Query 042267
Match_columns 107
No_of_seqs 131 out of 1049
Neff 9.4
Searched_HMMs 46136
Date Fri Mar 29 04:34:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042267.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042267hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3178 Hydroxyindole-O-methyl 99.9 6E-24 1.3E-28 146.4 9.3 106 2-107 236-342 (342)
2 PF00891 Methyltransf_2: O-met 99.9 1.2E-21 2.7E-26 131.0 6.6 82 2-84 158-241 (241)
3 TIGR02716 C20_methyl_CrtF C-20 99.6 4E-15 8.7E-20 102.7 8.5 90 2-94 215-305 (306)
4 PF05891 Methyltransf_PK: AdoM 99.4 6.5E-13 1.4E-17 87.2 6.1 81 2-96 122-202 (218)
5 TIGR00740 methyltransferase, p 99.2 6.5E-12 1.4E-16 84.0 3.3 100 2-106 122-238 (239)
6 PLN02232 ubiquinone biosynthes 99.2 9.1E-11 2E-15 74.3 7.9 100 2-105 44-158 (160)
7 PLN02233 ubiquinone biosynthes 99.2 2.2E-10 4.8E-15 77.8 10.1 100 2-105 145-259 (261)
8 PTZ00098 phosphoethanolamine N 99.2 3.4E-10 7.4E-15 76.9 9.2 88 2-97 117-204 (263)
9 PF01209 Ubie_methyltran: ubiE 99.1 2E-11 4.3E-16 81.7 1.9 103 2-107 116-233 (233)
10 TIGR01934 MenG_MenH_UbiE ubiqu 99.1 1.3E-09 2.9E-14 71.5 10.4 101 2-107 106-223 (223)
11 PRK00216 ubiE ubiquinone/menaq 99.1 1.4E-09 3.1E-14 72.0 10.0 101 2-107 121-238 (239)
12 PF13489 Methyltransf_23: Meth 99.1 4.4E-10 9.6E-15 70.2 6.6 83 2-92 78-160 (161)
13 PRK15451 tRNA cmo(5)U34 methyl 99.1 8.5E-11 1.8E-15 79.1 2.8 93 2-94 125-229 (247)
14 TIGR02752 MenG_heptapren 2-hep 99.1 2.9E-09 6.3E-14 70.7 9.7 101 2-107 114-231 (231)
15 COG2226 UbiE Methylase involve 99.0 4.1E-09 8.8E-14 70.7 9.8 101 2-107 119-237 (238)
16 PF06080 DUF938: Protein of un 99.0 5E-09 1.1E-13 68.6 9.4 103 2-107 102-204 (204)
17 PLN02490 MPBQ/MSBQ methyltrans 99.0 3.7E-09 8E-14 74.2 9.3 81 2-97 178-258 (340)
18 PRK11873 arsM arsenite S-adeno 99.0 7E-09 1.5E-13 70.5 9.4 85 2-95 146-230 (272)
19 TIGR00452 methyltransferase, p 99.0 4.4E-09 9.6E-14 73.2 8.5 85 2-96 188-274 (314)
20 PRK15068 tRNA mo(5)U34 methylt 98.9 1.7E-08 3.7E-13 70.5 9.6 85 2-96 189-275 (322)
21 PLN02336 phosphoethanolamine N 98.9 1.2E-08 2.7E-13 74.3 9.0 84 2-96 332-415 (475)
22 PLN02244 tocopherol O-methyltr 98.9 2.8E-08 6.1E-13 69.8 9.9 93 2-97 186-280 (340)
23 smart00828 PKS_MT Methyltransf 98.8 4.3E-08 9.2E-13 64.8 7.7 80 2-97 67-146 (224)
24 PRK14103 trans-aconitate 2-met 98.7 6.6E-08 1.4E-12 65.3 7.2 88 2-91 89-180 (255)
25 PLN02396 hexaprenyldihydroxybe 98.7 3.7E-08 7.9E-13 68.9 5.8 86 2-95 198-289 (322)
26 PRK08317 hypothetical protein; 98.7 2.8E-07 6E-12 60.8 8.7 89 2-95 87-176 (241)
27 PRK11207 tellurite resistance 98.6 2.9E-07 6.3E-12 60.1 8.3 74 2-93 95-168 (197)
28 PRK11036 putative S-adenosyl-L 98.6 6.6E-08 1.4E-12 65.3 4.6 92 2-96 112-208 (255)
29 KOG1540 Ubiquinone biosynthesi 98.6 2E-07 4.3E-12 62.9 6.8 85 2-92 177-278 (296)
30 PLN02336 phosphoethanolamine N 98.6 2.6E-07 5.5E-12 67.4 7.6 77 2-92 103-179 (475)
31 TIGR00477 tehB tellurite resis 98.6 6.4E-07 1.4E-11 58.4 8.6 75 2-94 94-168 (195)
32 PF02353 CMAS: Mycolic acid cy 98.5 2.4E-07 5.3E-12 63.4 5.4 92 2-96 127-218 (273)
33 PRK05134 bifunctional 3-demeth 98.5 5.3E-07 1.2E-11 59.9 6.2 88 2-94 114-204 (233)
34 PF08003 Methyltransf_9: Prote 98.4 1.1E-06 2.4E-11 60.8 6.9 85 2-96 182-268 (315)
35 TIGR01983 UbiG ubiquinone bios 98.4 6.7E-07 1.5E-11 59.0 5.6 86 2-95 112-203 (224)
36 PRK12335 tellurite resistance 98.4 2.9E-06 6.2E-11 58.4 8.5 74 2-93 184-257 (287)
37 PF08242 Methyltransf_12: Meth 98.3 4.2E-07 9.1E-12 52.7 2.7 34 2-37 66-99 (99)
38 PRK04266 fibrillarin; Provisio 98.3 5.4E-06 1.2E-10 55.4 8.0 79 3-107 142-225 (226)
39 PF08241 Methyltransf_11: Meth 98.3 5.1E-07 1.1E-11 51.3 2.7 36 2-39 60-95 (95)
40 KOG4300 Predicted methyltransf 98.3 7.7E-06 1.7E-10 53.9 8.3 89 2-97 145-234 (252)
41 smart00138 MeTrc Methyltransfe 98.2 1.6E-06 3.4E-11 59.2 4.2 40 2-41 203-242 (264)
42 COG2230 Cfa Cyclopropane fatty 98.2 5.3E-06 1.1E-10 57.0 6.5 88 2-96 137-224 (283)
43 KOG2361 Predicted methyltransf 98.2 4.7E-06 1E-10 55.9 5.5 87 2-93 144-235 (264)
44 PRK11705 cyclopropane fatty ac 98.2 1.2E-05 2.6E-10 57.6 7.7 86 2-96 228-313 (383)
45 PRK06202 hypothetical protein; 98.1 1.2E-05 2.6E-10 53.6 6.9 85 2-96 129-223 (232)
46 PRK05785 hypothetical protein; 98.1 3.1E-05 6.7E-10 51.7 8.8 101 2-107 110-224 (226)
47 TIGR00537 hemK_rel_arch HemK-r 98.1 3.9E-05 8.4E-10 49.2 8.6 77 2-107 82-177 (179)
48 PF13847 Methyltransf_31: Meth 98.1 1.5E-06 3.4E-11 54.2 1.8 80 2-87 73-152 (152)
49 PRK07580 Mg-protoporphyrin IX 98.1 3.3E-05 7.2E-10 51.0 8.1 85 2-97 127-216 (230)
50 PF04672 Methyltransf_19: S-ad 98.1 4.5E-06 9.7E-11 56.9 3.8 80 5-92 153-233 (267)
51 PRK06922 hypothetical protein; 98.1 8.2E-06 1.8E-10 61.6 5.3 46 2-47 487-543 (677)
52 TIGR02072 BioC biotin biosynth 98.1 3.8E-05 8.2E-10 50.7 7.9 78 2-94 98-175 (240)
53 TIGR03438 probable methyltrans 98.0 1.3E-05 2.9E-10 55.5 5.7 36 4-39 140-175 (301)
54 TIGR02021 BchM-ChlM magnesium 98.0 2.5E-05 5.3E-10 51.6 6.5 88 2-97 119-208 (219)
55 PRK10611 chemotaxis methyltran 98.0 6.7E-06 1.5E-10 56.8 3.8 40 2-41 223-262 (287)
56 COG2227 UbiG 2-polyprenyl-3-me 98.0 5.4E-06 1.2E-10 55.6 2.8 87 2-96 124-216 (243)
57 PF12147 Methyltransf_20: Puta 98.0 9.2E-05 2E-09 51.1 8.7 96 2-107 209-311 (311)
58 PF12847 Methyltransf_18: Meth 98.0 1.3E-05 2.8E-10 47.2 3.9 40 2-41 70-111 (112)
59 PRK01683 trans-aconitate 2-met 97.9 5.8E-05 1.3E-09 50.9 7.0 84 2-90 93-182 (258)
60 PF05219 DREV: DREV methyltran 97.9 7.9E-05 1.7E-09 50.6 7.4 84 2-97 151-242 (265)
61 PLN02585 magnesium protoporphy 97.9 3.7E-05 7.9E-10 53.8 5.9 81 2-94 212-298 (315)
62 PLN03075 nicotianamine synthas 97.9 1.5E-05 3.3E-10 55.2 3.9 37 2-39 195-231 (296)
63 PF01739 CheR: CheR methyltran 97.9 1.2E-05 2.5E-10 52.7 3.1 40 2-41 136-175 (196)
64 PF05401 NodS: Nodulation prot 97.9 1.8E-05 4E-10 51.7 3.6 74 2-96 106-180 (201)
65 PRK10258 biotin biosynthesis p 97.8 9.9E-05 2.2E-09 49.6 7.0 80 2-90 103-182 (251)
66 PF13649 Methyltransf_25: Meth 97.7 2.8E-05 6E-10 45.3 2.6 34 2-35 67-101 (101)
67 PTZ00146 fibrillarin; Provisio 97.7 0.0007 1.5E-08 47.0 9.7 79 3-105 203-284 (293)
68 PF11968 DUF3321: Putative met 97.7 0.00029 6.3E-09 46.7 7.3 73 2-96 104-182 (219)
69 PF03848 TehB: Tellurite resis 97.6 0.00013 2.7E-09 47.7 4.8 74 2-93 94-167 (192)
70 PRK13255 thiopurine S-methyltr 97.5 0.0014 2.9E-08 43.7 8.6 73 2-94 116-189 (218)
71 PF06859 Bin3: Bicoid-interact 97.5 4.3E-05 9.4E-10 45.4 1.2 87 2-96 1-93 (110)
72 KOG1270 Methyltransferases [Co 97.5 0.00021 4.5E-09 48.7 4.4 86 2-94 158-248 (282)
73 TIGR02081 metW methionine bios 97.4 0.00059 1.3E-08 44.3 6.0 85 2-96 75-168 (194)
74 COG1352 CheR Methylase of chem 97.4 0.00027 5.8E-09 48.5 4.2 40 2-41 202-241 (268)
75 TIGR03840 TMPT_Se_Te thiopurin 97.4 0.00059 1.3E-08 45.2 5.7 72 2-93 113-185 (213)
76 PF05148 Methyltransf_8: Hypot 97.3 0.00081 1.8E-08 44.5 5.8 76 2-107 122-197 (219)
77 KOG3045 Predicted RNA methylas 97.3 0.0019 4.2E-08 44.2 7.5 76 2-107 228-303 (325)
78 PRK00517 prmA ribosomal protei 97.3 0.0046 1E-07 41.8 9.2 69 2-104 179-247 (250)
79 PF01234 NNMT_PNMT_TEMT: NNMT/ 97.1 0.00059 1.3E-08 46.5 3.5 80 2-95 158-239 (256)
80 PF07942 N2227: N2227-like pro 97.1 0.0039 8.5E-08 42.8 7.5 78 2-95 165-242 (270)
81 TIGR03587 Pse_Me-ase pseudamin 97.1 0.0018 3.8E-08 42.6 5.5 43 2-46 105-147 (204)
82 cd02440 AdoMet_MTases S-adenos 97.1 0.0017 3.7E-08 36.4 4.9 38 2-40 66-103 (107)
83 PRK14968 putative methyltransf 97.1 0.016 3.5E-07 36.8 9.8 59 20-107 127-188 (188)
84 COG4627 Uncharacterized protei 97.0 0.00071 1.5E-08 42.9 3.1 40 2-41 47-86 (185)
85 COG4798 Predicted methyltransf 97.0 0.0028 6.1E-08 41.7 5.8 79 3-96 123-206 (238)
86 PF05724 TPMT: Thiopurine S-me 97.0 0.0029 6.3E-08 42.1 6.0 73 2-94 116-189 (218)
87 PRK08287 cobalt-precorrin-6Y C 97.0 0.0034 7.5E-08 40.4 6.1 58 2-93 97-154 (187)
88 TIGR00138 gidB 16S rRNA methyl 96.9 0.0059 1.3E-07 39.4 6.8 33 2-40 109-141 (181)
89 PRK13256 thiopurine S-methyltr 96.9 0.0044 9.5E-08 41.6 5.9 44 2-45 124-167 (226)
90 PRK09489 rsmC 16S ribosomal RN 96.8 0.0032 6.8E-08 44.7 4.9 41 2-42 261-304 (342)
91 PRK15001 SAM-dependent 23S rib 96.7 0.0046 1E-07 44.4 5.4 40 2-41 298-340 (378)
92 TIGR03534 RF_mod_PrmC protein- 96.7 0.011 2.3E-07 39.5 6.8 46 21-96 197-242 (251)
93 PF03291 Pox_MCEL: mRNA cappin 96.7 0.0022 4.7E-08 45.3 3.4 41 2-42 145-187 (331)
94 KOG2899 Predicted methyltransf 96.6 0.0044 9.6E-08 42.1 4.4 82 2-92 166-254 (288)
95 TIGR02469 CbiT precorrin-6Y C5 96.4 0.0046 1E-07 36.6 3.2 34 2-40 88-121 (124)
96 PRK09328 N5-glutamine S-adenos 96.1 0.085 1.8E-06 35.7 8.6 57 20-106 217-274 (275)
97 PRK11188 rrmJ 23S rRNA methylt 96.0 0.02 4.4E-07 37.7 5.1 42 2-43 117-167 (209)
98 COG4976 Predicted methyltransf 95.9 0.025 5.4E-07 38.3 5.0 78 2-96 188-266 (287)
99 PF05175 MTS: Methyltransferas 95.9 0.014 3E-07 37.2 3.8 40 2-41 98-140 (170)
100 TIGR03439 methyl_EasF probable 95.7 0.025 5.4E-07 39.9 4.8 39 5-43 160-200 (319)
101 KOG1975 mRNA cap methyltransfe 95.7 0.018 3.9E-07 40.7 3.8 38 2-39 196-235 (389)
102 KOG2798 Putative trehalase [Ca 95.6 0.079 1.7E-06 37.4 6.8 79 2-95 259-337 (369)
103 PRK00107 gidB 16S rRNA methylt 95.5 0.027 5.8E-07 36.7 4.0 34 2-41 112-145 (187)
104 PRK00121 trmB tRNA (guanine-N( 95.5 0.024 5.2E-07 37.1 3.7 40 2-41 111-156 (202)
105 TIGR00417 speE spermidine synt 95.0 0.046 9.9E-07 37.4 4.0 39 2-40 145-185 (270)
106 PF07021 MetW: Methionine bios 94.7 0.38 8.2E-06 31.6 7.6 85 2-97 75-169 (193)
107 PF13659 Methyltransf_26: Meth 94.5 0.052 1.1E-06 31.8 3.1 40 2-41 70-115 (117)
108 TIGR00438 rrmJ cell division p 94.4 0.051 1.1E-06 35.0 3.1 39 2-40 98-145 (188)
109 PRK13944 protein-L-isoaspartat 94.4 0.053 1.2E-06 35.5 3.1 31 2-40 142-172 (205)
110 PRK00377 cbiT cobalt-precorrin 94.3 0.081 1.8E-06 34.4 3.9 33 2-39 111-143 (198)
111 PF11899 DUF3419: Protein of u 94.3 0.1 2.3E-06 37.6 4.7 43 2-44 295-337 (380)
112 TIGR00027 mthyl_TIGR00027 meth 94.2 0.33 7.2E-06 33.2 6.9 86 5-93 161-248 (260)
113 TIGR00406 prmA ribosomal prote 94.2 0.13 2.8E-06 35.5 5.0 36 2-42 225-260 (288)
114 KOG1331 Predicted methyltransf 94.2 0.046 9.9E-07 37.9 2.6 39 2-40 103-142 (293)
115 PRK00811 spermidine synthase; 94.2 0.13 2.9E-06 35.5 4.9 39 2-40 150-190 (283)
116 TIGR00563 rsmB ribosomal RNA s 94.0 0.13 2.9E-06 37.4 4.9 44 2-45 309-372 (426)
117 COG4106 Tam Trans-aconitate me 93.9 0.057 1.2E-06 36.3 2.5 98 2-105 92-201 (257)
118 COG2813 RsmC 16S RNA G1207 met 93.8 0.14 3.1E-06 35.8 4.4 41 2-42 224-267 (300)
119 PRK13942 protein-L-isoaspartat 93.7 0.083 1.8E-06 34.9 3.1 31 2-40 145-175 (212)
120 PRK04457 spermidine synthase; 93.7 0.13 2.7E-06 35.2 4.0 38 2-40 136-176 (262)
121 PRK14967 putative methyltransf 93.5 0.26 5.6E-06 32.6 5.1 24 20-43 138-161 (223)
122 KOG3987 Uncharacterized conser 93.0 0.12 2.6E-06 34.7 2.9 84 2-96 169-261 (288)
123 PF10294 Methyltransf_16: Puta 92.9 0.19 4.2E-06 32.1 3.8 41 2-44 119-159 (173)
124 cd01842 SGNH_hydrolase_like_5 92.9 0.26 5.7E-06 32.0 4.3 40 2-41 50-99 (183)
125 COG3315 O-Methyltransferase in 92.9 0.55 1.2E-05 32.8 6.2 87 5-93 173-262 (297)
126 KOG3010 Methyltransferase [Gen 92.7 0.13 2.8E-06 35.0 2.8 39 2-43 100-139 (261)
127 PLN02366 spermidine synthase 92.4 0.3 6.6E-06 34.3 4.5 39 2-40 165-205 (308)
128 PRK00312 pcm protein-L-isoaspa 92.3 0.21 4.6E-06 32.7 3.5 32 2-41 144-175 (212)
129 TIGR00080 pimt protein-L-isoas 92.3 0.2 4.3E-06 33.0 3.3 31 2-40 146-176 (215)
130 PRK11088 rrmA 23S rRNA methylt 92.3 0.16 3.5E-06 34.7 3.0 31 2-41 151-181 (272)
131 PHA03411 putative methyltransf 92.0 0.82 1.8E-05 31.8 6.1 66 2-90 126-209 (279)
132 TIGR00091 tRNA (guanine-N(7)-) 91.7 0.34 7.5E-06 31.4 3.9 21 21-41 112-132 (194)
133 PRK01581 speE spermidine synth 91.5 0.45 9.7E-06 34.3 4.6 39 2-40 226-267 (374)
134 COG3963 Phospholipid N-methylt 91.4 0.91 2E-05 29.5 5.4 43 1-43 116-158 (194)
135 COG0500 SmtA SAM-dependent met 91.1 0.72 1.6E-05 26.9 4.7 41 2-45 119-159 (257)
136 PF09243 Rsm22: Mitochondrial 91.1 0.41 8.9E-06 33.0 4.0 42 2-45 102-143 (274)
137 PRK03612 spermidine synthase; 90.6 0.52 1.1E-05 35.4 4.4 39 2-40 373-414 (521)
138 PRK14904 16S rRNA methyltransf 90.6 0.57 1.2E-05 34.4 4.5 25 21-45 357-381 (445)
139 PRK14901 16S rRNA methyltransf 90.5 0.65 1.4E-05 34.0 4.8 24 21-44 364-387 (434)
140 PLN02781 Probable caffeoyl-CoA 90.4 0.83 1.8E-05 30.7 4.9 36 2-43 144-179 (234)
141 COG4123 Predicted O-methyltran 90.3 4.3 9.4E-05 27.8 8.4 58 20-107 149-212 (248)
142 TIGR00446 nop2p NOL1/NOP2/sun 90.2 0.76 1.6E-05 31.4 4.6 24 21-44 179-202 (264)
143 TIGR01177 conserved hypothetic 89.9 0.79 1.7E-05 32.3 4.6 22 20-41 273-294 (329)
144 COG4301 Uncharacterized conser 89.6 0.94 2E-05 31.3 4.6 40 5-44 157-197 (321)
145 KOG2539 Mitochondrial/chloropl 89.6 0.7 1.5E-05 34.3 4.2 42 2-43 274-317 (491)
146 COG2519 GCD14 tRNA(1-methylade 89.5 0.58 1.3E-05 32.0 3.6 30 13-44 169-198 (256)
147 PF06325 PrmA: Ribosomal prote 89.4 2.1 4.5E-05 30.0 6.3 69 2-105 225-293 (295)
148 PF03059 NAS: Nicotianamine sy 88.9 0.76 1.7E-05 31.9 3.8 37 2-39 192-228 (276)
149 TIGR00006 S-adenosyl-methyltra 88.4 0.76 1.6E-05 32.3 3.6 29 19-47 218-246 (305)
150 PRK10901 16S rRNA methyltransf 88.4 1.2 2.6E-05 32.5 4.8 24 21-44 352-375 (427)
151 PF08123 DOT1: Histone methyla 88.1 0.96 2.1E-05 29.9 3.8 43 2-47 122-164 (205)
152 PRK11805 N5-glutamine S-adenos 88.0 1.2 2.7E-05 31.1 4.5 20 20-39 242-261 (307)
153 TIGR03533 L3_gln_methyl protei 87.7 1.2 2.6E-05 30.8 4.3 20 20-39 230-249 (284)
154 PF03269 DUF268: Caenorhabditi 87.7 2.5 5.5E-05 27.2 5.3 25 21-45 91-115 (177)
155 COG0275 Predicted S-adenosylme 87.6 0.64 1.4E-05 32.7 2.8 30 18-47 221-250 (314)
156 PRK07402 precorrin-6B methylas 87.4 0.9 1.9E-05 29.4 3.4 24 19-42 120-143 (196)
157 COG5459 Predicted rRNA methyla 87.1 0.87 1.9E-05 33.0 3.3 43 3-45 186-229 (484)
158 PRK14903 16S rRNA methyltransf 86.9 1.4 3.1E-05 32.3 4.5 24 21-44 346-369 (431)
159 PRK00050 16S rRNA m(4)C1402 me 86.9 1.1 2.3E-05 31.4 3.6 30 18-47 213-242 (296)
160 TIGR00536 hemK_fam HemK family 86.9 1.7 3.8E-05 29.9 4.7 21 19-39 222-242 (284)
161 PRK00536 speE spermidine synth 85.7 1.5 3.2E-05 30.2 3.8 32 2-40 139-170 (262)
162 PF10354 DUF2431: Domain of un 85.7 5.9 0.00013 25.3 6.3 50 20-96 104-153 (166)
163 PF08845 SymE_toxin: Toxin Sym 84.7 0.84 1.8E-05 24.0 1.8 17 80-96 30-46 (57)
164 PF10017 Methyltransf_33: Hist 84.3 2.8 6.1E-05 25.5 4.3 31 72-102 94-125 (127)
165 KOG1269 SAM-dependent methyltr 83.9 1 2.3E-05 32.4 2.5 42 2-45 178-219 (364)
166 PRK14121 tRNA (guanine-N(7)-)- 83.5 2.7 5.8E-05 30.7 4.4 21 21-41 215-235 (390)
167 COG2521 Predicted archaeal met 83.2 4.7 0.0001 27.7 5.2 55 20-96 224-278 (287)
168 PF01564 Spermine_synth: Sperm 83.0 1.4 3E-05 29.9 2.7 40 2-41 150-191 (246)
169 PF01795 Methyltransf_5: MraW 82.7 0.95 2.1E-05 31.9 1.9 27 18-44 218-244 (310)
170 KOG2940 Predicted methyltransf 82.4 0.42 9E-06 32.7 0.1 83 2-93 137-225 (325)
171 COG2264 PrmA Ribosomal protein 81.8 12 0.00025 26.5 6.9 67 2-102 229-295 (300)
172 PF08468 MTS_N: Methyltransfer 81.5 5 0.00011 25.4 4.7 30 14-43 76-107 (155)
173 COG2518 Pcm Protein-L-isoaspar 81.5 2.5 5.4E-05 28.2 3.4 33 2-42 138-170 (209)
174 PF03141 Methyltransf_29: Puta 80.5 1.4 3.1E-05 33.0 2.3 41 2-42 427-468 (506)
175 COG4122 Predicted O-methyltran 80.5 5.6 0.00012 26.7 4.9 38 2-45 132-169 (219)
176 COG2242 CobL Precorrin-6B meth 79.0 3.1 6.7E-05 27.3 3.2 32 3-40 103-134 (187)
177 PRK13943 protein-L-isoaspartat 78.5 2.1 4.6E-05 30.3 2.5 32 2-41 149-180 (322)
178 PF01135 PCMT: Protein-L-isoas 78.3 1.8 4E-05 28.7 2.1 31 2-40 141-171 (209)
179 KOG1271 Methyltransferases [Ge 78.3 6.4 0.00014 26.1 4.4 66 2-97 136-207 (227)
180 PRK14966 unknown domain/N5-glu 78.3 19 0.0004 26.7 7.3 56 20-105 360-416 (423)
181 PLN02823 spermine synthase 78.1 4.3 9.4E-05 28.9 4.0 37 2-39 176-218 (336)
182 TIGR02764 spore_ybaN_pdaB poly 77.6 5.7 0.00012 25.5 4.2 39 3-41 121-159 (191)
183 PF07109 Mg-por_mtran_C: Magne 77.1 12 0.00027 21.9 7.3 76 10-97 3-84 (97)
184 COG0503 Apt Adenine/guanine ph 76.1 9.3 0.0002 24.7 4.8 44 26-95 108-151 (179)
185 KOG1661 Protein-L-isoaspartate 76.1 2.2 4.8E-05 28.7 1.9 20 20-39 172-191 (237)
186 PRK11524 putative methyltransf 75.6 4.1 8.8E-05 28.1 3.2 20 21-40 60-79 (284)
187 PF13578 Methyltransf_24: Meth 74.6 2.5 5.5E-05 24.3 1.8 24 18-41 82-105 (106)
188 PRK09489 rsmC 16S ribosomal RN 74.5 9.2 0.0002 27.3 4.9 32 13-44 82-115 (342)
189 PF03141 Methyltransf_29: Puta 74.4 1 2.2E-05 33.8 0.0 43 2-45 181-223 (506)
190 COG4353 Uncharacterized conser 73.9 5.9 0.00013 25.4 3.3 60 20-96 72-131 (192)
191 PRK14902 16S rRNA methyltransf 73.7 4.6 0.0001 29.7 3.3 24 21-44 359-382 (444)
192 PF01555 N6_N4_Mtase: DNA meth 73.6 2.2 4.8E-05 27.6 1.5 21 20-40 35-55 (231)
193 KOG2352 Predicted spermine/spe 72.3 8.9 0.00019 28.8 4.4 47 2-48 114-170 (482)
194 PRK11933 yebU rRNA (cytosine-C 72.1 4.1 8.8E-05 30.5 2.7 23 21-43 222-244 (470)
195 PF08704 GCD14: tRNA methyltra 72.0 2.2 4.7E-05 29.2 1.2 28 14-43 120-148 (247)
196 TIGR03704 PrmC_rel_meth putati 70.9 7.5 0.00016 26.4 3.6 21 20-40 195-215 (251)
197 KOG3201 Uncharacterized conser 70.8 8.9 0.00019 24.9 3.6 38 2-41 103-140 (201)
198 PRK13699 putative methylase; P 70.2 6.5 0.00014 26.3 3.1 20 20-39 51-70 (227)
199 PF01596 Methyltransf_3: O-met 69.9 6.5 0.00014 26.0 3.0 37 2-43 121-157 (205)
200 KOG2198 tRNA cytosine-5-methyl 69.9 4.8 0.0001 29.2 2.5 26 20-45 275-300 (375)
201 COG2813 RsmC 16S RNA G1207 met 68.7 15 0.00033 25.9 4.7 38 3-43 38-75 (300)
202 PF11312 DUF3115: Protein of u 67.7 8.8 0.00019 27.2 3.4 28 16-43 217-244 (315)
203 PF07927 YcfA: YcfA-like prote 67.3 5.6 0.00012 20.2 1.9 17 77-93 2-18 (56)
204 cd01093 CRIB_PAK_like PAK (p21 65.8 4.4 9.5E-05 20.2 1.3 17 76-92 28-44 (46)
205 PF08002 DUF1697: Protein of u 64.6 9 0.00019 23.6 2.8 26 70-95 14-40 (137)
206 COG0144 Sun tRNA and rRNA cyto 64.0 10 0.00023 27.2 3.3 26 20-45 267-292 (355)
207 TIGR02873 spore_ylxY probable 63.9 15 0.00031 25.4 3.9 30 12-41 209-238 (268)
208 PF13592 HTH_33: Winged helix- 63.4 8 0.00017 20.1 2.1 27 70-96 18-44 (60)
209 TIGR03439 methyl_EasF probable 62.5 16 0.00035 25.9 4.0 31 72-102 286-317 (319)
210 PF06962 rRNA_methylase: Putat 61.3 6.8 0.00015 24.4 1.8 24 20-43 71-94 (140)
211 COG2326 Uncharacterized conser 61.3 11 0.00024 26.1 2.9 65 20-94 117-184 (270)
212 PF06283 ThuA: Trehalose utili 60.8 23 0.0005 23.2 4.4 36 2-41 52-88 (217)
213 TIGR03709 PPK2_rel_1 polyphosp 60.0 11 0.00024 26.1 2.8 68 20-94 99-166 (264)
214 PF07090 DUF1355: Protein of u 59.8 12 0.00025 24.3 2.7 37 2-41 67-108 (177)
215 COG3897 Predicted methyltransf 59.4 26 0.00056 23.5 4.3 41 2-45 142-183 (218)
216 PF02390 Methyltransf_4: Putat 59.1 5.9 0.00013 25.9 1.3 21 21-41 113-133 (195)
217 PF06557 DUF1122: Protein of u 58.1 12 0.00025 24.1 2.4 60 20-96 65-124 (170)
218 PF05772 NinB: NinB protein; 58.0 26 0.00057 21.5 3.9 34 61-96 49-87 (127)
219 TIGR03707 PPK2_P_aer polyphosp 57.5 21 0.00045 24.2 3.7 70 18-94 72-141 (230)
220 PF02636 Methyltransf_28: Puta 57.4 18 0.00039 24.4 3.4 27 19-45 172-198 (252)
221 COG0541 Ffh Signal recognition 56.4 29 0.00063 25.9 4.5 45 2-46 182-226 (451)
222 PF00919 UPF0004: Uncharacteri 56.3 38 0.00081 19.6 4.4 44 2-45 36-80 (98)
223 COG0220 Predicted S-adenosylme 56.3 15 0.00033 24.7 2.9 21 21-41 144-164 (227)
224 PF14740 DUF4471: Domain of un 56.0 12 0.00026 26.3 2.4 60 3-92 223-286 (289)
225 PF05430 Methyltransf_30: S-ad 55.8 30 0.00065 21.0 3.9 30 77-106 93-122 (124)
226 PF13319 DUF4090: Protein of u 54.9 16 0.00036 20.4 2.4 25 70-94 55-79 (84)
227 PF01206 TusA: Sulfurtransfera 54.5 30 0.00066 18.2 3.5 28 76-103 40-67 (70)
228 TIGR00478 tly hemolysin TlyA f 54.4 64 0.0014 21.7 5.9 57 22-95 153-217 (228)
229 PF15585 Imm46: Immunity prote 54.1 35 0.00077 21.0 4.0 38 5-43 52-94 (129)
230 PRK06852 aldolase; Validated 53.9 14 0.0003 26.1 2.5 28 13-40 9-36 (304)
231 COG0421 SpeE Spermidine syntha 53.5 19 0.0004 25.2 3.1 20 21-40 170-189 (282)
232 PRK11783 rlmL 23S rRNA m(2)G24 53.4 20 0.00043 28.2 3.5 21 20-40 635-655 (702)
233 PF10006 DUF2249: Uncharacteri 52.4 35 0.00076 18.1 3.7 28 16-43 8-35 (69)
234 PRK08558 adenine phosphoribosy 52.3 16 0.00034 24.8 2.5 58 29-95 171-236 (238)
235 PF03574 Peptidase_S48: Peptid 52.1 14 0.00031 22.6 2.0 27 11-37 13-39 (149)
236 PRK13605 endoribonuclease SymE 51.8 19 0.00042 21.6 2.5 15 80-94 44-58 (113)
237 PRK01544 bifunctional N5-gluta 51.4 17 0.00037 27.4 2.8 20 20-39 248-267 (506)
238 PLN02476 O-methyltransferase 50.5 38 0.00082 23.6 4.2 36 3-44 195-230 (278)
239 TIGR00959 ffh signal recogniti 49.6 43 0.00092 24.9 4.5 43 2-44 182-224 (428)
240 smart00874 B5 tRNA synthetase 49.3 23 0.0005 18.7 2.5 21 71-91 16-36 (71)
241 PRK09213 pur operon repressor; 49.2 54 0.0012 22.8 4.8 19 29-47 191-209 (271)
242 PF01316 Arg_repressor: Argini 49.1 19 0.00041 19.6 2.1 22 70-91 16-37 (70)
243 PRK10858 nitrogen regulatory p 49.1 40 0.00088 20.1 3.7 28 15-42 65-96 (112)
244 PF03484 B5: tRNA synthetase B 48.8 20 0.00044 19.2 2.2 23 71-93 16-38 (70)
245 PF03698 UPF0180: Uncharacteri 47.6 18 0.00038 20.4 1.8 23 73-95 7-29 (80)
246 PHA03412 putative methyltransf 47.6 61 0.0013 22.2 4.7 16 75-90 182-197 (241)
247 PF15603 Imm45: Immunity prote 47.5 52 0.0011 18.6 4.4 39 3-41 35-82 (82)
248 KOG0780 Signal recognition par 47.2 55 0.0012 24.5 4.6 44 2-45 183-226 (483)
249 COG5379 BtaA S-adenosylmethion 47.2 42 0.00092 24.1 4.0 39 2-40 327-365 (414)
250 PF01189 Nol1_Nop2_Fmu: NOL1/N 46.6 8.9 0.00019 26.6 0.7 25 20-44 194-222 (283)
251 TIGR02884 spore_pdaA delta-lac 45.4 45 0.00099 22.1 3.9 30 12-41 162-194 (224)
252 PF08351 DUF1726: Domain of un 45.0 35 0.00076 19.5 2.9 36 3-43 12-47 (92)
253 PF14814 UB2H: Bifunctional tr 44.8 19 0.0004 20.2 1.7 29 70-98 3-31 (85)
254 PRK04280 arginine repressor; P 44.8 22 0.00048 22.3 2.2 23 70-92 15-37 (148)
255 TIGR01743 purR_Bsub pur operon 44.5 59 0.0013 22.6 4.4 19 29-47 189-207 (268)
256 PF00107 ADH_zinc_N: Zinc-bind 44.5 15 0.00032 21.6 1.3 24 21-44 69-92 (130)
257 PF00072 Response_reg: Respons 44.2 57 0.0012 18.1 4.6 36 2-41 43-78 (112)
258 PLN02589 caffeoyl-CoA O-methyl 43.4 41 0.00088 23.0 3.4 37 2-44 156-192 (247)
259 TIGR03708 poly_P_AMP_trns poly 43.3 24 0.00053 26.7 2.5 69 19-94 82-150 (493)
260 PF01250 Ribosomal_S6: Ribosom 43.2 60 0.0013 18.2 3.9 39 3-43 3-42 (92)
261 PRK10867 signal recognition pa 42.9 65 0.0014 24.0 4.6 43 2-44 183-225 (433)
262 cd03423 SirA SirA (also known 42.7 53 0.0012 17.4 3.9 28 76-103 39-66 (69)
263 COG2240 PdxK Pyridoxal/pyridox 42.7 46 0.001 23.3 3.6 42 2-48 73-117 (281)
264 PF00543 P-II: Nitrogen regula 42.7 32 0.00069 19.8 2.5 28 15-42 62-93 (102)
265 PF06968 BATS: Biotin and Thia 42.6 26 0.00057 19.9 2.1 17 73-89 76-92 (93)
266 PRK10665 nitrogen regulatory p 42.1 60 0.0013 19.3 3.7 28 15-42 65-96 (112)
267 cd03413 CbiK_C Anaerobic cobal 41.9 30 0.00064 20.2 2.3 18 76-93 81-98 (103)
268 COG1438 ArgR Arginine represso 41.7 25 0.00053 22.3 2.0 22 70-91 17-38 (150)
269 PF02527 GidB: rRNA small subu 41.6 26 0.00057 22.7 2.2 34 2-41 115-148 (184)
270 COG4273 Uncharacterized conser 41.6 63 0.0014 20.0 3.7 22 14-35 110-131 (135)
271 PRK09219 xanthine phosphoribos 41.5 86 0.0019 20.5 4.6 59 29-96 112-178 (189)
272 COG0217 Uncharacterized conser 41.5 59 0.0013 22.3 3.9 21 74-94 147-167 (241)
273 PF06897 DUF1269: Protein of u 41.3 48 0.001 19.4 3.1 21 22-42 43-63 (102)
274 COG5440 Uncharacterized conser 40.3 37 0.00079 21.6 2.6 22 75-96 6-27 (161)
275 COG1060 ThiH Thiamine biosynth 40.1 45 0.00098 24.3 3.4 26 71-96 334-359 (370)
276 TIGR01744 XPRTase xanthine pho 39.8 1.1E+02 0.0023 20.0 4.9 59 29-96 112-178 (191)
277 cd03142 GATase1_ThuA Type 1 gl 39.7 69 0.0015 21.4 4.0 37 2-42 58-96 (215)
278 PF00017 SH2: SH2 domain; Int 39.0 40 0.00086 18.0 2.4 27 12-42 3-29 (77)
279 PRK03094 hypothetical protein; 39.0 33 0.00071 19.4 2.0 24 72-95 6-29 (80)
280 PRK10556 hypothetical protein; 38.9 40 0.00086 19.8 2.4 20 76-95 5-24 (111)
281 KOG3924 Putative protein methy 38.7 66 0.0014 23.8 4.0 42 2-46 272-313 (419)
282 COG4822 CbiK Cobalamin biosynt 38.7 39 0.00084 23.0 2.7 18 74-91 216-233 (265)
283 PRK13510 sulfur transfer compl 38.7 34 0.00075 19.7 2.2 31 12-42 2-32 (95)
284 TIGR00064 ftsY signal recognit 38.5 85 0.0018 21.6 4.5 42 2-43 154-201 (272)
285 PRK11727 23S rRNA mA1618 methy 38.5 48 0.001 23.6 3.3 86 2-96 189-293 (321)
286 PF05763 DUF835: Protein of un 38.2 63 0.0014 19.9 3.5 40 4-43 42-84 (136)
287 cd03143 A4_beta-galactosidase_ 38.1 43 0.00093 20.5 2.8 33 2-39 53-85 (154)
288 smart00115 CASc Caspase, inter 38.0 91 0.002 21.0 4.5 23 70-92 26-48 (241)
289 PF07862 Nif11: Nitrogen fixat 37.9 43 0.00093 16.5 2.3 18 74-91 27-44 (49)
290 PF10281 Ish1: Putative stress 37.9 45 0.00096 15.6 2.2 18 74-91 4-21 (38)
291 KOG2918 Carboxymethyl transfer 37.8 1.5E+02 0.0034 21.3 5.9 80 5-96 191-278 (335)
292 PRK06132 hypothetical protein; 37.8 38 0.00083 24.6 2.7 24 21-44 321-344 (359)
293 COG4421 Capsular polysaccharid 37.8 27 0.00058 25.2 1.9 22 74-95 241-262 (368)
294 PRK11018 hypothetical protein; 37.4 73 0.0016 17.4 3.9 27 76-102 48-74 (78)
295 COG3288 PntA NAD/NADP transhyd 37.4 60 0.0013 23.4 3.5 35 2-38 244-278 (356)
296 cd03421 SirA_like_N SirA_like_ 37.2 65 0.0014 16.8 4.3 22 76-98 38-59 (67)
297 PF11305 DUF3107: Protein of u 36.7 51 0.0011 18.3 2.6 25 17-41 19-44 (74)
298 TIGR03708 poly_P_AMP_trns poly 36.7 45 0.00097 25.3 3.0 70 18-94 340-409 (493)
299 TIGR01033 DNA-binding regulato 36.1 71 0.0015 21.8 3.7 14 32-45 91-104 (238)
300 PF07647 SAM_2: SAM domain (St 36.1 43 0.00093 17.3 2.2 18 74-91 4-21 (66)
301 COG1092 Predicted SAM-dependen 35.6 47 0.001 24.4 3.0 26 18-43 313-338 (393)
302 PRK13810 orotate phosphoribosy 35.6 1.3E+02 0.0027 19.6 4.9 21 28-48 116-136 (187)
303 PF14258 DUF4350: Domain of un 35.5 71 0.0015 16.7 4.2 11 33-43 34-44 (70)
304 PF10087 DUF2325: Uncharacteri 35.5 41 0.00088 19.1 2.2 24 70-93 6-29 (97)
305 PRK05066 arginine repressor; P 35.2 31 0.00067 21.9 1.8 20 70-89 20-39 (156)
306 cd00291 SirA_YedF_YeeD SirA, Y 34.6 71 0.0015 16.5 3.9 24 76-99 39-62 (69)
307 cd03422 YedF YedF is a bacteri 34.6 76 0.0016 16.8 3.9 25 76-100 39-63 (69)
308 PRK13587 1-(5-phosphoribosyl)- 34.6 63 0.0014 21.7 3.3 21 70-91 198-218 (234)
309 KOG1709 Guanidinoacetate methy 34.3 47 0.001 22.8 2.6 25 18-42 183-207 (271)
310 COG3053 CitC Citrate lyase syn 34.2 50 0.0011 23.6 2.7 31 72-104 94-124 (352)
311 PF12646 DUF3783: Domain of un 34.2 54 0.0012 16.9 2.4 20 11-30 5-24 (58)
312 COG4004 Uncharacterized protei 34.0 99 0.0021 17.9 4.4 38 70-107 8-49 (96)
313 PF01436 NHL: NHL repeat; Int 33.7 27 0.00058 15.0 1.0 11 32-42 10-20 (28)
314 PF09572 RE_XamI: XamI restric 33.7 50 0.0011 22.7 2.6 73 17-92 64-142 (251)
315 COG3870 Uncharacterized protei 33.6 75 0.0016 18.8 3.0 26 75-100 12-37 (109)
316 PF03976 PPK2: Polyphosphate k 33.4 18 0.00039 24.4 0.5 68 20-94 74-141 (228)
317 TIGR00166 S6 ribosomal protein 33.3 94 0.002 17.5 4.4 39 2-43 2-41 (93)
318 PRK01544 bifunctional N5-gluta 33.2 58 0.0012 24.7 3.2 21 20-40 441-461 (506)
319 PF01870 Hjc: Archaeal hollida 33.1 31 0.00066 19.7 1.4 18 76-93 3-20 (88)
320 PRK14974 cell division protein 33.1 1.2E+02 0.0025 21.8 4.5 42 3-44 223-264 (336)
321 cd00032 CASc Caspase, interleu 32.7 1.2E+02 0.0025 20.4 4.3 22 71-92 29-50 (243)
322 PRK09662 GspL-like protein; Pr 32.7 42 0.00091 23.6 2.2 20 77-96 8-27 (286)
323 cd08283 FDH_like_1 Glutathione 32.5 58 0.0013 23.2 3.0 22 21-42 286-307 (386)
324 PF10672 Methyltrans_SAM: S-ad 32.5 27 0.00059 24.4 1.3 23 19-41 216-238 (286)
325 COG1245 Predicted ATPase, RNas 32.5 1.2E+02 0.0026 23.3 4.6 41 2-42 231-271 (591)
326 PF09400 DUF2002: Protein of u 32.2 51 0.0011 19.6 2.2 20 76-95 5-24 (111)
327 COG1724 Predicted RNA binding 31.9 71 0.0015 17.3 2.5 21 74-94 7-27 (66)
328 PF15072 DUF4539: Domain of un 31.7 45 0.00097 19.0 1.9 23 21-43 38-60 (86)
329 PF01269 Fibrillarin: Fibrilla 31.7 34 0.00074 23.2 1.6 67 18-106 155-226 (229)
330 PF08245 Mur_ligase_M: Mur lig 31.6 1.3E+02 0.0029 18.8 4.3 39 2-40 71-114 (188)
331 PRK15128 23S rRNA m(5)C1962 me 31.4 64 0.0014 23.6 3.1 22 20-41 318-339 (396)
332 TIGR01425 SRP54_euk signal rec 31.2 1.3E+02 0.0029 22.4 4.6 43 2-44 182-224 (429)
333 COG1795 Formaldehyde-activatin 31.0 38 0.00083 21.6 1.6 29 4-32 107-135 (170)
334 COG0347 GlnK Nitrogen regulato 31.0 94 0.002 18.7 3.2 27 15-41 65-95 (112)
335 CHL00123 rps6 ribosomal protei 30.8 94 0.002 17.9 3.2 30 14-43 17-47 (97)
336 PRK13300 tRNA CCA-pyrophosphor 30.7 2E+02 0.0044 21.7 5.5 47 34-96 281-327 (447)
337 PRK00110 hypothetical protein; 30.6 1.1E+02 0.0023 21.0 3.9 18 76-93 147-164 (245)
338 PF02153 PDH: Prephenate dehyd 30.5 1.1E+02 0.0024 20.7 4.0 17 77-93 140-156 (258)
339 PF10726 DUF2518: Protein of f 30.4 70 0.0015 20.2 2.7 25 13-37 89-113 (145)
340 PF05711 TylF: Macrocin-O-meth 30.3 23 0.00049 24.3 0.6 25 20-44 191-215 (248)
341 PRK01033 imidazole glycerol ph 30.2 95 0.0021 21.1 3.6 23 70-92 202-224 (258)
342 CHL00195 ycf46 Ycf46; Provisio 30.1 1.3E+02 0.0028 22.8 4.6 39 4-42 83-122 (489)
343 PRK12378 hypothetical protein; 30.1 47 0.001 22.6 2.1 14 32-45 88-101 (235)
344 PRK06853 indolepyruvate oxidor 30.0 1E+02 0.0023 19.9 3.7 17 25-41 81-97 (197)
345 cd03420 SirA_RHOD_Pry_redox Si 29.9 94 0.002 16.4 3.9 54 21-103 13-66 (69)
346 cd03115 SRP The signal recogni 29.9 1.4E+02 0.0031 18.5 4.6 6 37-42 85-90 (173)
347 PF08373 RAP: RAP domain; Int 29.8 50 0.0011 16.6 1.8 14 80-93 24-37 (58)
348 PRK05473 hypothetical protein; 29.7 45 0.00098 19.0 1.6 22 14-35 14-35 (86)
349 PLN03155 cytochrome c oxidase 29.7 59 0.0013 17.3 2.0 29 10-41 34-62 (63)
350 KOG3330 Transport protein part 29.3 34 0.00073 22.0 1.2 35 1-35 147-182 (183)
351 KOG1663 O-methyltransferase [S 29.2 1.2E+02 0.0026 20.7 3.9 33 13-46 156-188 (237)
352 PF05046 Img2: Mitochondrial l 29.1 52 0.0011 18.6 1.9 13 76-88 75-87 (87)
353 PF09827 CRISPR_Cas2: CRISPR a 29.1 1E+02 0.0022 16.6 4.1 30 14-43 38-68 (78)
354 COG1187 RsuA 16S rRNA uridine- 29.1 64 0.0014 22.2 2.6 20 77-96 194-213 (248)
355 cd03319 L-Ala-DL-Glu_epimerase 29.0 1.5E+02 0.0032 20.6 4.5 26 70-95 234-259 (316)
356 COG1889 NOP1 Fibrillarin-like 28.8 1.9E+02 0.0042 19.6 8.4 71 14-106 152-228 (231)
357 PF14117 DUF4287: Domain of un 28.8 65 0.0014 17.1 2.1 15 73-87 14-28 (61)
358 cd04908 ACT_Bt0572_1 N-termina 28.8 62 0.0014 16.7 2.1 16 75-90 49-64 (66)
359 PF03492 Methyltransf_7: SAM d 28.7 2.2E+02 0.0048 20.3 5.9 70 22-93 164-251 (334)
360 COG1243 ELP3 Histone acetyltra 28.7 2.7E+02 0.0059 21.4 7.2 31 2-32 134-164 (515)
361 PRK14339 (dimethylallyl)adenos 28.7 1.4E+02 0.0029 22.0 4.4 43 2-44 27-70 (420)
362 cd04882 ACT_Bt0572_2 C-termina 28.7 53 0.0012 16.4 1.8 15 76-90 50-64 (65)
363 cd01414 SAICAR_synt_Sc non-met 28.6 1E+02 0.0022 21.6 3.6 49 34-91 202-251 (279)
364 PF08149 BING4CT: BING4CT (NUC 28.6 77 0.0017 17.9 2.4 19 69-87 54-72 (80)
365 PF01709 Transcrip_reg: Transc 28.4 24 0.00052 23.9 0.5 14 32-45 87-100 (234)
366 PF09863 DUF2090: Uncharacteri 28.4 80 0.0017 22.5 3.0 29 20-48 161-189 (311)
367 PF13277 YmdB: YmdB-like prote 28.1 32 0.0007 23.7 1.0 30 2-33 56-85 (253)
368 PF00786 PBD: P21-Rho-binding 28.1 48 0.001 17.2 1.5 20 74-93 25-44 (59)
369 PF09286 Pro-kuma_activ: Pro-k 28.0 68 0.0015 19.5 2.4 20 75-94 63-82 (143)
370 PF06200 tify: tify domain; I 27.8 65 0.0014 15.2 1.8 18 10-27 17-34 (36)
371 cd04909 ACT_PDH-BS C-terminal 27.4 66 0.0014 16.5 2.1 15 76-90 55-69 (69)
372 PRK08195 4-hyroxy-2-oxovalerat 27.3 2.2E+02 0.0048 20.4 5.1 38 2-39 157-194 (337)
373 PRK10909 rsmD 16S rRNA m(2)G96 27.2 1.4E+02 0.0031 19.5 4.0 34 3-39 122-157 (199)
374 KOG3451 Uncharacterized conser 26.9 70 0.0015 17.4 2.0 25 17-41 13-37 (71)
375 PF02310 B12-binding: B12 bind 26.9 90 0.002 18.0 2.8 21 20-41 68-88 (121)
376 PF00536 SAM_1: SAM domain (St 26.7 62 0.0013 16.5 1.8 18 74-91 3-20 (64)
377 TIGR03671 cca_archaeal CCA-add 26.7 1.1E+02 0.0025 22.6 3.7 23 72-94 300-322 (408)
378 cd07986 LPLAT_ACT14924-like Ly 26.7 91 0.002 20.3 3.0 22 19-40 83-104 (210)
379 cd00173 SH2 Src homology 2 dom 26.7 99 0.0021 16.9 2.8 24 13-41 5-28 (94)
380 PF13580 SIS_2: SIS domain; PD 26.6 66 0.0014 19.5 2.2 26 17-42 18-43 (138)
381 PRK05298 excinuclease ABC subu 26.5 65 0.0014 25.2 2.6 32 70-101 163-194 (652)
382 COG5443 FlbT Flagellar biosynt 26.3 1.3E+02 0.0028 18.7 3.3 25 60-84 59-83 (148)
383 PRK14755 transcriptional regul 26.3 33 0.00071 14.5 0.5 13 25-37 10-22 (26)
384 PF05185 PRMT5: PRMT5 arginine 26.2 56 0.0012 24.4 2.1 36 2-38 258-294 (448)
385 cd02065 B12-binding_like B12 b 26.2 1.3E+02 0.0029 17.2 3.4 39 2-42 50-88 (125)
386 PF00403 HMA: Heavy-metal-asso 26.1 70 0.0015 16.1 2.0 16 74-89 47-62 (62)
387 PF09822 ABC_transp_aux: ABC-t 26.0 1.2E+02 0.0026 20.6 3.5 35 2-40 197-231 (271)
388 PRK12557 H(2)-dependent methyl 25.9 1.4E+02 0.003 21.4 3.9 31 2-37 81-112 (342)
389 KOG0902 Phosphatidylinositol 4 25.9 92 0.002 27.3 3.3 31 77-107 1567-1601(1803)
390 PF09109 Xol-1_GHMP-like: Swit 25.9 1.4E+02 0.003 19.8 3.5 29 2-30 23-58 (191)
391 PF13137 DUF3983: Protein of u 25.8 38 0.00083 15.7 0.7 15 73-87 19-33 (34)
392 TIGR03473 HpnK hopanoid biosyn 25.7 2.3E+02 0.005 19.6 4.9 62 22-92 215-277 (283)
393 TIGR03798 ocin_TIGR03798 bacte 25.7 86 0.0019 16.4 2.3 17 74-90 25-41 (64)
394 PF03793 PASTA: PASTA domain; 25.6 1E+02 0.0023 15.6 2.8 19 74-92 9-27 (63)
395 PRK02220 4-oxalocrotonate taut 25.5 1E+02 0.0023 15.5 3.4 35 11-45 8-48 (61)
396 PF01728 FtsJ: FtsJ-like methy 25.1 79 0.0017 19.9 2.4 23 20-42 118-140 (181)
397 PRK07680 late competence prote 24.9 2E+02 0.0043 19.5 4.5 31 3-38 63-93 (273)
398 PF13399 LytR_C: LytR cell env 24.8 78 0.0017 17.5 2.1 20 75-94 17-36 (90)
399 PLN02672 methionine S-methyltr 24.8 83 0.0018 26.4 2.9 20 20-39 257-276 (1082)
400 PRK09424 pntA NAD(P) transhydr 24.8 1.4E+02 0.003 22.9 3.9 37 3-41 249-285 (509)
401 cd05007 SIS_Etherase N-acetylm 24.6 93 0.002 21.2 2.8 23 20-42 35-57 (257)
402 cd08237 ribitol-5-phosphate_DH 24.6 95 0.0021 21.7 2.9 21 22-42 237-257 (341)
403 TIGR00150 HI0065_YjeE ATPase, 24.6 1.8E+02 0.0039 17.9 3.9 27 16-42 4-30 (133)
404 PRK10309 galactitol-1-phosphat 24.4 86 0.0019 21.8 2.7 22 22-43 241-262 (347)
405 TIGR01202 bchC 2-desacetyl-2-h 24.3 87 0.0019 21.5 2.7 21 22-42 212-232 (308)
406 PF06153 DUF970: Protein of un 24.3 77 0.0017 18.9 2.0 25 76-100 13-37 (109)
407 PF04816 DUF633: Family of unk 24.3 1.3E+02 0.0027 20.0 3.3 23 74-96 103-125 (205)
408 KOG2972 Uncharacterized conser 24.3 71 0.0015 22.2 2.1 17 28-44 114-130 (276)
409 TIGR03217 4OH_2_O_val_ald 4-hy 24.3 2.7E+02 0.0058 19.9 5.1 85 2-89 156-246 (333)
410 TIGR00282 metallophosphoestera 24.1 53 0.0011 22.8 1.5 31 1-33 58-88 (266)
411 PF02794 HlyC: RTX toxin acylt 24.0 1.4E+02 0.003 18.4 3.2 33 15-47 55-91 (133)
412 COG1743 Adenine-specific DNA m 24.0 98 0.0021 25.2 3.0 24 20-43 567-590 (875)
413 PF14226 DIOX_N: non-haem diox 23.9 85 0.0018 18.0 2.3 30 16-45 9-38 (116)
414 PF07076 DUF1344: Protein of u 23.9 65 0.0014 17.2 1.5 15 28-42 35-49 (61)
415 PF02384 N6_Mtase: N-6 DNA Met 23.8 40 0.00088 23.3 0.9 20 22-41 164-183 (311)
416 PF06135 DUF965: Bacterial pro 23.8 67 0.0015 18.1 1.6 19 17-35 14-32 (79)
417 PRK13245 hetR heterocyst diffe 23.7 37 0.00081 23.2 0.7 29 9-37 64-92 (299)
418 TIGR00489 aEF-1_beta translati 23.6 1.6E+02 0.0034 16.9 3.6 35 4-38 3-37 (88)
419 PF04989 CmcI: Cephalosporin h 23.5 74 0.0016 21.2 2.1 26 20-45 126-151 (206)
420 PF12780 AAA_8: P-loop contain 23.4 1.3E+02 0.0028 20.8 3.3 22 20-41 16-38 (268)
421 PF07530 PRE_C2HC: Associated 23.4 1.3E+02 0.0027 16.2 2.7 20 77-96 2-21 (68)
422 PRK15450 signal transduction p 23.2 59 0.0013 18.4 1.3 18 70-87 68-85 (85)
423 PRK00453 rpsF 30S ribosomal pr 23.1 1.7E+02 0.0036 17.0 4.2 39 3-43 4-43 (108)
424 KOG1136 Predicted cleavage and 22.9 83 0.0018 23.1 2.3 25 20-44 218-242 (501)
425 PLN02688 pyrroline-5-carboxyla 22.8 1.8E+02 0.0038 19.5 3.9 31 3-38 62-92 (266)
426 COG1692 Calcineurin-like phosp 22.8 56 0.0012 22.6 1.4 30 2-33 59-88 (266)
427 COG1236 YSH1 Predicted exonucl 22.5 1.2E+02 0.0027 22.4 3.2 33 11-43 193-225 (427)
428 PF05706 CDKN3: Cyclin-depende 22.5 87 0.0019 20.3 2.2 22 19-40 118-139 (168)
429 PF08671 SinI: Anti-repressor 22.4 75 0.0016 14.3 1.4 16 77-92 3-21 (30)
430 PF15000 TUSC2: Tumour suppres 22.3 54 0.0012 19.6 1.1 23 21-43 77-99 (111)
431 COG1902 NemA NADH:flavin oxido 22.3 3.2E+02 0.0069 19.9 5.7 83 11-97 73-172 (363)
432 COG1041 Predicted DNA modifica 22.2 1.4E+02 0.0031 21.7 3.4 23 20-42 289-311 (347)
433 PRK09880 L-idonate 5-dehydroge 22.2 1E+02 0.0022 21.5 2.7 21 22-42 247-267 (343)
434 PRK11509 hydrogenase-1 operon 22.1 2.1E+02 0.0045 17.7 5.0 64 18-85 52-122 (132)
435 PF09382 RQC: RQC domain; Int 22.0 51 0.0011 18.8 1.0 62 19-86 5-66 (106)
436 smart00596 PRE_C2HC PRE_C2HC d 22.0 1.4E+02 0.0031 16.3 2.6 20 77-96 2-21 (69)
437 TIGR03366 HpnZ_proposed putati 21.8 1.2E+02 0.0025 20.5 2.8 22 22-43 199-220 (280)
438 cd04883 ACT_AcuB C-terminal AC 21.8 1E+02 0.0023 15.8 2.2 17 75-91 53-69 (72)
439 PF06258 Mito_fiss_Elm1: Mitoc 21.7 1.1E+02 0.0025 21.5 2.8 30 12-41 159-189 (311)
440 TIGR02822 adh_fam_2 zinc-bindi 21.7 1.1E+02 0.0025 21.2 2.9 21 22-42 235-255 (329)
441 cd05831 Ribosomal_P1 Ribosomal 21.6 1.4E+02 0.003 17.5 2.8 26 68-93 12-37 (103)
442 cd04276 ZnMc_MMP_like_2 Zinc-d 21.6 1.3E+02 0.0028 19.8 2.9 19 75-93 29-47 (197)
443 PF02479 Herpes_IE68: Herpesvi 21.5 1.1E+02 0.0025 18.9 2.4 28 58-87 63-90 (132)
444 cd07455 CRD_Collagen_XVIII Cys 21.5 1.3E+02 0.0028 18.4 2.7 34 1-34 18-51 (123)
445 KOG2698 GTP cyclohydrolase I [ 21.4 1.4E+02 0.003 20.2 3.0 22 22-43 184-205 (247)
446 PF13453 zf-TFIIB: Transcripti 21.4 88 0.0019 14.7 1.6 15 70-84 26-40 (41)
447 TIGR00530 AGP_acyltrn 1-acyl-s 21.3 1.5E+02 0.0032 17.1 3.0 22 18-39 73-94 (130)
448 PF00724 Oxidored_FMN: NADH:fl 21.2 2.5E+02 0.0054 20.0 4.5 83 14-97 73-172 (341)
449 cd00132 CRIB PAK (p21 activate 21.2 97 0.0021 14.8 1.8 14 76-89 28-41 (42)
450 PF08952 DUF1866: Domain of un 21.2 54 0.0012 20.7 1.0 27 14-40 6-33 (146)
451 PF14794 DUF4479: Domain of un 21.1 95 0.0021 17.0 1.9 15 77-91 54-68 (73)
452 PF13602 ADH_zinc_N_2: Zinc-bi 21.1 21 0.00046 20.8 -0.8 19 22-41 33-51 (127)
453 PRK13961 phosphoribosylaminoim 21.1 1.9E+02 0.004 20.5 3.7 45 34-90 216-264 (296)
454 PF08532 Glyco_hydro_42M: Beta 21.0 1.2E+02 0.0026 19.7 2.7 34 2-40 57-90 (207)
455 TIGR02819 fdhA_non_GSH formald 21.0 1.2E+02 0.0026 21.9 2.9 22 22-43 280-301 (393)
456 cd03238 ABC_UvrA The excision 21.0 2.4E+02 0.0052 18.0 4.4 7 35-41 108-114 (176)
457 PF00926 DHBP_synthase: 3,4-di 21.0 62 0.0013 21.4 1.3 21 24-44 1-21 (194)
458 COG0285 FolC Folylpolyglutamat 21.0 76 0.0017 23.6 1.9 22 70-91 53-74 (427)
459 PRK06402 rpl12p 50S ribosomal 21.0 1.2E+02 0.0026 18.0 2.4 24 69-92 12-35 (106)
460 KOG0964 Structural maintenance 20.9 1.1E+02 0.0024 25.6 2.8 26 70-95 112-137 (1200)
461 cd03067 PDI_b_PDIR_N PDIb fami 20.9 2E+02 0.0044 17.2 3.8 26 18-43 34-59 (112)
462 PF03668 ATP_bind_2: P-loop AT 20.8 89 0.0019 22.0 2.1 24 67-91 249-275 (284)
463 COG2520 Predicted methyltransf 20.8 1.6E+02 0.0034 21.3 3.4 26 20-45 268-293 (341)
464 cd07441 CRD_SFRP3 Cysteine-ric 20.8 1.3E+02 0.0029 18.4 2.7 34 1-34 15-48 (126)
465 PF03434 DUF276: DUF276 ; Int 20.7 1.1E+02 0.0025 21.1 2.5 21 17-37 54-74 (291)
466 PF13344 Hydrolase_6: Haloacid 20.6 1.1E+02 0.0024 17.5 2.2 21 70-90 38-58 (101)
467 COG4808 Uncharacterized protei 20.6 98 0.0021 19.4 2.0 21 71-91 131-151 (152)
468 COG2890 HemK Methylase of poly 20.6 1.5E+02 0.0032 20.6 3.2 56 19-104 216-273 (280)
469 PF13472 Lipase_GDSL_2: GDSL-l 20.5 1.2E+02 0.0027 18.0 2.6 42 2-43 61-110 (179)
470 PF12419 DUF3670: SNF2 Helicas 20.5 1.5E+02 0.0033 18.2 3.0 79 14-93 10-102 (141)
471 cd04411 Ribosomal_P1_P2_L12p R 20.5 1.5E+02 0.0033 17.4 2.8 24 69-92 12-35 (105)
472 PRK00299 sulfur transfer prote 20.4 1.7E+02 0.0037 16.1 3.9 54 20-102 22-75 (81)
473 PF02492 cobW: CobW/HypB/UreG, 20.3 1.2E+02 0.0026 19.2 2.5 36 2-38 142-177 (178)
474 cd02068 radical_SAM_B12_BD B12 20.3 2E+02 0.0043 16.9 3.4 39 2-43 39-77 (127)
475 smart00463 SMR Small MutS-rela 20.2 1.3E+02 0.0028 16.2 2.4 24 12-35 6-29 (80)
476 PRK07116 flavodoxin; Provision 20.2 2.3E+02 0.005 17.5 6.8 15 74-88 146-160 (160)
477 PF04361 DUF494: Protein of un 20.1 50 0.0011 20.9 0.7 24 71-94 18-41 (155)
478 cd00692 ligninase Ligninase an 20.1 51 0.0011 23.7 0.8 29 74-102 148-176 (328)
479 cd00693 secretory_peroxidase H 20.1 91 0.002 22.0 2.1 29 74-102 141-169 (298)
480 COG0001 HemL Glutamate-1-semia 20.1 1.5E+02 0.0032 22.3 3.2 41 5-48 203-247 (432)
481 cd06542 GH18_EndoS-like Endo-b 20.0 1.9E+02 0.0042 19.3 3.6 27 18-44 128-154 (255)
No 1
>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]
Probab=99.91 E-value=6e-24 Score=146.39 Aligned_cols=106 Identities=37% Similarity=0.606 Sum_probs=92.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCch-hhhhhhhhcHHHHhhCCCceecCHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTE-ASRDSFILDAIFLIQIPHGRERTKKEFT 80 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~rt~~e~~ 80 (107)
..|+||++||||||+|++|+++|+||+++|+|||+|+++|.+.|+....+. ........|+.|+..+++|++|+.+||+
T Consensus 236 ~~daI~mkWiLhdwtDedcvkiLknC~~sL~~~GkIiv~E~V~p~e~~~dd~~s~v~~~~d~lm~~~~~~Gkert~~e~q 315 (342)
T KOG3178|consen 236 KGDAIWMKWILHDWTDEDCVKILKNCKKSLPPGGKIIVVENVTPEEDKFDDIDSSVTRDMDLLMLTQTSGGKERTLKEFQ 315 (342)
T ss_pred CcCeEEEEeecccCChHHHHHHHHHHHHhCCCCCEEEEEeccCCCCCCccccccceeehhHHHHHHHhccceeccHHHHH
Confidence 468999999999999999999999999999999999999998886332211 2233456889998888789999999999
Q ss_pred HHHHHcCCCceEEEEcCCceeEEEEEC
Q 042267 81 ALAIEAGFKGINFECNVCNSYVMEFYK 107 (107)
Q Consensus 81 ~ll~~aGf~~~~~~~~~~~~~vi~~~~ 107 (107)
.++.++||.+.++...+...++||++|
T Consensus 316 ~l~~~~gF~~~~~~~~~~~~~~Ie~~k 342 (342)
T KOG3178|consen 316 ALLPEEGFPVCMVALTAYSYSVIEFHK 342 (342)
T ss_pred hcchhhcCceeEEEeccCccchheeCC
Confidence 999999999999999999999999987
No 2
>PF00891 Methyltransf_2: O-methyltransferase; InterPro: IPR001077 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This domain includes a range of O-methyltransferases some of which utilise S-adenosyl methionine as substrate []. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. In eukaryotes, DNA methylation has been implicated in the control of several cellular processes, including differentiation, gene regulation, and embryonic development. O-methyltransferases have a common catalytic domain structure, which might be universal among S-adenosyl-L-methionine (AdoMet)-dependent methyltransferases []. Comparative analysis of the predicted amino acid sequences of a number of plant O-methyltransferase cDNA clones show that they share some 32-71% sequence identity, and can be grouped according to the different compounds they utilise as substrates [].; GO: 0008171 O-methyltransferase activity; PDB: 1FPQ_A 1FP1_D 3P9K_B 3P9I_D 3P9C_A 3I53_A 3I5U_A 3I64_A 3I58_A 1ZG3_A ....
Probab=99.85 E-value=1.2e-21 Score=130.95 Aligned_cols=82 Identities=33% Similarity=0.578 Sum_probs=69.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCC--CEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPND--GKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEF 79 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pg--g~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~ 79 (107)
.+|+|++++|||+|+|++|.+||++++++|+|| |+|+|+|.+.++....+........+|+.|++.+ +|++||.+||
T Consensus 158 ~~D~~~l~~vLh~~~d~~~~~iL~~~~~al~pg~~g~llI~e~~~~~~~~~~~~~~~~~~~dl~ml~~~-~G~~rt~~e~ 236 (241)
T PF00891_consen 158 VADVYLLRHVLHDWSDEDCVKILRNAAAALKPGKDGRLLIIEMVLPDDRTGPPSAEMDALFDLNMLVLT-GGKERTEEEW 236 (241)
T ss_dssp SESEEEEESSGGGS-HHHHHHHHHHHHHHSEECTTEEEEEEEEEECSSSSSHHHHHHHHHHHHHHHHHH-SSS-EEHHHH
T ss_pred cccceeeehhhhhcchHHHHHHHHHHHHHhCCCCCCeEEEEeeccCCCCCCchHHHHHHHHHHHHHHhc-CCCCcCHHHH
Confidence 389999999999999999999999999999999 9999999999887765432222257999999876 7999999999
Q ss_pred HHHHH
Q 042267 80 TALAI 84 (107)
Q Consensus 80 ~~ll~ 84 (107)
++||+
T Consensus 237 ~~ll~ 241 (241)
T PF00891_consen 237 EALLK 241 (241)
T ss_dssp HHHHH
T ss_pred HHHhC
Confidence 99985
No 3
>TIGR02716 C20_methyl_CrtF C-20 methyltransferase BchU. Members of this protein family are the S-adenosylmethionine-depenedent C-20 methyltransferase BchU, part of the pathway of bacteriochlorophyll c production in photosynthetic green sulfur bacteria. The position modified by this enzyme represents the difference between bacteriochlorophylls c and d; strains lacking this protein can only produced bacteriochlorophyll d.
Probab=99.61 E-value=4e-15 Score=102.68 Aligned_cols=90 Identities=11% Similarity=0.218 Sum_probs=64.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhh-hhcHHHHhhCCCceecCHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSF-ILDAIFLIQIPHGRERTKKEFT 80 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~g~~rt~~e~~ 80 (107)
++|+|++++++|+|+++++.++|++++++|+|||+++|.|.+.++...+ ....... ...+.|+. . -...++.+||.
T Consensus 215 ~~D~v~~~~~lh~~~~~~~~~il~~~~~~L~pgG~l~i~d~~~~~~~~~-~~~~~~~~~~~~~~~~-~-~~~~~~~~e~~ 291 (306)
T TIGR02716 215 EADAVLFCRILYSANEQLSTIMCKKAFDAMRSGGRLLILDMVIDDPENP-NFDYLSHYILGAGMPF-S-VLGFKEQARYK 291 (306)
T ss_pred CCCEEEeEhhhhcCChHHHHHHHHHHHHhcCCCCEEEEEEeccCCCCCc-hhhHHHHHHHHccccc-c-cccCCCHHHHH
Confidence 4799999999999999999999999999999999999999987654322 1111110 11111111 1 11235579999
Q ss_pred HHHHHcCCCceEEE
Q 042267 81 ALAIEAGFKGINFE 94 (107)
Q Consensus 81 ~ll~~aGf~~~~~~ 94 (107)
+||+++||+.+++.
T Consensus 292 ~ll~~aGf~~v~~~ 305 (306)
T TIGR02716 292 EILESLGYKDVTMV 305 (306)
T ss_pred HHHHHcCCCeeEec
Confidence 99999999988764
No 4
>PF05891 Methyltransf_PK: AdoMet dependent proline di-methyltransferase; InterPro: IPR008576 This family consists of several eukaryotic proteins of unknown function that are S-adenosyl-L-methionine-dependent methyltransferase-like.; GO: 0008168 methyltransferase activity; PDB: 1XTP_A 2EX4_B.
Probab=99.40 E-value=6.5e-13 Score=87.23 Aligned_cols=81 Identities=23% Similarity=0.355 Sum_probs=65.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+||..|++-+.+|++.+++|++|+++|+|+|.++|-|.+..... ..+|- ..++..||.+.|++
T Consensus 122 ~YDlIW~QW~lghLTD~dlv~fL~RCk~~L~~~G~IvvKEN~~~~~~---------~~~D~-----~DsSvTRs~~~~~~ 187 (218)
T PF05891_consen 122 KYDLIWIQWCLGHLTDEDLVAFLKRCKQALKPNGVIVVKENVSSSGF---------DEFDE-----EDSSVTRSDEHFRE 187 (218)
T ss_dssp -EEEEEEES-GGGS-HHHHHHHHHHHHHHEEEEEEEEEEEEEESSSE---------EEEET-----TTTEEEEEHHHHHH
T ss_pred cEeEEEehHhhccCCHHHHHHHHHHHHHhCcCCcEEEEEecCCCCCC---------cccCC-----ccCeeecCHHHHHH
Confidence 69999999999999999999999999999999999999999976432 12332 23667799999999
Q ss_pred HHHHcCCCceEEEEc
Q 042267 82 LAIEAGFKGINFECN 96 (107)
Q Consensus 82 ll~~aGf~~~~~~~~ 96 (107)
+|++||+++++...-
T Consensus 188 lF~~AGl~~v~~~~Q 202 (218)
T PF05891_consen 188 LFKQAGLRLVKEEKQ 202 (218)
T ss_dssp HHHHCT-EEEEEEE-
T ss_pred HHHHcCCEEEEeccc
Confidence 999999999876544
No 5
>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=99.23 E-value=6.5e-12 Score=83.99 Aligned_cols=100 Identities=16% Similarity=0.154 Sum_probs=69.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHH--H--------------
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIF--L-------------- 65 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~--~-------------- 65 (107)
.+|++++..++|++++++...++++++++|+|||.+++.|.+.++++...+. ...+.. .
T Consensus 122 ~~d~v~~~~~l~~~~~~~~~~~l~~i~~~LkpgG~l~i~d~~~~~~~~~~~~-----~~~~~~~~~~~~g~~~~~~~~~~ 196 (239)
T TIGR00740 122 NASMVILNFTLQFLPPEDRIALLTKIYEGLNPNGVLVLSEKFRFEDTKINHL-----LIDLHHQFKRANGYSELEISQKR 196 (239)
T ss_pred CCCEEeeecchhhCCHHHHHHHHHHHHHhcCCCeEEEEeecccCCCHhHHHH-----HHHHHHHHHHHcCCCHHHHHHHH
Confidence 4789999999999998888999999999999999999999876554321110 011000 0
Q ss_pred -hhCCCceecCHHHHHHHHHHcCCCceEEEEcCCceeEEEEE
Q 042267 66 -IQIPHGRERTKKEFTALAIEAGFKGINFECNVCNSYVMEFY 106 (107)
Q Consensus 66 -~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~~~~~~vi~~~ 106 (107)
.....-...|.+++.++++++||+.+++......++.+.++
T Consensus 197 ~~~~~~~~~~s~~~~~~~l~~aGF~~~~~~~~~~~~~~~~~~ 238 (239)
T TIGR00740 197 TALENVMRTDSIETHKARLKNVGFSHVELWFQCFNFGSLVAV 238 (239)
T ss_pred HHHhccCCCCCHHHHHHHHHHcCCchHHHHHHHHhHhHHhee
Confidence 00001235789999999999999987665444445554444
No 6
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=99.22 E-value=9.1e-11 Score=74.32 Aligned_cols=100 Identities=16% Similarity=0.183 Sum_probs=66.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHH--h-hCCC--------
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFL--I-QIPH-------- 70 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~--~-~~~~-------- 70 (107)
.||++++..++|+++| ..+.|+++++.|+|||+++|.|...+++.-..... ......... . ....
T Consensus 44 ~fD~v~~~~~l~~~~d--~~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~y~yl~ 119 (160)
T PLN02232 44 EFDAVTMGYGLRNVVD--RLRAMKEMYRVLKPGSRVSILDFNKSNQSVTTFMQ--GWMIDNVVVPVATVYDLAKEYEYLK 119 (160)
T ss_pred CeeEEEecchhhcCCC--HHHHHHHHHHHcCcCeEEEEEECCCCChHHHHHHH--HHHccchHhhhhHHhCChHHHHhHH
Confidence 5899999999999987 47999999999999999999998754331110000 000000000 0 0000
Q ss_pred ---ceecCHHHHHHHHHHcCCCceEEEEcC-CceeEEEE
Q 042267 71 ---GRERTKKEFTALAIEAGFKGINFECNV-CNSYVMEF 105 (107)
Q Consensus 71 ---g~~rt~~e~~~ll~~aGf~~~~~~~~~-~~~~vi~~ 105 (107)
..-.+.+|+.++|+++||+.++..... +..++..+
T Consensus 120 ~si~~f~~~~el~~ll~~aGF~~~~~~~~~~g~~~~~~~ 158 (160)
T PLN02232 120 YSINGYLTGEELETLALEAGFSSACHYEISGGFMGNLVA 158 (160)
T ss_pred HHHHHCcCHHHHHHHHHHcCCCcceEEECcchHhHeeEe
Confidence 123578999999999999998877664 44454443
No 7
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=99.21 E-value=2.2e-10 Score=77.76 Aligned_cols=100 Identities=18% Similarity=0.195 Sum_probs=67.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcH--HHHhh-CCC--------
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDA--IFLIQ-IPH-------- 70 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~--~~~~~-~~~-------- 70 (107)
.||++++..++|+++| ..++|+++++.|+|||++++.|...++.+-.+.... ..+.. ..... ...
T Consensus 145 sfD~V~~~~~l~~~~d--~~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~y~~l~ 220 (261)
T PLN02233 145 YFDAITMGYGLRNVVD--RLKAMQEMYRVLKPGSRVSILDFNKSTQPFTTSMQE--WMIDNVVVPVATGYGLAKEYEYLK 220 (261)
T ss_pred CEeEEEEecccccCCC--HHHHHHHHHHHcCcCcEEEEEECCCCCcHHHHHHHH--HHHhhhhhHHHHHhCChHHHHHHH
Confidence 5899999999999987 478999999999999999999987654321111100 00110 00000 000
Q ss_pred ---ceecCHHHHHHHHHHcCCCceEEEEcC-CceeEEEE
Q 042267 71 ---GRERTKKEFTALAIEAGFKGINFECNV-CNSYVMEF 105 (107)
Q Consensus 71 ---g~~rt~~e~~~ll~~aGf~~~~~~~~~-~~~~vi~~ 105 (107)
....+.+|+.++++++||+.++..... +..++..+
T Consensus 221 ~s~~~f~s~~el~~ll~~aGF~~~~~~~~~~g~~~~~~~ 259 (261)
T PLN02233 221 SSINEYLTGEELEKLALEAGFSSAKHYEISGGLMGNLVA 259 (261)
T ss_pred HHHHhcCCHHHHHHHHHHCCCCEEEEEEcCCCeeEEEEE
Confidence 124689999999999999999887775 44444443
No 8
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=99.16 E-value=3.4e-10 Score=76.92 Aligned_cols=88 Identities=13% Similarity=0.126 Sum_probs=64.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+...++|++++++..++|+++++.|+|||++++.|.........+. ..... .. ...-...+.+++.+
T Consensus 117 ~FD~V~s~~~l~h~~~~d~~~~l~~i~r~LkPGG~lvi~d~~~~~~~~~~~--~~~~~-----~~-~~~~~~~~~~~~~~ 188 (263)
T PTZ00098 117 TFDMIYSRDAILHLSYADKKKLFEKCYKWLKPNGILLITDYCADKIENWDE--EFKAY-----IK-KRKYTLIPIQEYGD 188 (263)
T ss_pred CeEEEEEhhhHHhCCHHHHHHHHHHHHHHcCCCcEEEEEEeccccccCcHH--HHHHH-----HH-hcCCCCCCHHHHHH
Confidence 589999999998898777899999999999999999999987653221111 01000 10 11223468899999
Q ss_pred HHHHcCCCceEEEEcC
Q 042267 82 LAIEAGFKGINFECNV 97 (107)
Q Consensus 82 ll~~aGf~~~~~~~~~ 97 (107)
+|+++||+.++..+.+
T Consensus 189 ~l~~aGF~~v~~~d~~ 204 (263)
T PTZ00098 189 LIKSCNFQNVVAKDIS 204 (263)
T ss_pred HHHHCCCCeeeEEeCc
Confidence 9999999999887754
No 9
>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=99.13 E-value=2e-11 Score=81.69 Aligned_cols=103 Identities=20% Similarity=0.230 Sum_probs=38.2
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHH-h--hCCC--------
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFL-I--QIPH-------- 70 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~~-------- 70 (107)
.||+++++..+|+++|. .+.|+++++.|+|||+++|+|...|+++.-..... .++...... . ...+
T Consensus 116 sfD~v~~~fglrn~~d~--~~~l~E~~RVLkPGG~l~ile~~~p~~~~~~~~~~-~y~~~ilP~~g~l~~~~~~~Y~yL~ 192 (233)
T PF01209_consen 116 SFDAVTCSFGLRNFPDR--ERALREMYRVLKPGGRLVILEFSKPRNPLLRALYK-FYFKYILPLIGRLLSGDREAYRYLP 192 (233)
T ss_dssp -EEEEEEES-GGG-SSH--HHHHHHHHHHEEEEEEEEEEEEEB-SSHHHHHHHH-H------------------------
T ss_pred ceeEEEHHhhHHhhCCH--HHHHHHHHHHcCCCeEEEEeeccCCCCchhhceee-eeecccccccccccccccccccccc
Confidence 58999999999999984 67999999999999999999998876531100000 001111110 0 0000
Q ss_pred ---ceecCHHHHHHHHHHcCCCceEEEEc-CCceeEEEEEC
Q 042267 71 ---GRERTKKEFTALAIEAGFKGINFECN-VCNSYVMEFYK 107 (107)
Q Consensus 71 ---g~~rt~~e~~~ll~~aGf~~~~~~~~-~~~~~vi~~~~ 107 (107)
-.-.+.+++.++++++||+.++..+. .|..+++.++|
T Consensus 193 ~Si~~f~~~~~~~~~l~~~Gf~~v~~~~~~~G~~~i~~g~K 233 (233)
T PF01209_consen 193 ESIRRFPSPEELKELLEEAGFKNVEYRPLTFGIVTIHVGTK 233 (233)
T ss_dssp -----------------------------------------
T ss_pred cccccccccccccccccccccccccccccccccccccccCC
Confidence 02246799999999999999888776 45666666655
No 10
>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=99.12 E-value=1.3e-09 Score=71.48 Aligned_cols=101 Identities=19% Similarity=0.210 Sum_probs=68.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhC----C-C------
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQI----P-H------ 70 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~----~-~------ 70 (107)
.||+++.+..+|+.++ ...+++++++.|+|||++++.+...+.... .. .....+...++... . .
T Consensus 106 ~~D~i~~~~~~~~~~~--~~~~l~~~~~~L~~gG~l~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 180 (223)
T TIGR01934 106 SFDAVTIAFGLRNVTD--IQKALREMYRVLKPGGRLVILEFSKPANAL--LK-KFYKFYLKNVLPSIGGLISKNAEAYTY 180 (223)
T ss_pred cEEEEEEeeeeCCccc--HHHHHHHHHHHcCCCcEEEEEEecCCCchh--hH-HHHHHHHHHhhhhhhhhhcCCchhhHH
Confidence 5899999999999887 568999999999999999999876543311 00 00001111110000 0 0
Q ss_pred -----ceecCHHHHHHHHHHcCCCceEEEEcC-CceeEEEEEC
Q 042267 71 -----GRERTKKEFTALAIEAGFKGINFECNV-CNSYVMEFYK 107 (107)
Q Consensus 71 -----g~~rt~~e~~~ll~~aGf~~~~~~~~~-~~~~vi~~~~ 107 (107)
....+.++|.++|+++||+.+++.+.. +...+++++|
T Consensus 181 ~~~~~~~~~~~~~~~~~l~~aGf~~~~~~~~~~~~~~~~~~~~ 223 (223)
T TIGR01934 181 LPESIRAFPSQEELAAMLKEAGFEEVRYRSLTFGVAAIHVGKK 223 (223)
T ss_pred HHHHHHhCCCHHHHHHHHHHcCCccceeeeeecceeeEEEecC
Confidence 112478899999999999999888875 4577777765
No 11
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=99.10 E-value=1.4e-09 Score=71.98 Aligned_cols=101 Identities=21% Similarity=0.238 Sum_probs=70.2
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHH----hhCCC-------
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFL----IQIPH------- 70 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~------- 70 (107)
.||+|+..+++|++++ ...+|+++++.|+|||++++++...+.... .......+...++ ....+
T Consensus 121 ~~D~I~~~~~l~~~~~--~~~~l~~~~~~L~~gG~li~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (239)
T PRK00216 121 SFDAVTIAFGLRNVPD--IDKALREMYRVLKPGGRLVILEFSKPTNPP---LKKAYDFYLFKVLPLIGKLISKNAEAYSY 195 (239)
T ss_pred CccEEEEecccccCCC--HHHHHHHHHHhccCCcEEEEEEecCCCchH---HHHHHHHHHHhhhHHHHHHHcCCcHHHHH
Confidence 4899999999999988 468999999999999999999876653321 0000000100000 00001
Q ss_pred -----ceecCHHHHHHHHHHcCCCceEEEEc-CCceeEEEEEC
Q 042267 71 -----GRERTKKEFTALAIEAGFKGINFECN-VCNSYVMEFYK 107 (107)
Q Consensus 71 -----g~~rt~~e~~~ll~~aGf~~~~~~~~-~~~~~vi~~~~ 107 (107)
...++.++|.++|+++||+.+++... .+..+++.++|
T Consensus 196 ~~~~~~~~~~~~~~~~~l~~aGf~~~~~~~~~~~~~~~~~~~~ 238 (239)
T PRK00216 196 LAESIRAFPDQEELAAMLEEAGFERVRYRNLTGGIVALHVGYK 238 (239)
T ss_pred HHHHHHhCCCHHHHHHHHHhCCCceeeeeeeecCcEEEEEEec
Confidence 12357899999999999999998886 47788888875
No 12
>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=99.09 E-value=4.4e-10 Score=70.18 Aligned_cols=83 Identities=16% Similarity=0.082 Sum_probs=61.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|++..+||+.+| ...+|+++++.|+|||.+++.++..+.. ... .+. .+...... ......++.++|++
T Consensus 78 ~fD~i~~~~~l~~~~d--~~~~l~~l~~~LkpgG~l~~~~~~~~~~-~~~---~~~-~~~~~~~~-~~~~~~~~~~~~~~ 149 (161)
T PF13489_consen 78 SFDLIICNDVLEHLPD--PEEFLKELSRLLKPGGYLVISDPNRDDP-SPR---SFL-KWRYDRPY-GGHVHFFSPDELRQ 149 (161)
T ss_dssp SEEEEEEESSGGGSSH--HHHHHHHHHHCEEEEEEEEEEEEBTTSH-HHH---HHH-HCCGTCHH-TTTTEEBBHHHHHH
T ss_pred chhhHhhHHHHhhccc--HHHHHHHHHHhcCCCCEEEEEEcCCcch-hhh---HHH-hcCCcCcc-CceeccCCHHHHHH
Confidence 6899999999999997 6899999999999999999999775321 000 011 11111110 12456799999999
Q ss_pred HHHHcCCCceE
Q 042267 82 LAIEAGFKGIN 92 (107)
Q Consensus 82 ll~~aGf~~~~ 92 (107)
+++++||++++
T Consensus 150 ll~~~G~~iv~ 160 (161)
T PF13489_consen 150 LLEQAGFEIVE 160 (161)
T ss_dssp HHHHTTEEEEE
T ss_pred HHHHCCCEEEE
Confidence 99999999875
No 13
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=99.07 E-value=8.5e-11 Score=79.13 Aligned_cols=93 Identities=13% Similarity=0.070 Sum_probs=62.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchh-hh----hhhhhcHHH--H-----hhCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEA-SR----DSFILDAIF--L-----IQIP 69 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~-~~----~~~~~~~~~--~-----~~~~ 69 (107)
.+|++++..++|++++++...++++++++|+|||.+++.|.+.+++....+. .. +....+... . ....
T Consensus 125 ~~D~vv~~~~l~~l~~~~~~~~l~~i~~~LkpGG~l~l~e~~~~~~~~~~~~~~~~~~~~~~~~g~s~~ei~~~~~~~~~ 204 (247)
T PRK15451 125 NASMVVLNFTLQFLEPSERQALLDKIYQGLNPGGALVLSEKFSFEDAKVGELLFNMHHDFKRANGYSELEISQKRSMLEN 204 (247)
T ss_pred CCCEEehhhHHHhCCHHHHHHHHHHHHHhcCCCCEEEEEEecCCCcchhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHh
Confidence 4799999999999998888999999999999999999999776544321110 00 000000000 0 0000
Q ss_pred CceecCHHHHHHHHHHcCCCceEEE
Q 042267 70 HGRERTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~~~ 94 (107)
.-...|.++..+||+++||+.+++.
T Consensus 205 ~~~~~~~~~~~~~L~~aGF~~v~~~ 229 (247)
T PRK15451 205 VMLTDSVETHKARLHKAGFEHSELW 229 (247)
T ss_pred hcccCCHHHHHHHHHHcCchhHHHH
Confidence 0123588999999999999987553
No 14
>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=99.05 E-value=2.9e-09 Score=70.66 Aligned_cols=101 Identities=20% Similarity=0.307 Sum_probs=69.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhh-hhhcHHHHh----h---------
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDS-FILDAIFLI----Q--------- 67 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~-~~~~~~~~~----~--------- 67 (107)
.+|+|++...+|++++. .++|+++.+.|+|||++++.+...+..+ ...... ..+...+-. .
T Consensus 114 ~fD~V~~~~~l~~~~~~--~~~l~~~~~~Lk~gG~l~~~~~~~~~~~---~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~ 188 (231)
T TIGR02752 114 SFDYVTIGFGLRNVPDY--MQVLREMYRVVKPGGKVVCLETSQPTIP---GFKQLYFFYFKYIMPLFGKLFAKSYKEYSW 188 (231)
T ss_pred CccEEEEecccccCCCH--HHHHHHHHHHcCcCeEEEEEECCCCCCh---HHHHHHHHHHcChhHHhhHHhcCCHHHHHH
Confidence 58999999999999874 6899999999999999999886544321 111100 001000000 0
Q ss_pred --CCCceecCHHHHHHHHHHcCCCceEEEEcC-CceeEEEEEC
Q 042267 68 --IPHGRERTKKEFTALAIEAGFKGINFECNV-CNSYVMEFYK 107 (107)
Q Consensus 68 --~~~g~~rt~~e~~~ll~~aGf~~~~~~~~~-~~~~vi~~~~ 107 (107)
.......+.+++.++|+++||+.+++.+.. +..+++.++|
T Consensus 189 ~~~~~~~~~~~~~l~~~l~~aGf~~~~~~~~~~g~~~~~~~~~ 231 (231)
T TIGR02752 189 LQESTRDFPGMDELAEMFQEAGFKDVEVKSYTGGVAAMHMGFK 231 (231)
T ss_pred HHHHHHHcCCHHHHHHHHHHcCCCeeEEEEcccceEEEEEEEC
Confidence 001123577999999999999999998875 6778888776
No 15
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=99.03 E-value=4.1e-09 Score=70.67 Aligned_cols=101 Identities=22% Similarity=0.297 Sum_probs=69.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHH-HHhhC----C-C-----
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAI-FLIQI----P-H----- 70 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~-~~~~~----~-~----- 70 (107)
+||++.++..||+++| ..+.|++++|.|+|||++++.|...|+.+... .....+... .+-.. . +
T Consensus 119 sFD~vt~~fglrnv~d--~~~aL~E~~RVlKpgG~~~vle~~~p~~~~~~---~~~~~~~~~~v~P~~g~~~~~~~~~y~ 193 (238)
T COG2226 119 SFDAVTISFGLRNVTD--IDKALKEMYRVLKPGGRLLVLEFSKPDNPVLR---KAYILYYFKYVLPLIGKLVAKDAEAYE 193 (238)
T ss_pred ccCEEEeeehhhcCCC--HHHHHHHHHHhhcCCeEEEEEEcCCCCchhhH---HHHHHHHHHhHhhhhceeeecChHHHH
Confidence 6899999999999998 57999999999999999999998887664321 111111111 11000 0 0
Q ss_pred ------ceecCHHHHHHHHHHcCCCceEEEEcC-CceeEEEEEC
Q 042267 71 ------GRERTKKEFTALAIEAGFKGINFECNV-CNSYVMEFYK 107 (107)
Q Consensus 71 ------g~~rt~~e~~~ll~~aGf~~~~~~~~~-~~~~vi~~~~ 107 (107)
-+..+.+++.++++++||+.+...... |..++..+.|
T Consensus 194 yL~eSi~~~p~~~~l~~~~~~~gf~~i~~~~~~~G~~~l~~g~K 237 (238)
T COG2226 194 YLAESIRRFPDQEELKQMIEKAGFEEVRYENLTFGIVALHRGYK 237 (238)
T ss_pred HHHHHHHhCCCHHHHHHHHHhcCceEEeeEeeeeeeEEEEEEec
Confidence 123667999999999999998855553 4555555443
No 16
>PF06080 DUF938: Protein of unknown function (DUF938); InterPro: IPR010342 This family consists of several hypothetical proteins from both prokaryotes and eukaryotes. The function of this family is unknown.
Probab=99.02 E-value=5e-09 Score=68.59 Aligned_cols=103 Identities=16% Similarity=0.057 Sum_probs=82.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+..|++|-.+-+.+..+++.+.+.|+|||.|++--+..-+..-.+ ..-..||...-...+....|+.+++.+
T Consensus 102 ~~D~i~~~N~lHI~p~~~~~~lf~~a~~~L~~gG~L~~YGPF~~~G~~ts---~SN~~FD~sLr~rdp~~GiRD~e~v~~ 178 (204)
T PF06080_consen 102 SFDAIFCINMLHISPWSAVEGLFAGAARLLKPGGLLFLYGPFNRDGKFTS---ESNAAFDASLRSRDPEWGIRDIEDVEA 178 (204)
T ss_pred CcceeeehhHHHhcCHHHHHHHHHHHHHhCCCCCEEEEeCCcccCCEeCC---cHHHHHHHHHhcCCCCcCccCHHHHHH
Confidence 58999999999999999999999999999999999999887765432111 112346666554345677899999999
Q ss_pred HHHHcCCCceEEEEcCCceeEEEEEC
Q 042267 82 LAIEAGFKGINFECNVCNSYVMEFYK 107 (107)
Q Consensus 82 ll~~aGf~~~~~~~~~~~~~vi~~~~ 107 (107)
+.+++||+..+...++...-++..+|
T Consensus 179 lA~~~GL~l~~~~~MPANN~~Lvfrk 204 (204)
T PF06080_consen 179 LAAAHGLELEEDIDMPANNLLLVFRK 204 (204)
T ss_pred HHHHCCCccCcccccCCCCeEEEEeC
Confidence 99999999999999987666666554
No 17
>PLN02490 MPBQ/MSBQ methyltransferase
Probab=99.01 E-value=3.7e-09 Score=74.22 Aligned_cols=81 Identities=20% Similarity=0.247 Sum_probs=60.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+..+++|++++. .++|+++++.|+|||++++++...++... .+ ...+..+ ...+.+|+.+
T Consensus 178 sFDvVIs~~~L~~~~d~--~~~L~e~~rvLkPGG~LvIi~~~~p~~~~----~r--~~~~~~~-------~~~t~eEl~~ 242 (340)
T PLN02490 178 YADRYVSAGSIEYWPDP--QRGIKEAYRVLKIGGKACLIGPVHPTFWL----SR--FFADVWM-------LFPKEEEYIE 242 (340)
T ss_pred ceeEEEEcChhhhCCCH--HHHHHHHHHhcCCCcEEEEEEecCcchhH----HH--Hhhhhhc-------cCCCHHHHHH
Confidence 48999999999999986 57899999999999999998765443211 11 1112111 1257899999
Q ss_pred HHHHcCCCceEEEEcC
Q 042267 82 LAIEAGFKGINFECNV 97 (107)
Q Consensus 82 ll~~aGf~~~~~~~~~ 97 (107)
+|+++||+.+++.++.
T Consensus 243 lL~~aGF~~V~i~~i~ 258 (340)
T PLN02490 243 WFTKAGFKDVKLKRIG 258 (340)
T ss_pred HHHHCCCeEEEEEEcC
Confidence 9999999999887764
No 18
>PRK11873 arsM arsenite S-adenosylmethyltransferase; Reviewed
Probab=98.98 E-value=7e-09 Score=70.53 Aligned_cols=85 Identities=19% Similarity=0.252 Sum_probs=62.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+++...++|.+++. .++++++++.|+|||++++.+....... +.. ...+..+.. ...+...+.++|.+
T Consensus 146 ~fD~Vi~~~v~~~~~d~--~~~l~~~~r~LkpGG~l~i~~~~~~~~~-~~~-----~~~~~~~~~-~~~~~~~~~~e~~~ 216 (272)
T PRK11873 146 SVDVIISNCVINLSPDK--ERVFKEAFRVLKPGGRFAISDVVLRGEL-PEE-----IRNDAELYA-GCVAGALQEEEYLA 216 (272)
T ss_pred ceeEEEEcCcccCCCCH--HHHHHHHHHHcCCCcEEEEEEeeccCCC-CHH-----HHHhHHHHh-ccccCCCCHHHHHH
Confidence 58999999999998874 6899999999999999999997754321 111 111222221 11345678899999
Q ss_pred HHHHcCCCceEEEE
Q 042267 82 LAIEAGFKGINFEC 95 (107)
Q Consensus 82 ll~~aGf~~~~~~~ 95 (107)
+|+++||..+++..
T Consensus 217 ~l~~aGf~~v~i~~ 230 (272)
T PRK11873 217 MLAEAGFVDITIQP 230 (272)
T ss_pred HHHHCCCCceEEEe
Confidence 99999999987743
No 19
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=98.97 E-value=4.4e-09 Score=73.17 Aligned_cols=85 Identities=8% Similarity=-0.008 Sum_probs=61.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCc--hhhhhhhhhcHHHHhhCCCceecCHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDST--EASRDSFILDAIFLIQIPHGRERTKKEF 79 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~g~~rt~~e~ 79 (107)
.||+|++..++|++++. ...|++++++|+|||.+++.+.+.+...... +..++. .|. . .-...|.+++
T Consensus 188 ~FD~V~s~gvL~H~~dp--~~~L~el~r~LkpGG~Lvletl~i~g~~~~~l~p~~ry~-----k~~--n-v~flpS~~~L 257 (314)
T TIGR00452 188 AFDTVFSMGVLYHRKSP--LEHLKQLKHQLVIKGELVLETLVIDGDLNTVLVPKDRYA-----KMK--N-VYFIPSVSAL 257 (314)
T ss_pred CcCEEEEcchhhccCCH--HHHHHHHHHhcCCCCEEEEEEEEecCccccccCchHHHH-----hcc--c-cccCCCHHHH
Confidence 58999999999999874 6899999999999999999877654332211 001110 010 0 0113588999
Q ss_pred HHHHHHcCCCceEEEEc
Q 042267 80 TALAIEAGFKGINFECN 96 (107)
Q Consensus 80 ~~ll~~aGf~~~~~~~~ 96 (107)
..||+++||+.+++...
T Consensus 258 ~~~L~~aGF~~V~i~~~ 274 (314)
T TIGR00452 258 KNWLEKVGFENFRILDV 274 (314)
T ss_pred HHHHHHCCCeEEEEEec
Confidence 99999999999988754
No 20
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=98.91 E-value=1.7e-08 Score=70.50 Aligned_cols=85 Identities=11% Similarity=0.019 Sum_probs=60.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCc--hhhhhhhhhcHHHHhhCCCceecCHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDST--EASRDSFILDAIFLIQIPHGRERTKKEF 79 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~g~~rt~~e~ 79 (107)
.||+|++..++|+..|. ..+|+++++.|+|||.+++...+.+...... +..++.. |. . .-..+|.+++
T Consensus 189 ~FD~V~s~~vl~H~~dp--~~~L~~l~~~LkpGG~lvl~~~~i~~~~~~~l~p~~~y~~-----~~--~-~~~lps~~~l 258 (322)
T PRK15068 189 AFDTVFSMGVLYHRRSP--LDHLKQLKDQLVPGGELVLETLVIDGDENTVLVPGDRYAK-----MR--N-VYFIPSVPAL 258 (322)
T ss_pred CcCEEEECChhhccCCH--HHHHHHHHHhcCCCcEEEEEEEEecCCCccccCchhHHhc-----Cc--c-ceeCCCHHHH
Confidence 58999999999998874 6899999999999999988766555432211 0011100 00 0 0123689999
Q ss_pred HHHHHHcCCCceEEEEc
Q 042267 80 TALAIEAGFKGINFECN 96 (107)
Q Consensus 80 ~~ll~~aGf~~~~~~~~ 96 (107)
..||+++||+.+++...
T Consensus 259 ~~~L~~aGF~~i~~~~~ 275 (322)
T PRK15068 259 KNWLERAGFKDVRIVDV 275 (322)
T ss_pred HHHHHHcCCceEEEEeC
Confidence 99999999999988754
No 21
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=98.90 E-value=1.2e-08 Score=74.26 Aligned_cols=84 Identities=17% Similarity=0.142 Sum_probs=63.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+...++++++|. .++++++++.|+|||++++.+........... ....+ . ..+....+.+++.+
T Consensus 332 ~fD~I~s~~~l~h~~d~--~~~l~~~~r~LkpgG~l~i~~~~~~~~~~~~~---~~~~~----~--~~g~~~~~~~~~~~ 400 (475)
T PLN02336 332 SFDVIYSRDTILHIQDK--PALFRSFFKWLKPGGKVLISDYCRSPGTPSPE---FAEYI----K--QRGYDLHDVQAYGQ 400 (475)
T ss_pred CEEEEEECCcccccCCH--HHHHHHHHHHcCCCeEEEEEEeccCCCCCcHH---HHHHH----H--hcCCCCCCHHHHHH
Confidence 48999999999999884 68999999999999999999987643321111 11111 1 11445788999999
Q ss_pred HHHHcCCCceEEEEc
Q 042267 82 LAIEAGFKGINFECN 96 (107)
Q Consensus 82 ll~~aGf~~~~~~~~ 96 (107)
+++++||+.+++...
T Consensus 401 ~l~~aGF~~i~~~d~ 415 (475)
T PLN02336 401 MLKDAGFDDVIAEDR 415 (475)
T ss_pred HHHHCCCeeeeeecc
Confidence 999999999877643
No 22
>PLN02244 tocopherol O-methyltransferase
Probab=98.88 E-value=2.8e-08 Score=69.83 Aligned_cols=93 Identities=15% Similarity=0.129 Sum_probs=61.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCC-chhh-hhhhhhcHHHHhhCCCceecCHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDS-TEAS-RDSFILDAIFLIQIPHGRERTKKEF 79 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~-~~~~-~~~~~~~~~~~~~~~~g~~rt~~e~ 79 (107)
.||+|+...++|+++| ..++++++++.|+|||++++.+......... .... ......+-...... .-...+.++|
T Consensus 186 ~FD~V~s~~~~~h~~d--~~~~l~e~~rvLkpGG~lvi~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~~-~p~~~s~~~~ 262 (340)
T PLN02244 186 QFDLVWSMESGEHMPD--KRKFVQELARVAAPGGRIIIVTWCHRDLEPGETSLKPDEQKLLDKICAAYY-LPAWCSTSDY 262 (340)
T ss_pred CccEEEECCchhccCC--HHHHHHHHHHHcCCCcEEEEEEecccccccccccCCHHHHHHHHHHHhhcc-CCCCCCHHHH
Confidence 5899999999999988 4689999999999999999998764322111 0000 00011111000000 1123588999
Q ss_pred HHHHHHcCCCceEEEEcC
Q 042267 80 TALAIEAGFKGINFECNV 97 (107)
Q Consensus 80 ~~ll~~aGf~~~~~~~~~ 97 (107)
.++++++||+.+++....
T Consensus 263 ~~~l~~aGf~~v~~~d~s 280 (340)
T PLN02244 263 VKLAESLGLQDIKTEDWS 280 (340)
T ss_pred HHHHHHCCCCeeEeeeCc
Confidence 999999999999887653
No 23
>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes.
Probab=98.78 E-value=4.3e-08 Score=64.79 Aligned_cols=80 Identities=13% Similarity=0.129 Sum_probs=59.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+...++|++++ ...+++++++.|+|||++++.+...+.. .... . .. . .....+.++|.+
T Consensus 67 ~fD~I~~~~~l~~~~~--~~~~l~~~~~~LkpgG~l~i~~~~~~~~-~~~~--~---~~-------~-~~~~~s~~~~~~ 130 (224)
T smart00828 67 TYDLVFGFEVIHHIKD--KMDLFSNISRHLKDGGHLVLADFIANLL-SAIE--H---EE-------T-TSYLVTREEWAE 130 (224)
T ss_pred CCCEeehHHHHHhCCC--HHHHHHHHHHHcCCCCEEEEEEcccccC-cccc--c---cc-------c-ccccCCHHHHHH
Confidence 5899999999999987 4799999999999999999998754321 1100 0 00 0 111357899999
Q ss_pred HHHHcCCCceEEEEcC
Q 042267 82 LAIEAGFKGINFECNV 97 (107)
Q Consensus 82 ll~~aGf~~~~~~~~~ 97 (107)
+++++||+.++.....
T Consensus 131 ~l~~~Gf~~~~~~~~~ 146 (224)
T smart00828 131 LLARNNLRVVEGVDAS 146 (224)
T ss_pred HHHHCCCeEEEeEECc
Confidence 9999999999887653
No 24
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=98.72 E-value=6.6e-08 Score=65.27 Aligned_cols=88 Identities=11% Similarity=0.033 Sum_probs=54.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhh--hhhcHHH--HhhCCCceecCHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDS--FILDAIF--LIQIPHGRERTKK 77 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~--~~~~~~~--~~~~~~g~~rt~~ 77 (107)
.||+|+++.++|+.+|. .++++++++.|+|||++++..+...+.+......... ..+.... .....+....+.+
T Consensus 89 ~fD~v~~~~~l~~~~d~--~~~l~~~~~~LkpgG~l~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~ 166 (255)
T PRK14103 89 DTDVVVSNAALQWVPEH--ADLLVRWVDELAPGSWIAVQVPGNFDAPSHAAVRALARREPWAKLLRDIPFRVGAVVQTPA 166 (255)
T ss_pred CceEEEEehhhhhCCCH--HHHHHHHHHhCCCCcEEEEEcCCCcCChhHHHHHHHhccCchhHHhcccccccCcCCCCHH
Confidence 58999999999999874 6899999999999999988642211111000000000 0011100 0001122346899
Q ss_pred HHHHHHHHcCCCce
Q 042267 78 EFTALAIEAGFKGI 91 (107)
Q Consensus 78 e~~~ll~~aGf~~~ 91 (107)
++.++|+++||++.
T Consensus 167 ~~~~~l~~aGf~v~ 180 (255)
T PRK14103 167 GYAELLTDAGCKVD 180 (255)
T ss_pred HHHHHHHhCCCeEE
Confidence 99999999999854
No 25
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=98.70 E-value=3.7e-08 Score=68.85 Aligned_cols=86 Identities=13% Similarity=0.097 Sum_probs=59.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcH-HHHhhCCCc-----eecC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDA-IFLIQIPHG-----RERT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~g-----~~rt 75 (107)
.||+|++..++|+++|. ..+|+++++.|+|||.+++....... . ... ...... ....+.+.| +..+
T Consensus 198 ~FD~Vi~~~vLeHv~d~--~~~L~~l~r~LkPGG~liist~nr~~-~--~~~---~~i~~~eyi~~~lp~gth~~~~f~t 269 (322)
T PLN02396 198 KFDAVLSLEVIEHVANP--AEFCKSLSALTIPNGATVLSTINRTM-R--AYA---STIVGAEYILRWLPKGTHQWSSFVT 269 (322)
T ss_pred CCCEEEEhhHHHhcCCH--HHHHHHHHHHcCCCcEEEEEECCcCH-H--HHH---HhhhhHHHHHhcCCCCCcCccCCCC
Confidence 58999999999999985 68999999999999999987643210 0 000 000000 001011122 3578
Q ss_pred HHHHHHHHHHcCCCceEEEE
Q 042267 76 KKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~ 95 (107)
.+|+.++|+++||++.++..
T Consensus 270 p~eL~~lL~~aGf~i~~~~G 289 (322)
T PLN02396 270 PEELSMILQRASVDVKEMAG 289 (322)
T ss_pred HHHHHHHHHHcCCeEEEEee
Confidence 99999999999999988753
No 26
>PRK08317 hypothetical protein; Provisional
Probab=98.66 E-value=2.8e-07 Score=60.81 Aligned_cols=89 Identities=17% Similarity=0.186 Sum_probs=58.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCc-hhhhhhhhhcHHHHhhCCCceecCHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDST-EASRDSFILDAIFLIQIPHGRERTKKEFT 80 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~g~~rt~~e~~ 80 (107)
.||+|++.+++|++++. ..+++++++.|+|||.+++.++........+ ........... .. .......+..+|.
T Consensus 87 ~~D~v~~~~~~~~~~~~--~~~l~~~~~~L~~gG~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~ 161 (241)
T PRK08317 87 SFDAVRSDRVLQHLEDP--ARALAEIARVLRPGGRVVVLDTDWDTLVWHSGDRALMRKILNF--WS-DHFADPWLGRRLP 161 (241)
T ss_pred CceEEEEechhhccCCH--HHHHHHHHHHhcCCcEEEEEecCCCceeecCCChHHHHHHHHH--HH-hcCCCCcHHHHHH
Confidence 58999999999999884 6899999999999999999885432111000 00000011111 10 1122345567899
Q ss_pred HHHHHcCCCceEEEE
Q 042267 81 ALAIEAGFKGINFEC 95 (107)
Q Consensus 81 ~ll~~aGf~~~~~~~ 95 (107)
++++++||+.+++..
T Consensus 162 ~~l~~aGf~~~~~~~ 176 (241)
T PRK08317 162 GLFREAGLTDIEVEP 176 (241)
T ss_pred HHHHHcCCCceeEEE
Confidence 999999999876643
No 27
>PRK11207 tellurite resistance protein TehB; Provisional
Probab=98.64 E-value=2.9e-07 Score=60.08 Aligned_cols=74 Identities=9% Similarity=0.096 Sum_probs=55.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+...++|++++++...++++++++|+|||++++++...+++...+ .+ --...+.+|+.+
T Consensus 95 ~fD~I~~~~~~~~~~~~~~~~~l~~i~~~LkpgG~~~~~~~~~~~~~~~~--------~~--------~~~~~~~~el~~ 158 (197)
T PRK11207 95 EYDFILSTVVLMFLEAKTIPGLIANMQRCTKPGGYNLIVAAMDTADYPCT--------VG--------FPFAFKEGELRR 158 (197)
T ss_pred CcCEEEEecchhhCCHHHHHHHHHHHHHHcCCCcEEEEEEEecCCCCCCC--------CC--------CCCccCHHHHHH
Confidence 58999999999999988899999999999999999888776544321100 00 001257789999
Q ss_pred HHHHcCCCceEE
Q 042267 82 LAIEAGFKGINF 93 (107)
Q Consensus 82 ll~~aGf~~~~~ 93 (107)
+++ ||+.++.
T Consensus 159 ~~~--~~~~~~~ 168 (197)
T PRK11207 159 YYE--GWEMVKY 168 (197)
T ss_pred HhC--CCeEEEe
Confidence 996 8987765
No 28
>PRK11036 putative S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=98.61 E-value=6.6e-08 Score=65.31 Aligned_cols=92 Identities=11% Similarity=0.045 Sum_probs=58.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhh-hhhhh-hcHHH---HhhCCCceecCH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEAS-RDSFI-LDAIF---LIQIPHGRERTK 76 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~-~~~~~-~~~~~---~~~~~~g~~rt~ 76 (107)
.||+|++.+++|++++. ..+|+++++.|+|||.+++............... .+... ..+.. .... -....+.
T Consensus 112 ~fD~V~~~~vl~~~~~~--~~~l~~~~~~LkpgG~l~i~~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-p~~~~~~ 188 (255)
T PRK11036 112 PVDLILFHAVLEWVADP--KSVLQTLWSVLRPGGALSLMFYNANGLLMHNMVAGNFDYVQAGMPKRKKRTLS-PDYPLDP 188 (255)
T ss_pred CCCEEEehhHHHhhCCH--HHHHHHHHHHcCCCeEEEEEEECccHHHHHHHHccChHHHHhcCccccccCCC-CCCCCCH
Confidence 58999999999999875 5899999999999999998765432100000000 00000 00000 0000 1123678
Q ss_pred HHHHHHHHHcCCCceEEEEc
Q 042267 77 KEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~~~~ 96 (107)
+++.++|+++||++++..-+
T Consensus 189 ~~l~~~l~~aGf~~~~~~gi 208 (255)
T PRK11036 189 EQVYQWLEEAGWQIMGKTGV 208 (255)
T ss_pred HHHHHHHHHCCCeEeeeeeE
Confidence 99999999999999876644
No 29
>KOG1540 consensus Ubiquinone biosynthesis methyltransferase COQ5 [Coenzyme transport and metabolism]
Probab=98.60 E-value=2e-07 Score=62.92 Aligned_cols=85 Identities=20% Similarity=0.312 Sum_probs=61.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhh--hhhhcHHH---------------
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRD--SFILDAIF--------------- 64 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~--~~~~~~~~--------------- 64 (107)
.+|.|.+..-+.+|++ ..+.|+++++.|||||++.+.|+-.-+++. ...+ .++++...
T Consensus 177 s~D~yTiafGIRN~th--~~k~l~EAYRVLKpGGrf~cLeFskv~~~~---l~~fy~~ysf~VlpvlG~~iagd~~sYqY 251 (296)
T KOG1540|consen 177 SFDAYTIAFGIRNVTH--IQKALREAYRVLKPGGRFSCLEFSKVENEP---LKWFYDQYSFDVLPVLGEIIAGDRKSYQY 251 (296)
T ss_pred cceeEEEecceecCCC--HHHHHHHHHHhcCCCcEEEEEEccccccHH---HHHHHHhhhhhhhchhhHhhhhhHhhhhh
Confidence 5899999999999999 579999999999999999999987554321 1111 12233221
Q ss_pred HhhCCCceecCHHHHHHHHHHcCCCceE
Q 042267 65 LIQIPHGRERTKKEFTALAIEAGFKGIN 92 (107)
Q Consensus 65 ~~~~~~g~~rt~~e~~~ll~~aGf~~~~ 92 (107)
++.+ =-+..+.+++..+.++|||+...
T Consensus 252 LveS-I~rfp~qe~f~~miedaGF~~~~ 278 (296)
T KOG1540|consen 252 LVES-IRRFPPQEEFASMIEDAGFSSVN 278 (296)
T ss_pred HHhh-hhcCCCHHHHHHHHHHcCCcccc
Confidence 1100 11346779999999999999986
No 30
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=98.59 E-value=2.6e-07 Score=67.42 Aligned_cols=77 Identities=19% Similarity=0.223 Sum_probs=60.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+...++|++++++..++++++++.|+|||++++.|.......... + . ......|+..+|.+
T Consensus 103 ~fD~I~~~~~l~~l~~~~~~~~l~~~~r~Lk~gG~l~~~d~~~~~~~~~~---~---~--------~~~~~~~~~~~~~~ 168 (475)
T PLN02336 103 SVDLIFSNWLLMYLSDKEVENLAERMVKWLKVGGYIFFRESCFHQSGDSK---R---K--------NNPTHYREPRFYTK 168 (475)
T ss_pred CEEEEehhhhHHhCCHHHHHHHHHHHHHhcCCCeEEEEEeccCCCCCccc---c---c--------CCCCeecChHHHHH
Confidence 58999999999999998889999999999999999999998764332110 0 0 11233467889999
Q ss_pred HHHHcCCCceE
Q 042267 82 LAIEAGFKGIN 92 (107)
Q Consensus 82 ll~~aGf~~~~ 92 (107)
++.++||....
T Consensus 169 ~f~~~~~~~~~ 179 (475)
T PLN02336 169 VFKECHTRDED 179 (475)
T ss_pred HHHHheeccCC
Confidence 99999998763
No 31
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=98.58 E-value=6.4e-07 Score=58.38 Aligned_cols=75 Identities=8% Similarity=0.077 Sum_probs=55.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+...++|++++++...++++++++|+|||++++++...++....+ . +.....+.+|+.+
T Consensus 94 ~fD~I~~~~~~~~~~~~~~~~~l~~~~~~LkpgG~lli~~~~~~~~~~~~--------~--------~~~~~~~~~el~~ 157 (195)
T TIGR00477 94 DYDFIFSTVVFMFLQAGRVPEIIANMQAHTRPGGYNLIVAAMDTADYPCH--------M--------PFSFTFKEDELRQ 157 (195)
T ss_pred CCCEEEEecccccCCHHHHHHHHHHHHHHhCCCcEEEEEEecccCCCCCC--------C--------CcCccCCHHHHHH
Confidence 58999999999999988889999999999999999888776543221100 0 0112367899999
Q ss_pred HHHHcCCCceEEE
Q 042267 82 LAIEAGFKGINFE 94 (107)
Q Consensus 82 ll~~aGf~~~~~~ 94 (107)
+|+ +|++....
T Consensus 158 ~f~--~~~~~~~~ 168 (195)
T TIGR00477 158 YYA--DWELLKYN 168 (195)
T ss_pred HhC--CCeEEEee
Confidence 995 68877654
No 32
>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=98.51 E-value=2.4e-07 Score=63.41 Aligned_cols=92 Identities=17% Similarity=0.169 Sum_probs=62.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||.|+.-.++.++..+....+++++.+.|+|||++++.....+..+..........++.- -.+++|...+.+++..
T Consensus 127 ~fD~IvSi~~~Ehvg~~~~~~~f~~~~~~LkpgG~~~lq~i~~~~~~~~~~~~~~~~~i~k---yiFPgg~lps~~~~~~ 203 (273)
T PF02353_consen 127 KFDRIVSIEMFEHVGRKNYPAFFRKISRLLKPGGRLVLQTITHRDPPYHAERRSSSDFIRK---YIFPGGYLPSLSEILR 203 (273)
T ss_dssp S-SEEEEESEGGGTCGGGHHHHHHHHHHHSETTEEEEEEEEEE--HHHHHCTTCCCHHHHH---HTSTTS---BHHHHHH
T ss_pred CCCEEEEEechhhcChhHHHHHHHHHHHhcCCCcEEEEEecccccccchhhcCCCceEEEE---eeCCCCCCCCHHHHHH
Confidence 5899999999999998888999999999999999999987776543211000000011211 1246899999999999
Q ss_pred HHHHcCCCceEEEEc
Q 042267 82 LAIEAGFKGINFECN 96 (107)
Q Consensus 82 ll~~aGf~~~~~~~~ 96 (107)
.++++||++.++...
T Consensus 204 ~~~~~~l~v~~~~~~ 218 (273)
T PF02353_consen 204 AAEDAGLEVEDVENL 218 (273)
T ss_dssp HHHHTT-EEEEEEE-
T ss_pred HHhcCCEEEEEEEEc
Confidence 999999999887654
No 33
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=98.48 E-value=5.3e-07 Score=59.93 Aligned_cols=88 Identities=16% Similarity=0.102 Sum_probs=56.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhh---hhhhcHHHHhhCCCceecCHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRD---SFILDAIFLIQIPHGRERTKKE 78 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~g~~rt~~e 78 (107)
.||+|++.+++++.++. ..+|+++.+.|+|||.+++..... .. ....... ...+..........+...+.++
T Consensus 114 ~fD~Ii~~~~l~~~~~~--~~~l~~~~~~L~~gG~l~v~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 188 (233)
T PRK05134 114 QFDVVTCMEMLEHVPDP--ASFVRACAKLVKPGGLVFFSTLNR--NL-KSYLLAIVGAEYVLRMLPKGTHDYKKFIKPSE 188 (233)
T ss_pred CccEEEEhhHhhccCCH--HHHHHHHHHHcCCCcEEEEEecCC--Ch-HHHHHHHhhHHHHhhhcCcccCchhhcCCHHH
Confidence 58999999999999874 588999999999999998765321 11 0000000 0000000000000123457899
Q ss_pred HHHHHHHcCCCceEEE
Q 042267 79 FTALAIEAGFKGINFE 94 (107)
Q Consensus 79 ~~~ll~~aGf~~~~~~ 94 (107)
|.++++++||++++..
T Consensus 189 ~~~~l~~~Gf~~v~~~ 204 (233)
T PRK05134 189 LAAWLRQAGLEVQDIT 204 (233)
T ss_pred HHHHHHHCCCeEeeee
Confidence 9999999999998775
No 34
>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=98.43 E-value=1.1e-06 Score=60.75 Aligned_cols=85 Identities=11% Similarity=0.042 Sum_probs=61.2
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCc--hhhhhhhhhcHHHHhhCCCceecCHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDST--EASRDSFILDAIFLIQIPHGRERTKKEF 79 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~g~~rt~~e~ 79 (107)
.||+|++..||.|..++ ...|+.++++|+|||.+++--.+.+.+.... +..++..+-+ ---.-|.+.+
T Consensus 182 ~FDtVF~MGVLYHrr~P--l~~L~~Lk~~L~~gGeLvLETlvi~g~~~~~L~P~~rYa~m~n--------v~FiPs~~~L 251 (315)
T PF08003_consen 182 AFDTVFSMGVLYHRRSP--LDHLKQLKDSLRPGGELVLETLVIDGDENTVLVPEDRYAKMRN--------VWFIPSVAAL 251 (315)
T ss_pred CcCEEEEeeehhccCCH--HHHHHHHHHhhCCCCEEEEEEeeecCCCceEEccCCcccCCCc--------eEEeCCHHHH
Confidence 58999999999888874 8999999999999999987655555433210 1111110000 1124689999
Q ss_pred HHHHHHcCCCceEEEEc
Q 042267 80 TALAIEAGFKGINFECN 96 (107)
Q Consensus 80 ~~ll~~aGf~~~~~~~~ 96 (107)
..|++.+||+.+++..+
T Consensus 252 ~~wl~r~gF~~v~~v~~ 268 (315)
T PF08003_consen 252 KNWLERAGFKDVRCVDV 268 (315)
T ss_pred HHHHHHcCCceEEEecC
Confidence 99999999999998765
No 35
>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=98.42 E-value=6.7e-07 Score=58.97 Aligned_cols=86 Identities=15% Similarity=0.183 Sum_probs=57.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHH-hhCCC-----ceecC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFL-IQIPH-----GRERT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~-----g~~rt 75 (107)
.||++++.+++|+.++. ..+|+++++.|+|||.+++.....+. .... ....+.... ...+. ....+
T Consensus 112 ~~D~i~~~~~l~~~~~~--~~~l~~~~~~L~~gG~l~i~~~~~~~---~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~ 183 (224)
T TIGR01983 112 SFDVVTCMEVLEHVPDP--QAFIRACAQLLKPGGILFFSTINRTP---KSYL---LAIVGAEYILRIVPKGTHDWEKFIK 183 (224)
T ss_pred CccEEEehhHHHhCCCH--HHHHHHHHHhcCCCcEEEEEecCCCc---hHHH---HHHHhhhhhhhcCCCCcCChhhcCC
Confidence 58999999999999885 58999999999999999886542211 0000 000000000 00011 12357
Q ss_pred HHHHHHHHHHcCCCceEEEE
Q 042267 76 KKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~ 95 (107)
..+|.++++++||+++++..
T Consensus 184 ~~~l~~~l~~~G~~i~~~~~ 203 (224)
T TIGR01983 184 PSELTSWLESAGLRVKDVKG 203 (224)
T ss_pred HHHHHHHHHHcCCeeeeeee
Confidence 88999999999999987753
No 36
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=98.40 E-value=2.9e-06 Score=58.38 Aligned_cols=74 Identities=12% Similarity=0.117 Sum_probs=55.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
+||+|+...++|+.++++...+++++++.|+|||.++++.....+....+. +.-...+.+|+++
T Consensus 184 ~fD~I~~~~vl~~l~~~~~~~~l~~~~~~LkpgG~~l~v~~~~~~~~~~~~----------------p~~~~~~~~el~~ 247 (287)
T PRK12335 184 EYDFILSTVVLMFLNRERIPAIIKNMQEHTNPGGYNLIVCAMDTEDYPCPM----------------PFSFTFKEGELKD 247 (287)
T ss_pred CccEEEEcchhhhCCHHHHHHHHHHHHHhcCCCcEEEEEEecccccCCCCC----------------CCCcccCHHHHHH
Confidence 589999999999999888899999999999999998887665433211110 0112357889999
Q ss_pred HHHHcCCCceEE
Q 042267 82 LAIEAGFKGINF 93 (107)
Q Consensus 82 ll~~aGf~~~~~ 93 (107)
++ .+|++++.
T Consensus 248 ~~--~~~~i~~~ 257 (287)
T PRK12335 248 YY--QDWEIVKY 257 (287)
T ss_pred Hh--CCCEEEEE
Confidence 99 46888765
No 37
>PF08242 Methyltransf_12: Methyltransferase domain; InterPro: IPR013217 Methyl transfer from the ubiquitous donor S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] Fatty acid synthase (2.3.1.85 from EC), a biosynthetic enzyme catalysing the formation of long-chain fatty acids Glycine N-methyltransferase (2.1.1.20 from EC) which catalyses the SAM-dependent methylation of glycine to form sarcosine and may play a role in regulating the methylation potential of the cell [] Enniatin synthetase, involved in non-ribosomal biosynthesis of cyclohexadepsipeptidase, enniatin [] Histamine N-methyltransferase (2.1.1.8 from EC), a SAM-dependent histamine-inactivating enzyme [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ].; PDB: 2VZ8_A 2VZ9_A.
Probab=98.33 E-value=4.2e-07 Score=52.75 Aligned_cols=34 Identities=29% Similarity=0.488 Sum_probs=24.2
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKV 37 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l 37 (107)
+||+|++.+++|++++ ...+++++++.|+|||++
T Consensus 66 ~fD~V~~~~vl~~l~~--~~~~l~~~~~~L~pgG~l 99 (99)
T PF08242_consen 66 SFDLVVASNVLHHLED--IEAVLRNIYRLLKPGGIL 99 (99)
T ss_dssp --SEEEEE-TTS--S---HHHHHHHHTTT-TSS-EE
T ss_pred ccceehhhhhHhhhhh--HHHHHHHHHHHcCCCCCC
Confidence 6999999999999955 579999999999999986
No 38
>PRK04266 fibrillarin; Provisional
Probab=98.32 E-value=5.4e-06 Score=55.40 Aligned_cols=79 Identities=16% Similarity=0.025 Sum_probs=50.0
Q ss_pred eeEEEecccccCCChHH-HHHHHHHHHhhCCCCCEEEEE-eeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHH
Q 042267 3 VYLSILQWMLHNFDDEN-CIKILRNCYKALPNDGKVLVI-NSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFT 80 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~-~~~iL~~~~~aL~pgg~l~i~-e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~ 80 (107)
+|+++ |+.++++ ...+|+++++.|+|||+++|. .. .+.+...+ ...+ .++..
T Consensus 142 ~D~i~-----~d~~~p~~~~~~L~~~~r~LKpGG~lvI~v~~-~~~d~~~~-------------------~~~~-~~~~~ 195 (226)
T PRK04266 142 VDVIY-----QDVAQPNQAEIAIDNAEFFLKDGGYLLLAIKA-RSIDVTKD-------------------PKEI-FKEEI 195 (226)
T ss_pred CCEEE-----ECCCChhHHHHHHHHHHHhcCCCcEEEEEEec-ccccCcCC-------------------HHHH-HHHHH
Confidence 45554 6665543 456789999999999999994 32 11111000 0011 24556
Q ss_pred HHHHHcCCCceEEEEcCCc---eeEEEEEC
Q 042267 81 ALAIEAGFKGINFECNVCN---SYVMEFYK 107 (107)
Q Consensus 81 ~ll~~aGf~~~~~~~~~~~---~~vi~~~~ 107 (107)
++++++||+.++.....++ +..+.+++
T Consensus 196 ~~l~~aGF~~i~~~~l~p~~~~h~~~v~~~ 225 (226)
T PRK04266 196 RKLEEGGFEILEVVDLEPYHKDHAAVVARK 225 (226)
T ss_pred HHHHHcCCeEEEEEcCCCCcCCeEEEEEEc
Confidence 9999999999998877544 66666643
No 39
>PF08241 Methyltransf_11: Methyltransferase domain; InterPro: IPR013216 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (SAM) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalyzed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. This entry represents a methyltransferase domain found in a large variety of SAM-dependent methyltransferases including, but not limited to: Arsenite methyltransferase (2.1.1.137 from EC) which converts arsenical compounds to their methylated forms [] Biotin synthesis protein bioC, which is involved in the early stages of biotin biosyntheis [] Arginine N-methyltransferase 1, an arginine-methylating enzyme which acts on residues present in a glycine and argine-rich domain and can methylate histones [] Hexaprenyldihydroxybenzoate methyltransferase (2.1.1.114 from EC), a mitochodrial enzyme involved in ubiquinone biosynthesis [] A probable cobalt-precorrin-6Y C(15)-methyltransferase thought to be involved in adenosylcobalamin biosynthesis [] Sterol 24-C-methyltransferase (2.1.1.41 from EC), shown to participate in ergosterol biosynthesis [] 3-demethylubiquinone-9 3-methyltransferase (2.1.1.64 from EC) involved in ubiquinone biosynthesis [] Structural studies show that this domain forms the Rossman-like alpha-beta fold typical of SAM-dependent methyltransferases [, , ]. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 3CGG_B 3CCF_B 3BKW_B 2PXX_A 3I9F_A 2YQZ_B 2YR0_A 3BUS_A 3EGE_A 3G5L_B ....
Probab=98.31 E-value=5.1e-07 Score=51.33 Aligned_cols=36 Identities=22% Similarity=0.441 Sum_probs=32.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i 39 (107)
.+|+++..+++|++++ ..++++++++.|||||++++
T Consensus 60 sfD~v~~~~~~~~~~~--~~~~l~e~~rvLk~gG~l~~ 95 (95)
T PF08241_consen 60 SFDVVFSNSVLHHLED--PEAALREIYRVLKPGGRLVI 95 (95)
T ss_dssp -EEEEEEESHGGGSSH--HHHHHHHHHHHEEEEEEEEE
T ss_pred cccccccccceeeccC--HHHHHHHHHHHcCcCeEEeC
Confidence 5899999999999944 68999999999999999976
No 40
>KOG4300 consensus Predicted methyltransferase [General function prediction only]
Probab=98.31 E-value=7.7e-06 Score=53.94 Aligned_cols=89 Identities=16% Similarity=0.142 Sum_probs=60.2
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhh-hhhhcHHHHhhCCCceecCHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRD-SFILDAIFLIQIPHGRERTKKEFT 80 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~g~~rt~~e~~ 80 (107)
.||+|+-..+|-...| .++.|+++++.|+|||+++.+|.+..+-..-+ +. ....+-.--. ...|=..+... .
T Consensus 145 s~DtVV~TlvLCSve~--~~k~L~e~~rlLRpgG~iifiEHva~~y~~~n---~i~q~v~ep~~~~-~~dGC~ltrd~-~ 217 (252)
T KOG4300|consen 145 SYDTVVCTLVLCSVED--PVKQLNEVRRLLRPGGRIIFIEHVAGEYGFWN---RILQQVAEPLWHL-ESDGCVLTRDT-G 217 (252)
T ss_pred CeeeEEEEEEEeccCC--HHHHHHHHHHhcCCCcEEEEEecccccchHHH---HHHHHHhchhhhe-eccceEEehhH-H
Confidence 5899999999988887 58999999999999999999999875443211 11 0111110001 12444556644 4
Q ss_pred HHHHHcCCCceEEEEcC
Q 042267 81 ALAIEAGFKGINFECNV 97 (107)
Q Consensus 81 ~ll~~aGf~~~~~~~~~ 97 (107)
+.|++|.|+..+..+.+
T Consensus 218 e~Leda~f~~~~~kr~~ 234 (252)
T KOG4300|consen 218 ELLEDAEFSIDSCKRFN 234 (252)
T ss_pred HHhhhcccccchhhccc
Confidence 56667899998887764
No 41
>smart00138 MeTrc Methyltransferase, chemotaxis proteins. Methylates methyl-accepting chemotaxis proteins to form gamma-glutamyl methyl ester residues.
Probab=98.24 E-value=1.6e-06 Score=59.17 Aligned_cols=40 Identities=23% Similarity=0.252 Sum_probs=37.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.||+|+.++++|++++++..+++++++++|+|||.+++-.
T Consensus 203 ~fD~I~crnvl~yf~~~~~~~~l~~l~~~L~pGG~L~lg~ 242 (264)
T smart00138 203 DFDLIFCRNVLIYFDEPTQRKLLNRFAEALKPGGYLFLGH 242 (264)
T ss_pred CCCEEEechhHHhCCHHHHHHHHHHHHHHhCCCeEEEEEC
Confidence 5899999999999999889999999999999999999864
No 42
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=98.22 E-value=5.3e-06 Score=56.99 Aligned_cols=88 Identities=24% Similarity=0.272 Sum_probs=70.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||-|+.-.+++++..+.-...++++++.|+|||+++++....+..+.. ....+..- -+++||...|.+++.+
T Consensus 137 ~fDrIvSvgmfEhvg~~~~~~ff~~~~~~L~~~G~~llh~I~~~~~~~~----~~~~~i~~---yiFPgG~lPs~~~i~~ 209 (283)
T COG2230 137 PFDRIVSVGMFEHVGKENYDDFFKKVYALLKPGGRMLLHSITGPDQEFR----RFPDFIDK---YIFPGGELPSISEILE 209 (283)
T ss_pred ccceeeehhhHHHhCcccHHHHHHHHHhhcCCCceEEEEEecCCCcccc----cchHHHHH---hCCCCCcCCCHHHHHH
Confidence 4899999999999999888999999999999999999998777654431 11112211 1257999999999999
Q ss_pred HHHHcCCCceEEEEc
Q 042267 82 LAIEAGFKGINFECN 96 (107)
Q Consensus 82 ll~~aGf~~~~~~~~ 96 (107)
..+++||.+.+....
T Consensus 210 ~~~~~~~~v~~~~~~ 224 (283)
T COG2230 210 LASEAGFVVLDVESL 224 (283)
T ss_pred HHHhcCcEEehHhhh
Confidence 999999999877544
No 43
>KOG2361 consensus Predicted methyltransferase [General function prediction only]
Probab=98.19 E-value=4.7e-06 Score=55.93 Aligned_cols=87 Identities=20% Similarity=0.273 Sum_probs=63.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhh--hhhhcHHHHhhCCCce---ecCH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRD--SFILDAIFLIQIPHGR---ERTK 76 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~g~---~rt~ 76 (107)
..|.+.+-.+|...+.+.-.+.++++++.|+|||.|+.-|+-..+-.. .++ ...++-+..+ ..+|. -.+.
T Consensus 144 svD~it~IFvLSAi~pek~~~a~~nl~~llKPGG~llfrDYg~~Dlaq----lRF~~~~~i~~nfYV-RgDGT~~YfF~~ 218 (264)
T KOG2361|consen 144 SVDIITLIFVLSAIHPEKMQSVIKNLRTLLKPGGSLLFRDYGRYDLAQ----LRFKKGQCISENFYV-RGDGTRAYFFTE 218 (264)
T ss_pred ccceEEEEEEEeccChHHHHHHHHHHHHHhCCCcEEEEeecccchHHH----HhccCCceeecceEE-ccCCceeeeccH
Confidence 579999999999999999999999999999999999999986543210 011 0111111122 12343 2789
Q ss_pred HHHHHHHHHcCCCceEE
Q 042267 77 KEFTALAIEAGFKGINF 93 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~ 93 (107)
++++.|+.+|||..++.
T Consensus 219 eeL~~~f~~agf~~~~~ 235 (264)
T KOG2361|consen 219 EELDELFTKAGFEEVQL 235 (264)
T ss_pred HHHHHHHHhcccchhcc
Confidence 99999999999998754
No 44
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=98.17 E-value=1.2e-05 Score=57.58 Aligned_cols=86 Identities=13% Similarity=0.114 Sum_probs=62.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+...++++.++.....+++++++.|+|||++++.+...+....... .+.+- .. .++|...+.+++.+
T Consensus 228 ~fD~Ivs~~~~ehvg~~~~~~~l~~i~r~LkpGG~lvl~~i~~~~~~~~~~-----~~i~~--yi-fp~g~lps~~~i~~ 299 (383)
T PRK11705 228 QFDRIVSVGMFEHVGPKNYRTYFEVVRRCLKPDGLFLLHTIGSNKTDTNVD-----PWINK--YI-FPNGCLPSVRQIAQ 299 (383)
T ss_pred CCCEEEEeCchhhCChHHHHHHHHHHHHHcCCCcEEEEEEccCCCCCCCCC-----CCcee--ee-cCCCcCCCHHHHHH
Confidence 589999999999998877789999999999999999998765443221110 11111 11 35777888999888
Q ss_pred HHHHcCCCceEEEEc
Q 042267 82 LAIEAGFKGINFECN 96 (107)
Q Consensus 82 ll~~aGf~~~~~~~~ 96 (107)
.++ .||.+.++...
T Consensus 300 ~~~-~~~~v~d~~~~ 313 (383)
T PRK11705 300 ASE-GLFVMEDWHNF 313 (383)
T ss_pred HHH-CCcEEEEEecC
Confidence 876 58988776544
No 45
>PRK06202 hypothetical protein; Provisional
Probab=98.15 E-value=1.2e-05 Score=53.57 Aligned_cols=85 Identities=19% Similarity=0.192 Sum_probs=56.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhh-----CCCc-----
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQ-----IPHG----- 71 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~g----- 71 (107)
.||+|+++.++|+++|++..++|+++++.++ |.+++.|...+. . . +........... ..++
T Consensus 129 ~fD~V~~~~~lhh~~d~~~~~~l~~~~r~~~--~~~~i~dl~~~~-~-~-----~~~~~~~~~~~~~~~~~~~d~~~s~~ 199 (232)
T PRK06202 129 RFDVVTSNHFLHHLDDAEVVRLLADSAALAR--RLVLHNDLIRSR-L-A-----YALFWAGTRLLSRSSFVHTDGLLSVR 199 (232)
T ss_pred CccEEEECCeeecCChHHHHHHHHHHHHhcC--eeEEEeccccCH-H-H-----HHHHHHHHHHhccCceeeccchHHHH
Confidence 5899999999999999888899999999987 566665544321 0 0 000011000000 0011
Q ss_pred eecCHHHHHHHHHHcCCCceEEEEc
Q 042267 72 RERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 72 ~~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
+.+|.+|+.+++++ ||++....+.
T Consensus 200 ~~~~~~el~~ll~~-Gf~~~~~~~~ 223 (232)
T PRK06202 200 RSYTPAELAALAPQ-GWRVERQWPF 223 (232)
T ss_pred hhcCHHHHHHHhhC-CCeEEeccce
Confidence 34789999999999 9998766544
No 46
>PRK05785 hypothetical protein; Provisional
Probab=98.14 E-value=3.1e-05 Score=51.68 Aligned_cols=101 Identities=11% Similarity=-0.011 Sum_probs=61.2
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCc----------
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHG---------- 71 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g---------- 71 (107)
.||++++...+|+++|. .+.|+++++.|+| .+.++|...|+++.......+....-+..+...-++
T Consensus 110 sfD~v~~~~~l~~~~d~--~~~l~e~~RvLkp--~~~ile~~~p~~~~~~~~~~~y~~~~~P~~~~~~~~~~~~Y~yl~~ 185 (226)
T PRK05785 110 SFDVVMSSFALHASDNI--EKVIAEFTRVSRK--QVGFIAMGKPDNVIKRKYLSFYLRYIMPYIACLAGAKCRDYKYIYY 185 (226)
T ss_pred CEEEEEecChhhccCCH--HHHHHHHHHHhcC--ceEEEEeCCCCcHHHHHHHHHHHHHHHHHHHHHhcCChHHHHHHHH
Confidence 58999999999999884 6899999999999 355666655443211100011000000001000011
Q ss_pred ---eecCHHHHHHHHHHcCCCceEEEEcC-CceeEEEEEC
Q 042267 72 ---RERTKKEFTALAIEAGFKGINFECNV-CNSYVMEFYK 107 (107)
Q Consensus 72 ---~~rt~~e~~~ll~~aGf~~~~~~~~~-~~~~vi~~~~ 107 (107)
...+.+++.++++++| ..++..... |..++..++|
T Consensus 186 si~~f~~~~~~~~~~~~~~-~~~~~~~~~~G~~~~~~~~k 224 (226)
T PRK05785 186 IYERLPTNSFHREIFEKYA-DIKVYEERGLGLVYFVVGSS 224 (226)
T ss_pred HHHHCCCHHHHHHHHHHHh-CceEEEEccccEEEEEEEee
Confidence 1257799999999974 666666664 5667777665
No 47
>TIGR00537 hemK_rel_arch HemK-related putative methylase. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. This model represents an archaeal and eukaryotic protein family that lacks an N-terminal domain found in HemK and its eubacterial homologs. It is found in a single copy in the first six completed archaeal and eukaryotic genomes.
Probab=98.12 E-value=3.9e-05 Score=49.18 Aligned_cols=77 Identities=16% Similarity=0.057 Sum_probs=58.0
Q ss_pred ceeEEEecccccCCChHH-------------------HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcH
Q 042267 2 QVYLSILQWMLHNFDDEN-------------------CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDA 62 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~-------------------~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~ 62 (107)
.||+++++..+|..+++. ..++++++.+.|+|||++++++....
T Consensus 82 ~fD~Vi~n~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~Lk~gG~~~~~~~~~~----------------- 144 (179)
T TIGR00537 82 KFDVILFNPPYLPLEDDLRRGDWLDVAIDGGKDGRKVIDRFLDELPEILKEGGRVQLIQSSLN----------------- 144 (179)
T ss_pred cccEEEECCCCCCCcchhcccchhhhhhhcCCchHHHHHHHHHhHHHhhCCCCEEEEEEeccC-----------------
Confidence 589999988887665421 35789999999999999999763211
Q ss_pred HHHhhCCCceecCHHHHHHHHHHcCCCceEEEEcCCceeEEEEEC
Q 042267 63 IFLIQIPHGRERTKKEFTALAIEAGFKGINFECNVCNSYVMEFYK 107 (107)
Q Consensus 63 ~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~~~~~~vi~~~~ 107 (107)
...++.++++++||+...+..-+-++--++++|
T Consensus 145 ------------~~~~~~~~l~~~gf~~~~~~~~~~~~~~~~~~~ 177 (179)
T TIGR00537 145 ------------GEPDTFDKLDERGFRYEIVAERGLFFEELFAIK 177 (179)
T ss_pred ------------ChHHHHHHHHhCCCeEEEEEEeecCceEEEEEE
Confidence 146778899999999988877766666666554
No 48
>PF13847 Methyltransf_31: Methyltransferase domain; PDB: 3T0I_B 3SVZ_B 3SXJ_A 3F4K_A 3GU3_B 2GH1_A 1R8Y_E 1R8X_B 2B3T_A 1T43_A ....
Probab=98.09 E-value=1.5e-06 Score=54.22 Aligned_cols=80 Identities=23% Similarity=0.260 Sum_probs=52.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+...++|++++. ..+++++.+.|++||.+++.+....+.-. ........ ...........+. +.++|..
T Consensus 73 ~~D~I~~~~~l~~~~~~--~~~l~~~~~~lk~~G~~i~~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~--~~~~~~~ 146 (152)
T PF13847_consen 73 KFDIIISNGVLHHFPDP--EKVLKNIIRLLKPGGILIISDPNHNDELP-EQLEELMN-LYSEVWSMIYIGN--DKEEWKY 146 (152)
T ss_dssp TEEEEEEESTGGGTSHH--HHHHHHHHHHEEEEEEEEEEEEEHSHHHH-HHHHHHHH-HHHHHHHHCC-----CCCGHHH
T ss_pred CeeEEEEcCchhhccCH--HHHHHHHHHHcCCCcEEEEEECChHHHHH-HHHHHHHH-HHHHHhhhhhccc--CHHHHHH
Confidence 69999999999999985 58999999999999999999987321110 01111011 0011111111222 7889999
Q ss_pred HHHHcC
Q 042267 82 LAIEAG 87 (107)
Q Consensus 82 ll~~aG 87 (107)
+|++||
T Consensus 147 ~~~~ag 152 (152)
T PF13847_consen 147 ILEEAG 152 (152)
T ss_dssp HHHHTT
T ss_pred HHHhcC
Confidence 999998
No 49
>PRK07580 Mg-protoporphyrin IX methyl transferase; Validated
Probab=98.09 E-value=3.3e-05 Score=51.02 Aligned_cols=85 Identities=15% Similarity=0.089 Sum_probs=55.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhh-----CCCceecCH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQ-----IPHGRERTK 76 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~g~~rt~ 76 (107)
.||+++...++|++++++...+++++.+.+++++ ++.. .+..+.. .........+ .......+.
T Consensus 127 ~fD~v~~~~~l~~~~~~~~~~~l~~l~~~~~~~~-~i~~---~~~~~~~-------~~~~~l~~~~~~~~~~~~~~~~~~ 195 (230)
T PRK07580 127 RFDTVVCLDVLIHYPQEDAARMLAHLASLTRGSL-IFTF---APYTPLL-------ALLHWIGGLFPGPSRTTRIYPHRE 195 (230)
T ss_pred CcCEEEEcchhhcCCHHHHHHHHHHHHhhcCCeE-EEEE---CCccHHH-------HHHHHhccccCCccCCCCccccCH
Confidence 5899999999999999889999999998764433 3332 1211100 0011000000 112334688
Q ss_pred HHHHHHHHHcCCCceEEEEcC
Q 042267 77 KEFTALAIEAGFKGINFECNV 97 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~~~~~ 97 (107)
++|.++++++||++.++.+..
T Consensus 196 ~~~~~~l~~~Gf~~~~~~~~~ 216 (230)
T PRK07580 196 KGIRRALAAAGFKVVRTERIS 216 (230)
T ss_pred HHHHHHHHHCCCceEeeeecc
Confidence 999999999999999887764
No 50
>PF04672 Methyltransf_19: S-adenosyl methyltransferase; InterPro: IPR006764 This is a family of uncharacterised proteins.; PDB: 3GIW_A 3GO4_A 2QE6_A.
Probab=98.08 E-value=4.5e-06 Score=56.87 Aligned_cols=80 Identities=20% Similarity=0.249 Sum_probs=49.2
Q ss_pred EEEecccccCCCh-HHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHH
Q 042267 5 LSILQWMLHNFDD-ENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALA 83 (107)
Q Consensus 5 ~v~~~~vlh~~~d-~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll 83 (107)
.+++..+||+.+| ++...+++.++++|.||+.|+|.....+..+. .... .....-.. ...+..||.+|+.++|
T Consensus 153 avll~~vLh~v~D~~dp~~iv~~l~d~lapGS~L~ish~t~d~~p~--~~~~---~~~~~~~~-~~~~~~Rs~~ei~~~f 226 (267)
T PF04672_consen 153 AVLLVAVLHFVPDDDDPAGIVARLRDALAPGSYLAISHATDDGAPE--RAEA---LEAVYAQA-GSPGRPRSREEIAAFF 226 (267)
T ss_dssp EEEECT-GGGS-CGCTHHHHHHHHHCCS-TT-EEEEEEEB-TTSHH--HHHH---HHHHHHHC-CS----B-HHHHHHCC
T ss_pred eeeeeeeeccCCCccCHHHHHHHHHHhCCCCceEEEEecCCCCCHH--HHHH---HHHHHHcC-CCCceecCHHHHHHHc
Confidence 5788999999988 67999999999999999999999876543321 1111 11111111 2246789999999999
Q ss_pred HHcCCCceE
Q 042267 84 IEAGFKGIN 92 (107)
Q Consensus 84 ~~aGf~~~~ 92 (107)
.||+.++
T Consensus 227 --~g~elve 233 (267)
T PF04672_consen 227 --DGLELVE 233 (267)
T ss_dssp --TTSEE-T
T ss_pred --CCCccCC
Confidence 5998764
No 51
>PRK06922 hypothetical protein; Provisional
Probab=98.06 E-value=8.2e-06 Score=61.65 Aligned_cols=46 Identities=22% Similarity=0.383 Sum_probs=40.0
Q ss_pred ceeEEEecccccCC-----------ChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCC
Q 042267 2 QVYLSILQWMLHNF-----------DDENCIKILRNCYKALPNDGKVLVINSTLPEV 47 (107)
Q Consensus 2 ~~D~v~~~~vlh~~-----------~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~ 47 (107)
.+|+|+++.++|+| ++++..++|++++++|+|||++++.|.+.++.
T Consensus 487 SFDvVVsn~vLH~L~syIp~~g~~f~~edl~kiLreI~RVLKPGGrLII~D~v~~E~ 543 (677)
T PRK06922 487 SVDTIVYSSILHELFSYIEYEGKKFNHEVIKKGLQSAYEVLKPGGRIIIRDGIMTED 543 (677)
T ss_pred CEEEEEEchHHHhhhhhcccccccccHHHHHHHHHHHHHHcCCCcEEEEEeCccCCc
Confidence 58999999999976 34678999999999999999999999876644
No 52
>TIGR02072 BioC biotin biosynthesis protein BioC. This enzyme, which is found in biotin biosynthetic gene clusters in proteobacteria, firmicutes, green-sulfur bacteria, fusobacterium and bacteroides, is believed to carry out an enzymatic step prior to the formation of pimeloyl-CoA (although attribution of this annotation is not traceable). The enzyme appears related to methyltransferases by homology.
Probab=98.06 E-value=3.8e-05 Score=50.68 Aligned_cols=78 Identities=18% Similarity=0.109 Sum_probs=55.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+..+++|+.++ ..++|+++++.|+|||.+++.++...... .. ...+. ..+....+.++|.+
T Consensus 98 ~fD~vi~~~~l~~~~~--~~~~l~~~~~~L~~~G~l~~~~~~~~~~~---~~---~~~~~------~~~~~~~~~~~~~~ 163 (240)
T TIGR02072 98 SFDLIVSNLALQWCDD--LSQALSELARVLKPGGLLAFSTFGPGTLH---EL---RQSFG------QHGLRYLSLDELKA 163 (240)
T ss_pred ceeEEEEhhhhhhccC--HHHHHHHHHHHcCCCcEEEEEeCCccCHH---HH---HHHHH------HhccCCCCHHHHHH
Confidence 5899999999998877 46899999999999999998764332110 00 00111 01334568899999
Q ss_pred HHHHcCCCceEEE
Q 042267 82 LAIEAGFKGINFE 94 (107)
Q Consensus 82 ll~~aGf~~~~~~ 94 (107)
+++++ |+.....
T Consensus 164 ~l~~~-f~~~~~~ 175 (240)
T TIGR02072 164 LLKNS-FELLTLE 175 (240)
T ss_pred HHHHh-cCCcEEE
Confidence 99988 8876543
No 53
>TIGR03438 probable methyltransferase. This model represents a distinct set of uncharacterized proteins found in the bacteria. Analysis by PSI-BLAST shows remote sequence homology to methyltransferases
Probab=98.04 E-value=1.3e-05 Score=55.49 Aligned_cols=36 Identities=22% Similarity=0.272 Sum_probs=32.0
Q ss_pred eEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEE
Q 042267 4 YLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 4 D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i 39 (107)
.++++.+.+|+++++++..+|++++++|+|||.+++
T Consensus 140 ~~~~~gs~~~~~~~~e~~~~L~~i~~~L~pgG~~li 175 (301)
T TIGR03438 140 LGFFPGSTIGNFTPEEAVAFLRRIRQLLGPGGGLLI 175 (301)
T ss_pred EEEEecccccCCCHHHHHHHHHHHHHhcCCCCEEEE
Confidence 356666789999999999999999999999999986
No 54
>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase. This model represents the S-adenosylmethionine-dependent O-methyltransferase responsible for methylation of magnesium protoporphyrin IX. This step is essentiasl for the biosynthesis of both chlorophyll and bacteriochlorophyll. This model encompasses two closely related clades, from cyanobacteria (and plants) where it is called ChlM and other photosynthetic bacteria where it is known as BchM.
Probab=98.02 E-value=2.5e-05 Score=51.59 Aligned_cols=88 Identities=9% Similarity=-0.001 Sum_probs=55.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHh--hCCCceecCHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLI--QIPHGRERTKKEF 79 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~g~~rt~~e~ 79 (107)
.||++++..+++++++++..++++++++.+++++.+.+ .+.... .. ....+...... ....-..++.+++
T Consensus 119 ~fD~ii~~~~l~~~~~~~~~~~l~~i~~~~~~~~~i~~----~~~~~~---~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 190 (219)
T TIGR02021 119 EFDIVVCMDVLIHYPASDMAKALGHLASLTKERVIFTF----APKTAW---LA-FLKMIGELFPGSSRATSAYLHPMTDL 190 (219)
T ss_pred CcCEEEEhhHHHhCCHHHHHHHHHHHHHHhCCCEEEEE----CCCchH---HH-HHHHHHhhCcCcccccceEEecHHHH
Confidence 58999999999999887788999999998876544332 122111 00 00011110000 0011234689999
Q ss_pred HHHHHHcCCCceEEEEcC
Q 042267 80 TALAIEAGFKGINFECNV 97 (107)
Q Consensus 80 ~~ll~~aGf~~~~~~~~~ 97 (107)
.++++++||+++......
T Consensus 191 ~~~l~~~Gf~v~~~~~~~ 208 (219)
T TIGR02021 191 ERALGELGWKIVREGLVS 208 (219)
T ss_pred HHHHHHcCceeeeeeccc
Confidence 999999999999886553
No 55
>PRK10611 chemotaxis methyltransferase CheR; Provisional
Probab=98.02 E-value=6.7e-06 Score=56.75 Aligned_cols=40 Identities=20% Similarity=0.203 Sum_probs=37.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.+|+|+..|++.+++++...+++++++++|+|||.|++-.
T Consensus 223 ~fD~I~cRNvliyF~~~~~~~vl~~l~~~L~pgG~L~lG~ 262 (287)
T PRK10611 223 PFDAIFCRNVMIYFDKTTQERILRRFVPLLKPDGLLFAGH 262 (287)
T ss_pred CcceeeHhhHHhcCCHHHHHHHHHHHHHHhCCCcEEEEeC
Confidence 6899999999999999999999999999999999887754
No 56
>COG2227 UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]
Probab=97.99 E-value=5.4e-06 Score=55.56 Aligned_cols=87 Identities=20% Similarity=0.175 Sum_probs=60.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcH-HHHhhCCCc-----eecC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDA-IFLIQIPHG-----RERT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~g-----~~rt 75 (107)
+||+|+...||+|.+|+ ..++++|.+.+||||.+++...... . .+.....+.. ..+.+.+.| +...
T Consensus 124 ~FDvV~cmEVlEHv~dp--~~~~~~c~~lvkP~G~lf~STinrt--~----ka~~~~i~~ae~vl~~vP~gTH~~~k~ir 195 (243)
T COG2227 124 QFDVVTCMEVLEHVPDP--ESFLRACAKLVKPGGILFLSTINRT--L----KAYLLAIIGAEYVLRIVPKGTHDYRKFIK 195 (243)
T ss_pred CccEEEEhhHHHccCCH--HHHHHHHHHHcCCCcEEEEeccccC--H----HHHHHHHHHHHHHHHhcCCcchhHHHhcC
Confidence 69999999999999996 4699999999999999988765421 1 1111111110 011123344 3466
Q ss_pred HHHHHHHHHHcCCCceEEEEc
Q 042267 76 KKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~ 96 (107)
.+|...++.++|+...+...+
T Consensus 196 p~El~~~~~~~~~~~~~~~g~ 216 (243)
T COG2227 196 PAELIRWLLGANLKIIDRKGL 216 (243)
T ss_pred HHHHHHhcccCCceEEeecce
Confidence 789999999999998877543
No 57
>PF12147 Methyltransf_20: Putative methyltransferase; InterPro: IPR022744 This C-terminal region is found in bacteria and eukaryotes and is approximately 110 amino acids in length. It is found in association with PF00561 from PFAM. Many members are annotated as being lysophospholipases, and others as alpha-beta hydrolase fold-containing proteins. This domain belongs to the S-adenosyl-L-methionine-dependent methyltransferases superfamily.
Probab=97.98 E-value=9.2e-05 Score=51.13 Aligned_cols=96 Identities=19% Similarity=0.224 Sum_probs=65.0
Q ss_pred ceeEEEecccccCCChHH-HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCc-----eecC
Q 042267 2 QVYLSILQWMLHNFDDEN-CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHG-----RERT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~-~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g-----~~rt 75 (107)
..++++.+..+-.++|.+ +...|+.+++++.|||.++....-.. |.. + ++.-....+ .+| +.||
T Consensus 209 ~P~l~iVsGL~ElF~Dn~lv~~sl~gl~~al~pgG~lIyTgQPwH-----PQl-e---~IAr~LtsH-r~g~~WvMRrRs 278 (311)
T PF12147_consen 209 APTLAIVSGLYELFPDNDLVRRSLAGLARALEPGGYLIYTGQPWH-----PQL-E---MIARVLTSH-RDGKAWVMRRRS 278 (311)
T ss_pred CCCEEEEecchhhCCcHHHHHHHHHHHHHHhCCCcEEEEcCCCCC-----cch-H---HHHHHHhcc-cCCCceEEEecC
Confidence 358999999999999977 45579999999999999977542221 111 0 111111111 133 4699
Q ss_pred HHHHHHHHHHcCCCceEE-EEcCCceeEEEEEC
Q 042267 76 KKEFTALAIEAGFKGINF-ECNVCNSYVMEFYK 107 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~-~~~~~~~~vi~~~~ 107 (107)
+.|..+|+++|||+.++. ..--+.++|-.+++
T Consensus 279 q~EmD~Lv~~aGF~K~~q~ID~~GIFTVSlA~r 311 (311)
T PF12147_consen 279 QAEMDQLVEAAGFEKIDQRIDEWGIFTVSLARR 311 (311)
T ss_pred HHHHHHHHHHcCCchhhheeccCCceEEEeecC
Confidence 999999999999997654 33346777776654
No 58
>PF12847 Methyltransf_18: Methyltransferase domain; PDB: 3G2Q_A 3G2O_A 3G2M_B 3G2P_B 3D2L_B 1IM8_B 3NJR_A 3E05_H 3EVZ_A 3HM2_A ....
Probab=97.96 E-value=1.3e-05 Score=47.15 Aligned_cols=40 Identities=18% Similarity=0.225 Sum_probs=34.2
Q ss_pred ceeEEEecc-cccCCCh-HHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQW-MLHNFDD-ENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~-vlh~~~d-~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
+||+++... .+|++.+ ++..++|+++++.|+|||+++|.+
T Consensus 70 ~~D~v~~~~~~~~~~~~~~~~~~~l~~~~~~L~pgG~lvi~~ 111 (112)
T PF12847_consen 70 PFDLVICSGFTLHFLLPLDERRRVLERIRRLLKPGGRLVINT 111 (112)
T ss_dssp CEEEEEECSGSGGGCCHHHHHHHHHHHHHHHEEEEEEEEEEE
T ss_pred CCCEEEECCCccccccchhHHHHHHHHHHHhcCCCcEEEEEE
Confidence 589999999 6665544 678999999999999999999865
No 59
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=97.92 E-value=5.8e-05 Score=50.91 Aligned_cols=84 Identities=11% Similarity=0.009 Sum_probs=51.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhh-----hhhcHHHHhhC-CCceecC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDS-----FILDAIFLIQI-PHGRERT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~-----~~~~~~~~~~~-~~g~~rt 75 (107)
.+|+++.+.++|..+|. .+++++++++|+|||++++.- +.+...+...... ..+...+.... ......+
T Consensus 93 ~fD~v~~~~~l~~~~d~--~~~l~~~~~~LkpgG~~~~~~---~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~ 167 (258)
T PRK01683 93 ALDLIFANASLQWLPDH--LELFPRLVSLLAPGGVLAVQM---PDNLDEPSHVLMREVAENGPWEQNLPDRGARRAPLPP 167 (258)
T ss_pred CccEEEEccChhhCCCH--HHHHHHHHHhcCCCcEEEEEC---CCCCCCHHHHHHHHHHccCchHHHhccccccCcCCCC
Confidence 58999999999988874 689999999999999998852 2222111000000 00111110000 0123356
Q ss_pred HHHHHHHHHHcCCCc
Q 042267 76 KKEFTALAIEAGFKG 90 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~ 90 (107)
..++.+++.++|+.+
T Consensus 168 ~~~~~~~l~~~g~~v 182 (258)
T PRK01683 168 PHAYYDALAPAACRV 182 (258)
T ss_pred HHHHHHHHHhCCCce
Confidence 788999999999864
No 60
>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=97.91 E-value=7.9e-05 Score=50.64 Aligned_cols=84 Identities=17% Similarity=0.176 Sum_probs=54.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCC------C--CCchhhhhhhhhcHHHHhhCCCcee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEV------P--DSTEASRDSFILDAIFLIQIPHGRE 73 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~------~--~~~~~~~~~~~~~~~~~~~~~~g~~ 73 (107)
+||+|...|+|-.-.++ ..+|+.++++|+|+|++++.= +.|-. . ..++. ...++ ....-+
T Consensus 151 ~fDvIscLNvLDRc~~P--~~LL~~i~~~l~p~G~lilAv-VlP~~pyVE~~~g~~~~P~----e~l~~-----~g~~~E 218 (265)
T PF05219_consen 151 KFDVISCLNVLDRCDRP--LTLLRDIRRALKPNGRLILAV-VLPFRPYVEFGGGKSNRPS----ELLPV-----KGATFE 218 (265)
T ss_pred ceEEEeehhhhhccCCH--HHHHHHHHHHhCCCCEEEEEE-EecccccEEcCCCCCCCch----hhcCC-----CCCcHH
Confidence 68999999999777664 899999999999999998863 22211 1 00110 01111 101112
Q ss_pred cCHHHHHHHHHHcCCCceEEEEcC
Q 042267 74 RTKKEFTALAIEAGFKGINFECNV 97 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~~~~~~~ 97 (107)
-..+.+-..|+.+||++.+..+.|
T Consensus 219 ~~v~~l~~v~~p~GF~v~~~tr~P 242 (265)
T PF05219_consen 219 EQVSSLVNVFEPAGFEVERWTRLP 242 (265)
T ss_pred HHHHHHHHHHHhcCCEEEEEeccC
Confidence 223444578899999999988765
No 61
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=97.91 E-value=3.7e-05 Score=53.80 Aligned_cols=81 Identities=11% Similarity=0.093 Sum_probs=50.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCC------ceecC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPH------GRERT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------g~~rt 75 (107)
.||+|+...++|++++++...+++++.+ +.+| .++|. ..+...... ......- . .++ ....+
T Consensus 212 ~fD~Vv~~~vL~H~p~~~~~~ll~~l~~-l~~g-~liIs--~~p~~~~~~----~l~~~g~--~--~~g~~~~~r~y~~s 279 (315)
T PLN02585 212 KYDTVTCLDVLIHYPQDKADGMIAHLAS-LAEK-RLIIS--FAPKTLYYD----ILKRIGE--L--FPGPSKATRAYLHA 279 (315)
T ss_pred CcCEEEEcCEEEecCHHHHHHHHHHHHh-hcCC-EEEEE--eCCcchHHH----HHHHHHh--h--cCCCCcCceeeeCC
Confidence 5899999999999999887888888885 4554 44442 222211000 0000100 0 111 12348
Q ss_pred HHHHHHHHHHcCCCceEEE
Q 042267 76 KKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~ 94 (107)
.++++++|+++||++.+..
T Consensus 280 ~eel~~lL~~AGf~v~~~~ 298 (315)
T PLN02585 280 EADVERALKKAGWKVARRE 298 (315)
T ss_pred HHHHHHHHHHCCCEEEEEE
Confidence 9999999999999987654
No 62
>PLN03075 nicotianamine synthase; Provisional
Probab=97.91 E-value=1.5e-05 Score=55.19 Aligned_cols=37 Identities=16% Similarity=0.284 Sum_probs=34.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i 39 (107)
+||+|++. ++|+|+.++..++|+++++.|+|||.+++
T Consensus 195 ~FDlVF~~-ALi~~dk~~k~~vL~~l~~~LkPGG~Lvl 231 (296)
T PLN03075 195 EYDVVFLA-ALVGMDKEEKVKVIEHLGKHMAPGALLML 231 (296)
T ss_pred CcCEEEEe-cccccccccHHHHHHHHHHhcCCCcEEEE
Confidence 68999999 99999877789999999999999999977
No 63
>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=97.89 E-value=1.2e-05 Score=52.74 Aligned_cols=40 Identities=23% Similarity=0.297 Sum_probs=34.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.+|+|+.+|||-.++++...+++++++++|+|||.|++-.
T Consensus 136 ~fD~I~CRNVlIYF~~~~~~~vl~~l~~~L~pgG~L~lG~ 175 (196)
T PF01739_consen 136 RFDLIFCRNVLIYFDPETQQRVLRRLHRSLKPGGYLFLGH 175 (196)
T ss_dssp -EEEEEE-SSGGGS-HHHHHHHHHHHGGGEEEEEEEEE-T
T ss_pred CccEEEecCEEEEeCHHHHHHHHHHHHHHcCCCCEEEEec
Confidence 6899999999999999999999999999999999998854
No 64
>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=97.87 E-value=1.8e-05 Score=51.69 Aligned_cols=74 Identities=15% Similarity=0.101 Sum_probs=51.6
Q ss_pred ceeEEEecccccCCCh-HHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHH
Q 042267 2 QVYLSILQWMLHNFDD-ENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFT 80 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d-~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~ 80 (107)
.||+|+++-++|.+++ ++...+++++.++|+|||.+++..... + ....+. .....+...
T Consensus 106 ~FDLIV~SEVlYYL~~~~~L~~~l~~l~~~L~pgG~LV~g~~rd-~---------~c~~wg----------h~~ga~tv~ 165 (201)
T PF05401_consen 106 RFDLIVLSEVLYYLDDAEDLRAALDRLVAALAPGGHLVFGHARD-A---------NCRRWG----------HAAGAETVL 165 (201)
T ss_dssp -EEEEEEES-GGGSSSHHHHHHHHHHHHHTEEEEEEEEEEEE-H-H---------HHHHTT-----------S--HHHHH
T ss_pred CeeEEEEehHhHcCCCHHHHHHHHHHHHHHhCCCCEEEEEEecC-C---------cccccC----------cccchHHHH
Confidence 6999999999999986 678999999999999999999977521 0 111122 223578889
Q ss_pred HHHHHcCCCceEEEEc
Q 042267 81 ALAIEAGFKGINFECN 96 (107)
Q Consensus 81 ~ll~~aGf~~~~~~~~ 96 (107)
++|++. |+.++....
T Consensus 166 ~~~~~~-~~~~~~~~~ 180 (201)
T PF05401_consen 166 EMLQEH-LTEVERVEC 180 (201)
T ss_dssp HHHHHH-SEEEEEEEE
T ss_pred HHHHHH-hhheeEEEE
Confidence 999875 666655443
No 65
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=97.84 E-value=9.9e-05 Score=49.63 Aligned_cols=80 Identities=13% Similarity=0.067 Sum_probs=53.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+.+..+|..+| ...+|+++++.|+|||.+++..+.....+ +........+. . .....-.+.+++.+
T Consensus 103 ~fD~V~s~~~l~~~~d--~~~~l~~~~~~Lk~gG~l~~~~~~~~~~~---el~~~~~~~~~---~-~~~~~~~~~~~l~~ 173 (251)
T PRK10258 103 TFDLAWSNLAVQWCGN--LSTALRELYRVVRPGGVVAFTTLVQGSLP---ELHQAWQAVDE---R-PHANRFLPPDAIEQ 173 (251)
T ss_pred cEEEEEECchhhhcCC--HHHHHHHHHHHcCCCeEEEEEeCCCCchH---HHHHHHHHhcc---C-CccccCCCHHHHHH
Confidence 5899999999987776 47899999999999999999775432211 11110000110 0 00123468899999
Q ss_pred HHHHcCCCc
Q 042267 82 LAIEAGFKG 90 (107)
Q Consensus 82 ll~~aGf~~ 90 (107)
++++.|++.
T Consensus 174 ~l~~~~~~~ 182 (251)
T PRK10258 174 ALNGWRYQH 182 (251)
T ss_pred HHHhCCcee
Confidence 999888764
No 66
>PF13649 Methyltransf_25: Methyltransferase domain; PDB: 3BXO_B 3GGD_A 3PX2_A 3PX3_A 3PFH_D 3PFG_A 1Y8C_A.
Probab=97.72 E-value=2.8e-05 Score=45.26 Aligned_cols=34 Identities=24% Similarity=0.328 Sum_probs=30.6
Q ss_pred ceeEEEec-ccccCCChHHHHHHHHHHHhhCCCCC
Q 042267 2 QVYLSILQ-WMLHNFDDENCIKILRNCYKALPNDG 35 (107)
Q Consensus 2 ~~D~v~~~-~vlh~~~d~~~~~iL~~~~~aL~pgg 35 (107)
.||+|+.+ .++|++++++..++++++++.|+|||
T Consensus 67 ~~D~v~~~~~~~~~~~~~~~~~ll~~~~~~l~pgG 101 (101)
T PF13649_consen 67 KFDLVVCSGLSLHHLSPEELEALLRRIARLLRPGG 101 (101)
T ss_dssp SEEEEEE-TTGGGGSSHHHHHHHHHHHHHTEEEEE
T ss_pred CeeEEEEcCCccCCCCHHHHHHHHHHHHHHhCCCC
Confidence 68999995 55999999999999999999999997
No 67
>PTZ00146 fibrillarin; Provisional
Probab=97.72 E-value=0.0007 Score=46.96 Aligned_cols=79 Identities=13% Similarity=-0.072 Sum_probs=47.2
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHH
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTAL 82 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~l 82 (107)
+|+|++... .+| +...++.++++.|+|||.++|.-.....+..+++ . ...+ +|. ++
T Consensus 203 vDvV~~Dva---~pd-q~~il~~na~r~LKpGG~~vI~ika~~id~g~~p----------e--------~~f~-~ev-~~ 258 (293)
T PTZ00146 203 VDVIFADVA---QPD-QARIVALNAQYFLKNGGHFIISIKANCIDSTAKP----------E--------VVFA-SEV-QK 258 (293)
T ss_pred CCEEEEeCC---Ccc-hHHHHHHHHHHhccCCCEEEEEEeccccccCCCH----------H--------HHHH-HHH-HH
Confidence 677766553 122 3566778999999999999993111111111110 0 0012 445 88
Q ss_pred HHHcCCCceEEEEcCC---ceeEEEE
Q 042267 83 AIEAGFKGINFECNVC---NSYVMEF 105 (107)
Q Consensus 83 l~~aGf~~~~~~~~~~---~~~vi~~ 105 (107)
|+++||+.++...+.+ .++++.+
T Consensus 259 L~~~GF~~~e~v~L~Py~~~h~~v~~ 284 (293)
T PTZ00146 259 LKKEGLKPKEQLTLEPFERDHAVVIG 284 (293)
T ss_pred HHHcCCceEEEEecCCccCCcEEEEE
Confidence 9999999988887753 4555554
No 68
>PF11968 DUF3321: Putative methyltransferase (DUF3321); InterPro: IPR021867 This family is conserved in fungi and is annotated as being a nucleolar protein.
Probab=97.71 E-value=0.00029 Score=46.72 Aligned_cols=73 Identities=18% Similarity=0.267 Sum_probs=58.6
Q ss_pred ceeEEEecccccCCChH-HHHHHHHHHHhhCCCCCE-----EEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecC
Q 042267 2 QVYLSILQWMLHNFDDE-NCIKILRNCYKALPNDGK-----VLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~-~~~~iL~~~~~aL~pgg~-----l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt 75 (107)
.||+|.++-||-..|++ +..++|+++++.|+|+|. |+|+= |.. .+ . |++--+
T Consensus 104 ~FdvIs~SLVLNfVP~p~~RG~Ml~r~~~fL~~~g~~~~~~LFlVl---P~~-----------------Cv-~-NSRy~~ 161 (219)
T PF11968_consen 104 KFDVISLSLVLNFVPDPKQRGEMLRRAHKFLKPPGLSLFPSLFLVL---PLP-----------------CV-T-NSRYMT 161 (219)
T ss_pred ceeEEEEEEEEeeCCCHHHHHHHHHHHHHHhCCCCccCcceEEEEe---Cch-----------------Hh-h-cccccC
Confidence 58999999999999974 488999999999999999 66642 211 11 2 666678
Q ss_pred HHHHHHHHHHcCCCceEEEEc
Q 042267 76 KKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~ 96 (107)
.+.|.++++..||+.++....
T Consensus 162 ~~~l~~im~~LGf~~~~~~~~ 182 (219)
T PF11968_consen 162 EERLREIMESLGFTRVKYKKS 182 (219)
T ss_pred HHHHHHHHHhCCcEEEEEEec
Confidence 899999999999999887544
No 69
>PF03848 TehB: Tellurite resistance protein TehB; InterPro: IPR015985 Tellurite resistance protein TehB is part of a tellurite-reducing operon tehA and tehB. When present in high copy number, TehB is responsible for potassium tellurite resistance, probably by increasing the reduction rate of tellurite to metallic tellurium within the bacterium. TehB is a cytoplasmic protein which possesses three conserved motifs (I, II, and III) found in S-adenosyl-L-methionine (SAM)-dependent non-nucleic acid methyltransferases []. Conformational changes in TehB are observed upon binding of both tellurite and SAM, suggesting that TehB utilises a methyltransferase activity in the detoxification of tellurite. This entry represents the methyltransferase domain found in all TehB proteins.; PDB: 2KW5_A 3MER_B 3M70_A 2I6G_A 4DQ0_D 2XVA_B 2XVM_A.
Probab=97.63 E-value=0.00013 Score=47.73 Aligned_cols=74 Identities=11% Similarity=0.016 Sum_probs=50.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
+||+|+...+++..+.+...++++++.++++|||..++...+..++. +.+ .+ ..-....+|+.+
T Consensus 94 ~yD~I~st~v~~fL~~~~~~~i~~~m~~~~~pGG~~li~~~~~~~d~-p~~-------~~--------~~f~~~~~EL~~ 157 (192)
T PF03848_consen 94 EYDFIVSTVVFMFLQRELRPQIIENMKAATKPGGYNLIVTFMETPDY-PCP-------SP--------FPFLLKPGELRE 157 (192)
T ss_dssp TEEEEEEESSGGGS-GGGHHHHHHHHHHTEEEEEEEEEEEEB--SSS---S-------S----------S--B-TTHHHH
T ss_pred CcCEEEEEEEeccCCHHHHHHHHHHHHhhcCCcEEEEEEEecccCCC-CCC-------CC--------CCcccCHHHHHH
Confidence 58999998999999999899999999999999999988766532221 110 00 111245678888
Q ss_pred HHHHcCCCceEE
Q 042267 82 LAIEAGFKGINF 93 (107)
Q Consensus 82 ll~~aGf~~~~~ 93 (107)
.+ +|+++++.
T Consensus 158 ~y--~dW~il~y 167 (192)
T PF03848_consen 158 YY--ADWEILKY 167 (192)
T ss_dssp HT--TTSEEEEE
T ss_pred Hh--CCCeEEEE
Confidence 88 57887654
No 70
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=97.52 E-value=0.0014 Score=43.66 Aligned_cols=73 Identities=16% Similarity=0.108 Sum_probs=52.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCC-CCchhhhhhhhhcHHHHhhCCCceecCHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVP-DSTEASRDSFILDAIFLIQIPHGRERTKKEFT 80 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~ 80 (107)
.+|+++-+.++|+++.+...+.++++.++|+|||+++++-...++.. .+++ ...|.+|++
T Consensus 116 ~fd~v~D~~~~~~l~~~~R~~~~~~l~~lL~pgG~~~l~~~~~~~~~~~gPp-------------------~~~~~~el~ 176 (218)
T PRK13255 116 DVDAVYDRAALIALPEEMRERYVQQLAALLPAGCRGLLVTLDYPQEELAGPP-------------------FSVSDEEVE 176 (218)
T ss_pred CeeEEEehHhHhhCCHHHHHHHHHHHHHHcCCCCeEEEEEEEeCCccCCCCC-------------------CCCCHHHHH
Confidence 47999999999999999999999999999999998666544433221 1110 125789999
Q ss_pred HHHHHcCCCceEEE
Q 042267 81 ALAIEAGFKGINFE 94 (107)
Q Consensus 81 ~ll~~aGf~~~~~~ 94 (107)
+++.. +|++..+.
T Consensus 177 ~~~~~-~~~i~~~~ 189 (218)
T PRK13255 177 ALYAG-CFEIELLE 189 (218)
T ss_pred HHhcC-CceEEEee
Confidence 99953 36665544
No 71
>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=97.50 E-value=4.3e-05 Score=45.44 Aligned_cols=87 Identities=18% Similarity=0.220 Sum_probs=45.7
Q ss_pred ceeEEEecccc---c-CCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHH
Q 042267 2 QVYLSILQWML---H-NFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKK 77 (107)
Q Consensus 2 ~~D~v~~~~vl---h-~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~ 77 (107)
+||+|+...|. | +|.|+....+++++++.|+|||.+++ |+-.=.+-.. ..+.......+. ..-....+
T Consensus 1 ~yDvilclSVtkWIHLn~GD~Gl~~~f~~~~~~L~pGG~lil-EpQ~w~sY~~--~~~~~~~~~~n~-----~~i~lrP~ 72 (110)
T PF06859_consen 1 QYDVILCLSVTKWIHLNWGDEGLKRFFRRIYSLLRPGGILIL-EPQPWKSYKK--AKRLSEEIRENY-----KSIKLRPD 72 (110)
T ss_dssp -EEEEEEES-HHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEE-E---HHHHHT--TTTS-HHHHHHH-----HH----GG
T ss_pred CccEEEEEEeeEEEEecCcCHHHHHHHHHHHHhhCCCCEEEE-eCCCcHHHHH--HhhhhHHHHhHH-----hceEEChH
Confidence 58999887764 4 78899999999999999999999965 5321000000 000000011111 11112345
Q ss_pred HHHHHHHH--cCCCceEEEEc
Q 042267 78 EFTALAIE--AGFKGINFECN 96 (107)
Q Consensus 78 e~~~ll~~--aGf~~~~~~~~ 96 (107)
++.++|.+ .||+..+....
T Consensus 73 ~F~~~L~~~evGF~~~e~~~~ 93 (110)
T PF06859_consen 73 QFEDYLLEPEVGFSSVEELGV 93 (110)
T ss_dssp GHHHHHTSTTT---EEEEE--
T ss_pred HHHHHHHhcccceEEEEEccc
Confidence 78888887 59998876544
No 72
>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]
Probab=97.48 E-value=0.00021 Score=48.70 Aligned_cols=86 Identities=16% Similarity=0.198 Sum_probs=59.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCc-----eecCH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHG-----RERTK 76 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g-----~~rt~ 76 (107)
.||+|+.+-+++|..|. ..+++.+.+.|+|||+++|......- . ... ...+.+-..+.+.+.| +-.+.
T Consensus 158 ~fDaVvcsevleHV~dp--~~~l~~l~~~lkP~G~lfittinrt~-l--S~~--~~i~~~E~vl~ivp~Gth~~ekfi~p 230 (282)
T KOG1270|consen 158 KFDAVVCSEVLEHVKDP--QEFLNCLSALLKPNGRLFITTINRTI-L--SFA--GTIFLAEIVLRIVPKGTHTWEKFINP 230 (282)
T ss_pred ccceeeeHHHHHHHhCH--HHHHHHHHHHhCCCCceEeeehhhhH-H--Hhh--ccccHHHHHHHhcCCCCcCHHHcCCH
Confidence 58999999999999984 79999999999999999997754321 1 000 0011111112112333 34788
Q ss_pred HHHHHHHHHcCCCceEEE
Q 042267 77 KEFTALAIEAGFKGINFE 94 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~~ 94 (107)
+|..++++.+|+++..+.
T Consensus 231 ~e~~~~l~~~~~~v~~v~ 248 (282)
T KOG1270|consen 231 EELTSILNANGAQVNDVV 248 (282)
T ss_pred HHHHHHHHhcCcchhhhh
Confidence 999999999999887664
No 73
>TIGR02081 metW methionine biosynthesis protein MetW. This protein is found alongside MetX, of the enzyme that acylates homoserine as a first step toward methionine biosynthesis, in many species. It appears to act in methionine biosynthesis but is not fully characterized.
Probab=97.43 E-value=0.00059 Score=44.26 Aligned_cols=85 Identities=16% Similarity=0.087 Sum_probs=49.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHH---------HhhCCCce
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIF---------LIQIPHGR 72 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~g~ 72 (107)
.||+|++.+++|+.+| ..++|+++.+.++ .+++.- |...... .+......-.+ ....+..+
T Consensus 75 sfD~Vi~~~~l~~~~d--~~~~l~e~~r~~~---~~ii~~---p~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 144 (194)
T TIGR02081 75 SFDYVILSQTLQATRN--PEEILDEMLRVGR---HAIVSF---PNFGYWR--VRWSILTKGRMPVTGELPYDWYNTPNIH 144 (194)
T ss_pred CcCEEEEhhHhHcCcC--HHHHHHHHHHhCC---eEEEEc---CChhHHH--HHHHHHhCCccccCCCCCccccCCCCcc
Confidence 5899999999999987 4678888877654 443321 1110000 00000000000 00011234
Q ss_pred ecCHHHHHHHHHHcCCCceEEEEc
Q 042267 73 ERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 73 ~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
..+.+++.++++++||++++....
T Consensus 145 ~~s~~~~~~ll~~~Gf~v~~~~~~ 168 (194)
T TIGR02081 145 FCTIADFEDLCGELNLRILDRAAF 168 (194)
T ss_pred cCcHHHHHHHHHHCCCEEEEEEEe
Confidence 678999999999999999887543
No 74
>COG1352 CheR Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=97.40 E-value=0.00027 Score=48.46 Aligned_cols=40 Identities=25% Similarity=0.314 Sum_probs=37.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
++|+|+.+|||=.++.+...+++++.+.+|+|||.|++-.
T Consensus 202 ~fD~IfCRNVLIYFd~~~q~~il~~f~~~L~~gG~LflG~ 241 (268)
T COG1352 202 KFDLIFCRNVLIYFDEETQERILRRFADSLKPGGLLFLGH 241 (268)
T ss_pred CCCEEEEcceEEeeCHHHHHHHHHHHHHHhCCCCEEEEcc
Confidence 5899999999999999999999999999999999998854
No 75
>TIGR03840 TMPT_Se_Te thiopurine S-methyltransferase, Se/Te detoxification family. Members of this family are thiopurine S-methyltransferase from a branch in which at least some member proteins can perform selenium methylation as a means to detoxify selenium, or perform a related detoxification of tellurium. Note that the EC number definition does not specify a particular thiopurine, but rather represents a class of activity.
Probab=97.39 E-value=0.00059 Score=45.22 Aligned_cols=72 Identities=14% Similarity=0.020 Sum_probs=52.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCC-CchhhhhhhhhcHHHHhhCCCceecCHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPD-STEASRDSFILDAIFLIQIPHGRERTKKEFT 80 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~ 80 (107)
.||.++-+.++|+++.+...+.++++.++|+|||+++++-...++... +++ ...+.+|++
T Consensus 113 ~fD~i~D~~~~~~l~~~~R~~~~~~l~~lLkpgG~~ll~~~~~~~~~~~gpp-------------------~~~~~~eL~ 173 (213)
T TIGR03840 113 PVDAVYDRAALIALPEEMRQRYAAHLLALLPPGARQLLITLDYDQSEMAGPP-------------------FSVSPAEVE 173 (213)
T ss_pred CcCEEEechhhccCCHHHHHHHHHHHHHHcCCCCeEEEEEEEcCCCCCCCcC-------------------CCCCHHHHH
Confidence 479999999999999998999999999999999998777655432211 110 125788999
Q ss_pred HHHHHcCCCceEE
Q 042267 81 ALAIEAGFKGINF 93 (107)
Q Consensus 81 ~ll~~aGf~~~~~ 93 (107)
++|+. +|.+..+
T Consensus 174 ~~f~~-~~~i~~~ 185 (213)
T TIGR03840 174 ALYGG-HYEIELL 185 (213)
T ss_pred HHhcC-CceEEEE
Confidence 99863 4555544
No 76
>PF05148 Methyltransf_8: Hypothetical methyltransferase; InterPro: IPR007823 This family consists of uncharacterised eukaryotic proteins which are related to S-adenosyl-L-methionine-dependent methyltransferases.; GO: 0008168 methyltransferase activity; PDB: 2ZFU_B.
Probab=97.34 E-value=0.00081 Score=44.53 Aligned_cols=76 Identities=17% Similarity=0.139 Sum_probs=53.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.+|+++++-.|-..+= ...++++.+.|+|||.|.|.|... + + - +.+++.+
T Consensus 122 svDv~VfcLSLMGTn~---~~fi~EA~RvLK~~G~L~IAEV~S---R-------f---~--------------~~~~F~~ 171 (219)
T PF05148_consen 122 SVDVAVFCLSLMGTNW---PDFIREANRVLKPGGILKIAEVKS---R-------F---E--------------NVKQFIK 171 (219)
T ss_dssp -EEEEEEES---SS-H---HHHHHHHHHHEEEEEEEEEEEEGG---G-----------S---------------HHHHHH
T ss_pred ceeEEEEEhhhhCCCc---HHHHHHHHheeccCcEEEEEEecc---c-------C---c--------------CHHHHHH
Confidence 4799999988865544 679999999999999999999432 1 1 0 3478888
Q ss_pred HHHHcCCCceEEEEcCCceeEEEEEC
Q 042267 82 LAIEAGFKGINFECNVCNSYVMEFYK 107 (107)
Q Consensus 82 ll~~aGf~~~~~~~~~~~~~vi~~~~ 107 (107)
.++..||+..........+.+++++|
T Consensus 172 ~~~~~GF~~~~~d~~n~~F~~f~F~K 197 (219)
T PF05148_consen 172 ALKKLGFKLKSKDESNKHFVLFEFKK 197 (219)
T ss_dssp HHHCTTEEEEEEE--STTEEEEEEEE
T ss_pred HHHHCCCeEEecccCCCeEEEEEEEE
Confidence 89999999987644456778887765
No 77
>KOG3045 consensus Predicted RNA methylase involved in rRNA processing [RNA processing and modification]
Probab=97.31 E-value=0.0019 Score=44.20 Aligned_cols=76 Identities=14% Similarity=0.180 Sum_probs=55.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.+|+++++-.|...+ ...+++++++.|+|||.+.|.|.- ++ +. +..++.+
T Consensus 228 svDvaV~CLSLMgtn---~~df~kEa~RiLk~gG~l~IAEv~---SR----------f~--------------dv~~f~r 277 (325)
T KOG3045|consen 228 SVDVAVFCLSLMGTN---LADFIKEANRILKPGGLLYIAEVK---SR----------FS--------------DVKGFVR 277 (325)
T ss_pred cccEEEeeHhhhccc---HHHHHHHHHHHhccCceEEEEehh---hh----------cc--------------cHHHHHH
Confidence 468888877774443 367999999999999999998832 11 11 2345888
Q ss_pred HHHHcCCCceEEEEcCCceeEEEEEC
Q 042267 82 LAIEAGFKGINFECNVCNSYVMEFYK 107 (107)
Q Consensus 82 ll~~aGf~~~~~~~~~~~~~vi~~~~ 107 (107)
-|...||.+....-....+.++++.|
T Consensus 278 ~l~~lGF~~~~~d~~n~~F~lfefkK 303 (325)
T KOG3045|consen 278 ALTKLGFDVKHKDVSNKYFTLFEFKK 303 (325)
T ss_pred HHHHcCCeeeehhhhcceEEEEEEec
Confidence 88999999877655567788888764
No 78
>PRK00517 prmA ribosomal protein L11 methyltransferase; Reviewed
Probab=97.29 E-value=0.0046 Score=41.77 Aligned_cols=69 Identities=12% Similarity=0.050 Sum_probs=48.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+++.+- . .+....+++++.+.|+|||.+++.+.... ..+++.+
T Consensus 179 ~fD~Vvani-~----~~~~~~l~~~~~~~LkpgG~lilsgi~~~-----------------------------~~~~v~~ 224 (250)
T PRK00517 179 KADVIVANI-L----ANPLLELAPDLARLLKPGGRLILSGILEE-----------------------------QADEVLE 224 (250)
T ss_pred CcCEEEEcC-c----HHHHHHHHHHHHHhcCCCcEEEEEECcHh-----------------------------hHHHHHH
Confidence 478887642 2 23356789999999999999998643210 2357788
Q ss_pred HHHHcCCCceEEEEcCCceeEEE
Q 042267 82 LAIEAGFKGINFECNVCNSYVME 104 (107)
Q Consensus 82 ll~~aGf~~~~~~~~~~~~~vi~ 104 (107)
.+++.||+..+....+...+++-
T Consensus 225 ~l~~~Gf~~~~~~~~~~W~~~~~ 247 (250)
T PRK00517 225 AYEEAGFTLDEVLERGEWVALVG 247 (250)
T ss_pred HHHHCCCEEEEEEEeCCEEEEEE
Confidence 89999999988877665555543
No 79
>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=97.12 E-value=0.00059 Score=46.49 Aligned_cols=80 Identities=15% Similarity=0.068 Sum_probs=55.0
Q ss_pred ceeEEEecccccCCC--hHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHH
Q 042267 2 QVYLSILQWMLHNFD--DENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEF 79 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~--d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~ 79 (107)
++|++++..+|-... .++-.+.++|+.+.|||||.|+++... ..+. ..--...+. .-..+++.+
T Consensus 158 ~~D~v~s~fcLE~a~~d~~~y~~al~ni~~lLkpGG~Lil~~~l-~~t~----Y~vG~~~F~---------~l~l~ee~v 223 (256)
T PF01234_consen 158 KFDCVISSFCLESACKDLDEYRRALRNISSLLKPGGHLILAGVL-GSTY----YMVGGHKFP---------CLPLNEEFV 223 (256)
T ss_dssp SEEEEEEESSHHHH-SSHHHHHHHHHHHHTTEEEEEEEEEEEES-S-SE----EEETTEEEE------------B-HHHH
T ss_pred chhhhhhhHHHHHHcCCHHHHHHHHHHHHHHcCCCcEEEEEEEc-Ccee----EEECCEecc---------cccCCHHHH
Confidence 399999999996553 456899999999999999999998754 2220 000000011 112578999
Q ss_pred HHHHHHcCCCceEEEE
Q 042267 80 TALAIEAGFKGINFEC 95 (107)
Q Consensus 80 ~~ll~~aGf~~~~~~~ 95 (107)
++-|+++||.+.+...
T Consensus 224 ~~al~~aG~~i~~~~~ 239 (256)
T PF01234_consen 224 REALEEAGFDIEDLEK 239 (256)
T ss_dssp HHHHHHTTEEEEEEEG
T ss_pred HHHHHHcCCEEEeccc
Confidence 9999999999888764
No 80
>PF07942 N2227: N2227-like protein; InterPro: IPR012901 This family features sequences that are similar to a region of hypothetical yeast gene product N2227 (P53934 from SWISSPROT). This is thought to be expressed during meiosis and may be involved in the defence response to stressful conditions [].
Probab=97.12 E-value=0.0039 Score=42.83 Aligned_cols=78 Identities=13% Similarity=0.114 Sum_probs=55.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.+|+|+.+.++.--.+ ....+..+++.|||||..+-+-+..-..... + .. ...+-+.|.+|+.+
T Consensus 165 ~~d~VvT~FFIDTA~N--i~~Yi~tI~~lLkpgG~WIN~GPLlyh~~~~----------~---~~-~~~sveLs~eEi~~ 228 (270)
T PF07942_consen 165 SFDVVVTCFFIDTAEN--IIEYIETIEHLLKPGGYWINFGPLLYHFEPM----------S---IP-NEMSVELSLEEIKE 228 (270)
T ss_pred cccEEEEEEEeechHH--HHHHHHHHHHHhccCCEEEecCCccccCCCC----------C---CC-CCcccCCCHHHHHH
Confidence 5799999977744333 7899999999999999777666554332210 0 00 11235688999999
Q ss_pred HHHHcCCCceEEEE
Q 042267 82 LAIEAGFKGINFEC 95 (107)
Q Consensus 82 ll~~aGf~~~~~~~ 95 (107)
+.++.||++++...
T Consensus 229 l~~~~GF~~~~~~~ 242 (270)
T PF07942_consen 229 LIEKLGFEIEKEES 242 (270)
T ss_pred HHHHCCCEEEEEEE
Confidence 99999999986543
No 81
>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase. Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme
Probab=97.09 E-value=0.0018 Score=42.65 Aligned_cols=43 Identities=16% Similarity=0.226 Sum_probs=36.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPE 46 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~ 46 (107)
.||+|++..++|++++++..++++++++.+ ++.++|.|...+.
T Consensus 105 sfD~V~~~~vL~hl~p~~~~~~l~el~r~~--~~~v~i~e~~~~~ 147 (204)
T TIGR03587 105 FFDLVLTKGVLIHINPDNLPTAYRELYRCS--NRYILIAEYYNPS 147 (204)
T ss_pred CEEEEEECChhhhCCHHHHHHHHHHHHhhc--CcEEEEEEeeCCC
Confidence 589999999999998888899999999987 5788888876543
No 82
>cd02440 AdoMet_MTases S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).
Probab=97.09 E-value=0.0017 Score=36.37 Aligned_cols=38 Identities=18% Similarity=0.249 Sum_probs=33.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
++|+++....++.+ .+....+++++.+.|+|||.+++.
T Consensus 66 ~~d~i~~~~~~~~~-~~~~~~~l~~~~~~l~~~g~~~~~ 103 (107)
T cd02440 66 SFDVIISDPPLHHL-VEDLARFLEEARRLLKPGGVLVLT 103 (107)
T ss_pred ceEEEEEccceeeh-hhHHHHHHHHHHHHcCCCCEEEEE
Confidence 58999999999885 445789999999999999999875
No 83
>PRK14968 putative methyltransferase; Provisional
Probab=97.09 E-value=0.016 Score=36.84 Aligned_cols=59 Identities=19% Similarity=0.252 Sum_probs=39.9
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEEcC--
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFECNV-- 97 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~~-- 97 (107)
...+++++.+.|+|||.+++.... . ...+++.++++++||+...+....
T Consensus 127 ~~~~i~~~~~~Lk~gG~~~~~~~~---~--------------------------~~~~~l~~~~~~~g~~~~~~~~~~~~ 177 (188)
T PRK14968 127 IDRFLDEVGRYLKPGGRILLLQSS---L--------------------------TGEDEVLEYLEKLGFEAEVVAEEKFP 177 (188)
T ss_pred HHHHHHHHHHhcCCCeEEEEEEcc---c--------------------------CCHHHHHHHHHHCCCeeeeeeecccC
Confidence 467899999999999998875311 0 123567889999999987765442
Q ss_pred -CceeEEEEEC
Q 042267 98 -CNSYVMEFYK 107 (107)
Q Consensus 98 -~~~~vi~~~~ 107 (107)
....+++++|
T Consensus 178 ~~~~~~~~~~~ 188 (188)
T PRK14968 178 FEELIVLELVK 188 (188)
T ss_pred CceEEEEEEeC
Confidence 2334555443
No 84
>COG4627 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=97.05 E-value=0.00071 Score=42.91 Aligned_cols=40 Identities=18% Similarity=0.273 Sum_probs=36.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.+|+++..+++-++.-++-...++.|++.|||||.|-|.=
T Consensus 47 s~d~iyaeHvlEHlt~~Eg~~alkechr~Lrp~G~LriAv 86 (185)
T COG4627 47 SVDAIYAEHVLEHLTYDEGTSALKECHRFLRPGGKLRIAV 86 (185)
T ss_pred chHHHHHHHHHHHHhHHHHHHHHHHHHHHhCcCcEEEEEc
Confidence 4789999999999998889999999999999999998863
No 85
>COG4798 Predicted methyltransferase [General function prediction only]
Probab=97.03 E-value=0.0028 Score=41.72 Aligned_cols=79 Identities=20% Similarity=0.095 Sum_probs=51.3
Q ss_pred eeEEEecccccCCC-----hHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHH
Q 042267 3 VYLSILQWMLHNFD-----DENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKK 77 (107)
Q Consensus 3 ~D~v~~~~vlh~~~-----d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~ 77 (107)
.|+++....-|++. ...+.++-+.++++|||||.++|.|.......... +-. .-..++..
T Consensus 123 ~d~~~~~~~yhdmh~k~i~~~~A~~vna~vf~~LKPGGv~~V~dH~a~pG~~~~---------dt~------~~~ri~~a 187 (238)
T COG4798 123 LDLVPTAQNYHDMHNKNIHPATAAKVNAAVFKALKPGGVYLVEDHRADPGSGLS---------DTI------TLHRIDPA 187 (238)
T ss_pred ccccccchhhhhhhccccCcchHHHHHHHHHHhcCCCcEEEEEeccccCCCChh---------hhh------hhcccChH
Confidence 45555544444332 34478999999999999999999998875432211 100 11124667
Q ss_pred HHHHHHHHcCCCceEEEEc
Q 042267 78 EFTALAIEAGFKGINFECN 96 (107)
Q Consensus 78 e~~~ll~~aGf~~~~~~~~ 96 (107)
...+-.+.+||...-...+
T Consensus 188 ~V~a~veaaGFkl~aeS~i 206 (238)
T COG4798 188 VVIAEVEAAGFKLEAESEI 206 (238)
T ss_pred HHHHHHHhhcceeeeeehh
Confidence 8888889999998655433
No 86
>PF05724 TPMT: Thiopurine S-methyltransferase (TPMT); InterPro: IPR008854 This family consists of thiopurine S-methyltransferase proteins from both eukaryotes and prokaryotes. Thiopurine S-methyltransferase (TPMT) is a cytosolic enzyme that catalyses S-methylation of aromatic and heterocyclic sulphydryl compounds, including anticancer and immunosuppressive thiopurines [].; GO: 0008119 thiopurine S-methyltransferase activity, 0008152 metabolic process, 0005737 cytoplasm; PDB: 1PJZ_A 2H11_A 2BZG_A 3LCC_A 3BGD_A 2GB4_A 3BGI_B.
Probab=97.01 E-value=0.0029 Score=42.13 Aligned_cols=73 Identities=19% Similarity=0.179 Sum_probs=52.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCC-CCchhhhhhhhhcHHHHhhCCCceecCHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVP-DSTEASRDSFILDAIFLIQIPHGRERTKKEFT 80 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~ 80 (107)
+||+|+=...|+.++.+...+-.+++.+.|+|||+++++-...+... .+|+ + ..+.+|++
T Consensus 116 ~fD~iyDr~~l~Alpp~~R~~Ya~~l~~ll~p~g~~lLi~l~~~~~~~~GPP-------f------------~v~~~ev~ 176 (218)
T PF05724_consen 116 KFDLIYDRTFLCALPPEMRERYAQQLASLLKPGGRGLLITLEYPQGEMEGPP-------F------------SVTEEEVR 176 (218)
T ss_dssp SEEEEEECSSTTTS-GGGHHHHHHHHHHCEEEEEEEEEEEEES-CSCSSSSS-----------------------HHHHH
T ss_pred CceEEEEecccccCCHHHHHHHHHHHHHHhCCCCcEEEEEEEcCCcCCCCcC-------C------------CCCHHHHH
Confidence 58999999999999999999999999999999999544433333221 1222 1 13578999
Q ss_pred HHHHHcCCCceEEE
Q 042267 81 ALAIEAGFKGINFE 94 (107)
Q Consensus 81 ~ll~~aGf~~~~~~ 94 (107)
+++. .+|++....
T Consensus 177 ~l~~-~~f~i~~l~ 189 (218)
T PF05724_consen 177 ELFG-PGFEIEELE 189 (218)
T ss_dssp HHHT-TTEEEEEEE
T ss_pred HHhc-CCcEEEEEe
Confidence 9998 688877654
No 87
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=96.99 E-value=0.0034 Score=40.40 Aligned_cols=58 Identities=12% Similarity=0.054 Sum_probs=41.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||++++....++ ...+++.+++.|+|||++++..... -+.+++.+
T Consensus 97 ~~D~v~~~~~~~~-----~~~~l~~~~~~Lk~gG~lv~~~~~~-----------------------------~~~~~~~~ 142 (187)
T PRK08287 97 KADAIFIGGSGGN-----LTAIIDWSLAHLHPGGRLVLTFILL-----------------------------ENLHSALA 142 (187)
T ss_pred CCCEEEECCCccC-----HHHHHHHHHHhcCCCeEEEEEEecH-----------------------------hhHHHHHH
Confidence 4799988765443 3468999999999999997743211 01356778
Q ss_pred HHHHcCCCceEE
Q 042267 82 LAIEAGFKGINF 93 (107)
Q Consensus 82 ll~~aGf~~~~~ 93 (107)
++++.||+.+++
T Consensus 143 ~l~~~g~~~~~~ 154 (187)
T PRK08287 143 HLEKCGVSELDC 154 (187)
T ss_pred HHHHCCCCcceE
Confidence 899999987665
No 88
>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=96.94 E-value=0.0059 Score=39.44 Aligned_cols=33 Identities=18% Similarity=0.097 Sum_probs=25.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.||+|++.. +|+. ..+++.+++.|+|||++++.
T Consensus 109 ~fD~I~s~~-~~~~-----~~~~~~~~~~LkpgG~lvi~ 141 (181)
T TIGR00138 109 QFDVITSRA-LASL-----NVLLELTLNLLKVGGYFLAY 141 (181)
T ss_pred CccEEEehh-hhCH-----HHHHHHHHHhcCCCCEEEEE
Confidence 589888765 5443 35788889999999999875
No 89
>PRK13256 thiopurine S-methyltransferase; Reviewed
Probab=96.88 E-value=0.0044 Score=41.56 Aligned_cols=44 Identities=5% Similarity=-0.029 Sum_probs=39.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
+||+|+=+.+|+.++++...+..+++.+.|+|||+++++-...+
T Consensus 124 ~fD~VyDra~~~Alpp~~R~~Y~~~l~~lL~pgg~llll~~~~~ 167 (226)
T PRK13256 124 VFDIWYDRGAYIALPNDLRTNYAKMMLEVCSNNTQILLLVMEHD 167 (226)
T ss_pred CcCeeeeehhHhcCCHHHHHHHHHHHHHHhCCCcEEEEEEEecC
Confidence 58999999999999999999999999999999999999876433
No 90
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=96.78 E-value=0.0032 Score=44.65 Aligned_cols=41 Identities=12% Similarity=0.229 Sum_probs=34.6
Q ss_pred ceeEEEecccccCC---ChHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 2 QVYLSILQWMLHNF---DDENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 2 ~~D~v~~~~vlh~~---~d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
.||+|+.+-.+|+. +.+...++++++.+.|+|||.++|+-.
T Consensus 261 ~fDlIvsNPPFH~g~~~~~~~~~~~i~~a~~~LkpgG~L~iVan 304 (342)
T PRK09489 261 RFDMIISNPPFHDGIQTSLDAAQTLIRGAVRHLNSGGELRIVAN 304 (342)
T ss_pred CccEEEECCCccCCccccHHHHHHHHHHHHHhcCcCCEEEEEEe
Confidence 58999999999874 345578999999999999999988653
No 91
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=96.71 E-value=0.0046 Score=44.41 Aligned_cols=40 Identities=10% Similarity=0.269 Sum_probs=33.5
Q ss_pred ceeEEEeccccc---CCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLH---NFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh---~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.||+|+++--+| .++++.+.++++.+++.|+|||.++++-
T Consensus 298 ~fDlIlsNPPfh~~~~~~~~ia~~l~~~a~~~LkpGG~L~iV~ 340 (378)
T PRK15001 298 RFNAVLCNPPFHQQHALTDNVAWEMFHHARRCLKINGELYIVA 340 (378)
T ss_pred CEEEEEECcCcccCccCCHHHHHHHHHHHHHhcccCCEEEEEE
Confidence 589999975554 4667778899999999999999999874
No 92
>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=96.69 E-value=0.011 Score=39.47 Aligned_cols=46 Identities=20% Similarity=0.190 Sum_probs=34.9
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEEc
Q 042267 21 IKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
..+++++.+.|+|||.+++.- .. ...+++.++++++||+.+++...
T Consensus 197 ~~~i~~~~~~L~~gG~~~~~~-----~~-------------------------~~~~~~~~~l~~~gf~~v~~~~d 242 (251)
T TIGR03534 197 RRIIAQAPRLLKPGGWLLLEI-----GY-------------------------DQGEAVRALFEAAGFADVETRKD 242 (251)
T ss_pred HHHHHHHHHhcccCCEEEEEE-----Cc-------------------------cHHHHHHHHHHhCCCCceEEEeC
Confidence 478999999999999987721 00 12367889999999998887654
No 93
>PF03291 Pox_MCEL: mRNA capping enzyme; InterPro: IPR004971 This is a family of viral mRNA capping enzymes. The enzyme catalyses the first two reactions in the mRNA cap formation pathway. It is a heterodimer consisting of a large and small subunit. This entry is the large subunit. ; GO: 0006370 mRNA capping; PDB: 3EPP_A 3BGV_C 2VDW_C 1RI5_A 1RI3_A 1RI1_A 1Z3C_A 1RI2_A 2HV9_A 1RI4_A.
Probab=96.66 E-value=0.0022 Score=45.29 Aligned_cols=41 Identities=20% Similarity=0.253 Sum_probs=33.8
Q ss_pred ceeEEEecccccCC--ChHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 2 QVYLSILQWMLHNF--DDENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 2 ~~D~v~~~~vlh~~--~d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
+||+|-....+|+. +.+.+..+|+|+.++|+|||.++..-+
T Consensus 145 ~FDvVScQFalHY~Fese~~ar~~l~Nvs~~Lk~GG~FIgT~~ 187 (331)
T PF03291_consen 145 KFDVVSCQFALHYAFESEEKARQFLKNVSSLLKPGGYFIGTTP 187 (331)
T ss_dssp -EEEEEEES-GGGGGSSHHHHHHHHHHHHHTEEEEEEEEEEEE
T ss_pred CcceeehHHHHHHhcCCHHHHHHHHHHHHHhcCCCCEEEEEec
Confidence 68999999999965 556688899999999999999987643
No 94
>KOG2899 consensus Predicted methyltransferase [General function prediction only]
Probab=96.60 E-value=0.0044 Score=42.08 Aligned_cols=82 Identities=18% Similarity=0.230 Sum_probs=50.8
Q ss_pred ceeEEEec----ccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCc-hhhhhhhhhcHHHHhhCCCceecCH
Q 042267 2 QVYLSILQ----WMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDST-EASRDSFILDAIFLIQIPHGRERTK 76 (107)
Q Consensus 2 ~~D~v~~~----~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~g~~rt~ 76 (107)
+||+++.- ||==+|.|+...++++++++.|.|||.|++ |+- ....- ..++....+.. +..--....
T Consensus 166 ~fDiIlcLSiTkWIHLNwgD~GL~~ff~kis~ll~pgGiLvv-EPQ---pWksY~kaar~~e~~~~-----ny~~i~lkp 236 (288)
T KOG2899|consen 166 EFDIILCLSITKWIHLNWGDDGLRRFFRKISSLLHPGGILVV-EPQ---PWKSYKKAARRSEKLAA-----NYFKIFLKP 236 (288)
T ss_pred cccEEEEEEeeeeEecccccHHHHHHHHHHHHhhCcCcEEEE-cCC---chHHHHHHHHHHHHhhc-----CccceecCH
Confidence 57777654 443489999999999999999999999855 422 11100 01111111111 222334677
Q ss_pred HHHHHHHHHc--CCCceE
Q 042267 77 KEFTALAIEA--GFKGIN 92 (107)
Q Consensus 77 ~e~~~ll~~a--Gf~~~~ 92 (107)
+.++.|+.+. ||+-++
T Consensus 237 ~~f~~~l~q~~vgle~~e 254 (288)
T KOG2899|consen 237 EDFEDWLNQIVVGLESVE 254 (288)
T ss_pred HHHHhhhhhhhhheeeec
Confidence 8999999876 666543
No 95
>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=96.38 E-value=0.0046 Score=36.56 Aligned_cols=34 Identities=12% Similarity=0.090 Sum_probs=26.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.+|++++....+ ...++++++++.|+|||++++.
T Consensus 88 ~~D~v~~~~~~~-----~~~~~l~~~~~~Lk~gG~li~~ 121 (124)
T TIGR02469 88 EPDRVFIGGSGG-----LLQEILEAIWRRLRPGGRIVLN 121 (124)
T ss_pred CCCEEEECCcch-----hHHHHHHHHHHHcCCCCEEEEE
Confidence 478888765432 3458999999999999999774
No 96
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=96.09 E-value=0.085 Score=35.75 Aligned_cols=57 Identities=18% Similarity=0.117 Sum_probs=38.8
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEE-EcCC
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFE-CNVC 98 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~-~~~~ 98 (107)
..++++++.+.|+|||.+++ +. .. ...+++.+++++.||+.+++. +..+
T Consensus 217 ~~~~~~~~~~~Lk~gG~l~~-e~----g~-------------------------~~~~~~~~~l~~~gf~~v~~~~d~~~ 266 (275)
T PRK09328 217 YRRIIEQAPRYLKPGGWLLL-EI----GY-------------------------DQGEAVRALLAAAGFADVETRKDLAG 266 (275)
T ss_pred HHHHHHHHHHhcccCCEEEE-EE----Cc-------------------------hHHHHHHHHHHhCCCceeEEecCCCC
Confidence 46789999999999999987 21 00 013568889999999877664 3345
Q ss_pred ceeEEEEE
Q 042267 99 NSYVMEFY 106 (107)
Q Consensus 99 ~~~vi~~~ 106 (107)
...++.++
T Consensus 267 ~~r~~~~~ 274 (275)
T PRK09328 267 RDRVVLGR 274 (275)
T ss_pred CceEEEEE
Confidence 55555444
No 97
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=96.02 E-value=0.02 Score=37.75 Aligned_cols=42 Identities=14% Similarity=0.093 Sum_probs=30.3
Q ss_pred ceeEEEecccccCCChHH---------HHHHHHHHHhhCCCCCEEEEEeee
Q 042267 2 QVYLSILQWMLHNFDDEN---------CIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~---------~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
.+|+|+..-..|...+.. ...+|+.+++.|+|||.+++..+.
T Consensus 117 ~~D~V~S~~~~~~~g~~~~d~~~~~~~~~~~L~~~~~~LkpGG~~vi~~~~ 167 (209)
T PRK11188 117 KVQVVMSDMAPNMSGTPAVDIPRAMYLVELALDMCRDVLAPGGSFVVKVFQ 167 (209)
T ss_pred CCCEEecCCCCccCCChHHHHHHHHHHHHHHHHHHHHHcCCCCEEEEEEec
Confidence 478888865555443211 256899999999999999996543
No 98
>COG4976 Predicted methyltransferase (contains TPR repeat) [General function prediction only]
Probab=95.90 E-value=0.025 Score=38.32 Aligned_cols=78 Identities=18% Similarity=0.123 Sum_probs=56.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCC-ceecCHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPH-GRERTKKEFT 80 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-g~~rt~~e~~ 80 (107)
.+|+|....||-...+ ...++.-+...|+|||.+...-.-.+++.. | - + .+. .-..++.-++
T Consensus 188 r~DLi~AaDVl~YlG~--Le~~~~~aa~~L~~gGlfaFSvE~l~~~~~------f----~---l--~ps~RyAH~~~YVr 250 (287)
T COG4976 188 RFDLIVAADVLPYLGA--LEGLFAGAAGLLAPGGLFAFSVETLPDDGG------F----V---L--GPSQRYAHSESYVR 250 (287)
T ss_pred cccchhhhhHHHhhcc--hhhHHHHHHHhcCCCceEEEEecccCCCCC------e----e---c--chhhhhccchHHHH
Confidence 5799999999999988 568999999999999998775433333311 1 0 0 111 1235678889
Q ss_pred HHHHHcCCCceEEEEc
Q 042267 81 ALAIEAGFKGINFECN 96 (107)
Q Consensus 81 ~ll~~aGf~~~~~~~~ 96 (107)
++++.+||+++++.++
T Consensus 251 ~~l~~~Gl~~i~~~~t 266 (287)
T COG4976 251 ALLAASGLEVIAIEDT 266 (287)
T ss_pred HHHHhcCceEEEeecc
Confidence 9999999999988654
No 99
>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=95.90 E-value=0.014 Score=37.19 Aligned_cols=40 Identities=13% Similarity=0.175 Sum_probs=30.6
Q ss_pred ceeEEEecccccCCCh---HHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDD---ENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d---~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.||+|++.--+|.-.+ +-..++++.+.+.|+|||+++++-
T Consensus 98 ~fD~Iv~NPP~~~~~~~~~~~~~~~i~~a~~~Lk~~G~l~lv~ 140 (170)
T PF05175_consen 98 KFDLIVSNPPFHAGGDDGLDLLRDFIEQARRYLKPGGRLFLVI 140 (170)
T ss_dssp CEEEEEE---SBTTSHCHHHHHHHHHHHHHHHEEEEEEEEEEE
T ss_pred ceeEEEEccchhcccccchhhHHHHHHHHHHhccCCCEEEEEe
Confidence 6899999887776665 347899999999999999997744
No 100
>TIGR03439 methyl_EasF probable methyltransferase domain, EasF family. This model represents an uncharacterized domain of about 300 amino acids with homology to S-adenosylmethionine-dependent methyltransferases. Proteins with this domain are exclusively fungal. A few, such as EasF from Neotyphodium lolii, are associated with the biosynthesis of ergot alkaloids, a class of fungal secondary metabolites. EasF may, in fact, be the AdoMet:dimethylallyltryptophan N-methyltransferase, the enzyme that follows tryptophan dimethylallyltransferase (DMATS) in ergot alkaloid biosynthesis. Several other members of this family, including mug158 (meiotically up-regulated gene 158 protein) from Schizosaccharomyces pombe, contain an additional uncharacterized domain DUF323 (pfam03781).
Probab=95.73 E-value=0.025 Score=39.86 Aligned_cols=39 Identities=18% Similarity=0.209 Sum_probs=32.8
Q ss_pred EEEecccccCCChHHHHHHHHHHHh-hCCCCCEEEEE-eee
Q 042267 5 LSILQWMLHNFDDENCIKILRNCYK-ALPNDGKVLVI-NST 43 (107)
Q Consensus 5 ~v~~~~vlh~~~d~~~~~iL~~~~~-aL~pgg~l~i~-e~~ 43 (107)
++++.+.+.+++++++..+|+++++ .|+||+.++|- |.+
T Consensus 160 ~~flGSsiGNf~~~ea~~fL~~~~~~~l~~~d~lLiG~D~~ 200 (319)
T TIGR03439 160 ILWLGSSIGNFSRPEAAAFLAGFLATALSPSDSFLIGLDGC 200 (319)
T ss_pred EEEeCccccCCCHHHHHHHHHHHHHhhCCCCCEEEEecCCC
Confidence 4566679999999999999999999 99999888773 443
No 101
>KOG1975 consensus mRNA cap methyltransferase [RNA processing and modification]
Probab=95.68 E-value=0.018 Score=40.73 Aligned_cols=38 Identities=26% Similarity=0.352 Sum_probs=32.1
Q ss_pred ceeEEEecccccC-C-ChHHHHHHHHHHHhhCCCCCEEEE
Q 042267 2 QVYLSILQWMLHN-F-DDENCIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 2 ~~D~v~~~~vlh~-~-~d~~~~~iL~~~~~aL~pgg~l~i 39 (107)
++|++-...++|. | +.+.++.+|+|+.+.|+|||.++=
T Consensus 196 ~fDivScQF~~HYaFetee~ar~~l~Nva~~LkpGG~FIg 235 (389)
T KOG1975|consen 196 RFDIVSCQFAFHYAFETEESARIALRNVAKCLKPGGVFIG 235 (389)
T ss_pred CcceeeeeeeEeeeeccHHHHHHHHHHHHhhcCCCcEEEE
Confidence 3899999999985 3 456689999999999999998865
No 102
>KOG2798 consensus Putative trehalase [Carbohydrate transport and metabolism]
Probab=95.61 E-value=0.079 Score=37.41 Aligned_cols=79 Identities=13% Similarity=0.181 Sum_probs=57.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.+|+|+.++++..-.. ....|+.+++.|+|||..+-+-+..-...+.+ +. ....+.+.|.+++..
T Consensus 259 ~~d~VvTcfFIDTa~N--ileYi~tI~~iLk~GGvWiNlGPLlYHF~d~~---------g~----~~~~siEls~edl~~ 323 (369)
T KOG2798|consen 259 SYDVVVTCFFIDTAHN--ILEYIDTIYKILKPGGVWINLGPLLYHFEDTH---------GV----ENEMSIELSLEDLKR 323 (369)
T ss_pred ccceEEEEEEeechHH--HHHHHHHHHHhccCCcEEEeccceeeeccCCC---------CC----cccccccccHHHHHH
Confidence 4899999977744333 78899999999999999988877654332211 00 011345678999999
Q ss_pred HHHHcCCCceEEEE
Q 042267 82 LAIEAGFKGINFEC 95 (107)
Q Consensus 82 ll~~aGf~~~~~~~ 95 (107)
+.+.-||++.+...
T Consensus 324 v~~~~GF~~~ke~~ 337 (369)
T KOG2798|consen 324 VASHRGFEVEKERG 337 (369)
T ss_pred HHHhcCcEEEEeee
Confidence 99999999987653
No 103
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=95.48 E-value=0.027 Score=36.67 Aligned_cols=34 Identities=12% Similarity=0.249 Sum_probs=27.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.||++++..+ .+ ...+++.+++.|+|||++++++
T Consensus 112 ~fDlV~~~~~----~~--~~~~l~~~~~~LkpGG~lv~~~ 145 (187)
T PRK00107 112 KFDVVTSRAV----AS--LSDLVELCLPLLKPGGRFLALK 145 (187)
T ss_pred CccEEEEccc----cC--HHHHHHHHHHhcCCCeEEEEEe
Confidence 5899998652 22 4679999999999999999874
No 104
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=95.46 E-value=0.024 Score=37.13 Aligned_cols=40 Identities=10% Similarity=-0.066 Sum_probs=27.8
Q ss_pred ceeEEEecccccCCC------hHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFD------DENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~------d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.+|++++....+... ......+|+++++.|+|||.+++..
T Consensus 111 ~~D~V~~~~~~p~~~~~~~~~~~~~~~~l~~i~~~LkpgG~l~i~~ 156 (202)
T PRK00121 111 SLDRIYLNFPDPWPKKRHHKRRLVQPEFLALYARKLKPGGEIHFAT 156 (202)
T ss_pred ccceEEEECCCCCCCccccccccCCHHHHHHHHHHcCCCCEEEEEc
Confidence 478888765432111 1124689999999999999998854
No 105
>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=94.95 E-value=0.046 Score=37.41 Aligned_cols=39 Identities=18% Similarity=0.028 Sum_probs=28.5
Q ss_pred ceeEEEecccccCCChHH--HHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDEN--CIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~--~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.||+|+....-+.-+... ...+++++++.|+|||.+++.
T Consensus 145 ~yDvIi~D~~~~~~~~~~l~~~ef~~~~~~~L~pgG~lv~~ 185 (270)
T TIGR00417 145 TFDVIIVDSTDPVGPAETLFTKEFYELLKKALNEDGIFVAQ 185 (270)
T ss_pred CccEEEEeCCCCCCcccchhHHHHHHHHHHHhCCCcEEEEc
Confidence 589998866533222222 468899999999999999875
No 106
>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].
Probab=94.73 E-value=0.38 Score=31.60 Aligned_cols=85 Identities=15% Similarity=0.098 Sum_probs=54.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCC---------Cchhhhhhh-hhcHHHHhhCCCc
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPD---------STEASRDSF-ILDAIFLIQIPHG 71 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~---------~~~~~~~~~-~~~~~~~~~~~~g 71 (107)
.||.|+++.+|.....+ .++|+++.+ -|.+.+|.=+....-+. .|......+ +++ ++|=
T Consensus 75 sFD~VIlsqtLQ~~~~P--~~vL~EmlR---Vgr~~IVsFPNFg~W~~R~~l~~~GrmPvt~~lPy~WYd------TPNi 143 (193)
T PF07021_consen 75 SFDYVILSQTLQAVRRP--DEVLEEMLR---VGRRAIVSFPNFGHWRNRLQLLLRGRMPVTKALPYEWYD------TPNI 143 (193)
T ss_pred CccEEehHhHHHhHhHH--HHHHHHHHH---hcCeEEEEecChHHHHHHHHHHhcCCCCCCCCCCCcccC------CCCc
Confidence 68999999999988875 577887755 47777765432210000 000000011 122 3455
Q ss_pred eecCHHHHHHHHHHcCCCceEEEEcC
Q 042267 72 RERTKKEFTALAIEAGFKGINFECNV 97 (107)
Q Consensus 72 ~~rt~~e~~~ll~~aGf~~~~~~~~~ 97 (107)
..-|..+++++.++.|+++.+...+.
T Consensus 144 h~~Ti~DFe~lc~~~~i~I~~~~~~~ 169 (193)
T PF07021_consen 144 HLCTIKDFEDLCRELGIRIEERVFLD 169 (193)
T ss_pred ccccHHHHHHHHHHCCCEEEEEEEEc
Confidence 67899999999999999999887664
No 107
>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=94.52 E-value=0.052 Score=31.84 Aligned_cols=40 Identities=13% Similarity=0.082 Sum_probs=28.7
Q ss_pred ceeEEEecccccCCCh------HHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDD------ENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d------~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
+||+|++.--.+.... +....+++++.+.|+|||.++++-
T Consensus 70 ~~D~Iv~npP~~~~~~~~~~~~~~~~~~~~~~~~~L~~gG~~~~~~ 115 (117)
T PF13659_consen 70 KFDLIVTNPPYGPRSGDKAALRRLYSRFLEAAARLLKPGGVLVFIT 115 (117)
T ss_dssp -EEEEEE--STTSBTT----GGCHHHHHHHHHHHHEEEEEEEEEEE
T ss_pred eeEEEEECCCCccccccchhhHHHHHHHHHHHHHHcCCCeEEEEEe
Confidence 6899999877664421 124788999999999999998763
No 108
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=94.40 E-value=0.051 Score=34.98 Aligned_cols=39 Identities=15% Similarity=0.089 Sum_probs=27.2
Q ss_pred ceeEEEeccccc---CCCh------HHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLH---NFDD------ENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh---~~~d------~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.+|+++.....| .|.- +...++|+++++.|+|||++++.
T Consensus 98 ~~D~V~~~~~~~~~g~~~~~~~~~~~~~~~~l~~~~~~LkpgG~lvi~ 145 (188)
T TIGR00438 98 KVDVVMSDAAPNISGYWDIDHLRSIDLVELALDIAKEVLKPKGNFVVK 145 (188)
T ss_pred CccEEEcCCCCCCCCCccccHHHHHHHHHHHHHHHHHHccCCCEEEEE
Confidence 478888743322 1221 22468899999999999999885
No 109
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=94.36 E-value=0.053 Score=35.54 Aligned_cols=31 Identities=10% Similarity=0.100 Sum_probs=24.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.||+|++...+++.+ +++.+.|+|||++++.
T Consensus 142 ~fD~Ii~~~~~~~~~--------~~l~~~L~~gG~lvi~ 172 (205)
T PRK13944 142 PFDAIIVTAAASTIP--------SALVRQLKDGGVLVIP 172 (205)
T ss_pred CccEEEEccCcchhh--------HHHHHhcCcCcEEEEE
Confidence 589999988876655 3577889999999773
No 110
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=94.31 E-value=0.081 Score=34.40 Aligned_cols=33 Identities=9% Similarity=0.279 Sum_probs=25.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i 39 (107)
.+|+++... ...+...+++.+.+.|+|||++++
T Consensus 111 ~~D~V~~~~-----~~~~~~~~l~~~~~~LkpgG~lv~ 143 (198)
T PRK00377 111 KFDRIFIGG-----GSEKLKEIISASWEIIKKGGRIVI 143 (198)
T ss_pred CCCEEEECC-----CcccHHHHHHHHHHHcCCCcEEEE
Confidence 478887743 223357899999999999999975
No 111
>PF11899 DUF3419: Protein of unknown function (DUF3419); InterPro: IPR021829 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 398 to 802 amino acids in length.
Probab=94.30 E-value=0.1 Score=37.64 Aligned_cols=43 Identities=12% Similarity=0.044 Sum_probs=37.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
.+|.++++.+.--+++++..+.++.+.++++|||+++.=....
T Consensus 295 s~~~~vL~D~~Dwm~~~~~~~~~~~l~~~~~pgaRV~~Rsa~~ 337 (380)
T PF11899_consen 295 SFDRFVLSDHMDWMDPEQLNEEWQELARTARPGARVLWRSAAV 337 (380)
T ss_pred CeeEEEecchhhhCCHHHHHHHHHHHHHHhCCCCEEEEeeCCC
Confidence 5789999999877888999999999999999999998755443
No 112
>TIGR00027 mthyl_TIGR00027 methyltransferase, putative, TIGR00027 family. This model represents a set of probable methyltransferases, about 300 amino acids long, with essentially full length homology. Members share an N-terminal region described by Pfam model pfam02409. Included are a paralogous family of 12 proteins in Mycobacterium tuberculosis, plus close homologs in related species, a family of 8 in the archaeon Methanosarcina acetivorans, and small numbers of members in other species, including plants.
Probab=94.23 E-value=0.33 Score=33.17 Aligned_cols=86 Identities=8% Similarity=0.004 Sum_probs=53.1
Q ss_pred EEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhh-hhhhcHHHHhhCCC-ceecCHHHHHHH
Q 042267 5 LSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRD-SFILDAIFLIQIPH-GRERTKKEFTAL 82 (107)
Q Consensus 5 ~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~-g~~rt~~e~~~l 82 (107)
++++-.++..++.++..++|+.+.+...||+.++ .|.+.+-... ..... .............. -...+..+..++
T Consensus 161 l~i~EGvl~YL~~~~v~~ll~~i~~~~~~gs~l~-~d~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 237 (260)
T TIGR00027 161 AWLWEGLLMYLTEEAVDALLAFIAELSAPGSRLA-FDYVRPLDGE--WRAGMRAPVYHAARGVDGSGLVFGIDRADVAEW 237 (260)
T ss_pred eeeecchhhcCCHHHHHHHHHHHHHhCCCCcEEE-EEeccccchh--HHHHHHHHHHHhhhcccccccccCCChhhHHHH
Confidence 6777889999999999999999999888888775 5766541111 00000 00000000000000 012467899999
Q ss_pred HHHcCCCceEE
Q 042267 83 AIEAGFKGINF 93 (107)
Q Consensus 83 l~~aGf~~~~~ 93 (107)
|++.||+....
T Consensus 238 l~~~Gw~~~~~ 248 (260)
T TIGR00027 238 LAERGWRASEH 248 (260)
T ss_pred HHHCCCeeecC
Confidence 99999998755
No 113
>TIGR00406 prmA ribosomal protein L11 methyltransferase. Ribosomal protein L11 methyltransferase is an S-adenosyl-L-methionine-dependent methyltransferase required for the modification of ribosomal protein L11. This protein is found in bacteria and (with a probable transit peptide) in Arabidopsis.
Probab=94.23 E-value=0.13 Score=35.54 Aligned_cols=36 Identities=6% Similarity=0.083 Sum_probs=27.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
+||++++.... +....+++++++.|+|||.+++...
T Consensus 225 ~fDlVvan~~~-----~~l~~ll~~~~~~LkpgG~li~sgi 260 (288)
T TIGR00406 225 KADVIVANILA-----EVIKELYPQFSRLVKPGGWLILSGI 260 (288)
T ss_pred CceEEEEecCH-----HHHHHHHHHHHHHcCCCcEEEEEeC
Confidence 58988875432 2346899999999999999988664
No 114
>KOG1331 consensus Predicted methyltransferase [General function prediction only]
Probab=94.16 E-value=0.046 Score=37.88 Aligned_cols=39 Identities=18% Similarity=0.264 Sum_probs=33.8
Q ss_pred ceeEEEecccccCCCh-HHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDD-ENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d-~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.+|..+...++|+++- ....++++++.+.++|||..+|.
T Consensus 103 s~d~~lsiavihhlsT~~RR~~~l~e~~r~lrpgg~~lvy 142 (293)
T KOG1331|consen 103 SFDAALSIAVIHHLSTRERRERALEELLRVLRPGGNALVY 142 (293)
T ss_pred ccccchhhhhhhhhhhHHHHHHHHHHHHHHhcCCCceEEE
Confidence 5789999999999975 44788999999999999997775
No 115
>PRK00811 spermidine synthase; Provisional
Probab=94.15 E-value=0.13 Score=35.46 Aligned_cols=39 Identities=21% Similarity=0.196 Sum_probs=27.1
Q ss_pred ceeEEEecccccCCChHH--HHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDEN--CIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~--~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.||+|+.-..-+.-+... ...+++.+++.|+|||.+++.
T Consensus 150 ~yDvIi~D~~dp~~~~~~l~t~ef~~~~~~~L~~gGvlv~~ 190 (283)
T PRK00811 150 SFDVIIVDSTDPVGPAEGLFTKEFYENCKRALKEDGIFVAQ 190 (283)
T ss_pred cccEEEECCCCCCCchhhhhHHHHHHHHHHhcCCCcEEEEe
Confidence 589998754333222221 367899999999999998763
No 116
>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=94.05 E-value=0.13 Score=37.41 Aligned_cols=44 Identities=16% Similarity=0.230 Sum_probs=32.5
Q ss_pred ceeEEEe------cccccCCCh-------HH-------HHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 2 QVYLSIL------QWMLHNFDD-------EN-------CIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 2 ~~D~v~~------~~vlh~~~d-------~~-------~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
.||.|++ ..+++..++ ++ ..++|+++.+.|+|||++++...-..
T Consensus 309 ~fD~VllDaPcSg~G~~~~~p~~~~~~~~~~~~~l~~lQ~~lL~~a~~~LkpgG~lvystcs~~ 372 (426)
T TIGR00563 309 QFDRILLDAPCSATGVIRRHPDIKWLRKPRDIAELAELQSEILDAIWPLLKTGGTLVYATCSVL 372 (426)
T ss_pred ccCEEEEcCCCCCCcccccCcchhhcCCHHHHHHHHHHHHHHHHHHHHhcCCCcEEEEEeCCCC
Confidence 4788885 245665444 11 36899999999999999999887664
No 117
>COG4106 Tam Trans-aconitate methyltransferase [General function prediction only]
Probab=93.86 E-value=0.057 Score=36.30 Aligned_cols=98 Identities=11% Similarity=0.115 Sum_probs=60.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCc-h-hhhhh---hhhcHHHHhh-CCCceecC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDST-E-ASRDS---FILDAIFLIQ-IPHGRERT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~-~-~~~~~---~~~~~~~~~~-~~~g~~rt 75 (107)
..|+++.+.+||-.+|. .++|.+.-..|.|||.|.+. +|++...+ . ..+.. .-+...+... ...+...+
T Consensus 92 ~~dllfaNAvlqWlpdH--~~ll~rL~~~L~Pgg~LAVQ---mPdN~depsH~~mr~~A~~~p~~~~l~~~~~~r~~v~s 166 (257)
T COG4106 92 PTDLLFANAVLQWLPDH--PELLPRLVSQLAPGGVLAVQ---MPDNLDEPSHRLMRETADEAPFAQELGGRGLTRAPLPS 166 (257)
T ss_pred ccchhhhhhhhhhcccc--HHHHHHHHHhhCCCceEEEE---CCCccCchhHHHHHHHHhcCchhhhhCccccccCCCCC
Confidence 46889999999999996 79999999999999999884 24443322 1 10000 0111111100 01234578
Q ss_pred HHHHHHHHHHcCCCceEEEEc------CCceeEEEE
Q 042267 76 KKEFTALAIEAGFKGINFECN------VCNSYVMEF 105 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~------~~~~~vi~~ 105 (107)
.+.|-++|...+ ..++++.+ .+..+|++=
T Consensus 167 ~a~Yy~lLa~~~-~rvDiW~T~Y~h~l~~a~aIvdW 201 (257)
T COG4106 167 PAAYYELLAPLA-CRVDIWHTTYYHQLPGADAIVDW 201 (257)
T ss_pred HHHHHHHhCccc-ceeeeeeeeccccCCCccchhhh
Confidence 899999998776 44556543 344555543
No 118
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=93.78 E-value=0.14 Score=35.79 Aligned_cols=41 Identities=15% Similarity=0.173 Sum_probs=33.7
Q ss_pred ceeEEEecccccCCC---hHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 2 QVYLSILQWMLHNFD---DENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~---d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
.||.|+++==+|.=- +.-+.++++.+++.|++||.|.|+=.
T Consensus 224 kfd~IisNPPfh~G~~v~~~~~~~~i~~A~~~L~~gGeL~iVan 267 (300)
T COG2813 224 KFDLIISNPPFHAGKAVVHSLAQEIIAAAARHLKPGGELWIVAN 267 (300)
T ss_pred cccEEEeCCCccCCcchhHHHHHHHHHHHHHhhccCCEEEEEEc
Confidence 589999998888543 34467999999999999999988754
No 119
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=93.73 E-value=0.083 Score=34.85 Aligned_cols=31 Identities=6% Similarity=0.007 Sum_probs=23.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.||+|++...+++.+ +.+.+.|+|||++++.
T Consensus 145 ~fD~I~~~~~~~~~~--------~~l~~~LkpgG~lvi~ 175 (212)
T PRK13942 145 PYDRIYVTAAGPDIP--------KPLIEQLKDGGIMVIP 175 (212)
T ss_pred CcCEEEECCCcccch--------HHHHHhhCCCcEEEEE
Confidence 589999887665543 3566789999999884
No 120
>PRK04457 spermidine synthase; Provisional
Probab=93.67 E-value=0.13 Score=35.21 Aligned_cols=38 Identities=18% Similarity=0.296 Sum_probs=27.0
Q ss_pred ceeEEEecccccC--CChH-HHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHN--FDDE-NCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~--~~d~-~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
+||+|++-. ++. .+.. ....+++++++.|+|||.+++.
T Consensus 136 ~yD~I~~D~-~~~~~~~~~l~t~efl~~~~~~L~pgGvlvin 176 (262)
T PRK04457 136 STDVILVDG-FDGEGIIDALCTQPFFDDCRNALSSDGIFVVN 176 (262)
T ss_pred CCCEEEEeC-CCCCCCccccCcHHHHHHHHHhcCCCcEEEEE
Confidence 589998742 322 1211 1369999999999999999884
No 121
>PRK14967 putative methyltransferase; Provisional
Probab=93.46 E-value=0.26 Score=32.65 Aligned_cols=24 Identities=17% Similarity=0.246 Sum_probs=19.9
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeee
Q 042267 20 CIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
...+++++.+.|+|||+++++..-
T Consensus 138 ~~~~l~~a~~~Lk~gG~l~~~~~~ 161 (223)
T PRK14967 138 LDRLCDAAPALLAPGGSLLLVQSE 161 (223)
T ss_pred HHHHHHHHHHhcCCCcEEEEEEec
Confidence 456889999999999999986543
No 122
>KOG3987 consensus Uncharacterized conserved protein DREV/CGI-81 [Function unknown]
Probab=92.95 E-value=0.12 Score=34.69 Aligned_cols=84 Identities=21% Similarity=0.258 Sum_probs=51.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCC-CCEEEEEeeeCCC------CCCCchhhhhhhhhcHHHHhhCCCceec
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPN-DGKVLVINSTLPE------VPDSTEASRDSFILDAIFLIQIPHGRER 74 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~p-gg~l~i~e~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~g~~r 74 (107)
++|+|...+.|..-.+ .-++|+.++.+|+| .|++++.= +.|- +..+.+ .--|-. + ..+|+.+
T Consensus 169 k~dli~clNlLDRc~~--p~kLL~Di~~vl~psngrvivaL-VLP~~hYVE~N~~g~~-----~rPdn~-L--e~~Gr~~ 237 (288)
T KOG3987|consen 169 KLDLILCLNLLDRCFD--PFKLLEDIHLVLAPSNGRVIVAL-VLPYMHYVETNTSGLP-----LRPDNL-L--ENNGRSF 237 (288)
T ss_pred eeehHHHHHHHHhhcC--hHHHHHHHHHHhccCCCcEEEEE-EecccceeecCCCCCc-----CCchHH-H--HhcCccH
Confidence 4788888898866655 37999999999999 78887653 2221 111110 011111 1 1145432
Q ss_pred C--HHHHHHHHHHcCCCceEEEEc
Q 042267 75 T--KKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 75 t--~~e~~~ll~~aGf~~~~~~~~ 96 (107)
. .+.+-++|+.+||.+..-.+.
T Consensus 238 ee~v~~~~e~lr~~g~~veawTrl 261 (288)
T KOG3987|consen 238 EEEVARFMELLRNCGYRVEAWTRL 261 (288)
T ss_pred HHHHHHHHHHHHhcCchhhhhhcC
Confidence 2 244668899999998765544
No 123
>PF10294 Methyltransf_16: Putative methyltransferase; InterPro: IPR019410 There are a number of unidentified genes that have a high probability of coding for methyltransferases. They make up approximately 0.6-1.6% of the genes in the yeast, human, mouse, Drosophila melanogaster, Caenorhabditis elegans, Arabidopsis thaliana, and Escherichia coli genomes []. This entry represents putative nicotinamide N-methyltransferases involved in rDNA silencing and in lifespan determination. ; PDB: 3BZB_A.
Probab=92.90 E-value=0.19 Score=32.09 Aligned_cols=41 Identities=20% Similarity=0.212 Sum_probs=30.2
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
.||+|+.+.++++ ++....+++.+.+.|+|+|.+++.....
T Consensus 119 ~~D~IlasDv~Y~--~~~~~~L~~tl~~ll~~~~~vl~~~~~R 159 (173)
T PF10294_consen 119 SFDVILASDVLYD--EELFEPLVRTLKRLLKPNGKVLLAYKRR 159 (173)
T ss_dssp SBSEEEEES--S---GGGHHHHHHHHHHHBTT-TTEEEEEE-S
T ss_pred cCCEEEEecccch--HHHHHHHHHHHHHHhCCCCEEEEEeCEe
Confidence 5899999999976 4557899999999999999877766544
No 124
>cd01842 SGNH_hydrolase_like_5 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=92.88 E-value=0.26 Score=31.99 Aligned_cols=40 Identities=18% Similarity=0.243 Sum_probs=30.5
Q ss_pred ceeEEEecccccCCCh----------HHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDD----------ENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d----------~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
+.|+|++++.|||++. +...++++++++.|+|+..++-.-
T Consensus 50 ~~DVIi~Ns~LWDl~ry~~~~~~~Y~~NL~~Lf~rLk~~lp~~allIW~t 99 (183)
T cd01842 50 RLDLVIMNSCLWDLSRYQRNSMKTYRENLERLFSKLDSVLPIECLIVWNT 99 (183)
T ss_pred ceeEEEEecceecccccCCCCHHHHHHHHHHHHHHHHhhCCCccEEEEec
Confidence 4599999999999875 236677888888888886665443
No 125
>COG3315 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=92.87 E-value=0.55 Score=32.83 Aligned_cols=87 Identities=15% Similarity=-0.025 Sum_probs=53.6
Q ss_pred EEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCc--h-hhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 5 LSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDST--E-ASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 5 ~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~--~-~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
++++-.++-+++.++..++|+++....+||+.++..-...+...... . ........+.... ...-......+++.
T Consensus 173 ~~iaEGLl~YL~~~~v~~ll~~I~~~~~~gS~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--e~~~~~~~~~e~~~ 250 (297)
T COG3315 173 LWIAEGLLMYLPEEAVDRLLSRIAALSAPGSRVAFDYSLPGSLRDRLRRPAARKTMRGEDLDRG--ELVYFGDDPAEIET 250 (297)
T ss_pred EEEeccccccCCHHHHHHHHHHHHHhCCCCceEEEeccccHHHHhcccchhhhhhccccccccc--cceeccCCHHHHHH
Confidence 67788899999999999999999999999998876543222111110 0 0000000000000 00011255799999
Q ss_pred HHHHcCCCceEE
Q 042267 82 LAIEAGFKGINF 93 (107)
Q Consensus 82 ll~~aGf~~~~~ 93 (107)
++.+.||.....
T Consensus 251 ~l~~~g~~~~~~ 262 (297)
T COG3315 251 WLAERGWRSTLN 262 (297)
T ss_pred HHHhcCEEEEec
Confidence 999999988765
No 126
>KOG3010 consensus Methyltransferase [General function prediction only]
Probab=92.72 E-value=0.13 Score=35.01 Aligned_cols=39 Identities=28% Similarity=0.379 Sum_probs=31.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCC-EEEEEeee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDG-KVLVINST 43 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg-~l~i~e~~ 43 (107)
..|+|+....+|-++- .++.+.+++.||+.| .+++--..
T Consensus 100 SVDlI~~Aqa~HWFdl---e~fy~~~~rvLRk~Gg~iavW~Y~ 139 (261)
T KOG3010|consen 100 SVDLITAAQAVHWFDL---ERFYKEAYRVLRKDGGLIAVWNYN 139 (261)
T ss_pred ceeeehhhhhHHhhch---HHHHHHHHHHcCCCCCEEEEEEcc
Confidence 5799999999998887 589999999999865 66655443
No 127
>PLN02366 spermidine synthase
Probab=92.41 E-value=0.3 Score=34.27 Aligned_cols=39 Identities=13% Similarity=-0.092 Sum_probs=26.5
Q ss_pred ceeEEEecccccCCChH--HHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDE--NCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~--~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.||+|+.-..-+.-+.. -...+++.++++|+|||.+++.
T Consensus 165 ~yDvIi~D~~dp~~~~~~L~t~ef~~~~~~~L~pgGvlv~q 205 (308)
T PLN02366 165 TYDAIIVDSSDPVGPAQELFEKPFFESVARALRPGGVVCTQ 205 (308)
T ss_pred CCCEEEEcCCCCCCchhhhhHHHHHHHHHHhcCCCcEEEEC
Confidence 58999874332222211 1457899999999999998653
No 128
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=92.29 E-value=0.21 Score=32.70 Aligned_cols=32 Identities=9% Similarity=0.027 Sum_probs=24.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.||++++...+++. .+.+.+.|+|||++++.-
T Consensus 144 ~fD~I~~~~~~~~~--------~~~l~~~L~~gG~lv~~~ 175 (212)
T PRK00312 144 PFDRILVTAAAPEI--------PRALLEQLKEGGILVAPV 175 (212)
T ss_pred CcCEEEEccCchhh--------hHHHHHhcCCCcEEEEEE
Confidence 48888887765544 456788999999998743
No 129
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=92.29 E-value=0.2 Score=33.01 Aligned_cols=31 Identities=10% Similarity=-0.047 Sum_probs=23.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.||++++....+. +.+.+.+.|+|||++++.
T Consensus 146 ~fD~Ii~~~~~~~--------~~~~~~~~L~~gG~lv~~ 176 (215)
T TIGR00080 146 PYDRIYVTAAGPK--------IPEALIDQLKEGGILVMP 176 (215)
T ss_pred CCCEEEEcCCccc--------ccHHHHHhcCcCcEEEEE
Confidence 4898887765443 345578899999999874
No 130
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=92.27 E-value=0.16 Score=34.68 Aligned_cols=31 Identities=10% Similarity=0.066 Sum_probs=23.2
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.+|+|+.... ...++++++.|+|||+++++.
T Consensus 151 sfD~I~~~~~---------~~~~~e~~rvLkpgG~li~~~ 181 (272)
T PRK11088 151 SLDAIIRIYA---------PCKAEELARVVKPGGIVITVT 181 (272)
T ss_pred ceeEEEEecC---------CCCHHHHHhhccCCCEEEEEe
Confidence 4788876432 124678999999999999875
No 131
>PHA03411 putative methyltransferase; Provisional
Probab=92.05 E-value=0.82 Score=31.77 Aligned_cols=66 Identities=8% Similarity=0.059 Sum_probs=42.3
Q ss_pred ceeEEEecccccCCChHHH------------------HHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHH
Q 042267 2 QVYLSILQWMLHNFDDENC------------------IKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAI 63 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~------------------~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~ 63 (107)
.||+|++.--++..+.++. .++++.+...|+|+|.+.++ ....+ .+.
T Consensus 126 kFDlIIsNPPF~~l~~~d~~~~~~~~GG~~g~~~l~~~~~l~~v~~~L~p~G~~~~~---yss~~----------~y~-- 190 (279)
T PHA03411 126 KFDVVISNPPFGKINTTDTKDVFEYTGGEFEFKVMTLGQKFADVGYFIVPTGSAGFA---YSGRP----------YYD-- 190 (279)
T ss_pred CCcEEEEcCCccccCchhhhhhhhhccCccccccccHHHHHhhhHheecCCceEEEE---Eeccc----------ccc--
Confidence 5899999777766544321 35666777788888866655 11111 011
Q ss_pred HHhhCCCceecCHHHHHHHHHHcCCCc
Q 042267 64 FLIQIPHGRERTKKEFTALAIEAGFKG 90 (107)
Q Consensus 64 ~~~~~~~g~~rt~~e~~~ll~~aGf~~ 90 (107)
...+.+|++++|+++||..
T Consensus 191 --------~sl~~~~y~~~l~~~g~~~ 209 (279)
T PHA03411 191 --------GTMKSNKYLKWSKQTGLVT 209 (279)
T ss_pred --------ccCCHHHHHHHHHhcCcEe
Confidence 0136789999999999975
No 132
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=91.74 E-value=0.34 Score=31.39 Aligned_cols=21 Identities=14% Similarity=0.219 Sum_probs=18.5
Q ss_pred HHHHHHHHhhCCCCCEEEEEe
Q 042267 21 IKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e 41 (107)
..+++.+++.|+|||.+++..
T Consensus 112 ~~~l~~~~r~LkpgG~l~~~t 132 (194)
T TIGR00091 112 PHFLKEYANVLKKGGVIHFKT 132 (194)
T ss_pred HHHHHHHHHHhCCCCEEEEEe
Confidence 478999999999999998754
No 133
>PRK01581 speE spermidine synthase; Validated
Probab=91.54 E-value=0.45 Score=34.35 Aligned_cols=39 Identities=10% Similarity=0.066 Sum_probs=26.3
Q ss_pred ceeEEEeccccc---CCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLH---NFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh---~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.||+|++-..=. ....--...+++.++++|+|||.+++.
T Consensus 226 ~YDVIIvDl~DP~~~~~~~LyT~EFy~~~~~~LkPgGV~V~Q 267 (374)
T PRK01581 226 LYDVIIIDFPDPATELLSTLYTSELFARIATFLTEDGAFVCQ 267 (374)
T ss_pred CccEEEEcCCCccccchhhhhHHHHHHHHHHhcCCCcEEEEe
Confidence 589998763210 011112367899999999999998775
No 134
>COG3963 Phospholipid N-methyltransferase [Lipid metabolism]
Probab=91.37 E-value=0.91 Score=29.48 Aligned_cols=43 Identities=23% Similarity=0.179 Sum_probs=38.6
Q ss_pred CceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 1 MQVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 1 ~~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
+.||.++..--+-.++-....++|+.+...|++||.++-+..-
T Consensus 116 q~~D~viS~lPll~~P~~~~iaile~~~~rl~~gg~lvqftYg 158 (194)
T COG3963 116 QFFDSVISGLPLLNFPMHRRIAILESLLYRLPAGGPLVQFTYG 158 (194)
T ss_pred CeeeeEEeccccccCcHHHHHHHHHHHHHhcCCCCeEEEEEec
Confidence 3689999999888999999999999999999999999888765
No 135
>COG0500 SmtA SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]
Probab=91.11 E-value=0.72 Score=26.89 Aligned_cols=41 Identities=15% Similarity=0.203 Sum_probs=30.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
.+|++ .....+++.+ ....++++.+.++|+|.+++.+....
T Consensus 119 ~~d~~-~~~~~~~~~~--~~~~~~~~~~~l~~~g~~~~~~~~~~ 159 (257)
T COG0500 119 SFDLV-ISLLVLHLLP--PAKALRELLRVLKPGGRLVLSDLLRD 159 (257)
T ss_pred ceeEE-eeeeehhcCC--HHHHHHHHHHhcCCCcEEEEEeccCC
Confidence 47888 4444444444 67999999999999999999877644
No 136
>PF09243 Rsm22: Mitochondrial small ribosomal subunit Rsm22; InterPro: IPR015324 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Rsm22 has been identified as a mitochondrial small ribosomal subunit [] and is a methyltransferase. In Schizosaccharomyces pombe (Fission yeast), Rsm22 is tandemly fused to Cox11 (a factor required for copper insertion into cytochrome oxidase) and the two proteins are proteolytically cleaved after import into the mitochondria []. This entry consists of mitochondrial Rsm22 and homologous sequences from bacteria.; GO: 0008168 methyltransferase activity, 0006412 translation
Probab=91.10 E-value=0.41 Score=32.96 Aligned_cols=42 Identities=12% Similarity=0.289 Sum_probs=35.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
+.|+|+++++|-..++++...+++++-+.+.+ .|+|+|+-.+
T Consensus 102 ~~DLvi~s~~L~EL~~~~r~~lv~~LW~~~~~--~LVlVEpGt~ 143 (274)
T PF09243_consen 102 PDDLVIASYVLNELPSAARAELVRSLWNKTAP--VLVLVEPGTP 143 (274)
T ss_pred CCcEEEEehhhhcCCchHHHHHHHHHHHhccC--cEEEEcCCCh
Confidence 35999999999999998788889999887766 9999996543
No 137
>PRK03612 spermidine synthase; Provisional
Probab=90.58 E-value=0.52 Score=35.39 Aligned_cols=39 Identities=15% Similarity=0.130 Sum_probs=26.6
Q ss_pred ceeEEEecccccCCChHH---HHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDEN---CIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~---~~~iL~~~~~aL~pgg~l~i~ 40 (107)
+||+|+....-+..+... ..++++++++.|+|||.+++.
T Consensus 373 ~fDvIi~D~~~~~~~~~~~L~t~ef~~~~~~~L~pgG~lv~~ 414 (521)
T PRK03612 373 KFDVIIVDLPDPSNPALGKLYSVEFYRLLKRRLAPDGLLVVQ 414 (521)
T ss_pred CCCEEEEeCCCCCCcchhccchHHHHHHHHHhcCCCeEEEEe
Confidence 589998764322212111 246899999999999998774
No 138
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=90.58 E-value=0.57 Score=34.41 Aligned_cols=25 Identities=12% Similarity=0.254 Sum_probs=21.3
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 21 IKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
.++|+++.+.|+|||+++.......
T Consensus 357 ~~iL~~a~~~lkpgG~lvystcs~~ 381 (445)
T PRK14904 357 AELLDHAASLLKPGGVLVYATCSIE 381 (445)
T ss_pred HHHHHHHHHhcCCCcEEEEEeCCCC
Confidence 4689999999999999999876553
No 139
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=90.54 E-value=0.65 Score=33.99 Aligned_cols=24 Identities=21% Similarity=0.294 Sum_probs=21.1
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 21 IKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
.++|+++.+.|+|||+++......
T Consensus 364 ~~iL~~a~~~lkpgG~lvystcsi 387 (434)
T PRK14901 364 AELLESLAPLLKPGGTLVYATCTL 387 (434)
T ss_pred HHHHHHHHHhcCCCCEEEEEeCCC
Confidence 688999999999999999877554
No 140
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=90.39 E-value=0.83 Score=30.68 Aligned_cols=36 Identities=14% Similarity=0.265 Sum_probs=25.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
+||++++ |-+.+.-...+..+.+.|+|||.+++ |.+
T Consensus 144 ~fD~Vfi-----Da~k~~y~~~~~~~~~ll~~GG~ii~-dn~ 179 (234)
T PLN02781 144 EFDFAFV-----DADKPNYVHFHEQLLKLVKVGGIIAF-DNT 179 (234)
T ss_pred CCCEEEE-----CCCHHHHHHHHHHHHHhcCCCeEEEE-EcC
Confidence 4777765 33334567889999999999998655 444
No 141
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=90.29 E-value=4.3 Score=27.77 Aligned_cols=58 Identities=16% Similarity=0.170 Sum_probs=40.3
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEEcC--
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFECNV-- 97 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~~-- 97 (107)
-..+++.+.+.|+|||++.++- +.. ...||.+++.+.+|...++..+.
T Consensus 149 le~~i~~a~~~lk~~G~l~~V~---r~e---------------------------rl~ei~~~l~~~~~~~k~i~~V~p~ 198 (248)
T COG4123 149 LEDLIRAAAKLLKPGGRLAFVH---RPE---------------------------RLAEIIELLKSYNLEPKRIQFVYPK 198 (248)
T ss_pred HHHHHHHHHHHccCCCEEEEEe---cHH---------------------------HHHHHHHHHHhcCCCceEEEEecCC
Confidence 5678999999999999998754 211 12577888888888877766552
Q ss_pred ----CceeEEEEEC
Q 042267 98 ----CNSYVMEFYK 107 (107)
Q Consensus 98 ----~~~~vi~~~~ 107 (107)
...-++++.|
T Consensus 199 ~~k~A~~vLv~~~k 212 (248)
T COG4123 199 IGKAANRVLVEAIK 212 (248)
T ss_pred CCCcceEEEEEEec
Confidence 3445555543
No 142
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=90.18 E-value=0.76 Score=31.37 Aligned_cols=24 Identities=17% Similarity=0.391 Sum_probs=20.2
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 21 IKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
.++|+++.+.|+|||+|+......
T Consensus 179 ~~iL~~a~~~lkpgG~lvYstcs~ 202 (264)
T TIGR00446 179 KELIDSAFDALKPGGVLVYSTCSL 202 (264)
T ss_pred HHHHHHHHHhcCCCCEEEEEeCCC
Confidence 569999999999999998776544
No 143
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=89.93 E-value=0.79 Score=32.25 Aligned_cols=22 Identities=14% Similarity=0.187 Sum_probs=19.3
Q ss_pred HHHHHHHHHhhCCCCCEEEEEe
Q 042267 20 CIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e 41 (107)
..++|+.+++.|+|||++++.-
T Consensus 273 ~~~~l~~~~r~Lk~gG~lv~~~ 294 (329)
T TIGR01177 273 YERSLEEFHEVLKSEGWIVYAV 294 (329)
T ss_pred HHHHHHHHHHHccCCcEEEEEE
Confidence 5789999999999999998753
No 144
>COG4301 Uncharacterized conserved protein [Function unknown]
Probab=89.62 E-value=0.94 Score=31.29 Aligned_cols=40 Identities=20% Similarity=0.239 Sum_probs=32.6
Q ss_pred EEEecccccCCChHHHHHHHHHHHhhCCCCCEEEE-EeeeC
Q 042267 5 LSILQWMLHNFDDENCIKILRNCYKALPNDGKVLV-INSTL 44 (107)
Q Consensus 5 ~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i-~e~~~ 44 (107)
.+++...|-+++.++|..+|.+++.+|+||-.+++ +|.+.
T Consensus 157 ~~flGStlGN~tp~e~~~Fl~~l~~a~~pGd~~LlGvDl~k 197 (321)
T COG4301 157 FVFLGSTLGNLTPGECAVFLTQLRGALRPGDYFLLGVDLRK 197 (321)
T ss_pred EEEecccccCCChHHHHHHHHHHHhcCCCcceEEEeccccC
Confidence 45667788999999999999999999999977665 35443
No 145
>KOG2539 consensus Mitochondrial/chloroplast ribosome small subunit component [Translation, ribosomal structure and biogenesis]
Probab=89.59 E-value=0.7 Score=34.32 Aligned_cols=42 Identities=14% Similarity=0.069 Sum_probs=32.1
Q ss_pred ceeEEEecccccCCChHH-HHHH-HHHHHhhCCCCCEEEEEeee
Q 042267 2 QVYLSILQWMLHNFDDEN-CIKI-LRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~-~~~i-L~~~~~aL~pgg~l~i~e~~ 43 (107)
+||+++.++++|...... .... -..++++.++|+.++++|.-
T Consensus 274 ~yDlvi~ah~l~~~~s~~~R~~v~~s~~r~~~r~g~~lViIe~g 317 (491)
T KOG2539|consen 274 GYDLVICAHKLHELGSKFSRLDVPESLWRKTDRSGYFLVIIEKG 317 (491)
T ss_pred ceeeEEeeeeeeccCCchhhhhhhHHHHHhccCCCceEEEEecC
Confidence 699999999999887543 3333 34456788999999999874
No 146
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=89.54 E-value=0.58 Score=32.03 Aligned_cols=30 Identities=27% Similarity=0.396 Sum_probs=24.6
Q ss_pred cCCChHHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 13 HNFDDENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 13 h~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
=|.+|+ -..+.++.++|+|||.+++.-+..
T Consensus 169 LDmp~P--W~~le~~~~~Lkpgg~~~~y~P~v 198 (256)
T COG2519 169 LDLPDP--WNVLEHVSDALKPGGVVVVYSPTV 198 (256)
T ss_pred EcCCCh--HHHHHHHHHHhCCCcEEEEEcCCH
Confidence 367774 799999999999999998866544
No 147
>PF06325 PrmA: Ribosomal protein L11 methyltransferase (PrmA); InterPro: IPR010456 This family consists of several Ribosomal protein L11 methyltransferase sequences. Its genetic determinant is prmA, which forms a bifunctional operon with the downstream panF gene []. The role of L11 methylation in ribosome function is, as yet, unknown. Deletion of the prmA gene in Escherichia coli showed no obvious effect [] except for the production of undermethylated forms of L11 []. Methylation is the most common post-transcriptional modification to ribosomal proteins in all organisms. PrmA is the only bacterial enzyme that catalyses the methylation of a ribosomal protein [].; GO: 0008276 protein methyltransferase activity, 0006479 protein methylation, 0005737 cytoplasm; PDB: 3GRZ_B 1F3L_A 2NXJ_B 3CJT_I 3CJQ_G 2NXE_A 2NXC_A 2ZBP_A 3EGV_A 3CJS_A ....
Probab=89.35 E-value=2.1 Score=30.00 Aligned_cols=69 Identities=10% Similarity=0.054 Sum_probs=45.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+.+ ++ .+-...+...+.+.|+|||.+++.-.... ...++.+
T Consensus 225 ~~dlvvAN-I~----~~vL~~l~~~~~~~l~~~G~lIlSGIl~~-----------------------------~~~~v~~ 270 (295)
T PF06325_consen 225 KFDLVVAN-IL----ADVLLELAPDIASLLKPGGYLILSGILEE-----------------------------QEDEVIE 270 (295)
T ss_dssp -EEEEEEE-S-----HHHHHHHHHHCHHHEEEEEEEEEEEEEGG-----------------------------GHHHHHH
T ss_pred cCCEEEEC-CC----HHHHHHHHHHHHHhhCCCCEEEEccccHH-----------------------------HHHHHHH
Confidence 57877743 32 23356788889999999999988664431 1245566
Q ss_pred HHHHcCCCceEEEEcCCceeEEEE
Q 042267 82 LAIEAGFKGINFECNVCNSYVMEF 105 (107)
Q Consensus 82 ll~~aGf~~~~~~~~~~~~~vi~~ 105 (107)
.+++ ||+..+........++.--
T Consensus 271 a~~~-g~~~~~~~~~~~W~~l~~~ 293 (295)
T PF06325_consen 271 AYKQ-GFELVEEREEGEWVALVFK 293 (295)
T ss_dssp HHHT-TEEEEEEEEETTEEEEEEE
T ss_pred HHHC-CCEEEEEEEECCEEEEEEE
Confidence 6766 9999887766555555433
No 148
>PF03059 NAS: Nicotianamine synthase protein; InterPro: IPR004298 Nicotianamine synthase 2.5.1.43 from EC catalyzes the trimerization of S-adenosylmethionine to yield one molecule of nicotianamine. Nicotianamine has an important role in plant iron uptake mechanisms. Plants adopt two strategies (termed I and II) of iron acquisition. Strategy I is adopted by all higher plants except graminaceous plants, which adopt strategy II [, ]. In strategy I plants, the role of nicotianamine is not fully determined: possible roles include the formation of more stable complexes with ferrous than with ferric ion, which might serve as a sensor of the physiological status of iron within a plant, or which might be involved in the transport of iron []. In strategy II (graminaceous) plants, nicotianamine is the key intermediate (and nicotianamine synthase the key enzyme) in the synthesis of the mugineic family (the only known family in plants) of phytosiderophores. Phytosiderophores are iron chelators whose secretion by the roots is greatly increased in instances of iron deficiency []. The 3D structures of five example NAS from Methanothermobacter thermautotrophicus reveal the monomer to consist of a five-helical bundle N-terminal domain on top of a classic Rossmann fold C-terminal domain. The N-terminal domain is unique to the NAS family, whereas the C-terminal domain is homologous to the class I family of SAM-dependent methyltransferases. An active site is created at the interface of the two domains, at the rim of a large cavity that corresponds to the nucleotide binding site such as is found in other proteins adopting a Rossmann fold [].; GO: 0030410 nicotianamine synthase activity, 0030418 nicotianamine biosynthetic process; PDB: 3O31_B 3FPH_A 3FPJ_A 3FPE_B 3FPF_B 3FPG_B.
Probab=88.88 E-value=0.76 Score=31.86 Aligned_cols=37 Identities=19% Similarity=0.256 Sum_probs=23.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i 39 (107)
+||+|++..-.- .+.++..++|.++.+.++||.+|++
T Consensus 192 ~~DvV~lAalVg-~~~e~K~~Il~~l~~~m~~ga~l~~ 228 (276)
T PF03059_consen 192 EYDVVFLAALVG-MDAEPKEEILEHLAKHMAPGARLVV 228 (276)
T ss_dssp --SEEEE-TT-S-----SHHHHHHHHHHHS-TTSEEEE
T ss_pred cCCEEEEhhhcc-cccchHHHHHHHHHhhCCCCcEEEE
Confidence 578888877653 3334478999999999999998866
No 149
>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=88.43 E-value=0.76 Score=32.32 Aligned_cols=29 Identities=17% Similarity=0.119 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhhCCCCCEEEEEeeeCCCC
Q 042267 19 NCIKILRNCYKALPNDGKVLVINSTLPEV 47 (107)
Q Consensus 19 ~~~~iL~~~~~aL~pgg~l~i~e~~~~~~ 47 (107)
+..++|+.+.+.|+|||+++|+-+..=|+
T Consensus 218 ~L~~~L~~~~~~L~~gGrl~VISfHSLED 246 (305)
T TIGR00006 218 ELEEALQFAPNLLAPGGRLSIISFHSLED 246 (305)
T ss_pred HHHHHHHHHHHHhcCCCEEEEEecCcHHH
Confidence 46788999999999999999998765443
No 150
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=88.42 E-value=1.2 Score=32.53 Aligned_cols=24 Identities=21% Similarity=0.358 Sum_probs=20.9
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 21 IKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
.++|+++.+.|+|||++++.....
T Consensus 352 ~~iL~~a~~~LkpGG~lvystcs~ 375 (427)
T PRK10901 352 SEILDALWPLLKPGGTLLYATCSI 375 (427)
T ss_pred HHHHHHHHHhcCCCCEEEEEeCCC
Confidence 479999999999999999887544
No 151
>PF08123 DOT1: Histone methylation protein DOT1 ; InterPro: IPR013110 The DOT1 domain regulates gene expression by methylating histone H3 []. H3 methylation by DOT1 has been shown to be required for the DNA damage checkpoint in yeast [].; GO: 0018024 histone-lysine N-methyltransferase activity; PDB: 4ER3_A 4ER6_A 4EQZ_A 1NW3_A 3UWP_A 4ER5_A 3QOX_A 3SX0_A 4ER7_A 3SR4_A ....
Probab=88.10 E-value=0.96 Score=29.93 Aligned_cols=43 Identities=9% Similarity=0.166 Sum_probs=25.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEV 47 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~ 47 (107)
++|+++.++.. ++++-..++ ++....||+|.+++......|..
T Consensus 122 ~AdvVf~Nn~~--F~~~l~~~L-~~~~~~lk~G~~IIs~~~~~~~~ 164 (205)
T PF08123_consen 122 DADVVFVNNTC--FDPDLNLAL-AELLLELKPGARIISTKPFCPRR 164 (205)
T ss_dssp C-SEEEE--TT--T-HHHHHHH-HHHHTTS-TT-EEEESS-SS-TT
T ss_pred CCCEEEEeccc--cCHHHHHHH-HHHHhcCCCCCEEEECCCcCCCC
Confidence 47899999975 666644444 67777899999998877666544
No 152
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=88.00 E-value=1.2 Score=31.14 Aligned_cols=20 Identities=30% Similarity=0.433 Sum_probs=17.9
Q ss_pred HHHHHHHHHhhCCCCCEEEE
Q 042267 20 CIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i 39 (107)
...+++++.+.|+|||++++
T Consensus 242 ~~~i~~~a~~~L~pgG~l~~ 261 (307)
T PRK11805 242 VRRILAEAPDYLTEDGVLVV 261 (307)
T ss_pred HHHHHHHHHHhcCCCCEEEE
Confidence 46889999999999999876
No 153
>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=87.73 E-value=1.2 Score=30.76 Aligned_cols=20 Identities=25% Similarity=0.413 Sum_probs=17.4
Q ss_pred HHHHHHHHHhhCCCCCEEEE
Q 042267 20 CIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i 39 (107)
..++++++.+.|+|||++++
T Consensus 230 ~~~il~~a~~~L~~gG~l~~ 249 (284)
T TIGR03533 230 VRRILAEAADHLNENGVLVV 249 (284)
T ss_pred HHHHHHHHHHhcCCCCEEEE
Confidence 47889999999999999864
No 154
>PF03269 DUF268: Caenorhabditis protein of unknown function, DUF268; InterPro: IPR004951 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=87.68 E-value=2.5 Score=27.22 Aligned_cols=25 Identities=8% Similarity=0.054 Sum_probs=21.0
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 21 IKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
.+.+.++++.|||||.+++.=++-+
T Consensus 91 l~~m~~i~~vLK~GG~L~l~vPvG~ 115 (177)
T PF03269_consen 91 LRAMAKIKCVLKPGGLLFLGVPVGT 115 (177)
T ss_pred HHHHHHHHHhhccCCeEEEEeecCC
Confidence 5778899999999999999776643
No 155
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=87.59 E-value=0.64 Score=32.70 Aligned_cols=30 Identities=23% Similarity=0.208 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEeeeCCCC
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINSTLPEV 47 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~ 47 (107)
++..+.|..+.+.|+|||+++|+-+..=++
T Consensus 221 ~~L~~~L~~a~~~L~~gGRl~VIsFHSLED 250 (314)
T COG0275 221 EELEEALEAALDLLKPGGRLAVISFHSLED 250 (314)
T ss_pred HHHHHHHHHHHHhhCCCcEEEEEEecchHH
Confidence 347788999999999999999998865433
No 156
>PRK07402 precorrin-6B methylase; Provisional
Probab=87.43 E-value=0.9 Score=29.36 Aligned_cols=24 Identities=21% Similarity=0.371 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhhCCCCCEEEEEee
Q 042267 19 NCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 19 ~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
....+++++.+.|+|||++++...
T Consensus 120 ~~~~~l~~~~~~LkpgG~li~~~~ 143 (196)
T PRK07402 120 PIKEILQAVWQYLKPGGRLVATAS 143 (196)
T ss_pred CHHHHHHHHHHhcCCCeEEEEEee
Confidence 357899999999999999988753
No 157
>COG5459 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=87.10 E-value=0.87 Score=33.00 Aligned_cols=43 Identities=14% Similarity=0.262 Sum_probs=29.2
Q ss_pred eeEEEecc-cccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 3 VYLSILQW-MLHNFDDENCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 3 ~D~v~~~~-vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
|++++..+ .+|+-........++++-..+.|||.++|+|.-.|
T Consensus 186 ytl~i~~~eLl~d~~ek~i~~~ie~lw~l~~~gg~lVivErGtp 229 (484)
T COG5459 186 YTLAIVLDELLPDGNEKPIQVNIERLWNLLAPGGHLVIVERGTP 229 (484)
T ss_pred eehhhhhhhhccccCcchHHHHHHHHHHhccCCCeEEEEeCCCc
Confidence 33333333 34554554455589999999999999999996443
No 158
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=86.95 E-value=1.4 Score=32.32 Aligned_cols=24 Identities=25% Similarity=0.488 Sum_probs=20.4
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 21 IKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
.++|.++.+.|+|||.++..-...
T Consensus 346 ~~iL~~a~~~LkpGG~LvYsTCs~ 369 (431)
T PRK14903 346 LRIVSQAWKLLEKGGILLYSTCTV 369 (431)
T ss_pred HHHHHHHHHhcCCCCEEEEEECCC
Confidence 678999999999999988776554
No 159
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=86.91 E-value=1.1 Score=31.44 Aligned_cols=30 Identities=23% Similarity=0.225 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEeeeCCCC
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINSTLPEV 47 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~ 47 (107)
++...+|+.+.+.|+|||+++|+-+..-|+
T Consensus 213 ~~L~~~L~~~~~~L~~gGrl~visfHSlED 242 (296)
T PRK00050 213 EELERALEAALDLLKPGGRLAVISFHSLED 242 (296)
T ss_pred HHHHHHHHHHHHHhcCCCEEEEEecCcHHH
Confidence 346788999999999999999998765443
No 160
>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=86.90 E-value=1.7 Score=29.89 Aligned_cols=21 Identities=14% Similarity=0.102 Sum_probs=17.7
Q ss_pred HHHHHHHHHHhhCCCCCEEEE
Q 042267 19 NCIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 19 ~~~~iL~~~~~aL~pgg~l~i 39 (107)
...++++++.+.|+|||.+++
T Consensus 222 ~~~~ii~~a~~~L~~gG~l~~ 242 (284)
T TIGR00536 222 ILRQIIELAPDYLKPNGFLVC 242 (284)
T ss_pred HHHHHHHHHHHhccCCCEEEE
Confidence 367899999999999998754
No 161
>PRK00536 speE spermidine synthase; Provisional
Probab=85.74 E-value=1.5 Score=30.23 Aligned_cols=32 Identities=22% Similarity=0.238 Sum_probs=24.2
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.||+|+.=.. .+ ....+.++++|+|||.++..
T Consensus 139 ~fDVIIvDs~----~~---~~fy~~~~~~L~~~Gi~v~Q 170 (262)
T PRK00536 139 KYDLIICLQE----PD---IHKIDGLKRMLKEDGVFISV 170 (262)
T ss_pred cCCEEEEcCC----CC---hHHHHHHHHhcCCCcEEEEC
Confidence 5788886532 22 47789999999999999774
No 162
>PF10354 DUF2431: Domain of unknown function (DUF2431); InterPro: IPR019446 This entry represents the N-terminal domain of a family of proteins whose function is not known.
Probab=85.68 E-value=5.9 Score=25.28 Aligned_cols=50 Identities=20% Similarity=0.147 Sum_probs=33.6
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEEc
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
...+++.+.+.|+++|.+.|.= ....+ ++.-.+.++.+++||...+..+.
T Consensus 104 l~~Ff~Sa~~~L~~~G~IhVTl--~~~~p-------------------------y~~W~i~~lA~~~gl~l~~~~~F 153 (166)
T PF10354_consen 104 LRGFFKSASQLLKPDGEIHVTL--KDGQP-------------------------YDSWNIEELAAEAGLVLVRKVPF 153 (166)
T ss_pred HHHHHHHHHHhcCCCCEEEEEe--CCCCC-------------------------CccccHHHHHHhcCCEEEEEecC
Confidence 4566888889999999998843 22111 12234457777789988887665
No 163
>PF08845 SymE_toxin: Toxin SymE, type I toxin-antitoxin system; InterPro: IPR014944 This entry represents a SOS-induced gene whose product shows homology to the antitoxin MazE (SymE), the coding region contains a cis-encoded antisense RNA. The small antisense RNA and the gene have the all the hallmarks of a toxin-antitoxin module. The synthesis of the SymE is tightly repressed at multiple levels; at the transcriptional level by the LexA repressor, at the level of mRNA stability and translation by the SymR RNA and at the level of protein stability by the Lon protease. SymE co-purifies with ribosomes and overproduction of the protein leads to cell growth inhibition, decreased protein synthesis and increased RNA degradation. These properties are shared with several RNA endonuclease toxins of toxin-antitoxin modules. It seems probable that the SymE protein represents an evolutionary derivative of a toxin containing the AbrB fold, whose representatives are typically antitoxins. The SymE promoted cleavage of RNA cleavage may be important for the recycling of RNAs damaged under SOS-inducing conditions []. ; GO: 0003723 RNA binding, 0016788 hydrolase activity, acting on ester bonds, 0016070 RNA metabolic process, 0005737 cytoplasm
Probab=84.67 E-value=0.84 Score=23.99 Aligned_cols=17 Identities=24% Similarity=-0.074 Sum_probs=11.8
Q ss_pred HHHHHHcCCCceEEEEc
Q 042267 80 TALAIEAGFKGINFECN 96 (107)
Q Consensus 80 ~~ll~~aGf~~~~~~~~ 96 (107)
-+||+++||..-+-..+
T Consensus 30 G~WL~~aGF~~G~~v~V 46 (57)
T PF08845_consen 30 GKWLEEAGFTIGDPVKV 46 (57)
T ss_pred hhhhHHhCCCCCCEEEE
Confidence 36899999986544433
No 164
>PF10017 Methyltransf_33: Histidine-specific methyltransferase, SAM-dependent; InterPro: IPR019257 This domain is found in methyltransferases and various hypothetical proteins.
Probab=84.31 E-value=2.8 Score=25.45 Aligned_cols=31 Identities=23% Similarity=0.160 Sum_probs=24.6
Q ss_pred eecCHHHHHHHHHHcCCCceEEEEcC-CceeE
Q 042267 72 RERTKKEFTALAIEAGFKGINFECNV-CNSYV 102 (107)
Q Consensus 72 ~~rt~~e~~~ll~~aGf~~~~~~~~~-~~~~v 102 (107)
.-+|.+++.++++++||++.+.+.-+ ..+++
T Consensus 94 ~Ky~~~~~~~l~~~aGl~~~~~w~d~~~~f~l 125 (127)
T PF10017_consen 94 YKYSPEEFEALAEQAGLEVEKRWTDPKGDFSL 125 (127)
T ss_pred eCcCHHHHHHHHHHCCCeeEEEEECCCCCeEE
Confidence 34899999999999999999887654 34444
No 165
>KOG1269 consensus SAM-dependent methyltransferases [Lipid transport and metabolism; General function prediction only]
Probab=83.91 E-value=1 Score=32.41 Aligned_cols=42 Identities=14% Similarity=0.072 Sum_probs=35.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
.+|.+.+..+.-+.++ ..++++++++.++|||..++-|.+..
T Consensus 178 ~fd~v~~ld~~~~~~~--~~~~y~Ei~rv~kpGG~~i~~e~i~~ 219 (364)
T KOG1269|consen 178 TFDGVRFLEVVCHAPD--LEKVYAEIYRVLKPGGLFIVKEWIKT 219 (364)
T ss_pred ccCcEEEEeecccCCc--HHHHHHHHhcccCCCceEEeHHHHHh
Confidence 4677888888877887 47999999999999999999988754
No 166
>PRK14121 tRNA (guanine-N(7)-)-methyltransferase; Provisional
Probab=83.47 E-value=2.7 Score=30.67 Aligned_cols=21 Identities=14% Similarity=0.248 Sum_probs=18.6
Q ss_pred HHHHHHHHhhCCCCCEEEEEe
Q 042267 21 IKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e 41 (107)
..+|+.+++.|+|||.+.+..
T Consensus 215 ~~fL~e~~RvLkpGG~l~l~T 235 (390)
T PRK14121 215 EDFLNEALRVLKPGGTLELRT 235 (390)
T ss_pred HHHHHHHHHHcCCCcEEEEEE
Confidence 578999999999999998854
No 167
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=83.19 E-value=4.7 Score=27.72 Aligned_cols=55 Identities=18% Similarity=0.192 Sum_probs=35.9
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEEc
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
...+-+++++.|+|||+++= ++- +|+. ...-.|+ .....+-|+++||..++....
T Consensus 224 seefY~El~RiLkrgGrlFH--YvG--~Pg~-----ryrG~d~-------------~~gVa~RLr~vGF~~v~~~~~ 278 (287)
T COG2521 224 SEEFYRELYRILKRGGRLFH--YVG--NPGK-----RYRGLDL-------------PKGVAERLRRVGFEVVKKVRE 278 (287)
T ss_pred HHHHHHHHHHHcCcCCcEEE--EeC--CCCc-----ccccCCh-------------hHHHHHHHHhcCceeeeeehh
Confidence 56788899999999999842 332 2221 0111221 357788899999998776544
No 168
>PF01564 Spermine_synth: Spermine/spermidine synthase; InterPro: IPR001045 Synonym(s): Spermidine aminopropyltransferase A group of polyamine biosynthetic enzymes involved in the fifth (last) step in the biosynthesis of spermidine from arginine and methionine which includes; spermidine synthase (2.5.1.16 from EC), spermine synthase (2.5.1.22 from EC) and putrescine N-methyltransferase (2.1.1.53 from EC) []. The Thermotoga maritima spermidine synthase monomer consists of two domains: an N-terminal domain composed of six beta-strands, and a Rossmann-like C- terminal domain []. The larger C-terminal catalytic core domain consists of a seven-stranded beta-sheet flanked by nine alpha helices. This domain resembles a topology observed in a number of nucleotide and dinucleotide-binding enzymes, and in S-adenosyl-L-methionine (AdoMet)- dependent methyltransferase (MTases) [].; GO: 0003824 catalytic activity; PDB: 2E5W_C 2ZSU_E 2O0L_B 2O05_B 2O06_B 2O07_B 3RW9_B 2PWP_A 2HTE_B 3RIE_B ....
Probab=83.05 E-value=1.4 Score=29.91 Aligned_cols=40 Identities=15% Similarity=0.184 Sum_probs=26.7
Q ss_pred ceeEEEecccccCCChHH--HHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDEN--CIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~--~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.||+|+.-..=...+... ...+++.++++|+|||.+++.-
T Consensus 150 ~yDvIi~D~~dp~~~~~~l~t~ef~~~~~~~L~~~Gv~v~~~ 191 (246)
T PF01564_consen 150 KYDVIIVDLTDPDGPAPNLFTREFYQLCKRRLKPDGVLVLQA 191 (246)
T ss_dssp -EEEEEEESSSTTSCGGGGSSHHHHHHHHHHEEEEEEEEEEE
T ss_pred cccEEEEeCCCCCCCcccccCHHHHHHHHhhcCCCcEEEEEc
Confidence 488887633321112211 3689999999999999998755
No 169
>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=82.71 E-value=0.95 Score=31.91 Aligned_cols=27 Identities=22% Similarity=0.223 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
+.....|.++.+.|+|||+++|+-+..
T Consensus 218 ~~L~~~L~~a~~~L~~gGrl~VISFHS 244 (310)
T PF01795_consen 218 EELERGLEAAPDLLKPGGRLVVISFHS 244 (310)
T ss_dssp HHHHHHHHHHHHHEEEEEEEEEEESSH
T ss_pred HHHHHHHHHHHHHhcCCcEEEEEEecc
Confidence 447788999999999999999998753
No 170
>KOG2940 consensus Predicted methyltransferase [General function prediction only]
Probab=82.45 E-value=0.42 Score=32.67 Aligned_cols=83 Identities=24% Similarity=0.177 Sum_probs=49.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCcee------cC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRE------RT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~------rt 75 (107)
++|+++.+-.+|-.+| ...-+.+|..+|||+|.++- .+...+- .. +......+.-+- ..||.. -.
T Consensus 137 s~DLiisSlslHW~Nd--LPg~m~~ck~~lKPDg~Fia--smlggdT---Ly-ELR~slqLAelE-R~GGiSphiSPf~q 207 (325)
T KOG2940|consen 137 SVDLIISSLSLHWTND--LPGSMIQCKLALKPDGLFIA--SMLGGDT---LY-ELRCSLQLAELE-REGGISPHISPFTQ 207 (325)
T ss_pred chhhhhhhhhhhhhcc--CchHHHHHHHhcCCCccchh--HHhcccc---HH-HHHHHhhHHHHH-hccCCCCCcChhhh
Confidence 5799999999986666 45678899999999997643 2332221 10 011111111111 112211 22
Q ss_pred HHHHHHHHHHcCCCceEE
Q 042267 76 KKEFTALAIEAGFKGINF 93 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~ 93 (107)
..++-.+|..|||....+
T Consensus 208 vrDiG~LL~rAGF~m~tv 225 (325)
T KOG2940|consen 208 VRDIGNLLTRAGFSMLTV 225 (325)
T ss_pred hhhhhhHHhhcCccccee
Confidence 367788999999997654
No 171
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=81.76 E-value=12 Score=26.45 Aligned_cols=67 Identities=10% Similarity=0.094 Sum_probs=44.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHH
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTA 81 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ 81 (107)
.||+|+. |+| . +-..++...+++.++|||++++.-.+.. ..+.+.+
T Consensus 229 ~~DvIVA-NIL---A-~vl~~La~~~~~~lkpgg~lIlSGIl~~-----------------------------q~~~V~~ 274 (300)
T COG2264 229 PFDVIVA-NIL---A-EVLVELAPDIKRLLKPGGRLILSGILED-----------------------------QAESVAE 274 (300)
T ss_pred cccEEEe-hhh---H-HHHHHHHHHHHHHcCCCceEEEEeehHh-----------------------------HHHHHHH
Confidence 4666654 343 2 2256889999999999999988663321 1345667
Q ss_pred HHHHcCCCceEEEEcCCceeE
Q 042267 82 LAIEAGFKGINFECNVCNSYV 102 (107)
Q Consensus 82 ll~~aGf~~~~~~~~~~~~~v 102 (107)
-++++||++.++.......++
T Consensus 275 a~~~~gf~v~~~~~~~eW~~i 295 (300)
T COG2264 275 AYEQAGFEVVEVLEREEWVAI 295 (300)
T ss_pred HHHhCCCeEeEEEecCCEEEE
Confidence 777789999887666444443
No 172
>PF08468 MTS_N: Methyltransferase small domain N-terminal; InterPro: IPR013675 This domain is found to the N terminus of the methyltransferase small domain (IPR007848 from INTERPRO) in bacterial proteins []. ; GO: 0008990 rRNA (guanine-N2-)-methyltransferase activity, 0006364 rRNA processing; PDB: 2PJD_A.
Probab=81.54 E-value=5 Score=25.39 Aligned_cols=30 Identities=17% Similarity=0.344 Sum_probs=21.5
Q ss_pred CCC--hHHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 14 NFD--DENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 14 ~~~--d~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
.|| .+++.-+|..+...|++||.|+|+-..
T Consensus 76 y~PKaK~e~~~lL~~l~~~L~~g~~i~vVGEn 107 (155)
T PF08468_consen 76 YWPKAKAEAQYLLANLLSHLPPGTEIFVVGEN 107 (155)
T ss_dssp E--SSHHHHHHHHHHHHTTS-TT-EEEEEEEG
T ss_pred EccCcHHHHHHHHHHHHHhCCCCCEEEEEecC
Confidence 465 355888999999999999999987644
No 173
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=81.52 E-value=2.5 Score=28.17 Aligned_cols=33 Identities=9% Similarity=0.071 Sum_probs=25.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
.||.|+.....-..|+ ...+.|+|||++++-.-
T Consensus 138 PyD~I~Vtaaa~~vP~--------~Ll~QL~~gGrlv~PvG 170 (209)
T COG2518 138 PYDRIIVTAAAPEVPE--------ALLDQLKPGGRLVIPVG 170 (209)
T ss_pred CcCEEEEeeccCCCCH--------HHHHhcccCCEEEEEEc
Confidence 4788888887766666 35677999999998543
No 174
>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases. ; GO: 0008168 methyltransferase activity
Probab=80.54 E-value=1.4 Score=32.98 Aligned_cols=41 Identities=17% Similarity=0.157 Sum_probs=33.6
Q ss_pred ceeEEEecccccCCCh-HHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 2 QVYLSILQWMLHNFDD-ENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d-~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
.||++-+.+++-.+.+ -+...+|-++-+.|+|||.++|=|.
T Consensus 427 TYDLlHA~~lfs~~~~rC~~~~illEmDRILRP~G~~iiRD~ 468 (506)
T PF03141_consen 427 TYDLLHADGLFSLYKDRCEMEDILLEMDRILRPGGWVIIRDT 468 (506)
T ss_pred chhheehhhhhhhhcccccHHHHHHHhHhhcCCCceEEEecc
Confidence 4799999988877654 3467899999999999999988653
No 175
>COG4122 Predicted O-methyltransferase [General function prediction only]
Probab=80.51 E-value=5.6 Score=26.71 Aligned_cols=38 Identities=16% Similarity=0.243 Sum_probs=27.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
.||++++ |-+...-...+..+.+.|+|||.+++ |.+..
T Consensus 132 ~fDliFI-----DadK~~yp~~le~~~~lLr~GGliv~-DNvl~ 169 (219)
T COG4122 132 SFDLVFI-----DADKADYPEYLERALPLLRPGGLIVA-DNVLF 169 (219)
T ss_pred CccEEEE-----eCChhhCHHHHHHHHHHhCCCcEEEE-eeccc
Confidence 3565554 44555578899999999999998866 44543
No 176
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=79.01 E-value=3.1 Score=27.25 Aligned_cols=32 Identities=16% Similarity=0.150 Sum_probs=23.8
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
+|.+++..- .....+|+.+-..|+|||+|++.
T Consensus 103 ~daiFIGGg------~~i~~ile~~~~~l~~ggrlV~n 134 (187)
T COG2242 103 PDAIFIGGG------GNIEEILEAAWERLKPGGRLVAN 134 (187)
T ss_pred CCEEEECCC------CCHHHHHHHHHHHcCcCCeEEEE
Confidence 556655554 12468999999999999999763
No 177
>PRK13943 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=78.49 E-value=2.1 Score=30.30 Aligned_cols=32 Identities=13% Similarity=0.172 Sum_probs=22.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.||+|+....+++. ...+.+.|+|||++++..
T Consensus 149 ~fD~Ii~~~g~~~i--------p~~~~~~LkpgG~Lvv~~ 180 (322)
T PRK13943 149 PYDVIFVTVGVDEV--------PETWFTQLKEGGRVIVPI 180 (322)
T ss_pred CccEEEECCchHHh--------HHHHHHhcCCCCEEEEEe
Confidence 47888876544433 344677899999988853
No 178
>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=78.31 E-value=1.8 Score=28.65 Aligned_cols=31 Identities=10% Similarity=0.125 Sum_probs=22.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.||.|+........+. .+.+.|++||++++-
T Consensus 141 pfD~I~v~~a~~~ip~--------~l~~qL~~gGrLV~p 171 (209)
T PF01135_consen 141 PFDRIIVTAAVPEIPE--------ALLEQLKPGGRLVAP 171 (209)
T ss_dssp SEEEEEESSBBSS--H--------HHHHTEEEEEEEEEE
T ss_pred CcCEEEEeeccchHHH--------HHHHhcCCCcEEEEE
Confidence 5899999888765554 356678999999883
No 179
>KOG1271 consensus Methyltransferases [General function prediction only]
Probab=78.27 E-value=6.4 Score=26.10 Aligned_cols=66 Identities=17% Similarity=0.089 Sum_probs=40.8
Q ss_pred ceeEEEecccccCCC------hHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecC
Q 042267 2 QVYLSILQWMLHNFD------DENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~------d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt 75 (107)
+||+|+=+..+...+ +.....-+-.+.+.|+|||+++|.-.. .|
T Consensus 136 qfdlvlDKGT~DAisLs~d~~~~r~~~Y~d~v~~ll~~~gifvItSCN------------------------------~T 185 (227)
T KOG1271|consen 136 QFDLVLDKGTLDAISLSPDGPVGRLVVYLDSVEKLLSPGGIFVITSCN------------------------------FT 185 (227)
T ss_pred ceeEEeecCceeeeecCCCCcccceeeehhhHhhccCCCcEEEEEecC------------------------------cc
Confidence 466766666554322 111233467777888888888774422 34
Q ss_pred HHHHHHHHHHcCCCceEEEEcC
Q 042267 76 KKEFTALAIEAGFKGINFECNV 97 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~~ 97 (107)
..|+.+.++.-||.....+|.+
T Consensus 186 ~dELv~~f~~~~f~~~~tvp~p 207 (227)
T KOG1271|consen 186 KDELVEEFENFNFEYLSTVPTP 207 (227)
T ss_pred HHHHHHHHhcCCeEEEEeeccc
Confidence 5677777777778887777654
No 180
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=78.27 E-value=19 Score=26.75 Aligned_cols=56 Identities=14% Similarity=0.098 Sum_probs=35.9
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEE-cCC
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFEC-NVC 98 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~-~~~ 98 (107)
..++++.+.+.|+|||.+++ |.-. + ..+++.+++++.||..+++.+ ..+
T Consensus 360 yr~Ii~~a~~~LkpgG~lil-EiG~--~---------------------------Q~e~V~~ll~~~Gf~~v~v~kDl~G 409 (423)
T PRK14966 360 IRTLAQGAPDRLAEGGFLLL-EHGF--D---------------------------QGAAVRGVLAENGFSGVETLPDLAG 409 (423)
T ss_pred HHHHHHHHHHhcCCCcEEEE-EECc--c---------------------------HHHHHHHHHHHCCCcEEEEEEcCCC
Confidence 34777777888889988753 3210 0 135678888889998776654 355
Q ss_pred ceeEEEE
Q 042267 99 NSYVMEF 105 (107)
Q Consensus 99 ~~~vi~~ 105 (107)
...++.+
T Consensus 410 ~dR~v~~ 416 (423)
T PRK14966 410 LDRVTLG 416 (423)
T ss_pred CcEEEEE
Confidence 5555544
No 181
>PLN02823 spermine synthase
Probab=78.14 E-value=4.3 Score=28.93 Aligned_cols=37 Identities=8% Similarity=-0.024 Sum_probs=23.6
Q ss_pred ceeEEEecccccCCCh--HH---HHHHHH-HHHhhCCCCCEEEE
Q 042267 2 QVYLSILQWMLHNFDD--EN---CIKILR-NCYKALPNDGKVLV 39 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d--~~---~~~iL~-~~~~aL~pgg~l~i 39 (107)
+||+|++-- ..-++. .. -..+++ .+++.|+|||.+++
T Consensus 176 ~yDvIi~D~-~dp~~~~~~~~Lyt~eF~~~~~~~~L~p~Gvlv~ 218 (336)
T PLN02823 176 KFDVIIGDL-ADPVEGGPCYQLYTKSFYERIVKPKLNPGGIFVT 218 (336)
T ss_pred CccEEEecC-CCccccCcchhhccHHHHHHHHHHhcCCCcEEEE
Confidence 588888652 111110 00 246787 89999999998765
No 182
>TIGR02764 spore_ybaN_pdaB polysaccharide deacetylase family sporulation protein PdaB. This model describes the YbaN protein family, also called PdaB and SpoVIE, of Gram-positive bacteria. Although ybaN null mutants have only a mild sporulation defect, ybaN/ytrI double mutants show drastically reducted sporulation efficiencies. This synthetic defect suggests the role of this sigmaE-controlled gene in sporulation had been masked by functional redundancy. Members of this family are homologous to a characterized polysaccharide deacetylase; the exact function this protein family is unknown.
Probab=77.60 E-value=5.7 Score=25.46 Aligned_cols=39 Identities=8% Similarity=0.029 Sum_probs=27.8
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
|.++.-..--.||......++.+++.+.++||+.+++++
T Consensus 121 ~~~v~w~~~~~D~~~~~~~~i~~~~~~~~~~g~Iil~Hd 159 (191)
T TIGR02764 121 YTVVHWSVDSRDWKNPGVESIVDRVVKNTKPGDIILLHA 159 (191)
T ss_pred CeEEEecCCCCccCCCCHHHHHHHHHhcCCCCCEEEEeC
Confidence 343433333457766567789999999999998888876
No 183
>PF07109 Mg-por_mtran_C: Magnesium-protoporphyrin IX methyltransferase C-terminus; InterPro: IPR010940 This entry represents the C terminus (approximately 100 residues) of bacterial and eukaryotic Magnesium-protoporphyrin IX methyltransferase (2.1.1.11 from EC). This converts magnesium-protoporphyrin IX to magnesium-protoporphyrin IX metylester using S-adenosyl-L-methionine as a cofactor [].; GO: 0046406 magnesium protoporphyrin IX methyltransferase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process
Probab=77.07 E-value=12 Score=21.85 Aligned_cols=76 Identities=13% Similarity=0.179 Sum_probs=46.1
Q ss_pred ccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCce------ecCHHHHHHHH
Q 042267 10 WMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGR------ERTKKEFTALA 83 (107)
Q Consensus 10 ~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~------~rt~~e~~~ll 83 (107)
.+|=|.+.++..++|+++... ..|++++ ...|.++- + .....+ .-.++++. ...++++.+.+
T Consensus 3 DvLIHYp~~d~~~~l~~La~~--t~~~~if--TfAP~T~~---L---~~m~~i--G~lFP~~dRsp~i~~~~e~~l~~~l 70 (97)
T PF07109_consen 3 DVLIHYPAEDAAQMLAHLASR--TRGSLIF--TFAPRTPL---L---ALMHAI--GKLFPRPDRSPRIYPHREEDLRRAL 70 (97)
T ss_pred ceEeccCHHHHHHHHHHHHHh--ccCcEEE--EECCCCHH---H---HHHHHH--hccCCCCCCCCcEEEeCHHHHHHHH
Confidence 345567778899999998873 3445544 34454431 1 011111 11123332 35679999999
Q ss_pred HHcCCCceEEEEcC
Q 042267 84 IEAGFKGINFECNV 97 (107)
Q Consensus 84 ~~aGf~~~~~~~~~ 97 (107)
+++||++.+...+.
T Consensus 71 ~~~g~~~~r~~ris 84 (97)
T PF07109_consen 71 AAAGWRIGRTERIS 84 (97)
T ss_pred HhCCCeeeeccccc
Confidence 99999998887774
No 184
>COG0503 Apt Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]
Probab=76.14 E-value=9.3 Score=24.66 Aligned_cols=44 Identities=23% Similarity=0.263 Sum_probs=30.2
Q ss_pred HHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEE
Q 042267 26 NCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 26 ~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~ 95 (107)
-..++|++|-+++|+|-+... || |.....++++++|+++..+..
T Consensus 108 ~~~~~l~~G~rVlIVDDllaT-----------------------Gg---T~~a~~~Ll~~~ga~vvg~~~ 151 (179)
T COG0503 108 LHKDALKPGDRVLIVDDLLAT-----------------------GG---TALALIELLEQAGAEVVGAAF 151 (179)
T ss_pred EEhhhCCCCCEEEEEecchhc-----------------------Ch---HHHHHHHHHHHCCCEEEEEEE
Confidence 344567788888888755432 22 456778889999988876643
No 185
>KOG1661 consensus Protein-L-isoaspartate(D-aspartate) O-methyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=76.08 E-value=2.2 Score=28.69 Aligned_cols=20 Identities=15% Similarity=0.375 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhCCCCCEEEE
Q 042267 20 CIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i 39 (107)
+.++.+++-+-|+|||+++|
T Consensus 172 a~~~pq~l~dqL~~gGrlli 191 (237)
T KOG1661|consen 172 ASELPQELLDQLKPGGRLLI 191 (237)
T ss_pred ccccHHHHHHhhccCCeEEE
Confidence 56788899999999999988
No 186
>PRK11524 putative methyltransferase; Provisional
Probab=75.56 E-value=4.1 Score=28.12 Aligned_cols=20 Identities=15% Similarity=0.554 Sum_probs=18.0
Q ss_pred HHHHHHHHhhCCCCCEEEEE
Q 042267 21 IKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~ 40 (107)
...+..+++.|+|||.++++
T Consensus 60 ~~~l~~~~rvLK~~G~i~i~ 79 (284)
T PRK11524 60 YEWIDECHRVLKKQGTMYIM 79 (284)
T ss_pred HHHHHHHHHHhCCCcEEEEE
Confidence 57899999999999999885
No 187
>PF13578 Methyltransf_24: Methyltransferase domain; PDB: 3SSO_A 3SSN_C 3SSM_D.
Probab=74.64 E-value=2.5 Score=24.27 Aligned_cols=24 Identities=21% Similarity=0.339 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 18 ENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
+....-++.+.+.|+|||.+++.|
T Consensus 82 ~~~~~dl~~~~~~l~~ggviv~dD 105 (106)
T PF13578_consen 82 EAVLRDLENALPRLAPGGVIVFDD 105 (106)
T ss_dssp HHHHHHHHHHGGGEEEEEEEEEE-
T ss_pred HHHHHHHHHHHHHcCCCeEEEEeC
Confidence 447788999999999999998876
No 188
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=74.51 E-value=9.2 Score=27.30 Aligned_cols=32 Identities=16% Similarity=0.197 Sum_probs=25.4
Q ss_pred cCCCh--HHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 13 HNFDD--ENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 13 h~~~d--~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
-.||. +++.-.|.++.+.|+|||.|+++-...
T Consensus 82 ~~~pk~k~~~~~~l~~~~~~l~~g~~i~~~G~~~ 115 (342)
T PRK09489 82 YYWPKNKQEAQFQLMNLLSLLPVGTDIFVVGENR 115 (342)
T ss_pred EECCCCHHHHHHHHHHHHHhCCCCCEEEEEEecc
Confidence 34554 457889999999999999999987543
No 189
>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases. ; GO: 0008168 methyltransferase activity
Probab=74.43 E-value=1 Score=33.78 Aligned_cols=43 Identities=9% Similarity=0.043 Sum_probs=35.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
.||++-.+.++..|...+ ..+|-.+-+.|+|||.++..-+-..
T Consensus 181 ~fDmvHcsrc~i~W~~~~-g~~l~evdRvLRpGGyfv~S~ppv~ 223 (506)
T PF03141_consen 181 AFDMVHCSRCLIPWHPND-GFLLFEVDRVLRPGGYFVLSGPPVY 223 (506)
T ss_pred chhhhhcccccccchhcc-cceeehhhhhhccCceEEecCCccc
Confidence 478999999999998876 4689999999999999988655443
No 190
>COG4353 Uncharacterized conserved protein [Function unknown]
Probab=73.87 E-value=5.9 Score=25.44 Aligned_cols=60 Identities=17% Similarity=0.175 Sum_probs=38.4
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEEc
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
-.+++.-+++.|.|||.|++ +++.+.. . ...+ ..|+....+-+-..|-++||+-.+-+..
T Consensus 72 E~~l~~~l~~~lspg~~lfV-eYv~DrE-T---------~~~l------qkG~~p~atrLGfeL~k~GftwfkdWY~ 131 (192)
T COG4353 72 EVKLYKVLYNFLSPGGKLFV-EYVRDRE-T---------RYRL------QKGKPPVATRLGFELLKAGFTWFKDWYF 131 (192)
T ss_pred HHHHHHHHHHhcCCCCceEE-EEEechh-H---------HHHH------HcCCCCccchhhHHHHhCcceeeeeeec
Confidence 46889999999999999976 6664321 1 0111 1344444455556667789988776544
No 191
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=73.68 E-value=4.6 Score=29.67 Aligned_cols=24 Identities=21% Similarity=0.360 Sum_probs=19.7
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 21 IKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
..+|+++.+.|+|||+++......
T Consensus 359 ~~iL~~a~~~LkpGG~lvystcs~ 382 (444)
T PRK14902 359 LEILESVAQYLKKGGILVYSTCTI 382 (444)
T ss_pred HHHHHHHHHHcCCCCEEEEEcCCC
Confidence 468999999999999998765433
No 192
>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=73.60 E-value=2.2 Score=27.59 Aligned_cols=21 Identities=24% Similarity=0.698 Sum_probs=18.6
Q ss_pred HHHHHHHHHhhCCCCCEEEEE
Q 042267 20 CIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~ 40 (107)
....++.+++.|+|||.+++.
T Consensus 35 ~~~~~~~~~rvLk~~g~~~i~ 55 (231)
T PF01555_consen 35 MEEWLKECYRVLKPGGSIFIF 55 (231)
T ss_dssp HHHHHHHHHHHEEEEEEEEEE
T ss_pred HHHHHHHHHhhcCCCeeEEEE
Confidence 578899999999999999884
No 193
>KOG2352 consensus Predicted spermine/spermidine synthase [Amino acid transport and metabolism]
Probab=72.25 E-value=8.9 Score=28.79 Aligned_cols=47 Identities=19% Similarity=0.269 Sum_probs=35.7
Q ss_pred ceeEEEecccccCCC-hHH-------HHHHHHHHHhhCCCCCEEEEEeee--CCCCC
Q 042267 2 QVYLSILQWMLHNFD-DEN-------CIKILRNCYKALPNDGKVLVINST--LPEVP 48 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~-d~~-------~~~iL~~~~~aL~pgg~l~i~e~~--~~~~~ 48 (107)
++|+++....+|+.- |++ +...+..+.+.|+|||+.+.+-.. .|.++
T Consensus 114 SFdiVIdkGtlDal~~de~a~~~~~~v~~~~~eVsrvl~~~gk~~svtl~~~vp~~r 170 (482)
T KOG2352|consen 114 SFDIVIDKGTLDALFEDEDALLNTAHVSNMLDEVSRVLAPGGKYISVTLVQVVPQGR 170 (482)
T ss_pred ceeEEEecCccccccCCchhhhhhHHhhHHHhhHHHHhccCCEEEEEEeeeeccCCC
Confidence 589999999998764 332 234689999999999999888773 55554
No 194
>PRK11933 yebU rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed
Probab=72.07 E-value=4.1 Score=30.46 Aligned_cols=23 Identities=17% Similarity=0.398 Sum_probs=19.8
Q ss_pred HHHHHHHHhhCCCCCEEEEEeee
Q 042267 21 IKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
.+||.++.+.|+|||+|+-.-..
T Consensus 222 ~~iL~~A~~~LkpGG~LVYSTCT 244 (470)
T PRK11933 222 RELIESAFHALKPGGTLVYSTCT 244 (470)
T ss_pred HHHHHHHHHHcCCCcEEEEECCC
Confidence 78999999999999999776553
No 195
>PF08704 GCD14: tRNA methyltransferase complex GCD14 subunit; InterPro: IPR014816 GCD14 is a subunit of the tRNA methyltransferase complex and is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA []. ; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity, 0030488 tRNA methylation; PDB: 2YVL_C 1YB2_A 2B25_B 1O54_A 2PWY_B 1I9G_A 3LGA_B 3LHD_C 3MB5_A.
Probab=71.98 E-value=2.2 Score=29.15 Aligned_cols=28 Identities=14% Similarity=0.337 Sum_probs=22.8
Q ss_pred CCChHHHHHHHHHHHhhC-CCCCEEEEEeee
Q 042267 14 NFDDENCIKILRNCYKAL-PNDGKVLVINST 43 (107)
Q Consensus 14 ~~~d~~~~~iL~~~~~aL-~pgg~l~i~e~~ 43 (107)
|.+++ -..+.++.++| +|||++++.-++
T Consensus 120 Dlp~P--w~~i~~~~~~L~~~gG~i~~fsP~ 148 (247)
T PF08704_consen 120 DLPDP--WEAIPHAKRALKKPGGRICCFSPC 148 (247)
T ss_dssp ESSSG--GGGHHHHHHHE-EEEEEEEEEESS
T ss_pred eCCCH--HHHHHHHHHHHhcCCceEEEECCC
Confidence 67764 57899999999 899999987654
No 196
>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=70.87 E-value=7.5 Score=26.36 Aligned_cols=21 Identities=19% Similarity=0.192 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhCCCCCEEEEE
Q 042267 20 CIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~ 40 (107)
..++++++.+.|+|||++++.
T Consensus 195 ~~~i~~~a~~~L~~gG~l~l~ 215 (251)
T TIGR03704 195 LRRVAAGAPDWLAPGGHLLVE 215 (251)
T ss_pred HHHHHHHHHHhcCCCCEEEEE
Confidence 358889999999999999864
No 197
>KOG3201 consensus Uncharacterized conserved protein [Function unknown]
Probab=70.83 E-value=8.9 Score=24.95 Aligned_cols=38 Identities=18% Similarity=0.230 Sum_probs=29.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.||.|+...++ +=|+--..+.+.+...|+|.|+-++.-
T Consensus 103 tFDiIlaADCl--FfdE~h~sLvdtIk~lL~p~g~Al~fs 140 (201)
T KOG3201|consen 103 TFDIILAADCL--FFDEHHESLVDTIKSLLRPSGRALLFS 140 (201)
T ss_pred cccEEEeccch--hHHHHHHHHHHHHHHHhCcccceeEec
Confidence 48999999987 335556788889999999999966643
No 198
>PRK13699 putative methylase; Provisional
Probab=70.15 E-value=6.5 Score=26.35 Aligned_cols=20 Identities=15% Similarity=0.240 Sum_probs=17.5
Q ss_pred HHHHHHHHHhhCCCCCEEEE
Q 042267 20 CIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i 39 (107)
....++++++.|+|||.+++
T Consensus 51 ~~~~l~E~~RVLKpgg~l~i 70 (227)
T PRK13699 51 LQPACNEMYRVLKKDALMVS 70 (227)
T ss_pred HHHHHHHHHHHcCCCCEEEE
Confidence 46789999999999998876
No 199
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=69.87 E-value=6.5 Score=26.00 Aligned_cols=37 Identities=16% Similarity=0.246 Sum_probs=27.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
+||+|++=. +..+-...+..+.+.|+|||.+++=+..
T Consensus 121 ~fD~VFiDa-----~K~~y~~y~~~~~~ll~~ggvii~DN~l 157 (205)
T PF01596_consen 121 QFDFVFIDA-----DKRNYLEYFEKALPLLRPGGVIIADNVL 157 (205)
T ss_dssp SEEEEEEES-----TGGGHHHHHHHHHHHEEEEEEEEEETTT
T ss_pred ceeEEEEcc-----cccchhhHHHHHhhhccCCeEEEEcccc
Confidence 478877643 4455778889999999999988664433
No 200
>KOG2198 consensus tRNA cytosine-5-methylases and related enzymes of the NOL1/NOP2/sun superfamily [Translation, ribosomal structure and biogenesis]
Probab=69.86 E-value=4.8 Score=29.17 Aligned_cols=26 Identities=23% Similarity=0.413 Sum_probs=22.0
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
-.+||++..++|++||+|+-...-..
T Consensus 275 Q~~iL~rgl~lLk~GG~lVYSTCSLn 300 (375)
T KOG2198|consen 275 QLRILRRGLRLLKVGGRLVYSTCSLN 300 (375)
T ss_pred HHHHHHHHHHHhcCCCEEEEeccCCC
Confidence 36899999999999999988776554
No 201
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=68.74 E-value=15 Score=25.92 Aligned_cols=38 Identities=18% Similarity=0.322 Sum_probs=26.9
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
+|++++.+-= +..++...|.++.+.++|||.|+++-..
T Consensus 38 ~d~~l~~~pK---~~~e~e~qLa~ll~~~~~g~~i~v~g~~ 75 (300)
T COG2813 38 FDAVLLYWPK---HKAEAEFQLAQLLARLPPGGEIVVVGEK 75 (300)
T ss_pred CCEEEEEccC---chHHHHHHHHHHHhhCCCCCeEEEEecc
Confidence 4555543321 2355788899999999999999987643
No 202
>PF11312 DUF3115: Protein of unknown function (DUF3115); InterPro: IPR021463 This eukaryotic family of proteins has no known function.
Probab=67.71 E-value=8.8 Score=27.25 Aligned_cols=28 Identities=21% Similarity=0.235 Sum_probs=24.3
Q ss_pred ChHHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 16 DDENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 16 ~d~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
+..+-.++|+++-+.++||..|+|+|.-
T Consensus 217 s~~kTt~FLl~Lt~~~~~GslLLVvDSp 244 (315)
T PF11312_consen 217 SISKTTKFLLRLTDICPPGSLLLVVDSP 244 (315)
T ss_pred ChHHHHHHHHHHHhhcCCCcEEEEEcCC
Confidence 3455789999999999999999999964
No 203
>PF07927 YcfA: YcfA-like protein; InterPro: IPR012933 This entry represents UPF0395, which contains viral, archaeal and bacterial proteins. It includes YncN of Escherichia coli K12. Most of these proteins are hypothetical proteins of unknown function. ; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1WHZ_A.
Probab=67.34 E-value=5.6 Score=20.17 Aligned_cols=17 Identities=29% Similarity=0.507 Sum_probs=13.7
Q ss_pred HHHHHHHHHcCCCceEE
Q 042267 77 KEFTALAIEAGFKGINF 93 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~ 93 (107)
.|+.++|++.||+..+.
T Consensus 2 ~el~k~L~~~G~~~~r~ 18 (56)
T PF07927_consen 2 RELIKLLEKAGFEEVRQ 18 (56)
T ss_dssp HHHHHHHHHTT-EEEEE
T ss_pred hHHHHHHHHCCCEEecC
Confidence 58899999999998854
No 204
>cd01093 CRIB_PAK_like PAK (p21 activated kinase) Binding Domain (PBD), binds Cdc42p- and/or Rho-like small GTPases; also known as the Cdc42/Rac interactive binding (CRIB) motif; has been shown to inhibit transcriptional activation and cell transformation mediated by the Ras-Rac pathway. This subgroup of CRIB/PBD-domains is found N-terminal of Serine/Threonine kinase domains in PAK and PAK-like proteins.
Probab=65.83 E-value=4.4 Score=20.15 Aligned_cols=17 Identities=18% Similarity=0.276 Sum_probs=14.2
Q ss_pred HHHHHHHHHHcCCCceE
Q 042267 76 KKEFTALAIEAGFKGIN 92 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~ 92 (107)
..||+++|..+|.+..+
T Consensus 28 P~eW~~ll~~sgis~~e 44 (46)
T cd01093 28 PEEWQRLLKSSGITKEE 44 (46)
T ss_pred CHHHHHHHHHcCCCHHH
Confidence 47999999999988654
No 205
>PF08002 DUF1697: Protein of unknown function (DUF1697); InterPro: IPR012545 This family contains many hypothetical bacterial proteins.; PDB: 2HIY_B.
Probab=64.64 E-value=9 Score=23.64 Aligned_cols=26 Identities=15% Similarity=0.206 Sum_probs=18.3
Q ss_pred Cc-eecCHHHHHHHHHHcCCCceEEEE
Q 042267 70 HG-RERTKKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 70 ~g-~~rt~~e~~~ll~~aGf~~~~~~~ 95 (107)
|| +.-..++++++|+++||+.++.+-
T Consensus 14 GG~nki~MaeLr~~l~~~Gf~~V~Tyi 40 (137)
T PF08002_consen 14 GGKNKIKMAELREALEDLGFTNVRTYI 40 (137)
T ss_dssp TTBS---HHHHHHHHHHCT-EEEEEET
T ss_pred CCCCcccHHHHHHHHHHcCCCCceEEE
Confidence 55 347889999999999999987643
No 206
>COG0144 Sun tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]
Probab=64.01 E-value=10 Score=27.16 Aligned_cols=26 Identities=23% Similarity=0.267 Sum_probs=21.6
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
-.+||.++.+.|+|||.|+..-....
T Consensus 267 Q~~iL~~a~~~lk~GG~LVYSTCS~~ 292 (355)
T COG0144 267 QKEILAAALKLLKPGGVLVYSTCSLT 292 (355)
T ss_pred HHHHHHHHHHhcCCCCEEEEEccCCc
Confidence 35789999999999999998876553
No 207
>TIGR02873 spore_ylxY probable sporulation protein, polysaccharide deacetylase family. Members of this protein family are most closely related to TIGR02764, a subset of polysaccharide deacetylase family proteins found in a species if and only if the species forms endospores like those of Bacillus subtilis or Clostridium tetani. This family is likewise restricted to spore-formers, but is not universal among them in having sequences with full-length matches to the model.
Probab=63.90 E-value=15 Score=25.38 Aligned_cols=30 Identities=7% Similarity=0.105 Sum_probs=23.4
Q ss_pred ccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 12 LHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 12 lh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
-.||.......+.+++.+.++||+.|++++
T Consensus 209 ~~Dw~~~~~~~i~~~v~~~~~~G~IILmHd 238 (268)
T TIGR02873 209 TIDWKNPSPSVMVNRVLSKIHPGAMVLMHP 238 (268)
T ss_pred CCCCCCCCHHHHHHHHHhcCCCCcEEEEcC
Confidence 367865556788899988899998887775
No 208
>PF13592 HTH_33: Winged helix-turn helix
Probab=63.38 E-value=8 Score=20.14 Aligned_cols=27 Identities=15% Similarity=0.052 Sum_probs=22.4
Q ss_pred CceecCHHHHHHHHHHcCCCceEEEEc
Q 042267 70 HGRERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
-|..++.+.+..+|...||+-.+..+.
T Consensus 18 fgv~ys~~~v~~lL~r~G~s~~kp~~~ 44 (60)
T PF13592_consen 18 FGVKYSPSGVYRLLKRLGFSYQKPRPR 44 (60)
T ss_pred HCCEEcHHHHHHHHHHcCCccccCCCC
Confidence 467789999999999999998766544
No 209
>TIGR03439 methyl_EasF probable methyltransferase domain, EasF family. This model represents an uncharacterized domain of about 300 amino acids with homology to S-adenosylmethionine-dependent methyltransferases. Proteins with this domain are exclusively fungal. A few, such as EasF from Neotyphodium lolii, are associated with the biosynthesis of ergot alkaloids, a class of fungal secondary metabolites. EasF may, in fact, be the AdoMet:dimethylallyltryptophan N-methyltransferase, the enzyme that follows tryptophan dimethylallyltransferase (DMATS) in ergot alkaloid biosynthesis. Several other members of this family, including mug158 (meiotically up-regulated gene 158 protein) from Schizosaccharomyces pombe, contain an additional uncharacterized domain DUF323 (pfam03781).
Probab=62.53 E-value=16 Score=25.92 Aligned_cols=31 Identities=23% Similarity=0.170 Sum_probs=24.8
Q ss_pred eecCHHHHHHHHHHcCCCceEEEEcC-CceeE
Q 042267 72 RERTKKEFTALAIEAGFKGINFECNV-CNSYV 102 (107)
Q Consensus 72 ~~rt~~e~~~ll~~aGf~~~~~~~~~-~~~~v 102 (107)
.-+|.++++++++++||++.+.+.-+ ..+++
T Consensus 286 ~Kyt~~~~~~l~~~aG~~~~~~W~d~~~~f~~ 317 (319)
T TIGR03439 286 GKYDKDEREKLCQSAGLKVVDVWTNEDGDYGI 317 (319)
T ss_pred eCCCHHHHHHHHHHCCCeeeEEEECCCCceee
Confidence 45899999999999999999987654 34444
No 210
>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=61.29 E-value=6.8 Score=24.45 Aligned_cols=24 Identities=17% Similarity=0.285 Sum_probs=19.2
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeee
Q 042267 20 CIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
-.+.|+.+.+.|+|||.+.|+=+.
T Consensus 71 Tl~Al~~al~lL~~gG~i~iv~Y~ 94 (140)
T PF06962_consen 71 TLKALEAALELLKPGGIITIVVYP 94 (140)
T ss_dssp HHHHHHHHHHHEEEEEEEEEEE--
T ss_pred HHHHHHHHHHhhccCCEEEEEEeC
Confidence 567789999999999999986543
No 211
>COG2326 Uncharacterized conserved protein [Function unknown]
Probab=61.28 E-value=11 Score=26.07 Aligned_cols=65 Identities=15% Similarity=0.247 Sum_probs=41.2
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCC---ceecCHHHHHHHHHHcCCCceEEE
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPH---GRERTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---g~~rt~~e~~~ll~~aGf~~~~~~ 94 (107)
..-.|++..+.|+.+|.++|.|--.-+...- + ..++.. ++. -..+...+++++|.+.|-.++++.
T Consensus 117 ~qwY~qRy~~~lPa~GeiviFdRSwYnr~gV---e---RVmGfc----t~~q~~rfl~eip~FE~mL~~~Gi~l~Kfw 184 (270)
T COG2326 117 GQWYFQRYVAHLPAAGEIVIFDRSWYNRAGV---E---RVMGFC----TPKQYKRFLREIPEFERMLVESGIILVKFW 184 (270)
T ss_pred ccHHHHHHHHhCCCCCeEEEechhhccccCe---e---eccccC----CHHHHHHHHHHhhHHHHHHHhCCeEEEEEE
Confidence 6677999999999999999988655432210 0 111110 101 112556788999999997777664
No 212
>PF06283 ThuA: Trehalose utilisation; PDB: 4E5V_A 1T0B_A.
Probab=60.76 E-value=23 Score=23.19 Aligned_cols=36 Identities=17% Similarity=0.217 Sum_probs=20.6
Q ss_pred ceeEEEeccccc-CCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLH-NFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh-~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
+||++++...-. .+++++... |++. ++.||.++.+.
T Consensus 52 ~~Dvvv~~~~~~~~l~~~~~~a-l~~~---v~~Ggglv~lH 88 (217)
T PF06283_consen 52 GYDVVVFYNTGGDELTDEQRAA-LRDY---VENGGGLVGLH 88 (217)
T ss_dssp T-SEEEEE-SSCCGS-HHHHHH-HHHH---HHTT-EEEEEG
T ss_pred CCCEEEEECCCCCcCCHHHHHH-HHHH---HHcCCCEEEEc
Confidence 689999998875 466654333 3333 33588887777
No 213
>TIGR03709 PPK2_rel_1 polyphosphate:nucleotide phosphotransferase, PPK2 family. Members of this protein family belong to the polyphosphate kinase 2 (PPK2) family, which is not related in sequence to PPK1. While PPK1 tends to act in the biosynthesis of polyphosphate, or poly(P), members of the PPK2 family tend to use the terminal phosphate of poly(P) to regenerate ATP or GTP from the corresponding nucleoside diphosphate, or ADP from AMP as is the case with polyphosphate:AMP phosphotransferase (PAP). Members of this protein family most likely transfer the terminal phosphate between poly(P) and some nucleotide, but it is not clear which.
Probab=59.99 E-value=11 Score=26.07 Aligned_cols=68 Identities=21% Similarity=0.173 Sum_probs=40.6
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEE
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~ 94 (107)
..-.|.+..+.|++.|.+.|.+--.-+..... +..-..+-.- . ......-..|++.|.+.|..++++.
T Consensus 99 ~~p~lWRfw~~lP~~G~i~IF~RSWY~~vl~~---rv~g~~~~~~---~-~~~~~~I~~FEr~L~~~G~~IiKff 166 (264)
T TIGR03709 99 DHDFLWRIHKALPERGEIGIFNRSHYEDVLVV---RVHGLIPKAI---W-ERRYEDINDFERYLTENGTTILKFF 166 (264)
T ss_pred cCchHHHHHHhCCCCCeEEEEcCccccchhhh---hhcCCCCHHH---H-HHHHHHHHHHHHHHHHCCcEEEEEE
Confidence 56778899999999999988876544332110 0000000000 0 1122455788999999998888874
No 214
>PF07090 DUF1355: Protein of unknown function (DUF1355); InterPro: IPR010768 This entry is found in several hypothetical bacterial proteins of around 250 residues in length. The function of these proteins is unknown.; PDB: 2GK3_D 3SOZ_C 3RHT_D.
Probab=59.83 E-value=12 Score=24.33 Aligned_cols=37 Identities=22% Similarity=0.285 Sum_probs=18.5
Q ss_pred ceeEEEecccccCCC-----hHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFD-----DENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~-----d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
+||+|++.++=.+.- .+...+.|++..+ .||-|+++-
T Consensus 67 ~yD~vIl~dv~~~~ll~~~~~~~~~~~l~~yV~---~GGgLlmig 108 (177)
T PF07090_consen 67 RYDVVILSDVPANSLLKSRRSPNQLELLADYVR---DGGGLLMIG 108 (177)
T ss_dssp T-SEEEEES--HHHHHT----HHHHHHHHHHHH---TT-EEEEE-
T ss_pred cCCEEEEeCCCchhcccccCCHHHHHHHHHHHH---hCCEEEEEe
Confidence 689999988643222 2233444555544 487777763
No 215
>COG3897 Predicted methyltransferase [General function prediction only]
Probab=59.39 E-value=26 Score=23.48 Aligned_cols=41 Identities=15% Similarity=0.129 Sum_probs=29.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCC-CCEEEEEeeeCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPN-DGKVLVINSTLP 45 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~p-gg~l~i~e~~~~ 45 (107)
.+|+++++.++.+.+. +.++++ +...|+. |-.++|.|+-.+
T Consensus 142 ~~Dl~LagDlfy~~~~--a~~l~~-~~~~l~~~g~~vlvgdp~R~ 183 (218)
T COG3897 142 AFDLLLAGDLFYNHTE--ADRLIP-WKDRLAEAGAAVLVGDPGRA 183 (218)
T ss_pred ceeEEEeeceecCchH--HHHHHH-HHHHHHhCCCEEEEeCCCCC
Confidence 5899999999977766 567777 6655654 666666665443
No 216
>PF02390 Methyltransf_4: Putative methyltransferase ; InterPro: IPR003358 This entry represents tRNA (guanine-N-7) methyltransferase (2.1.1.33 from EC), which catalyses the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. Capping of the pre-mRNA 5' end by addition a monomethylated guanosine cap (m(7)G) is an essential and the earliest modification in the biogenesis of mRNA []. The reaction is catalysed by three enzymes: triphosphatase, guanylyltransferase, and tRNA (guanine-N-7) methyltransferase [, ].; GO: 0008176 tRNA (guanine-N7-)-methyltransferase activity, 0006400 tRNA modification; PDB: 3DXZ_A 3DXY_A 3DXX_A 3CKK_A 3P2I_B 3P2K_D 3P2E_A 3MTE_B 3PB3_B 1YZH_B ....
Probab=59.07 E-value=5.9 Score=25.85 Aligned_cols=21 Identities=14% Similarity=0.194 Sum_probs=18.1
Q ss_pred HHHHHHHHhhCCCCCEEEEEe
Q 042267 21 IKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e 41 (107)
..+|+.+++.|+|||.+.+.-
T Consensus 113 ~~fl~~~~~~L~~gG~l~~~T 133 (195)
T PF02390_consen 113 PEFLELLARVLKPGGELYFAT 133 (195)
T ss_dssp HHHHHHHHHHEEEEEEEEEEE
T ss_pred chHHHHHHHHcCCCCEEEEEe
Confidence 578999999999999997753
No 217
>PF06557 DUF1122: Protein of unknown function (DUF1122); InterPro: IPR008304 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 2ARH_C.
Probab=58.06 E-value=12 Score=24.12 Aligned_cols=60 Identities=13% Similarity=0.117 Sum_probs=30.2
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEEc
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
-..+++-+++.|+|||++.| +.+.+. +.. .... .|..-....+-..|.++||+..+-+..
T Consensus 65 E~~l~~~~~~~l~pg~~lfV-eY~~D~-----eT~-~~L~----------~G~pp~~TrLG~~Ll~~GFtwfKdWYf 124 (170)
T PF06557_consen 65 EDELYKLFSRYLEPGGRLFV-EYVEDR-----ETR-RQLQ----------RGVPPAETRLGFSLLKAGFTWFKDWYF 124 (170)
T ss_dssp HHHHHHHHHTT----SEEEE-E-TT-H-----HHH-HHHH----------TT--GGGSHHHHHHHTTT--EEEEEE-
T ss_pred HHHHHHHHHHHhhhcCeEEE-EEecCH-----HHH-HHHH----------cCCCcccchhHHHHHhCCcEEEeeeec
Confidence 46889999999999999976 555321 110 0111 232333445667778899998876544
No 218
>PF05772 NinB: NinB protein; InterPro: IPR008711 The ninR region of Bacteriophage lambda contains two recombination genes, orf (ninB) and rap (ninG), that have roles when the RecF and RecBCD recombination pathways of Escherichia coli, respectively, operate on phage lambda []. Genetic recombination in phage lambda relies on DNA end processing by Exo to expose 3'-tailed strands for annealing and exchange by beta protein. Phage lambda encodes an additional recombinase, NinB (Orf), which participates in the early stages of recombination by supplying a function equivalent to the E. coli RecFOR complex. These host enzymes assist loading of the RecA strand exchange protein onto ssDNA coated with ssDNA-binding protein. NinB has two structural domains with unusual folds, and exists as an intertwined dimer [].; PDB: 1PC6_B.
Probab=57.96 E-value=26 Score=21.46 Aligned_cols=34 Identities=15% Similarity=0.215 Sum_probs=18.0
Q ss_pred cHHHHhhCCCceecCHHHHHHHHHHcCC-----CceEEEEc
Q 042267 61 DAIFLIQIPHGRERTKKEFTALAIEAGF-----KGINFECN 96 (107)
Q Consensus 61 ~~~~~~~~~~g~~rt~~e~~~ll~~aGf-----~~~~~~~~ 96 (107)
|+.-.+.. +|+.++.++|+.+|.. +| ...++.+.
T Consensus 49 dIs~qv~~-~G~k~~~e~WK~~~~~-~~~~~~~~~~~~~~g 87 (127)
T PF05772_consen 49 DISRQVEW-NGRKLDPEDWKELFTA-AFLIATGEEQRVVPG 87 (127)
T ss_dssp HHHHH--B-TTB---HHHHHHHHHH-HH-----S--EEEE-
T ss_pred HHHHHhHh-cCccCCHHHHHHHHHH-HHhhhccchhhhccC
Confidence 33334433 8999999999999984 56 44455553
No 219
>TIGR03707 PPK2_P_aer polyphosphate kinase 2, PA0141 family. Members of this protein family are designated polyphosphate kinase 2 (PPK2) after the characterized protein in Pseudomonas aeruginosa. This family comprises one of three well-separated clades in the larger family described by Pfam model pfam03976. PA0141 from this family has been shown capable of operating in reverse, with GDP preferred (over ADP) as a substrate, producing GTP (or ATP) by transfer of a phosphate residue from polyphosphate. Most species with a member of this family also encode a polyphosphate kinase 1 (PPK1).
Probab=57.48 E-value=21 Score=24.19 Aligned_cols=70 Identities=13% Similarity=0.199 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEE
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~ 94 (107)
+...-.|.+..+.|++.|.+.|.+--.-+.... .+ ..+...-... ......-+++++.|.+.|..++++.
T Consensus 72 E~~~p~lwRfw~~lP~~G~i~IF~rSwY~~~lv---~r---v~~~~~~~~~-~~~~~~I~~FEr~L~~~G~~IlKff 141 (230)
T TIGR03707 72 ERTQWYFQRYVQHLPAAGEIVLFDRSWYNRAGV---ER---VMGFCTDEEY-EEFLRQVPEFERMLVRDGIHLFKYW 141 (230)
T ss_pred HHcChHHHHHHHhCCCCCeEEEEeCchhhhHHH---HH---hcCCCCHHHH-HHHHHHHHHHHHHHHHCCCEEEEEE
Confidence 336778889999999999988887543322110 00 0000000000 1112345788999999998888874
No 220
>PF02636 Methyltransf_28: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR003788 This entry describes proteins of unknown function.; PDB: 4F3N_A 1ZKD_B.
Probab=57.36 E-value=18 Score=24.42 Aligned_cols=27 Identities=26% Similarity=0.541 Sum_probs=23.0
Q ss_pred HHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 19 NCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 19 ~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
.+..+++++.+.++.||.++++|+-.+
T Consensus 172 ~~~~~l~~l~~~~~~~g~~l~iDYG~~ 198 (252)
T PF02636_consen 172 GALQWLEQLAERLPKGGALLIIDYGYP 198 (252)
T ss_dssp CHHHHHHHHHHHCCC-EEEEEEEEEES
T ss_pred HHHHHHHHHHHHHhhCCEEEEEeCCCC
Confidence 478999999999999999999998763
No 221
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=56.45 E-value=29 Score=25.93 Aligned_cols=45 Identities=16% Similarity=0.182 Sum_probs=34.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPE 46 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~ 46 (107)
.+|+++.=-.=.+.-|++...=++++++.++|.-.|+|+|.....
T Consensus 182 ~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam~GQ 226 (451)
T COG0541 182 GYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMIGQ 226 (451)
T ss_pred CCCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEecccch
Confidence 367777655443444666777799999999999999999987653
No 222
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA. A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification
Probab=56.33 E-value=38 Score=19.60 Aligned_cols=44 Identities=11% Similarity=0.129 Sum_probs=27.9
Q ss_pred ceeEEEeccc-ccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 2 QVYLSILQWM-LHNFDDENCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 2 ~~D~v~~~~v-lh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
++|++++... +-+-.+.+....++++.+.=+|+.++++.-.+..
T Consensus 36 ~AD~iiiNTC~V~~~Ae~k~~~~i~~l~~~~~~~~~ivv~GC~aq 80 (98)
T PF00919_consen 36 EADVIIINTCTVRESAEQKSRNRIRKLKKLKKPGAKIVVTGCMAQ 80 (98)
T ss_pred cCCEEEEEcCCCCcHHHHHHHHHHHHHHHhcCCCCEEEEEeCccc
Confidence 5688777764 3333444456666666654458899988876654
No 223
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=56.30 E-value=15 Score=24.72 Aligned_cols=21 Identities=14% Similarity=0.162 Sum_probs=18.1
Q ss_pred HHHHHHHHhhCCCCCEEEEEe
Q 042267 21 IKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e 41 (107)
..+|+.+.+.|+|||.+.+.-
T Consensus 144 ~~fl~~~a~~Lk~gG~l~~aT 164 (227)
T COG0220 144 PEFLKLYARKLKPGGVLHFAT 164 (227)
T ss_pred HHHHHHHHHHccCCCEEEEEe
Confidence 478999999999999997753
No 224
>PF14740 DUF4471: Domain of unknown function (DUF4471)
Probab=55.96 E-value=12 Score=26.27 Aligned_cols=60 Identities=25% Similarity=0.343 Sum_probs=36.4
Q ss_pred eeEEEecc-cccCCChHHHHHHHHHHHhhCCCCCEEEEEeee---CCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHH
Q 042267 3 VYLSILQW-MLHNFDDENCIKILRNCYKALPNDGKVLVINST---LPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKE 78 (107)
Q Consensus 3 ~D~v~~~~-vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e 78 (107)
||++++++ ..|.+.++ +.++++|||.|++ |.. .+-.. ....--.+.
T Consensus 223 Fd~ifvs~s~vh~L~p~--------l~~~~a~~A~Lvv-EtaKfmvdLrK---------------------Eq~~~F~~k 272 (289)
T PF14740_consen 223 FDLIFVSCSMVHFLKPE--------LFQALAPDAVLVV-ETAKFMVDLRK---------------------EQLQEFVKK 272 (289)
T ss_pred CCEEEEhhhhHhhcchH--------HHHHhCCCCEEEE-EcchhheeCCH---------------------HHHHHHHHH
Confidence 56655554 66877774 6667899987754 532 11111 000111468
Q ss_pred HHHHHHHcCCCceE
Q 042267 79 FTALAIEAGFKGIN 92 (107)
Q Consensus 79 ~~~ll~~aGf~~~~ 92 (107)
..+|.+++||+...
T Consensus 273 v~eLA~~aG~~p~~ 286 (289)
T PF14740_consen 273 VKELAKAAGFKPVT 286 (289)
T ss_pred HHHHHHHCCCcccc
Confidence 89999999998653
No 225
>PF05430 Methyltransf_30: S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR008471 This entry contains several uncharacterised bacterial proteins with no known function.; GO: 0016645 oxidoreductase activity, acting on the CH-NH group of donors, 0055114 oxidation-reduction process; PDB: 2E58_D 3SGL_A 3PVC_A 3AWI_D 3PS9_A 2QY6_A.
Probab=55.84 E-value=30 Score=20.99 Aligned_cols=30 Identities=10% Similarity=-0.043 Sum_probs=21.0
Q ss_pred HHHHHHHHHcCCCceEEEEcCCceeEEEEE
Q 042267 77 KEFTALAIEAGFKGINFECNVCNSYVMEFY 106 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~~~~~~~~~vi~~~ 106 (107)
..+++-|.++||.+.+....++=...+.+.
T Consensus 93 ~~Vr~~L~~aGF~v~~~~g~g~Kr~~~~a~ 122 (124)
T PF05430_consen 93 GAVRRALQQAGFEVEKVPGFGRKREMLRAV 122 (124)
T ss_dssp HHHHHHHHHCTEEEEEEE-STTSSEEEEEE
T ss_pred HHHHHHHHHcCCEEEEcCCCCCcchheEEE
Confidence 678999999999998776655544444443
No 226
>PF13319 DUF4090: Protein of unknown function (DUF4090)
Probab=54.87 E-value=16 Score=20.40 Aligned_cols=25 Identities=20% Similarity=0.422 Sum_probs=21.3
Q ss_pred CceecCHHHHHHHHHHcCCCceEEE
Q 042267 70 HGRERTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~~~ 94 (107)
|.+..+.+++.+.|.+|||.-.+-.
T Consensus 55 GaKH~~q~~Lnq~L~~Ag~~~LK~K 79 (84)
T PF13319_consen 55 GAKHFDQEELNQRLIDAGWEGLKDK 79 (84)
T ss_pred ccccCCHHHHHHHHHHcCccccchh
Confidence 6788899999999999999876543
No 227
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=54.52 E-value=30 Score=18.21 Aligned_cols=28 Identities=11% Similarity=0.194 Sum_probs=21.4
Q ss_pred HHHHHHHHHHcCCCceEEEEcCCceeEE
Q 042267 76 KKEFTALAIEAGFKGINFECNVCNSYVM 103 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~~~~~~vi 103 (107)
..++.+|+++.|++...+...++.+.++
T Consensus 40 ~~di~~~~~~~g~~~~~~~~~~~~~~i~ 67 (70)
T PF01206_consen 40 VEDIPRWCEENGYEVVEVEEEGGEYRIL 67 (70)
T ss_dssp HHHHHHHHHHHTEEEEEEEESSSSEEEE
T ss_pred HHHHHHHHHHCCCEEEEEEEeCCEEEEE
Confidence 4688999999999988887766555443
No 228
>TIGR00478 tly hemolysin TlyA family protein. Hemolysins are exotoxins that attack blood cell membranes and cause cell rupture, often by forming a pore in the membrane. At least two members of this protein family have been characterized indirectly as pore-forming hemolysins, one from the spirochete Serpula (Treponema) hyodysenteriae and one from Mycobacterium tuberculosis. However, homology domains in this protein suggest methyltransferase activity (pfam01728) and RNA-binding activity (pfam01479).
Probab=54.41 E-value=64 Score=21.72 Aligned_cols=57 Identities=14% Similarity=0.117 Sum_probs=32.5
Q ss_pred HHHHHHHhhCCCCCEEE-EEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecC-------HHHHHHHHHHcCCCceEE
Q 042267 22 KILRNCYKALPNDGKVL-VINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERT-------KKEFTALAIEAGFKGINF 93 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~-i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt-------~~e~~~ll~~aGf~~~~~ 93 (107)
.+|..+.++|+| |.++ ++- |....++. .. ..+|..++ .+++..++.+.||+...+
T Consensus 153 ~~l~~i~~~l~~-~~~~~L~K---PqFE~~~~------~~-------~~~giv~~~~~~~~~~~~~~~~~~~~~~~~~~~ 215 (228)
T TIGR00478 153 SILPELDLLLNP-NDLTLLFK---PQFEAGRE------KK-------NKKGVVRDKEAIALALHKVIDKGESPDFQEKKI 215 (228)
T ss_pred hHHHHHHHHhCc-CeEEEEcC---hHhhhcHh------hc-------CcCCeecCHHHHHHHHHHHHHHHHcCCCeEeeE
Confidence 468899999999 5544 433 32211110 00 11343433 366777778889998776
Q ss_pred EE
Q 042267 94 EC 95 (107)
Q Consensus 94 ~~ 95 (107)
.+
T Consensus 216 ~~ 217 (228)
T TIGR00478 216 IF 217 (228)
T ss_pred EE
Confidence 54
No 229
>PF15585 Imm46: Immunity protein 46
Probab=54.11 E-value=35 Score=21.03 Aligned_cols=38 Identities=11% Similarity=0.135 Sum_probs=23.9
Q ss_pred EEEecccccCCCh---HHHHHHHHHHHhhCCCC--CEEEEEeee
Q 042267 5 LSILQWMLHNFDD---ENCIKILRNCYKALPND--GKVLVINST 43 (107)
Q Consensus 5 ~v~~~~vlh~~~d---~~~~~iL~~~~~aL~pg--g~l~i~e~~ 43 (107)
.++-...+++..- ++...+++++.+ +.|| |.|++-|--
T Consensus 52 ~~l~~~g~~NHr~~~~~eii~lf~~i~e-~aPGSYGlLy~rDDE 94 (129)
T PF15585_consen 52 YFLHFGGLSNHRGQEAPEIIELFERIAE-IAPGSYGLLYIRDDE 94 (129)
T ss_pred EEEEEccccCCCccchHHHHHHHHHHHH-hCCCceeEEEEecCC
Confidence 3344444444433 448889999988 5566 888887633
No 230
>PRK06852 aldolase; Validated
Probab=53.91 E-value=14 Score=26.13 Aligned_cols=28 Identities=11% Similarity=0.258 Sum_probs=24.7
Q ss_pred cCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 13 HNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 13 h~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
=+|.+++....+.|+.+.++..||++|+
T Consensus 9 ~~~~~~~~~~~~~~~~~~~~~sGr~~iv 36 (304)
T PRK06852 9 LDVPEEMREEYIENYLEITKGTGRLMLF 36 (304)
T ss_pred CcCChhcChhHHHHHHHhhCCCCCEEEE
Confidence 4677877889999999999999999887
No 231
>COG0421 SpeE Spermidine synthase [Amino acid transport and metabolism]
Probab=53.49 E-value=19 Score=25.15 Aligned_cols=20 Identities=25% Similarity=0.479 Sum_probs=18.4
Q ss_pred HHHHHHHHhhCCCCCEEEEE
Q 042267 21 IKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~ 40 (107)
..+.+.|+++|+++|.++..
T Consensus 170 ~eFy~~~~~~L~~~Gi~v~q 189 (282)
T COG0421 170 EEFYEGCRRALKEDGIFVAQ 189 (282)
T ss_pred HHHHHHHHHhcCCCcEEEEe
Confidence 68999999999999999876
No 232
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=53.44 E-value=20 Score=28.21 Aligned_cols=21 Identities=10% Similarity=0.333 Sum_probs=17.7
Q ss_pred HHHHHHHHHhhCCCCCEEEEE
Q 042267 20 CIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~ 40 (107)
-..+++.+.+.|+|||.+++.
T Consensus 635 y~~l~~~a~~lL~~gG~l~~~ 655 (702)
T PRK11783 635 HVALIKDAKRLLRPGGTLYFS 655 (702)
T ss_pred HHHHHHHHHHHcCCCCEEEEE
Confidence 567899999999999988663
No 233
>PF10006 DUF2249: Uncharacterized conserved protein (DUF2249); InterPro: IPR018720 This domain is found in a number of hypothetical bacterial and archaeal proteins with no known function. It is also found in proteins described as cupin 2 and hemerythrin. It represents a conserved region that shows distant similarity to the SirA protein (see IPR001455 from INTERPRO).
Probab=52.44 E-value=35 Score=18.10 Aligned_cols=28 Identities=11% Similarity=0.157 Sum_probs=19.8
Q ss_pred ChHHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 16 DDENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 16 ~d~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
+..+....+-+..+.|+||..+.++...
T Consensus 8 ~~~~p~~~il~~~~~L~~Ge~l~lv~d~ 35 (69)
T PF10006_consen 8 PPPEPHERILEALDELPPGETLELVNDH 35 (69)
T ss_pred CCcChHHHHHHHHHcCCCCCEEEEEeCC
Confidence 4444566666777889999988876633
No 234
>PRK08558 adenine phosphoribosyltransferase; Provisional
Probab=52.27 E-value=16 Score=24.80 Aligned_cols=58 Identities=12% Similarity=0.055 Sum_probs=34.3
Q ss_pred hhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCce--------ecCHHHHHHHHHHcCCCceEEEE
Q 042267 29 KALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGR--------ERTKKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 29 ~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~--------~rt~~e~~~ll~~aGf~~~~~~~ 95 (107)
+++++|.+++|+|-+........ ...++.- ..|+. .+....|+++.++.|+.+..+..
T Consensus 171 ~~l~~G~rVLIVDDvi~TG~Tl~------~~~~ll~---~~ga~vvgv~vlv~~~~~~~~~l~~~~~vpv~sl~~ 236 (238)
T PRK08558 171 SALKKGDRVLIVDDIIRSGETQR------ALLDLAR---QAGADVVGVFFLIAVGEVGIDRAREETDAPVDALYT 236 (238)
T ss_pred HHcCCcCEEEEEecccccCHHHH------HHHHHHH---HcCCEEEEEEEEEecCchHHHHHhHhcCCCEEEEEE
Confidence 56899999999998886543211 1111111 11222 24444588888888877766543
No 235
>PF03574 Peptidase_S48: Peptidase family S48; InterPro: IPR005319 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases, which includes HetR, are associated with heterocystous cyanobacteria and belong to MEROPS peptidase family S48 (clan S-). HetR is a DNA-binding serine-type protease required for heterocyst differentiation in heterocystous cyanobacteria under conditions of nitrogen deprivation. Mutation of HetR from of Anabaena sp. (strain PCC 7120) by site-specific mutagenesis of Ser-152 showed that this residue was one of the peptidase active site residues. It was suggested that peptidase activity might be needed for repression of HetR overproduction under conditions of nitrogen deprivation []. Modification of Cys-48 prevented disulphide-bond formation and homodimerisation of HetR and DNA-binding. The homodimer of HetR binds the promoter regions of hetR, hepA, and patS, suggesting a direct control of the expression of these genes by HetR. The pentapeptide RGSGR, which is present at the C terminus of PatS, blocks heterocyst formation, inhibits the DNA binding of HetR and prevents hetR up-regulation [].; GO: 0003677 DNA binding, 0004252 serine-type endopeptidase activity, 0043158 heterocyst differentiation; PDB: 3QOE_A 3QOD_A.
Probab=52.09 E-value=14 Score=22.64 Aligned_cols=27 Identities=19% Similarity=0.292 Sum_probs=19.8
Q ss_pred cccCCChHHHHHHHHHHHhhCCCCCEE
Q 042267 11 MLHNFDDENCIKILRNCYKALPNDGKV 37 (107)
Q Consensus 11 vlh~~~d~~~~~iL~~~~~aL~pgg~l 37 (107)
-||+.....+..|.++++++|..|..+
T Consensus 13 HLHHiEPKRVKvIVeEv~qaltegklL 39 (149)
T PF03574_consen 13 HLHHIEPKRVKVIVEEVRQALTEGKLL 39 (149)
T ss_dssp HHTT--HHHHHHHHHHHHHHHSSS---
T ss_pred cccccCchhhhhHHHHHHHHHhhhhHH
Confidence 478998888888999999999999876
No 236
>PRK13605 endoribonuclease SymE; Provisional
Probab=51.81 E-value=19 Score=21.60 Aligned_cols=15 Identities=20% Similarity=0.011 Sum_probs=11.4
Q ss_pred HHHHHHcCCCceEEE
Q 042267 80 TALAIEAGFKGINFE 94 (107)
Q Consensus 80 ~~ll~~aGf~~~~~~ 94 (107)
-.||++|||..-.-.
T Consensus 44 G~WLeeAGF~tG~~V 58 (113)
T PRK13605 44 GQWLEAAGFATGTAV 58 (113)
T ss_pred chhHHhhCCCCCCeE
Confidence 469999999975443
No 237
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=51.43 E-value=17 Score=27.38 Aligned_cols=20 Identities=25% Similarity=0.421 Sum_probs=17.1
Q ss_pred HHHHHHHHHhhCCCCCEEEE
Q 042267 20 CIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i 39 (107)
..++++++.+.|+|||.+++
T Consensus 248 ~~~il~~a~~~L~~gG~l~l 267 (506)
T PRK01544 248 YFIIAENAKQFLKPNGKIIL 267 (506)
T ss_pred HHHHHHHHHHhccCCCEEEE
Confidence 45688999999999999875
No 238
>PLN02476 O-methyltransferase
Probab=50.52 E-value=38 Score=23.63 Aligned_cols=36 Identities=8% Similarity=0.170 Sum_probs=25.8
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
||++++ |-+...-...+..+.+.|+|||.+++ |.+.
T Consensus 195 FD~VFI-----Da~K~~Y~~y~e~~l~lL~~GGvIV~-DNvL 230 (278)
T PLN02476 195 YDFAFV-----DADKRMYQDYFELLLQLVRVGGVIVM-DNVL 230 (278)
T ss_pred CCEEEE-----CCCHHHHHHHHHHHHHhcCCCcEEEE-ecCc
Confidence 565554 33455578889999999999999766 5444
No 239
>TIGR00959 ffh signal recognition particle protein. This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.
Probab=49.57 E-value=43 Score=24.88 Aligned_cols=43 Identities=19% Similarity=0.104 Sum_probs=29.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
+||+++.=-.=....|+....-|+++.+.+.|.+.++|++...
T Consensus 182 ~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~t 224 (428)
T TIGR00959 182 GFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMT 224 (428)
T ss_pred CCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccc
Confidence 3566665444333345556777788888888999998888653
No 240
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=49.33 E-value=23 Score=18.74 Aligned_cols=21 Identities=19% Similarity=0.306 Sum_probs=17.9
Q ss_pred ceecCHHHHHHHHHHcCCCce
Q 042267 71 GRERTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 71 g~~rt~~e~~~ll~~aGf~~~ 91 (107)
|...+.+++.++|+..||+..
T Consensus 16 G~~i~~~ei~~~L~~lg~~~~ 36 (71)
T smart00874 16 GLDLSAEEIEEILKRLGFEVE 36 (71)
T ss_pred CCCCCHHHHHHHHHHCCCeEE
Confidence 456789999999999999874
No 241
>PRK09213 pur operon repressor; Provisional
Probab=49.23 E-value=54 Score=22.81 Aligned_cols=19 Identities=16% Similarity=0.427 Sum_probs=15.4
Q ss_pred hhCCCCCEEEEEeeeCCCC
Q 042267 29 KALPNDGKVLVINSTLPEV 47 (107)
Q Consensus 29 ~aL~pgg~l~i~e~~~~~~ 47 (107)
++|++|.+++|+|-+....
T Consensus 191 ~~l~~G~rVLIVDDv~~TG 209 (271)
T PRK09213 191 RSLKEGSRVLIVDDFMKAG 209 (271)
T ss_pred hhcCCcCEEEEEeeecccC
Confidence 6788999999999877543
No 242
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=49.12 E-value=19 Score=19.65 Aligned_cols=22 Identities=18% Similarity=0.228 Sum_probs=12.6
Q ss_pred CceecCHHHHHHHHHHcCCCce
Q 042267 70 HGRERTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~ 91 (107)
+....|.+|+.+.|++.||.+.
T Consensus 16 ~~~i~sQ~eL~~~L~~~Gi~vT 37 (70)
T PF01316_consen 16 EHEISSQEELVELLEEEGIEVT 37 (70)
T ss_dssp HS---SHHHHHHHHHHTT-T--
T ss_pred HCCcCCHHHHHHHHHHcCCCcc
Confidence 3445788888888888888754
No 243
>PRK10858 nitrogen regulatory protein P-II 1; Provisional
Probab=49.12 E-value=40 Score=20.07 Aligned_cols=28 Identities=14% Similarity=0.268 Sum_probs=22.1
Q ss_pred CChHHHHHHHHHHHhhCCCC----CEEEEEee
Q 042267 15 FDDENCIKILRNCYKALPND----GKVLVINS 42 (107)
Q Consensus 15 ~~d~~~~~iL~~~~~aL~pg----g~l~i~e~ 42 (107)
.+|+++..+++.+.++.+.| |++++.+.
T Consensus 65 v~D~~v~~vv~~I~~~a~TG~~GDGkIfV~pV 96 (112)
T PRK10858 65 VPDDIVDTCVDTIIRTAQTGKIGDGKIFVFDV 96 (112)
T ss_pred EChHhHHHHHHHHHHHhccCCCCCcEEEEEEh
Confidence 36777888888888888764 99988763
No 244
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=48.83 E-value=20 Score=19.21 Aligned_cols=23 Identities=22% Similarity=0.313 Sum_probs=15.8
Q ss_pred ceecCHHHHHHHHHHcCCCceEE
Q 042267 71 GRERTKKEFTALAIEAGFKGINF 93 (107)
Q Consensus 71 g~~rt~~e~~~ll~~aGf~~~~~ 93 (107)
|...+.++..++|+..||+....
T Consensus 16 G~~i~~~~i~~~L~~lg~~~~~~ 38 (70)
T PF03484_consen 16 GIDISPEEIIKILKRLGFKVEKI 38 (70)
T ss_dssp TS---HHHHHHHHHHTT-EEEE-
T ss_pred CCCCCHHHHHHHHHHCCCEEEEC
Confidence 44678999999999999998763
No 245
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=47.65 E-value=18 Score=20.41 Aligned_cols=23 Identities=17% Similarity=0.278 Sum_probs=19.0
Q ss_pred ecCHHHHHHHHHHcCCCceEEEE
Q 042267 73 ERTKKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 73 ~rt~~e~~~ll~~aGf~~~~~~~ 95 (107)
+.+.+.+++.|++.||+++....
T Consensus 7 E~~Ls~v~~~L~~~GyeVv~l~~ 29 (80)
T PF03698_consen 7 EEGLSNVKEALREKGYEVVDLEN 29 (80)
T ss_pred cCCchHHHHHHHHCCCEEEecCC
Confidence 45678999999999999987653
No 246
>PHA03412 putative methyltransferase; Provisional
Probab=47.57 E-value=61 Score=22.21 Aligned_cols=16 Identities=19% Similarity=0.216 Sum_probs=12.4
Q ss_pred CHHHHHHHHHHcCCCc
Q 042267 75 TKKEFTALAIEAGFKG 90 (107)
Q Consensus 75 t~~e~~~ll~~aGf~~ 90 (107)
+.+++.+++++.|+..
T Consensus 182 ~~~~~~~~~~~~~~~~ 197 (241)
T PHA03412 182 TSSKCKKFLDETGLEM 197 (241)
T ss_pred ccHHHHHHHHhcCeee
Confidence 4578899999998653
No 247
>PF15603 Imm45: Immunity protein 45
Probab=47.45 E-value=52 Score=18.59 Aligned_cols=39 Identities=13% Similarity=0.136 Sum_probs=29.4
Q ss_pred eeEEEecccccCCC---------hHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 3 VYLSILQWMLHNFD---------DENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 3 ~D~v~~~~vlh~~~---------d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
+|.++..+.+-+|. +.+..++++.+.+.+...|..+.+|
T Consensus 35 ~~Fvvy~~si~~We~P~e~~~it~~e~q~II~aI~~~~~~~~~~v~fE 82 (82)
T PF15603_consen 35 GDFVVYKDSIKNWEPPHENEPITIAERQKIIEAIEKYFSERGMTVDFE 82 (82)
T ss_pred cCEEEEccccccccCCCCCcccCHHHHHHHHHHHHHHHhcCceEEEeC
Confidence 67778888777553 4457889999999888888776654
No 248
>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.18 E-value=55 Score=24.45 Aligned_cols=44 Identities=11% Similarity=0.202 Sum_probs=32.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
+||+|+.--.=.|.-+...-.=+..+.++++|+-.++|.|....
T Consensus 183 ~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiG 226 (483)
T KOG0780|consen 183 NFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIG 226 (483)
T ss_pred CCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEecccc
Confidence 57888776655444454455667788899999999999997543
No 249
>COG5379 BtaA S-adenosylmethionine:diacylglycerol 3-amino-3-carboxypropyl transferase [Lipid metabolism]
Probab=47.17 E-value=42 Score=24.09 Aligned_cols=39 Identities=13% Similarity=0.030 Sum_probs=33.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
++|.|++..+=.-.+|.+...++.++.+.+.||.+++.-
T Consensus 327 ~Vdr~iLlDaqdwmtd~qln~lws~isrta~~gA~VifR 365 (414)
T COG5379 327 NVDRYILLDAQDWMTDGQLNSLWSEISRTAEAGARVIFR 365 (414)
T ss_pred CcceEEEecchhhcccchHHHHHHHHhhccCCCcEEEEe
Confidence 468888888855557888999999999999999999764
No 250
>PF01189 Nol1_Nop2_Fmu: NOL1/NOP2/sun family; InterPro: IPR001678 This domain is found in archaeal, bacterial and eukaryotic proteins. In the archaea and bacteria, they are annotated as putative nucleolar protein, Sun (Fmu) family protein or tRNA/rRNA cytosine-C5-methylase. The majority have the S-adenosyl methionine (SAM) binding domain and are related to Escherichia coli Fmu (Sun) protein (16S rRNA m5C 967 methyltransferase) whose structure has been determined []. In the eukaryota, the majority are annotated as being 'hypothetical protein', nucleolar protein or the Nop2/Sun (Fmu) family. Unlike their bacterial homologues, few of the eukaryotic members in this family have a the SAM binding signature. Despite this, Saccharomyces cerevisiae (Baker's yeast) Nop2p is a probable RNA m5C methyltransferase []. It is essential for processing and maturation of 27S pre-rRNA and large ribosomal subunit biogenesis []; localized to the nucleolus and is essential for viability []. Reduced Nop2p expression limits yeast growth and decreases levels of mature 60S ribosomal subunits while altering rRNA processing []. There is substantial identity between Nop2p and Homo sapiens (Human) p120 (NOL1), which is also called the proliferation-associated nucleolar antigen [, ].; PDB: 3M4X_A 2FRX_B 2YXL_A 1IXK_A 1SQG_A 1SQF_A 3M6U_B 3M6V_B 3M6W_A 3M6X_A ....
Probab=46.63 E-value=8.9 Score=26.55 Aligned_cols=25 Identities=28% Similarity=0.360 Sum_probs=21.0
Q ss_pred HHHHHHHHHhhC----CCCCEEEEEeeeC
Q 042267 20 CIKILRNCYKAL----PNDGKVLVINSTL 44 (107)
Q Consensus 20 ~~~iL~~~~~aL----~pgg~l~i~e~~~ 44 (107)
-.++|+++.+.+ +|||+++-.-.-.
T Consensus 194 Q~~iL~~a~~~~~~~~k~gG~lvYsTCS~ 222 (283)
T PF01189_consen 194 QREILDNAAKLLNIDFKPGGRLVYSTCSL 222 (283)
T ss_dssp HHHHHHHHHHCEHHHBEEEEEEEEEESHH
T ss_pred HHHHHHHHHHhhcccccCCCeEEEEeccH
Confidence 367899999999 9999998876544
No 251
>TIGR02884 spore_pdaA delta-lactam-biosynthetic de-N-acetylase. Muramic delta-lactam is an unusual constituent of peptidoglycan, found only in bacterial spores in the peptidoglycan wall, or spore cortex. The proteins in this family are PdaA (yfjS), a member of a larger family of polysaccharide deacetylases, and are specificially involved in delta-lactam biosynthesis. PdaA acts immediately after CwlD, an N-acetylmuramoyl-L-alanine amidase and performs a de-N-acetylation. PdaA may also perform the following transpeptidation for lactam ring formation, as heterologous expression in E. coli of CwlD and PdaA together is sufficient for delta-lactam production.
Probab=45.36 E-value=45 Score=22.10 Aligned_cols=30 Identities=7% Similarity=0.107 Sum_probs=21.3
Q ss_pred ccCCCh---HHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 12 LHNFDD---ENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 12 lh~~~d---~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
-.||.. .....+.+++.+.++||+.|++++
T Consensus 162 ~~Dw~~~~~~~~~~~~~~v~~~~~~g~IiLlHd 194 (224)
T TIGR02884 162 FKDWKVDEQPGWQYAYKQIMKKIHPGAILLLHA 194 (224)
T ss_pred CcccCCCCCCCHHHHHHHHHhcCCCCcEEEEEC
Confidence 357742 224567788888889998888877
No 252
>PF08351 DUF1726: Domain of unknown function (DUF1726); InterPro: IPR013562 This entry represents a protein of unknown function and is found towards the N terminus of putative ATPases (IPR007807 from INTERPRO). ; PDB: 2ZPA_B.
Probab=44.99 E-value=35 Score=19.55 Aligned_cols=36 Identities=17% Similarity=0.259 Sum_probs=19.8
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
+|++++-. .+.++. ..|..+...++-||.+++.=+-
T Consensus 12 ~~~~i~d~-~~g~~p----nal~a~~gtv~gGGllill~p~ 47 (92)
T PF08351_consen 12 FDLLIFDA-FEGFDP----NALAALAGTVRGGGLLILLLPP 47 (92)
T ss_dssp BSSEEEE--SS---H----HHHHHHHTTB-TT-EEEEEES-
T ss_pred cCEEEEEc-cCCCCH----HHHHHHhcceecCeEEEEEcCC
Confidence 44444333 344444 5788888999999999987543
No 253
>PF14814 UB2H: Bifunctional transglycosylase second domain; PDB: 3FWL_A 3VMA_A.
Probab=44.85 E-value=19 Score=20.25 Aligned_cols=29 Identities=7% Similarity=0.030 Sum_probs=17.3
Q ss_pred CceecCHHHHHHHHHHcCCCceEEEEcCC
Q 042267 70 HGRERTKKEFTALAIEAGFKGINFECNVC 98 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~~~~~~~ 98 (107)
.|...|.+++.+.|+..|++.+.-...+|
T Consensus 3 ~G~~ls~~~l~~eL~~LgYR~v~~~~~pG 31 (85)
T PF14814_consen 3 PGAPLSPAQLEQELELLGYRKVSNPDRPG 31 (85)
T ss_dssp TT-S--HHHHHHHHHHTT-EE-SS--STT
T ss_pred CCcccCHHHHHHHHHHcCCCcCCCCCCCe
Confidence 46678999999999999998875333333
No 254
>PRK04280 arginine repressor; Provisional
Probab=44.79 E-value=22 Score=22.30 Aligned_cols=23 Identities=22% Similarity=0.270 Sum_probs=17.1
Q ss_pred CceecCHHHHHHHHHHcCCCceE
Q 042267 70 HGRERTKKEFTALAIEAGFKGIN 92 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~ 92 (107)
+-...|++|+.+.|++.||++.+
T Consensus 15 ~~~I~tQeeL~~~L~~~Gi~vTQ 37 (148)
T PRK04280 15 NNEIETQDELVDRLREEGFNVTQ 37 (148)
T ss_pred hCCCCCHHHHHHHHHHcCCCeeh
Confidence 44457888888888888888643
No 255
>TIGR01743 purR_Bsub pur operon repressor, Bacillus subtilis type. This model represents the puring operon repressor PurR of low-GC Gram-positive bacteria. This homodimeric repressor contains a large region homologous to phosphoribosyltransferases and is inhibited by 5-phosphoribosyl 1-pyrophosphate.
Probab=44.54 E-value=59 Score=22.60 Aligned_cols=19 Identities=26% Similarity=0.445 Sum_probs=15.2
Q ss_pred hhCCCCCEEEEEeeeCCCC
Q 042267 29 KALPNDGKVLVINSTLPEV 47 (107)
Q Consensus 29 ~aL~pgg~l~i~e~~~~~~ 47 (107)
++|++|.+++|+|-+....
T Consensus 189 ~~l~~G~rVLIVDDv~~TG 207 (268)
T TIGR01743 189 RSLKTGSKVLIIDDFMKAG 207 (268)
T ss_pred hhCCCcCEEEEEeeecccC
Confidence 6788999999998777543
No 256
>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=44.47 E-value=15 Score=21.59 Aligned_cols=24 Identities=21% Similarity=0.275 Sum_probs=20.4
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 21 IKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
...++.+.+.|+|+|+++++-...
T Consensus 69 ~~~~~~~~~~l~~~G~~v~vg~~~ 92 (130)
T PF00107_consen 69 GDTLQEAIKLLRPGGRIVVVGVYG 92 (130)
T ss_dssp HHHHHHHHHHEEEEEEEEEESSTS
T ss_pred HHHHHHHHHHhccCCEEEEEEccC
Confidence 468899999999999999987554
No 257
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=44.18 E-value=57 Score=18.11 Aligned_cols=36 Identities=17% Similarity=0.179 Sum_probs=22.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.+|++++..-+-+.+ ...+++++++.- |+..++++-
T Consensus 43 ~~d~iiid~~~~~~~---~~~~~~~i~~~~-~~~~ii~~t 78 (112)
T PF00072_consen 43 PPDLIIIDLELPDGD---GLELLEQIRQIN-PSIPIIVVT 78 (112)
T ss_dssp TESEEEEESSSSSSB---HHHHHHHHHHHT-TTSEEEEEE
T ss_pred CceEEEEEeeecccc---cccccccccccc-ccccEEEec
Confidence 467777776555533 357777776655 666666644
No 258
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=43.40 E-value=41 Score=22.97 Aligned_cols=37 Identities=16% Similarity=0.214 Sum_probs=25.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
.||++++= -+...-...+..+.+.|+|||.+++ |.+.
T Consensus 156 ~fD~iFiD-----adK~~Y~~y~~~~l~ll~~GGviv~-DNvl 192 (247)
T PLN02589 156 TFDFIFVD-----ADKDNYINYHKRLIDLVKVGGVIGY-DNTL 192 (247)
T ss_pred cccEEEec-----CCHHHhHHHHHHHHHhcCCCeEEEE-cCCC
Confidence 35665543 3344567788888999999998654 5554
No 259
>TIGR03708 poly_P_AMP_trns polyphosphate:AMP phosphotransferase. Members of this protein family contain a domain duplication. The characterized member from Acinetobacter johnsonii is polyphosphate:AMP phosphotransferase (PAP), which can transfer the terminal phosphate from poly(P) to AMP, yielding ADP. In the opposite direction, this enzyme can synthesize poly(P). Each domain of this protein family is homologous to polyphosphate kinase, an enzyme that can run in the forward direction to extend a polyphosphate chain with a new terminal phosphate from ATP, or in reverse to make ATP (or GTP) from ADP (or GDP).
Probab=43.27 E-value=24 Score=26.68 Aligned_cols=69 Identities=14% Similarity=0.163 Sum_probs=39.7
Q ss_pred HHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEE
Q 042267 19 NCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 19 ~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~ 94 (107)
...-.|.+..+.|++.|.+.|.+--.-+.... .+ ..+...-... ......-.+|++.|.+.|..++++.
T Consensus 82 ~~~~flwRfw~~lP~~G~I~IFdRSWY~~vlv---er---v~g~~~~~~~-~~~~~~I~~FE~~L~~~G~~IlKff 150 (493)
T TIGR03708 82 RERPPMWRFWRRLPPKGKIGIFFGSWYTRPLI---ER---LEGRIDEAKL-DSHIEDINRFERMLADDGALILKFW 150 (493)
T ss_pred hcCcHHHHHHHhCCCCCeEEEEcCcccchhhH---HH---hcCCCCHHHH-HHHHHHHHHHHHHHHHCCCEEEEEE
Confidence 36677888888888888888877544332110 00 0000000000 1122455788999999998888874
No 260
>PF01250 Ribosomal_S6: Ribosomal protein S6; InterPro: IPR000529 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S6 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S6 is known to bind together with S18 to 16S ribosomal RNA. It belongs to a family of ribosomal proteins which, on the basis of sequence similarities, groups bacterial, red algal chloroplast and cyanelle S6 ribosomal proteins.; GO: 0003735 structural constituent of ribosome, 0019843 rRNA binding, 0006412 translation, 0005840 ribosome; PDB: 3BBN_F 3R3T_B 3F1E_F 2QNH_g 2OW8_g 3PYQ_F 3PYS_F 3PYU_F 3MR8_F 3PYN_F ....
Probab=43.17 E-value=60 Score=18.15 Aligned_cols=39 Identities=15% Similarity=0.228 Sum_probs=27.4
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCC-CCEEEEEeee
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPN-DGKVLVINST 43 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~p-gg~l~i~e~~ 43 (107)
|+++++.. .+.++++..++++++...+.. ||.+.-++..
T Consensus 3 YE~~~il~--~~~~~~~~~~~~~~~~~~i~~~gg~v~~~~~~ 42 (92)
T PF01250_consen 3 YELMFILR--PDLSEEEIKKLIERVKKIIEKNGGVVRSVENW 42 (92)
T ss_dssp EEEEEEE---TTSCHHHHHHHHHHHHHHHHHTTEEEEEEEEE
T ss_pred eeEEEEEC--CCCCHHHHHHHHHHHHHHHHHCCCEEEEEEEE
Confidence 44444433 357888899999999998876 6777666654
No 261
>PRK10867 signal recognition particle protein; Provisional
Probab=42.86 E-value=65 Score=23.98 Aligned_cols=43 Identities=19% Similarity=0.129 Sum_probs=28.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
+||+++.=-.=....|+....-|..+.+.+.|...+++++...
T Consensus 183 ~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~ 225 (433)
T PRK10867 183 GYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMT 225 (433)
T ss_pred CCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEeccc
Confidence 3566666554333345556677788888888888888888653
No 262
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=42.69 E-value=53 Score=17.39 Aligned_cols=28 Identities=7% Similarity=0.019 Sum_probs=19.8
Q ss_pred HHHHHHHHHHcCCCceEEEEcCCceeEE
Q 042267 76 KKEFTALAIEAGFKGINFECNVCNSYVM 103 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~~~~~~vi 103 (107)
.+.+.+|+++.|++.......++.+.++
T Consensus 39 ~~di~~~~~~~g~~~~~~~~~~~~~~~~ 66 (69)
T cd03423 39 TRDIPKFCTFLGHELLAQETEDEPYRYL 66 (69)
T ss_pred HHHHHHHHHHcCCEEEEEEEcCCEEEEE
Confidence 4677888899999988776654444443
No 263
>COG2240 PdxK Pyridoxal/pyridoxine/pyridoxamine kinase [Coenzyme metabolism]
Probab=42.67 E-value=46 Score=23.35 Aligned_cols=42 Identities=5% Similarity=0.176 Sum_probs=23.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCC---CCCEEEEEeeeCCCCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALP---NDGKVLVINSTLPEVP 48 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~---pgg~l~i~e~~~~~~~ 48 (107)
+||+++..+. +..+-.+.+..+.+++| |. -++++|++..++.
T Consensus 73 ~~davltGYl----gs~~qv~~i~~~v~~vk~~~P~-~~~l~DPVMGD~g 117 (281)
T COG2240 73 ECDAVLTGYL----GSAEQVRAIAGIVKAVKEANPN-ALYLCDPVMGDPG 117 (281)
T ss_pred ccCEEEEccC----CCHHHHHHHHHHHHHHhccCCC-eEEEeCCcccCCC
Confidence 4677776654 22223334444444444 44 5688899987765
No 264
>PF00543 P-II: Nitrogen regulatory protein P-II members of this family.; InterPro: IPR002187 In Gram-negative bacteria, the activity and concentration of glutamine synthetase (GS) is regulated in response to nitrogen source availability. PII, a tetrameric protein encoded by the glnB gene, is a component of the adenylation cascade involved in the regulation of GS activity []. In nitrogen-limiting conditions, when the ratio of glutamine to 2-ketoglutarate decreases, P-II is uridylylated on a tyrosine residue to form P-II-UMP. P-II-UMP allows the deadenylation of GS, thus activating the enzyme. Conversely, in nitrogen excess, P-II-UMP is deuridylated and then promotes the adenylation of GS. P-II also indirectly controls the transcription of the GS gene (glnA) by preventing NR-II (ntrB) to phosphorylate NR-I (ntrC) which is the transcriptional activator of glnA. Once P-II is uridylylated, these events are reversed. P-II is a protein of about 110 amino acid residues extremely well conserved. The tyrosine which is uridylated is located in the central part of the protein. In cyanobacteria, P-II seems to be phosphorylated on a serine residue rather than being uridylated. In methanogenic archaebacteria, the nitrogenase iron protein gene (nifH) is followed by two open reading frames highly similar to the eubacterial P-II protein []. These proteins could be involved in the regulation of nitrogen fixation. In the red alga, Porphyra purpurea, there is a glnB homologue encoded in the chloroplast genome. Other proteins highly similar to glnB are: Bacillus subtilis protein nrgB []. Escherichia coli hypothetical protein ybaI []. ; GO: 0030234 enzyme regulator activity, 0006808 regulation of nitrogen utilization; PDB: 1V3S_B 1V3R_C 2XZW_A 2XUL_A 2V5H_J 2XG8_C 2JJ4_F 1QY7_C 4AFF_A 2XBP_A ....
Probab=42.66 E-value=32 Score=19.81 Aligned_cols=28 Identities=25% Similarity=0.335 Sum_probs=19.9
Q ss_pred CChHHHHHHHHHHHhhCCCC----CEEEEEee
Q 042267 15 FDDENCIKILRNCYKALPND----GKVLVINS 42 (107)
Q Consensus 15 ~~d~~~~~iL~~~~~aL~pg----g~l~i~e~ 42 (107)
.+|+++.++++.+.+++..| |++++.+.
T Consensus 62 v~d~~v~~iv~~I~~~~~tg~~GdGkIfV~~V 93 (102)
T PF00543_consen 62 VPDEDVEEIVEAISEAARTGEPGDGKIFVSPV 93 (102)
T ss_dssp EEGGGHHHHHHHHHHHH-SSSTTSEEEEEEEE
T ss_pred ECHHhHHHHHHHHHHhccCCCCCCEEEEEEEh
Confidence 35667788888888877653 89988763
No 265
>PF06968 BATS: Biotin and Thiamin Synthesis associated domain; InterPro: IPR010722 Biotin synthase (BioB), 2.8.1.6 from EC, catalyses the last step of the biotin biosynthetic pathway. The reaction consists in the introduction of a sulphur atom into dethiobiotin. BioB functions as a homodimer []. Thiamin synthesis if a complex process involving at least six gene products (ThiFSGH, ThiI and ThiJ). Two of the proteins required for the biosynthesis of the thiazole moiety of thiamine (vitamin B(1)) are ThiG and ThiH (this entry) and form a heterodimer[]. Both of these reactions are thought of involve the binding of co-factors, and both function as dimers [, ]. This domain therefore may be involved in co-factor binding or dimerisation.; GO: 0051536 iron-sulfur cluster binding, 0051186 cofactor metabolic process; PDB: 1R30_A 3CIX_A 3IIX_A 3IIZ_A 3CIW_A.
Probab=42.56 E-value=26 Score=19.93 Aligned_cols=17 Identities=18% Similarity=0.266 Sum_probs=14.2
Q ss_pred ecCHHHHHHHHHHcCCC
Q 042267 73 ERTKKEFTALAIEAGFK 89 (107)
Q Consensus 73 ~rt~~e~~~ll~~aGf~ 89 (107)
.|+.+|..+++++.||+
T Consensus 76 ~~~~~~d~~~i~~lG~~ 92 (93)
T PF06968_consen 76 NRSVDEDIEMIEKLGLE 92 (93)
T ss_dssp TSHHHHHHHHHHHTT-E
T ss_pred CCCHHHHHHHHHHcCCC
Confidence 48899999999999985
No 266
>PRK10665 nitrogen regulatory protein P-II 2; Provisional
Probab=42.07 E-value=60 Score=19.34 Aligned_cols=28 Identities=25% Similarity=0.326 Sum_probs=21.6
Q ss_pred CChHHHHHHHHHHHhhCCC----CCEEEEEee
Q 042267 15 FDDENCIKILRNCYKALPN----DGKVLVINS 42 (107)
Q Consensus 15 ~~d~~~~~iL~~~~~aL~p----gg~l~i~e~ 42 (107)
.+|+++.++.+.+.++.+. +|++++.+.
T Consensus 65 v~de~ve~vv~~I~~~a~TG~~GDGkIfV~pV 96 (112)
T PRK10665 65 IADDQLDEVIDIISKAAYTGKIGDGKIFVAEL 96 (112)
T ss_pred EChHhHHHHHHHHHHHhccCCCCCcEEEEEEh
Confidence 4677788888888888865 399988763
No 267
>cd03413 CbiK_C Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases, and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=41.90 E-value=30 Score=20.19 Aligned_cols=18 Identities=17% Similarity=0.217 Sum_probs=14.9
Q ss_pred HHHHHHHHHHcCCCceEE
Q 042267 76 KKEFTALAIEAGFKGINF 93 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~ 93 (107)
...|+..|+++||++.-+
T Consensus 81 ~~SW~~~l~~~g~~v~~~ 98 (103)
T cd03413 81 PDSWKSILEAAGIKVETV 98 (103)
T ss_pred chhHHHHHHHCCCeeEEE
Confidence 468999999999988643
No 268
>COG1438 ArgR Arginine repressor [Transcription]
Probab=41.70 E-value=25 Score=22.29 Aligned_cols=22 Identities=23% Similarity=0.299 Sum_probs=15.1
Q ss_pred CceecCHHHHHHHHHHcCCCce
Q 042267 70 HGRERTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~ 91 (107)
.-+..|++|+.+.|++.||++.
T Consensus 17 ~~~i~TQ~Elv~~L~~~Gi~vT 38 (150)
T COG1438 17 EEKISTQEELVELLQEEGIEVT 38 (150)
T ss_pred hCCCCCHHHHHHHHHHcCCeEe
Confidence 3445677777777777777744
No 269
>PF02527 GidB: rRNA small subunit methyltransferase G; InterPro: IPR003682 This entry represents a rRNA small subunit methyltransferase G. Previously identified as a glucose-inhibited division protein B that appears to be present and in a single copy in all complete eubacterial genomes so far sequenced. Specifically methylates the N7 position of a guanosine in 16S rRNA [, , ].; GO: 0008649 rRNA methyltransferase activity, 0006364 rRNA processing, 0005737 cytoplasm; PDB: 1XDZ_A 3G88_A 3G8A_B 3G89_B 3G8B_B 1JSX_A.
Probab=41.60 E-value=26 Score=22.74 Aligned_cols=34 Identities=15% Similarity=0.110 Sum_probs=25.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
.||+++++.+- + ...++.-+...+++||+++..-
T Consensus 115 ~fd~v~aRAv~----~--l~~l~~~~~~~l~~~G~~l~~K 148 (184)
T PF02527_consen 115 SFDVVTARAVA----P--LDKLLELARPLLKPGGRLLAYK 148 (184)
T ss_dssp -EEEEEEESSS----S--HHHHHHHHGGGEEEEEEEEEEE
T ss_pred CccEEEeehhc----C--HHHHHHHHHHhcCCCCEEEEEc
Confidence 57888887763 2 3578888889999999998753
No 270
>COG4273 Uncharacterized conserved protein [Function unknown]
Probab=41.59 E-value=63 Score=19.96 Aligned_cols=22 Identities=27% Similarity=0.271 Sum_probs=18.0
Q ss_pred CCChHHHHHHHHHHHhhCCCCC
Q 042267 14 NFDDENCIKILRNCYKALPNDG 35 (107)
Q Consensus 14 ~~~d~~~~~iL~~~~~aL~pgg 35 (107)
|..|+++.+++..+.++|.+++
T Consensus 110 D~~~edv~kv~~~i~e~l~~~~ 131 (135)
T COG4273 110 DCKDEDVEKVARTIKEALTIKL 131 (135)
T ss_pred CCCHHHHHHHHHHHHHHhhhcc
Confidence 6778888899999888888764
No 271
>PRK09219 xanthine phosphoribosyltransferase; Validated
Probab=41.49 E-value=86 Score=20.45 Aligned_cols=59 Identities=20% Similarity=0.241 Sum_probs=34.4
Q ss_pred hhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCce--------ecCHHHHHHHHHHcCCCceEEEEc
Q 042267 29 KALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGR--------ERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 29 ~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~--------~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
..+++|-+++|+|-+......-. ....+.- ..|+. .++...+++.+++.|+....+...
T Consensus 112 ~~i~~G~rVlIVDDviaTGgT~~------a~~~lv~---~aGa~vvgv~~lvd~~~~~g~~~l~~~g~~~~sl~~~ 178 (189)
T PRK09219 112 KFLSEGDRVLIIDDFLANGQAAL------GLIDIIE---QAGAKVAGIGIVIEKSFQDGRKLLEEKGYRVESLARI 178 (189)
T ss_pred hhCCCCCEEEEEeehhhcChHHH------HHHHHHH---HCCCEEEEEEEEEEccCccHHHHHHhcCCcEEEEEEe
Confidence 46789999999998876543211 1111110 11222 244446778888888887766554
No 272
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=41.46 E-value=59 Score=22.30 Aligned_cols=21 Identities=29% Similarity=0.370 Sum_probs=16.3
Q ss_pred cCHHHHHHHHHHcCCCceEEE
Q 042267 74 RTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~~~~ 94 (107)
.+++++.+.+-++|-+.+...
T Consensus 147 ~~ed~l~e~~ieagaeDv~~~ 167 (241)
T COG0217 147 IDEDELLEAAIEAGAEDVEED 167 (241)
T ss_pred CCHHHHHHHHHHCCchhhhcC
Confidence 578888888888998876544
No 273
>PF06897 DUF1269: Protein of unknown function (DUF1269); InterPro: IPR009200 There are currently no experimental data for members of this group or their homologues. However, these proteins are predicted to contain two or more transmembrane segments.
Probab=41.28 E-value=48 Score=19.43 Aligned_cols=21 Identities=14% Similarity=0.229 Sum_probs=17.9
Q ss_pred HHHHHHHhhCCCCCEEEEEee
Q 042267 22 KILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~ 42 (107)
.+++++.+.|+||...++...
T Consensus 43 ~~~~ev~~~L~~GssAl~~lv 63 (102)
T PF06897_consen 43 EFIKEVGEALKPGSSALFLLV 63 (102)
T ss_pred HHHHHHHhhcCCCceEEEEEe
Confidence 689999999999988777653
No 274
>COG5440 Uncharacterized conserved protein [Function unknown]
Probab=40.30 E-value=37 Score=21.65 Aligned_cols=22 Identities=9% Similarity=0.071 Sum_probs=18.0
Q ss_pred CHHHHHHHHHHcCCCceEEEEc
Q 042267 75 TKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 75 t~~e~~~ll~~aGf~~~~~~~~ 96 (107)
+.+++.+||.+.|+-..++.+-
T Consensus 6 ~d~~I~~WL~EeG~~~~kv~~~ 27 (161)
T COG5440 6 SDNMILDWLAEEGNVSVKVPDE 27 (161)
T ss_pred HHHHHHHHHHHhCceeeccCCC
Confidence 4689999999999988877543
No 275
>COG1060 ThiH Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]
Probab=40.05 E-value=45 Score=24.26 Aligned_cols=26 Identities=31% Similarity=0.298 Sum_probs=21.3
Q ss_pred ceecCHHHHHHHHHHcCCCceEEEEc
Q 042267 71 GRERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 71 g~~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
+..++.+|+.++++++||..+...+.
T Consensus 334 ~~~~~~eel~~~i~~aG~~p~~Rdt~ 359 (370)
T COG1060 334 GDWRSVEELAALIKEAGRIPVERDTL 359 (370)
T ss_pred CCCCCHHHHHHHHHHcCCCeeeeccc
Confidence 34689999999999999998766544
No 276
>TIGR01744 XPRTase xanthine phosphoribosyltransferase. This model represent a xanthine-specific phosphoribosyltransferase of Bacillus subtilis and closely related proteins from other species, mostly from other Gram-positive bacteria. The adjacent gene is a xanthine transporter; B. subtilis can import xanthine for the purine salvage pathway or for catabolism to obtain nitrogen.
Probab=39.78 E-value=1.1e+02 Score=20.02 Aligned_cols=59 Identities=15% Similarity=0.199 Sum_probs=34.0
Q ss_pred hhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCce--------ecCHHHHHHHHHHcCCCceEEEEc
Q 042267 29 KALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGR--------ERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 29 ~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~--------~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
.++++|.+++|+|-+........ ....+.- ..++. .|+...+.+.|++.|.....+...
T Consensus 112 ~~l~~G~rVLIVDDvvtTGgT~~------a~~~ll~---~aGa~Vvgv~~lvd~~~~~g~~~l~~~gvpv~sL~~~ 178 (191)
T TIGR01744 112 EFLSDQDRVLIIDDFLANGQAAH------GLVDIAK---QAGAKIAGIGIVIEKSFQNGRQELVELGYRVESLARI 178 (191)
T ss_pred HhCCCcCEEEEEEehhccChHHH------HHHHHHH---HCCCEEEEEEEEEEecCccHHHHHHhcCCcEEEEEEE
Confidence 45789999999998886543211 1111111 11322 244445777788788777666544
No 277
>cd03142 GATase1_ThuA Type 1 glutamine amidotransferase (GATase1)-like domain found in Sinorhizobium meliloti Rm1021 ThuA (SmThuA). Type 1 glutamine amidotransferase (GATase1)-like domain found in Sinorhizobium meliloti Rm1021 ThuA (SmThuA). This group includes proteins similar to SmThuA which plays a role in a major pathway for trehalose catabolism. SmThuA is induced by trehalose but not by related structurally similar disaccharides like sucrose or maltose. Proteins in this group lack the catalytic triad of typical GATase1 domains: a His replaces the reactive Cys found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. S. meliloti Rm1021 thuA mutants are impaired in competitive colonization of Medicago sativa roots but are more competitive than the wild-type Rml021 in infecting alfalfa roots and forming nitrogen-fixing nodules.
Probab=39.66 E-value=69 Score=21.43 Aligned_cols=37 Identities=14% Similarity=0.218 Sum_probs=21.7
Q ss_pred ceeEEEe-cccc-cCCChHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 2 QVYLSIL-QWML-HNFDDENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 2 ~~D~v~~-~~vl-h~~~d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
+||+++. ++.- ..+++++..++.+.+.+ ||-++.+..
T Consensus 58 ~~D~lV~~~~~~~~~l~~eq~~~l~~~V~~----GgGlv~lHs 96 (215)
T cd03142 58 ETDVLLWWGHIAHDEVKDEIVERVHRRVLD----GMGLIVLHS 96 (215)
T ss_pred cCCEEEEeCCCCcCcCCHHHHHHHHHHHHc----CCCEEEECC
Confidence 6888887 3433 46677655555544444 666655554
No 278
>PF00017 SH2: SH2 domain; InterPro: IPR000980 The Src homology 2 (SH2) domain is a protein domain of about 100 amino-acid residues first identified as a conserved sequence region between the oncoproteins Src and Fps []. Similar sequences were later found in many other intracellular signal-transducing proteins []. SH2 domains function as regulatory modules of intracellular signalling cascades by interacting with high affinity to phosphotyrosine-containing target peptides in a sequence-specific, SH2 domains recognise between 3-6 residues C-terminal to the phosphorylated tyrosine in a fashion that differs from one SH2 domain to another, and strictly phosphorylation-dependent manner [, , , ]. They are found in a wide variety of protein contexts e.g., in association with catalytic domains of phospholipase Cy (PLCy) and the non-receptor protein tyrosine kinases; within structural proteins such as fodrin and tensin; and in a group of small adaptor molecules, i.e Crk and Nck. The domains are frequently found as repeats in a single protein sequence and will then often bind both mono- and di-phosphorylated substrates. The structure of the SH2 domain belongs to the alpha+beta class, its overall shape forming a compact flattened hemisphere. The core structural elements comprise a central hydrophobic anti-parallel beta-sheet, flanked by 2 short alpha-helices. The loop between strands 2 and 3 provides many of the binding interactions with the phosphate group of its phosphopeptide ligand, and is hence designated the phosphate binding loop, the phosphorylated ligand binds perpendicular to the beta-sheet and typically interacts with the phosphate binding loop and a hydrophobic binding pocket that interacts with a pY+3 side chain. The N- and C-termini of the domain are close together in space and on the opposite face from the phosphopeptide binding surface and it has been speculated that this has facilitated their integration into surface-exposed regions of host proteins [].; GO: 0005515 protein binding; PDB: 1M27_A 1KA6_A 1D4W_B 1D4T_A 1D1Z_B 1KA7_A 1UUR_A 1UUS_A 1BLJ_A 1BLK_A ....
Probab=39.04 E-value=40 Score=17.96 Aligned_cols=27 Identities=22% Similarity=0.194 Sum_probs=18.3
Q ss_pred ccCCChHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 12 LHNFDDENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 12 lh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
....+.+++.++|++ -++.|..+|=..
T Consensus 3 ~g~isr~~Ae~~L~~----~~~~G~FLvR~s 29 (77)
T PF00017_consen 3 HGFISRQEAERLLMQ----GKPDGTFLVRPS 29 (77)
T ss_dssp EESSHHHHHHHHHHT----TSSTTEEEEEEE
T ss_pred CCCCCHHHHHHHHHh----cCCCCeEEEEec
Confidence 345667778888887 456677766554
No 279
>PRK03094 hypothetical protein; Provisional
Probab=38.98 E-value=33 Score=19.35 Aligned_cols=24 Identities=8% Similarity=0.250 Sum_probs=19.7
Q ss_pred eecCHHHHHHHHHHcCCCceEEEE
Q 042267 72 RERTKKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 72 ~~rt~~e~~~ll~~aGf~~~~~~~ 95 (107)
-+.+.+.+++-|++.||+++....
T Consensus 6 VE~~Ls~i~~~L~~~GYeVv~l~~ 29 (80)
T PRK03094 6 VEQSLTDVQQALKQKGYEVVQLRS 29 (80)
T ss_pred eecCcHHHHHHHHHCCCEEEecCc
Confidence 355778999999999999987753
No 280
>PRK10556 hypothetical protein; Provisional
Probab=38.89 E-value=40 Score=19.84 Aligned_cols=20 Identities=20% Similarity=0.121 Sum_probs=16.8
Q ss_pred HHHHHHHHHHcCCCceEEEE
Q 042267 76 KKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~ 95 (107)
..|..+.|+.+||+..-+.+
T Consensus 5 PDEVArVLe~aGF~~D~vt~ 24 (111)
T PRK10556 5 PDEVARVLEKAGFTVDVVTQ 24 (111)
T ss_pred hHHHHHHHHhcCceEEEeec
Confidence 56899999999999876654
No 281
>KOG3924 consensus Putative protein methyltransferase involved in meiosis and transcriptional silencing (Dot1) [Cell cycle control, cell division, chromosome partitioning; Transcription]
Probab=38.74 E-value=66 Score=23.85 Aligned_cols=42 Identities=10% Similarity=0.209 Sum_probs=32.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPE 46 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~ 46 (107)
++++++..++. ++++...++= ++..-+++|.+++-.+++.+.
T Consensus 272 eatvi~vNN~~--Fdp~L~lr~~-eil~~ck~gtrIiS~~~L~~r 313 (419)
T KOG3924|consen 272 EATVIFVNNVA--FDPELKLRSK-EILQKCKDGTRIISSKPLVPR 313 (419)
T ss_pred cceEEEEeccc--CCHHHHHhhH-HHHhhCCCcceEecccccccc
Confidence 57899999987 5554444444 788889999999999988774
No 282
>COG4822 CbiK Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]
Probab=38.67 E-value=39 Score=23.02 Aligned_cols=18 Identities=17% Similarity=0.291 Sum_probs=15.6
Q ss_pred cCHHHHHHHHHHcCCCce
Q 042267 74 RTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~ 91 (107)
-++.+|..+|+++||++.
T Consensus 216 ddedswk~il~~~G~~v~ 233 (265)
T COG4822 216 DDEDSWKNILEKNGFKVE 233 (265)
T ss_pred cchHHHHHHHHhCCceeE
Confidence 456899999999999984
No 283
>PRK13510 sulfur transfer complex subunit TusB; Provisional
Probab=38.65 E-value=34 Score=19.68 Aligned_cols=31 Identities=13% Similarity=0.300 Sum_probs=20.7
Q ss_pred ccCCChHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 12 LHNFDDENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 12 lh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
||..+.+.-..-|+.|-+.+.||-.+++++-
T Consensus 2 Lhtv~~Sp~~~~l~~~l~~~~~~D~iLLieD 32 (95)
T PRK13510 2 LHTLSRSPWLTDFAALLRLLKEGDDLLLLQD 32 (95)
T ss_pred eeeecCCCchhHHHHHHHhcCCCCEEEEehH
Confidence 4555443333578889999999877777643
No 284
>TIGR00064 ftsY signal recognition particle-docking protein FtsY. There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.
Probab=38.52 E-value=85 Score=21.63 Aligned_cols=42 Identities=14% Similarity=0.212 Sum_probs=24.7
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCC------CCCEEEEEeee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALP------NDGKVLVINST 43 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~------pgg~l~i~e~~ 43 (107)
+||+++.=-.=....|.....=|+++.+..+ |.+.+++++..
T Consensus 154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~ 201 (272)
T TIGR00064 154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDAT 201 (272)
T ss_pred CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECC
Confidence 3565555444333345445555666666666 77888877764
No 285
>PRK11727 23S rRNA mA1618 methyltransferase; Provisional
Probab=38.49 E-value=48 Score=23.60 Aligned_cols=86 Identities=12% Similarity=0.058 Sum_probs=48.2
Q ss_pred ceeEEEecccccCCChHH---HHHHHHHHH----------------hhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcH
Q 042267 2 QVYLSILQWMLHNFDDEN---CIKILRNCY----------------KALPNDGKVLVINSTLPEVPDSTEASRDSFILDA 62 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~---~~~iL~~~~----------------~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~ 62 (107)
.||+++..==+|.-.++. ..+-.++.. +.+.+||.+-++..+..++.. ... ...+..
T Consensus 189 ~fDlivcNPPf~~s~~ea~~~~~rk~r~~ar~~~~~~~l~f~g~~~EL~~~GGe~~fi~~mi~eS~~---~~~-~~gwft 264 (321)
T PRK11727 189 RFDATLCNPPFHASAAEARAGSQRKLRNLGLNKDKKKVLNFGGQQAELWCEGGEVAFIKRMIEESKA---FAK-QVLWFT 264 (321)
T ss_pred ceEEEEeCCCCcCcchhhccchhhHHhhhhccCCCccccCCcchhhheeeCCcEeeeehHhhHHHHH---HHh-hCcEEE
Confidence 478888888877665542 122222222 223356666555555544311 000 011222
Q ss_pred HHHhhCCCceecCHHHHHHHHHHcCCCceEEEEc
Q 042267 63 IFLIQIPHGRERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 63 ~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
+| =|+.-+.+.+.+.|++.|.+.+++...
T Consensus 265 sm-----v~kk~~l~~l~~~L~~~~~~~~~~~e~ 293 (321)
T PRK11727 265 SL-----VSKKENLPPLYRALKKVGAVEVKTIEM 293 (321)
T ss_pred EE-----eeccCCHHHHHHHHHHcCCceEEEEEE
Confidence 22 345568999999999999987777654
No 286
>PF05763 DUF835: Protein of unknown function (DUF835); InterPro: IPR008553 The members of this archaebacterial protein entry are around 250-300 amino acid residues in length. The function of these proteins is not known.
Probab=38.22 E-value=63 Score=19.93 Aligned_cols=40 Identities=18% Similarity=0.162 Sum_probs=30.1
Q ss_pred eEEEeccccc--CCChHHHHHHHHHHHhhCCC-CCEEEEEeee
Q 042267 4 YLSILQWMLH--NFDDENCIKILRNCYKALPN-DGKVLVINST 43 (107)
Q Consensus 4 D~v~~~~vlh--~~~d~~~~~iL~~~~~aL~p-gg~l~i~e~~ 43 (107)
.++|++.+=+ ..++.+...++..+.+.|+. ++.++++|.+
T Consensus 42 ~viWlT~~~~~~~I~Pt~L~~l~~~i~~fl~~~~~~vViiD~l 84 (136)
T PF05763_consen 42 PVIWLTKVEGENAISPTNLHKLLDTIVRFLKENGNGVVIIDGL 84 (136)
T ss_pred cEEEEeccCCCCccCchhhHHHHHHHHHHHHhCCCcEEEEecH
Confidence 4777777754 55666678888999999988 6778888854
No 287
>cd03143 A4_beta-galactosidase_middle_domain A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain. A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain. This group includes proteins similar to beta-galactosidase from Thermus thermophilus. Beta-Galactosidase hydrolyzes the beta-1,4-D-galactosidic linkage of lactose, as well as those of related chromogens, o-nitrophenyl-beta-D-galactopyranoside (ONP-Gal) and 5-bromo-4-chloro-3-indolyl-beta-D-galactoside (X-gal). This A4 beta-galactosidase middle domain lacks the catalytic triad of typical GATase1 domains. The reactive Cys residue found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow in typical GATase1 domains is not conserved in this group.
Probab=38.14 E-value=43 Score=20.54 Aligned_cols=33 Identities=15% Similarity=0.105 Sum_probs=20.1
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i 39 (107)
+||++++.+..+. ++ +..+++.+-.+.||.++.
T Consensus 53 ~y~~vi~P~~~~~-~~----~~~~~l~~~v~~GG~li~ 85 (154)
T cd03143 53 GYKLVVLPDLYLL-SD----ATAAALRAYVENGGTLVA 85 (154)
T ss_pred cCCEEEECchhcC-CH----HHHHHHHHHHHCCCEEEE
Confidence 5889999888654 44 233344444445996655
No 288
>smart00115 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues. Cysteine aspartases that mediate programmed cell death (apoptosis). Caspases are synthesised as zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologues.
Probab=37.98 E-value=91 Score=20.97 Aligned_cols=23 Identities=17% Similarity=0.270 Sum_probs=12.8
Q ss_pred CceecCHHHHHHHHHHcCCCceE
Q 042267 70 HGRERTKKEFTALAIEAGFKGIN 92 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~ 92 (107)
.|...+.+.+.++|++.||++..
T Consensus 26 ~g~~~D~~~l~~~f~~lgF~V~~ 48 (241)
T smart00115 26 NGTDVDAENLTELFQSLGYEVHV 48 (241)
T ss_pred CCcHHHHHHHHHHHHHCCCEEEE
Confidence 34444556666666666665543
No 289
>PF07862 Nif11: Nitrogen fixation protein of unknown function; InterPro: IPR012903 This domain is found in the cyanobacteria, and the nitrogen-fixing proteobacterium Azotobacter vinelandii and may be involved in nitrogen fixation, but no role has been assigned [].
Probab=37.92 E-value=43 Score=16.46 Aligned_cols=18 Identities=39% Similarity=0.466 Sum_probs=15.2
Q ss_pred cCHHHHHHHHHHcCCCce
Q 042267 74 RTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~ 91 (107)
.+.+++.++.++.||...
T Consensus 27 ~~~~e~~~lA~~~Gy~ft 44 (49)
T PF07862_consen 27 QNPEEVVALAREAGYDFT 44 (49)
T ss_pred CCHHHHHHHHHHcCCCCC
Confidence 478999999999998753
No 290
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=37.89 E-value=45 Score=15.56 Aligned_cols=18 Identities=6% Similarity=0.056 Sum_probs=14.4
Q ss_pred cCHHHHHHHHHHcCCCce
Q 042267 74 RTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~ 91 (107)
.|.+++++||++.|...-
T Consensus 4 Ws~~~L~~wL~~~gi~~~ 21 (38)
T PF10281_consen 4 WSDSDLKSWLKSHGIPVP 21 (38)
T ss_pred CCHHHHHHHHHHcCCCCC
Confidence 467899999999986543
No 291
>KOG2918 consensus Carboxymethyl transferase [Posttranslational modification, protein turnover, chaperones]
Probab=37.83 E-value=1.5e+02 Score=21.32 Aligned_cols=80 Identities=13% Similarity=0.160 Sum_probs=49.9
Q ss_pred EEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhC------CCc--eecCH
Q 042267 5 LSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQI------PHG--RERTK 76 (107)
Q Consensus 5 ~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~g--~~rt~ 76 (107)
+++.--+|-..+.+++..+++-+.+..+. +..++.|++.+.++-+ -.|..+. -.| ..-|.
T Consensus 191 i~iaEcvLvYM~pe~S~~Li~w~~~~F~~-a~fv~YEQi~~~D~Fg-----------~vM~~nlk~r~~~L~gle~y~s~ 258 (335)
T KOG2918|consen 191 IFIAECVLVYMEPEESANLIKWAASKFEN-AHFVNYEQINPNDRFG-----------KVMLANLKRRGCPLHGLETYNSI 258 (335)
T ss_pred eehhhhhheeccHHHHHHHHHHHHHhCCc-ccEEEEeccCCCChHH-----------HHHHHHHHhcCCCCchhhhcccH
Confidence 44555677788888889999988886654 4555778887544321 1111111 011 12456
Q ss_pred HHHHHHHHHcCCCceEEEEc
Q 042267 77 KEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~~~~ 96 (107)
+..++=+.++||+-+.+.++
T Consensus 259 Esq~~Rf~~~Gw~~v~a~Dm 278 (335)
T KOG2918|consen 259 ESQRSRFLKAGWEYVIAVDM 278 (335)
T ss_pred HHHHHHHHhcCCceeehhhH
Confidence 67777777799998877654
No 292
>PRK06132 hypothetical protein; Provisional
Probab=37.82 E-value=38 Score=24.57 Aligned_cols=24 Identities=8% Similarity=0.152 Sum_probs=21.2
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 21 IKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
..+.+++...|.||+.|+|.|.-.
T Consensus 321 ~~~~~~i~~~l~~gssl~vsD~~~ 344 (359)
T PRK06132 321 PDFRRRIAALLTPGSTLVITDQGI 344 (359)
T ss_pred HHHHHHHHHhcCCCceEEEcCCCC
Confidence 468899999999999999998655
No 293
>COG4421 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism]
Probab=37.81 E-value=27 Score=25.20 Aligned_cols=22 Identities=18% Similarity=0.202 Sum_probs=18.5
Q ss_pred cCHHHHHHHHHHcCCCceEEEE
Q 042267 74 RTKKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~~~~~ 95 (107)
-.++|++.+++++||++++-..
T Consensus 241 vnE~evE~~~q~~G~~IVrPEt 262 (368)
T COG4421 241 VNEEEVERLLQRSGLTIVRPET 262 (368)
T ss_pred hCHHHHHHHHHhcCcEEEechh
Confidence 4679999999999999987643
No 294
>PRK11018 hypothetical protein; Provisional
Probab=37.43 E-value=73 Score=17.45 Aligned_cols=27 Identities=7% Similarity=0.015 Sum_probs=19.0
Q ss_pred HHHHHHHHHHcCCCceEEEEcCCceeE
Q 042267 76 KKEFTALAIEAGFKGINFECNVCNSYV 102 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~~~~~~v 102 (107)
.+.+.+|+++.|+++.......+.+.+
T Consensus 48 ~~di~~~~~~~G~~v~~~~~~~g~~~~ 74 (78)
T PRK11018 48 INNIPLDARNHGYTVLDIQQDGPTIRY 74 (78)
T ss_pred HHHHHHHHHHcCCEEEEEEecCCeEEE
Confidence 467788889999998876655444443
No 295
>COG3288 PntA NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]
Probab=37.38 E-value=60 Score=23.41 Aligned_cols=35 Identities=6% Similarity=0.050 Sum_probs=26.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVL 38 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~ 38 (107)
++|+++....+..-+-+ .-+-+...++||||+.++
T Consensus 244 ~~DivITTAlIPGrpAP--~Lvt~~mv~sMkpGSViV 278 (356)
T COG3288 244 EVDIVITTALIPGRPAP--KLVTAEMVASMKPGSVIV 278 (356)
T ss_pred CCCEEEEecccCCCCCc--hhhHHHHHHhcCCCcEEE
Confidence 57888888777555543 566788899999998764
No 296
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=37.17 E-value=65 Score=16.79 Aligned_cols=22 Identities=18% Similarity=0.219 Sum_probs=15.8
Q ss_pred HHHHHHHHHHcCCCceEEEEcCC
Q 042267 76 KKEFTALAIEAGFKGINFECNVC 98 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~~~ 98 (107)
.+.+.+|+++.|++. .+....+
T Consensus 38 ~~~i~~~~~~~G~~~-~~~~~~~ 59 (67)
T cd03421 38 KENVSRFAESRGYEV-SVEEKGG 59 (67)
T ss_pred HHHHHHHHHHcCCEE-EEEecCC
Confidence 357788889999998 5554444
No 297
>PF11305 DUF3107: Protein of unknown function (DUF3107); InterPro: IPR021456 Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Probab=36.69 E-value=51 Score=18.28 Aligned_cols=25 Identities=16% Similarity=0.282 Sum_probs=19.6
Q ss_pred hHHHHHHHHHHHhhCCCC-CEEEEEe
Q 042267 17 DENCIKILRNCYKALPND-GKVLVIN 41 (107)
Q Consensus 17 d~~~~~iL~~~~~aL~pg-g~l~i~e 41 (107)
+.....+.+.+.+||..| |.|-+.|
T Consensus 19 ~~s~dev~~~v~~Al~~~~~~l~LtD 44 (74)
T PF11305_consen 19 DQSADEVEAAVTDALADGSGVLTLTD 44 (74)
T ss_pred CCCHHHHHHHHHHHHhCCCceEEEEe
Confidence 344678999999999998 7776665
No 298
>TIGR03708 poly_P_AMP_trns polyphosphate:AMP phosphotransferase. Members of this protein family contain a domain duplication. The characterized member from Acinetobacter johnsonii is polyphosphate:AMP phosphotransferase (PAP), which can transfer the terminal phosphate from poly(P) to AMP, yielding ADP. In the opposite direction, this enzyme can synthesize poly(P). Each domain of this protein family is homologous to polyphosphate kinase, an enzyme that can run in the forward direction to extend a polyphosphate chain with a new terminal phosphate from ATP, or in reverse to make ATP (or GTP) from ADP (or GDP).
Probab=36.65 E-value=45 Score=25.33 Aligned_cols=70 Identities=13% Similarity=0.133 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEE
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~ 94 (107)
+...-.|.+..+.|++.|.+.|.|--.-+..... + ..+...-... ......-.++++.|.+.|..++++.
T Consensus 340 E~~~~~lwRf~~~lP~~G~i~iFdRSwY~~vlve---r---v~g~~~~~~~-~~~~~~I~~FE~~L~~~G~~ivKf~ 409 (493)
T TIGR03708 340 EKAQHYLWRFWRHIPRRGRITIFDRSWYGRVLVE---R---VEGFCSEAEW-LRAYGEINDFEEQLTEHGAIVVKFW 409 (493)
T ss_pred HHcCcHHHHHHHhCCCCCeEEEEcCCccCCccee---e---ecCCCCHHHH-HHHHHHHHHHHHHHHHCCCEEEEEE
Confidence 3367778888899999899888876543322110 0 0000000000 1112345788999999998888874
No 299
>TIGR01033 DNA-binding regulatory protein, YebC/PmpR family. This model describes a minimally characterized protein family, restricted to bacteria excepting for some eukaryotic sequences that have possible transit peptides. YebC from E. coli is crystallized, and PA0964 from Pseudomonas aeruginosa has been shown to be a sequence-specific DNA-binding regulatory protein.
Probab=36.14 E-value=71 Score=21.76 Aligned_cols=14 Identities=7% Similarity=0.268 Sum_probs=10.0
Q ss_pred CCCCEEEEEeeeCC
Q 042267 32 PNDGKVLVINSTLP 45 (107)
Q Consensus 32 ~pgg~l~i~e~~~~ 45 (107)
.|||..+|+|...+
T Consensus 91 gP~GvaiiVe~lTD 104 (238)
T TIGR01033 91 APGGVAIIVECLTD 104 (238)
T ss_pred cCCceEEEEEEecC
Confidence 37888888886644
No 300
>PF07647 SAM_2: SAM domain (Sterile alpha motif); InterPro: IPR011510 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents a second domain related to the SAM domain. ; GO: 0005515 protein binding; PDB: 1B0X_A 1X9X_B 1OW5_A 1V38_A 3BS7_A 3BS5_A 3TAD_A 3TAC_B 2K60_A 2DL0_A ....
Probab=36.06 E-value=43 Score=17.25 Aligned_cols=18 Identities=6% Similarity=0.132 Sum_probs=12.3
Q ss_pred cCHHHHHHHHHHcCCCce
Q 042267 74 RTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~ 91 (107)
.+.++..+||+..||..+
T Consensus 4 w~~~~v~~WL~~~gl~~y 21 (66)
T PF07647_consen 4 WSPEDVAEWLKSLGLEQY 21 (66)
T ss_dssp HCHHHHHHHHHHTTCGGG
T ss_pred CCHHHHHHHHHHCCcHHH
Confidence 356777788877777543
No 301
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=35.59 E-value=47 Score=24.40 Aligned_cols=26 Identities=8% Similarity=0.175 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
.+-..++..+.+.|+|||.+++.-.-
T Consensus 313 rdy~~l~~~~~~iL~pgG~l~~~s~~ 338 (393)
T COG1092 313 RDYKDLNDLALRLLAPGGTLVTSSCS 338 (393)
T ss_pred HHHHHHHHHHHHHcCCCCEEEEEecC
Confidence 33678999999999999999887643
No 302
>PRK13810 orotate phosphoribosyltransferase; Provisional
Probab=35.58 E-value=1.3e+02 Score=19.63 Aligned_cols=21 Identities=5% Similarity=0.165 Sum_probs=16.3
Q ss_pred HhhCCCCCEEEEEeeeCCCCC
Q 042267 28 YKALPNDGKVLVINSTLPEVP 48 (107)
Q Consensus 28 ~~aL~pgg~l~i~e~~~~~~~ 48 (107)
...+.+|-+++|+|-+.....
T Consensus 116 ~g~~~~g~rVlIVDDVitTGg 136 (187)
T PRK13810 116 VGDLKPEDRIVMLEDVTTSGG 136 (187)
T ss_pred EccCCCcCEEEEEEeccCCCh
Confidence 456789999999998886543
No 303
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=35.52 E-value=71 Score=16.74 Aligned_cols=11 Identities=45% Similarity=0.836 Sum_probs=6.5
Q ss_pred CCCEEEEEeee
Q 042267 33 NDGKVLVINST 43 (107)
Q Consensus 33 pgg~l~i~e~~ 43 (107)
+++.++++++.
T Consensus 34 ~~~tll~i~~~ 44 (70)
T PF14258_consen 34 DDGTLLVIGPD 44 (70)
T ss_pred CCCEEEEEeCC
Confidence 45666666654
No 304
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=35.49 E-value=41 Score=19.12 Aligned_cols=24 Identities=25% Similarity=0.350 Sum_probs=20.8
Q ss_pred CceecCHHHHHHHHHHcCCCceEE
Q 042267 70 HGRERTKKEFTALAIEAGFKGINF 93 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~~ 93 (107)
||..+...++++++++.|++....
T Consensus 6 GG~~~~~~~~~~~~~~~G~~~~~h 29 (97)
T PF10087_consen 6 GGREDRERRYKRILEKYGGKLIHH 29 (97)
T ss_pred cCCcccHHHHHHHHHHcCCEEEEE
Confidence 777888899999999999887765
No 305
>PRK05066 arginine repressor; Provisional
Probab=35.16 E-value=31 Score=21.89 Aligned_cols=20 Identities=20% Similarity=0.297 Sum_probs=16.1
Q ss_pred CceecCHHHHHHHHHHcCCC
Q 042267 70 HGRERTKKEFTALAIEAGFK 89 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~ 89 (107)
+....|++|+.+.|++.||.
T Consensus 20 ~~~I~tQeeL~~~L~~~Gi~ 39 (156)
T PRK05066 20 EEKFGSQGEIVTALQEQGFD 39 (156)
T ss_pred hCCCCCHHHHHHHHHHCCCC
Confidence 55567888888888888888
No 306
>cd00291 SirA_YedF_YeeD SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=34.65 E-value=71 Score=16.51 Aligned_cols=24 Identities=21% Similarity=0.165 Sum_probs=18.0
Q ss_pred HHHHHHHHHHcCCCceEEEEcCCc
Q 042267 76 KKEFTALAIEAGFKGINFECNVCN 99 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~~~~ 99 (107)
..++.+|+++.|++.......++.
T Consensus 39 ~~~i~~~~~~~g~~~~~~~~~~~~ 62 (69)
T cd00291 39 VEDIPAWAKETGHEVLEVEEEGGV 62 (69)
T ss_pred HHHHHHHHHHcCCEEEEEEEeCCE
Confidence 467888999999998776655443
No 307
>cd03422 YedF YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=34.64 E-value=76 Score=16.83 Aligned_cols=25 Identities=16% Similarity=0.076 Sum_probs=18.1
Q ss_pred HHHHHHHHHHcCCCceEEEEcCCce
Q 042267 76 KKEFTALAIEAGFKGINFECNVCNS 100 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~~~~~ 100 (107)
.+.+.+|+++.|+++......++.+
T Consensus 39 ~~ni~~~~~~~g~~v~~~~~~~~~~ 63 (69)
T cd03422 39 INNIPIDARNHGYKVLAIEQSGPTI 63 (69)
T ss_pred HHHHHHHHHHcCCEEEEEEecCCEE
Confidence 4677888899999988766554433
No 308
>PRK13587 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=34.60 E-value=63 Score=21.74 Aligned_cols=21 Identities=19% Similarity=0.278 Sum_probs=16.9
Q ss_pred CceecCHHHHHHHHHHcCCCce
Q 042267 70 HGRERTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~ 91 (107)
+|..++.+++.++++ .|...+
T Consensus 198 ~GGi~s~edi~~l~~-~G~~~v 218 (234)
T PRK13587 198 SGGIRHQQDIQRLAS-LNVHAA 218 (234)
T ss_pred eCCCCCHHHHHHHHH-cCCCEE
Confidence 678899999999985 786654
No 309
>KOG1709 consensus Guanidinoacetate methyltransferase and related proteins [Amino acid transport and metabolism]
Probab=34.26 E-value=47 Score=22.75 Aligned_cols=25 Identities=16% Similarity=0.227 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
++...+-+.+.+.|+|+|.+-.+.-
T Consensus 183 Edl~~~hqh~~rLLkP~gv~SyfNg 207 (271)
T KOG1709|consen 183 EDLRHFHQHVVRLLKPEGVFSYFNG 207 (271)
T ss_pred HHHHHHHHHHhhhcCCCceEEEecC
Confidence 4578889999999999998866553
No 310
>COG3053 CitC Citrate lyase synthetase [Energy production and conversion]
Probab=34.18 E-value=50 Score=23.60 Aligned_cols=31 Identities=32% Similarity=0.308 Sum_probs=22.4
Q ss_pred eecCHHHHHHHHHHcCCCceEEEEcCCceeEEE
Q 042267 72 RERTKKEFTALAIEAGFKGINFECNVCNSYVME 104 (107)
Q Consensus 72 ~~rt~~e~~~ll~~aGf~~~~~~~~~~~~~vi~ 104 (107)
-.+|..++.++|+++||..+ ....+...++|
T Consensus 94 FiyTKp~~~~lFk~~GF~~i--~~~~~~ivlmE 124 (352)
T COG3053 94 FIYTKPEYAALFKQCGFSEI--ASAENVIVLME 124 (352)
T ss_pred EEEechhHHHHHHhCCceEe--eccCceEEEee
Confidence 46999999999999999875 33344444444
No 311
>PF12646 DUF3783: Domain of unknown function (DUF3783); InterPro: IPR016621 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=34.18 E-value=54 Score=16.93 Aligned_cols=20 Identities=30% Similarity=0.363 Sum_probs=17.7
Q ss_pred cccCCChHHHHHHHHHHHhh
Q 042267 11 MLHNFDDENCIKILRNCYKA 30 (107)
Q Consensus 11 vlh~~~d~~~~~iL~~~~~a 30 (107)
+++.+++++..++|+.+++.
T Consensus 5 l~~g~~~~el~~~l~~~r~~ 24 (58)
T PF12646_consen 5 LFSGFSGEELDKFLDALRKA 24 (58)
T ss_pred EECCCCHHHHHHHHHHHHHc
Confidence 46888999999999999987
No 312
>COG4004 Uncharacterized protein conserved in archaea [Function unknown]
Probab=33.98 E-value=99 Score=17.95 Aligned_cols=38 Identities=11% Similarity=0.011 Sum_probs=27.0
Q ss_pred CceecCHHHHHHHHHHcCCCceE----EEEcCCceeEEEEEC
Q 042267 70 HGRERTKKEFTALAIEAGFKGIN----FECNVCNSYVMEFYK 107 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~----~~~~~~~~~vi~~~~ 107 (107)
.|.--+.+.+.+.|+++|+++-. +....+..+.|++.+
T Consensus 8 rGf~~~~dri~~~l~e~g~~v~~eGD~ivas~pgis~ieik~ 49 (96)
T COG4004 8 RGFKPDPDRIMRGLSELGWTVSEEGDRIVASSPGISRIEIKP 49 (96)
T ss_pred cCCCCCHHHHHHHHHHhCeeEeecccEEEEecCCceEEEEec
Confidence 45566788899999999987642 344457778887753
No 313
>PF01436 NHL: NHL repeat; InterPro: IPR001258 The NHL repeat, named after NCL-1, HT2A and Lin-41, is found largely in a large number of eukaryotic and prokaryotic proteins. For example, the repeat is found in a variety of enzymes of the copper type II, ascorbate-dependent monooxygenase family which catalyse the C terminus alpha-amidation of biological peptides []. In many it occurs in tandem arrays, for example in the ringfinger beta-box, coiled-coil (RBCC) eukaryotic growth regulators []. The 'Brain Tumor' protein (Brat) is one such growth regulator that contains a 6-bladed NHL-repeat beta-propeller [, ]. The NHL repeats are also found in serine/threonine protein kinase (STPK) in diverse range of pathogenic bacteria. These STPK are transmembrane receptors with a intracellular N-terminal kinase domain and extracellular C-terminal sensor domain. In the STPK, PknD, from Mycobacterium tuberculosis, the sensor domain forms a rigid, six-bladed b-propeller composed of NHL repeats with a flexible tether to the transmembrane domain.; GO: 0005515 protein binding; PDB: 3FVZ_A 3FW0_A 1RWL_A 1RWI_A 1Q7F_A.
Probab=33.73 E-value=27 Score=15.05 Aligned_cols=11 Identities=36% Similarity=0.679 Sum_probs=8.7
Q ss_pred CCCCEEEEEee
Q 042267 32 PNDGKVLVINS 42 (107)
Q Consensus 32 ~pgg~l~i~e~ 42 (107)
.++|.++|.|.
T Consensus 10 ~~~g~i~VaD~ 20 (28)
T PF01436_consen 10 DSDGNIYVADS 20 (28)
T ss_dssp ETTSEEEEEEC
T ss_pred eCCCCEEEEEC
Confidence 37899999883
No 314
>PF09572 RE_XamI: XamI restriction endonuclease; InterPro: IPR019072 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry includes the XamI restriction endonuclease which recognises GTCGAC but cleavage site unknown. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=33.69 E-value=50 Score=22.73 Aligned_cols=73 Identities=19% Similarity=0.162 Sum_probs=39.7
Q ss_pred hHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhh-----CCCce-ecCHHHHHHHHHHcCCCc
Q 042267 17 DENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQ-----IPHGR-ERTKKEFTALAIEAGFKG 90 (107)
Q Consensus 17 d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~g~-~rt~~e~~~ll~~aGf~~ 90 (107)
|++..+|++-+.+.|-|+=...+-+.-.|+.. +..+......-.++.. ..++. .|-+..+++||.+.||+.
T Consensus 64 ~~~l~kI~~iI~~llDp~~FpWl~~~~~Pt~~---Ei~~aA~ivadrL~~avA~piiRnaqErRQe~~i~~~L~~~GYt~ 140 (251)
T PF09572_consen 64 DEELQKICDIIEKLLDPDRFPWLGRGRAPTEE---EIERAATIVADRLCGAVADPIIRNAQERRQEAAIAEWLEARGYTK 140 (251)
T ss_pred HHHHHHHHHHHHHhcCcccccccCCCCCCCHH---HHHHHHHHHHHHHHhhhcchHHHhHHHHHHHHHHHHHHHhcCceE
Confidence 45678888888898999855554443332221 1111111111111110 11322 366688899999999997
Q ss_pred eE
Q 042267 91 IN 92 (107)
Q Consensus 91 ~~ 92 (107)
+.
T Consensus 141 ~~ 142 (251)
T PF09572_consen 141 VP 142 (251)
T ss_pred cc
Confidence 64
No 315
>COG3870 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.56 E-value=75 Score=18.81 Aligned_cols=26 Identities=8% Similarity=0.102 Sum_probs=21.0
Q ss_pred CHHHHHHHHHHcCCCceEEEEcCCce
Q 042267 75 TKKEFTALAIEAGFKGINFECNVCNS 100 (107)
Q Consensus 75 t~~e~~~ll~~aGf~~~~~~~~~~~~ 100 (107)
+.+++.+.|.+.||+..+....++++
T Consensus 12 da~~l~~~L~d~~fraTkLAsTGGFl 37 (109)
T COG3870 12 DANELEDALTDKNFRATKLASTGGFL 37 (109)
T ss_pred cHHHHHHHHHhCCceeEEeeccCcee
Confidence 45788899999999999988776553
No 316
>PF03976 PPK2: Polyphosphate kinase 2 (PPK2); InterPro: IPR022488 This presumed domain is found in one or two copies per protein. The domain is about 230 amino acids in length and has many conserved motifs, it has polyphosphate kinase activity [, ].; PDB: 3CZP_A 3RHF_D 3CZQ_B.
Probab=33.38 E-value=18 Score=24.40 Aligned_cols=68 Identities=19% Similarity=0.190 Sum_probs=35.4
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEE
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~ 94 (107)
..-.|.+..+.|++.|.+.|.+--.-+.... .+.....+-.-. .........+++.|.+.|..++++.
T Consensus 74 ~~p~lwRfw~~lP~~G~I~if~rSWY~~~l~---~rv~~~~~~~~~----~~~~~~I~~FEr~L~~~G~~IiKff 141 (228)
T PF03976_consen 74 RRPFLWRFWRALPARGQIGIFDRSWYEDVLV---ERVEGFIDEAEW----ERRLEEINRFERMLADDGTLIIKFF 141 (228)
T ss_dssp TS-TTHHHHTTS--TT-EEEEES-GGGGGTH---HHHTTSSTHHHH----HHHHHHHHHHHHHHHHTTEEEEEEE
T ss_pred CCCcHHHHHHhCCCCCEEEEEecchhhHHHH---HHHhcCCCHHHH----HHHHHHHHHHHHHHHHCCCeEEEEE
Confidence 5567899999999999998887544322110 000000000000 1122345788999999998888774
No 317
>TIGR00166 S6 ribosomal protein S6. MRP17 protein is a component of the small ribosomal subunit in mitochondria, and is shown here to be an ortholog of S6.
Probab=33.34 E-value=94 Score=17.52 Aligned_cols=39 Identities=10% Similarity=0.120 Sum_probs=26.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCC-CCCEEEEEeee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALP-NDGKVLVINST 43 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~-pgg~l~i~e~~ 43 (107)
.|.++++... +.+++ ...+++++.+.+. -||.+.-+|..
T Consensus 2 ~YE~~~Il~p--~~~~~-~~~~~~~~~~~i~~~gg~i~~~~~~ 41 (93)
T TIGR00166 2 HYEIIFLVRP--TLSEE-VKGQIERYKKVITLNGAEIVRSEDW 41 (93)
T ss_pred ceeEEEEECC--CCcHH-HHHHHHHHHHHHHhCCCEEEEEEee
Confidence 4555555444 34455 7889999998876 58888888765
No 318
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=33.18 E-value=58 Score=24.65 Aligned_cols=21 Identities=14% Similarity=0.221 Sum_probs=17.9
Q ss_pred HHHHHHHHHhhCCCCCEEEEE
Q 042267 20 CIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~ 40 (107)
...+|+.+++.|+|||.+.+.
T Consensus 441 ~~~fl~~~~~~Lk~gG~i~~~ 461 (506)
T PRK01544 441 NKERLKILQDKLKDNGNLVFA 461 (506)
T ss_pred CHHHHHHHHHhcCCCCEEEEE
Confidence 357899999999999999764
No 319
>PF01870 Hjc: Archaeal holliday junction resolvase (hjc); InterPro: IPR002732 This entry represents Holliday junction resolvases (hjc gene) and related proteins, primarily from archaeal species []. The Holliday junction is an essential intermediate of homologous recombination. Holliday junctions are four-stranded DNA complexes that are formed during recombination and related DNA repair events. In the presence of divalent cations, these junctions exist predominantly as the stacked-X form in which the double-helical segments are coaxially stacked and twisted by 60 degrees in a right-handed direction across the junction cross-over. In this structure, the stacked arms resemble two adjacent double-helices, but are linked at the junction by two common strands that cross-over between the duplexes []. During homologous recombination, genetic information is physically exchanged between parental DNAs via crossing single strands of the same polarity within the four-way Holliday structure. This process is terminated by the endonucleolytic activity of resolvases, which convert the four-way DNA back to two double strands.; PDB: 2WJ0_A 2WIZ_B 2WIW_B 2WCW_C 2WCZ_A 1HH1_A 1GEF_D 1IPI_B 2EO0_B 1OB9_A ....
Probab=33.14 E-value=31 Score=19.72 Aligned_cols=18 Identities=22% Similarity=0.425 Sum_probs=14.4
Q ss_pred HHHHHHHHHHcCCCceEE
Q 042267 76 KKEFTALAIEAGFKGINF 93 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~ 93 (107)
+.|+.++|.+.||.+.+.
T Consensus 3 Erel~~~L~~~Gf~v~R~ 20 (88)
T PF01870_consen 3 ERELVKILWERGFAVVRA 20 (88)
T ss_dssp HHHHHHHHHHTT-EEEEB
T ss_pred HHHHHHHHHhCCcEEEEe
Confidence 568899999999998765
No 320
>PRK14974 cell division protein FtsY; Provisional
Probab=33.12 E-value=1.2e+02 Score=21.84 Aligned_cols=42 Identities=12% Similarity=0.108 Sum_probs=22.5
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
+|+++.=-.=....+.....=|+++.+.++|...+++.+...
T Consensus 223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~ 264 (336)
T PRK14974 223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALA 264 (336)
T ss_pred CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeecccc
Confidence 454444333222234444455666667777777777766543
No 321
>cd00032 CASc Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide backbone adjacent to an aspartate. The resulting two subunits associate to form an (alpha)2(beta)2-tetramer which is the active enzyme. Activation of caspases can be mediated by other caspase homologs.
Probab=32.68 E-value=1.2e+02 Score=20.43 Aligned_cols=22 Identities=18% Similarity=0.238 Sum_probs=12.7
Q ss_pred ceecCHHHHHHHHHHcCCCceE
Q 042267 71 GRERTKKEFTALAIEAGFKGIN 92 (107)
Q Consensus 71 g~~rt~~e~~~ll~~aGf~~~~ 92 (107)
|-..+.+.+.++|++.||++..
T Consensus 29 g~~~D~~~l~~~f~~lgF~V~~ 50 (243)
T cd00032 29 GTDVDAENLTKLFESLGYEVEV 50 (243)
T ss_pred ChHHHHHHHHHHHHHCCCEEEE
Confidence 3345556666666666665543
No 322
>PRK09662 GspL-like protein; Provisional
Probab=32.65 E-value=42 Score=23.56 Aligned_cols=20 Identities=5% Similarity=0.111 Sum_probs=17.7
Q ss_pred HHHHHHHHHcCCCceEEEEc
Q 042267 77 KEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~~~~ 96 (107)
..|.++|+++|++..++.|-
T Consensus 8 q~wl~~l~~agl~~~~~vPD 27 (286)
T PRK09662 8 RNIAQWLQANGITRATVAPD 27 (286)
T ss_pred HHHHHHHHHcCCcceeecCC
Confidence 68999999999999988764
No 323
>cd08283 FDH_like_1 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1. Members identified as glutathione-dependent formaldehyde dehydrogenase(FDH), a member of the zinc-dependent/medium chain alcohol dehydrogenase family. FDH converts formaldehyde and NAD(P) to formate and NAD(P)H. The initial step in this process the spontaneous formation of a S-(hydroxymethyl)glutathione adduct from formaldehyde and glutathione, followed by FDH-mediated oxidation (and detoxification) of the adduct to S-formylglutathione. MDH family uses NAD(H) as a cofactor in the interconversion of alcohols and aldehydes, or ketones. Like many zinc-dependent alcohol dehydrogenases (ADH) of the medium chain alcohol dehydrogenase/reductase family (MDR), these FDHs form dimers, with 4 zinc ions per dimer. The medium chain alcohol dehydrogenase family (MDR) has a NAD(P)(H)-binding domain in a Rossmann fold of a beta-alpha form. The N-terminal region typically has an all-beta catalytic domain. T
Probab=32.52 E-value=58 Score=23.23 Aligned_cols=22 Identities=27% Similarity=0.406 Sum_probs=18.6
Q ss_pred HHHHHHHHhhCCCCCEEEEEee
Q 042267 21 IKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
...++.+.+.|+|+|++++...
T Consensus 286 ~~~~~~~~~~l~~~G~iv~~g~ 307 (386)
T cd08283 286 PDALREAIQAVRKGGTVSIIGV 307 (386)
T ss_pred hHHHHHHHHHhccCCEEEEEcC
Confidence 4578888999999999998854
No 324
>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.
Probab=32.51 E-value=27 Score=24.42 Aligned_cols=23 Identities=30% Similarity=0.430 Sum_probs=19.4
Q ss_pred HHHHHHHHHHhhCCCCCEEEEEe
Q 042267 19 NCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 19 ~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
+-.++++++.+.|+|||.|+.+-
T Consensus 216 ~y~~L~~~a~~ll~~gG~l~~~s 238 (286)
T PF10672_consen 216 DYKKLLRRAMKLLKPGGLLLTCS 238 (286)
T ss_dssp HHHHHHHHHHHTEEEEEEEEEEE
T ss_pred HHHHHHHHHHHhcCCCCEEEEEc
Confidence 35689999999999999987654
No 325
>COG1245 Predicted ATPase, RNase L inhibitor (RLI) homolog [General function prediction only]
Probab=32.46 E-value=1.2e+02 Score=23.35 Aligned_cols=41 Identities=10% Similarity=0.046 Sum_probs=33.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
++|+|++--.-...+-.+...+-+-+++.++++-.++++|.
T Consensus 231 dADvY~FDEpsSyLDi~qRl~~ar~Irel~~~~k~ViVVEH 271 (591)
T COG1245 231 DADVYFFDEPSSYLDIRQRLNAARVIRELAEDGKYVIVVEH 271 (591)
T ss_pred cCCEEEEcCCcccccHHHHHHHHHHHHHHhccCCeEEEEec
Confidence 57888888777777777778888888888888888888886
No 326
>PF09400 DUF2002: Protein of unknown function (DUF2002); InterPro: IPR018994 This entry represents a group of putative cytoplasmic proteins. The structure of these proteins form an antiparallel beta sheet and contain some alpha helical regions. ; PDB: 2G7J_A.
Probab=32.24 E-value=51 Score=19.61 Aligned_cols=20 Identities=20% Similarity=0.177 Sum_probs=15.7
Q ss_pred HHHHHHHHHHcCCCceEEEE
Q 042267 76 KKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~ 95 (107)
..|..+.|+.+||+..-+.+
T Consensus 5 pdeva~vle~~gf~~d~v~~ 24 (111)
T PF09400_consen 5 PDEVARVLEKAGFERDYVTD 24 (111)
T ss_dssp HHHHHHHHHHTT-EEEEEET
T ss_pred hHHHHHHHHhcCceEEEeec
Confidence 57899999999999876653
No 327
>COG1724 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]
Probab=31.92 E-value=71 Score=17.30 Aligned_cols=21 Identities=19% Similarity=0.199 Sum_probs=17.5
Q ss_pred cCHHHHHHHHHHcCCCceEEE
Q 042267 74 RTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~~~~ 94 (107)
-+..|..+.|+.-||..++..
T Consensus 7 ~~~ke~ik~Le~~Gf~~vrqk 27 (66)
T COG1724 7 MKAKEVIKALEKDGFQLVRQK 27 (66)
T ss_pred CCHHHHHHHHHhCCcEEEEee
Confidence 457899999999999988663
No 328
>PF15072 DUF4539: Domain of unknown function (DUF4539)
Probab=31.70 E-value=45 Score=18.97 Aligned_cols=23 Identities=22% Similarity=0.245 Sum_probs=19.3
Q ss_pred HHHHHHHHhhCCCCCEEEEEeee
Q 042267 21 IKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
.+++++....|.+|+.|++-+.-
T Consensus 38 ~~v~~~y~~~l~~GavLlLk~V~ 60 (86)
T PF15072_consen 38 RKVLEEYGDELSPGAVLLLKDVT 60 (86)
T ss_pred HHHHhhcCCccccCEEEEEeeee
Confidence 47788888999999999998763
No 329
>PF01269 Fibrillarin: Fibrillarin; InterPro: IPR000692 Fibrillarin is a component of a nucleolar small nuclear ribonucleoprotein (SnRNP), functioning in vivo in ribosomal RNA processing [, ]. It is associated with U3, U8 and U13 small nuclear RNAs in mammals [] and is similar to the yeast NOP1 protein []. Fibrillarin has a well conserved sequence of around 320 amino acids, and contains 3 domains, an N-terminal Gly/Arg-rich region; a central domain resembling other RNA-binding proteins and containing an RNP-2-like consensus sequence; and a C-terminal alpha-helical domain. An evolutionarily related pre-rRNA processing protein, which lacks the Gly/Arg-rich domain, has been found in various archaebacteria.; GO: 0003723 RNA binding, 0008168 methyltransferase activity, 0006364 rRNA processing, 0008033 tRNA processing; PDB: 3PLA_E 3ID6_C 3ID5_B 1NT2_A 3NVK_J 2NNW_B 3NVM_B 3NMU_J 1PRY_A 1G8A_A ....
Probab=31.68 E-value=34 Score=23.24 Aligned_cols=67 Identities=13% Similarity=0.071 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEeee--CCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEE
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINST--LPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~ 95 (107)
+++.-++.|+..-|++||.+++.=-. .+... .+. ..+ ++-.+.|++.||+..+...
T Consensus 155 ~Qa~I~~~Na~~fLk~gG~~~i~iKa~siD~t~-~p~-----~vf----------------~~e~~~L~~~~~~~~e~i~ 212 (229)
T PF01269_consen 155 DQARIAALNARHFLKPGGHLIISIKARSIDSTA-DPE-----EVF----------------AEEVKKLKEEGFKPLEQIT 212 (229)
T ss_dssp THHHHHHHHHHHHEEEEEEEEEEEEHHHH-SSS-SHH-----HHH----------------HHHHHHHHCTTCEEEEEEE
T ss_pred HHHHHHHHHHHhhccCCcEEEEEEecCcccCcC-CHH-----HHH----------------HHHHHHHHHcCCChheEec
Confidence 44677889999999999998875211 11111 110 001 2224456668999998887
Q ss_pred cCC---ceeEEEEE
Q 042267 96 NVC---NSYVMEFY 106 (107)
Q Consensus 96 ~~~---~~~vi~~~ 106 (107)
+.+ .+.++.++
T Consensus 213 LePy~~dH~~vv~~ 226 (229)
T PF01269_consen 213 LEPYERDHAMVVGR 226 (229)
T ss_dssp -TTTSTTEEEEEEE
T ss_pred cCCCCCCcEEEEEE
Confidence 743 45666553
No 330
>PF08245 Mur_ligase_M: Mur ligase middle domain; InterPro: IPR013221 The bacterial cell wall provides strength and rigidity to counteract internal osmotic pressure, and protection against the environment. The peptidoglycan layer gives the cell wall its strength, and helps maintain the overall shape of the cell. The basic peptidoglycan structure of both Gram-positive and Gram-negative bacteria is comprised of a sheet of glycan chains connected by short cross-linking polypeptides. Biosynthesis of peptidoglycan is a multi-step (11-12 steps) process comprising three main stages: (1) formation of UDP-N-acetylmuramic acid (UDPMurNAc) from N-acetylglucosamine (GlcNAc). (2) addition of a short polypeptide chain to the UDPMurNAc. (3) addition of a second GlcNAc to the disaccharide-pentapeptide building block and transport of this unit through the cytoplasmic membrane and incorporation into the growing peptidoglycan layer. Stage two involves four key Mur ligase enzymes: MurC (6.3.2.8 from EC) [], MurD (6.3.2.9 from EC) [], MurE (6.3.2.13 from EC) [] and MurF (6.3.2.10 from EC) []. These four Mur ligases are responsible for the successive additions of L-alanine, D-glutamate, meso-diaminopimelate or L-lysine, and D-alanyl-D-alanine to UDP-N-acetylmuramic acid. All four Mur ligases are topologically similar to one another, even though they display low sequence identity. They are each composed of three domains: an N-terminal Rossmann-fold domain responsible for binding the UDPMurNAc substrate; a central domain (similar to ATP-binding domains of several ATPases and GTPases); and a C-terminal domain (similar to dihydrofolate reductase fold) that appears to be associated with binding the incoming amino acid. The conserved sequence motifs found in the four Mur enzymes also map to other members of the Mur ligase family, including folylpolyglutamate synthetase, cyanophycin synthetase and the capB enzyme from Bacillales []. This entry represents the C-terminal domain from all four stage 2 Mur enzymes: UDP-N-acetylmuramate-L-alanine ligase (MurC), UDP-N-acetylmuramoylalanine-D-glutamate ligase (MurD), UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase (MurE), and UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase (MurF). This entry also includes folylpolyglutamate synthase that transfers glutamate to folylpolyglutamate and cyanophycin synthetase that catalyses the biosynthesis of the cyanobacterial reserve material multi-L-arginyl-poly-L-aspartate (cyanophycin) [].; GO: 0005524 ATP binding, 0009058 biosynthetic process; PDB: 3LK7_A 2XJA_A 2WTZ_A 2GCA_A 1JBW_A 1JBV_A 2GC5_A 1FGS_A 2GCB_A 2GC6_A ....
Probab=31.62 E-value=1.3e+02 Score=18.82 Aligned_cols=39 Identities=10% Similarity=0.198 Sum_probs=22.8
Q ss_pred ceeEEEecccccC----CC-hHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHN----FD-DENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~----~~-d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
..|+.++-++-.+ ++ -++..+...++.+.++++|.+++.
T Consensus 71 ~p~i~viTni~~dH~~~~~s~~~~~~~k~~~~~~~~~~~~~v~n 114 (188)
T PF08245_consen 71 KPDIAVITNIGPDHLDRFGSIEEYAEAKAKIFRGLKPGGVAVLN 114 (188)
T ss_dssp BESEEEE----SSSHCCTSSHHHHHHHHHGGHTTTSTTSEEEEE
T ss_pred ehheeeeceecccccccCCCHHHHHHHHHhhhhhcccceEEEec
Confidence 3567777777644 22 244556666777888889988774
No 331
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=31.42 E-value=64 Score=23.64 Aligned_cols=22 Identities=18% Similarity=0.135 Sum_probs=17.6
Q ss_pred HHHHHHHHHhhCCCCCEEEEEe
Q 042267 20 CIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e 41 (107)
-..+++.+.+.|+|||.++..-
T Consensus 318 y~~l~~~a~~lLk~gG~lv~~s 339 (396)
T PRK15128 318 YKDINMLAIQLLNPGGILLTFS 339 (396)
T ss_pred HHHHHHHHHHHcCCCeEEEEEe
Confidence 3456677889999999998765
No 332
>TIGR01425 SRP54_euk signal recognition particle protein SRP54. This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.
Probab=31.17 E-value=1.3e+02 Score=22.44 Aligned_cols=43 Identities=9% Similarity=0.199 Sum_probs=27.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
+||+++.=-.=....|+...+-|+++.++..|.-.++++|...
T Consensus 182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~ 224 (429)
T TIGR01425 182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSI 224 (429)
T ss_pred CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEecccc
Confidence 4566665554444455555666777777777877777777543
No 333
>COG1795 Formaldehyde-activating enzyme nesessary for methanogenesis [Energy production and conversion]
Probab=31.04 E-value=38 Score=21.58 Aligned_cols=29 Identities=17% Similarity=0.161 Sum_probs=18.4
Q ss_pred eEEEecccccCCChHHHHHHHHHHHhhCC
Q 042267 4 YLSILQWMLHNFDDENCIKILRNCYKALP 32 (107)
Q Consensus 4 D~v~~~~vlh~~~d~~~~~iL~~~~~aL~ 32 (107)
|+++..+++-+++.++.+++.+.-|++.+
T Consensus 107 d~vvi~svfv~~~a~d~~kiY~ynY~A~k 135 (170)
T COG1795 107 DVVVIVSVFVHPEAEDKRKIYQYNYGATK 135 (170)
T ss_pred CEEEEEEeEeCcccccHHHHHHHhHHHHH
Confidence 56666666666666666777776666543
No 334
>COG0347 GlnK Nitrogen regulatory protein PII [Amino acid transport and metabolism]
Probab=30.97 E-value=94 Score=18.70 Aligned_cols=27 Identities=30% Similarity=0.441 Sum_probs=21.2
Q ss_pred CChHHHHHHHHHHHhhCCC----CCEEEEEe
Q 042267 15 FDDENCIKILRNCYKALPN----DGKVLVIN 41 (107)
Q Consensus 15 ~~d~~~~~iL~~~~~aL~p----gg~l~i~e 41 (107)
.+|+++..++..+.++++. +|++.+.+
T Consensus 65 V~de~ve~vie~I~~~a~tG~~GDGkIFV~~ 95 (112)
T COG0347 65 VSDEDVDEVIEAIKKAARTGKIGDGKIFVSP 95 (112)
T ss_pred EChHHHHHHHHHHHHHHhcCCCCCeEEEEEE
Confidence 4577788888888888884 39998876
No 335
>CHL00123 rps6 ribosomal protein S6; Validated
Probab=30.82 E-value=94 Score=17.87 Aligned_cols=30 Identities=20% Similarity=0.385 Sum_probs=24.7
Q ss_pred CCChHHHHHHHHHHHhhCCC-CCEEEEEeee
Q 042267 14 NFDDENCIKILRNCYKALPN-DGKVLVINST 43 (107)
Q Consensus 14 ~~~d~~~~~iL~~~~~aL~p-gg~l~i~e~~ 43 (107)
+.++++...++.++...+.. ||.+.-+|..
T Consensus 17 ~l~e~~~~~~~~~~~~~i~~~gg~i~~~~~w 47 (97)
T CHL00123 17 DLNEEELLKWIENYKKLLRKRGAKNISVQNR 47 (97)
T ss_pred CCCHHHHHHHHHHHHHHHHHCCCEEEEEEee
Confidence 56788899999999999976 7888777754
No 336
>PRK13300 tRNA CCA-pyrophosphorylase; Provisional
Probab=30.66 E-value=2e+02 Score=21.66 Aligned_cols=47 Identities=17% Similarity=0.269 Sum_probs=31.7
Q ss_pred CCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEEc
Q 042267 34 DGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 34 gg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
|..++++.+-.|+-+... .+ +.-.|+.+.+..+|+..||++++....
T Consensus 281 ~t~~~~v~f~~p~~v~Di-------l~---------pQl~r~~~~i~~~L~~~gF~v~~~~~~ 327 (447)
T PRK13300 281 GTTVLALEFPRPDIVEDI-------LY---------PQLERSLRSIVKLLEREGFEVLRSGAW 327 (447)
T ss_pred CceEEEEEeCCCCCCccc-------hh---------HHHHHHHHHHHHHHHHCCCEEEEeeee
Confidence 677777776655433221 11 333578899999999999999877433
No 337
>PRK00110 hypothetical protein; Validated
Probab=30.59 E-value=1.1e+02 Score=21.03 Aligned_cols=18 Identities=28% Similarity=0.447 Sum_probs=12.2
Q ss_pred HHHHHHHHHHcCCCceEE
Q 042267 76 KKEFTALAIEAGFKGINF 93 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~ 93 (107)
.+++...+-++|-+.++.
T Consensus 147 ~d~~~e~aieaGaeDv~~ 164 (245)
T PRK00110 147 EDELMEAALEAGAEDVET 164 (245)
T ss_pred HHHHHHHHHhCCCCEeec
Confidence 566777777788776643
No 338
>PF02153 PDH: Prephenate dehydrogenase; InterPro: IPR003099 Members of this family are prephenate dehydrogenases 1.3.1.12 from EC involved in tyrosine biosynthesis. ; GO: 0004665 prephenate dehydrogenase (NADP+) activity, 0008977 prephenate dehydrogenase activity, 0006571 tyrosine biosynthetic process, 0055114 oxidation-reduction process; PDB: 2F1K_B 2PV7_A 3DZB_B 3KTD_B 3B1F_A 2G5C_D 3GGP_C 3GGG_C 3GGO_D.
Probab=30.51 E-value=1.1e+02 Score=20.71 Aligned_cols=17 Identities=12% Similarity=0.085 Sum_probs=11.4
Q ss_pred HHHHHHHHHcCCCceEE
Q 042267 77 KEFTALAIEAGFKGINF 93 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~ 93 (107)
+.++++++..|.+.+..
T Consensus 140 ~~~~~l~~~~Ga~~~~~ 156 (258)
T PF02153_consen 140 ELVEELWEALGARVVEM 156 (258)
T ss_dssp HHHHHHHHHCT-EEEE-
T ss_pred HHHHHHHHHCCCEEEEc
Confidence 56788888889766544
No 339
>PF10726 DUF2518: Protein of function (DUF2518); InterPro: IPR019664 This entry contains the Ycf51 protein family, which is conserved in Cyanobacteria. The function is not known.
Probab=30.37 E-value=70 Score=20.16 Aligned_cols=25 Identities=16% Similarity=0.165 Sum_probs=21.8
Q ss_pred cCCChHHHHHHHHHHHhhCCCCCEE
Q 042267 13 HNFDDENCIKILRNCYKALPNDGKV 37 (107)
Q Consensus 13 h~~~d~~~~~iL~~~~~aL~pgg~l 37 (107)
-++++++...-|++++.-|+.+||.
T Consensus 89 ~~i~~~~leaTL~QaA~nL~s~GR~ 113 (145)
T PF10726_consen 89 PDITPEALEATLEQAASNLFSGGRS 113 (145)
T ss_pred CCCCHHHHHHHHHHHHHhccccCcc
Confidence 5788999999999999999987764
No 340
>PF05711 TylF: Macrocin-O-methyltransferase (TylF); InterPro: IPR008884 This family consists of bacterial macrocin O-methyltransferase (TylF) proteins. TylF is responsible for the methylation of macrocin to produce tylosin. Tylosin is a macrolide antibiotic used in veterinary medicine to treat infections caused by Gram-positive bacteria and as an animal growth promoter in the Sus scrofa (Pig) industry. It is produced by several Streptomyces species. As with other macrolides, the antibiotic activity of tylosin is due to the inhibition of protein biosynthesis by a mechanism that involves the binding of tylosin to the ribosome, preventing the formation of the mRNA-aminoacyl-tRNA-ribosome complex [].; PDB: 3TOS_D 2WK1_A.
Probab=30.28 E-value=23 Score=24.29 Aligned_cols=25 Identities=16% Similarity=0.150 Sum_probs=20.6
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
....|..++..|.|||.|++=|+..
T Consensus 191 T~~aLe~lyprl~~GGiIi~DDY~~ 215 (248)
T PF05711_consen 191 TKDALEFLYPRLSPGGIIIFDDYGH 215 (248)
T ss_dssp HHHHHHHHGGGEEEEEEEEESSTTT
T ss_pred HHHHHHHHHhhcCCCeEEEEeCCCC
Confidence 5788999999999999998755443
No 341
>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=30.17 E-value=95 Score=21.13 Aligned_cols=23 Identities=9% Similarity=0.162 Sum_probs=19.2
Q ss_pred CceecCHHHHHHHHHHcCCCceE
Q 042267 70 HGRERTKKEFTALAIEAGFKGIN 92 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~ 92 (107)
+|..++.+++.+++++.|..-+-
T Consensus 202 sGGv~s~eD~~~l~~~~GvdgVi 224 (258)
T PRK01033 202 LGGAGSLDDIVEAILNLGADAAA 224 (258)
T ss_pred eCCCCCHHHHHHHHHHCCCCEEE
Confidence 78899999999999888876553
No 342
>CHL00195 ycf46 Ycf46; Provisional
Probab=30.13 E-value=1.3e+02 Score=22.80 Aligned_cols=39 Identities=23% Similarity=0.267 Sum_probs=27.4
Q ss_pred eEEEecccccCCChHHHHHHHHHHHhhCCC-CCEEEEEee
Q 042267 4 YLSILQWMLHNFDDENCIKILRNCYKALPN-DGKVLVINS 42 (107)
Q Consensus 4 D~v~~~~vlh~~~d~~~~~iL~~~~~aL~p-gg~l~i~e~ 42 (107)
.++++..+=+.++++...+.|++++..++. +..++++.+
T Consensus 83 ~~~vl~d~h~~~~~~~~~r~l~~l~~~~~~~~~~~i~~~~ 122 (489)
T CHL00195 83 ALFLLKDFNRFLNDISISRKLRNLSRILKTQPKTIIIIAS 122 (489)
T ss_pred cEEEEecchhhhcchHHHHHHHHHHHHHHhCCCEEEEEcC
Confidence 366777664455777788999999988876 445666554
No 343
>PRK12378 hypothetical protein; Provisional
Probab=30.13 E-value=47 Score=22.59 Aligned_cols=14 Identities=7% Similarity=0.285 Sum_probs=10.5
Q ss_pred CCCCEEEEEeeeCC
Q 042267 32 PNDGKVLVINSTLP 45 (107)
Q Consensus 32 ~pgg~l~i~e~~~~ 45 (107)
.|||.-+|+|...+
T Consensus 88 gPgGvaiiVe~lTD 101 (235)
T PRK12378 88 GPNGVMVIVECLTD 101 (235)
T ss_pred cCCCcEEEEEECCC
Confidence 48888888886644
No 344
>PRK06853 indolepyruvate oxidoreductase subunit beta; Reviewed
Probab=29.98 E-value=1e+02 Score=19.87 Aligned_cols=17 Identities=29% Similarity=0.299 Sum_probs=12.9
Q ss_pred HHHHhhCCCCCEEEEEe
Q 042267 25 RNCYKALPNDGKVLVIN 41 (107)
Q Consensus 25 ~~~~~aL~pgg~l~i~e 41 (107)
.+..+.|+|||.+++-.
T Consensus 81 ~~~~~~lk~gg~ii~n~ 97 (197)
T PRK06853 81 LRYLPYLKKGGKVVVNT 97 (197)
T ss_pred HHHHHhcCCCcEEEEEC
Confidence 35667799999997764
No 345
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=29.93 E-value=94 Score=16.44 Aligned_cols=54 Identities=17% Similarity=0.172 Sum_probs=33.9
Q ss_pred HHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEEcCCce
Q 042267 21 IKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFECNVCNS 100 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~~~~~ 100 (107)
.-.+++..+.|++|+.|.|. .++ +. +.+++.+|.++.|++........+.+
T Consensus 13 vl~~kkal~~l~~G~~l~V~---~d~-~~-------------------------a~~di~~~~~~~G~~~~~~~~~~~~~ 63 (69)
T cd03420 13 ILKLKKEIDKLQDGEQLEVK---ASD-PG-------------------------FARDAQAWCKSTGNTLISLETEKGKV 63 (69)
T ss_pred HHHHHHHHHcCCCCCEEEEE---ECC-cc-------------------------HHHHHHHHHHHcCCEEEEEEecCCEE
Confidence 34466677778888876553 221 11 24677889999999988666554444
Q ss_pred eEE
Q 042267 101 YVM 103 (107)
Q Consensus 101 ~vi 103 (107)
.++
T Consensus 64 ~~~ 66 (69)
T cd03420 64 KAV 66 (69)
T ss_pred EEE
Confidence 443
No 346
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=29.85 E-value=1.4e+02 Score=18.46 Aligned_cols=6 Identities=17% Similarity=0.838 Sum_probs=3.1
Q ss_pred EEEEee
Q 042267 37 VLVINS 42 (107)
Q Consensus 37 l~i~e~ 42 (107)
++|+|.
T Consensus 85 ~viiDt 90 (173)
T cd03115 85 VVIVDT 90 (173)
T ss_pred EEEEEC
Confidence 555553
No 347
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=29.79 E-value=50 Score=16.60 Aligned_cols=14 Identities=21% Similarity=0.245 Sum_probs=11.8
Q ss_pred HHHHHHcCCCceEE
Q 042267 80 TALAIEAGFKGINF 93 (107)
Q Consensus 80 ~~ll~~aGf~~~~~ 93 (107)
.++|+..||.++.+
T Consensus 24 ~r~L~~~G~~Vi~I 37 (58)
T PF08373_consen 24 HRHLKALGYKVISI 37 (58)
T ss_pred HHHHHHCCCEEEEe
Confidence 67888999998876
No 348
>PRK05473 hypothetical protein; Provisional
Probab=29.73 E-value=45 Score=19.04 Aligned_cols=22 Identities=27% Similarity=0.486 Sum_probs=16.6
Q ss_pred CCChHHHHHHHHHHHhhCCCCC
Q 042267 14 NFDDENCIKILRNCYKALPNDG 35 (107)
Q Consensus 14 ~~~d~~~~~iL~~~~~aL~pgg 35 (107)
.-+..++..+|..+++||+.-|
T Consensus 14 ~~~~~~v~eiL~~Vy~AL~EKG 35 (86)
T PRK05473 14 DEKKKDVREILTTVYDALEEKG 35 (86)
T ss_pred cccHHHHHHHHHHHHHHHHHcC
Confidence 3344568999999999997543
No 349
>PLN03155 cytochrome c oxidase subunit 5C; Provisional
Probab=29.71 E-value=59 Score=17.30 Aligned_cols=29 Identities=21% Similarity=0.579 Sum_probs=19.9
Q ss_pred ccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 10 WMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 10 ~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
|=.|+|+. ++=-+..++.|..|-.=++.|
T Consensus 34 WKmhHWn~---qrkt~~fY~~LekgeisVv~~ 62 (63)
T PLN03155 34 WKMHHWNE---QRKTRSFYDLLEKGEISVVVE 62 (63)
T ss_pred HHHhhhhh---HHHHHHHHHHHhcCceEEeec
Confidence 34689988 456678888888775544443
No 350
>KOG3330 consensus Transport protein particle (TRAPP) complex subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=29.31 E-value=34 Score=21.99 Aligned_cols=35 Identities=26% Similarity=0.253 Sum_probs=25.5
Q ss_pred CceeEEEecccccCCC-hHHHHHHHHHHHhhCCCCC
Q 042267 1 MQVYLSILQWMLHNFD-DENCIKILRNCYKALPNDG 35 (107)
Q Consensus 1 ~~~D~v~~~~vlh~~~-d~~~~~iL~~~~~aL~pgg 35 (107)
|.+|+++.+.++..=+ -+-.+++++.+.+.+++|+
T Consensus 147 m~~dv~f~~d~lrGd~~tEIrv~f~r~lkde~P~ge 182 (183)
T KOG3330|consen 147 MKVDVVFLSDTLRGDSVTEIRVRFLRILKDELPAGE 182 (183)
T ss_pred hhheeeeeeehhcCCCceeeeeeHHHHHhhhcCCCC
Confidence 4678888888885444 2336788888888888774
No 351
>KOG1663 consensus O-methyltransferase [Secondary metabolites biosynthesis, transport and catabolism]
Probab=29.23 E-value=1.2e+02 Score=20.75 Aligned_cols=33 Identities=18% Similarity=0.186 Sum_probs=23.6
Q ss_pred cCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCC
Q 042267 13 HNFDDENCIKILRNCYKALPNDGKVLVINSTLPE 46 (107)
Q Consensus 13 h~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~ 46 (107)
-+|.+. ......++-+.+++||.|++-....+.
T Consensus 156 DadK~n-Y~~y~e~~l~Llr~GGvi~~DNvl~~G 188 (237)
T KOG1663|consen 156 DADKDN-YSNYYERLLRLLRVGGVIVVDNVLWPG 188 (237)
T ss_pred ccchHH-HHHHHHHHHhhcccccEEEEeccccCC
Confidence 344444 568899999999999998765544443
No 352
>PF05046 Img2: Mitochondrial large subunit ribosomal protein (Img2); InterPro: IPR007740 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family of proteins has been identified as part of the mitochondrial large ribosomal subunit in Saccharomyces cerevisiae [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome
Probab=29.14 E-value=52 Score=18.59 Aligned_cols=13 Identities=31% Similarity=0.529 Sum_probs=11.8
Q ss_pred HHHHHHHHHHcCC
Q 042267 76 KKEFTALAIEAGF 88 (107)
Q Consensus 76 ~~e~~~ll~~aGf 88 (107)
.+++++||.+.||
T Consensus 75 ~~~Vk~wL~~~GF 87 (87)
T PF05046_consen 75 VEEVKKWLLEKGF 87 (87)
T ss_pred HHHHHHHHHHCcC
Confidence 5899999999998
No 353
>PF09827 CRISPR_Cas2: CRISPR associated protein Cas2; InterPro: IPR019199 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. Members of this family of bacterial proteins comprise various hypothetical proteins, as well as CRISPR (clustered regularly interspaced short palindromic repeats) associated proteins, conferring resistance to infection by certain bacteriophages. ; PDB: 3EXC_X 2I0X_A 3OQ2_B 3UI3_A 1ZPW_X 2I8E_A 2IVY_A.
Probab=29.11 E-value=1e+02 Score=16.58 Aligned_cols=30 Identities=17% Similarity=0.203 Sum_probs=23.6
Q ss_pred CCChHHHHHHHHHHHhhCCCC-CEEEEEeee
Q 042267 14 NFDDENCIKILRNCYKALPND-GKVLVINST 43 (107)
Q Consensus 14 ~~~d~~~~~iL~~~~~aL~pg-g~l~i~e~~ 43 (107)
..+..+..++.+++.+.+.|+ +.+.+....
T Consensus 38 ~~~~~~~~~l~~~l~~~i~~~~d~i~i~~l~ 68 (78)
T PF09827_consen 38 NLTNAELRKLRRELEKLIDPDEDSIRIYPLC 68 (78)
T ss_dssp EE-HHHHHHHHHHHHHHSCTTTCEEEEEEEE
T ss_pred EcCHHHHHHHHHHHHhhCCCCCCEEEEEEeC
Confidence 346677789999999999998 999887643
No 354
>COG1187 RsuA 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]
Probab=29.07 E-value=64 Score=22.17 Aligned_cols=20 Identities=5% Similarity=0.159 Sum_probs=17.6
Q ss_pred HHHHHHHHHcCCCceEEEEc
Q 042267 77 KEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~~~~ 96 (107)
-+++++++..||++.+..++
T Consensus 194 rQVRRm~~a~G~~V~~L~R~ 213 (248)
T COG1187 194 RQVRRMFEAVGLEVLRLKRI 213 (248)
T ss_pred HHHHHHHHHcCCEEeEEEEE
Confidence 47899999999999988776
No 355
>cd03319 L-Ala-DL-Glu_epimerase L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of the murein peptide of peptidoglycan, of which L-Ala-D-Glu is a component. L-Ala-D/L-Glu epimerase is a member of the enolase-superfamily, which is characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion.
Probab=28.98 E-value=1.5e+02 Score=20.64 Aligned_cols=26 Identities=19% Similarity=0.221 Sum_probs=19.4
Q ss_pred CceecCHHHHHHHHHHcCCCceEEEE
Q 042267 70 HGRERTKKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~~~~ 95 (107)
+....+..++++++++.+...+.+.+
T Consensus 234 ~E~~~~~~~~~~~~~~~~~d~v~~~~ 259 (316)
T cd03319 234 DESCFSAADAARLAGGGAYDGINIKL 259 (316)
T ss_pred eCCCCCHHHHHHHHhcCCCCEEEEec
Confidence 55668888999999877777666543
No 356
>COG1889 NOP1 Fibrillarin-like rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=28.79 E-value=1.9e+02 Score=19.64 Aligned_cols=71 Identities=13% Similarity=0.101 Sum_probs=40.1
Q ss_pred CCC-hHHHHHHHHHHHhhCCCCCEEEEE-ee-eCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCc
Q 042267 14 NFD-DENCIKILRNCYKALPNDGKVLVI-NS-TLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKG 90 (107)
Q Consensus 14 ~~~-d~~~~~iL~~~~~aL~pgg~l~i~-e~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~ 90 (107)
|.. .+++.-+..|+..-|++||.+++. -. ..+... ++ . .. + ..| ...|++.||++
T Consensus 152 DVAQp~Qa~I~~~Na~~FLk~~G~~~i~iKArSIdvT~-dp-~----~v--------f-------~~e-v~kL~~~~f~i 209 (231)
T COG1889 152 DVAQPNQAEILADNAEFFLKKGGYVVIAIKARSIDVTA-DP-E----EV--------F-------KDE-VEKLEEGGFEI 209 (231)
T ss_pred ecCCchHHHHHHHHHHHhcccCCeEEEEEEeecccccC-CH-H----HH--------H-------HHH-HHHHHhcCcee
Confidence 444 344666788999999999866553 21 112111 11 0 00 1 123 34566689999
Q ss_pred eEEEEcCC---ceeEEEEE
Q 042267 91 INFECNVC---NSYVMEFY 106 (107)
Q Consensus 91 ~~~~~~~~---~~~vi~~~ 106 (107)
.+...+.+ .|.+|.++
T Consensus 210 ~e~~~LePye~DH~~i~~~ 228 (231)
T COG1889 210 LEVVDLEPYEKDHALIVAK 228 (231)
T ss_pred eEEeccCCcccceEEEEEe
Confidence 98887743 46666654
No 357
>PF14117 DUF4287: Domain of unknown function (DUF4287)
Probab=28.77 E-value=65 Score=17.10 Aligned_cols=15 Identities=47% Similarity=0.574 Sum_probs=11.0
Q ss_pred ecCHHHHHHHHHHcC
Q 042267 73 ERTKKEFTALAIEAG 87 (107)
Q Consensus 73 ~rt~~e~~~ll~~aG 87 (107)
-++.++|.+++++.|
T Consensus 14 Gk~~~~W~~~~~~~~ 28 (61)
T PF14117_consen 14 GKTLDEWLALAREGG 28 (61)
T ss_pred CcCHHHHHHHHHHhC
Confidence 367788888888773
No 358
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=28.76 E-value=62 Score=16.67 Aligned_cols=16 Identities=25% Similarity=0.216 Sum_probs=13.1
Q ss_pred CHHHHHHHHHHcCCCc
Q 042267 75 TKKEFTALAIEAGFKG 90 (107)
Q Consensus 75 t~~e~~~ll~~aGf~~ 90 (107)
+.+...+.|+++||++
T Consensus 49 ~~~~~~~~L~~~G~~v 64 (66)
T cd04908 49 DPDKAKEALKEAGFAV 64 (66)
T ss_pred CHHHHHHHHHHCCCEE
Confidence 3568889999999985
No 359
>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=28.75 E-value=2.2e+02 Score=20.32 Aligned_cols=70 Identities=16% Similarity=0.140 Sum_probs=34.2
Q ss_pred HHHHHHHhhCCCCCEEEEEeeeCCCCCCCch-hhh-hhhh-hcHHHHhhCCCc--------------eecCHHHHHHHHH
Q 042267 22 KILRNCYKALPNDGKVLVINSTLPEVPDSTE-ASR-DSFI-LDAIFLIQIPHG--------------RERTKKEFTALAI 84 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~-~~~-~~~~-~~~~~~~~~~~g--------------~~rt~~e~~~ll~ 84 (107)
.+|+.=++=|+|||++++.=...++...... ... ...+ .-+.-|+. .| -.++.+|+++.++
T Consensus 164 ~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~~~~~~l~~~l~dMv~--eGlI~~ek~dsfniP~Y~ps~eEv~~~I~ 241 (334)
T PF03492_consen 164 SFLKARAEELVPGGRMVLTFLGRDEEDPSSTGSCMLWDLLADALRDMVA--EGLISEEKVDSFNIPIYFPSPEEVRAIIE 241 (334)
T ss_dssp HHHHHHHHHEEEEEEEEEEEEE-STSSTTSTTCCCHHHHHHHHHHHHHH--TTSS-HCCCCTG--SBB---HHHHHHHHH
T ss_pred HHHHHhhheeccCcEEEEEEeeccccccccCCcchHHHHHHHHHHHHHH--cCCcCHHHhhceeCCccCCCHHHHHHHHh
Confidence 3444444668999999998766655211100 000 0001 11111221 23 2489999999999
Q ss_pred HcC-CCceEE
Q 042267 85 EAG-FKGINF 93 (107)
Q Consensus 85 ~aG-f~~~~~ 93 (107)
+.| |++.++
T Consensus 242 ~~gsF~I~~l 251 (334)
T PF03492_consen 242 EEGSFEIEKL 251 (334)
T ss_dssp HHTSEEEEEE
T ss_pred cCCCEEEEEE
Confidence 765 555433
No 360
>COG1243 ELP3 Histone acetyltransferase [Transcription / Chromatin structure and dynamics]
Probab=28.73 E-value=2.7e+02 Score=21.35 Aligned_cols=31 Identities=23% Similarity=0.138 Sum_probs=28.3
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALP 32 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~ 32 (107)
.++++++...+-..+.+-...+++.+.+||.
T Consensus 134 KvEliimGGTFta~~~~yqe~Fi~~~~~amn 164 (515)
T COG1243 134 KVELIIMGGTFTALSLEYQEWFLKVALKAMN 164 (515)
T ss_pred eEEEEEecccccCCCHHHHHHHHHHHHHhhh
Confidence 3578999999999999889999999999999
No 361
>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=28.73 E-value=1.4e+02 Score=22.02 Aligned_cols=43 Identities=12% Similarity=0.042 Sum_probs=28.5
Q ss_pred ceeEEEeccc-ccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 2 QVYLSILQWM-LHNFDDENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 2 ~~D~v~~~~v-lh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
++|+++.+-+ +-.-.+++..+.++++.+.-+|+.++++.-.+.
T Consensus 27 ~ADv~iiNTC~v~~~a~~k~~~~i~~~~~~~~~~~~ivv~GC~a 70 (420)
T PRK14339 27 EADLILINTCSVREKPVHKLFSEIGQFNKIKKEGAKIGVCGCTA 70 (420)
T ss_pred cCCEEEEeccCccchHHHHHHHHHHHHHHhhCCCCeEEEECCcc
Confidence 4788887664 344455666777777766567788887777543
No 362
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.69 E-value=53 Score=16.45 Aligned_cols=15 Identities=13% Similarity=0.060 Sum_probs=13.0
Q ss_pred HHHHHHHHHHcCCCc
Q 042267 76 KKEFTALAIEAGFKG 90 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~ 90 (107)
.+...+.|+++||++
T Consensus 50 ~~~~~~~L~~~G~~v 64 (65)
T cd04882 50 IEKAIEVLQERGVEL 64 (65)
T ss_pred HHHHHHHHHHCCceE
Confidence 678899999999975
No 363
>cd01414 SAICAR_synt_Sc non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase. Eukaryotic, bacterial, and archaeal group of SAICAR synthetases represented by the Saccharomyces cerevisiae (Sc) enzyme, mostly absent in metazoans. SAICAR synthetase catalyzes the seventh step of the de novo biosynthesis of purine nucleotides (also reported as eighth step). It converts 5-aminoimidazole-4-carboxyribonucleotide (CAIR), ATP, and L-aspartate into 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR), ADP, and phosphate.
Probab=28.56 E-value=1e+02 Score=21.55 Aligned_cols=49 Identities=12% Similarity=0.117 Sum_probs=29.6
Q ss_pred CCEEEEEeee-CCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCce
Q 042267 34 DGKVLVINST-LPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 34 gg~l~i~e~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~ 91 (107)
+|.|+++|.+ .|++- ++|+....-....-...+.+-+++|+...|+...
T Consensus 202 ~g~ivL~DEi~TPDs~---------R~W~~~~~~~g~~~~~lDK~~~R~~l~~~~~~~~ 251 (279)
T cd01414 202 NGEIILIDEVLTPDSS---------RFWPADSYEPGKEQPSFDKQFVRDWLEASGWDKQ 251 (279)
T ss_pred CCcEEEEEecCCCCcc---------eeeeccccccCCCccccChHHHHHHHHhcCCCcc
Confidence 5888888888 44431 2344321100001135888999999999998753
No 364
>PF08149 BING4CT: BING4CT (NUC141) domain; InterPro: IPR012952 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This C-terminal domain is found in the BING4 family of nucleolar WD40 repeat proteins [].
Probab=28.56 E-value=77 Score=17.87 Aligned_cols=19 Identities=16% Similarity=0.254 Sum_probs=15.7
Q ss_pred CCceecCHHHHHHHHHHcC
Q 042267 69 PHGRERTKKEFTALAIEAG 87 (107)
Q Consensus 69 ~~g~~rt~~e~~~ll~~aG 87 (107)
...+.|.+.|.++||++.-
T Consensus 54 et~kqRrE~EV~~LLeKip 72 (80)
T PF08149_consen 54 ETKKQRREREVRSLLEKIP 72 (80)
T ss_pred cchhHHhHHHHHHHHHhCC
Confidence 3678899999999998753
No 365
>PF01709 Transcrip_reg: Transcriptional regulator; InterPro: IPR002876 This entry represents the core region of several hypothetical proteins found in bacteria, plants, and yeast proteins. This core region can be subdivided into three domains: a 3-helical bundle domain, and two alpha+beta domains with different folds, where domain 3 (ferredoxin-like fold) is inserted within domain 2. This core region is found in the following hypothetical proteins: YebC from Escherichia coli, HP0162 from Helicobacter pylori (Campylobacter pylori) and aq1575 from Aquifex aeolicus []. The crystal structure of a conserved hypothetical protein, Aq1575, from Aquifex aeolicus has been determined. A structural homology search reveals that this protein has a new fold with no obvious similarity to those of other proteins of known three-dimensional structure. The protein reveals a monomer consisting of three domains arranged along a pseudo threefold symmetry axis. There is a large cleft with approximate dimensions of 10 A x 10 A x 20 A in the centre of the three domains along the symmetry axis. Two possible active sites are suggested based on the structure and multiple sequence alignment. There are several highly conserved residues in these putative active sites [].; PDB: 1LFP_A 1MW7_A 1KON_A.
Probab=28.38 E-value=24 Score=23.88 Aligned_cols=14 Identities=7% Similarity=0.223 Sum_probs=9.3
Q ss_pred CCCCEEEEEeeeCC
Q 042267 32 PNDGKVLVINSTLP 45 (107)
Q Consensus 32 ~pgg~l~i~e~~~~ 45 (107)
.|||..+|+|...+
T Consensus 87 gP~Gvaiive~lTD 100 (234)
T PF01709_consen 87 GPGGVAIIVECLTD 100 (234)
T ss_dssp ETTTEEEEEEEEES
T ss_pred cCCCcEEEEEEeCC
Confidence 36777777776543
No 366
>PF09863 DUF2090: Uncharacterized protein conserved in bacteria (DUF2090); InterPro: IPR018659 This domain, found in various prokaryotic carbohydrate kinases, has no known function.
Probab=28.37 E-value=80 Score=22.53 Aligned_cols=29 Identities=24% Similarity=0.273 Sum_probs=24.6
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCC
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVP 48 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~ 48 (107)
-.+-|++++++++..|.=++.|.+.|.+.
T Consensus 161 Qe~~l~~l~~ac~~sg~ElLLEvI~p~~~ 189 (311)
T PF09863_consen 161 QEAQLRRLYDACRRSGHELLLEVIPPKDM 189 (311)
T ss_pred HHHHHHHHHHHHHhcCcceeEEEecCCCC
Confidence 35668999999999999999999987664
No 367
>PF13277 YmdB: YmdB-like protein; PDB: 2CV9_B 2Z06_C.
Probab=28.11 E-value=32 Score=23.71 Aligned_cols=30 Identities=13% Similarity=0.158 Sum_probs=20.5
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPN 33 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~p 33 (107)
+.|++.+.| |-|+..+...+|.+..+.|+|
T Consensus 56 GvDviT~GN--H~wdkkei~~~i~~~~~ilRP 85 (253)
T PF13277_consen 56 GVDVITMGN--HIWDKKEIFDFIDKEPRILRP 85 (253)
T ss_dssp T-SEEE--T--TTTSSTTHHHHHHH-SSEE--
T ss_pred CCCEEecCc--ccccCcHHHHHHhcCCCcEEC
Confidence 568888887 778888899999998888886
No 368
>PF00786 PBD: P21-Rho-binding domain; InterPro: IPR000095 The molecular bases of the versatile functions of Rho-like GTPases are still unknown. Small domains that bind Cdc42p- and/or Rho-like small GTPases. Also known as the Cdc42/Rac interactive binding (CRIB). The Cdc42/Rac interactive binding (CRIB) region has been shown to inhibit transcriptional activation and cell transformation mediated by the Ras-Rac pathway []. In fission yeast pak1+ encodes a protein kinase that interacts with Cdc42p and is involved in the control of cell polarity and mating [].; GO: 0005515 protein binding; PDB: 2OV2_O 1EES_B 2ODB_B 1E0A_B 2QME_I 1F3M_B 3PCS_H 1T84_A 2K42_A 1EJ5_A ....
Probab=28.09 E-value=48 Score=17.18 Aligned_cols=20 Identities=15% Similarity=0.190 Sum_probs=14.6
Q ss_pred cCHHHHHHHHHHcCCCceEE
Q 042267 74 RTKKEFTALAIEAGFKGINF 93 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~~~ 93 (107)
--.++|+.+|..+|.+..+.
T Consensus 25 glp~ew~~~l~~~~it~~~~ 44 (59)
T PF00786_consen 25 GLPPEWEKLLKSSGITEEEI 44 (59)
T ss_dssp S--HHHHHHHHSCTTSHHHH
T ss_pred cCCHHHHhhccccCCCHHHh
Confidence 34689999999999876543
No 369
>PF09286 Pro-kuma_activ: Pro-kumamolisin, activation domain ; InterPro: IPR015366 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. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found at the N terminus of peptidases belonging to MEROPS peptidase family S53 (sedolisin, clan SB). The domain adopts a ferredoxin-like fold, with an alpha+beta sandwich. Cleavage of the domain results in activation of the peptidase []. ; GO: 0008236 serine-type peptidase activity; PDB: 1T1E_A 3EDY_A 3EE6_A.
Probab=28.04 E-value=68 Score=19.53 Aligned_cols=20 Identities=5% Similarity=0.074 Sum_probs=15.3
Q ss_pred CHHHHHHHHHHcCCCceEEE
Q 042267 75 TKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 75 t~~e~~~ll~~aGf~~~~~~ 94 (107)
+.+.+.+||++.|++...+.
T Consensus 63 ~v~~V~~wL~~~G~~~~~~~ 82 (143)
T PF09286_consen 63 DVAAVKSWLKSHGLTVVEVS 82 (143)
T ss_dssp HHHHHHHHHHHCT-EEEEEE
T ss_pred HHHHHHHHHHHcCCceeEEe
Confidence 45788999999999988744
No 370
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=27.84 E-value=65 Score=15.17 Aligned_cols=18 Identities=6% Similarity=0.174 Sum_probs=13.1
Q ss_pred ccccCCChHHHHHHHHHH
Q 042267 10 WMLHNFDDENCIKILRNC 27 (107)
Q Consensus 10 ~vlh~~~d~~~~~iL~~~ 27 (107)
.|+++.+.+++..|+.-+
T Consensus 17 ~Vfd~v~~~Ka~~im~lA 34 (36)
T PF06200_consen 17 CVFDDVPPDKAQEIMLLA 34 (36)
T ss_pred EEeCCCCHHHHHHHHHHh
Confidence 366778888888887643
No 371
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=27.41 E-value=66 Score=16.54 Aligned_cols=15 Identities=20% Similarity=0.383 Sum_probs=12.4
Q ss_pred HHHHHHHHHHcCCCc
Q 042267 76 KKEFTALAIEAGFKG 90 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~ 90 (107)
.+...+.|+++||++
T Consensus 55 ~~~~~~~L~~~G~~v 69 (69)
T cd04909 55 RERAKEILKEAGYEV 69 (69)
T ss_pred HHHHHHHHHHcCCcC
Confidence 468899999999964
No 372
>PRK08195 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated
Probab=27.28 E-value=2.2e+02 Score=20.37 Aligned_cols=38 Identities=16% Similarity=-0.038 Sum_probs=29.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i 39 (107)
++|.+.+....-...+++..++++.+++.++|+-.+=+
T Consensus 157 Ga~~i~i~DT~G~~~P~~v~~~v~~l~~~l~~~i~ig~ 194 (337)
T PRK08195 157 GAQCVYVVDSAGALLPEDVRDRVRALRAALKPDTQVGF 194 (337)
T ss_pred CCCEEEeCCCCCCCCHHHHHHHHHHHHHhcCCCCeEEE
Confidence 46777888888778888888888888888877765544
No 373
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=27.23 E-value=1.4e+02 Score=19.52 Aligned_cols=34 Identities=6% Similarity=-0.108 Sum_probs=16.3
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHh--hCCCCCEEEE
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYK--ALPNDGKVLV 39 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~--aL~pgg~l~i 39 (107)
||+|++.=-.+.--. ..+++.+.+ .|+|++.+++
T Consensus 122 fDlV~~DPPy~~g~~---~~~l~~l~~~~~l~~~~iv~v 157 (199)
T PRK10909 122 HNVVFVDPPFRKGLL---EETINLLEDNGWLADEALIYV 157 (199)
T ss_pred ceEEEECCCCCCChH---HHHHHHHHHCCCcCCCcEEEE
Confidence 677666544322112 233444443 3677665544
No 374
>KOG3451 consensus Uncharacterized conserved protein [Function unknown]
Probab=26.90 E-value=70 Score=17.41 Aligned_cols=25 Identities=12% Similarity=0.203 Sum_probs=20.4
Q ss_pred hHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 17 DENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 17 d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
|....+++-++-..+.+|.+++|-|
T Consensus 13 Dp~~kqlilnmd~sm~~~skfii~e 37 (71)
T KOG3451|consen 13 DPAFKQLILNMDDSMQLGSKFIIEE 37 (71)
T ss_pred ChhHHHHhhhccccCCCCCCeeEEE
Confidence 4556788889999999999998855
No 375
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=26.86 E-value=90 Score=17.96 Aligned_cols=21 Identities=14% Similarity=0.112 Sum_probs=9.8
Q ss_pred HHHHHHHHHhhCCCCCEEEEEe
Q 042267 20 CIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e 41 (107)
..++.+. .+...|+.++++--
T Consensus 68 ~~~l~~~-~k~~~p~~~iv~GG 88 (121)
T PF02310_consen 68 AKRLARA-IKERNPNIPIVVGG 88 (121)
T ss_dssp HHHHHHH-HHTTCTTSEEEEEE
T ss_pred HHHHHHH-HHhcCCCCEEEEEC
Confidence 3444444 34445555555543
No 376
>PF00536 SAM_1: SAM domain (Sterile alpha motif); InterPro: IPR021129 The sterile alpha motif (SAM) domain is a putative protein interaction module present in a wide variety of proteins [] involved in many biological processes. The SAM domain that spreads over around 70 residues is found in diverse eukaryotic organisms []. SAM domains have been shown to homo- and hetero-oligomerise, forming multiple self-association architectures and also binding to various non-SAM domain-containing proteins [], nevertheless with a low affinity constant []. SAM domains also appear to possess the ability to bind RNA []. Smaug, a protein that helps to establish a morphogen gradient in Drosophila embryos by repressing the translation of nanos (nos) mRNA, binds to the 3' untranslated region (UTR) of nos mRNA via two similar hairpin structures. The 3D crystal structure of the Smaug RNA-binding region shows a cluster of positively charged residues on the Smaug-SAM domain, which could be the RNA-binding surface. This electropositive potential is unique among all previously determined SAM-domain structures and is conserved among Smaug-SAM homologs. These results suggest that the SAM domain might have a primary role in RNA binding. Structural analyses show that the SAM domain is arranged in a small five-helix bundle with two large interfaces []. In the case of the SAM domain of EphB2, each of these interfaces is able to form dimers. The presence of these two distinct intermonomers binding surface suggest that SAM could form extended polymeric structures []. This entry represents type 1 SAM domains. ; PDB: 2KIV_A 3HIL_B 3KKA_A 3K1R_B 3SEN_B 3SEI_B 1V85_A 2KE7_A 2EAM_A 1WWV_A ....
Probab=26.72 E-value=62 Score=16.54 Aligned_cols=18 Identities=6% Similarity=0.128 Sum_probs=13.1
Q ss_pred cCHHHHHHHHHHcCCCce
Q 042267 74 RTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~ 91 (107)
.+.+++.+||+..|+..+
T Consensus 3 W~~~~V~~WL~~~~l~~y 20 (64)
T PF00536_consen 3 WSVEDVSEWLKSLGLEQY 20 (64)
T ss_dssp TSHHHHHHHHHHTTGGGG
T ss_pred CCHHHHHHHHHHCCCHHH
Confidence 356788888888887654
No 377
>TIGR03671 cca_archaeal CCA-adding enzyme.
Probab=26.67 E-value=1.1e+02 Score=22.64 Aligned_cols=23 Identities=22% Similarity=0.442 Sum_probs=19.6
Q ss_pred eecCHHHHHHHHHHcCCCceEEE
Q 042267 72 RERTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 72 ~~rt~~e~~~ll~~aGf~~~~~~ 94 (107)
-.|+.+.+..+|+..||++++..
T Consensus 300 l~r~~~~i~~~L~~~gF~v~r~~ 322 (408)
T TIGR03671 300 LERSGRSLVKLLEREGFEVLRYG 322 (408)
T ss_pred HHHHHHHHHHHHHHCCCEEEEee
Confidence 35788999999999999998764
No 378
>cd07986 LPLAT_ACT14924-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are uncharacterized phospholipid/glycerol acyltransferases such as the Pectobacterium carotovorum subsp. carotovorum PC1 locus ACT14924 putative acyltransferase, and similar proteins.
Probab=26.66 E-value=91 Score=20.29 Aligned_cols=22 Identities=23% Similarity=0.459 Sum_probs=18.2
Q ss_pred HHHHHHHHHHhhCCCCCEEEEE
Q 042267 19 NCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 19 ~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
...+.++++.++|+.|+.++|.
T Consensus 83 ~~~~~~~~~~~~L~~G~~l~IF 104 (210)
T cd07986 83 KNRESLREALRHLKNGGALIIF 104 (210)
T ss_pred hhHHHHHHHHHHHhCCCEEEEE
Confidence 4578899999999999888664
No 379
>cd00173 SH2 Src homology 2 domains; Signal transduction, involved in recognition of phosphorylated tyrosine (pTyr). SH2 domains typically bind pTyr-containing ligands via two surface pockets, a pTyr and hydrophobic binding pocket, allowing proteins with SH2 domains to localize to tyrosine phosphorylated sites.
Probab=26.66 E-value=99 Score=16.87 Aligned_cols=24 Identities=25% Similarity=0.416 Sum_probs=16.2
Q ss_pred cCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 13 HNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 13 h~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
-.++.+++.++|++ .+.|..+|=+
T Consensus 5 g~i~r~~Ae~~L~~-----~~~G~FLiR~ 28 (94)
T cd00173 5 GPISREEAEELLKK-----KPDGTFLVRD 28 (94)
T ss_pred cCCCHHHHHHHHhc-----CCCceEEEEe
Confidence 45677888888887 4555655544
No 380
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=26.55 E-value=66 Score=19.51 Aligned_cols=26 Identities=27% Similarity=0.289 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 17 DENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 17 d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
.+...+..+.+.++++.||+|+++-.
T Consensus 18 ~~~i~~aa~~i~~~~~~gg~i~~~G~ 43 (138)
T PF13580_consen 18 AEAIEKAADLIAEALRNGGRIFVCGN 43 (138)
T ss_dssp HHHHHHHHHHHHHHHHTT--EEEEES
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEcC
Confidence 34466777788888899999999864
No 381
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=26.55 E-value=65 Score=25.20 Aligned_cols=32 Identities=9% Similarity=0.177 Sum_probs=26.5
Q ss_pred CceecCHHHHHHHHHHcCCCceEEEEcCCcee
Q 042267 70 HGRERTKKEFTALAIEAGFKGINFECNVCNSY 101 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~~~~~~~~~~ 101 (107)
-|...+.+++...|.+.||+.......+|.++
T Consensus 163 ~G~~i~~~~l~~~L~~~GY~r~~~v~~~GeFs 194 (652)
T PRK05298 163 VGQEIDRRELLRRLVDLQYERNDIDFQRGTFR 194 (652)
T ss_pred CCCCcCHHHHHHHHHHcCCcccCccCCCceEE
Confidence 67889999999999999999988766655553
No 382
>COG5443 FlbT Flagellar biosynthesis regulator FlbT [Cell motility and secretion]
Probab=26.28 E-value=1.3e+02 Score=18.75 Aligned_cols=25 Identities=20% Similarity=0.259 Sum_probs=14.4
Q ss_pred hcHHHHhhCCCceecCHHHHHHHHH
Q 042267 60 LDAIFLIQIPHGRERTKKEFTALAI 84 (107)
Q Consensus 60 ~~~~~~~~~~~g~~rt~~e~~~ll~ 84 (107)
|-..||...+.|.+...+++++-+.
T Consensus 59 F~aqmmlinp~gaeq~~~~F~~~l~ 83 (148)
T COG5443 59 FIAQMMLINPAGAEQATEMFRKSLN 83 (148)
T ss_pred HHHHHHhcCHhhHHHHHHHHHHHHH
Confidence 3334444455677766677766554
No 383
>PRK14755 transcriptional regulatory protein PufK; Provisional
Probab=26.26 E-value=33 Score=14.47 Aligned_cols=13 Identities=15% Similarity=0.282 Sum_probs=8.5
Q ss_pred HHHHhhCCCCCEE
Q 042267 25 RNCYKALPNDGKV 37 (107)
Q Consensus 25 ~~~~~aL~pgg~l 37 (107)
+.+...|+.||..
T Consensus 10 qhvasvlrsgg~~ 22 (26)
T PRK14755 10 QHVASVLRSGGXX 22 (26)
T ss_pred HHHHHHHHcCCcc
Confidence 4566777777754
No 384
>PF05185 PRMT5: PRMT5 arginine-N-methyltransferase; InterPro: IPR007857 The human homologue of Saccharomyces cerevisiae Skb1 (Shk1 kinase-binding protein 1) is a protein methyltransferase []. These proteins seem to play a role in Jak signalling.; GO: 0008168 methyltransferase activity, 0005737 cytoplasm; PDB: 2Y1W_C 2Y1X_D 2V7E_B 2V74_H 3R0Q_G 3B3F_B 3B3J_A 3B3G_A 3UA3_A 3UA4_B ....
Probab=26.18 E-value=56 Score=24.39 Aligned_cols=36 Identities=22% Similarity=0.298 Sum_probs=21.6
Q ss_pred ceeEEEecccccCCCh-HHHHHHHHHHHhhCCCCCEEE
Q 042267 2 QVYLSILQWMLHNFDD-ENCIKILRNCYKALPNDGKVL 38 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d-~~~~~iL~~~~~aL~pgg~l~ 38 (107)
.+|+++.-..= .+.+ +-..+.|....+-|+|||.++
T Consensus 258 kvDIIVSElLG-sfg~nEl~pE~Lda~~rfLkp~Gi~I 294 (448)
T PF05185_consen 258 KVDIIVSELLG-SFGDNELSPECLDAADRFLKPDGIMI 294 (448)
T ss_dssp -EEEEEE---B-TTBTTTSHHHHHHHGGGGEEEEEEEE
T ss_pred ceeEEEEeccC-CccccccCHHHHHHHHhhcCCCCEEe
Confidence 46887766653 3333 335566888888999997753
No 385
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.
Probab=26.17 E-value=1.3e+02 Score=17.25 Aligned_cols=39 Identities=18% Similarity=0.101 Sum_probs=22.8
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
++|++.++....++. ...+.+.++++..+++-.+++--.
T Consensus 50 ~pdiV~iS~~~~~~~--~~~~~~~~~~~~~p~~~~ivvGG~ 88 (125)
T cd02065 50 DADVVGLSALSTTHM--EAMKLVIEALKELGIDIPVVVGGA 88 (125)
T ss_pred CCCEEEEecchHhHH--HHHHHHHHHHHhcCCCCeEEEeCC
Confidence 567777776554433 356667777776644555554443
No 386
>PF00403 HMA: Heavy-metal-associated domain; InterPro: IPR006121 Proteins that transport heavy metals in micro-organisms and mammals share similarities in their sequences and structures. These proteins provide an important focus for research, some being involved in bacterial resistance to toxic metals, such as lead and cadmium, while others are involved in inherited human syndromes, such as Wilson's and Menke's diseases []. A conserved domain has been found in a number of these heavy metal transport or detoxification proteins []. The domain, which has been termed Heavy-Metal-Associated (HMA), contains two conserved cysteines that are probably involved in metal binding. Structure solution of the fourth HMA domain of the Menke's copper transporting ATPase shows a well-defined structure comprising a four-stranded antiparallel beta-sheet and two alpha helices packed in an alpha-beta sandwich fold []. This fold is common to other domains and is classified as "ferredoxin-like".; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2VOY_A 1P6T_A 1KQK_A 2RML_A 1JWW_A 3K7R_F 1FES_A 1CC8_A 1FD8_A 2GGP_A ....
Probab=26.10 E-value=70 Score=16.12 Aligned_cols=16 Identities=13% Similarity=0.289 Sum_probs=13.4
Q ss_pred cCHHHHHHHHHHcCCC
Q 042267 74 RTKKEFTALAIEAGFK 89 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~ 89 (107)
.+.+++.+.++++||+
T Consensus 47 ~~~~~i~~~i~~~Gy~ 62 (62)
T PF00403_consen 47 TSIEKIIEAIEKAGYE 62 (62)
T ss_dssp SCHHHHHHHHHHTTSE
T ss_pred CCHHHHHHHHHHhCcC
Confidence 4678999999999984
No 387
>PF09822 ABC_transp_aux: ABC-type uncharacterized transport system; InterPro: IPR019196 This domain is found in various eukaryotic and prokaryotic intra-flagellar transport proteins involved in gliding motility, as well as in several hypothetical proteins.
Probab=25.97 E-value=1.2e+02 Score=20.57 Aligned_cols=35 Identities=20% Similarity=0.293 Sum_probs=23.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.+|++++..--.++++.+ +..+.+-|..||++++.
T Consensus 197 ~~d~Lvi~~P~~~ls~~e----~~~l~~yl~~GG~ll~~ 231 (271)
T PF09822_consen 197 DADVLVIAGPKTDLSEEE----LYALDQYLMNGGKLLIL 231 (271)
T ss_pred CCCEEEEECCCCCCCHHH----HHHHHHHHHcCCeEEEE
Confidence 467777777766777754 34445555678888774
No 388
>PRK12557 H(2)-dependent methylenetetrahydromethanopterin dehydrogenase-related protein; Provisional
Probab=25.95 E-value=1.4e+02 Score=21.44 Aligned_cols=31 Identities=19% Similarity=0.249 Sum_probs=21.2
Q ss_pred ceeEEEecccccCCChHH-HHHHHHHHHhhCCCCCEE
Q 042267 2 QVYLSILQWMLHNFDDEN-CIKILRNCYKALPNDGKV 37 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~-~~~iL~~~~~aL~pgg~l 37 (107)
++|+++++ .++.. ...+++.+...+++|..+
T Consensus 81 ~ADvVIla-----VP~~~~v~~Vl~~L~~~L~~g~IV 112 (342)
T PRK12557 81 HGEIHILF-----TPFGKKTVEIAKNILPHLPENAVI 112 (342)
T ss_pred CCCEEEEE-----CCCcHHHHHHHHHHHhhCCCCCEE
Confidence 46777776 33333 678888999999876543
No 389
>KOG0902 consensus Phosphatidylinositol 4-kinase [Signal transduction mechanisms]
Probab=25.94 E-value=92 Score=27.26 Aligned_cols=31 Identities=13% Similarity=0.059 Sum_probs=24.5
Q ss_pred HHHHHHHHHcCCCce----EEEEcCCceeEEEEEC
Q 042267 77 KEFTALAIEAGFKGI----NFECNVCNSYVMEFYK 107 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~----~~~~~~~~~~vi~~~~ 107 (107)
+=++.+++.+|+.+. ++.++.+.++|||+.|
T Consensus 1567 slf~~if~~~gLd~~lfPYrV~aT~pGcGVIEviP 1601 (1803)
T KOG0902|consen 1567 SLFKNIFQLVGLDLYLFPYRVVATAPGCGVIEVIP 1601 (1803)
T ss_pred HHHHHHHHHcCCceEEeeeeeeccCCCCceEEeCC
Confidence 446778889998864 5667788999999976
No 390
>PF09109 Xol-1_GHMP-like: Switch protein XOL-1, GHMP-like; InterPro: IPR015193 This domain, found in sex-determining protein Xol-1, adopts a secondary structure consisting of five alpha helices and seven antiparallel beta sheets, in a beta-alpha-beta-alpha-alpha-alpha-beta-beta-alpha-beta-beta-beta arrangement. The fold of this family is structurally similar to that found in the C-terminal domain of GHMP Kinase []. The active site of the enzyme is found at the interface between this domain and the N-terminal domain.; PDB: 1MG7_B.
Probab=25.94 E-value=1.4e+02 Score=19.75 Aligned_cols=29 Identities=21% Similarity=0.275 Sum_probs=18.3
Q ss_pred ceeEEEeccccc-------CCChHHHHHHHHHHHhh
Q 042267 2 QVYLSILQWMLH-------NFDDENCIKILRNCYKA 30 (107)
Q Consensus 2 ~~D~v~~~~vlh-------~~~d~~~~~iL~~~~~a 30 (107)
+||+|+.+--|| .+++.+..+.|..+.+.
T Consensus 23 ~yD~vFVrTNLH~sdfep~~~p~r~~~k~~~~~f~~ 58 (191)
T PF09109_consen 23 NYDLVFVRTNLHPSDFEPSIFPSRENLKALVERFEN 58 (191)
T ss_dssp HEEEEEEEETTS-SS--------HHHHHHHHHHHHH
T ss_pred cccEEEEEcccCcCcCChhhCcchhhhHHHHHHHhh
Confidence 589999999999 33444445566666654
No 391
>PF13137 DUF3983: Protein of unknown function (DUF3983)
Probab=25.84 E-value=38 Score=15.72 Aligned_cols=15 Identities=27% Similarity=0.514 Sum_probs=12.1
Q ss_pred ecCHHHHHHHHHHcC
Q 042267 73 ERTKKEFTALAIEAG 87 (107)
Q Consensus 73 ~rt~~e~~~ll~~aG 87 (107)
.+-...|+.+|-++|
T Consensus 19 ~rv~kAWRNiFvqag 33 (34)
T PF13137_consen 19 YRVDKAWRNIFVQAG 33 (34)
T ss_pred HHHHHHHHHHHHHcc
Confidence 455688999999887
No 392
>TIGR03473 HpnK hopanoid biosynthesis associated protein HpnK. The sequences represented by this model are members of the pfam04794 "YdjC-like" family of uncharacterized proteins. The member of this clade from Acidithiobacillus ferrooxidans ATCC 23270 (AFE_0976) is found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. Similarly, in Ralstonia eutropha JMP134 (Reut_B4902) this gene is adjacent to HpnAB, IspH and HpnH (TIGR03470), although SHC itself is elsewhere in the genome. Notably, this gene (here named HpnK) and three others form a conserved set (HpnIJKL) which occur in a subset of all genomes containing the SHC enzyme. This relationship was discerned using the method of partial phylogenetic profiling. This group includes Zymomonas mobilis, the organism where the initial hopanoid biosynthesis locus was described consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a ph
Probab=25.70 E-value=2.3e+02 Score=19.64 Aligned_cols=62 Identities=13% Similarity=0.037 Sum_probs=33.6
Q ss_pred HHHHHHHhhCCCCCEEEEEeeeCCCCCCCchh-hhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceE
Q 042267 22 KILRNCYKALPNDGKVLVINSTLPEVPDSTEA-SRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGIN 92 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~ 92 (107)
+.+++..+.+++|...+++.+-..+....... ....+..++..+ +..++++++++.|.+.+.
T Consensus 215 ~~~~~~l~~l~~g~~eimcHPg~~d~~l~~~s~~~~~R~~E~~~L---------~sp~~~~~l~~~~I~Li~ 277 (283)
T TIGR03473 215 ARLLAALERLPEGVSEIYFHPATAQDAEITPSMPGYRHADELAAL---------LSPRVKAALKELGITLGG 277 (283)
T ss_pred HHHHHHHHhCCCCcEEEEECCCCCChHhhccCCCCCccHHHHHHH---------cCHHHHHHHHHCCCEEec
Confidence 56777778888888766665543221100000 000111222222 347999999999977653
No 393
>TIGR03798 ocin_TIGR03798 bacteriocin propeptide, TIGR03798 family. This model describes a conserved, fairly long (about 65 residue) propeptide region for a family of putative microcins, that is, bacteriocins of small size. Members of the seed alignment tend to have the Gly-Gly motif as the last two residues of the matched region. This is a cleavage site for a combination processing/export ABC transporter with a peptidase domain.
Probab=25.69 E-value=86 Score=16.40 Aligned_cols=17 Identities=35% Similarity=0.425 Sum_probs=12.0
Q ss_pred cCHHHHHHHHHHcCCCc
Q 042267 74 RTKKEFTALAIEAGFKG 90 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~ 90 (107)
.+.+++.++.++.||..
T Consensus 25 ~~~e~~~~lA~~~Gf~f 41 (64)
T TIGR03798 25 EDPEDRVAIAKEAGFEF 41 (64)
T ss_pred CCHHHHHHHHHHcCCCC
Confidence 45677777777777764
No 394
>PF03793 PASTA: PASTA domain; InterPro: IPR005543 The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBP) and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate. In PknB of Mycobacterium tuberculosis (P71584 from SWISSPROT), all of the extracellular portion is predicted to be made up of four PASTA domains, which strongly suggests that it is a signal-binding sensor domain. The domain has also been found in proteins involved in cell wall biosynthesis, where it is implicated in localizing the biosynthesis complex to unlinked peptidoglycan. PASTA is a small globular fold consisting of 3 beta-sheets and an alpha-helix, with a loop region of variable length between the first and second beta-strands. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain [].; GO: 0008658 penicillin binding; PDB: 2ZC3_C 1QME_A 1RP5_B 2Z2M_C 2Z2L_F 2ZC4_C 1QMF_A 3M9G_A 3PY9_A 1K25_B ....
Probab=25.58 E-value=1e+02 Score=15.56 Aligned_cols=19 Identities=21% Similarity=0.062 Sum_probs=14.7
Q ss_pred cCHHHHHHHHHHcCCCceE
Q 042267 74 RTKKEFTALAIEAGFKGIN 92 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~~ 92 (107)
.+.++..++|++.||....
T Consensus 9 ~~~~~a~~~l~~~g~~~~~ 27 (63)
T PF03793_consen 9 MTYDEAKSILEAAGLTVNV 27 (63)
T ss_dssp SBHHHHHHHHHHTT-EEEE
T ss_pred CcHHHHHHHHHHCCCEEEE
Confidence 6789999999999995443
No 395
>PRK02220 4-oxalocrotonate tautomerase; Provisional
Probab=25.49 E-value=1e+02 Score=15.49 Aligned_cols=35 Identities=11% Similarity=0.235 Sum_probs=24.3
Q ss_pred cccCCChHHHHHHHHHHHhhCC------CCCEEEEEeeeCC
Q 042267 11 MLHNFDDENCIKILRNCYKALP------NDGKVLVINSTLP 45 (107)
Q Consensus 11 vlh~~~d~~~~~iL~~~~~aL~------pgg~l~i~e~~~~ 45 (107)
++...++++..++++.+.+++. |+...++++.+.+
T Consensus 8 ~~~Grs~eqk~~l~~~it~~l~~~~~~p~~~v~V~i~e~~~ 48 (61)
T PRK02220 8 LIEGRTEEQLKALVKDVTAAVSKNTGAPAEHIHVIINEMSK 48 (61)
T ss_pred EcCCCCHHHHHHHHHHHHHHHHHHhCcChhhEEEEEEEeCh
Confidence 3445688888999998888775 4556666665544
No 396
>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=25.06 E-value=79 Score=19.86 Aligned_cols=23 Identities=13% Similarity=0.095 Sum_probs=15.1
Q ss_pred HHHHHHHHHhhCCCCCEEEEEee
Q 042267 20 CIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
+...|.-+.+.|+|||.+++.-.
T Consensus 118 ~~~~l~~a~~~L~~gG~~v~K~~ 140 (181)
T PF01728_consen 118 ILSQLLLALELLKPGGTFVIKVF 140 (181)
T ss_dssp HHHHHHHHHHHHCTTEEEEEEES
T ss_pred HHHHHHHHHhhhcCCCEEEEEec
Confidence 34445555567899999877543
No 397
>PRK07680 late competence protein ComER; Validated
Probab=24.86 E-value=2e+02 Score=19.50 Aligned_cols=31 Identities=10% Similarity=0.100 Sum_probs=20.9
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEE
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVL 38 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~ 38 (107)
+|++++. .++.+...+++.+...++++..++
T Consensus 63 aDiVila-----v~p~~~~~vl~~l~~~l~~~~~ii 93 (273)
T PRK07680 63 SDLIFIC-----VKPLDIYPLLQKLAPHLTDEHCLV 93 (273)
T ss_pred CCEEEEe-----cCHHHHHHHHHHHHhhcCCCCEEE
Confidence 4555443 356667888888888888876443
No 398
>PF13399 LytR_C: LytR cell envelope-related transcriptional attenuator
Probab=24.81 E-value=78 Score=17.48 Aligned_cols=20 Identities=10% Similarity=0.134 Sum_probs=16.5
Q ss_pred CHHHHHHHHHHcCCCceEEE
Q 042267 75 TKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 75 t~~e~~~ll~~aGf~~~~~~ 94 (107)
-.+.+..+|+..||+..++-
T Consensus 17 lA~~~a~~L~~~Gf~v~~~~ 36 (90)
T PF13399_consen 17 LAARVADALRNRGFTVVEVG 36 (90)
T ss_pred HHHHHHHHHHHCCCceeecC
Confidence 45788999999999997664
No 399
>PLN02672 methionine S-methyltransferase
Probab=24.80 E-value=83 Score=26.43 Aligned_cols=20 Identities=5% Similarity=0.134 Sum_probs=17.0
Q ss_pred HHHHHHHHHhhCCCCCEEEE
Q 042267 20 CIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i 39 (107)
..++++.+.+.|+|||.+++
T Consensus 257 yr~i~~~a~~~L~pgG~l~l 276 (1082)
T PLN02672 257 IARAVEEGISVIKPMGIMIF 276 (1082)
T ss_pred HHHHHHHHHHhccCCCEEEE
Confidence 47888999999999998764
No 400
>PRK09424 pntA NAD(P) transhydrogenase subunit alpha; Provisional
Probab=24.79 E-value=1.4e+02 Score=22.89 Aligned_cols=37 Identities=8% Similarity=0.005 Sum_probs=22.9
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEe
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e 41 (107)
+|+++-.--...-+. ..-+.+...+.++|||+++.+-
T Consensus 249 aDVVIetag~pg~~a--P~lit~~~v~~mkpGgvIVdvg 285 (509)
T PRK09424 249 VDIIITTALIPGKPA--PKLITAEMVASMKPGSVIVDLA 285 (509)
T ss_pred CCEEEECCCCCcccC--cchHHHHHHHhcCCCCEEEEEc
Confidence 566655543211111 1233599999999999988764
No 401
>cd05007 SIS_Etherase N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid carries a unique D-lactyl ether substituent at the C3 position. The etherase catalyzes the cleavage of the lactyl ether bond of N-acetylmuramic acid 6-phosphate.
Probab=24.62 E-value=93 Score=21.25 Aligned_cols=23 Identities=9% Similarity=0.297 Sum_probs=18.5
Q ss_pred HHHHHHHHHhhCCCCCEEEEEee
Q 042267 20 CIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
..+....+.++|+.||+|+++-.
T Consensus 35 I~~av~~~~~~l~~ggrl~~~Ga 57 (257)
T cd05007 35 IARAVDAAAERLRAGGRLIYVGA 57 (257)
T ss_pred HHHHHHHHHHHHHcCCEEEEEcC
Confidence 56667788889999999988753
No 402
>cd08237 ribitol-5-phosphate_DH ribitol-5-phosphate dehydrogenase. NAD-linked ribitol-5-phosphate dehydrogenase, a member of the MDR/zinc-dependent alcohol dehydrogenase-like family, oxidizes the phosphate ester of ribitol-5-phosphate to xylulose-5-phosphate of the pentose phosphate pathway. The medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family, which contains the zinc-dependent alcohol dehydrogenase (ADH-Zn) and related proteins, is a diverse group of proteins related to the first identified member, class I mammalian ADH. MDRs display a broad range of activities and are distinguished from the smaller short chain dehydrogenases (~ 250 amino acids vs. the ~ 350 amino acids of the MDR). The MDR proteins have 2 domains: a C-terminal NAD(P) binding-Rossmann fold domain of a beta-alpha form and an N-terminal catalytic domain with distant homology to GroES. The MDR group contains a host of activities, including the founding alcohol dehydrogenase (
Probab=24.60 E-value=95 Score=21.71 Aligned_cols=21 Identities=5% Similarity=0.170 Sum_probs=17.7
Q ss_pred HHHHHHHhhCCCCCEEEEEee
Q 042267 22 KILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~ 42 (107)
..++...+.|++||+++++-.
T Consensus 237 ~~~~~~~~~l~~~G~iv~~G~ 257 (341)
T cd08237 237 SAINQIIDYIRPQGTIGLMGV 257 (341)
T ss_pred HHHHHHHHhCcCCcEEEEEee
Confidence 467888899999999998764
No 403
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=24.56 E-value=1.8e+02 Score=17.87 Aligned_cols=27 Identities=22% Similarity=0.148 Sum_probs=20.1
Q ss_pred ChHHHHHHHHHHHhhCCCCCEEEEEee
Q 042267 16 DDENCIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 16 ~d~~~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
+.++-.++-+++.+.|++|..+++.-.
T Consensus 4 s~~~t~~l~~~l~~~l~~~~~i~l~G~ 30 (133)
T TIGR00150 4 DEKAMDKFGKAFAKPLDFGTVVLLKGD 30 (133)
T ss_pred CHHHHHHHHHHHHHhCCCCCEEEEEcC
Confidence 345567888888899988888777654
No 404
>PRK10309 galactitol-1-phosphate dehydrogenase; Provisional
Probab=24.36 E-value=86 Score=21.81 Aligned_cols=22 Identities=0% Similarity=0.069 Sum_probs=18.4
Q ss_pred HHHHHHHhhCCCCCEEEEEeee
Q 042267 22 KILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
..+..+.++|++||+++++-..
T Consensus 241 ~~~~~~~~~l~~~G~iv~~G~~ 262 (347)
T PRK10309 241 QTVELAIEIAGPRAQLALVGTL 262 (347)
T ss_pred HHHHHHHHHhhcCCEEEEEccC
Confidence 5778888999999999988644
No 405
>TIGR01202 bchC 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide A dehydrogenase.
Probab=24.34 E-value=87 Score=21.55 Aligned_cols=21 Identities=10% Similarity=0.349 Sum_probs=17.7
Q ss_pred HHHHHHHhhCCCCCEEEEEee
Q 042267 22 KILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~ 42 (107)
..++.+.+.|+++|+++++-.
T Consensus 212 ~~~~~~~~~l~~~G~iv~~G~ 232 (308)
T TIGR01202 212 SLIDTLVRRLAKGGEIVLAGF 232 (308)
T ss_pred HHHHHHHHhhhcCcEEEEEee
Confidence 567888899999999998764
No 406
>PF06153 DUF970: Protein of unknown function (DUF970); InterPro: IPR010375 This is a family of uncharacterised bacterial proteins.; PDB: 3M05_A.
Probab=24.32 E-value=77 Score=18.95 Aligned_cols=25 Identities=12% Similarity=0.130 Sum_probs=17.8
Q ss_pred HHHHHHHHHHcCCCceEEEEcCCce
Q 042267 76 KKEFTALAIEAGFKGINFECNVCNS 100 (107)
Q Consensus 76 ~~e~~~ll~~aGf~~~~~~~~~~~~ 100 (107)
...+.+-|.+.||...++...++++
T Consensus 13 a~~l~~~L~~~g~~~TkLsstGGFL 37 (109)
T PF06153_consen 13 ADDLSDALNENGFRVTKLSSTGGFL 37 (109)
T ss_dssp HHHHHHHHHHTT--EEEEEEEETTT
T ss_pred HHHHHHHHHHCCceEEEEeccccee
Confidence 4567778888999999998887653
No 407
>PF04816 DUF633: Family of unknown function (DUF633) ; InterPro: IPR006901 This is a family of uncharacterised bacterial proteins.; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity; PDB: 3LEC_A 3KU1_G 3KR9_A 3GNL_B.
Probab=24.29 E-value=1.3e+02 Score=19.96 Aligned_cols=23 Identities=22% Similarity=0.206 Sum_probs=18.4
Q ss_pred cCHHHHHHHHHHcCCCceEEEEc
Q 042267 74 RTKKEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~~~~~~ 96 (107)
....++++||.+.||.+.+..-+
T Consensus 103 ~~~~~LR~~L~~~gf~I~~E~lv 125 (205)
T PF04816_consen 103 THAYELRRWLYENGFEIIDEDLV 125 (205)
T ss_dssp S-HHHHHHHHHHTTEEEEEEEEE
T ss_pred CChHHHHHHHHHCCCEEEEeEEE
Confidence 45689999999999999876544
No 408
>KOG2972 consensus Uncharacterized conserved protein [Function unknown]
Probab=24.28 E-value=71 Score=22.16 Aligned_cols=17 Identities=24% Similarity=0.460 Sum_probs=10.9
Q ss_pred HhhCCCCCEEEEEeeeC
Q 042267 28 YKALPNDGKVLVINSTL 44 (107)
Q Consensus 28 ~~aL~pgg~l~i~e~~~ 44 (107)
|+++-|||.-+|+|...
T Consensus 114 ye~~gp~GV~liVealT 130 (276)
T KOG2972|consen 114 YEAMGPSGVGLIVEALT 130 (276)
T ss_pred EeeecCCceEEEEEeee
Confidence 44566777777777554
No 409
>TIGR03217 4OH_2_O_val_ald 4-hydroxy-2-oxovalerate aldolase. Members of this protein family are 4-hydroxy-2-oxovalerate aldolase, also called 4-hydroxy-2-ketovalerate aldolase and 2-oxo-4-hydroxypentanoate aldolase. This enzyme, part of the pathway for the meta-cleavage of catechol, produces pyruvate and acetaldehyde. Acetaldehyde is then converted by acetaldehyde dehydrogenase (acylating) (DmpF; EC 1.2.1.10) to acetyl-CoA. The two enzymes are tightly associated.
Probab=24.26 E-value=2.7e+02 Score=19.91 Aligned_cols=85 Identities=9% Similarity=-0.076 Sum_probs=46.4
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCch---hhhh---hhhhcHHHHhhCCCceecC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTE---ASRD---SFILDAIFLIQIPHGRERT 75 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~---~~~~---~~~~~~~~~~~~~~g~~rt 75 (107)
++|.+.+....-...+++..++++.+++.++|+-.+-++ ..++..-.. .+.. ...+|.++..+..+...-.
T Consensus 156 Ga~~i~i~DT~G~~~P~~v~~~v~~l~~~l~~~i~ig~H---~HnnlGla~ANslaAi~aGa~~iD~Sl~G~G~~aGN~~ 232 (333)
T TIGR03217 156 GADCVYIVDSAGAMLPDDVRDRVRALKAVLKPETQVGFH---AHHNLSLAVANSIAAIEAGATRIDASLRGLGAGAGNAP 232 (333)
T ss_pred CCCEEEEccCCCCCCHHHHHHHHHHHHHhCCCCceEEEE---eCCCCchHHHHHHHHHHhCCCEEEeecccccccccCcc
Confidence 567777777777777777888888888888776544332 222222110 0000 1123433332222223355
Q ss_pred HHHHHHHHHHcCCC
Q 042267 76 KKEFTALAIEAGFK 89 (107)
Q Consensus 76 ~~e~~~ll~~aGf~ 89 (107)
.+++...|+..|+.
T Consensus 233 ~E~lv~~l~~~g~~ 246 (333)
T TIGR03217 233 LEVFVAVLDRLGWN 246 (333)
T ss_pred HHHHHHHHHhcCCC
Confidence 66777777777765
No 410
>TIGR00282 metallophosphoesterase, MG_246/BB_0505 family. A member of this family from Mycoplasma Pneumoniae has been crystallized and described as a novel phosphatase.
Probab=24.05 E-value=53 Score=22.75 Aligned_cols=31 Identities=10% Similarity=0.039 Sum_probs=21.7
Q ss_pred CceeEEEecccccCCChHHHHHHHHHHHhhCCC
Q 042267 1 MQVYLSILQWMLHNFDDENCIKILRNCYKALPN 33 (107)
Q Consensus 1 ~~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~p 33 (107)
|++|++.+.| |.|+..+....+.+..+.|+|
T Consensus 58 ~GvDviT~GN--H~~Dkge~~~~i~~~~~~lrp 88 (266)
T TIGR00282 58 SGVNYITMGN--HTWFQKLILDVVINQKDLVRP 88 (266)
T ss_pred cCCCEEEccc--hhccCcHHHHHHhcccccccc
Confidence 5789998875 778776666677666556653
No 411
>PF02794 HlyC: RTX toxin acyltransferase family; InterPro: IPR003996 Secretion of virulence factors in Gram-negative bacteria involves transportation of the protein across two membranes to reach the cell exterior []. Four principal exotoxin secretion systems have been described. In the type II and IV secretion systems, toxins are first exported to the periplasm by way of a cleaved N-terminal signal sequence; a second set of proteins is used for extracellular transport (type II), or the C terminus of the exotoxin itself is used (type IV). Type III secretion involves at least 20 molecules that assemble into a needle; effector proteins are then translocated through this without need of a signal sequence. In the Type I system, a complete channel is formed through both membranes, and the secretion signal is carried on the C terminus of the exotoxin. The RTX (repeats in toxin) family of cytolytic toxins belong to the Type I secretion system, and are important virulence factors in Gram-negative bacteria. As well as the C-terminal signal sequence, several glycine-rich repeats are also found. These are essential for binding calcium, and are critical for the biological activity of the secreted toxins []. All RTX toxin operons exist in the order rtxCABD, RtxA protein being the structural component of the exotoxin, both RtxB and D being required for its export from the bacterial cell; RtxC is an acyl-carrier-protein-dependent acyl- modification enzyme, required to convert RtxA to its active form []. Escherichia coli haemolysin (HlyA) is often quoted as the model for RTX toxins. Recent work on its relative rtxC gene product HlyC [] has revealed that it provides the acylation aspect for post-translational modification of two internal lysine residues in the HlyA protein. Other residues, including His23 and two conserved tyrosine residues, also appear to be important []. ; GO: 0016746 transferase activity, transferring acyl groups, 0009404 toxin metabolic process, 0005737 cytoplasm
Probab=24.04 E-value=1.4e+02 Score=18.41 Aligned_cols=33 Identities=15% Similarity=0.227 Sum_probs=22.2
Q ss_pred CChHHHHHHHHHHHhhCCC----CCEEEEEeeeCCCC
Q 042267 15 FDDENCIKILRNCYKALPN----DGKVLVINSTLPEV 47 (107)
Q Consensus 15 ~~d~~~~~iL~~~~~aL~p----gg~l~i~e~~~~~~ 47 (107)
.+++.-.++++.-.....+ |.++.++|.+.|-+
T Consensus 55 ls~e~e~~~l~~~~~l~~~dW~sG~rlWiiD~iAPfG 91 (133)
T PF02794_consen 55 LSEEAEARYLEDPRSLSPEDWNSGDRLWIIDWIAPFG 91 (133)
T ss_pred CCHHHHHHHHcCCCCCCchhcCCCCeEEEEEEECCCC
Confidence 4555556666665544432 89999999998743
No 412
>COG1743 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]
Probab=24.00 E-value=98 Score=25.19 Aligned_cols=24 Identities=13% Similarity=0.286 Sum_probs=19.8
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeee
Q 042267 20 CIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
..+.++++++.|+++|++++.=..
T Consensus 567 ~~~a~~~~rEll~ddg~lv~y~ah 590 (875)
T COG1743 567 FREAFQAVRELLKDDGRLVTYYAH 590 (875)
T ss_pred HHHHHHHHHHhcCCCCeEEEEEec
Confidence 567899999999999999885433
No 413
>PF14226 DIOX_N: non-haem dioxygenase in morphine synthesis N-terminal; PDB: 3OOX_A 1BK0_A 1IPS_B 1QIQ_A 1OC1_A 2Y86_A 2Y60_A 1W03_A 2VE1_A 1QJF_A ....
Probab=23.88 E-value=85 Score=18.02 Aligned_cols=30 Identities=17% Similarity=0.224 Sum_probs=24.2
Q ss_pred ChHHHHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 16 DDENCIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 16 ~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
+.++...+.+++.+|++.-|.+.|...-++
T Consensus 9 ~~~~~~~~~~~l~~A~~~~GFf~l~nhGi~ 38 (116)
T PF14226_consen 9 DPADREEVAEQLRDACEEWGFFYLVNHGIP 38 (116)
T ss_dssp CHHHHHHHHHHHHHHHHHTSEEEEESSSSS
T ss_pred CCccHHHHHHHHHHHHHhCCEEEEeccccc
Confidence 345578899999999999999998776443
No 414
>PF07076 DUF1344: Protein of unknown function (DUF1344); InterPro: IPR009780 This family consists of several short, hypothetical bacterial proteins of around 80 residues in length. Members of this family are found in Rhizobium, Agrobacterium and Brucella species. The function of this family is unknown.
Probab=23.86 E-value=65 Score=17.17 Aligned_cols=15 Identities=27% Similarity=0.381 Sum_probs=11.9
Q ss_pred HhhCCCCCEEEEEee
Q 042267 28 YKALPNDGKVLVINS 42 (107)
Q Consensus 28 ~~aL~pgg~l~i~e~ 42 (107)
.++|+||.+++|.=.
T Consensus 35 ~~~L~~G~kV~V~yd 49 (61)
T PF07076_consen 35 FDGLKPGMKVVVFYD 49 (61)
T ss_pred ccccCCCCEEEEEEE
Confidence 578999999988643
No 415
>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=23.83 E-value=40 Score=23.27 Aligned_cols=20 Identities=15% Similarity=0.323 Sum_probs=16.7
Q ss_pred HHHHHHHhhCCCCCEEEEEe
Q 042267 22 KILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e 41 (107)
.+++++.+.|++||++.++=
T Consensus 164 ~Fi~~~l~~Lk~~G~~~~Il 183 (311)
T PF02384_consen 164 AFIEHALSLLKPGGRAAIIL 183 (311)
T ss_dssp HHHHHHHHTEEEEEEEEEEE
T ss_pred hhHHHHHhhcccccceeEEe
Confidence 47899999999999987743
No 416
>PF06135 DUF965: Bacterial protein of unknown function (DUF965); InterPro: IPR009309 This family consists of several hypothetical bacterial proteins. The function of the family is unknown.
Probab=23.76 E-value=67 Score=18.06 Aligned_cols=19 Identities=32% Similarity=0.618 Sum_probs=15.5
Q ss_pred hHHHHHHHHHHHhhCCCCC
Q 042267 17 DENCIKILRNCYKALPNDG 35 (107)
Q Consensus 17 d~~~~~iL~~~~~aL~pgg 35 (107)
..++..+|+.+++||+.-|
T Consensus 14 ~~~~~~iL~~Vy~AL~EKG 32 (79)
T PF06135_consen 14 EKEIREILKQVYAALEEKG 32 (79)
T ss_pred hhhHHHHHHHHHHHHHHcC
Confidence 4568999999999998643
No 417
>PRK13245 hetR heterocyst differentiation control protein; Reviewed
Probab=23.73 E-value=37 Score=23.17 Aligned_cols=29 Identities=17% Similarity=0.233 Sum_probs=23.4
Q ss_pred cccccCCChHHHHHHHHHHHhhCCCCCEE
Q 042267 9 QWMLHNFDDENCIKILRNCYKALPNDGKV 37 (107)
Q Consensus 9 ~~vlh~~~d~~~~~iL~~~~~aL~pgg~l 37 (107)
..-||+.....+..|.++++.+|..|..+
T Consensus 64 TGHLHHiEPKRVKvIVeEv~qaltegklL 92 (299)
T PRK13245 64 TGHLHHLEPKRVKIIVEEVRQALTEGKLL 92 (299)
T ss_pred eccccccChhhhhHHHHHHHHHHhhhhHH
Confidence 34579998888888999999999987543
No 418
>TIGR00489 aEF-1_beta translation elongation factor aEF-1 beta. This model describes the archaeal translation elongation factor aEF-1 beta. The member from Sulfolobus solfataricus was demonstrated experimentally. It is a dimer that catalyzes the exchange of GDP for GTP on aEF-1 alpha.
Probab=23.64 E-value=1.6e+02 Score=16.86 Aligned_cols=35 Identities=6% Similarity=0.005 Sum_probs=25.7
Q ss_pred eEEEecccccCCChHHHHHHHHHHHhhCCCCCEEE
Q 042267 4 YLSILQWMLHNFDDENCIKILRNCYKALPNDGKVL 38 (107)
Q Consensus 4 D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~ 38 (107)
|+.....++-.=++-+..++.+++++.+++|..+-
T Consensus 3 ~v~~~~kV~P~s~evDle~L~~~ik~~~~~g~~~~ 37 (88)
T TIGR00489 3 DVVAKIKVMPESPDVDLEALKEKIKERIPEGVEIR 37 (88)
T ss_pred eEEEEEEECCCCCccCHHHHHHHHHHhCcCCcEEe
Confidence 45566666665566678899999999988875553
No 419
>PF04989 CmcI: Cephalosporin hydroxylase; InterPro: IPR007072 This entry contains Rhamnosyl O-methyltransferase which catalyses the O-methylation of the hydroxyl group located on C-2 of the first rhamnosyl residue linked to the phenolic group of glycosylated phenolphthiocerol dimycocerosates (PGL) and p-hydroxybenzoic acid derivatives (p-HBAD) []. Members of this family are about 220 amino acids long. It also includes the CmcI protein O85726 from SWISSPROT, which is presumed to represent the cephalosporin-7--hydroxylase []. However this has not been experimentally verified.; GO: 0008168 methyltransferase activity, 0008610 lipid biosynthetic process; PDB: 2BR4_B 2BR3_E 2BR5_E 2BM8_J 2BM9_E.
Probab=23.49 E-value=74 Score=21.25 Aligned_cols=26 Identities=8% Similarity=0.126 Sum_probs=19.0
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
+.+.|+.....++||+.++|-|....
T Consensus 126 vl~eL~~y~plv~~G~Y~IVeDt~~~ 151 (206)
T PF04989_consen 126 VLAELEAYAPLVSPGSYLIVEDTIIE 151 (206)
T ss_dssp HHHHHHHHHHT--TT-EEEETSHHHH
T ss_pred HHHHHHHhCccCCCCCEEEEEecccc
Confidence 67888899999999999988877643
No 420
>PF12780 AAA_8: P-loop containing dynein motor region D4; InterPro: IPR024317 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules, of which four (D1 - D4) correspond to the ATP binding sites with P-loop signatures described previously, and two (D5, D6) are modules in which the P loop has been lost in evolution. This particular entry represents the D4 ATP-binding domain of the motor [].; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=23.41 E-value=1.3e+02 Score=20.80 Aligned_cols=22 Identities=18% Similarity=0.380 Sum_probs=16.2
Q ss_pred HHHHHHHHHhhC-CCCCEEEEEe
Q 042267 20 CIKILRNCYKAL-PNDGKVLVIN 41 (107)
Q Consensus 20 ~~~iL~~~~~aL-~pgg~l~i~e 41 (107)
+.+-+.++.|+| .|+|..+++-
T Consensus 16 ai~hi~ri~RvL~~~~Gh~LLvG 38 (268)
T PF12780_consen 16 AIEHIARISRVLSQPRGHALLVG 38 (268)
T ss_dssp HHHHHHHHHHHHCSTTEEEEEEC
T ss_pred HHHHHHHHHHHHcCCCCCeEEec
Confidence 566677777777 4889998765
No 421
>PF07530 PRE_C2HC: Associated with zinc fingers; InterPro: IPR006579 This domain is present in proteins found exclusively in the arthropods, including a number of Drosophila species, the silk moth and the gypsy moth. These proteins are possibly involved in RNA binding or single strand DNA binding.
Probab=23.36 E-value=1.3e+02 Score=16.21 Aligned_cols=20 Identities=15% Similarity=0.064 Sum_probs=16.2
Q ss_pred HHHHHHHHHcCCCceEEEEc
Q 042267 77 KEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~~~~ 96 (107)
+++.+-|++.||++..+...
T Consensus 2 ~~I~~~L~~~G~~v~~i~~~ 21 (68)
T PF07530_consen 2 EEIKEELKDQGHPVRNIHNM 21 (68)
T ss_pred HHHHHHHHHcCCceEEEEcc
Confidence 46788889999999988654
No 422
>PRK15450 signal transduction protein PmrD; Provisional
Probab=23.17 E-value=59 Score=18.38 Aligned_cols=18 Identities=17% Similarity=0.191 Sum_probs=14.2
Q ss_pred CceecCHHHHHHHHHHcC
Q 042267 70 HGRERTKKEFTALAIEAG 87 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aG 87 (107)
+...++.+||.++.+.+|
T Consensus 68 ~As~Ys~deW~r~~~~~~ 85 (85)
T PRK15450 68 SASCYSPDEWERQCKKAG 85 (85)
T ss_pred eccccCHHHHHHHhccCC
Confidence 556799999999887654
No 423
>PRK00453 rpsF 30S ribosomal protein S6; Reviewed
Probab=23.12 E-value=1.7e+02 Score=17.01 Aligned_cols=39 Identities=5% Similarity=0.155 Sum_probs=28.4
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCC-CCEEEEEeee
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPN-DGKVLVINST 43 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~p-gg~l~i~e~~ 43 (107)
|+++++... +.++++..++++++.+.+.. ||.+.-++..
T Consensus 4 YE~~~il~~--~~~~~~~~~~~~~~~~~i~~~gg~i~~~~~~ 43 (108)
T PRK00453 4 YEIVFILRP--DLSEEQVKALVERFKGVITENGGTIHKVEDW 43 (108)
T ss_pred eeEEEEECC--CCCHHHHHHHHHHHHHHHHHCCCEEEEEecc
Confidence 455555433 35788899999999999876 7888777754
No 424
>KOG1136 consensus Predicted cleavage and polyadenylation specificity factor (CPSF subunit) [RNA processing and modification]
Probab=22.89 E-value=83 Score=23.08 Aligned_cols=25 Identities=24% Similarity=0.307 Sum_probs=21.2
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
-+.+|+++.+....||+++|--+..
T Consensus 218 ERdFLk~VhecVa~GGkvlIPvFAL 242 (501)
T KOG1136|consen 218 ERDFLKKVHECVARGGKVLIPVFAL 242 (501)
T ss_pred HHHHHHHHHHHHhcCCeEEEEeeec
Confidence 5789999999999999999955544
No 425
>PLN02688 pyrroline-5-carboxylate reductase
Probab=22.77 E-value=1.8e+02 Score=19.54 Aligned_cols=31 Identities=16% Similarity=0.132 Sum_probs=20.3
Q ss_pred eeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEE
Q 042267 3 VYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVL 38 (107)
Q Consensus 3 ~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~ 38 (107)
+|+++++- +++....+++.+...+++|..++
T Consensus 62 aDvVil~v-----~~~~~~~vl~~l~~~~~~~~~iI 92 (266)
T PLN02688 62 SDVIILAV-----KPQVVKDVLTELRPLLSKDKLLV 92 (266)
T ss_pred CCEEEEEE-----CcHHHHHHHHHHHhhcCCCCEEE
Confidence 45555443 45567888888877787775444
No 426
>COG1692 Calcineurin-like phosphoesterase [General function prediction only]
Probab=22.77 E-value=56 Score=22.64 Aligned_cols=30 Identities=17% Similarity=0.271 Sum_probs=25.6
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCC
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPN 33 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~p 33 (107)
++|++.+.| |-|+..+...++.+....|+|
T Consensus 59 G~dviT~GN--H~wd~~ei~~~i~~~~~ilRP 88 (266)
T COG1692 59 GADVITLGN--HTWDQKEILDFIDNADRILRP 88 (266)
T ss_pred CCCEEeccc--ccccchHHHHHhhcccceecc
Confidence 568888877 789988899999999998887
No 427
>COG1236 YSH1 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]
Probab=22.48 E-value=1.2e+02 Score=22.41 Aligned_cols=33 Identities=27% Similarity=0.288 Sum_probs=23.2
Q ss_pred cccCCChHHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 11 MLHNFDDENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 11 vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
..|.-.++.-..+.+.+.+++.+||++++--+.
T Consensus 193 ~~~~~r~~~e~~f~~~v~~~l~~GG~vlipafa 225 (427)
T COG1236 193 RLHPNRDEVERRFIESVKAALERGGTVLIPAFA 225 (427)
T ss_pred ccCCCHHHHHHHHHHHHHHHHhCCCEEEEeccc
Confidence 344444444455889999999999999885543
No 428
>PF05706 CDKN3: Cyclin-dependent kinase inhibitor 3 (CDKN3); InterPro: IPR022778 This entry represents a domain found in cyclin-dependent kinase inhibitor 3 or kinase associated phosphatase proteins from several mammalian species. The cyclin-dependent kinase (Cdk)-associated protein phosphatase (KAP) is a human dual specificity protein phosphatase that dephosphorylates Cdk2 on threonine 160 in a cyclin-dependent manner [], []. This domain is also found in MAP kinase phosphatase and esterases. This entry contains both eukaryotic and bacterial proteins.; GO: 0004721 phosphoprotein phosphatase activity, 0004725 protein tyrosine phosphatase activity; PDB: 1FQ1_A 1FPZ_F.
Probab=22.46 E-value=87 Score=20.25 Aligned_cols=22 Identities=36% Similarity=0.345 Sum_probs=16.7
Q ss_pred HHHHHHHHHHhhCCCCCEEEEE
Q 042267 19 NCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 19 ~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
.+.+++..+...|+.|.+++|+
T Consensus 118 ~~~~i~~eL~~~L~~g~~V~vH 139 (168)
T PF05706_consen 118 AAWQILEELAARLENGRKVLVH 139 (168)
T ss_dssp HHHHHHHHHHHHHHTT--EEEE
T ss_pred HHHHHHHHHHHHHHcCCEEEEE
Confidence 3677899999999999999873
No 429
>PF08671 SinI: Anti-repressor SinI; InterPro: IPR010981 The SinR repressor is part of a group of Sin (sporulation inhibition) proteins in Bacillus subtilis that regulate the commitment to sporulation in response to extreme adversity []. SinR is a tetrameric repressor protein that binds to the promoters of genes essential for entry into sporulation and prevents their transcription. This repression is overcome through the activity of SinI, which disrupts the SinR tetramer through the formation of a SinI-SinR heterodimer, thereby allowing sporulation to proceed. The SinR structure consists of two domains: a dimerisation domain stabilised by a hydrophobic core, and a DNA-binding domain that is identical to domains of the bacteriophage 434 CI and Cro proteins that regulate prophage induction. The dimerisation domain is a four-helical bundle formed from two helices from the C-terminal residues of SinR and two helices from the central residues of SinI. These regions in SinR and SinI are similar in both structure and sequence. The interaction of SinR monomers to form tetramers is weaker than between SinR and SinI, since SinI can effectively disrupt SinR tetramers. This entry represents the dimerisation domain in both SinI and SinR proteins.; GO: 0005488 binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1B0N_A 2YAL_A.
Probab=22.43 E-value=75 Score=14.32 Aligned_cols=16 Identities=31% Similarity=0.445 Sum_probs=9.5
Q ss_pred HHHHHHHHHc---CCCceE
Q 042267 77 KEFTALAIEA---GFKGIN 92 (107)
Q Consensus 77 ~e~~~ll~~a---Gf~~~~ 92 (107)
+||.+++.+| |++..+
T Consensus 3 ~EW~~Li~eA~~~Gls~ee 21 (30)
T PF08671_consen 3 EEWVELIKEAKESGLSKEE 21 (30)
T ss_dssp HHHHHHHHHHHHTT--HHH
T ss_pred HHHHHHHHHHHHcCCCHHH
Confidence 5888888754 776543
No 430
>PF15000 TUSC2: Tumour suppressor candidate 2
Probab=22.32 E-value=54 Score=19.64 Aligned_cols=23 Identities=26% Similarity=0.199 Sum_probs=16.9
Q ss_pred HHHHHHHHhhCCCCCEEEEEeee
Q 042267 21 IKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 21 ~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
..-|+++.+.|.|.|.+-+--+.
T Consensus 77 ~~~l~rv~knL~PqG~v~l~~Pr 99 (111)
T PF15000_consen 77 RAKLRRVQKNLRPQGIVKLDHPR 99 (111)
T ss_pred chhhhhhhhcCCccceeecCCCc
Confidence 34688888899999988554433
No 431
>COG1902 NemA NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]
Probab=22.28 E-value=3.2e+02 Score=19.93 Aligned_cols=83 Identities=18% Similarity=0.184 Sum_probs=43.4
Q ss_pred cccCCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCC---C----chhhhhhhhhcHHHHhhCCCceecCHHHHHHHH
Q 042267 11 MLHNFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPD---S----TEASRDSFILDAIFLIQIPHGRERTKKEFTALA 83 (107)
Q Consensus 11 vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~---~----~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll 83 (107)
..--|+|++ ..-++++.++....|-.+.++..-..... . ...+......+.. ....-+.-|.+|++++.
T Consensus 73 ~~~l~~d~~-i~~~~~vt~avH~~G~~i~iQL~H~Gr~~~~~~~~~~~~vapS~~~~~~~---~~~~pr~mt~~eI~~ii 148 (363)
T COG1902 73 QPGLWSDAQ-IPGLKRLTEAVHAHGAKIFIQLWHAGRKARASHPWLPSAVAPSAIPAPGG---RRATPRELTEEEIEEVI 148 (363)
T ss_pred CCccCChhH-hHHHHHHHHHHHhcCCeEEEEeccCcccccccccCCCcccCCCccccccC---CCCCCccCCHHHHHHHH
Confidence 333456654 78899999999875444455543322100 0 0000000000000 01124557777777665
Q ss_pred ----------HHcCCCceEEEEcC
Q 042267 84 ----------IEAGFKGINFECNV 97 (107)
Q Consensus 84 ----------~~aGf~~~~~~~~~ 97 (107)
++|||-.+++.-..
T Consensus 149 ~~f~~AA~rA~~AGFDgVEIH~Ah 172 (363)
T COG1902 149 EDFARAARRAKEAGFDGVEIHGAH 172 (363)
T ss_pred HHHHHHHHHHHHcCCCEEEEeecc
Confidence 57899999997543
No 432
>COG1041 Predicted DNA modification methylase [DNA replication, recombination, and repair]
Probab=22.17 E-value=1.4e+02 Score=21.66 Aligned_cols=23 Identities=13% Similarity=0.271 Sum_probs=19.3
Q ss_pred HHHHHHHHHhhCCCCCEEEEEee
Q 042267 20 CIKILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~ 42 (107)
-.++|+.+.+.|++||++++.-+
T Consensus 289 y~~~le~~~evLk~gG~~vf~~p 311 (347)
T COG1041 289 YEEALESASEVLKPGGRIVFAAP 311 (347)
T ss_pred HHHHHHHHHHHhhcCcEEEEecC
Confidence 67889999999999999977543
No 433
>PRK09880 L-idonate 5-dehydrogenase; Provisional
Probab=22.15 E-value=1e+02 Score=21.48 Aligned_cols=21 Identities=10% Similarity=0.344 Sum_probs=17.5
Q ss_pred HHHHHHHhhCCCCCEEEEEee
Q 042267 22 KILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~ 42 (107)
..++.+.++|++||+++++..
T Consensus 247 ~~~~~~~~~l~~~G~iv~~G~ 267 (343)
T PRK09880 247 SSINTCLEVTRAKGVMVQVGM 267 (343)
T ss_pred HHHHHHHHHhhcCCEEEEEcc
Confidence 467788899999999998864
No 434
>PRK11509 hydrogenase-1 operon protein HyaE; Provisional
Probab=22.05 E-value=2.1e+02 Score=17.67 Aligned_cols=64 Identities=9% Similarity=-0.004 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCce-------ecCHHHHHHHHHH
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGR-------ERTKKEFTALAIE 85 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~-------~rt~~e~~~ll~~ 85 (107)
.+..-+|.++.+.. +++++-+...-.++++. ++.......+-.+..+.+|+ .++.+++.+++++
T Consensus 52 ~D~avvleELa~e~-~~~~v~~akVDiD~~~~---LA~~fgV~siPTLl~FkdGk~v~~i~G~~~k~~l~~~I~~ 122 (132)
T PRK11509 52 SDNPVMIGELLREF-PDYTWQVAIADLEQSEA---IGDRFGVFRFPATLVFTGGNYRGVLNGIHPWAELINLMRG 122 (132)
T ss_pred ccHHHHHHHHHHHh-cCCceEEEEEECCCCHH---HHHHcCCccCCEEEEEECCEEEEEEeCcCCHHHHHHHHHH
Confidence 44788899999988 55655554444444332 11111122222222234564 3677888888875
No 435
>PF09382 RQC: RQC domain; InterPro: IPR018982 This entry represents the RQC domain, which is a DNA-binding domain found only in RecQ family enzymes. RecQ family helicases can unwind G4 DNA, and play important roles at G-rich domains of the genome, including the telomeres, rDNA, and immunoglobulin switch regions. This domain has a helix-turn-helix structure and acts as a high affinity G4 DNA binding domain []. Binding of RecQ to Holliday junctions involves both the RQC and the HRDC domains.; GO: 0043140 ATP-dependent 3'-5' DNA helicase activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1OYW_A 1OYY_A 3AAF_A 2AXL_A 2V1X_B 2WWY_B.
Probab=21.98 E-value=51 Score=18.81 Aligned_cols=62 Identities=13% Similarity=0.051 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHc
Q 042267 19 NCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEA 86 (107)
Q Consensus 19 ~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~a 86 (107)
++..+|+-+.+.=..=|.-.++|.......... ....+.-+....-|+..+..+|++++.+.
T Consensus 5 ~a~~il~~V~~~~~~~~~~~ivdvlrGs~~~~i------~~~~~~~l~~yG~gk~~~~~~~~~li~~L 66 (106)
T PF09382_consen 5 EAKKILSCVQRLKQRFGLSQIVDVLRGSKSKKI------REKGHDQLPTYGIGKDMSKDDWERLIRQL 66 (106)
T ss_dssp HHHHHHHHHHHTTT-S-HHHHHHHHTT-S-CCC------HHTTGGGSTTTTTTTTS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccccHHHHHHHHHhccchhh------hhcCCCcCcccCCcccCCHHHHHHHHHHH
Confidence 356666666665333355556665554332211 01111112223347789999999998763
No 436
>smart00596 PRE_C2HC PRE_C2HC domain.
Probab=21.97 E-value=1.4e+02 Score=16.31 Aligned_cols=20 Identities=10% Similarity=0.117 Sum_probs=16.1
Q ss_pred HHHHHHHHHcCCCceEEEEc
Q 042267 77 KEFTALAIEAGFKGINFECN 96 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~~~~~~ 96 (107)
+++++-|++.||++..+...
T Consensus 2 ~~I~~~L~~~G~~v~~i~~m 21 (69)
T smart00596 2 SQIEEALKDIGFPVLFIHNM 21 (69)
T ss_pred HHHHHHHHHcCCceeEEEcc
Confidence 57788899999999887643
No 437
>TIGR03366 HpnZ_proposed putative phosphonate catabolism associated alcohol dehydrogenase. This clade of zinc-binding alcohol dehydrogenases (members of pfam00107) are repeatedly associated with genes proposed to be involved with the catabolism of phosphonate compounds.
Probab=21.78 E-value=1.2e+02 Score=20.55 Aligned_cols=22 Identities=23% Similarity=0.489 Sum_probs=18.1
Q ss_pred HHHHHHHhhCCCCCEEEEEeee
Q 042267 22 KILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
..++.+.+.|+|+|+++++-..
T Consensus 199 ~~~~~~~~~l~~~G~iv~~G~~ 220 (280)
T TIGR03366 199 AAVRACLESLDVGGTAVLAGSV 220 (280)
T ss_pred HHHHHHHHHhcCCCEEEEeccC
Confidence 4677888999999999988754
No 438
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.78 E-value=1e+02 Score=15.79 Aligned_cols=17 Identities=12% Similarity=0.200 Sum_probs=13.6
Q ss_pred CHHHHHHHHHHcCCCce
Q 042267 75 TKKEFTALAIEAGFKGI 91 (107)
Q Consensus 75 t~~e~~~ll~~aGf~~~ 91 (107)
..++..+.|++.||++.
T Consensus 53 ~~~~~~~~L~~~G~~v~ 69 (72)
T cd04883 53 NPRPIIEDLRRAGYEVL 69 (72)
T ss_pred CHHHHHHHHHHCCCeee
Confidence 44588999999999764
No 439
>PF06258 Mito_fiss_Elm1: Mitochondrial fission ELM1; InterPro: IPR009367 This family consists of several hypothetical eukaryotic and prokaryotic proteins. The function of this family is unknown.
Probab=21.74 E-value=1.1e+02 Score=21.54 Aligned_cols=30 Identities=20% Similarity=0.304 Sum_probs=22.7
Q ss_pred ccCCChHHHHHHHHHHHhhCCCCC-EEEEEe
Q 042267 12 LHNFDDENCIKILRNCYKALPNDG-KVLVIN 41 (107)
Q Consensus 12 lh~~~d~~~~~iL~~~~~aL~pgg-~l~i~e 41 (107)
=|.|+++++.++++.+.+..+.+| .++|.-
T Consensus 159 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~vtt 189 (311)
T PF06258_consen 159 HYRWDEEDAERLLDQLAALAAAYGGSLLVTT 189 (311)
T ss_pred CcccCHHHHHHHHHHHHHHHHhCCCeEEEEc
Confidence 377888888888888888887654 676653
No 440
>TIGR02822 adh_fam_2 zinc-binding alcohol dehydrogenase family protein. Members of this model form a distinct subset of the larger family of oxidoreductases that includes zinc-binding alcohol dehydrogenases and NADPH:quinone reductases (pfam00107). The gene neighborhood of members of this family is not conserved and it appears that no members are characterized. The sequence of the family includes 6 invariant cysteine residues and one invariant histidine. It appears that no member is characterized.
Probab=21.67 E-value=1.1e+02 Score=21.22 Aligned_cols=21 Identities=19% Similarity=0.259 Sum_probs=17.9
Q ss_pred HHHHHHHhhCCCCCEEEEEee
Q 042267 22 KILRNCYKALPNDGKVLVINS 42 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~ 42 (107)
..++...++|++||+++++-.
T Consensus 235 ~~~~~~~~~l~~~G~~v~~G~ 255 (329)
T TIGR02822 235 GLVPPALEALDRGGVLAVAGI 255 (329)
T ss_pred HHHHHHHHhhCCCcEEEEEec
Confidence 468888899999999988764
No 441
>cd05831 Ribosomal_P1 Ribosomal protein P1. This subfamily represents the eukaryotic large ribosomal protein P1. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P1 is located in the L12 stalk, with proteins P2, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers) and bacteria may have four or six copies (two or three homodimers), depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2A, and
Probab=21.60 E-value=1.4e+02 Score=17.53 Aligned_cols=26 Identities=27% Similarity=0.247 Sum_probs=21.0
Q ss_pred CCCceecCHHHHHHHHHHcCCCceEE
Q 042267 68 IPHGRERTKKEFTALAIEAGFKGINF 93 (107)
Q Consensus 68 ~~~g~~rt~~e~~~ll~~aGf~~~~~ 93 (107)
...+...|.+.+.++|+.+|.++...
T Consensus 12 ~d~~~~~Tae~I~~ilkAaGveve~~ 37 (103)
T cd05831 12 HDDGIEITADNINALLKAAGVNVEPY 37 (103)
T ss_pred ccCCCCCCHHHHHHHHHHcCCcccHH
Confidence 45788899999999999999766543
No 442
>cd04276 ZnMc_MMP_like_2 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin.
Probab=21.56 E-value=1.3e+02 Score=19.85 Aligned_cols=19 Identities=21% Similarity=0.144 Sum_probs=15.6
Q ss_pred CHHHHHHHHHHcCCCceEE
Q 042267 75 TKKEFTALAIEAGFKGINF 93 (107)
Q Consensus 75 t~~e~~~ll~~aGf~~~~~ 93 (107)
..++|.+.|+++||+..-.
T Consensus 29 A~~~Wn~~fe~~Gf~~a~~ 47 (197)
T cd04276 29 GVLYWNKAFEKAGFKNAII 47 (197)
T ss_pred HHHHHHHHHHhcCCCccEE
Confidence 4589999999999997643
No 443
>PF02479 Herpes_IE68: Herpesvirus immediate early protein; InterPro: IPR003403 This regulatory protein is expressed from an immediate early gene in the cell cycle of Herpesviridae. The protein is known by various names including IE-68, US1, ICP22 and IR4.
Probab=21.47 E-value=1.1e+02 Score=18.92 Aligned_cols=28 Identities=14% Similarity=0.080 Sum_probs=21.6
Q ss_pred hhhcHHHHhhCCCceecCHHHHHHHHHHcC
Q 042267 58 FILDAIFLIQIPHGRERTKKEFTALAIEAG 87 (107)
Q Consensus 58 ~~~~~~~~~~~~~g~~rt~~e~~~ll~~aG 87 (107)
..+|+.||.. -+...+...|+.+|+=.|
T Consensus 63 ~l~D~YlmGy--~~~Rl~~~~We~lLQlsp 90 (132)
T PF02479_consen 63 LLLDFYLMGY--TRQRLTPACWERLLQLSP 90 (132)
T ss_pred HHHHHHHHhh--ccCCCCHHHHHHHHhhCc
Confidence 4688888853 567788999999998555
No 444
>cd07455 CRD_Collagen_XVIII Cysteine-rich domain of the variant 3 of collagen XVIII (V3C18 ). The cysteine-rich domain (CRD) is an essential part of the variant 3 of collagen XVIII (V3C18), which regulates major cellular functions such as the differential epithelial morphogenesis of early lung and kidney development. V3C18 is a 170 kD protein, which is proteolotically processed into the CRD-containing 50 kD glucoprotein precursor that binds Wnt3a through its CRD domain and suppresses the Wnt3a-induced stabilization of beta catenin. Full-length V3C18 is unable to inhibit Wnt signaling.
Probab=21.47 E-value=1.3e+02 Score=18.36 Aligned_cols=34 Identities=15% Similarity=0.058 Sum_probs=26.1
Q ss_pred CceeEEEecccccCCChHHHHHHHHHHHhhCCCC
Q 042267 1 MQVYLSILQWMLHNFDDENCIKILRNCYKALPND 34 (107)
Q Consensus 1 ~~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pg 34 (107)
++|+...+-|.|.|-+.+++..-++.....++-|
T Consensus 18 l~Yn~t~~PN~lgH~sq~ea~~~~~~f~pLv~~~ 51 (123)
T cd07455 18 LGIRSFWLPNFLNHTSVEEVRAVLAEWAWLLESG 51 (123)
T ss_pred CCcccccCCcccCCCCHHHHHHHHHHHHHHHhCC
Confidence 4678888999998888888777777777766543
No 445
>KOG2698 consensus GTP cyclohydrolase I [Coenzyme transport and metabolism]
Probab=21.45 E-value=1.4e+02 Score=20.19 Aligned_cols=22 Identities=23% Similarity=0.315 Sum_probs=16.8
Q ss_pred HHHHHHHhhCCCCCEEEEEeee
Q 042267 22 KILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
+|-..+.++++|+|..+++|..
T Consensus 184 QIA~a~s~~v~p~gVaVV~Ea~ 205 (247)
T KOG2698|consen 184 QIAVALSQAVQPAGVAVVVEAT 205 (247)
T ss_pred HHHHHHHHhcCccceEEEEecc
Confidence 4455566788999999999863
No 446
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=21.37 E-value=88 Score=14.73 Aligned_cols=15 Identities=20% Similarity=-0.019 Sum_probs=12.8
Q ss_pred CceecCHHHHHHHHH
Q 042267 70 HGRERTKKEFTALAI 84 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~ 84 (107)
+|...+..|+++|++
T Consensus 26 ~G~W~d~~el~~~~e 40 (41)
T PF13453_consen 26 GGIWFDAGELEKLLE 40 (41)
T ss_pred CeEEccHHHHHHHHh
Confidence 677889999999886
No 447
>TIGR00530 AGP_acyltrn 1-acyl-sn-glycerol-3-phosphate acyltransferases. 1-acyl-sn-glycerol-3-phosphate acyltransferase is also called 1-AGP acyltransferase, lysophosphatidic acid acyltransferase, and LPA acyltransferase.
Probab=21.28 E-value=1.5e+02 Score=17.07 Aligned_cols=22 Identities=14% Similarity=0.160 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHhhCCCCCEEEE
Q 042267 18 ENCIKILRNCYKALPNDGKVLV 39 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i 39 (107)
.+....++.+.++|+.|..++|
T Consensus 73 ~~~~~~~~~~~~~l~~g~~v~i 94 (130)
T TIGR00530 73 RAIATALKAAIEVLKQGRSIGV 94 (130)
T ss_pred HHHHHHHHHHHHHHhCCCEEEE
Confidence 3467889999999999887754
No 448
>PF00724 Oxidored_FMN: NADH:flavin oxidoreductase / NADH oxidase family; InterPro: IPR001155 The TIM-barrel fold is a closed barrel structure composed of an eight-fold repeat of beta-alpha units, where the eight parallel beta strands on the inside are covered by the eight alpha helices on the outside []. It is a widely distributed fold which has been found in many enzyme families that catalyse completely unrelated reactions []. The active site is always found at the C-terminal end of this domain. Proteins in this entry are a variety of NADH:flavin oxidoreductase/NADH oxidase enzymes, found mostly in bacteria or fungi, that contain a TIM-barrel fold. They commonly use FMN/FAD as cofactor and include: dimethylamine dehydrogenase trimethylamine dehydrogenase 12-oxophytodienoate reductase NADPH dehydrogenase NADH oxidase ; GO: 0010181 FMN binding, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3GKA_B 3P67_A 3F03_K 2ABA_A 1VYR_A 1GVO_A 3KFT_B 3P8I_A 1GVQ_A 3P74_A ....
Probab=21.23 E-value=2.5e+02 Score=19.97 Aligned_cols=83 Identities=24% Similarity=0.236 Sum_probs=40.7
Q ss_pred CCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhh-------hhcHHHHhhCCCceecCHHHHHHHH---
Q 042267 14 NFDDENCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSF-------ILDAIFLIQIPHGRERTKKEFTALA--- 83 (107)
Q Consensus 14 ~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~g~~rt~~e~~~ll--- 83 (107)
-|+|+ ...-++++.+++...|..++++.........+....... ............-+.-|.+|++++.
T Consensus 73 i~~d~-~i~~~k~l~~~vh~~Ga~i~~QL~H~G~~~~~~~~~~~~~~psa~~~~~~~~~~~~~~~~~mt~~eI~~ii~~f 151 (341)
T PF00724_consen 73 IWDDE-QIPGLKKLADAVHAHGAKIIAQLWHAGRQANPEYSGDPPVGPSAPSALPSPIKFMGYPPREMTEEEIEEIIEDF 151 (341)
T ss_dssp SSSHH-HHHHHHHHHHHHHHTTSEEEEEEE--GGGSSGCCSGGGCEESSCSSSSSTTTTETSCEEEE--HHHHHHHHHHH
T ss_pred hchhh-HHHHHHHHHHHHHhcCccceeeccccccccCcccCCCCccCcccccccCcccccCCCCCeeCCHHHHHHHHHHH
Confidence 35554 678889999999887776677654322111100000000 0000000000012466787777664
Q ss_pred -------HHcCCCceEEEEcC
Q 042267 84 -------IEAGFKGINFECNV 97 (107)
Q Consensus 84 -------~~aGf~~~~~~~~~ 97 (107)
++|||--+++.--.
T Consensus 152 ~~AA~~A~~AGfDGVEIH~ah 172 (341)
T PF00724_consen 152 AQAARRAKEAGFDGVEIHAAH 172 (341)
T ss_dssp HHHHHHHHHTT-SEEEEEEST
T ss_pred HHHHHHHHHhccCeEeecccc
Confidence 67999999997653
No 449
>cd00132 CRIB PAK (p21 activated kinase) Binding Domain (PBD), binds Cdc42p- and/or Rho-like small GTPases; also known as the Cdc42/Rac interactive binding (CRIB) motif; has been shown to inhibit transcriptional activation and cell transformation mediated by the Ras-Rac pathway. CRIB-containing effector proteins are functionally diverse and include serine/threonine kinases, tyrosine kinases, actin-binding proteins, and adapter molecules.
Probab=21.18 E-value=97 Score=14.84 Aligned_cols=14 Identities=21% Similarity=0.344 Sum_probs=11.3
Q ss_pred HHHHHHHHHHcCCC
Q 042267 76 KKEFTALAIEAGFK 89 (107)
Q Consensus 76 ~~e~~~ll~~aGf~ 89 (107)
..+|..++..+|.+
T Consensus 28 p~~w~~l~~~~~is 41 (42)
T cd00132 28 PPDLQSLFQTAGIS 41 (42)
T ss_pred CHHHHHHHHHccCC
Confidence 45999999998854
No 450
>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function. ; PDB: 1UFW_A 2DNR_A.
Probab=21.16 E-value=54 Score=20.69 Aligned_cols=27 Identities=19% Similarity=0.284 Sum_probs=5.3
Q ss_pred CCChHHHHHHHHHHHhhCCC-CCEEEEE
Q 042267 14 NFDDENCIKILRNCYKALPN-DGKVLVI 40 (107)
Q Consensus 14 ~~~d~~~~~iL~~~~~aL~p-gg~l~i~ 40 (107)
..+.+.+.++++.+.+.+.| +|.+++.
T Consensus 6 ~Vd~~~r~~Vf~eVi~~~GPpDaTVvVs 33 (146)
T PF08952_consen 6 EVDEEKRESVFEEVISSQGPPDATVVVS 33 (146)
T ss_dssp --------------S-----TT-EEEEE
T ss_pred EeCHHHHHHHHHHHHHhcCCCCceEEEE
Confidence 34556688999999999955 8888774
No 451
>PF14794 DUF4479: Domain of unknown function (DUF4479); PDB: 3BU2_C.
Probab=21.13 E-value=95 Score=17.03 Aligned_cols=15 Identities=20% Similarity=0.290 Sum_probs=8.8
Q ss_pred HHHHHHHHHcCCCce
Q 042267 77 KEFTALAIEAGFKGI 91 (107)
Q Consensus 77 ~e~~~ll~~aGf~~~ 91 (107)
+.+.+.|+++||...
T Consensus 54 ~~LN~~l~~~Gf~~~ 68 (73)
T PF14794_consen 54 AKLNQALQKAGFDEE 68 (73)
T ss_dssp HHHHHHHHHTT----
T ss_pred HHHHHHHHHcCCCce
Confidence 556778999999853
No 452
>PF13602 ADH_zinc_N_2: Zinc-binding dehydrogenase; PDB: 3TQH_A 2VN8_A 3GOH_A 4A27_A.
Probab=21.12 E-value=21 Score=20.83 Aligned_cols=19 Identities=32% Similarity=0.487 Sum_probs=13.4
Q ss_pred HHHHHHHhhCCCCCEEEEEe
Q 042267 22 KILRNCYKALPNDGKVLVIN 41 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e 41 (107)
.++..+.+.| |||+++.+.
T Consensus 33 ~~~~~~~~~l-~~G~~v~i~ 51 (127)
T PF13602_consen 33 SLLDASRKLL-PGGRVVSIG 51 (127)
T ss_dssp HCGGGCCCTE-EEEEEEEE-
T ss_pred HHHHHHHHHC-CCCEEEEEC
Confidence 4557777888 999986654
No 453
>PRK13961 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional
Probab=21.09 E-value=1.9e+02 Score=20.55 Aligned_cols=45 Identities=18% Similarity=0.215 Sum_probs=28.2
Q ss_pred CCEEEEEeee-CCCCCCCchhhhhhhhhcHHHHhhCCCc---eecCHHHHHHHHHHcCCCc
Q 042267 34 DGKVLVINST-LPEVPDSTEASRDSFILDAIFLIQIPHG---RERTKKEFTALAIEAGFKG 90 (107)
Q Consensus 34 gg~l~i~e~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g---~~rt~~e~~~ll~~aGf~~ 90 (107)
+|.++++|.+ .|++ .++|+.... ..| ...+.+-++.|+++.|+..
T Consensus 216 ~g~iiL~DEI~TPDs---------~R~Wd~~~~---e~g~~~~~lDKq~~R~~l~~~~~~~ 264 (296)
T PRK13961 216 DGTLTLMDEVLTPDS---------SRFWPADSY---QPGTSQPSFDKQFVRDWLETSGWDK 264 (296)
T ss_pred CCcEEEEeeccCCCc---------ceecccccc---ccCCcccccCHHHHHHHHHhcCCCC
Confidence 5788888887 4433 124443211 122 2467888999999988863
No 454
>PF08532 Glyco_hydro_42M: Beta-galactosidase trimerisation domain; InterPro: IPR013738 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is non catalytic domain B of beta-galactosidase enzymes belong to the glycosyl hydrolase 42 family. This domain is related to glutamine amidotransferase enzymes, but the catalytic residues are replaced by non functional amino acids. This domain is involved in trimerisation. ; GO: 0004565 beta-galactosidase activity, 0005975 carbohydrate metabolic process; PDB: 1KWK_A 1KWG_A.
Probab=21.05 E-value=1.2e+02 Score=19.74 Aligned_cols=34 Identities=12% Similarity=0.165 Sum_probs=15.0
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVI 40 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~ 40 (107)
+|.++++..+. ..++ +..+++.+-.+.||.|++-
T Consensus 57 ~Ykllv~P~~~-~l~~----~~~~~L~~yV~~GG~li~~ 90 (207)
T PF08532_consen 57 GYKLLVLPSLY-ILSP----EFAERLRAYVENGGTLILT 90 (207)
T ss_dssp T-SEEEES--S-C--H----HH---HHHHHT-SS-EEE-
T ss_pred cCcEEEEeeEE-EECh----HHHHHHHHHHHCCCEEEEE
Confidence 46777777764 3444 4455556666679999763
No 455
>TIGR02819 fdhA_non_GSH formaldehyde dehydrogenase, glutathione-independent. Members of this family represent a distinct clade within the larger family of zinc-dependent dehydrogenases of medium chain alcohols, a family that also includes the so-called glutathione-dependent formaldehyde dehydrogenase. Members of this protein family have a tightly bound NAD that can act as a true cofactor, rather than a cosubstrate in dehydrogenase reactions, in dismutase reactions for some aldehydes. The name given to this family, however, is formaldehyde dehydrogenase, glutathione-independent.
Probab=21.04 E-value=1.2e+02 Score=21.92 Aligned_cols=22 Identities=9% Similarity=0.086 Sum_probs=18.9
Q ss_pred HHHHHHHhhCCCCCEEEEEeee
Q 042267 22 KILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 22 ~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
..++.+.+.+++||+++++-..
T Consensus 280 ~~~~~~~~~~~~~G~i~~~G~~ 301 (393)
T TIGR02819 280 TVLNSLMEVTRVGGAIGIPGLY 301 (393)
T ss_pred HHHHHHHHHhhCCCEEEEeeec
Confidence 5788889999999999998754
No 456
>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion. Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.
Probab=20.99 E-value=2.4e+02 Score=18.01 Aligned_cols=7 Identities=14% Similarity=0.885 Sum_probs=3.8
Q ss_pred CEEEEEe
Q 042267 35 GKVLVIN 41 (107)
Q Consensus 35 g~l~i~e 41 (107)
..+++.|
T Consensus 108 p~llLlD 114 (176)
T cd03238 108 GTLFILD 114 (176)
T ss_pred CCEEEEe
Confidence 5555555
No 457
>PF00926 DHBP_synthase: 3,4-dihydroxy-2-butanone 4-phosphate synthase; InterPro: IPR000422 3,4-dihydroxy-2-butanone 4-phosphate synthase (4.1.99.12 from EC) (DHBP synthase) (RibB) catalyses the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate, the latter serving as the biosynthetic precursor for the xylene ring of riboflavin []. In Photobacterium leiognathi, the riboflavin synthesis genes ribB (DHBP synthase), ribE (riboflavin synthase), ribH (lumazone synthase) and ribA (GTP cyclohydrolase II) all reside in the lux operon []. RibB is sometimes found as a bifunctional enzyme with GTP cyclohydrolase II that catalyses the first committed step in the biosynthesis of riboflavin (IPR000926 from INTERPRO). No sequences with significant homology to DHBP synthase are found in the metazoa.; GO: 0008686 3,4-dihydroxy-2-butanone-4-phosphate synthase activity, 0009231 riboflavin biosynthetic process; PDB: 1K4O_A 1K4L_A 1K4P_A 1K49_A 1K4I_A 1TKU_A 1TKS_B 2RIS_A 2RIU_A 3MIO_A ....
Probab=20.96 E-value=62 Score=21.36 Aligned_cols=21 Identities=19% Similarity=0.324 Sum_probs=15.8
Q ss_pred HHHHHhhCCCCCEEEEEeeeC
Q 042267 24 LRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 24 L~~~~~aL~pgg~l~i~e~~~ 44 (107)
++++.++|+.|+.++|+|.-.
T Consensus 1 ie~ai~al~~G~~Viv~D~~~ 21 (194)
T PF00926_consen 1 IEEAIEALKAGKPVIVVDDED 21 (194)
T ss_dssp HHHHHHHHHTTS-EEEECSST
T ss_pred CHHHHHHHHCCCeEEEEeCCC
Confidence 357788899999999998543
No 458
>COG0285 FolC Folylpolyglutamate synthase [Coenzyme metabolism]
Probab=20.96 E-value=76 Score=23.63 Aligned_cols=22 Identities=27% Similarity=0.308 Sum_probs=19.6
Q ss_pred CceecCHHHHHHHHHHcCCCce
Q 042267 70 HGRERTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~ 91 (107)
|||.-|-.-.+++|.++||++-
T Consensus 53 NGKGSt~afl~siL~~aG~~VG 74 (427)
T COG0285 53 NGKGSTCAFLESILREAGYKVG 74 (427)
T ss_pred CCchhHHHHHHHHHHHcCCCce
Confidence 8888888999999999999954
No 459
>PRK06402 rpl12p 50S ribosomal protein L12P; Reviewed
Probab=20.95 E-value=1.2e+02 Score=18.04 Aligned_cols=24 Identities=17% Similarity=0.237 Sum_probs=19.8
Q ss_pred CCceecCHHHHHHHHHHcCCCceE
Q 042267 69 PHGRERTKKEFTALAIEAGFKGIN 92 (107)
Q Consensus 69 ~~g~~rt~~e~~~ll~~aGf~~~~ 92 (107)
.+|+..|.+.+.++|+.+|-++..
T Consensus 12 ~~g~~it~e~I~~IL~AAGveVee 35 (106)
T PRK06402 12 SAGKEINEDNLKKVLEAAGVEVDE 35 (106)
T ss_pred hcCCCCCHHHHHHHHHHcCCCccH
Confidence 377899999999999999966543
No 460
>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]
Probab=20.85 E-value=1.1e+02 Score=25.62 Aligned_cols=26 Identities=31% Similarity=0.231 Sum_probs=21.8
Q ss_pred CceecCHHHHHHHHHHcCCCceEEEE
Q 042267 70 HGRERTKKEFTALAIEAGFKGINFEC 95 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~~~~~~ 95 (107)
+++.-|..|+-.+|+.|||+.-..+.
T Consensus 112 D~k~Vtk~evvnLLESAGFSrsNPYy 137 (1200)
T KOG0964|consen 112 DNKMVTKGEVVNLLESAGFSRSNPYY 137 (1200)
T ss_pred ccccccHHHHHHHHHhcCcccCCCce
Confidence 67788999999999999999765443
No 461
>cd03067 PDI_b_PDIR_N PDIb family, PDIR subfamily, N-terminal TRX-like b domain; composed of proteins similar to human PDIR (for Protein Disulfide Isomerase Related). PDIR is composed of three redox active TRX (a) domains and an N-terminal redox inactive TRX-like (b) domain. Similar to PDI, it is involved in oxidative protein folding in the endoplasmic reticulum (ER) through its isomerase and chaperone activities. These activities are lower compared to PDI, probably due to PDIR acting only on a subset of proteins. PDIR is preferentially expressed in cells actively secreting proteins and its expression is induced by stress. Similar to PDI, the isomerase and chaperone activities of PDIR are independent; CXXC mutants lacking isomerase activity retain chaperone activity. The TRX-like b domain of PDIR is critical for its chaperone activity.
Probab=20.85 E-value=2e+02 Score=17.17 Aligned_cols=26 Identities=23% Similarity=0.411 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
+.-.+++++++++++-.|.+..+|.-
T Consensus 34 ~~~Lk~~~~~A~~vkG~gT~~~vdCg 59 (112)
T cd03067 34 EALLKLLSDVAQAVKGQGTIAWIDCG 59 (112)
T ss_pred HHHHHHHHHHHHHhcCceeEEEEecC
Confidence 33578899999999999999999965
No 462
>PF03668 ATP_bind_2: P-loop ATPase protein family; InterPro: IPR005337 This entry represents UPF0042 nucleotide-binding proteins. This is a family of putative P-loop ATPases [], as they contain an ATP-binding site and display ATPase and GTPase activities.; GO: 0005524 ATP binding
Probab=20.85 E-value=89 Score=22.00 Aligned_cols=24 Identities=17% Similarity=0.304 Sum_probs=18.4
Q ss_pred hCCCceecCH---HHHHHHHHHcCCCce
Q 042267 67 QIPHGRERTK---KEFTALAIEAGFKGI 91 (107)
Q Consensus 67 ~~~~g~~rt~---~e~~~ll~~aGf~~~ 91 (107)
|+ ||+.||. +++.+.|++.|+.+.
T Consensus 249 CT-GG~HRSV~iae~La~~L~~~~~~v~ 275 (284)
T PF03668_consen 249 CT-GGQHRSVAIAERLAERLREKGYTVV 275 (284)
T ss_pred cC-CCcCcHHHHHHHHHHHHHhcCCcce
Confidence 45 8898887 677788888887665
No 463
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=20.81 E-value=1.6e+02 Score=21.35 Aligned_cols=26 Identities=12% Similarity=0.079 Sum_probs=21.6
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCC
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLP 45 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~ 45 (107)
+.+.+..+.+.+++||.+...+.+..
T Consensus 268 a~~fl~~A~~~~k~~g~iHyy~~~~e 293 (341)
T COG2520 268 AHEFLPLALELLKDGGIIHYYEFVPE 293 (341)
T ss_pred chhhHHHHHHHhhcCcEEEEEeccch
Confidence 56788888899999999999887643
No 464
>cd07441 CRD_SFRP3 Cysteine-rich domain of the secreted frizzled-related protein 3 (SFRP3, alias FRZB), a Wnt antagonist. The cysteine-rich domain (CRD) is an essential part of the secreted frizzled-related protein 3 (SFRP3, alias FRZB), which plays important roles in embryogenesis and postnatal development as an antagonist of Wnt proteins, key players in a number of fundamental cellular processes. SFRPs antagonize the activation of Wnt signaling by binding to the CRD domains of frizzled proteins (Fz), thereby preventing Wnt proteins from binding to these receptors. SFRPs are also known to have functions unrelated to Wnt, as enhancers of procollagen cleavage by the TLD proteinases. SFRPs and Fz proteins both contain CRD domains, but SFRPs lack the seven-pass transmembrane domain which is an integral part of Fzs. SFRP3 regulates Wnt signaling activity in bone development and homeostasis. It is also involved in the control of planar cell polarity.
Probab=20.80 E-value=1.3e+02 Score=18.38 Aligned_cols=34 Identities=15% Similarity=0.156 Sum_probs=26.5
Q ss_pred CceeEEEecccccCCChHHHHHHHHHHHhhCCCC
Q 042267 1 MQVYLSILQWMLHNFDDENCIKILRNCYKALPND 34 (107)
Q Consensus 1 ~~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pg 34 (107)
++|+.-.+-|.+.|-+.+++..-++.....++-|
T Consensus 15 l~Yn~T~~PN~lgH~~q~ea~~~~~~f~pLv~~~ 48 (126)
T cd07441 15 MPWNMTKMPNHLHHSTQANAVLAIEQFEGLLGTQ 48 (126)
T ss_pred CCcCcccCCcccCCCCHHHHHHHHHHHHHHhcCC
Confidence 4678888999999888888877777777766544
No 465
>PF03434 DUF276: DUF276 ; InterPro: IPR005096 This family is specific to Borrelia burgdorferi (Lyme disease spirochete). The protein is encoded on extrachromosomal DNA and is of unknown function.
Probab=20.68 E-value=1.1e+02 Score=21.12 Aligned_cols=21 Identities=19% Similarity=0.316 Sum_probs=17.9
Q ss_pred hHHHHHHHHHHHhhCCCCCEE
Q 042267 17 DENCIKILRNCYKALPNDGKV 37 (107)
Q Consensus 17 d~~~~~iL~~~~~aL~pgg~l 37 (107)
+.+...-|...+..|+|||..
T Consensus 54 e~eii~~ln~lFsk~K~~g~Y 74 (291)
T PF03434_consen 54 EEEIINELNLLFSKMKPGGTY 74 (291)
T ss_pred HHHHHHHHHHHHHhcCCCchH
Confidence 566788899999999999875
No 466
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=20.64 E-value=1.1e+02 Score=17.50 Aligned_cols=21 Identities=14% Similarity=0.302 Sum_probs=11.2
Q ss_pred CceecCHHHHHHHHHHcCCCc
Q 042267 70 HGRERTKKEFTALAIEAGFKG 90 (107)
Q Consensus 70 ~g~~rt~~e~~~ll~~aGf~~ 90 (107)
|...++.+++.+-|+..||..
T Consensus 38 Nns~~s~~~~~~~L~~~Gi~~ 58 (101)
T PF13344_consen 38 NNSSRSREEYAKKLKKLGIPV 58 (101)
T ss_dssp S-SSS-HHHHHHHHHHTTTT-
T ss_pred CCCCCCHHHHHHHHHhcCcCC
Confidence 333456666666666666664
No 467
>COG4808 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.56 E-value=98 Score=19.44 Aligned_cols=21 Identities=29% Similarity=0.379 Sum_probs=17.8
Q ss_pred ceecCHHHHHHHHHHcCCCce
Q 042267 71 GRERTKKEFTALAIEAGFKGI 91 (107)
Q Consensus 71 g~~rt~~e~~~ll~~aGf~~~ 91 (107)
.+-.|-.+-+.+|+++||..+
T Consensus 131 ~k~iSm~~sek~Lk~~Gfke~ 151 (152)
T COG4808 131 SKGISMKQSEKLLKAAGFKEV 151 (152)
T ss_pred cccccHHHHHHHHHhcCcccC
Confidence 356788999999999999864
No 468
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=20.55 E-value=1.5e+02 Score=20.58 Aligned_cols=56 Identities=18% Similarity=0.190 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcC-CCceEEEEc-
Q 042267 19 NCIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAG-FKGINFECN- 96 (107)
Q Consensus 19 ~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aG-f~~~~~~~~- 96 (107)
-..+++.++.+.|+|||.+++ |.-.. ..+++.+++.+.| |..+...+-
T Consensus 216 ~~~~i~~~a~~~l~~~g~l~l-e~g~~-----------------------------q~~~v~~~~~~~~~~~~v~~~~d~ 265 (280)
T COG2890 216 VYRRILGEAPDILKPGGVLIL-EIGLT-----------------------------QGEAVKALFEDTGFFEIVETLKDL 265 (280)
T ss_pred HHHHHHHhhHHHcCCCcEEEE-EECCC-----------------------------cHHHHHHHHHhcCCceEEEEEecC
Confidence 367889999999999777755 32110 1357788888888 565555443
Q ss_pred CCceeEEE
Q 042267 97 VCNSYVME 104 (107)
Q Consensus 97 ~~~~~vi~ 104 (107)
.+...++.
T Consensus 266 ~g~~rv~~ 273 (280)
T COG2890 266 FGRDRVVL 273 (280)
T ss_pred CCceEEEE
Confidence 34444443
No 469
>PF13472 Lipase_GDSL_2: GDSL-like Lipase/Acylhydrolase family; PDB: 1ES9_A 1WAB_A 3DT9_A 1BWQ_A 1FXW_A 3DT6_A 1BWR_A 3DT8_A 1BWP_A 2WAA_A ....
Probab=20.55 E-value=1.2e+02 Score=17.98 Aligned_cols=42 Identities=17% Similarity=0.284 Sum_probs=25.3
Q ss_pred ceeEEEecccccCCCh--------HHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 2 QVYLSILQWMLHNFDD--------ENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d--------~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
..|++++..-..|+.. ++...-++++.+.+++.++++++...
T Consensus 61 ~~d~vvi~~G~ND~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~vi~~~~~ 110 (179)
T PF13472_consen 61 KPDLVVISFGTNDVLNGDENDTSPEQYEQNLRRIIEQLRPHGPVILVSPP 110 (179)
T ss_dssp TCSEEEEE--HHHHCTCTTCHHHHHHHHHHHHHHHHHHHTTSEEEEEE-S
T ss_pred CCCEEEEEcccccccccccccccHHHHHHHHHHHHHhhcccCcEEEecCC
Confidence 3566666655444332 33556677777778888888888765
No 470
>PF12419 DUF3670: SNF2 Helicase protein ; InterPro: IPR022138 This domain family is found in bacteria, archaea and eukaryotes, and is approximately 140 amino acids in length. The family is found in association with PF00271 from PFAM, PF00176 from PFAM. Most of the proteins in this family are annotated as SNF2 helicases but there is little accompanying literature to confirm this.
Probab=20.55 E-value=1.5e+02 Score=18.16 Aligned_cols=79 Identities=16% Similarity=0.161 Sum_probs=43.7
Q ss_pred CCChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCC--CCc-------hhhhhhhhhcHHHHh-----hCCCceecCHHHH
Q 042267 14 NFDDENCIKILRNCYKALPNDGKVLVINSTLPEVP--DST-------EASRDSFILDAIFLI-----QIPHGRERTKKEF 79 (107)
Q Consensus 14 ~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~--~~~-------~~~~~~~~~~~~~~~-----~~~~g~~rt~~e~ 79 (107)
.++.+++..+|.+....|+.-|.-++.-.-..... ... ........+++..++ ..-|+...|.+|+
T Consensus 10 ~L~~~ea~~FL~~~~~~L~~~Gi~V~lP~~w~~~~~~~l~l~~~~~~~~~~~~~~lgl~~l~~f~W~lalGd~~Ls~eEf 89 (141)
T PF12419_consen 10 ELTTEEAYDFLTEAAPRLRAAGIGVLLPSWWKKVRRPRLRLRAKATSPGGSSQSFLGLDQLLDFDWELALGDEELSEEEF 89 (141)
T ss_pred ccCHHHHHHHHHHHHHHHHHCCCeEEcCHHHhhccCCCcEEEEEeccCCCCCCCccChHHHhcceEEEEECCEECCHHHH
Confidence 36778899999998888887666655532211100 000 000001122222211 0137889999999
Q ss_pred HHHHHHcCCCceEE
Q 042267 80 TALAIEAGFKGINF 93 (107)
Q Consensus 80 ~~ll~~aGf~~~~~ 93 (107)
++++++.. ..+++
T Consensus 90 ~~L~~~~~-~LV~~ 102 (141)
T PF12419_consen 90 EQLVEQKR-PLVRF 102 (141)
T ss_pred HHHHHcCC-CeEEE
Confidence 99999754 44443
No 471
>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p. Ribosomal proteins P1 and P2 are the eukaryotic proteins that are functionally equivalent to bacterial L7/L12. L12p is the archaeal homolog. Unlike other ribosomal proteins, the archaeal L12p and eukaryotic P1 and P2 do not share sequence similarity with their bacterial counterparts. They are part of the ribosomal stalk (called the L7/L12 stalk in bacteria), along with 28S rRNA and the proteins L11 and P0 in eukaryotes (23S rRNA, L11, and L10e in archaea). In bacterial ribosomes, L7/L12 homodimers bind the extended C-terminal helix of L10 to anchor the L7/L12 molecules to the ribosome. Eukaryotic P1/P2 heterodimers and archaeal L12p homodimers are believed to bind the L10 equivalent proteins, eukaryotic P0 and archaeal L10e, in a similar fashion. P1 and P2 (L12p, L7/L12) are the only proteins in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain
Probab=20.45 E-value=1.5e+02 Score=17.44 Aligned_cols=24 Identities=25% Similarity=0.224 Sum_probs=19.5
Q ss_pred CCceecCHHHHHHHHHHcCCCceE
Q 042267 69 PHGRERTKKEFTALAIEAGFKGIN 92 (107)
Q Consensus 69 ~~g~~rt~~e~~~ll~~aGf~~~~ 92 (107)
.+|+..|.+.+.++|..+|-++..
T Consensus 12 ~~g~~~ta~~I~~IL~aaGveVe~ 35 (105)
T cd04411 12 KGGKELTEDKIKELLSAAGAEIEP 35 (105)
T ss_pred hcCCCCCHHHHHHHHHHcCCCcCH
Confidence 377779999999999999966543
No 472
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=20.42 E-value=1.7e+02 Score=16.08 Aligned_cols=54 Identities=11% Similarity=0.152 Sum_probs=34.0
Q ss_pred HHHHHHHHHhhCCCCCEEEEEeeeCCCCCCCchhhhhhhhhcHHHHhhCCCceecCHHHHHHHHHHcCCCceEEEEcCCc
Q 042267 20 CIKILRNCYKALPNDGKVLVINSTLPEVPDSTEASRDSFILDAIFLIQIPHGRERTKKEFTALAIEAGFKGINFECNVCN 99 (107)
Q Consensus 20 ~~~iL~~~~~aL~pgg~l~i~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~rt~~e~~~ll~~aGf~~~~~~~~~~~ 99 (107)
..-.+++..+.|++|+.|.|.- + ++. +.+.+..|.++.|.+.......++.
T Consensus 22 Pll~~kk~l~~l~~G~~l~V~~---d-d~~-------------------------~~~di~~~~~~~G~~~~~~~~~~g~ 72 (81)
T PRK00299 22 PVMMVRKTVRNMQPGETLLIIA---D-DPA-------------------------TTRDIPSFCRFMDHELLAQETEQLP 72 (81)
T ss_pred HHHHHHHHHHcCCCCCEEEEEe---C-Ccc-------------------------HHHHHHHHHHHcCCEEEEEEecCCE
Confidence 3455777777888888776522 2 111 2457778888899998776554444
Q ss_pred eeE
Q 042267 100 SYV 102 (107)
Q Consensus 100 ~~v 102 (107)
+.+
T Consensus 73 ~~~ 75 (81)
T PRK00299 73 YRY 75 (81)
T ss_pred EEE
Confidence 433
No 473
>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.
Probab=20.31 E-value=1.2e+02 Score=19.16 Aligned_cols=36 Identities=17% Similarity=0.229 Sum_probs=17.9
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEE
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVL 38 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~ 38 (107)
.+|+++++.+ -..++++..+-+++..+.++|+.+++
T Consensus 142 ~ADvIvlnK~-D~~~~~~~i~~~~~~ir~lnp~a~Iv 177 (178)
T PF02492_consen 142 FADVIVLNKI-DLVSDEQKIERVREMIRELNPKAPIV 177 (178)
T ss_dssp T-SEEEEE-G-GGHHHH--HHHHHHHHHHH-TTSEEE
T ss_pred hcCEEEEecc-ccCChhhHHHHHHHHHHHHCCCCEEe
Confidence 3566766665 12233323356666667778877764
No 474
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=20.31 E-value=2e+02 Score=16.90 Aligned_cols=39 Identities=8% Similarity=-0.051 Sum_probs=25.2
Q ss_pred ceeEEEecccccCCChHHHHHHHHHHHhhCCCCCEEEEEeee
Q 042267 2 QVYLSILQWMLHNFDDENCIKILRNCYKALPNDGKVLVINST 43 (107)
Q Consensus 2 ~~D~v~~~~vlh~~~d~~~~~iL~~~~~aL~pgg~l~i~e~~ 43 (107)
++|++.++... ++...+.++.+.+++. .|+..+++--..
T Consensus 39 ~pdiv~~S~~~--~~~~~~~~~~~~ik~~-~p~~~iv~GG~~ 77 (127)
T cd02068 39 KPDVVGISLMT--SAIYEALELAKIAKEV-LPNVIVVVGGPH 77 (127)
T ss_pred CCCEEEEeecc--ccHHHHHHHHHHHHHH-CCCCEEEECCcc
Confidence 57888888543 3444577788877775 566666665444
No 475
>smart00463 SMR Small MutS-related domain.
Probab=20.23 E-value=1.3e+02 Score=16.16 Aligned_cols=24 Identities=21% Similarity=0.318 Sum_probs=18.1
Q ss_pred ccCCChHHHHHHHHHHHhhCCCCC
Q 042267 12 LHNFDDENCIKILRNCYKALPNDG 35 (107)
Q Consensus 12 lh~~~d~~~~~iL~~~~~aL~pgg 35 (107)
||.++-+++...|...-+.+...+
T Consensus 6 LHG~~~~eA~~~l~~~l~~~~~~~ 29 (80)
T smart00463 6 LHGLTVEEALTALDKFLNNARLKG 29 (80)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHcC
Confidence 688988888888877776665544
No 476
>PRK07116 flavodoxin; Provisional
Probab=20.16 E-value=2.3e+02 Score=17.52 Aligned_cols=15 Identities=13% Similarity=0.175 Sum_probs=12.3
Q ss_pred cCHHHHHHHHHHcCC
Q 042267 74 RTKKEFTALAIEAGF 88 (107)
Q Consensus 74 rt~~e~~~ll~~aGf 88 (107)
.+.+++++|+++.|+
T Consensus 146 ~~~~~i~~wl~~~~~ 160 (160)
T PRK07116 146 ASKEEIKEWINKLDL 160 (160)
T ss_pred CcHHHHHHHHHHcCC
Confidence 467789999999875
No 477
>PF04361 DUF494: Protein of unknown function (DUF494); InterPro: IPR007456 Members of this family of uncharacterised proteins are often named Smg.
Probab=20.12 E-value=50 Score=20.91 Aligned_cols=24 Identities=17% Similarity=0.221 Sum_probs=18.6
Q ss_pred ceecCHHHHHHHHHHcCCCceEEE
Q 042267 71 GRERTKKEFTALAIEAGFKGINFE 94 (107)
Q Consensus 71 g~~rt~~e~~~ll~~aGf~~~~~~ 94 (107)
....+.+++.+.|.++||...++.
T Consensus 18 ~~~~d~~~L~~~L~~aGF~~~eI~ 41 (155)
T PF04361_consen 18 DACPDQDDLTRELSAAGFEDEEIN 41 (155)
T ss_pred ccCCCHHHHHHHHHHcCCCHHHHH
Confidence 344678899999999999876653
No 478
>cd00692 ligninase Ligninase and other manganese-dependent fungal peroxidases. Ligninases and related extracellular fungal peroxidases belong to class II of the plant heme-dependent peroxidase superfamily. All members of the superfamily share a heme prosthetic group and catalyze a multistep oxidative reaction involving hydrogen peroxide as the electron acceptor. Class II peroxidases are fungal glycoproteins that have been implicated in the oxidative breakdown of lignin, the main cell wall component of woody plants. They contain four conserved disulphide bridges and two conserved calcium binding sites.
Probab=20.10 E-value=51 Score=23.65 Aligned_cols=29 Identities=17% Similarity=0.154 Sum_probs=23.8
Q ss_pred cCHHHHHHHHHHcCCCceEEEEcCCceeE
Q 042267 74 RTKKEFTALAIEAGFKGINFECNVCNSYV 102 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~~~~~~~~~~~v 102 (107)
-+..++.+.|+..||...+++.+.+.|++
T Consensus 148 ~sv~~l~~~F~~~Gf~~~E~VaLsGAHTi 176 (328)
T cd00692 148 DSVDKILARFADAGFSPDELVALLAAHSV 176 (328)
T ss_pred CCHHHHHHHHHHcCCCHHHHhhhcccccc
Confidence 45789999999999999888777666665
No 479
>cd00693 secretory_peroxidase Horseradish peroxidase and related secretory plant peroxidases. Secretory peroxidases belong to class III of the plant heme-dependent peroxidase superfamily. All members of the superfamily share a heme prosthetic group and catalyze a multistep oxidative reaction involving hydrogen peroxide as the electron acceptor. Class III peroxidases are found in the extracellular space or in the vacuole in plants where they have been implicated in hydrogen peroxide detoxification, auxin catabolism and lignin biosynthesis, and stress response. Class III peroxidases contain four conserved disulphide bridges and two conserved calcium binding sites.
Probab=20.10 E-value=91 Score=21.98 Aligned_cols=29 Identities=7% Similarity=0.047 Sum_probs=23.9
Q ss_pred cCHHHHHHHHHHcCCCceEEEEcCCceeE
Q 042267 74 RTKKEFTALAIEAGFKGINFECNVCNSYV 102 (107)
Q Consensus 74 rt~~e~~~ll~~aGf~~~~~~~~~~~~~v 102 (107)
.+..++.+.|+..||...+.+.+.+.|++
T Consensus 141 ~~~~~l~~~F~~~G~~~~d~VaL~GaHTi 169 (298)
T cd00693 141 FSVSQLISLFASKGLTVTDLVALSGAHTI 169 (298)
T ss_pred cCHHHHHHHHHHcCCCHHHheeeccccee
Confidence 46689999999999999888877766665
No 480
>COG0001 HemL Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]
Probab=20.06 E-value=1.5e+02 Score=22.29 Aligned_cols=41 Identities=12% Similarity=0.160 Sum_probs=30.8
Q ss_pred EEEecccccC----CChHHHHHHHHHHHhhCCCCCEEEEEeeeCCCCC
Q 042267 5 LSILQWMLHN----FDDENCIKILRNCYKALPNDGKVLVINSTLPEVP 48 (107)
Q Consensus 5 ~v~~~~vlh~----~~d~~~~~iL~~~~~aL~pgg~l~i~e~~~~~~~ 48 (107)
+|+.--+.++ .++ ..+|+.+++..+..|.++|.|.+....+
T Consensus 203 aVIvEPv~gn~g~i~p~---~~Fl~~Lr~lt~e~G~lLI~DEViTGFR 247 (432)
T COG0001 203 AVIVEPVAGNMGVVPPE---PGFLEGLRELTEEHGALLIFDEVITGFR 247 (432)
T ss_pred EEEeccccCCCCCCCCC---HHHHHHHHHHHHHcCcEEEEecchhhcc
Confidence 4555556666 444 5788888888889999999999876554
No 481
>cd06542 GH18_EndoS-like Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain. Some members also have an additional C-terminal glycosyl hydrolase family 20 (GH20) domain while others have an N-terminal domain of unknown function (pfam08522). Members of this family include endo-beta-N-acetylglucosaminidase S (EndoS) from Streptococcus pyogenes, EndoF1, EndoF2, EndoF3, and EndoH from Flavobacterium meningosepticum, and EndoE from Enterococcus faecalis. EndoS is a secreted endoglycosidase from Streptococcus pyogenes that specifically hydrolyzes the glycan on human IgG between two core N-acetylglucosamine residues. EndoE is a secreted endoglycosidase, encoded by the ndoE gene in Enterococcus faecalis, that hydrolyzes the glycan on human RNase B.
Probab=20.01 E-value=1.9e+02 Score=19.29 Aligned_cols=27 Identities=19% Similarity=0.309 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHhhCCCCCEEEEEeeeC
Q 042267 18 ENCIKILRNCYKALPNDGKVLVINSTL 44 (107)
Q Consensus 18 ~~~~~iL~~~~~aL~pgg~l~i~e~~~ 44 (107)
+....+++++++.+.|.++++.+....
T Consensus 128 ~~~~~lv~~Lr~~~~~~~kllt~~~~~ 154 (255)
T cd06542 128 EAFVRLIKELRKYMGPTDKLLTIDGYG 154 (255)
T ss_pred HHHHHHHHHHHHHhCcCCcEEEEEecC
Confidence 457899999999999878998887543
Done!