Query 025299
Match_columns 255
No_of_seqs 229 out of 1389
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 04:26:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025299.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025299hhsearch_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 5.1E-33 1.1E-37 248.7 11.9 108 8-115 3-115 (238)
2 PLN03212 Transcription repress 100.0 1.2E-31 2.6E-36 239.3 13.5 108 9-116 20-132 (249)
3 PLN03091 hypothetical protein; 100.0 1.4E-29 3E-34 240.7 13.4 115 1-115 1-120 (459)
4 KOG0049 Transcription factor, 99.6 4.3E-16 9.2E-21 153.8 9.4 103 8-110 354-461 (939)
5 KOG0049 Transcription factor, 99.6 1.1E-15 2.4E-20 150.9 6.3 101 12-112 303-411 (939)
6 COG5147 REB1 Myb superfamily p 99.4 6.8E-14 1.5E-18 137.0 5.2 105 8-112 14-122 (512)
7 PF00249 Myb_DNA-binding: Myb- 99.4 1.4E-13 2.9E-18 94.3 5.0 46 62-107 1-48 (48)
8 KOG0050 mRNA splicing protein 99.4 6.3E-14 1.4E-18 135.8 4.6 105 11-116 4-112 (617)
9 PF13921 Myb_DNA-bind_6: Myb-l 99.4 2.5E-13 5.4E-18 96.5 4.8 57 17-73 1-60 (60)
10 PF13921 Myb_DNA-bind_6: Myb-l 99.3 2.2E-12 4.7E-17 91.6 3.8 45 65-109 1-45 (60)
11 smart00717 SANT SANT SWI3, AD 99.3 6E-12 1.3E-16 83.6 5.6 47 62-108 1-48 (49)
12 KOG0051 RNA polymerase I termi 99.2 2.3E-11 5.1E-16 120.7 7.0 99 13-111 383-511 (607)
13 PLN03212 Transcription repress 99.2 2.1E-11 4.5E-16 109.7 5.2 57 57-113 20-78 (249)
14 cd00167 SANT 'SWI3, ADA2, N-Co 99.2 5.4E-11 1.2E-15 77.8 5.6 44 64-107 1-45 (45)
15 KOG0048 Transcription factor, 99.0 1.9E-10 4.2E-15 103.1 3.7 56 58-113 5-62 (238)
16 PLN03091 hypothetical protein; 98.9 6.6E-10 1.4E-14 106.9 4.2 55 57-111 9-65 (459)
17 PF00249 Myb_DNA-binding: Myb- 98.6 2.4E-08 5.1E-13 68.2 2.4 43 14-56 1-48 (48)
18 smart00717 SANT SANT SWI3, AD 98.2 1.9E-06 4.2E-11 56.7 3.7 44 14-57 1-48 (49)
19 KOG0051 RNA polymerase I termi 98.0 1E-05 2.3E-10 81.0 7.1 99 11-110 305-431 (607)
20 COG5147 REB1 Myb superfamily p 98.0 1.3E-06 2.8E-11 86.3 -0.6 95 12-106 289-395 (512)
21 cd00167 SANT 'SWI3, ADA2, N-Co 97.9 1.1E-05 2.3E-10 52.3 3.3 41 16-56 1-45 (45)
22 TIGR01557 myb_SHAQKYF myb-like 97.6 0.00015 3.2E-09 51.9 5.7 46 62-107 3-54 (57)
23 KOG0457 Histone acetyltransfer 97.5 0.00015 3.4E-09 70.0 5.8 50 59-108 69-119 (438)
24 KOG0050 mRNA splicing protein 97.2 0.00026 5.7E-09 69.8 3.7 54 60-113 5-59 (617)
25 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.00057 1.2E-08 51.4 3.1 54 62-115 1-72 (90)
26 KOG1279 Chromatin remodeling f 96.9 0.0014 2.9E-08 65.2 5.1 50 61-110 252-301 (506)
27 COG5259 RSC8 RSC chromatin rem 96.8 0.0014 3.1E-08 64.0 4.5 46 62-107 279-324 (531)
28 PF08914 Myb_DNA-bind_2: Rap1 96.8 0.0023 5E-08 46.9 4.4 50 62-111 2-61 (65)
29 TIGR02894 DNA_bind_RsfA transc 96.2 0.006 1.3E-07 52.2 3.9 50 61-111 3-59 (161)
30 PF13873 Myb_DNA-bind_5: Myb/S 95.7 0.028 6E-07 41.5 5.3 49 62-110 2-72 (78)
31 PF13325 MCRS_N: N-terminal re 95.7 0.062 1.3E-06 47.6 8.3 93 16-108 1-127 (199)
32 COG5114 Histone acetyltransfer 95.7 0.012 2.6E-07 55.5 4.0 46 62-107 63-109 (432)
33 TIGR02894 DNA_bind_RsfA transc 94.9 0.0091 2E-07 51.1 0.7 46 12-57 2-56 (161)
34 PRK13923 putative spore coat p 94.9 0.038 8.3E-07 47.8 4.4 49 61-110 4-59 (170)
35 PF09111 SLIDE: SLIDE; InterP 94.6 0.046 1E-06 44.5 3.9 52 59-110 46-113 (118)
36 KOG2656 DNA methyltransferase 94.4 0.066 1.4E-06 51.7 5.1 63 49-115 121-189 (445)
37 PRK13923 putative spore coat p 93.2 0.032 6.9E-07 48.3 0.6 46 12-57 3-57 (170)
38 PF12776 Myb_DNA-bind_3: Myb/S 92.9 0.27 5.9E-06 37.2 5.4 48 64-111 1-66 (96)
39 KOG4282 Transcription factor G 92.6 0.3 6.5E-06 45.9 6.4 57 62-118 54-124 (345)
40 PF08281 Sigma70_r4_2: Sigma-7 90.6 0.65 1.4E-05 31.6 4.7 41 67-108 12-52 (54)
41 TIGR01557 myb_SHAQKYF myb-like 90.4 0.47 1E-05 33.8 3.9 43 14-56 3-54 (57)
42 KOG0457 Histone acetyltransfer 90.0 0.25 5.4E-06 48.3 3.0 47 11-57 69-119 (438)
43 PF13837 Myb_DNA-bind_4: Myb/S 88.7 0.29 6.2E-06 36.5 1.9 17 39-55 47-63 (90)
44 COG5118 BDP1 Transcription ini 87.0 0.99 2.1E-05 43.8 4.8 46 64-109 367-412 (507)
45 PLN03142 Probable chromatin-re 83.6 2.9 6.3E-05 45.4 6.9 67 44-110 906-987 (1033)
46 KOG1194 Predicted DNA-binding 82.1 3.4 7.4E-05 41.0 6.1 45 62-106 187-231 (534)
47 PF04545 Sigma70_r4: Sigma-70, 79.4 5.6 0.00012 26.6 4.9 43 67-110 6-48 (50)
48 KOG1279 Chromatin remodeling f 79.4 1.9 4.1E-05 43.3 3.5 45 10-54 249-296 (506)
49 smart00595 MADF subfamily of S 75.1 3.9 8.4E-05 30.4 3.4 30 83-113 29-58 (89)
50 PF13404 HTH_AsnC-type: AsnC-t 69.4 10 0.00023 25.0 4.1 38 68-106 3-41 (42)
51 PF11035 SnAPC_2_like: Small n 68.9 19 0.00041 34.4 7.0 44 63-106 22-69 (344)
52 TIGR02985 Sig70_bacteroi1 RNA 68.6 12 0.00027 29.7 5.2 40 69-109 117-156 (161)
53 COG5259 RSC8 RSC chromatin rem 67.6 3.8 8.3E-05 40.8 2.3 42 13-54 278-322 (531)
54 KOG4167 Predicted DNA-binding 64.9 27 0.00059 36.8 7.8 55 51-105 605-662 (907)
55 PRK11179 DNA-binding transcrip 62.7 16 0.00035 30.3 4.9 42 68-110 9-51 (153)
56 KOG4468 Polycomb-group transcr 62.3 14 0.00029 38.2 5.0 49 62-110 88-146 (782)
57 PF13873 Myb_DNA-bind_5: Myb/S 60.7 8.1 0.00018 28.1 2.5 15 42-56 55-69 (78)
58 PF08914 Myb_DNA-bind_2: Rap1 60.1 7.4 0.00016 28.4 2.1 46 15-60 3-61 (65)
59 cd08319 Death_RAIDD Death doma 59.9 12 0.00027 28.5 3.4 30 70-100 2-31 (83)
60 PF01388 ARID: ARID/BRIGHT DNA 59.0 23 0.00049 26.6 4.8 39 71-109 39-90 (92)
61 PF07750 GcrA: GcrA cell cycle 57.3 13 0.00028 31.8 3.4 41 64-105 2-42 (162)
62 PF13325 MCRS_N: N-terminal re 56.2 23 0.0005 31.5 5.0 46 64-110 1-49 (199)
63 PRK11169 leucine-responsive tr 55.0 21 0.00045 30.0 4.3 44 67-111 13-57 (164)
64 PF10545 MADF_DNA_bdg: Alcohol 54.9 16 0.00035 26.2 3.2 34 83-116 28-62 (85)
65 smart00501 BRIGHT BRIGHT, ARID 54.8 27 0.00059 26.5 4.6 39 72-110 36-87 (93)
66 TIGR02937 sigma70-ECF RNA poly 54.1 29 0.00062 26.7 4.8 40 69-109 114-153 (158)
67 PF11626 Rap1_C: TRF2-interact 53.8 14 0.00029 28.1 2.8 17 58-74 43-59 (87)
68 PRK09652 RNA polymerase sigma 52.5 32 0.0007 27.9 5.1 38 71-109 134-171 (182)
69 KOG2009 Transcription initiati 52.0 18 0.00039 37.1 4.0 46 60-105 407-452 (584)
70 PRK09643 RNA polymerase sigma 50.0 37 0.0008 28.8 5.2 39 70-109 139-177 (192)
71 cd08803 Death_ank3 Death domai 49.9 25 0.00054 26.8 3.7 31 70-101 4-34 (84)
72 PRK09641 RNA polymerase sigma 47.9 40 0.00087 27.8 5.0 37 72-109 143-179 (187)
73 PRK09047 RNA polymerase factor 46.6 52 0.0011 26.4 5.4 36 73-109 114-149 (161)
74 PRK11924 RNA polymerase sigma 46.6 44 0.00094 27.1 5.0 36 73-109 133-168 (179)
75 COG5114 Histone acetyltransfer 46.0 34 0.00074 32.9 4.6 47 11-57 60-110 (432)
76 cd08317 Death_ank Death domain 45.0 24 0.00051 26.4 2.9 31 70-101 4-34 (84)
77 PRK12512 RNA polymerase sigma 43.7 65 0.0014 26.7 5.7 39 71-110 137-175 (184)
78 TIGR02939 RpoE_Sigma70 RNA pol 43.5 40 0.00087 27.9 4.4 31 79-110 152-182 (190)
79 KOG4329 DNA-binding protein [G 42.8 42 0.0009 32.8 4.7 43 63-105 278-321 (445)
80 PRK12523 RNA polymerase sigma 42.7 48 0.001 27.3 4.7 40 70-110 124-163 (172)
81 PRK09642 RNA polymerase sigma 42.3 64 0.0014 26.0 5.3 37 72-109 113-149 (160)
82 PRK09645 RNA polymerase sigma 42.0 61 0.0013 26.5 5.2 36 73-109 126-161 (173)
83 PRK12529 RNA polymerase sigma 41.7 62 0.0013 27.0 5.3 38 73-111 135-172 (178)
84 TIGR02943 Sig70_famx1 RNA poly 41.4 62 0.0013 27.3 5.2 37 72-109 138-174 (188)
85 cd08318 Death_NMPP84 Death dom 41.1 36 0.00077 25.8 3.3 28 73-101 10-37 (86)
86 TIGR02954 Sig70_famx3 RNA poly 40.2 63 0.0014 26.4 5.0 35 74-109 128-162 (169)
87 PRK12530 RNA polymerase sigma 40.1 63 0.0014 27.2 5.1 35 73-108 142-176 (189)
88 smart00344 HTH_ASNC helix_turn 39.8 67 0.0015 24.4 4.8 42 68-110 3-45 (108)
89 TIGR02948 SigW_bacill RNA poly 39.4 60 0.0013 26.8 4.8 30 79-109 150-179 (187)
90 PRK04217 hypothetical protein; 39.4 1.3E+02 0.0029 24.1 6.5 44 64-109 42-85 (110)
91 KOG4282 Transcription factor G 39.3 28 0.0006 32.7 3.0 42 15-56 55-113 (345)
92 PRK09648 RNA polymerase sigma 39.3 71 0.0015 26.6 5.3 37 72-109 146-182 (189)
93 cd06171 Sigma70_r4 Sigma70, re 39.1 76 0.0016 19.8 4.3 36 69-105 14-49 (55)
94 PRK12531 RNA polymerase sigma 39.1 72 0.0016 26.9 5.3 36 73-109 149-184 (194)
95 cd08804 Death_ank2 Death domai 39.0 39 0.00085 25.6 3.2 31 70-101 4-34 (84)
96 PRK12527 RNA polymerase sigma 38.8 97 0.0021 25.0 5.9 36 73-109 113-148 (159)
97 PRK09637 RNA polymerase sigma 38.6 70 0.0015 26.9 5.1 38 71-109 112-149 (181)
98 TIGR02952 Sig70_famx2 RNA poly 38.1 74 0.0016 25.7 5.1 30 79-109 136-165 (170)
99 cd08777 Death_RIP1 Death Domai 37.7 37 0.00081 25.8 3.0 30 71-101 3-32 (86)
100 PRK12514 RNA polymerase sigma 37.6 73 0.0016 26.3 5.0 30 79-109 143-172 (179)
101 PF04504 DUF573: Protein of un 37.4 1.2E+02 0.0025 23.7 5.8 51 63-113 5-68 (98)
102 PRK11923 algU RNA polymerase s 36.4 73 0.0016 26.6 4.9 35 74-109 147-181 (193)
103 PRK06759 RNA polymerase factor 36.0 77 0.0017 25.2 4.8 35 74-109 115-149 (154)
104 PRK12515 RNA polymerase sigma 35.9 87 0.0019 26.2 5.3 35 74-109 140-174 (189)
105 PF07638 Sigma70_ECF: ECF sigm 35.8 95 0.0021 26.3 5.5 39 68-107 138-176 (185)
106 PRK12536 RNA polymerase sigma 35.0 91 0.002 25.9 5.2 36 73-109 137-172 (181)
107 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 34.9 66 0.0014 22.4 3.6 35 68-103 7-41 (50)
108 PRK12532 RNA polymerase sigma 34.6 1.1E+02 0.0023 25.8 5.6 35 73-108 144-178 (195)
109 PRK09651 RNA polymerase sigma 34.5 77 0.0017 26.2 4.7 34 76-110 130-163 (172)
110 PRK13919 putative RNA polymera 34.3 94 0.002 25.7 5.2 30 79-109 149-178 (186)
111 PRK12528 RNA polymerase sigma 34.2 81 0.0018 25.5 4.7 38 71-109 119-156 (161)
112 TIGR02960 SigX5 RNA polymerase 33.8 76 0.0017 28.9 4.9 35 75-110 152-186 (324)
113 PRK12516 RNA polymerase sigma 33.8 1.2E+02 0.0027 25.5 5.9 39 70-109 121-159 (187)
114 PRK09649 RNA polymerase sigma 33.5 85 0.0018 26.4 4.8 36 74-110 139-174 (185)
115 TIGR02999 Sig-70_X6 RNA polyme 33.4 1E+02 0.0022 25.3 5.3 32 77-109 146-177 (183)
116 PRK12545 RNA polymerase sigma 33.3 96 0.0021 26.4 5.2 32 76-108 150-181 (201)
117 PRK12520 RNA polymerase sigma 33.1 97 0.0021 25.9 5.1 34 75-109 141-174 (191)
118 PRK12524 RNA polymerase sigma 32.7 1E+02 0.0022 26.0 5.2 36 73-109 144-179 (196)
119 PRK05602 RNA polymerase sigma 32.4 96 0.0021 25.8 5.0 36 73-109 136-171 (186)
120 PRK12547 RNA polymerase sigma 32.3 1.1E+02 0.0025 24.9 5.3 37 72-109 119-155 (164)
121 PRK10100 DNA-binding transcrip 32.2 88 0.0019 27.5 4.9 44 64-110 155-198 (216)
122 smart00005 DEATH DEATH domain, 31.5 56 0.0012 23.9 3.0 31 69-100 4-35 (88)
123 cd08779 Death_PIDD Death Domai 31.3 48 0.001 25.2 2.6 21 71-91 3-23 (86)
124 PRK12542 RNA polymerase sigma 31.1 1.1E+02 0.0023 25.5 5.1 36 73-109 130-165 (185)
125 PRK00118 putative DNA-binding 31.1 1.2E+02 0.0026 24.1 5.0 42 67-109 19-60 (104)
126 cd08311 Death_p75NR Death doma 31.0 51 0.0011 24.7 2.7 34 67-102 2-35 (77)
127 PRK06811 RNA polymerase factor 31.0 1.1E+02 0.0023 25.8 5.0 36 73-109 139-174 (189)
128 TIGR02984 Sig-70_plancto1 RNA 31.0 1.1E+02 0.0023 25.2 5.0 37 72-109 147-183 (189)
129 PRK09646 RNA polymerase sigma 30.5 1.3E+02 0.0028 25.4 5.5 34 75-109 152-185 (194)
130 PRK12546 RNA polymerase sigma 30.3 1E+02 0.0022 26.1 4.9 38 71-109 119-156 (188)
131 cd08805 Death_ank1 Death domai 30.2 62 0.0014 24.7 3.1 22 70-91 4-25 (84)
132 COG2197 CitB Response regulato 29.9 91 0.002 27.2 4.6 44 64-110 148-191 (211)
133 KOG3554 Histone deacetylase co 29.8 86 0.0019 31.7 4.7 41 64-104 287-328 (693)
134 PRK09636 RNA polymerase sigma 29.3 1.2E+02 0.0026 27.6 5.4 31 78-109 128-158 (293)
135 TIGR02983 SigE-fam_strep RNA p 29.0 1.2E+02 0.0026 24.4 4.9 40 69-109 114-153 (162)
136 COG2963 Transposase and inacti 29.0 1.5E+02 0.0032 23.0 5.2 45 62-108 5-50 (116)
137 TIGR02950 SigM_subfam RNA poly 28.7 43 0.00094 26.7 2.1 28 81-109 121-148 (154)
138 PRK12526 RNA polymerase sigma 27.8 1.4E+02 0.003 25.6 5.3 34 76-110 164-197 (206)
139 PRK09639 RNA polymerase sigma 27.4 1.4E+02 0.003 24.1 5.0 37 71-109 118-154 (166)
140 PRK12537 RNA polymerase sigma 27.3 1.3E+02 0.0029 24.9 5.0 35 74-109 142-176 (182)
141 PRK12544 RNA polymerase sigma 26.5 1.5E+02 0.0033 25.5 5.3 31 78-109 161-191 (206)
142 PRK12538 RNA polymerase sigma 25.5 1.2E+02 0.0027 26.8 4.7 31 78-109 184-214 (233)
143 PRK12519 RNA polymerase sigma 25.5 1.3E+02 0.0027 25.2 4.5 30 79-109 155-184 (194)
144 PRK06986 fliA flagellar biosyn 25.4 1.4E+02 0.003 26.1 5.0 41 69-110 188-228 (236)
145 COG1522 Lrp Transcriptional re 24.6 1.4E+02 0.003 23.9 4.5 42 68-110 8-50 (154)
146 TIGR02957 SigX4 RNA polymerase 24.4 1.7E+02 0.0036 26.5 5.4 33 76-109 119-151 (281)
147 PRK09638 RNA polymerase sigma 24.4 72 0.0016 26.1 2.8 30 79-109 140-169 (176)
148 PRK10360 DNA-binding transcrip 24.4 1.8E+02 0.0039 23.4 5.1 45 63-110 136-180 (196)
149 PRK11922 RNA polymerase sigma 24.2 87 0.0019 27.4 3.4 30 80-110 164-193 (231)
150 PRK09415 RNA polymerase factor 23.9 1.5E+02 0.0033 24.5 4.7 31 78-109 140-170 (179)
151 PRK15411 rcsA colanic acid cap 23.6 1.5E+02 0.0032 25.6 4.7 44 64-110 137-180 (207)
152 PRK08241 RNA polymerase factor 23.5 1.2E+02 0.0027 27.9 4.4 33 77-110 165-197 (339)
153 PF13384 HTH_23: Homeodomain-l 23.5 84 0.0018 20.5 2.5 32 68-101 5-36 (50)
154 TIGR02959 SigZ RNA polymerase 23.2 1.9E+02 0.0042 23.7 5.2 36 73-109 108-143 (170)
155 KOG4167 Predicted DNA-binding 23.2 2.6E+02 0.0057 29.9 6.9 39 15-53 620-661 (907)
156 PRK09647 RNA polymerase sigma 23.1 1.9E+02 0.0041 24.9 5.3 31 79-110 152-182 (203)
157 PRK15201 fimbriae regulatory p 22.9 2E+02 0.0043 25.6 5.2 44 64-110 133-176 (198)
158 PRK12541 RNA polymerase sigma 22.6 1.7E+02 0.0037 23.6 4.7 30 79-109 126-155 (161)
159 PF09420 Nop16: Ribosome bioge 22.1 2E+02 0.0044 24.2 5.1 46 61-106 113-162 (164)
160 PF10440 WIYLD: Ubiquitin-bind 22.1 70 0.0015 23.5 2.0 18 72-89 31-48 (65)
161 PF13936 HTH_38: Helix-turn-he 21.9 92 0.002 20.4 2.4 36 64-101 4-39 (44)
162 PRK08301 sporulation sigma fac 21.6 1.8E+02 0.0038 25.3 4.8 28 81-109 198-225 (234)
163 PRK07670 RNA polymerase sigma 21.5 1.8E+02 0.004 25.7 5.0 41 69-110 205-245 (251)
164 PRK06930 positive control sigm 21.2 2.2E+02 0.0047 24.3 5.1 40 70-110 119-158 (170)
165 cd08306 Death_FADD Fas-associa 21.1 1.3E+02 0.0028 22.7 3.4 29 72-101 4-32 (86)
166 PRK12543 RNA polymerase sigma 21.0 2.1E+02 0.0046 23.6 5.0 35 73-108 125-159 (179)
167 PRK12540 RNA polymerase sigma 20.9 2.2E+02 0.0047 23.9 5.1 35 74-109 120-154 (182)
168 TIGR02989 Sig-70_gvs1 RNA poly 20.5 2E+02 0.0044 22.8 4.6 28 79-107 125-152 (159)
169 PRK09483 response regulator; P 20.1 1.4E+02 0.003 24.5 3.6 45 63-110 147-191 (217)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=5.1e-33 Score=248.72 Aligned_cols=108 Identities=49% Similarity=0.860 Sum_probs=94.9
Q ss_pred CCCCcccCCCcHHHHH-HHHHHHhhcC--Ceeec--ccCCCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 025299 8 TAGELCAAVWRSALGF-YCESFRFEGG--GRQYN--RGLNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGN 82 (255)
Q Consensus 8 ~a~~l~kg~WT~eED~-llk~v~~~g~--w~~i~--~~l~Rt~~QCr~RW~n~L~P~l~~~~WT~eED~~Ll~lv~~~G~ 82 (255)
..+.+.||+||+|||. |+.+|..+|. |..|+ ++++|+++|||+||.|||+|+|+|+.||+|||++||+||..+|+
T Consensus 3 kk~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GN 82 (238)
T KOG0048|consen 3 RNPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGN 82 (238)
T ss_pred CCccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCc
Confidence 3445668999999995 6666777775 44443 45599999999999999999999999999999999999999999
Q ss_pred ChhhhhhhCCCCCHHHHHHHHHHHhhHHHHhhh
Q 025299 83 RWSRIARKLPGRTDNEIKNYWRTHMRKKAQERK 115 (255)
Q Consensus 83 ~Ws~Ia~~lpgRT~nq~KnRw~~llrk~~~~~~ 115 (255)
+|+.||++|||||||+|||+|+++++|+.....
T Consensus 83 rWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 83 RWSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 999999999999999999999999999877665
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.97 E-value=1.2e-31 Score=239.33 Aligned_cols=108 Identities=47% Similarity=0.780 Sum_probs=95.0
Q ss_pred CCCcccCCCcHHHHHHHH-HHHhhc--CCeeecccC--CCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhCCC
Q 025299 9 AGELCAAVWRSALGFYCE-SFRFEG--GGRQYNRGL--NRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNR 83 (255)
Q Consensus 9 a~~l~kg~WT~eED~llk-~v~~~g--~w~~i~~~l--~Rt~~QCr~RW~n~L~P~l~~~~WT~eED~~Ll~lv~~~G~~ 83 (255)
..++++++||++||++|. +|..+| +|..|+..+ +||++|||+||.|||+|+|++++||.|||++|+++|.+||++
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnK 99 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNR 99 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhcccc
Confidence 468999999999996554 455555 366676543 899999999999999999999999999999999999999999
Q ss_pred hhhhhhhCCCCCHHHHHHHHHHHhhHHHHhhhh
Q 025299 84 WSRIARKLPGRTDNEIKNYWRTHMRKKAQERKR 116 (255)
Q Consensus 84 Ws~Ia~~lpgRT~nq~KnRw~~llrk~~~~~~~ 116 (255)
|+.||++|||||+++|||||+.+++++..+...
T Consensus 100 Ws~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i 132 (249)
T PLN03212 100 WSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGI 132 (249)
T ss_pred HHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCC
Confidence 999999999999999999999999988666543
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.96 E-value=1.4e-29 Score=240.73 Aligned_cols=115 Identities=45% Similarity=0.768 Sum_probs=99.0
Q ss_pred CCCCCCCCCCCcccCCCcHHHHHHH-HHHHhhcC--CeeecccC--CCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHH
Q 025299 1 MDRAGGHTAGELCAAVWRSALGFYC-ESFRFEGG--GRQYNRGL--NRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLE 75 (255)
Q Consensus 1 ~~~~~g~~a~~l~kg~WT~eED~ll-k~v~~~g~--w~~i~~~l--~Rt~~QCr~RW~n~L~P~l~~~~WT~eED~~Ll~ 75 (255)
|-|+---...++++|.||++||++| ++|..+|. |..|+..+ +|+++|||+||.|||+|+|++++||.|||++||+
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 4455445557899999999999655 55556653 66666543 8999999999999999999999999999999999
Q ss_pred HHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHHHHhhh
Q 025299 76 LHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKKAQERK 115 (255)
Q Consensus 76 lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~~~~~~ 115 (255)
+|.+||++|++||++|||||+++|||||+.++||+.+.+.
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~ 120 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRG 120 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999999999999999876544
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.64 E-value=4.3e-16 Score=153.83 Aligned_cols=103 Identities=19% Similarity=0.286 Sum_probs=85.6
Q ss_pred CCCCcccCCCcHHHH-HHHHHHHhhcCCee--ecc-cCCCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhC-C
Q 025299 8 TAGELCAAVWRSALG-FYCESFRFEGGGRQ--YNR-GLNRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWG-N 82 (255)
Q Consensus 8 ~a~~l~kg~WT~eED-~llk~v~~~g~w~~--i~~-~l~Rt~~QCr~RW~n~L~P~l~~~~WT~eED~~Ll~lv~~~G-~ 82 (255)
.-|++++|.||.+|| .|+.+|..+|+..| +.. ..||+..|||+||+|.|+..++.+.||-.||++||.+|.+|| +
T Consensus 354 LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g 433 (939)
T KOG0049|consen 354 LDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKG 433 (939)
T ss_pred cCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccc
Confidence 458999999999999 56666777776443 333 349999999999999999999999999999999999999999 6
Q ss_pred ChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 83 RWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 83 ~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
+|.+||.+||.||..|...|=...++.+
T Consensus 434 ~WakcA~~Lp~~t~~q~~rrR~R~~~~k 461 (939)
T KOG0049|consen 434 NWAKCAMLLPKKTSRQLRRRRLRLIAAK 461 (939)
T ss_pred hHHHHHHHccccchhHHHHHHHHHHHHH
Confidence 8999999999999976665544444433
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.59 E-value=1.1e-15 Score=150.94 Aligned_cols=101 Identities=19% Similarity=0.374 Sum_probs=89.4
Q ss_pred cccCCCcHHHHHHHHHHHhhc------CCeeecccC-CCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhCCC-
Q 025299 12 LCAAVWRSALGFYCESFRFEG------GGRQYNRGL-NRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNR- 83 (255)
Q Consensus 12 l~kg~WT~eED~llk~v~~~g------~w~~i~~~l-~Rt~~QCr~RW~n~L~P~l~~~~WT~eED~~Ll~lv~~~G~~- 83 (255)
|+..+||++||..|.+++.+. +|+.|...+ ||+..|..-||.+.|+|+|++|+||.+||.+|+.+|.+||.+
T Consensus 303 L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kd 382 (939)
T KOG0049|consen 303 LSEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKD 382 (939)
T ss_pred HHhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccc
Confidence 566899999998887777654 366666655 999999999999999999999999999999999999999965
Q ss_pred hhhhhhhCCCCCHHHHHHHHHHHhhHHHH
Q 025299 84 WSRIARKLPGRTDNEIKNYWRTHMRKKAQ 112 (255)
Q Consensus 84 Ws~Ia~~lpgRT~nq~KnRw~~llrk~~~ 112 (255)
|.+|...+|||++.|||.||.+.|.+..+
T Consensus 383 w~k~R~~vPnRSdsQcR~RY~nvL~~s~K 411 (939)
T KOG0049|consen 383 WAKVRQAVPNRSDSQCRERYTNVLNRSAK 411 (939)
T ss_pred hhhHHHhcCCccHHHHHHHHHHHHHHhhc
Confidence 99999999999999999999988866543
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=99.44 E-value=6.8e-14 Score=137.05 Aligned_cols=105 Identities=21% Similarity=0.327 Sum_probs=92.3
Q ss_pred CCCCcccCCCcHHHHHHHHHHHhhcC---CeeecccC-CCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhCCC
Q 025299 8 TAGELCAAVWRSALGFYCESFRFEGG---GRQYNRGL-NRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNR 83 (255)
Q Consensus 8 ~a~~l~kg~WT~eED~llk~v~~~g~---w~~i~~~l-~Rt~~QCr~RW~n~L~P~l~~~~WT~eED~~Ll~lv~~~G~~ 83 (255)
+-..++.|.|+..||+.++.++...+ |..|++.+ -|+++||+.||.+||+|.+++..|+.+||+.|+.|..++|++
T Consensus 14 ~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred ccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 66788999999999987777665443 44556666 569999999999999999999999999999999999999999
Q ss_pred hhhhhhhCCCCCHHHHHHHHHHHhhHHHH
Q 025299 84 WSRIARKLPGRTDNEIKNYWRTHMRKKAQ 112 (255)
Q Consensus 84 Ws~Ia~~lpgRT~nq~KnRw~~llrk~~~ 112 (255)
|+.||..++|||..+|.+||..++.....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999988876544
No 7
>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=99.44 E-value=1.4e-13 Score=94.27 Aligned_cols=46 Identities=33% Similarity=0.733 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC-hhhhhhhCC-CCCHHHHHHHHHHHh
Q 025299 62 RGKMTPQEERLVLELHAKWGNR-WSRIARKLP-GRTDNEIKNYWRTHM 107 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~G~~-Ws~Ia~~lp-gRT~nq~KnRw~~ll 107 (255)
|++||++||++|++++.+||.. |..||..|+ |||..||++||+.++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5789999999999999999998 999999999 999999999998764
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.44 E-value=6.3e-14 Score=135.78 Aligned_cols=105 Identities=21% Similarity=0.395 Sum_probs=92.4
Q ss_pred CcccCCCcHHHHHHHHHHHhhcC---CeeecccC-CCCHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhCCChhh
Q 025299 11 ELCAAVWRSALGFYCESFRFEGG---GRQYNRGL-NRTGKSCRLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSR 86 (255)
Q Consensus 11 ~l~kg~WT~eED~llk~v~~~g~---w~~i~~~l-~Rt~~QCr~RW~n~L~P~l~~~~WT~eED~~Ll~lv~~~G~~Ws~ 86 (255)
.++.|.|+.-||++|++.+..++ |..|+..+ -.+.+||+.||..+|||.|++..|+.+||++||.|...+-..|..
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EEecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 36789999999999998776555 55566666 569999999999999999999999999999999999999999999
Q ss_pred hhhhCCCCCHHHHHHHHHHHhhHHHHhhhh
Q 025299 87 IARKLPGRTDNEIKNYWRTHMRKKAQERKR 116 (255)
Q Consensus 87 Ia~~lpgRT~nq~KnRw~~llrk~~~~~~~ 116 (255)
|+..| |||.+||-.||+.++-........
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~~~~ 112 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSYHYH 112 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhhhcc
Confidence 99999 999999999999999876655444
No 9
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.41 E-value=2.5e-13 Score=96.48 Aligned_cols=57 Identities=30% Similarity=0.481 Sum_probs=46.5
Q ss_pred CcHHHHHHHHHHHh-hc-CCeeecccCC-CCHHHHHHHHHHhcCCCCCCCCCCHHHHHHH
Q 025299 17 WRSALGFYCESFRF-EG-GGRQYNRGLN-RTGKSCRLRWVNYLHPGLKRGKMTPQEERLV 73 (255)
Q Consensus 17 WT~eED~llk~v~~-~g-~w~~i~~~l~-Rt~~QCr~RW~n~L~P~l~~~~WT~eED~~L 73 (255)
||.+||.+|..++. +| .|..|+..++ |++.||+.||.++|+|.+++++||.+||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999965555443 44 4677888887 9999999999999999999999999999987
No 10
>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=99.29 E-value=2.2e-12 Score=91.60 Aligned_cols=45 Identities=44% Similarity=0.843 Sum_probs=39.3
Q ss_pred CCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 65 MTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 65 WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
||.+||++|+++|.+||++|..||.+|+.||..+|++||+..|++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~ 45 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRP 45 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTST
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcc
Confidence 999999999999999999999999999669999999999996653
No 11
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.29 E-value=6e-12 Score=83.55 Aligned_cols=47 Identities=38% Similarity=0.894 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CChhhhhhhCCCCCHHHHHHHHHHHhh
Q 025299 62 RGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHMR 108 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~G-~~Ws~Ia~~lpgRT~nq~KnRw~~llr 108 (255)
+++||++||.+|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 12
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.20 E-value=2.3e-11 Score=120.66 Aligned_cols=99 Identities=20% Similarity=0.343 Sum_probs=85.2
Q ss_pred ccCCCcHHHHHHH-HHHHhhcC-CeeecccCCCCHHHHHHHHHHhcCCC--CCCCCCCHHHHHHHHHHHH-------Hh-
Q 025299 13 CAAVWRSALGFYC-ESFRFEGG-GRQYNRGLNRTGKSCRLRWVNYLHPG--LKRGKMTPQEERLVLELHA-------KW- 80 (255)
Q Consensus 13 ~kg~WT~eED~ll-k~v~~~g~-w~~i~~~l~Rt~~QCr~RW~n~L~P~--l~~~~WT~eED~~Ll~lv~-------~~- 80 (255)
.+|.||++|++.| ++++.+|+ |..|...+||.+..||+||++|..++ ++++.||.||+++||++|. ++
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~lgr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q~q 462 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKALGRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQPQ 462 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHHccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhccc
Confidence 7999999999644 45555554 78889999999999999999999998 5899999999999999995 34
Q ss_pred ------C------------CChhhhhhhCCCCCHHHHHHHHHHHhhHHH
Q 025299 81 ------G------------NRWSRIARKLPGRTDNEIKNYWRTHMRKKA 111 (255)
Q Consensus 81 ------G------------~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~~ 111 (255)
| -+|+.|+..+..|+-.|||.+|+.++....
T Consensus 463 ~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s 511 (607)
T KOG0051|consen 463 ASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPS 511 (607)
T ss_pred ccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHH
Confidence 1 269999999999999999999999887653
No 13
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.18 E-value=2.1e-11 Score=109.70 Aligned_cols=57 Identities=23% Similarity=0.483 Sum_probs=51.3
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CChhhhhhhC-CCCCHHHHHHHHHHHhhHHHHh
Q 025299 57 HPGLKRGKMTPQEERLVLELHAKWG-NRWSRIARKL-PGRTDNEIKNYWRTHMRKKAQE 113 (255)
Q Consensus 57 ~P~l~~~~WT~eED~~Ll~lv~~~G-~~Ws~Ia~~l-pgRT~nq~KnRw~~llrk~~~~ 113 (255)
.+++++++||+|||++|+++|++|| .+|..||+++ +|||+.|||.||.++|+...++
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~k 78 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKR 78 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhccc
Confidence 4679999999999999999999999 5899999998 6999999999999998765443
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=99.17 E-value=5.4e-11 Score=77.85 Aligned_cols=44 Identities=41% Similarity=0.850 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhC-CChhhhhhhCCCCCHHHHHHHHHHHh
Q 025299 64 KMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHM 107 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G-~~Ws~Ia~~lpgRT~nq~KnRw~~ll 107 (255)
+||.+||.+|++++.+|| .+|..||..|++||..+|++||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998753
No 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.01 E-value=1.9e-10 Score=103.13 Aligned_cols=56 Identities=16% Similarity=0.307 Sum_probs=50.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC-ChhhhhhhCC-CCCHHHHHHHHHHHhhHHHHh
Q 025299 58 PGLKRGKMTPQEERLVLELHAKWGN-RWSRIARKLP-GRTDNEIKNYWRTHMRKKAQE 113 (255)
Q Consensus 58 P~l~~~~WT~eED~~Ll~lv~~~G~-~Ws~Ia~~lp-gRT~nq~KnRw~~llrk~~~~ 113 (255)
|.+.+|+||+|||++|+++|++||. +|..|++.++ ||++.+||-||.++||...++
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikr 62 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKR 62 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccC
Confidence 4556799999999999999999996 5999999998 999999999999999887654
No 16
>PLN03091 hypothetical protein; Provisional
Probab=98.93 E-value=6.6e-10 Score=106.89 Aligned_cols=55 Identities=22% Similarity=0.491 Sum_probs=49.2
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCC-ChhhhhhhC-CCCCHHHHHHHHHHHhhHHH
Q 025299 57 HPGLKRGKMTPQEERLVLELHAKWGN-RWSRIARKL-PGRTDNEIKNYWRTHMRKKA 111 (255)
Q Consensus 57 ~P~l~~~~WT~eED~~Ll~lv~~~G~-~Ws~Ia~~l-pgRT~nq~KnRw~~llrk~~ 111 (255)
...+++++||+|||++|+++|.+||. +|..||+.+ +|||+.|||.||..+|+...
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~I 65 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDL 65 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcc
Confidence 35789999999999999999999995 799999988 59999999999998876543
No 17
>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=98.60 E-value=2.4e-08 Score=68.18 Aligned_cols=43 Identities=26% Similarity=0.432 Sum_probs=31.5
Q ss_pred cCCCcHHHHH-HHHHHHhhcC--CeeecccC--CCCHHHHHHHHHHhc
Q 025299 14 AAVWRSALGF-YCESFRFEGG--GRQYNRGL--NRTGKSCRLRWVNYL 56 (255)
Q Consensus 14 kg~WT~eED~-llk~v~~~g~--w~~i~~~l--~Rt~~QCr~RW~n~L 56 (255)
++.||.+||. |++++..+|. |..|+..+ +||+.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 6899999995 5566666664 55565544 799999999999986
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.18 E-value=1.9e-06 Score=56.68 Aligned_cols=44 Identities=27% Similarity=0.462 Sum_probs=34.8
Q ss_pred cCCCcHHHHH-HHHHHHhhc--CCeeecccC-CCCHHHHHHHHHHhcC
Q 025299 14 AAVWRSALGF-YCESFRFEG--GGRQYNRGL-NRTGKSCRLRWVNYLH 57 (255)
Q Consensus 14 kg~WT~eED~-llk~v~~~g--~w~~i~~~l-~Rt~~QCr~RW~n~L~ 57 (255)
++.||.+||. ++..+..+| .|..|+..+ +||+.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 4789999995 556666665 466777777 7999999999998765
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.03 E-value=1e-05 Score=80.99 Aligned_cols=99 Identities=28% Similarity=0.378 Sum_probs=70.8
Q ss_pred CcccCCCcHHHHHHHHHHHh-----hcCC-------e------e--------ecccC-CCCHHHHHHHHHHhcCC-CCCC
Q 025299 11 ELCAAVWRSALGFYCESFRF-----EGGG-------R------Q--------YNRGL-NRTGKSCRLRWVNYLHP-GLKR 62 (255)
Q Consensus 11 ~l~kg~WT~eED~llk~v~~-----~g~w-------~------~--------i~~~l-~Rt~~QCr~RW~n~L~P-~l~~ 62 (255)
.++.+..+.+||..|+.++. +|.- . . +...| -|+.+..-..=++.-+| ..++
T Consensus 305 e~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~R~~~siy~~~rR~y~~FE~~r 384 (607)
T KOG0051|consen 305 EINLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPYRDRKSIYHHLRRAYTPFENKR 384 (607)
T ss_pred hhhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCcccchhHHHHHHhcCCcccccc
Confidence 56668899999976666554 3320 0 0 11122 36665553321132333 2289
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 63 GKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 63 ~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
|.||++|++.|..+|.++|+.|..|++.| ||....|+.||+...+..
T Consensus 385 g~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 385 GKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCG 431 (607)
T ss_pred CCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccc
Confidence 99999999999999999999999999999 999999999999887654
No 20
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=97.97 E-value=1.3e-06 Score=86.31 Aligned_cols=95 Identities=21% Similarity=0.339 Sum_probs=75.2
Q ss_pred cccCCCcHHHHHHHHHHH-hhcC-CeeecccCCCCHHHHHHHHHHhcCC--CCCCCCCCHHHHHHHHHHHHHhC------
Q 025299 12 LCAAVWRSALGFYCESFR-FEGG-GRQYNRGLNRTGKSCRLRWVNYLHP--GLKRGKMTPQEERLVLELHAKWG------ 81 (255)
Q Consensus 12 l~kg~WT~eED~llk~v~-~~g~-w~~i~~~l~Rt~~QCr~RW~n~L~P--~l~~~~WT~eED~~Ll~lv~~~G------ 81 (255)
-.+|.||.+|+..|...+ .+|+ |..|...++|-+.-||+||.+|..+ .+++++|+.||+.+|...|.+.-
T Consensus 289 ~~~~~wt~e~~~eL~~~~~~~~~~w~~ig~~~~rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~~~~ 368 (512)
T COG5147 289 EQRGKWTKEEEQELAKLVVEHGGSWTEIGKLLGRMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEAQQS 368 (512)
T ss_pred hhhccCccccccccccccccccchhhHhhhhhccCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHHhhh
Confidence 357999999996555544 4444 5556666699999999999999999 68889999999999998887432
Q ss_pred --CChhhhhhhCCCCCHHHHHHHHHHH
Q 025299 82 --NRWSRIARKLPGRTDNEIKNYWRTH 106 (255)
Q Consensus 82 --~~Ws~Ia~~lpgRT~nq~KnRw~~l 106 (255)
..|..|+.+++.|....|+..+..+
T Consensus 369 ~~~~~~li~~~~~~~~~~~~~~~~~~~ 395 (512)
T COG5147 369 SRILWLLIAQNIRNRLQHHCRDKYGVL 395 (512)
T ss_pred hhhhHHHHHHhhhccccCCCCCccccc
Confidence 3699999999888887777765433
No 21
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=97.91 E-value=1.1e-05 Score=52.32 Aligned_cols=41 Identities=32% Similarity=0.514 Sum_probs=31.9
Q ss_pred CCcHHHHH-HHHHHHhhc--CCeeecccC-CCCHHHHHHHHHHhc
Q 025299 16 VWRSALGF-YCESFRFEG--GGRQYNRGL-NRTGKSCRLRWVNYL 56 (255)
Q Consensus 16 ~WT~eED~-llk~v~~~g--~w~~i~~~l-~Rt~~QCr~RW~n~L 56 (255)
.||.+||. ++..+...| .|..|+..+ +|++.||+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 59999995 555566666 466677777 799999999998764
No 22
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.64 E-value=0.00015 Score=51.87 Aligned_cols=46 Identities=20% Similarity=0.241 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-Ch---hhhhhhCC-CC-CHHHHHHHHHHHh
Q 025299 62 RGKMTPQEERLVLELHAKWGN-RW---SRIARKLP-GR-TDNEIKNYWRTHM 107 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~G~-~W---s~Ia~~lp-gR-T~nq~KnRw~~ll 107 (255)
+-.||+||..+.|+++..+|. .| .+|+..+. .| |..||+.|++...
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 567999999999999999997 99 99999873 45 9999999987654
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.51 E-value=0.00015 Score=70.01 Aligned_cols=50 Identities=28% Similarity=0.449 Sum_probs=44.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CChhhhhhhCCCCCHHHHHHHHHHHhh
Q 025299 59 GLKRGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHMR 108 (255)
Q Consensus 59 ~l~~~~WT~eED~~Ll~lv~~~G-~~Ws~Ia~~lpgRT~nq~KnRw~~llr 108 (255)
.+-...||.+|+.+||+++..|| .+|..||.++..||..+||.||.++.-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 34456799999999999999999 799999999999999999999987653
No 24
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.22 E-value=0.00026 Score=69.78 Aligned_cols=54 Identities=28% Similarity=0.511 Sum_probs=48.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CChhhhhhhCCCCCHHHHHHHHHHHhhHHHHh
Q 025299 60 LKRGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHMRKKAQE 113 (255)
Q Consensus 60 l~~~~WT~eED~~Ll~lv~~~G-~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~~~~ 113 (255)
++.+-|+.-||++|-..|.+|| +.|++|+..|+..|..||++||...+....++
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~ 59 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKK 59 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhh
Confidence 5667899999999999999999 56999999999999999999999888766544
No 25
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.02 E-value=0.00057 Score=51.43 Aligned_cols=54 Identities=28% Similarity=0.540 Sum_probs=38.2
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------ChhhhhhhC----CCCCHHHHHHHHHHHhhHHHHhhh
Q 025299 62 RGKMTPQEERLVLELHAK------WG--N------RWSRIARKL----PGRTDNEIKNYWRTHMRKKAQERK 115 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~------~G--~------~Ws~Ia~~l----pgRT~nq~KnRw~~llrk~~~~~~ 115 (255)
|..||.+|...||+++.+ ++ + -|..||..| ..||..||+++|.++.++-.+.+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~ 72 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKD 72 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSS
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 357999999999999877 32 1 499999987 479999999999998776655444
No 26
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.87 E-value=0.0014 Score=65.23 Aligned_cols=50 Identities=20% Similarity=0.321 Sum_probs=45.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 61 KRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 61 ~~~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
.+..||.+|..+||+.+..||-.|.+||.++..||..||.-||..+-...
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LPieD 301 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLPIED 301 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcCccc
Confidence 35689999999999999999999999999999999999999998766544
No 27
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.79 E-value=0.0014 Score=64.02 Aligned_cols=46 Identities=22% Similarity=0.310 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHh
Q 025299 62 RGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHM 107 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~ll 107 (255)
...||.+|..+||+.++.||-.|.+||+|+..||..||.-||.++-
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~LP 324 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLP 324 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcCC
Confidence 3489999999999999999999999999999999999999997554
No 28
>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=96.76 E-value=0.0023 Score=46.90 Aligned_cols=50 Identities=20% Similarity=0.432 Sum_probs=32.6
Q ss_pred CCCCCHHHHHHHHHHHHHhC--------CC-hhhhhhhCC-CCCHHHHHHHHHHHhhHHH
Q 025299 62 RGKMTPQEERLVLELHAKWG--------NR-WSRIARKLP-GRTDNEIKNYWRTHMRKKA 111 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~G--------~~-Ws~Ia~~lp-gRT~nq~KnRw~~llrk~~ 111 (255)
|.+||.+||++|++.|.++. ++ |...+..-+ .+|-...|+||...|+.+.
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 56899999999999996542 22 999999877 9999999999988887653
No 29
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.15 E-value=0.006 Score=52.18 Aligned_cols=50 Identities=22% Similarity=0.330 Sum_probs=43.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhC---C----ChhhhhhhCCCCCHHHHHHHHHHHhhHHH
Q 025299 61 KRGKMTPQEERLVLELHAKWG---N----RWSRIARKLPGRTDNEIKNYWRTHMRKKA 111 (255)
Q Consensus 61 ~~~~WT~eED~~Ll~lv~~~G---~----~Ws~Ia~~lpgRT~nq~KnRw~~llrk~~ 111 (255)
+...||.|||.+|-+.|-+|- + -...+++.| +||..+|-=|||..+|+..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY 59 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQY 59 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHH
Confidence 356799999999999998874 2 378889999 9999999999999999874
No 30
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.67 E-value=0.028 Score=41.50 Aligned_cols=49 Identities=24% Similarity=0.504 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC-----------------CChhhhhhhC-----CCCCHHHHHHHHHHHhhHH
Q 025299 62 RGKMTPQEERLVLELHAKWG-----------------NRWSRIARKL-----PGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~G-----------------~~Ws~Ia~~l-----pgRT~nq~KnRw~~llrk~ 110 (255)
...||.+|.++|++++.+|- .-|..|+..| +.||..++|.+|..+...-
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 35799999999999998863 1499999876 3699999999998776543
No 31
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=95.67 E-value=0.062 Score=47.60 Aligned_cols=93 Identities=16% Similarity=0.279 Sum_probs=64.6
Q ss_pred CCcHHHHHHHHHHHhhcC-CeeecccC----CCCHHHHHHHHHHhc-CCCCC--------------------CCCCCHHH
Q 025299 16 VWRSALGFYCESFRFEGG-GRQYNRGL----NRTGKSCRLRWVNYL-HPGLK--------------------RGKMTPQE 69 (255)
Q Consensus 16 ~WT~eED~llk~v~~~g~-w~~i~~~l----~Rt~~QCr~RW~n~L-~P~l~--------------------~~~WT~eE 69 (255)
+|++..|.+|...+.+++ -..+..++ .-|-.-..+||...| +|.+. +.+||.+|
T Consensus 1 rW~~~DDl~Li~av~~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~~E 80 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTNDLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSKEE 80 (199)
T ss_pred CCCchhhHHHHHHHHHhcCHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCHHH
Confidence 599999977766666655 44454444 457788899997644 23222 34899999
Q ss_pred HHHHHHHHHHhCC---Chhhhhh-----hCCCCCHHHHHHHHHHHhh
Q 025299 70 ERLVLELHAKWGN---RWSRIAR-----KLPGRTDNEIKNYWRTHMR 108 (255)
Q Consensus 70 D~~Ll~lv~~~G~---~Ws~Ia~-----~lpgRT~nq~KnRw~~llr 108 (255)
|++|........+ .+.+|=. +.++||..++.++|..+.+
T Consensus 81 E~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkq 127 (199)
T PF13325_consen 81 EQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQ 127 (199)
T ss_pred HHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHH
Confidence 9999987766543 3555532 3489999999999984433
No 32
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.65 E-value=0.012 Score=55.46 Aligned_cols=46 Identities=26% Similarity=0.394 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CChhhhhhhCCCCCHHHHHHHHHHHh
Q 025299 62 RGKMTPQEERLVLELHAKWG-NRWSRIARKLPGRTDNEIKNYWRTHM 107 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~G-~~Ws~Ia~~lpgRT~nq~KnRw~~ll 107 (255)
-..|+..|+.+|++....+| .+|..||.++..|+..+||.||....
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y 109 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMY 109 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHH
Confidence 34699999999999999999 79999999999999999999997554
No 33
>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=94.94 E-value=0.0091 Score=51.10 Aligned_cols=46 Identities=22% Similarity=0.449 Sum_probs=35.4
Q ss_pred cccCCCcHHHHHHHHHHHhhc----C-----CeeecccCCCCHHHHHHHHHHhcC
Q 025299 12 LCAAVWRSALGFYCESFRFEG----G-----GRQYNRGLNRTGKSCRLRWVNYLH 57 (255)
Q Consensus 12 l~kg~WT~eED~llk~v~~~g----~-----w~~i~~~l~Rt~~QCr~RW~n~L~ 57 (255)
.++-.||.+||.||..++..+ + ...+...|+||+..|.=||..++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALNRTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHcccHHHhcchHHHHHH
Confidence 357799999998887765432 2 234566789999999999998887
No 34
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=94.87 E-value=0.038 Score=47.79 Aligned_cols=49 Identities=18% Similarity=0.331 Sum_probs=40.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCC-------hhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 61 KRGKMTPQEERLVLELHAKWGNR-------WSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 61 ~~~~WT~eED~~Ll~lv~~~G~~-------Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
++..||.|||.+|-+.|-.|+.. ...++..| +||..+|.-|||..+|++
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~ 59 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQ 59 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHH
Confidence 45689999999998888887742 45566777 999999999999888865
No 35
>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=94.55 E-value=0.046 Score=44.54 Aligned_cols=52 Identities=23% Similarity=0.455 Sum_probs=41.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----ChhhhhhhC------------CCCCHHHHHHHHHHHhhHH
Q 025299 59 GLKRGKMTPQEERLVLELHAKWGN----RWSRIARKL------------PGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 59 ~l~~~~WT~eED~~Ll~lv~~~G~----~Ws~Ia~~l------------pgRT~nq~KnRw~~llrk~ 110 (255)
.-++..||.+||..||-.+.+||- .|..|...+ ..||..+|..|.++|++--
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 566778999999999999999996 798886633 3699999999999998753
No 36
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=94.37 E-value=0.066 Score=51.68 Aligned_cols=63 Identities=19% Similarity=0.287 Sum_probs=52.4
Q ss_pred HHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhCCChhhhhhh-----CCC-CCHHHHHHHHHHHhhHHHHhhh
Q 025299 49 RLRWVNYLHPGLKRGKMTPQEERLVLELHAKWGNRWSRIARK-----LPG-RTDNEIKNYWRTHMRKKAQERK 115 (255)
Q Consensus 49 r~RW~n~L~P~l~~~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~-----lpg-RT~nq~KnRw~~llrk~~~~~~ 115 (255)
.+-|.+||+- ..||.+|-..|.+|++.|-=+|..|+.+ ++. ||-.++|.||+...|+-.+.+.
T Consensus 121 ~eEYe~~l~d----n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~ 189 (445)
T KOG2656|consen 121 DEEYEAHLND----NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARA 189 (445)
T ss_pred hHHHHHhhcc----ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccC
Confidence 4566677664 5799999999999999999999999997 666 9999999999877776655443
No 37
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.18 E-value=0.032 Score=48.25 Aligned_cols=46 Identities=17% Similarity=0.353 Sum_probs=31.8
Q ss_pred cccCCCcHHHHHHHHHHHhhcC---Ce------eecccCCCCHHHHHHHHHHhcC
Q 025299 12 LCAAVWRSALGFYCESFRFEGG---GR------QYNRGLNRTGKSCRLRWVNYLH 57 (255)
Q Consensus 12 l~kg~WT~eED~llk~v~~~g~---w~------~i~~~l~Rt~~QCr~RW~n~L~ 57 (255)
.++..||.++|.+|..++..+. .. .+...|+||+.+|..||..+++
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALKRTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHhhhHHHHHhHHHHHHH
Confidence 4678999999987766543331 11 2245569999999999955544
No 38
>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=92.90 E-value=0.27 Score=37.17 Aligned_cols=48 Identities=31% Similarity=0.605 Sum_probs=36.5
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------ChhhhhhhC---C--CCCHHHHHHHHHHHhhHHH
Q 025299 64 KMTPQEERLVLELHAKW---GN----------RWSRIARKL---P--GRTDNEIKNYWRTHMRKKA 111 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~---G~----------~Ws~Ia~~l---p--gRT~nq~KnRw~~llrk~~ 111 (255)
.||+++++.||+++.+. |+ .|..|+..| + ..|..||+|||..+-+.-.
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 49999999999998653 22 389998876 2 3577899999987766543
No 39
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.62 E-value=0.3 Score=45.90 Aligned_cols=57 Identities=19% Similarity=0.352 Sum_probs=45.3
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CCChhhhhhhC----CCCCHHHHHHHHHHHhhHHHHhhhhcC
Q 025299 62 RGKMTPQEERLVLELHAKW----------GNRWSRIARKL----PGRTDNEIKNYWRTHMRKKAQERKRAV 118 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~----------G~~Ws~Ia~~l----pgRT~nq~KnRw~~llrk~~~~~~~~~ 118 (255)
...|+.+|-..||++..+. +..|..||+.+ .-||+.+||++|.++.++..+.+....
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k~~~~ 124 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEKAKKE 124 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHhcccC
Confidence 3689999999999988653 24599999955 459999999999999888766655543
No 40
>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=90.60 E-value=0.65 Score=31.55 Aligned_cols=41 Identities=24% Similarity=0.396 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhh
Q 025299 67 PQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMR 108 (255)
Q Consensus 67 ~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llr 108 (255)
+++++.++.++...|-.+..||..+ |.|.+.|+++....++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 4678889999999999999999999 9999999998876554
No 41
>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=90.36 E-value=0.47 Score=33.80 Aligned_cols=43 Identities=16% Similarity=0.251 Sum_probs=32.3
Q ss_pred cCCCcHHHH-HHHHHHHhhcC--C---eeecccC--CC-CHHHHHHHHHHhc
Q 025299 14 AAVWRSALG-FYCESFRFEGG--G---RQYNRGL--NR-TGKSCRLRWVNYL 56 (255)
Q Consensus 14 kg~WT~eED-~llk~v~~~g~--w---~~i~~~l--~R-t~~QCr~RW~n~L 56 (255)
+-.||.+|. ..|+++...|. | +.|+..+ .| |..||+.+.+.|.
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 457999999 58888887775 5 4454433 56 9999999998764
No 42
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=90.03 E-value=0.25 Score=48.27 Aligned_cols=47 Identities=11% Similarity=0.267 Sum_probs=38.8
Q ss_pred CcccCCCcHHHH-HHHHHHHhhc--CCeeecccC-CCCHHHHHHHHHHhcC
Q 025299 11 ELCAAVWRSALG-FYCESFRFEG--GGRQYNRGL-NRTGKSCRLRWVNYLH 57 (255)
Q Consensus 11 ~l~kg~WT~eED-~llk~v~~~g--~w~~i~~~l-~Rt~~QCr~RW~n~L~ 57 (255)
++-...||.+|+ +||+++...| +|..|+..+ .|++.+|++.|.+++-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 566789999999 7888888655 677888888 6899999999998654
No 43
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=88.67 E-value=0.29 Score=36.52 Aligned_cols=17 Identities=47% Similarity=0.984 Sum_probs=10.8
Q ss_pred ccCCCCHHHHHHHHHHh
Q 025299 39 RGLNRTGKSCRLRWVNY 55 (255)
Q Consensus 39 ~~l~Rt~~QCr~RW~n~ 55 (255)
.+..||+.||+.||.|.
T Consensus 47 ~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 47 HGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp HC----HHHHHHHHHHH
T ss_pred cCCCCCHHHHHHHHHHH
Confidence 34589999999999873
No 44
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=86.97 E-value=0.99 Score=43.78 Aligned_cols=46 Identities=20% Similarity=0.365 Sum_probs=42.6
Q ss_pred CCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 64 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+||.+|=++..++...+|...+.|+..||.|...|||-.|.+--|+
T Consensus 367 ~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 367 RWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred cccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 7999999999999999999999999999999999999999765544
No 45
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=83.63 E-value=2.9 Score=45.41 Aligned_cols=67 Identities=18% Similarity=0.288 Sum_probs=49.8
Q ss_pred CHHHHHHHHHHh-c-CCCCCCCCCCHHHHHHHHHHHHHhC-CChhhhhhh------------CCCCCHHHHHHHHHHHhh
Q 025299 44 TGKSCRLRWVNY-L-HPGLKRGKMTPQEERLVLELHAKWG-NRWSRIARK------------LPGRTDNEIKNYWRTHMR 108 (255)
Q Consensus 44 t~~QCr~RW~n~-L-~P~l~~~~WT~eED~~Ll~lv~~~G-~~Ws~Ia~~------------lpgRT~nq~KnRw~~llr 108 (255)
--.+|+.-|.+. + .+..++..+|.+||+.||-.+.+|| .+|.+|... |..||..+|..|..+|++
T Consensus 906 k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~ 985 (1033)
T PLN03142 906 KLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIR 985 (1033)
T ss_pred HHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHH
Confidence 334666666441 1 2445566799999999999999999 579888432 247999999999999886
Q ss_pred HH
Q 025299 109 KK 110 (255)
Q Consensus 109 k~ 110 (255)
--
T Consensus 986 ~~ 987 (1033)
T PLN03142 986 LI 987 (1033)
T ss_pred HH
Confidence 43
No 46
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=82.06 E-value=3.4 Score=40.98 Aligned_cols=45 Identities=18% Similarity=0.344 Sum_probs=40.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHH
Q 025299 62 RGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTH 106 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~l 106 (255)
...||.||--++-++++.||.+..+|.+.||.|+-..+...|...
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSW 231 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHH
Confidence 347999999999999999999999999999999999999988643
No 47
>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=79.44 E-value=5.6 Score=26.58 Aligned_cols=43 Identities=26% Similarity=0.394 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 67 PQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 67 ~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
+++++.+|.++-.-|-.+..||..| |-|...|+.+....+++-
T Consensus 6 ~~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~kL 48 (50)
T PF04545_consen 6 PPREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKKL 48 (50)
T ss_dssp -HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHHh
Confidence 3567777878777778899999999 889999999988777653
No 48
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=79.43 E-value=1.9 Score=43.30 Aligned_cols=45 Identities=16% Similarity=0.383 Sum_probs=35.3
Q ss_pred CCcccCCCcHHHH-HHHHHHHhhcC-CeeecccC-CCCHHHHHHHHHH
Q 025299 10 GELCAAVWRSALG-FYCESFRFEGG-GRQYNRGL-NRTGKSCRLRWVN 54 (255)
Q Consensus 10 ~~l~kg~WT~eED-~llk~v~~~g~-w~~i~~~l-~Rt~~QCr~RW~n 54 (255)
+.--+..||.+|. +||+.+..+|. |..|+..+ +||..||..+.++
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLR 296 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHh
Confidence 4455789999999 56666766664 66677666 9999999999986
No 49
>smart00595 MADF subfamily of SANT domain.
Probab=75.08 E-value=3.9 Score=30.41 Aligned_cols=30 Identities=30% Similarity=0.594 Sum_probs=23.8
Q ss_pred ChhhhhhhCCCCCHHHHHHHHHHHhhHHHHh
Q 025299 83 RWSRIARKLPGRTDNEIKNYWRTHMRKKAQE 113 (255)
Q Consensus 83 ~Ws~Ia~~lpgRT~nq~KnRw~~llrk~~~~ 113 (255)
-|..||..| |-|..+|+.+|+++-..-.+.
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 399999999 449999999999886554333
No 50
>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=69.38 E-value=10 Score=25.05 Aligned_cols=38 Identities=21% Similarity=0.415 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHhCC-ChhhhhhhCCCCCHHHHHHHHHHH
Q 025299 68 QEERLVLELHAKWGN-RWSRIARKLPGRTDNEIKNYWRTH 106 (255)
Q Consensus 68 eED~~Ll~lv~~~G~-~Ws~Ia~~lpgRT~nq~KnRw~~l 106 (255)
+=|..||.+.++-|. .+..||..+ |=|...|.+|...+
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 458899999999885 599999999 99999999998754
No 51
>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=68.86 E-value=19 Score=34.35 Aligned_cols=44 Identities=27% Similarity=0.555 Sum_probs=35.5
Q ss_pred CCCCHHHHHHHHHHHHHh-CCC---hhhhhhhCCCCCHHHHHHHHHHH
Q 025299 63 GKMTPQEERLVLELHAKW-GNR---WSRIARKLPGRTDNEIKNYWRTH 106 (255)
Q Consensus 63 ~~WT~eED~~Ll~lv~~~-G~~---Ws~Ia~~lpgRT~nq~KnRw~~l 106 (255)
..||.-|...||++.+.. |.. -..|++.++||+..+|++.-+.+
T Consensus 22 ~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~L 69 (344)
T PF11035_consen 22 AAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQL 69 (344)
T ss_pred ccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHH
Confidence 479999999999998765 544 46789999999999999854433
No 52
>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=68.60 E-value=12 Score=29.71 Aligned_cols=40 Identities=18% Similarity=0.263 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 69 EERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 69 ED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++..++.+.-..|-.+..||..| |.+...|+++.....++
T Consensus 117 ~~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 117 QCRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 44455555555678899999998 89999999998776554
No 53
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=67.59 E-value=3.8 Score=40.76 Aligned_cols=42 Identities=17% Similarity=0.315 Sum_probs=34.6
Q ss_pred ccCCCcHHHH-HHHHHHHhhcC-CeeecccC-CCCHHHHHHHHHH
Q 025299 13 CAAVWRSALG-FYCESFRFEGG-GRQYNRGL-NRTGKSCRLRWVN 54 (255)
Q Consensus 13 ~kg~WT~eED-~llk~v~~~g~-w~~i~~~l-~Rt~~QCr~RW~n 54 (255)
....|+.+|- +||+.+..+|. |..|+..+ +++..||..++.+
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~ 322 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQ 322 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHc
Confidence 4568999999 67788887775 66777776 8999999999986
No 54
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=64.93 E-value=27 Score=36.81 Aligned_cols=55 Identities=16% Similarity=0.195 Sum_probs=45.4
Q ss_pred HHHHhcCCCC---CCCCCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHH
Q 025299 51 RWVNYLHPGL---KRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRT 105 (255)
Q Consensus 51 RW~n~L~P~l---~~~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~ 105 (255)
||..|+--+. ....||+.|-.+.-+++..|-.....|++.++++|..||-..|++
T Consensus 605 ~~~~h~la~Y~Y~gSd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 605 RLKCHPLANYHYAGSDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred CccccccceeeecCcccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 5655544331 134799999999999999999999999999999999999999763
No 55
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=62.67 E-value=16 Score=30.25 Aligned_cols=42 Identities=14% Similarity=0.191 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHhCC-ChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 68 QEERLVLELHAKWGN-RWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 68 eED~~Ll~lv~~~G~-~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
+-|.+||++.++-|. .|+.||+.+ |-+...|++|++.+....
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~G 51 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAG 51 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 578999999999885 699999999 999999999998777654
No 56
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=62.27 E-value=14 Score=38.16 Aligned_cols=49 Identities=16% Similarity=0.408 Sum_probs=38.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhhhhhh----------CCCCCHHHHHHHHHHHhhHH
Q 025299 62 RGKMTPQEERLVLELHAKWGNRWSRIARK----------LPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~----------lpgRT~nq~KnRw~~llrk~ 110 (255)
+..||-+|++-...+.+++|....+|-.. ..-+|-.|++.+|+.++++.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m 146 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRM 146 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHH
Confidence 56899999999999999999999888332 22356678898887766554
No 57
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=60.73 E-value=8.1 Score=28.13 Aligned_cols=15 Identities=27% Similarity=0.499 Sum_probs=13.4
Q ss_pred CCCHHHHHHHHHHhc
Q 025299 42 NRTGKSCRLRWVNYL 56 (255)
Q Consensus 42 ~Rt~~QCr~RW~n~L 56 (255)
.|+..|++..|.|..
T Consensus 55 ~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 55 KRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCHHHHHHHHHHHH
Confidence 899999999999864
No 58
>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=60.11 E-value=7.4 Score=28.39 Aligned_cols=46 Identities=11% Similarity=0.042 Sum_probs=22.4
Q ss_pred CCCcHHHH-HHHHHHHhhcC----------Ceeec-ccC-CCCHHHHHHHHHHhcCCCC
Q 025299 15 AVWRSALG-FYCESFRFEGG----------GRQYN-RGL-NRTGKSCRLRWVNYLHPGL 60 (255)
Q Consensus 15 g~WT~eED-~llk~v~~~g~----------w~~i~-~~l-~Rt~~QCr~RW~n~L~P~l 60 (255)
-+.|.+|| .+++.|..... |+..+ ..+ .+|-.+-|+||+.+|.+..
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 46799999 57777743221 22222 234 6677777999999998753
No 59
>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=59.95 E-value=12 Score=28.49 Aligned_cols=30 Identities=23% Similarity=0.536 Sum_probs=24.8
Q ss_pred HHHHHHHHHHhCCChhhhhhhCCCCCHHHHH
Q 025299 70 ERLVLELHAKWGNRWSRIARKLPGRTDNEIK 100 (255)
Q Consensus 70 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~K 100 (255)
|+.|..+....|..|..+|++| |=|..+|.
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 5678999999999999999999 66665543
No 60
>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=59.03 E-value=23 Score=26.58 Aligned_cols=39 Identities=21% Similarity=0.366 Sum_probs=28.1
Q ss_pred HHHHHHHHHhC--------CChhhhhhhCCC---CC--HHHHHHHHHHHhhH
Q 025299 71 RLVLELHAKWG--------NRWSRIARKLPG---RT--DNEIKNYWRTHMRK 109 (255)
Q Consensus 71 ~~Ll~lv~~~G--------~~Ws~Ia~~lpg---RT--~nq~KnRw~~llrk 109 (255)
-.|-.+|.+.| ..|..||+.|.- -+ ..++|+.|...|..
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 34667778887 469999998822 12 36899999887753
No 61
>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=57.29 E-value=13 Score=31.82 Aligned_cols=41 Identities=27% Similarity=0.255 Sum_probs=35.5
Q ss_pred CCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHH
Q 025299 64 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRT 105 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~ 105 (255)
.||.|+.++|-+|..+ |-.=++||..|.|.|-|.|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhhhc
Confidence 5999999999988854 8889999999988999999987653
No 62
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=56.17 E-value=23 Score=31.50 Aligned_cols=46 Identities=15% Similarity=0.265 Sum_probs=35.6
Q ss_pred CCCHHHHHHHHHHHHHhCCChhhhhhhC---CCCCHHHHHHHHHHHhhHH
Q 025299 64 KMTPQEERLVLELHAKWGNRWSRIARKL---PGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G~~Ws~Ia~~l---pgRT~nq~KnRw~~llrk~ 110 (255)
.|++.+|-+|+..|.. |+.-..|+.-+ -.-|-.+|..||+.+|--.
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~ 49 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYDP 49 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcCh
Confidence 4999999999988865 55666666533 4678899999999998543
No 63
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=54.95 E-value=21 Score=30.00 Aligned_cols=44 Identities=16% Similarity=0.147 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHhCC-ChhhhhhhCCCCCHHHHHHHHHHHhhHHH
Q 025299 67 PQEERLVLELHAKWGN-RWSRIARKLPGRTDNEIKNYWRTHMRKKA 111 (255)
Q Consensus 67 ~eED~~Ll~lv~~~G~-~Ws~Ia~~lpgRT~nq~KnRw~~llrk~~ 111 (255)
.+-|.+||.+.++-|. .|+.||+.+ |=+...|++|++.+.+...
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 4578999999998885 699999999 9999999999988877654
No 64
>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=54.86 E-value=16 Score=26.21 Aligned_cols=34 Identities=26% Similarity=0.509 Sum_probs=25.3
Q ss_pred ChhhhhhhCC-CCCHHHHHHHHHHHhhHHHHhhhh
Q 025299 83 RWSRIARKLP-GRTDNEIKNYWRTHMRKKAQERKR 116 (255)
Q Consensus 83 ~Ws~Ia~~lp-gRT~nq~KnRw~~llrk~~~~~~~ 116 (255)
-|..||..|. .-+..+|+.||.++...-.+..+.
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~~~~~~ 62 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDRYRRELKK 62 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHHHHHHHH
Confidence 4999999995 367889999999877654444443
No 65
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=54.80 E-value=27 Score=26.45 Aligned_cols=39 Identities=18% Similarity=0.348 Sum_probs=29.3
Q ss_pred HHHHHHHHhC--------CChhhhhhhCCC-----CCHHHHHHHHHHHhhHH
Q 025299 72 LVLELHAKWG--------NRWSRIARKLPG-----RTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 72 ~Ll~lv~~~G--------~~Ws~Ia~~lpg-----RT~nq~KnRw~~llrk~ 110 (255)
.|-.+|.++| +.|..|+..|.- ....++|..|...|..-
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 4667788887 379999998732 24678999998887654
No 66
>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=54.15 E-value=29 Score=26.69 Aligned_cols=40 Identities=30% Similarity=0.312 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 69 EERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 69 ED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.+..++.++...|-.+..||..+ |-+...|+++....+++
T Consensus 114 ~~~~ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 114 REREVLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HHHHHHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33444455555688899999999 67899999988766554
No 67
>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=53.83 E-value=14 Score=28.14 Aligned_cols=17 Identities=24% Similarity=0.509 Sum_probs=10.2
Q ss_pred CCCCCCCCCHHHHHHHH
Q 025299 58 PGLKRGKMTPQEERLVL 74 (255)
Q Consensus 58 P~l~~~~WT~eED~~Ll 74 (255)
|....|-||+++|+.|.
T Consensus 43 P~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT---HHHHHHHT
T ss_pred CCCCCCCcCHHHHHHHH
Confidence 66678899999999994
No 68
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=52.49 E-value=32 Score=27.92 Aligned_cols=38 Identities=16% Similarity=0.162 Sum_probs=28.4
Q ss_pred HHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 71 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 71 ~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
..++.+....|-....||..| |.+...|+++....+++
T Consensus 134 r~vl~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 134 RTAITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 344445555678899999999 88999999987755444
No 69
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=51.96 E-value=18 Score=37.07 Aligned_cols=46 Identities=24% Similarity=0.378 Sum_probs=41.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHH
Q 025299 60 LKRGKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRT 105 (255)
Q Consensus 60 l~~~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~ 105 (255)
.....|+.+|=++--....++|...+.|+..+|+|+..|||..|..
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhh
Confidence 3456899999999999999999999999999999999999998753
No 70
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=49.99 E-value=37 Score=28.76 Aligned_cols=39 Identities=21% Similarity=0.196 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 70 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 70 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.++.|....|-....||..| |-+.+.|++|.....++
T Consensus 139 ~r~i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 139 QRAALVAVDMQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3444555556678899999999 99999999998644433
No 71
>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=49.85 E-value=25 Score=26.81 Aligned_cols=31 Identities=23% Similarity=0.411 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhCCChhhhhhhCCCCCHHHHHH
Q 025299 70 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 101 (255)
Q Consensus 70 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~Kn 101 (255)
|.+|..+....|..|.++|+.| |=+..+|.+
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 6788889999999999999999 666655544
No 72
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=47.88 E-value=40 Score=27.80 Aligned_cols=37 Identities=14% Similarity=-0.006 Sum_probs=27.1
Q ss_pred HHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 72 LVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 72 ~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.++.+..-.|.....||..| |-|...|+++.....++
T Consensus 143 ~il~l~~~~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 143 TVIVLKYIEDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred HHhhhHHhhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33344444567899999999 89999999987655544
No 73
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=46.63 E-value=52 Score=26.43 Aligned_cols=36 Identities=11% Similarity=0.051 Sum_probs=27.2
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.|+...|-.-..||..| |-+.+.|++|....+++
T Consensus 114 v~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 114 AFLLRYWEDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred HHHHHHHhcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3444445567889999999 89999999997755544
No 74
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=46.62 E-value=44 Score=27.05 Aligned_cols=36 Identities=25% Similarity=0.220 Sum_probs=26.7
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.++...|-....||..| |-+...|+++.....++
T Consensus 133 i~~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 133 VFLLRYVEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HhhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334445577899999999 88899999987765544
No 75
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=46.04 E-value=34 Score=32.86 Aligned_cols=47 Identities=9% Similarity=0.172 Sum_probs=36.4
Q ss_pred CcccCCCcHHHHH-HHHHHHh--hcCCeeecccC-CCCHHHHHHHHHHhcC
Q 025299 11 ELCAAVWRSALGF-YCESFRF--EGGGRQYNRGL-NRTGKSCRLRWVNYLH 57 (255)
Q Consensus 11 ~l~kg~WT~eED~-llk~v~~--~g~w~~i~~~l-~Rt~~QCr~RW~n~L~ 57 (255)
++-.-.|+..|+. +++.+.. .|+|.-|+..+ .|+...|++.|..++.
T Consensus 60 pI~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 60 PIGEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred cccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 4556679999994 5666654 44677788877 6999999999998776
No 76
>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=45.02 E-value=24 Score=26.45 Aligned_cols=31 Identities=23% Similarity=0.568 Sum_probs=24.5
Q ss_pred HHHHHHHHHHhCCChhhhhhhCCCCCHHHHHH
Q 025299 70 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 101 (255)
Q Consensus 70 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~Kn 101 (255)
|..|..+....|..|.++|++| |=+..+|..
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 5567788899999999999999 666655544
No 77
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=43.68 E-value=65 Score=26.72 Aligned_cols=39 Identities=15% Similarity=0.124 Sum_probs=28.5
Q ss_pred HHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 71 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 71 ~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
..++.++...|-....||..| |-+.+.|+++....+++-
T Consensus 137 r~v~~l~~~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~L 175 (184)
T PRK12512 137 RDVVQSISVEGASIKETAAKL-SMSEGAVRVALHRGLAAL 175 (184)
T ss_pred HHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 334444445577889999999 999999999987665543
No 78
>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=43.49 E-value=40 Score=27.88 Aligned_cols=31 Identities=13% Similarity=0.038 Sum_probs=23.9
Q ss_pred HhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 79 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 79 ~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
..|-....||..| |-|.+.|+++.+..+++-
T Consensus 152 ~~~~s~~EIA~~l-gis~~tv~~~l~rar~~L 182 (190)
T TIGR02939 152 LEGLSYEDIARIM-DCPVGTVRSRIFRAREAI 182 (190)
T ss_pred hcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3456789999999 888999999987555543
No 79
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=42.78 E-value=42 Score=32.80 Aligned_cols=43 Identities=21% Similarity=0.251 Sum_probs=39.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhhhhh-hCCCCCHHHHHHHHHH
Q 025299 63 GKMTPQEERLVLELHAKWGNRWSRIAR-KLPGRTDNEIKNYWRT 105 (255)
Q Consensus 63 ~~WT~eED~~Ll~lv~~~G~~Ws~Ia~-~lpgRT~nq~KnRw~~ 105 (255)
..|+.+|-+..-+-.+.||+....|.. +++.|+-..|-..|+.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHH
Confidence 369999999999999999999999966 6899999999998763
No 80
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=42.74 E-value=48 Score=27.29 Aligned_cols=40 Identities=20% Similarity=0.302 Sum_probs=30.5
Q ss_pred HHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 70 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 70 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
++.++.|+...|-....||..| |-+.+.|++|....+++-
T Consensus 124 ~r~v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 124 ARAAFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3445555556678899999999 999999999987665553
No 81
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=42.26 E-value=64 Score=26.04 Aligned_cols=37 Identities=11% Similarity=-0.085 Sum_probs=27.0
Q ss_pred HHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 72 LVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 72 ~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.++.++...|-.-..||..| |-+.+.||+|.....++
T Consensus 113 ~v~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 113 DVVLAHYLEEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred HHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33444445567889999999 99999999997644443
No 82
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=42.05 E-value=61 Score=26.52 Aligned_cols=36 Identities=25% Similarity=0.246 Sum_probs=27.0
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.|+.-.|-.-..||..| |.+.+.|++|....+++
T Consensus 126 vl~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 126 VLVRSYYRGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 4444445577789999999 89999999997755544
No 83
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=41.75 E-value=62 Score=26.96 Aligned_cols=38 Identities=16% Similarity=0.094 Sum_probs=29.8
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHHH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKKA 111 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~~ 111 (255)
++.|+...|-....||..| |-+.+.||.|....+++-.
T Consensus 135 v~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~ 172 (178)
T PRK12529 135 AFLMATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCL 172 (178)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 3455555677899999999 9999999999887666543
No 84
>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=41.41 E-value=62 Score=27.33 Aligned_cols=37 Identities=11% Similarity=0.047 Sum_probs=28.2
Q ss_pred HHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 72 LVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 72 ~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.++.++...|-....||..| |-+.+.||+|....+++
T Consensus 138 ~v~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 138 RVFMMREVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHHHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34455555677899999999 99999999997655544
No 85
>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=41.09 E-value=36 Score=25.79 Aligned_cols=28 Identities=29% Similarity=0.556 Sum_probs=21.9
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKN 101 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~Kn 101 (255)
|..+....|..|.++|++| |=++.+|..
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI~~ 37 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEIRA 37 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 3446688999999999999 777776643
No 86
>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=40.20 E-value=63 Score=26.37 Aligned_cols=35 Identities=17% Similarity=0.302 Sum_probs=25.6
Q ss_pred HHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 74 LELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 74 l~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+.++...|-....||..| |-|.+.|++|....+++
T Consensus 128 ~~l~~~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 128 IILRYYHDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444567789999998 77999999987755544
No 87
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=40.10 E-value=63 Score=27.24 Aligned_cols=35 Identities=6% Similarity=-0.008 Sum_probs=26.4
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhh
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMR 108 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llr 108 (255)
++.|+.-.|-....||..| |-+.+.||.|.....+
T Consensus 142 v~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~RAr~ 176 (189)
T PRK12530 142 VFMMREYLELSSEQICQEC-DISTSNLHVLLYRARL 176 (189)
T ss_pred HHhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3444444577899999999 9999999999765444
No 88
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=39.84 E-value=67 Score=24.39 Aligned_cols=42 Identities=19% Similarity=0.245 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHhCC-ChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 68 QEERLVLELHAKWGN-RWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 68 eED~~Ll~lv~~~G~-~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
+.|..||.+.++.|. .+..||+.+ |-+...|+.|...+..+.
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 568899999988874 699999999 999999999998877654
No 89
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=39.38 E-value=60 Score=26.75 Aligned_cols=30 Identities=10% Similarity=-0.060 Sum_probs=23.2
Q ss_pred HhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 79 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 79 ~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
..|-.-..||..| |.+.+.|+++.+...++
T Consensus 150 ~~g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 150 MEDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999998 88999999987655444
No 90
>PRK04217 hypothetical protein; Provisional
Probab=39.35 E-value=1.3e+02 Score=24.13 Aligned_cols=44 Identities=18% Similarity=0.127 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 64 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
..|.+| ..++.+...-|-....||+.| |-+.+.|+++++...++
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 456666 678888888888999999999 99999999998765544
No 91
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=39.33 E-value=28 Score=32.70 Aligned_cols=42 Identities=21% Similarity=0.318 Sum_probs=26.9
Q ss_pred CCCcHHHHHHHHHHHh-------hcC-----Ceeecc-----cCCCCHHHHHHHHHHhc
Q 025299 15 AVWRSALGFYCESFRF-------EGG-----GRQYNR-----GLNRTGKSCRLRWVNYL 56 (255)
Q Consensus 15 g~WT~eED~llk~v~~-------~g~-----w~~i~~-----~l~Rt~~QCr~RW~n~L 56 (255)
..|+.+|-..|-.+.. .+. |..++. +.-|++.||+.+|.|..
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 6899999854433322 111 444443 33899999999998743
No 92
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=39.30 E-value=71 Score=26.65 Aligned_cols=37 Identities=16% Similarity=0.162 Sum_probs=27.4
Q ss_pred HHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 72 LVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 72 ~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.++.++...|.....||..| |-+.+.|++|....+++
T Consensus 146 ~i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 146 EILILRVVVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33444445577899999999 88899999987655544
No 93
>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=39.07 E-value=76 Score=19.80 Aligned_cols=36 Identities=25% Similarity=0.313 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHH
Q 025299 69 EERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRT 105 (255)
Q Consensus 69 ED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~ 105 (255)
++..++.++..-|-....||..+ |=+...|+.+.+.
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~ 49 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHR 49 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHH
Confidence 45666667667788899999998 6777777665443
No 94
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=39.05 E-value=72 Score=26.91 Aligned_cols=36 Identities=17% Similarity=0.064 Sum_probs=26.6
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.+....|-....||..| |-+.+.||+|.+..+++
T Consensus 149 v~~l~~~eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 149 VLQAVYLEELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred HHHHHHHcCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 3444444567789999999 99999999997655544
No 95
>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=38.98 E-value=39 Score=25.56 Aligned_cols=31 Identities=26% Similarity=0.502 Sum_probs=26.0
Q ss_pred HHHHHHHHHHhCCChhhhhhhCCCCCHHHHHH
Q 025299 70 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 101 (255)
Q Consensus 70 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~Kn 101 (255)
|..|-.+....|..|..+|+.| |=++.+|.+
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 5677888899999999999999 777777766
No 96
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=38.76 E-value=97 Score=24.98 Aligned_cols=36 Identities=19% Similarity=0.202 Sum_probs=26.1
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.|+...|-.-..||..| |-+.+.|++|....+++
T Consensus 113 v~~l~~~~~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 113 SFLLRKLEGLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred HHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3344444556779999999 99999999997755544
No 97
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=38.63 E-value=70 Score=26.87 Aligned_cols=38 Identities=26% Similarity=0.124 Sum_probs=27.9
Q ss_pred HHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 71 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 71 ~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+.++.+..-.|-....||..| |-+.+.|++|.....++
T Consensus 112 r~i~~l~~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 112 AEALRLTELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred HHHHHHHHhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 334444445677899999999 89999999997655544
No 98
>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=38.08 E-value=74 Score=25.67 Aligned_cols=30 Identities=23% Similarity=0.273 Sum_probs=23.0
Q ss_pred HhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 79 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 79 ~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
-.|-+-..||..| |-+.+.|++|-....++
T Consensus 136 ~~g~s~~eIA~~l-~is~~tv~~~l~ra~~~ 165 (170)
T TIGR02952 136 GQNLPIAEVARIL-GKTEGAVKILQFRAIKK 165 (170)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 88899999987655444
No 99
>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=37.66 E-value=37 Score=25.84 Aligned_cols=30 Identities=40% Similarity=0.689 Sum_probs=24.5
Q ss_pred HHHHHHHHHhCCChhhhhhhCCCCCHHHHHH
Q 025299 71 RLVLELHAKWGNRWSRIARKLPGRTDNEIKN 101 (255)
Q Consensus 71 ~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~Kn 101 (255)
+.|-.+....|..|..+|+.| |=++++|.+
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 445566788899999999999 788888776
No 100
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=37.62 E-value=73 Score=26.26 Aligned_cols=30 Identities=17% Similarity=0.258 Sum_probs=23.7
Q ss_pred HhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 79 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 79 ~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
..|-.-..||..| |.+.+.|++|....+++
T Consensus 143 ~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 172 (179)
T PRK12514 143 LEGLSYKELAERH-DVPLNTMRTWLRRSLLK 172 (179)
T ss_pred HcCCCHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence 3466789999999 99999999997654443
No 101
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=37.40 E-value=1.2e+02 Score=23.68 Aligned_cols=51 Identities=14% Similarity=0.186 Sum_probs=33.3
Q ss_pred CCCCHHHHHHHHHHHHHh----CC----Chhh----hhhhC-CCCCHHHHHHHHHHHhhHHHHh
Q 025299 63 GKMTPQEERLVLELHAKW----GN----RWSR----IARKL-PGRTDNEIKNYWRTHMRKKAQE 113 (255)
Q Consensus 63 ~~WT~eED~~Ll~lv~~~----G~----~Ws~----Ia~~l-pgRT~nq~KnRw~~llrk~~~~ 113 (255)
.-||.++|..||+.+..| |. .+.. |...| ..=|.+|+.+.-+.+-+|-...
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~ 68 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNA 68 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHH
Confidence 469999999999998777 62 3433 33333 2236778887776665554433
No 102
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=36.40 E-value=73 Score=26.60 Aligned_cols=35 Identities=14% Similarity=0.061 Sum_probs=25.2
Q ss_pred HHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 74 LELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 74 l~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+.+..-.|-....||..| |-+.+.|++|.....++
T Consensus 147 ~~l~~~~g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 147 LTLREFDGLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred HhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333334466789999999 88899999997755544
No 103
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=36.04 E-value=77 Score=25.23 Aligned_cols=35 Identities=17% Similarity=0.126 Sum_probs=25.0
Q ss_pred HHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 74 LELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 74 l~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+.+....|-....||..| |-+...|+++-...+++
T Consensus 115 i~l~~~~~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 115 IFERFFVGKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred HHHHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444456788999988 89999999987655544
No 104
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=35.92 E-value=87 Score=26.16 Aligned_cols=35 Identities=11% Similarity=0.135 Sum_probs=26.1
Q ss_pred HHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 74 LELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 74 l~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+.+....|-....||..| |-+.+.|++|.....++
T Consensus 140 l~l~~~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 140 IDLVYYHEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred HHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 334444567889999999 88999999998755444
No 105
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=35.77 E-value=95 Score=26.28 Aligned_cols=39 Identities=26% Similarity=0.318 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHh
Q 025299 68 QEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHM 107 (255)
Q Consensus 68 eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~ll 107 (255)
++...++++..--|-.+..||..| |-+...|+++|...-
T Consensus 138 ~~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 138 PRQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 344556666666788999999999 999999999998654
No 106
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=34.95 E-value=91 Score=25.90 Aligned_cols=36 Identities=11% Similarity=0.026 Sum_probs=27.6
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.++...|-....||..| |.+...|+++-...+++
T Consensus 137 v~~l~~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 137 PIVHVKLEGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3444555677899999999 99999999997655544
No 107
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=34.95 E-value=66 Score=22.36 Aligned_cols=35 Identities=23% Similarity=0.500 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHH
Q 025299 68 QEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYW 103 (255)
Q Consensus 68 eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw 103 (255)
++|+-.|.+..+.|-+-..||+++ ||+-+.|++.-
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 445556677778899999999999 99999888753
No 108
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=34.62 E-value=1.1e+02 Score=25.77 Aligned_cols=35 Identities=14% Similarity=0.144 Sum_probs=26.0
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhh
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMR 108 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llr 108 (255)
++.|+...|-.-..||..| |-+.+.||+|....++
T Consensus 144 i~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 178 (195)
T PRK12532 144 VFTLKEILGFSSDEIQQMC-GISTSNYHTIMHRARE 178 (195)
T ss_pred HhhhHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3344445577889999999 9999999998765443
No 109
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=34.54 E-value=77 Score=26.15 Aligned_cols=34 Identities=29% Similarity=0.330 Sum_probs=26.0
Q ss_pred HHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 76 LHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 76 lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
|+...|-....||..| |-+.+.|++|....+++-
T Consensus 130 l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~~ 163 (172)
T PRK09651 130 LSQLDGLTYSEIAHKL-GVSVSSVKKYVAKATEHC 163 (172)
T ss_pred hhhccCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 3344566789999999 999999999987665543
No 110
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=34.32 E-value=94 Score=25.71 Aligned_cols=30 Identities=20% Similarity=0.174 Sum_probs=23.3
Q ss_pred HhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 79 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 79 ~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
..|-.-..||..| |-+.+.|++|.+..+++
T Consensus 149 ~~~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 149 YQGYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3456779999999 88999999987655544
No 111
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=34.23 E-value=81 Score=25.49 Aligned_cols=38 Identities=21% Similarity=0.262 Sum_probs=28.4
Q ss_pred HHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 71 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 71 ~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+.++.|+.-.|-....||..| |-+.+.|++|....+++
T Consensus 119 r~v~~L~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 119 KRAFLLAQVDGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334445555677899999999 89999999997765544
No 112
>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=33.82 E-value=76 Score=28.91 Aligned_cols=35 Identities=17% Similarity=0.142 Sum_probs=26.3
Q ss_pred HHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 75 ELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 75 ~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
.|+...|-.-..||..| |.+.+.||+|....+++-
T Consensus 152 ~L~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 186 (324)
T TIGR02960 152 LLRDVLGWRAAETAELL-GTSTASVNSALQRARATL 186 (324)
T ss_pred hhHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 33444567889999999 999999999976554443
No 113
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=33.80 E-value=1.2e+02 Score=25.55 Aligned_cols=39 Identities=18% Similarity=0.143 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 70 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 70 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.++.|....|-....||..| |-+.+.||+|-...+++
T Consensus 121 ~r~i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~ 159 (187)
T PRK12516 121 QREAIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQR 159 (187)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4445555556678899999999 88999999997655443
No 114
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=33.53 E-value=85 Score=26.35 Aligned_cols=36 Identities=17% Similarity=0.067 Sum_probs=26.5
Q ss_pred HHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 74 LELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 74 l~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
+.|..-.|-.-..||..| |-+.+.||+|....+++-
T Consensus 139 ~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 174 (185)
T PRK09649 139 LLLTQLLGLSYADAAAVC-GCPVGTIRSRVARARDAL 174 (185)
T ss_pred hhhHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 334444566789999999 999999999976555443
No 115
>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=33.43 E-value=1e+02 Score=25.34 Aligned_cols=32 Identities=22% Similarity=0.177 Sum_probs=24.5
Q ss_pred HHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 77 HAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 77 v~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
....|-....||..| |-+...||+|.+...++
T Consensus 146 ~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 177 (183)
T TIGR02999 146 RFFAGLTVEEIAELL-GVSVRTVERDWRFARAW 177 (183)
T ss_pred HHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 334566789999999 99999999997755443
No 116
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=33.28 E-value=96 Score=26.44 Aligned_cols=32 Identities=13% Similarity=-0.006 Sum_probs=24.2
Q ss_pred HHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhh
Q 025299 76 LHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMR 108 (255)
Q Consensus 76 lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llr 108 (255)
|+...|-.-..||..| |.+...||+|.....+
T Consensus 150 L~~~eg~s~~EIA~~l-gis~~tVk~~l~RAr~ 181 (201)
T PRK12545 150 MREFLDFEIDDICTEL-TLTANHCSVLLYRART 181 (201)
T ss_pred HHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3344566789999999 9999999999764443
No 117
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=33.06 E-value=97 Score=25.91 Aligned_cols=34 Identities=9% Similarity=-0.079 Sum_probs=25.3
Q ss_pred HHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 75 ELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 75 ~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.|..-.|-.-..||..| |-+.+.|++|....+++
T Consensus 141 ~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 174 (191)
T PRK12520 141 MMREWLELETEEICQEL-QITATNAWVLLYRARMR 174 (191)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33334566789999999 99999999997655443
No 118
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=32.71 E-value=1e+02 Score=26.03 Aligned_cols=36 Identities=14% Similarity=0.021 Sum_probs=26.3
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.|+...|-.+..||..| |=+.+.|++|....+++
T Consensus 144 i~~L~~~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 144 AVVLRHIEGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3444445567899999999 88889999987654444
No 119
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=32.38 E-value=96 Score=25.77 Aligned_cols=36 Identities=11% Similarity=0.028 Sum_probs=25.3
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.+..-.|-....||..| |-+.+.|++|.+..+++
T Consensus 136 i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 171 (186)
T PRK05602 136 AIVLQYYQGLSNIEAAAVM-DISVDALESLLARGRRA 171 (186)
T ss_pred HhhHHHhcCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 3334444567788899988 88888999987655444
No 120
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=32.28 E-value=1.1e+02 Score=24.87 Aligned_cols=37 Identities=16% Similarity=0.064 Sum_probs=27.0
Q ss_pred HHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 72 LVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 72 ~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.++.|+...|-.-..||..| |-+...|++|-....++
T Consensus 119 ~v~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 155 (164)
T PRK12547 119 EAIILIGASGFSYEDAAAIC-GCAVGTIKSRVSRARNR 155 (164)
T ss_pred HHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33444445667889999999 88899999987655443
No 121
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=32.24 E-value=88 Score=27.47 Aligned_cols=44 Identities=25% Similarity=0.271 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 64 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
..|+.|-+ +++++.+ |..-..||+.| +-+.+.||+|-..+++|-
T Consensus 155 ~Lt~rE~~-Vl~l~~~-G~s~~eIA~~L-~iS~~TVk~~~~~i~~Kl 198 (216)
T PRK10100 155 LLTHREKE-ILNKLRI-GASNNEIARSL-FISENTVKTHLYNLFKKI 198 (216)
T ss_pred CCCHHHHH-HHHHHHc-CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 47875555 4555555 99999999999 899999999988887764
No 122
>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=31.49 E-value=56 Score=23.90 Aligned_cols=31 Identities=29% Similarity=0.564 Sum_probs=22.3
Q ss_pred HHHHHHHHHHH-hCCChhhhhhhCCCCCHHHHH
Q 025299 69 EERLVLELHAK-WGNRWSRIARKLPGRTDNEIK 100 (255)
Q Consensus 69 ED~~Ll~lv~~-~G~~Ws~Ia~~lpgRT~nq~K 100 (255)
-++.|..++.. .|..|..+|+.| |=+..+|.
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i~ 35 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEADID 35 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHHHH
Confidence 34566677777 899999999999 44555543
No 123
>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=31.25 E-value=48 Score=25.15 Aligned_cols=21 Identities=24% Similarity=0.498 Sum_probs=19.1
Q ss_pred HHHHHHHHHhCCChhhhhhhC
Q 025299 71 RLVLELHAKWGNRWSRIARKL 91 (255)
Q Consensus 71 ~~Ll~lv~~~G~~Ws~Ia~~l 91 (255)
..|..+..+.|..|..++++|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 468889999999999999998
No 124
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=31.12 E-value=1.1e+02 Score=25.48 Aligned_cols=36 Identities=11% Similarity=0.349 Sum_probs=26.7
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.|....|-.-..||..| |-+...|++|.....++
T Consensus 130 i~~l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 165 (185)
T PRK12542 130 VFKYKVFYNLTYQEISSVM-GITEANVRKQFERARKR 165 (185)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3444445667889999999 99999999987654443
No 125
>PRK00118 putative DNA-binding protein; Validated
Probab=31.11 E-value=1.2e+02 Score=24.08 Aligned_cols=42 Identities=12% Similarity=0.111 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 67 PQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 67 ~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.++.++.++...|-....||..+ |-|.+.|+++.....++
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArkk 60 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEKL 60 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 4566777788888899999999999 99999999886654433
No 126
>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=31.03 E-value=51 Score=24.70 Aligned_cols=34 Identities=29% Similarity=0.561 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHH
Q 025299 67 PQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNY 102 (255)
Q Consensus 67 ~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnR 102 (255)
.||-++||.. ...|..|...|..| |=++..|++-
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 5777888732 25788999999999 7788887763
No 127
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=31.03 E-value=1.1e+02 Score=25.75 Aligned_cols=36 Identities=28% Similarity=0.342 Sum_probs=25.1
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.|...-|-.-..||..| |.|.+.|++|-....++
T Consensus 139 i~~l~~~~g~s~~EIAe~l-gis~~~V~~~l~Ra~~~ 174 (189)
T PRK06811 139 IFIRRYLLGEKIEEIAKKL-GLTRSAIDNRLSRGRKK 174 (189)
T ss_pred HHHHHHHccCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3333334466778999999 89999999986654443
No 128
>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=31.00 E-value=1.1e+02 Score=25.17 Aligned_cols=37 Identities=16% Similarity=0.396 Sum_probs=26.9
Q ss_pred HHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 72 LVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 72 ~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.++.++.-.|-....||..| |-|.+.|+++....+++
T Consensus 147 ~vi~l~~~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 147 EVILLRHLEGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred HHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 34444445667889999998 89999999987655544
No 129
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=30.53 E-value=1.3e+02 Score=25.37 Aligned_cols=34 Identities=18% Similarity=0.202 Sum_probs=24.3
Q ss_pred HHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 75 ELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 75 ~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.+....|-....||..| |-+...||+|-...+++
T Consensus 152 ~l~~~~~~s~~EIA~~L-gis~~tVk~~l~ra~~~ 185 (194)
T PRK09646 152 TLAYYGGLTYREVAERL-AVPLGTVKTRMRDGLIR 185 (194)
T ss_pred HHHHHcCCCHHHHHHHh-CCChHhHHHHHHHHHHH
Confidence 33344566789999999 77999999986544443
No 130
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=30.35 E-value=1e+02 Score=26.13 Aligned_cols=38 Identities=18% Similarity=0.119 Sum_probs=28.3
Q ss_pred HHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 71 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 71 ~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+.++.|+...|-....||..| |-+...|++|....+++
T Consensus 119 r~v~~L~~~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~ 156 (188)
T PRK12546 119 REALILVGASGFSYEEAAEMC-GVAVGTVKSRANRARAR 156 (188)
T ss_pred hHHhhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334455555677899999999 88999999997655544
No 131
>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=30.23 E-value=62 Score=24.69 Aligned_cols=22 Identities=27% Similarity=0.543 Sum_probs=19.6
Q ss_pred HHHHHHHHHHhCCChhhhhhhC
Q 025299 70 ERLVLELHAKWGNRWSRIARKL 91 (255)
Q Consensus 70 D~~Ll~lv~~~G~~Ws~Ia~~l 91 (255)
|.+|..+....|..|.++|+.|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L 25 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL 25 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc
Confidence 5677888899999999999998
No 132
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=29.95 E-value=91 Score=27.18 Aligned_cols=44 Identities=25% Similarity=0.268 Sum_probs=36.4
Q ss_pred CCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 64 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
..|+.|-++|--+. -|-.=..||..| +.+..-||+|-.++++|-
T Consensus 148 ~LT~RE~eVL~lla--~G~snkeIA~~L-~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 148 LLTPRELEVLRLLA--EGLSNKEIAEEL-NLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCHHHHHHHHHHH--CCCCHHHHHHHH-CCCHhHHHHHHHHHHHHc
Confidence 68888877765444 366778999999 999999999999999884
No 133
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=29.78 E-value=86 Score=31.69 Aligned_cols=41 Identities=24% Similarity=0.407 Sum_probs=37.4
Q ss_pred CCCHHHHHHHHHHHHHhCCChhhhhh-hCCCCCHHHHHHHHH
Q 025299 64 KMTPQEERLVLELHAKWGNRWSRIAR-KLPGRTDNEIKNYWR 104 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G~~Ws~Ia~-~lpgRT~nq~KnRw~ 104 (255)
.|+..|-.+.-++..+||.....|.. +||-++-..|-..|.
T Consensus 287 EWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 287 EWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 69999999999999999999999976 679999999988875
No 134
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=29.29 E-value=1.2e+02 Score=27.56 Aligned_cols=31 Identities=19% Similarity=0.333 Sum_probs=24.4
Q ss_pred HHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 78 AKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 78 ~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
..+|-.-..||..| |.+...||++.+...++
T Consensus 128 ~~~g~s~~EIA~~l-g~s~~tVk~~l~RAr~~ 158 (293)
T PRK09636 128 DVFGVPFDEIASTL-GRSPAACRQLASRARKH 158 (293)
T ss_pred HHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34567789999999 99999999997654444
No 135
>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=29.05 E-value=1.2e+02 Score=24.37 Aligned_cols=40 Identities=18% Similarity=0.178 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 69 EERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 69 ED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++..++.+....|-+-..||..| |-+...|++|....+++
T Consensus 114 ~~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 114 RQRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 45555666666677889999998 88999999987655544
No 136
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=28.96 E-value=1.5e+02 Score=22.99 Aligned_cols=45 Identities=24% Similarity=0.472 Sum_probs=35.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhhhhhhCCCC-CHHHHHHHHHHHhh
Q 025299 62 RGKMTPQEERLVLELHAKWGNRWSRIARKLPGR-TDNEIKNYWRTHMR 108 (255)
Q Consensus 62 ~~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgR-T~nq~KnRw~~llr 108 (255)
+..||.|.-..+++++.+-|..=+.||+.+ |- ..+++ .+|...++
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l-~~W~~~~~ 50 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQL-YKWRIQLQ 50 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHH-HHHHHHHH
Confidence 568999999999999999999899999999 65 55544 44654444
No 137
>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=28.69 E-value=43 Score=26.67 Aligned_cols=28 Identities=14% Similarity=0.108 Sum_probs=22.6
Q ss_pred CCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 81 GNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 81 G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
|-.+..||..| |-+...|+++.....++
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKE 148 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 45789999998 88999999998765544
No 138
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=27.84 E-value=1.4e+02 Score=25.58 Aligned_cols=34 Identities=15% Similarity=-0.017 Sum_probs=24.9
Q ss_pred HHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 76 LHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 76 lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
++...|-.-..||..| |.+.+.|++|.+..+++-
T Consensus 164 l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~L 197 (206)
T PRK12526 164 GVYFQELSQEQLAQQL-NVPLGTVKSRLRLALAKL 197 (206)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3333456778999999 999999999876555443
No 139
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=27.38 E-value=1.4e+02 Score=24.08 Aligned_cols=37 Identities=27% Similarity=0.343 Sum_probs=26.9
Q ss_pred HHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 71 RLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 71 ~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+.++.++. .|-.-..||..| |-+.+.|+++....+++
T Consensus 118 r~il~l~~-~g~s~~eIA~~l-gis~~tV~~~i~ra~~~ 154 (166)
T PRK09639 118 RTVLLLRF-SGYSYKEIAEAL-GIKESSVGTTLARAKKK 154 (166)
T ss_pred HHHHHHHH-cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34444555 677789999998 89999999987655443
No 140
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=27.34 E-value=1.3e+02 Score=24.90 Aligned_cols=35 Identities=17% Similarity=0.251 Sum_probs=25.6
Q ss_pred HHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 74 LELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 74 l~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+.+....|-.-..||..| |-+.+.|++|....+++
T Consensus 142 ~~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 176 (182)
T PRK12537 142 ILHAYVDGCSHAEIAQRL-GAPLGTVKAWIKRSLKA 176 (182)
T ss_pred HHHHHHcCCCHHHHHHHH-CCChhhHHHHHHHHHHH
Confidence 334444566788999998 88999999988766554
No 141
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=26.49 E-value=1.5e+02 Score=25.53 Aligned_cols=31 Identities=3% Similarity=-0.096 Sum_probs=23.9
Q ss_pred HHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 78 AKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 78 ~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.-.|-.-..||..| |-|.+.|++|....+++
T Consensus 161 ~~~g~s~~EIAe~l-gis~~tV~~~l~RAr~~ 191 (206)
T PRK12544 161 EFIELETNEICHAV-DLSVSNLNVLLYRARLR 191 (206)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 33456779999999 99999999997655544
No 142
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=25.49 E-value=1.2e+02 Score=26.77 Aligned_cols=31 Identities=10% Similarity=0.038 Sum_probs=23.8
Q ss_pred HHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 78 AKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 78 ~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
...|-.-..||..| |-+.+.|++|.+..+++
T Consensus 184 ~~eg~s~~EIA~~L-gis~~tVk~~l~RAr~k 214 (233)
T PRK12538 184 YHENMSNGEIAEVM-DTTVAAVESLLKRGRQQ 214 (233)
T ss_pred HhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 34456789999999 99999999987655443
No 143
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=25.47 E-value=1.3e+02 Score=25.16 Aligned_cols=30 Identities=30% Similarity=0.235 Sum_probs=22.2
Q ss_pred HhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 79 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 79 ~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
..|-.-..||..| |-+.+.|++|....+++
T Consensus 155 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 184 (194)
T PRK12519 155 YEGLSQSEIAKRL-GIPLGTVKARARQGLLK 184 (194)
T ss_pred hcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3456778899988 78999999887654443
No 144
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=25.36 E-value=1.4e+02 Score=26.11 Aligned_cols=41 Identities=20% Similarity=0.276 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 69 EERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 69 ED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
.++.++.++...|-....||..| |-+...|+++....+++-
T Consensus 188 ~~r~vl~l~~~~g~s~~EIA~~l-gis~~tV~~~~~ra~~~L 228 (236)
T PRK06986 188 REQLVLSLYYQEELNLKEIGAVL-GVSESRVSQIHSQAIKRL 228 (236)
T ss_pred HHHHHHHhHhccCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34455555555677889999999 999999999877665543
No 145
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=24.61 E-value=1.4e+02 Score=23.92 Aligned_cols=42 Identities=12% Similarity=0.162 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHhCC-ChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 68 QEERLVLELHAKWGN-RWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 68 eED~~Ll~lv~~~G~-~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
+-|.+||++.++-|. .+..||+.+ |-+...|++|-..+.+..
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~G 50 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEG 50 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCC
Confidence 568889998888885 699999999 899999999988777654
No 146
>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=24.43 E-value=1.7e+02 Score=26.54 Aligned_cols=33 Identities=15% Similarity=0.316 Sum_probs=25.5
Q ss_pred HHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 76 LHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 76 lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
|+..+|-.-..||..| |.|...||++.+...++
T Consensus 119 L~~~~g~s~~EIA~~l-g~s~~tVr~~l~RAr~~ 151 (281)
T TIGR02957 119 LREVFDYPYEEIASIV-GKSEANCRQLVSRARRH 151 (281)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3445667789999999 89999999987655444
No 147
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=24.40 E-value=72 Score=26.11 Aligned_cols=30 Identities=17% Similarity=0.367 Sum_probs=22.4
Q ss_pred HhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 79 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 79 ~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.+|-....||..| |-+...|+++....+++
T Consensus 140 ~~g~s~~eIA~~l-~is~~~V~~~l~ra~~~ 169 (176)
T PRK09638 140 YYGYTYEEIAKML-NIPEGTVKSRVHHGIKQ 169 (176)
T ss_pred hcCCCHHHHHHHH-CCChhHHHHHHHHHHHH
Confidence 3566789999999 77888898886544433
No 148
>PRK10360 DNA-binding transcriptional activator UhpA; Provisional
Probab=24.40 E-value=1.8e+02 Score=23.38 Aligned_cols=45 Identities=22% Similarity=0.258 Sum_probs=34.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 63 GKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 63 ~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
...|+.|-++|.-+.. |-.-..||+.| +-+.+.|++|-+.+++|-
T Consensus 136 ~~Lt~~E~~il~~l~~--g~~~~~Ia~~l-~~s~~tv~~~~~~l~~Kl 180 (196)
T PRK10360 136 DPLTKRERQVAEKLAQ--GMAVKEIAAEL-GLSPKTVHVHRANLMEKL 180 (196)
T ss_pred cCCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 3688888777665554 56789999999 779999999888777663
No 149
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=24.19 E-value=87 Score=27.37 Aligned_cols=30 Identities=17% Similarity=0.084 Sum_probs=23.4
Q ss_pred hCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 80 WGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 80 ~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
.|-....||..| |-+...|++|.+..+++-
T Consensus 164 ~g~s~~EIAe~l-gis~~tVk~~l~Rar~kL 193 (231)
T PRK11922 164 EELSVEETAQAL-GLPEETVKTRLHRARRLL 193 (231)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 345789999999 899999999987555443
No 150
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=23.91 E-value=1.5e+02 Score=24.53 Aligned_cols=31 Identities=16% Similarity=0.052 Sum_probs=22.4
Q ss_pred HHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 78 AKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 78 ~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
.-.|-.-..||..| |-+.+.|++|....+++
T Consensus 140 ~~~g~s~~EIA~~l-~is~~tv~~~l~Ra~~~ 170 (179)
T PRK09415 140 YYEELSIKEIAEVT-GVNENTVKTRLKKAKEL 170 (179)
T ss_pred HhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33456678888888 77888999987655544
No 151
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=23.59 E-value=1.5e+02 Score=25.64 Aligned_cols=44 Identities=14% Similarity=0.139 Sum_probs=35.3
Q ss_pred CCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 64 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
..|+.|-+.|-.+.+ |..-..||..| +-+...|++|-..+++|-
T Consensus 137 ~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~I~~KL 180 (207)
T PRK15411 137 SLSRTESSMLRMWMA--GQGTIQISDQM-NIKAKTVSSHKGNIKRKI 180 (207)
T ss_pred cCCHHHHHHHHHHHc--CCCHHHHHHHc-CCCHHHHHHHHHHHHHHh
Confidence 488888777655443 66789999999 899999999988887764
No 152
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=23.49 E-value=1.2e+02 Score=27.87 Aligned_cols=33 Identities=9% Similarity=0.030 Sum_probs=24.8
Q ss_pred HHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 77 HAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 77 v~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
+.-.|-.-..||..| |.+.+.||+|....+++-
T Consensus 165 ~~~~g~s~~EIA~~l-gis~~tVk~~l~RAr~~L 197 (339)
T PRK08241 165 RDVLGWSAAEVAELL-DTSVAAVNSALQRARATL 197 (339)
T ss_pred HHhhCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 334566789999999 999999999976555443
No 153
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=23.49 E-value=84 Score=20.49 Aligned_cols=32 Identities=19% Similarity=0.358 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHH
Q 025299 68 QEERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 101 (255)
Q Consensus 68 eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~Kn 101 (255)
++-..++.++.+ |.....||+.| |-+.+.|.+
T Consensus 5 ~~R~~ii~l~~~-G~s~~~ia~~l-gvs~~Tv~~ 36 (50)
T PF13384_consen 5 ERRAQIIRLLRE-GWSIREIAKRL-GVSRSTVYR 36 (50)
T ss_dssp -----HHHHHHH-T--HHHHHHHH-TS-HHHHHH
T ss_pred hHHHHHHHHHHC-CCCHHHHHHHH-CcCHHHHHH
Confidence 444567788888 99999999998 666666554
No 154
>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=23.21 E-value=1.9e+02 Score=23.72 Aligned_cols=36 Identities=25% Similarity=0.195 Sum_probs=25.9
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
++.|....|-.-..||..| |-+...|+++....+++
T Consensus 108 v~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 143 (170)
T TIGR02959 108 AIRLTELEGLSQQEIAEKL-GLSLSGAKSRVQRGRKK 143 (170)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344445566789999999 88999999987655444
No 155
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=23.21 E-value=2.6e+02 Score=29.87 Aligned_cols=39 Identities=8% Similarity=0.020 Sum_probs=28.8
Q ss_pred CCCcHHHHHHHHHHHhhcC--CeeecccC-CCCHHHHHHHHH
Q 025299 15 AVWRSALGFYCESFRFEGG--GRQYNRGL-NRTGKSCRLRWV 53 (255)
Q Consensus 15 g~WT~eED~llk~v~~~g~--w~~i~~~l-~Rt~~QCr~RW~ 53 (255)
-.||+.|-.+.+.+.+.+. ...|..++ +.|.+||-+-|.
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYY 661 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHH
Confidence 4699999976665555444 33456777 999999999886
No 156
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=23.12 E-value=1.9e+02 Score=24.85 Aligned_cols=31 Identities=16% Similarity=0.152 Sum_probs=23.7
Q ss_pred HhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 79 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 79 ~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
..|-+-..||..| |-+.+.|+++....+++-
T Consensus 152 ~~g~s~~EIA~~L-gis~~tV~~~l~RArk~L 182 (203)
T PRK09647 152 IEGLSYEEIAATL-GVKLGTVRSRIHRGRQQL 182 (203)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 4466778999999 889999999877555443
No 157
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=22.89 E-value=2e+02 Score=25.61 Aligned_cols=44 Identities=25% Similarity=0.322 Sum_probs=35.2
Q ss_pred CCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 64 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
..|+.|-++|.-+.+ |.....||..| +-+...|+++-..+++|-
T Consensus 133 ~LSpRErEVLrLLAq--GkTnKEIAe~L-~IS~rTVkth~srImkKL 176 (198)
T PRK15201 133 HFSVTERHLLKLIAS--GYHLSETAALL-SLSEEQTKSLRRSIMRKL 176 (198)
T ss_pred CCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 478877766655444 88899999999 899999999888777764
No 158
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=22.60 E-value=1.7e+02 Score=23.55 Aligned_cols=30 Identities=17% Similarity=0.203 Sum_probs=22.1
Q ss_pred HhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 79 KWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 79 ~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
..|-....||..| |=+...|+.|.....++
T Consensus 126 ~~~~s~~eIA~~l-gis~~tv~~~l~Rar~~ 155 (161)
T PRK12541 126 YYGFSYKEIAEMT-GLSLAKVKIELHRGRKE 155 (161)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3455678999988 88888899987654444
No 159
>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=22.12 E-value=2e+02 Score=24.23 Aligned_cols=46 Identities=20% Similarity=0.277 Sum_probs=37.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChhhhhhhC----CCCCHHHHHHHHHHH
Q 025299 61 KRGKMTPQEERLVLELHAKWGNRWSRIARKL----PGRTDNEIKNYWRTH 106 (255)
Q Consensus 61 ~~~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~l----pgRT~nq~KnRw~~l 106 (255)
....-|..|-..|..|+.+||..+...+.-. --.|..||+.+....
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 4457899999999999999999999988743 248999998887643
No 160
>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=22.12 E-value=70 Score=23.52 Aligned_cols=18 Identities=17% Similarity=0.436 Sum_probs=14.8
Q ss_pred HHHHHHHHhCCChhhhhh
Q 025299 72 LVLELHAKWGNRWSRIAR 89 (255)
Q Consensus 72 ~Ll~lv~~~G~~Ws~Ia~ 89 (255)
.|.+|.+.||++|.-|-.
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 567888899999998863
No 161
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=21.87 E-value=92 Score=20.45 Aligned_cols=36 Identities=28% Similarity=0.501 Sum_probs=18.2
Q ss_pred CCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHH
Q 025299 64 KMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKN 101 (255)
Q Consensus 64 ~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~Kn 101 (255)
.+|.+|-..|..++ +-|..=..||+.| ||+...|.+
T Consensus 4 ~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp --------HHHHHH-CS---HHHHHHHT-T--HHHHHH
T ss_pred chhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHH
Confidence 46777777766664 5788889999999 999887765
No 162
>PRK08301 sporulation sigma factor SigE; Reviewed
Probab=21.55 E-value=1.8e+02 Score=25.33 Aligned_cols=28 Identities=14% Similarity=0.222 Sum_probs=22.9
Q ss_pred CCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 81 GNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 81 G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
|-....||..| |-+.+.|+++-+..+++
T Consensus 198 g~s~~EIA~~l-gis~~tVk~~~~rA~~~ 225 (234)
T PRK08301 198 EKTQKEVADML-GISQSYISRLEKRIIKR 225 (234)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 67899999999 99999999987655544
No 163
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=21.53 E-value=1.8e+02 Score=25.70 Aligned_cols=41 Identities=22% Similarity=0.221 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 69 EERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 69 ED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
.++.++.+...-|.....||..| |-|.+.|+++....+++-
T Consensus 205 ~~r~vl~l~~~~~~s~~EIA~~l-gis~~tV~~~~~ra~~~L 245 (251)
T PRK07670 205 KEQLVISLFYKEELTLTEIGQVL-NLSTSRISQIHSKALFKL 245 (251)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 34555555555667889999999 999999999876655543
No 164
>PRK06930 positive control sigma-like factor; Validated
Probab=21.21 E-value=2.2e+02 Score=24.29 Aligned_cols=40 Identities=23% Similarity=0.314 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 70 ERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 70 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
+..++.++...|-.-..||..| |-+.+.|+.+....+++-
T Consensus 119 er~V~~L~~~eg~s~~EIA~~l-giS~~tVk~~l~Ra~~kL 158 (170)
T PRK06930 119 EKEVYLMHRGYGLSYSEIADYL-NIKKSTVQSMIERAEKKI 158 (170)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3444556566788899999999 889999999876555543
No 165
>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=21.13 E-value=1.3e+02 Score=22.72 Aligned_cols=29 Identities=28% Similarity=0.570 Sum_probs=21.5
Q ss_pred HHHHHHHHhCCChhhhhhhCCCCCHHHHHH
Q 025299 72 LVLELHAKWGNRWSRIARKLPGRTDNEIKN 101 (255)
Q Consensus 72 ~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~Kn 101 (255)
.+--+....|..|..+|++| |=|+++|..
T Consensus 4 ~f~~i~~~lG~~Wk~laR~L-Glse~~Id~ 32 (86)
T cd08306 4 AFDVICENVGRDWRKLARKL-GLSETKIES 32 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 34445677899999999999 667766553
No 166
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=20.96 E-value=2.1e+02 Score=23.56 Aligned_cols=35 Identities=17% Similarity=0.116 Sum_probs=24.6
Q ss_pred HHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhh
Q 025299 73 VLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMR 108 (255)
Q Consensus 73 Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llr 108 (255)
++.|....|-.-..||..| |-+...|++|....++
T Consensus 125 i~~l~~~e~~s~~EIA~~l-gis~~tV~~~l~ra~~ 159 (179)
T PRK12543 125 VIILRYLHDYSQEEIAQLL-QIPIGTVKSRIHAALK 159 (179)
T ss_pred HHHHHHHccCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3344444566788999998 8888999988664443
No 167
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=20.95 E-value=2.2e+02 Score=23.89 Aligned_cols=35 Identities=23% Similarity=0.112 Sum_probs=24.8
Q ss_pred HHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhH
Q 025299 74 LELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRK 109 (255)
Q Consensus 74 l~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk 109 (255)
+.|....|-.-..||..| |-+.+.|+.|-...+++
T Consensus 120 ~~L~~~~g~s~~EIA~~L-gis~~tV~~~l~RAr~~ 154 (182)
T PRK12540 120 LILVGASGFSYEDAAAIC-GCAVGTIKSRVNRARSK 154 (182)
T ss_pred hhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444567789999999 88899999886544443
No 168
>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=20.51 E-value=2e+02 Score=22.84 Aligned_cols=28 Identities=25% Similarity=0.299 Sum_probs=18.9
Q ss_pred HhCCChhhhhhhCCCCCHHHHHHHHHHHh
Q 025299 79 KWGNRWSRIARKLPGRTDNEIKNYWRTHM 107 (255)
Q Consensus 79 ~~G~~Ws~Ia~~lpgRT~nq~KnRw~~ll 107 (255)
-.|-+-..||..| |=+.+.|++|.....
T Consensus 125 ~~g~~~~eIA~~l-~is~~tv~~~l~Rar 152 (159)
T TIGR02989 125 QRGVSLTALAEQL-GRTVNAVYKALSRLR 152 (159)
T ss_pred hcCCCHHHHHHHh-CCCHHHHHHHHHHHH
Confidence 3455677888877 777778887755433
No 169
>PRK09483 response regulator; Provisional
Probab=20.06 E-value=1.4e+02 Score=24.52 Aligned_cols=45 Identities=16% Similarity=0.324 Sum_probs=34.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhhhhhhCCCCCHHHHHHHHHHHhhHH
Q 025299 63 GKMTPQEERLVLELHAKWGNRWSRIARKLPGRTDNEIKNYWRTHMRKK 110 (255)
Q Consensus 63 ~~WT~eED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~nq~KnRw~~llrk~ 110 (255)
...|+.|-+.|.-+ .-|..=..||..| +-+.+.|++|-+++++|-
T Consensus 147 ~~Lt~rE~~vl~~~--~~G~~~~~Ia~~l-~is~~TV~~~~~~i~~Kl 191 (217)
T PRK09483 147 ASLSERELQIMLMI--TKGQKVNEISEQL-NLSPKTVNSYRYRMFSKL 191 (217)
T ss_pred cccCHHHHHHHHHH--HCCCCHHHHHHHh-CCCHHHHHHHHHHHHHHc
Confidence 35899998887543 3566677999999 679999999888777764
Done!