Query 038795
Match_columns 302
No_of_seqs 211 out of 1430
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 03:22:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038795.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038795hhsearch_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 3.1E-35 6.7E-40 270.2 11.2 114 3-117 2-115 (238)
2 PLN03091 hypothetical protein; 100.0 1.1E-33 2.4E-38 275.9 14.8 111 4-115 8-118 (459)
3 PLN03212 Transcription repress 100.0 8.1E-33 1.7E-37 253.5 11.9 110 5-115 20-129 (249)
4 KOG0049 Transcription factor, 99.8 1.5E-19 3.3E-24 182.5 7.5 111 3-115 353-464 (939)
5 KOG0049 Transcription factor, 99.6 2.4E-15 5.2E-20 152.5 7.1 105 8-114 303-411 (939)
6 COG5147 REB1 Myb superfamily p 99.6 2.2E-15 4.8E-20 151.5 6.4 111 2-114 12-122 (512)
7 PF13921 Myb_DNA-bind_6: Myb-l 99.6 2.2E-15 4.7E-20 110.0 3.5 60 13-75 1-60 (60)
8 KOG0050 mRNA splicing protein 99.4 3.2E-14 7E-19 141.4 2.3 106 7-115 4-109 (617)
9 PF00249 Myb_DNA-binding: Myb- 99.3 1.9E-13 4.1E-18 96.1 0.2 47 10-57 1-48 (48)
10 PF00249 Myb_DNA-binding: Myb- 99.3 1.9E-12 4.2E-17 90.9 4.3 44 66-109 3-48 (48)
11 KOG0051 RNA polymerase I termi 99.2 7.4E-12 1.6E-16 127.6 5.0 102 9-114 383-512 (607)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.2 2.4E-11 5.3E-16 88.5 3.8 43 67-109 1-43 (60)
13 smart00717 SANT SANT SWI3, AD 99.2 4.2E-11 9.2E-16 81.5 4.6 45 66-110 3-48 (49)
14 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 2E-10 4.3E-15 77.1 4.9 43 66-108 1-44 (45)
15 PLN03212 Transcription repress 99.0 5.2E-10 1.1E-14 103.5 5.5 63 40-110 9-73 (249)
16 smart00717 SANT SANT SWI3, AD 99.0 2.1E-10 4.5E-15 78.1 2.2 48 10-58 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 98.8 1.7E-09 3.8E-14 72.5 1.8 45 12-57 1-45 (45)
18 PLN03091 hypothetical protein; 98.8 4.1E-09 9E-14 104.3 4.9 50 58-108 9-60 (459)
19 KOG0051 RNA polymerase I termi 98.8 8.5E-09 1.9E-13 105.5 6.2 98 8-110 306-429 (607)
20 KOG0048 Transcription factor, 98.7 7.1E-09 1.5E-13 95.7 4.3 50 60-110 6-57 (238)
21 COG5147 REB1 Myb superfamily p 98.0 4.7E-07 1E-11 91.9 -2.8 96 9-108 290-395 (512)
22 KOG0457 Histone acetyltransfer 97.7 5.6E-05 1.2E-09 75.0 5.7 44 66-109 74-118 (438)
23 TIGR01557 myb_SHAQKYF myb-like 97.7 0.0001 2.2E-09 54.3 5.3 44 66-109 5-54 (57)
24 TIGR01557 myb_SHAQKYF myb-like 97.6 3.7E-05 7.9E-10 56.6 2.4 48 10-57 3-54 (57)
25 KOG0457 Histone acetyltransfer 97.3 0.00011 2.3E-09 73.1 1.3 49 8-57 70-118 (438)
26 TIGR02894 DNA_bind_RsfA transc 97.2 0.00046 9.9E-09 60.6 4.4 49 65-114 5-60 (161)
27 PF13325 MCRS_N: N-terminal re 97.0 0.0013 2.8E-08 59.9 6.0 96 12-110 1-127 (199)
28 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.00054 1.2E-08 53.0 3.0 51 66-116 3-71 (90)
29 KOG0050 mRNA splicing protein 96.9 0.00067 1.4E-08 68.9 3.3 51 61-112 5-56 (617)
30 KOG1279 Chromatin remodeling f 96.5 0.003 6.6E-08 64.6 4.8 43 66-108 255-297 (506)
31 COG5259 RSC8 RSC chromatin rem 96.5 0.0024 5.1E-08 64.3 3.8 43 66-108 281-323 (531)
32 PF13873 Myb_DNA-bind_5: Myb/S 96.4 0.0073 1.6E-07 45.9 5.3 50 66-115 4-75 (78)
33 PF08914 Myb_DNA-bind_2: Rap1 96.3 0.001 2.2E-08 50.2 -0.1 52 10-61 2-61 (65)
34 PRK13923 putative spore coat p 96.1 0.007 1.5E-07 53.8 4.2 47 66-113 7-60 (170)
35 COG5114 Histone acetyltransfer 96.1 0.0054 1.2E-07 59.3 3.7 43 66-108 65-108 (432)
36 KOG1279 Chromatin remodeling f 96.1 0.003 6.5E-08 64.6 2.0 48 7-56 250-297 (506)
37 COG5259 RSC8 RSC chromatin rem 96.0 0.0028 6E-08 63.8 1.3 46 9-56 278-323 (531)
38 PF08914 Myb_DNA-bind_2: Rap1 95.1 0.028 6.2E-07 42.4 3.8 46 66-111 4-59 (65)
39 PLN03142 Probable chromatin-re 95.0 0.051 1.1E-06 60.2 7.0 101 13-115 827-990 (1033)
40 TIGR02894 DNA_bind_RsfA transc 94.5 0.011 2.3E-07 52.1 0.1 50 8-59 2-57 (161)
41 PF13837 Myb_DNA-bind_4: Myb/S 94.2 0.01 2.3E-07 45.7 -0.5 47 11-57 2-64 (90)
42 PF13873 Myb_DNA-bind_5: Myb/S 94.1 0.034 7.4E-07 42.2 2.2 49 9-57 1-69 (78)
43 KOG4282 Transcription factor G 93.9 0.15 3.3E-06 49.3 6.8 55 65-119 55-123 (345)
44 PF12776 Myb_DNA-bind_3: Myb/S 93.1 0.24 5.1E-06 38.6 5.4 48 66-113 1-66 (96)
45 PF09111 SLIDE: SLIDE; InterP 92.9 0.17 3.6E-06 42.5 4.5 50 65-114 50-115 (118)
46 KOG2656 DNA methyltransferase 92.7 0.17 3.6E-06 50.4 4.8 52 65-116 131-188 (445)
47 COG5114 Histone acetyltransfer 92.0 0.043 9.3E-07 53.3 -0.1 47 11-58 64-110 (432)
48 KOG1194 Predicted DNA-binding 91.9 0.36 7.9E-06 48.9 6.2 49 66-114 189-237 (534)
49 PRK13923 putative spore coat p 90.1 0.078 1.7E-06 47.2 -0.3 50 8-58 3-57 (170)
50 PF08281 Sigma70_r4_2: Sigma-7 87.8 1.1 2.5E-05 31.2 4.5 42 69-111 12-53 (54)
51 COG5118 BDP1 Transcription ini 87.0 0.93 2E-05 45.2 4.7 45 65-109 366-410 (507)
52 COG5118 BDP1 Transcription ini 86.4 0.46 1E-05 47.3 2.3 51 2-56 359-409 (507)
53 PF09111 SLIDE: SLIDE; InterP 80.5 1.3 2.9E-05 37.1 2.4 31 7-37 46-79 (118)
54 PF11626 Rap1_C: TRF2-interact 79.9 1.2 2.7E-05 34.9 1.9 26 8-36 45-78 (87)
55 PF04545 Sigma70_r4: Sigma-70, 79.0 4.6 9.9E-05 27.9 4.4 43 70-113 7-49 (50)
56 TIGR02985 Sig70_bacteroi1 RNA 75.5 6.2 0.00013 32.4 5.1 43 71-114 117-159 (161)
57 smart00595 MADF subfamily of S 73.7 3.8 8.3E-05 31.4 3.1 30 85-115 29-58 (89)
58 PF11035 SnAPC_2_like: Small n 73.2 11 0.00024 36.9 6.7 52 64-115 21-76 (344)
59 PF13404 HTH_AsnC-type: AsnC-t 68.9 8.3 0.00018 26.4 3.6 38 70-108 3-41 (42)
60 KOG4468 Polycomb-group transcr 67.5 9.1 0.0002 40.5 5.1 51 66-116 90-150 (782)
61 PF10545 MADF_DNA_bdg: Alcohol 65.8 6.5 0.00014 29.2 2.9 32 85-116 28-60 (85)
62 KOG4282 Transcription factor G 64.8 2.9 6.2E-05 40.5 0.9 47 11-57 55-113 (345)
63 KOG4167 Predicted DNA-binding 64.1 11 0.00024 40.7 5.0 46 65-110 620-665 (907)
64 TIGR02937 sigma70-ECF RNA poly 63.7 16 0.00034 29.1 4.9 39 75-114 118-156 (158)
65 PRK09652 RNA polymerase sigma 62.7 18 0.00038 30.4 5.3 41 75-116 136-176 (182)
66 PF13325 MCRS_N: N-terminal re 62.5 14 0.0003 33.9 4.8 43 66-109 1-46 (199)
67 PF04504 DUF573: Protein of un 61.7 23 0.00051 28.5 5.5 52 66-117 6-70 (98)
68 KOG4329 DNA-binding protein [G 60.6 93 0.002 31.4 10.3 46 65-110 278-324 (445)
69 PRK11179 DNA-binding transcrip 60.1 16 0.00035 31.2 4.6 40 70-110 9-49 (153)
70 PRK11924 RNA polymerase sigma 60.0 18 0.00039 30.3 4.8 36 80-116 138-173 (179)
71 PRK09643 RNA polymerase sigma 59.7 25 0.00053 30.8 5.8 43 74-117 141-183 (192)
72 KOG1194 Predicted DNA-binding 59.7 17 0.00036 37.3 5.2 48 66-113 371-418 (534)
73 PRK09641 RNA polymerase sigma 57.9 21 0.00046 30.4 5.0 35 81-116 150-184 (187)
74 PF07750 GcrA: GcrA cell cycle 57.6 10 0.00022 33.4 3.0 41 66-107 2-42 (162)
75 PF01388 ARID: ARID/BRIGHT DNA 57.4 16 0.00034 28.3 3.7 37 74-110 40-89 (92)
76 KOG0384 Chromodomain-helicase 55.0 13 0.00029 42.2 3.9 74 9-90 1132-1206(1373)
77 PF07638 Sigma70_ECF: ECF sigm 54.9 28 0.00061 30.5 5.4 44 71-115 139-182 (185)
78 PRK04217 hypothetical protein; 54.9 33 0.00072 28.4 5.4 49 66-116 42-90 (110)
79 PF12776 Myb_DNA-bind_3: Myb/S 53.8 9.3 0.0002 29.5 1.9 43 12-54 1-59 (96)
80 PRK09645 RNA polymerase sigma 53.4 35 0.00076 28.8 5.6 41 76-117 127-167 (173)
81 PRK09047 RNA polymerase factor 53.3 33 0.00071 28.4 5.3 36 80-116 119-154 (161)
82 TIGR02954 Sig70_famx3 RNA poly 52.8 31 0.00066 29.2 5.1 34 81-115 133-166 (169)
83 KOG4329 DNA-binding protein [G 52.6 8.3 0.00018 38.5 1.7 43 12-55 279-321 (445)
84 PRK09642 RNA polymerase sigma 52.1 34 0.00073 28.5 5.2 38 78-116 117-154 (160)
85 TIGR02939 RpoE_Sigma70 RNA pol 52.1 23 0.00051 30.2 4.3 34 82-116 153-186 (190)
86 TIGR02948 SigW_bacill RNA poly 52.1 28 0.00061 29.6 4.8 34 82-116 151-184 (187)
87 TIGR02943 Sig70_famx1 RNA poly 50.6 35 0.00077 29.7 5.3 41 75-116 139-179 (188)
88 PRK12512 RNA polymerase sigma 50.3 37 0.0008 29.1 5.3 39 78-117 142-180 (184)
89 PRK11169 leucine-responsive tr 50.0 23 0.0005 30.6 4.0 42 69-111 13-55 (164)
90 smart00501 BRIGHT BRIGHT, ARID 49.7 38 0.00082 26.4 4.8 41 74-114 36-89 (93)
91 PRK09646 RNA polymerase sigma 49.4 41 0.00089 29.3 5.5 37 81-118 156-192 (194)
92 PRK12523 RNA polymerase sigma 49.4 47 0.001 28.2 5.8 44 72-116 124-167 (172)
93 PRK12531 RNA polymerase sigma 48.9 40 0.00087 29.3 5.4 35 81-116 155-189 (194)
94 PRK11923 algU RNA polymerase s 48.8 34 0.00073 29.6 4.9 34 82-116 153-186 (193)
95 cd08319 Death_RAIDD Death doma 47.9 21 0.00044 28.1 3.0 30 72-102 2-31 (83)
96 PRK12515 RNA polymerase sigma 47.0 41 0.00088 29.1 5.1 37 80-117 144-180 (189)
97 PRK12530 RNA polymerase sigma 46.7 42 0.00092 29.2 5.2 35 81-116 148-182 (189)
98 PF11626 Rap1_C: TRF2-interact 46.4 20 0.00044 28.0 2.8 17 59-76 43-59 (87)
99 PRK09637 RNA polymerase sigma 46.1 41 0.00088 29.2 5.0 39 78-117 117-155 (181)
100 PRK09648 RNA polymerase sigma 46.0 46 0.001 28.7 5.3 38 77-115 149-186 (189)
101 PRK05602 RNA polymerase sigma 45.7 46 0.00099 28.6 5.2 37 81-118 142-178 (186)
102 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 45.7 31 0.00067 24.8 3.3 37 67-105 5-41 (50)
103 KOG4468 Polycomb-group transcr 45.3 16 0.00034 38.7 2.5 48 9-57 87-143 (782)
104 cd06171 Sigma70_r4 Sigma70, re 45.1 42 0.00091 21.7 3.9 42 67-110 11-52 (55)
105 TIGR02952 Sig70_famx2 RNA poly 45.0 45 0.00098 27.8 4.9 32 82-114 137-168 (170)
106 KOG3554 Histone deacetylase co 44.2 41 0.00088 34.9 5.1 42 65-106 286-328 (693)
107 PRK13919 putative RNA polymera 44.2 55 0.0012 28.0 5.5 34 82-116 150-183 (186)
108 PRK12527 RNA polymerase sigma 44.1 62 0.0013 27.0 5.6 35 81-116 119-153 (159)
109 PRK12516 RNA polymerase sigma 43.6 53 0.0011 28.7 5.3 45 73-118 122-166 (187)
110 cd08317 Death_ank Death domain 42.5 22 0.00049 27.4 2.5 31 72-103 4-34 (84)
111 TIGR02983 SigE-fam_strep RNA p 42.5 61 0.0013 26.9 5.3 45 71-116 114-158 (162)
112 PRK12536 RNA polymerase sigma 42.0 60 0.0013 27.8 5.3 38 78-116 140-177 (181)
113 PRK06759 RNA polymerase factor 41.6 51 0.0011 27.1 4.7 33 81-114 120-152 (154)
114 PRK12532 RNA polymerase sigma 41.4 54 0.0012 28.4 5.0 38 78-116 147-184 (195)
115 KOG2009 Transcription initiati 40.9 35 0.00077 36.0 4.3 43 66-108 411-453 (584)
116 cd08803 Death_ank3 Death domai 40.9 34 0.00073 26.9 3.2 31 72-103 4-34 (84)
117 PRK12547 RNA polymerase sigma 40.8 66 0.0014 27.1 5.3 40 76-116 121-160 (164)
118 PLN03162 golden-2 like transcr 40.7 1.6E+02 0.0034 29.9 8.4 45 66-110 239-288 (526)
119 PRK12524 RNA polymerase sigma 40.3 62 0.0013 28.2 5.2 40 76-116 145-184 (196)
120 PRK12514 RNA polymerase sigma 39.8 67 0.0015 27.3 5.3 33 82-115 144-176 (179)
121 KOG4167 Predicted DNA-binding 39.6 14 0.00031 39.9 1.2 42 11-54 620-661 (907)
122 TIGR02999 Sig-70_X6 RNA polyme 39.6 68 0.0015 27.3 5.3 33 81-114 148-180 (183)
123 PF11035 SnAPC_2_like: Small n 38.6 20 0.00043 35.2 1.9 86 10-110 21-127 (344)
124 TIGR02960 SigX5 RNA polymerase 38.1 55 0.0012 30.8 4.8 36 81-117 156-191 (324)
125 PRK12520 RNA polymerase sigma 37.9 71 0.0015 27.6 5.2 36 81-117 145-180 (191)
126 PRK09649 RNA polymerase sigma 37.8 61 0.0013 28.1 4.8 33 81-114 144-176 (185)
127 PRK12542 RNA polymerase sigma 37.8 74 0.0016 27.3 5.3 35 81-116 136-170 (185)
128 KOG2656 DNA methyltransferase 37.5 19 0.00042 36.2 1.7 50 7-57 127-181 (445)
129 TIGR02950 SigM_subfam RNA poly 36.8 27 0.00057 28.8 2.2 31 83-114 121-151 (154)
130 cd08318 Death_NMPP84 Death dom 36.5 38 0.00082 26.4 2.9 26 76-102 11-36 (86)
131 TIGR02984 Sig-70_plancto1 RNA 36.3 77 0.0017 26.9 5.1 35 80-115 153-187 (189)
132 PRK12545 RNA polymerase sigma 35.9 77 0.0017 27.9 5.2 34 82-116 154-187 (201)
133 PRK12529 RNA polymerase sigma 35.6 79 0.0017 27.1 5.1 38 76-114 136-173 (178)
134 PRK11922 RNA polymerase sigma 34.8 42 0.00091 30.3 3.4 34 83-117 165-198 (231)
135 PRK09647 RNA polymerase sigma 34.7 82 0.0018 28.0 5.2 35 82-117 153-187 (203)
136 PRK12546 RNA polymerase sigma 34.6 79 0.0017 27.7 5.0 40 77-117 123-162 (188)
137 PRK12537 RNA polymerase sigma 34.5 84 0.0018 27.0 5.1 34 81-115 147-180 (182)
138 PRK12526 RNA polymerase sigma 34.4 92 0.002 27.5 5.4 34 82-116 168-201 (206)
139 PRK06811 RNA polymerase factor 32.8 87 0.0019 27.1 4.9 33 82-115 146-178 (189)
140 PRK11169 leucine-responsive tr 32.8 15 0.00033 31.8 0.1 46 15-62 13-58 (164)
141 PRK12544 RNA polymerase sigma 32.6 96 0.0021 27.6 5.3 35 81-116 162-196 (206)
142 PRK09638 RNA polymerase sigma 32.5 43 0.00093 28.3 2.9 33 82-115 141-173 (176)
143 PRK12528 RNA polymerase sigma 32.1 96 0.0021 25.8 4.9 37 76-113 122-158 (161)
144 PRK00118 putative DNA-binding 31.8 1.1E+02 0.0023 25.2 4.9 44 69-113 19-62 (104)
145 smart00005 DEATH DEATH domain, 31.5 45 0.00097 25.2 2.5 29 72-101 5-34 (88)
146 PRK09639 RNA polymerase sigma 30.9 1.1E+02 0.0023 25.5 5.0 40 75-116 120-159 (166)
147 PRK12538 RNA polymerase sigma 30.7 83 0.0018 28.7 4.6 34 82-116 186-219 (233)
148 cd08804 Death_ank2 Death domai 30.7 52 0.0011 25.6 2.8 31 72-103 4-34 (84)
149 smart00344 HTH_ASNC helix_turn 30.3 92 0.002 24.4 4.3 41 70-111 3-44 (108)
150 cd08777 Death_RIP1 Death Domai 30.3 48 0.001 26.0 2.6 30 74-104 4-33 (86)
151 PF00046 Homeobox: Homeobox do 30.1 1.6E+02 0.0034 20.3 5.1 45 66-111 6-54 (57)
152 PRK06986 fliA flagellar biosyn 29.7 1.1E+02 0.0023 27.7 5.1 43 73-116 190-232 (236)
153 PF10440 WIYLD: Ubiquitin-bind 29.4 40 0.00087 25.6 1.9 17 74-90 31-47 (65)
154 PRK12535 RNA polymerase sigma 29.4 1.1E+02 0.0025 26.8 5.1 36 82-118 148-183 (196)
155 PRK07670 RNA polymerase sigma 29.2 1.1E+02 0.0024 27.9 5.2 43 72-115 206-248 (251)
156 PRK12541 RNA polymerase sigma 29.1 1E+02 0.0022 25.7 4.6 32 82-114 127-158 (161)
157 KOG3841 TEF-1 and related tran 29.0 84 0.0018 31.7 4.5 58 63-121 76-154 (455)
158 KOG2009 Transcription initiati 29.0 40 0.00087 35.6 2.4 47 7-55 406-452 (584)
159 PRK12519 RNA polymerase sigma 28.9 95 0.0021 26.7 4.5 33 82-115 156-188 (194)
160 PRK09651 RNA polymerase sigma 28.8 94 0.002 26.4 4.4 31 82-113 134-164 (172)
161 PRK12540 RNA polymerase sigma 28.7 1.2E+02 0.0026 26.3 5.1 37 81-118 125-161 (182)
162 PRK11179 DNA-binding transcrip 28.7 21 0.00046 30.4 0.4 46 15-62 8-53 (153)
163 PRK09415 RNA polymerase factor 28.5 1.1E+02 0.0024 26.1 4.9 33 82-115 142-174 (179)
164 PF08074 CHDCT2: CHDCT2 (NUC03 28.4 67 0.0015 28.8 3.4 45 67-113 6-64 (173)
165 PRK09644 RNA polymerase sigma 27.8 1.4E+02 0.003 25.0 5.2 36 81-117 122-157 (165)
166 PRK06930 positive control sigm 27.8 1.3E+02 0.0029 26.4 5.2 41 75-116 122-162 (170)
167 PF02954 HTH_8: Bacterial regu 27.3 90 0.002 20.9 3.2 33 71-104 6-38 (42)
168 PRK09636 RNA polymerase sigma 26.7 1.4E+02 0.0031 27.9 5.6 33 82-115 130-162 (293)
169 TIGR02959 SigZ RNA polymerase 26.0 1.6E+02 0.0034 25.1 5.3 37 80-117 113-149 (170)
170 COG2963 Transposase and inacti 26.0 1.6E+02 0.0036 23.5 5.1 43 66-109 7-50 (116)
171 PF09420 Nop16: Ribosome bioge 25.8 1.2E+02 0.0026 26.4 4.6 43 66-108 116-162 (164)
172 PRK12511 RNA polymerase sigma 25.4 1.5E+02 0.0033 25.7 5.2 35 82-117 126-160 (182)
173 PRK08295 RNA polymerase factor 25.2 1.6E+02 0.0034 25.5 5.2 34 82-116 169-202 (208)
174 PRK08301 sporulation sigma fac 25.2 1.2E+02 0.0026 27.2 4.6 32 83-115 198-229 (234)
175 PRK12518 RNA polymerase sigma 25.1 60 0.0013 27.4 2.5 34 83-117 136-169 (175)
176 PRK15328 invasion protein IagB 25.1 1.8E+02 0.0039 25.5 5.5 43 74-116 98-142 (160)
177 PRK08241 RNA polymerase factor 25.0 1E+02 0.0022 29.3 4.3 32 82-114 168-199 (339)
178 PRK10100 DNA-binding transcrip 24.2 1.3E+02 0.0028 27.2 4.6 44 66-112 155-198 (216)
179 PRK12513 RNA polymerase sigma 24.1 71 0.0015 27.6 2.8 33 83-116 155-187 (194)
180 cd08805 Death_ank1 Death domai 23.8 79 0.0017 24.9 2.7 26 72-98 4-29 (84)
181 cd08779 Death_PIDD Death Domai 23.4 78 0.0017 24.7 2.6 32 73-105 3-37 (86)
182 PRK12543 RNA polymerase sigma 23.2 1.8E+02 0.0038 24.8 5.1 34 81-115 131-164 (179)
183 KOG0384 Chromodomain-helicase 23.0 2.6E+02 0.0056 32.5 7.3 51 65-115 1134-1197(1373)
184 PRK12522 RNA polymerase sigma 23.0 1.7E+02 0.0037 24.6 4.9 34 82-116 134-167 (173)
185 TIGR02980 SigBFG RNA polymeras 22.9 1.7E+02 0.0036 26.1 5.1 33 81-114 192-224 (227)
186 TIGR03001 Sig-70_gmx1 RNA poly 22.8 1.6E+02 0.0034 27.3 4.9 33 82-115 176-208 (244)
187 TIGR02989 Sig-70_gvs1 RNA poly 22.7 1.8E+02 0.0038 23.9 4.8 30 82-112 126-155 (159)
188 TIGR02947 SigH_actino RNA poly 22.3 88 0.0019 27.0 3.0 33 83-116 147-179 (193)
189 TIGR02957 SigX4 RNA polymerase 22.1 1.6E+02 0.0034 27.5 4.9 33 81-114 122-154 (281)
190 COG1522 Lrp Transcriptional re 21.8 1.7E+02 0.0038 24.1 4.7 42 69-111 7-49 (154)
191 cd08311 Death_p75NR Death doma 21.8 72 0.0016 24.6 2.1 34 69-104 2-35 (77)
192 PRK12534 RNA polymerase sigma 21.1 2.2E+02 0.0047 24.3 5.2 34 81-115 151-184 (187)
193 PRK01905 DNA-binding protein F 21.0 1.8E+02 0.0038 22.1 4.1 35 68-103 35-69 (77)
194 PRK08583 RNA polymerase sigma 20.7 2.3E+02 0.0049 25.9 5.6 40 76-116 214-253 (257)
195 PRK12533 RNA polymerase sigma 20.6 1.9E+02 0.0042 26.0 5.0 35 81-116 148-182 (216)
196 PRK07037 extracytoplasmic-func 20.6 2.7E+02 0.0058 23.0 5.6 34 82-116 124-157 (163)
197 cd08306 Death_FADD Fas-associa 20.6 1.1E+02 0.0024 23.8 3.0 28 75-103 5-32 (86)
198 PRK07408 RNA polymerase sigma 20.5 2E+02 0.0043 26.6 5.1 34 82-116 218-251 (256)
199 cd01670 Death Death Domain: a 20.5 87 0.0019 23.0 2.3 27 75-102 2-28 (79)
200 PRK06288 RNA polymerase sigma 20.2 2.1E+02 0.0045 26.5 5.2 34 81-115 226-259 (268)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=3.1e-35 Score=270.19 Aligned_cols=114 Identities=46% Similarity=0.832 Sum_probs=106.3
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCCCCCCCCCCHHHHHHHHHHHHHh
Q 038795 3 GKREEIRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIVIELQAQF 82 (302)
Q Consensus 3 ~kK~~lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lLlelv~~~ 82 (302)
.||+.+.||+||+|||++|+++|++||.++|..|+..+..+|++++||+||.|||+|.|++| .||+|||.+|+++|..+
T Consensus 2 ~kk~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg-~fT~eEe~~Ii~lH~~~ 80 (238)
T KOG0048|consen 2 VRNPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRG-NFSDEEEDLIIKLHALL 80 (238)
T ss_pred CCCccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCC-CCCHHHHHHHHHHHHHH
Confidence 35666789999999999999999999999999998776669999999999999999999999 89999999999999999
Q ss_pred CCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 83 GNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 83 G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
|++|+.||++|||||+|+|||+|++.+||+.+...
T Consensus 81 GNrWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 81 GNRWSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred CcHHHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999988766554
No 2
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=1.1e-33 Score=275.88 Aligned_cols=111 Identities=54% Similarity=1.004 Sum_probs=104.3
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCCCCCCCCCCHHHHHHHHHHHHHhC
Q 038795 4 KREEIRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIVIELQAQFG 83 (302)
Q Consensus 4 kK~~lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lLlelv~~~G 83 (302)
-|++++||+||+|||++|+++|.+||..+|..||..+.++|+++|||+||.++|+|.|+++ +||.|||++|+++|.+||
T Consensus 8 ~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKg-pWT~EED~lLLeL~k~~G 86 (459)
T PLN03091 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRG-TFSQQEENLIIELHAVLG 86 (459)
T ss_pred cCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCC-CCCHHHHHHHHHHHHHhC
Confidence 3578999999999999999999999999999997665579999999999999999999999 999999999999999999
Q ss_pred CcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 84 NKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 84 ~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
++|++||++|+|||+++|||||+.++||..+.
T Consensus 87 nKWskIAk~LPGRTDnqIKNRWnslLKKklr~ 118 (459)
T PLN03091 87 NRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118 (459)
T ss_pred cchHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999886553
No 3
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=8.1e-33 Score=253.51 Aligned_cols=110 Identities=42% Similarity=0.903 Sum_probs=103.6
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 038795 5 REEIRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIVIELQAQFGN 84 (302)
Q Consensus 5 K~~lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lLlelv~~~G~ 84 (302)
|.+++||+||+|||++|+++|++||..+|..||.++.++|+++|||+||.++|+|.++++ +||.|||++|++++.+||+
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kg-pWT~EED~lLlel~~~~Gn 98 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRG-GITSDEEDLILRLHRLLGN 98 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccC-CCChHHHHHHHHHHHhccc
Confidence 568999999999999999999999999999997764579999999999999999999999 9999999999999999999
Q ss_pred cchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 85 KWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 85 kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
+|+.||++|+|||+++|||||+.++++....
T Consensus 99 KWs~IAk~LpGRTDnqIKNRWns~LrK~l~r 129 (249)
T PLN03212 99 RWSLIAGRIPGRTDNEIKNYWNTHLRKKLLR 129 (249)
T ss_pred cHHHHHhhcCCCCHHHHHHHHHHHHhHHHHh
Confidence 9999999999999999999999998876554
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.78 E-value=1.5e-19 Score=182.52 Aligned_cols=111 Identities=25% Similarity=0.552 Sum_probs=97.9
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCCCCCCCCCCHHHHHHHHHHHHHh
Q 038795 3 GKREEIRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIVIELQAQF 82 (302)
Q Consensus 3 ~kK~~lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lLlelv~~~ 82 (302)
.-.+.+++|+||.+||.+|+.+|.+||.++|.+|. ..+|||+..|||+||.|.|+...|.+ .||-.||+.|+++|.+|
T Consensus 353 ~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R-~~vPnRSdsQcR~RY~nvL~~s~K~~-rW~l~edeqL~~~V~~Y 430 (939)
T KOG0049|consen 353 TLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVR-QAVPNRSDSQCRERYTNVLNRSAKVE-RWTLVEDEQLLYAVKVY 430 (939)
T ss_pred ccCccccCCCCCCHHHHHHHHHHHHhCccchhhHH-HhcCCccHHHHHHHHHHHHHHhhccC-ceeecchHHHHHHHHHH
Confidence 44578999999999999999999999999999995 45999999999999999999999999 89999999999999999
Q ss_pred C-CcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 83 G-NKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 83 G-~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
| ++|.+||.+||+||..|...|=..++..+.+.
T Consensus 431 G~g~WakcA~~Lp~~t~~q~~rrR~R~~~~k~rl 464 (939)
T KOG0049|consen 431 GKGNWAKCAMLLPKKTSRQLRRRRLRLIAAKLRL 464 (939)
T ss_pred ccchHHHHHHHccccchhHHHHHHHHHHHHHHHH
Confidence 9 88999999999999977665544444433333
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.57 E-value=2.4e-15 Score=152.48 Aligned_cols=105 Identities=25% Similarity=0.520 Sum_probs=94.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC---CCcccccccccCCCCccccccccccccCCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 038795 8 IRKGPWKAEEDEVLINHVKKYGP---RDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIVIELQAQFGN 84 (302)
Q Consensus 8 lrKG~WT~EED~~L~~~V~~~G~---~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lLlelv~~~G~ 84 (302)
+.+..||+|||.+|+.+|+.... -+|.+|. ..|+||+..|..-||...|+|.+++| .||.+||.+|+.+|.+||+
T Consensus 303 L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV-~Ympgr~~~qLI~R~~~~LdPsikhg-~wt~~ED~~L~~AV~~Yg~ 380 (939)
T KOG0049|consen 303 LSEKEWSEEEDTKLIALVKITSINSHIQWDKVV-QYMPGRTRQQLITRFSHTLDPSVKHG-RWTDQEDVLLVCAVSRYGA 380 (939)
T ss_pred HHhhhcchhhhHHHHHHHHHhhccCccchHHHH-HhcCCcchhhhhhhheeccCccccCC-CCCCHHHHHHHHHHHHhCc
Confidence 34567999999999999998743 4799995 56999999999999999999999999 9999999999999999996
Q ss_pred c-chhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 85 K-WARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 85 k-Ws~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
+ |.+|-+.+|||++.||+.||.+.+.+..+
T Consensus 381 kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K 411 (939)
T KOG0049|consen 381 KDWAKVRQAVPNRSDSQCRERYTNVLNRSAK 411 (939)
T ss_pred cchhhHHHhcCCccHHHHHHHHHHHHHHhhc
Confidence 5 99999999999999999999887765444
No 6
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.57 E-value=2.2e-15 Score=151.48 Aligned_cols=111 Identities=35% Similarity=0.624 Sum_probs=101.9
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCCCCCCCCCCHHHHHHHHHHHHH
Q 038795 2 EGKREEIRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIVIELQAQ 81 (302)
Q Consensus 2 ~~kK~~lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lLlelv~~ 81 (302)
+.+..+++.|.|+..||+.|..+|+.||+.+|..||+. +.-|++++|+.||.++++|.++++ .|+.+||..|+.+..+
T Consensus 12 ~~~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~-~~~~~~kq~~~rw~~~lnp~lk~~-~~~~eed~~li~l~~~ 89 (512)
T COG5147 12 KLMQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASL-LISSTGKQSSNRWNNHLNPQLKKK-NWSEEEDEQLIDLDKE 89 (512)
T ss_pred ccccceecCCCCCCcchhHHHHHHhhcccccHHHHHHH-hcccccccccchhhhhhchhcccc-cccHHHHHHHHHHHHh
Confidence 34455788999999999999999999999999999876 666999999999999999999999 8999999999999999
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
+|.+|+.||.++++||+.+|.+||...+.....
T Consensus 90 ~~~~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 90 LGTQWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred cCchhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 999999999999999999999999987765433
No 7
>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=99.56 E-value=2.2e-15 Score=110.02 Aligned_cols=60 Identities=48% Similarity=0.937 Sum_probs=52.8
Q ss_pred CCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCCCCCCCCCCHHHHHHH
Q 038795 13 WKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIV 75 (302)
Q Consensus 13 WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lL 75 (302)
||.|||++|+++|..|| .+|..||.. |+.|++.+|+.||.++|++.++++ +||.+||.+|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~-l~~Rt~~~~~~r~~~~l~~~~~~~-~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEH-LGNRTPKQCRNRWRNHLRPKISRG-PWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHH-STTS-HHHHHHHHHHTTSTTSTSS-SSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHH-HCcCCHHHHHHHHHHHCcccccCC-CcCHHHHhcC
Confidence 99999999999999999 689999554 766999999999999999999998 8999999987
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.43 E-value=3.2e-14 Score=141.42 Aligned_cols=106 Identities=33% Similarity=0.601 Sum_probs=97.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCCCCCCCCCCHHHHHHHHHHHHHhCCcc
Q 038795 7 EIRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIVIELQAQFGNKW 86 (302)
Q Consensus 7 ~lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lLlelv~~~G~kW 86 (302)
.++.|.|+.-||+.|..+|.+||.+.|++|++. +.-++++||+.||..+|+|.|++. .|+.+||.+|+.+.......|
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~nqws~i~sl-l~~kt~rqC~~rw~e~ldp~i~~t-ews~eederlLhlakl~p~qw 81 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASL-LNRKTARQCKARWEEWLDPAIKKT-EWSREEDERLLHLAKLEPTQW 81 (617)
T ss_pred EEecceecccHHHHHHHHHHHcchHHHHHHHHH-HhhcchhHHHHHHHHHhCHHHhhh-hhhhhHHHHHHHHHHhcCCcc
Confidence 357899999999999999999999999999665 888999999999999999999887 899999999999999999999
Q ss_pred hhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 87 ARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 87 s~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
..||..+ |||++||-.||+.++-.....
T Consensus 82 rtIa~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 82 RTIADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred chHHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 9999999 999999999999988655443
No 9
>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=99.33 E-value=1.9e-13 Score=96.09 Aligned_cols=47 Identities=49% Similarity=0.962 Sum_probs=40.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcccccccccC-CCCcccccccccccc
Q 038795 10 KGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLL-QRTGKSCRLRWVNKL 57 (302)
Q Consensus 10 KG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~-~Rt~~qCR~Rw~~~L 57 (302)
||+||+|||++|+++|.+||..+|..||.. ++ +||+.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~-~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKR-MPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHH-HSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHH-cCCCCCHHHHHHHHHhhC
Confidence 689999999999999999997779999654 78 999999999999875
No 10
>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=99.31 E-value=1.9e-12 Score=90.95 Aligned_cols=44 Identities=25% Similarity=0.592 Sum_probs=40.8
Q ss_pred CCCHHHHHHHHHHHHHhCCc-chhhhccCC-CCCHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNK-WARIATYLP-GRTDNDVKNFWSSRQ 109 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~k-Ws~IAk~Lp-gRT~nq~KnRw~~l~ 109 (302)
.||.+||++|++++.+||.+ |..||..|+ +||..||++||+.++
T Consensus 3 ~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 3 PWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 79999999999999999988 999999999 999999999998763
No 11
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.22 E-value=7.4e-12 Score=127.61 Aligned_cols=102 Identities=27% Similarity=0.499 Sum_probs=90.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCC--CCCCCCCCHHHHHHHHHHHH------
Q 038795 9 RKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPN--LKNGCKFSLEEERIVIELQA------ 80 (302)
Q Consensus 9 rKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~--lk~~~~WT~EED~lLlelv~------ 80 (302)
.+|.||+||++.|..+|.++| ..|..|+ + +.||.+..||+||.++.... .+++ .||.+|++.|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig-~-~lgr~P~~crd~wr~~~~~g~~~~r~-~Ws~eEe~~Llk~V~~~~~~~ 458 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIG-K-ALGRMPMDCRDRWRQYVKCGSKRNRG-AWSIEEEEKLLKTVNEMIREA 458 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHH-H-HHccCcHHHHHHHHHhhccccccccC-cchHHHHHHHHHHHHHHHHHh
Confidence 799999999999999999999 7899994 4 58999999999999999887 4777 899999999999995
Q ss_pred -Hh-------------------CCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 81 -QF-------------------GNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 81 -~~-------------------G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
++ +-.|..|++.+..|+..||+-+|..++.+-..
T Consensus 459 ~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~ 512 (607)
T KOG0051|consen 459 LQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSF 512 (607)
T ss_pred hcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHh
Confidence 33 12699999999999999999999998876543
No 12
>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=99.16 E-value=2.4e-11 Score=88.54 Aligned_cols=43 Identities=33% Similarity=0.719 Sum_probs=37.7
Q ss_pred CCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHH
Q 038795 67 FSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQ 109 (302)
Q Consensus 67 WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~ 109 (302)
||.+||.+|+++|.+||++|..||++|+.||..+|++||+..+
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l 43 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHL 43 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHC
Confidence 9999999999999999999999999996699999999998844
No 13
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.16 E-value=4.2e-11 Score=81.52 Aligned_cols=45 Identities=38% Similarity=0.809 Sum_probs=42.9
Q ss_pred CCCHHHHHHHHHHHHHhC-CcchhhhccCCCCCHHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFG-NKWARIATYLPGRTDNDVKNFWSSRQK 110 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G-~kWs~IAk~LpgRT~nq~KnRw~~l~k 110 (302)
.||++||.+|+.++.+|| ++|..||..|++||+.+|++||+.+++
T Consensus 3 ~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 3 EWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 799999999999999999 999999999999999999999988753
No 14
>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=99.07 E-value=2e-10 Score=77.14 Aligned_cols=43 Identities=33% Similarity=0.759 Sum_probs=41.1
Q ss_pred CCCHHHHHHHHHHHHHhC-CcchhhhccCCCCCHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFG-NKWARIATYLPGRTDNDVKNFWSSR 108 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G-~kWs~IAk~LpgRT~nq~KnRw~~l 108 (302)
.||.+|+.+|++++.+|| ++|..||+.+++||..+|++||+.+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 499999999999999999 9999999999999999999999875
No 15
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.98 E-value=5.2e-10 Score=103.53 Aligned_cols=63 Identities=17% Similarity=0.414 Sum_probs=54.2
Q ss_pred ccCCCCccccccccccccCCCCCCCCCCCHHHHHHHHHHHHHhC-CcchhhhccC-CCCCHHHHHHHHHHHHH
Q 038795 40 GLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIVIELQAQFG-NKWARIATYL-PGRTDNDVKNFWSSRQK 110 (302)
Q Consensus 40 ~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lLlelv~~~G-~kWs~IAk~L-pgRT~nq~KnRw~~l~k 110 (302)
-+++|+...|-. +.++++ +||+|||++|+++|++|| ++|..||+.+ ++||+.||+.||..+++
T Consensus 9 ~~~~~~~pcc~K-------~glKRg-~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~ 73 (249)
T PLN03212 9 PVSKKTTPCCTK-------MGMKRG-PWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLR 73 (249)
T ss_pred CCCCCCCCCccc-------CCCcCC-CCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhc
Confidence 467777776643 467788 899999999999999999 6899999988 69999999999997764
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.98 E-value=2.1e-10 Score=78.09 Aligned_cols=48 Identities=52% Similarity=0.968 Sum_probs=43.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccC
Q 038795 10 KGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLR 58 (302)
Q Consensus 10 KG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~ 58 (302)
++.||++||.+|+.++..||..+|..|+. .+++|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~-~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAK-ELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHH-HcCCCCHHHHHHHHHHHcC
Confidence 47899999999999999999888999955 5899999999999988764
No 17
>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=98.81 E-value=1.7e-09 Score=72.49 Aligned_cols=45 Identities=53% Similarity=1.000 Sum_probs=40.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccccccCCCCcccccccccccc
Q 038795 12 PWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKL 57 (302)
Q Consensus 12 ~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L 57 (302)
+||.|||+.|+.++..||..+|..|+. .+++|++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~-~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAK-ELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHh-HcCCCCHHHHHHHHHHhC
Confidence 599999999999999999888999954 589999999999997653
No 18
>PLN03091 hypothetical protein; Provisional
Probab=98.80 E-value=4.1e-09 Score=104.25 Aligned_cols=50 Identities=18% Similarity=0.438 Sum_probs=44.6
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHhC-CcchhhhccC-CCCCHHHHHHHHHHH
Q 038795 58 RPNLKNGCKFSLEEERIVIELQAQFG-NKWARIATYL-PGRTDNDVKNFWSSR 108 (302)
Q Consensus 58 ~p~lk~~~~WT~EED~lLlelv~~~G-~kWs~IAk~L-pgRT~nq~KnRw~~l 108 (302)
+..++++ .||.|||++|+++|.+|| ++|..||+.+ +||++.|||.||..+
T Consensus 9 KqklrKg-~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~Ny 60 (459)
T PLN03091 9 KQKLRKG-LWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINY 60 (459)
T ss_pred CCCCcCC-CCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhc
Confidence 3567788 899999999999999999 5799999988 599999999999843
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.77 E-value=8.5e-09 Score=105.51 Aligned_cols=98 Identities=34% Similarity=0.490 Sum_probs=80.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHh----CC-----------CC--------cccccccccCCCCcccccc---ccccccCCCC
Q 038795 8 IRKGPWKAEEDEVLINHVKKY----GP-----------RD--------WSSIRSKGLLQRTGKSCRL---RWVNKLRPNL 61 (302)
Q Consensus 8 lrKG~WT~EED~~L~~~V~~~----G~-----------~n--------W~~Ias~~l~~Rt~~qCR~---Rw~~~L~p~l 61 (302)
++-+.|+.+||..|-+.|..| |. .+ |..| ...+|.|+..++.. |-.+.+.+
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~-~~~Lp~R~~~siy~~~rR~y~~FE~-- 382 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNL-YKLLPYRDRKSIYHHLRRAYTPFEN-- 382 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhh-hhhcCcccchhHHHHHHhcCCcccc--
Confidence 445789999999999999887 11 11 4566 55688899998877 33344444
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHH
Q 038795 62 KNGCKFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQK 110 (302)
Q Consensus 62 k~~~~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~k 110 (302)
++| .||++|++.|..+|.++|+.|..|++.| ||.+.+|+.||..+++
T Consensus 383 ~rg-~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~ 429 (607)
T KOG0051|consen 383 KRG-KWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVK 429 (607)
T ss_pred ccC-CCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhc
Confidence 678 8999999999999999999999999999 9999999999988765
No 20
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.75 E-value=7.1e-09 Score=95.66 Aligned_cols=50 Identities=18% Similarity=0.323 Sum_probs=44.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhC-CcchhhhccCC-CCCHHHHHHHHHHHHH
Q 038795 60 NLKNGCKFSLEEERIVIELQAQFG-NKWARIATYLP-GRTDNDVKNFWSSRQK 110 (302)
Q Consensus 60 ~lk~~~~WT~EED~lLlelv~~~G-~kWs~IAk~Lp-gRT~nq~KnRw~~l~k 110 (302)
.+.+| +||.|||.+|+++|++|| ++|..||+.++ +|++.+||-||.++++
T Consensus 6 ~~~kG-pWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLr 57 (238)
T KOG0048|consen 6 ELVKG-PWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLR 57 (238)
T ss_pred cccCC-CCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccC
Confidence 34478 999999999999999999 67999999998 9999999999986654
No 21
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.01 E-value=4.7e-07 Score=91.85 Aligned_cols=96 Identities=28% Similarity=0.573 Sum_probs=82.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCC--CCCCCCCCCHHHHHHHHHHHHHhC---
Q 038795 9 RKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRP--NLKNGCKFSLEEERIVIELQAQFG--- 83 (302)
Q Consensus 9 rKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p--~lk~~~~WT~EED~lLlelv~~~G--- 83 (302)
.+|.||.||+..|...+..+| ..|..| .+ ..+|-...||+||.+|... .++++ +|+.+|+.+|...+...-
T Consensus 290 ~~~~wt~e~~~eL~~~~~~~~-~~w~~i-g~-~~~rmp~~crd~wr~~~~~g~t~~~~-~ws~eee~~l~~vv~e~~~~~ 365 (512)
T COG5147 290 QRGKWTKEEEQELAKLVVEHG-GSWTEI-GK-LLGRMPNDCRDRWRDYVKCGDTLKRN-RWSIEEEELLDKVVNEMRLEA 365 (512)
T ss_pred hhccCcccccccccccccccc-chhhHh-hh-hhccCcHHHHHHHhhhccccCccCCC-CCchhhhhhHHHHHHHHHHHH
Confidence 468899999999999999999 679999 45 6899999999999999988 78787 899999999998876321
Q ss_pred -----CcchhhhccCCCCCHHHHHHHHHHH
Q 038795 84 -----NKWARIATYLPGRTDNDVKNFWSSR 108 (302)
Q Consensus 84 -----~kWs~IAk~LpgRT~nq~KnRw~~l 108 (302)
-.|..|++.+.+|...+|+.++..+
T Consensus 366 ~~~~~~~~~li~~~~~~~~~~~~~~~~~~~ 395 (512)
T COG5147 366 QQSSRILWLLIAQNIRNRLQHHCRDKYGVL 395 (512)
T ss_pred hhhhhhhHHHHHHhhhccccCCCCCccccc
Confidence 3599999999988888888766543
No 22
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.69 E-value=5.6e-05 Score=75.03 Aligned_cols=44 Identities=20% Similarity=0.496 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHhC-CcchhhhccCCCCCHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFG-NKWARIATYLPGRTDNDVKNFWSSRQ 109 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G-~kWs~IAk~LpgRT~nq~KnRw~~l~ 109 (302)
.||.+|+.+|++++..|| |+|..||.++..||..+||.+|.++.
T Consensus 74 ~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 74 SWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 699999999999999999 99999999999999999999997653
No 23
>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=97.66 E-value=0.0001 Score=54.27 Aligned_cols=44 Identities=14% Similarity=0.309 Sum_probs=39.1
Q ss_pred CCCHHHHHHHHHHHHHhCC-cc---hhhhccCC-CC-CHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGN-KW---ARIATYLP-GR-TDNDVKNFWSSRQ 109 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~-kW---s~IAk~Lp-gR-T~nq~KnRw~~l~ 109 (302)
.||+||..++++++..+|. +| ..|+..+. .| |..||+.+...+.
T Consensus 5 ~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 5 VWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 7999999999999999996 99 99999873 45 9999999987653
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=97.61 E-value=3.7e-05 Score=56.58 Aligned_cols=48 Identities=17% Similarity=0.300 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCc---ccccccccCCC-Ccccccccccccc
Q 038795 10 KGPWKAEEDEVLINHVKKYGPRDW---SSIRSKGLLQR-TGKSCRLRWVNKL 57 (302)
Q Consensus 10 KG~WT~EED~~L~~~V~~~G~~nW---~~Ias~~l~~R-t~~qCR~Rw~~~L 57 (302)
+-.||+||..+++++|+.+|.++| ..|+......| |..||+.|++.|.
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 456999999999999999997799 99965544456 9999999987764
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.25 E-value=0.00011 Score=73.12 Aligned_cols=49 Identities=22% Similarity=0.615 Sum_probs=44.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCcccccccccccc
Q 038795 8 IRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKL 57 (302)
Q Consensus 8 lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L 57 (302)
+-.+.||.+|+-+|++++..||-+||..| +.++..|++.+|+++|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dI-A~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDI-ADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHH-HHHHcccchHHHHHHHHHHH
Confidence 55678999999999999999999999999 56688999999999999865
No 26
>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=97.18 E-value=0.00046 Score=60.63 Aligned_cols=49 Identities=16% Similarity=0.291 Sum_probs=42.8
Q ss_pred CCCCHHHHHHHHHHHHHh---CC----cchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 65 CKFSLEEERIVIELQAQF---GN----KWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 65 ~~WT~EED~lLlelv~~~---G~----kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
+.||.|||.+|.+.|-.| |+ -...+++.| +||+.+|.=|||+.+|+.+.
T Consensus 5 DAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 5 DAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHH
Confidence 479999999999999887 43 378889999 99999999999999997654
No 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.03 E-value=0.0013 Score=59.85 Aligned_cols=96 Identities=26% Similarity=0.485 Sum_probs=68.0
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccccccC---CCCccccccccccccC----------------CC----CCCCCCCC
Q 038795 12 PWKAEEDEVLINHVKKYGPRDWSSIRSKGLL---QRTGKSCRLRWVNKLR----------------PN----LKNGCKFS 68 (302)
Q Consensus 12 ~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~---~Rt~~qCR~Rw~~~L~----------------p~----lk~~~~WT 68 (302)
.|+++.|-.|+.+|..-. +-..| .+++. .-|-..+.+||+..|. |. +.....||
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v-~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS 77 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESV-HLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFS 77 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHH-HccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCC
Confidence 499999999999998755 45556 33332 2355667789987663 21 22335899
Q ss_pred HHHHHHHHHHHHHhCC---cchhhh----ccC-CCCCHHHHHHHHHHHHH
Q 038795 69 LEEERIVIELQAQFGN---KWARIA----TYL-PGRTDNDVKNFWSSRQK 110 (302)
Q Consensus 69 ~EED~lLlelv~~~G~---kWs~IA----k~L-pgRT~nq~KnRw~~l~k 110 (302)
.+|+++|......... .+.+|- ..| ++||+.++.++|..+.+
T Consensus 78 ~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkq 127 (199)
T PF13325_consen 78 KEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQ 127 (199)
T ss_pred HHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHH
Confidence 9999999998765542 477772 234 89999999999985544
No 28
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.01 E-value=0.00054 Score=52.98 Aligned_cols=51 Identities=31% Similarity=0.573 Sum_probs=37.0
Q ss_pred CCCHHHHHHHHHHHHH------hC--C------cchhhhccC----CCCCHHHHHHHHHHHHHHHHHHh
Q 038795 66 KFSLEEERIVIELQAQ------FG--N------KWARIATYL----PGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 66 ~WT~EED~lLlelv~~------~G--~------kWs~IAk~L----pgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.||.+|...||+++.. ++ + .|..||..| ..||+.||+++|+++.++..+..
T Consensus 3 ~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k 71 (90)
T PF13837_consen 3 NWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIK 71 (90)
T ss_dssp SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSS
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHH
Confidence 6999999999999876 21 1 399999876 47999999999999877665443
No 29
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=96.90 E-value=0.00067 Score=68.86 Aligned_cols=51 Identities=25% Similarity=0.535 Sum_probs=44.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CcchhhhccCCCCCHHHHHHHHHHHHHHH
Q 038795 61 LKNGCKFSLEEERIVIELQAQFG-NKWARIATYLPGRTDNDVKNFWSSRQKRL 112 (302)
Q Consensus 61 lk~~~~WT~EED~lLlelv~~~G-~kWs~IAk~LpgRT~nq~KnRw~~l~kr~ 112 (302)
++-+ .|+.-||++|.-.|.+|| +.|+.|++.|+-.|..||++||...+.-.
T Consensus 5 ~kgg-vwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~ 56 (617)
T KOG0050|consen 5 IKGG-VWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPA 56 (617)
T ss_pred Eecc-eecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHH
Confidence 3445 899999999999999999 67999999999999999999999766433
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.51 E-value=0.003 Score=64.58 Aligned_cols=43 Identities=12% Similarity=0.342 Sum_probs=41.3
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSR 108 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l 108 (302)
.||.+|.-+|++.+..||-+|.+||.++.+||..||--+|..+
T Consensus 255 ~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 255 NWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 7999999999999999999999999999999999999999765
No 31
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.49 E-value=0.0024 Score=64.31 Aligned_cols=43 Identities=16% Similarity=0.338 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSR 108 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l 108 (302)
.||.+|..+|++.++.||..|.+||.++.+||..||--||-++
T Consensus 281 ~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 281 NWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 7999999999999999999999999999999999999999765
No 32
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.40 E-value=0.0073 Score=45.90 Aligned_cols=50 Identities=30% Similarity=0.506 Sum_probs=41.6
Q ss_pred CCCHHHHHHHHHHHHHhC----C-------------cchhhhccC-----CCCCHHHHHHHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFG----N-------------KWARIATYL-----PGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G----~-------------kWs~IAk~L-----pgRT~nq~KnRw~~l~kr~~r~ 115 (302)
.||.+|..+|++++.+|. + -|..|+..| +.||..++|.+|..+....++.
T Consensus 4 ~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk~ 75 (78)
T PF13873_consen 4 NFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKKK 75 (78)
T ss_pred CCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHH
Confidence 799999999999998873 1 399998765 3699999999999988766554
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=96.26 E-value=0.001 Score=50.17 Aligned_cols=52 Identities=27% Similarity=0.436 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCC------C--CcccccccccCCCCccccccccccccCCCC
Q 038795 10 KGPWKAEEDEVLINHVKKYGP------R--DWSSIRSKGLLQRTGKSCRLRWVNKLRPNL 61 (302)
Q Consensus 10 KG~WT~EED~~L~~~V~~~G~------~--nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~l 61 (302)
|.+||.|||+.|+..|..+.. + =|..++...+..+|-.+-|+||...|.+..
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 568999999999999976521 1 299987775558899999999999987654
No 34
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.09 E-value=0.007 Score=53.82 Aligned_cols=47 Identities=15% Similarity=0.259 Sum_probs=40.0
Q ss_pred CCCHHHHHHHHHHHHHhCCc-------chhhhccCCCCCHHHHHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNK-------WARIATYLPGRTDNDVKNFWSSRQKRLA 113 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~k-------Ws~IAk~LpgRT~nq~KnRw~~l~kr~~ 113 (302)
.||.|+|.+|.+.|..|+.. ...++..| +||..+|.-|||+.+++.+
T Consensus 7 awt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 7 AWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred hhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHH
Confidence 79999999999999888732 56667888 9999999999999988643
No 35
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.08 E-value=0.0054 Score=59.34 Aligned_cols=43 Identities=26% Similarity=0.579 Sum_probs=40.6
Q ss_pred CCCHHHHHHHHHHHHHhC-CcchhhhccCCCCCHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFG-NKWARIATYLPGRTDNDVKNFWSSR 108 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G-~kWs~IAk~LpgRT~nq~KnRw~~l 108 (302)
.|+.+|+.+|++.....| ++|..||.++..|+..+||.+|..+
T Consensus 65 ~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~ 108 (432)
T COG5114 65 GWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKM 108 (432)
T ss_pred CcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHH
Confidence 699999999999999999 9999999999999999999998654
No 36
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.07 E-value=0.003 Score=64.62 Aligned_cols=48 Identities=21% Similarity=0.615 Sum_probs=42.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccc
Q 038795 7 EIRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNK 56 (302)
Q Consensus 7 ~lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~ 56 (302)
.--++.||.+|+.+|+++|+.|| -+|.+| +.++.+|+..||-.++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~-ddW~kV-a~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYG-DDWNKV-ADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhc-ccHHHH-HhccCCCCHHHHHHHHHhc
Confidence 34577899999999999999999 789999 5679999999999997653
No 37
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=95.99 E-value=0.0028 Score=63.83 Aligned_cols=46 Identities=24% Similarity=0.624 Sum_probs=41.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccc
Q 038795 9 RKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNK 56 (302)
Q Consensus 9 rKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~ 56 (302)
+...||.+|..+|+++|+.|| -+|.+| +.++.+|+..||-.|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kV-A~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKV-ARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHH-HHHhCCCCHHHHHHHHHcC
Confidence 566899999999999999999 689999 5679999999999998863
No 38
>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=95.12 E-value=0.028 Score=42.38 Aligned_cols=46 Identities=15% Similarity=0.316 Sum_probs=31.5
Q ss_pred CCCHHHHHHHHHHHHHhC--------Cc-chhhhccCC-CCCHHHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFG--------NK-WARIATYLP-GRTDNDVKNFWSSRQKR 111 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G--------~k-Ws~IAk~Lp-gRT~nq~KnRw~~l~kr 111 (302)
+||.+||.+|++.|.++. |+ |..++..-+ .+|-...|+||...++.
T Consensus 4 ~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~ 59 (65)
T PF08914_consen 4 PFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRG 59 (65)
T ss_dssp ---HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT--
T ss_pred CCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhc
Confidence 799999999999996652 22 999997766 99999999999766543
No 39
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.05 E-value=0.051 Score=60.17 Aligned_cols=101 Identities=18% Similarity=0.395 Sum_probs=77.6
Q ss_pred CCHHHHHHHHHHHHHhCCCCcccccccccCCCCcccccc-------ccccc------c----------------------
Q 038795 13 WKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRL-------RWVNK------L---------------------- 57 (302)
Q Consensus 13 WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~-------Rw~~~------L---------------------- 57 (302)
||.-+=..++.+..+||..+...||.. +.+++...++. ||... +
T Consensus 827 w~~~~f~~f~~~~~~~gr~~~~~i~~~-~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~~ 905 (1033)
T PLN03142 827 WSRRDFNAFIRACEKYGRNDIKSIASE-MEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIGK 905 (1033)
T ss_pred ccHHHHHHHHHHHHHhCHhHHHHHHHH-hcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 899999999999999998888899654 77888777763 22210 0
Q ss_pred ---------------CCCCCCCCCCCHHHHHHHHHHHHHhC-Ccchhhhc------------cCCCCCHHHHHHHHHHHH
Q 038795 58 ---------------RPNLKNGCKFSLEEERIVIELQAQFG-NKWARIAT------------YLPGRTDNDVKNFWSSRQ 109 (302)
Q Consensus 58 ---------------~p~lk~~~~WT~EED~lLlelv~~~G-~kWs~IAk------------~LpgRT~nq~KnRw~~l~ 109 (302)
.++ +++..+|++||+-|+-++.+|| ++|..|-. +|..||+..|..|.++++
T Consensus 906 k~~~~~~p~~~l~~~~~~-~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 906 KLDRYKNPWLELKIQYGQ-NKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHccCcHHHceeecCC-CCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 022 2334799999999999999999 78999832 347899999999999999
Q ss_pred HHHHHH
Q 038795 110 KRLARI 115 (302)
Q Consensus 110 kr~~r~ 115 (302)
+-+.+.
T Consensus 985 ~~~~~e 990 (1033)
T PLN03142 985 RLIEKE 990 (1033)
T ss_pred HHHHHH
Confidence 877554
No 40
>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=94.47 E-value=0.011 Score=52.12 Aligned_cols=50 Identities=30% Similarity=0.626 Sum_probs=39.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHh---CC---CCcccccccccCCCCccccccccccccCC
Q 038795 8 IRKGPWKAEEDEVLINHVKKY---GP---RDWSSIRSKGLLQRTGKSCRLRWVNKLRP 59 (302)
Q Consensus 8 lrKG~WT~EED~~L~~~V~~~---G~---~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p 59 (302)
.|...||.|||.+|-+.|-+| |. ....+++.+ .+||+.-|.-||+.+++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~--L~RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRA--LNRTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHH--HcccHHHhcchHHHHHHH
Confidence 467789999999999999988 31 135666444 799999999999998863
No 41
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=94.23 E-value=0.01 Score=45.74 Aligned_cols=47 Identities=30% Similarity=0.557 Sum_probs=31.1
Q ss_pred CCCCHHHHHHHHHHHHH--h----C--CC-----Cccccccc---ccCCCCcccccccccccc
Q 038795 11 GPWKAEEDEVLINHVKK--Y----G--PR-----DWSSIRSK---GLLQRTGKSCRLRWVNKL 57 (302)
Q Consensus 11 G~WT~EED~~L~~~V~~--~----G--~~-----nW~~Ias~---~l~~Rt~~qCR~Rw~~~L 57 (302)
-.||.+|...|++++.. + + .. -|..||.. .+..|++.||+.+|.+..
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 46999999999999987 2 1 11 39999644 245899999999998754
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.12 E-value=0.034 Score=42.19 Aligned_cols=49 Identities=31% Similarity=0.529 Sum_probs=37.9
Q ss_pred CCCCCCHHHHHHHHHHHHHh-----CC-----------CCccccccc----ccCCCCcccccccccccc
Q 038795 9 RKGPWKAEEDEVLINHVKKY-----GP-----------RDWSSIRSK----GLLQRTGKSCRLRWVNKL 57 (302)
Q Consensus 9 rKG~WT~EED~~L~~~V~~~-----G~-----------~nW~~Ias~----~l~~Rt~~qCR~Rw~~~L 57 (302)
|+..||.+|.+.|+++|.+| |. .-|..|+.. ....|+..+++.+|.+..
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 46679999999999999988 21 129998533 234799999999998764
No 43
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=93.92 E-value=0.15 Score=49.29 Aligned_cols=55 Identities=20% Similarity=0.325 Sum_probs=43.9
Q ss_pred CCCCHHHHHHHHHHHHHh----------CCcchhhhccC----CCCCHHHHHHHHHHHHHHHHHHhccC
Q 038795 65 CKFSLEEERIVIELQAQF----------GNKWARIATYL----PGRTDNDVKNFWSSRQKRLARILQNS 119 (302)
Q Consensus 65 ~~WT~EED~lLlelv~~~----------G~kWs~IAk~L----pgRT~nq~KnRw~~l~kr~~r~~~~s 119 (302)
..|+.+|-..||++..+. +..|..||..+ .-||+.+||++|.++.++.++.+...
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~~~ 123 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKAKK 123 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhccc
Confidence 479999999999987543 23499999743 56999999999999988877765443
No 44
>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=93.08 E-value=0.24 Score=38.60 Aligned_cols=48 Identities=27% Similarity=0.495 Sum_probs=36.6
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------cchhhhccC-----CCCCHHHHHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQF---GN----------KWARIATYL-----PGRTDNDVKNFWSSRQKRLA 113 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~---G~----------kWs~IAk~L-----pgRT~nq~KnRw~~l~kr~~ 113 (302)
.||.++++.|++++.+. |+ .|..|+..| -..|..||+|||..+.+...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y~ 66 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDYR 66 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHHH
Confidence 49999999999997554 22 288898765 33578999999998877543
No 45
>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=92.86 E-value=0.17 Score=42.53 Aligned_cols=50 Identities=20% Similarity=0.470 Sum_probs=40.5
Q ss_pred CCCCHHHHHHHHHHHHHhCC----cchhhhc------------cCCCCCHHHHHHHHHHHHHHHHH
Q 038795 65 CKFSLEEERIVIELQAQFGN----KWARIAT------------YLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 65 ~~WT~EED~lLlelv~~~G~----kWs~IAk------------~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
..||++||.-|+-++.+||- .|..|-. +|..||+.+|..|.+++++-+.+
T Consensus 50 k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~K 115 (118)
T PF09111_consen 50 KVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIEK 115 (118)
T ss_dssp SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHHC
T ss_pred CCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHHH
Confidence 37999999999999999995 7988843 34679999999999999987643
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=92.69 E-value=0.17 Score=50.38 Aligned_cols=52 Identities=25% Similarity=0.295 Sum_probs=45.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhhcc-----CCC-CCHHHHHHHHHHHHHHHHHHh
Q 038795 65 CKFSLEEERIVIELQAQFGNKWARIATY-----LPG-RTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 65 ~~WT~EED~lLlelv~~~G~kWs~IAk~-----Lpg-RT~nq~KnRw~~l~kr~~r~~ 116 (302)
..||.+|-.-|.+|.+.|.=+|..||.. ++. ||-.++|.||....+++.+..
T Consensus 131 n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr 188 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKAR 188 (445)
T ss_pred ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHcc
Confidence 3699999999999999999999999965 655 999999999999888876644
No 47
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=92.01 E-value=0.043 Score=53.29 Aligned_cols=47 Identities=19% Similarity=0.432 Sum_probs=42.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccC
Q 038795 11 GPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLR 58 (302)
Q Consensus 11 G~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~ 58 (302)
--|+..|+.+|+++....|-+||..|| ..+..|+...|+++|..++.
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIa-dyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIA-DYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHH-HHHhhhhhHHHHHHHHHHHh
Confidence 459999999999999999999999995 45779999999999988764
No 48
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=91.89 E-value=0.36 Score=48.90 Aligned_cols=49 Identities=18% Similarity=0.310 Sum_probs=44.2
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
.||.||--++-+....||++..+|-+.||.|+-..+..+|....|...+
T Consensus 189 ~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~~~ 237 (534)
T KOG1194|consen 189 EWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTREY 237 (534)
T ss_pred cchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHhhH
Confidence 6999999999999999999999999999999999999998877665433
No 49
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=90.12 E-value=0.078 Score=47.22 Aligned_cols=50 Identities=26% Similarity=0.537 Sum_probs=37.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCccccc-----ccccCCCCccccccccccccC
Q 038795 8 IRKGPWKAEEDEVLINHVKKYGPRDWSSIR-----SKGLLQRTGKSCRLRWVNKLR 58 (302)
Q Consensus 8 lrKG~WT~EED~~L~~~V~~~G~~nW~~Ia-----s~~l~~Rt~~qCR~Rw~~~L~ 58 (302)
.|...||.|||.+|-+.|-.|+...=..++ .. ..+|+...|..||..+++
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~-~L~rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGD-ALKRTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHH-HHhhhHHHHHhHHHHHHH
Confidence 567889999999999999988643322331 12 468999999999976665
No 50
>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=87.84 E-value=1.1 Score=31.21 Aligned_cols=42 Identities=29% Similarity=0.355 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHH
Q 038795 69 LEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKR 111 (302)
Q Consensus 69 ~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr 111 (302)
++++..++.++-..|-.|.+||..+ |.|.+.|+.+....+++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 4667788888888899999999999 99999999988766554
No 51
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=86.99 E-value=0.93 Score=45.18 Aligned_cols=45 Identities=16% Similarity=0.337 Sum_probs=41.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHH
Q 038795 65 CKFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQ 109 (302)
Q Consensus 65 ~~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~ 109 (302)
.+||..|-++.+.+...+|..++.|+..+|.|...|||-+|..--
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Ee 410 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEE 410 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHh
Confidence 489999999999999999999999999999999999999996543
No 52
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=86.39 E-value=0.46 Score=47.27 Aligned_cols=51 Identities=24% Similarity=0.413 Sum_probs=42.6
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccc
Q 038795 2 EGKREEIRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNK 56 (302)
Q Consensus 2 ~~kK~~lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~ 56 (302)
+|++.+-- +||.+|-++...+....| -+...| +.++|+|+.+|++..|.+-
T Consensus 359 ~g~~~~~~--~Ws~~e~ekFYKALs~wG-tdF~LI-s~lfP~R~RkqIKaKfi~E 409 (507)
T COG5118 359 FGKKKGAL--RWSKKEIEKFYKALSIWG-TDFSLI-SSLFPNRERKQIKAKFIKE 409 (507)
T ss_pred ccCCCCCC--cccHHHHHHHHHHHHHhc-chHHHH-HHhcCchhHHHHHHHHHHH
Confidence 45555443 499999999999999999 679999 4569999999999998763
No 53
>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=80.55 E-value=1.3 Score=37.14 Aligned_cols=31 Identities=32% Similarity=0.624 Sum_probs=25.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC---CCccccc
Q 038795 7 EIRKGPWKAEEDEVLINHVKKYGP---RDWSSIR 37 (302)
Q Consensus 7 ~lrKG~WT~EED~~L~~~V~~~G~---~nW~~Ia 37 (302)
.-++..||.+||..|+-++.+||- +.|..|.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik 79 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIK 79 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHH
Confidence 456778999999999999999998 7899984
No 54
>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=79.90 E-value=1.2 Score=34.95 Aligned_cols=26 Identities=38% Similarity=0.552 Sum_probs=15.4
Q ss_pred CCCCCCCHHHHHHH--------HHHHHHhCCCCcccc
Q 038795 8 IRKGPWKAEEDEVL--------INHVKKYGPRDWSSI 36 (302)
Q Consensus 8 lrKG~WT~EED~~L--------~~~V~~~G~~nW~~I 36 (302)
--.|-||+|+|+.| .+++++|| +..|
T Consensus 45 n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i 78 (87)
T PF11626_consen 45 NMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERI 78 (87)
T ss_dssp T-TT---HHHHHHHTS--HHHHHHHHHHH----HHHH
T ss_pred CCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHH
Confidence 45889999999999 45556777 5555
No 55
>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=78.97 E-value=4.6 Score=27.87 Aligned_cols=43 Identities=30% Similarity=0.327 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHH
Q 038795 70 EEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLA 113 (302)
Q Consensus 70 EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~ 113 (302)
+++..++.++-..|-.+..||..+ |-|...|+.+.+..+++++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKKLR 49 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHHhc
Confidence 445556666555567899999999 8999999999888877764
No 56
>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=75.55 E-value=6.2 Score=32.40 Aligned_cols=43 Identities=26% Similarity=0.263 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 71 EERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 71 ED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
++..++.+.-..|-.+..||+.+ |.|...|+++.....+++++
T Consensus 117 ~~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~Lr~ 159 (161)
T TIGR02985 117 QCRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKELRK 159 (161)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 33444444444577899999999 99999999999888777654
No 57
>smart00595 MADF subfamily of SANT domain.
Probab=73.66 E-value=3.8 Score=31.36 Aligned_cols=30 Identities=30% Similarity=0.560 Sum_probs=24.2
Q ss_pred cchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 85 KWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 85 kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
-|..||..| |-|..+|+.+|+++..+..+.
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR~~y~~e 58 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLRDRYRRE 58 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHHHHHHHH
Confidence 499999999 449999999999986554443
No 58
>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=73.22 E-value=11 Score=36.93 Aligned_cols=52 Identities=29% Similarity=0.493 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHh-CCc---chhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 64 GCKFSLEEERIVIELQAQF-GNK---WARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 64 ~~~WT~EED~lLlelv~~~-G~k---Ws~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
...||.-|.+.|+.+.+-. |.. -..|++.++||+..+|++.-+.+..|..|.
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rvare 76 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVARE 76 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHHHH
Confidence 3589999999999887654 544 467889999999999999988887776553
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=68.86 E-value=8.3 Score=26.37 Aligned_cols=38 Identities=24% Similarity=0.356 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHhCC-cchhhhccCCCCCHHHHHHHHHHH
Q 038795 70 EEERIVIELQAQFGN-KWARIATYLPGRTDNDVKNFWSSR 108 (302)
Q Consensus 70 EED~lLlelv~~~G~-kWs~IAk~LpgRT~nq~KnRw~~l 108 (302)
+=|..|+.+.+.-|. .|..||+.+ |=|...|..|++.+
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 457888888888885 499999999 99999999998764
No 60
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=67.45 E-value=9.1 Score=40.46 Aligned_cols=51 Identities=16% Similarity=0.472 Sum_probs=41.4
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhh----------hccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 66 KFSLEEERIVIELQAQFGNKWARI----------ATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~I----------Ak~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.||-+|+.-...+..++|++...| -....-+|-.|++.+|+.+++++.+..
T Consensus 90 aWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 90 AWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred ccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 699999999999999999999888 223345777899999888777766544
No 61
>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=65.76 E-value=6.5 Score=29.17 Aligned_cols=32 Identities=31% Similarity=0.494 Sum_probs=24.9
Q ss_pred cchhhhccCC-CCCHHHHHHHHHHHHHHHHHHh
Q 038795 85 KWARIATYLP-GRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 85 kWs~IAk~Lp-gRT~nq~KnRw~~l~kr~~r~~ 116 (302)
-|..||..|. +-+..+|+.+|+.+..+..+.+
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~~~~ 60 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDRYRREL 60 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHHHHHH
Confidence 4999999984 3678899999999876655444
No 62
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=64.81 E-value=2.9 Score=40.47 Aligned_cols=47 Identities=23% Similarity=0.319 Sum_probs=36.4
Q ss_pred CCCCHHHHHHHHHHHHHh----CC-----CCccccccc---ccCCCCcccccccccccc
Q 038795 11 GPWKAEEDEVLINHVKKY----GP-----RDWSSIRSK---GLLQRTGKSCRLRWVNKL 57 (302)
Q Consensus 11 G~WT~EED~~L~~~V~~~----G~-----~nW~~Ias~---~l~~Rt~~qCR~Rw~~~L 57 (302)
..|+.+|-..|+.+.... +. .-|..||.+ ....|++.||+.+|.+..
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 679999999999998643 11 349999652 356799999999997754
No 63
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=64.10 E-value=11 Score=40.70 Aligned_cols=46 Identities=9% Similarity=0.203 Sum_probs=41.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHH
Q 038795 65 CKFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQK 110 (302)
Q Consensus 65 ~~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~k 110 (302)
..||..|-.+.-+++-.|.+.+-.|++.++++|-.+|-.+|.+..|
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWKK 665 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWKK 665 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHHH
Confidence 4799999999999999999999999999999999999998765543
No 64
>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=63.65 E-value=16 Score=29.07 Aligned_cols=39 Identities=28% Similarity=0.311 Sum_probs=29.9
Q ss_pred HHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 75 VIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 75 Llelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
++.++-..|..+..||+.+ |=|...|+++.+..++++++
T Consensus 118 ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~kl~~ 156 (158)
T TIGR02937 118 VLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKKLRE 156 (158)
T ss_pred HHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 3344445678899999999 77999999999887776654
No 65
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=62.73 E-value=18 Score=30.40 Aligned_cols=41 Identities=22% Similarity=0.218 Sum_probs=31.2
Q ss_pred HHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 75 VIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 75 Llelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
++.+....|-.+..||+.| |-+...|+++....++++.+..
T Consensus 136 vl~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr~~l 176 (182)
T PRK09652 136 AITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREALRAKL 176 (182)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 3334444577899999999 8999999999887777765543
No 66
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=62.53 E-value=14 Score=33.90 Aligned_cols=43 Identities=12% Similarity=0.188 Sum_probs=35.0
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccC---CCCCHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYL---PGRTDNDVKNFWSSRQ 109 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~L---pgRT~nq~KnRw~~l~ 109 (302)
.|+..+|-+|+..| ++|+.-..|+..+ -.-|-..|..||+.++
T Consensus 1 rW~~~DDl~Li~av-~~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~ll 46 (199)
T PF13325_consen 1 RWKPEDDLLLINAV-EQTNDLESVHLGVKFSCKFTLQEIEERWYALL 46 (199)
T ss_pred CCCchhhHHHHHHH-HHhcCHHHHHccCCcCCcCcHHHHHHHHHHHH
Confidence 49999999999998 6677777776543 4568899999999876
No 67
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=61.67 E-value=23 Score=28.50 Aligned_cols=52 Identities=15% Similarity=0.199 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHHHHHh----CC----cchhhh----ccC-CCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 66 KFSLEEERIVIELQAQF----GN----KWARIA----TYL-PGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~----G~----kWs~IA----k~L-pgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
.||+++|..||+.+..| |. .|..+. ..| ..=|.+|+.++-+.+.+|......
T Consensus 6 ~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~ 70 (98)
T PF04504_consen 6 LWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVK 70 (98)
T ss_pred CCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhh
Confidence 69999999999998766 62 354443 333 223778998888887777655443
No 68
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=60.61 E-value=93 Score=31.37 Aligned_cols=46 Identities=20% Similarity=0.237 Sum_probs=40.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhh-ccCCCCCHHHHHHHHHHHHH
Q 038795 65 CKFSLEEERIVIELQAQFGNKWARIA-TYLPGRTDNDVKNFWSSRQK 110 (302)
Q Consensus 65 ~~WT~EED~lLlelv~~~G~kWs~IA-k~LpgRT~nq~KnRw~~l~k 110 (302)
..|+++|=+..-+..+.||+....|. ..++.|+--.|-.+|....|
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWKk 324 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWKK 324 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhhc
Confidence 47999999999999999999999995 56899999999998865543
No 69
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=60.11 E-value=16 Score=31.16 Aligned_cols=40 Identities=13% Similarity=0.180 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHhCC-cchhhhccCCCCCHHHHHHHHHHHHH
Q 038795 70 EEERIVIELQAQFGN-KWARIATYLPGRTDNDVKNFWSSRQK 110 (302)
Q Consensus 70 EED~lLlelv~~~G~-kWs~IAk~LpgRT~nq~KnRw~~l~k 110 (302)
+-|..|+.+.++-|. .|+.||+.+ |-|...|+.|++.+..
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~ 49 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQ 49 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 468888888888874 599999999 9999999999987754
No 70
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=59.96 E-value=18 Score=30.26 Aligned_cols=36 Identities=25% Similarity=0.205 Sum_probs=29.5
Q ss_pred HHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 80 AQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 80 ~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
...|-.+..||+.| |-|...|+++.....+++++..
T Consensus 138 ~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~lr~~l 173 (179)
T PRK11924 138 YVEGLSYREIAEIL-GVPVGTVKSRLRRARQLLRECL 173 (179)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 34567899999999 9999999999988877776544
No 71
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=59.74 E-value=25 Score=30.77 Aligned_cols=43 Identities=26% Similarity=0.261 Sum_probs=32.4
Q ss_pred HHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 74 IVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 74 lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
.++.+.-..|-....||..| |-+.+.|++|+....+++++...
T Consensus 141 ~i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~Lr~~l~ 183 (192)
T PRK09643 141 AALVAVDMQGYSVADAARML-GVAEGTVKSRCARGRARLAELLG 183 (192)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHHH
Confidence 33444445677899999999 99999999999877776665543
No 72
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=59.72 E-value=17 Score=37.32 Aligned_cols=48 Identities=6% Similarity=-0.002 Sum_probs=43.5
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLA 113 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~ 113 (302)
.||-++-.++++.+++||....-|+-.+...+-.++++.+...-||+.
T Consensus 371 ~~~T~~~la~v~~I~~~~~~~~pl~wrik~t~cmee~e~l~~~~Rr~m 418 (534)
T KOG1194|consen 371 CFDTPAALALIDNIKRKHHMCVPLVWRVKQTKCMEENEILNEEARRQM 418 (534)
T ss_pred ccCcHHHHHHHHHHHHhccCcchhhhHhcCcchhhHHHHHHHHHHHHH
Confidence 599999999999999999999999999988999999999998877754
No 73
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=57.92 E-value=21 Score=30.39 Aligned_cols=35 Identities=17% Similarity=0.055 Sum_probs=28.4
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
..|..+..||..| |-|...|+++.....+++++..
T Consensus 150 ~~~~s~~eIA~~l-gis~~~v~~~l~Rar~~Lr~~l 184 (187)
T PRK09641 150 IEDLSLKEISEIL-DLPVGTVKTRIHRGREALRKQL 184 (187)
T ss_pred hhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 3467799999999 9999999999888777766543
No 74
>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=57.63 E-value=10 Score=33.43 Aligned_cols=41 Identities=22% Similarity=0.103 Sum_probs=35.7
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSS 107 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~ 107 (302)
.||.|..++|.+|. .-|-.=++||..|.|.|.|+|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 59999999999998 668888999999987999999876544
No 75
>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=57.44 E-value=16 Score=28.34 Aligned_cols=37 Identities=16% Similarity=0.241 Sum_probs=26.0
Q ss_pred HHHHHHHHhCC--------cchhhhccCCCC---C--HHHHHHHHHHHHH
Q 038795 74 IVIELQAQFGN--------KWARIATYLPGR---T--DNDVKNFWSSRQK 110 (302)
Q Consensus 74 lLlelv~~~G~--------kWs~IAk~LpgR---T--~nq~KnRw~~l~k 110 (302)
.|..+|.+.|| +|..||+.|..- + +.++|..|..++.
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 46777778874 699999988221 1 3678888877654
No 76
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=55.01 E-value=13 Score=42.24 Aligned_cols=74 Identities=20% Similarity=0.249 Sum_probs=44.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCCCCCCCCCCHHHHHHHHHHHHHh-CCcch
Q 038795 9 RKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIVIELQAQF-GNKWA 87 (302)
Q Consensus 9 rKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lLlelv~~~-G~kWs 87 (302)
.---|..++|..|+-.|-+||-++|..|..---.+=+.+ ..+.-.+-.+ .|-...-..|+.+...+ +.+|.
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dK-------i~~~e~~P~a-~~L~~R~~yLls~~~~~~~~~~~ 1203 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDK-------IFLVETVPQA-KHLQRRADYLLSLLRKHDKGNTP 1203 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccchhh-------hcccccCCch-HHHHHHHHHHHHHHhhcccCCCc
Confidence 344599999999999999999999999932111111111 1111112222 56666777777777666 45555
Q ss_pred hhh
Q 038795 88 RIA 90 (302)
Q Consensus 88 ~IA 90 (302)
...
T Consensus 1204 ~~~ 1206 (1373)
T KOG0384|consen 1204 KKL 1206 (1373)
T ss_pred hhh
Confidence 443
No 77
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=54.95 E-value=28 Score=30.45 Aligned_cols=44 Identities=27% Similarity=0.277 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 71 EERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 71 ED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
+...++++....|-.+..||+.| |-|...|+.+|.....++.+.
T Consensus 139 ~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~~l~~~ 182 (185)
T PF07638_consen 139 RQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARAWLRRE 182 (185)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHH
Confidence 34445555555677899999999 999999999999887766554
No 78
>PRK04217 hypothetical protein; Provisional
Probab=54.86 E-value=33 Score=28.44 Aligned_cols=49 Identities=20% Similarity=0.201 Sum_probs=39.9
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
..|.++ ..++.+....|-....||+.+ |-|...|+++++...+++....
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkLre~L 90 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKVAQML 90 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHH
Confidence 456666 677777777888999999999 9999999999998877776544
No 79
>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=53.77 E-value=9.3 Score=29.49 Aligned_cols=43 Identities=26% Similarity=0.546 Sum_probs=27.8
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------Cccccccc----ccCCCCccccccccc
Q 038795 12 PWKAEEDEVLINHVKKY---GPR---------DWSSIRSK----GLLQRTGKSCRLRWV 54 (302)
Q Consensus 12 ~WT~EED~~L~~~V~~~---G~~---------nW~~Ias~----~l~~Rt~~qCR~Rw~ 54 (302)
.||+++++.|++++... |.. .|..|+.+ .....+..||+.||.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~ 59 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWK 59 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHH
Confidence 49999999999999655 222 17777433 123345667777754
No 80
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=53.39 E-value=35 Score=28.84 Aligned_cols=41 Identities=27% Similarity=0.160 Sum_probs=31.7
Q ss_pred HHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 76 IELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 76 lelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
+.|....|-.-..||..| |.+.+.|+.|...-++++++...
T Consensus 127 l~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~Lr~~l~ 167 (173)
T PRK09645 127 LVRSYYRGWSTAQIAADL-GIPEGTVKSRLHYALRALRLALQ 167 (173)
T ss_pred HHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHhh
Confidence 333334566789999999 99999999999888887776554
No 81
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=53.25 E-value=33 Score=28.44 Aligned_cols=36 Identities=25% Similarity=0.206 Sum_probs=29.4
Q ss_pred HHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 80 AQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 80 ~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
...|-.-..||..| |-|.+.|++|....+++++...
T Consensus 119 ~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~Lr~~l 154 (161)
T PRK09047 119 YWEDMDVAETAAAM-GCSEGSVKTHCSRATHALAKAL 154 (161)
T ss_pred HHhcCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 34566789999999 9999999999988877776554
No 82
>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=52.76 E-value=31 Score=29.15 Aligned_cols=34 Identities=18% Similarity=0.262 Sum_probs=27.8
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
..|-....||..| |-|.+.|+++.....+++.+.
T Consensus 133 ~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~Lr~~ 166 (169)
T TIGR02954 133 YHDLTIKEIAEVM-NKPEGTVKTYLHRALKKLKKR 166 (169)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHH
Confidence 3466789999999 889999999998888777654
No 83
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=52.63 E-value=8.3 Score=38.54 Aligned_cols=43 Identities=21% Similarity=0.317 Sum_probs=38.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccccccCCCCcccccccccc
Q 038795 12 PWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVN 55 (302)
Q Consensus 12 ~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~ 55 (302)
.|+.+|=...-+.++.|| ++...|.+..+++|+...|-+-|..
T Consensus 279 ~wsEeEcr~FEegl~~yG-KDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYG-KDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred cCCHHHHHHHHHHHHHhc-ccHHHHHhcccccchHHHHHHHHHH
Confidence 499999999999999999 8999998888999999999886643
No 84
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=52.14 E-value=34 Score=28.54 Aligned_cols=38 Identities=11% Similarity=-0.062 Sum_probs=29.7
Q ss_pred HHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 78 LQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 78 lv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
+.-..|-.-..||+.| |-+.+.||+|.....++++...
T Consensus 117 l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~Lr~~l 154 (160)
T PRK09642 117 AHYLEEKSYQEIALQE-KIEVKTVEMKLYRARKWIKKHW 154 (160)
T ss_pred HHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 3334566789999999 9999999999888777766554
No 85
>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=52.09 E-value=23 Score=30.22 Aligned_cols=34 Identities=18% Similarity=0.123 Sum_probs=28.1
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|-....||..| |=|.+.|+++.....++++...
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~Lr~~l 186 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREAIAIRL 186 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHh
Confidence 456789999999 8899999999988887776654
No 86
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=52.05 E-value=28 Score=29.61 Aligned_cols=34 Identities=18% Similarity=0.075 Sum_probs=27.2
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|.....||..| |-|.+.|+++.....+++....
T Consensus 151 ~g~s~~eIA~~l-gis~~~v~~~l~Rar~~Lr~~l 184 (187)
T TIGR02948 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREALRKQL 184 (187)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHh
Confidence 356789999999 8899999999887777665543
No 87
>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=50.62 E-value=35 Score=29.70 Aligned_cols=41 Identities=15% Similarity=0.147 Sum_probs=31.7
Q ss_pred HHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 75 VIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 75 Llelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
++.+.-..|.....||..| |-|.+.||.|.....+++++..
T Consensus 139 v~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~Lr~~l 179 (188)
T TIGR02943 139 VFMMREVLGFESDEICQEL-EISTSNCHVLLYRARLSLRACL 179 (188)
T ss_pred HHHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHH
Confidence 3344444567899999999 9999999999988877776554
No 88
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=50.29 E-value=37 Score=29.05 Aligned_cols=39 Identities=15% Similarity=0.068 Sum_probs=30.6
Q ss_pred HHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 78 LQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 78 lv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
+.-..|.....||..| |-|.+.|+.+....++++.....
T Consensus 142 l~~~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~~l~ 180 (184)
T PRK12512 142 SISVEGASIKETAAKL-SMSEGAVRVALHRGLAALAAKFR 180 (184)
T ss_pred HHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHhh
Confidence 3334467789999999 99999999999888877766543
No 89
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=49.95 E-value=23 Score=30.61 Aligned_cols=42 Identities=7% Similarity=0.056 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHhCC-cchhhhccCCCCCHHHHHHHHHHHHHH
Q 038795 69 LEEERIVIELQAQFGN-KWARIATYLPGRTDNDVKNFWSSRQKR 111 (302)
Q Consensus 69 ~EED~lLlelv~~~G~-kWs~IAk~LpgRT~nq~KnRw~~l~kr 111 (302)
.+-|.+|+.+.++-|. .|+.||+.+ |=|...|..|++.+.+.
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~ 55 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQ 55 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHC
Confidence 4568888888878774 599999999 99999999999887653
No 90
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=49.67 E-value=38 Score=26.44 Aligned_cols=41 Identities=20% Similarity=0.295 Sum_probs=28.9
Q ss_pred HHHHHHHHhCC--------cchhhhccCCCC-----CHHHHHHHHHHHHHHHHH
Q 038795 74 IVIELQAQFGN--------KWARIATYLPGR-----TDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 74 lLlelv~~~G~--------kWs~IAk~LpgR-----T~nq~KnRw~~l~kr~~r 114 (302)
.|..+|.+.|| +|..||+.|.-. ...++|..|..++....+
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~yE~ 89 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPFER 89 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHHHH
Confidence 36666777774 699999988332 357889988887765433
No 91
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=49.43 E-value=41 Score=29.29 Aligned_cols=37 Identities=22% Similarity=0.086 Sum_probs=29.0
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhcc
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQN 118 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~~ 118 (302)
..|-....||+.| |-+...||++-..-+++++.....
T Consensus 156 ~~~~s~~EIA~~L-gis~~tVk~~l~ra~~~Lr~~l~~ 192 (194)
T PRK09646 156 YGGLTYREVAERL-AVPLGTVKTRMRDGLIRLRDCLGV 192 (194)
T ss_pred HcCCCHHHHHHHh-CCChHhHHHHHHHHHHHHHHHhcc
Confidence 3456789999999 779999999988877777666543
No 92
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=49.38 E-value=47 Score=28.22 Aligned_cols=44 Identities=20% Similarity=0.191 Sum_probs=33.7
Q ss_pred HHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 72 ERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 72 D~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
++.++.|....|-....||..| |-+.+.|+++-..-+++.....
T Consensus 124 ~r~v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~~~l 167 (172)
T PRK12523 124 ARAAFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCYIAL 167 (172)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHh
Confidence 3334444445677899999999 9999999999988888776654
No 93
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=48.92 E-value=40 Score=29.33 Aligned_cols=35 Identities=11% Similarity=0.004 Sum_probs=28.4
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
..|-....||..| |-|.+.||+|....+++++...
T Consensus 155 ~eg~s~~EIA~~l-gis~~tVk~rl~ra~~~Lr~~l 189 (194)
T PRK12531 155 LEELPHQQVAEMF-DIPLGTVKSRLRLAVEKLRHSM 189 (194)
T ss_pred HcCCCHHHHHHHh-CcCHHHHHHHHHHHHHHHHHHh
Confidence 3466789999999 9999999999888777776544
No 94
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=48.81 E-value=34 Score=29.56 Aligned_cols=34 Identities=15% Similarity=0.158 Sum_probs=27.3
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|-....||..| |-|.+.|+++.....+++++..
T Consensus 153 ~g~s~~eIA~~l-gis~~tv~~~l~Rar~~Lr~~l 186 (193)
T PRK11923 153 DGLSYEDIASVM-QCPVGTVRSRIFRAREAIDKAL 186 (193)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 456789999999 8899999999988777665543
No 95
>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=47.86 E-value=21 Score=28.13 Aligned_cols=30 Identities=23% Similarity=0.555 Sum_probs=24.4
Q ss_pred HHHHHHHHHHhCCcchhhhccCCCCCHHHHH
Q 038795 72 ERIVIELQAQFGNKWARIATYLPGRTDNDVK 102 (302)
Q Consensus 72 D~lLlelv~~~G~kWs~IAk~LpgRT~nq~K 102 (302)
|+.|..+....|..|..+|.+| |=|..+|.
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I~ 31 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDIY 31 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 5668889999999999999999 66666553
No 96
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=47.04 E-value=41 Score=29.05 Aligned_cols=37 Identities=19% Similarity=0.240 Sum_probs=29.6
Q ss_pred HHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 80 AQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 80 ~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
...|-....||..| |-|...|++++....+++.....
T Consensus 144 ~~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr~~l~ 180 (189)
T PRK12515 144 YYHEKSVEEVGEIV-GIPESTVKTRMFYARKKLAELLK 180 (189)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHHH
Confidence 34567799999999 88999999999887777665543
No 97
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=46.72 E-value=42 Score=29.18 Aligned_cols=35 Identities=9% Similarity=0.033 Sum_probs=28.3
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
..|-....||..| |-|.+.||.|...-.++++...
T Consensus 148 ~~g~s~~EIA~~l-gis~~tVk~~l~RAr~~Lr~~l 182 (189)
T PRK12530 148 YLELSSEQICQEC-DISTSNLHVLLYRARLQLQACL 182 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 3466799999999 9999999999887776665543
No 98
>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=46.35 E-value=20 Score=28.02 Aligned_cols=17 Identities=18% Similarity=0.454 Sum_probs=9.6
Q ss_pred CCCCCCCCCCHHHHHHHH
Q 038795 59 PNLKNGCKFSLEEERIVI 76 (302)
Q Consensus 59 p~lk~~~~WT~EED~lLl 76 (302)
|.-..| -||+++|..|.
T Consensus 43 P~n~~G-iWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPG-IWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT----HHHHHHHT
T ss_pred CCCCCC-CcCHHHHHHHH
Confidence 444477 89999999994
No 99
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=46.11 E-value=41 Score=29.19 Aligned_cols=39 Identities=23% Similarity=0.198 Sum_probs=30.2
Q ss_pred HHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 78 LQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 78 lv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
+.-..|-....||..| |-|...|+++.....+++.....
T Consensus 117 l~~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~Lr~~l~ 155 (181)
T PRK09637 117 LTELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVKLKELLE 155 (181)
T ss_pred HHHhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHHH
Confidence 3334577899999999 99999999998877777665443
No 100
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=45.96 E-value=46 Score=28.65 Aligned_cols=38 Identities=21% Similarity=0.110 Sum_probs=29.3
Q ss_pred HHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 77 ELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 77 elv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
.+.-..|.....||..| |-+.+.|+.+....++++++.
T Consensus 149 ~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr~~ 186 (189)
T PRK09648 149 ILRVVVGLSAEETAEAV-GSTPGAVRVAQHRALARLRAE 186 (189)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHH
Confidence 33334467899999999 999999999988777776554
No 101
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=45.72 E-value=46 Score=28.60 Aligned_cols=37 Identities=11% Similarity=0.120 Sum_probs=29.3
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhcc
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQN 118 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~~ 118 (302)
..|-....||+.| |-|.+.|+++.....+++++....
T Consensus 142 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~Lr~~l~~ 178 (186)
T PRK05602 142 YQGLSNIEAAAVM-DISVDALESLLARGRRALRAQLAD 178 (186)
T ss_pred hcCCCHHHHHHHh-CcCHHHHHHHHHHHHHHHHHHHHh
Confidence 4466789999999 999999999988877777665543
No 102
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=45.66 E-value=31 Score=24.80 Aligned_cols=37 Identities=19% Similarity=0.393 Sum_probs=24.4
Q ss_pred CCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHH
Q 038795 67 FSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFW 105 (302)
Q Consensus 67 WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw 105 (302)
.|.. |+-.+.++.+.|-.=.+||+.+ ||+.+.|+++-
T Consensus 5 Lt~~-Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 5 LTDA-EQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp --HH-HHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred CCHH-HHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 3444 4455566779999999999999 99999998864
No 103
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=45.34 E-value=16 Score=38.73 Aligned_cols=48 Identities=17% Similarity=0.434 Sum_probs=35.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcccccccc---------cCCCCcccccccccccc
Q 038795 9 RKGPWKAEEDEVLINHVKKYGPRDWSSIRSKG---------LLQRTGKSCRLRWVNKL 57 (302)
Q Consensus 9 rKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~---------l~~Rt~~qCR~Rw~~~L 57 (302)
.|..||-.|.+-...+++.+| ++...|-... +.-++-.|.|.+|++.+
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred cccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 366899999999999999999 8888871111 23346667787777654
No 104
>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=45.11 E-value=42 Score=21.74 Aligned_cols=42 Identities=29% Similarity=0.288 Sum_probs=28.9
Q ss_pred CCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHH
Q 038795 67 FSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQK 110 (302)
Q Consensus 67 WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~k 110 (302)
++.+ +..++.++-..|-.+..||..+ |=+...|+.+.+...+
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~~~ 52 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRALK 52 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 4444 4455555556778899999998 7888888777655443
No 105
>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=45.04 E-value=45 Score=27.80 Aligned_cols=32 Identities=34% Similarity=0.345 Sum_probs=25.9
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
.|-....||+.| |-+...|+++-....+++++
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~~Lr~ 168 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIKKLAR 168 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 466789999999 99999999988777766654
No 106
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=44.22 E-value=41 Score=34.86 Aligned_cols=42 Identities=17% Similarity=0.416 Sum_probs=37.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCcchhhh-ccCCCCCHHHHHHHHH
Q 038795 65 CKFSLEEERIVIELQAQFGNKWARIA-TYLPGRTDNDVKNFWS 106 (302)
Q Consensus 65 ~~WT~EED~lLlelv~~~G~kWs~IA-k~LpgRT~nq~KnRw~ 106 (302)
..|+..|-.+.-++..+||+....|- .+||-++-..|-.+|.
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 37999999999999999999999996 6779999999988764
No 107
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=44.17 E-value=55 Score=27.96 Aligned_cols=34 Identities=24% Similarity=0.200 Sum_probs=27.8
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|-.-..||..+ |-|.+.|+++.+..++++....
T Consensus 150 ~~~s~~eIA~~l-gis~~~V~~~l~ra~~~Lr~~l 183 (186)
T PRK13919 150 QGYTHREAAQLL-GLPLGTLKTRARRALSRLKEVL 183 (186)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHh
Confidence 455679999999 9999999999988887776654
No 108
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=44.12 E-value=62 Score=26.96 Aligned_cols=35 Identities=20% Similarity=0.107 Sum_probs=28.0
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
..|-.-..||..| |-+.+.|++|....++++....
T Consensus 119 ~~~~s~~eIA~~l-gis~~tv~~~l~ra~~~Lr~~l 153 (159)
T PRK12527 119 LEGLSHQQIAEHL-GISRSLVEKHIVNAMKHCRVRM 153 (159)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHH
Confidence 3455678999999 9999999999888777766544
No 109
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=43.58 E-value=53 Score=28.67 Aligned_cols=45 Identities=27% Similarity=0.254 Sum_probs=33.5
Q ss_pred HHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhcc
Q 038795 73 RIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQN 118 (302)
Q Consensus 73 ~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~~ 118 (302)
..++.|....|-....||..| |-|.+.||+|-...++++.+....
T Consensus 122 r~i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~Lr~~l~~ 166 (187)
T PRK12516 122 REAIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQRLQEILQI 166 (187)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHh
Confidence 334444444577899999999 999999999988877777665543
No 110
>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=42.50 E-value=22 Score=27.40 Aligned_cols=31 Identities=19% Similarity=0.534 Sum_probs=24.4
Q ss_pred HHHHHHHHHHhCCcchhhhccCCCCCHHHHHH
Q 038795 72 ERIVIELQAQFGNKWARIATYLPGRTDNDVKN 103 (302)
Q Consensus 72 D~lLlelv~~~G~kWs~IAk~LpgRT~nq~Kn 103 (302)
|..|..+....|..|.++|..| |=+..+|..
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 4567788889999999999999 666665543
No 111
>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=42.49 E-value=61 Score=26.95 Aligned_cols=45 Identities=29% Similarity=0.252 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 71 EERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 71 ED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
++..++.+.-..|-.-..||..| |-+...|+++....++++.+..
T Consensus 114 ~~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr~~l 158 (162)
T TIGR02983 114 RQRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALARLRELL 158 (162)
T ss_pred HHHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHh
Confidence 34444444445566789999999 9999999999988888776654
No 112
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=41.97 E-value=60 Score=27.84 Aligned_cols=38 Identities=24% Similarity=0.071 Sum_probs=30.2
Q ss_pred HHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 78 LQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 78 lv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
++...|-....||..| |.+...|+++-...+++++...
T Consensus 140 l~~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~Lr~~l 177 (181)
T PRK12536 140 HVKLEGLSVAETAQLT-GLSESAVKVGIHRGLKALAAKI 177 (181)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHh
Confidence 3334567899999999 9999999999888777776543
No 113
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=41.60 E-value=51 Score=27.11 Aligned_cols=33 Identities=15% Similarity=0.149 Sum_probs=24.9
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
..|-....||..+ |-+...|+++-...++++.+
T Consensus 120 ~~~~s~~EIA~~l-~is~~tV~~~~~ra~~~Lr~ 152 (154)
T PRK06759 120 FVGKTMGEIALET-EMTYYQVRWIYRQALEKMRN 152 (154)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHhh
Confidence 3456688899998 89999999987776666543
No 114
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=41.40 E-value=54 Score=28.44 Aligned_cols=38 Identities=16% Similarity=0.232 Sum_probs=29.7
Q ss_pred HHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 78 LQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 78 lv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
+....|-.-..||..| |-|.+.|++|....++++++..
T Consensus 147 L~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~~l 184 (195)
T PRK12532 147 LKEILGFSSDEIQQMC-GISTSNYHTIMHRARESLRQCL 184 (195)
T ss_pred hHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 3334567789999999 9999999999988777666554
No 115
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=40.95 E-value=35 Score=35.99 Aligned_cols=43 Identities=16% Similarity=0.348 Sum_probs=40.7
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSR 108 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l 108 (302)
.|+.+|-++........|.+.+.|+..+++|+..|||-.|..-
T Consensus 411 ~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 411 KWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred cccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhh
Confidence 8999999999999999999999999999999999999988654
No 116
>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=40.90 E-value=34 Score=26.90 Aligned_cols=31 Identities=13% Similarity=0.335 Sum_probs=25.0
Q ss_pred HHHHHHHHHHhCCcchhhhccCCCCCHHHHHH
Q 038795 72 ERIVIELQAQFGNKWARIATYLPGRTDNDVKN 103 (302)
Q Consensus 72 D~lLlelv~~~G~kWs~IAk~LpgRT~nq~Kn 103 (302)
|..|..+....|..|..+|..| |=+..+|.+
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 6678888899999999999999 666655544
No 117
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=40.84 E-value=66 Score=27.12 Aligned_cols=40 Identities=25% Similarity=0.265 Sum_probs=30.6
Q ss_pred HHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 76 IELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 76 lelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
+.+....|-....||..| |-+...|+++-....++++...
T Consensus 121 ~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr~~l 160 (164)
T PRK12547 121 IILIGASGFSYEDAAAIC-GCAVGTIKSRVSRARNRLQELL 160 (164)
T ss_pred HHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHH
Confidence 333334567789999999 9999999999888877776544
No 118
>PLN03162 golden-2 like transcription factor; Provisional
Probab=40.70 E-value=1.6e+02 Score=29.89 Aligned_cols=45 Identities=16% Similarity=0.212 Sum_probs=36.5
Q ss_pred CCCHHHHHHHHHHHHHhCCc---chhhhccC--CCCCHHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNK---WARIATYL--PGRTDNDVKNFWSSRQK 110 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~k---Ws~IAk~L--pgRT~nq~KnRw~~l~k 110 (302)
.||.|-.++.+++|.++|.. =+.|-+.| +|=|..+||.+.+.+.-
T Consensus 239 rWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl 288 (526)
T PLN03162 239 DWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRS 288 (526)
T ss_pred cCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHH
Confidence 79999999999999999942 45666554 88999999998766543
No 119
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=40.26 E-value=62 Score=28.19 Aligned_cols=40 Identities=20% Similarity=0.189 Sum_probs=30.4
Q ss_pred HHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 76 IELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 76 lelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
+.++...|-.+..||..| |=+.+.|+++.....+++.+..
T Consensus 145 ~~L~~~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~Lr~~l 184 (196)
T PRK12524 145 VVLRHIEGLSNPEIAEVM-EIGVEAVESLTARGKRALAALL 184 (196)
T ss_pred HHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHH
Confidence 333334567899999999 9999999999887777766544
No 120
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=39.85 E-value=67 Score=27.31 Aligned_cols=33 Identities=12% Similarity=0.124 Sum_probs=27.0
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
.|-.-..||+.| |.|...|+++.....++++..
T Consensus 144 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr~~ 176 (179)
T PRK12514 144 EGLSYKELAERH-DVPLNTMRTWLRRSLLKLREC 176 (179)
T ss_pred cCCCHHHHHHHH-CCChHHHHHHHHHHHHHHHHH
Confidence 366789999999 999999999988777766543
No 121
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=39.64 E-value=14 Score=39.92 Aligned_cols=42 Identities=17% Similarity=0.348 Sum_probs=37.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccc
Q 038795 11 GPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWV 54 (302)
Q Consensus 11 G~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~ 54 (302)
..||+.|-.+..+++..|. ++...| .+.+++++.+||-+-|+
T Consensus 620 d~WTp~E~~lF~kA~y~~~-KDF~~v-~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYS-KDFIFV-QKMVKSKTVAQCVEYYY 661 (907)
T ss_pred ccccHHHHHHHHHHHHHhc-ccHHHH-HHHhccccHHHHHHHHH
Confidence 4699999999999999999 889999 55699999999988653
No 122
>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=39.58 E-value=68 Score=27.25 Aligned_cols=33 Identities=27% Similarity=0.274 Sum_probs=27.2
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
..|-....||..| |-+...||+|.....+++.+
T Consensus 148 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~ 180 (183)
T TIGR02999 148 FAGLTVEEIAELL-GVSVRTVERDWRFARAWLAD 180 (183)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 3466789999999 99999999998877776654
No 123
>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=38.59 E-value=20 Score=35.17 Aligned_cols=86 Identities=17% Similarity=0.314 Sum_probs=60.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCc---ccccccccCCCCccccccccccccCCCCCCCCCCCHHHHHHHHHHHHH-h---
Q 038795 10 KGPWKAEEDEVLINHVKKYGPRDW---SSIRSKGLLQRTGKSCRLRWVNKLRPNLKNGCKFSLEEERIVIELQAQ-F--- 82 (302)
Q Consensus 10 KG~WT~EED~~L~~~V~~~G~~nW---~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk~~~~WT~EED~lLlelv~~-~--- 82 (302)
...||.-|-..|+.+.+....+.+ .+| ++.+++|+..++++ |.+.|+-. .+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael-~~~l~~Rs~aEI~~-fl~~LK~r-------------vareaiqkv~~~g 85 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAEL-AKELPGRSEAEIRD-FLQQLKGR-------------VAREAIQKVHPGG 85 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHH-HhhccCcCHHHHHH-HHHHHHHH-------------HHHHHHHHhcccc
Confidence 356999999999999987643444 456 34589999999887 45555322 23334333 2
Q ss_pred --CC------------cchhhhccCCCCCHHHHHHHHHHHHH
Q 038795 83 --GN------------KWARIATYLPGRTDNDVKNFWSSRQK 110 (302)
Q Consensus 83 --G~------------kWs~IAk~LpgRT~nq~KnRw~~l~k 110 (302)
|. -|..+|+.+.|.-...+---|..++-
T Consensus 86 ~~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 86 LKGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred cccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 21 29999999999999999888877654
No 124
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 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=38.06 E-value=55 Score=30.77 Aligned_cols=36 Identities=19% Similarity=0.226 Sum_probs=29.5
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
.+|-.-..||+.| |.|.+.||+|.....+++++...
T Consensus 156 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~Lr~~l~ 191 (324)
T TIGR02960 156 VLGWRAAETAELL-GTSTASVNSALQRARATLDEVGP 191 (324)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHhcc
Confidence 3466789999999 99999999998888777766543
No 125
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=37.89 E-value=71 Score=27.57 Aligned_cols=36 Identities=17% Similarity=0.061 Sum_probs=28.6
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
..|-.-..||..| |-|.+.|++|.....++++....
T Consensus 145 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~Lr~~l~ 180 (191)
T PRK12520 145 WLELETEEICQEL-QITATNAWVLLYRARMRLRECLD 180 (191)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHH
Confidence 3466779999999 99999999998887777665443
No 126
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=37.80 E-value=61 Score=28.08 Aligned_cols=33 Identities=15% Similarity=0.171 Sum_probs=27.2
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
..|-....||..| |-|.+.||+|....+++++.
T Consensus 144 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~ 176 (185)
T PRK09649 144 LLGLSYADAAAVC-GCPVGTIRSRVARARDALLA 176 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 3456789999999 99999999998877777655
No 127
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=37.80 E-value=74 Score=27.29 Aligned_cols=35 Identities=17% Similarity=0.456 Sum_probs=28.5
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
..|-.-..||..| |-|...|++|.....+++....
T Consensus 136 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~~l 170 (185)
T PRK12542 136 FYNLTYQEISSVM-GITEANVRKQFERARKRVQNMI 170 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 4566789999999 9999999999887777766544
No 128
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=37.53 E-value=19 Score=36.21 Aligned_cols=50 Identities=18% Similarity=0.352 Sum_probs=41.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcccccccc----cCC-CCcccccccccccc
Q 038795 7 EIRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKG----LLQ-RTGKSCRLRWVNKL 57 (302)
Q Consensus 7 ~lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~----l~~-Rt~~qCR~Rw~~~L 57 (302)
.++...||.||-+.|.++.+.|. -.|-.|+.+. .+. ||....++||....
T Consensus 127 ~l~dn~WskeETD~LF~lck~fD-LRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFD-LRFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcC-eeEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 45667899999999999999998 6699997662 444 99999999998644
No 129
>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=36.78 E-value=27 Score=28.78 Aligned_cols=31 Identities=23% Similarity=0.195 Sum_probs=25.9
Q ss_pred CCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 83 GNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 83 G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
|-.+..||..| |=|...|+++.....+++..
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~Lr~ 151 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKELKK 151 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 45689999999 99999999999887777654
No 130
>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=36.46 E-value=38 Score=26.44 Aligned_cols=26 Identities=19% Similarity=0.549 Sum_probs=20.4
Q ss_pred HHHHHHhCCcchhhhccCCCCCHHHHH
Q 038795 76 IELQAQFGNKWARIATYLPGRTDNDVK 102 (302)
Q Consensus 76 lelv~~~G~kWs~IAk~LpgRT~nq~K 102 (302)
..+....|..|..+|..| |=+..+|.
T Consensus 11 ~~ia~~iG~~Wk~Lar~L-Gls~~dI~ 36 (86)
T cd08318 11 TVFANKLGEDWKTLAPHL-EMKDKEIR 36 (86)
T ss_pred HHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 335677899999999999 77777664
No 131
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=36.34 E-value=77 Score=26.88 Aligned_cols=35 Identities=26% Similarity=0.441 Sum_probs=27.6
Q ss_pred HHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 80 AQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 80 ~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
...|-....||..| |-|.+.|+.+....++++++.
T Consensus 153 ~~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~Lr~~ 187 (189)
T TIGR02984 153 HLEGLSFAEVAERM-DRSEGAVSMLWVRGLARLRQI 187 (189)
T ss_pred HhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHH
Confidence 34566789999999 999999999988877776543
No 132
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=35.93 E-value=77 Score=27.88 Aligned_cols=34 Identities=24% Similarity=0.179 Sum_probs=27.7
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|..-..||..| |.+...||+|.....++++...
T Consensus 154 eg~s~~EIA~~l-gis~~tVk~~l~RAr~~Lr~~l 187 (201)
T PRK12545 154 LDFEIDDICTEL-TLTANHCSVLLYRARTRLRTCL 187 (201)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHH
Confidence 456789999999 9999999999887777665544
No 133
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=35.64 E-value=79 Score=27.12 Aligned_cols=38 Identities=18% Similarity=0.044 Sum_probs=29.7
Q ss_pred HHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 76 IELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 76 lelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
+.|....|-....||..| |-+.+.||.|...-+++...
T Consensus 136 ~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~ 173 (178)
T PRK12529 136 FLMATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLS 173 (178)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 334444577899999999 99999999998877776644
No 134
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=34.84 E-value=42 Score=30.30 Aligned_cols=34 Identities=21% Similarity=0.157 Sum_probs=28.3
Q ss_pred CCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 83 GNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 83 G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
|-....||..| |-|...|+++.....+++++...
T Consensus 165 g~s~~EIAe~l-gis~~tVk~~l~Rar~kLr~~l~ 198 (231)
T PRK11922 165 ELSVEETAQAL-GLPEETVKTRLHRARRLLRESLA 198 (231)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHHH
Confidence 55689999999 99999999999888777766554
No 135
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=34.69 E-value=82 Score=27.99 Aligned_cols=35 Identities=23% Similarity=0.244 Sum_probs=28.6
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
.|..-..||+.| |-+.+.|+++.....+++++...
T Consensus 153 ~g~s~~EIA~~L-gis~~tV~~~l~RArk~Lr~~l~ 187 (203)
T PRK09647 153 EGLSYEEIAATL-GVKLGTVRSRIHRGRQQLRAALA 187 (203)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHH
Confidence 456778999999 99999999999888777766553
No 136
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=34.56 E-value=79 Score=27.71 Aligned_cols=40 Identities=28% Similarity=0.258 Sum_probs=31.0
Q ss_pred HHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 77 ELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 77 elv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
.|....|-....||..| |-|...|+++.....+++++...
T Consensus 123 ~L~~~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~Lr~~l~ 162 (188)
T PRK12546 123 ILVGASGFSYEEAAEMC-GVAVGTVKSRANRARARLAELLQ 162 (188)
T ss_pred hhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHh
Confidence 33344577899999999 99999999998887777766543
No 137
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=34.53 E-value=84 Score=26.95 Aligned_cols=34 Identities=29% Similarity=0.232 Sum_probs=27.1
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
..|-.-..||..+ |-|.+.|+++....++++...
T Consensus 147 ~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr~~ 180 (182)
T PRK12537 147 VDGCSHAEIAQRL-GAPLGTVKAWIKRSLKALREC 180 (182)
T ss_pred HcCCCHHHHHHHH-CCChhhHHHHHHHHHHHHHHH
Confidence 3456678999999 999999999998887776553
No 138
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=34.35 E-value=92 Score=27.48 Aligned_cols=34 Identities=15% Similarity=-0.009 Sum_probs=27.5
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|-.-..||..+ |.|.+.|+++....++++.+..
T Consensus 168 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr~~l 201 (206)
T PRK12526 168 QELSQEQLAQQL-NVPLGTVKSRLRLALAKLKVQM 201 (206)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 355678999999 9999999999888777776654
No 139
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=32.84 E-value=87 Score=27.08 Aligned_cols=33 Identities=33% Similarity=0.430 Sum_probs=25.8
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
.|-.-..||+.| |-|.+.|+++-....+++++.
T Consensus 146 ~g~s~~EIAe~l-gis~~~V~~~l~Ra~~~Lr~~ 178 (189)
T PRK06811 146 LGEKIEEIAKKL-GLTRSAIDNRLSRGRKKLQKN 178 (189)
T ss_pred ccCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHc
Confidence 355678999999 999999999987777666554
No 140
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=32.79 E-value=15 Score=31.76 Aligned_cols=46 Identities=15% Similarity=0.179 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCCCC
Q 038795 15 AEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLK 62 (302)
Q Consensus 15 ~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk 62 (302)
.+-|.+|+.+.++.|...|..||.+ .|-+...|+.|+.+..+..+-
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~--lglS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKR--VGLSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHH--HCcCHHHHHHHHHHHHHCCCe
Confidence 5679999999999998899999655 688999999998887665543
No 141
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=32.57 E-value=96 Score=27.60 Aligned_cols=35 Identities=11% Similarity=0.056 Sum_probs=28.2
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
..|-.-.+||..| |-|.+.|++|....++++++..
T Consensus 162 ~~g~s~~EIAe~l-gis~~tV~~~l~RAr~~Lr~~l 196 (206)
T PRK12544 162 FIELETNEICHAV-DLSVSNLNVLLYRARLRLRECL 196 (206)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHH
Confidence 3456679999999 9999999999888777766544
No 142
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=32.52 E-value=43 Score=28.31 Aligned_cols=33 Identities=24% Similarity=0.334 Sum_probs=26.5
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
+|-....||..| |-+...|+++....++++.+.
T Consensus 141 ~g~s~~eIA~~l-~is~~~V~~~l~ra~~~l~~~ 173 (176)
T PRK09638 141 YGYTYEEIAKML-NIPEGTVKSRVHHGIKQLRKE 173 (176)
T ss_pred cCCCHHHHHHHH-CCChhHHHHHHHHHHHHHHHH
Confidence 466789999999 779999999887777766554
No 143
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=32.06 E-value=96 Score=25.84 Aligned_cols=37 Identities=27% Similarity=0.236 Sum_probs=27.8
Q ss_pred HHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHH
Q 038795 76 IELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLA 113 (302)
Q Consensus 76 lelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~ 113 (302)
+.+.-..|-....||..+ |-+.+.|++|...-.+++.
T Consensus 122 ~~L~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~~~~ 158 (161)
T PRK12528 122 FLLAQVDGLGYGEIATEL-GISLATVKRYLNKAAMRCY 158 (161)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 334444567889999999 9999999998877666553
No 144
>PRK00118 putative DNA-binding protein; Validated
Probab=31.79 E-value=1.1e+02 Score=25.16 Aligned_cols=44 Identities=20% Similarity=0.121 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHH
Q 038795 69 LEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLA 113 (302)
Q Consensus 69 ~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~ 113 (302)
.+.++.++.+....|-....||+.+ |-|.+.|+.+-....+++.
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArkkLr 62 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEKLLE 62 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 3445666677777788999999999 9999999998766555443
No 145
>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=31.51 E-value=45 Score=25.22 Aligned_cols=29 Identities=24% Similarity=0.544 Sum_probs=21.2
Q ss_pred HHHHHHHHHH-hCCcchhhhccCCCCCHHHH
Q 038795 72 ERIVIELQAQ-FGNKWARIATYLPGRTDNDV 101 (302)
Q Consensus 72 D~lLlelv~~-~G~kWs~IAk~LpgRT~nq~ 101 (302)
...|..++.. .|++|..+|+.| |=+..+|
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKL-GLSEADI 34 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHc-CCCHHHH
Confidence 4556666666 899999999999 4455554
No 146
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=30.91 E-value=1.1e+02 Score=25.50 Aligned_cols=40 Identities=25% Similarity=0.380 Sum_probs=29.6
Q ss_pred HHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 75 VIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 75 Llelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
++.+.- .|-.-..||..| |-|.+.|+++....+++++...
T Consensus 120 il~l~~-~g~s~~eIA~~l-gis~~tV~~~i~ra~~~Lr~~l 159 (166)
T PRK09639 120 VLLLRF-SGYSYKEIAEAL-GIKESSVGTTLARAKKKFRKIY 159 (166)
T ss_pred HHHHHH-cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 333444 566678999999 9999999999887777665544
No 147
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=30.75 E-value=83 Score=28.73 Aligned_cols=34 Identities=18% Similarity=0.185 Sum_probs=27.4
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|-.-..||..| |-|.+.|++|...-++++++..
T Consensus 186 eg~s~~EIA~~L-gis~~tVk~~l~RAr~kLr~~l 219 (233)
T PRK12538 186 ENMSNGEIAEVM-DTTVAAVESLLKRGRQQLRDLL 219 (233)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHH
Confidence 355689999999 9999999999887777766544
No 148
>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=30.66 E-value=52 Score=25.65 Aligned_cols=31 Identities=19% Similarity=0.427 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhCCcchhhhccCCCCCHHHHHH
Q 038795 72 ERIVIELQAQFGNKWARIATYLPGRTDNDVKN 103 (302)
Q Consensus 72 D~lLlelv~~~G~kWs~IAk~LpgRT~nq~Kn 103 (302)
|..|-.+....|.+|..+|+.| |=|..+|.+
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 4567778889999999999999 777777765
No 149
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=30.31 E-value=92 Score=24.36 Aligned_cols=41 Identities=20% Similarity=0.207 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHhCC-cchhhhccCCCCCHHHHHHHHHHHHHH
Q 038795 70 EEERIVIELQAQFGN-KWARIATYLPGRTDNDVKNFWSSRQKR 111 (302)
Q Consensus 70 EED~lLlelv~~~G~-kWs~IAk~LpgRT~nq~KnRw~~l~kr 111 (302)
+.|..|+.+..+.|. .++.||+.+ |-+...|..+.+.+..+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~ 44 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEE 44 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHC
Confidence 467888888888774 699999999 99999999998887653
No 150
>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=30.28 E-value=48 Score=26.05 Aligned_cols=30 Identities=30% Similarity=0.575 Sum_probs=23.8
Q ss_pred HHHHHHHHhCCcchhhhccCCCCCHHHHHHH
Q 038795 74 IVIELQAQFGNKWARIATYLPGRTDNDVKNF 104 (302)
Q Consensus 74 lLlelv~~~G~kWs~IAk~LpgRT~nq~KnR 104 (302)
.|-.+....|.+|..+|+.| |=|..+|.+.
T Consensus 4 ~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~i 33 (86)
T cd08777 4 HLDLLRENLGKKWKRCARKL-GFTESEIEEI 33 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHc-CCCHHHHHHH
Confidence 35556677899999999999 8888887663
No 151
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=30.10 E-value=1.6e+02 Score=20.28 Aligned_cols=45 Identities=24% Similarity=0.450 Sum_probs=34.9
Q ss_pred CCCHHHHHHHHHHHHHhCC----cchhhhccCCCCCHHHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGN----KWARIATYLPGRTDNDVKNFWSSRQKR 111 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~----kWs~IAk~LpgRT~nq~KnRw~~l~kr 111 (302)
.+|.+.-..|.+....... .-..||..+ |=+..+|++.|.+.-.+
T Consensus 6 ~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l-~l~~~~V~~WF~nrR~k 54 (57)
T PF00046_consen 6 RFTKEQLKVLEEYFQENPYPSKEEREELAKEL-GLTERQVKNWFQNRRRK 54 (57)
T ss_dssp SSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHH-TSSHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHhccccccccccccccc-cccccccccCHHHhHHH
Confidence 7999999999888876331 357788888 99999999998765433
No 152
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=29.66 E-value=1.1e+02 Score=27.67 Aligned_cols=43 Identities=28% Similarity=0.311 Sum_probs=31.8
Q ss_pred HHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 73 RIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 73 ~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
+.++.++-..|-....||..+ |-|...|+++.+..++++++..
T Consensus 190 r~vl~l~~~~g~s~~EIA~~l-gis~~tV~~~~~ra~~~Lr~~l 232 (236)
T PRK06986 190 QLVLSLYYQEELNLKEIGAVL-GVSESRVSQIHSQAIKRLRARL 232 (236)
T ss_pred HHHHHhHhccCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 333334334566789999999 9999999999888877776544
No 153
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=29.44 E-value=40 Score=25.58 Aligned_cols=17 Identities=18% Similarity=0.520 Sum_probs=14.3
Q ss_pred HHHHHHHHhCCcchhhh
Q 038795 74 IVIELQAQFGNKWARIA 90 (302)
Q Consensus 74 lLlelv~~~G~kWs~IA 90 (302)
.|.+|.+.||++|.-|-
T Consensus 31 vl~~LL~lY~~nW~lIE 47 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIE 47 (65)
T ss_pred HHHHHHHHHcCCchhhh
Confidence 46688889999999985
No 154
>PRK12535 RNA polymerase sigma factor; Provisional
Probab=29.37 E-value=1.1e+02 Score=26.83 Aligned_cols=36 Identities=8% Similarity=0.093 Sum_probs=29.0
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhcc
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQN 118 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~~ 118 (302)
.|..-..||..| |-+.+.|++|....++++.+....
T Consensus 148 ~g~s~~EIAe~l-gis~~tV~~~l~Rar~~Lr~~l~~ 183 (196)
T PRK12535 148 LGYTYEEAAKIA-DVRVGTIRSRVARARADLIAATAT 183 (196)
T ss_pred hCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHhcc
Confidence 355678999999 999999999998888777766544
No 155
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=29.16 E-value=1.1e+02 Score=27.95 Aligned_cols=43 Identities=19% Similarity=0.229 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 72 ERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 72 D~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
++.++.+.-..|.....||..| |-|...|+++....+++++..
T Consensus 206 ~r~vl~l~~~~~~s~~EIA~~l-gis~~tV~~~~~ra~~~Lr~~ 248 (251)
T PRK07670 206 EQLVISLFYKEELTLTEIGQVL-NLSTSRISQIHSKALFKLKKL 248 (251)
T ss_pred HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHH
Confidence 3444444444566789999999 999999999988777776553
No 156
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=29.12 E-value=1e+02 Score=25.70 Aligned_cols=32 Identities=22% Similarity=0.217 Sum_probs=25.0
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
.|-....||..| |=|...|+.+-....++++.
T Consensus 127 ~~~s~~eIA~~l-gis~~tv~~~l~Rar~~L~~ 158 (161)
T PRK12541 127 YGFSYKEIAEMT-GLSLAKVKIELHRGRKETKS 158 (161)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 355678999999 88889999988777766654
No 157
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=29.03 E-value=84 Score=31.74 Aligned_cols=58 Identities=24% Similarity=0.267 Sum_probs=43.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhC----------------CcchhhhccC-----CCCCHHHHHHHHHHHHHHHHHHhccCCC
Q 038795 63 NGCKFSLEEERIVIELQAQFG----------------NKWARIATYL-----PGRTDNDVKNFWSSRQKRLARILQNSAT 121 (302)
Q Consensus 63 ~~~~WT~EED~lLlelv~~~G----------------~kWs~IAk~L-----pgRT~nq~KnRw~~l~kr~~r~~~~s~~ 121 (302)
-| .|+++=|+-..++...|. |+=..||+++ ..||..||-.|-..+-||+.|.-+...+
T Consensus 76 eg-vWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq~klk 154 (455)
T KOG3841|consen 76 EG-VWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQAKLK 154 (455)
T ss_pred cc-ccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 45 899999999999988873 2457788876 4588899999988887777665544333
No 158
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=29.03 E-value=40 Score=35.60 Aligned_cols=47 Identities=23% Similarity=0.436 Sum_probs=40.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcccccccccCCCCcccccccccc
Q 038795 7 EIRKGPWKAEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVN 55 (302)
Q Consensus 7 ~lrKG~WT~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~ 55 (302)
....++||.+|-++...+....| .+-+.| +..+++|..+|++..+..
T Consensus 406 ~~~~~~w~~se~e~fyka~~~~g-s~~sli-s~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 406 KLETDKWDASETELFYKALSERG-SDFSLI-SNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred ccccCcccchhhHHhhhHHhhhc-cccccc-ccccccccHHHHHHHHhh
Confidence 35567799999999999999999 678999 556999999999987654
No 159
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=28.86 E-value=95 Score=26.73 Aligned_cols=33 Identities=24% Similarity=0.124 Sum_probs=25.6
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
.|-.-..||..| |-|.+.|+++....++++.+.
T Consensus 156 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr~~ 188 (194)
T PRK12519 156 EGLSQSEIAKRL-GIPLGTVKARARQGLLKLREL 188 (194)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHH
Confidence 455678889998 889999999887777666553
No 160
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=28.84 E-value=94 Score=26.44 Aligned_cols=31 Identities=23% Similarity=0.292 Sum_probs=25.6
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLA 113 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~ 113 (302)
.|-...+||+.+ |-+.+.|+++....+++..
T Consensus 134 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~~~ 164 (172)
T PRK09651 134 DGLTYSEIAHKL-GVSVSSVKKYVAKATEHCL 164 (172)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 456789999999 9999999999887766654
No 161
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=28.70 E-value=1.2e+02 Score=26.26 Aligned_cols=37 Identities=16% Similarity=0.183 Sum_probs=29.5
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhcc
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQN 118 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~~ 118 (302)
..|-.-.+||..| |-|...|+.+-....+++++....
T Consensus 125 ~~g~s~~EIA~~L-gis~~tV~~~l~RAr~~Lr~~l~~ 161 (182)
T PRK12540 125 ASGFSYEDAAAIC-GCAVGTIKSRVNRARSKLSALLYV 161 (182)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHHh
Confidence 3466789999999 999999999988777777666544
No 162
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=28.70 E-value=21 Score=30.39 Aligned_cols=46 Identities=4% Similarity=0.107 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHhCCCCcccccccccCCCCccccccccccccCCCCC
Q 038795 15 AEEDEVLINHVKKYGPRDWSSIRSKGLLQRTGKSCRLRWVNKLRPNLK 62 (302)
Q Consensus 15 ~EED~~L~~~V~~~G~~nW~~Ias~~l~~Rt~~qCR~Rw~~~L~p~lk 62 (302)
.+-|.+|+.+.++.|...|.+||.+ .|-+...|+.|+.+.....+-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~--lglS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQ--FGVSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHH--HCcCHHHHHHHHHHHHHCCCe
Confidence 3579999999999998899999655 689999999998877655443
No 163
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=28.47 E-value=1.1e+02 Score=26.12 Aligned_cols=33 Identities=21% Similarity=0.115 Sum_probs=25.7
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
.|-.-..||..| |-+.+.|++|....++++...
T Consensus 142 ~g~s~~EIA~~l-~is~~tv~~~l~Ra~~~Lr~~ 174 (179)
T PRK09415 142 EELSIKEIAEVT-GVNENTVKTRLKKAKELLKKG 174 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHH
Confidence 355678889888 779999999988777776554
No 164
>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=28.37 E-value=67 Score=28.79 Aligned_cols=45 Identities=18% Similarity=0.429 Sum_probs=0.0
Q ss_pred CCHHHHHHHHHHHHHhC-Ccchhhh--ccC-----CCCCHH------HHHHHHHHHHHHHH
Q 038795 67 FSLEEERIVIELQAQFG-NKWARIA--TYL-----PGRTDN------DVKNFWSSRQKRLA 113 (302)
Q Consensus 67 WT~EED~lLlelv~~~G-~kWs~IA--k~L-----pgRT~n------q~KnRw~~l~kr~~ 113 (302)
|-..-|--|+..+..|| ++|..|. ..+ |-++.. ++||+| +.+|.+
T Consensus 6 w~r~hdywll~gi~~hgy~rwqdi~nd~~f~IiNEPFk~e~~kgnfle~KNkF--LaRRfK 64 (173)
T PF08074_consen 6 WHRRHDYWLLAGIVKHGYGRWQDIQNDPRFAIINEPFKTESQKGNFLEMKNKF--LARRFK 64 (173)
T ss_pred hhhhhhHHHHhHHhhccchhHHHHhcCCceeeecccccccccccchHHHHHHH--HHHHHH
No 165
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=27.84 E-value=1.4e+02 Score=25.02 Aligned_cols=36 Identities=22% Similarity=0.205 Sum_probs=27.8
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
-.|-.-..||..| |-+...|+.+-....+++++...
T Consensus 122 ~~g~s~~eIA~~l-gis~~tv~~~l~Rar~~Lr~~l~ 157 (165)
T PRK09644 122 VHELTYEEAASVL-DLKLNTYKSHLFRGRKRLKALLK 157 (165)
T ss_pred HhcCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHH
Confidence 3456678999999 88999999988777777666543
No 166
>PRK06930 positive control sigma-like factor; Validated
Probab=27.78 E-value=1.3e+02 Score=26.41 Aligned_cols=41 Identities=24% Similarity=0.471 Sum_probs=31.5
Q ss_pred HHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 75 VIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 75 Llelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
++.++...|.....||..| |-|.+.|+.+.....+++.+..
T Consensus 122 V~~L~~~eg~s~~EIA~~l-giS~~tVk~~l~Ra~~kLr~~l 162 (170)
T PRK06930 122 VYLMHRGYGLSYSEIADYL-NIKKSTVQSMIERAEKKIARQI 162 (170)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHH
Confidence 3344445677899999999 9999999999888777765544
No 167
>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=27.26 E-value=90 Score=20.85 Aligned_cols=33 Identities=15% Similarity=0.266 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHH
Q 038795 71 EERIVIELQAQFGNKWARIATYLPGRTDNDVKNF 104 (302)
Q Consensus 71 ED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnR 104 (302)
|-..|.++...+|++.+..|+.| |=+...+..+
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 67788899999999999999998 5555444443
No 168
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=26.74 E-value=1.4e+02 Score=27.87 Aligned_cols=33 Identities=27% Similarity=0.448 Sum_probs=27.0
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
+|-.-.+||..| |.|...||++...-.+++...
T Consensus 130 ~g~s~~EIA~~l-g~s~~tVk~~l~RAr~~Lr~~ 162 (293)
T PRK09636 130 FGVPFDEIASTL-GRSPAACRQLASRARKHVRAA 162 (293)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHhh
Confidence 456789999999 999999999988777766553
No 169
>TIGR02959 SigZ RNA polymerase sigma factor, SigZ family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937). One of these is designated as SigZ in B. subtilis (Swiss_Prot: SIGZ_BACSU). Interestingly, this group has a very sporatic distribution, B. subtilis, for instance, being the only sequenced strain of Bacilli with a member. Dechloromonas aromatica RCB appears to have two of these sigma factors. A member appears on a plasmid found in Photobacterium profundum SS9 and Vibrio fischeri ES114 (where a second one is chromosomally encoded).
Probab=26.04 E-value=1.6e+02 Score=25.06 Aligned_cols=37 Identities=24% Similarity=0.219 Sum_probs=28.6
Q ss_pred HHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 80 AQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 80 ~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
...|-.=.+||..| |-|...|+++.....+++.....
T Consensus 113 ~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr~~l~ 149 (170)
T TIGR02959 113 ELEGLSQQEIAEKL-GLSLSGAKSRVQRGRKKLKELLE 149 (170)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHH
Confidence 34455678999999 89999999998887777666543
No 170
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=25.97 E-value=1.6e+02 Score=23.47 Aligned_cols=43 Identities=19% Similarity=0.199 Sum_probs=35.2
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccCCCC-CHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYLPGR-TDNDVKNFWSSRQ 109 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~LpgR-T~nq~KnRw~~l~ 109 (302)
.||.|.-..+++++..-|..=+.||+.+ |- ..++++..++.+.
T Consensus 7 ~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~~ 50 (116)
T COG2963 7 KYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQLQ 50 (116)
T ss_pred cCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHHH
Confidence 7999999999999988888789999999 65 7777776655443
No 171
>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=25.79 E-value=1.2e+02 Score=26.39 Aligned_cols=43 Identities=14% Similarity=0.130 Sum_probs=35.6
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccC----CCCCHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYL----PGRTDNDVKNFWSSR 108 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~L----pgRT~nq~KnRw~~l 108 (302)
.-|..|..-|..|+.+||.++...|.-. --.|..||+.+.+.+
T Consensus 116 ~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 116 RLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 6899999999999999999999998432 358888988876554
No 172
>PRK12511 RNA polymerase sigma factor; Provisional
Probab=25.45 E-value=1.5e+02 Score=25.66 Aligned_cols=35 Identities=14% Similarity=0.090 Sum_probs=27.9
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
.|-.-..||..| |-+...|+++....++++.+...
T Consensus 126 eg~s~~EIA~~l-gis~~tV~~~l~Rar~~Lr~~~~ 160 (182)
T PRK12511 126 EGLSYQEAAAVL-GIPIGTLMSRIGRARAALRAFEE 160 (182)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHHHHHHHH
Confidence 466789999999 99999999998877777665543
No 173
>PRK08295 RNA polymerase factor sigma-70; Validated
Probab=25.18 E-value=1.6e+02 Score=25.55 Aligned_cols=34 Identities=24% Similarity=0.368 Sum_probs=26.9
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|-.-..||..| |-|...|+++-....+++++..
T Consensus 169 e~~s~~EIA~~l-gis~~tV~~~l~rar~~Lr~~l 202 (208)
T PRK08295 169 DGKSYQEIAEEL-NRHVKSIDNALQRVKRKLEKYL 202 (208)
T ss_pred ccCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 456789999999 9999999998887777665543
No 174
>PRK08301 sporulation sigma factor SigE; Reviewed
Probab=25.16 E-value=1.2e+02 Score=27.19 Aligned_cols=32 Identities=19% Similarity=0.207 Sum_probs=26.5
Q ss_pred CCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 83 GNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 83 G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
|-....||..+ |-|.+.|+++-+..++++++.
T Consensus 198 g~s~~EIA~~l-gis~~tVk~~~~rA~~~Lr~~ 229 (234)
T PRK08301 198 EKTQKEVADML-GISQSYISRLEKRIIKRLKKE 229 (234)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHH
Confidence 66799999999 999999999987777766554
No 175
>PRK12518 RNA polymerase sigma factor; Provisional
Probab=25.14 E-value=60 Score=27.38 Aligned_cols=34 Identities=24% Similarity=0.167 Sum_probs=27.2
Q ss_pred CCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHhc
Q 038795 83 GNKWARIATYLPGRTDNDVKNFWSSRQKRLARILQ 117 (302)
Q Consensus 83 G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~~ 117 (302)
|-.-..||..| |-|.+.|+++.....+++.+...
T Consensus 136 g~s~~eIA~~l-g~s~~tv~~~l~Rar~~L~~~l~ 169 (175)
T PRK12518 136 DLPQKEIAEIL-NIPVGTVKSRLFYARRQLRKFLQ 169 (175)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHHH
Confidence 44578899999 99999999999888777766543
No 176
>PRK15328 invasion protein IagB; Provisional
Probab=25.06 E-value=1.8e+02 Score=25.53 Aligned_cols=43 Identities=16% Similarity=0.404 Sum_probs=30.3
Q ss_pred HHHHHHHHhCCcchhhhccC--CCCCHHHHHHHHHHHHHHHHHHh
Q 038795 74 IVIELQAQFGNKWARIATYL--PGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 74 lLlelv~~~G~kWs~IAk~L--pgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|.+++..||+.|..|+.+= +++.....+.+|-..+.+..+.+
T Consensus 98 ~L~~~~~~~g~~~~alaaYNaG~~~~~~~~~~~Y~~kV~~~y~~l 142 (160)
T PRK15328 98 ILSDMMKIYGYSWEAVGAYNAGTSPKRSDIRKRYAKKIWENYRKL 142 (160)
T ss_pred HHHHHHHHcCChHHhhhhccCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 56778899999999999875 33444456777776665555544
No 177
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=25.02 E-value=1e+02 Score=29.30 Aligned_cols=32 Identities=22% Similarity=0.219 Sum_probs=25.4
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
.|-.-.+||..| |.|.+.||+|.....+++++
T Consensus 168 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~Lr~ 199 (339)
T PRK08241 168 LGWSAAEVAELL-DTSVAAVNSALQRARATLAE 199 (339)
T ss_pred hCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHhh
Confidence 456788999999 99999999988776666544
No 178
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=24.20 E-value=1.3e+02 Score=27.18 Aligned_cols=44 Identities=23% Similarity=0.202 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHH
Q 038795 66 KFSLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRL 112 (302)
Q Consensus 66 ~WT~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~ 112 (302)
..|+.|-+.| +++.+ |....+||+.| +-+..-||++...+++|.
T Consensus 155 ~Lt~rE~~Vl-~l~~~-G~s~~eIA~~L-~iS~~TVk~~~~~i~~Kl 198 (216)
T PRK10100 155 LLTHREKEIL-NKLRI-GASNNEIARSL-FISENTVKTHLYNLFKKI 198 (216)
T ss_pred CCCHHHHHHH-HHHHc-CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 4777666555 44444 88899999999 999999999998887765
No 179
>PRK12513 RNA polymerase sigma factor; Provisional
Probab=24.08 E-value=71 Score=27.61 Aligned_cols=33 Identities=21% Similarity=0.258 Sum_probs=26.5
Q ss_pred CCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 83 GNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 83 G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
|-....||..| |-+...|+++....+++++...
T Consensus 155 g~s~~EIA~~l-gis~~tV~~~l~ra~~~Lr~~l 187 (194)
T PRK12513 155 DLELEEIAELT-GVPEETVKSRLRYALQKLRELL 187 (194)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 55689999999 8999999999887777766554
No 180
>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=23.76 E-value=79 Score=24.91 Aligned_cols=26 Identities=23% Similarity=0.355 Sum_probs=20.8
Q ss_pred HHHHHHHHHHhCCcchhhhccCCCCCH
Q 038795 72 ERIVIELQAQFGNKWARIATYLPGRTD 98 (302)
Q Consensus 72 D~lLlelv~~~G~kWs~IAk~LpgRT~ 98 (302)
|..|..+....|..|.++|..| |=+.
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~ 29 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSV 29 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCH
Confidence 5567788889999999999988 4343
No 181
>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=23.41 E-value=78 Score=24.73 Aligned_cols=32 Identities=19% Similarity=0.337 Sum_probs=23.5
Q ss_pred HHHHHHHHHhCCcchhhhccCCCCCHH---HHHHHH
Q 038795 73 RIVIELQAQFGNKWARIATYLPGRTDN---DVKNFW 105 (302)
Q Consensus 73 ~lLlelv~~~G~kWs~IAk~LpgRT~n---q~KnRw 105 (302)
.-|..+..+.|..|..+|.+| |=|.. .|+.+|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L-Glse~~Id~Ie~~~ 37 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL-GLSYRELQRIKYNN 37 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc-CCCHHHHHHHHHHC
Confidence 357788899999999999998 43333 445555
No 182
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=23.22 E-value=1.8e+02 Score=24.83 Aligned_cols=34 Identities=21% Similarity=0.085 Sum_probs=25.5
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
..|-.-..||..| |-|...|++|....++++.+.
T Consensus 131 ~e~~s~~EIA~~l-gis~~tV~~~l~ra~~~Lr~~ 164 (179)
T PRK12543 131 LHDYSQEEIAQLL-QIPIGTVKSRIHAALKKLRQK 164 (179)
T ss_pred HccCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHH
Confidence 3456678899998 888999999887766665443
No 183
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=23.03 E-value=2.6e+02 Score=32.54 Aligned_cols=51 Identities=12% Similarity=0.234 Sum_probs=35.5
Q ss_pred CCCCHHHHHHHHHHHHHhC-Ccchhhh--c-------cC---CCCCHHHHHHHHHHHHHHHHHH
Q 038795 65 CKFSLEEERIVIELQAQFG-NKWARIA--T-------YL---PGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 65 ~~WT~EED~lLlelv~~~G-~kWs~IA--k-------~L---pgRT~nq~KnRw~~l~kr~~r~ 115 (302)
+.|..++|..|+-.+-+|| ++|..|- . .| +.-++.++..|-..+++-+...
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dKi~~~e~~P~a~~L~~R~~yLls~~~~~ 1197 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDKIFLVETVPQAKHLQRRADYLLSLLRKH 1197 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhccCccccchhhhcccccCCchHHHHHHHHHHHHHHhhc
Confidence 5799999999999999999 8999983 1 11 1344556666655555544333
No 184
>PRK12522 RNA polymerase sigma factor; Provisional
Probab=22.96 E-value=1.7e+02 Score=24.64 Aligned_cols=34 Identities=15% Similarity=0.097 Sum_probs=25.3
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|..-..||..| |-+...|+.|-....+++.+..
T Consensus 134 ~~~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr~~l 167 (173)
T PRK12522 134 EQYSYKEMSEIL-NIPIGTVKYRLNYAKKQMREHL 167 (173)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHH
Confidence 355678888888 8889999998877766665543
No 185
>TIGR02980 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G subfamily. This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage.
Probab=22.87 E-value=1.7e+02 Score=26.07 Aligned_cols=33 Identities=21% Similarity=0.192 Sum_probs=26.4
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
..|..-..||+.+ |-|...|+.+.+..++++.+
T Consensus 192 ~~~~s~~eIA~~l-gis~~~v~~~~~ra~~~Lr~ 224 (227)
T TIGR02980 192 FEDKTQSEIAERL-GISQMHVSRLLRRALKKLRE 224 (227)
T ss_pred hcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHH
Confidence 3466789999999 88999999988877776654
No 186
>TIGR03001 Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxococcales family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in multiple copies in the order Myxococcales. This model supercedes TIGR02233, which has now been retired.
Probab=22.75 E-value=1.6e+02 Score=27.26 Aligned_cols=33 Identities=18% Similarity=0.189 Sum_probs=26.2
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
.|-....||..| |=+.+.||+|...-.+++++.
T Consensus 176 eg~S~~EIA~~L-gis~~TVk~rl~RAr~~Lr~~ 208 (244)
T TIGR03001 176 DGLSMDRIGAMY-QVHRSTVSRWVAQARERLLER 208 (244)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHH
Confidence 456799999999 999999999987766655443
No 187
>TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2).
Probab=22.67 E-value=1.8e+02 Score=23.92 Aligned_cols=30 Identities=37% Similarity=0.333 Sum_probs=21.5
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHH
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRL 112 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~ 112 (302)
.|-.=..||..+ |=|.+.|+.+.....+++
T Consensus 126 ~g~~~~eIA~~l-~is~~tv~~~l~Rar~~L 155 (159)
T TIGR02989 126 RGVSLTALAEQL-GRTVNAVYKALSRLRVRL 155 (159)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 355677888888 788888888776655554
No 188
>TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 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 (with the exception of a paralog in Thermobifida fusca YX) one-to-a-genome distribution, to represent a conserved family. This family is restricted to the Actinobacteria and each gene examined is followed by an anti-sigma factor in an apparent operon.
Probab=22.34 E-value=88 Score=27.05 Aligned_cols=33 Identities=24% Similarity=0.312 Sum_probs=26.4
Q ss_pred CCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 83 GNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 83 G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
|-.-..||..| |-|...||+|.....+++++..
T Consensus 147 g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~~l 179 (193)
T TIGR02947 147 GFAYKEIAEIM-GTPIGTVMSRLHRGRKQLRKQL 179 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 55678999999 9999999999887776665544
No 189
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=22.12 E-value=1.6e+02 Score=27.51 Aligned_cols=33 Identities=18% Similarity=0.452 Sum_probs=26.8
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHH
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLAR 114 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r 114 (302)
.+|-.-.+||..| |.|...||++.+...+++..
T Consensus 122 ~~g~s~~EIA~~l-g~s~~tVr~~l~RAr~~Lr~ 154 (281)
T TIGR02957 122 VFDYPYEEIASIV-GKSEANCRQLVSRARRHLDA 154 (281)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 3466789999999 89999999998777766654
No 190
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=21.83 E-value=1.7e+02 Score=24.11 Aligned_cols=42 Identities=14% Similarity=0.126 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHhCC-cchhhhccCCCCCHHHHHHHHHHHHHH
Q 038795 69 LEEERIVIELQAQFGN-KWARIATYLPGRTDNDVKNFWSSRQKR 111 (302)
Q Consensus 69 ~EED~lLlelv~~~G~-kWs~IAk~LpgRT~nq~KnRw~~l~kr 111 (302)
.+-|..|+++.++-|. .++.||+.+ |-|...|.+|-+.+.+.
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~ 49 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEE 49 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHC
Confidence 3557788888777774 599999999 89999999987766543
No 191
>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=21.78 E-value=72 Score=24.64 Aligned_cols=34 Identities=29% Similarity=0.526 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHHH
Q 038795 69 LEEERIVIELQAQFGNKWARIATYLPGRTDNDVKNF 104 (302)
Q Consensus 69 ~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~KnR 104 (302)
.||.++|+.. -..|.+|..+|..| |=+...|++.
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~i 35 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDTF 35 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHHH
Confidence 5677777732 24678999999999 7778877664
No 192
>PRK12534 RNA polymerase sigma factor; Provisional
Probab=21.11 E-value=2.2e+02 Score=24.31 Aligned_cols=34 Identities=15% Similarity=0.117 Sum_probs=26.1
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
..|-....||..| |=|...|+++-....+++...
T Consensus 151 ~~g~s~~eIA~~l-gis~~~v~~~l~Rar~~Lr~~ 184 (187)
T PRK12534 151 FEGITYEELAART-DTPIGTVKSWIRRGLAKLKAC 184 (187)
T ss_pred HcCCCHHHHHHHh-CCChhHHHHHHHHHHHHHHHH
Confidence 3466789999999 888889999887776666543
No 193
>PRK01905 DNA-binding protein Fis; Provisional
Probab=20.97 E-value=1.8e+02 Score=22.11 Aligned_cols=35 Identities=26% Similarity=0.332 Sum_probs=26.5
Q ss_pred CHHHHHHHHHHHHHhCCcchhhhccCCCCCHHHHHH
Q 038795 68 SLEEERIVIELQAQFGNKWARIATYLPGRTDNDVKN 103 (302)
Q Consensus 68 T~EED~lLlelv~~~G~kWs~IAk~LpgRT~nq~Kn 103 (302)
..-|...|.+++..+|+++++.|+.+ |=+...++.
T Consensus 35 ~~~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~r 69 (77)
T PRK01905 35 SCVEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRK 69 (77)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHH
Confidence 34577788899999999999999998 545544444
No 194
>PRK08583 RNA polymerase sigma factor SigB; Validated
Probab=20.66 E-value=2.3e+02 Score=25.88 Aligned_cols=40 Identities=15% Similarity=0.052 Sum_probs=30.2
Q ss_pred HHHHHHhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 76 IELQAQFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 76 lelv~~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
+.++-..|-....||..| |=+...|+.+.+..++++++..
T Consensus 214 l~l~~~~g~s~~eIA~~l-~is~~tV~~~~~ra~~kLr~~l 253 (257)
T PRK08583 214 IQCTFIENLSQKETGERL-GISQMHVSRLQRQAIKKLREAA 253 (257)
T ss_pred HHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHh
Confidence 334334566789999999 8999999998888777776544
No 195
>PRK12533 RNA polymerase sigma factor; Provisional
Probab=20.64 E-value=1.9e+02 Score=26.02 Aligned_cols=35 Identities=20% Similarity=0.173 Sum_probs=27.7
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
..|-.-.+||..| |=|.+.|+.|-+..++++....
T Consensus 148 ~eg~s~~EIAe~L-giS~~tVk~~L~RAr~~Lr~~l 182 (216)
T PRK12533 148 LEDMSYREIAAIA-DVPVGTVMSRLARARRRLAALL 182 (216)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 3455678899999 9999999999888777776655
No 196
>PRK07037 extracytoplasmic-function sigma-70 factor; Validated
Probab=20.60 E-value=2.7e+02 Score=23.03 Aligned_cols=34 Identities=21% Similarity=0.148 Sum_probs=23.7
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|-.=..||+.| |-|.+.|+.+-...++++.+..
T Consensus 124 ~~~s~~EIA~~l-gis~~tV~~~l~ra~~~lr~~l 157 (163)
T PRK07037 124 HGETQKDIAREL-GVSPTLVNFMIRDALVHCRKCL 157 (163)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHH
Confidence 455678888888 8888888887665555555443
No 197
>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=20.58 E-value=1.1e+02 Score=23.82 Aligned_cols=28 Identities=18% Similarity=0.489 Sum_probs=20.8
Q ss_pred HHHHHHHhCCcchhhhccCCCCCHHHHHH
Q 038795 75 VIELQAQFGNKWARIATYLPGRTDNDVKN 103 (302)
Q Consensus 75 Llelv~~~G~kWs~IAk~LpgRT~nq~Kn 103 (302)
+--+....|..|..+|+.| |=|.++|..
T Consensus 5 f~~i~~~lG~~Wk~laR~L-Glse~~Id~ 32 (86)
T cd08306 5 FDVICENVGRDWRKLARKL-GLSETKIES 32 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 3344566799999999999 777776653
No 198
>PRK07408 RNA polymerase sigma factor SigF; Reviewed
Probab=20.50 E-value=2e+02 Score=26.56 Aligned_cols=34 Identities=18% Similarity=0.116 Sum_probs=27.2
Q ss_pred hCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHHh
Q 038795 82 FGNKWARIATYLPGRTDNDVKNFWSSRQKRLARIL 116 (302)
Q Consensus 82 ~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~~ 116 (302)
.|-.-..||..| |-|...|+.+.+..+++++...
T Consensus 218 ~~~s~~eIA~~l-gvs~~~V~~~~~ra~~kLr~~l 251 (256)
T PRK07408 218 HDLTQKEAAERL-GISPVTVSRRVKKGLDQLKKLL 251 (256)
T ss_pred CCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHHh
Confidence 355688999999 8999999999888877776544
No 199
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (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. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=20.45 E-value=87 Score=23.01 Aligned_cols=27 Identities=26% Similarity=0.676 Sum_probs=19.3
Q ss_pred HHHHHHHhCCcchhhhccCCCCCHHHHH
Q 038795 75 VIELQAQFGNKWARIATYLPGRTDNDVK 102 (302)
Q Consensus 75 Llelv~~~G~kWs~IAk~LpgRT~nq~K 102 (302)
+..+....|+.|..+|..| |=+..+|.
T Consensus 2 ~~~ia~~lg~~W~~la~~L-gl~~~~I~ 28 (79)
T cd01670 2 LDKLAKKLGKDWKKLARKL-GLSDGEID 28 (79)
T ss_pred HHHHHHHHhhHHHHHHHHh-CCCHHHHH
Confidence 3456678899999999998 44444443
No 200
>PRK06288 RNA polymerase sigma factor WhiG; Reviewed
Probab=20.19 E-value=2.1e+02 Score=26.46 Aligned_cols=34 Identities=15% Similarity=0.134 Sum_probs=25.8
Q ss_pred HhCCcchhhhccCCCCCHHHHHHHHHHHHHHHHHH
Q 038795 81 QFGNKWARIATYLPGRTDNDVKNFWSSRQKRLARI 115 (302)
Q Consensus 81 ~~G~kWs~IAk~LpgRT~nq~KnRw~~l~kr~~r~ 115 (302)
..|..-..||..+ |.|...|+.+....++++++.
T Consensus 226 ~~~~s~~eIA~~l-gis~~tV~~~~~ra~~~Lr~~ 259 (268)
T PRK06288 226 YEDLTLKEIGKVL-GVTESRISQLHTKAVLQLRAK 259 (268)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHHH
Confidence 3456688999998 899999998887766665544
Done!