Query 000955
Match_columns 1210
No_of_seqs 233 out of 643
Neff 3.2
Searched_HMMs 46136
Date Thu Mar 28 11:40:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000955.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000955hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4443 Putative transcription 98.7 5.4E-09 1.2E-13 123.3 2.1 101 92-225 20-121 (694)
2 KOG1244 Predicted transcriptio 98.6 1.9E-08 4.1E-13 109.5 3.8 81 108-211 244-325 (336)
3 KOG4299 PHD Zn-finger protein 98.1 3.2E-06 6.8E-11 100.3 4.9 48 158-216 255-302 (613)
4 KOG4443 Putative transcription 98.0 1.7E-06 3.7E-11 102.9 2.2 104 27-165 15-124 (694)
5 KOG1512 PHD Zn-finger protein 97.7 1.6E-05 3.5E-10 87.7 1.8 79 108-211 277-356 (381)
6 KOG1512 PHD Zn-finger protein 97.6 3.1E-05 6.7E-10 85.5 2.3 89 31-156 259-358 (381)
7 KOG1244 Predicted transcriptio 97.5 4.5E-05 9.9E-10 83.9 1.9 81 29-131 223-315 (336)
8 KOG4299 PHD Zn-finger protein 97.4 3.1E-05 6.8E-10 92.2 0.3 52 28-89 251-305 (613)
9 PRK00274 ksgA 16S ribosomal RN 97.3 0.00016 3.5E-09 78.4 4.1 152 510-670 18-188 (272)
10 COG5141 PHD zinc finger-contai 97.2 9.6E-05 2.1E-09 86.1 0.6 90 27-130 190-336 (669)
11 PHA03412 putative methyltransf 97.2 0.00072 1.6E-08 73.9 7.2 172 511-697 29-230 (241)
12 KOG0383 Predicted helicase [Ge 97.2 0.00037 8E-09 85.1 5.0 92 117-242 1-114 (696)
13 PF00628 PHD: PHD-finger; Int 97.2 0.0002 4.3E-09 59.4 1.9 47 32-88 1-50 (51)
14 KOG0955 PHD finger protein BR1 97.1 0.00028 6.1E-09 89.0 3.0 137 25-196 214-367 (1051)
15 KOG1473 Nucleosome remodeling 97.1 0.00021 4.5E-09 89.3 1.6 129 24-211 338-473 (1414)
16 PF02384 N6_Mtase: N-6 DNA Met 97.0 0.001 2.3E-08 72.4 5.7 124 511-637 24-187 (311)
17 KOG0956 PHD finger protein AF1 96.9 0.00039 8.6E-09 83.6 2.1 45 32-89 7-57 (900)
18 KOG1973 Chromatin remodeling p 96.9 0.00037 8.1E-09 76.8 1.7 47 28-88 219-267 (274)
19 COG5034 TNG2 Chromatin remodel 96.9 0.00047 1E-08 75.6 2.0 45 30-88 221-269 (271)
20 TIGR02987 met_A_Alw26 type II 96.8 0.003 6.6E-08 74.4 7.9 49 511-559 2-55 (524)
21 KOG0825 PHD Zn-finger protein 96.7 0.0014 3.1E-08 79.9 4.2 47 157-216 216-263 (1134)
22 smart00249 PHD PHD zinc finger 96.6 0.0011 2.4E-08 52.2 2.0 44 32-86 1-47 (47)
23 TIGR00755 ksgA dimethyladenosi 96.6 0.0045 9.8E-08 66.4 7.2 148 511-670 6-176 (253)
24 PRK14896 ksgA 16S ribosomal RN 96.6 0.0018 3.8E-08 69.9 3.7 149 511-670 6-172 (258)
25 PF00628 PHD: PHD-finger; Int 96.4 0.0023 4.9E-08 53.2 2.8 45 158-211 1-45 (51)
26 KOG0383 Predicted helicase [Ge 96.2 0.0012 2.6E-08 80.8 0.2 51 25-87 42-92 (696)
27 PTZ00338 dimethyladenosine tra 96.2 0.0065 1.4E-07 67.7 5.8 154 505-670 6-184 (294)
28 smart00249 PHD PHD zinc finger 96.1 0.0055 1.2E-07 48.3 3.3 44 158-211 1-44 (47)
29 PF15446 zf-PHD-like: PHD/FYVE 95.9 0.0048 1.1E-07 64.7 2.7 93 92-194 1-143 (175)
30 PF01170 UPF0020: Putative RNA 95.8 0.02 4.3E-07 59.2 6.7 106 525-635 20-152 (179)
31 KOG0954 PHD finger protein [Ge 95.7 0.0053 1.1E-07 74.9 2.1 129 29-191 270-411 (893)
32 KOG0825 PHD Zn-finger protein 95.0 0.011 2.4E-07 72.6 2.0 46 30-87 215-264 (1134)
33 PF13659 Methyltransf_26: Meth 94.5 0.022 4.7E-07 52.8 2.2 87 536-623 1-103 (117)
34 PF13771 zf-HC5HC2H: PHD-like 94.4 0.017 3.8E-07 52.8 1.1 60 2-62 9-70 (90)
35 PF00398 RrnaAD: Ribosomal RNA 94.1 0.042 9.2E-07 59.6 3.5 155 510-670 6-181 (262)
36 PRK10909 rsmD 16S rRNA m(2)G96 93.9 0.2 4.4E-06 53.2 8.2 120 534-662 52-184 (199)
37 TIGR00479 rumA 23S rRNA (uraci 92.9 0.16 3.5E-06 58.7 5.9 129 518-650 273-416 (431)
38 KOG1973 Chromatin remodeling p 92.7 0.054 1.2E-06 60.1 1.7 34 108-156 230-264 (274)
39 KOG1701 Focal adhesion adaptor 92.1 0.034 7.4E-07 65.1 -0.8 90 26-130 271-364 (468)
40 TIGR01177 conserved hypothetic 91.9 0.7 1.5E-05 51.9 9.2 104 522-637 171-298 (329)
41 KOG0957 PHD finger protein [Ge 91.7 0.15 3.2E-06 60.9 3.7 47 158-211 546-592 (707)
42 smart00650 rADc Ribosomal RNA 91.6 0.17 3.7E-06 51.1 3.6 141 522-669 2-159 (169)
43 KOG4323 Polycomb-like PHD Zn-f 91.0 0.085 1.8E-06 62.6 0.9 51 30-89 168-224 (464)
44 KOG0956 PHD finger protein AF1 91.0 0.2 4.3E-06 61.6 3.9 72 158-239 119-193 (900)
45 TIGR02085 meth_trns_rumB 23S r 90.8 0.23 5.1E-06 56.9 4.1 115 517-637 213-338 (374)
46 PF05175 MTS: Methyltransferas 89.9 0.3 6.5E-06 49.7 3.5 84 535-623 31-128 (170)
47 PF13832 zf-HC5HC2H_2: PHD-zin 89.2 0.34 7.3E-06 46.2 3.1 83 32-130 2-88 (110)
48 PRK03522 rumB 23S rRNA methylu 88.7 0.44 9.5E-06 53.3 4.1 92 535-632 173-272 (315)
49 COG2263 Predicted RNA methylas 88.6 1.4 3.1E-05 47.7 7.6 121 493-637 8-148 (198)
50 PRK13168 rumA 23S rRNA m(5)U19 88.6 0.58 1.2E-05 54.7 5.1 124 522-650 282-420 (443)
51 TIGR03533 L3_gln_methyl protei 87.5 0.9 1.9E-05 50.4 5.5 72 534-610 120-202 (284)
52 PF07669 Eco57I: Eco57I restri 86.0 0.64 1.4E-05 44.7 3.0 39 599-638 5-56 (106)
53 TIGR03534 RF_mod_PrmC protein- 85.8 1.5 3.2E-05 46.1 5.8 70 533-611 85-168 (251)
54 COG2226 UbiE Methylase involve 85.6 0.99 2.2E-05 49.8 4.6 58 484-556 15-72 (238)
55 COG2265 TrmA SAM-dependent met 85.5 1.4 2.9E-05 52.4 5.9 116 506-633 260-395 (432)
56 PRK11805 N5-glutamine S-adenos 85.2 1.4 3.1E-05 49.6 5.7 69 537-610 135-214 (307)
57 PHA03411 putative methyltransf 85.2 0.58 1.3E-05 52.8 2.6 40 512-555 45-84 (279)
58 PRK11188 rrmJ 23S rRNA methylt 84.6 5.6 0.00012 42.4 9.5 66 518-587 35-102 (209)
59 PRK14967 putative methyltransf 84.0 3.7 8E-05 43.5 7.8 34 520-555 23-56 (223)
60 KOG4323 Polycomb-like PHD Zn-f 83.4 0.58 1.3E-05 55.9 1.7 48 159-211 171-218 (464)
61 KOG0957 PHD finger protein [Ge 83.2 0.44 9.4E-06 57.1 0.6 48 30-86 544-595 (707)
62 PF13832 zf-HC5HC2H_2: PHD-zin 82.9 0.8 1.7E-05 43.7 2.2 33 28-60 53-87 (110)
63 KOG0955 PHD finger protein BR1 81.2 1.1 2.4E-05 58.1 3.1 58 158-226 221-283 (1051)
64 PF02475 Met_10: Met-10+ like- 81.2 0.52 1.1E-05 50.6 0.2 102 494-626 78-193 (200)
65 TIGR00095 RNA methyltransferas 79.3 6.3 0.00014 41.6 7.4 107 522-632 37-157 (189)
66 PF13771 zf-HC5HC2H: PHD-like 79.1 0.9 1.9E-05 41.8 1.1 34 90-131 36-70 (90)
67 PRK05785 hypothetical protein; 78.1 2.8 6E-05 45.1 4.5 59 485-556 14-72 (226)
68 PF15446 zf-PHD-like: PHD/FYVE 77.7 1.4 3E-05 47.0 2.0 40 158-198 1-40 (175)
69 PRK05031 tRNA (uracil-5-)-meth 77.2 3.2 7E-05 47.7 5.0 115 518-637 188-324 (362)
70 COG0030 KsgA Dimethyladenosine 76.3 5.3 0.00011 45.0 6.1 117 510-643 6-140 (259)
71 TIGR03704 PrmC_rel_meth putati 76.3 1.6 3.6E-05 47.6 2.3 68 536-608 87-164 (251)
72 COG2520 Predicted methyltransf 75.6 1.2 2.6E-05 51.6 1.0 89 528-624 181-278 (341)
73 TIGR02143 trmA_only tRNA (urac 75.0 2.8 6.2E-05 48.1 3.8 102 536-642 198-320 (353)
74 PRK09328 N5-glutamine S-adenos 74.8 4.1 8.8E-05 43.7 4.7 74 533-612 106-190 (275)
75 COG5034 TNG2 Chromatin remodel 74.5 1.8 3.9E-05 48.6 1.9 36 107-157 231-267 (271)
76 PLN02672 methionine S-methyltr 72.2 10 0.00022 50.0 8.0 148 457-611 23-217 (1082)
77 TIGR03587 Pse_Me-ase pseudamin 71.9 4.3 9.4E-05 43.1 4.0 51 506-556 14-64 (204)
78 cd04718 BAH_plant_2 BAH, or Br 69.4 4.1 8.9E-05 42.7 3.1 21 184-211 1-21 (148)
79 PF13901 DUF4206: Domain of un 66.7 3.9 8.5E-05 43.9 2.4 47 81-129 143-189 (202)
80 TIGR00536 hemK_fam HemK family 66.2 4.7 0.0001 44.6 2.9 68 537-609 116-194 (284)
81 PF13679 Methyltransf_32: Meth 65.4 35 0.00076 34.1 8.6 108 519-634 6-132 (141)
82 KOG1245 Chromatin remodeling c 64.9 1.6 3.5E-05 58.3 -1.1 59 28-98 1106-1170(1404)
83 PF13489 Methyltransf_23: Meth 59.7 12 0.00025 36.2 4.0 36 520-555 7-42 (161)
84 KOG1245 Chromatin remodeling c 58.8 2.7 5.9E-05 56.3 -0.6 46 158-216 1110-1155(1404)
85 PF01209 Ubie_methyltran: ubiE 57.7 6 0.00013 43.2 1.8 56 485-555 12-67 (233)
86 TIGR02021 BchM-ChlM magnesium 57.5 9 0.0002 40.2 3.1 35 522-556 38-76 (219)
87 PLN02585 magnesium protoporphy 56.6 26 0.00056 40.3 6.7 22 535-556 144-165 (315)
88 KOG4628 Predicted E3 ubiquitin 55.5 5.5 0.00012 46.6 1.2 33 92-131 231-263 (348)
89 PRK15001 SAM-dependent 23S rib 55.2 17 0.00036 42.9 5.0 122 507-633 199-339 (378)
90 cd04718 BAH_plant_2 BAH, or Br 55.1 6.1 0.00013 41.5 1.3 26 53-89 2-27 (148)
91 COG0286 HsdM Type I restrictio 54.4 14 0.00031 44.5 4.4 49 511-561 164-212 (489)
92 COG3802 GguC Uncharacterized p 54.4 6.4 0.00014 44.6 1.4 66 606-672 186-285 (333)
93 KOG1473 Nucleosome remodeling 54.0 7.4 0.00016 51.0 2.0 42 158-213 346-387 (1414)
94 PRK14966 unknown domain/N5-glu 52.9 11 0.00023 45.3 3.0 82 524-610 240-332 (423)
95 PF13412 HTH_24: Winged helix- 52.8 30 0.00066 28.6 4.8 27 405-432 3-29 (48)
96 TIGR00080 pimt protein-L-isoas 52.4 19 0.00042 38.0 4.5 45 512-558 56-100 (215)
97 KOG3420 Predicted RNA methylas 52.3 3.8 8.3E-05 43.5 -0.6 105 517-625 28-143 (185)
98 PRK00312 pcm protein-L-isoaspa 51.7 44 0.00096 35.1 7.0 44 511-556 56-99 (212)
99 TIGR02081 metW methionine bios 51.7 17 0.00037 37.7 3.9 30 522-555 4-33 (194)
100 PRK14968 putative methyltransf 51.5 38 0.00082 34.0 6.2 23 534-556 22-44 (188)
101 PRK13942 protein-L-isoaspartat 51.2 18 0.00039 38.6 4.1 45 511-557 54-98 (212)
102 COG0293 FtsJ 23S rRNA methylas 50.8 18 0.00039 39.7 4.0 44 518-562 29-72 (205)
103 PTZ00098 phosphoethanolamine N 49.9 19 0.00041 39.6 4.2 50 503-554 10-71 (263)
104 TIGR02752 MenG_heptapren 2-hep 49.7 17 0.00037 38.1 3.7 43 509-556 24-66 (231)
105 smart00550 Zalpha Z-DNA-bindin 49.1 35 0.00076 30.8 5.0 30 404-433 5-35 (68)
106 PRK09489 rsmC 16S ribosomal RN 49.0 51 0.0011 38.3 7.5 21 536-556 197-217 (342)
107 PRK13944 protein-L-isoaspartat 47.3 23 0.00049 37.5 4.1 45 512-558 51-95 (205)
108 TIGR02469 CbiT precorrin-6Y C5 47.2 28 0.0006 32.3 4.2 35 519-555 5-39 (124)
109 PF05958 tRNA_U5-meth_tr: tRNA 47.1 26 0.00056 40.5 4.8 37 520-556 180-217 (352)
110 COG2230 Cfa Cyclopropane fatty 46.4 21 0.00045 41.0 3.8 35 520-556 59-93 (283)
111 KOG0954 PHD finger protein [Ge 46.4 10 0.00022 48.0 1.6 43 158-211 273-315 (893)
112 PRK01544 bifunctional N5-gluta 45.3 13 0.00029 44.9 2.3 72 535-610 138-219 (506)
113 COG5141 PHD zinc finger-contai 45.2 17 0.00037 44.4 3.0 69 159-238 196-270 (669)
114 TIGR00762 DegV EDD domain prot 44.9 1E+02 0.0022 34.3 8.8 93 458-559 123-246 (275)
115 TIGR00438 rrmJ cell division p 44.7 27 0.00059 36.0 4.1 36 521-557 19-54 (188)
116 PF01728 FtsJ: FtsJ-like methy 43.5 17 0.00038 37.0 2.5 38 520-557 7-45 (181)
117 PF14446 Prok-RING_1: Prokaryo 43.3 14 0.0003 33.3 1.5 32 158-192 7-38 (54)
118 PF11793 FANCL_C: FANCL C-term 43.2 11 0.00024 34.5 1.0 40 91-132 3-42 (70)
119 TIGR00406 prmA ribosomal prote 42.9 30 0.00064 38.7 4.3 38 513-554 141-178 (288)
120 PF04405 ScdA_N: Domain of Unk 42.8 15 0.00033 32.7 1.7 19 540-561 24-42 (56)
121 PRK11783 rlmL 23S rRNA m(2)G24 41.1 53 0.0011 41.5 6.5 66 482-550 134-205 (702)
122 cd00315 Cyt_C5_DNA_methylase C 39.2 79 0.0017 35.3 6.9 89 538-638 2-116 (275)
123 PF13831 PHD_2: PHD-finger; PD 38.8 6.7 0.00015 32.1 -1.0 34 41-87 3-36 (36)
124 PRK00050 16S rRNA m(4)C1402 me 38.2 37 0.0008 39.0 4.2 34 521-556 7-40 (296)
125 KOG0804 Cytoplasmic Zn-finger 37.1 15 0.00033 44.4 1.0 36 90-131 175-210 (493)
126 PF14446 Prok-RING_1: Prokaryo 37.0 19 0.0004 32.5 1.3 34 91-130 6-39 (54)
127 KOG3612 PHD Zn-finger protein 36.7 24 0.00052 43.6 2.6 36 22-58 52-87 (588)
128 PF01555 N6_N4_Mtase: DNA meth 36.5 22 0.00048 36.2 2.0 50 499-550 152-206 (231)
129 PRK08287 cobalt-precorrin-6Y C 34.9 58 0.0012 33.6 4.7 41 513-555 11-51 (187)
130 TIGR00446 nop2p NOL1/NOP2/sun 34.2 29 0.00063 38.3 2.6 41 516-557 53-93 (264)
131 PRK07402 precorrin-6B methylas 34.1 60 0.0013 33.8 4.7 41 513-555 20-60 (196)
132 PRK00121 trmB tRNA (guanine-N( 34.1 22 0.00048 37.5 1.6 29 529-557 34-62 (202)
133 TIGR01712 phage_N6A_met phage 33.6 33 0.00072 36.7 2.7 35 600-638 64-101 (166)
134 TIGR00675 dcm DNA-methyltransf 32.8 49 0.0011 37.6 4.1 91 539-635 1-110 (315)
135 PF05869 Dam: DNA N-6-adenine- 32.8 43 0.00094 36.0 3.5 131 516-691 15-152 (181)
136 PF02353 CMAS: Mycolic acid cy 32.7 46 0.00099 37.5 3.8 34 521-556 50-83 (273)
137 PF12861 zf-Apc11: Anaphase-pr 32.4 21 0.00045 34.7 1.0 54 83-158 24-78 (85)
138 PTZ00146 fibrillarin; Provisio 31.8 35 0.00076 39.3 2.8 28 532-559 129-156 (293)
139 KOG1829 Uncharacterized conser 31.4 15 0.00033 45.6 -0.2 48 81-130 502-549 (580)
140 PTZ00415 transmission-blocking 31.4 23 0.0005 48.6 1.4 35 841-875 1205-1242(2849)
141 cd02440 AdoMet_MTases S-adenos 31.3 53 0.0011 27.8 3.2 89 538-633 1-103 (107)
142 PRK14902 16S rRNA methyltransf 29.2 72 0.0016 37.8 4.8 25 533-557 248-272 (444)
143 PLN02271 serine hydroxymethylt 28.2 34 0.00074 42.7 2.0 17 591-608 233-249 (586)
144 PRK10458 DNA cytosine methylas 27.9 2.4E+02 0.0053 34.5 8.9 121 538-667 90-277 (467)
145 PRK00377 cbiT cobalt-precorrin 27.7 82 0.0018 33.0 4.4 39 516-556 23-61 (198)
146 PF13639 zf-RING_2: Ring finge 27.6 9.4 0.0002 31.2 -1.9 33 92-131 2-34 (44)
147 PLN03208 E3 ubiquitin-protein 27.5 31 0.00068 37.8 1.4 45 13-58 1-45 (193)
148 COG2890 HemK Methylase of poly 27.4 54 0.0012 37.0 3.2 65 538-608 113-187 (280)
149 PRK04266 fibrillarin; Provisio 26.9 73 0.0016 34.9 4.0 36 522-557 58-94 (226)
150 PRK04338 N(2),N(2)-dimethylgua 26.6 40 0.00088 39.7 2.2 98 536-641 58-165 (382)
151 KOG2932 E3 ubiquitin ligase in 26.3 21 0.00046 41.6 -0.1 64 30-123 90-158 (389)
152 PF05413 Peptidase_C34: Putati 26.3 30 0.00065 33.6 0.9 14 470-483 42-55 (92)
153 KOG4217 Nuclear receptors of t 26.2 20 0.00044 43.6 -0.3 26 30-56 269-299 (605)
154 KOG4218 Nuclear hormone recept 26.0 26 0.00057 41.3 0.5 26 30-56 15-45 (475)
155 PRK06202 hypothetical protein; 25.9 65 0.0014 34.3 3.4 38 534-571 59-96 (232)
156 PRK10434 srlR DNA-bindng trans 25.7 1.4E+02 0.003 33.3 5.9 100 405-549 5-104 (256)
157 PF10237 N6-adenineMlase: Prob 25.3 73 0.0016 33.8 3.6 47 590-638 80-128 (162)
158 KOG2187 tRNA uracil-5-methyltr 24.8 1.1E+02 0.0023 38.2 5.2 123 500-633 344-489 (534)
159 PF13901 DUF4206: Domain of un 24.4 43 0.00094 36.2 1.7 40 153-192 144-189 (202)
160 PF12678 zf-rbx1: RING-H2 zinc 24.4 17 0.00036 33.4 -1.1 15 117-131 49-63 (73)
161 PF08784 RPA_C: Replication pr 24.0 1.3E+02 0.0029 28.6 4.7 45 405-472 47-94 (102)
162 KOG1169 Diacylglycerol kinase 23.7 25 0.00054 44.2 -0.2 143 30-192 44-211 (634)
163 KOG0828 Predicted E3 ubiquitin 23.5 17 0.00037 44.4 -1.6 29 117-161 605-633 (636)
164 PF14881 Tubulin_3: Tubulin do 23.4 63 0.0014 34.5 2.7 67 491-557 11-98 (180)
165 PF07227 DUF1423: Protein of u 23.3 44 0.00095 40.6 1.7 43 79-130 122-164 (446)
166 COG2264 PrmA Ribosomal protein 23.2 1.1E+02 0.0023 35.7 4.6 61 491-555 97-182 (300)
167 KOG2462 C2H2-type Zn-finger pr 23.0 94 0.002 35.9 4.0 14 174-187 242-255 (279)
168 PLN02233 ubiquinone biosynthes 22.8 82 0.0018 34.8 3.5 24 533-556 71-94 (261)
169 KOG0990 Replication factor C, 22.8 59 0.0013 38.5 2.5 40 1084-1134 33-75 (360)
170 PRK14904 16S rRNA methyltransf 22.6 64 0.0014 38.3 2.8 25 533-557 248-272 (445)
171 PF13651 EcoRI_methylase: Aden 22.5 77 0.0017 37.4 3.3 62 600-669 138-204 (336)
172 PF03602 Cons_hypoth95: Conser 22.1 60 0.0013 34.5 2.2 31 520-550 26-57 (183)
173 PRK14901 16S rRNA methyltransf 22.0 63 0.0014 38.2 2.6 25 533-557 250-274 (434)
174 COG3028 Uncharacterized protei 21.7 74 0.0016 34.7 2.8 33 456-496 94-126 (187)
175 cd01425 RPS2 Ribosomal protein 21.5 3.4E+02 0.0074 29.2 7.6 73 491-573 14-90 (193)
176 PF00145 DNA_methylase: C-5 cy 21.4 30 0.00064 37.5 -0.2 81 538-631 2-108 (335)
177 PF11793 FANCL_C: FANCL C-term 21.3 47 0.001 30.5 1.1 34 159-193 5-40 (70)
178 COG0203 RplQ Ribosomal protein 21.3 79 0.0017 32.5 2.7 41 438-492 42-82 (116)
179 PRK00216 ubiE ubiquinone/menaq 21.1 1.3E+02 0.0028 31.2 4.4 36 520-557 38-73 (239)
180 KOG1081 Transcription factor N 20.9 68 0.0015 39.0 2.6 39 18-57 77-115 (463)
181 PRK08317 hypothetical protein; 20.2 86 0.0019 32.2 2.9 25 533-557 17-41 (241)
182 COG1307 DegV Uncharacterized p 20.1 3.4E+02 0.0073 31.1 7.7 93 460-561 128-251 (282)
No 1
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.69 E-value=5.4e-09 Score=123.33 Aligned_cols=101 Identities=25% Similarity=0.686 Sum_probs=79.4
Q ss_pred cccccCCCCCCCCCCCCcccccCCCCCCCCCcccccccccccchHHHHHHHHHhhccCCceecCCcc-ccccCCCccCCC
Q 000955 92 QCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHK-CCICKQGENKAD 170 (1210)
Q Consensus 92 qCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPlH~-C~vCkkseDkn~ 170 (1210)
.|++|+..|.. ..+.++-|. .|+.+||+.|+..+... .+. ...|+||.|+ |+.|+..+|-+
T Consensus 20 mc~l~~s~G~~---~ag~m~ac~--~c~~~yH~~cvt~~~~~-----------~~l-~~gWrC~~crvCe~c~~~gD~~- 81 (694)
T KOG4443|consen 20 MCPLCGSSGKG---RAGRLLACS--DCGQKYHPYCVTSWAQH-----------AVL-SGGWRCPSCRVCEACGTTGDPK- 81 (694)
T ss_pred hhhhhcccccc---ccCcchhhh--hhcccCCcchhhHHHhH-----------HHh-cCCcccCCceeeeeccccCCcc-
Confidence 69999888863 234588998 99999999999976521 112 3459999998 99999887743
Q ss_pred CCCceeeccccCcccccccCCCCccccccccccccccccccccCCCceeEeccCc
Q 000955 171 SDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLLPNHRILIYCLKH 225 (1210)
Q Consensus 171 ~egqLIrCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~CLLpncRILI~CpkH 225 (1210)
+|+.|.+|..+||.+|+.|+.. .++...|.| +.+.-|..|
T Consensus 82 ---kf~~Ck~cDvsyh~yc~~P~~~-------~v~sg~~~c-----kk~~~c~qc 121 (694)
T KOG4443|consen 82 ---KFLLCKRCDVSYHCYCQKPPND-------KVPSGPWLC-----KKCTRCRQC 121 (694)
T ss_pred ---cccccccccccccccccCCccc-------cccCccccc-----HHHHhhhhc
Confidence 6999999999999999999864 688899997 334555555
No 2
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=98.63 E-value=1.9e-08 Score=109.48 Aligned_cols=81 Identities=27% Similarity=0.655 Sum_probs=67.1
Q ss_pred CcccccCCCCCCCCCcccccccccccchHHHHHHHHHhhccCCceecCCcc-ccccCCCccCCCCCCceeeccccCcccc
Q 000955 108 AEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHK-CCICKQGENKADSDLQFAVCRRCPKAYH 186 (1210)
Q Consensus 108 aELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPlH~-C~vCkkseDkn~~egqLIrCdRCPKAYH 186 (1210)
.+|+.|+ .||+.-||.||.-.. +|...| +...|+|=.|. |..|+.++++. ||+.|+-|.+.||
T Consensus 244 eelvscs--dcgrsghpsclqft~---------nm~~av-k~yrwqcieck~csicgtsendd----qllfcddcdrgyh 307 (336)
T KOG1244|consen 244 EELVSCS--DCGRSGHPSCLQFTA---------NMIAAV-KTYRWQCIECKYCSICGTSENDD----QLLFCDDCDRGYH 307 (336)
T ss_pred hhhcchh--hcCCCCCcchhhhhH---------HHHHHH-HhheeeeeecceeccccCcCCCc----eeEeecccCCcee
Confidence 5899999 999999999998543 222222 23579998887 99999998754 8999999999999
Q ss_pred cccCCCCcccccccccccccccccc
Q 000955 187 RKCLPRKIAFEDKLEEGIITRAWEG 211 (1210)
Q Consensus 187 ~kCLPPpIafed~~eE~Ip~RAW~C 211 (1210)
.+||-|+++ ..|.+.|-|
T Consensus 308 myclsppm~-------eppegswsc 325 (336)
T KOG1244|consen 308 MYCLSPPMV-------EPPEGSWSC 325 (336)
T ss_pred eEecCCCcC-------CCCCCchhH
Confidence 999999987 678899998
No 3
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.06 E-value=3.2e-06 Score=100.34 Aligned_cols=48 Identities=25% Similarity=0.623 Sum_probs=40.6
Q ss_pred cccccCCCccCCCCCCceeeccccCcccccccCCCCccccccccccccccccccccCCC
Q 000955 158 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLLPNH 216 (1210)
Q Consensus 158 ~C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~CLLpnc 216 (1210)
+|..|.+.+.- ..+++|+.||++||..||.||+.. +.+|.++|.| +.|
T Consensus 255 fCsaCn~~~~F----~~~i~CD~Cp~sFH~~CLePPl~~-----eniP~g~W~C--~ec 302 (613)
T KOG4299|consen 255 FCSACNGSGLF----NDIICCDGCPRSFHQTCLEPPLEP-----ENIPPGSWFC--PEC 302 (613)
T ss_pred HHHHhCCcccc----ccceeecCCchHHHHhhcCCCCCc-----ccCCCCcccc--CCC
Confidence 79999998853 247999999999999999999753 5789999998 665
No 4
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.04 E-value=1.7e-06 Score=102.87 Aligned_cols=104 Identities=24% Similarity=0.603 Sum_probs=78.9
Q ss_pred cccCcccccccCCC-----CeeccccccCCccccccccCcccccccCCCChhhhhccccccccchhhccccccccCCCCC
Q 000955 27 ELFDSVCSFCDNGG-----DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQHQCFACGKLGS 101 (1210)
Q Consensus 27 DlnDdVCaIC~dGG-----ELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~gQHqCFVCGqlGS 101 (1210)
-.....|.+|+..| -|+-|. .|...||.. |+++-++.+.+ ..-|.|+.|. .|..|+..|+
T Consensus 15 ~~~~~mc~l~~s~G~~~ag~m~ac~-~c~~~yH~~--------cvt~~~~~~~l--~~gWrC~~cr----vCe~c~~~gD 79 (694)
T KOG4443|consen 15 IIVCLMCPLCGSSGKGRAGRLLACS-DCGQKYHPY--------CVTSWAQHAVL--SGGWRCPSCR----VCEACGTTGD 79 (694)
T ss_pred hhhhhhhhhhccccccccCcchhhh-hhcccCCcc--------hhhHHHhHHHh--cCCcccCCce----eeeeccccCC
Confidence 45567888998765 589999 799999999 54444444332 4569999997 6999998886
Q ss_pred CCCCCCCcccccCCCCCCCCCcccccccccccchHHHHHHHHHhhccCCceecCCcc-ccccCCC
Q 000955 102 SDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHK-CCICKQG 165 (1210)
Q Consensus 102 SDK~SGaELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPlH~-C~vCkks 165 (1210)
. ..++.|. .|.-.||..|+.+... +|..+ .|.|+.|+ |+.|...
T Consensus 80 ~-----~kf~~Ck--~cDvsyh~yc~~P~~~------------~v~sg-~~~ckk~~~c~qc~~~ 124 (694)
T KOG4443|consen 80 P-----KKFLLCK--RCDVSYHCYCQKPPND------------KVPSG-PWLCKKCTRCRQCDST 124 (694)
T ss_pred c-----ccccccc--cccccccccccCCccc------------cccCc-ccccHHHHhhhhcccc
Confidence 4 5789999 9999999999997642 24443 68888876 7777653
No 5
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.67 E-value=1.6e-05 Score=87.69 Aligned_cols=79 Identities=20% Similarity=0.432 Sum_probs=62.1
Q ss_pred CcccccCCCCCCCCCcccccccccccchHHHHHHHHHhhccCCceecCCcc-ccccCCCccCCCCCCceeeccccCcccc
Q 000955 108 AEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHK-CCICKQGENKADSDLQFAVCRRCPKAYH 186 (1210)
Q Consensus 108 aELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPlH~-C~vCkkseDkn~~egqLIrCdRCPKAYH 186 (1210)
..++.|. .|-..|||.||+.... |.. ..+...|.|-.|. |..|.+..- +..++.|++|++.||
T Consensus 277 ~S~I~C~--~C~~~~HP~Ci~M~~e---------lv~-~~KTY~W~C~~C~lC~IC~~P~~----E~E~~FCD~CDRG~H 340 (381)
T KOG1512|consen 277 NSWIVCK--PCATRPHPYCVAMIPE---------LVG-QYKTYFWKCSSCELCRICLGPVI----ESEHLFCDVCDRGPH 340 (381)
T ss_pred ccceeec--ccccCCCCcchhcCHH---------HHh-HHhhcchhhcccHhhhccCCccc----chheeccccccCCCC
Confidence 3578898 9999999999997542 211 1233579999987 999998864 335899999999999
Q ss_pred cccCCCCcccccccccccccccccc
Q 000955 187 RKCLPRKIAFEDKLEEGIITRAWEG 211 (1210)
Q Consensus 187 ~kCLPPpIafed~~eE~Ip~RAW~C 211 (1210)
+.|+--. .+|.+.|-|
T Consensus 341 T~CVGL~---------~lP~G~WIC 356 (381)
T KOG1512|consen 341 TLCVGLQ---------DLPRGEWIC 356 (381)
T ss_pred ccccccc---------cccCccchh
Confidence 9997553 578899998
No 6
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.58 E-value=3.1e-05 Score=85.54 Aligned_cols=89 Identities=19% Similarity=0.332 Sum_probs=68.7
Q ss_pred cccccccCCC---------CeeccccccCCccccccccCcccccccCCCChhhhh--ccccccccchhhccccccccCCC
Q 000955 31 SVCSFCDNGG---------DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVE--AMLNFFCKNCEYKQHQCFACGKL 99 (1210)
Q Consensus 31 dVCaIC~dGG---------ELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evq--p~~sW~CpnCe~gQHqCFVCGql 99 (1210)
..|.+|-++- .+|||. .|..++|+.| +.++...+. ....|.|-+|+ .|.+|++.
T Consensus 259 ~~~~~~~~~~~~~~~~r~~S~I~C~-~C~~~~HP~C----------i~M~~elv~~~KTY~W~C~~C~----lC~IC~~P 323 (381)
T KOG1512|consen 259 NERKHFWDIQTNIIQSRRNSWIVCK-PCATRPHPYC----------VAMIPELVGQYKTYFWKCSSCE----LCRICLGP 323 (381)
T ss_pred hhhhhhhcchhhhhhhhhccceeec-ccccCCCCcc----------hhcCHHHHhHHhhcchhhcccH----hhhccCCc
Confidence 4688997752 599999 7999999995 345544321 34689999998 69999998
Q ss_pred CCCCCCCCCcccccCCCCCCCCCcccccccccccchHHHHHHHHHhhccCCceecCC
Q 000955 100 GSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPL 156 (1210)
Q Consensus 100 GSSDK~SGaELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPl 156 (1210)
... .+++.|+ .|.+-||..||+.... +. ..|+|..
T Consensus 324 ~~E-----~E~~FCD--~CDRG~HT~CVGL~~l--------------P~-G~WICD~ 358 (381)
T KOG1512|consen 324 VIE-----SEHLFCD--VCDRGPHTLCVGLQDL--------------PR-GEWICDM 358 (381)
T ss_pred ccc-----hheeccc--cccCCCCccccccccc--------------cC-ccchhhh
Confidence 643 5899999 9999999999996543 23 4799965
No 7
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=97.48 E-value=4.5e-05 Score=83.86 Aligned_cols=81 Identities=28% Similarity=0.670 Sum_probs=61.4
Q ss_pred cCcccccccCC-------C---CeeccccccCCccccccccCcccccccCCCChhhh--hccccccccchhhcccccccc
Q 000955 29 FDSVCSFCDNG-------G---DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEV--EAMLNFFCKNCEYKQHQCFAC 96 (1210)
Q Consensus 29 nDdVCaIC~dG-------G---ELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~ev--qp~~sW~CpnCe~gQHqCFVC 96 (1210)
-..+|.+|-.. | +|+.|. -|.|+=|+.| |-++..-+ -....|.|.+|+ .|.+|
T Consensus 223 Pn~YCDFclgdsr~nkkt~~peelvscs-dcgrsghpsc----------lqft~nm~~avk~yrwqcieck----~csic 287 (336)
T KOG1244|consen 223 PNPYCDFCLGDSRENKKTGMPEELVSCS-DCGRSGHPSC----------LQFTANMIAAVKTYRWQCIECK----YCSIC 287 (336)
T ss_pred CCcccceeccccccccccCCchhhcchh-hcCCCCCcch----------hhhhHHHHHHHHhheeeeeecc----eeccc
Confidence 34578888542 2 699998 7999999995 33443211 135789999998 59999
Q ss_pred CCCCCCCCCCCCcccccCCCCCCCCCccccccccc
Q 000955 97 GKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 131 (1210)
Q Consensus 97 GqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l~ 131 (1210)
|-... ..+|+.|+ .|.+-||-.||.+..
T Consensus 288 gtsen-----ddqllfcd--dcdrgyhmyclsppm 315 (336)
T KOG1244|consen 288 GTSEN-----DDQLLFCD--DCDRGYHMYCLSPPM 315 (336)
T ss_pred cCcCC-----CceeEeec--ccCCceeeEecCCCc
Confidence 87653 35899999 999999999999765
No 8
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.45 E-value=3.1e-05 Score=92.18 Aligned_cols=52 Identities=35% Similarity=0.835 Sum_probs=40.3
Q ss_pred ccCcccccccCCCCe---eccccccCCccccccccCcccccccCCCChhhhhccccccccchhhc
Q 000955 28 LFDSVCSFCDNGGDL---LCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYK 89 (1210)
Q Consensus 28 lnDdVCaIC~dGGEL---LCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~g 89 (1210)
...++|+.|.+.|.. ||||| |+++||+.|++ +++....+ |.+.|+|++|..+
T Consensus 251 ~~~~fCsaCn~~~~F~~~i~CD~-Cp~sFH~~CLe--------PPl~~eni-P~g~W~C~ec~~k 305 (613)
T KOG4299|consen 251 DIEDFCSACNGSGLFNDIICCDG-CPRSFHQTCLE--------PPLEPENI-PPGSWFCPECKIK 305 (613)
T ss_pred CHHHHHHHhCCccccccceeecC-CchHHHHhhcC--------CCCCcccC-CCCccccCCCeee
Confidence 336799999999866 99996 99999999654 44444333 5689999999743
No 9
>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed
Probab=97.34 E-value=0.00016 Score=78.44 Aligned_cols=152 Identities=22% Similarity=0.302 Sum_probs=92.5
Q ss_pred cccCcccc-hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh-hCCccccccccccCC---CCCccccccc
Q 000955 510 TSFGRHFT-KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCLYKNYDILPA---KNDFNFEKRD 584 (1210)
Q Consensus 510 tS~grhFT-k~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~-~gk~c~~kn~dl~~~---kn~f~Fe~~d 584 (1210)
.+||.||. ..+-+..|++.|. +.+|++|||+.||.-.++..+-++... ++.+..-.-.+.... ...++|...|
T Consensus 18 k~~gq~fl~~~~i~~~i~~~l~--~~~~~~VLEiG~G~G~lt~~L~~~~~~v~avE~d~~~~~~~~~~~~~~~v~~i~~D 95 (272)
T PRK00274 18 KSLGQNFLIDENILDKIVDAAG--PQPGDNVLEIGPGLGALTEPLLERAAKVTAVEIDRDLAPILAETFAEDNLTIIEGD 95 (272)
T ss_pred cccCcCcCCCHHHHHHHHHhcC--CCCcCeEEEeCCCccHHHHHHHHhCCcEEEEECCHHHHHHHHHhhccCceEEEECh
Confidence 37999995 4455677888774 478999999999999999888664210 011111111111110 1467788888
Q ss_pred cccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhcc--CCcEEEEecCCcc-ccccccCC--Cc---ee------e
Q 000955 585 WMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEF--NPKLLILIVPPET-ERLDRKES--AY---EL------V 650 (1210)
Q Consensus 585 w~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F--~PkliilI~P~~t-~rld~k~~--~Y---~l------i 650 (1210)
+.++...++. ..+|+| ||||.+- ..+|.+.|.. ...-++|++..|. +||=.++. -| .+ -
T Consensus 96 ~~~~~~~~~~--~~~vv~-NlPY~is----s~ii~~~l~~~~~~~~~~l~~QkE~A~Rl~a~pg~~~y~~lSv~~~~~~~ 168 (272)
T PRK00274 96 ALKVDLSELQ--PLKVVA-NLPYNIT----TPLLFHLLEERDPIRDMVVMVQKEVAERIVAKPGSKAYGRLSVLVQYYCD 168 (272)
T ss_pred hhcCCHHHcC--cceEEE-eCCccch----HHHHHHHHhcCCCCCeeEEEeHHHHHHHHcCCCCCccccHHHHHHHHHcc
Confidence 8888765543 457788 9999954 5555555543 3456889999887 77743321 12 11 1
Q ss_pred eccccccCCcceecCCCccc
Q 000955 651 WEDDQFLSGKSFYLPGSVDE 670 (1210)
Q Consensus 651 wed~~~l~gksFYlPGsvd~ 670 (1210)
++--.-+..++||=|--||.
T Consensus 169 ~~~~~~v~~~~F~P~PkV~s 188 (272)
T PRK00274 169 VEKVFDVPPSAFVPPPKVDS 188 (272)
T ss_pred eEEEEEeChhhCCCCCCceE
Confidence 22223445677777666663
No 10
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=97.21 E-value=9.6e-05 Score=86.14 Aligned_cols=90 Identities=28% Similarity=0.703 Sum_probs=64.0
Q ss_pred cccCcccccccCC-----CCeeccccccCCccccccccCcccccccCCCChhhhhccccccccchhhccc---cccccCC
Q 000955 27 ELFDSVCSFCDNG-----GDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQH---QCFACGK 98 (1210)
Q Consensus 27 DlnDdVCaIC~dG-----GELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~gQH---qCFVCGq 98 (1210)
|.+++.|.+|... ..++.|+| |.-+.|.. | .|+.- -+++.|+|..|.++.+ .|.-|-.
T Consensus 190 d~~d~~C~~c~~t~~eN~naiVfCdg-C~i~VHq~--------C--YGI~f---~peG~WlCrkCi~~~~~i~~C~fCps 255 (669)
T COG5141 190 DEFDDICTKCTSTHNENSNAIVFCDG-CEICVHQS--------C--YGIQF---LPEGFWLCRKCIYGEYQIRCCSFCPS 255 (669)
T ss_pred hhhhhhhHhccccccCCcceEEEecC-cchhhhhh--------c--cccee---cCcchhhhhhhcccccceeEEEeccC
Confidence 3578999999774 35999996 99999999 4 55543 2568899999987654 2666622
Q ss_pred C-CCC----C--------------------------------------------CCCCCcccccCCCCCCCCCccccccc
Q 000955 99 L-GSS----D--------------------------------------------KETGAEVFPCVSATCGHFYHPHCVSK 129 (1210)
Q Consensus 99 l-GSS----D--------------------------------------------K~SGaELfkCsVasCGKFYHpkCLa~ 129 (1210)
. |.. | +..++--++|...+|.+.||.+|...
T Consensus 256 ~dGaFkqT~dgrW~H~iCA~~~pelsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~GtcIqCs~~nC~~aYHVtCArr 335 (669)
T COG5141 256 SDGAFKQTSDGRWGHVICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYHVTCARR 335 (669)
T ss_pred CCCceeeccCCchHhHhHHHhcchhccccccccchhhhhcccchhhHhheeeEEcccCcceeeecccchhhhhhhhhhhh
Confidence 1 110 0 01235668999999999999999886
Q ss_pred c
Q 000955 130 L 130 (1210)
Q Consensus 130 l 130 (1210)
.
T Consensus 336 a 336 (669)
T COG5141 336 A 336 (669)
T ss_pred c
Confidence 4
No 11
>PHA03412 putative methyltransferase; Provisional
Probab=97.21 E-value=0.00072 Score=73.92 Aligned_cols=172 Identities=17% Similarity=0.295 Sum_probs=92.3
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhh------CCccccccccccCCCC--Cccccc
Q 000955 511 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET------GKNCLYKNYDILPAKN--DFNFEK 582 (1210)
Q Consensus 511 S~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~------gk~c~~kn~dl~~~kn--~f~Fe~ 582 (1210)
..|.+||-..-.+.++ .|.. .+..|||+|||+-.|+.+|.++..+. +.+..-....+.. +| ...|..
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 5688999887555544 2333 47899999999999999887653211 1111111111111 11 123333
Q ss_pred cccccccCCCCCCCCeeeeeeCCCccchh-----------hhHHHHHHhhhccCCcEEEEecCCccccccccCCCceeee
Q 000955 583 RDWMTVEPKELAPGSRLIMGLNPPFGVKA-----------GLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVW 651 (1210)
Q Consensus 583 ~dw~~v~~~elp~G~~LimgLnPPfg~~a-----------~lAnkFi~kal~F~PkliilI~P~~t~rld~k~~~Y~liw 651 (1210)
.|.+... +..-=-|||+ ||||+.-+ .+.++||.+|+..-+.=. ||+|.-.--.+---.+| +
T Consensus 104 ~D~~~~~---~~~~FDlIIs-NPPY~~~~~~d~~ar~~g~~~~~~li~~A~~Ll~~G~-~ILP~~~~~~~y~~~~~---~ 175 (241)
T PHA03412 104 ADALTTE---FDTLFDMAIS-NPPFGKIKTSDFKGKYTGAEFEYKVIERASQIARQGT-FIIPQMSANFRYSGTHY---F 175 (241)
T ss_pred cchhccc---ccCCccEEEE-CCCCCCccccccCCcccccHHHHHHHHHHHHHcCCCE-EEeCcccccCcccCccc---e
Confidence 3433322 1111238888 99999322 457889999998775554 49998765333222222 2
Q ss_pred ccccccCCcce----------ecCCC-cccchhhhcccccCCCCeeeeecchhHHHH
Q 000955 652 EDDQFLSGKSF----------YLPGS-VDENDKQMDQWNMTAPPLYLWSRHDYAAHH 697 (1210)
Q Consensus 652 ed~~~l~gksF----------YlPGs-vd~ndk~~eqwn~~pP~l~LWsr~d~~~~h 697 (1210)
+...-..|+-+ ..||- || -.--+++|.-+-|..- -+.-|+++..
T Consensus 176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~ 230 (241)
T PHA03412 176 RQDESTTSSKCKKFLDETGLEMNPGCGID-TGYYLEDWKGVKPLCE-VVCMEFNEPE 230 (241)
T ss_pred eeccCcccHHHHHHHHhcCeeecCCCCcc-ceeehhhccCCCccce-EEEEeecCcC
Confidence 22222233322 23553 33 2234578887766433 3555666544
No 12
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.16 E-value=0.00037 Score=85.06 Aligned_cols=92 Identities=27% Similarity=0.534 Sum_probs=66.3
Q ss_pred CCCCCCcccccccccccchHHHHHHHHHhhccCCceecCCc--------------------cccccCCCccCCCCCCcee
Q 000955 117 TCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLH--------------------KCCICKQGENKADSDLQFA 176 (1210)
Q Consensus 117 sCGKFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPlH--------------------~C~vCkkseDkn~~egqLI 176 (1210)
.|.|.||..|+.+...- .....|.||.+ .|..|+..+. ++
T Consensus 1 ~~~r~~~~~~~~p~~~~-------------~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~~g~-------~l 60 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLKE-------------EPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICADGGE-------LL 60 (696)
T ss_pred CCCcccCcCCCCccccc-------------CCcCCccCcchhhcccccccccCCcchhhhhhhhhhcCCCc-------EE
Confidence 48899999999964321 11245777733 3888887764 88
Q ss_pred eccccCcccccccCCCCccccccccccccccccccccCCCceeEeccCc--ccccccCCCCCCcccCC
Q 000955 177 VCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLLPNHRILIYCLKH--EIDDEIGTPIRDHIIFP 242 (1210)
Q Consensus 177 rCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~CLLpncRILI~CpkH--eID~~LgTP~RdHIkFP 242 (1210)
.|+.||.+||.+|+.++.. ..++..|.| + | | .|+.+ ++.+ ++.+++.-..+|
T Consensus 61 ~c~tC~~s~h~~cl~~pl~-------~~p~~~~~c--~--R-c-~~p~~~~k~~~-il~~~~~~~~~~ 114 (696)
T KOG0383|consen 61 WCDTCPASFHASCLGPPLT-------PQPNGEFIC--P--R-C-FCPKNAGKIEK-ILGWRWKPTPKP 114 (696)
T ss_pred EeccccHHHHHHccCCCCC-------cCCccceee--e--e-e-ccCCCcccccc-cceeEecCCCCc
Confidence 8999999999999988875 455666887 4 3 3 67776 5555 677777777777
No 13
>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=97.16 E-value=0.0002 Score=59.43 Aligned_cols=47 Identities=28% Similarity=0.821 Sum_probs=33.7
Q ss_pred ccccccC---CCCeeccccccCCccccccccCcccccccCCCChhhhhccccccccchhh
Q 000955 32 VCSFCDN---GGDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEY 88 (1210)
Q Consensus 32 VCaIC~d---GGELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~ 88 (1210)
+|.+|+. .+++|.|+ .|.++||.. |+.+..+.... ....|+|+.|..
T Consensus 1 ~C~vC~~~~~~~~~i~C~-~C~~~~H~~--------C~~~~~~~~~~-~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCD-SCNRWYHQE--------CVGPPEKAEEI-PSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBS-TTSCEEETT--------TSTSSHSHHSH-HSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcC-CCChhhCcc--------cCCCChhhccC-CCCcEECcCCcC
Confidence 5888988 56899999 699999999 53333332222 234899999974
No 14
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.08 E-value=0.00028 Score=88.98 Aligned_cols=137 Identities=23% Similarity=0.477 Sum_probs=85.3
Q ss_pred cccccCcccccccCCC-----CeeccccccCCccccccccCcccccccCCCChhhhhccccccccchhhcc---cccccc
Q 000955 25 EDELFDSVCSFCDNGG-----DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQ---HQCFAC 96 (1210)
Q Consensus 25 ddDlnDdVCaIC~dGG-----ELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~gQ---HqCFVC 96 (1210)
.+...|.+|.||.++- .+|.||+ |.-++|.. | .|.+. .+++.|+|..|.... ..|..|
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-CNLAVHQE--------C--YGIPF---IPEGQWLCRRCLQSPQRPVRCLLC 279 (1051)
T ss_pred cccCCCccceeecccccCCCceEEEcCC-Ccchhhhh--------c--cCCCC---CCCCcEeehhhccCcCcccceEec
Confidence 4456689999999864 5899995 99999999 4 45432 257899999997654 468888
Q ss_pred CCCCCCCCCCCCcccccCCCCCCCCCcccccccccccchHHHHHHHH------HhhccCCceecCCccccccCCCccCCC
Q 000955 97 GKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLA------KSIIAGESFTCPLHKCCICKQGENKAD 170 (1210)
Q Consensus 97 GqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLe------kkIaaGksFrCPlH~C~vCkkseDkn~ 170 (1210)
-..+- -|+-. .=|++-|..|.--.+...... +-+. ..|.. ..|. -.|..|+..+-
T Consensus 280 p~~~g--------AFkqt--~dgrw~Hv~caiwipev~F~n--t~~~E~I~~i~~i~~-aRwk---L~cy~cK~~~~--- 340 (1051)
T KOG0955|consen 280 PSKGG--------AFKQT--DDGRWAHVVCAIWIPEVSFAN--TVFLEPIDSIENIPP-ARWK---LTCYICKQKGL--- 340 (1051)
T ss_pred cCCCC--------cceec--cCCceeeeehhhccccccccc--chhhccccchhcCcH-hhhh---ceeeeeccCCC---
Confidence 65542 12222 456777777765332110000 0000 00110 1122 25999998762
Q ss_pred CCCceeecc--ccCcccccccC-CCCccc
Q 000955 171 SDLQFAVCR--RCPKAYHRKCL-PRKIAF 196 (1210)
Q Consensus 171 ~egqLIrCd--RCPKAYH~kCL-PPpIaf 196 (1210)
+..++|. +|-.|||..|- .+++.+
T Consensus 341 --gaciqcs~~~c~~a~hvtca~~agl~m 367 (1051)
T KOG0955|consen 341 --GACIQCSKANCYTAFHVTCARRAGLYM 367 (1051)
T ss_pred --CcceecchhhhhhhhhhhhHhhcCceE
Confidence 2488885 89999999996 445544
No 15
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=97.07 E-value=0.00021 Score=89.32 Aligned_cols=129 Identities=26% Similarity=0.439 Sum_probs=75.6
Q ss_pred ccccccCcccccccCCCCeeccccccCCccccccccCcccccccCCCChhhhhccccccccchhhccccccccCCCCCCC
Q 000955 24 EEDELFDSVCSFCDNGGDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQHQCFACGKLGSSD 103 (1210)
Q Consensus 24 eddDlnDdVCaIC~dGGELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~gQHqCFVCGqlGSSD 103 (1210)
+.+...++.|.+|.+.|+++||+ +|+|.||+.|+.... | . .+...|-|.- |.+|+..|..|
T Consensus 338 e~~~~~ddhcrf~~d~~~~lc~E-t~prvvhlEcv~hP~--~------~---~~s~~~e~ev-------c~~hkvngvvd 398 (1414)
T KOG1473|consen 338 EGEIEYDDHCRFCHDLGDLLCCE-TCPRVVHLECVFHPR--F------A---VPSAFWECEV-------CNIHKVNGVVD 398 (1414)
T ss_pred ccceeecccccccCcccceeecc-cCCceEEeeecCCcc--c------c---CCCccchhhh-------hhhhccCcccc
Confidence 33455689999999999999999 899999999764322 1 1 1345687764 44565554321
Q ss_pred C----CCCCcccccCCCCCCCCCcccccccccccchHHHHHHHHHhhccCC-ceecCCccccccCCCccCCCCCCceeec
Q 000955 104 K----ETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGE-SFTCPLHKCCICKQGENKADSDLQFAVC 178 (1210)
Q Consensus 104 K----~SGaELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLekkIaaGk-sFrCPlH~C~vCkkseDkn~~egqLIrC 178 (1210)
- ......++|. +.+.+ ..+. -|.= .-.|..|...+ .++-|
T Consensus 399 ~vl~~~K~~~~iR~~----------------~iG~d-----------r~gr~ywfi-~rrl~Ie~~de-------t~l~y 443 (1414)
T KOG1473|consen 399 CVLPPSKNVDSIRHT----------------PIGRD-----------RYGRKYWFI-SRRLRIEGMDE-------TLLWY 443 (1414)
T ss_pred cccChhhcccceecc----------------CCCcC-----------ccccchhce-eeeeEEecCCC-------cEEEE
Confidence 0 0011223332 11100 0111 1111 12488887554 47888
Q ss_pred cc-cCccccc-ccCCCCcccccccccccccccccc
Q 000955 179 RR-CPKAYHR-KCLPRKIAFEDKLEEGIITRAWEG 211 (1210)
Q Consensus 179 dR-CPKAYH~-kCLPPpIafed~~eE~Ip~RAW~C 211 (1210)
.- ||.+||. .||+.... +..++..-|.|
T Consensus 444 ysT~pqly~ll~cLd~~~~-----e~~L~d~i~~~ 473 (1414)
T KOG1473|consen 444 YSTCPQLYHLLRCLDRTYV-----EMYLCDGIWER 473 (1414)
T ss_pred ecCcHHHHHHHHHhchHHH-----HHhhccchhhh
Confidence 87 9999999 99997542 12345555665
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=96.97 E-value=0.001 Score=72.39 Aligned_cols=124 Identities=24% Similarity=0.379 Sum_probs=63.6
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhh---CCccccccccc-------------cCC
Q 000955 511 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET---GKNCLYKNYDI-------------LPA 574 (1210)
Q Consensus 511 S~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~---gk~c~~kn~dl-------------~~~ 574 (1210)
+.|.+||-.+-.+-+++.| =.+++++|+|+|||+-.|.--..+.+.+. .+...+==.|+ +..
T Consensus 24 ~~G~~~TP~~i~~l~~~~~--~~~~~~~VlDPacGsG~fL~~~~~~i~~~~~~~~~~~i~G~ei~~~~~~la~~nl~l~~ 101 (311)
T PF02384_consen 24 KLGQFYTPREIVDLMVKLL--NPKKGDSVLDPACGSGGFLVAAMEYIKEKRNKIKEINIYGIEIDPEAVALAKLNLLLHG 101 (311)
T ss_dssp SCGGC---HHHHHHHHHHH--TT-TTEEEEETT-TTSHHHHHHHHHHHTCHHHHCCEEEEEEES-HHHHHHHHHHHHHTT
T ss_pred ccceeehHHHHHHHHHhhh--hccccceeechhhhHHHHHHHHHHhhcccccccccceeEeecCcHHHHHHHHhhhhhhc
Confidence 5788999888777777777 55678899999999999965554433110 01111000111 000
Q ss_pred --CCCccccccccccccCCCCCCCCeeeeeeCCCccchh--------------------hhHHHHHHhhhccCCc--EEE
Q 000955 575 --KNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKA--------------------GLANKFINKALEFNPK--LLI 630 (1210)
Q Consensus 575 --kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a--------------------~lAnkFi~kal~F~Pk--lii 630 (1210)
.+.+++...|++.-....-..-=-+|+| |||||.+. ..-.-||.+++.+=-+ .++
T Consensus 102 ~~~~~~~i~~~d~l~~~~~~~~~~~D~ii~-NPPf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fi~~~l~~Lk~~G~~~ 180 (311)
T PF02384_consen 102 IDNSNINIIQGDSLENDKFIKNQKFDVIIG-NPPFGSKEWKDEELEKDERFKKYFPPKSNAEYAFIEHALSLLKPGGRAA 180 (311)
T ss_dssp HHCBGCEEEES-TTTSHSCTST--EEEEEE-E--CTCES-STGGGCTTCCCTTCSSSTTEHHHHHHHHHHHTEEEEEEEE
T ss_pred cccccccccccccccccccccccccccccC-CCCccccccccccccccccccccCCCccchhhhhHHHHHhhccccccee
Confidence 1112244445443322211122237888 99999881 1112499999876522 678
Q ss_pred EecCCcc
Q 000955 631 LIVPPET 637 (1210)
Q Consensus 631 lI~P~~t 637 (1210)
+|+|...
T Consensus 181 ~Ilp~~~ 187 (311)
T PF02384_consen 181 IILPNGF 187 (311)
T ss_dssp EEEEHHH
T ss_pred EEecchh
Confidence 8888754
No 17
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=96.92 E-value=0.00039 Score=83.64 Aligned_cols=45 Identities=33% Similarity=0.961 Sum_probs=34.3
Q ss_pred ccccccCC-C----Ceeccccc-cCCccccccccCcccccccCCCChhhhhccccccccchhhc
Q 000955 32 VCSFCDNG-G----DLLCCEGR-CLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYK 89 (1210)
Q Consensus 32 VCaIC~dG-G----ELLCCDGs-C~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~g 89 (1210)
-|.+|.|- | -||-|||. |--+.|.. | .|+-. | +.+.|||..|+..
T Consensus 7 GCCVCSDErGWaeNPLVYCDG~nCsVAVHQa--------C--YGIvq--V-PtGpWfCrKCesq 57 (900)
T KOG0956|consen 7 GCCVCSDERGWAENPLVYCDGHNCSVAVHQA--------C--YGIVQ--V-PTGPWFCRKCESQ 57 (900)
T ss_pred ceeeecCcCCCccCceeeecCCCceeeeehh--------c--ceeEe--c-CCCchhhhhhhhh
Confidence 49999873 2 49999974 99999999 4 56643 3 5788999999763
No 18
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=96.91 E-value=0.00037 Score=76.75 Aligned_cols=47 Identities=26% Similarity=0.667 Sum_probs=37.0
Q ss_pred ccCcccccccCCCCeecccc-ccC-CccccccccCcccccccCCCChhhhhccccccccchhh
Q 000955 28 LFDSVCSFCDNGGDLLCCEG-RCL-RSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEY 88 (1210)
Q Consensus 28 lnDdVCaIC~dGGELLCCDG-sC~-RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~ 88 (1210)
..-.+|. |..+|+++-||+ .|+ .|||+. | .||+.. |.+.|||+.|..
T Consensus 219 ~~yC~Cn-qvsyg~Mi~CDn~~C~~eWFH~~--------C--VGL~~~---PkgkWyC~~C~~ 267 (274)
T KOG1973|consen 219 PTYCICN-QVSYGKMIGCDNPGCPIEWFHFT--------C--VGLKTK---PKGKWYCPRCKA 267 (274)
T ss_pred CEEEEec-ccccccccccCCCCCCcceEEEe--------c--cccccC---CCCcccchhhhh
Confidence 3456677 788999999994 299 999999 6 677643 568899999964
No 19
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=96.87 E-value=0.00047 Score=75.61 Aligned_cols=45 Identities=31% Similarity=0.949 Sum_probs=34.7
Q ss_pred CcccccccC--CCCeecccc-ccCC-ccccccccCcccccccCCCChhhhhccccccccchhh
Q 000955 30 DSVCSFCDN--GGDLLCCEG-RCLR-SFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEY 88 (1210)
Q Consensus 30 DdVCaIC~d--GGELLCCDG-sC~R-SFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~ 88 (1210)
..+| +|++ .|+||-||+ .|.+ |||+. | +||.. +|.+.|||++|+.
T Consensus 221 ~lYC-fCqqvSyGqMVaCDn~nCkrEWFH~~--------C--VGLk~---pPKG~WYC~eCk~ 269 (271)
T COG5034 221 ELYC-FCQQVSYGQMVACDNANCKREWFHLE--------C--VGLKE---PPKGKWYCPECKK 269 (271)
T ss_pred eeEE-EecccccccceecCCCCCchhheecc--------c--cccCC---CCCCcEeCHHhHh
Confidence 3566 6887 589999996 4875 99999 5 56654 2579999999973
No 20
>TIGR02987 met_A_Alw26 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family. Members of this family are the m6-adenine DNA methyltransferase protein, or domain of a fusion protein that also carries m5 cytosine methyltransferase activity, of type II restriction systems of the Alw26I/Eco31I/Esp3I family. A methyltransferase of this family is alway accompanied by a type II restriction endonuclease from the Alw26I/Eco31I/Esp3I family (TIGR02986) and by an adenine-specific modification methyltransferase. Members of this family are unusual in that regions of similarity to homologs outside this family are circularly permuted.
Probab=96.78 E-value=0.003 Score=74.37 Aligned_cols=49 Identities=31% Similarity=0.513 Sum_probs=40.4
Q ss_pred ccCcccchhhhHHHHHHhhccccc-----CCCcEEeccCCcchHHHHHHHHHHh
Q 000955 511 SFGRHFTKVDKLQAIVDKLHWYVN-----DGDMIVDFCCGANDFSCLMKKKLDE 559 (1210)
Q Consensus 511 S~grhFTk~ekl~~i~~~Lh~yv~-----~gd~ivdfccg~n~fs~lmk~kl~~ 559 (1210)
++|.+||-..-.+.|++.+.-+.. .+.+|+|+|||+-.|..-+-+++.+
T Consensus 2 ~~GqfyTP~~ia~~mv~~~~~~~~~~~~~~~~~ilDP~cGsG~fl~~~~~~~~~ 55 (524)
T TIGR02987 2 AYGTFFTPPDIAKAMVANLVNEIGKNDKSTKTKIIDPCCGDGRLIAALLKKNEE 55 (524)
T ss_pred CCcccCCcHHHHHHHHHHHhhhcchhhcccceEEEeCCCCccHHHHHHHHHHHh
Confidence 579999999999999998865543 3458999999999999888777754
No 21
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.67 E-value=0.0014 Score=79.87 Aligned_cols=47 Identities=28% Similarity=0.596 Sum_probs=38.0
Q ss_pred ccccccCCCccCCCCCCceeeccccCcc-cccccCCCCccccccccccccccccccccCCC
Q 000955 157 HKCCICKQGENKADSDLQFAVCRRCPKA-YHRKCLPRKIAFEDKLEEGIITRAWEGLLPNH 216 (1210)
Q Consensus 157 H~C~vCkkseDkn~~egqLIrCdRCPKA-YH~kCLPPpIafed~~eE~Ip~RAW~CLLpnc 216 (1210)
+.|..|..... +.-|+.|+-|..+ ||.+||++++. +++-..|-| .+|
T Consensus 216 ~~C~IC~~~Dp----EdVLLLCDsCN~~~YH~YCLDPdl~-------eiP~~eWYC--~NC 263 (1134)
T KOG0825|consen 216 VKCDICTVHDP----EDVLLLCDSCNKVYYHVYCLDPDLS-------ESPVNEWYC--TNC 263 (1134)
T ss_pred ccceeeccCCh----HHhheeecccccceeeccccCcccc-------cccccceec--Ccc
Confidence 45999988864 3459999999999 99999999874 567788887 654
No 22
>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 TIGR00755 ksgA dimethyladenosine transferase. Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase
Probab=96.62 E-value=0.0045 Score=66.35 Aligned_cols=148 Identities=22% Similarity=0.329 Sum_probs=91.7
Q ss_pred ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCCccc-c-ccccc-------cCCCCCccc
Q 000955 511 SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCL-Y-KNYDI-------LPAKNDFNF 580 (1210)
Q Consensus 511 S~grhF-Tk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~-~-kn~dl-------~~~kn~f~F 580 (1210)
+||-|| +...-+.+|++.+.+ .++++|+|+.||.-.++..|.++.. ... + .+-++ +.....+.+
T Consensus 6 ~~gq~fl~d~~i~~~i~~~~~~--~~~~~VLEiG~G~G~lt~~L~~~~~----~v~~iE~d~~~~~~l~~~~~~~~~v~v 79 (253)
T TIGR00755 6 SLGQNFLIDESVIQKIVEAANV--LEGDVVLEIGPGLGALTEPLLKRAK----KVTAIEIDPRLAEILRKLLSLYERLEV 79 (253)
T ss_pred CCCCccCCCHHHHHHHHHhcCC--CCcCEEEEeCCCCCHHHHHHHHhCC----cEEEEECCHHHHHHHHHHhCcCCcEEE
Confidence 689999 667778888888753 6899999999999999999966431 111 0 00000 111234556
Q ss_pred cccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhh-ccCCcEEEEecCCc-ccccccc-----CCCceeee--
Q 000955 581 EKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKAL-EFNPKLLILIVPPE-TERLDRK-----ESAYELVW-- 651 (1210)
Q Consensus 581 e~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal-~F~PkliilI~P~~-t~rld~k-----~~~Y~liw-- 651 (1210)
...|.+.+...++.. ..+|+| |+||.+ +..++.+.| ...+..++|++..| .+||=.+ .....++|
T Consensus 80 ~~~D~~~~~~~~~d~-~~~vvs-NlPy~i----~~~il~~ll~~~~~~~~~~~~q~e~a~Rl~a~pg~~~y~~lsv~~~~ 153 (253)
T TIGR00755 80 IEGDALKVDLPDFPK-QLKVVS-NLPYNI----SSPLIFKLLEKPKFRLAVLMVQKEVAERLTAKPGSKDYGRLSVLVQY 153 (253)
T ss_pred EECchhcCChhHcCC-cceEEE-cCChhh----HHHHHHHHhccCCCceEEEEehHHHHHHHccCCCCCcccHHHHHHHH
Confidence 666666655443322 247888 999994 555555555 67778899999888 3444322 11111111
Q ss_pred ----ccccccCCcceecCCCccc
Q 000955 652 ----EDDQFLSGKSFYLPGSVDE 670 (1210)
Q Consensus 652 ----ed~~~l~gksFYlPGsvd~ 670 (1210)
+--.-+...+||-|--||.
T Consensus 154 ~~~~~~~~~v~~~~F~P~PkVds 176 (253)
T TIGR00755 154 FANVEIVFKVPPSAFYPPPKVDS 176 (253)
T ss_pred HcceEEEEEEchhhCcCCCCeeE
Confidence 1123345788998888874
No 24
>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional
Probab=96.56 E-value=0.0018 Score=69.93 Aligned_cols=149 Identities=19% Similarity=0.247 Sum_probs=85.5
Q ss_pred ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh-hCCcccccccccc----CCCCCccccccc
Q 000955 511 SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCLYKNYDIL----PAKNDFNFEKRD 584 (1210)
Q Consensus 511 S~grhF-Tk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~-~gk~c~~kn~dl~----~~kn~f~Fe~~d 584 (1210)
+||.|| +...-+..|++.+. +.+|++|||+.||.-.++..|-++... ++.+..-.-++.+ ....++.|...|
T Consensus 6 ~~GQnfl~d~~~~~~iv~~~~--~~~~~~VLEIG~G~G~lt~~L~~~~~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D 83 (258)
T PRK14896 6 KLGQHFLIDDRVVDRIVEYAE--DTDGDPVLEIGPGKGALTDELAKRAKKVYAIELDPRLAEFLRDDEIAAGNVEIIEGD 83 (258)
T ss_pred cCCccccCCHHHHHHHHHhcC--CCCcCeEEEEeCccCHHHHHHHHhCCEEEEEECCHHHHHHHHHHhccCCCEEEEEec
Confidence 789999 67888889999875 678999999999999999988764110 0111110011111 111345556666
Q ss_pred cccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-cccccccC-----CCceee------ec
Q 000955 585 WMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRKE-----SAYELV------WE 652 (1210)
Q Consensus 585 w~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI~P~~-t~rld~k~-----~~Y~li------we 652 (1210)
++.+....+ .+|+| ||||.+- ...+.+.+.+...-.+|.+..| .+||=.+. ....++ .+
T Consensus 84 ~~~~~~~~~----d~Vv~-NlPy~i~----s~~~~~l~~~~~~~~~l~~q~e~A~rl~a~~g~~~yg~lsv~~~~~~~~~ 154 (258)
T PRK14896 84 ALKVDLPEF----NKVVS-NLPYQIS----SPITFKLLKHGFEPAVLMYQKEFAERMVAKPGTKEYGRLSVMVQYYADVE 154 (258)
T ss_pred cccCCchhc----eEEEE-cCCcccC----cHHHHHHHhhccceeEEEeeHHHHHHhcCCCCCccccHHHHHHHHHeeeE
Confidence 665543322 47888 9999864 4455555555554345544443 34443221 121222 22
Q ss_pred cccccCCcceecCCCccc
Q 000955 653 DDQFLSGKSFYLPGSVDE 670 (1210)
Q Consensus 653 d~~~l~gksFYlPGsvd~ 670 (1210)
--..+.-+.|+-|-.||.
T Consensus 155 ~~~~v~~~~F~P~PkV~s 172 (258)
T PRK14896 155 IVEKVPPGAFSPKPKVDS 172 (258)
T ss_pred EEEEeChHhCCCCCCceE
Confidence 223345678887766673
No 25
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=96.44 E-value=0.0023 Score=53.20 Aligned_cols=45 Identities=27% Similarity=0.624 Sum_probs=34.1
Q ss_pred cccccCCCccCCCCCCceeeccccCcccccccCCCCcccccccccccccccccc
Q 000955 158 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG 211 (1210)
Q Consensus 158 ~C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~C 211 (1210)
+|.+|++.++ +..++.|+.|..+||..|+.++... +.++...|.|
T Consensus 1 ~C~vC~~~~~----~~~~i~C~~C~~~~H~~C~~~~~~~-----~~~~~~~w~C 45 (51)
T PF00628_consen 1 YCPVCGQSDD----DGDMIQCDSCNRWYHQECVGPPEKA-----EEIPSGDWYC 45 (51)
T ss_dssp EBTTTTSSCT----TSSEEEBSTTSCEEETTTSTSSHSH-----HSHHSSSBSS
T ss_pred eCcCCCCcCC----CCCeEEcCCCChhhCcccCCCChhh-----ccCCCCcEEC
Confidence 4888988443 3469999999999999999998652 2334458887
No 26
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=96.24 E-value=0.0012 Score=80.76 Aligned_cols=51 Identities=37% Similarity=0.813 Sum_probs=38.8
Q ss_pred cccccCcccccccCCCCeeccccccCCccccccccCcccccccCCCChhhhhccccccccchh
Q 000955 25 EDELFDSVCSFCDNGGDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCE 87 (1210)
Q Consensus 25 ddDlnDdVCaIC~dGGELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe 87 (1210)
.++-....|.+|.++|++|||+ .|+.+||+. |+...+++. +.+.|+|+.|.
T Consensus 42 ~~~~~~e~c~ic~~~g~~l~c~-tC~~s~h~~--------cl~~pl~~~---p~~~~~c~Rc~ 92 (696)
T KOG0383|consen 42 WDDAEQEACRICADGGELLWCD-TCPASFHAS--------CLGPPLTPQ---PNGEFICPRCF 92 (696)
T ss_pred cchhhhhhhhhhcCCCcEEEec-cccHHHHHH--------ccCCCCCcC---Cccceeeeeec
Confidence 4455678899999999999999 899999999 433333332 34559999884
No 27
>PTZ00338 dimethyladenosine transferase-like protein; Provisional
Probab=96.22 E-value=0.0065 Score=67.67 Aligned_cols=154 Identities=19% Similarity=0.274 Sum_probs=92.7
Q ss_pred cccccc-ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCCcc-cc----------ccccc
Q 000955 505 HGMRYT-SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNC-LY----------KNYDI 571 (1210)
Q Consensus 505 ~G~ryt-S~grhF-Tk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c-~~----------kn~dl 571 (1210)
||+|.. +||.|| +...-+..|++.+. +.+||+|||+-||.-.+...+-++ ..+-. .= +|+.-
T Consensus 6 ~~~~~kk~~GQnFL~d~~i~~~Iv~~~~--~~~~~~VLEIG~G~G~LT~~Ll~~---~~~V~avEiD~~li~~l~~~~~~ 80 (294)
T PTZ00338 6 SGMVFNKKFGQHILKNPLVLDKIVEKAA--IKPTDTVLEIGPGTGNLTEKLLQL---AKKVIAIEIDPRMVAELKKRFQN 80 (294)
T ss_pred CCcCcCCCCCccccCCHHHHHHHHHhcC--CCCcCEEEEecCchHHHHHHHHHh---CCcEEEEECCHHHHHHHHHHHHh
Confidence 455543 899999 67888889999874 679999999999999998777442 11100 00 11110
Q ss_pred cCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCcc-ccccccC--CCc-
Q 000955 572 LPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET-ERLDRKE--SAY- 647 (1210)
Q Consensus 572 ~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI~P~~t-~rld~k~--~~Y- 647 (1210)
......+.+...|++.+...++ .+|++ ||||.+-..+--+++.... ..+-.+|++-+|. +||=.++ .-|
T Consensus 81 ~~~~~~v~ii~~Dal~~~~~~~----d~Vva-NlPY~Istpil~~ll~~~~--~~~~~vlm~QkEvA~Rl~A~pg~k~y~ 153 (294)
T PTZ00338 81 SPLASKLEVIEGDALKTEFPYF----DVCVA-NVPYQISSPLVFKLLAHRP--LFRCAVLMFQKEFALRLLAQPGDELYC 153 (294)
T ss_pred cCCCCcEEEEECCHhhhccccc----CEEEe-cCCcccCcHHHHHHHhcCC--CCceeeeeehHHHHHHHhcCCCCcccC
Confidence 0002346666677776554333 26666 9999966666555554433 3346777777776 7774331 112
Q ss_pred --eeee------ccccccCCcceecCCCccc
Q 000955 648 --ELVW------EDDQFLSGKSFYLPGSVDE 670 (1210)
Q Consensus 648 --~liw------ed~~~l~gksFYlPGsvd~ 670 (1210)
.++| +--.-+...+||=|=-||.
T Consensus 154 ~LSv~~q~~~~~~~~~~V~~~~F~P~PkVdS 184 (294)
T PTZ00338 154 RLSVNTQLLCRVTHLMKVSKNSFNPPPKVES 184 (294)
T ss_pred HHHHHHHHHhceEEEEEeCchhCCCCCCcEE
Confidence 1221 2223456778887777773
No 28
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=95.91 E-value=0.0048 Score=64.66 Aligned_cols=93 Identities=26% Similarity=0.562 Sum_probs=61.8
Q ss_pred cccccCCCCCCCCCCCCcccccCCCCCCCCCcccccccccccchHHHHHHHHHhhccC-Cceec--------------CC
Q 000955 92 QCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAG-ESFTC--------------PL 156 (1210)
Q Consensus 92 qCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLekkIaaG-ksFrC--------------Pl 156 (1210)
.|-+|+..|.+ ...+.|+.|+ .|...||..||.....- +.|-.+|... ...+| |.
T Consensus 1 ~C~~C~~~g~~--~~kG~Lv~CQ--GCs~sYHk~CLG~Rs~R------eHlVTKVg~d~FVLQCr~Cig~~~kKD~~aP~ 70 (175)
T PF15446_consen 1 TCDTCGYEGDD--RNKGPLVYCQ--GCSSSYHKACLGPRSQR------EHLVTKVGDDDFVLQCRRCIGIAHKKDPRAPH 70 (175)
T ss_pred CcccccCCCCC--ccCCCeEEcC--ccChHHHhhhcCCcccc------ceeeEEEcCCceEEechhhcChhhcccCCCCC
Confidence 37788765442 2346899999 99999999999976421 1121222221 23445 44
Q ss_pred c-cccccCCCccC----------------------------------CCCCCceeeccccCcccccccCCCCc
Q 000955 157 H-KCCICKQGENK----------------------------------ADSDLQFAVCRRCPKAYHRKCLPRKI 194 (1210)
Q Consensus 157 H-~C~vCkkseDk----------------------------------n~~egqLIrCdRCPKAYH~kCLPPpI 194 (1210)
| .|..|+..+.. +..+.-|++|..|-++||...||+..
T Consensus 71 ~~~C~~C~~~G~~c~pfr~r~T~kQEe~~ReeNgG~DPit~Vd~~lvnN~~nVLFRC~~C~RawH~~HLP~~~ 143 (175)
T PF15446_consen 71 HGMCQQCKKPGPSCKPFRPRKTPKQEEKLREENGGVDPITPVDPELVNNPDNVLFRCTSCHRAWHFEHLPPPS 143 (175)
T ss_pred CCcccccCCCCCCCcccCCCCCcHHHHHHHHHcCCCCCCccCCHHHccChhheEEecCCccceeehhhCCCCc
Confidence 4 39999985421 12445589999999999999999964
No 30
>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=95.80 E-value=0.02 Score=59.23 Aligned_cols=106 Identities=23% Similarity=0.442 Sum_probs=55.6
Q ss_pred HHHhhcccccCCCcEEeccCCcchHHH---HHHHHHH---------hhCCccc-------cccccccCCCCCcccccccc
Q 000955 525 IVDKLHWYVNDGDMIVDFCCGANDFSC---LMKKKLD---------ETGKNCL-------YKNYDILPAKNDFNFEKRDW 585 (1210)
Q Consensus 525 i~~~Lh~yv~~gd~ivdfccg~n~fs~---lmk~kl~---------~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw 585 (1210)
++..--| ++|++|+|.+||+-.|.. +|....- -.|.+.. -.|..-..-.+...|...|.
T Consensus 20 ll~la~~--~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D~ 97 (179)
T PF01170_consen 20 LLNLAGW--RPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWDA 97 (179)
T ss_dssp HHHHTT----TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--G
T ss_pred HHHHhCC--CCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecch
Confidence 4444444 789999999999999862 2211111 0011111 12222222234455666666
Q ss_pred ccccCCCCCCCCeeeeeeCCCccchhh-------hHHHHHHhhhc-cCCcEEEEecCC
Q 000955 586 MTVEPKELAPGSRLIMGLNPPFGVKAG-------LANKFINKALE-FNPKLLILIVPP 635 (1210)
Q Consensus 586 ~~v~~~elp~G~~LimgLnPPfg~~a~-------lAnkFi~kal~-F~PkliilI~P~ 635 (1210)
..+. ++.|+.=+|.-|||||.+.. |-.+|++.+-. ++|++++|+...
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 6665 45666656667999999855 34567777777 898666666543
No 31
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=95.65 E-value=0.0053 Score=74.93 Aligned_cols=129 Identities=22% Similarity=0.534 Sum_probs=78.5
Q ss_pred cCcccccccCC-----CCeeccccccCCccccccccCcccccccCCCChhhhhccccccccchhhcc-ccccccCCCCCC
Q 000955 29 FDSVCSFCDNG-----GDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQ-HQCFACGKLGSS 102 (1210)
Q Consensus 29 nDdVCaIC~dG-----GELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~gQ-HqCFVCGqlGSS 102 (1210)
.+.+|.+|..+ .+|+.|+ .|.-..|.. | .|+.+. +.+.|+|.-|..+. ..|.+|=+.|-.
T Consensus 270 edviCDvCrspD~e~~neMVfCd-~Cn~cVHqa--------C--yGIle~---p~gpWlCr~Calg~~ppCvLCPkkGGa 335 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCD-KCNICVHQA--------C--YGILEV---PEGPWLCRTCALGIEPPCVLCPKKGGA 335 (893)
T ss_pred ccceeceecCCCccccceeEEec-cchhHHHHh--------h--hceeec---CCCCeeehhccccCCCCeeeccccCCc
Confidence 46778888765 4899999 799999999 4 566543 46899999998875 689999776642
Q ss_pred CCCCCCcccccCCCCCCCCCcccccccccccchHHHHHHHHHhhcc-----CCceecCCccccccCCCccCCCCCCceee
Q 000955 103 DKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIA-----GESFTCPLHKCCICKQGENKADSDLQFAV 177 (1210)
Q Consensus 103 DK~SGaELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLekkIaa-----GksFrCPlH~C~vCkkseDkn~~egqLIr 177 (1210)
-+.+ ..=.+|-|..|----+.-..++. .-++ =|.+ ...|. -.|..|+... +.-|+
T Consensus 336 mK~~---------~sgT~wAHvsCALwIPEVsie~~-ekme-PItkfs~IpesRws---lvC~LCk~k~------GACIq 395 (893)
T KOG0954|consen 336 MKPT---------KSGTKWAHVSCALWIPEVSIECP-EKME-PITKFSHIPESRWS---LVCNLCKVKS------GACIQ 395 (893)
T ss_pred cccc---------CCCCeeeEeeeeeccceeeccCH-hhcC-cccccCCCcHHHHH---HHHHHhcccC------cceEE
Confidence 1111 12226778887643222111111 0000 0110 01222 1388887653 24566
Q ss_pred cc--ccCcccccccCC
Q 000955 178 CR--RCPKAYHRKCLP 191 (1210)
Q Consensus 178 Cd--RCPKAYH~kCLP 191 (1210)
|- .|-.+||..|--
T Consensus 396 Cs~k~C~t~fHv~CA~ 411 (893)
T KOG0954|consen 396 CSNKTCRTAFHVTCAF 411 (893)
T ss_pred ecccchhhhccchhhh
Confidence 64 788999999954
No 32
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.04 E-value=0.011 Score=72.59 Aligned_cols=46 Identities=26% Similarity=0.793 Sum_probs=35.1
Q ss_pred CcccccccCCC---CeeccccccCCc-cccccccCcccccccCCCChhhhhccccccccchh
Q 000955 30 DSVCSFCDNGG---DLLCCEGRCLRS-FHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCE 87 (1210)
Q Consensus 30 DdVCaIC~dGG---ELLCCDGsC~RS-FH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe 87 (1210)
...|.+|.... -||.|+ .|... ||.. |+++.+.+. +...|||.+|.
T Consensus 215 ~~~C~IC~~~DpEdVLLLCD-sCN~~~YH~Y--------CLDPdl~ei---P~~eWYC~NC~ 264 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCD-SCNKVYYHVY--------CLDPDLSES---PVNEWYCTNCS 264 (1134)
T ss_pred cccceeeccCChHHhheeec-ccccceeecc--------ccCcccccc---cccceecCcch
Confidence 46799999865 499999 59999 9999 544544433 35789999995
No 33
>PF13659 Methyltransf_26: Methyltransferase domain; PDB: 3GJY_A 3LPM_B 2NP6_D 1AQI_B 2ADM_B 2IH2_A 2JG3_A 2IBS_D 2NP7_A 2IBT_A ....
Probab=94.54 E-value=0.022 Score=52.81 Aligned_cols=87 Identities=22% Similarity=0.316 Sum_probs=55.7
Q ss_pred CCcEEeccCCcchHHHHHHHHH--HhhCCccc-------cccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCC
Q 000955 536 GDMIVDFCCGANDFSCLMKKKL--DETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPP 606 (1210)
Q Consensus 536 gd~ivdfccg~n~fs~lmk~kl--~~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPP 606 (1210)
|++|+|+|||.-.|...+-+.. .-+|.+.. -+|+....-.....|...|+.++. .+++.+..=++-.|||
T Consensus 1 g~~vlD~~~G~G~~~~~~~~~~~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~-~~~~~~~~D~Iv~npP 79 (117)
T PF13659_consen 1 GDRVLDPGCGSGTFLLAALRRGAARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLP-EPLPDGKFDLIVTNPP 79 (117)
T ss_dssp TEEEEEETSTTCHHHHHHHHHCTCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHH-HTCTTT-EEEEEE--S
T ss_pred CCEEEEcCcchHHHHHHHHHHCCCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhch-hhccCceeEEEEECCC
Confidence 7899999999999999997764 11111111 134444443456888899998886 4566666644444999
Q ss_pred ccch-------hhhHHHHHHhhhc
Q 000955 607 FGVK-------AGLANKFINKALE 623 (1210)
Q Consensus 607 fg~~-------a~lAnkFi~kal~ 623 (1210)
|+.. ..+...|+.+|..
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~ 103 (117)
T PF13659_consen 80 YGPRSGDKAALRRLYSRFLEAAAR 103 (117)
T ss_dssp TTSBTT----GGCHHHHHHHHHHH
T ss_pred CccccccchhhHHHHHHHHHHHHH
Confidence 9954 2367788888764
No 34
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=94.35 E-value=0.017 Score=52.84 Aligned_cols=60 Identities=25% Similarity=0.394 Sum_probs=41.2
Q ss_pred CCceeccCccccccccccccccccccccCcccccccCC-CCeeccc-cccCCccccccccCcc
Q 000955 2 SGFIVDDMEEDMVHDTEEDESNEEDELFDSVCSFCDNG-GDLLCCE-GRCLRSFHATIDAGEE 62 (1210)
Q Consensus 2 ~~~ivdd~d~~~~~e~~Ee~sdeddDlnDdVCaIC~dG-GELLCCD-GsC~RSFH~~C~dGee 62 (1210)
||+.+++.++ ......++-++.........|.+|+.. |..+.|. ..|.+.||+.|+...+
T Consensus 9 p~v~~~~~~~-~~~~~i~~v~~~~~~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~ 70 (90)
T PF13771_consen 9 PEVYFDESED-IGGFSIEDVEKEIKRRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAG 70 (90)
T ss_pred CceEEeCCCc-cccccHHhHHHHHHHHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCC
Confidence 6777666643 111122223445556778899999998 9888886 5799999999875444
No 35
>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e.g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....
Probab=94.06 E-value=0.042 Score=59.65 Aligned_cols=155 Identities=21% Similarity=0.329 Sum_probs=86.9
Q ss_pred cccCcccc-hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhh---CCccccccccccC----CCCCcccc
Q 000955 510 TSFGRHFT-KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET---GKNCLYKNYDILP----AKNDFNFE 581 (1210)
Q Consensus 510 tS~grhFT-k~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~---gk~c~~kn~dl~~----~kn~f~Fe 581 (1210)
-+||-||- ...-++.|++.+..- .+++|||+-.|...|++.|-++...+ .++-.| ++.+. ...++..-
T Consensus 6 k~~gQnFL~~~~~~~~Iv~~~~~~--~~~~VlEiGpG~G~lT~~L~~~~~~v~~vE~d~~~--~~~L~~~~~~~~~~~vi 81 (262)
T PF00398_consen 6 KSLGQNFLVDPNIADKIVDALDLS--EGDTVLEIGPGPGALTRELLKRGKRVIAVEIDPDL--AKHLKERFASNPNVEVI 81 (262)
T ss_dssp CGCTSSEEEHHHHHHHHHHHHTCG--TTSEEEEESSTTSCCHHHHHHHSSEEEEEESSHHH--HHHHHHHCTTCSSEEEE
T ss_pred CCCCcCeeCCHHHHHHHHHhcCCC--CCCEEEEeCCCCccchhhHhcccCcceeecCcHhH--HHHHHHHhhhcccceee
Confidence 47899997 566678899988654 99999999999999999886544110 000000 11111 12333444
Q ss_pred ccccccccCCC-CCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-cccccccC-----CCceee----
Q 000955 582 KRDWMTVEPKE-LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRKE-----SAYELV---- 650 (1210)
Q Consensus 582 ~~dw~~v~~~e-lp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI~P~~-t~rld~k~-----~~Y~li---- 650 (1210)
..|.++++..+ +.....+|+| |.||.+-..|-.+++. ...+...-++|+++.| .+||=.+. ....++
T Consensus 82 ~~D~l~~~~~~~~~~~~~~vv~-NlPy~is~~il~~ll~-~~~~g~~~~~l~vq~e~a~rl~a~pg~~~~~~lsv~~q~~ 159 (262)
T PF00398_consen 82 NGDFLKWDLYDLLKNQPLLVVG-NLPYNISSPILRKLLE-LYRFGRVRMVLMVQKEVAERLLAKPGSKRYSRLSVLAQAF 159 (262)
T ss_dssp ES-TTTSCGGGHCSSSEEEEEE-EETGTGHHHHHHHHHH-HGGGCEEEEEEEEEHHHHHHHHTSTTSTTCSHHHHHHHHH
T ss_pred ecchhccccHHhhcCCceEEEE-EecccchHHHHHHHhh-cccccccceEEEEehhhhhhccCCCCCCccchhhhhhhhh
Confidence 55666665554 4456667777 9999755555555554 1123224556666555 46665542 111122
Q ss_pred --eccccccCCcceecCCCccc
Q 000955 651 --WEDDQFLSGKSFYLPGSVDE 670 (1210)
Q Consensus 651 --wed~~~l~gksFYlPGsvd~ 670 (1210)
++--.-+....||=+-.||.
T Consensus 160 ~~i~~l~~v~~~~F~P~PkVds 181 (262)
T PF00398_consen 160 FDIKLLFKVPPSCFYPPPKVDS 181 (262)
T ss_dssp EEEEEEEEE-GGGEESSSSS-E
T ss_pred hceeEecccCCccccCCCCCce
Confidence 22223344567776666674
No 36
>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional
Probab=93.92 E-value=0.2 Score=53.24 Aligned_cols=120 Identities=18% Similarity=0.211 Sum_probs=62.5
Q ss_pred cCCCcEEeccCCcchHHHH-HHHH-HHhhCCcc-------ccccccccCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 000955 534 NDGDMIVDFCCGANDFSCL-MKKK-LDETGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 604 (1210)
Q Consensus 534 ~~gd~ivdfccg~n~fs~l-mk~k-l~~~gk~c-------~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLn 604 (1210)
..|.+|+|++||+..|+-. +... ..-++.+. .-+|.....- ++..|...|++..-+. ..+..=++-+|
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 5788999999999999964 3321 01111111 1245444432 2466777777653222 12334456689
Q ss_pred CCccchhhhHHHHHHhhhc---cCCcEEEEec-CCccccccccCCCceeeeccccccCCcce
Q 000955 605 PPFGVKAGLANKFINKALE---FNPKLLILIV-PPETERLDRKESAYELVWEDDQFLSGKSF 662 (1210)
Q Consensus 605 PPfg~~a~lAnkFi~kal~---F~PkliilI~-P~~t~rld~k~~~Y~liwed~~~l~gksF 662 (1210)
|||-. .+..+-++.... ..|+=||.|- +..++ +......|.++ ..+.. |+|+
T Consensus 129 PPy~~--g~~~~~l~~l~~~~~l~~~~iv~ve~~~~~~-~~~~~~~~~~~-~~k~y--G~s~ 184 (199)
T PRK10909 129 PPFRK--GLLEETINLLEDNGWLADEALIYVESEVENG-LPTVPANWQLH-REKVA--GQVA 184 (199)
T ss_pred CCCCC--ChHHHHHHHHHHCCCcCCCcEEEEEecCCCC-cccCCCccEEE-EEecC--CCEE
Confidence 99843 344443333333 3677666665 43332 33333346554 33333 6664
No 37
>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=92.91 E-value=0.16 Score=58.69 Aligned_cols=129 Identities=21% Similarity=0.365 Sum_probs=73.0
Q ss_pred hhhhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHHHHh-hCCccc-------cccccccCCCCCcccccccccc
Q 000955 518 KVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKKLDE-TGKNCL-------YKNYDILPAKNDFNFEKRDWMT 587 (1210)
Q Consensus 518 k~ekl~~i~~~Lh~yv~--~gd~ivdfccg~n~fs~lmk~kl~~-~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~ 587 (1210)
..+-.+.+++++..+++ ++++|+|++||.-.|+..|.+.... +|.+.+ =+|..... -++..|...|+..
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 45666677777766654 6789999999999999888653210 111111 12222211 1235566666654
Q ss_pred ccCCC-CCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec-CCcccccccc---CCCceee
Q 000955 588 VEPKE-LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV-PPETERLDRK---ESAYELV 650 (1210)
Q Consensus 588 v~~~e-lp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI~-P~~t~rld~k---~~~Y~li 650 (1210)
.-++. +..++.=++-+|||. +.++..|++.....+|+-||.|. -|.|--.|-+ ..+|.+.
T Consensus 352 ~l~~~~~~~~~~D~vi~dPPr---~G~~~~~l~~l~~l~~~~ivyvsc~p~tlard~~~l~~~gy~~~ 416 (431)
T TIGR00479 352 VLPKQPWAGQIPDVLLLDPPR---KGCAAEVLRTIIELKPERIVYVSCNPATLARDLEFLCKEGYGIT 416 (431)
T ss_pred HHHHHHhcCCCCCEEEECcCC---CCCCHHHHHHHHhcCCCEEEEEcCCHHHHHHHHHHHHHCCeeEE
Confidence 32211 112222233469994 34778888887788898877765 4455433332 2356553
No 38
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=92.71 E-value=0.054 Score=60.12 Aligned_cols=34 Identities=24% Similarity=0.628 Sum_probs=27.8
Q ss_pred CcccccCCCCCC-CCCcccccccccccchHHHHHHHHHhhccCCceecCC
Q 000955 108 AEVFPCVSATCG-HFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPL 156 (1210)
Q Consensus 108 aELfkCsVasCG-KFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPl 156 (1210)
++++.|+.+.|. .+||..||.....| .| .|+||.
T Consensus 230 g~Mi~CDn~~C~~eWFH~~CVGL~~~P--------------kg-kWyC~~ 264 (274)
T KOG1973|consen 230 GKMIGCDNPGCPIEWFHFTCVGLKTKP--------------KG-KWYCPR 264 (274)
T ss_pred ccccccCCCCCCcceEEEeccccccCC--------------CC-cccchh
Confidence 589999999999 99999999976432 34 499995
No 39
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=92.08 E-value=0.034 Score=65.05 Aligned_cols=90 Identities=23% Similarity=0.525 Sum_probs=57.8
Q ss_pred ccccCcccccccCC--CCeeccccccCCccccccccCccccc-ccCCCChhhhhccccccccchhhc-cccccccCCCCC
Q 000955 26 DELFDSVCSFCDNG--GDLLCCEGRCLRSFHATIDAGEESHC-ASLGLTKDEVEAMLNFFCKNCEYK-QHQCFACGKLGS 101 (1210)
Q Consensus 26 dDlnDdVCaIC~dG--GELLCCDGsC~RSFH~~C~dGeeS~C-lsLGLTe~evqp~~sW~CpnCe~g-QHqCFVCGqlGS 101 (1210)
++.+. +|..|..+ |+-.-|. -=.+.||..|..=.. | .+|.-.. --.-+++-+|..|-.+ ...|.+|++.-.
T Consensus 271 ~~~~~-iC~~C~K~V~g~~~ac~-Am~~~fHv~CFtC~~--C~r~L~Gq~-FY~v~~k~~CE~cyq~tlekC~~Cg~~I~ 345 (468)
T KOG1701|consen 271 EDYFG-ICAFCHKTVSGQGLAVE-AMDQLFHVQCFTCRT--CRRQLAGQS-FYQVDGKPYCEGCYQDTLEKCNKCGEPIM 345 (468)
T ss_pred hhhhh-hhhhcCCcccCcchHHH-HhhhhhcccceehHh--hhhhhcccc-ccccCCcccchHHHHHHHHHHhhhhhHHH
Confidence 34444 99999984 7777887 467999999865110 2 1111000 0012467889999544 368999998753
Q ss_pred CCCCCCCcccccCCCCCCCCCcccccccc
Q 000955 102 SDKETGAEVFPCVSATCGHFYHPHCVSKL 130 (1210)
Q Consensus 102 SDK~SGaELfkCsVasCGKFYHpkCLa~l 130 (1210)
..+++ .||+.||+.|..-.
T Consensus 346 ------d~iLr----A~GkayHp~CF~Cv 364 (468)
T KOG1701|consen 346 ------DRILR----ALGKAYHPGCFTCV 364 (468)
T ss_pred ------HHHHH----hcccccCCCceEEE
Confidence 24555 79999999977643
No 40
>TIGR01177 conserved hypothetical protein TIGR01177. This family is found exclusively in the Archaea.
Probab=91.91 E-value=0.7 Score=51.89 Aligned_cols=104 Identities=21% Similarity=0.364 Sum_probs=54.0
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCCcccccccccc--------------CCCCCcccccccccc
Q 000955 522 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDIL--------------PAKNDFNFEKRDWMT 587 (1210)
Q Consensus 522 l~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~--------------~~kn~f~Fe~~dw~~ 587 (1210)
...+++.+. +++|++|+|++||.-.|..-+.. .|.. .--.|+- .-.+ ..|...|-..
T Consensus 171 a~~~~~l~~--~~~g~~vLDp~cGtG~~lieaa~----~~~~--v~g~Di~~~~~~~a~~nl~~~g~~~-i~~~~~D~~~ 241 (329)
T TIGR01177 171 ARAMVNLAR--VTEGDRVLDPFCGTGGFLIEAGL----MGAK--VIGCDIDWKMVAGARINLEHYGIED-FFVKRGDATK 241 (329)
T ss_pred HHHHHHHhC--CCCcCEEEECCCCCCHHHHHHHH----hCCe--EEEEcCCHHHHHHHHHHHHHhCCCC-CeEEecchhc
Confidence 344555555 48999999999999988543311 1211 1111221 1111 3344444333
Q ss_pred ccCCCCCCCCeeeeeeCCCccchhhh--------HHHHHHhhhc-cCCc-EEEEecCCcc
Q 000955 588 VEPKELAPGSRLIMGLNPPFGVKAGL--------ANKFINKALE-FNPK-LLILIVPPET 637 (1210)
Q Consensus 588 v~~~elp~G~~LimgLnPPfg~~a~l--------AnkFi~kal~-F~Pk-liilI~P~~t 637 (1210)
+. ++.+..=+|-.|||||.+... -.+|++.+.. .+|. .+++++|...
T Consensus 242 l~---~~~~~~D~Iv~dPPyg~~~~~~~~~~~~l~~~~l~~~~r~Lk~gG~lv~~~~~~~ 298 (329)
T TIGR01177 242 LP---LSSESVDAIATDPPYGRSTTAAGDGLESLYERSLEEFHEVLKSEGWIVYAVPTRI 298 (329)
T ss_pred CC---cccCCCCEEEECCCCcCcccccCCchHHHHHHHHHHHHHHccCCcEEEEEEcCCC
Confidence 21 123443344459999986533 4566666654 4554 3556666653
No 41
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=91.70 E-value=0.15 Score=60.87 Aligned_cols=47 Identities=26% Similarity=0.579 Sum_probs=36.8
Q ss_pred cccccCCCccCCCCCCceeeccccCcccccccCCCCcccccccccccccccccc
Q 000955 158 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG 211 (1210)
Q Consensus 158 ~C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~C 211 (1210)
.|-+|+++.+.- .|++|+.|.+.||..||.|++..... ...+..|.|
T Consensus 546 sCgiCkks~dQH----ll~~CDtC~lhYHlGCL~PPLTR~Pk---k~kn~gWqC 592 (707)
T KOG0957|consen 546 SCGICKKSTDQH----LLTQCDTCHLHYHLGCLSPPLTRLPK---KNKNFGWQC 592 (707)
T ss_pred eeeeeccchhhH----HHhhcchhhceeeccccCCccccCcc---cccCcceee
Confidence 499999987643 58899999999999999999975432 233567886
No 42
>smart00650 rADc Ribosomal RNA adenine dimethylases.
Probab=91.60 E-value=0.17 Score=51.11 Aligned_cols=141 Identities=18% Similarity=0.226 Sum_probs=73.1
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHH-hhCCcccccccccc----CCCCCccccccccccccCCCCCCC
Q 000955 522 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD-ETGKNCLYKNYDIL----PAKNDFNFEKRDWMTVEPKELAPG 596 (1210)
Q Consensus 522 l~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~-~~gk~c~~kn~dl~----~~kn~f~Fe~~dw~~v~~~elp~G 596 (1210)
++.|++.+.+ .+|++|+|+.||.-.++..+-++.. -++.+-.-+-.+++ ...+.+.|...|.+.+...+. .
T Consensus 2 ~~~i~~~~~~--~~~~~vLEiG~G~G~lt~~l~~~~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~~--~ 77 (169)
T smart00650 2 IDKIVRAANL--RPGDTVLEIGPGKGALTEELLERAARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPKL--Q 77 (169)
T ss_pred HHHHHHhcCC--CCcCEEEEECCCccHHHHHHHhcCCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCcccc--C
Confidence 3567777764 6789999999999999988755310 00111110011111 112345566677766643321 1
Q ss_pred CeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-cccccccC--CCc---------eeeeccccccCCcceec
Q 000955 597 SRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRKE--SAY---------ELVWEDDQFLSGKSFYL 664 (1210)
Q Consensus 597 ~~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI~P~~-t~rld~k~--~~Y---------~liwed~~~l~gksFYl 664 (1210)
--+|++ ||||.+...+-.++++... ..+.. +|++-.| .+||-.+. .-| ..-|+--.-+...+||=
T Consensus 78 ~d~vi~-n~Py~~~~~~i~~~l~~~~-~~~~~-~l~~q~e~a~rl~~~~~~~~y~~lsv~~~~~~~~~~~~~v~~~~F~P 154 (169)
T smart00650 78 PYKVVG-NLPYNISTPILFKLLEEPP-AFRDA-VLMVQKEVARRLAAKPGSKDYGRLSVLLQPYFDVKILFKVPPEAFRP 154 (169)
T ss_pred CCEEEE-CCCcccHHHHHHHHHhcCC-CcceE-EEEEEHHHhHHhcCCCCCCcccHHHHHHHHHeeEEEEEEEChhhCCC
Confidence 246777 9999864444444444332 22344 4455444 45776652 122 23344444455566654
Q ss_pred CCCcc
Q 000955 665 PGSVD 669 (1210)
Q Consensus 665 PGsvd 669 (1210)
|=-||
T Consensus 155 ~PkV~ 159 (169)
T smart00650 155 PPKVD 159 (169)
T ss_pred CCCce
Confidence 44443
No 43
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=91.04 E-value=0.085 Score=62.65 Aligned_cols=51 Identities=24% Similarity=0.673 Sum_probs=36.6
Q ss_pred CcccccccCCC-----CeeccccccCCccccccccCcccccccCCCChhhh-hccccccccchhhc
Q 000955 30 DSVCSFCDNGG-----DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEV-EAMLNFFCKNCEYK 89 (1210)
Q Consensus 30 DdVCaIC~dGG-----ELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~ev-qp~~sW~CpnCe~g 89 (1210)
+..|.+|..|+ .||.|+ .|..+||..|.. | .++...+ .+...|+|..|.++
T Consensus 168 n~qc~vC~~g~~~~~NrmlqC~-~C~~~fHq~Chq-----p---~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 168 NLQCSVCYCGGPGAGNRMLQCD-KCRQWYHQACHQ-----P---LIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred cceeeeeecCCcCccceeeeec-ccccHHHHHhcc-----C---CCCHhhccCccceEeehhhccc
Confidence 44599999765 699999 599999999754 3 2333322 34678999988654
No 44
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=91.03 E-value=0.2 Score=61.63 Aligned_cols=72 Identities=26% Similarity=0.484 Sum_probs=41.4
Q ss_pred cccccCCCccC-CCCCCceeecc--ccCcccccccCCCCccccccccccccccccccccCCCceeEeccCcccccccCCC
Q 000955 158 KCCICKQGENK-ADSDLQFAVCR--RCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLLPNHRILIYCLKHEIDDEIGTP 234 (1210)
Q Consensus 158 ~C~vCkkseDk-n~~egqLIrCd--RCPKAYH~kCLPPpIafed~~eE~Ip~RAW~CLLpncRILI~CpkHeID~~LgTP 234 (1210)
.|+.|.+.+.. +...+.-+.|- -|-.+||..|--.. -..+ +|++..-+ |-.-|=||..| +.+.+-.+
T Consensus 119 tCYIC~E~GrpnkA~~GACMtCNKs~CkqaFHVTCAQ~~-GLLC-EE~gn~~d-------NVKYCGYCk~H-fsKlkk~~ 188 (900)
T KOG0956|consen 119 TCYICNEEGRPNKAAKGACMTCNKSGCKQAFHVTCAQRA-GLLC-EEEGNISD-------NVKYCGYCKYH-FSKLKKSP 188 (900)
T ss_pred eeeeecccCCccccccccceecccccchhhhhhhHhhhh-ccce-eccccccc-------cceechhHHHH-HHHhhcCC
Confidence 49999987532 23445667775 48889999997542 1122 22222211 11335688888 66666555
Q ss_pred CCCcc
Q 000955 235 IRDHI 239 (1210)
Q Consensus 235 ~RdHI 239 (1210)
+-.-|
T Consensus 189 ~~k~i 193 (900)
T KOG0956|consen 189 AIKVI 193 (900)
T ss_pred CcccC
Confidence 55444
No 45
>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=90.79 E-value=0.23 Score=56.92 Aligned_cols=115 Identities=16% Similarity=0.229 Sum_probs=63.7
Q ss_pred chhhhHHHHHHhhcccc--cCCCcEEeccCCcchHHHHHHHHHH-hhCCccc-------cccccccCCCCCccccccccc
Q 000955 517 TKVDKLQAIVDKLHWYV--NDGDMIVDFCCGANDFSCLMKKKLD-ETGKNCL-------YKNYDILPAKNDFNFEKRDWM 586 (1210)
Q Consensus 517 Tk~ekl~~i~~~Lh~yv--~~gd~ivdfccg~n~fs~lmk~kl~-~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~ 586 (1210)
|..+-.+.+++.+.-++ .++.+|+|++||...|+..+-.+.. -+|.+.+ -+|.....- ++..|...|..
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 34444444455544343 2578999999999999987754321 1122221 122222211 13455555543
Q ss_pred cccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEe-cCCcc
Q 000955 587 TVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILI-VPPET 637 (1210)
Q Consensus 587 ~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI-~P~~t 637 (1210)
+.-+. + .+..=++-+|||. +.+..++|+.++.++|+-||.| .-|.|
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 1122345569996 4788999999999999655554 44444
No 46
>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=89.86 E-value=0.3 Score=49.74 Aligned_cols=84 Identities=23% Similarity=0.344 Sum_probs=53.7
Q ss_pred CCCcEEeccCCcchHHHHHHHHHHhhC----------CccccccccccCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 000955 535 DGDMIVDFCCGANDFSCLMKKKLDETG----------KNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 604 (1210)
Q Consensus 535 ~gd~ivdfccg~n~fs~lmk~kl~~~g----------k~c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLn 604 (1210)
.+..|+|++||+--.+-++.++..... ..|.-+|.....-.+ ..+...||+. .++.+..=++-.|
T Consensus 31 ~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~-v~~~~~d~~~----~~~~~~fD~Iv~N 105 (170)
T PF05175_consen 31 KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLEN-VEVVQSDLFE----ALPDGKFDLIVSN 105 (170)
T ss_dssp TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTT-EEEEESSTTT----TCCTTCEEEEEE-
T ss_pred cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccc-cccccccccc----cccccceeEEEEc
Confidence 788999999999999999877544311 123345555554444 6777788864 3444555455559
Q ss_pred CCccchhh----hHHHHHHhhhc
Q 000955 605 PPFGVKAG----LANKFINKALE 623 (1210)
Q Consensus 605 PPfg~~a~----lAnkFi~kal~ 623 (1210)
|||--... +..+||+.|..
T Consensus 106 PP~~~~~~~~~~~~~~~i~~a~~ 128 (170)
T PF05175_consen 106 PPFHAGGDDGLDLLRDFIEQARR 128 (170)
T ss_dssp --SBTTSHCHHHHHHHHHHHHHH
T ss_pred cchhcccccchhhHHHHHHHHHH
Confidence 99965444 77899988754
No 47
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=89.16 E-value=0.34 Score=46.23 Aligned_cols=83 Identities=22% Similarity=0.413 Sum_probs=49.3
Q ss_pred ccccccCC-CCeeccccccCCcccccccc--Cccccccc-CCCChhhhhccccccccchhhccccccccCCCCCCCCCCC
Q 000955 32 VCSFCDNG-GDLLCCEGRCLRSFHATIDA--GEESHCAS-LGLTKDEVEAMLNFFCKNCEYKQHQCFACGKLGSSDKETG 107 (1210)
Q Consensus 32 VCaIC~dG-GELLCCDGsC~RSFH~~C~d--GeeS~Cls-LGLTe~evqp~~sW~CpnCe~gQHqCFVCGqlGSSDK~SG 107 (1210)
.|.+|... |.|..-. -.++.|..|+- ++-.+ .+ ..+....+ .... ++ .....|.+|++.+
T Consensus 2 ~C~lC~~~~Galk~t~--~~~WvHv~Cal~~~~~~~-~~~~~~~~v~~---~~i~-~~--~~~~~C~iC~~~~------- 65 (110)
T PF13832_consen 2 SCVLCPKRGGALKRTS--DGQWVHVLCALWIPEVIF-NNGESMEPVDI---SNIP-PS--RFKLKCSICGKSG------- 65 (110)
T ss_pred ccEeCCCCCCcccCcc--CCcEEEeEccceeCccEE-eechhcCcccc---eeec-ch--hcCCcCcCCCCCC-------
Confidence 59999885 4444444 58899999863 11111 00 00000000 0000 00 1245799998863
Q ss_pred CcccccCCCCCCCCCcccccccc
Q 000955 108 AEVFPCVSATCGHFYHPHCVSKL 130 (1210)
Q Consensus 108 aELfkCsVasCGKFYHpkCLa~l 130 (1210)
+-.++|....|.+.||+.|....
T Consensus 66 G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 66 GACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred ceeEEcCCCCCCcCCCHHHHHHC
Confidence 35899998889999999998764
No 48
>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed
Probab=88.70 E-value=0.44 Score=53.26 Aligned_cols=92 Identities=15% Similarity=0.243 Sum_probs=51.6
Q ss_pred CCCcEEeccCCcchHHHHHHHHHH-hhCCcccc-------ccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCC
Q 000955 535 DGDMIVDFCCGANDFSCLMKKKLD-ETGKNCLY-------KNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPP 606 (1210)
Q Consensus 535 ~gd~ivdfccg~n~fs~lmk~kl~-~~gk~c~~-------kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPP 606 (1210)
++++|+|++||.-.|+..+-++.. -+|.+.+- +|.....- ++..|...|..+..+. ..+..=++-+|||
T Consensus 173 ~~~~VLDl~cG~G~~sl~la~~~~~V~gvD~s~~av~~A~~n~~~~~l-~~v~~~~~D~~~~~~~--~~~~~D~Vv~dPP 249 (315)
T PRK03522 173 PPRSMWDLFCGVGGFGLHCATPGMQLTGIEISAEAIACAKQSAAELGL-TNVQFQALDSTQFATA--QGEVPDLVLVNPP 249 (315)
T ss_pred CCCEEEEccCCCCHHHHHHHhcCCEEEEEeCCHHHHHHHHHHHHHcCC-CceEEEEcCHHHHHHh--cCCCCeEEEECCC
Confidence 579999999999999987765321 11222211 12211111 2345666665443221 1122224446999
Q ss_pred ccchhhhHHHHHHhhhccCCcEEEEe
Q 000955 607 FGVKAGLANKFINKALEFNPKLLILI 632 (1210)
Q Consensus 607 fg~~a~lAnkFi~kal~F~PkliilI 632 (1210)
++.+..+.+.-....+|+-||.|
T Consensus 250 ---r~G~~~~~~~~l~~~~~~~ivyv 272 (315)
T PRK03522 250 ---RRGIGKELCDYLSQMAPRFILYS 272 (315)
T ss_pred ---CCCccHHHHHHHHHcCCCeEEEE
Confidence 45566777777777888877765
No 49
>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=88.61 E-value=1.4 Score=47.73 Aligned_cols=121 Identities=24% Similarity=0.344 Sum_probs=67.7
Q ss_pred hhhcccccccccccccccccCcccchhhhHHHHHHhhcccc-----cCCCcEEeccCCcchHHHHHH-------------
Q 000955 493 KNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYV-----NDGDMIVDFCCGANDFSCLMK------------- 554 (1210)
Q Consensus 493 k~kL~vylaP~l~G~rytS~grhFTk~ekl~~i~~~Lh~yv-----~~gd~ivdfccg~n~fs~lmk------------- 554 (1210)
-.||+-+..|=+.=.-|+-= -.++..+.|.+ ..|-+|+|++||.--|+.-..
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 LEKLKGFPNPKLGLEQYRTP----------APLAAYILWVAYLRGDLEGKTVLDLGAGTGILAIGAALLGASRVLAVDID 77 (198)
T ss_pred hhhhcCCCCCCccceecCCC----------hHHHHHHHHHHHHcCCcCCCEEEEcCCCcCHHHHHHHhcCCcEEEEEecC
Confidence 35566555555554455321 23666777766 345679999999999886432
Q ss_pred -HHHHhhCCccccccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhH-HHHHHhhhccCCcEEEEe
Q 000955 555 -KKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLA-NKFINKALEFNPKLLILI 632 (1210)
Q Consensus 555 -~kl~~~gk~c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lA-nkFi~kal~F~PkliilI 632 (1210)
+.++.....|.= + ..++.|...|=-.+..+ -. ..| .|||||.+..=| ..|+++||+-. +.|--|
T Consensus 78 ~~a~ei~r~N~~~----l---~g~v~f~~~dv~~~~~~---~d-tvi--mNPPFG~~~rhaDr~Fl~~Ale~s-~vVYsi 143 (198)
T COG2263 78 PEALEIARANAEE----L---LGDVEFVVADVSDFRGK---FD-TVI--MNPPFGSQRRHADRPFLLKALEIS-DVVYSI 143 (198)
T ss_pred HHHHHHHHHHHHh----h---CCceEEEEcchhhcCCc---cc-eEE--ECCCCccccccCCHHHHHHHHHhh-heEEEe
Confidence 112211111110 0 13444554443322222 11 233 399999986655 36999999998 777666
Q ss_pred cCCcc
Q 000955 633 VPPET 637 (1210)
Q Consensus 633 ~P~~t 637 (1210)
---.+
T Consensus 144 H~a~~ 148 (198)
T COG2263 144 HKAGS 148 (198)
T ss_pred ecccc
Confidence 54443
No 50
>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed
Probab=88.58 E-value=0.58 Score=54.75 Aligned_cols=124 Identities=21% Similarity=0.307 Sum_probs=68.5
Q ss_pred HHHHHHhhcccc--cCCCcEEeccCCcchHHHHHHHHHHh-hCCccc-------cccccccCCCCCccccccccccccCC
Q 000955 522 LQAIVDKLHWYV--NDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPK 591 (1210)
Q Consensus 522 l~~i~~~Lh~yv--~~gd~ivdfccg~n~fs~lmk~kl~~-~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~ 591 (1210)
.+.+++.+.-++ .+|++|+|++||.-.|+..|-++... +|.+.+ -+|.....-+ +..|...||...-++
T Consensus 282 ~e~l~~~vl~~l~~~~~~~VLDlgcGtG~~sl~la~~~~~V~gvD~s~~al~~A~~n~~~~~~~-~v~~~~~d~~~~l~~ 360 (443)
T PRK13168 282 NQKMVARALEWLDPQPGDRVLDLFCGLGNFTLPLARQAAEVVGVEGVEAMVERARENARRNGLD-NVTFYHANLEEDFTD 360 (443)
T ss_pred HHHHHHHHHHHhcCCCCCEEEEEeccCCHHHHHHHHhCCEEEEEeCCHHHHHHHHHHHHHcCCC-ceEEEEeChHHhhhh
Confidence 344444444343 58899999999999999988654211 111111 1333322222 367888887653221
Q ss_pred -CCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec-CCcccccccc---CCCceee
Q 000955 592 -ELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV-PPETERLDRK---ESAYELV 650 (1210)
Q Consensus 592 -elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI~-P~~t~rld~k---~~~Y~li 650 (1210)
.++.++.=++-+|||..- +.+++......+|+-||.|. -|.|---|-+ ..+|.|.
T Consensus 361 ~~~~~~~fD~Vi~dPPr~g----~~~~~~~l~~~~~~~ivyvSCnp~tlaRDl~~L~~~gY~l~ 420 (443)
T PRK13168 361 QPWALGGFDKVLLDPPRAG----AAEVMQALAKLGPKRIVYVSCNPATLARDAGVLVEAGYRLK 420 (443)
T ss_pred hhhhcCCCCEEEECcCCcC----hHHHHHHHHhcCCCeEEEEEeChHHhhccHHHHhhCCcEEE
Confidence 122332223346999863 23556666667887777765 5555433422 2467664
No 51
>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=87.46 E-value=0.9 Score=50.45 Aligned_cols=72 Identities=17% Similarity=0.241 Sum_probs=43.4
Q ss_pred cCCCcEEeccCCcchHHHHHHHHHH---hhCCcc-------ccccccccCCCCCccccccccccccCCCCCCCC-eeeee
Q 000955 534 NDGDMIVDFCCGANDFSCLMKKKLD---ETGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPGS-RLIMG 602 (1210)
Q Consensus 534 ~~gd~ivdfccg~n~fs~lmk~kl~---~~gk~c-------~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~-~Limg 602 (1210)
.++..|+|++||+--++..+.++.. -++.+. .-+|.....-.+...|...||++. ++.+. -+|+.
T Consensus 120 ~~~~~vLDlG~GsG~i~~~la~~~~~~~v~avDis~~al~~A~~n~~~~~~~~~i~~~~~D~~~~----~~~~~fD~Iv~ 195 (284)
T TIGR03533 120 EPVKRILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINIERHGLEDRVTLIQSDLFAA----LPGRKYDLIVS 195 (284)
T ss_pred CCCCEEEEEeCchhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhc----cCCCCccEEEE
Confidence 4567899999999999988876532 111111 123333222235677888888642 34333 35554
Q ss_pred eCCCccch
Q 000955 603 LNPPFGVK 610 (1210)
Q Consensus 603 LnPPfg~~ 610 (1210)
||||.-.
T Consensus 196 -NPPy~~~ 202 (284)
T TIGR03533 196 -NPPYVDA 202 (284)
T ss_pred -CCCCCCc
Confidence 9999643
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=86.00 E-value=0.64 Score=44.68 Aligned_cols=39 Identities=31% Similarity=0.498 Sum_probs=30.8
Q ss_pred eeeeeCCCccchhhhH-------------HHHHHhhhccCCcEEEEecCCccc
Q 000955 599 LIMGLNPPFGVKAGLA-------------NKFINKALEFNPKLLILIVPPETE 638 (1210)
Q Consensus 599 LimgLnPPfg~~a~lA-------------nkFi~kal~F~PkliilI~P~~t~ 638 (1210)
+|+| |||++....+. .-||.+|++.-.-.+.+|+|...=
T Consensus 5 ~VIG-NPPY~~~~~~~~~~~~~~~~~dlY~~Fie~~~~ll~G~~~~I~P~~~l 56 (106)
T PF07669_consen 5 VVIG-NPPYIKIKSLSKKKKKKKKKSDLYILFIEKSLNLLNGYLSFITPNSFL 56 (106)
T ss_pred EEEE-CCCChhhccccchhhcccccCcHHHHHHHHHHHHhCCeEEEEeChHHh
Confidence 8999 99998765322 129999998888999999997654
No 53
>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=85.81 E-value=1.5 Score=46.05 Aligned_cols=70 Identities=24% Similarity=0.441 Sum_probs=41.1
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHHHhhCCccccccccccC-------------CCCCccccccccccccCCCCCCCC-e
Q 000955 533 VNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP-------------AKNDFNFEKRDWMTVEPKELAPGS-R 598 (1210)
Q Consensus 533 v~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~~-------------~kn~f~Fe~~dw~~v~~~elp~G~-~ 598 (1210)
-..+.+|+|++||.-.|...+.+.+. .+.+--.|+-+ .-++..|...||.+. ++.++ -
T Consensus 85 ~~~~~~ilDig~G~G~~~~~l~~~~~----~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~d~~~~----~~~~~fD 156 (251)
T TIGR03534 85 KKGPLRVLDLGTGSGAIALALAKERP----DARVTAVDISPEALAVARKNAARLGLDNVTFLQSDWFEP----LPGGKFD 156 (251)
T ss_pred ccCCCeEEEEeCcHhHHHHHHHHHCC----CCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchhcc----CcCCcee
Confidence 34556899999999999888876432 12222222210 011366777777653 33343 3
Q ss_pred eeeeeCCCccchh
Q 000955 599 LIMGLNPPFGVKA 611 (1210)
Q Consensus 599 LimgLnPPfg~~a 611 (1210)
+|+. ||||....
T Consensus 157 ~Vi~-npPy~~~~ 168 (251)
T TIGR03534 157 LIVS-NPPYIPEA 168 (251)
T ss_pred EEEE-CCCCCchh
Confidence 5555 99998543
No 54
>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]
Probab=85.60 E-value=0.99 Score=49.85 Aligned_cols=58 Identities=26% Similarity=0.441 Sum_probs=47.4
Q ss_pred hHHhHHHHHhhhcccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000955 484 EVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 484 ~vL~Ql~~wk~kL~vylaP~l~G~rytS~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
++-.++.++.|... +--|||.|.+-...|.+....- +|+.|+|.|||.-|+..++.+.
T Consensus 15 ~vF~~ia~~YD~~n----------~~~S~g~~~~Wr~~~i~~~~~~-----~g~~vLDva~GTGd~a~~~~k~ 72 (238)
T COG2226 15 KVFDKVAKKYDLMN----------DLMSFGLHRLWRRALISLLGIK-----PGDKVLDVACGTGDMALLLAKS 72 (238)
T ss_pred HHHHhhHHHHHhhc----------ccccCcchHHHHHHHHHhhCCC-----CCCEEEEecCCccHHHHHHHHh
Confidence 46778888888875 4458999999998887754432 9999999999999999998773
No 55
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=85.55 E-value=1.4 Score=52.39 Aligned_cols=116 Identities=19% Similarity=0.449 Sum_probs=78.0
Q ss_pred cccccccCcccchh--hhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHH-------------HHhhCCcc---c
Q 000955 506 GMRYTSFGRHFTKV--DKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKK-------------LDETGKNC---L 565 (1210)
Q Consensus 506 G~rytS~grhFTk~--ekl~~i~~~Lh~yv~--~gd~ivdfccg~n~fs~lmk~k-------------l~~~gk~c---~ 565 (1210)
|..|.=..|.|+++ +-.+.+++...-+++ .+|+++|+.||.-.|+-.|-++ .++...+. .
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 56677778899865 344555555555566 5789999999999999887632 22222222 2
Q ss_pred cccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec
Q 000955 566 YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV 633 (1210)
Q Consensus 566 ~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI~ 633 (1210)
..| --|..-..+.|..+-|..-.|+ +|+ ++|| ++-+...|++..++++|+-||-|.
T Consensus 340 i~N-~~f~~~~ae~~~~~~~~~~~~d-------~Vv-vDPP---R~G~~~~~lk~l~~~~p~~IvYVS 395 (432)
T COG2265 340 IDN-VEFIAGDAEEFTPAWWEGYKPD-------VVV-VDPP---RAGADREVLKQLAKLKPKRIVYVS 395 (432)
T ss_pred CCc-EEEEeCCHHHHhhhccccCCCC-------EEE-ECCC---CCCCCHHHHHHHHhcCCCcEEEEe
Confidence 344 3445555666666666333333 444 5999 567899999999999999998885
No 56
>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=85.24 E-value=1.4 Score=49.57 Aligned_cols=69 Identities=17% Similarity=0.257 Sum_probs=41.0
Q ss_pred CcEEeccCCcchHHHHHHHHHH---hhCCccc-------cccccccCCCCCccccccccccccCCCCCCCC-eeeeeeCC
Q 000955 537 DMIVDFCCGANDFSCLMKKKLD---ETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGS-RLIMGLNP 605 (1210)
Q Consensus 537 d~ivdfccg~n~fs~lmk~kl~---~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~-~LimgLnP 605 (1210)
.+|+|++||+-.++..+.++.. -++.+.+ =+|.....-.+...|...||.+. +|.++ -+|+. ||
T Consensus 135 ~~VLDlG~GsG~iai~la~~~p~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~----l~~~~fDlIvs-NP 209 (307)
T PRK11805 135 TRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAA----LPGRRYDLIVS-NP 209 (307)
T ss_pred CEEEEEechhhHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhh----CCCCCccEEEE-CC
Confidence 7899999999999988866431 1111111 12322222234577888888653 33333 35665 99
Q ss_pred Cccch
Q 000955 606 PFGVK 610 (1210)
Q Consensus 606 Pfg~~ 610 (1210)
||--.
T Consensus 210 Pyi~~ 214 (307)
T PRK11805 210 PYVDA 214 (307)
T ss_pred CCCCc
Confidence 99643
No 57
>PHA03411 putative methyltransferase; Provisional
Probab=85.15 E-value=0.58 Score=52.83 Aligned_cols=40 Identities=20% Similarity=0.253 Sum_probs=30.7
Q ss_pred cCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000955 512 FGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 555 (1210)
Q Consensus 512 ~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 555 (1210)
.|-+||-..-+..++ +....+.+|+|++||.-.|+.++-+
T Consensus 45 ~G~FfTP~~i~~~f~----~~~~~~grVLDLGcGsGilsl~la~ 84 (279)
T PHA03411 45 SGAFFTPEGLAWDFT----IDAHCTGKVLDLCAGIGRLSFCMLH 84 (279)
T ss_pred ceeEcCCHHHHHHHH----hccccCCeEEEcCCCCCHHHHHHHH
Confidence 499999877765543 2344678999999999999887754
No 58
>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional
Probab=84.65 E-value=5.6 Score=42.42 Aligned_cols=66 Identities=21% Similarity=0.247 Sum_probs=44.9
Q ss_pred hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCCccccccccccC--CCCCcccccccccc
Q 000955 518 KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP--AKNDFNFEKRDWMT 587 (1210)
Q Consensus 518 k~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~~--~kn~f~Fe~~dw~~ 587 (1210)
...||.+|.+++. ++.+|++|||++||.-.|+..+-++ .+..+..--.|+-+ +..+..|..-|+.+
T Consensus 35 ~~~kl~~~~~~~~-~~~~~~~VLDlG~GtG~~t~~l~~~---~~~~~~V~aVDi~~~~~~~~v~~i~~D~~~ 102 (209)
T PRK11188 35 AWFKLDEIQQSDK-LFKPGMTVVDLGAAPGGWSQYAVTQ---IGDKGRVIACDILPMDPIVGVDFLQGDFRD 102 (209)
T ss_pred HHHhhHHHHHHhc-cCCCCCEEEEEcccCCHHHHHHHHH---cCCCceEEEEecccccCCCCcEEEecCCCC
Confidence 3457888888865 6789999999999999999987553 34445555555543 11235555566554
No 59
>PRK14967 putative methyltransferase; Provisional
Probab=83.97 E-value=3.7 Score=43.53 Aligned_cols=34 Identities=15% Similarity=0.322 Sum_probs=26.4
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000955 520 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 555 (1210)
Q Consensus 520 ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 555 (1210)
+.|.+++.++ .+.+|++|+|++||.--|+..+.+
T Consensus 23 ~~l~~~l~~~--~~~~~~~vLDlGcG~G~~~~~la~ 56 (223)
T PRK14967 23 QLLADALAAE--GLGPGRRVLDLCTGSGALAVAAAA 56 (223)
T ss_pred HHHHHHHHhc--ccCCCCeEEEecCCHHHHHHHHHH
Confidence 4455666554 368899999999999999888765
No 60
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=83.35 E-value=0.58 Score=55.92 Aligned_cols=48 Identities=27% Similarity=0.549 Sum_probs=34.5
Q ss_pred ccccCCCccCCCCCCceeeccccCcccccccCCCCcccccccccccccccccc
Q 000955 159 CCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG 211 (1210)
Q Consensus 159 C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~C 211 (1210)
|.+|..+.... .+ +|++|++|-.+||..|..+.+.-+ ..+-+...|.|
T Consensus 171 c~vC~~g~~~~-~N-rmlqC~~C~~~fHq~Chqp~i~~~---l~~D~~~~w~C 218 (464)
T KOG4323|consen 171 CSVCYCGGPGA-GN-RMLQCDKCRQWYHQACHQPLIKDE---LAGDPFYEWFC 218 (464)
T ss_pred eeeeecCCcCc-cc-eeeeecccccHHHHHhccCCCCHh---hccCccceEee
Confidence 77777654321 11 799999999999999999987522 22346788997
No 61
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=83.23 E-value=0.44 Score=57.12 Aligned_cols=48 Identities=25% Similarity=0.614 Sum_probs=34.8
Q ss_pred CcccccccCCC---CeeccccccCCccccccccCcccccccCCCChhhhhc-cccccccch
Q 000955 30 DSVCSFCDNGG---DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEA-MLNFFCKNC 86 (1210)
Q Consensus 30 DdVCaIC~dGG---ELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp-~~sW~CpnC 86 (1210)
...|.||...- -|+.|| .|...||+- |++++|+..+.+. ..-|.|.+|
T Consensus 544 ~ysCgiCkks~dQHll~~CD-tC~lhYHlG--------CL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 544 NYSCGICKKSTDQHLLTQCD-TCHLHYHLG--------CLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred ceeeeeeccchhhHHHhhcc-hhhceeecc--------ccCCccccCcccccCcceeeccc
Confidence 45699999865 389999 799999999 5566676644322 456876655
No 62
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=82.88 E-value=0.8 Score=43.71 Aligned_cols=33 Identities=33% Similarity=0.728 Sum_probs=26.8
Q ss_pred ccCcccccccC-CCCeeccc-cccCCccccccccC
Q 000955 28 LFDSVCSFCDN-GGDLLCCE-GRCLRSFHATIDAG 60 (1210)
Q Consensus 28 lnDdVCaIC~d-GGELLCCD-GsC~RSFH~~C~dG 60 (1210)
.+...|.+|+. .|.++.|. +.|.++||+.|+..
T Consensus 53 ~~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 53 RFKLKCSICGKSGGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred hcCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHH
Confidence 46789999998 57777776 45999999998653
No 63
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=81.17 E-value=1.1 Score=58.11 Aligned_cols=58 Identities=29% Similarity=0.606 Sum_probs=40.8
Q ss_pred cccccCCCccCCCCCCceeeccccCcccccccCCCCcccccccccccccccccc---ccCCCc--eeEeccCcc
Q 000955 158 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG---LLPNHR--ILIYCLKHE 226 (1210)
Q Consensus 158 ~C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~C---LLpncR--ILI~CpkHe 226 (1210)
+|.+|...+-.+ ...++.|+.|..++|.+|.- +. -|+.+-|.| +.+..+ .|+.|+.+.
T Consensus 221 ~C~iC~~~~~~n--~n~ivfCD~Cnl~VHq~Cyg--i~-------~ipeg~WlCr~Cl~s~~~~v~c~~cp~~~ 283 (1051)
T KOG0955|consen 221 VCCICLDGECQN--SNVIVFCDGCNLAVHQECYG--IP-------FIPEGQWLCRRCLQSPQRPVRCLLCPSKG 283 (1051)
T ss_pred cceeecccccCC--CceEEEcCCCcchhhhhccC--CC-------CCCCCcEeehhhccCcCcccceEeccCCC
Confidence 599999886432 22599999999999999987 33 357789988 222122 366777763
No 64
>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=81.16 E-value=0.52 Score=50.59 Aligned_cols=102 Identities=26% Similarity=0.360 Sum_probs=50.1
Q ss_pred hhcccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCCccccc------
Q 000955 494 NKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYK------ 567 (1210)
Q Consensus 494 ~kL~vylaP~l~G~rytS~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~k------ 567 (1210)
|--|||.+|-|-+.|- ||-=.|.+|++|+|++||-.-|+-.+-+. ++.+..-
T Consensus 78 D~~kvyfs~rl~~Er~------------------Ri~~~v~~~e~VlD~faGIG~f~l~~ak~----~~~~~V~A~d~Np 135 (200)
T PF02475_consen 78 DLSKVYFSPRLSTERR------------------RIANLVKPGEVVLDMFAGIGPFSLPIAKH----GKAKRVYAVDLNP 135 (200)
T ss_dssp ETTTS---GGGHHHHH------------------HHHTC--TT-EEEETT-TTTTTHHHHHHH----T-SSEEEEEES-H
T ss_pred ccceEEEccccHHHHH------------------HHHhcCCcceEEEEccCCccHHHHHHhhh----cCccEEEEecCCH
Confidence 4447777776666442 33345899999999999999999988551 2333221
Q ss_pred --------cccccCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCC
Q 000955 568 --------NYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNP 626 (1210)
Q Consensus 568 --------n~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~P 626 (1210)
|-.+=.-++....-.-|..++-+ -..-+.+|||| |+. |..|++.|+....
T Consensus 136 ~a~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~--~~~~drvim~l-p~~------~~~fl~~~~~~~~ 193 (200)
T PF02475_consen 136 DAVEYLKENIRLNKVENRIEVINGDAREFLP--EGKFDRVIMNL-PES------SLEFLDAALSLLK 193 (200)
T ss_dssp HHHHHHHHHHHHTT-TTTEEEEES-GGG-----TT-EEEEEE---TSS------GGGGHHHHHHHEE
T ss_pred HHHHHHHHHHHHcCCCCeEEEEcCCHHHhcC--ccccCEEEECC-hHH------HHHHHHHHHHHhc
Confidence 11111112333233334433333 23346899995 664 4578888876543
No 65
>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=79.29 E-value=6.3 Score=41.56 Aligned_cols=107 Identities=14% Similarity=0.147 Sum_probs=55.2
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHH--hhCCccc-------cccccccCCCCCccccccccccccCCC
Q 000955 522 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD--ETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKE 592 (1210)
Q Consensus 522 l~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~--~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~e 592 (1210)
++.+...|.-++ .|..|+|++||+..|+-..-.+.. -+..+.. -+|.....-.+...|.+.|-+..-. .
T Consensus 37 rea~f~~l~~~~-~g~~vLDLfaGsG~lglea~srga~~v~~vE~~~~a~~~~~~N~~~~~~~~~~~~~~~D~~~~l~-~ 114 (189)
T TIGR00095 37 RELFFNILRPEI-QGAHLLDVFAGSGLLGEEALSRGAKVAFLEEDDRKANQTLKENLALLKSGEQAEVVRNSALRALK-F 114 (189)
T ss_pred HHHHHHHHHHhc-CCCEEEEecCCCcHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHhCCcccEEEEehhHHHHHH-H
Confidence 444666665444 488999999999999876643221 1111111 2444444333334455555433211 1
Q ss_pred CC-CCC-eeeeeeCCCccchhhhHHHHHH---hhhccCCcEEEEe
Q 000955 593 LA-PGS-RLIMGLNPPFGVKAGLANKFIN---KALEFNPKLLILI 632 (1210)
Q Consensus 593 lp-~G~-~LimgLnPPfg~~a~lAnkFi~---kal~F~PkliilI 632 (1210)
+. .+. -.|+=++|||+... -.+-+. +.--.++.-||++
T Consensus 115 ~~~~~~~~dvv~~DPPy~~~~--~~~~l~~l~~~~~l~~~~iiv~ 157 (189)
T TIGR00095 115 LAKKPTFDNVIYLDPPFFNGA--LQALLELCENNWILEDTVLIVV 157 (189)
T ss_pred hhccCCCceEEEECcCCCCCc--HHHHHHHHHHCCCCCCCeEEEE
Confidence 21 222 47777899998532 222222 2222566766655
No 66
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=79.14 E-value=0.9 Score=41.75 Aligned_cols=34 Identities=26% Similarity=0.617 Sum_probs=28.8
Q ss_pred cccccccCCC-CCCCCCCCCcccccCCCCCCCCCccccccccc
Q 000955 90 QHQCFACGKL-GSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 131 (1210)
Q Consensus 90 QHqCFVCGql-GSSDK~SGaELfkCsVasCGKFYHpkCLa~l~ 131 (1210)
...|.+|++. | -.+.|....|.+.||+.|.....
T Consensus 36 ~~~C~~C~~~~G--------a~i~C~~~~C~~~fH~~CA~~~~ 70 (90)
T PF13771_consen 36 KLKCSICKKKGG--------ACIGCSHPGCSRSFHVPCARKAG 70 (90)
T ss_pred CCCCcCCCCCCC--------eEEEEeCCCCCcEEChHHHccCC
Confidence 4579999987 5 47999999999999999998753
No 67
>PRK05785 hypothetical protein; Provisional
Probab=78.05 E-value=2.8 Score=45.08 Aligned_cols=59 Identities=20% Similarity=0.324 Sum_probs=41.3
Q ss_pred HHhHHHHHhhhcccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000955 485 VLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 485 vL~Ql~~wk~kL~vylaP~l~G~rytS~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
.-+.+..+.|.+. +..|||++--- -+++++.|..+..++.+|+|++||.-++...+.++
T Consensus 14 ~f~~iA~~YD~~n----------~~~s~g~~~~w---r~~~~~~l~~~~~~~~~VLDlGcGtG~~~~~l~~~ 72 (226)
T PRK05785 14 AYNKIPKAYDRAN----------RFISFNQDVRW---RAELVKTILKYCGRPKKVLDVAAGKGELSYHFKKV 72 (226)
T ss_pred HHHhhhHHHHHhh----------hhccCCCcHHH---HHHHHHHHHHhcCCCCeEEEEcCCCCHHHHHHHHh
Confidence 3455556666543 45677777322 23566666666677999999999999999998776
No 68
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=77.70 E-value=1.4 Score=47.03 Aligned_cols=40 Identities=23% Similarity=0.588 Sum_probs=31.3
Q ss_pred cccccCCCccCCCCCCceeeccccCcccccccCCCCccccc
Q 000955 158 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFED 198 (1210)
Q Consensus 158 ~C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPPpIafed 198 (1210)
.|.+|...+++. ..+.|+.|.-|..+||..||-+-...++
T Consensus 1 ~C~~C~~~g~~~-~kG~Lv~CQGCs~sYHk~CLG~Rs~ReH 40 (175)
T PF15446_consen 1 TCDTCGYEGDDR-NKGPLVYCQGCSSSYHKACLGPRSQREH 40 (175)
T ss_pred CcccccCCCCCc-cCCCeEEcCccChHHHhhhcCCccccce
Confidence 388997654432 3578999999999999999988777653
No 69
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=77.21 E-value=3.2 Score=47.72 Aligned_cols=115 Identities=12% Similarity=0.215 Sum_probs=61.7
Q ss_pred hhhhHHHHHHhhcccccC-CCcEEeccCCcchHHHHHHHHHHh-hCC-------ccccccccccCCCCCccccccccccc
Q 000955 518 KVDKLQAIVDKLHWYVND-GDMIVDFCCGANDFSCLMKKKLDE-TGK-------NCLYKNYDILPAKNDFNFEKRDWMTV 588 (1210)
Q Consensus 518 k~ekl~~i~~~Lh~yv~~-gd~ivdfccg~n~fs~lmk~kl~~-~gk-------~c~~kn~dl~~~kn~f~Fe~~dw~~v 588 (1210)
+.+-.+.+++.+.-+++. +..|+|++||...|+-.+.++... ++. ...=+|..+..- ++..|...|..+.
T Consensus 188 N~~~~e~l~~~v~~~~~~~~~~vLDl~~G~G~~sl~la~~~~~v~~vE~~~~ai~~a~~N~~~~~~-~~v~~~~~d~~~~ 266 (362)
T PRK05031 188 NAAVNEKMLEWALDATKGSKGDLLELYCGNGNFTLALARNFRRVLATEISKPSVAAAQYNIAANGI-DNVQIIRMSAEEF 266 (362)
T ss_pred CHHHHHHHHHHHHHHhhcCCCeEEEEeccccHHHHHHHhhCCEEEEEECCHHHHHHHHHHHHHhCC-CcEEEEECCHHHH
Confidence 334566677776666653 457999999999999888764220 000 111133322221 1344555555442
Q ss_pred cCC-----CC--CC-----C-CeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCcc
Q 000955 589 EPK-----EL--AP-----G-SRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET 637 (1210)
Q Consensus 589 ~~~-----el--p~-----G-~~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI~P~~t 637 (1210)
-++ ++ +. + ..=++-|+||. +.+..+.|...++. .+||++=.-|.|
T Consensus 267 l~~~~~~~~~~~~~~~~~~~~~~D~v~lDPPR---~G~~~~~l~~l~~~-~~ivyvSC~p~t 324 (362)
T PRK05031 267 TQAMNGVREFNRLKGIDLKSYNFSTIFVDPPR---AGLDDETLKLVQAY-ERILYISCNPET 324 (362)
T ss_pred HHHHhhcccccccccccccCCCCCEEEECCCC---CCCcHHHHHHHHcc-CCEEEEEeCHHH
Confidence 111 00 01 1 11255579995 57889998888773 344444444444
No 70
>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]
Probab=76.33 E-value=5.3 Score=44.97 Aligned_cols=117 Identities=21% Similarity=0.348 Sum_probs=73.7
Q ss_pred cccCcccchhhh-HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh-----hCCc--------c-ccccccccCC
Q 000955 510 TSFGRHFTKVDK-LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-----TGKN--------C-LYKNYDILPA 574 (1210)
Q Consensus 510 tS~grhFTk~ek-l~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~-----~gk~--------c-~~kn~dl~~~ 574 (1210)
-+||.||..-.. +.+||+... ++++|+||+.=+|--.+-.-|-++... .... - .+.|++||.
T Consensus 6 K~~GQnFL~d~~v~~kIv~~a~--~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~~l~~~L~~~~~~~~n~~vi~- 82 (259)
T COG0030 6 KRLGQNFLIDKNVIDKIVEAAN--ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDRRLAEVLKERFAPYDNLTVIN- 82 (259)
T ss_pred CCcccccccCHHHHHHHHHhcC--CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCHHHHHHHHHhcccccceEEEe-
Confidence 489999976544 677888765 567999999999999887665432211 0000 0 356666664
Q ss_pred CCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCc--EEEEecCCc-ccccccc
Q 000955 575 KNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPK--LLILIVPPE-TERLDRK 643 (1210)
Q Consensus 575 kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~Pk--liilI~P~~-t~rld~k 643 (1210)
.|-|.++..+|- +...|+| |.||. ++..+|-|.|+..+. -.+|.+=.| .+||=.+
T Consensus 83 --------~DaLk~d~~~l~-~~~~vVa-NlPY~----Isspii~kll~~~~~~~~~v~M~QkEva~Rl~A~ 140 (259)
T COG0030 83 --------GDALKFDFPSLA-QPYKVVA-NLPYN----ISSPILFKLLEEKFIIQDMVLMVQKEVAERLVAK 140 (259)
T ss_pred --------CchhcCcchhhc-CCCEEEE-cCCCc----ccHHHHHHHHhccCccceEEEEeHHHHHHHHhCC
Confidence 445555555554 6668888 99999 566666676666654 445444333 3444333
No 71
>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=76.30 E-value=1.6 Score=47.62 Aligned_cols=68 Identities=22% Similarity=0.361 Sum_probs=38.7
Q ss_pred CCcEEeccCCcchHHHHHHHHHH---hhCCccc-------cccccccCCCCCccccccccccccCCCCCCCCeeeeeeCC
Q 000955 536 GDMIVDFCCGANDFSCLMKKKLD---ETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNP 605 (1210)
Q Consensus 536 gd~ivdfccg~n~fs~lmk~kl~---~~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnP 605 (1210)
+..|+|+|||+--|+..+.++.. -++.+.+ -+|... |...|...||...-++.+. +..=++-+||
T Consensus 87 ~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~----~~~~~~~~D~~~~l~~~~~-~~fDlVv~NP 161 (251)
T TIGR03704 87 TLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLAD----AGGTVHEGDLYDALPTALR-GRVDILAANA 161 (251)
T ss_pred CCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHH----cCCEEEEeechhhcchhcC-CCEeEEEECC
Confidence 35799999999999988765432 1122211 233322 2246777888764443332 3323344599
Q ss_pred Ccc
Q 000955 606 PFG 608 (1210)
Q Consensus 606 Pfg 608 (1210)
||-
T Consensus 162 Py~ 164 (251)
T TIGR03704 162 PYV 164 (251)
T ss_pred CCC
Confidence 985
No 72
>COG2520 Predicted methyltransferase [General function prediction only]
Probab=75.56 E-value=1.2 Score=51.56 Aligned_cols=89 Identities=28% Similarity=0.368 Sum_probs=50.6
Q ss_pred hhcccccCCCcEEeccCCcchHHHHHHHHHHhh----CCc-----cccccccccCCCCCccccccccccccCCCCCCCCe
Q 000955 528 KLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET----GKN-----CLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSR 598 (1210)
Q Consensus 528 ~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~----gk~-----c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~ 598 (1210)
|+-=.|.+|++|||+-+|---||-.+-++-... .++ +.=+|--|=.-++....---|=-.|- .+++..+.
T Consensus 181 Rva~~v~~GE~V~DmFAGVGpfsi~~Ak~g~~~V~A~diNP~A~~~L~eNi~LN~v~~~v~~i~gD~rev~-~~~~~aDr 259 (341)
T COG2520 181 RVAELVKEGETVLDMFAGVGPFSIPIAKKGRPKVYAIDINPDAVEYLKENIRLNKVEGRVEPILGDAREVA-PELGVADR 259 (341)
T ss_pred HHHhhhcCCCEEEEccCCcccchhhhhhcCCceEEEEecCHHHHHHHHHHHHhcCccceeeEEeccHHHhh-hccccCCE
Confidence 444457789999999999999998876643331 111 11122222111121111111111111 22377899
Q ss_pred eeeeeCCCccchhhhHHHHHHhhhcc
Q 000955 599 LIMGLNPPFGVKAGLANKFINKALEF 624 (1210)
Q Consensus 599 LimgLnPPfg~~a~lAnkFi~kal~F 624 (1210)
+||| +|+ .|-+|+..|++.
T Consensus 260 Iim~-~p~------~a~~fl~~A~~~ 278 (341)
T COG2520 260 IIMG-LPK------SAHEFLPLALEL 278 (341)
T ss_pred EEeC-CCC------cchhhHHHHHHH
Confidence 9999 555 678999999864
No 73
>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=75.05 E-value=2.8 Score=48.08 Aligned_cols=102 Identities=18% Similarity=0.299 Sum_probs=56.3
Q ss_pred CCcEEeccCCcchHHHHHHHHHHh-hCC-------ccccccccccCCCCCccccccccccccCC-----CCC--CC----
Q 000955 536 GDMIVDFCCGANDFSCLMKKKLDE-TGK-------NCLYKNYDILPAKNDFNFEKRDWMTVEPK-----ELA--PG---- 596 (1210)
Q Consensus 536 gd~ivdfccg~n~fs~lmk~kl~~-~gk-------~c~~kn~dl~~~kn~f~Fe~~dw~~v~~~-----elp--~G---- 596 (1210)
++.|+|++||.-.|+-.+.++... +|. .+.=+|..+-.-+ +..|...|....-+. .++ .|
T Consensus 198 ~~~vlDl~~G~G~~sl~la~~~~~v~~vE~~~~av~~a~~n~~~~~~~-~v~~~~~d~~~~~~~~~~~~~~~~~~~~~~~ 276 (353)
T TIGR02143 198 KGDLLELYCGNGNFSLALAQNFRRVLATEIAKPSVNAAQYNIAANNID-NVQIIRMSAEEFTQAMNGVREFRRLKGIDLK 276 (353)
T ss_pred CCcEEEEeccccHHHHHHHHhCCEEEEEECCHHHHHHHHHHHHHcCCC-cEEEEEcCHHHHHHHHhhccccccccccccc
Confidence 457999999999999988764210 000 1112344333222 255666665442221 110 11
Q ss_pred C--eeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCccccccc
Q 000955 597 S--RLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDR 642 (1210)
Q Consensus 597 ~--~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI~P~~t~rld~ 642 (1210)
. .=++-|+|| ++.+..++++-.+.. .++|.+=--|.|=-=|-
T Consensus 277 ~~~~d~v~lDPP---R~G~~~~~l~~l~~~-~~ivYvsC~p~tlaRDl 320 (353)
T TIGR02143 277 SYNCSTIFVDPP---RAGLDPDTCKLVQAY-ERILYISCNPETLKANL 320 (353)
T ss_pred cCCCCEEEECCC---CCCCcHHHHHHHHcC-CcEEEEEcCHHHHHHHH
Confidence 0 124567999 678888998877772 35555555565543343
No 74
>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional
Probab=74.78 E-value=4.1 Score=43.72 Aligned_cols=74 Identities=20% Similarity=0.360 Sum_probs=42.6
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHHHhh---CCc-------cccccccccCCCCCccccccccccccCCCCCCCCe-eee
Q 000955 533 VNDGDMIVDFCCGANDFSCLMKKKLDET---GKN-------CLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSR-LIM 601 (1210)
Q Consensus 533 v~~gd~ivdfccg~n~fs~lmk~kl~~~---gk~-------c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~-Lim 601 (1210)
..++.+|+|++||.-.++..|.+.+... +.+ ..-+|+. ....+...|...||+.- ++.+.. +|+
T Consensus 106 ~~~~~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~-~~~~~~i~~~~~d~~~~----~~~~~fD~Iv 180 (275)
T PRK09328 106 LKEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAK-HGLGARVEFLQGDWFEP----LPGGRFDLIV 180 (275)
T ss_pred ccCCCEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHH-hCCCCcEEEEEccccCc----CCCCceeEEE
Confidence 3577899999999999988886654110 100 1112222 11234577777888542 223333 555
Q ss_pred eeCCCccchhh
Q 000955 602 GLNPPFGVKAG 612 (1210)
Q Consensus 602 gLnPPfg~~a~ 612 (1210)
. ||||.-...
T Consensus 181 ~-npPy~~~~~ 190 (275)
T PRK09328 181 S-NPPYIPEAD 190 (275)
T ss_pred E-CCCcCCcch
Confidence 5 999975443
No 75
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=74.46 E-value=1.8 Score=48.65 Aligned_cols=36 Identities=22% Similarity=0.528 Sum_probs=28.3
Q ss_pred CCcccccCCCCCC-CCCcccccccccccchHHHHHHHHHhhccCCceecCCc
Q 000955 107 GAEVFPCVSATCG-HFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLH 157 (1210)
Q Consensus 107 GaELfkCsVasCG-KFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPlH 157 (1210)
-++++-|+.++|. -+||..||+.-..| + +.|+||.|
T Consensus 231 yGqMVaCDn~nCkrEWFH~~CVGLk~pP--------------K-G~WYC~eC 267 (271)
T COG5034 231 YGQMVACDNANCKREWFHLECVGLKEPP--------------K-GKWYCPEC 267 (271)
T ss_pred cccceecCCCCCchhheeccccccCCCC--------------C-CcEeCHHh
Confidence 3689999999997 59999999965422 2 47999875
No 76
>PLN02672 methionine S-methyltransferase
Probab=72.19 E-value=10 Score=50.04 Aligned_cols=148 Identities=14% Similarity=0.121 Sum_probs=79.7
Q ss_pred HHHHHHHHHhcccCCCCHHHHhhhcChhHHhHHHHHh------------hhcccccccccccccccccCcccc-------
Q 000955 457 VEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWK------------NKLKVYLAPFLHGMRYTSFGRHFT------- 517 (1210)
Q Consensus 457 V~Avr~AL~kLe~~g~siedAkAvc~p~vL~Ql~~wk------------~kL~vylaP~l~G~rytS~grhFT------- 517 (1210)
-+|.|..|++|+ +-.+.-+|.+.- ..|...+.-+ .-=.|+|.|.- |.++ =||+-|.
T Consensus 23 ~~~~~~~~~~~~-~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-G~~~-F~~l~~~V~p~VLI 97 (1082)
T PLN02672 23 YGAFKGVLERLE-DPTTRSDARKLL--SAVEKRVAASEAGEDCFATYHFRIHDLVLDDYE-GFRN-RKKLTMMEIPSIFI 97 (1082)
T ss_pred HHHHHHHHHHhc-CccccHHHHHHH--HHHHHHhcccCcccchhhhcceEEeeEEEcCCC-CeEE-ecCCceeeCCCccc
Confidence 467777888888 676766676543 1222222211 01146788765 6552 4566553
Q ss_pred ---hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh---hCCcc-------cccccccc------------
Q 000955 518 ---KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE---TGKNC-------LYKNYDIL------------ 572 (1210)
Q Consensus 518 ---k~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~---~gk~c-------~~kn~dl~------------ 572 (1210)
-.|.|.+..++...-.-.|.+|+|+|||+--.+..+.++... ++.+. --+|-.+-
T Consensus 98 PRpeTE~lve~L~~~~~~~~~~~~VLDlG~GSG~Iai~La~~~~~~~v~avDis~~Al~~A~~Na~~n~l~~~~~~~~~~ 177 (1082)
T PLN02672 98 PEDWSFTFYEGLNRHPDSIFRDKTVAELGCGNGWISIAIAEKWLPSKVYGLDINPRAVKVAWINLYLNALDDDGLPVYDG 177 (1082)
T ss_pred CchhHHHHHHHHHhcccccCCCCEEEEEecchHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCccccccccccc
Confidence 123343332222111113568999999999999988775431 11111 12333221
Q ss_pred ---CCCCCccccccccccccCCCCCCCCeeeeeeCCCccchh
Q 000955 573 ---PAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKA 611 (1210)
Q Consensus 573 ---~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a 611 (1210)
...+...|...||++.-+. ...-=-||++ |||+=..+
T Consensus 178 ~~~~l~~rV~f~~sDl~~~~~~-~~~~fDlIVS-NPPYI~~~ 217 (1082)
T PLN02672 178 EGKTLLDRVEFYESDLLGYCRD-NNIELDRIVG-CIPQILNP 217 (1082)
T ss_pred ccccccccEEEEECchhhhccc-cCCceEEEEE-CCCcCCCc
Confidence 0124689999999864321 1001247888 99986544
No 77
>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=71.86 E-value=4.3 Score=43.15 Aligned_cols=51 Identities=12% Similarity=0.051 Sum_probs=45.4
Q ss_pred cccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000955 506 GMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 506 G~rytS~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
|.+|+..+|....+.+.-+.+.++...+.++++|+|+.||.-.++..|.+.
T Consensus 14 g~~~~~rn~~~~~~~~~~~~~~~~l~~~~~~~~VLDiGCG~G~~~~~L~~~ 64 (204)
T TIGR03587 14 GKEYIDRNSRQSLVAAKLAMFARALNRLPKIASILELGANIGMNLAALKRL 64 (204)
T ss_pred cchhhhccccHHHHHHHHHHHHHHHHhcCCCCcEEEEecCCCHHHHHHHHh
Confidence 779999999888888888888888889999999999999999999988664
No 78
>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=69.39 E-value=4.1 Score=42.66 Aligned_cols=21 Identities=19% Similarity=0.476 Sum_probs=18.8
Q ss_pred ccccccCCCCcccccccccccccccccc
Q 000955 184 AYHRKCLPRKIAFEDKLEEGIITRAWEG 211 (1210)
Q Consensus 184 AYH~kCLPPpIafed~~eE~Ip~RAW~C 211 (1210)
.||..||.|++. .+|.+.|.|
T Consensus 1 g~H~~CL~Ppl~-------~~P~g~W~C 21 (148)
T cd04718 1 GFHLCCLRPPLK-------EVPEGDWIC 21 (148)
T ss_pred CcccccCCCCCC-------CCCCCCcCC
Confidence 599999999996 789999997
No 79
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=66.67 E-value=3.9 Score=43.91 Aligned_cols=47 Identities=21% Similarity=0.464 Sum_probs=37.3
Q ss_pred ccccchhhccccccccCCCCCCCCCCCCcccccCCCCCCCCCccccccc
Q 000955 81 FFCKNCEYKQHQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSK 129 (1210)
Q Consensus 81 W~CpnCe~gQHqCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~ 129 (1210)
-.|.-|..+-..|.+|...+..--+....+++|. .|+..||..|...
T Consensus 143 ~~C~lC~~kGfiCe~C~~~~~IfPF~~~~~~~C~--~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 143 YSCELCQQKGFICEICNSDDIIFPFQIDTTVRCP--KCKSVFHKSCFRK 189 (202)
T ss_pred HHhHHHHhCCCCCccCCCCCCCCCCCCCCeeeCC--cCccccchhhcCC
Confidence 3799999988999999876543222234789999 9999999999984
No 80
>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=66.16 E-value=4.7 Score=44.60 Aligned_cols=68 Identities=16% Similarity=0.214 Sum_probs=40.0
Q ss_pred CcEEeccCCcchHHHHHHHHHHh---hCCccc-------cccccccCCCCCccccccccccccCCCCCCC-CeeeeeeCC
Q 000955 537 DMIVDFCCGANDFSCLMKKKLDE---TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPG-SRLIMGLNP 605 (1210)
Q Consensus 537 d~ivdfccg~n~fs~lmk~kl~~---~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G-~~LimgLnP 605 (1210)
..|+|+|||+--+...+...+.. ++.+.+ -+|.....-.+...|...||+.. ++.. =-+|+. ||
T Consensus 116 ~~vLDlG~GsG~i~l~la~~~~~~~v~avDis~~al~~a~~n~~~~~~~~~v~~~~~d~~~~----~~~~~fDlIvs-NP 190 (284)
T TIGR00536 116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEP----LAGQKIDIIVS-NP 190 (284)
T ss_pred CEEEEEeccHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhcc----CcCCCccEEEE-CC
Confidence 68999999999998888664321 111111 13332222234578888998753 3321 235555 99
Q ss_pred Cccc
Q 000955 606 PFGV 609 (1210)
Q Consensus 606 Pfg~ 609 (1210)
||--
T Consensus 191 Pyi~ 194 (284)
T TIGR00536 191 PYID 194 (284)
T ss_pred CCCC
Confidence 9853
No 81
>PF13679 Methyltransf_32: Methyltransferase domain
Probab=65.41 E-value=35 Score=34.13 Aligned_cols=108 Identities=17% Similarity=0.264 Sum_probs=63.7
Q ss_pred hhhHHHHHHhhccc---ccCCCcEEeccCCcchHHHHHHHHHHhhCCccccccccccC----------------CCCCcc
Q 000955 519 VDKLQAIVDKLHWY---VNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP----------------AKNDFN 579 (1210)
Q Consensus 519 ~ekl~~i~~~Lh~y---v~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~~----------------~kn~f~ 579 (1210)
++.+.++++.+.-. ..+..+|||||||-.-.++++-..|......+..--.|.=+ -.+.+.
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 44555555555444 46788999999999999999988665554344333322211 113344
Q ss_pred ccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecC
Q 000955 580 FEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVP 634 (1210)
Q Consensus 580 Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~PkliilI~P 634 (1210)
|...+.-... ...+..+++||-. =+.|+-.-|..+..-+.+.|+ +||
T Consensus 86 ~~~~~~~~~~---~~~~~~~~vgLHa----CG~Ls~~~l~~~~~~~~~~l~-~vp 132 (141)
T PF13679_consen 86 FIQGDIADES---SSDPPDILVGLHA----CGDLSDRALRLFIRPNARFLV-LVP 132 (141)
T ss_pred hhccchhhhc---ccCCCeEEEEeec----ccchHHHHHHHHHHcCCCEEE-EcC
Confidence 4433322211 2556678888764 345888888888883344443 344
No 82
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=64.92 E-value=1.6 Score=58.31 Aligned_cols=59 Identities=20% Similarity=0.492 Sum_probs=41.5
Q ss_pred ccCcccccccCCC---CeeccccccCCccccccccCcccccccCCCChhhhhccccccccchhhcc---ccccccCC
Q 000955 28 LFDSVCSFCDNGG---DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQ---HQCFACGK 98 (1210)
Q Consensus 28 lnDdVCaIC~dGG---ELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~gQ---HqCFVCGq 98 (1210)
.....|.+|...+ .++.|+ .|.+.||..| +.+.++.. +.+.|+|+.|...+ ..|..|+.
T Consensus 1106 ~~~~~c~~cr~k~~~~~m~lc~-~c~~~~h~~C--------~rp~~~~~---~~~dW~C~~c~~e~~~rr~~~~~~~ 1170 (1404)
T KOG1245|consen 1106 AVNALCKVCRRKKQDEKMLLCD-ECLSGFHLFC--------LRPALSSV---PPGDWMCPSCRKEHRARRQKRFRKE 1170 (1404)
T ss_pred cchhhhhhhhhcccchhhhhhH-hhhhhHHHHh--------hhhhhccC---CcCCccCCccchhhhhhhhhhhhcc
Confidence 4467899999865 589999 5999999995 44444432 45789999997543 23444443
No 83
>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=59.72 E-value=12 Score=36.23 Aligned_cols=36 Identities=19% Similarity=0.433 Sum_probs=30.3
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000955 520 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 555 (1210)
Q Consensus 520 ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 555 (1210)
+.+.+++.+|..+..++..|+||-||...|+..|++
T Consensus 7 ~~~~~~~~~~~~~~~~~~~vLDiGcG~G~~~~~l~~ 42 (161)
T PF13489_consen 7 RAYADLLERLLPRLKPGKRVLDIGCGTGSFLRALAK 42 (161)
T ss_dssp HCHHHHHHHHHTCTTTTSEEEEESSTTSHHHHHHHH
T ss_pred HHHHHHHHHHhcccCCCCEEEEEcCCCCHHHHHHHH
Confidence 345677777777789999999999999999999955
No 84
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=58.75 E-value=2.7 Score=56.28 Aligned_cols=46 Identities=20% Similarity=0.665 Sum_probs=38.0
Q ss_pred cccccCCCccCCCCCCceeeccccCcccccccCCCCccccccccccccccccccccCCC
Q 000955 158 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLLPNH 216 (1210)
Q Consensus 158 ~C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~CLLpnc 216 (1210)
.|.+|....... .++.|+-|..+||..|+.+.+. ..+-+.|.| +.|
T Consensus 1110 ~c~~cr~k~~~~----~m~lc~~c~~~~h~~C~rp~~~-------~~~~~dW~C--~~c 1155 (1404)
T KOG1245|consen 1110 LCKVCRRKKQDE----KMLLCDECLSGFHLFCLRPALS-------SVPPGDWMC--PSC 1155 (1404)
T ss_pred hhhhhhhcccch----hhhhhHhhhhhHHHHhhhhhhc-------cCCcCCccC--Ccc
Confidence 599999886542 5899999999999999999875 567789998 654
No 85
>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=57.74 E-value=6 Score=43.20 Aligned_cols=56 Identities=21% Similarity=0.421 Sum_probs=19.9
Q ss_pred HHhHHHHHhhhcccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000955 485 VLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 555 (1210)
Q Consensus 485 vL~Ql~~wk~kL~vylaP~l~G~rytS~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 555 (1210)
..++|....|.+. +--|||.|---..++.+++ -+.+|++|+|+|||.-+++..+-+
T Consensus 12 ~Fd~ia~~YD~~n----------~~ls~g~~~~wr~~~~~~~-----~~~~g~~vLDv~~GtG~~~~~l~~ 67 (233)
T PF01209_consen 12 MFDRIAPRYDRMN----------DLLSFGQDRRWRRKLIKLL-----GLRPGDRVLDVACGTGDVTRELAR 67 (233)
T ss_dssp -----------------------------------SHHHHHH-----T--S--EEEEET-TTSHHHHHHGG
T ss_pred HHHHHHHHhCCCc----------cccCCcHHHHHHHHHHhcc-----CCCCCCEEEEeCCChHHHHHHHHH
Confidence 4455666666553 4457887755555554443 368999999999999999988744
No 86
>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=57.52 E-value=9 Score=40.22 Aligned_cols=35 Identities=26% Similarity=0.384 Sum_probs=27.4
Q ss_pred HHHHHHhhccccc----CCCcEEeccCCcchHHHHHHHH
Q 000955 522 LQAIVDKLHWYVN----DGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 522 l~~i~~~Lh~yv~----~gd~ivdfccg~n~fs~lmk~k 556 (1210)
...+++++.++++ .+++|+|+.||...|+..+.+.
T Consensus 38 ~~~~~~~~~~~l~~~~~~~~~vLDiGcG~G~~~~~la~~ 76 (219)
T TIGR02021 38 RAAMRRKLLDWLPKDPLKGKRVLDAGCGTGLLSIELAKR 76 (219)
T ss_pred HHHHHHHHHHHHhcCCCCCCEEEEEeCCCCHHHHHHHHC
Confidence 4456666777766 4889999999999999888653
No 87
>PLN02585 magnesium protoporphyrin IX methyltransferase
Probab=56.64 E-value=26 Score=40.28 Aligned_cols=22 Identities=18% Similarity=0.412 Sum_probs=19.0
Q ss_pred CCCcEEeccCCcchHHHHHHHH
Q 000955 535 DGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 535 ~gd~ivdfccg~n~fs~lmk~k 556 (1210)
+|.+|+|++||.-+++..+.++
T Consensus 144 ~~~~VLDlGcGtG~~a~~la~~ 165 (315)
T PLN02585 144 AGVTVCDAGCGTGSLAIPLALE 165 (315)
T ss_pred CCCEEEEecCCCCHHHHHHHHC
Confidence 5789999999999999887653
No 88
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=55.55 E-value=5.5 Score=46.57 Aligned_cols=33 Identities=24% Similarity=0.549 Sum_probs=22.7
Q ss_pred cccccCCCCCCCCCCCCcccccCCCCCCCCCccccccccc
Q 000955 92 QCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 131 (1210)
Q Consensus 92 qCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l~ 131 (1210)
.|.||-+.=. .|..|.. ..|.+.||..||+.|+
T Consensus 231 ~CaIClEdY~----~GdklRi---LPC~H~FH~~CIDpWL 263 (348)
T KOG4628|consen 231 TCAICLEDYE----KGDKLRI---LPCSHKFHVNCIDPWL 263 (348)
T ss_pred eEEEeecccc----cCCeeeE---ecCCCchhhccchhhH
Confidence 7999954321 2223322 3789999999999997
No 89
>PRK15001 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional
Probab=55.24 E-value=17 Score=42.87 Aligned_cols=122 Identities=16% Similarity=0.134 Sum_probs=66.5
Q ss_pred ccccccCcccchhhhHHHHHHhhcccccC--CCcEEeccCCcchHHHHHHHHH---HhhCCccccc-------cccccCC
Q 000955 507 MRYTSFGRHFTKVDKLQAIVDKLHWYVND--GDMIVDFCCGANDFSCLMKKKL---DETGKNCLYK-------NYDILPA 574 (1210)
Q Consensus 507 ~rytS~grhFTk~ekl~~i~~~Lh~yv~~--gd~ivdfccg~n~fs~lmk~kl---~~~gk~c~~k-------n~dl~~~ 574 (1210)
..+.+..--|.. ++|-.=.+-|.-++.. +..|||+.||.-..+..+.++. .-++.+.++. |+..-.+
T Consensus 199 ~~~~~~~gVFs~-~~LD~GtrllL~~lp~~~~~~VLDLGCGtGvi~i~la~~~P~~~V~~vD~S~~Av~~A~~N~~~n~~ 277 (378)
T PRK15001 199 WTIHNHANVFSR-TGLDIGARFFMQHLPENLEGEIVDLGCGNGVIGLTLLDKNPQAKVVFVDESPMAVASSRLNVETNMP 277 (378)
T ss_pred EEEEecCCccCC-CCcChHHHHHHHhCCcccCCeEEEEeccccHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcCc
Confidence 334466666664 3343333333333322 4589999999999998887753 2223333333 3322221
Q ss_pred C--CCccccccccccccCCCCCCCCeeeeeeCCCccch----hhhHHHHHHhhhc-cCCcEEEEec
Q 000955 575 K--NDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVK----AGLANKFINKALE-FNPKLLILIV 633 (1210)
Q Consensus 575 k--n~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~----a~lAnkFi~kal~-F~PkliilI~ 633 (1210)
. ...+|...|.++ .++.++.=+|-.||||-.. ..+|.+|+..|.. -+|.=.++||
T Consensus 278 ~~~~~v~~~~~D~l~----~~~~~~fDlIlsNPPfh~~~~~~~~ia~~l~~~a~~~LkpGG~L~iV 339 (378)
T PRK15001 278 EALDRCEFMINNALS----GVEPFRFNAVLCNPPFHQQHALTDNVAWEMFHHARRCLKINGELYIV 339 (378)
T ss_pred ccCceEEEEEccccc----cCCCCCEEEEEECcCcccCccCCHHHHHHHHHHHHHhcccCCEEEEE
Confidence 1 245666666654 2333343334449999643 3578899877763 3555444444
No 90
>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=55.08 E-value=6.1 Score=41.45 Aligned_cols=26 Identities=27% Similarity=0.560 Sum_probs=19.4
Q ss_pred cccccccCcccccccCCCChhhhhccccccccchhhc
Q 000955 53 FHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYK 89 (1210)
Q Consensus 53 FH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~g 89 (1210)
||+. |+++.|+.. |.+.|+|+.|..+
T Consensus 2 ~H~~--------CL~Ppl~~~---P~g~W~Cp~C~~~ 27 (148)
T cd04718 2 FHLC--------CLRPPLKEV---PEGDWICPFCEVE 27 (148)
T ss_pred cccc--------cCCCCCCCC---CCCCcCCCCCcCC
Confidence 8999 555666643 5799999999743
No 91
>COG0286 HsdM Type I restriction-modification system methyltransferase subunit [Defense mechanisms]
Probab=54.41 E-value=14 Score=44.53 Aligned_cols=49 Identities=22% Similarity=0.278 Sum_probs=43.7
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhC
Q 000955 511 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETG 561 (1210)
Q Consensus 511 S~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~g 561 (1210)
+.|.+||-.+--+=||+.|-. +++++|.|.|||+-.|.....+.+.+..
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 679999999999999999988 9999999999999999988888776543
No 92
>COG3802 GguC Uncharacterized protein conserved in bacteria [Function unknown]
Probab=54.36 E-value=6.4 Score=44.61 Aligned_cols=66 Identities=33% Similarity=0.630 Sum_probs=55.8
Q ss_pred CccchhhhHHHHHHhhh----------------ccCCcEEEEecCCccccccccCCCceeeeccccccCCcc--------
Q 000955 606 PFGVKAGLANKFINKAL----------------EFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKS-------- 661 (1210)
Q Consensus 606 Pfg~~a~lAnkFi~kal----------------~F~PkliilI~P~~t~rld~k~~~Y~liwed~~~l~gks-------- 661 (1210)
||-+--+|||.|-||.- .|-|.|+|=-+|.+.+-.-++.+.=++||| +-||||..
T Consensus 186 p~RlGfal~NEfSDHvtEr~NYL~LAHSKLR~as~GPEl~vG~lP~~vrG~SRI~Rdg~viwe-k~FlSGE~nMsHs~aN 264 (333)
T COG3802 186 PYRLGFALANEFSDHVTERVNYLYLAHSKLRNASFGPELLVGALPEDVRGVSRILRDGEVIWE-KPFLSGEANMSHSIAN 264 (333)
T ss_pred eeEEeeeecchhhhhhhhccceEEeehhhhhccccCcceeeccCchhhcCceeeecCCEEEEe-cccccCccchhhhhhh
Confidence 99999999999999974 589999999999998877778888899998 46888874
Q ss_pred ----------eecCCCcccch
Q 000955 662 ----------FYLPGSVDEND 672 (1210)
Q Consensus 662 ----------FYlPGsvd~nd 672 (1210)
|--||.|+|+.
T Consensus 265 LEhhHFkY~lfrrpGDvHvh~ 285 (333)
T COG3802 265 LEHHHFKYALFRRPGDVHVHF 285 (333)
T ss_pred hhhhhhhhhhhcCCCceEEEE
Confidence 45688888754
No 93
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=54.03 E-value=7.4 Score=50.99 Aligned_cols=42 Identities=21% Similarity=0.623 Sum_probs=34.9
Q ss_pred cccccCCCccCCCCCCceeeccccCcccccccCCCCcccccccccccccccccccc
Q 000955 158 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEGLL 213 (1210)
Q Consensus 158 ~C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~CLL 213 (1210)
.|..|...++ ++.|..||+.||..|..++.- ..+..-|.|.+
T Consensus 346 hcrf~~d~~~-------~lc~Et~prvvhlEcv~hP~~-------~~~s~~~e~ev 387 (1414)
T KOG1473|consen 346 HCRFCHDLGD-------LLCCETCPRVVHLECVFHPRF-------AVPSAFWECEV 387 (1414)
T ss_pred cccccCcccc-------eeecccCCceEEeeecCCccc-------cCCCccchhhh
Confidence 3889987765 889999999999999999863 56778899854
No 94
>PRK14966 unknown domain/N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase fusion protein; Provisional
Probab=52.93 E-value=11 Score=45.29 Aligned_cols=82 Identities=16% Similarity=0.251 Sum_probs=44.8
Q ss_pred HHHHhhcccccCCCcEEeccCCcchHHHHHHHHHH---hhCCcccc-------ccccccCCCCCccccccccccccCCCC
Q 000955 524 AIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD---ETGKNCLY-------KNYDILPAKNDFNFEKRDWMTVEPKEL 593 (1210)
Q Consensus 524 ~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~---~~gk~c~~-------kn~dl~~~kn~f~Fe~~dw~~v~~~el 593 (1210)
.+++.+.=.+.++.+|+|++||+-.++..+..+.- -++.+.+- +|..... .+..|...||++.. +
T Consensus 240 ~LVe~aL~~l~~~~rVLDLGcGSG~IaiaLA~~~p~a~VtAVDiS~~ALe~AreNa~~~g--~rV~fi~gDl~e~~---l 314 (423)
T PRK14966 240 HLVEAVLARLPENGRVWDLGTGSGAVAVTVALERPDAFVRASDISPPALETARKNAADLG--ARVEFAHGSWFDTD---M 314 (423)
T ss_pred HHHHHhhhccCCCCEEEEEeChhhHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHHcC--CcEEEEEcchhccc---c
Confidence 33444332345778999999999999987654321 11222211 2222211 24678888886532 2
Q ss_pred C-CCCeeeeeeCCCccch
Q 000955 594 A-PGSRLIMGLNPPFGVK 610 (1210)
Q Consensus 594 p-~G~~LimgLnPPfg~~ 610 (1210)
+ .++.=++-.||||-..
T Consensus 315 ~~~~~FDLIVSNPPYI~~ 332 (423)
T PRK14966 315 PSEGKWDIIVSNPPYIEN 332 (423)
T ss_pred ccCCCccEEEECCCCCCc
Confidence 2 2333344469999643
No 95
>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=52.84 E-value=30 Score=28.55 Aligned_cols=27 Identities=11% Similarity=0.444 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhhhcccchHHHHHhhccC
Q 000955 405 DSKRRLSSLMKDAASSVRMEEILKRHKI 432 (1210)
Q Consensus 405 ~~erR~l~l~~~~~ss~t~~~v~k~~~~ 432 (1210)
+++++|+.++.+.. .+|..++.+++.+
T Consensus 3 ~~~~~Il~~l~~~~-~~t~~ela~~~~i 29 (48)
T PF13412_consen 3 ETQRKILNYLRENP-RITQKELAEKLGI 29 (48)
T ss_dssp HHHHHHHHHHHHCT-TS-HHHHHHHHTS
T ss_pred HHHHHHHHHHHHcC-CCCHHHHHHHhCC
Confidence 67899999999855 5999999998877
No 96
>TIGR00080 pimt protein-L-isoaspartate(D-aspartate) O-methyltransferase. Among the prokaryotes, the gene name is pcm. Among eukaryotes, pimt.
Probab=52.35 E-value=19 Score=38.01 Aligned_cols=45 Identities=9% Similarity=0.300 Sum_probs=36.2
Q ss_pred cCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHH
Q 000955 512 FGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD 558 (1210)
Q Consensus 512 ~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~ 558 (1210)
+|++++.+.-...+++.|- +++|+.|+|+.||.--++.+|-+...
T Consensus 56 ~~~~~~~p~~~~~~~~~l~--~~~~~~VLDiG~GsG~~a~~la~~~~ 100 (215)
T TIGR00080 56 YGQTISAPHMVAMMTELLE--LKPGMKVLEIGTGSGYQAAVLAEIVG 100 (215)
T ss_pred CCCEechHHHHHHHHHHhC--CCCcCEEEEECCCccHHHHHHHHHhC
Confidence 3677777766677777764 78999999999999999998877543
No 97
>KOG3420 consensus Predicted RNA methylase [Translation, ribosomal structure and biogenesis]
Probab=52.29 E-value=3.8 Score=43.47 Aligned_cols=105 Identities=26% Similarity=0.344 Sum_probs=54.0
Q ss_pred chhhhHHHHHHhhccccc--CCCcEEeccCCcchHH--HHHHHHHHhhCCccccccccccCCCCCccccc------cccc
Q 000955 517 TKVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFS--CLMKKKLDETGKNCLYKNYDILPAKNDFNFEK------RDWM 586 (1210)
Q Consensus 517 Tk~ekl~~i~~~Lh~yv~--~gd~ivdfccg~n~fs--~lmk~kl~~~gk~c~~kn~dl~~~kn~f~Fe~------~dw~ 586 (1210)
|.++-....+.-+|=-.- .|-.|.|+|||-.+.| +-|-+-=.=.|-+.-=-..+ |...|-..||- -|..
T Consensus 28 T~p~iAasM~~~Ih~TygdiEgkkl~DLgcgcGmLs~a~sm~~~e~vlGfDIdpeALE-If~rNaeEfEvqidlLqcdil 106 (185)
T KOG3420|consen 28 TRPHIAASMLYTIHNTYGDIEGKKLKDLGCGCGMLSIAFSMPKNESVLGFDIDPEALE-IFTRNAEEFEVQIDLLQCDIL 106 (185)
T ss_pred CcHHHHHHHHHHHHhhhccccCcchhhhcCchhhhHHHhhcCCCceEEeeecCHHHHH-HHhhchHHhhhhhheeeeecc
Confidence 445555555555553322 3555899999987765 22211000011111101111 12245555552 2333
Q ss_pred cccCCCCCCCCeeeeeeCCCccchhhhH-HHHHHhhhccC
Q 000955 587 TVEPKELAPGSRLIMGLNPPFGVKAGLA-NKFINKALEFN 625 (1210)
Q Consensus 587 ~v~~~elp~G~~LimgLnPPfg~~a~lA-nkFi~kal~F~ 625 (1210)
+. |+..|-.=.-..|||||-|-.=| -.||++||+.-
T Consensus 107 dl---e~~~g~fDtaviNppFGTk~~~aDm~fv~~al~~~ 143 (185)
T KOG3420|consen 107 DL---ELKGGIFDTAVINPPFGTKKKGADMEFVSAALKVA 143 (185)
T ss_pred ch---hccCCeEeeEEecCCCCcccccccHHHHHHHHHHH
Confidence 32 33445555566799999875545 57999999865
No 98
>PRK00312 pcm protein-L-isoaspartate O-methyltransferase; Reviewed
Probab=51.73 E-value=44 Score=35.08 Aligned_cols=44 Identities=11% Similarity=0.293 Sum_probs=34.2
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000955 511 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 511 S~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
.+|++.+.++-...+.+.|. +++|+.|+|++||.-.++.+|.+.
T Consensus 56 ~~~~~~~~p~~~~~l~~~l~--~~~~~~VLeiG~GsG~~t~~la~~ 99 (212)
T PRK00312 56 GCGQTISQPYMVARMTELLE--LKPGDRVLEIGTGSGYQAAVLAHL 99 (212)
T ss_pred CCCCeeCcHHHHHHHHHhcC--CCCCCEEEEECCCccHHHHHHHHH
Confidence 45666677777666766665 578999999999999999887653
No 99
>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=51.73 E-value=17 Score=37.65 Aligned_cols=30 Identities=23% Similarity=0.672 Sum_probs=23.5
Q ss_pred HHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000955 522 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 555 (1210)
Q Consensus 522 l~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 555 (1210)
|+++.+. +.++++|+|+.||...|...+.+
T Consensus 4 ~~~i~~~----i~~~~~iLDiGcG~G~~~~~l~~ 33 (194)
T TIGR02081 4 LESILNL----IPPGSRVLDLGCGDGELLALLRD 33 (194)
T ss_pred HHHHHHh----cCCCCEEEEeCCCCCHHHHHHHh
Confidence 4455554 46899999999999999988754
No 100
>PRK14968 putative methyltransferase; Provisional
Probab=51.50 E-value=38 Score=33.97 Aligned_cols=23 Identities=17% Similarity=0.367 Sum_probs=20.0
Q ss_pred cCCCcEEeccCCcchHHHHHHHH
Q 000955 534 NDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 534 ~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
.+|+.|+|+.||.--++..+.+.
T Consensus 22 ~~~~~vLd~G~G~G~~~~~l~~~ 44 (188)
T PRK14968 22 KKGDRVLEVGTGSGIVAIVAAKN 44 (188)
T ss_pred cCCCEEEEEccccCHHHHHHHhh
Confidence 78999999999999998887553
No 101
>PRK13942 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=51.18 E-value=18 Score=38.57 Aligned_cols=45 Identities=9% Similarity=0.372 Sum_probs=38.7
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 000955 511 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 511 S~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
-+|++-+.+.-+..+++.|. +++|++|+|+.||+--++.+|.+.+
T Consensus 54 ~~g~~~~~p~~~~~~~~~l~--~~~g~~VLdIG~GsG~~t~~la~~~ 98 (212)
T PRK13942 54 GYGQTISAIHMVAIMCELLD--LKEGMKVLEIGTGSGYHAAVVAEIV 98 (212)
T ss_pred CCCCEeCcHHHHHHHHHHcC--CCCcCEEEEECCcccHHHHHHHHhc
Confidence 46788888888888888886 6899999999999999999997744
No 102
>COG0293 FtsJ 23S rRNA methylase [Translation, ribosomal structure and biogenesis]
Probab=50.81 E-value=18 Score=39.75 Aligned_cols=44 Identities=27% Similarity=0.374 Sum_probs=40.1
Q ss_pred hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCC
Q 000955 518 KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGK 562 (1210)
Q Consensus 518 k~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk 562 (1210)
-..||.||.+|- -.+.+|+.|||+|+-=-.||+...+++...++
T Consensus 29 Aa~KL~el~~k~-~i~~~~~~ViDLGAAPGgWsQva~~~~~~~~~ 72 (205)
T COG0293 29 AAYKLLELNEKF-KLFKPGMVVVDLGAAPGGWSQVAAKKLGAGGK 72 (205)
T ss_pred HHHHHHHHHHhc-CeecCCCEEEEcCCCCCcHHHHHHHHhCCCCc
Confidence 457999999998 88999999999999999999999998888666
No 103
>PTZ00098 phosphoethanolamine N-methyltransferase; Provisional
Probab=49.90 E-value=19 Score=39.64 Aligned_cols=50 Identities=16% Similarity=0.401 Sum_probs=37.1
Q ss_pred cccccccc---------ccCcccchh---hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHH
Q 000955 503 FLHGMRYT---------SFGRHFTKV---DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMK 554 (1210)
Q Consensus 503 ~l~G~ryt---------S~grhFTk~---ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk 554 (1210)
||.-.+|| -||..|-.+ +-..+++++| -+.+|.+|+|+.||.-.++..|.
T Consensus 10 ~~~~~~y~~~~~~~~e~~~g~~~~~~gg~~~~~~~l~~l--~l~~~~~VLDiGcG~G~~a~~la 71 (263)
T PTZ00098 10 YLENNQYSDEGIKAYEFIFGEDYISSGGIEATTKILSDI--ELNENSKVLDIGSGLGGGCKYIN 71 (263)
T ss_pred hhhccccccccchhHHHHhCCCCCCCCchHHHHHHHHhC--CCCCCCEEEEEcCCCChhhHHHH
Confidence 56667777 477777666 4455566654 57899999999999999887774
No 104
>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=49.74 E-value=17 Score=38.12 Aligned_cols=43 Identities=28% Similarity=0.554 Sum_probs=30.2
Q ss_pred ccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000955 509 YTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 509 ytS~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
+.||+++.... ++++.+| -+++|++|||+.||...+...|.+.
T Consensus 24 ~~~~~~~~~~~---~~~l~~l--~~~~~~~vLDiGcG~G~~~~~la~~ 66 (231)
T TIGR02752 24 VISFQRHKKWR---KDTMKRM--NVQAGTSALDVCCGTADWSIALAEA 66 (231)
T ss_pred HhcCCchHHHH---HHHHHhc--CCCCCCEEEEeCCCcCHHHHHHHHH
Confidence 34566654443 3344444 3678999999999999999988664
No 105
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=49.12 E-value=35 Score=30.84 Aligned_cols=30 Identities=7% Similarity=0.308 Sum_probs=25.9
Q ss_pred hHHHHHHHHHHhhhcc-cchHHHHHhhccCC
Q 000955 404 EDSKRRLSSLMKDAAS-SVRMEEILKRHKIP 433 (1210)
Q Consensus 404 ~~~erR~l~l~~~~~s-s~t~~~v~k~~~~~ 433 (1210)
.+++++||.++++... .+|..+|.+.+.++
T Consensus 5 ~~~~~~IL~~L~~~g~~~~ta~eLa~~lgl~ 35 (68)
T smart00550 5 DSLEEKILEFLENSGDETSTALQLAKNLGLP 35 (68)
T ss_pred hHHHHHHHHHHHHCCCCCcCHHHHHHHHCCC
Confidence 4788999999999866 49999999998884
No 106
>PRK09489 rsmC 16S ribosomal RNA m2G1207 methyltransferase; Provisional
Probab=48.99 E-value=51 Score=38.26 Aligned_cols=21 Identities=24% Similarity=0.564 Sum_probs=18.3
Q ss_pred CCcEEeccCCcchHHHHHHHH
Q 000955 536 GDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 536 gd~ivdfccg~n~fs~lmk~k 556 (1210)
...|+||.||...++..+.++
T Consensus 197 ~g~VLDlGCG~G~ls~~la~~ 217 (342)
T PRK09489 197 KGKVLDVGCGAGVLSAVLARH 217 (342)
T ss_pred CCeEEEeccCcCHHHHHHHHh
Confidence 457999999999999988775
No 107
>PRK13944 protein-L-isoaspartate O-methyltransferase; Provisional
Probab=47.34 E-value=23 Score=37.48 Aligned_cols=45 Identities=9% Similarity=0.203 Sum_probs=35.6
Q ss_pred cCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHH
Q 000955 512 FGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD 558 (1210)
Q Consensus 512 ~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~ 558 (1210)
+|++++.+..+..+.+.|- +.+|+.|+|+.||.--++.+|.+++.
T Consensus 51 ~~~~~~~p~~~~~~~~~l~--~~~~~~VLDiG~GsG~~~~~la~~~~ 95 (205)
T PRK13944 51 AGATISAPHMVAMMCELIE--PRPGMKILEVGTGSGYQAAVCAEAIE 95 (205)
T ss_pred CCCEechHHHHHHHHHhcC--CCCCCEEEEECcCccHHHHHHHHhcC
Confidence 4677777776777777664 57899999999999999999877553
No 108
>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=47.19 E-value=28 Score=32.27 Aligned_cols=35 Identities=17% Similarity=0.287 Sum_probs=26.2
Q ss_pred hhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000955 519 VDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 555 (1210)
Q Consensus 519 ~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 555 (1210)
.+....+++.| ++.++++|||+.||..-++..+-+
T Consensus 5 ~~~~~~~~~~~--~~~~~~~vldlG~G~G~~~~~l~~ 39 (124)
T TIGR02469 5 REVRALTLSKL--RLRPGDVLWDIGAGSGSITIEAAR 39 (124)
T ss_pred HHHHHHHHHHc--CCCCCCEEEEeCCCCCHHHHHHHH
Confidence 34444455555 567889999999999999887755
No 109
>PF05958 tRNA_U5-meth_tr: tRNA (Uracil-5-)-methyltransferase; InterPro: IPR010280 This family consists of (uracil-5-)-methyltransferases 2.1.1.35 from EC from bacteria, archaea and eukaryotes. A 5-methyluridine (m(5)U) residue at position 54 is a conserved feature of bacterial and eukaryotic tRNAs. The methylation of U54 is catalysed by the tRNA(m5U54)methyltransferase, which in Saccharomyces cerevisiae is encoded by the nonessential TRM2 gene. It is thought that tRNA modification enzymes might have a role in tRNA maturation not necessarily linked to their known catalytic activity []. This protein family also contains the 23SrRNA methyltransferases, first proposed to be RNA methyltransferases by homology to the TrmA family. The member from Escherichia coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA [].; GO: 0008173 RNA methyltransferase activity, 0006396 RNA processing; PDB: 2VS1_A 2JJQ_A 2BH2_A 1UWV_A 3BT7_B.
Probab=47.11 E-value=26 Score=40.51 Aligned_cols=37 Identities=19% Similarity=0.407 Sum_probs=24.3
Q ss_pred hhHHHHHHhhcccccC-CCcEEeccCCcchHHHHHHHH
Q 000955 520 DKLQAIVDKLHWYVND-GDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 520 ekl~~i~~~Lh~yv~~-gd~ivdfccg~n~fs~lmk~k 556 (1210)
+-.+.+++.+.=++.+ ++.|||++||.-.||-.|-++
T Consensus 180 ~~~~~l~~~~~~~l~~~~~~vlDlycG~G~fsl~la~~ 217 (352)
T PF05958_consen 180 EQNEKLYEQALEWLDLSKGDVLDLYCGVGTFSLPLAKK 217 (352)
T ss_dssp HHHHHHHHHHHHHCTT-TTEEEEES-TTTCCHHHHHCC
T ss_pred HHHHHHHHHHHHHhhcCCCcEEEEeecCCHHHHHHHhh
Confidence 3444555554444443 347999999999999988554
No 110
>COG2230 Cfa Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]
Probab=46.40 E-value=21 Score=40.95 Aligned_cols=35 Identities=26% Similarity=0.500 Sum_probs=31.4
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000955 520 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 520 ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
-||+.|.++|+ +++|++|+||=||--..+..|-++
T Consensus 59 ~k~~~~~~kl~--L~~G~~lLDiGCGWG~l~~~aA~~ 93 (283)
T COG2230 59 AKLDLILEKLG--LKPGMTLLDIGCGWGGLAIYAAEE 93 (283)
T ss_pred HHHHHHHHhcC--CCCCCEEEEeCCChhHHHHHHHHH
Confidence 47889999998 899999999999999999888665
No 111
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=46.37 E-value=10 Score=47.95 Aligned_cols=43 Identities=16% Similarity=0.537 Sum_probs=32.2
Q ss_pred cccccCCCccCCCCCCceeeccccCcccccccCCCCcccccccccccccccccc
Q 000955 158 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG 211 (1210)
Q Consensus 158 ~C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~C 211 (1210)
.|.+|..+.-. ...+|++|+.|....|..|.-- +.+|...|.|
T Consensus 273 iCDvCrspD~e--~~neMVfCd~Cn~cVHqaCyGI---------le~p~gpWlC 315 (893)
T KOG0954|consen 273 ICDVCRSPDSE--EANEMVFCDKCNICVHQACYGI---------LEVPEGPWLC 315 (893)
T ss_pred eeceecCCCcc--ccceeEEeccchhHHHHhhhce---------eecCCCCeee
Confidence 49999887321 1236999999999999999533 2466788988
No 112
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=45.32 E-value=13 Score=44.88 Aligned_cols=72 Identities=11% Similarity=0.119 Sum_probs=41.4
Q ss_pred CCCcEEeccCCcchHHHHHHHHHH---hhCCcccc-------ccccccCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 000955 535 DGDMIVDFCCGANDFSCLMKKKLD---ETGKNCLY-------KNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 604 (1210)
Q Consensus 535 ~gd~ivdfccg~n~fs~lmk~kl~---~~gk~c~~-------kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLn 604 (1210)
.+..|+|++||+.-++..+...+. -++.+.+- +|.....-.+...|...||++. ++.+..=++-.|
T Consensus 138 ~~~~VLDlG~GsG~iai~la~~~p~~~v~avDis~~al~~A~~N~~~~~l~~~v~~~~~D~~~~----~~~~~fDlIvsN 213 (506)
T PRK01544 138 KFLNILELGTGSGCIAISLLCELPNANVIATDISLDAIEVAKSNAIKYEVTDRIQIIHSNWFEN----IEKQKFDFIVSN 213 (506)
T ss_pred CCCEEEEccCchhHHHHHHHHHCCCCeEEEEECCHHHHHHHHHHHHHcCCccceeeeecchhhh----CcCCCccEEEEC
Confidence 456899999999999987755431 12222222 2221111124577888888752 333333344469
Q ss_pred CCccch
Q 000955 605 PPFGVK 610 (1210)
Q Consensus 605 PPfg~~ 610 (1210)
|||-..
T Consensus 214 PPYi~~ 219 (506)
T PRK01544 214 PPYISH 219 (506)
T ss_pred CCCCCc
Confidence 999744
No 113
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=45.18 E-value=17 Score=44.39 Aligned_cols=69 Identities=19% Similarity=0.441 Sum_probs=44.8
Q ss_pred ccccCCCccCCCCCCceeeccccCcccccccCCCCcccccccccccccccccc---ccCCC--ceeEeccCcccc-cccC
Q 000955 159 CCICKQGENKADSDLQFAVCRRCPKAYHRKCLPRKIAFEDKLEEGIITRAWEG---LLPNH--RILIYCLKHEID-DEIG 232 (1210)
Q Consensus 159 C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPPpIafed~~eE~Ip~RAW~C---LLpnc--RILI~CpkHeID-~~Lg 232 (1210)
|..|....+.+ ...++.|+-|..+-|..|.- +.| +|.+-|.| ++..+ ++|..||.|.-. ....
T Consensus 196 C~~c~~t~~eN--~naiVfCdgC~i~VHq~CYG--I~f-------~peG~WlCrkCi~~~~~i~~C~fCps~dGaFkqT~ 264 (669)
T COG5141 196 CTKCTSTHNEN--SNAIVFCDGCEICVHQSCYG--IQF-------LPEGFWLCRKCIYGEYQIRCCSFCPSSDGAFKQTS 264 (669)
T ss_pred hHhccccccCC--cceEEEecCcchhhhhhccc--cee-------cCcchhhhhhhcccccceeEEEeccCCCCceeecc
Confidence 77887765543 23699999999999999964 443 46788987 22222 447788888422 1123
Q ss_pred CCCCCc
Q 000955 233 TPIRDH 238 (1210)
Q Consensus 233 TP~RdH 238 (1210)
+-+|-|
T Consensus 265 dgrW~H 270 (669)
T COG5141 265 DGRWGH 270 (669)
T ss_pred CCchHh
Confidence 344556
No 114
>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=44.85 E-value=1e+02 Score=34.35 Aligned_cols=93 Identities=20% Similarity=0.322 Sum_probs=63.4
Q ss_pred HHHHHHHHhcccCCCCHHHHhhhcChhHHhHHHHHhhhccccccc---------------------------cc--cccc
Q 000955 458 EAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAP---------------------------FL--HGMR 508 (1210)
Q Consensus 458 ~Avr~AL~kLe~~g~siedAkAvc~p~vL~Ql~~wk~kL~vylaP---------------------------~l--~G~r 508 (1210)
..|..|.++++ +|.+++ +++.+|..++++..+|+.| +| ..-.
T Consensus 123 ~~v~~a~~~~~-~G~s~~--------eI~~~l~~~~~~~~~~f~v~~L~~L~~gGRis~~~~~~g~lL~ikPIi~~~~G~ 193 (275)
T TIGR00762 123 LLVLEAAKLAE-EGKSLE--------EILAKLEELRERTKLYFVVDTLEYLVKGGRISKAAALIGSLLNIKPILTVDDGK 193 (275)
T ss_pred HHHHHHHHHHH-cCCCHH--------HHHHHHHHHHhhcEEEEEECcHHHHHhcCCccHHHHHHHHhhcceeEEEEeCCE
Confidence 34666778888 899988 4677888888888887544 22 2235
Q ss_pred ccccCcccchhhhHHHHHHhhcccccCCC-cEEe-ccCCcchHHHHHHHHHHh
Q 000955 509 YTSFGRHFTKVDKLQAIVDKLHWYVNDGD-MIVD-FCCGANDFSCLMKKKLDE 559 (1210)
Q Consensus 509 ytS~grhFTk~ekl~~i~~~Lh~yv~~gd-~ivd-fccg~n~fs~lmk~kl~~ 559 (1210)
...+++.++..-.++++++.+.=++.+++ -.|. ..+|..+=...++++|.+
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 56888888888888889988887776543 2333 345555555566666665
No 115
>TIGR00438 rrmJ cell division protein FtsJ.
Probab=44.70 E-value=27 Score=36.04 Aligned_cols=36 Identities=19% Similarity=0.421 Sum_probs=29.8
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 000955 521 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 521 kl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
+|.++.+++. .+++|++|+|++||.-.++.++.++.
T Consensus 19 ~~~~~~~~~~-~i~~g~~VLDiG~GtG~~~~~l~~~~ 54 (188)
T TIGR00438 19 KLLQLNQKFK-LIKPGDTVLDLGAAPGGWSQVAVEQV 54 (188)
T ss_pred HHHHHHHHhc-ccCCCCEEEEecCCCCHHHHHHHHHh
Confidence 6777777765 45789999999999999999887655
No 116
>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=43.51 E-value=17 Score=37.05 Aligned_cols=38 Identities=18% Similarity=0.268 Sum_probs=30.4
Q ss_pred hhHHHHHHhhccccc-CCCcEEeccCCcchHHHHHHHHH
Q 000955 520 DKLQAIVDKLHWYVN-DGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 520 ekl~~i~~~Lh~yv~-~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
.||.||.++..++-. .+.+|||+||+--.|+..+-+++
T Consensus 7 ~KL~ei~~~~~~~~~~~~~~vlDlG~aPGGws~~~~~~~ 45 (181)
T PF01728_consen 7 FKLYEIDEKFKIFKPGKGFTVLDLGAAPGGWSQVLLQRG 45 (181)
T ss_dssp HHHHHHHHTTSSS-TTTTEEEEEET-TTSHHHHHHHTST
T ss_pred HHHHHHHHHCCCCCcccccEEEEcCCcccceeeeeeecc
Confidence 589999999985533 45889999999999999996644
No 117
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=43.32 E-value=14 Score=33.25 Aligned_cols=32 Identities=31% Similarity=0.804 Sum_probs=25.0
Q ss_pred cccccCCCccCCCCCCceeeccccCcccccccCCC
Q 000955 158 KCCICKQGENKADSDLQFAVCRRCPKAYHRKCLPR 192 (1210)
Q Consensus 158 ~C~vCkkseDkn~~egqLIrCdRCPKAYH~kCLPP 192 (1210)
.|..|++.=. .+..+++|..|.+-||+.|-..
T Consensus 7 ~C~~Cg~~~~---~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 7 KCPVCGKKFK---DGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred cChhhCCccc---CCCCEEECCCCCCcccHHHHhh
Confidence 5888987632 1335999999999999999755
No 118
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=43.25 E-value=11 Score=34.45 Aligned_cols=40 Identities=25% Similarity=0.533 Sum_probs=16.8
Q ss_pred ccccccCCCCCCCCCCCCcccccCCCCCCCCCcccccccccc
Q 000955 91 HQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLL 132 (1210)
Q Consensus 91 HqCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l~~ 132 (1210)
..|.||...-..+ .....+.|..+.|++.||..||..|+.
T Consensus 3 ~~C~IC~~~~~~~--~~~p~~~C~n~~C~~~fH~~CL~~wf~ 42 (70)
T PF11793_consen 3 LECGICYSYRLDD--GEIPDVVCPNPSCGKKFHLLCLSEWFL 42 (70)
T ss_dssp -S-SSS--SS-TT-------B--S-TT----B-SGGGHHHHH
T ss_pred CCCCcCCcEecCC--CCcCceEcCCcccCCHHHHHHHHHHHH
Confidence 3577886542211 123468999999999999999999974
No 119
>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=42.90 E-value=30 Score=38.67 Aligned_cols=38 Identities=21% Similarity=0.181 Sum_probs=28.1
Q ss_pred CcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHH
Q 000955 513 GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMK 554 (1210)
Q Consensus 513 grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk 554 (1210)
|.|-|..-.|+.+ .-|+.+|++|+|+.||+--++..+.
T Consensus 141 G~h~tt~l~l~~l----~~~~~~g~~VLDvGcGsG~lai~aa 178 (288)
T TIGR00406 141 GTHPTTSLCLEWL----EDLDLKDKNVIDVGCGSGILSIAAL 178 (288)
T ss_pred CCCHHHHHHHHHH----HhhcCCCCEEEEeCCChhHHHHHHH
Confidence 4777766655543 3357899999999999988876654
No 120
>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=42.78 E-value=15 Score=32.71 Aligned_cols=19 Identities=42% Similarity=1.097 Sum_probs=12.6
Q ss_pred EeccCCcchHHHHHHHHHHhhC
Q 000955 540 VDFCCGANDFSCLMKKKLDETG 561 (1210)
Q Consensus 540 vdfccg~n~fs~lmk~kl~~~g 561 (1210)
+|||||.|. -+.+...+.|
T Consensus 24 IDfCCgG~~---~L~eA~~~~~ 42 (56)
T PF04405_consen 24 IDFCCGGNR---SLEEACEEKG 42 (56)
T ss_pred CcccCCCCc---hHHHHHHHcC
Confidence 899999985 4444444433
No 121
>PRK11783 rlmL 23S rRNA m(2)G2445 methyltransferase; Provisional
Probab=41.09 E-value=53 Score=41.46 Aligned_cols=66 Identities=20% Similarity=0.320 Sum_probs=35.5
Q ss_pred ChhHHhHHHHHhhhcccccccccccc-----cccccCcccchhhhHHH-HHHhhcccccCCCcEEeccCCcchHH
Q 000955 482 EPEVLSQIFKWKNKLKVYLAPFLHGM-----RYTSFGRHFTKVDKLQA-IVDKLHWYVNDGDMIVDFCCGANDFS 550 (1210)
Q Consensus 482 ~p~vL~Ql~~wk~kL~vylaP~l~G~-----rytS~grhFTk~ekl~~-i~~~Lh~yv~~gd~ivdfccg~n~fs 550 (1210)
.|++.-.+..-++++-|||-- .|. -|-.+.---...|.|-. ++..-.|. .+++.+||..||+--|.
T Consensus 134 ~pdv~i~~~~~~~~~~l~ld~--sg~~L~rRgyr~~~~~Apl~etlAaa~l~~a~w~-~~~~~l~DP~CGSGTil 205 (702)
T PRK11783 134 QPDIRINARLNKGEATISLDL--SGESLHQRGYRQATGEAPLKENLAAAILLRSGWP-QEGTPLLDPMCGSGTLL 205 (702)
T ss_pred CCCEEEEEEEeCCEEEEEEEC--CCCchhhccCccCCCCCCCcHHHHHHHHHHcCCC-CCCCeEEccCCCccHHH
Confidence 345544444445666666542 232 23222222223444443 44434453 57899999999998875
No 122
>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=39.24 E-value=79 Score=35.29 Aligned_cols=89 Identities=20% Similarity=0.303 Sum_probs=56.5
Q ss_pred cEEeccCCcchHHHHHHHHHHhhCCcccc-------------ccccccCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 000955 538 MIVDFCCGANDFSCLMKKKLDETGKNCLY-------------KNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 604 (1210)
Q Consensus 538 ~ivdfccg~n~fs~lmk~kl~~~gk~c~~-------------kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLn 604 (1210)
+|+|++||.--++.=+++ .|-.+.+ +||.- . +...|.-++.+.+++..--||+| -
T Consensus 2 ~v~dLFsG~Gg~~~gl~~----~G~~~v~a~e~~~~a~~~~~~N~~~-----~--~~~~Di~~~~~~~~~~~~D~l~~-g 69 (275)
T cd00315 2 RVIDLFAGIGGFRLGLEK----AGFEIVAANEIDKSAAETYEANFPN-----K--LIEGDITKIDEKDFIPDIDLLTG-G 69 (275)
T ss_pred cEEEEccCcchHHHHHHH----cCCEEEEEEeCCHHHHHHHHHhCCC-----C--CccCccccCchhhcCCCCCEEEe-C
Confidence 589999999999876654 4544432 34321 1 33456666666664333446666 5
Q ss_pred CCc-------------cchhhhHHHHHHhhhccCCcEEEEecCCccc
Q 000955 605 PPF-------------GVKAGLANKFINKALEFNPKLLILIVPPETE 638 (1210)
Q Consensus 605 PPf-------------g~~a~lAnkFi~kal~F~PkliilI~P~~t~ 638 (1210)
||- +-++.|.-.|++-+-.++|+++|+==-+...
T Consensus 70 pPCq~fS~ag~~~~~~d~r~~L~~~~~~~i~~~~P~~~v~ENV~g~~ 116 (275)
T cd00315 70 FPCQPFSIAGKRKGFEDTRGTLFFEIIRILKEKKPKYFLLENVKGLL 116 (275)
T ss_pred CCChhhhHHhhcCCCCCchHHHHHHHHHHHHhcCCCEEEEEcCcchh
Confidence 653 2356688889998999999999885444443
No 123
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=38.77 E-value=6.7 Score=32.09 Aligned_cols=34 Identities=26% Similarity=0.686 Sum_probs=16.1
Q ss_pred CeeccccccCCccccccccCcccccccCCCChhhhhccccccccchh
Q 000955 41 DLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCE 87 (1210)
Q Consensus 41 ELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe 87 (1210)
.||.|+ .|.-++|..| .|+...+ ....|+|..|+
T Consensus 3 ~ll~C~-~C~v~VH~~C----------YGv~~~~--~~~~W~C~~C~ 36 (36)
T PF13831_consen 3 PLLFCD-NCNVAVHQSC----------YGVSEVP--DGDDWLCDRCE 36 (36)
T ss_dssp EEEE-S-SS--EEEHHH----------HT-SS----SS-----HHH-
T ss_pred ceEEeC-CCCCcCChhh----------CCcccCC--CCCcEECCcCC
Confidence 589999 6999999995 4554432 23369998774
No 124
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=38.19 E-value=37 Score=39.00 Aligned_cols=34 Identities=24% Similarity=0.337 Sum_probs=29.4
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000955 521 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 521 kl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
.|+|+++.|- +++|+++||..||.--++..+-++
T Consensus 7 ll~Evl~~L~--~~pg~~vlD~TlG~GGhS~~il~~ 40 (296)
T PRK00050 7 LLDEVVDALA--IKPDGIYVDGTFGGGGHSRAILER 40 (296)
T ss_pred cHHHHHHhhC--CCCCCEEEEeCcCChHHHHHHHHh
Confidence 4788999886 589999999999999999999543
No 125
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=37.12 E-value=15 Score=44.36 Aligned_cols=36 Identities=25% Similarity=0.433 Sum_probs=23.0
Q ss_pred cccccccCCCCCCCCCCCCcccccCCCCCCCCCccccccccc
Q 000955 90 QHQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 131 (1210)
Q Consensus 90 QHqCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l~ 131 (1210)
...|.||-..-+++ . ..+.-. .|.+.||-.|+..|.
T Consensus 175 LPTCpVCLERMD~s--~--~gi~t~--~c~Hsfh~~cl~~w~ 210 (493)
T KOG0804|consen 175 LPTCPVCLERMDSS--T--TGILTI--LCNHSFHCSCLMKWW 210 (493)
T ss_pred CCCcchhHhhcCcc--c--cceeee--ecccccchHHHhhcc
Confidence 35688886554332 1 122222 788999999999885
No 126
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=36.95 E-value=19 Score=32.50 Aligned_cols=34 Identities=35% Similarity=0.784 Sum_probs=26.6
Q ss_pred ccccccCCCCCCCCCCCCcccccCCCCCCCCCcccccccc
Q 000955 91 HQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKL 130 (1210)
Q Consensus 91 HqCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l 130 (1210)
..|.+|++.-. .+.+++.|. .|+.-||..|..+.
T Consensus 6 ~~C~~Cg~~~~----~~dDiVvCp--~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 6 CKCPVCGKKFK----DGDDIVVCP--ECGAPYHRDCWEKA 39 (54)
T ss_pred ccChhhCCccc----CCCCEEECC--CCCCcccHHHHhhC
Confidence 46888987532 246899998 99999999999754
No 127
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=36.69 E-value=24 Score=43.57 Aligned_cols=36 Identities=33% Similarity=0.566 Sum_probs=31.1
Q ss_pred ccccccccCcccccccCCCCeeccccccCCccccccc
Q 000955 22 SNEEDELFDSVCSFCDNGGDLLCCEGRCLRSFHATID 58 (1210)
Q Consensus 22 sdeddDlnDdVCaIC~dGGELLCCDGsC~RSFH~~C~ 58 (1210)
....-...+.+|+-|.-.|..|.|. .|.|+||..|.
T Consensus 52 ~~~~~~N~d~~cfechlpg~vl~c~-vc~Rs~h~~c~ 87 (588)
T KOG3612|consen 52 SRLPSSNIDPFCFECHLPGAVLKCI-VCHRSFHENCQ 87 (588)
T ss_pred ccccccCCCcccccccCCcceeeee-hhhcccccccc
Confidence 5555567789999999999999999 89999999954
No 128
>PF01555 N6_N4_Mtase: DNA methylase; InterPro: IPR002941 This domain is found in DNA methylases. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. This family contains both N-4 cytosine-specific DNA methylases and N-6 Adenine-specific DNA methylases. N-4 cytosine-specific DNA methylases (2.1.1.113 from EC) [] are enzymes that specifically methylate the amino group at the C-4 position of cytosines in DNA. Such enzymes are found as components of type II restriction-modification systems in prokaryotes. Such enzymes recognise a specific sequence in DNA and methylate a cytosine in that sequence. By this action they protect DNA from cleavage by type II restriction enzymes that recognise the same sequence. N-6 adenine-specific DNA methylases (2.1.1.72 from EC) (A-Mtase) are enzymes that specifically methylate the amino group at the C-6 position of adenines in DNA. Such enzymes are found in the three existing types of bacterial restriction-modification systems (in type I system the A-Mtase is the product of the hsdM gene, and in type III it is the product of the mod gene). All of these enzymes recognise a specific sequence in DNA and methylate an adenine in that sequence.; GO: 0003677 DNA binding, 0008170 N-methyltransferase activity, 0006306 DNA methylation; PDB: 2ZIF_A 2ZIE_A 2ZIG_A 1NW6_A 1NW8_A 1NW7_A 1NW5_A 1EG2_A 1BOO_A 1G60_B ....
Probab=36.52 E-value=22 Score=36.21 Aligned_cols=50 Identities=20% Similarity=0.336 Sum_probs=23.6
Q ss_pred cccccccccccccc----CcccchhhhHHHHHHh-hcccccCCCcEEeccCCcchHH
Q 000955 499 YLAPFLHGMRYTSF----GRHFTKVDKLQAIVDK-LHWYVNDGDMIVDFCCGANDFS 550 (1210)
Q Consensus 499 ylaP~l~G~rytS~----grhFTk~ekl~~i~~~-Lh~yv~~gd~ivdfccg~n~fs 550 (1210)
+..+.+...+..+- +.|-|.. =.+++++ +..+-.+||+|+|+.||+..=.
T Consensus 152 w~~~~~~~~~~~~~~~~~~~h~~~k--P~~l~~~lI~~~t~~gdiVlDpF~GSGTT~ 206 (231)
T PF01555_consen 152 WPFSIIPPSRKNSKGNTKGKHPTQK--PVELIERLIKASTNPGDIVLDPFAGSGTTA 206 (231)
T ss_dssp EE-SEEETTSTT--CHH----TT-S---HHHHHHHHHHHS-TT-EEEETT-TTTHHH
T ss_pred cccccccccccccccccccceeecC--CHHHHHHHHHhhhccceeeehhhhccChHH
Confidence 33444555555544 3465532 1223333 3467899999999999997543
No 129
>PRK08287 cobalt-precorrin-6Y C(15)-methyltransferase; Validated
Probab=34.87 E-value=58 Score=33.59 Aligned_cols=41 Identities=17% Similarity=0.186 Sum_probs=33.5
Q ss_pred CcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000955 513 GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 555 (1210)
Q Consensus 513 grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 555 (1210)
.+..|+.+--..+++.|. +.++++|+|+.||.-.++..+.+
T Consensus 11 ~~~~~~~~~r~~~~~~l~--~~~~~~vLDiG~G~G~~~~~la~ 51 (187)
T PRK08287 11 KVPMTKEEVRALALSKLE--LHRAKHLIDVGAGTGSVSIEAAL 51 (187)
T ss_pred CCCCchHHHHHHHHHhcC--CCCCCEEEEECCcCCHHHHHHHH
Confidence 456788877777778885 45899999999999999988855
No 130
>TIGR00446 nop2p NOL1/NOP2/sun family putative RNA methylase.
Probab=34.20 E-value=29 Score=38.28 Aligned_cols=41 Identities=5% Similarity=0.039 Sum_probs=28.4
Q ss_pred cchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 000955 516 FTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 516 FTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
|+-.+..-.++-.+. -+++|++|+|+|||.-.++..|-+.+
T Consensus 53 ~~~qd~~s~~~~~~l-~~~~g~~VLDl~ag~G~kt~~la~~~ 93 (264)
T TIGR00446 53 YYIQEASSMIPPLAL-EPDPPERVLDMAAAPGGKTTQISALM 93 (264)
T ss_pred EEEECHHHHHHHHHh-CCCCcCEEEEECCCchHHHHHHHHHc
Confidence 343444444443322 56899999999999999998886644
No 131
>PRK07402 precorrin-6B methylase; Provisional
Probab=34.14 E-value=60 Score=33.78 Aligned_cols=41 Identities=15% Similarity=0.231 Sum_probs=32.5
Q ss_pred CcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 000955 513 GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK 555 (1210)
Q Consensus 513 grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~ 555 (1210)
|.-.|+.+....+++.|. +.+|++|+|++||.-.|...+.+
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 334677777777888884 57899999999999999887754
No 132
>PRK00121 trmB tRNA (guanine-N(7)-)-methyltransferase; Reviewed
Probab=34.05 E-value=22 Score=37.54 Aligned_cols=29 Identities=21% Similarity=0.308 Sum_probs=23.0
Q ss_pred hcccccCCCcEEeccCCcchHHHHHHHHH
Q 000955 529 LHWYVNDGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 529 Lh~yv~~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
+-.|.+++..|||+.||.-.++..|.+++
T Consensus 34 ~~~~~~~~~~VLDiGcGtG~~~~~la~~~ 62 (202)
T PRK00121 34 AELFGNDAPIHLEIGFGKGEFLVEMAKAN 62 (202)
T ss_pred HHHcCCCCCeEEEEccCCCHHHHHHHHHC
Confidence 33455678999999999999999886643
No 133
>TIGR01712 phage_N6A_met phage N-6-adenine-methyltransferase. This is a model for a phage-borne DNA N-6-adenine-methyltransferase.
Probab=33.64 E-value=33 Score=36.74 Aligned_cols=35 Identities=23% Similarity=0.494 Sum_probs=26.1
Q ss_pred eeeeCCCccchhhhHHHHHHhhhcc---CCcEEEEecCCccc
Q 000955 600 IMGLNPPFGVKAGLANKFINKALEF---NPKLLILIVPPETE 638 (1210)
Q Consensus 600 imgLnPPfg~~a~lAnkFi~kal~F---~PkliilI~P~~t~ 638 (1210)
-+=+||||+- +..||.||.++ +=..+|+.+|-.|.
T Consensus 64 ~vf~NPPYS~----~~~~v~kaae~~~~~g~~~VmLlpa~ts 101 (166)
T TIGR01712 64 AVWLNPPYSR----PDIFVNKTAWFTEARQAAEVILIEADLS 101 (166)
T ss_pred eEEecCCCCc----HHHHHHHHHHHHHhhCCeEEEEEecCCc
Confidence 4556999983 47999999765 22468888888875
No 134
>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=32.75 E-value=49 Score=37.64 Aligned_cols=91 Identities=20% Similarity=0.369 Sum_probs=55.3
Q ss_pred EEeccCCcchHHHHHHHHHHhhCCccccccccccCC-----CCCc--cccccccccccCCCCCCCCeeeeeeCC--Ccc-
Q 000955 539 IVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPA-----KNDF--NFEKRDWMTVEPKELAPGSRLIMGLNP--PFG- 608 (1210)
Q Consensus 539 ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~~~-----kn~f--~Fe~~dw~~v~~~elp~G~~LimgLnP--Pfg- 608 (1210)
||||+||+--++.=++ ..|-.+.+ -+|+-+. +.+| .+...|=-++.+.++|.=+-|+.| =| +|-
T Consensus 1 vidLF~G~GG~~~Gl~----~aG~~~~~-a~e~~~~a~~ty~~N~~~~~~~~Di~~~~~~~~~~~dvl~gg-~PCq~fS~ 74 (315)
T TIGR00675 1 FIDLFAGIGGIRLGFE----QAGFKCVF-ASEIDKYAQKTYEANFGNKVPFGDITKISPSDIPDFDILLGG-FPCQPFSI 74 (315)
T ss_pred CEEEecCccHHHHHHH----HcCCeEEE-EEeCCHHHHHHHHHhCCCCCCccChhhhhhhhCCCcCEEEec-CCCcccch
Confidence 6899999999986664 44644432 1111000 0000 223356666777778876655555 33 343
Q ss_pred ---------chhhhHHHHHHhhhccCCcEEEEecCC
Q 000955 609 ---------VKAGLANKFINKALEFNPKLLILIVPP 635 (1210)
Q Consensus 609 ---------~~a~lAnkFi~kal~F~PkliilI~P~ 635 (1210)
.++.|.-.|++-+-.++|+++|+==-+
T Consensus 75 ag~~~~~~d~r~~L~~~~~r~i~~~~P~~~v~ENV~ 110 (315)
T TIGR00675 75 AGKRKGFEDTRGTLFFEIVRILKEKKPKFFLLENVK 110 (315)
T ss_pred hcccCCCCCchhhHHHHHHHHHhhcCCCEEEeeccH
Confidence 356788889999999999998874333
No 135
>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=32.75 E-value=43 Score=35.99 Aligned_cols=131 Identities=21% Similarity=0.337 Sum_probs=67.5
Q ss_pred cchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCCccccccccccCCCCCccccccccccccCCCCCC
Q 000955 516 FTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAP 595 (1210)
Q Consensus 516 FTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~ 595 (1210)
-|-.+-+..+...++|| .||.||-..+ ..|. +-|. +. -|.=..||-.. |.
T Consensus 15 ~TP~~lf~~l~~~fg~f------~LD~aa~~~N-------------a~~~-~y~T---~~--~DgL~~~W~~~----~~- 64 (181)
T PF05869_consen 15 QTPPELFDALNREFGPF------DLDPAASDEN-------------AKCP-RYYT---EE--DDGLAQDWSAE----LM- 64 (181)
T ss_pred cCCHHHHHHHHHHhCCc------cccccCCCCC-------------hhhh-hhcC---cc--ccHhhhhhhhc----cc-
Confidence 46667777777778874 5788875432 1231 1222 11 13334556432 11
Q ss_pred CCeeeeeeCCCccchhhhHHHHHHhhhccC---CcEEEEecCCccccccccCCCceeeeccc---cccCC-cceecCCCc
Q 000955 596 GSRLIMGLNPPFGVKAGLANKFINKALEFN---PKLLILIVPPETERLDRKESAYELVWEDD---QFLSG-KSFYLPGSV 668 (1210)
Q Consensus 596 G~~LimgLnPPfg~~a~lAnkFi~kal~F~---PkliilI~P~~t~rld~k~~~Y~liwed~---~~l~g-ksFYlPGsv 668 (1210)
|. | =+||||+.. ...||.||.+.. =..|+||+|-.+.. .=|+.+++.. .+|.| -+|+.|.
T Consensus 65 g~--v-f~NPPYs~~---i~~wv~Ka~~e~~~g~~~VvLL~~~~~st-----~W~~~~~~~a~~I~fi~GRl~F~~p~-- 131 (181)
T PF05869_consen 65 GR--V-FCNPPYSRG---IGPWVEKAIEEYERGNQTVVLLPPADTST-----WWFEDALENADEIRFIRGRLKFINPV-- 131 (181)
T ss_pred ce--E-EecCchhhh---HHHHHHHHHHHHHhCCcEEEEEeccCCCc-----cHHHHHHhcCCEEEEecCceeeccCC--
Confidence 22 2 459999942 667777776532 14566777765541 1333332211 23334 2677772
Q ss_pred ccchhhhcccccCCCCeeeeecc
Q 000955 669 DENDKQMDQWNMTAPPLYLWSRH 691 (1210)
Q Consensus 669 d~ndk~~eqwn~~pP~l~LWsr~ 691 (1210)
.++.-.+.|..|-.|.+|.-.
T Consensus 132 --~g~~~~~~~~~gs~l~if~p~ 152 (181)
T PF05869_consen 132 --TGKEGKNGNPKGSMLVIFRPT 152 (181)
T ss_pred --CCccCCCCCCCceEEEEECCC
Confidence 223323455566667777543
No 136
>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=32.68 E-value=46 Score=37.49 Aligned_cols=34 Identities=26% Similarity=0.545 Sum_probs=24.5
Q ss_pred hHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000955 521 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 521 kl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
|++-|++|| -+++|++|+|+-||--.|+..|-++
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 455566666 3899999999999999999999776
No 137
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=32.42 E-value=21 Score=34.67 Aligned_cols=54 Identities=26% Similarity=0.615 Sum_probs=0.0
Q ss_pred ccchhhc-cccccccCCCCCCCCCCCCcccccCCCCCCCCCcccccccccccchHHHHHHHHHhhccCCceecCCcc
Q 000955 83 CKNCEYK-QHQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHK 158 (1210)
Q Consensus 83 CpnCe~g-QHqCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPlH~ 158 (1210)
|.-|... ...|-.|+..|+. -.++.+. |+..||..||.+++.. ...+. +||.++
T Consensus 24 CgICr~~fdg~Cp~Ck~Pgd~-----Cplv~g~---C~H~FH~hCI~kWl~~-------------~~~~~-~CPmCR 78 (85)
T PF12861_consen 24 CGICRMPFDGCCPDCKFPGDD-----CPLVWGK---CSHNFHMHCILKWLST-------------QSSKG-QCPMCR 78 (85)
T ss_pred eeeEecccccCCCCccCCCCC-----Cceeecc---CccHHHHHHHHHHHcc-------------ccCCC-CCCCcC
No 138
>PTZ00146 fibrillarin; Provisional
Probab=31.79 E-value=35 Score=39.29 Aligned_cols=28 Identities=4% Similarity=0.084 Sum_probs=24.5
Q ss_pred cccCCCcEEeccCCcchHHHHHHHHHHh
Q 000955 532 YVNDGDMIVDFCCGANDFSCLMKKKLDE 559 (1210)
Q Consensus 532 yv~~gd~ivdfccg~n~fs~lmk~kl~~ 559 (1210)
++++|++|||+|||.-.|+..|-+.+..
T Consensus 129 ~IkpG~~VLDLGaG~G~~t~~lAdiVG~ 156 (293)
T PTZ00146 129 PIKPGSKVLYLGAASGTTVSHVSDLVGP 156 (293)
T ss_pred ccCCCCEEEEeCCcCCHHHHHHHHHhCC
Confidence 5899999999999999999999775533
No 139
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=31.38 E-value=15 Score=45.61 Aligned_cols=48 Identities=21% Similarity=0.364 Sum_probs=34.8
Q ss_pred ccccchhhccccccccCCCCCCCCCCCCcccccCCCCCCCCCcccccccc
Q 000955 81 FFCKNCEYKQHQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKL 130 (1210)
Q Consensus 81 W~CpnCe~gQHqCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l 130 (1210)
--|.-|..+-..|.+|....-.--+......+|. .|+..||..|+...
T Consensus 502 ~~C~lC~~~gfiCe~Cq~~~iiyPF~~~~~~rC~--~C~avfH~~C~~r~ 549 (580)
T KOG1829|consen 502 KECDLCTGKGFICELCQHNDIIYPFETRNTRRCS--TCLAVFHKKCLRRK 549 (580)
T ss_pred hhchhhccCeeeeeeccCCCcccccccccceeHH--HHHHHHHHHHHhcc
Confidence 4499998888899999443322111134678998 99999999999853
No 140
>PTZ00415 transmission-blocking target antigen s230; Provisional
Probab=31.36 E-value=23 Score=48.57 Aligned_cols=35 Identities=20% Similarity=0.406 Sum_probs=25.3
Q ss_pred cCCCCCccCCCCccCCC---CCccccccCCCCCCCCCc
Q 000955 841 EGHSSKSIDMPSHVGSG---DNDCQHFSNKGMPLSSPT 875 (1210)
Q Consensus 841 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~ 875 (1210)
-+|++--+.+|.-|.-- .-.|.++..|-..+.||+
T Consensus 1205 ~kh~s~YLeIP~vv~kd~tf~CiCv~~kkK~y~~~s~~ 1242 (2849)
T PTZ00415 1205 HKHQFNYLEIPALMDKDISFKCICVDLKKKDYALKSPL 1242 (2849)
T ss_pred ccCcceEEEcchhhCCCccEEEEEcccccccccccCCC
Confidence 46778777788655432 235889988889999886
No 141
>cd02440 AdoMet_MTases S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy). There are at least five structurally distinct families of AdoMet-MTases, class I being the largest and most diverse. Within this class enzymes can be classified by different substrate specificities (small molecules, lipids, nucleic acids, etc.) and different target atoms for methylation (nitrogen, oxygen, carbon, sulfur, etc.).
Probab=31.33 E-value=53 Score=27.85 Aligned_cols=89 Identities=17% Similarity=0.346 Sum_probs=44.5
Q ss_pred cEEeccCCcchHHHHHHHHHHhhCCccccccccc-------cC------CCCCccccccccccccCCCCCCCCeeeeeeC
Q 000955 538 MIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDI-------LP------AKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 604 (1210)
Q Consensus 538 ~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl-------~~------~kn~f~Fe~~dw~~v~~~elp~G~~LimgLn 604 (1210)
+|+|+.||...++..|-+ ... +.+--.|+ .+ ......|...|+...... .+.+=.+|+- |
T Consensus 1 ~ildig~G~G~~~~~~~~---~~~--~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~d~i~~-~ 73 (107)
T cd02440 1 RVLDLGCGTGALALALAS---GPG--ARVTGVDISPVALELARKAAAALLADNVEVLKGDAEELPPE-ADESFDVIIS-D 73 (107)
T ss_pred CeEEEcCCccHHHHHHhc---CCC--CEEEEEeCCHHHHHHHHHHHhcccccceEEEEcChhhhccc-cCCceEEEEE-c
Confidence 589999999988887754 111 11111111 11 112344555555554431 1222234544 7
Q ss_pred CCccchhhhHHHHHHhhhc-cCCcEEEEec
Q 000955 605 PPFGVKAGLANKFINKALE-FNPKLLILIV 633 (1210)
Q Consensus 605 PPfg~~a~lAnkFi~kal~-F~PkliilI~ 633 (1210)
+||..-......++..++. .+|.=++++.
T Consensus 74 ~~~~~~~~~~~~~l~~~~~~l~~~g~~~~~ 103 (107)
T cd02440 74 PPLHHLVEDLARFLEEARRLLKPGGVLVLT 103 (107)
T ss_pred cceeehhhHHHHHHHHHHHHcCCCCEEEEE
Confidence 8877623345555555443 3565555544
No 142
>PRK14902 16S rRNA methyltransferase B; Provisional
Probab=29.15 E-value=72 Score=37.82 Aligned_cols=25 Identities=20% Similarity=0.420 Sum_probs=21.8
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 000955 533 VNDGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 533 v~~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
+++|++|+|+|||.-.++..|-+++
T Consensus 248 ~~~g~~VLDlgaG~G~~t~~la~~~ 272 (444)
T PRK14902 248 PKGGDTVLDACAAPGGKTTHIAELL 272 (444)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHHh
Confidence 4789999999999999998887654
No 143
>PLN02271 serine hydroxymethyltransferase
Probab=28.18 E-value=34 Score=42.72 Aligned_cols=17 Identities=53% Similarity=0.868 Sum_probs=12.9
Q ss_pred CCCCCCCeeeeeeCCCcc
Q 000955 591 KELAPGSRLIMGLNPPFG 608 (1210)
Q Consensus 591 ~elp~G~~LimgLnPPfg 608 (1210)
-=|.+|+ -||||+.++|
T Consensus 233 ALl~PGD-~IL~ldl~~G 249 (586)
T PLN02271 233 GLLLPGD-RIMGLDSPSG 249 (586)
T ss_pred HhcCCCC-EEEEecCCCC
Confidence 4467787 5788888887
No 144
>PRK10458 DNA cytosine methylase; Provisional
Probab=27.89 E-value=2.4e+02 Score=34.54 Aligned_cols=121 Identities=21% Similarity=0.395 Sum_probs=68.4
Q ss_pred cEEeccCCcchHHHHHHHHHHhhCCcccc-------------ccccccCCCCCccccccccccccC--------------
Q 000955 538 MIVDFCCGANDFSCLMKKKLDETGKNCLY-------------KNYDILPAKNDFNFEKRDWMTVEP-------------- 590 (1210)
Q Consensus 538 ~ivdfccg~n~fs~lmk~kl~~~gk~c~~-------------kn~dl~~~kn~f~Fe~~dw~~v~~-------------- 590 (1210)
++|||+||.--|+.=++ ..|..|.| .||--.+....| ..|=-+|..
T Consensus 90 ~~iDLFsGiGGl~lGfe----~aG~~~v~a~Eid~~A~~TY~~N~~~~p~~~~~---~~DI~~i~~~~~~~~~~~~~~~~ 162 (467)
T PRK10458 90 RFIDLFAGIGGIRRGFE----AIGGQCVFTSEWNKHAVRTYKANWYCDPATHRF---NEDIRDITLSHKEGVSDEEAAEH 162 (467)
T ss_pred eEEEeCcCccHHHHHHH----HcCCEEEEEEechHHHHHHHHHHcCCCCcccee---ccChhhCccccccccchhhhhhh
Confidence 69999999999998775 45777754 233100100111 122223332
Q ss_pred --CCCCCCCeeeeeeCC--Cccch-------------------hhhHHHHHHhhhccCCcEEEEecCCcccccccc----
Q 000955 591 --KELAPGSRLIMGLNP--PFGVK-------------------AGLANKFINKALEFNPKLLILIVPPETERLDRK---- 643 (1210)
Q Consensus 591 --~elp~G~~LimgLnP--Pfg~~-------------------a~lAnkFi~kal~F~PkliilI~P~~t~rld~k---- 643 (1210)
.++|.=+-|+.| =| ||-+. +.|.-.|+.-+-.++||++||===+.....|..
T Consensus 163 ~~~~~p~~DvL~gG-pPCQ~FS~AG~~k~~~~gr~~g~~~d~rg~Lf~~~~rii~~~kPk~fvlENV~gl~s~~~g~~f~ 241 (467)
T PRK10458 163 IRQHIPDHDVLLAG-FPCQPFSLAGVSKKNSLGRAHGFECETQGTLFFDVARIIDAKRPAIFVLENVKNLKSHDKGKTFR 241 (467)
T ss_pred hhccCCCCCEEEEc-CCCCccchhcccccccccccccccCCccccHHHHHHHHHHHhCCCEEEEeCcHhhhcccccHHHH
Confidence 245555655555 45 67532 336677777777899999887432222222221
Q ss_pred -------CCCceeeec------cccccCCcceecCCC
Q 000955 644 -------ESAYELVWE------DDQFLSGKSFYLPGS 667 (1210)
Q Consensus 644 -------~~~Y~liwe------d~~~l~gksFYlPGs 667 (1210)
.-+|.+.|- +-.+|.+.-| +|=.
T Consensus 242 ~i~~~L~~lGY~v~~~~~~g~~~~~vlna~~f-VPQ~ 277 (467)
T PRK10458 242 IIMQTLDELGYDVADAEDNGPDDPKIIDGKHF-LPQH 277 (467)
T ss_pred HHHHHHHHcCCeEEeccccCcccceEeehhhC-CCcc
Confidence 358998763 3456666655 7754
No 145
>PRK00377 cbiT cobalt-precorrin-6Y C(15)-methyltransferase; Provisional
Probab=27.67 E-value=82 Score=32.99 Aligned_cols=39 Identities=28% Similarity=0.454 Sum_probs=30.1
Q ss_pred cchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 000955 516 FTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 516 FTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
+|+.|.-.-++.+|. +.+|++|+|++||.-.|+..+-+.
T Consensus 23 ~t~~~~r~~~l~~l~--~~~~~~vlDlG~GtG~~s~~~a~~ 61 (198)
T PRK00377 23 MTKEEIRALALSKLR--LRKGDMILDIGCGTGSVTVEASLL 61 (198)
T ss_pred CCHHHHHHHHHHHcC--CCCcCEEEEeCCcCCHHHHHHHHH
Confidence 777776444456764 679999999999999999877543
No 146
>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=27.56 E-value=9.4 Score=31.20 Aligned_cols=33 Identities=30% Similarity=0.725 Sum_probs=21.3
Q ss_pred cccccCCCCCCCCCCCCcccccCCCCCCCCCccccccccc
Q 000955 92 QCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLL 131 (1210)
Q Consensus 92 qCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l~ 131 (1210)
.|.||...-. .+..++.. .|+..||..|+..|.
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 4667755321 12234433 599999999999875
No 147
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=27.52 E-value=31 Score=37.76 Aligned_cols=45 Identities=20% Similarity=0.158 Sum_probs=26.5
Q ss_pred cccccccccccccccccCcccccccCCCCeeccccccCCccccccc
Q 000955 13 MVHDTEEDESNEEDELFDSVCSFCDNGGDLLCCEGRCLRSFHATID 58 (1210)
Q Consensus 13 ~~~e~~Ee~sdeddDlnDdVCaIC~dGGELLCCDGsC~RSFH~~C~ 58 (1210)
|..|++|+|...-+...+..|.||.+.-.-..-. .|.-.|+..|+
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~CpICld~~~dPVvT-~CGH~FC~~CI 45 (193)
T PLN03208 1 MEIEKDEDDTTLVDSGGDFDCNICLDQVRDPVVT-LCGHLFCWPCI 45 (193)
T ss_pred CCcccccccceeccCCCccCCccCCCcCCCcEEc-CCCchhHHHHH
Confidence 3445555555555555677899998854322222 47767766653
No 148
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=27.38 E-value=54 Score=37.01 Aligned_cols=65 Identities=17% Similarity=0.163 Sum_probs=37.7
Q ss_pred cEEeccCCcchHHHHHHHHHHh---hCCccc-------cccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCCc
Q 000955 538 MIVDFCCGANDFSCLMKKKLDE---TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPF 607 (1210)
Q Consensus 538 ~ivdfccg~n~fs~lmk~kl~~---~gk~c~-------~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPf 607 (1210)
+|+|+|||+---.--+..+.-. ++-+++ =+|-....- .++.|...||+.--.+ .=.||+- ||||
T Consensus 113 ~ilDlGTGSG~iai~la~~~~~~~V~a~Dis~~Al~~A~~Na~~~~l-~~~~~~~~dlf~~~~~----~fDlIVs-NPPY 186 (280)
T COG2890 113 RILDLGTGSGAIAIALAKEGPDAEVIAVDISPDALALARENAERNGL-VRVLVVQSDLFEPLRG----KFDLIVS-NPPY 186 (280)
T ss_pred cEEEecCChHHHHHHHHhhCcCCeEEEEECCHHHHHHHHHHHHHcCC-ccEEEEeeecccccCC----ceeEEEe-CCCC
Confidence 7999999999888777665532 222222 223333332 3355555588764333 2235555 9998
Q ss_pred c
Q 000955 608 G 608 (1210)
Q Consensus 608 g 608 (1210)
=
T Consensus 187 i 187 (280)
T COG2890 187 I 187 (280)
T ss_pred C
Confidence 5
No 149
>PRK04266 fibrillarin; Provisional
Probab=26.88 E-value=73 Score=34.94 Aligned_cols=36 Identities=11% Similarity=0.219 Sum_probs=27.0
Q ss_pred HHHHHHhh-cccccCCCcEEeccCCcchHHHHHHHHH
Q 000955 522 LQAIVDKL-HWYVNDGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 522 l~~i~~~L-h~yv~~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
...|+..+ .--+.+|++|+|++||..-|+..|.+..
T Consensus 58 ~~~ll~~~~~l~i~~g~~VlD~G~G~G~~~~~la~~v 94 (226)
T PRK04266 58 AAAILKGLKNFPIKKGSKVLYLGAASGTTVSHVSDIV 94 (226)
T ss_pred HHHHHhhHhhCCCCCCCEEEEEccCCCHHHHHHHHhc
Confidence 34444444 2357899999999999999999886644
No 150
>PRK04338 N(2),N(2)-dimethylguanosine tRNA methyltransferase; Provisional
Probab=26.59 E-value=40 Score=39.68 Aligned_cols=98 Identities=11% Similarity=0.080 Sum_probs=54.5
Q ss_pred CCcEEeccCCcchHHHHHHHHHH---hhCCccccccccccCC---CC---CccccccccccccCCCCCCCCeeeeeeCCC
Q 000955 536 GDMIVDFCCGANDFSCLMKKKLD---ETGKNCLYKNYDILPA---KN---DFNFEKRDWMTVEPKELAPGSRLIMGLNPP 606 (1210)
Q Consensus 536 gd~ivdfccg~n~fs~lmk~kl~---~~gk~c~~kn~dl~~~---kn---~f~Fe~~dw~~v~~~elp~G~~LimgLnPP 606 (1210)
+++|+|+.||+.-|+-.+-.... -++.+-+-...+++.. .| +..|...|.-.+-.+ .+..=++-||||
T Consensus 58 ~~~vLDl~aGsG~~~l~~a~~~~~~~V~a~Din~~Av~~a~~N~~~N~~~~~~v~~~Da~~~l~~---~~~fD~V~lDP~ 134 (382)
T PRK04338 58 RESVLDALSASGIRGIRYALETGVEKVTLNDINPDAVELIKKNLELNGLENEKVFNKDANALLHE---ERKFDVVDIDPF 134 (382)
T ss_pred CCEEEECCCcccHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCceEEEhhhHHHHHhh---cCCCCEEEECCC
Confidence 57899999999999988854332 1222222222222220 01 112444443221110 122234445986
Q ss_pred ccchhhhHHHHHHhh-hccCCcEEEEecCCcccccc
Q 000955 607 FGVKAGLANKFINKA-LEFNPKLLILIVPPETERLD 641 (1210)
Q Consensus 607 fg~~a~lAnkFi~ka-l~F~PkliilI~P~~t~rld 641 (1210)
| ++..|++.| ...+|+=||-|.=.++..|=
T Consensus 135 -G----s~~~~l~~al~~~~~~gilyvSAtD~~~L~ 165 (382)
T PRK04338 135 -G----SPAPFLDSAIRSVKRGGLLCVTATDTAPLC 165 (382)
T ss_pred -C----CcHHHHHHHHHHhcCCCEEEEEecCchhhc
Confidence 7 567899995 45688888988866666653
No 151
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=26.34 E-value=21 Score=41.59 Aligned_cols=64 Identities=22% Similarity=0.433 Sum_probs=34.2
Q ss_pred CcccccccC----CCCeeccccccCCccccccccCcccccccCCCChhhhhccccccccchhhccccccccCCCCCCCCC
Q 000955 30 DSVCSFCDN----GGDLLCCEGRCLRSFHATIDAGEESHCASLGLTKDEVEAMLNFFCKNCEYKQHQCFACGKLGSSDKE 105 (1210)
Q Consensus 30 DdVCaIC~d----GGELLCCDGsC~RSFH~~C~dGeeS~ClsLGLTe~evqp~~sW~CpnCe~gQHqCFVCGqlGSSDK~ 105 (1210)
-.+|.-|+- .|.||-|+ |..|++ |..+ ...-+|+.|..+...=..|.
T Consensus 90 VHfCd~Cd~PI~IYGRmIPCk-------HvFCl~-----CAr~---------~~dK~Cp~C~d~VqrIeq~~-------- 140 (389)
T KOG2932|consen 90 VHFCDRCDFPIAIYGRMIPCK-------HVFCLE-----CARS---------DSDKICPLCDDRVQRIEQIM-------- 140 (389)
T ss_pred eEeecccCCcceeeecccccc-------hhhhhh-----hhhc---------CccccCcCcccHHHHHHHhc--------
Confidence 457888887 47788666 444333 4111 12346777754432222232
Q ss_pred CCCcccccCCCC-CCCCCc
Q 000955 106 TGAEVFPCVSAT-CGHFYH 123 (1210)
Q Consensus 106 SGaELfkCsVas-CGKFYH 123 (1210)
.+.+|.|.... |.|.|.
T Consensus 141 -~g~iFmC~~~~GC~RTyL 158 (389)
T KOG2932|consen 141 -MGGIFMCAAPHGCLRTYL 158 (389)
T ss_pred -ccceEEeecchhHHHHHh
Confidence 23589997444 665554
No 152
>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=26.33 E-value=30 Score=33.62 Aligned_cols=14 Identities=57% Similarity=1.018 Sum_probs=12.7
Q ss_pred CCCCHHHHhhhcCh
Q 000955 470 DGSSIEDAKAVCEP 483 (1210)
Q Consensus 470 ~g~siedAkAvc~p 483 (1210)
.|||++||||+|+.
T Consensus 42 kGCsidD~k~iC~~ 55 (92)
T PF05413_consen 42 KGCSIDDLKAICEK 55 (92)
T ss_pred CCCCHHHHHHHHhh
Confidence 79999999999973
No 153
>KOG4217 consensus Nuclear receptors of the nerve growth factor-induced protein B type [Transcription]
Probab=26.18 E-value=20 Score=43.62 Aligned_cols=26 Identities=31% Similarity=0.875 Sum_probs=19.7
Q ss_pred CcccccccCCC-----CeeccccccCCccccc
Q 000955 30 DSVCSFCDNGG-----DLLCCEGRCLRSFHAT 56 (1210)
Q Consensus 30 DdVCaIC~dGG-----ELLCCDGsC~RSFH~~ 56 (1210)
+..|++|++.. -.-.|+| |...|--+
T Consensus 269 e~~CAVCgDnAaCqHYGvRTCEG-CKGFFKRT 299 (605)
T KOG4217|consen 269 EGLCAVCGDNAACQHYGVRTCEG-CKGFFKRT 299 (605)
T ss_pred cceeeecCChHHhhhcCcccccc-chHHHHHH
Confidence 78999999853 2568996 88777655
No 154
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=25.95 E-value=26 Score=41.33 Aligned_cols=26 Identities=38% Similarity=0.910 Sum_probs=20.5
Q ss_pred CcccccccCC--C---CeeccccccCCccccc
Q 000955 30 DSVCSFCDNG--G---DLLCCEGRCLRSFHAT 56 (1210)
Q Consensus 30 DdVCaIC~dG--G---ELLCCDGsC~RSFH~~ 56 (1210)
+..|.+|++. | -||.|+ +|...|--+
T Consensus 15 ~ElCPVCGDkVSGYHYGLLTCE-SCKGFFKRT 45 (475)
T KOG4218|consen 15 GELCPVCGDKVSGYHYGLLTCE-SCKGFFKRT 45 (475)
T ss_pred ccccccccCccccceeeeeehh-hhhhHHHHH
Confidence 4689999983 3 599999 799888544
No 155
>PRK06202 hypothetical protein; Provisional
Probab=25.95 E-value=65 Score=34.33 Aligned_cols=38 Identities=16% Similarity=0.237 Sum_probs=26.9
Q ss_pred cCCCcEEeccCCcchHHHHHHHHHHhhCCccccccccc
Q 000955 534 NDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDI 571 (1210)
Q Consensus 534 ~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~kn~dl 571 (1210)
..+.+|+|+.||.-+++..|.+.+.+.|....+--.|+
T Consensus 59 ~~~~~iLDlGcG~G~~~~~L~~~~~~~g~~~~v~gvD~ 96 (232)
T PRK06202 59 DRPLTLLDIGCGGGDLAIDLARWARRDGLRLEVTAIDP 96 (232)
T ss_pred CCCcEEEEeccCCCHHHHHHHHHHHhCCCCcEEEEEcC
Confidence 57789999999999999888765554444444444443
No 156
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=25.71 E-value=1.4e+02 Score=33.26 Aligned_cols=100 Identities=16% Similarity=0.195 Sum_probs=57.4
Q ss_pred HHHHHHHHHHhhhcccchHHHHHhhccCCccccccccchhhhhhhcccchhHHHHHHHHHHhcccCCCCHHHHhhhcChh
Q 000955 405 DSKRRLSSLMKDAASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPE 484 (1210)
Q Consensus 405 ~~erR~l~l~~~~~ss~t~~~v~k~~~~~st~~~~~~~~~~k~it~Gkve~sV~Avr~AL~kLe~~g~siedAkAvc~p~ 484 (1210)
+..++|++++++.. .++..|+.+.+.+ |...||.-|+.||.+|. +.-
T Consensus 5 eR~~~Il~~L~~~~-~v~v~eLa~~l~V-----------------------S~~TIRRDL~~Le~~g~-l~r-------- 51 (256)
T PRK10434 5 QRQAAILEYLQKQG-KTSVEELAQYFDT-----------------------TGTTIRKDLVILEHAGT-VIR-------- 51 (256)
T ss_pred HHHHHHHHHHHHcC-CEEHHHHHHHHCC-----------------------CHHHHHHHHHHHHHCCC-EEE--------
Confidence 55666888888754 6999999888776 45566777788874542 110
Q ss_pred HHhHHHHHhhhcccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchH
Q 000955 485 VLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDF 549 (1210)
Q Consensus 485 vL~Ql~~wk~kL~vylaP~l~G~rytS~grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg~n~f 549 (1210)
.+-.. + +.+.. .. +.-.-|.-...+..++|+++-.=||++||+|. |-.|+--+
T Consensus 52 -------~~Gga-~-~~~~~-~~-~~~~~r~~~~~~~K~~IA~~Aa~~I~~g~tIf-ld~GtT~~ 104 (256)
T PRK10434 52 -------TYGGV-V-LNKEE-SD-PPIDHKTLINTHKKELIAEAAVSLIHDGDSII-LDAGSTVL 104 (256)
T ss_pred -------EECCE-E-cCCCC-CC-CCHHHHHHhhHHHHHHHHHHHHhhCCCCCEEE-EcCcHHHH
Confidence 00000 0 00000 00 00011222345667889999999999999974 22454443
No 157
>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=25.34 E-value=73 Score=33.78 Aligned_cols=47 Identities=28% Similarity=0.424 Sum_probs=26.9
Q ss_pred CCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhcc-CC-cEEEEecCCccc
Q 000955 590 PKELAPGSRLIMGLNPPFGVKAGLANKFINKALEF-NP-KLLILIVPPETE 638 (1210)
Q Consensus 590 ~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F-~P-kliilI~P~~t~ 638 (1210)
|.+| +|+..+|-.+||| +.-.++.|+..-+--- +| --||++.+.+.+
T Consensus 80 ~~~l-~~~~d~vv~DPPF-l~~ec~~k~a~ti~~L~k~~~kii~~Tg~~~~ 128 (162)
T PF10237_consen 80 PEEL-KGKFDVVVIDPPF-LSEECLTKTAETIRLLLKPGGKIILCTGEEME 128 (162)
T ss_pred hhhc-CCCceEEEECCCC-CCHHHHHHHHHHHHHHhCccceEEEecHHHHH
Confidence 3445 7899999999999 5445555543322111 22 234566665543
No 158
>KOG2187 consensus tRNA uracil-5-methyltransferase and related tRNA-modifying enzymes [Translation, ribosomal structure and biogenesis]
Probab=24.77 E-value=1.1e+02 Score=38.18 Aligned_cols=123 Identities=20% Similarity=0.398 Sum_probs=73.3
Q ss_pred ccccccccccc-ccCcccchh----hhHHHHHHhhcccccCC-CcEEeccCCcchHHHHHHHHHH-------------hh
Q 000955 500 LAPFLHGMRYT-SFGRHFTKV----DKLQAIVDKLHWYVNDG-DMIVDFCCGANDFSCLMKKKLD-------------ET 560 (1210)
Q Consensus 500 laP~l~G~ryt-S~grhFTk~----ekl~~i~~~Lh~yv~~g-d~ivdfccg~n~fs~lmk~kl~-------------~~ 560 (1210)
+-=-|.|-|++ |=|-+|-.- |+|-.+|.- |--.++ .++||.|||..-|+--+.++-. ..
T Consensus 344 I~E~l~~ltF~iSp~AFFQ~Nt~~aevLys~i~e--~~~l~~~k~llDv~CGTG~iglala~~~~~ViGvEi~~~aV~dA 421 (534)
T KOG2187|consen 344 ITESLLGLTFRISPGAFFQTNTSAAEVLYSTIGE--WAGLPADKTLLDVCCGTGTIGLALARGVKRVIGVEISPDAVEDA 421 (534)
T ss_pred EEeecCCeEEEECCchhhccCcHHHHHHHHHHHH--HhCCCCCcEEEEEeecCCceehhhhccccceeeeecChhhcchh
Confidence 33334454444 667777543 333333332 433444 4589999999999866544321 11
Q ss_pred CCc---cccccccccCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccC-CcEEEEec
Q 000955 561 GKN---CLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFN-PKLLILIV 633 (1210)
Q Consensus 561 gk~---c~~kn~dl~~~kn~f~Fe~~dw~~v~~~elp~G~~LimgLnPPfg~~a~lAnkFi~kal~F~-PkliilI~ 633 (1210)
.+. =.--|=++|+.+.- |-|+.--+-...+.+|||-++||= +-|=-|||.-.+.++ |+.||.|+
T Consensus 422 ~~nA~~NgisNa~Fi~gqaE------~~~~sl~~~~~~~~~~v~iiDPpR---~Glh~~~ik~l~~~~~~~rlvyvS 489 (534)
T KOG2187|consen 422 EKNAQINGISNATFIVGQAE------DLFPSLLTPCCDSETLVAIIDPPR---KGLHMKVIKALRAYKNPRRLVYVS 489 (534)
T ss_pred hhcchhcCccceeeeecchh------hccchhcccCCCCCceEEEECCCc---ccccHHHHHHHHhccCccceEEEE
Confidence 111 12346666664221 222222332234666999999995 779999999999999 99998886
No 159
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=24.41 E-value=43 Score=36.21 Aligned_cols=40 Identities=23% Similarity=0.593 Sum_probs=27.5
Q ss_pred ecCCc-----cccccCCCccCC-CCCCceeeccccCcccccccCCC
Q 000955 153 TCPLH-----KCCICKQGENKA-DSDLQFAVCRRCPKAYHRKCLPR 192 (1210)
Q Consensus 153 rCPlH-----~C~vCkkseDkn-~~egqLIrCdRCPKAYH~kCLPP 192 (1210)
.|++| .|..|...+--- ......++|..|.+.||..|...
T Consensus 144 ~C~lC~~kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 144 SCELCQQKGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK 189 (202)
T ss_pred HhHHHHhCCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC
Confidence 46655 388887663210 11125789999999999999875
No 160
>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=24.41 E-value=17 Score=33.43 Aligned_cols=15 Identities=53% Similarity=1.333 Sum_probs=13.9
Q ss_pred CCCCCCccccccccc
Q 000955 117 TCGHFYHPHCVSKLL 131 (1210)
Q Consensus 117 sCGKFYHpkCLa~l~ 131 (1210)
.|+..||..||..++
T Consensus 49 ~C~H~FH~~Ci~~Wl 63 (73)
T PF12678_consen 49 PCGHIFHFHCISQWL 63 (73)
T ss_dssp TTSEEEEHHHHHHHH
T ss_pred ccCCCEEHHHHHHHH
Confidence 699999999999886
No 161
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=23.98 E-value=1.3e+02 Score=28.63 Aligned_cols=45 Identities=22% Similarity=0.396 Sum_probs=32.3
Q ss_pred HHHHHHHHHHhh---hcccchHHHHHhhccCCccccccccchhhhhhhcccchhHHHHHHHHHHhcccCCC
Q 000955 405 DSKRRLSSLMKD---AASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGS 472 (1210)
Q Consensus 405 ~~erR~l~l~~~---~~ss~t~~~v~k~~~~~st~~~~~~~~~~k~it~Gkve~sV~Avr~AL~kLe~~g~ 472 (1210)
...++||.++++ ...-+.+++|.+++.+ +.+.||.||+.|..+|.
T Consensus 47 ~~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~~-----------------------~~~~v~~al~~L~~eG~ 94 (102)
T PF08784_consen 47 PLQDKVLNFIKQQPNSEEGVHVDEIAQQLGM-----------------------SENEVRKALDFLSNEGH 94 (102)
T ss_dssp HHHHHHHHHHHC----TTTEEHHHHHHHSTS------------------------HHHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHHhcCCCCCcccHHHHHHHhCc-----------------------CHHHHHHHHHHHHhCCe
Confidence 567899999998 3345788888877644 45677888998865774
No 162
>KOG1169 consensus Diacylglycerol kinase [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=23.69 E-value=25 Score=44.15 Aligned_cols=143 Identities=22% Similarity=0.376 Sum_probs=77.3
Q ss_pred CcccccccCCC--CeeccccccCCccccccccCccccccc---CCCChhhhh--------cc---ccccccchhhccccc
Q 000955 30 DSVCSFCDNGG--DLLCCEGRCLRSFHATIDAGEESHCAS---LGLTKDEVE--------AM---LNFFCKNCEYKQHQC 93 (1210)
Q Consensus 30 DdVCaIC~dGG--ELLCCDGsC~RSFH~~C~dGeeS~Cls---LGLTe~evq--------p~---~sW~CpnCe~gQHqC 93 (1210)
..+|.+|...- ..+-|+ .|.-.+|+.|..+..+.|.. +++.....+ +. ..-+|..|. ..|
T Consensus 44 ~~~~~~~~~~~~~~~~~~~-~~g~~~~~~~~~~~~s~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~c~~c~---~~c 119 (634)
T KOG1169|consen 44 QMVCCVCLWSEMAPSVDCD-VDGGVSHEECVSGAASDCPLLVLLGFENQRHKTDGDHVWRPKHLWKPAYCFVCP---KSC 119 (634)
T ss_pred hhhhhhhhhccccccccee-ccccchhhhhhcccccchHHHHHHHhhhhhhhccCceeccCCCCCCCceEEecc---ccc
Confidence 33899998732 367898 69999999997765554421 121110000 11 123344332 356
Q ss_pred cccCCCCCCCCCCCCcccccCCCCCCCCCcccccccccccchHHHHHHHHHhhccCCceecCCc---------cccccCC
Q 000955 94 FACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLH---------KCCICKQ 164 (1210)
Q Consensus 94 FVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPlH---------~C~vCkk 164 (1210)
.+|+..+ ...+.|. .|++--|..|+...... ..... . ....+.-.|+.+ .|..|..
T Consensus 120 ~~~~~~~-------~~g~~C~--~C~~~vh~~C~~~~~~~-~~~~~-~----~~~~r~~v~~~~~~~~~~~~~~~~~~~~ 184 (634)
T KOG1169|consen 120 GSCGVGI-------KQGLCCD--WCGRTVHERCVRRADPE-CQCKC-D----LGRLRKIVLDHPWVKGNAGEAKCDQCLK 184 (634)
T ss_pred cchhhcc-------cCceeec--cccchHHHHHHhhcCcc-ccccc-c----cccccceeecCcccccccCCccchhhhc
Confidence 5665543 2468999 99999999999876421 00000 0 001112222211 1444443
Q ss_pred CccCCCCCCceeeccccCcccccccCCC
Q 000955 165 GENKADSDLQFAVCRRCPKAYHRKCLPR 192 (1210)
Q Consensus 165 seDkn~~egqLIrCdRCPKAYH~kCLPP 192 (1210)
.-.. ....+...|..|-..+|..|...
T Consensus 185 ~~~~-~~~~~~~~c~~~~~~~h~~~~~~ 211 (634)
T KOG1169|consen 185 SVKA-DQGLTGPRCGWCQIRVHDKCKSE 211 (634)
T ss_pred cccc-cccccccccceeeeeeecchHHH
Confidence 3211 12234668999999999999764
No 163
>KOG0828 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=23.52 E-value=17 Score=44.41 Aligned_cols=29 Identities=24% Similarity=0.811 Sum_probs=23.0
Q ss_pred CCCCCCcccccccccccchHHHHHHHHHhhccCCceecCCccccc
Q 000955 117 TCGHFYHPHCVSKLLLRDDEVAADQLAKSIIAGESFTCPLHKCCI 161 (1210)
Q Consensus 117 sCGKFYHpkCLa~l~~pvde~~AteLekkIaaGksFrCPlH~C~v 161 (1210)
.|.+.||..|+..|.. +.+..||.|+|+.
T Consensus 605 PC~HifH~~CL~~WMd----------------~ykl~CPvCR~pL 633 (636)
T KOG0828|consen 605 PCHHIFHRQCLLQWMD----------------TYKLICPVCRCPL 633 (636)
T ss_pred chHHHHHHHHHHHHHh----------------hhcccCCccCCCC
Confidence 7999999999998752 2357899888863
No 164
>PF14881 Tubulin_3: Tubulin domain
Probab=23.40 E-value=63 Score=34.55 Aligned_cols=67 Identities=24% Similarity=0.499 Sum_probs=44.5
Q ss_pred HHhhhcccccccc----ccc-------ccccccC---cccchhhhHHHHHHh-hcccccCCCc------EEeccCCcchH
Q 000955 491 KWKNKLKVYLAPF----LHG-------MRYTSFG---RHFTKVDKLQAIVDK-LHWYVNDGDM------IVDFCCGANDF 549 (1210)
Q Consensus 491 ~wk~kL~vylaP~----l~G-------~rytS~g---rhFTk~ekl~~i~~~-Lh~yv~~gd~------ivdfccg~n~f 549 (1210)
-|-|.+||++-|= |.+ +++..|| ..|...++..++.|+ ||+||+.=|. ++|..-|---|
T Consensus 11 yWSDy~r~~yhPrSl~~l~~~~~~~~~~~Fd~f~~G~~~f~~~~~~~d~~D~~lR~f~EECD~lQGfQ~~~d~d~gwgGf 90 (180)
T PF14881_consen 11 YWSDYNRVHYHPRSLNQLNDYEHNSPNMPFDTFGVGQELFKSLDYEEDFFDRDLRFFLEECDSLQGFQVLTDVDDGWGGF 90 (180)
T ss_pred ECCCCCcceeCCCceEEcCccccCCCCCCcccccchHHHHhhhhhhhHHHHHHHHHHHHHcccccceEEEecCCCchHhH
Confidence 4666777766661 222 1233333 468888888999997 9999999988 67877776666
Q ss_pred HHHHHHHH
Q 000955 550 SCLMKKKL 557 (1210)
Q Consensus 550 s~lmk~kl 557 (1210)
+-=|-+.|
T Consensus 91 as~~Le~L 98 (180)
T PF14881_consen 91 ASSLLEHL 98 (180)
T ss_pred HHHHHHHH
Confidence 55443433
No 165
>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=23.31 E-value=44 Score=40.59 Aligned_cols=43 Identities=28% Similarity=0.767 Sum_probs=33.4
Q ss_pred ccccccchhhccccccccCCCCCCCCCCCCcccccCCCCCCCCCcccccccc
Q 000955 79 LNFFCKNCEYKQHQCFACGKLGSSDKETGAEVFPCVSATCGHFYHPHCVSKL 130 (1210)
Q Consensus 79 ~sW~CpnCe~gQHqCFVCGqlGSSDK~SGaELfkCsVasCGKFYHpkCLa~l 130 (1210)
.+=+|..|. |.+|.+.... ..+.-++.|+ .|+.+-|..|--..
T Consensus 122 ~~gFC~~C~-----C~iC~kfD~~--~n~~~Wi~Cd--~CgH~cH~dCALr~ 164 (446)
T PF07227_consen 122 EPGFCRRCM-----CCICSKFDDN--KNTCSWIGCD--VCGHWCHLDCALRH 164 (446)
T ss_pred CCCccccCC-----ccccCCcccC--CCCeeEEecc--CCCceehhhhhccc
Confidence 356788884 9999887432 3456789999 89999999998654
No 166
>COG2264 PrmA Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]
Probab=23.16 E-value=1.1e+02 Score=35.65 Aligned_cols=61 Identities=28% Similarity=0.546 Sum_probs=47.8
Q ss_pred HHhhhccccccccccccccc-----------------------cc--CcccchhhhHHHHHHhhcccccCCCcEEeccCC
Q 000955 491 KWKNKLKVYLAPFLHGMRYT-----------------------SF--GRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCG 545 (1210)
Q Consensus 491 ~wk~kL~vylaP~l~G~ryt-----------------------S~--grhFTk~ekl~~i~~~Lh~yv~~gd~ivdfccg 545 (1210)
.|.+.-+=|+-|+.-|.|.+ .| |-|=|..-+|+.+=++ +++|.+|+||=||
T Consensus 97 DW~~~wk~~~~P~rig~~f~I~Psw~~~~~~~~~~~i~lDPGlAFGTG~HpTT~lcL~~Le~~----~~~g~~vlDvGcG 172 (300)
T COG2264 97 DWEREWKKYFHPVRIGERFVIVPSWREYPEPSDELNIELDPGLAFGTGTHPTTSLCLEALEKL----LKKGKTVLDVGCG 172 (300)
T ss_pred HHHHHHHhcCCcEEeeeeEEECCCCccCCCCCCceEEEEccccccCCCCChhHHHHHHHHHHh----hcCCCEEEEecCC
Confidence 46666666778999998766 24 5677888888776554 5599999999999
Q ss_pred cchHHHHHHH
Q 000955 546 ANDFSCLMKK 555 (1210)
Q Consensus 546 ~n~fs~lmk~ 555 (1210)
+-.++--+.+
T Consensus 173 SGILaIAa~k 182 (300)
T COG2264 173 SGILAIAAAK 182 (300)
T ss_pred hhHHHHHHHH
Confidence 9999998876
No 167
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=22.97 E-value=94 Score=35.93 Aligned_cols=14 Identities=29% Similarity=0.655 Sum_probs=10.0
Q ss_pred ceeeccccCccccc
Q 000955 174 QFAVCRRCPKAYHR 187 (1210)
Q Consensus 174 qLIrCdRCPKAYH~ 187 (1210)
+-..|.+|.++|=+
T Consensus 242 K~~qC~~C~KsFsl 255 (279)
T KOG2462|consen 242 KKHQCPRCGKSFAL 255 (279)
T ss_pred ccccCcchhhHHHH
Confidence 35678888888755
No 168
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=22.77 E-value=82 Score=34.81 Aligned_cols=24 Identities=38% Similarity=0.951 Sum_probs=21.0
Q ss_pred ccCCCcEEeccCCcchHHHHHHHH
Q 000955 533 VNDGDMIVDFCCGANDFSCLMKKK 556 (1210)
Q Consensus 533 v~~gd~ivdfccg~n~fs~lmk~k 556 (1210)
+.+|++|+|++||.-.|..++.++
T Consensus 71 ~~~~~~VLDlGcGtG~~~~~la~~ 94 (261)
T PLN02233 71 AKMGDRVLDLCCGSGDLAFLLSEK 94 (261)
T ss_pred CCCCCEEEEECCcCCHHHHHHHHH
Confidence 578999999999999999887654
No 169
>KOG0990 consensus Replication factor C, subunit RFC5 [Replication, recombination and repair]
Probab=22.76 E-value=59 Score=38.47 Aligned_cols=40 Identities=25% Similarity=0.537 Sum_probs=31.7
Q ss_pred CCcccCcCcc--ccccchhhhhhcCCCCCCCCCCCCCCCCCCCC-CCCCCCCCc
Q 000955 1084 LGYRPSMSTD--RELTMWPLARIYGQDFPAPTPGYGQMGSVPSN-LYGNLGSSA 1134 (1210)
Q Consensus 1084 ~~~~~~~~~~--~~~~~~~~~~~yg~~~~~~~~~~~~m~s~~s~-~y~~~gs~~ 1134 (1210)
=||||.+.++ -..++|++++.| .-|++.|++ .||.+|.+.
T Consensus 33 ekyrP~~l~dv~~~~ei~st~~~~-----------~~~~~lPh~L~YgPPGtGk 75 (360)
T KOG0990|consen 33 EKYRPPFLGIVIKQEPIWSTENRY-----------SGMPGLPHLLFYGPPGTGK 75 (360)
T ss_pred cCCCCchhhhHhcCCchhhHHHHh-----------ccCCCCCcccccCCCCCCC
Confidence 3899999998 677899999887 556667764 588888876
No 170
>PRK14904 16S rRNA methyltransferase B; Provisional
Probab=22.56 E-value=64 Score=38.33 Aligned_cols=25 Identities=20% Similarity=0.478 Sum_probs=21.4
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 000955 533 VNDGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 533 v~~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
+++|++|+|+|||.-.++..|-+.+
T Consensus 248 ~~~g~~VLDlgaG~G~kt~~la~~~ 272 (445)
T PRK14904 248 PQPGSTVLDLCAAPGGKSTFMAELM 272 (445)
T ss_pred CCCCCEEEEECCCCCHHHHHHHHHh
Confidence 4789999999999999998886654
No 171
>PF13651 EcoRI_methylase: Adenine-specific methyltransferase EcoRI
Probab=22.45 E-value=77 Score=37.40 Aligned_cols=62 Identities=27% Similarity=0.530 Sum_probs=39.5
Q ss_pred eeeeCCCccchhhhHHHHHHhhhccCCcEEEE-----ecCCccccccccCCCceeeeccccccCCcceecCCCcc
Q 000955 600 IMGLNPPFGVKAGLANKFINKALEFNPKLLIL-----IVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVD 669 (1210)
Q Consensus 600 imgLnPPfg~~a~lAnkFi~kal~F~Pkliil-----I~P~~t~rld~k~~~Y~liwed~~~l~gksFYlPGsvd 669 (1210)
|+.-||||. |+..||....+-+=|+||| |+-+|.=-|=+. +-+|=--.+=....|.+|-...
T Consensus 138 IVVTNPPFS----LFrEyv~~Li~~~KkFlIIGN~NaiTYkeiFplik~----nk~WlG~~~~g~~~F~vP~~~~ 204 (336)
T PF13651_consen 138 IVVTNPPFS----LFREYVAQLIEYDKKFLIIGNINAITYKEIFPLIKE----NKIWLGYTFRGDMWFRVPDDYE 204 (336)
T ss_pred EEEeCCCcH----HHHHHHHHHHHhCCCEEEEeccccccHHHHHHHHhc----CcEEeccccCCceeeecCCCCc
Confidence 556699998 9999999999999899887 333322211000 2356555552234577886543
No 172
>PF03602 Cons_hypoth95: Conserved hypothetical protein 95; InterPro: IPR004398 This entry contains Ribosomal RNA small subunit methyltransferase D as well as the putative rRNA methyltransferase YlbH. They methylate the guanosine in position 966 of 16S rRNA in the assembled 30S particle [].; GO: 0008168 methyltransferase activity, 0031167 rRNA methylation; PDB: 3P9N_A 2ESR_B 2IFT_A 1WS6_A 2FPO_B 2FHP_A.
Probab=22.13 E-value=60 Score=34.49 Aligned_cols=31 Identities=19% Similarity=0.411 Sum_probs=20.9
Q ss_pred hhHH-HHHHhhcccccCCCcEEeccCCcchHH
Q 000955 520 DKLQ-AIVDKLHWYVNDGDMIVDFCCGANDFS 550 (1210)
Q Consensus 520 ekl~-~i~~~Lh~yv~~gd~ivdfccg~n~fs 550 (1210)
++++ .|.+-|..+...|-.|+|++||+-.+.
T Consensus 26 drvrealFniL~~~~~~g~~vLDLFaGSGalG 57 (183)
T PF03602_consen 26 DRVREALFNILQPRNLEGARVLDLFAGSGALG 57 (183)
T ss_dssp HHHHHHHHHHHHCH-HTT-EEEETT-TTSHHH
T ss_pred HHHHHHHHHHhcccccCCCeEEEcCCccCccH
Confidence 4443 456777777567889999999998876
No 173
>PRK14901 16S rRNA methyltransferase B; Provisional
Probab=22.02 E-value=63 Score=38.25 Aligned_cols=25 Identities=16% Similarity=0.407 Sum_probs=21.5
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 000955 533 VNDGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 533 v~~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
+++|++|+|+|||...++..|-+++
T Consensus 250 ~~~g~~VLDl~ag~G~kt~~la~~~ 274 (434)
T PRK14901 250 PQPGEVILDACAAPGGKTTHIAELM 274 (434)
T ss_pred CCCcCEEEEeCCCCchhHHHHHHHh
Confidence 5789999999999999998886643
No 174
>COG3028 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.67 E-value=74 Score=34.71 Aligned_cols=33 Identities=33% Similarity=0.511 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhcccCCCCHHHHhhhcChhHHhHHHHHhhhc
Q 000955 456 SVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKL 496 (1210)
Q Consensus 456 sV~Avr~AL~kLe~~g~siedAkAvc~p~vL~Ql~~wk~kL 496 (1210)
-|+++|+||.+|+ +-++.+-| -|..|.+|.+.|
T Consensus 94 DvepI~~~Ldkl~-~~~~q~~a-------~lHklE~~RdrL 126 (187)
T COG3028 94 DVEPIRAALDKLR-NRHNQQVA-------LLHKLEQLRDRL 126 (187)
T ss_pred ChHHHHHHHHHHh-hhHHHHHH-------HHHHHHHHHHHH
Confidence 6899999999999 66555555 899999999877
No 175
>cd01425 RPS2 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of ribosomal protein S1 to the 30s ribosomal subunit. In humans, most likely in all vertebrates, and perhaps in all metazoans, the protein also functions as the 67 kDa laminin receptor (LAMR1 or 67LR), which is formed from a 37 kDa precursor, and is overexpressed in many tumors. 67LR is a cell surface receptor which interacts with a variety of ligands, laminin-1 and others. It is assumed that the ligand interactions are mediated via the conserved C-terminus, which becomes extracellular as the protein undergoes conformational changes which are not well understood. Specifically, a conserved palindromic motif, LMWWML, may participate in the interactions. 67LR plays essential roles in the adhesion of cells to the basement membrane an
Probab=21.47 E-value=3.4e+02 Score=29.16 Aligned_cols=73 Identities=22% Similarity=0.309 Sum_probs=45.1
Q ss_pred HHhhhcccccccccccccccccCcccchhhhHHHHHH----hhcccccCCCcEEeccCCcchHHHHHHHHHHhhCCcccc
Q 000955 491 KWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVD----KLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLY 566 (1210)
Q Consensus 491 ~wk~kL~vylaP~l~G~rytS~grhFTk~ekl~~i~~----~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl~~~gk~c~~ 566 (1210)
+|..+ ++|||+|-| .|-|+-..++.....+ -+.=++..|-.|+= -.--+.+..++++..+.+ .|.|
T Consensus 14 ~wnp~----m~~yiyg~r---~~~~Iidl~~T~~~L~~A~~~i~~i~~~~g~iLf-V~t~~~~~~~v~~~a~~~--~~~~ 83 (193)
T cd01425 14 RWNPK----MKPYIYGER---NGIHIIDLEKTLEKLRLALNFIANIAAKGGKILF-VGTKPQAQRAVKKFAERT--GSFY 83 (193)
T ss_pred CCCcc----chhheeccc---CCeEEEeHHHHHHHHHHHHHHHHHHHhCCCEEEE-EECCHHHHHHHHHHHHHc--CCee
Confidence 46544 579999998 7999877766544444 44555555665543 333347777777655544 5566
Q ss_pred ccccccC
Q 000955 567 KNYDILP 573 (1210)
Q Consensus 567 kn~dl~~ 573 (1210)
-|...+.
T Consensus 84 i~~rw~~ 90 (193)
T cd01425 84 VNGRWLG 90 (193)
T ss_pred ecCeecC
Confidence 6665554
No 176
>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=21.43 E-value=30 Score=37.46 Aligned_cols=81 Identities=23% Similarity=0.494 Sum_probs=49.6
Q ss_pred cEEeccCCcchHHHHHHHHHHhhCCcccc-------------ccccccCCCCCccccccccccccCCCCCC-CCeeeeee
Q 000955 538 MIVDFCCGANDFSCLMKKKLDETGKNCLY-------------KNYDILPAKNDFNFEKRDWMTVEPKELAP-GSRLIMGL 603 (1210)
Q Consensus 538 ~ivdfccg~n~fs~lmk~kl~~~gk~c~~-------------kn~dl~~~kn~f~Fe~~dw~~v~~~elp~-G~~LimgL 603 (1210)
++|||+||.--|+.=+++ .|-.|.+ +||. ...-.|=-.+..++||. =+ ||+|=
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 589999999998886654 5544432 3443 22233444455556773 44 55553
Q ss_pred CC--Cccc----------hhhhHHHHHHhhhccCCcEEEE
Q 000955 604 NP--PFGV----------KAGLANKFINKALEFNPKLLIL 631 (1210)
Q Consensus 604 nP--Pfg~----------~a~lAnkFi~kal~F~Pkliil 631 (1210)
=| ||-. ++.|.-.|++-+-.++||++||
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 44 4543 4468889999999999999987
No 177
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=21.34 E-value=47 Score=30.52 Aligned_cols=34 Identities=29% Similarity=0.629 Sum_probs=12.6
Q ss_pred ccccCCCccCCCCCCceeecc--ccCcccccccCCCC
Q 000955 159 CCICKQGENKADSDLQFAVCR--RCPKAYHRKCLPRK 193 (1210)
Q Consensus 159 C~vCkkseDkn~~egqLIrCd--RCPKAYH~kCLPPp 193 (1210)
|..|....... .+...+.|. +|.+.||..||-.-
T Consensus 5 C~IC~~~~~~~-~~~p~~~C~n~~C~~~fH~~CL~~w 40 (70)
T PF11793_consen 5 CGICYSYRLDD-GEIPDVVCPNPSCGKKFHLLCLSEW 40 (70)
T ss_dssp -SSS--SS-TT------B--S-TT----B-SGGGHHH
T ss_pred CCcCCcEecCC-CCcCceEcCCcccCCHHHHHHHHHH
Confidence 77777653311 123468897 99999999999653
No 178
>COG0203 RplQ Ribosomal protein L17 [Translation, ribosomal structure and biogenesis]
Probab=21.33 E-value=79 Score=32.47 Aligned_cols=41 Identities=27% Similarity=0.434 Sum_probs=33.4
Q ss_pred ccccchhhhhhhcccchhHHHHHHHHHHhcccCCCCHHHHhhhcChhHHhHHHHH
Q 000955 438 YASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKW 492 (1210)
Q Consensus 438 ~~~~~~~~k~it~Gkve~sV~Avr~AL~kLe~~g~siedAkAvc~p~vL~Ql~~w 492 (1210)
--.|.++|+.||++|+ +++.|=|.|+..|. +.++++.||..
T Consensus 42 Kelr~~vEkLITlaK~-~~l~~RR~a~~~l~-------------d~~~v~kLF~~ 82 (116)
T COG0203 42 KELRRVVEKLITLAKK-GDLANRRLAFARLR-------------DKDAVKKLFDE 82 (116)
T ss_pred HHHHHHHHHHHHHhhc-ccHHHHHHHHHHcc-------------cHHHHHHHHHH
Confidence 3467789999999986 78999999998887 44688888866
No 179
>PRK00216 ubiE ubiquinone/menaquinone biosynthesis methyltransferase; Reviewed
Probab=21.06 E-value=1.3e+02 Score=31.24 Aligned_cols=36 Identities=22% Similarity=0.420 Sum_probs=27.3
Q ss_pred hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHH
Q 000955 520 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 520 ekl~~i~~~Lh~yv~~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
..+..+++.|.. .++.+|+|++||...++..+.+.+
T Consensus 38 ~~~~~~~~~~~~--~~~~~vldiG~G~G~~~~~l~~~~ 73 (239)
T PRK00216 38 VWRRKTIKWLGV--RPGDKVLDLACGTGDLAIALAKAV 73 (239)
T ss_pred HHHHHHHHHhCC--CCCCeEEEeCCCCCHHHHHHHHHc
Confidence 344556666653 378899999999999999886644
No 180
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=20.92 E-value=68 Score=39.01 Aligned_cols=39 Identities=26% Similarity=0.478 Sum_probs=31.8
Q ss_pred ccccccccccccCcccccccCCCCeeccccccCCcccccc
Q 000955 18 EEDESNEEDELFDSVCSFCDNGGDLLCCEGRCLRSFHATI 57 (1210)
Q Consensus 18 ~Ee~sdeddDlnDdVCaIC~dGGELLCCDGsC~RSFH~~C 57 (1210)
.+-+.........++|++|.++|.+++|+ +|..++|-.|
T Consensus 77 ~~~~~~~~~~~~~~~c~vc~~ggs~v~~~-s~~~~~~r~c 115 (463)
T KOG1081|consen 77 PEPGSRRHPKIEPSECFVCFKGGSLVTCK-SRIQAPHRKC 115 (463)
T ss_pred CCCCchhccCCCcchhccccCCCccceec-cccccccccC
Confidence 45556667777889999999999999999 6777778774
No 181
>PRK08317 hypothetical protein; Provisional
Probab=20.19 E-value=86 Score=32.21 Aligned_cols=25 Identities=24% Similarity=0.573 Sum_probs=21.4
Q ss_pred ccCCCcEEeccCCcchHHHHHHHHH
Q 000955 533 VNDGDMIVDFCCGANDFSCLMKKKL 557 (1210)
Q Consensus 533 v~~gd~ivdfccg~n~fs~lmk~kl 557 (1210)
+.++++|||++||...|+..|.+.+
T Consensus 17 ~~~~~~vLdiG~G~G~~~~~~a~~~ 41 (241)
T PRK08317 17 VQPGDRVLDVGCGPGNDARELARRV 41 (241)
T ss_pred CCCCCEEEEeCCCCCHHHHHHHHhc
Confidence 4678999999999999999887654
No 182
>COG1307 DegV Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.14 E-value=3.4e+02 Score=31.10 Aligned_cols=93 Identities=22% Similarity=0.272 Sum_probs=62.1
Q ss_pred HHHHHHhcccCCCCHHHHhhhcChhHHhHHHHHhhhcccccc---------------------------cccccc--ccc
Q 000955 460 IRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLA---------------------------PFLHGM--RYT 510 (1210)
Q Consensus 460 vr~AL~kLe~~g~siedAkAvc~p~vL~Ql~~wk~kL~vyla---------------------------P~l~G~--ryt 510 (1210)
|..|.++++ +|.+.+ ++++.|..++++.+.|++ |.|.-. ++.
T Consensus 128 v~~a~~l~~-~G~s~~--------ei~~~l~~~~~~t~~~~~v~~L~~L~kgGRIs~~~a~lg~lL~ikPIl~~~~G~~~ 198 (282)
T COG1307 128 VLEAAELAK-AGKSFE--------EILKKLEEIREKTKAYFVVDDLDNLVKGGRISKAAAFLGNLLKIKPILSFEDGELV 198 (282)
T ss_pred HHHHHHHHH-cCCCHH--------HHHHHHHHHHhhcEEEEEECchhHHHhCCCcchhHHHHHhhhcceEEEEEeCCEEE
Confidence 444556666 888866 467777888877777754 444433 677
Q ss_pred ccCcccchhhhHHHHHHhhcccccCCCc--EEeccCCcchHHHHHHHHHHhhC
Q 000955 511 SFGRHFTKVDKLQAIVDKLHWYVNDGDM--IVDFCCGANDFSCLMKKKLDETG 561 (1210)
Q Consensus 511 S~grhFTk~ekl~~i~~~Lh~yv~~gd~--ivdfccg~n~fs~lmk~kl~~~g 561 (1210)
.+++-+|..--++.+++.+.=.+.++.. ++-+--..++--..++++|.+.+
T Consensus 199 ~~~K~R~~kka~~~l~~~~~~~~~~~~~~~~~~~~~~~~e~~~~l~~~l~~~~ 251 (282)
T COG1307 199 LLGKVRGQKKAIKKLIELLKKEVKDGAGYRVAVLHGDAPEAAEQLKEKLLNKF 251 (282)
T ss_pred EEeecccHHHHHHHHHHHHHHHhccCCceEEEEEeCCchhHHHHHHHHHHhhc
Confidence 9999999999999999999888854333 33333333444455666666543
Done!