Query psy5588
Match_columns 61
No_of_seqs 145 out of 1030
Neff 7.6
Searched_HMMs 46136
Date Fri Aug 16 21:23:38 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5588.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5588hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2518 Pcm Protein-L-isoaspar 99.7 3.1E-17 6.6E-22 102.2 7.4 55 1-56 151-205 (209)
2 PF01135 PCMT: Protein-L-isoas 99.7 3.1E-16 6.7E-21 97.5 6.3 55 1-56 154-208 (209)
3 KOG1661|consensus 99.4 2.1E-12 4.6E-17 81.2 6.7 60 1-60 175-234 (237)
4 TIGR00080 pimt protein-L-isoas 99.3 1.4E-11 2.9E-16 76.0 7.8 56 1-59 159-214 (215)
5 PRK13942 protein-L-isoaspartat 99.3 1E-11 2.2E-16 76.7 7.2 54 1-57 158-211 (212)
6 PRK13944 protein-L-isoaspartat 99.3 2E-11 4.3E-16 75.0 7.1 51 1-53 155-205 (205)
7 PRK00312 pcm protein-L-isoaspa 99.1 1.3E-09 2.7E-14 66.9 7.6 54 1-56 157-210 (212)
8 PRK13943 protein-L-isoaspartat 98.0 2.5E-05 5.5E-10 51.4 6.4 55 1-56 162-217 (322)
9 PF09857 DUF2084: Uncharacteri 85.5 2.3 4.9E-05 23.4 3.7 31 4-34 9-39 (85)
10 COG2242 CobL Precorrin-6B meth 85.4 0.5 1.1E-05 29.4 1.3 19 1-19 117-135 (187)
11 PRK13687 hypothetical protein; 85.1 2.4 5.2E-05 23.3 3.7 32 3-34 8-39 (85)
12 TIGR02469 CbiT precorrin-6Y C5 75.7 3.1 6.8E-05 22.4 2.2 17 3-19 106-122 (124)
13 COG4106 Tam Trans-aconitate me 72.5 3 6.6E-05 27.1 1.9 19 3-21 113-131 (257)
14 PRK00107 gidB 16S rRNA methylt 71.9 3.1 6.8E-05 25.4 1.8 20 3-22 129-148 (187)
15 COG3811 Uncharacterized protei 70.4 12 0.00027 20.3 3.7 32 3-34 8-39 (85)
16 COG0275 Predicted S-adenosylme 70.2 4 8.8E-05 27.4 2.1 18 3-20 228-245 (314)
17 TIGR00006 S-adenosyl-methyltra 67.5 4.9 0.00011 26.7 2.1 16 4-19 225-240 (305)
18 PF13659 Methyltransf_26: Meth 66.5 4 8.6E-05 22.0 1.3 18 3-20 99-116 (117)
19 PF06859 Bin3: Bicoid-interact 65.2 3.2 6.9E-05 23.8 0.8 14 4-17 29-42 (110)
20 PRK07402 precorrin-6B methylas 64.7 5.8 0.00013 23.8 1.9 18 3-20 126-143 (196)
21 PLN02232 ubiquinone biosynthes 62.9 6.5 0.00014 23.0 1.8 16 3-18 65-80 (160)
22 TIGR00452 methyltransferase, p 61.9 6.7 0.00015 26.0 1.9 16 3-18 209-224 (314)
23 PF13489 Methyltransf_23: Meth 61.6 4.4 9.5E-05 22.8 0.9 19 3-21 99-117 (161)
24 TIGR00138 gidB 16S rRNA methyl 61.1 9.5 0.00021 23.0 2.4 20 3-22 126-145 (181)
25 PF06962 rRNA_methylase: Putat 60.9 5.3 0.00012 23.7 1.2 19 3-21 76-94 (140)
26 PF09142 TruB_C: tRNA Pseudour 59.7 15 0.00033 18.3 2.6 12 9-20 32-43 (56)
27 PRK00050 16S rRNA m(4)C1402 me 59.3 8.6 0.00019 25.4 2.1 17 4-20 221-237 (296)
28 PF02522 Antibiotic_NAT: Amino 59.1 8.6 0.00019 24.1 2.0 19 3-21 21-39 (229)
29 TIGR02716 C20_methyl_CrtF C-20 59.1 8.2 0.00018 24.8 1.9 15 4-18 239-253 (306)
30 PF01795 Methyltransf_5: MraW 59.0 5.1 0.00011 26.7 1.0 16 4-19 226-241 (310)
31 PRK14103 trans-aconitate 2-met 57.7 9.9 0.00021 23.7 2.1 17 4-20 111-127 (255)
32 PRK15451 tRNA cmo(5)U34 methyl 57.4 9.2 0.0002 23.9 1.9 16 3-18 148-163 (247)
33 KOG1270|consensus 57.4 7.5 0.00016 25.8 1.5 16 3-18 179-194 (282)
34 PLN02233 ubiquinone biosynthes 57.0 8.9 0.00019 24.3 1.8 17 3-19 166-182 (261)
35 PRK00377 cbiT cobalt-precorrin 56.6 9.9 0.00021 22.9 1.9 15 4-18 130-144 (198)
36 TIGR01934 MenG_MenH_UbiE ubiqu 56.4 9.9 0.00022 22.6 1.9 16 3-18 127-142 (223)
37 PRK10148 hypothetical protein; 56.1 14 0.0003 21.6 2.4 19 4-22 101-119 (147)
38 PRK15068 tRNA mo(5)U34 methylt 55.0 10 0.00022 25.0 1.9 15 3-17 210-224 (322)
39 PF11250 DUF3049: Protein of u 54.9 27 0.00059 17.6 3.2 31 8-40 22-52 (56)
40 PTZ00098 phosphoethanolamine N 54.4 11 0.00023 24.0 1.9 15 4-18 141-155 (263)
41 smart00828 PKS_MT Methyltransf 53.9 12 0.00025 22.7 1.9 15 4-18 89-103 (224)
42 PF05401 NodS: Nodulation prot 53.7 7 0.00015 24.7 0.9 16 3-18 130-145 (201)
43 smart00138 MeTrc Methyltransfe 53.4 11 0.00023 24.1 1.8 16 3-18 226-241 (264)
44 PRK04266 fibrillarin; Provisio 53.1 12 0.00026 23.5 1.9 15 5-19 162-176 (226)
45 PRK11088 rrmA 23S rRNA methylt 52.6 12 0.00025 23.8 1.8 18 3-20 165-182 (272)
46 PRK11873 arsM arsenite S-adeno 52.6 12 0.00026 23.5 1.9 14 4-17 168-181 (272)
47 PRK08317 hypothetical protein; 52.1 12 0.00026 22.3 1.8 17 3-19 108-124 (241)
48 PRK08287 cobalt-precorrin-6Y C 51.9 13 0.00028 22.0 1.9 16 4-19 116-131 (187)
49 COG1352 CheR Methylase of chem 51.3 13 0.00027 24.3 1.8 17 3-19 225-241 (268)
50 KOG2198|consensus 51.0 9.1 0.0002 26.3 1.2 12 6-17 283-294 (375)
51 PRK11188 rrmJ 23S rRNA methylt 50.9 14 0.00029 22.8 1.9 18 3-20 149-166 (209)
52 TIGR02752 MenG_heptapren 2-hep 50.7 13 0.00028 22.6 1.8 16 4-19 136-151 (231)
53 PF01209 Ubie_methyltran: ubiE 50.4 7.8 0.00017 24.4 0.8 16 3-18 137-152 (233)
54 PF01234 NNMT_PNMT_TEMT: NNMT/ 50.1 8.2 0.00018 25.0 0.9 18 4-21 184-201 (256)
55 cd02440 AdoMet_MTases S-adenos 49.6 17 0.00036 17.9 1.9 15 4-18 89-103 (107)
56 PLN02244 tocopherol O-methyltr 49.0 14 0.00031 24.4 1.8 16 4-19 208-223 (340)
57 TIGR00477 tehB tellurite resis 48.8 15 0.00032 22.2 1.8 16 4-19 118-133 (195)
58 PRK11036 putative S-adenosyl-L 48.6 15 0.00032 23.0 1.9 18 3-20 133-150 (255)
59 PF11332 DUF3134: Protein of u 48.1 4.8 0.0001 21.5 -0.4 15 3-17 22-36 (73)
60 PRK04457 spermidine synthase; 47.9 16 0.00034 23.4 1.9 17 4-20 162-178 (262)
61 PF12198 Tuberculin: Theoretic 47.8 11 0.00024 17.1 0.9 10 13-22 21-30 (34)
62 PRK10611 chemotaxis methyltran 47.2 16 0.00034 24.0 1.8 17 3-19 246-262 (287)
63 TIGR00740 methyltransferase, p 46.6 17 0.00037 22.4 1.9 15 4-18 146-160 (239)
64 PF03269 DUF268: Caenorhabditi 44.9 22 0.00047 22.1 2.1 18 5-22 97-116 (177)
65 PF11966 SSURE: Fibronectin-bi 44.7 8.8 0.00019 20.8 0.3 12 3-14 37-48 (81)
66 TIGR00417 speE spermidine synt 44.3 18 0.0004 23.0 1.8 17 4-20 171-187 (270)
67 PRK01683 trans-aconitate 2-met 43.3 21 0.00046 22.1 1.9 17 3-19 114-130 (258)
68 PRK00517 prmA ribosomal protei 42.8 21 0.00047 22.3 1.9 15 4-18 198-212 (250)
69 PLN02396 hexaprenyldihydroxybe 42.7 21 0.00045 23.7 1.9 17 3-19 219-235 (322)
70 PF01739 CheR: CheR methyltran 42.3 13 0.00029 22.9 0.9 17 3-19 159-175 (196)
71 COG4798 Predicted methyltransf 42.2 22 0.00048 22.9 1.9 15 4-18 151-165 (238)
72 TIGR00438 rrmJ cell division p 41.7 23 0.0005 21.0 1.9 15 5-19 132-146 (188)
73 TIGR01177 conserved hypothetic 41.7 30 0.00064 22.6 2.5 19 4-22 279-297 (329)
74 COG2764 PhnB Uncharacterized p 41.0 34 0.00073 20.2 2.4 21 3-23 89-110 (136)
75 PRK11207 tellurite resistance 40.5 24 0.00053 21.3 1.8 14 4-17 119-132 (197)
76 PLN02336 phosphoethanolamine N 40.4 22 0.00049 24.2 1.8 16 3-18 353-368 (475)
77 PF05219 DREV: DREV methyltran 40.2 29 0.00063 22.8 2.3 18 4-21 173-190 (265)
78 TIGR00537 hemK_rel_arch HemK-r 39.8 24 0.00053 20.7 1.8 17 5-21 126-142 (179)
79 PRK00811 spermidine synthase; 39.6 25 0.00054 22.7 1.9 17 4-20 176-192 (283)
80 PF02384 N6_Mtase: N-6 DNA Met 39.3 19 0.00042 23.0 1.3 16 5-20 169-184 (311)
81 PF11314 DUF3117: Protein of u 39.2 20 0.00043 17.8 1.1 13 9-21 25-37 (51)
82 PF08003 Methyltransf_9: Prote 39.1 25 0.00054 23.7 1.8 14 4-17 204-217 (315)
83 PRK14967 putative methyltransf 38.9 27 0.00058 21.4 1.9 17 5-21 145-161 (223)
84 PRK09328 N5-glutamine S-adenos 38.5 33 0.00071 21.3 2.3 16 7-22 226-241 (275)
85 cd06588 PhnB_like Escherichia 38.4 40 0.00087 18.6 2.4 20 3-22 89-108 (128)
86 PF02381 MraZ: MraZ protein; 38.3 44 0.00094 16.9 2.4 12 1-12 18-29 (72)
87 TIGR03840 TMPT_Se_Te thiopurin 38.2 27 0.00059 21.6 1.8 16 3-18 136-151 (213)
88 KOG2899|consensus 38.1 27 0.00058 23.2 1.8 14 4-17 194-207 (288)
89 PLN02490 MPBQ/MSBQ methyltrans 37.3 28 0.00061 23.4 1.9 15 3-17 199-213 (340)
90 TIGR00446 nop2p NOL1/NOP2/sun 37.0 27 0.00057 22.2 1.7 15 4-18 184-198 (264)
91 TIGR00406 prmA ribosomal prote 36.8 30 0.00065 22.3 1.9 15 4-18 244-258 (288)
92 TIGR00091 tRNA (guanine-N(7)-) 36.5 32 0.00068 20.7 1.9 17 4-20 117-133 (194)
93 PF03492 Methyltransf_7: SAM d 36.3 16 0.00036 24.3 0.7 14 7-20 171-184 (334)
94 PRK09798 antitoxin MazE; Provi 36.2 39 0.00085 18.1 2.1 20 1-20 17-38 (82)
95 PLN02781 Probable caffeoyl-CoA 35.7 32 0.00069 21.6 1.9 14 4-17 163-176 (234)
96 PF02353 CMAS: Mycolic acid cy 35.2 29 0.00063 22.4 1.7 13 5-17 152-164 (273)
97 COG4122 Predicted O-methyltran 34.6 33 0.00072 21.8 1.8 15 3-17 150-164 (219)
98 PRK00216 ubiE ubiquinone/menaq 34.5 35 0.00075 20.5 1.9 15 4-18 143-157 (239)
99 TIGR01439 lp_hng_hel_AbrB loop 34.0 44 0.00096 14.8 1.8 7 12-18 6-12 (43)
100 COG2226 UbiE Methylase involve 33.7 34 0.00074 21.9 1.8 15 4-18 141-155 (238)
101 TIGR03534 RF_mod_PrmC protein- 33.6 44 0.00096 20.3 2.3 18 4-21 202-219 (251)
102 PRK00121 trmB tRNA (guanine-N( 33.4 38 0.00082 20.5 1.9 16 4-19 141-156 (202)
103 PRK10258 biotin biosynthesis p 33.2 36 0.00078 21.0 1.8 16 4-19 125-140 (251)
104 TIGR02072 BioC biotin biosynth 32.7 39 0.00085 20.1 1.9 16 4-19 120-135 (240)
105 PRK14968 putative methyltransf 32.2 49 0.0011 19.1 2.2 19 3-21 132-150 (188)
106 PLN02476 O-methyltransferase 31.8 40 0.00087 22.1 1.9 14 4-17 213-226 (278)
107 PRK00536 speE spermidine synth 31.7 40 0.00087 21.9 1.9 17 4-20 156-172 (262)
108 PLN02668 indole-3-acetate carb 31.1 36 0.00077 23.5 1.6 12 9-20 227-238 (386)
109 PLN02366 spermidine synthase 30.8 42 0.00091 22.2 1.9 15 4-18 191-205 (308)
110 COG2521 Predicted archaeal met 30.0 55 0.0012 21.7 2.3 20 4-23 230-249 (287)
111 PF01728 FtsJ: FtsJ-like methy 29.9 34 0.00074 20.0 1.3 16 6-21 126-141 (181)
112 KOG1663|consensus 29.9 42 0.00091 21.8 1.7 15 3-17 167-181 (237)
113 PLN03075 nicotianamine synthas 29.9 45 0.00097 22.1 1.9 18 3-20 217-234 (296)
114 PRK14901 16S rRNA methyltransf 29.7 40 0.00086 23.0 1.7 15 4-18 369-383 (434)
115 PF04225 OapA: Opacity-associa 29.4 99 0.0021 16.5 5.0 19 5-23 39-57 (85)
116 TIGR03438 probable methyltrans 28.7 49 0.0011 21.4 1.9 16 4-19 162-177 (301)
117 PRK01581 speE spermidine synth 28.6 48 0.001 22.8 1.9 17 4-20 253-269 (374)
118 TIGR00563 rsmB ribosomal RNA s 28.1 49 0.0011 22.5 1.9 14 5-18 354-367 (426)
119 COG2103 Predicted sugar phosph 27.8 36 0.00078 22.8 1.2 15 3-17 51-65 (298)
120 PRK10901 16S rRNA methyltransf 27.7 50 0.0011 22.5 1.9 16 4-19 357-372 (427)
121 TIGR03505 FimV_core FimV N-ter 27.6 38 0.00081 17.9 1.0 16 6-21 38-53 (74)
122 PRK11705 cyclopropane fatty ac 27.5 50 0.0011 22.4 1.9 15 4-18 252-266 (383)
123 PRK12335 tellurite resistance 27.0 54 0.0012 21.0 1.9 15 4-18 208-222 (287)
124 TIGR00536 hemK_fam HemK family 26.9 74 0.0016 20.3 2.5 18 5-22 230-247 (284)
125 PF03607 DCX: Doublecortin; I 26.9 52 0.0011 16.3 1.5 13 6-18 42-54 (60)
126 KOG2782|consensus 26.8 41 0.00088 22.2 1.3 14 6-19 255-268 (303)
127 TIGR03704 PrmC_rel_meth putati 26.0 79 0.0017 20.0 2.5 17 6-22 203-219 (251)
128 PF05175 MTS: Methyltransferas 25.8 39 0.00085 19.8 1.0 17 6-22 127-143 (170)
129 COG1041 Predicted DNA modifica 25.7 58 0.0013 22.2 1.9 18 3-20 294-311 (347)
130 PRK11805 N5-glutamine S-adenos 25.7 79 0.0017 20.7 2.5 18 5-22 249-266 (307)
131 PRK03612 spermidine synthase; 25.7 56 0.0012 23.0 1.9 16 4-19 400-415 (521)
132 TIGR03533 L3_gln_methyl protei 25.4 74 0.0016 20.5 2.3 17 5-21 237-253 (284)
133 KOG4300|consensus 25.4 61 0.0013 21.1 1.9 16 4-19 167-182 (252)
134 PRK11426 hypothetical protein; 24.8 32 0.0007 20.3 0.5 15 3-17 98-112 (132)
135 PRK11933 yebU rRNA (cytosine-C 24.4 56 0.0012 23.0 1.7 12 6-17 229-240 (470)
136 PF10115 HlyU: Transcriptional 24.3 1.4E+02 0.003 16.6 5.1 37 12-48 25-63 (91)
137 COG0144 Sun tRNA and rRNA cyto 24.3 57 0.0012 21.9 1.7 15 4-18 273-287 (355)
138 PRK05134 bifunctional 3-demeth 24.3 68 0.0015 19.5 1.9 16 4-19 136-151 (233)
139 PLN02589 caffeoyl-CoA O-methyl 23.4 69 0.0015 20.5 1.9 14 4-17 175-188 (247)
140 PF10590 PNPOx_C: Pyridoxine 5 23.3 99 0.0021 14.5 4.4 34 12-45 2-41 (42)
141 PRK14904 16S rRNA methyltransf 23.0 69 0.0015 22.0 1.9 16 4-19 362-377 (445)
142 COG2350 Uncharacterized protei 23.0 60 0.0013 17.9 1.3 15 3-17 25-39 (92)
143 PRK06922 hypothetical protein; 22.9 67 0.0015 23.9 1.9 16 4-19 522-537 (677)
144 PF00107 ADH_zinc_N: Zinc-bind 22.8 43 0.00094 18.1 0.8 17 4-20 74-90 (130)
145 PRK09489 rsmC 16S ribosomal RN 22.7 88 0.0019 20.9 2.3 16 5-20 289-304 (342)
146 PRK14902 16S rRNA methyltransf 22.4 65 0.0014 22.0 1.7 13 5-17 365-377 (444)
147 COG1224 TIP49 DNA helicase TIP 21.7 2.2E+02 0.0048 20.2 4.1 52 2-56 175-230 (450)
148 COG2813 RsmC 16S RNA G1207 met 21.6 76 0.0016 21.3 1.8 16 4-19 58-73 (300)
149 COG2264 PrmA Ribosomal protein 21.5 78 0.0017 21.2 1.8 15 3-17 247-261 (300)
150 COG4811 Predicted membrane pro 21.4 1.5E+02 0.0032 17.9 2.9 25 8-36 115-139 (152)
151 PLN02823 spermine synthase 21.4 79 0.0017 21.2 1.9 17 4-20 205-221 (336)
152 PF13847 Methyltransf_31: Meth 21.3 48 0.001 18.8 0.8 16 4-19 95-110 (152)
153 PRK13255 thiopurine S-methyltr 21.2 80 0.0017 19.6 1.8 15 3-17 139-153 (218)
154 PF14315 DUF4380: Domain of un 21.2 64 0.0014 20.7 1.4 17 6-22 147-163 (274)
155 COG0302 FolE GTP cyclohydrolas 21.1 2.2E+02 0.0047 18.0 3.7 42 1-45 133-174 (195)
156 PRK06274 indolepyruvate oxidor 20.9 88 0.0019 18.8 1.9 14 5-18 82-95 (197)
157 PRK13256 thiopurine S-methyltr 20.6 85 0.0018 19.9 1.8 17 4-20 148-164 (226)
158 PRK14903 16S rRNA methyltransf 20.4 85 0.0018 21.6 1.9 15 5-19 352-366 (431)
159 TIGR01983 UbiG ubiquinone bios 20.4 91 0.002 18.6 1.9 16 4-19 134-149 (224)
160 PF01555 N6_N4_Mtase: DNA meth 20.3 73 0.0016 18.7 1.5 19 4-22 41-59 (231)
161 PF05195 AMP_N: Aminopeptidase 20.3 87 0.0019 17.9 1.7 19 3-21 11-29 (134)
No 1
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=99.72 E-value=3.1e-17 Score=102.23 Aligned_cols=55 Identities=47% Similarity=0.787 Sum_probs=51.3
Q ss_pred CcHhHHhcccCCcEEEEEeeCCCCceEEEEEEECCCCcEEEEEeeeEEEEeccCCC
Q psy5588 1 MVVELIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPLTDKQ 56 (61)
Q Consensus 1 iP~~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~~~g~~~~~~l~~~~fvpL~~~~ 56 (61)
+|++|++||++|||||+|+|.. ..|++++++|++++++..+.+++|+|+||.+..
T Consensus 151 vP~~Ll~QL~~gGrlv~PvG~~-~~q~l~~~~k~~~~~~~~~~l~~v~~vPl~~~~ 205 (209)
T COG2518 151 VPEALLDQLKPGGRLVIPVGSG-PAQRLLRITKDGDGNFERRDLFNVRFVPLVGGD 205 (209)
T ss_pred CCHHHHHhcccCCEEEEEEccC-CcEEEEEEEEcCCCcEEEeeeccceeeecCCcc
Confidence 6999999999999999999954 789999999998889999999999999999955
No 2
>PF01135 PCMT: Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2.1.1.77 from EC) (PCMT) [] (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyses the transfer of a methyl group from S-adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerisation of normal L-aspartyl and L-asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process; PDB: 3LBF_A 1DL5_B 1JG3_B 1JG2_A 1JG1_A 1JG4_A 2YXE_A 2PBF_B 1VBF_C 1R18_A ....
Probab=99.66 E-value=3.1e-16 Score=97.49 Aligned_cols=55 Identities=42% Similarity=0.787 Sum_probs=45.8
Q ss_pred CcHhHHhcccCCcEEEEEeeCCCCceEEEEEEECCCCcEEEEEeeeEEEEeccCCC
Q psy5588 1 MVVELIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPLTDKQ 56 (61)
Q Consensus 1 iP~~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~~~g~~~~~~l~~~~fvpL~~~~ 56 (61)
+|++|++||++|||||+|++. +..|.+++++|.+++.++.+.+++|+|+||.+.+
T Consensus 154 ip~~l~~qL~~gGrLV~pi~~-~~~~~l~~~~k~~~g~~~~~~~~~~~fvpl~~~~ 208 (209)
T PF01135_consen 154 IPEALLEQLKPGGRLVAPIGQ-GGSQRLVRITKKGDGEFSREELFPVRFVPLVGGE 208 (209)
T ss_dssp --HHHHHTEEEEEEEEEEESS-SSSEEEEEEEEETTTEEEEEEEEEE---B-BSCC
T ss_pred HHHHHHHhcCCCcEEEEEEcc-CCceEEEEEEEeCCCcEEEEEEeeEEEEeccCCC
Confidence 689999999999999999998 4789999999997789999999999999999864
No 3
>KOG1661|consensus
Probab=99.37 E-value=2.1e-12 Score=81.16 Aligned_cols=60 Identities=55% Similarity=0.873 Sum_probs=55.0
Q ss_pred CcHhHHhcccCCcEEEEEeeCCCCceEEEEEEECCCCcEEEEEeeeEEEEeccCCCCCCC
Q psy5588 1 MVVELIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPLTDKQHQWP 60 (61)
Q Consensus 1 iP~~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~~~g~~~~~~l~~~~fvpL~~~~~~~~ 60 (61)
+|++|++||++||||++|+++.+..|.+..++|..+|....+.+|.+++|||.....+|.
T Consensus 175 ~pq~l~dqL~~gGrllip~~~~~~~q~~~~~dk~~~gki~~~~~f~v~yvPlt~~~~q~~ 234 (237)
T KOG1661|consen 175 LPQELLDQLKPGGRLLIPVGQDGGTQYLRQIDKNEDGKIKLRTLFSVRYVPLTSRESQPS 234 (237)
T ss_pred cHHHHHHhhccCCeEEEeecccCceeEEEeecccccCceeeeEeeceEEEeccccccccC
Confidence 589999999999999999998667788999999888999999999999999999887775
No 4
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=99.32 E-value=1.4e-11 Score=75.96 Aligned_cols=56 Identities=36% Similarity=0.553 Sum_probs=50.6
Q ss_pred CcHhHHhcccCCcEEEEEeeCCCCceEEEEEEECCCCcEEEEEeeeEEEEeccCCCCCC
Q psy5588 1 MVVELIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPLTDKQHQW 59 (61)
Q Consensus 1 iP~~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~~~g~~~~~~l~~~~fvpL~~~~~~~ 59 (61)
+|+.+.++|++||+|++|++. ..+++.+++|. ++.|..+.+++|.|+||.+++++|
T Consensus 159 ~~~~~~~~L~~gG~lv~~~~~--~~~~~~~~~~~-~~~~~~~~~~~~~~~pl~~~~~~~ 214 (215)
T TIGR00080 159 IPEALIDQLKEGGILVMPVGE--YLQVLKRAEKR-GGEIIIKDVEPVAFVPLVGGEGFQ 214 (215)
T ss_pred ccHHHHHhcCcCcEEEEEEcC--CceEEEEEEEe-CCEEEEEEeeeEEEEeCCCCccCC
Confidence 578899999999999999986 57899999997 567999999999999999998777
No 5
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=99.32 E-value=1e-11 Score=76.75 Aligned_cols=54 Identities=39% Similarity=0.705 Sum_probs=48.3
Q ss_pred CcHhHHhcccCCcEEEEEeeCCCCceEEEEEEECCCCcEEEEEeeeEEEEeccCCCC
Q psy5588 1 MVVELIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPLTDKQH 57 (61)
Q Consensus 1 iP~~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~~~g~~~~~~l~~~~fvpL~~~~~ 57 (61)
+|+.|.+||++||+||+|++.. .+.+++++|. ++.++.+.+++|+|+||.+...
T Consensus 158 ~~~~l~~~LkpgG~lvi~~~~~--~~~~~~~~~~-~~~~~~~~~~~~~f~~~~~~~~ 211 (212)
T PRK13942 158 IPKPLIEQLKDGGIMVIPVGSY--SQELIRVEKD-NGKIIKKKLGEVAFVPLIGKNG 211 (212)
T ss_pred chHHHHHhhCCCcEEEEEEcCC--CcEEEEEEEE-CCEEEEEEeccEEEEecccCCC
Confidence 5789999999999999999863 6899999997 4679999999999999998764
No 6
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=99.28 E-value=2e-11 Score=75.02 Aligned_cols=51 Identities=31% Similarity=0.556 Sum_probs=45.2
Q ss_pred CcHhHHhcccCCcEEEEEeeCCCCceEEEEEEECCCCcEEEEEeeeEEEEecc
Q psy5588 1 MVVELIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPLT 53 (61)
Q Consensus 1 iP~~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~~~g~~~~~~l~~~~fvpL~ 53 (61)
+|+.|++||++||+|++|++.. ..|.+++++|. ++.++.+.++.|+||||.
T Consensus 155 ~~~~l~~~L~~gG~lvi~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~f~pl~ 205 (205)
T PRK13944 155 IPSALVRQLKDGGVLVIPVEEG-VGQVLYKVVKR-GEKVEKRAITYVLFVPLR 205 (205)
T ss_pred hhHHHHHhcCcCcEEEEEEcCC-CceEEEEEEEe-CCEEEEEEeceEEEEecC
Confidence 4789999999999999999865 56889999997 457999999999999985
No 7
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=99.06 E-value=1.3e-09 Score=66.86 Aligned_cols=54 Identities=37% Similarity=0.634 Sum_probs=47.2
Q ss_pred CcHhHHhcccCCcEEEEEeeCCCCceEEEEEEECCCCcEEEEEeeeEEEEeccCCC
Q psy5588 1 MVVELIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLMQVVYVPLTDKQ 56 (61)
Q Consensus 1 iP~~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~~~g~~~~~~l~~~~fvpL~~~~ 56 (61)
+|+.+.++|++||+|+++++.. ..+.+.+++|. ++.+..+.+++|+|+||.++.
T Consensus 157 ~~~~l~~~L~~gG~lv~~~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~p~~~~~ 210 (212)
T PRK00312 157 IPRALLEQLKEGGILVAPVGGE-EQQLLTRVRKR-GGRFEREVLEEVRFVPLVKGE 210 (212)
T ss_pred hhHHHHHhcCCCcEEEEEEcCC-CceEEEEEEEc-CCeEEEEEEccEEEEecCCCC
Confidence 4678999999999999999944 67889999996 667999999999999999765
No 8
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=98.02 E-value=2.5e-05 Score=51.45 Aligned_cols=55 Identities=18% Similarity=0.309 Sum_probs=43.7
Q ss_pred CcHhHHhcccCCcEEEEEeeCC-CCceEEEEEEECCCCcEEEEEeeeEEEEeccCCC
Q psy5588 1 MVVELIDQLRPGGRLIIPVGPE-GSAQSLEQIDKNLDGTITRTPLMQVVYVPLTDKQ 56 (61)
Q Consensus 1 iP~~l~~QL~~gGrLV~pvg~~-~~~~~l~~~~r~~~g~~~~~~l~~~~fvpL~~~~ 56 (61)
+|+.++++|++||++++|+... ...+...+++|. ++.+....+++++|++..|.-
T Consensus 162 ip~~~~~~LkpgG~Lvv~~~~~l~~~~~~~~~~r~-~~~~~~~~~~~~~~l~~~G~l 217 (322)
T PRK13943 162 VPETWFTQLKEGGRVIVPINLKLSRRQPAFLFKKK-DPYLVGNYKLETRFIKAGGNL 217 (322)
T ss_pred hHHHHHHhcCCCCEEEEEeCCccCCCCceEEEEec-CCCceEEEEEEeeEEcccchH
Confidence 4778999999999999998752 134667777887 456999999999999986643
No 9
>PF09857 DUF2084: Uncharacterized protein conserved in bacteria (DUF2084); InterPro: IPR018654 This domain is found in various hypothetical bacterial proteins that have no known function.
Probab=85.55 E-value=2.3 Score=23.42 Aligned_cols=31 Identities=19% Similarity=0.355 Sum_probs=25.6
Q ss_pred hHHhcccCCcEEEEEeeCCCCceEEEEEEEC
Q psy5588 4 ELIDQLRPGGRLIIPVGPEGSAQSLEQIDKN 34 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~ 34 (61)
..+.-|+.||++..--.+.+....+..+||+
T Consensus 9 R~LHvLAqGG~I~~~rd~~gri~~v~C~TRe 39 (85)
T PF09857_consen 9 RVLHVLAQGGRIRHERDDSGRITAVECYTRE 39 (85)
T ss_pred HHHHHHhcCCeEEEEECCCCCEEEEEEEccC
Confidence 4577899999999998877667788888885
No 10
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=85.39 E-value=0.5 Score=29.44 Aligned_cols=19 Identities=32% Similarity=0.725 Sum_probs=15.8
Q ss_pred CcHhHHhcccCCcEEEEEe
Q psy5588 1 MVVELIDQLRPGGRLIIPV 19 (61)
Q Consensus 1 iP~~l~~QL~~gGrLV~pv 19 (61)
|.++..+.|++|||||+=.
T Consensus 117 ile~~~~~l~~ggrlV~na 135 (187)
T COG2242 117 ILEAAWERLKPGGRLVANA 135 (187)
T ss_pred HHHHHHHHcCcCCeEEEEe
Confidence 3567889999999999954
No 11
>PRK13687 hypothetical protein; Provisional
Probab=85.06 E-value=2.4 Score=23.28 Aligned_cols=32 Identities=19% Similarity=0.293 Sum_probs=26.1
Q ss_pred HhHHhcccCCcEEEEEeeCCCCceEEEEEEEC
Q psy5588 3 VELIDQLRPGGRLIIPVGPEGSAQSLEQIDKN 34 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~ 34 (61)
+..+.-|+.|||+..--.+.+....+..+||+
T Consensus 8 QRvLHvLAqGGrI~~~rd~~gri~~v~C~TRe 39 (85)
T PRK13687 8 QRTLHVLAQGGRIEHERDDSGRITAVECYTRE 39 (85)
T ss_pred HHHHHHHhcCCeEEEEECCCCcEEEEEEEccC
Confidence 34577899999999998877667888888885
No 12
>TIGR02469 CbiT precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit. This model recognizes the CbiT methylase which is responsible, in part (along with CbiE), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiE subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=75.67 E-value=3.1 Score=22.38 Aligned_cols=17 Identities=35% Similarity=0.831 Sum_probs=14.1
Q ss_pred HhHHhcccCCcEEEEEe
Q psy5588 3 VELIDQLRPGGRLIIPV 19 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pv 19 (61)
+...+.|++||++++.+
T Consensus 106 ~~~~~~Lk~gG~li~~~ 122 (124)
T TIGR02469 106 EAIWRRLRPGGRIVLNA 122 (124)
T ss_pred HHHHHHcCCCCEEEEEe
Confidence 45778999999999865
No 13
>COG4106 Tam Trans-aconitate methyltransferase [General function prediction only]
Probab=72.54 E-value=3 Score=27.09 Aligned_cols=19 Identities=37% Similarity=0.641 Sum_probs=16.1
Q ss_pred HhHHhcccCCcEEEEEeeC
Q psy5588 3 VELIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~ 21 (61)
+.|++||+|||.|.+-+-.
T Consensus 113 ~rL~~~L~Pgg~LAVQmPd 131 (257)
T COG4106 113 PRLVSQLAPGGVLAVQMPD 131 (257)
T ss_pred HHHHHhhCCCceEEEECCC
Confidence 5789999999999987654
No 14
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=71.89 E-value=3.1 Score=25.39 Aligned_cols=20 Identities=30% Similarity=0.582 Sum_probs=16.6
Q ss_pred HhHHhcccCCcEEEEEeeCC
Q psy5588 3 VELIDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~~ 22 (61)
+...+.|++||++++..+..
T Consensus 129 ~~~~~~LkpGG~lv~~~~~~ 148 (187)
T PRK00107 129 ELCLPLLKPGGRFLALKGRD 148 (187)
T ss_pred HHHHHhcCCCeEEEEEeCCC
Confidence 45678999999999998764
No 15
>COG3811 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=70.43 E-value=12 Score=20.33 Aligned_cols=32 Identities=25% Similarity=0.406 Sum_probs=23.8
Q ss_pred HhHHhcccCCcEEEEEeeCCCCceEEEEEEEC
Q psy5588 3 VELIDQLRPGGRLIIPVGPEGSAQSLEQIDKN 34 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~ 34 (61)
+..+..|+.|||+-+--..++....+-.++|+
T Consensus 8 QRtLH~LAqGGrIe~~rd~~grI~~v~C~tRd 39 (85)
T COG3811 8 QRTLHALAQGGRIEIERDASGRITSVECYTRD 39 (85)
T ss_pred HHHHHHHhcCCeEEEEecCCCcEEEEEEeccc
Confidence 34577899999998877665555677777775
No 16
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=70.20 E-value=4 Score=27.38 Aligned_cols=18 Identities=39% Similarity=0.602 Sum_probs=14.3
Q ss_pred HhHHhcccCCcEEEEEee
Q psy5588 3 VELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg 20 (61)
+...+.|++||||++.-=
T Consensus 228 ~~a~~~L~~gGRl~VIsF 245 (314)
T COG0275 228 EAALDLLKPGGRLAVISF 245 (314)
T ss_pred HHHHHhhCCCcEEEEEEe
Confidence 356788999999998653
No 17
>TIGR00006 S-adenosyl-methyltransferase MraW. Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.
Probab=67.49 E-value=4.9 Score=26.71 Aligned_cols=16 Identities=44% Similarity=0.509 Sum_probs=13.2
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
...+.|++||||++.-
T Consensus 225 ~~~~~L~~gGrl~VIS 240 (305)
T TIGR00006 225 FAPNLLAPGGRLSIIS 240 (305)
T ss_pred HHHHHhcCCCEEEEEe
Confidence 4568899999999965
No 18
>PF13659 Methyltransf_26: Methyltransferase domain; PDB: 3GJY_A 3LPM_B 2NP6_D 1AQI_B 2ADM_B 2IH2_A 2JG3_A 2IBS_D 2NP7_A 2IBT_A ....
Probab=66.55 E-value=4 Score=21.99 Aligned_cols=18 Identities=28% Similarity=0.438 Sum_probs=14.4
Q ss_pred HhHHhcccCCcEEEEEee
Q psy5588 3 VELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg 20 (61)
+...+.|++||++++.+.
T Consensus 99 ~~~~~~L~~gG~~~~~~~ 116 (117)
T PF13659_consen 99 EAAARLLKPGGVLVFITP 116 (117)
T ss_dssp HHHHHHEEEEEEEEEEEE
T ss_pred HHHHHHcCCCeEEEEEeC
Confidence 356788999999998764
No 19
>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=65.16 E-value=3.2 Score=23.83 Aligned_cols=14 Identities=50% Similarity=0.935 Sum_probs=11.5
Q ss_pred hHHhcccCCcEEEE
Q psy5588 4 ELIDQLRPGGRLII 17 (61)
Q Consensus 4 ~l~~QL~~gGrLV~ 17 (61)
...++|+|||++|+
T Consensus 29 ~~~~~L~pGG~lil 42 (110)
T PF06859_consen 29 RIYSLLRPGGILIL 42 (110)
T ss_dssp HHHHHEEEEEEEEE
T ss_pred HHHHhhCCCCEEEE
Confidence 45678999999987
No 20
>PRK07402 precorrin-6B methylase; Provisional
Probab=64.73 E-value=5.8 Score=23.80 Aligned_cols=18 Identities=33% Similarity=0.682 Sum_probs=14.4
Q ss_pred HhHHhcccCCcEEEEEee
Q psy5588 3 VELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg 20 (61)
+...+.|++||++++...
T Consensus 126 ~~~~~~LkpgG~li~~~~ 143 (196)
T PRK07402 126 QAVWQYLKPGGRLVATAS 143 (196)
T ss_pred HHHHHhcCCCeEEEEEee
Confidence 456678999999999764
No 21
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=62.86 E-value=6.5 Score=23.05 Aligned_cols=16 Identities=38% Similarity=0.623 Sum_probs=13.0
Q ss_pred HhHHhcccCCcEEEEE
Q psy5588 3 VELIDQLRPGGRLIIP 18 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~p 18 (61)
..+.+.|+|||++++-
T Consensus 65 ~ei~rvLkpGG~l~i~ 80 (160)
T PLN02232 65 KEMYRVLKPGSRVSIL 80 (160)
T ss_pred HHHHHHcCcCeEEEEE
Confidence 3567789999999875
No 22
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=61.91 E-value=6.7 Score=25.97 Aligned_cols=16 Identities=31% Similarity=0.412 Sum_probs=13.1
Q ss_pred HhHHhcccCCcEEEEE
Q psy5588 3 VELIDQLRPGGRLIIP 18 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~p 18 (61)
..+.+.|++||+||+-
T Consensus 209 ~el~r~LkpGG~Lvle 224 (314)
T TIGR00452 209 KQLKHQLVIKGELVLE 224 (314)
T ss_pred HHHHHhcCCCCEEEEE
Confidence 3567899999999973
No 23
>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=61.58 E-value=4.4 Score=22.77 Aligned_cols=19 Identities=42% Similarity=0.597 Sum_probs=15.1
Q ss_pred HhHHhcccCCcEEEEEeeC
Q psy5588 3 VELIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~ 21 (61)
..+.+.|+|||++++-.-.
T Consensus 99 ~~l~~~LkpgG~l~~~~~~ 117 (161)
T PF13489_consen 99 KELSRLLKPGGYLVISDPN 117 (161)
T ss_dssp HHHHHCEEEEEEEEEEEEB
T ss_pred HHHHHhcCCCCEEEEEEcC
Confidence 3577889999999997653
No 24
>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=61.14 E-value=9.5 Score=22.98 Aligned_cols=20 Identities=20% Similarity=0.336 Sum_probs=15.6
Q ss_pred HhHHhcccCCcEEEEEeeCC
Q psy5588 3 VELIDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~~ 22 (61)
+.+...|++||++++..+..
T Consensus 126 ~~~~~~LkpgG~lvi~~~~~ 145 (181)
T TIGR00138 126 ELTLNLLKVGGYFLAYKGKK 145 (181)
T ss_pred HHHHHhcCCCCEEEEEcCCC
Confidence 34567799999999987654
No 25
>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=60.87 E-value=5.3 Score=23.74 Aligned_cols=19 Identities=37% Similarity=0.655 Sum_probs=14.4
Q ss_pred HhHHhcccCCcEEEEEeeC
Q psy5588 3 VELIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~ 21 (61)
+..++.|++||+|++.+=.
T Consensus 76 ~~al~lL~~gG~i~iv~Y~ 94 (140)
T PF06962_consen 76 EAALELLKPGGIITIVVYP 94 (140)
T ss_dssp HHHHHHEEEEEEEEEEE--
T ss_pred HHHHHhhccCCEEEEEEeC
Confidence 4568899999999998743
No 26
>PF09142 TruB_C: tRNA Pseudouridine synthase II, C terminal; InterPro: IPR015225 Pseudouridine synthases catalyse the isomerisation of uridine to pseudouridine (Psi) in a variety of RNA molecules, and may function as RNA chaperones. Pseudouridine is the most abundant modified nucleotide found in all cellular RNAs. There are four distinct families of pseudouridine synthases that share no global sequence similarity, but which do share the same fold of their catalytic domain(s) and uracil-binding site and are descended from a common molecular ancestor. The catalytic domain consists of two subdomains, each of which has an alpha+beta structure that has some similarity to the ferredoxin-like fold (note: some pseudouridine synthases contain additional domains). The active site is the most conserved structural region of the superfamily and is located between the two homologous domains. These families are []: Pseudouridine synthase I, TruA. Pseudouridine synthase II, TruB, which contains and additional C-terminal PUA domain. Pseudouridine synthase RsuA (ribosomal small subunit) and RluC/RluD (ribosomal large subunits), both of which contain an additional N-terminal alpha-L RNA-binding motif. Pseudouridine synthase TruD, which has a natural circular permutation in the catalytic domain, as well as an insertion of a family-specific alpha+beta subdomain. TruB is responsible for the pseudouridine residue present in the T loops of virtually all tRNAs. TruB recognises the preformed 3-D structure of the T loop primarily through shape complementarity. It accesses its substrate uridyl residue by flipping out the nucleotide and disrupts the tertiary structure of tRNA []. The C-terminal domain adopts a secondary structure consisting of a four-stranded beta sheet and one alpha helix, similar to that found in PUA domains. It is predominantly involved in RNA-binding, being mostly found in tRNA pseudouridine synthase B (TruB) []. ; GO: 0003723 RNA binding, 0009982 pseudouridine synthase activity, 0001522 pseudouridine synthesis, 0009451 RNA modification; PDB: 1SGV_B.
Probab=59.70 E-value=15 Score=18.27 Aligned_cols=12 Identities=33% Similarity=0.706 Sum_probs=5.5
Q ss_pred ccCCcEEEEEee
Q psy5588 9 LRPGGRLIIPVG 20 (61)
Q Consensus 9 L~~gGrLV~pvg 20 (61)
+.++|+||+-+.
T Consensus 32 ~~pdG~lvAL~~ 43 (56)
T PF09142_consen 32 FAPDGRLVALLE 43 (56)
T ss_dssp E-TTS-EEEEEE
T ss_pred ECCCCcEEEEEE
Confidence 455556555554
No 27
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=59.27 E-value=8.6 Score=25.40 Aligned_cols=17 Identities=41% Similarity=0.675 Sum_probs=13.4
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
...+.|++||||++.-=
T Consensus 221 ~~~~~L~~gGrl~visf 237 (296)
T PRK00050 221 AALDLLKPGGRLAVISF 237 (296)
T ss_pred HHHHHhcCCCEEEEEec
Confidence 34678999999998653
No 28
>PF02522 Antibiotic_NAT: Aminoglycoside 3-N-acetyltransferase; InterPro: IPR003679 This family consists of bacterial aminoglycoside 3-N-acetyltransferases (2.3.1.81 from EC) that catalyse the reaction []: Acetyl-Co + a 2-deoxystreptamine antibiotic = CoA + N3'-acetyl-2-deoxystreptamine antibiotic The enzyme can use a range of antibiotics with 2-deoxystreptamine rings as acceptor for its acetyltransferase activity, this inactivates and confers resistance to gentamicin, kanamycin, tobramycin, neomycin and apramycin amongst others. For the kanamycin group antibiotics acetylation occurred at the 3"-amino group in arbekacin and amikacin, and at the 3-amino group in dibekacin as in the case of kanamycin reflecting the effect of the (S)-4-amino-2-hydroxybutyryl side chain which is present in arbekacin and amikacin, but absent in dibekacin and kanamycin [].; GO: 0046353 aminoglycoside 3-N-acetyltransferase activity, 0046677 response to antibiotic; PDB: 3SMA_D 3N0M_B 3IJW_B 3N0S_D 3SLB_C 3SLF_A 3KZL_D 3E4F_B 2NYG_E.
Probab=59.12 E-value=8.6 Score=24.14 Aligned_cols=19 Identities=26% Similarity=0.548 Sum_probs=14.6
Q ss_pred HhHHhcccCCcEEEEEeeC
Q psy5588 3 VELIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~ 21 (61)
++|++.+.+.|.||+|--.
T Consensus 21 ~aL~~~vg~~GTlvmPt~t 39 (229)
T PF02522_consen 21 DALLEVVGPEGTLVMPTFT 39 (229)
T ss_dssp HHHHHHHTTTSEEEEE---
T ss_pred HHHHHHhccCCeEEEEccC
Confidence 6788999999999999643
No 29
>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=59.06 E-value=8.2 Score=24.80 Aligned_cols=15 Identities=47% Similarity=0.884 Sum_probs=12.5
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
...+.|+||||+++-
T Consensus 239 ~~~~~L~pgG~l~i~ 253 (306)
T TIGR02716 239 KAFDAMRSGGRLLIL 253 (306)
T ss_pred HHHHhcCCCCEEEEE
Confidence 456889999999885
No 30
>PF01795 Methyltransf_5: MraW methylase family; InterPro: IPR002903 This is a family of S-adenosyl-L-methionine-dependent methyltransferases, which are found primarily, though not exclusively, in bacteria. The Escherichia coli protein is essential and has been linked to peptidoglycan biosynthesis [, ].; GO: 0008168 methyltransferase activity; PDB: 1N2X_A 1M6Y_A 1WG8_A 3TKA_A.
Probab=59.02 E-value=5.1 Score=26.72 Aligned_cols=16 Identities=44% Similarity=0.794 Sum_probs=13.1
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
...+.|++||||++.-
T Consensus 226 ~a~~~L~~gGrl~VIS 241 (310)
T PF01795_consen 226 AAPDLLKPGGRLVVIS 241 (310)
T ss_dssp HHHHHEEEEEEEEEEE
T ss_pred HHHHHhcCCcEEEEEE
Confidence 4567899999999864
No 31
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=57.74 E-value=9.9 Score=23.73 Aligned_cols=17 Identities=29% Similarity=0.634 Sum_probs=13.6
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
.+.+.|+|||++++.+.
T Consensus 111 ~~~~~LkpgG~l~~~~~ 127 (255)
T PRK14103 111 RWVDELAPGSWIAVQVP 127 (255)
T ss_pred HHHHhCCCCcEEEEEcC
Confidence 46677999999998653
No 32
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=57.43 E-value=9.2 Score=23.92 Aligned_cols=16 Identities=31% Similarity=0.731 Sum_probs=13.2
Q ss_pred HhHHhcccCCcEEEEE
Q psy5588 3 VELIDQLRPGGRLIIP 18 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~p 18 (61)
..+.+.|+|||++++-
T Consensus 148 ~~i~~~LkpGG~l~l~ 163 (247)
T PRK15451 148 DKIYQGLNPGGALVLS 163 (247)
T ss_pred HHHHHhcCCCCEEEEE
Confidence 4567889999999884
No 33
>KOG1270|consensus
Probab=57.37 E-value=7.5 Score=25.77 Aligned_cols=16 Identities=44% Similarity=0.630 Sum_probs=13.3
Q ss_pred HhHHhcccCCcEEEEE
Q psy5588 3 VELIDQLRPGGRLIIP 18 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~p 18 (61)
..+.+.|+|||||++-
T Consensus 179 ~~l~~~lkP~G~lfit 194 (282)
T KOG1270|consen 179 NCLSALLKPNGRLFIT 194 (282)
T ss_pred HHHHHHhCCCCceEee
Confidence 3567889999999985
No 34
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=57.00 E-value=8.9 Score=24.33 Aligned_cols=17 Identities=35% Similarity=0.534 Sum_probs=13.6
Q ss_pred HhHHhcccCCcEEEEEe
Q psy5588 3 VELIDQLRPGGRLIIPV 19 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pv 19 (61)
..+...|+|||++++--
T Consensus 166 ~ei~rvLkpGG~l~i~d 182 (261)
T PLN02233 166 QEMYRVLKPGSRVSILD 182 (261)
T ss_pred HHHHHHcCcCcEEEEEE
Confidence 35678899999998864
No 35
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=56.58 E-value=9.9 Score=22.90 Aligned_cols=15 Identities=27% Similarity=0.643 Sum_probs=12.0
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
...+.|++||++++-
T Consensus 130 ~~~~~LkpgG~lv~~ 144 (198)
T PRK00377 130 ASWEIIKKGGRIVID 144 (198)
T ss_pred HHHHHcCCCcEEEEE
Confidence 456789999999973
No 36
>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=56.36 E-value=9.9 Score=22.60 Aligned_cols=16 Identities=50% Similarity=0.893 Sum_probs=12.7
Q ss_pred HhHHhcccCCcEEEEE
Q psy5588 3 VELIDQLRPGGRLIIP 18 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~p 18 (61)
+.+...|++||++++-
T Consensus 127 ~~~~~~L~~gG~l~~~ 142 (223)
T TIGR01934 127 REMYRVLKPGGRLVIL 142 (223)
T ss_pred HHHHHHcCCCcEEEEE
Confidence 3567889999999863
No 37
>PRK10148 hypothetical protein; Provisional
Probab=56.10 E-value=14 Score=21.63 Aligned_cols=19 Identities=16% Similarity=0.321 Sum_probs=17.0
Q ss_pred hHHhcccCCcEEEEEeeCC
Q psy5588 4 ELIDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg~~ 22 (61)
.+.+.|+.||.+++|+.+.
T Consensus 101 ~~~~aLa~gg~v~mpl~~~ 119 (147)
T PRK10148 101 RWFDNLAANGKIEMAWQET 119 (147)
T ss_pred HHHHHhhCCCEEEecchhc
Confidence 5889999999999999875
No 38
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=55.02 E-value=10 Score=24.97 Aligned_cols=15 Identities=53% Similarity=0.942 Sum_probs=12.6
Q ss_pred HhHHhcccCCcEEEE
Q psy5588 3 VELIDQLRPGGRLII 17 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~ 17 (61)
..+.+.|++||++|+
T Consensus 210 ~~l~~~LkpGG~lvl 224 (322)
T PRK15068 210 KQLKDQLVPGGELVL 224 (322)
T ss_pred HHHHHhcCCCcEEEE
Confidence 356788999999987
No 39
>PF11250 DUF3049: Protein of unknown function (DUF3049); InterPro: IPR021410 This eukaryotic family of proteins has no known function.
Probab=54.94 E-value=27 Score=17.60 Aligned_cols=31 Identities=19% Similarity=0.370 Sum_probs=17.9
Q ss_pred cccCCcEEEEEeeCCCCceEEEEEEECCCCcEE
Q psy5588 8 QLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTIT 40 (61)
Q Consensus 8 QL~~gGrLV~pvg~~~~~~~l~~~~r~~~g~~~ 40 (61)
.-+.+||||+=.-.- ..+.....+|. +|.+.
T Consensus 22 ~~r~dGRLvl~~v~v-~~~~~~~A~R~-~GRL~ 52 (56)
T PF11250_consen 22 PHREDGRLVLEEVRV-PSHEYFHAERE-DGRLR 52 (56)
T ss_pred EEccCCEEEEEEEEc-CCcceEEEEcc-CCEEE
Confidence 345788888743332 23556666665 66544
No 40
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=54.43 E-value=11 Score=23.98 Aligned_cols=15 Identities=33% Similarity=0.592 Sum_probs=12.2
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.+.+.|+|||++++-
T Consensus 141 ~i~r~LkPGG~lvi~ 155 (263)
T PTZ00098 141 KCYKWLKPNGILLIT 155 (263)
T ss_pred HHHHHcCCCcEEEEE
Confidence 456789999999974
No 41
>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes.
Probab=53.86 E-value=12 Score=22.71 Aligned_cols=15 Identities=27% Similarity=0.729 Sum_probs=12.2
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.+.+.|+|||++++-
T Consensus 89 ~~~~~LkpgG~l~i~ 103 (224)
T smart00828 89 NISRHLKDGGHLVLA 103 (224)
T ss_pred HHHHHcCCCCEEEEE
Confidence 456789999999974
No 42
>PF05401 NodS: Nodulation protein S (NodS); InterPro: IPR008715 This entry consists of nodulation S (NodS) proteins. The products of the rhizobial nodulation genes are involved in the biosynthesis of lipochitin oligosaccharides (LCOs), which are host-specific signal molecules required for nodule formation. NodS is an S-adenosyl-L-methionine (SAM)-dependent methyltransferase involved in N methylation of LCOs. NodS uses N-deacetylated chitooligosaccharides, the products of the NodBC proteins, as its methyl acceptors [].; GO: 0008757 S-adenosylmethionine-dependent methyltransferase activity, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3OFK_D 3OFJ_A.
Probab=53.73 E-value=7 Score=24.68 Aligned_cols=16 Identities=38% Similarity=0.737 Sum_probs=13.1
Q ss_pred HhHHhcccCCcEEEEE
Q psy5588 3 VELIDQLRPGGRLIIP 18 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~p 18 (61)
..+.+.|+|||.||+-
T Consensus 130 ~~l~~~L~pgG~LV~g 145 (201)
T PF05401_consen 130 DRLVAALAPGGHLVFG 145 (201)
T ss_dssp HHHHHTEEEEEEEEEE
T ss_pred HHHHHHhCCCCEEEEE
Confidence 3567889999999984
No 43
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=53.41 E-value=11 Score=24.11 Aligned_cols=16 Identities=31% Similarity=0.704 Sum_probs=12.9
Q ss_pred HhHHhcccCCcEEEEE
Q psy5588 3 VELIDQLRPGGRLIIP 18 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~p 18 (61)
..+.+.|+|||.|++-
T Consensus 226 ~~l~~~L~pGG~L~lg 241 (264)
T smart00138 226 NRFAEALKPGGYLFLG 241 (264)
T ss_pred HHHHHHhCCCeEEEEE
Confidence 3567899999999973
No 44
>PRK04266 fibrillarin; Provisional
Probab=53.13 E-value=12 Score=23.50 Aligned_cols=15 Identities=27% Similarity=0.432 Sum_probs=11.8
Q ss_pred HHhcccCCcEEEEEe
Q psy5588 5 LIDQLRPGGRLIIPV 19 (61)
Q Consensus 5 l~~QL~~gGrLV~pv 19 (61)
+..-|+|||++++-+
T Consensus 162 ~~r~LKpGG~lvI~v 176 (226)
T PRK04266 162 AEFFLKDGGYLLLAI 176 (226)
T ss_pred HHHhcCCCcEEEEEE
Confidence 445799999999954
No 45
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=52.63 E-value=12 Score=23.75 Aligned_cols=18 Identities=33% Similarity=0.516 Sum_probs=14.7
Q ss_pred HhHHhcccCCcEEEEEee
Q psy5588 3 VELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg 20 (61)
+.+...|++||++++...
T Consensus 165 ~e~~rvLkpgG~li~~~p 182 (272)
T PRK11088 165 EELARVVKPGGIVITVTP 182 (272)
T ss_pred HHHHhhccCCCEEEEEeC
Confidence 467788999999998653
No 46
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=52.58 E-value=12 Score=23.52 Aligned_cols=14 Identities=50% Similarity=0.928 Sum_probs=12.0
Q ss_pred hHHhcccCCcEEEE
Q psy5588 4 ELIDQLRPGGRLII 17 (61)
Q Consensus 4 ~l~~QL~~gGrLV~ 17 (61)
.+.+-|++||++++
T Consensus 168 ~~~r~LkpGG~l~i 181 (272)
T PRK11873 168 EAFRVLKPGGRFAI 181 (272)
T ss_pred HHHHHcCCCcEEEE
Confidence 56677999999998
No 47
>PRK08317 hypothetical protein; Provisional
Probab=52.10 E-value=12 Score=22.30 Aligned_cols=17 Identities=41% Similarity=0.802 Sum_probs=13.5
Q ss_pred HhHHhcccCCcEEEEEe
Q psy5588 3 VELIDQLRPGGRLIIPV 19 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pv 19 (61)
..+.+.|++||++++-.
T Consensus 108 ~~~~~~L~~gG~l~~~~ 124 (241)
T PRK08317 108 AEIARVLRPGGRVVVLD 124 (241)
T ss_pred HHHHHHhcCCcEEEEEe
Confidence 45778899999998743
No 48
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=51.89 E-value=13 Score=22.03 Aligned_cols=16 Identities=38% Similarity=0.781 Sum_probs=12.9
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
...+.|++||++++-.
T Consensus 116 ~~~~~Lk~gG~lv~~~ 131 (187)
T PRK08287 116 WSLAHLHPGGRLVLTF 131 (187)
T ss_pred HHHHhcCCCeEEEEEE
Confidence 4567899999999854
No 49
>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=51.31 E-value=13 Score=24.30 Aligned_cols=17 Identities=35% Similarity=0.667 Sum_probs=13.7
Q ss_pred HhHHhcccCCcEEEEEe
Q psy5588 3 VELIDQLRPGGRLIIPV 19 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pv 19 (61)
..+.++|++||.|++--
T Consensus 225 ~~f~~~L~~gG~LflG~ 241 (268)
T COG1352 225 RRFADSLKPGGLLFLGH 241 (268)
T ss_pred HHHHHHhCCCCEEEEcc
Confidence 45788999999999743
No 50
>KOG2198|consensus
Probab=51.00 E-value=9.1 Score=26.35 Aligned_cols=12 Identities=42% Similarity=0.836 Sum_probs=10.5
Q ss_pred HhcccCCcEEEE
Q psy5588 6 IDQLRPGGRLII 17 (61)
Q Consensus 6 ~~QL~~gGrLV~ 17 (61)
++.|++||+||=
T Consensus 283 l~lLk~GG~lVY 294 (375)
T KOG2198|consen 283 LRLLKVGGRLVY 294 (375)
T ss_pred HHHhcCCCEEEE
Confidence 578999999996
No 51
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=50.91 E-value=14 Score=22.79 Aligned_cols=18 Identities=33% Similarity=0.449 Sum_probs=14.0
Q ss_pred HhHHhcccCCcEEEEEee
Q psy5588 3 VELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg 20 (61)
+.+..-|++||++++-+-
T Consensus 149 ~~~~~~LkpGG~~vi~~~ 166 (209)
T PRK11188 149 DMCRDVLAPGGSFVVKVF 166 (209)
T ss_pred HHHHHHcCCCCEEEEEEe
Confidence 346678999999999554
No 52
>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=50.70 E-value=13 Score=22.58 Aligned_cols=16 Identities=25% Similarity=0.657 Sum_probs=12.5
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+...|++||++++.-
T Consensus 136 ~~~~~Lk~gG~l~~~~ 151 (231)
T TIGR02752 136 EMYRVVKPGGKVVCLE 151 (231)
T ss_pred HHHHHcCcCeEEEEEE
Confidence 4567899999998743
No 53
>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=50.38 E-value=7.8 Score=24.43 Aligned_cols=16 Identities=50% Similarity=0.893 Sum_probs=12.5
Q ss_pred HhHHhcccCCcEEEEE
Q psy5588 3 VELIDQLRPGGRLIIP 18 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~p 18 (61)
.++..-|||||++++-
T Consensus 137 ~E~~RVLkPGG~l~il 152 (233)
T PF01209_consen 137 REMYRVLKPGGRLVIL 152 (233)
T ss_dssp HHHHHHEEEEEEEEEE
T ss_pred HHHHHHcCCCeEEEEe
Confidence 3566789999999874
No 54
>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=50.06 E-value=8.2 Score=25.01 Aligned_cols=18 Identities=33% Similarity=0.577 Sum_probs=14.5
Q ss_pred hHHhcccCCcEEEEEeeC
Q psy5588 4 ELIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg~ 21 (61)
.+...|||||.||+.-.-
T Consensus 184 ni~~lLkpGG~Lil~~~l 201 (256)
T PF01234_consen 184 NISSLLKPGGHLILAGVL 201 (256)
T ss_dssp HHHTTEEEEEEEEEEEES
T ss_pred HHHHHcCCCcEEEEEEEc
Confidence 467899999999996543
No 55
>cd02440 AdoMet_MTases S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).
Probab=49.62 E-value=17 Score=17.90 Aligned_cols=15 Identities=40% Similarity=0.747 Sum_probs=11.4
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.+.+.|+++|++++-
T Consensus 89 ~~~~~l~~~g~~~~~ 103 (107)
T cd02440 89 EARRLLKPGGVLVLT 103 (107)
T ss_pred HHHHHcCCCCEEEEE
Confidence 456778999998763
No 56
>PLN02244 tocopherol O-methyltransferase
Probab=48.98 E-value=14 Score=24.38 Aligned_cols=16 Identities=50% Similarity=0.785 Sum_probs=13.0
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+...|+|||++++.-
T Consensus 208 e~~rvLkpGG~lvi~~ 223 (340)
T PLN02244 208 ELARVAAPGGRIIIVT 223 (340)
T ss_pred HHHHHcCCCcEEEEEE
Confidence 5677899999999853
No 57
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=48.76 E-value=15 Score=22.17 Aligned_cols=16 Identities=31% Similarity=0.567 Sum_probs=11.7
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+.+.|++||++++..
T Consensus 118 ~~~~~LkpgG~lli~~ 133 (195)
T TIGR00477 118 NMQAHTRPGGYNLIVA 133 (195)
T ss_pred HHHHHhCCCcEEEEEE
Confidence 4567789999966543
No 58
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=48.65 E-value=15 Score=22.97 Aligned_cols=18 Identities=39% Similarity=0.504 Sum_probs=13.9
Q ss_pred HhHHhcccCCcEEEEEee
Q psy5588 3 VELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg 20 (61)
+.+.+.|+|||++++-.-
T Consensus 133 ~~~~~~LkpgG~l~i~~~ 150 (255)
T PRK11036 133 QTLWSVLRPGGALSLMFY 150 (255)
T ss_pred HHHHHHcCCCeEEEEEEE
Confidence 356788999999987543
No 59
>PF11332 DUF3134: Protein of unknown function (DUF3134); InterPro: IPR021481 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=48.09 E-value=4.8 Score=21.50 Aligned_cols=15 Identities=47% Similarity=0.671 Sum_probs=13.1
Q ss_pred HhHHhcccCCcEEEE
Q psy5588 3 VELIDQLRPGGRLII 17 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~ 17 (61)
..|++.|...||||+
T Consensus 22 ~SlLdWLe~tGRLi~ 36 (73)
T PF11332_consen 22 SSLLDWLESTGRLIA 36 (73)
T ss_pred cHHHHHHHHcCCccc
Confidence 468999999999986
No 60
>PRK04457 spermidine synthase; Provisional
Probab=47.95 E-value=16 Score=23.35 Aligned_cols=17 Identities=12% Similarity=0.284 Sum_probs=13.4
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
...+.|++||++++-+.
T Consensus 162 ~~~~~L~pgGvlvin~~ 178 (262)
T PRK04457 162 DCRNALSSDGIFVVNLW 178 (262)
T ss_pred HHHHhcCCCcEEEEEcC
Confidence 44578999999999654
No 61
>PF12198 Tuberculin: Theoretical tuberculin protein; InterPro: IPR022015 This domain family is found in bacteria, and is approximately 30 amino acids in length. This protein is a theoretical model of the tuberculin protein from Mycobacterium tuberculosis.
Probab=47.81 E-value=11 Score=17.08 Aligned_cols=10 Identities=60% Similarity=1.112 Sum_probs=8.3
Q ss_pred cEEEEEeeCC
Q psy5588 13 GRLIIPVGPE 22 (61)
Q Consensus 13 GrLV~pvg~~ 22 (61)
-|+|+|+|++
T Consensus 21 ~R~iA~~GP~ 30 (34)
T PF12198_consen 21 MRFIAPMGPE 30 (34)
T ss_pred eEEeeccCcc
Confidence 4899999975
No 62
>PRK10611 chemotaxis methyltransferase CheR; Provisional
Probab=47.18 E-value=16 Score=24.03 Aligned_cols=17 Identities=24% Similarity=0.405 Sum_probs=13.2
Q ss_pred HhHHhcccCCcEEEEEe
Q psy5588 3 VELIDQLRPGGRLIIPV 19 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pv 19 (61)
..+.+.|+|||.|++--
T Consensus 246 ~~l~~~L~pgG~L~lG~ 262 (287)
T PRK10611 246 RRFVPLLKPDGLLFAGH 262 (287)
T ss_pred HHHHHHhCCCcEEEEeC
Confidence 45788999999887544
No 63
>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=46.64 E-value=17 Score=22.41 Aligned_cols=15 Identities=27% Similarity=0.716 Sum_probs=12.3
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.+...|++||++++-
T Consensus 146 ~i~~~LkpgG~l~i~ 160 (239)
T TIGR00740 146 KIYEGLNPNGVLVLS 160 (239)
T ss_pred HHHHhcCCCeEEEEe
Confidence 466789999999884
No 64
>PF03269 DUF268: Caenorhabditis protein of unknown function, DUF268; InterPro: IPR004951 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=44.87 E-value=22 Score=22.10 Aligned_cols=18 Identities=44% Similarity=0.916 Sum_probs=13.6
Q ss_pred HHhcccCCcEEEE--EeeCC
Q psy5588 5 LIDQLRPGGRLII--PVGPE 22 (61)
Q Consensus 5 l~~QL~~gGrLV~--pvg~~ 22 (61)
+..-||+||+|+. |+|.+
T Consensus 97 i~~vLK~GG~L~l~vPvG~d 116 (177)
T PF03269_consen 97 IKCVLKPGGLLFLGVPVGTD 116 (177)
T ss_pred HHHhhccCCeEEEEeecCCc
Confidence 4567999999986 67753
No 65
>PF11966 SSURE: Fibronectin-binding repeat; InterPro: IPR021021 Streptococcal surface repeat domain - SSURE - is a protein fragment found to bind to extracellular matrix protein fibronectin but not to collagen or submaxillary mucin in Streptococci. Anti-SSURE antibodies recognised the corresponding protein on the surface of streptococcal cells. The full-length proteins are thus fibronectin-binding surface adhesins []. The proteins are further characterised by having an N-terminal motif resembling [YF]SIRKxxxGxxS[VIA] IPR005877 from INTERPRO and a C-terminal LPXTG motif-containing region which is a characteristic of many surface proteins of Streptococcus and Streptomyces species. Cleavage between the Thr and Gly by sortase or a related enzyme leads to covalent anchoring at the new C-terminal Thr to the cell wall (see IPR019931 from INTERPRO).
Probab=44.71 E-value=8.8 Score=20.79 Aligned_cols=12 Identities=50% Similarity=0.792 Sum_probs=10.1
Q ss_pred HhHHhcccCCcE
Q psy5588 3 VELIDQLRPGGR 14 (61)
Q Consensus 3 ~~l~~QL~~gGr 14 (61)
++|++||+.+|.
T Consensus 37 q~LLDqlraNGt 48 (81)
T PF11966_consen 37 QALLDQLRANGT 48 (81)
T ss_pred HHHHHHHHhCCc
Confidence 589999998874
No 66
>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=44.33 E-value=18 Score=22.99 Aligned_cols=17 Identities=18% Similarity=0.194 Sum_probs=13.5
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
.+.+.|++||++++-..
T Consensus 171 ~~~~~L~pgG~lv~~~~ 187 (270)
T TIGR00417 171 LLKKALNEDGIFVAQSE 187 (270)
T ss_pred HHHHHhCCCcEEEEcCC
Confidence 45688999999998643
No 67
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=43.28 E-value=21 Score=22.13 Aligned_cols=17 Identities=35% Similarity=0.677 Sum_probs=13.4
Q ss_pred HhHHhcccCCcEEEEEe
Q psy5588 3 VELIDQLRPGGRLIIPV 19 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pv 19 (61)
..+.+.|++||++++-+
T Consensus 114 ~~~~~~LkpgG~~~~~~ 130 (258)
T PRK01683 114 PRLVSLLAPGGVLAVQM 130 (258)
T ss_pred HHHHHhcCCCcEEEEEC
Confidence 34667899999998854
No 68
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=42.78 E-value=21 Score=22.33 Aligned_cols=15 Identities=53% Similarity=1.052 Sum_probs=12.4
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.+.+.|++||++++-
T Consensus 198 ~~~~~LkpgG~lils 212 (250)
T PRK00517 198 DLARLLKPGGRLILS 212 (250)
T ss_pred HHHHhcCCCcEEEEE
Confidence 466779999999984
No 69
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=42.70 E-value=21 Score=23.75 Aligned_cols=17 Identities=18% Similarity=0.278 Sum_probs=13.4
Q ss_pred HhHHhcccCCcEEEEEe
Q psy5588 3 VELIDQLRPGGRLIIPV 19 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pv 19 (61)
..+.+.|+|||++++-.
T Consensus 219 ~~l~r~LkPGG~liist 235 (322)
T PLN02396 219 KSLSALTIPNGATVLST 235 (322)
T ss_pred HHHHHHcCCCcEEEEEE
Confidence 35677899999999764
No 70
>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=42.32 E-value=13 Score=22.93 Aligned_cols=17 Identities=35% Similarity=0.589 Sum_probs=13.3
Q ss_pred HhHHhcccCCcEEEEEe
Q psy5588 3 VELIDQLRPGGRLIIPV 19 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pv 19 (61)
+.+.+.|+|||.|++--
T Consensus 159 ~~l~~~L~pgG~L~lG~ 175 (196)
T PF01739_consen 159 RRLHRSLKPGGYLFLGH 175 (196)
T ss_dssp HHHGGGEEEEEEEEE-T
T ss_pred HHHHHHcCCCCEEEEec
Confidence 45788999999999743
No 71
>COG4798 Predicted methyltransferase [General function prediction only]
Probab=42.16 E-value=22 Score=22.90 Aligned_cols=15 Identities=27% Similarity=0.755 Sum_probs=12.6
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
+..+.|||||.+++-
T Consensus 151 ~vf~~LKPGGv~~V~ 165 (238)
T COG4798 151 AVFKALKPGGVYLVE 165 (238)
T ss_pred HHHHhcCCCcEEEEE
Confidence 567899999999874
No 72
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=41.72 E-value=23 Score=21.01 Aligned_cols=15 Identities=27% Similarity=0.645 Sum_probs=11.9
Q ss_pred HHhcccCCcEEEEEe
Q psy5588 5 LIDQLRPGGRLIIPV 19 (61)
Q Consensus 5 l~~QL~~gGrLV~pv 19 (61)
..+-|++||++++-+
T Consensus 132 ~~~~LkpgG~lvi~~ 146 (188)
T TIGR00438 132 AKEVLKPKGNFVVKV 146 (188)
T ss_pred HHHHccCCCEEEEEE
Confidence 466789999999843
No 73
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=41.68 E-value=30 Score=22.64 Aligned_cols=19 Identities=21% Similarity=0.417 Sum_probs=14.7
Q ss_pred hHHhcccCCcEEEEEeeCC
Q psy5588 4 ELIDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg~~ 22 (61)
.+.+.|++||++++-+...
T Consensus 279 ~~~r~Lk~gG~lv~~~~~~ 297 (329)
T TIGR01177 279 EFHEVLKSEGWIVYAVPTR 297 (329)
T ss_pred HHHHHccCCcEEEEEEcCC
Confidence 3567899999999987643
No 74
>COG2764 PhnB Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.99 E-value=34 Score=20.16 Aligned_cols=21 Identities=10% Similarity=0.311 Sum_probs=18.3
Q ss_pred HhHHhcccCCc-EEEEEeeCCC
Q psy5588 3 VELIDQLRPGG-RLIIPVGPEG 23 (61)
Q Consensus 3 ~~l~~QL~~gG-rLV~pvg~~~ 23 (61)
++++++|+.+| .+++|+....
T Consensus 89 da~f~~a~~aGa~v~mpl~~~f 110 (136)
T COG2764 89 DAVFERAAAAGATVVMPLEDTF 110 (136)
T ss_pred HHHHHHHHhcCCeEEecchhcC
Confidence 57899999999 9999998764
No 75
>PRK11207 tellurite resistance protein TehB; Provisional
Probab=40.54 E-value=24 Score=21.28 Aligned_cols=14 Identities=29% Similarity=0.555 Sum_probs=10.6
Q ss_pred hHHhcccCCcEEEE
Q psy5588 4 ELIDQLRPGGRLII 17 (61)
Q Consensus 4 ~l~~QL~~gGrLV~ 17 (61)
.+.+.|++||++++
T Consensus 119 ~i~~~LkpgG~~~~ 132 (197)
T PRK11207 119 NMQRCTKPGGYNLI 132 (197)
T ss_pred HHHHHcCCCcEEEE
Confidence 46678899999654
No 76
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=40.36 E-value=22 Score=24.20 Aligned_cols=16 Identities=31% Similarity=0.796 Sum_probs=13.0
Q ss_pred HhHHhcccCCcEEEEE
Q psy5588 3 VELIDQLRPGGRLIIP 18 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~p 18 (61)
..+...|+|||+|++-
T Consensus 353 ~~~~r~LkpgG~l~i~ 368 (475)
T PLN02336 353 RSFFKWLKPGGKVLIS 368 (475)
T ss_pred HHHHHHcCCCeEEEEE
Confidence 3567889999999874
No 77
>PF05219 DREV: DREV methyltransferase; InterPro: IPR007884 This family contains DREV protein homologues from several eukaryotes. The function of this protein is unknown []. However, these proteins appear to be related to other methyltransferases.
Probab=40.25 E-value=29 Score=22.83 Aligned_cols=18 Identities=39% Similarity=0.695 Sum_probs=13.5
Q ss_pred hHHhcccCCcEEEEEeeC
Q psy5588 4 ELIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg~ 21 (61)
.+.+.|+|+|+||+.+--
T Consensus 173 ~i~~~l~p~G~lilAvVl 190 (265)
T PF05219_consen 173 DIRRALKPNGRLILAVVL 190 (265)
T ss_pred HHHHHhCCCCEEEEEEEe
Confidence 345678999999987643
No 78
>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=39.81 E-value=24 Score=20.70 Aligned_cols=17 Identities=29% Similarity=0.505 Sum_probs=12.9
Q ss_pred HHhcccCCcEEEEEeeC
Q psy5588 5 LIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 5 l~~QL~~gGrLV~pvg~ 21 (61)
....|++||++++....
T Consensus 126 ~~~~Lk~gG~~~~~~~~ 142 (179)
T TIGR00537 126 LPEILKEGGRVQLIQSS 142 (179)
T ss_pred HHHhhCCCCEEEEEEec
Confidence 34679999999887643
No 79
>PRK00811 spermidine synthase; Provisional
Probab=39.62 E-value=25 Score=22.67 Aligned_cols=17 Identities=18% Similarity=0.335 Sum_probs=13.3
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
...+.|++||++++-.+
T Consensus 176 ~~~~~L~~gGvlv~~~~ 192 (283)
T PRK00811 176 NCKRALKEDGIFVAQSG 192 (283)
T ss_pred HHHHhcCCCcEEEEeCC
Confidence 45688999999998543
No 80
>PF02384 N6_Mtase: N-6 DNA Methylase; InterPro: IPR003356 This domain is fpound in N-6 adenine-specific DNA methylase (2.1.1.72 from EC) from Type I and Type IC restriction systems. These enzymes are responsible for the methylation of specific DNA sequences in order to prevent the host from digesting its own genome via its restriction enzymes. These methylases have the same sequence specificity as their corresponding restriction enzymes. The type I restriction and modification system is composed of three polypeptides R, M and S. The M and S subunits together form a methyltransferase that methylates two adenine residues in complementary strands of a bipartite DNA recognition sequence. In the presence of the R subunit, the complex can also act as an endonuclease, binding to the same target sequence but cutting the DNA some distance from this site. Whether the DNA is cut or modified depends on the methylation state of the target sequence. When the target site is unmodified, the DNA is cut. When the target site is hemimethylated, the complex acts as a maintenance methyltransferase, modifying the DNA so that both strands become methylated.; GO: 0003677 DNA binding, 0008170 N-methyltransferase activity, 0006306 DNA methylation; PDB: 2F8L_A 2Y7C_C 2Y7H_C 2AR0_B 3KHK_A 3LKD_A 2OKC_B.
Probab=39.30 E-value=19 Score=23.01 Aligned_cols=16 Identities=38% Similarity=0.673 Sum_probs=11.7
Q ss_pred HHhcccCCcEEEEEee
Q psy5588 5 LIDQLRPGGRLIIPVG 20 (61)
Q Consensus 5 l~~QL~~gGrLV~pvg 20 (61)
.+++|++|||+++.+-
T Consensus 169 ~l~~Lk~~G~~~~Ilp 184 (311)
T PF02384_consen 169 ALSLLKPGGRAAIILP 184 (311)
T ss_dssp HHHTEEEEEEEEEEEE
T ss_pred HHhhcccccceeEEec
Confidence 4678888888777664
No 81
>PF11314 DUF3117: Protein of unknown function (DUF3117); InterPro: IPR021465 This family of proteins with unknown function appears to be restricted to Actinobacteria.
Probab=39.21 E-value=20 Score=17.80 Aligned_cols=13 Identities=46% Similarity=1.030 Sum_probs=9.6
Q ss_pred ccCCcEEEEEeeC
Q psy5588 9 LRPGGRLIIPVGP 21 (61)
Q Consensus 9 L~~gGrLV~pvg~ 21 (61)
|.=|||||+=+..
T Consensus 25 leGGGRLVvEl~~ 37 (51)
T PF11314_consen 25 LEGGGRLVVELNP 37 (51)
T ss_pred cCCCcEEEEEeCH
Confidence 3458999987754
No 82
>PF08003 Methyltransf_9: Protein of unknown function (DUF1698); InterPro: IPR010017 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This entry represents a set of bacterial AdoMet-dependent tRNA (mo5U34)-methyltransferases. These enzymes catalyse the conversion of 5-hydroxyuridine (ho5U) to 5-methoxyuridine (mo5U) at the wobble position (34) of tRNA []. The 5-methoxyuridine is subsequently converted to uridine-5-oxyacetic acid, a modified nucleoside that is apparently necessary for the efficient decoding of G-ending Pro, Ala, and Val codons in these organisms [].; GO: 0016300 tRNA (uracil) methyltransferase activity, 0002098 tRNA wobble uridine modification
Probab=39.12 E-value=25 Score=23.72 Aligned_cols=14 Identities=57% Similarity=1.149 Sum_probs=12.0
Q ss_pred hHHhcccCCcEEEE
Q psy5588 4 ELIDQLRPGGRLII 17 (61)
Q Consensus 4 ~l~~QL~~gGrLV~ 17 (61)
.+.++|++||.||.
T Consensus 204 ~Lk~~L~~gGeLvL 217 (315)
T PF08003_consen 204 QLKDSLRPGGELVL 217 (315)
T ss_pred HHHHhhCCCCEEEE
Confidence 56788899999996
No 83
>PRK14967 putative methyltransferase; Provisional
Probab=38.94 E-value=27 Score=21.40 Aligned_cols=17 Identities=29% Similarity=0.481 Sum_probs=13.1
Q ss_pred HHhcccCCcEEEEEeeC
Q psy5588 5 LIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 5 l~~QL~~gGrLV~pvg~ 21 (61)
..+.|++||++++....
T Consensus 145 a~~~Lk~gG~l~~~~~~ 161 (223)
T PRK14967 145 APALLAPGGSLLLVQSE 161 (223)
T ss_pred HHHhcCCCcEEEEEEec
Confidence 35789999999986543
No 84
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=38.46 E-value=33 Score=21.34 Aligned_cols=16 Identities=38% Similarity=0.881 Sum_probs=13.7
Q ss_pred hcccCCcEEEEEeeCC
Q psy5588 7 DQLRPGGRLIIPVGPE 22 (61)
Q Consensus 7 ~QL~~gGrLV~pvg~~ 22 (61)
+.|++||++++.++..
T Consensus 226 ~~Lk~gG~l~~e~g~~ 241 (275)
T PRK09328 226 RYLKPGGWLLLEIGYD 241 (275)
T ss_pred HhcccCCEEEEEECch
Confidence 7899999999988753
No 85
>cd06588 PhnB_like Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates. The Escherichia coli phnB gene is found next to an operon of fourteen genes (phnC-to-phnP) related to the cleavage of carbon-phosphorus (C-P) bonds in unactivated alkylphosphonates, supporting bacterial growth on alkylphosphonates as the sole phosphorus source. It was originally considered part of that operon. PhnB appears to play no direct catalytic role in the usage of alkylphosphonate. Although many of the proteins in this family have been annotated as 3-demethylubiquinone-9 3-methyltransferase enzymes by automatic annotation programs, the experimental evidence for this assignment is lacking. In Escherichia coli, the gene coding 3-demethylubiquinone-9 3-methyltransferase enzyme is ubiG, which belongs to the AdoMet-MTase protein family. PhnB-like proteins adopt a structural fold similar to
Probab=38.40 E-value=40 Score=18.57 Aligned_cols=20 Identities=25% Similarity=0.602 Sum_probs=16.1
Q ss_pred HhHHhcccCCcEEEEEeeCC
Q psy5588 3 VELIDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~~ 22 (61)
+++.+.|+.||..+.|....
T Consensus 89 ~~~~~~l~~~g~~~~~~~~~ 108 (128)
T cd06588 89 DRLFEALSEGGTVLMPLQKT 108 (128)
T ss_pred HHHHHHHhcCCeEeccchhc
Confidence 46778899999999887654
No 86
>PF02381 MraZ: MraZ protein; InterPro: IPR020603 this entry represents the 70 amino acid region found duplicated in the bacterial proteins MraZ. These proteins may be DNA-binding transcription factors, its members are probably enzymes containing a conserved DXXXR motif that probably forms part of the active site.; PDB: 1N0F_E 1N0E_F 1N0G_A.
Probab=38.34 E-value=44 Score=16.91 Aligned_cols=12 Identities=8% Similarity=0.144 Sum_probs=4.8
Q ss_pred CcHhHHhcccCC
Q psy5588 1 MVVELIDQLRPG 12 (61)
Q Consensus 1 iP~~l~~QL~~g 12 (61)
||..|.++|..+
T Consensus 18 iP~~~R~~l~~~ 29 (72)
T PF02381_consen 18 IPAKFREHLGIE 29 (72)
T ss_dssp --CHHHHHTTSC
T ss_pred cCHHHHhhhccC
Confidence 344444444444
No 87
>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=38.16 E-value=27 Score=21.64 Aligned_cols=16 Identities=31% Similarity=0.611 Sum_probs=11.9
Q ss_pred HhHHhcccCCcEEEEE
Q psy5588 3 VELIDQLRPGGRLIIP 18 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~p 18 (61)
+.+.+-|+|||++++-
T Consensus 136 ~~l~~lLkpgG~~ll~ 151 (213)
T TIGR03840 136 AHLLALLPPGARQLLI 151 (213)
T ss_pred HHHHHHcCCCCeEEEE
Confidence 3577889999985553
No 88
>KOG2899|consensus
Probab=38.14 E-value=27 Score=23.22 Aligned_cols=14 Identities=36% Similarity=0.816 Sum_probs=11.6
Q ss_pred hHHhcccCCcEEEE
Q psy5588 4 ELIDQLRPGGRLII 17 (61)
Q Consensus 4 ~l~~QL~~gGrLV~ 17 (61)
.+..+|.|||+||+
T Consensus 194 kis~ll~pgGiLvv 207 (288)
T KOG2899|consen 194 KISSLLHPGGILVV 207 (288)
T ss_pred HHHHhhCcCcEEEE
Confidence 35678999999997
No 89
>PLN02490 MPBQ/MSBQ methyltransferase
Probab=37.30 E-value=28 Score=23.41 Aligned_cols=15 Identities=27% Similarity=0.417 Sum_probs=12.3
Q ss_pred HhHHhcccCCcEEEE
Q psy5588 3 VELIDQLRPGGRLII 17 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~ 17 (61)
+.+.+.|++||++++
T Consensus 199 ~e~~rvLkPGG~LvI 213 (340)
T PLN02490 199 KEAYRVLKIGGKACL 213 (340)
T ss_pred HHHHHhcCCCcEEEE
Confidence 356789999999876
No 90
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=36.95 E-value=27 Score=22.21 Aligned_cols=15 Identities=40% Similarity=0.818 Sum_probs=11.5
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.....|++||+||--
T Consensus 184 ~a~~~lkpgG~lvYs 198 (264)
T TIGR00446 184 SAFDALKPGGVLVYS 198 (264)
T ss_pred HHHHhcCCCCEEEEE
Confidence 345679999999864
No 91
>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=36.83 E-value=30 Score=22.27 Aligned_cols=15 Identities=33% Similarity=0.776 Sum_probs=12.4
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.+.+.|++||++++-
T Consensus 244 ~~~~~LkpgG~li~s 258 (288)
T TIGR00406 244 QFSRLVKPGGWLILS 258 (288)
T ss_pred HHHHHcCCCcEEEEE
Confidence 467889999999883
No 92
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=36.47 E-value=32 Score=20.68 Aligned_cols=17 Identities=24% Similarity=0.431 Sum_probs=13.1
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
.+...|++||++.+-..
T Consensus 117 ~~~r~LkpgG~l~~~td 133 (194)
T TIGR00091 117 EYANVLKKGGVIHFKTD 133 (194)
T ss_pred HHHHHhCCCCEEEEEeC
Confidence 35677999999987654
No 93
>PF03492 Methyltransf_7: SAM dependent carboxyl methyltransferase; InterPro: IPR005299 This family of plant methyltransferases contains enzymes that act on a variety of substrates including salicylic acid, jasmonic acid and 7-Methylxanthine. Caffeine is synthesized through sequential three-step methylation of xanthine derivatives at positions 7-N, 3-N, and 1-N. The protein 7-methylxanthine methyltransferase (designated as CaMXMT) catalyses the second step to produce theobromine [].; GO: 0008168 methyltransferase activity; PDB: 2EFJ_A 1M6E_X 2EG5_C 3B5I_B.
Probab=36.32 E-value=16 Score=24.26 Aligned_cols=14 Identities=36% Similarity=0.866 Sum_probs=11.0
Q ss_pred hcccCCcEEEEEee
Q psy5588 7 DQLRPGGRLIIPVG 20 (61)
Q Consensus 7 ~QL~~gGrLV~pvg 20 (61)
+-|++||+||+-+-
T Consensus 171 ~ELv~GG~mvl~~~ 184 (334)
T PF03492_consen 171 EELVPGGRMVLTFL 184 (334)
T ss_dssp HHEEEEEEEEEEEE
T ss_pred heeccCcEEEEEEe
Confidence 34889999999763
No 94
>PRK09798 antitoxin MazE; Provisional
Probab=36.24 E-value=39 Score=18.12 Aligned_cols=20 Identities=15% Similarity=0.197 Sum_probs=13.6
Q ss_pred CcHhHHhccc--CCcEEEEEee
Q psy5588 1 MVVELIDQLR--PGGRLIIPVG 20 (61)
Q Consensus 1 iP~~l~~QL~--~gGrLV~pvg 20 (61)
||.++++||. .|-.+-+-+.
T Consensus 17 IPk~~l~~l~l~~g~~vei~v~ 38 (82)
T PRK09798 17 IPATLMQALNLNIDDEVKIDLV 38 (82)
T ss_pred cCHHHHHHcCCCCCCEEEEEEE
Confidence 7899999965 5555555554
No 95
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=35.68 E-value=32 Score=21.56 Aligned_cols=14 Identities=21% Similarity=0.570 Sum_probs=11.4
Q ss_pred hHHhcccCCcEEEE
Q psy5588 4 ELIDQLRPGGRLII 17 (61)
Q Consensus 4 ~l~~QL~~gGrLV~ 17 (61)
.++..|++||.+++
T Consensus 163 ~~~~ll~~GG~ii~ 176 (234)
T PLN02781 163 QLLKLVKVGGIIAF 176 (234)
T ss_pred HHHHhcCCCeEEEE
Confidence 45678999999886
No 96
>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=35.16 E-value=29 Score=22.44 Aligned_cols=13 Identities=46% Similarity=1.055 Sum_probs=10.5
Q ss_pred HHhcccCCcEEEE
Q psy5588 5 LIDQLRPGGRLII 17 (61)
Q Consensus 5 l~~QL~~gGrLV~ 17 (61)
.-+-|+|||++++
T Consensus 152 ~~~~LkpgG~~~l 164 (273)
T PF02353_consen 152 ISRLLKPGGRLVL 164 (273)
T ss_dssp HHHHSETTEEEEE
T ss_pred HHHhcCCCcEEEE
Confidence 4467999999986
No 97
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=34.63 E-value=33 Score=21.76 Aligned_cols=15 Identities=33% Similarity=0.671 Sum_probs=12.3
Q ss_pred HhHHhcccCCcEEEE
Q psy5588 3 VELIDQLRPGGRLII 17 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~ 17 (61)
+..++.|++||.+|+
T Consensus 150 e~~~~lLr~GGliv~ 164 (219)
T COG4122 150 ERALPLLRPGGLIVA 164 (219)
T ss_pred HHHHHHhCCCcEEEE
Confidence 346778999999998
No 98
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=34.53 E-value=35 Score=20.45 Aligned_cols=15 Identities=53% Similarity=0.997 Sum_probs=12.1
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.+.+.|++||++++.
T Consensus 143 ~~~~~L~~gG~li~~ 157 (239)
T PRK00216 143 EMYRVLKPGGRLVIL 157 (239)
T ss_pred HHHHhccCCcEEEEE
Confidence 456789999999874
No 99
>TIGR01439 lp_hng_hel_AbrB looped-hinge helix DNA binding domain, AbrB family. This DNA-binding domain family includes AbrB, a transition state regulator in Bacillus subtilis, whose DNA-binding domain structure in solution was determined by NMR. The domain binds DNA as a dimer in what is termed a looped-hinge helix fold. Some members of the family have two copies of the domain in tandem. The domain is found usually at the N-terminus of a small protein. This model excludes members of family TIGR02609.
Probab=34.01 E-value=44 Score=14.80 Aligned_cols=7 Identities=43% Similarity=1.165 Sum_probs=3.3
Q ss_pred CcEEEEE
Q psy5588 12 GGRLIIP 18 (61)
Q Consensus 12 gGrLV~p 18 (61)
.||+.+|
T Consensus 6 kgri~iP 12 (43)
T TIGR01439 6 KGQIVIP 12 (43)
T ss_pred CCeEEec
Confidence 4444444
No 100
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=33.68 E-value=34 Score=21.95 Aligned_cols=15 Identities=47% Similarity=0.970 Sum_probs=11.5
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
++..-|+||||+++-
T Consensus 141 E~~RVlKpgG~~~vl 155 (238)
T COG2226 141 EMYRVLKPGGRLLVL 155 (238)
T ss_pred HHHHhhcCCeEEEEE
Confidence 455679999998874
No 101
>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=33.60 E-value=44 Score=20.32 Aligned_cols=18 Identities=33% Similarity=0.697 Sum_probs=14.2
Q ss_pred hHHhcccCCcEEEEEeeC
Q psy5588 4 ELIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg~ 21 (61)
....-|++||++++..+.
T Consensus 202 ~~~~~L~~gG~~~~~~~~ 219 (251)
T TIGR03534 202 QAPRLLKPGGWLLLEIGY 219 (251)
T ss_pred HHHHhcccCCEEEEEECc
Confidence 345578999999998864
No 102
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=33.40 E-value=38 Score=20.54 Aligned_cols=16 Identities=25% Similarity=0.571 Sum_probs=12.6
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+.+-|++||++++-.
T Consensus 141 ~i~~~LkpgG~l~i~~ 156 (202)
T PRK00121 141 LYARKLKPGGEIHFAT 156 (202)
T ss_pred HHHHHcCCCCEEEEEc
Confidence 4466899999999864
No 103
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=33.17 E-value=36 Score=21.01 Aligned_cols=16 Identities=38% Similarity=0.677 Sum_probs=12.9
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+.+.|++||++++..
T Consensus 125 ~~~~~Lk~gG~l~~~~ 140 (251)
T PRK10258 125 ELYRVVRPGGVVAFTT 140 (251)
T ss_pred HHHHHcCCCeEEEEEe
Confidence 4567899999999864
No 104
>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=32.66 E-value=39 Score=20.13 Aligned_cols=16 Identities=44% Similarity=0.727 Sum_probs=12.5
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+...|++||++++-.
T Consensus 120 ~~~~~L~~~G~l~~~~ 135 (240)
T TIGR02072 120 ELARVLKPGGLLAFST 135 (240)
T ss_pred HHHHHcCCCcEEEEEe
Confidence 4567899999999743
No 105
>PRK14968 putative methyltransferase; Provisional
Probab=32.23 E-value=49 Score=19.06 Aligned_cols=19 Identities=32% Similarity=0.590 Sum_probs=14.0
Q ss_pred HhHHhcccCCcEEEEEeeC
Q psy5588 3 VELIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~ 21 (61)
+.+..-|++||++++-+..
T Consensus 132 ~~~~~~Lk~gG~~~~~~~~ 150 (188)
T PRK14968 132 DEVGRYLKPGGRILLLQSS 150 (188)
T ss_pred HHHHHhcCCCeEEEEEEcc
Confidence 3456779999999887653
No 106
>PLN02476 O-methyltransferase
Probab=31.83 E-value=40 Score=22.11 Aligned_cols=14 Identities=29% Similarity=0.657 Sum_probs=11.8
Q ss_pred hHHhcccCCcEEEE
Q psy5588 4 ELIDQLRPGGRLII 17 (61)
Q Consensus 4 ~l~~QL~~gGrLV~ 17 (61)
..++.|++||.||+
T Consensus 213 ~~l~lL~~GGvIV~ 226 (278)
T PLN02476 213 LLLQLVRVGGVIVM 226 (278)
T ss_pred HHHHhcCCCcEEEE
Confidence 45678999999998
No 107
>PRK00536 speE spermidine synthase; Provisional
Probab=31.71 E-value=40 Score=21.88 Aligned_cols=17 Identities=24% Similarity=0.239 Sum_probs=13.7
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
.+.+.|++||.||.=-+
T Consensus 156 ~~~~~L~~~Gi~v~Qs~ 172 (262)
T PRK00536 156 GLKRMLKEDGVFISVAK 172 (262)
T ss_pred HHHHhcCCCcEEEECCC
Confidence 46788999999998544
No 108
>PLN02668 indole-3-acetate carboxyl methyltransferase
Probab=31.08 E-value=36 Score=23.47 Aligned_cols=12 Identities=17% Similarity=0.490 Sum_probs=10.4
Q ss_pred ccCCcEEEEEee
Q psy5588 9 LRPGGRLIIPVG 20 (61)
Q Consensus 9 L~~gGrLV~pvg 20 (61)
|.+||+||+-+-
T Consensus 227 LvpGG~mvl~~~ 238 (386)
T PLN02668 227 MKRGGAMFLVCL 238 (386)
T ss_pred hccCcEEEEEEe
Confidence 899999999763
No 109
>PLN02366 spermidine synthase
Probab=30.77 E-value=42 Score=22.17 Aligned_cols=15 Identities=33% Similarity=0.625 Sum_probs=12.1
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.+.+.|++||+++.=
T Consensus 191 ~~~~~L~pgGvlv~q 205 (308)
T PLN02366 191 SVARALRPGGVVCTQ 205 (308)
T ss_pred HHHHhcCCCcEEEEC
Confidence 456789999999873
No 110
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=30.03 E-value=55 Score=21.71 Aligned_cols=20 Identities=50% Similarity=0.722 Sum_probs=16.9
Q ss_pred hHHhcccCCcEEEEEeeCCC
Q psy5588 4 ELIDQLRPGGRLIIPVGPEG 23 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg~~~ 23 (61)
.+..-|++||||+=-+|..+
T Consensus 230 El~RiLkrgGrlFHYvG~Pg 249 (287)
T COG2521 230 ELYRILKRGGRLFHYVGNPG 249 (287)
T ss_pred HHHHHcCcCCcEEEEeCCCC
Confidence 56778999999999999753
No 111
>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=29.88 E-value=34 Score=20.05 Aligned_cols=16 Identities=38% Similarity=0.777 Sum_probs=12.5
Q ss_pred HhcccCCcEEEEEeeC
Q psy5588 6 IDQLRPGGRLIIPVGP 21 (61)
Q Consensus 6 ~~QL~~gGrLV~pvg~ 21 (61)
++.|++||.+|+=+=.
T Consensus 126 ~~~L~~gG~~v~K~~~ 141 (181)
T PF01728_consen 126 LELLKPGGTFVIKVFK 141 (181)
T ss_dssp HHHHCTTEEEEEEESS
T ss_pred HhhhcCCCEEEEEecc
Confidence 4679999999986643
No 112
>KOG1663|consensus
Probab=29.86 E-value=42 Score=21.79 Aligned_cols=15 Identities=33% Similarity=0.678 Sum_probs=13.1
Q ss_pred HhHHhcccCCcEEEE
Q psy5588 3 VELIDQLRPGGRLII 17 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~ 17 (61)
+.++..|++||.|++
T Consensus 167 e~~l~Llr~GGvi~~ 181 (237)
T KOG1663|consen 167 ERLLRLLRVGGVIVV 181 (237)
T ss_pred HHHHhhcccccEEEE
Confidence 567889999999998
No 113
>PLN03075 nicotianamine synthase; Provisional
Probab=29.85 E-value=45 Score=22.15 Aligned_cols=18 Identities=22% Similarity=0.414 Sum_probs=14.2
Q ss_pred HhHHhcccCCcEEEEEee
Q psy5588 3 VELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg 20 (61)
+.+.+.|++||.+++=.+
T Consensus 217 ~~l~~~LkPGG~Lvlr~~ 234 (296)
T PLN03075 217 EHLGKHMAPGALLMLRSA 234 (296)
T ss_pred HHHHHhcCCCcEEEEecc
Confidence 456778999999998553
No 114
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=29.72 E-value=40 Score=23.05 Aligned_cols=15 Identities=40% Similarity=0.780 Sum_probs=11.6
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.....|++||+||.-
T Consensus 369 ~a~~~lkpgG~lvys 383 (434)
T PRK14901 369 SLAPLLKPGGTLVYA 383 (434)
T ss_pred HHHHhcCCCCEEEEE
Confidence 446789999999853
No 115
>PF04225 OapA: Opacity-associated protein A LysM-like domain; InterPro: IPR007340 This entry includes the Haemophilus influenzae opacity-associated protein. This protein is required for efficient nasopharyngeal mucosal colonization, and its expression is associated with a distinctive transparent colony phenotype. OapA is thought to be a secreted protein, and its expression exhibits high-frequency phase variation [].; PDB: 2GU1_A.
Probab=29.37 E-value=99 Score=16.50 Aligned_cols=19 Identities=26% Similarity=0.606 Sum_probs=10.4
Q ss_pred HHhcccCCcEEEEEeeCCC
Q psy5588 5 LIDQLRPGGRLIIPVGPEG 23 (61)
Q Consensus 5 l~~QL~~gGrLV~pvg~~~ 23 (61)
-+.+|+||=.|-+-+..++
T Consensus 39 ~L~~L~pGq~l~f~~d~~g 57 (85)
T PF04225_consen 39 PLTRLKPGQTLEFQLDEDG 57 (85)
T ss_dssp -GGG--TT-EEEEEE-TTS
T ss_pred hHhhCCCCCEEEEEECCCC
Confidence 4677888888888887653
No 116
>TIGR03438 probable methyltransferase. This model represents a distinct set of uncharacterized proteins found in the bacteria. Analysis by PSI-BLAST shows remote sequence homology to methyltransferases
Probab=28.74 E-value=49 Score=21.41 Aligned_cols=16 Identities=44% Similarity=0.740 Sum_probs=12.9
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+.+.|++||++++-+
T Consensus 162 ~i~~~L~pgG~~lig~ 177 (301)
T TIGR03438 162 RIRQLLGPGGGLLIGV 177 (301)
T ss_pred HHHHhcCCCCEEEEec
Confidence 4567899999999755
No 117
>PRK01581 speE spermidine synthase; Validated
Probab=28.56 E-value=48 Score=22.84 Aligned_cols=17 Identities=12% Similarity=0.245 Sum_probs=13.0
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
.+.+.|++||++|+-.+
T Consensus 253 ~~~~~LkPgGV~V~Qs~ 269 (374)
T PRK01581 253 RIATFLTEDGAFVCQSN 269 (374)
T ss_pred HHHHhcCCCcEEEEecC
Confidence 45678999999988543
No 118
>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=28.07 E-value=49 Score=22.51 Aligned_cols=14 Identities=29% Similarity=0.600 Sum_probs=11.2
Q ss_pred HHhcccCCcEEEEE
Q psy5588 5 LIDQLRPGGRLIIP 18 (61)
Q Consensus 5 l~~QL~~gGrLV~p 18 (61)
....|++||+||.-
T Consensus 354 a~~~LkpgG~lvys 367 (426)
T TIGR00563 354 IWPLLKTGGTLVYA 367 (426)
T ss_pred HHHhcCCCcEEEEE
Confidence 45569999999975
No 119
>COG2103 Predicted sugar phosphate isomerase [General function prediction only]
Probab=27.82 E-value=36 Score=22.76 Aligned_cols=15 Identities=40% Similarity=0.614 Sum_probs=12.1
Q ss_pred HhHHhcccCCcEEEE
Q psy5588 3 VELIDQLRPGGRLII 17 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~ 17 (61)
+...++|+.||||+-
T Consensus 51 ~~~~~~l~~GGRLiY 65 (298)
T COG2103 51 DIIAAALKQGGRLIY 65 (298)
T ss_pred HHHHHHHHcCCeEEE
Confidence 345789999999975
No 120
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=27.70 E-value=50 Score=22.50 Aligned_cols=16 Identities=38% Similarity=0.700 Sum_probs=11.9
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.....|++||+||.-.
T Consensus 357 ~a~~~LkpGG~lvyst 372 (427)
T PRK10901 357 ALWPLLKPGGTLLYAT 372 (427)
T ss_pred HHHHhcCCCCEEEEEe
Confidence 3446799999999643
No 121
>TIGR03505 FimV_core FimV N-terminal domain. This region is found at, or about 200 amino acids from, the N-terminus of FimV from Pseudomonas aeruginosa, TspA of Neisseria meningitidis, and related proteins. Disruption of FimV blocks twitching motility from type IV pili; Semmler, et al. suggest a role for this family in peptidoglycan layer remodelling required by type IV fimbrial systems. Most but not all members of this protein family have a C-terminal region recognized by TIGR03504. In between is a highly variable, often repeat-filled region rich in the negatively charged amino acids Asp and Glu.
Probab=27.61 E-value=38 Score=17.87 Aligned_cols=16 Identities=38% Similarity=0.557 Sum_probs=13.0
Q ss_pred HhcccCCcEEEEEeeC
Q psy5588 6 IDQLRPGGRLIIPVGP 21 (61)
Q Consensus 6 ~~QL~~gGrLV~pvg~ 21 (61)
++.|+.|-.|.+|-..
T Consensus 38 in~L~~G~~L~iP~~~ 53 (74)
T TIGR03505 38 INRLKVGQILRIPSEE 53 (74)
T ss_pred hhhcCCCCEEeCCCHH
Confidence 4689999999999753
No 122
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=27.53 E-value=50 Score=22.35 Aligned_cols=15 Identities=20% Similarity=0.448 Sum_probs=12.0
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.+.+.|+|||++++-
T Consensus 252 ~i~r~LkpGG~lvl~ 266 (383)
T PRK11705 252 VVRRCLKPDGLFLLH 266 (383)
T ss_pred HHHHHcCCCcEEEEE
Confidence 345689999999985
No 123
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=26.99 E-value=54 Score=20.97 Aligned_cols=15 Identities=27% Similarity=0.572 Sum_probs=11.1
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
.+.+.|++||++++.
T Consensus 208 ~~~~~LkpgG~~l~v 222 (287)
T PRK12335 208 NMQEHTNPGGYNLIV 222 (287)
T ss_pred HHHHhcCCCcEEEEE
Confidence 456778999996653
No 124
>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=26.87 E-value=74 Score=20.35 Aligned_cols=18 Identities=33% Similarity=0.506 Sum_probs=14.5
Q ss_pred HHhcccCCcEEEEEeeCC
Q psy5588 5 LIDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 5 l~~QL~~gGrLV~pvg~~ 22 (61)
..+.|++||+|++-++..
T Consensus 230 a~~~L~~gG~l~~e~g~~ 247 (284)
T TIGR00536 230 APDYLKPNGFLVCEIGNW 247 (284)
T ss_pred HHHhccCCCEEEEEECcc
Confidence 345799999999999854
No 125
>PF03607 DCX: Doublecortin; InterPro: IPR003533 X-linked lissencephaly is a severe brain malformation affecting males. Recently it has been demonstrated that the doublecortin gene is implicated in this disorder []. Doublecortin was found to bind to the microtubule cytoskeleton. In vivo and in vitro assays show that Doublecortin stabilises microtubules and causes bundling []. Doublecortin is a basic protein with an iso-electric point of 10, typical of microtubule-binding proteins. However, its sequence contains no known microtubule-binding domain(s). The detailed sequence analysis of Doublecortin and Doublecortin-like proteins allowed the identification of an evolutionarily conserved Doublecortin (DC) domain. This domain is found in the N terminus of proteins and consists of one or two tandemly repeated copies of an around 80 amino acids region. It has been suggested that the first DC domain of Doublecortin binds tubulin and enhances microtubule polymerisation []. Some proteins known to contain a DC domain are listed below: Doublecortin. It is required for neuronal migration []. A large number of point mutations in the human DCX gene leading to lissencephaly are located within the DC domains []. Human serine/threonine-protein kinase DCAMKL1. It is a probable kinase that may be involved in a calcium-signaling pathway controling neuronal migration in the developing brain []. Retinitis pigmentosa 1 protein. It could play a role in the differentiation of photoreceptor cells. Mutation in the human RP1 gene cause retinitis pigmentosa of type 1 []. ; GO: 0035556 intracellular signal transduction; PDB: 1UF0_A 1MG4_A 1MFW_A 2DNF_A 2XRP_I 2BQQ_A 1MJD_A.
Probab=26.86 E-value=52 Score=16.33 Aligned_cols=13 Identities=31% Similarity=0.733 Sum_probs=9.4
Q ss_pred HhcccCCcEEEEE
Q psy5588 6 IDQLRPGGRLIIP 18 (61)
Q Consensus 6 ~~QL~~gGrLV~p 18 (61)
+++|.+|+..||-
T Consensus 42 l~~l~dg~~yVa~ 54 (60)
T PF03607_consen 42 LDELEDGGSYVAS 54 (60)
T ss_dssp GGGS-TTEEEEEE
T ss_pred HHHHCCCCEEEEE
Confidence 4678889888876
No 126
>KOG2782|consensus
Probab=26.84 E-value=41 Score=22.19 Aligned_cols=14 Identities=50% Similarity=0.852 Sum_probs=11.5
Q ss_pred HhcccCCcEEEEEe
Q psy5588 6 IDQLRPGGRLIIPV 19 (61)
Q Consensus 6 ~~QL~~gGrLV~pv 19 (61)
.++|+++|||++.-
T Consensus 255 ~~vl~~~grl~~is 268 (303)
T KOG2782|consen 255 FDVLAPGGRLAVIS 268 (303)
T ss_pred ccccCCCccEEEEE
Confidence 47899999999864
No 127
>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=26.03 E-value=79 Score=19.98 Aligned_cols=17 Identities=35% Similarity=0.665 Sum_probs=14.0
Q ss_pred HhcccCCcEEEEEeeCC
Q psy5588 6 IDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 6 ~~QL~~gGrLV~pvg~~ 22 (61)
.+.|++||++++-.+..
T Consensus 203 ~~~L~~gG~l~l~~~~~ 219 (251)
T TIGR03704 203 PDWLAPGGHLLVETSER 219 (251)
T ss_pred HHhcCCCCEEEEEECcc
Confidence 36799999999988754
No 128
>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=25.76 E-value=39 Score=19.81 Aligned_cols=17 Identities=35% Similarity=0.747 Sum_probs=13.2
Q ss_pred HhcccCCcEEEEEeeCC
Q psy5588 6 IDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 6 ~~QL~~gGrLV~pvg~~ 22 (61)
.+-|++||+|++.....
T Consensus 127 ~~~Lk~~G~l~lv~~~~ 143 (170)
T PF05175_consen 127 RRYLKPGGRLFLVINSH 143 (170)
T ss_dssp HHHEEEEEEEEEEEETT
T ss_pred HHhccCCCEEEEEeecC
Confidence 46799999998877643
No 129
>COG1041 Predicted DNA modification methylase [DNA replication, recombination, and repair]
Probab=25.70 E-value=58 Score=22.24 Aligned_cols=18 Identities=28% Similarity=0.637 Sum_probs=15.1
Q ss_pred HhHHhcccCCcEEEEEee
Q psy5588 3 VELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg 20 (61)
+.+.+-|++||++|++.-
T Consensus 294 e~~~evLk~gG~~vf~~p 311 (347)
T COG1041 294 ESASEVLKPGGRIVFAAP 311 (347)
T ss_pred HHHHHHhhcCcEEEEecC
Confidence 456788999999999876
No 130
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=25.70 E-value=79 Score=20.70 Aligned_cols=18 Identities=33% Similarity=0.486 Sum_probs=14.4
Q ss_pred HHhcccCCcEEEEEeeCC
Q psy5588 5 LIDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 5 l~~QL~~gGrLV~pvg~~ 22 (61)
..+.|++||++++=++..
T Consensus 249 a~~~L~pgG~l~~E~g~~ 266 (307)
T PRK11805 249 APDYLTEDGVLVVEVGNS 266 (307)
T ss_pred HHHhcCCCCEEEEEECcC
Confidence 446899999999988753
No 131
>PRK03612 spermidine synthase; Provisional
Probab=25.67 E-value=56 Score=23.05 Aligned_cols=16 Identities=31% Similarity=0.517 Sum_probs=13.0
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
...+.|+|||++++-.
T Consensus 400 ~~~~~L~pgG~lv~~~ 415 (521)
T PRK03612 400 LLKRRLAPDGLLVVQS 415 (521)
T ss_pred HHHHhcCCCeEEEEec
Confidence 4577899999999844
No 132
>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=25.45 E-value=74 Score=20.50 Aligned_cols=17 Identities=35% Similarity=0.618 Sum_probs=13.9
Q ss_pred HHhcccCCcEEEEEeeC
Q psy5588 5 LIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 5 l~~QL~~gGrLV~pvg~ 21 (61)
..+.|++||++++=++.
T Consensus 237 a~~~L~~gG~l~~e~g~ 253 (284)
T TIGR03533 237 AADHLNENGVLVVEVGN 253 (284)
T ss_pred HHHhcCCCCEEEEEECc
Confidence 35689999999988874
No 133
>KOG4300|consensus
Probab=25.44 E-value=61 Score=21.14 Aligned_cols=16 Identities=50% Similarity=0.804 Sum_probs=12.1
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
..-.-|+||||++..-
T Consensus 167 e~~rlLRpgG~iifiE 182 (252)
T KOG4300|consen 167 EVRRLLRPGGRIIFIE 182 (252)
T ss_pred HHHHhcCCCcEEEEEe
Confidence 3456799999999853
No 134
>PRK11426 hypothetical protein; Provisional
Probab=24.79 E-value=32 Score=20.34 Aligned_cols=15 Identities=33% Similarity=0.567 Sum_probs=11.9
Q ss_pred HhHHhcccCCcEEEE
Q psy5588 3 VELIDQLRPGGRLII 17 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~ 17 (61)
+.++++|.|+|++-.
T Consensus 98 P~~VDklTP~G~lp~ 112 (132)
T PRK11426 98 PKIIDALSPQGEVSP 112 (132)
T ss_pred HHHHhccCCCCCCCc
Confidence 467899999998743
No 135
>PRK11933 yebU rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
Probab=24.36 E-value=56 Score=23.00 Aligned_cols=12 Identities=42% Similarity=0.969 Sum_probs=9.4
Q ss_pred HhcccCCcEEEE
Q psy5588 6 IDQLRPGGRLII 17 (61)
Q Consensus 6 ~~QL~~gGrLV~ 17 (61)
.+.|++||+||=
T Consensus 229 ~~~LkpGG~LVY 240 (470)
T PRK11933 229 FHALKPGGTLVY 240 (470)
T ss_pred HHHcCCCcEEEE
Confidence 467899999865
No 136
>PF10115 HlyU: Transcriptional activator HlyU; InterPro: IPR018772 This is a family of hypothetical prokaryotic proteins, with no known function. One of the proteins in this entry corresponds to the transcriptional activator HlyU, indicating a possible similar role in other members.
Probab=24.33 E-value=1.4e+02 Score=16.57 Aligned_cols=37 Identities=24% Similarity=0.428 Sum_probs=24.8
Q ss_pred CcEEEEE--eeCCCCceEEEEEEECCCCcEEEEEeeeEE
Q psy5588 12 GGRLIIP--VGPEGSAQSLEQIDKNLDGTITRTPLMQVV 48 (61)
Q Consensus 12 gGrLV~p--vg~~~~~~~l~~~~r~~~g~~~~~~l~~~~ 48 (61)
.|.+|.| ...+++.+..-+++|..+|+..+..+...-
T Consensus 25 kgf~I~~~P~~egGQfRvag~I~K~~~ge~k~H~FIRsD 63 (91)
T PF10115_consen 25 KGFLIYPEPMSEGGQFRVAGRIEKEIDGETKTHRFIRSD 63 (91)
T ss_pred CCEEEEeCccccCCceeEEEEEEeccCCcEEEEEEEEcc
Confidence 4667764 555555678888999878876666655443
No 137
>COG0144 Sun tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]
Probab=24.32 E-value=57 Score=21.88 Aligned_cols=15 Identities=33% Similarity=0.729 Sum_probs=11.5
Q ss_pred hHHhcccCCcEEEEE
Q psy5588 4 ELIDQLRPGGRLIIP 18 (61)
Q Consensus 4 ~l~~QL~~gGrLV~p 18 (61)
+-++-|++||+||--
T Consensus 273 ~a~~~lk~GG~LVYS 287 (355)
T COG0144 273 AALKLLKPGGVLVYS 287 (355)
T ss_pred HHHHhcCCCCEEEEE
Confidence 345678999999963
No 138
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=24.29 E-value=68 Score=19.47 Aligned_cols=16 Identities=19% Similarity=0.499 Sum_probs=12.0
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+..-|++||++++-.
T Consensus 136 ~~~~~L~~gG~l~v~~ 151 (233)
T PRK05134 136 ACAKLVKPGGLVFFST 151 (233)
T ss_pred HHHHHcCCCcEEEEEe
Confidence 4456789999998643
No 139
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=23.43 E-value=69 Score=20.53 Aligned_cols=14 Identities=36% Similarity=0.548 Sum_probs=11.7
Q ss_pred hHHhcccCCcEEEE
Q psy5588 4 ELIDQLRPGGRLII 17 (61)
Q Consensus 4 ~l~~QL~~gGrLV~ 17 (61)
..+..|++||.+|+
T Consensus 175 ~~l~ll~~GGviv~ 188 (247)
T PLN02589 175 RLIDLVKVGGVIGY 188 (247)
T ss_pred HHHHhcCCCeEEEE
Confidence 45688999999987
No 140
>PF10590 PNPOx_C: Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; InterPro: IPR019576 Pyridoxamine 5'-phosphate oxidase (1.4.3.5 from EC) is an enzyme that is involved in the de novo synthesis of pyridoxine (vitamin B6) and pyridoxal phosphate. It oxidizes pyridoxamine-5-P (PMP) and pyridoxine-5-P (PNP) to pyridoxal-5-P. The enzyme requires the presence of flavin mononucleotide (FMN) as a cofactor, although there is some evidence that coenzyme F420 may perform this role in some species []. The sequences of the enzyme from bacterial (genes pdxH or fprA) [] and fungal (gene PDX3) [] sources show that this protein has been highly conserved throughout evolution. PdxH is evolutionary related [] to one of the enzymes in the phenazine biosynthesis protein pathway, phzD (also known as phzG). This entry represents one of the two dimerisation regions of the protein, located at the edge of the dimer interface, at the C terminus, being the last three beta strands, S6, S7, and S8 along with the last three residues to the end. In P21159 from SWISSPROT, S6 runs from residues 178-192, S7 from 200-206 and S8 from 211-215. the extended loop, of residues 167-177 may well be involved in the pocket formed between the two dimers that positions the FMN molecule []. ; GO: 0016638 oxidoreductase activity, acting on the CH-NH2 group of donors, 0055114 oxidation-reduction process; PDB: 1WV4_B 1DNL_A 1G76_A 1G79_A 1G77_A 1JNW_A 1G78_A 1TY9_A 1CI0_A 1NRG_A ....
Probab=23.32 E-value=99 Score=14.49 Aligned_cols=34 Identities=21% Similarity=0.321 Sum_probs=19.3
Q ss_pred CcEEEEEee------CCCCceEEEEEEECCCCcEEEEEee
Q psy5588 12 GGRLIIPVG------PEGSAQSLEQIDKNLDGTITRTPLM 45 (61)
Q Consensus 12 gGrLV~pvg------~~~~~~~l~~~~r~~~g~~~~~~l~ 45 (61)
||-.|.|.. .......=++++|++++.++.+.|.
T Consensus 2 gGy~l~P~~iEFWqg~~~RlHdR~~y~r~~~~~W~~~rL~ 41 (42)
T PF10590_consen 2 GGYRLVPEEIEFWQGRPDRLHDRIRYTRDEDGGWTKERLQ 41 (42)
T ss_dssp EEEEEEECEEEEEEEETTSEEEEEEEEEETTTCEEEEEE-
T ss_pred CeEEEEcCEEEEeCCCCCCCEEEEEEEecCCCCEEEEEEc
Confidence 456666652 2223345556777656668887764
No 141
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=23.02 E-value=69 Score=21.97 Aligned_cols=16 Identities=31% Similarity=0.615 Sum_probs=12.4
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.....|++||+||.-.
T Consensus 362 ~a~~~lkpgG~lvyst 377 (445)
T PRK14904 362 HAASLLKPGGVLVYAT 377 (445)
T ss_pred HHHHhcCCCcEEEEEe
Confidence 3456789999999854
No 142
>COG2350 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.01 E-value=60 Score=17.88 Aligned_cols=15 Identities=33% Similarity=0.552 Sum_probs=13.2
Q ss_pred HhHHhcccCCcEEEE
Q psy5588 3 VELIDQLRPGGRLII 17 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~ 17 (61)
-++++||..-|||++
T Consensus 25 ~~~L~~~~a~G~ll~ 39 (92)
T COG2350 25 LARLKQLYAEGRLLT 39 (92)
T ss_pred HHHHHHhhhcCeEEE
Confidence 468999999999998
No 143
>PRK06922 hypothetical protein; Provisional
Probab=22.87 E-value=67 Score=23.93 Aligned_cols=16 Identities=44% Similarity=0.806 Sum_probs=12.9
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+...|++||++++--
T Consensus 522 eI~RVLKPGGrLII~D 537 (677)
T PRK06922 522 SAYEVLKPGGRIIIRD 537 (677)
T ss_pred HHHHHcCCCcEEEEEe
Confidence 4567899999999953
No 144
>PF00107 ADH_zinc_N: Zinc-binding dehydrogenase; InterPro: IPR013149 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of alcohols to their corresponding acetaldehyde or ketone with the concomitant reduction of NAD: alcohol + NAD = aldehyde or ketone + NADH Currently three structurally and catalytically different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Zinc-containing ADH's [, ] are dimeric or tetrameric enzymes that bind two atoms of zinc per subunit. One of the zinc atom is essential for catalytic activity while the other is not. Both zinc atoms are coordinated by either cysteine or histidine residues; the catalytic zinc is coordinated by two cysteines and one histidine. Zinc-containing ADH's are found in bacteria, mammals, plants, and in fungi. In many species there is more than one isozyme (for example, humans have at least six isozymes, yeast have three, etc.). A number of other zinc-dependent dehydrogenases are closely related to zinc ADH [] and are included in this family. Sorbitol dehydrogenase (1.1.1.14 from EC) L-threonine 3-dehydrogenase (1.1.1.103 from EC) Glutathione-dependent formaldehyde dehydrogenase (1.1.1.284 from EC) Mannitol dehydrogenase (1.1.1.255 from EC) In addition, this family includes NADP-dependent quinone oxidoreductase (1.6.5.5 from EC), an enzyme found in bacteria (gene qor), in yeast and in mammals where, in some species such as rodents, it has been recruited as an eye lens protein and is known as zeta-crystallin []. The sequence of quinone oxidoreductase is distantly related to that other zinc-containing alcohol dehydrogenases and it lacks the zinc-ligand residues. The torpedo fish and mammalian synaptic vesicle membrane protein vat-1 is related to qor. This entry represents the cofactor-binding domain of these enzymes, which is normally found towards the C terminus. Structural studies indicate that it forms a classical Rossman fold that reversibly binds NAD(H) [, , ].; GO: 0008270 zinc ion binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3PI7_A 3COS_D 1VJ1_A 2ZB3_A 1PIW_B 1Q1N_A 1PS0_A 2EER_B 3KRT_A 1ZSY_A ....
Probab=22.81 E-value=43 Score=18.13 Aligned_cols=17 Identities=47% Similarity=0.786 Sum_probs=12.9
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
.-++.|+++|+++..=.
T Consensus 74 ~~~~~l~~~G~~v~vg~ 90 (130)
T PF00107_consen 74 EAIKLLRPGGRIVVVGV 90 (130)
T ss_dssp HHHHHEEEEEEEEEESS
T ss_pred HHHHHhccCCEEEEEEc
Confidence 34678999999988643
No 145
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=22.69 E-value=88 Score=20.91 Aligned_cols=16 Identities=31% Similarity=0.530 Sum_probs=12.2
Q ss_pred HHhcccCCcEEEEEee
Q psy5588 5 LIDQLRPGGRLIIPVG 20 (61)
Q Consensus 5 l~~QL~~gGrLV~pvg 20 (61)
..+.|++||+|++...
T Consensus 289 a~~~LkpgG~L~iVan 304 (342)
T PRK09489 289 AVRHLNSGGELRIVAN 304 (342)
T ss_pred HHHhcCcCCEEEEEEe
Confidence 3556999999987653
No 146
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=22.36 E-value=65 Score=22.04 Aligned_cols=13 Identities=31% Similarity=0.603 Sum_probs=10.4
Q ss_pred HHhcccCCcEEEE
Q psy5588 5 LIDQLRPGGRLII 17 (61)
Q Consensus 5 l~~QL~~gGrLV~ 17 (61)
....|++||+||.
T Consensus 365 a~~~LkpGG~lvy 377 (444)
T PRK14902 365 VAQYLKKGGILVY 377 (444)
T ss_pred HHHHcCCCCEEEE
Confidence 3467999999994
No 147
>COG1224 TIP49 DNA helicase TIP49, TBP-interacting protein [Transcription]
Probab=21.72 E-value=2.2e+02 Score=20.19 Aligned_cols=52 Identities=17% Similarity=0.306 Sum_probs=29.9
Q ss_pred cHhHHhcccCCcEE---EEEeeCCCCceEEEEEEECCCCcE-EEEEeeeEEEEeccCCC
Q psy5588 2 VVELIDQLRPGGRL---IIPVGPEGSAQSLEQIDKNLDGTI-TRTPLMQVVYVPLTDKQ 56 (61)
Q Consensus 2 P~~l~~QL~~gGrL---V~pvg~~~~~~~l~~~~r~~~g~~-~~~~l~~~~fvpL~~~~ 56 (61)
++.+.+||-.-|.. |+-+.. ...++.++-|. .+.- ....+.+.+||||..++
T Consensus 175 g~~i~~ql~~~~V~~GDVI~Id~--etG~V~klGrs-~~~~~~~~dl~~~~~V~~P~Ge 230 (450)
T COG1224 175 GPEIAEQLVKEGVEEGDVIYIDA--ETGRVKKLGRS-KARAREDFDLEDTRFVPLPEGE 230 (450)
T ss_pred CHHHHHHHHHhCcccCCEEEEEc--cccEEEEeecc-cccccccccccceEEEECCCCc
Confidence 45556666544332 222222 23466667675 3322 25678899999998765
No 148
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=21.59 E-value=76 Score=21.27 Aligned_cols=16 Identities=31% Similarity=0.789 Sum_probs=13.2
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.++++|.+||.||+.=
T Consensus 58 ~ll~~~~~g~~i~v~g 73 (300)
T COG2813 58 QLLARLPPGGEIVVVG 73 (300)
T ss_pred HHHhhCCCCCeEEEEe
Confidence 5788999999998854
No 149
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=21.48 E-value=78 Score=21.16 Aligned_cols=15 Identities=47% Similarity=0.948 Sum_probs=12.8
Q ss_pred HhHHhcccCCcEEEE
Q psy5588 3 VELIDQLRPGGRLII 17 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~ 17 (61)
+.+...|+|||++++
T Consensus 247 ~~~~~~lkpgg~lIl 261 (300)
T COG2264 247 PDIKRLLKPGGRLIL 261 (300)
T ss_pred HHHHHHcCCCceEEE
Confidence 456788999999998
No 150
>COG4811 Predicted membrane protein [Function unknown]
Probab=21.44 E-value=1.5e+02 Score=17.89 Aligned_cols=25 Identities=28% Similarity=0.397 Sum_probs=17.4
Q ss_pred cccCCcEEEEEeeCCCCceEEEEEEECCC
Q psy5588 8 QLRPGGRLIIPVGPEGSAQSLEQIDKNLD 36 (61)
Q Consensus 8 QL~~gGrLV~pvg~~~~~~~l~~~~r~~~ 36 (61)
-|+++|.||+-... +++....|+.+
T Consensus 115 NLsEdgvLVi~l~~----rRLli~~r~~~ 139 (152)
T COG4811 115 NLSEDGVLVIQLEQ----RRLLIRVRNID 139 (152)
T ss_pred CcCcCcEEEEEecc----ceeEEEecchh
Confidence 37899999998863 46666556533
No 151
>PLN02823 spermine synthase
Probab=21.37 E-value=79 Score=21.20 Aligned_cols=17 Identities=29% Similarity=0.618 Sum_probs=13.2
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
.+.+.|++||.+|+-.+
T Consensus 205 ~~~~~L~p~Gvlv~q~~ 221 (336)
T PLN02823 205 IVKPKLNPGGIFVTQAG 221 (336)
T ss_pred HHHHhcCCCcEEEEecc
Confidence 35668999999987554
No 152
>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=21.26 E-value=48 Score=18.79 Aligned_cols=16 Identities=50% Similarity=0.841 Sum_probs=12.3
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+.+.|+++|++++-.
T Consensus 95 ~~~~~lk~~G~~i~~~ 110 (152)
T PF13847_consen 95 NIIRLLKPGGILIISD 110 (152)
T ss_dssp HHHHHEEEEEEEEEEE
T ss_pred HHHHHcCCCcEEEEEE
Confidence 4667899999988754
No 153
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=21.24 E-value=80 Score=19.60 Aligned_cols=15 Identities=27% Similarity=0.344 Sum_probs=10.6
Q ss_pred HhHHhcccCCcEEEE
Q psy5588 3 VELIDQLRPGGRLII 17 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~ 17 (61)
+.+.+-|+|||++++
T Consensus 139 ~~l~~lL~pgG~~~l 153 (218)
T PRK13255 139 QQLAALLPAGCRGLL 153 (218)
T ss_pred HHHHHHcCCCCeEEE
Confidence 356778999997443
No 154
>PF14315 DUF4380: Domain of unknown function (DUF4380)
Probab=21.24 E-value=64 Score=20.72 Aligned_cols=17 Identities=47% Similarity=1.077 Sum_probs=14.6
Q ss_pred HhcccCCcEEEEEeeCC
Q psy5588 6 IDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 6 ~~QL~~gGrLV~pvg~~ 22 (61)
+.|+++||+.++|+...
T Consensus 147 ~t~~~~gg~~~ip~~~~ 163 (274)
T PF14315_consen 147 VTQVPPGGTVIIPLAPR 163 (274)
T ss_pred eeEEcCCCEEEEecCCC
Confidence 45899999999999875
No 155
>COG0302 FolE GTP cyclohydrolase I [Coenzyme metabolism]
Probab=21.08 E-value=2.2e+02 Score=18.04 Aligned_cols=42 Identities=17% Similarity=0.164 Sum_probs=25.8
Q ss_pred CcHhHHhcccCCcEEEEEeeCCCCceEEEEEEECCCCcEEEEEee
Q psy5588 1 MVVELIDQLRPGGRLIIPVGPEGSAQSLEQIDKNLDGTITRTPLM 45 (61)
Q Consensus 1 iP~~l~~QL~~gGrLV~pvg~~~~~~~l~~~~r~~~g~~~~~~l~ 45 (61)
|.+++.+-|++-|..|+.-+. .....++-.|+ .++...++.+
T Consensus 133 IA~al~~~L~p~GVaVvieA~--HmCm~mRGv~k-~~s~t~Ts~~ 174 (195)
T COG0302 133 IADALQEILKPRGVAVVIEAE--HMCMSMRGVRK-PGSSTVTSAL 174 (195)
T ss_pred HHHHHHHhcCcCceEEEEEEE--EeeehhcCccC-CCceEEEEee
Confidence 346788999999999987764 23334443344 3344554433
No 156
>PRK06274 indolepyruvate oxidoreductase subunit B; Reviewed
Probab=20.93 E-value=88 Score=18.78 Aligned_cols=14 Identities=29% Similarity=0.681 Sum_probs=11.0
Q ss_pred HHhcccCCcEEEEE
Q psy5588 5 LIDQLRPGGRLIIP 18 (61)
Q Consensus 5 l~~QL~~gGrLV~p 18 (61)
.++.|++||.+|+=
T Consensus 82 ~~~~l~~gg~ii~n 95 (197)
T PRK06274 82 NLHFLKKGGKIIVN 95 (197)
T ss_pred HHhhcCCCcEEEEE
Confidence 56789999988753
No 157
>PRK13256 thiopurine S-methyltransferase; Reviewed
Probab=20.57 E-value=85 Score=19.91 Aligned_cols=17 Identities=6% Similarity=0.178 Sum_probs=13.4
Q ss_pred hHHhcccCCcEEEEEee
Q psy5588 4 ELIDQLRPGGRLIIPVG 20 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg 20 (61)
.+.+.|++||++++..-
T Consensus 148 ~l~~lL~pgg~llll~~ 164 (226)
T PRK13256 148 MMLEVCSNNTQILLLVM 164 (226)
T ss_pred HHHHHhCCCcEEEEEEE
Confidence 46677999999998653
No 158
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=20.43 E-value=85 Score=21.60 Aligned_cols=15 Identities=27% Similarity=0.379 Sum_probs=11.9
Q ss_pred HHhcccCCcEEEEEe
Q psy5588 5 LIDQLRPGGRLIIPV 19 (61)
Q Consensus 5 l~~QL~~gGrLV~pv 19 (61)
..+.|++||+||.-.
T Consensus 352 a~~~LkpGG~LvYsT 366 (431)
T PRK14903 352 AWKLLEKGGILLYST 366 (431)
T ss_pred HHHhcCCCCEEEEEE
Confidence 457789999998854
No 159
>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=20.40 E-value=91 Score=18.64 Aligned_cols=16 Identities=31% Similarity=0.594 Sum_probs=12.0
Q ss_pred hHHhcccCCcEEEEEe
Q psy5588 4 ELIDQLRPGGRLIIPV 19 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pv 19 (61)
.+.+.|++||++++-.
T Consensus 134 ~~~~~L~~gG~l~i~~ 149 (224)
T TIGR01983 134 ACAQLLKPGGILFFST 149 (224)
T ss_pred HHHHhcCCCcEEEEEe
Confidence 4557789999988754
No 160
>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=20.34 E-value=73 Score=18.72 Aligned_cols=19 Identities=32% Similarity=0.593 Sum_probs=14.3
Q ss_pred hHHhcccCCcEEEEEeeCC
Q psy5588 4 ELIDQLRPGGRLIIPVGPE 22 (61)
Q Consensus 4 ~l~~QL~~gGrLV~pvg~~ 22 (61)
.+..-|+++|.+++-++..
T Consensus 41 ~~~rvLk~~g~~~i~~~~~ 59 (231)
T PF01555_consen 41 ECYRVLKPGGSIFIFIDDR 59 (231)
T ss_dssp HHHHHEEEEEEEEEEE-CC
T ss_pred HHHhhcCCCeeEEEEecch
Confidence 4567789999999988753
No 161
>PF05195 AMP_N: Aminopeptidase P, N-terminal domain; InterPro: IPR007865 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This N-terminal domain is associated with N-terminal region of aminopeptidase P (X-Pro aminopeptidase I and II, 3.4.11.9 from EC) and related sequences. It is not found associated with methionyl aminopeptidase 1 (IPR002467 from INTERPRO) or methionyl aminopeptidase 2 (IPR002468 from INTERPRO) families. The domain is structurally very similar [] to the creatinase N-terminal domain (IPR000587 from INTERPRO), however, little or no sequence similarity exists between the two domains. The sequences belong to MEROPS peptidase family M24B, clan MG.; GO: 0004177 aminopeptidase activity, 0030145 manganese ion binding; PDB: 3IG4_B 2OKN_A 2IW2_B 1WBQ_A 2BH3_A 1WLR_A 2V3Z_A 1W2M_B 2BWT_A 2BWW_A ....
Probab=20.29 E-value=87 Score=17.92 Aligned_cols=19 Identities=32% Similarity=0.611 Sum_probs=12.8
Q ss_pred HhHHhcccCCcEEEEEeeC
Q psy5588 3 VELIDQLRPGGRLIIPVGP 21 (61)
Q Consensus 3 ~~l~~QL~~gGrLV~pvg~ 21 (61)
+.|+++|.++|.+|++=+.
T Consensus 11 ~~l~~~l~~~~~vil~~~~ 29 (134)
T PF05195_consen 11 KKLAEKLPDNSIVILPGGP 29 (134)
T ss_dssp HHHHHHSHSSEEEEEE---
T ss_pred HHHHHhcCCCcEEEEECCC
Confidence 4578888888888886554
Done!