Query 024849
Match_columns 261
No_of_seqs 280 out of 1394
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 07:51:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024849.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024849hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03091 hypothetical protein; 100.0 9.3E-40 2E-44 307.2 12.8 134 1-134 1-134 (459)
2 PLN03212 Transcription repress 100.0 1.3E-39 2.9E-44 287.5 10.7 131 2-132 13-143 (249)
3 KOG0048 Transcription factor, 100.0 4.9E-34 1.1E-38 254.9 14.7 119 10-128 5-123 (238)
4 KOG0049 Transcription factor, 99.8 3E-20 6.4E-25 181.0 7.4 126 8-133 247-427 (939)
5 KOG0049 Transcription factor, 99.8 2.5E-20 5.5E-25 181.5 5.9 111 1-112 347-458 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.7 3.4E-17 7.3E-22 116.0 3.2 60 17-78 1-60 (60)
7 KOG0050 mRNA splicing protein 99.6 1.9E-16 4.2E-21 151.5 2.2 106 12-119 5-110 (617)
8 COG5147 REB1 Myb superfamily p 99.6 1.3E-15 2.7E-20 148.1 5.9 107 10-117 16-122 (512)
9 KOG0051 RNA polymerase I termi 99.5 2E-14 4.4E-19 141.1 5.5 103 13-118 383-513 (607)
10 PF13921 Myb_DNA-bind_6: Myb-l 99.5 1.4E-14 2.9E-19 102.5 2.2 58 70-127 1-58 (60)
11 PLN03212 Transcription repress 99.5 2.7E-14 5.9E-19 126.9 4.2 73 62-134 20-94 (249)
12 PF00249 Myb_DNA-binding: Myb- 99.5 8.6E-14 1.9E-18 94.5 4.8 46 67-112 1-48 (48)
13 PF00249 Myb_DNA-binding: Myb- 99.4 4.1E-14 8.9E-19 96.1 0.5 48 14-61 1-48 (48)
14 PLN03091 hypothetical protein; 99.4 2.6E-13 5.7E-18 128.8 3.4 70 62-131 9-80 (459)
15 KOG0048 Transcription factor, 99.3 3.6E-13 7.8E-18 120.5 3.1 71 63-133 5-77 (238)
16 smart00717 SANT SANT SWI3, AD 99.3 9.5E-12 2.1E-16 82.6 5.4 47 67-113 1-48 (49)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.2 7.3E-11 1.6E-15 77.1 5.4 43 69-111 1-44 (45)
18 smart00717 SANT SANT SWI3, AD 99.0 8.2E-11 1.8E-15 78.0 1.9 48 14-62 1-48 (49)
19 KOG0051 RNA polymerase I termi 99.0 1.7E-10 3.8E-15 113.7 3.8 118 13-134 307-452 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.9 5.5E-10 1.2E-14 72.9 1.6 44 16-60 1-44 (45)
21 COG5147 REB1 Myb superfamily p 98.3 3.6E-08 7.8E-13 96.5 -2.7 98 13-113 290-397 (512)
22 KOG0050 mRNA splicing protein 98.3 4E-07 8.6E-12 88.2 2.9 76 65-140 5-81 (617)
23 TIGR01557 myb_SHAQKYF myb-like 97.9 6.6E-06 1.4E-10 58.1 2.0 49 13-61 2-54 (57)
24 TIGR01557 myb_SHAQKYF myb-like 97.8 7.1E-05 1.5E-09 52.8 5.5 46 67-112 3-54 (57)
25 KOG0457 Histone acetyltransfer 97.7 8.8E-05 1.9E-09 71.0 6.2 63 64-130 69-132 (438)
26 TIGR02894 DNA_bind_RsfA transc 97.6 7.7E-05 1.7E-09 62.9 4.5 52 66-118 3-61 (161)
27 KOG0457 Histone acetyltransfer 97.5 3.7E-05 8.1E-10 73.5 1.2 49 12-61 70-118 (438)
28 PF08914 Myb_DNA-bind_2: Rap1 97.3 0.00035 7.6E-09 50.6 3.7 50 67-116 2-61 (65)
29 PF13325 MCRS_N: N-terminal re 97.2 0.00088 1.9E-08 58.6 6.1 99 16-116 1-130 (199)
30 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.0005 1.1E-08 51.6 2.9 48 68-115 2-67 (90)
31 KOG1279 Chromatin remodeling f 97.0 0.00093 2E-08 65.9 5.2 46 66-111 252-297 (506)
32 COG5259 RSC8 RSC chromatin rem 96.9 0.0009 2E-08 64.7 4.4 45 67-111 279-323 (531)
33 COG5259 RSC8 RSC chromatin rem 96.9 0.00037 8E-09 67.4 1.1 46 13-60 278-323 (531)
34 PRK13923 putative spore coat p 96.7 0.0017 3.7E-08 55.4 4.1 51 65-116 3-60 (170)
35 KOG1279 Chromatin remodeling f 96.7 0.00073 1.6E-08 66.7 1.7 48 11-60 250-297 (506)
36 PF08914 Myb_DNA-bind_2: Rap1 96.6 0.0006 1.3E-08 49.4 0.1 52 14-65 2-61 (65)
37 PF13837 Myb_DNA-bind_4: Myb/S 96.0 0.0015 3.3E-08 48.9 -0.2 47 14-60 1-63 (90)
38 TIGR02894 DNA_bind_RsfA transc 95.8 0.0026 5.5E-08 53.8 0.2 49 12-62 2-56 (161)
39 PF13873 Myb_DNA-bind_5: Myb/S 95.7 0.021 4.6E-07 41.9 4.8 51 67-117 2-74 (78)
40 COG5114 Histone acetyltransfer 95.6 0.013 2.7E-07 54.6 3.8 45 68-112 64-109 (432)
41 PLN03142 Probable chromatin-re 94.9 0.047 1E-06 58.5 6.2 103 15-118 825-990 (1033)
42 COG5114 Histone acetyltransfer 94.4 0.01 2.2E-07 55.2 -0.2 48 14-62 63-110 (432)
43 PF13873 Myb_DNA-bind_5: Myb/S 94.4 0.019 4.2E-07 42.1 1.3 49 13-61 1-69 (78)
44 PRK13923 putative spore coat p 93.6 0.014 3.1E-07 49.9 -0.8 49 12-62 3-57 (170)
45 PF09111 SLIDE: SLIDE; InterP 93.0 0.12 2.6E-06 41.8 3.6 53 64-116 46-114 (118)
46 KOG4282 Transcription factor G 92.9 0.19 4.1E-06 47.2 5.4 50 67-116 54-117 (345)
47 COG5118 BDP1 Transcription ini 92.8 0.17 3.6E-06 48.3 4.8 47 68-114 366-412 (507)
48 KOG2656 DNA methyltransferase 92.4 0.15 3.3E-06 48.7 4.0 54 67-120 130-189 (445)
49 PF12776 Myb_DNA-bind_3: Myb/S 92.1 0.39 8.4E-06 36.2 5.3 46 69-114 1-64 (96)
50 PF08281 Sigma70_r4_2: Sigma-7 89.1 0.99 2.2E-05 30.4 4.7 42 72-114 12-53 (54)
51 KOG1194 Predicted DNA-binding 87.4 1.3 2.8E-05 43.3 5.9 48 67-114 187-234 (534)
52 PF09111 SLIDE: SLIDE; InterP 83.3 0.94 2E-05 36.5 2.4 34 11-44 46-82 (118)
53 COG5118 BDP1 Transcription ini 82.2 0.68 1.5E-05 44.3 1.4 64 13-78 364-435 (507)
54 KOG4468 Polycomb-group transcr 80.7 2.9 6.3E-05 42.3 5.2 53 67-119 88-150 (782)
55 KOG4167 Predicted DNA-binding 79.2 11 0.00024 39.1 8.8 44 68-111 620-663 (907)
56 PF13404 HTH_AsnC-type: AsnC-t 77.6 4.4 9.5E-05 26.5 3.7 38 73-111 3-41 (42)
57 KOG4282 Transcription factor G 77.1 1.1 2.3E-05 42.2 0.9 46 15-60 55-112 (345)
58 PF04545 Sigma70_r4: Sigma-70, 77.0 5.9 0.00013 26.2 4.4 41 73-114 7-47 (50)
59 PRK11179 DNA-binding transcrip 75.0 4.2 9.2E-05 33.6 4.0 45 73-118 9-54 (153)
60 PF11626 Rap1_C: TRF2-interact 72.8 3.6 7.7E-05 31.1 2.7 23 11-33 44-74 (87)
61 PF13325 MCRS_N: N-terminal re 70.7 9.2 0.0002 33.6 5.1 45 69-114 1-48 (199)
62 PRK11169 leucine-responsive tr 69.8 5.1 0.00011 33.5 3.3 46 72-118 13-59 (164)
63 KOG4167 Predicted DNA-binding 67.7 2.4 5.2E-05 43.8 1.0 44 14-59 619-662 (907)
64 smart00595 MADF subfamily of S 67.7 6.4 0.00014 29.1 3.1 25 89-114 30-54 (89)
65 KOG2009 Transcription initiati 67.1 5.5 0.00012 40.3 3.4 50 65-114 407-456 (584)
66 PF01388 ARID: ARID/BRIGHT DNA 64.7 15 0.00032 27.5 4.6 39 76-114 39-90 (92)
67 TIGR02985 Sig70_bacteroi1 RNA 64.5 14 0.0003 29.4 4.8 30 84-114 127-156 (161)
68 PF11626 Rap1_C: TRF2-interact 64.5 6.7 0.00015 29.6 2.7 17 63-79 43-59 (87)
69 PF12776 Myb_DNA-bind_3: Myb/S 64.5 3.4 7.5E-05 30.9 1.1 44 16-59 1-60 (96)
70 PF11035 SnAPC_2_like: Small n 64.0 27 0.00059 32.9 7.0 46 66-111 20-69 (344)
71 PF07750 GcrA: GcrA cell cycle 63.3 7.9 0.00017 32.8 3.2 41 69-110 2-42 (162)
72 smart00501 BRIGHT BRIGHT, ARID 63.0 16 0.00034 27.6 4.5 40 76-115 35-87 (93)
73 PF13404 HTH_AsnC-type: AsnC-t 55.9 3.5 7.7E-05 26.9 -0.1 38 20-59 3-40 (42)
74 cd08319 Death_RAIDD Death doma 54.6 16 0.00035 27.5 3.3 29 75-104 2-30 (83)
75 KOG4329 DNA-binding protein [G 51.3 28 0.00061 33.5 4.9 44 68-111 278-322 (445)
76 TIGR02937 sigma70-ECF RNA poly 50.1 37 0.0008 26.1 4.9 33 81-114 121-153 (158)
77 cd08803 Death_ank3 Death domai 49.6 24 0.00053 26.6 3.5 29 75-104 4-32 (84)
78 smart00344 HTH_ASNC helix_turn 48.6 31 0.00066 26.2 4.1 45 73-118 3-48 (108)
79 PF10545 MADF_DNA_bdg: Alcohol 47.5 21 0.00045 25.5 2.8 26 89-114 29-55 (85)
80 PF04504 DUF573: Protein of un 47.3 31 0.00068 26.6 3.9 48 68-115 5-65 (98)
81 PRK11179 DNA-binding transcrip 47.2 6.5 0.00014 32.5 0.1 45 19-65 8-52 (153)
82 PRK09652 RNA polymerase sigma 46.2 44 0.00096 27.1 5.0 30 84-114 142-171 (182)
83 PRK12523 RNA polymerase sigma 45.7 55 0.0012 26.9 5.5 34 84-118 133-166 (172)
84 cd08317 Death_ank Death domain 45.5 21 0.00046 26.5 2.7 29 75-104 4-32 (84)
85 PF09420 Nop16: Ribosome bioge 45.3 59 0.0013 27.3 5.6 46 66-111 113-162 (164)
86 PRK09645 RNA polymerase sigma 44.7 57 0.0012 26.7 5.4 29 85-114 133-161 (173)
87 PRK04217 hypothetical protein; 44.0 77 0.0017 25.2 5.8 46 68-115 41-86 (110)
88 PRK11169 leucine-responsive tr 43.9 6.2 0.00013 33.0 -0.5 45 19-65 13-57 (164)
89 PRK12529 RNA polymerase sigma 42.2 64 0.0014 26.8 5.4 33 85-118 142-174 (178)
90 PRK11924 RNA polymerase sigma 42.0 46 0.00099 26.9 4.4 29 85-114 140-168 (179)
91 COG1522 Lrp Transcriptional re 41.5 37 0.0008 27.3 3.8 45 73-118 8-53 (154)
92 PF07638 Sigma70_ECF: ECF sigm 41.1 59 0.0013 27.5 5.1 36 76-112 141-176 (185)
93 PRK09643 RNA polymerase sigma 40.7 51 0.0011 27.8 4.7 29 85-114 149-177 (192)
94 KOG0384 Chromodomain-helicase 40.7 32 0.00069 38.0 3.9 76 13-95 1132-1208(1373)
95 KOG2656 DNA methyltransferase 40.4 17 0.00036 35.2 1.7 49 11-60 127-180 (445)
96 PRK12512 RNA polymerase sigma 39.6 76 0.0016 26.2 5.5 32 85-117 146-177 (184)
97 cd06171 Sigma70_r4 Sigma70, re 39.2 77 0.0017 19.7 4.4 40 70-111 11-50 (55)
98 PRK09641 RNA polymerase sigma 38.9 55 0.0012 26.9 4.5 29 85-114 151-179 (187)
99 PRK09047 RNA polymerase factor 38.7 65 0.0014 25.8 4.8 29 85-114 121-149 (161)
100 PRK12532 RNA polymerase sigma 38.5 78 0.0017 26.5 5.4 28 85-113 151-178 (195)
101 cd08318 Death_NMPP84 Death dom 38.3 39 0.00085 25.3 3.1 32 69-104 4-35 (86)
102 KOG1194 Predicted DNA-binding 37.4 18 0.00038 35.8 1.3 47 11-59 184-230 (534)
103 TIGR02939 RpoE_Sigma70 RNA pol 37.3 47 0.001 27.4 3.9 29 86-115 154-182 (190)
104 cd08804 Death_ank2 Death domai 37.0 41 0.00089 25.2 3.1 31 75-106 4-34 (84)
105 PF02954 HTH_8: Bacterial regu 36.5 64 0.0014 20.6 3.6 35 73-108 5-39 (42)
106 TIGR02954 Sig70_famx3 RNA poly 35.9 66 0.0014 26.2 4.5 30 85-115 134-163 (169)
107 PRK09648 RNA polymerase sigma 35.8 71 0.0015 26.6 4.7 30 85-115 154-183 (189)
108 PRK09637 RNA polymerase sigma 35.7 68 0.0015 26.9 4.6 29 85-114 121-149 (181)
109 PRK12531 RNA polymerase sigma 35.6 72 0.0016 26.8 4.8 30 85-115 156-185 (194)
110 TIGR02943 Sig70_famx1 RNA poly 35.5 74 0.0016 26.7 4.8 29 85-114 146-174 (188)
111 PRK09642 RNA polymerase sigma 34.9 79 0.0017 25.4 4.8 29 85-114 121-149 (160)
112 KOG4468 Polycomb-group transcr 33.6 39 0.00085 34.6 3.1 46 14-60 88-142 (782)
113 PRK11923 algU RNA polymerase s 33.5 71 0.0015 26.6 4.4 28 86-114 154-181 (193)
114 COG2197 CitB Response regulato 33.4 82 0.0018 27.3 4.8 45 68-115 147-191 (211)
115 PRK12530 RNA polymerase sigma 33.3 80 0.0017 26.5 4.7 28 86-114 150-177 (189)
116 cd08777 Death_RIP1 Death Domai 33.3 45 0.00098 25.1 2.8 30 76-106 3-32 (86)
117 TIGR02948 SigW_bacill RNA poly 33.1 71 0.0015 26.3 4.3 28 86-114 152-179 (187)
118 PRK12524 RNA polymerase sigma 32.0 86 0.0019 26.4 4.7 29 85-114 151-179 (196)
119 cd08311 Death_p75NR Death doma 31.9 48 0.001 24.6 2.6 33 72-106 2-34 (77)
120 PRK12515 RNA polymerase sigma 31.6 92 0.002 26.0 4.8 29 85-114 146-174 (189)
121 PRK12527 RNA polymerase sigma 30.9 1E+02 0.0022 24.7 4.8 28 86-114 121-148 (159)
122 PRK00118 putative DNA-binding 30.7 1.1E+02 0.0023 24.1 4.6 41 72-113 19-59 (104)
123 TIGR02952 Sig70_famx2 RNA poly 30.7 97 0.0021 25.0 4.6 28 86-114 138-165 (170)
124 PRK06759 RNA polymerase factor 30.5 1E+02 0.0022 24.4 4.7 28 86-114 122-149 (154)
125 smart00005 DEATH DEATH domain, 30.5 57 0.0012 23.7 2.9 29 75-104 5-34 (88)
126 PRK12528 RNA polymerase sigma 29.4 1.1E+02 0.0024 24.6 4.8 29 85-114 128-156 (161)
127 PF00196 GerE: Bacterial regul 29.3 91 0.002 21.0 3.6 43 69-114 3-45 (58)
128 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 29.2 80 0.0017 21.6 3.2 35 70-106 5-39 (50)
129 PRK13722 lytic transglycosylas 29.2 1.2E+02 0.0026 25.9 5.0 44 77-120 99-146 (169)
130 PRK09649 RNA polymerase sigma 28.9 98 0.0021 25.9 4.5 29 86-115 146-174 (185)
131 PRK09651 RNA polymerase sigma 28.9 88 0.0019 25.7 4.1 28 86-114 135-162 (172)
132 TIGR02999 Sig-70_X6 RNA polyme 28.8 1.1E+02 0.0024 25.1 4.8 28 86-114 150-177 (183)
133 cd08805 Death_ank1 Death domai 28.8 65 0.0014 24.3 3.0 22 75-96 4-25 (84)
134 PRK12546 RNA polymerase sigma 28.7 1.3E+02 0.0027 25.5 5.1 34 84-118 127-160 (188)
135 PRK12542 RNA polymerase sigma 28.4 1.1E+02 0.0024 25.4 4.7 30 85-115 137-166 (185)
136 PRK12514 RNA polymerase sigma 28.4 1.1E+02 0.0023 25.2 4.6 28 86-114 145-172 (179)
137 PRK12536 RNA polymerase sigma 28.3 1.3E+02 0.0029 24.8 5.2 30 85-115 144-173 (181)
138 KOG3841 TEF-1 and related tran 27.7 2.4E+02 0.0053 27.4 7.1 54 65-118 74-148 (455)
139 KOG2009 Transcription initiati 27.6 43 0.00094 34.1 2.3 48 10-59 405-452 (584)
140 PRK05602 RNA polymerase sigma 27.0 1.3E+02 0.0028 24.9 4.9 29 85-114 143-171 (186)
141 PRK12516 RNA polymerase sigma 27.0 1.2E+02 0.0026 25.5 4.7 29 85-114 131-159 (187)
142 PF09197 Rap1-DNA-bind: Rap1, 27.0 1.6E+02 0.0035 23.3 5.0 47 69-115 1-78 (105)
143 PRK12547 RNA polymerase sigma 27.0 1.5E+02 0.0033 24.0 5.2 30 85-115 127-156 (164)
144 cd08779 Death_PIDD Death Domai 26.6 70 0.0015 24.0 2.8 21 76-96 3-23 (86)
145 PRK15411 rcsA colanic acid cap 26.6 1.3E+02 0.0029 25.8 5.0 44 69-115 137-180 (207)
146 PRK12545 RNA polymerase sigma 26.5 1.2E+02 0.0026 25.7 4.7 27 86-113 155-181 (201)
147 TIGR02983 SigE-fam_strep RNA p 25.9 1.3E+02 0.0027 24.2 4.5 36 79-115 119-154 (162)
148 PF13936 HTH_38: Helix-turn-he 25.6 69 0.0015 20.8 2.3 36 69-106 4-39 (44)
149 PRK12520 RNA polymerase sigma 25.3 1.4E+02 0.0029 24.9 4.7 28 86-114 147-174 (191)
150 PRK13919 putative RNA polymera 25.1 1.4E+02 0.003 24.6 4.7 29 86-115 151-179 (186)
151 TIGR02960 SigX5 RNA polymerase 24.9 1.4E+02 0.003 27.1 5.1 30 85-115 157-186 (324)
152 PF09905 DUF2132: Uncharacteri 24.8 75 0.0016 22.9 2.5 32 75-108 12-46 (64)
153 PRK01905 DNA-binding protein F 24.4 1.6E+02 0.0035 21.4 4.4 37 71-108 35-71 (77)
154 TIGR02950 SigM_subfam RNA poly 24.3 49 0.0011 26.3 1.7 28 86-114 121-148 (154)
155 PRK15328 invasion protein IagB 24.2 1.2E+02 0.0025 25.7 4.0 43 77-119 98-142 (160)
156 PRK15201 fimbriae regulatory p 24.2 1.9E+02 0.004 25.4 5.2 44 68-114 132-175 (198)
157 PF10440 WIYLD: Ubiquitin-bind 24.0 57 0.0012 23.6 1.8 19 76-94 30-48 (65)
158 PRK12537 RNA polymerase sigma 23.7 1.8E+02 0.0039 24.0 5.2 29 86-115 149-177 (182)
159 PRK06811 RNA polymerase factor 23.7 1.8E+02 0.0038 24.3 5.1 28 86-114 147-174 (189)
160 PRK09646 RNA polymerase sigma 23.7 1.9E+02 0.0042 24.2 5.4 29 86-115 158-186 (194)
161 TIGR02984 Sig-70_plancto1 RNA 23.1 1.6E+02 0.0034 24.2 4.6 29 85-114 155-183 (189)
162 PRK00430 fis global DNA-bindin 22.9 1.8E+02 0.0039 22.3 4.5 35 73-108 55-89 (95)
163 PRK12519 RNA polymerase sigma 22.2 1.3E+02 0.0028 25.0 4.0 28 86-114 157-184 (194)
164 KOG3554 Histone deacetylase co 22.1 96 0.0021 31.0 3.4 41 69-109 287-328 (693)
165 PRK11922 RNA polymerase sigma 22.0 85 0.0018 27.4 2.9 28 86-114 165-192 (231)
166 PRK09638 RNA polymerase sigma 21.5 85 0.0018 25.6 2.7 30 85-115 141-170 (176)
167 PF11035 SnAPC_2_like: Small n 21.2 1.9E+02 0.0042 27.4 5.1 86 14-113 21-127 (344)
168 PRK09415 RNA polymerase factor 21.1 1.6E+02 0.0035 24.3 4.3 28 86-114 143-170 (179)
169 PRK09639 RNA polymerase sigma 20.8 1.9E+02 0.004 23.2 4.6 29 85-114 126-154 (166)
170 PRK10100 DNA-binding transcrip 20.7 1.9E+02 0.0041 25.2 4.8 44 69-115 155-198 (216)
171 PF13384 HTH_23: Homeodomain-l 20.7 95 0.0021 20.0 2.3 30 75-106 7-36 (50)
172 PRK09636 RNA polymerase sigma 20.6 2.1E+02 0.0046 25.8 5.3 30 85-115 130-159 (293)
173 PRK06986 fliA flagellar biosyn 20.1 1.7E+02 0.0037 25.5 4.5 30 85-115 199-228 (236)
174 cd01670 Death Death Domain: a 20.0 1E+02 0.0022 21.8 2.5 19 78-96 2-20 (79)
No 1
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=9.3e-40 Score=307.18 Aligned_cols=134 Identities=64% Similarity=1.185 Sum_probs=129.6
Q ss_pred CCCCccccCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCcCCCCCHHHHHHHHH
Q 024849 1 MGRQPCCDKLGVKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDLKRGLLNEAEEQLVID 80 (261)
Q Consensus 1 mgr~~~~~kp~ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l~k~~WT~EED~~L~~ 80 (261)
|||++||.|.+++|++||+|||++|+++|.+||..+|..||+.++++|+++|||+||.+||+|.+++++||+|||.+|++
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 99999999999999999999999999999999999999999998779999999999999999999999999999999999
Q ss_pred HHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCcchhhhcc
Q 024849 81 LHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKKKLIKMGIDPVTHEPLQQQAN 134 (261)
Q Consensus 81 lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k~~~~~~~~~~l~~~~~ 134 (261)
++++||++|++||+.|+|||+++||+||+.+++++++..++.+.++.++.+...
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~kpl~e~E~ 134 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTHKPLSEVEN 134 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCCCCcccccc
Confidence 999999999999999999999999999999999999999999999998876543
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=1.3e-39 Score=287.46 Aligned_cols=131 Identities=62% Similarity=1.192 Sum_probs=125.1
Q ss_pred CCCccccCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCcCCCCCHHHHHHHHHH
Q 024849 2 GRQPCCDKLGVKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDLKRGLLNEAEEQLVIDL 81 (261)
Q Consensus 2 gr~~~~~kp~ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l~k~~WT~EED~~L~~l 81 (261)
.|.|||+|++++|++||+|||++|+++|++||..+|..||+.++++|+++|||+||.+||+|.+++++||.|||++|+++
T Consensus 13 ~~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel 92 (249)
T PLN03212 13 KTTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRL 92 (249)
T ss_pred CCCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHH
Confidence 37899999999999999999999999999999889999999987799999999999999999999999999999999999
Q ss_pred HHHhCCChhHHhccCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCcchhhh
Q 024849 82 HARLGNRWSKIAARLPGRTDNEIKNHWNTHIKKKLIKMGIDPVTHEPLQQQ 132 (261)
Q Consensus 82 v~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k~~~~~~~~~~l~~~ 132 (261)
+.+||++|+.||+.|||||+++|||||+.++++++.+.++.+.++.++...
T Consensus 93 ~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~~kp~~~~ 143 (249)
T PLN03212 93 HRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQTHKPLDAN 143 (249)
T ss_pred HHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCCCCCCCcc
Confidence 999999999999999999999999999999999999999999888876544
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=4.9e-34 Score=254.86 Aligned_cols=119 Identities=69% Similarity=1.180 Sum_probs=111.8
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCcCCCCCHHHHHHHHHHHHHhCCCh
Q 024849 10 LGVKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDLKRGLLNEAEEQLVIDLHARLGNRW 89 (261)
Q Consensus 10 p~ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l~k~~WT~EED~~L~~lv~~~G~~W 89 (261)
+.+.||+||+|||++|+++|++||.++|..||+.+|++|++++||.||.|||+|.+++|.||+|||.+|+++++.+|++|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 44558999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHhccCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCcc
Q 024849 90 SKIAARLPGRTDNEIKNHWNTHIKKKLIKMGIDPVTHEP 128 (261)
Q Consensus 90 ~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k~~~~~~~~~~ 128 (261)
++||++|||||++.|||+|+..+|+++.+....+....+
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~~~~ 123 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPSTHRP 123 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCcccc
Confidence 999999999999999999999999999998866555333
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.81 E-value=3e-20 Score=181.03 Aligned_cols=126 Identities=21% Similarity=0.386 Sum_probs=115.4
Q ss_pred cCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccc--------------------------------
Q 024849 8 DKLGVKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRL-------------------------------- 55 (261)
Q Consensus 8 ~kp~ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~-------------------------------- 55 (261)
..|.++|..|++|||++|+.+...++..+|.+||..+|++|+..||..
T Consensus 247 l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~~n 326 (939)
T KOG0049|consen 247 LNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITSIN 326 (939)
T ss_pred cCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhhcc
Confidence 568899999999999999999999988899999998887788888876
Q ss_pred ----------------------ccccccCCCCcCCCCCHHHHHHHHHHHHHhCC-ChhHHhccCCCCCHHHHHHHHHHHH
Q 024849 56 ----------------------RWTNYLRPDLKRGLLNEAEEQLVIDLHARLGN-RWSKIAARLPGRTDNEIKNHWNTHI 112 (261)
Q Consensus 56 ----------------------Rw~~~L~p~l~k~~WT~EED~~L~~lv~~~G~-~W~~IA~~l~gRT~~q~k~Rw~~~l 112 (261)
||...|+|.+++|+||.+||.+|+.+|.+||. .|.+|-..+|||++.|||.||.+.|
T Consensus 327 ShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL 406 (939)
T KOG0049|consen 327 SHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVL 406 (939)
T ss_pred CccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHH
Confidence 88888999999999999999999999999995 5999999999999999999999999
Q ss_pred HHHHhhCCCCCCCCcchhhhc
Q 024849 113 KKKLIKMGIDPVTHEPLQQQA 133 (261)
Q Consensus 113 k~~~~k~~~~~~~~~~l~~~~ 133 (261)
....++..|+..+++-+...+
T Consensus 407 ~~s~K~~rW~l~edeqL~~~V 427 (939)
T KOG0049|consen 407 NRSAKVERWTLVEDEQLLYAV 427 (939)
T ss_pred HHhhccCceeecchHHHHHHH
Confidence 999999999999998766443
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.80 E-value=2.5e-20 Score=181.49 Aligned_cols=111 Identities=27% Similarity=0.387 Sum_probs=102.2
Q ss_pred CCCCccccCCCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCcCCCCCHHHHHHHHH
Q 024849 1 MGRQPCCDKLGVKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDLKRGLLNEAEEQLVID 80 (261)
Q Consensus 1 mgr~~~~~kp~ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l~k~~WT~EED~~L~~ 80 (261)
+||......|++++|+||.+||.+|..+|.+||.++|.+|-+.++ +|+..|||+||.|.|+...+++.||-.||+.|+.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 578888999999999999999999999999999999999999998 9999999999999999999999999999999999
Q ss_pred HHHHhC-CChhHHhccCCCCCHHHHHHHHHHHH
Q 024849 81 LHARLG-NRWSKIAARLPGRTDNEIKNHWNTHI 112 (261)
Q Consensus 81 lv~~~G-~~W~~IA~~l~gRT~~q~k~Rw~~~l 112 (261)
+|.+|| ++|.+||..||.||..|.+.|=...+
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~ 458 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLI 458 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHHHHHH
Confidence 999999 78999999999999965544433333
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.66 E-value=3.4e-17 Score=115.97 Aligned_cols=60 Identities=37% Similarity=0.779 Sum_probs=55.1
Q ss_pred CCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCcCCCCCHHHHHHH
Q 024849 17 WTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDLKRGLLNEAEEQLV 78 (261)
Q Consensus 17 WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l~k~~WT~EED~~L 78 (261)
||+|||++|+.+|..||. +|..||+.|| .|++.||+.||.++|.|.+++++||.+||.+|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999995 9999999997 89999999999999999999999999999987
No 7
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.60 E-value=1.9e-16 Score=151.46 Aligned_cols=106 Identities=24% Similarity=0.534 Sum_probs=101.0
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCcCCCCCHHHHHHHHHHHHHhCCChhH
Q 024849 12 VKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDLKRGLLNEAEEQLVIDLHARLGNRWSK 91 (261)
Q Consensus 12 ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l~k~~WT~EED~~L~~lv~~~G~~W~~ 91 (261)
++.|.|+.-||+.|+.+|.+||...|.+|++.+. ..+++||+.||..+|+|.+++..|+.|||.+|+.+...+...|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 5789999999999999999999999999999998 899999999999999999999999999999999999999999999
Q ss_pred HhccCCCCCHHHHHHHHHHHHHHHHhhC
Q 024849 92 IAARLPGRTDNEIKNHWNTHIKKKLIKM 119 (261)
Q Consensus 92 IA~~l~gRT~~q~k~Rw~~~lk~~~~k~ 119 (261)
||..| |||.+||-.||++++-......
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~~ 110 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSYH 110 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhhh
Confidence 99999 9999999999999998766553
No 8
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.58 E-value=1.3e-15 Score=148.13 Aligned_cols=107 Identities=30% Similarity=0.496 Sum_probs=101.7
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCcCCCCCHHHHHHHHHHHHHhCCCh
Q 024849 10 LGVKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDLKRGLLNEAEEQLVIDLHARLGNRW 89 (261)
Q Consensus 10 p~ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l~k~~WT~EED~~L~~lv~~~G~~W 89 (261)
..++.|.|+..||+.|..+|+.||..+|.+||..+. .|+++||+.||.++++|.+++..|+.+||..|+.+..++|..|
T Consensus 16 ~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~w 94 (512)
T COG5147 16 TKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94 (512)
T ss_pred ceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchh
Confidence 356789999999999999999999999999999998 6999999999999999999999999999999999999999999
Q ss_pred hHHhccCCCCCHHHHHHHHHHHHHHHHh
Q 024849 90 SKIAARLPGRTDNEIKNHWNTHIKKKLI 117 (261)
Q Consensus 90 ~~IA~~l~gRT~~q~k~Rw~~~lk~~~~ 117 (261)
+.||..++|||..+|.+||...+.....
T Consensus 95 stia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 95 STIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhccccCccchHHHHHHHHHHhhhhhc
Confidence 9999999999999999999988877655
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.49 E-value=2e-14 Score=141.14 Aligned_cols=103 Identities=24% Similarity=0.558 Sum_probs=92.9
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCC--CcCCCCCHHHHHHHHHHHH-------
Q 024849 13 KKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPD--LKRGLLNEAEEQLVIDLHA------- 83 (261)
Q Consensus 13 kkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~--l~k~~WT~EED~~L~~lv~------- 83 (261)
.+|+||+||++.|..+|..+|. +|..|+++|| |.+..||+||++|..++ .+++.||.||.++|+++|+
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 7999999999999999999996 9999999998 99999999999999987 4899999999999999995
Q ss_pred Hh-------------------CCChhHHhccCCCCCHHHHHHHHHHHHHHHHhh
Q 024849 84 RL-------------------GNRWSKIAARLPGRTDNEIKNHWNTHIKKKLIK 118 (261)
Q Consensus 84 ~~-------------------G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k 118 (261)
++ +..|+.|++.+..|+..|||.+|+.++......
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n 513 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFN 513 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhh
Confidence 33 235999999999999999999999888765443
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=99.47 E-value=1.4e-14 Score=102.54 Aligned_cols=58 Identities=28% Similarity=0.589 Sum_probs=50.1
Q ss_pred CCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCc
Q 024849 70 LNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKKKLIKMGIDPVTHE 127 (261)
Q Consensus 70 WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k~~~~~~~~~ 127 (261)
||+|||.+|+++|.+||++|.+||+.|+.||..+|++||+..|++.+.+.+|++.+++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~ 58 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQ 58 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHh
Confidence 9999999999999999999999999996699999999999988888888888876553
No 11
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.47 E-value=2.7e-14 Score=126.88 Aligned_cols=73 Identities=16% Similarity=0.377 Sum_probs=67.1
Q ss_pred CCCCcCCCCCHHHHHHHHHHHHHhC-CChhHHhccC-CCCCHHHHHHHHHHHHHHHHhhCCCCCCCCcchhhhcc
Q 024849 62 RPDLKRGLLNEAEEQLVIDLHARLG-NRWSKIAARL-PGRTDNEIKNHWNTHIKKKLIKMGIDPVTHEPLQQQAN 134 (261)
Q Consensus 62 ~p~l~k~~WT~EED~~L~~lv~~~G-~~W~~IA~~l-~gRT~~q~k~Rw~~~lk~~~~k~~~~~~~~~~l~~~~~ 134 (261)
++.+++++||+|||++|+++|++|| .+|..||+.+ ++||..|||.||.++|++.+++.+|+.++++.|.+...
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~ 94 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHR 94 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHH
Confidence 3578999999999999999999999 5799999998 69999999999999999999999999999998776543
No 12
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.45 E-value=8.6e-14 Score=94.54 Aligned_cols=46 Identities=30% Similarity=0.694 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC-hhHHhccCC-CCCHHHHHHHHHHHH
Q 024849 67 RGLLNEAEEQLVIDLHARLGNR-WSKIAARLP-GRTDNEIKNHWNTHI 112 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~G~~-W~~IA~~l~-gRT~~q~k~Rw~~~l 112 (261)
+++||+|||.+|+++|.+||.+ |..||..|| |||..||++||++++
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 5789999999999999999988 999999999 999999999998864
No 13
>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=99.40 E-value=4.1e-14 Score=96.12 Aligned_cols=48 Identities=38% Similarity=0.733 Sum_probs=43.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccccccccc
Q 024849 14 KGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYL 61 (261)
Q Consensus 14 kg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L 61 (261)
|++||+|||++|+++|.+||..+|..||..|+.+||+.||+.||.++|
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 689999999999999999998669999999988999999999999875
No 14
>PLN03091 hypothetical protein; Provisional
Probab=99.36 E-value=2.6e-13 Score=128.83 Aligned_cols=70 Identities=14% Similarity=0.355 Sum_probs=64.1
Q ss_pred CCCCcCCCCCHHHHHHHHHHHHHhC-CChhHHhccC-CCCCHHHHHHHHHHHHHHHHhhCCCCCCCCcchhh
Q 024849 62 RPDLKRGLLNEAEEQLVIDLHARLG-NRWSKIAARL-PGRTDNEIKNHWNTHIKKKLIKMGIDPVTHEPLQQ 131 (261)
Q Consensus 62 ~p~l~k~~WT~EED~~L~~lv~~~G-~~W~~IA~~l-~gRT~~q~k~Rw~~~lk~~~~k~~~~~~~~~~l~~ 131 (261)
++.+++++||+|||++|+++|.+|| .+|..||+.+ +||+++|||.||.++|++.+++++|++++++.|.+
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 3578899999999999999999999 5799999988 59999999999999999999999999999985543
No 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.35 E-value=3.6e-13 Score=120.46 Aligned_cols=71 Identities=13% Similarity=0.235 Sum_probs=64.6
Q ss_pred CCCcCCCCCHHHHHHHHHHHHHhC-CChhHHhccCC-CCCHHHHHHHHHHHHHHHHhhCCCCCCCCcchhhhc
Q 024849 63 PDLKRGLLNEAEEQLVIDLHARLG-NRWSKIAARLP-GRTDNEIKNHWNTHIKKKLIKMGIDPVTHEPLQQQA 133 (261)
Q Consensus 63 p~l~k~~WT~EED~~L~~lv~~~G-~~W~~IA~~l~-gRT~~q~k~Rw~~~lk~~~~k~~~~~~~~~~l~~~~ 133 (261)
|.+.+||||+|||.+|+++|++|| .+|..||+.++ +|+.++||-||.++|++.++++.|+++|+..+.+..
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH 77 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLH 77 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHH
Confidence 345579999999999999999999 56999999998 999999999999999999999999999998766544
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.26 E-value=9.5e-12 Score=82.56 Aligned_cols=47 Identities=43% Similarity=0.871 Sum_probs=44.2
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CChhHHhccCCCCCHHHHHHHHHHHHH
Q 024849 67 RGLLNEAEEQLVIDLHARLG-NRWSKIAARLPGRTDNEIKNHWNTHIK 113 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~G-~~W~~IA~~l~gRT~~q~k~Rw~~~lk 113 (261)
+++||++||.+|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 36899999999999999999 999999999999999999999998764
No 17
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.15 E-value=7.3e-11 Score=77.10 Aligned_cols=43 Identities=35% Similarity=0.757 Sum_probs=41.2
Q ss_pred CCCHHHHHHHHHHHHHhC-CChhHHhccCCCCCHHHHHHHHHHH
Q 024849 69 LLNEAEEQLVIDLHARLG-NRWSKIAARLPGRTDNEIKNHWNTH 111 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~G-~~W~~IA~~l~gRT~~q~k~Rw~~~ 111 (261)
+||.+|+..|+.++.+|| .+|..||+.+++||..+|++||+.+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 599999999999999999 8999999999999999999999875
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.04 E-value=8.2e-11 Score=77.98 Aligned_cols=48 Identities=35% Similarity=0.772 Sum_probs=44.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccC
Q 024849 14 KGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLR 62 (261)
Q Consensus 14 kg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~ 62 (261)
+++||++||.+|..++..||..+|..||..++ +|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 47899999999999999999669999999998 9999999999998764
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.01 E-value=1.7e-10 Score=113.68 Aligned_cols=118 Identities=24% Similarity=0.272 Sum_probs=99.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC---------------C--------CccccccccCcccccccccc---ccccccCCCCc
Q 024849 13 KKGPWTADEDKKLVTFILTHGH---------------C--------CWRAVPKLAGLRRCGKSCRL---RWTNYLRPDLK 66 (261)
Q Consensus 13 kkg~WT~eED~~L~~lv~~~g~---------------~--------~W~~Ia~~~~~~Rt~~qCr~---Rw~~~L~p~l~ 66 (261)
+-+.|+++||+.|.+.|..|-. . -|+.|...++ .|+...... |=.+.+.+ +
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~--~ 383 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN--K 383 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc--c
Confidence 4489999999999999987710 0 1567777888 488888766 33334444 8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHHH--HhhCCCCCCCCcchhhhcc
Q 024849 67 RGLLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKKK--LIKMGIDPVTHEPLQQQAN 134 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~--~~k~~~~~~~~~~l~~~~~ 134 (261)
+|.||+||++.|..+|.++|+.|..|++.| ||.+..|+.||+.+.+.. ..++.|+.++.+.|.+.++
T Consensus 384 rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~ 452 (607)
T KOG0051|consen 384 RGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVN 452 (607)
T ss_pred cCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHH
Confidence 999999999999999999999999999999 999999999999999876 4889999999998887765
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.89 E-value=5.5e-10 Score=72.86 Aligned_cols=44 Identities=36% Similarity=0.730 Sum_probs=41.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccc
Q 024849 16 PWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNY 60 (261)
Q Consensus 16 ~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~ 60 (261)
+||++|+..|+.++..||..+|..||+.++ +|++.+|+.||.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHh
Confidence 599999999999999999669999999998 89999999999865
No 21
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.35 E-value=3.6e-08 Score=96.49 Aligned_cols=98 Identities=29% Similarity=0.633 Sum_probs=86.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCC--CCcCCCCCHHHHHHHHHHHHHhC----
Q 024849 13 KKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRP--DLKRGLLNEAEEQLVIDLHARLG---- 86 (261)
Q Consensus 13 kkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p--~l~k~~WT~EED~~L~~lv~~~G---- 86 (261)
.+|.||++|++.|..++..+|. .|..|...++ |-+..||+||.+|..+ .+++++|+.||+.+|...|...-
T Consensus 290 ~~~~wt~e~~~eL~~~~~~~~~-~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~~~ 366 (512)
T COG5147 290 QRGKWTKEEEQELAKLVVEHGG-SWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLEAQ 366 (512)
T ss_pred hhccCccccccccccccccccc-hhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHHHh
Confidence 4899999999999999999995 9999999887 8899999999999988 68888999999999998887331
Q ss_pred ----CChhHHhccCCCCCHHHHHHHHHHHHH
Q 024849 87 ----NRWSKIAARLPGRTDNEIKNHWNTHIK 113 (261)
Q Consensus 87 ----~~W~~IA~~l~gRT~~q~k~Rw~~~lk 113 (261)
..|..|+..++.|...+|+..+..+..
T Consensus 367 ~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~ 397 (512)
T COG5147 367 QSSRILWLLIAQNIRNRLQHHCRDKYGVLIS 397 (512)
T ss_pred hhhhhhHHHHHHhhhccccCCCCCccccccc
Confidence 359999999999999999888866554
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.28 E-value=4e-07 Score=88.25 Aligned_cols=76 Identities=24% Similarity=0.416 Sum_probs=69.8
Q ss_pred CcCCCCCHHHHHHHHHHHHHhC-CChhHHhccCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCcchhhhcccCCCCC
Q 024849 65 LKRGLLNEAEEQLVIDLHARLG-NRWSKIAARLPGRTDNEIKNHWNTHIKKKLIKMGIDPVTHEPLQQQANITEDQA 140 (261)
Q Consensus 65 l~k~~WT~EED~~L~~lv~~~G-~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k~~~~~~~~~~l~~~~~~~~~~~ 140 (261)
++.+-|+..||+.|..+|.+|| +.|++||..++.+|..||++||...+.+.+++..|+..+++.+.+.....+.+-
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qw 81 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQW 81 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCcc
Confidence 4668899999999999999999 569999999999999999999999999999999999999999998887766553
No 23
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.89 E-value=6.6e-06 Score=58.11 Aligned_cols=49 Identities=14% Similarity=0.280 Sum_probs=43.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCc---cccccccCccc-ccccccccccccc
Q 024849 13 KKGPWTADEDKKLVTFILTHGHCCW---RAVPKLAGLRR-CGKSCRLRWTNYL 61 (261)
Q Consensus 13 kkg~WT~eED~~L~~lv~~~g~~~W---~~Ia~~~~~~R-t~~qCr~Rw~~~L 61 (261)
++-.||+||..+++.+|..+|.++| ..|++.|+..| |..||+.+++.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 4678999999999999999998899 99999887566 9999999988764
No 24
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.76 E-value=7.1e-05 Score=52.82 Aligned_cols=46 Identities=17% Similarity=0.330 Sum_probs=40.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-Ch---hHHhccCC-CC-CHHHHHHHHHHHH
Q 024849 67 RGLLNEAEEQLVIDLHARLGN-RW---SKIAARLP-GR-TDNEIKNHWNTHI 112 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~G~-~W---~~IA~~l~-gR-T~~q~k~Rw~~~l 112 (261)
+-.||+||..+.+++++.+|. +| ..|+..|. .| |..||+.|.+.+.
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 457999999999999999996 99 99999883 45 9999999987654
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.65 E-value=8.8e-05 Score=70.99 Aligned_cols=63 Identities=24% Similarity=0.415 Sum_probs=51.0
Q ss_pred CCcCCCCCHHHHHHHHHHHHHhC-CChhHHhccCCCCCHHHHHHHHHHHHHHHHhhCCCCCCCCcchh
Q 024849 64 DLKRGLLNEAEEQLVIDLHARLG-NRWSKIAARLPGRTDNEIKNHWNTHIKKKLIKMGIDPVTHEPLQ 130 (261)
Q Consensus 64 ~l~k~~WT~EED~~L~~lv~~~G-~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k~~~~~~~~~~l~ 130 (261)
.+-...||.+|+.+|++++..|| ++|..||.++..||..+|+.+|.++ +..+++.|..+-++.
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~----fv~s~~~~~~~i~~~ 132 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKH----FVNSPIFPLPDISLG 132 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHH----HhcCccccccccccc
Confidence 34456799999999999999999 8999999999999999999999754 445555665554443
No 26
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.60 E-value=7.7e-05 Score=62.87 Aligned_cols=52 Identities=19% Similarity=0.386 Sum_probs=45.5
Q ss_pred cCCCCCHHHHHHHHHHHHHh---CC----ChhHHhccCCCCCHHHHHHHHHHHHHHHHhh
Q 024849 66 KRGLLNEAEEQLVIDLHARL---GN----RWSKIAARLPGRTDNEIKNHWNTHIKKKLIK 118 (261)
Q Consensus 66 ~k~~WT~EED~~L~~lv~~~---G~----~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k 118 (261)
....||.|||.+|.+.|.+| |+ -+.+++..| +||..+|.-||+..+|+.+..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 45689999999999999988 43 389999999 999999999999999986644
No 27
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.48 E-value=3.7e-05 Score=73.49 Aligned_cols=49 Identities=22% Similarity=0.476 Sum_probs=45.7
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccccccccc
Q 024849 12 VKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYL 61 (261)
Q Consensus 12 ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L 61 (261)
+-...||++|+-+|++++..||-+||..||..+| .|+..+|+++|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 4567899999999999999999999999999999 999999999999854
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=97.25 E-value=0.00035 Score=50.61 Aligned_cols=50 Identities=18% Similarity=0.461 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHHHh---C-----CC-hhHHhccCC-CCCHHHHHHHHHHHHHHHH
Q 024849 67 RGLLNEAEEQLVIDLHARL---G-----NR-WSKIAARLP-GRTDNEIKNHWNTHIKKKL 116 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~---G-----~~-W~~IA~~l~-gRT~~q~k~Rw~~~lk~~~ 116 (261)
+.++|.+||+.|+..|+++ | ++ |.++++.-+ .+|-.+.|+||...|+.+.
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 4589999999999999765 2 22 999999887 9999999999988887654
No 29
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.17 E-value=0.00088 Score=58.64 Aligned_cols=99 Identities=19% Similarity=0.357 Sum_probs=70.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccC--cccccccccccccccc-CCCC--------------------cCCCCCH
Q 024849 16 PWTADEDKKLVTFILTHGHCCWRAVPKLAG--LRRCGKSCRLRWTNYL-RPDL--------------------KRGLLNE 72 (261)
Q Consensus 16 ~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~--~~Rt~~qCr~Rw~~~L-~p~l--------------------~k~~WT~ 72 (261)
+|++++|-.|+.+|..-. +-..|+..+. ..-|-..+.+||+..| +|.+ .+.+||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 699999999999998764 4555554332 2345677788998754 3322 3568999
Q ss_pred HHHHHHHHHHHHhCC---ChhHHhc----cC-CCCCHHHHHHHHHHHHHHHH
Q 024849 73 AEEQLVIDLHARLGN---RWSKIAA----RL-PGRTDNEIKNHWNTHIKKKL 116 (261)
Q Consensus 73 EED~~L~~lv~~~G~---~W~~IA~----~l-~gRT~~q~k~Rw~~~lk~~~ 116 (261)
+|+++|......... .+.+|-. .| ++||+.++.++|..+.+..+
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~L 130 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHL 130 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhch
Confidence 999999997765543 3666633 24 78999999999986555544
No 30
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.04 E-value=0.0005 Score=51.59 Aligned_cols=48 Identities=29% Similarity=0.516 Sum_probs=34.6
Q ss_pred CCCCHHHHHHHHHHHHH------hC--C------ChhHHhccC----CCCCHHHHHHHHHHHHHHH
Q 024849 68 GLLNEAEEQLVIDLHAR------LG--N------RWSKIAARL----PGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 68 ~~WT~EED~~L~~lv~~------~G--~------~W~~IA~~l----~gRT~~q~k~Rw~~~lk~~ 115 (261)
..||.+|...||+++.. ++ + -|..||..| ..||..||++||+++.+..
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Y 67 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKY 67 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 47999999999999877 21 1 399999987 3699999999998866554
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.00 E-value=0.00093 Score=65.94 Aligned_cols=46 Identities=17% Similarity=0.315 Sum_probs=42.4
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHH
Q 024849 66 KRGLLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTH 111 (261)
Q Consensus 66 ~k~~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~ 111 (261)
.+..||.+|..+|++++..||..|.+||.++.+||..||--|+-.+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 3567999999999999999999999999999999999999998643
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.94 E-value=0.0009 Score=64.74 Aligned_cols=45 Identities=18% Similarity=0.268 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHH
Q 024849 67 RGLLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTH 111 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~ 111 (261)
...||.+|..+|++.++.||..|.+||.++..||..||--||-++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 348999999999999999999999999999999999999999654
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.86 E-value=0.00037 Score=67.36 Aligned_cols=46 Identities=22% Similarity=0.429 Sum_probs=42.7
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccc
Q 024849 13 KKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNY 60 (261)
Q Consensus 13 kkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~ 60 (261)
....||.+|-.+|++.|+.||. +|.+||.++| .|+..||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 5669999999999999999996 9999999999 99999999998763
No 34
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.74 E-value=0.0017 Score=55.42 Aligned_cols=51 Identities=16% Similarity=0.336 Sum_probs=43.2
Q ss_pred CcCCCCCHHHHHHHHHHHHHhCCC-------hhHHhccCCCCCHHHHHHHHHHHHHHHH
Q 024849 65 LKRGLLNEAEEQLVIDLHARLGNR-------WSKIAARLPGRTDNEIKNHWNTHIKKKL 116 (261)
Q Consensus 65 l~k~~WT~EED~~L~~lv~~~G~~-------W~~IA~~l~gRT~~q~k~Rw~~~lk~~~ 116 (261)
.....||.|+|.+|.+.|..|+.. ...++..| +||..+|.-||+..+++.+
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHH
Confidence 356789999999999999988632 67777888 9999999999999999754
No 35
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.70 E-value=0.00073 Score=66.65 Aligned_cols=48 Identities=23% Similarity=0.453 Sum_probs=43.6
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccc
Q 024849 11 GVKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNY 60 (261)
Q Consensus 11 ~ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~ 60 (261)
.--++.||.+|..+|+++|..||. +|.+||..++ .|+..||..++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 345789999999999999999996 9999999999 99999999998763
No 36
>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=96.57 E-value=0.0006 Score=49.38 Aligned_cols=52 Identities=21% Similarity=0.402 Sum_probs=33.2
Q ss_pred cCCCCHHHHHHHHHHHHHhC--------CCCccccccccCccccccccccccccccCCCC
Q 024849 14 KGPWTADEDKKLVTFILTHG--------HCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDL 65 (261)
Q Consensus 14 kg~WT~eED~~L~~lv~~~g--------~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l 65 (261)
+.+||.+||+.|+..|..+. +.=|.++++.-++++|..+-|+||.+.|.+..
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 56899999999999997662 22288888877668899999999999887654
No 37
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.03 E-value=0.0015 Score=48.92 Aligned_cols=47 Identities=26% Similarity=0.615 Sum_probs=32.0
Q ss_pred cCCCCHHHHHHHHHHHHH--h----C--CC-----Ccccccccc---Cccccccccccccccc
Q 024849 14 KGPWTADEDKKLVTFILT--H----G--HC-----CWRAVPKLA---GLRRCGKSCRLRWTNY 60 (261)
Q Consensus 14 kg~WT~eED~~L~~lv~~--~----g--~~-----~W~~Ia~~~---~~~Rt~~qCr~Rw~~~ 60 (261)
+..||.+|...|+.++.. + + .. -|..||..| |..|++.||+.||.+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 458999999999999977 2 1 11 399999765 5679999999999864
No 38
>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=95.82 E-value=0.0026 Score=53.78 Aligned_cols=49 Identities=31% Similarity=0.727 Sum_probs=40.9
Q ss_pred CccCCCCHHHHHHHHHHHHHh---CC---CCccccccccCccccccccccccccccC
Q 024849 12 VKKGPWTADEDKKLVTFILTH---GH---CCWRAVPKLAGLRRCGKSCRLRWTNYLR 62 (261)
Q Consensus 12 ikkg~WT~eED~~L~~lv~~~---g~---~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~ 62 (261)
.+...||.|||..|.+.|.+| |. .....|+..++ ||+..|.-||..++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHH
Confidence 467889999999999999999 32 13777888876 999999999998865
No 39
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.71 E-value=0.021 Score=41.87 Aligned_cols=51 Identities=22% Similarity=0.457 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHHHh-----C------------CChhHHhccC-----CCCCHHHHHHHHHHHHHHHHh
Q 024849 67 RGLLNEAEEQLVIDLHARL-----G------------NRWSKIAARL-----PGRTDNEIKNHWNTHIKKKLI 117 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~-----G------------~~W~~IA~~l-----~gRT~~q~k~Rw~~~lk~~~~ 117 (261)
...||.+|...|+++|.+| | .-|..|+..| +.||..++|.+|.++.....+
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk 74 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKK 74 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 3569999999999999987 2 1299999887 359999999999887665443
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.58 E-value=0.013 Score=54.64 Aligned_cols=45 Identities=31% Similarity=0.476 Sum_probs=41.2
Q ss_pred CCCCHHHHHHHHHHHHHhC-CChhHHhccCCCCCHHHHHHHHHHHH
Q 024849 68 GLLNEAEEQLVIDLHARLG-NRWSKIAARLPGRTDNEIKNHWNTHI 112 (261)
Q Consensus 68 ~~WT~EED~~L~~lv~~~G-~~W~~IA~~l~gRT~~q~k~Rw~~~l 112 (261)
..|+..|+.+|++.....| ++|..||.+++.|+...||.+|....
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y 109 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMY 109 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHH
Confidence 4599999999999999999 89999999999999999999996543
No 41
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.93 E-value=0.047 Score=58.48 Aligned_cols=103 Identities=16% Similarity=0.288 Sum_probs=77.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccc-------ccccc---------------------------
Q 024849 15 GPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRL-------RWTNY--------------------------- 60 (261)
Q Consensus 15 g~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~-------Rw~~~--------------------------- 60 (261)
..||.-+=..++.+..+||..+-..||..+. +++...++. ||...
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~ 903 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAI 903 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3588888888888889999888899998886 677666553 11110
Q ss_pred ---------------c-CCCCcCCCCCHHHHHHHHHHHHHhC-CChhHHhccC------------CCCCHHHHHHHHHHH
Q 024849 61 ---------------L-RPDLKRGLLNEAEEQLVIDLHARLG-NRWSKIAARL------------PGRTDNEIKNHWNTH 111 (261)
Q Consensus 61 ---------------L-~p~l~k~~WT~EED~~L~~lv~~~G-~~W~~IA~~l------------~gRT~~q~k~Rw~~~ 111 (261)
+ -+..++..+|.|||..|+-++.+|| .+|.+|-..+ ..||+..+..|...+
T Consensus 904 ~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 904 GKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred HHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 0 0233455699999999999999999 6799994332 479999999999998
Q ss_pred HHHHHhh
Q 024849 112 IKKKLIK 118 (261)
Q Consensus 112 lk~~~~k 118 (261)
++-..+.
T Consensus 984 ~~~~~~e 990 (1033)
T PLN03142 984 IRLIEKE 990 (1033)
T ss_pred HHHHHHH
Confidence 8765433
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.44 E-value=0.01 Score=55.24 Aligned_cols=48 Identities=21% Similarity=0.419 Sum_probs=44.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccC
Q 024849 14 KGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLR 62 (261)
Q Consensus 14 kg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~ 62 (261)
---|+..|+-+|+++....|-+||.-||..+| .|+...|+++|..++.
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 45699999999999999999999999999999 9999999999988665
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.39 E-value=0.019 Score=42.11 Aligned_cols=49 Identities=20% Similarity=0.428 Sum_probs=38.9
Q ss_pred ccCCCCHHHHHHHHHHHHHh-----CC-----------CCcccccccc----Ccccccccccccccccc
Q 024849 13 KKGPWTADEDKKLVTFILTH-----GH-----------CCWRAVPKLA----GLRRCGKSCRLRWTNYL 61 (261)
Q Consensus 13 kkg~WT~eED~~L~~lv~~~-----g~-----------~~W~~Ia~~~----~~~Rt~~qCr~Rw~~~L 61 (261)
++..||.+|...|+++|.+| +. ..|..|+..+ +..|+..|++.+|.+..
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 46789999999999999987 21 1399999754 23799999999998753
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.63 E-value=0.014 Score=49.87 Aligned_cols=49 Identities=24% Similarity=0.546 Sum_probs=37.9
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCC------ccccccccCccccccccccccccccC
Q 024849 12 VKKGPWTADEDKKLVTFILTHGHCC------WRAVPKLAGLRRCGKSCRLRWTNYLR 62 (261)
Q Consensus 12 ikkg~WT~eED~~L~~lv~~~g~~~------W~~Ia~~~~~~Rt~~qCr~Rw~~~L~ 62 (261)
.++..||.|+|..|.+.|..|+... ...++..+. |++.+|..||..++.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 4678999999999999999996433 344445554 999999999965544
No 45
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=92.98 E-value=0.12 Score=41.76 Aligned_cols=53 Identities=26% Similarity=0.454 Sum_probs=41.9
Q ss_pred CCcCCCCCHHHHHHHHHHHHHhCC----ChhHHhccC------------CCCCHHHHHHHHHHHHHHHH
Q 024849 64 DLKRGLLNEAEEQLVIDLHARLGN----RWSKIAARL------------PGRTDNEIKNHWNTHIKKKL 116 (261)
Q Consensus 64 ~l~k~~WT~EED~~L~~lv~~~G~----~W~~IA~~l------------~gRT~~q~k~Rw~~~lk~~~ 116 (261)
..++..+|++||.-|+-++.+||- .|..|-..+ ..||+..+..|.+.+++-..
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 556778999999999999999996 698887643 36999999999999887643
No 46
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.91 E-value=0.19 Score=47.22 Aligned_cols=50 Identities=20% Similarity=0.332 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CCChhHHhccC----CCCCHHHHHHHHHHHHHHHH
Q 024849 67 RGLLNEAEEQLVIDLHARL----------GNRWSKIAARL----PGRTDNEIKNHWNTHIKKKL 116 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~----------G~~W~~IA~~l----~gRT~~q~k~Rw~~~lk~~~ 116 (261)
...|+.+|-..||++..+. +.-|..||+.+ .-||+.+||+||.++.++..
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk 117 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYK 117 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHH
Confidence 3679999999999988653 23499999965 34999999999998877643
No 47
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=92.76 E-value=0.17 Score=48.34 Aligned_cols=47 Identities=19% Similarity=0.205 Sum_probs=43.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 68 GLLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 68 ~~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.+||.+|-++...+...+|..++.||..+|.|...|||.+|.+--|.
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 47999999999999999999999999999999999999999865554
No 48
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=92.40 E-value=0.15 Score=48.69 Aligned_cols=54 Identities=24% Similarity=0.316 Sum_probs=46.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhHHhcc-----CCC-CCHHHHHHHHHHHHHHHHhhCC
Q 024849 67 RGLLNEAEEQLVIDLHARLGNRWSKIAAR-----LPG-RTDNEIKNHWNTHIKKKLIKMG 120 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~G~~W~~IA~~-----l~g-RT~~q~k~Rw~~~lk~~~~k~~ 120 (261)
...||.+|-..|.++.+.|.-+|..||.. ++. ||-..+|.||+...+.-++-..
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~ 189 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARA 189 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccC
Confidence 35699999999999999999999999987 555 9999999999988887655433
No 49
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=92.08 E-value=0.39 Score=36.20 Aligned_cols=46 Identities=30% Similarity=0.581 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------ChhHHhccC---CC--CCHHHHHHHHHHHHHH
Q 024849 69 LLNEAEEQLVIDLHARL---GN----------RWSKIAARL---PG--RTDNEIKNHWNTHIKK 114 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~---G~----------~W~~IA~~l---~g--RT~~q~k~Rw~~~lk~ 114 (261)
.||++++..|++++.+. |+ .|..|++.| +| .|..||++||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 49999999999998543 21 299999887 23 5789999999765554
No 50
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=89.13 E-value=0.99 Score=30.37 Aligned_cols=42 Identities=21% Similarity=0.284 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 72 EAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 72 ~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
++++..++.++...|-.+.+||..+ |.|...|+.+....+++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 4567788888888899999999999 99999999998766543
No 51
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=87.36 E-value=1.3 Score=43.30 Aligned_cols=48 Identities=17% Similarity=0.190 Sum_probs=42.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 67 RGLLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
...||.||-.++-+++..||.++.+|-+.||.|+-..+..-|+..-+.
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 456999999999999999999999999999999999999988765443
No 52
>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=83.32 E-value=0.94 Score=36.55 Aligned_cols=34 Identities=21% Similarity=0.398 Sum_probs=28.5
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCC---CCcccccccc
Q 024849 11 GVKKGPWTADEDKKLVTFILTHGH---CCWRAVPKLA 44 (261)
Q Consensus 11 ~ikkg~WT~eED~~L~~lv~~~g~---~~W~~Ia~~~ 44 (261)
+-++..||.+||.-|+-.+.+||. +.|..|...+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 667899999999999999999998 8899998654
No 53
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=82.18 E-value=0.68 Score=44.33 Aligned_cols=64 Identities=14% Similarity=0.245 Sum_probs=50.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccc--cCCCC------cCCCCCHHHHHHH
Q 024849 13 KKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNY--LRPDL------KRGLLNEAEEQLV 78 (261)
Q Consensus 13 kkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~--L~p~l------~k~~WT~EED~~L 78 (261)
..-+||.+|-++...++...|. +...||.++| +|..+|+..+|.+- .+|.. .+.|+..+|-..|
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~ 435 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKL 435 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhH
Confidence 3558999999999999999997 9999999999 99999999998763 33311 2456666665543
No 54
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=80.66 E-value=2.9 Score=42.31 Aligned_cols=53 Identities=13% Similarity=0.344 Sum_probs=43.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChhHHh----------ccCCCCCHHHHHHHHHHHHHHHHhhC
Q 024849 67 RGLLNEAEEQLVIDLHARLGNRWSKIA----------ARLPGRTDNEIKNHWNTHIKKKLIKM 119 (261)
Q Consensus 67 k~~WT~EED~~L~~lv~~~G~~W~~IA----------~~l~gRT~~q~k~Rw~~~lk~~~~k~ 119 (261)
+..||..|..-...+++++|.++.+|- ....-+|..|+|.+|+.++++..+-.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 568999999999999999999999982 22344788899999999888865554
No 55
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=79.20 E-value=11 Score=39.12 Aligned_cols=44 Identities=9% Similarity=0.031 Sum_probs=40.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHH
Q 024849 68 GLLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTH 111 (261)
Q Consensus 68 ~~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~ 111 (261)
..||+.|-.+.-+++..|.+.+-.|++.++++|-.||-.-|+..
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 46999999999999999999999999999999999999877543
No 56
>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=77.56 E-value=4.4 Score=26.51 Aligned_cols=38 Identities=13% Similarity=0.338 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHhCC-ChhHHhccCCCCCHHHHHHHHHHH
Q 024849 73 AEEQLVIDLHARLGN-RWSKIAARLPGRTDNEIKNHWNTH 111 (261)
Q Consensus 73 EED~~L~~lv~~~G~-~W~~IA~~l~gRT~~q~k~Rw~~~ 111 (261)
+=|.+|+.+.+.-|. .+.+||+.+ |=|...|..|++.+
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 447888888888884 599999999 99999999998754
No 57
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=77.11 E-value=1.1 Score=42.16 Aligned_cols=46 Identities=22% Similarity=0.420 Sum_probs=36.6
Q ss_pred CCCCHHHHHHHHHHHHHh---------CCCCccccccc---cCccccccccccccccc
Q 024849 15 GPWTADEDKKLVTFILTH---------GHCCWRAVPKL---AGLRRCGKSCRLRWTNY 60 (261)
Q Consensus 15 g~WT~eED~~L~~lv~~~---------g~~~W~~Ia~~---~~~~Rt~~qCr~Rw~~~ 60 (261)
..|+.+|-..|+.+.... ...-|..||+. .|..|++.||+.+|.+.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl 112 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENL 112 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence 789999999999988532 12259999973 45679999999999764
No 58
>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=76.97 E-value=5.9 Score=26.21 Aligned_cols=41 Identities=29% Similarity=0.360 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 73 AEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 73 EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
+++..++.++-..|-.+.+||..+ |-|...|+.+.+..+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 345555555555567899999999 99999999998877765
No 59
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=75.05 E-value=4.2 Score=33.59 Aligned_cols=45 Identities=9% Similarity=0.182 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHhC-CChhHHhccCCCCCHHHHHHHHHHHHHHHHhh
Q 024849 73 AEEQLVIDLHARLG-NRWSKIAARLPGRTDNEIKNHWNTHIKKKLIK 118 (261)
Q Consensus 73 EED~~L~~lv~~~G-~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k 118 (261)
+-|.+|+.+.++-| ..|++||+.+ |-|...|+.|++.+....+.+
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 56888999888888 4699999999 999999999999888776554
No 60
>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=72.85 E-value=3.6 Score=31.08 Aligned_cols=23 Identities=35% Similarity=0.657 Sum_probs=13.8
Q ss_pred CCccCCCCHHHHHHH--------HHHHHHhC
Q 024849 11 GVKKGPWTADEDKKL--------VTFILTHG 33 (261)
Q Consensus 11 ~ikkg~WT~eED~~L--------~~lv~~~g 33 (261)
.-..|-||+++|+.| ..++++||
T Consensus 44 ~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 44 DNMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp TT-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 345889999999999 45667777
No 61
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=70.66 E-value=9.2 Score=33.64 Aligned_cols=45 Identities=16% Similarity=0.226 Sum_probs=36.2
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhccC---CCCCHHHHHHHHHHHHHH
Q 024849 69 LLNEAEEQLVIDLHARLGNRWSKIAARL---PGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~G~~W~~IA~~l---~gRT~~q~k~Rw~~~lk~ 114 (261)
.|++++|.+|+.+|.. |+.-..|+.-+ ..-|-..|..||+.+|--
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd 48 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYD 48 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcC
Confidence 4999999999999875 66677776654 456889999999998854
No 62
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=69.81 E-value=5.1 Score=33.52 Aligned_cols=46 Identities=9% Similarity=0.145 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHhC-CChhHHhccCCCCCHHHHHHHHHHHHHHHHhh
Q 024849 72 EAEEQLVIDLHARLG-NRWSKIAARLPGRTDNEIKNHWNTHIKKKLIK 118 (261)
Q Consensus 72 ~EED~~L~~lv~~~G-~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k 118 (261)
.+-|.+|+.+.++-| -.|++||+.+ |=|...|+.|++.+.+..+.+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 456888888888888 4699999999 999999999999888876654
No 63
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=67.73 E-value=2.4 Score=43.84 Aligned_cols=44 Identities=18% Similarity=0.219 Sum_probs=39.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccccccc
Q 024849 14 KGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTN 59 (261)
Q Consensus 14 kg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~ 59 (261)
...||+.|-.+..+++-.|.. +...|++++. +++.+||-+.|+.
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~K-DF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSK-DFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcc-cHHHHHHHhc-cccHHHHHHHHHH
Confidence 468999999999999999984 9999999998 9999999998753
No 64
>smart00595 MADF subfamily of SANT domain.
Probab=67.72 E-value=6.4 Score=29.07 Aligned_cols=25 Identities=32% Similarity=0.691 Sum_probs=21.5
Q ss_pred hhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 89 WSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 89 W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|.+||..| |-|...|+.||+++-..
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 99999999 55999999999877544
No 65
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=67.10 E-value=5.5 Score=40.29 Aligned_cols=50 Identities=22% Similarity=0.349 Sum_probs=44.4
Q ss_pred CcCCCCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 65 LKRGLLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 65 l~k~~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
...++||.+|-.+-.......|.+.+.||..+|+|+..|||.+|..--++
T Consensus 407 ~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r 456 (584)
T KOG2009|consen 407 LETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKR 456 (584)
T ss_pred cccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhc
Confidence 34568999999999999999999999999999999999999999755444
No 66
>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=64.71 E-value=15 Score=27.47 Aligned_cols=39 Identities=15% Similarity=0.378 Sum_probs=28.7
Q ss_pred HHHHHHHHHhC--------CChhHHhccCCC---CC--HHHHHHHHHHHHHH
Q 024849 76 QLVIDLHARLG--------NRWSKIAARLPG---RT--DNEIKNHWNTHIKK 114 (261)
Q Consensus 76 ~~L~~lv~~~G--------~~W~~IA~~l~g---RT--~~q~k~Rw~~~lk~ 114 (261)
-.|..+|.+.| +.|..||+.|.- -+ ..++|..|..+|.+
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 45778888887 359999999822 22 36899999888754
No 67
>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=64.55 E-value=14 Score=29.43 Aligned_cols=30 Identities=23% Similarity=0.395 Sum_probs=25.1
Q ss_pred HhCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 84 RLGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 84 ~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
..|-.+.+||+.+ |.|...|+++.+..+++
T Consensus 127 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 127 FEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3477899999999 99999999999875544
No 68
>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=64.53 E-value=6.7 Score=29.56 Aligned_cols=17 Identities=18% Similarity=0.491 Sum_probs=10.3
Q ss_pred CCCcCCCCCHHHHHHHH
Q 024849 63 PDLKRGLLNEAEEQLVI 79 (261)
Q Consensus 63 p~l~k~~WT~EED~~L~ 79 (261)
|....|-||+++|..|.
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 66778899999999994
No 69
>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=64.50 E-value=3.4 Score=30.90 Aligned_cols=44 Identities=20% Similarity=0.576 Sum_probs=29.9
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------Ccccccccc----Ccccccccccccccc
Q 024849 16 PWTADEDKKLVTFILTH---GHC---------CWRAVPKLA----GLRRCGKSCRLRWTN 59 (261)
Q Consensus 16 ~WT~eED~~L~~lv~~~---g~~---------~W~~Ia~~~----~~~Rt~~qCr~Rw~~ 59 (261)
+||+++++.|++++... |.. .|..|+..+ +...+..||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999988654 222 277777644 334556777777654
No 70
>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=64.02 E-value=27 Score=32.92 Aligned_cols=46 Identities=22% Similarity=0.382 Sum_probs=36.0
Q ss_pred cCCCCCHHHHHHHHHHHHHh-CCC---hhHHhccCCCCCHHHHHHHHHHH
Q 024849 66 KRGLLNEAEEQLVIDLHARL-GNR---WSKIAARLPGRTDNEIKNHWNTH 111 (261)
Q Consensus 66 ~k~~WT~EED~~L~~lv~~~-G~~---W~~IA~~l~gRT~~q~k~Rw~~~ 111 (261)
....||.-|...|+.+.+.. |.. =.+|++.++||+..+|++--+.+
T Consensus 20 gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~L 69 (344)
T PF11035_consen 20 GPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQL 69 (344)
T ss_pred CcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHH
Confidence 34579999999999888755 533 56889999999999999855443
No 71
>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=63.26 E-value=7.9 Score=32.82 Aligned_cols=41 Identities=22% Similarity=0.217 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHH
Q 024849 69 LLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNT 110 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~ 110 (261)
.||.|+.++|.+|..+ |-.=++||+.|.|.|.+.|.-+-+.
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 4999999999998754 7778999999977999999887654
No 72
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=62.96 E-value=16 Score=27.59 Aligned_cols=40 Identities=18% Similarity=0.327 Sum_probs=30.3
Q ss_pred HHHHHHHHHhCC--------ChhHHhccCCC-----CCHHHHHHHHHHHHHHH
Q 024849 76 QLVIDLHARLGN--------RWSKIAARLPG-----RTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 76 ~~L~~lv~~~G~--------~W~~IA~~l~g-----RT~~q~k~Rw~~~lk~~ 115 (261)
-+|..+|.+.|+ .|.+||..|.- ....++|..|..+|.+-
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 457778888773 69999999832 23578899999888764
No 73
>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=55.91 E-value=3.5 Score=26.95 Aligned_cols=38 Identities=16% Similarity=0.327 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHhCCCCccccccccCcccccccccccccc
Q 024849 20 DEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTN 59 (261)
Q Consensus 20 eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~ 59 (261)
+=|.+|+.+++.-+...+.+||+.+| =+...|+.|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 44889999999999889999999998 667788887653
No 74
>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=54.63 E-value=16 Score=27.51 Aligned_cols=29 Identities=28% Similarity=0.614 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhCCChhHHhccCCCCCHHHH
Q 024849 75 EQLVIDLHARLGNRWSKIAARLPGRTDNEI 104 (261)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~l~gRT~~q~ 104 (261)
|+.|..+....|..|..+|..| |=|..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5678889999999999999999 6555443
No 75
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=51.32 E-value=28 Score=33.54 Aligned_cols=44 Identities=16% Similarity=0.115 Sum_probs=39.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhHHhc-cCCCCCHHHHHHHHHHH
Q 024849 68 GLLNEAEEQLVIDLHARLGNRWSKIAA-RLPGRTDNEIKNHWNTH 111 (261)
Q Consensus 68 ~~WT~EED~~L~~lv~~~G~~W~~IA~-~l~gRT~~q~k~Rw~~~ 111 (261)
..|+++|-...-+.++.||+.+..|.+ .++.|+--.|-.-|+..
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 359999999999999999999999976 58999999999877643
No 76
>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=50.07 E-value=37 Score=26.13 Aligned_cols=33 Identities=27% Similarity=0.280 Sum_probs=25.9
Q ss_pred HHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 81 LHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 81 lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
++-..|..+.+||+.+ |=|...|+++.+..+++
T Consensus 121 ~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 121 LRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred hHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3333578899999999 77999999998876554
No 77
>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=49.60 E-value=24 Score=26.56 Aligned_cols=29 Identities=24% Similarity=0.413 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhCCChhHHhccCCCCCHHHH
Q 024849 75 EQLVIDLHARLGNRWSKIAARLPGRTDNEI 104 (261)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~l~gRT~~q~ 104 (261)
|..|..+....|..|.++|..| |=+...|
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI 32 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEI 32 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHH
Confidence 5778888999999999999999 6555444
No 78
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=48.61 E-value=31 Score=26.21 Aligned_cols=45 Identities=11% Similarity=0.209 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHhC-CChhHHhccCCCCCHHHHHHHHHHHHHHHHhh
Q 024849 73 AEEQLVIDLHARLG-NRWSKIAARLPGRTDNEIKNHWNTHIKKKLIK 118 (261)
Q Consensus 73 EED~~L~~lv~~~G-~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k 118 (261)
+.|.+|+.+..+.| -.+++||+.+ |-+...|+.|.+.+.+..+.+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 46788888888877 4699999999 999999999998888776544
No 79
>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=47.45 E-value=21 Score=25.50 Aligned_cols=26 Identities=23% Similarity=0.530 Sum_probs=21.2
Q ss_pred hhHHhccCCC-CCHHHHHHHHHHHHHH
Q 024849 89 WSKIAARLPG-RTDNEIKNHWNTHIKK 114 (261)
Q Consensus 89 W~~IA~~l~g-RT~~q~k~Rw~~~lk~ 114 (261)
|..||..|.. -+...|+.||+++...
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 9999999943 5788999999886654
No 80
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=47.33 E-value=31 Score=26.65 Aligned_cols=48 Identities=15% Similarity=0.165 Sum_probs=32.7
Q ss_pred CCCCHHHHHHHHHHHHHh----C----CChhHHhccCC-----CCCHHHHHHHHHHHHHHH
Q 024849 68 GLLNEAEEQLVIDLHARL----G----NRWSKIAARLP-----GRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 68 ~~WT~EED~~L~~lv~~~----G----~~W~~IA~~l~-----gRT~~q~k~Rw~~~lk~~ 115 (261)
..||++++..|++.+..| | ..+..+...+. .=|..|+.++.+.+-++.
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky 65 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKY 65 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHH
Confidence 469999999999998777 6 23544443332 237788888876655553
No 81
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=47.19 E-value=6.5 Score=32.47 Aligned_cols=45 Identities=9% Similarity=0.200 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCC
Q 024849 19 ADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDL 65 (261)
Q Consensus 19 ~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l 65 (261)
.+-|.+|+.++++.|...|.+||+.+| -+...|+.|+.+....++
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 357999999999999999999999998 778899999887655443
No 82
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=46.21 E-value=44 Score=27.09 Aligned_cols=30 Identities=13% Similarity=0.128 Sum_probs=24.4
Q ss_pred HhCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 84 RLGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 84 ~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
..|-...+||+.| |-+...|+.+.+..+++
T Consensus 142 ~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 142 IEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3477899999999 99999999988765544
No 83
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=45.69 E-value=55 Score=26.86 Aligned_cols=34 Identities=21% Similarity=0.276 Sum_probs=27.6
Q ss_pred HhCCChhHHhccCCCCCHHHHHHHHHHHHHHHHhh
Q 024849 84 RLGNRWSKIAARLPGRTDNEIKNHWNTHIKKKLIK 118 (261)
Q Consensus 84 ~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k 118 (261)
..|-...+||+.+ |-+...|+.|....+++-...
T Consensus 133 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~~~ 166 (172)
T PRK12523 133 LDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCYIA 166 (172)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHH
Confidence 3467899999999 999999999988777765443
No 84
>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=45.53 E-value=21 Score=26.46 Aligned_cols=29 Identities=28% Similarity=0.652 Sum_probs=22.9
Q ss_pred HHHHHHHHHHhCCChhHHhccCCCCCHHHH
Q 024849 75 EQLVIDLHARLGNRWSKIAARLPGRTDNEI 104 (261)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~l~gRT~~q~ 104 (261)
|..|..+.+..|..|.++|..| |=+...|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI 32 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDI 32 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHH
Confidence 4667888899999999999999 5555433
No 85
>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=45.34 E-value=59 Score=27.31 Aligned_cols=46 Identities=17% Similarity=0.216 Sum_probs=38.7
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCChhHHhccCC----CCCHHHHHHHHHHH
Q 024849 66 KRGLLNEAEEQLVIDLHARLGNRWSKIAARLP----GRTDNEIKNHWNTH 111 (261)
Q Consensus 66 ~k~~WT~EED~~L~~lv~~~G~~W~~IA~~l~----gRT~~q~k~Rw~~~ 111 (261)
....-|..|..-|..|+.+||.++...|.-.. -.|..||+.+....
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 44568999999999999999999999987542 48999999988654
No 86
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=44.70 E-value=57 Score=26.66 Aligned_cols=29 Identities=24% Similarity=0.349 Sum_probs=23.7
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-.-.+||+.| |.+...|+.|.+..++.
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 366789999999 99999999998765544
No 87
>PRK04217 hypothetical protein; Provisional
Probab=44.04 E-value=77 Score=25.19 Aligned_cols=46 Identities=15% Similarity=0.096 Sum_probs=36.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 68 GLLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 68 ~~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
..-|.+| ..++.++...|-.-.+||+.+ |-+...|+.+++...+.-
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 4466666 577777777788899999999 999999999998655443
No 88
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=43.86 E-value=6.2 Score=33.02 Aligned_cols=45 Identities=16% Similarity=0.206 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCC
Q 024849 19 ADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDL 65 (261)
Q Consensus 19 ~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l 65 (261)
.+-|.+|+.+.++.|...|.+||+.+| -+...|+.|+.+..+.++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 567999999999999999999999998 777889998887655544
No 89
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=42.18 E-value=64 Score=26.79 Aligned_cols=33 Identities=18% Similarity=0.027 Sum_probs=27.8
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHHHhh
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKKLIK 118 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k 118 (261)
.|-...+||..| |-+...|+.|....+..-+..
T Consensus 142 ~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 142 DGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 367899999999 999999999998877765544
No 90
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=42.01 E-value=46 Score=26.93 Aligned_cols=29 Identities=21% Similarity=0.223 Sum_probs=23.7
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-...+||+.| |-|...|+++.....++
T Consensus 140 ~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 140 EGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 467799999999 99999999988765444
No 91
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=41.51 E-value=37 Score=27.32 Aligned_cols=45 Identities=13% Similarity=0.174 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHhC-CChhHHhccCCCCCHHHHHHHHHHHHHHHHhh
Q 024849 73 AEEQLVIDLHARLG-NRWSKIAARLPGRTDNEIKNHWNTHIKKKLIK 118 (261)
Q Consensus 73 EED~~L~~lv~~~G-~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k 118 (261)
+-|.+|+++.++-| ..+.+||+.+ |-|...|++|-+.+.+..+.+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIK 53 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCcee
Confidence 45777888888777 4599999999 999999999998888876544
No 92
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=41.15 E-value=59 Score=27.47 Aligned_cols=36 Identities=22% Similarity=0.313 Sum_probs=27.6
Q ss_pred HHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHH
Q 024849 76 QLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHI 112 (261)
Q Consensus 76 ~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~l 112 (261)
..++.+..--|-.+.+||+.+ |-|...|+.||....
T Consensus 141 ~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 141 RRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 333444444577899999999 999999999997654
No 93
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=40.72 E-value=51 Score=27.79 Aligned_cols=29 Identities=17% Similarity=0.217 Sum_probs=24.0
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-...+||..| |-+..+|++|.....++
T Consensus 149 ~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 149 QGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 467799999999 99999999999655444
No 94
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=40.67 E-value=32 Score=38.01 Aligned_cols=76 Identities=18% Similarity=0.263 Sum_probs=46.7
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccCccccccccccccccccCCCCcCCCCCHHHHHHHHHHHHHh-CCChhH
Q 024849 13 KKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTNYLRPDLKRGLLNEAEEQLVIDLHARL-GNRWSK 91 (261)
Q Consensus 13 kkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l~k~~WT~EED~~L~~lv~~~-G~~W~~ 91 (261)
.-.-|..++|..|+-.|-+||.++|.+|-.--.++=+.+ ..+.-.+..+.+=..+-..|+.++... +.+|.+
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dK-------i~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDK-------IFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccchhh-------hcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 445699999999999999999999999953111111111 111212344556666666677766665 445555
Q ss_pred Hhcc
Q 024849 92 IAAR 95 (261)
Q Consensus 92 IA~~ 95 (261)
.++.
T Consensus 1205 ~~~~ 1208 (1373)
T KOG0384|consen 1205 KLKR 1208 (1373)
T ss_pred hhhc
Confidence 4433
No 95
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=40.38 E-value=17 Score=35.23 Aligned_cols=49 Identities=10% Similarity=0.175 Sum_probs=41.7
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCccccccc-----cCccccccccccccccc
Q 024849 11 GVKKGPWTADEDKKLVTFILTHGHCCWRAVPKL-----AGLRRCGKSCRLRWTNY 60 (261)
Q Consensus 11 ~ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~-----~~~~Rt~~qCr~Rw~~~ 60 (261)
++.-..||++|-+-|..+.++|.- .|-.||.. .+..||.....+||..+
T Consensus 127 ~l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 345578999999999999999985 89999976 66569999999999754
No 96
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=39.64 E-value=76 Score=26.23 Aligned_cols=32 Identities=13% Similarity=0.175 Sum_probs=25.9
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHHHh
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKKLI 117 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~ 117 (261)
.|-...+||..| |-+...|+.|....+++-..
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~ 177 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAALAA 177 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 367789999999 99999999998876665443
No 97
>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=39.21 E-value=77 Score=19.67 Aligned_cols=40 Identities=28% Similarity=0.335 Sum_probs=27.0
Q ss_pred CCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHH
Q 024849 70 LNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTH 111 (261)
Q Consensus 70 WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~ 111 (261)
.++++ ..++.++-.-|.....||+.+ |=+...|+.+.+..
T Consensus 11 l~~~~-~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPERE-REVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHHH-HHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 44444 444555545677899999998 78888887765543
No 98
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=38.86 E-value=55 Score=26.95 Aligned_cols=29 Identities=10% Similarity=0.007 Sum_probs=23.9
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|....+||..+ |-|...|+++.....++
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 367799999999 99999999998765554
No 99
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=38.72 E-value=65 Score=25.78 Aligned_cols=29 Identities=17% Similarity=0.248 Sum_probs=24.1
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-.-.+||..| |-|...|++|....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 366789999999 99999999998766554
No 100
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=38.49 E-value=78 Score=26.54 Aligned_cols=28 Identities=14% Similarity=0.119 Sum_probs=22.9
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIK 113 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk 113 (261)
.|-.-.+||..| |-|...|+.|....++
T Consensus 151 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 178 (195)
T PRK12532 151 LGFSSDEIQQMC-GISTSNYHTIMHRARE 178 (195)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 366789999999 9999999999876443
No 101
>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=38.30 E-value=39 Score=25.31 Aligned_cols=32 Identities=25% Similarity=0.473 Sum_probs=22.3
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHH
Q 024849 69 LLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEI 104 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~ 104 (261)
|-|.++-. .+....|..|.++|..| |=+..+|
T Consensus 4 ~~t~~~l~---~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 4 PVTGEQIT---VFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred CCCHHHHH---HHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 34444433 35577899999999999 7666655
No 102
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=37.45 E-value=18 Score=35.75 Aligned_cols=47 Identities=13% Similarity=0.080 Sum_probs=39.8
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccccccc
Q 024849 11 GVKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTN 59 (261)
Q Consensus 11 ~ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~ 59 (261)
+-....||.||--++-++...||. +..+|-++|+ .|+-..++..|..
T Consensus 184 ~~~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 184 TEFPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred CCCcccchHHHHHHHHHHHHHhcc-cHHHHHHHcc-CccHHHHHHHHHH
Confidence 334678999999999999999995 9999999998 8888777776653
No 103
>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=37.26 E-value=47 Score=27.44 Aligned_cols=29 Identities=10% Similarity=0.088 Sum_probs=23.8
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
|-...+||..+ |=|...|++|.+..+++-
T Consensus 154 ~~s~~EIA~~l-gis~~tv~~~l~rar~~L 182 (190)
T TIGR02939 154 GLSYEDIARIM-DCPVGTVRSRIFRAREAI 182 (190)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 56799999999 889999999987665543
No 104
>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=37.01 E-value=41 Score=25.18 Aligned_cols=31 Identities=26% Similarity=0.503 Sum_probs=24.6
Q ss_pred HHHHHHHHHHhCCChhHHhccCCCCCHHHHHH
Q 024849 75 EQLVIDLHARLGNRWSKIAARLPGRTDNEIKN 106 (261)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~ 106 (261)
|..|-.+....|.+|.++|+.| |=+...|.+
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4567778889999999999999 666665544
No 105
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=36.51 E-value=64 Score=20.63 Aligned_cols=35 Identities=29% Similarity=0.290 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHH
Q 024849 73 AEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHW 108 (261)
Q Consensus 73 EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw 108 (261)
-|-..|.++..++|++-++.|+.| |=+...+..|-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 367788899999999999999998 76666666554
No 106
>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=35.91 E-value=66 Score=26.19 Aligned_cols=30 Identities=17% Similarity=0.214 Sum_probs=24.3
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
.|-.-.+||..+ |-|...|++|....++.-
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~L 163 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKKL 163 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 366789999999 889999999987666543
No 107
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=35.83 E-value=71 Score=26.59 Aligned_cols=30 Identities=13% Similarity=0.201 Sum_probs=24.7
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
.|....+||..| |-+...|+.|.+..+++-
T Consensus 154 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~L 183 (189)
T PRK09648 154 VGLSAEETAEAV-GSTPGAVRVAQHRALARL 183 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 367799999999 999999999987665543
No 108
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=35.73 E-value=68 Score=26.85 Aligned_cols=29 Identities=24% Similarity=0.161 Sum_probs=24.2
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-...+||..| |-|...|++|....+++
T Consensus 121 ~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 121 EGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 467899999999 99999999998765544
No 109
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=35.58 E-value=72 Score=26.83 Aligned_cols=30 Identities=10% Similarity=0.047 Sum_probs=24.6
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
.|-...+||..| |-|...|+.|.+..++.-
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~L 185 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEKL 185 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHHH
Confidence 366789999999 999999999987666543
No 110
>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=35.54 E-value=74 Score=26.74 Aligned_cols=29 Identities=14% Similarity=0.037 Sum_probs=24.2
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|..-.+||..| |-|...|+.|....+++
T Consensus 146 ~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 146 LGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred hCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 467799999999 99999999998766554
No 111
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=34.91 E-value=79 Score=25.42 Aligned_cols=29 Identities=10% Similarity=-0.026 Sum_probs=23.6
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-.-.+||+.+ |-+...|++|....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 121 EEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 366789999999 99999999998755544
No 112
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=33.56 E-value=39 Score=34.56 Aligned_cols=46 Identities=15% Similarity=0.229 Sum_probs=34.1
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccCc---------cccccccccccccc
Q 024849 14 KGPWTADEDKKLVTFILTHGHCCWRAVPKLAGL---------RRCGKSCRLRWTNY 60 (261)
Q Consensus 14 kg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~---------~Rt~~qCr~Rw~~~ 60 (261)
|..||..|.+....+++.+|. +..+|-+.+-. .++-.|.|.+|++.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~ 142 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRL 142 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHH
Confidence 678999999999999999995 99888433221 23445777777654
No 113
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=33.53 E-value=71 Score=26.64 Aligned_cols=28 Identities=11% Similarity=0.128 Sum_probs=23.1
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-...+||..+ |-|...|++|....+++
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 56789999999 88999999998765544
No 114
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=33.36 E-value=82 Score=27.34 Aligned_cols=45 Identities=24% Similarity=0.302 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 68 GLLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 68 ~~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
...|+.|-+.|.-+.+ |-.=++||..| +.|...||++..+++++-
T Consensus 147 ~~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 147 ELLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHHc
Confidence 3689988887766655 66669999999 999999999999888773
No 115
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=33.34 E-value=80 Score=26.50 Aligned_cols=28 Identities=4% Similarity=-0.095 Sum_probs=23.5
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-...+||..| |-|...|+.|....++.
T Consensus 150 g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 150 ELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 66799999999 99999999997755543
No 116
>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=33.28 E-value=45 Score=25.11 Aligned_cols=30 Identities=33% Similarity=0.625 Sum_probs=22.6
Q ss_pred HHHHHHHHHhCCChhHHhccCCCCCHHHHHH
Q 024849 76 QLVIDLHARLGNRWSKIAARLPGRTDNEIKN 106 (261)
Q Consensus 76 ~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~ 106 (261)
+.|-.+....|.+|..+|..| |=+..+|..
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 345556678899999999999 777766654
No 117
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=33.10 E-value=71 Score=26.29 Aligned_cols=28 Identities=11% Similarity=0.041 Sum_probs=23.1
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|..-.+||..| |-|...|++|.+...++
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 56789999999 88999999998765544
No 118
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=32.02 E-value=86 Score=26.39 Aligned_cols=29 Identities=10% Similarity=-0.025 Sum_probs=23.7
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-...+||+.| |=+...|++|....+++
T Consensus 151 ~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 151 EGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 367799999999 99999999988765544
No 119
>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=31.85 E-value=48 Score=24.55 Aligned_cols=33 Identities=27% Similarity=0.578 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHH
Q 024849 72 EAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKN 106 (261)
Q Consensus 72 ~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~ 106 (261)
.||.++|+.. -..|.+|...|..| |=+...|++
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5788887732 24678999999999 777766654
No 120
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=31.65 E-value=92 Score=25.96 Aligned_cols=29 Identities=14% Similarity=0.141 Sum_probs=23.8
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-...+||..| |-|...|++|....+++
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 366799999999 88999999998765544
No 121
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=30.94 E-value=1e+02 Score=24.73 Aligned_cols=28 Identities=25% Similarity=0.381 Sum_probs=23.2
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.-.+||..| |-+...|+.|....++.
T Consensus 121 ~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 121 GLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 55679999999 99999999998765554
No 122
>PRK00118 putative DNA-binding protein; Validated
Probab=30.66 E-value=1.1e+02 Score=24.09 Aligned_cols=41 Identities=10% Similarity=0.089 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHH
Q 024849 72 EAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIK 113 (261)
Q Consensus 72 ~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk 113 (261)
++.+..++.+....|-.-.+||+.+ |-|...|+.+.....+
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArk 59 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEK 59 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3455666677777788899999999 9999999888765443
No 123
>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=30.66 E-value=97 Score=24.95 Aligned_cols=28 Identities=29% Similarity=0.283 Sum_probs=23.2
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.-.+||+.| |-+...|+.|....+++
T Consensus 138 g~s~~eIA~~l-~is~~tv~~~l~ra~~~ 165 (170)
T TIGR02952 138 NLPIAEVARIL-GKTEGAVKILQFRAIKK 165 (170)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 66789999999 99999999998665544
No 124
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=30.54 E-value=1e+02 Score=24.44 Aligned_cols=28 Identities=18% Similarity=0.245 Sum_probs=23.0
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.-.+||..+ |-+..+|++|-...+++
T Consensus 122 ~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 122 GKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 56689999999 99999999987765544
No 125
>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=30.53 E-value=57 Score=23.73 Aligned_cols=29 Identities=28% Similarity=0.606 Sum_probs=20.7
Q ss_pred HHHHHHHHHH-hCCChhHHhccCCCCCHHHH
Q 024849 75 EQLVIDLHAR-LGNRWSKIAARLPGRTDNEI 104 (261)
Q Consensus 75 D~~L~~lv~~-~G~~W~~IA~~l~gRT~~q~ 104 (261)
...|..++.. .|..|..+|..| |=+...|
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKL-GLSEADI 34 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHc-CCCHHHH
Confidence 4556666766 899999999999 4444443
No 126
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=29.43 E-value=1.1e+02 Score=24.61 Aligned_cols=29 Identities=24% Similarity=0.281 Sum_probs=24.1
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-.-.+||..+ |-+...|+.|....++.
T Consensus 128 ~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 128 DGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 467799999999 99999999998766543
No 127
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=29.27 E-value=91 Score=21.00 Aligned_cols=43 Identities=30% Similarity=0.376 Sum_probs=31.6
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 69 LLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
..|+.|-..|.-+.. |..=.+||..+ |.+...|+.+...+.++
T Consensus 3 ~LT~~E~~vl~~l~~--G~~~~eIA~~l-~is~~tV~~~~~~i~~K 45 (58)
T PF00196_consen 3 SLTERELEVLRLLAQ--GMSNKEIAEEL-GISEKTVKSHRRRIMKK 45 (58)
T ss_dssp SS-HHHHHHHHHHHT--TS-HHHHHHHH-TSHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHh--cCCcchhHHhc-CcchhhHHHHHHHHHHH
Confidence 356777666655544 66678999999 99999999998777665
No 128
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=29.23 E-value=80 Score=21.59 Aligned_cols=35 Identities=37% Similarity=0.578 Sum_probs=22.5
Q ss_pred CCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHH
Q 024849 70 LNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKN 106 (261)
Q Consensus 70 WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~ 106 (261)
.|..| +-.+.++.+.|-.=.+||+.+ ||+...|++
T Consensus 5 Lt~~E-qaqid~m~qlG~s~~~isr~i-~RSr~~Ir~ 39 (50)
T PF11427_consen 5 LTDAE-QAQIDVMHQLGMSLREISRRI-GRSRTCIRR 39 (50)
T ss_dssp --HHH-HHHHHHHHHTT--HHHHHHHH-T--HHHHHH
T ss_pred CCHHH-HHHHHHHHHhchhHHHHHHHh-CccHHHHHH
Confidence 45555 445667778898999999999 999987765
No 129
>PRK13722 lytic transglycosylase; Provisional
Probab=29.18 E-value=1.2e+02 Score=25.92 Aligned_cols=44 Identities=14% Similarity=0.310 Sum_probs=30.4
Q ss_pred HHHHHHHHhCCChhHHhccCCC--CCH--HHHHHHHHHHHHHHHhhCC
Q 024849 77 LVIDLHARLGNRWSKIAARLPG--RTD--NEIKNHWNTHIKKKLIKMG 120 (261)
Q Consensus 77 ~L~~lv~~~G~~W~~IA~~l~g--RT~--~q~k~Rw~~~lk~~~~k~~ 120 (261)
.|..++++||..|..|+.+=.| ++. ..-+.+|-..+.+.+...+
T Consensus 99 ~L~~~~~~~g~~w~AvaaYNaG~~~~~~~~~~r~~Ya~kV~~~y~~~~ 146 (169)
T PRK13722 99 YLAIAFKKWGVSWEAVGAYNAGFRKTERQNQRRLAYASEVYRIYTGIK 146 (169)
T ss_pred HHHHHHHHcCCchheeeecCCCCCccccchHHHHHHHHHHHHHHHHhc
Confidence 4567788999999999887654 322 4667777766666555433
No 130
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=28.93 E-value=98 Score=25.86 Aligned_cols=29 Identities=17% Similarity=0.133 Sum_probs=24.0
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
|-.-.+||..| |-|...|+.|....++.-
T Consensus 146 g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 174 (185)
T PRK09649 146 GLSYADAAAVC-GCPVGTIRSRVARARDAL 174 (185)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 56689999999 999999999987655543
No 131
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=28.91 E-value=88 Score=25.73 Aligned_cols=28 Identities=25% Similarity=0.358 Sum_probs=24.0
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.-.+||+.+ |-+...|++|....++.
T Consensus 135 g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 162 (172)
T PRK09651 135 GLTYSEIAHKL-GVSVSSVKKYVAKATEH 162 (172)
T ss_pred CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 56789999999 99999999998776654
No 132
>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=28.83 E-value=1.1e+02 Score=25.08 Aligned_cols=28 Identities=21% Similarity=0.287 Sum_probs=23.6
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-...+||..+ |-+...|+.|....++.
T Consensus 150 g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 177 (183)
T TIGR02999 150 GLTVEEIAELL-GVSVRTVERDWRFARAW 177 (183)
T ss_pred CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 56789999999 99999999998765544
No 133
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=28.79 E-value=65 Score=24.29 Aligned_cols=22 Identities=27% Similarity=0.536 Sum_probs=19.4
Q ss_pred HHHHHHHHHHhCCChhHHhccC
Q 024849 75 EQLVIDLHARLGNRWSKIAARL 96 (261)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~l 96 (261)
|.+|..+.+..|..|.++|..|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L 25 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL 25 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc
Confidence 5677788899999999999998
No 134
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=28.67 E-value=1.3e+02 Score=25.47 Aligned_cols=34 Identities=15% Similarity=0.060 Sum_probs=26.6
Q ss_pred HhCCChhHHhccCCCCCHHHHHHHHHHHHHHHHhh
Q 024849 84 RLGNRWSKIAARLPGRTDNEIKNHWNTHIKKKLIK 118 (261)
Q Consensus 84 ~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~~~k 118 (261)
..|-...+||..| |-|...|++|....++.-.+.
T Consensus 127 ~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~Lr~~ 160 (188)
T PRK12546 127 ASGFSYEEAAEMC-GVAVGTVKSRANRARARLAEL 160 (188)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHH
Confidence 3477799999999 999999999987766554433
No 135
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=28.40 E-value=1.1e+02 Score=25.37 Aligned_cols=30 Identities=13% Similarity=0.366 Sum_probs=24.5
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
.|-.-.+||..| |-|...|++|....+++-
T Consensus 137 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 166 (185)
T PRK12542 137 YNLTYQEISSVM-GITEANVRKQFERARKRV 166 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 466789999999 999999999987655543
No 136
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=28.37 E-value=1.1e+02 Score=25.16 Aligned_cols=28 Identities=18% Similarity=0.272 Sum_probs=23.6
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.-.+||..| |.|...|+.|....++.
T Consensus 145 g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 172 (179)
T PRK12514 145 GLSYKELAERH-DVPLNTMRTWLRRSLLK 172 (179)
T ss_pred CCCHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence 66789999999 99999999998765554
No 137
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=28.26 E-value=1.3e+02 Score=24.81 Aligned_cols=30 Identities=17% Similarity=0.134 Sum_probs=25.0
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
.|-.-.+||..| |.+...|++|-...+++-
T Consensus 144 ~g~s~~EIA~~l-~is~~tV~~~l~rar~~L 173 (181)
T PRK12536 144 EGLSVAETAQLT-GLSESAVKVGIHRGLKAL 173 (181)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 467799999999 999999999987665553
No 138
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=27.68 E-value=2.4e+02 Score=27.43 Aligned_cols=54 Identities=22% Similarity=0.207 Sum_probs=41.6
Q ss_pred CcCCCCCHHHHHHHHHHHHHhC----------------CChhHHhccC-----CCCCHHHHHHHHHHHHHHHHhh
Q 024849 65 LKRGLLNEAEEQLVIDLHARLG----------------NRWSKIAARL-----PGRTDNEIKNHWNTHIKKKLIK 118 (261)
Q Consensus 65 l~k~~WT~EED~~L~~lv~~~G----------------~~W~~IA~~l-----~gRT~~q~k~Rw~~~lk~~~~k 118 (261)
.--|.|++.=|+-..++.+.|. ++=..||+++ ..||.+||-.|-+.+-|++.++
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~re 148 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLRE 148 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHH
Confidence 3457899999999999988773 2357788876 3589999999988877776655
No 139
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=27.62 E-value=43 Score=34.07 Aligned_cols=48 Identities=15% Similarity=0.267 Sum_probs=42.9
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCccccccccCcccccccccccccc
Q 024849 10 LGVKKGPWTADEDKKLVTFILTHGHCCWRAVPKLAGLRRCGKSCRLRWTN 59 (261)
Q Consensus 10 p~ikkg~WT~eED~~L~~lv~~~g~~~W~~Ia~~~~~~Rt~~qCr~Rw~~ 59 (261)
+....++||.+|-++...+....|. +...|+...+ .|..+|++..+..
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 4566889999999999999999996 8999999998 9999999988764
No 140
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=27.04 E-value=1.3e+02 Score=24.89 Aligned_cols=29 Identities=10% Similarity=0.016 Sum_probs=23.2
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-.-.+||+.+ |-|...|+.|.+..+++
T Consensus 143 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 171 (186)
T PRK05602 143 QGLSNIEAAAVM-DISVDALESLLARGRRA 171 (186)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 366789999999 99999999987755544
No 141
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=27.01 E-value=1.2e+02 Score=25.53 Aligned_cols=29 Identities=21% Similarity=0.198 Sum_probs=23.9
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-...+||+.| |-+...|+.|-...++.
T Consensus 131 ~g~s~~EIA~~L-gis~~tVk~~l~Rar~~ 159 (187)
T PRK12516 131 SGFAYEEAAEIC-GCAVGTIKSRVNRARQR 159 (187)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 467799999999 99999999997765544
No 142
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=26.99 E-value=1.6e+02 Score=23.29 Aligned_cols=47 Identities=13% Similarity=0.346 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHHh------------CC-----------------C--hhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 69 LLNEAEEQLVIDLHARL------------GN-----------------R--WSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~------------G~-----------------~--W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
.+|.+||-.|-..|.++ |. . ....+...|..|.++=|.||++.+...
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~~ 78 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSEY 78 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHHH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHHc
Confidence 37999999998888664 11 1 566778889999999999999877653
No 143
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=26.95 E-value=1.5e+02 Score=23.98 Aligned_cols=30 Identities=20% Similarity=0.152 Sum_probs=24.5
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
.|-.-.+||..+ |-+...|++|-...+++-
T Consensus 127 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~~L 156 (164)
T PRK12547 127 SGFSYEDAAAIC-GCAVGTIKSRVSRARNRL 156 (164)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 366789999999 999999999987666543
No 144
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=26.62 E-value=70 Score=23.99 Aligned_cols=21 Identities=29% Similarity=0.615 Sum_probs=18.8
Q ss_pred HHHHHHHHHhCCChhHHhccC
Q 024849 76 QLVIDLHARLGNRWSKIAARL 96 (261)
Q Consensus 76 ~~L~~lv~~~G~~W~~IA~~l 96 (261)
..|..+....|..|..+|..|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 457888999999999999998
No 145
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=26.61 E-value=1.3e+02 Score=25.81 Aligned_cols=44 Identities=16% Similarity=0.188 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 69 LLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
..|+-|-+.|.-+++ |..-++||+.| +-|...|+++-.+++++-
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 489999887766665 77779999999 999999999887776663
No 146
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=26.48 E-value=1.2e+02 Score=25.72 Aligned_cols=27 Identities=15% Similarity=-0.013 Sum_probs=22.4
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIK 113 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk 113 (261)
|-.-.+||..+ |.+...|+.|....++
T Consensus 155 g~s~~EIA~~l-gis~~tVk~~l~RAr~ 181 (201)
T PRK12545 155 DFEIDDICTEL-TLTANHCSVLLYRART 181 (201)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 56789999999 9999999999765444
No 147
>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=25.89 E-value=1.3e+02 Score=24.20 Aligned_cols=36 Identities=14% Similarity=0.143 Sum_probs=26.9
Q ss_pred HHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 79 IDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 79 ~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
+.+.--.|-.=.+||..| |-+...|+.|....+++-
T Consensus 119 ~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~L 154 (162)
T TIGR02983 119 VVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALARL 154 (162)
T ss_pred hhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 333333466789999999 999999999987766553
No 148
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=25.61 E-value=69 Score=20.76 Aligned_cols=36 Identities=28% Similarity=0.382 Sum_probs=18.1
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHH
Q 024849 69 LLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKN 106 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~ 106 (261)
.+|.+|-..|..++ .-|..=.+||+.| ||+...|.+
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 5677789999999 999988865
No 149
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=25.32 E-value=1.4e+02 Score=24.94 Aligned_cols=28 Identities=11% Similarity=-0.106 Sum_probs=23.2
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.-.+||..| |-|...|++|....+++
T Consensus 147 g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 174 (191)
T PRK12520 147 ELETEEICQEL-QITATNAWVLLYRARMR 174 (191)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 56689999999 99999999998765543
No 150
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=25.14 E-value=1.4e+02 Score=24.64 Aligned_cols=29 Identities=17% Similarity=0.180 Sum_probs=23.6
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
|-.=.+||..+ |-|...|+.|.+..+++-
T Consensus 151 ~~s~~eIA~~l-gis~~~V~~~l~ra~~~L 179 (186)
T PRK13919 151 GYTHREAAQLL-GLPLGTLKTRARRALSRL 179 (186)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 56689999999 999999999987665543
No 151
>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=24.90 E-value=1.4e+02 Score=27.13 Aligned_cols=30 Identities=20% Similarity=0.224 Sum_probs=24.5
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
.|-.-.+||..| |.|...||+|....+++-
T Consensus 157 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 186 (324)
T TIGR02960 157 LGWRAAETAELL-GTSTASVNSALQRARATL 186 (324)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 366789999999 999999999987655543
No 152
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=24.83 E-value=75 Score=22.90 Aligned_cols=32 Identities=22% Similarity=0.547 Sum_probs=21.9
Q ss_pred HHHHHHHHHHhCCChhHHhccCCC---CCHHHHHHHH
Q 024849 75 EQLVIDLHARLGNRWSKIAARLPG---RTDNEIKNHW 108 (261)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~l~g---RT~~q~k~Rw 108 (261)
+.+|-++|..|| |...++.++= .++-.|+.--
T Consensus 12 e~il~~Lv~~yG--W~~L~~~i~i~CF~~~PsikSSL 46 (64)
T PF09905_consen 12 ETILTELVEHYG--WEELGERININCFKNNPSIKSSL 46 (64)
T ss_dssp HHHHHHHHHHT---HHHHHHHTTSSSTTSS--HHHHH
T ss_pred HHHHHHHHHHhC--HHHHHhhcccccCCCCCchHHHH
Confidence 578889999998 9999998854 3455565543
No 153
>PRK01905 DNA-binding protein Fis; Provisional
Probab=24.37 E-value=1.6e+02 Score=21.36 Aligned_cols=37 Identities=22% Similarity=0.240 Sum_probs=28.2
Q ss_pred CHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHH
Q 024849 71 NEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHW 108 (261)
Q Consensus 71 T~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw 108 (261)
..-|...+.+++..+|.+.++.|+.+ |=+...++.+-
T Consensus 35 ~~~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~rkl 71 (77)
T PRK01905 35 SCVEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRKKL 71 (77)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHH
Confidence 34467788899999999999999998 66666555543
No 154
>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=24.33 E-value=49 Score=26.29 Aligned_cols=28 Identities=18% Similarity=0.141 Sum_probs=23.4
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.+.+||..| |-|..+|++|.....++
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 55799999999 99999999998766544
No 155
>PRK15328 invasion protein IagB; Provisional
Probab=24.18 E-value=1.2e+02 Score=25.71 Aligned_cols=43 Identities=16% Similarity=0.374 Sum_probs=31.4
Q ss_pred HHHHHHHHhCCChhHHhccC--CCCCHHHHHHHHHHHHHHHHhhC
Q 024849 77 LVIDLHARLGNRWSKIAARL--PGRTDNEIKNHWNTHIKKKLIKM 119 (261)
Q Consensus 77 ~L~~lv~~~G~~W~~IA~~l--~gRT~~q~k~Rw~~~lk~~~~k~ 119 (261)
.|..++.+||+.|..|+.+= +++.....+.+|-..+.+...+.
T Consensus 98 ~L~~~~~~~g~~~~alaaYNaG~~~~~~~~~~~Y~~kV~~~y~~l 142 (160)
T PRK15328 98 ILSDMMKIYGYSWEAVGAYNAGTSPKRSDIRKRYAKKIWENYRKL 142 (160)
T ss_pred HHHHHHHHcCChHHhhhhccCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 56788899999999999875 34555566778877776665553
No 156
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=24.15 E-value=1.9e+02 Score=25.42 Aligned_cols=44 Identities=20% Similarity=0.261 Sum_probs=35.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 68 GLLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 68 ~~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
...|+.|-+.|.-+.+ |....+||+.| +-|...|+++-..++++
T Consensus 132 ~~LSpRErEVLrLLAq--GkTnKEIAe~L-~IS~rTVkth~srImkK 175 (198)
T PRK15201 132 RHFSVTERHLLKLIAS--GYHLSETAALL-SLSEEQTKSLRRSIMRK 175 (198)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3488888776665554 88899999999 99999999987776665
No 157
>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=24.02 E-value=57 Score=23.61 Aligned_cols=19 Identities=16% Similarity=0.354 Sum_probs=15.2
Q ss_pred HHHHHHHHHhCCChhHHhc
Q 024849 76 QLVIDLHARLGNRWSKIAA 94 (261)
Q Consensus 76 ~~L~~lv~~~G~~W~~IA~ 94 (261)
..|.+|.+.||++|.-|-.
T Consensus 30 ~vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 30 PVLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHHcCCchhhhc
Confidence 3567888899999999864
No 158
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=23.75 E-value=1.8e+02 Score=24.01 Aligned_cols=29 Identities=28% Similarity=0.354 Sum_probs=24.2
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
|-.-.+||+.+ |-|...|++|....+++-
T Consensus 149 ~~s~~eIA~~l-gis~~tV~~~l~ra~~~L 177 (182)
T PRK12537 149 GCSHAEIAQRL-GAPLGTVKAWIKRSLKAL 177 (182)
T ss_pred CCCHHHHHHHH-CCChhhHHHHHHHHHHHH
Confidence 56689999999 999999999988776553
No 159
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=23.73 E-value=1.8e+02 Score=24.27 Aligned_cols=28 Identities=36% Similarity=0.495 Sum_probs=22.7
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.=.+||+.+ |.|...|++|-...+++
T Consensus 147 g~s~~EIAe~l-gis~~~V~~~l~Ra~~~ 174 (189)
T PRK06811 147 GEKIEEIAKKL-GLTRSAIDNRLSRGRKK 174 (189)
T ss_pred cCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55678999999 99999999997665444
No 160
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=23.72 E-value=1.9e+02 Score=24.15 Aligned_cols=29 Identities=17% Similarity=0.280 Sum_probs=23.3
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
|-.-.+||+.| |-+...||+|-...+++-
T Consensus 158 ~~s~~EIA~~L-gis~~tVk~~l~ra~~~L 186 (194)
T PRK09646 158 GLTYREVAERL-AVPLGTVKTRMRDGLIRL 186 (194)
T ss_pred CCCHHHHHHHh-CCChHhHHHHHHHHHHHH
Confidence 56789999999 889999999876655543
No 161
>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=23.12 E-value=1.6e+02 Score=24.16 Aligned_cols=29 Identities=17% Similarity=0.501 Sum_probs=23.8
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-.-.+||..+ |-|...|+.+....+++
T Consensus 155 ~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 155 EGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466789999999 99999999998766554
No 162
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=22.86 E-value=1.8e+02 Score=22.30 Aligned_cols=35 Identities=14% Similarity=0.140 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHH
Q 024849 73 AEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHW 108 (261)
Q Consensus 73 EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw 108 (261)
-|...|..++..+|++..+.|+.+ |=+...++.|-
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L-GIsRsTL~rKL 89 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML-GINRGTLRKKL 89 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHH
Confidence 477788899999999999999999 66666655543
No 163
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=22.17 E-value=1.3e+02 Score=25.02 Aligned_cols=28 Identities=32% Similarity=0.302 Sum_probs=22.5
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.=.+||..| |-|...|+.|....+++
T Consensus 157 g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 184 (194)
T PRK12519 157 GLSQSEIAKRL-GIPLGTVKARARQGLLK 184 (194)
T ss_pred CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 56679999999 88999999887665554
No 164
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=22.12 E-value=96 Score=30.99 Aligned_cols=41 Identities=17% Similarity=0.276 Sum_probs=36.5
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhcc-CCCCCHHHHHHHHH
Q 024849 69 LLNEAEEQLVIDLHARLGNRWSKIAAR-LPGRTDNEIKNHWN 109 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~G~~W~~IA~~-l~gRT~~q~k~Rw~ 109 (261)
.|+..|-.+.-++..+||..+..|... ||-++-..|-.-|+
T Consensus 287 EWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 287 EWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 599999999999999999999999775 59999998887765
No 165
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=21.96 E-value=85 Score=27.35 Aligned_cols=28 Identities=14% Similarity=0.156 Sum_probs=23.0
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.-.+||+.| |.|..+|++|.+..+++
T Consensus 165 g~s~~EIAe~l-gis~~tVk~~l~Rar~k 192 (231)
T PRK11922 165 ELSVEETAQAL-GLPEETVKTRLHRARRL 192 (231)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 56689999999 99999999998755543
No 166
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=21.52 E-value=85 Score=25.61 Aligned_cols=30 Identities=23% Similarity=0.348 Sum_probs=23.9
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
+|-...+||+.| |-+...|+.+....++.-
T Consensus 141 ~g~s~~eIA~~l-~is~~~V~~~l~ra~~~l 170 (176)
T PRK09638 141 YGYTYEEIAKML-NIPEGTVKSRVHHGIKQL 170 (176)
T ss_pred cCCCHHHHHHHH-CCChhHHHHHHHHHHHHH
Confidence 366789999999 889999999887655543
No 167
>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=21.19 E-value=1.9e+02 Score=27.39 Aligned_cols=86 Identities=15% Similarity=0.297 Sum_probs=59.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCc---cccccccCccccccccccccccccCCCCcCCCCCHHHHHHHHHHHHH-h----
Q 024849 14 KGPWTADEDKKLVTFILTHGHCCW---RAVPKLAGLRRCGKSCRLRWTNYLRPDLKRGLLNEAEEQLVIDLHAR-L---- 85 (261)
Q Consensus 14 kg~WT~eED~~L~~lv~~~g~~~W---~~Ia~~~~~~Rt~~qCr~Rw~~~L~p~l~k~~WT~EED~~L~~lv~~-~---- 85 (261)
...||.-|...|+.+.+....... .+|++.+. +|+..++++-- +.|+ +..+.+++++ |
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~fl-~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRDFL-QQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHHHH-HHHH------------HHHHHHHHHHhccccc
Confidence 568999999999999987633344 35666777 88888877642 2332 2444555555 2
Q ss_pred -CCC------------hhHHhccCCCCCHHHHHHHHHHHHH
Q 024849 86 -GNR------------WSKIAARLPGRTDNEIKNHWNTHIK 113 (261)
Q Consensus 86 -G~~------------W~~IA~~l~gRT~~q~k~Rw~~~lk 113 (261)
|.+ |..+|+.+.|.-...+-.-|-..|.
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 211 9999999999999888888866654
No 168
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=21.11 E-value=1.6e+02 Score=24.31 Aligned_cols=28 Identities=18% Similarity=0.168 Sum_probs=22.7
Q ss_pred CCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 86 GNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 86 G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
|-.-.+||+.| |-+...|+.|....+++
T Consensus 143 g~s~~EIA~~l-~is~~tv~~~l~Ra~~~ 170 (179)
T PRK09415 143 ELSIKEIAEVT-GVNENTVKTRLKKAKEL 170 (179)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55678999999 88999999998766554
No 169
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=20.82 E-value=1.9e+02 Score=23.23 Aligned_cols=29 Identities=24% Similarity=0.354 Sum_probs=23.4
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKK 114 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~ 114 (261)
.|-.=.+||..| |-|...|+++....+++
T Consensus 126 ~g~s~~eIA~~l-gis~~tV~~~i~ra~~~ 154 (166)
T PRK09639 126 SGYSYKEIAEAL-GIKESSVGTTLARAKKK 154 (166)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 566678999999 99999999998765544
No 170
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=20.66 E-value=1.9e+02 Score=25.17 Aligned_cols=44 Identities=27% Similarity=0.295 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHHHHHhCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 69 LLNEAEEQLVIDLHARLGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 69 ~WT~EED~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
..|+.|-+.|. ++.+ |..-.+||+.| +-+...|+++-..++++-
T Consensus 155 ~Lt~rE~~Vl~-l~~~-G~s~~eIA~~L-~iS~~TVk~~~~~i~~Kl 198 (216)
T PRK10100 155 LLTHREKEILN-KLRI-GASNNEIARSL-FISENTVKTHLYNLFKKI 198 (216)
T ss_pred CCCHHHHHHHH-HHHc-CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 47876666554 4444 88889999999 999999999988777664
No 171
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=20.65 E-value=95 Score=20.00 Aligned_cols=30 Identities=27% Similarity=0.356 Sum_probs=18.9
Q ss_pred HHHHHHHHHHhCCChhHHhccCCCCCHHHHHH
Q 024849 75 EQLVIDLHARLGNRWSKIAARLPGRTDNEIKN 106 (261)
Q Consensus 75 D~~L~~lv~~~G~~W~~IA~~l~gRT~~q~k~ 106 (261)
-..++.++.. |....+||+.+ |-+...|.+
T Consensus 7 R~~ii~l~~~-G~s~~~ia~~l-gvs~~Tv~~ 36 (50)
T PF13384_consen 7 RAQIIRLLRE-GWSIREIAKRL-GVSRSTVYR 36 (50)
T ss_dssp ---HHHHHHH-T--HHHHHHHH-TS-HHHHHH
T ss_pred HHHHHHHHHC-CCCHHHHHHHH-CcCHHHHHH
Confidence 3455666666 98899999999 777777655
No 172
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=20.61 E-value=2.1e+02 Score=25.79 Aligned_cols=30 Identities=23% Similarity=0.338 Sum_probs=24.4
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
+|-.-.+||+.| |.|...||+|.+...++-
T Consensus 130 ~g~s~~EIA~~l-g~s~~tVk~~l~RAr~~L 159 (293)
T PRK09636 130 FGVPFDEIASTL-GRSPAACRQLASRARKHV 159 (293)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 366789999999 999999999987655443
No 173
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=20.15 E-value=1.7e+02 Score=25.47 Aligned_cols=30 Identities=20% Similarity=0.247 Sum_probs=24.7
Q ss_pred hCCChhHHhccCCCCCHHHHHHHHHHHHHHH
Q 024849 85 LGNRWSKIAARLPGRTDNEIKNHWNTHIKKK 115 (261)
Q Consensus 85 ~G~~W~~IA~~l~gRT~~q~k~Rw~~~lk~~ 115 (261)
.|-.-.+||..+ |-|...|+.+.+..+++-
T Consensus 199 ~g~s~~EIA~~l-gis~~tV~~~~~ra~~~L 228 (236)
T PRK06986 199 EELNLKEIGAVL-GVSESRVSQIHSQAIKRL 228 (236)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 356789999999 999999999987666654
No 174
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=20.01 E-value=1e+02 Score=21.83 Aligned_cols=19 Identities=37% Similarity=0.770 Sum_probs=15.6
Q ss_pred HHHHHHHhCCChhHHhccC
Q 024849 78 VIDLHARLGNRWSKIAARL 96 (261)
Q Consensus 78 L~~lv~~~G~~W~~IA~~l 96 (261)
+..+....|..|..+|..+
T Consensus 2 ~~~ia~~lg~~W~~la~~L 20 (79)
T cd01670 2 LDKLAKKLGKDWKKLARKL 20 (79)
T ss_pred HHHHHHHHhhHHHHHHHHh
Confidence 3456677899999999998
Done!