
54 PRK01544 bifunctional N5-gluta 60.8 20 0.00044 27.9 4.7 49 3-54 257-306 (506)
55 PRK10258 biotin biosynthesis p 60.4 4.1 9E-05 27.7 0.8 14 2-15 127-140 (251)
56 TIGR00477 tehB tellurite resis 60.0 3.3 7.1E-05 27.7 0.2 13 2-14 120-132 (195)
57 PLN02476 O-methyltransferase 59.3 33 0.00071 25.1 5.3 47 3-55 216-278 (278)
58 PRK07402 precorrin-6B methylas 58.9 9.9 0.00021 25.0 2.4 31 2-32 129-160 (196)
59 PRK14103 trans-aconitate 2-met 57.7 5.3 0.00012 27.4 1.0 12 3-14 114-125 (255)
60 TIGR03533 L3_gln_methyl protei 57.6 26 0.00056 25.0 4.5 30 3-33 239-268 (284)
61 PRK08317 hypothetical protein; 56.5 5.4 0.00012 25.9 0.8 13 3-15 112-124 (241)
62 PRK11207 tellurite resistance 56.5 4.1 8.8E-05 27.2 0.2 12 2-13 121-132 (197)
63 PF06859 Bin3: Bicoid-interact 56.2 3.1 6.7E-05 27.0 -0.4 31 3-33 32-70 (110)
64 PRK03612 spermidine synthase; 56.0 18 0.00038 28.2 3.7 52 3-54 403-459 (521)
65 PRK11036 putative S-adenosyl-L 55.9 5.7 0.00012 27.3 0.9 13 2-14 136-148 (255)
66 PF03958 Secretin_N: Bacterial 55.8 10 0.00022 21.5 1.8 23 8-30 54-76 (82)
67 TIGR02520 pilus_B_mal_scr type 55.5 10 0.00023 29.4 2.3 27 7-33 230-256 (497)
68 PF01555 N6_N4_Mtase: DNA meth 54.6 3.4 7.4E-05 26.6 -0.4 56 2-57 43-113 (231)
69 smart00138 MeTrc Methyltransfe 53.9 7.2 0.00016 27.6 1.1 18 2-19 229-246 (264)
70 PRK01581 speE spermidine synth 53.5 45 0.00097 25.7 5.4 55 3-57 256-316 (374)
71 PF02390 Methyltransf_4: Putat 53.5 7.4 0.00016 26.5 1.1 29 2-30 120-149 (195)
72 PLN02589 caffeoyl-CoA O-methyl 53.2 52 0.0011 23.5 5.5 47 3-55 178-246 (247)
73 TIGR02716 C20_methyl_CrtF C-20 52.5 8.5 0.00018 27.2 1.3 14 3-16 242-255 (306)
74 PRK01683 trans-aconitate 2-met 52.4 7.5 0.00016 26.5 1.0 13 2-14 117-129 (258)
75 PF01206 TusA: Sulfurtransfera 52.2 40 0.00087 18.7 4.8 36 6-41 25-61 (70)
76 PRK06922 hypothetical protein; 52.0 7.7 0.00017 32.0 1.2 14 3-16 525-538 (677)
77 PF02353 CMAS: Mycolic acid cy 50.9 4.9 0.00011 28.9 -0.1 15 1-15 152-166 (273)
78 cd00173 SH2 Src homology 2 dom 50.8 7.6 0.00017 22.3 0.8 28 3-33 14-43 (94)
79 PLN02396 hexaprenyldihydroxybe 49.9 8.1 0.00018 28.5 0.9 13 3-15 223-235 (322)
80 COG2226 UbiE Methylase involve 49.8 8.1 0.00018 27.7 0.9 18 1-18 142-159 (238)
81 PLN03075 nicotianamine synthas 49.7 9.2 0.0002 28.3 1.2 51 3-56 221-276 (296)
82 TIGR02072 BioC biotin biosynth 49.0 9.1 0.0002 24.9 1.0 14 2-15 122-135 (240)
83 TIGR00452 methyltransferase, p 48.3 10 0.00022 27.9 1.3 13 2-14 212-224 (314)
84 PRK13699 putative methylase; P 47.2 19 0.00042 25.0 2.4 54 2-55 59-121 (227)
85 TIGR00417 speE spermidine synt 46.0 49 0.0011 23.2 4.4 51 3-54 174-232 (270)
86 COG0500 SmtA SAM-dependent met 45.9 14 0.0003 19.8 1.2 18 2-19 142-159 (257)
87 PRK11524 putative methyltransf 45.9 18 0.00039 25.6 2.2 25 3-27 68-92 (284)
88 PRK00216 ubiE ubiquinone/menaq 45.8 12 0.00026 24.5 1.2 13 3-15 146-158 (239)
89 PRK11705 cyclopropane fatty ac 45.4 12 0.00026 28.1 1.2 14 2-15 254-267 (383)
90 PRK12335 tellurite resistance 44.9 8.2 0.00018 27.3 0.3 34 1-36 209-256 (287)
91 PF05140 ResB: ResB-like famil 44.4 46 0.001 25.3 4.3 41 14-59 107-147 (464)
92 PLN00045 photosystem I reactio 42.7 12 0.00025 24.2 0.7 9 3-11 47-55 (101)
93 KOG1271 Methyltransferases [Ge 42.7 12 0.00027 27.1 0.9 31 1-31 167-197 (227)
94 PRK15068 tRNA mo(5)U34 methylt 42.7 14 0.00031 26.9 1.2 12 3-14 214-225 (322)
95 COG5583 Uncharacterized small 41.9 37 0.00079 19.7 2.6 21 14-34 5-25 (54)
96 PRK00536 speE spermidine synth 41.4 12 0.00026 27.1 0.7 54 2-55 158-216 (262)
97 PRK13944 protein-L-isoaspartat 41.1 14 0.00031 24.7 1.0 12 3-14 161-172 (205)
98 PRK14121 tRNA (guanine-N(7)-)- 41.0 14 0.0003 28.4 1.0 28 3-30 223-251 (390)
99 PRK05134 bifunctional 3-demeth 40.8 14 0.00031 24.6 0.9 14 2-15 138-151 (233)
100 TIGR00563 rsmB ribosomal RNA s 40.4 30 0.00065 25.9 2.7 23 3-25 356-385 (426)
101 PRK13568 hofQ putative outer m 40.3 30 0.00065 25.9 2.7 25 7-31 120-144 (381)
102 PLN02490 MPBQ/MSBQ methyltrans 38.5 16 0.00034 27.4 0.9 32 3-34 203-251 (340)
103 TIGR01983 UbiG ubiquinone bios 38.4 19 0.00042 23.6 1.3 15 2-16 136-150 (224)
104 KOG1975 mRNA cap methyltransfe 38.1 25 0.00053 27.5 1.9 30 3-33 225-256 (389)
105 PRK10560 hofQ outer membrane p 37.4 38 0.00083 25.2 2.9 25 7-31 125-149 (386)
106 KOG1150 Predicted molecular ch 35.9 9.3 0.0002 28.0 -0.6 10 1-10 40-49 (250)
107 PRK11805 N5-glutamine S-adenos 35.9 94 0.002 22.5 4.6 29 3-32 251-281 (307)
108 PF01234 NNMT_PNMT_TEMT: NNMT/ 35.1 12 0.00026 27.1 -0.2 13 3-15 187-199 (256)
109 TIGR01177 conserved hypothetic 34.9 19 0.00042 25.9 0.9 28 3-32 282-309 (329)
110 PLN02823 spermine synthase 34.8 1.1E+02 0.0024 22.8 4.9 12 3-14 208-219 (336)
111 TIGR02515 IV_pilus_PilQ type I 34.3 48 0.001 24.8 3.0 26 6-31 137-162 (418)
112 PRK13942 protein-L-isoaspartat 34.2 21 0.00046 24.2 1.0 12 3-14 164-175 (212)
113 PF09126 NaeI: Restriction end 33.9 19 0.00042 27.0 0.8 50 4-59 222-280 (291)
114 PF06819 Arc_PepC: Archaeal Pe 33.4 41 0.0009 21.9 2.2 29 2-31 42-70 (110)
115 PHA00019 IV phage assembly pro 33.3 48 0.001 25.1 2.8 24 8-31 170-193 (428)
116 PF09866 DUF2093: Uncharacteri 33.0 26 0.00057 19.3 1.1 9 4-12 1-9 (42)
117 PF01739 CheR: CheR methyltran 32.6 15 0.00032 25.3 -0.0 16 3-18 163-178 (196)
118 PF13524 Glyco_trans_1_2: Glyc 32.6 30 0.00065 19.7 1.3 26 3-28 35-61 (92)
119 TIGR03840 TMPT_Se_Te thiopurin 32.5 17 0.00036 25.1 0.2 10 2-11 139-148 (213)
120 TIGR01743 purR_Bsub pur operon 32.4 56 0.0012 23.9 3.0 25 2-27 93-120 (268)
121 TIGR00080 pimt protein-L-isoas 32.0 24 0.00052 23.6 1.0 11 3-13 165-175 (215)
122 PF08248 Tryp_FSAP: Tryptophyl 31.8 18 0.00039 15.1 0.2 7 54-60 2-8 (12)
123 PRK00312 pcm protein-L-isoaspa 31.6 26 0.00055 23.3 1.0 11 3-13 163-173 (212)
124 COG0863 DNA modification methy 31.5 69 0.0015 21.9 3.2 33 3-35 87-119 (302)
125 PRK00811 spermidine synthase; 31.1 1.4E+02 0.003 21.3 4.8 53 3-55 179-238 (283)
126 PTZ00328 eukaryotic initiation 30.5 23 0.0005 24.6 0.7 16 5-20 28-43 (166)
127 PF12677 DUF3797: Domain of un 29.7 49 0.0011 18.8 1.8 16 2-17 22-37 (49)
128 PRK13255 thiopurine S-methyltr 29.5 20 0.00043 24.8 0.2 12 2-13 142-153 (218)
129 PRK15346 outer membrane secret 29.0 72 0.0016 24.8 3.2 26 6-31 140-165 (499)
130 COG2521 Predicted archaeal met 28.8 21 0.00045 26.8 0.2 32 2-33 232-271 (287)
131 PF05175 MTS: Methyltransferas 28.6 23 0.0005 23.0 0.4 26 3-28 128-155 (170)
132 TIGR00446 nop2p NOL1/NOP2/sun 28.3 31 0.00067 24.2 1.0 12 3-14 187-198 (264)
133 PF13847 Methyltransf_31: Meth 27.8 19 0.00041 22.5 -0.1 15 3-17 98-112 (152)
134 PF03822 NAF: NAF domain; Int 27.4 62 0.0013 18.9 2.1 20 16-35 43-62 (63)
135 cd02979 PHOX_C FAD-dependent P 27.2 68 0.0015 21.3 2.5 25 4-28 141-165 (167)
136 KOG2198 tRNA cytosine-5-methyl 27.1 58 0.0012 25.3 2.4 35 3-37 284-326 (375)
137 TIGR00282 metallophosphoestera 27.0 39 0.00085 24.5 1.4 12 3-15 186-197 (266)
138 PF05891 Methyltransf_PK: AdoM 26.3 26 0.00056 25.1 0.4 15 5-19 151-165 (218)
139 PRK10611 chemotaxis methyltran 25.9 33 0.00072 25.1 0.9 15 3-17 250-264 (287)
140 PRK10901 16S rRNA methyltransf 25.9 35 0.00076 25.6 1.0 13 3-15 360-372 (427)
141 PF14251 DUF4346: Domain of un 25.9 43 0.00094 22.2 1.3 45 5-54 14-59 (119)
142 PRK14886 KEOPS complex Cgi121- 25.7 95 0.0021 21.0 3.0 33 8-40 7-39 (167)
143 cd00355 Ribosomal_L30_like Rib 25.3 86 0.0019 17.1 2.3 26 6-31 26-51 (53)
144 PF03291 Pox_MCEL: mRNA cappin 25.3 25 0.00054 26.1 0.1 22 4-25 175-198 (331)
145 PF13277 YmdB: YmdB-like prote 25.0 38 0.00082 24.9 1.0 12 3-15 181-192 (253)
146 COG1092 Predicted SAM-dependen 23.7 40 0.00086 26.0 1.0 33 3-35 324-362 (393)
147 PRK11783 rlmL 23S rRNA m(2)G24 23.6 78 0.0017 25.6 2.6 36 3-38 644-679 (702)
148 COG1450 PulD Type II secretory 23.4 78 0.0017 25.5 2.6 26 7-32 282-308 (587)
149 COG0220 Predicted S-adenosylme 23.4 47 0.001 23.5 1.2 28 2-29 151-180 (227)
150 PRK10701 DNA-binding transcrip 23.4 1.8E+02 0.0039 18.7 3.9 27 11-37 5-31 (240)
151 PRK15001 SAM-dependent 23S rib 23.0 43 0.00094 25.4 1.0 44 3-54 328-373 (378)
152 PRK14904 16S rRNA methyltransf 23.0 43 0.00093 25.3 1.0 13 3-15 365-377 (445)
153 KOG2899 Predicted methyltransf 22.9 42 0.00091 25.2 0.9 14 3-16 197-210 (288)
154 PF09573 RE_TaqI: TaqI restric 21.9 81 0.0018 23.2 2.2 12 5-16 216-227 (247)
155 PF11899 DUF3419: Protein of u 21.8 48 0.0011 25.2 1.1 16 2-17 321-336 (380)
156 PF11720 Inhibitor_I78: Peptid 21.8 39 0.00084 19.0 0.5 9 3-11 27-35 (60)
157 COG2264 PrmA Ribosomal protein 21.7 46 0.001 24.8 0.9 35 3-37 251-286 (300)
158 PRK14766 lipoprotein signal pe 21.4 34 0.00073 24.1 0.2 8 1-8 123-130 (201)
159 PRK10955 DNA-binding transcrip 21.3 2.2E+02 0.0047 17.9 3.9 26 11-36 5-30 (232)
160 PRK14902 16S rRNA methyltransf 21.3 48 0.001 24.9 1.0 12 3-14 367-378 (444)
161 TIGR02516 type_III_yscC type I 21.3 95 0.0021 23.6 2.6 24 8-31 207-230 (462)
162 PLN02366 spermidine synthase 21.3 3E+02 0.0065 20.2 5.1 13 3-15 194-206 (308)
163 PRK15339 type III secretion sy 21.1 96 0.0021 24.9 2.6 24 8-31 274-297 (559)
164 PF00017 SH2: SH2 domain; Int 21.1 68 0.0015 17.8 1.4 13 6-18 19-31 (77)
165 KOG3010 Methyltransferase [Gen 21.0 46 0.00099 24.7 0.8 31 3-33 124-158 (261)
166 PRK00299 sulfur transfer prote 20.8 1.9E+02 0.0042 16.9 5.7 47 5-55 33-80 (81)
167 PF13417 GST_N_3: Glutathione 20.6 97 0.0021 17.1 2.0 22 5-27 50-71 (75)
168 cd01513 Translation_factor_III 20.6 71 0.0015 18.5 1.4 12 6-17 83-94 (102)
169 PRK14901 16S rRNA methyltransf 20.5 54 0.0012 24.7 1.1 51 3-53 372-429 (434)
170 PRK09489 rsmC 16S ribosomal RN 20.4 52 0.0011 24.4 1.0 12 3-14 291-302 (342)
171 TIGR01681 HAD-SF-IIIC HAD-supe 20.3 1.1E+02 0.0023 19.0 2.3 23 5-27 106-128 (128)
No 1
>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases. ; GO: 0008168 methyltransferase activity
Probab=99.88 E-value=5.3e-23 Score=158.63 Aligned_cols=54 Identities=61% Similarity=0.913 Sum_probs=53.5
Q ss_pred CceeccCCcEEEEEcCHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEe
Q 045201 1 MDRILRPEGAVIIRDQADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 1 MDRILRP~G~vIiRD~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K 54 (66)
|||||||||+|||||+.++|++|++|+++|||+++++++|+|++++||||+|||
T Consensus 453 mDRILRP~G~~iiRD~~~vl~~v~~i~~~lrW~~~~~d~e~g~~~~EkiL~~~K 506 (506)
T PF03141_consen 453 MDRILRPGGWVIIRDTVDVLEKVKKIAKSLRWEVRIHDTEDGPDGPEKILICQK 506 (506)
T ss_pred hHhhcCCCceEEEeccHHHHHHHHHHHHhCcceEEEEecCCCCCCCceEEEEEC
Confidence 899999999999999999999999999999999999999999999999999998
No 2
>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases. ; GO: 0008168 methyltransferase activity
Probab=97.47 E-value=7.9e-05 Score=58.56 Aligned_cols=48 Identities=17% Similarity=0.316 Sum_probs=36.5
Q ss_pred CceeccCCcEEEEEc----------CHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEecc
Q 045201 1 MDRILRPEGAVIIRD----------QADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVKRY 56 (66)
Q Consensus 1 MDRILRP~G~vIiRD----------~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K~~ 56 (66)
+||||||||+++.-- ..+.-.+++.++++|-|+.... +..+-|=||+.
T Consensus 205 vdRvLRpGGyfv~S~ppv~~r~~~~~~~~~~~~~~l~~~lCW~~va~--------~~~~aIwqKp~ 262 (506)
T PF03141_consen 205 VDRVLRPGGYFVLSGPPVYQRTDEDLEEEWNAMEDLAKSLCWKKVAE--------KGDTAIWQKPT 262 (506)
T ss_pred hhhhhccCceEEecCCcccccchHHHHHHHHHHHHHHHHHHHHHhee--------eCCEEEEeccC
Confidence 699999999998843 3577889999999999985432 23366767754
No 3
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=96.24 E-value=0.013 Score=39.86 Aligned_cols=53 Identities=13% Similarity=0.150 Sum_probs=42.0
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCceeE--EeecCCCCcCcceEEEEEec
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWNTK--IIDHEDGPLVTEKILFAVKR 55 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~~~--~~~~e~~~~~~e~iLi~~K~ 55 (66)
|.|+|||.+++=+-.....++..++..+.|+.. +..+-+|-.+...+.+.+|+
T Consensus 133 ~~LkpGG~lv~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 187 (187)
T PRK00107 133 PLLKPGGRFLALKGRDPEEEIAELPKALGGKVEEVIELTLPGLDGERHLVIIRKK 187 (187)
T ss_pred HhcCCCeEEEEEeCCChHHHHHHHHHhcCceEeeeEEEecCCCCCcEEEEEEecC
Confidence 789999999999999999999999999999853 44444444445667777774
No 4
>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=92.04 E-value=0.37 Score=31.41 Aligned_cols=40 Identities=13% Similarity=0.114 Sum_probs=30.9
Q ss_pred ceeccCCcEEEEEcCHHH-HHHHHhhhccCCceeEEeecCC
Q 045201 2 DRILRPEGAVIIRDQADV-LVKVRKIVGGMRWNTKIIDHED 41 (66)
Q Consensus 2 DRILRP~G~vIiRD~~~v-i~~v~~i~~~l~W~~~~~~~e~ 41 (66)
.|+|+|||.+++-+.... ..++.+.++...++..+.....
T Consensus 127 ~~~Lk~gG~~~~~~~~~~~~~~~~~~l~~~gf~~~~~~~~~ 167 (179)
T TIGR00537 127 PEILKEGGRVQLIQSSLNGEPDTFDKLDERGFRYEIVAERG 167 (179)
T ss_pred HHhhCCCCEEEEEEeccCChHHHHHHHHhCCCeEEEEEEee
Confidence 489999999999876666 7777888888888877654443
No 5
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=91.89 E-value=0.18 Score=34.42 Aligned_cols=49 Identities=14% Similarity=0.268 Sum_probs=29.4
Q ss_pred eeccCCcEEEEE-----cCHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEe
Q 045201 3 RILRPEGAVIIR-----DQADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIiR-----D~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K 54 (66)
|+|+|||.++|- +-.+++.++++.....+. .-+...-..+.|..++|..
T Consensus 153 ~~LkpGG~~vi~~~~~~~~~~~l~~l~~~f~~v~~---~Kp~ssr~~s~e~~~~~~~ 206 (209)
T PRK11188 153 DVLAPGGSFVVKVFQGEGFDEYLREIRSLFTKVKV---RKPDSSRARSREVYIVATG 206 (209)
T ss_pred HHcCCCCEEEEEEecCcCHHHHHHHHHhCceEEEE---ECCccccccCceeEEEeec
Confidence 689999999993 335556555554444433 1122222235789999864
No 6
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=90.01 E-value=0.83 Score=31.24 Aligned_cols=49 Identities=14% Similarity=0.265 Sum_probs=33.5
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCce-eEEeecCCCCcCcceEEEEEe
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWN-TKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~-~~~~~~e~~~~~~e~iLi~~K 54 (66)
+.|+|||++++--...--..+++++....+. +... . .-.+.+++++++|
T Consensus 226 ~~Lk~gG~l~~e~g~~~~~~~~~~l~~~gf~~v~~~--~-d~~~~~r~~~~~~ 275 (275)
T PRK09328 226 RYLKPGGWLLLEIGYDQGEAVRALLAAAGFADVETR--K-DLAGRDRVVLGRR 275 (275)
T ss_pred HhcccCCEEEEEECchHHHHHHHHHHhCCCceeEEe--c-CCCCCceEEEEEC
Confidence 7899999999975555566788888766664 3332 1 2224688888764
No 7
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=90.00 E-value=0.37 Score=32.50 Aligned_cols=36 Identities=14% Similarity=0.079 Sum_probs=29.6
Q ss_pred ceeccCCcEEEEE-cCHHHHHHHHhhhccCCceeEEe
Q 045201 2 DRILRPEGAVIIR-DQADVLVKVRKIVGGMRWNTKII 37 (66)
Q Consensus 2 DRILRP~G~vIiR-D~~~vi~~v~~i~~~l~W~~~~~ 37 (66)
-|+|+|||.++|- +....+..+.+.+..-.|.+++.
T Consensus 143 ~~~LkpgG~l~i~~~~~~~~~~~~~~~~~~g~~~~~~ 179 (202)
T PRK00121 143 ARKLKPGGEIHFATDWEGYAEYMLEVLSAEGGFLVSE 179 (202)
T ss_pred HHHcCCCCEEEEEcCCHHHHHHHHHHHHhCccccccc
Confidence 4789999999885 78888888888888888887743
No 8
>PRK14968 putative methyltransferase; Provisional
Probab=89.81 E-value=0.76 Score=29.30 Aligned_cols=52 Identities=17% Similarity=0.291 Sum_probs=30.9
Q ss_pred ceeccCCcEEEEEcC-HHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEE
Q 045201 2 DRILRPEGAVIIRDQ-ADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAV 53 (66)
Q Consensus 2 DRILRP~G~vIiRD~-~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~ 53 (66)
.|+|+|+|.+++=-. ..-..++.+.+....|.........-+++.=.+++.+
T Consensus 135 ~~~Lk~gG~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 187 (188)
T PRK14968 135 GRYLKPGGRILLLQSSLTGEDEVLEYLEKLGFEAEVVAEEKFPFEELIVLELV 187 (188)
T ss_pred HHhcCCCeEEEEEEcccCCHHHHHHHHHHCCCeeeeeeecccCCceEEEEEEe
Confidence 378999998876433 2235678888888888765433333333333344443
No 9
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=88.01 E-value=1 Score=29.62 Aligned_cols=47 Identities=19% Similarity=0.391 Sum_probs=27.2
Q ss_pred eeccCCcEEEEE----cC-HHHHHHHHhhhccCCceeEEee-cCCCCcCcceEEEEE
Q 045201 3 RILRPEGAVIIR----DQ-ADVLVKVRKIVGGMRWNTKIID-HEDGPLVTEKILFAV 53 (66)
Q Consensus 3 RILRP~G~vIiR----D~-~~vi~~v~~i~~~l~W~~~~~~-~e~~~~~~e~iLi~~ 53 (66)
|+|+|||.+++- +. .+++.+++. .+ |.+.+.. .-......|+.++|.
T Consensus 134 ~~LkpgG~lvi~~~~~~~~~~~l~~l~~---~~-~~~~~~~~~~~~~~~~~~~~~~~ 186 (188)
T TIGR00438 134 EVLKPKGNFVVKVFQGEEIDEYLNELRK---LF-EKVKVTKPQASRKRSAEVYIVAK 186 (188)
T ss_pred HHccCCCEEEEEEccCccHHHHHHHHHh---hh-ceEEEeCCCCCCcccceEEEEEe
Confidence 689999999992 21 244444444 22 4454432 222223469999985
No 10
>PRK04266 fibrillarin; Provisional
Probab=87.41 E-value=2.2 Score=29.75 Aligned_cols=12 Identities=17% Similarity=0.487 Sum_probs=10.8
Q ss_pred ceeccCCcEEEE
Q 045201 2 DRILRPEGAVII 13 (66)
Q Consensus 2 DRILRP~G~vIi 13 (66)
-|+|+|||.++|
T Consensus 163 ~r~LKpGG~lvI 174 (226)
T PRK04266 163 EFFLKDGGYLLL 174 (226)
T ss_pred HHhcCCCcEEEE
Confidence 378999999999
No 11
>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=86.92 E-value=0.84 Score=32.07 Aligned_cols=40 Identities=10% Similarity=0.135 Sum_probs=33.7
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCceeEEeecCCC
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWNTKIIDHEDG 42 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~~~~~~~e~~ 42 (66)
++|+|+|.+++-=..+-...+..++....|+..+..+++-
T Consensus 204 ~~L~~gG~l~l~~~~~~~~~v~~~l~~~g~~~~~~~~~~~ 243 (251)
T TIGR03704 204 DWLAPGGHLLVETSERQAPLAVEAFARAGLIARVASSEEL 243 (251)
T ss_pred HhcCCCCEEEEEECcchHHHHHHHHHHCCCCceeeEcccc
Confidence 6899999999877777788999999988998888776654
No 12
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=86.46 E-value=2.6 Score=29.19 Aligned_cols=48 Identities=17% Similarity=0.198 Sum_probs=31.6
Q ss_pred eeccCCcEEEEEcC-HHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEe
Q 045201 3 RILRPEGAVIIRDQ-ADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIiRD~-~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K 54 (66)
|.|+|||.+|+-+- .+-...+.+.+....+.......+++ -.-++++|
T Consensus 201 ~~LkpgG~lilsgi~~~~~~~v~~~l~~~Gf~~~~~~~~~~----W~~~~~~~ 249 (250)
T PRK00517 201 RLLKPGGRLILSGILEEQADEVLEAYEEAGFTLDEVLERGE----WVALVGKK 249 (250)
T ss_pred HhcCCCcEEEEEECcHhhHHHHHHHHHHCCCEEEEEEEeCC----EEEEEEEe
Confidence 67999999999863 34566777888888887654333322 33455554
No 13
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=85.80 E-value=0.3 Score=31.84 Aligned_cols=16 Identities=38% Similarity=0.491 Sum_probs=13.5
Q ss_pred ceeccCCcEEEEEcCH
Q 045201 2 DRILRPEGAVIIRDQA 17 (66)
Q Consensus 2 DRILRP~G~vIiRD~~ 17 (66)
-|+|+|||.++|-|-.
T Consensus 68 ~rvLkpGG~l~i~d~~ 83 (160)
T PLN02232 68 YRVLKPGSRVSILDFN 83 (160)
T ss_pred HHHcCcCeEEEEEECC
Confidence 5899999999988753
No 14
>KOG2361 consensus Predicted methyltransferase [General function prediction only]
Probab=85.80 E-value=0.39 Score=35.51 Aligned_cols=14 Identities=36% Similarity=0.883 Sum_probs=12.6
Q ss_pred eeccCCcEEEEEcC
Q 045201 3 RILRPEGAVIIRDQ 16 (66)
Q Consensus 3 RILRP~G~vIiRD~ 16 (66)
|+|+|||.+++||=
T Consensus 171 ~llKPGG~llfrDY 184 (264)
T KOG2361|consen 171 TLLKPGGSLLFRDY 184 (264)
T ss_pred HHhCCCcEEEEeec
Confidence 68999999999984
No 15
>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=85.78 E-value=2.9 Score=29.53 Aligned_cols=49 Identities=12% Similarity=0.222 Sum_probs=35.5
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhc-cCCce-eEEeecCCCCcCcceEEEEEe
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVG-GMRWN-TKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~-~l~W~-~~~~~~e~~~~~~e~iLi~~K 54 (66)
+.|+|||++++--..+--..+.+++. ...|. +.+. .+ -.+.++++++++
T Consensus 232 ~~L~~gG~l~~e~g~~q~~~~~~~~~~~~~~~~~~~~--~D-~~g~~R~~~~~~ 282 (284)
T TIGR00536 232 DYLKPNGFLVCEIGNWQQKSLKELLRIKFTWYDVENG--RD-LNGKERVVLGFY 282 (284)
T ss_pred HhccCCCEEEEEECccHHHHHHHHHHhcCCCceeEEe--cC-CCCCceEEEEEe
Confidence 57999999999888777778888776 46674 3332 22 334789999875
No 16
>TIGR00138 gidB 16S rRNA methyltransferase GidB. GidB (glucose-inhibited division protein B) appears to be present and in a single copy in nearly all complete eubacterial genomes. It is missing only from some obligate intracellular species of various lineages (Chlamydiae, Ehrlichia, Wolbachia, Anaplasma, Buchnera, etc.). GidB shows a methytransferase fold in its the crystal structure, and acts as a 7-methylguanosine (m(7)G) methyltransferase, apparently specific to 16S rRNA.
Probab=85.27 E-value=0.46 Score=31.88 Aligned_cols=36 Identities=8% Similarity=0.066 Sum_probs=28.1
Q ss_pred ceeccCCcEEEEEcCHHHHHHHHhhhcc-CCceeEEe
Q 045201 2 DRILRPEGAVIIRDQADVLVKVRKIVGG-MRWNTKII 37 (66)
Q Consensus 2 DRILRP~G~vIiRD~~~vi~~v~~i~~~-l~W~~~~~ 37 (66)
.|.|+|||.+++.+...-..++..+.+. -.|.....
T Consensus 129 ~~~LkpgG~lvi~~~~~~~~~~~~~~e~~~~~~~~~~ 165 (181)
T TIGR00138 129 LNLLKVGGYFLAYKGKKYLDEIEEAKRKCQVLGVEPL 165 (181)
T ss_pred HHhcCCCCEEEEEcCCCcHHHHHHHHHhhhhcCceEe
Confidence 4789999999999999999998888755 23554433
No 17
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=84.56 E-value=2 Score=30.95 Aligned_cols=51 Identities=16% Similarity=0.276 Sum_probs=38.0
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEe
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K 54 (66)
++|.|+|++++.-..+--.+|+++.....+ .........-.+.++++++++
T Consensus 226 ~~l~~~g~l~le~g~~q~~~v~~~~~~~~~-~~~v~~~~d~~g~~rv~~~~~ 276 (280)
T COG2890 226 DILKPGGVLILEIGLTQGEAVKALFEDTGF-FEIVETLKDLFGRDRVVLAKL 276 (280)
T ss_pred HHcCCCcEEEEEECCCcHHHHHHHHHhcCC-ceEEEEEecCCCceEEEEEEe
Confidence 689999999999998888999999998886 333333333345677777665
No 18
>KOG4300 consensus Predicted methyltransferase [General function prediction only]
Probab=83.75 E-value=0.54 Score=34.49 Aligned_cols=16 Identities=38% Similarity=0.800 Sum_probs=13.5
Q ss_pred ceeccCCcEEEEEcCH
Q 045201 2 DRILRPEGAVIIRDQA 17 (66)
Q Consensus 2 DRILRP~G~vIiRD~~ 17 (66)
-|+|||||.+|+=+..
T Consensus 169 ~rlLRpgG~iifiEHv 184 (252)
T KOG4300|consen 169 RRLLRPGGRIIFIEHV 184 (252)
T ss_pred HHhcCCCcEEEEEecc
Confidence 3899999999987664
No 19
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=82.70 E-value=1.5 Score=29.27 Aligned_cols=28 Identities=14% Similarity=0.382 Sum_probs=20.4
Q ss_pred eeccCCcEEEEE-cCHHHHHHHHhhhccC
Q 045201 3 RILRPEGAVIIR-DQADVLVKVRKIVGGM 30 (66)
Q Consensus 3 RILRP~G~vIiR-D~~~vi~~v~~i~~~l 30 (66)
|+|+|||.+++. |..+....+.+.+...
T Consensus 120 r~LkpgG~l~~~td~~~~~~~~~~~~~~~ 148 (194)
T TIGR00091 120 NVLKKGGVIHFKTDNEPLFEDMLKVLSEN 148 (194)
T ss_pred HHhCCCCEEEEEeCCHHHHHHHHHHHHhC
Confidence 789999999987 5555666666665543
No 20
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=81.80 E-value=2.6 Score=27.99 Aligned_cols=33 Identities=12% Similarity=0.284 Sum_probs=24.4
Q ss_pred eeccCCcEEEE-EcCHHHHHHHHhhhccCCceeE
Q 045201 3 RILRPEGAVII-RDQADVLVKVRKIVGGMRWNTK 35 (66)
Q Consensus 3 RILRP~G~vIi-RD~~~vi~~v~~i~~~l~W~~~ 35 (66)
|.|+|||.+++ --+.+.+.++...++.+.++..
T Consensus 133 ~~LkpgG~lv~~~~~~~~~~~~~~~l~~~g~~~~ 166 (198)
T PRK00377 133 EIIKKGGRIVIDAILLETVNNALSALENIGFNLE 166 (198)
T ss_pred HHcCCCcEEEEEeecHHHHHHHHHHHHHcCCCeE
Confidence 67999999988 2246667788888877666544
No 21
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=81.74 E-value=1.6 Score=28.56 Aligned_cols=31 Identities=13% Similarity=0.099 Sum_probs=25.9
Q ss_pred eeccCCcEEEEEc-CHHHHHHHHhhhccCCce
Q 045201 3 RILRPEGAVIIRD-QADVLVKVRKIVGGMRWN 33 (66)
Q Consensus 3 RILRP~G~vIiRD-~~~vi~~v~~i~~~l~W~ 33 (66)
|.|+|||.+++-+ ..+-..++.++++...+.
T Consensus 119 ~~Lk~gG~lv~~~~~~~~~~~~~~~l~~~g~~ 150 (187)
T PRK08287 119 AHLHPGGRLVLTFILLENLHSALAHLEKCGVS 150 (187)
T ss_pred HhcCCCeEEEEEEecHhhHHHHHHHHHHCCCC
Confidence 6799999999976 567778888899888885
No 22
>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=81.51 E-value=2.8 Score=28.02 Aligned_cols=31 Identities=23% Similarity=0.358 Sum_probs=26.5
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCce
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWN 33 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~ 33 (66)
|.|+|||.+++--...-..++.+++....+.
T Consensus 205 ~~L~~gG~~~~~~~~~~~~~~~~~l~~~gf~ 235 (251)
T TIGR03534 205 RLLKPGGWLLLEIGYDQGEAVRALFEAAGFA 235 (251)
T ss_pred HhcccCCEEEEEECccHHHHHHHHHHhCCCC
Confidence 6799999999988877778888888877775
No 23
>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=81.41 E-value=2.1 Score=27.85 Aligned_cols=47 Identities=15% Similarity=0.387 Sum_probs=29.2
Q ss_pred eccCCcEEEE-----EcCHHHHHHHHhhhccCCceeEEeec-CCCCcCcceEEEEEe
Q 045201 4 ILRPEGAVII-----RDQADVLVKVRKIVGGMRWNTKIIDH-EDGPLVTEKILFAVK 54 (66)
Q Consensus 4 ILRP~G~vIi-----RD~~~vi~~v~~i~~~l~W~~~~~~~-e~~~~~~e~iLi~~K 54 (66)
.|+|||.+|+ -+..+++..++..-...+ ++.+ ..++.+.|..|+|.+
T Consensus 128 ~L~~gG~~v~K~~~~~~~~~~~~~l~~~F~~v~----~~Kp~~sr~~s~E~Ylv~~~ 180 (181)
T PF01728_consen 128 LLKPGGTFVIKVFKGPEIEELIYLLKRCFSKVK----IVKPPSSRSESSEEYLVCRG 180 (181)
T ss_dssp HHCTTEEEEEEESSSTTSHHHHHHHHHHHHHEE----EEE-TTSBTTCBEEEEESEE
T ss_pred hhcCCCEEEEEeccCccHHHHHHHHHhCCeEEE----EEECcCCCCCccEEEEEEcC
Confidence 5899997776 233467777766544433 3322 334456799999875
No 24
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=81.33 E-value=5.2 Score=27.78 Aligned_cols=47 Identities=6% Similarity=0.130 Sum_probs=27.7
Q ss_pred eeccCCcEEEEEcC-------------H----HHHHHHH----hhhccCCceeEEeecCCCCcCcceEEEEEec
Q 045201 3 RILRPEGAVIIRDQ-------------A----DVLVKVR----KIVGGMRWNTKIIDHEDGPLVTEKILFAVKR 55 (66)
Q Consensus 3 RILRP~G~vIiRD~-------------~----~vi~~v~----~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K~ 55 (66)
|.|||||.+|+-+. . .....++ .+...=++++.+...- +++++++|.
T Consensus 166 ~ll~~GG~ii~dn~l~~G~v~~~~~~~~~~~~~~~~~ir~~~~~i~~~~~~~~~~lp~g------dG~~i~~k~ 233 (234)
T PLN02781 166 KLVKVGGIIAFDNTLWFGFVAQEEDEVPEHMRAYRKALLEFNKLLASDPRVEISQISIG------DGVTLCRRL 233 (234)
T ss_pred HhcCCCeEEEEEcCCcCCeecCcccccchhhhHHHHHHHHHHHHHhhCCCeEEEEEEeC------CccEEEEEe
Confidence 57999999886321 0 1223333 3444556766665433 568888874
No 25
>PRK04457 spermidine synthase; Provisional
Probab=80.47 E-value=5.5 Score=28.17 Aligned_cols=49 Identities=12% Similarity=0.171 Sum_probs=28.3
Q ss_pred eeccCCcEEEE---EcCHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEe
Q 045201 3 RILRPEGAVII---RDQADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIi---RD~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K 54 (66)
+.|+|||.++| ..+...-..++.+...+.-.+.+...+.. ..-+++|.|
T Consensus 165 ~~L~pgGvlvin~~~~~~~~~~~l~~l~~~F~~~~~~~~~~~~---~N~v~~a~~ 216 (262)
T PRK04457 165 NALSSDGIFVVNLWSRDKRYDRYLERLESSFEGRVLELPAESH---GNVAVFAFK 216 (262)
T ss_pred HhcCCCcEEEEEcCCCchhHHHHHHHHHHhcCCcEEEEecCCC---ccEEEEEEC
Confidence 57999999998 33433444455555555433333333322 256888876
No 26
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=80.14 E-value=5.3 Score=31.06 Aligned_cols=50 Identities=10% Similarity=0.123 Sum_probs=35.9
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCcee-EEeecCCCCcCcceEEEEEec
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWNT-KIIDHEDGPLVTEKILFAVKR 55 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~~-~~~~~e~~~~~~e~iLi~~K~ 55 (66)
+.|+|+|++++-=..+--+.+++++....|.. .+... -.+.++++++++.
T Consensus 369 ~~LkpgG~lilEiG~~Q~e~V~~ll~~~Gf~~v~v~kD---l~G~dR~v~~~~~ 419 (423)
T PRK14966 369 DRLAEGGFLLLEHGFDQGAAVRGVLAENGFSGVETLPD---LAGLDRVTLGKYM 419 (423)
T ss_pred HhcCCCcEEEEEECccHHHHHHHHHHHCCCcEEEEEEc---CCCCcEEEEEEEh
Confidence 56999999988666667788999998888863 33222 2246899998753
No 27
>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=78.89 E-value=0.6 Score=32.71 Aligned_cols=15 Identities=33% Similarity=0.696 Sum_probs=12.6
Q ss_pred ceeccCCcEEEEEcC
Q 045201 2 DRILRPEGAVIIRDQ 16 (66)
Q Consensus 2 DRILRP~G~vIiRD~ 16 (66)
=|+|||||.++|=|-
T Consensus 140 ~RVLkPGG~l~ile~ 154 (233)
T PF01209_consen 140 YRVLKPGGRLVILEF 154 (233)
T ss_dssp HHHEEEEEEEEEEEE
T ss_pred HHHcCCCeEEEEeec
Confidence 489999999998664
No 28
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=77.39 E-value=1.2 Score=31.21 Aligned_cols=14 Identities=43% Similarity=0.629 Sum_probs=12.3
Q ss_pred ceeccCCcEEEEEc
Q 045201 2 DRILRPEGAVIIRD 15 (66)
Q Consensus 2 DRILRP~G~vIiRD 15 (66)
=|+|+|||.++|-|
T Consensus 169 ~rvLkpGG~l~i~d 182 (261)
T PLN02233 169 YRVLKPGSRVSILD 182 (261)
T ss_pred HHHcCcCcEEEEEE
Confidence 48999999998876
No 29
>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=76.31 E-value=0.89 Score=27.93 Aligned_cols=15 Identities=40% Similarity=0.851 Sum_probs=13.3
Q ss_pred eeccCCcEEEEEcCH
Q 045201 3 RILRPEGAVIIRDQA 17 (66)
Q Consensus 3 RILRP~G~vIiRD~~ 17 (66)
|+|+|||+++|-+..
T Consensus 103 ~~LkpgG~l~~~~~~ 117 (161)
T PF13489_consen 103 RLLKPGGYLVISDPN 117 (161)
T ss_dssp HCEEEEEEEEEEEEB
T ss_pred HhcCCCCEEEEEEcC
Confidence 689999999999875
No 30
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=75.50 E-value=1.6 Score=30.70 Aligned_cols=14 Identities=36% Similarity=0.793 Sum_probs=12.5
Q ss_pred eeccCCcEEEEEcC
Q 045201 3 RILRPEGAVIIRDQ 16 (66)
Q Consensus 3 RILRP~G~vIiRD~ 16 (66)
|+|+|||.++|-|-
T Consensus 144 r~LkPGG~lvi~d~ 157 (263)
T PTZ00098 144 KWLKPNGILLITDY 157 (263)
T ss_pred HHcCCCcEEEEEEe
Confidence 78999999999874
No 31
>PF06962 rRNA_methylase: Putative rRNA methylase; InterPro: IPR010719 This family contains a number of putative rRNA methylases.; PDB: 3EEY_H 3LBY_A 3MTI_A.
Probab=75.36 E-value=4.3 Score=27.15 Aligned_cols=52 Identities=12% Similarity=0.204 Sum_probs=28.7
Q ss_pred eeccCCcEEEEE---------cCHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEe
Q 045201 3 RILRPEGAVIIR---------DQADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIiR---------D~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K 54 (66)
+.|+|||.++|= +..+.+.+--+=+..=.|.+..+..-+-.+.+..+++++|
T Consensus 80 ~lL~~gG~i~iv~Y~GH~gG~eE~~av~~~~~~L~~~~~~V~~~~~~N~~~~pp~l~~ieK 140 (140)
T PF06962_consen 80 ELLKPGGIITIVVYPGHPGGKEESEAVEEFLASLDQKEFNVLKYQFINQKNNPPLLVIIEK 140 (140)
T ss_dssp HHEEEEEEEEEEE--STCHHHHHHHHHHHHHHTS-TTTEEEEEEEESS-SS---EEEEEEE
T ss_pred HhhccCCEEEEEEeCCCCCCHHHHHHHHHHHHhCCcceEEEEEEEccCCCCCCCEEEEEEC
Confidence 368999998873 3333333333333555777766666665555677777776
No 32
>COG4627 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=74.84 E-value=1.4 Score=31.01 Aligned_cols=12 Identities=50% Similarity=0.866 Sum_probs=10.0
Q ss_pred ceeccCCcEEEE
Q 045201 2 DRILRPEGAVII 13 (66)
Q Consensus 2 DRILRP~G~vIi 13 (66)
.|+|||||++-|
T Consensus 73 hr~Lrp~G~Lri 84 (185)
T COG4627 73 HRFLRPGGKLRI 84 (185)
T ss_pred HHHhCcCcEEEE
Confidence 389999999865
No 33
>KOG3045 consensus Predicted RNA methylase involved in rRNA processing [RNA processing and modification]
Probab=74.77 E-value=1.3 Score=33.52 Aligned_cols=40 Identities=25% Similarity=0.450 Sum_probs=28.1
Q ss_pred ceeccCCcEEEEEcCHHHHHHHHhhh---ccCCceeEEeecCC
Q 045201 2 DRILRPEGAVIIRDQADVLVKVRKIV---GGMRWNTKIIDHED 41 (66)
Q Consensus 2 DRILRP~G~vIiRD~~~vi~~v~~i~---~~l~W~~~~~~~e~ 41 (66)
-|||+|||.+.|-.-..=...++.++ ++|..+....+..+
T Consensus 251 ~RiLk~gG~l~IAEv~SRf~dv~~f~r~l~~lGF~~~~~d~~n 293 (325)
T KOG3045|consen 251 NRILKPGGLLYIAEVKSRFSDVKGFVRALTKLGFDVKHKDVSN 293 (325)
T ss_pred HHHhccCceEEEEehhhhcccHHHHHHHHHHcCCeeeehhhhc
Confidence 39999999999987766555555544 56777765554443
No 34
>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=74.47 E-value=1.8 Score=28.95 Aligned_cols=15 Identities=27% Similarity=0.632 Sum_probs=12.7
Q ss_pred ceeccCCcEEEEEcC
Q 045201 2 DRILRPEGAVIIRDQ 16 (66)
Q Consensus 2 DRILRP~G~vIiRD~ 16 (66)
-|+|+|||.+++-|.
T Consensus 138 ~~~Lk~gG~l~~~~~ 152 (231)
T TIGR02752 138 YRVVKPGGKVVCLET 152 (231)
T ss_pred HHHcCcCeEEEEEEC
Confidence 378999999999774
No 35
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=74.06 E-value=1.7 Score=29.97 Aligned_cols=13 Identities=46% Similarity=0.899 Sum_probs=11.6
Q ss_pred eeccCCcEEEEEc
Q 045201 3 RILRPEGAVIIRD 15 (66)
Q Consensus 3 RILRP~G~vIiRD 15 (66)
|+|||||.+++-|
T Consensus 171 r~LkpGG~l~i~~ 183 (272)
T PRK11873 171 RVLKPGGRFAISD 183 (272)
T ss_pred HHcCCCcEEEEEE
Confidence 7899999999965
No 36
>PF05148 Methyltransf_8: Hypothetical methyltransferase; InterPro: IPR007823 This family consists of uncharacterised eukaryotic proteins which are related to S-adenosyl-L-methionine-dependent methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 2ZFU_B.
Probab=73.79 E-value=2 Score=30.97 Aligned_cols=39 Identities=23% Similarity=0.430 Sum_probs=25.7
Q ss_pred eeccCCcEEEEEcCHHHHHHHH---hhhccCCceeEEeecCC
Q 045201 3 RILRPEGAVIIRDQADVLVKVR---KIVGGMRWNTKIIDHED 41 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~---~i~~~l~W~~~~~~~e~ 41 (66)
|||||+|.+.|-+-..=+..++ +.++++..+....|..+
T Consensus 146 RvLK~~G~L~IAEV~SRf~~~~~F~~~~~~~GF~~~~~d~~n 187 (219)
T PF05148_consen 146 RVLKPGGILKIAEVKSRFENVKQFIKALKKLGFKLKSKDESN 187 (219)
T ss_dssp HHEEEEEEEEEEEEGGG-S-HHHHHHHHHCTTEEEEEEE--S
T ss_pred heeccCcEEEEEEecccCcCHHHHHHHHHHCCCeEEecccCC
Confidence 9999999999987655444444 45677888776655443
No 37
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=73.07 E-value=13 Score=26.98 Aligned_cols=33 Identities=15% Similarity=0.431 Sum_probs=30.7
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCceeE
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWNTK 35 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~~~ 35 (66)
.+|+|+|++.+==.++-+.++-.++++++|...
T Consensus 158 ~~lk~~G~l~~V~r~erl~ei~~~l~~~~~~~k 190 (248)
T COG4123 158 KLLKPGGRLAFVHRPERLAEIIELLKSYNLEPK 190 (248)
T ss_pred HHccCCCEEEEEecHHHHHHHHHHHHhcCCCce
Confidence 479999999999999999999999999999864
No 38
>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes.
Probab=72.81 E-value=2.1 Score=28.46 Aligned_cols=15 Identities=27% Similarity=0.516 Sum_probs=12.7
Q ss_pred ceeccCCcEEEEEcC
Q 045201 2 DRILRPEGAVIIRDQ 16 (66)
Q Consensus 2 DRILRP~G~vIiRD~ 16 (66)
.|+|+|||++++.|-
T Consensus 91 ~~~LkpgG~l~i~~~ 105 (224)
T smart00828 91 SRHLKDGGHLVLADF 105 (224)
T ss_pred HHHcCCCCEEEEEEc
Confidence 478999999999764
No 39
>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=72.49 E-value=1.4 Score=29.87 Aligned_cols=15 Identities=20% Similarity=0.541 Sum_probs=13.1
Q ss_pred ceeccCCcEEEEEcC
Q 045201 2 DRILRPEGAVIIRDQ 16 (66)
Q Consensus 2 DRILRP~G~vIiRD~ 16 (66)
-|.|+|||.+++.|.
T Consensus 148 ~~~LkpgG~l~i~d~ 162 (239)
T TIGR00740 148 YEGLNPNGVLVLSEK 162 (239)
T ss_pred HHhcCCCeEEEEeec
Confidence 478999999999974
No 40
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=72.22 E-value=1.7 Score=30.42 Aligned_cols=15 Identities=33% Similarity=0.649 Sum_probs=12.7
Q ss_pred ceeccCCcEEEEEcC
Q 045201 2 DRILRPEGAVIIRDQ 16 (66)
Q Consensus 2 DRILRP~G~vIiRD~ 16 (66)
.|+|+|||.+|+-..
T Consensus 168 ~rvLkpgG~li~~~p 182 (272)
T PRK11088 168 ARVVKPGGIVITVTP 182 (272)
T ss_pred HhhccCCCEEEEEeC
Confidence 589999999998753
No 41
>PRK14967 putative methyltransferase; Provisional
Probab=70.76 E-value=5.8 Score=26.83 Aligned_cols=35 Identities=9% Similarity=0.297 Sum_probs=21.2
Q ss_pred eeccCCcEEEEE-cCHHHHHHHHhhhccCCceeEEe
Q 045201 3 RILRPEGAVIIR-DQADVLVKVRKIVGGMRWNTKII 37 (66)
Q Consensus 3 RILRP~G~vIiR-D~~~vi~~v~~i~~~l~W~~~~~ 37 (66)
|.|+|||.+++= .+..-+.++.+.+++-.++....
T Consensus 147 ~~Lk~gG~l~~~~~~~~~~~~~~~~l~~~g~~~~~~ 182 (223)
T PRK14967 147 ALLAPGGSLLLVQSELSGVERTLTRLSEAGLDAEVV 182 (223)
T ss_pred HhcCCCcEEEEEEecccCHHHHHHHHHHCCCCeEEE
Confidence 679999999972 22223445555565555655443
No 42
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=66.72 E-value=11 Score=26.05 Aligned_cols=47 Identities=23% Similarity=0.346 Sum_probs=30.4
Q ss_pred eeccCCcEEEEEcCH----------------HHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEec
Q 045201 3 RILRPEGAVIIRDQA----------------DVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVKR 55 (66)
Q Consensus 3 RILRP~G~vIiRD~~----------------~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K~ 55 (66)
+.|||||.+|+-+.. .+-+..+.+.+-=+.++.+.... +++++|+|+
T Consensus 143 ~ll~~ggvii~DN~l~~G~V~~~~~~~~~~~~ir~f~~~i~~d~~~~~~llpig------dGl~l~~K~ 205 (205)
T PF01596_consen 143 PLLRPGGVIIADNVLWRGSVADPDDEDPKTVAIREFNEYIANDPRFETVLLPIG------DGLTLARKR 205 (205)
T ss_dssp HHEEEEEEEEEETTTGGGGGGSTTGGSHHHHHHHHHHHHHHH-TTEEEEEECST------TEEEEEEE-
T ss_pred hhccCCeEEEEccccccceecCccchhhhHHHHHHHHHHHHhCCCeeEEEEEeC------CeeEEEEEC
Confidence 468999999987643 23344555556567777665443 569999985
No 43
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=66.25 E-value=2.4 Score=31.68 Aligned_cols=15 Identities=20% Similarity=0.428 Sum_probs=13.3
Q ss_pred ceeccCCcEEEEEcC
Q 045201 2 DRILRPEGAVIIRDQ 16 (66)
Q Consensus 2 DRILRP~G~vIiRD~ 16 (66)
.|+|+|||.++++|.
T Consensus 129 ~r~Lk~gG~l~~~d~ 143 (475)
T PLN02336 129 VKWLKVGGYIFFRES 143 (475)
T ss_pred HHhcCCCeEEEEEec
Confidence 588999999999975
No 44
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=65.16 E-value=5.7 Score=28.23 Aligned_cols=51 Identities=22% Similarity=0.292 Sum_probs=28.9
Q ss_pred eeccCCcEEEEE--------------cCHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEec
Q 045201 3 RILRPEGAVIIR--------------DQADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVKR 55 (66)
Q Consensus 3 RILRP~G~vIiR--------------D~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K~ 55 (66)
+.|||||.+|+- |....+..++.+..-+.++-+.. +.--| ..++++++.|.
T Consensus 154 ~lLr~GGliv~DNvl~~G~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-t~~lP-~gDGl~v~~k~ 218 (219)
T COG4122 154 PLLRPGGLIVADNVLFGGRVADPSIRDARTQVRGVRDFNDYLLEDPRYD-TVLLP-LGDGLLLSRKR 218 (219)
T ss_pred HHhCCCcEEEEeecccCCccCCccchhHHHHHHHHHHHHHHHhhCcCce-eEEEe-cCCceEEEeec
Confidence 358898888753 33455556666666665543211 10011 13679999885
No 45
>PLN02244 tocopherol O-methyltransferase
Probab=64.90 E-value=3.4 Score=30.10 Aligned_cols=14 Identities=36% Similarity=0.657 Sum_probs=11.9
Q ss_pred ceeccCCcEEEEEc
Q 045201 2 DRILRPEGAVIIRD 15 (66)
Q Consensus 2 DRILRP~G~vIiRD 15 (66)
-|+|+|||.++|-|
T Consensus 210 ~rvLkpGG~lvi~~ 223 (340)
T PLN02244 210 ARVAAPGGRIIIVT 223 (340)
T ss_pred HHHcCCCcEEEEEE
Confidence 38999999999854
No 46
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=64.02 E-value=4 Score=28.13 Aligned_cols=15 Identities=27% Similarity=0.578 Sum_probs=12.8
Q ss_pred ceeccCCcEEEEEcC
Q 045201 2 DRILRPEGAVIIRDQ 16 (66)
Q Consensus 2 DRILRP~G~vIiRD~ 16 (66)
-|.|+|||.+++-|.
T Consensus 151 ~~~LkpGG~l~l~e~ 165 (247)
T PRK15451 151 YQGLNPGGALVLSEK 165 (247)
T ss_pred HHhcCCCCEEEEEEe
Confidence 378999999999873
No 47
>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=63.51 E-value=13 Score=26.36 Aligned_cols=32 Identities=16% Similarity=0.223 Sum_probs=20.3
Q ss_pred eeccCCcEEEEEcC-HHHHHHHHhhhccCCceeE
Q 045201 3 RILRPEGAVIIRDQ-ADVLVKVRKIVGGMRWNTK 35 (66)
Q Consensus 3 RILRP~G~vIiRD~-~~vi~~v~~i~~~l~W~~~ 35 (66)
|.|+|||++|+-.- .+-..++.+.+++- |+..
T Consensus 247 ~~LkpgG~li~sgi~~~~~~~v~~~~~~~-f~~~ 279 (288)
T TIGR00406 247 RLVKPGGWLILSGILETQAQSVCDAYEQG-FTVV 279 (288)
T ss_pred HHcCCCcEEEEEeCcHhHHHHHHHHHHcc-Ccee
Confidence 78999999998542 22334555555554 6544
No 48
>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=63.44 E-value=4.2 Score=26.36 Aligned_cols=14 Identities=36% Similarity=0.812 Sum_probs=11.7
Q ss_pred eeccCCcEEEEEcC
Q 045201 3 RILRPEGAVIIRDQ 16 (66)
Q Consensus 3 RILRP~G~vIiRD~ 16 (66)
++|+|||++++-+-
T Consensus 131 ~~L~~gG~l~~~~~ 144 (223)
T TIGR01934 131 RVLKPGGRLVILEF 144 (223)
T ss_pred HHcCCCcEEEEEEe
Confidence 67999999998653
No 49
>CHL00125 psaE photosystem I subunit IV; Reviewed
Probab=62.43 E-value=3.7 Score=24.58 Aligned_cols=9 Identities=56% Similarity=0.593 Sum_probs=7.3
Q ss_pred eeccCCcEE
Q 045201 3 RILRPEGAV 11 (66)
Q Consensus 3 RILRP~G~v 11 (66)
||||||.+-
T Consensus 9 rIlR~ESYW 17 (64)
T CHL00125 9 RILRKESYW 17 (64)
T ss_pred EEcccccee
Confidence 899999653
No 50
>TIGR02519 pilus_MshL pilus (MSHA type) biogenesis protein MshL. Members of this family are predicted secretins, that is, outer membrane pore proteins associated with delivery of proteins from periplasm to the outside of the cell. Related families include GspD of type II secretion (TIGR02517), the YscC/HrcC family from type III secretion (TIGR02516), and the PilQ secretin of type IV pilus formation (TIGR02515). Members of this family are found in gene clusters associated with MSHA (mannose-sensitive hemagglutinin) and related pili, and appear to be the secretin of this pilus system.
Probab=61.90 E-value=7.8 Score=27.48 Aligned_cols=25 Identities=8% Similarity=0.278 Sum_probs=22.7
Q ss_pred CCcEEEEEcCHHHHHHHHhhhccCC
Q 045201 7 PEGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 7 P~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
--|.++++|+++.+++|+++++.|.
T Consensus 6 ~tnsl~v~~t~~~~~~i~~~i~~ld 30 (290)
T TIGR02519 6 EAGLLTVTATPAQIRRVEEYLESLQ 30 (290)
T ss_pred CCCEEEEEcCHHHHHHHHHHHHHHh
Confidence 4689999999999999999999983
No 51
>PF02427 PSI_PsaE: Photosystem I reaction centre subunit IV / PsaE; InterPro: IPR003375 PsaE is a 69 amino acid polypeptide from photosystem I present on the stromal side of the thylakoid membrane. The structure is comprised of a well-defined five-stranded beta-sheet similar to SH3 domains []. This subunit may form complexes with ferredoxin and ferredoxin-oxidoreductase in the photosystem I reaction centre.; GO: 0015979 photosynthesis, 0009522 photosystem I, 0009538 photosystem I reaction center; PDB: 1PSF_A 1PSE_A 2WSF_E 2WSC_E 2O01_E 2WSE_E 1GXI_E 1JB0_E 3PCQ_E 1QP2_A ....
Probab=61.81 E-value=3.1 Score=24.71 Aligned_cols=7 Identities=71% Similarity=0.990 Sum_probs=4.9
Q ss_pred eeccCCc
Q 045201 3 RILRPEG 9 (66)
Q Consensus 3 RILRP~G 9 (66)
||||||-
T Consensus 8 rIlR~ES 14 (61)
T PF02427_consen 8 RILRKES 14 (61)
T ss_dssp EE-SSSS
T ss_pred EEccccc
Confidence 8999983
No 52
>PTZ00146 fibrillarin; Provisional
Probab=61.70 E-value=21 Score=26.53 Aligned_cols=12 Identities=33% Similarity=0.528 Sum_probs=11.1
Q ss_pred ceeccCCcEEEE
Q 045201 2 DRILRPEGAVII 13 (66)
Q Consensus 2 DRILRP~G~vIi 13 (66)
.|+|+|+|.++|
T Consensus 224 ~r~LKpGG~~vI 235 (293)
T PTZ00146 224 QYFLKNGGHFII 235 (293)
T ss_pred HHhccCCCEEEE
Confidence 589999999999
No 53
>PRK02749 photosystem I reaction center subunit IV; Provisional
Probab=61.57 E-value=3.9 Score=24.92 Aligned_cols=9 Identities=67% Similarity=0.896 Sum_probs=7.2
Q ss_pred eeccCCcEE
Q 045201 3 RILRPEGAV 11 (66)
Q Consensus 3 RILRP~G~v 11 (66)
||||||-+-
T Consensus 10 rIlR~ESYW 18 (71)
T PRK02749 10 RILRPESYW 18 (71)
T ss_pred EEcccccee
Confidence 899999653
No 54
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=60.84 E-value=20 Score=27.88 Aligned_cols=49 Identities=14% Similarity=0.243 Sum_probs=34.0
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCceeE-EeecCCCCcCcceEEEEEe
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWNTK-IIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~~~-~~~~e~~~~~~e~iLi~~K 54 (66)
+.|+|+|++++-=..+--+++.+++....|... +...- .+.++++++.-
T Consensus 257 ~~L~~gG~l~lEig~~q~~~v~~~~~~~g~~~~~~~~D~---~g~~R~v~~~~ 306 (506)
T PRK01544 257 QFLKPNGKIILEIGFKQEEAVTQIFLDHGYNIESVYKDL---QGHSRVILISP 306 (506)
T ss_pred HhccCCCEEEEEECCchHHHHHHHHHhcCCCceEEEecC---CCCceEEEecc
Confidence 579999999997666667788888887778643 32211 23678887753
No 55
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=60.40 E-value=4.1 Score=27.69 Aligned_cols=14 Identities=36% Similarity=0.676 Sum_probs=11.8
Q ss_pred ceeccCCcEEEEEc
Q 045201 2 DRILRPEGAVIIRD 15 (66)
Q Consensus 2 DRILRP~G~vIiRD 15 (66)
-|+|+|||.+++-.
T Consensus 127 ~~~Lk~gG~l~~~~ 140 (251)
T PRK10258 127 YRVVRPGGVVAFTT 140 (251)
T ss_pred HHHcCCCeEEEEEe
Confidence 37899999999863
No 56
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=59.96 E-value=3.3 Score=27.67 Aligned_cols=13 Identities=31% Similarity=0.394 Sum_probs=9.8
Q ss_pred ceeccCCcEEEEE
Q 045201 2 DRILRPEGAVIIR 14 (66)
Q Consensus 2 DRILRP~G~vIiR 14 (66)
.|.|+|||+++|-
T Consensus 120 ~~~LkpgG~lli~ 132 (195)
T TIGR00477 120 QAHTRPGGYNLIV 132 (195)
T ss_pred HHHhCCCcEEEEE
Confidence 4789999985543
No 57
>PLN02476 O-methyltransferase
Probab=59.35 E-value=33 Score=25.10 Aligned_cols=47 Identities=13% Similarity=0.287 Sum_probs=28.9
Q ss_pred eeccCCcEEEEEcCH----------------HHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEec
Q 045201 3 RILRPEGAVIIRDQA----------------DVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVKR 55 (66)
Q Consensus 3 RILRP~G~vIiRD~~----------------~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K~ 55 (66)
+.|||||.+|+-+-. .+-+..+.++..=++++.+.... +++++++|+
T Consensus 216 ~lL~~GGvIV~DNvL~~G~V~d~~~~d~~t~~ir~fn~~v~~d~~~~~~llPig------DGl~i~~K~ 278 (278)
T PLN02476 216 QLVRVGGVIVMDNVLWHGRVADPLVNDAKTISIRNFNKKLMDDKRVSISMVPIG------DGMTICRKR 278 (278)
T ss_pred HhcCCCcEEEEecCccCCcccCcccCCHHHHHHHHHHHHHhhCCCEEEEEEEeC------CeeEEEEEC
Confidence 468999998874321 12233344555667777665433 568998884
No 58
>PRK07402 precorrin-6B methylase; Provisional
Probab=58.94 E-value=9.9 Score=25.05 Aligned_cols=31 Identities=13% Similarity=0.230 Sum_probs=20.7
Q ss_pred ceeccCCcEEEEEcC-HHHHHHHHhhhccCCc
Q 045201 2 DRILRPEGAVIIRDQ-ADVLVKVRKIVGGMRW 32 (66)
Q Consensus 2 DRILRP~G~vIiRD~-~~vi~~v~~i~~~l~W 32 (66)
-|.|+|||.+++-.. .+.+.++.+.++.+++
T Consensus 129 ~~~LkpgG~li~~~~~~~~~~~~~~~~~~~~~ 160 (196)
T PRK07402 129 WQYLKPGGRLVATASSLEGLYAISEGLAQLQA 160 (196)
T ss_pred HHhcCCCeEEEEEeecHHHHHHHHHHHHhcCC
Confidence 368999999888753 3345556666655543
No 59
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=57.66 E-value=5.3 Score=27.41 Aligned_cols=12 Identities=17% Similarity=0.304 Sum_probs=10.7
Q ss_pred eeccCCcEEEEE
Q 045201 3 RILRPEGAVIIR 14 (66)
Q Consensus 3 RILRP~G~vIiR 14 (66)
|.|+|||+++|-
T Consensus 114 ~~LkpgG~l~~~ 125 (255)
T PRK14103 114 DELAPGSWIAVQ 125 (255)
T ss_pred HhCCCCcEEEEE
Confidence 679999999985
No 60
>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=57.64 E-value=26 Score=24.99 Aligned_cols=30 Identities=7% Similarity=0.199 Sum_probs=21.6
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCce
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWN 33 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~ 33 (66)
+.|+|||++++--...- .++++++....|.
T Consensus 239 ~~L~~gG~l~~e~g~~~-~~v~~~~~~~~~~ 268 (284)
T TIGR03533 239 DHLNENGVLVVEVGNSM-EALEEAYPDVPFT 268 (284)
T ss_pred HhcCCCCEEEEEECcCH-HHHHHHHHhCCCc
Confidence 57999999998655444 6788887755443
No 61
>PRK08317 hypothetical protein; Provisional
Probab=56.53 E-value=5.4 Score=25.86 Aligned_cols=13 Identities=54% Similarity=1.060 Sum_probs=11.1
Q ss_pred eeccCCcEEEEEc
Q 045201 3 RILRPEGAVIIRD 15 (66)
Q Consensus 3 RILRP~G~vIiRD 15 (66)
++|+|||++++-+
T Consensus 112 ~~L~~gG~l~~~~ 124 (241)
T PRK08317 112 RVLRPGGRVVVLD 124 (241)
T ss_pred HHhcCCcEEEEEe
Confidence 6899999998865
No 62
>PRK11207 tellurite resistance protein TehB; Provisional
Probab=56.46 E-value=4.1 Score=27.24 Aligned_cols=12 Identities=33% Similarity=0.603 Sum_probs=9.6
Q ss_pred ceeccCCcEEEE
Q 045201 2 DRILRPEGAVII 13 (66)
Q Consensus 2 DRILRP~G~vIi 13 (66)
-|.|+|||.+++
T Consensus 121 ~~~LkpgG~~~~ 132 (197)
T PRK11207 121 QRCTKPGGYNLI 132 (197)
T ss_pred HHHcCCCcEEEE
Confidence 478999999655
No 63
>PF06859 Bin3: Bicoid-interacting protein 3 (Bin3); InterPro: IPR010675 This entry represents a conserved region of approximately 120 residues within eukaryotic Bicoid-interacting protein 3 (Bin3). Bin3, which shows similarity to a number of protein methyltransferases that modify RNA-binding proteins, interacts with Bicoid, which itself directs pattern formation in the early Drosophila embryo. The interaction might allow Bicoid to switch between its dual roles in transcription and translation []. Note that proteins of the entry contain a conserved HLN motif.; GO: 0008168 methyltransferase activity; PDB: 3G07_B.
Probab=56.17 E-value=3.1 Score=27.03 Aligned_cols=31 Identities=19% Similarity=0.426 Sum_probs=16.7
Q ss_pred eeccCCcEEEEEc--------CHHHHHHHHhhhccCCce
Q 045201 3 RILRPEGAVIIRD--------QADVLVKVRKIVGGMRWN 33 (66)
Q Consensus 3 RILRP~G~vIiRD--------~~~vi~~v~~i~~~l~W~ 33 (66)
+.|||||.+|+-- ......++.+-.+++++.
T Consensus 32 ~~L~pGG~lilEpQ~w~sY~~~~~~~~~~~~n~~~i~lr 70 (110)
T PF06859_consen 32 SLLRPGGILILEPQPWKSYKKAKRLSEEIRENYKSIKLR 70 (110)
T ss_dssp HHEEEEEEEEEE---HHHHHTTTTS-HHHHHHHHH----
T ss_pred HhhCCCCEEEEeCCCcHHHHHHhhhhHHHHhHHhceEEC
Confidence 3599999999853 233445555556666654
No 64
>PRK03612 spermidine synthase; Provisional
Probab=55.99 E-value=18 Score=28.20 Aligned_cols=52 Identities=12% Similarity=0.157 Sum_probs=31.3
Q ss_pred eeccCCcEEEEEc-----CHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEe
Q 045201 3 RILRPEGAVIIRD-----QADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIiRD-----~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K 54 (66)
|.|+|+|.+++.- ..+.+.++.+.++.....+..+..--..++.-.+.+|.|
T Consensus 403 ~~L~pgG~lv~~~~~~~~~~~~~~~i~~~l~~~gf~v~~~~~~vps~g~w~f~~as~ 459 (521)
T PRK03612 403 RRLAPDGLLVVQSTSPYFAPKAFWSIEATLEAAGLATTPYHVNVPSFGEWGFVLAGA 459 (521)
T ss_pred HhcCCCeEEEEecCCcccchHHHHHHHHHHHHcCCEEEEEEeCCCCcchhHHHeeeC
Confidence 5799999999943 466667777777766455443322222233344556655
No 65
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=55.89 E-value=5.7 Score=27.32 Aligned_cols=13 Identities=38% Similarity=0.598 Sum_probs=10.9
Q ss_pred ceeccCCcEEEEE
Q 045201 2 DRILRPEGAVIIR 14 (66)
Q Consensus 2 DRILRP~G~vIiR 14 (66)
-|+|+|||.++|-
T Consensus 136 ~~~LkpgG~l~i~ 148 (255)
T PRK11036 136 WSVLRPGGALSLM 148 (255)
T ss_pred HHHcCCCeEEEEE
Confidence 3789999999874
No 66
>PF03958 Secretin_N: Bacterial type II/III secretion system short domain; InterPro: IPR005644 This is a group of NolW-like proteins, which are closely related to bacterial type II and III secretion system protein (IPR004846 from INTERPRO).; PDB: 3EZJ_C 2Y3M_A 3OSS_D.
Probab=55.79 E-value=10 Score=21.52 Aligned_cols=23 Identities=17% Similarity=0.499 Sum_probs=20.0
Q ss_pred CcEEEEEcCHHHHHHHHhhhccC
Q 045201 8 EGAVIIRDQADVLVKVRKIVGGM 30 (66)
Q Consensus 8 ~G~vIiRD~~~vi~~v~~i~~~l 30 (66)
...+||+++++.+.+|+++++.|
T Consensus 54 tNsliv~g~~~~~~~i~~li~~L 76 (82)
T PF03958_consen 54 TNSLIVRGTPEDLEQIRELIKQL 76 (82)
T ss_dssp TTEEEEEEEHHHHHHHHHHHHHH
T ss_pred CCEEEEEeCHHHHHHHHHHHHHH
Confidence 46799999999999999998754
No 67
>TIGR02520 pilus_B_mal_scr type IVB pilus formation outer membrane protein, R64 PilN family. Several related protein families encode outer membrane pore proteins for type II secretion, type III secretion, and type IV pilus formation. This protein family appears to encode a secretin for pilus formation, although it is quite different from PilQ. Members include the PilN lipoprotein of the plasmid R64 thin pilus, a type IV pilus. Scoring between the trusted and noise cutoffs are examples of bundle-forming pilus B (bfpB).
Probab=55.47 E-value=10 Score=29.42 Aligned_cols=27 Identities=19% Similarity=0.409 Sum_probs=23.9
Q ss_pred CCcEEEEEcCHHHHHHHHhhhccCCce
Q 045201 7 PEGAVIIRDQADVLVKVRKIVGGMRWN 33 (66)
Q Consensus 7 P~G~vIiRD~~~vi~~v~~i~~~l~W~ 33 (66)
-.|.++|+|+++.+++|+++++.+.-.
T Consensus 230 ~tg~l~Vt~tp~~l~~V~~~i~~l~~~ 256 (497)
T TIGR02520 230 STGSLVVTDVPEVLDRVASYIDSQNRR 256 (497)
T ss_pred CCCEEEEEeCHHHHHHHHHHHHHHHhh
Confidence 368899999999999999999988764
No 68
>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=54.61 E-value=3.4 Score=26.62 Aligned_cols=56 Identities=27% Similarity=0.331 Sum_probs=28.4
Q ss_pred ceeccCCcEEEEE-cCHH----HHHHHHhhhccCCceeEEeecCC--C--------CcCcceEEEEEecce
Q 045201 2 DRILRPEGAVIIR-DQAD----VLVKVRKIVGGMRWNTKIIDHED--G--------PLVTEKILFAVKRYW 57 (66)
Q Consensus 2 DRILRP~G~vIiR-D~~~----vi~~v~~i~~~l~W~~~~~~~e~--~--------~~~~e~iLi~~K~~W 57 (66)
-|+|+|+|.++|- +... .+..+.+.+..+.+...+.=... . ....|-||++.|.--
T Consensus 43 ~rvLk~~g~~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~iiW~K~~~~~~~~~~~~~~~~E~il~~~K~~~ 113 (231)
T PF01555_consen 43 YRVLKPGGSIFIFIDDREIAGFLFELALEIFGGFFLRNEIIWNKPNGMPKSNKKRFSNSHEYILVFSKDKK 113 (231)
T ss_dssp HHHEEEEEEEEEEE-CCEECTHHHHHHHHHHTT-EEEEEEEEE-SSSTTSSTCCS-B--EEEEEEEESSTT
T ss_pred HhhcCCCeeEEEEecchhhhHHHHHHHHHHhhhhheeccceeEecCccccccccccccchhhhhccccccc
Confidence 4899999998876 2222 33444444332333322221111 1 113589999988643
No 69
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=53.86 E-value=7.2 Score=27.55 Aligned_cols=18 Identities=17% Similarity=0.458 Sum_probs=14.1
Q ss_pred ceeccCCcEEEEEcCHHH
Q 045201 2 DRILRPEGAVIIRDQADV 19 (66)
Q Consensus 2 DRILRP~G~vIiRD~~~v 19 (66)
-|.|+|||++++-.+-.+
T Consensus 229 ~~~L~pGG~L~lg~~E~~ 246 (264)
T smart00138 229 AEALKPGGYLFLGHSESL 246 (264)
T ss_pred HHHhCCCeEEEEECcccC
Confidence 368999999999766443
No 70
>PRK01581 speE spermidine synthase; Validated
Probab=53.52 E-value=45 Score=25.73 Aligned_cols=55 Identities=9% Similarity=-0.017 Sum_probs=29.3
Q ss_pred eeccCCcEEEEEcCH-----HHHHHHHhhhc-cCCceeEEeecCCCCcCcceEEEEEecce
Q 045201 3 RILRPEGAVIIRDQA-----DVLVKVRKIVG-GMRWNTKIIDHEDGPLVTEKILFAVKRYW 57 (66)
Q Consensus 3 RILRP~G~vIiRD~~-----~vi~~v~~i~~-~l~W~~~~~~~e~~~~~~e~iLi~~K~~W 57 (66)
|.|+|||.+++.... +++..+.+.++ +..+.......-..-.+.-.+++|.|.-.
T Consensus 256 ~~LkPgGV~V~Qs~sp~~~~~~~~~i~~tL~~af~~v~~y~t~vPsyg~~WgF~~as~~~~ 316 (374)
T PRK01581 256 TFLTEDGAFVCQSNSPADAPLVYWSIGNTIEHAGLTVKSYHTIVPSFGTDWGFHIAANSAY 316 (374)
T ss_pred HhcCCCcEEEEecCChhhhHHHHHHHHHHHHHhCCceEEEEEecCCCCCceEEEEEeCCcc
Confidence 689999999987653 23233334343 34443322221111112367888887544
No 71
>PF02390 Methyltransf_4: Putative methyltransferase ; InterPro: IPR003358 This entry represents tRNA (guanine-N-7) methyltransferase (2.1.1.33 from EC), which catalyses the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. Capping of the pre-mRNA 5' end by addition a monomethylated guanosine cap (m(7)G) is an essential and the earliest modification in the biogenesis of mRNA []. The reaction is catalysed by three enzymes: triphosphatase, guanylyltransferase, and tRNA (guanine-N-7) methyltransferase [, ].; GO: 0008176 tRNA (guanine-N7-)-methyltransferase activity, 0006400 tRNA modification; PDB: 3DXZ_A 3DXY_A 3DXX_A 3CKK_A 3P2I_B 3P2K_D 3P2E_A 3MTE_B 3PB3_B 1YZH_B ....
Probab=53.52 E-value=7.4 Score=26.46 Aligned_cols=29 Identities=17% Similarity=0.267 Sum_probs=22.0
Q ss_pred ceeccCCcEEEEE-cCHHHHHHHHhhhccC
Q 045201 2 DRILRPEGAVIIR-DQADVLVKVRKIVGGM 30 (66)
Q Consensus 2 DRILRP~G~vIiR-D~~~vi~~v~~i~~~l 30 (66)
-|+|+|||.+.++ |..+..+.+.+.+...
T Consensus 120 ~~~L~~gG~l~~~TD~~~y~~~~~~~~~~~ 149 (195)
T PF02390_consen 120 ARVLKPGGELYFATDVEEYAEWMLEQFEES 149 (195)
T ss_dssp HHHEEEEEEEEEEES-HHHHHHHHHHHHHH
T ss_pred HHHcCCCCEEEEEeCCHHHHHHHHHHHHhc
Confidence 4789999999887 6667777777777764
No 72
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=53.16 E-value=52 Score=23.45 Aligned_cols=47 Identities=6% Similarity=0.116 Sum_probs=28.8
Q ss_pred eeccCCcEEEEEcC--------------HHHH--------HHHHhhhccCCceeEEeecCCCCcCcceEEEEEec
Q 045201 3 RILRPEGAVIIRDQ--------------ADVL--------VKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVKR 55 (66)
Q Consensus 3 RILRP~G~vIiRD~--------------~~vi--------~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K~ 55 (66)
+.|||||.+|+-+. ...+ +..+.+...=++++.+...- +++++++|.
T Consensus 178 ~ll~~GGviv~DNvl~~G~v~~~~~~~~~~~~~~~~~~ir~fn~~v~~d~~~~~~llPig------DGl~l~~k~ 246 (247)
T PLN02589 178 DLVKVGGVIGYDNTLWNGSVVAPPDAPMRKYVRYYRDFVLELNKALAADPRIEICMLPVG------DGITLCRRI 246 (247)
T ss_pred HhcCCCeEEEEcCCCCCCcccCccccchhhhHHHHHHHHHHHHHHHHhCCCEEEEEEEeC------CccEEEEEe
Confidence 47999999887532 0111 22334556667887766433 568888884
No 73
>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU. Members of this protein family are the S-adenosylmethionine-depenedent C-20 methyltransferase BchU, part of the pathway of bacteriochlorophyll c production in photosynthetic green sulfur bacteria. The position modified by this enzyme represents the difference between bacteriochlorophylls c and d; strains lacking this protein can only produced bacteriochlorophyll d.
Probab=52.53 E-value=8.5 Score=27.18 Aligned_cols=14 Identities=29% Similarity=0.527 Sum_probs=12.0
Q ss_pred eeccCCcEEEEEcC
Q 045201 3 RILRPEGAVIIRDQ 16 (66)
Q Consensus 3 RILRP~G~vIiRD~ 16 (66)
|.|+|||.++|-|-
T Consensus 242 ~~L~pgG~l~i~d~ 255 (306)
T TIGR02716 242 DAMRSGGRLLILDM 255 (306)
T ss_pred HhcCCCCEEEEEEe
Confidence 57999999999873
No 74
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=52.44 E-value=7.5 Score=26.46 Aligned_cols=13 Identities=23% Similarity=0.570 Sum_probs=11.2
Q ss_pred ceeccCCcEEEEE
Q 045201 2 DRILRPEGAVIIR 14 (66)
Q Consensus 2 DRILRP~G~vIiR 14 (66)
-|.|+|||.+++.
T Consensus 117 ~~~LkpgG~~~~~ 129 (258)
T PRK01683 117 VSLLAPGGVLAVQ 129 (258)
T ss_pred HHhcCCCcEEEEE
Confidence 3789999999985
No 75
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=52.16 E-value=40 Score=18.68 Aligned_cols=36 Identities=8% Similarity=0.241 Sum_probs=27.0
Q ss_pred cCCcEE-EEEcCHHHHHHHHhhhccCCceeEEeecCC
Q 045201 6 RPEGAV-IIRDQADVLVKVRKIVGGMRWNTKIIDHED 41 (66)
Q Consensus 6 RP~G~v-IiRD~~~vi~~v~~i~~~l~W~~~~~~~e~ 41 (66)
.||..+ |+=|++.....|..+++.+.++......++
T Consensus 25 ~~G~~l~v~~d~~~~~~di~~~~~~~g~~~~~~~~~~ 61 (70)
T PF01206_consen 25 PPGEVLEVLVDDPAAVEDIPRWCEENGYEVVEVEEEG 61 (70)
T ss_dssp GTT-EEEEEESSTTHHHHHHHHHHHHTEEEEEEEESS
T ss_pred CCCCEEEEEECCccHHHHHHHHHHHCCCEEEEEEEeC
Confidence 455444 888999999999999999999865444443
No 76
>PRK06922 hypothetical protein; Provisional
Probab=52.01 E-value=7.7 Score=32.01 Aligned_cols=14 Identities=50% Similarity=1.011 Sum_probs=12.8
Q ss_pred eeccCCcEEEEEcC
Q 045201 3 RILRPEGAVIIRDQ 16 (66)
Q Consensus 3 RILRP~G~vIiRD~ 16 (66)
|.|+|||.++|.|.
T Consensus 525 RVLKPGGrLII~D~ 538 (677)
T PRK06922 525 EVLKPGGRIIIRDG 538 (677)
T ss_pred HHcCCCcEEEEEeC
Confidence 78999999999984
No 77
>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=50.87 E-value=4.9 Score=28.87 Aligned_cols=15 Identities=27% Similarity=0.871 Sum_probs=12.2
Q ss_pred CceeccCCcEEEEEc
Q 045201 1 MDRILRPEGAVIIRD 15 (66)
Q Consensus 1 MDRILRP~G~vIiRD 15 (66)
++|.|+|||.+++..
T Consensus 152 ~~~~LkpgG~~~lq~ 166 (273)
T PF02353_consen 152 ISRLLKPGGRLVLQT 166 (273)
T ss_dssp HHHHSETTEEEEEEE
T ss_pred HHHhcCCCcEEEEEe
Confidence 358899999998764
No 78
>cd00173 SH2 Src homology 2 domains; Signal transduction, involved in recognition of phosphorylated tyrosine (pTyr). SH2 domains typically bind pTyr-containing ligands via two surface pockets, a pTyr and hydrophobic binding pocket, allowing proteins with SH2 domains to localize to tyrosine phosphorylated sites.
Probab=50.78 E-value=7.6 Score=22.25 Aligned_cols=28 Identities=25% Similarity=0.531 Sum_probs=19.2
Q ss_pred eecc--CCcEEEEEcCHHHHHHHHhhhccCCce
Q 045201 3 RILR--PEGAVIIRDQADVLVKVRKIVGGMRWN 33 (66)
Q Consensus 3 RILR--P~G~vIiRD~~~vi~~v~~i~~~l~W~ 33 (66)
+.|+ |.|..+||++.. .-..++=+++++
T Consensus 14 ~~L~~~~~G~FLiR~s~~---~~~~~~Lsv~~~ 43 (94)
T cd00173 14 ELLKKKPDGTFLVRDSES---SPGDYVLSVRVK 43 (94)
T ss_pred HHHhcCCCceEEEEecCC---CCCCEEEEEEEC
Confidence 3678 999999999985 223344555554
No 79
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=49.92 E-value=8.1 Score=28.52 Aligned_cols=13 Identities=23% Similarity=0.557 Sum_probs=11.6
Q ss_pred eeccCCcEEEEEc
Q 045201 3 RILRPEGAVIIRD 15 (66)
Q Consensus 3 RILRP~G~vIiRD 15 (66)
|+|+|||.++|-+
T Consensus 223 r~LkPGG~liist 235 (322)
T PLN02396 223 ALTIPNGATVLST 235 (322)
T ss_pred HHcCCCcEEEEEE
Confidence 7899999999875
No 80
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=49.76 E-value=8.1 Score=27.68 Aligned_cols=18 Identities=28% Similarity=0.667 Sum_probs=13.7
Q ss_pred CceeccCCcEEEEEcCHH
Q 045201 1 MDRILRPEGAVIIRDQAD 18 (66)
Q Consensus 1 MDRILRP~G~vIiRD~~~ 18 (66)
|=|+|+|||.+++=|...
T Consensus 142 ~~RVlKpgG~~~vle~~~ 159 (238)
T COG2226 142 MYRVLKPGGRLLVLEFSK 159 (238)
T ss_pred HHHhhcCCeEEEEEEcCC
Confidence 349999999888866443
No 81
>PLN03075 nicotianamine synthase; Provisional
Probab=49.67 E-value=9.2 Score=28.33 Aligned_cols=51 Identities=12% Similarity=0.145 Sum_probs=29.2
Q ss_pred eeccCCcEEEEEcCHHHHHHHH-----hhhccCCceeEEeecCCCCcCcceEEEEEecc
Q 045201 3 RILRPEGAVIIRDQADVLVKVR-----KIVGGMRWNTKIIDHEDGPLVTEKILFAVKRY 56 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~-----~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K~~ 56 (66)
|.|+|||.+++|-....-.-+= ..+. .|+.-...+-.++ --.-+++++|.-
T Consensus 221 ~~LkPGG~Lvlr~~~G~r~~LYp~v~~~~~~--gf~~~~~~~P~~~-v~Nsvi~~r~~~ 276 (296)
T PLN03075 221 KHMAPGALLMLRSAHGARAFLYPVVDPCDLR--GFEVLSVFHPTDE-VINSVIIARKPG 276 (296)
T ss_pred HhcCCCcEEEEecccchHhhcCCCCChhhCC--CeEEEEEECCCCC-ceeeEEEEEeec
Confidence 5799999999996322221110 0111 7776433333332 246799999965
No 82
>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=49.00 E-value=9.1 Score=24.92 Aligned_cols=14 Identities=29% Similarity=0.672 Sum_probs=11.8
Q ss_pred ceeccCCcEEEEEc
Q 045201 2 DRILRPEGAVIIRD 15 (66)
Q Consensus 2 DRILRP~G~vIiRD 15 (66)
-|.|+|||++++..
T Consensus 122 ~~~L~~~G~l~~~~ 135 (240)
T TIGR02072 122 ARVLKPGGLLAFST 135 (240)
T ss_pred HHHcCCCcEEEEEe
Confidence 37899999999864
No 83
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=48.29 E-value=10 Score=27.91 Aligned_cols=13 Identities=15% Similarity=0.373 Sum_probs=11.2
Q ss_pred ceeccCCcEEEEE
Q 045201 2 DRILRPEGAVIIR 14 (66)
Q Consensus 2 DRILRP~G~vIiR 14 (66)
-|.|+|||.+++-
T Consensus 212 ~r~LkpGG~Lvle 224 (314)
T TIGR00452 212 KHQLVIKGELVLE 224 (314)
T ss_pred HHhcCCCCEEEEE
Confidence 3789999999975
No 84
>PRK13699 putative methylase; Provisional
Probab=47.22 E-value=19 Score=25.03 Aligned_cols=54 Identities=7% Similarity=0.033 Sum_probs=27.7
Q ss_pred ceeccCCcEEEEEcCHHHHHHHHhhhccCCcee--EEeecCCCC-------cCcceEEEEEec
Q 045201 2 DRILRPEGAVIIRDQADVLVKVRKIVGGMRWNT--KIIDHEDGP-------LVTEKILFAVKR 55 (66)
Q Consensus 2 DRILRP~G~vIiRD~~~vi~~v~~i~~~l~W~~--~~~~~e~~~-------~~~e~iLi~~K~ 55 (66)
-|+|+|||.+++=-.-..+..+...+....|.. .+.=.+.++ ...|-+++..|.
T Consensus 59 ~RVLKpgg~l~if~~~~~~~~~~~al~~~GF~l~~~IiW~K~~~~~~~~~~~~~E~i~~~~k~ 121 (227)
T PRK13699 59 YRVLKKDALMVSFYGWNRVDRFMAAWKNAGFSVVGHLVFTKNYTSKAAYVGYRHECAYILAKG 121 (227)
T ss_pred HHHcCCCCEEEEEeccccHHHHHHHHHHCCCEEeeEEEEECCCCCCCCCCccceeEEEEEECC
Confidence 489999999886322222233333344434432 222222211 234888888875
No 85
>TIGR00417 speE spermidine synthase. the SpeE subunit of spermidine synthase catalysesthe reaction (putrescine + S-adenosylmethioninamine = spermidine + 5'-methylthioadenosine) and is involved in polyamine biosynthesis and in the biosynthesis of spermidine from arganine. The region between residues 77 and 120 of the seed alignment is thought to be involved in binding to decarboxylated SAM.
Probab=45.98 E-value=49 Score=23.19 Aligned_cols=51 Identities=12% Similarity=0.201 Sum_probs=26.1
Q ss_pred eeccCCcEEEEEcC-----HHHHHHHHhhhc-cCCceeEEeecC--CCCcCcceEEEEEe
Q 045201 3 RILRPEGAVIIRDQ-----ADVLVKVRKIVG-GMRWNTKIIDHE--DGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIiRD~-----~~vi~~v~~i~~-~l~W~~~~~~~e--~~~~~~e~iLi~~K 54 (66)
|+|+|||.+++.-. .+.+..+.+-++ .+.. +....+- .-+.+.-.+++|.|
T Consensus 174 ~~L~pgG~lv~~~~~~~~~~~~~~~~~~tl~~~F~~-v~~~~~~vp~~~~g~~~~~~as~ 232 (270)
T TIGR00417 174 KALNEDGIFVAQSESPWIQLELITDLKRDVKEAFPI-TEYYTANIPTYPSGLWTFTIGSK 232 (270)
T ss_pred HHhCCCcEEEEcCCCcccCHHHHHHHHHHHHHHCCC-eEEEEEEcCccccchhEEEEEEC
Confidence 68999999998633 333444333333 3332 3222111 11112356888887
No 86
>COG0500 SmtA SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]
Probab=45.89 E-value=14 Score=19.80 Aligned_cols=18 Identities=28% Similarity=0.547 Sum_probs=14.1
Q ss_pred ceeccCCcEEEEEcCHHH
Q 045201 2 DRILRPEGAVIIRDQADV 19 (66)
Q Consensus 2 DRILRP~G~vIiRD~~~v 19 (66)
-|+|+|+|.+++.+....
T Consensus 142 ~~~l~~~g~~~~~~~~~~ 159 (257)
T COG0500 142 LRVLKPGGRLVLSDLLRD 159 (257)
T ss_pred HHhcCCCcEEEEEeccCC
Confidence 368999999999877643
No 87
>PRK11524 putative methyltransferase; Provisional
Probab=45.88 E-value=18 Score=25.62 Aligned_cols=25 Identities=16% Similarity=0.364 Sum_probs=18.1
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhh
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIV 27 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~ 27 (66)
|+|+|+|.++|--+...+..+.-++
T Consensus 68 rvLK~~G~i~i~~~~~~~~~~~~~~ 92 (284)
T PRK11524 68 RVLKKQGTMYIMNSTENMPFIDLYC 92 (284)
T ss_pred HHhCCCcEEEEEcCchhhhHHHHHH
Confidence 7899999999876665555544444
No 88
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=45.78 E-value=12 Score=24.45 Aligned_cols=13 Identities=38% Similarity=0.940 Sum_probs=11.0
Q ss_pred eeccCCcEEEEEc
Q 045201 3 RILRPEGAVIIRD 15 (66)
Q Consensus 3 RILRP~G~vIiRD 15 (66)
++|+|+|.+++-+
T Consensus 146 ~~L~~gG~li~~~ 158 (239)
T PRK00216 146 RVLKPGGRLVILE 158 (239)
T ss_pred HhccCCcEEEEEE
Confidence 6799999999854
No 89
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=45.36 E-value=12 Score=28.07 Aligned_cols=14 Identities=29% Similarity=0.762 Sum_probs=12.1
Q ss_pred ceeccCCcEEEEEc
Q 045201 2 DRILRPEGAVIIRD 15 (66)
Q Consensus 2 DRILRP~G~vIiRD 15 (66)
.|+|+|||.+++.+
T Consensus 254 ~r~LkpGG~lvl~~ 267 (383)
T PRK11705 254 RRCLKPDGLFLLHT 267 (383)
T ss_pred HHHcCCCcEEEEEE
Confidence 47899999999964
No 90
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=44.94 E-value=8.2 Score=27.26 Aligned_cols=34 Identities=18% Similarity=0.225 Sum_probs=20.2
Q ss_pred CceeccCCcEEEEE---cCH-----------HHHHHHHhhhccCCceeEE
Q 045201 1 MDRILRPEGAVIIR---DQA-----------DVLVKVRKIVGGMRWNTKI 36 (66)
Q Consensus 1 MDRILRP~G~vIiR---D~~-----------~vi~~v~~i~~~l~W~~~~ 36 (66)
|-|.|+|||++++= ++. ---++++++... |+...
T Consensus 209 ~~~~LkpgG~~l~v~~~~~~~~~~~~p~~~~~~~~el~~~~~~--~~i~~ 256 (287)
T PRK12335 209 MQEHTNPGGYNLIVCAMDTEDYPCPMPFSFTFKEGELKDYYQD--WEIVK 256 (287)
T ss_pred HHHhcCCCcEEEEEEecccccCCCCCCCCcccCHHHHHHHhCC--CEEEE
Confidence 35789999995542 111 123456666666 87543
No 91
>PF05140 ResB: ResB-like family ; InterPro: IPR007816 This domain is found in a number of known and suspected cytochrome c biogenesis proteins, including ResB []. Mutations in ResB indicate that they are essential for growth []. ResB is predicted to be a transmembrane protein.
Probab=44.35 E-value=46 Score=25.29 Aligned_cols=41 Identities=15% Similarity=0.287 Sum_probs=33.5
Q ss_pred EcCHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEecceec
Q 045201 14 RDQADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVKRYWVT 59 (66)
Q Consensus 14 RD~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K~~W~~ 59 (66)
.+..+.++++++.+++-+|.+...+.+ .+..|.|+|..|+.
T Consensus 107 ~~~~~~~~~~~~~L~~~gyrv~~~~~~-----~~~~l~a~kg~~~~ 147 (464)
T PF05140_consen 107 GDPEEALERLAALLKKKGYRVRRQEDG-----GGVFLYAEKGRWGR 147 (464)
T ss_pred CChHHHHHHHHHHHHhCCcEEEEecCC-----CcEEEEEEcCcchh
Confidence 467889999999999999987765333 36799999999964
No 92
>PLN00045 photosystem I reaction center subunit IV; Provisional
Probab=42.66 E-value=12 Score=24.21 Aligned_cols=9 Identities=56% Similarity=0.822 Sum_probs=7.3
Q ss_pred eeccCCcEE
Q 045201 3 RILRPEGAV 11 (66)
Q Consensus 3 RILRP~G~v 11 (66)
||||||.|-
T Consensus 47 rIlR~ESYW 55 (101)
T PLN00045 47 KILRPESYW 55 (101)
T ss_pred EEcccccee
Confidence 899999764
No 93
>KOG1271 consensus Methyltransferases [General function prediction only]
Probab=42.66 E-value=12 Score=27.11 Aligned_cols=31 Identities=13% Similarity=0.245 Sum_probs=22.7
Q ss_pred CceeccCCcEEEEEcCHHHHHHHHhhhccCC
Q 045201 1 MDRILRPEGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 1 MDRILRP~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
++++|+|+|.++|--=.-+.+++-+......
T Consensus 167 v~~ll~~~gifvItSCN~T~dELv~~f~~~~ 197 (227)
T KOG1271|consen 167 VEKLLSPGGIFVITSCNFTKDELVEEFENFN 197 (227)
T ss_pred HhhccCCCcEEEEEecCccHHHHHHHHhcCC
Confidence 3689999999999877766666655554443
No 94
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=42.66 E-value=14 Score=26.90 Aligned_cols=12 Identities=25% Similarity=0.592 Sum_probs=10.6
Q ss_pred eeccCCcEEEEE
Q 045201 3 RILRPEGAVIIR 14 (66)
Q Consensus 3 RILRP~G~vIiR 14 (66)
|.|+|||.+|+-
T Consensus 214 ~~LkpGG~lvl~ 225 (322)
T PRK15068 214 DQLVPGGELVLE 225 (322)
T ss_pred HhcCCCcEEEEE
Confidence 689999999975
No 95
>COG5583 Uncharacterized small protein [Function unknown]
Probab=41.87 E-value=37 Score=19.71 Aligned_cols=21 Identities=19% Similarity=0.585 Sum_probs=18.8
Q ss_pred EcCHHHHHHHHhhhccCCcee
Q 045201 14 RDQADVLVKVRKIVGGMRWNT 34 (66)
Q Consensus 14 RD~~~vi~~v~~i~~~l~W~~ 34 (66)
-++++++++|++.+..+++-+
T Consensus 5 ~~~~~~~ekI~~~Le~lkyGs 25 (54)
T COG5583 5 IKDPEVIEKIKKALEGLKYGS 25 (54)
T ss_pred ccchHHHHHHHHHHhhcccce
Confidence 368899999999999999974
No 96
>PRK00536 speE spermidine synthase; Provisional
Probab=41.38 E-value=12 Score=27.15 Aligned_cols=54 Identities=15% Similarity=0.147 Sum_probs=27.9
Q ss_pred ceeccCCcEEEEEcCHHH-----HHHHHhhhccCCceeEEeecCCCCcCcceEEEEEec
Q 045201 2 DRILRPEGAVIIRDQADV-----LVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVKR 55 (66)
Q Consensus 2 DRILRP~G~vIiRD~~~v-----i~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K~ 55 (66)
-|.|+|+|.++.+-.... +..+.+-+++.=..+..+..--.+++.-.+.+|.|+
T Consensus 158 ~~~L~~~Gi~v~Qs~sp~~~~~~~~~i~~~l~~~F~~v~~y~~~vp~~g~wgf~~aS~~ 216 (262)
T PRK00536 158 KRMLKEDGVFISVAKHPLLEHVSMQNALKNMGDFFSIAMPFVAPLRILSNKGYIYASFK 216 (262)
T ss_pred HHhcCCCcEEEECCCCcccCHHHHHHHHHHHHhhCCceEEEEecCCCcchhhhheecCC
Confidence 478999999999875433 344444444422223332221111233456666554
No 97
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=41.10 E-value=14 Score=24.73 Aligned_cols=12 Identities=33% Similarity=0.631 Sum_probs=10.2
Q ss_pred eeccCCcEEEEE
Q 045201 3 RILRPEGAVIIR 14 (66)
Q Consensus 3 RILRP~G~vIiR 14 (66)
|.|+|||.+++=
T Consensus 161 ~~L~~gG~lvi~ 172 (205)
T PRK13944 161 RQLKDGGVLVIP 172 (205)
T ss_pred HhcCcCcEEEEE
Confidence 679999999883
No 98
>PRK14121 tRNA (guanine-N(7)-)-methyltransferase; Provisional
Probab=40.95 E-value=14 Score=28.43 Aligned_cols=28 Identities=21% Similarity=0.357 Sum_probs=20.5
Q ss_pred eeccCCcEEEEE-cCHHHHHHHHhhhccC
Q 045201 3 RILRPEGAVIIR-DQADVLVKVRKIVGGM 30 (66)
Q Consensus 3 RILRP~G~vIiR-D~~~vi~~v~~i~~~l 30 (66)
|+|+|||.+.++ |..+..+.+.+.+...
T Consensus 223 RvLkpGG~l~l~TD~~~y~~~~~e~~~~~ 251 (390)
T PRK14121 223 RVLKPGGTLELRTDSELYFEFSLELFLKL 251 (390)
T ss_pred HHcCCCcEEEEEEECHHHHHHHHHHHHhC
Confidence 899999988875 6666666666665444
No 99
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=40.79 E-value=14 Score=24.63 Aligned_cols=14 Identities=21% Similarity=0.646 Sum_probs=12.0
Q ss_pred ceeccCCcEEEEEc
Q 045201 2 DRILRPEGAVIIRD 15 (66)
Q Consensus 2 DRILRP~G~vIiRD 15 (66)
.|+|+|+|.+++-+
T Consensus 138 ~~~L~~gG~l~v~~ 151 (233)
T PRK05134 138 AKLVKPGGLVFFST 151 (233)
T ss_pred HHHcCCCcEEEEEe
Confidence 47899999999875
No 100
>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=40.44 E-value=30 Score=25.94 Aligned_cols=23 Identities=9% Similarity=0.356 Sum_probs=17.1
Q ss_pred eeccCCcEEEEE-------cCHHHHHHHHh
Q 045201 3 RILRPEGAVIIR-------DQADVLVKVRK 25 (66)
Q Consensus 3 RILRP~G~vIiR-------D~~~vi~~v~~ 25 (66)
|.|||||.+++- +..+++...-+
T Consensus 356 ~~LkpgG~lvystcs~~~~Ene~~v~~~l~ 385 (426)
T TIGR00563 356 PLLKTGGTLVYATCSVLPEENSEQIKAFLQ 385 (426)
T ss_pred HhcCCCcEEEEEeCCCChhhCHHHHHHHHH
Confidence 579999999987 56666655543
No 101
>PRK13568 hofQ putative outer membrane porin HofQ; Provisional
Probab=40.28 E-value=30 Score=25.86 Aligned_cols=25 Identities=16% Similarity=0.351 Sum_probs=21.9
Q ss_pred CCcEEEEEcCHHHHHHHHhhhccCC
Q 045201 7 PEGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 7 P~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
..+.+||+|+++.+++++++++.|.
T Consensus 120 ~tNsLiV~~~~~~~~~i~~lI~~lD 144 (381)
T PRK13568 120 RTNTLLIRDTPAALAQLKNWLIELD 144 (381)
T ss_pred CCCEEEEEeCHHHHHHHHHHHHHhC
Confidence 3577899999999999999998874
No 102
>PLN02490 MPBQ/MSBQ methyltransferase
Probab=38.48 E-value=16 Score=27.40 Aligned_cols=32 Identities=9% Similarity=0.078 Sum_probs=22.9
Q ss_pred eeccCCcEEEEEcCH-----------------HHHHHHHhhhccCCcee
Q 045201 3 RILRPEGAVIIRDQA-----------------DVLVKVRKIVGGMRWNT 34 (66)
Q Consensus 3 RILRP~G~vIiRD~~-----------------~vi~~v~~i~~~l~W~~ 34 (66)
|+|+|||.++|-+.. ...+++.+++++..++.
T Consensus 203 rvLkPGG~LvIi~~~~p~~~~~r~~~~~~~~~~t~eEl~~lL~~aGF~~ 251 (340)
T PLN02490 203 RVLKIGGKACLIGPVHPTFWLSRFFADVWMLFPKEEEYIEWFTKAGFKD 251 (340)
T ss_pred HhcCCCcEEEEEEecCcchhHHHHhhhhhccCCCHHHHHHHHHHCCCeE
Confidence 789999999875421 12466777888888864
No 103
>TIGR01983 UbiG ubiquinone biosynthesis O-methyltransferase. This model represents an O-methyltransferase believed to act at two points in the ubiquinone biosynthetic pathway in bacteria (UbiG) and fungi (COQ3). A separate methylase (MenG/UbiE) catalyzes the single C-methylation step. The most commonly used names for genes in this family do not indicate whether this gene is an O-methyl, or C-methyl transferase.
Probab=38.38 E-value=19 Score=23.63 Aligned_cols=15 Identities=20% Similarity=0.556 Sum_probs=12.3
Q ss_pred ceeccCCcEEEEEcC
Q 045201 2 DRILRPEGAVIIRDQ 16 (66)
Q Consensus 2 DRILRP~G~vIiRD~ 16 (66)
-++|+|+|.+++.+.
T Consensus 136 ~~~L~~gG~l~i~~~ 150 (224)
T TIGR01983 136 AQLLKPGGILFFSTI 150 (224)
T ss_pred HHhcCCCcEEEEEec
Confidence 368999999998763
No 104
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=38.10 E-value=25 Score=27.46 Aligned_cols=30 Identities=27% Similarity=0.465 Sum_probs=23.1
Q ss_pred eeccCCcEEE--EEcCHHHHHHHHhhhccCCce
Q 045201 3 RILRPEGAVI--IRDQADVLVKVRKIVGGMRWN 33 (66)
Q Consensus 3 RILRP~G~vI--iRD~~~vi~~v~~i~~~l~W~ 33 (66)
+-|||||++| |=|.-.+|.+++.. ...+|-
T Consensus 225 ~~LkpGG~FIgTiPdsd~Ii~rlr~~-e~~~~g 256 (389)
T KOG1975|consen 225 KCLKPGGVFIGTIPDSDVIIKRLRAG-EVERFG 256 (389)
T ss_pred hhcCCCcEEEEecCcHHHHHHHHHhc-cchhhc
Confidence 3599999998 56777888888776 555774
No 105
>PRK10560 hofQ outer membrane porin HofQ; Provisional
Probab=37.43 E-value=38 Score=25.24 Aligned_cols=25 Identities=20% Similarity=0.367 Sum_probs=22.0
Q ss_pred CCcEEEEEcCHHHHHHHHhhhccCC
Q 045201 7 PEGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 7 P~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
..+.+||+|+++.+++++++++.|.
T Consensus 125 ~tNsLiv~~~~~~~~~i~~li~~lD 149 (386)
T PRK10560 125 RTNRLLLRDNKTALSALEQWVAQMD 149 (386)
T ss_pred CCCEEEEEcCHHHHHHHHHHHHHhC
Confidence 4678999999999999999988774
No 106
>KOG1150 consensus Predicted molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]
Probab=35.90 E-value=9.3 Score=28.00 Aligned_cols=10 Identities=40% Similarity=0.973 Sum_probs=8.2
Q ss_pred CceeccCCcE
Q 045201 1 MDRILRPEGA 10 (66)
Q Consensus 1 MDRILRP~G~ 10 (66)
+|||||||.+
T Consensus 40 IeRllrpgst 49 (250)
T KOG1150|consen 40 IERLLRPGST 49 (250)
T ss_pred HHHHhcCCcc
Confidence 5899999954
No 107
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=35.89 E-value=94 Score=22.53 Aligned_cols=29 Identities=14% Similarity=0.390 Sum_probs=19.4
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhcc--CCc
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGG--MRW 32 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~--l~W 32 (66)
+.|+|||.+++--..+ -.++.++... +.|
T Consensus 251 ~~L~pgG~l~~E~g~~-~~~~~~~~~~~~~~~ 281 (307)
T PRK11805 251 DYLTEDGVLVVEVGNS-RVHLEEAYPDVPFTW 281 (307)
T ss_pred HhcCCCCEEEEEECcC-HHHHHHHHhhCCCEE
Confidence 5799999999854433 3456666654 345
No 108
>PF01234 NNMT_PNMT_TEMT: NNMT/PNMT/TEMT family; InterPro: IPR000940 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 []. Several cytoplasmic vertebrate methyltransferases are evolutionary related [], including nicotinamide N-methyltransferase (2.1.1.1 from EC) (NNMT); phenylethanolamine N-methyltransferase (2.1.1.28 from EC) (PNMT); and thioether S-methyltransferase (2.1.1.96 from EC) (TEMT). NNMT catalyzes the N-methylation of nicotinamide and other pyridines to form pyridinium ions. This activity is important for the biotransformation of many drugs and xenobiotic compounds. PNMT catalyzes the last step in catecholamine biosynthesis, the conversion of noradrenalin to adrenalin; and TEMT catalyzes the methylation of dimethyl sulphide into trimethylsulphonium. These three enzymes use S-adenosyl-L-methionine as the methyl donor. They are proteins of 30 to 32 kDa.; GO: 0008168 methyltransferase activity; PDB: 2IIP_C 3ROD_A 2OBF_A 3HCA_B 2ONY_B 3KR1_A 2OPB_B 3KQP_B 2AN4_B 3KQM_A ....
Probab=35.10 E-value=12 Score=27.13 Aligned_cols=13 Identities=31% Similarity=0.769 Sum_probs=10.3
Q ss_pred eeccCCcEEEEEc
Q 045201 3 RILRPEGAVIIRD 15 (66)
Q Consensus 3 RILRP~G~vIiRD 15 (66)
+.|||||.+|+-.
T Consensus 187 ~lLkpGG~Lil~~ 199 (256)
T PF01234_consen 187 SLLKPGGHLILAG 199 (256)
T ss_dssp TTEEEEEEEEEEE
T ss_pred HHcCCCcEEEEEE
Confidence 4689999998754
No 109
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=34.93 E-value=19 Score=25.92 Aligned_cols=28 Identities=11% Similarity=0.262 Sum_probs=18.8
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCc
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRW 32 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W 32 (66)
|+|+|||++++=-... ..++++++.-.|
T Consensus 282 r~Lk~gG~lv~~~~~~--~~~~~~~~~~g~ 309 (329)
T TIGR01177 282 EVLKSEGWIVYAVPTR--IDLESLAEDAFR 309 (329)
T ss_pred HHccCCcEEEEEEcCC--CCHHHHHhhcCc
Confidence 7899999876654332 245566777777
No 110
>PLN02823 spermine synthase
Probab=34.75 E-value=1.1e+02 Score=22.78 Aligned_cols=12 Identities=25% Similarity=0.501 Sum_probs=10.5
Q ss_pred eeccCCcEEEEE
Q 045201 3 RILRPEGAVIIR 14 (66)
Q Consensus 3 RILRP~G~vIiR 14 (66)
|.|+|+|.+++.
T Consensus 208 ~~L~p~Gvlv~q 219 (336)
T PLN02823 208 PKLNPGGIFVTQ 219 (336)
T ss_pred HhcCCCcEEEEe
Confidence 679999999876
No 111
>TIGR02515 IV_pilus_PilQ type IV pilus secretin (or competence protein) PilQ. A number of proteins homologous to PilQ are involved in type IV pilus formation, competence for transformation, type III secretion, and type II secretion (also called the main terminal branch of the general secretion pathway). Members of this family include PilQ itself, which is a component of the type IV pilus structure, from a number of species. In Haemophilus influenzae, the member of this family is associated with competence for transformation with exogenous DNA rather than with formation of a type IV pilus; the surface structure required for competence may be considered an unusual, incomplete type IV pilus structure.
Probab=34.28 E-value=48 Score=24.85 Aligned_cols=26 Identities=19% Similarity=0.479 Sum_probs=22.5
Q ss_pred cCCcEEEEEcCHHHHHHHHhhhccCC
Q 045201 6 RPEGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 6 RP~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
...+.++|+++++.+++++++++.|.
T Consensus 137 ~~~n~lvv~~~~~~~~~i~~~i~~lD 162 (418)
T TIGR02515 137 PRTNTLIVTDIPENLARIRKLIAELD 162 (418)
T ss_pred CCcCeEEEEeCHHHHHHHHHHHHHhC
Confidence 34588999999999999999998874
No 112
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=34.25 E-value=21 Score=24.16 Aligned_cols=12 Identities=25% Similarity=0.481 Sum_probs=10.0
Q ss_pred eeccCCcEEEEE
Q 045201 3 RILRPEGAVIIR 14 (66)
Q Consensus 3 RILRP~G~vIiR 14 (66)
+.|+|||.+++=
T Consensus 164 ~~LkpgG~lvi~ 175 (212)
T PRK13942 164 EQLKDGGIMVIP 175 (212)
T ss_pred HhhCCCcEEEEE
Confidence 469999999883
No 113
>PF09126 NaeI: Restriction endonuclease NaeI ; InterPro: IPR015210 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the C-terminal domain of the restriction endonuclease NaeI and other DNA-binding proteins, which adopts a secondary structure consisting of nine alpha-helices, six 3-10 helices and 13 beta-strands. In NaeI binds two GCC-CGG recognition sequences to cleave DNA into blunt-ended products []. ; PDB: 1EV7_B 1IAW_B.
Probab=33.86 E-value=19 Score=27.02 Aligned_cols=50 Identities=24% Similarity=0.440 Sum_probs=27.4
Q ss_pred eccCCcEEEEEcCHHHHHHHHhhhccCCce---------eEEeecCCCCcCcceEEEEEecceec
Q 045201 4 ILRPEGAVIIRDQADVLVKVRKIVGGMRWN---------TKIIDHEDGPLVTEKILFAVKRYWVT 59 (66)
Q Consensus 4 ILRP~G~vIiRD~~~vi~~v~~i~~~l~W~---------~~~~~~e~~~~~~e~iLi~~K~~W~~ 59 (66)
+|||||.+|+.... +=.++|.+|.=. +++...+++. ...-....-++|+.
T Consensus 222 ~L~~EGIvIL~g~~----~~~~iA~~Lglp~p~~ge~vSvRl~~~~~~~--~~~~~~i~g~~W~~ 280 (291)
T PF09126_consen 222 VLRPEGIVILGGYS----YHRQIARALGLPVPRKGEFVSVRLVPAEPGH--GRPTAEIDGQFWRV 280 (291)
T ss_dssp HTGGGTEEEE-SST----THHHHHHHTTS----TTEEEEEEEEE--SS---SS-EEESSSSEEEE
T ss_pred hhccccEEEecCCc----ccHHHHHHcCCCCCCCCCeEEEEeeccCCCC--CCceEEEcCcEEEE
Confidence 69999999999982 445556665542 2344444332 24445556667764
No 114
>PF06819 Arc_PepC: Archaeal Peptidase A24 C-terminal Domain; InterPro: IPR009639 This region is of unknown function found at the C terminus of some archael proteins that have multiple transmembrane domains and are predicted to be aspartic peptidases belonging to the MEROPS peptidase subfamily A24A (type 4 prepilin peptidase 1.
Probab=33.41 E-value=41 Score=21.89 Aligned_cols=29 Identities=10% Similarity=0.248 Sum_probs=23.2
Q ss_pred ceeccCCcEEEEEcCHHHHHHHHhhhccCC
Q 045201 2 DRILRPEGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 2 DRILRP~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
|+|.+-+|- |.||..+.+.+++..++.-.
T Consensus 42 e~I~~k~~~-v~~d~~~~~~r~k~~l~~~~ 70 (110)
T PF06819_consen 42 EIIYEKDDG-VYRDRSSFFKRFKFALKTED 70 (110)
T ss_pred heEEEeCCc-EEEecccHHHHHHHHHHhcc
Confidence 456666677 89999999999999886543
No 115
>PHA00019 IV phage assembly protein
Probab=33.26 E-value=48 Score=25.08 Aligned_cols=24 Identities=8% Similarity=0.302 Sum_probs=21.7
Q ss_pred CcEEEEEcCHHHHHHHHhhhccCC
Q 045201 8 EGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 8 ~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
.+.+||||+++.+++++++++.|.
T Consensus 170 tN~Liv~~t~~~~~~i~~lI~~lD 193 (428)
T PHA00019 170 TNSLVVSGSASQLPALADFISAID 193 (428)
T ss_pred CCEEEEEeCHHHHHHHHHHHHhhC
Confidence 578999999999999999998874
No 116
>PF09866 DUF2093: Uncharacterized protein conserved in bacteria (DUF2093); InterPro: IPR018661 This family of various hypothetical prokaryotic proteins has no known function.
Probab=32.99 E-value=26 Score=19.34 Aligned_cols=9 Identities=33% Similarity=0.475 Sum_probs=6.3
Q ss_pred eccCCcEEE
Q 045201 4 ILRPEGAVI 12 (66)
Q Consensus 4 ILRP~G~vI 12 (66)
||+||-+|+
T Consensus 1 vl~pG~~V~ 9 (42)
T PF09866_consen 1 VLSPGSFVR 9 (42)
T ss_pred CccCCCEEE
Confidence 577777775
No 117
>PF01739 CheR: CheR methyltransferase, SAM binding domain; InterPro: IPR022642 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Flagellated bacteria swim towards favourable chemicals and away from deleterious ones. Sensing of chemoeffector gradients involves chemotaxis receptors, transmembrane (TM) proteins that detect stimuli through their periplasmic domains and transduce the signals via their cytoplasmic domains []. Signalling outputs from these receptors are influenced both by the binding of the chemoeffector ligand to their periplasmic domains and by methylation of specific glutamate residues on their cytoplasmic domains. Methylation is catalysed by CheR, an S-adenosylmethionine-dependent methyltransferase [], which reversibly methylates specific glutamate residues within a coiled coil region, to form gamma-glutamyl methyl ester residues [, ]. The structure of the Salmonella typhimurium chemotaxis receptor methyltransferase CheR, bound to S-adenosylhomocysteine, has been determined to a resolution of 2.0 A []. The structure reveals CheR to be a two-domain protein, with a smaller N-terminal helical domain linked via a single polypeptide connection to a larger C-terminal alpha/beta domain. The C-terminal domain has the characteristics of a nucleotide-binding fold, with an insertion of a small anti-parallel beta-sheet subdomain. The S-adenosylhomocysteine-binding site is formed mainly by the large domain, with contributions from residues within the N-terminal domain and the linker region []. CheR proteins are part of the chemotaxis signaling mechanism which methylates the chemotaxis receptor at specific glutamate residues. This entry refers to the C-terminal SAM-binding domain of the CherR-type MCP methyltransferases, which are found in bacteria, archaea and green plants. This entry is found in association with PF03705 from PFAM. ; PDB: 1AF7_A 1BC5_A.
Probab=32.60 E-value=15 Score=25.31 Aligned_cols=16 Identities=25% Similarity=0.553 Sum_probs=11.1
Q ss_pred eeccCCcEEEEEcCHH
Q 045201 3 RILRPEGAVIIRDQAD 18 (66)
Q Consensus 3 RILRP~G~vIiRD~~~ 18 (66)
+.|+|||++++-.+..
T Consensus 163 ~~L~pgG~L~lG~sE~ 178 (196)
T PF01739_consen 163 RSLKPGGYLFLGHSES 178 (196)
T ss_dssp GGEEEEEEEEE-TT--
T ss_pred HHcCCCCEEEEecCcc
Confidence 5799999999876543
No 118
>PF13524 Glyco_trans_1_2: Glycosyl transferases group 1
Probab=32.59 E-value=30 Score=19.66 Aligned_cols=26 Identities=12% Similarity=0.252 Sum_probs=18.5
Q ss_pred eeccCC-cEEEEEcCHHHHHHHHhhhc
Q 045201 3 RILRPE-GAVIIRDQADVLVKVRKIVG 28 (66)
Q Consensus 3 RILRP~-G~vIiRD~~~vi~~v~~i~~ 28 (66)
.++.+| ..+.++|..++.+++..++.
T Consensus 35 ~~~~~~~~~~~~~~~~el~~~i~~ll~ 61 (92)
T PF13524_consen 35 EIFEDGEHIITYNDPEELAEKIEYLLE 61 (92)
T ss_pred HHcCCCCeEEEECCHHHHHHHHHHHHC
Confidence 456666 56677777888888887764
No 119
>TIGR03840 TMPT_Se_Te thiopurine S-methyltransferase, Se/Te detoxification family. Members of this family are thiopurine S-methyltransferase from a branch in which at least some member proteins can perform selenium methylation as a means to detoxify selenium, or perform a related detoxification of tellurium. Note that the EC number definition does not specify a particular thiopurine, but rather represents a class of activity.
Probab=32.48 E-value=17 Score=25.07 Aligned_cols=10 Identities=20% Similarity=0.218 Sum_probs=7.7
Q ss_pred ceeccCCcEE
Q 045201 2 DRILRPEGAV 11 (66)
Q Consensus 2 DRILRP~G~v 11 (66)
-|.|+|||.+
T Consensus 139 ~~lLkpgG~~ 148 (213)
T TIGR03840 139 LALLPPGARQ 148 (213)
T ss_pred HHHcCCCCeE
Confidence 3679999963
No 120
>TIGR01743 purR_Bsub pur operon repressor, Bacillus subtilis type. This model represents the puring operon repressor PurR of low-GC Gram-positive bacteria. This homodimeric repressor contains a large region homologous to phosphoribosyltransferases and is inhibited by 5-phosphoribosyl 1-pyrophosphate.
Probab=32.38 E-value=56 Score=23.87 Aligned_cols=25 Identities=40% Similarity=0.769 Sum_probs=18.7
Q ss_pred ceeccCCcEEEEEc---CHHHHHHHHhhh
Q 045201 2 DRILRPEGAVIIRD---QADVLVKVRKIV 27 (66)
Q Consensus 2 DRILRP~G~vIiRD---~~~vi~~v~~i~ 27 (66)
+||| |||++.+-| +++++..+-.++
T Consensus 93 ~ril-pgg~~~~s~ll~~P~~l~~ig~~l 120 (268)
T TIGR01743 93 ERIL-PGGYLYLTDILGKPSILSKIGKIL 120 (268)
T ss_pred CCcc-cCCeEEechhhcCHHHHHHHHHHH
Confidence 6777 999999886 567777765554
No 121
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=31.99 E-value=24 Score=23.64 Aligned_cols=11 Identities=18% Similarity=0.498 Sum_probs=9.6
Q ss_pred eeccCCcEEEE
Q 045201 3 RILRPEGAVII 13 (66)
Q Consensus 3 RILRP~G~vIi 13 (66)
+.|+|||.+++
T Consensus 165 ~~L~~gG~lv~ 175 (215)
T TIGR00080 165 DQLKEGGILVM 175 (215)
T ss_pred HhcCcCcEEEE
Confidence 56999999987
No 122
>PF08248 Tryp_FSAP: Tryptophyllin-3 skin active peptide; InterPro: IPR013266 PdT-3 or Tryptophyllin-3 peptide is a subfamily of the family Tryptophyllin and of the superfamily FSAP (Frog Skin Active Peptide). Originally identified in skin extracts of Neotropical leaf frogs, Phyllomedusa sp. This subfamily has an average length of 13 amino acids. The pharmacological activity of the tryptophyllins remains to be established [] but it seems that these peptides possess an action on liver protein synthesis and body weight []. It is thought to possesses insulin-releasing activity [].
Probab=31.79 E-value=18 Score=15.10 Aligned_cols=7 Identities=29% Similarity=0.923 Sum_probs=5.3
Q ss_pred ecceecC
Q 045201 54 KRYWVTE 60 (66)
Q Consensus 54 K~~W~~~ 60 (66)
|.||-|+
T Consensus 2 kpfw~pp 8 (12)
T PF08248_consen 2 KPFWPPP 8 (12)
T ss_pred CccCCCC
Confidence 7899764
No 123
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=31.63 E-value=26 Score=23.29 Aligned_cols=11 Identities=18% Similarity=0.419 Sum_probs=9.4
Q ss_pred eeccCCcEEEE
Q 045201 3 RILRPEGAVII 13 (66)
Q Consensus 3 RILRP~G~vIi 13 (66)
+.|+|||.+++
T Consensus 163 ~~L~~gG~lv~ 173 (212)
T PRK00312 163 EQLKEGGILVA 173 (212)
T ss_pred HhcCCCcEEEE
Confidence 46899999987
No 124
>COG0863 DNA modification methylase [DNA replication, recombination, and repair]
Probab=31.54 E-value=69 Score=21.88 Aligned_cols=33 Identities=21% Similarity=0.482 Sum_probs=28.9
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCceeE
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWNTK 35 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~~~ 35 (66)
|+|.|+|.+.+.+.-.....+..++..++|...
T Consensus 87 rvl~~~~~~~v~~~~~~~~~~~~~~~~~gf~~~ 119 (302)
T COG0863 87 RVLKPGGSLYVIDPFSNLARIEDIAKKLGFEIL 119 (302)
T ss_pred heecCCCEEEEECCchhhhHHHHHHHhCCCeEe
Confidence 789999999999999888888888887888753
No 125
>PRK00811 spermidine synthase; Provisional
Probab=31.08 E-value=1.4e+02 Score=21.27 Aligned_cols=53 Identities=17% Similarity=0.165 Sum_probs=27.0
Q ss_pred eeccCCcEEEEEcC-----HHHHHHHHhhhccCCceeEEeecC--CCCcCcceEEEEEec
Q 045201 3 RILRPEGAVIIRDQ-----ADVLVKVRKIVGGMRWNTKIIDHE--DGPLVTEKILFAVKR 55 (66)
Q Consensus 3 RILRP~G~vIiRD~-----~~vi~~v~~i~~~l~W~~~~~~~e--~~~~~~e~iLi~~K~ 55 (66)
|.|+|+|.+++.-. .+.+..+.+-+++.=-.+...... .-|.+.-.+++|.|.
T Consensus 179 ~~L~~gGvlv~~~~~~~~~~~~~~~i~~tl~~~F~~v~~~~~~vp~~~~~~w~f~~as~~ 238 (283)
T PRK00811 179 RALKEDGIFVAQSGSPFYQADEIKDMHRKLKEVFPIVRPYQAAIPTYPSGLWSFTFASKN 238 (283)
T ss_pred HhcCCCcEEEEeCCCcccCHHHHHHHHHHHHHHCCCEEEEEeECCcccCchheeEEeecC
Confidence 68999999999632 333333333333332233332211 111223467888774
No 126
>PTZ00328 eukaryotic initiation factor 5a; Provisional
Probab=30.52 E-value=23 Score=24.59 Aligned_cols=16 Identities=25% Similarity=0.316 Sum_probs=12.7
Q ss_pred ccCCcEEEEEcCHHHH
Q 045201 5 LRPEGAVIIRDQADVL 20 (66)
Q Consensus 5 LRP~G~vIiRD~~~vi 20 (66)
||.||||+|++.+=-|
T Consensus 28 LkkG~yvvIkGrPCKI 43 (166)
T PTZ00328 28 LKKGGYVCINGRPCKV 43 (166)
T ss_pred eeECCEEEECCeeeEE
Confidence 8999999998876433
No 127
>PF12677 DUF3797: Domain of unknown function (DUF3797); InterPro: IPR024256 This presumed domain is functionally uncharacterised. This domain family is found in bacteria and viruses, and is approximately 50 amino acids in length. There is a conserved CGN sequence motif.
Probab=29.68 E-value=49 Score=18.83 Aligned_cols=16 Identities=25% Similarity=0.607 Sum_probs=13.2
Q ss_pred ceeccCCcEEEEEcCH
Q 045201 2 DRILRPEGAVIIRDQA 17 (66)
Q Consensus 2 DRILRP~G~vIiRD~~ 17 (66)
|+|.--||.+||.|+.
T Consensus 22 ~~vGngEG~liV~edt 37 (49)
T PF12677_consen 22 DKVGNGEGTLIVEEDT 37 (49)
T ss_pred cEeecCcceEEEeccc
Confidence 6788889999998863
No 128
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=29.50 E-value=20 Score=24.76 Aligned_cols=12 Identities=8% Similarity=0.119 Sum_probs=8.9
Q ss_pred ceeccCCcEEEE
Q 045201 2 DRILRPEGAVII 13 (66)
Q Consensus 2 DRILRP~G~vIi 13 (66)
.+.|+|||..++
T Consensus 142 ~~lL~pgG~~~l 153 (218)
T PRK13255 142 AALLPAGCRGLL 153 (218)
T ss_pred HHHcCCCCeEEE
Confidence 468999987554
No 129
>PRK15346 outer membrane secretin SsaC; Provisional
Probab=28.99 E-value=72 Score=24.78 Aligned_cols=26 Identities=8% Similarity=0.179 Sum_probs=22.3
Q ss_pred cCCcEEEEEcCHHHHHHHHhhhccCC
Q 045201 6 RPEGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 6 RP~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
.+.+.+||+|.+..+++|+++++.|.
T Consensus 140 ~~sn~liVsg~~~~v~~i~~li~~LD 165 (499)
T PRK15346 140 TGTNALEVSGVPECIERVTQLAKVLD 165 (499)
T ss_pred CCCCEEEEEeCHHHHHHHHHHHHHhh
Confidence 35678999999999999999998663
No 130
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=28.81 E-value=21 Score=26.80 Aligned_cols=32 Identities=19% Similarity=0.222 Sum_probs=20.8
Q ss_pred ceeccCCcEEEEE--------cCHHHHHHHHhhhccCCce
Q 045201 2 DRILRPEGAVIIR--------DQADVLVKVRKIVGGMRWN 33 (66)
Q Consensus 2 DRILRP~G~vIiR--------D~~~vi~~v~~i~~~l~W~ 33 (66)
-|||+|||.+.=- --.++-..|.+-+......
T Consensus 232 ~RiLkrgGrlFHYvG~Pg~ryrG~d~~~gVa~RLr~vGF~ 271 (287)
T COG2521 232 YRILKRGGRLFHYVGNPGKRYRGLDLPKGVAERLRRVGFE 271 (287)
T ss_pred HHHcCcCCcEEEEeCCCCcccccCChhHHHHHHHHhcCce
Confidence 4899999987522 1235556666666666665
No 131
>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=28.60 E-value=23 Score=22.98 Aligned_cols=26 Identities=23% Similarity=0.520 Sum_probs=17.3
Q ss_pred eeccCCcEE--EEEcCHHHHHHHHhhhc
Q 045201 3 RILRPEGAV--IIRDQADVLVKVRKIVG 28 (66)
Q Consensus 3 RILRP~G~v--IiRD~~~vi~~v~~i~~ 28 (66)
++|+|+|.+ ++......-..++++..
T Consensus 128 ~~Lk~~G~l~lv~~~~~~~~~~l~~~f~ 155 (170)
T PF05175_consen 128 RYLKPGGRLFLVINSHLGYERLLKELFG 155 (170)
T ss_dssp HHEEEEEEEEEEEETTSCHHHHHHHHHS
T ss_pred HhccCCCEEEEEeecCCChHHHHHHhcC
Confidence 579999976 66666655555555554
No 132
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=28.28 E-value=31 Score=24.17 Aligned_cols=12 Identities=25% Similarity=0.642 Sum_probs=10.2
Q ss_pred eeccCCcEEEEE
Q 045201 3 RILRPEGAVIIR 14 (66)
Q Consensus 3 RILRP~G~vIiR 14 (66)
+.|||||.++.-
T Consensus 187 ~~lkpgG~lvYs 198 (264)
T TIGR00446 187 DALKPGGVLVYS 198 (264)
T ss_pred HhcCCCCEEEEE
Confidence 579999999876
No 133
>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=27.77 E-value=19 Score=22.55 Aligned_cols=15 Identities=47% Similarity=0.902 Sum_probs=13.4
Q ss_pred eeccCCcEEEEEcCH
Q 045201 3 RILRPEGAVIIRDQA 17 (66)
Q Consensus 3 RILRP~G~vIiRD~~ 17 (66)
|.|+|+|.+++.+-.
T Consensus 98 ~~lk~~G~~i~~~~~ 112 (152)
T PF13847_consen 98 RLLKPGGILIISDPN 112 (152)
T ss_dssp HHEEEEEEEEEEEEE
T ss_pred HHcCCCcEEEEEECC
Confidence 579999999999877
No 134
>PF03822 NAF: NAF domain; InterPro: IPR004041 The NAF domain is a 24 amino acid domain that is found in a plant-specific subgroup of serine-threonine protein kinases (CIPKs), that interact with calcineurin B-like calcium sensor proteins (CBLs). Whereas the N-terminal part of CIPKs comprises a conserved catalytic domain typical of Ser-Thr kinases, the much less conserved C-terminal domain appears to be unique to this subgroup of kinases. The only exception is the NAF domain that forms an 'island of conservation' in this otherwise variable region. The NAF domain has been named after the prominent conserved amino acids Asn-Ala-Phe. It represents a minimum protein interaction module that is both necessary and sufficient to mediate the interaction with the CBL calcium sensor proteins []. The secondary structure of the NAF domain is currently not known, but secondary structure computation of the C-terminal region of Arabidopsis thaliana CBL-interacting protein kinase 1 revealed a long helical structure [].; GO: 0007165 signal transduction; PDB: 2ZFD_B 2EHB_D.
Probab=27.45 E-value=62 Score=18.92 Aligned_cols=20 Identities=15% Similarity=0.418 Sum_probs=16.4
Q ss_pred CHHHHHHHHhhhccCCceeE
Q 045201 16 QADVLVKVRKIVGGMRWNTK 35 (66)
Q Consensus 16 ~~~vi~~v~~i~~~l~W~~~ 35 (66)
-.+++++++.+|+.++-.++
T Consensus 43 ~~~Ii~klEe~a~~~~~~V~ 62 (63)
T PF03822_consen 43 ASEIIEKLEEIAKKLGFRVK 62 (63)
T ss_dssp HHHHHHHHHHHHHHTTEEEE
T ss_pred HHHHHHHHHHHHHhcCceee
Confidence 35789999999999987654
No 135
>cd02979 PHOX_C FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and simple phenol derivatives in the ortho position with the consumption of NADPH and oxygen. This is the first step in the biodegradation and detoxification of phenolic compounds. PHOX contains three domains. The substrate and FAD/NAD(P) binding sites are contained in the first two domains, which adopt a complicated folding pattern. The third or C-terminal domain contains a TRX fold and is involved in dimerization. The functional unit of PHOX is a dimer, although active tetramers of the recombinant enzyme can be isolated when overproduced in bacteria.
Probab=27.23 E-value=68 Score=21.28 Aligned_cols=25 Identities=16% Similarity=0.292 Sum_probs=14.3
Q ss_pred eccCCcEEEEEcCHHHHHHHHhhhc
Q 045201 4 ILRPEGAVIIRDQADVLVKVRKIVG 28 (66)
Q Consensus 4 ILRP~G~vIiRD~~~vi~~v~~i~~ 28 (66)
++||.|+|=.--..+-++.+..+..
T Consensus 141 vvRPDgyVg~~~~~~~~~~l~~yf~ 165 (167)
T cd02979 141 VVRPDQYVALVGPLDDVEALEAYFA 165 (167)
T ss_pred EECCCCeEEEEeccccHHHHHHHHh
Confidence 4677777655444455555555543
No 136
>KOG2198 consensus tRNA cytosine-5-methylases and related enzymes of the NOL1/NOP2/sun superfamily [Translation, ribosomal structure and biogenesis]
Probab=27.05 E-value=58 Score=25.32 Aligned_cols=35 Identities=23% Similarity=0.328 Sum_probs=28.0
Q ss_pred eeccCCcEEE--------EEcCHHHHHHHHhhhccCCceeEEe
Q 045201 3 RILRPEGAVI--------IRDQADVLVKVRKIVGGMRWNTKII 37 (66)
Q Consensus 3 RILRP~G~vI--------iRD~~~vi~~v~~i~~~l~W~~~~~ 37 (66)
|.|+|||.++ |++..-|-..++.+..++.|.+...
T Consensus 284 ~lLk~GG~lVYSTCSLnpieNEaVV~~~L~~~~~~~~lv~~~~ 326 (375)
T KOG2198|consen 284 RLLKVGGRLVYSTCSLNPIENEAVVQEALQKVGGAVELVDVSG 326 (375)
T ss_pred HHhcCCCEEEEeccCCCchhhHHHHHHHHHHhcCcccceeecc
Confidence 5799999998 5677777777888899999976543
No 137
>TIGR00282 metallophosphoesterase, MG_246/BB_0505 family. A member of this family from Mycoplasma Pneumoniae has been crystallized and described as a novel phosphatase.
Probab=26.97 E-value=39 Score=24.52 Aligned_cols=12 Identities=58% Similarity=1.016 Sum_probs=10.0
Q ss_pred eeccCCcEEEEEc
Q 045201 3 RILRPEGAVIIRD 15 (66)
Q Consensus 3 RILRP~G~vIiRD 15 (66)
||| |+|+++|-|
T Consensus 186 ~il-~~gtayitD 197 (266)
T TIGR00282 186 RIL-PKGTAYITD 197 (266)
T ss_pred eeC-CCCCEEEec
Confidence 677 999999977
No 138
>PF05891 Methyltransf_PK: AdoMet dependent proline di-methyltransferase; InterPro: IPR008576 This family consists of several eukaryotic proteins of unknown function that are S-adenosyl-L-methionine-dependent methyltransferase-like.; GO: 0008168 methyltransferase activity; PDB: 1XTP_A 2EX4_B.
Probab=26.28 E-value=26 Score=25.13 Aligned_cols=15 Identities=20% Similarity=0.820 Sum_probs=12.6
Q ss_pred ccCCcEEEEEcCHHH
Q 045201 5 LRPEGAVIIRDQADV 19 (66)
Q Consensus 5 LRP~G~vIiRD~~~v 19 (66)
|+|+|.++|.+...-
T Consensus 151 L~~~G~IvvKEN~~~ 165 (218)
T PF05891_consen 151 LKPNGVIVVKENVSS 165 (218)
T ss_dssp EEEEEEEEEEEEEES
T ss_pred CcCCcEEEEEecCCC
Confidence 899999999987643
No 139
>PRK10611 chemotaxis methyltransferase CheR; Provisional
Probab=25.89 E-value=33 Score=25.06 Aligned_cols=15 Identities=20% Similarity=0.576 Sum_probs=11.6
Q ss_pred eeccCCcEEEEEcCH
Q 045201 3 RILRPEGAVIIRDQA 17 (66)
Q Consensus 3 RILRP~G~vIiRD~~ 17 (66)
+.|+|||++++--+-
T Consensus 250 ~~L~pgG~L~lG~sE 264 (287)
T PRK10611 250 PLLKPDGLLFAGHSE 264 (287)
T ss_pred HHhCCCcEEEEeCcc
Confidence 569999998876643
No 140
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=25.88 E-value=35 Score=25.64 Aligned_cols=13 Identities=23% Similarity=0.664 Sum_probs=10.6
Q ss_pred eeccCCcEEEEEc
Q 045201 3 RILRPEGAVIIRD 15 (66)
Q Consensus 3 RILRP~G~vIiRD 15 (66)
+.|+|||.+++-.
T Consensus 360 ~~LkpGG~lvyst 372 (427)
T PRK10901 360 PLLKPGGTLLYAT 372 (427)
T ss_pred HhcCCCCEEEEEe
Confidence 5799999999644
No 141
>PF14251 DUF4346: Domain of unknown function (DUF4346)
Probab=25.88 E-value=43 Score=22.17 Aligned_cols=45 Identities=18% Similarity=0.239 Sum_probs=26.2
Q ss_pred ccCCcEEEEEcCHHH-HHHHHhhhccCCceeEEeecCCCCcCcceEEEEEe
Q 045201 5 LRPEGAVIIRDQADV-LVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 5 LRP~G~vIiRD~~~v-i~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K 54 (66)
|=|+||+||.=+.+. +-.++.+.+.+.=+..-.|.|.| +++-|..
T Consensus 14 LDp~GYfiI~~d~~~~~i~a~h~~n~I~~~Gla~Dpetg-----e~i~~~g 59 (119)
T PF14251_consen 14 LDPAGYFIIYVDREAGEICAEHYTNDIDDKGLAVDPETG-----EVIPCRG 59 (119)
T ss_pred cCCCccEEEEEeCCCCeeeHhhccCccCcccceeCCCCC-----CEEEEec
Confidence 679999999865543 23344444444444444555543 4666654
No 142
>PRK14886 KEOPS complex Cgi121-like subunit; Provisional
Probab=25.66 E-value=95 Score=20.99 Aligned_cols=33 Identities=21% Similarity=0.321 Sum_probs=29.3
Q ss_pred CcEEEEEcCHHHHHHHHhhhccCCceeEEeecC
Q 045201 8 EGAVIIRDQADVLVKVRKIVGGMRWNTKIIDHE 40 (66)
Q Consensus 8 ~G~vIiRD~~~vi~~v~~i~~~l~W~~~~~~~e 40 (66)
+|.+-|.|-..+++++.+++....++++..+..
T Consensus 7 ~g~~~i~d~~~fl~~l~~~~~~~~~~~q~ina~ 39 (167)
T PRK14886 7 EGTVTIEDVDGFLEEIDAIADEHGVTVQAFNAD 39 (167)
T ss_pred EeEEEeccHHHHHHHHHHHHHhcCCeEEEEChh
Confidence 588999999999999999999999998877543
No 143
>cd00355 Ribosomal_L30_like Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that mediate the interactions 5S rRNA makes with the ribosome. The eukaryotic L30 members have N- and/or C-terminal extensions not found in their prokaryotic orthologs. L30 is closely related to the ribosomal L7 protein found in eukaryotes and archaea.
Probab=25.28 E-value=86 Score=17.05 Aligned_cols=26 Identities=15% Similarity=0.248 Sum_probs=19.1
Q ss_pred cCCcEEEEEcCHHHHHHHHhhhccCC
Q 045201 6 RPEGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 6 RP~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
|.+=.+++.|++++...++++-.=+.
T Consensus 26 k~~~~v~~~~tp~~~gml~kV~~lV~ 51 (53)
T cd00355 26 KINQTVFVKDTPSIRGMLRKVKHLVT 51 (53)
T ss_pred cCCCEEEEeCCHHHHHHHHhccceEE
Confidence 56667889999998888877654333
No 144
>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=25.25 E-value=25 Score=26.11 Aligned_cols=22 Identities=27% Similarity=0.611 Sum_probs=15.4
Q ss_pred eccCCcEEEE--EcCHHHHHHHHh
Q 045201 4 ILRPEGAVII--RDQADVLVKVRK 25 (66)
Q Consensus 4 ILRP~G~vIi--RD~~~vi~~v~~ 25 (66)
-|+|||++|. =|...++.++++
T Consensus 175 ~Lk~GG~FIgT~~d~~~i~~~l~~ 198 (331)
T PF03291_consen 175 LLKPGGYFIGTTPDSDEIVKRLRE 198 (331)
T ss_dssp TEEEEEEEEEEEE-HHHHHCCHHC
T ss_pred hcCCCCEEEEEecCHHHHHHHHHh
Confidence 4899999985 466666566665
No 145
>PF13277 YmdB: YmdB-like protein; PDB: 2CV9_B 2Z06_C.
Probab=25.03 E-value=38 Score=24.86 Aligned_cols=12 Identities=58% Similarity=0.960 Sum_probs=7.8
Q ss_pred eeccCCcEEEEEc
Q 045201 3 RILRPEGAVIIRD 15 (66)
Q Consensus 3 RILRP~G~vIiRD 15 (66)
||| |+|+++|-|
T Consensus 181 rIL-p~GTaYiTD 192 (253)
T PF13277_consen 181 RIL-PGGTAYITD 192 (253)
T ss_dssp EE--TTS-EEES-
T ss_pred hcc-CCCCEEEec
Confidence 677 999999977
No 146
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=23.66 E-value=40 Score=25.96 Aligned_cols=33 Identities=15% Similarity=0.306 Sum_probs=22.1
Q ss_pred eeccCCcEEEEE------cCHHHHHHHHhhhccCCceeE
Q 045201 3 RILRPEGAVIIR------DQADVLVKVRKIVGGMRWNTK 35 (66)
Q Consensus 3 RILRP~G~vIiR------D~~~vi~~v~~i~~~l~W~~~ 35 (66)
+||+|||.+++- ....++..|..-+..++=..+
T Consensus 324 ~iL~pgG~l~~~s~~~~~~~~~f~~~i~~a~~~~~~~~~ 362 (393)
T COG1092 324 RLLAPGGTLVTSSCSRHFSSDLFLEIIARAAAAAGRRAQ 362 (393)
T ss_pred HHcCCCCEEEEEecCCccCHHHHHHHHHHHHHhcCCcEE
Confidence 589999999975 445566666666655543333
No 147
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=23.59 E-value=78 Score=25.62 Aligned_cols=36 Identities=17% Similarity=0.282 Sum_probs=27.5
Q ss_pred eeccCCcEEEEEcCHHHHHHHHhhhccCCceeEEee
Q 045201 3 RILRPEGAVIIRDQADVLVKVRKIVGGMRWNTKIID 38 (66)
Q Consensus 3 RILRP~G~vIiRD~~~vi~~v~~i~~~l~W~~~~~~ 38 (66)
|+|+|||.+++--...-+....+.+..-++..++..
T Consensus 644 ~lL~~gG~l~~~~~~~~~~~~~~~~~~~g~~~~~i~ 679 (702)
T PRK11783 644 RLLRPGGTLYFSNNKRGFKMDEEGLAKLGLKAEEIT 679 (702)
T ss_pred HHcCCCCEEEEEeCCccCChhHHHHHhCCCeEEEEe
Confidence 579999999997766666666777777788877653
No 148
>COG1450 PulD Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=23.44 E-value=78 Score=25.49 Aligned_cols=26 Identities=19% Similarity=0.501 Sum_probs=22.5
Q ss_pred CC-cEEEEEcCHHHHHHHHhhhccCCc
Q 045201 7 PE-GAVIIRDQADVLVKVRKIVGGMRW 32 (66)
Q Consensus 7 P~-G~vIiRD~~~vi~~v~~i~~~l~W 32 (66)
|. +.+|||++++.+..++++++.|.=
T Consensus 282 p~~NaLvv~~~~~~~~~~~~lI~~LD~ 308 (587)
T COG1450 282 PQTNALVVRATPETLRILRELIEKLDV 308 (587)
T ss_pred CCCceEEEEeCHHHHHHHHHHHHHhcc
Confidence 44 899999999999999999987743
No 149
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=23.43 E-value=47 Score=23.49 Aligned_cols=28 Identities=18% Similarity=0.351 Sum_probs=19.3
Q ss_pred ceeccCCcEEEEE-cCHHHHHH-HHhhhcc
Q 045201 2 DRILRPEGAVIIR-DQADVLVK-VRKIVGG 29 (66)
Q Consensus 2 DRILRP~G~vIiR-D~~~vi~~-v~~i~~~ 29 (66)
-|+|+|||.+-+. |..+..+. +...+..
T Consensus 151 a~~Lk~gG~l~~aTD~~~y~e~~~~~~~~~ 180 (227)
T COG0220 151 ARKLKPGGVLHFATDNEEYFEWMMLEVLEH 180 (227)
T ss_pred HHHccCCCEEEEEecCHHHHHHHHHHHHhc
Confidence 4799999999887 44555555 5555544
No 150
>PRK10701 DNA-binding transcriptional regulator RstA; Provisional
Probab=23.39 E-value=1.8e+02 Score=18.74 Aligned_cols=27 Identities=15% Similarity=0.204 Sum_probs=22.1
Q ss_pred EEEEcCHHHHHHHHhhhccCCceeEEe
Q 045201 11 VIIRDQADVLVKVRKIVGGMRWNTKII 37 (66)
Q Consensus 11 vIiRD~~~vi~~v~~i~~~l~W~~~~~ 37 (66)
+|+-|+..+...+..++....+++...
T Consensus 5 Livedd~~~~~~l~~~L~~~g~~v~~~ 31 (240)
T PRK10701 5 VFVEDDAEVGSLIAAYLAKHDIDVTVE 31 (240)
T ss_pred EEEeCCHHHHHHHHHHHHHcCCEEEEe
Confidence 588999999999999998888876543
No 151
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=23.01 E-value=43 Score=25.41 Aligned_cols=44 Identities=34% Similarity=0.421 Sum_probs=25.7
Q ss_pred eeccCCcEEEEEc--CHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEe
Q 045201 3 RILRPEGAVIIRD--QADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVK 54 (66)
Q Consensus 3 RILRP~G~vIiRD--~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K 54 (66)
|.|+|||.++|=- ..+...+++++.. ++...... .+-.||-++|
T Consensus 328 ~~LkpGG~L~iV~nr~l~y~~~L~~~fg----~~~~va~~----~kf~vl~a~k 373 (378)
T PRK15001 328 RCLKINGELYIVANRHLDYFHKLKKIFG----NCTTIATN----NKFVVLKAVK 373 (378)
T ss_pred HhcccCCEEEEEEecCcCHHHHHHHHcC----CceEEccC----CCEEEEEEEe
Confidence 6799999888752 3444455555433 34443222 2456777777
No 152
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=22.99 E-value=43 Score=25.33 Aligned_cols=13 Identities=23% Similarity=0.677 Sum_probs=11.4
Q ss_pred eeccCCcEEEEEc
Q 045201 3 RILRPEGAVIIRD 15 (66)
Q Consensus 3 RILRP~G~vIiRD 15 (66)
|.|+|||.+++-.
T Consensus 365 ~~lkpgG~lvyst 377 (445)
T PRK14904 365 SLLKPGGVLVYAT 377 (445)
T ss_pred HhcCCCcEEEEEe
Confidence 5799999999976
No 153
>KOG2899 consensus Predicted methyltransferase [General function prediction only]
Probab=22.91 E-value=42 Score=25.25 Aligned_cols=14 Identities=29% Similarity=0.719 Sum_probs=11.1
Q ss_pred eeccCCcEEEEEcC
Q 045201 3 RILRPEGAVIIRDQ 16 (66)
Q Consensus 3 RILRP~G~vIiRD~ 16 (66)
|.|+|||.+|+--.
T Consensus 197 ~ll~pgGiLvvEPQ 210 (288)
T KOG2899|consen 197 SLLHPGGILVVEPQ 210 (288)
T ss_pred HhhCcCcEEEEcCC
Confidence 57899999998643
No 154
>PF09573 RE_TaqI: TaqI restriction endonuclease; InterPro: IPR019073 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry represents the restriction endonuclease TaqI, which recognises and cleaves the double-stranded sequence T^CGA. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=21.89 E-value=81 Score=23.19 Aligned_cols=12 Identities=42% Similarity=0.678 Sum_probs=10.0
Q ss_pred ccCCcEEEEEcC
Q 045201 5 LRPEGAVIIRDQ 16 (66)
Q Consensus 5 LRP~G~vIiRD~ 16 (66)
.=|.|+||+|.+
T Consensus 216 rL~NgFViF~Es 227 (247)
T PF09573_consen 216 RLPNGFVIFRES 227 (247)
T ss_pred hCCCCeEEeeHH
Confidence 349999999985
No 155
>PF11899 DUF3419: Protein of unknown function (DUF3419); InterPro: IPR021829 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 398 to 802 amino acids in length.
Probab=21.82 E-value=48 Score=25.20 Aligned_cols=16 Identities=38% Similarity=0.538 Sum_probs=13.0
Q ss_pred ceeccCCcEEEEEcCH
Q 045201 2 DRILRPEGAVIIRDQA 17 (66)
Q Consensus 2 DRILRP~G~vIiRD~~ 17 (66)
-|-++|||.|++|--.
T Consensus 321 ~~~~~pgaRV~~Rsa~ 336 (380)
T PF11899_consen 321 ARTARPGARVLWRSAA 336 (380)
T ss_pred HHHhCCCCEEEEeeCC
Confidence 3678999999999643
No 156
>PF11720 Inhibitor_I78: Peptidase inhibitor I78 family; InterPro: IPR021719 This family includes Aspergillus elastase inhibitor and belongs to MEROPS peptidase inhibitor family I78.
Probab=21.82 E-value=39 Score=19.04 Aligned_cols=9 Identities=56% Similarity=1.036 Sum_probs=6.6
Q ss_pred eeccCCcEE
Q 045201 3 RILRPEGAV 11 (66)
Q Consensus 3 RILRP~G~v 11 (66)
|||+||-.+
T Consensus 27 Rvi~Pg~~v 35 (60)
T PF11720_consen 27 RVIRPGDAV 35 (60)
T ss_pred EEeCCCCcC
Confidence 788887654
No 157
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=21.70 E-value=46 Score=24.83 Aligned_cols=35 Identities=17% Similarity=0.310 Sum_probs=20.6
Q ss_pred eeccCCcEEEEEcCHH-HHHHHHhhhccCCceeEEe
Q 045201 3 RILRPEGAVIIRDQAD-VLVKVRKIVGGMRWNTKII 37 (66)
Q Consensus 3 RILRP~G~vIiRD~~~-vi~~v~~i~~~l~W~~~~~ 37 (66)
|.|+|||++|+.==.+ =.+.|.+.+.+=.|+..-+
T Consensus 251 ~~lkpgg~lIlSGIl~~q~~~V~~a~~~~gf~v~~~ 286 (300)
T COG2264 251 RLLKPGGRLILSGILEDQAESVAEAYEQAGFEVVEV 286 (300)
T ss_pred HHcCCCceEEEEeehHhHHHHHHHHHHhCCCeEeEE
Confidence 5799999998754111 1344555555556765443
No 158
>PRK14766 lipoprotein signal peptidase; Provisional
Probab=21.41 E-value=34 Score=24.14 Aligned_cols=8 Identities=25% Similarity=0.646 Sum_probs=6.2
Q ss_pred CceeccCC
Q 045201 1 MDRILRPE 8 (66)
Q Consensus 1 MDRILRP~ 8 (66)
+||+.||+
T Consensus 123 IDRl~~~~ 130 (201)
T PRK14766 123 LARLWAPG 130 (201)
T ss_pred HHHhcccc
Confidence 48988876
No 159
>PRK10955 DNA-binding transcriptional regulator CpxR; Provisional
Probab=21.34 E-value=2.2e+02 Score=17.95 Aligned_cols=26 Identities=8% Similarity=0.308 Sum_probs=20.7
Q ss_pred EEEEcCHHHHHHHHhhhccCCceeEE
Q 045201 11 VIIRDQADVLVKVRKIVGGMRWNTKI 36 (66)
Q Consensus 11 vIiRD~~~vi~~v~~i~~~l~W~~~~ 36 (66)
+|+-|+..+...++.++....+++..
T Consensus 5 livdd~~~~~~~l~~~l~~~~~~v~~ 30 (232)
T PRK10955 5 LLVDDDRELTSLLKELLEMEGFNVIV 30 (232)
T ss_pred EEEeCCHHHHHHHHHHHHHCCCEEEE
Confidence 58889988888898888877776553
No 160
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=21.32 E-value=48 Score=24.93 Aligned_cols=12 Identities=17% Similarity=0.443 Sum_probs=9.9
Q ss_pred eeccCCcEEEEE
Q 045201 3 RILRPEGAVIIR 14 (66)
Q Consensus 3 RILRP~G~vIiR 14 (66)
|.|+|||.++.-
T Consensus 367 ~~LkpGG~lvys 378 (444)
T PRK14902 367 QYLKKGGILVYS 378 (444)
T ss_pred HHcCCCCEEEEE
Confidence 579999999853
No 161
>TIGR02516 type_III_yscC type III secretion outer membrane pore, YscC/HrcC family. A number of proteins homologous to the type IV pilus secretin PilQ (TIGR02515) are involved in type IV pilus formation, competence for transformation, type III secretion, and type II secretion (also called the main terminal branch of the general secretion pathway). The clade described by this model contains the outer membrane pore proteins of bacterial type III secretion systems, typified by YscC for animal pathogens and HrcC for plant pathogens.
Probab=21.31 E-value=95 Score=23.63 Aligned_cols=24 Identities=21% Similarity=0.457 Sum_probs=21.1
Q ss_pred CcEEEEEcCHHHHHHHHhhhccCC
Q 045201 8 EGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 8 ~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
...+||+++++.+.+++++++.|.
T Consensus 207 tNsliv~~~~~~~~~i~~lI~~LD 230 (462)
T TIGR02516 207 TNAVLIRDRPERMAIYEQLIQQLD 230 (462)
T ss_pred CCEEEEEeCHHHHHHHHHHHHHhC
Confidence 468999999999999999998764
No 162
>PLN02366 spermidine synthase
Probab=21.27 E-value=3e+02 Score=20.17 Aligned_cols=13 Identities=46% Similarity=0.744 Sum_probs=10.7
Q ss_pred eeccCCcEEEEEc
Q 045201 3 RILRPEGAVIIRD 15 (66)
Q Consensus 3 RILRP~G~vIiRD 15 (66)
|.|+|+|.+++.-
T Consensus 194 ~~L~pgGvlv~q~ 206 (308)
T PLN02366 194 RALRPGGVVCTQA 206 (308)
T ss_pred HhcCCCcEEEECc
Confidence 6799999998753
No 163
>PRK15339 type III secretion system outer membrane pore InvG; Provisional
Probab=21.14 E-value=96 Score=24.88 Aligned_cols=24 Identities=8% Similarity=0.310 Sum_probs=21.5
Q ss_pred CcEEEEEcCHHHHHHHHhhhccCC
Q 045201 8 EGAVIIRDQADVLVKVRKIVGGMR 31 (66)
Q Consensus 8 ~G~vIiRD~~~vi~~v~~i~~~l~ 31 (66)
.+.+||||+++-+..++++++.|.
T Consensus 274 tNsliV~~t~~~~~~i~~lI~~LD 297 (559)
T PRK15339 274 TNSLLVKGTAEQVHFIEMLVKALD 297 (559)
T ss_pred CCEEEEEeCHHHHHHHHHHHHHhC
Confidence 478999999999999999998874
No 164
>PF00017 SH2: SH2 domain; InterPro: IPR000980 The Src homology 2 (SH2) domain is a protein domain of about 100 amino-acid residues first identified as a conserved sequence region between the oncoproteins Src and Fps []. Similar sequences were later found in many other intracellular signal-transducing proteins []. SH2 domains function as regulatory modules of intracellular signalling cascades by interacting with high affinity to phosphotyrosine-containing target peptides in a sequence-specific, SH2 domains recognise between 3-6 residues C-terminal to the phosphorylated tyrosine in a fashion that differs from one SH2 domain to another, and strictly phosphorylation-dependent manner [, , , ]. They are found in a wide variety of protein contexts e.g., in association with catalytic domains of phospholipase Cy (PLCy) and the non-receptor protein tyrosine kinases; within structural proteins such as fodrin and tensin; and in a group of small adaptor molecules, i.e Crk and Nck. The domains are frequently found as repeats in a single protein sequence and will then often bind both mono- and di-phosphorylated substrates. The structure of the SH2 domain belongs to the alpha+beta class, its overall shape forming a compact flattened hemisphere. The core structural elements comprise a central hydrophobic anti-parallel beta-sheet, flanked by 2 short alpha-helices. The loop between strands 2 and 3 provides many of the binding interactions with the phosphate group of its phosphopeptide ligand, and is hence designated the phosphate binding loop, the phosphorylated ligand binds perpendicular to the beta-sheet and typically interacts with the phosphate binding loop and a hydrophobic binding pocket that interacts with a pY+3 side chain. The N- and C-termini of the domain are close together in space and on the opposite face from the phosphopeptide binding surface and it has been speculated that this has facilitated their integration into surface-exposed regions of host proteins [].; GO: 0005515 protein binding; PDB: 1M27_A 1KA6_A 1D4W_B 1D4T_A 1D1Z_B 1KA7_A 1UUR_A 1UUS_A 1BLJ_A 1BLK_A ....
Probab=21.09 E-value=68 Score=17.78 Aligned_cols=13 Identities=23% Similarity=0.820 Sum_probs=10.8
Q ss_pred cCCcEEEEEcCHH
Q 045201 6 RPEGAVIIRDQAD 18 (66)
Q Consensus 6 RP~G~vIiRD~~~ 18 (66)
.|.|..+||++..
T Consensus 19 ~~~G~FLvR~s~~ 31 (77)
T PF00017_consen 19 KPDGTFLVRPSSS 31 (77)
T ss_dssp SSTTEEEEEEESS
T ss_pred CCCCeEEEEeccc
Confidence 3699999999864
No 165
>KOG3010 consensus Methyltransferase [General function prediction only]
Probab=21.04 E-value=46 Score=24.74 Aligned_cols=31 Identities=19% Similarity=0.251 Sum_probs=15.8
Q ss_pred eeccCCcEEE----EEcCHHHHHHHHhhhccCCce
Q 045201 3 RILRPEGAVI----IRDQADVLVKVRKIVGGMRWN 33 (66)
Q Consensus 3 RILRP~G~vI----iRD~~~vi~~v~~i~~~l~W~ 33 (66)
|+|||.|-+| .+|+.-+--++.++...+.|+
T Consensus 124 rvLRk~Gg~iavW~Y~dd~v~~pE~dsv~~r~~~~ 158 (261)
T KOG3010|consen 124 RVLRKDGGLIAVWNYNDDFVDWPEFDSVMLRLYDS 158 (261)
T ss_pred HHcCCCCCEEEEEEccCCCcCCHHHHHHHHHHhhc
Confidence 8999999222 243332333344444445553
No 166
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=20.77 E-value=1.9e+02 Score=16.87 Aligned_cols=47 Identities=15% Similarity=0.109 Sum_probs=32.4
Q ss_pred ccCCc-EEEEEcCHHHHHHHHhhhccCCceeEEeecCCCCcCcceEEEEEec
Q 045201 5 LRPEG-AVIIRDQADVLVKVRKIVGGMRWNTKIIDHEDGPLVTEKILFAVKR 55 (66)
Q Consensus 5 LRP~G-~vIiRD~~~vi~~v~~i~~~l~W~~~~~~~e~~~~~~e~iLi~~K~ 55 (66)
|.||+ ..++-|++....-|...++....+....+.++| +-.++.+|.
T Consensus 33 l~~G~~l~V~~dd~~~~~di~~~~~~~G~~~~~~~~~~g----~~~~~I~k~ 80 (81)
T PRK00299 33 MQPGETLLIIADDPATTRDIPSFCRFMDHELLAQETEQL----PYRYLIRKG 80 (81)
T ss_pred CCCCCEEEEEeCCccHHHHHHHHHHHcCCEEEEEEecCC----EEEEEEEEC
Confidence 45676 456778899999999999999998765443332 334444554
No 167
>PF13417 GST_N_3: Glutathione S-transferase, N-terminal domain; PDB: 3ERG_B 3IBH_A 3ERF_A 3UBL_A 3UBK_A 3IR4_A 3M8N_B 2R4V_A 2PER_A 2R5G_A ....
Probab=20.60 E-value=97 Score=17.08 Aligned_cols=22 Identities=18% Similarity=0.382 Sum_probs=16.7
Q ss_pred ccCCcEEEEEcCHHHHHHHHhhh
Q 045201 5 LRPEGAVIIRDQADVLVKVRKIV 27 (66)
Q Consensus 5 LRP~G~vIiRD~~~vi~~v~~i~ 27 (66)
|.++|. ++-|+..+++.+.+..
T Consensus 50 L~~~g~-~l~dS~~I~~yL~~~~ 71 (75)
T PF13417_consen 50 LVDDGE-VLTDSAAIIEYLEERY 71 (75)
T ss_dssp EEETTE-EEESHHHHHHHHHHHS
T ss_pred EEECCE-EEeCHHHHHHHHHHHc
Confidence 446666 7889999999988753
No 168
>cd01513 Translation_factor_III Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu complexed with GTP and aminoacyl-tRNA delivers tRNA to the ribosome, whereas EF-G stimulates translocation, a process in which tRNA and mRNA movements occur in the ribosome. Experimental data showed that: (1) intrinsic GTPase activity of EF-G is influenced by excision of its domain III; (2) that EF-G lacking domain III has a 1,000-fold decreased GTPase activity on the ribosome and, a slightly decreased affinity for GTP; and (3) EF-G lacking domain III does not stimulate translocation, despite the physical presence of domain IV which is also very important for translocation. These findings indicate an essential contribution of domain III to activation of GTP hydrolysis. Domains III and V of EF-G have the s
Probab=20.58 E-value=71 Score=18.47 Aligned_cols=12 Identities=25% Similarity=0.479 Sum_probs=10.0
Q ss_pred cCCcEEEEEcCH
Q 045201 6 RPEGAVIIRDQA 17 (66)
Q Consensus 6 RP~G~vIiRD~~ 17 (66)
+++|.+++||..
T Consensus 83 ~~~grfilr~~~ 94 (102)
T cd01513 83 QEGGRFALRDGG 94 (102)
T ss_pred CCcccEEEEeCC
Confidence 488999999875
No 169
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=20.48 E-value=54 Score=24.71 Aligned_cols=51 Identities=14% Similarity=0.266 Sum_probs=26.5
Q ss_pred eeccCCcEEEEEc----CHHHHHHHHhhhccC-CceeEEee--cCCCCcCcceEEEEE
Q 045201 3 RILRPEGAVIIRD----QADVLVKVRKIVGGM-RWNTKIID--HEDGPLVTEKILFAV 53 (66)
Q Consensus 3 RILRP~G~vIiRD----~~~vi~~v~~i~~~l-~W~~~~~~--~e~~~~~~e~iLi~~ 53 (66)
|.|+|||.++.-. ..+....|+.++..- .|+..... .-...++.+++++|.
T Consensus 372 ~~lkpgG~lvystcsi~~~Ene~~v~~~l~~~~~~~~~~~~~~~~P~~~~~dGfF~a~ 429 (434)
T PRK14901 372 PLLKPGGTLVYATCTLHPAENEAQIEQFLARHPDWKLEPPKQKIWPHRQDGDGFFMAV 429 (434)
T ss_pred HhcCCCCEEEEEeCCCChhhHHHHHHHHHHhCCCcEecCCCCccCCCCCCCCcEEEEE
Confidence 5799999987553 224455566665543 34321100 001112457888874
No 170
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=20.35 E-value=52 Score=24.37 Aligned_cols=12 Identities=33% Similarity=0.401 Sum_probs=9.9
Q ss_pred eeccCCcEEEEE
Q 045201 3 RILRPEGAVIIR 14 (66)
Q Consensus 3 RILRP~G~vIiR 14 (66)
|.|+|||.++|=
T Consensus 291 ~~LkpgG~L~iV 302 (342)
T PRK09489 291 RHLNSGGELRIV 302 (342)
T ss_pred HhcCcCCEEEEE
Confidence 579999999773
No 171
>TIGR01681 HAD-SF-IIIC HAD-superfamily phosphatase, subfamily IIIC. No member of this subfamily is characterized with respect to function, however the MDP-1 protein is a characterized phosphatase. All of the characterized enzymes within subfamily III are phosphatases, and all of the active site residues characteristic of HAD-superfamily phosphatases are present in subfamily IIIC.
Probab=20.30 E-value=1.1e+02 Score=19.03 Aligned_cols=23 Identities=22% Similarity=0.408 Sum_probs=20.2
Q ss_pred ccCCcEEEEEcCHHHHHHHHhhh
Q 045201 5 LRPEGAVIIRDQADVLVKVRKIV 27 (66)
Q Consensus 5 LRP~G~vIiRD~~~vi~~v~~i~ 27 (66)
+.|+-.++|-|+..-+++|++++
T Consensus 106 ~~p~~~l~igDs~~n~~~~~~~~ 128 (128)
T TIGR01681 106 LKPKSILFVDDRPDNNEEVDYYL 128 (128)
T ss_pred CCcceEEEECCCHhHHHHHHhhC
Confidence 67899999999999999998764
Done!