Query 000583
Match_columns 1407
No_of_seqs 239 out of 644
Neff 3.3
Searched_HMMs 46136
Date Mon Apr 1 20:03:32 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000583.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000583hhsearch_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 2.6E-20 5.7E-25 186.3 2.4 131 7-141 1-145 (146)
2 KOG4443 Putative transcription 98.7 2.8E-09 6.1E-14 127.3 1.6 102 288-422 19-121 (694)
3 KOG1244 Predicted transcriptio 98.7 7.4E-09 1.6E-13 114.0 3.7 81 305-408 244-325 (336)
4 KOG4299 PHD Zn-finger protein 98.2 1.4E-06 3E-11 104.7 4.8 48 355-413 255-302 (613)
5 KOG4443 Putative transcription 98.0 2.3E-06 4.9E-11 103.2 2.1 103 225-362 16-124 (694)
6 KOG1512 PHD Zn-finger protein 97.8 9.4E-06 2E-10 90.6 2.0 78 306-408 278-356 (381)
7 KOG0956 PHD finger protein AF1 97.5 4.4E-05 9.6E-10 92.5 2.8 168 230-436 8-193 (900)
8 KOG4299 PHD Zn-finger protein 97.4 3.9E-05 8.5E-10 92.7 0.7 54 223-286 249-305 (613)
9 KOG1512 PHD Zn-finger protein 97.4 7.3E-05 1.6E-09 83.7 2.6 82 225-328 256-348 (381)
10 COG5141 PHD zinc finger-contai 97.4 5.5E-05 1.2E-09 89.1 1.2 89 225-327 191-336 (669)
11 KOG0955 PHD finger protein BR1 97.3 0.00015 3.3E-09 92.7 4.4 135 225-393 217-367 (1051)
12 KOG0954 PHD finger protein [Ge 97.3 0.00013 2.9E-09 89.2 3.2 134 226-393 270-417 (893)
13 KOG1244 Predicted transcriptio 97.2 0.00015 3.2E-09 81.1 2.5 81 225-328 222-315 (336)
14 PRK00274 ksgA 16S ribosomal RN 97.2 0.00026 5.6E-09 78.4 4.1 152 707-867 18-188 (272)
15 PHA03412 putative methyltransf 97.1 0.0011 2.3E-08 73.8 7.1 172 708-894 29-230 (241)
16 PF00628 PHD: PHD-finger; Int 97.0 0.00024 5.2E-09 60.1 1.1 47 229-285 1-50 (51)
17 KOG0383 Predicted helicase [Ge 96.9 0.00069 1.5E-08 84.0 3.9 92 314-439 1-114 (696)
18 PF02384 N6_Mtase: N-6 DNA Met 96.9 0.0015 3.2E-08 72.7 5.8 124 708-834 24-187 (311)
19 KOG1473 Nucleosome remodeling 96.8 0.00066 1.4E-08 86.1 2.8 130 221-408 338-473 (1414)
20 KOG1973 Chromatin remodeling p 96.8 0.00049 1.1E-08 77.2 1.5 47 225-285 219-267 (274)
21 COG5034 TNG2 Chromatin remodel 96.7 0.00084 1.8E-08 74.8 2.7 45 227-285 221-269 (271)
22 TIGR02987 met_A_Alw26 type II 96.7 0.0041 8.9E-08 74.7 8.0 49 708-756 2-55 (524)
23 smart00249 PHD PHD zinc finger 96.6 0.0013 2.8E-08 52.9 2.5 44 229-283 1-47 (47)
24 KOG0825 PHD Zn-finger protein 96.6 0.002 4.2E-08 79.7 4.6 44 354-408 216-260 (1134)
25 TIGR00755 ksgA dimethyladenosi 96.4 0.0069 1.5E-07 66.2 7.3 148 708-867 6-176 (253)
26 PRK14896 ksgA 16S ribosomal RN 96.4 0.0027 5.8E-08 69.9 3.8 149 708-867 6-172 (258)
27 PF00628 PHD: PHD-finger; Int 96.3 0.0031 6.6E-08 53.4 2.9 45 355-408 1-45 (51)
28 KOG0383 Predicted helicase [Ge 96.0 0.0028 6.1E-08 78.9 1.8 81 245-362 1-96 (696)
29 smart00249 PHD PHD zinc finger 95.9 0.0074 1.6E-07 48.5 3.0 44 355-408 1-44 (47)
30 PF15446 zf-PHD-like: PHD/FYVE 95.7 0.0083 1.8E-07 63.9 3.5 92 290-391 2-143 (175)
31 PTZ00338 dimethyladenosine tra 95.6 0.015 3.4E-07 65.9 5.6 154 702-867 6-184 (294)
32 PF01170 UPF0020: Putative RNA 95.5 0.03 6.5E-07 59.1 6.8 107 721-832 19-152 (179)
33 PF13659 Methyltransf_26: Meth 93.9 0.033 7.3E-07 52.6 2.2 87 733-820 1-103 (117)
34 PF00398 RrnaAD: Ribosomal RNA 93.5 0.061 1.3E-06 59.5 3.6 155 707-867 6-181 (262)
35 PF15446 zf-PHD-like: PHD/FYVE 93.5 0.076 1.7E-06 56.9 4.0 92 229-327 1-142 (175)
36 PRK10909 rsmD 16S rRNA m(2)G96 93.0 0.33 7.2E-06 52.6 8.2 120 731-859 52-184 (199)
37 KOG1701 Focal adhesion adaptor 93.0 0.014 3.1E-07 69.0 -2.4 147 223-387 271-428 (468)
38 KOG1973 Chromatin remodeling p 92.3 0.066 1.4E-06 60.5 1.8 24 305-328 230-254 (274)
39 TIGR00479 rumA 23S rRNA (uraci 92.1 0.22 4.9E-06 58.7 5.9 129 715-847 273-416 (431)
40 KOG4323 Polycomb-like PHD Zn-f 92.0 0.057 1.2E-06 65.0 0.9 51 227-286 168-224 (464)
41 KOG0825 PHD Zn-finger protein 91.9 0.088 1.9E-06 66.0 2.3 47 227-285 215-265 (1134)
42 PF13771 zf-HC5HC2H: PHD-like 90.8 0.1 2.2E-06 48.8 1.0 40 220-259 29-70 (90)
43 TIGR01177 conserved hypothetic 90.7 1 2.2E-05 51.6 9.1 104 719-834 171-298 (329)
44 KOG0957 PHD finger protein [Ge 90.5 0.21 4.6E-06 60.4 3.5 47 355-408 546-592 (707)
45 smart00650 rADc Ribosomal RNA 90.4 0.26 5.7E-06 50.8 3.7 141 719-866 2-159 (169)
46 KOG4323 Polycomb-like PHD Zn-f 90.1 0.2 4.4E-06 60.6 2.9 94 227-328 83-204 (464)
47 PF13832 zf-HC5HC2H_2: PHD-zin 90.0 0.3 6.6E-06 47.5 3.5 84 229-327 2-88 (110)
48 PF13832 zf-HC5HC2H_2: PHD-zin 89.8 0.23 4.9E-06 48.3 2.6 80 289-389 2-87 (110)
49 TIGR02085 meth_trns_rumB 23S r 89.5 0.34 7.4E-06 56.6 4.1 115 714-834 213-338 (374)
50 PF05175 MTS: Methyltransferas 88.3 0.44 9.6E-06 49.5 3.6 84 732-820 31-128 (170)
51 PRK03522 rumB 23S rRNA methylu 87.1 0.63 1.4E-05 53.1 4.2 93 732-830 173-273 (315)
52 PRK13168 rumA 23S rRNA m(5)U19 86.7 0.88 1.9E-05 54.3 5.2 124 719-847 282-420 (443)
53 COG2263 Predicted RNA methylas 86.4 2.2 4.8E-05 47.1 7.6 120 691-834 9-148 (198)
54 TIGR03533 L3_gln_methyl protei 85.2 1.4 3E-05 49.9 5.6 72 731-807 120-202 (284)
55 PF07669 Eco57I: Eco57I restri 84.3 0.85 1.8E-05 44.7 3.0 39 796-835 5-56 (106)
56 PHA03411 putative methyltransf 83.8 0.74 1.6E-05 52.9 2.7 40 709-752 45-84 (279)
57 TIGR03534 RF_mod_PrmC protein- 83.6 2.1 4.6E-05 45.9 5.9 70 730-808 85-168 (251)
58 COG2265 TrmA SAM-dependent met 83.5 1.9 4E-05 52.2 6.0 116 703-830 260-395 (432)
59 COG2226 UbiE Methylase involve 83.2 1.4 3E-05 49.7 4.4 58 681-753 15-72 (238)
60 KOG0955 PHD finger protein BR1 82.7 0.88 1.9E-05 59.8 3.1 58 355-423 221-283 (1051)
61 PRK11805 N5-glutamine S-adenos 82.6 2.2 4.7E-05 49.1 5.8 69 734-807 135-214 (307)
62 PRK11188 rrmJ 23S rRNA methylt 82.3 7.5 0.00016 42.3 9.4 65 716-784 36-102 (209)
63 KOG0957 PHD finger protein [Ge 81.6 0.58 1.3E-05 56.8 0.9 49 226-283 543-595 (707)
64 PRK14967 putative methyltransf 81.2 5.2 0.00011 43.3 7.8 34 717-752 23-56 (223)
65 PF13771 zf-HC5HC2H: PHD-like 80.7 0.83 1.8E-05 42.8 1.4 34 287-328 36-70 (90)
66 PF02475 Met_10: Met-10+ like- 78.3 0.73 1.6E-05 50.4 0.2 101 691-822 78-192 (200)
67 COG0030 KsgA Dimethyladenosine 76.3 5.5 0.00012 45.6 6.4 116 707-839 6-139 (259)
68 TIGR00095 RNA methyltransferas 75.7 9 0.00019 41.2 7.5 110 716-829 33-157 (189)
69 COG5034 TNG2 Chromatin remodel 75.1 1.8 3.9E-05 49.3 2.2 35 305-354 232-267 (271)
70 TIGR03704 PrmC_rel_meth putati 75.0 1.9 4.1E-05 48.0 2.3 68 733-805 87-164 (251)
71 PRK05785 hypothetical protein; 74.7 3.8 8.1E-05 45.0 4.5 59 682-753 14-72 (226)
72 PRK05031 tRNA (uracil-5-)-meth 73.3 4.6 9.9E-05 47.4 5.0 115 715-834 188-324 (362)
73 COG2520 Predicted methyltransf 72.2 1.7 3.6E-05 51.3 1.1 89 725-821 181-278 (341)
74 TIGR02143 trmA_only tRNA (urac 71.3 4 8.6E-05 47.8 3.9 102 733-839 198-320 (353)
75 KOG0956 PHD finger protein AF1 70.8 1.6 3.6E-05 54.9 0.7 34 223-256 113-155 (900)
76 PRK09328 N5-glutamine S-adenos 70.7 5.7 0.00012 43.5 4.7 74 730-809 106-190 (275)
77 PLN02672 methionine S-methyltr 66.9 15 0.00032 49.4 8.0 148 654-808 23-217 (1082)
78 TIGR03587 Pse_Me-ase pseudamin 66.4 6.4 0.00014 42.7 3.9 51 703-753 14-64 (204)
79 cd04718 BAH_plant_2 BAH, or Br 66.3 5.2 0.00011 42.6 3.1 21 381-408 1-21 (148)
80 KOG1245 Chromatin remodeling c 66.2 1.6 3.4E-05 59.3 -0.8 59 225-295 1106-1170(1404)
81 TIGR00536 hemK_fam HemK family 61.0 6.6 0.00014 44.3 3.0 68 734-806 116-194 (284)
82 COG5141 PHD zinc finger-contai 60.7 6.8 0.00015 48.2 3.1 57 355-422 195-256 (669)
83 PF13679 Methyltransf_32: Meth 57.9 53 0.0011 33.5 8.5 108 716-831 6-132 (141)
84 PF13901 DUF4206: Domain of un 56.8 6.9 0.00015 42.9 2.2 46 279-326 144-189 (202)
85 KOG0954 PHD finger protein [Ge 56.1 6.4 0.00014 50.3 1.9 43 355-408 273-315 (893)
86 PF11793 FANCL_C: FANCL C-term 55.8 7.1 0.00015 36.4 1.7 39 289-329 4-42 (70)
87 KOG4628 Predicted E3 ubiquitin 55.5 6.4 0.00014 46.8 1.7 69 28-111 30-99 (348)
88 PF13489 Methyltransf_23: Meth 55.0 15 0.00033 36.2 4.0 36 717-752 7-42 (161)
89 KOG1473 Nucleosome remodeling 54.4 7.2 0.00016 51.8 2.0 42 355-410 346-387 (1414)
90 KOG1245 Chromatin remodeling c 53.6 3.7 8E-05 56.0 -0.6 43 355-408 1110-1152(1404)
91 COG0286 HsdM Type I restrictio 52.4 16 0.00034 45.0 4.3 49 708-758 164-212 (489)
92 PF01209 Ubie_methyltran: ubiE 52.3 8.3 0.00018 42.9 1.9 56 682-752 12-67 (233)
93 KOG1044 Actin-binding LIM Zn-f 52.0 9 0.0002 48.0 2.3 27 227-256 16-44 (670)
94 TIGR00080 pimt protein-L-isoas 50.2 22 0.00047 38.4 4.6 45 709-755 56-100 (215)
95 PRK15001 SAM-dependent 23S rib 50.0 22 0.00049 42.6 5.0 123 703-830 198-339 (378)
96 PLN02585 magnesium protoporphy 49.7 38 0.00083 39.7 6.7 22 732-753 144-165 (315)
97 KOG3612 PHD Zn-finger protein 49.0 14 0.0003 46.2 3.1 36 219-255 52-87 (588)
98 TIGR02021 BchM-ChlM magnesium 48.8 14 0.00031 39.6 2.9 35 719-753 38-76 (219)
99 KOG3420 Predicted RNA methylas 48.6 4.8 0.0001 43.4 -0.6 105 714-822 28-143 (185)
100 COG3802 GguC Uncharacterized p 48.3 9.2 0.0002 44.1 1.4 66 803-869 186-285 (333)
101 PRK13942 protein-L-isoaspartat 47.8 21 0.00047 38.7 4.1 45 708-754 54-98 (212)
102 PRK00312 pcm protein-L-isoaspa 46.7 55 0.0012 35.1 6.9 44 708-753 56-99 (212)
103 PRK14968 putative methyltransf 46.1 51 0.0011 33.8 6.3 23 731-753 22-44 (188)
104 PTZ00098 phosphoethanolamine N 46.0 24 0.00051 39.7 4.2 50 700-751 10-71 (263)
105 PRK14966 unknown domain/N5-glu 45.8 17 0.00036 44.4 3.2 82 721-807 240-332 (423)
106 COG0293 FtsJ 23S rRNA methylas 45.7 24 0.00051 39.5 4.1 43 716-759 30-72 (205)
107 TIGR02081 metW methionine bios 45.7 24 0.00052 37.4 4.0 30 719-752 4-33 (194)
108 PF13412 HTH_24: Winged helix- 45.7 45 0.00097 28.1 4.8 27 602-629 3-29 (48)
109 cd04718 BAH_plant_2 BAH, or Br 45.0 12 0.00026 40.0 1.6 26 250-286 2-27 (148)
110 TIGR02752 MenG_heptapren 2-hep 44.4 22 0.00048 38.1 3.5 42 707-753 25-66 (231)
111 PF13831 PHD_2: PHD-finger; PD 44.3 4.7 0.0001 33.6 -1.2 35 237-284 2-36 (36)
112 PRK09489 rsmC 16S ribosomal RN 43.9 63 0.0014 38.2 7.3 49 703-753 166-217 (342)
113 PRK13944 protein-L-isoaspartat 43.0 30 0.00065 37.3 4.3 45 709-755 51-95 (205)
114 TIGR02469 CbiT precorrin-6Y C5 42.4 35 0.00075 32.3 4.2 35 716-752 5-39 (124)
115 PF14446 Prok-RING_1: Prokaryo 42.2 14 0.00029 33.9 1.3 33 354-389 6-38 (54)
116 COG2230 Cfa Cyclopropane fatty 42.1 26 0.00056 40.9 3.8 35 717-753 59-93 (283)
117 KOG2824 Glutaredoxin-related p 41.8 24 0.00052 41.1 3.4 26 140-165 157-185 (281)
118 smart00550 Zalpha Z-DNA-bindin 41.7 53 0.0011 30.3 5.0 30 601-630 5-35 (68)
119 PRK01544 bifunctional N5-gluta 41.6 17 0.00036 44.9 2.4 72 732-807 138-219 (506)
120 TIGR00438 rrmJ cell division p 40.2 34 0.00075 36.0 4.1 36 718-754 19-54 (188)
121 PF04405 ScdA_N: Domain of Unk 40.2 18 0.00038 32.9 1.7 19 737-758 24-42 (56)
122 KOG4218 Nuclear hormone recept 39.3 13 0.00028 44.3 0.9 26 227-253 15-45 (475)
123 PF01728 FtsJ: FtsJ-like methy 38.1 23 0.0005 36.9 2.5 38 717-754 7-45 (181)
124 KOG1701 Focal adhesion adaptor 37.9 32 0.00069 42.2 3.8 73 246-327 352-431 (468)
125 TIGR00406 prmA ribosomal prote 37.8 37 0.0008 38.7 4.2 38 710-751 141-178 (288)
126 PF14446 Prok-RING_1: Prokaryo 37.4 20 0.00044 32.8 1.6 34 288-327 6-39 (54)
127 KOG2932 E3 ubiquitin ligase in 37.1 12 0.00027 44.0 0.3 64 227-320 90-158 (389)
128 TIGR00762 DegV EDD domain prot 35.9 1.6E+02 0.0034 33.6 8.6 93 655-756 123-246 (275)
129 PRK00050 16S rRNA m(4)C1402 me 35.2 43 0.00093 39.2 4.2 34 718-753 7-40 (296)
130 cd00315 Cyt_C5_DNA_methylase C 34.2 1E+02 0.0022 35.1 6.9 89 735-835 2-116 (275)
131 PRK11783 rlmL 23S rRNA m(2)G24 33.8 79 0.0017 40.8 6.5 66 679-747 134-205 (702)
132 PF13639 zf-RING_2: Ring finge 33.3 6.3 0.00014 32.8 -2.0 33 289-328 2-34 (44)
133 KOG0804 Cytoplasmic Zn-finger 32.1 25 0.00053 43.3 1.7 35 288-328 176-210 (493)
134 PF01555 N6_N4_Mtase: DNA meth 31.9 29 0.00062 36.2 2.0 49 696-747 152-206 (231)
135 PRK08287 cobalt-precorrin-6Y C 31.9 67 0.0014 33.8 4.6 41 710-752 11-51 (187)
136 KOG4628 Predicted E3 ubiquitin 31.8 25 0.00054 42.1 1.6 28 228-256 230-260 (348)
137 TIGR00446 nop2p NOL1/NOP2/sun 31.8 34 0.00073 38.5 2.6 41 713-754 53-93 (264)
138 KOG1829 Uncharacterized conser 31.3 16 0.00034 46.2 -0.0 48 278-327 502-549 (580)
139 KOG1081 Transcription factor N 31.1 34 0.00074 42.2 2.7 36 219-255 81-116 (463)
140 PRK07402 precorrin-6B methylas 30.8 71 0.0015 33.9 4.7 41 710-752 20-60 (196)
141 PLN03208 E3 ubiquitin-protein 30.3 27 0.00058 38.9 1.5 41 215-256 6-46 (193)
142 KOG0828 Predicted E3 ubiquitin 29.6 11 0.00024 46.5 -1.6 29 314-358 605-633 (636)
143 TIGR01712 phage_N6A_met phage 29.2 43 0.00094 36.5 2.8 35 797-835 64-101 (166)
144 PTZ00146 fibrillarin; Provisio 29.2 41 0.00089 39.4 2.8 28 729-756 129-156 (293)
145 PF07227 DUF1423: Protein of u 28.7 36 0.00078 41.9 2.3 43 276-327 122-164 (446)
146 PF02353 CMAS: Mycolic acid cy 28.6 57 0.0012 37.4 3.7 34 718-753 50-83 (273)
147 PRK00121 trmB tRNA (guanine-N( 28.4 31 0.00068 37.2 1.6 29 726-754 34-62 (202)
148 PF05869 Dam: DNA N-6-adenine- 28.4 56 0.0012 35.8 3.5 131 713-888 15-152 (181)
149 TIGR00675 dcm DNA-methyltransf 28.3 64 0.0014 37.5 4.1 91 736-832 1-110 (315)
150 KOG1169 Diacylglycerol kinase 27.4 25 0.00054 44.9 0.7 141 229-389 46-211 (634)
151 PF12678 zf-rbx1: RING-H2 zinc 25.7 17 0.00037 34.0 -0.8 15 314-328 49-63 (73)
152 PRK14902 16S rRNA methyltransf 25.6 87 0.0019 37.9 4.7 25 730-754 248-272 (444)
153 cd02440 AdoMet_MTases S-adenos 25.5 75 0.0016 27.6 3.2 89 735-830 1-103 (107)
154 PRK00377 cbiT cobalt-precorrin 24.8 96 0.0021 33.2 4.4 39 713-753 23-61 (198)
155 PRK04266 fibrillarin; Provisio 24.7 84 0.0018 35.1 4.1 36 719-754 58-94 (226)
156 PF12861 zf-Apc11: Anaphase-pr 24.1 40 0.00087 33.4 1.3 32 290-329 35-66 (85)
157 COG2890 HemK Methylase of poly 24.1 67 0.0014 37.0 3.2 65 735-805 113-187 (280)
158 PF05413 Peptidase_C34: Putati 23.8 35 0.00077 33.6 0.9 14 667-680 42-55 (92)
159 PRK06202 hypothetical protein; 23.5 75 0.0016 34.6 3.4 38 731-768 59-96 (232)
160 KOG2272 Focal adhesion protein 23.5 41 0.00088 39.0 1.4 138 225-382 71-231 (332)
161 PRK10458 DNA cytosine methylas 23.3 3.2E+02 0.007 34.2 8.9 121 735-864 90-277 (467)
162 PLN02271 serine hydroxymethylt 23.0 49 0.0011 42.2 2.0 17 788-805 233-249 (586)
163 PF05502 Dynactin_p62: Dynacti 22.4 60 0.0013 40.3 2.7 8 371-378 85-92 (483)
164 KOG3092 Casein kinase II, beta 22.3 79 0.0017 35.7 3.2 39 377-431 108-148 (216)
165 KOG0990 Replication factor C, 22.0 61 0.0013 39.0 2.5 40 1281-1331 33-75 (360)
166 PF03107 C1_2: C1 domain; Int 21.9 81 0.0017 25.2 2.4 29 354-387 1-30 (30)
167 KOG2187 tRNA uracil-5-methyltr 21.3 2E+02 0.0044 36.5 6.6 125 695-830 342-489 (534)
168 PF13901 DUF4206: Domain of un 21.3 51 0.0011 36.3 1.6 35 355-389 154-189 (202)
169 KOG1952 Transcription factor N 21.0 42 0.0009 44.1 0.9 93 221-324 185-287 (950)
170 PF13831 PHD_2: PHD-finger; PD 21.0 32 0.00069 28.8 -0.1 20 371-390 3-22 (36)
171 PRK14904 16S rRNA methyltransf 20.8 73 0.0016 38.6 2.9 25 730-754 248-272 (445)
172 PRK10434 srlR DNA-bindng trans 20.6 2E+02 0.0043 32.6 6.0 100 602-746 5-104 (256)
173 PRK14901 16S rRNA methyltransf 20.4 72 0.0016 38.6 2.7 25 730-754 250-274 (434)
174 PF10237 N6-adenineMlase: Prob 20.4 1E+02 0.0022 33.4 3.5 47 787-835 80-128 (162)
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=99.79 E-value=2.6e-20 Score=186.26 Aligned_cols=131 Identities=31% Similarity=0.541 Sum_probs=101.4
Q ss_pred ccccccccccceEEeeccccccCCceeeeecceeecccccCCCCcceeEE----------EeecCCCCcEEEEEEEEEEe
Q 000583 7 EVEVGQKLVSDYYFEHEGERKQKEIISFSALPIQWNENERTGGCKELIYL----------RGAADSGLQKIFKPVIAWKF 76 (1407)
Q Consensus 7 e~E~~~~~V~~Y~f~d~~~~~~~~pVsFs~LPi~w~~~~~~~~~k~~vfL----------rG~~dnGlq~i~k~V~AWr~ 76 (1407)
|+|.++..|++|+|.|+ +++||+|+.||++|+++....|..+.+++ +|..++|++.++++|++|.+
T Consensus 1 ~~~~p~r~L~~f~~~d~----~~~~~~le~l~~~~~~~~~~sG~v~~~~~~~~~~~~~~~~g~~~~g~~~~l~~I~~W~i 76 (146)
T PF12047_consen 1 EDDLPMRSLDDFSFYDS----DGEPVSLELLPIEWNVDLFASGVVKPIGLWGDDEPSPKEKGVRDEGVRIRLGPIKEWWI 76 (146)
T ss_dssp -SSS-EEEEEEEEEEET----TSBB--STTSTTTTT--EEEEEEEEETT-------SSTS-SEEEEC----ES-ECEEEE
T ss_pred CCCCcceEEEEEEEEeC----CCCEEeeeeccccCCCcccceEEecccCcccccCccccccCccCCCcccceeceeEEEE
Confidence 56788899999999999 99999999999999998877887889998 89999999999999999999
Q ss_pred ecCCCcceEEEEecCCceEEeCCccch----HHHHHHHHHHhhhhhhhhccCchhhhhhHHHHhhhhcc
Q 000583 77 DLTNVIPEIFVLSKENSWIKLQKPRKC----YEEIYRTILIMVHCLSYAKRNPEATAKSIWDFLSRFFC 141 (1407)
Q Consensus 77 ~L~~~~PeIsVLs~e~~WI~L~KPrks----Yee~iRtvLITv~~LhfvKknPe~s~kslwdhL~kvFs 141 (1407)
++....|.+.+++.+.+|++|+||+++ |+.++|++.||++++|||+++|+.+..++|++|.++++
T Consensus 77 ~~~~~~~~~i~i~T~~awY~L~kPs~~Y~~~y~~~~~~~~l~~~v~~~l~~~~~~~~~s~~d~l~~v~~ 145 (146)
T PF12047_consen 77 DGGDDGPPIIWISTDYAWYRLMKPSKSYAPWYEPFLRKARLTVRVIHFLKKNPRASDLSYEDLLARVFR 145 (146)
T ss_dssp E-SSSSS-EEEEEESS-EEEE-SB-TTTHHHHCCHHHHHHHHHHHHHHHHHHT---T--HHHHHHHHHH
T ss_pred EecCCCccEEEEEECCcEEEECCccHHHHHHHHHHHHHHHHHHHHHHHHhhCcccccCCHHHHHHHHhc
Confidence 999999999999999999999999999 55688999999999999999999999999999999875
No 2
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.73 E-value=2.8e-09 Score=127.31 Aligned_cols=102 Identities=25% Similarity=0.673 Sum_probs=80.5
Q ss_pred cccccccCCCCCCCCCCCeeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCCCc-ccccCCCCCCC
Q 000583 288 HQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHK-CCICKQGENKA 366 (1407)
Q Consensus 288 HqCFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH~-C~vCkqseDkn 366 (1407)
..|++|+..|.. ....++-|. .|+.+||+.|+..+... .+. ...|+||.|+ |+.|+..+|-+
T Consensus 19 ~mc~l~~s~G~~---~ag~m~ac~--~c~~~yH~~cvt~~~~~-----------~~l-~~gWrC~~crvCe~c~~~gD~~ 81 (694)
T KOG4443|consen 19 LMCPLCGSSGKG---RAGRLLACS--DCGQKYHPYCVTSWAQH-----------AVL-SGGWRCPSCRVCEACGTTGDPK 81 (694)
T ss_pred hhhhhhcccccc---ccCcchhhh--hhcccCCcchhhHHHhH-----------HHh-cCCcccCCceeeeeccccCCcc
Confidence 379999988853 234588898 99999999999976521 111 3469999998 99999887743
Q ss_pred CCCCceeecccCCcccccCCCCCCccccccccccccccccccccCCCceeEeccCC
Q 000583 367 DSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLLPNHRILIYCLKH 422 (1407)
Q Consensus 367 ~segKLIrCdRCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~CLL~ncRILIyCpkH 422 (1407)
+++.|.+|+.+||.+|+.|+.. .++...|.| +-+.-|..|
T Consensus 82 ----kf~~Ck~cDvsyh~yc~~P~~~-------~v~sg~~~c-----kk~~~c~qc 121 (694)
T KOG4443|consen 82 ----KFLLCKRCDVSYHCYCQKPPND-------KVPSGPWLC-----KKCTRCRQC 121 (694)
T ss_pred ----cccccccccccccccccCCccc-------cccCccccc-----HHHHhhhhc
Confidence 7999999999999999999875 688899997 445566666
No 3
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=98.71 E-value=7.4e-09 Score=113.98 Aligned_cols=81 Identities=27% Similarity=0.655 Sum_probs=68.0
Q ss_pred CeeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCCCc-ccccCCCCCCCCCCCceeecccCCcccc
Q 000583 305 AEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHK-CCICKQGENKADSDLQFAVCRRCPKAYH 383 (1407)
Q Consensus 305 aELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH~-C~vCkqseDkn~segKLIrCdRCPkAYH 383 (1407)
.+++-|+ .||+.-||.||+-.. +|...| +...|+|-.|. |..|+.+++++ ||+.|+-|++.||
T Consensus 244 eelvscs--dcgrsghpsclqft~---------nm~~av-k~yrwqcieck~csicgtsendd----qllfcddcdrgyh 307 (336)
T KOG1244|consen 244 EELVSCS--DCGRSGHPSCLQFTA---------NMIAAV-KTYRWQCIECKYCSICGTSENDD----QLLFCDDCDRGYH 307 (336)
T ss_pred hhhcchh--hcCCCCCcchhhhhH---------HHHHHH-HhheeeeeecceeccccCcCCCc----eeEeecccCCcee
Confidence 4889998 999999999998653 232222 35789999887 99999998754 8999999999999
Q ss_pred cCCCCCCcccccccccccccccccc
Q 000583 384 RKCLPRKIAFEDKLEEGIITRAWEG 408 (1407)
Q Consensus 384 ~kCLPPpIsFe~~~~EgIp~RAW~C 408 (1407)
.+||.|++. .+|.+.|.|
T Consensus 308 myclsppm~-------eppegswsc 325 (336)
T KOG1244|consen 308 MYCLSPPMV-------EPPEGSWSC 325 (336)
T ss_pred eEecCCCcC-------CCCCCchhH
Confidence 999999997 678899998
No 4
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.17 E-value=1.4e-06 Score=104.71 Aligned_cols=48 Identities=25% Similarity=0.623 Sum_probs=40.2
Q ss_pred cccccCCCCCCCCCCCceeecccCCcccccCCCCCCccccccccccccccccccccCCC
Q 000583 355 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLLPNH 413 (1407)
Q Consensus 355 ~C~vCkqseDkn~segKLIrCdRCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~CLL~nc 413 (1407)
+|..|++.+.- ..+++|+.||++||.+||.||+.- +.+|.++|.| +.|
T Consensus 255 fCsaCn~~~~F----~~~i~CD~Cp~sFH~~CLePPl~~-----eniP~g~W~C--~ec 302 (613)
T KOG4299|consen 255 FCSACNGSGLF----NDIICCDGCPRSFHQTCLEPPLEP-----ENIPPGSWFC--PEC 302 (613)
T ss_pred HHHHhCCcccc----ccceeecCCchHHHHhhcCCCCCc-----ccCCCCcccc--CCC
Confidence 79999998753 357999999999999999999753 5789999997 554
No 5
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.00 E-value=2.3e-06 Score=103.24 Aligned_cols=103 Identities=23% Similarity=0.594 Sum_probs=77.0
Q ss_pred cCCccccccCCCC-----ceeeccccccccccCccccccccccccCCCChhhhcccCcccccCccccccccccccCCCCC
Q 000583 225 LFDSVCSFCDNGG-----DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQHQCFACGKLGSS 299 (1407)
Q Consensus 225 l~DdVCaIC~dGG-----eLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~gQHqCFVCGklGSS 299 (1407)
.....|.+|+..| .|+-|. .|...||.. |+++-++.+.+ ..-|.|+.|. .|..|+..|..
T Consensus 16 ~~~~mc~l~~s~G~~~ag~m~ac~-~c~~~yH~~--------cvt~~~~~~~l--~~gWrC~~cr----vCe~c~~~gD~ 80 (694)
T KOG4443|consen 16 IVCLMCPLCGSSGKGRAGRLLACS-DCGQKYHPY--------CVTSWAQHAVL--SGGWRCPSCR----VCEACGTTGDP 80 (694)
T ss_pred hhhhhhhhhccccccccCcchhhh-hhcccCCcc--------hhhHHHhHHHh--cCCcccCCce----eeeeccccCCc
Confidence 3457788888754 599999 799999999 54555554433 4569999998 69999987764
Q ss_pred CCCCCCeeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCCCc-ccccCCC
Q 000583 300 DKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHK-CCICKQG 362 (1407)
Q Consensus 300 DK~SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH~-C~vCkqs 362 (1407)
.+++.|. .|.-.||..|+.+... +|.. ..|.|+.|+ |+.|...
T Consensus 81 -----~kf~~Ck--~cDvsyh~yc~~P~~~------------~v~s-g~~~ckk~~~c~qc~~~ 124 (694)
T KOG4443|consen 81 -----KKFLLCK--RCDVSYHCYCQKPPND------------KVPS-GPWLCKKCTRCRQCDST 124 (694)
T ss_pred -----ccccccc--cccccccccccCCccc------------cccC-cccccHHHHhhhhcccc
Confidence 4788998 9999999999997653 2333 468888775 6666653
No 6
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.77 E-value=9.4e-06 Score=90.59 Aligned_cols=78 Identities=21% Similarity=0.439 Sum_probs=62.5
Q ss_pred eeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCCCc-ccccCCCCCCCCCCCceeecccCCccccc
Q 000583 306 EVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHK-CCICKQGENKADSDLQFAVCRRCPKAYHR 384 (1407)
Q Consensus 306 ELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH~-C~vCkqseDkn~segKLIrCdRCPkAYH~ 384 (1407)
.++.|. .|...|||.||..... |.. +.+...|.|-.|. |..|.++.- +..++.|++|++.||+
T Consensus 278 S~I~C~--~C~~~~HP~Ci~M~~e---------lv~-~~KTY~W~C~~C~lC~IC~~P~~----E~E~~FCD~CDRG~HT 341 (381)
T KOG1512|consen 278 SWIVCK--PCATRPHPYCVAMIPE---------LVG-QYKTYFWKCSSCELCRICLGPVI----ESEHLFCDVCDRGPHT 341 (381)
T ss_pred cceeec--ccccCCCCcchhcCHH---------HHh-HHhhcchhhcccHhhhccCCccc----chheeccccccCCCCc
Confidence 578888 9999999999997642 221 2345789999987 999999864 3469999999999999
Q ss_pred CCCCCCcccccccccccccccccc
Q 000583 385 KCLPRKIAFEDKLEEGIITRAWEG 408 (1407)
Q Consensus 385 kCLPPpIsFe~~~~EgIp~RAW~C 408 (1407)
.|+-.. .+|.+.|-|
T Consensus 342 ~CVGL~---------~lP~G~WIC 356 (381)
T KOG1512|consen 342 LCVGLQ---------DLPRGEWIC 356 (381)
T ss_pred cccccc---------cccCccchh
Confidence 997653 578899997
No 7
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=97.52 E-value=4.4e-05 Score=92.54 Aligned_cols=168 Identities=25% Similarity=0.541 Sum_probs=99.7
Q ss_pred ccccCCC-C----ceeeccc-cccccccCccccccccccccCCCChhhhcccCcccccCccccc----cccccccC-CCC
Q 000583 230 CSFCDNG-G----DLLCCEG-RCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQ----HQCFACGK-LGS 298 (1407)
Q Consensus 230 CaIC~dG-G----eLLCCDG-sC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~gQ----HqCFVCGk-lGS 298 (1407)
|.+|.+- | -||-||| .|--+.|.. | +|+- +| +.+.|||..|+..+ ..|.+|-. .|.
T Consensus 8 CCVCSDErGWaeNPLVYCDG~nCsVAVHQa--------C--YGIv--qV-PtGpWfCrKCesqeraarvrCeLCP~kdGA 74 (900)
T KOG0956|consen 8 CCVCSDERGWAENPLVYCDGHNCSVAVHQA--------C--YGIV--QV-PTGPWFCRKCESQERAARVRCELCPHKDGA 74 (900)
T ss_pred eeeecCcCCCccCceeeecCCCceeeeehh--------c--ceeE--ec-CCCchhhhhhhhhhhhccceeecccCcccc
Confidence 8899873 2 4999997 499999998 5 7774 34 68999999998653 57999943 332
Q ss_pred CCCCCCCeeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCC----CcccccCCCCCC-CCCCCcee
Q 000583 299 SDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPL----HKCCICKQGENK-ADSDLQFA 373 (1407)
Q Consensus 299 SDK~SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPl----H~C~vCkqseDk-n~segKLI 373 (1407)
|.+= .-+-|-|.-|.-+.++... ..+.-||.-|.. .-|. -.|.+|.+.+.. +...+..+
T Consensus 75 --------LKkT---Dn~GWAHVVCALYIPEVrF-gNV~TMEPIiLq----~VP~dRfnKtCYIC~E~GrpnkA~~GACM 138 (900)
T KOG0956|consen 75 --------LKKT---DNGGWAHVVCALYIPEVRF-GNVHTMEPIILQ----DVPHDRFNKTCYICNEEGRPNKAAKGACM 138 (900)
T ss_pred --------eecc---cCCCceEEEEEeeccceee-cccccccceeec----cCchhhhcceeeeecccCCccccccccce
Confidence 2222 3455677778766543210 000111110100 0121 249999987532 34567788
Q ss_pred ecc--cCCcccccCCCCCCccccccccccccccccccccCCCceeEeccCCcccccCCCCCCccc
Q 000583 374 VCR--RCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLLPNHRILIYCLKHEIDDEIGTPIRDHI 436 (1407)
Q Consensus 374 rCd--RCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~CLL~ncRILIyCpkHeID~lLgTP~RdHI 436 (1407)
.|- .|-.+||..|.-.. -.+|. +++.. +.|-+-|-||-.| +.+++..|.-.-|
T Consensus 139 tCNKs~CkqaFHVTCAQ~~-GLLCE-E~gn~-------~dNVKYCGYCk~H-fsKlkk~~~~k~i 193 (900)
T KOG0956|consen 139 TCNKSGCKQAFHVTCAQRA-GLLCE-EEGNI-------SDNVKYCGYCKYH-FSKLKKSPAIKVI 193 (900)
T ss_pred ecccccchhhhhhhHhhhh-cccee-ccccc-------cccceechhHHHH-HHHhhcCCCcccC
Confidence 884 69999999997642 12221 22222 2333557789888 6665555544443
No 8
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.42 E-value=3.9e-05 Score=92.72 Aligned_cols=54 Identities=35% Similarity=0.808 Sum_probs=41.2
Q ss_pred cccCCccccccCCCCce---eeccccccccccCccccccccccccCCCChhhhcccCcccccCcccc
Q 000583 223 DELFDSVCSFCDNGGDL---LCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYK 286 (1407)
Q Consensus 223 dDl~DdVCaIC~dGGeL---LCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~g 286 (1407)
.....++|+.|.+.|.. +|||| |+++||+.|++ +.+....+ +.+.|+|++|..+
T Consensus 249 ~~~~~~fCsaCn~~~~F~~~i~CD~-Cp~sFH~~CLe--------PPl~~eni-P~g~W~C~ec~~k 305 (613)
T KOG4299|consen 249 VEDIEDFCSACNGSGLFNDIICCDG-CPRSFHQTCLE--------PPLEPENI-PPGSWFCPECKIK 305 (613)
T ss_pred cCCHHHHHHHhCCccccccceeecC-CchHHHHhhcC--------CCCCcccC-CCCccccCCCeee
Confidence 33346799999998865 99996 99999999765 34433333 5789999999854
No 9
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.41 E-value=7.3e-05 Score=83.74 Aligned_cols=82 Identities=18% Similarity=0.258 Sum_probs=64.4
Q ss_pred cCCccccccCCC---------CceeeccccccccccCccccccccccccCCCChhhhc--ccCcccccCccccccccccc
Q 000583 225 LFDSVCSFCDNG---------GDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVE--AMLNFFCKNCEYKQHQCFAC 293 (1407)
Q Consensus 225 l~DdVCaIC~dG---------GeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvq--p~~~W~CpnCe~gQHqCFVC 293 (1407)
.....|.+|-++ ..++||. .|..++|+.|+ .++.+.+. ..-.|.|.+|. .|.+|
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-PCATRPHPYCV----------AMIPELVGQYKTYFWKCSSCE----LCRIC 320 (381)
T ss_pred cchhhhhhhhcchhhhhhhhhccceeec-ccccCCCCcch----------hcCHHHHhHHhhcchhhcccH----hhhcc
Confidence 456789999875 2599999 79999999964 34443221 35689999998 69999
Q ss_pred cCCCCCCCCCCCeeeecCCCCCCCCCccccccccc
Q 000583 294 GKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 328 (1407)
Q Consensus 294 GklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll 328 (1407)
+++... .+++.|+ .|.+-||..|+....
T Consensus 321 ~~P~~E-----~E~~FCD--~CDRG~HT~CVGL~~ 348 (381)
T KOG1512|consen 321 LGPVIE-----SEHLFCD--VCDRGPHTLCVGLQD 348 (381)
T ss_pred CCcccc-----hheeccc--cccCCCCcccccccc
Confidence 998643 5889999 999999999999654
No 10
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=97.38 E-value=5.5e-05 Score=89.15 Aligned_cols=89 Identities=28% Similarity=0.693 Sum_probs=64.6
Q ss_pred cCCccccccCCC-----CceeeccccccccccCccccccccccccCCCChhhhcccCcccccCccccccc---cccccCC
Q 000583 225 LFDSVCSFCDNG-----GDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQHQ---CFACGKL 296 (1407)
Q Consensus 225 l~DdVCaIC~dG-----GeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~gQHq---CFVCGkl 296 (1407)
.+|+.|.+|... ..++.|+| |.-+.|.. | .|+.- -+.+.|+|..|.++.++ |.-|-..
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-CEICVHQS--------C--YGIQF---LPEGFWLCRKCIYGEYQIRCCSFCPSS 256 (669)
T ss_pred hhhhhhHhccccccCCcceEEEecC-cchhhhhh--------c--cccee---cCcchhhhhhhcccccceeEEEeccCC
Confidence 457899999864 46999996 99999998 5 67642 36789999999887553 6666322
Q ss_pred CC-C----C--------------------------------------------CCCCCeeeecCCCCCCCCCcccccccc
Q 000583 297 GS-S----D--------------------------------------------KETGAEVFPCVSATCGHFYHPHCVSKL 327 (1407)
Q Consensus 297 GS-S----D--------------------------------------------K~SGaELfrCsvasCGRFYHpkCLa~l 327 (1407)
.. . + +..++--++|...+|.+.||..|....
T Consensus 257 dGaFkqT~dgrW~H~iCA~~~pelsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~GtcIqCs~~nC~~aYHVtCArra 336 (669)
T COG5141 257 DGAFKQTSDGRWGHVICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYHVTCARRA 336 (669)
T ss_pred CCceeeccCCchHhHhHHHhcchhccccccccchhhhhcccchhhHhheeeEEcccCcceeeecccchhhhhhhhhhhhc
Confidence 11 0 0 012345689999999999999998754
No 11
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.33 E-value=0.00015 Score=92.68 Aligned_cols=135 Identities=24% Similarity=0.513 Sum_probs=85.4
Q ss_pred cCCccccccCCC-----CceeeccccccccccCccccccccccccCCCChhhhcccCcccccCcccccc---ccccccCC
Q 000583 225 LFDSVCSFCDNG-----GDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQH---QCFACGKL 296 (1407)
Q Consensus 225 l~DdVCaIC~dG-----GeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~gQH---qCFVCGkl 296 (1407)
..|.+|.+|.++ ..+|.||+ |.-++|.. | +|.+. .+.+.|+|..|...++ .|..|-..
T Consensus 217 ~~D~~C~iC~~~~~~n~n~ivfCD~-Cnl~VHq~--------C--ygi~~---ipeg~WlCr~Cl~s~~~~v~c~~cp~~ 282 (1051)
T KOG0955|consen 217 EEDAVCCICLDGECQNSNVIVFCDG-CNLAVHQE--------C--YGIPF---IPEGQWLCRRCLQSPQRPVRCLLCPSK 282 (1051)
T ss_pred CCCccceeecccccCCCceEEEcCC-Ccchhhhh--------c--cCCCC---CCCCcEeehhhccCcCcccceEeccCC
Confidence 457999999986 36999995 99999999 5 56432 2678999999987653 68888665
Q ss_pred CCCCCCCCCeeeecCCCCCCCCCcccccccccccchHHHHHHHh-----HhhccCCceeCCCCcccccCCCCCCCCCCCc
Q 000583 297 GSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLA-----KSIIAGESFTCPLHKCCICKQGENKADSDLQ 371 (1407)
Q Consensus 297 GSSDK~SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLe-----krIaaG~sFrCPlH~C~vCkqseDkn~segK 371 (1407)
|.. |+=. .=|++-|.-|.-..++...... ..++ ..+.. ..|. -.|..|+.... +.
T Consensus 283 ~gA--------Fkqt--~dgrw~Hv~caiwipev~F~nt-~~~E~I~~i~~i~~-aRwk---L~cy~cK~~~~-----ga 342 (1051)
T KOG0955|consen 283 GGA--------FKQT--DDGRWAHVVCAIWIPEVSFANT-VFLEPIDSIENIPP-ARWK---LTCYICKQKGL-----GA 342 (1051)
T ss_pred CCc--------ceec--cCCceeeeehhhcccccccccc-hhhccccchhcCcH-hhhh---ceeeeeccCCC-----Cc
Confidence 431 1111 3567777777765432210000 0000 00110 0122 24999998762 35
Q ss_pred eeec--ccCCcccccCCCC-CCccc
Q 000583 372 FAVC--RRCPKAYHRKCLP-RKIAF 393 (1407)
Q Consensus 372 LIrC--dRCPkAYH~kCLP-PpIsF 393 (1407)
.++| .+|-.|||..|-- +++.+
T Consensus 343 ciqcs~~~c~~a~hvtca~~agl~m 367 (1051)
T KOG0955|consen 343 CIQCSKANCYTAFHVTCARRAGLYM 367 (1051)
T ss_pred ceecchhhhhhhhhhhhHhhcCceE
Confidence 8999 4899999999964 45544
No 12
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=97.30 E-value=0.00013 Score=89.17 Aligned_cols=134 Identities=21% Similarity=0.491 Sum_probs=88.4
Q ss_pred CCccccccCCC-----CceeeccccccccccCccccccccccccCCCChhhhcccCcccccCccccc-cccccccCCCCC
Q 000583 226 FDSVCSFCDNG-----GDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQ-HQCFACGKLGSS 299 (1407)
Q Consensus 226 ~DdVCaIC~dG-----GeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~gQ-HqCFVCGklGSS 299 (1407)
.+.+|.+|..+ .+|++|+ .|.-..|.. | +|+.+. +.+.|+|.-|..+. ..|.+|-+.|..
T Consensus 270 edviCDvCrspD~e~~neMVfCd-~Cn~cVHqa--------C--yGIle~---p~gpWlCr~Calg~~ppCvLCPkkGGa 335 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCD-KCNICVHQA--------C--YGILEV---PEGPWLCRTCALGIEPPCVLCPKKGGA 335 (893)
T ss_pred ccceeceecCCCccccceeEEec-cchhHHHHh--------h--hceeec---CCCCeeehhccccCCCCeeeccccCCc
Confidence 57889999876 4899999 799999999 5 677542 56899999998874 479999887754
Q ss_pred CCCCCCeeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhccC-----CceeCCCCcccccCCCCCCCCCCCceee
Q 000583 300 DKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAG-----ESFTCPLHKCCICKQGENKADSDLQFAV 374 (1407)
Q Consensus 300 DK~SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG-----~sFrCPlH~C~vCkqseDkn~segKLIr 374 (1407)
.+.+ ..=.+|-|..|.-..++-.++. .+..+-|.+- ..|. -.|..|+... +..|+
T Consensus 336 mK~~---------~sgT~wAHvsCALwIPEVsie~--~ekmePItkfs~IpesRws---lvC~LCk~k~------GACIq 395 (893)
T KOG0954|consen 336 MKPT---------KSGTKWAHVSCALWIPEVSIEC--PEKMEPITKFSHIPESRWS---LVCNLCKVKS------GACIQ 395 (893)
T ss_pred cccc---------CCCCeeeEeeeeeccceeeccC--HhhcCcccccCCCcHHHHH---HHHHHhcccC------cceEE
Confidence 3311 1334888999987655432211 1111112211 1111 1389997653 35777
Q ss_pred cc--cCCcccccCCCC-CCccc
Q 000583 375 CR--RCPKAYHRKCLP-RKIAF 393 (1407)
Q Consensus 375 Cd--RCPkAYH~kCLP-PpIsF 393 (1407)
|- .|-.+||..|.. +++.+
T Consensus 396 Cs~k~C~t~fHv~CA~~aG~~~ 417 (893)
T KOG0954|consen 396 CSNKTCRTAFHVTCAFEAGLEM 417 (893)
T ss_pred ecccchhhhccchhhhhcCCee
Confidence 74 799999999975 34433
No 13
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=97.25 E-value=0.00015 Score=81.09 Aligned_cols=81 Identities=27% Similarity=0.617 Sum_probs=63.1
Q ss_pred cCCccccccCCC----------CceeeccccccccccCccccccccccccCCCChh---hhcccCcccccCccccccccc
Q 000583 225 LFDSVCSFCDNG----------GDLLCCEGRCLRSFHATIDAGEESHCASLGLTKD---EVEAMLNFFCKNCEYKQHQCF 291 (1407)
Q Consensus 225 l~DdVCaIC~dG----------GeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTea---Evqp~~~W~CpnCe~gQHqCF 291 (1407)
+...+|.+|-.+ .+|+.|. -|.|+=|+.|+ -+|.. .| ..-+|.|.+|. .|.
T Consensus 222 ~Pn~YCDFclgdsr~nkkt~~peelvscs-dcgrsghpscl----------qft~nm~~av-k~yrwqcieck----~cs 285 (336)
T KOG1244|consen 222 QPNPYCDFCLGDSRENKKTGMPEELVSCS-DCGRSGHPSCL----------QFTANMIAAV-KTYRWQCIECK----YCS 285 (336)
T ss_pred cCCcccceeccccccccccCCchhhcchh-hcCCCCCcchh----------hhhHHHHHHH-Hhheeeeeecc----eec
Confidence 456789999643 2799999 69999999954 34431 12 35789999998 499
Q ss_pred cccCCCCCCCCCCCeeeecCCCCCCCCCccccccccc
Q 000583 292 ACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 328 (1407)
Q Consensus 292 VCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll 328 (1407)
+||-... ..+++.|+ .|.+-||-.||.+..
T Consensus 286 icgtsen-----ddqllfcd--dcdrgyhmyclsppm 315 (336)
T KOG1244|consen 286 ICGTSEN-----DDQLLFCD--DCDRGYHMYCLSPPM 315 (336)
T ss_pred cccCcCC-----CceeEeec--ccCCceeeEecCCCc
Confidence 9987653 35899999 999999999999765
No 14
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=97.22 E-value=0.00026 Score=78.36 Aligned_cols=152 Identities=22% Similarity=0.302 Sum_probs=92.4
Q ss_pred cccCcccc-hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhh-hCCccccccccccCC---CCCccccccc
Q 000583 707 TSFGRHFT-KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCLYKNYDILPA---KNDFNFEKRD 781 (1407)
Q Consensus 707 ts~grhft-k~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~-~gk~c~~kn~dl~~~---kn~f~Fe~~d 781 (1407)
.+||.||. ...-+..|++.+. +.+|++|+|+.||.-.++..+-++... ++.+..-.-.+.... ...+++...|
T Consensus 18 k~~gq~fl~~~~i~~~i~~~l~--~~~~~~VLEiG~G~G~lt~~L~~~~~~v~avE~d~~~~~~~~~~~~~~~v~~i~~D 95 (272)
T PRK00274 18 KSLGQNFLIDENILDKIVDAAG--PQPGDNVLEIGPGLGALTEPLLERAAKVTAVEIDRDLAPILAETFAEDNLTIIEGD 95 (272)
T ss_pred cccCcCcCCCHHHHHHHHHhcC--CCCcCeEEEeCCCccHHHHHHHHhCCcEEEEECCHHHHHHHHHhhccCceEEEECh
Confidence 37999995 4556677888774 478999999999999999888664210 011111111111110 1457788888
Q ss_pred cccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhcc--CCcEEEEecCCcc-ccccccCC--Cc---ee------e
Q 000583 782 WMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEF--NPKLLILIVPPET-ERLDRKES--AY---EL------V 847 (1407)
Q Consensus 782 w~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~f--~Pkliili~P~~t-~rld~k~~--~Y---~l------i 847 (1407)
+.++...++. ..+|+| ||||.+- ..+|.+.|.. ...-++|++..|. +||=.++. -| .+ -
T Consensus 96 ~~~~~~~~~~--~~~vv~-NlPY~is----s~ii~~~l~~~~~~~~~~l~~QkE~A~Rl~a~pg~~~y~~lSv~~~~~~~ 168 (272)
T PRK00274 96 ALKVDLSELQ--PLKVVA-NLPYNIT----TPLLFHLLEERDPIRDMVVMVQKEVAERIVAKPGSKAYGRLSVLVQYYCD 168 (272)
T ss_pred hhcCCHHHcC--cceEEE-eCCccch----HHHHHHHHhcCCCCCeeEEEeHHHHHHHHcCCCCCccccHHHHHHHHHcc
Confidence 8887665543 457888 9999954 4555555543 3456889999887 67743321 12 11 1
Q ss_pred eccccccCCcceecCCCccc
Q 000583 848 WEDDQFLSGKSFYLPGSVDE 867 (1407)
Q Consensus 848 wed~~~l~gksFylPGsvd~ 867 (1407)
++--.-+..++||=|--||.
T Consensus 169 ~~~~~~v~~~~F~P~PkV~s 188 (272)
T PRK00274 169 VEKVFDVPPSAFVPPPKVDS 188 (272)
T ss_pred eEEEEEeChhhCCCCCCceE
Confidence 22223445677777666663
No 15
>PHA03412 putative methyltransferase; Provisional
Probab=97.08 E-value=0.0011 Score=73.79 Aligned_cols=172 Identities=17% Similarity=0.295 Sum_probs=92.1
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhh------CCccccccccccCCCC--Cccccc
Q 000583 708 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET------GKNCLYKNYDILPAKN--DFNFEK 779 (1407)
Q Consensus 708 s~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~------gk~c~~kn~dl~~~kn--~f~Fe~ 779 (1407)
..|.+||-..-.+.++ .|.. .+..|||+|||+-.|+.+|.++..+. +.+..-....+.. +| ...|..
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 5688999887555554 2333 47899999999999999887653211 1111111111111 11 123333
Q ss_pred cccccccCCCCCCCCeeeeeeCCCccchh-----------hhHHHHHHhhhccCCcEEEEecCCccccccccCCCceeee
Q 000583 780 RDWMTVEPKELAPGSRLIMGLNPPFGVKA-----------GLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVW 848 (1407)
Q Consensus 780 ~dw~~v~~~elp~G~~LimgLnPPfg~~a-----------~lAnkFi~kal~f~Pkliili~P~~t~rld~k~~~Y~liw 848 (1407)
.|.+... +..-=-|||+ ||||+.-+ .+.++||.+|+..-|.=. ||+|.-.--.+---.+| +
T Consensus 104 ~D~~~~~---~~~~FDlIIs-NPPY~~~~~~d~~ar~~g~~~~~~li~~A~~Ll~~G~-~ILP~~~~~~~y~~~~~---~ 175 (241)
T PHA03412 104 ADALTTE---FDTLFDMAIS-NPPFGKIKTSDFKGKYTGAEFEYKVIERASQIARQGT-FIIPQMSANFRYSGTHY---F 175 (241)
T ss_pred cchhccc---ccCCccEEEE-CCCCCCccccccCCcccccHHHHHHHHHHHHHcCCCE-EEeCcccccCcccCccc---e
Confidence 3433322 1111238888 99999322 457889999998765554 49998765333222222 2
Q ss_pred ccccccCCcce----------ecCCC-cccchhhhcccccCCCCeeeeecchhHHHH
Q 000583 849 EDDQFLSGKSF----------YLPGS-VDENDKQMDQWNMTAPPLYLWSRHDYAAHH 894 (1407)
Q Consensus 849 ed~~~l~gksF----------ylPGs-vd~ndk~~eqwn~~pP~l~lWsr~d~~~~h 894 (1407)
+...-..|+-+ ..||- || -.--+++|.-+-|..- -+.-|+++..
T Consensus 176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~ 230 (241)
T PHA03412 176 RQDESTTSSKCKKFLDETGLEMNPGCGID-TGYYLEDWKGVKPLCE-VVCMEFNEPE 230 (241)
T ss_pred eeccCcccHHHHHHHHhcCeeecCCCCcc-ceeehhhccCCCccce-EEEEeecCcC
Confidence 22222233322 23553 33 2234578887766433 3555665544
No 16
>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=97.02 E-value=0.00024 Score=60.05 Aligned_cols=47 Identities=26% Similarity=0.711 Sum_probs=33.6
Q ss_pred cccccCC---CCceeeccccccccccCccccccccccccCCCChhhhcccCcccccCccc
Q 000583 229 VCSFCDN---GGDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEY 285 (1407)
Q Consensus 229 VCaIC~d---GGeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~ 285 (1407)
+|.+|++ .+++|.|+ .|.++||..|+ .+..+.... ....|+|++|..
T Consensus 1 ~C~vC~~~~~~~~~i~C~-~C~~~~H~~C~--------~~~~~~~~~-~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCD-SCNRWYHQECV--------GPPEKAEEI-PSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBS-TTSCEEETTTS--------TSSHSHHSH-HSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcC-CCChhhCcccC--------CCChhhccC-CCCcEECcCCcC
Confidence 5888987 56899999 69999999943 333332222 234999999864
No 17
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=96.88 E-value=0.00069 Score=84.05 Aligned_cols=92 Identities=27% Similarity=0.537 Sum_probs=65.1
Q ss_pred CCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCCC--------------------cccccCCCCCCCCCCCcee
Q 000583 314 TCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLH--------------------KCCICKQGENKADSDLQFA 373 (1407)
Q Consensus 314 sCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH--------------------~C~vCkqseDkn~segKLI 373 (1407)
.|.|.||..|+.+.... .....|.||.| .|..|+..+ .++
T Consensus 1 ~~~r~~~~~~~~p~~~~-------------~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~~g-------~~l 60 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLKE-------------EPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICADGG-------ELL 60 (696)
T ss_pred CCCcccCcCCCCccccc-------------CCcCCccCcchhhcccccccccCCcchhhhhhhhhhcCCC-------cEE
Confidence 48999999999965421 11346888743 399998776 488
Q ss_pred ecccCCcccccCCCCCCccccccccccccccccccccCCCceeEeccCC--cccccCCCCCCccccCC
Q 000583 374 VCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLLPNHRILIYCLKH--EIDDEIGTPIRDHIIFP 439 (1407)
Q Consensus 374 rCdRCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~CLL~ncRILIyCpkH--eID~lLgTP~RdHIkFP 439 (1407)
.|+.||.+||.+|+.+++. ..++..|.| + | | .|+.+ .+.+ ++.+++.-..+|
T Consensus 61 ~c~tC~~s~h~~cl~~pl~-------~~p~~~~~c--~--R-c-~~p~~~~k~~~-il~~~~~~~~~~ 114 (696)
T KOG0383|consen 61 WCDTCPASFHASCLGPPLT-------PQPNGEFIC--P--R-C-FCPKNAGKIEK-ILGWRWKPTPKP 114 (696)
T ss_pred EeccccHHHHHHccCCCCC-------cCCccceee--e--e-e-ccCCCcccccc-cceeEecCCCCc
Confidence 8999999999999988875 455666887 3 3 3 67766 4443 556666666666
No 18
>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=96.86 E-value=0.0015 Score=72.70 Aligned_cols=124 Identities=24% Similarity=0.379 Sum_probs=63.5
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhh---CCccccccccc-------------cCC
Q 000583 708 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET---GKNCLYKNYDI-------------LPA 771 (1407)
Q Consensus 708 s~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~---gk~c~~kn~dl-------------~~~ 771 (1407)
+.|.+||-.+-.+-+++.| =.+++++|+|+|||+-.|.--..+.+.+. .+...+==.|+ +..
T Consensus 24 ~~G~~~TP~~i~~l~~~~~--~~~~~~~VlDPacGsG~fL~~~~~~i~~~~~~~~~~~i~G~ei~~~~~~la~~nl~l~~ 101 (311)
T PF02384_consen 24 KLGQFYTPREIVDLMVKLL--NPKKGDSVLDPACGSGGFLVAAMEYIKEKRNKIKEINIYGIEIDPEAVALAKLNLLLHG 101 (311)
T ss_dssp SCGGC---HHHHHHHHHHH--TT-TTEEEEETT-TTSHHHHHHHHHHHTCHHHHCCEEEEEEES-HHHHHHHHHHHHHTT
T ss_pred ccceeehHHHHHHHHHhhh--hccccceeechhhhHHHHHHHHHHhhcccccccccceeEeecCcHHHHHHHHhhhhhhc
Confidence 5788999888777777777 55678899999999999965554433110 01111000111 000
Q ss_pred --CCCccccccccccccCCCCCCCCeeeeeeCCCccchh--------------------hhHHHHHHhhhccCCc--EEE
Q 000583 772 --KNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKA--------------------GLANKFINKALEFNPK--LLI 827 (1407)
Q Consensus 772 --kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a--------------------~lAnkFi~kal~f~Pk--lii 827 (1407)
.+.+++...|++.-....-..-=-+|+| |||||.+. ..-.-||.+++.+=-+ .++
T Consensus 102 ~~~~~~~i~~~d~l~~~~~~~~~~~D~ii~-NPPf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fi~~~l~~Lk~~G~~~ 180 (311)
T PF02384_consen 102 IDNSNINIIQGDSLENDKFIKNQKFDVIIG-NPPFGSKEWKDEELEKDERFKKYFPPKSNAEYAFIEHALSLLKPGGRAA 180 (311)
T ss_dssp HHCBGCEEEES-TTTSHSCTST--EEEEEE-E--CTCES-STGGGCTTCCCTTCSSSTTEHHHHHHHHHHHTEEEEEEEE
T ss_pred cccccccccccccccccccccccccccccC-CCCccccccccccccccccccccCCCccchhhhhHHHHHhhccccccee
Confidence 1112244445443322211122337888 99999881 1112499999876522 678
Q ss_pred EecCCcc
Q 000583 828 LIVPPET 834 (1407)
Q Consensus 828 li~P~~t 834 (1407)
+|+|...
T Consensus 181 ~Ilp~~~ 187 (311)
T PF02384_consen 181 IILPNGF 187 (311)
T ss_dssp EEEEHHH
T ss_pred EEecchh
Confidence 8888754
No 19
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=96.80 E-value=0.00066 Score=86.14 Aligned_cols=130 Identities=25% Similarity=0.425 Sum_probs=76.2
Q ss_pred cccccCCccccccCCCCceeeccccccccccCccccccccccccCCCChhhhcccCcccccCccccccccccccCCCCCC
Q 000583 221 EEDELFDSVCSFCDNGGDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQHQCFACGKLGSSD 300 (1407)
Q Consensus 221 e~dDl~DdVCaIC~dGGeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~gQHqCFVCGklGSSD 300 (1407)
|.....++.|.+|.+.|+++||+ .|+|.||+.|+.... | . .+...|-|.- |-+|+..|..+
T Consensus 338 e~~~~~ddhcrf~~d~~~~lc~E-t~prvvhlEcv~hP~--~--------~-~~s~~~e~ev-------c~~hkvngvvd 398 (1414)
T KOG1473|consen 338 EGEIEYDDHCRFCHDLGDLLCCE-TCPRVVHLECVFHPR--F--------A-VPSAFWECEV-------CNIHKVNGVVD 398 (1414)
T ss_pred ccceeecccccccCcccceeecc-cCCceEEeeecCCcc--c--------c-CCCccchhhh-------hhhhccCcccc
Confidence 33556789999999999999999 899999999765322 1 1 1356787764 44565554321
Q ss_pred CC----CCCeeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCCCcccccCCCCCCCCCCCceeecc
Q 000583 301 KE----TGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHKCCICKQGENKADSDLQFAVCR 376 (1407)
Q Consensus 301 K~----SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH~C~vCkqseDkn~segKLIrCd 376 (1407)
-. .....++|. .=|+- ..++..-=-.-.|.+|.+.+ .++-|.
T Consensus 399 ~vl~~~K~~~~iR~~--~iG~d-------------------------r~gr~ywfi~rrl~Ie~~de-------t~l~yy 444 (1414)
T KOG1473|consen 399 CVLPPSKNVDSIRHT--PIGRD-------------------------RYGRKYWFISRRLRIEGMDE-------TLLWYY 444 (1414)
T ss_pred cccChhhcccceecc--CCCcC-------------------------ccccchhceeeeeEEecCCC-------cEEEEe
Confidence 00 001112332 11100 01111111123488898654 578887
Q ss_pred c-CCccccc-CCCCCCcccccccccccccccccc
Q 000583 377 R-CPKAYHR-KCLPRKIAFEDKLEEGIITRAWEG 408 (1407)
Q Consensus 377 R-CPkAYH~-kCLPPpIsFe~~~~EgIp~RAW~C 408 (1407)
- ||.+||. .||+...- +..+...-|.|
T Consensus 445 sT~pqly~ll~cLd~~~~-----e~~L~d~i~~~ 473 (1414)
T KOG1473|consen 445 STCPQLYHLLRCLDRTYV-----EMYLCDGIWER 473 (1414)
T ss_pred cCcHHHHHHHHHhchHHH-----HHhhccchhhh
Confidence 6 9999999 99997532 12344555665
No 20
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=96.79 E-value=0.00049 Score=77.21 Aligned_cols=47 Identities=26% Similarity=0.672 Sum_probs=37.2
Q ss_pred cCCccccccCCCCceeeccc-ccc-ccccCccccccccccccCCCChhhhcccCcccccCccc
Q 000583 225 LFDSVCSFCDNGGDLLCCEG-RCL-RSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEY 285 (1407)
Q Consensus 225 l~DdVCaIC~dGGeLLCCDG-sC~-RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~ 285 (1407)
..-.+|. |..+|+++-||+ .|+ .|||+. | .||+. +|.+.|||+.|..
T Consensus 219 ~~yC~Cn-qvsyg~Mi~CDn~~C~~eWFH~~--------C--VGL~~---~PkgkWyC~~C~~ 267 (274)
T KOG1973|consen 219 PTYCICN-QVSYGKMIGCDNPGCPIEWFHFT--------C--VGLKT---KPKGKWYCPRCKA 267 (274)
T ss_pred CEEEEec-ccccccccccCCCCCCcceEEEe--------c--ccccc---CCCCcccchhhhh
Confidence 3357788 888999999994 399 999999 5 56764 3578899999964
No 21
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=96.73 E-value=0.00084 Score=74.78 Aligned_cols=45 Identities=31% Similarity=0.949 Sum_probs=34.2
Q ss_pred CccccccCC--CCceeeccc-cccc-cccCccccccccccccCCCChhhhcccCcccccCccc
Q 000583 227 DSVCSFCDN--GGDLLCCEG-RCLR-SFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEY 285 (1407)
Q Consensus 227 DdVCaIC~d--GGeLLCCDG-sC~R-SFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~ 285 (1407)
..+| +|.+ .|++|-||| .|.| |||+. | +|+.. +|.+.|||++|+.
T Consensus 221 ~lYC-fCqqvSyGqMVaCDn~nCkrEWFH~~--------C--VGLk~---pPKG~WYC~eCk~ 269 (271)
T COG5034 221 ELYC-FCQQVSYGQMVACDNANCKREWFHLE--------C--VGLKE---PPKGKWYCPECKK 269 (271)
T ss_pred eeEE-EecccccccceecCCCCCchhheecc--------c--cccCC---CCCCcEeCHHhHh
Confidence 4566 4887 589999996 4865 99999 5 45543 3679999999973
No 22
>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=96.65 E-value=0.0041 Score=74.68 Aligned_cols=49 Identities=31% Similarity=0.513 Sum_probs=40.4
Q ss_pred ccCcccchhhhHHHHHHhhccccc-----CCCcEEeccCCcchHHHHHHHHHhh
Q 000583 708 SFGRHFTKVDKLQAIVDKLHWYVN-----DGDMIVDFCCGANDFSCLMKKKLDE 756 (1407)
Q Consensus 708 s~grhftk~ekl~~i~~~Lh~yv~-----~gd~ivdfccg~n~fs~lmk~kl~~ 756 (1407)
++|.+||-..-.+.+++.+.-+.. .+.+|+|+|||+-.|..-+-+++.+
T Consensus 2 ~~GqfyTP~~ia~~mv~~~~~~~~~~~~~~~~~ilDP~cGsG~fl~~~~~~~~~ 55 (524)
T TIGR02987 2 AYGTFFTPPDIAKAMVANLVNEIGKNDKSTKTKIIDPCCGDGRLIAALLKKNEE 55 (524)
T ss_pred CCcccCCcHHHHHHHHHHHhhhcchhhcccceEEEeCCCCccHHHHHHHHHHHh
Confidence 579999999999999998865543 3458999999999999888777754
No 23
>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 KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.58 E-value=0.002 Score=79.74 Aligned_cols=44 Identities=27% Similarity=0.616 Sum_probs=36.7
Q ss_pred CcccccCCCCCCCCCCCceeecccCCcc-cccCCCCCCcccccccccccccccccc
Q 000583 354 HKCCICKQGENKADSDLQFAVCRRCPKA-YHRKCLPRKIAFEDKLEEGIITRAWEG 408 (1407)
Q Consensus 354 H~C~vCkqseDkn~segKLIrCdRCPkA-YH~kCLPPpIsFe~~~~EgIp~RAW~C 408 (1407)
+.|..|..... +.-|+.|+-|..+ ||.+||++++. +++...|-|
T Consensus 216 ~~C~IC~~~Dp----EdVLLLCDsCN~~~YH~YCLDPdl~-------eiP~~eWYC 260 (1134)
T KOG0825|consen 216 VKCDICTVHDP----EDVLLLCDSCNKVYYHVYCLDPDLS-------ESPVNEWYC 260 (1134)
T ss_pred ccceeeccCCh----HHhheeecccccceeeccccCcccc-------cccccceec
Confidence 56999998864 4469999999999 99999999874 567778876
No 25
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=96.43 E-value=0.0069 Score=66.23 Aligned_cols=148 Identities=22% Similarity=0.343 Sum_probs=91.7
Q ss_pred ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhhCCccc-c-ccccc-------cCCCCCccc
Q 000583 708 SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCL-Y-KNYDI-------LPAKNDFNF 777 (1407)
Q Consensus 708 s~grhf-tk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~-~-kn~dl-------~~~kn~f~F 777 (1407)
+||-|| +...-+.+|++.+. +.++++|+|+.||.-.++..|.++.. ... + .|-++ +.....+.+
T Consensus 6 ~~gq~fl~d~~i~~~i~~~~~--~~~~~~VLEiG~G~G~lt~~L~~~~~----~v~~iE~d~~~~~~l~~~~~~~~~v~v 79 (253)
T TIGR00755 6 SLGQNFLIDESVIQKIVEAAN--VLEGDVVLEIGPGLGALTEPLLKRAK----KVTAIEIDPRLAEILRKLLSLYERLEV 79 (253)
T ss_pred CCCCccCCCHHHHHHHHHhcC--CCCcCEEEEeCCCCCHHHHHHHHhCC----cEEEEECCHHHHHHHHHHhCcCCcEEE
Confidence 689999 66777888888875 36899999999999999999966431 111 0 00000 111234556
Q ss_pred cccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhh-ccCCcEEEEecCCc-ccccccc-----CCCceeee--
Q 000583 778 EKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKAL-EFNPKLLILIVPPE-TERLDRK-----ESAYELVW-- 848 (1407)
Q Consensus 778 e~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal-~f~Pkliili~P~~-t~rld~k-----~~~Y~liw-- 848 (1407)
...|.+.+...++.. ..+|+| |+||.+ +..++.+.| ...+..++|++..| .+||=.+ .....+++
T Consensus 80 ~~~D~~~~~~~~~d~-~~~vvs-NlPy~i----~~~il~~ll~~~~~~~~~~~~q~e~a~Rl~a~pg~~~y~~lsv~~~~ 153 (253)
T TIGR00755 80 IEGDALKVDLPDFPK-QLKVVS-NLPYNI----SSPLIFKLLEKPKFRLAVLMVQKEVAERLTAKPGSKDYGRLSVLVQY 153 (253)
T ss_pred EECchhcCChhHcCC-cceEEE-cCChhh----HHHHHHHHhccCCCceEEEEehHHHHHHHccCCCCCcccHHHHHHHH
Confidence 666666655443321 247888 999994 555555555 67778899999888 3444322 11111111
Q ss_pred ----ccccccCCcceecCCCccc
Q 000583 849 ----EDDQFLSGKSFYLPGSVDE 867 (1407)
Q Consensus 849 ----ed~~~l~gksFylPGsvd~ 867 (1407)
+--.-+...+||-|--||.
T Consensus 154 ~~~~~~~~~v~~~~F~P~PkVds 176 (253)
T TIGR00755 154 FANVEIVFKVPPSAFYPPPKVDS 176 (253)
T ss_pred HcceEEEEEEchhhCcCCCCeeE
Confidence 1123345788998888874
No 26
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=96.38 E-value=0.0027 Score=69.89 Aligned_cols=149 Identities=19% Similarity=0.247 Sum_probs=85.2
Q ss_pred ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhh-hCCcccccccccc----CCCCCccccccc
Q 000583 708 SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCLYKNYDIL----PAKNDFNFEKRD 781 (1407)
Q Consensus 708 s~grhf-tk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~-~gk~c~~kn~dl~----~~kn~f~Fe~~d 781 (1407)
+||.|| +...-+..|++.+. +.+|++|||+.||.-.++..|-++... ++.+..-.-++.+ ....++.|...|
T Consensus 6 ~~GQnfl~d~~~~~~iv~~~~--~~~~~~VLEIG~G~G~lt~~L~~~~~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D 83 (258)
T PRK14896 6 KLGQHFLIDDRVVDRIVEYAE--DTDGDPVLEIGPGKGALTDELAKRAKKVYAIELDPRLAEFLRDDEIAAGNVEIIEGD 83 (258)
T ss_pred cCCccccCCHHHHHHHHHhcC--CCCcCeEEEEeCccCHHHHHHHHhCCEEEEEECCHHHHHHHHHHhccCCCEEEEEec
Confidence 789999 68888889999875 678999999999999999988764110 0111110011111 111345555566
Q ss_pred cccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-cccccccC-----CCceee------ec
Q 000583 782 WMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRKE-----SAYELV------WE 849 (1407)
Q Consensus 782 w~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili~P~~-t~rld~k~-----~~Y~li------we 849 (1407)
.+.+....+ .+|+| ||||.+- ...+.+.+.+...-.+|.+..| .+||=.+. ....++ .+
T Consensus 84 ~~~~~~~~~----d~Vv~-NlPy~i~----s~~~~~l~~~~~~~~~l~~q~e~A~rl~a~~g~~~yg~lsv~~~~~~~~~ 154 (258)
T PRK14896 84 ALKVDLPEF----NKVVS-NLPYQIS----SPITFKLLKHGFEPAVLMYQKEFAERMVAKPGTKEYGRLSVMVQYYADVE 154 (258)
T ss_pred cccCCchhc----eEEEE-cCCcccC----cHHHHHHHhhccceeEEEeeHHHHHHhcCCCCCccccHHHHHHHHHeeeE
Confidence 665543322 47888 9999864 4455555555554344544443 34442221 121222 12
Q ss_pred cccccCCcceecCCCccc
Q 000583 850 DDQFLSGKSFYLPGSVDE 867 (1407)
Q Consensus 850 d~~~l~gksFylPGsvd~ 867 (1407)
--..+.-+.|+-|-.||.
T Consensus 155 ~~~~v~~~~F~P~PkV~s 172 (258)
T PRK14896 155 IVEKVPPGAFSPKPKVDS 172 (258)
T ss_pred EEEEeChHhCCCCCCceE
Confidence 223345678887766673
No 27
>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=96.31 E-value=0.0031 Score=53.41 Aligned_cols=45 Identities=27% Similarity=0.624 Sum_probs=34.3
Q ss_pred cccccCCCCCCCCCCCceeecccCCcccccCCCCCCcccccccccccccccccc
Q 000583 355 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG 408 (1407)
Q Consensus 355 ~C~vCkqseDkn~segKLIrCdRCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~C 408 (1407)
+|.+|++.++ +..++.|+.|..+||..|+.++..-. .++...|.|
T Consensus 1 ~C~vC~~~~~----~~~~i~C~~C~~~~H~~C~~~~~~~~-----~~~~~~w~C 45 (51)
T PF00628_consen 1 YCPVCGQSDD----DGDMIQCDSCNRWYHQECVGPPEKAE-----EIPSGDWYC 45 (51)
T ss_dssp EBTTTTSSCT----TSSEEEBSTTSCEEETTTSTSSHSHH-----SHHSSSBSS
T ss_pred eCcCCCCcCC----CCCeEEcCCCChhhCcccCCCChhhc-----cCCCCcEEC
Confidence 4889988543 35799999999999999999986522 334458886
No 28
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=96.01 E-value=0.0028 Score=78.87 Aligned_cols=81 Identities=32% Similarity=0.695 Sum_probs=58.0
Q ss_pred cccccccCccccccccccccCCCChhhhcccCcccccCcccc---------------ccccccccCCCCCCCCCCCeeee
Q 000583 245 RCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYK---------------QHQCFACGKLGSSDKETGAEVFP 309 (1407)
Q Consensus 245 sC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~g---------------QHqCFVCGklGSSDK~SGaELfr 309 (1407)
.|+|.||..|++ ..+.. ++...|.|+.|... +..|.+|+..| +++.
T Consensus 1 ~~~r~~~~~~~~--------p~~~~---~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~~g--------~~l~ 61 (696)
T KOG0383|consen 1 TCPRAYHRVCLD--------PKLKE---EPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICADGG--------ELLW 61 (696)
T ss_pred CCCcccCcCCCC--------ccccc---CCcCCccCcchhhcccccccccCCcchhhhhhhhhhcCCC--------cEEE
Confidence 499999999654 22221 23578999999743 34799998765 6889
Q ss_pred cCCCCCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCCCcccccCCC
Q 000583 310 CVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHKCCICKQG 362 (1407)
Q Consensus 310 CsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH~C~vCkqs 362 (1407)
|. .|...||..|+...+.. +..+. |.||+ | .|-..
T Consensus 62 c~--tC~~s~h~~cl~~pl~~------------~p~~~-~~c~R--c-~~p~~ 96 (696)
T KOG0383|consen 62 CD--TCPASFHASCLGPPLTP------------QPNGE-FICPR--C-FCPKN 96 (696)
T ss_pred ec--cccHHHHHHccCCCCCc------------CCccc-eeeee--e-ccCCC
Confidence 99 99999999999876532 34455 99995 4 55443
No 29
>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 PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=95.71 E-value=0.0083 Score=63.92 Aligned_cols=92 Identities=26% Similarity=0.568 Sum_probs=62.1
Q ss_pred cccccCCCCCCCCCCCeeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhcc-CCceeC--------------CCC
Q 000583 290 CFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIA-GESFTC--------------PLH 354 (1407)
Q Consensus 290 CFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaa-G~sFrC--------------PlH 354 (1407)
|-+|+..|.. ...+.|+.|. .|...||..||..-... +.|..+|.. ....+| |.|
T Consensus 2 C~~C~~~g~~--~~kG~Lv~CQ--GCs~sYHk~CLG~Rs~R------eHlVTKVg~d~FVLQCr~Cig~~~kKD~~aP~~ 71 (175)
T PF15446_consen 2 CDTCGYEGDD--RNKGPLVYCQ--GCSSSYHKACLGPRSQR------EHLVTKVGDDDFVLQCRRCIGIAHKKDPRAPHH 71 (175)
T ss_pred cccccCCCCC--ccCCCeEEcC--ccChHHHhhhcCCcccc------ceeeEEEcCCceEEechhhcChhhcccCCCCCC
Confidence 7778765432 2235899999 99999999999976432 112222222 123445 444
Q ss_pred -cccccCCCCCC----------------------------------CCCCCceeecccCCcccccCCCCCCc
Q 000583 355 -KCCICKQGENK----------------------------------ADSDLQFAVCRRCPKAYHRKCLPRKI 391 (1407)
Q Consensus 355 -~C~vCkqseDk----------------------------------n~segKLIrCdRCPkAYH~kCLPPpI 391 (1407)
.|..|+..+.. +..+.-|++|..|-++||...||+..
T Consensus 72 ~~C~~C~~~G~~c~pfr~r~T~kQEe~~ReeNgG~DPit~Vd~~lvnN~~nVLFRC~~C~RawH~~HLP~~~ 143 (175)
T PF15446_consen 72 GMCQQCKKPGPSCKPFRPRKTPKQEEKLREENGGVDPITPVDPELVNNPDNVLFRCTSCHRAWHFEHLPPPS 143 (175)
T ss_pred CcccccCCCCCCCcccCCCCCcHHHHHHHHHcCCCCCCccCCHHHccChhheEEecCCccceeehhhCCCCc
Confidence 39999987310 13556789999999999999999864
No 31
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=95.65 E-value=0.015 Score=65.94 Aligned_cols=154 Identities=19% Similarity=0.274 Sum_probs=92.7
Q ss_pred cccccc-ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhhCCcc-cc----------ccccc
Q 000583 702 HGMRYT-SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNC-LY----------KNYDI 768 (1407)
Q Consensus 702 ~G~ryt-s~grhf-tk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c-~~----------kn~dl 768 (1407)
||+|.. +||.|| +...-+..|++.+. +.+|++|+|+-||.-.+...+-++ ..+-. .= +|+.-
T Consensus 6 ~~~~~kk~~GQnFL~d~~i~~~Iv~~~~--~~~~~~VLEIG~G~G~LT~~Ll~~---~~~V~avEiD~~li~~l~~~~~~ 80 (294)
T PTZ00338 6 SGMVFNKKFGQHILKNPLVLDKIVEKAA--IKPTDTVLEIGPGTGNLTEKLLQL---AKKVIAIEIDPRMVAELKKRFQN 80 (294)
T ss_pred CCcCcCCCCCccccCCHHHHHHHHHhcC--CCCcCEEEEecCchHHHHHHHHHh---CCcEEEEECCHHHHHHHHHHHHh
Confidence 455543 899999 67888899999874 679999999999999998877442 11100 00 11110
Q ss_pred cCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCcc-ccccccC--CCc-
Q 000583 769 LPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET-ERLDRKE--SAY- 844 (1407)
Q Consensus 769 ~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili~P~~t-~rld~k~--~~Y- 844 (1407)
......+.+...|++.+...++ .+|++ ||||.+-..+--+++.... ..+-.+|++-.|. +||=.++ .-|
T Consensus 81 ~~~~~~v~ii~~Dal~~~~~~~----d~Vva-NlPY~Istpil~~ll~~~~--~~~~~vlm~QkEvA~Rl~A~pg~k~y~ 153 (294)
T PTZ00338 81 SPLASKLEVIEGDALKTEFPYF----DVCVA-NVPYQISSPLVFKLLAHRP--LFRCAVLMFQKEFALRLLAQPGDELYC 153 (294)
T ss_pred cCCCCcEEEEECCHhhhccccc----CEEEe-cCCcccCcHHHHHHHhcCC--CCceeeeeehHHHHHHHhcCCCCcccC
Confidence 0002346666667766554333 26666 9999966666555554433 3346777777776 7774331 112
Q ss_pred --eeee------ccccccCCcceecCCCccc
Q 000583 845 --ELVW------EDDQFLSGKSFYLPGSVDE 867 (1407)
Q Consensus 845 --~liw------ed~~~l~gksFylPGsvd~ 867 (1407)
.++| +--.-+...+||=|=-||.
T Consensus 154 ~LSv~~q~~~~~~~~~~V~~~~F~P~PkVdS 184 (294)
T PTZ00338 154 RLSVNTQLLCRVTHLMKVSKNSFNPPPKVES 184 (294)
T ss_pred HHHHHHHHHhceEEEEEeCchhCCCCCCcEE
Confidence 1221 2223456778887777773
No 32
>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=95.51 E-value=0.03 Score=59.06 Aligned_cols=107 Identities=23% Similarity=0.445 Sum_probs=56.2
Q ss_pred HHHHhhcccccCCCcEEeccCCcchHHH---HHHHHHh---------hhCCccc-------cccccccCCCCCccccccc
Q 000583 721 AIVDKLHWYVNDGDMIVDFCCGANDFSC---LMKKKLD---------ETGKNCL-------YKNYDILPAKNDFNFEKRD 781 (1407)
Q Consensus 721 ~i~~~Lh~yv~~gd~ivdfccg~n~fs~---lmk~kl~---------~~gk~c~-------~kn~dl~~~kn~f~Fe~~d 781 (1407)
.++..--| ++|++|+|.+||+-.|.. +|....- -.|.+.. -.|..-..-.+...|...|
T Consensus 19 ~ll~la~~--~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D 96 (179)
T PF01170_consen 19 ALLNLAGW--RPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWD 96 (179)
T ss_dssp HHHHHTT----TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--
T ss_pred HHHHHhCC--CCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecc
Confidence 34444444 789999999999999862 2221111 0011111 1222222223445566666
Q ss_pred cccccCCCCCCCCeeeeeeCCCccchhh-------hHHHHHHhhhc-cCCcEEEEecCC
Q 000583 782 WMTVEPKELAPGSRLIMGLNPPFGVKAG-------LANKFINKALE-FNPKLLILIVPP 832 (1407)
Q Consensus 782 w~~v~~~elp~G~~LimgLnPPfg~~a~-------lAnkFi~kal~-f~Pkliili~P~ 832 (1407)
...+. ++.|+.=+|--|||||.+.. |-.+|++.+-. ++|++++|+...
T Consensus 97 ~~~l~---~~~~~~d~IvtnPPyG~r~~~~~~~~~ly~~~~~~~~~~l~~~~v~l~~~~ 152 (179)
T PF01170_consen 97 ARELP---LPDGSVDAIVTNPPYGRRLGSKKDLEKLYRQFLRELKRVLKPRAVFLTTSN 152 (179)
T ss_dssp GGGGG---GTTSBSCEEEEE--STTSHCHHHHHHHHHHHHHHHHHCHSTTCEEEEEESC
T ss_pred hhhcc---cccCCCCEEEECcchhhhccCHHHHHHHHHHHHHHHHHHCCCCEEEEEECC
Confidence 66665 45666656667999999855 34567777777 898666666553
No 33
>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=93.94 E-value=0.033 Score=52.63 Aligned_cols=87 Identities=22% Similarity=0.316 Sum_probs=55.5
Q ss_pred CCcEEeccCCcchHHHHHHHHH--hhhCCccc-------cccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCC
Q 000583 733 GDMIVDFCCGANDFSCLMKKKL--DETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPP 803 (1407)
Q Consensus 733 gd~ivdfccg~n~fs~lmk~kl--~~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPP 803 (1407)
|++|+|+|||.-.|...+-+.. .-+|.+.. -+|+....-.....|...|+.++. .+++.+..=++-.|||
T Consensus 1 g~~vlD~~~G~G~~~~~~~~~~~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~-~~~~~~~~D~Iv~npP 79 (117)
T PF13659_consen 1 GDRVLDPGCGSGTFLLAALRRGAARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLP-EPLPDGKFDLIVTNPP 79 (117)
T ss_dssp TEEEEEETSTTCHHHHHHHHHCTCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHH-HTCTTT-EEEEEE--S
T ss_pred CCEEEEcCcchHHHHHHHHHHCCCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhch-hhccCceeEEEEECCC
Confidence 7899999999999999997764 11111111 134444433456888889998886 4566666644444999
Q ss_pred ccch-------hhhHHHHHHhhhc
Q 000583 804 FGVK-------AGLANKFINKALE 820 (1407)
Q Consensus 804 fg~~-------a~lAnkFi~kal~ 820 (1407)
|+.. ..++..|+.+|..
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~ 103 (117)
T PF13659_consen 80 YGPRSGDKAALRRLYSRFLEAAAR 103 (117)
T ss_dssp TTSBTT----GGCHHHHHHHHHHH
T ss_pred CccccccchhhHHHHHHHHHHHHH
Confidence 9954 2367788888764
No 34
>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=93.48 E-value=0.061 Score=59.55 Aligned_cols=155 Identities=21% Similarity=0.329 Sum_probs=87.1
Q ss_pred cccCcccc-hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhh---CCccccccccccC----CCCCcccc
Q 000583 707 TSFGRHFT-KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET---GKNCLYKNYDILP----AKNDFNFE 778 (1407)
Q Consensus 707 ts~grhft-k~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~---gk~c~~kn~dl~~----~kn~f~Fe 778 (1407)
-+||-||- ...-++.|++.+..- .+++|||+-.|...|++.|.++...+ .++-.| ++.+. ...++..-
T Consensus 6 k~~gQnFL~~~~~~~~Iv~~~~~~--~~~~VlEiGpG~G~lT~~L~~~~~~v~~vE~d~~~--~~~L~~~~~~~~~~~vi 81 (262)
T PF00398_consen 6 KSLGQNFLVDPNIADKIVDALDLS--EGDTVLEIGPGPGALTRELLKRGKRVIAVEIDPDL--AKHLKERFASNPNVEVI 81 (262)
T ss_dssp CGCTSSEEEHHHHHHHHHHHHTCG--TTSEEEEESSTTSCCHHHHHHHSSEEEEEESSHHH--HHHHHHHCTTCSSEEEE
T ss_pred CCCCcCeeCCHHHHHHHHHhcCCC--CCCEEEEeCCCCccchhhHhcccCcceeecCcHhH--HHHHHHHhhhcccceee
Confidence 47899997 566778899988654 99999999999999999886544110 000000 11111 12333444
Q ss_pred ccccccccCCC-CCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-cccccccC-----CCceee----
Q 000583 779 KRDWMTVEPKE-LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRKE-----SAYELV---- 847 (1407)
Q Consensus 779 ~~dw~~v~~~e-lp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili~P~~-t~rld~k~-----~~Y~li---- 847 (1407)
..|.++++..+ +.....+|+| |.||.+-..|-.+++. ...+...-++|+++.| .+||=.+. ....++
T Consensus 82 ~~D~l~~~~~~~~~~~~~~vv~-NlPy~is~~il~~ll~-~~~~g~~~~~l~vq~e~a~rl~a~pg~~~~~~lsv~~q~~ 159 (262)
T PF00398_consen 82 NGDFLKWDLYDLLKNQPLLVVG-NLPYNISSPILRKLLE-LYRFGRVRMVLMVQKEVAERLLAKPGSKRYSRLSVLAQAF 159 (262)
T ss_dssp ES-TTTSCGGGHCSSSEEEEEE-EETGTGHHHHHHHHHH-HGGGCEEEEEEEEEHHHHHHHHTSTTSTTCSHHHHHHHHH
T ss_pred ecchhccccHHhhcCCceEEEE-EecccchHHHHHHHhh-cccccccceEEEEehhhhhhccCCCCCCccchhhhhhhhh
Confidence 55666665554 4456667777 9999755555555554 1123224556666555 46665542 111122
Q ss_pred --eccccccCCcceecCCCccc
Q 000583 848 --WEDDQFLSGKSFYLPGSVDE 867 (1407)
Q Consensus 848 --wed~~~l~gksFylPGsvd~ 867 (1407)
++--.-+....||=|-.||.
T Consensus 160 ~~i~~l~~v~~~~F~P~PkVds 181 (262)
T PF00398_consen 160 FDIKLLFKVPPSCFYPPPKVDS 181 (262)
T ss_dssp EEEEEEEEE-GGGEESSSSS-E
T ss_pred hceeEecccCCccccCCCCCce
Confidence 22223344567776666674
No 35
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=93.47 E-value=0.076 Score=56.89 Aligned_cols=92 Identities=26% Similarity=0.542 Sum_probs=56.9
Q ss_pred cccccCC------CCceeeccccccccccCccccccccccccCCCChhhh-cccCcccccCcccc----------ccccc
Q 000583 229 VCSFCDN------GGDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEV-EAMLNFFCKNCEYK----------QHQCF 291 (1407)
Q Consensus 229 VCaIC~d------GGeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEv-qp~~~W~CpnCe~g----------QHqCF 291 (1407)
+|..|.. -|-||.|.| |..+||..|+-...+- .--.|. + ....-..|..|..- +..|.
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQG-Cs~sYHk~CLG~Rs~R--eHlVTK--Vg~d~FVLQCr~Cig~~~kKD~~aP~~~~C~ 75 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQG-CSSSYHKACLGPRSQR--EHLVTK--VGDDDFVLQCRRCIGIAHKKDPRAPHHGMCQ 75 (175)
T ss_pred CcccccCCCCCccCCCeEEcCc-cChHHHhhhcCCcccc--ceeeEE--EcCCceEEechhhcChhhcccCCCCCCCccc
Confidence 4788853 367999997 9999999975322110 000010 1 01223457767421 35799
Q ss_pred cccCCCCCCC---------------------------------CCCCeeeecCCCCCCCCCcccccccc
Q 000583 292 ACGKLGSSDK---------------------------------ETGAEVFPCVSATCGHFYHPHCVSKL 327 (1407)
Q Consensus 292 VCGklGSSDK---------------------------------~SGaELfrCsvasCGRFYHpkCLa~l 327 (1407)
.|+..|.+-+ ....-||+|. .|-+.+|-.-|...
T Consensus 76 ~C~~~G~~c~pfr~r~T~kQEe~~ReeNgG~DPit~Vd~~lvnN~~nVLFRC~--~C~RawH~~HLP~~ 142 (175)
T PF15446_consen 76 QCKKPGPSCKPFRPRKTPKQEEKLREENGGVDPITPVDPELVNNPDNVLFRCT--SCHRAWHFEHLPPP 142 (175)
T ss_pred ccCCCCCCCcccCCCCCcHHHHHHHHHcCCCCCCccCCHHHccChhheEEecC--CccceeehhhCCCC
Confidence 9988886510 0112569999 99999998888765
No 36
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=93.05 E-value=0.33 Score=52.62 Aligned_cols=120 Identities=18% Similarity=0.211 Sum_probs=62.3
Q ss_pred cCCCcEEeccCCcchHHHH-HHHH-HhhhCCcc-------ccccccccCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 000583 731 NDGDMIVDFCCGANDFSCL-MKKK-LDETGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 801 (1407)
Q Consensus 731 ~~gd~ivdfccg~n~fs~l-mk~k-l~~~gk~c-------~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLn 801 (1407)
..|.+|+|++||+..|+-. +... ..-++.+. .-+|.....- ++..|...|++..-+. ..+..=++-+|
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 5788999999999999974 3321 01111111 1245444432 2466777777653222 12334456689
Q ss_pred CCccchhhhHHHHHHhhhc---cCCcEEEEec-CCccccccccCCCceeeeccccccCCcce
Q 000583 802 PPFGVKAGLANKFINKALE---FNPKLLILIV-PPETERLDRKESAYELVWEDDQFLSGKSF 859 (1407)
Q Consensus 802 PPfg~~a~lAnkFi~kal~---f~Pkliili~-P~~t~rld~k~~~Y~liwed~~~l~gksF 859 (1407)
|||.. .+..+-++.... ..|+=||.|- +..++ +......|.++ ..+.. |+|+
T Consensus 129 PPy~~--g~~~~~l~~l~~~~~l~~~~iv~ve~~~~~~-~~~~~~~~~~~-~~k~y--G~s~ 184 (199)
T PRK10909 129 PPFRK--GLLEETINLLEDNGWLADEALIYVESEVENG-LPTVPANWQLH-REKVA--GQVA 184 (199)
T ss_pred CCCCC--ChHHHHHHHHHHCCCcCCCcEEEEEecCCCC-cccCCCccEEE-EEecC--CCEE
Confidence 99843 344443333333 3677666665 43332 33333346554 33333 6664
No 37
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=92.99 E-value=0.014 Score=69.02 Aligned_cols=147 Identities=19% Similarity=0.425 Sum_probs=80.9
Q ss_pred cccCCccccccCCC--CceeeccccccccccCcccccccccc-ccCCCChhhhcccCcccccCcccc-ccccccccCCCC
Q 000583 223 DELFDSVCSFCDNG--GDLLCCEGRCLRSFHATIDAGEESHC-ASLGLTKDEVEAMLNFFCKNCEYK-QHQCFACGKLGS 298 (1407)
Q Consensus 223 dDl~DdVCaIC~dG--GeLLCCDGsC~RSFH~~CldGeeS~C-lsLGLTeaEvqp~~~W~CpnCe~g-QHqCFVCGklGS 298 (1407)
++.+. +|..|..+ |+-.-|. -=.+.||..|..=.. | .+|.-- .-..-.++-+|..|-.. ...|.+|++.-.
T Consensus 271 ~~~~~-iC~~C~K~V~g~~~ac~-Am~~~fHv~CFtC~~--C~r~L~Gq-~FY~v~~k~~CE~cyq~tlekC~~Cg~~I~ 345 (468)
T KOG1701|consen 271 EDYFG-ICAFCHKTVSGQGLAVE-AMDQLFHVQCFTCRT--CRRQLAGQ-SFYQVDGKPYCEGCYQDTLEKCNKCGEPIM 345 (468)
T ss_pred hhhhh-hhhhcCCcccCcchHHH-HhhhhhcccceehHh--hhhhhccc-cccccCCcccchHHHHHHHHHHhhhhhHHH
Confidence 33443 99999984 7777887 467999999875110 2 111100 00112467889998543 357999998753
Q ss_pred CCCCCCCeeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCC--C-----cccccCCCCCCCCCCCc
Q 000583 299 SDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPL--H-----KCCICKQGENKADSDLQ 371 (1407)
Q Consensus 299 SDK~SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPl--H-----~C~vCkqseDkn~segK 371 (1407)
..+++ .||+.||+.|..-.......++. .+ .+......+|=. | +|.+|...=--.+....
T Consensus 346 ------d~iLr----A~GkayHp~CF~Cv~C~r~ldgi-pF--tvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~e 412 (468)
T KOG1701|consen 346 ------DRILR----ALGKAYHPGCFTCVVCARCLDGI-PF--TVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDE 412 (468)
T ss_pred ------HHHHH----hcccccCCCceEEEEeccccCCc-cc--cccCCCceeeehhhhhhcCcchhhccCCccCCCCCcc
Confidence 24565 79999999887644322100000 01 122234556632 2 39999875211001112
Q ss_pred eeecccCCcccccCCC
Q 000583 372 FAVCRRCPKAYHRKCL 387 (1407)
Q Consensus 372 LIrCdRCPkAYH~kCL 387 (1407)
.++=+-=++.||..|.
T Consensus 413 tvRvvamdr~fHv~CY 428 (468)
T KOG1701|consen 413 TVRVVAMDRDFHVNCY 428 (468)
T ss_pred eEEEEEccccccccce
Confidence 3333334678888654
No 38
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=92.28 E-value=0.066 Score=60.53 Aligned_cols=24 Identities=21% Similarity=0.585 Sum_probs=21.5
Q ss_pred CeeeecCCCCCC-CCCccccccccc
Q 000583 305 AEVFPCVSATCG-HFYHPHCVSKLL 328 (1407)
Q Consensus 305 aELfrCsvasCG-RFYHpkCLa~ll 328 (1407)
++++.|+.+.|. .+||..||....
T Consensus 230 g~Mi~CDn~~C~~eWFH~~CVGL~~ 254 (274)
T KOG1973|consen 230 GKMIGCDNPGCPIEWFHFTCVGLKT 254 (274)
T ss_pred ccccccCCCCCCcceEEEecccccc
Confidence 589999999999 999999999764
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=92.14 E-value=0.22 Score=58.65 Aligned_cols=129 Identities=21% Similarity=0.365 Sum_probs=72.9
Q ss_pred hhhhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHHHhh-hCCccc-------cccccccCCCCCcccccccccc
Q 000583 715 KVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKKLDE-TGKNCL-------YKNYDILPAKNDFNFEKRDWMT 784 (1407)
Q Consensus 715 k~ekl~~i~~~Lh~yv~--~gd~ivdfccg~n~fs~lmk~kl~~-~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~ 784 (1407)
..+-.+.+++++.-+++ ++++|+|++||.-.|+..|.+.... +|.+.+ =+|..... -++..|...|+..
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 46666677777766654 6789999999999999888653210 111111 12222211 1235566666654
Q ss_pred ccCCC-CCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec-CCcccccccc---CCCceee
Q 000583 785 VEPKE-LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV-PPETERLDRK---ESAYELV 847 (1407)
Q Consensus 785 v~~~e-lp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili~-P~~t~rld~k---~~~Y~li 847 (1407)
.-++. +..++.=++-+|||. +.++..|++.....+|+-||.|. -|.|---|-+ ..+|.+.
T Consensus 352 ~l~~~~~~~~~~D~vi~dPPr---~G~~~~~l~~l~~l~~~~ivyvsc~p~tlard~~~l~~~gy~~~ 416 (431)
T TIGR00479 352 VLPKQPWAGQIPDVLLLDPPR---KGCAAEVLRTIIELKPERIVYVSCNPATLARDLEFLCKEGYGIT 416 (431)
T ss_pred HHHHHHhcCCCCCEEEECcCC---CCCCHHHHHHHHhcCCCEEEEEcCCHHHHHHHHHHHHHCCeeEE
Confidence 32211 112222233469994 34778888887788898877765 4455433332 2356543
No 40
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=92.04 E-value=0.057 Score=65.04 Aligned_cols=51 Identities=24% Similarity=0.673 Sum_probs=37.0
Q ss_pred CccccccCCCC-----ceeeccccccccccCccccccccccccCCCChhhh-cccCcccccCcccc
Q 000583 227 DSVCSFCDNGG-----DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEV-EAMLNFFCKNCEYK 286 (1407)
Q Consensus 227 DdVCaIC~dGG-----eLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEv-qp~~~W~CpnCe~g 286 (1407)
+..|.+|..|+ .||.|+ .|..+||..|.. | ..++.+. ++...|+|..|.++
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~-~C~~~fHq~Chq-----p---~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCD-KCRQWYHQACHQ-----P---LIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred cceeeeeecCCcCccceeeeec-ccccHHHHHhcc-----C---CCCHhhccCccceEeehhhccc
Confidence 44599999754 799999 599999999764 3 3333332 35678999888654
No 41
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=91.93 E-value=0.088 Score=66.02 Aligned_cols=47 Identities=23% Similarity=0.651 Sum_probs=35.0
Q ss_pred CccccccCCCC---ceeecccccccc-ccCccccccccccccCCCChhhhcccCcccccCccc
Q 000583 227 DSVCSFCDNGG---DLLCCEGRCLRS-FHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEY 285 (1407)
Q Consensus 227 DdVCaIC~dGG---eLLCCDGsC~RS-FH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~ 285 (1407)
..-|.||.... -||.|+ .|... ||..|++ ..+.+ + +...|||.+|..
T Consensus 215 ~~~C~IC~~~DpEdVLLLCD-sCN~~~YH~YCLD--------Pdl~e--i-P~~eWYC~NC~d 265 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCD-SCNKVYYHVYCLD--------PDLSE--S-PVNEWYCTNCSL 265 (1134)
T ss_pred cccceeeccCChHHhheeec-ccccceeeccccC--------ccccc--c-cccceecCcchh
Confidence 46799999754 489999 59999 9999544 33332 2 468999999963
No 42
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=90.76 E-value=0.1 Score=48.83 Aligned_cols=40 Identities=28% Similarity=0.506 Sum_probs=32.3
Q ss_pred ccccccCCccccccCCC-Cceeecc-ccccccccCccccccc
Q 000583 220 NEEDELFDSVCSFCDNG-GDLLCCE-GRCLRSFHATIDAGEE 259 (1407)
Q Consensus 220 ~e~dDl~DdVCaIC~dG-GeLLCCD-GsC~RSFH~~CldGee 259 (1407)
++........|.+|+.. |..+.|. ..|.+.||+.|+...+
T Consensus 29 ~~~~~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~ 70 (90)
T PF13771_consen 29 KEIKRRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAG 70 (90)
T ss_pred HHHHHHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCC
Confidence 44566778999999998 8888777 5799999999975444
No 43
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=90.71 E-value=1 Score=51.58 Aligned_cols=104 Identities=21% Similarity=0.364 Sum_probs=54.0
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhhCCcccccccccc--------------CCCCCcccccccccc
Q 000583 719 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDIL--------------PAKNDFNFEKRDWMT 784 (1407)
Q Consensus 719 l~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~--------------~~kn~f~Fe~~dw~~ 784 (1407)
...+++.+. +++|++|+|++||.-.|..-+.. .|.. .--.|+- .-.+ ..|...|-..
T Consensus 171 a~~~~~l~~--~~~g~~vLDp~cGtG~~lieaa~----~~~~--v~g~Di~~~~~~~a~~nl~~~g~~~-i~~~~~D~~~ 241 (329)
T TIGR01177 171 ARAMVNLAR--VTEGDRVLDPFCGTGGFLIEAGL----MGAK--VIGCDIDWKMVAGARINLEHYGIED-FFVKRGDATK 241 (329)
T ss_pred HHHHHHHhC--CCCcCEEEECCCCCCHHHHHHHH----hCCe--EEEEcCCHHHHHHHHHHHHHhCCCC-CeEEecchhc
Confidence 344555555 48999999999999988543311 1211 1111221 1111 3344444333
Q ss_pred ccCCCCCCCCeeeeeeCCCccchhhh--------HHHHHHhhhc-cCCc-EEEEecCCcc
Q 000583 785 VEPKELAPGSRLIMGLNPPFGVKAGL--------ANKFINKALE-FNPK-LLILIVPPET 834 (1407)
Q Consensus 785 v~~~elp~G~~LimgLnPPfg~~a~l--------AnkFi~kal~-f~Pk-liili~P~~t 834 (1407)
.. ++.+..=+|-.|||||.+... -.+|++.+.. .+|. .+++++|...
T Consensus 242 l~---~~~~~~D~Iv~dPPyg~~~~~~~~~~~~l~~~~l~~~~r~Lk~gG~lv~~~~~~~ 298 (329)
T TIGR01177 242 LP---LSSESVDAIATDPPYGRSTTAAGDGLESLYERSLEEFHEVLKSEGWIVYAVPTRI 298 (329)
T ss_pred CC---cccCCCCEEEECCCCcCcccccCCchHHHHHHHHHHHHHHccCCcEEEEEEcCCC
Confidence 21 123443344459999986533 3566666654 4554 3556666653
No 44
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=90.45 E-value=0.21 Score=60.36 Aligned_cols=47 Identities=26% Similarity=0.572 Sum_probs=36.6
Q ss_pred cccccCCCCCCCCCCCceeecccCCcccccCCCCCCcccccccccccccccccc
Q 000583 355 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG 408 (1407)
Q Consensus 355 ~C~vCkqseDkn~segKLIrCdRCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~C 408 (1407)
.|-+|+++.+.- .+++|+.|.+.||..||.||++..... ..+..|-|
T Consensus 546 sCgiCkks~dQH----ll~~CDtC~lhYHlGCL~PPLTR~Pkk---~kn~gWqC 592 (707)
T KOG0957|consen 546 SCGICKKSTDQH----LLTQCDTCHLHYHLGCLSPPLTRLPKK---NKNFGWQC 592 (707)
T ss_pred eeeeeccchhhH----HHhhcchhhceeeccccCCccccCccc---ccCcceee
Confidence 499999987643 688999999999999999999754322 23456876
No 45
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=90.36 E-value=0.26 Score=50.76 Aligned_cols=141 Identities=18% Similarity=0.223 Sum_probs=72.9
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHh-hhCCcccccccccc----CCCCCccccccccccccCCCCCCC
Q 000583 719 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD-ETGKNCLYKNYDIL----PAKNDFNFEKRDWMTVEPKELAPG 793 (1407)
Q Consensus 719 l~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~-~~gk~c~~kn~dl~----~~kn~f~Fe~~dw~~v~~~elp~G 793 (1407)
++.|++.+.+ .+|++|+|+.||.-.++..+-++.. -++.+-.-+-.++. ...+.+.|...|.+.+...+. .
T Consensus 2 ~~~i~~~~~~--~~~~~vLEiG~G~G~lt~~l~~~~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~--~ 77 (169)
T smart00650 2 IDKIVRAANL--RPGDTVLEIGPGKGALTEELLERAARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKL--Q 77 (169)
T ss_pred HHHHHHhcCC--CCcCEEEEECCCccHHHHHHHhcCCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCcccc--C
Confidence 3567777764 6789999999999999988755310 00111110011111 112345566667766643321 1
Q ss_pred CeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-cccccccC--CCc---------eeeeccccccCCcceec
Q 000583 794 SRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRKE--SAY---------ELVWEDDQFLSGKSFYL 861 (1407)
Q Consensus 794 ~~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili~P~~-t~rld~k~--~~Y---------~liwed~~~l~gksFyl 861 (1407)
--+|++ ||||.+...+-.+++.... ..+..+ |++-.| .+||-.+. .-| ..-|+--.-+...+||=
T Consensus 78 ~d~vi~-n~Py~~~~~~i~~~l~~~~-~~~~~~-l~~q~e~a~rl~~~~~~~~y~~lsv~~~~~~~~~~~~~v~~~~F~P 154 (169)
T smart00650 78 PYKVVG-NLPYNISTPILFKLLEEPP-AFRDAV-LMVQKEVARRLAAKPGSKDYGRLSVLLQPYFDVKILFKVPPEAFRP 154 (169)
T ss_pred CCEEEE-CCCcccHHHHHHHHHhcCC-CcceEE-EEEEHHHhHHhcCCCCCCcccHHHHHHHHHeeEEEEEEEChhhCCC
Confidence 246777 9999864444444444332 223444 455444 45666652 122 23344444455566654
Q ss_pred CCCcc
Q 000583 862 PGSVD 866 (1407)
Q Consensus 862 PGsvd 866 (1407)
|=-||
T Consensus 155 ~PkV~ 159 (169)
T smart00650 155 PPKVD 159 (169)
T ss_pred CCCce
Confidence 44443
No 46
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=90.08 E-value=0.2 Score=60.55 Aligned_cols=94 Identities=18% Similarity=0.376 Sum_probs=57.1
Q ss_pred CccccccCC-----CCceeeccccccccccCccccccc--------cccccCCCCh----------h----hhc-ccCcc
Q 000583 227 DSVCSFCDN-----GGDLLCCEGRCLRSFHATIDAGEE--------SHCASLGLTK----------D----EVE-AMLNF 278 (1407)
Q Consensus 227 DdVCaIC~d-----GGeLLCCDGsC~RSFH~~CldGee--------S~ClsLGLTe----------a----Evq-p~~~W 278 (1407)
...|.+|.. +.+++.|+ .|.+.||..|..... ..|+..-.+. + ..+ ..-.|
T Consensus 83 e~~~nv~~s~~~~p~~e~~~~~-r~~~~~~q~~~i~~~~~~~~~~~~~c~~~~~~~~g~a~K~g~~a~~~l~y~~~~l~w 161 (464)
T KOG4323|consen 83 ELNPNVLTSETVLPENEKVICG-RCKSGYHQGCNIPRFPSLDIGESTECVFPIFSQEGGALKKGRLARPSLPYPEASLDW 161 (464)
T ss_pred ccCCcccccccccCchhhhhhh-hhccCcccccCccCcCcCCccccccccccccccccccccccccccccccCccccccc
Confidence 467888875 24688898 799999999864221 1121100000 0 000 01123
Q ss_pred cccCccccccccccccCCCCCCCCCCCeeeecCCCCCCCCCccccccccc
Q 000583 279 FCKNCEYKQHQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 328 (1407)
Q Consensus 279 ~CpnCe~gQHqCFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll 328 (1407)
-=..+.. -+|.+|...++.. . ..+++|. .|..+||..|...+.
T Consensus 162 D~~~~~n--~qc~vC~~g~~~~--~-NrmlqC~--~C~~~fHq~Chqp~i 204 (464)
T KOG4323|consen 162 DSGHKVN--LQCSVCYCGGPGA--G-NRMLQCD--KCRQWYHQACHQPLI 204 (464)
T ss_pred Ccccccc--ceeeeeecCCcCc--c-ceeeeec--ccccHHHHHhccCCC
Confidence 2223322 2488998776532 2 3899999 999999999999875
No 47
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=89.96 E-value=0.3 Score=47.46 Aligned_cols=84 Identities=21% Similarity=0.389 Sum_probs=49.4
Q ss_pred cccccCCC-CceeeccccccccccCccccc--cccccccCCCChhhhcccCcccccCccccccccccccCCCCCCCCCCC
Q 000583 229 VCSFCDNG-GDLLCCEGRCLRSFHATIDAG--EESHCASLGLTKDEVEAMLNFFCKNCEYKQHQCFACGKLGSSDKETGA 305 (1407)
Q Consensus 229 VCaIC~dG-GeLLCCDGsC~RSFH~~CldG--eeS~ClsLGLTeaEvqp~~~W~CpnCe~gQHqCFVCGklGSSDK~SGa 305 (1407)
.|.+|... |.|..-. -.++.|..|+-- +-.+=....+....+ .... ++ .....|.+|++.+ +
T Consensus 2 ~C~lC~~~~Galk~t~--~~~WvHv~Cal~~~~~~~~~~~~~~~v~~---~~i~-~~--~~~~~C~iC~~~~-------G 66 (110)
T PF13832_consen 2 SCVLCPKRGGALKRTS--DGQWVHVLCALWIPEVIFNNGESMEPVDI---SNIP-PS--RFKLKCSICGKSG-------G 66 (110)
T ss_pred ccEeCCCCCCcccCcc--CCcEEEeEccceeCccEEeechhcCcccc---eeec-ch--hcCCcCcCCCCCC-------c
Confidence 59999985 5554444 589999998741 111100000000000 0000 00 1245799998863 3
Q ss_pred eeeecCCCCCCCCCcccccccc
Q 000583 306 EVFPCVSATCGHFYHPHCVSKL 327 (1407)
Q Consensus 306 ELfrCsvasCGRFYHpkCLa~l 327 (1407)
-.++|....|.+.||+.|....
T Consensus 67 ~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 67 ACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred eeEEcCCCCCCcCCCHHHHHHC
Confidence 5899998899999999998764
No 48
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=89.83 E-value=0.23 Score=48.32 Aligned_cols=80 Identities=21% Similarity=0.419 Sum_probs=48.1
Q ss_pred ccccccCCCCCCCCCCCeeeecCCCCCCCCCcccccccccccchHHHHHHHh----HhhccCCceeCCCCcccccCCCCC
Q 000583 289 QCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLA----KSIIAGESFTCPLHKCCICKQGEN 364 (1407)
Q Consensus 289 qCFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLe----krIaaG~sFrCPlH~C~vCkqseD 364 (1407)
.|.+|...|. .++-. .-+.|.|..|....+........ .++ ..+.. .. -.-.|..|+...
T Consensus 2 ~C~lC~~~~G--------alk~t--~~~~WvHv~Cal~~~~~~~~~~~-~~~~v~~~~i~~-~~---~~~~C~iC~~~~- 65 (110)
T PF13832_consen 2 SCVLCPKRGG--------ALKRT--SDGQWVHVLCALWIPEVIFNNGE-SMEPVDISNIPP-SR---FKLKCSICGKSG- 65 (110)
T ss_pred ccEeCCCCCC--------cccCc--cCCcEEEeEccceeCccEEeech-hcCcccceeecc-hh---cCCcCcCCCCCC-
Confidence 5889988753 23333 35889999998865432111000 000 00111 01 123599998873
Q ss_pred CCCCCCceeeccc--CCcccccCCCCC
Q 000583 365 KADSDLQFAVCRR--CPKAYHRKCLPR 389 (1407)
Q Consensus 365 kn~segKLIrCdR--CPkAYH~kCLPP 389 (1407)
+..++|.. |.++||..|.-.
T Consensus 66 -----G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 66 -----GACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred -----ceeEEcCCCCCCcCCCHHHHHH
Confidence 46899999 999999999754
No 49
>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=89.50 E-value=0.34 Score=56.65 Aligned_cols=115 Identities=16% Similarity=0.229 Sum_probs=63.9
Q ss_pred chhhhHHHHHHhhcccc--cCCCcEEeccCCcchHHHHHHHHHh-hhCCccc-------cccccccCCCCCccccccccc
Q 000583 714 TKVDKLQAIVDKLHWYV--NDGDMIVDFCCGANDFSCLMKKKLD-ETGKNCL-------YKNYDILPAKNDFNFEKRDWM 783 (1407)
Q Consensus 714 tk~ekl~~i~~~Lh~yv--~~gd~ivdfccg~n~fs~lmk~kl~-~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~ 783 (1407)
|..+-.+.+++.+.-++ .++.+|+|++||...|+..+-.+.. -+|.+.+ -+|.....- ++..|...|..
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 44444445555544443 2578999999999999987754321 1122221 122222211 13445555543
Q ss_pred cccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEe-cCCcc
Q 000583 784 TVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILI-VPPET 834 (1407)
Q Consensus 784 ~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili-~P~~t 834 (1407)
+.-+. + .+..=++-+|||. +.+..++|+.++.++|+-||.| .-|.|
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 32211 1 1222345569996 4788999999999999655554 44444
No 50
>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=88.35 E-value=0.44 Score=49.49 Aligned_cols=84 Identities=23% Similarity=0.344 Sum_probs=53.6
Q ss_pred CCCcEEeccCCcchHHHHHHHHHhhhC----------CccccccccccCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 000583 732 DGDMIVDFCCGANDFSCLMKKKLDETG----------KNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 801 (1407)
Q Consensus 732 ~gd~ivdfccg~n~fs~lmk~kl~~~g----------k~c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLn 801 (1407)
.+..|+|++||+--.+-++.++..... ..|.-+|.....-.+ ..+...||+. .++.+..=++-.|
T Consensus 31 ~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~-v~~~~~d~~~----~~~~~~fD~Iv~N 105 (170)
T PF05175_consen 31 KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLEN-VEVVQSDLFE----ALPDGKFDLIVSN 105 (170)
T ss_dssp TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTT-EEEEESSTTT----TCCTTCEEEEEE-
T ss_pred cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccc-cccccccccc----cccccceeEEEEc
Confidence 788999999999999999877544311 123345555554444 6777788764 3444555455559
Q ss_pred CCccchhh----hHHHHHHhhhc
Q 000583 802 PPFGVKAG----LANKFINKALE 820 (1407)
Q Consensus 802 PPfg~~a~----lAnkFi~kal~ 820 (1407)
|||--... +..+||..|..
T Consensus 106 PP~~~~~~~~~~~~~~~i~~a~~ 128 (170)
T PF05175_consen 106 PPFHAGGDDGLDLLRDFIEQARR 128 (170)
T ss_dssp --SBTTSHCHHHHHHHHHHHHHH
T ss_pred cchhcccccchhhHHHHHHHHHH
Confidence 99965444 77899988754
No 51
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=87.15 E-value=0.63 Score=53.07 Aligned_cols=93 Identities=15% Similarity=0.237 Sum_probs=51.8
Q ss_pred CCCcEEeccCCcchHHHHHHHHHh-hhCCcccc-------ccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCC
Q 000583 732 DGDMIVDFCCGANDFSCLMKKKLD-ETGKNCLY-------KNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPP 803 (1407)
Q Consensus 732 ~gd~ivdfccg~n~fs~lmk~kl~-~~gk~c~~-------kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPP 803 (1407)
++++|+|++||.-.|+..+-++.. -+|.+.+- +|.....- ++..|...|..+..+. ..+..=++-+|||
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 579999999999999987765321 11222211 12211111 2345666665443221 1122223446999
Q ss_pred ccchhhhHHHHHHhhhccCCcEEEEec
Q 000583 804 FGVKAGLANKFINKALEFNPKLLILIV 830 (1407)
Q Consensus 804 fg~~a~lAnkFi~kal~f~Pkliili~ 830 (1407)
++.+..+.+.-....+|+-||.|.
T Consensus 250 ---r~G~~~~~~~~l~~~~~~~ivyvs 273 (315)
T PRK03522 250 ---RRGIGKELCDYLSQMAPRFILYSS 273 (315)
T ss_pred ---CCCccHHHHHHHHHcCCCeEEEEE
Confidence 455667777777778888777653
No 52
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=86.66 E-value=0.88 Score=54.29 Aligned_cols=124 Identities=21% Similarity=0.307 Sum_probs=68.3
Q ss_pred HHHHHHhhcccc--cCCCcEEeccCCcchHHHHHHHHHhh-hCCccc-------cccccccCCCCCccccccccccccCC
Q 000583 719 LQAIVDKLHWYV--NDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPK 788 (1407)
Q Consensus 719 l~~i~~~Lh~yv--~~gd~ivdfccg~n~fs~lmk~kl~~-~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~ 788 (1407)
.+.+++.+.-++ .+|++|+|++||.-.|+..|-++... +|.+.+ -+|.....-+ +..|...||...-++
T Consensus 282 ~e~l~~~vl~~l~~~~~~~VLDlgcGtG~~sl~la~~~~~V~gvD~s~~al~~A~~n~~~~~~~-~v~~~~~d~~~~l~~ 360 (443)
T PRK13168 282 NQKMVARALEWLDPQPGDRVLDLFCGLGNFTLPLARQAAEVVGVEGVEAMVERARENARRNGLD-NVTFYHANLEEDFTD 360 (443)
T ss_pred HHHHHHHHHHHhcCCCCCEEEEEeccCCHHHHHHHHhCCEEEEEeCCHHHHHHHHHHHHHcCCC-ceEEEEeChHHhhhh
Confidence 344444444333 58899999999999999988654211 111111 1333322222 367888887653221
Q ss_pred -CCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec-CCcccccccc---CCCceee
Q 000583 789 -ELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV-PPETERLDRK---ESAYELV 847 (1407)
Q Consensus 789 -elp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili~-P~~t~rld~k---~~~Y~li 847 (1407)
.++.++.=++-+|||..- +.+.+......+|+-||.|. -|.|---|-+ ..+|.|.
T Consensus 361 ~~~~~~~fD~Vi~dPPr~g----~~~~~~~l~~~~~~~ivyvSCnp~tlaRDl~~L~~~gY~l~ 420 (443)
T PRK13168 361 QPWALGGFDKVLLDPPRAG----AAEVMQALAKLGPKRIVYVSCNPATLARDAGVLVEAGYRLK 420 (443)
T ss_pred hhhhcCCCCEEEECcCCcC----hHHHHHHHHhcCCCeEEEEEeChHHhhccHHHHhhCCcEEE
Confidence 122332223346999863 23556666666887777665 5555433432 2467664
No 53
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=86.44 E-value=2.2 Score=47.12 Aligned_cols=120 Identities=24% Similarity=0.352 Sum_probs=66.3
Q ss_pred hccccccccccccccccccCcccchhhhHHHHHHhhcccc-----cCCCcEEeccCCcchHHHHHH--------------
Q 000583 691 NKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYV-----NDGDMIVDFCCGANDFSCLMK-------------- 751 (1407)
Q Consensus 691 ~kL~vylaP~l~G~ryts~grhftk~ekl~~i~~~Lh~yv-----~~gd~ivdfccg~n~fs~lmk-------------- 751 (1407)
.||+-+..|=+.=.-|+-= -.++..+.|.+ ..|-+|+|++||.--|+.-..
T Consensus 9 ~kl~~f~~p~~~LEQY~Tp----------~~~Aa~il~~a~~~g~l~g~~V~DlG~GTG~La~ga~~lGa~~V~~vdiD~ 78 (198)
T COG2263 9 EKLKGFPNPKLGLEQYRTP----------APLAAYILWVAYLRGDLEGKTVLDLGAGTGILAIGAALLGASRVLAVDIDP 78 (198)
T ss_pred hhhcCCCCCCccceecCCC----------hHHHHHHHHHHHHcCCcCCCEEEEcCCCcCHHHHHHHhcCCcEEEEEecCH
Confidence 4555555555544444321 13666677766 345679999999999886432
Q ss_pred HHHhhhCCccccccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhH-HHHHHhhhccCCcEEEEec
Q 000583 752 KKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLA-NKFINKALEFNPKLLILIV 830 (1407)
Q Consensus 752 ~kl~~~gk~c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lA-nkFi~kal~f~Pkliili~ 830 (1407)
+.++....+|.= + ..++.|...|=-.+..+ -. ..| .|||||.+..=| ..|+++||+-. +.|--|-
T Consensus 79 ~a~ei~r~N~~~----l---~g~v~f~~~dv~~~~~~---~d-tvi--mNPPFG~~~rhaDr~Fl~~Ale~s-~vVYsiH 144 (198)
T COG2263 79 EALEIARANAEE----L---LGDVEFVVADVSDFRGK---FD-TVI--MNPPFGSQRRHADRPFLLKALEIS-DVVYSIH 144 (198)
T ss_pred HHHHHHHHHHHh----h---CCceEEEEcchhhcCCc---cc-eEE--ECCCCccccccCCHHHHHHHHHhh-heEEEee
Confidence 112211111110 0 13444544443222222 11 233 399999986655 36999999998 7766665
Q ss_pred CCcc
Q 000583 831 PPET 834 (1407)
Q Consensus 831 P~~t 834 (1407)
--.+
T Consensus 145 ~a~~ 148 (198)
T COG2263 145 KAGS 148 (198)
T ss_pred cccc
Confidence 4443
No 54
>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=85.22 E-value=1.4 Score=49.94 Aligned_cols=72 Identities=17% Similarity=0.241 Sum_probs=43.4
Q ss_pred cCCCcEEeccCCcchHHHHHHHHHh---hhCCcc-------ccccccccCCCCCccccccccccccCCCCCCCC-eeeee
Q 000583 731 NDGDMIVDFCCGANDFSCLMKKKLD---ETGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPGS-RLIMG 799 (1407)
Q Consensus 731 ~~gd~ivdfccg~n~fs~lmk~kl~---~~gk~c-------~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~-~Limg 799 (1407)
.++..|+|++||+--++..+.++.. -++.+. .-+|.....-.+...|...|+++. ++.+. -+|+.
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 4567899999999999988876532 111111 123333222235677888888642 34333 35554
Q ss_pred eCCCccch
Q 000583 800 LNPPFGVK 807 (1407)
Q Consensus 800 LnPPfg~~ 807 (1407)
||||.-.
T Consensus 196 -NPPy~~~ 202 (284)
T TIGR03533 196 -NPPYVDA 202 (284)
T ss_pred -CCCCCCc
Confidence 9999643
No 55
>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=84.26 E-value=0.85 Score=44.71 Aligned_cols=39 Identities=31% Similarity=0.498 Sum_probs=30.8
Q ss_pred eeeeeCCCccchhhhH-------------HHHHHhhhccCCcEEEEecCCccc
Q 000583 796 LIMGLNPPFGVKAGLA-------------NKFINKALEFNPKLLILIVPPETE 835 (1407)
Q Consensus 796 LimgLnPPfg~~a~lA-------------nkFi~kal~f~Pkliili~P~~t~ 835 (1407)
+|+| |||++....+. .-||.+|++.-.-.+.+|+|...=
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 8999 99998765322 129999988888999999997654
No 56
>PHA03411 putative methyltransferase; Provisional
Probab=83.82 E-value=0.74 Score=52.88 Aligned_cols=40 Identities=20% Similarity=0.253 Sum_probs=30.5
Q ss_pred cCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000583 709 FGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 752 (1407)
Q Consensus 709 ~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 752 (1407)
.|-+||-..-+..++ +....+.+|+|++||...|+.++-+
T Consensus 45 ~G~FfTP~~i~~~f~----~~~~~~grVLDLGcGsGilsl~la~ 84 (279)
T PHA03411 45 SGAFFTPEGLAWDFT----IDAHCTGKVLDLCAGIGRLSFCMLH 84 (279)
T ss_pred ceeEcCCHHHHHHHH----hccccCCeEEEcCCCCCHHHHHHHH
Confidence 499999877765543 2344678999999999999887754
No 57
>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=83.58 E-value=2.1 Score=45.89 Aligned_cols=70 Identities=24% Similarity=0.441 Sum_probs=41.0
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHHhhhCCccccccccccC-------------CCCCccccccccccccCCCCCCCC-e
Q 000583 730 VNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP-------------AKNDFNFEKRDWMTVEPKELAPGS-R 795 (1407)
Q Consensus 730 v~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~~-------------~kn~f~Fe~~dw~~v~~~elp~G~-~ 795 (1407)
-..+.+|+|++||...|...+.+.+. .+.+--.|+-+ .-++..|...|+.+. ++.++ -
T Consensus 85 ~~~~~~ilDig~G~G~~~~~l~~~~~----~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~d~~~~----~~~~~fD 156 (251)
T TIGR03534 85 KKGPLRVLDLGTGSGAIALALAKERP----DARVTAVDISPEALAVARKNAARLGLDNVTFLQSDWFEP----LPGGKFD 156 (251)
T ss_pred ccCCCeEEEEeCcHhHHHHHHHHHCC----CCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchhcc----CcCCcee
Confidence 34556899999999999888876432 12222222210 011366777777652 33343 3
Q ss_pred eeeeeCCCccchh
Q 000583 796 LIMGLNPPFGVKA 808 (1407)
Q Consensus 796 LimgLnPPfg~~a 808 (1407)
+|+. ||||....
T Consensus 157 ~Vi~-npPy~~~~ 168 (251)
T TIGR03534 157 LIVS-NPPYIPEA 168 (251)
T ss_pred EEEE-CCCCCchh
Confidence 5555 99998543
No 58
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=83.47 E-value=1.9 Score=52.20 Aligned_cols=116 Identities=19% Similarity=0.449 Sum_probs=78.0
Q ss_pred cccccccCcccchh--hhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHH-------------HhhhCCcc---c
Q 000583 703 GMRYTSFGRHFTKV--DKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKK-------------LDETGKNC---L 762 (1407)
Q Consensus 703 G~ryts~grhftk~--ekl~~i~~~Lh~yv~--~gd~ivdfccg~n~fs~lmk~k-------------l~~~gk~c---~ 762 (1407)
|..|.=..|.|+++ +-.+.+++...-+++ .+|+++|+.||.-.|+-.|-++ .++...+. .
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 56777778899865 344555555555566 6789999999999999887632 22222222 2
Q ss_pred cccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec
Q 000583 763 YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV 830 (1407)
Q Consensus 763 ~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili~ 830 (1407)
..| --|..-..+.|..+-|..-.|+ +|+ ++|| ++-+...|++..++++|+-||-|.
T Consensus 340 i~N-~~f~~~~ae~~~~~~~~~~~~d-------~Vv-vDPP---R~G~~~~~lk~l~~~~p~~IvYVS 395 (432)
T COG2265 340 IDN-VEFIAGDAEEFTPAWWEGYKPD-------VVV-VDPP---RAGADREVLKQLAKLKPKRIVYVS 395 (432)
T ss_pred CCc-EEEEeCCHHHHhhhccccCCCC-------EEE-ECCC---CCCCCHHHHHHHHhcCCCcEEEEe
Confidence 334 3444555666666656333333 444 5999 567899999999999999998885
No 59
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=83.20 E-value=1.4 Score=49.66 Aligned_cols=58 Identities=26% Similarity=0.441 Sum_probs=47.2
Q ss_pred hhHhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000583 681 EVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 681 ~vl~ql~~wk~kL~vylaP~l~G~ryts~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
++-.++.++.|... +--|||.|.+-...|.+....- +|+.|+|.|||.-|+..++.+.
T Consensus 15 ~vF~~ia~~YD~~n----------~~~S~g~~~~Wr~~~i~~~~~~-----~g~~vLDva~GTGd~a~~~~k~ 72 (238)
T COG2226 15 KVFDKVAKKYDLMN----------DLMSFGLHRLWRRALISLLGIK-----PGDKVLDVACGTGDMALLLAKS 72 (238)
T ss_pred HHHHhhHHHHHhhc----------ccccCcchHHHHHHHHHhhCCC-----CCCEEEEecCCccHHHHHHHHh
Confidence 46778888888875 4459999999998887654332 9999999999999999998773
No 60
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=82.70 E-value=0.88 Score=59.84 Aligned_cols=58 Identities=29% Similarity=0.618 Sum_probs=40.9
Q ss_pred cccccCCCCCCCCCCCceeecccCCcccccCCCCCCcccccccccccccccccc---c-cCCCc-eeEeccCCc
Q 000583 355 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG---L-LPNHR-ILIYCLKHE 423 (1407)
Q Consensus 355 ~C~vCkqseDkn~segKLIrCdRCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~C---L-L~ncR-ILIyCpkHe 423 (1407)
.|.+|...+-.+ ...++.|+.|..++|.+|.- +. -|+.+.|.| + -+... .|+.|+.+.
T Consensus 221 ~C~iC~~~~~~n--~n~ivfCD~Cnl~VHq~Cyg--i~-------~ipeg~WlCr~Cl~s~~~~v~c~~cp~~~ 283 (1051)
T KOG0955|consen 221 VCCICLDGECQN--SNVIVFCDGCNLAVHQECYG--IP-------FIPEGQWLCRRCLQSPQRPVRCLLCPSKG 283 (1051)
T ss_pred cceeecccccCC--CceEEEcCCCcchhhhhccC--CC-------CCCCCcEeehhhccCcCcccceEeccCCC
Confidence 599999876432 24799999999999999987 33 367789988 2 22211 366777663
No 61
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=82.59 E-value=2.2 Score=49.09 Aligned_cols=69 Identities=17% Similarity=0.257 Sum_probs=41.0
Q ss_pred CcEEeccCCcchHHHHHHHHHh---hhCCccc-------cccccccCCCCCccccccccccccCCCCCCCC-eeeeeeCC
Q 000583 734 DMIVDFCCGANDFSCLMKKKLD---ETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGS-RLIMGLNP 802 (1407)
Q Consensus 734 d~ivdfccg~n~fs~lmk~kl~---~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~-~LimgLnP 802 (1407)
.+|+|+|||+-.++..+.++.. -++.+.+ =+|.....-.+...|...||.+. +|.++ -+|+. ||
T Consensus 135 ~~VLDlG~GsG~iai~la~~~p~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~----l~~~~fDlIvs-NP 209 (307)
T PRK11805 135 TRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAA----LPGRRYDLIVS-NP 209 (307)
T ss_pred CEEEEEechhhHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhh----CCCCCccEEEE-CC
Confidence 7899999999999988866431 1111111 12322222234577888888653 33333 36665 99
Q ss_pred Cccch
Q 000583 803 PFGVK 807 (1407)
Q Consensus 803 Pfg~~ 807 (1407)
||--.
T Consensus 210 Pyi~~ 214 (307)
T PRK11805 210 PYVDA 214 (307)
T ss_pred CCCCc
Confidence 99643
No 62
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=82.26 E-value=7.5 Score=42.28 Aligned_cols=65 Identities=22% Similarity=0.253 Sum_probs=44.5
Q ss_pred hhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhhCCccccccccccC--CCCCcccccccccc
Q 000583 716 VDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP--AKNDFNFEKRDWMT 784 (1407)
Q Consensus 716 ~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~~--~kn~f~Fe~~dw~~ 784 (1407)
..||.+|.+++. ++.+|++|||++||.-.|+..+-++ .+..+..--.|+-+ +..+..|-.-|..+
T Consensus 36 ~~kl~~~~~~~~-~~~~~~~VLDlG~GtG~~t~~l~~~---~~~~~~V~aVDi~~~~~~~~v~~i~~D~~~ 102 (209)
T PRK11188 36 WFKLDEIQQSDK-LFKPGMTVVDLGAAPGGWSQYAVTQ---IGDKGRVIACDILPMDPIVGVDFLQGDFRD 102 (209)
T ss_pred HHhhHHHHHHhc-cCCCCCEEEEEcccCCHHHHHHHHH---cCCCceEEEEecccccCCCCcEEEecCCCC
Confidence 457888888865 6789999999999999999987553 34445555555543 11234555556554
No 63
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=81.62 E-value=0.58 Score=56.84 Aligned_cols=49 Identities=24% Similarity=0.612 Sum_probs=34.8
Q ss_pred CCccccccCCCC---ceeeccccccccccCccccccccccccCCCChhhhcc-cCcccccCc
Q 000583 226 FDSVCSFCDNGG---DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEA-MLNFFCKNC 283 (1407)
Q Consensus 226 ~DdVCaIC~dGG---eLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp-~~~W~CpnC 283 (1407)
....|.||...- -|+.|| .|...||+- |+++.+|..+... ...|.|.+|
T Consensus 543 ~~ysCgiCkks~dQHll~~CD-tC~lhYHlG--------CL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 543 MNYSCGICKKSTDQHLLTQCD-TCHLHYHLG--------CLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred cceeeeeeccchhhHHHhhcc-hhhceeecc--------ccCCccccCcccccCcceeeccc
Confidence 346699999865 489999 799999999 5556666543322 456877655
No 64
>PRK14967 putative methyltransferase; Provisional
Probab=81.20 E-value=5.2 Score=43.27 Aligned_cols=34 Identities=15% Similarity=0.322 Sum_probs=26.4
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000583 717 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 752 (1407)
Q Consensus 717 ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 752 (1407)
+.|.+++.++ .+.+|++|+|++||.--|+..+.+
T Consensus 23 ~~l~~~l~~~--~~~~~~~vLDlGcG~G~~~~~la~ 56 (223)
T PRK14967 23 QLLADALAAE--GLGPGRRVLDLCTGSGALAVAAAA 56 (223)
T ss_pred HHHHHHHHhc--ccCCCCeEEEecCCHHHHHHHHHH
Confidence 4455666554 368899999999999999888765
No 65
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=80.69 E-value=0.83 Score=42.81 Aligned_cols=34 Identities=26% Similarity=0.617 Sum_probs=28.5
Q ss_pred ccccccccCC-CCCCCCCCCeeeecCCCCCCCCCccccccccc
Q 000583 287 QHQCFACGKL-GSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 328 (1407)
Q Consensus 287 QHqCFVCGkl-GSSDK~SGaELfrCsvasCGRFYHpkCLa~ll 328 (1407)
...|.+|++. | -.+.|....|.+.||+.|.....
T Consensus 36 ~~~C~~C~~~~G--------a~i~C~~~~C~~~fH~~CA~~~~ 70 (90)
T PF13771_consen 36 KLKCSICKKKGG--------ACIGCSHPGCSRSFHVPCARKAG 70 (90)
T ss_pred CCCCcCCCCCCC--------eEEEEeCCCCCcEEChHHHccCC
Confidence 3479999987 4 47899999999999999998753
No 66
>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=78.27 E-value=0.73 Score=50.37 Aligned_cols=101 Identities=27% Similarity=0.366 Sum_probs=49.3
Q ss_pred hccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhhCCccccc------
Q 000583 691 NKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYK------ 764 (1407)
Q Consensus 691 ~kL~vylaP~l~G~ryts~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~k------ 764 (1407)
|--|||.+|-|-+.|- ||-=.|.+|++|+|++||-.-|+-.+-+. ++.+..-
T Consensus 78 D~~kvyfs~rl~~Er~------------------Ri~~~v~~~e~VlD~faGIG~f~l~~ak~----~~~~~V~A~d~Np 135 (200)
T PF02475_consen 78 DLSKVYFSPRLSTERR------------------RIANLVKPGEVVLDMFAGIGPFSLPIAKH----GKAKRVYAVDLNP 135 (200)
T ss_dssp ETTTS---GGGHHHHH------------------HHHTC--TT-EEEETT-TTTTTHHHHHHH----T-SSEEEEEES-H
T ss_pred ccceEEEccccHHHHH------------------HHHhcCCcceEEEEccCCccHHHHHHhhh----cCccEEEEecCCH
Confidence 3446777776655542 33345999999999999999999988551 2333221
Q ss_pred --------cccccCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccC
Q 000583 765 --------NYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFN 822 (1407)
Q Consensus 765 --------n~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~ 822 (1407)
|-.+=.-++....-.-|..++-+ -..-+.+|||| |+. |..|++.|+...
T Consensus 136 ~a~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~--~~~~drvim~l-p~~------~~~fl~~~~~~~ 192 (200)
T PF02475_consen 136 DAVEYLKENIRLNKVENRIEVINGDAREFLP--EGKFDRVIMNL-PES------SLEFLDAALSLL 192 (200)
T ss_dssp HHHHHHHHHHHHTT-TTTEEEEES-GGG-----TT-EEEEEE---TSS------GGGGHHHHHHHE
T ss_pred HHHHHHHHHHHHcCCCCeEEEEcCCHHHhcC--ccccCEEEECC-hHH------HHHHHHHHHHHh
Confidence 11111112333233334433333 23346899995 664 457888887654
No 67
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=76.31 E-value=5.5 Score=45.59 Aligned_cols=116 Identities=20% Similarity=0.340 Sum_probs=73.2
Q ss_pred cccCcccchhhh-HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhh-----hCCcc---------ccccccccCC
Q 000583 707 TSFGRHFTKVDK-LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-----TGKNC---------LYKNYDILPA 771 (1407)
Q Consensus 707 ts~grhftk~ek-l~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~-----~gk~c---------~~kn~dl~~~ 771 (1407)
-+||.||..-.. +..||+... ++++|+|++.-+|--.+-.-|-++... ....| .+.|+.||+
T Consensus 6 K~~GQnFL~d~~v~~kIv~~a~--~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~~l~~~L~~~~~~~~n~~vi~- 82 (259)
T COG0030 6 KRLGQNFLIDKNVIDKIVEAAN--ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDRRLAEVLKERFAPYDNLTVIN- 82 (259)
T ss_pred CCcccccccCHHHHHHHHHhcC--CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCHHHHHHHHHhcccccceEEEe-
Confidence 479999976544 677888765 567999999999999887665432211 00000 356666664
Q ss_pred CCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCc--EEEEecCCc-cccccc
Q 000583 772 KNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPK--LLILIVPPE-TERLDR 839 (1407)
Q Consensus 772 kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~Pk--liili~P~~-t~rld~ 839 (1407)
.|-|.++..+|- +...|+| |.||. .+..+|-|.|+..+. -.++.+=.| .+||=.
T Consensus 83 --------~DaLk~d~~~l~-~~~~vVa-NlPY~----Isspii~kll~~~~~~~~~v~M~QkEva~Rl~A 139 (259)
T COG0030 83 --------GDALKFDFPSLA-QPYKVVA-NLPYN----ISSPILFKLLEEKFIIQDMVLMVQKEVAERLVA 139 (259)
T ss_pred --------CchhcCcchhhc-CCCEEEE-cCCCc----ccHHHHHHHHhccCccceEEEEeHHHHHHHHhC
Confidence 444555555554 6668888 99999 566666666666654 444444333 344433
No 68
>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=75.67 E-value=9 Score=41.22 Aligned_cols=110 Identities=14% Similarity=0.150 Sum_probs=56.3
Q ss_pred hhhH-HHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHh--hhCCccc-------cccccccCCCCCccccccccccc
Q 000583 716 VDKL-QAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD--ETGKNCL-------YKNYDILPAKNDFNFEKRDWMTV 785 (1407)
Q Consensus 716 ~ekl-~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~--~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v 785 (1407)
.+++ +.+...|.-++ .|..|+|++||+..|+-..-.+.. -+..+.. -+|.....-.+...|.+.|-+..
T Consensus 33 ~~~vrea~f~~l~~~~-~g~~vLDLfaGsG~lglea~srga~~v~~vE~~~~a~~~~~~N~~~~~~~~~~~~~~~D~~~~ 111 (189)
T TIGR00095 33 TRVVRELFFNILRPEI-QGAHLLDVFAGSGLLGEEALSRGAKVAFLEEDDRKANQTLKENLALLKSGEQAEVVRNSALRA 111 (189)
T ss_pred hHHHHHHHHHHHHHhc-CCCEEEEecCCCcHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHhCCcccEEEEehhHHHH
Confidence 3444 44666665444 488999999999999877644321 1111111 24444443223344555554332
Q ss_pred cCCCCC-CCC-eeeeeeCCCccchhhhHHHHHH---hhhccCCcEEEEe
Q 000583 786 EPKELA-PGS-RLIMGLNPPFGVKAGLANKFIN---KALEFNPKLLILI 829 (1407)
Q Consensus 786 ~~~elp-~G~-~LimgLnPPfg~~a~lAnkFi~---kal~f~Pkliili 829 (1407)
-. .+. .+. -.|+=++|||+... -.+-+. +.--.++.-||++
T Consensus 112 l~-~~~~~~~~~dvv~~DPPy~~~~--~~~~l~~l~~~~~l~~~~iiv~ 157 (189)
T TIGR00095 112 LK-FLAKKPTFDNVIYLDPPFFNGA--LQALLELCENNWILEDTVLIVV 157 (189)
T ss_pred HH-HhhccCCCceEEEECcCCCCCc--HHHHHHHHHHCCCCCCCeEEEE
Confidence 11 121 222 47777899998532 222222 2222566766655
No 69
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=75.09 E-value=1.8 Score=49.33 Aligned_cols=35 Identities=23% Similarity=0.574 Sum_probs=28.0
Q ss_pred CeeeecCCCCCC-CCCcccccccccccchHHHHHHHhHhhccCCceeCCCC
Q 000583 305 AEVFPCVSATCG-HFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLH 354 (1407)
Q Consensus 305 aELfrCsvasCG-RFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH 354 (1407)
++++-|+.++|. -+||..||..-..| ...|+||.|
T Consensus 232 GqMVaCDn~nCkrEWFH~~CVGLk~pP---------------KG~WYC~eC 267 (271)
T COG5034 232 GQMVACDNANCKREWFHLECVGLKEPP---------------KGKWYCPEC 267 (271)
T ss_pred ccceecCCCCCchhheeccccccCCCC---------------CCcEeCHHh
Confidence 589999999996 79999999865322 357999875
No 70
>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=74.97 E-value=1.9 Score=48.05 Aligned_cols=68 Identities=22% Similarity=0.374 Sum_probs=38.6
Q ss_pred CCcEEeccCCcchHHHHHHHHHh---hhCCcc-------ccccccccCCCCCccccccccccccCCCCCCCCeeeeeeCC
Q 000583 733 GDMIVDFCCGANDFSCLMKKKLD---ETGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNP 802 (1407)
Q Consensus 733 gd~ivdfccg~n~fs~lmk~kl~---~~gk~c-------~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnP 802 (1407)
+..|+|+|||+--|+..+.++.. -++.+. .-+|... |...|...||...-++.+. +..=++-+||
T Consensus 87 ~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~----~~~~~~~~D~~~~l~~~~~-~~fDlVv~NP 161 (251)
T TIGR03704 87 TLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLAD----AGGTVHEGDLYDALPTALR-GRVDILAANA 161 (251)
T ss_pred CCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHH----cCCEEEEeechhhcchhcC-CCEeEEEECC
Confidence 35799999999999988765432 112221 1233322 2246777888764443332 3322344599
Q ss_pred Ccc
Q 000583 803 PFG 805 (1407)
Q Consensus 803 Pfg 805 (1407)
||-
T Consensus 162 Py~ 164 (251)
T TIGR03704 162 PYV 164 (251)
T ss_pred CCC
Confidence 985
No 71
>PRK05785 hypothetical protein; Provisional
Probab=74.74 E-value=3.8 Score=44.98 Aligned_cols=59 Identities=20% Similarity=0.324 Sum_probs=41.1
Q ss_pred hHhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000583 682 VLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 682 vl~ql~~wk~kL~vylaP~l~G~ryts~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
.-+.+..+.|.+. +..|||++--- -+++++.|..+..++.+|+|++||..++...+.++
T Consensus 14 ~f~~iA~~YD~~n----------~~~s~g~~~~w---r~~~~~~l~~~~~~~~~VLDlGcGtG~~~~~l~~~ 72 (226)
T PRK05785 14 AYNKIPKAYDRAN----------RFISFNQDVRW---RAELVKTILKYCGRPKKVLDVAAGKGELSYHFKKV 72 (226)
T ss_pred HHHhhhHHHHHhh----------hhccCCCcHHH---HHHHHHHHHHhcCCCCeEEEEcCCCCHHHHHHHHh
Confidence 3445556655543 45677777322 23566666667677999999999999999998776
No 72
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=73.30 E-value=4.6 Score=47.44 Aligned_cols=115 Identities=12% Similarity=0.215 Sum_probs=61.8
Q ss_pred hhhhHHHHHHhhcccccC-CCcEEeccCCcchHHHHHHHHHhh-hCC-------ccccccccccCCCCCccccccccccc
Q 000583 715 KVDKLQAIVDKLHWYVND-GDMIVDFCCGANDFSCLMKKKLDE-TGK-------NCLYKNYDILPAKNDFNFEKRDWMTV 785 (1407)
Q Consensus 715 k~ekl~~i~~~Lh~yv~~-gd~ivdfccg~n~fs~lmk~kl~~-~gk-------~c~~kn~dl~~~kn~f~Fe~~dw~~v 785 (1407)
+.+-.+.+++.+.-+++. +..|+|++||...|+..+.++... +|. .+.=+|..+..- ++..|...|..+.
T Consensus 188 N~~~~e~l~~~v~~~~~~~~~~vLDl~~G~G~~sl~la~~~~~v~~vE~~~~ai~~a~~N~~~~~~-~~v~~~~~d~~~~ 266 (362)
T PRK05031 188 NAAVNEKMLEWALDATKGSKGDLLELYCGNGNFTLALARNFRRVLATEISKPSVAAAQYNIAANGI-DNVQIIRMSAEEF 266 (362)
T ss_pred CHHHHHHHHHHHHHHhhcCCCeEEEEeccccHHHHHHHhhCCEEEEEECCHHHHHHHHHHHHHhCC-CcEEEEECCHHHH
Confidence 344566677776666653 457999999999999888764220 000 111133222211 1344555554432
Q ss_pred cCC-----CC--CC-----C-CeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCcc
Q 000583 786 EPK-----EL--AP-----G-SRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET 834 (1407)
Q Consensus 786 ~~~-----el--p~-----G-~~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili~P~~t 834 (1407)
-++ ++ +. + ..=++-|+||. +.+..+.|...++. .++|++=.-|.|
T Consensus 267 l~~~~~~~~~~~~~~~~~~~~~~D~v~lDPPR---~G~~~~~l~~l~~~-~~ivyvSC~p~t 324 (362)
T PRK05031 267 TQAMNGVREFNRLKGIDLKSYNFSTIFVDPPR---AGLDDETLKLVQAY-ERILYISCNPET 324 (362)
T ss_pred HHHHhhcccccccccccccCCCCCEEEECCCC---CCCcHHHHHHHHcc-CCEEEEEeCHHH
Confidence 111 00 01 1 11255579995 67889998888773 355544444444
No 73
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=72.20 E-value=1.7 Score=51.33 Aligned_cols=89 Identities=28% Similarity=0.369 Sum_probs=50.7
Q ss_pred hhcccccCCCcEEeccCCcchHHHHHHHHHhhh----CCc-----cccccccccCCCCCccccccccccccCCCCCCCCe
Q 000583 725 KLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET----GKN-----CLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSR 795 (1407)
Q Consensus 725 ~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~----gk~-----c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~ 795 (1407)
|+-=.|.+|++|||+-+|---||-.+-++-... .++ +.=+|--|=.-++....---|=-.| +.+++..+.
T Consensus 181 Rva~~v~~GE~V~DmFAGVGpfsi~~Ak~g~~~V~A~diNP~A~~~L~eNi~LN~v~~~v~~i~gD~rev-~~~~~~aDr 259 (341)
T COG2520 181 RVAELVKEGETVLDMFAGVGPFSIPIAKKGRPKVYAIDINPDAVEYLKENIRLNKVEGRVEPILGDAREV-APELGVADR 259 (341)
T ss_pred HHHhhhcCCCEEEEccCCcccchhhhhhcCCceEEEEecCHHHHHHHHHHHHhcCccceeeEEeccHHHh-hhccccCCE
Confidence 444557789999999999999998876643331 111 1112222211112111111111111 122377899
Q ss_pred eeeeeCCCccchhhhHHHHHHhhhcc
Q 000583 796 LIMGLNPPFGVKAGLANKFINKALEF 821 (1407)
Q Consensus 796 LimgLnPPfg~~a~lAnkFi~kal~f 821 (1407)
+||| +|+ .|-+|+..|++.
T Consensus 260 Iim~-~p~------~a~~fl~~A~~~ 278 (341)
T COG2520 260 IIMG-LPK------SAHEFLPLALEL 278 (341)
T ss_pred EEeC-CCC------cchhhHHHHHHH
Confidence 9999 555 678999999864
No 74
>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=71.27 E-value=4 Score=47.83 Aligned_cols=102 Identities=18% Similarity=0.299 Sum_probs=56.2
Q ss_pred CCcEEeccCCcchHHHHHHHHHhh-hCC-------ccccccccccCCCCCccccccccccccCC-----CCC--CC----
Q 000583 733 GDMIVDFCCGANDFSCLMKKKLDE-TGK-------NCLYKNYDILPAKNDFNFEKRDWMTVEPK-----ELA--PG---- 793 (1407)
Q Consensus 733 gd~ivdfccg~n~fs~lmk~kl~~-~gk-------~c~~kn~dl~~~kn~f~Fe~~dw~~v~~~-----elp--~G---- 793 (1407)
++.|+|++||.-.|+-.+.++... +|. .+.=+|..+-.-+ +..|...|....-+. .++ .|
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 457999999999999988764210 000 1112344333222 255666665442221 110 11
Q ss_pred C--eeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCccccccc
Q 000583 794 S--RLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDR 839 (1407)
Q Consensus 794 ~--~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili~P~~t~rld~ 839 (1407)
. .=++-|+|| ++.+..++++-.+.. .++|.+=.-|.|=-=|-
T Consensus 277 ~~~~d~v~lDPP---R~G~~~~~l~~l~~~-~~ivYvsC~p~tlaRDl 320 (353)
T TIGR02143 277 SYNCSTIFVDPP---RAGLDPDTCKLVQAY-ERILYISCNPETLKANL 320 (353)
T ss_pred cCCCCEEEECCC---CCCCcHHHHHHHHcC-CcEEEEEcCHHHHHHHH
Confidence 0 124567999 678888998877772 35555555665543343
No 75
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=70.77 E-value=1.6 Score=54.86 Aligned_cols=34 Identities=26% Similarity=0.779 Sum_probs=25.5
Q ss_pred cccCCccccccCCC--------Cceeecc-ccccccccCcccc
Q 000583 223 DELFDSVCSFCDNG--------GDLLCCE-GRCLRSFHATIDA 256 (1407)
Q Consensus 223 dDl~DdVCaIC~dG--------GeLLCCD-GsC~RSFH~~Cld 256 (1407)
.|.+...|.||+.- |.-+.|. -.|.++||.+|+.
T Consensus 113 ~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ 155 (900)
T KOG0956|consen 113 HDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQ 155 (900)
T ss_pred hhhhcceeeeecccCCccccccccceecccccchhhhhhhHhh
Confidence 45678899999864 3345565 4599999999864
No 76
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=70.68 E-value=5.7 Score=43.50 Aligned_cols=74 Identities=20% Similarity=0.349 Sum_probs=42.6
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHHhhh---CC-------ccccccccccCCCCCccccccccccccCCCCCCCCe-eee
Q 000583 730 VNDGDMIVDFCCGANDFSCLMKKKLDET---GK-------NCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSR-LIM 798 (1407)
Q Consensus 730 v~~gd~ivdfccg~n~fs~lmk~kl~~~---gk-------~c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~-Lim 798 (1407)
..++.+|+|++||.-.++..|.+.+... |. ...-+|+. ....+...|...||+.- ++.+.. +|+
T Consensus 106 ~~~~~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~-~~~~~~i~~~~~d~~~~----~~~~~fD~Iv 180 (275)
T PRK09328 106 LKEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAK-HGLGARVEFLQGDWFEP----LPGGRFDLIV 180 (275)
T ss_pred ccCCCEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHH-hCCCCcEEEEEccccCc----CCCCceeEEE
Confidence 3577899999999999988886654110 10 01112222 11234567777787542 223433 555
Q ss_pred eeCCCccchhh
Q 000583 799 GLNPPFGVKAG 809 (1407)
Q Consensus 799 gLnPPfg~~a~ 809 (1407)
. ||||.-...
T Consensus 181 ~-npPy~~~~~ 190 (275)
T PRK09328 181 S-NPPYIPEAD 190 (275)
T ss_pred E-CCCcCCcch
Confidence 5 999975443
No 77
>PLN02672 methionine S-methyltransferase
Probab=66.91 E-value=15 Score=49.44 Aligned_cols=148 Identities=14% Similarity=0.121 Sum_probs=79.7
Q ss_pred HHHHHHHHHhcccCCCChHHHhhhcChhhHhHHHHHh------------hccccccccccccccccccCcccc-------
Q 000583 654 VEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWK------------NKLKVYLAPFLHGMRYTSFGRHFT------- 714 (1407)
Q Consensus 654 V~Avr~AL~kle~~g~siedAkAvc~p~vl~ql~~wk------------~kL~vylaP~l~G~ryts~grhft------- 714 (1407)
-+|.|..|++|+ +-.+.-+|.+.- ..|...+.=+ .-=.|+|.|.- |.++ =||+-|.
T Consensus 23 ~~~~~~~~~~~~-~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-G~~~-F~~l~~~V~p~VLI 97 (1082)
T PLN02672 23 YGAFKGVLERLE-DPTTRSDARKLL--SAVEKRVAASEAGEDCFATYHFRIHDLVLDDYE-GFRN-RKKLTMMEIPSIFI 97 (1082)
T ss_pred HHHHHHHHHHhc-CccccHHHHHHH--HHHHHHhcccCcccchhhhcceEEeeEEEcCCC-CeEE-ecCCceeeCCCccc
Confidence 467777788887 666666666543 1222222211 01146788765 6553 4566553
Q ss_pred ---hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhh---hCCcc-------cccccccc------------
Q 000583 715 ---KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE---TGKNC-------LYKNYDIL------------ 769 (1407)
Q Consensus 715 ---k~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~---~gk~c-------~~kn~dl~------------ 769 (1407)
-.|.|.+..++...-.-.|.+|+|+|||+--.+..+.++... ++.+. .-+|-.+-
T Consensus 98 PRpeTE~lve~L~~~~~~~~~~~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~~~~ 177 (1082)
T PLN02672 98 PEDWSFTFYEGLNRHPDSIFRDKTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPVYDG 177 (1082)
T ss_pred CchhHHHHHHHHHhcccccCCCCEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCccccccccccc
Confidence 123343333322111113568999999999999988775431 11111 12333221
Q ss_pred ---CCCCCccccccccccccCCCCCCCCeeeeeeCCCccchh
Q 000583 770 ---PAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKA 808 (1407)
Q Consensus 770 ---~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a 808 (1407)
...+...|...||++.-+. ...-=-||++ |||+=..+
T Consensus 178 ~~~~l~~rV~f~~sDl~~~~~~-~~~~fDlIVS-NPPYI~~~ 217 (1082)
T PLN02672 178 EGKTLLDRVEFYESDLLGYCRD-NNIELDRIVG-CIPQILNP 217 (1082)
T ss_pred ccccccccEEEEECchhhhccc-cCCceEEEEE-CCCcCCCc
Confidence 0124689999999864321 1001248888 99986544
No 78
>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=66.36 E-value=6.4 Score=42.74 Aligned_cols=51 Identities=12% Similarity=0.051 Sum_probs=44.8
Q ss_pred cccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000583 703 GMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 703 G~ryts~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
|.+|+.-+|...-+.+.-+.+.++...+.++++|+|+.||.-.++..|.+.
T Consensus 14 g~~~~~rn~~~~~~~~~~~~~~~~l~~~~~~~~VLDiGCG~G~~~~~L~~~ 64 (204)
T TIGR03587 14 GKEYIDRNSRQSLVAAKLAMFARALNRLPKIASILELGANIGMNLAALKRL 64 (204)
T ss_pred cchhhhccccHHHHHHHHHHHHHHHHhcCCCCcEEEEecCCCHHHHHHHHh
Confidence 778999999888777777788888888999999999999999999988664
No 79
>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=66.27 E-value=5.2 Score=42.63 Aligned_cols=21 Identities=19% Similarity=0.476 Sum_probs=18.7
Q ss_pred ccccCCCCCCcccccccccccccccccc
Q 000583 381 AYHRKCLPRKIAFEDKLEEGIITRAWEG 408 (1407)
Q Consensus 381 AYH~kCLPPpIsFe~~~~EgIp~RAW~C 408 (1407)
.||..||.|++. .+|.+.|.|
T Consensus 1 g~H~~CL~Ppl~-------~~P~g~W~C 21 (148)
T cd04718 1 GFHLCCLRPPLK-------EVPEGDWIC 21 (148)
T ss_pred CcccccCCCCCC-------CCCCCCcCC
Confidence 599999999996 688899996
No 80
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=66.20 E-value=1.6 Score=59.34 Aligned_cols=59 Identities=20% Similarity=0.469 Sum_probs=41.8
Q ss_pred cCCccccccCCCC---ceeeccccccccccCccccccccccccCCCChhhhcccCcccccCccccc---cccccccC
Q 000583 225 LFDSVCSFCDNGG---DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQ---HQCFACGK 295 (1407)
Q Consensus 225 l~DdVCaIC~dGG---eLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~gQ---HqCFVCGk 295 (1407)
...-.|.+|...+ .++.|++ |...||..|. .+.++.. +.+.|+|+.|...+ -+|..|+.
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~--------rp~~~~~---~~~dW~C~~c~~e~~~rr~~~~~~~ 1170 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCL--------RPALSSV---PPGDWMCPSCRKEHRARRQKRFRKE 1170 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhHh-hhhhHHHHhh--------hhhhccC---CcCCccCCccchhhhhhhhhhhhcc
Confidence 4467899999754 6999994 9999999954 3444432 56889999997654 24444443
No 81
>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=61.03 E-value=6.6 Score=44.32 Aligned_cols=68 Identities=16% Similarity=0.214 Sum_probs=40.0
Q ss_pred CcEEeccCCcchHHHHHHHHHhh---hCCccc-------cccccccCCCCCccccccccccccCCCCCCC-CeeeeeeCC
Q 000583 734 DMIVDFCCGANDFSCLMKKKLDE---TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPG-SRLIMGLNP 802 (1407)
Q Consensus 734 d~ivdfccg~n~fs~lmk~kl~~---~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G-~~LimgLnP 802 (1407)
..|+|+|||+--+...+...+.. ++.+.+ -+|.....-.+...|...||+.. ++.. =-+|+. ||
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 68999999999998888664321 111111 13332222234578888898753 3322 235555 99
Q ss_pred Cccc
Q 000583 803 PFGV 806 (1407)
Q Consensus 803 Pfg~ 806 (1407)
||--
T Consensus 191 Pyi~ 194 (284)
T TIGR00536 191 PYID 194 (284)
T ss_pred CCCC
Confidence 9863
No 82
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=60.67 E-value=6.8 Score=48.19 Aligned_cols=57 Identities=21% Similarity=0.518 Sum_probs=41.3
Q ss_pred cccccCCCCCCCCCCCceeecccCCcccccCCCCCCcccccccccccccccccc---ccCCC--ceeEeccCC
Q 000583 355 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG---LLPNH--RILIYCLKH 422 (1407)
Q Consensus 355 ~C~vCkqseDkn~segKLIrCdRCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~C---LL~nc--RILIyCpkH 422 (1407)
.|.+|....+.+ ...++.|+.|..+.|..|.- +.| +|.+-|.| ++.-+ ++|..||.|
T Consensus 195 ~C~~c~~t~~eN--~naiVfCdgC~i~VHq~CYG--I~f-------~peG~WlCrkCi~~~~~i~~C~fCps~ 256 (669)
T COG5141 195 ICTKCTSTHNEN--SNAIVFCDGCEICVHQSCYG--IQF-------LPEGFWLCRKCIYGEYQIRCCSFCPSS 256 (669)
T ss_pred hhHhccccccCC--cceEEEecCcchhhhhhccc--cee-------cCcchhhhhhhcccccceeEEEeccCC
Confidence 488888776543 34799999999999999964 433 56788987 32222 457889988
No 83
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=57.95 E-value=53 Score=33.53 Aligned_cols=108 Identities=17% Similarity=0.264 Sum_probs=63.2
Q ss_pred hhhHHHHHHhhccc---ccCCCcEEeccCCcchHHHHHHHHHhhhCCccccccccccC----------------CCCCcc
Q 000583 716 VDKLQAIVDKLHWY---VNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP----------------AKNDFN 776 (1407)
Q Consensus 716 ~ekl~~i~~~Lh~y---v~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~~----------------~kn~f~ 776 (1407)
++.+.++++.+.-. ..+..+|||||||-.-.++++-..|......+..--.|.=+ -.+.+.
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 44455555555433 46788999999999999999988665554344333222211 113344
Q ss_pred ccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecC
Q 000583 777 FEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVP 831 (1407)
Q Consensus 777 Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~Pkliili~P 831 (1407)
|...+.-... ...+..+++||-. =+.|+-.-|..+..-+.+.|+ +||
T Consensus 86 ~~~~~~~~~~---~~~~~~~~vgLHa----CG~Ls~~~l~~~~~~~~~~l~-~vp 132 (141)
T PF13679_consen 86 FIQGDIADES---SSDPPDILVGLHA----CGDLSDRALRLFIRPNARFLV-LVP 132 (141)
T ss_pred hhccchhhhc---ccCCCeEEEEeec----ccchHHHHHHHHHHcCCCEEE-EcC
Confidence 4433222211 2556678888764 345888888888883344443 344
No 84
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=56.82 E-value=6.9 Score=42.88 Aligned_cols=46 Identities=22% Similarity=0.437 Sum_probs=35.1
Q ss_pred cccCccccccccccccCCCCCCCCCCCeeeecCCCCCCCCCccccccc
Q 000583 279 FCKNCEYKQHQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSK 326 (1407)
Q Consensus 279 ~CpnCe~gQHqCFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ 326 (1407)
.|.-|..+-..|.+|...+..--+....+.+|. .|+..||..|...
T Consensus 144 ~C~lC~~kGfiCe~C~~~~~IfPF~~~~~~~C~--~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 144 SCELCQQKGFICEICNSDDIIFPFQIDTTVRCP--KCKSVFHKSCFRK 189 (202)
T ss_pred HhHHHHhCCCCCccCCCCCCCCCCCCCCeeeCC--cCccccchhhcCC
Confidence 688888887889999876433111224789999 9999999999984
No 85
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=56.05 E-value=6.4 Score=50.31 Aligned_cols=43 Identities=16% Similarity=0.537 Sum_probs=32.2
Q ss_pred cccccCCCCCCCCCCCceeecccCCcccccCCCCCCcccccccccccccccccc
Q 000583 355 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG 408 (1407)
Q Consensus 355 ~C~vCkqseDkn~segKLIrCdRCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~C 408 (1407)
.|.+|..+.-. ....|++|+.|....|..|.-. +.+|...|.|
T Consensus 273 iCDvCrspD~e--~~neMVfCd~Cn~cVHqaCyGI---------le~p~gpWlC 315 (893)
T KOG0954|consen 273 ICDVCRSPDSE--EANEMVFCDKCNICVHQACYGI---------LEVPEGPWLC 315 (893)
T ss_pred eeceecCCCcc--ccceeEEeccchhHHHHhhhce---------eecCCCCeee
Confidence 49999886321 2347999999999999999543 2466788987
No 86
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=55.84 E-value=7.1 Score=36.39 Aligned_cols=39 Identities=26% Similarity=0.563 Sum_probs=16.6
Q ss_pred ccccccCCCCCCCCCCCeeeecCCCCCCCCCcccccccccc
Q 000583 289 QCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLL 329 (1407)
Q Consensus 289 qCFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll~ 329 (1407)
.|.||...-..+ .....+.|..+.|++.||..||..|+.
T Consensus 4 ~C~IC~~~~~~~--~~~p~~~C~n~~C~~~fH~~CL~~wf~ 42 (70)
T PF11793_consen 4 ECGICYSYRLDD--GEIPDVVCPNPSCGKKFHLLCLSEWFL 42 (70)
T ss_dssp S-SSS--SS-TT-------B--S-TT----B-SGGGHHHHH
T ss_pred CCCcCCcEecCC--CCcCceEcCCcccCCHHHHHHHHHHHH
Confidence 577886542211 112468899999999999999999974
No 87
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.47 E-value=6.4 Score=46.80 Aligned_cols=69 Identities=17% Similarity=0.299 Sum_probs=36.8
Q ss_pred cCCceeeeecceeecccccCCCCcceeEEEeecCCCCcEEEEEEEEEEeecCCCcceEEEEecCCceEEeCCccch-HHH
Q 000583 28 QKEIISFSALPIQWNENERTGGCKELIYLRGAADSGLQKIFKPVIAWKFDLTNVIPEIFVLSKENSWIKLQKPRKC-YEE 106 (1407)
Q Consensus 28 ~~~pVsFs~LPi~w~~~~~~~~~k~~vfLrG~~dnGlq~i~k~V~AWr~~L~~~~PeIsVLs~e~~WI~L~KPrks-Yee 106 (1407)
++.-.+|..||-.|+-+=...+ -.++.+.-..+|+=.+|+.- |+- -+....|+-|..=-.| |++
T Consensus 30 ~n~S~sf~d~~a~f~~s~~~e~-~~G~l~~~ep~~aC~~i~~~------------p~~--~~~~~~~laLI~Rg~CsFe~ 94 (348)
T KOG4628|consen 30 RNTSLSFADLPALFGPSLPSEG-NLGVLVVAEPLNACNPITNF------------PEH--STRSTSFLALIRRGGCSFED 94 (348)
T ss_pred ccccccccCCccccCCcccccc-ceeeeecCCCccccCccccC------------ccC--CCCCcceEEEEEccCCchHH
Confidence 4445578888888877332111 12233322223444444442 111 2333577777665556 999
Q ss_pred HHHHH
Q 000583 107 IYRTI 111 (1407)
Q Consensus 107 ~iRtv 111 (1407)
+||.+
T Consensus 95 Kv~~A 99 (348)
T KOG4628|consen 95 KVLNA 99 (348)
T ss_pred HHhhc
Confidence 99875
No 88
>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=54.96 E-value=15 Score=36.19 Aligned_cols=36 Identities=19% Similarity=0.433 Sum_probs=30.3
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000583 717 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 752 (1407)
Q Consensus 717 ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 752 (1407)
+.+.+++.+|..+..++..|+|+-||...|+..|.+
T Consensus 7 ~~~~~~~~~~~~~~~~~~~vLDiGcG~G~~~~~l~~ 42 (161)
T PF13489_consen 7 RAYADLLERLLPRLKPGKRVLDIGCGTGSFLRALAK 42 (161)
T ss_dssp HCHHHHHHHHHTCTTTTSEEEEESSTTSHHHHHHHH
T ss_pred HHHHHHHHHHhcccCCCCEEEEEcCCCCHHHHHHHH
Confidence 345677777777789999999999999999999955
No 89
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=54.37 E-value=7.2 Score=51.78 Aligned_cols=42 Identities=21% Similarity=0.623 Sum_probs=35.1
Q ss_pred cccccCCCCCCCCCCCceeecccCCcccccCCCCCCcccccccccccccccccccc
Q 000583 355 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLL 410 (1407)
Q Consensus 355 ~C~vCkqseDkn~segKLIrCdRCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~CLL 410 (1407)
.|..|...++ ++.|..||+.||..|+.++.- ..+..-|.|.+
T Consensus 346 hcrf~~d~~~-------~lc~Et~prvvhlEcv~hP~~-------~~~s~~~e~ev 387 (1414)
T KOG1473|consen 346 HCRFCHDLGD-------LLCCETCPRVVHLECVFHPRF-------AVPSAFWECEV 387 (1414)
T ss_pred cccccCcccc-------eeecccCCceEEeeecCCccc-------cCCCccchhhh
Confidence 3999987765 889999999999999999863 56778899854
No 90
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=53.55 E-value=3.7 Score=55.98 Aligned_cols=43 Identities=19% Similarity=0.634 Sum_probs=36.4
Q ss_pred cccccCCCCCCCCCCCceeecccCCcccccCCCCCCcccccccccccccccccc
Q 000583 355 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG 408 (1407)
Q Consensus 355 ~C~vCkqseDkn~segKLIrCdRCPkAYH~kCLPPpIsFe~~~~EgIp~RAW~C 408 (1407)
.|.+|...... ..|+.|+-|..+||..|+.+.+. ..+-+.|.|
T Consensus 1110 ~c~~cr~k~~~----~~m~lc~~c~~~~h~~C~rp~~~-------~~~~~dW~C 1152 (1404)
T KOG1245|consen 1110 LCKVCRRKKQD----EKMLLCDECLSGFHLFCLRPALS-------SVPPGDWMC 1152 (1404)
T ss_pred hhhhhhhcccc----hhhhhhHhhhhhHHHHhhhhhhc-------cCCcCCccC
Confidence 59999987654 36999999999999999999875 567788997
No 91
>COG0286 HsdM Type I restriction-modification system methyltransferase subunit [Defense mechanisms]
Probab=52.40 E-value=16 Score=45.04 Aligned_cols=49 Identities=22% Similarity=0.278 Sum_probs=43.7
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhhC
Q 000583 708 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETG 758 (1407)
Q Consensus 708 s~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~g 758 (1407)
+.|.+||-.+--+=||+.|-. +++++|.|.|||+..|.....+.+.+..
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 689999999999999999988 9999999999999999988888776543
No 92
>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=52.34 E-value=8.3 Score=42.94 Aligned_cols=56 Identities=21% Similarity=0.421 Sum_probs=19.7
Q ss_pred hHhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000583 682 VLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 752 (1407)
Q Consensus 682 vl~ql~~wk~kL~vylaP~l~G~ryts~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 752 (1407)
..++|....|.+. +--|||.|---..++.+++ -+.+|++|+|+|||.-+++..+-+
T Consensus 12 ~Fd~ia~~YD~~n----------~~ls~g~~~~wr~~~~~~~-----~~~~g~~vLDv~~GtG~~~~~l~~ 67 (233)
T PF01209_consen 12 MFDRIAPRYDRMN----------DLLSFGQDRRWRRKLIKLL-----GLRPGDRVLDVACGTGDVTRELAR 67 (233)
T ss_dssp -----------------------------------SHHHHHH-----T--S--EEEEET-TTSHHHHHHGG
T ss_pred HHHHHHHHhCCCc----------cccCCcHHHHHHHHHHhcc-----CCCCCCEEEEeCCChHHHHHHHHH
Confidence 4455566666553 4457787755555544443 368999999999999999988744
No 93
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=51.98 E-value=9 Score=48.00 Aligned_cols=27 Identities=22% Similarity=0.369 Sum_probs=18.8
Q ss_pred CccccccCC--CCceeeccccccccccCcccc
Q 000583 227 DSVCSFCDN--GGDLLCCEGRCLRSFHATIDA 256 (1407)
Q Consensus 227 DdVCaIC~d--GGeLLCCDGsC~RSFH~~Cld 256 (1407)
--.|..|.. .|+.|. .|...||..|..
T Consensus 16 ~i~c~~c~~kc~gevlr---v~d~~fhi~cf~ 44 (670)
T KOG1044|consen 16 GIKCDKCRKKCSGEVLR---VNDNHFHINCFQ 44 (670)
T ss_pred ceehhhhCCccccceeE---eeccccceeeee
Confidence 356999987 455442 456899999865
No 94
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=50.24 E-value=22 Score=38.45 Aligned_cols=45 Identities=9% Similarity=0.300 Sum_probs=36.3
Q ss_pred cCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHh
Q 000583 709 FGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD 755 (1407)
Q Consensus 709 ~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~ 755 (1407)
+|++++.+.-...+++.|- +++|+.|+|+.||.--++.+|-+...
T Consensus 56 ~~~~~~~p~~~~~~~~~l~--~~~~~~VLDiG~GsG~~a~~la~~~~ 100 (215)
T TIGR00080 56 YGQTISAPHMVAMMTELLE--LKPGMKVLEIGTGSGYQAAVLAEIVG 100 (215)
T ss_pred CCCEechHHHHHHHHHHhC--CCCcCEEEEECCCccHHHHHHHHHhC
Confidence 3677777766777777774 78999999999999999998877543
No 95
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=49.97 E-value=22 Score=42.63 Aligned_cols=123 Identities=15% Similarity=0.133 Sum_probs=67.3
Q ss_pred cccccccCcccchhhhHHHHHHhhcccccC--CCcEEeccCCcchHHHHHHHHH---hhhCCccccc-------cccccC
Q 000583 703 GMRYTSFGRHFTKVDKLQAIVDKLHWYVND--GDMIVDFCCGANDFSCLMKKKL---DETGKNCLYK-------NYDILP 770 (1407)
Q Consensus 703 G~ryts~grhftk~ekl~~i~~~Lh~yv~~--gd~ivdfccg~n~fs~lmk~kl---~~~gk~c~~k-------n~dl~~ 770 (1407)
+..+.+..--|.. ++|-.=.+-|.-++.. +..|||+.||.-..+..+.++. .-++.+.++. |+..-.
T Consensus 198 ~~~~~~~~gVFs~-~~LD~GtrllL~~lp~~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~ 276 (378)
T PRK15001 198 DWTIHNHANVFSR-TGLDIGARFFMQHLPENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNM 276 (378)
T ss_pred eEEEEecCCccCC-CCcChHHHHHHHhCCcccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcC
Confidence 3445566777764 3443333333333322 4589999999999998887753 2223333333 332222
Q ss_pred CC--CCccccccccccccCCCCCCCCeeeeeeCCCccch----hhhHHHHHHhhhc-cCCcEEEEec
Q 000583 771 AK--NDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVK----AGLANKFINKALE-FNPKLLILIV 830 (1407)
Q Consensus 771 ~k--n~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~----a~lAnkFi~kal~-f~Pkliili~ 830 (1407)
+. ...+|...|.++ .++.++.=++-.||||-.. ..+|.+|+..|.. -+|.=.++||
T Consensus 277 ~~~~~~v~~~~~D~l~----~~~~~~fDlIlsNPPfh~~~~~~~~ia~~l~~~a~~~LkpGG~L~iV 339 (378)
T PRK15001 277 PEALDRCEFMINNALS----GVEPFRFNAVLCNPPFHQQHALTDNVAWEMFHHARRCLKINGELYIV 339 (378)
T ss_pred cccCceEEEEEccccc----cCCCCCEEEEEECcCcccCccCCHHHHHHHHHHHHHhcccCCEEEEE
Confidence 11 245666666654 2333343333449999643 2578889877663 3555444444
No 96
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=49.69 E-value=38 Score=39.68 Aligned_cols=22 Identities=18% Similarity=0.412 Sum_probs=19.0
Q ss_pred CCCcEEeccCCcchHHHHHHHH
Q 000583 732 DGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 732 ~gd~ivdfccg~n~fs~lmk~k 753 (1407)
+|.+|+|++||.-+++..+.++
T Consensus 144 ~~~~VLDlGcGtG~~a~~la~~ 165 (315)
T PLN02585 144 AGVTVCDAGCGTGSLAIPLALE 165 (315)
T ss_pred CCCEEEEecCCCCHHHHHHHHC
Confidence 5789999999999999887653
No 97
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=48.97 E-value=14 Score=46.19 Aligned_cols=36 Identities=33% Similarity=0.566 Sum_probs=31.2
Q ss_pred CccccccCCccccccCCCCceeeccccccccccCccc
Q 000583 219 SNEEDELFDSVCSFCDNGGDLLCCEGRCLRSFHATID 255 (1407)
Q Consensus 219 s~e~dDl~DdVCaIC~dGGeLLCCDGsC~RSFH~~Cl 255 (1407)
..+...+.+.+|+-|.-.|..|.|. .|.|+||-.|.
T Consensus 52 ~~~~~~N~d~~cfechlpg~vl~c~-vc~Rs~h~~c~ 87 (588)
T KOG3612|consen 52 SRLPSSNIDPFCFECHLPGAVLKCI-VCHRSFHENCQ 87 (588)
T ss_pred ccccccCCCcccccccCCcceeeee-hhhcccccccc
Confidence 4555667789999999999999999 89999999964
No 98
>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=48.85 E-value=14 Score=39.58 Aligned_cols=35 Identities=26% Similarity=0.384 Sum_probs=27.1
Q ss_pred HHHHHHhhccccc----CCCcEEeccCCcchHHHHHHHH
Q 000583 719 LQAIVDKLHWYVN----DGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 719 l~~i~~~Lh~yv~----~gd~ivdfccg~n~fs~lmk~k 753 (1407)
...+++++.++++ .+++|+|+.||...|+..+.+.
T Consensus 38 ~~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~~ 76 (219)
T TIGR02021 38 RAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAKR 76 (219)
T ss_pred HHHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHHC
Confidence 3455666777766 5889999999999999888653
No 99
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=48.56 E-value=4.8 Score=43.38 Aligned_cols=105 Identities=26% Similarity=0.344 Sum_probs=53.8
Q ss_pred chhhhHHHHHHhhccccc--CCCcEEeccCCcchHH--HHHHHHHhhhCCccccccccccCCCCCccccc------cccc
Q 000583 714 TKVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFS--CLMKKKLDETGKNCLYKNYDILPAKNDFNFEK------RDWM 783 (1407)
Q Consensus 714 tk~ekl~~i~~~Lh~yv~--~gd~ivdfccg~n~fs--~lmk~kl~~~gk~c~~kn~dl~~~kn~f~Fe~------~dw~ 783 (1407)
|.++-....+.-+|=-.- .|-.+.|+|||-.+.| +-|.+-=.=.|-+.-=-... |...|-..||- -|..
T Consensus 28 T~p~iAasM~~~Ih~TygdiEgkkl~DLgcgcGmLs~a~sm~~~e~vlGfDIdpeALE-If~rNaeEfEvqidlLqcdil 106 (185)
T KOG3420|consen 28 TRPHIAASMLYTIHNTYGDIEGKKLKDLGCGCGMLSIAFSMPKNESVLGFDIDPEALE-IFTRNAEEFEVQIDLLQCDIL 106 (185)
T ss_pred CcHHHHHHHHHHHHhhhccccCcchhhhcCchhhhHHHhhcCCCceEEeeecCHHHHH-HHhhchHHhhhhhheeeeecc
Confidence 445555555555553222 3555899999987765 22211000011111101111 12245555552 2333
Q ss_pred cccCCCCCCCCeeeeeeCCCccchhhhH-HHHHHhhhccC
Q 000583 784 TVEPKELAPGSRLIMGLNPPFGVKAGLA-NKFINKALEFN 822 (1407)
Q Consensus 784 ~v~~~elp~G~~LimgLnPPfg~~a~lA-nkFi~kal~f~ 822 (1407)
+. |+..|-.=.-..|||||-|-.=| -.||++||+.-
T Consensus 107 dl---e~~~g~fDtaviNppFGTk~~~aDm~fv~~al~~~ 143 (185)
T KOG3420|consen 107 DL---ELKGGIFDTAVINPPFGTKKKGADMEFVSAALKVA 143 (185)
T ss_pred ch---hccCCeEeeEEecCCCCcccccccHHHHHHHHHHH
Confidence 32 33345555566799999875545 57999999865
No 100
>COG3802 GguC Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.27 E-value=9.2 Score=44.06 Aligned_cols=66 Identities=33% Similarity=0.630 Sum_probs=55.7
Q ss_pred CccchhhhHHHHHHhhh----------------ccCCcEEEEecCCccccccccCCCceeeeccccccCCcc--------
Q 000583 803 PFGVKAGLANKFINKAL----------------EFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKS-------- 858 (1407)
Q Consensus 803 Pfg~~a~lAnkFi~kal----------------~f~Pkliili~P~~t~rld~k~~~Y~liwed~~~l~gks-------- 858 (1407)
||-+--+|||.|-||.- .|-|.|+|=-+|.+.+-.-++.+.=++||| +-||||..
T Consensus 186 p~RlGfal~NEfSDHvtEr~NYL~LAHSKLR~as~GPEl~vG~lP~~vrG~SRI~Rdg~viwe-k~FlSGE~nMsHs~aN 264 (333)
T COG3802 186 PYRLGFALANEFSDHVTERVNYLYLAHSKLRNASFGPELLVGALPEDVRGVSRILRDGEVIWE-KPFLSGEANMSHSIAN 264 (333)
T ss_pred eeEEeeeecchhhhhhhhccceEEeehhhhhccccCcceeeccCchhhcCceeeecCCEEEEe-cccccCccchhhhhhh
Confidence 99999999999999974 589999999999998877778888899998 46888874
Q ss_pred ----------eecCCCcccch
Q 000583 859 ----------FYLPGSVDEND 869 (1407)
Q Consensus 859 ----------FylPGsvd~nd 869 (1407)
|--||.|+|+.
T Consensus 265 LEhhHFkY~lfrrpGDvHvh~ 285 (333)
T COG3802 265 LEHHHFKYALFRRPGDVHVHF 285 (333)
T ss_pred hhhhhhhhhhhcCCCceEEEE
Confidence 45688888754
No 101
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=47.77 E-value=21 Score=38.74 Aligned_cols=45 Identities=9% Similarity=0.372 Sum_probs=38.6
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 000583 708 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 754 (1407)
Q Consensus 708 s~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl 754 (1407)
-+|++-+.+.-...+++.|. +++|++|+|+.||+--++.+|.+.+
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 46788888888888888886 6899999999999999999997744
No 102
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=46.72 E-value=55 Score=35.11 Aligned_cols=44 Identities=11% Similarity=0.293 Sum_probs=34.4
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000583 708 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 708 s~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
.+|++.+.++-...+.+.|. +++|+.|+|++||.-.++.+|.+.
T Consensus 56 ~~~~~~~~p~~~~~l~~~l~--~~~~~~VLeiG~GsG~~t~~la~~ 99 (212)
T PRK00312 56 GCGQTISQPYMVARMTELLE--LKPGDRVLEIGTGSGYQAAVLAHL 99 (212)
T ss_pred CCCCeeCcHHHHHHHHHhcC--CCCCCEEEEECCCccHHHHHHHHH
Confidence 45666677777777776665 578999999999999999887653
No 103
>PRK14968 putative methyltransferase; Provisional
Probab=46.15 E-value=51 Score=33.78 Aligned_cols=23 Identities=17% Similarity=0.367 Sum_probs=20.0
Q ss_pred cCCCcEEeccCCcchHHHHHHHH
Q 000583 731 NDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 731 ~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
.+|+.|+|+.||.--++..+.+.
T Consensus 22 ~~~~~vLd~G~G~G~~~~~l~~~ 44 (188)
T PRK14968 22 KKGDRVLEVGTGSGIVAIVAAKN 44 (188)
T ss_pred cCCCEEEEEccccCHHHHHHHhh
Confidence 78999999999999998887553
No 104
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=45.95 E-value=24 Score=39.71 Aligned_cols=50 Identities=16% Similarity=0.401 Sum_probs=37.3
Q ss_pred cccccccc---------ccCcccchh---hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHH
Q 000583 700 FLHGMRYT---------SFGRHFTKV---DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMK 751 (1407)
Q Consensus 700 ~l~G~ryt---------s~grhftk~---ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk 751 (1407)
||.-.+|| -||..|-.+ +-..+++++| -+.+|.+|+|+.||.-.++..|.
T Consensus 10 ~~~~~~y~~~~~~~~e~~~g~~~~~~gg~~~~~~~l~~l--~l~~~~~VLDiGcG~G~~a~~la 71 (263)
T PTZ00098 10 YLENNQYSDEGIKAYEFIFGEDYISSGGIEATTKILSDI--ELNENSKVLDIGSGLGGGCKYIN 71 (263)
T ss_pred hhhccccccccchhHHHHhCCCCCCCCchHHHHHHHHhC--CCCCCCEEEEEcCCCChhhHHHH
Confidence 56667777 477777766 4455566654 57899999999999999887774
No 105
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=45.84 E-value=17 Score=44.43 Aligned_cols=82 Identities=16% Similarity=0.256 Sum_probs=44.8
Q ss_pred HHHHhhcccccCCCcEEeccCCcchHHHHHHHHHh---hhCCccc-------cccccccCCCCCccccccccccccCCCC
Q 000583 721 AIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD---ETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKEL 790 (1407)
Q Consensus 721 ~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~---~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~el 790 (1407)
.+++.+.=.+.++.+|+|+|||+..++..+..+.- -++.+.+ =+|..... .+..|...||++.. +
T Consensus 240 ~LVe~aL~~l~~~~rVLDLGcGSG~IaiaLA~~~p~a~VtAVDiS~~ALe~AreNa~~~g--~rV~fi~gDl~e~~---l 314 (423)
T PRK14966 240 HLVEAVLARLPENGRVWDLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLG--ARVEFAHGSWFDTD---M 314 (423)
T ss_pred HHHHHhhhccCCCCEEEEEeChhhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcC--CcEEEEEcchhccc---c
Confidence 34444333345778999999999999987654321 1122221 12222111 24678888886532 2
Q ss_pred C-CCCeeeeeeCCCccch
Q 000583 791 A-PGSRLIMGLNPPFGVK 807 (1407)
Q Consensus 791 p-~G~~LimgLnPPfg~~ 807 (1407)
+ .++.=++-.||||-..
T Consensus 315 ~~~~~FDLIVSNPPYI~~ 332 (423)
T PRK14966 315 PSEGKWDIIVSNPPYIEN 332 (423)
T ss_pred ccCCCccEEEECCCCCCc
Confidence 2 2333344469999643
No 106
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=45.73 E-value=24 Score=39.52 Aligned_cols=43 Identities=28% Similarity=0.386 Sum_probs=39.7
Q ss_pred hhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhhCC
Q 000583 716 VDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGK 759 (1407)
Q Consensus 716 ~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk 759 (1407)
..||.||.+|- -.+.+|+.|||+|+-=-.||+...+++...++
T Consensus 30 a~KL~el~~k~-~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ 72 (205)
T COG0293 30 AYKLLELNEKF-KLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGK 72 (205)
T ss_pred HHHHHHHHHhc-CeecCCCEEEEcCCCCCcHHHHHHHHhCCCCc
Confidence 67999999998 88999999999999999999999998888766
No 107
>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=45.68 E-value=24 Score=37.38 Aligned_cols=30 Identities=23% Similarity=0.672 Sum_probs=23.5
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000583 719 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 752 (1407)
Q Consensus 719 l~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 752 (1407)
|+++.+. +.++++|+|+.||...|...+.+
T Consensus 4 ~~~i~~~----i~~~~~iLDiGcG~G~~~~~l~~ 33 (194)
T TIGR02081 4 LESILNL----IPPGSRVLDLGCGDGELLALLRD 33 (194)
T ss_pred HHHHHHh----cCCCCEEEEeCCCCCHHHHHHHh
Confidence 4455554 46899999999999999988754
No 108
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=45.66 E-value=45 Score=28.14 Aligned_cols=27 Identities=11% Similarity=0.444 Sum_probs=22.1
Q ss_pred HHHHHHHHHHhhhcccccHHHHHhhccC
Q 000583 602 DSKRRLSSLMKDAASSVRMEEILKRHKI 629 (1407)
Q Consensus 602 ~~err~~~l~~~~~ss~t~~~v~k~~~~ 629 (1407)
+++++|+.++.+.. .+|..++.+++.+
T Consensus 3 ~~~~~Il~~l~~~~-~~t~~ela~~~~i 29 (48)
T PF13412_consen 3 ETQRKILNYLRENP-RITQKELAEKLGI 29 (48)
T ss_dssp HHHHHHHHHHHHCT-TS-HHHHHHHHTS
T ss_pred HHHHHHHHHHHHcC-CCCHHHHHHHhCC
Confidence 67899999999865 5999999998877
No 109
>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=45.03 E-value=12 Score=40.02 Aligned_cols=26 Identities=31% Similarity=0.640 Sum_probs=18.8
Q ss_pred ccCccccccccccccCCCChhhhcccCcccccCcccc
Q 000583 250 FHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYK 286 (1407)
Q Consensus 250 FH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~g 286 (1407)
||+. |+++.++. + |.+.|+|+.|..+
T Consensus 2 ~H~~--------CL~Ppl~~--~-P~g~W~Cp~C~~~ 27 (148)
T cd04718 2 FHLC--------CLRPPLKE--V-PEGDWICPFCEVE 27 (148)
T ss_pred cccc--------cCCCCCCC--C-CCCCcCCCCCcCC
Confidence 8998 44456653 2 6799999999754
No 110
>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=44.36 E-value=22 Score=38.11 Aligned_cols=42 Identities=29% Similarity=0.576 Sum_probs=29.8
Q ss_pred cccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000583 707 TSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 707 ts~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
.||+++.... ++++.+| -+++|++|+|+.||...+...|.+.
T Consensus 25 ~~~~~~~~~~---~~~l~~l--~~~~~~~vLDiGcG~G~~~~~la~~ 66 (231)
T TIGR02752 25 ISFQRHKKWR---KDTMKRM--NVQAGTSALDVCCGTADWSIALAEA 66 (231)
T ss_pred hcCCchHHHH---HHHHHhc--CCCCCCEEEEeCCCcCHHHHHHHHH
Confidence 4556654433 3344444 3678999999999999999988664
No 111
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=44.34 E-value=4.7 Score=33.58 Aligned_cols=35 Identities=29% Similarity=0.790 Sum_probs=16.9
Q ss_pred CceeeccccccccccCccccccccccccCCCChhhhcccCcccccCcc
Q 000583 237 GDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCE 284 (1407)
Q Consensus 237 GeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe 284 (1407)
..||.|+ .|.-++|.. | .|+...+ ....|+|..|+
T Consensus 2 n~ll~C~-~C~v~VH~~--------C--YGv~~~~--~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCD-NCNVAVHQS--------C--YGVSEVP--DGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-S-SS--EEEHH--------H--HT-SS----SS-----HHH-
T ss_pred CceEEeC-CCCCcCChh--------h--CCcccCC--CCCcEECCcCC
Confidence 3589999 699999998 5 6765432 23369998763
No 112
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=43.89 E-value=63 Score=38.23 Aligned_cols=49 Identities=18% Similarity=0.326 Sum_probs=29.2
Q ss_pred cccccccCcccchhhh--H-HHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000583 703 GMRYTSFGRHFTKVDK--L-QAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 703 G~ryts~grhftk~ek--l-~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
+..+.+..--|...+. - +-..+.|... ....|+||.||...++..+.++
T Consensus 166 ~l~i~~~pgvFs~~~lD~gt~lLl~~l~~~--~~g~VLDlGCG~G~ls~~la~~ 217 (342)
T PRK09489 166 GLTVKTLPGVFSRDGLDVGSQLLLSTLTPH--TKGKVLDVGCGAGVLSAVLARH 217 (342)
T ss_pred CEEEEeCCCCCCCCCCCHHHHHHHHhcccc--CCCeEEEeccCcCHHHHHHHHh
Confidence 4455555555554221 1 2223333322 3457999999999999988775
No 113
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=43.00 E-value=30 Score=37.31 Aligned_cols=45 Identities=9% Similarity=0.203 Sum_probs=35.8
Q ss_pred cCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHh
Q 000583 709 FGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD 755 (1407)
Q Consensus 709 ~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~ 755 (1407)
+|++++.+..+..+.+.|- +.+|+.|+|+.||.--++.+|.+++.
T Consensus 51 ~~~~~~~p~~~~~~~~~l~--~~~~~~VLDiG~GsG~~~~~la~~~~ 95 (205)
T PRK13944 51 AGATISAPHMVAMMCELIE--PRPGMKILEVGTGSGYQAAVCAEAIE 95 (205)
T ss_pred CCCEechHHHHHHHHHhcC--CCCCCEEEEECcCccHHHHHHHHhcC
Confidence 4677777776777777664 57899999999999999999877553
No 114
>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=42.38 E-value=35 Score=32.31 Aligned_cols=35 Identities=17% Similarity=0.287 Sum_probs=26.2
Q ss_pred hhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000583 716 VDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 752 (1407)
Q Consensus 716 ~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 752 (1407)
.+....+++.| ++.++++|+|+.||..-++..+-+
T Consensus 5 ~~~~~~~~~~~--~~~~~~~vldlG~G~G~~~~~l~~ 39 (124)
T TIGR02469 5 REVRALTLSKL--RLRPGDVLWDIGAGSGSITIEAAR 39 (124)
T ss_pred HHHHHHHHHHc--CCCCCCEEEEeCCCCCHHHHHHHH
Confidence 34444455555 567889999999999999987754
No 115
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=42.16 E-value=14 Score=33.89 Aligned_cols=33 Identities=30% Similarity=0.767 Sum_probs=25.5
Q ss_pred CcccccCCCCCCCCCCCceeecccCCcccccCCCCC
Q 000583 354 HKCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPR 389 (1407)
Q Consensus 354 H~C~vCkqseDkn~segKLIrCdRCPkAYH~kCLPP 389 (1407)
..|..|++.-.. +..+++|..|.+.||+.|-..
T Consensus 6 ~~C~~Cg~~~~~---~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 6 CKCPVCGKKFKD---GDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccChhhCCcccC---CCCEEECCCCCCcccHHHHhh
Confidence 359999886421 235999999999999999755
No 116
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=42.06 E-value=26 Score=40.90 Aligned_cols=35 Identities=26% Similarity=0.500 Sum_probs=31.4
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000583 717 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 717 ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
-||+.|.++|+ +++|++|+||=||--..+..|-++
T Consensus 59 ~k~~~~~~kl~--L~~G~~lLDiGCGWG~l~~~aA~~ 93 (283)
T COG2230 59 AKLDLILEKLG--LKPGMTLLDIGCGWGGLAIYAAEE 93 (283)
T ss_pred HHHHHHHHhcC--CCCCCEEEEeCCChhHHHHHHHHH
Confidence 47888999998 899999999999999999888665
No 117
>KOG2824 consensus Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=41.77 E-value=24 Score=41.11 Aligned_cols=26 Identities=15% Similarity=0.331 Sum_probs=17.8
Q ss_pred cccccccCCchhhhhhHHH---HHHHhhc
Q 000583 140 FCLYEVRPSQNDLVDHMDL---IKEALER 165 (1407)
Q Consensus 140 Fs~fdVrPSq~DL~~H~sL---IkeaakR 165 (1407)
|.+|.|+-.+.|+.=|..- +++.+..
T Consensus 157 lesf~V~v~ERDVSMd~~fr~EL~~~lg~ 185 (281)
T KOG2824|consen 157 LESFRVKVDERDVSMDSEFREELQELLGE 185 (281)
T ss_pred HHhCceEEEEecccccHHHHHHHHHHHhc
Confidence 7889999888888765543 4444444
No 118
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=41.72 E-value=53 Score=30.32 Aligned_cols=30 Identities=7% Similarity=0.308 Sum_probs=25.9
Q ss_pred hHHHHHHHHHHhhhcc-cccHHHHHhhccCC
Q 000583 601 EDSKRRLSSLMKDAAS-SVRMEEILKRHKIP 630 (1407)
Q Consensus 601 ~~~err~~~l~~~~~s-s~t~~~v~k~~~~~ 630 (1407)
.+++++||.++++... .+|..+|.+.+.++
T Consensus 5 ~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~ 35 (68)
T smart00550 5 DSLEEKILEFLENSGDETSTALQLAKNLGLP 35 (68)
T ss_pred hHHHHHHHHHHHHCCCCCcCHHHHHHHHCCC
Confidence 4788999999999866 49999999998884
No 119
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=41.56 E-value=17 Score=44.90 Aligned_cols=72 Identities=11% Similarity=0.119 Sum_probs=41.3
Q ss_pred CCCcEEeccCCcchHHHHHHHHHh---hhCCcccc-------ccccccCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 000583 732 DGDMIVDFCCGANDFSCLMKKKLD---ETGKNCLY-------KNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 801 (1407)
Q Consensus 732 ~gd~ivdfccg~n~fs~lmk~kl~---~~gk~c~~-------kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLn 801 (1407)
.+..|+|++||+.-++..+...+. -++.+.+- +|.....-.+...|...||++. ++.+..=++-.|
T Consensus 138 ~~~~VLDlG~GsG~iai~la~~~p~~~v~avDis~~al~~A~~N~~~~~l~~~v~~~~~D~~~~----~~~~~fDlIvsN 213 (506)
T PRK01544 138 KFLNILELGTGSGCIAISLLCELPNANVIATDISLDAIEVAKSNAIKYEVTDRIQIIHSNWFEN----IEKQKFDFIVSN 213 (506)
T ss_pred CCCEEEEccCchhHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHcCCccceeeeecchhhh----CcCCCccEEEEC
Confidence 456899999999999987755431 12222222 2221111124567888888752 333333334469
Q ss_pred CCccch
Q 000583 802 PPFGVK 807 (1407)
Q Consensus 802 PPfg~~ 807 (1407)
|||-..
T Consensus 214 PPYi~~ 219 (506)
T PRK01544 214 PPYISH 219 (506)
T ss_pred CCCCCc
Confidence 999744
No 120
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=40.23 E-value=34 Score=36.03 Aligned_cols=36 Identities=19% Similarity=0.421 Sum_probs=29.8
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 000583 718 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 754 (1407)
Q Consensus 718 kl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl 754 (1407)
+|.++.+++. .+++|++|+|++||.-.++.++.++.
T Consensus 19 ~~~~~~~~~~-~i~~g~~VLDiG~GtG~~~~~l~~~~ 54 (188)
T TIGR00438 19 KLLQLNQKFK-LIKPGDTVLDLGAAPGGWSQVAVEQV 54 (188)
T ss_pred HHHHHHHHhc-ccCCCCEEEEecCCCCHHHHHHHHHh
Confidence 6777777765 45789999999999999999887655
No 121
>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=40.16 E-value=18 Score=32.93 Aligned_cols=19 Identities=42% Similarity=1.097 Sum_probs=12.5
Q ss_pred EeccCCcchHHHHHHHHHhhhC
Q 000583 737 VDFCCGANDFSCLMKKKLDETG 758 (1407)
Q Consensus 737 vdfccg~n~fs~lmk~kl~~~g 758 (1407)
+|||||.|. -+.+...+.|
T Consensus 24 IDfCCgG~~---~L~eA~~~~~ 42 (56)
T PF04405_consen 24 IDFCCGGNR---SLEEACEEKG 42 (56)
T ss_pred CcccCCCCc---hHHHHHHHcC
Confidence 899999985 4444444433
No 122
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=39.32 E-value=13 Score=44.28 Aligned_cols=26 Identities=38% Similarity=0.929 Sum_probs=20.5
Q ss_pred CccccccCC--CC---ceeeccccccccccCc
Q 000583 227 DSVCSFCDN--GG---DLLCCEGRCLRSFHAT 253 (1407)
Q Consensus 227 DdVCaIC~d--GG---eLLCCDGsC~RSFH~~ 253 (1407)
+..|.+|++ .| .||.|+ +|...|--+
T Consensus 15 ~ElCPVCGDkVSGYHYGLLTCE-SCKGFFKRT 45 (475)
T KOG4218|consen 15 GELCPVCGDKVSGYHYGLLTCE-SCKGFFKRT 45 (475)
T ss_pred ccccccccCccccceeeeeehh-hhhhHHHHH
Confidence 468999998 34 699999 799888543
No 123
>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=38.07 E-value=23 Score=36.90 Aligned_cols=38 Identities=18% Similarity=0.268 Sum_probs=30.4
Q ss_pred hhHHHHHHhhccccc-CCCcEEeccCCcchHHHHHHHHH
Q 000583 717 DKLQAIVDKLHWYVN-DGDMIVDFCCGANDFSCLMKKKL 754 (1407)
Q Consensus 717 ekl~~i~~~Lh~yv~-~gd~ivdfccg~n~fs~lmk~kl 754 (1407)
.||.||.++..++-. .+.+|||+||+--.|+..+-+++
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 589999999985533 45889999999999999996644
No 124
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=37.90 E-value=32 Score=42.20 Aligned_cols=73 Identities=21% Similarity=0.313 Sum_probs=41.6
Q ss_pred ccccccCcccccccccccc----CCCChhhhcccCcccccCcccccc--ccccccCCCCCCCCCC-CeeeecCCCCCCCC
Q 000583 246 CLRSFHATIDAGEESHCAS----LGLTKDEVEAMLNFFCKNCEYKQH--QCFACGKLGSSDKETG-AEVFPCVSATCGHF 318 (1407)
Q Consensus 246 C~RSFH~~CldGeeS~Cls----LGLTeaEvqp~~~W~CpnCe~gQH--qCFVCGklGSSDK~SG-aELfrCsvasCGRF 318 (1407)
|.++||..|.. |+. |+=..=.++...+.+|-.|-+++. .|.+|++.--.. .| .+.++-. .=.|-
T Consensus 352 ~GkayHp~CF~-----Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~--~G~~etvRvv--amdr~ 422 (468)
T KOG1701|consen 352 LGKAYHPGCFT-----CVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPR--DGKDETVRVV--AMDRD 422 (468)
T ss_pred cccccCCCceE-----EEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCC--CCCcceEEEE--Ecccc
Confidence 56789988865 421 111011133456788888876653 699998764321 11 1233332 34688
Q ss_pred Ccccccccc
Q 000583 319 YHPHCVSKL 327 (1407)
Q Consensus 319 YHpkCLa~l 327 (1407)
||..|..-.
T Consensus 423 fHv~CY~CE 431 (468)
T KOG1701|consen 423 FHVNCYKCE 431 (468)
T ss_pred ccccceehh
Confidence 888887643
No 125
>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=37.80 E-value=37 Score=38.69 Aligned_cols=38 Identities=21% Similarity=0.181 Sum_probs=28.2
Q ss_pred CcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHH
Q 000583 710 GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMK 751 (1407)
Q Consensus 710 grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk 751 (1407)
|.|-|..-+|+.+ .-|+.+|++|+|+.||+--++..+.
T Consensus 141 G~h~tt~l~l~~l----~~~~~~g~~VLDvGcGsG~lai~aa 178 (288)
T TIGR00406 141 GTHPTTSLCLEWL----EDLDLKDKNVIDVGCGSGILSIAAL 178 (288)
T ss_pred CCCHHHHHHHHHH----HhhcCCCCEEEEeCCChhHHHHHHH
Confidence 4777766655543 3357799999999999988876654
No 126
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=37.41 E-value=20 Score=32.78 Aligned_cols=34 Identities=35% Similarity=0.784 Sum_probs=26.4
Q ss_pred cccccccCCCCCCCCCCCeeeecCCCCCCCCCcccccccc
Q 000583 288 HQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKL 327 (1407)
Q Consensus 288 HqCFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~l 327 (1407)
..|.+|++.-. .+.+++.|. .|+.-||..|..+.
T Consensus 6 ~~C~~Cg~~~~----~~dDiVvCp--~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 6 CKCPVCGKKFK----DGDDIVVCP--ECGAPYHRDCWEKA 39 (54)
T ss_pred ccChhhCCccc----CCCCEEECC--CCCCcccHHHHhhC
Confidence 36888987532 246899998 99999999998754
No 127
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=37.12 E-value=12 Score=43.99 Aligned_cols=64 Identities=22% Similarity=0.471 Sum_probs=36.0
Q ss_pred CccccccCC----CCceeeccccccccccCccccccccccccCCCChhhhcccCcccccCccccccccccccCCCCCCCC
Q 000583 227 DSVCSFCDN----GGDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQHQCFACGKLGSSDKE 302 (1407)
Q Consensus 227 DdVCaIC~d----GGeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~gQHqCFVCGklGSSDK~ 302 (1407)
-.+|.-|+- .|.|+-|+ -+|.+. |..+ ...-+|+.|..+...=..|..
T Consensus 90 VHfCd~Cd~PI~IYGRmIPCk----HvFCl~--------CAr~---------~~dK~Cp~C~d~VqrIeq~~~------- 141 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPCK----HVFCLE--------CARS---------DSDKICPLCDDRVQRIEQIMM------- 141 (389)
T ss_pred eEeecccCCcceeeecccccc----hhhhhh--------hhhc---------CccccCcCcccHHHHHHHhcc-------
Confidence 467999987 48888666 344444 4211 123467777655332223322
Q ss_pred CCCeeeecCCCC-CCCCCc
Q 000583 303 TGAEVFPCVSAT-CGHFYH 320 (1407)
Q Consensus 303 SGaELfrCsvas-CGRFYH 320 (1407)
+.+|.|.... |.|.|.
T Consensus 142 --g~iFmC~~~~GC~RTyL 158 (389)
T KOG2932|consen 142 --GGIFMCAAPHGCLRTYL 158 (389)
T ss_pred --cceEEeecchhHHHHHh
Confidence 3489997444 655553
No 128
>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=35.87 E-value=1.6e+02 Score=33.61 Aligned_cols=93 Identities=20% Similarity=0.322 Sum_probs=63.0
Q ss_pred HHHHHHHHhcccCCCChHHHhhhcChhhHhHHHHHhhcccccccc---------------------------cc--cccc
Q 000583 655 EAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAP---------------------------FL--HGMR 705 (1407)
Q Consensus 655 ~Avr~AL~kle~~g~siedAkAvc~p~vl~ql~~wk~kL~vylaP---------------------------~l--~G~r 705 (1407)
..|..|.++++ +|.+++ +++.+|..++++..+|+.| +| ..-.
T Consensus 123 ~~v~~a~~~~~-~G~s~~--------eI~~~l~~~~~~~~~~f~v~~L~~L~~gGRis~~~~~~g~lL~ikPIi~~~~G~ 193 (275)
T TIGR00762 123 LLVLEAAKLAE-EGKSLE--------EILAKLEELRERTKLYFVVDTLEYLVKGGRISKAAALIGSLLNIKPILTVDDGK 193 (275)
T ss_pred HHHHHHHHHHH-cCCCHH--------HHHHHHHHHHhhcEEEEEECcHHHHHhcCCccHHHHHHHHhhcceeEEEEeCCE
Confidence 34666778888 899988 4677788888888777544 22 2234
Q ss_pred ccccCcccchhhhHHHHHHhhcccccCCC-cEEe-ccCCcchHHHHHHHHHhh
Q 000583 706 YTSFGRHFTKVDKLQAIVDKLHWYVNDGD-MIVD-FCCGANDFSCLMKKKLDE 756 (1407)
Q Consensus 706 yts~grhftk~ekl~~i~~~Lh~yv~~gd-~ivd-fccg~n~fs~lmk~kl~~ 756 (1407)
...+|+.++..-.++++++.+.=++.+++ -.|. ..+|..+=...++++|.+
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 56788888888888889988887776543 2333 345555555566666665
No 129
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=35.18 E-value=43 Score=39.19 Aligned_cols=34 Identities=24% Similarity=0.337 Sum_probs=29.4
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000583 718 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 718 kl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
.|+|+++.|- +++|+++||..||.--++..+-++
T Consensus 7 ll~Evl~~L~--~~pg~~vlD~TlG~GGhS~~il~~ 40 (296)
T PRK00050 7 LLDEVVDALA--IKPDGIYVDGTFGGGGHSRAILER 40 (296)
T ss_pred cHHHHHHhhC--CCCCCEEEEeCcCChHHHHHHHHh
Confidence 4788999886 589999999999999999999543
No 130
>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=34.16 E-value=1e+02 Score=35.11 Aligned_cols=89 Identities=20% Similarity=0.303 Sum_probs=56.5
Q ss_pred cEEeccCCcchHHHHHHHHHhhhCCcccc-------------ccccccCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 000583 735 MIVDFCCGANDFSCLMKKKLDETGKNCLY-------------KNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 801 (1407)
Q Consensus 735 ~ivdfccg~n~fs~lmk~kl~~~gk~c~~-------------kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLn 801 (1407)
+|+|++||.--++.=+++ .|-.+.+ +||.- . +...|.-++.+.+++..--||+| -
T Consensus 2 ~v~dLFsG~Gg~~~gl~~----~G~~~v~a~e~~~~a~~~~~~N~~~-----~--~~~~Di~~~~~~~~~~~~D~l~~-g 69 (275)
T cd00315 2 RVIDLFAGIGGFRLGLEK----AGFEIVAANEIDKSAAETYEANFPN-----K--LIEGDITKIDEKDFIPDIDLLTG-G 69 (275)
T ss_pred cEEEEccCcchHHHHHHH----cCCEEEEEEeCCHHHHHHHHHhCCC-----C--CccCccccCchhhcCCCCCEEEe-C
Confidence 589999999999876654 4544432 34321 1 23456666666664333446666 5
Q ss_pred CCc-------------cchhhhHHHHHHhhhccCCcEEEEecCCccc
Q 000583 802 PPF-------------GVKAGLANKFINKALEFNPKLLILIVPPETE 835 (1407)
Q Consensus 802 PPf-------------g~~a~lAnkFi~kal~f~Pkliili~P~~t~ 835 (1407)
||- +-++.|.-.|++-+-.++|+++|+==-+...
T Consensus 70 pPCq~fS~ag~~~~~~d~r~~L~~~~~~~i~~~~P~~~v~ENV~g~~ 116 (275)
T cd00315 70 FPCQPFSIAGKRKGFEDTRGTLFFEIIRILKEKKPKYFLLENVKGLL 116 (275)
T ss_pred CCChhhhHHhhcCCCCCchHHHHHHHHHHHHhcCCCEEEEEcCcchh
Confidence 653 2356688889998889999999885444443
No 131
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=33.84 E-value=79 Score=40.76 Aligned_cols=66 Identities=20% Similarity=0.320 Sum_probs=34.8
Q ss_pred ChhhHhHHHHHhhccccccccccccc-----cccccCcccchhhhHH-HHHHhhcccccCCCcEEeccCCcchHH
Q 000583 679 EPEVLSQIFKWKNKLKVYLAPFLHGM-----RYTSFGRHFTKVDKLQ-AIVDKLHWYVNDGDMIVDFCCGANDFS 747 (1407)
Q Consensus 679 ~p~vl~ql~~wk~kL~vylaP~l~G~-----ryts~grhftk~ekl~-~i~~~Lh~yv~~gd~ivdfccg~n~fs 747 (1407)
.|++.-.+..-++++-|||-- .|. -|-.+.---.-.|.|- .++..-.|. .+|+.+||..||+--|.
T Consensus 134 ~pdv~i~~~~~~~~~~l~ld~--sg~~L~rRgyr~~~~~Apl~etlAaa~l~~a~w~-~~~~~l~DP~CGSGTil 205 (702)
T PRK11783 134 QPDIRINARLNKGEATISLDL--SGESLHQRGYRQATGEAPLKENLAAAILLRSGWP-QEGTPLLDPMCGSGTLL 205 (702)
T ss_pred CCCEEEEEEEeCCEEEEEEEC--CCCchhhccCccCCCCCCCcHHHHHHHHHHcCCC-CCCCeEEccCCCccHHH
Confidence 345544444445666666542 232 1322211122233333 344444453 57899999999998875
No 132
>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=33.35 E-value=6.3 Score=32.85 Aligned_cols=33 Identities=30% Similarity=0.725 Sum_probs=21.6
Q ss_pred ccccccCCCCCCCCCCCeeeecCCCCCCCCCccccccccc
Q 000583 289 QCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 328 (1407)
Q Consensus 289 qCFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll 328 (1407)
.|.+|...-. .+..++.. .|+..||..|+..++
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 4667754321 12345544 499999999999875
No 133
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=32.08 E-value=25 Score=43.32 Aligned_cols=35 Identities=26% Similarity=0.456 Sum_probs=21.5
Q ss_pred cccccccCCCCCCCCCCCeeeecCCCCCCCCCccccccccc
Q 000583 288 HQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 328 (1407)
Q Consensus 288 HqCFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll 328 (1407)
..|.||-..-++ .+++-+ . ..|.+.||-.|+..|.
T Consensus 176 PTCpVCLERMD~--s~~gi~-t---~~c~Hsfh~~cl~~w~ 210 (493)
T KOG0804|consen 176 PTCPVCLERMDS--STTGIL-T---ILCNHSFHCSCLMKWW 210 (493)
T ss_pred CCcchhHhhcCc--ccccee-e---eecccccchHHHhhcc
Confidence 357788554332 122222 1 1688999999999875
No 134
>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=31.89 E-value=29 Score=36.18 Aligned_cols=49 Identities=22% Similarity=0.365 Sum_probs=23.5
Q ss_pred cccccccccccccc----Ccccch-hhhHHHHHHh-hcccccCCCcEEeccCCcchHH
Q 000583 696 YLAPFLHGMRYTSF----GRHFTK-VDKLQAIVDK-LHWYVNDGDMIVDFCCGANDFS 747 (1407)
Q Consensus 696 ylaP~l~G~ryts~----grhftk-~ekl~~i~~~-Lh~yv~~gd~ivdfccg~n~fs 747 (1407)
+..+.+...+..+- +.|-|. +.+| +++ +..+-.+||+|+|+.||+..=.
T Consensus 152 w~~~~~~~~~~~~~~~~~~~h~~~kP~~l---~~~lI~~~t~~gdiVlDpF~GSGTT~ 206 (231)
T PF01555_consen 152 WPFSIIPPSRKNSKGNTKGKHPTQKPVEL---IERLIKASTNPGDIVLDPFAGSGTTA 206 (231)
T ss_dssp EE-SEEETTSTT--CHH----TT-S-HHH---HHHHHHHHS-TT-EEEETT-TTTHHH
T ss_pred cccccccccccccccccccceeecCCHHH---HHHHHHhhhccceeeehhhhccChHH
Confidence 33445555555544 346553 3332 333 3467899999999999997543
No 135
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=31.85 E-value=67 Score=33.83 Aligned_cols=41 Identities=17% Similarity=0.186 Sum_probs=33.5
Q ss_pred CcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000583 710 GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 752 (1407)
Q Consensus 710 grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 752 (1407)
.+..|+.+--..+++.|. +.+|.+|+|++||.-.++..+.+
T Consensus 11 ~~~~~~~~~r~~~~~~l~--~~~~~~vLDiG~G~G~~~~~la~ 51 (187)
T PRK08287 11 KVPMTKEEVRALALSKLE--LHRAKHLIDVGAGTGSVSIEAAL 51 (187)
T ss_pred CCCCchHHHHHHHHHhcC--CCCCCEEEEECCcCCHHHHHHHH
Confidence 456788877777778885 45899999999999999988855
No 136
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=31.82 E-value=25 Score=42.13 Aligned_cols=28 Identities=29% Similarity=0.550 Sum_probs=21.5
Q ss_pred ccccccCC---CCceeeccccccccccCcccc
Q 000583 228 SVCSFCDN---GGDLLCCEGRCLRSFHATIDA 256 (1407)
Q Consensus 228 dVCaIC~d---GGeLLCCDGsC~RSFH~~Cld 256 (1407)
+.|+||-+ .|+.|.=- +|.-.||..|.+
T Consensus 230 ~~CaIClEdY~~GdklRiL-PC~H~FH~~CID 260 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRIL-PCSHKFHVNCID 260 (348)
T ss_pred ceEEEeecccccCCeeeEe-cCCCchhhccch
Confidence 78999986 46655554 788999999654
No 137
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=31.75 E-value=34 Score=38.54 Aligned_cols=41 Identities=5% Similarity=0.039 Sum_probs=28.0
Q ss_pred cchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 000583 713 FTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 754 (1407)
Q Consensus 713 ftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl 754 (1407)
|+-.+..-.++-.+. -+++|++|+|+|||...++..|-+.+
T Consensus 53 ~~~qd~~s~~~~~~l-~~~~g~~VLDl~ag~G~kt~~la~~~ 93 (264)
T TIGR00446 53 YYIQEASSMIPPLAL-EPDPPERVLDMAAAPGGKTTQISALM 93 (264)
T ss_pred EEEECHHHHHHHHHh-CCCCcCEEEEECCCchHHHHHHHHHc
Confidence 333344444443222 56899999999999999998886644
No 138
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=31.33 E-value=16 Score=46.18 Aligned_cols=48 Identities=21% Similarity=0.364 Sum_probs=34.3
Q ss_pred ccccCccccccccccccCCCCCCCCCCCeeeecCCCCCCCCCcccccccc
Q 000583 278 FFCKNCEYKQHQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKL 327 (1407)
Q Consensus 278 W~CpnCe~gQHqCFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~l 327 (1407)
--|.-|..+-..|.+|...+..--+...++.+|. .|+..||..|+...
T Consensus 502 ~~C~lC~~~gfiCe~Cq~~~iiyPF~~~~~~rC~--~C~avfH~~C~~r~ 549 (580)
T KOG1829|consen 502 KECDLCTGKGFICELCQHNDIIYPFETRNTRRCS--TCLAVFHKKCLRRK 549 (580)
T ss_pred hhchhhccCeeeeeeccCCCcccccccccceeHH--HHHHHHHHHHHhcc
Confidence 4499998877889999443321111134679998 99999999999854
No 139
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=31.08 E-value=34 Score=42.21 Aligned_cols=36 Identities=25% Similarity=0.507 Sum_probs=27.4
Q ss_pred CccccccCCccccccCCCCceeeccccccccccCccc
Q 000583 219 SNEEDELFDSVCSFCDNGGDLLCCEGRCLRSFHATID 255 (1407)
Q Consensus 219 s~e~dDl~DdVCaIC~dGGeLLCCDGsC~RSFH~~Cl 255 (1407)
.........++|++|.+||.+++|+ +|..++|-.|.
T Consensus 81 ~~~~~~~~~~~c~vc~~ggs~v~~~-s~~~~~~r~c~ 116 (463)
T KOG1081|consen 81 SRRHPKIEPSECFVCFKGGSLVTCK-SRIQAPHRKCK 116 (463)
T ss_pred chhccCCCcchhccccCCCccceec-cccccccccCc
Confidence 4444555678999999999999999 56666677753
No 140
>PRK07402 precorrin-6B methylase; Provisional
Probab=30.76 E-value=71 Score=33.95 Aligned_cols=41 Identities=15% Similarity=0.231 Sum_probs=32.4
Q ss_pred CcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000583 710 GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 752 (1407)
Q Consensus 710 grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 752 (1407)
|.-.|+.+....+++.|. +.+|++|+|++||.-.|...+.+
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 334677777777888874 57899999999999999887754
No 141
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=30.25 E-value=27 Score=38.88 Aligned_cols=41 Identities=20% Similarity=0.143 Sum_probs=24.7
Q ss_pred ccCCCccccccCCccccccCCCCceeeccccccccccCcccc
Q 000583 215 EEDESNEEDELFDSVCSFCDNGGDLLCCEGRCLRSFHATIDA 256 (1407)
Q Consensus 215 ~Ed~s~e~dDl~DdVCaIC~dGGeLLCCDGsC~RSFH~~Cld 256 (1407)
+||+....+...+..|.||.+.-.-..-. .|.-.|+..|+.
T Consensus 6 ~~~~~~~~~~~~~~~CpICld~~~dPVvT-~CGH~FC~~CI~ 46 (193)
T PLN03208 6 DEDDTTLVDSGGDFDCNICLDQVRDPVVT-LCGHLFCWPCIH 46 (193)
T ss_pred ccccceeccCCCccCCccCCCcCCCcEEc-CCCchhHHHHHH
Confidence 44434444555567899999854322223 588888877653
No 142
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=29.65 E-value=11 Score=46.54 Aligned_cols=29 Identities=24% Similarity=0.854 Sum_probs=23.3
Q ss_pred CCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCCCcccc
Q 000583 314 TCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHKCCI 358 (1407)
Q Consensus 314 sCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH~C~v 358 (1407)
.|.+.||..|+..+. ++.+..||.|+|+.
T Consensus 605 PC~HifH~~CL~~WM----------------d~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 605 PCHHIFHRQCLLQWM----------------DTYKLICPVCRCPL 633 (636)
T ss_pred chHHHHHHHHHHHHH----------------hhhcccCCccCCCC
Confidence 799999999999874 23468899988863
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=29.21 E-value=43 Score=36.53 Aligned_cols=35 Identities=23% Similarity=0.494 Sum_probs=26.1
Q ss_pred eeeeCCCccchhhhHHHHHHhhhcc---CCcEEEEecCCccc
Q 000583 797 IMGLNPPFGVKAGLANKFINKALEF---NPKLLILIVPPETE 835 (1407)
Q Consensus 797 imgLnPPfg~~a~lAnkFi~kal~f---~Pkliili~P~~t~ 835 (1407)
-+=+||||+- +..||.||.++ +=..+|+.+|-.|.
T Consensus 64 ~vf~NPPYS~----~~~~v~kaae~~~~~g~~~VmLlpa~ts 101 (166)
T TIGR01712 64 AVWLNPPYSR----PDIFVNKTAWFTEARQAAEVILIEADLS 101 (166)
T ss_pred eEEecCCCCc----HHHHHHHHHHHHHhhCCeEEEEEecCCc
Confidence 4556999993 47999999765 22468888888875
No 144
>PTZ00146 fibrillarin; Provisional
Probab=29.19 E-value=41 Score=39.43 Aligned_cols=28 Identities=4% Similarity=0.084 Sum_probs=24.5
Q ss_pred cccCCCcEEeccCCcchHHHHHHHHHhh
Q 000583 729 YVNDGDMIVDFCCGANDFSCLMKKKLDE 756 (1407)
Q Consensus 729 yv~~gd~ivdfccg~n~fs~lmk~kl~~ 756 (1407)
++++|++|+|+|||.-.|+..|-+.+..
T Consensus 129 ~IkpG~~VLDLGaG~G~~t~~lAdiVG~ 156 (293)
T PTZ00146 129 PIKPGSKVLYLGAASGTTVSHVSDLVGP 156 (293)
T ss_pred ccCCCCEEEEeCCcCCHHHHHHHHHhCC
Confidence 5899999999999999999999775543
No 145
>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=28.67 E-value=36 Score=41.94 Aligned_cols=43 Identities=28% Similarity=0.767 Sum_probs=33.6
Q ss_pred CcccccCccccccccccccCCCCCCCCCCCeeeecCCCCCCCCCcccccccc
Q 000583 276 LNFFCKNCEYKQHQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKL 327 (1407)
Q Consensus 276 ~~W~CpnCe~gQHqCFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~l 327 (1407)
.+=+|..|. |.+|.+.... ..+.-.+.|. .|+.+-|..|--..
T Consensus 122 ~~gFC~~C~-----C~iC~kfD~~--~n~~~Wi~Cd--~CgH~cH~dCALr~ 164 (446)
T PF07227_consen 122 EPGFCRRCM-----CCICSKFDDN--KNTCSWIGCD--VCGHWCHLDCALRH 164 (446)
T ss_pred CCCccccCC-----ccccCCcccC--CCCeeEEecc--CCCceehhhhhccc
Confidence 455789995 9999987432 3456789998 89999999998654
No 146
>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=28.58 E-value=57 Score=37.45 Aligned_cols=34 Identities=26% Similarity=0.545 Sum_probs=24.3
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000583 718 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 718 kl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
|++-|+++| -+++|++|+|+-||--.|+..|-++
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 445566666 3899999999999999999999776
No 147
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=28.43 E-value=31 Score=37.18 Aligned_cols=29 Identities=21% Similarity=0.308 Sum_probs=23.1
Q ss_pred hcccccCCCcEEeccCCcchHHHHHHHHH
Q 000583 726 LHWYVNDGDMIVDFCCGANDFSCLMKKKL 754 (1407)
Q Consensus 726 Lh~yv~~gd~ivdfccg~n~fs~lmk~kl 754 (1407)
+-.|.+++..|||++||.-.++..|.+++
T Consensus 34 ~~~~~~~~~~VLDiGcGtG~~~~~la~~~ 62 (202)
T PRK00121 34 AELFGNDAPIHLEIGFGKGEFLVEMAKAN 62 (202)
T ss_pred HHHcCCCCCeEEEEccCCCHHHHHHHHHC
Confidence 34455688999999999999999886643
No 148
>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=28.39 E-value=56 Score=35.84 Aligned_cols=131 Identities=21% Similarity=0.352 Sum_probs=67.3
Q ss_pred cchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHhhhCCccccccccccCCCCCccccccccccccCCCCCC
Q 000583 713 FTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAP 792 (1407)
Q Consensus 713 ftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~ 792 (1407)
-|-.+-+..+...++|| .||.||-..+ ..|. +-|.. .. |.=..||-.. |.
T Consensus 15 ~TP~~lf~~l~~~fg~f------~LD~aa~~~N-------------a~~~-~y~T~--~~---DgL~~~W~~~----~~- 64 (181)
T PF05869_consen 15 QTPPELFDALNREFGPF------DLDPAASDEN-------------AKCP-RYYTE--ED---DGLAQDWSAE----LM- 64 (181)
T ss_pred cCCHHHHHHHHHHhCCc------cccccCCCCC-------------hhhh-hhcCc--cc---cHhhhhhhhc----cc-
Confidence 46667777777788874 5788875432 1231 12221 12 3334556432 11
Q ss_pred CCeeeeeeCCCccchhhhHHHHHHhhhccC---CcEEEEecCCccccccccCCCceeeeccc---cccCCc-ceecCCCc
Q 000583 793 GSRLIMGLNPPFGVKAGLANKFINKALEFN---PKLLILIVPPETERLDRKESAYELVWEDD---QFLSGK-SFYLPGSV 865 (1407)
Q Consensus 793 G~~LimgLnPPfg~~a~lAnkFi~kal~f~---Pkliili~P~~t~rld~k~~~Y~liwed~---~~l~gk-sFylPGsv 865 (1407)
|. | =+||||+.. ...||.||.+.. =..|+||+|-.+.. .=|+.+++.. .+|.|. +|+.|.
T Consensus 65 g~--v-f~NPPYs~~---i~~wv~Ka~~e~~~g~~~VvLL~~~~~st-----~W~~~~~~~a~~I~fi~GRl~F~~p~-- 131 (181)
T PF05869_consen 65 GR--V-FCNPPYSRG---IGPWVEKAIEEYERGNQTVVLLPPADTST-----WWFEDALENADEIRFIRGRLKFINPV-- 131 (181)
T ss_pred ce--E-EecCchhhh---HHHHHHHHHHHHHhCCcEEEEEeccCCCc-----cHHHHHHhcCCEEEEecCceeeccCC--
Confidence 22 2 459999942 667777776532 14566777665541 1333332211 233342 677772
Q ss_pred ccchhhhcccccCCCCeeeeecc
Q 000583 866 DENDKQMDQWNMTAPPLYLWSRH 888 (1407)
Q Consensus 866 d~ndk~~eqwn~~pP~l~lWsr~ 888 (1407)
.++.-.+.|..|-.|.+|.-.
T Consensus 132 --~g~~~~~~~~~gs~l~if~p~ 152 (181)
T PF05869_consen 132 --TGKEGKNGNPKGSMLVIFRPT 152 (181)
T ss_pred --CCccCCCCCCCceEEEEECCC
Confidence 223323455556666676543
No 149
>TIGR00675 dcm DNA-methyltransferase (dcm). All proteins in this family for which functions are known are DNA-cytosine methyltransferases. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.29 E-value=64 Score=37.48 Aligned_cols=91 Identities=20% Similarity=0.369 Sum_probs=55.3
Q ss_pred EEeccCCcchHHHHHHHHHhhhCCccccccccccCC-----CCCc--cccccccccccCCCCCCCCeeeeeeCC--Ccc-
Q 000583 736 IVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPA-----KNDF--NFEKRDWMTVEPKELAPGSRLIMGLNP--PFG- 805 (1407)
Q Consensus 736 ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~~~-----kn~f--~Fe~~dw~~v~~~elp~G~~LimgLnP--Pfg- 805 (1407)
||||+||+--++.=++ ..|-.+.+ -+|+-+. +.+| .+...|=-++.+.++|.=+-|+.| =| +|-
T Consensus 1 vidLF~G~GG~~~Gl~----~aG~~~~~-a~e~~~~a~~ty~~N~~~~~~~~Di~~~~~~~~~~~dvl~gg-~PCq~fS~ 74 (315)
T TIGR00675 1 FIDLFAGIGGIRLGFE----QAGFKCVF-ASEIDKYAQKTYEANFGNKVPFGDITKISPSDIPDFDILLGG-FPCQPFSI 74 (315)
T ss_pred CEEEecCccHHHHHHH----HcCCeEEE-EEeCCHHHHHHHHHhCCCCCCccChhhhhhhhCCCcCEEEec-CCCcccch
Confidence 6899999999986664 44644432 1111000 0000 223356666777778876655555 33 343
Q ss_pred ---------chhhhHHHHHHhhhccCCcEEEEecCC
Q 000583 806 ---------VKAGLANKFINKALEFNPKLLILIVPP 832 (1407)
Q Consensus 806 ---------~~a~lAnkFi~kal~f~Pkliili~P~ 832 (1407)
.++.|.-.|++-+-.++|+++|+==-+
T Consensus 75 ag~~~~~~d~r~~L~~~~~r~i~~~~P~~~v~ENV~ 110 (315)
T TIGR00675 75 AGKRKGFEDTRGTLFFEIVRILKEKKPKFFLLENVK 110 (315)
T ss_pred hcccCCCCCchhhHHHHHHHHHhhcCCCEEEeeccH
Confidence 356788889999999999998874333
No 150
>KOG1169 consensus Diacylglycerol kinase [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=27.37 E-value=25 Score=44.86 Aligned_cols=141 Identities=22% Similarity=0.382 Sum_probs=77.7
Q ss_pred cccccCCC--CceeeccccccccccCcccccccccccc---CCCChhhhc-------c----cCcccccCcccccccccc
Q 000583 229 VCSFCDNG--GDLLCCEGRCLRSFHATIDAGEESHCAS---LGLTKDEVE-------A----MLNFFCKNCEYKQHQCFA 292 (1407)
Q Consensus 229 VCaIC~dG--GeLLCCDGsC~RSFH~~CldGeeS~Cls---LGLTeaEvq-------p----~~~W~CpnCe~gQHqCFV 292 (1407)
+|.+|... -.-+-|+ .|.-.+|+.|..+..+.|.- +++...-.+ . ...-+|..|. ..|.+
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 89999873 2467888 69999999998766654421 121110000 1 1123344342 35666
Q ss_pred ccCCCCCCCCCCCeeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCCC---------cccccCCCC
Q 000583 293 CGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLH---------KCCICKQGE 363 (1407)
Q Consensus 293 CGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH---------~C~vCkqse 363 (1407)
|+..+ ..-+.|. .|++--|..|+......-. ... . ....+.-.|+.+ .|..|...-
T Consensus 122 ~~~~~-------~~g~~C~--~C~~~vh~~C~~~~~~~~~-~~~-~----~~~~r~~v~~~~~~~~~~~~~~~~~~~~~~ 186 (634)
T KOG1169|consen 122 CGVGI-------KQGLCCD--WCGRTVHERCVRRADPECQ-CKC-D----LGRLRKIVLDHPWVKGNAGEAKCDQCLKSV 186 (634)
T ss_pred hhhcc-------cCceeec--cccchHHHHHHhhcCcccc-ccc-c----cccccceeecCcccccccCCccchhhhccc
Confidence 65543 2458898 9999999999987643100 000 0 000112222211 144444432
Q ss_pred CCCCCCCceeecccCCcccccCCCCC
Q 000583 364 NKADSDLQFAVCRRCPKAYHRKCLPR 389 (1407)
Q Consensus 364 Dkn~segKLIrCdRCPkAYH~kCLPP 389 (1407)
.. ....+..+|..|-..+|..|...
T Consensus 187 ~~-~~~~~~~~c~~~~~~~h~~~~~~ 211 (634)
T KOG1169|consen 187 KA-DQGLTGPRCGWCQIRVHDKCKSE 211 (634)
T ss_pred cc-cccccccccceeeeeeecchHHH
Confidence 11 12345778999999999999774
No 151
>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=25.68 E-value=17 Score=34.02 Aligned_cols=15 Identities=53% Similarity=1.333 Sum_probs=13.8
Q ss_pred CCCCCCccccccccc
Q 000583 314 TCGHFYHPHCVSKLL 328 (1407)
Q Consensus 314 sCGRFYHpkCLa~ll 328 (1407)
.|+..||..||..++
T Consensus 49 ~C~H~FH~~Ci~~Wl 63 (73)
T PF12678_consen 49 PCGHIFHFHCISQWL 63 (73)
T ss_dssp TTSEEEEHHHHHHHH
T ss_pred ccCCCEEHHHHHHHH
Confidence 699999999999886
No 152
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=25.62 E-value=87 Score=37.89 Aligned_cols=25 Identities=20% Similarity=0.420 Sum_probs=21.8
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 000583 730 VNDGDMIVDFCCGANDFSCLMKKKL 754 (1407)
Q Consensus 730 v~~gd~ivdfccg~n~fs~lmk~kl 754 (1407)
+++|++|+|+|||.-.++..|-+++
T Consensus 248 ~~~g~~VLDlgaG~G~~t~~la~~~ 272 (444)
T PRK14902 248 PKGGDTVLDACAAPGGKTTHIAELL 272 (444)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHHh
Confidence 4789999999999999998887654
No 153
>cd02440 AdoMet_MTases S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).
Probab=25.55 E-value=75 Score=27.57 Aligned_cols=89 Identities=17% Similarity=0.346 Sum_probs=44.3
Q ss_pred cEEeccCCcchHHHHHHHHHhhhCCccccccccc-------cC------CCCCccccccccccccCCCCCCCCeeeeeeC
Q 000583 735 MIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDI-------LP------AKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 801 (1407)
Q Consensus 735 ~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl-------~~------~kn~f~Fe~~dw~~v~~~elp~G~~LimgLn 801 (1407)
+|+|+.||...++..|-+ ..+ +.+--.|+ .+ ......|...|+...... .+.+=.+|+- |
T Consensus 1 ~ildig~G~G~~~~~~~~---~~~--~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~d~i~~-~ 73 (107)
T cd02440 1 RVLDLGCGTGALALALAS---GPG--ARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPE-ADESFDVIIS-D 73 (107)
T ss_pred CeEEEcCCccHHHHHHhc---CCC--CEEEEEeCCHHHHHHHHHHHhcccccceEEEEcChhhhccc-cCCceEEEEE-c
Confidence 589999999998887754 111 11111111 11 112344555555554431 1222235544 7
Q ss_pred CCccchhhhHHHHHHhhhc-cCCcEEEEec
Q 000583 802 PPFGVKAGLANKFINKALE-FNPKLLILIV 830 (1407)
Q Consensus 802 PPfg~~a~lAnkFi~kal~-f~Pkliili~ 830 (1407)
+||..-......++..++. .+|.=++++.
T Consensus 74 ~~~~~~~~~~~~~l~~~~~~l~~~g~~~~~ 103 (107)
T cd02440 74 PPLHHLVEDLARFLEEARRLLKPGGVLVLT 103 (107)
T ss_pred cceeehhhHHHHHHHHHHHHcCCCCEEEEE
Confidence 8877623345555555443 3565555544
No 154
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=24.81 E-value=96 Score=33.18 Aligned_cols=39 Identities=28% Similarity=0.454 Sum_probs=30.1
Q ss_pred cchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000583 713 FTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 753 (1407)
Q Consensus 713 ftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 753 (1407)
+|+.|.-.-++.+|. +.+|++|+|++||.-.|+..+-+.
T Consensus 23 ~t~~~~r~~~l~~l~--~~~~~~vlDlG~GtG~~s~~~a~~ 61 (198)
T PRK00377 23 MTKEEIRALALSKLR--LRKGDMILDIGCGTGSVTVEASLL 61 (198)
T ss_pred CCHHHHHHHHHHHcC--CCCcCEEEEeCCcCCHHHHHHHHH
Confidence 777776444456764 679999999999999999877543
No 155
>PRK04266 fibrillarin; Provisional
Probab=24.68 E-value=84 Score=35.14 Aligned_cols=36 Identities=11% Similarity=0.219 Sum_probs=27.2
Q ss_pred HHHHHHhh-cccccCCCcEEeccCCcchHHHHHHHHH
Q 000583 719 LQAIVDKL-HWYVNDGDMIVDFCCGANDFSCLMKKKL 754 (1407)
Q Consensus 719 l~~i~~~L-h~yv~~gd~ivdfccg~n~fs~lmk~kl 754 (1407)
...|...+ .--+.+|++|+|++||..-|+..|.+..
T Consensus 58 ~~~ll~~~~~l~i~~g~~VlD~G~G~G~~~~~la~~v 94 (226)
T PRK04266 58 AAAILKGLKNFPIKKGSKVLYLGAASGTTVSHVSDIV 94 (226)
T ss_pred HHHHHhhHhhCCCCCCCEEEEEccCCCHHHHHHHHhc
Confidence 44455544 2357899999999999999999886644
No 156
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=24.14 E-value=40 Score=33.38 Aligned_cols=32 Identities=31% Similarity=0.638 Sum_probs=21.8
Q ss_pred cccccCCCCCCCCCCCeeeecCCCCCCCCCcccccccccc
Q 000583 290 CFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLL 329 (1407)
Q Consensus 290 CFVCGklGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll~ 329 (1407)
|-.|..+|.. -.+..+ .|+..||..||..++.
T Consensus 35 Cp~Ck~Pgd~-----Cplv~g---~C~H~FH~hCI~kWl~ 66 (85)
T PF12861_consen 35 CPDCKFPGDD-----CPLVWG---KCSHNFHMHCILKWLS 66 (85)
T ss_pred CCCccCCCCC-----Cceeec---cCccHHHHHHHHHHHc
Confidence 5556555531 234444 5999999999999874
No 157
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=24.06 E-value=67 Score=36.98 Aligned_cols=65 Identities=17% Similarity=0.163 Sum_probs=37.6
Q ss_pred cEEeccCCcchHHHHHHHHHhh---hCCccc-------cccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCCc
Q 000583 735 MIVDFCCGANDFSCLMKKKLDE---TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPF 804 (1407)
Q Consensus 735 ~ivdfccg~n~fs~lmk~kl~~---~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPf 804 (1407)
+|+|+|||+---.--+..+.-. ++-+++ =+|-....- .++.|...||+.--.+ .=.||+- ||||
T Consensus 113 ~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l-~~~~~~~~dlf~~~~~----~fDlIVs-NPPY 186 (280)
T COG2890 113 RILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGL-VRVLVVQSDLFEPLRG----KFDLIVS-NPPY 186 (280)
T ss_pred cEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCC-ccEEEEeeecccccCC----ceeEEEe-CCCC
Confidence 7999999999888777665532 222222 223333332 3355555588764332 2235555 9998
Q ss_pred c
Q 000583 805 G 805 (1407)
Q Consensus 805 g 805 (1407)
=
T Consensus 187 i 187 (280)
T COG2890 187 I 187 (280)
T ss_pred C
Confidence 5
No 158
>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=23.78 E-value=35 Score=33.64 Aligned_cols=14 Identities=57% Similarity=1.018 Sum_probs=12.7
Q ss_pred CCCChHHHhhhcCh
Q 000583 667 DGSSIEDAKAVCEP 680 (1407)
Q Consensus 667 ~g~siedAkAvc~p 680 (1407)
.|||++||||+|+.
T Consensus 42 kGCsidD~k~iC~~ 55 (92)
T PF05413_consen 42 KGCSIDDLKAICEK 55 (92)
T ss_pred CCCCHHHHHHHHhh
Confidence 79999999999973
No 159
>PRK06202 hypothetical protein; Provisional
Probab=23.54 E-value=75 Score=34.58 Aligned_cols=38 Identities=16% Similarity=0.237 Sum_probs=27.0
Q ss_pred cCCCcEEeccCCcchHHHHHHHHHhhhCCccccccccc
Q 000583 731 NDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDI 768 (1407)
Q Consensus 731 ~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl 768 (1407)
..+.+|+|++||.-+++..|.+.+.+.|....+--.|+
T Consensus 59 ~~~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~ 96 (232)
T PRK06202 59 DRPLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDP 96 (232)
T ss_pred CCCcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcC
Confidence 57789999999999999888765554454444444443
No 160
>KOG2272 consensus Focal adhesion protein PINCH-1, contains LIM domains [Signal transduction mechanisms; Cytoskeleton]
Probab=23.50 E-value=41 Score=39.02 Aligned_cols=138 Identities=17% Similarity=0.306 Sum_probs=0.0
Q ss_pred cCCccccccCC--CCceeeccccccccccCccccccccccccCCCChhhhcccCcccccCcccc-------ccccccccC
Q 000583 225 LFDSVCSFCDN--GGDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYK-------QHQCFACGK 295 (1407)
Q Consensus 225 l~DdVCaIC~d--GGeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~g-------QHqCFVCGk 295 (1407)
++...|.-|+. -|..+-=.. .++|+.|..-.. |....-+..-+...++-+|..|..+ ...|..|+.
T Consensus 71 LfaPcC~kC~EFiiGrVikamn---nSwHp~CF~Cd~--Cn~~Lad~gf~rnqgr~LC~~Cn~k~Ka~~~g~YvC~KCh~ 145 (332)
T KOG2272|consen 71 LFAPCCGKCGEFIIGRVIKAMN---NSWHPACFRCDL--CNKHLADQGFYRNQGRALCRECNQKEKAKGRGRYVCQKCHA 145 (332)
T ss_pred hhchhhcccccchhhHHHHhhc---cccCcccchhHH--HHHHHhhhhhHhhcchHHhhhhhhhhcccccceeehhhhhh
Q ss_pred CCCCCCCCCCeeeecCCCCCCCCCcccccccccccchHHHHHHHhHhhccCCceeCCCCc-------ccccCCC------
Q 000583 296 LGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHK-------CCICKQG------ 362 (1407)
Q Consensus 296 lGSSDK~SGaELfrCsvasCGRFYHpkCLa~ll~pvde~~ateLekrIaaG~sFrCPlH~-------C~vCkqs------ 362 (1407)
.-+ ...+..=. .--.-||.+|-.-...-..++. .-....+|+.|. |..|++.
T Consensus 146 ~iD-----~~~l~fr~--d~yH~yHFkCt~C~keL~sdaR--------evk~eLyClrChD~mgipiCgaC~rpIeervi 210 (332)
T KOG2272|consen 146 HID-----EQPLTFRG--DPYHPYHFKCTTCGKELTSDAR--------EVKGELYCLRCHDKMGIPICGACRRPIEERVI 210 (332)
T ss_pred hcc-----cccccccC--CCCCccceecccccccccchhh--------hhccceeccccccccCCcccccccCchHHHHH
Q ss_pred -CCCCCCCCceeecccCCccc
Q 000583 363 -ENKADSDLQFAVCRRCPKAY 382 (1407)
Q Consensus 363 -eDkn~segKLIrCdRCPkAY 382 (1407)
.-.+.....-.+|..|.+-|
T Consensus 211 ~amgKhWHveHFvCa~CekPF 231 (332)
T KOG2272|consen 211 FAMGKHWHVEHFVCAKCEKPF 231 (332)
T ss_pred HHhccccchhheeehhcCCcc
No 161
>PRK10458 DNA cytosine methylase; Provisional
Probab=23.33 E-value=3.2e+02 Score=34.19 Aligned_cols=121 Identities=21% Similarity=0.395 Sum_probs=68.3
Q ss_pred cEEeccCCcchHHHHHHHHHhhhCCcccc-------------ccccccCCCCCccccccccccccC--------------
Q 000583 735 MIVDFCCGANDFSCLMKKKLDETGKNCLY-------------KNYDILPAKNDFNFEKRDWMTVEP-------------- 787 (1407)
Q Consensus 735 ~ivdfccg~n~fs~lmk~kl~~~gk~c~~-------------kn~dl~~~kn~f~Fe~~dw~~v~~-------------- 787 (1407)
++|||+||.--|+.=++ ..|..|.+ .||--.+....| ..|=-++..
T Consensus 90 ~~iDLFsGiGGl~lGfe----~aG~~~v~a~Eid~~A~~TY~~N~~~~p~~~~~---~~DI~~i~~~~~~~~~~~~~~~~ 162 (467)
T PRK10458 90 RFIDLFAGIGGIRRGFE----AIGGQCVFTSEWNKHAVRTYKANWYCDPATHRF---NEDIRDITLSHKEGVSDEEAAEH 162 (467)
T ss_pred eEEEeCcCccHHHHHHH----HcCCEEEEEEechHHHHHHHHHHcCCCCcccee---ccChhhCccccccccchhhhhhh
Confidence 69999999999998775 45777754 233100100111 122223332
Q ss_pred --CCCCCCCeeeeeeCC--Cccch-------------------hhhHHHHHHhhhccCCcEEEEecCCcccccccc----
Q 000583 788 --KELAPGSRLIMGLNP--PFGVK-------------------AGLANKFINKALEFNPKLLILIVPPETERLDRK---- 840 (1407)
Q Consensus 788 --~elp~G~~LimgLnP--Pfg~~-------------------a~lAnkFi~kal~f~Pkliili~P~~t~rld~k---- 840 (1407)
.++|.=+-|+.| =| ||-+. +.|.-.|+.-+-.++|+++||===+.....|+.
T Consensus 163 ~~~~~p~~DvL~gG-pPCQ~FS~AG~~k~~~~gr~~g~~~d~rg~Lf~~~~rii~~~kPk~fvlENV~gl~s~~~g~~f~ 241 (467)
T PRK10458 163 IRQHIPDHDVLLAG-FPCQPFSLAGVSKKNSLGRAHGFECETQGTLFFDVARIIDAKRPAIFVLENVKNLKSHDKGKTFR 241 (467)
T ss_pred hhccCCCCCEEEEc-CCCCccchhcccccccccccccccCCccccHHHHHHHHHHHhCCCEEEEeCcHhhhcccccHHHH
Confidence 245555655555 45 67532 336677777777899999887432222222221
Q ss_pred -------CCCceeeec------cccccCCcceecCCC
Q 000583 841 -------ESAYELVWE------DDQFLSGKSFYLPGS 864 (1407)
Q Consensus 841 -------~~~Y~liwe------d~~~l~gksFylPGs 864 (1407)
.-+|.+.|- +-.+|.+.-| +|=.
T Consensus 242 ~i~~~L~~lGY~v~~~~~~g~~~~~vlna~~f-VPQ~ 277 (467)
T PRK10458 242 IIMQTLDELGYDVADAEDNGPDDPKIIDGKHF-LPQH 277 (467)
T ss_pred HHHHHHHHcCCeEEeccccCcccceEeehhhC-CCcc
Confidence 358998763 3356666655 7754
No 162
>PLN02271 serine hydroxymethyltransferase
Probab=23.04 E-value=49 Score=42.15 Aligned_cols=17 Identities=53% Similarity=0.868 Sum_probs=12.8
Q ss_pred CCCCCCCeeeeeeCCCcc
Q 000583 788 KELAPGSRLIMGLNPPFG 805 (1407)
Q Consensus 788 ~elp~G~~LimgLnPPfg 805 (1407)
.=|.+|+ -||||+.++|
T Consensus 233 ALl~PGD-~IL~ldl~~G 249 (586)
T PLN02271 233 GLLLPGD-RIMGLDSPSG 249 (586)
T ss_pred HhcCCCC-EEEEecCCCC
Confidence 4467787 5788888887
No 163
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=22.45 E-value=60 Score=40.30 Aligned_cols=8 Identities=25% Similarity=0.924 Sum_probs=4.4
Q ss_pred ceeecccC
Q 000583 371 QFAVCRRC 378 (1407)
Q Consensus 371 KLIrCdRC 378 (1407)
-++.|-+|
T Consensus 85 ~~l~C~~C 92 (483)
T PF05502_consen 85 YYLSCSYC 92 (483)
T ss_pred EEEECCCc
Confidence 34556666
No 164
>KOG3092 consensus Casein kinase II, beta subunit [Signal transduction mechanisms; Cell cycle control, cell division, chromosome partitioning; Transcription]
Probab=22.31 E-value=79 Score=35.66 Aligned_cols=39 Identities=28% Similarity=0.550 Sum_probs=24.7
Q ss_pred cCCccccc--CCCCCCccccccccccccccccccccCCCceeEeccCCcccccCCCC
Q 000583 377 RCPKAYHR--KCLPRKIAFEDKLEEGIITRAWEGLLPNHRILIYCLKHEIDDEIGTP 431 (1407)
Q Consensus 377 RCPkAYH~--kCLPPpIsFe~~~~EgIp~RAW~CLL~ncRILIyCpkHeID~lLgTP 431 (1407)
+||+.|+. .|||.+++ +++.. ..+.||||+| .|--+..+
T Consensus 108 ~CPRV~C~~q~~LPvGLs-------Dipg~--------~~VklYCP~C-~dvY~P~s 148 (216)
T KOG3092|consen 108 RCPRVYCCGQPVLPVGLS-------DIPGK--------STVKLYCPSC-EDVYIPKS 148 (216)
T ss_pred cCCcccccCCcccccccc-------CCCCc--------ceEEEeCCCc-cccccccc
Confidence 57777776 58998875 34421 2568999999 33333333
No 165
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=22.03 E-value=61 Score=38.98 Aligned_cols=40 Identities=25% Similarity=0.537 Sum_probs=31.7
Q ss_pred CCcccCcCcc--ccccchhhhhhcCCCCCCCCCCCCCCCCCCCC-CCCCCCCCc
Q 000583 1281 LGYRPSMSTD--RELTMWPLARIYGQDFPAPTPGYGQMGSVPSN-LYGNLGSSA 1331 (1407)
Q Consensus 1281 ~~~~~~~~~~--~~~~~~~~~~~yg~~~~~~~~~~~~m~s~~s~-~y~~~gs~~ 1331 (1407)
=||||.+.++ -..++|++++.| .-|++.|++ .||.+|.+.
T Consensus 33 ekyrP~~l~dv~~~~ei~st~~~~-----------~~~~~lPh~L~YgPPGtGk 75 (360)
T KOG0990|consen 33 EKYRPPFLGIVIKQEPIWSTENRY-----------SGMPGLPHLLFYGPPGTGK 75 (360)
T ss_pred cCCCCchhhhHhcCCchhhHHHHh-----------ccCCCCCcccccCCCCCCC
Confidence 3899999998 677899999887 556667764 588888876
No 166
>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=21.93 E-value=81 Score=25.20 Aligned_cols=29 Identities=24% Similarity=0.637 Sum_probs=23.3
Q ss_pred CcccccCCCCCCCCCCCc-eeecccCCcccccCCC
Q 000583 354 HKCCICKQGENKADSDLQ-FAVCRRCPKAYHRKCL 387 (1407)
Q Consensus 354 H~C~vCkqseDkn~segK-LIrCdRCPkAYH~kCL 387 (1407)
++|.+|.+..+. . +..|..|.-..|..|.
T Consensus 1 ~~C~~C~~~~~~-----~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 1 FWCDVCRRKIDG-----FYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCCcCC-----CEeEEeCCCCCeEcCccC
Confidence 368999877543 4 8999999999999884
No 167
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=21.31 E-value=2e+02 Score=36.53 Aligned_cols=125 Identities=20% Similarity=0.407 Sum_probs=76.5
Q ss_pred ccccccccccccc-ccCcccchh----hhHHHHHHhhcccccCC-CcEEeccCCcchHHHHHHHHHh-------------
Q 000583 695 VYLAPFLHGMRYT-SFGRHFTKV----DKLQAIVDKLHWYVNDG-DMIVDFCCGANDFSCLMKKKLD------------- 755 (1407)
Q Consensus 695 vylaP~l~G~ryt-s~grhftk~----ekl~~i~~~Lh~yv~~g-d~ivdfccg~n~fs~lmk~kl~------------- 755 (1407)
.|+-=-|.|.|++ |=|-+|-.- |+|-.+|.- |--.++ -++||.|||..-|+--+.+.-.
T Consensus 342 ~~I~E~l~~ltF~iSp~AFFQ~Nt~~aevLys~i~e--~~~l~~~k~llDv~CGTG~iglala~~~~~ViGvEi~~~aV~ 419 (534)
T KOG2187|consen 342 PYITESLLGLTFRISPGAFFQTNTSAAEVLYSTIGE--WAGLPADKTLLDVCCGTGTIGLALARGVKRVIGVEISPDAVE 419 (534)
T ss_pred cEEEeecCCeEEEECCchhhccCcHHHHHHHHHHHH--HhCCCCCcEEEEEeecCCceehhhhccccceeeeecChhhcc
Confidence 3445556677776 778888543 333333332 433444 4589999999999866544321
Q ss_pred hhCCc---cccccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccC-CcEEEEec
Q 000583 756 ETGKN---CLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFN-PKLLILIV 830 (1407)
Q Consensus 756 ~~gk~---c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~f~-Pkliili~ 830 (1407)
...+. =.--|=++|+.+.- |=|+.--+-...+.+|||-++||= +-|=-|||.-.+.++ |+.||.|+
T Consensus 420 dA~~nA~~NgisNa~Fi~gqaE------~~~~sl~~~~~~~~~~v~iiDPpR---~Glh~~~ik~l~~~~~~~rlvyvS 489 (534)
T KOG2187|consen 420 DAEKNAQINGISNATFIVGQAE------DLFPSLLTPCCDSETLVAIIDPPR---KGLHMKVIKALRAYKNPRRLVYVS 489 (534)
T ss_pred hhhhcchhcCccceeeeecchh------hccchhcccCCCCCceEEEECCCc---ccccHHHHHHHHhccCccceEEEE
Confidence 11111 11346666664221 222222332234666999999995 779999999999999 99998886
No 168
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=21.26 E-value=51 Score=36.33 Aligned_cols=35 Identities=20% Similarity=0.533 Sum_probs=25.0
Q ss_pred cccccCCCCCCC-CCCCceeecccCCcccccCCCCC
Q 000583 355 KCCICKQGENKA-DSDLQFAVCRRCPKAYHRKCLPR 389 (1407)
Q Consensus 355 ~C~vCkqseDkn-~segKLIrCdRCPkAYH~kCLPP 389 (1407)
.|..|..++.-= ......++|..|-..||..|...
T Consensus 154 iCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 154 ICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK 189 (202)
T ss_pred CCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC
Confidence 488997663210 11235789999999999999875
No 169
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=20.98 E-value=42 Score=44.12 Aligned_cols=93 Identities=20% Similarity=0.440 Sum_probs=0.0
Q ss_pred cccccCCccccccCC----CCceeeccccccccccCccccccccccccCCCChhhhcccCcccccCcccccc------cc
Q 000583 221 EEDELFDSVCSFCDN----GGDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQH------QC 290 (1407)
Q Consensus 221 e~dDl~DdVCaIC~d----GGeLLCCDGsC~RSFH~~CldGeeS~ClsLGLTeaEvqp~~~W~CpnCe~gQH------qC 290 (1407)
++-......|.||-. ...+..|. .|...||+.|....... .+......|.|+.|.+.+. .|
T Consensus 185 ~~l~~~~yeCmIC~e~I~~t~~~WSC~-sCYhVFHl~CI~~WArs--------~ek~~~~~WrCP~Cqsv~~~~~~~y~C 255 (950)
T KOG1952|consen 185 EQLSNRKYECMICTERIKRTAPVWSCK-SCYHVFHLNCIKKWARS--------SEKTGQDGWRCPACQSVSKTVPKTYLC 255 (950)
T ss_pred HHHhcCceEEEEeeeeccccCCceecc-hhhhhhhHHHHHHHHHH--------hhhccCccccCCcccchhccCCcccce
Q ss_pred ccccCCCCCCCCCCCeeeecCCCCCCCCCccccc
Q 000583 291 FACGKLGSSDKETGAEVFPCVSATCGHFYHPHCV 324 (1407)
Q Consensus 291 FVCGklGSSDK~SGaELfrCsvasCGRFYHpkCL 324 (1407)
| ||+.....-..+.--.-|. ..|++.--..|.
T Consensus 256 ~-CGk~~nP~~~~~~~PHSCG-E~C~k~~~~~C~ 287 (950)
T KOG1952|consen 256 F-CGKVKNPEFSRNELPHSCG-EVCGKPRPGGCP 287 (950)
T ss_pred e-cCcccCCCCCCCCCCcccc-ccccCCCCCCCC
No 170
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=20.96 E-value=32 Score=28.81 Aligned_cols=20 Identities=25% Similarity=0.634 Sum_probs=14.1
Q ss_pred ceeecccCCcccccCCCCCC
Q 000583 371 QFAVCRRCPKAYHRKCLPRK 390 (1407)
Q Consensus 371 KLIrCdRCPkAYH~kCLPPp 390 (1407)
+|++|+.|..+.|..|---.
T Consensus 3 ~ll~C~~C~v~VH~~CYGv~ 22 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCYGVS 22 (36)
T ss_dssp EEEE-SSS--EEEHHHHT-S
T ss_pred ceEEeCCCCCcCChhhCCcc
Confidence 69999999999999997553
No 171
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=20.83 E-value=73 Score=38.63 Aligned_cols=25 Identities=20% Similarity=0.478 Sum_probs=21.5
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 000583 730 VNDGDMIVDFCCGANDFSCLMKKKL 754 (1407)
Q Consensus 730 v~~gd~ivdfccg~n~fs~lmk~kl 754 (1407)
.++|++|+|+|||...++..|-+.+
T Consensus 248 ~~~g~~VLDlgaG~G~kt~~la~~~ 272 (445)
T PRK14904 248 PQPGSTVLDLCAAPGGKSTFMAELM 272 (445)
T ss_pred CCCCCEEEEECCCCCHHHHHHHHHh
Confidence 4789999999999999998886654
No 172
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=20.58 E-value=2e+02 Score=32.63 Aligned_cols=100 Identities=16% Similarity=0.205 Sum_probs=57.3
Q ss_pred HHHHHHHHHHhhhcccccHHHHHhhccCCccccccccchhhhhhhcccchhHHHHHHHHHHhcccCCCChHHHhhhcChh
Q 000583 602 DSKRRLSSLMKDAASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPE 681 (1407)
Q Consensus 602 ~~err~~~l~~~~~ss~t~~~v~k~~~~~st~~~~~~~~~~k~it~Gkve~sV~Avr~AL~kle~~g~siedAkAvc~p~ 681 (1407)
+..++|++++++.. .++..|+.+.+.+ |...||.-|+.||.+|. +.-
T Consensus 5 eR~~~Il~~L~~~~-~v~v~eLa~~l~V-----------------------S~~TIRRDL~~Le~~g~-l~r-------- 51 (256)
T PRK10434 5 QRQAAILEYLQKQG-KTSVEELAQYFDT-----------------------TGTTIRKDLVILEHAGT-VIR-------- 51 (256)
T ss_pred HHHHHHHHHHHHcC-CEEHHHHHHHHCC-----------------------CHHHHHHHHHHHHHCCC-EEE--------
Confidence 55666888888754 6999999888776 44566777777774542 110
Q ss_pred hHhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchH
Q 000583 682 VLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDF 746 (1407)
Q Consensus 682 vl~ql~~wk~kL~vylaP~l~G~ryts~grhftk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~f 746 (1407)
.+-.. + +.+. ... +.-.-|.-...+..++|+++-.=||++||+|. |-.|+--+
T Consensus 52 -------~~Gga-~-~~~~-~~~-~~~~~r~~~~~~~K~~IA~~Aa~~I~~g~tIf-ld~GtT~~ 104 (256)
T PRK10434 52 -------TYGGV-V-LNKE-ESD-PPIDHKTLINTHKKELIAEAAVSLIHDGDSII-LDAGSTVL 104 (256)
T ss_pred -------EECCE-E-cCCC-CCC-CCHHHHHHhhHHHHHHHHHHHHhhCCCCCEEE-EcCcHHHH
Confidence 00000 0 0000 000 00011222345667889999999999999974 22555443
No 173
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=20.39 E-value=72 Score=38.56 Aligned_cols=25 Identities=16% Similarity=0.407 Sum_probs=21.5
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 000583 730 VNDGDMIVDFCCGANDFSCLMKKKL 754 (1407)
Q Consensus 730 v~~gd~ivdfccg~n~fs~lmk~kl 754 (1407)
+++|++|+|+|||...++..|-+.+
T Consensus 250 ~~~g~~VLDl~ag~G~kt~~la~~~ 274 (434)
T PRK14901 250 PQPGEVILDACAAPGGKTTHIAELM 274 (434)
T ss_pred CCCcCEEEEeCCCCchhHHHHHHHh
Confidence 5789999999999999998886643
No 174
>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=20.35 E-value=1e+02 Score=33.38 Aligned_cols=47 Identities=28% Similarity=0.424 Sum_probs=26.6
Q ss_pred CCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhc-cCC-cEEEEecCCccc
Q 000583 787 PKELAPGSRLIMGLNPPFGVKAGLANKFINKALE-FNP-KLLILIVPPETE 835 (1407)
Q Consensus 787 ~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~-f~P-kliili~P~~t~ 835 (1407)
|.+| +|+..+|-.+||| +.-.++.|+..-+-- .+| -=||++.+.+.+
T Consensus 80 ~~~l-~~~~d~vv~DPPF-l~~ec~~k~a~ti~~L~k~~~kii~~Tg~~~~ 128 (162)
T PF10237_consen 80 PEEL-KGKFDVVVIDPPF-LSEECLTKTAETIRLLLKPGGKIILCTGEEME 128 (162)
T ss_pred hhhc-CCCceEEEECCCC-CCHHHHHHHHHHHHHHhCccceEEEecHHHHH
Confidence 3444 7899999999999 544455444332211 122 234566665543
Done!