Query 002824
Match_columns 876
No_of_seqs 221 out of 576
Neff 4.4
Searched_HMMs 46136
Date Thu Mar 28 11:31:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002824.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002824hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12047 DNMT1-RFD: Cytosine s 99.8 5.1E-20 1.1E-24 179.3 1.0 131 7-137 1-145 (146)
2 KOG4443 Putative transcription 98.0 2.7E-06 5.8E-11 99.4 3.2 83 277-380 19-102 (694)
3 KOG0954 PHD finger protein [Ge 98.0 3.4E-06 7.4E-11 99.2 2.4 176 194-414 254-440 (893)
4 COG5141 PHD zinc finger-contai 97.8 6.4E-06 1.4E-10 93.4 1.8 88 214-315 191-335 (669)
5 KOG0955 PHD finger protein BR1 97.7 3E-05 6.5E-10 96.0 5.1 141 211-383 214-368 (1051)
6 KOG4299 PHD Zn-finger protein 97.6 6.1E-05 1.3E-09 88.1 4.4 50 215-275 46-95 (613)
7 KOG4299 PHD Zn-finger protein 97.5 2.9E-05 6.3E-10 90.7 1.0 50 216-275 253-305 (613)
8 KOG1244 Predicted transcriptio 97.4 4.9E-05 1.1E-09 81.5 1.3 82 213-317 221-315 (336)
9 KOG1512 PHD Zn-finger protein 97.4 4.6E-05 1E-09 82.1 1.1 84 214-319 256-350 (381)
10 COG5034 TNG2 Chromatin remodel 97.4 0.00015 3.4E-09 77.2 4.0 46 215-274 220-269 (271)
11 KOG1973 Chromatin remodeling p 97.3 8.8E-05 1.9E-09 80.4 2.1 49 212-274 217-267 (274)
12 KOG4443 Putative transcription 97.3 9.8E-05 2.1E-09 86.8 1.7 140 214-376 16-178 (694)
13 smart00249 PHD PHD zinc finger 97.3 0.00023 4.9E-09 55.1 3.2 44 218-272 1-47 (47)
14 PF00628 PHD: PHD-finger; Int 97.2 0.0001 2.2E-09 59.8 0.3 46 218-274 1-50 (51)
15 KOG0956 PHD finger protein AF1 97.2 0.0002 4.2E-09 84.4 2.7 84 219-315 8-156 (900)
16 KOG1244 Predicted transcriptio 97.1 0.00037 8.1E-09 74.9 4.0 72 294-381 244-316 (336)
17 PHA03412 putative methyltransf 96.8 0.00081 1.8E-08 72.0 3.2 170 677-862 29-230 (241)
18 PRK00274 ksgA 16S ribosomal RN 96.8 0.00088 1.9E-08 72.0 3.5 152 675-835 17-188 (272)
19 PF02384 N6_Mtase: N-6 DNA Met 96.8 0.001 2.2E-08 72.0 3.7 123 675-803 22-187 (311)
20 TIGR02987 met_A_Alw26 type II 96.7 0.0061 1.3E-07 71.3 9.4 50 677-726 2-56 (524)
21 KOG0383 Predicted helicase [Ge 96.6 0.00093 2E-08 80.4 1.9 52 212-275 43-94 (696)
22 PF15446 zf-PHD-like: PHD/FYVE 96.3 0.0072 1.6E-07 61.6 5.9 26 356-381 119-144 (175)
23 TIGR00755 ksgA dimethyladenosi 96.0 0.016 3.4E-07 61.6 6.9 146 676-835 5-176 (253)
24 PRK14896 ksgA 16S ribosomal RN 95.9 0.0043 9.3E-08 66.3 2.5 149 676-835 5-172 (258)
25 KOG1473 Nucleosome remodeling 95.9 0.0035 7.6E-08 77.5 1.9 34 211-245 339-372 (1414)
26 smart00249 PHD PHD zinc finger 95.7 0.012 2.7E-07 45.3 3.6 33 344-380 1-33 (47)
27 PTZ00338 dimethyladenosine tra 95.5 0.028 6.2E-07 61.8 6.9 150 671-835 6-184 (294)
28 PF01170 UPF0020: Putative RNA 95.5 0.0096 2.1E-07 60.6 2.9 106 691-801 20-152 (179)
29 PF00628 PHD: PHD-finger; Int 94.9 0.022 4.7E-07 46.2 2.7 34 344-381 1-34 (51)
30 KOG0825 PHD Zn-finger protein 94.8 0.017 3.7E-07 69.5 2.7 47 216-274 215-265 (1134)
31 KOG4323 Polycomb-like PHD Zn-f 94.8 0.013 2.8E-07 67.8 1.6 53 214-275 166-224 (464)
32 KOG1512 PHD Zn-finger protein 94.5 0.017 3.8E-07 62.9 1.7 69 294-378 277-346 (381)
33 KOG0825 PHD Zn-finger protein 94.1 0.029 6.3E-07 67.7 2.6 33 344-380 217-250 (1134)
34 PF13832 zf-HC5HC2H_2: PHD-zin 93.7 0.039 8.3E-07 51.6 2.2 105 278-410 2-110 (110)
35 PF00398 RrnaAD: Ribosomal RNA 93.4 0.21 4.6E-06 53.6 7.4 159 675-849 5-192 (262)
36 KOG1701 Focal adhesion adaptor 93.1 0.014 3E-07 66.5 -2.2 81 218-313 276-361 (468)
37 KOG0383 Predicted helicase [Ge 93.0 0.045 9.8E-07 66.4 1.8 81 234-351 1-96 (696)
38 PF13659 Methyltransf_26: Meth 91.8 0.099 2.1E-06 47.9 2.1 81 702-789 1-103 (117)
39 TIGR00479 rumA 23S rRNA (uraci 91.6 0.25 5.4E-06 56.6 5.4 117 684-804 273-401 (431)
40 PF13832 zf-HC5HC2H_2: PHD-zin 91.1 0.22 4.7E-06 46.6 3.6 85 218-316 2-88 (110)
41 COG2263 Predicted RNA methylas 90.9 0.56 1.2E-05 49.3 6.6 109 659-799 8-144 (198)
42 PRK10909 rsmD 16S rRNA m(2)G96 90.2 0.64 1.4E-05 48.6 6.3 98 700-802 52-161 (199)
43 smart00650 rADc Ribosomal RNA 89.6 0.91 2E-05 45.2 6.7 133 689-834 3-159 (169)
44 KOG0957 PHD finger protein [Ge 89.0 0.24 5.2E-06 57.7 2.4 88 217-318 120-214 (707)
45 TIGR01177 conserved hypothetic 87.5 1.9 4.2E-05 47.8 8.2 30 688-719 171-200 (329)
46 PHA03411 putative methyltransf 86.1 0.33 7.2E-06 53.5 1.3 48 671-722 38-85 (279)
47 KOG0957 PHD finger protein [Ge 85.0 0.43 9.3E-06 55.8 1.5 49 216-273 544-596 (707)
48 PRK13168 rumA 23S rRNA m(5)U19 85.0 1.7 3.6E-05 50.4 6.3 111 688-803 282-404 (443)
49 KOG1973 Chromatin remodeling p 84.1 0.68 1.5E-05 50.7 2.5 28 292-319 228-256 (274)
50 KOG4323 Polycomb-like PHD Zn-f 83.3 0.59 1.3E-05 54.6 1.7 55 345-414 171-225 (464)
51 TIGR02085 meth_trns_rumB 23S r 83.2 0.74 1.6E-05 52.2 2.4 115 683-803 213-338 (374)
52 TIGR03534 RF_mod_PrmC protein- 82.3 3.5 7.5E-05 42.9 6.8 96 672-776 57-167 (251)
53 PF05175 MTS: Methyltransferas 81.8 0.64 1.4E-05 46.6 1.1 92 691-790 23-129 (170)
54 PF07669 Eco57I: Eco57I restri 81.5 1.3 2.8E-05 41.6 3.0 39 765-804 5-56 (106)
55 PF13771 zf-HC5HC2H: PHD-like 81.3 0.79 1.7E-05 41.2 1.4 34 212-245 32-67 (90)
56 PRK03522 rumB 23S rRNA methylu 81.1 2.4 5.1E-05 46.9 5.3 93 701-799 173-273 (315)
57 COG2265 TrmA SAM-dependent met 80.3 2.1 4.7E-05 49.8 4.8 117 672-799 260-395 (432)
58 TIGR03704 PrmC_rel_meth putati 80.2 1.8 4E-05 46.4 4.0 89 681-774 63-164 (251)
59 KOG0956 PHD finger protein AF1 80.2 0.73 1.6E-05 55.7 1.0 58 212-274 113-179 (900)
60 PF02475 Met_10: Met-10+ like- 78.3 1.1 2.4E-05 47.1 1.6 80 698-790 98-191 (200)
61 COG2226 UbiE Methylase involve 75.4 2.4 5.2E-05 45.9 3.2 57 652-723 17-73 (238)
62 PRK11188 rrmJ 23S rRNA methylt 74.5 15 0.00032 38.5 8.7 65 685-753 36-102 (209)
63 PF13831 PHD_2: PHD-finger; PD 74.3 0.79 1.7E-05 35.9 -0.6 35 226-273 2-36 (36)
64 PF13901 DUF4206: Domain of un 72.5 2.7 5.9E-05 44.1 2.6 46 268-315 144-189 (202)
65 PF13771 zf-HC5HC2H: PHD-like 72.3 1.9 4E-05 38.8 1.2 34 276-316 36-69 (90)
66 KOG1044 Actin-binding LIM Zn-f 71.8 2.8 6E-05 50.2 2.7 37 589-625 447-485 (670)
67 TIGR03533 L3_gln_methyl protei 68.4 4.7 0.0001 44.2 3.5 72 700-776 120-202 (284)
68 PF15446 zf-PHD-like: PHD/FYVE 68.4 8.8 0.00019 39.8 5.1 77 344-430 1-80 (175)
69 PRK09328 N5-glutamine S-adenos 68.3 9.8 0.00021 40.4 5.8 70 699-777 106-189 (275)
70 KOG4628 Predicted E3 ubiquitin 68.1 2.6 5.6E-05 48.0 1.5 49 277-353 230-278 (348)
71 KOG0955 PHD finger protein BR1 67.3 4.2 9E-05 52.1 3.1 66 277-373 220-285 (1051)
72 PRK05785 hypothetical protein; 67.1 7 0.00015 41.3 4.4 47 674-723 27-73 (226)
73 KOG3420 Predicted RNA methylas 66.9 7.3 0.00016 40.0 4.2 107 683-790 28-142 (185)
74 COG0030 KsgA Dimethyladenosine 66.7 8.8 0.00019 42.2 5.1 155 676-849 6-192 (259)
75 KOG1245 Chromatin remodeling c 66.3 1.6 3.5E-05 57.3 -0.6 61 212-284 1104-1170(1404)
76 PLN02672 methionine S-methyltr 66.3 7.9 0.00017 50.0 5.3 146 623-777 22-217 (1082)
77 TIGR00095 RNA methyltransferas 64.7 5.7 0.00012 41.0 3.1 37 685-722 33-70 (189)
78 COG0286 HsdM Type I restrictio 63.0 8.3 0.00018 45.7 4.4 49 677-727 164-212 (489)
79 PRK11805 N5-glutamine S-adenos 61.6 4.6 0.0001 44.8 1.9 65 703-776 135-214 (307)
80 TIGR03587 Pse_Me-ase pseudamin 59.8 9.9 0.00021 39.7 3.8 51 672-722 14-64 (204)
81 TIGR02143 trmA_only tRNA (urac 59.4 5.9 0.00013 44.8 2.3 97 702-803 198-315 (353)
82 PF14446 Prok-RING_1: Prokaryo 59.3 5.7 0.00012 34.1 1.6 34 277-316 6-39 (54)
83 PRK14966 unknown domain/N5-glu 59.1 12 0.00026 43.8 4.7 80 688-775 238-331 (423)
84 PRK14967 putative methyltransf 58.4 22 0.00048 37.1 6.2 34 686-721 23-56 (223)
85 PF11793 FANCL_C: FANCL C-term 58.2 6.4 0.00014 34.8 1.8 39 277-317 3-41 (70)
86 TIGR00536 hemK_fam HemK family 58.1 6.7 0.00014 42.7 2.3 69 703-776 116-195 (284)
87 COG0293 FtsJ 23S rRNA methylas 57.4 11 0.00024 40.1 3.8 43 685-728 30-72 (205)
88 TIGR00080 pimt protein-L-isoas 55.4 15 0.00033 38.1 4.3 45 678-724 56-100 (215)
89 PF14446 Prok-RING_1: Prokaryo 55.3 6.4 0.00014 33.8 1.3 32 344-378 7-38 (54)
90 PRK05031 tRNA (uracil-5-)-meth 53.5 14 0.00031 41.9 4.0 38 685-722 189-227 (362)
91 PRK11783 rlmL 23S rRNA m(2)G24 51.6 22 0.00047 44.0 5.5 30 689-719 179-208 (702)
92 PF13489 Methyltransf_23: Meth 51.1 18 0.00039 34.4 3.8 36 687-722 8-43 (161)
93 PRK13944 protein-L-isoaspartat 50.4 20 0.00043 37.1 4.2 44 678-723 51-94 (205)
94 KOG3362 Predicted BBOX Zn-fing 50.3 6.8 0.00015 39.7 0.8 32 338-377 114-146 (156)
95 PRK13942 protein-L-isoaspartat 50.2 17 0.00037 37.9 3.7 45 677-723 54-98 (212)
96 KOG3612 PHD Zn-finger protein 45.7 17 0.00036 43.6 3.1 35 210-245 54-88 (588)
97 PRK14968 putative methyltransf 45.5 56 0.0012 32.3 6.4 38 683-722 7-44 (188)
98 PRK09489 rsmC 16S ribosomal RN 45.4 1.1E+02 0.0023 34.9 9.3 21 702-722 197-217 (342)
99 PF05869 Dam: DNA N-6-adenine- 45.2 28 0.00062 36.3 4.4 131 681-855 14-151 (181)
100 KOG2187 tRNA uracil-5-methyltr 45.0 45 0.00098 40.1 6.4 126 663-799 341-489 (534)
101 COG5034 TNG2 Chromatin remodel 44.2 20 0.00043 39.5 3.1 27 293-319 231-258 (271)
102 PRK14890 putative Zn-ribbon RN 43.9 16 0.00035 32.0 1.9 33 264-306 23-56 (59)
103 PTZ00098 phosphoethanolamine N 43.7 28 0.00061 37.6 4.2 51 669-721 10-72 (263)
104 PF10237 N6-adenineMlase: Prob 42.1 28 0.00061 35.7 3.7 67 724-805 61-129 (162)
105 KOG0804 Cytoplasmic Zn-finger 42.0 13 0.00028 43.6 1.5 29 216-245 175-207 (493)
106 PTZ00146 fibrillarin; Provisio 40.4 28 0.00061 39.0 3.7 62 666-727 82-158 (293)
107 PF01209 Ubie_methyltran: ubiE 40.3 13 0.00028 39.9 1.0 44 674-722 25-68 (233)
108 PRK00312 pcm protein-L-isoaspa 40.1 96 0.0021 32.0 7.3 71 648-722 23-99 (212)
109 PF01555 N6_N4_Mtase: DNA meth 39.9 20 0.00044 36.0 2.4 48 666-716 153-206 (231)
110 PF01728 FtsJ: FtsJ-like methy 38.7 20 0.00044 35.9 2.1 38 686-723 7-45 (181)
111 COG1041 Predicted DNA modifica 37.2 65 0.0014 37.1 6.0 91 699-800 195-311 (347)
112 COG2230 Cfa Cyclopropane fatty 37.0 35 0.00075 38.2 3.7 34 687-722 60-93 (283)
113 TIGR02469 CbiT precorrin-6Y C5 37.0 51 0.0011 30.0 4.3 35 686-722 6-40 (124)
114 PF13679 Methyltransf_32: Meth 36.8 1.6E+02 0.0034 28.8 7.9 105 685-796 6-129 (141)
115 COG2520 Predicted methyltransf 36.1 10 0.00022 43.2 -0.5 76 695-790 182-278 (341)
116 cd04718 BAH_plant_2 BAH, or Br 36.0 22 0.00048 36.2 1.9 26 239-275 2-27 (148)
117 PF13639 zf-RING_2: Ring finge 35.1 8.3 0.00018 30.5 -1.0 33 278-317 2-34 (44)
118 PRK15001 SAM-dependent 23S rib 35.0 37 0.0008 39.2 3.7 120 673-799 199-339 (378)
119 KOG1169 Diacylglycerol kinase 34.8 20 0.00044 43.8 1.6 138 218-377 46-210 (634)
120 PRK08287 cobalt-precorrin-6Y C 34.2 63 0.0014 32.6 4.8 42 679-722 11-52 (187)
121 PF03107 C1_2: C1 domain; Int 34.0 35 0.00077 25.5 2.2 29 343-376 1-30 (30)
122 TIGR00438 rrmJ cell division p 33.9 47 0.001 33.7 3.8 36 687-723 19-54 (188)
123 PF04405 ScdA_N: Domain of Unk 33.5 16 0.00034 31.4 0.3 9 706-714 24-32 (56)
124 PRK00121 trmB tRNA (guanine-N( 33.5 55 0.0012 33.9 4.3 28 695-722 34-61 (202)
125 COG2890 HemK Methylase of poly 33.1 90 0.002 34.5 6.1 126 623-775 52-188 (280)
126 TIGR02752 MenG_heptapren 2-hep 32.9 39 0.00085 35.0 3.2 43 676-723 25-67 (231)
127 PRK07402 precorrin-6B methylas 32.6 66 0.0014 32.8 4.7 41 679-721 20-60 (196)
128 TIGR00446 nop2p NOL1/NOP2/sun 32.6 29 0.00063 37.5 2.2 25 698-722 68-92 (264)
129 cd00315 Cyt_C5_DNA_methylase C 31.9 1.1E+02 0.0025 33.3 6.6 84 704-799 2-111 (275)
130 COG2888 Predicted Zn-ribbon RN 31.7 28 0.0006 30.7 1.5 32 264-305 25-57 (61)
131 TIGR00406 prmA ribosomal prote 30.9 52 0.0011 36.1 3.9 39 679-721 141-179 (288)
132 PRK10458 DNA cytosine methylas 30.5 3.3E+02 0.0071 32.7 10.5 24 704-731 90-113 (467)
133 PF12678 zf-rbx1: RING-H2 zinc 30.2 11 0.00024 33.5 -1.2 17 302-318 48-64 (73)
134 TIGR00762 DegV EDD domain prot 29.7 2E+02 0.0043 31.4 8.0 94 624-725 122-246 (275)
135 PF07227 DUF1423: Protein of u 29.1 32 0.00069 40.6 1.9 43 265-316 122-164 (446)
136 PRK00050 16S rRNA m(4)C1402 me 29.1 44 0.00095 37.5 2.9 35 687-723 7-41 (296)
137 PF08003 Methyltransf_9: Prote 29.0 1.1E+02 0.0023 35.0 5.8 73 700-817 114-188 (315)
138 KOG1952 Transcription factor N 28.7 23 0.0005 44.5 0.7 64 214-287 189-262 (950)
139 PF13651 EcoRI_methylase: Aden 28.6 50 0.0011 37.7 3.2 61 766-833 138-203 (336)
140 PF02353 CMAS: Mycolic acid cy 28.1 59 0.0013 35.8 3.7 34 687-722 50-83 (273)
141 PRK01544 bifunctional N5-gluta 28.1 41 0.0009 40.1 2.7 70 701-775 138-218 (506)
142 PF10367 Vps39_2: Vacuolar sor 28.0 39 0.00086 30.8 2.0 29 216-244 78-107 (109)
143 TIGR01712 phage_N6A_met phage 27.7 49 0.0011 34.4 2.7 77 766-855 64-145 (166)
144 PF06524 NOA36: NOA36 protein; 27.6 30 0.00065 38.3 1.3 59 213-283 122-189 (314)
145 PF14881 Tubulin_3: Tubulin do 27.5 46 0.00099 34.6 2.5 46 680-725 48-100 (180)
146 KOG0804 Cytoplasmic Zn-finger 26.5 33 0.00072 40.4 1.5 35 277-317 176-210 (493)
147 PHA02929 N1R/p28-like protein; 26.5 41 0.0009 36.7 2.1 39 277-317 175-213 (238)
148 COG3802 GguC Uncharacterized p 26.4 35 0.00077 37.8 1.5 66 771-837 185-285 (333)
149 PRK04266 fibrillarin; Provisio 25.6 82 0.0018 33.7 4.1 35 689-723 59-94 (226)
150 PF13831 PHD_2: PHD-finger; PD 25.6 24 0.00052 27.7 0.1 17 360-376 3-19 (36)
151 KOG3285 Spindle assembly check 25.4 61 0.0013 34.2 2.9 47 20-67 141-197 (203)
152 PF11793 FANCL_C: FANCL C-term 25.1 35 0.00075 30.2 1.0 33 344-377 4-38 (70)
153 smart00550 Zalpha Z-DNA-bindin 24.7 1E+02 0.0022 27.0 3.8 48 571-641 5-53 (68)
154 PF05413 Peptidase_C34: Putati 24.4 29 0.00062 32.3 0.4 15 635-649 41-55 (92)
155 PRK00377 cbiT cobalt-precorrin 24.0 1.1E+02 0.0023 31.5 4.4 40 682-723 23-62 (198)
156 PF12861 zf-Apc11: Anaphase-pr 23.9 32 0.00068 32.2 0.5 42 269-342 35-76 (85)
157 PF00130 C1_1: Phorbol esters/ 23.6 62 0.0013 26.3 2.2 34 343-378 12-45 (53)
158 KOG4217 Nuclear receptors of t 23.6 26 0.00057 41.5 -0.0 59 212-273 265-328 (605)
159 KOG0827 Predicted E3 ubiquitin 23.2 28 0.0006 40.5 0.0 29 302-350 24-53 (465)
160 PRK06202 hypothetical protein; 23.1 70 0.0015 33.4 3.0 40 700-739 59-98 (232)
161 TIGR00497 hsdM type I restrict 23.1 48 0.001 39.3 2.0 47 671-717 187-233 (501)
162 KOG2932 E3 ubiquitin ligase in 22.0 29 0.00062 39.3 -0.1 64 216-309 90-158 (389)
163 KOG4218 Nuclear hormone recept 21.4 39 0.00085 38.7 0.8 27 216-243 15-46 (475)
164 COG4798 Predicted methyltransf 21.4 49 0.0011 35.7 1.4 49 696-744 43-91 (238)
165 PF10235 Cript: Microtubule-as 21.4 51 0.0011 31.2 1.3 22 265-286 58-79 (90)
166 COG1307 DegV Uncharacterized p 21.1 2.9E+02 0.0063 30.8 7.3 95 626-728 127-252 (282)
167 KOG4215 Hepatocyte nuclear fac 21.0 31 0.00068 39.8 -0.1 27 215-242 18-49 (432)
168 PRK14901 16S rRNA methyltransf 20.9 64 0.0014 37.5 2.4 24 699-722 250-273 (434)
169 TIGR02081 metW methionine bios 20.8 75 0.0016 32.3 2.6 31 688-722 4-34 (194)
170 PRK14904 16S rRNA methyltransf 20.6 71 0.0015 37.3 2.6 25 699-723 248-272 (445)
171 PLN02585 magnesium protoporphy 20.4 52 0.0011 37.1 1.4 22 701-722 144-165 (315)
172 TIGR02021 BchM-ChlM magnesium 20.3 92 0.002 32.2 3.2 34 689-722 39-76 (219)
173 KOG4628 Predicted E3 ubiquitin 20.1 63 0.0014 37.2 2.0 29 217-246 230-261 (348)
No 1
>PF12047 DNMT1-RFD: Cytosine specific DNA methyltransferase replication foci domain; InterPro: IPR022702 This domain is part of a cytosine specific DNA methyltransferase enzyme. It functions non-catalytically to target the protein towards replication foci. This allows the DNMT1 protein to methylate the correct residues. This domain targets DMAP1 and HDAC2 to the replication foci during the S phase of mitosis. They are thought to have some importance in conversion of critical histone lysine moieties []. A structure exists for the human cytosine specific DNA methyltransferase replication foci domain. ; PDB: 3AV6_A 3AV5_A 3AV4_A 3EPZ_B.
Probab=99.77 E-value=5.1e-20 Score=179.27 Aligned_cols=131 Identities=24% Similarity=0.401 Sum_probs=100.7
Q ss_pred CCcccccccceeEeecCCCCeeEeEeeeeeecccccCCCCcceEEE----------ecccCCCccceeeeEEEEEeeccC
Q 002824 7 DDDTLTLYVSDYEFLDQNEESISFSVLPLQWDGCDIVGSSEMQVFL----------HGNIGDGPWNFNEQVIAWKFELSY 76 (876)
Q Consensus 7 ~~e~~~~~v~~y~f~d~~~~~v~fs~lp~~~~~~~~~~~~~~~v~l----------~G~~d~Gl~~v~~~v~aWr~~l~~ 76 (876)
|++.++..|+||+|.|++++||+|+.||++|+...-+.|..+.+++ +|..++|++.++++|++|.+++..
T Consensus 1 ~~~~p~r~L~~f~~~d~~~~~~~le~l~~~~~~~~~~sG~v~~~~~~~~~~~~~~~~g~~~~g~~~~l~~I~~W~i~~~~ 80 (146)
T PF12047_consen 1 EDDLPMRSLDDFSFYDSDGEPVSLELLPIEWNVDLFASGVVKPIGLWGDDEPSPKEKGVRDEGVRIRLGPIKEWWIDGGD 80 (146)
T ss_dssp -SSS-EEEEEEEEEEETTSBB--STTSTTTTT--EEEEEEEEETT-------SSTS-SEEEEC----ES-ECEEEEE-SS
T ss_pred CCCCcceEEEEEEEEeCCCCEEeeeeccccCCCcccceEEecccCcccccCccccccCccCCCcccceeceeEEEEEecC
Confidence 5788899999999999999999999999999998777777788887 799999999999999999999998
Q ss_pred CcceEEEEecCCceeEcCCCCch----HHHHHHHHhhhhheehhhccCcccchhHHHHHHHhhcc
Q 002824 77 AQPEIWVLSKQNNWIMLQSPKKS----FKNIVRTILITVHWLYCVKQNPEASRKYIREQMLKVFC 137 (876)
Q Consensus 77 ~~p~isvls~~~~Wi~L~kPrk~----ye~~irtvlitv~~LhfvkknP~~s~ksl~~~L~K~f~ 137 (876)
..|.+.+++.+.+|++|+||+++ |+.++|++.||++++|+|++||..+..++|+.|.++++
T Consensus 81 ~~~~~i~i~T~~awY~L~kPs~~Y~~~y~~~~~~~~l~~~v~~~l~~~~~~~~~s~~d~l~~v~~ 145 (146)
T PF12047_consen 81 DGPPIIWISTDYAWYRLMKPSKSYAPWYEPFLRKARLTVRVIHFLKKNPRASDLSYEDLLARVFR 145 (146)
T ss_dssp SSS-EEEEEESS-EEEE-SB-TTTHHHHCCHHHHHHHHHHHHHHHHHHT---T--HHHHHHHHHH
T ss_pred CCccEEEEEECCcEEEECCccHHHHHHHHHHHHHHHHHHHHHHHHhhCcccccCCHHHHHHHHhc
Confidence 88899999999999999999999 56788999999999999999999899999999999764
No 2
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.02 E-value=2.7e-06 Score=99.41 Aligned_cols=83 Identities=29% Similarity=0.737 Sum_probs=64.2
Q ss_pred cccccccccCCCCCCCCCceeccCCCccCCCCccccccccCCCCchhHHHHHHHHhhcCCceecCCc-ccccCcCCcccc
Q 002824 277 HQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVH-KCFVCQQSEDMN 355 (876)
Q Consensus 277 HqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~~~eL~krI~~g~~F~CPlH-~C~~C~~sedk~ 355 (876)
+.|++|+-.|.- ..+.++.| ..||.+||+.|+..+.. .++ -+..|+||-| .|+.|+..++-
T Consensus 19 ~mc~l~~s~G~~---~ag~m~ac--~~c~~~yH~~cvt~~~~-----------~~~-l~~gWrC~~crvCe~c~~~gD~- 80 (694)
T KOG4443|consen 19 LMCPLCGSSGKG---RAGRLLAC--SDCGQKYHPYCVTSWAQ-----------HAV-LSGGWRCPSCRVCEACGTTGDP- 80 (694)
T ss_pred hhhhhhcccccc---ccCcchhh--hhhcccCCcchhhHHHh-----------HHH-hcCCcccCCceeeeeccccCCc-
Confidence 379999887752 24568899 79999999999987642 122 2456999976 58999876653
Q ss_pred ccccceeeccccccccccccCCCCc
Q 002824 356 VEDLQLAICRRCPKAYHRKCLPTEI 380 (876)
Q Consensus 356 ~~~~qLi~C~RCPkAYH~kCLP~gi 380 (876)
.++..|.+|..+||.+|+.+..
T Consensus 81 ---~kf~~Ck~cDvsyh~yc~~P~~ 102 (694)
T KOG4443|consen 81 ---KKFLLCKRCDVSYHCYCQKPPN 102 (694)
T ss_pred ---ccccccccccccccccccCCcc
Confidence 4899999999999999997654
No 3
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=97.95 E-value=3.4e-06 Score=99.23 Aligned_cols=176 Identities=19% Similarity=0.404 Sum_probs=109.5
Q ss_pred CceeecCCCCcccccccccCCCCccccccCCC-----CceeecCcccccccccccccCccccccccCCcccccCCCCcee
Q 002824 194 PKVIVDWNEDEDSERVDKDENYFAVCAICDDG-----GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFL 268 (876)
Q Consensus 194 ~~fiv~~~~~e~~e~d~edd~~d~VCaICe~g-----GeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~ 268 (876)
...+++.+++-+++++ .+.+|.+|..+ .+||+|| .|.-..|+.| .|+... +.+.|+
T Consensus 254 i~~~l~~eeglgie~d-----edviCDvCrspD~e~~neMVfCd-~Cn~cVHqaC----------yGIle~---p~gpWl 314 (893)
T KOG0954|consen 254 INHALETEEGLGIEYD-----EDVICDVCRSPDSEEANEMVFCD-KCNICVHQAC----------YGILEV---PEGPWL 314 (893)
T ss_pred HHhhhhhcccceeecc-----ccceeceecCCCccccceeEEec-cchhHHHHhh----------hceeec---CCCCee
Confidence 3345566666677776 37889999766 4699999 7999999996 688654 469999
Q ss_pred ccccccc-CcccccccccCCCCCCCCCceeccCCCccCCCCccccccccCCCCchhHHHHHH--HHhhcCCceecCCccc
Q 002824 269 CQNCVYQ-EHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELR--ERIAAGESFTCPVHKC 345 (876)
Q Consensus 269 C~eC~~g-qHqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~~~eL~--krI~~g~~F~CPlH~C 345 (876)
|.-|..+ ...|..|-+.|-+-++ +..=.+|-|..|.-..|....+. ++.++ .++.....-+. .-.|
T Consensus 315 Cr~Calg~~ppCvLCPkkGGamK~---------~~sgT~wAHvsCALwIPEVsie~-~ekmePItkfs~IpesRw-slvC 383 (893)
T KOG0954|consen 315 CRTCALGIEPPCVLCPKKGGAMKP---------TKSGTKWAHVSCALWIPEVSIEC-PEKMEPITKFSHIPESRW-SLVC 383 (893)
T ss_pred ehhccccCCCCeeeccccCCcccc---------cCCCCeeeEeeeeeccceeeccC-HhhcCcccccCCCcHHHH-HHHH
Confidence 9999987 4789999877643221 13334899999998776543321 22111 01110000000 1368
Q ss_pred ccCcCCccccccccceeec--cccccccccccC-CCCcccccccchhhhhhhhccCCCCceeEEccCCcccc
Q 002824 346 FVCQQSEDMNVEDLQLAIC--RRCPKAYHRKCL-PTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKIIS 414 (876)
Q Consensus 346 ~~C~~sedk~~~~~qLi~C--~RCPkAYH~kCL-P~gi~f~~~~~e~~~raW~~ll~~~riLI~C~kH~i~~ 414 (876)
..|+... +..++| ..|-.+||..|. .+|..+.....+. ..-...-||.+|....
T Consensus 384 ~LCk~k~------GACIqCs~k~C~t~fHv~CA~~aG~~~~~~~~~~---------D~v~~~s~c~khs~~~ 440 (893)
T KOG0954|consen 384 NLCKVKS------GACIQCSNKTCRTAFHVTCAFEAGLEMKTILKEN---------DEVKFKSYCSKHSDHR 440 (893)
T ss_pred HHhcccC------cceEEecccchhhhccchhhhhcCCeeeeeeccC---------Cchhheeecccccccc
Confidence 8898743 456777 578899999996 3454443322221 1113345777777433
No 4
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=97.83 E-value=6.4e-06 Score=93.42 Aligned_cols=88 Identities=27% Similarity=0.654 Sum_probs=64.7
Q ss_pred CCCccccccCCC-----CceeecCcccccccccccccCccccccccCCcccccCCCCceecccccccCcc---ccccccc
Q 002824 214 NYFAVCAICDDG-----GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQ---CFACGML 285 (876)
Q Consensus 214 ~~d~VCaICe~g-----GeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~gqHq---CfiCgkl 285 (876)
.+++.|++|... ..++.||| |.-+.|+.| .|+.-. +.+.|+|..|.++.|+ |.-|-..
T Consensus 191 ~~d~~C~~c~~t~~eN~naiVfCdg-C~i~VHq~C----------YGI~f~---peG~WlCrkCi~~~~~i~~C~fCps~ 256 (669)
T COG5141 191 EFDDICTKCTSTHNENSNAIVFCDG-CEICVHQSC----------YGIQFL---PEGFWLCRKCIYGEYQIRCCSFCPSS 256 (669)
T ss_pred hhhhhhHhccccccCCcceEEEecC-cchhhhhhc----------ccceec---CcchhhhhhhcccccceeEEEeccCC
Confidence 568899999765 34999996 999999996 676322 5789999999988654 5555322
Q ss_pred CC-----CCC--------------------------------------------CCCCceeccCCCccCCCCccccccc
Q 002824 286 GS-----SDK--------------------------------------------SSSQEVFPCVSATCGQFYHPECVSK 315 (876)
Q Consensus 286 Gs-----sd~--------------------------------------------ss~~eV~kCsv~~CGkfYH~~CL~~ 315 (876)
.- +|. .-.|.-++|+..+|-+.||..|...
T Consensus 257 dGaFkqT~dgrW~H~iCA~~~pelsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~GtcIqCs~~nC~~aYHVtCArr 335 (669)
T COG5141 257 DGAFKQTSDGRWGHVICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYHVTCARR 335 (669)
T ss_pred CCceeeccCCchHhHhHHHhcchhccccccccchhhhhcccchhhHhheeeEEcccCcceeeecccchhhhhhhhhhhh
Confidence 11 000 0145678999999999999999864
No 5
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.71 E-value=3e-05 Score=95.97 Aligned_cols=141 Identities=24% Similarity=0.472 Sum_probs=92.8
Q ss_pred ccCCCCccccccCCC-----CceeecCcccccccccccccCccccccccCCcccccCCCCceecccccccC---cccccc
Q 002824 211 KDENYFAVCAICDDG-----GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQE---HQCFAC 282 (876)
Q Consensus 211 edd~~d~VCaICe~g-----GeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~gq---HqCfiC 282 (876)
.++..|.+|.||.++ ..+|.||| |.-++|+.| .|+. ..+.+.|+|..|...+ ..|..|
T Consensus 214 ~~~~~D~~C~iC~~~~~~n~n~ivfCD~-Cnl~VHq~C----------ygi~---~ipeg~WlCr~Cl~s~~~~v~c~~c 279 (1051)
T KOG0955|consen 214 ALLEEDAVCCICLDGECQNSNVIVFCDG-CNLAVHQEC----------YGIP---FIPEGQWLCRRCLQSPQRPVRCLLC 279 (1051)
T ss_pred cccCCCccceeecccccCCCceEEEcCC-Ccchhhhhc----------cCCC---CCCCCcEeehhhccCcCcccceEec
Confidence 455668999999876 34999996 999999996 5642 2258999999998754 468888
Q ss_pred cccCCCCCCCCCceeccCCCccCCCCccccccccCCCCchhHHHHHHH---HhhcCCceecCCcccccCcCCcccccccc
Q 002824 283 GMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRE---RIAAGESFTCPVHKCFVCQQSEDMNVEDL 359 (876)
Q Consensus 283 gklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~~~eL~k---rI~~g~~F~CPlH~C~~C~~sedk~~~~~ 359 (876)
-..| .-|+ ...=|++-|.-|....++...... -+.. .|..-..-+ =.-+|..|+..+ -+
T Consensus 280 p~~~--------gAFk--qt~dgrw~Hv~caiwipev~F~nt--~~~E~I~~i~~i~~aR-wkL~cy~cK~~~-----~g 341 (1051)
T KOG0955|consen 280 PSKG--------GAFK--QTDDGRWAHVVCAIWIPEVSFANT--VFLEPIDSIENIPPAR-WKLTCYICKQKG-----LG 341 (1051)
T ss_pred cCCC--------Ccce--eccCCceeeeehhhcccccccccc--hhhccccchhcCcHhh-hhceeeeeccCC-----CC
Confidence 6433 3332 256789999999876654322110 0110 011111111 024689999866 24
Q ss_pred ceeec--cccccccccccC-CCCcccc
Q 002824 360 QLAIC--RRCPKAYHRKCL-PTEITFS 383 (876)
Q Consensus 360 qLi~C--~RCPkAYH~kCL-P~gi~f~ 383 (876)
..++| .+|-+|||..|. .+|+.+.
T Consensus 342 aciqcs~~~c~~a~hvtca~~agl~m~ 368 (1051)
T KOG0955|consen 342 ACIQCSKANCYTAFHVTCARRAGLYMK 368 (1051)
T ss_pred cceecchhhhhhhhhhhhHhhcCceEe
Confidence 78899 689999999997 4555554
No 6
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.55 E-value=6.1e-05 Score=88.13 Aligned_cols=50 Identities=26% Similarity=0.541 Sum_probs=37.3
Q ss_pred CCccccccCCCCceeecCcccccccccccccCccccccccCCcccccCCCCceeccccccc
Q 002824 215 YFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ 275 (876)
Q Consensus 215 ~d~VCaICe~gGeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~g 275 (876)
.-+.|.+|.++|+++||+ .|.-+||..|... .++ +-.....|.|.+|..+
T Consensus 46 ~~ts~~~~~~~gn~~~~~-~~~~s~h~~~~~~--------~~s--p~~~~~~~~~~~~~~~ 95 (613)
T KOG4299|consen 46 AATSCGICKSGGNLLCCD-HCPASFHLECDKP--------PLS--PDLKGSEINCSRCPKG 95 (613)
T ss_pred hhhhcchhhhcCCccccc-cCccccchhccCc--------ccC--cccccccccccCCCcc
Confidence 367899999999999999 7999999997432 222 1112467888888764
No 7
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.51 E-value=2.9e-05 Score=90.73 Aligned_cols=50 Identities=30% Similarity=0.689 Sum_probs=39.7
Q ss_pred CccccccCCCCce---eecCcccccccccccccCccccccccCCcccccCCCCceeccccccc
Q 002824 216 FAVCAICDDGGDV---TFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ 275 (876)
Q Consensus 216 d~VCaICe~gGeL---L~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~g 275 (876)
+++|+.|.+.|.. ||||| |+++||++|+++. ++...+ |.+.|+|++|..+
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD~-Cp~sFH~~CLePP--------l~~eni-P~g~W~C~ec~~k 305 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCDG-CPRSFHQTCLEPP--------LEPENI-PPGSWFCPECKIK 305 (613)
T ss_pred HHHHHHhCCccccccceeecC-CchHHHHhhcCCC--------CCcccC-CCCccccCCCeee
Confidence 6699999999976 99997 9999999988752 332333 4689999999843
No 8
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=97.42 E-value=4.9e-05 Score=81.48 Aligned_cols=82 Identities=24% Similarity=0.597 Sum_probs=62.6
Q ss_pred CCCCccccccCCC----------CceeecCcccccccccccccCccccccccCCccc---ccCCCCceecccccccCccc
Q 002824 213 ENYFAVCAICDDG----------GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQA---QIDAVPNFLCQNCVYQEHQC 279 (876)
Q Consensus 213 d~~d~VCaICe~g----------GeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~---ev~~~~~W~C~eC~~gqHqC 279 (876)
.+...+|.+|-.+ .+||.|. .|.|+=|+.|+. +|.. .+ ..-.|.|-+|.+ |
T Consensus 221 a~Pn~YCDFclgdsr~nkkt~~peelvscs-dcgrsghpsclq----------ft~nm~~av-k~yrwqcieck~----c 284 (336)
T KOG1244|consen 221 AQPNPYCDFCLGDSRENKKTGMPEELVSCS-DCGRSGHPSCLQ----------FTANMIAAV-KTYRWQCIECKY----C 284 (336)
T ss_pred ccCCcccceeccccccccccCCchhhcchh-hcCCCCCcchhh----------hhHHHHHHH-Hhheeeeeecce----e
Confidence 4457889999543 3699999 699999999753 3321 11 246899999995 9
Q ss_pred ccccccCCCCCCCCCceeccCCCccCCCCccccccccC
Q 002824 280 FACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLL 317 (876)
Q Consensus 280 fiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~ 317 (876)
.+||-.. ...+++.| ..|.|-||-.|+.+.+
T Consensus 285 sicgtse-----nddqllfc--ddcdrgyhmyclsppm 315 (336)
T KOG1244|consen 285 SICGTSE-----NDDQLLFC--DDCDRGYHMYCLSPPM 315 (336)
T ss_pred ccccCcC-----CCceeEee--cccCCceeeEecCCCc
Confidence 9998543 23588999 8999999999998754
No 9
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.42 E-value=4.6e-05 Score=82.07 Aligned_cols=84 Identities=19% Similarity=0.219 Sum_probs=63.8
Q ss_pred CCCccccccCCCC---------ceeecCcccccccccccccCccccccccCCcccccC--CCCceecccccccCcccccc
Q 002824 214 NYFAVCAICDDGG---------DVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQID--AVPNFLCQNCVYQEHQCFAC 282 (876)
Q Consensus 214 ~~d~VCaICe~gG---------eLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~--~~~~W~C~eC~~gqHqCfiC 282 (876)
.....|.+|-++- -+|+|. +|..++|+.|++ ++.+-+. ..-.|.|.+|. .|.+|
T Consensus 256 ~~~~~~~~~~~~~~~~~~~r~~S~I~C~-~C~~~~HP~Ci~----------M~~elv~~~KTY~W~C~~C~----lC~IC 320 (381)
T KOG1512|consen 256 QRRNERKHFWDIQTNIIQSRRNSWIVCK-PCATRPHPYCVA----------MIPELVGQYKTYFWKCSSCE----LCRIC 320 (381)
T ss_pred cchhhhhhhhcchhhhhhhhhccceeec-ccccCCCCcchh----------cCHHHHhHHhhcchhhcccH----hhhcc
Confidence 4467899997762 399999 899999999753 3322111 14689999999 69999
Q ss_pred cccCCCCCCCCCceeccCCCccCCCCccccccccCCC
Q 002824 283 GMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHP 319 (876)
Q Consensus 283 gklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~~p 319 (876)
+.+.. ..+++.| ..|.|-||..||+..-.|
T Consensus 321 ~~P~~-----E~E~~FC--D~CDRG~HT~CVGL~~lP 350 (381)
T KOG1512|consen 321 LGPVI-----ESEHLFC--DVCDRGPHTLCVGLQDLP 350 (381)
T ss_pred CCccc-----chheecc--ccccCCCCcccccccccc
Confidence 98753 4588999 899999999999865433
No 10
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.35 E-value=0.00015 Score=77.24 Aligned_cols=46 Identities=26% Similarity=0.626 Sum_probs=36.2
Q ss_pred CCccccccCCC--CceeecCcc-ccc-ccccccccCccccccccCCcccccCCCCceecccccc
Q 002824 215 YFAVCAICDDG--GDVTFCDGR-CLR-SFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 274 (876)
Q Consensus 215 ~d~VCaICe~g--GeLL~CdG~-C~R-sFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~ 274 (876)
...+|+ |.++ |+||-|||. |.| |||..| +||... |.+.|||++|..
T Consensus 220 e~lYCf-CqqvSyGqMVaCDn~nCkrEWFH~~C----------VGLk~p---PKG~WYC~eCk~ 269 (271)
T COG5034 220 EELYCF-CQQVSYGQMVACDNANCKREWFHLEC----------VGLKEP---PKGKWYCPECKK 269 (271)
T ss_pred ceeEEE-ecccccccceecCCCCCchhheeccc----------cccCCC---CCCcEeCHHhHh
Confidence 356674 8874 999999985 765 999996 688644 589999999973
No 11
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.34 E-value=8.8e-05 Score=80.42 Aligned_cols=49 Identities=27% Similarity=0.560 Sum_probs=38.9
Q ss_pred cCCCCccccccCCCCceeecCcc-cc-cccccccccCccccccccCCcccccCCCCceecccccc
Q 002824 212 DENYFAVCAICDDGGDVTFCDGR-CL-RSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 274 (876)
Q Consensus 212 dd~~d~VCaICe~gGeLL~CdG~-C~-RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~ 274 (876)
+...-.+|. |..+|++|-||+. |. .|||+.| +||+.. |.+.|+|++|..
T Consensus 217 ~e~~yC~Cn-qvsyg~Mi~CDn~~C~~eWFH~~C----------VGL~~~---PkgkWyC~~C~~ 267 (274)
T KOG1973|consen 217 DEPTYCICN-QVSYGKMIGCDNPGCPIEWFHFTC----------VGLKTK---PKGKWYCPRCKA 267 (274)
T ss_pred CCCEEEEec-ccccccccccCCCCCCcceEEEec----------cccccC---CCCcccchhhhh
Confidence 334455677 7889999999964 99 9999996 688754 478899999974
No 12
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=97.28 E-value=9.8e-05 Score=86.75 Aligned_cols=140 Identities=21% Similarity=0.458 Sum_probs=86.6
Q ss_pred CCCccccccCCCC-----ceeecCcccccccccccccCccccccccCCcccccCCCCceecccccccCcccccccccCCC
Q 002824 214 NYFAVCAICDDGG-----DVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSS 288 (876)
Q Consensus 214 ~~d~VCaICe~gG-----eLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~gqHqCfiCgklGss 288 (876)
.....|.+|+..| -|+.|. .|...||..|+. +=++.+.+ ..-|.|+.|. .|-.|+..|.
T Consensus 16 ~~~~mc~l~~s~G~~~ag~m~ac~-~c~~~yH~~cvt--------~~~~~~~l--~~gWrC~~cr----vCe~c~~~gD- 79 (694)
T KOG4443|consen 16 IVCLMCPLCGSSGKGRAGRLLACS-DCGQKYHPYCVT--------SWAQHAVL--SGGWRCPSCR----VCEACGTTGD- 79 (694)
T ss_pred hhhhhhhhhccccccccCcchhhh-hhcccCCcchhh--------HHHhHHHh--cCCcccCCce----eeeeccccCC-
Confidence 3456788887765 499999 799999999653 33333332 4559999999 5999997774
Q ss_pred CCCCCCceeccCCCccCCCCccccccccCCCCchhH---HHHHH------------HHhh--cCCceecCC-cccccCcC
Q 002824 289 DKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESL---AEELR------------ERIA--AGESFTCPV-HKCFVCQQ 350 (876)
Q Consensus 289 d~ss~~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~---~~eL~------------krI~--~g~~F~CPl-H~C~~C~~ 350 (876)
....+.| ..|.-.||-.|+.+......... ...+. -++. -..+|.|-. -+|.+|..
T Consensus 80 ----~~kf~~C--k~cDvsyh~yc~~P~~~~v~sg~~~ckk~~~c~qc~~~lpg~s~~~~~~~~~~~~c~s~~~cPvc~~ 153 (694)
T KOG4443|consen 80 ----PKKFLLC--KRCDVSYHCYCQKPPNDKVPSGPWLCKKCTRCRQCDSTLPGLSLDLQEGYLQCAPCASLSYCPVCLI 153 (694)
T ss_pred ----ccccccc--ccccccccccccCCccccccCcccccHHHHhhhhccccccccchhhhccCcccccccccccCchHHH
Confidence 3578899 89999999999976542211000 00000 0011 012333332 34444444
Q ss_pred CccccccccceeeccccccccccccC
Q 002824 351 SEDMNVEDLQLAICRRCPKAYHRKCL 376 (876)
Q Consensus 351 sedk~~~~~qLi~C~RCPkAYH~kCL 376 (876)
... ......++.|..|-++-|-.|.
T Consensus 154 ~Y~-~~e~~~~~~c~~c~rwsh~~c~ 178 (694)
T KOG4443|consen 154 VYQ-DSESLPMVCCSICQRWSHGGCD 178 (694)
T ss_pred hhh-hccchhhHHHHHhcccccCCCC
Confidence 332 1223445788999999998884
No 13
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=97.18 E-value=0.0001 Score=59.78 Aligned_cols=46 Identities=28% Similarity=0.735 Sum_probs=33.1
Q ss_pred cccccCC---CCceeecCcccccccccccccCccccccccCCcccccC-CCCceecccccc
Q 002824 218 VCAICDD---GGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQID-AVPNFLCQNCVY 274 (876)
Q Consensus 218 VCaICe~---gGeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~-~~~~W~C~eC~~ 274 (876)
+|.+|++ .+++|.|+ .|.++||..|+ +++..... ....|+|++|..
T Consensus 1 ~C~vC~~~~~~~~~i~C~-~C~~~~H~~C~----------~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCD-SCNRWYHQECV----------GPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBS-TTSCEEETTTS----------TSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcC-CCChhhCcccC----------CCChhhccCCCCcEECcCCcC
Confidence 5888987 56799999 69999999964 43322111 134899999974
No 15
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=97.17 E-value=0.0002 Score=84.38 Aligned_cols=84 Identities=27% Similarity=0.809 Sum_probs=65.9
Q ss_pred ccccCCC-C----ceeecCcc-cccccccccccCccccccccCCcccccCCCCceeccccccc-----------------
Q 002824 219 CAICDDG-G----DVTFCDGR-CLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ----------------- 275 (876)
Q Consensus 219 CaICe~g-G----eLL~CdG~-C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~g----------------- 275 (876)
|.+|-+. | -||.|||. |--+.|+.| .|+ .+| +.+.|+|.-|+..
T Consensus 8 CCVCSDErGWaeNPLVYCDG~nCsVAVHQaC----------YGI--vqV-PtGpWfCrKCesqeraarvrCeLCP~kdGA 74 (900)
T KOG0956|consen 8 CCVCSDERGWAENPLVYCDGHNCSVAVHQAC----------YGI--VQV-PTGPWFCRKCESQERAARVRCELCPHKDGA 74 (900)
T ss_pred eeeecCcCCCccCceeeecCCCceeeeehhc----------cee--Eec-CCCchhhhhhhhhhhhccceeecccCcccc
Confidence 9999653 2 49999995 999999996 677 344 5899999999743
Q ss_pred ------------------------------------------CcccccccccCCCCCCCCCceeccCCCccCCCCccccc
Q 002824 276 ------------------------------------------EHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECV 313 (876)
Q Consensus 276 ------------------------------------------qHqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL 313 (876)
...|+||.+.|-..+...+--+.|.-..|.+.||..|.
T Consensus 75 LKkTDn~GWAHVVCALYIPEVrFgNV~TMEPIiLq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCA 154 (900)
T KOG0956|consen 75 LKKTDNGGWAHVVCALYIPEVRFGNVHTMEPIILQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCA 154 (900)
T ss_pred eecccCCCceEEEEEeeccceeecccccccceeeccCchhhhcceeeeecccCCccccccccceecccccchhhhhhhHh
Confidence 13699998887655444556689999999999999998
Q ss_pred cc
Q 002824 314 SK 315 (876)
Q Consensus 314 ~~ 315 (876)
..
T Consensus 155 Q~ 156 (900)
T KOG0956|consen 155 QR 156 (900)
T ss_pred hh
Confidence 64
No 16
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=97.13 E-value=0.00037 Score=74.93 Aligned_cols=72 Identities=28% Similarity=0.712 Sum_probs=52.4
Q ss_pred CceeccCCCccCCCCccccccccCCCCchhHHHHHHHHhhcCCceecC-CcccccCcCCccccccccceeeccccccccc
Q 002824 294 QEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCP-VHKCFVCQQSEDMNVEDLQLAICRRCPKAYH 372 (876)
Q Consensus 294 ~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~~~eL~krI~~g~~F~CP-lH~C~~C~~sedk~~~~~qLi~C~RCPkAYH 372 (876)
.+++-| ..|||.=||.|+.--. .|..-| ..-.|.|= ..+|..|+.+++++ ||+-|+-|.+.||
T Consensus 244 eelvsc--sdcgrsghpsclqft~---------nm~~av-k~yrwqcieck~csicgtsendd----qllfcddcdrgyh 307 (336)
T KOG1244|consen 244 EELVSC--SDCGRSGHPSCLQFTA---------NMIAAV-KTYRWQCIECKYCSICGTSENDD----QLLFCDDCDRGYH 307 (336)
T ss_pred hhhcch--hhcCCCCCcchhhhhH---------HHHHHH-HhheeeeeecceeccccCcCCCc----eeEeecccCCcee
Confidence 478999 7999999999996322 111111 11234443 25789999988754 9999999999999
Q ss_pred cccCCCCcc
Q 002824 373 RKCLPTEIT 381 (876)
Q Consensus 373 ~kCLP~gi~ 381 (876)
.+||-++.+
T Consensus 308 myclsppm~ 316 (336)
T KOG1244|consen 308 MYCLSPPMV 316 (336)
T ss_pred eEecCCCcC
Confidence 999988764
No 17
>PHA03412 putative methyltransferase; Provisional
Probab=96.81 E-value=0.00081 Score=71.98 Aligned_cols=170 Identities=19% Similarity=0.321 Sum_probs=91.9
Q ss_pred ccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcC------CcccccCCCCCCCCC--CCcccc
Q 002824 677 SFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMG------KSCSFRNYDLIQPKN--DFSFEK 748 (876)
Q Consensus 677 s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~------~~~~~kn~d~~~~~~--~~~f~~ 748 (876)
+.|.+||+..-.+.++ -|.. .+..|||+|||+..|+-.+-++..+.. -..+-....+.. .| ...|..
T Consensus 29 ~~GqFfTP~~iAr~~~---i~~~-~~grVLDlG~GSG~Lalala~~~~~~~~~~V~aVEID~~Al~~Ar-~n~~~~~~~~ 103 (241)
T PHA03412 29 ELGAFFTPIGLARDFT---IDAC-TSGSVVDLCAGIGGLSFAMVHMMMYAKPREIVCVELNHTYYKLGK-RIVPEATWIN 103 (241)
T ss_pred cCCccCCCHHHHHHHH---Hhcc-CCCEEEEccChHHHHHHHHHHhcccCCCcEEEEEECCHHHHHHHH-hhccCCEEEE
Confidence 5799999988555544 1222 478999999999999998876532111 011110011100 00 133444
Q ss_pred ccccccCCCCCCCCCceeeecCCCcchhh-----------hhHHHHHHhhhhcCCcEEEEecCccccccc--ccccccee
Q 002824 749 RDWMTVRPEELPDGSQLIMGLNPPFGVKA-----------SLANKFISQALKFKPKLIVLIVPQETRRLD--QKASYNLI 815 (876)
Q Consensus 749 ~~w~~~~~~~l~~g~~li~glnppfg~~~-----------~~a~kfi~~~~~f~p~~~~li~p~~~~~~~--~~~~y~l~ 815 (876)
.|.+... +..-=-+|++ ||||+.-+ .+.++||.+|+..-+.=. +|+|.-.--.+ .++.|.
T Consensus 104 ~D~~~~~---~~~~FDlIIs-NPPY~~~~~~d~~ar~~g~~~~~~li~~A~~Ll~~G~-~ILP~~~~~~~y~~~~~~~-- 176 (241)
T PHA03412 104 ADALTTE---FDTLFDMAIS-NPPFGKIKTSDFKGKYTGAEFEYKVIERASQIARQGT-FIIPQMSANFRYSGTHYFR-- 176 (241)
T ss_pred cchhccc---ccCCccEEEE-CCCCCCccccccCCcccccHHHHHHHHHHHHHcCCCE-EEeCcccccCcccCcccee--
Confidence 4443322 1112248888 99999322 457889999998766655 48998665432 111221
Q ss_pred ecccccccCccc----------ccCCc-cccCcccccccccCCCceeeeecchhhHHH
Q 002824 816 WEDNEVLSGKSF----------YLPGS-LDVHDNQLEQWNCKPPPLYLWSRADWTASH 862 (876)
Q Consensus 816 ~~d~~~l~g~~f----------y~pg~-~d~~~~~~~~~n~~~p~~~lws~~d~~~~~ 862 (876)
...-..|+.+ ..||- +|. .--+++|.-+-|.. =-...|+++..
T Consensus 177 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~~~~~~ 230 (241)
T PHA03412 177 --QDESTTSSKCKKFLDETGLEMNPGCGIDT-GYYLEDWKGVKPLC-EVVCMEFNEPE 230 (241)
T ss_pred --eccCcccHHHHHHHHhcCeeecCCCCccc-eeehhhccCCCccc-eEEEEeecCcC
Confidence 1112333322 23553 342 23468898776643 33455565544
No 18
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=96.80 E-value=0.00088 Score=72.04 Aligned_cols=152 Identities=18% Similarity=0.270 Sum_probs=95.8
Q ss_pred ccccCcccc-hhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHH-cCCcccccCCCCCC---CCCCCccccc
Q 002824 675 YTSFGRHFT-KVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCSFRNYDLIQ---PKNDFSFEKR 749 (876)
Q Consensus 675 y~s~grhft-~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~-~~~~~~~kn~d~~~---~~~~~~f~~~ 749 (876)
-.+||.||. ...-+..|++.+. +.+|++|+|+.||...++..+-++..+ ++.+.+-.-.+... ....+.+...
T Consensus 17 ~k~~gq~fl~~~~i~~~i~~~l~--~~~~~~VLEiG~G~G~lt~~L~~~~~~v~avE~d~~~~~~~~~~~~~~~v~~i~~ 94 (272)
T PRK00274 17 KKSLGQNFLIDENILDKIVDAAG--PQPGDNVLEIGPGLGALTEPLLERAAKVTAVEIDRDLAPILAETFAEDNLTIIEG 94 (272)
T ss_pred CcccCcCcCCCHHHHHHHHHhcC--CCCcCeEEEeCCCccHHHHHHHHhCCcEEEEECCHHHHHHHHHhhccCceEEEEC
Confidence 357999995 4556677888774 578999999999999999888765210 00000000000000 0145778888
Q ss_pred cccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhc--CCcEEEEecCccc-cccccccc---cc---------e
Q 002824 750 DWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKF--KPKLIVLIVPQET-RRLDQKAS---YN---------L 814 (876)
Q Consensus 750 ~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f--~p~~~~li~p~~~-~~~~~~~~---y~---------l 814 (876)
|++++...++. ..+|+| ||||+. +..+|.+.|.. ...-++|++..|+ +||=.+.+ |. .
T Consensus 95 D~~~~~~~~~~--~~~vv~-NlPY~i----ss~ii~~~l~~~~~~~~~~l~~QkE~A~Rl~a~pg~~~y~~lSv~~~~~~ 167 (272)
T PRK00274 95 DALKVDLSELQ--PLKVVA-NLPYNI----TTPLLFHLLEERDPIRDMVVMVQKEVAERIVAKPGSKAYGRLSVLVQYYC 167 (272)
T ss_pred hhhcCCHHHcC--cceEEE-eCCccc----hHHHHHHHHhcCCCCCeeEEEeHHHHHHHHcCCCCCccccHHHHHHHHHc
Confidence 88887665543 357888 999995 45555555543 2456889999888 67743322 31 2
Q ss_pred eecccccccCcccccCCcccc
Q 002824 815 IWEDNEVLSGKSFYLPGSLDV 835 (876)
Q Consensus 815 ~~~d~~~l~g~~fy~pg~~d~ 835 (876)
-++--.-++..+||=|--||.
T Consensus 168 ~~~~~~~v~~~~F~P~PkV~s 188 (272)
T PRK00274 168 DVEKVFDVPPSAFVPPPKVDS 188 (272)
T ss_pred ceEEEEEeChhhCCCCCCceE
Confidence 233344577888888777764
No 19
>PF02384 N6_Mtase: N-6 DNA Methylase; InterPro: IPR003356 This domain is fpound in N-6 adenine-specific DNA methylase (2.1.1.72 from EC) from Type I and Type IC restriction systems. These enzymes are responsible for the methylation of specific DNA sequences in order to prevent the host from digesting its own genome via its restriction enzymes. These methylases have the same sequence specificity as their corresponding restriction enzymes. The type I restriction and modification system is composed of three polypeptides R, M and S. The M and S subunits together form a methyltransferase that methylates two adenine residues in complementary strands of a bipartite DNA recognition sequence. In the presence of the R subunit, the complex can also act as an endonuclease, binding to the same target sequence but cutting the DNA some distance from this site. Whether the DNA is cut or modified depends on the methylation state of the target sequence. When the target site is unmodified, the DNA is cut. When the target site is hemimethylated, the complex acts as a maintenance methyltransferase, modifying the DNA so that both strands become methylated.; GO: 0003677 DNA binding, 0008170 N-methyltransferase activity, 0006306 DNA methylation; PDB: 2F8L_A 2Y7C_C 2Y7H_C 2AR0_B 3KHK_A 3LKD_A 2OKC_B.
Probab=96.78 E-value=0.001 Score=72.01 Aligned_cols=123 Identities=22% Similarity=0.361 Sum_probs=65.7
Q ss_pred ccccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHH-----cCCcccccCCCC------------
Q 002824 675 YTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQ-----MGKSCSFRNYDL------------ 737 (876)
Q Consensus 675 y~s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~-----~~~~~~~kn~d~------------ 737 (876)
..+.|.+||+.+-..-+++.+ -..+|++|+|+|||+..|.--.-+.+.+ ......+ .|+
T Consensus 22 ~k~~G~~~TP~~i~~l~~~~~--~~~~~~~VlDPacGsG~fL~~~~~~i~~~~~~~~~~~i~G--~ei~~~~~~la~~nl 97 (311)
T PF02384_consen 22 RKKLGQFYTPREIVDLMVKLL--NPKKGDSVLDPACGSGGFLVAAMEYIKEKRNKIKEINIYG--IEIDPEAVALAKLNL 97 (311)
T ss_dssp TTSCGGC---HHHHHHHHHHH--TT-TTEEEEETT-TTSHHHHHHHHHHHTCHHHHCCEEEEE--EES-HHHHHHHHHHH
T ss_pred ccccceeehHHHHHHHHHhhh--hccccceeechhhhHHHHHHHHHHhhcccccccccceeEe--ecCcHHHHHHHHhhh
Confidence 357899999998888788877 5567889999999999997666665421 1111110 111
Q ss_pred ----CCCCCCCccccccccccCCCCCCCCCceeeecCCCcchh--h------------------hhHHHHHHhhhhcCCc
Q 002824 738 ----IQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVK--A------------------SLANKFISQALKFKPK 793 (876)
Q Consensus 738 ----~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~--~------------------~~a~kfi~~~~~f~p~ 793 (876)
+. .+.+++...|.+.-....-...=.+|+| |||||.. . ..-.-||.+++.+--+
T Consensus 98 ~l~~~~-~~~~~i~~~d~l~~~~~~~~~~~D~ii~-NPPf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fi~~~l~~Lk~ 175 (311)
T PF02384_consen 98 LLHGID-NSNINIIQGDSLENDKFIKNQKFDVIIG-NPPFGSKEWKDEELEKDERFKKYFPPKSNAEYAFIEHALSLLKP 175 (311)
T ss_dssp HHTTHH-CBGCEEEES-TTTSHSCTST--EEEEEE-E--CTCES-STGGGCTTCCCTTCSSSTTEHHHHHHHHHHHTEEE
T ss_pred hhhccc-cccccccccccccccccccccccccccC-CCCccccccccccccccccccccCCCccchhhhhHHHHHhhccc
Confidence 00 1112233344433222111223347888 9999988 1 1112499999976432
Q ss_pred --EEEEecCccc
Q 002824 794 --LIVLIVPQET 803 (876)
Q Consensus 794 --~~~li~p~~~ 803 (876)
.+++|+|+..
T Consensus 176 ~G~~~~Ilp~~~ 187 (311)
T PF02384_consen 176 GGRAAIILPNGF 187 (311)
T ss_dssp EEEEEEEEEHHH
T ss_pred ccceeEEecchh
Confidence 5778888764
No 20
>TIGR02987 met_A_Alw26 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family. Members of this family are the m6-adenine DNA methyltransferase protein, or domain of a fusion protein that also carries m5 cytosine methyltransferase activity, of type II restriction systems of the Alw26I/Eco31I/Esp3I family. A methyltransferase of this family is alway accompanied by a type II restriction endonuclease from the Alw26I/Eco31I/Esp3I family (TIGR02986) and by an adenine-specific modification methyltransferase. Members of this family are unusual in that regions of similarity to homologs outside this family are circularly permuted.
Probab=96.67 E-value=0.0061 Score=71.28 Aligned_cols=50 Identities=26% Similarity=0.473 Sum_probs=41.0
Q ss_pred ccCcccchhhhHHHHHHhhccccc-----cCCeEEeeccCcchhhHHHHHHHHHc
Q 002824 677 SFGRHFTKVEKLKEIVDRLHWYVR-----SGDTIVDFCCGANDFSCMMKVKLEQM 726 (876)
Q Consensus 677 s~grhft~~ekl~~i~~~l~~~~~-----~~d~~vd~~cg~~~f~~l~~~~~~~~ 726 (876)
+.|.+||++.-.+.|++.+.-+.. .+.+|+|.|||+..|...+-+++.+.
T Consensus 2 ~~GqfyTP~~ia~~mv~~~~~~~~~~~~~~~~~ilDP~cGsG~fl~~~~~~~~~~ 56 (524)
T TIGR02987 2 AYGTFFTPPDIAKAMVANLVNEIGKNDKSTKTKIIDPCCGDGRLIAALLKKNEEI 56 (524)
T ss_pred CCcccCCcHHHHHHHHHHHhhhcchhhcccceEEEeCCCCccHHHHHHHHHHHhc
Confidence 689999999999999988755433 34489999999999999888887653
No 21
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=96.58 E-value=0.00093 Score=80.37 Aligned_cols=52 Identities=35% Similarity=0.796 Sum_probs=39.5
Q ss_pred cCCCCccccccCCCCceeecCcccccccccccccCccccccccCCcccccCCCCceeccccccc
Q 002824 212 DENYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ 275 (876)
Q Consensus 212 dd~~d~VCaICe~gGeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~g 275 (876)
++.....|.||.++|++|+|+ .|+.+||..|+ +....+. +++.|+|+.|.--
T Consensus 43 ~~~~~e~c~ic~~~g~~l~c~-tC~~s~h~~cl----------~~pl~~~-p~~~~~c~Rc~~p 94 (696)
T KOG0383|consen 43 DDAEQEACRICADGGELLWCD-TCPASFHASCL----------GPPLTPQ-PNGEFICPRCFCP 94 (696)
T ss_pred chhhhhhhhhhcCCCcEEEec-cccHHHHHHcc----------CCCCCcC-CccceeeeeeccC
Confidence 445578899999999999999 89999999964 3332333 3455999999543
No 22
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=96.28 E-value=0.0072 Score=61.58 Aligned_cols=26 Identities=31% Similarity=0.494 Sum_probs=22.1
Q ss_pred ccccceeeccccccccccccCCCCcc
Q 002824 356 VEDLQLAICRRCPKAYHRKCLPTEIT 381 (876)
Q Consensus 356 ~~~~qLi~C~RCPkAYH~kCLP~gi~ 381 (876)
..+.-|++|..|-+|||...||+...
T Consensus 119 N~~nVLFRC~~C~RawH~~HLP~~~~ 144 (175)
T PF15446_consen 119 NPDNVLFRCTSCHRAWHFEHLPPPSG 144 (175)
T ss_pred ChhheEEecCCccceeehhhCCCCcC
Confidence 35668999999999999999998653
No 23
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=95.96 E-value=0.016 Score=61.64 Aligned_cols=146 Identities=22% Similarity=0.371 Sum_probs=94.0
Q ss_pred cccCccc-chhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCC-----------CCCCCC
Q 002824 676 TSFGRHF-TKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDL-----------IQPKND 743 (876)
Q Consensus 676 ~s~grhf-t~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~-----------~~~~~~ 743 (876)
.+||-|| +...-+.+|++.+. +.+|++|+|+.||...++..|-++.. .. --+|+ ++....
T Consensus 5 k~~gq~fl~d~~i~~~i~~~~~--~~~~~~VLEiG~G~G~lt~~L~~~~~----~v--~~iE~d~~~~~~l~~~~~~~~~ 76 (253)
T TIGR00755 5 KSLGQNFLIDESVIQKIVEAAN--VLEGDVVLEIGPGLGALTEPLLKRAK----KV--TAIEIDPRLAEILRKLLSLYER 76 (253)
T ss_pred CCCCCccCCCHHHHHHHHHhcC--CCCcCEEEEeCCCCCHHHHHHHHhCC----cE--EEEECCHHHHHHHHHHhCcCCc
Confidence 4689998 66778888888875 36899999999999999999977631 11 00111 111234
Q ss_pred CccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhh-hcCCcEEEEecCccc-cccccccc---ccee---
Q 002824 744 FSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQAL-KFKPKLIVLIVPQET-RRLDQKAS---YNLI--- 815 (876)
Q Consensus 744 ~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~-~f~p~~~~li~p~~~-~~~~~~~~---y~l~--- 815 (876)
+.+...|.+.+...++.. .-+|+| |+||. .+...+.+.+ ...+...+|++..|+ +||=.+.+ |..+
T Consensus 77 v~v~~~D~~~~~~~~~d~-~~~vvs-NlPy~----i~~~il~~ll~~~~~~~~~~~~q~e~a~Rl~a~pg~~~y~~lsv~ 150 (253)
T TIGR00755 77 LEVIEGDALKVDLPDFPK-QLKVVS-NLPYN----ISSPLIFKLLEKPKFRLAVLMVQKEVAERLTAKPGSKDYGRLSVL 150 (253)
T ss_pred EEEEECchhcCChhHcCC-cceEEE-cCChh----hHHHHHHHHhccCCCceEEEEehHHHHHHHccCCCCCcccHHHHH
Confidence 555666666655443321 247888 99999 4555666666 667788899999883 45532221 3221
Q ss_pred ------ecccccccCcccccCCcccc
Q 002824 816 ------WEDNEVLSGKSFYLPGSLDV 835 (876)
Q Consensus 816 ------~~d~~~l~g~~fy~pg~~d~ 835 (876)
.+--..++..+||-|-.||.
T Consensus 151 ~~~~~~~~~~~~v~~~~F~P~PkVds 176 (253)
T TIGR00755 151 VQYFANVEIVFKVPPSAFYPPPKVDS 176 (253)
T ss_pred HHHHcceEEEEEEchhhCcCCCCeeE
Confidence 12234577889999988874
No 24
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=95.93 E-value=0.0043 Score=66.27 Aligned_cols=149 Identities=17% Similarity=0.239 Sum_probs=86.1
Q ss_pred cccCccc-chhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHH-cCCcccccCCCC----CCCCCCCccccc
Q 002824 676 TSFGRHF-TKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCSFRNYDL----IQPKNDFSFEKR 749 (876)
Q Consensus 676 ~s~grhf-t~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~-~~~~~~~kn~d~----~~~~~~~~f~~~ 749 (876)
.+||.|| +.+.-+..|++.+. +.+|+.|+|+.||...++..|-++... ++.+.+-.-++. +....++.|...
T Consensus 5 k~~GQnfl~d~~~~~~iv~~~~--~~~~~~VLEIG~G~G~lt~~L~~~~~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~ 82 (258)
T PRK14896 5 KKLGQHFLIDDRVVDRIVEYAE--DTDGDPVLEIGPGKGALTDELAKRAKKVYAIELDPRLAEFLRDDEIAAGNVEIIEG 82 (258)
T ss_pred CcCCccccCCHHHHHHHHHhcC--CCCcCeEEEEeCccCHHHHHHHHhCCEEEEEECCHHHHHHHHHHhccCCCEEEEEe
Confidence 3799999 67778899999875 678999999999999999988775110 001111000000 000123555555
Q ss_pred cccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEecCcc-cccccccc-----c-cceee------
Q 002824 750 DWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIVPQE-TRRLDQKA-----S-YNLIW------ 816 (876)
Q Consensus 750 ~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~p~~-~~~~~~~~-----~-y~l~~------ 816 (876)
|.+.+....+ .+|+| ||||+.- ...+.+.+.+...-.+|.+..| .+|+=.+. + ..+++
T Consensus 83 D~~~~~~~~~----d~Vv~-NlPy~i~----s~~~~~l~~~~~~~~~l~~q~e~A~rl~a~~g~~~yg~lsv~~~~~~~~ 153 (258)
T PRK14896 83 DALKVDLPEF----NKVVS-NLPYQIS----SPITFKLLKHGFEPAVLMYQKEFAERMVAKPGTKEYGRLSVMVQYYADV 153 (258)
T ss_pred ccccCCchhc----eEEEE-cCCcccC----cHHHHHHHhhccceeEEEeeHHHHHHhcCCCCCccccHHHHHHHHHeee
Confidence 6655443222 47888 9999864 4445555555444345555544 34553222 2 22221
Q ss_pred cccccccCcccccCCcccc
Q 002824 817 EDNEVLSGKSFYLPGSLDV 835 (876)
Q Consensus 817 ~d~~~l~g~~fy~pg~~d~ 835 (876)
+--..+....|+-|-.||.
T Consensus 154 ~~~~~v~~~~F~P~PkV~s 172 (258)
T PRK14896 154 EIVEKVPPGAFSPKPKVDS 172 (258)
T ss_pred EEEEEeChHhCCCCCCceE
Confidence 2223466778887777763
No 25
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=95.90 E-value=0.0035 Score=77.47 Aligned_cols=34 Identities=29% Similarity=0.630 Sum_probs=30.5
Q ss_pred ccCCCCccccccCCCCceeecCccccccccccccc
Q 002824 211 KDENYFAVCAICDDGGDVTFCDGRCLRSFHATITA 245 (876)
Q Consensus 211 edd~~d~VCaICe~gGeLL~CdG~C~RsFH~~Cl~ 245 (876)
.....+++|.+|.+.|+++||+ .|+|.+|..|..
T Consensus 339 ~~~~~ddhcrf~~d~~~~lc~E-t~prvvhlEcv~ 372 (1414)
T KOG1473|consen 339 GEIEYDDHCRFCHDLGDLLCCE-TCPRVVHLECVF 372 (1414)
T ss_pred cceeecccccccCcccceeecc-cCCceEEeeecC
Confidence 4667799999999999999999 799999999864
No 26
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=95.50 E-value=0.028 Score=61.76 Aligned_cols=150 Identities=18% Similarity=0.279 Sum_probs=95.4
Q ss_pred ccccc-cccCccc-chhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCC----------
Q 002824 671 HGMRY-TSFGRHF-TKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLI---------- 738 (876)
Q Consensus 671 ~g~ry-~s~grhf-t~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~---------- 738 (876)
||+|. .++|.|| +.+.-+..|++.+. +.+||+|+|+-||...+...+-++ +. ..--+|+-
T Consensus 6 ~~~~~kk~~GQnFL~d~~i~~~Iv~~~~--~~~~~~VLEIG~G~G~LT~~Ll~~----~~--~V~avEiD~~li~~l~~~ 77 (294)
T PTZ00338 6 SGMVFNKKFGQHILKNPLVLDKIVEKAA--IKPTDTVLEIGPGTGNLTEKLLQL----AK--KVIAIEIDPRMVAELKKR 77 (294)
T ss_pred CCcCcCCCCCccccCCHHHHHHHHHhcC--CCCcCEEEEecCchHHHHHHHHHh----CC--cEEEEECCHHHHHHHHHH
Confidence 45553 3999999 67888999999875 679999999999999998777553 11 01111110
Q ss_pred ----CCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEecCccc-cccccccc--
Q 002824 739 ----QPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIVPQET-RRLDQKAS-- 811 (876)
Q Consensus 739 ----~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~p~~~-~~~~~~~~-- 811 (876)
.....+.+...|.+.+...++ ..|++ ||||.+-..+--+.+.... ..+-.+|++-.|+ +||=.+.+
T Consensus 78 ~~~~~~~~~v~ii~~Dal~~~~~~~----d~Vva-NlPY~Istpil~~ll~~~~--~~~~~vlm~QkEvA~Rl~A~pg~k 150 (294)
T PTZ00338 78 FQNSPLASKLEVIEGDALKTEFPYF----DVCVA-NVPYQISSPLVFKLLAHRP--LFRCAVLMFQKEFALRLLAQPGDE 150 (294)
T ss_pred HHhcCCCCcEEEEECCHhhhccccc----CEEEe-cCCcccCcHHHHHHHhcCC--CCceeeeeehHHHHHHHhcCCCCc
Confidence 002346666677776543332 36666 9999966655554443322 3456788888887 78733322
Q ss_pred -cc---eee------cccccccCcccccCCcccc
Q 002824 812 -YN---LIW------EDNEVLSGKSFYLPGSLDV 835 (876)
Q Consensus 812 -y~---l~~------~d~~~l~g~~fy~pg~~d~ 835 (876)
|. ++| +--..++..+||=|=-||-
T Consensus 151 ~y~~LSv~~q~~~~~~~~~~V~~~~F~P~PkVdS 184 (294)
T PTZ00338 151 LYCRLSVNTQLLCRVTHLMKVSKNSFNPPPKVES 184 (294)
T ss_pred ccCHHHHHHHHHhceEEEEEeCchhCCCCCCcEE
Confidence 42 222 3335578889998887773
No 28
>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase. It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.
Probab=95.47 E-value=0.0096 Score=60.59 Aligned_cols=106 Identities=22% Similarity=0.409 Sum_probs=54.2
Q ss_pred HHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcC------------Ccccc-------cCCCCCCCCCCCccccccc
Q 002824 691 IVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMG------------KSCSF-------RNYDLIQPKNDFSFEKRDW 751 (876)
Q Consensus 691 i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~------------~~~~~-------kn~d~~~~~~~~~f~~~~w 751 (876)
++..--| ++|+.|+|.+||+.+|....--.....- .+.+- .|..-..-.+...|...|.
T Consensus 20 ll~la~~--~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D~ 97 (179)
T PF01170_consen 20 LLNLAGW--RPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWDA 97 (179)
T ss_dssp HHHHTT----TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--G
T ss_pred HHHHhCC--CCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecch
Confidence 4444444 7899999999999999854432221111 11110 1111112233445666666
Q ss_pred cccCCCCCCCCCceeeecCCCcchhhhh-------HHHHHHhhhh-cCCcEEEEecCc
Q 002824 752 MTVRPEELPDGSQLIMGLNPPFGVKASL-------ANKFISQALK-FKPKLIVLIVPQ 801 (876)
Q Consensus 752 ~~~~~~~l~~g~~li~glnppfg~~~~~-------a~kfi~~~~~-f~p~~~~li~p~ 801 (876)
..+. ++.|+-=++--|||||.+... -.+|.+.+-. ++|..++|++..
T Consensus 98 ~~l~---~~~~~~d~IvtnPPyG~r~~~~~~~~~ly~~~~~~~~~~l~~~~v~l~~~~ 152 (179)
T PF01170_consen 98 RELP---LPDGSVDAIVTNPPYGRRLGSKKDLEKLYRQFLRELKRVLKPRAVFLTTSN 152 (179)
T ss_dssp GGGG---GTTSBSCEEEEE--STTSHCHHHHHHHHHHHHHHHHHCHSTTCEEEEEESC
T ss_pred hhcc---cccCCCCEEEECcchhhhccCHHHHHHHHHHHHHHHHHHCCCCEEEEEECC
Confidence 6555 445665556669999998643 3456666666 888666666554
No 29
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=94.88 E-value=0.022 Score=46.24 Aligned_cols=34 Identities=35% Similarity=0.774 Sum_probs=27.9
Q ss_pred ccccCcCCccccccccceeeccccccccccccCCCCcc
Q 002824 344 KCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEIT 381 (876)
Q Consensus 344 ~C~~C~~sedk~~~~~qLi~C~RCPkAYH~kCLP~gi~ 381 (876)
+|.+|++.++ +..++.|..|..+||..|+.+...
T Consensus 1 ~C~vC~~~~~----~~~~i~C~~C~~~~H~~C~~~~~~ 34 (51)
T PF00628_consen 1 YCPVCGQSDD----DGDMIQCDSCNRWYHQECVGPPEK 34 (51)
T ss_dssp EBTTTTSSCT----TSSEEEBSTTSCEEETTTSTSSHS
T ss_pred eCcCCCCcCC----CCCeEEcCCCChhhCcccCCCChh
Confidence 4888988443 458999999999999999988654
No 30
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.80 E-value=0.017 Score=69.53 Aligned_cols=47 Identities=23% Similarity=0.605 Sum_probs=35.0
Q ss_pred CccccccCCCCc---eeecCcccccc-cccccccCccccccccCCcccccCCCCceecccccc
Q 002824 216 FAVCAICDDGGD---VTFCDGRCLRS-FHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 274 (876)
Q Consensus 216 d~VCaICe~gGe---LL~CdG~C~Rs-FH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~ 274 (876)
..-|.||+...- ||.|++ |... ||..|++. .+. ++ +.+.|||.+|..
T Consensus 215 ~~~C~IC~~~DpEdVLLLCDs-CN~~~YH~YCLDP--------dl~--ei-P~~eWYC~NC~d 265 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCDS-CNKVYYHVYCLDP--------DLS--ES-PVNEWYCTNCSL 265 (1134)
T ss_pred cccceeeccCChHHhheeecc-cccceeeccccCc--------ccc--cc-cccceecCcchh
Confidence 456999998753 999995 9988 99997542 222 22 468999999973
No 31
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=94.76 E-value=0.013 Score=67.75 Aligned_cols=53 Identities=21% Similarity=0.489 Sum_probs=37.5
Q ss_pred CCCccccccCCCC-----ceeecCcccccccccccccCccccccccCCccccc-CCCCceeccccccc
Q 002824 214 NYFAVCAICDDGG-----DVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQI-DAVPNFLCQNCVYQ 275 (876)
Q Consensus 214 ~~d~VCaICe~gG-----eLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev-~~~~~W~C~eC~~g 275 (876)
..+..|.+|..|| .||.|+| |..+||..|.... ++.+.. ++...|+|..|.++
T Consensus 166 ~~n~qc~vC~~g~~~~~NrmlqC~~-C~~~fHq~Chqp~--------i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 166 KVNLQCSVCYCGGPGAGNRMLQCDK-CRQWYHQACHQPL--------IKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred cccceeeeeecCCcCccceeeeecc-cccHHHHHhccCC--------CCHhhccCccceEeehhhccc
Confidence 3344599998664 5999995 9999999986532 122221 24679999999875
No 32
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.49 E-value=0.017 Score=62.87 Aligned_cols=69 Identities=22% Similarity=0.490 Sum_probs=46.9
Q ss_pred CceeccCCCccCCCCccccccccCCCCchhHHHHHHHHhhcCCceecCC-cccccCcCCccccccccceeeccccccccc
Q 002824 294 QEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPV-HKCFVCQQSEDMNVEDLQLAICRRCPKAYH 372 (876)
Q Consensus 294 ~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~~~eL~krI~~g~~F~CPl-H~C~~C~~sedk~~~~~qLi~C~RCPkAYH 372 (876)
..++.| +.|-..|||.|+.-.+ +|..-+ .--.|.|-- ..|..|.+... +..++-|++|.+.||
T Consensus 277 ~S~I~C--~~C~~~~HP~Ci~M~~---------elv~~~-KTY~W~C~~C~lC~IC~~P~~----E~E~~FCD~CDRG~H 340 (381)
T KOG1512|consen 277 NSWIVC--KPCATRPHPYCVAMIP---------ELVGQY-KTYFWKCSSCELCRICLGPVI----ESEHLFCDVCDRGPH 340 (381)
T ss_pred ccceee--cccccCCCCcchhcCH---------HHHhHH-hhcchhhcccHhhhccCCccc----chheeccccccCCCC
Confidence 357778 8999999999997543 121111 112355532 45777777653 447889999999999
Q ss_pred cccCCC
Q 002824 373 RKCLPT 378 (876)
Q Consensus 373 ~kCLP~ 378 (876)
+.|+-.
T Consensus 341 T~CVGL 346 (381)
T KOG1512|consen 341 TLCVGL 346 (381)
T ss_pred cccccc
Confidence 999733
No 33
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=94.13 E-value=0.029 Score=67.67 Aligned_cols=33 Identities=33% Similarity=0.837 Sum_probs=28.0
Q ss_pred ccccCcCCccccccccceeeccccccc-cccccCCCCc
Q 002824 344 KCFVCQQSEDMNVEDLQLAICRRCPKA-YHRKCLPTEI 380 (876)
Q Consensus 344 ~C~~C~~sedk~~~~~qLi~C~RCPkA-YH~kCLP~gi 380 (876)
.|..|..... +.-|+.|+-|..+ ||.+||+++.
T Consensus 217 ~C~IC~~~Dp----EdVLLLCDsCN~~~YH~YCLDPdl 250 (1134)
T KOG0825|consen 217 KCDICTVHDP----EDVLLLCDSCNKVYYHVYCLDPDL 250 (1134)
T ss_pred cceeeccCCh----HHhheeecccccceeeccccCccc
Confidence 6888888654 4579999999999 9999999965
No 34
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=93.74 E-value=0.039 Score=51.61 Aligned_cols=105 Identities=22% Similarity=0.401 Sum_probs=60.3
Q ss_pred ccccccccCCCCCCCCCceeccCCCccCCCCccccccccCCCCchhHHHHHH-HHhhcCCceecCCcccccCcCCccccc
Q 002824 278 QCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELR-ERIAAGESFTCPVHKCFVCQQSEDMNV 356 (876)
Q Consensus 278 qCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~~~eL~-krI~~g~~F~CPlH~C~~C~~sedk~~ 356 (876)
.|.+|+..| +.++- ..-+.+.|.-|....+.....+.. .++ ..+.....-+ -...|..|+...
T Consensus 2 ~C~lC~~~~--------Galk~--t~~~~WvHv~Cal~~~~~~~~~~~-~~~~v~~~~i~~~~-~~~~C~iC~~~~---- 65 (110)
T PF13832_consen 2 SCVLCPKRG--------GALKR--TSDGQWVHVLCALWIPEVIFNNGE-SMEPVDISNIPPSR-FKLKCSICGKSG---- 65 (110)
T ss_pred ccEeCCCCC--------CcccC--ccCCcEEEeEccceeCccEEeech-hcCcccceeecchh-cCCcCcCCCCCC----
Confidence 588998654 33444 236899999999876543222110 110 0010000000 135789999853
Q ss_pred cccceeeccc--cccccccccCCC-CcccccccchhhhhhhhccCCCCceeEEccCC
Q 002824 357 EDLQLAICRR--CPKAYHRKCLPT-EITFSDADENNFQRAWVDLLPNNRILIYCLEH 410 (876)
Q Consensus 357 ~~~qLi~C~R--CPkAYH~kCLP~-gi~f~~~~~e~~~raW~~ll~~~riLI~C~kH 410 (876)
+..++|.. |.++||..|.-. +..+.....+ .+....+||.+|
T Consensus 66 --G~~i~C~~~~C~~~fH~~CA~~~g~~~~~~~~~----------~~~~~~~~C~~H 110 (110)
T PF13832_consen 66 --GACIKCSHPGCSTAFHPTCARKAGLYFEIENEE----------DNVQFIAYCPKH 110 (110)
T ss_pred --ceeEEcCCCCCCcCCCHHHHHHCCCeEEeeecC----------CCceEEEECCCC
Confidence 47899999 999999999743 3332211110 023678999988
No 35
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=93.39 E-value=0.21 Score=53.60 Aligned_cols=159 Identities=23% Similarity=0.367 Sum_probs=91.3
Q ss_pred ccccCcccc-hhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHHc---CCc-----------ccccCCCCCC
Q 002824 675 YTSFGRHFT-KVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQM---GKS-----------CSFRNYDLIQ 739 (876)
Q Consensus 675 y~s~grhft-~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~---~~~-----------~~~kn~d~~~ 739 (876)
..++|-||- .+.-+..|++.+..- +|++|||+-.|...+++.|-++...+ ..+ -...|+.+|
T Consensus 5 kk~~gQnFL~~~~~~~~Iv~~~~~~--~~~~VlEiGpG~G~lT~~L~~~~~~v~~vE~d~~~~~~L~~~~~~~~~~~vi- 81 (262)
T PF00398_consen 5 KKSLGQNFLVDPNIADKIVDALDLS--EGDTVLEIGPGPGALTRELLKRGKRVIAVEIDPDLAKHLKERFASNPNVEVI- 81 (262)
T ss_dssp -CGCTSSEEEHHHHHHHHHHHHTCG--TTSEEEEESSTTSCCHHHHHHHSSEEEEEESSHHHHHHHHHHCTTCSSEEEE-
T ss_pred CCCCCcCeeCCHHHHHHHHHhcCCC--CCCEEEEeCCCCccchhhHhcccCcceeecCcHhHHHHHHHHhhhcccceee-
Confidence 357999997 556788899998655 99999999999999999987664110 000 023344444
Q ss_pred CCCCCccccccccccCCCC-CCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEecCcc-cccccccc-----c-
Q 002824 740 PKNDFSFEKRDWMTVRPEE-LPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIVPQE-TRRLDQKA-----S- 811 (876)
Q Consensus 740 ~~~~~~f~~~~w~~~~~~~-l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~p~~-~~~~~~~~-----~- 811 (876)
..|.++++..+ +....-+|+| |.||..-..+-.+++. ...+...-++|+++.| .+||-.+. +
T Consensus 82 --------~~D~l~~~~~~~~~~~~~~vv~-NlPy~is~~il~~ll~-~~~~g~~~~~l~vq~e~a~rl~a~pg~~~~~~ 151 (262)
T PF00398_consen 82 --------NGDFLKWDLYDLLKNQPLLVVG-NLPYNISSPILRKLLE-LYRFGRVRMVLMVQKEVAERLLAKPGSKRYSR 151 (262)
T ss_dssp --------ES-TTTSCGGGHCSSSEEEEEE-EETGTGHHHHHHHHHH-HGGGCEEEEEEEEEHHHHHHHHTSTTSTTCSH
T ss_pred --------ecchhccccHHhhcCCceEEEE-EecccchHHHHHHHhh-cccccccceEEEEehhhhhhccCCCCCCccch
Confidence 45555555554 4556677888 9999755555555554 1122224556666655 45653322 2
Q ss_pred ccee------ecccccccCcccccCCccccCcccccccccCCCc
Q 002824 812 YNLI------WEDNEVLSGKSFYLPGSLDVHDNQLEQWNCKPPP 849 (876)
Q Consensus 812 y~l~------~~d~~~l~g~~fy~pg~~d~~~~~~~~~n~~~p~ 849 (876)
..++ ++--.-++...||=|-.||. ++=+..-.+.+
T Consensus 152 lsv~~q~~~~i~~l~~v~~~~F~P~PkVds---~vv~l~p~~~~ 192 (262)
T PF00398_consen 152 LSVLAQAFFDIKLLFKVPPSCFYPPPKVDS---AVVRLTPKENP 192 (262)
T ss_dssp HHHHHHHHEEEEEEEEE-GGGEESSSSS-E---EEEEEEE-SSC
T ss_pred hhhhhhhhhceeEecccCCccccCCCCCce---EEEEEEECCCC
Confidence 2222 22333456667776666664 33334444443
No 36
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=93.08 E-value=0.014 Score=66.53 Aligned_cols=81 Identities=22% Similarity=0.521 Sum_probs=53.7
Q ss_pred cccccCCC--CceeecCcccccccccccccCccccc-cccCCccccc-CCCCceecccccc-cCcccccccccCCCCCCC
Q 002824 218 VCAICDDG--GDVTFCDGRCLRSFHATITAGKNALC-QSLGYTQAQI-DAVPNFLCQNCVY-QEHQCFACGMLGSSDKSS 292 (876)
Q Consensus 218 VCaICe~g--GeLL~CdG~C~RsFH~~Cl~g~~s~C-~sLGlT~~ev-~~~~~W~C~eC~~-gqHqCfiCgklGssd~ss 292 (876)
+|..|.++ |+-.-|. -=.+.||..|..=.. | ..|.- ... .-++.-+|..|-. -...|.+|++.-.
T Consensus 276 iC~~C~K~V~g~~~ac~-Am~~~fHv~CFtC~~--C~r~L~G--q~FY~v~~k~~CE~cyq~tlekC~~Cg~~I~----- 345 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVE-AMDQLFHVQCFTCRT--CRRQLAG--QSFYQVDGKPYCEGCYQDTLEKCNKCGEPIM----- 345 (468)
T ss_pred hhhhcCCcccCcchHHH-HhhhhhcccceehHh--hhhhhcc--ccccccCCcccchHHHHHHHHHHhhhhhHHH-----
Confidence 89999886 7777786 457999999864100 2 01111 000 1146788999964 3578999998642
Q ss_pred CCceeccCCCccCCCCccccc
Q 002824 293 SQEVFPCVSATCGQFYHPECV 313 (876)
Q Consensus 293 ~~eV~kCsv~~CGkfYH~~CL 313 (876)
..++ ..||+.||+.|.
T Consensus 346 -d~iL----rA~GkayHp~CF 361 (468)
T KOG1701|consen 346 -DRIL----RALGKAYHPGCF 361 (468)
T ss_pred -HHHH----HhcccccCCCce
Confidence 2344 479999999976
No 37
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=93.04 E-value=0.045 Score=66.40 Aligned_cols=81 Identities=27% Similarity=0.710 Sum_probs=57.7
Q ss_pred ccccccccccccCccccccccCCcccccCCCCceeccccccc---------------CcccccccccCCCCCCCCCceec
Q 002824 234 RCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ---------------EHQCFACGMLGSSDKSSSQEVFP 298 (876)
Q Consensus 234 ~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~g---------------qHqCfiCgklGssd~ss~~eV~k 298 (876)
.|.|.+|..|..+ .+.. ++...|.|+.|... +..|.+|+. +++++.
T Consensus 1 ~~~r~~~~~~~~p--------~~~~---~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~--------~g~~l~ 61 (696)
T KOG0383|consen 1 TCPRAYHRVCLDP--------KLKE---EPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICAD--------GGELLW 61 (696)
T ss_pred CCCcccCcCCCCc--------cccc---CCcCCccCcchhhcccccccccCCcchhhhhhhhhhcC--------CCcEEE
Confidence 3899999997643 1221 23678999988732 357999985 457888
Q ss_pred cCCCccCCCCccccccccCCCCchhHHHHHHHHhhcCCceecCCcccccCcCC
Q 002824 299 CVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQS 351 (876)
Q Consensus 299 Csv~~CGkfYH~~CL~~~~~p~~e~~~~eL~krI~~g~~F~CPlH~C~~C~~s 351 (876)
| ..|...||..|+...+.+ +..+. |.|| .| .|-..
T Consensus 62 c--~tC~~s~h~~cl~~pl~~------------~p~~~-~~c~--Rc-~~p~~ 96 (696)
T KOG0383|consen 62 C--DTCPASFHASCLGPPLTP------------QPNGE-FICP--RC-FCPKN 96 (696)
T ss_pred e--ccccHHHHHHccCCCCCc------------CCccc-eeee--ee-ccCCC
Confidence 9 899999999999765533 23345 9998 56 66554
No 38
>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=91.85 E-value=0.099 Score=47.88 Aligned_cols=81 Identities=28% Similarity=0.459 Sum_probs=53.6
Q ss_pred CCeEEeeccCcchhhHHHHHHHHHcCCcccc--------------cCCCCCCCCCCCccccccccccCCCCCCCCCc-ee
Q 002824 702 GDTIVDFCCGANDFSCMMKVKLEQMGKSCSF--------------RNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQ-LI 766 (876)
Q Consensus 702 ~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~--------------kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~-li 766 (876)
|++|+|+|||+-.|...+-+.. ..+. .|+....-.....|...|+.++. ..++.+.. +|
T Consensus 1 g~~vlD~~~G~G~~~~~~~~~~-----~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~-~~~~~~~~D~I 74 (117)
T PF13659_consen 1 GDRVLDPGCGSGTFLLAALRRG-----AARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLP-EPLPDGKFDLI 74 (117)
T ss_dssp TEEEEEETSTTCHHHHHHHHHC-----TCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHH-HTCTTT-EEEE
T ss_pred CCEEEEcCcchHHHHHHHHHHC-----CCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhch-hhccCceeEEE
Confidence 7899999999999999998874 1222 22222222455788888988886 44566665 55
Q ss_pred eecCCCcchh-------hhhHHHHHHhhhh
Q 002824 767 MGLNPPFGVK-------ASLANKFISQALK 789 (876)
Q Consensus 767 ~glnppfg~~-------~~~a~kfi~~~~~ 789 (876)
++ ||||+.. ..++..|+.++..
T Consensus 75 v~-npP~~~~~~~~~~~~~~~~~~~~~~~~ 103 (117)
T PF13659_consen 75 VT-NPPYGPRSGDKAALRRLYSRFLEAAAR 103 (117)
T ss_dssp EE---STTSBTT----GGCHHHHHHHHHHH
T ss_pred EE-CCCCccccccchhhHHHHHHHHHHHHH
Confidence 55 9999953 2366788888764
No 39
>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA. This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA.
Probab=91.58 E-value=0.25 Score=56.57 Aligned_cols=117 Identities=21% Similarity=0.309 Sum_probs=65.4
Q ss_pred hhhhHHHHHHhhcccc--ccCCeEEeeccCcchhhHHHHHHHHH-cCCccc-------ccCCCCCCCCCCCccccccccc
Q 002824 684 KVEKLKEIVDRLHWYV--RSGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCS-------FRNYDLIQPKNDFSFEKRDWMT 753 (876)
Q Consensus 684 ~~ekl~~i~~~l~~~~--~~~d~~vd~~cg~~~f~~l~~~~~~~-~~~~~~-------~kn~d~~~~~~~~~f~~~~w~~ 753 (876)
+++-.+.+++++.-++ .+|++|+|++||...|+..|-+.... +|.+.+ -+|..... -++..|...|+..
T Consensus 273 N~~~~~~l~~~~~~~l~~~~~~~vLDl~cG~G~~sl~la~~~~~V~~vE~~~~av~~a~~n~~~~~-~~nv~~~~~d~~~ 351 (431)
T TIGR00479 273 NSGQNEKLVDRALEALELQGEELVVDAYCGVGTFTLPLAKQAKSVVGIEVVPESVEKAQQNAELNG-IANVEFLAGTLET 351 (431)
T ss_pred CHHHHHHHHHHHHHHhccCCCCEEEEcCCCcCHHHHHHHHhCCEEEEEEcCHHHHHHHHHHHHHhC-CCceEEEeCCHHH
Confidence 4666666777766665 46789999999999999888654210 111100 01111111 1235566666654
Q ss_pred cCCCC-CCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEec-Ccccc
Q 002824 754 VRPEE-LPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIV-PQETR 804 (876)
Q Consensus 754 ~~~~~-l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~-p~~~~ 804 (876)
.-++. +..++-=++-+|||- +-++..|++.....+|+-||.|. -|.|-
T Consensus 352 ~l~~~~~~~~~~D~vi~dPPr---~G~~~~~l~~l~~l~~~~ivyvsc~p~tl 401 (431)
T TIGR00479 352 VLPKQPWAGQIPDVLLLDPPR---KGCAAEVLRTIIELKPERIVYVSCNPATL 401 (431)
T ss_pred HHHHHHhcCCCCCEEEECcCC---CCCCHHHHHHHHhcCCCEEEEEcCCHHHH
Confidence 32211 112222233469984 23677788877778898777665 44443
No 40
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=91.10 E-value=0.22 Score=46.60 Aligned_cols=85 Identities=19% Similarity=0.420 Sum_probs=49.7
Q ss_pred cccccCCC-CceeecCcccccccccccccCccc-cccccCCcccccCCCCceecccccccCcccccccccCCCCCCCCCc
Q 002824 218 VCAICDDG-GDVTFCDGRCLRSFHATITAGKNA-LCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSDKSSSQE 295 (876)
Q Consensus 218 VCaICe~g-GeLL~CdG~C~RsFH~~Cl~g~~s-~C~sLGlT~~ev~~~~~W~C~eC~~gqHqCfiCgklGssd~ss~~e 295 (876)
.|.+|... |-|..-. -.++.|..|..-... .... +.+..++. .... =++ .....|.+|++. .+-
T Consensus 2 ~C~lC~~~~Galk~t~--~~~WvHv~Cal~~~~~~~~~-~~~~~~v~-~~~i-~~~--~~~~~C~iC~~~-------~G~ 67 (110)
T PF13832_consen 2 SCVLCPKRGGALKRTS--DGQWVHVLCALWIPEVIFNN-GESMEPVD-ISNI-PPS--RFKLKCSICGKS-------GGA 67 (110)
T ss_pred ccEeCCCCCCcccCcc--CCcEEEeEccceeCccEEee-chhcCccc-ceee-cch--hcCCcCcCCCCC-------Cce
Confidence 59999876 5555544 489999998542110 0000 00000000 0000 010 135679999864 357
Q ss_pred eeccCCCccCCCCcccccccc
Q 002824 296 VFPCVSATCGQFYHPECVSKL 316 (876)
Q Consensus 296 V~kCsv~~CGkfYH~~CL~~~ 316 (876)
.++|....|.+.||+.|....
T Consensus 68 ~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 68 CIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred eEEcCCCCCCcCCCHHHHHHC
Confidence 899999999999999998653
No 41
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=90.90 E-value=0.56 Score=49.28 Aligned_cols=109 Identities=24% Similarity=0.382 Sum_probs=63.0
Q ss_pred hhccccccccccccccccccCcccchhhhHHHHHHhhcccc-----ccCCeEEeeccCcchhhHH---------------
Q 002824 659 KRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYV-----RSGDTIVDFCCGANDFSCM--------------- 718 (876)
Q Consensus 659 ~~kl~~~l~p~l~g~ry~s~grhft~~ekl~~i~~~l~~~~-----~~~d~~vd~~cg~~~f~~l--------------- 718 (876)
-.||+.+..|=+.=.-|+ |..+ ++..+.|.+ ..|-+|+|++||..-|+.-
T Consensus 8 l~kl~~f~~p~~~LEQY~------Tp~~----~Aa~il~~a~~~g~l~g~~V~DlG~GTG~La~ga~~lGa~~V~~vdiD 77 (198)
T COG2263 8 LEKLKGFPNPKLGLEQYR------TPAP----LAAYILWVAYLRGDLEGKTVLDLGAGTGILAIGAALLGASRVLAVDID 77 (198)
T ss_pred hhhhcCCCCCCccceecC------CChH----HHHHHHHHHHHcCCcCCCEEEEcCCCcCHHHHHHHhcCCcEEEEEecC
Confidence 346666666666666676 3444 445555555 3455899999999988752
Q ss_pred ------HHHHHHHcCCcccccCCCCCCCCCCCccccccccccCCCCCCCCC-ceeeecCCCcchhhhhH-HHHHHhhhhc
Q 002824 719 ------MKVKLEQMGKSCSFRNYDLIQPKNDFSFEKRDWMTVRPEELPDGS-QLIMGLNPPFGVKASLA-NKFISQALKF 790 (876)
Q Consensus 719 ------~~~~~~~~~~~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~-~li~glnppfg~~~~~a-~kfi~~~~~f 790 (876)
.+++.++.+..-.|-.=|+.. +...- -.|| |||||.+..=| ..|+++||+-
T Consensus 78 ~~a~ei~r~N~~~l~g~v~f~~~dv~~-------------------~~~~~dtvim--NPPFG~~~rhaDr~Fl~~Ale~ 136 (198)
T COG2263 78 PEALEIARANAEELLGDVEFVVADVSD-------------------FRGKFDTVIM--NPPFGSQRRHADRPFLLKALEI 136 (198)
T ss_pred HHHHHHHHHHHHhhCCceEEEEcchhh-------------------cCCccceEEE--CCCCccccccCCHHHHHHHHHh
Confidence 233333322222222222222 22211 2333 99999986544 4699999998
Q ss_pred CCcEEEEec
Q 002824 791 KPKLIVLIV 799 (876)
Q Consensus 791 ~p~~~~li~ 799 (876)
. +++--|-
T Consensus 137 s-~vVYsiH 144 (198)
T COG2263 137 S-DVVYSIH 144 (198)
T ss_pred h-heEEEee
Confidence 4 5554443
No 42
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=90.16 E-value=0.64 Score=48.60 Aligned_cols=98 Identities=9% Similarity=0.165 Sum_probs=50.4
Q ss_pred ccCCeEEeeccCcchhhHHHHHHH--HHcCCccc-------ccCCCCCCCCCCCccccccccccCCCCCCCCCceeeecC
Q 002824 700 RSGDTIVDFCCGANDFSCMMKVKL--EQMGKSCS-------FRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLN 770 (876)
Q Consensus 700 ~~~d~~vd~~cg~~~f~~l~~~~~--~~~~~~~~-------~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~gln 770 (876)
.+|.+|+|++||+..|+-.+-.+. .-++-..+ -+|.....- ++..|...|++..-+. ..+..=++-+|
T Consensus 52 ~~~~~vLDl~~GsG~l~l~~lsr~a~~V~~vE~~~~a~~~a~~Nl~~~~~-~~v~~~~~D~~~~l~~--~~~~fDlV~~D 128 (199)
T PRK10909 52 IVDARCLDCFAGSGALGLEALSRYAAGATLLEMDRAVAQQLIKNLATLKA-GNARVVNTNALSFLAQ--PGTPHNVVFVD 128 (199)
T ss_pred cCCCEEEEcCCCccHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHHHhCC-CcEEEEEchHHHHHhh--cCCCceEEEEC
Confidence 578999999999999997542221 01111110 123332221 2356666676543222 12334455679
Q ss_pred CCcchhhhhHHHHHHhhhh---cCCcEEEEecCcc
Q 002824 771 PPFGVKASLANKFISQALK---FKPKLIVLIVPQE 802 (876)
Q Consensus 771 ppfg~~~~~a~kfi~~~~~---f~p~~~~li~p~~ 802 (876)
|||... +..+-++.... ..|+=||+|-=+.
T Consensus 129 PPy~~g--~~~~~l~~l~~~~~l~~~~iv~ve~~~ 161 (199)
T PRK10909 129 PPFRKG--LLEETINLLEDNGWLADEALIYVESEV 161 (199)
T ss_pred CCCCCC--hHHHHHHHHHHCCCcCCCcEEEEEecC
Confidence 998532 33333333333 3677766665333
No 43
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=89.56 E-value=0.91 Score=45.25 Aligned_cols=133 Identities=20% Similarity=0.286 Sum_probs=74.3
Q ss_pred HHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcCCccccc-----CCCC----CCCCCCCccccccccccCCCCC
Q 002824 689 KEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFR-----NYDL----IQPKNDFSFEKRDWMTVRPEEL 759 (876)
Q Consensus 689 ~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~k-----n~d~----~~~~~~~~f~~~~w~~~~~~~l 759 (876)
..|++.+.+ .+|++|+|+.||...+...+-++ +.....= -.+. +...+.+.+-..|.+.+...+.
T Consensus 3 ~~i~~~~~~--~~~~~vLEiG~G~G~lt~~l~~~----~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~ 76 (169)
T smart00650 3 DKIVRAANL--RPGDTVLEIGPGKGALTEELLER----AARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKL 76 (169)
T ss_pred HHHHHhcCC--CCcCEEEEECCCccHHHHHHHhc----CCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCcccc
Confidence 456776664 68899999999999999888665 1111110 0000 0111345566667666643321
Q ss_pred CCCCceeeecCCCcchhhhhHHHHHHhhhhcCC--cEEEEecCcc-cccccccc---cc---------ceeecccccccC
Q 002824 760 PDGSQLIMGLNPPFGVKASLANKFISQALKFKP--KLIVLIVPQE-TRRLDQKA---SY---------NLIWEDNEVLSG 824 (876)
Q Consensus 760 ~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p--~~~~li~p~~-~~~~~~~~---~y---------~l~~~d~~~l~g 824 (876)
.--+|+| ||||... ...+.+.++... .-.+|++..| .+|+-.+. .| ..-|+--..++.
T Consensus 77 --~~d~vi~-n~Py~~~----~~~i~~~l~~~~~~~~~~l~~q~e~a~rl~~~~~~~~y~~lsv~~~~~~~~~~~~~v~~ 149 (169)
T smart00650 77 --QPYKVVG-NLPYNIS----TPILFKLLEEPPAFRDAVLMVQKEVARRLAAKPGSKDYGRLSVLLQPYFDVKILFKVPP 149 (169)
T ss_pred --CCCEEEE-CCCcccH----HHHHHHHHhcCCCcceEEEEEEHHHhHHhcCCCCCCcccHHHHHHHHHeeEEEEEEECh
Confidence 1347777 9999854 445555554322 3345555555 44665542 12 233455556777
Q ss_pred cccccCCccc
Q 002824 825 KSFYLPGSLD 834 (876)
Q Consensus 825 ~~fy~pg~~d 834 (876)
.+||=|=-||
T Consensus 150 ~~F~P~PkV~ 159 (169)
T smart00650 150 EAFRPPPKVD 159 (169)
T ss_pred hhCCCCCCce
Confidence 7777555554
No 44
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=89.02 E-value=0.24 Score=57.69 Aligned_cols=88 Identities=20% Similarity=0.502 Sum_probs=58.0
Q ss_pred ccccccC-----CCCceeecCcccccccccccccCccccccccCCcccccCCCCceecccccccC--cccccccccCCCC
Q 002824 217 AVCAICD-----DGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQE--HQCFACGMLGSSD 289 (876)
Q Consensus 217 ~VCaICe-----~gGeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~gq--HqCfiCgklGssd 289 (876)
.+|.+|- +.|++|.|| .|.-..|-.|---.+|. ++.-+... -..+.|+|.-|.+|. ..|-.|-..+
T Consensus 120 ~iCcVClg~rs~da~ei~qCd-~CGi~VHEgCYGv~dn~--si~s~~s~-~stepWfCeaC~~Gvs~P~CElCPn~~--- 192 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCD-KCGINVHEGCYGVLDNV--SIPSGSSD-CSTEPWFCEACLYGVSLPHCELCPNRF--- 192 (707)
T ss_pred eEEEEeecCccccccceeecc-ccCceeccccccccccc--ccCCCCcc-CCCCchhhhhHhcCCCCCccccCCCcC---
Confidence 3899995 458999999 79999999873211111 11111110 024689999999985 5799995433
Q ss_pred CCCCCceeccCCCccCCCCccccccccCC
Q 002824 290 KSSSQEVFPCVSATCGQFYHPECVSKLLH 318 (876)
Q Consensus 290 ~ss~~eV~kCsv~~CGkfYH~~CL~~~~~ 318 (876)
++|+= ..=||+-|.-|.-+-+.
T Consensus 193 -----GifKe--tDigrWvH~iCALYvpG 214 (707)
T KOG0957|consen 193 -----GIFKE--TDIGRWVHAICALYVPG 214 (707)
T ss_pred -----Ccccc--cchhhHHHHHHHhhcCc
Confidence 45543 45679999999876553
No 45
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=87.52 E-value=1.9 Score=47.77 Aligned_cols=30 Identities=27% Similarity=0.519 Sum_probs=22.1
Q ss_pred HHHHHHhhccccccCCeEEeeccCcchhhHHH
Q 002824 688 LKEIVDRLHWYVRSGDTIVDFCCGANDFSCMM 719 (876)
Q Consensus 688 l~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~ 719 (876)
...+++... +++|++|+|++||+..|...+
T Consensus 171 a~~~~~l~~--~~~g~~vLDp~cGtG~~liea 200 (329)
T TIGR01177 171 ARAMVNLAR--VTEGDRVLDPFCGTGGFLIEA 200 (329)
T ss_pred HHHHHHHhC--CCCcCEEEECCCCCCHHHHHH
Confidence 344555554 489999999999999986543
No 46
>PHA03411 putative methyltransferase; Provisional
Probab=86.14 E-value=0.33 Score=53.45 Aligned_cols=48 Identities=21% Similarity=0.295 Sum_probs=34.2
Q ss_pred ccccccccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 671 HGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 671 ~g~ry~s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
+|+--+-.|-+||+..-+..++- ....+.+|+|++||+..|+..+-++
T Consensus 38 ~g~~~~~~G~FfTP~~i~~~f~~----~~~~~grVLDLGcGsGilsl~la~r 85 (279)
T PHA03411 38 HGDGLGGSGAFFTPEGLAWDFTI----DAHCTGKVLDLCAGIGRLSFCMLHR 85 (279)
T ss_pred ccccccCceeEcCCHHHHHHHHh----ccccCCeEEEcCCCCCHHHHHHHHh
Confidence 34433335999999887655432 2345789999999999998877554
No 47
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=85.00 E-value=0.43 Score=55.75 Aligned_cols=49 Identities=24% Similarity=0.497 Sum_probs=37.4
Q ss_pred CccccccCCCCc---eeecCcccccccccccccCccccccccCCcccccCC-CCceeccccc
Q 002824 216 FAVCAICDDGGD---VTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDA-VPNFLCQNCV 273 (876)
Q Consensus 216 d~VCaICe~gGe---LL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~-~~~W~C~eC~ 273 (876)
...|.||....+ |+.|| .|...||+-|+. ..||..+-.. +.-|.|.+|.
T Consensus 544 ~ysCgiCkks~dQHll~~CD-tC~lhYHlGCL~--------PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 544 NYSCGICKKSTDQHLLTQCD-TCHLHYHLGCLS--------PPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred ceeeeeeccchhhHHHhhcc-hhhceeeccccC--------CccccCcccccCcceeecccc
Confidence 456999998765 89999 799999999654 4666655433 5679988874
No 48
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=84.96 E-value=1.7 Score=50.37 Aligned_cols=111 Identities=20% Similarity=0.268 Sum_probs=60.3
Q ss_pred HHHHHHhhccc--cccCCeEEeeccCcchhhHHHHHHHHH-cCCccc-------ccCCCCCCCCCCCccccccccccCCC
Q 002824 688 LKEIVDRLHWY--VRSGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCS-------FRNYDLIQPKNDFSFEKRDWMTVRPE 757 (876)
Q Consensus 688 l~~i~~~l~~~--~~~~d~~vd~~cg~~~f~~l~~~~~~~-~~~~~~-------~kn~d~~~~~~~~~f~~~~w~~~~~~ 757 (876)
.+.+++.+.-+ +.+|++|+|++||+..|+..|-++... +|-+.+ -+|.....- ++..|...|+...-++
T Consensus 282 ~e~l~~~vl~~l~~~~~~~VLDlgcGtG~~sl~la~~~~~V~gvD~s~~al~~A~~n~~~~~~-~~v~~~~~d~~~~l~~ 360 (443)
T PRK13168 282 NQKMVARALEWLDPQPGDRVLDLFCGLGNFTLPLARQAAEVVGVEGVEAMVERARENARRNGL-DNVTFYHANLEEDFTD 360 (443)
T ss_pred HHHHHHHHHHHhcCCCCCEEEEEeccCCHHHHHHHHhCCEEEEEeCCHHHHHHHHHHHHHcCC-CceEEEEeChHHhhhh
Confidence 34444443333 358899999999999999888665210 011110 012111111 2367888887654221
Q ss_pred -CCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEec-Cccc
Q 002824 758 -ELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIV-PQET 803 (876)
Q Consensus 758 -~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~-p~~~ 803 (876)
.++.++-=++-+|||..- +.+.+......+|+-||.|. -|.|
T Consensus 361 ~~~~~~~fD~Vi~dPPr~g----~~~~~~~l~~~~~~~ivyvSCnp~t 404 (443)
T PRK13168 361 QPWALGGFDKVLLDPPRAG----AAEVMQALAKLGPKRIVYVSCNPAT 404 (443)
T ss_pred hhhhcCCCCEEEECcCCcC----hHHHHHHHHhcCCCeEEEEEeChHH
Confidence 122333223345999863 23556666667888877765 4444
No 49
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=84.12 E-value=0.68 Score=50.71 Aligned_cols=28 Identities=25% Similarity=0.603 Sum_probs=23.7
Q ss_pred CCCceeccCCCccC-CCCccccccccCCC
Q 002824 292 SSQEVFPCVSATCG-QFYHPECVSKLLHP 319 (876)
Q Consensus 292 s~~eV~kCsv~~CG-kfYH~~CL~~~~~p 319 (876)
+.++++.|-...|. .+||..||+.-..|
T Consensus 228 syg~Mi~CDn~~C~~eWFH~~CVGL~~~P 256 (274)
T KOG1973|consen 228 SYGKMIGCDNPGCPIEWFHFTCVGLKTKP 256 (274)
T ss_pred ccccccccCCCCCCcceEEEeccccccCC
Confidence 35799999989999 99999999876544
No 50
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=83.31 E-value=0.59 Score=54.62 Aligned_cols=55 Identities=18% Similarity=0.277 Sum_probs=39.5
Q ss_pred cccCcCCccccccccceeeccccccccccccCCCCcccccccchhhhhhhhccCCCCceeEEccCCcccc
Q 002824 345 CFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKIIS 414 (876)
Q Consensus 345 C~~C~~sedk~~~~~qLi~C~RCPkAYH~kCLP~gi~f~~~~~e~~~raW~~ll~~~riLI~C~kH~i~~ 414 (876)
|.+|..+.... . .+|+.|.+|-.+||..|..+.++-+. ..+....|+|..|--.+
T Consensus 171 c~vC~~g~~~~-~-NrmlqC~~C~~~fHq~Chqp~i~~~l-------------~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 171 CSVCYCGGPGA-G-NRMLQCDKCRQWYHQACHQPLIKDEL-------------AGDPFYEWFCDVCNRGP 225 (464)
T ss_pred eeeeecCCcCc-c-ceeeeecccccHHHHHhccCCCCHhh-------------ccCccceEeehhhccch
Confidence 88888765421 2 28999999999999999988775221 22335689999998543
No 51
>TIGR02085 meth_trns_rumB 23S rRNA (uracil-5-)-methyltransferase RumB. This family consists of RNA methyltransferases designated RumB, formerly YbjF. Members act on 23S rRNA U747 and the equivalent position in other proteobacterial species. This family is homologous to the other 23S rRNA methyltransferase RumA and to the tRNA methyltransferase TrmA.
Probab=83.20 E-value=0.74 Score=52.21 Aligned_cols=115 Identities=16% Similarity=0.223 Sum_probs=61.0
Q ss_pred chhhhHHHHHHhhcccc--ccCCeEEeeccCcchhhHHHHHHHHH-cCCcccc-------cCCCCCCCCCCCcccccccc
Q 002824 683 TKVEKLKEIVDRLHWYV--RSGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCSF-------RNYDLIQPKNDFSFEKRDWM 752 (876)
Q Consensus 683 t~~ekl~~i~~~l~~~~--~~~d~~vd~~cg~~~f~~l~~~~~~~-~~~~~~~-------kn~d~~~~~~~~~f~~~~w~ 752 (876)
|..+-.+.+++.+.-++ .+|.+|+|++||+..|+-.+-.+... +|.+.+- +|.....- ++..|...|..
T Consensus 213 ~n~~~~~~l~~~~~~~l~~~~~~~vLDL~cG~G~~~l~la~~~~~v~~vE~~~~av~~a~~N~~~~~~-~~~~~~~~d~~ 291 (374)
T TIGR02085 213 TNPKVAAQLYATARQWVREIPVTQMWDLFCGVGGFGLHCAGPDTQLTGIEIESEAIACAQQSAQMLGL-DNLSFAALDSA 291 (374)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCCEEEEccCCccHHHHHHhhcCCeEEEEECCHHHHHHHHHHHHHcCC-CcEEEEECCHH
Confidence 33344444444443333 35789999999999999877543111 1111111 11111110 13445555543
Q ss_pred ccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEe-cCccc
Q 002824 753 TVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLI-VPQET 803 (876)
Q Consensus 753 ~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li-~p~~~ 803 (876)
+.-+. + .+..=++-+|||. +-+..++++.++.++|+-||.| .-|.|
T Consensus 292 ~~~~~-~-~~~~D~vi~DPPr---~G~~~~~l~~l~~~~p~~ivyvsc~p~T 338 (374)
T TIGR02085 292 KFATA-Q-MSAPELVLVNPPR---RGIGKELCDYLSQMAPKFILYSSCNAQT 338 (374)
T ss_pred HHHHh-c-CCCCCEEEECCCC---CCCcHHHHHHHHhcCCCeEEEEEeCHHH
Confidence 32221 1 1222345569996 3577899999999999665554 34444
No 52
>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=82.26 E-value=3.5 Score=42.88 Aligned_cols=96 Identities=18% Similarity=0.359 Sum_probs=52.2
Q ss_pred cccccccCcccchhhhHHHHHHhhc-cccccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCCC-----------
Q 002824 672 GMRYTSFGRHFTKVEKLKEIVDRLH-WYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQ----------- 739 (876)
Q Consensus 672 g~ry~s~grhft~~ekl~~i~~~l~-~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~----------- 739 (876)
|.+|.--++.|+...-..++++.+. +.-..+.+|+|++||+..|...+.+... .+.+--.|+.+
T Consensus 57 ~~~~~~~~~~~~p~~~~~~l~~~~l~~~~~~~~~ilDig~G~G~~~~~l~~~~~----~~~v~~iD~~~~~~~~a~~~~~ 132 (251)
T TIGR03534 57 GLDFKVSPGVLIPRPDTEELVEAALERLKKGPLRVLDLGTGSGAIALALAKERP----DARVTAVDISPEALAVARKNAA 132 (251)
T ss_pred ceEEEECCCcccCCCChHHHHHHHHHhcccCCCeEEEEeCcHhHHHHHHHHHCC----CCEEEEEECCHHHHHHHHHHHH
Confidence 4444444445554443444444432 2234456899999999999888876531 12222222211
Q ss_pred --CCCCCccccccccccCCCCCCCCC-ceeeecCCCcchh
Q 002824 740 --PKNDFSFEKRDWMTVRPEELPDGS-QLIMGLNPPFGVK 776 (876)
Q Consensus 740 --~~~~~~f~~~~w~~~~~~~l~~g~-~li~glnppfg~~ 776 (876)
.-++..|...|+.+. ++.++ .+|+. ||||...
T Consensus 133 ~~~~~~~~~~~~d~~~~----~~~~~fD~Vi~-npPy~~~ 167 (251)
T TIGR03534 133 RLGLDNVTFLQSDWFEP----LPGGKFDLIVS-NPPYIPE 167 (251)
T ss_pred HcCCCeEEEEECchhcc----CcCCceeEEEE-CCCCCch
Confidence 011366777777652 23343 46665 9999853
No 53
>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=81.76 E-value=0.64 Score=46.62 Aligned_cols=92 Identities=28% Similarity=0.465 Sum_probs=53.4
Q ss_pred HHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcCC----------cccccCCCCCCCCCCCccccccccccCCCCCC
Q 002824 691 IVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGK----------SCSFRNYDLIQPKNDFSFEKRDWMTVRPEELP 760 (876)
Q Consensus 691 i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~----------~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~ 760 (876)
+++.+... .+..|+|++||+--.+-.+.++.....- .+.-+|.....-.+ ..+...||+. .++
T Consensus 23 L~~~l~~~--~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~-v~~~~~d~~~----~~~ 95 (170)
T PF05175_consen 23 LLDNLPKH--KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLEN-VEVVQSDLFE----ALP 95 (170)
T ss_dssp HHHHHHHH--TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTT-EEEEESSTTT----TCC
T ss_pred HHHHHhhc--cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccc-cccccccccc----ccc
Confidence 44444444 7889999999999999888776332100 12223333333333 6676777764 333
Q ss_pred CCC-ceeeecCCCcchhhh----hHHHHHHhhhhc
Q 002824 761 DGS-QLIMGLNPPFGVKAS----LANKFISQALKF 790 (876)
Q Consensus 761 ~g~-~li~glnppfg~~~~----~a~kfi~~~~~f 790 (876)
.+. -+|+. ||||..... +..+||..|...
T Consensus 96 ~~~fD~Iv~-NPP~~~~~~~~~~~~~~~i~~a~~~ 129 (170)
T PF05175_consen 96 DGKFDLIVS-NPPFHAGGDDGLDLLRDFIEQARRY 129 (170)
T ss_dssp TTCEEEEEE----SBTTSHCHHHHHHHHHHHHHHH
T ss_pred ccceeEEEE-ccchhcccccchhhHHHHHHHHHHh
Confidence 333 35555 999965544 788999888643
No 54
>PF07669 Eco57I: Eco57I restriction-modification methylase; InterPro: IPR011639 This entry contains restriction modification methylases, which in the case of endonuclease Eco57I is found adjacent to the DNA cleavage domain, which recognises asymmetric DNA sequence 5'-CTGAAG [, ]. The methylase causes specific methylation on A-5 on one strand, the other strand being methylated by the Eco57IB methylase []. ; GO: 0003677 DNA binding, 0003824 catalytic activity, 0006304 DNA modification
Probab=81.50 E-value=1.3 Score=41.65 Aligned_cols=39 Identities=28% Similarity=0.546 Sum_probs=31.3
Q ss_pred eeeecCCCcchhhhhHH-------------HHHHhhhhcCCcEEEEecCcccc
Q 002824 765 LIMGLNPPFGVKASLAN-------------KFISQALKFKPKLIVLIVPQETR 804 (876)
Q Consensus 765 li~glnppfg~~~~~a~-------------kfi~~~~~f~p~~~~li~p~~~~ 804 (876)
+|+| |||++....+.+ -||.+|++.-.-.+.+|+|...=
T Consensus 5 ~VIG-NPPY~~~~~~~~~~~~~~~~~dlY~~Fie~~~~ll~G~~~~I~P~~~l 56 (106)
T PF07669_consen 5 VVIG-NPPYIKIKSLSKKKKKKKKKSDLYILFIEKSLNLLNGYLSFITPNSFL 56 (106)
T ss_pred EEEE-CCCChhhccccchhhcccccCcHHHHHHHHHHHHhCCeEEEEeChHHh
Confidence 7999 999987653221 29999998888999999998765
No 55
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=81.27 E-value=0.79 Score=41.21 Aligned_cols=34 Identities=29% Similarity=0.583 Sum_probs=28.1
Q ss_pred cCCCCccccccCCC-Cceeec-Cccccccccccccc
Q 002824 212 DENYFAVCAICDDG-GDVTFC-DGRCLRSFHATITA 245 (876)
Q Consensus 212 dd~~d~VCaICe~g-GeLL~C-dG~C~RsFH~~Cl~ 245 (876)
.......|.+|... |..|.| .+.|.+.||+.|..
T Consensus 32 ~~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~ 67 (90)
T PF13771_consen 32 KRRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCAR 67 (90)
T ss_pred HHHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHc
Confidence 34567899999999 998888 44699999999854
No 56
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=81.08 E-value=2.4 Score=46.87 Aligned_cols=93 Identities=15% Similarity=0.229 Sum_probs=48.6
Q ss_pred cCCeEEeeccCcchhhHHHHHHHHH-cCCcccc-------cCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCCC
Q 002824 701 SGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCSF-------RNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPP 772 (876)
Q Consensus 701 ~~d~~vd~~cg~~~f~~l~~~~~~~-~~~~~~~-------kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnpp 772 (876)
+|+.|+|++||...|+..+-++... +|.+.+- +|.....- ++..|...|..+..+. ..+..=++-+|||
T Consensus 173 ~~~~VLDl~cG~G~~sl~la~~~~~V~gvD~s~~av~~A~~n~~~~~l-~~v~~~~~D~~~~~~~--~~~~~D~Vv~dPP 249 (315)
T PRK03522 173 PPRSMWDLFCGVGGFGLHCATPGMQLTGIEISAEAIACAKQSAAELGL-TNVQFQALDSTQFATA--QGEVPDLVLVNPP 249 (315)
T ss_pred CCCEEEEccCCCCHHHHHHHhcCCEEEEEeCCHHHHHHHHHHHHHcCC-CceEEEEcCHHHHHHh--cCCCCeEEEECCC
Confidence 6799999999999999877653110 0111110 11111010 1345666655443221 1122223446999
Q ss_pred cchhhhhHHHHHHhhhhcCCcEEEEec
Q 002824 773 FGVKASLANKFISQALKFKPKLIVLIV 799 (876)
Q Consensus 773 fg~~~~~a~kfi~~~~~f~p~~~~li~ 799 (876)
- +-+..+.+.......|+-||.|.
T Consensus 250 r---~G~~~~~~~~l~~~~~~~ivyvs 273 (315)
T PRK03522 250 R---RGIGKELCDYLSQMAPRFILYSS 273 (315)
T ss_pred C---CCccHHHHHHHHHcCCCeEEEEE
Confidence 3 34555666666677887766653
No 57
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=80.29 E-value=2.1 Score=49.84 Aligned_cols=117 Identities=20% Similarity=0.431 Sum_probs=72.3
Q ss_pred cccccccCcccchhh--hHHHHHHhhccccc--cCCeEEeeccCcchhhHHHHHH-------------HHHcCCcccccC
Q 002824 672 GMRYTSFGRHFTKVE--KLKEIVDRLHWYVR--SGDTIVDFCCGANDFSCMMKVK-------------LEQMGKSCSFRN 734 (876)
Q Consensus 672 g~ry~s~grhft~~e--kl~~i~~~l~~~~~--~~d~~vd~~cg~~~f~~l~~~~-------------~~~~~~~~~~kn 734 (876)
|..|.=+.|.|+.+- -.+.+++..-=+++ .+|+++|++||..+|+--+-++ .++......-++
T Consensus 260 ~~~~~~~~~sF~Q~N~~~~ekl~~~a~~~~~~~~~~~vlDlYCGvG~f~l~lA~~~~~V~gvEi~~~aV~~A~~NA~~n~ 339 (432)
T COG2265 260 GVSFQISPRSFFQVNPAVAEKLYETALEWLELAGGERVLDLYCGVGTFGLPLAKRVKKVHGVEISPEAVEAAQENAAANG 339 (432)
T ss_pred ceEEEeCCCCceecCHHHHHHHHHHHHHHHhhcCCCEEEEeccCCChhhhhhcccCCEEEEEecCHHHHHHHHHHHHHcC
Confidence 566777788998764 34444444333444 5689999999999999877633 222222222222
Q ss_pred C--CCCCCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEec
Q 002824 735 Y--DLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIV 799 (876)
Q Consensus 735 ~--d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~ 799 (876)
- --|..-..+.|-.+-|..-.|+ .|+ |||| ++-+...|++..++++|+-||-|.
T Consensus 340 i~N~~f~~~~ae~~~~~~~~~~~~d-------~Vv-vDPP---R~G~~~~~lk~l~~~~p~~IvYVS 395 (432)
T COG2265 340 IDNVEFIAGDAEEFTPAWWEGYKPD-------VVV-VDPP---RAGADREVLKQLAKLKPKRIVYVS 395 (432)
T ss_pred CCcEEEEeCCHHHHhhhccccCCCC-------EEE-ECCC---CCCCCHHHHHHHHhcCCCcEEEEe
Confidence 2 2334444455544444222333 444 4777 334888999999999999888875
No 58
>TIGR03704 PrmC_rel_meth putative protein-(glutamine-N5) methyltransferase, unknown substrate-specific. This protein family is closely related to two different families of protein-(glutamine-N5) methyltransferase. The first is PrmB, which modifies ribosomal protein L3 in some bacteria. The second is PrmC (HemK), which modifies peptide chain release factors 1 and 2 in most bacteria and also in eukaryotes. The glutamine side chain-binding motif NPPY shared by PrmB and PrmC is N[VAT]PY in this family. The protein substrate is unknown.
Probab=80.24 E-value=1.8 Score=46.43 Aligned_cols=89 Identities=19% Similarity=0.341 Sum_probs=45.4
Q ss_pred ccchhhhHHHHHHhhccccc---cCCeEEeeccCcchhhHHHHHHHHH---cCCccc-------ccCCCCCCCCCCCccc
Q 002824 681 HFTKVEKLKEIVDRLHWYVR---SGDTIVDFCCGANDFSCMMKVKLEQ---MGKSCS-------FRNYDLIQPKNDFSFE 747 (876)
Q Consensus 681 hft~~ekl~~i~~~l~~~~~---~~d~~vd~~cg~~~f~~l~~~~~~~---~~~~~~-------~kn~d~~~~~~~~~f~ 747 (876)
-|.+..-.+.+++...-++. .+..|+|+|||+-.++-.+-++... ++-+.+ -+|.. .|...|.
T Consensus 63 vf~pr~~Te~Lv~~~l~~~~~~~~~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~----~~~~~~~ 138 (251)
T TIGR03704 63 VFVPRRRTEFLVDEAAALARPRSGTLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLA----DAGGTVH 138 (251)
T ss_pred CcCCCccHHHHHHHHHHhhcccCCCCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHH----HcCCEEE
Confidence 34444334444444322333 2348999999999999887654211 111111 11211 1223577
Q ss_pred cccccccCCCCCCCCCceeeecCCCcc
Q 002824 748 KRDWMTVRPEELPDGSQLIMGLNPPFG 774 (876)
Q Consensus 748 ~~~w~~~~~~~l~~g~~li~glnppfg 774 (876)
..||...-+..+...=.+|+. ||||-
T Consensus 139 ~~D~~~~l~~~~~~~fDlVv~-NPPy~ 164 (251)
T TIGR03704 139 EGDLYDALPTALRGRVDILAA-NAPYV 164 (251)
T ss_pred EeechhhcchhcCCCEeEEEE-CCCCC
Confidence 778776444333222235554 99985
No 59
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=80.17 E-value=0.73 Score=55.66 Aligned_cols=58 Identities=26% Similarity=0.634 Sum_probs=35.7
Q ss_pred cCCCCccccccCCCC--------ceeec-CcccccccccccccCccccccccCCcccccCCCCceecccccc
Q 002824 212 DENYFAVCAICDDGG--------DVTFC-DGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 274 (876)
Q Consensus 212 dd~~d~VCaICe~gG--------eLL~C-dG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~ 274 (876)
.|.+...|+||+..| .-..| .-.|.++||.+|....+-+|..-|.-. ..--||-.|.|
T Consensus 113 ~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~-----dNVKYCGYCk~ 179 (900)
T KOG0956|consen 113 HDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNIS-----DNVKYCGYCKY 179 (900)
T ss_pred hhhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceecccccc-----ccceechhHHH
Confidence 346778899998764 34455 446999999999765444453222111 12346776664
No 60
>PF02475 Met_10: Met-10+ like-protein; InterPro: IPR003402 This entry represents the Trm5 family. Trm5 specifically methylates the N1 position of guanosine-37 in various tRNAs [, , ]. Another members of this family, tRNA wybutosine-synthesizing protein 2 (Tyw2) and its homologues, are S-adenosyl-L-methionine-dependent transferases that act as a component of the wybutosine biosynthesis pathway [, ]. tRNA wybutosine-synthesizing protein 2 was originally thought to be a methyltransferase [].; GO: 0016740 transferase activity; PDB: 3A27_A 2ZZN_B 2YX1_A 2ZZM_A 3AY0_B 3K6R_A 3A26_A 3A25_A.
Probab=78.31 E-value=1.1 Score=47.07 Aligned_cols=80 Identities=25% Similarity=0.362 Sum_probs=38.8
Q ss_pred ccccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCCCC--------------CCCCccccccccccCCCCCCCCC
Q 002824 698 YVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQP--------------KNDFSFEKRDWMTVRPEELPDGS 763 (876)
Q Consensus 698 ~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~--------------~~~~~f~~~~w~~~~~~~l~~g~ 763 (876)
.+.+|++|+|++||-.-|+-.+-+. ++.+..-..|+=|- ++....-.-|..++-+ -..-+
T Consensus 98 ~v~~~e~VlD~faGIG~f~l~~ak~----~~~~~V~A~d~Np~a~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~--~~~~d 171 (200)
T PF02475_consen 98 LVKPGEVVLDMFAGIGPFSLPIAKH----GKAKRVYAVDLNPDAVEYLKENIRLNKVENRIEVINGDAREFLP--EGKFD 171 (200)
T ss_dssp C--TT-EEEETT-TTTTTHHHHHHH----T-SSEEEEEES-HHHHHHHHHHHHHTT-TTTEEEEES-GGG-----TT-EE
T ss_pred cCCcceEEEEccCCccHHHHHHhhh----cCccEEEEecCCHHHHHHHHHHHHHcCCCCeEEEEcCCHHHhcC--ccccC
Confidence 4899999999999999999887652 22222212222110 1222222233333333 13345
Q ss_pred ceeeecCCCcchhhhhHHHHHHhhhhc
Q 002824 764 QLIMGLNPPFGVKASLANKFISQALKF 790 (876)
Q Consensus 764 ~li~glnppfg~~~~~a~kfi~~~~~f 790 (876)
.+|||| |+ .|..|++.|+..
T Consensus 172 rvim~l-p~------~~~~fl~~~~~~ 191 (200)
T PF02475_consen 172 RVIMNL-PE------SSLEFLDAALSL 191 (200)
T ss_dssp EEEE---TS------SGGGGHHHHHHH
T ss_pred EEEECC-hH------HHHHHHHHHHHH
Confidence 899996 44 456788888765
No 61
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=75.38 E-value=2.4 Score=45.86 Aligned_cols=57 Identities=19% Similarity=0.370 Sum_probs=42.5
Q ss_pred hhhHHHhhhccccccccccccccccccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHH
Q 002824 652 LCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 652 l~q~~~~~~kl~~~l~p~l~g~ry~s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
-.++..+-+... +--|||.|.+-...|.+....- +|+.|+|.|||..++.-++.+.-
T Consensus 17 F~~ia~~YD~~n----------~~~S~g~~~~Wr~~~i~~~~~~-----~g~~vLDva~GTGd~a~~~~k~~ 73 (238)
T COG2226 17 FDKVAKKYDLMN----------DLMSFGLHRLWRRALISLLGIK-----PGDKVLDVACGTGDMALLLAKSV 73 (238)
T ss_pred HHhhHHHHHhhc----------ccccCcchHHHHHHHHHhhCCC-----CCCEEEEecCCccHHHHHHHHhc
Confidence 556666655443 3348999999888877654332 99999999999999998887763
No 62
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=74.54 E-value=15 Score=38.48 Aligned_cols=65 Identities=22% Similarity=0.306 Sum_probs=44.3
Q ss_pred hhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCCC--CCCCCccccccccc
Q 002824 685 VEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQ--PKNDFSFEKRDWMT 753 (876)
Q Consensus 685 ~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~--~~~~~~f~~~~w~~ 753 (876)
..||.||.+++. ++.+|++|||++||...|+..+-++. |..+..--.|+.+ +..+..|-.-|..+
T Consensus 36 ~~kl~~~~~~~~-~~~~~~~VLDlG~GtG~~t~~l~~~~---~~~~~V~aVDi~~~~~~~~v~~i~~D~~~ 102 (209)
T PRK11188 36 WFKLDEIQQSDK-LFKPGMTVVDLGAAPGGWSQYAVTQI---GDKGRVIACDILPMDPIVGVDFLQGDFRD 102 (209)
T ss_pred HHhhHHHHHHhc-cCCCCCEEEEEcccCCHHHHHHHHHc---CCCceEEEEecccccCCCCcEEEecCCCC
Confidence 348888988865 67899999999999999998777653 3334444455543 12235566666554
No 63
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=74.28 E-value=0.79 Score=35.85 Aligned_cols=35 Identities=26% Similarity=0.705 Sum_probs=17.3
Q ss_pred CceeecCcccccccccccccCccccccccCCcccccCCCCceeccccc
Q 002824 226 GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCV 273 (876)
Q Consensus 226 GeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~ 273 (876)
..||.|+ .|.-.+|+.| .|+...+ ....|+|.-|+
T Consensus 2 n~ll~C~-~C~v~VH~~C----------YGv~~~~--~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCD-NCNVAVHQSC----------YGVSEVP--DGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-S-SS--EEEHHH----------HT-SS----SS-----HHH-
T ss_pred CceEEeC-CCCCcCChhh----------CCcccCC--CCCcEECCcCC
Confidence 4589999 5999999996 6775443 23469998774
No 64
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=72.48 E-value=2.7 Score=44.13 Aligned_cols=46 Identities=20% Similarity=0.460 Sum_probs=36.7
Q ss_pred ecccccccCcccccccccCCCCCCCCCceeccCCCccCCCCccccccc
Q 002824 268 LCQNCVYQEHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSK 315 (876)
Q Consensus 268 ~C~eC~~gqHqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~ 315 (876)
.|.-|..+...|-+|...+.+-......+.+| ..|+..||..|...
T Consensus 144 ~C~lC~~kGfiCe~C~~~~~IfPF~~~~~~~C--~~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 144 SCELCQQKGFICEICNSDDIIFPFQIDTTVRC--PKCKSVFHKSCFRK 189 (202)
T ss_pred HhHHHHhCCCCCccCCCCCCCCCCCCCCeeeC--CcCccccchhhcCC
Confidence 68888887788999986655444445689999 89999999999974
No 65
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=72.29 E-value=1.9 Score=38.82 Aligned_cols=34 Identities=21% Similarity=0.556 Sum_probs=28.0
Q ss_pred CcccccccccCCCCCCCCCceeccCCCccCCCCcccccccc
Q 002824 276 EHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKL 316 (876)
Q Consensus 276 qHqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~ 316 (876)
...|.+|++. .|-.+.|....|.+.||+.|....
T Consensus 36 ~~~C~~C~~~-------~Ga~i~C~~~~C~~~fH~~CA~~~ 69 (90)
T PF13771_consen 36 KLKCSICKKK-------GGACIGCSHPGCSRSFHVPCARKA 69 (90)
T ss_pred CCCCcCCCCC-------CCeEEEEeCCCCCcEEChHHHccC
Confidence 3579999865 246899999999999999999754
No 66
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=71.81 E-value=2.8 Score=50.21 Aligned_cols=37 Identities=22% Similarity=0.157 Sum_probs=25.0
Q ss_pred chHHhhccCCCcccccc--CcccccccceecccchhhHH
Q 002824 589 NEEEFMKSHIVPITHAH--HSKHLLEKSITLGLVEGSVK 625 (876)
Q Consensus 589 ~~~~~~~~~~~~~t~~~--~~~~~~~~~i~~g~~~~~v~ 625 (876)
+.||+.++.++|-++.. .+..-+|+.+-.|+-.+.|.
T Consensus 447 s~eDi~k~sk~p~~~~pdpas~~~~e~~~w~~~ps~~V~ 485 (670)
T KOG1044|consen 447 SSEDIIKFSKFPAAQAPDPASTPEIETDHWPGKPSFAVP 485 (670)
T ss_pred cccchhhhhcCCcccCCCCCCCCcccccCCCCCCccccc
Confidence 38999999999888543 33333566677777666665
No 67
>TIGR03533 L3_gln_methyl protein-(glutamine-N5) methyltransferase, ribosomal protein L3-specific. Members of this protein family methylate ribosomal protein L3 on a glutamine side chain. This family is related to HemK, a protein-glutamine methyltranferase for peptide chain release factors.
Probab=68.43 E-value=4.7 Score=44.15 Aligned_cols=72 Identities=19% Similarity=0.311 Sum_probs=41.4
Q ss_pred ccCCeEEeeccCcchhhHHHHHHHHH---cCCccc-------ccCCCCCCCCCCCccccccccccCCCCCCCCC-ceeee
Q 002824 700 RSGDTIVDFCCGANDFSCMMKVKLEQ---MGKSCS-------FRNYDLIQPKNDFSFEKRDWMTVRPEELPDGS-QLIMG 768 (876)
Q Consensus 700 ~~~d~~vd~~cg~~~f~~l~~~~~~~---~~~~~~-------~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~-~li~g 768 (876)
.++..|+|++||+..+...+.++... +|.+.+ -+|.....-.+...|...|+++. ++.++ .+|+.
T Consensus 120 ~~~~~vLDlG~GsG~i~~~la~~~~~~~v~avDis~~al~~A~~n~~~~~~~~~i~~~~~D~~~~----~~~~~fD~Iv~ 195 (284)
T TIGR03533 120 EPVKRILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINIERHGLEDRVTLIQSDLFAA----LPGRKYDLIVS 195 (284)
T ss_pred CCCCEEEEEeCchhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhc----cCCCCccEEEE
Confidence 35678999999999999888765311 111110 11211111124567888887642 34332 46665
Q ss_pred cCCCcchh
Q 002824 769 LNPPFGVK 776 (876)
Q Consensus 769 lnppfg~~ 776 (876)
||||...
T Consensus 196 -NPPy~~~ 202 (284)
T TIGR03533 196 -NPPYVDA 202 (284)
T ss_pred -CCCCCCc
Confidence 9998643
No 68
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=68.37 E-value=8.8 Score=39.84 Aligned_cols=77 Identities=16% Similarity=0.306 Sum_probs=46.4
Q ss_pred ccccCcCCccccccccceeeccccccccccccCCCCcccccccchhhhhhhhccCCCCceeEEccCCc---cccccCCCC
Q 002824 344 KCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHK---IISELKTPA 420 (876)
Q Consensus 344 ~C~~C~~sedk~~~~~qLi~C~RCPkAYH~kCLP~gi~f~~~~~e~~~raW~~ll~~~riLI~C~kH~---i~~~l~TP~ 420 (876)
.|.+|...++. ...+.|+-|--|..|||..||-.-+..+.... . +-. ...++-|..|- ..++..+|.
T Consensus 1 ~C~~C~~~g~~-~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVT----K----Vg~-d~FVLQCr~Cig~~~kKD~~aP~ 70 (175)
T PF15446_consen 1 TCDTCGYEGDD-RNKGPLVYCQGCSSSYHKACLGPRSQREHLVT----K----VGD-DDFVLQCRRCIGIAHKKDPRAPH 70 (175)
T ss_pred CcccccCCCCC-ccCCCeEEcCccChHHHhhhcCCccccceeeE----E----EcC-CceEEechhhcChhhcccCCCCC
Confidence 48899764432 24679999999999999999966554332110 0 111 14556677665 334455666
Q ss_pred cCCCCCCCCC
Q 002824 421 RDHLKFPGVE 430 (876)
Q Consensus 421 rdHi~FP~~~ 430 (876)
.++-.-+...
T Consensus 71 ~~~C~~C~~~ 80 (175)
T PF15446_consen 71 HGMCQQCKKP 80 (175)
T ss_pred CCcccccCCC
Confidence 6654433333
No 69
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=68.25 E-value=9.8 Score=40.36 Aligned_cols=70 Identities=21% Similarity=0.430 Sum_probs=41.7
Q ss_pred cccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCCC-------------CCCCCccccccccccCCCCCCCCC-c
Q 002824 699 VRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQ-------------PKNDFSFEKRDWMTVRPEELPDGS-Q 764 (876)
Q Consensus 699 ~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~-------------~~~~~~f~~~~w~~~~~~~l~~g~-~ 764 (876)
..++.+|+|++||+..+...+...+. .+.+--.|+.+ ..+...|...||+.- ++.+. -
T Consensus 106 ~~~~~~vLDiG~GsG~~~~~la~~~~----~~~v~~iDis~~~l~~a~~n~~~~~~~~i~~~~~d~~~~----~~~~~fD 177 (275)
T PRK09328 106 LKEPLRVLDLGTGSGAIALALAKERP----DAEVTAVDISPEALAVARRNAKHGLGARVEFLQGDWFEP----LPGGRFD 177 (275)
T ss_pred ccCCCEEEEEcCcHHHHHHHHHHHCC----CCEEEEEECCHHHHHHHHHHHHhCCCCcEEEEEccccCc----CCCCcee
Confidence 35678999999999999888776541 12222222211 124567777777542 22333 3
Q ss_pred eeeecCCCcchhh
Q 002824 765 LIMGLNPPFGVKA 777 (876)
Q Consensus 765 li~glnppfg~~~ 777 (876)
+|+. ||||....
T Consensus 178 ~Iv~-npPy~~~~ 189 (275)
T PRK09328 178 LIVS-NPPYIPEA 189 (275)
T ss_pred EEEE-CCCcCCcc
Confidence 5555 99997543
No 70
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=68.14 E-value=2.6 Score=47.97 Aligned_cols=49 Identities=18% Similarity=0.405 Sum_probs=33.6
Q ss_pred cccccccccCCCCCCCCCceeccCCCccCCCCccccccccCCCCchhHHHHHHHHhhcCCceecCCcccccCcCCcc
Q 002824 277 HQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSED 353 (876)
Q Consensus 277 HqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~~~eL~krI~~g~~F~CPlH~C~~C~~sed 353 (876)
..|.+|-+.-. .++.++= -.|.+.||..|+.+|+.. + +|.|.+|++.-.
T Consensus 230 ~~CaIClEdY~-----~GdklRi--LPC~H~FH~~CIDpWL~~--------------------~-r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYE-----KGDKLRI--LPCSHKFHVNCIDPWLTQ--------------------T-RTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccc-----cCCeeeE--ecCCCchhhccchhhHhh--------------------c-CccCCCCCCcCC
Confidence 46888865332 2233322 678999999999999732 1 578999999553
No 71
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=67.29 E-value=4.2 Score=52.09 Aligned_cols=66 Identities=24% Similarity=0.456 Sum_probs=46.0
Q ss_pred cccccccccCCCCCCCCCceeccCCCccCCCCccccccccCCCCchhHHHHHHHHhhcCCceecCCcccccCcCCccccc
Q 002824 277 HQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNV 356 (876)
Q Consensus 277 HqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~~~eL~krI~~g~~F~CPlH~C~~C~~sedk~~ 356 (876)
..|.+|.+-... .....+.| ..|+..+|.+|.+..+-|+ ..| .|..|-++..
T Consensus 220 ~~C~iC~~~~~~---n~n~ivfC--D~Cnl~VHq~Cygi~~ipe---------------g~W-----lCr~Cl~s~~--- 271 (1051)
T KOG0955|consen 220 AVCCICLDGECQ---NSNVIVFC--DGCNLAVHQECYGIPFIPE---------------GQW-----LCRRCLQSPQ--- 271 (1051)
T ss_pred ccceeecccccC---CCceEEEc--CCCcchhhhhccCCCCCCC---------------CcE-----eehhhccCcC---
Confidence 358888764431 23467889 8999999999999544342 334 6788988764
Q ss_pred cccceeecccccccccc
Q 002824 357 EDLQLAICRRCPKAYHR 373 (876)
Q Consensus 357 ~~~qLi~C~RCPkAYH~ 373 (876)
..+.|.-||.+=|.
T Consensus 272 ---~~v~c~~cp~~~gA 285 (1051)
T KOG0955|consen 272 ---RPVRCLLCPSKGGA 285 (1051)
T ss_pred ---cccceEeccCCCCc
Confidence 34889999876554
No 72
>PRK05785 hypothetical protein; Provisional
Probab=67.11 E-value=7 Score=41.31 Aligned_cols=47 Identities=21% Similarity=0.380 Sum_probs=34.2
Q ss_pred cccccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHH
Q 002824 674 RYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 674 ry~s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
+..|||++.- --+++++.+..+..++.+|+|++||..++...+.++.
T Consensus 27 ~~~s~g~~~~---wr~~~~~~l~~~~~~~~~VLDlGcGtG~~~~~l~~~~ 73 (226)
T PRK05785 27 RFISFNQDVR---WRAELVKTILKYCGRPKKVLDVAAGKGELSYHFKKVF 73 (226)
T ss_pred hhccCCCcHH---HHHHHHHHHHHhcCCCCeEEEEcCCCCHHHHHHHHhc
Confidence 4557777732 1234666666666678999999999999999887763
No 73
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=66.92 E-value=7.3 Score=40.00 Aligned_cols=107 Identities=25% Similarity=0.338 Sum_probs=58.0
Q ss_pred chhhhHHHHHHhhccccc--cCCeEEeeccCcchhh--HHHHHHHHHcCCcccccCCCCCCCCCCCcccccc-cc--ccC
Q 002824 683 TKVEKLKEIVDRLHWYVR--SGDTIVDFCCGANDFS--CMMKVKLEQMGKSCSFRNYDLIQPKNDFSFEKRD-WM--TVR 755 (876)
Q Consensus 683 t~~ekl~~i~~~l~~~~~--~~d~~vd~~cg~~~f~--~l~~~~~~~~~~~~~~kn~d~~~~~~~~~f~~~~-w~--~~~ 755 (876)
|.|+-....+.-+|=..- .|--+.|++||-...| .-|-+.=.=.|-+..=-...++ ..|-..||-.+ .+ ++.
T Consensus 28 T~p~iAasM~~~Ih~TygdiEgkkl~DLgcgcGmLs~a~sm~~~e~vlGfDIdpeALEIf-~rNaeEfEvqidlLqcdil 106 (185)
T KOG3420|consen 28 TRPHIAASMLYTIHNTYGDIEGKKLKDLGCGCGMLSIAFSMPKNESVLGFDIDPEALEIF-TRNAEEFEVQIDLLQCDIL 106 (185)
T ss_pred CcHHHHHHHHHHHHhhhccccCcchhhhcCchhhhHHHhhcCCCceEEeeecCHHHHHHH-hhchHHhhhhhheeeeecc
Confidence 566665666666665553 4567999999977655 2222111111111111111111 24444454322 11 122
Q ss_pred CCCCCCCCceeeecCCCcchhhhhH-HHHHHhhhhc
Q 002824 756 PEELPDGSQLIMGLNPPFGVKASLA-NKFISQALKF 790 (876)
Q Consensus 756 ~~~l~~g~~li~glnppfg~~~~~a-~kfi~~~~~f 790 (876)
-.++..|-.-.--.|||||-+-.-| -+|+++||+.
T Consensus 107 dle~~~g~fDtaviNppFGTk~~~aDm~fv~~al~~ 142 (185)
T KOG3420|consen 107 DLELKGGIFDTAVINPPFGTKKKGADMEFVSAALKV 142 (185)
T ss_pred chhccCCeEeeEEecCCCCcccccccHHHHHHHHHH
Confidence 3345557766777899999876434 5899999986
No 74
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=66.70 E-value=8.8 Score=42.19 Aligned_cols=155 Identities=20% Similarity=0.296 Sum_probs=96.0
Q ss_pred cccCcccchhh-hHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHH----------------cCCcccccCCCCC
Q 002824 676 TSFGRHFTKVE-KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQ----------------MGKSCSFRNYDLI 738 (876)
Q Consensus 676 ~s~grhft~~e-kl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~----------------~~~~~~~kn~d~~ 738 (876)
.+||.||..-. -+..||+... +++||+|++.=+|-...-..|-++... .-. .+.|+.+|
T Consensus 6 K~~GQnFL~d~~v~~kIv~~a~--~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~~l~~~L~~~~~--~~~n~~vi 81 (259)
T COG0030 6 KRLGQNFLIDKNVIDKIVEAAN--ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDRRLAEVLKERFA--PYDNLTVI 81 (259)
T ss_pred CCcccccccCHHHHHHHHHhcC--CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCHHHHHHHHHhcc--cccceEEE
Confidence 68999998766 5678888765 566999999999999887766544221 111 46677777
Q ss_pred CCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCc--EEEEecCccc-ccccccc-----
Q 002824 739 QPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPK--LIVLIVPQET-RRLDQKA----- 810 (876)
Q Consensus 739 ~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~--~~~li~p~~~-~~~~~~~----- 810 (876)
. .|-|.+...+|- +...|.| |.||. .+..++-|.|+..+. -.++.+-.|+ +||=.+.
T Consensus 82 ~---------~DaLk~d~~~l~-~~~~vVa-NlPY~----Isspii~kll~~~~~~~~~v~M~QkEva~Rl~A~pgsk~Y 146 (259)
T COG0030 82 N---------GDALKFDFPSLA-QPYKVVA-NLPYN----ISSPILFKLLEEKFIIQDMVLMVQKEVAERLVAKPGSKDY 146 (259)
T ss_pred e---------CchhcCcchhhc-CCCEEEE-cCCCc----ccHHHHHHHHhccCccceEEEEeHHHHHHHHhCCCCCccc
Confidence 5 344444555444 6668888 99999 666777777777655 4566555553 5553331
Q ss_pred c-cceee------cccccccCcccccCCccccCcccccccccCCCc
Q 002824 811 S-YNLIW------EDNEVLSGKSFYLPGSLDVHDNQLEQWNCKPPP 849 (876)
Q Consensus 811 ~-y~l~~------~d~~~l~g~~fy~pg~~d~~~~~~~~~n~~~p~ 849 (876)
+ ..+++ +--..++=..||=|=-||--=-.|.-....|.|
T Consensus 147 g~LsV~~q~~~~v~~~~~Vpp~~F~P~PkVdSavv~L~~~~~~~~~ 192 (259)
T COG0030 147 GRLSVLVQYYADVEIVFDVPPSAFYPPPKVDSAVVRLVPKKEKPSP 192 (259)
T ss_pred chhhhhhhheEEEEEEEEEChhhCCCCCCccEEEEEEEeCCCCCCc
Confidence 1 22222 112335667777777776433344444444444
No 75
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=66.32 E-value=1.6 Score=57.33 Aligned_cols=61 Identities=20% Similarity=0.438 Sum_probs=42.6
Q ss_pred cCCCCccccccCCCC---ceeecCcccccccccccccCccccccccCCcccccCCCCceecccccccC---cccccccc
Q 002824 212 DENYFAVCAICDDGG---DVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQE---HQCFACGM 284 (876)
Q Consensus 212 dd~~d~VCaICe~gG---eLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~gq---HqCfiCgk 284 (876)
.......|.+|...+ +++.|++ |.+.||..|.. ..++.. +.+.|+|+.|...+ -+|..|+.
T Consensus 1104 ~s~~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~r--------p~~~~~---~~~dW~C~~c~~e~~~rr~~~~~~~ 1170 (1404)
T KOG1245|consen 1104 RSAVNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLR--------PALSSV---PPGDWMCPSCRKEHRARRQKRFRKE 1170 (1404)
T ss_pred cccchhhhhhhhhcccchhhhhhHh-hhhhHHHHhhh--------hhhccC---CcCCccCCccchhhhhhhhhhhhcc
Confidence 345577899997765 4999995 99999999643 333333 36789999998543 34555543
No 76
>PLN02672 methionine S-methyltransferase
Probab=66.26 E-value=7.9 Score=50.04 Aligned_cols=146 Identities=17% Similarity=0.177 Sum_probs=80.0
Q ss_pred hHHHHHHHHHHhhCCCChhhhhhcCChhhhhhHHHhhhc---------------cccccccccccccccccCcccc----
Q 002824 623 SVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRK---------------LDVYLAPFLHGMRYTSFGRHFT---- 683 (876)
Q Consensus 623 ~v~a~~~al~~l~~g~~~~~aka~c~p~~l~q~~~~~~k---------------l~~~l~p~l~g~ry~s~grhft---- 683 (876)
.-.|.|..|+.|++-.+.-+|.+. |..|.+--.. =.++|.|.- |.++ =+|+.|.
T Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-G~~~-F~~l~~~V~p~ 94 (1082)
T PLN02672 22 AYGAFKGVLERLEDPTTRSDARKL-----LSAVEKRVAASEAGEDCFATYHFRIHDLVLDDYE-GFRN-RKKLTMMEIPS 94 (1082)
T ss_pred HHHHHHHHHHHhcCccccHHHHHH-----HHHHHHHhcccCcccchhhhcceEEeeEEEcCCC-CeEE-ecCCceeeCCC
Confidence 356888889999999888787665 5554443211 134555544 4332 2344332
Q ss_pred ---hhhhHHHHHHhhcc---ccccCCeEEeeccCcchhhHHHHHHHHH---cCCcc-------cccCCCC--C-------
Q 002824 684 ---KVEKLKEIVDRLHW---YVRSGDTIVDFCCGANDFSCMMKVKLEQ---MGKSC-------SFRNYDL--I------- 738 (876)
Q Consensus 684 ---~~ekl~~i~~~l~~---~~~~~d~~vd~~cg~~~f~~l~~~~~~~---~~~~~-------~~kn~d~--~------- 738 (876)
+-+-.+..|+.|.. ..-.|.+|+|++||+.-.+..+.++... ++-+. --+|-.. +
T Consensus 95 VLIPRpeTE~lve~L~~~~~~~~~~~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~ 174 (1082)
T PLN02672 95 IFIPEDWSFTFYEGLNRHPDSIFRDKTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPV 174 (1082)
T ss_pred cccCchhHHHHHHHHHhcccccCCCCEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCcccccccc
Confidence 22333444444322 1123568999999999999888776421 11111 1112111 0
Q ss_pred ------CCCCCCccccccccccCCCCCCCCCceeeecCCCcchhh
Q 002824 739 ------QPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKA 777 (876)
Q Consensus 739 ------~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~ 777 (876)
...+...|...||.+.-+. ....=-||++ |||+=..+
T Consensus 175 ~~~~~~~l~~rV~f~~sDl~~~~~~-~~~~fDlIVS-NPPYI~~~ 217 (1082)
T PLN02672 175 YDGEGKTLLDRVEFYESDLLGYCRD-NNIELDRIVG-CIPQILNP 217 (1082)
T ss_pred cccccccccccEEEEECchhhhccc-cCCceEEEEE-CCCcCCCc
Confidence 0124689999999864321 1001358888 99986544
No 77
>TIGR00095 RNA methyltransferase, RsmD family. This model represents a family of uncharacterized bacterial proteins. Members are present in nearly every complete bacterial genome, always in a single copy. PSI-BLAST analysis shows homology to several families of SAM-dependent methyltransferases, including ribosomal RNA adenine dimethylases.
Probab=64.68 E-value=5.7 Score=40.99 Aligned_cols=37 Identities=14% Similarity=0.163 Sum_probs=25.4
Q ss_pred hhhHHH-HHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 685 VEKLKE-IVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 685 ~ekl~~-i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
.++++| +..-|.-+ ..|..|+|++||+..|.-..-.+
T Consensus 33 ~~~vrea~f~~l~~~-~~g~~vLDLfaGsG~lglea~sr 70 (189)
T TIGR00095 33 TRVVRELFFNILRPE-IQGAHLLDVFAGSGLLGEEALSR 70 (189)
T ss_pred hHHHHHHHHHHHHHh-cCCCEEEEecCCCcHHHHHHHhC
Confidence 445554 45545433 35889999999999998776554
No 78
>COG0286 HsdM Type I restriction-modification system methyltransferase subunit [Defense mechanisms]
Probab=63.04 E-value=8.3 Score=45.66 Aligned_cols=49 Identities=22% Similarity=0.269 Sum_probs=43.8
Q ss_pred ccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcC
Q 002824 677 SFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMG 727 (876)
Q Consensus 677 s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~ 727 (876)
+.|.+||+.+-.+=||+.|-. +++++|.|.+||+..|-....+.+.+..
T Consensus 164 ~~GEfyTP~~v~~liv~~l~~--~~~~~i~DpacGsgg~l~~a~~~~~~~~ 212 (489)
T COG0286 164 EAGEFYTPREVSELIVELLDP--EPRNSIYDPACGSGGMLLQAAKYLKRHQ 212 (489)
T ss_pred CCCccCChHHHHHHHHHHcCC--CCCCeecCCCCchhHHHHHHHHHHHhhc
Confidence 789999999988889999888 8999999999999999988888886543
No 79
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=61.58 E-value=4.6 Score=44.82 Aligned_cols=65 Identities=20% Similarity=0.408 Sum_probs=39.8
Q ss_pred CeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCC--------------CCCCCCccccccccccCCCCCCCCC-ceee
Q 002824 703 DTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLI--------------QPKNDFSFEKRDWMTVRPEELPDGS-QLIM 767 (876)
Q Consensus 703 d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~--------------~~~~~~~f~~~~w~~~~~~~l~~g~-~li~ 767 (876)
.+|+|++||+..++..+..+.. ....--.|+. .-.+...|...|+.+. +|.++ .+|+
T Consensus 135 ~~VLDlG~GsG~iai~la~~~p----~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~----l~~~~fDlIv 206 (307)
T PRK11805 135 TRILDLCTGSGCIAIACAYAFP----DAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAA----LPGRRYDLIV 206 (307)
T ss_pred CEEEEEechhhHHHHHHHHHCC----CCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhh----CCCCCccEEE
Confidence 6899999999999988866521 1112122221 1124577888887653 33333 4666
Q ss_pred ecCCCcchh
Q 002824 768 GLNPPFGVK 776 (876)
Q Consensus 768 glnppfg~~ 776 (876)
. ||||--.
T Consensus 207 s-NPPyi~~ 214 (307)
T PRK11805 207 S-NPPYVDA 214 (307)
T ss_pred E-CCCCCCc
Confidence 6 9998643
No 80
>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase. Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme
Probab=59.83 E-value=9.9 Score=39.68 Aligned_cols=51 Identities=12% Similarity=0.036 Sum_probs=43.7
Q ss_pred cccccccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 672 GMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 672 g~ry~s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
|.+|+.-+|+..-....-+.+.++...+.++++|+|+-||...+...|.+.
T Consensus 14 g~~~~~rn~~~~~~~~~~~~~~~~l~~~~~~~~VLDiGCG~G~~~~~L~~~ 64 (204)
T TIGR03587 14 GKEYIDRNSRQSLVAAKLAMFARALNRLPKIASILELGANIGMNLAALKRL 64 (204)
T ss_pred cchhhhccccHHHHHHHHHHHHHHHHhcCCCCcEEEEecCCCHHHHHHHHh
Confidence 678999998887777777777777788889999999999999999988765
No 81
>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase. This family consists exclusively of proteins believed to act as tRNA (uracil-5-)-methyltransferase. All members of far are proteobacterial. The seed alignment was taken directly from pfam05958 in Pfam 12.0, but higher cutoffs are used to select only functionally equivalent proteins. Homologous proteins excluded by the higher cutoff scores of this model include other uracil methyltransferases, such as RumA, active on rRNA.
Probab=59.35 E-value=5.9 Score=44.79 Aligned_cols=97 Identities=14% Similarity=0.256 Sum_probs=50.0
Q ss_pred CCeEEeeccCcchhhHHHHHHHHH-cCC-------cccccCCCCCCCCCCCccccccccccCCC-----CCC--CC----
Q 002824 702 GDTIVDFCCGANDFSCMMKVKLEQ-MGK-------SCSFRNYDLIQPKNDFSFEKRDWMTVRPE-----ELP--DG---- 762 (876)
Q Consensus 702 ~d~~vd~~cg~~~f~~l~~~~~~~-~~~-------~~~~kn~d~~~~~~~~~f~~~~w~~~~~~-----~l~--~g---- 762 (876)
++.|+|++||+..|+-.+.++... +|- ..-=+|..+-.-. +..|...|....-+. .++ .|
T Consensus 198 ~~~vlDl~~G~G~~sl~la~~~~~v~~vE~~~~av~~a~~n~~~~~~~-~v~~~~~d~~~~~~~~~~~~~~~~~~~~~~~ 276 (353)
T TIGR02143 198 KGDLLELYCGNGNFSLALAQNFRRVLATEIAKPSVNAAQYNIAANNID-NVQIIRMSAEEFTQAMNGVREFRRLKGIDLK 276 (353)
T ss_pred CCcEEEEeccccHHHHHHHHhCCEEEEEECCHHHHHHHHHHHHHcCCC-cEEEEEcCHHHHHHHHhhccccccccccccc
Confidence 457999999999999988765210 000 0001222221111 355666665442221 110 11
Q ss_pred C--ceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEecCccc
Q 002824 763 S--QLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIVPQET 803 (876)
Q Consensus 763 ~--~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~p~~~ 803 (876)
. .=++-|||| ++-++.++++.... ..+++.+=.-|.|
T Consensus 277 ~~~~d~v~lDPP---R~G~~~~~l~~l~~-~~~ivYvsC~p~t 315 (353)
T TIGR02143 277 SYNCSTIFVDPP---RAGLDPDTCKLVQA-YERILYISCNPET 315 (353)
T ss_pred cCCCCEEEECCC---CCCCcHHHHHHHHc-CCcEEEEEcCHHH
Confidence 1 134567999 46677788777666 2444444444444
No 82
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=59.34 E-value=5.7 Score=34.10 Aligned_cols=34 Identities=29% Similarity=0.744 Sum_probs=26.5
Q ss_pred cccccccccCCCCCCCCCceeccCCCccCCCCcccccccc
Q 002824 277 HQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKL 316 (876)
Q Consensus 277 HqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~ 316 (876)
..|.+||+.-. .+..++.| +.||.-||..|..+.
T Consensus 6 ~~C~~Cg~~~~----~~dDiVvC--p~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 6 CKCPVCGKKFK----DGDDIVVC--PECGAPYHRDCWEKA 39 (54)
T ss_pred ccChhhCCccc----CCCCEEEC--CCCCCcccHHHHhhC
Confidence 35888987532 35689999 899999999998654
No 83
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=59.07 E-value=12 Score=43.83 Aligned_cols=80 Identities=18% Similarity=0.424 Sum_probs=44.3
Q ss_pred HHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCCCC------------CCCCccccccccccC
Q 002824 688 LKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQP------------KNDFSFEKRDWMTVR 755 (876)
Q Consensus 688 l~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~------------~~~~~f~~~~w~~~~ 755 (876)
.+.+++.+.=.+.++.+|+|++||+..++..+..+.. .+..--.|+.+. ..+..|...||++..
T Consensus 238 TE~LVe~aL~~l~~~~rVLDLGcGSG~IaiaLA~~~p----~a~VtAVDiS~~ALe~AreNa~~~g~rV~fi~gDl~e~~ 313 (423)
T PRK14966 238 TEHLVEAVLARLPENGRVWDLGTGSGAVAVTVALERP----DAFVRASDISPPALETARKNAADLGARVEFAHGSWFDTD 313 (423)
T ss_pred HHHHHHHhhhccCCCCEEEEEeChhhHHHHHHHHhCC----CCEEEEEECCHHHHHHHHHHHHHcCCcEEEEEcchhccc
Confidence 3445555433356778999999999999876654321 111111111110 124667788886532
Q ss_pred CCCCC-CCC-ceeeecCCCcch
Q 002824 756 PEELP-DGS-QLIMGLNPPFGV 775 (876)
Q Consensus 756 ~~~l~-~g~-~li~glnppfg~ 775 (876)
+| .++ -+|+. ||||-.
T Consensus 314 ---l~~~~~FDLIVS-NPPYI~ 331 (423)
T PRK14966 314 ---MPSEGKWDIIVS-NPPYIE 331 (423)
T ss_pred ---cccCCCccEEEE-CCCCCC
Confidence 12 233 35554 999854
No 84
>PRK14967 putative methyltransferase; Provisional
Probab=58.41 E-value=22 Score=37.08 Aligned_cols=34 Identities=15% Similarity=0.377 Sum_probs=26.5
Q ss_pred hhHHHHHHhhccccccCCeEEeeccCcchhhHHHHH
Q 002824 686 EKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 721 (876)
Q Consensus 686 ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~ 721 (876)
+.|.+++.++ .+.+|++|+|++||.-.++..+.+
T Consensus 23 ~~l~~~l~~~--~~~~~~~vLDlGcG~G~~~~~la~ 56 (223)
T PRK14967 23 QLLADALAAE--GLGPGRRVLDLCTGSGALAVAAAA 56 (223)
T ss_pred HHHHHHHHhc--ccCCCCeEEEecCCHHHHHHHHHH
Confidence 4566666654 368899999999999999887765
No 85
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=58.17 E-value=6.4 Score=34.81 Aligned_cols=39 Identities=23% Similarity=0.512 Sum_probs=16.0
Q ss_pred cccccccccCCCCCCCCCceeccCCCccCCCCccccccccC
Q 002824 277 HQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLL 317 (876)
Q Consensus 277 HqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~ 317 (876)
..|.+|...-..+ .....+.|....|++.||..|+..|+
T Consensus 3 ~~C~IC~~~~~~~--~~~p~~~C~n~~C~~~fH~~CL~~wf 41 (70)
T PF11793_consen 3 LECGICYSYRLDD--GEIPDVVCPNPSCGKKFHLLCLSEWF 41 (70)
T ss_dssp -S-SSS--SS-TT-------B--S-TT----B-SGGGHHHH
T ss_pred CCCCcCCcEecCC--CCcCceEcCCcccCCHHHHHHHHHHH
Confidence 3577886543211 12346899999999999999999886
No 86
>TIGR00536 hemK_fam HemK family putative methylases. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. Both E. coli and H. influenzae have two members rather than one. The members from the Mycoplasmas have an additional C-terminal domain.
Probab=58.12 E-value=6.7 Score=42.70 Aligned_cols=69 Identities=17% Similarity=0.256 Sum_probs=39.4
Q ss_pred CeEEeeccCcchhhHHHHHHHHH---cCCccc-------ccCCCCCCCCCCCccccccccccCCCCCCC-CCceeeecCC
Q 002824 703 DTIVDFCCGANDFSCMMKVKLEQ---MGKSCS-------FRNYDLIQPKNDFSFEKRDWMTVRPEELPD-GSQLIMGLNP 771 (876)
Q Consensus 703 d~~vd~~cg~~~f~~l~~~~~~~---~~~~~~-------~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~-g~~li~glnp 771 (876)
..|+|++||+..+...+...... ++-+.+ -+|.....-.+...|...||+.- ++. .=.+|++ ||
T Consensus 116 ~~vLDlG~GsG~i~l~la~~~~~~~v~avDis~~al~~a~~n~~~~~~~~~v~~~~~d~~~~----~~~~~fDlIvs-NP 190 (284)
T TIGR00536 116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEP----LAGQKIDIIVS-NP 190 (284)
T ss_pred CEEEEEeccHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhcc----CcCCCccEEEE-CC
Confidence 68999999999998877665321 000000 01211111124577888898763 333 2346666 99
Q ss_pred Ccchh
Q 002824 772 PFGVK 776 (876)
Q Consensus 772 pfg~~ 776 (876)
||--.
T Consensus 191 Pyi~~ 195 (284)
T TIGR00536 191 PYIDE 195 (284)
T ss_pred CCCCc
Confidence 98543
No 87
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=57.36 E-value=11 Score=40.09 Aligned_cols=43 Identities=26% Similarity=0.351 Sum_probs=39.3
Q ss_pred hhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcCC
Q 002824 685 VEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGK 728 (876)
Q Consensus 685 ~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~ 728 (876)
..||.||.+|- -.+.+|+.|||+++.=..||+...+++...|+
T Consensus 30 a~KL~el~~k~-~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ 72 (205)
T COG0293 30 AYKLLELNEKF-KLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGK 72 (205)
T ss_pred HHHHHHHHHhc-CeecCCCEEEEcCCCCCcHHHHHHHHhCCCCc
Confidence 56999999998 78899999999999999999999999888765
No 88
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=55.36 E-value=15 Score=38.08 Aligned_cols=45 Identities=9% Similarity=0.290 Sum_probs=36.2
Q ss_pred cCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHH
Q 002824 678 FGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLE 724 (876)
Q Consensus 678 ~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~ 724 (876)
+|++++.+.-...+++.|. +++|+.|+|+.||+-.++..|-+...
T Consensus 56 ~~~~~~~p~~~~~~~~~l~--~~~~~~VLDiG~GsG~~a~~la~~~~ 100 (215)
T TIGR00080 56 YGQTISAPHMVAMMTELLE--LKPGMKVLEIGTGSGYQAAVLAEIVG 100 (215)
T ss_pred CCCEechHHHHHHHHHHhC--CCCcCEEEEECCCccHHHHHHHHHhC
Confidence 3677777766677777764 78999999999999999998887743
No 89
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=55.26 E-value=6.4 Score=33.79 Aligned_cols=32 Identities=31% Similarity=0.822 Sum_probs=24.5
Q ss_pred ccccCcCCccccccccceeeccccccccccccCCC
Q 002824 344 KCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPT 378 (876)
Q Consensus 344 ~C~~C~~sedk~~~~~qLi~C~RCPkAYH~kCLP~ 378 (876)
.|..|+..-. .+..+++|..|.+-||+.|-..
T Consensus 7 ~C~~Cg~~~~---~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 7 KCPVCGKKFK---DGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cChhhCCccc---CCCCEEECCCCCCcccHHHHhh
Confidence 4778888542 2347999999999999999643
No 90
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=53.49 E-value=14 Score=41.92 Aligned_cols=38 Identities=8% Similarity=0.278 Sum_probs=27.4
Q ss_pred hhhHHHHHHhhcccccc-CCeEEeeccCcchhhHHHHHH
Q 002824 685 VEKLKEIVDRLHWYVRS-GDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 685 ~ekl~~i~~~l~~~~~~-~d~~vd~~cg~~~f~~l~~~~ 722 (876)
.+-.+.+++.+.-++.. +..|+|++||+..|+-.+.+.
T Consensus 189 ~~~~e~l~~~v~~~~~~~~~~vLDl~~G~G~~sl~la~~ 227 (362)
T PRK05031 189 AAVNEKMLEWALDATKGSKGDLLELYCGNGNFTLALARN 227 (362)
T ss_pred HHHHHHHHHHHHHHhhcCCCeEEEEeccccHHHHHHHhh
Confidence 33556666666666653 457999999999999877654
No 91
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=51.59 E-value=22 Score=44.02 Aligned_cols=30 Identities=23% Similarity=0.472 Sum_probs=21.7
Q ss_pred HHHHHhhccccccCCeEEeeccCcchhhHHH
Q 002824 689 KEIVDRLHWYVRSGDTIVDFCCGANDFSCMM 719 (876)
Q Consensus 689 ~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~ 719 (876)
-.|+..-.|. .+|+.+||..||+.+|...-
T Consensus 179 aa~l~~a~w~-~~~~~l~DP~CGSGTilIEA 208 (702)
T PRK11783 179 AAILLRSGWP-QEGTPLLDPMCGSGTLLIEA 208 (702)
T ss_pred HHHHHHcCCC-CCCCeEEccCCCccHHHHHH
Confidence 3445444563 57899999999999998654
No 92
>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=51.07 E-value=18 Score=34.44 Aligned_cols=36 Identities=19% Similarity=0.506 Sum_probs=29.7
Q ss_pred hHHHHHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 687 KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 687 kl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
.+.+++.++..+..++..|+|+-||...|...|.+.
T Consensus 8 ~~~~~~~~~~~~~~~~~~vLDiGcG~G~~~~~l~~~ 43 (161)
T PF13489_consen 8 AYADLLERLLPRLKPGKRVLDIGCGTGSFLRALAKR 43 (161)
T ss_dssp CHHHHHHHHHTCTTTTSEEEEESSTTSHHHHHHHHT
T ss_pred HHHHHHHHHhcccCCCCEEEEEcCCCCHHHHHHHHh
Confidence 455677777777889999999999999999999553
No 93
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=50.36 E-value=20 Score=37.14 Aligned_cols=44 Identities=11% Similarity=0.203 Sum_probs=35.7
Q ss_pred cCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHH
Q 002824 678 FGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 678 ~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
+|++++.+.-+..+.+.|. +.+|+.|+|+.||+..++.+|.+.+
T Consensus 51 ~~~~~~~p~~~~~~~~~l~--~~~~~~VLDiG~GsG~~~~~la~~~ 94 (205)
T PRK13944 51 AGATISAPHMVAMMCELIE--PRPGMKILEVGTGSGYQAAVCAEAI 94 (205)
T ss_pred CCCEechHHHHHHHHHhcC--CCCCCEEEEECcCccHHHHHHHHhc
Confidence 5677777777777777664 5789999999999999998887765
No 94
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=50.26 E-value=6.8 Score=39.66 Aligned_cols=32 Identities=28% Similarity=0.587 Sum_probs=24.2
Q ss_pred eecCCcccccCcCCccccccccceeecccccccccc-ccCC
Q 002824 338 FTCPVHKCFVCQQSEDMNVEDLQLAICRRCPKAYHR-KCLP 377 (876)
Q Consensus 338 F~CPlH~C~~C~~sedk~~~~~qLi~C~RCPkAYH~-kCLP 377 (876)
|.=++++|.+|+-.+ ...|..|...|+. .|+.
T Consensus 114 ~KP~r~fCaVCG~~S--------~ysC~~CG~kyCsv~C~~ 146 (156)
T KOG3362|consen 114 FKPLRKFCAVCGYDS--------KYSCVNCGTKYCSVRCLK 146 (156)
T ss_pred CCCcchhhhhcCCCc--------hhHHHhcCCceeechhhh
Confidence 333468999999543 4679999999997 5764
No 95
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=50.18 E-value=17 Score=37.93 Aligned_cols=45 Identities=9% Similarity=0.338 Sum_probs=39.0
Q ss_pred ccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHH
Q 002824 677 SFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 677 s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
.+|++-+.+.-...+++.|. +.+|++|+|+.||+-.++.+|.+.+
T Consensus 54 ~~g~~~~~p~~~~~~~~~l~--~~~g~~VLdIG~GsG~~t~~la~~~ 98 (212)
T PRK13942 54 GYGQTISAIHMVAIMCELLD--LKEGMKVLEIGTGSGYHAAVVAEIV 98 (212)
T ss_pred CCCCEeCcHHHHHHHHHHcC--CCCcCEEEEECCcccHHHHHHHHhc
Confidence 46888889998888998886 6899999999999999998888764
No 96
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=45.73 E-value=17 Score=43.64 Aligned_cols=35 Identities=31% Similarity=0.465 Sum_probs=30.3
Q ss_pred cccCCCCccccccCCCCceeecCccccccccccccc
Q 002824 210 DKDENYFAVCAICDDGGDVTFCDGRCLRSFHATITA 245 (876)
Q Consensus 210 ~edd~~d~VCaICe~gGeLL~CdG~C~RsFH~~Cl~ 245 (876)
....+.+.+|+-|.-+|..|.|+ .|.|+||-.|..
T Consensus 54 ~~~~N~d~~cfechlpg~vl~c~-vc~Rs~h~~c~s 88 (588)
T KOG3612|consen 54 LPSSNIDPFCFECHLPGAVLKCI-VCHRSFHENCQS 88 (588)
T ss_pred ccccCCCcccccccCCcceeeee-hhhccccccccC
Confidence 34567789999999999999999 899999999753
No 97
>PRK14968 putative methyltransferase; Provisional
Probab=45.45 E-value=56 Score=32.26 Aligned_cols=38 Identities=11% Similarity=0.162 Sum_probs=26.0
Q ss_pred chhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 683 TKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 683 t~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
|..+-..-+++.+. ..+|+.|+|+.||...++..+-++
T Consensus 7 ~p~~~~~~l~~~~~--~~~~~~vLd~G~G~G~~~~~l~~~ 44 (188)
T PRK14968 7 EPAEDSFLLAENAV--DKKGDRVLEVGTGSGIVAIVAAKN 44 (188)
T ss_pred CcchhHHHHHHhhh--ccCCCEEEEEccccCHHHHHHHhh
Confidence 33333344444443 278999999999999998877654
No 98
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=45.37 E-value=1.1e+02 Score=34.91 Aligned_cols=21 Identities=24% Similarity=0.510 Sum_probs=18.4
Q ss_pred CCeEEeeccCcchhhHHHHHH
Q 002824 702 GDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 702 ~d~~vd~~cg~~~f~~l~~~~ 722 (876)
+..|+|+.||+..++..+.++
T Consensus 197 ~g~VLDlGCG~G~ls~~la~~ 217 (342)
T PRK09489 197 KGKVLDVGCGAGVLSAVLARH 217 (342)
T ss_pred CCeEEEeccCcCHHHHHHHHh
Confidence 458999999999999988776
No 99
>PF05869 Dam: DNA N-6-adenine-methyltransferase (Dam); InterPro: IPR008593 This family consists of several bacterial and phage DNA N-6-adenine-methyltransferase (Dam) like sequences [].; GO: 0003677 DNA binding, 0009007 site-specific DNA-methyltransferase (adenine-specific) activity, 0032775 DNA methylation on adenine
Probab=45.20 E-value=28 Score=36.31 Aligned_cols=131 Identities=19% Similarity=0.325 Sum_probs=68.5
Q ss_pred ccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCCCCCCCCccccccccccCCCCCC
Q 002824 681 HFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKNDFSFEKRDWMTVRPEELP 760 (876)
Q Consensus 681 hft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~ 760 (876)
--|+++-+..+-..+++| -+|.|+...+ ..|. +-|. ...|. =..||-..-.
T Consensus 14 W~TP~~lf~~l~~~fg~f------~LD~aa~~~N-------------a~~~-~y~T--~~~Dg---L~~~W~~~~~---- 64 (181)
T PF05869_consen 14 WQTPPELFDALNREFGPF------DLDPAASDEN-------------AKCP-RYYT--EEDDG---LAQDWSAELM---- 64 (181)
T ss_pred CcCCHHHHHHHHHHhCCc------cccccCCCCC-------------hhhh-hhcC--ccccH---hhhhhhhccc----
Confidence 357888888888888885 4788875432 1121 1111 11222 3445543211
Q ss_pred CCCceeeecCCCcchhhhhHHHHHHhhhhcC---CcEEEEecCccccccccccccceeeccc---ccccCc-ccccCCcc
Q 002824 761 DGSQLIMGLNPPFGVKASLANKFISQALKFK---PKLIVLIVPQETRRLDQKASYNLIWEDN---EVLSGK-SFYLPGSL 833 (876)
Q Consensus 761 ~g~~li~glnppfg~~~~~a~kfi~~~~~f~---p~~~~li~p~~~~~~~~~~~y~l~~~d~---~~l~g~-~fy~pg~~ 833 (876)
|. | =+||||+.. ...||.||.+.. -..++|++|..+.. .=|+.+++.. .+|.|. .|+.|
T Consensus 65 -g~--v-f~NPPYs~~---i~~wv~Ka~~e~~~g~~~VvLL~~~~~st----~W~~~~~~~a~~I~fi~GRl~F~~p--- 130 (181)
T PF05869_consen 65 -GR--V-FCNPPYSRG---IGPWVEKAIEEYERGNQTVVLLPPADTST----WWFEDALENADEIRFIRGRLKFINP--- 130 (181)
T ss_pred -ce--E-EecCchhhh---HHHHHHHHHHHHHhCCcEEEEEeccCCCc----cHHHHHHhcCCEEEEecCceeeccC---
Confidence 22 3 359999942 667777777532 24466666655443 1255544322 234443 56666
Q ss_pred ccCcccccccccCCCceeeeec
Q 002824 834 DVHDNQLEQWNCKPPPLYLWSR 855 (876)
Q Consensus 834 d~~~~~~~~~n~~~p~~~lws~ 855 (876)
+.|+.-.+.|..|-.|.+|.-
T Consensus 131 -~~g~~~~~~~~~gs~l~if~p 151 (181)
T PF05869_consen 131 -VTGKEGKNGNPKGSMLVIFRP 151 (181)
T ss_pred -CCCccCCCCCCCceEEEEECC
Confidence 223432455556666666643
No 100
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=45.03 E-value=45 Score=40.11 Aligned_cols=126 Identities=24% Similarity=0.423 Sum_probs=78.3
Q ss_pred cccccccccccccc-ccCcccchh----hhHHHHHHhhccccccCC-eEEeeccCcchhhHHHHHHHHHc----------
Q 002824 663 DVYLAPFLHGMRYT-SFGRHFTKV----EKLKEIVDRLHWYVRSGD-TIVDFCCGANDFSCMMKVKLEQM---------- 726 (876)
Q Consensus 663 ~~~l~p~l~g~ry~-s~grhft~~----ekl~~i~~~l~~~~~~~d-~~vd~~cg~~~f~~l~~~~~~~~---------- 726 (876)
+.||-=-|.|-|++ |.|-+|-.- |+|-.+|. -|--.++| +++|.|||+..|+--+-++-..+
T Consensus 341 ~~~I~E~l~~ltF~iSp~AFFQ~Nt~~aevLys~i~--e~~~l~~~k~llDv~CGTG~iglala~~~~~ViGvEi~~~aV 418 (534)
T KOG2187|consen 341 DPYITESLLGLTFRISPGAFFQTNTSAAEVLYSTIG--EWAGLPADKTLLDVCCGTGTIGLALARGVKRVIGVEISPDAV 418 (534)
T ss_pred ccEEEeecCCeEEEECCchhhccCcHHHHHHHHHHH--HHhCCCCCcEEEEEeecCCceehhhhccccceeeeecChhhc
Confidence 45666667788877 889888653 34444443 25555555 68999999999987765543221
Q ss_pred ---CCc---ccccCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcC-CcEEEEec
Q 002824 727 ---GKS---CSFRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFK-PKLIVLIV 799 (876)
Q Consensus 727 ---~~~---~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~-p~~~~li~ 799 (876)
.+. =.--|=+.|+-+ --|=|+.--+..-.+.+|++-+|||= +-+=.+||...+.++ |+.|+.|+
T Consensus 419 ~dA~~nA~~NgisNa~Fi~gq------aE~~~~sl~~~~~~~~~~v~iiDPpR---~Glh~~~ik~l~~~~~~~rlvyvS 489 (534)
T KOG2187|consen 419 EDAEKNAQINGISNATFIVGQ------AEDLFPSLLTPCCDSETLVAIIDPPR---KGLHMKVIKALRAYKNPRRLVYVS 489 (534)
T ss_pred chhhhcchhcCccceeeeecc------hhhccchhcccCCCCCceEEEECCCc---ccccHHHHHHHHhccCccceEEEE
Confidence 111 112344455432 01122222222223566999999985 558889999999999 88888876
No 101
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=44.20 E-value=20 Score=39.49 Aligned_cols=27 Identities=30% Similarity=0.690 Sum_probs=22.7
Q ss_pred CCceeccCCCccCC-CCccccccccCCC
Q 002824 293 SQEVFPCVSATCGQ-FYHPECVSKLLHP 319 (876)
Q Consensus 293 ~~eV~kCsv~~CGk-fYH~~CL~~~~~p 319 (876)
-++|+.|-.++|.+ +||..||+.--.|
T Consensus 231 yGqMVaCDn~nCkrEWFH~~CVGLk~pP 258 (271)
T COG5034 231 YGQMVACDNANCKREWFHLECVGLKEPP 258 (271)
T ss_pred cccceecCCCCCchhheeccccccCCCC
Confidence 57999999999995 8999999865544
No 102
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=43.92 E-value=16 Score=31.97 Aligned_cols=33 Identities=30% Similarity=0.733 Sum_probs=25.5
Q ss_pred CCceeccccccc-CcccccccccCCCCCCCCCceeccCCCccCC
Q 002824 264 VPNFLCQNCVYQ-EHQCFACGMLGSSDKSSSQEVFPCVSATCGQ 306 (876)
Q Consensus 264 ~~~W~C~eC~~g-qHqCfiCgklGssd~ss~~eV~kCsv~~CGk 306 (876)
...|.|++|-.- ...|..|.+++ ..++| +.||-
T Consensus 23 ~~~F~CPnCG~~~I~RC~~CRk~~--------~~Y~C--P~CGF 56 (59)
T PRK14890 23 AVKFLCPNCGEVIIYRCEKCRKQS--------NPYTC--PKCGF 56 (59)
T ss_pred cCEeeCCCCCCeeEeechhHHhcC--------CceEC--CCCCC
Confidence 468999999654 67899998765 57888 77773
No 103
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=43.68 E-value=28 Score=37.62 Aligned_cols=51 Identities=16% Similarity=0.362 Sum_probs=36.7
Q ss_pred cccccccc---------ccCcccchh---hhHHHHHHhhccccccCCeEEeeccCcchhhHHHHH
Q 002824 669 FLHGMRYT---------SFGRHFTKV---EKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 721 (876)
Q Consensus 669 ~l~g~ry~---------s~grhft~~---ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~ 721 (876)
||.-.+|| .||..|-.+ +-..+++++| -+.+|..|+|+.||...++..|-+
T Consensus 10 ~~~~~~y~~~~~~~~e~~~g~~~~~~gg~~~~~~~l~~l--~l~~~~~VLDiGcG~G~~a~~la~ 72 (263)
T PTZ00098 10 YLENNQYSDEGIKAYEFIFGEDYISSGGIEATTKILSDI--ELNENSKVLDIGSGLGGGCKYINE 72 (263)
T ss_pred hhhccccccccchhHHHHhCCCCCCCCchHHHHHHHHhC--CCCCCCEEEEEcCCCChhhHHHHh
Confidence 45555666 356555555 4566777765 578999999999999998877743
No 104
>PF10237 N6-adenineMlase: Probable N6-adenine methyltransferase; InterPro: IPR019369 This family of proteins, which are of approximately 200 residues in length, contain a highly conserved Glu-Phe-Trp (QFW) motif close to the N terminus and an Asp/Asn-Pro-Pro-Tyr/Phe motif in the centre. This latter motif is characteristic of N-6 adenine-specific DNA methylases and could be involved in substrate binding or in the catalytic activity (, ).
Probab=42.09 E-value=28 Score=35.74 Aligned_cols=67 Identities=31% Similarity=0.476 Sum_probs=38.0
Q ss_pred HHcCCcccccCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhh-cCC-cEEEEecCc
Q 002824 724 EQMGKSCSFRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALK-FKP-KLIVLIVPQ 801 (876)
Q Consensus 724 ~~~~~~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~-f~p-~~~~li~p~ 801 (876)
..-|.. .|.-||.-.|.. =|.+| +|+..+|-.||||- ....+.|+..-+-- .+| --||++++.
T Consensus 61 ~~~~~~-~F~fyD~~~p~~------------~~~~l-~~~~d~vv~DPPFl-~~ec~~k~a~ti~~L~k~~~kii~~Tg~ 125 (162)
T PF10237_consen 61 EQFGGD-EFVFYDYNEPEE------------LPEEL-KGKFDVVVIDPPFL-SEECLTKTAETIRLLLKPGGKIILCTGE 125 (162)
T ss_pred HhcCCc-ceEECCCCChhh------------hhhhc-CCCceEEEECCCCC-CHHHHHHHHHHHHHHhCccceEEEecHH
Confidence 333444 566778776642 24556 78999999999994 33333333222211 123 245677776
Q ss_pred cccc
Q 002824 802 ETRR 805 (876)
Q Consensus 802 ~~~~ 805 (876)
+.+.
T Consensus 126 ~~~~ 129 (162)
T PF10237_consen 126 EMEE 129 (162)
T ss_pred HHHH
Confidence 6654
No 105
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=42.01 E-value=13 Score=43.64 Aligned_cols=29 Identities=21% Similarity=0.478 Sum_probs=18.7
Q ss_pred CccccccCC----CCceeecCccccccccccccc
Q 002824 216 FAVCAICDD----GGDVTFCDGRCLRSFHATITA 245 (876)
Q Consensus 216 d~VCaICe~----gGeLL~CdG~C~RsFH~~Cl~ 245 (876)
-+.|.+|-. .-..|.=- .|.-+||..|+.
T Consensus 175 LPTCpVCLERMD~s~~gi~t~-~c~Hsfh~~cl~ 207 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILTI-LCNHSFHCSCLM 207 (493)
T ss_pred CCCcchhHhhcCccccceeee-ecccccchHHHh
Confidence 477999943 11122222 588999999864
No 106
>PTZ00146 fibrillarin; Provisional
Probab=40.38 E-value=28 Score=38.99 Aligned_cols=62 Identities=16% Similarity=0.235 Sum_probs=41.8
Q ss_pred ccc--ccccccccccCccc--chhh---------hHH-HHHHhhc-cccccCCeEEeeccCcchhhHHHHHHHHHcC
Q 002824 666 LAP--FLHGMRYTSFGRHF--TKVE---------KLK-EIVDRLH-WYVRSGDTIVDFCCGANDFSCMMKVKLEQMG 727 (876)
Q Consensus 666 l~p--~l~g~ry~s~grhf--t~~e---------kl~-~i~~~l~-~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~ 727 (876)
|.| -+||.+..+++-.- ++.| ||- .|+.-|- .++.+|++|+|++||...|+..+-+.....|
T Consensus 82 ~~pg~~vygek~~~~~~~~~~~~~eyR~w~p~rSKlaa~i~~g~~~l~IkpG~~VLDLGaG~G~~t~~lAdiVG~~G 158 (293)
T PTZ00146 82 MVPGESVYGEKRISVEDAEGGEKIEYRVWNPFRSKLAAAIIGGVANIPIKPGSKVLYLGAASGTTVSHVSDLVGPEG 158 (293)
T ss_pred CCCCcccccceEEeeccCCCCCcceeeeeCCcccHHHHHHHCCcceeccCCCCEEEEeCCcCCHHHHHHHHHhCCCC
Confidence 445 46677766655222 2333 777 4544444 4699999999999999999999888764333
No 107
>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=40.26 E-value=13 Score=39.85 Aligned_cols=44 Identities=27% Similarity=0.508 Sum_probs=19.9
Q ss_pred cccccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 674 RYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 674 ry~s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
+--|||.|----.++.+++ -+.+|++|+|+|||..+++..+-++
T Consensus 25 ~~ls~g~~~~wr~~~~~~~-----~~~~g~~vLDv~~GtG~~~~~l~~~ 68 (233)
T PF01209_consen 25 DLLSFGQDRRWRRKLIKLL-----GLRPGDRVLDVACGTGDVTRELARR 68 (233)
T ss_dssp ------------SHHHHHH-----T--S--EEEEET-TTSHHHHHHGGG
T ss_pred cccCCcHHHHHHHHHHhcc-----CCCCCCEEEEeCCChHHHHHHHHHH
Confidence 3357887754444544443 3689999999999999999877543
No 108
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=40.12 E-value=96 Score=31.99 Aligned_cols=71 Identities=14% Similarity=0.288 Sum_probs=45.6
Q ss_pred ChhhhhhHHHhhhcccccccccccccccc------ccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHH
Q 002824 648 PPEILCQIFQWKRKLDVYLAPFLHGMRYT------SFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 721 (876)
Q Consensus 648 ~p~~l~q~~~~~~kl~~~l~p~l~g~ry~------s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~ 721 (876)
.|.++..+..+-+.. |+++.+.-..|. .+|++.+.++-...+.+.|+ +.+|+.|+|+.||+..++.+|.+
T Consensus 23 ~~~~~~a~~~~~r~~--f~p~~~~~~ay~d~~~~~~~~~~~~~p~~~~~l~~~l~--~~~~~~VLeiG~GsG~~t~~la~ 98 (212)
T PRK00312 23 DERVLEAIEATPREL--FVPEAFKHKAYENRALPIGCGQTISQPYMVARMTELLE--LKPGDRVLEIGTGSGYQAAVLAH 98 (212)
T ss_pred CHHHHHHHHcCCHhH--cCCchHHhcCccCCCccCCCCCeeCcHHHHHHHHHhcC--CCCCCEEEEECCCccHHHHHHHH
Confidence 456666666554442 222222222232 45666778887777777665 57899999999999998887765
Q ss_pred H
Q 002824 722 K 722 (876)
Q Consensus 722 ~ 722 (876)
.
T Consensus 99 ~ 99 (212)
T PRK00312 99 L 99 (212)
T ss_pred H
Confidence 4
No 109
>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=39.87 E-value=20 Score=36.01 Aligned_cols=48 Identities=25% Similarity=0.338 Sum_probs=24.8
Q ss_pred cccccccccccccC----cccc-hhhhHHHHHHh-hccccccCCeEEeeccCcchhh
Q 002824 666 LAPFLHGMRYTSFG----RHFT-KVEKLKEIVDR-LHWYVRSGDTIVDFCCGANDFS 716 (876)
Q Consensus 666 l~p~l~g~ry~s~g----rhft-~~ekl~~i~~~-l~~~~~~~d~~vd~~cg~~~f~ 716 (876)
..+.+...++.+.| .|-| +|.+| +++ +..+-.+||+|+|+.|||.+=.
T Consensus 153 ~~~~~~~~~~~~~~~~~~~h~~~kP~~l---~~~lI~~~t~~gdiVlDpF~GSGTT~ 206 (231)
T PF01555_consen 153 PFSIIPPSRKNSKGNTKGKHPTQKPVEL---IERLIKASTNPGDIVLDPFAGSGTTA 206 (231)
T ss_dssp E-SEEETTSTT--CHH----TT-S-HHH---HHHHHHHHS-TT-EEEETT-TTTHHH
T ss_pred ccccccccccccccccccceeecCCHHH---HHHHHHhhhccceeeehhhhccChHH
Confidence 34455666666543 4544 34433 333 3467899999999999998643
No 110
>PF01728 FtsJ: FtsJ-like methyltransferase; InterPro: IPR002877 RrmJ (FtsJ) is a well conserved heat shock protein present in prokaryotes, archaea, and eukaryotes. RrmJ is responsible for methylating 23 S rRNA at position U2552 in the aminoacyl (A)1-site of the ribosome []. U2552 is one of the five universally conserved A-loop residues and has been shown to be methylated at the ribose 2'-OH group in the majority of organisms investigated so far. This suggests that this modification plays an important role in the A-loop function. RrmJ recognises its methylation target only when the 23 S rRNA is present in 50 S ribosomal subunits. This suggests that the RrmJ-mediated methylation must occur late in the maturation process of the ribosome. This is in contrast to other known 23 S rRNA modifications that occur in earlier maturation steps. The 1.5 A crystal structure of RrmJ in complex with its cofactor S-adenosylmethionine revealed that RrmJ has a methyltransferase fold. The active site of RrmJ appears to be formed by a catalytic triad consisting of two lysine residues and the negatively charged aspartate residue. Another highly conserved glutamate residue that is present in the active site of RrmJ appears to play only a minor role in the methyltransfer reaction in vivo []. ; GO: 0003676 nucleic acid binding, 0008168 methyltransferase activity, 0032259 methylation; PDB: 3GCZ_A 2PLW_A 2NYU_A 2OXT_C 3EMD_A 3ELY_A 3ELW_A 3ELU_A 3ELD_A 3EMB_A ....
Probab=38.67 E-value=20 Score=35.93 Aligned_cols=38 Identities=21% Similarity=0.293 Sum_probs=31.0
Q ss_pred hhHHHHHHhhccccc-cCCeEEeeccCcchhhHHHHHHH
Q 002824 686 EKLKEIVDRLHWYVR-SGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 686 ekl~~i~~~l~~~~~-~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
.||.||.++..++-. .+.+|||+||+-..|+..+-+++
T Consensus 7 ~KL~ei~~~~~~~~~~~~~~vlDlG~aPGGws~~~~~~~ 45 (181)
T PF01728_consen 7 FKLYEIDEKFKIFKPGKGFTVLDLGAAPGGWSQVLLQRG 45 (181)
T ss_dssp HHHHHHHHTTSSS-TTTTEEEEEET-TTSHHHHHHHTST
T ss_pred HHHHHHHHHCCCCCcccccEEEEcCCcccceeeeeeecc
Confidence 499999999985533 45899999999999999998886
No 111
>COG1041 Predicted DNA modification methylase [DNA replication, recombination, and repair]
Probab=37.24 E-value=65 Score=37.05 Aligned_cols=91 Identities=22% Similarity=0.442 Sum_probs=52.7
Q ss_pred cccCCeEEeeccCcchhhHHH-------------HHHHHHcCCcccccCCCCCCCCCCCcccccccccc-CCCCCCCCCc
Q 002824 699 VRSGDTIVDFCCGANDFSCMM-------------KVKLEQMGKSCSFRNYDLIQPKNDFSFEKRDWMTV-RPEELPDGSQ 764 (876)
Q Consensus 699 ~~~~d~~vd~~cg~~~f~~l~-------------~~~~~~~~~~~~~kn~d~~~~~~~~~f~~~~w~~~-~~~~l~~g~~ 764 (876)
|.+|+.|+|..||...|.-.- .++++. ..-+++-|- + .+|.| +++ +.+.||=.++
T Consensus 195 v~~G~~vlDPFcGTGgiLiEagl~G~~viG~Did~~mv~g--ak~Nl~~y~-i---~~~~~-----~~~~Da~~lpl~~~ 263 (347)
T COG1041 195 VKRGELVLDPFCGTGGILIEAGLMGARVIGSDIDERMVRG--AKINLEYYG-I---EDYPV-----LKVLDATNLPLRDN 263 (347)
T ss_pred cccCCEeecCcCCccHHHHhhhhcCceEeecchHHHHHhh--hhhhhhhhC-c---CceeE-----EEecccccCCCCCC
Confidence 789999999999999885321 222222 122222221 0 11111 444 5666665443
Q ss_pred --eeeecCCCcchhh--------hhHHHHHHhhhhcC-C-cEEEEecC
Q 002824 765 --LIMGLNPPFGVKA--------SLANKFISQALKFK-P-KLIVLIVP 800 (876)
Q Consensus 765 --li~glnppfg~~~--------~~a~kfi~~~~~f~-p-~~~~li~p 800 (876)
=-+--+||+|..+ .|-.+|++.|.+-- + -.+++.+|
T Consensus 264 ~vdaIatDPPYGrst~~~~~~l~~Ly~~~le~~~evLk~gG~~vf~~p 311 (347)
T COG1041 264 SVDAIATDPPYGRSTKIKGEGLDELYEEALESASEVLKPGGRIVFAAP 311 (347)
T ss_pred ccceEEecCCCCcccccccccHHHHHHHHHHHHHHHhhcCcEEEEecC
Confidence 2345599999988 45566777776543 3 35777777
No 112
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=36.98 E-value=35 Score=38.15 Aligned_cols=34 Identities=26% Similarity=0.520 Sum_probs=30.6
Q ss_pred hHHHHHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 687 KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 687 kl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
|++.|.++|+ +++|++|+|+=||-...+..|-++
T Consensus 60 k~~~~~~kl~--L~~G~~lLDiGCGWG~l~~~aA~~ 93 (283)
T COG2230 60 KLDLILEKLG--LKPGMTLLDIGCGWGGLAIYAAEE 93 (283)
T ss_pred HHHHHHHhcC--CCCCCEEEEeCCChhHHHHHHHHH
Confidence 8999999998 899999999999998888777665
No 113
>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=36.98 E-value=51 Score=29.97 Aligned_cols=35 Identities=20% Similarity=0.273 Sum_probs=25.8
Q ss_pred hhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 686 EKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 686 ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
+....+++.+ ++.+++.|+|+.||...+...+-++
T Consensus 6 ~~~~~~~~~~--~~~~~~~vldlG~G~G~~~~~l~~~ 40 (124)
T TIGR02469 6 EVRALTLSKL--RLRPGDVLWDIGAGSGSITIEAARL 40 (124)
T ss_pred HHHHHHHHHc--CCCCCCEEEEeCCCCCHHHHHHHHH
Confidence 3333455544 5678899999999999999887654
No 114
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=36.84 E-value=1.6e+02 Score=28.83 Aligned_cols=105 Identities=18% Similarity=0.271 Sum_probs=59.9
Q ss_pred hhhHHHHHHhhccc---cccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCCCC----------------CCCCc
Q 002824 685 VEKLKEIVDRLHWY---VRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQP----------------KNDFS 745 (876)
Q Consensus 685 ~ekl~~i~~~l~~~---~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~----------------~~~~~ 745 (876)
++.+.++++.+.-. ..+..+||||+||-.-.+.++-..|...+..+..--.|.=+. .+.+.
T Consensus 6 i~~~~~~i~~~~~~~~~~~~~~~vvD~GsG~GyLs~~La~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~ 85 (141)
T PF13679_consen 6 IERMAELIDSLCDSVGESKRCITVVDLGSGKGYLSRALAHLLCNSSPNLRVLGIDCNESLVESAQKRAQKLGSDLEKRLS 85 (141)
T ss_pred HHHHHHHHHHHHHHhhccCCCCEEEEeCCChhHHHHHHHHHHHhcCCCCeEEEEECCcHHHHHHHHHHHHhcchhhccch
Confidence 44555555555433 366789999999999999999997766544443333332211 13333
Q ss_pred cccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEE
Q 002824 746 FEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIV 796 (876)
Q Consensus 746 f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~ 796 (876)
|...+.-... -..+..+++||-. =+.|+-.-+..+..-+.+.|+
T Consensus 86 ~~~~~~~~~~---~~~~~~~~vgLHa----CG~Ls~~~l~~~~~~~~~~l~ 129 (141)
T PF13679_consen 86 FIQGDIADES---SSDPPDILVGLHA----CGDLSDRALRLFIRPNARFLV 129 (141)
T ss_pred hhccchhhhc---ccCCCeEEEEeec----ccchHHHHHHHHHHcCCCEEE
Confidence 3333222111 1445556666543 235777778888774445443
No 115
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=36.12 E-value=10 Score=43.20 Aligned_cols=76 Identities=26% Similarity=0.348 Sum_probs=46.9
Q ss_pred hccccccCCeEEeeccCcchhhHHHHHHHHH---------------------cCCcccccCCCCCCCCCCCccccccccc
Q 002824 695 LHWYVRSGDTIVDFCCGANDFSCMMKVKLEQ---------------------MGKSCSFRNYDLIQPKNDFSFEKRDWMT 753 (876)
Q Consensus 695 l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~---------------------~~~~~~~kn~d~~~~~~~~~f~~~~w~~ 753 (876)
+-=.|.+|++|||+.+|-.-|+-.+-++... .+-.-. ...|+- +-..
T Consensus 182 va~~v~~GE~V~DmFAGVGpfsi~~Ak~g~~~V~A~diNP~A~~~L~eNi~LN~v~~~---v~~i~g-D~re-------- 249 (341)
T COG2520 182 VAELVKEGETVLDMFAGVGPFSIPIAKKGRPKVYAIDINPDAVEYLKENIRLNKVEGR---VEPILG-DARE-------- 249 (341)
T ss_pred HHhhhcCCCEEEEccCCcccchhhhhhcCCceEEEEecCHHHHHHHHHHHHhcCccce---eeEEec-cHHH--------
Confidence 3445677999999999999998776555222 211111 222221 1111
Q ss_pred cCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhc
Q 002824 754 VRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKF 790 (876)
Q Consensus 754 ~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f 790 (876)
| +.+++..+..||||.+ .|-+|+..|++.
T Consensus 250 v-~~~~~~aDrIim~~p~-------~a~~fl~~A~~~ 278 (341)
T COG2520 250 V-APELGVADRIIMGLPK-------SAHEFLPLALEL 278 (341)
T ss_pred h-hhccccCCEEEeCCCC-------cchhhHHHHHHH
Confidence 1 1233778999999655 688899998854
No 116
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=36.04 E-value=22 Score=36.22 Aligned_cols=26 Identities=15% Similarity=0.396 Sum_probs=18.6
Q ss_pred cccccccCccccccccCCcccccCCCCceeccccccc
Q 002824 239 FHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ 275 (876)
Q Consensus 239 FH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~g 275 (876)
||..|+.+ .|+.. |.+.|+|+.|...
T Consensus 2 ~H~~CL~P--------pl~~~---P~g~W~Cp~C~~~ 27 (148)
T cd04718 2 FHLCCLRP--------PLKEV---PEGDWICPFCEVE 27 (148)
T ss_pred cccccCCC--------CCCCC---CCCCcCCCCCcCC
Confidence 89997643 44433 4799999999853
No 117
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=35.09 E-value=8.3 Score=30.45 Aligned_cols=33 Identities=24% Similarity=0.609 Sum_probs=22.0
Q ss_pred ccccccccCCCCCCCCCceeccCCCccCCCCccccccccC
Q 002824 278 QCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLL 317 (876)
Q Consensus 278 qCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~ 317 (876)
.|.+|.+.-. .+..++.. .||+.||..|+..|+
T Consensus 2 ~C~IC~~~~~----~~~~~~~l---~C~H~fh~~Ci~~~~ 34 (44)
T PF13639_consen 2 ECPICLEEFE----DGEKVVKL---PCGHVFHRSCIKEWL 34 (44)
T ss_dssp CETTTTCBHH----TTSCEEEE---TTSEEEEHHHHHHHH
T ss_pred CCcCCChhhc----CCCeEEEc---cCCCeeCHHHHHHHH
Confidence 4677754321 13355544 499999999998875
No 118
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=35.03 E-value=37 Score=39.25 Aligned_cols=120 Identities=18% Similarity=0.195 Sum_probs=63.4
Q ss_pred ccccccCcccchh--hh-HHHHHHhhccccccCCeEEeeccCcchhhHHHHHHHH---HcCCccccc-------CCCCCC
Q 002824 673 MRYTSFGRHFTKV--EK-LKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLE---QMGKSCSFR-------NYDLIQ 739 (876)
Q Consensus 673 ~ry~s~grhft~~--ek-l~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~~---~~~~~~~~k-------n~d~~~ 739 (876)
..+++..--|..- +. .+-..+.|..- .+..|+|+.||+...+..+.++.- =++-+.+.. |+..-.
T Consensus 199 ~~~~~~~gVFs~~~LD~GtrllL~~lp~~--~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~ 276 (378)
T PRK15001 199 WTIHNHANVFSRTGLDIGARFFMQHLPEN--LEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNM 276 (378)
T ss_pred EEEEecCCccCCCCcChHHHHHHHhCCcc--cCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcC
Confidence 3444555566542 21 12233333322 245899999999999988877631 112222221 221111
Q ss_pred CC--CCCccccccccccCCCCCCCCC-ceeeecCCCcchhh----hhHHHHHHhhhh-cCCcEEEEec
Q 002824 740 PK--NDFSFEKRDWMTVRPEELPDGS-QLIMGLNPPFGVKA----SLANKFISQALK-FKPKLIVLIV 799 (876)
Q Consensus 740 ~~--~~~~f~~~~w~~~~~~~l~~g~-~li~glnppfg~~~----~~a~kfi~~~~~-f~p~~~~li~ 799 (876)
+. ....|...|.++ .++.++ .+|+- ||||-... .+|.+|+..|.. .+|.=.+.||
T Consensus 277 ~~~~~~v~~~~~D~l~----~~~~~~fDlIls-NPPfh~~~~~~~~ia~~l~~~a~~~LkpGG~L~iV 339 (378)
T PRK15001 277 PEALDRCEFMINNALS----GVEPFRFNAVLC-NPPFHQQHALTDNVAWEMFHHARRCLKINGELYIV 339 (378)
T ss_pred cccCceEEEEEccccc----cCCCCCEEEEEE-CcCcccCccCCHHHHHHHHHHHHHhcccCCEEEEE
Confidence 11 245666666553 233333 46665 99996542 578888877763 3555444444
No 119
>KOG1169 consensus Diacylglycerol kinase [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=34.83 E-value=20 Score=43.80 Aligned_cols=138 Identities=22% Similarity=0.374 Sum_probs=77.8
Q ss_pred cccccCCCC--ceeecCcccccccccccccCccccccc---cCCcccccC-------C----CCceecccccccCccccc
Q 002824 218 VCAICDDGG--DVTFCDGRCLRSFHATITAGKNALCQS---LGYTQAQID-------A----VPNFLCQNCVYQEHQCFA 281 (876)
Q Consensus 218 VCaICe~gG--eLL~CdG~C~RsFH~~Cl~g~~s~C~s---LGlT~~ev~-------~----~~~W~C~eC~~gqHqCfi 281 (876)
+|.+|...- .-+-|+ .|.-..|..|..+.-+.|.. +|+...-.+ . ...-+|..|. -.|.+
T Consensus 46 ~~~~~~~~~~~~~~~~~-~~g~~~~~~~~~~~~s~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~c~~c~---~~c~~ 121 (634)
T KOG1169|consen 46 VCCVCLWSEMAPSVDCD-VDGGVSHEECVSGAASDCPLLVLLGFENQRHKTDGDHVWRPKHLWKPAYCFVCP---KSCGS 121 (634)
T ss_pred hhhhhhhccccccccee-ccccchhhhhhcccccchHHHHHHHhhhhhhhccCceeccCCCCCCCceEEecc---ccccc
Confidence 899998732 267888 69999999998876665532 222111000 0 1233444443 34666
Q ss_pred ccccCCCCCCCCCceeccCCCccCCCCccccccccCCCCchhHHHHHHHHhh--cCCceecCCc-c--------cccCcC
Q 002824 282 CGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIA--AGESFTCPVH-K--------CFVCQQ 350 (876)
Q Consensus 282 CgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~~~eL~krI~--~g~~F~CPlH-~--------C~~C~~ 350 (876)
|+..+ ...+.| ..|++.-|..|+.....- +..+.. ..+...++.+ . |..|..
T Consensus 122 ~~~~~-------~~g~~C--~~C~~~vh~~C~~~~~~~--------~~~~~~~~~~r~~v~~~~~~~~~~~~~~~~~~~~ 184 (634)
T KOG1169|consen 122 CGVGI-------KQGLCC--DWCGRTVHERCVRRADPE--------CQCKCDLGRLRKIVLDHPWVKGNAGEAKCDQCLK 184 (634)
T ss_pred hhhcc-------cCceee--ccccchHHHHHHhhcCcc--------cccccccccccceeecCcccccccCCccchhhhc
Confidence 66443 246889 899999999999865421 000000 1122222221 1 233333
Q ss_pred CccccccccceeeccccccccccccCC
Q 002824 351 SEDMNVEDLQLAICRRCPKAYHRKCLP 377 (876)
Q Consensus 351 sedk~~~~~qLi~C~RCPkAYH~kCLP 377 (876)
.-. .....+..+|..|..++|..|..
T Consensus 185 ~~~-~~~~~~~~~c~~~~~~~h~~~~~ 210 (634)
T KOG1169|consen 185 SVK-ADQGLTGPRCGWCQIRVHDKCKS 210 (634)
T ss_pred ccc-ccccccccccceeeeeeecchHH
Confidence 211 12234577899999999999975
No 120
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=34.15 E-value=63 Score=32.63 Aligned_cols=42 Identities=17% Similarity=0.223 Sum_probs=33.5
Q ss_pred CcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 679 GRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 679 grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
.+..|+.+--..+++.|. +.+|++|+|+.||+..++..+.++
T Consensus 11 ~~~~~~~~~r~~~~~~l~--~~~~~~vLDiG~G~G~~~~~la~~ 52 (187)
T PRK08287 11 KVPMTKEEVRALALSKLE--LHRAKHLIDVGAGTGSVSIEAALQ 52 (187)
T ss_pred CCCCchHHHHHHHHHhcC--CCCCCEEEEECCcCCHHHHHHHHH
Confidence 456788777677778875 458999999999999998887654
No 121
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=34.01 E-value=35 Score=25.46 Aligned_cols=29 Identities=28% Similarity=0.557 Sum_probs=23.1
Q ss_pred cccccCcCCccccccccc-eeeccccccccccccC
Q 002824 343 HKCFVCQQSEDMNVEDLQ-LAICRRCPKAYHRKCL 376 (876)
Q Consensus 343 H~C~~C~~sedk~~~~~q-Li~C~RCPkAYH~kCL 376 (876)
++|.+|.+..+ +. +..|..|.-..|..|.
T Consensus 1 ~~C~~C~~~~~-----~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 1 FWCDVCRRKID-----GFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCCcC-----CCEeEEeCCCCCeEcCccC
Confidence 46889987554 23 8999999999999884
No 122
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=33.92 E-value=47 Score=33.67 Aligned_cols=36 Identities=19% Similarity=0.455 Sum_probs=30.2
Q ss_pred hHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHH
Q 002824 687 KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 687 kl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
+|.++.+++. .+++|++|+|+.||.-.++..+-++.
T Consensus 19 ~~~~~~~~~~-~i~~g~~VLDiG~GtG~~~~~l~~~~ 54 (188)
T TIGR00438 19 KLLQLNQKFK-LIKPGDTVLDLGAAPGGWSQVAVEQV 54 (188)
T ss_pred HHHHHHHHhc-ccCCCCEEEEecCCCCHHHHHHHHHh
Confidence 6778777765 45789999999999999999887775
No 123
>PF04405 ScdA_N: Domain of Unknown function (DUF542) ; InterPro: IPR007500 This is a domain of unknown function found at the N terminus of genes involved in cell wall development and nitrous oxide protection. ScdA is required for normal cell growth and development; mutants have an increased level of peptidoglycan cross-linking and aberrant cellular morphology suggesting a role for ScdA in cell wall metabolism []. NorA1, NorA2, and YtfE are involved in the nitrous oxide response. NorA1 and NorA2, which are similar to YtfE, are co-transcribed with the membrane-bound nitrous oxide (NO) reductases. The genes appear to be involved in NO protection but their function is unknown [, ].
Probab=33.51 E-value=16 Score=31.42 Aligned_cols=9 Identities=67% Similarity=1.789 Sum_probs=7.9
Q ss_pred EeeccCcch
Q 002824 706 VDFCCGAND 714 (876)
Q Consensus 706 vd~~cg~~~ 714 (876)
+|||||.|.
T Consensus 24 IDfCCgG~~ 32 (56)
T PF04405_consen 24 IDFCCGGNR 32 (56)
T ss_pred CcccCCCCc
Confidence 899999974
No 124
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=33.48 E-value=55 Score=33.92 Aligned_cols=28 Identities=11% Similarity=0.178 Sum_probs=22.7
Q ss_pred hccccccCCeEEeeccCcchhhHHHHHH
Q 002824 695 LHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 695 l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
+-.|-+++..|+|+.||...++..+.++
T Consensus 34 ~~~~~~~~~~VLDiGcGtG~~~~~la~~ 61 (202)
T PRK00121 34 AELFGNDAPIHLEIGFGKGEFLVEMAKA 61 (202)
T ss_pred HHHcCCCCCeEEEEccCCCHHHHHHHHH
Confidence 3345557889999999999999988665
No 125
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=33.08 E-value=90 Score=34.45 Aligned_cols=126 Identities=16% Similarity=0.074 Sum_probs=61.7
Q ss_pred hHHHHHHHHHHhhCCCChhhhhhcCChhhhhhHHHhhhccccccccccccccccccCcccchhhhHHHHHHhhccccccC
Q 002824 623 SVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSG 702 (876)
Q Consensus 623 ~v~a~~~al~~l~~g~~~~~aka~c~p~~l~q~~~~~~kl~~~l~p~l~g~ry~s~grhft~~ekl~~i~~~l~~~~~~~ 702 (876)
..+.++.++....+|..+.=. +.+ .|=-.++.+..|=++.+|.- ++.+|+.+-=.+...
T Consensus 52 ~~~~~~~~~~rr~~~~P~~yi--------~g~--~~f~gl~~~v~~~vliPr~d-----------Te~Lve~~l~~~~~~ 110 (280)
T COG2890 52 ELERLRELLERRAEGEPVAYI--------LGS--AEFGGLRFKVDEGVLIPRPD-----------TELLVEAALALLLQL 110 (280)
T ss_pred HHHHHHHHHHHHHCCCCHhHh--------hcc--CeecceeeeeCCCceecCCc-----------hHHHHHHHHHhhhhc
Confidence 344455555555555554322 333 22234555555555555543 344444422222222
Q ss_pred C-eEEeeccCcchhhHHHHHHHHH---cCCcccc-------cCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCC
Q 002824 703 D-TIVDFCCGANDFSCMMKVKLEQ---MGKSCSF-------RNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNP 771 (876)
Q Consensus 703 d-~~vd~~cg~~~f~~l~~~~~~~---~~~~~~~-------kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnp 771 (876)
+ +|+|+|||+.--.--+..+... ++-+.+- +|-....- .++.|-..||+.--++ .=.+|.. ||
T Consensus 111 ~~~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l-~~~~~~~~dlf~~~~~----~fDlIVs-NP 184 (280)
T COG2890 111 DKRILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGL-VRVLVVQSDLFEPLRG----KFDLIVS-NP 184 (280)
T ss_pred CCcEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCC-ccEEEEeeecccccCC----ceeEEEe-CC
Confidence 3 7999999999887777666432 1111111 11111111 2244555588764333 3335655 99
Q ss_pred Ccch
Q 002824 772 PFGV 775 (876)
Q Consensus 772 pfg~ 775 (876)
||=-
T Consensus 185 PYip 188 (280)
T COG2890 185 PYIP 188 (280)
T ss_pred CCCC
Confidence 9843
No 126
>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=32.92 E-value=39 Score=34.95 Aligned_cols=43 Identities=33% Similarity=0.648 Sum_probs=29.5
Q ss_pred cccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHH
Q 002824 676 TSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 676 ~s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
.|++++..-. ++++.++ .+.+|++|+|+.||...+...|.+..
T Consensus 25 ~~~~~~~~~~---~~~l~~l--~~~~~~~vLDiGcG~G~~~~~la~~~ 67 (231)
T TIGR02752 25 ISFQRHKKWR---KDTMKRM--NVQAGTSALDVCCGTADWSIALAEAV 67 (231)
T ss_pred hcCCchHHHH---HHHHHhc--CCCCCCEEEEeCCCcCHHHHHHHHHh
Confidence 3455543333 3344444 36789999999999999998887653
No 127
>PRK07402 precorrin-6B methylase; Provisional
Probab=32.60 E-value=66 Score=32.82 Aligned_cols=41 Identities=17% Similarity=0.251 Sum_probs=31.9
Q ss_pred CcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHH
Q 002824 679 GRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 721 (876)
Q Consensus 679 grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~ 721 (876)
|.-.|+.+--..++..|. +.+|++|+|+.||+..+...+.+
T Consensus 20 ~~p~t~~~v~~~l~~~l~--~~~~~~VLDiG~G~G~~~~~la~ 60 (196)
T PRK07402 20 GIPLTKREVRLLLISQLR--LEPDSVLWDIGAGTGTIPVEAGL 60 (196)
T ss_pred CCCCCHHHHHHHHHHhcC--CCCCCEEEEeCCCCCHHHHHHHH
Confidence 334677776667788774 57899999999999999887753
No 128
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=32.55 E-value=29 Score=37.53 Aligned_cols=25 Identities=4% Similarity=0.100 Sum_probs=20.8
Q ss_pred ccccCCeEEeeccCcchhhHHHHHH
Q 002824 698 YVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 698 ~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
-+++|++|+|+|||...++..|-+.
T Consensus 68 ~~~~g~~VLDl~ag~G~kt~~la~~ 92 (264)
T TIGR00446 68 EPDPPERVLDMAAAPGGKTTQISAL 92 (264)
T ss_pred CCCCcCEEEEECCCchHHHHHHHHH
Confidence 4689999999999999888766554
No 129
>cd00315 Cyt_C5_DNA_methylase Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the mammalian genome. These effects include transcriptional repression via inhibition of transcription factor binding or the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability.
Probab=31.87 E-value=1.1e+02 Score=33.31 Aligned_cols=84 Identities=20% Similarity=0.324 Sum_probs=52.7
Q ss_pred eEEeeccCcchhhHHHHHHHHHcCCcccc-------------cCCCCCCCCCCCccccccccccCCCCCCCCCceeeecC
Q 002824 704 TIVDFCCGANDFSCMMKVKLEQMGKSCSF-------------RNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLN 770 (876)
Q Consensus 704 ~~vd~~cg~~~f~~l~~~~~~~~~~~~~~-------------kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~gln 770 (876)
+++|++||.-.++.-++. .|-.+-+ +||. +. +...|--++.+.+++..-.+|+| .
T Consensus 2 ~v~dLFsG~Gg~~~gl~~----~G~~~v~a~e~~~~a~~~~~~N~~-----~~--~~~~Di~~~~~~~~~~~~D~l~~-g 69 (275)
T cd00315 2 RVIDLFAGIGGFRLGLEK----AGFEIVAANEIDKSAAETYEANFP-----NK--LIEGDITKIDEKDFIPDIDLLTG-G 69 (275)
T ss_pred cEEEEccCcchHHHHHHH----cCCEEEEEEeCCHHHHHHHHHhCC-----CC--CccCccccCchhhcCCCCCEEEe-C
Confidence 589999999999877654 3543322 2331 11 33456666676664333456666 4
Q ss_pred CC---cc----------hhhhhHHHHHHhhhhcCCcEEEEec
Q 002824 771 PP---FG----------VKASLANKFISQALKFKPKLIVLIV 799 (876)
Q Consensus 771 pp---fg----------~~~~~a~kfi~~~~~f~p~~~~li~ 799 (876)
|| |. .++.|.-.|++-+-.++|+++|+==
T Consensus 70 pPCq~fS~ag~~~~~~d~r~~L~~~~~~~i~~~~P~~~v~EN 111 (275)
T cd00315 70 FPCQPFSIAGKRKGFEDTRGTLFFEIIRILKEKKPKYFLLEN 111 (275)
T ss_pred CCChhhhHHhhcCCCCCchHHHHHHHHHHHHhcCCCEEEEEc
Confidence 54 32 2445777888888899999887643
No 130
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=31.73 E-value=28 Score=30.67 Aligned_cols=32 Identities=34% Similarity=0.896 Sum_probs=25.4
Q ss_pred CCceeccccc-ccCcccccccccCCCCCCCCCceeccCCCccC
Q 002824 264 VPNFLCQNCV-YQEHQCFACGMLGSSDKSSSQEVFPCVSATCG 305 (876)
Q Consensus 264 ~~~W~C~eC~-~gqHqCfiCgklGssd~ss~~eV~kCsv~~CG 305 (876)
...|.|++|- .-...|..|.++| ..++| ++||
T Consensus 25 ~v~F~CPnCGe~~I~Rc~~CRk~g--------~~Y~C--p~CG 57 (61)
T COG2888 25 AVKFPCPNCGEVEIYRCAKCRKLG--------NPYRC--PKCG 57 (61)
T ss_pred eeEeeCCCCCceeeehhhhHHHcC--------CceEC--CCcC
Confidence 4589999997 4567899998875 67888 7787
No 131
>TIGR00406 prmA ribosomal protein L11 methyltransferase. Ribosomal protein L11 methyltransferase is an S-adenosyl-L-methionine-dependent methyltransferase required for the modification of ribosomal protein L11. This protein is found in bacteria and (with a probable transit peptide) in Arabidopsis.
Probab=30.94 E-value=52 Score=36.05 Aligned_cols=39 Identities=23% Similarity=0.226 Sum_probs=27.4
Q ss_pred CcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHH
Q 002824 679 GRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 721 (876)
Q Consensus 679 grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~ 721 (876)
|.|-|..-.|+ -|.-|+.+|++|+|+.||+.-++..+.+
T Consensus 141 G~h~tt~l~l~----~l~~~~~~g~~VLDvGcGsG~lai~aa~ 179 (288)
T TIGR00406 141 GTHPTTSLCLE----WLEDLDLKDKNVIDVGCGSGILSIAALK 179 (288)
T ss_pred CCCHHHHHHHH----HHHhhcCCCCEEEEeCCChhHHHHHHHH
Confidence 46666544443 3334678999999999999888766543
No 132
>PRK10458 DNA cytosine methylase; Provisional
Probab=30.51 E-value=3.3e+02 Score=32.65 Aligned_cols=24 Identities=17% Similarity=0.459 Sum_probs=19.6
Q ss_pred eEEeeccCcchhhHHHHHHHHHcCCccc
Q 002824 704 TIVDFCCGANDFSCMMKVKLEQMGKSCS 731 (876)
Q Consensus 704 ~~vd~~cg~~~f~~l~~~~~~~~~~~~~ 731 (876)
+++|++||...|+.=++ +.|..|-
T Consensus 90 ~~iDLFsGiGGl~lGfe----~aG~~~v 113 (467)
T PRK10458 90 RFIDLFAGIGGIRRGFE----AIGGQCV 113 (467)
T ss_pred eEEEeCcCccHHHHHHH----HcCCEEE
Confidence 69999999999998875 4477773
No 133
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=30.18 E-value=11 Score=33.49 Aligned_cols=17 Identities=35% Similarity=0.995 Sum_probs=14.7
Q ss_pred CccCCCCccccccccCC
Q 002824 302 ATCGQFYHPECVSKLLH 318 (876)
Q Consensus 302 ~~CGkfYH~~CL~~~~~ 318 (876)
..||+.||..|+..++.
T Consensus 48 ~~C~H~FH~~Ci~~Wl~ 64 (73)
T PF12678_consen 48 GPCGHIFHFHCISQWLK 64 (73)
T ss_dssp ETTSEEEEHHHHHHHHT
T ss_pred cccCCCEEHHHHHHHHh
Confidence 56999999999998863
No 134
>TIGR00762 DegV EDD domain protein, DegV family. This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each than to most homologs from other species. This suggests both recent paralogy and diversity of function. DegV itself is encoded immediately downstream of DegU, a transcriptional regulator of degradation, but is itself uncharacterized. Crystallography suggested a lipid-binding site, while comparison of the crystal structure to dihydroxyacetone kinase and to a mannose transporter EIIA domain suggests a conserved domain, EDD, with phosphotransferase activity.
Probab=29.70 E-value=2e+02 Score=31.41 Aligned_cols=94 Identities=17% Similarity=0.293 Sum_probs=61.3
Q ss_pred HHHHHHHHHHhhCCCChhhhhhcCChhhhhhHHHhhhccccccc---------------------------cccc--ccc
Q 002824 624 VKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLA---------------------------PFLH--GMR 674 (876)
Q Consensus 624 v~a~~~al~~l~~g~~~~~aka~c~p~~l~q~~~~~~kl~~~l~---------------------------p~l~--g~r 674 (876)
-..|..|.+|+++|.+++++ +.+|..++++-.+|+. |+|. .-.
T Consensus 122 g~~v~~a~~~~~~G~s~~eI--------~~~l~~~~~~~~~~f~v~~L~~L~~gGRis~~~~~~g~lL~ikPIi~~~~G~ 193 (275)
T TIGR00762 122 GLLVLEAAKLAEEGKSLEEI--------LAKLEELRERTKLYFVVDTLEYLVKGGRISKAAALIGSLLNIKPILTVDDGK 193 (275)
T ss_pred HHHHHHHHHHHHcCCCHHHH--------HHHHHHHHhhcEEEEEECcHHHHHhcCCccHHHHHHHHhhcceeEEEEeCCE
Confidence 34677788999999999887 6666666666665533 4442 235
Q ss_pred ccccCcccchhhhHHHHHHhhccccccCC-eEEe-eccCcchhhHHHHHHHHH
Q 002824 675 YTSFGRHFTKVEKLKEIVDRLHWYVRSGD-TIVD-FCCGANDFSCMMKVKLEQ 725 (876)
Q Consensus 675 y~s~grhft~~ekl~~i~~~l~~~~~~~d-~~vd-~~cg~~~f~~l~~~~~~~ 725 (876)
...+|+..+..--++++++.+.=++..++ ..+. ..+|..+=...+++.|.+
T Consensus 194 i~~~~k~Rg~kka~~~l~~~~~~~~~~~~~~~i~i~~~~~~e~~~~l~~~l~~ 246 (275)
T TIGR00762 194 LVPIEKVRGRKKAIKKLVELVKEDIKDGKPKRVAIIHADAEEEAEELKEKLKE 246 (275)
T ss_pred EEEeeccccHHHHHHHHHHHHHHhhccCCCcEEEEEeCCCHHHHHHHHHHHHh
Confidence 56788888887778888888776665543 3333 345544455566666665
No 135
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=29.13 E-value=32 Score=40.59 Aligned_cols=43 Identities=21% Similarity=0.721 Sum_probs=33.6
Q ss_pred CceecccccccCcccccccccCCCCCCCCCceeccCCCccCCCCcccccccc
Q 002824 265 PNFLCQNCVYQEHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKL 316 (876)
Q Consensus 265 ~~W~C~eC~~gqHqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~ 316 (876)
.+-+|..|. |.+|++... ...+--.+.| ..||++-|..|--..
T Consensus 122 ~~gFC~~C~-----C~iC~kfD~--~~n~~~Wi~C--d~CgH~cH~dCALr~ 164 (446)
T PF07227_consen 122 EPGFCRRCM-----CCICSKFDD--NKNTCSWIGC--DVCGHWCHLDCALRH 164 (446)
T ss_pred CCCccccCC-----ccccCCccc--CCCCeeEEec--cCCCceehhhhhccc
Confidence 355799998 999998643 2345678999 689999999998653
No 136
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=29.06 E-value=44 Score=37.46 Aligned_cols=35 Identities=29% Similarity=0.368 Sum_probs=30.3
Q ss_pred hHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHH
Q 002824 687 KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 687 kl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
-|.|+++.|- +++|+++||..||...++..+-+++
T Consensus 7 ll~Evl~~L~--~~pg~~vlD~TlG~GGhS~~il~~~ 41 (296)
T PRK00050 7 LLDEVVDALA--IKPDGIYVDGTFGGGGHSRAILERL 41 (296)
T ss_pred cHHHHHHhhC--CCCCCEEEEeCcCChHHHHHHHHhC
Confidence 5788999886 5899999999999999999987664
No 137
>PF08003 Methyltransf_9: Protein of unknown function (DUF1698); InterPro: IPR010017 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This entry represents a set of bacterial AdoMet-dependent tRNA (mo5U34)-methyltransferases. These enzymes catalyse the conversion of 5-hydroxyuridine (ho5U) to 5-methoxyuridine (mo5U) at the wobble position (34) of tRNA []. The 5-methoxyuridine is subsequently converted to uridine-5-oxyacetic acid, a modified nucleoside that is apparently necessary for the efficient decoding of G-ending Pro, Ala, and Val codons in these organisms [].; GO: 0016300 tRNA (uracil) methyltransferase activity, 0002098 tRNA wobble uridine modification
Probab=29.00 E-value=1.1e+02 Score=34.96 Aligned_cols=73 Identities=19% Similarity=0.438 Sum_probs=51.3
Q ss_pred ccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCC--Ccchhh
Q 002824 700 RSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNP--PFGVKA 777 (876)
Q Consensus 700 ~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnp--pfg~~~ 777 (876)
..|-+|+|.=||+.-|+=.|. ..|-++|+|++| .|..+.
T Consensus 114 L~gk~VLDIGC~nGY~~frM~---------------------------------------~~GA~~ViGiDP~~lf~~QF 154 (315)
T PF08003_consen 114 LKGKRVLDIGCNNGYYSFRML---------------------------------------GRGAKSVIGIDPSPLFYLQF 154 (315)
T ss_pred cCCCEEEEecCCCcHHHHHHh---------------------------------------hcCCCEEEEECCChHHHHHH
Confidence 478899999999998886665 345559999999 777777
Q ss_pred hhHHHHHHhhhhcCCcEEEEecCccccccccccccceeec
Q 002824 778 SLANKFISQALKFKPKLIVLIVPQETRRLDQKASYNLIWE 817 (876)
Q Consensus 778 ~~a~kfi~~~~~f~p~~~~li~p~~~~~~~~~~~y~l~~~ 817 (876)
..+++|+.. + ..+...|=.+|.|.....||+|.-
T Consensus 155 ~~i~~~lg~----~--~~~~~lplgvE~Lp~~~~FDtVF~ 188 (315)
T PF08003_consen 155 EAIKHFLGQ----D--PPVFELPLGVEDLPNLGAFDTVFS 188 (315)
T ss_pred HHHHHHhCC----C--ccEEEcCcchhhccccCCcCEEEE
Confidence 777777742 2 234445667777766333776653
No 138
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=28.72 E-value=23 Score=44.53 Aligned_cols=64 Identities=25% Similarity=0.537 Sum_probs=42.7
Q ss_pred CCCccccccCCC----CceeecCcccccccccccccCccccccccCCcccccCCCCceecccccccC------ccccccc
Q 002824 214 NYFAVCAICDDG----GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQE------HQCFACG 283 (876)
Q Consensus 214 ~~d~VCaICe~g----GeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~gq------HqCfiCg 283 (876)
+....|.||.+- -.+..|. .|...||+.|+..+- .+ .+......|.|+.|.+.+ ..|| ||
T Consensus 189 ~~~yeCmIC~e~I~~t~~~WSC~-sCYhVFHl~CI~~WA---rs-----~ek~~~~~WrCP~Cqsv~~~~~~~y~C~-CG 258 (950)
T KOG1952|consen 189 NRKYECMICTERIKRTAPVWSCK-SCYHVFHLNCIKKWA---RS-----SEKTGQDGWRCPACQSVSKTVPKTYLCF-CG 258 (950)
T ss_pred cCceEEEEeeeeccccCCceecc-hhhhhhhHHHHHHHH---HH-----hhhccCccccCCcccchhccCCccccee-cC
Confidence 345569999764 3588998 699999999865331 11 122124789999998532 3465 77
Q ss_pred ccCC
Q 002824 284 MLGS 287 (876)
Q Consensus 284 klGs 287 (876)
+...
T Consensus 259 k~~n 262 (950)
T KOG1952|consen 259 KVKN 262 (950)
T ss_pred cccC
Confidence 7654
No 139
>PF13651 EcoRI_methylase: Adenine-specific methyltransferase EcoRI
Probab=28.58 E-value=50 Score=37.71 Aligned_cols=61 Identities=26% Similarity=0.488 Sum_probs=39.0
Q ss_pred eeecCCCcchhhhhHHHHHHhhhhcCCcEEEE-----ecCccccccccccccceeecccccccCcccccCCcc
Q 002824 766 IMGLNPPFGVKASLANKFISQALKFKPKLIVL-----IVPQETRRLDQKASYNLIWEDNEVLSGKSFYLPGSL 833 (876)
Q Consensus 766 i~glnppfg~~~~~a~kfi~~~~~f~p~~~~l-----i~p~~~~~~~~~~~y~l~~~d~~~l~g~~fy~pg~~ 833 (876)
|+.-||||. |+.+||+...+.+=++||+ |+-+|+=-|=+ =+=+|=--..=....|.+|-..
T Consensus 138 IVVTNPPFS----LFrEyv~~Li~~~KkFlIIGN~NaiTYkeiFplik---~nk~WlG~~~~g~~~F~vP~~~ 203 (336)
T PF13651_consen 138 IVVTNPPFS----LFREYVAQLIEYDKKFLIIGNINAITYKEIFPLIK---ENKIWLGYTFRGDMWFRVPDDY 203 (336)
T ss_pred EEEeCCCcH----HHHHHHHHHHHhCCCEEEEeccccccHHHHHHHHh---cCcEEeccccCCceeeecCCCC
Confidence 555699998 9999999999999999987 34333332211 0234544444123456788543
No 140
>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=28.12 E-value=59 Score=35.78 Aligned_cols=34 Identities=24% Similarity=0.532 Sum_probs=26.1
Q ss_pred hHHHHHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 687 KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 687 kl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
|+.-|+++| -+++|++|+|+=||-..++..|-++
T Consensus 50 k~~~~~~~~--~l~~G~~vLDiGcGwG~~~~~~a~~ 83 (273)
T PF02353_consen 50 KLDLLCEKL--GLKPGDRVLDIGCGWGGLAIYAAER 83 (273)
T ss_dssp HHHHHHTTT--T--TT-EEEEES-TTSHHHHHHHHH
T ss_pred HHHHHHHHh--CCCCCCEEEEeCCCccHHHHHHHHH
Confidence 666777777 4899999999999999999998887
No 141
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=28.07 E-value=41 Score=40.08 Aligned_cols=70 Identities=14% Similarity=0.268 Sum_probs=39.5
Q ss_pred cCCeEEeeccCcchhhHHHHHHHHH---cCCcccc-------cCCCCCCCCCCCccccccccccCCCCCCCCC-ceeeec
Q 002824 701 SGDTIVDFCCGANDFSCMMKVKLEQ---MGKSCSF-------RNYDLIQPKNDFSFEKRDWMTVRPEELPDGS-QLIMGL 769 (876)
Q Consensus 701 ~~d~~vd~~cg~~~f~~l~~~~~~~---~~~~~~~-------kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~-~li~gl 769 (876)
.+..|+|++||+..+...+..++.. ++-+.+- +|.....-.+...|...||++. ++.+. .+|+ .
T Consensus 138 ~~~~VLDlG~GsG~iai~la~~~p~~~v~avDis~~al~~A~~N~~~~~l~~~v~~~~~D~~~~----~~~~~fDlIv-s 212 (506)
T PRK01544 138 KFLNILELGTGSGCIAISLLCELPNANVIATDISLDAIEVAKSNAIKYEVTDRIQIIHSNWFEN----IEKQKFDFIV-S 212 (506)
T ss_pred CCCEEEEccCchhHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHcCCccceeeeecchhhh----CcCCCccEEE-E
Confidence 4568999999999999877654311 1111111 1111111124567888888752 33333 3555 4
Q ss_pred CCCcch
Q 002824 770 NPPFGV 775 (876)
Q Consensus 770 nppfg~ 775 (876)
||||-.
T Consensus 213 NPPYi~ 218 (506)
T PRK01544 213 NPPYIS 218 (506)
T ss_pred CCCCCC
Confidence 999875
No 142
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=28.04 E-value=39 Score=30.75 Aligned_cols=29 Identities=21% Similarity=0.444 Sum_probs=19.2
Q ss_pred CccccccCCC-CceeecCcccccccccccc
Q 002824 216 FAVCAICDDG-GDVTFCDGRCLRSFHATIT 244 (876)
Q Consensus 216 d~VCaICe~g-GeLL~CdG~C~RsFH~~Cl 244 (876)
+..|++|++. |+-.+---+|...||..|.
T Consensus 78 ~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~ 107 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVFVVFPCGHVVHYSCI 107 (109)
T ss_pred CCCccCcCCcCCCceEEEeCCCeEEecccc
Confidence 5679999985 3322222257789999974
No 143
>TIGR01712 phage_N6A_met phage N-6-adenine-methyltransferase. This is a model for a phage-borne DNA N-6-adenine-methyltransferase.
Probab=27.67 E-value=49 Score=34.40 Aligned_cols=77 Identities=18% Similarity=0.350 Sum_probs=42.5
Q ss_pred eeecCCCcchhhhhHHHHHHhhhhc---CCcEEEEecCccccccccccccceeeccccccc-C-cccccCCccccCcccc
Q 002824 766 IMGLNPPFGVKASLANKFISQALKF---KPKLIVLIVPQETRRLDQKASYNLIWEDNEVLS-G-KSFYLPGSLDVHDNQL 840 (876)
Q Consensus 766 i~glnppfg~~~~~a~kfi~~~~~f---~p~~~~li~p~~~~~~~~~~~y~l~~~d~~~l~-g-~~fy~pg~~d~~~~~~ 840 (876)
-+=+||||+ -+..||.||.++ +=..+|..+|..|.-- -|.--=+.-.++. | -+|+.|..-. .
T Consensus 64 ~vf~NPPYS----~~~~~v~kaae~~~~~g~~~VmLlpa~tst~----W~~~~a~ei~fi~~GRi~F~~p~tg~----~- 130 (166)
T TIGR01712 64 AVWLNPPYS----RPDIFVNKTAWFTEARQAAEVILIEADLSTV----WWPEDIDGNEYIRSGRIAFISPETGK----E- 130 (166)
T ss_pred eEEecCCCC----cHHHHHHHHHHHHHhhCCeEEEEEecCCcch----hHHhcCCeeEEeeCCceeeEcCCCCc----c-
Confidence 445699998 347999999764 2246788888877430 0100002233444 3 2567775421 1
Q ss_pred cccccCCCceeeeec
Q 002824 841 EQWNCKPPPLYLWSR 855 (876)
Q Consensus 841 ~~~n~~~p~~~lws~ 855 (876)
.+=|..+-.|.+|--
T Consensus 131 ~~~~~~gs~l~i~~p 145 (166)
T TIGR01712 131 KDGNNKGSVIFIMRE 145 (166)
T ss_pred cCCCCCCEEEEEEec
Confidence 223556666666643
No 144
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=27.60 E-value=30 Score=38.32 Aligned_cols=59 Identities=31% Similarity=0.628 Sum_probs=35.5
Q ss_pred CCCCccccccCC-----CCceeecCcccccccccccccCc---cccccccCCcccccCCCCceecccccc-cCccccccc
Q 002824 213 ENYFAVCAICDD-----GGDVTFCDGRCLRSFHATITAGK---NALCQSLGYTQAQIDAVPNFLCQNCVY-QEHQCFACG 283 (876)
Q Consensus 213 d~~d~VCaICe~-----gGeLL~CdG~C~RsFH~~Cl~g~---~s~C~sLGlT~~ev~~~~~W~C~eC~~-gqHqCfiCg 283 (876)
.+.+.+|.-|+. ||.+..|. -|.... |.+.. +..|+-| ..++|.|..|.. ||+.|.-|+
T Consensus 122 pl~da~C~EC~R~vw~hGGrif~Cs-fC~~fl---CEDDQFEHQAsCQvL--------e~E~~KC~SCNrlGq~sCLRCK 189 (314)
T PF06524_consen 122 PLQDAVCIECERGVWDHGGRIFKCS-FCDNFL---CEDDQFEHQASCQVL--------ESETFKCQSCNRLGQYSCLRCK 189 (314)
T ss_pred cCCCcEeeeeecccccCCCeEEEee-cCCCee---eccchhhhhhhhhhh--------hcccccccccccccchhhhhee
Confidence 456788988875 58888888 566432 32211 1223221 246788888854 777777665
No 145
>PF14881 Tubulin_3: Tubulin domain
Probab=27.46 E-value=46 Score=34.62 Aligned_cols=46 Identities=20% Similarity=0.406 Sum_probs=38.4
Q ss_pred cccchhhhHHHHHHh-hccccccCCe------EEeeccCcchhhHHHHHHHHH
Q 002824 680 RHFTKVEKLKEIVDR-LHWYVRSGDT------IVDFCCGANDFSCMMKVKLEQ 725 (876)
Q Consensus 680 rhft~~ekl~~i~~~-l~~~~~~~d~------~vd~~cg~~~f~~l~~~~~~~ 725 (876)
..|...++..++.|+ ||+||+.=|+ ++|...|-..|.--|-+.|.+
T Consensus 48 ~~f~~~~~~~d~~D~~lR~f~EECD~lQGfQ~~~d~d~gwgGfas~~Le~L~D 100 (180)
T PF14881_consen 48 ELFKSLDYEEDFFDRDLRFFLEECDSLQGFQVLTDVDDGWGGFASSLLEHLRD 100 (180)
T ss_pred HHHhhhhhhhHHHHHHHHHHHHHcccccceEEEecCCCchHhHHHHHHHHHHH
Confidence 357777788899997 9999999996 789988888888777777766
No 146
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=26.54 E-value=33 Score=40.45 Aligned_cols=35 Identities=20% Similarity=0.432 Sum_probs=23.4
Q ss_pred cccccccccCCCCCCCCCceeccCCCccCCCCccccccccC
Q 002824 277 HQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLL 317 (876)
Q Consensus 277 HqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~ 317 (876)
..|-+|-+.-.++ ...++. ..|.+.||-.|+..|.
T Consensus 176 PTCpVCLERMD~s---~~gi~t---~~c~Hsfh~~cl~~w~ 210 (493)
T KOG0804|consen 176 PTCPVCLERMDSS---TTGILT---ILCNHSFHCSCLMKWW 210 (493)
T ss_pred CCcchhHhhcCcc---ccceee---eecccccchHHHhhcc
Confidence 3577786654332 223332 5799999999999886
No 147
>PHA02929 N1R/p28-like protein; Provisional
Probab=26.45 E-value=41 Score=36.68 Aligned_cols=39 Identities=13% Similarity=0.376 Sum_probs=22.7
Q ss_pred cccccccccCCCCCCCCCceeccCCCccCCCCccccccccC
Q 002824 277 HQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLL 317 (876)
Q Consensus 277 HqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~ 317 (876)
..|.+|.+....+. ...........|++.||..|+..|+
T Consensus 175 ~eC~ICle~~~~~~--~~~~~~~vl~~C~H~FC~~CI~~Wl 213 (238)
T PHA02929 175 KECAICMEKVYDKE--IKNMYFGILSNCNHVFCIECIDIWK 213 (238)
T ss_pred CCCccCCcccccCc--cccccceecCCCCCcccHHHHHHHH
Confidence 45778876432111 0111112235899999999998775
No 148
>COG3802 GguC Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.39 E-value=35 Score=37.75 Aligned_cols=66 Identities=33% Similarity=0.646 Sum_probs=51.9
Q ss_pred CCcchhhhhHHHHHHhhh----------------hcCCcEEEEecCccccccccc-cccceeecccccccCcc-------
Q 002824 771 PPFGVKASLANKFISQAL----------------KFKPKLIVLIVPQETRRLDQK-ASYNLIWEDNEVLSGKS------- 826 (876)
Q Consensus 771 ppfg~~~~~a~kfi~~~~----------------~f~p~~~~li~p~~~~~~~~~-~~y~l~~~d~~~l~g~~------- 826 (876)
-||-+--+|||+|-||.- .|-|.|+|=-.|.+++-.-+. |.=.+|||. -||||..
T Consensus 185 ~p~RlGfal~NEfSDHvtEr~NYL~LAHSKLR~as~GPEl~vG~lP~~vrG~SRI~Rdg~viwek-~FlSGE~nMsHs~a 263 (333)
T COG3802 185 TPYRLGFALANEFSDHVTERVNYLYLAHSKLRNASFGPELLVGALPEDVRGVSRILRDGEVIWEK-PFLSGEANMSHSIA 263 (333)
T ss_pred ceeEEeeeecchhhhhhhhccceEEeehhhhhccccCcceeeccCchhhcCceeeecCCEEEEec-ccccCccchhhhhh
Confidence 389888999999999975 588999999999988765544 447899974 5899974
Q ss_pred -----------cccCCccccCc
Q 002824 827 -----------FYLPGSLDVHD 837 (876)
Q Consensus 827 -----------fy~pg~~d~~~ 837 (876)
|--||.|-|+.
T Consensus 264 NLEhhHFkY~lfrrpGDvHvh~ 285 (333)
T COG3802 264 NLEHHHFKYALFRRPGDVHVHF 285 (333)
T ss_pred hhhhhhhhhhhhcCCCceEEEE
Confidence 45688776653
No 149
>PRK04266 fibrillarin; Provisional
Probab=25.63 E-value=82 Score=33.70 Aligned_cols=35 Identities=9% Similarity=0.215 Sum_probs=26.6
Q ss_pred HHHHHhh-ccccccCCeEEeeccCcchhhHHHHHHH
Q 002824 689 KEIVDRL-HWYVRSGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 689 ~~i~~~l-~~~~~~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
..|...+ .--+.+|+.|+|++||...++..+-+..
T Consensus 59 ~~ll~~~~~l~i~~g~~VlD~G~G~G~~~~~la~~v 94 (226)
T PRK04266 59 AAILKGLKNFPIKKGSKVLYLGAASGTTVSHVSDIV 94 (226)
T ss_pred HHHHhhHhhCCCCCCCEEEEEccCCCHHHHHHHHhc
Confidence 3344433 2357899999999999999998887664
No 150
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=25.63 E-value=24 Score=27.70 Aligned_cols=17 Identities=35% Similarity=0.870 Sum_probs=13.1
Q ss_pred ceeeccccccccccccC
Q 002824 360 QLAICRRCPKAYHRKCL 376 (876)
Q Consensus 360 qLi~C~RCPkAYH~kCL 376 (876)
+|+.|.+|..+.|..|-
T Consensus 3 ~ll~C~~C~v~VH~~CY 19 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCY 19 (36)
T ss_dssp EEEE-SSS--EEEHHHH
T ss_pred ceEEeCCCCCcCChhhC
Confidence 79999999999999996
No 151
>KOG3285 consensus Spindle assembly checkpoint protein [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=25.37 E-value=61 Score=34.24 Aligned_cols=47 Identities=30% Similarity=0.367 Sum_probs=34.8
Q ss_pred eecCCCCeeEeEee---------eeeecccc-cCCCCcceEEEecccCCCccceeeeE
Q 002824 20 FLDQNEESISFSVL---------PLQWDGCD-IVGSSEMQVFLHGNIGDGPWNFNEQV 67 (876)
Q Consensus 20 f~d~~~~~v~fs~l---------p~~~~~~~-~~~~~~~~v~l~G~~d~Gl~~v~~~v 67 (876)
|.--=+++.+|.+| |..|.+|. .+-.+...|.||++. .++.+|--+|
T Consensus 141 fLP~Le~~ctFdvLiyTdkD~~vP~~W~eS~~~~I~n~e~VqlrsFs-T~~HKVdt~V 197 (203)
T KOG3285|consen 141 FLPLLEEICTFDVLIYTDKDTEVPEKWDESGPKLIQNPEAVQLRSFS-TSIHKVDTQV 197 (203)
T ss_pred ecccccceeEEEEEEEeCCCccCCcchhcCCCeEecChhhEEEeecc-ccceeecceE
Confidence 44445677777765 99999987 345677789999998 7777776554
No 152
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=25.10 E-value=35 Score=30.24 Aligned_cols=33 Identities=24% Similarity=0.593 Sum_probs=12.2
Q ss_pred ccccCcCCccccccccceeecc--ccccccccccCC
Q 002824 344 KCFVCQQSEDMNVEDLQLAICR--RCPKAYHRKCLP 377 (876)
Q Consensus 344 ~C~~C~~sedk~~~~~qLi~C~--RCPkAYH~kCLP 377 (876)
.|..|...... +.....+.|. +|...||..||-
T Consensus 4 ~C~IC~~~~~~-~~~~p~~~C~n~~C~~~fH~~CL~ 38 (70)
T PF11793_consen 4 ECGICYSYRLD-DGEIPDVVCPNPSCGKKFHLLCLS 38 (70)
T ss_dssp S-SSS--SS-T-T-----B--S-TT----B-SGGGH
T ss_pred CCCcCCcEecC-CCCcCceEcCCcccCCHHHHHHHH
Confidence 47788875431 1234567897 999999999993
No 153
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=24.72 E-value=1e+02 Score=26.98 Aligned_cols=48 Identities=19% Similarity=0.273 Sum_probs=37.5
Q ss_pred hHHHHHHHHHhhccCC-CCchHHhhccCCCccccccCcccccccceecccchhhHHHHHHHHHHhhCCCChh
Q 002824 571 AEMEKELLALIKDSTS-SFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDGGCDIE 641 (876)
Q Consensus 571 ~~~e~r~l~~~~~~~~-~~~~~~~~~~~~~~~t~~~~~~~~~~~~i~~g~~~~~v~a~~~al~~l~~g~~~~ 641 (876)
.+++.+||.++++... .+|..++-+..-++. .+|+.+|..|++-+-|+
T Consensus 5 ~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~-----------------------~~v~r~L~~L~~~G~V~ 53 (68)
T smart00550 5 DSLEEKILEFLENSGDETSTALQLAKNLGLPK-----------------------KEVNRVLYSLEKKGKVC 53 (68)
T ss_pred hHHHHHHHHHHHHCCCCCcCHHHHHHHHCCCH-----------------------HHHHHHHHHHHHCCCEE
Confidence 5679999999998866 599999988877765 35677788777776654
No 154
>PF05413 Peptidase_C34: Putative closterovirus papain-like endopeptidase; InterPro: IPR008744 RNA-directed RNA polymerase (RdRp) (2.7.7.48 from EC) is an essential protein encoded in the genomes of all RNA containing viruses with no DNA stage [, ]. It catalyses synthesis of the RNA strand complementary to a given RNA template, but the precise molecular mechanism remains unclear. The postulated RNA replication process is a two-step mechanism. First, the initiation step of RNA synthesis begins at or near the 3' end of the RNA template by means of a primer-independent (de novo) mechanism. The de novo initiation consists in the addition of a nucleotide tri-phosphate (NTP) to the 3'-OH of the first initiating NTP. During the following so-called elongation phase, this nucleotidyl transfer reaction is repeated with subsequent NTPs to generate the complementary RNA product []. All the RNA-directed RNA polymerases, and many DNA-directed polymerases, employ a fold whose organisation has been likened to the shape of a right hand with three subdomains termed fingers, palm and thumb []. Only the catalytic palm subdomain, composed of a four-stranded antiparallel beta-sheet with two alpha-helices, is well conserved among all of these enzymes. In RdRp, the palm subdomain comprises three well conserved motifs (A, B and C). Motif A (D-x(4,5)-D) and motif C (GDD) are spatially juxtaposed; the Asp residues of these motifs are implied in the binding of Mg2+ and/or Mn2+. The Asn residue of motif B is involved in selection of ribonucleoside triphosphates over dNTPs and thus determines whether RNA is synthesised rather than DNA []. The domain organisation [] and the 3D structure of the catalytic centre of a wide range of RdPp's, even those with a low overall sequence homology, are conserved. The catalytic centre is formed by several motifs containing a number of conserved amino acid residues. There are 4 superfamilies of viruses that cover all RNA containing viruses with no DNA stage: Viruses containing positive-strand RNA or double-strand RNA, except retroviruses and Birnaviridae: viral RNA-directed RNA polymerases including all positive-strand RNA viruses with no DNA stage, double-strand RNA viruses, and the Cystoviridae, Reoviridae, Hypoviridae, Partitiviridae, Totiviridae families. Mononegavirales (negative-strand RNA viruses with non-segmented genomes). Negative-strand RNA viruses with segmented genomes, i.e. Orthomyxoviruses (including influenza A, B, and C viruses, Thogotoviruses, and the infectious salmon anemia virus), Arenaviruses, Bunyaviruses, Hantaviruses, Nairoviruses, Phleboviruses, Tenuiviruses and Tospoviruses. Birnaviridae family of dsRNA viruses. The RNA-directed RNA polymerases in the first of the above superfamilies can be divided into the following three subgroups: All positive-strand RNA eukaryotic viruses with no DNA stage. All RNA-containing bacteriophages -there are two families of RNA-containing bacteriophages: Leviviridae (positive ssRNA phages) and Cystoviridae (dsRNA phages). Reoviridae family of dsRNA viruses. This signature is found in the RNA-direct RNA polymerase of apple chlorotic leaf spot virus and cherry mottle virus.; GO: 0003723 RNA binding, 0003968 RNA-directed RNA polymerase activity, 0005524 ATP binding, 0019079 viral genome replication
Probab=24.39 E-value=29 Score=32.25 Aligned_cols=15 Identities=47% Similarity=1.088 Sum_probs=13.3
Q ss_pred hCCCChhhhhhcCCh
Q 002824 635 DGGCDIEDAKAVCPP 649 (876)
Q Consensus 635 ~~g~~~~~aka~c~p 649 (876)
..|||++||||+|+.
T Consensus 41 NkGCsidD~k~iC~~ 55 (92)
T PF05413_consen 41 NKGCSIDDLKAICEK 55 (92)
T ss_pred cCCCCHHHHHHHHhh
Confidence 479999999999975
No 155
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=23.96 E-value=1.1e+02 Score=31.51 Aligned_cols=40 Identities=28% Similarity=0.478 Sum_probs=29.9
Q ss_pred cchhhhHHHHHHhhccccccCCeEEeeccCcchhhHHHHHHH
Q 002824 682 FTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 682 ft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
+|+.|.-.-++.+|. +.+|++|+|+.||.-.|+..+-+.+
T Consensus 23 ~t~~~~r~~~l~~l~--~~~~~~vlDlG~GtG~~s~~~a~~~ 62 (198)
T PRK00377 23 MTKEEIRALALSKLR--LRKGDMILDIGCGTGSVTVEASLLV 62 (198)
T ss_pred CCHHHHHHHHHHHcC--CCCcCEEEEeCCcCCHHHHHHHHHh
Confidence 777775433455664 6799999999999999988765543
No 156
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=23.93 E-value=32 Score=32.19 Aligned_cols=42 Identities=24% Similarity=0.690 Sum_probs=0.0
Q ss_pred cccccccCcccccccccCCCCCCCCCceeccCCCccCCCCccccccccCCCCchhHHHHHHHHhhcCCceecCC
Q 002824 269 CQNCVYQEHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPV 342 (876)
Q Consensus 269 C~eC~~gqHqCfiCgklGssd~ss~~eV~kCsv~~CGkfYH~~CL~~~~~p~~e~~~~eL~krI~~g~~F~CPl 342 (876)
|++|......|-++- ..|++.||..|+.+++... ...=+||+
T Consensus 35 Cp~Ck~Pgd~Cplv~------------------g~C~H~FH~hCI~kWl~~~--------------~~~~~CPm 76 (85)
T PF12861_consen 35 CPDCKFPGDDCPLVW------------------GKCSHNFHMHCILKWLSTQ--------------SSKGQCPM 76 (85)
T ss_pred CCCccCCCCCCceee------------------ccCccHHHHHHHHHHHccc--------------cCCCCCCC
No 157
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=23.61 E-value=62 Score=26.34 Aligned_cols=34 Identities=29% Similarity=0.390 Sum_probs=24.4
Q ss_pred cccccCcCCccccccccceeeccccccccccccCCC
Q 002824 343 HKCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPT 378 (876)
Q Consensus 343 H~C~~C~~sedk~~~~~qLi~C~RCPkAYH~kCLP~ 378 (876)
-+|..|++.=-. ...+-++|..|...+|.+|++.
T Consensus 12 ~~C~~C~~~i~g--~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 12 TYCDVCGKFIWG--LGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp EB-TTSSSBECS--SSSCEEEETTTT-EEETTGGCT
T ss_pred CCCcccCcccCC--CCCCeEEECCCCChHhhhhhhh
Confidence 378899885311 2357789999999999999875
No 158
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=23.57 E-value=26 Score=41.49 Aligned_cols=59 Identities=27% Similarity=0.600 Sum_probs=33.5
Q ss_pred cCCCCccccccCCCCc-----eeecCcccccccccccccCccccccccCCcccccCCCCceeccccc
Q 002824 212 DENYFAVCAICDDGGD-----VTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCV 273 (876)
Q Consensus 212 dd~~d~VCaICe~gGe-----LL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~ 273 (876)
....+..|++|++.-. .-.|+| |...|-.+...+....| |+-..=+++...+-.|.-|+
T Consensus 265 ~~~~e~~CAVCgDnAaCqHYGvRTCEG-CKGFFKRTVQKnaKYvC--lanKnCPVDKRrRnRCQyCR 328 (605)
T KOG4217|consen 265 SLSAEGLCAVCGDNAACQHYGVRTCEG-CKGFFKRTVQKNAKYVC--LANKNCPVDKRRRNRCQYCR 328 (605)
T ss_pred CCCccceeeecCChHHhhhcCcccccc-chHHHHHHHhcCCeeEe--ecCCCCCcchhhhhhchhhh
Confidence 3445789999998531 567997 98888877544333334 33222233223344455554
No 159
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.24 E-value=28 Score=40.46 Aligned_cols=29 Identities=31% Similarity=0.888 Sum_probs=22.8
Q ss_pred CccCCCCccccccccCCCCchhHHHHHHHHhhcCCceecCC-cccccCcC
Q 002824 302 ATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPV-HKCFVCQQ 350 (876)
Q Consensus 302 ~~CGkfYH~~CL~~~~~p~~e~~~~eL~krI~~g~~F~CPl-H~C~~C~~ 350 (876)
..||+.||..|+..|.. .||. ..|..|..
T Consensus 24 ~~cGhifh~~cl~qwfe--------------------~~Ps~R~cpic~i 53 (465)
T KOG0827|consen 24 GTCGHIFHTTCLTQWFE--------------------GDPSNRGCPICQI 53 (465)
T ss_pred cchhhHHHHHHHHHHHc--------------------cCCccCCCCceee
Confidence 67999999999988752 4666 47888883
No 160
>PRK06202 hypothetical protein; Provisional
Probab=23.08 E-value=70 Score=33.44 Aligned_cols=40 Identities=18% Similarity=0.188 Sum_probs=30.0
Q ss_pred ccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCCC
Q 002824 700 RSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQ 739 (876)
Q Consensus 700 ~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~ 739 (876)
.++.+|+|+.||...++..+-+.+.+.|....+--.|+.+
T Consensus 59 ~~~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~s~ 98 (232)
T PRK06202 59 DRPLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDPDP 98 (232)
T ss_pred CCCcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcCCH
Confidence 5778999999999999988877766656555555555543
No 161
>TIGR00497 hsdM type I restriction system adenine methylase (hsdM). Function: methylation of specific adenine residues; required for both restriction and modification activities. The ECOR124/3 I enzyme recognizes 5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257: 960-969 (1996)).
Probab=23.06 E-value=48 Score=39.29 Aligned_cols=47 Identities=17% Similarity=0.134 Sum_probs=34.9
Q ss_pred ccccccccCcccchhhhHHHHHHhhccccccCCeEEeeccCcchhhH
Q 002824 671 HGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSC 717 (876)
Q Consensus 671 ~g~ry~s~grhft~~ekl~~i~~~l~~~~~~~d~~vd~~cg~~~f~~ 717 (876)
-|.-||+-|-+||+.+-+.-+++-+-.--.++.+|-|+|||+..|-.
T Consensus 187 a~e~~t~~g~~~Tp~~Iv~l~~~~~~~~~dp~~~~~Dp~~Gsg~~L~ 233 (501)
T TIGR00497 187 AQNAGKSGGEFFTPQDISELLARIAIGKKDTVDDVYDMACGSGSLLL 233 (501)
T ss_pred HHhcCCcCceeeCcHHHHHHHHHHhccCCCCCCcccccccchHHHHH
Confidence 36678999999998875554444333333478899999999999874
No 162
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=22.04 E-value=29 Score=39.30 Aligned_cols=64 Identities=20% Similarity=0.412 Sum_probs=37.6
Q ss_pred CccccccCCC----CceeecCcccccccccccccCccccccccCCcccccCCCCceecccccccCcccccccccCCCCCC
Q 002824 216 FAVCAICDDG----GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSDKS 291 (876)
Q Consensus 216 d~VCaICe~g----GeLL~CdG~C~RsFH~~Cl~g~~s~C~sLGlT~~ev~~~~~W~C~eC~~gqHqCfiCgklGssd~s 291 (876)
-.+|.-|+-+ |.||-|+ |..|++ |. .. ...-+|+.|......=..|.
T Consensus 90 VHfCd~Cd~PI~IYGRmIPCk-------HvFCl~-----CA--r~-------~~dK~Cp~C~d~VqrIeq~~-------- 140 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPCK-------HVFCLE-----CA--RS-------DSDKICPLCDDRVQRIEQIM-------- 140 (389)
T ss_pred eEeecccCCcceeeecccccc-------hhhhhh-----hh--hc-------CccccCcCcccHHHHHHHhc--------
Confidence 4679999875 8898776 444433 31 11 12457888876543333332
Q ss_pred CCCceeccCCCc-cCCCCc
Q 002824 292 SSQEVFPCVSAT-CGQFYH 309 (876)
Q Consensus 292 s~~eV~kCsv~~-CGkfYH 309 (876)
-+.+|.|+... |-|.|-
T Consensus 141 -~g~iFmC~~~~GC~RTyL 158 (389)
T KOG2932|consen 141 -MGGIFMCAAPHGCLRTYL 158 (389)
T ss_pred -ccceEEeecchhHHHHHh
Confidence 24799996444 666553
No 163
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=21.44 E-value=39 Score=38.72 Aligned_cols=27 Identities=30% Similarity=0.789 Sum_probs=21.3
Q ss_pred CccccccCCC--C---ceeecCccccccccccc
Q 002824 216 FAVCAICDDG--G---DVTFCDGRCLRSFHATI 243 (876)
Q Consensus 216 d~VCaICe~g--G---eLL~CdG~C~RsFH~~C 243 (876)
+..|.+|++- | -||.|+ +|...|..+-
T Consensus 15 ~ElCPVCGDkVSGYHYGLLTCE-SCKGFFKRTV 46 (475)
T KOG4218|consen 15 GELCPVCGDKVSGYHYGLLTCE-SCKGFFKRTV 46 (475)
T ss_pred ccccccccCccccceeeeeehh-hhhhHHHHHh
Confidence 5689999873 3 399999 7998887763
No 164
>COG4798 Predicted methyltransferase [General function prediction only]
Probab=21.36 E-value=49 Score=35.69 Aligned_cols=49 Identities=16% Similarity=0.250 Sum_probs=42.5
Q ss_pred ccccccCCeEEeeccCcchhhHHHHHHHHHcCCcccccCCCCCCCCCCC
Q 002824 696 HWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKNDF 744 (876)
Q Consensus 696 ~~~~~~~d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~~~~~ 744 (876)
-|=|.+|+||||+.-|...|-+++..-+-..|+--.|-..++.-+++++
T Consensus 43 FaGlkpg~tVid~~PGgGy~TrI~s~~vgp~G~Vy~~~p~e~~~~~~~~ 91 (238)
T COG4798 43 FAGLKPGATVIDLIPGGGYFTRIFSPAVGPKGKVYAYVPAELTKFAKRE 91 (238)
T ss_pred EeccCCCCEEEEEecCCccHhhhhchhcCCceeEEEecchhhcccccch
Confidence 3678999999999999999999999999888977788888887666665
No 165
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=21.36 E-value=51 Score=31.18 Aligned_cols=22 Identities=32% Similarity=0.711 Sum_probs=19.1
Q ss_pred CceecccccccCcccccccccC
Q 002824 265 PNFLCQNCVYQEHQCFACGMLG 286 (876)
Q Consensus 265 ~~W~C~eC~~gqHqCfiCgklG 286 (876)
+.-+|..|.|....|-.||+.-
T Consensus 58 g~~YCq~CAYkkGiCamCGKki 79 (90)
T PF10235_consen 58 GAKYCQTCAYKKGICAMCGKKI 79 (90)
T ss_pred CCccChhhhcccCcccccCCee
Confidence 4678999999999999999754
No 166
>COG1307 DegV Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.06 E-value=2.9e+02 Score=30.78 Aligned_cols=95 Identities=20% Similarity=0.239 Sum_probs=64.3
Q ss_pred HHHHHHHHhhCCCChhhhhhcCChhhhhhHHHhhhccccccc---------------------------cccccc--ccc
Q 002824 626 AVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLA---------------------------PFLHGM--RYT 676 (876)
Q Consensus 626 a~~~al~~l~~g~~~~~aka~c~p~~l~q~~~~~~kl~~~l~---------------------------p~l~g~--ry~ 676 (876)
.|..|.+|+++|.+.+++ ++.|..++++.+.|++ |+|+.. ++.
T Consensus 127 ~v~~a~~l~~~G~s~~ei--------~~~l~~~~~~t~~~~~v~~L~~L~kgGRIs~~~a~lg~lL~ikPIl~~~~G~~~ 198 (282)
T COG1307 127 LVLEAAELAKAGKSFEEI--------LKKLEEIREKTKAYFVVDDLDNLVKGGRISKAAAFLGNLLKIKPILSFEDGELV 198 (282)
T ss_pred HHHHHHHHHHcCCCHHHH--------HHHHHHHHhhcEEEEEECchhHHHhCCCcchhHHHHHhhhcceEEEEEeCCEEE
Confidence 566778899999998877 7777777766666643 555544 677
Q ss_pred ccCcccchhhhHHHHHHhhccccccCC--eEEeeccCcchhhHHHHHHHHHcCC
Q 002824 677 SFGRHFTKVEKLKEIVDRLHWYVRSGD--TIVDFCCGANDFSCMMKVKLEQMGK 728 (876)
Q Consensus 677 s~grhft~~ekl~~i~~~l~~~~~~~d--~~vd~~cg~~~f~~l~~~~~~~~~~ 728 (876)
.+||-+|..--++.+++.+.=.+.++. +++=.--..+.--..+++.|.+.+.
T Consensus 199 ~~~K~R~~kka~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~l~~~~~ 252 (282)
T COG1307 199 LLGKVRGQKKAIKKLIELLKKEVKDGAGYRVAVLHGDAPEAAEQLKEKLLNKFI 252 (282)
T ss_pred EEeecccHHHHHHHHHHHHHHHhccCCceEEEEEeCCchhHHHHHHHHHHhhcC
Confidence 899999999888888888777775333 3443333344445566666666443
No 167
>KOG4215 consensus Hepatocyte nuclear factor 4 and similar steroid hormone receptors [Transcription]
Probab=21.02 E-value=31 Score=39.80 Aligned_cols=27 Identities=41% Similarity=0.870 Sum_probs=20.7
Q ss_pred CCccccccCCC--Cc---eeecCcccccccccc
Q 002824 215 YFAVCAICDDG--GD---VTFCDGRCLRSFHAT 242 (876)
Q Consensus 215 ~d~VCaICe~g--Ge---LL~CdG~C~RsFH~~ 242 (876)
-..+|+||++- |. -+.|+| |...|-..
T Consensus 18 ~~~~CaICGDkaTGKHYGA~SCdG-CKGFFRRS 49 (432)
T KOG4215|consen 18 VAEFCAICGDKATGKHYGAISCDG-CKGFFRRS 49 (432)
T ss_pred ccchhheeCCcccccccceeecCc-chHHHHHH
Confidence 46799999873 32 689997 88888765
No 168
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=20.92 E-value=64 Score=37.51 Aligned_cols=24 Identities=17% Similarity=0.354 Sum_probs=20.5
Q ss_pred cccCCeEEeeccCcchhhHHHHHH
Q 002824 699 VRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 699 ~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
+++|++|+|+|||...++..|-+.
T Consensus 250 ~~~g~~VLDl~ag~G~kt~~la~~ 273 (434)
T PRK14901 250 PQPGEVILDACAAPGGKTTHIAEL 273 (434)
T ss_pred CCCcCEEEEeCCCCchhHHHHHHH
Confidence 578999999999999888777654
No 169
>TIGR02081 metW methionine biosynthesis protein MetW. This protein is found alongside MetX, of the enzyme that acylates homoserine as a first step toward methionine biosynthesis, in many species. It appears to act in methionine biosynthesis but is not fully characterized.
Probab=20.84 E-value=75 Score=32.33 Aligned_cols=31 Identities=19% Similarity=0.626 Sum_probs=23.7
Q ss_pred HHHHHHhhccccccCCeEEeeccCcchhhHHHHHH
Q 002824 688 LKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 688 l~~i~~~l~~~~~~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
|.++.+. +.+|++|+|+.||...+...+.+.
T Consensus 4 ~~~i~~~----i~~~~~iLDiGcG~G~~~~~l~~~ 34 (194)
T TIGR02081 4 LESILNL----IPPGSRVLDLGCGDGELLALLRDE 34 (194)
T ss_pred HHHHHHh----cCCCCEEEEeCCCCCHHHHHHHhc
Confidence 4445554 458999999999999998877543
No 170
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=20.63 E-value=71 Score=37.30 Aligned_cols=25 Identities=24% Similarity=0.498 Sum_probs=20.8
Q ss_pred cccCCeEEeeccCcchhhHHHHHHH
Q 002824 699 VRSGDTIVDFCCGANDFSCMMKVKL 723 (876)
Q Consensus 699 ~~~~d~~vd~~cg~~~f~~l~~~~~ 723 (876)
.++|++|+|+|||...++..|-+.+
T Consensus 248 ~~~g~~VLDlgaG~G~kt~~la~~~ 272 (445)
T PRK14904 248 PQPGSTVLDLCAAPGGKSTFMAELM 272 (445)
T ss_pred CCCCCEEEEECCCCCHHHHHHHHHh
Confidence 4789999999999998887766554
No 171
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=20.44 E-value=52 Score=37.06 Aligned_cols=22 Identities=23% Similarity=0.537 Sum_probs=18.9
Q ss_pred cCCeEEeeccCcchhhHHHHHH
Q 002824 701 SGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 701 ~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
+|.+|+|++||...++..+.++
T Consensus 144 ~~~~VLDlGcGtG~~a~~la~~ 165 (315)
T PLN02585 144 AGVTVCDAGCGTGSLAIPLALE 165 (315)
T ss_pred CCCEEEEecCCCCHHHHHHHHC
Confidence 5789999999999998877754
No 172
>TIGR02021 BchM-ChlM magnesium protoporphyrin O-methyltransferase. This model represents the S-adenosylmethionine-dependent O-methyltransferase responsible for methylation of magnesium protoporphyrin IX. This step is essentiasl for the biosynthesis of both chlorophyll and bacteriochlorophyll. This model encompasses two closely related clades, from cyanobacteria (and plants) where it is called ChlM and other photosynthetic bacteria where it is known as BchM.
Probab=20.35 E-value=92 Score=32.22 Aligned_cols=34 Identities=18% Similarity=0.357 Sum_probs=26.1
Q ss_pred HHHHHhhccccc----cCCeEEeeccCcchhhHHHHHH
Q 002824 689 KEIVDRLHWYVR----SGDTIVDFCCGANDFSCMMKVK 722 (876)
Q Consensus 689 ~~i~~~l~~~~~----~~d~~vd~~cg~~~f~~l~~~~ 722 (876)
..+++++.+++. .+++|+|+.||...|...+.++
T Consensus 39 ~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~~ 76 (219)
T TIGR02021 39 AAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAKR 76 (219)
T ss_pred HHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHHC
Confidence 445566666665 5889999999999999888653
No 173
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.08 E-value=63 Score=37.21 Aligned_cols=29 Identities=31% Similarity=0.542 Sum_probs=21.7
Q ss_pred ccccccCCC---CceeecCcccccccccccccC
Q 002824 217 AVCAICDDG---GDVTFCDGRCLRSFHATITAG 246 (876)
Q Consensus 217 ~VCaICe~g---GeLL~CdG~C~RsFH~~Cl~g 246 (876)
+.|+||-+. |+.|.== +|.-.||..|.+.
T Consensus 230 ~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDp 261 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDP 261 (348)
T ss_pred ceEEEeecccccCCeeeEe-cCCCchhhccchh
Confidence 799999653 7644443 7889999998654
Done!