Query 034814
Match_columns 82
No_of_seqs 104 out of 332
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 06:41:41 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034814.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034814hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03492 Methyltransf_7: SAM d 100.0 4.1E-30 8.9E-35 193.1 8.8 79 4-82 143-230 (334)
2 PLN02668 indole-3-acetate carb 100.0 3.2E-29 6.9E-34 192.4 9.4 76 7-82 200-286 (386)
3 PRK10079 phosphonate metabolis 86.9 0.4 8.6E-06 34.0 1.6 49 16-74 14-67 (241)
4 KOG1270 Methyltransferases [Co 82.7 1.2 2.5E-05 33.9 2.5 28 21-48 172-199 (282)
5 PRK04266 fibrillarin; Provisio 79.4 8.3 0.00018 27.6 5.9 49 26-74 158-206 (226)
6 PF02268 TFIIA_gamma_N: Transc 79.2 1.8 4E-05 24.7 2.0 18 57-74 13-30 (49)
7 PF10357 Kin17_mid: Domain of 78.2 2.6 5.5E-05 28.5 2.8 26 6-31 8-33 (127)
8 PF12847 Methyltransf_18: Meth 77.3 2.4 5.1E-05 25.7 2.3 24 21-44 88-111 (112)
9 TIGR02469 CbiT precorrin-6Y C5 75.8 4.3 9.2E-05 24.7 3.2 25 21-45 99-123 (124)
10 TIGR02404 trehalos_R_Bsub treh 74.3 1.8 3.9E-05 30.3 1.3 49 17-74 3-56 (233)
11 TIGR02018 his_ut_repres histid 74.3 2 4.3E-05 30.1 1.5 49 17-74 4-57 (230)
12 PF09597 IGR: IGR protein moti 73.4 4.5 9.8E-05 23.7 2.6 27 13-39 13-39 (57)
13 PLN02232 ubiquinone biosynthes 72.0 1.7 3.6E-05 29.1 0.6 48 2-49 39-86 (160)
14 PRK10258 biotin biosynthesis p 71.2 1.5 3.3E-05 30.9 0.3 35 14-48 110-144 (251)
15 TIGR02072 BioC biotin biosynth 69.6 3.2 6.9E-05 28.1 1.6 34 15-48 106-139 (240)
16 PTZ00146 fibrillarin; Provisio 69.6 21 0.00047 27.0 6.2 49 33-81 226-275 (293)
17 COG3041 Uncharacterized protei 65.2 4.1 9E-05 26.1 1.4 15 14-28 5-19 (91)
18 TIGR01610 phage_O_Nterm phage 62.1 9.8 0.00021 23.6 2.7 25 57-81 62-93 (95)
19 PF13489 Methyltransf_23: Meth 62.0 8.9 0.00019 24.3 2.5 27 22-48 93-119 (161)
20 KOG3463 Transcription initiati 58.8 9.4 0.0002 25.3 2.2 18 57-74 14-31 (109)
21 PF02353 CMAS: Mycolic acid cy 58.3 9.1 0.0002 28.2 2.4 30 21-50 143-172 (273)
22 PRK01581 speE spermidine synth 57.7 29 0.00062 27.3 5.1 46 32-82 256-303 (374)
23 TIGR01934 MenG_MenH_UbiE ubiqu 57.0 12 0.00026 25.1 2.7 27 21-47 120-146 (223)
24 PLN02233 ubiquinone biosynthes 57.0 2.6 5.7E-05 30.5 -0.7 31 20-50 158-188 (261)
25 PRK00121 trmB tRNA (guanine-N( 56.6 34 0.00073 23.6 4.9 43 23-74 135-177 (202)
26 PF01564 Spermine_synth: Sperm 54.9 20 0.00044 25.9 3.7 53 25-82 172-226 (246)
27 PRK08287 cobalt-precorrin-6Y C 54.0 30 0.00065 23.2 4.2 40 23-71 110-149 (187)
28 COG3580 Uncharacterized protei 53.7 32 0.0007 26.9 4.7 38 9-50 170-213 (351)
29 COG1889 NOP1 Fibrillarin-like 52.6 18 0.00039 26.8 3.0 54 17-70 152-206 (231)
30 KOG2837 Protein containing a U 51.9 16 0.00035 28.0 2.8 26 8-33 61-86 (309)
31 PRK11402 DNA-binding transcrip 51.8 11 0.00023 26.6 1.7 18 57-74 48-65 (241)
32 PF01269 Fibrillarin: Fibrilla 51.6 2.4 5.2E-05 31.3 -1.6 51 21-71 154-205 (229)
33 PRK15068 tRNA mo(5)U34 methylt 50.9 18 0.0004 27.1 3.0 31 20-50 202-232 (322)
34 PF08241 Methyltransf_11: Meth 50.7 14 0.0003 21.0 1.9 22 21-42 74-95 (95)
35 PF00325 Crp: Bacterial regula 50.3 20 0.00043 18.6 2.2 16 57-72 17-32 (32)
36 TIGR02325 C_P_lyase_phnF phosp 48.3 13 0.00028 25.8 1.7 49 17-74 11-64 (238)
37 COG2188 PhnF Transcriptional r 48.3 12 0.00026 26.7 1.6 18 57-74 46-63 (236)
38 COG2230 Cfa Cyclopropane fatty 48.0 26 0.00057 26.5 3.4 36 15-50 147-182 (283)
39 smart00828 PKS_MT Methyltransf 47.7 20 0.00044 24.5 2.6 27 21-47 81-107 (224)
40 PLN02396 hexaprenyldihydroxybe 47.6 20 0.00044 27.1 2.8 28 21-48 212-239 (322)
41 cd02440 AdoMet_MTases S-adenos 47.4 37 0.00079 18.7 3.3 24 20-43 80-103 (107)
42 PRK14103 trans-aconitate 2-met 47.1 15 0.00033 25.9 2.0 28 19-46 101-128 (255)
43 PRK08317 hypothetical protein; 45.7 22 0.00048 23.8 2.5 26 21-46 101-126 (241)
44 PRK03612 spermidine synthase; 45.0 62 0.0013 26.0 5.3 45 32-81 403-449 (521)
45 smart00345 HTH_GNTR helix_turn 44.9 23 0.00049 18.8 2.1 18 57-74 35-52 (60)
46 PTZ00098 phosphoethanolamine N 44.9 37 0.0008 24.5 3.7 29 21-49 133-161 (263)
47 PF06859 Bin3: Bicoid-interact 44.7 20 0.00043 23.7 2.0 27 19-45 19-45 (110)
48 PF13412 HTH_24: Winged helix- 44.4 24 0.00053 18.6 2.1 17 57-73 32-48 (48)
49 PRK11705 cyclopropane fatty ac 44.3 35 0.00075 26.3 3.7 29 21-49 244-272 (383)
50 PRK01683 trans-aconitate 2-met 44.0 22 0.00048 25.0 2.4 27 20-46 106-132 (258)
51 COG1092 Predicted SAM-dependen 43.4 61 0.0013 25.5 4.9 29 17-45 309-337 (393)
52 TIGR00477 tehB tellurite resis 43.1 62 0.0013 22.1 4.5 23 21-43 110-132 (195)
53 TIGR00740 methyltransferase, p 43.1 41 0.00089 23.5 3.6 29 21-49 138-166 (239)
54 PF12399 BCA_ABC_TP_C: Branche 43.0 12 0.00025 18.1 0.6 10 7-16 13-22 (23)
55 COG2227 UbiG 2-polyprenyl-3-me 43.0 25 0.00054 26.2 2.6 27 22-48 139-165 (243)
56 COG2186 FadR Transcriptional r 42.7 18 0.0004 25.9 1.8 51 11-74 11-66 (241)
57 PF04567 RNA_pol_Rpb2_5: RNA p 42.7 15 0.00033 20.3 1.1 11 63-73 1-11 (48)
58 PF13659 Methyltransf_26: Meth 42.7 27 0.00059 21.0 2.4 24 22-45 93-116 (117)
59 PF13545 HTH_Crp_2: Crp-like h 42.5 25 0.00055 20.0 2.1 18 57-74 43-60 (76)
60 PRK05134 bifunctional 3-demeth 42.3 31 0.00066 23.8 2.9 26 22-47 129-154 (233)
61 PF05891 Methyltransf_PK: AdoM 42.0 21 0.00046 26.1 2.0 25 20-44 137-161 (218)
62 PRK14999 histidine utilization 41.6 18 0.00038 25.5 1.6 50 16-74 14-68 (241)
63 PF09989 DUF2229: CoA enzyme a 41.5 74 0.0016 22.7 4.8 45 7-51 145-195 (221)
64 PRK00107 gidB 16S rRNA methylt 41.3 27 0.00059 24.2 2.5 24 21-44 122-145 (187)
65 TIGR00138 gidB 16S rRNA methyl 41.2 73 0.0016 21.8 4.6 51 22-79 120-173 (181)
66 PF06819 Arc_PepC: Archaeal Pe 41.2 20 0.00044 23.7 1.7 18 61-78 93-110 (110)
67 PRK00377 cbiT cobalt-precorrin 41.0 85 0.0018 21.3 4.9 42 21-71 122-163 (198)
68 TIGR00417 speE spermidine synt 40.9 91 0.002 22.5 5.3 19 25-43 167-185 (270)
69 PF08784 RPA_C: Replication pr 40.0 24 0.00053 21.7 1.9 18 57-74 80-97 (102)
70 PF08738 Gon7: Gon7 family; I 39.7 71 0.0015 20.7 4.1 28 8-35 48-82 (103)
71 PF00392 GntR: Bacterial regul 39.7 30 0.00065 19.5 2.1 18 57-74 39-56 (64)
72 PF08172 CASP_C: CASP C termin 39.2 29 0.00062 25.6 2.4 28 7-34 164-191 (248)
73 PF07370 DUF1489: Protein of u 38.8 22 0.00048 24.3 1.7 22 26-47 36-57 (137)
74 smart00271 DnaJ DnaJ molecular 38.2 53 0.0012 17.7 3.0 15 6-20 13-27 (60)
75 COG0275 Predicted S-adenosylme 38.2 49 0.0011 25.6 3.6 32 14-45 214-245 (314)
76 PF01638 HxlR: HxlR-like helix 38.1 27 0.00058 21.2 1.8 18 57-74 34-51 (90)
77 PRK09334 30S ribosomal protein 38.1 26 0.00057 22.1 1.8 25 57-81 56-83 (86)
78 PRK09764 DNA-binding transcrip 38.0 22 0.00047 25.1 1.6 49 17-74 8-61 (240)
79 PRK07402 precorrin-6B methylas 37.5 35 0.00075 23.1 2.5 25 22-46 120-144 (196)
80 PF06969 HemN_C: HemN C-termin 37.3 33 0.00071 19.2 2.0 30 13-42 24-53 (66)
81 PRK10901 16S rRNA methyltransf 37.2 1.2E+02 0.0026 23.5 5.7 28 18-45 346-373 (427)
82 COG5123 TOA2 Transcription ini 36.7 34 0.00073 22.6 2.2 18 57-74 15-32 (113)
83 TIGR02752 MenG_heptapren 2-hep 36.6 42 0.00091 23.0 2.8 27 21-47 128-154 (231)
84 PF01555 N6_N4_Mtase: DNA meth 36.5 46 0.001 22.1 3.0 27 20-46 28-58 (231)
85 KOG4796 RNA polymerase II elon 36.0 53 0.0012 27.4 3.6 24 8-31 499-522 (604)
86 PF10009 DUF2252: Uncharacteri 35.7 41 0.00089 26.1 2.9 20 10-29 366-385 (385)
87 PF13730 HTH_36: Helix-turn-he 35.7 44 0.00095 18.0 2.3 16 57-72 40-55 (55)
88 PF14044 NETI: NETI protein 35.7 34 0.00074 20.2 1.9 18 57-74 8-25 (57)
89 PRK12335 tellurite resistance 35.5 76 0.0017 23.0 4.2 25 21-45 200-224 (287)
90 PRK09391 fixK transcriptional 35.4 44 0.00094 23.3 2.8 18 57-74 194-211 (230)
91 PRK12275 hypothetical protein; 35.0 37 0.00079 21.5 2.2 30 7-36 46-78 (116)
92 PF03269 DUF268: Caenorhabditi 34.4 48 0.001 23.7 2.8 28 22-50 90-117 (177)
93 smart00055 FCH Fes/CIP4 homolo 33.7 45 0.00097 19.6 2.3 14 19-32 24-37 (87)
94 COG2518 Pcm Protein-L-isoaspar 33.3 24 0.00051 25.6 1.1 13 33-45 158-170 (209)
95 PRK00805 putative deoxyhypusin 33.1 66 0.0014 24.9 3.6 33 36-74 45-77 (329)
96 PF14411 LHH: A nuclease of th 33.0 65 0.0014 19.9 3.0 20 16-35 62-81 (81)
97 TIGR00446 nop2p NOL1/NOP2/sun 32.9 1.4E+02 0.0031 21.5 5.2 27 19-45 174-200 (264)
98 TIGR03697 NtcA_cyano global ni 32.8 38 0.00082 22.3 2.0 18 57-74 158-175 (193)
99 PRK03971 putative deoxyhypusin 32.7 2.4E+02 0.0051 21.9 7.3 59 7-74 30-97 (334)
100 PF08679 DsrD: Dissimilatory s 32.7 38 0.00082 20.6 1.8 17 57-73 35-51 (67)
101 PRK00216 ubiE ubiquinone/menaq 32.5 63 0.0014 21.8 3.1 28 21-48 135-162 (239)
102 TIGR00537 hemK_rel_arch HemK-r 32.5 87 0.0019 20.8 3.8 26 23-48 119-144 (179)
103 cd07377 WHTH_GntR Winged helix 32.4 46 0.001 17.9 2.1 18 57-74 40-57 (66)
104 PRK00050 16S rRNA m(4)C1402 me 32.3 59 0.0013 24.5 3.2 28 18-45 210-237 (296)
105 smart00419 HTH_CRP helix_turn_ 31.7 41 0.0009 17.1 1.7 18 57-74 23-40 (48)
106 PLN02244 tocopherol O-methyltr 31.6 63 0.0014 24.2 3.3 27 22-48 201-227 (340)
107 PRK01099 rpoK DNA-directed RNA 31.5 1.1E+02 0.0025 17.9 4.4 42 23-73 12-53 (62)
108 TIGR02436 conserved hypothetic 31.3 26 0.00056 22.5 1.0 25 6-30 38-62 (111)
109 PLN02336 phosphoethanolamine N 31.3 68 0.0015 24.8 3.5 28 22-49 347-374 (475)
110 PRK14903 16S rRNA methyltransf 31.3 1.7E+02 0.0037 22.9 5.7 31 17-47 339-369 (431)
111 TIGR00006 S-adenosyl-methyltra 31.0 64 0.0014 24.5 3.2 25 20-44 216-240 (305)
112 KOG1158 NADP/FAD dependent oxi 30.9 1.1E+02 0.0023 25.9 4.7 47 23-74 506-557 (645)
113 PF01978 TrmB: Sugar-specific 30.7 40 0.00087 19.1 1.7 18 57-74 37-54 (68)
114 PF09851 SHOCT: Short C-termin 30.3 42 0.00092 16.8 1.5 14 61-74 6-19 (31)
115 TIGR03534 RF_mod_PrmC protein- 30.1 80 0.0017 21.7 3.4 24 21-44 194-217 (251)
116 TIGR03337 phnR transcriptional 30.0 38 0.00083 23.3 1.7 49 17-74 4-57 (231)
117 PF06080 DUF938: Protein of un 30.0 1E+02 0.0022 22.2 4.0 30 25-54 122-151 (204)
118 PF12098 DUF3574: Protein of u 29.9 14 0.00029 24.1 -0.5 14 9-22 78-91 (104)
119 PRK14968 putative methyltransf 29.9 90 0.0019 20.3 3.5 24 22-45 126-149 (188)
120 PF12802 MarR_2: MarR family; 29.9 47 0.001 18.0 1.8 18 57-74 36-53 (62)
121 PRK10391 oriC-binding nucleoid 29.9 27 0.00059 21.4 0.8 21 21-41 34-57 (71)
122 PRK00770 deoxyhypusine synthas 29.6 64 0.0014 25.4 3.1 33 36-74 50-83 (384)
123 TIGR00438 rrmJ cell division p 29.0 1.3E+02 0.0028 20.1 4.2 24 21-44 123-146 (188)
124 PF08242 Methyltransf_12: Meth 28.8 37 0.0008 20.0 1.3 20 21-40 80-99 (99)
125 PF13812 PPR_3: Pentatricopept 28.8 72 0.0016 14.7 2.3 16 57-72 18-33 (34)
126 PF01234 NNMT_PNMT_TEMT: NNMT/ 28.7 70 0.0015 23.7 3.0 43 18-64 177-228 (256)
127 PF14454 Prok_Ub: Prokaryotic 28.7 47 0.001 19.9 1.7 20 2-21 20-39 (65)
128 TIGR01177 conserved hypothetic 28.7 1E+02 0.0022 22.9 3.9 25 23-47 273-297 (329)
129 PF01209 Ubie_methyltran: ubiE 28.2 51 0.0011 23.6 2.2 29 22-50 131-159 (233)
130 TIGR00563 rsmB ribosomal RNA s 28.1 2.2E+02 0.0048 22.0 5.8 28 19-46 343-370 (426)
131 PF13260 DUF4051: Protein of u 28.0 1.2E+02 0.0025 17.5 3.2 27 12-38 22-48 (54)
132 smart00335 ANX Annexin repeats 28.0 57 0.0012 17.4 1.9 21 9-29 20-40 (53)
133 COG2242 CobL Precorrin-6B meth 27.7 1.9E+02 0.0042 20.6 5.0 39 24-71 115-153 (187)
134 TIGR00452 methyltransferase, p 27.4 70 0.0015 24.2 2.9 27 21-47 202-228 (314)
135 PRK02301 putative deoxyhypusin 27.1 99 0.0021 23.8 3.7 33 36-74 56-88 (316)
136 PRK13918 CRP/FNR family transc 27.1 54 0.0012 21.8 2.1 18 57-74 164-181 (202)
137 PF03297 Ribosomal_S25: S25 ri 27.0 51 0.0011 21.4 1.8 18 57-74 74-91 (105)
138 cd00904 Ferritin Ferritin iron 27.0 2E+02 0.0042 19.2 5.4 41 8-48 36-76 (160)
139 KOG2198 tRNA cytosine-5-methyl 26.9 1.4E+02 0.0031 23.7 4.5 37 27-66 279-315 (375)
140 PRK10402 DNA-binding transcrip 26.7 55 0.0012 22.6 2.1 18 57-74 184-201 (226)
141 TIGR03438 probable methyltrans 26.6 1E+02 0.0023 22.6 3.6 31 20-50 153-183 (301)
142 COG4123 Predicted O-methyltran 26.5 74 0.0016 23.6 2.8 38 7-44 133-170 (248)
143 COG2226 UbiE Methylase involve 26.4 26 0.00056 25.7 0.4 49 2-50 114-162 (238)
144 COG1733 Predicted transcriptio 26.4 55 0.0012 21.3 1.9 18 57-74 52-69 (120)
145 PF14183 YwpF: YwpF-like prote 26.3 99 0.0022 21.1 3.2 18 57-74 108-125 (135)
146 cd07626 BAR_SNX9_like The Bin/ 26.2 84 0.0018 22.4 2.9 20 9-28 79-98 (199)
147 PRK11088 rrmA 23S rRNA methylt 26.1 49 0.0011 23.7 1.8 16 32-47 169-184 (272)
148 PRK13942 protein-L-isoaspartat 26.0 46 0.001 23.1 1.6 12 33-44 165-176 (212)
149 PF02295 z-alpha: Adenosine de 25.9 55 0.0012 19.2 1.7 24 57-80 35-59 (66)
150 PRK13245 hetR heterocyst diffe 25.9 72 0.0016 24.1 2.6 47 18-81 154-208 (299)
151 cd00092 HTH_CRP helix_turn_hel 25.9 70 0.0015 17.4 2.1 18 57-74 40-57 (67)
152 PF09681 Phage_rep_org_N: N-te 25.6 1.4E+02 0.0029 19.7 3.7 49 27-80 33-95 (121)
153 PF03291 Pox_MCEL: mRNA cappin 25.5 72 0.0016 24.3 2.6 27 21-47 163-189 (331)
154 PF13041 PPR_2: PPR repeat fam 25.5 61 0.0013 16.9 1.7 22 57-78 20-43 (50)
155 TIGR00321 dhys deoxyhypusine s 25.4 1.3E+02 0.0027 23.0 3.9 33 36-74 44-76 (301)
156 PF13463 HTH_27: Winged helix 25.3 69 0.0015 17.6 2.0 18 57-74 33-50 (68)
157 PRK14967 putative methyltransf 25.1 1.4E+02 0.0029 20.7 3.9 26 22-47 137-162 (223)
158 PF03551 PadR: Transcriptional 25.1 72 0.0016 18.4 2.1 18 57-74 32-49 (75)
159 COG2521 Predicted archaeal met 24.8 78 0.0017 24.1 2.7 48 13-71 221-270 (287)
160 COG0176 MipB Transaldolase [Ca 24.8 92 0.002 23.1 3.0 25 6-30 198-237 (239)
161 PF09639 YjcQ: YjcQ protein; 24.0 68 0.0015 19.7 1.9 18 57-74 25-42 (88)
162 smart00418 HTH_ARSR helix_turn 24.0 73 0.0016 16.5 1.9 18 57-74 25-42 (66)
163 TIGR03840 TMPT_Se_Te thiopurin 23.7 2.7E+02 0.0058 19.6 5.8 26 23-48 131-156 (213)
164 PF00191 Annexin: Annexin; In 23.5 65 0.0014 17.8 1.7 19 10-28 34-52 (66)
165 COG2519 GCD14 tRNA(1-methylade 23.5 2.2E+02 0.0047 21.4 4.8 41 25-74 176-216 (256)
166 PRK15022 ferritin-like protein 23.4 2.6E+02 0.0056 19.4 6.0 41 11-51 39-79 (167)
167 PRK14901 16S rRNA methyltransf 23.4 2.4E+02 0.0053 21.8 5.3 26 19-44 359-384 (434)
168 PF02334 RTP: Replication term 23.4 61 0.0013 21.8 1.7 18 57-74 55-72 (122)
169 PRK13944 protein-L-isoaspartat 23.3 54 0.0012 22.6 1.5 12 33-44 162-173 (205)
170 TIGR03738 PRTRC_C PRTRC system 23.3 54 0.0012 19.8 1.3 19 2-20 19-37 (66)
171 PHA02053 hypothetical protein 23.3 85 0.0018 20.7 2.3 17 1-17 63-79 (115)
172 PF03445 DUF294: Putative nucl 23.3 93 0.002 20.4 2.6 33 9-41 80-112 (138)
173 cd08061 MPN_NPL4 Mov34/MPN/PAD 23.1 1.9E+02 0.0041 21.6 4.5 58 7-74 114-172 (274)
174 PLN02823 spermine synthase 23.1 2.9E+02 0.0063 21.1 5.5 47 32-81 208-256 (336)
175 PF05401 NodS: Nodulation prot 22.9 72 0.0016 23.1 2.1 26 20-45 122-147 (201)
176 PF09677 TrbI_Ftype: Type-F co 22.5 2.3E+02 0.0049 18.4 5.2 40 5-47 52-91 (111)
177 PRK15451 tRNA cmo(5)U34 methyl 22.5 1.2E+02 0.0026 21.4 3.2 25 22-46 142-166 (247)
178 PRK11753 DNA-binding transcrip 22.3 75 0.0016 21.2 2.0 18 57-74 183-200 (211)
179 COG1232 HemY Protoporphyrinoge 22.2 2.5E+02 0.0053 22.5 5.2 40 35-74 334-377 (444)
180 TIGR00080 pimt protein-L-isoas 22.1 59 0.0013 22.4 1.5 12 33-44 166-177 (215)
181 PF05225 HTH_psq: helix-turn-h 21.8 66 0.0014 17.4 1.4 22 57-79 3-29 (45)
182 PF01795 Methyltransf_5: MraW 21.8 74 0.0016 24.3 2.1 25 21-45 218-242 (310)
183 TIGR03447 mycothiol_MshC cyste 21.7 2.6E+02 0.0056 22.2 5.1 53 5-74 96-150 (411)
184 PF05148 Methyltransf_8: Hypot 21.7 72 0.0016 23.5 1.9 26 21-46 135-160 (219)
185 PF08123 DOT1: Histone methyla 21.6 75 0.0016 22.5 2.0 24 19-42 133-156 (205)
186 smart00518 AP2Ec AP endonuclea 21.3 3E+02 0.0065 19.3 5.5 55 8-69 75-130 (273)
187 TIGR01983 UbiG ubiquinone bios 20.8 1.1E+02 0.0025 20.6 2.7 28 20-47 125-152 (224)
188 PF04326 AAA_4: Divergent AAA 20.8 96 0.0021 19.0 2.2 20 19-44 22-41 (122)
189 PF03980 Nnf1: Nnf1 ; InterPr 20.8 2.2E+02 0.0049 17.6 4.7 35 1-35 59-93 (109)
190 PF01047 MarR: MarR family; I 20.7 97 0.0021 16.6 2.0 18 57-74 32-49 (59)
191 PRK11188 rrmJ 23S rRNA methylt 20.7 1.6E+02 0.0034 20.5 3.5 23 24-46 145-167 (209)
192 PF13578 Methyltransf_24: Meth 20.6 87 0.0019 18.7 1.9 20 19-42 84-103 (106)
193 PF05175 MTS: Methyltransferas 20.5 89 0.0019 20.8 2.1 21 24-44 120-140 (170)
194 PRK14904 16S rRNA methyltransf 20.5 1.9E+02 0.0042 22.5 4.2 29 19-47 352-380 (445)
195 PF14455 Metal_CEHH: Predicted 20.4 46 0.001 23.6 0.7 44 2-49 95-138 (177)
196 KOG2899 Predicted methyltransf 20.4 1.2E+02 0.0027 23.1 3.0 24 21-44 186-209 (288)
197 PF14747 DUF4473: Domain of un 20.3 2.1E+02 0.0046 17.2 3.6 28 6-33 43-70 (82)
198 cd01056 Euk_Ferritin eukaryoti 20.3 2.7E+02 0.0059 18.4 6.0 42 8-49 36-77 (161)
199 PF06962 rRNA_methylase: Putat 20.2 43 0.00094 22.7 0.5 13 32-44 80-92 (140)
200 PLN02366 spermidine synthase 20.2 3.1E+02 0.0067 20.6 5.1 45 32-81 194-241 (308)
201 PRK04984 fatty acid metabolism 20.1 88 0.0019 21.7 2.1 18 57-74 46-63 (239)
202 KOG3178 Hydroxyindole-O-methyl 20.1 1.3E+02 0.0028 23.5 3.1 29 20-48 251-279 (342)
203 smart00347 HTH_MARR helix_turn 20.0 1E+02 0.0022 17.8 2.0 18 57-74 39-56 (101)
No 1
>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=99.96 E-value=4.1e-30 Score=193.09 Aligned_cols=79 Identities=43% Similarity=0.574 Sum_probs=67.6
Q ss_pred CCCChHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCc-----HHHHHHHHHHHHcCCccc----
Q 034814 4 EPMSEFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSPG-----EPALLVIKDMISEGSLSL---- 74 (82)
Q Consensus 4 ~~~s~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~-----~~l~~al~dmv~eGli~~---- 74 (82)
+++++++|.+||++||++||.+||++||+||||||+|||+++||++.++.+.. ++|+++|+|||.||+|++
T Consensus 143 ~~~~~~~v~~ay~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~~~~~~l~~~l~dMv~eGlI~~ek~d 222 (334)
T PF03492_consen 143 SRTSPPEVAKAYAKQFQKDFSSFLKARAEELVPGGRMVLTFLGRDEEDPSSTGSCMLWDLLADALRDMVAEGLISEEKVD 222 (334)
T ss_dssp STTS-HHHHHHHHHHHHHHHHHHHHHHHHHEEEEEEEEEEEEE-STSSTTSTTCCCHHHHHHHHHHHHHHTTSS-HCCCC
T ss_pred ecCCCHHHHHHHHHHHHHHHHHHHHHhhheeccCcEEEEEEeeccccccccCCcchHHHHHHHHHHHHHHcCCcCHHHhh
Confidence 35889999999999999999999999999999999999999999996665432 999999999999999999
Q ss_pred ccccCCCC
Q 034814 75 SFNTYQKN 82 (82)
Q Consensus 75 sFn~P~y~ 82 (82)
+||+|+|.
T Consensus 223 sfniP~Y~ 230 (334)
T PF03492_consen 223 SFNIPIYF 230 (334)
T ss_dssp TG--SBB-
T ss_pred ceeCCccC
Confidence 99999994
No 2
>PLN02668 indole-3-acetate carboxyl methyltransferase
Probab=99.96 E-value=3.2e-29 Score=192.36 Aligned_cols=76 Identities=32% Similarity=0.444 Sum_probs=69.1
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCc------HH-HHHHHHHHHHcCCccc----c
Q 034814 7 SEFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSPG------EP-ALLVIKDMISEGSLSL----S 75 (82)
Q Consensus 7 s~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~------~~-l~~al~dmv~eGli~~----s 75 (82)
++++|.+||++||++||..||++||+||||||+|||+++||++.++..++ ++ ++++|+|||.||+|++ +
T Consensus 200 ~s~~v~~aY~~Qf~~D~~~FL~~Ra~ELvpGG~mvl~~~Gr~~~~~~~~~~~~~~~~~~l~~al~dlv~eGlI~eek~ds 279 (386)
T PLN02668 200 ASESTANAYKRQFQADLAGFLRARAQEMKRGGAMFLVCLGRTSVDPTDQGGAGLLFGTHFQDAWDDLVQEGLVTSEKRDS 279 (386)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHhccCcEEEEEEecCCCCCcccCCchhHHHHHHHHHHHHHHHHcCCCCHHHHhc
Confidence 44889999999999999999999999999999999999999887766432 34 9999999999999999 9
Q ss_pred cccCCCC
Q 034814 76 FNTYQKN 82 (82)
Q Consensus 76 Fn~P~y~ 82 (82)
||+|+|.
T Consensus 280 FniP~Y~ 286 (386)
T PLN02668 280 FNIPVYA 286 (386)
T ss_pred ccCcccC
Confidence 9999994
No 3
>PRK10079 phosphonate metabolism transcriptional regulator PhnF; Provisional
Probab=86.86 E-value=0.4 Score=34.00 Aligned_cols=49 Identities=10% Similarity=0.270 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCc-----HHHHHHHHHHHHcCCccc
Q 034814 16 LDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSPG-----EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 16 ~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~-----~~l~~al~dmv~eGli~~ 74 (82)
..|.+.++..-++ + ++.||.+| ++....+.. ..+.+|+.+|++||+|..
T Consensus 14 Y~qi~~~L~~~I~--~-~~~~G~~L-------PsE~eLa~~~~VSR~TVR~Al~~L~~eGli~r 67 (241)
T PRK10079 14 YQEIAAKLEQELR--Q-HYRCGDYL-------PAEQQLAARYEVNRHTLRRAIDQLVEKGWVQR 67 (241)
T ss_pred HHHHHHHHHHHHh--c-ccCCCCcC-------CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 3677788877774 4 89999886 444332221 789999999999999977
No 4
>KOG1270 consensus Methyltransferases [Coenzyme transport and metabolism]
Probab=82.65 E-value=1.2 Score=33.87 Aligned_cols=28 Identities=32% Similarity=0.414 Sum_probs=26.0
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
+|...||++=++=|+|||+++++..-|.
T Consensus 172 ~dp~~~l~~l~~~lkP~G~lfittinrt 199 (282)
T KOG1270|consen 172 KDPQEFLNCLSALLKPNGRLFITTINRT 199 (282)
T ss_pred hCHHHHHHHHHHHhCCCCceEeeehhhh
Confidence 6899999999999999999999998874
No 5
>PRK04266 fibrillarin; Provisional
Probab=79.40 E-value=8.3 Score=27.62 Aligned_cols=49 Identities=20% Similarity=0.110 Sum_probs=31.1
Q ss_pred HHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc
Q 034814 26 FLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL 74 (82)
Q Consensus 26 FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~ 74 (82)
+|+.=.+-|+|||++++++..++-+............+..|.+.|+-..
T Consensus 158 ~L~~~~r~LKpGG~lvI~v~~~~~d~~~~~~~~~~~~~~~l~~aGF~~i 206 (226)
T PRK04266 158 AIDNAEFFLKDGGYLLLAIKARSIDVTKDPKEIFKEEIRKLEEGGFEIL 206 (226)
T ss_pred HHHHHHHhcCCCcEEEEEEecccccCcCCHHHHHHHHHHHHHHcCCeEE
Confidence 4545456699999999998886533222222445566677777786433
No 6
>PF02268 TFIIA_gamma_N: Transcription initiation factor IIA, gamma subunit, helical domain; InterPro: IPR015872 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the alpha-helical domain found at the N-terminal of the gamma subunit of transcription factor TFIIA.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_D 1RM1_B 1YTF_D 1NH2_D.
Probab=79.24 E-value=1.8 Score=24.69 Aligned_cols=18 Identities=17% Similarity=0.305 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..|.++|.||+.+|.|++
T Consensus 13 ~aL~dtLDeli~~~~I~p 30 (49)
T PF02268_consen 13 IALTDTLDELIQEGKITP 30 (49)
T ss_dssp HHHHHHHHHHHHTTSS-H
T ss_pred HHHHHHHHHHHHcCCCCH
Confidence 578999999999999987
No 7
>PF10357 Kin17_mid: Domain of Kin17 curved DNA-binding protein; InterPro: IPR019447 This entry represents the conserved central 169 residue region of the Kin17 DNA/RNA-binding proteins. The N-terminal region of Kin17 contains a zinc-finger domain, while in the human and mouse proteins there is a RecA-like domain found in the C-terminal region. In humans, Kin17 protein forms intra-nuclear foci during cell proliferation and is re-distributed in the nucleoplasm during the cell cycle []. ; PDB: 2V1N_A.
Probab=78.25 E-value=2.6 Score=28.50 Aligned_cols=26 Identities=23% Similarity=0.369 Sum_probs=20.5
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHhhh
Q 034814 6 MSEFDVHRAYLDQFKSDFSAFLKFRS 31 (82)
Q Consensus 6 ~s~~~V~~AY~~Qf~~D~~~FL~~Ra 31 (82)
..|..+...|++||++||-..|+-|-
T Consensus 8 ~n~~k~i~~yS~eFe~~Fl~lLr~~h 33 (127)
T PF10357_consen 8 ENPGKFIDEYSEEFEKDFLRLLRRRH 33 (127)
T ss_dssp --GGG-HHHHHHHHHHHHHHHHHHHT
T ss_pred hChhhHHHHHHHHHHHHHHHHHHHhc
Confidence 34667899999999999999999873
No 8
>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=77.31 E-value=2.4 Score=25.66 Aligned_cols=24 Identities=25% Similarity=0.365 Sum_probs=20.2
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEe
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
.+...+|+.=.+-|+|||++++.-
T Consensus 88 ~~~~~~l~~~~~~L~pgG~lvi~~ 111 (112)
T PF12847_consen 88 DERRRVLERIRRLLKPGGRLVINT 111 (112)
T ss_dssp HHHHHHHHHHHHHEEEEEEEEEEE
T ss_pred hHHHHHHHHHHHhcCCCcEEEEEE
Confidence 567778888889999999999864
No 9
>TIGR02469 CbiT precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit. This model recognizes the CbiT methylase which is responsible, in part (along with CbiE), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiE subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=75.76 E-value=4.3 Score=24.67 Aligned_cols=25 Identities=24% Similarity=0.412 Sum_probs=20.5
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEee
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
.++..+++.=.+-|+|||.+++.+.
T Consensus 99 ~~~~~~l~~~~~~Lk~gG~li~~~~ 123 (124)
T TIGR02469 99 GLLQEILEAIWRRLRPGGRIVLNAI 123 (124)
T ss_pred hhHHHHHHHHHHHcCCCCEEEEEec
Confidence 3456888888999999999998863
No 10
>TIGR02404 trehalos_R_Bsub trehalose operon repressor, B. subtilis-type. This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from E. coli.
Probab=74.27 E-value=1.8 Score=30.35 Aligned_cols=49 Identities=16% Similarity=0.187 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCC----c-HHHHHHHHHHHHcCCccc
Q 034814 17 DQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSP----G-EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 17 ~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~----~-~~l~~al~dmv~eGli~~ 74 (82)
.|-+.++..-+. +.++.||-+| ++....+. . ..+.+||.+|++||+|..
T Consensus 3 ~qi~~~l~~~I~--~g~~~~G~~L-------PsE~eLa~~~gVSR~TVR~Al~~L~~eGli~r 56 (233)
T TIGR02404 3 EQIYQDLEQKIT--HGQYKEGDYL-------PSEHELMDQYGASRETVRKALNLLTEAGYIQK 56 (233)
T ss_pred HHHHHHHHHHHH--hCCCCCCCCC-------cCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 344455544333 3567777665 44332221 1 789999999999999987
No 11
>TIGR02018 his_ut_repres histidine utilization repressor, proteobacterial. This model represents a proteobacterial histidine utilization repressor. It is usually found clustered with the enzymes HutUHIG so that it can regulate its own expression as well. A number of species have several paralogs and may fine-tune the regulation according to levels of degradation intermediates such as urocanate. This family belongs to the larger GntR family of transcriptional regulators.
Probab=74.25 E-value=2 Score=30.12 Aligned_cols=49 Identities=20% Similarity=0.262 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCC----c-HHHHHHHHHHHHcCCccc
Q 034814 17 DQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSP----G-EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 17 ~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~----~-~~l~~al~dmv~eGli~~ 74 (82)
.|-+.++..-+. +.|+.||-+| ++....+. . ..+.+||..|+.||+|..
T Consensus 4 ~qi~~~l~~~I~--~g~~~~g~~L-------PsE~eLa~~~~VSR~TVR~Al~~L~~eGli~r 57 (230)
T TIGR02018 4 QRIKQDILERIR--SGEWPPGHRI-------PSEHELVAQYGCSRMTVNRALRELTDAGLLER 57 (230)
T ss_pred HHHHHHHHHHHH--hCCCCCCCcC-------cCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 345555544433 4577777765 43322221 1 689999999999999977
No 12
>PF09597 IGR: IGR protein motif; InterPro: IPR019083 This entry is found in fungal and plant proteins and contains a conserved IGR motif. Its function is unknown.
Probab=73.40 E-value=4.5 Score=23.72 Aligned_cols=27 Identities=26% Similarity=0.378 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhcCce
Q 034814 13 RAYLDQFKSDFSAFLKFRSEELKCGGR 39 (82)
Q Consensus 13 ~AY~~Qf~~D~~~FL~~Ra~ELv~GG~ 39 (82)
+.|++-|..||..++..++.+|+.-|.
T Consensus 13 ~~~~~kf~~~w~~lf~~~s~~LK~~GI 39 (57)
T PF09597_consen 13 EEHAEKFESDWEKLFTTSSKQLKELGI 39 (57)
T ss_pred HHHHHHHHHHHHHHHhcCHHHHHHCCC
Confidence 567888999999999999999998774
No 13
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=72.02 E-value=1.7 Score=29.15 Aligned_cols=48 Identities=19% Similarity=0.025 Sum_probs=33.6
Q ss_pred CCCCCChHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCC
Q 034814 2 PKEPMSEFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDS 49 (82)
Q Consensus 2 ~~~~~s~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~ 49 (82)
|....+-+.|.-.|.-++-.|...+|+.=.+=|+|||++++.-.+.++
T Consensus 39 p~~~~~fD~v~~~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~~~~ 86 (160)
T PLN02232 39 PFDDCEFDAVTMGYGLRNVVDRLRAMKEMYRVLKPGSRVSILDFNKSN 86 (160)
T ss_pred CCCCCCeeEEEecchhhcCCCHHHHHHHHHHHcCcCeEEEEEECCCCC
Confidence 333334444555565566568888898888899999999988776543
No 14
>PRK10258 biotin biosynthesis protein BioC; Provisional
Probab=71.22 E-value=1.5 Score=30.86 Aligned_cols=35 Identities=20% Similarity=0.208 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 14 AYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 14 AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
.+.-|+-.|...+|+.=.+=|+|||.++++.++..
T Consensus 110 ~~~l~~~~d~~~~l~~~~~~Lk~gG~l~~~~~~~~ 144 (251)
T PRK10258 110 NLAVQWCGNLSTALRELYRVVRPGGVVAFTTLVQG 144 (251)
T ss_pred CchhhhcCCHHHHHHHHHHHcCCCeEEEEEeCCCC
Confidence 34456677888899888889999999999988764
No 15
>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=69.63 E-value=3.2 Score=28.15 Aligned_cols=34 Identities=24% Similarity=0.191 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 15 YLDQFKSDFSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 15 Y~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
+.-+.-.|...+|+.-.+-|+|||.+++..++..
T Consensus 106 ~~l~~~~~~~~~l~~~~~~L~~~G~l~~~~~~~~ 139 (240)
T TIGR02072 106 LALQWCDDLSQALSELARVLKPGGLLAFSTFGPG 139 (240)
T ss_pred hhhhhccCHHHHHHHHHHHcCCCcEEEEEeCCcc
Confidence 3334556888999999999999999999876543
No 16
>PTZ00146 fibrillarin; Provisional
Probab=69.62 E-value=21 Score=27.02 Aligned_cols=49 Identities=18% Similarity=0.139 Sum_probs=32.4
Q ss_pred hhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc-ccccCCC
Q 034814 33 ELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL-SFNTYQK 81 (82)
Q Consensus 33 ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~-sFn~P~y 81 (82)
=|+|||.+++.+-.++.+.....++.+.+-+..|.+.|+-.. ..+++-|
T Consensus 226 ~LKpGG~~vI~ika~~id~g~~pe~~f~~ev~~L~~~GF~~~e~v~L~Py 275 (293)
T PTZ00146 226 FLKNGGHFIISIKANCIDSTAKPEVVFASEVQKLKKEGLKPKEQLTLEPF 275 (293)
T ss_pred hccCCCEEEEEEeccccccCCCHHHHHHHHHHHHHHcCCceEEEEecCCc
Confidence 488999999987766543333334667766777888887544 5555433
No 17
>COG3041 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=65.22 E-value=4.1 Score=26.14 Aligned_cols=15 Identities=47% Similarity=0.857 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHH
Q 034814 14 AYLDQFKSDFSAFLK 28 (82)
Q Consensus 14 AY~~Qf~~D~~~FL~ 28 (82)
-|..||+|||+.-.+
T Consensus 5 ~~skqF~kD~k~~~k 19 (91)
T COG3041 5 EYSKQFKKDFKKLIK 19 (91)
T ss_pred ehhhhhhHHHHHHHh
Confidence 388999999988765
No 18
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=62.05 E-value=9.8 Score=23.62 Aligned_cols=25 Identities=16% Similarity=0.003 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHcCCccc-------ccccCCC
Q 034814 57 EPALLVIKDMISEGSLSL-------SFNTYQK 81 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~-------sFn~P~y 81 (82)
+.+..+|++|+++|+|.. +.|-+++
T Consensus 62 ~tVsr~L~~Le~~GlI~r~~~~~~~~~n~~~~ 93 (95)
T TIGR01610 62 THVSDAIKSLARRRIIFRQGMMGIVGVNTPLS 93 (95)
T ss_pred HHHHHHHHHHHHCCCeeeecCCceeecCCCcc
Confidence 778999999999999985 6776654
No 19
>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=62.05 E-value=8.9 Score=24.26 Aligned_cols=27 Identities=37% Similarity=0.396 Sum_probs=23.6
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
|+..+|+.=.+=|+|||.++++.+.+.
T Consensus 93 d~~~~l~~l~~~LkpgG~l~~~~~~~~ 119 (161)
T PF13489_consen 93 DPEEFLKELSRLLKPGGYLVISDPNRD 119 (161)
T ss_dssp HHHHHHHHHHHCEEEEEEEEEEEEBTT
T ss_pred cHHHHHHHHHHhcCCCCEEEEEEcCCc
Confidence 677888888888999999999999874
No 20
>KOG3463 consensus Transcription initiation factor IIA, gamma subunit [Transcription]
Probab=58.81 E-value=9.4 Score=25.26 Aligned_cols=18 Identities=11% Similarity=0.385 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..|.++|.||+.+|.|+.
T Consensus 14 ~~L~~tLDe~v~~g~itp 31 (109)
T KOG3463|consen 14 NALQKTLDELVSDGVITP 31 (109)
T ss_pred HHHHHHHHHHHHcCCCCH
Confidence 578999999999999987
No 21
>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=58.33 E-value=9.1 Score=28.23 Aligned_cols=30 Identities=30% Similarity=0.502 Sum_probs=23.2
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeecCCC
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYNDSF 50 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~ 50 (82)
+++..|++.=.+=|+|||++++..++....
T Consensus 143 ~~~~~~f~~~~~~LkpgG~~~lq~i~~~~~ 172 (273)
T PF02353_consen 143 KNYPAFFRKISRLLKPGGRLVLQTITHRDP 172 (273)
T ss_dssp GGHHHHHHHHHHHSETTEEEEEEEEEE--H
T ss_pred hHHHHHHHHHHHhcCCCcEEEEEecccccc
Confidence 567778877778899999999998887553
No 22
>PRK01581 speE spermidine synthase; Validated
Probab=57.73 E-value=29 Score=27.33 Aligned_cols=46 Identities=7% Similarity=-0.145 Sum_probs=30.3
Q ss_pred hhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc--ccccCCCC
Q 034814 32 EELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL--SFNTYQKN 82 (82)
Q Consensus 32 ~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~--sFn~P~y~ 82 (82)
+=|+|||.||+.- ..+....+.+....+.|.+.|.... ...+|.|.
T Consensus 256 ~~LkPgGV~V~Qs-----~sp~~~~~~~~~i~~tL~~af~~v~~y~t~vPsyg 303 (374)
T PRK01581 256 TFLTEDGAFVCQS-----NSPADAPLVYWSIGNTIEHAGLTVKSYHTIVPSFG 303 (374)
T ss_pred HhcCCCcEEEEec-----CChhhhHHHHHHHHHHHHHhCCceEEEEEecCCCC
Confidence 3488999988862 2222222566777777778888766 66777773
No 23
>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=57.00 E-value=12 Score=25.08 Aligned_cols=27 Identities=26% Similarity=0.370 Sum_probs=21.6
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
.|...+|+.-.+-|+|||++++.-...
T Consensus 120 ~~~~~~l~~~~~~L~~gG~l~~~~~~~ 146 (223)
T TIGR01934 120 TDIQKALREMYRVLKPGGRLVILEFSK 146 (223)
T ss_pred ccHHHHHHHHHHHcCCCcEEEEEEecC
Confidence 466788898899999999998765543
No 24
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=56.98 E-value=2.6 Score=30.47 Aligned_cols=31 Identities=16% Similarity=0.037 Sum_probs=24.9
Q ss_pred HHHHHHHHHhhhhhhhcCceEEEEeeecCCC
Q 034814 20 KSDFSAFLKFRSEELKCGGRMILTLLYNDSF 50 (82)
Q Consensus 20 ~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~ 50 (82)
-.|...+|+.=.+-|+|||+++++-..+++.
T Consensus 158 ~~d~~~~l~ei~rvLkpGG~l~i~d~~~~~~ 188 (261)
T PLN02233 158 VVDRLKAMQEMYRVLKPGSRVSILDFNKSTQ 188 (261)
T ss_pred CCCHHHHHHHHHHHcCcCcEEEEEECCCCCc
Confidence 3477788888888899999999998877553
No 25
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=56.59 E-value=34 Score=23.62 Aligned_cols=43 Identities=21% Similarity=0.345 Sum_probs=29.4
Q ss_pred HHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc
Q 034814 23 FSAFLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL 74 (82)
Q Consensus 23 ~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~ 74 (82)
...||+.=.+-|+|||.++++.... +.+...+..|.+.|+-.+
T Consensus 135 ~~~~l~~i~~~LkpgG~l~i~~~~~---------~~~~~~~~~~~~~g~~~~ 177 (202)
T PRK00121 135 QPEFLALYARKLKPGGEIHFATDWE---------GYAEYMLEVLSAEGGFLV 177 (202)
T ss_pred CHHHHHHHHHHcCCCCEEEEEcCCH---------HHHHHHHHHHHhCccccc
Confidence 3456665567788999999876332 466777777777776443
No 26
>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=54.93 E-value=20 Score=25.86 Aligned_cols=53 Identities=15% Similarity=0.015 Sum_probs=34.5
Q ss_pred HHHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc--ccccCCCC
Q 034814 25 AFLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL--SFNTYQKN 82 (82)
Q Consensus 25 ~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~--sFn~P~y~ 82 (82)
.|++.-.+=|.|||.+++...+ +....+.+....+.|.+..-.-. .+.+|.|.
T Consensus 172 ef~~~~~~~L~~~Gv~v~~~~~-----~~~~~~~~~~i~~tl~~~F~~v~~~~~~vP~~~ 226 (246)
T PF01564_consen 172 EFYQLCKRRLKPDGVLVLQAGS-----PFLHPELFKSILKTLRSVFPQVKPYTAYVPSYG 226 (246)
T ss_dssp HHHHHHHHHEEEEEEEEEEEEE-----TTTTHHHHHHHHHHHHTTSSEEEEEEEECTTSC
T ss_pred HHHHHHHhhcCCCcEEEEEccC-----cccchHHHHHHHHHHHHhCCceEEEEEEcCeec
Confidence 4666667778999999988722 12223566777777766665333 77777773
No 27
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=54.01 E-value=30 Score=23.23 Aligned_cols=40 Identities=23% Similarity=0.407 Sum_probs=26.9
Q ss_pred HHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCC
Q 034814 23 FSAFLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGS 71 (82)
Q Consensus 23 ~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGl 71 (82)
+..+++.-.+-|+|||++++..... +...+.+.-+.+.|+
T Consensus 110 ~~~~l~~~~~~Lk~gG~lv~~~~~~---------~~~~~~~~~l~~~g~ 149 (187)
T PRK08287 110 LTAIIDWSLAHLHPGGRLVLTFILL---------ENLHSALAHLEKCGV 149 (187)
T ss_pred HHHHHHHHHHhcCCCeEEEEEEecH---------hhHHHHHHHHHHCCC
Confidence 4556766677899999998865432 233556666667775
No 28
>COG3580 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.73 E-value=32 Score=26.90 Aligned_cols=38 Identities=24% Similarity=0.322 Sum_probs=26.4
Q ss_pred HHHHHHHHHH--HHHHHHHHHHhhhhh----hhcCceEEEEeeecCCC
Q 034814 9 FDVHRAYLDQ--FKSDFSAFLKFRSEE----LKCGGRMILTLLYNDSF 50 (82)
Q Consensus 9 ~~V~~AY~~Q--f~~D~~~FL~~Ra~E----Lv~GG~mvl~~~gr~~~ 50 (82)
.+|.+||..+ +++|+ +.+++| ++..|...+++.||+-.
T Consensus 170 ~Avqka~~~~~e~r~di----r~k~~e~L~~l~~n~~~gVvLaGrPYh 213 (351)
T COG3580 170 EAVQKAWKEGEEYREDI----RKKGEEVLKYLKENGEKGVVLAGRPYH 213 (351)
T ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhcCceeEEEeCCccc
Confidence 3567777655 44443 455555 77889999999999874
No 29
>COG1889 NOP1 Fibrillarin-like rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=52.56 E-value=18 Score=26.78 Aligned_cols=54 Identities=19% Similarity=0.190 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHhhhh-hhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcC
Q 034814 17 DQFKSDFSAFLKFRSE-ELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEG 70 (82)
Q Consensus 17 ~Qf~~D~~~FL~~Ra~-ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eG 70 (82)
+-+|.|=...+..=|+ =|++||.+++++-.|+-+......+.+.+....|.+.|
T Consensus 152 DVAQp~Qa~I~~~Na~~FLk~~G~~~i~iKArSIdvT~dp~~vf~~ev~kL~~~~ 206 (231)
T COG1889 152 DVAQPNQAEILADNAEFFLKKGGYVVIAIKARSIDVTADPEEVFKDEVEKLEEGG 206 (231)
T ss_pred ecCCchHHHHHHHHHHHhcccCCeEEEEEEeecccccCCHHHHHHHHHHHHHhcC
Confidence 3334443333333322 24589999999999976655555588888999998888
No 30
>KOG2837 consensus Protein containing a U1-type Zn-finger and implicated in RNA splicing or processing [RNA processing and modification]
Probab=51.87 E-value=16 Score=27.97 Aligned_cols=26 Identities=19% Similarity=0.341 Sum_probs=22.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhh
Q 034814 8 EFDVHRAYLDQFKSDFSAFLKFRSEE 33 (82)
Q Consensus 8 ~~~V~~AY~~Qf~~D~~~FL~~Ra~E 33 (82)
|....+-|..||.+||...|+-|..+
T Consensus 61 p~~~~~~fs~eF~~dFl~LLr~~~g~ 86 (309)
T KOG2837|consen 61 PGRSLERFSNEFEKDFLSLLRQRHGT 86 (309)
T ss_pred cchhHHHhHHHHHHHHHHHHHHHhcc
Confidence 44567889999999999999998765
No 31
>PRK11402 DNA-binding transcriptional regulator FrlR; Provisional
Probab=51.76 E-value=11 Score=26.60 Aligned_cols=18 Identities=22% Similarity=0.307 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+.+||.+|+.||+|..
T Consensus 48 ~TvR~Al~~L~~eGli~r 65 (241)
T PRK11402 48 ITIRKAISDLVADGVLIR 65 (241)
T ss_pred HHHHHHHHHHHHCCCEEE
Confidence 679999999999999977
No 32
>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=51.56 E-value=2.4 Score=31.26 Aligned_cols=51 Identities=22% Similarity=0.272 Sum_probs=36.1
Q ss_pred HHHHHHHHhhh-hhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCC
Q 034814 21 SDFSAFLKFRS-EELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGS 71 (82)
Q Consensus 21 ~D~~~FL~~Ra-~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGl 71 (82)
.|=..++..-+ .=|++||.+++++-+|.-+......+.+....+.|.++|+
T Consensus 154 p~Qa~I~~~Na~~fLk~gG~~~i~iKa~siD~t~~p~~vf~~e~~~L~~~~~ 205 (229)
T PF01269_consen 154 PDQARIAALNARHFLKPGGHLIISIKARSIDSTADPEEVFAEEVKKLKEEGF 205 (229)
T ss_dssp TTHHHHHHHHHHHHEEEEEEEEEEEEHHHH-SSSSHHHHHHHHHHHHHCTTC
T ss_pred hHHHHHHHHHHHhhccCCcEEEEEEecCcccCcCCHHHHHHHHHHHHHHcCC
Confidence 33344444444 3567999999999998666555555889999999988876
No 33
>PRK15068 tRNA mo(5)U34 methyltransferase; Provisional
Probab=50.93 E-value=18 Score=27.09 Aligned_cols=31 Identities=26% Similarity=0.277 Sum_probs=24.2
Q ss_pred HHHHHHHHHhhhhhhhcCceEEEEeeecCCC
Q 034814 20 KSDFSAFLKFRSEELKCGGRMILTLLYNDSF 50 (82)
Q Consensus 20 ~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~ 50 (82)
.+|...+|+.=.+-|+|||.+|+..+..+.+
T Consensus 202 ~~dp~~~L~~l~~~LkpGG~lvl~~~~i~~~ 232 (322)
T PRK15068 202 RRSPLDHLKQLKDQLVPGGELVLETLVIDGD 232 (322)
T ss_pred cCCHHHHHHHHHHhcCCCcEEEEEEEEecCC
Confidence 3577788888888999999999987655433
No 34
>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=50.73 E-value=14 Score=21.02 Aligned_cols=22 Identities=36% Similarity=0.442 Sum_probs=18.2
Q ss_pred HHHHHHHHhhhhhhhcCceEEE
Q 034814 21 SDFSAFLKFRSEELKCGGRMIL 42 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl 42 (82)
.|...+++.=.+=|+|||++++
T Consensus 74 ~~~~~~l~e~~rvLk~gG~l~~ 95 (95)
T PF08241_consen 74 EDPEAALREIYRVLKPGGRLVI 95 (95)
T ss_dssp SHHHHHHHHHHHHEEEEEEEEE
T ss_pred cCHHHHHHHHHHHcCcCeEEeC
Confidence 5777888877888999999985
No 35
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=50.29 E-value=20 Score=18.57 Aligned_cols=16 Identities=19% Similarity=0.376 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHcCCc
Q 034814 57 EPALLVIKDMISEGSL 72 (82)
Q Consensus 57 ~~l~~al~dmv~eGli 72 (82)
+.++.+|.++.++|+|
T Consensus 17 ETVSR~l~~l~~~glI 32 (32)
T PF00325_consen 17 ETVSRILKKLERQGLI 32 (32)
T ss_dssp HHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHHHHcCCC
Confidence 7789999999999987
No 36
>TIGR02325 C_P_lyase_phnF phosphonates metabolism transcriptional regulator PhnF. All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond.
Probab=48.29 E-value=13 Score=25.83 Aligned_cols=49 Identities=12% Similarity=0.186 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCC----c-HHHHHHHHHHHHcCCccc
Q 034814 17 DQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSP----G-EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 17 ~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~----~-~~l~~al~dmv~eGli~~ 74 (82)
.|-+.++..-+. +.|+.||-+| ++....+. . ..+.+||..|+.||+|..
T Consensus 11 ~~i~~~l~~~I~--~g~~~~G~~L-------PsE~eLa~~~~VSR~TvR~Al~~L~~eGli~r 64 (238)
T TIGR02325 11 RQIADKIEQEIA--AGHLRAGDYL-------PAEMQLAERFGVNRHTVRRAIAALVERGLLRA 64 (238)
T ss_pred HHHHHHHHHHHH--cCCCCCCCcC-------cCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 555566655443 4577777665 44322221 1 789999999999999976
No 37
>COG2188 PhnF Transcriptional regulators [Transcription]
Probab=48.29 E-value=12 Score=26.67 Aligned_cols=18 Identities=11% Similarity=0.257 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+.+||.+|++||+|..
T Consensus 46 ~TvRkAL~~L~~eGli~r 63 (236)
T COG2188 46 MTVRKALDELVEEGLIVR 63 (236)
T ss_pred HHHHHHHHHHHHCCcEEE
Confidence 679999999999999976
No 38
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=48.02 E-value=26 Score=26.46 Aligned_cols=36 Identities=28% Similarity=0.356 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCC
Q 034814 15 YLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSF 50 (82)
Q Consensus 15 Y~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~ 50 (82)
|.---.+-+..|++.=.+=|+|||+|++..++.+..
T Consensus 147 fEhvg~~~~~~ff~~~~~~L~~~G~~llh~I~~~~~ 182 (283)
T COG2230 147 FEHVGKENYDDFFKKVYALLKPGGRMLLHSITGPDQ 182 (283)
T ss_pred HHHhCcccHHHHHHHHHhhcCCCceEEEEEecCCCc
Confidence 333344667788888888899999999999998763
No 39
>smart00828 PKS_MT Methyltransferase in polyketide synthase (PKS) enzymes.
Probab=47.68 E-value=20 Score=24.50 Aligned_cols=27 Identities=26% Similarity=0.331 Sum_probs=22.6
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
.|+..+|+.=.+=|+|||++++.-+..
T Consensus 81 ~~~~~~l~~~~~~LkpgG~l~i~~~~~ 107 (224)
T smart00828 81 KDKMDLFSNISRHLKDGGHLVLADFIA 107 (224)
T ss_pred CCHHHHHHHHHHHcCCCCEEEEEEccc
Confidence 577888988889999999999887643
No 40
>PLN02396 hexaprenyldihydroxybenzoate methyltransferase
Probab=47.59 E-value=20 Score=27.12 Aligned_cols=28 Identities=18% Similarity=0.145 Sum_probs=22.9
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
.|...||+.=++=|+|||.++++.+.+.
T Consensus 212 ~d~~~~L~~l~r~LkPGG~liist~nr~ 239 (322)
T PLN02396 212 ANPAEFCKSLSALTIPNGATVLSTINRT 239 (322)
T ss_pred CCHHHHHHHHHHHcCCCcEEEEEECCcC
Confidence 3667888888888999999999987653
No 41
>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=47.37 E-value=37 Score=18.66 Aligned_cols=24 Identities=38% Similarity=0.535 Sum_probs=17.6
Q ss_pred HHHHHHHHHhhhhhhhcCceEEEE
Q 034814 20 KSDFSAFLKFRSEELKCGGRMILT 43 (82)
Q Consensus 20 ~~D~~~FL~~Ra~ELv~GG~mvl~ 43 (82)
..+...+++.-.+=+++||.++++
T Consensus 80 ~~~~~~~l~~~~~~l~~~g~~~~~ 103 (107)
T cd02440 80 VEDLARFLEEARRLLKPGGVLVLT 103 (107)
T ss_pred hhHHHHHHHHHHHHcCCCCEEEEE
Confidence 456666666666667899999876
No 42
>PRK14103 trans-aconitate 2-methyltransferase; Provisional
Probab=47.11 E-value=15 Score=25.94 Aligned_cols=28 Identities=14% Similarity=0.185 Sum_probs=21.2
Q ss_pred HHHHHHHHHHhhhhhhhcCceEEEEeee
Q 034814 19 FKSDFSAFLKFRSEELKCGGRMILTLLY 46 (82)
Q Consensus 19 f~~D~~~FL~~Ra~ELv~GG~mvl~~~g 46 (82)
+-.|...+|+.=.+-|+|||++++++.+
T Consensus 101 ~~~d~~~~l~~~~~~LkpgG~l~~~~~~ 128 (255)
T PRK14103 101 WVPEHADLLVRWVDELAPGSWIAVQVPG 128 (255)
T ss_pred hCCCHHHHHHHHHHhCCCCcEEEEEcCC
Confidence 3356677777656779999999998765
No 43
>PRK08317 hypothetical protein; Provisional
Probab=45.69 E-value=22 Score=23.82 Aligned_cols=26 Identities=23% Similarity=0.192 Sum_probs=21.8
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeee
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLY 46 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~g 46 (82)
.|...+|+.-.+-|+|||.+++....
T Consensus 101 ~~~~~~l~~~~~~L~~gG~l~~~~~~ 126 (241)
T PRK08317 101 EDPARALAEIARVLRPGGRVVVLDTD 126 (241)
T ss_pred CCHHHHHHHHHHHhcCCcEEEEEecC
Confidence 57788888889999999999987643
No 44
>PRK03612 spermidine synthase; Provisional
Probab=44.97 E-value=62 Score=25.96 Aligned_cols=45 Identities=9% Similarity=0.023 Sum_probs=30.6
Q ss_pred hhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc--ccccCCC
Q 034814 32 EELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL--SFNTYQK 81 (82)
Q Consensus 32 ~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~--sFn~P~y 81 (82)
+=|+|||.+++... .+....+.+....+.|.+.|.... +.++|.|
T Consensus 403 ~~L~pgG~lv~~~~-----~~~~~~~~~~~i~~~l~~~gf~v~~~~~~vps~ 449 (521)
T PRK03612 403 RRLAPDGLLVVQST-----SPYFAPKAFWSIEATLEAAGLATTPYHVNVPSF 449 (521)
T ss_pred HhcCCCeEEEEecC-----CcccchHHHHHHHHHHHHcCCEEEEEEeCCCCc
Confidence 45889999887641 122223677888888888888333 7777877
No 45
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=44.94 E-value=23 Score=18.81 Aligned_cols=18 Identities=11% Similarity=0.130 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+..+++.|+++|+|..
T Consensus 35 ~tv~~~l~~L~~~g~i~~ 52 (60)
T smart00345 35 TTVREALSRLEAEGLVQR 52 (60)
T ss_pred HHHHHHHHHHHHCCCEEE
Confidence 689999999999999864
No 46
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=44.87 E-value=37 Score=24.50 Aligned_cols=29 Identities=21% Similarity=0.192 Sum_probs=23.3
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeecCC
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYNDS 49 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~ 49 (82)
.|...+|+.=.+=|+|||+++++-....+
T Consensus 133 ~d~~~~l~~i~r~LkPGG~lvi~d~~~~~ 161 (263)
T PTZ00098 133 ADKKKLFEKCYKWLKPNGILLITDYCADK 161 (263)
T ss_pred HHHHHHHHHHHHHcCCCcEEEEEEecccc
Confidence 47788888888889999999998765543
No 47
>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=44.65 E-value=20 Score=23.66 Aligned_cols=27 Identities=22% Similarity=0.247 Sum_probs=20.6
Q ss_pred HHHHHHHHHHhhhhhhhcCceEEEEee
Q 034814 19 FKSDFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 19 f~~D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
-...+..|++.=..-|.|||.+||=-.
T Consensus 19 GD~Gl~~~f~~~~~~L~pGG~lilEpQ 45 (110)
T PF06859_consen 19 GDEGLKRFFRRIYSLLRPGGILILEPQ 45 (110)
T ss_dssp HHHHHHHHHHHHHHHEEEEEEEEEE--
T ss_pred cCHHHHHHHHHHHHhhCCCCEEEEeCC
Confidence 345677888888888999999998653
No 48
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=44.37 E-value=24 Score=18.62 Aligned_cols=17 Identities=12% Similarity=0.190 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHcCCcc
Q 034814 57 EPALLVIKDMISEGSLS 73 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~ 73 (82)
..+...++.|+++|+|+
T Consensus 32 ~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 32 STVNRYLKKLEEKGLIE 48 (48)
T ss_dssp HHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHHCcCcC
Confidence 67899999999999984
No 49
>PRK11705 cyclopropane fatty acyl phospholipid synthase; Provisional
Probab=44.31 E-value=35 Score=26.31 Aligned_cols=29 Identities=14% Similarity=0.332 Sum_probs=22.7
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeecCC
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYNDS 49 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~ 49 (82)
+++..|++.=.+=|+|||++++..++.+.
T Consensus 244 ~~~~~~l~~i~r~LkpGG~lvl~~i~~~~ 272 (383)
T PRK11705 244 KNYRTYFEVVRRCLKPDGLFLLHTIGSNK 272 (383)
T ss_pred HHHHHHHHHHHHHcCCCcEEEEEEccCCC
Confidence 45666777667788999999999888654
No 50
>PRK01683 trans-aconitate 2-methyltransferase; Provisional
Probab=44.03 E-value=22 Score=24.96 Aligned_cols=27 Identities=15% Similarity=0.106 Sum_probs=21.4
Q ss_pred HHHHHHHHHhhhhhhhcCceEEEEeee
Q 034814 20 KSDFSAFLKFRSEELKCGGRMILTLLY 46 (82)
Q Consensus 20 ~~D~~~FL~~Ra~ELv~GG~mvl~~~g 46 (82)
-.|...+|+.=.+-|+|||.+++++.+
T Consensus 106 ~~d~~~~l~~~~~~LkpgG~~~~~~~~ 132 (258)
T PRK01683 106 LPDHLELFPRLVSLLAPGGVLAVQMPD 132 (258)
T ss_pred CCCHHHHHHHHHHhcCCCcEEEEECCC
Confidence 346677888888899999999998644
No 51
>COG1092 Predicted SAM-dependent methyltransferases [General function prediction only]
Probab=43.43 E-value=61 Score=25.54 Aligned_cols=29 Identities=14% Similarity=0.194 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhhhhhhhcCceEEEEee
Q 034814 17 DQFKSDFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 17 ~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
.+.++|+..-+..=.+=|+|||.++++..
T Consensus 309 ~~~~rdy~~l~~~~~~iL~pgG~l~~~s~ 337 (393)
T COG1092 309 FSAQRDYKDLNDLALRLLAPGGTLVTSSC 337 (393)
T ss_pred hhHHHHHHHHHHHHHHHcCCCCEEEEEec
Confidence 56788888888777788999999988763
No 52
>TIGR00477 tehB tellurite resistance protein TehB. Part of a tellurite-reducing operon tehA and tehB
Probab=43.15 E-value=62 Score=22.10 Aligned_cols=23 Identities=9% Similarity=0.189 Sum_probs=17.7
Q ss_pred HHHHHHHHhhhhhhhcCceEEEE
Q 034814 21 SDFSAFLKFRSEELKCGGRMILT 43 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~ 43 (82)
.|...+++.=.+=|+|||.+++.
T Consensus 110 ~~~~~~l~~~~~~LkpgG~lli~ 132 (195)
T TIGR00477 110 GRVPEIIANMQAHTRPGGYNLIV 132 (195)
T ss_pred HHHHHHHHHHHHHhCCCcEEEEE
Confidence 46777888777889999995544
No 53
>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=43.08 E-value=41 Score=23.45 Aligned_cols=29 Identities=24% Similarity=0.207 Sum_probs=22.8
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeecCC
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYNDS 49 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~ 49 (82)
.|...+|+.=.+-|+|||.++++-..+..
T Consensus 138 ~~~~~~l~~i~~~LkpgG~l~i~d~~~~~ 166 (239)
T TIGR00740 138 EDRIALLTKIYEGLNPNGVLVLSEKFRFE 166 (239)
T ss_pred HHHHHHHHHHHHhcCCCeEEEEeecccCC
Confidence 46678888888899999999988655433
No 54
>PF12399 BCA_ABC_TP_C: Branched-chain amino acid ATP-binding cassette transporter
Probab=43.00 E-value=12 Score=18.07 Aligned_cols=10 Identities=40% Similarity=0.650 Sum_probs=7.8
Q ss_pred ChHHHHHHHH
Q 034814 7 SEFDVHRAYL 16 (82)
Q Consensus 7 s~~~V~~AY~ 16 (82)
+.|.|.+||+
T Consensus 13 ~n~~V~~aYL 22 (23)
T PF12399_consen 13 ANPEVREAYL 22 (23)
T ss_pred cCHHHHHhhC
Confidence 5678999985
No 55
>COG2227 UbiG 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1,4-benzoquinol methylase [Coenzyme metabolism]
Probab=42.98 E-value=25 Score=26.17 Aligned_cols=27 Identities=26% Similarity=0.412 Sum_probs=22.9
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
|=..|+++=++=++|||.|+++.+-|.
T Consensus 139 dp~~~~~~c~~lvkP~G~lf~STinrt 165 (243)
T COG2227 139 DPESFLRACAKLVKPGGILFLSTINRT 165 (243)
T ss_pred CHHHHHHHHHHHcCCCcEEEEeccccC
Confidence 345699999999999999999998764
No 56
>COG2186 FadR Transcriptional regulators [Transcription]
Probab=42.74 E-value=18 Score=25.92 Aligned_cols=51 Identities=18% Similarity=0.184 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCC----c-HHHHHHHHHHHHcCCccc
Q 034814 11 VHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSP----G-EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 11 V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~----~-~~l~~al~dmv~eGli~~ 74 (82)
..+.+.+|..+. -++.++.||.+| |+.-..+. . ..+..||..|..+|+|+-
T Consensus 11 l~~~v~~~i~~~------I~~g~~~~G~~L-------P~EreLae~fgVSR~~vREAl~~L~a~Glve~ 66 (241)
T COG2186 11 LADEVAEQIGAL------IVSGELPPGDRL-------PSERELAERFGVSRTVVREALKRLEAKGLVEI 66 (241)
T ss_pred hHHHHHHHHHHH------HHcCCCCCCCCC-------CCHHHHHHHHCCCcHHHHHHHHHHHHCCCeee
Confidence 445555555554 367788888877 43322221 1 789999999999999976
No 57
>PF04567 RNA_pol_Rpb2_5: RNA polymerase Rpb2, domain 5; InterPro: IPR007647 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 5, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=42.67 E-value=15 Score=20.32 Aligned_cols=11 Identities=27% Similarity=0.616 Sum_probs=9.5
Q ss_pred HHHHHHcCCcc
Q 034814 63 IKDMISEGSLS 73 (82)
Q Consensus 63 l~dmv~eGli~ 73 (82)
|.+|+++|+|+
T Consensus 1 w~~ll~~G~vE 11 (48)
T PF04567_consen 1 WDDLLKEGVVE 11 (48)
T ss_dssp HHHHHHTTSEE
T ss_pred ChhHhhCCCEE
Confidence 78999999885
No 58
>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=42.66 E-value=27 Score=21.05 Aligned_cols=24 Identities=29% Similarity=0.413 Sum_probs=20.0
Q ss_pred HHHHHHHhhhhhhhcCceEEEEee
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
+...|++.=.+=|+|||.+++++.
T Consensus 93 ~~~~~~~~~~~~L~~gG~~~~~~~ 116 (117)
T PF13659_consen 93 LYSRFLEAAARLLKPGGVLVFITP 116 (117)
T ss_dssp HHHHHHHHHHHHEEEEEEEEEEEE
T ss_pred HHHHHHHHHHHHcCCCeEEEEEeC
Confidence 667788777888999999998874
No 59
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=42.50 E-value=25 Score=19.98 Aligned_cols=18 Identities=22% Similarity=0.421 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+...|+.|.++|+|+-
T Consensus 43 ~tv~r~l~~l~~~g~I~~ 60 (76)
T PF13545_consen 43 ETVSRILKRLKDEGIIEV 60 (76)
T ss_dssp HHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHCCCEEE
Confidence 789999999999999974
No 60
>PRK05134 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional
Probab=42.27 E-value=31 Score=23.79 Aligned_cols=26 Identities=23% Similarity=0.388 Sum_probs=20.4
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
|...+|+.-.+=|+|||++++...++
T Consensus 129 ~~~~~l~~~~~~L~~gG~l~v~~~~~ 154 (233)
T PRK05134 129 DPASFVRACAKLVKPGGLVFFSTLNR 154 (233)
T ss_pred CHHHHHHHHHHHcCCCcEEEEEecCC
Confidence 45567777778899999999887654
No 61
>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=41.98 E-value=21 Score=26.10 Aligned_cols=25 Identities=32% Similarity=0.444 Sum_probs=21.3
Q ss_pred HHHHHHHHHhhhhhhhcCceEEEEe
Q 034814 20 KSDFSAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 20 ~~D~~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
-.|+-.||+.=.+-|+|||.+|+-=
T Consensus 137 D~dlv~fL~RCk~~L~~~G~IvvKE 161 (218)
T PF05891_consen 137 DEDLVAFLKRCKQALKPNGVIVVKE 161 (218)
T ss_dssp HHHHHHHHHHHHHHEEEEEEEEEEE
T ss_pred HHHHHHHHHHHHHhCcCCcEEEEEe
Confidence 4699999998888899999998853
No 62
>PRK14999 histidine utilization repressor; Provisional
Probab=41.57 E-value=18 Score=25.54 Aligned_cols=50 Identities=14% Similarity=0.122 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCC----c-HHHHHHHHHHHHcCCccc
Q 034814 16 LDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSP----G-EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 16 ~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~----~-~~l~~al~dmv~eGli~~ 74 (82)
..|-+.++..-+. +.++.||-+| ++....+. . ..+.+||..|+.||+|..
T Consensus 14 y~qi~~~i~~~I~--~g~~~~G~~L-------PsE~eLa~~~gVSR~TVR~Al~~L~~eGli~r 68 (241)
T PRK14999 14 YETVKQDICKKIA--GGVWQPHDRI-------PSEAELVAQYGFSRMTINRALRELTDEGWLVR 68 (241)
T ss_pred HHHHHHHHHHHHH--cCCCCCCCcC-------CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 3566666655544 3577777765 33322221 1 789999999999999976
No 63
>PF09989 DUF2229: CoA enzyme activase uncharacterised domain (DUF2229); InterPro: IPR018709 Proteins containing this domain include various bacterial hypothetical proteins, as well as CoA enzyme activases. The exact function of this domain has not, as yet, been defined.
Probab=41.46 E-value=74 Score=22.74 Aligned_cols=45 Identities=22% Similarity=0.289 Sum_probs=28.8
Q ss_pred ChHHHHHHHHH--HHHHHHHHHHHhhhhhh----hcCceEEEEeeecCCCC
Q 034814 7 SEFDVHRAYLD--QFKSDFSAFLKFRSEEL----KCGGRMILTLLYNDSFH 51 (82)
Q Consensus 7 s~~~V~~AY~~--Qf~~D~~~FL~~Ra~EL----v~GG~mvl~~~gr~~~~ 51 (82)
+..++.+||.+ +.+++|..-++...+|. ..-|...+.++||+-..
T Consensus 145 ~~~~~~~A~~~A~~~~~~~~~~l~~~g~~~l~~~~~~~~~~Ivl~GrpY~~ 195 (221)
T PF09989_consen 145 SRKEIRRAFEKALEAQKAFRRELRKGGEEILAELEANGKPAIVLLGRPYNI 195 (221)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcCCceEEEEcCCCcC
Confidence 45566666643 45566666666665544 45577789999997653
No 64
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=41.31 E-value=27 Score=24.23 Aligned_cols=24 Identities=25% Similarity=0.372 Sum_probs=20.3
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEe
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
.++..|++.-++=|+|||++++..
T Consensus 122 ~~~~~~l~~~~~~LkpGG~lv~~~ 145 (187)
T PRK00107 122 ASLSDLVELCLPLLKPGGRFLALK 145 (187)
T ss_pred cCHHHHHHHHHHhcCCCeEEEEEe
Confidence 457789998899999999998774
No 65
>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=41.24 E-value=73 Score=21.76 Aligned_cols=51 Identities=14% Similarity=0.083 Sum_probs=29.6
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc---ccccC
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL---SFNTY 79 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~---sFn~P 79 (82)
++..+++.=.+=|+|||++++.. |.. ..+-+..+.+.|..+|+-.. +|..|
T Consensus 120 ~~~~~~~~~~~~LkpgG~lvi~~-~~~------~~~~~~~~~e~~~~~~~~~~~~~~~~~~ 173 (181)
T TIGR00138 120 SLNVLLELTLNLLKVGGYFLAYK-GKK------YLDEIEEAKRKCQVLGVEPLEVPPLTGP 173 (181)
T ss_pred CHHHHHHHHHHhcCCCCEEEEEc-CCC------cHHHHHHHHHhhhhcCceEeeccccCCC
Confidence 44445554345589999998763 211 11344555566777787433 66666
No 66
>PF06819 Arc_PepC: Archaeal Peptidase A24 C-terminal Domain; InterPro: IPR009639 This region is of unknown function found at the C terminus of some archael proteins that have multiple transmembrane domains and are predicted to be aspartic peptidases belonging to the MEROPS peptidase subfamily A24A (type 4 prepilin peptidase 1.
Probab=41.17 E-value=20 Score=23.67 Aligned_cols=18 Identities=28% Similarity=0.545 Sum_probs=15.2
Q ss_pred HHHHHHHHcCCccccccc
Q 034814 61 LVIKDMISEGSLSLSFNT 78 (82)
Q Consensus 61 ~al~dmv~eGli~~sFn~ 78 (82)
.-|++|+.||-|+..||+
T Consensus 93 E~Lk~Lv~eGKi~nef~V 110 (110)
T PF06819_consen 93 EKLKKLVEEGKIENEFNV 110 (110)
T ss_pred HHHHHHHHcCCCcccccC
Confidence 358999999999988875
No 67
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=41.02 E-value=85 Score=21.32 Aligned_cols=42 Identities=17% Similarity=0.260 Sum_probs=28.7
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCC
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGS 71 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGl 71 (82)
.+...+|+.=.+-|+|||++++...-- +.+.+++..|.+-|.
T Consensus 122 ~~~~~~l~~~~~~LkpgG~lv~~~~~~---------~~~~~~~~~l~~~g~ 163 (198)
T PRK00377 122 EKLKEIISASWEIIKKGGRIVIDAILL---------ETVNNALSALENIGF 163 (198)
T ss_pred ccHHHHHHHHHHHcCCCcEEEEEeecH---------HHHHHHHHHHHHcCC
Confidence 355667776677899999998755311 456777777766675
No 68
>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=40.93 E-value=91 Score=22.48 Aligned_cols=19 Identities=16% Similarity=0.333 Sum_probs=13.6
Q ss_pred HHHHhhhhhhhcCceEEEE
Q 034814 25 AFLKFRSEELKCGGRMILT 43 (82)
Q Consensus 25 ~FL~~Ra~ELv~GG~mvl~ 43 (82)
.|++.=++=|+|||.+++.
T Consensus 167 ef~~~~~~~L~pgG~lv~~ 185 (270)
T TIGR00417 167 EFYELLKKALNEDGIFVAQ 185 (270)
T ss_pred HHHHHHHHHhCCCcEEEEc
Confidence 4444445668999999886
No 69
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=39.96 E-value=24 Score=21.72 Aligned_cols=18 Identities=11% Similarity=0.110 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
+-+..|+.+|+.||.|-.
T Consensus 80 ~~v~~al~~L~~eG~IYs 97 (102)
T PF08784_consen 80 NEVRKALDFLSNEGHIYS 97 (102)
T ss_dssp HHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHhCCeEec
Confidence 679999999999999843
No 70
>PF08738 Gon7: Gon7 family; InterPro: IPR014849 In Saccharomyces cerevisiae Gon7 is a member of the KEOPS protein complex. A protein complex proposed to be involved in transcription and promoting telomere uncapping and telomere elongation [].
Probab=39.74 E-value=71 Score=20.75 Aligned_cols=28 Identities=32% Similarity=0.464 Sum_probs=21.0
Q ss_pred hHHHHHHHHHH-------HHHHHHHHHHhhhhhhh
Q 034814 8 EFDVHRAYLDQ-------FKSDFSAFLKFRSEELK 35 (82)
Q Consensus 8 ~~~V~~AY~~Q-------f~~D~~~FL~~Ra~ELv 35 (82)
+.+-..+|+.+ .|.|...||..|=+|=+
T Consensus 48 ~s~~K~t~L~~LR~~lt~lQddIN~fLTeRMe~dK 82 (103)
T PF08738_consen 48 PSEDKDTYLSELRAQLTTLQDDINEFLTERMEEDK 82 (103)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44456688877 45699999999988754
No 71
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=39.68 E-value=30 Score=19.47 Aligned_cols=18 Identities=11% Similarity=0.196 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+..|+..|+++|+|..
T Consensus 39 ~tvr~al~~L~~~g~i~~ 56 (64)
T PF00392_consen 39 TTVREALRRLEAEGLIER 56 (64)
T ss_dssp HHHHHHHHHHHHTTSEEE
T ss_pred cHHHHHHHHHHHCCcEEE
Confidence 678999999999999864
No 72
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=39.20 E-value=29 Score=25.63 Aligned_cols=28 Identities=21% Similarity=0.332 Sum_probs=23.5
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 034814 7 SEFDVHRAYLDQFKSDFSAFLKFRSEEL 34 (82)
Q Consensus 7 s~~~V~~AY~~Qf~~D~~~FL~~Ra~EL 34 (82)
+.+.+..-|.++++.++.=|-++|.+|-
T Consensus 164 ~~d~e~~rY~~~YE~~l~PF~~F~~~E~ 191 (248)
T PF08172_consen 164 SSDVESNRYSSAYEESLNPFAAFRKRER 191 (248)
T ss_pred CCchhHHHHHHHHHhccChHHHHhHhhH
Confidence 3445556999999999999999999985
No 73
>PF07370 DUF1489: Protein of unknown function (DUF1489); InterPro: IPR008320 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=38.77 E-value=22 Score=24.33 Aligned_cols=22 Identities=23% Similarity=0.299 Sum_probs=17.6
Q ss_pred HHHhhhhhhhcCceEEEEeeec
Q 034814 26 FLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 26 FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
..=-|+.||..||.++-++-|.
T Consensus 36 m~PkR~~Ell~GGSlYWVikg~ 57 (137)
T PF07370_consen 36 MWPKRADELLDGGSLYWVIKGQ 57 (137)
T ss_pred CCCccHHHhccCCcEEEEECCE
Confidence 3445899999999999887664
No 74
>smart00271 DnaJ DnaJ molecular chaperone homology domain.
Probab=38.16 E-value=53 Score=17.70 Aligned_cols=15 Identities=20% Similarity=0.131 Sum_probs=11.9
Q ss_pred CChHHHHHHHHHHHH
Q 034814 6 MSEFDVHRAYLDQFK 20 (82)
Q Consensus 6 ~s~~~V~~AY~~Qf~ 20 (82)
.+..++.+||.++..
T Consensus 13 ~~~~~ik~ay~~l~~ 27 (60)
T smart00271 13 ASLDEIKKAYRKLAL 27 (60)
T ss_pred CCHHHHHHHHHHHHH
Confidence 567889999988754
No 75
>COG0275 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]
Probab=38.16 E-value=49 Score=25.58 Aligned_cols=32 Identities=22% Similarity=0.354 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhcCceEEEEee
Q 034814 14 AYLDQFKSDFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 14 AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
.|-.+=-..+..+|.+=-+=|+|||+++++.+
T Consensus 214 I~VNdEL~~L~~~L~~a~~~L~~gGRl~VIsF 245 (314)
T COG0275 214 IYVNDELEELEEALEAALDLLKPGGRLAVISF 245 (314)
T ss_pred eeehhHHHHHHHHHHHHHHhhCCCcEEEEEEe
Confidence 34455567889999998899999999965543
No 76
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=38.12 E-value=27 Score=21.15 Aligned_cols=18 Identities=11% Similarity=0.110 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..|.+.|++|.+.|+|+.
T Consensus 34 ~~L~~~L~~L~~~GLv~r 51 (90)
T PF01638_consen 34 KVLSQRLKELEEAGLVER 51 (90)
T ss_dssp HHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHcchhhc
Confidence 689999999999999987
No 77
>PRK09334 30S ribosomal protein S25e; Provisional
Probab=38.11 E-value=26 Score=22.09 Aligned_cols=25 Identities=24% Similarity=0.199 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHcCCccc---ccccCCC
Q 034814 57 EPALLVIKDMISEGSLSL---SFNTYQK 81 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~---sFn~P~y 81 (82)
.+-..+|.+|..+|+|-. +-..++|
T Consensus 56 SlAr~~Lr~L~~kG~Ik~V~~~~~q~IY 83 (86)
T PRK09334 56 SVAKKVLRELEKRGVLVLYSKNRRTPIY 83 (86)
T ss_pred HHHHHHHHHHHHCCCEEEEecCCCeEEe
Confidence 567889999999999966 4444554
No 78
>PRK09764 DNA-binding transcriptional repressor MngR; Provisional
Probab=37.95 E-value=22 Score=25.08 Aligned_cols=49 Identities=14% Similarity=0.179 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCC----c-HHHHHHHHHHHHcCCccc
Q 034814 17 DQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSP----G-EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 17 ~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~----~-~~l~~al~dmv~eGli~~ 74 (82)
.|-+.++..-+. ..++.||-+| ++....+. . ..+.+||.+|+.||+|..
T Consensus 8 ~qi~~~L~~~I~--~g~~~~G~~L-------PsE~eL~~~~~VSR~TvR~Al~~L~~eGli~r 61 (240)
T PRK09764 8 RQIADRIREQIA--RGELKPGDAL-------PTESALQTEFGVSRVTVRQALRQLVEQQILES 61 (240)
T ss_pred HHHHHHHHHHHH--cCCCCCCCcC-------CCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEE
Confidence 555666654432 3466666554 33222221 1 689999999999999986
No 79
>PRK07402 precorrin-6B methylase; Provisional
Probab=37.47 E-value=35 Score=23.13 Aligned_cols=25 Identities=28% Similarity=0.299 Sum_probs=18.7
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeee
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLY 46 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~g 46 (82)
++..+|+.=.+-|+|||++++....
T Consensus 120 ~~~~~l~~~~~~LkpgG~li~~~~~ 144 (196)
T PRK07402 120 PIKEILQAVWQYLKPGGRLVATASS 144 (196)
T ss_pred CHHHHHHHHHHhcCCCeEEEEEeec
Confidence 4566676656669999999998753
No 80
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=37.30 E-value=33 Score=19.23 Aligned_cols=30 Identities=23% Similarity=0.369 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhcCceEEE
Q 034814 13 RAYLDQFKSDFSAFLKFRSEELKCGGRMIL 42 (82)
Q Consensus 13 ~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl 42 (82)
+.|.++|..|+...+...-+++...|.+.+
T Consensus 24 ~~~~~~~g~~~~~~~~~~l~~l~~~Gll~~ 53 (66)
T PF06969_consen 24 SEFEQRFGIDFAEEFQKELEELQEDGLLEI 53 (66)
T ss_dssp HHHHHHTT--THHH-HHHHHHHHHTTSEEE
T ss_pred HHHHHHHCcCHHHHHHHHHHHHHHCCCEEE
Confidence 455666666666665555666666655543
No 81
>PRK10901 16S rRNA methyltransferase B; Provisional
Probab=37.21 E-value=1.2e+02 Score=23.47 Aligned_cols=28 Identities=21% Similarity=0.157 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHhhhhhhhcCceEEEEee
Q 034814 18 QFKSDFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 18 Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
.+.+....+|+.=.+-|+|||++|.+..
T Consensus 346 ~l~~~q~~iL~~a~~~LkpGG~lvystc 373 (427)
T PRK10901 346 ALAALQSEILDALWPLLKPGGTLLYATC 373 (427)
T ss_pred HHHHHHHHHHHHHHHhcCCCCEEEEEeC
Confidence 3445556778777788999999998773
No 82
>COG5123 TOA2 Transcription initiation factor IIA, gamma subunit [Transcription]
Probab=36.69 E-value=34 Score=22.61 Aligned_cols=18 Identities=22% Similarity=0.276 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..|.++|.+++..|.|+.
T Consensus 15 ~~L~dalD~lis~g~isp 32 (113)
T COG5123 15 KVLEDALDELISAGVISP 32 (113)
T ss_pred HHHHHHHHHHHhcCCcCH
Confidence 578999999999999987
No 83
>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=36.58 E-value=42 Score=23.02 Aligned_cols=27 Identities=19% Similarity=0.258 Sum_probs=20.2
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
.|...+|+.=.+=|+|||++++.-.+.
T Consensus 128 ~~~~~~l~~~~~~Lk~gG~l~~~~~~~ 154 (231)
T TIGR02752 128 PDYMQVLREMYRVVKPGGKVVCLETSQ 154 (231)
T ss_pred CCHHHHHHHHHHHcCcCeEEEEEECCC
Confidence 455667776677889999998876554
No 84
>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=36.47 E-value=46 Score=22.09 Aligned_cols=27 Identities=19% Similarity=0.353 Sum_probs=16.9
Q ss_pred HHHHHHHHHhhhhh----hhcCceEEEEeee
Q 034814 20 KSDFSAFLKFRSEE----LKCGGRMILTLLY 46 (82)
Q Consensus 20 ~~D~~~FL~~Ra~E----Lv~GG~mvl~~~g 46 (82)
..+|..|+..+..| |+|||.|++.+-.
T Consensus 28 ~~~y~~~~~~~~~~~~rvLk~~g~~~i~~~~ 58 (231)
T PF01555_consen 28 HEEYLEWMEEWLKECYRVLKPGGSIFIFIDD 58 (231)
T ss_dssp HHHHHHHHHHHHHHHHHHEEEEEEEEEEE-C
T ss_pred HHHHHHHHHHHHHHHHhhcCCCeeEEEEecc
Confidence 34555555555554 5999999887643
No 85
>KOG4796 consensus RNA polymerase II elongation factor [Transcription]
Probab=36.00 E-value=53 Score=27.45 Aligned_cols=24 Identities=8% Similarity=0.520 Sum_probs=20.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhh
Q 034814 8 EFDVHRAYLDQFKSDFSAFLKFRS 31 (82)
Q Consensus 8 ~~~V~~AY~~Qf~~D~~~FL~~Ra 31 (82)
..+++++|.++|+.|...|..+-+
T Consensus 499 S~eqr~~Yk~dF~~eY~EYreLha 522 (604)
T KOG4796|consen 499 SLEQRQRYKKDFEAEYDEYRELHA 522 (604)
T ss_pred cHHHHHHHHHHHHhhHHHHHHHHH
Confidence 457899999999999999987654
No 86
>PF10009 DUF2252: Uncharacterized protein conserved in bacteria (DUF2252); InterPro: IPR018721 This domain has no known function.
Probab=35.74 E-value=41 Score=26.14 Aligned_cols=20 Identities=35% Similarity=0.664 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 034814 10 DVHRAYLDQFKSDFSAFLKF 29 (82)
Q Consensus 10 ~V~~AY~~Qf~~D~~~FL~~ 29 (82)
....+|++|-++||..|.++
T Consensus 366 ~~A~~Ya~qv~~Dy~~f~~A 385 (385)
T PF10009_consen 366 EFAVAYADQVEADYAAFVEA 385 (385)
T ss_pred HHHHHHHHHHHHHHHHHHhC
Confidence 35679999999999999763
No 87
>PF13730 HTH_36: Helix-turn-helix domain
Probab=35.69 E-value=44 Score=17.98 Aligned_cols=16 Identities=19% Similarity=0.326 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHcCCc
Q 034814 57 EPALLVIKDMISEGSL 72 (82)
Q Consensus 57 ~~l~~al~dmv~eGli 72 (82)
..+..++++|++.|+|
T Consensus 40 ~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 40 RTVQRAIKELEEKGLI 55 (55)
T ss_pred HHHHHHHHHHHHCcCC
Confidence 6789999999999987
No 88
>PF14044 NETI: NETI protein
Probab=35.68 E-value=34 Score=20.17 Aligned_cols=18 Identities=22% Similarity=0.270 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
+.|++||.-|.++|..+=
T Consensus 8 ETI~~CL~RM~~eGY~Pv 25 (57)
T PF14044_consen 8 ETISDCLARMKKEGYMPV 25 (57)
T ss_pred CcHHHHHHHHHHcCCCce
Confidence 689999999999998653
No 89
>PRK12335 tellurite resistance protein TehB; Provisional
Probab=35.53 E-value=76 Score=23.02 Aligned_cols=25 Identities=20% Similarity=0.250 Sum_probs=19.8
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEee
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
.++..+|+.=.+=|+|||.++++..
T Consensus 200 ~~~~~~l~~~~~~LkpgG~~l~v~~ 224 (287)
T PRK12335 200 ERIPAIIKNMQEHTNPGGYNLIVCA 224 (287)
T ss_pred HHHHHHHHHHHHhcCCCcEEEEEEe
Confidence 4788888887888999999776543
No 90
>PRK09391 fixK transcriptional regulator FixK; Provisional
Probab=35.35 E-value=44 Score=23.28 Aligned_cols=18 Identities=17% Similarity=0.314 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
+.+..+|++|.++|+|+.
T Consensus 194 etlsR~L~~L~~~GlI~~ 211 (230)
T PRK09391 194 ETVSRALSQLQDRGLIGL 211 (230)
T ss_pred HHHHHHHHHHHHCCcEEe
Confidence 789999999999999963
No 91
>PRK12275 hypothetical protein; Reviewed
Probab=35.04 E-value=37 Score=21.54 Aligned_cols=30 Identities=27% Similarity=0.344 Sum_probs=23.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHh---hhhhhhc
Q 034814 7 SEFDVHRAYLDQFKSDFSAFLKF---RSEELKC 36 (82)
Q Consensus 7 s~~~V~~AY~~Qf~~D~~~FL~~---Ra~ELv~ 36 (82)
-+...++++.++..+||.+||.. .+.|+..
T Consensus 46 i~~NIaEg~~r~s~~~~~~~l~ia~~s~~E~~~ 78 (116)
T PRK12275 46 IPSNIAEGYGRESKKDFIRFLYIALGSLAELET 78 (116)
T ss_pred HHHHHHHHHccCCHHHHHHHHHHHHHHHHHHHH
Confidence 35568899999999999999987 5666543
No 92
>PF03269 DUF268: Caenorhabditis protein of unknown function, DUF268; InterPro: IPR004951 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=34.43 E-value=48 Score=23.65 Aligned_cols=28 Identities=29% Similarity=0.360 Sum_probs=19.8
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeeecCCC
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLYNDSF 50 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~ 50 (82)
|+...++.| +=|++||+|+|.++--.+.
T Consensus 90 dl~~m~~i~-~vLK~GG~L~l~vPvG~d~ 117 (177)
T PF03269_consen 90 DLRAMAKIK-CVLKPGGLLFLGVPVGTDA 117 (177)
T ss_pred cHHHHHHHH-HhhccCCeEEEEeecCCcc
Confidence 555555554 4689999999999765433
No 93
>smart00055 FCH Fes/CIP4 homology domain. Alignment extended from original report. Highly alpha-helical. Also known as the RAEYL motif or the S. pombe Cdc15 N-terminal domain.
Probab=33.68 E-value=45 Score=19.57 Aligned_cols=14 Identities=21% Similarity=0.527 Sum_probs=11.5
Q ss_pred HHHHHHHHHHhhhh
Q 034814 19 FKSDFSAFLKFRSE 32 (82)
Q Consensus 19 f~~D~~~FL~~Ra~ 32 (82)
+-+|+..|++.||+
T Consensus 24 ~~~~~~~f~~~Ra~ 37 (87)
T smart00055 24 LLEDLKKFIRERAK 37 (87)
T ss_pred HHHHHHHHHHHHHH
Confidence 67889999999864
No 94
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=33.27 E-value=24 Score=25.64 Aligned_cols=13 Identities=38% Similarity=0.766 Sum_probs=10.6
Q ss_pred hhhcCceEEEEee
Q 034814 33 ELKCGGRMILTLL 45 (82)
Q Consensus 33 ELv~GG~mvl~~~ 45 (82)
-|++||+||+-.-
T Consensus 158 QL~~gGrlv~PvG 170 (209)
T COG2518 158 QLKPGGRLVIPVG 170 (209)
T ss_pred hcccCCEEEEEEc
Confidence 4889999988764
No 95
>PRK00805 putative deoxyhypusine synthase; Provisional
Probab=33.06 E-value=66 Score=24.87 Aligned_cols=33 Identities=12% Similarity=-0.004 Sum_probs=24.4
Q ss_pred cCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc
Q 034814 36 CGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL 74 (82)
Q Consensus 36 ~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~ 74 (82)
+++.++|++.|--.. .=+..++.+|+++|+|+-
T Consensus 45 ~~~~ifL~~tg~mvs------aGlr~~i~~Li~~g~VD~ 77 (329)
T PRK00805 45 PDNTIFMGLSGAMVP------AGMRKIIKWLIRNRYVDV 77 (329)
T ss_pred CCCeEEEEeccchHH------HHHHHHHHHHHHcCCeeE
Confidence 789998888663211 236789999999999864
No 96
>PF14411 LHH: A nuclease of the HNH/ENDO VII superfamily with conserved LHH
Probab=33.05 E-value=65 Score=19.90 Aligned_cols=20 Identities=30% Similarity=0.430 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHhhhhhhh
Q 034814 16 LDQFKSDFSAFLKFRSEELK 35 (82)
Q Consensus 16 ~~Qf~~D~~~FL~~Ra~ELv 35 (82)
+.||.++=..|=+.||++++
T Consensus 62 r~~f~~~r~~YWk~Ra~~~~ 81 (81)
T PF14411_consen 62 RKQFNKWRREYWKWRAEEYE 81 (81)
T ss_pred HHHHHHHHHHHHHHHHHccC
Confidence 88999999999999999864
No 97
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=32.95 E-value=1.4e+02 Score=21.46 Aligned_cols=27 Identities=15% Similarity=0.217 Sum_probs=19.2
Q ss_pred HHHHHHHHHHhhhhhhhcCceEEEEee
Q 034814 19 FKSDFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 19 f~~D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
..+.-..+|+.=++=++|||++|.+..
T Consensus 174 l~~~q~~iL~~a~~~lkpgG~lvYstc 200 (264)
T TIGR00446 174 ISALQKELIDSAFDALKPGGVLVYSTC 200 (264)
T ss_pred HHHHHHHHHHHHHHhcCCCCEEEEEeC
Confidence 344445577776777889999987763
No 98
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=32.81 E-value=38 Score=22.26 Aligned_cols=18 Identities=11% Similarity=0.158 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
+.++.+|+.|.++|+|+-
T Consensus 158 etvsR~l~~l~~~g~I~~ 175 (193)
T TIGR03697 158 VTITRLLGDLRKKKLISI 175 (193)
T ss_pred HHHHHHHHHHHHCCCEEe
Confidence 789999999999999974
No 99
>PRK03971 putative deoxyhypusine synthase; Provisional
Probab=32.69 E-value=2.4e+02 Score=21.91 Aligned_cols=59 Identities=14% Similarity=0.044 Sum_probs=38.0
Q ss_pred ChHHHHHHHHH---------HHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc
Q 034814 7 SEFDVHRAYLD---------QFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL 74 (82)
Q Consensus 7 s~~~V~~AY~~---------Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~ 74 (82)
+-.+..++|.. ++.+=+..-++.|+ ..++.++|++.|--.. .=+..++.+|+++|+|+-
T Consensus 30 ~~~~l~~~~~~~gF~A~~l~~A~~i~~~M~~~~~---~~~~~ifL~~tg~mis------aGlr~~i~~Li~~~~Vd~ 97 (334)
T PRK03971 30 DLEEVLDYYAKIGFQATHLGKAIKIWKKIEEKRK---KEEATVFLGYTSNIVS------SGLREIIAYLVKEKKVDV 97 (334)
T ss_pred CHHHHHHHHHHcCccHHHHHHHHHHHHHHHhhcc---cCCCeEEEEccccccc------hhHHHHHHHHHHcCCeeE
Confidence 34456666665 34445555554442 3789998888664221 246899999999999864
No 100
>PF08679 DsrD: Dissimilatory sulfite reductase D (DsrD); InterPro: IPR014793 The structure of the dissimilatory sulphite reductase D (DsrD) protein has shown it to contain a winged-helix motif similar to those found in DNA binding proteins []. The structure suggests a possible role for DsrD in transcription or translation of genes, which catalyse dissimilatory sulphite reduction. ; PDB: 1WQ2_B 1UCR_B.
Probab=32.68 E-value=38 Score=20.59 Aligned_cols=17 Identities=18% Similarity=0.526 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHcCCcc
Q 034814 57 EPALLVIKDMISEGSLS 73 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~ 73 (82)
..+-.++++||+||.++
T Consensus 35 R~vKKi~~~LV~Eg~l~ 51 (67)
T PF08679_consen 35 REVKKIVNELVNEGKLE 51 (67)
T ss_dssp HHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHhhCeEE
Confidence 46788999999999875
No 101
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=32.51 E-value=63 Score=21.79 Aligned_cols=28 Identities=25% Similarity=0.339 Sum_probs=21.5
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
.|...+|+.-.+=|+|||.+++.-...+
T Consensus 135 ~~~~~~l~~~~~~L~~gG~li~~~~~~~ 162 (239)
T PRK00216 135 PDIDKALREMYRVLKPGGRLVILEFSKP 162 (239)
T ss_pred CCHHHHHHHHHHhccCCcEEEEEEecCC
Confidence 3566778888888999999988765543
No 102
>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=32.45 E-value=87 Score=20.75 Aligned_cols=26 Identities=35% Similarity=0.340 Sum_probs=19.3
Q ss_pred HHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 23 FSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 23 ~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
+..||+.=.+-|+|||++++...+..
T Consensus 119 ~~~~l~~~~~~Lk~gG~~~~~~~~~~ 144 (179)
T TIGR00537 119 IDRFLDELPEILKEGGRVQLIQSSLN 144 (179)
T ss_pred HHHHHHhHHHhhCCCCEEEEEEeccC
Confidence 55677766678999999988875543
No 103
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=32.45 E-value=46 Score=17.88 Aligned_cols=18 Identities=11% Similarity=0.233 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+..++..|+++|+|+.
T Consensus 40 ~~v~~~l~~L~~~G~i~~ 57 (66)
T cd07377 40 TTVREALRELEAEGLVER 57 (66)
T ss_pred HHHHHHHHHHHHCCCEEe
Confidence 789999999999999864
No 104
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=32.30 E-value=59 Score=24.53 Aligned_cols=28 Identities=21% Similarity=0.267 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHhhhhhhhcCceEEEEee
Q 034814 18 QFKSDFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 18 Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
+=-.-+..+|..=.+=|+|||+|+++..
T Consensus 210 ~El~~L~~~L~~~~~~L~~gGrl~visf 237 (296)
T PRK00050 210 DELEELERALEAALDLLKPGGRLAVISF 237 (296)
T ss_pred hhHHHHHHHHHHHHHHhcCCCEEEEEec
Confidence 3345678888888888999999966543
No 105
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=31.71 E-value=41 Score=17.11 Aligned_cols=18 Identities=28% Similarity=0.303 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+...+..|+++|+|..
T Consensus 23 ~tv~~~l~~L~~~g~l~~ 40 (48)
T smart00419 23 ETVSRTLKRLEKEGLISR 40 (48)
T ss_pred HHHHHHHHHHHHCCCEEE
Confidence 678999999999999864
No 106
>PLN02244 tocopherol O-methyltransferase
Probab=31.56 E-value=63 Score=24.22 Aligned_cols=27 Identities=22% Similarity=0.316 Sum_probs=19.9
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
|...||+.=.+=|+|||+++++.....
T Consensus 201 d~~~~l~e~~rvLkpGG~lvi~~~~~~ 227 (340)
T PLN02244 201 DKRKFVQELARVAAPGGRIIIVTWCHR 227 (340)
T ss_pred CHHHHHHHHHHHcCCCcEEEEEEeccc
Confidence 555666665667999999999876543
No 107
>PRK01099 rpoK DNA-directed RNA polymerase subunit K; Provisional
Probab=31.49 E-value=1.1e+02 Score=17.86 Aligned_cols=42 Identities=12% Similarity=0.312 Sum_probs=28.7
Q ss_pred HHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCcc
Q 034814 23 FSAFLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLS 73 (82)
Q Consensus 23 ~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~ 73 (82)
+..-...||++|.-|..-.+-.- ...+.+..|+.++ .+|.|+
T Consensus 12 ~a~i~akRArQl~~Ga~~lv~~~--------~~~kPv~iAl~Ei-~~gkI~ 53 (62)
T PRK01099 12 RARIIGARALQISMGAPVLIDIP--------ESTDPLDIAEEEF-KRGVLP 53 (62)
T ss_pred HHHHHHHHHHHHHcCCCceecCC--------CCCCHHHHHHHHH-HcCCCC
Confidence 45667889999998875544321 1125788899998 677764
No 108
>TIGR02436 conserved hypothetical protein TIGR02436. This family consists of a few small, well-conserved proteins found so far in Bacteroides thetaiotaomicron VPI-5482, Nostoc sp. PCC 7120, Clostridium tetani E88, Chlorobium tepidum TLS, and Prevotella ruminicola 23. The function is unknown.
Probab=31.32 E-value=26 Score=22.46 Aligned_cols=25 Identities=16% Similarity=0.130 Sum_probs=20.6
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHhh
Q 034814 6 MSEFDVHRAYLDQFKSDFSAFLKFR 30 (82)
Q Consensus 6 ~s~~~V~~AY~~Qf~~D~~~FL~~R 30 (82)
+-+....+++.+...+||.+||..=
T Consensus 38 SI~aNIAEg~~r~s~~df~~fl~ia 62 (111)
T TIGR02436 38 SIGANIREAQAAESTADFIHKLSIA 62 (111)
T ss_pred cHHHHHHHHhccCCHHHHHHHHHHH
Confidence 3456689999999999999999743
No 109
>PLN02336 phosphoethanolamine N-methyltransferase
Probab=31.28 E-value=68 Score=24.82 Aligned_cols=28 Identities=21% Similarity=0.292 Sum_probs=21.4
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeeecCC
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLYNDS 49 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~gr~~ 49 (82)
|...+|+.=.+=|+|||++++....+..
T Consensus 347 d~~~~l~~~~r~LkpgG~l~i~~~~~~~ 374 (475)
T PLN02336 347 DKPALFRSFFKWLKPGGKVLISDYCRSP 374 (475)
T ss_pred CHHHHHHHHHHHcCCCeEEEEEEeccCC
Confidence 4556666667779999999999877654
No 110
>PRK14903 16S rRNA methyltransferase B; Provisional
Probab=31.27 E-value=1.7e+02 Score=22.89 Aligned_cols=31 Identities=10% Similarity=0.039 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 17 DQFKSDFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 17 ~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
.++.+.-...|..=++=|+|||.||.+....
T Consensus 339 ~~l~~~Q~~iL~~a~~~LkpGG~LvYsTCs~ 369 (431)
T PRK14903 339 KKLSEIQLRIVSQAWKLLEKGGILLYSTCTV 369 (431)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCEEEEEECCC
Confidence 3445555667777778899999999888553
No 111
>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=30.96 E-value=64 Score=24.55 Aligned_cols=25 Identities=24% Similarity=0.409 Sum_probs=19.3
Q ss_pred HHHHHHHHHhhhhhhhcCceEEEEe
Q 034814 20 KSDFSAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 20 ~~D~~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
-.-+..+|..=.+=|+|||+|+++.
T Consensus 216 L~~L~~~L~~~~~~L~~gGrl~VIS 240 (305)
T TIGR00006 216 LEELEEALQFAPNLLAPGGRLSIIS 240 (305)
T ss_pred HHHHHHHHHHHHHHhcCCCEEEEEe
Confidence 3457778888788899999996554
No 112
>KOG1158 consensus NADP/FAD dependent oxidoreductase [Energy production and conversion]
Probab=30.93 E-value=1.1e+02 Score=25.91 Aligned_cols=47 Identities=23% Similarity=0.130 Sum_probs=30.4
Q ss_pred HHHHHHhhhhhhh-----cCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc
Q 034814 23 FSAFLKFRSEELK-----CGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL 74 (82)
Q Consensus 23 ~~~FL~~Ra~ELv-----~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~ 74 (82)
|..||+.|-.+.. ++| |+|.+=+|+++.. -+-..=|..+++.|++.+
T Consensus 506 FRgFlq~r~~~~~~~~~~~~~-~~Lf~GcR~~~~d----~LY~eE~~~~~~~~~l~~ 557 (645)
T KOG1158|consen 506 FRGFLQERLFLKQQGPKFGGG-MWLFFGCRNSDED----YLYREEWEEYKKAGILTR 557 (645)
T ss_pred hHHHHHHHHHhhhcCccCCcc-eEEEEeCCCchHH----HHHHHHHHHHHhcCcchh
Confidence 6788888888744 555 6666655544321 145666777778887765
No 113
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=30.74 E-value=40 Score=19.08 Aligned_cols=18 Identities=11% Similarity=0.198 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+..+|+.|++.|+|..
T Consensus 37 ~~v~~~L~~L~~~GlV~~ 54 (68)
T PF01978_consen 37 STVYRALKSLEEKGLVER 54 (68)
T ss_dssp HHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHCCCEEE
Confidence 578999999999999976
No 114
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=30.31 E-value=42 Score=16.83 Aligned_cols=14 Identities=21% Similarity=0.406 Sum_probs=11.8
Q ss_pred HHHHHHHHcCCccc
Q 034814 61 LVIKDMISEGSLSL 74 (82)
Q Consensus 61 ~al~dmv~eGli~~ 74 (82)
..|.+|-+.|+|++
T Consensus 6 ~~L~~l~~~G~Ise 19 (31)
T PF09851_consen 6 EKLKELYDKGEISE 19 (31)
T ss_pred HHHHHHHHcCCCCH
Confidence 45788999999987
No 115
>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=30.10 E-value=80 Score=21.68 Aligned_cols=24 Identities=21% Similarity=0.369 Sum_probs=18.7
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEe
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
.++..|++.=.+-|+|||.+++..
T Consensus 194 ~~~~~~i~~~~~~L~~gG~~~~~~ 217 (251)
T TIGR03534 194 DFYRRIIAQAPRLLKPGGWLLLEI 217 (251)
T ss_pred HHHHHHHHHHHHhcccCCEEEEEE
Confidence 456677877777889999998854
No 116
>TIGR03337 phnR transcriptional regulator protein. This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Salmonella, Vibrio Aeromonas hydrophila, Hahella chejuensis and Psychromonas ingrahamii.
Probab=30.02 E-value=38 Score=23.32 Aligned_cols=49 Identities=14% Similarity=0.116 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCC----c-HHHHHHHHHHHHcCCccc
Q 034814 17 DQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSP----G-EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 17 ~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~----~-~~l~~al~dmv~eGli~~ 74 (82)
.|-++++..-++ +.++.||.++ ++....+. . ..+.+||..|+.||+|..
T Consensus 4 ~qi~~~l~~~I~--~g~~~~g~~l-------PsE~eLa~~~~Vsr~Tvr~Al~~L~~eGli~~ 57 (231)
T TIGR03337 4 LYIKDHLSYQIR--AGALLPGDKL-------PSERDLGERFNTTRVTIREALQQLEAEGLIYR 57 (231)
T ss_pred HHHHHHHHHHHH--cCCCCCCCcC-------cCHHHHHHHHCCCHHHHHHHHHHHHHCCeEEE
Confidence 455666655543 4678888872 32221111 1 678999999999999977
No 117
>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=30.00 E-value=1e+02 Score=22.23 Aligned_cols=30 Identities=27% Similarity=0.204 Sum_probs=22.0
Q ss_pred HHHHhhhhhhhcCceEEEEeeecCCCCCCC
Q 034814 25 AFLKFRSEELKCGGRMILTLLYNDSFHATS 54 (82)
Q Consensus 25 ~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~ 54 (82)
.+++.=++-|++||.+++.-+=+.++..++
T Consensus 122 ~lf~~a~~~L~~gG~L~~YGPF~~~G~~ts 151 (204)
T PF06080_consen 122 GLFAGAARLLKPGGLLFLYGPFNRDGKFTS 151 (204)
T ss_pred HHHHHHHHhCCCCCEEEEeCCcccCCEeCC
Confidence 344555778999999999988776665444
No 118
>PF12098 DUF3574: Protein of unknown function (DUF3574); InterPro: IPR021957 This family of proteins is functionally uncharacterised. This protein is found in bacteria and viruses. Proteins in this family are typically between 144 to 163 amino acids in length. This protein has a conserved TPRF sequence motif.
Probab=29.94 E-value=14 Score=24.11 Aligned_cols=14 Identities=21% Similarity=0.520 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHH
Q 034814 9 FDVHRAYLDQFKSD 22 (82)
Q Consensus 9 ~~V~~AY~~Qf~~D 22 (82)
.+++++|.+||+++
T Consensus 78 ~~Ir~~Yk~rF~Qe 91 (104)
T PF12098_consen 78 EAIREAYKQRFQQE 91 (104)
T ss_pred HHHHHHHHHHhccc
Confidence 45788888888765
No 119
>PRK14968 putative methyltransferase; Provisional
Probab=29.91 E-value=90 Score=20.27 Aligned_cols=24 Identities=33% Similarity=0.390 Sum_probs=19.5
Q ss_pred HHHHHHHhhhhhhhcCceEEEEee
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
....|++.=.+-|+|||.++++..
T Consensus 126 ~~~~~i~~~~~~Lk~gG~~~~~~~ 149 (188)
T PRK14968 126 VIDRFLDEVGRYLKPGGRILLLQS 149 (188)
T ss_pred HHHHHHHHHHHhcCCCeEEEEEEc
Confidence 356788888889999999988763
No 120
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=29.88 E-value=47 Score=17.99 Aligned_cols=18 Identities=11% Similarity=0.204 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+...++.|++.|+|..
T Consensus 36 ~~vs~~v~~L~~~Glv~r 53 (62)
T PF12802_consen 36 STVSRIVKRLEKKGLVER 53 (62)
T ss_dssp HHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHCCCEEE
Confidence 578999999999999975
No 121
>PRK10391 oriC-binding nucleoid-associated protein; Provisional
Probab=29.87 E-value=27 Score=21.44 Aligned_cols=21 Identities=29% Similarity=0.572 Sum_probs=15.5
Q ss_pred HHHHHHH---HhhhhhhhcCceEE
Q 034814 21 SDFSAFL---KFRSEELKCGGRMI 41 (82)
Q Consensus 21 ~D~~~FL---~~Ra~ELv~GG~mv 41 (82)
.+...|- .+|-.||+.||+++
T Consensus 34 ~e~~~f~~AaDHR~AEL~~~~kLy 57 (71)
T PRK10391 34 QEIINMYRAADHRRAELVSGGRLF 57 (71)
T ss_pred HHHHHHHHHHHHHHHHHHhCcccc
Confidence 4455554 36999999999985
No 122
>PRK00770 deoxyhypusine synthase-like protein; Provisional
Probab=29.63 E-value=64 Score=25.44 Aligned_cols=33 Identities=18% Similarity=0.059 Sum_probs=24.4
Q ss_pred cCceEEEEeeecCCCCCCCCcHHHH-HHHHHHHHcCCccc
Q 034814 36 CGGRMILTLLYNDSFHATSPGEPAL-LVIKDMISEGSLSL 74 (82)
Q Consensus 36 ~GG~mvl~~~gr~~~~~~~~~~~l~-~al~dmv~eGli~~ 74 (82)
.++.++|++.|--. .+ =|. .+|.+|++.|+|+-
T Consensus 50 ~~~tvfLtltgami---sa---GLr~~ii~~LIr~g~VD~ 83 (384)
T PRK00770 50 DGVTVGLTLSGAMT---PA---GFGVSALAPLIEAGFIDW 83 (384)
T ss_pred cCCcEEEEeccchh---hh---hcChHHHHHHHHcCCccE
Confidence 88999888866321 11 257 79999999999875
No 123
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=28.97 E-value=1.3e+02 Score=20.11 Aligned_cols=24 Identities=21% Similarity=0.256 Sum_probs=18.5
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEe
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
.+...+|+.=.+-|+|||++++..
T Consensus 123 ~~~~~~l~~~~~~LkpgG~lvi~~ 146 (188)
T TIGR00438 123 DLVELALDIAKEVLKPKGNFVVKV 146 (188)
T ss_pred HHHHHHHHHHHHHccCCCEEEEEE
Confidence 355677777777889999999864
No 124
>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=28.80 E-value=37 Score=20.02 Aligned_cols=20 Identities=35% Similarity=0.388 Sum_probs=14.4
Q ss_pred HHHHHHHHhhhhhhhcCceE
Q 034814 21 SDFSAFLKFRSEELKCGGRM 40 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~m 40 (82)
+|+..+|+.=.+=|+|||++
T Consensus 80 ~~~~~~l~~~~~~L~pgG~l 99 (99)
T PF08242_consen 80 EDIEAVLRNIYRLLKPGGIL 99 (99)
T ss_dssp S-HHHHHHHHTTT-TSS-EE
T ss_pred hhHHHHHHHHHHHcCCCCCC
Confidence 68888888888889999985
No 125
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=28.79 E-value=72 Score=14.75 Aligned_cols=16 Identities=25% Similarity=0.447 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHcCCc
Q 034814 57 EPALLVIKDMISEGSL 72 (82)
Q Consensus 57 ~~l~~al~dmv~eGli 72 (82)
+...+.+++|.+.|+-
T Consensus 18 ~~a~~~~~~M~~~gv~ 33 (34)
T PF13812_consen 18 DAALQLFDEMKEQGVK 33 (34)
T ss_pred HHHHHHHHHHHHhCCC
Confidence 6678888999988863
No 126
>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=28.69 E-value=70 Score=23.67 Aligned_cols=43 Identities=19% Similarity=0.302 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCc---------HHHHHHHH
Q 034814 18 QFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSPG---------EPALLVIK 64 (82)
Q Consensus 18 Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~---------~~l~~al~ 64 (82)
.|++=+.++ +.=|+|||.+|+...-..+.=..++. +.+.+||.
T Consensus 177 ~y~~al~ni----~~lLkpGG~Lil~~~l~~t~Y~vG~~~F~~l~l~ee~v~~al~ 228 (256)
T PF01234_consen 177 EYRRALRNI----SSLLKPGGHLILAGVLGSTYYMVGGHKFPCLPLNEEFVREALE 228 (256)
T ss_dssp HHHHHHHHH----HTTEEEEEEEEEEEESS-SEEEETTEEEE---B-HHHHHHHHH
T ss_pred HHHHHHHHH----HHHcCCCcEEEEEEEcCceeEEECCEecccccCCHHHHHHHHH
Confidence 344444444 44689999999998866443111111 67777776
No 127
>PF14454 Prok_Ub: Prokaryotic Ubiquitin
Probab=28.67 E-value=47 Score=19.89 Aligned_cols=20 Identities=25% Similarity=0.446 Sum_probs=16.9
Q ss_pred CCCCCChHHHHHHHHHHHHH
Q 034814 2 PKEPMSEFDVHRAYLDQFKS 21 (82)
Q Consensus 2 ~~~~~s~~~V~~AY~~Qf~~ 21 (82)
|-++-||++|.+-|+.|+-+
T Consensus 20 P~p~~spe~V~~~ya~~YPe 39 (65)
T PF14454_consen 20 PNPSLSPEEVRDFYAAQYPE 39 (65)
T ss_pred CCCCCCHHHHHHHHhhhChh
Confidence 66788999999999999754
No 128
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=28.65 E-value=1e+02 Score=22.90 Aligned_cols=25 Identities=20% Similarity=0.230 Sum_probs=18.4
Q ss_pred HHHHHHhhhhhhhcCceEEEEeeec
Q 034814 23 FSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 23 ~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
...||+.=.+-|+|||++++.++..
T Consensus 273 ~~~~l~~~~r~Lk~gG~lv~~~~~~ 297 (329)
T TIGR01177 273 YERSLEEFHEVLKSEGWIVYAVPTR 297 (329)
T ss_pred HHHHHHHHHHHccCCcEEEEEEcCC
Confidence 3556655566799999999988654
No 129
>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=28.24 E-value=51 Score=23.62 Aligned_cols=29 Identities=24% Similarity=0.232 Sum_probs=21.3
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeeecCCC
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLYNDSF 50 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~ 50 (82)
|....|+.=.+=|+|||+++++=.+++..
T Consensus 131 d~~~~l~E~~RVLkPGG~l~ile~~~p~~ 159 (233)
T PF01209_consen 131 DRERALREMYRVLKPGGRLVILEFSKPRN 159 (233)
T ss_dssp SHHHHHHHHHHHEEEEEEEEEEEEEB-SS
T ss_pred CHHHHHHHHHHHcCCCeEEEEeeccCCCC
Confidence 45555655566789999999999888765
No 130
>TIGR00563 rsmB ribosomal RNA small subunit methyltransferase RsmB. The seed alignment is built from bacterial sequences only. Eukaryotic homologs include Nop2, a protein required for processing pre-rRNA, that is likely also a rRNA methyltransferase, although the fine specificity may differ. Cutoff scores are set to avoid treating archaeal and eukaroytic homologs automatically as functionally equivalent, although they may have very similar roles.
Probab=28.14 E-value=2.2e+02 Score=21.97 Aligned_cols=28 Identities=21% Similarity=0.158 Sum_probs=19.4
Q ss_pred HHHHHHHHHHhhhhhhhcCceEEEEeee
Q 034814 19 FKSDFSAFLKFRSEELKCGGRMILTLLY 46 (82)
Q Consensus 19 f~~D~~~FL~~Ra~ELv~GG~mvl~~~g 46 (82)
..+.-..+|+.=++=|+|||+||.+...
T Consensus 343 l~~lQ~~lL~~a~~~LkpgG~lvystcs 370 (426)
T TIGR00563 343 LAELQSEILDAIWPLLKTGGTLVYATCS 370 (426)
T ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEeCC
Confidence 3334455666656679999999988744
No 131
>PF13260 DUF4051: Protein of unknown function (DUF4051)
Probab=27.98 E-value=1.2e+02 Score=17.54 Aligned_cols=27 Identities=26% Similarity=0.486 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhcCc
Q 034814 12 HRAYLDQFKSDFSAFLKFRSEELKCGG 38 (82)
Q Consensus 12 ~~AY~~Qf~~D~~~FL~~Ra~ELv~GG 38 (82)
.|-|-+-|++|-...|.+|.+-+...|
T Consensus 22 mkrycrafrqdrdallear~kl~~r~~ 48 (54)
T PF13260_consen 22 MKRYCRAFRQDRDALLEARNKLFRRSG 48 (54)
T ss_pred HHHHHHHHhhhHHHHHHHHHHHHhccc
Confidence 477899999999999999988765443
No 132
>smart00335 ANX Annexin repeats.
Probab=27.96 E-value=57 Score=17.40 Aligned_cols=21 Identities=19% Similarity=0.347 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 034814 9 FDVHRAYLDQFKSDFSAFLKF 29 (82)
Q Consensus 9 ~~V~~AY~~Qf~~D~~~FL~~ 29 (82)
..+.++|.+.+.+|+..-++.
T Consensus 20 ~~i~~~Y~~~~~~~L~~~i~~ 40 (53)
T smart00335 20 QAIKQAYKKRYGKDLEDDIKS 40 (53)
T ss_pred HHHHHHHHHHhCccHHHHHHH
Confidence 458899999999999887764
No 133
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=27.69 E-value=1.9e+02 Score=20.63 Aligned_cols=39 Identities=23% Similarity=0.306 Sum_probs=28.9
Q ss_pred HHHHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCC
Q 034814 24 SAFLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGS 71 (82)
Q Consensus 24 ~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGl 71 (82)
...|+.=.+=|+|||++|+...-. +.+..++..|.+-|.
T Consensus 115 ~~ile~~~~~l~~ggrlV~naitl---------E~~~~a~~~~~~~g~ 153 (187)
T COG2242 115 EEILEAAWERLKPGGRLVANAITL---------ETLAKALEALEQLGG 153 (187)
T ss_pred HHHHHHHHHHcCcCCeEEEEeecH---------HHHHHHHHHHHHcCC
Confidence 344555556689999999887543 577888888888887
No 134
>TIGR00452 methyltransferase, putative. Known examples to date are restricted to the proteobacteria.
Probab=27.36 E-value=70 Score=24.18 Aligned_cols=27 Identities=22% Similarity=0.186 Sum_probs=21.3
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
.|-..+|+.=.+=|+|||.+|+..+..
T Consensus 202 ~dp~~~L~el~r~LkpGG~Lvletl~i 228 (314)
T TIGR00452 202 KSPLEHLKQLKHQLVIKGELVLETLVI 228 (314)
T ss_pred CCHHHHHHHHHHhcCCCCEEEEEEEEe
Confidence 456677777778899999999987654
No 135
>PRK02301 putative deoxyhypusine synthase; Provisional
Probab=27.15 E-value=99 Score=23.78 Aligned_cols=33 Identities=12% Similarity=0.078 Sum_probs=24.7
Q ss_pred cCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc
Q 034814 36 CGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL 74 (82)
Q Consensus 36 ~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~ 74 (82)
.++.++|++.|--.. .=+..++.+|++.|+|+-
T Consensus 56 ~~~~ifL~~tg~mvs------aGlr~ii~~Li~~~~VD~ 88 (316)
T PRK02301 56 DDVTKFFGLAGAMVP------AGMRGIVSDLIRDGHIDV 88 (316)
T ss_pred CCCeEEEEcccchhH------HHHHHHHHHHHHcCCeeE
Confidence 788998888663211 246899999999999864
No 136
>PRK13918 CRP/FNR family transcriptional regulator; Provisional
Probab=27.13 E-value=54 Score=21.78 Aligned_cols=18 Identities=28% Similarity=0.353 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
+.++.+|++|.++|+|+.
T Consensus 164 etvsR~l~~l~~~g~I~~ 181 (202)
T PRK13918 164 ETVTKVIGELSREGYIRS 181 (202)
T ss_pred HHHHHHHHHHHHCCCEEc
Confidence 789999999999999975
No 137
>PF03297 Ribosomal_S25: S25 ribosomal protein; InterPro: IPR004977 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 [, ]. The S25 ribosomal protein is a component of the 40S ribosomal subunit.; PDB: 2XZM_8 2XZN_8 3O30_Q 3U5G_Z 3IZB_V 3U5C_Z 3O2Z_Q 3IZ6_V.
Probab=27.04 E-value=51 Score=21.41 Aligned_cols=18 Identities=17% Similarity=0.241 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
.+-..+|.+|..+|+|..
T Consensus 74 SlAr~~Lr~L~~kG~Ik~ 91 (105)
T PF03297_consen 74 SLARKALRELESKGLIKP 91 (105)
T ss_dssp HHHHHHHHHHHHCCSSEE
T ss_pred HHHHHHHHHHHHCCCEEE
Confidence 567889999999999976
No 138
>cd00904 Ferritin Ferritin iron storage proteins. Ferritins are the primary iron storage proteins of most living organisms and members of a broad superfamily of ferritin-like diiron-carboxylate proteins. The iron-free (apoferritin) ferritin molecule is a protein shell composed of 24 protein chains arranged in 432 symmetry. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the dinuclear ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite; the protein shell can hold up to 4500 iron atoms. In vertebrates, two types of chains (subunits) have been characterized, H or M (fast) and L (slow), which differ in rates of iron uptake and mineralization. Bacterial non-heme ferritins are composed only of H chains. Fe(II) oxidation in the H/M subunits take place initially at the ferroxidase center, a carboxylate-bridged diiron center, located within the subunit four-helix bundle. In a complementary rol
Probab=27.00 E-value=2e+02 Score=19.18 Aligned_cols=41 Identities=20% Similarity=0.140 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 8 EFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 8 ~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
-+-..+-|.+|+.+-+.+-.+.-.--+..||+..+.-+..+
T Consensus 36 l~g~a~~f~~~s~eE~~HA~~l~~yi~~rgg~~~l~~i~~~ 76 (160)
T cd00904 36 LKGVAHFFKEQAQEEREHAEKFYKYQNERGGRVELQDIEKP 76 (160)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHCCCccccCcCCCC
Confidence 45567778888888777777777777888999887655544
No 139
>KOG2198 consensus tRNA cytosine-5-methylases and related enzymes of the NOL1/NOP2/sun superfamily [Translation, ribosomal structure and biogenesis]
Probab=26.90 E-value=1.4e+02 Score=23.66 Aligned_cols=37 Identities=19% Similarity=0.272 Sum_probs=24.0
Q ss_pred HHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHH
Q 034814 27 LKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDM 66 (82)
Q Consensus 27 L~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dm 66 (82)
|+.=.+=|++||+||-++ ++-.+...+.++..+|+..
T Consensus 279 L~rgl~lLk~GG~lVYST---CSLnpieNEaVV~~~L~~~ 315 (375)
T KOG2198|consen 279 LRRGLRLLKVGGRLVYST---CSLNPIENEAVVQEALQKV 315 (375)
T ss_pred HHHHHHHhcCCCEEEEec---cCCCchhhHHHHHHHHHHh
Confidence 333345678999999887 3444444446777777654
No 140
>PRK10402 DNA-binding transcriptional activator YeiL; Provisional
Probab=26.73 E-value=55 Score=22.62 Aligned_cols=18 Identities=28% Similarity=0.445 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
+.+..+|++|.++|+|+-
T Consensus 184 etvsR~L~~L~~~G~I~~ 201 (226)
T PRK10402 184 RHLLYVLAQFIQDGYLKK 201 (226)
T ss_pred HHHHHHHHHHHHCCCEEe
Confidence 889999999999999975
No 141
>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=26.62 E-value=1e+02 Score=22.59 Aligned_cols=31 Identities=19% Similarity=0.220 Sum_probs=22.1
Q ss_pred HHHHHHHHHhhhhhhhcCceEEEEeeecCCC
Q 034814 20 KSDFSAFLKFRSEELKCGGRMILTLLYNDSF 50 (82)
Q Consensus 20 ~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~ 50 (82)
..|...||+.=++-|.|||++++.+-...+.
T Consensus 153 ~~e~~~~L~~i~~~L~pgG~~lig~d~~~~~ 183 (301)
T TIGR03438 153 PEEAVAFLRRIRQLLGPGGGLLIGVDLVKDP 183 (301)
T ss_pred HHHHHHHHHHHHHhcCCCCEEEEeccCCCCH
Confidence 3456677776667799999999877655443
No 142
>COG4123 Predicted O-methyltransferase [General function prediction only]
Probab=26.47 E-value=74 Score=23.59 Aligned_cols=38 Identities=18% Similarity=0.293 Sum_probs=32.2
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEe
Q 034814 7 SEFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 7 s~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
++....+-.+-+..-++..|++.=++=|++||.+.++.
T Consensus 133 ~~~~~~~~Ar~e~~~~le~~i~~a~~~lk~~G~l~~V~ 170 (248)
T COG4123 133 NENPLRAIARHEITLDLEDLIRAAAKLLKPGGRLAFVH 170 (248)
T ss_pred CcChhhhhhhhhhcCCHHHHHHHHHHHccCCCEEEEEe
Confidence 35556677777888899999999999999999998876
No 143
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=26.37 E-value=26 Score=25.69 Aligned_cols=49 Identities=22% Similarity=0.109 Sum_probs=34.6
Q ss_pred CCCCCChHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCC
Q 034814 2 PKEPMSEFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSF 50 (82)
Q Consensus 2 ~~~~~s~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~ 50 (82)
|-+..|=+.|.-+|.=|.-.|....|+-=.+=|+|||++++.=++++..
T Consensus 114 Pf~D~sFD~vt~~fglrnv~d~~~aL~E~~RVlKpgG~~~vle~~~p~~ 162 (238)
T COG2226 114 PFPDNSFDAVTISFGLRNVTDIDKALKEMYRVLKPGGRLLVLEFSKPDN 162 (238)
T ss_pred CCCCCccCEEEeeehhhcCCCHHHHHHHHHHhhcCCeEEEEEEcCCCCc
Confidence 3344444445555665656677788888788899999999988887655
No 144
>COG1733 Predicted transcriptional regulators [Transcription]
Probab=26.35 E-value=55 Score=21.35 Aligned_cols=18 Identities=11% Similarity=0.137 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..|.+-|++|++.|+|..
T Consensus 52 k~Ls~~Lk~Le~~Glv~R 69 (120)
T COG1733 52 KMLSRRLKELEEDGLVER 69 (120)
T ss_pred HHHHHHHHHHHHCCCEEe
Confidence 689999999999999988
No 145
>PF14183 YwpF: YwpF-like protein
Probab=26.25 E-value=99 Score=21.07 Aligned_cols=18 Identities=22% Similarity=0.327 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
+..+..|.+|++||+--+
T Consensus 108 ~~aE~lLe~Lv~eG~~Ge 125 (135)
T PF14183_consen 108 DYAESLLEDLVDEGLSGE 125 (135)
T ss_pred HHHHHHHHHHHHcccChH
Confidence 788999999999998654
No 146
>cd07626 BAR_SNX9_like The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 9 and Similar Proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX9, SNX18, SNX33, and similar proteins. SNX9 is localized to plasma membrane endocytic sites and acts primarily in clathrin-mediated endocytosis, while SNX18 is localized to peripheral endosomal structures, and acts in a trafficking pathway that is clathrin-independent but relies on AP-1 and PACS1. BAR domains for
Probab=26.17 E-value=84 Score=22.44 Aligned_cols=20 Identities=20% Similarity=0.333 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 034814 9 FDVHRAYLDQFKSDFSAFLK 28 (82)
Q Consensus 9 ~~V~~AY~~Qf~~D~~~FL~ 28 (82)
..+.+.|.+|.++||..|..
T Consensus 79 e~Ig~l~~eQa~~D~~~l~E 98 (199)
T cd07626 79 EEIGELFAEQPKHDLIPLLD 98 (199)
T ss_pred HHHHHHHHHhhHhhHHHHHH
Confidence 45788999999999988765
No 147
>PRK11088 rrmA 23S rRNA methyltransferase A; Provisional
Probab=26.11 E-value=49 Score=23.73 Aligned_cols=16 Identities=25% Similarity=0.148 Sum_probs=12.8
Q ss_pred hhhhcCceEEEEeeec
Q 034814 32 EELKCGGRMILTLLYN 47 (82)
Q Consensus 32 ~ELv~GG~mvl~~~gr 47 (82)
+-|+|||+++++.++.
T Consensus 169 rvLkpgG~li~~~p~~ 184 (272)
T PRK11088 169 RVVKPGGIVITVTPGP 184 (272)
T ss_pred hhccCCCEEEEEeCCC
Confidence 3588999999987664
No 148
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=26.04 E-value=46 Score=23.14 Aligned_cols=12 Identities=42% Similarity=0.794 Sum_probs=10.1
Q ss_pred hhhcCceEEEEe
Q 034814 33 ELKCGGRMILTL 44 (82)
Q Consensus 33 ELv~GG~mvl~~ 44 (82)
-|+|||+|++..
T Consensus 165 ~LkpgG~lvi~~ 176 (212)
T PRK13942 165 QLKDGGIMVIPV 176 (212)
T ss_pred hhCCCcEEEEEE
Confidence 489999998865
No 149
>PF02295 z-alpha: Adenosine deaminase z-alpha domain; InterPro: IPR000607 Double-stranded RNA-specific adenosine deaminase (3.5 from EC) converts multiple adenosines to inosines and creates I/U mismatched base pairs in double-helical RNA substrates without apparent sequence specificity. DRADA has been found to modify adenosines in AU-rich regions more frequently, probably due to the relative ease of melting A/U base pairs compared to G/C base pairs. The protein functions to modify viral RNA genomes, and may be responsible for hypermutation of certain negative-stranded viruses. DRADA edits the mRNAs for the glutamate receptor subunits by site-selective adenosine deamination. The DRADA repeat is also found in viral E3 proteins, which contain a double-stranded RNA-binding domain.; GO: 0003723 RNA binding, 0003726 double-stranded RNA adenosine deaminase activity; PDB: 1OYI_A 3EYI_A 2L4M_A 2HEO_D 1J75_A 1SFU_B 3IRR_B 2ACJ_C 3F22_B 2L54_A ....
Probab=25.91 E-value=55 Score=19.24 Aligned_cols=24 Identities=8% Similarity=0.030 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHcCCccc-ccccCC
Q 034814 57 EPALLVIKDMISEGSLSL-SFNTYQ 80 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~-sFn~P~ 80 (82)
--++..|-+|..+|.|.. +-+.|.
T Consensus 35 k~VN~~LY~L~k~g~v~k~~~~PP~ 59 (66)
T PF02295_consen 35 KEVNRVLYRLEKQGKVCKEGGTPPK 59 (66)
T ss_dssp HHHHHHHHHHHHTTSEEEECSSSTE
T ss_pred HHHHHHHHHHHHCCCEeeCCCCCCc
Confidence 357899999999999987 666664
No 150
>PRK13245 hetR heterocyst differentiation control protein; Reviewed
Probab=25.88 E-value=72 Score=24.12 Aligned_cols=47 Identities=17% Similarity=0.143 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCC-----ccc---ccccCCC
Q 034814 18 QFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGS-----LSL---SFNTYQK 81 (82)
Q Consensus 18 Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGl-----i~~---sFn~P~y 81 (82)
|| -++-.||+.||+|=-|+-+ .-.|+.||.+-++.-| +.. -+-+|+|
T Consensus 154 qF-~eLiefLh~rsQed~p~~r----------------rmpLSeAlaEHIkRRLlysgTVtrid~pwGmPfY 208 (299)
T PRK13245 154 EF-LELIEFLHKRSQEDLPPEH----------------RMPLSEALAEHIKRRLLYSGTVTRIDSPWGMPFY 208 (299)
T ss_pred HH-HHHHHHHHHhhhhcCChhc----------------cCchHHHHHHHHHHHHhhccceeeccCCCCCchh
Confidence 44 4688999999999555422 0235666666665544 433 5677776
No 151
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=25.88 E-value=70 Score=17.42 Aligned_cols=18 Identities=28% Similarity=0.361 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+...++.|+++|+|..
T Consensus 40 ~tv~r~l~~L~~~g~i~~ 57 (67)
T cd00092 40 ETVSRTLKELEEEGLISR 57 (67)
T ss_pred HHHHHHHHHHHHCCCEEe
Confidence 678999999999999975
No 152
>PF09681 Phage_rep_org_N: N-terminal phage replisome organiser (Phage_rep_org_N); InterPro: IPR010056 This entry is represented by the N-terminal domain of Bacteriophage A500, Gp45. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The proteins in this entry contains a region of low-complexity sequence that reflects DNA direct repeats able to function as an origin of phage replication. The low-complexity region is adjacent to this N-terminal domain.
Probab=25.60 E-value=1.4e+02 Score=19.67 Aligned_cols=49 Identities=14% Similarity=0.158 Sum_probs=33.6
Q ss_pred HHhhhhhhhcCceEEEEeeecCCCCCCCC---------c-HHHHHHHHHHHHcCCccc----ccccCC
Q 034814 27 LKFRSEELKCGGRMILTLLYNDSFHATSP---------G-EPALLVIKDMISEGSLSL----SFNTYQ 80 (82)
Q Consensus 27 L~~Ra~ELv~GG~mvl~~~gr~~~~~~~~---------~-~~l~~al~dmv~eGli~~----sFn~P~ 80 (82)
|-..|-.+..+|.+++. ...|+.. . +.+..||.-+.+-|+|+. .+.+|.
T Consensus 33 Llllsgk~n~~G~L~~~-----~~ipy~~e~LA~~~~~~~~~V~~AL~~f~k~glIe~~ed~~i~i~~ 95 (121)
T PF09681_consen 33 LLLLSGKLNDEGKLYLS-----GNIPYTAEMLALEFDRPVDTVRLALAVFQKLGLIEIDEDGVIYIPN 95 (121)
T ss_pred HHHHhcccCCCCEEEEC-----CCCCCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEecCCeEEeec
Confidence 33455558899997774 2223321 1 889999999999999976 566554
No 153
>PF03291 Pox_MCEL: mRNA capping enzyme; InterPro: IPR004971 This is a family of viral mRNA capping enzymes. The enzyme catalyses the first two reactions in the mRNA cap formation pathway. It is a heterodimer consisting of a large and small subunit. This entry is the large subunit. ; GO: 0006370 mRNA capping; PDB: 3EPP_A 3BGV_C 2VDW_C 1RI5_A 1RI3_A 1RI1_A 1Z3C_A 1RI2_A 2HV9_A 1RI4_A.
Probab=25.51 E-value=72 Score=24.30 Aligned_cols=27 Identities=37% Similarity=0.253 Sum_probs=21.9
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
.-...||+.=++=|+|||.++-|++..
T Consensus 163 ~~ar~~l~Nvs~~Lk~GG~FIgT~~d~ 189 (331)
T PF03291_consen 163 EKARQFLKNVSSLLKPGGYFIGTTPDS 189 (331)
T ss_dssp HHHHHHHHHHHHTEEEEEEEEEEEE-H
T ss_pred HHHHHHHHHHHHhcCCCCEEEEEecCH
Confidence 345678888899999999999999753
No 154
>PF13041 PPR_2: PPR repeat family
Probab=25.49 E-value=61 Score=16.95 Aligned_cols=22 Identities=32% Similarity=0.421 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHcCCccc--cccc
Q 034814 57 EPALLVIKDMISEGSLSL--SFNT 78 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~--sFn~ 78 (82)
+-..+.+++|.+.|+-.. +||+
T Consensus 20 ~~a~~l~~~M~~~g~~P~~~Ty~~ 43 (50)
T PF13041_consen 20 EEALKLFKEMKKRGIKPDSYTYNI 43 (50)
T ss_pred HHHHHHHHHHHHcCCCCCHHHHHH
Confidence 456677888998888766 5553
No 155
>TIGR00321 dhys deoxyhypusine synthase. This family of apparent orthologs has an unusual UPGMA difference tree, in which the members from the archaea M. jannaschii and P. horikoshii cluster with the known eukaryotic deoxyhypusine synthases. Separated by a fairly deep branch, although still strongly related, is a small cluster of proteins from Methanobacterium thermoautotrophicum and Archeoglobus fulgidus, the latter of which has two.
Probab=25.37 E-value=1.3e+02 Score=23.02 Aligned_cols=33 Identities=12% Similarity=-0.018 Sum_probs=24.3
Q ss_pred cCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc
Q 034814 36 CGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL 74 (82)
Q Consensus 36 ~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~ 74 (82)
+++.++|++.|-=.. .=+...+.+|+++|+|+-
T Consensus 44 ~~~~ifLt~tg~mvs------aGlr~ii~~Li~~g~Vd~ 76 (301)
T TIGR00321 44 EEITIFMGYAGNLVP------SGMREIIAYLIQHGMIDA 76 (301)
T ss_pred CCCeEEEEeccccch------hhHHHHHHHHHHcCCeeE
Confidence 678998888663211 236788999999999864
No 156
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=25.29 E-value=69 Score=17.60 Aligned_cols=18 Identities=17% Similarity=0.239 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+..+++.|+..|+|+.
T Consensus 33 ~~vs~~i~~L~~~glv~~ 50 (68)
T PF13463_consen 33 STVSRIIKKLEEKGLVEK 50 (68)
T ss_dssp HHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHCCCEEe
Confidence 578899999999999965
No 157
>PRK14967 putative methyltransferase; Provisional
Probab=25.13 E-value=1.4e+02 Score=20.70 Aligned_cols=26 Identities=15% Similarity=0.110 Sum_probs=18.8
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
++..|++.=.+=|++||++++.....
T Consensus 137 ~~~~~l~~a~~~Lk~gG~l~~~~~~~ 162 (223)
T PRK14967 137 VLDRLCDAAPALLAPGGSLLLVQSEL 162 (223)
T ss_pred HHHHHHHHHHHhcCCCcEEEEEEecc
Confidence 45667765566799999998876544
No 158
>PF03551 PadR: Transcriptional regulator PadR-like family; InterPro: IPR005149 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response [].; PDB: 1XMA_B 2ESH_A 2DQL_B 3L9F_C 3ELK_B 4EJO_B 3L7W_A 3HHH_A 1YG2_A 3F8B_A ....
Probab=25.06 E-value=72 Score=18.38 Aligned_cols=18 Identities=17% Similarity=0.209 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+-.+|..|+++|+|+.
T Consensus 32 g~lY~~L~~Le~~gli~~ 49 (75)
T PF03551_consen 32 GSLYPALKRLEEEGLIES 49 (75)
T ss_dssp HHHHHHHHHHHHTTSEEE
T ss_pred hHHHHHHHHHHhCCCEEE
Confidence 688999999999999976
No 159
>COG2521 Predicted archaeal methyltransferase [General function prediction only]
Probab=24.78 E-value=78 Score=24.12 Aligned_cols=48 Identities=19% Similarity=0.174 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhcCceEEEEe--eecCCCCCCCCcHHHHHHHHHHHHcCC
Q 034814 13 RAYLDQFKSDFSAFLKFRSEELKCGGRMILTL--LYNDSFHATSPGEPALLVIKDMISEGS 71 (82)
Q Consensus 13 ~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~--~gr~~~~~~~~~~~l~~al~dmv~eGl 71 (82)
+.|+..|-+.|.+.| +|||+|+=.. +|.... +-|+...+..-|.+-|.
T Consensus 221 eLYseefY~El~RiL-------krgGrlFHYvG~Pg~ryr----G~d~~~gVa~RLr~vGF 270 (287)
T COG2521 221 ELYSEEFYRELYRIL-------KRGGRLFHYVGNPGKRYR----GLDLPKGVAERLRRVGF 270 (287)
T ss_pred hHhHHHHHHHHHHHc-------CcCCcEEEEeCCCCcccc----cCChhHHHHHHHHhcCc
Confidence 788888888886655 5999996443 232222 12444555555555554
No 160
>COG0176 MipB Transaldolase [Carbohydrate transport and metabolism]
Probab=24.78 E-value=92 Score=23.09 Aligned_cols=25 Identities=24% Similarity=0.336 Sum_probs=19.0
Q ss_pred CChHHHHHHHHHH---------------HHHHHHHHHHhh
Q 034814 6 MSEFDVHRAYLDQ---------------FKSDFSAFLKFR 30 (82)
Q Consensus 6 ~s~~~V~~AY~~Q---------------f~~D~~~FL~~R 30 (82)
|-|+.+.+++.++ |.+||...++..
T Consensus 198 Tip~~~l~~l~~~~~~~~~~l~~eGI~~F~~D~~~l~~~~ 237 (239)
T COG0176 198 TIPPDLLKQLLKHGGAMAVPLLDEGIRKFAKDWEKLLKSL 237 (239)
T ss_pred cCCHHHHHHHHhcccccccHHHHHHHHHHHHHHHHHHHhh
Confidence 5677777777764 999999887754
No 161
>PF09639 YjcQ: YjcQ protein; InterPro: IPR018597 YjcQ is a protein of approx. 100 residues containing four alpha helices and three beta strands. It is found in bacteria and also in the Lactococcus phage Tuc2009. In bacteria it appears to be under the regulation of SigD RNA polymerase which is responsible for the expression of many genes encoding cell-surface proteins related to flagellar assembly, motility, chemotaxis and autolysis in the late exponential growth phase. The exact function of YjcQ is unknown []. However, it is thought to be the major head protein in viruses [] and is found in prophage in bacteria. ; PDB: 2HGC_A.
Probab=24.04 E-value=68 Score=19.66 Aligned_cols=18 Identities=11% Similarity=0.025 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
+-+.+++..|+++|+|..
T Consensus 25 ~~~~~il~~L~d~GyI~G 42 (88)
T PF09639_consen 25 SYWSDILRMLQDEGYIKG 42 (88)
T ss_dssp HHHHHHHHHHHHHTSEE-
T ss_pred HHHHHHHHHHHHCCCccc
Confidence 678999999999999975
No 162
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=24.03 E-value=73 Score=16.52 Aligned_cols=18 Identities=11% Similarity=0.111 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+...++.|+++|+|..
T Consensus 25 ~~v~~~l~~L~~~g~i~~ 42 (66)
T smart00418 25 STVSHHLKKLREAGLVES 42 (66)
T ss_pred HHHHHHHHHHHHCCCeee
Confidence 578999999999999975
No 163
>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=23.66 E-value=2.7e+02 Score=19.56 Aligned_cols=26 Identities=23% Similarity=0.171 Sum_probs=18.0
Q ss_pred HHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 23 FSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 23 ~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
...+++.=.+=|+|||++++..+...
T Consensus 131 R~~~~~~l~~lLkpgG~~ll~~~~~~ 156 (213)
T TIGR03840 131 RQRYAAHLLALLPPGARQLLITLDYD 156 (213)
T ss_pred HHHHHHHHHHHcCCCCeEEEEEEEcC
Confidence 34566666677899998777766553
No 164
>PF00191 Annexin: Annexin; InterPro: IPR018502 The annexins (or lipocortins) are a family of proteins that bind to phospholipids in a calcium-dependent manner []. They are distributed ubiquitously in different tissues and cell types of higher and lower eukaryotes, including mammals, fish, birds, Drosophila melanogaster (Fruit fly), Xenopus laevis (African clawed frog), Caenorhabditis elegans , Dictyostelium discoideum (Slime mold) and Neurospora crassa [, ]. Annexins are absent from yeasts and prokaryotes []. The plant annexins are somewhat distinct from those found in other taxa []. Most eukaryotic species have 1-20 annexin (ANX) genes. All annexins share a core domain made up of four similar repeats, each approximately 70 amino acids long []. Each individual annexin repeat (sometimes referred to as endonexin folds) is folded into five alpha-helices, and in turn are wound into a right-handed super-helix; they usually contain a characteristic 'type 2' motif for binding calcium ions with the sequence 'GxGT-[38 residues]-D/E'. Animal and fungal annexins also have variable amino-terminal domains. The core domains of most vertebrate annexins have been analysed by X-ray crystallography, revealing conservation of their secondary and tertiary structures despite only 45-55% amino-acid identity among individual members. The four repeats pack into a structure that resembles a flattened disc, with a slightly convex surface on which the Ca 2+ -binding loops are located and a concave surface at which the amino and carboxyl termini come into close apposition. Annexins are traditionally thought of as calcium-dependent phospholipid-binding proteins, but recent work suggests a more complex set of functions. The famiy has been linked with inhibition of phospholipase activity, exocytosis and endoctyosis, signal transduction, organisation of the extracellular matrix, resistance to reactive oxygen species and DNA replication [].; GO: 0005509 calcium ion binding, 0005544 calcium-dependent phospholipid binding; PDB: 1N44_A 1BC1_A 2IE6_A 2H0M_A 1A8B_A 2H0K_A 1BCW_A 1BCZ_A 1N42_A 1BC0_A ....
Probab=23.52 E-value=65 Score=17.84 Aligned_cols=19 Identities=21% Similarity=0.483 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 034814 10 DVHRAYLDQFKSDFSAFLK 28 (82)
Q Consensus 10 ~V~~AY~~Qf~~D~~~FL~ 28 (82)
.+.++|.+++.+|+..-++
T Consensus 34 ~i~~~Y~~~~g~~L~~~i~ 52 (66)
T PF00191_consen 34 AIKQAYKKKYGKDLEEDIK 52 (66)
T ss_dssp HHHHHHHHHHSS-HHHHHH
T ss_pred eeehhhhhhhHHHHHHHHH
Confidence 5889999999999987776
No 165
>COG2519 GCD14 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]
Probab=23.49 E-value=2.2e+02 Score=21.43 Aligned_cols=41 Identities=20% Similarity=0.259 Sum_probs=28.3
Q ss_pred HHHHhhhhhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc
Q 034814 25 AFLKFRSEELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL 74 (82)
Q Consensus 25 ~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~ 74 (82)
+.|..=++.|+|||..++..+.- +.+...+..|.+.|.++-
T Consensus 176 ~~le~~~~~Lkpgg~~~~y~P~v---------eQv~kt~~~l~~~g~~~i 216 (256)
T COG2519 176 NVLEHVSDALKPGGVVVVYSPTV---------EQVEKTVEALRERGFVDI 216 (256)
T ss_pred HHHHHHHHHhCCCcEEEEEcCCH---------HHHHHHHHHHHhcCccch
Confidence 35566678899999998887554 456666666666666543
No 166
>PRK15022 ferritin-like protein; Provisional
Probab=23.44 E-value=2.6e+02 Score=19.35 Aligned_cols=41 Identities=10% Similarity=0.037 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCC
Q 034814 11 VHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFH 51 (82)
Q Consensus 11 V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~ 51 (82)
..+-|..|+++-..+-.+.-.==...||+.++.-+..+..+
T Consensus 39 fA~ff~~qa~EEreHA~k~~~yl~~rGg~v~l~~I~~P~~~ 79 (167)
T PRK15022 39 TATFLRAQAQSNVTQMMRMFNFMKSAGATPIVKAIDVPGEK 79 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCceeeCCCCCCccc
Confidence 44445555544433333222222456899888877766543
No 167
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=23.43 E-value=2.4e+02 Score=21.84 Aligned_cols=26 Identities=19% Similarity=0.243 Sum_probs=19.0
Q ss_pred HHHHHHHHHHhhhhhhhcCceEEEEe
Q 034814 19 FKSDFSAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 19 f~~D~~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
+.+.-..+|+.=++=|+|||+||.+.
T Consensus 359 l~~~Q~~iL~~a~~~lkpgG~lvyst 384 (434)
T PRK14901 359 LAPLQAELLESLAPLLKPGGTLVYAT 384 (434)
T ss_pred HHHHHHHHHHHHHHhcCCCCEEEEEe
Confidence 44444666777677789999998766
No 168
>PF02334 RTP: Replication terminator protein; InterPro: IPR003432 The bacterial replication terminator protein (RTP) plays a role in the termination of DNA replication by impeding replication fork movement. Two RTP dimers bind to the two inverted repeat regions at the termination site.; GO: 0003677 DNA binding, 0006274 DNA replication termination; PDB: 2DPU_A 2DPD_A 1F4K_A 1J0R_B 2EFW_F 2DQR_B 1BM9_B.
Probab=23.36 E-value=61 Score=21.79 Aligned_cols=18 Identities=11% Similarity=0.375 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
.-+=.||.||+.+|++.+
T Consensus 55 sEvYraLHeL~~dGilk~ 72 (122)
T PF02334_consen 55 SEVYRALHELVDDGILKQ 72 (122)
T ss_dssp HHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHhhhHHHH
Confidence 567889999999999844
No 169
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=23.29 E-value=54 Score=22.58 Aligned_cols=12 Identities=33% Similarity=0.764 Sum_probs=10.1
Q ss_pred hhhcCceEEEEe
Q 034814 33 ELKCGGRMILTL 44 (82)
Q Consensus 33 ELv~GG~mvl~~ 44 (82)
-|+|||+|++.+
T Consensus 162 ~L~~gG~lvi~~ 173 (205)
T PRK13944 162 QLKDGGVLVIPV 173 (205)
T ss_pred hcCcCcEEEEEE
Confidence 489999998865
No 170
>TIGR03738 PRTRC_C PRTRC system protein C. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated PRTRC system protein C.
Probab=23.29 E-value=54 Score=19.83 Aligned_cols=19 Identities=32% Similarity=0.431 Sum_probs=15.8
Q ss_pred CCCCCChHHHHHHHHHHHH
Q 034814 2 PKEPMSEFDVHRAYLDQFK 20 (82)
Q Consensus 2 ~~~~~s~~~V~~AY~~Qf~ 20 (82)
|-++-||.+|..-|+.|+-
T Consensus 19 P~p~~spe~V~dfYs~~YP 37 (66)
T TIGR03738 19 PSPAMSPEQVRDFYSAQYP 37 (66)
T ss_pred CCCCCCHHHHHHHHhccCc
Confidence 5577899999999998864
No 171
>PHA02053 hypothetical protein
Probab=23.29 E-value=85 Score=20.72 Aligned_cols=17 Identities=24% Similarity=0.493 Sum_probs=14.3
Q ss_pred CCCCCCChHHHHHHHHH
Q 034814 1 MPKEPMSEFDVHRAYLD 17 (82)
Q Consensus 1 ~~~~~~s~~~V~~AY~~ 17 (82)
||...+++.+..+||++
T Consensus 63 mP~D~~ta~~F~kayR~ 79 (115)
T PHA02053 63 MPIDANTATEFQKAYRS 79 (115)
T ss_pred CCCCCCCHHHHHHHHHh
Confidence 78888889988888864
No 172
>PF03445 DUF294: Putative nucleotidyltransferase DUF294; InterPro: IPR005105 This domain is found associated with an N-terminal cyclic nucleotide-binding domain (IPR000595 from INTERPRO) and two CBS domains (IPR000644 from INTERPRO). This domain, normally represents the C-terminal region, is uncharacterised; however, it seems to be similar to the nucleotidyltransferase domain (IPR002934 from INTERPRO), conserving the DXD motif, which strongly suggests that proteins containing this domain are also nucleotidyltransferases.; GO: 0008773 [protein-PII] uridylyltransferase activity
Probab=23.29 E-value=93 Score=20.43 Aligned_cols=33 Identities=24% Similarity=0.240 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEE
Q 034814 9 FDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMI 41 (82)
Q Consensus 9 ~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mv 41 (82)
.+..++|..+|.+-+...|..=.-...+||.|.
T Consensus 80 ~~~~~~~f~~~a~~~~~~L~~~G~~~C~g~vma 112 (138)
T PF03445_consen 80 SEEDRAYFEAFAERLVDALDECGFPPCPGGVMA 112 (138)
T ss_pred chhHHHHHHHHHHHHHHHHHHcCCCCCCCCcCc
Confidence 456789999999999999987777778888874
No 173
>cd08061 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein localization-4 (Npl4) domain. Npl4p (nuclear protein localization-4) is identical to Hmg-CoA reductase degradation 4 (HRD4) protein and contains a domain that is part of the pfam clan MPN/Mov34-like. Npl4 plays an intermediate role between endoplasmic reticulum-associated degradation (ERAD) substrate ubiquitylation and proteasomal degradation. Npl4p associates with Cdc48p (Cdc48 in yeast and p97 or valosin-containing protein (VCP) in higher eukaryotes), the highly conserved ATPase of the AAA family, via ubiquitin fusion degradation-1 protein (Ufd1p) to form a Cdc48p-Ufd1p-Npl4p complex which then functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=23.11 E-value=1.9e+02 Score=21.63 Aligned_cols=58 Identities=17% Similarity=0.068 Sum_probs=35.6
Q ss_pred ChHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCC-CcHHHHHHHHHHHHcCCccc
Q 034814 7 SEFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATS-PGEPALLVIKDMISEGSLSL 74 (82)
Q Consensus 7 s~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~-~~~~l~~al~dmv~eGli~~ 74 (82)
|..+|.-|..-|.+. ..-..|-+.|...+.-+.++... ..=.+++.-..|+++|+|.+
T Consensus 114 Ss~Evi~aA~~Q~~~----------~~g~~gskFvT~vvs~~~~g~i~~~ayQvSdq~~~lv~~~~i~~ 172 (274)
T cd08061 114 SAEEVILAAKFQLKH----------PTGKFGSKFVTVVVTGDKDGQIHFEAYQVSDQAMALVRDGLLLP 172 (274)
T ss_pred CHHHHHHHHHHhhhc----------ccCCcCCeEEEEEEecCCCCceeeeeeeecHHHHHHHHcCcccc
Confidence 566777777777665 45567777874444433222221 11235666788999999977
No 174
>PLN02823 spermine synthase
Probab=23.06 E-value=2.9e+02 Score=21.08 Aligned_cols=47 Identities=9% Similarity=-0.079 Sum_probs=25.8
Q ss_pred hhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcCCccc--ccccCCC
Q 034814 32 EELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEGSLSL--SFNTYQK 81 (82)
Q Consensus 32 ~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eGli~~--sFn~P~y 81 (82)
+=|.|||.+++.... .......+.+...++.|.+..-.-. ..++|.|
T Consensus 208 ~~L~p~Gvlv~q~~s---~~~~~~~~~~~~i~~tl~~vF~~v~~y~~~vPsf 256 (336)
T PLN02823 208 PKLNPGGIFVTQAGP---AGILTHKEVFSSIYNTLRQVFKYVVPYTAHVPSF 256 (336)
T ss_pred HhcCCCcEEEEeccC---cchhccHHHHHHHHHHHHHhCCCEEEEEeecCCC
Confidence 458899988764321 1111122566677777766543222 5566665
No 175
>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=22.93 E-value=72 Score=23.11 Aligned_cols=26 Identities=23% Similarity=0.290 Sum_probs=20.6
Q ss_pred HHHHHHHHHhhhhhhhcCceEEEEee
Q 034814 20 KSDFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 20 ~~D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
..|+..++..=.+=|.|||.||+--.
T Consensus 122 ~~~L~~~l~~l~~~L~pgG~LV~g~~ 147 (201)
T PF05401_consen 122 AEDLRAALDRLVAALAPGGHLVFGHA 147 (201)
T ss_dssp HHHHHHHHHHHHHTEEEEEEEEEEEE
T ss_pred HHHHHHHHHHHHHHhCCCCEEEEEEe
Confidence 35777888777788999999998654
No 176
>PF09677 TrbI_Ftype: Type-F conjugative transfer system protein (TrbI_Ftype); InterPro: IPR014115 This entry represents TrbI, an essential component of the F-type conjugative transfer system for plasmid DNA transfer that has been shown to be localized to the periplasm [, ].
Probab=22.52 E-value=2.3e+02 Score=18.36 Aligned_cols=40 Identities=18% Similarity=0.012 Sum_probs=30.7
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 5 PMSEFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 5 ~~s~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
+..+|+-.++...+|.+.++.=|...+++ |+.+||.-..-
T Consensus 52 ~~lt~~q~~a~t~~F~~aL~~~L~~~~~~---h~~vILv~~AV 91 (111)
T PF09677_consen 52 SSLTPEQVEALTQRFMQALEASLAEYQAE---HHVVILVSPAV 91 (111)
T ss_pred cCCCHHHHHHHHHHHHHHHHHHHHHHHHc---CCeEEEechHH
Confidence 45678888999999999999999877665 56677765443
No 177
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=22.48 E-value=1.2e+02 Score=21.42 Aligned_cols=25 Identities=24% Similarity=0.372 Sum_probs=18.2
Q ss_pred HHHHHHHhhhhhhhcCceEEEEeee
Q 034814 22 DFSAFLKFRSEELKCGGRMILTLLY 46 (82)
Q Consensus 22 D~~~FL~~Ra~ELv~GG~mvl~~~g 46 (82)
+...+|+.=.+=|+|||.++++-.-
T Consensus 142 ~~~~~l~~i~~~LkpGG~l~l~e~~ 166 (247)
T PRK15451 142 ERQALLDKIYQGLNPGGALVLSEKF 166 (247)
T ss_pred HHHHHHHHHHHhcCCCCEEEEEEec
Confidence 3456666666779999999997533
No 178
>PRK11753 DNA-binding transcriptional dual regulator Crp; Provisional
Probab=22.28 E-value=75 Score=21.17 Aligned_cols=18 Identities=28% Similarity=0.218 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..++.+|++|.++|+|.-
T Consensus 183 ~tvsR~l~~l~~~gii~~ 200 (211)
T PRK11753 183 EMVGRVLKMLEDQGLISA 200 (211)
T ss_pred HHHHHHHHHHHHCCCEEe
Confidence 789999999999999975
No 179
>COG1232 HemY Protoporphyrinogen oxidase [Coenzyme metabolism]
Probab=22.22 E-value=2.5e+02 Score=22.51 Aligned_cols=40 Identities=15% Similarity=0.143 Sum_probs=28.4
Q ss_pred hcCce-EEEEeeecCCCCCCCC---cHHHHHHHHHHHHcCCccc
Q 034814 35 KCGGR-MILTLLYNDSFHATSP---GEPALLVIKDMISEGSLSL 74 (82)
Q Consensus 35 v~GG~-mvl~~~gr~~~~~~~~---~~~l~~al~dmv~eGli~~ 74 (82)
+|.|. ++-..++.+.++.... +++++.++.||.+-+.|..
T Consensus 334 ~p~g~~ll~~~~~~~g~~~~~~~~dee~~~~~l~~L~~~~~~~~ 377 (444)
T COG1232 334 APEGKTLLRVEFGGPGDESVSTMSDEELVAAVLDDLKKLGGING 377 (444)
T ss_pred CCCCcEEEEEEeecCCCcchhccCHHHHHHHHHHHHHHHcCcCc
Confidence 45344 5666666665554432 3899999999999999877
No 180
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=22.05 E-value=59 Score=22.40 Aligned_cols=12 Identities=33% Similarity=0.758 Sum_probs=10.2
Q ss_pred hhhcCceEEEEe
Q 034814 33 ELKCGGRMILTL 44 (82)
Q Consensus 33 ELv~GG~mvl~~ 44 (82)
-|+|||+|++.+
T Consensus 166 ~L~~gG~lv~~~ 177 (215)
T TIGR00080 166 QLKEGGILVMPV 177 (215)
T ss_pred hcCcCcEEEEEE
Confidence 489999999875
No 181
>PF05225 HTH_psq: helix-turn-helix, Psq domain; InterPro: IPR007889 This DNA-binding motif is found in four copies in the pipsqueak protein of Drosophila melanogaster []. In pipsqueak this domain binds to GAGA sequence []. The pipsqueak family, which includes proteins from fungi, sea urchins, nematodes, insects, and vertebrates appear to be proteins essential for sequence-specific targeting of a polycomb group protein complex [].; GO: 0003677 DNA binding; PDB: 2COB_A.
Probab=21.84 E-value=66 Score=17.37 Aligned_cols=22 Identities=14% Similarity=0.181 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHcCCccc-----ccccC
Q 034814 57 EPALLVIKDMISEGSLSL-----SFNTY 79 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~-----sFn~P 79 (82)
+-|..|+.+....+ ++- .||||
T Consensus 3 e~l~~Ai~~v~~g~-~S~r~AA~~ygVp 29 (45)
T PF05225_consen 3 EDLQKAIEAVKNGK-MSIRKAAKKYGVP 29 (45)
T ss_dssp HHHHHHHHHHHTTS-S-HHHHHHHHT--
T ss_pred HHHHHHHHHHHhCC-CCHHHHHHHHCcC
Confidence 46778887777444 554 78887
No 182
>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=21.80 E-value=74 Score=24.32 Aligned_cols=25 Identities=24% Similarity=0.413 Sum_probs=18.9
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEee
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLL 45 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~ 45 (82)
.-+..+|..=.+=|+|||+++++.+
T Consensus 218 ~~L~~~L~~a~~~L~~gGrl~VISF 242 (310)
T PF01795_consen 218 EELERGLEAAPDLLKPGGRLVVISF 242 (310)
T ss_dssp HHHHHHHHHHHHHEEEEEEEEEEES
T ss_pred HHHHHHHHHHHHHhcCCcEEEEEEe
Confidence 4577788877777999999966543
No 183
>TIGR03447 mycothiol_MshC cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase. Members of this protein family are MshC, l-cysteine:1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase, an enzyme that uses ATP to ligate a Cys residue to a mycothiol precursor molecule, in the second to last step in mycothiol biosynthesis. This enzyme shows considerable homology to Cys--tRNA ligases, and many instances are misannotated as such. Mycothiol is found in Mycobacterium tuberculosis, Corynebacterium glutamicum, Streptomyces coelicolor, and various other members of the Actinobacteria. Mycothiol is an analog to glutathione.
Probab=21.73 E-value=2.6e+02 Score=22.22 Aligned_cols=53 Identities=9% Similarity=0.175 Sum_probs=37.8
Q ss_pred CCChHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCC-CCCc-HHHHHHHHHHHHcCCccc
Q 034814 5 PMSEFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHA-TSPG-EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 5 ~~s~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~-~~~~-~~l~~al~dmv~eGli~~ 74 (82)
..++.++.+.|.+.|.+||..+=-. +++..+ .+.. +.+...+..|++.|.+-+
T Consensus 96 g~t~~ela~~y~~~f~~d~~~Lni~-----------------~~d~~~RaTe~i~~ii~~i~~L~~kG~aY~ 150 (411)
T TIGR03447 96 GVDWRELGTSQIDLFREDMEALRVL-----------------PPRDYIGAVESIDEVIEMVEKLLAAGAAYE 150 (411)
T ss_pred CCCHHHHHHHHHHHHHHHHHHcCCC-----------------CCCcccCCCCCHHHHHHHHHHHHHCCCEEe
Confidence 4578899999999999999776210 122222 2222 788899999999999875
No 184
>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=21.67 E-value=72 Score=23.46 Aligned_cols=26 Identities=19% Similarity=0.395 Sum_probs=20.9
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEeee
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTLLY 46 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~~g 46 (82)
.||..||+-=.+=|++||.|.+.=+-
T Consensus 135 Tn~~~fi~EA~RvLK~~G~L~IAEV~ 160 (219)
T PF05148_consen 135 TNWPDFIREANRVLKPGGILKIAEVK 160 (219)
T ss_dssp S-HHHHHHHHHHHEEEEEEEEEEEEG
T ss_pred CCcHHHHHHHHheeccCcEEEEEEec
Confidence 47899999888999999999876443
No 185
>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=21.55 E-value=75 Score=22.51 Aligned_cols=24 Identities=38% Similarity=0.397 Sum_probs=18.0
Q ss_pred HHHHHHHHHHhhhhhhhcCceEEE
Q 034814 19 FKSDFSAFLKFRSEELKCGGRMIL 42 (82)
Q Consensus 19 f~~D~~~FL~~Ra~ELv~GG~mvl 42 (82)
|..|+..-|+.+..+|++|-++|.
T Consensus 133 F~~~l~~~L~~~~~~lk~G~~IIs 156 (205)
T PF08123_consen 133 FDPDLNLALAELLLELKPGARIIS 156 (205)
T ss_dssp T-HHHHHHHHHHHTTS-TT-EEEE
T ss_pred cCHHHHHHHHHHHhcCCCCCEEEE
Confidence 678899999999999999877654
No 186
>smart00518 AP2Ec AP endonuclease family 2. These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites
Probab=21.25 E-value=3e+02 Score=19.27 Aligned_cols=55 Identities=13% Similarity=0.143 Sum_probs=31.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCCCCCCCC-cHHHHHHHHHHHHc
Q 034814 8 EFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDSFHATSP-GEPALLVIKDMISE 69 (82)
Q Consensus 8 ~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~~~~~~~-~~~l~~al~dmv~e 69 (82)
.++++++-.+.+++-+ -.|++| |...|++..|......... .+.+.++|.+++++
T Consensus 75 d~~~r~~~~~~l~~~i-----~~A~~l--Ga~~vv~h~g~~~~~~~e~~~~~~~~~l~~l~~~ 130 (273)
T smart00518 75 DKEKVEKSIERLIDEI-----KRCEEL--GIKALVFHPGSYLKQSKEEALNRIIESLNEVIDE 130 (273)
T ss_pred CHHHHHHHHHHHHHHH-----HHHHHc--CCCEEEEccccccCCCHHHHHHHHHHHHHHHHhc
Confidence 4566666566665555 346666 6666677777532111111 15677788888764
No 187
>TIGR01983 UbiG ubiquinone biosynthesis O-methyltransferase. This model represents an O-methyltransferase believed to act at two points in the ubiquinone biosynthetic pathway in bacteria (UbiG) and fungi (COQ3). A separate methylase (MenG/UbiE) catalyzes the single C-methylation step. The most commonly used names for genes in this family do not indicate whether this gene is an O-methyl, or C-methyl transferase.
Probab=20.84 E-value=1.1e+02 Score=20.59 Aligned_cols=28 Identities=25% Similarity=0.392 Sum_probs=21.3
Q ss_pred HHHHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 20 KSDFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 20 ~~D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
..|...+|+.-.+=|.+||.+++....+
T Consensus 125 ~~~~~~~l~~~~~~L~~gG~l~i~~~~~ 152 (224)
T TIGR01983 125 VPDPQAFIRACAQLLKPGGILFFSTINR 152 (224)
T ss_pred CCCHHHHHHHHHHhcCCCcEEEEEecCC
Confidence 3466778887778899999998876543
No 188
>PF04326 AAA_4: Divergent AAA domain; InterPro: IPR007421 AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate. This entry is related to IPR003959 from INTERPRO, and presumably has the same function (ATP-binding). A number of the archaeal members of this group are annotated as ATP-dependent DNA helicases 3.6.1 from EC.; GO: 0005524 ATP binding; PDB: 2KYY_A 3LMM_D.
Probab=20.82 E-value=96 Score=18.96 Aligned_cols=20 Identities=25% Similarity=0.451 Sum_probs=16.4
Q ss_pred HHHHHHHHHHhhhhhhhcCceEEEEe
Q 034814 19 FKSDFSAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 19 f~~D~~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
+.++.+.|+.. .||.|++-+
T Consensus 22 i~k~i~AfaN~------~GG~iiiGV 41 (122)
T PF04326_consen 22 IAKTICAFANT------EGGYIIIGV 41 (122)
T ss_dssp HHHHHHHHHCS------TTEEEEETE
T ss_pred HHHHHHHHhCC------CCCEEEEEE
Confidence 88999999997 588877655
No 189
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=20.80 E-value=2.2e+02 Score=17.64 Aligned_cols=35 Identities=23% Similarity=0.228 Sum_probs=29.6
Q ss_pred CCCCCCChHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 034814 1 MPKEPMSEFDVHRAYLDQFKSDFSAFLKFRSEELK 35 (82)
Q Consensus 1 ~~~~~~s~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv 35 (82)
+|+...+|..+..+..-...+.-..-|+.|-+++.
T Consensus 59 ~~~~~l~P~~~i~a~l~~~~~~~~~~L~~~l~~l~ 93 (109)
T PF03980_consen 59 VWRHSLTPEEDIRAHLAPYKKKEREQLNARLQELE 93 (109)
T ss_pred CCCCCCChHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 46777899999999999999999999988877764
No 190
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=20.66 E-value=97 Score=16.64 Aligned_cols=18 Identities=17% Similarity=0.254 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+...++.|++.|+|+.
T Consensus 32 ~~~t~~i~~L~~~g~I~r 49 (59)
T PF01047_consen 32 STVTRIIKRLEKKGLIER 49 (59)
T ss_dssp HHHHHHHHHHHHTTSEEE
T ss_pred hHHHHHHHHHHHCCCEEe
Confidence 578999999999999975
No 191
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=20.66 E-value=1.6e+02 Score=20.50 Aligned_cols=23 Identities=17% Similarity=0.340 Sum_probs=16.9
Q ss_pred HHHHHhhhhhhhcCceEEEEeee
Q 034814 24 SAFLKFRSEELKCGGRMILTLLY 46 (82)
Q Consensus 24 ~~FL~~Ra~ELv~GG~mvl~~~g 46 (82)
...|+.=.+=|+|||.+++....
T Consensus 145 ~~~L~~~~~~LkpGG~~vi~~~~ 167 (209)
T PRK11188 145 ELALDMCRDVLAPGGSFVVKVFQ 167 (209)
T ss_pred HHHHHHHHHHcCCCCEEEEEEec
Confidence 45666666778999999996543
No 192
>PF13578 Methyltransf_24: Methyltransferase domain; PDB: 3SSO_A 3SSN_C 3SSM_D.
Probab=20.60 E-value=87 Score=18.75 Aligned_cols=20 Identities=25% Similarity=0.421 Sum_probs=13.4
Q ss_pred HHHHHHHHHHhhhhhhhcCceEEE
Q 034814 19 FKSDFSAFLKFRSEELKCGGRMIL 42 (82)
Q Consensus 19 f~~D~~~FL~~Ra~ELv~GG~mvl 42 (82)
..+|+...+. -|+|||.+|+
T Consensus 84 ~~~dl~~~~~----~l~~ggviv~ 103 (106)
T PF13578_consen 84 VLRDLENALP----RLAPGGVIVF 103 (106)
T ss_dssp HHHHHHHHGG----GEEEEEEEEE
T ss_pred HHHHHHHHHH----HcCCCeEEEE
Confidence 4556665554 3889998875
No 193
>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=20.54 E-value=89 Score=20.76 Aligned_cols=21 Identities=33% Similarity=0.594 Sum_probs=15.1
Q ss_pred HHHHHhhhhhhhcCceEEEEe
Q 034814 24 SAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 24 ~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
..|++.=.+=|+|||.++++.
T Consensus 120 ~~~i~~a~~~Lk~~G~l~lv~ 140 (170)
T PF05175_consen 120 RDFIEQARRYLKPGGRLFLVI 140 (170)
T ss_dssp HHHHHHHHHHEEEEEEEEEEE
T ss_pred HHHHHHHHHhccCCCEEEEEe
Confidence 444544456789999998866
No 194
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=20.46 E-value=1.9e+02 Score=22.49 Aligned_cols=29 Identities=17% Similarity=0.161 Sum_probs=21.2
Q ss_pred HHHHHHHHHHhhhhhhhcCceEEEEeeec
Q 034814 19 FKSDFSAFLKFRSEELKCGGRMILTLLYN 47 (82)
Q Consensus 19 f~~D~~~FL~~Ra~ELv~GG~mvl~~~gr 47 (82)
..+.-..+|+.=++=|+|||+||.....-
T Consensus 352 l~~~q~~iL~~a~~~lkpgG~lvystcs~ 380 (445)
T PRK14904 352 LVGLQAELLDHAASLLKPGGVLVYATCSI 380 (445)
T ss_pred HHHHHHHHHHHHHHhcCCCcEEEEEeCCC
Confidence 34455667877777789999999977443
No 195
>PF14455 Metal_CEHH: Predicted metal binding domain
Probab=20.42 E-value=46 Score=23.58 Aligned_cols=44 Identities=18% Similarity=0.231 Sum_probs=37.9
Q ss_pred CCCCCChHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCC
Q 034814 2 PKEPMSEFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDS 49 (82)
Q Consensus 2 ~~~~~s~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~ 49 (82)
|.-+++||++...+..|-+--+..||.+-+.| |++++.+.|..+
T Consensus 95 ~~L~~app~~~~~l~qq~~~s~~~~~~ah~~~----~~pF~Cm~G~rE 138 (177)
T PF14455_consen 95 PHLPGAPPEMISVLMQQQALSLQDFLSAHPNT----GRPFLCMRGVRE 138 (177)
T ss_pred CCCCCCCchhhhhcccccchhhhhhccCCCCC----CCcEEEeccchh
Confidence 45578899999999999999999999988766 999999999654
No 196
>KOG2899 consensus Predicted methyltransferase [General function prediction only]
Probab=20.36 E-value=1.2e+02 Score=23.14 Aligned_cols=24 Identities=21% Similarity=0.348 Sum_probs=19.9
Q ss_pred HHHHHHHHhhhhhhhcCceEEEEe
Q 034814 21 SDFSAFLKFRSEELKCGGRMILTL 44 (82)
Q Consensus 21 ~D~~~FL~~Ra~ELv~GG~mvl~~ 44 (82)
..+..|++.=+.=|.|||++|+==
T Consensus 186 ~GL~~ff~kis~ll~pgGiLvvEP 209 (288)
T KOG2899|consen 186 DGLRRFFRKISSLLHPGGILVVEP 209 (288)
T ss_pred HHHHHHHHHHHHhhCcCcEEEEcC
Confidence 457788888889999999999843
No 197
>PF14747 DUF4473: Domain of unknown function (DUF4473)
Probab=20.29 E-value=2.1e+02 Score=17.24 Aligned_cols=28 Identities=25% Similarity=0.584 Sum_probs=22.5
Q ss_pred CChHHHHHHHHHHHHHHHHHHHHhhhhh
Q 034814 6 MSEFDVHRAYLDQFKSDFSAFLKFRSEE 33 (82)
Q Consensus 6 ~s~~~V~~AY~~Qf~~D~~~FL~~Ra~E 33 (82)
.++++..+....+|..|...|++.-++|
T Consensus 43 ~~~~e~~~~~~~~~~~e~~~fikt~s~~ 70 (82)
T PF14747_consen 43 KGNKEAAKKFFEKYKAEVDAFIKTQSEE 70 (82)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHCCHH
Confidence 4566777888899999999999876654
No 198
>cd01056 Euk_Ferritin eukaryotic ferritins. Eukaryotic Ferritin (Euk_Ferritin) domain. Ferritins are the primary iron storage proteins of most living organisms and members of a broad superfamily of ferritin-like diiron-carboxylate proteins. The iron-free (apoferritin) ferritin molecule is a protein shell composed of 24 protein chains arranged in 432 symmetry. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the dinuclear ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite; the protein shell can hold up to 4500 iron atoms. In vertebrates, two types of chains (subunits) have been characterized, H or M (fast) and L (slow), which differ in rates of iron uptake and mineralization. Fe(II) oxidation in the H/M subunits take place initially at the ferroxidase center, a carboxylate-bridged diiron center, located within the subunit four-helix bundle. In a complementary role, negatively charged r
Probab=20.27 E-value=2.7e+02 Score=18.37 Aligned_cols=42 Identities=14% Similarity=0.083 Sum_probs=30.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhhhhhhcCceEEEEeeecCC
Q 034814 8 EFDVHRAYLDQFKSDFSAFLKFRSEELKCGGRMILTLLYNDS 49 (82)
Q Consensus 8 ~~~V~~AY~~Qf~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~~ 49 (82)
-+-..+-|+.|+.+-+.+-.+.-..=+..||+..+.-+..+.
T Consensus 36 l~g~a~~f~~~a~eE~~HA~~l~~~i~~rgg~~~~~~i~~~~ 77 (161)
T cd01056 36 LPGFAKFFRKLSDEEREHAEKLIKYQNKRGGRVVLQDIKKPE 77 (161)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHcCCeeecCCCCCCC
Confidence 455677777777777777666666668889998887766554
No 199
>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=20.23 E-value=43 Score=22.74 Aligned_cols=13 Identities=38% Similarity=0.570 Sum_probs=10.4
Q ss_pred hhhhcCceEEEEe
Q 034814 32 EELKCGGRMILTL 44 (82)
Q Consensus 32 ~ELv~GG~mvl~~ 44 (82)
+-|+|||++++++
T Consensus 80 ~lL~~gG~i~iv~ 92 (140)
T PF06962_consen 80 ELLKPGGIITIVV 92 (140)
T ss_dssp HHEEEEEEEEEEE
T ss_pred HhhccCCEEEEEE
Confidence 3588999997776
No 200
>PLN02366 spermidine synthase
Probab=20.19 E-value=3.1e+02 Score=20.61 Aligned_cols=45 Identities=11% Similarity=-0.153 Sum_probs=25.9
Q ss_pred hhhhcCceEEEEeeecCCCCCCCCcHHHHHHHHHHHHcC--Cccc-ccccCCC
Q 034814 32 EELKCGGRMILTLLYNDSFHATSPGEPALLVIKDMISEG--SLSL-SFNTYQK 81 (82)
Q Consensus 32 ~ELv~GG~mvl~~~gr~~~~~~~~~~~l~~al~dmv~eG--li~~-sFn~P~y 81 (82)
+=|+|||.++... +.+....+.+...++.|.+.. .+.- ..++|.|
T Consensus 194 ~~L~pgGvlv~q~-----~s~~~~~~~~~~i~~tl~~~F~~~v~~~~~~vPsy 241 (308)
T PLN02366 194 RALRPGGVVCTQA-----ESMWLHMDLIEDLIAICRETFKGSVNYAWTTVPTY 241 (308)
T ss_pred HhcCCCcEEEECc-----CCcccchHHHHHHHHHHHHHCCCceeEEEecCCCc
Confidence 3488999986543 112222356677777777776 2222 4567766
No 201
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=20.13 E-value=88 Score=21.71 Aligned_cols=18 Identities=17% Similarity=0.322 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+.+||..|+.+|+|+-
T Consensus 46 t~VReAL~~L~~eGlv~~ 63 (239)
T PRK04984 46 TTLREVLQRLARDGWLTI 63 (239)
T ss_pred HHHHHHHHHHHHCCCEEE
Confidence 789999999999999975
No 202
>KOG3178 consensus Hydroxyindole-O-methyltransferase and related SAM-dependent methyltransferases [General function prediction only]
Probab=20.06 E-value=1.3e+02 Score=23.49 Aligned_cols=29 Identities=24% Similarity=0.289 Sum_probs=24.1
Q ss_pred HHHHHHHHHhhhhhhhcCceEEEEeeecC
Q 034814 20 KSDFSAFLKFRSEELKCGGRMILTLLYND 48 (82)
Q Consensus 20 ~~D~~~FL~~Ra~ELv~GG~mvl~~~gr~ 48 (82)
-+|...||+.=.+-|.|||.+++.=.-.+
T Consensus 251 DedcvkiLknC~~sL~~~GkIiv~E~V~p 279 (342)
T KOG3178|consen 251 DEDCVKILKNCKKSLPPGGKIIVVENVTP 279 (342)
T ss_pred hHHHHHHHHHHHHhCCCCCEEEEEeccCC
Confidence 47899999999999999999998765433
No 203
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=20.00 E-value=1e+02 Score=17.76 Aligned_cols=18 Identities=11% Similarity=0.180 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHcCCccc
Q 034814 57 EPALLVIKDMISEGSLSL 74 (82)
Q Consensus 57 ~~l~~al~dmv~eGli~~ 74 (82)
..+...++.|++.|+|..
T Consensus 39 ~~i~~~l~~L~~~g~v~~ 56 (101)
T smart00347 39 STVTRVLDRLEKKGLIRR 56 (101)
T ss_pred hhHHHHHHHHHHCCCeEe
Confidence 678999999999999975
Done!