Query 031322
Match_columns 161
No_of_seqs 112 out of 127
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 12:28:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031322.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031322hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2356 Transcriptional activa 99.8 1E-21 2.2E-26 171.2 1.9 153 8-161 26-205 (366)
2 PF13659 Methyltransf_26: Meth 95.1 0.011 2.3E-07 42.1 1.5 36 116-154 49-84 (117)
3 PF09445 Methyltransf_15: RNA 94.8 0.018 3.8E-07 46.5 2.1 47 113-161 44-90 (163)
4 COG1092 Predicted SAM-dependen 93.3 0.029 6.3E-07 50.9 0.5 40 116-156 267-306 (393)
5 PF10672 Methyltrans_SAM: S-ad 92.7 0.025 5.5E-07 49.2 -0.7 34 116-151 173-206 (286)
6 PF10237 N6-adenineMlase: Prob 92.5 0.081 1.8E-06 42.5 2.1 39 115-155 63-101 (162)
7 PRK15128 23S rRNA m(5)C1962 me 88.1 0.21 4.6E-06 45.0 1.0 34 117-151 271-304 (396)
8 PRK10909 rsmD 16S rRNA m(2)G96 88.0 0.28 6.2E-06 40.2 1.6 30 118-151 103-132 (199)
9 PF03602 Cons_hypoth95: Conser 86.7 0.41 8.9E-06 38.6 1.8 35 118-154 93-128 (183)
10 TIGR02085 meth_trns_rumB 23S r 84.0 0.66 1.4E-05 41.1 1.9 30 118-151 282-311 (374)
11 TIGR03704 PrmC_rel_meth putati 82.7 0.76 1.6E-05 38.5 1.7 30 120-152 136-165 (251)
12 PRK03522 rumB 23S rRNA methylu 82.6 0.83 1.8E-05 39.3 2.0 31 117-151 221-251 (315)
13 KOG2097 Predicted N6-adenine m 82.6 0.5 1.1E-05 42.6 0.6 33 121-157 144-176 (397)
14 PRK13168 rumA 23S rRNA m(5)U19 81.8 0.89 1.9E-05 41.0 1.9 34 118-152 346-379 (443)
15 PRK05031 tRNA (uracil-5-)-meth 81.7 0.65 1.4E-05 41.0 1.0 33 118-150 255-298 (362)
16 PRK11783 rlmL 23S rRNA m(2)G24 81.0 0.9 2E-05 43.6 1.8 34 117-154 589-622 (702)
17 TIGR00095 RNA methyltransferas 80.7 0.94 2E-05 36.5 1.5 34 117-152 99-133 (189)
18 PF01861 DUF43: Protein of unk 80.5 1.1 2.4E-05 38.7 1.9 26 128-153 100-125 (243)
19 COG2263 Predicted RNA methylas 79.5 1.2 2.5E-05 37.5 1.8 27 119-153 95-121 (198)
20 COG0742 N6-adenine-specific me 78.8 1.4 3E-05 36.5 2.0 34 117-152 93-126 (187)
21 KOG2098 Predicted N6-adenine R 76.6 1.2 2.5E-05 42.2 1.0 32 114-151 369-400 (591)
22 PF01170 UPF0020: Putative RNA 76.3 2.1 4.6E-05 34.0 2.4 33 118-155 89-121 (179)
23 PHA03411 putative methyltransf 76.2 2 4.4E-05 37.6 2.4 31 118-154 110-140 (279)
24 KOG3350 Uncharacterized conser 76.2 1.4 3E-05 37.2 1.3 35 119-154 115-149 (217)
25 TIGR01177 conserved hypothetic 75.7 2.2 4.9E-05 36.8 2.5 32 119-155 232-263 (329)
26 TIGR00479 rumA 23S rRNA (uraci 75.2 1.5 3.3E-05 39.1 1.3 35 117-152 340-374 (431)
27 TIGR00446 nop2p NOL1/NOP2/sun 73.9 2.9 6.3E-05 35.1 2.7 35 119-158 124-158 (264)
28 COG2265 TrmA SAM-dependent met 72.4 2.4 5.1E-05 39.0 1.9 29 119-149 343-371 (432)
29 PRK10901 16S rRNA methyltransf 69.5 2.3 5E-05 38.2 1.2 30 119-151 295-324 (427)
30 PRK10742 putative methyltransf 67.0 4.3 9.3E-05 35.1 2.2 31 119-153 147-177 (250)
31 PF05175 MTS: Methyltransferas 66.2 3.4 7.5E-05 32.1 1.4 30 119-154 83-112 (170)
32 PRK14902 16S rRNA methyltransf 64.5 5.3 0.00011 36.0 2.4 31 119-153 303-333 (444)
33 TIGR03533 L3_gln_methyl protei 62.7 6.5 0.00014 33.5 2.6 34 115-154 170-203 (284)
34 TIGR02143 trmA_only tRNA (urac 62.3 4.3 9.4E-05 35.8 1.5 32 118-149 246-288 (353)
35 KOG2730 Methylase [General fun 61.9 4.2 9.1E-05 35.4 1.3 52 109-161 135-186 (263)
36 PF04378 RsmJ: Ribosomal RNA s 61.7 4.1 9E-05 34.9 1.2 33 120-154 106-139 (245)
37 COG4123 Predicted O-methyltran 61.7 5.3 0.00012 34.4 1.9 38 116-156 94-131 (248)
38 COG1743 Adenine-specific DNA m 61.2 4.6 0.0001 40.4 1.6 14 139-152 488-501 (875)
39 PF05958 tRNA_U5-meth_tr: tRNA 58.2 5.4 0.00012 35.1 1.4 11 139-149 277-287 (352)
40 PF12088 DUF3565: Protein of u 56.7 5 0.00011 28.0 0.7 10 145-154 24-33 (61)
41 PHA03412 putative methyltransf 55.4 8.9 0.00019 33.0 2.2 31 118-154 98-128 (241)
42 PRK11805 N5-glutamine S-adenos 54.9 9.4 0.0002 33.1 2.3 31 117-153 184-214 (307)
43 TIGR03534 RF_mod_PrmC protein- 54.4 8 0.00017 30.9 1.7 30 118-153 138-167 (251)
44 PRK14901 16S rRNA methyltransf 54.2 8.9 0.00019 34.6 2.1 31 119-150 305-335 (434)
45 PRK11783 rlmL 23S rRNA m(2)G24 53.7 9.5 0.00021 36.8 2.3 35 117-154 283-317 (702)
46 PRK03612 spermidine synthase; 51.5 10 0.00023 35.2 2.1 32 117-152 354-385 (521)
47 PRK09328 N5-glutamine S-adenos 50.9 9.4 0.0002 31.2 1.6 33 116-154 157-189 (275)
48 PRK14903 16S rRNA methyltransf 50.6 9.3 0.0002 34.7 1.6 31 119-153 290-320 (431)
49 PRK14967 putative methyltransf 48.8 11 0.00024 30.4 1.7 29 120-154 87-115 (223)
50 PRK04338 N(2),N(2)-dimethylgua 48.2 11 0.00023 33.9 1.7 26 119-149 109-134 (382)
51 TIGR00536 hemK_fam HemK family 47.8 12 0.00027 31.5 1.9 33 116-154 164-196 (284)
52 TIGR00537 hemK_rel_arch HemK-r 47.4 13 0.00028 28.8 1.8 26 119-151 68-93 (179)
53 COG2521 Predicted archaeal met 46.9 12 0.00027 32.9 1.8 33 118-153 186-218 (287)
54 PF02384 N6_Mtase: N-6 DNA Met 45.9 11 0.00023 31.8 1.1 16 138-153 123-138 (311)
55 cd02440 AdoMet_MTases S-adenos 45.8 16 0.00036 23.2 1.8 33 116-152 46-78 (107)
56 COG1568 Predicted methyltransf 44.9 6.5 0.00014 35.5 -0.3 24 128-151 209-232 (354)
57 PRK00811 spermidine synthase; 41.0 19 0.00041 30.7 2.0 31 116-150 130-162 (283)
58 PRK14904 16S rRNA methyltransf 40.4 19 0.00042 32.5 2.0 26 119-150 303-328 (445)
59 PF13847 Methyltransf_31: Meth 39.8 21 0.00045 26.7 1.9 29 118-150 55-83 (152)
60 TIGR00091 tRNA (guanine-N(7)-) 39.8 24 0.00053 27.9 2.3 35 118-154 67-103 (194)
61 PRK14966 unknown domain/N5-glu 39.1 22 0.00048 32.9 2.2 31 118-152 301-331 (423)
62 TIGR00080 pimt protein-L-isoas 36.3 30 0.00065 27.7 2.4 31 117-152 128-158 (215)
63 COG2890 HemK Methylase of poly 32.3 30 0.00066 29.6 1.9 17 138-154 174-190 (280)
64 TIGR00308 TRM1 tRNA(guanine-26 31.8 29 0.00062 31.3 1.7 27 119-149 97-123 (374)
65 COG0116 Predicted N6-adenine-s 31.7 33 0.00071 31.5 2.0 30 119-153 283-312 (381)
66 COG2961 ComJ Protein involved 31.6 28 0.0006 30.8 1.5 23 129-153 147-169 (279)
67 COG0863 DNA modification methy 30.2 38 0.00082 27.8 2.0 36 117-155 15-50 (302)
68 PRK01581 speE spermidine synth 30.2 38 0.00082 31.0 2.2 32 117-152 207-238 (374)
69 TIGR02987 met_A_Alw26 type II 28.8 32 0.00069 31.6 1.5 15 138-152 110-124 (524)
70 TIGR00417 speE spermidine synt 24.9 46 0.001 27.9 1.7 15 138-152 143-157 (270)
71 PF12690 BsuPI: Intracellular 24.9 43 0.00092 23.8 1.3 13 136-148 21-33 (82)
72 TIGR00563 rsmB ribosomal RNA s 24.7 56 0.0012 29.3 2.3 18 138-155 307-324 (426)
73 KOG3420 Predicted RNA methylas 24.5 50 0.0011 27.4 1.8 29 120-153 99-127 (185)
74 PRK01544 bifunctional N5-gluta 23.8 48 0.0011 30.8 1.7 32 117-154 189-220 (506)
75 smart00650 rADc Ribosomal RNA 23.4 59 0.0013 24.9 1.9 29 118-151 60-88 (169)
76 PRK15001 SAM-dependent 23S rib 22.8 51 0.0011 29.8 1.6 28 118-151 282-309 (378)
77 COG0144 Sun tRNA and rRNA cyto 22.6 62 0.0014 28.7 2.1 19 140-158 229-247 (355)
78 COG1041 Predicted DNA modifica 22.6 67 0.0015 29.2 2.4 40 110-154 238-278 (347)
79 PF05401 NodS: Nodulation prot 22.2 47 0.001 28.0 1.2 24 117-146 89-112 (201)
80 PRK04457 spermidine synthase; 21.0 51 0.0011 27.8 1.2 28 117-148 117-144 (262)
81 PF07167 PhaC_N: Poly-beta-hyd 21.0 41 0.0009 27.7 0.6 12 141-154 146-157 (172)
82 cd00315 Cyt_C5_DNA_methylase C 20.9 62 0.0013 27.4 1.7 34 121-157 46-79 (275)
83 KOG2671 Putative RNA methylase 20.8 42 0.00091 31.1 0.7 21 137-157 281-301 (421)
84 COG2093 DNA-directed RNA polym 20.6 84 0.0018 22.1 2.0 35 107-148 6-42 (64)
85 PRK12652 putative monovalent c 20.5 55 0.0012 29.4 1.4 14 138-151 111-124 (357)
86 COG1192 Soj ATPases involved i 20.0 66 0.0014 26.1 1.6 12 138-149 117-128 (259)
No 1
>KOG2356 consensus Transcriptional activator, adenine-specific DNA methyltransferase [Transcription; Signal transduction mechanisms]
Probab=99.83 E-value=1e-21 Score=171.23 Aligned_cols=153 Identities=20% Similarity=0.204 Sum_probs=104.8
Q ss_pred HHHHHhhhhhhHHHHH--HHHHHHHHhhhhhhhccC-CCc----CCCccccc-------chhhhhhhhcccccchhhhhc
Q 031322 8 AADQRHQEVKPLLLIA--HEALLAAIDLLNFVGKLN-GDF----GSSMKCGV-------EESFIELGRVWQAPMYEITLN 73 (161)
Q Consensus 8 ~a~~~H~k~r~lil~~--~~~L~~~~~~l~~~~~l~-~~~----~~~~~~~~-------e~al~eL~~~~~ap~c~~~~~ 73 (161)
..+.||.-.|.+++.+ ....++...--+.++... .++ +.|+.+.| +.....+..+.++++|++++.
T Consensus 26 ~~e~Y~~~~k~~~d~qf~akkt~g~~l~s~~rkr~~e~~~~~~q~~DKss~v~~~~~i~k~~tl~l~~~~~~E~aela~~ 105 (366)
T KOG2356|consen 26 RSELYEISSKFMPDSQFEAKKTRGISLRSRKRKRTSENSNRMEQMADKSSNVGTELKIFKKKTLLLNNLKSREAAELALN 105 (366)
T ss_pred hhhhhhhhhhhCcccchhhhhhhhhhhhcchhhhhhhhccchhhhhhccccccchhhhccccchhhhhhhHHHhhHHHHh
Confidence 3578999999999888 444444422222222211 110 22322322 233344556789999999998
Q ss_pred cCCCCccccc-----ccC---Cccccccccccc--CCCcchhhhhcC---ceeecCCCCccccCCchhhcccCCCCCCCC
Q 031322 74 FNQCSVIDQF-----REP---RVLPLFNNLVAN--ETGDDVEAEILD---RTYILPRESCFFMSDLGQIHNLIPADSDCG 140 (161)
Q Consensus 74 ~~~~s~~~~~-----~~~---~~~~lfn~~v~N--~~~~~~~~e~~~---~~y~iPp~S~Fl~~di~~~~~l~~~~~~~~ 140 (161)
++..++.+.. -++ ...++||..+.| .++.+..+.++| .+|+|||+|+|++|||.++.+++.+ +...
T Consensus 106 lS~p~e~e~s~pii~fed~~~~~~~m~n~~~~n~~~~s~qk~~~~dGs~g~kYyIPpkSsF~~gDv~~~~qll~~-H~ll 184 (366)
T KOG2356|consen 106 LSIPSESESSEPIIEFEDSESLSNLMSNGMINNWVRCSGQKPGIIDGSDGTKYYIPPKSSFHVGDVKDIEQLLRA-HDLL 184 (366)
T ss_pred cCCcccccccccceeehhhcchHHHHHhHhhhhhhcccccceeEeeCCCcceEEeCCccceecccHHHHHHHhHH-Hhhc
Confidence 8755444322 111 225688888888 666666666654 5899999999999999999999854 5677
Q ss_pred ccEEEEcCCCCCcccccccCC
Q 031322 141 FNLIVIDPPWENGSARQKSVY 161 (161)
Q Consensus 141 FdlIvlDPPW~NkSvrRk~~Y 161 (161)
||+||+||||+||||||+++|
T Consensus 185 pdlIIiDPPW~NKSVkRs~~Y 205 (366)
T KOG2356|consen 185 PDLIIIDPPWFNKSVKRSRTY 205 (366)
T ss_pred CCeEEeCCCCCCcccccccce
Confidence 899999999999999999998
No 2
>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=95.15 E-value=0.011 Score=42.15 Aligned_cols=36 Identities=25% Similarity=0.446 Sum_probs=25.6
Q ss_pred CCCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 116 PRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 116 Pp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
-.+..|+.+|+....+.+ ...+||+||.||||-+..
T Consensus 49 ~~~~~~~~~D~~~~~~~~---~~~~~D~Iv~npP~~~~~ 84 (117)
T PF13659_consen 49 DDRVEVIVGDARDLPEPL---PDGKFDLIVTNPPYGPRS 84 (117)
T ss_dssp TTTEEEEESHHHHHHHTC---TTT-EEEEEE--STTSBT
T ss_pred CceEEEEECchhhchhhc---cCceeEEEEECCCCcccc
Confidence 345789999998887556 348899999999998753
No 3
>PF09445 Methyltransf_15: RNA cap guanine-N2 methyltransferase; InterPro: IPR019012 RNA cap guanine-N2 methyltransferases such as Schizosaccharomyces pombe (Fission yeast) trimethylguanosine synthase (Tgs1) and Giardia lamblia (Giardia intestinalis) Tgs2, catalyse the methylation step(s) for the conversion of the 7-monomethylguanosine (m(7)G) caps of snRNAs and snoRNAs to a 2,2,7-trimethylguanosine (m(2,2,7)G) cap structure [, , ]. Trimethylguanosine synthase is specific for guanine, and N7 methylation must precede N2 methylation. This enzyme is required for pre-mRNA splicing, pre-rRNA processing and small ribosomal subunit synthesis. As such, this enzyme plays a role in transcriptional regulation. ; GO: 0008168 methyltransferase activity, 0001510 RNA methylation, 0009452 RNA capping; PDB: 3EGI_B 3GDH_A.
Probab=94.82 E-value=0.018 Score=46.48 Aligned_cols=47 Identities=21% Similarity=0.482 Sum_probs=26.9
Q ss_pred eecCCCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcccccccCC
Q 031322 113 YILPRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSARQKSVY 161 (161)
Q Consensus 113 y~iPp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSvrRk~~Y 161 (161)
|=+-.+-.|+++|..++...+.. ...||+|.+||||-..+=+++..|
T Consensus 44 YGv~~~I~~i~gD~~~~~~~~~~--~~~~D~vFlSPPWGGp~Y~~~~~f 90 (163)
T PF09445_consen 44 YGVADNIDFICGDFFELLKRLKS--NKIFDVVFLSPPWGGPSYSKKDVF 90 (163)
T ss_dssp TT-GGGEEEEES-HHHHGGGB--------SEEEE---BSSGGGGGSSSB
T ss_pred cCCCCcEEEEeCCHHHHHhhccc--cccccEEEECCCCCCccccccCcc
Confidence 33444568999999987765532 233999999999998777766544
No 4
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=93.25 E-value=0.029 Score=50.92 Aligned_cols=40 Identities=23% Similarity=0.304 Sum_probs=28.3
Q ss_pred CCCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcccc
Q 031322 116 PRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSAR 156 (161)
Q Consensus 116 Pp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSvr 156 (161)
+.+-.|+.+|+-.+-+.... .+.+|||||||||=.-||-+
T Consensus 267 ~~~~~~i~~Dvf~~l~~~~~-~g~~fDlIilDPPsF~r~k~ 306 (393)
T COG1092 267 GDRHRFIVGDVFKWLRKAER-RGEKFDLIILDPPSFARSKK 306 (393)
T ss_pred ccceeeehhhHHHHHHHHHh-cCCcccEEEECCcccccCcc
Confidence 44567899998776544432 46799999999996555543
No 5
>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=92.68 E-value=0.025 Score=49.17 Aligned_cols=34 Identities=24% Similarity=0.389 Sum_probs=20.3
Q ss_pred CCCCccccCCchhhcccCCCCCCCCccEEEEcCCCC
Q 031322 116 PRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 116 Pp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
+.+-+|+.+|+-..-..+ ....+||+||||||=.
T Consensus 173 ~~~~~~~~~Dvf~~l~~~--~~~~~fD~IIlDPPsF 206 (286)
T PF10672_consen 173 LDRHRFIQGDVFKFLKRL--KKGGRFDLIILDPPSF 206 (286)
T ss_dssp CTCEEEEES-HHHHHHHH--HHTT-EEEEEE--SSE
T ss_pred ccceEEEecCHHHHHHHH--hcCCCCCEEEECCCCC
Confidence 456789999997633223 1245899999999944
No 6
>PF10237 N6-adenineMlase: Probable N6-adenine methyltransferase; InterPro: IPR019369 This family of proteins, which are of approximately 200 residues in length, contain a highly conserved Glu-Phe-Trp (QFW) motif close to the N terminus and an Asp/Asn-Pro-Pro-Tyr/Phe motif in the centre. This latter motif is characteristic of N-6 adenine-specific DNA methylases and could be involved in substrate binding or in the catalytic activity (, ).
Probab=92.54 E-value=0.081 Score=42.54 Aligned_cols=39 Identities=23% Similarity=0.537 Sum_probs=25.0
Q ss_pred cCCCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCccc
Q 031322 115 LPRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSA 155 (161)
Q Consensus 115 iPp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSv 155 (161)
.+++ .|..-|...-.. ++.....+||+||+|||+-+.-.
T Consensus 63 ~~~~-~F~fyD~~~p~~-~~~~l~~~~d~vv~DPPFl~~ec 101 (162)
T PF10237_consen 63 FGGD-EFVFYDYNEPEE-LPEELKGKFDVVVIDPPFLSEEC 101 (162)
T ss_pred cCCc-ceEECCCCChhh-hhhhcCCCceEEEECCCCCCHHH
Confidence 3444 566666655433 33333568999999999976543
No 7
>PRK15128 23S rRNA m(5)C1962 methyltransferase; Provisional
Probab=88.14 E-value=0.21 Score=44.97 Aligned_cols=34 Identities=26% Similarity=0.393 Sum_probs=23.9
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCC
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
.+.+|+.+|+...-.-+. ....+||+||+|||--
T Consensus 271 ~~v~~i~~D~~~~l~~~~-~~~~~fDlVilDPP~f 304 (396)
T PRK15128 271 SKAEFVRDDVFKLLRTYR-DRGEKFDVIVMDPPKF 304 (396)
T ss_pred CcEEEEEccHHHHHHHHH-hcCCCCCEEEECCCCC
Confidence 356899999977542221 1245799999999963
No 8
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=87.96 E-value=0.28 Score=40.16 Aligned_cols=30 Identities=13% Similarity=0.321 Sum_probs=20.9
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCC
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
+..|+.+|+...-. . ....||+|++|||+.
T Consensus 103 ~v~~~~~D~~~~l~---~-~~~~fDlV~~DPPy~ 132 (199)
T PRK10909 103 NARVVNTNALSFLA---Q-PGTPHNVVFVDPPFR 132 (199)
T ss_pred cEEEEEchHHHHHh---h-cCCCceEEEECCCCC
Confidence 46788888865321 1 134699999999974
No 9
>PF03602 Cons_hypoth95: Conserved hypothetical protein 95; InterPro: IPR004398 This entry contains Ribosomal RNA small subunit methyltransferase D as well as the putative rRNA methyltransferase YlbH. They methylate the guanosine in position 966 of 16S rRNA in the assembled 30S particle [].; GO: 0008168 methyltransferase activity, 0031167 rRNA methylation; PDB: 3P9N_A 2ESR_B 2IFT_A 1WS6_A 2FPO_B 2FHP_A.
Probab=86.66 E-value=0.41 Score=38.62 Aligned_cols=35 Identities=23% Similarity=0.447 Sum_probs=18.8
Q ss_pred CCccccCCc-hhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 118 ESCFFMSDL-GQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 118 ~S~Fl~~di-~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
+..-+.+|. ..+.++. ....+||+|.+|||.....
T Consensus 93 ~~~v~~~d~~~~l~~~~--~~~~~fDiIflDPPY~~~~ 128 (183)
T PF03602_consen 93 KIRVIKGDAFKFLLKLA--KKGEKFDIIFLDPPYAKGL 128 (183)
T ss_dssp GEEEEESSHHHHHHHHH--HCTS-EEEEEE--STTSCH
T ss_pred ceeeeccCHHHHHHhhc--ccCCCceEEEECCCcccch
Confidence 334445553 3333332 1358899999999998764
No 10
>TIGR02085 meth_trns_rumB 23S rRNA (uracil-5-)-methyltransferase RumB. This family consists of RNA methyltransferases designated RumB, formerly YbjF. Members act on 23S rRNA U747 and the equivalent position in other proteobacterial species. This family is homologous to the other 23S rRNA methyltransferase RumA and to the tRNA methyltransferase TrmA.
Probab=83.97 E-value=0.66 Score=41.10 Aligned_cols=30 Identities=17% Similarity=0.289 Sum_probs=21.9
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCC
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
+..|+.+|+...-... ..+||+||+|||+.
T Consensus 282 ~~~~~~~d~~~~~~~~----~~~~D~vi~DPPr~ 311 (374)
T TIGR02085 282 NLSFAALDSAKFATAQ----MSAPELVLVNPPRR 311 (374)
T ss_pred cEEEEECCHHHHHHhc----CCCCCEEEECCCCC
Confidence 6789999997653211 24599999999964
No 11
>TIGR03704 PrmC_rel_meth putative protein-(glutamine-N5) methyltransferase, unknown substrate-specific. This protein family is closely related to two different families of protein-(glutamine-N5) methyltransferase. The first is PrmB, which modifies ribosomal protein L3 in some bacteria. The second is PrmC (HemK), which modifies peptide chain release factors 1 and 2 in most bacteria and also in eukaryotes. The glutamine side chain-binding motif NPPY shared by PrmB and PrmC is N[VAT]PY in this family. The protein substrate is unknown.
Probab=82.70 E-value=0.76 Score=38.52 Aligned_cols=30 Identities=13% Similarity=0.297 Sum_probs=20.4
Q ss_pred ccccCCchhhcccCCCCCCCCccEEEEcCCCCC
Q 031322 120 CFFMSDLGQIHNLIPADSDCGFNLIVIDPPWEN 152 (161)
Q Consensus 120 ~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~N 152 (161)
+|+.+|+... ++.....+||+||.||||-.
T Consensus 136 ~~~~~D~~~~---l~~~~~~~fDlVv~NPPy~~ 165 (251)
T TIGR03704 136 TVHEGDLYDA---LPTALRGRVDILAANAPYVP 165 (251)
T ss_pred EEEEeechhh---cchhcCCCEeEEEECCCCCC
Confidence 6888887542 21111356999999999963
No 12
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=82.62 E-value=0.83 Score=39.25 Aligned_cols=31 Identities=19% Similarity=0.229 Sum_probs=22.8
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCC
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
....|+.+|+..+.... ..+||+||+|||..
T Consensus 221 ~~v~~~~~D~~~~~~~~----~~~~D~Vv~dPPr~ 251 (315)
T PRK03522 221 TNVQFQALDSTQFATAQ----GEVPDLVLVNPPRR 251 (315)
T ss_pred CceEEEEcCHHHHHHhc----CCCCeEEEECCCCC
Confidence 46789999998764221 24699999999954
No 13
>KOG2097 consensus Predicted N6-adenine methylase involved in transcription regulation [Transcription]
Probab=82.59 E-value=0.5 Score=42.63 Aligned_cols=33 Identities=24% Similarity=0.529 Sum_probs=24.3
Q ss_pred cccCCchhhcccCCCCCCCCccEEEEcCCCCCccccc
Q 031322 121 FFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSARQ 157 (161)
Q Consensus 121 Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSvrR 157 (161)
|+-+||..+...+ ...|||+|++||||+- +|++
T Consensus 144 ylk~di~si~~~~---l~~kfdvil~~pp~ee-yv~~ 176 (397)
T KOG2097|consen 144 YLKADIDSIDPTL---LGNKFDVILNEPPLEE-YVRM 176 (397)
T ss_pred eeecccceeehhh---cccceeeeecCCcHHH-HHHh
Confidence 4567887776443 3689999999999986 4443
No 14
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=81.84 E-value=0.89 Score=40.97 Aligned_cols=34 Identities=24% Similarity=0.474 Sum_probs=23.1
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCCC
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWEN 152 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~N 152 (161)
+..|+.+|+...-.-.+. ...+||+||+|||+..
T Consensus 346 ~v~~~~~d~~~~l~~~~~-~~~~fD~Vi~dPPr~g 379 (443)
T PRK13168 346 NVTFYHANLEEDFTDQPW-ALGGFDKVLLDPPRAG 379 (443)
T ss_pred ceEEEEeChHHhhhhhhh-hcCCCCEEEECcCCcC
Confidence 578999998764211111 1346999999999864
No 15
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=81.75 E-value=0.65 Score=41.01 Aligned_cols=33 Identities=15% Similarity=0.291 Sum_probs=21.8
Q ss_pred CCccccCCchhhcccCCCC-----------CCCCccEEEEcCCC
Q 031322 118 ESCFFMSDLGQIHNLIPAD-----------SDCGFNLIVIDPPW 150 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~-----------~~~~FdlIvlDPPW 150 (161)
+..|+.+|+...-+.+... ...+||+||+|||=
T Consensus 255 ~v~~~~~d~~~~l~~~~~~~~~~~~~~~~~~~~~~D~v~lDPPR 298 (362)
T PRK05031 255 NVQIIRMSAEEFTQAMNGVREFNRLKGIDLKSYNFSTIFVDPPR 298 (362)
T ss_pred cEEEEECCHHHHHHHHhhcccccccccccccCCCCCEEEECCCC
Confidence 6789999998743222110 02369999999993
No 16
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=80.95 E-value=0.9 Score=43.64 Aligned_cols=34 Identities=29% Similarity=0.317 Sum_probs=24.6
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
.+.+|+.+|+.+.-.-+ ..+||+||+|||---++
T Consensus 589 ~~v~~i~~D~~~~l~~~----~~~fDlIilDPP~f~~~ 622 (702)
T PRK11783 589 RQHRLIQADCLAWLKEA----REQFDLIFIDPPTFSNS 622 (702)
T ss_pred cceEEEEccHHHHHHHc----CCCcCEEEECCCCCCCC
Confidence 46799999987643212 35799999999976543
No 17
>TIGR00095 RNA methyltransferase, RsmD family. This model represents a family of uncharacterized bacterial proteins. Members are present in nearly every complete bacterial genome, always in a single copy. PSI-BLAST analysis shows homology to several families of SAM-dependent methyltransferases, including ribosomal RNA adenine dimethylases.
Probab=80.67 E-value=0.94 Score=36.48 Aligned_cols=34 Identities=21% Similarity=0.192 Sum_probs=22.3
Q ss_pred CCCccccCCchhh-cccCCCCCCCCccEEEEcCCCCC
Q 031322 117 RESCFFMSDLGQI-HNLIPADSDCGFNLIVIDPPWEN 152 (161)
Q Consensus 117 p~S~Fl~~di~~~-~~l~~~~~~~~FdlIvlDPPW~N 152 (161)
.+..++.+|+... ..+. . ....||+|++|||...
T Consensus 99 ~~~~~~~~D~~~~l~~~~-~-~~~~~dvv~~DPPy~~ 133 (189)
T TIGR00095 99 EQAEVVRNSALRALKFLA-K-KPTFDNVIYLDPPFFN 133 (189)
T ss_pred ccEEEEehhHHHHHHHhh-c-cCCCceEEEECcCCCC
Confidence 3567888888543 3222 1 2245999999999864
No 18
>PF01861 DUF43: Protein of unknown function DUF43; InterPro: IPR002723 This family of prokaryotic proteins have not been characterised. All the members are 350-400 amino acids long.; PDB: 2QM3_A.
Probab=80.50 E-value=1.1 Score=38.66 Aligned_cols=26 Identities=19% Similarity=0.584 Sum_probs=14.3
Q ss_pred hhcccCCCCCCCCccEEEEcCCCCCc
Q 031322 128 QIHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 128 ~~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
+++..+|.....+||+++-||||.=.
T Consensus 100 DlR~~LP~~~~~~fD~f~TDPPyT~~ 125 (243)
T PF01861_consen 100 DLRDPLPEELRGKFDVFFTDPPYTPE 125 (243)
T ss_dssp -TTS---TTTSS-BSEEEE---SSHH
T ss_pred cccccCCHHHhcCCCEEEeCCCCCHH
Confidence 45778887677999999999999643
No 19
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=79.54 E-value=1.2 Score=37.51 Aligned_cols=27 Identities=19% Similarity=0.603 Sum_probs=20.5
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCCCc
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
-.|+.+|+++++ .+||.+|++|||--+
T Consensus 95 v~f~~~dv~~~~--------~~~dtvimNPPFG~~ 121 (198)
T COG2263 95 VEFVVADVSDFR--------GKFDTVIMNPPFGSQ 121 (198)
T ss_pred eEEEEcchhhcC--------CccceEEECCCCccc
Confidence 346677776654 668899999999766
No 20
>COG0742 N6-adenine-specific methylase [DNA replication, recombination, and repair]
Probab=78.84 E-value=1.4 Score=36.54 Aligned_cols=34 Identities=21% Similarity=0.427 Sum_probs=21.2
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCCC
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWEN 152 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~N 152 (161)
.....+..|....-+.. .....||+|.+|||...
T Consensus 93 ~~~~~~~~da~~~L~~~--~~~~~FDlVflDPPy~~ 126 (187)
T COG0742 93 GEARVLRNDALRALKQL--GTREPFDLVFLDPPYAK 126 (187)
T ss_pred cceEEEeecHHHHHHhc--CCCCcccEEEeCCCCcc
Confidence 44556666666332222 22336999999999874
No 21
>KOG2098 consensus Predicted N6-adenine RNA methylase [RNA processing and modification]
Probab=76.62 E-value=1.2 Score=42.17 Aligned_cols=32 Identities=25% Similarity=0.653 Sum_probs=25.0
Q ss_pred ecCCCCccccCCchhhcccCCCCCCCCccEEEEcCCCC
Q 031322 114 ILPRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 114 ~iPp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
+.|| .++.+||..+.--+ -.||-+|..||||-
T Consensus 369 l~p~--QWI~CDiR~~dm~i----LGkFaVVmADPpWd 400 (591)
T KOG2098|consen 369 LFPP--QWICCDIRYLDMSI----LGKFAVVMADPPWD 400 (591)
T ss_pred cCCc--ceEEeeceeeeeee----eceeEEEeeCCCcc
Confidence 4454 57889998887555 36799999999994
No 22
>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.
Probab=76.35 E-value=2.1 Score=34.04 Aligned_cols=33 Identities=21% Similarity=0.350 Sum_probs=20.8
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCCCccc
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSA 155 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSv 155 (161)
.-.|...|..++. + ....||.||-||||--|.-
T Consensus 89 ~i~~~~~D~~~l~--~---~~~~~d~IvtnPPyG~r~~ 121 (179)
T PF01170_consen 89 YIDFIQWDARELP--L---PDGSVDAIVTNPPYGRRLG 121 (179)
T ss_dssp GEEEEE--GGGGG--G---TTSBSCEEEEE--STTSHC
T ss_pred ceEEEecchhhcc--c---ccCCCCEEEECcchhhhcc
Confidence 3456777887777 2 2357999999999987654
No 23
>PHA03411 putative methyltransferase; Provisional
Probab=76.25 E-value=2 Score=37.60 Aligned_cols=31 Identities=23% Similarity=0.489 Sum_probs=24.0
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
+..|+.+|+.... ...+||+||.+|||-...
T Consensus 110 ~v~~v~~D~~e~~------~~~kFDlIIsNPPF~~l~ 140 (279)
T PHA03411 110 EAEWITSDVFEFE------SNEKFDVVISNPPFGKIN 140 (279)
T ss_pred CCEEEECchhhhc------ccCCCcEEEEcCCccccC
Confidence 6788999987643 135799999999997643
No 24
>KOG3350 consensus Uncharacterized conserved protein [Function unknown]
Probab=76.15 E-value=1.4 Score=37.25 Aligned_cols=35 Identities=29% Similarity=0.542 Sum_probs=21.0
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
-.|+.-|..+-..+ |+.-..+||+||.|||.=+.-
T Consensus 115 ~eFvfYDyN~p~dl-p~~lk~~fdiivaDPPfL~~e 149 (217)
T KOG3350|consen 115 TEFVFYDYNCPLDL-PDELKAHFDIIVADPPFLSEE 149 (217)
T ss_pred ceeEEeccCCCCCC-HHHHHhcccEEEeCCccccch
Confidence 45555555443322 222235699999999987643
No 25
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=75.74 E-value=2.2 Score=36.77 Aligned_cols=32 Identities=19% Similarity=0.324 Sum_probs=22.9
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCCCccc
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSA 155 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSv 155 (161)
-.++.+|+.++. + ...+||+||.|||+-.++.
T Consensus 232 i~~~~~D~~~l~--~---~~~~~D~Iv~dPPyg~~~~ 263 (329)
T TIGR01177 232 FFVKRGDATKLP--L---SSESVDAIATDPPYGRSTT 263 (329)
T ss_pred CeEEecchhcCC--c---ccCCCCEEEECCCCcCccc
Confidence 467778876543 1 2467999999999976553
No 26
>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA. This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA.
Probab=75.22 E-value=1.5 Score=39.10 Aligned_cols=35 Identities=17% Similarity=0.290 Sum_probs=23.7
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCCC
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWEN 152 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~N 152 (161)
.+..|+.+|+.+.-.-++. .+.+||+|++|||...
T Consensus 340 ~nv~~~~~d~~~~l~~~~~-~~~~~D~vi~dPPr~G 374 (431)
T TIGR00479 340 ANVEFLAGTLETVLPKQPW-AGQIPDVLLLDPPRKG 374 (431)
T ss_pred CceEEEeCCHHHHHHHHHh-cCCCCCEEEECcCCCC
Confidence 3678999999764221111 2356999999999753
No 27
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=73.91 E-value=2.9 Score=35.09 Aligned_cols=35 Identities=17% Similarity=0.138 Sum_probs=23.3
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCCCcccccc
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSARQK 158 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSvrRk 158 (161)
-.++.+|...+.. ...+||.|++|||-.+--+.|+
T Consensus 124 v~~~~~D~~~~~~-----~~~~fD~Vl~D~Pcsg~G~~~~ 158 (264)
T TIGR00446 124 VAVTNFDGRVFGA-----AVPKFDAILLDAPCSGEGVIRK 158 (264)
T ss_pred EEEecCCHHHhhh-----hccCCCEEEEcCCCCCCccccc
Confidence 4567777655432 1245999999999887655443
No 28
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=72.41 E-value=2.4 Score=38.96 Aligned_cols=29 Identities=21% Similarity=0.327 Sum_probs=22.1
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCC
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPP 149 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPP 149 (161)
.+|..+|...+..... ...+||.||+|||
T Consensus 343 ~~f~~~~ae~~~~~~~--~~~~~d~VvvDPP 371 (432)
T COG2265 343 VEFIAGDAEEFTPAWW--EGYKPDVVVVDPP 371 (432)
T ss_pred EEEEeCCHHHHhhhcc--ccCCCCEEEECCC
Confidence 5677788877775552 3578999999999
No 29
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=69.53 E-value=2.3 Score=38.20 Aligned_cols=30 Identities=17% Similarity=0.289 Sum_probs=21.1
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCC
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
.+|+.+|.......+ ...+||+|++|||=.
T Consensus 295 ~~~~~~D~~~~~~~~---~~~~fD~Vl~D~Pcs 324 (427)
T PRK10901 295 ATVIVGDARDPAQWW---DGQPFDRILLDAPCS 324 (427)
T ss_pred eEEEEcCcccchhhc---ccCCCCEEEECCCCC
Confidence 468888887654333 135699999999954
No 30
>PRK10742 putative methyltransferase; Provisional
Probab=66.96 E-value=4.3 Score=35.11 Aligned_cols=31 Identities=10% Similarity=0.030 Sum_probs=19.6
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCCCc
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
-+.+.+|....-+.. ...||+|.+|||.|.+
T Consensus 147 i~l~~~da~~~L~~~----~~~fDVVYlDPMfp~~ 177 (250)
T PRK10742 147 LQLIHASSLTALTDI----TPRPQVVYLDPMFPHK 177 (250)
T ss_pred EEEEeCcHHHHHhhC----CCCCcEEEECCCCCCC
Confidence 344455554433222 2369999999999974
No 31
>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=66.19 E-value=3.4 Score=32.12 Aligned_cols=30 Identities=37% Similarity=0.591 Sum_probs=17.3
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
..++.+|+.. .+ ...+||+||..||+.+..
T Consensus 83 v~~~~~d~~~---~~---~~~~fD~Iv~NPP~~~~~ 112 (170)
T PF05175_consen 83 VEVVQSDLFE---AL---PDGKFDLIVSNPPFHAGG 112 (170)
T ss_dssp EEEEESSTTT---TC---CTTCEEEEEE---SBTTS
T ss_pred cccccccccc---cc---cccceeEEEEccchhccc
Confidence 4556666533 22 257899999999987653
No 32
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=64.54 E-value=5.3 Score=35.99 Aligned_cols=31 Identities=19% Similarity=0.208 Sum_probs=21.4
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCCCc
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
-.|+.+|+..+...+ ..+||+|++|||...-
T Consensus 303 v~~~~~D~~~~~~~~----~~~fD~Vl~D~Pcsg~ 333 (444)
T PRK14902 303 IETKALDARKVHEKF----AEKFDKILVDAPCSGL 333 (444)
T ss_pred EEEEeCCcccccchh----cccCCEEEEcCCCCCC
Confidence 567777776643333 1569999999997543
No 33
>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=62.70 E-value=6.5 Score=33.51 Aligned_cols=34 Identities=29% Similarity=0.540 Sum_probs=23.3
Q ss_pred cCCCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 115 LPRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 115 iPp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
++..-.|+.+|+.. .++ ..+||+||.|||+-...
T Consensus 170 ~~~~i~~~~~D~~~---~~~---~~~fD~Iv~NPPy~~~~ 203 (284)
T TIGR03533 170 LEDRVTLIQSDLFA---ALP---GRKYDLIVSNPPYVDAE 203 (284)
T ss_pred CCCcEEEEECchhh---ccC---CCCccEEEECCCCCCcc
Confidence 34456788888743 232 34799999999996543
No 34
>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase. This family consists exclusively of proteins believed to act as tRNA (uracil-5-)-methyltransferase. All members of far are proteobacterial. The seed alignment was taken directly from pfam05958 in Pfam 12.0, but higher cutoffs are used to select only functionally equivalent proteins. Homologous proteins excluded by the higher cutoff scores of this model include other uracil methyltransferases, such as RumA, active on rRNA.
Probab=62.33 E-value=4.3 Score=35.78 Aligned_cols=32 Identities=13% Similarity=0.211 Sum_probs=20.4
Q ss_pred CCccccCCchhhccc------C---CC--CCCCCccEEEEcCC
Q 031322 118 ESCFFMSDLGQIHNL------I---PA--DSDCGFNLIVIDPP 149 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l------~---~~--~~~~~FdlIvlDPP 149 (161)
+.+|+.+|+...-.- + .+ ....+||+|++|||
T Consensus 246 ~v~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~lDPP 288 (353)
T TIGR02143 246 NVQIIRMSAEEFTQAMNGVREFRRLKGIDLKSYNCSTIFVDPP 288 (353)
T ss_pred cEEEEEcCHHHHHHHHhhccccccccccccccCCCCEEEECCC
Confidence 567899998774421 1 00 00124899999999
No 35
>KOG2730 consensus Methylase [General function prediction only]
Probab=61.94 E-value=4.2 Score=35.43 Aligned_cols=52 Identities=21% Similarity=0.468 Sum_probs=40.5
Q ss_pred cCceeecCCCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcccccccCC
Q 031322 109 LDRTYILPRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSARQKSVY 161 (161)
Q Consensus 109 ~~~~y~iPp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSvrRk~~Y 161 (161)
..+.|=||.+-+|+.||+-++-..+-. ....+|++-+=|||---|--|.+.|
T Consensus 135 NaeiYGI~~rItFI~GD~ld~~~~lq~-~K~~~~~vf~sppwggp~y~~~~~~ 186 (263)
T KOG2730|consen 135 NAEVYGVPDRITFICGDFLDLASKLKA-DKIKYDCVFLSPPWGGPSYLRADVY 186 (263)
T ss_pred cceeecCCceeEEEechHHHHHHHHhh-hhheeeeeecCCCCCCcchhhhhhh
Confidence 357899999999999999998865533 3456899999999987766555443
No 36
>PF04378 RsmJ: Ribosomal RNA small subunit methyltransferase D, RsmJ; InterPro: IPR007473 This is a bacterial protein of unknown function, possibly secreted.; PDB: 2OO3_A.
Probab=61.69 E-value=4.1 Score=34.94 Aligned_cols=33 Identities=27% Similarity=0.462 Sum_probs=13.7
Q ss_pred ccccCCc-hhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 120 CFFMSDL-GQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 120 ~Fl~~di-~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
+.+..|= ..+..++|. .++=-||+||||++.++
T Consensus 106 ~v~~~DG~~~l~allPP--~~rRglVLIDPpYE~~~ 139 (245)
T PF04378_consen 106 RVHHRDGYEGLKALLPP--PERRGLVLIDPPYEQKD 139 (245)
T ss_dssp EEE-S-HHHHHHHH-S---TTS-EEEEE-----STT
T ss_pred EEEeCchhhhhhhhCCC--CCCCeEEEECCCCCCch
Confidence 3344442 334566654 35567999999999875
No 37
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=61.67 E-value=5.3 Score=34.41 Aligned_cols=38 Identities=18% Similarity=0.400 Sum_probs=29.1
Q ss_pred CCCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcccc
Q 031322 116 PRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSAR 156 (161)
Q Consensus 116 Pp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSvr 156 (161)
...-+++..||.++...... .+||+||.-||.-..-.+
T Consensus 94 ~~ri~v~~~Di~~~~~~~~~---~~fD~Ii~NPPyf~~~~~ 131 (248)
T COG4123 94 EERIQVIEADIKEFLKALVF---ASFDLIICNPPYFKQGSR 131 (248)
T ss_pred hhceeEehhhHHHhhhcccc---cccCEEEeCCCCCCCccc
Confidence 35567889999999877733 489999999998654433
No 38
>COG1743 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]
Probab=61.24 E-value=4.6 Score=40.36 Aligned_cols=14 Identities=43% Similarity=0.885 Sum_probs=12.9
Q ss_pred CCccEEEEcCCCCC
Q 031322 139 CGFNLIVIDPPWEN 152 (161)
Q Consensus 139 ~~FdlIvlDPPW~N 152 (161)
.+||.||-||||--
T Consensus 488 ekfd~IVtDPPY~D 501 (875)
T COG1743 488 EKFDVIVTDPPYYD 501 (875)
T ss_pred ccCceeecCCCccc
Confidence 89999999999964
No 39
>PF05958 tRNA_U5-meth_tr: tRNA (Uracil-5-)-methyltransferase; InterPro: IPR010280 This family consists of (uracil-5-)-methyltransferases 2.1.1.35 from EC from bacteria, archaea and eukaryotes. A 5-methyluridine (m(5)U) residue at position 54 is a conserved feature of bacterial and eukaryotic tRNAs. The methylation of U54 is catalysed by the tRNA(m5U54)methyltransferase, which in Saccharomyces cerevisiae is encoded by the nonessential TRM2 gene. It is thought that tRNA modification enzymes might have a role in tRNA maturation not necessarily linked to their known catalytic activity []. This protein family also contains the 23SrRNA methyltransferases, first proposed to be RNA methyltransferases by homology to the TrmA family. The member from Escherichia coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA [].; GO: 0008173 RNA methyltransferase activity, 0006396 RNA processing; PDB: 2VS1_A 2JJQ_A 2BH2_A 1UWV_A 3BT7_B.
Probab=58.18 E-value=5.4 Score=35.15 Aligned_cols=11 Identities=36% Similarity=1.059 Sum_probs=7.0
Q ss_pred CCccEEEEcCC
Q 031322 139 CGFNLIVIDPP 149 (161)
Q Consensus 139 ~~FdlIvlDPP 149 (161)
.+||+||+|||
T Consensus 277 ~~~d~vilDPP 287 (352)
T PF05958_consen 277 FKFDAVILDPP 287 (352)
T ss_dssp TTESEEEE---
T ss_pred cCCCEEEEcCC
Confidence 46999999999
No 40
>PF12088 DUF3565: Protein of unknown function (DUF3565); InterPro: IPR021948 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 30 to 78 amino acids in length. This protein has two conserved sequence motifs: WVA and CGH.
Probab=56.65 E-value=5 Score=28.01 Aligned_cols=10 Identities=50% Similarity=1.159 Sum_probs=7.7
Q ss_pred EEcCCCCCcc
Q 031322 145 VIDPPWENGS 154 (161)
Q Consensus 145 vlDPPW~NkS 154 (161)
==||||.||-
T Consensus 24 RH~PPw~~Rp 33 (61)
T PF12088_consen 24 RHDPPWQNRP 33 (61)
T ss_pred cCCCCCcccC
Confidence 3489999974
No 41
>PHA03412 putative methyltransferase; Provisional
Probab=55.42 E-value=8.9 Score=33.00 Aligned_cols=31 Identities=19% Similarity=0.394 Sum_probs=23.5
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
.+.|+.+|+.... + ..+||+||..||.-+..
T Consensus 98 ~~~~~~~D~~~~~--~----~~~FDlIIsNPPY~~~~ 128 (241)
T PHA03412 98 EATWINADALTTE--F----DTLFDMAISNPPFGKIK 128 (241)
T ss_pred CCEEEEcchhccc--c----cCCccEEEECCCCCCcc
Confidence 4788899986532 1 35899999999998644
No 42
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=54.90 E-value=9.4 Score=33.09 Aligned_cols=31 Identities=29% Similarity=0.543 Sum_probs=21.6
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCc
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
.+-.|+.+|+.. .++ ..+||+||.|||+-..
T Consensus 184 ~~i~~~~~D~~~---~l~---~~~fDlIvsNPPyi~~ 214 (307)
T PRK11805 184 DRVTLIESDLFA---ALP---GRRYDLIVSNPPYVDA 214 (307)
T ss_pred CcEEEEECchhh---hCC---CCCccEEEECCCCCCc
Confidence 446788888743 222 2479999999998653
No 43
>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=54.39 E-value=8 Score=30.90 Aligned_cols=30 Identities=30% Similarity=0.489 Sum_probs=21.5
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCCCc
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
...|+.+|+.. .+ ...+||+||.+|||-..
T Consensus 138 ~~~~~~~d~~~---~~---~~~~fD~Vi~npPy~~~ 167 (251)
T TIGR03534 138 NVTFLQSDWFE---PL---PGGKFDLIVSNPPYIPE 167 (251)
T ss_pred eEEEEECchhc---cC---cCCceeEEEECCCCCch
Confidence 46778888754 23 24679999999998753
No 44
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=54.24 E-value=8.9 Score=34.56 Aligned_cols=31 Identities=23% Similarity=0.322 Sum_probs=19.6
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCC
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPW 150 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW 150 (161)
-.++.+|...+....+. ...+||.|++|||=
T Consensus 305 v~~~~~D~~~~~~~~~~-~~~~fD~Vl~DaPC 335 (434)
T PRK14901 305 IKILAADSRNLLELKPQ-WRGYFDRILLDAPC 335 (434)
T ss_pred EEEEeCChhhccccccc-ccccCCEEEEeCCC
Confidence 46677777655322211 13579999999994
No 45
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=53.66 E-value=9.5 Score=36.78 Aligned_cols=35 Identities=17% Similarity=0.364 Sum_probs=25.1
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
..-.|..+|+..+.... ...+||+||.+|||-.|.
T Consensus 283 ~~i~~~~~D~~~~~~~~---~~~~~d~IvtNPPYg~r~ 317 (702)
T PRK11783 283 ELITFEVKDVADLKNPL---PKGPTGLVISNPPYGERL 317 (702)
T ss_pred cceEEEeCChhhccccc---ccCCCCEEEECCCCcCcc
Confidence 34568889988765332 134699999999997654
No 46
>PRK03612 spermidine synthase; Provisional
Probab=51.48 E-value=10 Score=35.20 Aligned_cols=32 Identities=16% Similarity=0.105 Sum_probs=22.8
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCCC
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWEN 152 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~N 152 (161)
|+-.++.+|....-.. ...+||+|++|+|-+.
T Consensus 354 prv~vi~~Da~~~l~~----~~~~fDvIi~D~~~~~ 385 (521)
T PRK03612 354 PRVTVVNDDAFNWLRK----LAEKFDVIIVDLPDPS 385 (521)
T ss_pred CceEEEEChHHHHHHh----CCCCCCEEEEeCCCCC
Confidence 5677888887654321 3468999999998664
No 47
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=50.90 E-value=9.4 Score=31.18 Aligned_cols=33 Identities=24% Similarity=0.386 Sum_probs=21.4
Q ss_pred CCCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 116 PRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 116 Pp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
..+..|+.+|+.. .+ ...+||+||.+||+-..+
T Consensus 157 ~~~i~~~~~d~~~---~~---~~~~fD~Iv~npPy~~~~ 189 (275)
T PRK09328 157 GARVEFLQGDWFE---PL---PGGRFDLIVSNPPYIPEA 189 (275)
T ss_pred CCcEEEEEccccC---cC---CCCceeEEEECCCcCCcc
Confidence 3456677777622 12 136799999999986543
No 48
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=50.63 E-value=9.3 Score=34.67 Aligned_cols=31 Identities=16% Similarity=0.299 Sum_probs=21.0
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCCCc
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
-.+..+|...+.... ..+||.|++|||=-+-
T Consensus 290 v~~~~~Da~~l~~~~----~~~fD~Vl~DaPCsg~ 320 (431)
T PRK14903 290 IEIKIADAERLTEYV----QDTFDRILVDAPCTSL 320 (431)
T ss_pred EEEEECchhhhhhhh----hccCCEEEECCCCCCC
Confidence 467777776554322 3469999999997543
No 49
>PRK14967 putative methyltransferase; Provisional
Probab=48.84 E-value=11 Score=30.39 Aligned_cols=29 Identities=17% Similarity=0.309 Sum_probs=20.0
Q ss_pred ccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 120 CFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 120 ~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
.++.+|+.. .++ ..+||+||.|||+...+
T Consensus 87 ~~~~~d~~~---~~~---~~~fD~Vi~npPy~~~~ 115 (223)
T PRK14967 87 DVRRGDWAR---AVE---FRPFDVVVSNPPYVPAP 115 (223)
T ss_pred EEEECchhh---hcc---CCCeeEEEECCCCCCCC
Confidence 466677654 232 35799999999987543
No 50
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=48.24 E-value=11 Score=33.94 Aligned_cols=26 Identities=23% Similarity=0.373 Sum_probs=18.4
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCC
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPP 149 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPP 149 (161)
..++.+|+..+- .. ..+||+|++|||
T Consensus 109 ~~v~~~Da~~~l---~~--~~~fD~V~lDP~ 134 (382)
T PRK04338 109 EKVFNKDANALL---HE--ERKFDVVDIDPF 134 (382)
T ss_pred eEEEhhhHHHHH---hh--cCCCCEEEECCC
Confidence 458888886542 11 356999999998
No 51
>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=47.79 E-value=12 Score=31.50 Aligned_cols=33 Identities=21% Similarity=0.383 Sum_probs=23.0
Q ss_pred CCCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 116 PRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 116 Pp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
..+..|+.+|+.. .++ ..+||+||.+||+-..+
T Consensus 164 ~~~v~~~~~d~~~---~~~---~~~fDlIvsNPPyi~~~ 196 (284)
T TIGR00536 164 EHRVEFIQSNLFE---PLA---GQKIDIIVSNPPYIDEE 196 (284)
T ss_pred CCcEEEEECchhc---cCc---CCCccEEEECCCCCCcc
Confidence 3446788888743 222 23799999999997654
No 52
>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=47.37 E-value=13 Score=28.78 Aligned_cols=26 Identities=27% Similarity=0.480 Sum_probs=18.1
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCC
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
-.|+.+|+... + ..+||+|+.+|||-
T Consensus 68 ~~~~~~d~~~~---~----~~~fD~Vi~n~p~~ 93 (179)
T TIGR00537 68 LDVVMTDLFKG---V----RGKFDVILFNPPYL 93 (179)
T ss_pred eEEEEcccccc---c----CCcccEEEECCCCC
Confidence 35666776432 2 24799999999995
No 53
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=46.94 E-value=12 Score=32.92 Aligned_cols=33 Identities=21% Similarity=0.263 Sum_probs=25.4
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCCCc
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
+-.-++||..++-+-|+ +..||.||=|||=...
T Consensus 186 ~i~iilGD~~e~V~~~~---D~sfDaIiHDPPRfS~ 218 (287)
T COG2521 186 AIKIILGDAYEVVKDFD---DESFDAIIHDPPRFSL 218 (287)
T ss_pred ccEEecccHHHHHhcCC---ccccceEeeCCCccch
Confidence 34677888888877773 4779999999996543
No 54
>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=45.86 E-value=11 Score=31.84 Aligned_cols=16 Identities=25% Similarity=0.673 Sum_probs=10.9
Q ss_pred CCCccEEEEcCCCCCc
Q 031322 138 DCGFNLIVIDPPWENG 153 (161)
Q Consensus 138 ~~~FdlIvlDPPW~Nk 153 (161)
..+||+||..|||-.+
T Consensus 123 ~~~~D~ii~NPPf~~~ 138 (311)
T PF02384_consen 123 NQKFDVIIGNPPFGSK 138 (311)
T ss_dssp T--EEEEEEE--CTCE
T ss_pred ccccccccCCCCcccc
Confidence 5789999999999877
No 55
>cd02440 AdoMet_MTases S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).
Probab=45.79 E-value=16 Score=23.20 Aligned_cols=33 Identities=21% Similarity=0.413 Sum_probs=24.0
Q ss_pred CCCCccccCCchhhcccCCCCCCCCccEEEEcCCCCC
Q 031322 116 PRESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWEN 152 (161)
Q Consensus 116 Pp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~N 152 (161)
+....|+.+|+..... . ...+||+|+++++...
T Consensus 46 ~~~~~~~~~~~~~~~~-~---~~~~~d~i~~~~~~~~ 78 (107)
T cd02440 46 ADNVEVLKGDAEELPP-E---ADESFDVIISDPPLHH 78 (107)
T ss_pred ccceEEEEcChhhhcc-c---cCCceEEEEEccceee
Confidence 4567777888876653 1 2467999999999865
No 56
>COG1568 Predicted methyltransferases [General function prediction only]
Probab=44.90 E-value=6.5 Score=35.45 Aligned_cols=24 Identities=29% Similarity=0.639 Sum_probs=20.7
Q ss_pred hhcccCCCCCCCCccEEEEcCCCC
Q 031322 128 QIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 128 ~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
++|+.+|+....+||+++=|||-.
T Consensus 209 Dlr~plpe~~~~kFDvfiTDPpeT 232 (354)
T COG1568 209 DLRNPLPEDLKRKFDVFITDPPET 232 (354)
T ss_pred hhcccChHHHHhhCCeeecCchhh
Confidence 567899987789999999999964
No 57
>PRK00811 spermidine synthase; Provisional
Probab=40.99 E-value=19 Score=30.66 Aligned_cols=31 Identities=16% Similarity=0.318 Sum_probs=21.3
Q ss_pred CCCCccccCCchhhcccCCCCCCCCccEEEEc--CCC
Q 031322 116 PRESCFFMSDLGQIHNLIPADSDCGFNLIVID--PPW 150 (161)
Q Consensus 116 Pp~S~Fl~~di~~~~~l~~~~~~~~FdlIvlD--PPW 150 (161)
-|+-.++.+|....- .. ...+||+|++| +||
T Consensus 130 d~rv~v~~~Da~~~l---~~-~~~~yDvIi~D~~dp~ 162 (283)
T PRK00811 130 DPRVELVIGDGIKFV---AE-TENSFDVIIVDSTDPV 162 (283)
T ss_pred CCceEEEECchHHHH---hh-CCCcccEEEECCCCCC
Confidence 456678888876532 11 35689999999 466
No 58
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=40.36 E-value=19 Score=32.52 Aligned_cols=26 Identities=15% Similarity=0.161 Sum_probs=17.8
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCC
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPW 150 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW 150 (161)
-.|..+|...+. ....||+|++|||=
T Consensus 303 v~~~~~Da~~~~------~~~~fD~Vl~D~Pc 328 (445)
T PRK14904 303 IETIEGDARSFS------PEEQPDAILLDAPC 328 (445)
T ss_pred EEEEeCcccccc------cCCCCCEEEEcCCC
Confidence 466777765432 13579999999993
No 59
>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=39.84 E-value=21 Score=26.69 Aligned_cols=29 Identities=14% Similarity=0.318 Sum_probs=23.8
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCC
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPW 150 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW 150 (161)
...|+.+|+.++.+.+ . .+||+|+.++++
T Consensus 55 ni~~~~~d~~~l~~~~--~--~~~D~I~~~~~l 83 (152)
T PF13847_consen 55 NIEFIQGDIEDLPQEL--E--EKFDIIISNGVL 83 (152)
T ss_dssp TEEEEESBTTCGCGCS--S--TTEEEEEEESTG
T ss_pred ccceEEeehhcccccc--C--CCeeEEEEcCch
Confidence 7899999999866554 1 789999999876
No 60
>TIGR00091 tRNA (guanine-N(7)-)-methyltransferase. In E. coli, this protein flanks the DNA repair protein MutY, also called micA.
Probab=39.76 E-value=24 Score=27.91 Aligned_cols=35 Identities=11% Similarity=0.309 Sum_probs=24.4
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcC--CCCCcc
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDP--PWENGS 154 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDP--PW~NkS 154 (161)
+-.|+.+|+..+...+.. ...||.|++++ ||+.+.
T Consensus 67 ni~~i~~d~~~~~~~~~~--~~~~d~v~~~~pdpw~k~~ 103 (194)
T TIGR00091 67 NLHVLCGDANELLDKFFP--DGSLSKVFLNFPDPWPKKR 103 (194)
T ss_pred CEEEEccCHHHHHHhhCC--CCceeEEEEECCCcCCCCC
Confidence 458899999876433211 24699999985 898763
No 61
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=39.05 E-value=22 Score=32.94 Aligned_cols=31 Identities=19% Similarity=0.386 Sum_probs=20.9
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCCC
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWEN 152 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~N 152 (161)
+..|+.+|+... .++. ..+||+||.+||+-.
T Consensus 301 rV~fi~gDl~e~--~l~~--~~~FDLIVSNPPYI~ 331 (423)
T PRK14966 301 RVEFAHGSWFDT--DMPS--EGKWDIIVSNPPYIE 331 (423)
T ss_pred cEEEEEcchhcc--cccc--CCCccEEEECCCCCC
Confidence 457888887542 1221 347999999999843
No 62
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=36.29 E-value=30 Score=27.71 Aligned_cols=31 Identities=10% Similarity=0.003 Sum_probs=21.0
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCCC
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWEN 152 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~N 152 (161)
.+..|+.+|.... .+ ...+||+|++|++.++
T Consensus 128 ~~v~~~~~d~~~~---~~--~~~~fD~Ii~~~~~~~ 158 (215)
T TIGR00080 128 DNVIVIVGDGTQG---WE--PLAPYDRIYVTAAGPK 158 (215)
T ss_pred CCeEEEECCcccC---Cc--ccCCCCEEEEcCCccc
Confidence 3467888887542 21 2357999999988764
No 63
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=32.30 E-value=30 Score=29.63 Aligned_cols=17 Identities=35% Similarity=0.667 Sum_probs=14.0
Q ss_pred CCCccEEEEcCCCCCcc
Q 031322 138 DCGFNLIVIDPPWENGS 154 (161)
Q Consensus 138 ~~~FdlIvlDPPW~NkS 154 (161)
.++||+||--|||=...
T Consensus 174 ~~~fDlIVsNPPYip~~ 190 (280)
T COG2890 174 RGKFDLIVSNPPYIPAE 190 (280)
T ss_pred CCceeEEEeCCCCCCCc
Confidence 34899999999996654
No 64
>TIGR00308 TRM1 tRNA(guanine-26,N2-N2) methyltransferase. This enzyme is responsible for two methylations of a characteristic guanine of most tRNA molecules. The activity has been demonstrated for eukaryotic and archaeal proteins, which are active when expressed in E. coli, a species that lacks this enzyme. At least one Eubacterium, Aquifex aeolicus, has an ortholog, as do all completed archaeal genomes.
Probab=31.76 E-value=29 Score=31.31 Aligned_cols=27 Identities=22% Similarity=0.224 Sum_probs=18.2
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCC
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPP 149 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPP 149 (161)
..++.+|...+-.. ...+||+|.+||+
T Consensus 97 ~~v~~~Da~~~l~~----~~~~fDvIdlDPf 123 (374)
T TIGR00308 97 IEVPNEDAANVLRY----RNRKFHVIDIDPF 123 (374)
T ss_pred EEEEchhHHHHHHH----hCCCCCEEEeCCC
Confidence 45677776655322 1357999999995
No 65
>COG0116 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]
Probab=31.70 E-value=33 Score=31.51 Aligned_cols=30 Identities=13% Similarity=0.397 Sum_probs=22.7
Q ss_pred CccccCCchhhcccCCCCCCCCccEEEEcCCCCCc
Q 031322 119 SCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 119 S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
=.|..+|+..+++.+ ..+|+||-+|||--|
T Consensus 283 I~f~~~d~~~l~~~~-----~~~gvvI~NPPYGeR 312 (381)
T COG0116 283 IEFKQADATDLKEPL-----EEYGVVISNPPYGER 312 (381)
T ss_pred EEEEEcchhhCCCCC-----CcCCEEEeCCCcchh
Confidence 367777777777544 469999999999654
No 66
>COG2961 ComJ Protein involved in catabolism of external DNA [General function prediction only]
Probab=31.59 E-value=28 Score=30.79 Aligned_cols=23 Identities=30% Similarity=0.602 Sum_probs=15.3
Q ss_pred hcccCCCCCCCCccEEEEcCCCCCc
Q 031322 129 IHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 129 ~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
+...+|. .++=-||+||||.+-+
T Consensus 147 l~a~LPP--~erRglVLIDPPfE~~ 169 (279)
T COG2961 147 LKAHLPP--KERRGLVLIDPPFELK 169 (279)
T ss_pred HhhhCCC--CCcceEEEeCCCcccc
Confidence 3344533 3456799999999864
No 67
>COG0863 DNA modification methylase [DNA replication, recombination, and repair]
Probab=30.20 E-value=38 Score=27.80 Aligned_cols=36 Identities=31% Similarity=0.465 Sum_probs=26.8
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCccc
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSA 155 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSv 155 (161)
-..+.+.+|.....+.++. ..+|+|+-|||-.+.-.
T Consensus 15 ~~~~i~~~d~~~~l~~~~~---~svDli~tdppy~~~~~ 50 (302)
T COG0863 15 ELSKIYKGDCLEILKSLPE---NSVDLIFTDPPYNNVKA 50 (302)
T ss_pred hhhheecchHHHHHhhccc---cceeEEEcCCCcccccc
Confidence 3456677777766666754 38999999999988754
No 68
>PRK01581 speE spermidine synthase; Validated
Probab=30.18 E-value=38 Score=30.99 Aligned_cols=32 Identities=16% Similarity=0.241 Sum_probs=21.5
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCCC
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWEN 152 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~N 152 (161)
|+-+++.+|....- . ....+||+|++|.|-|.
T Consensus 207 pRV~vvi~Da~~fL---~-~~~~~YDVIIvDl~DP~ 238 (374)
T PRK01581 207 NRVNVHVCDAKEFL---S-SPSSLYDVIIIDFPDPA 238 (374)
T ss_pred CceEEEECcHHHHH---H-hcCCCccEEEEcCCCcc
Confidence 45566677776532 2 23467999999998764
No 69
>TIGR02987 met_A_Alw26 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family. Members of this family are the m6-adenine DNA methyltransferase protein, or domain of a fusion protein that also carries m5 cytosine methyltransferase activity, of type II restriction systems of the Alw26I/Eco31I/Esp3I family. A methyltransferase of this family is alway accompanied by a type II restriction endonuclease from the Alw26I/Eco31I/Esp3I family (TIGR02986) and by an adenine-specific modification methyltransferase. Members of this family are unusual in that regions of similarity to homologs outside this family are circularly permuted.
Probab=28.82 E-value=32 Score=31.63 Aligned_cols=15 Identities=20% Similarity=0.600 Sum_probs=13.2
Q ss_pred CCCccEEEEcCCCCC
Q 031322 138 DCGFNLIVIDPPWEN 152 (161)
Q Consensus 138 ~~~FdlIvlDPPW~N 152 (161)
.++||+||--|||-.
T Consensus 110 ~~~fD~IIgNPPy~~ 124 (524)
T TIGR02987 110 LDLFDIVITNPPYGR 124 (524)
T ss_pred cCcccEEEeCCCccc
Confidence 357999999999986
No 70
>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=24.90 E-value=46 Score=27.90 Aligned_cols=15 Identities=20% Similarity=0.408 Sum_probs=12.1
Q ss_pred CCCccEEEEcCCCCC
Q 031322 138 DCGFNLIVIDPPWEN 152 (161)
Q Consensus 138 ~~~FdlIvlDPPW~N 152 (161)
..+||+||+|++-+.
T Consensus 143 ~~~yDvIi~D~~~~~ 157 (270)
T TIGR00417 143 ENTFDVIIVDSTDPV 157 (270)
T ss_pred CCCccEEEEeCCCCC
Confidence 468999999998554
No 71
>PF12690 BsuPI: Intracellular proteinase inhibitor; InterPro: IPR020481 BsuPI is a intracellular proteinase inhibitor that directly regulates the major intracellular proteinase (ISP-1) activity in vivo. It inhibits ISP-1 in the early stages of sporulation and then may be inactivated by a membrane-bound proteinase [].; PDB: 3ISY_A.
Probab=24.88 E-value=43 Score=23.81 Aligned_cols=13 Identities=23% Similarity=0.411 Sum_probs=8.6
Q ss_pred CCCCCccEEEEcC
Q 031322 136 DSDCGFNLIVIDP 148 (161)
Q Consensus 136 ~~~~~FdlIvlDP 148 (161)
+++.+|||+|.|+
T Consensus 21 ~sgq~~D~~v~d~ 33 (82)
T PF12690_consen 21 PSGQRYDFVVKDK 33 (82)
T ss_dssp SSS--EEEEEE-T
T ss_pred CCCCEEEEEEECC
Confidence 5689999999986
No 72
>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=24.68 E-value=56 Score=29.32 Aligned_cols=18 Identities=22% Similarity=0.458 Sum_probs=13.9
Q ss_pred CCCccEEEEcCCCCCccc
Q 031322 138 DCGFNLIVIDPPWENGSA 155 (161)
Q Consensus 138 ~~~FdlIvlDPPW~NkSv 155 (161)
..+||.|++|||...-.+
T Consensus 307 ~~~fD~VllDaPcSg~G~ 324 (426)
T TIGR00563 307 NEQFDRILLDAPCSATGV 324 (426)
T ss_pred ccccCEEEEcCCCCCCcc
Confidence 357999999999776443
No 73
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=24.55 E-value=50 Score=27.41 Aligned_cols=29 Identities=21% Similarity=0.356 Sum_probs=21.9
Q ss_pred ccccCCchhhcccCCCCCCCCccEEEEcCCCCCc
Q 031322 120 CFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENG 153 (161)
Q Consensus 120 ~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~Nk 153 (161)
.|+.+||.+.. ....-||-.|+|||+--|
T Consensus 99 dlLqcdildle-----~~~g~fDtaviNppFGTk 127 (185)
T KOG3420|consen 99 DLLQCDILDLE-----LKGGIFDTAVINPPFGTK 127 (185)
T ss_pred heeeeeccchh-----ccCCeEeeEEecCCCCcc
Confidence 67788887665 223779999999998654
No 74
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=23.77 E-value=48 Score=30.81 Aligned_cols=32 Identities=25% Similarity=0.338 Sum_probs=20.9
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
.+..|+.+|+.. .+ ...+||+||.+||+--.+
T Consensus 189 ~~v~~~~~D~~~---~~---~~~~fDlIvsNPPYi~~~ 220 (506)
T PRK01544 189 DRIQIIHSNWFE---NI---EKQKFDFIVSNPPYISHS 220 (506)
T ss_pred cceeeeecchhh---hC---cCCCccEEEECCCCCCch
Confidence 345677777532 12 135799999999986543
No 75
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=23.41 E-value=59 Score=24.92 Aligned_cols=29 Identities=10% Similarity=0.104 Sum_probs=20.6
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCC
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
+-.++.+|+..+. + ...+||+|+.+||..
T Consensus 60 ~v~ii~~D~~~~~--~---~~~~~d~vi~n~Py~ 88 (169)
T smart00650 60 NLTVIHGDALKFD--L---PKLQPYKVVGNLPYN 88 (169)
T ss_pred CEEEEECchhcCC--c---cccCCCEEEECCCcc
Confidence 4567788886653 2 123699999999975
No 76
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=22.82 E-value=51 Score=29.83 Aligned_cols=28 Identities=18% Similarity=0.447 Sum_probs=18.1
Q ss_pred CCccccCCchhhcccCCCCCCCCccEEEEcCCCC
Q 031322 118 ESCFFMSDLGQIHNLIPADSDCGFNLIVIDPPWE 151 (161)
Q Consensus 118 ~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~ 151 (161)
..+|+.+|+.. .+ ...+||+||.+||+.
T Consensus 282 ~v~~~~~D~l~---~~---~~~~fDlIlsNPPfh 309 (378)
T PRK15001 282 RCEFMINNALS---GV---EPFRFNAVLCNPPFH 309 (378)
T ss_pred eEEEEEccccc---cC---CCCCEEEEEECcCcc
Confidence 34666666521 11 235799999999984
No 77
>COG0144 Sun tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]
Probab=22.65 E-value=62 Score=28.69 Aligned_cols=19 Identities=21% Similarity=0.490 Sum_probs=15.9
Q ss_pred CccEEEEcCCCCCcccccc
Q 031322 140 GFNLIVIDPPWENGSARQK 158 (161)
Q Consensus 140 ~FdlIvlDPPW~NkSvrRk 158 (161)
+||-|++|||=..-.+-||
T Consensus 229 ~fD~iLlDaPCSg~G~irr 247 (355)
T COG0144 229 KFDRILLDAPCSGTGVIRR 247 (355)
T ss_pred cCcEEEECCCCCCCccccc
Confidence 6999999999877777665
No 78
>COG1041 Predicted DNA modification methylase [DNA replication, recombination, and repair]
Probab=22.65 E-value=67 Score=29.16 Aligned_cols=40 Identities=15% Similarity=0.275 Sum_probs=29.2
Q ss_pred CceeecCCCCccccC-CchhhcccCCCCCCCCccEEEEcCCCCCcc
Q 031322 110 DRTYILPRESCFFMS-DLGQIHNLIPADSDCGFNLIVIDPPWENGS 154 (161)
Q Consensus 110 ~~~y~iPp~S~Fl~~-di~~~~~l~~~~~~~~FdlIvlDPPW~NkS 154 (161)
|-.++=+.+..++.. |+..++ ++. ..||-|+-|||.-..+
T Consensus 238 Nl~~y~i~~~~~~~~~Da~~lp--l~~---~~vdaIatDPPYGrst 278 (347)
T COG1041 238 NLEYYGIEDYPVLKVLDATNLP--LRD---NSVDAIATDPPYGRST 278 (347)
T ss_pred hhhhhCcCceeEEEecccccCC--CCC---CccceEEecCCCCccc
Confidence 334443677777777 998888 633 4799999999987655
No 79
>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=22.15 E-value=47 Score=27.97 Aligned_cols=24 Identities=21% Similarity=0.425 Sum_probs=14.6
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEE
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVI 146 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvl 146 (161)
|.-+|..+|+.... ...+|||||+
T Consensus 89 ~~V~~~~~dvp~~~------P~~~FDLIV~ 112 (201)
T PF05401_consen 89 PHVEWIQADVPEFW------PEGRFDLIVL 112 (201)
T ss_dssp SSEEEEES-TTT---------SS-EEEEEE
T ss_pred CCeEEEECcCCCCC------CCCCeeEEEE
Confidence 45678888886542 3578999997
No 80
>PRK04457 spermidine synthase; Provisional
Probab=20.99 E-value=51 Score=27.77 Aligned_cols=28 Identities=11% Similarity=0.106 Sum_probs=19.1
Q ss_pred CCCccccCCchhhcccCCCCCCCCccEEEEcC
Q 031322 117 RESCFFMSDLGQIHNLIPADSDCGFNLIVIDP 148 (161)
Q Consensus 117 p~S~Fl~~di~~~~~l~~~~~~~~FdlIvlDP 148 (161)
++-.++.+|....-.. ...+||+|++|.
T Consensus 117 ~rv~v~~~Da~~~l~~----~~~~yD~I~~D~ 144 (262)
T PRK04457 117 ERFEVIEADGAEYIAV----HRHSTDVILVDG 144 (262)
T ss_pred CceEEEECCHHHHHHh----CCCCCCEEEEeC
Confidence 4567788887654322 235799999994
No 81
>PF07167 PhaC_N: Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; InterPro: IPR010941 This entry represents the central domain of the bacterial poly-beta-hydroxybutyrate polymerase (PhaC). Polyhydroxyalkanoic acids (PHAs) are carbon and energy reserve polymers produced in some bacteria when carbon sources are plentiful and another nutrient, such as nitrogen, phosphate, oxygen, or sulphur, becomes limiting. PHAs composed of monomeric units ranging from 3 to 14 carbons exist in nature. When the carbon source is exhausted, PHA is utilised by the bacterium. PhaC links D-(-)-3-hydroxybutyrl-CoA to an existing PHA molecule by the formation of an ester bond [].; GO: 0016746 transferase activity, transferring acyl groups, 0042619 poly-hydroxybutyrate biosynthetic process
Probab=20.98 E-value=41 Score=27.65 Aligned_cols=12 Identities=58% Similarity=0.891 Sum_probs=9.2
Q ss_pred ccEEEEcCCCCCcc
Q 031322 141 FNLIVIDPPWENGS 154 (161)
Q Consensus 141 FdlIvlDPPW~NkS 154 (161)
.=||| |||=||+
T Consensus 146 PlLIv--Pp~InKy 157 (172)
T PF07167_consen 146 PLLIV--PPWINKY 157 (172)
T ss_pred eEEee--cchhchh
Confidence 44666 9999985
No 82
>cd00315 Cyt_C5_DNA_methylase Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the mammalian genome. These effects include transcriptional repression via inhibition of transcription factor binding or the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability.
Probab=20.87 E-value=62 Score=27.36 Aligned_cols=34 Identities=18% Similarity=0.114 Sum_probs=24.3
Q ss_pred cccCCchhhcccCCCCCCCCccEEEEcCCCCCccccc
Q 031322 121 FFMSDLGQIHNLIPADSDCGFNLIVIDPPWENGSARQ 157 (161)
Q Consensus 121 Fl~~di~~~~~l~~~~~~~~FdlIvlDPPW~NkSvrR 157 (161)
.+.+||..+... ...+.+|+|+.+||-..=|.-.
T Consensus 46 ~~~~Di~~~~~~---~~~~~~D~l~~gpPCq~fS~ag 79 (275)
T cd00315 46 LIEGDITKIDEK---DFIPDIDLLTGGFPCQPFSIAG 79 (275)
T ss_pred CccCccccCchh---hcCCCCCEEEeCCCChhhhHHh
Confidence 677888877632 1135699999999998766643
No 83
>KOG2671 consensus Putative RNA methylase [Replication, recombination and repair]
Probab=20.82 E-value=42 Score=31.15 Aligned_cols=21 Identities=33% Similarity=0.599 Sum_probs=15.4
Q ss_pred CCCCccEEEEcCCCCCccccc
Q 031322 137 SDCGFNLIVIDPPWENGSARQ 157 (161)
Q Consensus 137 ~~~~FdlIvlDPPW~NkSvrR 157 (161)
..-+||.||-|||.-=|-.-|
T Consensus 281 sn~~fDaIvcDPPYGVRe~~r 301 (421)
T KOG2671|consen 281 SNLKFDAIVCDPPYGVREGAR 301 (421)
T ss_pred hcceeeEEEeCCCcchhhhhh
Confidence 356899999999996543333
No 84
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=20.60 E-value=84 Score=22.14 Aligned_cols=35 Identities=23% Similarity=0.437 Sum_probs=22.0
Q ss_pred hhcCceeecCCCC--ccccCCchhhcccCCCCCCCCccEEEEcC
Q 031322 107 EILDRTYILPRES--CFFMSDLGQIHNLIPADSDCGFNLIVIDP 148 (161)
Q Consensus 107 e~~~~~y~iPp~S--~Fl~~di~~~~~l~~~~~~~~FdlIvlDP 148 (161)
.+.+.++++|+.. +..+|+-+-...-+ + =+||+||
T Consensus 6 AC~~Ck~l~~~d~e~CP~Cgs~~~te~W~------G-~~iIidp 42 (64)
T COG2093 6 ACKNCKRLTPEDTEICPVCGSTDLTEEWF------G-LLIIIDP 42 (64)
T ss_pred HHhhccccCCCCCccCCCCCCcccchhhc------c-EEEEEcC
Confidence 3456788889888 88887654333222 1 1577787
No 85
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=20.51 E-value=55 Score=29.43 Aligned_cols=14 Identities=29% Similarity=0.835 Sum_probs=11.7
Q ss_pred CCCccEEEEcCCCC
Q 031322 138 DCGFNLIVIDPPWE 151 (161)
Q Consensus 138 ~~~FdlIvlDPPW~ 151 (161)
..+.|+|||||-..
T Consensus 111 e~~aDLIVm~~~~~ 124 (357)
T PRK12652 111 EHGIDRVVLDPEYN 124 (357)
T ss_pred HcCCCEEEECCCCC
Confidence 46799999999764
No 86
>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]
Probab=20.02 E-value=66 Score=26.14 Aligned_cols=12 Identities=33% Similarity=0.783 Sum_probs=10.0
Q ss_pred CCCccEEEEcCC
Q 031322 138 DCGFNLIVIDPP 149 (161)
Q Consensus 138 ~~~FdlIvlDPP 149 (161)
...||+||+|-|
T Consensus 117 ~~~yD~iiID~p 128 (259)
T COG1192 117 KDDYDYIIIDTP 128 (259)
T ss_pred ccCCCEEEECCC
Confidence 467999999955
Done!