Query 047854
Match_columns 259
No_of_seqs 188 out of 1450
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 03:49:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047854.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047854hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0048 Transcription factor, 100.0 1.5E-32 3.1E-37 246.0 10.1 109 8-116 4-112 (238)
2 PLN03212 Transcription repress 100.0 1.7E-32 3.6E-37 244.2 9.9 108 7-114 19-126 (249)
3 PLN03091 hypothetical protein; 100.0 7E-31 1.5E-35 249.0 10.8 108 7-114 8-115 (459)
4 KOG0049 Transcription factor, 99.8 6.7E-21 1.4E-25 186.9 9.0 132 3-134 243-429 (939)
5 KOG0049 Transcription factor, 99.8 1.7E-20 3.7E-25 184.0 7.4 108 2-110 349-460 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.7 6.6E-17 1.4E-21 114.9 5.2 60 16-77 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.5 7.9E-15 1.7E-19 143.4 6.9 105 8-113 15-119 (512)
8 KOG0050 mRNA splicing protein 99.5 5E-15 1.1E-19 142.9 4.5 101 11-113 5-105 (617)
9 PF13921 Myb_DNA-bind_6: Myb-l 99.5 5E-14 1.1E-18 100.1 6.5 60 69-128 1-60 (60)
10 PLN03212 Transcription repress 99.4 1.8E-13 3.9E-18 122.6 7.9 84 43-134 10-95 (249)
11 PF00249 Myb_DNA-binding: Myb- 99.4 4.2E-14 9.1E-19 96.7 3.0 48 13-60 1-48 (48)
12 PF00249 Myb_DNA-binding: Myb- 99.4 3.3E-13 7.2E-18 92.2 5.4 46 66-111 1-48 (48)
13 KOG0051 RNA polymerase I termi 99.4 9.7E-13 2.1E-17 130.2 7.4 100 12-114 383-510 (607)
14 PLN03091 hypothetical protein; 99.3 2.1E-12 4.6E-17 123.5 7.4 73 62-134 10-84 (459)
15 KOG0048 Transcription factor, 99.3 5.4E-12 1.2E-16 113.3 6.6 72 63-134 6-79 (238)
16 smart00717 SANT SANT SWI3, AD 99.2 2.4E-11 5.3E-16 80.7 6.1 47 66-112 1-48 (49)
17 KOG0051 RNA polymerase I termi 99.2 3.8E-11 8.3E-16 119.0 9.8 125 11-137 306-456 (607)
18 COG5147 REB1 Myb superfamily p 99.2 3.5E-11 7.5E-16 118.0 5.7 134 1-137 60-363 (512)
19 smart00717 SANT SANT SWI3, AD 99.1 3.6E-11 7.8E-16 79.9 4.0 48 13-61 1-48 (49)
20 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 2.4E-10 5.1E-15 74.8 5.8 44 68-111 1-45 (45)
21 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 3.4E-10 7.4E-15 74.1 3.6 44 15-59 1-44 (45)
22 TIGR01557 myb_SHAQKYF myb-like 98.0 1.9E-05 4.1E-10 56.2 5.9 48 66-113 3-56 (57)
23 KOG0050 mRNA splicing protein 97.9 1E-05 2.2E-10 79.3 4.8 74 64-137 5-79 (617)
24 TIGR01557 myb_SHAQKYF myb-like 97.8 2.1E-05 4.6E-10 56.0 3.9 48 13-60 3-54 (57)
25 KOG0457 Histone acetyltransfer 97.7 2.7E-05 5.8E-10 75.0 3.3 49 11-60 70-118 (438)
26 KOG0457 Histone acetyltransfer 97.6 0.00011 2.3E-09 70.9 5.7 50 64-113 70-120 (438)
27 PF13325 MCRS_N: N-terminal re 97.5 0.00035 7.6E-09 61.6 7.5 96 15-112 1-127 (199)
28 COG5259 RSC8 RSC chromatin rem 97.2 0.00023 5E-09 69.2 2.7 46 12-59 278-323 (531)
29 KOG1279 Chromatin remodeling f 97.0 0.00094 2E-08 66.3 5.4 47 65-111 252-298 (506)
30 TIGR02894 DNA_bind_RsfA transc 97.0 0.00087 1.9E-08 57.0 3.9 49 65-114 3-58 (161)
31 KOG1279 Chromatin remodeling f 96.9 0.00063 1.4E-08 67.5 3.2 48 10-59 250-297 (506)
32 COG5259 RSC8 RSC chromatin rem 96.8 0.0014 3E-08 64.0 4.7 45 66-110 279-323 (531)
33 PF08914 Myb_DNA-bind_2: Rap1 96.8 0.00085 1.8E-08 49.0 2.1 52 13-64 2-61 (65)
34 PF08914 Myb_DNA-bind_2: Rap1 96.7 0.0029 6.3E-08 46.2 4.5 50 66-115 2-61 (65)
35 TIGR02894 DNA_bind_RsfA transc 96.7 0.0011 2.3E-08 56.6 2.5 50 11-62 2-57 (161)
36 PF13837 Myb_DNA-bind_4: Myb/S 96.7 0.0013 2.8E-08 49.5 2.6 47 67-113 2-66 (90)
37 PF13837 Myb_DNA-bind_4: Myb/S 96.3 0.0023 5E-08 48.1 2.1 47 13-59 1-63 (90)
38 PLN03142 Probable chromatin-re 95.8 0.041 9E-07 59.1 9.0 100 14-114 825-987 (1033)
39 PRK13923 putative spore coat p 95.7 0.011 2.3E-07 51.0 3.5 49 65-114 4-59 (170)
40 PF13873 Myb_DNA-bind_5: Myb/S 95.6 0.0071 1.5E-07 44.7 2.0 49 12-60 1-69 (78)
41 PRK13923 putative spore coat p 95.6 0.0051 1.1E-07 53.0 1.2 49 11-61 3-57 (170)
42 COG5114 Histone acetyltransfer 95.6 0.0072 1.6E-07 56.7 2.2 46 15-61 65-110 (432)
43 COG5114 Histone acetyltransfer 95.4 0.019 4E-07 54.0 4.2 46 67-112 64-110 (432)
44 PF13873 Myb_DNA-bind_5: Myb/S 94.3 0.058 1.3E-06 39.7 3.7 48 66-113 2-71 (78)
45 COG5118 BDP1 Transcription ini 94.1 0.26 5.6E-06 47.5 8.4 47 67-113 366-412 (507)
46 PF09111 SLIDE: SLIDE; InterP 93.3 0.14 2.9E-06 41.7 4.4 51 63-113 46-112 (118)
47 PF09111 SLIDE: SLIDE; InterP 91.1 0.19 4E-06 40.9 2.7 50 9-58 45-108 (118)
48 KOG4282 Transcription factor G 90.1 0.37 8.1E-06 45.3 4.3 48 66-113 54-115 (345)
49 PF12776 Myb_DNA-bind_3: Myb/S 90.1 0.5 1.1E-05 35.7 4.2 45 68-112 1-63 (96)
50 COG5118 BDP1 Transcription ini 89.3 0.31 6.7E-06 47.0 3.0 43 14-58 366-408 (507)
51 KOG2656 DNA methyltransferase 88.1 0.33 7.1E-06 46.9 2.3 48 66-113 130-183 (445)
52 PF08281 Sigma70_r4_2: Sigma-7 87.7 1.5 3.2E-05 29.7 4.8 41 71-112 12-52 (54)
53 KOG1194 Predicted DNA-binding 85.0 3.8 8.3E-05 40.5 7.7 49 65-113 186-234 (534)
54 KOG4167 Predicted DNA-binding 84.9 0.68 1.5E-05 48.0 2.7 44 13-58 619-662 (907)
55 KOG4282 Transcription factor G 81.4 1.3 2.9E-05 41.6 3.1 47 14-60 55-113 (345)
56 KOG4167 Predicted DNA-binding 79.3 4.2 9.2E-05 42.4 5.9 44 66-109 619-662 (907)
57 PF12776 Myb_DNA-bind_3: Myb/S 78.6 2.2 4.9E-05 32.1 3.0 44 15-58 1-60 (96)
58 PF11626 Rap1_C: TRF2-interact 77.9 2.6 5.7E-05 32.0 3.2 30 9-41 43-80 (87)
59 PF13404 HTH_AsnC-type: AsnC-t 72.9 10 0.00022 25.0 4.6 38 72-110 3-41 (42)
60 PF04545 Sigma70_r4: Sigma-70, 72.0 9.6 0.00021 25.4 4.4 41 72-113 7-47 (50)
61 PF11035 SnAPC_2_like: Small n 70.3 25 0.00055 33.4 8.2 86 13-112 21-127 (344)
62 PRK11179 DNA-binding transcrip 66.1 13 0.00028 30.8 4.9 44 71-115 8-52 (153)
63 KOG2656 DNA methyltransferase 63.6 3.9 8.5E-05 39.7 1.5 49 11-60 128-181 (445)
64 KOG4329 DNA-binding protein [G 63.5 12 0.00026 36.3 4.7 42 67-108 278-320 (445)
65 PF13404 HTH_AsnC-type: AsnC-t 62.9 7 0.00015 25.8 2.2 38 19-58 3-40 (42)
66 KOG4468 Polycomb-group transcr 60.5 12 0.00025 38.5 4.2 48 66-113 88-145 (782)
67 PRK11169 leucine-responsive tr 60.4 16 0.00035 30.6 4.6 44 71-115 13-57 (164)
68 smart00595 MADF subfamily of S 56.4 12 0.00025 27.7 2.8 25 88-113 30-54 (89)
69 TIGR02985 Sig70_bacteroi1 RNA 55.5 26 0.00057 27.8 4.9 38 75-113 119-156 (161)
70 PRK11179 DNA-binding transcrip 54.6 11 0.00024 31.2 2.7 44 19-64 9-52 (153)
71 PF11626 Rap1_C: TRF2-interact 54.4 6.5 0.00014 29.8 1.1 17 62-78 43-59 (87)
72 KOG2009 Transcription initiati 54.3 14 0.0003 37.8 3.6 50 64-113 407-456 (584)
73 PF07750 GcrA: GcrA cell cycle 54.2 20 0.00042 30.6 4.1 42 68-110 2-43 (162)
74 KOG2009 Transcription initiati 51.9 11 0.00023 38.5 2.5 49 8-58 404-452 (584)
75 smart00351 PAX Paired Box doma 51.2 62 0.0013 26.0 6.4 81 3-85 5-92 (125)
76 cd08319 Death_RAIDD Death doma 51.1 24 0.00052 26.8 3.7 31 74-105 2-32 (83)
77 PF04504 DUF573: Protein of un 50.5 25 0.00055 27.4 3.9 47 67-113 5-64 (98)
78 PF11035 SnAPC_2_like: Small n 50.4 46 0.001 31.7 6.2 45 66-110 21-69 (344)
79 PRK11169 leucine-responsive tr 48.9 12 0.00026 31.4 2.0 45 18-64 13-57 (164)
80 KOG1194 Predicted DNA-binding 48.5 19 0.0004 35.9 3.4 46 10-57 184-229 (534)
81 PF01388 ARID: ARID/BRIGHT DNA 46.4 48 0.001 24.7 4.8 37 76-112 40-89 (92)
82 PF09197 Rap1-DNA-bind: Rap1, 46.4 18 0.00038 29.0 2.4 46 15-61 1-76 (105)
83 TIGR02937 sigma70-ECF RNA poly 44.8 39 0.00084 26.0 4.3 34 79-113 120-153 (158)
84 smart00344 HTH_ASNC helix_turn 43.8 56 0.0012 24.8 4.9 43 72-115 3-46 (108)
85 smart00501 BRIGHT BRIGHT, ARID 43.2 54 0.0012 24.7 4.7 38 76-113 36-86 (93)
86 cd08803 Death_ank3 Death domai 43.1 44 0.00094 25.4 4.1 31 74-105 4-34 (84)
87 KOG0384 Chromodomain-helicase 41.9 30 0.00065 38.4 4.0 75 14-95 1134-1209(1373)
88 PF08281 Sigma70_r4_2: Sigma-7 41.6 18 0.00038 24.2 1.6 39 18-59 12-50 (54)
89 PRK09652 RNA polymerase sigma 40.8 55 0.0012 26.6 4.7 34 79-113 138-171 (182)
90 cd06171 Sigma70_r4 Sigma70, re 40.3 85 0.0018 19.6 4.7 37 73-110 14-50 (55)
91 cd08317 Death_ank Death domain 40.0 36 0.00078 25.4 3.2 31 74-105 4-34 (84)
92 KOG4468 Polycomb-group transcr 38.2 23 0.00051 36.4 2.4 47 12-60 87-143 (782)
93 PF07750 GcrA: GcrA cell cycle 37.8 33 0.00073 29.2 3.0 40 15-57 2-41 (162)
94 PRK11924 RNA polymerase sigma 37.1 65 0.0014 26.1 4.6 30 83-113 139-168 (179)
95 cd08318 Death_NMPP84 Death dom 36.9 51 0.0011 24.9 3.6 28 77-105 10-37 (86)
96 PRK09643 RNA polymerase sigma 36.0 71 0.0015 27.0 4.8 34 79-113 144-177 (192)
97 PF02954 HTH_8: Bacterial regu 36.0 92 0.002 20.0 4.3 35 72-107 5-39 (42)
98 COG1522 Lrp Transcriptional re 35.9 80 0.0017 25.4 4.9 44 71-115 7-51 (154)
99 PF13325 MCRS_N: N-terminal re 35.1 78 0.0017 28.1 4.9 45 68-113 1-48 (199)
100 PF10545 MADF_DNA_bdg: Alcohol 34.1 39 0.00084 24.1 2.5 26 88-113 29-55 (85)
101 PRK12523 RNA polymerase sigma 33.8 88 0.0019 25.7 4.9 35 78-113 128-162 (172)
102 PRK04217 hypothetical protein; 32.9 98 0.0021 24.8 4.8 44 68-113 42-85 (110)
103 KOG3554 Histone deacetylase co 32.5 55 0.0012 32.9 3.9 40 68-107 287-327 (693)
104 PRK09641 RNA polymerase sigma 32.2 85 0.0018 25.8 4.6 29 84-113 151-179 (187)
105 TIGR02943 Sig70_famx1 RNA poly 31.3 99 0.0021 26.1 4.9 34 79-113 141-174 (188)
106 PRK09047 RNA polymerase factor 31.2 1E+02 0.0023 24.6 4.9 29 84-113 121-149 (161)
107 cd08311 Death_p75NR Death doma 30.9 64 0.0014 24.1 3.2 33 71-105 2-34 (77)
108 PRK09645 RNA polymerase sigma 30.7 1E+02 0.0022 25.1 4.9 30 83-113 132-161 (173)
109 TIGR02954 Sig70_famx3 RNA poly 30.4 99 0.0021 25.2 4.6 29 84-113 134-162 (169)
110 PRK09413 IS2 repressor TnpA; R 30.2 1.6E+02 0.0035 23.3 5.7 50 6-60 4-53 (121)
111 PRK09642 RNA polymerase sigma 30.2 1.1E+02 0.0024 24.6 4.8 30 83-113 120-149 (160)
112 PF07638 Sigma70_ECF: ECF sigm 30.0 1E+02 0.0022 26.1 4.8 37 74-111 140-176 (185)
113 PRK12531 RNA polymerase sigma 30.0 1.1E+02 0.0023 25.8 4.9 30 83-113 155-184 (194)
114 cd08804 Death_ank2 Death domai 29.9 76 0.0016 23.9 3.5 31 74-105 4-34 (84)
115 PRK06759 RNA polymerase factor 29.8 1.1E+02 0.0024 24.4 4.7 29 84-113 121-149 (154)
116 PRK12530 RNA polymerase sigma 29.7 1.1E+02 0.0023 25.9 4.8 29 84-113 149-177 (189)
117 PRK12515 RNA polymerase sigma 29.7 1.1E+02 0.0024 25.5 4.9 30 83-113 145-174 (189)
118 cd00131 PAX Paired Box domain 29.6 2.4E+02 0.0051 22.8 6.7 73 11-85 13-92 (128)
119 PLN03142 Probable chromatin-re 29.3 2.5E+02 0.0055 30.9 8.6 46 68-113 826-872 (1033)
120 PRK12512 RNA polymerase sigma 29.2 1.1E+02 0.0024 25.3 4.9 29 84-113 146-174 (184)
121 PRK09637 RNA polymerase sigma 29.2 1.1E+02 0.0023 25.7 4.8 29 83-112 120-148 (181)
122 TIGR02939 RpoE_Sigma70 RNA pol 29.2 83 0.0018 26.0 4.0 28 85-113 154-181 (190)
123 smart00005 DEATH DEATH domain, 29.2 81 0.0018 23.0 3.6 32 73-105 4-36 (88)
124 PRK09648 RNA polymerase sigma 29.1 1.1E+02 0.0025 25.4 4.9 30 83-113 153-182 (189)
125 PRK12529 RNA polymerase sigma 28.8 1.2E+02 0.0026 25.2 4.9 31 82-113 140-170 (178)
126 PRK12524 RNA polymerase sigma 28.5 1.1E+02 0.0025 25.7 4.9 30 83-113 150-179 (196)
127 PF09420 Nop16: Ribosome bioge 28.5 59 0.0013 27.4 3.0 48 11-59 112-162 (164)
128 cd08777 Death_RIP1 Death Domai 28.3 74 0.0016 24.1 3.2 30 75-105 3-32 (86)
129 cd08805 Death_ank1 Death domai 28.1 83 0.0018 23.9 3.5 29 74-103 4-32 (84)
130 TIGR02948 SigW_bacill RNA poly 27.9 1E+02 0.0023 25.3 4.4 28 85-113 152-179 (187)
131 PRK11923 algU RNA polymerase s 27.5 1.1E+02 0.0024 25.5 4.5 28 85-113 154-181 (193)
132 TIGR02952 Sig70_famx2 RNA poly 27.5 1.1E+02 0.0024 24.7 4.4 29 84-113 137-165 (170)
133 PF01466 Skp1: Skp1 family, di 26.8 46 0.001 24.5 1.8 36 36-79 36-71 (78)
134 cd08779 Death_PIDD Death Domai 26.5 73 0.0016 24.1 2.9 28 75-103 3-30 (86)
135 COG1522 Lrp Transcriptional re 26.1 57 0.0012 26.3 2.5 43 19-63 8-50 (154)
136 TIGR02999 Sig-70_X6 RNA polyme 26.0 1.4E+02 0.0031 24.5 4.9 29 84-113 149-177 (183)
137 PF13936 HTH_38: Helix-turn-he 25.8 95 0.0021 20.3 3.0 37 68-106 4-40 (44)
138 PRK12536 RNA polymerase sigma 25.5 1.4E+02 0.0031 24.7 4.9 30 83-113 143-172 (181)
139 PRK00118 putative DNA-binding 25.5 1.6E+02 0.0035 23.3 4.8 42 71-113 19-60 (104)
140 KOG0385 Chromatin remodeling c 25.4 87 0.0019 33.5 4.0 96 15-112 797-957 (971)
141 PRK12527 RNA polymerase sigma 25.3 1.6E+02 0.0034 23.7 5.0 29 84-113 120-148 (159)
142 smart00344 HTH_ASNC helix_turn 25.0 78 0.0017 24.0 2.9 43 19-63 3-45 (108)
143 PF09420 Nop16: Ribosome bioge 24.6 1.7E+02 0.0036 24.7 5.1 46 65-110 113-162 (164)
144 PRK12528 RNA polymerase sigma 24.5 1.6E+02 0.0036 23.7 4.9 30 82-112 126-155 (161)
145 PRK12542 RNA polymerase sigma 24.5 1.5E+02 0.0033 24.6 4.8 30 83-113 136-165 (185)
146 PRK12547 RNA polymerase sigma 24.4 1.6E+02 0.0035 23.9 5.0 30 83-113 126-155 (164)
147 smart00541 FYRN "FY-rich" doma 24.4 39 0.00084 22.6 0.9 16 244-259 5-20 (44)
148 PRK09649 RNA polymerase sigma 23.9 1.5E+02 0.0032 24.9 4.7 29 84-113 145-173 (185)
149 PRK12516 RNA polymerase sigma 23.8 1.6E+02 0.0034 24.9 4.8 35 78-113 125-159 (187)
150 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 23.8 1.9E+02 0.0041 19.9 4.3 34 73-107 8-41 (50)
151 PLN03162 golden-2 like transcr 23.1 2.7E+02 0.0058 27.4 6.5 47 66-112 237-288 (526)
152 PRK12514 RNA polymerase sigma 22.7 1.7E+02 0.0037 24.0 4.8 28 85-113 145-172 (179)
153 PRK12532 RNA polymerase sigma 22.6 1.6E+02 0.0034 24.7 4.6 30 83-113 150-179 (195)
154 PRK05602 RNA polymerase sigma 22.6 1.6E+02 0.0035 24.4 4.6 28 84-112 143-170 (186)
155 COG2963 Transposase and inacti 21.9 2.8E+02 0.0061 21.4 5.6 45 66-111 5-50 (116)
156 PRK12520 RNA polymerase sigma 21.9 1.8E+02 0.004 24.2 4.9 29 84-113 146-174 (191)
157 PRK13919 putative RNA polymera 21.8 1.9E+02 0.004 23.9 4.9 28 85-113 151-178 (186)
158 PRK12545 RNA polymerase sigma 21.6 1.8E+02 0.0039 24.7 4.8 29 84-113 154-182 (201)
159 TIGR02950 SigM_subfam RNA poly 21.5 65 0.0014 25.6 1.9 28 85-113 121-148 (154)
160 TIGR02983 SigE-fam_strep RNA p 21.3 1.8E+02 0.0039 23.3 4.6 38 75-113 116-153 (162)
161 PRK09651 RNA polymerase sigma 21.3 1.6E+02 0.0034 24.2 4.3 29 84-113 134-162 (172)
162 cd08306 Death_FADD Fas-associa 20.7 1.5E+02 0.0033 22.3 3.7 29 77-106 5-33 (86)
163 PRK12546 RNA polymerase sigma 20.4 1.8E+02 0.0039 24.6 4.5 31 82-113 126-156 (188)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.98 E-value=1.5e-32 Score=246.02 Aligned_cols=109 Identities=54% Similarity=0.950 Sum_probs=104.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCCcCCCCCHHhHHHHHHHHHHcCCC
Q 047854 8 EQGWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGIIIELHALWGNK 87 (259)
Q Consensus 8 ~p~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~Ll~~v~~~G~~ 87 (259)
++.+.||+||+|||.+|+++|.+||.++|..||+.++++|++++||.||.+||+|.+++|.||+|||.+|++++..+|++
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNr 83 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNR 83 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcH
Confidence 45566899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHhhhcccc
Q 047854 88 WSTIARYLPGRTDNEIKNYWRTHFKKEKS 116 (259)
Q Consensus 88 W~~Ia~~l~gRT~~qcknrw~~~lkk~~~ 116 (259)
|+.||++|||||++.|||+|+..++++..
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~ 112 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLL 112 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999977543
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.97 E-value=1.7e-32 Score=244.19 Aligned_cols=108 Identities=59% Similarity=1.143 Sum_probs=103.7
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCCcCCCCCHHhHHHHHHHHHHcCC
Q 047854 7 TEQGWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGIIIELHALWGN 86 (259)
Q Consensus 7 l~p~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~Ll~~v~~~G~ 86 (259)
-++++++++||+|||++|+++|.+||..+|..||+.++++||++|||+||.++|+|.+++++||+|||++|++++.+||+
T Consensus 19 ~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~Gn 98 (249)
T PLN03212 19 TKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGN 98 (249)
T ss_pred ccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccc
Confidence 46889999999999999999999999989999999986599999999999999999999999999999999999999999
Q ss_pred CHHHHHhhCCCCCHHHHHHHHHHhhhcc
Q 047854 87 KWSTIARYLPGRTDNEIKNYWRTHFKKE 114 (259)
Q Consensus 87 ~W~~Ia~~l~gRT~~qcknrw~~~lkk~ 114 (259)
+|+.||++|||||+++||+||+.++++.
T Consensus 99 KWs~IAk~LpGRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 99 RWSLIAGRIPGRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred cHHHHHhhcCCCCHHHHHHHHHHHHhHH
Confidence 9999999999999999999999998874
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.97 E-value=7e-31 Score=249.00 Aligned_cols=108 Identities=62% Similarity=1.113 Sum_probs=104.0
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCCcCCCCCHHhHHHHHHHHHHcCC
Q 047854 7 TEQGWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGIIIELHALWGN 86 (259)
Q Consensus 7 l~p~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~Ll~~v~~~G~ 86 (259)
-+++++||+||+|||++|+++|.+||..+|..||+.++++|+++|||+||.++|+|.+++++||+|||.+|++++++||+
T Consensus 8 ~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~Gn 87 (459)
T PLN03091 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGN 87 (459)
T ss_pred cCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCc
Confidence 46899999999999999999999999999999999987699999999999999999999999999999999999999999
Q ss_pred CHHHHHhhCCCCCHHHHHHHHHHhhhcc
Q 047854 87 KWSTIARYLPGRTDNEIKNYWRTHFKKE 114 (259)
Q Consensus 87 ~W~~Ia~~l~gRT~~qcknrw~~~lkk~ 114 (259)
+|+.||++|+|||+++||+||+.++++.
T Consensus 88 KWskIAk~LPGRTDnqIKNRWnslLKKk 115 (459)
T PLN03091 88 RWSQIAAQLPGRTDNEIKNLWNSCLKKK 115 (459)
T ss_pred chHHHHHhcCCCCHHHHHHHHHHHHHHH
Confidence 9999999999999999999999998873
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.83 E-value=6.7e-21 Score=186.86 Aligned_cols=132 Identities=22% Similarity=0.418 Sum_probs=123.1
Q ss_pred CccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccch----------------------------
Q 047854 3 WGATTEQGWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRL---------------------------- 54 (259)
Q Consensus 3 W~~~l~p~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~---------------------------- 54 (259)
|.++++|+++|--|++|||++|+.+...++..+|..||..|+.+|+..||..
T Consensus 243 W~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~ 322 (939)
T KOG0049|consen 243 WYNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKI 322 (939)
T ss_pred HhhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHH
Confidence 8999999999999999999999999999999999999999997799999975
Q ss_pred --------------------------hhhhhccCCCcCCCCCHHhHHHHHHHHHHcCCC-HHHHHhhCCCCCHHHHHHHH
Q 047854 55 --------------------------RWVNYLRPGLKRGQLTPQEEGIIIELHALWGNK-WSTIARYLPGRTDNEIKNYW 107 (259)
Q Consensus 55 --------------------------Rw~~~L~p~l~k~~WT~eED~~Ll~~v~~~G~~-W~~Ia~~l~gRT~~qcknrw 107 (259)
||...|+|++++|+||++||.+|+.+|.+||.+ |-+|-..+|||++.|||.||
T Consensus 323 ~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY 402 (939)
T KOG0049|consen 323 TSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERY 402 (939)
T ss_pred hhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHH
Confidence 777779999999999999999999999999976 99999999999999999999
Q ss_pred HHhhhccccchhhhHHHHHHHHHHHHH
Q 047854 108 RTHFKKEKSSQKQEKRKALLLKQKQQQ 134 (259)
Q Consensus 108 ~~~lkk~~~~~~~~k~e~~~l~~~~~q 134 (259)
.+.+....+.++|+..++..+...+.+
T Consensus 403 ~nvL~~s~K~~rW~l~edeqL~~~V~~ 429 (939)
T KOG0049|consen 403 TNVLNRSAKVERWTLVEDEQLLYAVKV 429 (939)
T ss_pred HHHHHHhhccCceeecchHHHHHHHHH
Confidence 999999999999999888777766655
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.81 E-value=1.7e-20 Score=184.00 Aligned_cols=108 Identities=27% Similarity=0.455 Sum_probs=101.0
Q ss_pred CCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCCcCCCCCHHhHHHHHHHH
Q 047854 2 GWGATTEQGWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGIIIELH 81 (259)
Q Consensus 2 rW~~~l~p~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~Ll~~v 81 (259)
||.++|+|++++|+||++||-+|..+|.+||..+|.+|-..+| ||+..|||+||.++|+...+++.||-.||..|+.+|
T Consensus 349 R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V 427 (939)
T KOG0049|consen 349 RFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAV 427 (939)
T ss_pred hheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHHHH
Confidence 8999999999999999999999999999999999999999999 999999999999999999999999999999999999
Q ss_pred HHcC-CCHHHHHhhCCCCCHH---HHHHHHHHh
Q 047854 82 ALWG-NKWSTIARYLPGRTDN---EIKNYWRTH 110 (259)
Q Consensus 82 ~~~G-~~W~~Ia~~l~gRT~~---qcknrw~~~ 110 (259)
.+|| ++|.+||..||.||.. .||.|+..+
T Consensus 428 ~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~ 460 (939)
T KOG0049|consen 428 KVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAA 460 (939)
T ss_pred HHHccchHHHHHHHccccchhHHHHHHHHHHHH
Confidence 9999 5699999999999994 455555333
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.67 E-value=6.6e-17 Score=114.94 Aligned_cols=60 Identities=47% Similarity=0.854 Sum_probs=55.2
Q ss_pred CCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCCcCCCCCHHhHHHH
Q 047854 16 WTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGII 77 (259)
Q Consensus 16 WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~L 77 (259)
||+|||++|+.+|..||. +|..||+.|+ .||+.+|+.||.++|.|.+++++||.+||.+|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999997 8999999997 89999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.54 E-value=7.9e-15 Score=143.36 Aligned_cols=105 Identities=31% Similarity=0.535 Sum_probs=99.6
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCCcCCCCCHHhHHHHHHHHHHcCCC
Q 047854 8 EQGWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGIIIELHALWGNK 87 (259)
Q Consensus 8 ~p~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~Ll~~v~~~G~~ 87 (259)
.-..+.|.|+..||+.|..+|..||..+|.+||..+. -|+++||+.||.++++|.+++..|+.+||..|+.+..++|..
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 3456789999999999999999999999999999998 699999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 88 WSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 88 W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
|+.||.++++||..+|.+||...+..
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~ 119 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLED 119 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhh
Confidence 99999999999999999999977665
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.53 E-value=5e-15 Score=142.90 Aligned_cols=101 Identities=26% Similarity=0.589 Sum_probs=96.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCCcCCCCCHHhHHHHHHHHHHcCCCHHH
Q 047854 11 WRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGIIIELHALWGNKWST 90 (259)
Q Consensus 11 ~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~Ll~~v~~~G~~W~~ 90 (259)
++.|-|+.-||+.|..+|.+||.+.|++||+.+. -+|++||+.||..+|+|.+++..|+.+||.+||.+.+.....|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 4668899999999999999999999999999998 899999999999999999999999999999999999999999999
Q ss_pred HHhhCCCCCHHHHHHHHHHhhhc
Q 047854 91 IARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 91 Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
|+..+ |||.+||-.||..++-.
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~ 105 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDV 105 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHH
Confidence 99999 99999999999888753
No 9
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.50 E-value=5e-14 Score=100.05 Aligned_cols=60 Identities=32% Similarity=0.557 Sum_probs=53.0
Q ss_pred CCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhccccchhhhHHHHHHH
Q 047854 69 LTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKKEKSSQKQEKRKALLL 128 (259)
Q Consensus 69 WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk~~~~~~~~k~e~~~l 128 (259)
||++||.+|+++|.+||.+|..||+.|+.||+.+|++||+..+++..+..+|+.+++..|
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999999999999999669999999999998888888899999887654
No 10
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.45 E-value=1.8e-13 Score=122.61 Aligned_cols=84 Identities=15% Similarity=0.336 Sum_probs=72.8
Q ss_pred cccCCCccccchhhhhhccCCCcCCCCCHHhHHHHHHHHHHcC-CCHHHHHhhC-CCCCHHHHHHHHHHhhhccccchhh
Q 047854 43 AGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGIIIELHALWG-NKWSTIARYL-PGRTDNEIKNYWRTHFKKEKSSQKQ 120 (259)
Q Consensus 43 l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~Ll~~v~~~G-~~W~~Ia~~l-~gRT~~qcknrw~~~lkk~~~~~~~ 120 (259)
++ +|++.-|. ++.+++++||+|||++|+++|++|| .+|+.||+.+ ++||..||+.||.++|++.+++++|
T Consensus 10 ~~-~~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpW 81 (249)
T PLN03212 10 VS-KKTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGI 81 (249)
T ss_pred CC-CCCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCC
Confidence 44 56665443 2478999999999999999999999 5799999998 6999999999999999999999999
Q ss_pred hHHHHHHHHHHHHH
Q 047854 121 EKRKALLLKQKQQQ 134 (259)
Q Consensus 121 ~k~e~~~l~~~~~q 134 (259)
+.+|+.++...+..
T Consensus 82 T~EED~lLlel~~~ 95 (249)
T PLN03212 82 TSDEEDLILRLHRL 95 (249)
T ss_pred ChHHHHHHHHHHHh
Confidence 99999888776644
No 11
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.45 E-value=4.2e-14 Score=96.66 Aligned_cols=48 Identities=42% Similarity=0.801 Sum_probs=43.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhc
Q 047854 13 KGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYL 60 (259)
Q Consensus 13 kg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L 60 (259)
|++||+|||++|+++|..||.++|..||..|+++||+.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 689999999999999999999669999999988999999999999875
No 12
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.41 E-value=3.3e-13 Score=92.20 Aligned_cols=46 Identities=28% Similarity=0.638 Sum_probs=41.9
Q ss_pred CCCCCHHhHHHHHHHHHHcCCC-HHHHHhhCC-CCCHHHHHHHHHHhh
Q 047854 66 RGQLTPQEEGIIIELHALWGNK-WSTIARYLP-GRTDNEIKNYWRTHF 111 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G~~-W~~Ia~~l~-gRT~~qcknrw~~~l 111 (259)
+++||++||.+|++++.+||.+ |..||..|+ +||..||++||++++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999999 999999999 999999999998764
No 13
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.36 E-value=9.7e-13 Score=130.17 Aligned_cols=100 Identities=25% Similarity=0.528 Sum_probs=91.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCC--CcCCCCCHHhHHHHHHHHH-------
Q 047854 12 RKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPG--LKRGQLTPQEEGIIIELHA------- 82 (259)
Q Consensus 12 rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~--l~k~~WT~eED~~Ll~~v~------- 82 (259)
.+|.||+||++.|..+|..+|. +|..|++.| ||.+..|++||+++..++ .+++.||.||++.|+.+|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~~l--gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGKAL--GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHHHH--ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 8999999999999999999999 899999999 599999999999999887 4899999999999999995
Q ss_pred Hc-------------------CCCHHHHHhhCCCCCHHHHHHHHHHhhhcc
Q 047854 83 LW-------------------GNKWSTIARYLPGRTDNEIKNYWRTHFKKE 114 (259)
Q Consensus 83 ~~-------------------G~~W~~Ia~~l~gRT~~qcknrw~~~lkk~ 114 (259)
.+ +-.|+.|++.+.+|+.-||+.+|..++...
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~ 510 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSP 510 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhH
Confidence 33 114999999999999999999999998863
No 14
>PLN03091 hypothetical protein; Provisional
Probab=99.33 E-value=2.1e-12 Score=123.54 Aligned_cols=73 Identities=14% Similarity=0.332 Sum_probs=67.0
Q ss_pred CCCcCCCCCHHhHHHHHHHHHHcCC-CHHHHHhhC-CCCCHHHHHHHHHHhhhccccchhhhHHHHHHHHHHHHH
Q 047854 62 PGLKRGQLTPQEEGIIIELHALWGN-KWSTIARYL-PGRTDNEIKNYWRTHFKKEKSSQKQEKRKALLLKQKQQQ 134 (259)
Q Consensus 62 p~l~k~~WT~eED~~Ll~~v~~~G~-~W~~Ia~~l-~gRT~~qcknrw~~~lkk~~~~~~~~k~e~~~l~~~~~q 134 (259)
+.+++++||+|||++|+++|.+||. +|..||+.+ ++||+.|||.||.++|++.+++++|+++|+.++.+.+..
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~ 84 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAV 84 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHH
Confidence 5789999999999999999999995 699999988 599999999999999999999999999999888776644
No 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.28 E-value=5.4e-12 Score=113.26 Aligned_cols=72 Identities=13% Similarity=0.190 Sum_probs=66.3
Q ss_pred CCcCCCCCHHhHHHHHHHHHHcCCC-HHHHHhhCC-CCCHHHHHHHHHHhhhccccchhhhHHHHHHHHHHHHH
Q 047854 63 GLKRGQLTPQEEGIIIELHALWGNK-WSTIARYLP-GRTDNEIKNYWRTHFKKEKSSQKQEKRKALLLKQKQQQ 134 (259)
Q Consensus 63 ~l~k~~WT~eED~~Ll~~v~~~G~~-W~~Ia~~l~-gRT~~qcknrw~~~lkk~~~~~~~~k~e~~~l~~~~~q 134 (259)
.+.+|+||+|||.+|+++|++||.. |..|++.++ +|+.++||-||.++|++..+++.|+.+|+.++.+.+..
T Consensus 6 ~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~ 79 (238)
T KOG0048|consen 6 ELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHAL 79 (238)
T ss_pred cccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHH
Confidence 4457999999999999999999955 999999998 99999999999999999999999999999888877755
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.23 E-value=2.4e-11 Score=80.69 Aligned_cols=47 Identities=38% Similarity=0.816 Sum_probs=44.3
Q ss_pred CCCCCHHhHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhhh
Q 047854 66 RGQLTPQEEGIIIELHALWG-NKWSTIARYLPGRTDNEIKNYWRTHFK 112 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G-~~W~~Ia~~l~gRT~~qcknrw~~~lk 112 (259)
+++||++||.+|+.++..|| .+|..||..|++||+.+|++||..+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 17
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.22 E-value=3.8e-11 Score=118.99 Aligned_cols=125 Identities=23% Similarity=0.283 Sum_probs=106.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC-----------------------CChhhhhhhcccCCCccccchhhhhhccCCC-cC
Q 047854 11 WRKGPWTPEEDKLLTEHVNLLGE-----------------------GRWSSVARSAGLNRSGKSCRLRWVNYLRPGL-KR 66 (259)
Q Consensus 11 ~rkg~WT~EED~~L~~lV~~~g~-----------------------~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l-~k 66 (259)
.+-+.||++||..|...|..|-. +-|..|...|| -|+...++..-++...|-- ++
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~~r 384 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFENKR 384 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccccc
Confidence 34588999999999999988811 13788888999 6999999885555555543 99
Q ss_pred CCCCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhcc--ccchhhhHHHHHHHHHHHHHHHH
Q 047854 67 GQLTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKKE--KSSQKQEKRKALLLKQKQQQQKQ 137 (259)
Q Consensus 67 ~~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk~--~~~~~~~k~e~~~l~~~~~q~~~ 137 (259)
|.||++|++.|..++.++|+.|..|++.+ ||.+..|++||+.+++.. ..+++|+.++...+.+.+.....
T Consensus 385 g~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~ 456 (607)
T KOG0051|consen 385 GKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIR 456 (607)
T ss_pred CCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999 999999999999999986 47899999999999998875444
No 18
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.15 E-value=3.5e-11 Score=118.00 Aligned_cols=134 Identities=27% Similarity=0.482 Sum_probs=116.4
Q ss_pred CCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCCc---------------
Q 047854 1 MGWGATTEQGWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGLK--------------- 65 (259)
Q Consensus 1 ~rW~~~l~p~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~--------------- 65 (259)
+||.++++|.++++.||.|||+.|+.+-..+|. .|..||..++ +||..+|.+||.+.+.+...
T Consensus 60 ~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~-~wstia~~~d-~rt~~~~~ery~~~~~~~~s~~~s~~~~~~~f~k~ 137 (512)
T COG5147 60 NRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT-QWSTIADYKD-RRTAQQCVERYVNTLEDLSSTHDSKLQRRNEFDKI 137 (512)
T ss_pred chhhhhhchhcccccccHHHHHHHHHHHHhcCc-hhhhhccccC-ccchHHHHHHHHHHhhhhhccccccccchhhcccc
Confidence 589999999999999999999999999999999 7999999998 99999999999955322100
Q ss_pred --------------------------------------------------------------------------------
Q 047854 66 -------------------------------------------------------------------------------- 65 (259)
Q Consensus 66 -------------------------------------------------------------------------------- 65 (259)
T Consensus 138 d~f~~~~~~~~~~~~~~~~~~~~N~~~~~~~~~~rv~~~~vk~~~~~~~~~~~~~~~qem~~~~~~s~~~~~~~~~~~~~ 217 (512)
T COG5147 138 DPFNENSARRPDIYEDELLEREVNREASYRLRVPRVSKADVKPREKGEENNPDIEDLQEMKELKSASITRHLILPSKSEI 217 (512)
T ss_pred CchhhhhhhhhhhhhcccchhhhhHHHHHHHHcccchHhhhhHHhhcccccccHHHHHHHhHHHHHHHHHHHhhhhhhhh
Confidence
Q ss_pred -------------------------------------------------------------------------CCCCCHH
Q 047854 66 -------------------------------------------------------------------------RGQLTPQ 72 (259)
Q Consensus 66 -------------------------------------------------------------------------k~~WT~e 72 (259)
++.||.+
T Consensus 218 ~k~f~~~~~~~~e~~i~~~~~~~~~sr~q~~~~Iws~~~~~~~f~~n~~~~l~~R~~ksiy~~~rrky~~f~~~~~wt~e 297 (512)
T COG5147 218 NKAFKKGETLALEQEINEYKEKKGLSRKQFCERIWSTDRDEDKFWPNIYKKLPYRDKKSIYKHLRRKYNIFEQRGKWTKE 297 (512)
T ss_pred ccccchhHHHHHHHHHHHHHHHhcccHHHHHhhccccccccccccchhhcccccccccchHHHHHHhhhHHhhhccCccc
Confidence 4569999
Q ss_pred hHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc--cccchhhhHHHHHHHHHHHHHHHH
Q 047854 73 EEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK--EKSSQKQEKRKALLLKQKQQQQKQ 137 (259)
Q Consensus 73 ED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk--~~~~~~~~k~e~~~l~~~~~q~~~ 137 (259)
|+..|...+.++|..|..|.+.+ +|-++.|++||+.+++. .....+|+.++..++.+.+..+..
T Consensus 298 ~~~eL~~~~~~~~~~w~~ig~~~-~rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~ 363 (512)
T COG5147 298 EEQELAKLVVEHGGSWTEIGKLL-GRMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRL 363 (512)
T ss_pred cccccccccccccchhhHhhhhh-ccCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHH
Confidence 99999999999999999999999 99999999999999998 556678998888777766654443
No 19
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.15 E-value=3.6e-11 Score=79.88 Aligned_cols=48 Identities=44% Similarity=0.885 Sum_probs=44.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhcc
Q 047854 13 KGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLR 61 (259)
Q Consensus 13 kg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~ 61 (259)
+++||++||.+|+.++..||..+|..||..|+ +||+.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 47899999999999999999559999999999 9999999999998764
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.09 E-value=2.4e-10 Score=74.83 Aligned_cols=44 Identities=34% Similarity=0.744 Sum_probs=41.6
Q ss_pred CCCHHhHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhh
Q 047854 68 QLTPQEEGIIIELHALWG-NKWSTIARYLPGRTDNEIKNYWRTHF 111 (259)
Q Consensus 68 ~WT~eED~~Ll~~v~~~G-~~W~~Ia~~l~gRT~~qcknrw~~~l 111 (259)
+||++||..|+.++.+|| .+|..||+.+++||..+|++||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999997753
No 21
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.00 E-value=3.4e-10 Score=74.07 Aligned_cols=44 Identities=45% Similarity=0.906 Sum_probs=41.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhh
Q 047854 15 PWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNY 59 (259)
Q Consensus 15 ~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~ 59 (259)
+||++||..|+.++..||..+|..||..++ +||+.+|+.||.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHh
Confidence 599999999999999999559999999998 89999999999865
No 22
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.99 E-value=1.9e-05 Score=56.24 Aligned_cols=48 Identities=15% Similarity=0.180 Sum_probs=42.0
Q ss_pred CCCCCHHhHHHHHHHHHHcCC-CH---HHHHhhCC-CC-CHHHHHHHHHHhhhc
Q 047854 66 RGQLTPQEEGIIIELHALWGN-KW---STIARYLP-GR-TDNEIKNYWRTHFKK 113 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G~-~W---~~Ia~~l~-gR-T~~qcknrw~~~lkk 113 (259)
+-.||+||..++++++..+|. +| ..|++.+. .| |..||++|+..+..+
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 457999999999999999997 89 99999884 46 999999999887643
No 23
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.93 E-value=1e-05 Score=79.25 Aligned_cols=74 Identities=18% Similarity=0.310 Sum_probs=66.1
Q ss_pred CcCCCCCHHhHHHHHHHHHHcCCC-HHHHHhhCCCCCHHHHHHHHHHhhhccccchhhhHHHHHHHHHHHHHHHH
Q 047854 64 LKRGQLTPQEEGIIIELHALWGNK-WSTIARYLPGRTDNEIKNYWRTHFKKEKSSQKQEKRKALLLKQKQQQQKQ 137 (259)
Q Consensus 64 l~k~~WT~eED~~Ll~~v~~~G~~-W~~Ia~~l~gRT~~qcknrw~~~lkk~~~~~~~~k~e~~~l~~~~~q~~~ 137 (259)
++.+-|+..||+.|--++.+||.+ |+.|+..++-+|+.||++||...+.+.+++-.|+.+++..+.........
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~ 79 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPT 79 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCC
Confidence 466889999999999999999965 99999999999999999999999999999889999999888777665443
No 24
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.83 E-value=2.1e-05 Score=56.02 Aligned_cols=48 Identities=15% Similarity=0.283 Sum_probs=42.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCh---hhhhhhcccCC-Cccccchhhhhhc
Q 047854 13 KGPWTPEEDKLLTEHVNLLGEGRW---SSVARSAGLNR-SGKSCRLRWVNYL 60 (259)
Q Consensus 13 kg~WT~EED~~L~~lV~~~g~~~W---~~IA~~l~~gR-t~~Qcr~Rw~~~L 60 (259)
+-.||+||..+++++|..+|.++| ..|++.|...| |..||+.++..|.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 457999999999999999999899 99999887556 9999999987664
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.69 E-value=2.7e-05 Score=75.01 Aligned_cols=49 Identities=24% Similarity=0.594 Sum_probs=45.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhc
Q 047854 11 WRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYL 60 (259)
Q Consensus 11 ~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L 60 (259)
+-...||.+|+-+|++++..||-+||..||.+++ .||..+|+++|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 3456699999999999999999999999999999 999999999999865
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.58 E-value=0.00011 Score=70.91 Aligned_cols=50 Identities=26% Similarity=0.460 Sum_probs=45.8
Q ss_pred CcCCCCCHHhHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 64 LKRGQLTPQEEGIIIELHALWG-NKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 64 l~k~~WT~eED~~Ll~~v~~~G-~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
+-...||.+|+.+||+++..|| ++|..||.++..||..+|+.+|.+++-.
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~ 120 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVN 120 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhc
Confidence 4456799999999999999999 8899999999999999999999888764
No 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.50 E-value=0.00035 Score=61.55 Aligned_cols=96 Identities=21% Similarity=0.380 Sum_probs=71.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhhhcc--cCCCccccchhhhhhc-cCCC--------------------cCCCCCH
Q 047854 15 PWTPEEDKLLTEHVNLLGEGRWSSVARSAG--LNRSGKSCRLRWVNYL-RPGL--------------------KRGQLTP 71 (259)
Q Consensus 15 ~WT~EED~~L~~lV~~~g~~~W~~IA~~l~--~gRt~~Qcr~Rw~~~L-~p~l--------------------~k~~WT~ 71 (259)
+|++++|-+|+.+|..-. +-..|+..+. +.-|...+.+||+..| +|.+ .+.+||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 599999999999998766 4777766443 3457788889999776 4422 3568999
Q ss_pred HhHHHHHHHHHHcCC---CHHHHHh----hC-CCCCHHHHHHHHHHhhh
Q 047854 72 QEEGIIIELHALWGN---KWSTIAR----YL-PGRTDNEIKNYWRTHFK 112 (259)
Q Consensus 72 eED~~Ll~~v~~~G~---~W~~Ia~----~l-~gRT~~qcknrw~~~lk 112 (259)
+|++.|......... .+.+|-. .| ++||+.++.++|+.+.+
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkq 127 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQ 127 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHH
Confidence 999999987765543 3777722 34 78999999999986544
No 28
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.17 E-value=0.00023 Score=69.24 Aligned_cols=46 Identities=30% Similarity=0.714 Sum_probs=43.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhh
Q 047854 12 RKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNY 59 (259)
Q Consensus 12 rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~ 59 (259)
+...||.+|..+|++.|..||. +|.+||++++ +||..||-.||.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 5678999999999999999999 8999999999 99999999999854
No 29
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.02 E-value=0.00094 Score=66.26 Aligned_cols=47 Identities=17% Similarity=0.310 Sum_probs=43.5
Q ss_pred cCCCCCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhh
Q 047854 65 KRGQLTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHF 111 (259)
Q Consensus 65 ~k~~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~l 111 (259)
-+..||++|..+|++++..||-.|.+||.+..+||..+|-.+|..+=
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LP 298 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLP 298 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcC
Confidence 35689999999999999999999999999999999999999997663
No 30
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.95 E-value=0.00087 Score=57.04 Aligned_cols=49 Identities=20% Similarity=0.350 Sum_probs=43.5
Q ss_pred cCCCCCHHhHHHHHHHHHHc---CCC----HHHHHhhCCCCCHHHHHHHHHHhhhcc
Q 047854 65 KRGQLTPQEEGIIIELHALW---GNK----WSTIARYLPGRTDNEIKNYWRTHFKKE 114 (259)
Q Consensus 65 ~k~~WT~eED~~Ll~~v~~~---G~~----W~~Ia~~l~gRT~~qcknrw~~~lkk~ 114 (259)
+...||.|||.+|.+.|..| |+. ...++..| +||+.+|.=||++.+++.
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkq 58 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQ 58 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHH
Confidence 46789999999999999988 332 89999999 999999999999999974
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.92 E-value=0.00063 Score=67.49 Aligned_cols=48 Identities=29% Similarity=0.658 Sum_probs=43.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhh
Q 047854 10 GWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNY 59 (259)
Q Consensus 10 ~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~ 59 (259)
.--++.||.+|..+|+++|..||. +|.+||.+++ +||..||-.++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 345678999999999999999999 8999999999 99999999998753
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.83 E-value=0.0014 Score=64.00 Aligned_cols=45 Identities=18% Similarity=0.307 Sum_probs=42.3
Q ss_pred CCCCCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHh
Q 047854 66 RGQLTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTH 110 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~ 110 (259)
...||.+|..+|++.+..||-.|.+||+++.+||..||--||.++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 448999999999999999999999999999999999999999665
No 33
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.78 E-value=0.00085 Score=49.04 Aligned_cols=52 Identities=23% Similarity=0.321 Sum_probs=33.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCC--------CChhhhhhhcccCCCccccchhhhhhccCCC
Q 047854 13 KGPWTPEEDKLLTEHVNLLGE--------GRWSSVARSAGLNRSGKSCRLRWVNYLRPGL 64 (259)
Q Consensus 13 kg~WT~EED~~L~~lV~~~g~--------~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l 64 (259)
+.+||.+||..|+..|..+.. .-|..+++.-++.+|-.+-|+||.+.|.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 468999999999999976522 2399999887757888888999999887643
No 34
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.70 E-value=0.0029 Score=46.22 Aligned_cols=50 Identities=16% Similarity=0.344 Sum_probs=32.7
Q ss_pred CCCCCHHhHHHHHHHHHHcC--------CC-HHHHHhhCC-CCCHHHHHHHHHHhhhccc
Q 047854 66 RGQLTPQEEGIIIELHALWG--------NK-WSTIARYLP-GRTDNEIKNYWRTHFKKEK 115 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G--------~~-W~~Ia~~l~-gRT~~qcknrw~~~lkk~~ 115 (259)
+.+||.+||..|+..|+++. ++ |.++++.-+ .+|-...|+||.+.++...
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 45899999999999997652 12 999999877 8999999999998887643
No 35
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.70 E-value=0.0011 Score=56.55 Aligned_cols=50 Identities=38% Similarity=0.658 Sum_probs=42.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC------CChhhhhhhcccCCCccccchhhhhhccC
Q 047854 11 WRKGPWTPEEDKLLTEHVNLLGE------GRWSSVARSAGLNRSGKSCRLRWVNYLRP 62 (259)
Q Consensus 11 ~rkg~WT~EED~~L~~lV~~~g~------~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p 62 (259)
.|...||.|||.+|.+.|-+|-. ..+..|+..| +||+.-|.-||+.++..
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L--~RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL--NRTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH--cccHHHhcchHHHHHHH
Confidence 46778999999999999999832 2589999998 59999999999988864
No 36
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.67 E-value=0.0013 Score=49.50 Aligned_cols=47 Identities=32% Similarity=0.505 Sum_probs=34.5
Q ss_pred CCCCHHhHHHHHHHHHH------cC--C------CHHHHHhhC----CCCCHHHHHHHHHHhhhc
Q 047854 67 GQLTPQEEGIIIELHAL------WG--N------KWSTIARYL----PGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 67 ~~WT~eED~~Ll~~v~~------~G--~------~W~~Ia~~l----~gRT~~qcknrw~~~lkk 113 (259)
..||.+|...||.++.+ ++ + -|..||..| ..||+.||+++|.++.+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~ 66 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKK 66 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Confidence 47999999999999887 21 1 299999876 369999999999998775
No 37
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.32 E-value=0.0023 Score=48.09 Aligned_cols=47 Identities=36% Similarity=0.714 Sum_probs=32.6
Q ss_pred CCCCCHHHHHHHHHHHHH--h----C---C----CChhhhhhhc---ccCCCccccchhhhhh
Q 047854 13 KGPWTPEEDKLLTEHVNL--L----G---E----GRWSSVARSA---GLNRSGKSCRLRWVNY 59 (259)
Q Consensus 13 kg~WT~EED~~L~~lV~~--~----g---~----~~W~~IA~~l---~~gRt~~Qcr~Rw~~~ 59 (259)
+.+||.+|...|+.++.. + + . .-|..||..| +..||+.||+.+|.+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 357999999999999877 2 1 1 1499999976 4579999999999874
No 38
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.76 E-value=0.041 Score=59.14 Aligned_cols=100 Identities=12% Similarity=0.240 Sum_probs=77.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccch-------hhhh---------h------------------
Q 047854 14 GPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRL-------RWVN---------Y------------------ 59 (259)
Q Consensus 14 g~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~-------Rw~~---------~------------------ 59 (259)
+.||..+=..++.+..+||..+-..||..|. ++|...++. ||.. .
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~ 903 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAI 903 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3588888888899999999999999999998 899876653 1111 0
Q ss_pred ---------------c-cCCCcCCCCCHHhHHHHHHHHHHcC-CCHHHHHh------------hCCCCCHHHHHHHHHHh
Q 047854 60 ---------------L-RPGLKRGQLTPQEEGIIIELHALWG-NKWSTIAR------------YLPGRTDNEIKNYWRTH 110 (259)
Q Consensus 60 ---------------L-~p~l~k~~WT~eED~~Ll~~v~~~G-~~W~~Ia~------------~l~gRT~~qcknrw~~~ 110 (259)
+ .+..++..+|++||+.|+-++.+|| .+|..|-. +|..||+..|..|...+
T Consensus 904 ~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 904 GKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred HHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 0 1223455699999999999999999 66999833 23479999999999888
Q ss_pred hhcc
Q 047854 111 FKKE 114 (259)
Q Consensus 111 lkk~ 114 (259)
++-.
T Consensus 984 ~~~~ 987 (1033)
T PLN03142 984 IRLI 987 (1033)
T ss_pred HHHH
Confidence 8753
No 39
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.67 E-value=0.011 Score=51.00 Aligned_cols=49 Identities=16% Similarity=0.321 Sum_probs=42.5
Q ss_pred cCCCCCHHhHHHHHHHHHHcCCC-------HHHHHhhCCCCCHHHHHHHHHHhhhcc
Q 047854 65 KRGQLTPQEEGIIIELHALWGNK-------WSTIARYLPGRTDNEIKNYWRTHFKKE 114 (259)
Q Consensus 65 ~k~~WT~eED~~Ll~~v~~~G~~-------W~~Ia~~l~gRT~~qcknrw~~~lkk~ 114 (259)
++..||.|||.+|.+.|..|+.. ...++..| +||..+|..||++.+++.
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~ 59 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQ 59 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHH
Confidence 56789999999999999988743 77778888 999999999999998864
No 40
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.65 E-value=0.0071 Score=44.66 Aligned_cols=49 Identities=29% Similarity=0.438 Sum_probs=39.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC----------------CChhhhhhhc----ccCCCccccchhhhhhc
Q 047854 12 RKGPWTPEEDKLLTEHVNLLGE----------------GRWSSVARSA----GLNRSGKSCRLRWVNYL 60 (259)
Q Consensus 12 rkg~WT~EED~~L~~lV~~~g~----------------~~W~~IA~~l----~~gRt~~Qcr~Rw~~~L 60 (259)
|+..||++|...|+++|..|.. ..|..|+..| +..||..||+.+|.++.
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 4678999999999999998821 1599999876 22699999999998754
No 41
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.59 E-value=0.0051 Score=52.96 Aligned_cols=49 Identities=31% Similarity=0.541 Sum_probs=40.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCC------ChhhhhhhcccCCCccccchhhhhhcc
Q 047854 11 WRKGPWTPEEDKLLTEHVNLLGEG------RWSSVARSAGLNRSGKSCRLRWVNYLR 61 (259)
Q Consensus 11 ~rkg~WT~EED~~L~~lV~~~g~~------~W~~IA~~l~~gRt~~Qcr~Rw~~~L~ 61 (259)
.|+..||.|||.+|.+.|..|+.. ....++..| +||+..|..||+.++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L--~rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL--KRTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH--hhhHHHHHhHHHHHHH
Confidence 577889999999999999988653 367777777 5999999999987765
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.58 E-value=0.0072 Score=56.73 Aligned_cols=46 Identities=26% Similarity=0.603 Sum_probs=43.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhcc
Q 047854 15 PWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLR 61 (259)
Q Consensus 15 ~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~ 61 (259)
-|+..|+.+|++.....|.++|..||..++ .|+...|+++|..++.
T Consensus 65 ~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 65 GWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 399999999999999999999999999999 9999999999998775
No 43
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.38 E-value=0.019 Score=54.03 Aligned_cols=46 Identities=28% Similarity=0.494 Sum_probs=42.7
Q ss_pred CCCCHHhHHHHHHHHHHcC-CCHHHHHhhCCCCCHHHHHHHHHHhhh
Q 047854 67 GQLTPQEEGIIIELHALWG-NKWSTIARYLPGRTDNEIKNYWRTHFK 112 (259)
Q Consensus 67 ~~WT~eED~~Ll~~v~~~G-~~W~~Ia~~l~gRT~~qcknrw~~~lk 112 (259)
..|+..|+.+|++.+.-.| ++|..||.++..|+...||++|.++..
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 4699999999999999999 789999999999999999999988766
No 44
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.32 E-value=0.058 Score=39.72 Aligned_cols=48 Identities=27% Similarity=0.479 Sum_probs=39.4
Q ss_pred CCCCCHHhHHHHHHHHHHcC----C-------------CHHHHHhhC-----CCCCHHHHHHHHHHhhhc
Q 047854 66 RGQLTPQEEGIIIELHALWG----N-------------KWSTIARYL-----PGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G----~-------------~W~~Ia~~l-----~gRT~~qcknrw~~~lkk 113 (259)
...||.+|...|++++.+|. + -|..|+..| +.||..+|+.+|..+...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 45799999999999999872 1 199998866 359999999999888654
No 45
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=94.08 E-value=0.26 Score=47.47 Aligned_cols=47 Identities=21% Similarity=0.364 Sum_probs=43.5
Q ss_pred CCCCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 67 GQLTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 67 ~~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.+||.+|-.++..+...+|..++.||..||.|...|||.+|.+--++
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 37999999999999999999999999999999999999999776554
No 46
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=93.26 E-value=0.14 Score=41.72 Aligned_cols=51 Identities=20% Similarity=0.350 Sum_probs=39.7
Q ss_pred CCcCCCCCHHhHHHHHHHHHHcCC----CHHHHHhh------------CCCCCHHHHHHHHHHhhhc
Q 047854 63 GLKRGQLTPQEEGIIIELHALWGN----KWSTIARY------------LPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 63 ~l~k~~WT~eED~~Ll~~v~~~G~----~W~~Ia~~------------l~gRT~~qcknrw~~~lkk 113 (259)
..++..||++||.-|+-++.+||- .|..|-.. |..||+..+..|-..+++-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 556789999999999999999997 59888552 2369999999999888764
No 47
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=91.07 E-value=0.19 Score=40.91 Aligned_cols=50 Identities=20% Similarity=0.340 Sum_probs=37.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC---CChhhhhhhcc-----------cCCCccccchhhhh
Q 047854 9 QGWRKGPWTPEEDKLLTEHVNLLGE---GRWSSVARSAG-----------LNRSGKSCRLRWVN 58 (259)
Q Consensus 9 p~~rkg~WT~EED~~L~~lV~~~g~---~~W~~IA~~l~-----------~gRt~~Qcr~Rw~~ 58 (259)
|+.++..||.+||.-|+-++.+||- +.|..|-..+. ..||+..+..|...
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~t 108 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNT 108 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHH
Confidence 3777888999999999999999999 88999987652 15666666666543
No 48
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=90.15 E-value=0.37 Score=45.32 Aligned_cols=48 Identities=23% Similarity=0.303 Sum_probs=39.5
Q ss_pred CCCCCHHhHHHHHHHHHHc----------CCCHHHHHhhC----CCCCHHHHHHHHHHhhhc
Q 047854 66 RGQLTPQEEGIIIELHALW----------GNKWSTIARYL----PGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~----------G~~W~~Ia~~l----~gRT~~qcknrw~~~lkk 113 (259)
...|+.+|-..||++..+. +.-|..||+.+ .-||+.+|+.+|.++.++
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~ 115 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKK 115 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHH
Confidence 3689999999999988753 23499999954 349999999999998876
No 49
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=90.06 E-value=0.5 Score=35.72 Aligned_cols=45 Identities=31% Similarity=0.539 Sum_probs=33.9
Q ss_pred CCCHHhHHHHHHHHHHc---CC----------CHHHHHhhCC-----CCCHHHHHHHHHHhhh
Q 047854 68 QLTPQEEGIIIELHALW---GN----------KWSTIARYLP-----GRTDNEIKNYWRTHFK 112 (259)
Q Consensus 68 ~WT~eED~~Ll~~v~~~---G~----------~W~~Ia~~l~-----gRT~~qcknrw~~~lk 112 (259)
.||+++++.|++++.+. |+ .|..|+..|. ..|..||++||..+-+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~ 63 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKK 63 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHH
Confidence 49999999999998654 21 1999988662 3578899999866544
No 50
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.33 E-value=0.31 Score=46.96 Aligned_cols=43 Identities=16% Similarity=0.349 Sum_probs=40.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhh
Q 047854 14 GPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVN 58 (259)
Q Consensus 14 g~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~ 58 (259)
-+||.+|-+++.+++..+|+ ++..||.++| +|..+|++.+|.+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~ 408 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIK 408 (507)
T ss_pred CcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHH
Confidence 46999999999999999999 8999999999 9999999999875
No 51
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=88.12 E-value=0.33 Score=46.87 Aligned_cols=48 Identities=17% Similarity=0.268 Sum_probs=41.8
Q ss_pred CCCCCHHhHHHHHHHHHHcCCCHHHHHhh-----CCC-CCHHHHHHHHHHhhhc
Q 047854 66 RGQLTPQEEGIIIELHALWGNKWSTIARY-----LPG-RTDNEIKNYWRTHFKK 113 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G~~W~~Ia~~-----l~g-RT~~qcknrw~~~lkk 113 (259)
-..||.+|-..|.++++.|.-+|..|+.. ++. ||-..+|.||....++
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~ 183 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRK 183 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHH
Confidence 35699999999999999999999999775 655 9999999999776654
No 52
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=87.67 E-value=1.5 Score=29.71 Aligned_cols=41 Identities=27% Similarity=0.394 Sum_probs=31.1
Q ss_pred HHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhh
Q 047854 71 PQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFK 112 (259)
Q Consensus 71 ~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lk 112 (259)
++++..++.++...|-.+.+||..+ |.|...|+.+.....+
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 4677888999999999999999999 9999999998766543
No 53
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=85.01 E-value=3.8 Score=40.50 Aligned_cols=49 Identities=16% Similarity=0.301 Sum_probs=43.6
Q ss_pred cCCCCCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 65 KRGQLTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 65 ~k~~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
-...||.||-.++-.+...||++..+|-+.||.||-..+..+|...-+.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 3567999999999999999999999999999999999999988666544
No 54
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=84.85 E-value=0.68 Score=47.99 Aligned_cols=44 Identities=18% Similarity=0.360 Sum_probs=40.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhh
Q 047854 13 KGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVN 58 (259)
Q Consensus 13 kg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~ 58 (259)
...||+.|-.++.+++..|.+ ++..|+++++ ++|..||-+-|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~K-DF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSK-DFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcc-cHHHHHHHhc-cccHHHHHHHHHH
Confidence 356999999999999999999 8999999999 9999999987763
No 55
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=81.37 E-value=1.3 Score=41.59 Aligned_cols=47 Identities=32% Similarity=0.474 Sum_probs=36.7
Q ss_pred CCCCHHHHHHHHHHHHHh----C-----CCChhhhhhhc---ccCCCccccchhhhhhc
Q 047854 14 GPWTPEEDKLLTEHVNLL----G-----EGRWSSVARSA---GLNRSGKSCRLRWVNYL 60 (259)
Q Consensus 14 g~WT~EED~~L~~lV~~~----g-----~~~W~~IA~~l---~~gRt~~Qcr~Rw~~~L 60 (259)
..|+.+|-..|+.+.... . ...|..||+.+ +.-||+.||+.+|.++.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 679999999999887643 1 12599999843 45699999999998743
No 56
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=79.29 E-value=4.2 Score=42.41 Aligned_cols=44 Identities=14% Similarity=0.263 Sum_probs=40.1
Q ss_pred CCCCCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHH
Q 047854 66 RGQLTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRT 109 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~ 109 (259)
...||+.|-.++-+++..|.+.+-.|++.++++|-.+|-.+|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 34799999999999999999999999999999999999887643
No 57
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=78.57 E-value=2.2 Score=32.06 Aligned_cols=44 Identities=30% Similarity=0.653 Sum_probs=31.5
Q ss_pred CCCHHHHHHHHHHHHHh---CC----C-----Chhhhhhhcc----cCCCccccchhhhh
Q 047854 15 PWTPEEDKLLTEHVNLL---GE----G-----RWSSVARSAG----LNRSGKSCRLRWVN 58 (259)
Q Consensus 15 ~WT~EED~~L~~lV~~~---g~----~-----~W~~IA~~l~----~gRt~~Qcr~Rw~~ 58 (259)
+||+++++.|++++... |. + .|..|++.|. ...|..||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999988654 11 1 4889988763 23456788888764
No 58
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=77.89 E-value=2.6 Score=32.03 Aligned_cols=30 Identities=30% Similarity=0.553 Sum_probs=16.5
Q ss_pred CCCCCCCCCHHHHHHH--------HHHHHHhCCCChhhhhh
Q 047854 9 QGWRKGPWTPEEDKLL--------TEHVNLLGEGRWSSVAR 41 (259)
Q Consensus 9 p~~rkg~WT~EED~~L--------~~lV~~~g~~~W~~IA~ 41 (259)
|....|-||+|+|+.| ..++.+|| +..|+.
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~ 80 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIER 80 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHH
Confidence 4556889999999999 45566676 444543
No 59
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=72.93 E-value=10 Score=24.98 Aligned_cols=38 Identities=18% Similarity=0.315 Sum_probs=30.8
Q ss_pred HhHHHHHHHHHHcCCC-HHHHHhhCCCCCHHHHHHHHHHh
Q 047854 72 QEEGIIIELHALWGNK-WSTIARYLPGRTDNEIKNYWRTH 110 (259)
Q Consensus 72 eED~~Ll~~v~~~G~~-W~~Ia~~l~gRT~~qcknrw~~~ 110 (259)
+=|..|+.+...-|.. +..||+.+ |=|...|..|.+.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~rL 41 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHHh
Confidence 4588899999888854 99999999 99999999998764
No 60
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=71.96 E-value=9.6 Score=25.35 Aligned_cols=41 Identities=24% Similarity=0.333 Sum_probs=32.2
Q ss_pred HhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 72 QEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 72 eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
+++..++.++.-.|..+.+||..+ |-|...|+.+....+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 456667777776677899999999 88999999988777665
No 61
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=70.34 E-value=25 Score=33.37 Aligned_cols=86 Identities=15% Similarity=0.280 Sum_probs=62.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC---ChhhhhhhcccCCCccccchhhhhhccCCCcCCCCCHHhHHHHHHHHHH-c----
Q 047854 13 KGPWTPEEDKLLTEHVNLLGEG---RWSSVARSAGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGIIIELHAL-W---- 84 (259)
Q Consensus 13 kg~WT~EED~~L~~lV~~~g~~---~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~Ll~~v~~-~---- 84 (259)
-..||..|...|+.++...... +-.+|++.++ +|+..++++ |.+.|+ ++.+.+++.+ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 4569999999999998776332 3567888898 999998887 444443 3445566655 2
Q ss_pred -CCC------------HHHHHhhCCCCCHHHHHHHHHHhhh
Q 047854 85 -GNK------------WSTIARYLPGRTDNEIKNYWRTHFK 112 (259)
Q Consensus 85 -G~~------------W~~Ia~~l~gRT~~qcknrw~~~lk 112 (259)
|.+ |.++|+.+.|.-...+-.-|-.+|.
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 211 9999999999988888888866654
No 62
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=66.09 E-value=13 Score=30.83 Aligned_cols=44 Identities=11% Similarity=0.047 Sum_probs=38.0
Q ss_pred HHhHHHHHHHHHHcCC-CHHHHHhhCCCCCHHHHHHHHHHhhhccc
Q 047854 71 PQEEGIIIELHALWGN-KWSTIARYLPGRTDNEIKNYWRTHFKKEK 115 (259)
Q Consensus 71 ~eED~~Ll~~v~~~G~-~W~~Ia~~l~gRT~~qcknrw~~~lkk~~ 115 (259)
++-|.+|+.+..+-|. .|+.||+.+ |-|...|+.|++.+.....
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 3578899999988884 599999999 9999999999999887643
No 63
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=63.56 E-value=3.9 Score=39.70 Aligned_cols=49 Identities=16% Similarity=0.262 Sum_probs=42.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChhhhhhh-----cccCCCccccchhhhhhc
Q 047854 11 WRKGPWTPEEDKLLTEHVNLLGEGRWSSVARS-----AGLNRSGKSCRLRWVNYL 60 (259)
Q Consensus 11 ~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~-----l~~gRt~~Qcr~Rw~~~L 60 (259)
++-..||.+|-.-|.++...|.- +|--||.. ++..||....++||..+.
T Consensus 128 l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 34467999999999999999999 89999987 674599999999998553
No 64
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=63.50 E-value=12 Score=36.28 Aligned_cols=42 Identities=21% Similarity=0.285 Sum_probs=38.4
Q ss_pred CCCCHHhHHHHHHHHHHcCCCHHHH-HhhCCCCCHHHHHHHHH
Q 047854 67 GQLTPQEEGIIIELHALWGNKWSTI-ARYLPGRTDNEIKNYWR 108 (259)
Q Consensus 67 ~~WT~eED~~Ll~~v~~~G~~W~~I-a~~l~gRT~~qcknrw~ 108 (259)
..|+++|-+.+-+.++.||+.+..| +..++.|+--.|-.+|.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYY 320 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYY 320 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHH
Confidence 3699999999999999999999999 66889999999988774
No 65
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=62.87 E-value=7 Score=25.78 Aligned_cols=38 Identities=21% Similarity=0.245 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhh
Q 047854 19 EEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVN 58 (259)
Q Consensus 19 EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~ 58 (259)
+=|.+|+.++...+.-.+..||+.++ =|+..|..|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 45888999999998889999999995 788889888764
No 66
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=60.46 E-value=12 Score=38.50 Aligned_cols=48 Identities=15% Similarity=0.355 Sum_probs=39.4
Q ss_pred CCCCCHHhHHHHHHHHHHcCCCHHHHHh----------hCCCCCHHHHHHHHHHhhhc
Q 047854 66 RGQLTPQEEGIIIELHALWGNKWSTIAR----------YLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G~~W~~Ia~----------~l~gRT~~qcknrw~~~lkk 113 (259)
+..||..|+.-+..+++++|+.+..|-+ ...-+|..|++.+|+..+.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~ 145 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRR 145 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHH
Confidence 5679999999999999999999998822 22347888999998877765
No 67
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=60.41 E-value=16 Score=30.62 Aligned_cols=44 Identities=9% Similarity=-0.007 Sum_probs=38.0
Q ss_pred HHhHHHHHHHHHHcCC-CHHHHHhhCCCCCHHHHHHHHHHhhhccc
Q 047854 71 PQEEGIIIELHALWGN-KWSTIARYLPGRTDNEIKNYWRTHFKKEK 115 (259)
Q Consensus 71 ~eED~~Ll~~v~~~G~-~W~~Ia~~l~gRT~~qcknrw~~~lkk~~ 115 (259)
++-|.+|+.+..+-|. .|++||+.+ |-|...|..|++.+.....
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 5668899998888874 599999999 9999999999999988644
No 68
>smart00595 MADF subfamily of SANT domain.
Probab=56.38 E-value=12 Score=27.74 Aligned_cols=25 Identities=32% Similarity=0.621 Sum_probs=21.3
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 88 WSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 88 W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
|..||..| +-|...|+.+|+++-..
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 99999999 55999999999877543
No 69
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=55.50 E-value=26 Score=27.82 Aligned_cols=38 Identities=21% Similarity=0.245 Sum_probs=27.9
Q ss_pred HHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 75 GIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 75 ~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..++.+....|-.+.+||+.+ |.|...|+.+.....++
T Consensus 119 r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 119 RKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333444344577899999999 99999999988766544
No 70
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=54.62 E-value=11 Score=31.17 Aligned_cols=44 Identities=14% Similarity=0.145 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCC
Q 047854 19 EEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGL 64 (259)
Q Consensus 19 EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l 64 (259)
+-|.+|+.++...|.-.|.+||+.+ |-+...|+.|+.+....++
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l--glS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF--GVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH--CcCHHHHHHHHHHHHHCCC
Confidence 5789999999999988999999999 4888899999987765543
No 71
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=54.35 E-value=6.5 Score=29.83 Aligned_cols=17 Identities=24% Similarity=0.505 Sum_probs=10.2
Q ss_pred CCCcCCCCCHHhHHHHH
Q 047854 62 PGLKRGQLTPQEEGIII 78 (259)
Q Consensus 62 p~l~k~~WT~eED~~Ll 78 (259)
|....|-||+++|..|.
T Consensus 43 P~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT---HHHHHHHT
T ss_pred CCCCCCCcCHHHHHHHH
Confidence 56678899999999993
No 72
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=54.31 E-value=14 Score=37.78 Aligned_cols=50 Identities=20% Similarity=0.339 Sum_probs=44.4
Q ss_pred CcCCCCCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 64 LKRGQLTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 64 l~k~~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
...++||..|-.+...+....|.+.+.|+..+|+|+..|||.+|..--++
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r 456 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKR 456 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhc
Confidence 34568999999999999999999999999999999999999998655444
No 73
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=54.21 E-value=20 Score=30.62 Aligned_cols=42 Identities=24% Similarity=0.125 Sum_probs=35.6
Q ss_pred CCCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHh
Q 047854 68 QLTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTH 110 (259)
Q Consensus 68 ~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~ 110 (259)
.||+|..+.|.++. .-|-.=++||..|.+.|.|.|.-+.+.+
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hRl 43 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHRL 43 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhcc
Confidence 59999999988887 4588889999999779999998876654
No 74
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=51.91 E-value=11 Score=38.50 Aligned_cols=49 Identities=14% Similarity=0.279 Sum_probs=44.3
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhh
Q 047854 8 EQGWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVN 58 (259)
Q Consensus 8 ~p~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~ 58 (259)
.+....++||.+|-++...++...|. +.+.||..++ +|+.+|++..|..
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 45667789999999999999999999 8999999999 9999999998864
No 75
>smart00351 PAX Paired Box domain.
Probab=51.19 E-value=62 Score=26.00 Aligned_cols=81 Identities=19% Similarity=0.126 Sum_probs=51.2
Q ss_pred CccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCC-Cccccchhhhh--hccCCC----cCCCCCHHhHH
Q 047854 3 WGATTEQGWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNR-SGKSCRLRWVN--YLRPGL----KRGQLTPQEEG 75 (259)
Q Consensus 3 W~~~l~p~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gR-t~~Qcr~Rw~~--~L~p~l----~k~~WT~eED~ 75 (259)
|..+=..-.+..+.+.++-.+++.++. -|. .-..||+.++..| |...+..||.. .+.|.- ....-++.++.
T Consensus 5 ~~~~~~~~~~~~~~s~~~R~riv~~~~-~G~-s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~ 82 (125)
T smart00351 5 VNQLGGVFVNGRPLPDEERQRIVELAQ-NGV-RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVK 82 (125)
T ss_pred cccCCCeecCCCCCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHH
Confidence 444333445556799999999988876 455 6899999997555 34556666653 244421 12235566666
Q ss_pred HHHHHHHHcC
Q 047854 76 IIIELHALWG 85 (259)
Q Consensus 76 ~Ll~~v~~~G 85 (259)
.|++++.+.+
T Consensus 83 ~I~~~~~~~p 92 (125)
T smart00351 83 KIADYKQENP 92 (125)
T ss_pred HHHHHHHHCC
Confidence 6777776655
No 76
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=51.08 E-value=24 Score=26.79 Aligned_cols=31 Identities=19% Similarity=0.380 Sum_probs=25.8
Q ss_pred HHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHH
Q 047854 74 EGIIIELHALWGNKWSTIARYLPGRTDNEIKN 105 (259)
Q Consensus 74 D~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qckn 105 (259)
|+.|..++...|..|..+|.+| |=|..+|..
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I~~ 32 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDIYR 32 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 5678899999999999999999 767666543
No 77
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=50.52 E-value=25 Score=27.38 Aligned_cols=47 Identities=17% Similarity=0.157 Sum_probs=30.0
Q ss_pred CCCCHHhHHHHHHHHHHc----CC----CHHHH----HhhC-CCCCHHHHHHHHHHhhhc
Q 047854 67 GQLTPQEEGIIIELHALW----GN----KWSTI----ARYL-PGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 67 ~~WT~eED~~Ll~~v~~~----G~----~W~~I----a~~l-~gRT~~qcknrw~~~lkk 113 (259)
..||++++..||+.+..| |. .|... ...+ ..=|.+|+.++.+.+-++
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 469999999999999877 52 34333 3333 223667776666555443
No 78
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=50.40 E-value=46 Score=31.67 Aligned_cols=45 Identities=22% Similarity=0.457 Sum_probs=35.8
Q ss_pred CCCCCHHhHHHHHHHHHHc-CCC---HHHHHhhCCCCCHHHHHHHHHHh
Q 047854 66 RGQLTPQEEGIIIELHALW-GNK---WSTIARYLPGRTDNEIKNYWRTH 110 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~-G~~---W~~Ia~~l~gRT~~qcknrw~~~ 110 (259)
-..||.-|...|+.+..-. |.. -..|++.++||+..+|++.-..+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~L 69 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQL 69 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHH
Confidence 4579999999999888754 433 56889999999999999865444
No 79
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=48.94 E-value=12 Score=31.39 Aligned_cols=45 Identities=18% Similarity=0.200 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCC
Q 047854 18 PEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGL 64 (259)
Q Consensus 18 ~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l 64 (259)
.+-|.+|+.++...|.-.|.+||+.++ =+...|+.|+.+....++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 456899999999998889999999995 788889999988766543
No 80
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=48.46 E-value=19 Score=35.88 Aligned_cols=46 Identities=17% Similarity=0.253 Sum_probs=40.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhh
Q 047854 10 GWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWV 57 (259)
Q Consensus 10 ~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~ 57 (259)
+.....||.||--+|.++...||+ ++.+|-..|| .|+-..+..-|.
T Consensus 184 ~~~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP-~rsLaSlvqyYy 229 (534)
T KOG1194|consen 184 TEFPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALP-HRSLASLVQYYY 229 (534)
T ss_pred CCCcccchHHHHHHHHHHHHHhcc-cHHHHHHHcc-CccHHHHHHHHH
Confidence 445567999999999999999999 8999999999 999988877655
No 81
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=46.43 E-value=48 Score=24.74 Aligned_cols=37 Identities=19% Similarity=0.305 Sum_probs=26.3
Q ss_pred HHHHHHHHcCC--------CHHHHHhhCCC---CC--HHHHHHHHHHhhh
Q 047854 76 IIIELHALWGN--------KWSTIARYLPG---RT--DNEIKNYWRTHFK 112 (259)
Q Consensus 76 ~Ll~~v~~~G~--------~W~~Ia~~l~g---RT--~~qcknrw~~~lk 112 (259)
.|..+|.+.|+ .|..||+.|.- -+ ..+++..|.++|.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 36777777773 59999998822 12 3678999988764
No 82
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=46.40 E-value=18 Score=28.95 Aligned_cols=46 Identities=20% Similarity=0.368 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHHHHHHh------------CC------------------CChhhhhhhcccCCCccccchhhhhhcc
Q 047854 15 PWTPEEDKLLTEHVNLL------------GE------------------GRWSSVARSAGLNRSGKSCRLRWVNYLR 61 (259)
Q Consensus 15 ~WT~EED~~L~~lV~~~------------g~------------------~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~ 61 (259)
+||++||-.|...|.+| |. .-....++..| ..|...=|+||++.+.
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p-~HT~~sWRDR~RKfv~ 76 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNP-RHTENSWRDRYRKFVS 76 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTT-TS-HHHHHHHHHHTHH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCC-ccchhHHHHHHHHHHH
Confidence 58999999999999776 11 12445556666 7777888888877653
No 83
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=44.83 E-value=39 Score=25.98 Aligned_cols=34 Identities=29% Similarity=0.298 Sum_probs=24.9
Q ss_pred HHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 79 ELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 79 ~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.++...|..+.+||+.+ |-|...|+.+....+++
T Consensus 120 ~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 120 VLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred hhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33334577899999999 67888888887666544
No 84
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=43.81 E-value=56 Score=24.84 Aligned_cols=43 Identities=12% Similarity=0.090 Sum_probs=36.6
Q ss_pred HhHHHHHHHHHHcCC-CHHHHHhhCCCCCHHHHHHHHHHhhhccc
Q 047854 72 QEEGIIIELHALWGN-KWSTIARYLPGRTDNEIKNYWRTHFKKEK 115 (259)
Q Consensus 72 eED~~Ll~~v~~~G~-~W~~Ia~~l~gRT~~qcknrw~~~lkk~~ 115 (259)
+.|..|+.+....|. .++.||+.+ |-+...|+.+...+.....
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 568889998888774 599999999 9999999999988877643
No 85
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=43.22 E-value=54 Score=24.71 Aligned_cols=38 Identities=21% Similarity=0.302 Sum_probs=27.3
Q ss_pred HHHHHHHHcCC--------CHHHHHhhCCCC-----CHHHHHHHHHHhhhc
Q 047854 76 IIIELHALWGN--------KWSTIARYLPGR-----TDNEIKNYWRTHFKK 113 (259)
Q Consensus 76 ~Ll~~v~~~G~--------~W~~Ia~~l~gR-----T~~qcknrw~~~lkk 113 (259)
.|..+|.+.|+ .|..|+..|.-. ...+++..|.++|.+
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 36677777774 599999988322 356788888887765
No 86
>cd08803 Death_ank3 Death domain of Ankyrin-3. Death Domain (DD) of the human protein ankyrin-3 (ANK-3) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-3, also called anykyrin-G (for general or giant), is found in neurons and at least one splice variant has been shown to be essential for propagation of action potentials as a binding partner to neurofascin and voltage-gated sodium channels. It is required for maintaining axo-dendritic polarity, and may be a genetic risk factor associated with bipolar disorder. ANK-3 may also play roles in other cell types. Mutations affecting ANK-3 pathways for Na channel localization are associated with Brugada syndrome, a potentially fata arrythmia. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=43.11 E-value=44 Score=25.39 Aligned_cols=31 Identities=23% Similarity=0.329 Sum_probs=25.9
Q ss_pred HHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHH
Q 047854 74 EGIIIELHALWGNKWSTIARYLPGRTDNEIKN 105 (259)
Q Consensus 74 D~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qckn 105 (259)
|.+|..+....|..|..+|+.| |=+...|..
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~~ 34 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEINQ 34 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHHH
Confidence 6778889999999999999999 777766554
No 87
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=41.90 E-value=30 Score=38.43 Aligned_cols=75 Identities=12% Similarity=0.166 Sum_probs=48.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCCCcCCCCCHHhHHHHHHHHHHc-CCCHHHHH
Q 047854 14 GPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGIIIELHALW-GNKWSTIA 92 (259)
Q Consensus 14 g~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~Ll~~v~~~-G~~W~~Ia 92 (259)
--|..++|..|+-.|-+||-++|..|-.- | .=|... +..+......+.+=...-..|+.+...+ +.+|...+
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir~D-p-----~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~~ 1206 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIRLD-P-----DLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKKL 1206 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhccC-c-----cccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCchhh
Confidence 45999999999999999999999999431 1 111110 1112222445566677777778877777 55566555
Q ss_pred hhC
Q 047854 93 RYL 95 (259)
Q Consensus 93 ~~l 95 (259)
+.-
T Consensus 1207 ~~~ 1209 (1373)
T KOG0384|consen 1207 KRE 1209 (1373)
T ss_pred hcc
Confidence 433
No 88
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=41.65 E-value=18 Score=24.24 Aligned_cols=39 Identities=15% Similarity=0.170 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhh
Q 047854 18 PEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNY 59 (259)
Q Consensus 18 ~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~ 59 (259)
++++..++.+....|. .+.+||..+ |.|...++.+..+.
T Consensus 12 ~~~~r~i~~l~~~~g~-s~~eIa~~l--~~s~~~v~~~l~ra 50 (54)
T PF08281_consen 12 PERQREIFLLRYFQGM-SYAEIAEIL--GISESTVKRRLRRA 50 (54)
T ss_dssp -HHHHHHHHHHHTS----HHHHHHHC--TS-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCc-CHHHHHHHH--CcCHHHHHHHHHHH
Confidence 4566777777777777 899999998 58888888776653
No 89
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=40.75 E-value=55 Score=26.58 Aligned_cols=34 Identities=15% Similarity=0.172 Sum_probs=25.3
Q ss_pred HHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 79 ELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 79 ~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.+....|-....||..| |.|...|+.+.....++
T Consensus 138 ~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 138 TLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33334577899999999 88999998887655444
No 90
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=40.27 E-value=85 Score=19.55 Aligned_cols=37 Identities=22% Similarity=0.236 Sum_probs=26.4
Q ss_pred hHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHh
Q 047854 73 EEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTH 110 (259)
Q Consensus 73 ED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~ 110 (259)
++..++.++..-|..+..||+.+ |-+...|+.+....
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 34556666666778899999998 77777777665443
No 91
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=40.03 E-value=36 Score=25.39 Aligned_cols=31 Identities=26% Similarity=0.575 Sum_probs=24.6
Q ss_pred HHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHH
Q 047854 74 EGIIIELHALWGNKWSTIARYLPGRTDNEIKN 105 (259)
Q Consensus 74 D~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qckn 105 (259)
|..|..++...|..|.++|+.| |=|..+|..
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI~~ 34 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDIDL 34 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHHHH
Confidence 5567888889999999999999 666665543
No 92
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=38.18 E-value=23 Score=36.39 Aligned_cols=47 Identities=15% Similarity=0.383 Sum_probs=35.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChhhhhhh----------cccCCCccccchhhhhhc
Q 047854 12 RKGPWTPEEDKLLTEHVNLLGEGRWSSVARS----------AGLNRSGKSCRLRWVNYL 60 (259)
Q Consensus 12 rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~----------l~~gRt~~Qcr~Rw~~~L 60 (259)
.|..||-.|..-+..++..+|+ ++.+|-.. .. -+|-.|+|..|++.+
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~-~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQ-SKTKDQVRHYYYRLV 143 (782)
T ss_pred cccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchh-hhhhHHHHHHHHHHH
Confidence 4678999999999999999999 88888322 22 345578888877554
No 93
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=37.75 E-value=33 Score=29.19 Aligned_cols=40 Identities=25% Similarity=0.201 Sum_probs=30.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhh
Q 047854 15 PWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWV 57 (259)
Q Consensus 15 ~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~ 57 (259)
.||+|+.++|.++... |. .=.+||+.|+ +.|.+.+.-+.+
T Consensus 2 ~Wtde~~~~L~~lw~~-G~-SasqIA~~lg-~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GL-SASQIARQLG-GVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHHHc-CC-CHHHHHHHhC-Ccchhhhhhhhh
Confidence 4999999999999855 43 5899999998 566655555444
No 94
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=37.13 E-value=65 Score=26.05 Aligned_cols=30 Identities=23% Similarity=0.244 Sum_probs=23.5
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..|.....||..| |-|...|+++.....++
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 88999998887665544
No 95
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=36.93 E-value=51 Score=24.86 Aligned_cols=28 Identities=32% Similarity=0.520 Sum_probs=22.4
Q ss_pred HHHHHHHcCCCHHHHHhhCCCCCHHHHHH
Q 047854 77 IIELHALWGNKWSTIARYLPGRTDNEIKN 105 (259)
Q Consensus 77 Ll~~v~~~G~~W~~Ia~~l~gRT~~qckn 105 (259)
|..+....|..|..+|+.| |-+..+|..
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI~~ 37 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEIRA 37 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4446678899999999999 888887743
No 96
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=36.03 E-value=71 Score=26.99 Aligned_cols=34 Identities=18% Similarity=0.179 Sum_probs=25.1
Q ss_pred HHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 79 ELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 79 ~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.+....|....+||..+ |-|...|++|.....++
T Consensus 144 ~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 144 VAVDMQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 33334567799999999 89999999988555443
No 97
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=36.03 E-value=92 Score=20.04 Aligned_cols=35 Identities=23% Similarity=0.217 Sum_probs=26.4
Q ss_pred HhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHH
Q 047854 72 QEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYW 107 (259)
Q Consensus 72 eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw 107 (259)
-|...|.+++..++++-+..|+.| |=+...+..+-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 467788999999999999999998 66666665544
No 98
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=35.86 E-value=80 Score=25.39 Aligned_cols=44 Identities=9% Similarity=0.019 Sum_probs=36.8
Q ss_pred HHhHHHHHHHHHHcCC-CHHHHHhhCCCCCHHHHHHHHHHhhhccc
Q 047854 71 PQEEGIIIELHALWGN-KWSTIARYLPGRTDNEIKNYWRTHFKKEK 115 (259)
Q Consensus 71 ~eED~~Ll~~v~~~G~-~W~~Ia~~l~gRT~~qcknrw~~~lkk~~ 115 (259)
++-|.+|+++..+-+. .++.||+.+ |-|...|..|-+++.+...
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCc
Confidence 3557888888888775 499999999 9999999999999988643
No 99
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=35.08 E-value=78 Score=28.11 Aligned_cols=45 Identities=16% Similarity=0.227 Sum_probs=34.1
Q ss_pred CCCHHhHHHHHHHHHHcCCCHHHHHhh--C-CCCCHHHHHHHHHHhhhc
Q 047854 68 QLTPQEEGIIIELHALWGNKWSTIARY--L-PGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 68 ~WT~eED~~Ll~~v~~~G~~W~~Ia~~--l-~gRT~~qcknrw~~~lkk 113 (259)
.|++++|-.|+.+|.. ++.-..|+.. | -.-|-..|..||+.++--
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd 48 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYD 48 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcC
Confidence 4999999999998854 5556666553 2 345889999999998774
No 100
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=34.06 E-value=39 Score=24.12 Aligned_cols=26 Identities=27% Similarity=0.529 Sum_probs=21.0
Q ss_pred HHHHHhhCC-CCCHHHHHHHHHHhhhc
Q 047854 88 WSTIARYLP-GRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 88 W~~Ia~~l~-gRT~~qcknrw~~~lkk 113 (259)
|..||..|. .-+...|+.+|.++...
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 999999994 36788999999887543
No 101
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=33.82 E-value=88 Score=25.72 Aligned_cols=35 Identities=20% Similarity=0.310 Sum_probs=26.7
Q ss_pred HHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 78 IELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 78 l~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
+.+....|-...+||..+ |.|...|+.+...-+++
T Consensus 128 ~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 162 (172)
T PRK12523 128 FLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQ 162 (172)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333444567899999999 99999999987666554
No 102
>PRK04217 hypothetical protein; Provisional
Probab=32.92 E-value=98 Score=24.79 Aligned_cols=44 Identities=16% Similarity=0.064 Sum_probs=35.1
Q ss_pred CCCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 68 QLTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 68 ~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.-|++| ..++.++...|-...+||+.+ |.|...|+.++....++
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 355555 677788877888999999999 99999999988665443
No 103
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=32.46 E-value=55 Score=32.88 Aligned_cols=40 Identities=20% Similarity=0.461 Sum_probs=36.4
Q ss_pred CCCHHhHHHHHHHHHHcCCCHHHH-HhhCCCCCHHHHHHHH
Q 047854 68 QLTPQEEGIIIELHALWGNKWSTI-ARYLPGRTDNEIKNYW 107 (259)
Q Consensus 68 ~WT~eED~~Ll~~v~~~G~~W~~I-a~~l~gRT~~qcknrw 107 (259)
.|+.-|-.++-++..+||+.+..| +.+||-+|-..|-.+|
T Consensus 287 EWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 287 EWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred hccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHH
Confidence 699999999999999999999999 5577999999998876
No 104
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=32.21 E-value=85 Score=25.84 Aligned_cols=29 Identities=10% Similarity=-0.041 Sum_probs=22.2
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|....+||..+ |-|...++++.....++
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456789999999 88899998876555443
No 105
>TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=31.32 E-value=99 Score=26.06 Aligned_cols=34 Identities=9% Similarity=0.005 Sum_probs=25.6
Q ss_pred HHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 79 ELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 79 ~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.+....|....+||..| |-|.+.|+.|.....++
T Consensus 141 ~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 141 MMREVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33334467789999999 99999999987666554
No 106
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=31.21 E-value=1e+02 Score=24.61 Aligned_cols=29 Identities=10% Similarity=0.047 Sum_probs=23.1
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|-.-.+||..| |-|...|+++....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 88999999987665544
No 107
>cd08311 Death_p75NR Death domain of p75 Neurotophin Receptor. Death Domain (DD) found in p75 neurotrophin receptor (p75NTR, NGFR, TNFRSF16). p75NTR binds members of the neurotrophin (NT) family including nerve growth factor (NGF), brain-derived neurotrophic factor (BDNF), and NT3, among others. It contains an NT-binding extracellular region that bears four cysteine-rich repeats, a transmembrane domain, and an intracellular DD. p75NTR plays roles in the immune, vascular, and nervous systems, and has been shown to promote cell death or survival, and to induce neurite outgrowth or collapse depending on its ligands and co-receptors. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptor
Probab=30.90 E-value=64 Score=24.07 Aligned_cols=33 Identities=27% Similarity=0.430 Sum_probs=25.5
Q ss_pred HHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHH
Q 047854 71 PQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKN 105 (259)
Q Consensus 71 ~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qckn 105 (259)
.||.++|+..= ..|.+|...|..| |=+...|++
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHHHH
Confidence 57888887432 5688899999999 777877766
No 108
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=30.69 E-value=1e+02 Score=25.13 Aligned_cols=30 Identities=20% Similarity=0.227 Sum_probs=22.8
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
-.|-.-.+||..| |.|...|+.+....+++
T Consensus 132 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 132 YRGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466688899988 88899998887665544
No 109
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=30.35 E-value=99 Score=25.22 Aligned_cols=29 Identities=21% Similarity=0.360 Sum_probs=21.3
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|-...+||..+ |-|...|+++.....++
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 455688888888 77888888877655544
No 110
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=30.23 E-value=1.6e+02 Score=23.29 Aligned_cols=50 Identities=18% Similarity=0.188 Sum_probs=35.0
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhc
Q 047854 6 TTEQGWRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYL 60 (259)
Q Consensus 6 ~l~p~~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L 60 (259)
++.| .++..||+|+-..++..+...|. .-..||+.++. +..+ -.+|.+.+
T Consensus 4 ~~~~-~~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI--s~~t-l~~W~r~y 53 (121)
T PRK09413 4 VLGP-EKRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV--AASQ-LFLWRKQY 53 (121)
T ss_pred cCCC-CCCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc--CHHH-HHHHHHHH
Confidence 3455 34577999998888887777776 78899999873 3333 34566654
No 111
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=30.22 E-value=1.1e+02 Score=24.65 Aligned_cols=30 Identities=13% Similarity=-0.098 Sum_probs=23.0
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..|-.-.+||..+ |-|...|+++.....++
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 120 LEEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 99999999987555443
No 112
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=30.05 E-value=1e+02 Score=26.08 Aligned_cols=37 Identities=22% Similarity=0.281 Sum_probs=28.2
Q ss_pred HHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhh
Q 047854 74 EGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHF 111 (259)
Q Consensus 74 D~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~l 111 (259)
...++++..-.|-.+.+||..+ |-|...|+.+|...-
T Consensus 140 ~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 140 QRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 3444455455678899999999 999999999986653
No 113
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=30.00 E-value=1.1e+02 Score=25.84 Aligned_cols=30 Identities=17% Similarity=0.095 Sum_probs=22.0
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..|-...+||..| |-|...|+.|....+++
T Consensus 155 ~eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 155 LEELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred HcCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 3466788888888 88888888886555544
No 114
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=29.88 E-value=76 Score=23.89 Aligned_cols=31 Identities=26% Similarity=0.431 Sum_probs=25.3
Q ss_pred HHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHH
Q 047854 74 EGIIIELHALWGNKWSTIARYLPGRTDNEIKN 105 (259)
Q Consensus 74 D~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qckn 105 (259)
|..|.......|.+|..+|+.| |=|...|..
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4567778888999999999999 777776655
No 115
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=29.82 E-value=1.1e+02 Score=24.36 Aligned_cols=29 Identities=21% Similarity=0.207 Sum_probs=21.1
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|..-.+||..+ |.|...|+++-...+++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 355678888888 88888888876555544
No 116
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=29.74 E-value=1.1e+02 Score=25.86 Aligned_cols=29 Identities=3% Similarity=-0.121 Sum_probs=23.7
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|-...+||..| |.|...|+.|.....++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466799999999 99999999987655544
No 117
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=29.66 E-value=1.1e+02 Score=25.54 Aligned_cols=30 Identities=13% Similarity=0.124 Sum_probs=23.0
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..|-...+||..| |-|...|+++.....++
T Consensus 145 ~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 145 YHEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466789999999 88999999987655443
No 118
>cd00131 PAX Paired Box domain
Probab=29.59 E-value=2.4e+02 Score=22.79 Aligned_cols=73 Identities=18% Similarity=0.141 Sum_probs=47.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhcccCC-Cccccchhhhhh--ccCCCcCC----CCCHHhHHHHHHHHHH
Q 047854 11 WRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNR-SGKSCRLRWVNY--LRPGLKRG----QLTPQEEGIIIELHAL 83 (259)
Q Consensus 11 ~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gR-t~~Qcr~Rw~~~--L~p~l~k~----~WT~eED~~Ll~~v~~ 83 (259)
....+.|.++-++++.++. -|. .-..||+.++..+ |..-+..||... +.|....+ .-+++.+..|+.++.+
T Consensus 13 ~m~~~lS~d~R~rIv~~~~-~G~-s~~~iA~~~~Vs~~tV~r~i~r~~e~G~v~pk~~gg~rpr~~~~~~~~~i~~~v~~ 90 (128)
T cd00131 13 VNGRPLPDSIRQRIVELAQ-SGI-RPCDISRQLRVSHGCVSKILNRYYETGSIRPGAIGGSKPRVATPEVVKKIEIYKQE 90 (128)
T ss_pred cCCCcCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCCCCCCCCCCcCCHHHHHHHHHHHHH
Confidence 3446799999999998875 565 7999999987544 344556666532 44532222 2466666667766766
Q ss_pred cC
Q 047854 84 WG 85 (259)
Q Consensus 84 ~G 85 (259)
.+
T Consensus 91 ~p 92 (128)
T cd00131 91 NP 92 (128)
T ss_pred CC
Confidence 54
No 119
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=29.25 E-value=2.5e+02 Score=30.91 Aligned_cols=46 Identities=17% Similarity=0.404 Sum_probs=38.3
Q ss_pred CCCHHhHHHHHHHHHHcCC-CHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 68 QLTPQEEGIIIELHALWGN-KWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 68 ~WT~eED~~Ll~~v~~~G~-~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.||.-+=..++.++.+||. .-..||..+.|+|...|+.+......+
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~~ 872 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWER 872 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHHh
Confidence 4888888888889999995 489999999999999999876655544
No 120
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=29.24 E-value=1.1e+02 Score=25.26 Aligned_cols=29 Identities=10% Similarity=0.090 Sum_probs=22.0
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|....+||..| |-|...|+.+.....++
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 466788888888 88888888887655544
No 121
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=29.22 E-value=1.1e+02 Score=25.73 Aligned_cols=29 Identities=24% Similarity=0.063 Sum_probs=21.9
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhh
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFK 112 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lk 112 (259)
..|-...+||..| |-|...|+++.....+
T Consensus 120 ~~g~~~~EIA~~l-gis~~tV~~~l~Rar~ 148 (181)
T PRK09637 120 LEGLSQKEIAEKL-GLSLSGAKSRVQRGRV 148 (181)
T ss_pred hcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 3466789999999 8888888888755443
No 122
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=29.22 E-value=83 Score=26.00 Aligned_cols=28 Identities=14% Similarity=0.158 Sum_probs=21.9
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 85 GNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 85 G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
|....+||..+ |-|...|+++.....++
T Consensus 154 ~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 154 GLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 55689999998 88899998887665544
No 123
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=29.20 E-value=81 Score=22.98 Aligned_cols=32 Identities=25% Similarity=0.478 Sum_probs=23.0
Q ss_pred hHHHHHHHHHH-cCCCHHHHHhhCCCCCHHHHHH
Q 047854 73 EEGIIIELHAL-WGNKWSTIARYLPGRTDNEIKN 105 (259)
Q Consensus 73 ED~~Ll~~v~~-~G~~W~~Ia~~l~gRT~~qckn 105 (259)
-...|..++.. .|..|..+|+.| |-+..+|..
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i~~ 36 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEADIDQ 36 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHHHHH
Confidence 34556666666 899999999999 556665543
No 124
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=29.10 E-value=1.1e+02 Score=25.38 Aligned_cols=30 Identities=13% Similarity=0.140 Sum_probs=23.0
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..|....+||..| |-|...|+.+....+++
T Consensus 153 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 153 VVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 88899998887655544
No 125
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=28.84 E-value=1.2e+02 Score=25.23 Aligned_cols=31 Identities=26% Similarity=0.258 Sum_probs=24.8
Q ss_pred HHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 82 ALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 82 ~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
...|-...+||..| |-|...|+.|...-+..
T Consensus 140 ~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~ 170 (178)
T PRK12529 140 TLDGMKQKDIAQAL-DIALPTVKKYIHQAYVT 170 (178)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34467899999999 99999999997665544
No 126
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=28.53 E-value=1.1e+02 Score=25.71 Aligned_cols=30 Identities=10% Similarity=-0.002 Sum_probs=22.8
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..|-.+.+||+.| |-|...|+++.....++
T Consensus 150 ~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 150 IEGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466799999999 88888888877555444
No 127
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=28.46 E-value=59 Score=27.44 Aligned_cols=48 Identities=15% Similarity=0.218 Sum_probs=33.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChhhhhhhccc---CCCccccchhhhhh
Q 047854 11 WRKGPWTPEEDKLLTEHVNLLGEGRWSSVARSAGL---NRSGKSCRLRWVNY 59 (259)
Q Consensus 11 ~rkg~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~---gRt~~Qcr~Rw~~~ 59 (259)
-+...-|+.|..-|..||.+||+ +....|.-..+ -.|+.||+.++..+
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 45566899999999999999998 78887764321 24566666555443
No 128
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=28.31 E-value=74 Score=24.13 Aligned_cols=30 Identities=37% Similarity=0.508 Sum_probs=24.0
Q ss_pred HHHHHHHHHcCCCHHHHHhhCCCCCHHHHHH
Q 047854 75 GIIIELHALWGNKWSTIARYLPGRTDNEIKN 105 (259)
Q Consensus 75 ~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qckn 105 (259)
+.|-.+....|..|..+|+.| |=|..+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 445556677899999999999 888887766
No 129
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=28.13 E-value=83 Score=23.92 Aligned_cols=29 Identities=24% Similarity=0.354 Sum_probs=22.8
Q ss_pred HHHHHHHHHHcCCCHHHHHhhCCCCCHHHH
Q 047854 74 EGIIIELHALWGNKWSTIARYLPGRTDNEI 103 (259)
Q Consensus 74 D~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qc 103 (259)
|.+|...+...|..|..+|+.| |=|...|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~~dI 32 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSVEDI 32 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCHHHH
Confidence 5677888899999999999998 5555433
No 130
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=27.89 E-value=1e+02 Score=25.31 Aligned_cols=28 Identities=11% Similarity=0.008 Sum_probs=20.3
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 85 GNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 85 G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
|..-.+||..| |.|...|+++.....++
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55678888888 78888888876554443
No 131
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=27.54 E-value=1.1e+02 Score=25.53 Aligned_cols=28 Identities=11% Similarity=0.082 Sum_probs=20.6
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 85 GNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 85 G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
|-...+||..+ |-|...|+++.....++
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55678888888 78888888877655544
No 132
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=27.50 E-value=1.1e+02 Score=24.69 Aligned_cols=29 Identities=28% Similarity=0.297 Sum_probs=21.1
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|-.-.+||+.| |.|...|+.+.....++
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~~ 165 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIKK 165 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356678888888 88888888876555443
No 133
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=26.77 E-value=46 Score=24.50 Aligned_cols=36 Identities=25% Similarity=0.249 Sum_probs=26.0
Q ss_pred hhhhhhhcccCCCccccchhhhhhccCCCcCCCCCHHhHHHHHH
Q 047854 36 WSSVARSAGLNRSGKSCRLRWVNYLRPGLKRGQLTPQEEGIIIE 79 (259)
Q Consensus 36 W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~l~k~~WT~eED~~Ll~ 79 (259)
-..||..+. |+|+.++|..+. -...+|++|+..|.+
T Consensus 36 ~~~iA~~i~-gks~eeir~~fg-------i~~d~t~eee~~i~~ 71 (78)
T PF01466_consen 36 CKYIANMIK-GKSPEEIRKYFG-------IENDLTPEEEEEIRK 71 (78)
T ss_dssp HHHHHHHHT-TS-HHHHHHHHT----------TSSHHHHHHHHH
T ss_pred HHHHHHHhc-CCCHHHHHHHcC-------CCCCCCHHHHHHHHH
Confidence 677889998 999999999773 234699988877543
No 134
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=26.50 E-value=73 Score=24.07 Aligned_cols=28 Identities=21% Similarity=0.430 Sum_probs=22.3
Q ss_pred HHHHHHHHHcCCCHHHHHhhCCCCCHHHH
Q 047854 75 GIIIELHALWGNKWSTIARYLPGRTDNEI 103 (259)
Q Consensus 75 ~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qc 103 (259)
..|..+..+.|..|..+++.| |=|...|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L-Glse~~I 30 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL-GLSYREL 30 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc-CCCHHHH
Confidence 457888999999999999999 5554443
No 135
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=26.06 E-value=57 Score=26.26 Aligned_cols=43 Identities=14% Similarity=0.054 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCC
Q 047854 19 EEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPG 63 (259)
Q Consensus 19 EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~ 63 (259)
+-|.++++++...+...+..||+.++ -+...|+.|-.+..+..
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~G 50 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEG 50 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCC
Confidence 56888999999998889999999995 88888999887765544
No 136
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=26.03 E-value=1.4e+02 Score=24.48 Aligned_cols=29 Identities=24% Similarity=0.259 Sum_probs=22.5
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|-...+||..+ |-|...|+.+.....++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 177 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARAW 177 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 456789999999 89999999987655443
No 137
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=25.76 E-value=95 Score=20.29 Aligned_cols=37 Identities=32% Similarity=0.415 Sum_probs=18.2
Q ss_pred CCCHHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHH
Q 047854 68 QLTPQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNY 106 (259)
Q Consensus 68 ~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknr 106 (259)
.+|.+|-..|..+ .+-|..=..||+.| ||+...|..-
T Consensus 4 ~Lt~~eR~~I~~l-~~~G~s~~~IA~~l-g~s~sTV~re 40 (44)
T PF13936_consen 4 HLTPEERNQIEAL-LEQGMSIREIAKRL-GRSRSTVSRE 40 (44)
T ss_dssp --------HHHHH-HCS---HHHHHHHT-T--HHHHHHH
T ss_pred chhhhHHHHHHHH-HHcCCCHHHHHHHH-CcCcHHHHHH
Confidence 4566666665555 46777889999999 9999887653
No 138
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=25.51 E-value=1.4e+02 Score=24.70 Aligned_cols=30 Identities=20% Similarity=0.173 Sum_probs=23.6
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..|-...+||+.| |.|...|+++.....++
T Consensus 143 ~~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 143 LEGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4466789999999 99999999987655444
No 139
>PRK00118 putative DNA-binding protein; Validated
Probab=25.49 E-value=1.6e+02 Score=23.31 Aligned_cols=42 Identities=14% Similarity=0.073 Sum_probs=33.4
Q ss_pred HHhHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 71 PQEEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 71 ~eED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
++.+..++.+....|-..++||+.+ |-|...|+.+.....+.
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArkk 60 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEKL 60 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 4556777788888899999999999 99999998876554443
No 140
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=25.37 E-value=87 Score=33.53 Aligned_cols=96 Identities=13% Similarity=0.205 Sum_probs=62.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhhhhhhcccCCCccccc-----------------------------------------
Q 047854 15 PWTPEEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCR----------------------------------------- 53 (259)
Q Consensus 15 ~WT~EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr----------------------------------------- 53 (259)
.||.-+=...+.+..+||.++-..||+.+. + |...+.
T Consensus 797 ~w~k~df~~fi~a~eKygr~di~~ia~~~e-~-~~eev~~y~rvfwer~~el~d~ek~~~~ie~~e~~i~r~~~~~~~ld 874 (971)
T KOG0385|consen 797 NWTKRDFNQFIKANEKYGRDDIENIAAEVE-G-TPEEVGEYARVFWERLEELSDIEKIIYQIERGEKRIQRGDSIKKALD 874 (971)
T ss_pred chhhhhHHHHHHHhhccCcchhhhhHHhhc-C-CHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhHhhhhHHHHHHHHHh
Confidence 488888888888889998887888887775 3 331111
Q ss_pred ---hhhhh----hc-cCCCcCCCCCHHhHHHHHHHHHHcCCC----HHHHHh------------hCCCCCHHHHHHHHHH
Q 047854 54 ---LRWVN----YL-RPGLKRGQLTPQEEGIIIELHALWGNK----WSTIAR------------YLPGRTDNEIKNYWRT 109 (259)
Q Consensus 54 ---~Rw~~----~L-~p~l~k~~WT~eED~~Ll~~v~~~G~~----W~~Ia~------------~l~gRT~~qcknrw~~ 109 (259)
.||++ .+ .+..++...|.+||.-|+..+.++|-. |..+-. ++..||.-.+..|+..
T Consensus 875 ~k~~~~k~p~~l~i~~~~nk~~~ys~~edrfL~~~l~K~g~~~~~~~e~lr~~~~~~~~frfdw~~~sRt~~el~Rr~nt 954 (971)
T KOG0385|consen 875 DKIARYKAPHQLRIQYGTNKGKNYSEEEDRFLECMLHKLGFDAENVYEELRQPIRNSPQFRFDWFIKSRTAMELQRRCNT 954 (971)
T ss_pred hhHhhhcCchheeeeeccccCCCCchhhHHHHHHHHHHhccCchhHHHHHHHHHhcCcccccceeeehhhHHHHHhcCCe
Confidence 13332 11 112256689999999999999999832 555432 2234777767666666
Q ss_pred hhh
Q 047854 110 HFK 112 (259)
Q Consensus 110 ~lk 112 (259)
++.
T Consensus 955 li~ 957 (971)
T KOG0385|consen 955 LIT 957 (971)
T ss_pred eEE
Confidence 654
No 141
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=25.31 E-value=1.6e+02 Score=23.70 Aligned_cols=29 Identities=21% Similarity=0.176 Sum_probs=22.0
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|-.-.+||..| |-|...|+.|....++.
T Consensus 120 ~~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 120 EGLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 355678999999 88999998887655443
No 142
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=25.05 E-value=78 Score=24.02 Aligned_cols=43 Identities=19% Similarity=0.162 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHhCCCChhhhhhhcccCCCccccchhhhhhccCC
Q 047854 19 EEDKLLTEHVNLLGEGRWSSVARSAGLNRSGKSCRLRWVNYLRPG 63 (259)
Q Consensus 19 EED~~L~~lV~~~g~~~W~~IA~~l~~gRt~~Qcr~Rw~~~L~p~ 63 (259)
+.|.+++.++...+.-.+..||+.++ -+...|+.|.......+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 56889999999988778999999984 78888988887665443
No 143
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=24.63 E-value=1.7e+02 Score=24.67 Aligned_cols=46 Identities=22% Similarity=0.236 Sum_probs=37.8
Q ss_pred cCCCCCHHhHHHHHHHHHHcCCCHHHHHhhCC----CCCHHHHHHHHHHh
Q 047854 65 KRGQLTPQEEGIIIELHALWGNKWSTIARYLP----GRTDNEIKNYWRTH 110 (259)
Q Consensus 65 ~k~~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~----gRT~~qcknrw~~~ 110 (259)
....-|+.|..-|..++.+||.++..++.-.. -.|+.||+.+...+
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 44568999999999999999999999987442 48999999887654
No 144
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=24.54 E-value=1.6e+02 Score=23.66 Aligned_cols=30 Identities=23% Similarity=0.243 Sum_probs=22.8
Q ss_pred HHcCCCHHHHHhhCCCCCHHHHHHHHHHhhh
Q 047854 82 ALWGNKWSTIARYLPGRTDNEIKNYWRTHFK 112 (259)
Q Consensus 82 ~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lk 112 (259)
.-.|-.-.+||..+ |-|...|+.|.....+
T Consensus 126 ~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~ 155 (161)
T PRK12528 126 QVDGLGYGEIATEL-GISLATVKRYLNKAAM 155 (161)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 34466789999999 8899999888765543
No 145
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=24.53 E-value=1.5e+02 Score=24.61 Aligned_cols=30 Identities=13% Similarity=0.390 Sum_probs=23.3
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..|-.-.+||..| |-|...|+++.....++
T Consensus 136 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 165 (185)
T PRK12542 136 FYNLTYQEISSVM-GITEANVRKQFERARKR 165 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 99999999987555444
No 146
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=24.44 E-value=1.6e+02 Score=23.91 Aligned_cols=30 Identities=17% Similarity=0.084 Sum_probs=22.7
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..|-.-.+||..+ |.|...|+++-....++
T Consensus 126 ~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 155 (164)
T PRK12547 126 ASGFSYEDAAAIC-GCAVGTIKSRVSRARNR 155 (164)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 88899998887655544
No 147
>smart00541 FYRN "FY-rich" domain, N-terminal region. is sometimes closely juxtaposed with the C-terminal region (FYRC), but sometimes is far distant. Unknown function, but occurs frequently in chromatin-associated proteins.
Probab=24.40 E-value=39 Score=22.60 Aligned_cols=16 Identities=25% Similarity=0.474 Sum_probs=13.9
Q ss_pred CCCccccCceecccCC
Q 047854 244 DSSNFCNGGYIFQEGF 259 (259)
Q Consensus 244 ~~~~~~~~~~~~~~~~ 259 (259)
|..+||+-.|||..||
T Consensus 5 ~~~~fh~~~~IyP~Gy 20 (44)
T smart00541 5 QGKLFHSEDAIFPVGY 20 (44)
T ss_pred cCCCcccCCEEecCCE
Confidence 5568999999999997
No 148
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=23.88 E-value=1.5e+02 Score=24.87 Aligned_cols=29 Identities=14% Similarity=0.083 Sum_probs=22.9
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|-.-.+||..+ |-|...|+.+.....++
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 173 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDA 173 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456689999999 89999999987655544
No 149
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=23.78 E-value=1.6e+02 Score=24.87 Aligned_cols=35 Identities=20% Similarity=0.124 Sum_probs=24.9
Q ss_pred HHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 78 IELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 78 l~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
+.+....|-...+||+.| |-|...|+.|.....++
T Consensus 125 ~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~ 159 (187)
T PRK12516 125 IILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQR 159 (187)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333334567789999999 88999999886555443
No 150
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=23.75 E-value=1.9e+02 Score=19.94 Aligned_cols=34 Identities=26% Similarity=0.417 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHH
Q 047854 73 EEGIIIELHALWGNKWSTIARYLPGRTDNEIKNYW 107 (259)
Q Consensus 73 ED~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw 107 (259)
.|+-.+.+....|-.=.+||+.+ +|+.+.|+++-
T Consensus 8 ~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 8 AEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred HHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 44555777788899999999999 99999888754
No 151
>PLN03162 golden-2 like transcription factor; Provisional
Probab=23.11 E-value=2.7e+02 Score=27.41 Aligned_cols=47 Identities=15% Similarity=0.080 Sum_probs=38.2
Q ss_pred CCCCCHHhHHHHHHHHHHcCCC---HHHHHhhC--CCCCHHHHHHHHHHhhh
Q 047854 66 RGQLTPQEEGIIIELHALWGNK---WSTIARYL--PGRTDNEIKNYWRTHFK 112 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G~~---W~~Ia~~l--~gRT~~qcknrw~~~lk 112 (259)
+-.||+|=.++++++|.+.|.. =+.|-+.| +|=|..+|++|.+++..
T Consensus 237 RLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl 288 (526)
T PLN03162 237 KVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRS 288 (526)
T ss_pred cccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHH
Confidence 3469999999999999999943 67777766 88999999998765543
No 152
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=22.72 E-value=1.7e+02 Score=24.00 Aligned_cols=28 Identities=18% Similarity=0.288 Sum_probs=21.6
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 85 GNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 85 G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
|-.-.+||..| |.|...|+.+.....++
T Consensus 145 g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 172 (179)
T PRK12514 145 GLSYKELAERH-DVPLNTMRTWLRRSLLK 172 (179)
T ss_pred CCCHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence 56688899998 89999998887555443
No 153
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=22.63 E-value=1.6e+02 Score=24.71 Aligned_cols=30 Identities=10% Similarity=0.117 Sum_probs=22.7
Q ss_pred HcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 83 LWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 83 ~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..|-.-.+||..| |-|...|+.+.....++
T Consensus 150 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 179 (195)
T PRK12532 150 ILGFSSDEIQQMC-GISTSNYHTIMHRARES 179 (195)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466788999999 88999998887655443
No 154
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=22.62 E-value=1.6e+02 Score=24.41 Aligned_cols=28 Identities=7% Similarity=-0.019 Sum_probs=18.0
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhh
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFK 112 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lk 112 (259)
.|..-.+||+.+ |-|...|+.+.....+
T Consensus 143 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 170 (186)
T PRK05602 143 QGLSNIEAAAVM-DISVDALESLLARGRR 170 (186)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHH
Confidence 355577777777 7777777776544443
No 155
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.94 E-value=2.8e+02 Score=21.37 Aligned_cols=45 Identities=18% Similarity=0.190 Sum_probs=35.7
Q ss_pred CCCCCHHhHHHHHHHHHHcCCCHHHHHhhCCCC-CHHHHHHHHHHhh
Q 047854 66 RGQLTPQEEGIIIELHALWGNKWSTIARYLPGR-TDNEIKNYWRTHF 111 (259)
Q Consensus 66 k~~WT~eED~~Ll~~v~~~G~~W~~Ia~~l~gR-T~~qcknrw~~~l 111 (259)
+..||+|.-..+++++..-|..=+.||+.| |- ++++++.-++.+.
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~~ 50 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQLQ 50 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHHH
Confidence 567999999999999999999899999999 75 6666654333333
No 156
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=21.86 E-value=1.8e+02 Score=24.21 Aligned_cols=29 Identities=10% Similarity=-0.124 Sum_probs=22.4
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|..-.+||..| |-|...|++|.....++
T Consensus 146 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 174 (191)
T PRK12520 146 LELETEEICQEL-QITATNAWVLLYRARMR 174 (191)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356678899988 89999999987665554
No 157
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=21.81 E-value=1.9e+02 Score=23.90 Aligned_cols=28 Identities=21% Similarity=0.260 Sum_probs=21.1
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 85 GNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 85 G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
|-.-.+||..+ |-|...|+.+.+...++
T Consensus 151 ~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 151 GYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 55678888888 88888888877655444
No 158
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=21.61 E-value=1.8e+02 Score=24.72 Aligned_cols=29 Identities=14% Similarity=-0.023 Sum_probs=22.2
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|..-.+||..+ |.|...|+.|.....++
T Consensus 154 eg~s~~EIA~~l-gis~~tVk~~l~RAr~~ 182 (201)
T PRK12545 154 LDFEIDDICTEL-TLTANHCSVLLYRARTR 182 (201)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 356689999999 99999999886554443
No 159
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=21.49 E-value=65 Score=25.62 Aligned_cols=28 Identities=18% Similarity=0.119 Sum_probs=22.4
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 85 GNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 85 G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
|-.+.+||..| |-|...|+++.....++
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKE 148 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 45699999999 99999999987665544
No 160
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=21.33 E-value=1.8e+02 Score=23.30 Aligned_cols=38 Identities=13% Similarity=0.118 Sum_probs=25.3
Q ss_pred HHHHHHHHHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 75 GIIIELHALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 75 ~~Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
..++.+....|-.=.+||..| |-|...|+.+.....++
T Consensus 116 r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 116 RAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 333444444566678888888 88888888877655544
No 161
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=21.29 E-value=1.6e+02 Score=24.24 Aligned_cols=29 Identities=28% Similarity=0.329 Sum_probs=22.8
Q ss_pred cCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 84 WGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 84 ~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
.|..-.+||+.+ |-|...|+++....++.
T Consensus 134 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 162 (172)
T PRK09651 134 DGLTYSEIAHKL-GVSVSSVKKYVAKATEH 162 (172)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 356689999999 99999999987665543
No 162
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=20.67 E-value=1.5e+02 Score=22.27 Aligned_cols=29 Identities=24% Similarity=0.463 Sum_probs=21.9
Q ss_pred HHHHHHHcCCCHHHHHhhCCCCCHHHHHHH
Q 047854 77 IIELHALWGNKWSTIARYLPGRTDNEIKNY 106 (259)
Q Consensus 77 Ll~~v~~~G~~W~~Ia~~l~gRT~~qcknr 106 (259)
+--+....|..|..+|+.| |=|+.+|..-
T Consensus 5 f~~i~~~lG~~Wk~laR~L-Glse~~Id~i 33 (86)
T cd08306 5 FDVICENVGRDWRKLARKL-GLSETKIESI 33 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHHHH
Confidence 3445566799999999999 7787777653
No 163
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=20.36 E-value=1.8e+02 Score=24.60 Aligned_cols=31 Identities=13% Similarity=0.076 Sum_probs=23.3
Q ss_pred HHcCCCHHHHHhhCCCCCHHHHHHHHHHhhhc
Q 047854 82 ALWGNKWSTIARYLPGRTDNEIKNYWRTHFKK 113 (259)
Q Consensus 82 ~~~G~~W~~Ia~~l~gRT~~qcknrw~~~lkk 113 (259)
...|-...+||..| |-|...|+++.....++
T Consensus 126 ~~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~ 156 (188)
T PRK12546 126 GASGFSYEEAAEMC-GVAVGTVKSRANRARAR 156 (188)
T ss_pred HhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34566789999999 88899998887555544
Done!