Query 004523
Match_columns 747
No_of_seqs 227 out of 593
Neff 4.5
Searched_HMMs 46136
Date Fri Mar 29 00:51:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004523.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004523hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5141 PHD zinc finger-contai 97.9 5E-06 1.1E-10 92.9 2.0 91 83-187 189-336 (669)
2 KOG4443 Putative transcription 97.7 1.9E-05 4.1E-10 91.1 3.4 81 149-250 20-101 (694)
3 KOG0955 PHD finger protein BR1 97.6 5.3E-05 1.2E-09 92.4 5.4 138 82-253 214-367 (1051)
4 KOG4299 PHD Zn-finger protein 97.6 2.1E-05 4.5E-10 90.5 1.5 51 86-146 252-305 (613)
5 smart00249 PHD PHD zinc finger 97.5 8.3E-05 1.8E-09 56.5 3.3 44 89-143 1-47 (47)
6 KOG1973 Chromatin remodeling p 97.5 4.7E-05 1E-09 81.0 2.3 51 81-145 215-267 (274)
7 COG5034 TNG2 Chromatin remodel 97.5 5.7E-05 1.2E-09 79.1 2.8 51 81-145 215-269 (271)
8 PF00628 PHD: PHD-finger; Int 97.5 2.7E-05 5.9E-10 62.0 0.3 46 89-145 1-50 (51)
9 KOG4299 PHD Zn-finger protein 97.4 0.00015 3.2E-09 83.7 4.5 50 215-283 255-304 (613)
10 KOG1512 PHD Zn-finger protein 97.2 0.00012 2.5E-09 77.9 0.8 84 85-190 256-350 (381)
11 PRK00274 ksgA 16S ribosomal RN 97.1 0.00042 9.2E-09 73.1 4.3 152 546-706 17-188 (272)
12 KOG1244 Predicted transcriptio 97.1 0.00017 3.6E-09 76.3 1.1 82 84-187 221-314 (336)
13 PHA03412 putative methyltransf 97.1 0.0013 2.7E-08 69.3 7.1 170 548-733 29-230 (241)
14 KOG0954 PHD finger protein [Ge 97.0 0.00034 7.3E-09 81.8 2.5 157 86-285 270-440 (893)
15 KOG4443 Putative transcription 97.0 0.00029 6.2E-09 81.7 1.7 84 82-187 13-101 (694)
16 PF02384 N6_Mtase: N-6 DNA Met 96.9 0.00065 1.4E-08 72.1 3.5 123 546-674 22-187 (311)
17 KOG0956 PHD finger protein AF1 96.9 0.00055 1.2E-08 79.6 2.6 84 90-186 8-156 (900)
18 TIGR02987 met_A_Alw26 type II 96.8 0.0043 9.3E-08 71.2 9.3 50 548-597 2-56 (524)
19 KOG0383 Predicted helicase [Ge 96.6 0.00091 2E-08 79.1 1.9 51 83-145 43-93 (696)
20 KOG1244 Predicted transcriptio 96.5 0.002 4.4E-08 68.4 3.2 73 164-252 243-316 (336)
21 PF15446 zf-PHD-like: PHD/FYVE 96.4 0.0057 1.2E-07 61.2 5.8 25 228-252 120-144 (175)
22 TIGR00755 ksgA dimethyladenosi 96.3 0.0094 2E-07 62.1 6.9 146 547-706 5-176 (253)
23 PRK14896 ksgA 16S ribosomal RN 96.3 0.0024 5.2E-08 66.9 2.6 149 547-706 5-172 (258)
24 KOG1473 Nucleosome remodeling 96.0 0.0039 8.4E-08 76.0 2.8 58 82-158 339-396 (1414)
25 PF01170 UPF0020: Putative RNA 95.9 0.0064 1.4E-07 60.7 3.7 106 562-672 20-152 (179)
26 PTZ00338 dimethyladenosine tra 95.8 0.02 4.3E-07 61.8 6.9 150 542-706 6-184 (294)
27 smart00249 PHD PHD zinc finger 95.6 0.013 2.9E-07 44.3 3.4 33 215-251 1-33 (47)
28 KOG0825 PHD Zn-finger protein 95.0 0.014 3E-07 69.2 2.7 47 87-145 215-265 (1134)
29 PF00628 PHD: PHD-finger; Int 94.4 0.034 7.4E-07 44.2 2.7 34 215-252 1-34 (51)
30 KOG1512 PHD Zn-finger protein 93.9 0.041 9E-07 59.1 2.9 70 165-250 277-347 (381)
31 PF00398 RrnaAD: Ribosomal RNA 93.7 0.033 7.2E-07 58.6 1.9 159 546-720 5-192 (262)
32 KOG0383 Predicted helicase [Ge 93.2 0.037 8.1E-07 66.0 1.5 81 105-222 1-96 (696)
33 KOG4323 Polycomb-like PHD Zn-f 92.6 0.058 1.3E-06 61.6 1.7 52 86-146 167-224 (464)
34 KOG0957 PHD finger protein [Ge 92.4 0.055 1.2E-06 61.8 1.3 65 88-157 120-192 (707)
35 PF13659 Methyltransf_26: Meth 92.4 0.065 1.4E-06 48.1 1.5 86 573-660 1-103 (117)
36 TIGR00479 rumA 23S rRNA (uraci 92.0 0.19 4.1E-06 56.5 4.9 117 555-675 273-401 (431)
37 PRK10909 rsmD 16S rRNA m(2)G96 91.7 0.36 7.7E-06 49.5 6.0 98 571-673 52-161 (199)
38 PF13832 zf-HC5HC2H_2: PHD-zin 91.4 0.1 2.2E-06 47.9 1.6 102 149-281 2-110 (110)
39 KOG1701 Focal adhesion adaptor 91.4 0.033 7.2E-07 62.6 -1.8 82 89-184 276-361 (468)
40 smart00650 rADc Ribosomal RNA 91.2 0.58 1.2E-05 45.7 6.8 137 560-705 3-159 (169)
41 COG2263 Predicted RNA methylas 90.5 0.6 1.3E-05 48.2 6.3 117 530-670 8-144 (198)
42 KOG0825 PHD Zn-finger protein 89.3 0.11 2.4E-06 62.1 -0.0 33 215-251 217-250 (1134)
43 PRK13168 rumA 23S rRNA m(5)U19 89.1 0.67 1.5E-05 52.5 6.0 111 559-674 282-404 (443)
44 TIGR01177 conserved hypothetic 88.3 1.6 3.5E-05 47.4 8.1 30 559-590 171-200 (329)
45 PF13832 zf-HC5HC2H_2: PHD-zin 88.0 0.52 1.1E-05 43.2 3.5 86 89-187 2-88 (110)
46 PHA03411 putative methyltransf 87.8 0.25 5.4E-06 53.4 1.4 48 542-593 38-85 (279)
47 PF05175 MTS: Methyltransferas 85.3 0.34 7.5E-06 47.6 0.9 92 562-661 23-129 (170)
48 KOG1973 Chromatin remodeling p 84.9 0.61 1.3E-05 50.1 2.6 27 164-190 229-256 (274)
49 TIGR02085 meth_trns_rumB 23S r 84.4 0.53 1.1E-05 52.4 1.9 115 554-674 213-338 (374)
50 PF13771 zf-HC5HC2H: PHD-like 83.8 0.55 1.2E-05 41.4 1.4 35 83-117 32-68 (90)
51 TIGR03534 RF_mod_PrmC protein- 83.8 2.6 5.7E-05 42.9 6.5 96 543-647 57-167 (251)
52 PF07669 Eco57I: Eco57I restri 83.7 0.96 2.1E-05 41.7 3.0 39 636-675 5-56 (106)
53 COG2265 TrmA SAM-dependent met 82.4 1.5 3.3E-05 50.1 4.5 117 543-670 260-395 (432)
54 KOG0957 PHD finger protein [Ge 82.4 0.64 1.4E-05 53.5 1.5 49 87-144 544-596 (707)
55 TIGR03704 PrmC_rel_meth putati 82.1 1.4 3E-05 46.5 3.8 68 573-645 87-164 (251)
56 PRK03522 rumB 23S rRNA methylu 81.9 1.9 4.1E-05 46.7 4.9 93 572-670 173-273 (315)
57 PF02475 Met_10: Met-10+ like- 81.4 0.73 1.6E-05 47.5 1.4 98 533-661 80-191 (200)
58 KOG4323 Polycomb-like PHD Zn-f 81.1 0.84 1.8E-05 52.5 1.9 54 215-283 170-223 (464)
59 KOG0956 PHD finger protein AF1 80.1 0.76 1.6E-05 54.7 1.1 58 83-145 113-179 (900)
60 COG0030 KsgA Dimethyladenosine 79.4 6.6 0.00014 42.3 7.8 155 547-720 6-192 (259)
61 PF13831 PHD_2: PHD-finger; PD 78.4 0.53 1.1E-05 36.1 -0.6 35 97-144 2-36 (36)
62 PRK11188 rrmJ 23S rRNA methylt 78.1 10 0.00022 38.9 8.5 66 556-625 36-103 (209)
63 COG2226 UbiE Methylase involve 77.9 2 4.3E-05 45.6 3.3 57 523-594 17-73 (238)
64 KOG1245 Chromatin remodeling c 77.0 0.68 1.5E-05 59.6 -0.5 52 83-146 1104-1158(1404)
65 PLN02672 methionine S-methyltr 75.2 4 8.7E-05 51.7 5.4 146 494-648 22-217 (1082)
66 PRK14967 putative methyltransf 74.9 10 0.00022 38.8 7.4 34 557-592 23-56 (223)
67 PRK09328 N5-glutamine S-adenos 71.4 7.3 0.00016 40.5 5.5 70 570-648 106-189 (275)
68 PF15446 zf-PHD-like: PHD/FYVE 70.3 2.4 5.3E-05 43.0 1.6 37 215-252 1-37 (175)
69 PRK05785 hypothetical protein; 70.2 5.5 0.00012 41.3 4.2 47 545-594 27-73 (226)
70 TIGR00536 hemK_fam HemK family 69.7 3.1 6.7E-05 44.4 2.4 69 574-647 116-195 (284)
71 PF13771 zf-HC5HC2H: PHD-like 69.4 2.3 5E-05 37.5 1.1 34 147-187 36-69 (90)
72 KOG3420 Predicted RNA methylas 69.4 1.2 2.6E-05 44.7 -0.7 104 554-661 28-142 (185)
73 TIGR03533 L3_gln_methyl protei 69.3 3 6.6E-05 44.7 2.2 72 571-647 120-202 (284)
74 PF13901 DUF4206: Domain of un 68.5 3.8 8.2E-05 42.2 2.6 46 139-186 144-189 (202)
75 KOG1044 Actin-binding LIM Zn-f 66.7 4.3 9.2E-05 47.9 2.8 77 87-186 16-94 (670)
76 TIGR00095 RNA methyltransferas 66.6 5 0.00011 40.6 3.0 37 556-593 33-70 (189)
77 COG0286 HsdM Type I restrictio 65.0 7.4 0.00016 45.2 4.4 49 548-598 164-212 (489)
78 PRK11805 N5-glutamine S-adenos 64.7 3.8 8.1E-05 44.7 1.9 65 574-647 135-214 (307)
79 PF10237 N6-adenineMlase: Prob 64.6 7.3 0.00016 39.1 3.7 68 594-676 60-129 (162)
80 COG0293 FtsJ 23S rRNA methylas 64.5 7.4 0.00016 40.7 3.8 43 556-599 30-72 (205)
81 TIGR03587 Pse_Me-ase pseudamin 63.9 7.5 0.00016 39.8 3.7 51 543-593 14-64 (204)
82 PF11793 FANCL_C: FANCL C-term 63.6 5.5 0.00012 34.5 2.3 38 149-188 4-41 (70)
83 PRK14966 unknown domain/N5-glu 63.5 8.8 0.00019 44.1 4.5 80 559-646 238-331 (423)
84 KOG4628 Predicted E3 ubiquitin 61.0 4.4 9.4E-05 45.4 1.5 49 148-224 230-278 (348)
85 cd04718 BAH_plant_2 BAH, or Br 60.4 5.4 0.00012 39.8 1.9 26 110-146 2-27 (148)
86 PRK09489 rsmC 16S ribosomal RN 60.0 46 0.001 37.0 9.3 21 573-593 197-217 (342)
87 TIGR02143 trmA_only tRNA (urac 59.9 5 0.00011 44.5 1.8 97 573-674 198-315 (353)
88 TIGR00080 pimt protein-L-isoas 59.1 12 0.00027 38.0 4.3 45 549-595 56-100 (215)
89 KOG0955 PHD finger protein BR1 58.6 7.3 0.00016 49.1 3.0 66 148-244 220-285 (1051)
90 KOG2187 tRNA uracil-5-methyltr 58.0 22 0.00048 41.9 6.5 129 534-671 341-490 (534)
91 PF13489 Methyltransf_23: Meth 57.3 12 0.00027 34.8 3.7 35 558-592 8-42 (161)
92 PRK05031 tRNA (uracil-5-)-meth 57.1 11 0.00023 42.1 3.7 37 557-593 190-227 (362)
93 PF14446 Prok-RING_1: Prokaryo 55.3 7.5 0.00016 32.7 1.6 33 148-186 6-38 (54)
94 PRK13944 protein-L-isoaspartat 54.2 16 0.00035 37.0 4.2 44 549-594 51-94 (205)
95 PRK11783 rlmL 23S rRNA m(2)G24 54.1 19 0.00042 43.6 5.5 30 560-590 179-208 (702)
96 PRK13942 protein-L-isoaspartat 53.9 14 0.00031 37.8 3.8 45 548-594 54-98 (212)
97 PF14446 Prok-RING_1: Prokaryo 53.8 6.9 0.00015 32.9 1.2 32 215-249 7-38 (54)
98 PRK14968 putative methyltransf 52.8 38 0.00083 32.7 6.4 38 554-593 7-44 (188)
99 PF05869 Dam: DNA N-6-adenine- 51.2 21 0.00046 36.5 4.5 132 552-727 14-152 (181)
100 PF01555 N6_N4_Mtase: DNA meth 49.8 9.6 0.00021 37.6 1.8 49 538-589 154-208 (231)
101 COG2813 RsmC 16S RNA G1207 met 48.6 45 0.00098 36.9 6.7 193 436-669 44-266 (300)
102 PTZ00098 phosphoethanolamine N 48.5 22 0.00049 37.6 4.3 51 540-592 10-72 (263)
103 KOG3612 PHD Zn-finger protein 47.5 15 0.00032 43.3 3.0 33 82-115 55-87 (588)
104 PF01728 FtsJ: FtsJ-like methy 46.0 14 0.0003 36.3 2.2 38 557-594 7-45 (181)
105 PTZ00146 fibrillarin; Provisio 45.2 23 0.0005 38.9 3.9 59 540-598 87-158 (293)
106 PF01209 Ubie_methyltran: ubiE 44.7 10 0.00022 39.8 1.1 43 545-592 25-67 (233)
107 COG2230 Cfa Cyclopropane fatty 44.2 24 0.00052 38.7 3.8 34 558-593 60-93 (283)
108 PRK00312 pcm protein-L-isoaspa 44.1 78 0.0017 31.9 7.3 71 519-593 23-99 (212)
109 COG2520 Predicted methyltransf 42.6 8 0.00017 43.2 -0.1 77 568-661 184-278 (341)
110 PF13679 Methyltransf_32: Meth 42.3 1.1E+02 0.0024 29.2 7.7 105 556-667 6-129 (141)
111 COG2890 HemK Methylase of poly 41.8 56 0.0012 35.3 6.1 126 494-646 52-188 (280)
112 PRK15001 SAM-dependent 23S rib 41.6 26 0.00055 39.7 3.7 120 544-670 199-339 (378)
113 TIGR02469 CbiT precorrin-6Y C5 41.5 41 0.00088 29.9 4.3 35 557-593 6-40 (124)
114 PF08003 Methyltransf_9: Prote 41.1 53 0.0012 36.6 5.8 73 571-688 114-188 (315)
115 COG5034 TNG2 Chromatin remodel 40.7 23 0.0005 38.3 3.0 28 163-190 230-258 (271)
116 cd00315 Cyt_C5_DNA_methylase C 40.5 76 0.0017 34.0 6.9 83 575-669 2-110 (275)
117 KOG3362 Predicted BBOX Zn-fing 40.3 12 0.00026 37.2 0.8 35 207-249 112-147 (156)
118 COG1041 Predicted DNA modifica 40.2 42 0.00092 37.8 5.0 96 570-671 195-311 (347)
119 KOG0804 Cytoplasmic Zn-finger 39.9 10 0.00022 43.7 0.2 28 87-116 175-207 (493)
120 KOG4628 Predicted E3 ubiquitin 39.5 17 0.00037 40.8 1.8 30 88-118 230-262 (348)
121 TIGR02752 MenG_heptapren 2-hep 38.3 30 0.00064 35.1 3.3 42 547-593 25-66 (231)
122 TIGR00438 rrmJ cell division p 38.2 37 0.0008 33.7 3.8 36 558-594 19-54 (188)
123 TIGR02021 BchM-ChlM magnesium 38.0 33 0.00071 34.8 3.5 33 560-592 39-75 (219)
124 PRK08287 cobalt-precorrin-6Y C 37.6 54 0.0012 32.4 4.9 42 550-593 11-52 (187)
125 PF03107 C1_2: C1 domain; Int 37.1 29 0.00064 25.3 2.2 29 214-247 1-30 (30)
126 KOG1734 Predicted RING-contain 36.9 11 0.00024 41.0 -0.1 49 85-146 222-279 (328)
127 TIGR00446 nop2p NOL1/NOP2/sun 36.3 24 0.00052 37.4 2.3 26 569-594 68-93 (264)
128 PRK07402 precorrin-6B methylas 35.9 56 0.0012 32.6 4.8 41 550-592 20-60 (196)
129 PF04405 ScdA_N: Domain of Unk 35.9 14 0.00029 31.1 0.3 9 577-585 24-32 (56)
130 TIGR00406 prmA ribosomal prote 35.9 40 0.00087 36.2 3.9 39 550-592 141-179 (288)
131 smart00550 Zalpha Z-DNA-bindin 34.7 51 0.0011 28.2 3.6 49 441-512 4-53 (68)
132 PF02353 CMAS: Mycolic acid cy 34.7 42 0.00091 36.2 3.8 34 558-593 50-83 (273)
133 KOG4217 Nuclear receptors of t 34.6 12 0.00026 43.4 -0.2 60 83-145 265-329 (605)
134 COG3802 GguC Uncharacterized p 34.1 21 0.00045 38.8 1.4 66 642-708 185-285 (333)
135 TIGR00762 DegV EDD domain prot 33.8 1.6E+02 0.0035 31.4 8.0 94 495-596 122-246 (275)
136 PRK01544 bifunctional N5-gluta 33.5 29 0.00063 40.5 2.6 70 572-646 138-218 (506)
137 PF13651 EcoRI_methylase: Aden 32.6 40 0.00086 37.8 3.2 61 637-704 138-203 (336)
138 PRK00050 16S rRNA m(4)C1402 me 32.6 36 0.00077 37.4 2.9 35 558-594 7-41 (296)
139 PRK14890 putative Zn-ribbon RN 31.6 35 0.00075 29.4 2.0 32 135-176 23-55 (59)
140 TIGR01712 phage_N6A_met phage 31.4 39 0.00084 34.4 2.7 77 637-726 64-145 (166)
141 KOG1428 Inhibitor of type V ad 30.3 26 0.00057 45.7 1.6 49 232-284 3602-3653(3738)
142 PF14881 Tubulin_3: Tubulin do 29.9 36 0.00078 34.7 2.2 47 551-597 48-101 (180)
143 PRK04266 fibrillarin; Provisio 28.8 69 0.0015 33.6 4.2 35 560-594 59-94 (226)
144 PF05413 Peptidase_C34: Putati 28.3 23 0.00049 32.3 0.4 14 507-520 42-55 (92)
145 PF13412 HTH_24: Winged helix- 28.0 67 0.0014 25.0 3.0 45 443-511 3-47 (48)
146 TIGR02081 metW methionine bios 26.8 69 0.0015 31.9 3.6 30 559-592 4-33 (194)
147 PRK00377 cbiT cobalt-precorrin 26.8 90 0.002 31.3 4.5 39 553-593 23-61 (198)
148 PRK06202 hypothetical protein; 26.7 56 0.0012 33.5 3.0 39 571-609 59-97 (232)
149 PF11793 FANCL_C: FANCL C-term 26.7 30 0.00066 30.0 0.9 34 215-249 4-39 (70)
150 PF07227 DUF1423: Protein of u 26.1 39 0.00085 39.1 1.9 42 136-186 122-163 (446)
151 COG4798 Predicted methyltransf 25.9 35 0.00075 36.1 1.3 49 567-615 43-91 (238)
152 PF12678 zf-rbx1: RING-H2 zinc 25.9 14 0.00031 32.1 -1.2 16 173-188 48-63 (73)
153 PF13639 zf-RING_2: Ring finge 25.6 15 0.00033 28.3 -1.0 33 149-188 2-34 (44)
154 COG1307 DegV Uncharacterized p 25.6 2.1E+02 0.0046 31.2 7.3 97 497-601 127-254 (282)
155 KOG0804 Cytoplasmic Zn-finger 25.1 40 0.00086 39.2 1.7 34 149-188 177-210 (493)
156 PF13831 PHD_2: PHD-finger; PD 24.6 24 0.00052 27.1 -0.1 20 230-249 2-21 (36)
157 TIGR00497 hsdM type I restrict 24.4 44 0.00094 38.9 1.9 47 542-588 187-233 (501)
158 PRK11524 putative methyltransf 24.2 61 0.0013 34.8 2.9 34 551-586 188-222 (284)
159 KOG4589 Cell division protein 23.8 52 0.0011 34.7 2.1 78 557-659 55-132 (232)
160 PF06524 NOA36: NOA36 protein; 23.7 45 0.00097 36.4 1.7 25 84-109 122-151 (314)
161 PLN02585 magnesium protoporphy 23.6 37 0.0008 37.4 1.1 22 572-593 144-165 (315)
162 cd07168 NR_DBD_DHR4_like DNA-b 23.4 63 0.0014 29.5 2.4 28 86-114 5-37 (90)
163 PRK14904 16S rRNA methyltransf 23.4 59 0.0013 37.2 2.7 25 570-594 248-272 (445)
164 smart00744 RINGv The RING-vari 23.3 42 0.00092 27.2 1.1 36 150-188 2-37 (49)
165 PRK14901 16S rRNA methyltransf 23.2 57 0.0012 37.2 2.5 24 570-593 250-273 (434)
166 PRK00121 trmB tRNA (guanine-N( 23.0 93 0.002 31.6 3.8 26 568-593 36-61 (202)
167 PF00130 C1_1: Phorbol esters/ 22.8 64 0.0014 25.7 2.0 34 214-249 12-45 (53)
168 PF13847 Methyltransf_31: Meth 22.6 1.5E+02 0.0033 28.1 5.0 97 571-673 2-112 (152)
169 PF03960 ArsC: ArsC family; I 22.6 1.4E+02 0.0029 27.5 4.4 80 497-576 8-98 (110)
170 PLN03208 E3 ubiquitin-protein 22.3 50 0.0011 34.4 1.7 34 83-117 14-47 (193)
171 KOG1081 Transcription factor N 21.9 44 0.00095 38.9 1.3 31 83-114 85-115 (463)
172 KOG1952 Transcription factor N 21.8 26 0.00056 43.4 -0.6 51 86-145 190-244 (950)
173 KOG3996 Holocytochrome c synth 21.7 2.2E+02 0.0048 30.6 6.2 59 523-585 147-219 (256)
174 PRK10458 DNA cytosine methylas 21.7 2E+02 0.0044 33.6 6.6 24 575-602 90-113 (467)
175 PF01135 PCMT: Protein-L-isoas 21.5 1.2E+02 0.0027 31.4 4.4 49 548-598 50-98 (209)
176 PF12861 zf-Apc11: Anaphase-pr 21.4 37 0.0008 31.1 0.4 25 90-116 35-62 (85)
177 PTZ00487 ceramidase; Provision 21.1 85 0.0018 38.6 3.5 72 433-508 93-179 (715)
178 PRK13699 putative methylase; P 21.0 64 0.0014 33.8 2.2 22 567-588 158-179 (227)
179 PF12847 Methyltransf_18: Meth 21.0 88 0.0019 27.6 2.8 21 572-592 1-21 (112)
180 KOG1098 Putative SAM-dependent 20.9 45 0.00098 40.3 1.2 31 556-587 29-59 (780)
181 PF00145 DNA_methylase: C-5 cy 20.7 35 0.00075 35.8 0.2 81 575-668 2-108 (335)
182 TIGR00675 dcm DNA-methyltransf 20.5 41 0.00088 36.8 0.6 88 576-669 1-107 (315)
183 COG2264 PrmA Ribosomal protein 20.5 1.3E+02 0.0028 33.4 4.4 61 528-592 97-182 (300)
184 COG3028 Uncharacterized protei 20.4 76 0.0017 32.7 2.5 33 494-533 94-126 (187)
185 KOG4218 Nuclear hormone recept 20.4 43 0.00093 37.8 0.8 27 87-114 15-46 (475)
186 PF10235 Cript: Microtubule-as 20.3 55 0.0012 30.3 1.3 22 136-157 58-79 (90)
187 COG2888 Predicted Zn-ribbon RN 20.2 64 0.0014 27.9 1.6 31 136-176 26-57 (61)
188 PF12861 zf-Apc11: Anaphase-pr 20.1 45 0.00098 30.6 0.7 17 173-189 50-66 (85)
No 1
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=97.88 E-value=5e-06 Score=92.94 Aligned_cols=91 Identities=25% Similarity=0.636 Sum_probs=65.9
Q ss_pred CCCCcccccccCCC-----CCeeecCCccccccccccccCccccccccCCcccccCCCCceecccccccCcc---ccccc
Q 004523 83 DENYFAVCAICDDG-----GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQ---CFACG 154 (747)
Q Consensus 83 dd~~DdVCaIC~dg-----GeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~~h~---CfvCg 154 (747)
+|..|+.|++|... ..++.||| |.-+.|..| .|+.-. |+|.|+|..|.++.++ |.-|-
T Consensus 189 ~d~~d~~C~~c~~t~~eN~naiVfCdg-C~i~VHq~C----------YGI~f~---peG~WlCrkCi~~~~~i~~C~fCp 254 (669)
T COG5141 189 SDEFDDICTKCTSTHNENSNAIVFCDG-CEICVHQSC----------YGIQFL---PEGFWLCRKCIYGEYQIRCCSFCP 254 (669)
T ss_pred chhhhhhhHhccccccCCcceEEEecC-cchhhhhhc----------ccceec---CcchhhhhhhcccccceeEEEecc
Confidence 44678999999765 34999997 999999996 676432 6799999999987653 55554
Q ss_pred cCCCC-----CC--------------------------------------------CCCCceecccCCCcCCCCcccccc
Q 004523 155 MLGSS-----DK--------------------------------------------SSSQEVFPCVSATCGQFYHPECVS 185 (747)
Q Consensus 155 k~Gss-----d~--------------------------------------------ss~aeV~kCsv~~CGKfYH~~CL~ 185 (747)
...-. |+ .-++.-++|+..+|.+.||..|..
T Consensus 255 s~dGaFkqT~dgrW~H~iCA~~~pelsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~GtcIqCs~~nC~~aYHVtCAr 334 (669)
T COG5141 255 SSDGAFKQTSDGRWGHVICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYHVTCAR 334 (669)
T ss_pred CCCCceeeccCCchHhHhHHHhcchhccccccccchhhhhcccchhhHhheeeEEcccCcceeeecccchhhhhhhhhhh
Confidence 32110 00 013456789999999999999976
Q ss_pred cc
Q 004523 186 KL 187 (747)
Q Consensus 186 ~~ 187 (747)
..
T Consensus 335 ra 336 (669)
T COG5141 335 RA 336 (669)
T ss_pred hc
Confidence 53
No 2
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=97.73 E-value=1.9e-05 Score=91.14 Aligned_cols=81 Identities=30% Similarity=0.781 Sum_probs=61.5
Q ss_pred cccccccCCCCCCCCCCceecccCCCcCCCCccccccccCCCCchhHHHHHHHHHhcCCcccCCCc-ccccCcCCccCCc
Q 004523 149 QCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVH-KCFVCQQSEDMNV 227 (747)
Q Consensus 149 ~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~l~P~~e~~a~~L~~ri~~g~~F~CPlH-~C~~Ck~~edk~~ 227 (747)
.|++|+-.|.. ..+.+..| ..|+.+||+.|+..+.. .++ -...|+||-| .|+.|+..++
T Consensus 20 mc~l~~s~G~~---~ag~m~ac--~~c~~~yH~~cvt~~~~-----------~~~-l~~gWrC~~crvCe~c~~~gD--- 79 (694)
T KOG4443|consen 20 MCPLCGSSGKG---RAGRLLAC--SDCGQKYHPYCVTSWAQ-----------HAV-LSGGWRCPSCRVCEACGTTGD--- 79 (694)
T ss_pred hhhhhcccccc---ccCcchhh--hhhcccCCcchhhHHHh-----------HHH-hcCCcccCCceeeeeccccCC---
Confidence 79999977752 23457788 89999999999987632 122 2345999976 5888886655
Q ss_pred cccceeecccccccccccCCCCc
Q 004523 228 EDLQLAICRRCPKAYHRKCLPTE 250 (747)
Q Consensus 228 ~~~qL~~C~RCP~AYH~kCLP~~ 250 (747)
...|+.|.+|..+||-+|+-+.
T Consensus 80 -~~kf~~Ck~cDvsyh~yc~~P~ 101 (694)
T KOG4443|consen 80 -PKKFLLCKRCDVSYHCYCQKPP 101 (694)
T ss_pred -cccccccccccccccccccCCc
Confidence 3579999999999999998664
No 3
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.63 E-value=5.3e-05 Score=92.37 Aligned_cols=138 Identities=25% Similarity=0.497 Sum_probs=87.7
Q ss_pred CCCCCcccccccCCCC-----CeeecCCccccccccccccCccccccccCCcccccCCCCceecccccccC---cccccc
Q 004523 82 KDENYFAVCAICDDGG-----DVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQE---HQCFAC 153 (747)
Q Consensus 82 ~dd~~DdVCaIC~dgG-----eLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~~---h~CfvC 153 (747)
.....|.+|.||.++. .+|.||| |.-++|+.| .|+.- .+++.|+|..|...+ ..|..|
T Consensus 214 ~~~~~D~~C~iC~~~~~~n~n~ivfCD~-Cnl~VHq~C----------ygi~~---ipeg~WlCr~Cl~s~~~~v~c~~c 279 (1051)
T KOG0955|consen 214 ALLEEDAVCCICLDGECQNSNVIVFCDG-CNLAVHQEC----------YGIPF---IPEGQWLCRRCLQSPQRPVRCLLC 279 (1051)
T ss_pred cccCCCccceeecccccCCCceEEEcCC-Ccchhhhhc----------cCCCC---CCCCcEeehhhccCcCcccceEec
Confidence 3455689999998873 3999997 999999996 66432 268999999999754 468888
Q ss_pred ccCCCCCCCCCCceecccCCCcCCCCccccccccCCCCchhHHHHHHH---HHhcC--CcccCCCcccccCcCCccCCcc
Q 004523 154 GMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRE---RIAAG--ESFTCPVHKCFVCQQSEDMNVE 228 (747)
Q Consensus 154 gk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~l~P~~e~~a~~L~~---ri~~g--~~F~CPlH~C~~Ck~~edk~~~ 228 (747)
-..|. .|+ ...=|++-|.-|.-..++- .-.-+.+.. .+..- ..| .-.|..|++.+.
T Consensus 280 p~~~g--------AFk--qt~dgrw~Hv~caiwipev--~F~nt~~~E~I~~i~~i~~aRw---kL~cy~cK~~~~---- 340 (1051)
T KOG0955|consen 280 PSKGG--------AFK--QTDDGRWAHVVCAIWIPEV--SFANTVFLEPIDSIENIPPARW---KLTCYICKQKGL---- 340 (1051)
T ss_pred cCCCC--------cce--eccCCceeeeehhhccccc--ccccchhhccccchhcCcHhhh---hceeeeeccCCC----
Confidence 75442 222 2677889999996543211 000000000 00000 111 237899998662
Q ss_pred ccceeec--ccccccccccCCC-Ccccc
Q 004523 229 DLQLAIC--RRCPKAYHRKCLP-TEITF 253 (747)
Q Consensus 229 ~~qL~~C--~RCP~AYH~kCLP-~~i~f 253 (747)
+..++| .+|-+|||..|-- +|.-+
T Consensus 341 -gaciqcs~~~c~~a~hvtca~~agl~m 367 (1051)
T KOG0955|consen 341 -GACIQCSKANCYTAFHVTCARRAGLYM 367 (1051)
T ss_pred -CcceecchhhhhhhhhhhhHhhcCceE
Confidence 356777 5799999999964 44433
No 4
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.61 E-value=2.1e-05 Score=90.52 Aligned_cols=51 Identities=29% Similarity=0.671 Sum_probs=40.3
Q ss_pred CcccccccCCCCCe---eecCCccccccccccccCccccccccCCcccccCCCCceeccccccc
Q 004523 86 YFAVCAICDDGGDV---TFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ 146 (747)
Q Consensus 86 ~DdVCaIC~dgGeL---LcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~ 146 (747)
.+++|+.|...|.. ||||| |+++||+.|+++. ++...+ |.+.|+|++|..+
T Consensus 252 ~~~fCsaCn~~~~F~~~i~CD~-Cp~sFH~~CLePP--------l~~eni-P~g~W~C~ec~~k 305 (613)
T KOG4299|consen 252 IEDFCSACNGSGLFNDIICCDG-CPRSFHQTCLEPP--------LEPENI-PPGSWFCPECKIK 305 (613)
T ss_pred HHHHHHHhCCccccccceeecC-CchHHHHhhcCCC--------CCcccC-CCCccccCCCeee
Confidence 36699999999976 99998 9999999997752 222223 5689999999943
No 5
>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 KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.49 E-value=4.7e-05 Score=81.02 Aligned_cols=51 Identities=27% Similarity=0.565 Sum_probs=40.3
Q ss_pred cCCCCCcccccccCCCCCeeecCCc-cc-cccccccccCccccccccCCcccccCCCCceecccccc
Q 004523 81 DKDENYFAVCAICDDGGDVTFCDGR-CL-RSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 145 (747)
Q Consensus 81 ~~dd~~DdVCaIC~dgGeLLcCdG~-C~-RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~ 145 (747)
+.+...--+|. |..+|++|-||+. |+ .|||+.| +||+.. |.+.|+|++|..
T Consensus 215 d~~e~~yC~Cn-qvsyg~Mi~CDn~~C~~eWFH~~C----------VGL~~~---PkgkWyC~~C~~ 267 (274)
T KOG1973|consen 215 DPDEPTYCICN-QVSYGKMIGCDNPGCPIEWFHFTC----------VGLKTK---PKGKWYCPRCKA 267 (274)
T ss_pred CCCCCEEEEec-ccccccccccCCCCCCcceEEEec----------cccccC---CCCcccchhhhh
Confidence 33444455677 7789999999964 99 9999996 899865 568899999984
No 7
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.49 E-value=5.7e-05 Score=79.15 Aligned_cols=51 Identities=27% Similarity=0.651 Sum_probs=39.1
Q ss_pred cCCCCCcccccccCCC--CCeeecCCc-ccc-ccccccccCccccccccCCcccccCCCCceecccccc
Q 004523 81 DKDENYFAVCAICDDG--GDVTFCDGR-CLR-SFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 145 (747)
Q Consensus 81 ~~dd~~DdVCaIC~dg--GeLLcCdG~-C~R-sFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~ 145 (747)
|.+....-+| +|.++ |++|-|||. |.| |||+.| +||... |.+.|+|++|..
T Consensus 215 d~se~e~lYC-fCqqvSyGqMVaCDn~nCkrEWFH~~C----------VGLk~p---PKG~WYC~eCk~ 269 (271)
T COG5034 215 DNSEGEELYC-FCQQVSYGQMVACDNANCKREWFHLEC----------VGLKEP---PKGKWYCPECKK 269 (271)
T ss_pred ccccCceeEE-EecccccccceecCCCCCchhheeccc----------cccCCC---CCCcEeCHHhHh
Confidence 3334445677 58875 999999985 765 999996 788765 679999999974
No 8
>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=97.49 E-value=2.7e-05 Score=61.96 Aligned_cols=46 Identities=28% Similarity=0.752 Sum_probs=33.6
Q ss_pred cccccCC---CCCeeecCCccccccccccccCccccccccCCcccccC-CCCceecccccc
Q 004523 89 VCAICDD---GGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQID-AVPNFLCQNCVY 145 (747)
Q Consensus 89 VCaIC~d---gGeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~-~~~~W~C~eC~~ 145 (747)
+|.+|++ .+++|.|++ |.++||..| ++++..... +...|+|++|..
T Consensus 1 ~C~vC~~~~~~~~~i~C~~-C~~~~H~~C----------~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDS-CNRWYHQEC----------VGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBST-TSCEEETTT----------STSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCC-CChhhCccc----------CCCChhhccCCCCcEECcCCcC
Confidence 5888987 567999995 999999997 444433211 234899999974
No 9
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.37 E-value=0.00015 Score=83.68 Aligned_cols=50 Identities=28% Similarity=0.707 Sum_probs=39.0
Q ss_pred ccccCcCCccCCccccceeecccccccccccCCCCccccccccchhhhhhhhccCCCCceEEEecCccc
Q 004523 215 KCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKI 283 (747)
Q Consensus 215 ~C~~Ck~~edk~~~~~qL~~C~RCP~AYH~kCLP~~i~f~~~~~~~~~raW~~lL~~~riLI~C~kH~i 283 (747)
+|..|++.+.- ..++.|..||.+||..||.+++.-+. +|.+ -|+|+.|.+
T Consensus 255 fCsaCn~~~~F----~~~i~CD~Cp~sFH~~CLePPl~~en-------------iP~g--~W~C~ec~~ 304 (613)
T KOG4299|consen 255 FCSACNGSGLF----NDIICCDGCPRSFHQTCLEPPLEPEN-------------IPPG--SWFCPECKI 304 (613)
T ss_pred HHHHhCCcccc----ccceeecCCchHHHHhhcCCCCCccc-------------CCCC--ccccCCCee
Confidence 89999998752 45699999999999999999865332 3432 588999987
No 10
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.18 E-value=0.00012 Score=77.89 Aligned_cols=84 Identities=19% Similarity=0.219 Sum_probs=63.1
Q ss_pred CCcccccccCCCC---------CeeecCCccccccccccccCccccccccCCcccccC--CCCceecccccccCcccccc
Q 004523 85 NYFAVCAICDDGG---------DVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQID--AVPNFLCQNCVYQEHQCFAC 153 (747)
Q Consensus 85 ~~DdVCaIC~dgG---------eLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~--~~~~W~C~eC~~~~h~CfvC 153 (747)
.....|.+|-++- -+|+|. .|-.++|+.|++ ++.+-+. ..-.|.|.+|+ .|.+|
T Consensus 256 ~~~~~~~~~~~~~~~~~~~r~~S~I~C~-~C~~~~HP~Ci~----------M~~elv~~~KTY~W~C~~C~----lC~IC 320 (381)
T KOG1512|consen 256 QRRNERKHFWDIQTNIIQSRRNSWIVCK-PCATRPHPYCVA----------MIPELVGQYKTYFWKCSSCE----LCRIC 320 (381)
T ss_pred cchhhhhhhhcchhhhhhhhhccceeec-ccccCCCCcchh----------cCHHHHhHHhhcchhhcccH----hhhcc
Confidence 3456799998762 399999 699999999743 3322111 12469999999 69999
Q ss_pred ccCCCCCCCCCCceecccCCCcCCCCccccccccCCC
Q 004523 154 GMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHP 190 (747)
Q Consensus 154 gk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~l~P 190 (747)
+.+.. ..+.+.| ..|.|-||..|++....|
T Consensus 321 ~~P~~-----E~E~~FC--D~CDRG~HT~CVGL~~lP 350 (381)
T KOG1512|consen 321 LGPVI-----ESEHLFC--DVCDRGPHTLCVGLQDLP 350 (381)
T ss_pred CCccc-----chheecc--ccccCCCCcccccccccc
Confidence 98765 3578889 899999999999876444
No 11
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=97.11 E-value=0.00042 Score=73.11 Aligned_cols=152 Identities=18% Similarity=0.270 Sum_probs=96.0
Q ss_pred ccccCcccc-hhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHH-cCCCccccCCCCCC---CCCCCccccc
Q 004523 546 YTSFGRHFT-KVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCSFRNYDLIQ---PKNDFSFEKR 620 (747)
Q Consensus 546 y~s~grhft-~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~-~~~~~~~kn~d~~~---~~~~~~f~~~ 620 (747)
-.+||.||. ..+-+..|++.+. +.+|+.|+|+.||...++..+-++..+ +|.+.+-.-.+... ....+.+...
T Consensus 17 ~k~~gq~fl~~~~i~~~i~~~l~--~~~~~~VLEiG~G~G~lt~~L~~~~~~v~avE~d~~~~~~~~~~~~~~~v~~i~~ 94 (272)
T PRK00274 17 KKSLGQNFLIDENILDKIVDAAG--PQPGDNVLEIGPGLGALTEPLLERAAKVTAVEIDRDLAPILAETFAEDNLTIIEG 94 (272)
T ss_pred CcccCcCcCCCHHHHHHHHHhcC--CCCcCeEEEeCCCccHHHHHHHHhCCcEEEEECCHHHHHHHHHhhccCceEEEEC
Confidence 357999995 4556677888774 578999999999999999888765210 01111110000000 0145778888
Q ss_pred cccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhc--CCcEEEEecCccc-cccccccc---cc---------e
Q 004523 621 DWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKF--KPKLIVLIVPQET-RRLDQKAS---YN---------L 685 (747)
Q Consensus 621 ~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f--~p~~~~li~p~~~-~~~~~~~~---y~---------l 685 (747)
|++++...++. ..+|+| ||||+. +..+|.+.|.. ...-++|++..|+ +||=.+.+ |. .
T Consensus 95 D~~~~~~~~~~--~~~vv~-NlPY~i----ss~ii~~~l~~~~~~~~~~l~~QkE~A~Rl~a~pg~~~y~~lSv~~~~~~ 167 (272)
T PRK00274 95 DALKVDLSELQ--PLKVVA-NLPYNI----TTPLLFHLLEERDPIRDMVVMVQKEVAERIVAKPGSKAYGRLSVLVQYYC 167 (272)
T ss_pred hhhcCCHHHcC--cceEEE-eCCccc----hHHHHHHHHhcCCCCCeeEEEeHHHHHHHHcCCCCCccccHHHHHHHHHc
Confidence 88887665543 357888 999995 45555555543 2456889999888 67743322 31 2
Q ss_pred eecccccccCcccccCCcccc
Q 004523 686 IWEDNEVLSGKSFYLPGSLDV 706 (747)
Q Consensus 686 ~~~d~~~~~g~~f~~pg~~d~ 706 (747)
-++--.-++..+||=|--||.
T Consensus 168 ~~~~~~~v~~~~F~P~PkV~s 188 (272)
T PRK00274 168 DVEKVFDVPPSAFVPPPKVDS 188 (272)
T ss_pred ceEEEEEeChhhCCCCCCceE
Confidence 233445667888887777764
No 12
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=97.10 E-value=0.00017 Score=76.31 Aligned_cols=82 Identities=24% Similarity=0.543 Sum_probs=60.9
Q ss_pred CCCcccccccCCC----------CCeeecCCccccccccccccCccccccccCCcccccC--CCCceecccccccCcccc
Q 004523 84 ENYFAVCAICDDG----------GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQID--AVPNFLCQNCVYQEHQCF 151 (747)
Q Consensus 84 d~~DdVCaIC~dg----------GeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~--~~~~W~C~eC~~~~h~Cf 151 (747)
.....+|-+|..+ .+||.|. .|.|+=|+.|+ .+|..-+. ..-.|.|.+|. .|.
T Consensus 221 a~Pn~YCDFclgdsr~nkkt~~peelvscs-dcgrsghpscl----------qft~nm~~avk~yrwqcieck----~cs 285 (336)
T KOG1244|consen 221 AQPNPYCDFCLGDSRENKKTGMPEELVSCS-DCGRSGHPSCL----------QFTANMIAAVKTYRWQCIECK----YCS 285 (336)
T ss_pred ccCCcccceeccccccccccCCchhhcchh-hcCCCCCcchh----------hhhHHHHHHHHhheeeeeecc----eec
Confidence 4456789999543 3699998 59999999974 34321110 13579999999 499
Q ss_pred ccccCCCCCCCCCCceecccCCCcCCCCcccccccc
Q 004523 152 ACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKL 187 (747)
Q Consensus 152 vCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~ 187 (747)
+||-... ..+++.| ..|.|-||-.|+.+.
T Consensus 286 icgtsen-----ddqllfc--ddcdrgyhmyclspp 314 (336)
T KOG1244|consen 286 ICGTSEN-----DDQLLFC--DDCDRGYHMYCLSPP 314 (336)
T ss_pred cccCcCC-----CceeEee--cccCCceeeEecCCC
Confidence 9996443 4578889 899999999999764
No 13
>PHA03412 putative methyltransferase; Provisional
Probab=97.06 E-value=0.0013 Score=69.32 Aligned_cols=170 Identities=19% Similarity=0.319 Sum_probs=92.5
Q ss_pred ccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHc------CCCccccCCCCCCCCC--CCcccc
Q 004523 548 SFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQM------GKSCSFRNYDLIQPKN--DFSFEK 619 (747)
Q Consensus 548 s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~------~~~~~~kn~d~~~~~~--~~~f~~ 619 (747)
+.|.+||+..-.+.++ -|.. .+..|||+|||+..|+-.+-++..+. +.+.+-....+.. +| ...|..
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 5799999998555554 1222 47899999999999999887653211 1111111111111 01 133444
Q ss_pred ccccccCCCCCCCCCceeeecCCCcchhh-----------hhHHHHHHhhhhcCCcEEEEecCccccccc--ccccccee
Q 004523 620 RDWMTVRPEELPDGSQLIMGLNPPFGVKA-----------SLANKFISQALKFKPKLIVLIVPQETRRLD--QKASYNLI 686 (747)
Q Consensus 620 ~~w~~~~~~~l~~g~~li~glnppfg~~~-----------~~a~kfi~~~~~f~p~~~~li~p~~~~~~~--~~~~y~l~ 686 (747)
.|.+... +..-=-+|++ ||||+.-+ .+.++||.+|+..-+.=. +|+|.-.--.+ .++.|.
T Consensus 104 ~D~~~~~---~~~~FDlIIs-NPPY~~~~~~d~~ar~~g~~~~~~li~~A~~Ll~~G~-~ILP~~~~~~~y~~~~~~~-- 176 (241)
T PHA03412 104 ADALTTE---FDTLFDMAIS-NPPFGKIKTSDFKGKYTGAEFEYKVIERASQIARQGT-FIIPQMSANFRYSGTHYFR-- 176 (241)
T ss_pred cchhccc---ccCCccEEEE-CCCCCCccccccCCcccccHHHHHHHHHHHHHcCCCE-EEeCcccccCcccCcccee--
Confidence 4443322 1112248888 99999322 457889999998766655 49998664432 112231
Q ss_pred ecccccccCccc----------ccCCc-cccCcccccccccCCCceeeeccchhhHHH
Q 004523 687 WEDNEVLSGKSF----------YLPGS-LDVHDNQLEQWNCKPPPLYLWSRADWTASH 733 (747)
Q Consensus 687 ~~d~~~~~g~~f----------~~pg~-~d~~~~~~~~~n~~~p~~~lws~~d~~~~~ 733 (747)
...-..|+.+ ..||- ||. .--+++|.-+-|.. =-...|+++..
T Consensus 177 --~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~~~~~~ 230 (241)
T PHA03412 177 --QDESTTSSKCKKFLDETGLEMNPGCGIDT-GYYLEDWKGVKPLC-EVVCMEFNEPE 230 (241)
T ss_pred --eccCcccHHHHHHHHhcCeeecCCCCccc-eeehhhccCCCccc-eEEEEeecCcC
Confidence 1111233322 23553 342 23468998776643 33455665554
No 14
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=97.01 E-value=0.00034 Score=81.83 Aligned_cols=157 Identities=20% Similarity=0.463 Sum_probs=93.1
Q ss_pred CcccccccCCC-----CCeeecCCccccccccccccCccccccccCCcccccCCCCceecccccccC-ccccccccCCCC
Q 004523 86 YFAVCAICDDG-----GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQE-HQCFACGMLGSS 159 (747)
Q Consensus 86 ~DdVCaIC~dg-----GeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~~-h~CfvCgk~Gss 159 (747)
.+-+|-+|..+ .++|+|| .|.-..|..| .|+... |.+.|+|.-|.-+. ..|..|-+.|-.
T Consensus 270 edviCDvCrspD~e~~neMVfCd-~Cn~cVHqaC----------yGIle~---p~gpWlCr~Calg~~ppCvLCPkkGGa 335 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCD-KCNICVHQAC----------YGILEV---PEGPWLCRTCALGIEPPCVLCPKKGGA 335 (893)
T ss_pred ccceeceecCCCccccceeEEec-cchhHHHHhh----------hceeec---CCCCeeehhccccCCCCeeeccccCCc
Confidence 36789999766 4699999 6999999996 787654 56999999999874 589999887743
Q ss_pred CCCCCCceecccCCCcCCCCccccccccCCCCchhHHHHHHHHHhcC-----CcccCCCcccccCcCCccCCccccceee
Q 004523 160 DKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAG-----ESFTCPVHKCFVCQQSEDMNVEDLQLAI 234 (747)
Q Consensus 160 d~ss~aeV~kCsv~~CGKfYH~~CL~~~l~P~~e~~a~~L~~ri~~g-----~~F~CPlH~C~~Ck~~edk~~~~~qL~~ 234 (747)
-++ +..=.+|.|..|.-.. |+...+-.++..-|.+- ..|. -.|..|+... +.-++
T Consensus 336 mK~---------~~sgT~wAHvsCALwI--PEVsie~~ekmePItkfs~IpesRws---lvC~LCk~k~------GACIq 395 (893)
T KOG0954|consen 336 MKP---------TKSGTKWAHVSCALWI--PEVSIECPEKMEPITKFSHIPESRWS---LVCNLCKVKS------GACIQ 395 (893)
T ss_pred ccc---------cCCCCeeeEeeeeecc--ceeeccCHhhcCcccccCCCcHHHHH---HHHHHhcccC------cceEE
Confidence 211 1122378899996433 33222111111111000 1111 2688887642 23444
Q ss_pred c--ccccccccccCCC-CccccccccchhhhhhhhccCCCCceEEEecCccccc
Q 004523 235 C--RRCPKAYHRKCLP-TEITFSDADENNFQRAWVDLLPNNRILIYCLEHKIIS 285 (747)
Q Consensus 235 C--~RCP~AYH~kCLP-~~i~f~~~~~~~~~raW~~lL~~~riLI~C~kH~i~~ 285 (747)
| ..|-.+||..|.- +|..+.....+. ..-...-||.+|....
T Consensus 396 Cs~k~C~t~fHv~CA~~aG~~~~~~~~~~---------D~v~~~s~c~khs~~~ 440 (893)
T KOG0954|consen 396 CSNKTCRTAFHVTCAFEAGLEMKTILKEN---------DEVKFKSYCSKHSDHR 440 (893)
T ss_pred ecccchhhhccchhhhhcCCeeeeeeccC---------Cchhheeecccccccc
Confidence 4 3566999999863 344333222211 1113345788887654
No 15
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=96.98 E-value=0.00029 Score=81.70 Aligned_cols=84 Identities=24% Similarity=0.576 Sum_probs=62.7
Q ss_pred CCCCCcccccccCCCC-----CeeecCCccccccccccccCccccccccCCcccccCCCCceecccccccCccccccccC
Q 004523 82 KDENYFAVCAICDDGG-----DVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGML 156 (747)
Q Consensus 82 ~dd~~DdVCaIC~dgG-----eLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~~h~CfvCgk~ 156 (747)
+-......|.+|+..| -++-|. .|...||..|..- =++.+.+ .+-|.|+.|+ .|-.|+..
T Consensus 13 ~~~~~~~mc~l~~s~G~~~ag~m~ac~-~c~~~yH~~cvt~--------~~~~~~l--~~gWrC~~cr----vCe~c~~~ 77 (694)
T KOG4443|consen 13 KAIIVCLMCPLCGSSGKGRAGRLLACS-DCGQKYHPYCVTS--------WAQHAVL--SGGWRCPSCR----VCEACGTT 77 (694)
T ss_pred hhhhhhhhhhhhccccccccCcchhhh-hhcccCCcchhhH--------HHhHHHh--cCCcccCCce----eeeecccc
Confidence 3445567888898764 499998 6999999997442 2222222 3559999999 69999977
Q ss_pred CCCCCCCCCceecccCCCcCCCCcccccccc
Q 004523 157 GSSDKSSSQEVFPCVSATCGQFYHPECVSKL 187 (747)
Q Consensus 157 Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~ 187 (747)
|. ....+.| ..|.-.||-.|+.+.
T Consensus 78 gD-----~~kf~~C--k~cDvsyh~yc~~P~ 101 (694)
T KOG4443|consen 78 GD-----PKKFLLC--KRCDVSYHCYCQKPP 101 (694)
T ss_pred CC-----ccccccc--ccccccccccccCCc
Confidence 75 3567889 899999999998764
No 16
>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=96.91 E-value=0.00065 Score=72.10 Aligned_cols=123 Identities=22% Similarity=0.361 Sum_probs=65.8
Q ss_pred ccccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHH-----cCCCccccCCCC------------
Q 004523 546 YTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQ-----MGKSCSFRNYDL------------ 608 (747)
Q Consensus 546 y~s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~-----~~~~~~~kn~d~------------ 608 (747)
..+.|.+||+.+-.+-+++.+ -..+|++|+|+|||+..|.--.-+.+.+ ......+ .|+
T Consensus 22 ~k~~G~~~TP~~i~~l~~~~~--~~~~~~~VlDPacGsG~fL~~~~~~i~~~~~~~~~~~i~G--~ei~~~~~~la~~nl 97 (311)
T PF02384_consen 22 RKKLGQFYTPREIVDLMVKLL--NPKKGDSVLDPACGSGGFLVAAMEYIKEKRNKIKEINIYG--IEIDPEAVALAKLNL 97 (311)
T ss_dssp TTSCGGC---HHHHHHHHHHH--TT-TTEEEEETT-TTSHHHHHHHHHHHTCHHHHCCEEEEE--EES-HHHHHHHHHHH
T ss_pred ccccceeehHHHHHHHHHhhh--hccccceeechhhhHHHHHHHHHHhhcccccccccceeEe--ecCcHHHHHHHHhhh
Confidence 357899999998877788877 5567899999999999997666554421 1111110 111
Q ss_pred ----CCCCCCCccccccccccCCCCCCCCCceeeecCCCcchh--h------------------hhHHHHHHhhhhcCCc
Q 004523 609 ----IQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVK--A------------------SLANKFISQALKFKPK 664 (747)
Q Consensus 609 ----~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~--~------------------~~a~kfi~~~~~f~p~ 664 (747)
+. .+.+++...|++.-....-...=.+|+| |||||.. . ..-.-||.+++.+--+
T Consensus 98 ~l~~~~-~~~~~i~~~d~l~~~~~~~~~~~D~ii~-NPPf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fi~~~l~~Lk~ 175 (311)
T PF02384_consen 98 LLHGID-NSNINIIQGDSLENDKFIKNQKFDVIIG-NPPFGSKEWKDEELEKDERFKKYFPPKSNAEYAFIEHALSLLKP 175 (311)
T ss_dssp HHTTHH-CBGCEEEES-TTTSHSCTST--EEEEEE-E--CTCES-STGGGCTTCCCTTCSSSTTEHHHHHHHHHHHTEEE
T ss_pred hhhccc-cccccccccccccccccccccccccccC-CCCccccccccccccccccccccCCCccchhhhhHHHHHhhccc
Confidence 11 1112233444443322211223347888 9999988 1 1112499999976432
Q ss_pred --EEEEecCccc
Q 004523 665 --LIVLIVPQET 674 (747)
Q Consensus 665 --~~~li~p~~~ 674 (747)
.+++|+|+..
T Consensus 176 ~G~~~~Ilp~~~ 187 (311)
T PF02384_consen 176 GGRAAIILPNGF 187 (311)
T ss_dssp EEEEEEEEEHHH
T ss_pred ccceeEEecchh
Confidence 5778888764
No 17
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=96.86 E-value=0.00055 Score=79.59 Aligned_cols=84 Identities=27% Similarity=0.809 Sum_probs=64.3
Q ss_pred ccccCCC-C----CeeecCCc-cccccccccccCccccccccCCcccccCCCCceeccccccc-----------------
Q 004523 90 CAICDDG-G----DVTFCDGR-CLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ----------------- 146 (747)
Q Consensus 90 CaIC~dg-G----eLLcCdG~-C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~----------------- 146 (747)
|-+|.|. | -||.|||. |--+.|..| .||-. + |.+.|+|..|+..
T Consensus 8 CCVCSDErGWaeNPLVYCDG~nCsVAVHQaC----------YGIvq--V-PtGpWfCrKCesqeraarvrCeLCP~kdGA 74 (900)
T KOG0956|consen 8 CCVCSDERGWAENPLVYCDGHNCSVAVHQAC----------YGIVQ--V-PTGPWFCRKCESQERAARVRCELCPHKDGA 74 (900)
T ss_pred eeeecCcCCCccCceeeecCCCceeeeehhc----------ceeEe--c-CCCchhhhhhhhhhhhccceeecccCcccc
Confidence 8899763 3 39999985 999999996 77743 3 6899999999843
Q ss_pred ------------------------------------------CccccccccCCCCCCCCCCceecccCCCcCCCCccccc
Q 004523 147 ------------------------------------------EHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECV 184 (747)
Q Consensus 147 ------------------------------------------~h~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL 184 (747)
.-.|+||.+.|-.+....+--+.|....|.+.||..|.
T Consensus 75 LKkTDn~GWAHVVCALYIPEVrFgNV~TMEPIiLq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCA 154 (900)
T KOG0956|consen 75 LKKTDNGGWAHVVCALYIPEVRFGNVHTMEPIILQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCA 154 (900)
T ss_pred eecccCCCceEEEEEeeccceeecccccccceeeccCchhhhcceeeeecccCCccccccccceecccccchhhhhhhHh
Confidence 12489998887654433445578999999999999997
Q ss_pred cc
Q 004523 185 SK 186 (747)
Q Consensus 185 ~~ 186 (747)
..
T Consensus 155 Q~ 156 (900)
T KOG0956|consen 155 QR 156 (900)
T ss_pred hh
Confidence 54
No 18
>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=96.80 E-value=0.0043 Score=71.20 Aligned_cols=50 Identities=26% Similarity=0.473 Sum_probs=41.0
Q ss_pred ccCcccchhhhHHHHHhhhccccc-----cCCeEEeecCCcchhhHHHHHHHHHc
Q 004523 548 SFGRHFTKVEKLKEIVDRLHWYVR-----SGDTIVDFCCGANDFSCMMKVKLEQM 597 (747)
Q Consensus 548 s~grhft~~ekl~~i~~~l~~~~~-----~gd~~vd~~cg~~~f~~l~~~~~~~~ 597 (747)
+.|.+||+..-.+.|++.+.-+.. .+.+|+|.|||+..|...+-+++.+.
T Consensus 2 ~~GqfyTP~~ia~~mv~~~~~~~~~~~~~~~~~ilDP~cGsG~fl~~~~~~~~~~ 56 (524)
T TIGR02987 2 AYGTFFTPPDIAKAMVANLVNEIGKNDKSTKTKIIDPCCGDGRLIAALLKKNEEI 56 (524)
T ss_pred CCcccCCcHHHHHHHHHHHhhhcchhhcccceEEEeCCCCccHHHHHHHHHHHhc
Confidence 689999999999999988754433 34589999999999999888877654
No 19
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=96.59 E-value=0.00091 Score=79.14 Aligned_cols=51 Identities=37% Similarity=0.847 Sum_probs=39.3
Q ss_pred CCCCcccccccCCCCCeeecCCccccccccccccCccccccccCCcccccCCCCceecccccc
Q 004523 83 DENYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 145 (747)
Q Consensus 83 dd~~DdVCaIC~dgGeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~ 145 (747)
++.....|.||.++|++|+|+ .|+.+||..| ++....+. +.+.|+|+.|..
T Consensus 43 ~~~~~e~c~ic~~~g~~l~c~-tC~~s~h~~c----------l~~pl~~~-p~~~~~c~Rc~~ 93 (696)
T KOG0383|consen 43 DDAEQEACRICADGGELLWCD-TCPASFHASC----------LGPPLTPQ-PNGEFICPRCFC 93 (696)
T ss_pred chhhhhhhhhhcCCCcEEEec-cccHHHHHHc----------cCCCCCcC-Cccceeeeeecc
Confidence 455578999999999999999 6999999997 33333333 445599998853
No 20
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=96.45 E-value=0.002 Score=68.39 Aligned_cols=73 Identities=27% Similarity=0.653 Sum_probs=52.3
Q ss_pred CCceecccCCCcCCCCccccccccCCCCchhHHHHHHHHHhcCCcccCCC-cccccCcCCccCCccccceeecccccccc
Q 004523 164 SQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPV-HKCFVCQQSEDMNVEDLQLAICRRCPKAY 242 (747)
Q Consensus 164 ~aeV~kCsv~~CGKfYH~~CL~~~l~P~~e~~a~~L~~ri~~g~~F~CPl-H~C~~Ck~~edk~~~~~qL~~C~RCP~AY 242 (747)
+.+++-| ..|||.=|+.|+.-.. . +.. ....-.|.|=- .+|..|+.+++. .||+.|.-|...|
T Consensus 243 peelvsc--sdcgrsghpsclqft~--------n-m~~-avk~yrwqcieck~csicgtsend----dqllfcddcdrgy 306 (336)
T KOG1244|consen 243 PEELVSC--SDCGRSGHPSCLQFTA--------N-MIA-AVKTYRWQCIECKYCSICGTSEND----DQLLFCDDCDRGY 306 (336)
T ss_pred chhhcch--hhcCCCCCcchhhhhH--------H-HHH-HHHhheeeeeecceeccccCcCCC----ceeEeecccCCce
Confidence 3478889 7999999999986431 1 100 11123455532 478888888764 5999999999999
Q ss_pred cccCCCCccc
Q 004523 243 HRKCLPTEIT 252 (747)
Q Consensus 243 H~kCLP~~i~ 252 (747)
|.+||-++.+
T Consensus 307 hmyclsppm~ 316 (336)
T KOG1244|consen 307 HMYCLSPPMV 316 (336)
T ss_pred eeEecCCCcC
Confidence 9999988764
No 21
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=96.39 E-value=0.0057 Score=61.23 Aligned_cols=25 Identities=32% Similarity=0.543 Sum_probs=21.7
Q ss_pred cccceeecccccccccccCCCCccc
Q 004523 228 EDLQLAICRRCPKAYHRKCLPTEIT 252 (747)
Q Consensus 228 ~~~qL~~C~RCP~AYH~kCLP~~i~ 252 (747)
.+.-|++|.+|-.|||...||+...
T Consensus 120 ~~nVLFRC~~C~RawH~~HLP~~~~ 144 (175)
T PF15446_consen 120 PDNVLFRCTSCHRAWHFEHLPPPSG 144 (175)
T ss_pred hhheEEecCCccceeehhhCCCCcC
Confidence 4667999999999999999999654
No 22
>TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=96.27 E-value=0.0094 Score=62.10 Aligned_cols=146 Identities=22% Similarity=0.375 Sum_probs=94.1
Q ss_pred cccCccc-chhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCC-----------CCCCCC
Q 004523 547 TSFGRHF-TKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDL-----------IQPKND 614 (747)
Q Consensus 547 ~s~grhf-t~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~-----------~~~~~~ 614 (747)
.+||-|| +...-+.+|++.+. +.+|++|+|+.||...++..|-++... . --+|+ ++....
T Consensus 5 k~~gq~fl~d~~i~~~i~~~~~--~~~~~~VLEiG~G~G~lt~~L~~~~~~----v--~~iE~d~~~~~~l~~~~~~~~~ 76 (253)
T TIGR00755 5 KSLGQNFLIDESVIQKIVEAAN--VLEGDVVLEIGPGLGALTEPLLKRAKK----V--TAIEIDPRLAEILRKLLSLYER 76 (253)
T ss_pred CCCCCccCCCHHHHHHHHHhcC--CCCcCEEEEeCCCCCHHHHHHHHhCCc----E--EEEECCHHHHHHHHHHhCcCCc
Confidence 4689998 66778888988875 368999999999999999999774321 1 00111 111234
Q ss_pred CccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhh-hcCCcEEEEecCccc-cccccccc---ccee---
Q 004523 615 FSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQAL-KFKPKLIVLIVPQET-RRLDQKAS---YNLI--- 686 (747)
Q Consensus 615 ~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~-~f~p~~~~li~p~~~-~~~~~~~~---y~l~--- 686 (747)
+.+...|.+.+...++.. .-+|+| |+||.. +...+.+.+ ...+...+|++..|+ +||=.+.+ |..+
T Consensus 77 v~v~~~D~~~~~~~~~d~-~~~vvs-NlPy~i----~~~il~~ll~~~~~~~~~~~~q~e~a~Rl~a~pg~~~y~~lsv~ 150 (253)
T TIGR00755 77 LEVIEGDALKVDLPDFPK-QLKVVS-NLPYNI----SSPLIFKLLEKPKFRLAVLMVQKEVAERLTAKPGSKDYGRLSVL 150 (253)
T ss_pred EEEEECchhcCChhHcCC-cceEEE-cCChhh----HHHHHHHHhccCCCceEEEEehHHHHHHHccCCCCCcccHHHHH
Confidence 556666666655443321 248888 999994 555566666 667788899999883 45532221 3221
Q ss_pred ------ecccccccCcccccCCcccc
Q 004523 687 ------WEDNEVLSGKSFYLPGSLDV 706 (747)
Q Consensus 687 ------~~d~~~~~g~~f~~pg~~d~ 706 (747)
.+--..++..+||-|-.||.
T Consensus 151 ~~~~~~~~~~~~v~~~~F~P~PkVds 176 (253)
T TIGR00755 151 VQYFANVEIVFKVPPSAFYPPPKVDS 176 (253)
T ss_pred HHHHcceEEEEEEchhhCcCCCCeeE
Confidence 12234567889999988874
No 23
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=96.27 E-value=0.0024 Score=66.89 Aligned_cols=149 Identities=17% Similarity=0.239 Sum_probs=86.6
Q ss_pred cccCccc-chhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHH-cCCCccccCCCC----CCCCCCCccccc
Q 004523 547 TSFGRHF-TKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCSFRNYDL----IQPKNDFSFEKR 620 (747)
Q Consensus 547 ~s~grhf-t~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~-~~~~~~~kn~d~----~~~~~~~~f~~~ 620 (747)
.+||.|| +...-+..|++.+. +.+|+.|+|+.||...++..|-++..+ ++.+.+-.-++. +....++.|...
T Consensus 5 k~~GQnfl~d~~~~~~iv~~~~--~~~~~~VLEIG~G~G~lt~~L~~~~~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~ 82 (258)
T PRK14896 5 KKLGQHFLIDDRVVDRIVEYAE--DTDGDPVLEIGPGKGALTDELAKRAKKVYAIELDPRLAEFLRDDEIAAGNVEIIEG 82 (258)
T ss_pred CcCCccccCCHHHHHHHHHhcC--CCCcCeEEEEeCccCHHHHHHHHhCCEEEEEECCHHHHHHHHHHhccCCCEEEEEe
Confidence 3799999 67778899999875 678999999999999999988775110 111111000000 000123555556
Q ss_pred cccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEecCcc-cccccccc-----c-cceee------
Q 004523 621 DWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIVPQE-TRRLDQKA-----S-YNLIW------ 687 (747)
Q Consensus 621 ~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~p~~-~~~~~~~~-----~-y~l~~------ 687 (747)
|.+.+....+ .+|+| ||||+.- ...+.+.+.+...-.+|.+..| .+|+=.+. + ..+++
T Consensus 83 D~~~~~~~~~----d~Vv~-NlPy~i~----s~~~~~l~~~~~~~~~l~~q~e~A~rl~a~~g~~~yg~lsv~~~~~~~~ 153 (258)
T PRK14896 83 DALKVDLPEF----NKVVS-NLPYQIS----SPITFKLLKHGFEPAVLMYQKEFAERMVAKPGTKEYGRLSVMVQYYADV 153 (258)
T ss_pred ccccCCchhc----eEEEE-cCCcccC----cHHHHHHHhhccceeEEEeeHHHHHHhcCCCCCccccHHHHHHHHHeee
Confidence 6665543222 47888 9999864 4445555555444345555544 34553222 2 22221
Q ss_pred cccccccCcccccCCcccc
Q 004523 688 EDNEVLSGKSFYLPGSLDV 706 (747)
Q Consensus 688 ~d~~~~~g~~f~~pg~~d~ 706 (747)
+--..+....|+-|-.||.
T Consensus 154 ~~~~~v~~~~F~P~PkV~s 172 (258)
T PRK14896 154 EIVEKVPPGAFSPKPKVDS 172 (258)
T ss_pred EEEEEeChHhCCCCCCceE
Confidence 2223456778887777773
No 24
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=96.01 E-value=0.0039 Score=76.02 Aligned_cols=58 Identities=22% Similarity=0.426 Sum_probs=42.2
Q ss_pred CCCCCcccccccCCCCCeeecCCccccccccccccCccccccccCCcccccCCCCceecccccccCccccccccCCC
Q 004523 82 KDENYFAVCAICDDGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGS 158 (747)
Q Consensus 82 ~dd~~DdVCaIC~dgGeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~~h~CfvCgk~Gs 158 (747)
+....+++|.+|.+.|+++||+ .|+|.+|++|..... ...+...|.|.- |-+|+..|.
T Consensus 339 ~~~~~ddhcrf~~d~~~~lc~E-t~prvvhlEcv~hP~-----------~~~~s~~~e~ev-------c~~hkvngv 396 (1414)
T KOG1473|consen 339 GEIEYDDHCRFCHDLGDLLCCE-TCPRVVHLECVFHPR-----------FAVPSAFWECEV-------CNIHKVNGV 396 (1414)
T ss_pred cceeecccccccCcccceeecc-cCCceEEeeecCCcc-----------ccCCCccchhhh-------hhhhccCcc
Confidence 4566789999999999999999 599999999754311 111456788874 446666553
No 25
>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=95.94 E-value=0.0064 Score=60.69 Aligned_cols=106 Identities=22% Similarity=0.409 Sum_probs=54.2
Q ss_pred HHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcC------------CCccc-------cCCCCCCCCCCCccccccc
Q 004523 562 IVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMG------------KSCSF-------RNYDLIQPKNDFSFEKRDW 622 (747)
Q Consensus 562 i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~------------~~~~~-------kn~d~~~~~~~~~f~~~~w 622 (747)
++..--| ++|+.|+|.+||+.+|....--.....- .+.+- .|..-..-.+...|...|.
T Consensus 20 ll~la~~--~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D~ 97 (179)
T PF01170_consen 20 LLNLAGW--RPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWDA 97 (179)
T ss_dssp HHHHTT----TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--G
T ss_pred HHHHhCC--CCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecch
Confidence 3433344 6899999999999999855433221111 11111 1111112233445666666
Q ss_pred cccCCCCCCCCCceeeecCCCcchhhhh-------HHHHHHhhhh-cCCcEEEEecCc
Q 004523 623 MTVRPEELPDGSQLIMGLNPPFGVKASL-------ANKFISQALK-FKPKLIVLIVPQ 672 (747)
Q Consensus 623 ~~~~~~~l~~g~~li~glnppfg~~~~~-------a~kfi~~~~~-f~p~~~~li~p~ 672 (747)
.... ++.|+-=++--|||||.+... -.+|.+.+-. ++|..++|++..
T Consensus 98 ~~l~---~~~~~~d~IvtnPPyG~r~~~~~~~~~ly~~~~~~~~~~l~~~~v~l~~~~ 152 (179)
T PF01170_consen 98 RELP---LPDGSVDAIVTNPPYGRRLGSKKDLEKLYRQFLRELKRVLKPRAVFLTTSN 152 (179)
T ss_dssp GGGG---GTTSBSCEEEEE--STTSHCHHHHHHHHHHHHHHHHHCHSTTCEEEEEESC
T ss_pred hhcc---cccCCCCEEEECcchhhhccCHHHHHHHHHHHHHHHHHHCCCCEEEEEECC
Confidence 6555 445665456669999998643 3456666666 888666666553
No 26
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=95.81 E-value=0.02 Score=61.85 Aligned_cols=150 Identities=18% Similarity=0.279 Sum_probs=95.4
Q ss_pred ccccc-cccCccc-chhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCC----------
Q 004523 542 HGMRY-TSFGRHF-TKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLI---------- 609 (747)
Q Consensus 542 ~g~ry-~s~grhf-t~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~---------- 609 (747)
||+|. .++|.|| +.+.-+..|++.+. +.+||+|+|+-||...+...+-++ +. ..--+|+-
T Consensus 6 ~~~~~kk~~GQnFL~d~~i~~~Iv~~~~--~~~~~~VLEIG~G~G~LT~~Ll~~----~~--~V~avEiD~~li~~l~~~ 77 (294)
T PTZ00338 6 SGMVFNKKFGQHILKNPLVLDKIVEKAA--IKPTDTVLEIGPGTGNLTEKLLQL----AK--KVIAIEIDPRMVAELKKR 77 (294)
T ss_pred CCcCcCCCCCccccCCHHHHHHHHHhcC--CCCcCEEEEecCchHHHHHHHHHh----CC--cEEEEECCHHHHHHHHHH
Confidence 45553 3999999 67888999999874 679999999999999998776553 11 01111110
Q ss_pred ----CCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEecCccc-cccccccc--
Q 004523 610 ----QPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIVPQET-RRLDQKAS-- 682 (747)
Q Consensus 610 ----~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~p~~~-~~~~~~~~-- 682 (747)
.....+.+...|++.+...++ ..|++ ||||.+-..+--+.+.... ...-.+|++-.|+ +||=.+.+
T Consensus 78 ~~~~~~~~~v~ii~~Dal~~~~~~~----d~Vva-NlPY~Istpil~~ll~~~~--~~~~~vlm~QkEvA~Rl~A~pg~k 150 (294)
T PTZ00338 78 FQNSPLASKLEVIEGDALKTEFPYF----DVCVA-NVPYQISSPLVFKLLAHRP--LFRCAVLMFQKEFALRLLAQPGDE 150 (294)
T ss_pred HHhcCCCCcEEEEECCHhhhccccc----CEEEe-cCCcccCcHHHHHHHhcCC--CCceeeeeehHHHHHHHhcCCCCc
Confidence 002346666667776543332 36676 9999966655554443322 3456788888887 78733322
Q ss_pred -cc---eee------cccccccCcccccCCcccc
Q 004523 683 -YN---LIW------EDNEVLSGKSFYLPGSLDV 706 (747)
Q Consensus 683 -y~---l~~------~d~~~~~g~~f~~pg~~d~ 706 (747)
|. ++| +--..++..+||=|=-||-
T Consensus 151 ~y~~LSv~~q~~~~~~~~~~V~~~~F~P~PkVdS 184 (294)
T PTZ00338 151 LYCRLSVNTQLLCRVTHLMKVSKNSFNPPPKVES 184 (294)
T ss_pred ccCHHHHHHHHHhceEEEEEeCchhCCCCCCcEE
Confidence 42 222 3345678889998877773
No 27
>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=95.02 E-value=0.014 Score=69.21 Aligned_cols=47 Identities=23% Similarity=0.590 Sum_probs=35.1
Q ss_pred cccccccCCCCC---eeecCCccccc-cccccccCccccccccCCcccccCCCCceecccccc
Q 004523 87 FAVCAICDDGGD---VTFCDGRCLRS-FHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 145 (747)
Q Consensus 87 DdVCaIC~dgGe---LLcCdG~C~Rs-FH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~ 145 (747)
..-|.||+...- ||.|++ |... ||..|++. +.-++ +.+.|+|.+|..
T Consensus 215 ~~~C~IC~~~DpEdVLLLCDs-CN~~~YH~YCLDP----------dl~ei-P~~eWYC~NC~d 265 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCDS-CNKVYYHVYCLDP----------DLSES-PVNEWYCTNCSL 265 (1134)
T ss_pred cccceeeccCChHHhheeecc-cccceeeccccCc----------ccccc-cccceecCcchh
Confidence 456999987642 999996 9999 99997542 22222 468999999983
No 29
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=94.36 E-value=0.034 Score=44.18 Aligned_cols=34 Identities=35% Similarity=0.774 Sum_probs=27.8
Q ss_pred ccccCcCCccCCccccceeecccccccccccCCCCccc
Q 004523 215 KCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEIT 252 (747)
Q Consensus 215 ~C~~Ck~~edk~~~~~qL~~C~RCP~AYH~kCLP~~i~ 252 (747)
+|.+|++.++ +..++.|..|..+||..|+.....
T Consensus 1 ~C~vC~~~~~----~~~~i~C~~C~~~~H~~C~~~~~~ 34 (51)
T PF00628_consen 1 YCPVCGQSDD----DGDMIQCDSCNRWYHQECVGPPEK 34 (51)
T ss_dssp EBTTTTSSCT----TSSEEEBSTTSCEEETTTSTSSHS
T ss_pred eCcCCCCcCC----CCCeEEcCCCChhhCcccCCCChh
Confidence 4788988443 457999999999999999988653
No 30
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=93.86 E-value=0.041 Score=59.11 Aligned_cols=70 Identities=21% Similarity=0.484 Sum_probs=48.1
Q ss_pred CceecccCCCcCCCCccccccccCCCCchhHHHHHHHHHhcCCcccCCC-cccccCcCCccCCccccceeeccccccccc
Q 004523 165 QEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPV-HKCFVCQQSEDMNVEDLQLAICRRCPKAYH 243 (747)
Q Consensus 165 aeV~kCsv~~CGKfYH~~CL~~~l~P~~e~~a~~L~~ri~~g~~F~CPl-H~C~~Ck~~edk~~~~~qL~~C~RCP~AYH 243 (747)
..++.| ..|...||+.|+.-.. +|... ...-.|.|-- ..|..|.+..- +..++.|++|...||
T Consensus 277 ~S~I~C--~~C~~~~HP~Ci~M~~---------elv~~-~KTY~W~C~~C~lC~IC~~P~~----E~E~~FCD~CDRG~H 340 (381)
T KOG1512|consen 277 NSWIVC--KPCATRPHPYCVAMIP---------ELVGQ-YKTYFWKCSSCELCRICLGPVI----ESEHLFCDVCDRGPH 340 (381)
T ss_pred ccceee--cccccCCCCcchhcCH---------HHHhH-HhhcchhhcccHhhhccCCccc----chheeccccccCCCC
Confidence 357778 8999999999997532 12111 1234566642 36777777543 346889999999999
Q ss_pred ccCCCCc
Q 004523 244 RKCLPTE 250 (747)
Q Consensus 244 ~kCLP~~ 250 (747)
+.|+--+
T Consensus 341 T~CVGL~ 347 (381)
T KOG1512|consen 341 TLCVGLQ 347 (381)
T ss_pred ccccccc
Confidence 9998553
No 31
>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=93.71 E-value=0.033 Score=58.58 Aligned_cols=159 Identities=23% Similarity=0.354 Sum_probs=91.8
Q ss_pred ccccCcccc-hhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcC---CC-----------ccccCCCCCC
Q 004523 546 YTSFGRHFT-KVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMG---KS-----------CSFRNYDLIQ 610 (747)
Q Consensus 546 y~s~grhft-~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~---~~-----------~~~kn~d~~~ 610 (747)
..++|-||- .+.-+..|++.+... +|++|||+-.|...+++.|-++...+- ++ -...|+.+|.
T Consensus 5 kk~~gQnFL~~~~~~~~Iv~~~~~~--~~~~VlEiGpG~G~lT~~L~~~~~~v~~vE~d~~~~~~L~~~~~~~~~~~vi~ 82 (262)
T PF00398_consen 5 KKSLGQNFLVDPNIADKIVDALDLS--EGDTVLEIGPGPGALTRELLKRGKRVIAVEIDPDLAKHLKERFASNPNVEVIN 82 (262)
T ss_dssp -CGCTSSEEEHHHHHHHHHHHHTCG--TTSEEEEESSTTSCCHHHHHHHSSEEEEEESSHHHHHHHHHHCTTCSSEEEEE
T ss_pred CCCCCcCeeCCHHHHHHHHHhcCCC--CCCEEEEeCCCCccchhhHhcccCcceeecCcHhHHHHHHHHhhhcccceeee
Confidence 357999997 556788899988655 999999999999999999876541110 00 0234455544
Q ss_pred CCCCCccccccccccCCCC-CCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEecCcc-ccccccc-----cc-
Q 004523 611 PKNDFSFEKRDWMTVRPEE-LPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIVPQE-TRRLDQK-----AS- 682 (747)
Q Consensus 611 ~~~~~~f~~~~w~~~~~~~-l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~p~~-~~~~~~~-----~~- 682 (747)
.|.++++..+ +....-+|+| |.||.+-..+-.+++. ...+...-++|+++.| .+||-.+ ++
T Consensus 83 ---------~D~l~~~~~~~~~~~~~~vv~-NlPy~is~~il~~ll~-~~~~g~~~~~l~vq~e~a~rl~a~pg~~~~~~ 151 (262)
T PF00398_consen 83 ---------GDFLKWDLYDLLKNQPLLVVG-NLPYNISSPILRKLLE-LYRFGRVRMVLMVQKEVAERLLAKPGSKRYSR 151 (262)
T ss_dssp ---------S-TTTSCGGGHCSSSEEEEEE-EETGTGHHHHHHHHHH-HGGGCEEEEEEEEEHHHHHHHHTSTTSTTCSH
T ss_pred ---------cchhccccHHhhcCCceEEEE-EecccchHHHHHHHhh-cccccccceEEEEehhhhhhccCCCCCCccch
Confidence 4555555543 3556667888 9999755555555555 1122224556666655 4565332 22
Q ss_pred ccee------ecccccccCcccccCCccccCcccccccccCCCc
Q 004523 683 YNLI------WEDNEVLSGKSFYLPGSLDVHDNQLEQWNCKPPP 720 (747)
Q Consensus 683 y~l~------~~d~~~~~g~~f~~pg~~d~~~~~~~~~n~~~p~ 720 (747)
..++ ++--.-++...||=|-.||. ++=+..-.+.+
T Consensus 152 lsv~~q~~~~i~~l~~v~~~~F~P~PkVds---~vv~l~p~~~~ 192 (262)
T PF00398_consen 152 LSVLAQAFFDIKLLFKVPPSCFYPPPKVDS---AVVRLTPKENP 192 (262)
T ss_dssp HHHHHHHHEEEEEEEEE-GGGEESSSSS-E---EEEEEEE-SSC
T ss_pred hhhhhhhhhceeEecccCCccccCCCCCce---EEEEEEECCCC
Confidence 2222 23334456667776666664 34344444444
No 32
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=93.25 E-value=0.037 Score=65.97 Aligned_cols=81 Identities=28% Similarity=0.690 Sum_probs=56.8
Q ss_pred ccccccccccccCccccccccCCcccccCCCCceeccccccc---------------CccccccccCCCCCCCCCCceec
Q 004523 105 RCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ---------------EHQCFACGMLGSSDKSSSQEVFP 169 (747)
Q Consensus 105 ~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~---------------~h~CfvCgk~Gssd~ss~aeV~k 169 (747)
.|.|.+|..|.++. +. .++...|.|+.|... +..|.+|+.. ++++.
T Consensus 1 ~~~r~~~~~~~~p~--------~~---~~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~~--------g~~l~ 61 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPK--------LK---EEPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICADG--------GELLW 61 (696)
T ss_pred CCCcccCcCCCCcc--------cc---cCCcCCccCcchhhcccccccccCCcchhhhhhhhhhcCC--------CcEEE
Confidence 38999999985531 21 223688999998842 3479999964 46888
Q ss_pred ccCCCcCCCCccccccccCCCCchhHHHHHHHHHhcCCcccCCCcccccCcCC
Q 004523 170 CVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQS 222 (747)
Q Consensus 170 Csv~~CGKfYH~~CL~~~l~P~~e~~a~~L~~ri~~g~~F~CPlH~C~~Ck~~ 222 (747)
| ..|...||..|+...+.+ +.++. |+|| .| .|-..
T Consensus 62 c--~tC~~s~h~~cl~~pl~~------------~p~~~-~~c~--Rc-~~p~~ 96 (696)
T KOG0383|consen 62 C--DTCPASFHASCLGPPLTP------------QPNGE-FICP--RC-FCPKN 96 (696)
T ss_pred e--ccccHHHHHHccCCCCCc------------CCccc-eeee--ee-ccCCC
Confidence 8 899999999999765433 12344 9998 56 55543
No 33
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=92.56 E-value=0.058 Score=61.56 Aligned_cols=52 Identities=21% Similarity=0.493 Sum_probs=37.0
Q ss_pred CcccccccCCCC-----CeeecCCccccccccccccCccccccccCCccccc-CCCCceeccccccc
Q 004523 86 YFAVCAICDDGG-----DVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQI-DAVPNFLCQNCVYQ 146 (747)
Q Consensus 86 ~DdVCaIC~dgG-----eLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev-~~~~~W~C~eC~~~ 146 (747)
-+..|.+|..|| .||.|++ |..+||..|.... ++.... ++...|+|..|.++
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~-C~~~fHq~Chqp~--------i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDK-CRQWYHQACHQPL--------IKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred ccceeeeeecCCcCccceeeeecc-cccHHHHHhccCC--------CCHhhccCccceEeehhhccc
Confidence 345599998764 4999996 9999999985422 222222 35678999999875
No 34
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=92.40 E-value=0.055 Score=61.79 Aligned_cols=65 Identities=20% Similarity=0.532 Sum_probs=42.0
Q ss_pred ccccccC-----CCCCeeecCCccccccccccccCccccccccCCccccc-CCCCceecccccccC--ccccccccCC
Q 004523 88 AVCAICD-----DGGDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQI-DAVPNFLCQNCVYQE--HQCFACGMLG 157 (747)
Q Consensus 88 dVCaIC~-----dgGeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev-~~~~~W~C~eC~~~~--h~CfvCgk~G 157 (747)
.+|.+|- +.|++|.|| .|.-..|-.|-.-.++. .+.+..- -....|+|.-|.+|. ..|-.|-..+
T Consensus 120 ~iCcVClg~rs~da~ei~qCd-~CGi~VHEgCYGv~dn~----si~s~~s~~stepWfCeaC~~Gvs~P~CElCPn~~ 192 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCD-KCGINVHEGCYGVLDNV----SIPSGSSDCSTEPWFCEACLYGVSLPHCELCPNRF 192 (707)
T ss_pred eEEEEeecCccccccceeecc-ccCceeccccccccccc----ccCCCCccCCCCchhhhhHhcCCCCCccccCCCcC
Confidence 3899995 358899999 69999999873211110 0111000 023679999999985 4688885544
No 35
>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=92.38 E-value=0.065 Score=48.11 Aligned_cols=86 Identities=28% Similarity=0.426 Sum_probs=53.6
Q ss_pred CCeEEeecCCcchhhHHHHHHH--HHcCCCcc-------ccCCCCCCCCCCCccccccccccCCCCCCCCCc-eeeecCC
Q 004523 573 GDTIVDFCCGANDFSCMMKVKL--EQMGKSCS-------FRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQ-LIMGLNP 642 (747)
Q Consensus 573 gd~~vd~~cg~~~f~~l~~~~~--~~~~~~~~-------~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~-li~glnp 642 (747)
|++|+|++||+-.|...+-++. +-+|-+.+ -.|+....-.....|...|+.++. ..++.+.. +|++ ||
T Consensus 1 g~~vlD~~~G~G~~~~~~~~~~~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~-~~~~~~~~D~Iv~-np 78 (117)
T PF13659_consen 1 GDRVLDPGCGSGTFLLAALRRGAARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLP-EPLPDGKFDLIVT-NP 78 (117)
T ss_dssp TEEEEEETSTTCHHHHHHHHHCTCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHH-HTCTTT-EEEEEE---
T ss_pred CCEEEEcCcchHHHHHHHHHHCCCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhch-hhccCceeEEEEE-CC
Confidence 7899999999999999998864 00011110 122322222456788888988886 44555655 5555 99
Q ss_pred Ccchh-------hhhHHHHHHhhhh
Q 004523 643 PFGVK-------ASLANKFISQALK 660 (747)
Q Consensus 643 pfg~~-------~~~a~kfi~~~~~ 660 (747)
||+.. ..++..|+.++..
T Consensus 79 P~~~~~~~~~~~~~~~~~~~~~~~~ 103 (117)
T PF13659_consen 79 PYGPRSGDKAALRRLYSRFLEAAAR 103 (117)
T ss_dssp STTSBTT----GGCHHHHHHHHHHH
T ss_pred CCccccccchhhHHHHHHHHHHHHH
Confidence 99953 2366788888764
No 36
>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=92.00 E-value=0.19 Score=56.47 Aligned_cols=117 Identities=21% Similarity=0.306 Sum_probs=65.3
Q ss_pred hhhhHHHHHhhhcccc--ccCCeEEeecCCcchhhHHHHHHHHH-cCCCccc-------cCCCCCCCCCCCccccccccc
Q 004523 555 KVEKLKEIVDRLHWYV--RSGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCSF-------RNYDLIQPKNDFSFEKRDWMT 624 (747)
Q Consensus 555 ~~ekl~~i~~~l~~~~--~~gd~~vd~~cg~~~f~~l~~~~~~~-~~~~~~~-------kn~d~~~~~~~~~f~~~~w~~ 624 (747)
+++-.+.+++++..++ .+|++|+|++||...|+-.|-+.... +|.+.+- +|..... -++..|...|+..
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 4666666777776665 46789999999999999888653210 1111100 1111111 1235566666644
Q ss_pred cCCCC-CCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEec-Ccccc
Q 004523 625 VRPEE-LPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIV-PQETR 675 (747)
Q Consensus 625 ~~~~~-l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~-p~~~~ 675 (747)
.-++. +..++-=++-+|||. +-++..|++.....+|+-||.|. -|.|-
T Consensus 352 ~l~~~~~~~~~~D~vi~dPPr---~G~~~~~l~~l~~l~~~~ivyvsc~p~tl 401 (431)
T TIGR00479 352 VLPKQPWAGQIPDVLLLDPPR---KGCAAEVLRTIIELKPERIVYVSCNPATL 401 (431)
T ss_pred HHHHHHhcCCCCCEEEECcCC---CCCCHHHHHHHHhcCCCEEEEEcCCHHHH
Confidence 32211 112222233469984 23667788877778898877665 44443
No 37
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=91.66 E-value=0.36 Score=49.50 Aligned_cols=98 Identities=9% Similarity=0.165 Sum_probs=50.6
Q ss_pred ccCCeEEeecCCcchhhHHHHHHH--HHcCCCcc-------ccCCCCCCCCCCCccccccccccCCCCCCCCCceeeecC
Q 004523 571 RSGDTIVDFCCGANDFSCMMKVKL--EQMGKSCS-------FRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLN 641 (747)
Q Consensus 571 ~~gd~~vd~~cg~~~f~~l~~~~~--~~~~~~~~-------~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~gln 641 (747)
.+|++|+|++||+..|+-.+-.+. .-++-..+ -+|.....- ++..|...|++..-+. ..+..=++-+|
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 578999999999999997532221 11111111 123333221 2356666776543222 12334455679
Q ss_pred CCcchhhhhHHHHHHhhhh---cCCcEEEEecCcc
Q 004523 642 PPFGVKASLANKFISQALK---FKPKLIVLIVPQE 673 (747)
Q Consensus 642 ppfg~~~~~a~kfi~~~~~---f~p~~~~li~p~~ 673 (747)
|||... +..+-++.... ..|+=||+|-=+.
T Consensus 129 PPy~~g--~~~~~l~~l~~~~~l~~~~iv~ve~~~ 161 (199)
T PRK10909 129 PPFRKG--LLEETINLLEDNGWLADEALIYVESEV 161 (199)
T ss_pred CCCCCC--hHHHHHHHHHHCCCcCCCcEEEEEecC
Confidence 998532 33333333333 3677766665333
No 38
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=91.39 E-value=0.1 Score=47.89 Aligned_cols=102 Identities=22% Similarity=0.406 Sum_probs=57.9
Q ss_pred cccccccCCCCCCCCCCceecccCCCcCCCCccccccccCCCCchhHHHHHH----HHHhcCCcccCCCcccccCcCCcc
Q 004523 149 QCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELR----ERIAAGESFTCPVHKCFVCQQSED 224 (747)
Q Consensus 149 ~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~l~P~~e~~a~~L~----~ri~~g~~F~CPlH~C~~Ck~~ed 224 (747)
.|.+|...|. .++- ..-+.+.|..|....+.....+.. .+. ..+. ... -...|..|+...
T Consensus 2 ~C~lC~~~~G--------alk~--t~~~~WvHv~Cal~~~~~~~~~~~-~~~~v~~~~i~-~~~---~~~~C~iC~~~~- 65 (110)
T PF13832_consen 2 SCVLCPKRGG--------ALKR--TSDGQWVHVLCALWIPEVIFNNGE-SMEPVDISNIP-PSR---FKLKCSICGKSG- 65 (110)
T ss_pred ccEeCCCCCC--------cccC--ccCCcEEEeEccceeCccEEeech-hcCcccceeec-chh---cCCcCcCCCCCC-
Confidence 5889987542 3333 336899999998654322111100 000 0010 011 135789998862
Q ss_pred CCccccceeeccc--ccccccccCCCC-ccccccccchhhhhhhhccCCCCceEEEecCc
Q 004523 225 MNVEDLQLAICRR--CPKAYHRKCLPT-EITFSDADENNFQRAWVDLLPNNRILIYCLEH 281 (747)
Q Consensus 225 k~~~~~qL~~C~R--CP~AYH~kCLP~-~i~f~~~~~~~~~raW~~lL~~~riLI~C~kH 281 (747)
+..++|.. |..+||..|.-. +..+.... + -.+....+||.+|
T Consensus 66 -----G~~i~C~~~~C~~~fH~~CA~~~g~~~~~~~-------~---~~~~~~~~~C~~H 110 (110)
T PF13832_consen 66 -----GACIKCSHPGCSTAFHPTCARKAGLYFEIEN-------E---EDNVQFIAYCPKH 110 (110)
T ss_pred -----ceeEEcCCCCCCcCCCHHHHHHCCCeEEeee-------c---CCCceEEEECCCC
Confidence 46899999 999999999744 22221110 0 0033678999988
No 39
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=91.37 E-value=0.033 Score=62.56 Aligned_cols=82 Identities=21% Similarity=0.499 Sum_probs=53.0
Q ss_pred cccccCCC--CCeeecCCccccccccccccCccccccccCCccccc-CCCCceeccccccc-CccccccccCCCCCCCCC
Q 004523 89 VCAICDDG--GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQI-DAVPNFLCQNCVYQ-EHQCFACGMLGSSDKSSS 164 (747)
Q Consensus 89 VCaIC~dg--GeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev-~~~~~W~C~eC~~~-~h~CfvCgk~Gssd~ss~ 164 (747)
+|..|.++ |+-.-|.. =.+.||..|..=.. | .-.|..... .-.+.-+|..|-.. ...|.+|++.-.
T Consensus 276 iC~~C~K~V~g~~~ac~A-m~~~fHv~CFtC~~--C-~r~L~Gq~FY~v~~k~~CE~cyq~tlekC~~Cg~~I~------ 345 (468)
T KOG1701|consen 276 ICAFCHKTVSGQGLAVEA-MDQLFHVQCFTCRT--C-RRQLAGQSFYQVDGKPYCEGCYQDTLEKCNKCGEPIM------ 345 (468)
T ss_pred hhhhcCCcccCcchHHHH-hhhhhcccceehHh--h-hhhhccccccccCCcccchHHHHHHHHHHhhhhhHHH------
Confidence 89999986 77777863 67899999854111 1 001111111 12367789988754 468999997542
Q ss_pred CceecccCCCcCCCCccccc
Q 004523 165 QEVFPCVSATCGQFYHPECV 184 (747)
Q Consensus 165 aeV~kCsv~~CGKfYH~~CL 184 (747)
..++ ..||+.||+.|.
T Consensus 346 d~iL----rA~GkayHp~CF 361 (468)
T KOG1701|consen 346 DRIL----RALGKAYHPGCF 361 (468)
T ss_pred HHHH----HhcccccCCCce
Confidence 2334 469999999984
No 40
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=91.21 E-value=0.58 Score=45.74 Aligned_cols=137 Identities=20% Similarity=0.275 Sum_probs=74.6
Q ss_pred HHHHhhhccccccCCeEEeecCCcchhhHHHHHHHH-HcCCCccccCCCC----CCCCCCCccccccccccCCCCCCCCC
Q 004523 560 KEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLE-QMGKSCSFRNYDL----IQPKNDFSFEKRDWMTVRPEELPDGS 634 (747)
Q Consensus 560 ~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~-~~~~~~~~kn~d~----~~~~~~~~f~~~~w~~~~~~~l~~g~ 634 (747)
..|++.+.+ .+|++|+|+.||...++..+-++.. -++.+-+-.-.+. +...+.+.+...|.+.....+. .-
T Consensus 3 ~~i~~~~~~--~~~~~vLEiG~G~G~lt~~l~~~~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~--~~ 78 (169)
T smart00650 3 DKIVRAANL--RPGDTVLEIGPGKGALTEELLERAARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKL--QP 78 (169)
T ss_pred HHHHHhcCC--CCcCEEEEECCCccHHHHHHHhcCCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCcccc--CC
Confidence 456776664 5889999999999999998866410 0111111000000 0112345566667766543321 12
Q ss_pred ceeeecCCCcchhhhhHHHHHHhhhhcCC--cEEEEecCcc-cccccccc---cc---------ceeecccccccCcccc
Q 004523 635 QLIMGLNPPFGVKASLANKFISQALKFKP--KLIVLIVPQE-TRRLDQKA---SY---------NLIWEDNEVLSGKSFY 699 (747)
Q Consensus 635 ~li~glnppfg~~~~~a~kfi~~~~~f~p--~~~~li~p~~-~~~~~~~~---~y---------~l~~~d~~~~~g~~f~ 699 (747)
.+|+| ||||... ...+.+.++... .-.+|++..| .+|+-.+. .| ..-|+--..++..+||
T Consensus 79 d~vi~-n~Py~~~----~~~i~~~l~~~~~~~~~~l~~q~e~a~rl~~~~~~~~y~~lsv~~~~~~~~~~~~~v~~~~F~ 153 (169)
T smart00650 79 YKVVG-NLPYNIS----TPILFKLLEEPPAFRDAVLMVQKEVARRLAAKPGSKDYGRLSVLLQPYFDVKILFKVPPEAFR 153 (169)
T ss_pred CEEEE-CCCcccH----HHHHHHHHhcCCCcceEEEEEEHHHhHHhcCCCCCCcccHHHHHHHHHeeEEEEEEEChhhCC
Confidence 47777 9999854 444555554322 3345555555 44665542 13 2335555666777777
Q ss_pred cCCccc
Q 004523 700 LPGSLD 705 (747)
Q Consensus 700 ~pg~~d 705 (747)
=|=-||
T Consensus 154 P~PkV~ 159 (169)
T smart00650 154 PPPKVD 159 (169)
T ss_pred CCCCce
Confidence 555554
No 41
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=90.48 E-value=0.6 Score=48.22 Aligned_cols=117 Identities=22% Similarity=0.339 Sum_probs=63.2
Q ss_pred hhccccccccccccccccccCcccchhhhHHHHHhhhcccc-----ccCCeEEeecCCcchhhHHHH-------------
Q 004523 530 KRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYV-----RSGDTIVDFCCGANDFSCMMK------------- 591 (747)
Q Consensus 530 ~~kl~~~l~p~l~g~ry~s~grhft~~ekl~~i~~~l~~~~-----~~gd~~vd~~cg~~~f~~l~~------------- 591 (747)
-.||+.+..|=+.=.-|+ |..+ |+..+.|.+ ..|.+|+|++||..-|+.--.
T Consensus 8 l~kl~~f~~p~~~LEQY~------Tp~~----~Aa~il~~a~~~g~l~g~~V~DlG~GTG~La~ga~~lGa~~V~~vdiD 77 (198)
T COG2263 8 LEKLKGFPNPKLGLEQYR------TPAP----LAAYILWVAYLRGDLEGKTVLDLGAGTGILAIGAALLGASRVLAVDID 77 (198)
T ss_pred hhhhcCCCCCCccceecC------CChH----HHHHHHHHHHHcCCcCCCEEEEcCCCcCHHHHHHHhcCCcEEEEEecC
Confidence 346666666666666676 4444 444444544 457789999999998875321
Q ss_pred -HHHHHcCCCccccCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhH-HHHHHhhhhcCCcEEEEe
Q 004523 592 -VKLEQMGKSCSFRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLA-NKFISQALKFKPKLIVLI 669 (747)
Q Consensus 592 -~~~~~~~~~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a-~kfi~~~~~f~p~~~~li 669 (747)
+.++.....+.= -..++.|...| -+++...-..++ .|||||.+..=| ..|+++||+-. +++--|
T Consensus 78 ~~a~ei~r~N~~~-------l~g~v~f~~~d-----v~~~~~~~dtvi-mNPPFG~~~rhaDr~Fl~~Ale~s-~vVYsi 143 (198)
T COG2263 78 PEALEIARANAEE-------LLGDVEFVVAD-----VSDFRGKFDTVI-MNPPFGSQRRHADRPFLLKALEIS-DVVYSI 143 (198)
T ss_pred HHHHHHHHHHHHh-------hCCceEEEEcc-----hhhcCCccceEE-ECCCCccccccCCHHHHHHHHHhh-heEEEe
Confidence 111111111100 01233333333 222222222222 399999986544 46999999984 555444
Q ss_pred c
Q 004523 670 V 670 (747)
Q Consensus 670 ~ 670 (747)
-
T Consensus 144 H 144 (198)
T COG2263 144 H 144 (198)
T ss_pred e
Confidence 3
No 42
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=89.30 E-value=0.11 Score=62.06 Aligned_cols=33 Identities=33% Similarity=0.837 Sum_probs=27.9
Q ss_pred ccccCcCCccCCccccceeeccccccc-ccccCCCCcc
Q 004523 215 KCFVCQQSEDMNVEDLQLAICRRCPKA-YHRKCLPTEI 251 (747)
Q Consensus 215 ~C~~Ck~~edk~~~~~qL~~C~RCP~A-YH~kCLP~~i 251 (747)
.|..|...+. +.-|+.|.-|..+ ||.+||.++.
T Consensus 217 ~C~IC~~~Dp----EdVLLLCDsCN~~~YH~YCLDPdl 250 (1134)
T KOG0825|consen 217 KCDICTVHDP----EDVLLLCDSCNKVYYHVYCLDPDL 250 (1134)
T ss_pred cceeeccCCh----HHhheeecccccceeeccccCccc
Confidence 6888988654 4478999999999 9999999965
No 43
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=89.08 E-value=0.67 Score=52.51 Aligned_cols=111 Identities=20% Similarity=0.266 Sum_probs=60.4
Q ss_pred HHHHHhhhccc--cccCCeEEeecCCcchhhHHHHHHHHH-cCCCccc-------cCCCCCCCCCCCccccccccccCCC
Q 004523 559 LKEIVDRLHWY--VRSGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCSF-------RNYDLIQPKNDFSFEKRDWMTVRPE 628 (747)
Q Consensus 559 l~~i~~~l~~~--~~~gd~~vd~~cg~~~f~~l~~~~~~~-~~~~~~~-------kn~d~~~~~~~~~f~~~~w~~~~~~ 628 (747)
.+.+++.+.-+ +.+|++|+|++||+..|+..|-++... +|-+.+- +|.....- ++..|...||...-++
T Consensus 282 ~e~l~~~vl~~l~~~~~~~VLDlgcGtG~~sl~la~~~~~V~gvD~s~~al~~A~~n~~~~~~-~~v~~~~~d~~~~l~~ 360 (443)
T PRK13168 282 NQKMVARALEWLDPQPGDRVLDLFCGLGNFTLPLARQAAEVVGVEGVEAMVERARENARRNGL-DNVTFYHANLEEDFTD 360 (443)
T ss_pred HHHHHHHHHHHhcCCCCCEEEEEeccCCHHHHHHHHhCCEEEEEeCCHHHHHHHHHHHHHcCC-CceEEEEeChHHhhhh
Confidence 33444444333 357899999999999999988664210 0111110 12211111 2367888887653221
Q ss_pred -CCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEec-Cccc
Q 004523 629 -ELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIV-PQET 674 (747)
Q Consensus 629 -~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~-p~~~ 674 (747)
.++.++.=++-+|||..- +.+.+......+|+-||.|. -|.|
T Consensus 361 ~~~~~~~fD~Vi~dPPr~g----~~~~~~~l~~~~~~~ivyvSCnp~t 404 (443)
T PRK13168 361 QPWALGGFDKVLLDPPRAG----AAEVMQALAKLGPKRIVYVSCNPAT 404 (443)
T ss_pred hhhhcCCCCEEEECcCCcC----hHHHHHHHHhcCCCeEEEEEeChHH
Confidence 122332223345999863 23556666667888877765 4444
No 44
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=88.33 E-value=1.6 Score=47.44 Aligned_cols=30 Identities=27% Similarity=0.519 Sum_probs=22.2
Q ss_pred HHHHHhhhccccccCCeEEeecCCcchhhHHH
Q 004523 559 LKEIVDRLHWYVRSGDTIVDFCCGANDFSCMM 590 (747)
Q Consensus 559 l~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~ 590 (747)
...+++... +++|++|+|++||+..|...+
T Consensus 171 a~~~~~l~~--~~~g~~vLDp~cGtG~~liea 200 (329)
T TIGR01177 171 ARAMVNLAR--VTEGDRVLDPFCGTGGFLIEA 200 (329)
T ss_pred HHHHHHHhC--CCCcCEEEECCCCCCHHHHHH
Confidence 344555554 489999999999999986543
No 45
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=88.04 E-value=0.52 Score=43.20 Aligned_cols=86 Identities=19% Similarity=0.386 Sum_probs=48.8
Q ss_pred cccccCCC-CCeeecCCccccccccccccCccccccccCCcccccCCCCceecccccccCccccccccCCCCCCCCCCce
Q 004523 89 VCAICDDG-GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSDKSSSQEV 167 (747)
Q Consensus 89 VCaIC~dg-GeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~~h~CfvCgk~Gssd~ss~aeV 167 (747)
.|.+|... |.|..-. -.++.|..|.--....--.-+.+..++. .... =++ .....|.+|++. .+-.
T Consensus 2 ~C~lC~~~~Galk~t~--~~~WvHv~Cal~~~~~~~~~~~~~~~v~-~~~i-~~~--~~~~~C~iC~~~-------~G~~ 68 (110)
T PF13832_consen 2 SCVLCPKRGGALKRTS--DGQWVHVLCALWIPEVIFNNGESMEPVD-ISNI-PPS--RFKLKCSICGKS-------GGAC 68 (110)
T ss_pred ccEeCCCCCCcccCcc--CCcEEEeEccceeCccEEeechhcCccc-ceee-cch--hcCCcCcCCCCC-------Ccee
Confidence 58999876 5455444 4889999985421100000000000000 0000 000 124579999974 2458
Q ss_pred ecccCCCcCCCCcccccccc
Q 004523 168 FPCVSATCGQFYHPECVSKL 187 (747)
Q Consensus 168 ~kCsv~~CGKfYH~~CL~~~ 187 (747)
++|....|.++||+.|....
T Consensus 69 i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 69 IKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred EEcCCCCCCcCCCHHHHHHC
Confidence 89999999999999998653
No 46
>PHA03411 putative methyltransferase; Provisional
Probab=87.77 E-value=0.25 Score=53.41 Aligned_cols=48 Identities=21% Similarity=0.295 Sum_probs=34.2
Q ss_pred ccccccccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHH
Q 004523 542 HGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 542 ~g~ry~s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
+|+--+-.|-+||+..-+..++- ....+++|+|++||+..|+..+-++
T Consensus 38 ~g~~~~~~G~FfTP~~i~~~f~~----~~~~~grVLDLGcGsGilsl~la~r 85 (279)
T PHA03411 38 HGDGLGGSGAFFTPEGLAWDFTI----DAHCTGKVLDLCAGIGRLSFCMLHR 85 (279)
T ss_pred ccccccCceeEcCCHHHHHHHHh----ccccCCeEEEcCCCCCHHHHHHHHh
Confidence 34433335999999887655442 2346789999999999998877553
No 47
>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=85.34 E-value=0.34 Score=47.57 Aligned_cols=92 Identities=28% Similarity=0.464 Sum_probs=54.0
Q ss_pred HHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcC----------CCccccCCCCCCCCCCCccccccccccCCCCCC
Q 004523 562 IVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMG----------KSCSFRNYDLIQPKNDFSFEKRDWMTVRPEELP 631 (747)
Q Consensus 562 i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~----------~~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~ 631 (747)
+++.+... .+..|+|++||+--.+-.+.++..... ..+.-+|.....-.+ ..+...||+.- ++
T Consensus 23 L~~~l~~~--~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~-v~~~~~d~~~~----~~ 95 (170)
T PF05175_consen 23 LLDNLPKH--KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLEN-VEVVQSDLFEA----LP 95 (170)
T ss_dssp HHHHHHHH--TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTT-EEEEESSTTTT----CC
T ss_pred HHHHHhhc--cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccc-ccccccccccc----cc
Confidence 44444444 788999999999999998887533311 012223433333333 66777787653 33
Q ss_pred CCC-ceeeecCCCcchhhh----hHHHHHHhhhhc
Q 004523 632 DGS-QLIMGLNPPFGVKAS----LANKFISQALKF 661 (747)
Q Consensus 632 ~g~-~li~glnppfg~~~~----~a~kfi~~~~~f 661 (747)
.+. -+|+. ||||..... +..+||..|...
T Consensus 96 ~~~fD~Iv~-NPP~~~~~~~~~~~~~~~i~~a~~~ 129 (170)
T PF05175_consen 96 DGKFDLIVS-NPPFHAGGDDGLDLLRDFIEQARRY 129 (170)
T ss_dssp TTCEEEEEE----SBTTSHCHHHHHHHHHHHHHHH
T ss_pred ccceeEEEE-ccchhcccccchhhHHHHHHHHHHh
Confidence 333 35555 999965544 788999888643
No 48
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=84.93 E-value=0.61 Score=50.14 Aligned_cols=27 Identities=22% Similarity=0.598 Sum_probs=23.1
Q ss_pred CCceecccCCCcC-CCCccccccccCCC
Q 004523 164 SQEVFPCVSATCG-QFYHPECVSKLLHP 190 (747)
Q Consensus 164 ~aeV~kCsv~~CG-KfYH~~CL~~~l~P 190 (747)
.++++.|....|. .+||..||.....|
T Consensus 229 yg~Mi~CDn~~C~~eWFH~~CVGL~~~P 256 (274)
T KOG1973|consen 229 YGKMIGCDNPGCPIEWFHFTCVGLKTKP 256 (274)
T ss_pred cccccccCCCCCCcceEEEeccccccCC
Confidence 4689999989999 99999999876544
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=84.39 E-value=0.53 Score=52.35 Aligned_cols=115 Identities=16% Similarity=0.221 Sum_probs=61.0
Q ss_pred chhhhHHHHHhhhcccc--ccCCeEEeecCCcchhhHHHHHHHHH-cCCCccc-------cCCCCCCCCCCCcccccccc
Q 004523 554 TKVEKLKEIVDRLHWYV--RSGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCSF-------RNYDLIQPKNDFSFEKRDWM 623 (747)
Q Consensus 554 t~~ekl~~i~~~l~~~~--~~gd~~vd~~cg~~~f~~l~~~~~~~-~~~~~~~-------kn~d~~~~~~~~~f~~~~w~ 623 (747)
|..+-.+.+++.+.-++ .+|.+|+|++||+..|+-.+-.+... +|.+.+- +|.....- ++..|...|..
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 33333344444443333 35789999999999999877643211 1111111 11111111 13445555543
Q ss_pred ccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEec-Cccc
Q 004523 624 TVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIV-PQET 674 (747)
Q Consensus 624 ~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~-p~~~ 674 (747)
+.-+. + .+..=++-+|||. +-+..++++.++.++|+-||.|. -|.|
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 35778999999999996655553 4444
No 50
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=83.79 E-value=0.55 Score=41.37 Aligned_cols=35 Identities=29% Similarity=0.557 Sum_probs=28.5
Q ss_pred CCCCcccccccCCC-CCeeecC-CccccccccccccC
Q 004523 83 DENYFAVCAICDDG-GDVTFCD-GRCLRSFHATITAG 117 (747)
Q Consensus 83 dd~~DdVCaIC~dg-GeLLcCd-G~C~RsFH~~C~~g 117 (747)
.......|.+|... |..|.|. ..|.+.||+.|.-.
T Consensus 32 ~~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 32 KRRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred HHHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 34456899999999 9999884 56999999998543
No 51
>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=83.79 E-value=2.6 Score=42.88 Aligned_cols=96 Identities=18% Similarity=0.359 Sum_probs=52.2
Q ss_pred cccccccCcccchhhhHHHHHhhhc-cccccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCC-----------
Q 004523 543 GMRYTSFGRHFTKVEKLKEIVDRLH-WYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQ----------- 610 (747)
Q Consensus 543 g~ry~s~grhft~~ekl~~i~~~l~-~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~----------- 610 (747)
|.+|.--+..|+...-..++++.+- +.-..+.+|+|++||+..|...+.+... .+.+--.|+.+
T Consensus 57 ~~~~~~~~~~~~p~~~~~~l~~~~l~~~~~~~~~ilDig~G~G~~~~~l~~~~~----~~~v~~iD~~~~~~~~a~~~~~ 132 (251)
T TIGR03534 57 GLDFKVSPGVLIPRPDTEELVEAALERLKKGPLRVLDLGTGSGAIALALAKERP----DARVTAVDISPEALAVARKNAA 132 (251)
T ss_pred ceEEEECCCcccCCCChHHHHHHHHHhcccCCCeEEEEeCcHhHHHHHHHHHCC----CCEEEEEECCHHHHHHHHHHHH
Confidence 4444434444554433344444432 2234556899999999999888876431 11222222211
Q ss_pred --CCCCCccccccccccCCCCCCCCC-ceeeecCCCcchh
Q 004523 611 --PKNDFSFEKRDWMTVRPEELPDGS-QLIMGLNPPFGVK 647 (747)
Q Consensus 611 --~~~~~~f~~~~w~~~~~~~l~~g~-~li~glnppfg~~ 647 (747)
.-++..|...|+.+. ++.++ .+|+. ||||...
T Consensus 133 ~~~~~~~~~~~~d~~~~----~~~~~fD~Vi~-npPy~~~ 167 (251)
T TIGR03534 133 RLGLDNVTFLQSDWFEP----LPGGKFDLIVS-NPPYIPE 167 (251)
T ss_pred HcCCCeEEEEECchhcc----CcCCceeEEEE-CCCCCch
Confidence 011366777777653 23343 46665 9999853
No 52
>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=83.69 E-value=0.96 Score=41.66 Aligned_cols=39 Identities=28% Similarity=0.546 Sum_probs=31.3
Q ss_pred eeeecCCCcchhhhhHH-------------HHHHhhhhcCCcEEEEecCcccc
Q 004523 636 LIMGLNPPFGVKASLAN-------------KFISQALKFKPKLIVLIVPQETR 675 (747)
Q Consensus 636 li~glnppfg~~~~~a~-------------kfi~~~~~f~p~~~~li~p~~~~ 675 (747)
+|+| |||++....+.+ -||.+|++.-.-.+.+|+|...=
T Consensus 5 ~VIG-NPPY~~~~~~~~~~~~~~~~~dlY~~Fie~~~~ll~G~~~~I~P~~~l 56 (106)
T PF07669_consen 5 VVIG-NPPYIKIKSLSKKKKKKKKKSDLYILFIEKSLNLLNGYLSFITPNSFL 56 (106)
T ss_pred EEEE-CCCChhhccccchhhcccccCcHHHHHHHHHHHHhCCeEEEEeChHHh
Confidence 7999 999987653221 29999998888999999998765
No 53
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=82.44 E-value=1.5 Score=50.12 Aligned_cols=117 Identities=20% Similarity=0.431 Sum_probs=74.4
Q ss_pred cccccccCcccchhh--hHHHHHhhhccccc--cCCeEEeecCCcchhhHHHHHH-------------HHHcCCCccccC
Q 004523 543 GMRYTSFGRHFTKVE--KLKEIVDRLHWYVR--SGDTIVDFCCGANDFSCMMKVK-------------LEQMGKSCSFRN 605 (747)
Q Consensus 543 g~ry~s~grhft~~e--kl~~i~~~l~~~~~--~gd~~vd~~cg~~~f~~l~~~~-------------~~~~~~~~~~kn 605 (747)
|..|.=+.|.|+.+- -.+.+++..-=+++ .+|+++|++||..+|+--+-++ .++......-++
T Consensus 260 ~~~~~~~~~sF~Q~N~~~~ekl~~~a~~~~~~~~~~~vlDlYCGvG~f~l~lA~~~~~V~gvEi~~~aV~~A~~NA~~n~ 339 (432)
T COG2265 260 GVSFQISPRSFFQVNPAVAEKLYETALEWLELAGGERVLDLYCGVGTFGLPLAKRVKKVHGVEISPEAVEAAQENAAANG 339 (432)
T ss_pred ceEEEeCCCCceecCHHHHHHHHHHHHHHHhhcCCCEEEEeccCCChhhhhhcccCCEEEEEecCHHHHHHHHHHHHHcC
Confidence 566777788998764 33344444434445 5689999999999999877633 222332332222
Q ss_pred C--CCCCCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEec
Q 004523 606 Y--DLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIV 670 (747)
Q Consensus 606 ~--d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~ 670 (747)
- --|..-..+.|..+-|....|+ .|+ |||| ++-+...|++..++++|+.||-|.
T Consensus 340 i~N~~f~~~~ae~~~~~~~~~~~~d-------~Vv-vDPP---R~G~~~~~lk~l~~~~p~~IvYVS 395 (432)
T COG2265 340 IDNVEFIAGDAEEFTPAWWEGYKPD-------VVV-VDPP---RAGADREVLKQLAKLKPKRIVYVS 395 (432)
T ss_pred CCcEEEEeCCHHHHhhhccccCCCC-------EEE-ECCC---CCCCCHHHHHHHHhcCCCcEEEEe
Confidence 2 2444455566665555333333 444 4777 334888999999999999888876
No 54
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=82.35 E-value=0.64 Score=53.54 Aligned_cols=49 Identities=24% Similarity=0.497 Sum_probs=36.4
Q ss_pred cccccccCCCCC---eeecCCccccccccccccCccccccccCCcccccCC-CCceeccccc
Q 004523 87 FAVCAICDDGGD---VTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDA-VPNFLCQNCV 144 (747)
Q Consensus 87 DdVCaIC~dgGe---LLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~-~~~W~C~eC~ 144 (747)
...|.||...-+ |+.|| .|...||+-|+. ..||..+-.. ..-|.|.+|-
T Consensus 544 ~ysCgiCkks~dQHll~~CD-tC~lhYHlGCL~--------PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 544 NYSCGICKKSTDQHLLTQCD-TCHLHYHLGCLS--------PPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred ceeeeeeccchhhHHHhhcc-hhhceeeccccC--------CccccCcccccCcceeecccc
Confidence 456999998765 89999 599999999754 4566555332 4569988874
No 55
>TIGR03704 PrmC_rel_meth putative protein-(glutamine-N5) methyltransferase, unknown substrate-specific. This protein family is closely related to two different families of protein-(glutamine-N5) methyltransferase. The first is PrmB, which modifies ribosomal protein L3 in some bacteria. The second is PrmC (HemK), which modifies peptide chain release factors 1 and 2 in most bacteria and also in eukaryotes. The glutamine side chain-binding motif NPPY shared by PrmB and PrmC is N[VAT]PY in this family. The protein substrate is unknown.
Probab=82.15 E-value=1.4 Score=46.51 Aligned_cols=68 Identities=19% Similarity=0.385 Sum_probs=37.8
Q ss_pred CCeEEeecCCcchhhHHHHHHHHH---cCCCcc-------ccCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCC
Q 004523 573 GDTIVDFCCGANDFSCMMKVKLEQ---MGKSCS-------FRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNP 642 (747)
Q Consensus 573 gd~~vd~~cg~~~f~~l~~~~~~~---~~~~~~-------~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnp 642 (747)
+..|+|++||+-.++-.+-++... +|-+.+ -+|.. .|...|...||.+.-+..+...=.+|+. ||
T Consensus 87 ~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~----~~~~~~~~~D~~~~l~~~~~~~fDlVv~-NP 161 (251)
T TIGR03704 87 TLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLA----DAGGTVHEGDLYDALPTALRGRVDILAA-NA 161 (251)
T ss_pred CCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHH----HcCCEEEEeechhhcchhcCCCEeEEEE-CC
Confidence 458999999999999887654211 111111 11211 1223577788876444333222235555 99
Q ss_pred Ccc
Q 004523 643 PFG 645 (747)
Q Consensus 643 pfg 645 (747)
||-
T Consensus 162 Py~ 164 (251)
T TIGR03704 162 PYV 164 (251)
T ss_pred CCC
Confidence 985
No 56
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=81.94 E-value=1.9 Score=46.69 Aligned_cols=93 Identities=15% Similarity=0.225 Sum_probs=48.5
Q ss_pred cCCeEEeecCCcchhhHHHHHHHHH-cCCCcccc-------CCCCCCCCCCCccccccccccCCCCCCCCCceeeecCCC
Q 004523 572 SGDTIVDFCCGANDFSCMMKVKLEQ-MGKSCSFR-------NYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPP 643 (747)
Q Consensus 572 ~gd~~vd~~cg~~~f~~l~~~~~~~-~~~~~~~k-------n~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnpp 643 (747)
+|+.|+|++||...|+..+-++... +|.+.+-. |.....- ++..|...|..+..+. ..+..=++-+|||
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 5899999999999999877653110 01111111 1110010 1345655555433221 1122223446999
Q ss_pred cchhhhhHHHHHHhhhhcCCcEEEEec
Q 004523 644 FGVKASLANKFISQALKFKPKLIVLIV 670 (747)
Q Consensus 644 fg~~~~~a~kfi~~~~~f~p~~~~li~ 670 (747)
- +-+..+.+.......|+-||.|.
T Consensus 250 r---~G~~~~~~~~l~~~~~~~ivyvs 273 (315)
T PRK03522 250 R---RGIGKELCDYLSQMAPRFILYSS 273 (315)
T ss_pred C---CCccHHHHHHHHHcCCCeEEEEE
Confidence 3 34555666666677887766653
No 57
>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=81.45 E-value=0.73 Score=47.49 Aligned_cols=98 Identities=27% Similarity=0.382 Sum_probs=46.7
Q ss_pred cccccccccccccccccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCCC-
Q 004523 533 LDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQP- 611 (747)
Q Consensus 533 l~~~l~p~l~g~ry~s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~- 611 (747)
-+||.+|=+.+.|. .|++ .|.+|++|+|++||-.-|+-.+-+ .++.+..-..|+=|-
T Consensus 80 ~kvyfs~rl~~Er~--------------Ri~~----~v~~~e~VlD~faGIG~f~l~~ak----~~~~~~V~A~d~Np~a 137 (200)
T PF02475_consen 80 SKVYFSPRLSTERR--------------RIAN----LVKPGEVVLDMFAGIGPFSLPIAK----HGKAKRVYAVDLNPDA 137 (200)
T ss_dssp TTS---GGGHHHHH--------------HHHT----C--TT-EEEETT-TTTTTHHHHHH----HT-SSEEEEEES-HHH
T ss_pred ceEEEccccHHHHH--------------HHHh----cCCcceEEEEccCCccHHHHHHhh----hcCccEEEEecCCHHH
Confidence 36677776665542 2333 489999999999999999988766 233332222222111
Q ss_pred -------------CCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhc
Q 004523 612 -------------KNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKF 661 (747)
Q Consensus 612 -------------~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f 661 (747)
++....-.-|..++-+ -..-+.+|||| |+ .|..|++.|+..
T Consensus 138 ~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~--~~~~drvim~l-p~------~~~~fl~~~~~~ 191 (200)
T PF02475_consen 138 VEYLKENIRLNKVENRIEVINGDAREFLP--EGKFDRVIMNL-PE------SSLEFLDAALSL 191 (200)
T ss_dssp HHHHHHHHHHTT-TTTEEEEES-GGG-----TT-EEEEEE---TS------SGGGGHHHHHHH
T ss_pred HHHHHHHHHHcCCCCeEEEEcCCHHHhcC--ccccCEEEECC-hH------HHHHHHHHHHHH
Confidence 2222222333333333 23345899996 54 456788888765
No 58
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=81.12 E-value=0.84 Score=52.48 Aligned_cols=54 Identities=20% Similarity=0.372 Sum_probs=38.2
Q ss_pred ccccCcCCccCCccccceeecccccccccccCCCCccccccccchhhhhhhhccCCCCceEEEecCccc
Q 004523 215 KCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKI 283 (747)
Q Consensus 215 ~C~~Ck~~edk~~~~~qL~~C~RCP~AYH~kCLP~~i~f~~~~~~~~~raW~~lL~~~riLI~C~kH~i 283 (747)
.|.+|+.+.... ..+|+.|.+|-.+||..|.-+.+.-. +..+....|+|..|--
T Consensus 170 qc~vC~~g~~~~--~NrmlqC~~C~~~fHq~Chqp~i~~~-------------l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 170 QCSVCYCGGPGA--GNRMLQCDKCRQWYHQACHQPLIKDE-------------LAGDPFYEWFCDVCNR 223 (464)
T ss_pred eeeeeecCCcCc--cceeeeecccccHHHHHhccCCCCHh-------------hccCccceEeehhhcc
Confidence 388888765421 23899999999999999998866421 2333456788887764
No 59
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=80.09 E-value=0.76 Score=54.67 Aligned_cols=58 Identities=26% Similarity=0.634 Sum_probs=36.5
Q ss_pred CCCCcccccccCCCC--------Ceeec-CCccccccccccccCccccccccCCcccccCCCCceecccccc
Q 004523 83 DENYFAVCAICDDGG--------DVTFC-DGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 145 (747)
Q Consensus 83 dd~~DdVCaIC~dgG--------eLLcC-dG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~ 145 (747)
.|.+...|+||+..| .-+.| .-.|.++||.+|....+-.|+.-|.-. ..--||..|.+
T Consensus 113 ~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE~gn~~-----dNVKYCGYCk~ 179 (900)
T KOG0956|consen 113 HDRFNKTCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRAGLLCEEEGNIS-----DNVKYCGYCKY 179 (900)
T ss_pred hhhhcceeeeecccCCccccccccceecccccchhhhhhhHhhhhccceecccccc-----ccceechhHHH
Confidence 567788999998754 46667 335999999999665444452211111 12356777764
No 60
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=79.39 E-value=6.6 Score=42.32 Aligned_cols=155 Identities=20% Similarity=0.296 Sum_probs=97.1
Q ss_pred cccCcccchhh-hHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHH----------------cCCCccccCCCCC
Q 004523 547 TSFGRHFTKVE-KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQ----------------MGKSCSFRNYDLI 609 (747)
Q Consensus 547 ~s~grhft~~e-kl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~----------------~~~~~~~kn~d~~ 609 (747)
.+||.||..-. -+..||+... +++||+|++.=+|-...-..|-++... .-. .+.|+.||
T Consensus 6 K~~GQnFL~d~~v~~kIv~~a~--~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~~l~~~L~~~~~--~~~n~~vi 81 (259)
T COG0030 6 KRLGQNFLIDKNVIDKIVEAAN--ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDRRLAEVLKERFA--PYDNLTVI 81 (259)
T ss_pred CCcccccccCHHHHHHHHHhcC--CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCHHHHHHHHHhcc--cccceEEE
Confidence 68999998766 5677888764 566999999999999887765543222 111 56777777
Q ss_pred CCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCc--EEEEecCccc-ccccccc-----
Q 004523 610 QPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPK--LIVLIVPQET-RRLDQKA----- 681 (747)
Q Consensus 610 ~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~--~~~li~p~~~-~~~~~~~----- 681 (747)
. .|-|.+...+|- +...|.| |.||. ++..++-|.|+..+. -.++.+-.|+ +||=.+.
T Consensus 82 ~---------~DaLk~d~~~l~-~~~~vVa-NlPY~----Isspii~kll~~~~~~~~~v~M~QkEva~Rl~A~pgsk~Y 146 (259)
T COG0030 82 N---------GDALKFDFPSLA-QPYKVVA-NLPYN----ISSPILFKLLEEKFIIQDMVLMVQKEVAERLVAKPGSKDY 146 (259)
T ss_pred e---------CchhcCcchhhc-CCCEEEE-cCCCc----ccHHHHHHHHhccCccceEEEEeHHHHHHHHhCCCCCccc
Confidence 6 355555555554 5668888 99999 666677777777655 4566555553 5553331
Q ss_pred c-cceee------cccccccCcccccCCccccCcccccccccCCCc
Q 004523 682 S-YNLIW------EDNEVLSGKSFYLPGSLDVHDNQLEQWNCKPPP 720 (747)
Q Consensus 682 ~-y~l~~------~d~~~~~g~~f~~pg~~d~~~~~~~~~n~~~p~ 720 (747)
+ ..+++ +--..++=..||=|=-||--=-.|.-+...|.|
T Consensus 147 g~LsV~~q~~~~v~~~~~Vpp~~F~P~PkVdSavv~L~~~~~~~~~ 192 (259)
T COG0030 147 GRLSVLVQYYADVEIVFDVPPSAFYPPPKVDSAVVRLVPKKEKPSP 192 (259)
T ss_pred chhhhhhhheEEEEEEEEEChhhCCCCCCccEEEEEEEeCCCCCCc
Confidence 1 22222 122345566777777776443444444444444
No 61
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=78.36 E-value=0.53 Score=36.07 Aligned_cols=35 Identities=26% Similarity=0.673 Sum_probs=17.2
Q ss_pred CCeeecCCccccccccccccCccccccccCCcccccCCCCceeccccc
Q 004523 97 GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCV 144 (747)
Q Consensus 97 GeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~ 144 (747)
..||.|++ |.-++|..| -|+...+. ...|+|.-|+
T Consensus 2 n~ll~C~~-C~v~VH~~C----------YGv~~~~~--~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDN-CNVAVHQSC----------YGVSEVPD--GDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SS-S--EEEHHH----------HT-SS--S--S-----HHH-
T ss_pred CceEEeCC-CCCcCChhh----------CCcccCCC--CCcEECCcCC
Confidence 35899995 999999996 67765432 3469998774
No 62
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=78.14 E-value=10 Score=38.86 Aligned_cols=66 Identities=21% Similarity=0.291 Sum_probs=44.5
Q ss_pred hhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCC--CCCCCcccccccccc
Q 004523 556 VEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQ--PKNDFSFEKRDWMTV 625 (747)
Q Consensus 556 ~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~--~~~~~~f~~~~w~~~ 625 (747)
..||.||.+++. ++.+|++|||++||...|+..+-++. |..+..--.|+.+ +..+..|-.-|..+.
T Consensus 36 ~~kl~~~~~~~~-~~~~~~~VLDlG~GtG~~t~~l~~~~---~~~~~V~aVDi~~~~~~~~v~~i~~D~~~~ 103 (209)
T PRK11188 36 WFKLDEIQQSDK-LFKPGMTVVDLGAAPGGWSQYAVTQI---GDKGRVIACDILPMDPIVGVDFLQGDFRDE 103 (209)
T ss_pred HHhhHHHHHHhc-cCCCCCEEEEEcccCCHHHHHHHHHc---CCCceEEEEecccccCCCCcEEEecCCCCh
Confidence 348888888865 67899999999999999998776643 3334444445543 122355666666553
No 63
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=77.88 E-value=2 Score=45.59 Aligned_cols=57 Identities=19% Similarity=0.370 Sum_probs=42.7
Q ss_pred hhhHHHHhhccccccccccccccccccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHH
Q 004523 523 LCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 594 (747)
Q Consensus 523 l~q~~~~~~kl~~~l~p~l~g~ry~s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~ 594 (747)
-.+|..+-|... +--|||.|.+-...|.+....- +|+.|+|.|||..++.-++.+.-
T Consensus 17 F~~ia~~YD~~n----------~~~S~g~~~~Wr~~~i~~~~~~-----~g~~vLDva~GTGd~a~~~~k~~ 73 (238)
T COG2226 17 FDKVAKKYDLMN----------DLMSFGLHRLWRRALISLLGIK-----PGDKVLDVACGTGDMALLLAKSV 73 (238)
T ss_pred HHhhHHHHHhhc----------ccccCcchHHHHHHHHHhhCCC-----CCCEEEEecCCccHHHHHHHHhc
Confidence 556666655543 3348999999988877654332 99999999999999998887754
No 64
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=77.05 E-value=0.68 Score=59.64 Aligned_cols=52 Identities=21% Similarity=0.581 Sum_probs=38.6
Q ss_pred CCCCcccccccCCCC---CeeecCCccccccccccccCccccccccCCcccccCCCCceeccccccc
Q 004523 83 DENYFAVCAICDDGG---DVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ 146 (747)
Q Consensus 83 dd~~DdVCaIC~dgG---eLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~ 146 (747)
.....-.|.+|...+ +++.|++ |.+.||..|... -++.. +.+.|.|+.|+..
T Consensus 1104 ~s~~~~~c~~cr~k~~~~~m~lc~~-c~~~~h~~C~rp--------~~~~~---~~~dW~C~~c~~e 1158 (1404)
T KOG1245|consen 1104 RSAVNALCKVCRRKKQDEKMLLCDE-CLSGFHLFCLRP--------ALSSV---PPGDWMCPSCRKE 1158 (1404)
T ss_pred cccchhhhhhhhhcccchhhhhhHh-hhhhHHHHhhhh--------hhccC---CcCCccCCccchh
Confidence 444567899998765 3899996 999999997432 23322 4688999999964
No 65
>PLN02672 methionine S-methyltransferase
Probab=75.16 E-value=4 Score=51.68 Aligned_cols=146 Identities=17% Similarity=0.176 Sum_probs=81.1
Q ss_pred hHHHHHHHHHHhhCCCChhhhhhcCChhhhhhHHHHhhc---------------cccccccccccccccccCcccc----
Q 004523 494 SVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRK---------------LDVYLAPFLHGMRYTSFGRHFT---- 554 (747)
Q Consensus 494 sv~a~~~al~~l~~g~~~~~aka~c~p~~l~q~~~~~~k---------------l~~~l~p~l~g~ry~s~grhft---- 554 (747)
.-.|.|..|+.|++..+.-+|.+. |..|.+--.. =.++|.|.- |.++ =+|+.|.
T Consensus 22 ~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-G~~~-F~~l~~~V~p~ 94 (1082)
T PLN02672 22 AYGAFKGVLERLEDPTTRSDARKL-----LSAVEKRVAASEAGEDCFATYHFRIHDLVLDDYE-GFRN-RKKLTMMEIPS 94 (1082)
T ss_pred HHHHHHHHHHHhcCccccHHHHHH-----HHHHHHHhcccCcccchhhhcceEEeeEEEcCCC-CeEE-ecCCceeeCCC
Confidence 457888899999998888888765 5555443211 134555544 4332 2344332
Q ss_pred ---hhhhHHHHHhhhcc---ccccCCeEEeecCCcchhhHHHHHHHHH---cCCCcc-------ccCCCC--C-------
Q 004523 555 ---KVEKLKEIVDRLHW---YVRSGDTIVDFCCGANDFSCMMKVKLEQ---MGKSCS-------FRNYDL--I------- 609 (747)
Q Consensus 555 ---~~ekl~~i~~~l~~---~~~~gd~~vd~~cg~~~f~~l~~~~~~~---~~~~~~-------~kn~d~--~------- 609 (747)
+-+-.+..|+.|.. ..-.|.+|+|++||+.-.+-.+.++... ++-+.+ -+|-.. +
T Consensus 95 VLIPRpeTE~lve~L~~~~~~~~~~~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~ 174 (1082)
T PLN02672 95 IFIPEDWSFTFYEGLNRHPDSIFRDKTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPV 174 (1082)
T ss_pred cccCchhHHHHHHHHHhcccccCCCCEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCcccccccc
Confidence 22233444444322 2223678999999999999988775421 111111 112111 0
Q ss_pred ------CCCCCCccccccccccCCCCCCCCCceeeecCCCcchhh
Q 004523 610 ------QPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKA 648 (747)
Q Consensus 610 ------~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~ 648 (747)
...+...|...||++.-+. ....=-||++ |||+=..+
T Consensus 175 ~~~~~~~l~~rV~f~~sDl~~~~~~-~~~~fDlIVS-NPPYI~~~ 217 (1082)
T PLN02672 175 YDGEGKTLLDRVEFYESDLLGYCRD-NNIELDRIVG-CIPQILNP 217 (1082)
T ss_pred cccccccccccEEEEECchhhhccc-cCCceEEEEE-CCCcCCCc
Confidence 0124689999999865321 1001358888 99986544
No 66
>PRK14967 putative methyltransferase; Provisional
Probab=74.91 E-value=10 Score=38.83 Aligned_cols=34 Identities=15% Similarity=0.377 Sum_probs=26.7
Q ss_pred hhHHHHHhhhccccccCCeEEeecCCcchhhHHHHH
Q 004523 557 EKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 592 (747)
Q Consensus 557 ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~ 592 (747)
+.|.+++.++ .+.+|++|+|++||.-.++..+.+
T Consensus 23 ~~l~~~l~~~--~~~~~~~vLDlGcG~G~~~~~la~ 56 (223)
T PRK14967 23 QLLADALAAE--GLGPGRRVLDLCTGSGALAVAAAA 56 (223)
T ss_pred HHHHHHHHhc--ccCCCCeEEEecCCHHHHHHHHHH
Confidence 4566666654 367899999999999999888765
No 67
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=71.44 E-value=7.3 Score=40.49 Aligned_cols=70 Identities=20% Similarity=0.401 Sum_probs=42.3
Q ss_pred cccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCC-------------CCCCCccccccccccCCCCCCCCC-c
Q 004523 570 VRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQ-------------PKNDFSFEKRDWMTVRPEELPDGS-Q 635 (747)
Q Consensus 570 ~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~-------------~~~~~~f~~~~w~~~~~~~l~~g~-~ 635 (747)
..++.+|+|++||+..+...+...+. .+.+--.|+.+ ..+...|...||+..- +.+. -
T Consensus 106 ~~~~~~vLDiG~GsG~~~~~la~~~~----~~~v~~iDis~~~l~~a~~n~~~~~~~~i~~~~~d~~~~~----~~~~fD 177 (275)
T PRK09328 106 LKEPLRVLDLGTGSGAIALALAKERP----DAEVTAVDISPEALAVARRNAKHGLGARVEFLQGDWFEPL----PGGRFD 177 (275)
T ss_pred ccCCCEEEEEcCcHHHHHHHHHHHCC----CCEEEEEECCHHHHHHHHHHHHhCCCCcEEEEEccccCcC----CCCcee
Confidence 35788999999999999888776541 12222222211 1345677778885432 2333 3
Q ss_pred eeeecCCCcchhh
Q 004523 636 LIMGLNPPFGVKA 648 (747)
Q Consensus 636 li~glnppfg~~~ 648 (747)
+|+. ||||....
T Consensus 178 ~Iv~-npPy~~~~ 189 (275)
T PRK09328 178 LIVS-NPPYIPEA 189 (275)
T ss_pred EEEE-CCCcCCcc
Confidence 5655 99997543
No 68
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=70.28 E-value=2.4 Score=42.99 Aligned_cols=37 Identities=27% Similarity=0.622 Sum_probs=28.3
Q ss_pred ccccCcCCccCCccccceeecccccccccccCCCCccc
Q 004523 215 KCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPTEIT 252 (747)
Q Consensus 215 ~C~~Ck~~edk~~~~~qL~~C~RCP~AYH~kCLP~~i~ 252 (747)
.|.+|...++. ...+.|+-|--|..|||..||-.-+.
T Consensus 1 ~C~~C~~~g~~-~~kG~Lv~CQGCs~sYHk~CLG~Rs~ 37 (175)
T PF15446_consen 1 TCDTCGYEGDD-RNKGPLVYCQGCSSSYHKACLGPRSQ 37 (175)
T ss_pred CcccccCCCCC-ccCCCeEEcCccChHHHhhhcCCccc
Confidence 48899764432 23579999999999999999966543
No 69
>PRK05785 hypothetical protein; Provisional
Probab=70.19 E-value=5.5 Score=41.29 Aligned_cols=47 Identities=21% Similarity=0.380 Sum_probs=34.0
Q ss_pred cccccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHH
Q 004523 545 RYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 594 (747)
Q Consensus 545 ry~s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~ 594 (747)
+..|||++.- --+++++.+..+..++.+|+|++||..++...+.++.
T Consensus 27 ~~~s~g~~~~---wr~~~~~~l~~~~~~~~~VLDlGcGtG~~~~~l~~~~ 73 (226)
T PRK05785 27 RFISFNQDVR---WRAELVKTILKYCGRPKKVLDVAAGKGELSYHFKKVF 73 (226)
T ss_pred hhccCCCcHH---HHHHHHHHHHHhcCCCCeEEEEcCCCCHHHHHHHHhc
Confidence 4557777732 1234566666666679999999999999999887763
No 70
>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=69.74 E-value=3.1 Score=44.39 Aligned_cols=69 Identities=17% Similarity=0.256 Sum_probs=39.7
Q ss_pred CeEEeecCCcchhhHHHHHHHHH---cCCCcc-------ccCCCCCCCCCCCccccccccccCCCCCCC-CCceeeecCC
Q 004523 574 DTIVDFCCGANDFSCMMKVKLEQ---MGKSCS-------FRNYDLIQPKNDFSFEKRDWMTVRPEELPD-GSQLIMGLNP 642 (747)
Q Consensus 574 d~~vd~~cg~~~f~~l~~~~~~~---~~~~~~-------~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~-g~~li~glnp 642 (747)
..|+|++||+..+...+...... +|-+.+ -+|.....-.+...|...||+.. ++. .=.+|++ ||
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 68999999999998877664321 011110 01211111124578888999763 232 2346666 99
Q ss_pred Ccchh
Q 004523 643 PFGVK 647 (747)
Q Consensus 643 pfg~~ 647 (747)
||--.
T Consensus 191 Pyi~~ 195 (284)
T TIGR00536 191 PYIDE 195 (284)
T ss_pred CCCCc
Confidence 98533
No 71
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=69.44 E-value=2.3 Score=37.47 Aligned_cols=34 Identities=24% Similarity=0.617 Sum_probs=27.4
Q ss_pred CccccccccCCCCCCCCCCceecccCCCcCCCCcccccccc
Q 004523 147 EHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKL 187 (747)
Q Consensus 147 ~h~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~ 187 (747)
...|.+|++.+ +-.+.|....|.+.||+.|....
T Consensus 36 ~~~C~~C~~~~-------Ga~i~C~~~~C~~~fH~~CA~~~ 69 (90)
T PF13771_consen 36 KLKCSICKKKG-------GACIGCSHPGCSRSFHVPCARKA 69 (90)
T ss_pred CCCCcCCCCCC-------CeEEEEeCCCCCcEEChHHHccC
Confidence 35799999761 34789999999999999998654
No 72
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=69.37 E-value=1.2 Score=44.69 Aligned_cols=104 Identities=27% Similarity=0.369 Sum_probs=57.5
Q ss_pred chhhhHHHHHhhhccccc--cCCeEEeecCCcchhh--HHHHHHHHHcCCCccccCCCCCCCCCCCccc------ccccc
Q 004523 554 TKVEKLKEIVDRLHWYVR--SGDTIVDFCCGANDFS--CMMKVKLEQMGKSCSFRNYDLIQPKNDFSFE------KRDWM 623 (747)
Q Consensus 554 t~~ekl~~i~~~l~~~~~--~gd~~vd~~cg~~~f~--~l~~~~~~~~~~~~~~kn~d~~~~~~~~~f~------~~~w~ 623 (747)
|.++-....+.-.|=..- .|.-+.|++||-...| .-|-+-=.=.|-+..=-...++ ..|-..|| .-|..
T Consensus 28 T~p~iAasM~~~Ih~TygdiEgkkl~DLgcgcGmLs~a~sm~~~e~vlGfDIdpeALEIf-~rNaeEfEvqidlLqcdil 106 (185)
T KOG3420|consen 28 TRPHIAASMLYTIHNTYGDIEGKKLKDLGCGCGMLSIAFSMPKNESVLGFDIDPEALEIF-TRNAEEFEVQIDLLQCDIL 106 (185)
T ss_pred CcHHHHHHHHHHHHhhhccccCcchhhhcCchhhhHHHhhcCCCceEEeeecCHHHHHHH-hhchHHhhhhhheeeeecc
Confidence 556655556666665554 4778999999977655 2222111111111111111112 24555555 22322
Q ss_pred ccCCCCCCCCCceeeecCCCcchhhhhH-HHHHHhhhhc
Q 004523 624 TVRPEELPDGSQLIMGLNPPFGVKASLA-NKFISQALKF 661 (747)
Q Consensus 624 ~~~~~~l~~g~~li~glnppfg~~~~~a-~kfi~~~~~f 661 (747)
+ .++..|-.-.--.|||||-+-.-| -+|+++||+.
T Consensus 107 d---le~~~g~fDtaviNppFGTk~~~aDm~fv~~al~~ 142 (185)
T KOG3420|consen 107 D---LELKGGIFDTAVINPPFGTKKKGADMEFVSAALKV 142 (185)
T ss_pred c---hhccCCeEeeEEecCCCCcccccccHHHHHHHHHH
Confidence 2 344557666677899999876434 5899999986
No 73
>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=69.31 E-value=3 Score=44.71 Aligned_cols=72 Identities=19% Similarity=0.296 Sum_probs=41.8
Q ss_pred ccCCeEEeecCCcchhhHHHHHHHH---HcCCCcc-------ccCCCCCCCCCCCccccccccccCCCCCCCCC-ceeee
Q 004523 571 RSGDTIVDFCCGANDFSCMMKVKLE---QMGKSCS-------FRNYDLIQPKNDFSFEKRDWMTVRPEELPDGS-QLIMG 639 (747)
Q Consensus 571 ~~gd~~vd~~cg~~~f~~l~~~~~~---~~~~~~~-------~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~-~li~g 639 (747)
.++..|+|++||+..+...+.++.. -+|.+.+ -+|.....-.+...|...|+++. ++.++ -+|+.
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 1111111 11211111124577888888653 33332 46665
Q ss_pred cCCCcchh
Q 004523 640 LNPPFGVK 647 (747)
Q Consensus 640 lnppfg~~ 647 (747)
||||...
T Consensus 196 -NPPy~~~ 202 (284)
T TIGR03533 196 -NPPYVDA 202 (284)
T ss_pred -CCCCCCc
Confidence 9998643
No 74
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=68.48 E-value=3.8 Score=42.23 Aligned_cols=46 Identities=20% Similarity=0.460 Sum_probs=35.7
Q ss_pred ecccccccCccccccccCCCCCCCCCCceecccCCCcCCCCccccccc
Q 004523 139 LCQNCVYQEHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSK 186 (747)
Q Consensus 139 ~C~eC~~~~h~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~ 186 (747)
.|.-|..+...|-+|...+.+-......+.+| ..|+..||..|...
T Consensus 144 ~C~lC~~kGfiCe~C~~~~~IfPF~~~~~~~C--~~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 144 SCELCQQKGFICEICNSDDIIFPFQIDTTVRC--PKCKSVFHKSCFRK 189 (202)
T ss_pred HhHHHHhCCCCCccCCCCCCCCCCCCCCeeeC--CcCccccchhhcCC
Confidence 68888888888999987654432334578999 89999999999764
No 75
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=66.74 E-value=4.3 Score=47.91 Aligned_cols=77 Identities=27% Similarity=0.301 Sum_probs=42.8
Q ss_pred cccccccCCC--CCeeecCCccccccccccccCccccccccCCcccccCCCCceecccccccCccccccccCCCCCCCCC
Q 004523 87 FAVCAICDDG--GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQEHQCFACGMLGSSDKSSS 164 (747)
Q Consensus 87 DdVCaIC~dg--GeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~~h~CfvCgk~Gssd~ss~ 164 (747)
.-.|..|... |+.|. .|...||..|..-....| .|+-.. .-..|.+=.++.+.|+.|.+
T Consensus 16 ~i~c~~c~~kc~gevlr---v~d~~fhi~cf~c~~cg~-~la~~g------ff~k~~~~~ygt~~c~~~~~--------- 76 (670)
T KOG1044|consen 16 GIKCDKCRKKCSGEVLR---VNDNHFHINCFQCKKCGR-NLAEGG------FFTKPENRLYGTDDCRAFVE--------- 76 (670)
T ss_pred ceehhhhCCccccceeE---eeccccceeeeeccccCC-Cccccc------ceecccceeecccchhhhcc---------
Confidence 4569999864 66554 467899999865433333 222111 11122222223355666653
Q ss_pred CceecccCCCcCCCCccccccc
Q 004523 165 QEVFPCVSATCGQFYHPECVSK 186 (747)
Q Consensus 165 aeV~kCsv~~CGKfYH~~CL~~ 186 (747)
++|+ ..-|++||+.|..-
T Consensus 77 gevv----sa~gktyh~~cf~c 94 (670)
T KOG1044|consen 77 GEVV----STLGKTYHPKCFSC 94 (670)
T ss_pred ceeE----ecccceecccccee
Confidence 2332 56799999998643
No 76
>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=66.63 E-value=5 Score=40.62 Aligned_cols=37 Identities=14% Similarity=0.163 Sum_probs=25.3
Q ss_pred hhhHHH-HHhhhccccccCCeEEeecCCcchhhHHHHHH
Q 004523 556 VEKLKE-IVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 556 ~ekl~~-i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
.++++| +..-|.-+ ..|..|+|++||+..|.-..-.+
T Consensus 33 ~~~vrea~f~~l~~~-~~g~~vLDLfaGsG~lglea~sr 70 (189)
T TIGR00095 33 TRVVRELFFNILRPE-IQGAHLLDVFAGSGLLGEEALSR 70 (189)
T ss_pred hHHHHHHHHHHHHHh-cCCCEEEEecCCCcHHHHHHHhC
Confidence 445554 45544333 35899999999999998776554
No 77
>COG0286 HsdM Type I restriction-modification system methyltransferase subunit [Defense mechanisms]
Probab=65.01 E-value=7.4 Score=45.18 Aligned_cols=49 Identities=22% Similarity=0.269 Sum_probs=43.6
Q ss_pred ccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcC
Q 004523 548 SFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMG 598 (747)
Q Consensus 548 s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~ 598 (747)
+.|.+||+.+-.+=||+.|-. +++++|.|.+||+..|-....+.+.+..
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 789999999988889999877 8999999999999999988888876544
No 78
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=64.75 E-value=3.8 Score=44.65 Aligned_cols=65 Identities=20% Similarity=0.408 Sum_probs=39.9
Q ss_pred CeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCC--------------CCCCCCccccccccccCCCCCCCCC-ceee
Q 004523 574 DTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLI--------------QPKNDFSFEKRDWMTVRPEELPDGS-QLIM 638 (747)
Q Consensus 574 d~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~--------------~~~~~~~f~~~~w~~~~~~~l~~g~-~li~ 638 (747)
.+|+|++||+..++..+..+.. ....--.|+. .-.+...|...||.+. +|.++ -+|+
T Consensus 135 ~~VLDlG~GsG~iai~la~~~p----~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~----l~~~~fDlIv 206 (307)
T PRK11805 135 TRILDLCTGSGCIAIACAYAFP----DAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAA----LPGRRYDLIV 206 (307)
T ss_pred CEEEEEechhhHHHHHHHHHCC----CCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhh----CCCCCccEEE
Confidence 7899999999999988876431 1112122221 1124577888887653 33332 4666
Q ss_pred ecCCCcchh
Q 004523 639 GLNPPFGVK 647 (747)
Q Consensus 639 glnppfg~~ 647 (747)
. ||||--.
T Consensus 207 s-NPPyi~~ 214 (307)
T PRK11805 207 S-NPPYVDA 214 (307)
T ss_pred E-CCCCCCc
Confidence 6 9998643
No 79
>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=64.62 E-value=7.3 Score=39.12 Aligned_cols=68 Identities=31% Similarity=0.470 Sum_probs=39.3
Q ss_pred HHHcCCCccccCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhh-cCC-cEEEEecC
Q 004523 594 LEQMGKSCSFRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALK-FKP-KLIVLIVP 671 (747)
Q Consensus 594 ~~~~~~~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~-f~p-~~~~li~p 671 (747)
-...|.. .|.-||.-.|..- |.+| +|+..+|-.||||- ....+.|+..-+-- .+| --||++++
T Consensus 60 F~~~~~~-~F~fyD~~~p~~~------------~~~l-~~~~d~vv~DPPFl-~~ec~~k~a~ti~~L~k~~~kii~~Tg 124 (162)
T PF10237_consen 60 FEQFGGD-EFVFYDYNEPEEL------------PEEL-KGKFDVVVIDPPFL-SEECLTKTAETIRLLLKPGGKIILCTG 124 (162)
T ss_pred HHhcCCc-ceEECCCCChhhh------------hhhc-CCCceEEEECCCCC-CHHHHHHHHHHHHHHhCccceEEEecH
Confidence 3334544 5667888776332 5566 78999999999994 33333333222211 123 24567777
Q ss_pred ccccc
Q 004523 672 QETRR 676 (747)
Q Consensus 672 ~~~~~ 676 (747)
.+.+.
T Consensus 125 ~~~~~ 129 (162)
T PF10237_consen 125 EEMEE 129 (162)
T ss_pred HHHHH
Confidence 66654
No 80
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=64.47 E-value=7.4 Score=40.67 Aligned_cols=43 Identities=26% Similarity=0.351 Sum_probs=39.6
Q ss_pred hhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcCC
Q 004523 556 VEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGK 599 (747)
Q Consensus 556 ~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~ 599 (747)
..||.||.+|. -.+.+|+.|||+++.=..||+...+++...|+
T Consensus 30 a~KL~el~~k~-~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ 72 (205)
T COG0293 30 AYKLLELNEKF-KLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGK 72 (205)
T ss_pred HHHHHHHHHhc-CeecCCCEEEEcCCCCCcHHHHHHHHhCCCCc
Confidence 56999999998 78899999999999999999999999888775
No 81
>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase. Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme
Probab=63.85 E-value=7.5 Score=39.79 Aligned_cols=51 Identities=12% Similarity=0.036 Sum_probs=43.7
Q ss_pred cccccccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHH
Q 004523 543 GMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 543 g~ry~s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
|.+|+.-+|+..-....-+.+.++...+.+++.|+|+-||...+...|.+.
T Consensus 14 g~~~~~rn~~~~~~~~~~~~~~~~l~~~~~~~~VLDiGCG~G~~~~~L~~~ 64 (204)
T TIGR03587 14 GKEYIDRNSRQSLVAAKLAMFARALNRLPKIASILELGANIGMNLAALKRL 64 (204)
T ss_pred cchhhhccccHHHHHHHHHHHHHHHHhcCCCCcEEEEecCCCHHHHHHHHh
Confidence 678999999887777777777777788889999999999999999988764
No 82
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=63.60 E-value=5.5 Score=34.53 Aligned_cols=38 Identities=24% Similarity=0.542 Sum_probs=15.9
Q ss_pred cccccccCCCCCCCCCCceecccCCCcCCCCccccccccC
Q 004523 149 QCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLL 188 (747)
Q Consensus 149 ~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~l 188 (747)
.|.+|...-..+ .......|....|++.||..||..|+
T Consensus 4 ~C~IC~~~~~~~--~~~p~~~C~n~~C~~~fH~~CL~~wf 41 (70)
T PF11793_consen 4 ECGICYSYRLDD--GEIPDVVCPNPSCGKKFHLLCLSEWF 41 (70)
T ss_dssp S-SSS--SS-TT-------B--S-TT----B-SGGGHHHH
T ss_pred CCCcCCcEecCC--CCcCceEcCCcccCCHHHHHHHHHHH
Confidence 577887643211 12346889889999999999999885
No 83
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=63.53 E-value=8.8 Score=44.07 Aligned_cols=80 Identities=18% Similarity=0.424 Sum_probs=44.4
Q ss_pred HHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCCC------------CCCCccccccccccC
Q 004523 559 LKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQP------------KNDFSFEKRDWMTVR 626 (747)
Q Consensus 559 l~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~------------~~~~~f~~~~w~~~~ 626 (747)
.+.+++.+.=.+.++.+|+|++||+..++..+..+.. .+..--.|+.+. ..+..|...||++..
T Consensus 238 TE~LVe~aL~~l~~~~rVLDLGcGSG~IaiaLA~~~p----~a~VtAVDiS~~ALe~AreNa~~~g~rV~fi~gDl~e~~ 313 (423)
T PRK14966 238 TEHLVEAVLARLPENGRVWDLGTGSGAVAVTVALERP----DAFVRASDISPPALETARKNAADLGARVEFAHGSWFDTD 313 (423)
T ss_pred HHHHHHHhhhccCCCCEEEEEeChhhHHHHHHHHhCC----CCEEEEEECCHHHHHHHHHHHHHcCCcEEEEEcchhccc
Confidence 3444554433355778999999999999876654321 111111111110 124678888886542
Q ss_pred CCCCC-CCC-ceeeecCCCcch
Q 004523 627 PEELP-DGS-QLIMGLNPPFGV 646 (747)
Q Consensus 627 ~~~l~-~g~-~li~glnppfg~ 646 (747)
+| .++ -+|+. ||||-.
T Consensus 314 ---l~~~~~FDLIVS-NPPYI~ 331 (423)
T PRK14966 314 ---MPSEGKWDIIVS-NPPYIE 331 (423)
T ss_pred ---cccCCCccEEEE-CCCCCC
Confidence 12 233 35554 999854
No 84
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=61.01 E-value=4.4 Score=45.37 Aligned_cols=49 Identities=18% Similarity=0.395 Sum_probs=34.2
Q ss_pred ccccccccCCCCCCCCCCceecccCCCcCCCCccccccccCCCCchhHHHHHHHHHhcCCcccCCCcccccCcCCcc
Q 004523 148 HQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSED 224 (747)
Q Consensus 148 h~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~l~P~~e~~a~~L~~ri~~g~~F~CPlH~C~~Ck~~ed 224 (747)
..|.+|-+.-. .+..+.. ..|.+.||..|+..|+.. + +|.|.+|+++-.
T Consensus 230 ~~CaIClEdY~----~GdklRi---LPC~H~FH~~CIDpWL~~--------------------~-r~~CPvCK~di~ 278 (348)
T KOG4628|consen 230 DTCAICLEDYE----KGDKLRI---LPCSHKFHVNCIDPWLTQ--------------------T-RTFCPVCKRDIR 278 (348)
T ss_pred ceEEEeecccc----cCCeeeE---ecCCCchhhccchhhHhh--------------------c-CccCCCCCCcCC
Confidence 37888875432 2334433 689999999999998632 1 578999998643
No 85
>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=60.43 E-value=5.4 Score=39.78 Aligned_cols=26 Identities=15% Similarity=0.396 Sum_probs=18.5
Q ss_pred cccccccCccccccccCCcccccCCCCceeccccccc
Q 004523 110 FHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ 146 (747)
Q Consensus 110 FH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~ 146 (747)
||+.|+++ .|+.. |.++|+|+.|...
T Consensus 2 ~H~~CL~P--------pl~~~---P~g~W~Cp~C~~~ 27 (148)
T cd04718 2 FHLCCLRP--------PLKEV---PEGDWICPFCEVE 27 (148)
T ss_pred cccccCCC--------CCCCC---CCCCcCCCCCcCC
Confidence 89997543 34332 5799999999953
No 86
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=59.99 E-value=46 Score=37.00 Aligned_cols=21 Identities=24% Similarity=0.510 Sum_probs=18.4
Q ss_pred CCeEEeecCCcchhhHHHHHH
Q 004523 573 GDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 573 gd~~vd~~cg~~~f~~l~~~~ 593 (747)
+..|+|+.||+..++..+.++
T Consensus 197 ~g~VLDlGCG~G~ls~~la~~ 217 (342)
T PRK09489 197 KGKVLDVGCGAGVLSAVLARH 217 (342)
T ss_pred CCeEEEeccCcCHHHHHHHHh
Confidence 458999999999999988875
No 87
>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase. This family consists exclusively of proteins believed to act as tRNA (uracil-5-)-methyltransferase. All members of far are proteobacterial. The seed alignment was taken directly from pfam05958 in Pfam 12.0, but higher cutoffs are used to select only functionally equivalent proteins. Homologous proteins excluded by the higher cutoff scores of this model include other uracil methyltransferases, such as RumA, active on rRNA.
Probab=59.94 E-value=5 Score=44.49 Aligned_cols=97 Identities=14% Similarity=0.254 Sum_probs=49.5
Q ss_pred CCeEEeecCCcchhhHHHHHHHHH-cCCC-------ccccCCCCCCCCCCCccccccccccCCC-----CCC--CC----
Q 004523 573 GDTIVDFCCGANDFSCMMKVKLEQ-MGKS-------CSFRNYDLIQPKNDFSFEKRDWMTVRPE-----ELP--DG---- 633 (747)
Q Consensus 573 gd~~vd~~cg~~~f~~l~~~~~~~-~~~~-------~~~kn~d~~~~~~~~~f~~~~w~~~~~~-----~l~--~g---- 633 (747)
++.|+|++||+..|+-.+.++... +|-+ .-=+|..+-.-. +..|...|....-+. .++ .|
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 0000 001222221111 255655554432221 110 11
Q ss_pred C--ceeeecCCCcchhhhhHHHHHHhhhhcCCcEEEEecCccc
Q 004523 634 S--QLIMGLNPPFGVKASLANKFISQALKFKPKLIVLIVPQET 674 (747)
Q Consensus 634 ~--~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~li~p~~~ 674 (747)
. .=++-|||| ++-+..++++.... ..++|.+=.-|.|
T Consensus 277 ~~~~d~v~lDPP---R~G~~~~~l~~l~~-~~~ivYvsC~p~t 315 (353)
T TIGR02143 277 SYNCSTIFVDPP---RAGLDPDTCKLVQA-YERILYISCNPET 315 (353)
T ss_pred cCCCCEEEECCC---CCCCcHHHHHHHHc-CCcEEEEEcCHHH
Confidence 0 134567999 46677788777666 2344444444444
No 88
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=59.07 E-value=12 Score=37.99 Aligned_cols=45 Identities=9% Similarity=0.290 Sum_probs=36.0
Q ss_pred cCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHH
Q 004523 549 FGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLE 595 (747)
Q Consensus 549 ~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~ 595 (747)
+|++++.+.-...+++.|- +++|+.|+|+.||+-.++..|-+...
T Consensus 56 ~~~~~~~p~~~~~~~~~l~--~~~~~~VLDiG~GsG~~a~~la~~~~ 100 (215)
T TIGR00080 56 YGQTISAPHMVAMMTELLE--LKPGMKVLEIGTGSGYQAAVLAEIVG 100 (215)
T ss_pred CCCEechHHHHHHHHHHhC--CCCcCEEEEECCCccHHHHHHHHHhC
Confidence 3677777766677777664 78999999999999999998887643
No 89
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=58.57 E-value=7.3 Score=49.14 Aligned_cols=66 Identities=24% Similarity=0.423 Sum_probs=45.6
Q ss_pred ccccccccCCCCCCCCCCceecccCCCcCCCCccccccccCCCCchhHHHHHHHHHhcCCcccCCCcccccCcCCccCCc
Q 004523 148 HQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLLHPDNESLAEELRERIAAGESFTCPVHKCFVCQQSEDMNV 227 (747)
Q Consensus 148 h~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~l~P~~e~~a~~L~~ri~~g~~F~CPlH~C~~Ck~~edk~~ 227 (747)
..|.+|.+-... .....+.| ..|+..+|..|.....-| ...| .|..|-++..+
T Consensus 220 ~~C~iC~~~~~~---n~n~ivfC--D~Cnl~VHq~Cygi~~ip---------------eg~W-----lCr~Cl~s~~~-- 272 (1051)
T KOG0955|consen 220 AVCCICLDGECQ---NSNVIVFC--DGCNLAVHQECYGIPFIP---------------EGQW-----LCRRCLQSPQR-- 272 (1051)
T ss_pred ccceeecccccC---CCceEEEc--CCCcchhhhhccCCCCCC---------------CCcE-----eehhhccCcCc--
Confidence 368888865432 22456678 899999999999843333 2345 56888887653
Q ss_pred cccceeecccccccccc
Q 004523 228 EDLQLAICRRCPKAYHR 244 (747)
Q Consensus 228 ~~~qL~~C~RCP~AYH~ 244 (747)
.+.|.-||.+=|.
T Consensus 273 ----~v~c~~cp~~~gA 285 (1051)
T KOG0955|consen 273 ----PVRCLLCPSKGGA 285 (1051)
T ss_pred ----ccceEeccCCCCc
Confidence 4889999987554
No 90
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=57.97 E-value=22 Score=41.87 Aligned_cols=129 Identities=22% Similarity=0.389 Sum_probs=77.9
Q ss_pred cccccccccccccc-ccCcccchhhhHHHHHhhh--cccccc-CCeEEeecCCcchhhHHHHHHHHHc------------
Q 004523 534 DVYLAPFLHGMRYT-SFGRHFTKVEKLKEIVDRL--HWYVRS-GDTIVDFCCGANDFSCMMKVKLEQM------------ 597 (747)
Q Consensus 534 ~~~l~p~l~g~ry~-s~grhft~~ekl~~i~~~l--~~~~~~-gd~~vd~~cg~~~f~~l~~~~~~~~------------ 597 (747)
+.||-=-|.|-|++ |.|-+|-.---.-|++=++ -|--.+ +.+++|.|||+..|+--+-++-..+
T Consensus 341 ~~~I~E~l~~ltF~iSp~AFFQ~Nt~~aevLys~i~e~~~l~~~k~llDv~CGTG~iglala~~~~~ViGvEi~~~aV~d 420 (534)
T KOG2187|consen 341 DPYITESLLGLTFRISPGAFFQTNTSAAEVLYSTIGEWAGLPADKTLLDVCCGTGTIGLALARGVKRVIGVEISPDAVED 420 (534)
T ss_pred ccEEEeecCCeEEEECCchhhccCcHHHHHHHHHHHHHhCCCCCcEEEEEeecCCceehhhhccccceeeeecChhhcch
Confidence 44555567777776 8888886543333333222 344444 4568999999999987765543222
Q ss_pred -CCC---ccccCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcC-CcEEEEecC
Q 004523 598 -GKS---CSFRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFK-PKLIVLIVP 671 (747)
Q Consensus 598 -~~~---~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~-p~~~~li~p 671 (747)
.+. =.--|=+.|+-+.- |=|+.--+..-.+.+|++-+|||= +-+=.+||...+.++ |+.|+.|+=
T Consensus 421 A~~nA~~NgisNa~Fi~gqaE------~~~~sl~~~~~~~~~~v~iiDPpR---~Glh~~~ik~l~~~~~~~rlvyvSC 490 (534)
T KOG2187|consen 421 AEKNAQINGISNATFIVGQAE------DLFPSLLTPCCDSETLVAIIDPPR---KGLHMKVIKALRAYKNPRRLVYVSC 490 (534)
T ss_pred hhhcchhcCccceeeeecchh------hccchhcccCCCCCceEEEECCCc---ccccHHHHHHHHhccCccceEEEEc
Confidence 111 11234444543111 222222232223566999999985 558889999999999 888888763
No 91
>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=57.26 E-value=12 Score=34.78 Aligned_cols=35 Identities=20% Similarity=0.495 Sum_probs=29.3
Q ss_pred hHHHHHhhhccccccCCeEEeecCCcchhhHHHHH
Q 004523 558 KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 592 (747)
Q Consensus 558 kl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~ 592 (747)
.+.+++.++..+..++..|+|+-||...|...|.+
T Consensus 8 ~~~~~~~~~~~~~~~~~~vLDiGcG~G~~~~~l~~ 42 (161)
T PF13489_consen 8 AYADLLERLLPRLKPGKRVLDIGCGTGSFLRALAK 42 (161)
T ss_dssp CHHHHHHHHHTCTTTTSEEEEESSTTSHHHHHHHH
T ss_pred HHHHHHHHHhcccCCCCEEEEEcCCCCHHHHHHHH
Confidence 34566777776688999999999999999999965
No 92
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=57.11 E-value=11 Score=42.06 Aligned_cols=37 Identities=8% Similarity=0.285 Sum_probs=26.9
Q ss_pred hhHHHHHhhhcccccc-CCeEEeecCCcchhhHHHHHH
Q 004523 557 EKLKEIVDRLHWYVRS-GDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 557 ekl~~i~~~l~~~~~~-gd~~vd~~cg~~~f~~l~~~~ 593 (747)
+-.+.+++.+.-++.. +..|+|++||+..|+-.+.++
T Consensus 190 ~~~e~l~~~v~~~~~~~~~~vLDl~~G~G~~sl~la~~ 227 (362)
T PRK05031 190 AVNEKMLEWALDATKGSKGDLLELYCGNGNFTLALARN 227 (362)
T ss_pred HHHHHHHHHHHHHhhcCCCeEEEEeccccHHHHHHHhh
Confidence 3456666666556653 457999999999999877653
No 93
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=55.29 E-value=7.5 Score=32.72 Aligned_cols=33 Identities=30% Similarity=0.779 Sum_probs=25.8
Q ss_pred ccccccccCCCCCCCCCCceecccCCCcCCCCccccccc
Q 004523 148 HQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSK 186 (747)
Q Consensus 148 h~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~ 186 (747)
..|.+|++.-. .+.+++.| +.||.-||..|..+
T Consensus 6 ~~C~~Cg~~~~----~~dDiVvC--p~CgapyHR~C~~~ 38 (54)
T PF14446_consen 6 CKCPVCGKKFK----DGDDIVVC--PECGAPYHRDCWEK 38 (54)
T ss_pred ccChhhCCccc----CCCCEEEC--CCCCCcccHHHHhh
Confidence 35889987532 25688999 89999999999754
No 94
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=54.22 E-value=16 Score=37.02 Aligned_cols=44 Identities=11% Similarity=0.203 Sum_probs=35.5
Q ss_pred cCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHH
Q 004523 549 FGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 594 (747)
Q Consensus 549 ~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~ 594 (747)
+|++++.+.-+..+.+.|. +.+|+.|+|+.||+..++.+|.+.+
T Consensus 51 ~~~~~~~p~~~~~~~~~l~--~~~~~~VLDiG~GsG~~~~~la~~~ 94 (205)
T PRK13944 51 AGATISAPHMVAMMCELIE--PRPGMKILEVGTGSGYQAAVCAEAI 94 (205)
T ss_pred CCCEechHHHHHHHHHhcC--CCCCCEEEEECcCccHHHHHHHHhc
Confidence 5677777777777777664 5789999999999999998887755
No 95
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=54.15 E-value=19 Score=43.60 Aligned_cols=30 Identities=23% Similarity=0.472 Sum_probs=21.9
Q ss_pred HHHHhhhccccccCCeEEeecCCcchhhHHH
Q 004523 560 KEIVDRLHWYVRSGDTIVDFCCGANDFSCMM 590 (747)
Q Consensus 560 ~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~ 590 (747)
-.|+..-.|. .+|+.+||..||+.+|...-
T Consensus 179 aa~l~~a~w~-~~~~~l~DP~CGSGTilIEA 208 (702)
T PRK11783 179 AAILLRSGWP-QEGTPLLDPMCGSGTLLIEA 208 (702)
T ss_pred HHHHHHcCCC-CCCCeEEccCCCccHHHHHH
Confidence 3445444563 57899999999999998654
No 96
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=53.93 E-value=14 Score=37.79 Aligned_cols=45 Identities=9% Similarity=0.338 Sum_probs=38.8
Q ss_pred ccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHH
Q 004523 548 SFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 594 (747)
Q Consensus 548 s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~ 594 (747)
.+|++-+.+.-+..+++.|. +.+|++|+|+.||+-.++.+|.+.+
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 46888888998888888886 6899999999999999998887754
No 97
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=53.77 E-value=6.9 Score=32.94 Aligned_cols=32 Identities=31% Similarity=0.822 Sum_probs=24.6
Q ss_pred ccccCcCCccCCccccceeecccccccccccCCCC
Q 004523 215 KCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPT 249 (747)
Q Consensus 215 ~C~~Ck~~edk~~~~~qL~~C~RCP~AYH~kCLP~ 249 (747)
.|..|++.-. .+..+++|..|.+-||+.|-..
T Consensus 7 ~C~~Cg~~~~---~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 7 KCPVCGKKFK---DGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cChhhCCccc---CCCCEEECCCCCCcccHHHHhh
Confidence 5788887532 1346899999999999999754
No 98
>PRK14968 putative methyltransferase; Provisional
Probab=52.83 E-value=38 Score=32.70 Aligned_cols=38 Identities=11% Similarity=0.162 Sum_probs=25.9
Q ss_pred chhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHH
Q 004523 554 TKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 554 t~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
|..+-..-+++.+. ..+|+.|+|+.||...++..+-++
T Consensus 7 ~p~~~~~~l~~~~~--~~~~~~vLd~G~G~G~~~~~l~~~ 44 (188)
T PRK14968 7 EPAEDSFLLAENAV--DKKGDRVLEVGTGSGIVAIVAAKN 44 (188)
T ss_pred CcchhHHHHHHhhh--ccCCCEEEEEccccCHHHHHHHhh
Confidence 33333344444443 278999999999999998887654
No 99
>PF05869 Dam: DNA N-6-adenine-methyltransferase (Dam); InterPro: IPR008593 This family consists of several bacterial and phage DNA N-6-adenine-methyltransferase (Dam) like sequences [].; GO: 0003677 DNA binding, 0009007 site-specific DNA-methyltransferase (adenine-specific) activity, 0032775 DNA methylation on adenine
Probab=51.21 E-value=21 Score=36.50 Aligned_cols=132 Identities=19% Similarity=0.301 Sum_probs=68.5
Q ss_pred ccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCCCCCCCccccccccccCCCCCC
Q 004523 552 HFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKNDFSFEKRDWMTVRPEELP 631 (747)
Q Consensus 552 hft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~ 631 (747)
--|+++-+..+-..+++| -+|.|+...+= .|. +-|. ... +.=..||-..-.
T Consensus 14 W~TP~~lf~~l~~~fg~f------~LD~aa~~~Na-------------~~~-~y~T--~~~---DgL~~~W~~~~~---- 64 (181)
T PF05869_consen 14 WQTPPELFDALNREFGPF------DLDPAASDENA-------------KCP-RYYT--EED---DGLAQDWSAELM---- 64 (181)
T ss_pred CcCCHHHHHHHHHHhCCc------cccccCCCCCh-------------hhh-hhcC--ccc---cHhhhhhhhccc----
Confidence 357888888888888875 46787654321 121 1111 111 223345542211
Q ss_pred CCCceeeecCCCcchhhhhHHHHHHhhhhcC---CcEEEEecCccccccccccccceeeccc---ccccCc-ccccCCcc
Q 004523 632 DGSQLIMGLNPPFGVKASLANKFISQALKFK---PKLIVLIVPQETRRLDQKASYNLIWEDN---EVLSGK-SFYLPGSL 704 (747)
Q Consensus 632 ~g~~li~glnppfg~~~~~a~kfi~~~~~f~---p~~~~li~p~~~~~~~~~~~y~l~~~d~---~~~~g~-~f~~pg~~ 704 (747)
|. | =+||||+.. ...||.||.+.. -..++|++|..+.. .=|+.+++.. .+|.|. .|+.|
T Consensus 65 -g~--v-f~NPPYs~~---i~~wv~Ka~~e~~~g~~~VvLL~~~~~st----~W~~~~~~~a~~I~fi~GRl~F~~p--- 130 (181)
T PF05869_consen 65 -GR--V-FCNPPYSRG---IGPWVEKAIEEYERGNQTVVLLPPADTST----WWFEDALENADEIRFIRGRLKFINP--- 130 (181)
T ss_pred -ce--E-EecCchhhh---HHHHHHHHHHHHHhCCcEEEEEeccCCCc----cHHHHHHhcCCEEEEecCceeeccC---
Confidence 22 3 359999942 667777777532 24466666665443 1255444222 234443 56666
Q ss_pred ccCcccccccccCCCceeeeccc
Q 004523 705 DVHDNQLEQWNCKPPPLYLWSRA 727 (747)
Q Consensus 705 d~~~~~~~~~n~~~p~~~lws~~ 727 (747)
+.|+.-.+.|..|-.|.+|.-.
T Consensus 131 -~~g~~~~~~~~~gs~l~if~p~ 152 (181)
T PF05869_consen 131 -VTGKEGKNGNPKGSMLVIFRPT 152 (181)
T ss_pred -CCCccCCCCCCCceEEEEECCC
Confidence 2234324556666666666543
No 100
>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=49.84 E-value=9.6 Score=37.57 Aligned_cols=49 Identities=24% Similarity=0.342 Sum_probs=24.9
Q ss_pred ccccccccccccC----cccc-hhhhHHHHHhhh-ccccccCCeEEeecCCcchhhHH
Q 004523 538 APFLHGMRYTSFG----RHFT-KVEKLKEIVDRL-HWYVRSGDTIVDFCCGANDFSCM 589 (747)
Q Consensus 538 ~p~l~g~ry~s~g----rhft-~~ekl~~i~~~l-~~~~~~gd~~vd~~cg~~~f~~l 589 (747)
.+.+...++.+.+ .|-| +|.+ ++++| ..+-.+||+|+|+.+||.+=.-.
T Consensus 154 ~~~~~~~~~~~~~~~~~~h~~~kP~~---l~~~lI~~~t~~gdiVlDpF~GSGTT~~a 208 (231)
T PF01555_consen 154 FSIIPPSRKNSKGNTKGKHPTQKPVE---LIERLIKASTNPGDIVLDPFAGSGTTAVA 208 (231)
T ss_dssp -SEEETTSTT--CHH----TT-S-HH---HHHHHHHHHS-TT-EEEETT-TTTHHHHH
T ss_pred cccccccccccccccccceeecCCHH---HHHHHHHhhhccceeeehhhhccChHHHH
Confidence 3455555555543 4544 3333 33333 46789999999999999875443
No 101
>COG2813 RsmC 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]
Probab=48.56 E-value=45 Score=36.88 Aligned_cols=193 Identities=23% Similarity=0.334 Sum_probs=99.5
Q ss_pred CCCCCChHHHHHHHHHhhccCCCCchHHhhccCCCCcccccCcccccccceecccchhhHHHHHHHHHHhhC--CCChhh
Q 004523 436 SQPSVDAEMEKELLALIKDSTSSFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDG--GCDIED 513 (747)
Q Consensus 436 s~~~~d~~~e~r~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~i~~g~~~~sv~a~~~al~~l~~--g~~~~~ 513 (747)
-.|.-.++.|-+|..+++...+ -| ..+..|+.+.-|. .+.+||++ |-+-.|
T Consensus 44 ~~pK~~~e~e~qLa~ll~~~~~--------------g~----------~i~v~g~~~~g~~---s~~k~l~~~~~~~~~~ 96 (300)
T COG2813 44 YWPKHKAEAEFQLAQLLARLPP--------------GG----------EIVVVGEKRDGVR---SAEKMLEKYGGPTKTD 96 (300)
T ss_pred EccCchHHHHHHHHHHHhhCCC--------------CC----------eEEEEecccchHH---HHHHHHHHhcCccccc
Confidence 3566678999999888763322 12 4566677666554 45666666 222233
Q ss_pred hhhcC--------ChhhhhhHHHHhhccccccccccccccccccCcccch--hhhH-HHHHhhhccccccCCeEEeecCC
Q 004523 514 AKAVC--------PPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTK--VEKL-KEIVDRLHWYVRSGDTIVDFCCG 582 (747)
Q Consensus 514 aka~c--------~p~~l~q~~~~~~kl~~~l~p~l~g~ry~s~grhft~--~ekl-~~i~~~l~~~~~~gd~~vd~~cg 582 (747)
++-.| +|.+..-+-.|+..++ .++.+.++--=-|.+ ++.= +=.++.| -...+..|+||.||
T Consensus 97 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~t~pGVFS~~~lD~GS~lLl~~l--~~~~~~~vlDlGCG 168 (300)
T COG2813 97 SARHCMRLHYYSENPPPFADEPEWKVYLL------GHELTFKTLPGVFSRDKLDKGSRLLLETL--PPDLGGKVLDLGCG 168 (300)
T ss_pred hHhhcceeEeecCCCCcccchhhhhhhhc------cCceEEEeCCCCCcCCCcChHHHHHHHhC--CccCCCcEEEeCCC
Confidence 33333 2333334444443332 345555533333332 2211 1112222 22334499999999
Q ss_pred cchhhHHHHHHHHHcCCCc---ccc-------CCCCCCCCCCCccccccccccCCCCCCCCCceeeecCCCcch--hh--
Q 004523 583 ANDFSCMMKVKLEQMGKSC---SFR-------NYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNPPFGV--KA-- 648 (747)
Q Consensus 583 ~~~f~~l~~~~~~~~~~~~---~~k-------n~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnppfg~--~~-- 648 (747)
+..-+-.|.++.-+.+..+ ++. |--.=.++|. + =|++--.+....--.+|+. ||||-. ..
T Consensus 169 ~Gvlg~~la~~~p~~~vtmvDvn~~Av~~ar~Nl~~N~~~~~--~---v~~s~~~~~v~~kfd~Iis-NPPfh~G~~v~~ 242 (300)
T COG2813 169 YGVLGLVLAKKSPQAKLTLVDVNARAVESARKNLAANGVENT--E---VWASNLYEPVEGKFDLIIS-NPPFHAGKAVVH 242 (300)
T ss_pred ccHHHHHHHHhCCCCeEEEEecCHHHHHHHHHhHHHcCCCcc--E---EEEecccccccccccEEEe-CCCccCCcchhH
Confidence 9999999988664333332 221 2111222332 1 1333333333443346776 999953 33
Q ss_pred hhHHHHHHhhhhc---CCcEEEEe
Q 004523 649 SLANKFISQALKF---KPKLIVLI 669 (747)
Q Consensus 649 ~~a~kfi~~~~~f---~p~~~~li 669 (747)
.+|.+||..|..+ .=.|-|+|
T Consensus 243 ~~~~~~i~~A~~~L~~gGeL~iVa 266 (300)
T COG2813 243 SLAQEIIAAAARHLKPGGELWIVA 266 (300)
T ss_pred HHHHHHHHHHHHhhccCCEEEEEE
Confidence 5677999888643 33455554
No 102
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=48.48 E-value=22 Score=37.60 Aligned_cols=51 Identities=16% Similarity=0.362 Sum_probs=36.4
Q ss_pred cccccccc---------ccCcccchh---hhHHHHHhhhccccccCCeEEeecCCcchhhHHHHH
Q 004523 540 FLHGMRYT---------SFGRHFTKV---EKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 592 (747)
Q Consensus 540 ~l~g~ry~---------s~grhft~~---ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~ 592 (747)
||.-.+|| .||..|-.+ +-..+++++| -+.+|..|+|+.||...++..+-+
T Consensus 10 ~~~~~~y~~~~~~~~e~~~g~~~~~~gg~~~~~~~l~~l--~l~~~~~VLDiGcG~G~~a~~la~ 72 (263)
T PTZ00098 10 YLENNQYSDEGIKAYEFIFGEDYISSGGIEATTKILSDI--ELNENSKVLDIGSGLGGGCKYINE 72 (263)
T ss_pred hhhccccccccchhHHHHhCCCCCCCCchHHHHHHHHhC--CCCCCCEEEEEcCCCChhhHHHHh
Confidence 45555555 356555555 4566777775 578999999999999998877743
No 103
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=47.49 E-value=15 Score=43.28 Aligned_cols=33 Identities=33% Similarity=0.522 Sum_probs=29.0
Q ss_pred CCCCCcccccccCCCCCeeecCCccccccccccc
Q 004523 82 KDENYFAVCAICDDGGDVTFCDGRCLRSFHATIT 115 (747)
Q Consensus 82 ~dd~~DdVCaIC~dgGeLLcCdG~C~RsFH~~C~ 115 (747)
...+.+.+|+-|.-+|..+.|+ .|.|+||-.|.
T Consensus 55 ~~~N~d~~cfechlpg~vl~c~-vc~Rs~h~~c~ 87 (588)
T KOG3612|consen 55 PSSNIDPFCFECHLPGAVLKCI-VCHRSFHENCQ 87 (588)
T ss_pred cccCCCcccccccCCcceeeee-hhhcccccccc
Confidence 3556689999999999999999 79999999974
No 104
>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=46.04 E-value=14 Score=36.28 Aligned_cols=38 Identities=21% Similarity=0.293 Sum_probs=31.1
Q ss_pred hhHHHHHhhhccccc-cCCeEEeecCCcchhhHHHHHHH
Q 004523 557 EKLKEIVDRLHWYVR-SGDTIVDFCCGANDFSCMMKVKL 594 (747)
Q Consensus 557 ekl~~i~~~l~~~~~-~gd~~vd~~cg~~~f~~l~~~~~ 594 (747)
.||.||.++..++-. .+.+|||+||+--.|+..+-+++
T Consensus 7 ~KL~ei~~~~~~~~~~~~~~vlDlG~aPGGws~~~~~~~ 45 (181)
T PF01728_consen 7 FKLYEIDEKFKIFKPGKGFTVLDLGAAPGGWSQVLLQRG 45 (181)
T ss_dssp HHHHHHHHTTSSS-TTTTEEEEEET-TTSHHHHHHHTST
T ss_pred HHHHHHHHHCCCCCcccccEEEEcCCcccceeeeeeecc
Confidence 499999999985533 45899999999999999998866
No 105
>PTZ00146 fibrillarin; Provisional
Probab=45.22 E-value=23 Score=38.93 Aligned_cols=59 Identities=15% Similarity=0.187 Sum_probs=40.6
Q ss_pred ccccccccccCccc--chhh---------hHH-HHHhhhc-cccccCCeEEeecCCcchhhHHHHHHHHHcC
Q 004523 540 FLHGMRYTSFGRHF--TKVE---------KLK-EIVDRLH-WYVRSGDTIVDFCCGANDFSCMMKVKLEQMG 598 (747)
Q Consensus 540 ~l~g~ry~s~grhf--t~~e---------kl~-~i~~~l~-~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~ 598 (747)
-+||.+..+++-.- ++.| ||- .|+.-|- .++.+|++|+|++||...|+..+-+.....|
T Consensus 87 ~vygek~~~~~~~~~~~~~eyR~w~p~rSKlaa~i~~g~~~l~IkpG~~VLDLGaG~G~~t~~lAdiVG~~G 158 (293)
T PTZ00146 87 SVYGEKRISVEDAEGGEKIEYRVWNPFRSKLAAAIIGGVANIPIKPGSKVLYLGAASGTTVSHVSDLVGPEG 158 (293)
T ss_pred ccccceEEeeccCCCCCcceeeeeCCcccHHHHHHHCCcceeccCCCCEEEEeCCcCCHHHHHHHHHhCCCC
Confidence 46677666655222 2323 776 5545553 5699999999999999999999888664333
No 106
>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=44.74 E-value=10 Score=39.81 Aligned_cols=43 Identities=28% Similarity=0.499 Sum_probs=19.6
Q ss_pred cccccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHH
Q 004523 545 RYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 592 (747)
Q Consensus 545 ry~s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~ 592 (747)
+--|||.|----.++.+++ -+.+|++|+|+|||..+++..+-+
T Consensus 25 ~~ls~g~~~~wr~~~~~~~-----~~~~g~~vLDv~~GtG~~~~~l~~ 67 (233)
T PF01209_consen 25 DLLSFGQDRRWRRKLIKLL-----GLRPGDRVLDVACGTGDVTRELAR 67 (233)
T ss_dssp ------------SHHHHHH-----T--S--EEEEET-TTSHHHHHHGG
T ss_pred cccCCcHHHHHHHHHHhcc-----CCCCCCEEEEeCCChHHHHHHHHH
Confidence 3357887754444555443 368899999999999999987744
No 107
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=44.23 E-value=24 Score=38.67 Aligned_cols=34 Identities=26% Similarity=0.520 Sum_probs=30.4
Q ss_pred hHHHHHhhhccccccCCeEEeecCCcchhhHHHHHH
Q 004523 558 KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 558 kl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
|++.|.++|+ +++|++|+|+=||-...+..|-++
T Consensus 60 k~~~~~~kl~--L~~G~~lLDiGCGWG~l~~~aA~~ 93 (283)
T COG2230 60 KLDLILEKLG--LKPGMTLLDIGCGWGGLAIYAAEE 93 (283)
T ss_pred HHHHHHHhcC--CCCCCEEEEeCCChhHHHHHHHHH
Confidence 8999999998 899999999999998888777654
No 108
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=44.10 E-value=78 Score=31.94 Aligned_cols=71 Identities=14% Similarity=0.288 Sum_probs=45.6
Q ss_pred ChhhhhhHHHHhhcccccccccccccccc------ccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHH
Q 004523 519 PPEILCQIFQWKRKLDVYLAPFLHGMRYT------SFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 592 (747)
Q Consensus 519 ~p~~l~q~~~~~~kl~~~l~p~l~g~ry~------s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~ 592 (747)
.|+++..+..+-+.. |+++.+.-..|. .+|++.+.++-...+.+.|. +++|+.|+|+.||+..++.+|.+
T Consensus 23 ~~~~~~a~~~~~r~~--f~p~~~~~~ay~d~~~~~~~~~~~~~p~~~~~l~~~l~--~~~~~~VLeiG~GsG~~t~~la~ 98 (212)
T PRK00312 23 DERVLEAIEATPREL--FVPEAFKHKAYENRALPIGCGQTISQPYMVARMTELLE--LKPGDRVLEIGTGSGYQAAVLAH 98 (212)
T ss_pred CHHHHHHHHcCCHhH--cCCchHHhcCccCCCccCCCCCeeCcHHHHHHHHHhcC--CCCCCEEEEECCCccHHHHHHHH
Confidence 456666666554442 222222222232 45666778887777777665 57899999999999999887765
Q ss_pred H
Q 004523 593 K 593 (747)
Q Consensus 593 ~ 593 (747)
.
T Consensus 99 ~ 99 (212)
T PRK00312 99 L 99 (212)
T ss_pred H
Confidence 3
No 109
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=42.65 E-value=8 Score=43.25 Aligned_cols=77 Identities=26% Similarity=0.346 Sum_probs=46.6
Q ss_pred cccccCCeEEeecCCcchhhHHHHHHHHHcCCCcc-----------------ccC-CCCCCCCCCCccccccccccCCCC
Q 004523 568 WYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCS-----------------FRN-YDLIQPKNDFSFEKRDWMTVRPEE 629 (747)
Q Consensus 568 ~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~-----------------~kn-~d~~~~~~~~~f~~~~w~~~~~~~ 629 (747)
=.|.+|++|||+.+|-.-|+-.+-++....=-.|. .++ ...|+- +-.. + +.+
T Consensus 184 ~~v~~GE~V~DmFAGVGpfsi~~Ak~g~~~V~A~diNP~A~~~L~eNi~LN~v~~~v~~i~g-D~re--------v-~~~ 253 (341)
T COG2520 184 ELVKEGETVLDMFAGVGPFSIPIAKKGRPKVYAIDINPDAVEYLKENIRLNKVEGRVEPILG-DARE--------V-APE 253 (341)
T ss_pred hhhcCCCEEEEccCCcccchhhhhhcCCceEEEEecCHHHHHHHHHHHHhcCccceeeEEec-cHHH--------h-hhc
Confidence 34677999999999999999877664333100000 111 122221 1111 1 122
Q ss_pred CCCCCceeeecCCCcchhhhhHHHHHHhhhhc
Q 004523 630 LPDGSQLIMGLNPPFGVKASLANKFISQALKF 661 (747)
Q Consensus 630 l~~g~~li~glnppfg~~~~~a~kfi~~~~~f 661 (747)
++..+..||||.+ .|-+|+..|++.
T Consensus 254 ~~~aDrIim~~p~-------~a~~fl~~A~~~ 278 (341)
T COG2520 254 LGVADRIIMGLPK-------SAHEFLPLALEL 278 (341)
T ss_pred cccCCEEEeCCCC-------cchhhHHHHHHH
Confidence 3778999999655 688899998854
No 110
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=42.35 E-value=1.1e+02 Score=29.18 Aligned_cols=105 Identities=18% Similarity=0.271 Sum_probs=60.3
Q ss_pred hhhHHHHHhhhccc---cccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCCC----------------CCCCc
Q 004523 556 VEKLKEIVDRLHWY---VRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQP----------------KNDFS 616 (747)
Q Consensus 556 ~ekl~~i~~~l~~~---~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~----------------~~~~~ 616 (747)
++.+.++++.+--. ..++.+||||+||-.-.+.++-..|...+..+..--.|.=+. .+.+.
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 44555555555333 467889999999999999999997766644443333332211 13333
Q ss_pred cccccccccCCCCCCCCCceeeecCCCcchhhhhHHHHHHhhhhcCCcEEE
Q 004523 617 FEKRDWMTVRPEELPDGSQLIMGLNPPFGVKASLANKFISQALKFKPKLIV 667 (747)
Q Consensus 617 f~~~~w~~~~~~~l~~g~~li~glnppfg~~~~~a~kfi~~~~~f~p~~~~ 667 (747)
|...+.-... -..+..+++||-. =+.|+-.-|..+..-+.+.|+
T Consensus 86 ~~~~~~~~~~---~~~~~~~~vgLHa----CG~Ls~~~l~~~~~~~~~~l~ 129 (141)
T PF13679_consen 86 FIQGDIADES---SSDPPDILVGLHA----CGDLSDRALRLFIRPNARFLV 129 (141)
T ss_pred hhccchhhhc---ccCCCeEEEEeec----ccchHHHHHHHHHHcCCCEEE
Confidence 3333222111 1445556677643 235777778888774445443
No 111
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=41.75 E-value=56 Score=35.31 Aligned_cols=126 Identities=17% Similarity=0.085 Sum_probs=63.2
Q ss_pred hHHHHHHHHHHhhCCCChhhhhhcCChhhhhhHHHHhhccccccccccccccccccCcccchhhhHHHHHhhhccccccC
Q 004523 494 SVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLAPFLHGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSG 573 (747)
Q Consensus 494 sv~a~~~al~~l~~g~~~~~aka~c~p~~l~q~~~~~~kl~~~l~p~l~g~ry~s~grhft~~ekl~~i~~~l~~~~~~g 573 (747)
..+.++.++....+|..+.= ++.+. |=-.++.+..|=++.+|.- ++.+|+.+-=.+...
T Consensus 52 ~~~~~~~~~~rr~~~~P~~y--------i~g~~--~f~gl~~~v~~~vliPr~d-----------Te~Lve~~l~~~~~~ 110 (280)
T COG2890 52 ELERLRELLERRAEGEPVAY--------ILGSA--EFGGLRFKVDEGVLIPRPD-----------TELLVEAALALLLQL 110 (280)
T ss_pred HHHHHHHHHHHHHCCCCHhH--------hhccC--eecceeeeeCCCceecCCc-----------hHHHHHHHHHhhhhc
Confidence 34445555555555555422 23332 2234555555555555543 333444322122222
Q ss_pred C-eEEeecCCcchhhHHHHHHHHH---cCCCccc-------cCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCC
Q 004523 574 D-TIVDFCCGANDFSCMMKVKLEQ---MGKSCSF-------RNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNP 642 (747)
Q Consensus 574 d-~~vd~~cg~~~f~~l~~~~~~~---~~~~~~~-------kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnp 642 (747)
+ +|+|+|||+.--.--+..+... ++-+.+- +|-....- .++.|...||+..-++ .=.+|.. ||
T Consensus 111 ~~~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l-~~~~~~~~dlf~~~~~----~fDlIVs-NP 184 (280)
T COG2890 111 DKRILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGL-VRVLVVQSDLFEPLRG----KFDLIVS-NP 184 (280)
T ss_pred CCcEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCC-ccEEEEeeecccccCC----ceeEEEe-CC
Confidence 2 7999999999888777765532 1111111 12111111 3355555688765443 3336666 99
Q ss_pred Ccch
Q 004523 643 PFGV 646 (747)
Q Consensus 643 pfg~ 646 (747)
||=-
T Consensus 185 PYip 188 (280)
T COG2890 185 PYIP 188 (280)
T ss_pred CCCC
Confidence 9843
No 112
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=41.63 E-value=26 Score=39.74 Aligned_cols=120 Identities=18% Similarity=0.193 Sum_probs=64.4
Q ss_pred ccccccCcccchh--hh-HHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHH---HcCCCcccc-------CCCCCC
Q 004523 544 MRYTSFGRHFTKV--EK-LKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLE---QMGKSCSFR-------NYDLIQ 610 (747)
Q Consensus 544 ~ry~s~grhft~~--ek-l~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~---~~~~~~~~k-------n~d~~~ 610 (747)
..+++..--|..- +. .+-..+.|.. ..+..|+|+.||+...+..+.++.- =++-+.++. |+..-.
T Consensus 199 ~~~~~~~gVFs~~~LD~GtrllL~~lp~--~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~ 276 (378)
T PRK15001 199 WTIHNHANVFSRTGLDIGARFFMQHLPE--NLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNM 276 (378)
T ss_pred EEEEecCCccCCCCcChHHHHHHHhCCc--ccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcC
Confidence 3344555666542 21 2223333332 2246899999999999988877531 122222222 221111
Q ss_pred CC--CCCccccccccccCCCCCCCCC-ceeeecCCCcchhh----hhHHHHHHhhhh-cCCcEEEEec
Q 004523 611 PK--NDFSFEKRDWMTVRPEELPDGS-QLIMGLNPPFGVKA----SLANKFISQALK-FKPKLIVLIV 670 (747)
Q Consensus 611 ~~--~~~~f~~~~w~~~~~~~l~~g~-~li~glnppfg~~~----~~a~kfi~~~~~-f~p~~~~li~ 670 (747)
+. ....|...|.++- ++.++ .+|+- ||||-... .+|.+|+..|.. .+|.=.+.||
T Consensus 277 ~~~~~~v~~~~~D~l~~----~~~~~fDlIls-NPPfh~~~~~~~~ia~~l~~~a~~~LkpGG~L~iV 339 (378)
T PRK15001 277 PEALDRCEFMINNALSG----VEPFRFNAVLC-NPPFHQQHALTDNVAWEMFHHARRCLKINGELYIV 339 (378)
T ss_pred cccCceEEEEEcccccc----CCCCCEEEEEE-CcCcccCccCCHHHHHHHHHHHHHhcccCCEEEEE
Confidence 11 2456666666542 33333 46665 99996532 578888877763 3555444444
No 113
>TIGR02469 CbiT precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit. This model recognizes the CbiT methylase which is responsible, in part (along with CbiE), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiE subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=41.52 E-value=41 Score=29.94 Aligned_cols=35 Identities=20% Similarity=0.273 Sum_probs=25.6
Q ss_pred hhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHH
Q 004523 557 EKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 557 ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
+....+++.+ ++.+|+.|+|+.||...+...+-++
T Consensus 6 ~~~~~~~~~~--~~~~~~~vldlG~G~G~~~~~l~~~ 40 (124)
T TIGR02469 6 EVRALTLSKL--RLRPGDVLWDIGAGSGSITIEAARL 40 (124)
T ss_pred HHHHHHHHHc--CCCCCCEEEEeCCCCCHHHHHHHHH
Confidence 3333445544 5678999999999999999887653
No 114
>PF08003 Methyltransf_9: Protein of unknown function (DUF1698); InterPro: IPR010017 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. This entry represents a set of bacterial AdoMet-dependent tRNA (mo5U34)-methyltransferases. These enzymes catalyse the conversion of 5-hydroxyuridine (ho5U) to 5-methoxyuridine (mo5U) at the wobble position (34) of tRNA []. The 5-methoxyuridine is subsequently converted to uridine-5-oxyacetic acid, a modified nucleoside that is apparently necessary for the efficient decoding of G-ending Pro, Ala, and Val codons in these organisms [].; GO: 0016300 tRNA (uracil) methyltransferase activity, 0002098 tRNA wobble uridine modification
Probab=41.06 E-value=53 Score=36.58 Aligned_cols=73 Identities=19% Similarity=0.438 Sum_probs=51.9
Q ss_pred ccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCCCCCCCccccccccccCCCCCCCCCceeeecCC--Ccchhh
Q 004523 571 RSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLNP--PFGVKA 648 (747)
Q Consensus 571 ~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~glnp--pfg~~~ 648 (747)
..|.+|+|.=||+.-|+=.|. ..|-++|+|++| .|..+.
T Consensus 114 L~gk~VLDIGC~nGY~~frM~---------------------------------------~~GA~~ViGiDP~~lf~~QF 154 (315)
T PF08003_consen 114 LKGKRVLDIGCNNGYYSFRML---------------------------------------GRGAKSVIGIDPSPLFYLQF 154 (315)
T ss_pred cCCCEEEEecCCCcHHHHHHh---------------------------------------hcCCCEEEEECCChHHHHHH
Confidence 469999999999998886665 345669999999 777777
Q ss_pred hhHHHHHHhhhhcCCcEEEEecCccccccccccccceeec
Q 004523 649 SLANKFISQALKFKPKLIVLIVPQETRRLDQKASYNLIWE 688 (747)
Q Consensus 649 ~~a~kfi~~~~~f~p~~~~li~p~~~~~~~~~~~y~l~~~ 688 (747)
..+++|+.. + ..+...|=.+|.|.....||+|.-
T Consensus 155 ~~i~~~lg~----~--~~~~~lplgvE~Lp~~~~FDtVF~ 188 (315)
T PF08003_consen 155 EAIKHFLGQ----D--PPVFELPLGVEDLPNLGAFDTVFS 188 (315)
T ss_pred HHHHHHhCC----C--ccEEEcCcchhhccccCCcCEEEE
Confidence 777777742 2 234445667777776333777653
No 115
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=40.75 E-value=23 Score=38.27 Aligned_cols=28 Identities=32% Similarity=0.694 Sum_probs=23.0
Q ss_pred CCCceecccCCCcC-CCCccccccccCCC
Q 004523 163 SSQEVFPCVSATCG-QFYHPECVSKLLHP 190 (747)
Q Consensus 163 s~aeV~kCsv~~CG-KfYH~~CL~~~l~P 190 (747)
+-++++.|..++|. .+||..||+.--.|
T Consensus 230 SyGqMVaCDn~nCkrEWFH~~CVGLk~pP 258 (271)
T COG5034 230 SYGQMVACDNANCKREWFHLECVGLKEPP 258 (271)
T ss_pred ccccceecCCCCCchhheeccccccCCCC
Confidence 35789999999998 58999999876444
No 116
>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=40.46 E-value=76 Score=33.96 Aligned_cols=83 Identities=19% Similarity=0.310 Sum_probs=52.1
Q ss_pred eEEeecCCcchhhHHHHHHHHHcCCCccc-------------cCCCCCCCCCCCccccccccccCCCCCCCCCceeeecC
Q 004523 575 TIVDFCCGANDFSCMMKVKLEQMGKSCSF-------------RNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQLIMGLN 641 (747)
Q Consensus 575 ~~vd~~cg~~~f~~l~~~~~~~~~~~~~~-------------kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~li~gln 641 (747)
+|+|++||.-.++.-++. .|-.+-+ +||.- . +...|.-++.+.+++..-.+|+| .
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 589999999999877655 5543322 23321 1 23345556666663333446666 4
Q ss_pred CC---cc----------hhhhhHHHHHHhhhhcCCcEEEEe
Q 004523 642 PP---FG----------VKASLANKFISQALKFKPKLIVLI 669 (747)
Q Consensus 642 pp---fg----------~~~~~a~kfi~~~~~f~p~~~~li 669 (747)
|| |. .++.|.-.|++-+-.++|+++|+=
T Consensus 70 pPCq~fS~ag~~~~~~d~r~~L~~~~~~~i~~~~P~~~v~E 110 (275)
T cd00315 70 FPCQPFSIAGKRKGFEDTRGTLFFEIIRILKEKKPKYFLLE 110 (275)
T ss_pred CCChhhhHHhhcCCCCCchHHHHHHHHHHHHhcCCCEEEEE
Confidence 54 32 245577788888889999988764
No 117
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=40.25 E-value=12 Score=37.24 Aligned_cols=35 Identities=31% Similarity=0.577 Sum_probs=25.7
Q ss_pred CcccCCCcccccCcCCccCCccccceeecccccccccc-cCCCC
Q 004523 207 ESFTCPVHKCFVCQQSEDMNVEDLQLAICRRCPKAYHR-KCLPT 249 (747)
Q Consensus 207 ~~F~CPlH~C~~Ck~~edk~~~~~qL~~C~RCP~AYH~-kCLP~ 249 (747)
..|.=++++|.+|+-.. ...|..|...|+. .|+..
T Consensus 112 p~~KP~r~fCaVCG~~S--------~ysC~~CG~kyCsv~C~~~ 147 (156)
T KOG3362|consen 112 PSFKPLRKFCAVCGYDS--------KYSCVNCGTKYCSVRCLKT 147 (156)
T ss_pred CCCCCcchhhhhcCCCc--------hhHHHhcCCceeechhhhh
Confidence 34443568999999543 4679999999997 57643
No 118
>COG1041 Predicted DNA modification methylase [DNA replication, recombination, and repair]
Probab=40.18 E-value=42 Score=37.80 Aligned_cols=96 Identities=23% Similarity=0.364 Sum_probs=52.3
Q ss_pred cccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCC------CCCCCCccccccc--ccc-CCCCCCCCCc--eee
Q 004523 570 VRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLI------QPKNDFSFEKRDW--MTV-RPEELPDGSQ--LIM 638 (747)
Q Consensus 570 ~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~------~~~~~~~f~~~~w--~~~-~~~~l~~g~~--li~ 638 (747)
|..|+.|+|.-||...|.-.-- -+|..+-+- |+- ...|.-.|--.|+ +++ +.+.||=.++ =-+
T Consensus 195 v~~G~~vlDPFcGTGgiLiEag----l~G~~viG~--Did~~mv~gak~Nl~~y~i~~~~~~~~~Da~~lpl~~~~vdaI 268 (347)
T COG1041 195 VKRGELVLDPFCGTGGILIEAG----LMGARVIGS--DIDERMVRGAKINLEYYGIEDYPVLKVLDATNLPLRDNSVDAI 268 (347)
T ss_pred cccCCEeecCcCCccHHHHhhh----hcCceEeec--chHHHHHhhhhhhhhhhCcCceeEEEecccccCCCCCCccceE
Confidence 7899999999999998853211 122222111 110 0011111111122 344 5666665443 234
Q ss_pred ecCCCcchhh--------hhHHHHHHhhhhcC-C-cEEEEecC
Q 004523 639 GLNPPFGVKA--------SLANKFISQALKFK-P-KLIVLIVP 671 (747)
Q Consensus 639 glnppfg~~~--------~~a~kfi~~~~~f~-p-~~~~li~p 671 (747)
--|||+|..+ .|-.+|++.|.+-- + -.+++.+|
T Consensus 269 atDPPYGrst~~~~~~l~~Ly~~~le~~~evLk~gG~~vf~~p 311 (347)
T COG1041 269 ATDPPYGRSTKIKGEGLDELYEEALESASEVLKPGGRIVFAAP 311 (347)
T ss_pred EecCCCCcccccccccHHHHHHHHHHHHHHHhhcCcEEEEecC
Confidence 5599999988 45566777776543 3 35777777
No 119
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=39.85 E-value=10 Score=43.71 Aligned_cols=28 Identities=21% Similarity=0.503 Sum_probs=18.2
Q ss_pred cccccccCCC-----CCeeecCCcccccccccccc
Q 004523 87 FAVCAICDDG-----GDVTFCDGRCLRSFHATITA 116 (747)
Q Consensus 87 DdVCaIC~dg-----GeLLcCdG~C~RsFH~~C~~ 116 (747)
-..|.+|-.- +-++. - .|.-+||..|+.
T Consensus 175 LPTCpVCLERMD~s~~gi~t-~-~c~Hsfh~~cl~ 207 (493)
T KOG0804|consen 175 LPTCPVCLERMDSSTTGILT-I-LCNHSFHCSCLM 207 (493)
T ss_pred CCCcchhHhhcCccccceee-e-ecccccchHHHh
Confidence 4779999532 11222 2 588999999854
No 120
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=39.46 E-value=17 Score=40.83 Aligned_cols=30 Identities=30% Similarity=0.485 Sum_probs=22.3
Q ss_pred ccccccCCC---CCeeecCCccccccccccccCc
Q 004523 88 AVCAICDDG---GDVTFCDGRCLRSFHATITAGK 118 (747)
Q Consensus 88 dVCaIC~dg---GeLLcCdG~C~RsFH~~C~~g~ 118 (747)
+.|+||-+. |+.|.== +|.-.||..|.+.+
T Consensus 230 ~~CaIClEdY~~GdklRiL-PC~H~FH~~CIDpW 262 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRIL-PCSHKFHVNCIDPW 262 (348)
T ss_pred ceEEEeecccccCCeeeEe-cCCCchhhccchhh
Confidence 799999764 7744443 78899999986544
No 121
>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=38.30 E-value=30 Score=35.09 Aligned_cols=42 Identities=33% Similarity=0.649 Sum_probs=29.1
Q ss_pred cccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHH
Q 004523 547 TSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 547 ~s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
.|++++..-. ++++.++ .+.+|++|+|+.||...+...|.+.
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 3455544333 3344444 4678999999999999999888764
No 122
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=38.24 E-value=37 Score=33.69 Aligned_cols=36 Identities=19% Similarity=0.455 Sum_probs=30.2
Q ss_pred hHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHH
Q 004523 558 KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 594 (747)
Q Consensus 558 kl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~ 594 (747)
+|.++.+++. .+++|++|+|+.||.-.++..+-++.
T Consensus 19 ~~~~~~~~~~-~i~~g~~VLDiG~GtG~~~~~l~~~~ 54 (188)
T TIGR00438 19 KLLQLNQKFK-LIKPGDTVLDLGAAPGGWSQVAVEQV 54 (188)
T ss_pred HHHHHHHHhc-ccCCCCEEEEecCCCCHHHHHHHHHh
Confidence 7778777775 45789999999999999999887765
No 123
>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=38.02 E-value=33 Score=34.77 Aligned_cols=33 Identities=18% Similarity=0.341 Sum_probs=25.7
Q ss_pred HHHHhhhccccc----cCCeEEeecCCcchhhHHHHH
Q 004523 560 KEIVDRLHWYVR----SGDTIVDFCCGANDFSCMMKV 592 (747)
Q Consensus 560 ~~i~~~l~~~~~----~gd~~vd~~cg~~~f~~l~~~ 592 (747)
..+++++.+++. .+++|+|+.||...|...+.+
T Consensus 39 ~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~ 75 (219)
T TIGR02021 39 AAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAK 75 (219)
T ss_pred HHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHH
Confidence 345556666665 589999999999999988865
No 124
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=37.58 E-value=54 Score=32.44 Aligned_cols=42 Identities=17% Similarity=0.223 Sum_probs=33.5
Q ss_pred CcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHH
Q 004523 550 GRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 550 grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
.+..|+.+--..+++.|. +.+|++|+|+.||+..++..+.++
T Consensus 11 ~~~~~~~~~r~~~~~~l~--~~~~~~vLDiG~G~G~~~~~la~~ 52 (187)
T PRK08287 11 KVPMTKEEVRALALSKLE--LHRAKHLIDVGAGTGSVSIEAALQ 52 (187)
T ss_pred CCCCchHHHHHHHHHhcC--CCCCCEEEEECCcCCHHHHHHHHH
Confidence 456788777677778875 458999999999999999887654
No 125
>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=37.11 E-value=29 Score=25.32 Aligned_cols=29 Identities=28% Similarity=0.557 Sum_probs=23.1
Q ss_pred cccccCcCCccCCccccc-eeecccccccccccCC
Q 004523 214 HKCFVCQQSEDMNVEDLQ-LAICRRCPKAYHRKCL 247 (747)
Q Consensus 214 H~C~~Ck~~edk~~~~~q-L~~C~RCP~AYH~kCL 247 (747)
++|..|.+.-+ +. +..|..|....|..|.
T Consensus 1 ~~C~~C~~~~~-----~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 1 FWCDVCRRKID-----GFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCCcC-----CCEeEEeCCCCCeEcCccC
Confidence 46889977654 34 8999999999999884
No 126
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=36.86 E-value=11 Score=40.98 Aligned_cols=49 Identities=31% Similarity=0.558 Sum_probs=0.0
Q ss_pred CCcccccccCCCCC-eeecCC--------ccccccccccccCccccccccCCcccccCCCCceeccccccc
Q 004523 85 NYFAVCAICDDGGD-VTFCDG--------RCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVYQ 146 (747)
Q Consensus 85 ~~DdVCaIC~dgGe-LLcCdG--------~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~~ 146 (747)
++|.+|++|++.-+ -+.=+| +|.-+||-.|..|+ |. +|-... ||.|..+
T Consensus 222 l~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGW---ci-vGKkqt---------CPYCKek 279 (328)
T KOG1734|consen 222 LSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGW---CI-VGKKQT---------CPYCKEK 279 (328)
T ss_pred CCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhh---ee-ecCCCC---------CchHHHH
No 127
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=36.33 E-value=24 Score=37.43 Aligned_cols=26 Identities=4% Similarity=0.132 Sum_probs=21.2
Q ss_pred ccccCCeEEeecCCcchhhHHHHHHH
Q 004523 569 YVRSGDTIVDFCCGANDFSCMMKVKL 594 (747)
Q Consensus 569 ~~~~gd~~vd~~cg~~~f~~l~~~~~ 594 (747)
-+++|++|+|+|||...++..|-+.+
T Consensus 68 ~~~~g~~VLDl~ag~G~kt~~la~~~ 93 (264)
T TIGR00446 68 EPDPPERVLDMAAAPGGKTTQISALM 93 (264)
T ss_pred CCCCcCEEEEECCCchHHHHHHHHHc
Confidence 45789999999999999887765543
No 128
>PRK07402 precorrin-6B methylase; Provisional
Probab=35.94 E-value=56 Score=32.61 Aligned_cols=41 Identities=17% Similarity=0.251 Sum_probs=32.0
Q ss_pred CcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHH
Q 004523 550 GRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 592 (747)
Q Consensus 550 grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~ 592 (747)
|.-.|+.+--..+++.|. +.+|++|+|+.||+..+...+.+
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 334677777667788774 57899999999999999887754
No 129
>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=35.93 E-value=14 Score=31.13 Aligned_cols=9 Identities=67% Similarity=1.789 Sum_probs=7.9
Q ss_pred EeecCCcch
Q 004523 577 VDFCCGAND 585 (747)
Q Consensus 577 vd~~cg~~~ 585 (747)
+|||||.|.
T Consensus 24 IDfCCgG~~ 32 (56)
T PF04405_consen 24 IDFCCGGNR 32 (56)
T ss_pred CcccCCCCc
Confidence 899999974
No 130
>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=35.90 E-value=40 Score=36.21 Aligned_cols=39 Identities=23% Similarity=0.226 Sum_probs=27.4
Q ss_pred CcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHH
Q 004523 550 GRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 592 (747)
Q Consensus 550 grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~ 592 (747)
|.|-|..-.|+ -|.-|+.+|++|+|+.||+.-++..+.+
T Consensus 141 G~h~tt~l~l~----~l~~~~~~g~~VLDvGcGsG~lai~aa~ 179 (288)
T TIGR00406 141 GTHPTTSLCLE----WLEDLDLKDKNVIDVGCGSGILSIAALK 179 (288)
T ss_pred CCCHHHHHHHH----HHHhhcCCCCEEEEeCCChhHHHHHHHH
Confidence 46666544443 3334578999999999999988866654
No 131
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=34.73 E-value=51 Score=28.19 Aligned_cols=49 Identities=16% Similarity=0.253 Sum_probs=38.9
Q ss_pred ChHHHHHHHHHhhccCC-CCchHHhhccCCCCcccccCcccccccceecccchhhHHHHHHHHHHhhCCCChh
Q 004523 441 DAEMEKELLALIKDSTS-SFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDGGCDIE 512 (747)
Q Consensus 441 d~~~e~r~~~~~~~~~~-~~~~~~~~~~~~~~~t~~~~~~~~~~~~i~~g~~~~sv~a~~~al~~l~~g~~~~ 512 (747)
..+++.+||.++++... .+|..++-+...++.. +|+.+|..|++-|-|+
T Consensus 4 ~~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~-----------------------~v~r~L~~L~~~G~V~ 53 (68)
T smart00550 4 QDSLEEKILEFLENSGDETSTALQLAKNLGLPKK-----------------------EVNRVLYSLEKKGKVC 53 (68)
T ss_pred chHHHHHHHHHHHHCCCCCcCHHHHHHHHCCCHH-----------------------HHHHHHHHHHHCCCEE
Confidence 35788999999998866 5999999988877654 6778888888866664
No 132
>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=34.66 E-value=42 Score=36.19 Aligned_cols=34 Identities=24% Similarity=0.532 Sum_probs=26.3
Q ss_pred hHHHHHhhhccccccCCeEEeecCCcchhhHHHHHH
Q 004523 558 KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 558 kl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
|+.-|+++| -+++|++|+|+=||-..++..|-++
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 677778887 4899999999999999999998887
No 133
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=34.63 E-value=12 Score=43.39 Aligned_cols=60 Identities=27% Similarity=0.619 Sum_probs=36.6
Q ss_pred CCCCcccccccCCCCC-----eeecCCccccccccccccCccccccccCCcccccCCCCceecccccc
Q 004523 83 DENYFAVCAICDDGGD-----VTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 145 (747)
Q Consensus 83 dd~~DdVCaIC~dgGe-----LLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~ 145 (747)
+...+..|++|++.-. .-.|+| |...|-.+.-.+....| |+-..-+++....-.|..|+.
T Consensus 265 ~~~~e~~CAVCgDnAaCqHYGvRTCEG-CKGFFKRTVQKnaKYvC--lanKnCPVDKRrRnRCQyCRf 329 (605)
T KOG4217|consen 265 SLSAEGLCAVCGDNAACQHYGVRTCEG-CKGFFKRTVQKNAKYVC--LANKNCPVDKRRRNRCQYCRF 329 (605)
T ss_pred CCCccceeeecCChHHhhhcCcccccc-chHHHHHHHhcCCeeEe--ecCCCCCcchhhhhhchhhhH
Confidence 4445789999988531 568998 99999887544433344 443333443334455666664
No 134
>COG3802 GguC Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.07 E-value=21 Score=38.76 Aligned_cols=66 Identities=33% Similarity=0.647 Sum_probs=51.9
Q ss_pred CCcchhhhhHHHHHHhhh----------------hcCCcEEEEecCccccccccc-cccceeecccccccCcc-------
Q 004523 642 PPFGVKASLANKFISQAL----------------KFKPKLIVLIVPQETRRLDQK-ASYNLIWEDNEVLSGKS------- 697 (747)
Q Consensus 642 ppfg~~~~~a~kfi~~~~----------------~f~p~~~~li~p~~~~~~~~~-~~y~l~~~d~~~~~g~~------- 697 (747)
-||-+--+|||+|-||.- .|-|.|+|=-.|.+++-.-+. |.=.+||| +-+|||..
T Consensus 185 ~p~RlGfal~NEfSDHvtEr~NYL~LAHSKLR~as~GPEl~vG~lP~~vrG~SRI~Rdg~viwe-k~FlSGE~nMsHs~a 263 (333)
T COG3802 185 TPYRLGFALANEFSDHVTERVNYLYLAHSKLRNASFGPELLVGALPEDVRGVSRILRDGEVIWE-KPFLSGEANMSHSIA 263 (333)
T ss_pred ceeEEeeeecchhhhhhhhccceEEeehhhhhccccCcceeeccCchhhcCceeeecCCEEEEe-cccccCccchhhhhh
Confidence 389888999999999975 588999999999988765544 44789997 56889964
Q ss_pred -----------cccCCccccCc
Q 004523 698 -----------FYLPGSLDVHD 708 (747)
Q Consensus 698 -----------f~~pg~~d~~~ 708 (747)
|--||.|-|+.
T Consensus 264 NLEhhHFkY~lfrrpGDvHvh~ 285 (333)
T COG3802 264 NLEHHHFKYALFRRPGDVHVHF 285 (333)
T ss_pred hhhhhhhhhhhhcCCCceEEEE
Confidence 45688776653
No 135
>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=33.77 E-value=1.6e+02 Score=31.43 Aligned_cols=94 Identities=17% Similarity=0.293 Sum_probs=60.8
Q ss_pred HHHHHHHHHHhhCCCChhhhhhcCChhhhhhHHHHhhccccccc---------------------------cccc--ccc
Q 004523 495 VKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLA---------------------------PFLH--GMR 545 (747)
Q Consensus 495 v~a~~~al~~l~~g~~~~~aka~c~p~~l~q~~~~~~kl~~~l~---------------------------p~l~--g~r 545 (747)
-..|..|.+|+++|.+++++ +.+|..++++-.+|+. |+|. .-.
T Consensus 122 g~~v~~a~~~~~~G~s~~eI--------~~~l~~~~~~~~~~f~v~~L~~L~~gGRis~~~~~~g~lL~ikPIi~~~~G~ 193 (275)
T TIGR00762 122 GLLVLEAAKLAEEGKSLEEI--------LAKLEELRERTKLYFVVDTLEYLVKGGRISKAAALIGSLLNIKPILTVDDGK 193 (275)
T ss_pred HHHHHHHHHHHHcCCCHHHH--------HHHHHHHHhhcEEEEEECcHHHHHhcCCccHHHHHHHHhhcceeEEEEeCCE
Confidence 34677789999999999887 6666666666666643 4432 235
Q ss_pred ccccCcccchhhhHHHHHhhhccccccCC-eEEee-cCCcchhhHHHHHHHHH
Q 004523 546 YTSFGRHFTKVEKLKEIVDRLHWYVRSGD-TIVDF-CCGANDFSCMMKVKLEQ 596 (747)
Q Consensus 546 y~s~grhft~~ekl~~i~~~l~~~~~~gd-~~vd~-~cg~~~f~~l~~~~~~~ 596 (747)
...+|+..+..--++++++.+.=++..++ ..+.+ .+|..+=...+++.|.+
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 56778888877777788887766655443 33433 44544445556666665
No 136
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=33.46 E-value=29 Score=40.55 Aligned_cols=70 Identities=14% Similarity=0.257 Sum_probs=40.0
Q ss_pred cCCeEEeecCCcchhhHHHHHHHH---HcCCCccc-------cCCCCCCCCCCCccccccccccCCCCCCCCC-ceeeec
Q 004523 572 SGDTIVDFCCGANDFSCMMKVKLE---QMGKSCSF-------RNYDLIQPKNDFSFEKRDWMTVRPEELPDGS-QLIMGL 640 (747)
Q Consensus 572 ~gd~~vd~~cg~~~f~~l~~~~~~---~~~~~~~~-------kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~-~li~gl 640 (747)
.+..|+|++||+..++..+..++. -++-+.+- +|.....-.+...|...||++. ++.+. .+|+ .
T Consensus 138 ~~~~VLDlG~GsG~iai~la~~~p~~~v~avDis~~al~~A~~N~~~~~l~~~v~~~~~D~~~~----~~~~~fDlIv-s 212 (506)
T PRK01544 138 KFLNILELGTGSGCIAISLLCELPNANVIATDISLDAIEVAKSNAIKYEVTDRIQIIHSNWFEN----IEKQKFDFIV-S 212 (506)
T ss_pred CCCEEEEccCchhHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHcCCccceeeeecchhhh----CcCCCccEEE-E
Confidence 457899999999999987765431 11111211 1111111124567888888753 33333 3555 4
Q ss_pred CCCcch
Q 004523 641 NPPFGV 646 (747)
Q Consensus 641 nppfg~ 646 (747)
||||-.
T Consensus 213 NPPYi~ 218 (506)
T PRK01544 213 NPPYIS 218 (506)
T ss_pred CCCCCC
Confidence 999875
No 137
>PF13651 EcoRI_methylase: Adenine-specific methyltransferase EcoRI
Probab=32.64 E-value=40 Score=37.79 Aligned_cols=61 Identities=26% Similarity=0.488 Sum_probs=39.2
Q ss_pred eeecCCCcchhhhhHHHHHHhhhhcCCcEEEE-----ecCccccccccccccceeecccccccCcccccCCcc
Q 004523 637 IMGLNPPFGVKASLANKFISQALKFKPKLIVL-----IVPQETRRLDQKASYNLIWEDNEVLSGKSFYLPGSL 704 (747)
Q Consensus 637 i~glnppfg~~~~~a~kfi~~~~~f~p~~~~l-----i~p~~~~~~~~~~~y~l~~~d~~~~~g~~f~~pg~~ 704 (747)
|+.-||||. |+.+||+...+.+=++||+ |+-+|+=-|=+ =+=+|=--..=....|++|-..
T Consensus 138 IVVTNPPFS----LFrEyv~~Li~~~KkFlIIGN~NaiTYkeiFplik---~nk~WlG~~~~g~~~F~vP~~~ 203 (336)
T PF13651_consen 138 IVVTNPPFS----LFREYVAQLIEYDKKFLIIGNINAITYKEIFPLIK---ENKIWLGYTFRGDMWFRVPDDY 203 (336)
T ss_pred EEEeCCCcH----HHHHHHHHHHHhCCCEEEEeccccccHHHHHHHHh---cCcEEeccccCCceeeecCCCC
Confidence 555699998 9999999999999999987 34333332211 0234554444123457788543
No 138
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=32.62 E-value=36 Score=37.44 Aligned_cols=35 Identities=29% Similarity=0.368 Sum_probs=29.8
Q ss_pred hHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHH
Q 004523 558 KLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKL 594 (747)
Q Consensus 558 kl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~ 594 (747)
-|.|+++.|- +++|+++||..||...++..+-+++
T Consensus 7 ll~Evl~~L~--~~pg~~vlD~TlG~GGhS~~il~~~ 41 (296)
T PRK00050 7 LLDEVVDALA--IKPDGIYVDGTFGGGGHSRAILERL 41 (296)
T ss_pred cHHHHHHhhC--CCCCCEEEEeCcCChHHHHHHHHhC
Confidence 5788998886 4789999999999999999986643
No 139
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=31.61 E-value=35 Score=29.38 Aligned_cols=32 Identities=31% Similarity=0.783 Sum_probs=24.2
Q ss_pred CCceeccccccc-CccccccccCCCCCCCCCCceecccCCCcC
Q 004523 135 VPNFLCQNCVYQ-EHQCFACGMLGSSDKSSSQEVFPCVSATCG 176 (747)
Q Consensus 135 ~~~W~C~eC~~~-~h~CfvCgk~Gssd~ss~aeV~kCsv~~CG 176 (747)
...|.|++|-.- ...|..|.+++. .+.| +.||
T Consensus 23 ~~~F~CPnCG~~~I~RC~~CRk~~~--------~Y~C--P~CG 55 (59)
T PRK14890 23 AVKFLCPNCGEVIIYRCEKCRKQSN--------PYTC--PKCG 55 (59)
T ss_pred cCEeeCCCCCCeeEeechhHHhcCC--------ceEC--CCCC
Confidence 357999999654 678999998653 6777 6776
No 140
>TIGR01712 phage_N6A_met phage N-6-adenine-methyltransferase. This is a model for a phage-borne DNA N-6-adenine-methyltransferase.
Probab=31.42 E-value=39 Score=34.43 Aligned_cols=77 Identities=18% Similarity=0.350 Sum_probs=42.4
Q ss_pred eeecCCCcchhhhhHHHHHHhhhhc---CCcEEEEecCccccccccccccceeeccccccc-C-cccccCCccccCcccc
Q 004523 637 IMGLNPPFGVKASLANKFISQALKF---KPKLIVLIVPQETRRLDQKASYNLIWEDNEVLS-G-KSFYLPGSLDVHDNQL 711 (747)
Q Consensus 637 i~glnppfg~~~~~a~kfi~~~~~f---~p~~~~li~p~~~~~~~~~~~y~l~~~d~~~~~-g-~~f~~pg~~d~~~~~~ 711 (747)
-+=+||||+ -+..||.||.++ +=..+|..+|..|.-- -|.--=+.-.++. | -+|+.|..-. .
T Consensus 64 ~vf~NPPYS----~~~~~v~kaae~~~~~g~~~VmLlpa~tst~----W~~~~a~ei~fi~~GRi~F~~p~tg~----~- 130 (166)
T TIGR01712 64 AVWLNPPYS----RPDIFVNKTAWFTEARQAAEVILIEADLSTV----WWPEDIDGNEYIRSGRIAFISPETGK----E- 130 (166)
T ss_pred eEEecCCCC----cHHHHHHHHHHHHHhhCCeEEEEEecCCcch----hHHhcCCeeEEeeCCceeeEcCCCCc----c-
Confidence 445699998 347999999764 2246788888877430 0100002233444 3 2577775421 1
Q ss_pred cccccCCCceeeecc
Q 004523 712 EQWNCKPPPLYLWSR 726 (747)
Q Consensus 712 ~~~n~~~p~~~lws~ 726 (747)
.+=|..+-.|.+|--
T Consensus 131 ~~~~~~gs~l~i~~p 145 (166)
T TIGR01712 131 KDGNNKGSVIFIMRE 145 (166)
T ss_pred cCCCCCCEEEEEEec
Confidence 223556666666643
No 141
>KOG1428 consensus Inhibitor of type V adenylyl cyclases/Neuronal presynaptic protein Highwire/PAM/RPM-1 [Signal transduction mechanisms]
Probab=30.34 E-value=26 Score=45.68 Aligned_cols=49 Identities=18% Similarity=0.322 Sum_probs=32.6
Q ss_pred eeecccccccccc---cCCCCccccccccchhhhhhhhccCCCCceEEEecCcccc
Q 004523 232 LAICRRCPKAYHR---KCLPTEITFSDADENNFQRAWVDLLPNNRILIYCLEHKII 284 (747)
Q Consensus 232 L~~C~RCP~AYH~---kCLP~~i~f~~~~~~~~~raW~~lL~~~riLI~C~kH~i~ 284 (747)
-..|.+|-+||-- .|-.+.-. ++=+.....|+.+++-.....||+|-.+
T Consensus 3602 Y~vC~KCrKAYFGGEaRCdAe~~~----ddydP~ELiCG~CSDvS~aQmCPkHGtd 3653 (3738)
T KOG1428|consen 3602 YYVCYKCRKAYFGGEARCDAEAGG----DDYDPRELICGACSDVSRAQMCPKHGTD 3653 (3738)
T ss_pred hhhhhhhhhhhcCchhhcchhcCC----CCCCHHHhhhccccccccceecccccch
Confidence 3479999999985 56533211 0001223567778888888999999875
No 142
>PF14881 Tubulin_3: Tubulin domain
Probab=29.89 E-value=36 Score=34.68 Aligned_cols=47 Identities=19% Similarity=0.383 Sum_probs=37.3
Q ss_pred cccchhhhHHHHHhh-hccccccCCe------EEeecCCcchhhHHHHHHHHHc
Q 004523 551 RHFTKVEKLKEIVDR-LHWYVRSGDT------IVDFCCGANDFSCMMKVKLEQM 597 (747)
Q Consensus 551 rhft~~ekl~~i~~~-l~~~~~~gd~------~vd~~cg~~~f~~l~~~~~~~~ 597 (747)
..|...++..++.|+ ||+||+.=|. |+|...|-..|.--|-+.|.+.
T Consensus 48 ~~f~~~~~~~d~~D~~lR~f~EECD~lQGfQ~~~d~d~gwgGfas~~Le~L~DE 101 (180)
T PF14881_consen 48 ELFKSLDYEEDFFDRDLRFFLEECDSLQGFQVLTDVDDGWGGFASSLLEHLRDE 101 (180)
T ss_pred HHHhhhhhhhHHHHHHHHHHHHHcccccceEEEecCCCchHhHHHHHHHHHHHH
Confidence 357777788899997 9999999988 6888888888877666666543
No 143
>PRK04266 fibrillarin; Provisional
Probab=28.79 E-value=69 Score=33.56 Aligned_cols=35 Identities=9% Similarity=0.215 Sum_probs=26.5
Q ss_pred HHHHhhh-ccccccCCeEEeecCCcchhhHHHHHHH
Q 004523 560 KEIVDRL-HWYVRSGDTIVDFCCGANDFSCMMKVKL 594 (747)
Q Consensus 560 ~~i~~~l-~~~~~~gd~~vd~~cg~~~f~~l~~~~~ 594 (747)
..|...+ .--+.+|+.|+|++||...++..+-++.
T Consensus 59 ~~ll~~~~~l~i~~g~~VlD~G~G~G~~~~~la~~v 94 (226)
T PRK04266 59 AAILKGLKNFPIKKGSKVLYLGAASGTTVSHVSDIV 94 (226)
T ss_pred HHHHhhHhhCCCCCCCEEEEEccCCCHHHHHHHHhc
Confidence 3444433 2357899999999999999998887654
No 144
>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=28.32 E-value=23 Score=32.29 Aligned_cols=14 Identities=50% Similarity=1.113 Sum_probs=12.8
Q ss_pred CCCChhhhhhcCCh
Q 004523 507 GGCDIEDAKAVCPP 520 (747)
Q Consensus 507 ~g~~~~~aka~c~p 520 (747)
.|||++||||+|+.
T Consensus 42 kGCsidD~k~iC~~ 55 (92)
T PF05413_consen 42 KGCSIDDLKAICEK 55 (92)
T ss_pred CCCCHHHHHHHHhh
Confidence 59999999999975
No 145
>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=28.01 E-value=67 Score=25.05 Aligned_cols=45 Identities=16% Similarity=0.279 Sum_probs=31.1
Q ss_pred HHHHHHHHHhhccCCCCchHHhhccCCCCcccccCcccccccceecccchhhHHHHHHHHHHhhCCCCh
Q 004523 443 EMEKELLALIKDSTSSFNEEEFMKSHIVPITHAHHSKHLLEKSITLGLVEGSVKAVRAALEMLDGGCDI 511 (747)
Q Consensus 443 ~~e~r~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~i~~g~~~~sv~a~~~al~~l~~g~~~ 511 (747)
+++++||..+.+ .+.+|..++.+...++. .+|+..|++|++-|-|
T Consensus 3 ~~~~~Il~~l~~-~~~~t~~ela~~~~is~-----------------------~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 3 ETQRKILNYLRE-NPRITQKELAEKLGISR-----------------------STVNRYLKKLEEKGLI 47 (48)
T ss_dssp HHHHHHHHHHHH-CTTS-HHHHHHHHTS-H-----------------------HHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHHHH-cCCCCHHHHHHHhCCCH-----------------------HHHHHHHHHHHHCcCc
Confidence 678899999988 45599999888765543 4667777777765443
No 146
>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=26.77 E-value=69 Score=31.92 Aligned_cols=30 Identities=20% Similarity=0.634 Sum_probs=23.3
Q ss_pred HHHHHhhhccccccCCeEEeecCCcchhhHHHHH
Q 004523 559 LKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKV 592 (747)
Q Consensus 559 l~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~ 592 (747)
|.+|.+. +.+|++|+|+.||...+...+.+
T Consensus 4 ~~~i~~~----i~~~~~iLDiGcG~G~~~~~l~~ 33 (194)
T TIGR02081 4 LESILNL----IPPGSRVLDLGCGDGELLALLRD 33 (194)
T ss_pred HHHHHHh----cCCCCEEEEeCCCCCHHHHHHHh
Confidence 4455554 45899999999999999887754
No 147
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=26.76 E-value=90 Score=31.33 Aligned_cols=39 Identities=28% Similarity=0.474 Sum_probs=29.4
Q ss_pred cchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHH
Q 004523 553 FTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 553 ft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
+|+.|.-.-++.++. +.+|++|+|+.||.-.|+..+-+.
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 787775433455664 669999999999999998876554
No 148
>PRK06202 hypothetical protein; Provisional
Probab=26.71 E-value=56 Score=33.49 Aligned_cols=39 Identities=18% Similarity=0.194 Sum_probs=29.6
Q ss_pred ccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCC
Q 004523 571 RSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLI 609 (747)
Q Consensus 571 ~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~ 609 (747)
..+.+|+|+.||...++..+-+.+.+.|....+--.|+.
T Consensus 59 ~~~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~s 97 (232)
T PRK06202 59 DRPLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDPD 97 (232)
T ss_pred CCCcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcCC
Confidence 578899999999999998887766666655555555554
No 149
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=26.67 E-value=30 Score=29.96 Aligned_cols=34 Identities=24% Similarity=0.575 Sum_probs=12.7
Q ss_pred ccccCcCCccCCccccceeecc--cccccccccCCCC
Q 004523 215 KCFVCQQSEDMNVEDLQLAICR--RCPKAYHRKCLPT 249 (747)
Q Consensus 215 ~C~~Ck~~edk~~~~~qL~~C~--RCP~AYH~kCLP~ 249 (747)
.|..|...... ..+...+.|. +|...||..||-.
T Consensus 4 ~C~IC~~~~~~-~~~~p~~~C~n~~C~~~fH~~CL~~ 39 (70)
T PF11793_consen 4 ECGICYSYRLD-DGEIPDVVCPNPSCGKKFHLLCLSE 39 (70)
T ss_dssp S-SSS--SS-T-T-----B--S-TT----B-SGGGHH
T ss_pred CCCcCCcEecC-CCCcCceEcCCcccCCHHHHHHHHH
Confidence 57888876431 1123457897 9999999999944
No 150
>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=26.13 E-value=39 Score=39.15 Aligned_cols=42 Identities=21% Similarity=0.753 Sum_probs=32.6
Q ss_pred CceecccccccCccccccccCCCCCCCCCCceecccCCCcCCCCccccccc
Q 004523 136 PNFLCQNCVYQEHQCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSK 186 (747)
Q Consensus 136 ~~W~C~eC~~~~h~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~ 186 (747)
.+-+|..|. |.+|.+... ..++--++.| ..||.+-|..|.-.
T Consensus 122 ~~gFC~~C~-----C~iC~kfD~--~~n~~~Wi~C--d~CgH~cH~dCALr 163 (446)
T PF07227_consen 122 EPGFCRRCM-----CCICSKFDD--NKNTCSWIGC--DVCGHWCHLDCALR 163 (446)
T ss_pred CCCccccCC-----ccccCCccc--CCCCeeEEec--cCCCceehhhhhcc
Confidence 345688888 999998643 3356678999 68999999999644
No 151
>COG4798 Predicted methyltransferase [General function prediction only]
Probab=25.90 E-value=35 Score=36.10 Aligned_cols=49 Identities=16% Similarity=0.250 Sum_probs=42.5
Q ss_pred ccccccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCCCCCCC
Q 004523 567 HWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKNDF 615 (747)
Q Consensus 567 ~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~~~~~ 615 (747)
-|=|.+|+||||+.-|...|-+++..-+-..|+--.|-..+++-+++++
T Consensus 43 FaGlkpg~tVid~~PGgGy~TrI~s~~vgp~G~Vy~~~p~e~~~~~~~~ 91 (238)
T COG4798 43 FAGLKPGATVIDLIPGGGYFTRIFSPAVGPKGKVYAYVPAELTKFAKRE 91 (238)
T ss_pred EeccCCCCEEEEEecCCccHhhhhchhcCCceeEEEecchhhcccccch
Confidence 4779999999999999999999999988888877788888887766665
No 152
>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=25.86 E-value=14 Score=32.09 Aligned_cols=16 Identities=38% Similarity=1.045 Sum_probs=14.3
Q ss_pred CCcCCCCccccccccC
Q 004523 173 ATCGQFYHPECVSKLL 188 (747)
Q Consensus 173 ~~CGKfYH~~CL~~~l 188 (747)
+.||..||..|+..|+
T Consensus 48 ~~C~H~FH~~Ci~~Wl 63 (73)
T PF12678_consen 48 GPCGHIFHFHCISQWL 63 (73)
T ss_dssp ETTSEEEEHHHHHHHH
T ss_pred cccCCCEEHHHHHHHH
Confidence 5799999999998875
No 153
>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=25.64 E-value=15 Score=28.31 Aligned_cols=33 Identities=24% Similarity=0.609 Sum_probs=21.6
Q ss_pred cccccccCCCCCCCCCCceecccCCCcCCCCccccccccC
Q 004523 149 QCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLL 188 (747)
Q Consensus 149 ~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~l 188 (747)
.|.+|.+.-. .+..++.. .||..||..|+..|+
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 4667765322 12345543 599999999998874
No 154
>COG1307 DegV Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.57 E-value=2.1e+02 Score=31.18 Aligned_cols=97 Identities=20% Similarity=0.217 Sum_probs=65.8
Q ss_pred HHHHHHHHhhCCCChhhhhhcCChhhhhhHHHHhhccccccc---------------------------cccccc--ccc
Q 004523 497 AVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKLDVYLA---------------------------PFLHGM--RYT 547 (747)
Q Consensus 497 a~~~al~~l~~g~~~~~aka~c~p~~l~q~~~~~~kl~~~l~---------------------------p~l~g~--ry~ 547 (747)
.|..|.+|+++|.+.+++ ++.|..++++.+.|++ |+|+.. ++.
T Consensus 127 ~v~~a~~l~~~G~s~~ei--------~~~l~~~~~~t~~~~~v~~L~~L~kgGRIs~~~a~lg~lL~ikPIl~~~~G~~~ 198 (282)
T COG1307 127 LVLEAAELAKAGKSFEEI--------LKKLEEIREKTKAYFVVDDLDNLVKGGRISKAAAFLGNLLKIKPILSFEDGELV 198 (282)
T ss_pred HHHHHHHHHHcCCCHHHH--------HHHHHHHHhhcEEEEEECchhHHHhCCCcchhHHHHHhhhcceEEEEEeCCEEE
Confidence 566788899999998776 7777777777666643 555544 677
Q ss_pred ccCcccchhhhHHHHHhhhcccccc--CCeEEeecCCcchhhHHHHHHHHHcCCCc
Q 004523 548 SFGRHFTKVEKLKEIVDRLHWYVRS--GDTIVDFCCGANDFSCMMKVKLEQMGKSC 601 (747)
Q Consensus 548 s~grhft~~ekl~~i~~~l~~~~~~--gd~~vd~~cg~~~f~~l~~~~~~~~~~~~ 601 (747)
.+++-+|..--++.+++.+.=.+.+ +-+++=.--..+.--..+++++.+.+...
T Consensus 199 ~~~K~R~~kka~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~l~~~~~~~ 254 (282)
T COG1307 199 LLGKVRGQKKAIKKLIELLKKEVKDGAGYRVAVLHGDAPEAAEQLKEKLLNKFIEK 254 (282)
T ss_pred EEeecccHHHHHHHHHHHHHHHhccCCceEEEEEeCCchhHHHHHHHHHHhhcCCC
Confidence 8999999998888888887766643 33444444444444556666666655443
No 155
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=25.12 E-value=40 Score=39.15 Aligned_cols=34 Identities=21% Similarity=0.456 Sum_probs=22.3
Q ss_pred cccccccCCCCCCCCCCceecccCCCcCCCCccccccccC
Q 004523 149 QCFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLL 188 (747)
Q Consensus 149 ~CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~l 188 (747)
.|-+|-+.-.++ ...++. ..|.+.||-.|+..|.
T Consensus 177 TCpVCLERMD~s---~~gi~t---~~c~Hsfh~~cl~~w~ 210 (493)
T KOG0804|consen 177 TCPVCLERMDSS---TTGILT---ILCNHSFHCSCLMKWW 210 (493)
T ss_pred CcchhHhhcCcc---ccceee---eecccccchHHHhhcc
Confidence 577776554322 222332 6799999999999874
No 156
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=24.61 E-value=24 Score=27.10 Aligned_cols=20 Identities=30% Similarity=0.664 Sum_probs=13.8
Q ss_pred cceeecccccccccccCCCC
Q 004523 230 LQLAICRRCPKAYHRKCLPT 249 (747)
Q Consensus 230 ~qL~~C~RCP~AYH~kCLP~ 249 (747)
.+|+.|.+|..+.|..|.--
T Consensus 2 n~ll~C~~C~v~VH~~CYGv 21 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGV 21 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-
T ss_pred CceEEeCCCCCcCChhhCCc
Confidence 36899999999999999744
No 157
>TIGR00497 hsdM type I restriction system adenine methylase (hsdM). Function: methylation of specific adenine residues; required for both restriction and modification activities. The ECOR124/3 I enzyme recognizes 5'GAA(N7)RTCG. for E.coli see (J. Mol. Biol. 257: 960-969 (1996)).
Probab=24.42 E-value=44 Score=38.87 Aligned_cols=47 Identities=17% Similarity=0.134 Sum_probs=34.8
Q ss_pred ccccccccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhH
Q 004523 542 HGMRYTSFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSC 588 (747)
Q Consensus 542 ~g~ry~s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~ 588 (747)
-|.-||+-|-+||+.+-+.-+++-+-.--.++.+|-|+|||+..|-.
T Consensus 187 a~e~~t~~g~~~Tp~~Iv~l~~~~~~~~~dp~~~~~Dp~~Gsg~~L~ 233 (501)
T TIGR00497 187 AQNAGKSGGEFFTPQDISELLARIAIGKKDTVDDVYDMACGSGSLLL 233 (501)
T ss_pred HHhcCCcCceeeCcHHHHHHHHHHhccCCCCCCcccccccchHHHHH
Confidence 36778999999998875554444333333478899999999999874
No 158
>PRK11524 putative methyltransferase; Provisional
Probab=24.22 E-value=61 Score=34.76 Aligned_cols=34 Identities=24% Similarity=0.318 Sum_probs=23.3
Q ss_pred cccchhhhHHHHHhhh-ccccccCCeEEeecCCcchh
Q 004523 551 RHFTKVEKLKEIVDRL-HWYVRSGDTIVDFCCGANDF 586 (747)
Q Consensus 551 rhft~~ekl~~i~~~l-~~~~~~gd~~vd~~cg~~~f 586 (747)
.|.| +|=++++++| .-+=.+||+|+|+.+||.+=
T Consensus 188 ~HPt--~kP~~L~erlI~~~S~~GD~VLDPF~GSGTT 222 (284)
T PRK11524 188 NHPT--QKPEALLKRIILASSNPGDIVLDPFAGSFTT 222 (284)
T ss_pred cCcc--cChHHHHHHHHHHhCCCCCEEEECCCCCcHH
Confidence 4665 3334445554 34558999999999999874
No 159
>KOG4589 consensus Cell division protein FtsJ [Cell cycle control, cell division, chromosome partitioning]
Probab=23.83 E-value=52 Score=34.69 Aligned_cols=78 Identities=27% Similarity=0.403 Sum_probs=52.3
Q ss_pred hhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCCCCCCCccccccccccCCCCCCCCCce
Q 004523 557 EKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQPKNDFSFEKRDWMTVRPEELPDGSQL 636 (747)
Q Consensus 557 ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~~~~~~f~~~~w~~~~~~~l~~g~~l 636 (747)
.||.||.+|. =++.+||||+|.=|.-.+||+.-.+|-.-.| +-|- +++++=+-|+|-..
T Consensus 55 FKLiEindKy-~~l~p~~~VlD~G~APGsWsQVavqr~~p~g----------------~v~g----VDllh~~p~~Ga~~ 113 (232)
T KOG4589|consen 55 FKLIEINDKY-RFLRPEDTVLDCGAAPGSWSQVAVQRVNPNG----------------MVLG----VDLLHIEPPEGATI 113 (232)
T ss_pred hhheeehhhc-cccCCCCEEEEccCCCChHHHHHHHhhCCCc----------------eEEE----EeeeeccCCCCccc
Confidence 3899999985 5789999999999999999999888654222 1111 23444444677644
Q ss_pred eeecCCCcchhhhhHHHHHHhhh
Q 004523 637 IMGLNPPFGVKASLANKFISQAL 659 (747)
Q Consensus 637 i~glnppfg~~~~~a~kfi~~~~ 659 (747)
|-| | .+.-..+.+-|-.||
T Consensus 114 i~~-~---dvtdp~~~~ki~e~l 132 (232)
T KOG4589|consen 114 IQG-N---DVTDPETYRKIFEAL 132 (232)
T ss_pred ccc-c---ccCCHHHHHHHHHhC
Confidence 444 3 455556666666666
No 160
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=23.70 E-value=45 Score=36.40 Aligned_cols=25 Identities=32% Similarity=0.564 Sum_probs=15.1
Q ss_pred CCCcccccccCC-----CCCeeecCCccccc
Q 004523 84 ENYFAVCAICDD-----GGDVTFCDGRCLRS 109 (747)
Q Consensus 84 d~~DdVCaIC~d-----gGeLLcCdG~C~Rs 109 (747)
.+.+.+|..|+. ||.+..|. .|...
T Consensus 122 pl~da~C~EC~R~vw~hGGrif~Cs-fC~~f 151 (314)
T PF06524_consen 122 PLQDAVCIECERGVWDHGGRIFKCS-FCDNF 151 (314)
T ss_pred cCCCcEeeeeecccccCCCeEEEee-cCCCe
Confidence 344567777754 56777776 46543
No 161
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=23.63 E-value=37 Score=37.45 Aligned_cols=22 Identities=23% Similarity=0.537 Sum_probs=19.0
Q ss_pred cCCeEEeecCCcchhhHHHHHH
Q 004523 572 SGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 572 ~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
+|.+|+|++||...++..+.++
T Consensus 144 ~~~~VLDlGcGtG~~a~~la~~ 165 (315)
T PLN02585 144 AGVTVCDAGCGTGSLAIPLALE 165 (315)
T ss_pred CCCEEEEecCCCCHHHHHHHHC
Confidence 5889999999999998877763
No 162
>cd07168 NR_DBD_DHR4_like DNA-binding domain of ecdysone-induced DHR4 orphan nuclear receptor is composed of two C4-type zinc fingers. DNA-binding domain of ecdysone-induced DHR4 orphan nuclear receptor is composed of two C4-type zinc fingers. Each zinc finger contains a group of four Cys residues which coordinates a single zinc atom. This domain interacts with specific DNA sites upstream of the target gene and modulates the rate of transcriptional initiation. Ecdysone-induced orphan receptor DHR4 is a member of the nuclear receptor family. DHR4 is expressed during the early Drosophila larval development and is induced by ecdysone. DHR4 coordinates growth and maturation in Drosophila by mediating endocrine response to the attainment of proper body size during larval development. Mutations in DHR4 result in shorter larval development which translates into smaller and lighter flies. Like other members of the nuclear receptor (NR) superfamily of ligand-activated transcription factors, DHR4
Probab=23.44 E-value=63 Score=29.45 Aligned_cols=28 Identities=32% Similarity=0.832 Sum_probs=20.4
Q ss_pred CcccccccCCCCC-----eeecCCcccccccccc
Q 004523 86 YFAVCAICDDGGD-----VTFCDGRCLRSFHATI 114 (747)
Q Consensus 86 ~DdVCaIC~dgGe-----LLcCdG~C~RsFH~~C 114 (747)
....|.||++... .+.|.+ |.-.|.-..
T Consensus 5 ~~~~C~VCg~~~~g~hyGv~sC~a-Ck~FFRR~v 37 (90)
T cd07168 5 SPKLCSICEDKATGLHYGIITCEG-CKGFFKRTV 37 (90)
T ss_pred cCCCCcccCCcCcceEECceehhh-hhHhhhhhh
Confidence 3557999987532 678986 988887663
No 163
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=23.39 E-value=59 Score=37.19 Aligned_cols=25 Identities=24% Similarity=0.498 Sum_probs=20.7
Q ss_pred cccCCeEEeecCCcchhhHHHHHHH
Q 004523 570 VRSGDTIVDFCCGANDFSCMMKVKL 594 (747)
Q Consensus 570 ~~~gd~~vd~~cg~~~f~~l~~~~~ 594 (747)
.++|++|+|+|||...++..|-+.+
T Consensus 248 ~~~g~~VLDlgaG~G~kt~~la~~~ 272 (445)
T PRK14904 248 PQPGSTVLDLCAAPGGKSTFMAELM 272 (445)
T ss_pred CCCCCEEEEECCCCCHHHHHHHHHh
Confidence 4789999999999999887766544
No 164
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=23.32 E-value=42 Score=27.24 Aligned_cols=36 Identities=25% Similarity=0.576 Sum_probs=20.2
Q ss_pred ccccccCCCCCCCCCCceecccCCCcCCCCccccccccC
Q 004523 150 CFACGMLGSSDKSSSQEVFPCVSATCGQFYHPECVSKLL 188 (747)
Q Consensus 150 CfvCgk~Gssd~ss~aeV~kCsv~~CGKfYH~~CL~~~l 188 (747)
|.+|...+.. ...-+..|.-..--+++|..|+..|+
T Consensus 2 CrIC~~~~~~---~~~l~~PC~C~G~~~~vH~~Cl~~W~ 37 (49)
T smart00744 2 CRICHDEGDE---GDPLVSPCRCKGSLKYVHQECLERWI 37 (49)
T ss_pred ccCCCCCCCC---CCeeEeccccCCchhHHHHHHHHHHH
Confidence 6677652211 11223345323334899999999885
No 165
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=23.20 E-value=57 Score=37.18 Aligned_cols=24 Identities=17% Similarity=0.354 Sum_probs=20.4
Q ss_pred cccCCeEEeecCCcchhhHHHHHH
Q 004523 570 VRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 570 ~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
+++|++|+|+|||...++..|-++
T Consensus 250 ~~~g~~VLDl~ag~G~kt~~la~~ 273 (434)
T PRK14901 250 PQPGEVILDACAAPGGKTTHIAEL 273 (434)
T ss_pred CCCcCEEEEeCCCCchhHHHHHHH
Confidence 578999999999999988777654
No 166
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=22.98 E-value=93 Score=31.56 Aligned_cols=26 Identities=12% Similarity=0.202 Sum_probs=21.6
Q ss_pred cccccCCeEEeecCCcchhhHHHHHH
Q 004523 568 WYVRSGDTIVDFCCGANDFSCMMKVK 593 (747)
Q Consensus 568 ~~~~~gd~~vd~~cg~~~f~~l~~~~ 593 (747)
+|-++++.|+|+.||...++..+.++
T Consensus 36 ~~~~~~~~VLDiGcGtG~~~~~la~~ 61 (202)
T PRK00121 36 LFGNDAPIHLEIGFGKGEFLVEMAKA 61 (202)
T ss_pred HcCCCCCeEEEEccCCCHHHHHHHHH
Confidence 34557899999999999999988664
No 167
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=22.76 E-value=64 Score=25.70 Aligned_cols=34 Identities=29% Similarity=0.390 Sum_probs=24.2
Q ss_pred cccccCcCCccCCccccceeecccccccccccCCCC
Q 004523 214 HKCFVCQQSEDMNVEDLQLAICRRCPKAYHRKCLPT 249 (747)
Q Consensus 214 H~C~~Ck~~edk~~~~~qL~~C~RCP~AYH~kCLP~ 249 (747)
.+|..|++.=-. ...+-++|..|...+|.+|++.
T Consensus 12 ~~C~~C~~~i~g--~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 12 TYCDVCGKFIWG--LGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp EB-TTSSSBECS--SSSCEEEETTTT-EEETTGGCT
T ss_pred CCCcccCcccCC--CCCCeEEECCCCChHhhhhhhh
Confidence 378899875311 2356789999999999999976
No 168
>PF13847 Methyltransf_31: Methyltransferase domain; PDB: 3T0I_B 3SVZ_B 3SXJ_A 3F4K_A 3GU3_B 2GH1_A 1R8Y_E 1R8X_B 2B3T_A 1T43_A ....
Probab=22.59 E-value=1.5e+02 Score=28.10 Aligned_cols=97 Identities=18% Similarity=0.306 Sum_probs=52.5
Q ss_pred ccCCeEEeecCCcchhhHHHHHHHHHcCCCccccCCCCCCC-------------CCCCccccccccccCCCCCCCCCcee
Q 004523 571 RSGDTIVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQP-------------KNDFSFEKRDWMTVRPEELPDGSQLI 637 (747)
Q Consensus 571 ~~gd~~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~-------------~~~~~f~~~~w~~~~~~~l~~g~~li 637 (747)
+.+.+|+|+.||.-.+...|-++ .+....+-..|+.+. -.+..|...|+.++... ++..=-+|
T Consensus 2 ~~~~~iLDlGcG~G~~~~~l~~~---~~~~~~i~gvD~s~~~i~~a~~~~~~~~~~ni~~~~~d~~~l~~~-~~~~~D~I 77 (152)
T PF13847_consen 2 KSNKKILDLGCGTGRLLIQLAKE---LNPGAKIIGVDISEEMIEYAKKRAKELGLDNIEFIQGDIEDLPQE-LEEKFDII 77 (152)
T ss_dssp TTTSEEEEET-TTSHHHHHHHHH---STTTSEEEEEESSHHHHHHHHHHHHHTTSTTEEEEESBTTCGCGC-SSTTEEEE
T ss_pred CCCCEEEEecCcCcHHHHHHHHh---cCCCCEEEEEECcHHHHHHhhcccccccccccceEEeehhccccc-cCCCeeEE
Confidence 56889999999999999888762 332333444444331 12567888888886655 55333355
Q ss_pred eecCCCcchhhhhHHHHHHhhh-hcCCcEEEEecCcc
Q 004523 638 MGLNPPFGVKASLANKFISQAL-KFKPKLIVLIVPQE 673 (747)
Q Consensus 638 ~glnppfg~~~~~a~kfi~~~~-~f~p~~~~li~p~~ 673 (747)
+. +++|..-. .-.+++..+. -.+|.=+++++...
T Consensus 78 ~~-~~~l~~~~-~~~~~l~~~~~~lk~~G~~i~~~~~ 112 (152)
T PF13847_consen 78 IS-NGVLHHFP-DPEKVLKNIIRLLKPGGILIISDPN 112 (152)
T ss_dssp EE-ESTGGGTS-HHHHHHHHHHHHEEEEEEEEEEEEE
T ss_pred EE-cCchhhcc-CHHHHHHHHHHHcCCCcEEEEEECC
Confidence 55 45553222 1223333332 23445444444443
No 169
>PF03960 ArsC: ArsC family; InterPro: IPR006660 Several bacterial taxon have a chromosomal resistance system, encoded by the ars operon, for the detoxification of arsenate, arsenite, and antimonite []. This system transports arsenite and antimonite out of the cell. The pump is composed of two polypeptides, the products of the arsA and arsB genes. This two-subunit enzyme produces resistance to arsenite and antimonite. Arsenate, however, must first be reduced to arsenite before it is extruded. A third gene, arsC, expands the substrate specificity to allow for arsenate pumping and resistance. ArsC is an approximately 150-residue arsenate reductase that uses reduced glutathione (GSH) to convert arsenate to arsenite with a redox active cysteine residue in the active site. ArsC forms an active quaternary complex with GSH, arsenate, and glutaredoxin 1 (Grx1). The three ligands must be present simultaneously for reduction to occur []. The arsC family also comprises the Spx proteins which are GRAM-positive bacterial transcription factors that regulate the transcription of multiple genes in response to disulphide stress []. The arsC protein structure has been solved []. It belongs to the thioredoxin superfamily fold which is defined by a beta-sheet core surrounded by alpha-helices. The active cysteine residue of ArsC is located in the loop between the first beta-strand and the first helix, which is also conserved in the Spx protein and its homologues.; PDB: 2KOK_A 1SK1_A 1SK2_A 1JZW_A 1J9B_A 1S3C_A 1SD8_A 1SD9_A 1I9D_A 1SK0_A ....
Probab=22.56 E-value=1.4e+02 Score=27.49 Aligned_cols=80 Identities=16% Similarity=0.194 Sum_probs=54.7
Q ss_pred HHHHHHHHhhC-CCChhhhhhcCChhhhhhHHHHhhcccccccccc--ccccccccC----cccchhhhHHHHHhhh---
Q 004523 497 AVRAALEMLDG-GCDIEDAKAVCPPEILCQIFQWKRKLDVYLAPFL--HGMRYTSFG----RHFTKVEKLKEIVDRL--- 566 (747)
Q Consensus 497 a~~~al~~l~~-g~~~~~aka~c~p~~l~q~~~~~~kl~~~l~p~l--~g~ry~s~g----rhft~~ekl~~i~~~l--- 566 (747)
.+|.|++.|++ |..++...-.=+|-.-.+|..|-.++.+-+.-+| .|..|...| ..+|.-|-+..|++..
T Consensus 8 t~rka~~~L~~~gi~~~~~d~~k~p~s~~el~~~l~~~~~~~~~lin~~~~~~k~l~~~~~~~~s~~e~i~~l~~~p~Li 87 (110)
T PF03960_consen 8 TCRKALKWLEENGIEYEFIDYKKEPLSREELRELLSKLGNGPDDLINTRSKTYKELGKLKKDDLSDEELIELLLENPKLI 87 (110)
T ss_dssp HHHHHHHHHHHTT--EEEEETTTS---HHHHHHHHHHHTSSGGGGB-TTSHHHHHTTHHHCTTSBHHHHHHHHHHSGGGB
T ss_pred HHHHHHHHHHHcCCCeEeehhhhCCCCHHHHHHHHHHhcccHHHHhcCccchHhhhhhhhhhhhhhHHHHHHHHhChhhe
Confidence 45677777777 7677666555577888899999999987777777 677888888 6677777777777765
Q ss_pred -ccccccCCeE
Q 004523 567 -HWYVRSGDTI 576 (747)
Q Consensus 567 -~~~~~~gd~~ 576 (747)
.+-|..|+.+
T Consensus 88 kRPIi~~~~~~ 98 (110)
T PF03960_consen 88 KRPIIVDGKKA 98 (110)
T ss_dssp -SSEEEETTEE
T ss_pred eCCEEEECCEE
Confidence 4555556554
No 170
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=22.27 E-value=50 Score=34.43 Aligned_cols=34 Identities=21% Similarity=0.136 Sum_probs=21.8
Q ss_pred CCCCcccccccCCCCCeeecCCccccccccccccC
Q 004523 83 DENYFAVCAICDDGGDVTFCDGRCLRSFHATITAG 117 (747)
Q Consensus 83 dd~~DdVCaIC~dgGeLLcCdG~C~RsFH~~C~~g 117 (747)
+...+..|.||.+.-.--.-. .|.-.|+..|+..
T Consensus 14 ~~~~~~~CpICld~~~dPVvT-~CGH~FC~~CI~~ 47 (193)
T PLN03208 14 DSGGDFDCNICLDQVRDPVVT-LCGHLFCWPCIHK 47 (193)
T ss_pred cCCCccCCccCCCcCCCcEEc-CCCchhHHHHHHH
Confidence 444467899998764311112 5888888887654
No 171
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=21.90 E-value=44 Score=38.92 Aligned_cols=31 Identities=19% Similarity=0.421 Sum_probs=24.3
Q ss_pred CCCCcccccccCCCCCeeecCCcccccccccc
Q 004523 83 DENYFAVCAICDDGGDVTFCDGRCLRSFHATI 114 (747)
Q Consensus 83 dd~~DdVCaIC~dgGeLLcCdG~C~RsFH~~C 114 (747)
.....++|++|.+||.++.|+ +|..++|..|
T Consensus 85 ~~~~~~~c~vc~~ggs~v~~~-s~~~~~~r~c 115 (463)
T KOG1081|consen 85 PKIEPSECFVCFKGGSLVTCK-SRIQAPHRKC 115 (463)
T ss_pred cCCCcchhccccCCCccceec-cccccccccC
Confidence 334478999999999999999 4666667775
No 172
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=21.81 E-value=26 Score=43.40 Aligned_cols=51 Identities=20% Similarity=0.401 Sum_probs=36.1
Q ss_pred CcccccccCCC----CCeeecCCccccccccccccCccccccccCCcccccCCCCceecccccc
Q 004523 86 YFAVCAICDDG----GDVTFCDGRCLRSFHATITAGKNALCQSLGYTQAQIDAVPNFLCQNCVY 145 (747)
Q Consensus 86 ~DdVCaIC~dg----GeLLcCdG~C~RsFH~~C~~g~~s~C~~LGlt~~ev~~~~~W~C~eC~~ 145 (747)
....|.||.+. -.+..|. .|+..||+.|+..+... .+......|.|+.|.+
T Consensus 190 ~~yeCmIC~e~I~~t~~~WSC~-sCYhVFHl~CI~~WArs--------~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 190 RKYECMICTERIKRTAPVWSCK-SCYHVFHLNCIKKWARS--------SEKTGQDGWRCPACQS 244 (950)
T ss_pred CceEEEEeeeeccccCCceecc-hhhhhhhHHHHHHHHHH--------hhhccCccccCCcccc
Confidence 34569999864 3488998 59999999987654321 1222246899999995
No 173
>KOG3996 consensus Holocytochrome c synthase/heme-lyase [Energy production and conversion; Posttranslational modification, protein turnover, chaperones]
Probab=21.75 E-value=2.2e+02 Score=30.64 Aligned_cols=59 Identities=19% Similarity=0.379 Sum_probs=33.7
Q ss_pred hhhHHHHhhccccccccccccccccccCcc---cchhhhHH-------HHHhhhccccccCCe----EEeecCCcch
Q 004523 523 LCQIFQWKRKLDVYLAPFLHGMRYTSFGRH---FTKVEKLK-------EIVDRLHWYVRSGDT----IVDFCCGAND 585 (747)
Q Consensus 523 l~q~~~~~~kl~~~l~p~l~g~ry~s~grh---ft~~ekl~-------~i~~~l~~~~~~gd~----~vd~~cg~~~ 585 (747)
-+.|++|++. .|+=-+|.+-++|+-. +|+---.+ -=.||.-|+|+-++. |+||+-|..+
T Consensus 147 WqeIl~WE~~----~~~ec~~PKL~~F~G~ak~lsPRAr~r~~~lgyelPFDRHDWiV~Rcgk~VrYVIDyY~g~~v 219 (256)
T KOG3996|consen 147 WQEILKWEAL----HAEECGGPKLLRFKGKAKKLSPRARFRSSWLGYELPFDRHDWIVDRCGKEVRYVIDYYDGPDV 219 (256)
T ss_pred HHHHHHHHhc----CCcccCCceeeeecCccccCCHHHHHHHHhcccCCCcchhhhhhhcCCceEEEEEEeccCCcc
Confidence 5566666643 3555555555555532 22222211 124677899988765 7899887654
No 174
>PRK10458 DNA cytosine methylase; Provisional
Probab=21.74 E-value=2e+02 Score=33.65 Aligned_cols=24 Identities=17% Similarity=0.463 Sum_probs=19.9
Q ss_pred eEEeecCCcchhhHHHHHHHHHcCCCcc
Q 004523 575 TIVDFCCGANDFSCMMKVKLEQMGKSCS 602 (747)
Q Consensus 575 ~~vd~~cg~~~f~~l~~~~~~~~~~~~~ 602 (747)
+++|++||...|+.=++. .|..|-
T Consensus 90 ~~iDLFsGiGGl~lGfe~----aG~~~v 113 (467)
T PRK10458 90 RFIDLFAGIGGIRRGFEA----IGGQCV 113 (467)
T ss_pred eEEEeCcCccHHHHHHHH----cCCEEE
Confidence 699999999999988754 677773
No 175
>PF01135 PCMT: Protein-L-isoaspartate(D-aspartate) O-methyltransferase (PCMT); InterPro: IPR000682 Protein-L-isoaspartate(D-aspartate) O-methyltransferase (2.1.1.77 from EC) (PCMT) [] (which is also known as L-isoaspartyl protein carboxyl methyltransferase) is an enzyme that catalyses the transfer of a methyl group from S-adenosylmethionine to the free carboxyl groups of D-aspartyl or L-isoaspartyl residues in a variety of peptides and proteins. The enzyme does not act on normal L-aspartyl residues L-isoaspartyl and D-aspartyl are the products of the spontaneous deamidation and/or isomerisation of normal L-aspartyl and L-asparaginyl residues in proteins. PCMT plays a role in the repair and/or degradation of these damaged proteins; the enzymatic methyl esterification of the abnormal residues can lead to their conversion to normal L-aspartyl residues. The SAM domain is present in most of these proteins.; GO: 0004719 protein-L-isoaspartate (D-aspartate) O-methyltransferase activity, 0006464 protein modification process; PDB: 3LBF_A 1DL5_B 1JG3_B 1JG2_A 1JG1_A 1JG4_A 2YXE_A 2PBF_B 1VBF_C 1R18_A ....
Probab=21.49 E-value=1.2e+02 Score=31.44 Aligned_cols=49 Identities=12% Similarity=0.380 Sum_probs=37.8
Q ss_pred ccCcccchhhhHHHHHhhhccccccCCeEEeecCCcchhhHHHHHHHHHcC
Q 004523 548 SFGRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCGANDFSCMMKVKLEQMG 598 (747)
Q Consensus 548 s~grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~~l~~~~~~~~~ 598 (747)
.+|++-+.|.-.-.+.+-|- +++|++|+|.=+|+--++.+|-......|
T Consensus 50 ~~~~~is~P~~~a~~l~~L~--l~pg~~VLeIGtGsGY~aAlla~lvg~~g 98 (209)
T PF01135_consen 50 GCGQTISAPSMVARMLEALD--LKPGDRVLEIGTGSGYQAALLAHLVGPVG 98 (209)
T ss_dssp ETTEEE--HHHHHHHHHHTT--C-TT-EEEEES-TTSHHHHHHHHHHSTTE
T ss_pred cceeechHHHHHHHHHHHHh--cCCCCEEEEecCCCcHHHHHHHHhcCccc
Confidence 57899999998888999888 99999999999999999999988654443
No 176
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=21.41 E-value=37 Score=31.14 Aligned_cols=25 Identities=32% Similarity=0.682 Sum_probs=16.1
Q ss_pred ccccCCCCC---eeecCCcccccccccccc
Q 004523 90 CAICDDGGD---VTFCDGRCLRSFHATITA 116 (747)
Q Consensus 90 CaIC~dgGe---LLcCdG~C~RsFH~~C~~ 116 (747)
|..|.-+|+ |+ -|.|.-.||..|+.
T Consensus 35 Cp~Ck~Pgd~Cplv--~g~C~H~FH~hCI~ 62 (85)
T PF12861_consen 35 CPDCKFPGDDCPLV--WGKCSHNFHMHCIL 62 (85)
T ss_pred CCCccCCCCCCcee--eccCccHHHHHHHH
Confidence 333444554 44 35699999999854
No 177
>PTZ00487 ceramidase; Provisional
Probab=21.09 E-value=85 Score=38.64 Aligned_cols=72 Identities=17% Similarity=0.217 Sum_probs=48.5
Q ss_pred cccCCCCCChHHHHHHHHHhhccCC--CCchHHhhccCCCCcccccCcccccccce----ec-c--------cchhhHHH
Q 004523 433 VNISQPSVDAEMEKELLALIKDSTS--SFNEEEFMKSHIVPITHAHHSKHLLEKSI----TL-G--------LVEGSVKA 497 (747)
Q Consensus 433 ~~~s~~~~d~~~e~r~~~~~~~~~~--~~~~~~~~~~~~~~~t~~~~~~~~~~~~i----~~-g--------~~~~sv~a 497 (747)
++.-+..++.+.-.+|++.+++... -++.+.|. +..||||++-....... +. | .|+|.|+|
T Consensus 93 Vs~Dl~~i~~~v~~~V~~~L~~~~Gi~~y~~~NVl----lsATHTHSGPgg~~~~~l~~~ts~Gf~~qy~~~lvdgIv~A 168 (715)
T PTZ00487 93 VSTDSCMIFQEVKIGVVPKLQEIFGPDLYTLDNVL----LSGTHTHSGPAGFSFYALYGITTLGFYKKNFDTICEGIVQA 168 (715)
T ss_pred EEEcccCCCHHHHHHHHHHHHHHhCcCcCChhhEE----EEeeecCCCCcccccccccccccccccHHHHHHHHHHHHHH
Confidence 3455667778888889988876653 34555543 56778888765322111 11 1 58999999
Q ss_pred HHHHHHHhhCC
Q 004523 498 VRAALEMLDGG 508 (747)
Q Consensus 498 ~~~al~~l~~g 508 (747)
|+.|.+.|+.+
T Consensus 169 I~~A~~nL~Pa 179 (715)
T PTZ00487 169 IVKAHKSVQPA 179 (715)
T ss_pred HHHHHhcCCcE
Confidence 99999988875
No 178
>PRK13699 putative methylase; Provisional
Probab=20.99 E-value=64 Score=33.79 Aligned_cols=22 Identities=9% Similarity=0.224 Sum_probs=17.9
Q ss_pred ccccccCCeEEeecCCcchhhH
Q 004523 567 HWYVRSGDTIVDFCCGANDFSC 588 (747)
Q Consensus 567 ~~~~~~gd~~vd~~cg~~~f~~ 588 (747)
.-|-++||+|+|+.|||.+.--
T Consensus 158 ~~~s~~g~~vlDpf~Gsgtt~~ 179 (227)
T PRK13699 158 ESFTHPNAIVLDPFAGSGSTCV 179 (227)
T ss_pred HHhCCCCCEEEeCCCCCCHHHH
Confidence 3567899999999999987543
No 179
>PF12847 Methyltransf_18: Methyltransferase domain; PDB: 3G2Q_A 3G2O_A 3G2M_B 3G2P_B 3D2L_B 1IM8_B 3NJR_A 3E05_H 3EVZ_A 3HM2_A ....
Probab=20.96 E-value=88 Score=27.57 Aligned_cols=21 Identities=24% Similarity=0.605 Sum_probs=19.3
Q ss_pred cCCeEEeecCCcchhhHHHHH
Q 004523 572 SGDTIVDFCCGANDFSCMMKV 592 (747)
Q Consensus 572 ~gd~~vd~~cg~~~f~~l~~~ 592 (747)
+|.+|+|+.||...++..+.+
T Consensus 1 p~~~vLDlGcG~G~~~~~l~~ 21 (112)
T PF12847_consen 1 PGGRVLDLGCGTGRLSIALAR 21 (112)
T ss_dssp TTCEEEEETTTTSHHHHHHHH
T ss_pred CCCEEEEEcCcCCHHHHHHHh
Confidence 689999999999999998877
No 180
>KOG1098 consensus Putative SAM-dependent rRNA methyltransferase SPB1 [RNA processing and modification; General function prediction only]
Probab=20.94 E-value=45 Score=40.33 Aligned_cols=31 Identities=13% Similarity=0.410 Sum_probs=25.6
Q ss_pred hhhHHHHHhhhccccccCCeEEeecCCcchhh
Q 004523 556 VEKLKEIVDRLHWYVRSGDTIVDFCCGANDFS 587 (747)
Q Consensus 556 ~ekl~~i~~~l~~~~~~gd~~vd~~cg~~~f~ 587 (747)
..||.+|..+. =|++++-.|+|+||.-..|.
T Consensus 29 aFKLlQln~ky-~fl~~a~~vlDLcaAPG~W~ 59 (780)
T KOG1098|consen 29 AFKLLQLNKKY-KFLEKAHVVLDLCAAPGGWL 59 (780)
T ss_pred HHHHHHHHHHh-ccccccchheeeccCCcHHH
Confidence 34899999998 58999999999999765443
No 181
>PF00145 DNA_methylase: C-5 cytosine-specific DNA methylase; InterPro: IPR001525 C-5 cytosine-specific DNA methylases (2.1.1.37 from EC) (C5 Mtase) are enzymes that specifically methylate the C-5 carbon of cytosines in DNA to produce C5-methylcytosine [, , ]. In mammalian cells, cytosine-specific methyltransferases methylate certain CpG sequences, which are believed to modulate gene expression and cell differentiation. In bacteria, these enzymes are a component of restriction-modification systems and serve as valuable tools for the manipulation of DNA [, ]. The structure of HhaI methyltransferase (M.HhaI) has been resolved to 2.5 A []: the molecule folds into 2 domains - a larger catalytic domain containing catalytic and cofactor binding sites, and a smaller DNA recognition domain.; GO: 0003677 DNA binding, 0006306 DNA methylation; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 1DCT_A 3LX6_A 3ME5_A 2QRV_A ....
Probab=20.75 E-value=35 Score=35.81 Aligned_cols=81 Identities=27% Similarity=0.504 Sum_probs=48.7
Q ss_pred eEEeecCCcchhhHHHHHHHHHcCCCccc-------------cCCCCCCCCCCCccccccccccCCCCCC-CCCceeeec
Q 004523 575 TIVDFCCGANDFSCMMKVKLEQMGKSCSF-------------RNYDLIQPKNDFSFEKRDWMTVRPEELP-DGSQLIMGL 640 (747)
Q Consensus 575 ~~vd~~cg~~~f~~l~~~~~~~~~~~~~~-------------kn~d~~~~~~~~~f~~~~w~~~~~~~l~-~g~~li~gl 640 (747)
++|||+||.-.|+.=+++ .|-.|-+ .||. ...-.|=-.+++..|| .=+ ||+|=
T Consensus 2 ~~~dlFsG~Gg~~~g~~~----ag~~~~~a~e~~~~a~~~y~~N~~--------~~~~~Di~~~~~~~l~~~~D-~l~gg 68 (335)
T PF00145_consen 2 KVIDLFSGIGGFSLGLEQ----AGFEVVWAVEIDPDACETYKANFP--------EVICGDITEIDPSDLPKDVD-LLIGG 68 (335)
T ss_dssp EEEEET-TTTHHHHHHHH----TTEEEEEEEESSHHHHHHHHHHHT--------EEEESHGGGCHHHHHHHT-S-EEEEE
T ss_pred cEEEEccCccHHHHHHHh----cCcEEEEEeecCHHHHHhhhhccc--------ccccccccccccccccccce-EEEec
Confidence 689999999999887665 6643322 2332 2222333444455677 344 55554
Q ss_pred CC--Ccch----------hhhhHHHHHHhhhhcCCcEEEE
Q 004523 641 NP--PFGV----------KASLANKFISQALKFKPKLIVL 668 (747)
Q Consensus 641 np--pfg~----------~~~~a~kfi~~~~~f~p~~~~l 668 (747)
.| ||.. ++.|...|++-+-.+||+++|+
T Consensus 69 pPCQ~fS~ag~~~~~~d~r~~L~~~~~~~v~~~~Pk~~~~ 108 (335)
T PF00145_consen 69 PPCQGFSIAGKRKGFDDPRNSLFFEFLRIVKELKPKYFLL 108 (335)
T ss_dssp ---TTTSTTSTHHCCCCHTTSHHHHHHHHHHHHS-SEEEE
T ss_pred cCCceEeccccccccccccchhhHHHHHHHhhccceEEEe
Confidence 66 5643 3357888999999999999877
No 182
>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=20.50 E-value=41 Score=36.76 Aligned_cols=88 Identities=23% Similarity=0.427 Sum_probs=53.0
Q ss_pred EEeecCCcchhhHHHHHHHHHcCCCccccCCCCCCC-----CCCC--ccccccccccCCCCCCCCCceeeecCC--Ccc-
Q 004523 576 IVDFCCGANDFSCMMKVKLEQMGKSCSFRNYDLIQP-----KNDF--SFEKRDWMTVRPEELPDGSQLIMGLNP--PFG- 645 (747)
Q Consensus 576 ~vd~~cg~~~f~~l~~~~~~~~~~~~~~kn~d~~~~-----~~~~--~f~~~~w~~~~~~~l~~g~~li~glnp--pfg- 645 (747)
|+||+||+-.++.=++. .|-.+-+ .+|+-+. +.+| .+...|=-++.+.++|.-+-|+.| .| +|.
T Consensus 1 vidLF~G~GG~~~Gl~~----aG~~~~~-a~e~~~~a~~ty~~N~~~~~~~~Di~~~~~~~~~~~dvl~gg-~PCq~fS~ 74 (315)
T TIGR00675 1 FIDLFAGIGGIRLGFEQ----AGFKCVF-ASEIDKYAQKTYEANFGNKVPFGDITKISPSDIPDFDILLGG-FPCQPFSI 74 (315)
T ss_pred CEEEecCccHHHHHHHH----cCCeEEE-EEeCCHHHHHHHHHhCCCCCCccChhhhhhhhCCCcCEEEec-CCCcccch
Confidence 68999999999976654 5644322 1111000 0000 222356666777778876644444 55 554
Q ss_pred ---------hhhhhHHHHHHhhhhcCCcEEEEe
Q 004523 646 ---------VKASLANKFISQALKFKPKLIVLI 669 (747)
Q Consensus 646 ---------~~~~~a~kfi~~~~~f~p~~~~li 669 (747)
.++.|...|++-+-.++|+++|+=
T Consensus 75 ag~~~~~~d~r~~L~~~~~r~i~~~~P~~~v~E 107 (315)
T TIGR00675 75 AGKRKGFEDTRGTLFFEIVRILKEKKPKFFLLE 107 (315)
T ss_pred hcccCCCCCchhhHHHHHHHHHhhcCCCEEEee
Confidence 345677788888889999988763
No 183
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=20.48 E-value=1.3e+02 Score=33.40 Aligned_cols=61 Identities=26% Similarity=0.539 Sum_probs=44.6
Q ss_pred HHhhcccccccccccccccc-----------------------cc--CcccchhhhHHHHHhhhccccccCCeEEeecCC
Q 004523 528 QWKRKLDVYLAPFLHGMRYT-----------------------SF--GRHFTKVEKLKEIVDRLHWYVRSGDTIVDFCCG 582 (747)
Q Consensus 528 ~~~~kl~~~l~p~l~g~ry~-----------------------s~--grhft~~ekl~~i~~~l~~~~~~gd~~vd~~cg 582 (747)
-|.+.-+=|+-|+.-|.|.+ .| |.|=|..-+|+-+= -|+++|.+|+|+=||
T Consensus 97 DW~~~wk~~~~P~rig~~f~I~Psw~~~~~~~~~~~i~lDPGlAFGTG~HpTT~lcL~~Le----~~~~~g~~vlDvGcG 172 (300)
T COG2264 97 DWEREWKKYFHPVRIGERFVIVPSWREYPEPSDELNIELDPGLAFGTGTHPTTSLCLEALE----KLLKKGKTVLDVGCG 172 (300)
T ss_pred HHHHHHHhcCCcEEeeeeEEECCCCccCCCCCCceEEEEccccccCCCCChhHHHHHHHHH----HhhcCCCEEEEecCC
Confidence 35555555667877777654 12 67778777666544 466799999999999
Q ss_pred cchhhHHHHH
Q 004523 583 ANDFSCMMKV 592 (747)
Q Consensus 583 ~~~f~~l~~~ 592 (747)
|..++--+.+
T Consensus 173 SGILaIAa~k 182 (300)
T COG2264 173 SGILAIAAAK 182 (300)
T ss_pred hhHHHHHHHH
Confidence 9999999887
No 184
>COG3028 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.39 E-value=76 Score=32.72 Aligned_cols=33 Identities=30% Similarity=0.441 Sum_probs=28.4
Q ss_pred hHHHHHHHHHHhhCCCChhhhhhcCChhhhhhHHHHhhcc
Q 004523 494 SVKAVRAALEMLDGGCDIEDAKAVCPPEILCQIFQWKRKL 533 (747)
Q Consensus 494 sv~a~~~al~~l~~g~~~~~aka~c~p~~l~q~~~~~~kl 533 (747)
-|++||+||.+|++.+..+-| -|..|.+|.+.|
T Consensus 94 DvepI~~~Ldkl~~~~~q~~a-------~lHklE~~RdrL 126 (187)
T COG3028 94 DVEPIRAALDKLRNRHNQQVA-------LLHKLEQLRDRL 126 (187)
T ss_pred ChHHHHHHHHHHhhhHHHHHH-------HHHHHHHHHHHH
Confidence 689999999999998887666 488899998776
No 185
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=20.36 E-value=43 Score=37.79 Aligned_cols=27 Identities=30% Similarity=0.789 Sum_probs=21.4
Q ss_pred cccccccCCC--C---CeeecCCcccccccccc
Q 004523 87 FAVCAICDDG--G---DVTFCDGRCLRSFHATI 114 (747)
Q Consensus 87 DdVCaIC~dg--G---eLLcCdG~C~RsFH~~C 114 (747)
+..|.+|++- | -||.|+ +|...|..+.
T Consensus 15 ~ElCPVCGDkVSGYHYGLLTCE-SCKGFFKRTV 46 (475)
T KOG4218|consen 15 GELCPVCGDKVSGYHYGLLTCE-SCKGFFKRTV 46 (475)
T ss_pred ccccccccCccccceeeeeehh-hhhhHHHHHh
Confidence 5789999974 3 299999 6999997763
No 186
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=20.31 E-value=55 Score=30.35 Aligned_cols=22 Identities=32% Similarity=0.711 Sum_probs=19.0
Q ss_pred CceecccccccCccccccccCC
Q 004523 136 PNFLCQNCVYQEHQCFACGMLG 157 (747)
Q Consensus 136 ~~W~C~eC~~~~h~CfvCgk~G 157 (747)
+.-+|..|.+....|-.||+.-
T Consensus 58 g~~YCq~CAYkkGiCamCGKki 79 (90)
T PF10235_consen 58 GAKYCQTCAYKKGICAMCGKKI 79 (90)
T ss_pred CCccChhhhcccCcccccCCee
Confidence 5578999999999999999753
No 187
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=20.22 E-value=64 Score=27.95 Aligned_cols=31 Identities=35% Similarity=0.924 Sum_probs=24.1
Q ss_pred Cceeccccc-ccCccccccccCCCCCCCCCCceecccCCCcC
Q 004523 136 PNFLCQNCV-YQEHQCFACGMLGSSDKSSSQEVFPCVSATCG 176 (747)
Q Consensus 136 ~~W~C~eC~-~~~h~CfvCgk~Gssd~ss~aeV~kCsv~~CG 176 (747)
..|.|++|- .-...|..|.++|. ..+| +.||
T Consensus 26 v~F~CPnCGe~~I~Rc~~CRk~g~--------~Y~C--p~CG 57 (61)
T COG2888 26 VKFPCPNCGEVEIYRCAKCRKLGN--------PYRC--PKCG 57 (61)
T ss_pred eEeeCCCCCceeeehhhhHHHcCC--------ceEC--CCcC
Confidence 569999998 45678999998763 6778 6776
No 188
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=20.13 E-value=45 Score=30.57 Aligned_cols=17 Identities=29% Similarity=0.755 Sum_probs=14.9
Q ss_pred CCcCCCCccccccccCC
Q 004523 173 ATCGQFYHPECVSKLLH 189 (747)
Q Consensus 173 ~~CGKfYH~~CL~~~l~ 189 (747)
..|+..||..||.+++.
T Consensus 50 g~C~H~FH~hCI~kWl~ 66 (85)
T PF12861_consen 50 GKCSHNFHMHCILKWLS 66 (85)
T ss_pred ccCccHHHHHHHHHHHc
Confidence 46999999999999864
Done!