Query 047269
Match_columns 217
No_of_seqs 272 out of 1395
Neff 6.9
Searched_HMMs 46136
Date Fri Mar 29 09:23:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047269.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047269hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 100.0 2.5E-35 5.3E-40 249.7 11.1 110 4-113 20-129 (249)
2 KOG0048 Transcription factor, 100.0 1.9E-34 4.1E-39 247.4 10.7 110 6-115 6-115 (238)
3 PLN03091 hypothetical protein; 100.0 2.6E-33 5.5E-38 253.0 12.3 109 5-113 10-118 (459)
4 KOG0049 Transcription factor, 99.8 1.6E-20 3.5E-25 175.5 7.2 98 4-102 355-453 (939)
5 KOG0049 Transcription factor, 99.7 4.2E-18 9E-23 159.6 7.5 105 7-112 303-411 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.7 3E-18 6.5E-23 116.7 4.8 60 12-73 1-60 (60)
7 KOG0050 mRNA splicing protein 99.6 8.3E-17 1.8E-21 147.7 3.4 105 7-113 5-109 (617)
8 COG5147 REB1 Myb superfamily p 99.6 4.1E-16 8.8E-21 145.3 6.9 106 6-112 17-122 (512)
9 KOG0051 RNA polymerase I termi 99.6 2.1E-15 4.6E-20 141.9 6.5 104 8-114 383-514 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.5 2.8E-15 6.1E-20 97.9 2.0 48 9-56 1-48 (48)
11 PF00249 Myb_DNA-binding: Myb- 99.5 2.2E-14 4.9E-19 93.6 4.7 46 62-107 1-48 (48)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.4 4.8E-13 1E-17 90.9 4.7 46 65-110 1-46 (60)
13 PLN03212 Transcription repress 99.3 1.9E-12 4.2E-17 110.4 6.2 68 39-114 10-79 (249)
14 smart00717 SANT SANT SWI3, AD 99.3 3.3E-12 7.1E-17 81.7 5.4 47 62-108 1-48 (49)
15 smart00717 SANT SANT SWI3, AD 99.2 5.8E-12 1.3E-16 80.5 3.3 48 9-57 1-48 (49)
16 cd00167 SANT 'SWI3, ADA2, N-Co 99.2 3E-11 6.5E-16 76.0 5.4 44 64-107 1-45 (45)
17 KOG0048 Transcription factor, 99.2 2.2E-11 4.7E-16 104.7 4.5 56 59-114 6-63 (238)
18 PLN03091 hypothetical protein; 99.2 2.9E-11 6.4E-16 110.3 5.0 57 57-113 9-67 (459)
19 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 4.8E-11 1E-15 75.1 2.9 45 11-56 1-45 (45)
20 KOG0051 RNA polymerase I termi 99.0 6E-10 1.3E-14 105.4 6.2 109 7-117 306-438 (607)
21 COG5147 REB1 Myb superfamily p 98.6 6.6E-09 1.4E-13 97.4 -1.9 98 8-108 290-397 (512)
22 TIGR01557 myb_SHAQKYF myb-like 98.3 5.8E-07 1.3E-11 60.8 3.2 49 8-56 2-54 (57)
23 KOG0457 Histone acetyltransfer 98.3 4.6E-07 9.9E-12 82.8 3.2 50 6-56 69-118 (438)
24 KOG0457 Histone acetyltransfer 97.9 1.3E-05 2.8E-10 73.4 5.4 49 59-107 69-118 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.9 3.5E-05 7.6E-10 52.1 5.5 46 62-107 3-54 (57)
26 KOG0050 mRNA splicing protein 97.7 2.1E-05 4.5E-10 73.4 3.0 54 60-113 5-59 (617)
27 PF13325 MCRS_N: N-terminal re 97.7 0.00012 2.6E-09 61.3 6.9 96 11-108 1-127 (199)
28 COG5259 RSC8 RSC chromatin rem 97.7 1.8E-05 3.9E-10 73.1 2.0 47 7-55 277-323 (531)
29 KOG1279 Chromatin remodeling f 97.5 5.9E-05 1.3E-09 71.2 2.8 48 6-55 250-297 (506)
30 TIGR02894 DNA_bind_RsfA transc 97.5 0.00014 3.1E-09 58.7 4.0 52 61-113 3-61 (161)
31 PF13837 Myb_DNA-bind_4: Myb/S 97.4 0.00019 4.1E-09 51.8 3.6 53 63-115 2-72 (90)
32 COG5259 RSC8 RSC chromatin rem 97.3 0.00019 4.2E-09 66.4 4.1 44 63-106 280-323 (531)
33 KOG1279 Chromatin remodeling f 97.3 0.00031 6.7E-09 66.4 5.2 47 61-107 252-298 (506)
34 PF08914 Myb_DNA-bind_2: Rap1 96.9 0.0016 3.4E-08 45.2 4.3 50 62-111 2-61 (65)
35 COG5114 Histone acetyltransfer 96.9 0.00042 9.2E-09 61.6 1.4 49 8-57 62-110 (432)
36 PF08914 Myb_DNA-bind_2: Rap1 96.8 0.00093 2E-08 46.3 2.4 52 9-60 2-61 (65)
37 PRK13923 putative spore coat p 96.8 0.0014 3E-08 53.6 3.7 52 60-112 3-61 (170)
38 PF13837 Myb_DNA-bind_4: Myb/S 96.7 0.00066 1.4E-08 48.9 1.2 47 9-55 1-63 (90)
39 TIGR02894 DNA_bind_RsfA transc 96.7 0.00075 1.6E-08 54.6 1.5 49 7-57 2-56 (161)
40 PLN03142 Probable chromatin-re 96.5 0.0098 2.1E-07 60.9 8.0 99 11-110 826-987 (1033)
41 COG5114 Histone acetyltransfer 96.3 0.0038 8.3E-08 55.6 3.6 47 62-108 63-110 (432)
42 PF13873 Myb_DNA-bind_5: Myb/S 96.3 0.0077 1.7E-07 42.5 4.4 48 62-109 2-71 (78)
43 PF13873 Myb_DNA-bind_5: Myb/S 96.0 0.003 6.5E-08 44.6 1.1 49 8-56 1-69 (78)
44 PRK13923 putative spore coat p 95.7 0.0035 7.7E-08 51.3 0.6 49 7-57 3-57 (170)
45 KOG2656 DNA methyltransferase 94.4 0.051 1.1E-06 49.7 4.2 82 31-113 75-187 (445)
46 PF09111 SLIDE: SLIDE; InterP 94.3 0.08 1.7E-06 40.9 4.5 52 59-110 46-113 (118)
47 KOG4282 Transcription factor G 93.5 0.15 3.1E-06 46.0 5.5 52 62-113 54-119 (345)
48 COG5118 BDP1 Transcription ini 93.2 0.14 3E-06 46.9 4.7 45 63-107 366-410 (507)
49 PF12776 Myb_DNA-bind_3: Myb/S 92.1 0.38 8.2E-06 34.8 5.1 46 64-109 1-64 (96)
50 PF09111 SLIDE: SLIDE; InterP 91.2 0.2 4.4E-06 38.7 2.9 47 6-52 46-106 (118)
51 COG5118 BDP1 Transcription ini 90.8 0.17 3.8E-06 46.2 2.5 62 10-73 366-435 (507)
52 KOG1194 Predicted DNA-binding 90.3 1.2 2.7E-05 41.7 7.5 48 61-108 186-233 (534)
53 PF11626 Rap1_C: TRF2-interact 86.3 0.88 1.9E-05 33.0 3.2 24 6-29 44-75 (87)
54 PF08281 Sigma70_r4_2: Sigma-7 86.1 1.6 3.6E-05 28.0 4.2 41 68-109 13-53 (54)
55 smart00595 MADF subfamily of S 84.9 1.1 2.5E-05 31.8 3.3 26 84-110 30-55 (89)
56 KOG4167 Predicted DNA-binding 84.4 0.61 1.3E-05 46.0 2.0 44 9-54 619-662 (907)
57 KOG4282 Transcription factor G 84.4 0.72 1.6E-05 41.5 2.4 46 10-55 55-112 (345)
58 PF13404 HTH_AsnC-type: AsnC-t 81.6 0.96 2.1E-05 28.3 1.5 38 15-54 3-40 (42)
59 KOG4468 Polycomb-group transcr 79.4 3.3 7.2E-05 40.2 4.9 48 62-109 88-145 (782)
60 PF13404 HTH_AsnC-type: AsnC-t 78.2 4 8.8E-05 25.5 3.6 38 68-106 3-41 (42)
61 PF12776 Myb_DNA-bind_3: Myb/S 76.6 1.6 3.4E-05 31.5 1.6 44 11-54 1-60 (96)
62 PLN03142 Probable chromatin-re 75.1 3.7 7.9E-05 42.7 4.2 34 6-39 923-956 (1033)
63 PF11035 SnAPC_2_like: Small n 74.6 14 0.00029 33.4 7.1 85 10-108 22-127 (344)
64 KOG4167 Predicted DNA-binding 72.8 6.3 0.00014 39.2 5.0 45 62-106 619-663 (907)
65 PRK11179 DNA-binding transcrip 72.7 2.1 4.6E-05 34.0 1.5 45 14-60 8-52 (153)
66 KOG2009 Transcription initiati 71.6 5.2 0.00011 38.8 4.1 45 61-105 408-452 (584)
67 PF13325 MCRS_N: N-terminal re 70.7 9.8 0.00021 32.1 5.1 43 64-107 1-46 (199)
68 PRK11179 DNA-binding transcrip 69.9 9.1 0.0002 30.3 4.6 42 68-110 9-51 (153)
69 KOG4329 DNA-binding protein [G 69.8 9.3 0.0002 35.1 5.1 44 63-106 278-322 (445)
70 KOG0384 Chromodomain-helicase 69.1 5.6 0.00012 41.8 3.9 75 8-91 1132-1209(1373)
71 KOG1194 Predicted DNA-binding 68.1 3.7 8E-05 38.7 2.2 45 8-54 186-230 (534)
72 PRK11169 leucine-responsive tr 68.0 2.2 4.8E-05 34.3 0.7 46 14-61 13-58 (164)
73 PF11626 Rap1_C: TRF2-interact 67.2 6.1 0.00013 28.5 2.8 17 58-74 43-59 (87)
74 PF04545 Sigma70_r4: Sigma-70, 66.8 12 0.00025 23.6 3.8 41 68-109 7-47 (50)
75 PRK11169 leucine-responsive tr 66.3 9.1 0.0002 30.7 4.0 44 67-111 13-57 (164)
76 PF07750 GcrA: GcrA cell cycle 64.4 6.9 0.00015 31.8 2.9 41 64-105 2-42 (162)
77 KOG2656 DNA methyltransferase 64.3 4 8.6E-05 37.7 1.6 48 7-55 128-180 (445)
78 KOG4329 DNA-binding protein [G 63.7 5.7 0.00012 36.5 2.5 42 11-54 279-321 (445)
79 PF01388 ARID: ARID/BRIGHT DNA 62.4 4.2 9.1E-05 29.2 1.2 39 19-57 40-89 (92)
80 PF01388 ARID: ARID/BRIGHT DNA 59.0 22 0.00047 25.4 4.5 38 72-109 40-90 (92)
81 PF11035 SnAPC_2_like: Small n 58.3 36 0.00078 30.8 6.5 46 62-107 21-70 (344)
82 PF08281 Sigma70_r4_2: Sigma-7 57.7 4.4 9.6E-05 25.9 0.6 38 14-54 12-49 (54)
83 PF04504 DUF573: Protein of un 57.4 16 0.00035 27.0 3.6 50 63-112 5-67 (98)
84 TIGR02985 Sig70_bacteroi1 RNA 56.9 21 0.00047 27.2 4.5 29 80-109 128-156 (161)
85 KOG4468 Polycomb-group transcr 54.6 10 0.00022 37.0 2.6 48 8-56 87-143 (782)
86 smart00501 BRIGHT BRIGHT, ARID 54.0 27 0.00059 25.1 4.3 38 72-109 36-86 (93)
87 PF10545 MADF_DNA_bdg: Alcohol 52.4 12 0.00026 25.6 2.2 28 83-110 28-56 (85)
88 cd08319 Death_RAIDD Death doma 51.6 19 0.00042 25.9 3.1 29 70-99 2-30 (83)
89 PRK09413 IS2 repressor TnpA; R 51.1 48 0.001 25.1 5.5 46 7-56 8-53 (121)
90 PF09420 Nop16: Ribosome bioge 49.7 42 0.00091 27.0 5.2 47 61-107 113-163 (164)
91 KOG3554 Histone deacetylase co 45.4 31 0.00068 32.9 4.2 42 64-105 287-329 (693)
92 smart00344 HTH_ASNC helix_turn 44.6 45 0.00098 24.2 4.3 43 68-111 3-46 (108)
93 COG1522 Lrp Transcriptional re 43.3 13 0.00029 28.8 1.3 43 15-59 8-50 (154)
94 cd08803 Death_ank3 Death domai 42.8 36 0.00079 24.5 3.4 29 70-99 4-32 (84)
95 PF09420 Nop16: Ribosome bioge 42.8 27 0.00058 28.1 3.1 48 7-55 112-162 (164)
96 smart00344 HTH_ASNC helix_turn 41.8 19 0.0004 26.3 1.8 43 15-59 3-45 (108)
97 TIGR02937 sigma70-ECF RNA poly 40.7 56 0.0012 24.1 4.4 30 79-109 124-153 (158)
98 KOG2009 Transcription initiati 40.1 23 0.00049 34.5 2.5 47 6-54 406-452 (584)
99 PF07750 GcrA: GcrA cell cycle 38.9 29 0.00064 28.1 2.7 38 11-51 2-39 (162)
100 PF02954 HTH_8: Bacterial regu 38.6 56 0.0012 19.9 3.4 35 68-103 5-39 (42)
101 cd08317 Death_ank Death domain 38.2 32 0.0007 24.3 2.6 29 70-99 4-32 (84)
102 PF10440 WIYLD: Ubiquitin-bind 38.1 24 0.00052 24.4 1.8 18 72-89 31-48 (65)
103 PRK09652 RNA polymerase sigma 38.1 65 0.0014 25.0 4.6 29 80-109 143-171 (182)
104 PRK11924 RNA polymerase sigma 35.0 64 0.0014 25.0 4.1 29 80-109 140-168 (179)
105 PRK04217 hypothetical protein; 35.0 91 0.002 23.7 4.7 45 63-109 41-85 (110)
106 PRK09643 RNA polymerase sigma 34.1 71 0.0015 25.8 4.3 27 80-107 149-175 (192)
107 cd06171 Sigma70_r4 Sigma70, re 33.6 96 0.0021 18.4 4.0 36 70-106 15-50 (55)
108 PRK09641 RNA polymerase sigma 33.4 71 0.0015 25.2 4.2 29 80-109 151-179 (187)
109 PF07638 Sigma70_ECF: ECF sigm 32.9 87 0.0019 25.3 4.7 34 73-107 143-176 (185)
110 cd08318 Death_NMPP84 Death dom 32.2 56 0.0012 23.4 3.0 25 74-99 11-35 (86)
111 cd08804 Death_ank2 Death domai 30.3 62 0.0013 23.1 2.9 31 70-101 4-34 (84)
112 smart00351 PAX Paired Box doma 30.0 1.7E+02 0.0037 22.2 5.6 73 7-81 13-92 (125)
113 PRK12523 RNA polymerase sigma 30.0 98 0.0021 24.3 4.4 29 80-109 134-162 (172)
114 KOG0385 Chromatin remodeling c 29.6 46 0.001 33.8 2.8 95 11-107 797-956 (971)
115 TIGR02939 RpoE_Sigma70 RNA pol 29.5 69 0.0015 25.4 3.5 28 81-109 154-181 (190)
116 TIGR02954 Sig70_famx3 RNA poly 29.4 92 0.002 24.3 4.2 29 80-109 134-162 (169)
117 PRK09047 RNA polymerase factor 28.6 1.1E+02 0.0025 23.3 4.5 29 80-109 121-149 (161)
118 cd08311 Death_p75NR Death doma 28.6 52 0.0011 23.3 2.3 33 67-101 2-34 (77)
119 COG1522 Lrp Transcriptional re 28.2 1.1E+02 0.0024 23.4 4.4 43 68-111 8-51 (154)
120 PRK12531 RNA polymerase sigma 27.8 1.1E+02 0.0024 24.6 4.4 28 81-109 157-184 (194)
121 cd08777 Death_RIP1 Death Domai 27.5 65 0.0014 23.2 2.7 28 73-101 5-32 (86)
122 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 27.1 1.2E+02 0.0025 19.8 3.5 35 68-103 7-41 (50)
123 PRK09637 RNA polymerase sigma 26.9 1.1E+02 0.0024 24.5 4.2 29 80-109 121-149 (181)
124 PRK09645 RNA polymerase sigma 26.9 1.2E+02 0.0025 23.7 4.3 28 81-109 134-161 (173)
125 PRK09642 RNA polymerase sigma 26.9 1.2E+02 0.0026 23.3 4.4 28 80-108 121-148 (160)
126 TIGR02948 SigW_bacill RNA poly 26.8 97 0.0021 24.4 3.9 28 81-109 152-179 (187)
127 COG2197 CitB Response regulato 26.7 82 0.0018 26.2 3.6 45 63-110 147-191 (211)
128 TIGR02943 Sig70_famx1 RNA poly 26.5 1.2E+02 0.0027 24.3 4.5 29 80-109 146-174 (188)
129 KOG3841 TEF-1 and related tran 26.3 95 0.0021 28.9 4.0 56 60-115 74-150 (455)
130 smart00005 DEATH DEATH domain, 26.3 69 0.0015 22.3 2.6 29 70-99 5-34 (88)
131 PF09197 Rap1-DNA-bind: Rap1, 26.2 60 0.0013 24.6 2.3 27 84-110 52-78 (105)
132 PRK09648 RNA polymerase sigma 26.2 1.2E+02 0.0026 24.1 4.4 29 80-109 154-182 (189)
133 PRK12515 RNA polymerase sigma 26.1 1.2E+02 0.0027 24.1 4.4 29 80-109 146-174 (189)
134 PRK12529 RNA polymerase sigma 26.0 1.3E+02 0.0027 23.9 4.4 31 80-111 142-172 (178)
135 PRK12512 RNA polymerase sigma 26.0 1.2E+02 0.0027 23.9 4.4 28 81-109 147-174 (184)
136 PRK01905 DNA-binding protein F 26.0 1.5E+02 0.0032 20.6 4.2 36 67-103 36-71 (77)
137 PRK11923 algU RNA polymerase s 25.8 1.1E+02 0.0023 24.5 4.0 28 81-109 154-181 (193)
138 PRK12530 RNA polymerase sigma 25.6 1.2E+02 0.0027 24.3 4.4 27 81-108 150-176 (189)
139 cd08779 Death_PIDD Death Domai 23.7 88 0.0019 22.4 2.8 21 71-91 3-23 (86)
140 cd08805 Death_ank1 Death domai 23.7 91 0.002 22.4 2.8 22 70-91 4-25 (84)
141 PRK12524 RNA polymerase sigma 23.6 1.4E+02 0.003 24.0 4.3 29 80-109 151-179 (196)
142 PF00674 DUP: DUP family; Int 23.0 58 0.0013 24.3 1.8 33 82-114 60-106 (108)
143 PRK00118 putative DNA-binding 22.6 1.7E+02 0.0038 21.9 4.3 40 68-108 20-59 (104)
144 PRK06759 RNA polymerase factor 22.6 1.6E+02 0.0035 22.3 4.3 28 81-109 122-149 (154)
145 PRK12527 RNA polymerase sigma 22.5 1.7E+02 0.0037 22.4 4.5 28 81-109 121-148 (159)
146 PF09905 DUF2132: Uncharacteri 22.4 72 0.0016 21.9 1.9 44 17-73 12-62 (64)
147 TIGR02999 Sig-70_X6 RNA polyme 22.2 1.6E+02 0.0036 23.0 4.4 28 81-109 150-177 (183)
148 PRK00430 fis global DNA-bindin 21.9 1.9E+02 0.0042 21.1 4.3 35 68-103 55-89 (95)
149 PRK12536 RNA polymerase sigma 21.5 1.7E+02 0.0037 23.2 4.4 29 80-109 144-172 (181)
150 TIGR02952 Sig70_famx2 RNA poly 21.4 1.7E+02 0.0036 22.5 4.3 28 81-109 138-165 (170)
151 PRK12528 RNA polymerase sigma 21.3 1.8E+02 0.0039 22.3 4.4 29 80-109 128-156 (161)
152 PRK12514 RNA polymerase sigma 21.3 1.7E+02 0.0036 23.0 4.3 28 81-109 145-172 (179)
153 PRK09649 RNA polymerase sigma 21.2 1.6E+02 0.0034 23.6 4.1 29 81-110 146-174 (185)
154 PRK15201 fimbriae regulatory p 21.1 2.4E+02 0.0051 23.7 5.1 45 63-110 132-176 (198)
155 PRK12542 RNA polymerase sigma 20.9 1.8E+02 0.0038 23.1 4.4 29 80-109 137-165 (185)
156 PRK12547 RNA polymerase sigma 20.4 1.9E+02 0.0042 22.4 4.4 29 80-109 127-155 (164)
157 PRK09651 RNA polymerase sigma 20.3 1.5E+02 0.0032 23.3 3.7 28 81-109 135-162 (172)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=2.5e-35 Score=249.68 Aligned_cols=110 Identities=63% Similarity=1.156 Sum_probs=104.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCc
Q 047269 4 ENEYKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLLGNR 83 (217)
Q Consensus 4 ~~~~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L~~lv~~~G~~ 83 (217)
++++++++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||.|||++|++++..||++
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnK 99 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNR 99 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhcccc
Confidence 35789999999999999999999998899999998866899999999999999999999999999999999999999999
Q ss_pred hhhhhccCCCCCHHHHHHHHHHHhhHHhcC
Q 047269 84 WSLIAGRVPGRTDNQVKNHWNTHLCKKLGI 113 (217)
Q Consensus 84 W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~~~ 113 (217)
|+.||+.|||||+++|||||+.++++++..
T Consensus 100 Ws~IAk~LpGRTDnqIKNRWns~LrK~l~r 129 (249)
T PLN03212 100 WSLIAGRIPGRTDNEIKNYWNTHLRKKLLR 129 (249)
T ss_pred HHHHHhhcCCCCHHHHHHHHHHHHhHHHHh
Confidence 999999999999999999999999887654
No 2
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=1.9e-34 Score=247.38 Aligned_cols=110 Identities=63% Similarity=1.091 Sum_probs=105.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCchh
Q 047269 6 EYKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLLGNRWS 85 (217)
Q Consensus 6 ~~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L~~lv~~~G~~W~ 85 (217)
.+.||+||+|||++|+++|++||.++|..||+.+|++|++++||.||.|||+|.+++|.||+|||.+|++++..+|++|+
T Consensus 6 ~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs 85 (238)
T KOG0048|consen 6 ELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWS 85 (238)
T ss_pred cccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHHH
Confidence 35679999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhccCCCCCHHHHHHHHHHHhhHHhcCcc
Q 047269 86 LIAGRVPGRTDNQVKNHWNTHLCKKLGINK 115 (217)
Q Consensus 86 ~Ia~~lpgRT~~q~k~Rw~~~l~k~~~~~~ 115 (217)
.||++|||||++.|||+|+..|+|++....
T Consensus 86 ~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 86 LIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 999999999999999999999999886544
No 3
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=2.6e-33 Score=253.01 Aligned_cols=109 Identities=58% Similarity=1.093 Sum_probs=104.7
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCch
Q 047269 5 NEYKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLLGNRW 84 (217)
Q Consensus 5 ~~~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L~~lv~~~G~~W 84 (217)
.+++||+||+|||++|+++|++||.++|..||+.++.+|+++|||+||.++|+|.+++++||.|||++|++++.+||++|
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnKW 89 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNRW 89 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcch
Confidence 56899999999999999999999999999999988778999999999999999999999999999999999999999999
Q ss_pred hhhhccCCCCCHHHHHHHHHHHhhHHhcC
Q 047269 85 SLIAGRVPGRTDNQVKNHWNTHLCKKLGI 113 (217)
Q Consensus 85 ~~Ia~~lpgRT~~q~k~Rw~~~l~k~~~~ 113 (217)
+.||++|||||+++||+||+.++++++..
T Consensus 90 skIAk~LPGRTDnqIKNRWnslLKKklr~ 118 (459)
T PLN03091 90 SQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118 (459)
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999987653
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.82 E-value=1.6e-20 Score=175.53 Aligned_cols=98 Identities=24% Similarity=0.501 Sum_probs=93.1
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCCCCCCCCCHHHHHHHHHHHHHhC-C
Q 047269 4 ENEYKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLLG-N 82 (217)
Q Consensus 4 ~~~~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L~~lv~~~G-~ 82 (217)
+|++++|+||++||.+|+.+|.+||..+|.+|-..+| +|+..|||+||.+.|+...+++.||-.||+.|+.+|.+|| +
T Consensus 355 dPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g 433 (939)
T KOG0049|consen 355 DPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKG 433 (939)
T ss_pred CccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccc
Confidence 5789999999999999999999999999999999999 9999999999999999999999999999999999999999 8
Q ss_pred chhhhhccCCCCCHHHHHHH
Q 047269 83 RWSLIAGRVPGRTDNQVKNH 102 (217)
Q Consensus 83 ~W~~Ia~~lpgRT~~q~k~R 102 (217)
+|.+||..||+||..|...|
T Consensus 434 ~WakcA~~Lp~~t~~q~~rr 453 (939)
T KOG0049|consen 434 NWAKCAMLLPKKTSRQLRRR 453 (939)
T ss_pred hHHHHHHHccccchhHHHHH
Confidence 99999999999999554443
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.73 E-value=4.2e-18 Score=159.57 Aligned_cols=105 Identities=25% Similarity=0.528 Sum_probs=97.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC---CCcchhhccccccccccccchhhhhccCCCCCCCCCCHHHHHHHHHHHHHhC-C
Q 047269 7 YKKGLWTQEEDRILLEYIRVHGR---GQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLLG-N 82 (217)
Q Consensus 7 ~kkg~WT~eED~~L~~~v~~~g~---~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L~~lv~~~G-~ 82 (217)
++...||+|||.+|+.+|+.... .+|.+|-..|+ ||+..|...||...|+|.+++|+||.+||.+|+.+|.+|| .
T Consensus 303 L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ymp-gr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~k 381 (939)
T KOG0049|consen 303 LSEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMP-GRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAK 381 (939)
T ss_pred HHhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcC-CcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCcc
Confidence 45678999999999999998754 38999999999 9999999999999999999999999999999999999999 5
Q ss_pred chhhhhccCCCCCHHHHHHHHHHHhhHHhc
Q 047269 83 RWSLIAGRVPGRTDNQVKNHWNTHLCKKLG 112 (217)
Q Consensus 83 ~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~~ 112 (217)
.|.+|-..+|||++.|||.||.+.|....+
T Consensus 382 dw~k~R~~vPnRSdsQcR~RY~nvL~~s~K 411 (939)
T KOG0049|consen 382 DWAKVRQAVPNRSDSQCRERYTNVLNRSAK 411 (939)
T ss_pred chhhHHHhcCCccHHHHHHHHHHHHHHhhc
Confidence 699999999999999999999999876554
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=99.73 E-value=3e-18 Score=116.69 Aligned_cols=60 Identities=42% Similarity=0.882 Sum_probs=55.4
Q ss_pred CCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCCCCCCCCCHHHHHHH
Q 047269 12 WTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLI 73 (217)
Q Consensus 12 WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L 73 (217)
||+|||++|+.+|..||. +|..||+.|| .|++.+|+.||.++|.|.+++++||.+||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999997 9999999998 99999999999999999999999999999987
No 7
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.64 E-value=8.3e-17 Score=147.70 Aligned_cols=105 Identities=30% Similarity=0.635 Sum_probs=100.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCchhh
Q 047269 7 YKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLLGNRWSL 86 (217)
Q Consensus 7 ~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L~~lv~~~G~~W~~ 86 (217)
++.|.|+.-||+.|..+|.+||.+.|.+||+.++ ..+++||+.||..+|+|.+++..|+.+||++|+.+.......|..
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 5788999999999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred hhccCCCCCHHHHHHHHHHHhhHHhcC
Q 047269 87 IAGRVPGRTDNQVKNHWNTHLCKKLGI 113 (217)
Q Consensus 87 Ia~~lpgRT~~q~k~Rw~~~l~k~~~~ 113 (217)
||..| ||+++||-.||..++-...+.
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 99999 999999999999998765543
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=99.63 E-value=4.1e-16 Score=145.32 Aligned_cols=106 Identities=29% Similarity=0.510 Sum_probs=101.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCchh
Q 047269 6 EYKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLLGNRWS 85 (217)
Q Consensus 6 ~~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L~~lv~~~G~~W~ 85 (217)
..+.|.|+..||+.|..+|+.||..+|..||..++ .|+++||+.||.++++|.++++.|+.+||..|+.+..++|..|+
T Consensus 17 ~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ws 95 (512)
T COG5147 17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWS 95 (512)
T ss_pred eecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchhh
Confidence 46889999999999999999999999999999998 79999999999999999999999999999999999999999999
Q ss_pred hhhccCCCCCHHHHHHHHHHHhhHHhc
Q 047269 86 LIAGRVPGRTDNQVKNHWNTHLCKKLG 112 (217)
Q Consensus 86 ~Ia~~lpgRT~~q~k~Rw~~~l~k~~~ 112 (217)
.||..+++||..+|.+||...+....+
T Consensus 96 tia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 96 TIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhccccCccchHHHHHHHHHHhhhhhc
Confidence 999999999999999999988877655
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.58 E-value=2.1e-15 Score=141.93 Aligned_cols=104 Identities=28% Similarity=0.524 Sum_probs=93.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCC--CCCCCCCHHHHHHHHHHHH-------
Q 047269 8 KKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPN--VKHGEFTEEEENLIIRLHN------- 78 (217)
Q Consensus 8 kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~--~~~~~WT~eED~~L~~lv~------- 78 (217)
++|.||+||++.|..+|..+|. +|..|++.|| |.+..|++||+++.... .+++.||.||.++|+++|.
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 7999999999999999999997 9999999998 99999999999999887 5899999999999999995
Q ss_pred Hh-------------------CCchhhhhccCCCCCHHHHHHHHHHHhhHHhcCc
Q 047269 79 LL-------------------GNRWSLIAGRVPGRTDNQVKNHWNTHLCKKLGIN 114 (217)
Q Consensus 79 ~~-------------------G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~~~~ 114 (217)
++ +-+|+.|++.+.+|+..|||-+|+.++......+
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~ 514 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNK 514 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhc
Confidence 33 1259999999999999999999999997765443
No 10
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.53 E-value=2.8e-15 Score=97.86 Aligned_cols=48 Identities=42% Similarity=0.754 Sum_probs=43.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhcc
Q 047269 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYL 56 (217)
Q Consensus 9 kg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l 56 (217)
|++||+|||++|+++|.+||.++|..||..||.+||+.||+.||.++|
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 689999999999999999999679999999988999999999999875
No 11
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.50 E-value=2.2e-14 Score=93.56 Aligned_cols=46 Identities=35% Similarity=0.679 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCc-hhhhhccCC-CCCHHHHHHHHHHHh
Q 047269 62 HGEFTEEEENLIIRLHNLLGNR-WSLIAGRVP-GRTDNQVKNHWNTHL 107 (217)
Q Consensus 62 ~~~WT~eED~~L~~lv~~~G~~-W~~Ia~~lp-gRT~~q~k~Rw~~~l 107 (217)
+++||++||++|+++|.+||.. |..||..|| +||..||++||+.++
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 5799999999999999999988 999999999 999999999999874
No 12
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.38 E-value=4.8e-13 Score=90.91 Aligned_cols=46 Identities=39% Similarity=0.728 Sum_probs=39.8
Q ss_pred CCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHhhHH
Q 047269 65 FTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLCKK 110 (217)
Q Consensus 65 WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~ 110 (217)
||.+||++|+.+|.+||.+|..||+.|+.||+.+|++||+..|++.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~ 46 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPK 46 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTT
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCccc
Confidence 9999999999999999999999999997799999999999966543
No 13
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.33 E-value=1.9e-12 Score=110.38 Aligned_cols=68 Identities=21% Similarity=0.412 Sum_probs=57.7
Q ss_pred ccccccccccchhhhhccCCCCCCCCCCHHHHHHHHHHHHHhC-CchhhhhccC-CCCCHHHHHHHHHHHhhHHhcCc
Q 047269 39 TGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLLG-NRWSLIAGRV-PGRTDNQVKNHWNTHLCKKLGIN 114 (217)
Q Consensus 39 ~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L~~lv~~~G-~~W~~Ia~~l-pgRT~~q~k~Rw~~~l~k~~~~~ 114 (217)
++ +|++.-|. ++.+++++||+|||++|+++|++|| .+|..||+.+ ++||+.|||.||.++|++.+.+.
T Consensus 10 ~~-~~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kg 79 (249)
T PLN03212 10 VS-KKTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRG 79 (249)
T ss_pred CC-CCCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccC
Confidence 45 56555442 3578899999999999999999999 6899999998 69999999999999998877654
No 14
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.32 E-value=3.3e-12 Score=81.69 Aligned_cols=47 Identities=47% Similarity=0.854 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CchhhhhccCCCCCHHHHHHHHHHHhh
Q 047269 62 HGEFTEEEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHLC 108 (217)
Q Consensus 62 ~~~WT~eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~k~Rw~~~l~ 108 (217)
+++||++||.+|+.++..|| .+|..||..||+||+.+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 15
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.24 E-value=5.8e-12 Score=80.53 Aligned_cols=48 Identities=42% Similarity=0.866 Sum_probs=44.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccC
Q 047269 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLS 57 (217)
Q Consensus 9 kg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~ 57 (217)
+++||++||.+|+.++..||..+|..||..++ +|++.+|+.||.+++.
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 57899999999999999999559999999999 9999999999998764
No 16
>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=99.21 E-value=3e-11 Score=76.02 Aligned_cols=44 Identities=39% Similarity=0.769 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhC-CchhhhhccCCCCCHHHHHHHHHHHh
Q 047269 64 EFTEEEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHL 107 (217)
Q Consensus 64 ~WT~eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~k~Rw~~~l 107 (217)
+||.+|+..|+.++..|| .+|..||..|++||+.+|++||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 99999999999999999999998753
No 17
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.17 E-value=2.2e-11 Score=104.66 Aligned_cols=56 Identities=20% Similarity=0.283 Sum_probs=51.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CchhhhhccCC-CCCHHHHHHHHHHHhhHHhcCc
Q 047269 59 NVKHGEFTEEEENLIIRLHNLLG-NRWSLIAGRVP-GRTDNQVKNHWNTHLCKKLGIN 114 (217)
Q Consensus 59 ~~~~~~WT~eED~~L~~lv~~~G-~~W~~Ia~~lp-gRT~~q~k~Rw~~~l~k~~~~~ 114 (217)
.+.+|+||.|||.+|+++|++|| ++|..||+.++ +|++.+||-||.++|++.+.+.
T Consensus 6 ~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg 63 (238)
T KOG0048|consen 6 ELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRG 63 (238)
T ss_pred cccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCC
Confidence 34579999999999999999999 57999999998 9999999999999999887654
No 18
>PLN03091 hypothetical protein; Provisional
Probab=99.16 E-value=2.9e-11 Score=110.32 Aligned_cols=57 Identities=19% Similarity=0.380 Sum_probs=51.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CchhhhhccC-CCCCHHHHHHHHHHHhhHHhcC
Q 047269 57 SPNVKHGEFTEEEENLIIRLHNLLG-NRWSLIAGRV-PGRTDNQVKNHWNTHLCKKLGI 113 (217)
Q Consensus 57 ~p~~~~~~WT~eED~~L~~lv~~~G-~~W~~Ia~~l-pgRT~~q~k~Rw~~~l~k~~~~ 113 (217)
+..+++++||+|||++|+++|.+|| .+|..||+.+ ++|++.|||.||.++|++.+.+
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkK 67 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKR 67 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccC
Confidence 3578899999999999999999999 5799999988 5999999999999999877654
No 19
>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=99.11 E-value=4.8e-11 Score=75.07 Aligned_cols=45 Identities=44% Similarity=0.852 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhcc
Q 047269 11 LWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYL 56 (217)
Q Consensus 11 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l 56 (217)
+||++||..|+.++..||.++|..||..++ +|++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHhC
Confidence 599999999999999999669999999999 899999999998753
No 20
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.99 E-value=6e-10 Score=105.45 Aligned_cols=109 Identities=23% Similarity=0.289 Sum_probs=89.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC-----------------------CCcchhhccccccccccccchhhhhccCCCC-CC
Q 047269 7 YKKGLWTQEEDRILLEYIRVHGR-----------------------GQWNRIHKVTGLKRCGKSCRLRWLNYLSPNV-KH 62 (217)
Q Consensus 7 ~kkg~WT~eED~~L~~~v~~~g~-----------------------~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~-~~ 62 (217)
++-+.|+++||+.|...|..|-. +-|+.|...|| .|+...++.+-++...|-- .+
T Consensus 306 ~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~~r 384 (607)
T KOG0051|consen 306 INLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFENKR 384 (607)
T ss_pred hhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccccc
Confidence 44589999999999999976611 12788889999 6999998875555555533 99
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHhhHHhcCcccc
Q 047269 63 GEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLCKKLGINKKQ 117 (217)
Q Consensus 63 ~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~~~~~~~ 117 (217)
|.||++|++.|..+|.++|+.|..|++.| ||.+.+|+.||+.+++..-.+++..
T Consensus 385 g~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~ 438 (607)
T KOG0051|consen 385 GKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGA 438 (607)
T ss_pred CCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCc
Confidence 99999999999999999999999999999 9999999999999987655444333
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=98.55 E-value=6.6e-09 Score=97.43 Aligned_cols=98 Identities=30% Similarity=0.634 Sum_probs=87.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCC--CCCCCCCCHHHHHHHHHHHHHhC----
Q 047269 8 KKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSP--NVKHGEFTEEEENLIIRLHNLLG---- 81 (217)
Q Consensus 8 kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p--~~~~~~WT~eED~~L~~lv~~~G---- 81 (217)
.+|.||++|+..|..++..+|. .|..|.+.++ |-+..|++||++|... .+++++|+.+|+.+|...|...-
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 4789999999999999999997 9999999887 9999999999999988 68889999999999999887432
Q ss_pred ----CchhhhhccCCCCCHHHHHHHHHHHhh
Q 047269 82 ----NRWSLIAGRVPGRTDNQVKNHWNTHLC 108 (217)
Q Consensus 82 ----~~W~~Ia~~lpgRT~~q~k~Rw~~~l~ 108 (217)
-.|..|+..+++|...+|+..+..+..
T Consensus 367 ~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~ 397 (512)
T COG5147 367 QSSRILWLLIAQNIRNRLQHHCRDKYGVLIS 397 (512)
T ss_pred hhhhhhHHHHHHhhhccccCCCCCccccccc
Confidence 359999999999999999988876553
No 22
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=98.30 E-value=5.8e-07 Score=60.77 Aligned_cols=49 Identities=16% Similarity=0.351 Sum_probs=43.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCc---chhhccccccc-cccccchhhhhcc
Q 047269 8 KKGLWTQEEDRILLEYIRVHGRGQW---NRIHKVTGLKR-CGKSCRLRWLNYL 56 (217)
Q Consensus 8 kkg~WT~eED~~L~~~v~~~g~~~W---~~Ia~~~~~~R-t~~qcr~Rw~~~l 56 (217)
++-.||+||..+++++|+.+|.|+| +.|++.|+..| |..||+.|++.|.
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 4568999999999999999999999 99999887556 9999999988764
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=98.28 E-value=4.6e-07 Score=82.78 Aligned_cols=50 Identities=26% Similarity=0.551 Sum_probs=46.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhcc
Q 047269 6 EYKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYL 56 (217)
Q Consensus 6 ~~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l 56 (217)
.+-...||++|+-+|+++++.||-|||..||.+|| .|+..+|+++|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 45677899999999999999999999999999999 999999999998865
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.94 E-value=1.3e-05 Score=73.41 Aligned_cols=49 Identities=24% Similarity=0.495 Sum_probs=45.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CchhhhhccCCCCCHHHHHHHHHHHh
Q 047269 59 NVKHGEFTEEEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHL 107 (217)
Q Consensus 59 ~~~~~~WT~eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~k~Rw~~~l 107 (217)
.+-...||.+|+-+|++++..|| ++|..||.++..||..+|+.+|.++.
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 44567899999999999999999 99999999999999999999998765
No 25
>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=3.5e-05 Score=52.09 Aligned_cols=46 Identities=22% Similarity=0.294 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-ch---hhhhccCC-CC-CHHHHHHHHHHHh
Q 047269 62 HGEFTEEEENLIIRLHNLLGN-RW---SLIAGRVP-GR-TDNQVKNHWNTHL 107 (217)
Q Consensus 62 ~~~WT~eED~~L~~lv~~~G~-~W---~~Ia~~lp-gR-T~~q~k~Rw~~~l 107 (217)
+-.||+||..++++++..+|. +| ..|++.|. .| |..||+.+...+.
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 447999999999999999995 99 99999883 45 9999999988764
No 26
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.72 E-value=2.1e-05 Score=73.43 Aligned_cols=54 Identities=26% Similarity=0.439 Sum_probs=49.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhC-CchhhhhccCCCCCHHHHHHHHHHHhhHHhcC
Q 047269 60 VKHGEFTEEEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHLCKKLGI 113 (217)
Q Consensus 60 ~~~~~WT~eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~~~ 113 (217)
++.|.|+..||+.|.-+|.+|| +.|+.|++.++-.|+.||++||...+.+.+++
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~ 59 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKK 59 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhh
Confidence 4678999999999999999999 67999999999999999999999998876654
No 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.69 E-value=0.00012 Score=61.30 Aligned_cols=96 Identities=21% Similarity=0.393 Sum_probs=70.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhhccccc--cccccccchhhhhccC-CCC--------------------CCCCCCH
Q 047269 11 LWTQEEDRILLEYIRVHGRGQWNRIHKVTGL--KRCGKSCRLRWLNYLS-PNV--------------------KHGEFTE 67 (217)
Q Consensus 11 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~--~Rt~~qcr~Rw~~~l~-p~~--------------------~~~~WT~ 67 (217)
+|++++|-.|+.+|..-. +-..|+..+.. .-|...+.+||+..|- |.+ .+.+||.
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 699999999999998765 56777765442 4556677889987652 222 3568999
Q ss_pred HHHHHHHHHHHHhCC---chhhh----hccC-CCCCHHHHHHHHHHHhh
Q 047269 68 EEENLIIRLHNLLGN---RWSLI----AGRV-PGRTDNQVKNHWNTHLC 108 (217)
Q Consensus 68 eED~~L~~lv~~~G~---~W~~I----a~~l-pgRT~~q~k~Rw~~~l~ 108 (217)
+|+++|......... .+.+| +..| ++||+.++.++|+.+.+
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkq 127 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQ 127 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHH
Confidence 999999997655442 46666 2234 88999999999995543
No 28
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.68 E-value=1.8e-05 Score=73.08 Aligned_cols=47 Identities=26% Similarity=0.634 Sum_probs=43.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhc
Q 047269 7 YKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNY 55 (217)
Q Consensus 7 ~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~ 55 (217)
.....||.+|..+|+++|+.||. +|.+||.++| +|+..||..|+.+.
T Consensus 277 ~~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 277 IRDKNWSRQELLLLLEGIEMYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred cccccccHHHHHHHHHHHHHhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 36679999999999999999998 9999999999 99999999999764
No 29
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.50 E-value=5.9e-05 Score=71.19 Aligned_cols=48 Identities=31% Similarity=0.689 Sum_probs=44.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhc
Q 047269 6 EYKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNY 55 (217)
Q Consensus 6 ~~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~ 55 (217)
.--++.||.+|.-+|+++|+.||. +|.+||.++| +|+..||..++.+.
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 345788999999999999999998 9999999999 99999999998763
No 30
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.46 E-value=0.00014 Score=58.71 Aligned_cols=52 Identities=19% Similarity=0.293 Sum_probs=45.5
Q ss_pred CCCCCCHHHHHHHHHHHHHh---CC----chhhhhccCCCCCHHHHHHHHHHHhhHHhcC
Q 047269 61 KHGEFTEEEENLIIRLHNLL---GN----RWSLIAGRVPGRTDNQVKNHWNTHLCKKLGI 113 (217)
Q Consensus 61 ~~~~WT~eED~~L~~lv~~~---G~----~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~~~ 113 (217)
....||.|||.+|.+.|..| |+ -...++..| +||+.+|.-||+..+|+.+..
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 45789999999999999887 32 388999999 999999999999999987754
No 31
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.37 E-value=0.00019 Score=51.82 Aligned_cols=53 Identities=30% Similarity=0.474 Sum_probs=37.7
Q ss_pred CCCCHHHHHHHHHHHHH------hC--C------chhhhhccC----CCCCHHHHHHHHHHHhhHHhcCcc
Q 047269 63 GEFTEEEENLIIRLHNL------LG--N------RWSLIAGRV----PGRTDNQVKNHWNTHLCKKLGINK 115 (217)
Q Consensus 63 ~~WT~eED~~L~~lv~~------~G--~------~W~~Ia~~l----pgRT~~q~k~Rw~~~l~k~~~~~~ 115 (217)
..||.+|...|+.++.. ++ + -|..||..| ..||+.||+++|.++.+.....+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~k~ 72 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKIKD 72 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCSSS
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 47999999999999877 21 1 399999987 479999999999998766654443
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.34 E-value=0.00019 Score=66.39 Aligned_cols=44 Identities=20% Similarity=0.363 Sum_probs=41.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHH
Q 047269 63 GEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTH 106 (217)
Q Consensus 63 ~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~ 106 (217)
..||.+|..+|++.++.||..|.+||.++.+||..||--||..+
T Consensus 280 k~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 48999999999999999999999999999999999999999765
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.32 E-value=0.00031 Score=66.41 Aligned_cols=47 Identities=19% Similarity=0.360 Sum_probs=43.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHh
Q 047269 61 KHGEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHL 107 (217)
Q Consensus 61 ~~~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l 107 (217)
.++.||.+|..+|+++|..||..|.+||.++.+||..||-.+|..+-
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LP 298 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLP 298 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcC
Confidence 35689999999999999999999999999999999999999998653
No 34
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.91 E-value=0.0016 Score=45.18 Aligned_cols=50 Identities=18% Similarity=0.308 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHHHHHhC-------C--chhhhhccCC-CCCHHHHHHHHHHHhhHHh
Q 047269 62 HGEFTEEEENLIIRLHNLLG-------N--RWSLIAGRVP-GRTDNQVKNHWNTHLCKKL 111 (217)
Q Consensus 62 ~~~WT~eED~~L~~lv~~~G-------~--~W~~Ia~~lp-gRT~~q~k~Rw~~~l~k~~ 111 (217)
+.+||.+||..|+..|.++. + -|..+++.-| .+|-...|+||...|+.+.
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 45899999999999997653 1 1999999887 8999999999988876543
No 35
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.87 E-value=0.00042 Score=61.56 Aligned_cols=49 Identities=22% Similarity=0.531 Sum_probs=44.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccC
Q 047269 8 KKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLS 57 (217)
Q Consensus 8 kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~ 57 (217)
---.|+..|+-+|+++.+..|-|+|..||..+| .|+...|+.+|..++.
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 345699999999999999999999999999999 9999999999987654
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=96.79 E-value=0.00093 Score=46.31 Aligned_cols=52 Identities=27% Similarity=0.501 Sum_probs=32.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCC------C--CcchhhccccccccccccchhhhhccCCCC
Q 047269 9 KGLWTQEEDRILLEYIRVHGR------G--QWNRIHKVTGLKRCGKSCRLRWLNYLSPNV 60 (217)
Q Consensus 9 kg~WT~eED~~L~~~v~~~g~------~--~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~ 60 (217)
+-+||+|||+.|++.|..+.. | =|..+++.-++.+|..+-|+||...|.+..
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 458999999999999976532 2 299999876667888889999999887643
No 37
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.79 E-value=0.0014 Score=53.64 Aligned_cols=52 Identities=15% Similarity=0.268 Sum_probs=43.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC-------chhhhhccCCCCCHHHHHHHHHHHhhHHhc
Q 047269 60 VKHGEFTEEEENLIIRLHNLLGN-------RWSLIAGRVPGRTDNQVKNHWNTHLCKKLG 112 (217)
Q Consensus 60 ~~~~~WT~eED~~L~~lv~~~G~-------~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~~ 112 (217)
..+..||.|+|.+|.+.|..|+. -...++..| +||..+|..||+..+++.+.
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 34678999999999999988873 266677788 99999999999999997653
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.72 E-value=0.00066 Score=48.93 Aligned_cols=47 Identities=30% Similarity=0.663 Sum_probs=31.9
Q ss_pred CCCCCHHHHHHHHHHHHH--h----C--C-----CCcchhhccc---cccccccccchhhhhc
Q 047269 9 KGLWTQEEDRILLEYIRV--H----G--R-----GQWNRIHKVT---GLKRCGKSCRLRWLNY 55 (217)
Q Consensus 9 kg~WT~eED~~L~~~v~~--~----g--~-----~~W~~Ia~~~---~~~Rt~~qcr~Rw~~~ 55 (217)
+..||.+|...|+.++.. + + . .-|..||..| |..|++.||+.+|.+.
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 357999999999999876 1 1 1 1499999765 4579999999999873
No 39
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.70 E-value=0.00075 Score=54.56 Aligned_cols=49 Identities=31% Similarity=0.674 Sum_probs=42.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC-C-----CcchhhccccccccccccchhhhhccC
Q 047269 7 YKKGLWTQEEDRILLEYIRVHGR-G-----QWNRIHKVTGLKRCGKSCRLRWLNYLS 57 (217)
Q Consensus 7 ~kkg~WT~eED~~L~~~v~~~g~-~-----~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~ 57 (217)
.+...||.|||.+|.+.|-+|=. | ...+|++.++ ||+..|.-||..++.
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 46778999999999999998822 2 5899999987 999999999998775
No 40
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.45 E-value=0.0098 Score=60.94 Aligned_cols=99 Identities=15% Similarity=0.272 Sum_probs=76.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccch-------hhhhc----------------------------
Q 047269 11 LWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRL-------RWLNY---------------------------- 55 (217)
Q Consensus 11 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~-------Rw~~~---------------------------- 55 (217)
.||.-+=..++.+..+||..+-..||..|+ +++...++. ||...
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 588888888899999999999999999997 788877652 11110
Q ss_pred --------------c-CCCCCCCCCCHHHHHHHHHHHHHhC-Cchhhhhc------------cCCCCCHHHHHHHHHHHh
Q 047269 56 --------------L-SPNVKHGEFTEEEENLIIRLHNLLG-NRWSLIAG------------RVPGRTDNQVKNHWNTHL 107 (217)
Q Consensus 56 --------------l-~p~~~~~~WT~eED~~L~~lv~~~G-~~W~~Ia~------------~lpgRT~~q~k~Rw~~~l 107 (217)
+ .+..++..+|.+||..|+-++.+|| ++|..|-. ++..||+..+..|...++
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 0 1222344699999999999999999 78999833 235799999999999988
Q ss_pred hHH
Q 047269 108 CKK 110 (217)
Q Consensus 108 ~k~ 110 (217)
+-.
T Consensus 985 ~~~ 987 (1033)
T PLN03142 985 RLI 987 (1033)
T ss_pred HHH
Confidence 543
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.30 E-value=0.0038 Score=55.60 Aligned_cols=47 Identities=26% Similarity=0.451 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CchhhhhccCCCCCHHHHHHHHHHHhh
Q 047269 62 HGEFTEEEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHLC 108 (217)
Q Consensus 62 ~~~WT~eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~k~Rw~~~l~ 108 (217)
-..|+..|+.+|+++....| ++|..||.++..|+...||.+|..+.-
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34699999999999999999 999999999999999999999987653
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.27 E-value=0.0077 Score=42.46 Aligned_cols=48 Identities=29% Similarity=0.513 Sum_probs=39.6
Q ss_pred CCCCCHHHHHHHHHHHHHhC----C-------------chhhhhccC-----CCCCHHHHHHHHHHHhhH
Q 047269 62 HGEFTEEEENLIIRLHNLLG----N-------------RWSLIAGRV-----PGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 62 ~~~WT~eED~~L~~lv~~~G----~-------------~W~~Ia~~l-----pgRT~~q~k~Rw~~~l~k 109 (217)
...||.+|...|+++|.+|. + -|..|+..| +.||..+|+.+|..+...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 35799999999999999873 1 299998866 369999999999987643
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.98 E-value=0.003 Score=44.61 Aligned_cols=49 Identities=29% Similarity=0.480 Sum_probs=39.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC----------------CCcchhhcccc----ccccccccchhhhhcc
Q 047269 8 KKGLWTQEEDRILLEYIRVHGR----------------GQWNRIHKVTG----LKRCGKSCRLRWLNYL 56 (217)
Q Consensus 8 kkg~WT~eED~~L~~~v~~~g~----------------~~W~~Ia~~~~----~~Rt~~qcr~Rw~~~l 56 (217)
++..||++|.+.|+++|.+|.. .-|..|+..+. ..|+..||+..|.++.
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 4678999999999999988831 14999997552 2699999999998753
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.71 E-value=0.0035 Score=51.27 Aligned_cols=49 Identities=27% Similarity=0.548 Sum_probs=40.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCC------CcchhhccccccccccccchhhhhccC
Q 047269 7 YKKGLWTQEEDRILLEYIRVHGRG------QWNRIHKVTGLKRCGKSCRLRWLNYLS 57 (217)
Q Consensus 7 ~kkg~WT~eED~~L~~~v~~~g~~------~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~ 57 (217)
.+...||.|+|.+|.+.|-.|+.. -...++..+. |++.+|..||..++.
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 467899999999999999988652 3666677776 999999999966554
No 45
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=94.42 E-value=0.051 Score=49.72 Aligned_cols=82 Identities=18% Similarity=0.309 Sum_probs=61.4
Q ss_pred CcchhhccccccccccccchhhhhccCCC-------------------------CCCCCCCHHHHHHHHHHHHHhCCchh
Q 047269 31 QWNRIHKVTGLKRCGKSCRLRWLNYLSPN-------------------------VKHGEFTEEEENLIIRLHNLLGNRWS 85 (217)
Q Consensus 31 ~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~-------------------------~~~~~WT~eED~~L~~lv~~~G~~W~ 85 (217)
.|.-+.-..+ .|...-...||.+..++. ++-..||.+|-+.|..+.+.|.-+|-
T Consensus 75 ~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 4666654444 566666666666553221 22356999999999999999999999
Q ss_pred hhhcc-----CCC-CCHHHHHHHHHHHhhHHhcC
Q 047269 86 LIAGR-----VPG-RTDNQVKNHWNTHLCKKLGI 113 (217)
Q Consensus 86 ~Ia~~-----lpg-RT~~q~k~Rw~~~l~k~~~~ 113 (217)
.||.+ ++. ||-..+|.||+...++.+..
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kA 187 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKA 187 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHc
Confidence 99987 655 99999999999888776653
No 46
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=94.25 E-value=0.08 Score=40.92 Aligned_cols=52 Identities=23% Similarity=0.377 Sum_probs=40.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----chhhhhcc------------CCCCCHHHHHHHHHHHhhHH
Q 047269 59 NVKHGEFTEEEENLIIRLHNLLGN----RWSLIAGR------------VPGRTDNQVKNHWNTHLCKK 110 (217)
Q Consensus 59 ~~~~~~WT~eED~~L~~lv~~~G~----~W~~Ia~~------------lpgRT~~q~k~Rw~~~l~k~ 110 (217)
+.++..||++||.-|+-++.+||- .|..|-.. +..||+..+..|...+++-.
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 556778999999999999999995 79888543 24699999999999998653
No 47
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=93.51 E-value=0.15 Score=46.04 Aligned_cols=52 Identities=21% Similarity=0.267 Sum_probs=41.5
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CCchhhhhccC----CCCCHHHHHHHHHHHhhHHhcC
Q 047269 62 HGEFTEEEENLIIRLHNLL----------GNRWSLIAGRV----PGRTDNQVKNHWNTHLCKKLGI 113 (217)
Q Consensus 62 ~~~WT~eED~~L~~lv~~~----------G~~W~~Ia~~l----pgRT~~q~k~Rw~~~l~k~~~~ 113 (217)
...|+.+|-..||++..+. +..|..||+.+ .-||+.+|+++|.++.++....
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~ 119 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKE 119 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Confidence 3689999999999998653 24599999955 4599999999999987665443
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=93.25 E-value=0.14 Score=46.90 Aligned_cols=45 Identities=20% Similarity=0.350 Sum_probs=42.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHh
Q 047269 63 GEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHL 107 (217)
Q Consensus 63 ~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l 107 (217)
.+||.+|-++..++...+|..++.||..+|.|...||+.+|.+--
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Ee 410 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEE 410 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHh
Confidence 479999999999999999999999999999999999999997543
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=92.15 E-value=0.38 Score=34.76 Aligned_cols=46 Identities=30% Similarity=0.459 Sum_probs=34.9
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------chhhhhccC---C--CCCHHHHHHHHHHHhhH
Q 047269 64 EFTEEEENLIIRLHNLL---GN----------RWSLIAGRV---P--GRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 64 ~WT~eED~~L~~lv~~~---G~----------~W~~Ia~~l---p--gRT~~q~k~Rw~~~l~k 109 (217)
.||++++..|++++.+. |+ .|..|+..| + ..|..||++||..+.+.
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 49999999999998653 21 299998876 2 34789999999876544
No 50
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=91.22 E-value=0.2 Score=38.68 Aligned_cols=47 Identities=30% Similarity=0.495 Sum_probs=35.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC---CCcchhhcccc-----------ccccccccchhh
Q 047269 6 EYKKGLWTQEEDRILLEYIRVHGR---GQWNRIHKVTG-----------LKRCGKSCRLRW 52 (217)
Q Consensus 6 ~~kkg~WT~eED~~L~~~v~~~g~---~~W~~Ia~~~~-----------~~Rt~~qcr~Rw 52 (217)
..++..||.+||.-|+-++.+||- |.|..|...+- ..||+..+..|-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~ 106 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRC 106 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHH
Confidence 667889999999999999999999 89999987553 146666555554
No 51
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=90.82 E-value=0.17 Score=46.25 Aligned_cols=62 Identities=16% Similarity=0.330 Sum_probs=49.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhc--cCCC------CCCCCCCHHHHHHH
Q 047269 10 GLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNY--LSPN------VKHGEFTEEEENLI 73 (217)
Q Consensus 10 g~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~--l~p~------~~~~~WT~eED~~L 73 (217)
-+||.+|-++..+++...|. ++..||..+| +|..+|++..|.+- .+|. ..+-|+..+|...|
T Consensus 366 ~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~ 435 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKL 435 (507)
T ss_pred CcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhH
Confidence 47999999999999999998 9999999999 99999999988753 2231 12446777775443
No 52
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=90.27 E-value=1.2 Score=41.68 Aligned_cols=48 Identities=17% Similarity=0.220 Sum_probs=43.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 047269 61 KHGEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLC 108 (217)
Q Consensus 61 ~~~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~ 108 (217)
-...||.||-.++-+++..||.+..+|-+.||.|+-..+...|+..-+
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK 233 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKK 233 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHH
Confidence 346799999999999999999999999999999999999999886543
No 53
>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=86.31 E-value=0.88 Score=32.97 Aligned_cols=24 Identities=38% Similarity=0.815 Sum_probs=14.3
Q ss_pred CCCCCCCCHHHHHHH--------HHHHHHhCC
Q 047269 6 EYKKGLWTQEEDRIL--------LEYIRVHGR 29 (217)
Q Consensus 6 ~~kkg~WT~eED~~L--------~~~v~~~g~ 29 (217)
.--.|.||+|+|+.| .+++++||.
T Consensus 44 ~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG~ 75 (87)
T PF11626_consen 44 DNMPGIWTPEDDEMLRSGDKDDIERLIKKHGE 75 (87)
T ss_dssp TT-TT---HHHHHHHTS--HHHHHHHHHHH-H
T ss_pred CCCCCCcCHHHHHHHHcCCHHHHHHHHHHhCH
Confidence 345889999999999 356677774
No 54
>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=86.11 E-value=1.6 Score=28.02 Aligned_cols=41 Identities=24% Similarity=0.285 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 68 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
+++..++.++-..|-.|.+||..+ |.|...|+.+....+++
T Consensus 13 ~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 13 ERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 566778888888889999999999 99999999998776543
No 55
>smart00595 MADF subfamily of SANT domain.
Probab=84.94 E-value=1.1 Score=31.81 Aligned_cols=26 Identities=23% Similarity=0.493 Sum_probs=22.2
Q ss_pred hhhhhccCCCCCHHHHHHHHHHHhhHH
Q 047269 84 WSLIAGRVPGRTDNQVKNHWNTHLCKK 110 (217)
Q Consensus 84 W~~Ia~~lpgRT~~q~k~Rw~~~l~k~ 110 (217)
|..||..| |-|..+|+.+|+++-...
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~y 55 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 99999999 559999999999875443
No 56
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=84.43 E-value=0.61 Score=46.05 Aligned_cols=44 Identities=11% Similarity=0.269 Sum_probs=40.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhh
Q 047269 9 KGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLN 54 (217)
Q Consensus 9 kg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~ 54 (217)
...||+.|-.+..+++-.|.+ ++-.|+++++ ++|..||-+-|+.
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 347999999999999999998 9999999999 9999999887754
No 57
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=84.39 E-value=0.72 Score=41.52 Aligned_cols=46 Identities=28% Similarity=0.543 Sum_probs=35.8
Q ss_pred CCCCHHHHHHHHHHHHHh----CCC-----Ccchhhcc---ccccccccccchhhhhc
Q 047269 10 GLWTQEEDRILLEYIRVH----GRG-----QWNRIHKV---TGLKRCGKSCRLRWLNY 55 (217)
Q Consensus 10 g~WT~eED~~L~~~v~~~----g~~-----~W~~Ia~~---~~~~Rt~~qcr~Rw~~~ 55 (217)
..|+.+|-..|+++.... ..+ -|..||+. .|..|++.||+.+|.+.
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 689999999999987432 112 59999973 34469999999999874
No 58
>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=81.57 E-value=0.96 Score=28.35 Aligned_cols=38 Identities=24% Similarity=0.366 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhh
Q 047269 15 EEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLN 54 (217)
Q Consensus 15 eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~ 54 (217)
+=|.+|+.+++.-|...|..||+.+| =+...|..|+.+
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 34889999999999989999999998 788888888754
No 59
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=79.39 E-value=3.3 Score=40.25 Aligned_cols=48 Identities=19% Similarity=0.367 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhhh----------hccCCCCCHHHHHHHHHHHhhH
Q 047269 62 HGEFTEEEENLIIRLHNLLGNRWSLI----------AGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 62 ~~~WT~eED~~L~~lv~~~G~~W~~I----------a~~lpgRT~~q~k~Rw~~~l~k 109 (217)
+..||-.|..-...+++++|.+...| -....-+|..|++.+|+.++++
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~ 145 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRR 145 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHH
Confidence 56899999999999999999999998 3334457888999999987754
No 60
>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=78.23 E-value=4 Score=25.46 Aligned_cols=38 Identities=21% Similarity=0.333 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHhC-CchhhhhccCCCCCHHHHHHHHHHH
Q 047269 68 EEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTH 106 (217)
Q Consensus 68 eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~k~Rw~~~ 106 (217)
+=|..|+.+.+.-| -.|..||+.+ |=|...|..|+..+
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 45778888888877 5699999999 99999999998764
No 61
>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=76.63 E-value=1.6 Score=31.45 Aligned_cols=44 Identities=32% Similarity=0.621 Sum_probs=30.6
Q ss_pred CCCHHHHHHHHHHHHHh---CC----C-----Ccchhhcccc----ccccccccchhhhh
Q 047269 11 LWTQEEDRILLEYIRVH---GR----G-----QWNRIHKVTG----LKRCGKSCRLRWLN 54 (217)
Q Consensus 11 ~WT~eED~~L~~~v~~~---g~----~-----~W~~Ia~~~~----~~Rt~~qcr~Rw~~ 54 (217)
.||+++++.|++++... |. + .|..|+..+. ...+..||+.||..
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 59999999999998543 21 1 3888887554 23456777877754
No 62
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=75.10 E-value=3.7 Score=42.65 Aligned_cols=34 Identities=26% Similarity=0.551 Sum_probs=29.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcchhhccc
Q 047269 6 EYKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVT 39 (217)
Q Consensus 6 ~~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~ 39 (217)
..++..||.|||..|+-++.+||.++|.+|-..+
T Consensus 923 ~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i 956 (1033)
T PLN03142 923 QNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAF 956 (1033)
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHH
Confidence 3456679999999999999999999999997654
No 63
>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=74.64 E-value=14 Score=33.40 Aligned_cols=85 Identities=20% Similarity=0.313 Sum_probs=62.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCC---CcchhhccccccccccccchhhhhccCCCCCCCCCCHHHHHHHHHHHHH-h-----
Q 047269 10 GLWTQEEDRILLEYIRVHGRG---QWNRIHKVTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNL-L----- 80 (217)
Q Consensus 10 g~WT~eED~~L~~~v~~~g~~---~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L~~lv~~-~----- 80 (217)
..||.-|...|+++.+..... +-.+|++.++ +|+..++++ |.+.|+ +..+.+++++ |
T Consensus 22 ~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~~ 87 (344)
T PF11035_consen 22 AAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGLK 87 (344)
T ss_pred ccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhcccccc
Confidence 469999999999999866322 4567888898 999998887 334343 2335555555 2
Q ss_pred CCc------------hhhhhccCCCCCHHHHHHHHHHHhh
Q 047269 81 GNR------------WSLIAGRVPGRTDNQVKNHWNTHLC 108 (217)
Q Consensus 81 G~~------------W~~Ia~~lpgRT~~q~k~Rw~~~l~ 108 (217)
|.+ |..+|+.+.|.-...+-.-|-..|-
T Consensus 88 ~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 88 GPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred cccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 111 9999999999999999999987764
No 64
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=72.81 E-value=6.3 Score=39.24 Aligned_cols=45 Identities=16% Similarity=0.164 Sum_probs=41.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHH
Q 047269 62 HGEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTH 106 (217)
Q Consensus 62 ~~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~ 106 (217)
...||..|-.+.-+++-.|.+..-.|++.++++|-.||-..|+..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 357999999999999999999999999999999999999988754
No 65
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=72.74 E-value=2.1 Score=33.97 Aligned_cols=45 Identities=18% Similarity=0.214 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCCC
Q 047269 14 QEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNV 60 (217)
Q Consensus 14 ~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~ 60 (217)
.+-|.+|+.++++.|...|.+||+.+| -+...|+.|+.+....++
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 357999999999999989999999998 899999999988765543
No 66
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=71.59 E-value=5.2 Score=38.81 Aligned_cols=45 Identities=22% Similarity=0.392 Sum_probs=42.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHH
Q 047269 61 KHGEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNT 105 (217)
Q Consensus 61 ~~~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~ 105 (217)
..++|+.+|-++...+....|.+.+.|+..+|+|+..|||.+|..
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhh
Confidence 356899999999999999999999999999999999999999874
No 67
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=70.73 E-value=9.8 Score=32.06 Aligned_cols=43 Identities=19% Similarity=0.247 Sum_probs=33.9
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhhccC---CCCCHHHHHHHHHHHh
Q 047269 64 EFTEEEENLIIRLHNLLGNRWSLIAGRV---PGRTDNQVKNHWNTHL 107 (217)
Q Consensus 64 ~WT~eED~~L~~lv~~~G~~W~~Ia~~l---pgRT~~q~k~Rw~~~l 107 (217)
.|++.+|.+|+.+|.. |+.-..|+.-+ -.-|-..|..||+.+|
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~ll 46 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALL 46 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHH
Confidence 4999999999999965 56666665543 3458899999999988
No 68
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=69.89 E-value=9.1 Score=30.26 Aligned_cols=42 Identities=7% Similarity=0.003 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhC-CchhhhhccCCCCCHHHHHHHHHHHhhHH
Q 047269 68 EEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHLCKK 110 (217)
Q Consensus 68 eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~ 110 (217)
+-|.+|+.+.++-| -.|+.||+.+ |-|...|+.|++.+...-
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~G 51 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAG 51 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 56888888888877 5799999999 999999999999887543
No 69
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=69.82 E-value=9.3 Score=35.14 Aligned_cols=44 Identities=23% Similarity=0.284 Sum_probs=39.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhh-hccCCCCCHHHHHHHHHHH
Q 047269 63 GEFTEEEENLIIRLHNLLGNRWSLI-AGRVPGRTDNQVKNHWNTH 106 (217)
Q Consensus 63 ~~WT~eED~~L~~lv~~~G~~W~~I-a~~lpgRT~~q~k~Rw~~~ 106 (217)
..|+++|-...-+.++.||+....| +..++.|+--.|-..|+.-
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 4799999999999999999999999 5578999999999988743
No 70
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=69.14 E-value=5.6 Score=41.77 Aligned_cols=75 Identities=21% Similarity=0.274 Sum_probs=50.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcchhhc--cccccccccccchhhhhccCCCCCCCCCCHHHHHHHHHHHHHh-CCch
Q 047269 8 KKGLWTQEEDRILLEYIRVHGRGQWNRIHK--VTGLKRCGKSCRLRWLNYLSPNVKHGEFTEEEENLIIRLHNLL-GNRW 84 (217)
Q Consensus 8 kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~--~~~~~Rt~~qcr~Rw~~~l~p~~~~~~WT~eED~~L~~lv~~~-G~~W 84 (217)
.---|..++|..|+-.|-+||.|+|..|-. .++ =+. ...+...+..+.+=...-..|+.++..+ +.+|
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~--l~d-------Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~ 1202 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLG--LTD-------KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNT 1202 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCcccc--chh-------hhcccccCCchHHHHHHHHHHHHHHhhcccCCC
Confidence 345699999999999999999999999953 222 111 1112222455666677777788887776 5666
Q ss_pred hhhhccC
Q 047269 85 SLIAGRV 91 (217)
Q Consensus 85 ~~Ia~~l 91 (217)
...++..
T Consensus 1203 ~~~~~~~ 1209 (1373)
T KOG0384|consen 1203 PKKLKRE 1209 (1373)
T ss_pred chhhhcc
Confidence 6654433
No 71
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=68.13 E-value=3.7 Score=38.65 Aligned_cols=45 Identities=16% Similarity=0.270 Sum_probs=39.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhh
Q 047269 8 KKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLN 54 (217)
Q Consensus 8 kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~ 54 (217)
..-.||.||--++.++...||. ++.+|-+.|| .|+-..+..-|..
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcc-cHHHHHHHcc-CccHHHHHHHHHH
Confidence 3457999999999999999998 9999999999 9998888776643
No 72
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=68.04 E-value=2.2 Score=34.29 Aligned_cols=46 Identities=20% Similarity=0.175 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCCCC
Q 047269 14 QEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNVK 61 (217)
Q Consensus 14 ~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~~ 61 (217)
.+-|.+|+.+.++-|.-.|.+||+.+| -+...|+.|+.+.....+-
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 567899999999999989999999998 8888999999887665543
No 73
>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=67.16 E-value=6.1 Score=28.49 Aligned_cols=17 Identities=24% Similarity=0.544 Sum_probs=10.1
Q ss_pred CCCCCCCCCHHHHHHHH
Q 047269 58 PNVKHGEFTEEEENLII 74 (217)
Q Consensus 58 p~~~~~~WT~eED~~L~ 74 (217)
|....|-||+++|..|.
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 55668899999999993
No 74
>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=66.79 E-value=12 Score=23.63 Aligned_cols=41 Identities=29% Similarity=0.338 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 68 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
+++..++.++-..|-.+..||..+ |-|...|+.+....+++
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 344555555544567899999999 88999999998877765
No 75
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=66.31 E-value=9.1 Score=30.67 Aligned_cols=44 Identities=11% Similarity=0.021 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHhC-CchhhhhccCCCCCHHHHHHHHHHHhhHHh
Q 047269 67 EEEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHLCKKL 111 (217)
Q Consensus 67 ~eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~ 111 (217)
.+-|.+|+.+.++-| -.|+.||+.+ |=|...|+.|++.+.....
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 456888888888877 5799999999 9999999999998876543
No 76
>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=64.40 E-value=6.9 Score=31.76 Aligned_cols=41 Identities=24% Similarity=0.242 Sum_probs=35.0
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHH
Q 047269 64 EFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNT 105 (217)
Q Consensus 64 ~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~ 105 (217)
.||+|..++|.+|..+ |-.=++||..|.+.|.++|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhhhc
Confidence 5999999999988854 7788999999977999999887664
No 77
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=64.27 E-value=4 Score=37.70 Aligned_cols=48 Identities=15% Similarity=0.248 Sum_probs=41.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCcchhhcc-----ccccccccccchhhhhc
Q 047269 7 YKKGLWTQEEDRILLEYIRVHGRGQWNRIHKV-----TGLKRCGKSCRLRWLNY 55 (217)
Q Consensus 7 ~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~-----~~~~Rt~~qcr~Rw~~~ 55 (217)
+.-..||.+|-+.|.++.++|.- .|--||.. .+..||....++||..+
T Consensus 128 l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 44567999999999999999997 89999976 67459999999999754
No 78
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=63.75 E-value=5.7 Score=36.49 Aligned_cols=42 Identities=19% Similarity=0.237 Sum_probs=37.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhh-ccccccccccccchhhhh
Q 047269 11 LWTQEEDRILLEYIRVHGRGQWNRIH-KVTGLKRCGKSCRLRWLN 54 (217)
Q Consensus 11 ~WT~eED~~L~~~v~~~g~~~W~~Ia-~~~~~~Rt~~qcr~Rw~~ 54 (217)
.|+.+|-...-+.++.||+ ++..|- ..+. +|+...|-.-|..
T Consensus 279 ~wsEeEcr~FEegl~~yGK-DF~lIr~nkvr-tRsvgElVeyYYl 321 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYGK-DFHLIRANKVR-TRSVGELVEYYYL 321 (445)
T ss_pred cCCHHHHHHHHHHHHHhcc-cHHHHHhcccc-cchHHHHHHHHHH
Confidence 5999999999999999998 999994 5777 9999999887754
No 79
>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=62.37 E-value=4.2 Score=29.19 Aligned_cols=39 Identities=18% Similarity=0.407 Sum_probs=26.0
Q ss_pred HHHHHHHHhCC-------CCcchhhcccccccc----ccccchhhhhccC
Q 047269 19 ILLEYIRVHGR-------GQWNRIHKVTGLKRC----GKSCRLRWLNYLS 57 (217)
Q Consensus 19 ~L~~~v~~~g~-------~~W~~Ia~~~~~~Rt----~~qcr~Rw~~~l~ 57 (217)
.|..+|.+.|. +.|..||..+|...+ +.+++..|.++|.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 57777877763 369999999984332 2456667766653
No 80
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=59.02 E-value=22 Score=25.40 Aligned_cols=38 Identities=18% Similarity=0.330 Sum_probs=27.8
Q ss_pred HHHHHHHHhCC--------chhhhhccCCC---CC--HHHHHHHHHHHhhH
Q 047269 72 LIIRLHNLLGN--------RWSLIAGRVPG---RT--DNQVKNHWNTHLCK 109 (217)
Q Consensus 72 ~L~~lv~~~G~--------~W~~Ia~~lpg---RT--~~q~k~Rw~~~l~k 109 (217)
.|..+|...|+ .|..||+.|.- -+ ..+++..|..+|..
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 37788888873 59999999821 22 36799999887753
No 81
>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=58.31 E-value=36 Score=30.76 Aligned_cols=46 Identities=17% Similarity=0.396 Sum_probs=36.5
Q ss_pred CCCCCHHHHHHHHHHHHHh-CC---chhhhhccCCCCCHHHHHHHHHHHh
Q 047269 62 HGEFTEEEENLIIRLHNLL-GN---RWSLIAGRVPGRTDNQVKNHWNTHL 107 (217)
Q Consensus 62 ~~~WT~eED~~L~~lv~~~-G~---~W~~Ia~~lpgRT~~q~k~Rw~~~l 107 (217)
-..||.-|-..|+.+.+.. |. .-..|++.++||+..+|++.-..+.
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK 70 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLK 70 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHH
Confidence 4579999999999888765 43 3578899999999999998765543
No 82
>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=57.68 E-value=4.4 Score=25.93 Aligned_cols=38 Identities=16% Similarity=0.256 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhh
Q 047269 14 QEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLN 54 (217)
Q Consensus 14 ~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~ 54 (217)
++++..++.+.-..|. .|.+||..+| .+...++.+..+
T Consensus 12 ~~~~r~i~~l~~~~g~-s~~eIa~~l~--~s~~~v~~~l~r 49 (54)
T PF08281_consen 12 PERQREIFLLRYFQGM-SYAEIAEILG--ISESTVKRRLRR 49 (54)
T ss_dssp -HHHHHHHHHHHTS----HHHHHHHCT--S-HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCc-CHHHHHHHHC--cCHHHHHHHHHH
Confidence 4566777777777777 8999999997 888888776654
No 83
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=57.43 E-value=16 Score=27.02 Aligned_cols=50 Identities=18% Similarity=0.124 Sum_probs=34.4
Q ss_pred CCCCHHHHHHHHHHHHHh----C----Cchhhhh----ccC-CCCCHHHHHHHHHHHhhHHhc
Q 047269 63 GEFTEEEENLIIRLHNLL----G----NRWSLIA----GRV-PGRTDNQVKNHWNTHLCKKLG 112 (217)
Q Consensus 63 ~~WT~eED~~L~~lv~~~----G----~~W~~Ia----~~l-pgRT~~q~k~Rw~~~l~k~~~ 112 (217)
..||++++..|++.+..| | ..|.... ..+ ..=+..|+.++.+.+-++...
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~ 67 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRN 67 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHH
Confidence 369999999999999877 5 2454443 333 223778888888877665444
No 84
>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=56.91 E-value=21 Score=27.17 Aligned_cols=29 Identities=24% Similarity=0.314 Sum_probs=24.6
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-.+..||+.+ |.|...|+.+....+++
T Consensus 128 ~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 128 EGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 467899999999 99999999999876544
No 85
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=54.58 E-value=10 Score=37.01 Aligned_cols=48 Identities=15% Similarity=0.386 Sum_probs=35.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCcchhhccccc---------cccccccchhhhhcc
Q 047269 8 KKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGL---------KRCGKSCRLRWLNYL 56 (217)
Q Consensus 8 kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~---------~Rt~~qcr~Rw~~~l 56 (217)
+|..||-.|.+....++..+|. +++.|-..+-- -++..|+|.+|++.+
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred cccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 3668999999999999999998 89998332220 245567777776643
No 86
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=53.95 E-value=27 Score=25.10 Aligned_cols=38 Identities=21% Similarity=0.370 Sum_probs=28.2
Q ss_pred HHHHHHHHhCC--------chhhhhccCCC-----CCHHHHHHHHHHHhhH
Q 047269 72 LIIRLHNLLGN--------RWSLIAGRVPG-----RTDNQVKNHWNTHLCK 109 (217)
Q Consensus 72 ~L~~lv~~~G~--------~W~~Ia~~lpg-----RT~~q~k~Rw~~~l~k 109 (217)
.|..+|.+.|+ .|..||..|.- ....+++..|..+|..
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 47777888774 69999998822 2356789999888754
No 87
>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=52.36 E-value=12 Score=25.64 Aligned_cols=28 Identities=18% Similarity=0.336 Sum_probs=21.9
Q ss_pred chhhhhccCC-CCCHHHHHHHHHHHhhHH
Q 047269 83 RWSLIAGRVP-GRTDNQVKNHWNTHLCKK 110 (217)
Q Consensus 83 ~W~~Ia~~lp-gRT~~q~k~Rw~~~l~k~ 110 (217)
-|..||..|. .-+...|+.||.++...-
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y 56 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDRY 56 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHH
Confidence 4999999994 357889999999865443
No 88
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=51.64 E-value=19 Score=25.89 Aligned_cols=29 Identities=17% Similarity=0.422 Sum_probs=23.2
Q ss_pred HHHHHHHHHHhCCchhhhhccCCCCCHHHH
Q 047269 70 ENLIIRLHNLLGNRWSLIAGRVPGRTDNQV 99 (217)
Q Consensus 70 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~ 99 (217)
|+.|..+....|..|..+|.+| |=|..+|
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 4568888999999999999999 6555544
No 89
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=51.12 E-value=48 Score=25.12 Aligned_cols=46 Identities=15% Similarity=0.163 Sum_probs=32.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhcc
Q 047269 7 YKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYL 56 (217)
Q Consensus 7 ~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l 56 (217)
.++..||+|+-..++..+...|. .=..||+.+|. +. +-..+|.+.+
T Consensus 8 ~~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI--s~-~tl~~W~r~y 53 (121)
T PRK09413 8 EKRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV--AA-SQLFLWRKQY 53 (121)
T ss_pred CCCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc--CH-HHHHHHHHHH
Confidence 35678999998888877777775 67889998883 33 3345576644
No 90
>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=49.68 E-value=42 Score=27.01 Aligned_cols=47 Identities=19% Similarity=0.171 Sum_probs=38.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCchhhhhccC----CCCCHHHHHHHHHHHh
Q 047269 61 KHGEFTEEEENLIIRLHNLLGNRWSLIAGRV----PGRTDNQVKNHWNTHL 107 (217)
Q Consensus 61 ~~~~WT~eED~~L~~lv~~~G~~W~~Ia~~l----pgRT~~q~k~Rw~~~l 107 (217)
....-|..|..-|..||.+||.++..+|.-. --.|..||+.+...+.
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 3456889999999999999999999998754 2589999999887653
No 91
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=45.44 E-value=31 Score=32.85 Aligned_cols=42 Identities=17% Similarity=0.248 Sum_probs=37.8
Q ss_pred CCCHHHHHHHHHHHHHhCCchhhhh-ccCCCCCHHHHHHHHHH
Q 047269 64 EFTEEEENLIIRLHNLLGNRWSLIA-GRVPGRTDNQVKNHWNT 105 (217)
Q Consensus 64 ~WT~eED~~L~~lv~~~G~~W~~Ia-~~lpgRT~~q~k~Rw~~ 105 (217)
.|+..|-.+.-++..+||.....|- .+||-++-..|-..|+.
T Consensus 287 EWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYYm 329 (693)
T KOG3554|consen 287 EWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYYM 329 (693)
T ss_pred hccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHHH
Confidence 6999999999999999999999995 56799999999888764
No 92
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=44.62 E-value=45 Score=24.18 Aligned_cols=43 Identities=16% Similarity=0.087 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHhC-CchhhhhccCCCCCHHHHHHHHHHHhhHHh
Q 047269 68 EEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHLCKKL 111 (217)
Q Consensus 68 eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~ 111 (217)
+.|..|+.+....| -.++.||+.+ |-+...|+.+...+....+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 46788888888877 4799999999 9999999999998876544
No 93
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=43.28 E-value=13 Score=28.78 Aligned_cols=43 Identities=14% Similarity=0.112 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCC
Q 047269 15 EEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPN 59 (217)
Q Consensus 15 eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~ 59 (217)
+-|.+++++++..+...+..||+.+| -+...|+.|-.+.....
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~G 50 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEG 50 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCC
Confidence 56889999999999889999999998 88889998877665544
No 94
>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=42.81 E-value=36 Score=24.47 Aligned_cols=29 Identities=14% Similarity=0.321 Sum_probs=23.2
Q ss_pred HHHHHHHHHHhCCchhhhhccCCCCCHHHH
Q 047269 70 ENLIIRLHNLLGNRWSLIAGRVPGRTDNQV 99 (217)
Q Consensus 70 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~ 99 (217)
|..|..+....|..|..+|..| |=+...|
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 5667788889999999999999 6555544
No 95
>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=42.78 E-value=27 Score=28.14 Aligned_cols=48 Identities=15% Similarity=0.194 Sum_probs=34.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCcchhhcccc---ccccccccchhhhhc
Q 047269 7 YKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTG---LKRCGKSCRLRWLNY 55 (217)
Q Consensus 7 ~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~---~~Rt~~qcr~Rw~~~ 55 (217)
.+...-|+.|..-|..||++||. ++...|.-.. .-.|+.||+.+...+
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 45667899999999999999997 8888874221 125666666555443
No 96
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=41.80 E-value=19 Score=26.30 Aligned_cols=43 Identities=21% Similarity=0.176 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCC
Q 047269 15 EEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPN 59 (217)
Q Consensus 15 eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~ 59 (217)
+.|.+++.++...+.-.+..||+.++ -+...|+.|........
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 56888999999988889999999997 78888888877655443
No 97
>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=40.74 E-value=56 Score=24.08 Aligned_cols=30 Identities=27% Similarity=0.213 Sum_probs=24.1
Q ss_pred HhCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 79 LLGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 79 ~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
..|..+..||+.+ |=|...|+++....+++
T Consensus 124 ~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 124 LEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3467899999999 77999999988876544
No 98
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=40.13 E-value=23 Score=34.55 Aligned_cols=47 Identities=13% Similarity=0.308 Sum_probs=42.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchhhhh
Q 047269 6 EYKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLN 54 (217)
Q Consensus 6 ~~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~ 54 (217)
....++||.+|-++...+....|. +...|+...+ +|..+|++..+..
T Consensus 406 ~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 406 KLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred ccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 345678999999999999999998 9999999999 9999999998754
No 99
>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=38.90 E-value=29 Score=28.09 Aligned_cols=38 Identities=18% Similarity=0.179 Sum_probs=28.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccchh
Q 047269 11 LWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLR 51 (217)
Q Consensus 11 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~R 51 (217)
.||.|..++|.++... |. .=.+||..|| +.+...+.-+
T Consensus 2 ~Wtde~~~~L~~lw~~-G~-SasqIA~~lg-~vsRnAViGk 39 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GL-SASQIARQLG-GVSRNAVIGK 39 (162)
T ss_pred CCCHHHHHHHHHHHHc-CC-CHHHHHHHhC-Ccchhhhhhh
Confidence 5999999999999854 43 5799999999 5554444443
No 100
>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=38.61 E-value=56 Score=19.94 Aligned_cols=35 Identities=20% Similarity=0.130 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHH
Q 047269 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHW 103 (217)
Q Consensus 68 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw 103 (217)
-|-..|..++..++++-+..|+.+ |=+...+..+-
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 367788999999999999999998 66666665543
No 101
>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=38.21 E-value=32 Score=24.34 Aligned_cols=29 Identities=24% Similarity=0.618 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhCCchhhhhccCCCCCHHHH
Q 047269 70 ENLIIRLHNLLGNRWSLIAGRVPGRTDNQV 99 (217)
Q Consensus 70 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~ 99 (217)
|..|..+....|..|.++|..| |=+..+|
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 4457778888999999999999 5555443
No 102
>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=38.14 E-value=24 Score=24.39 Aligned_cols=18 Identities=28% Similarity=0.595 Sum_probs=14.9
Q ss_pred HHHHHHHHhCCchhhhhc
Q 047269 72 LIIRLHNLLGNRWSLIAG 89 (217)
Q Consensus 72 ~L~~lv~~~G~~W~~Ia~ 89 (217)
.|.+|++.||++|..|-.
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 477888999999999853
No 103
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=38.07 E-value=65 Score=25.02 Aligned_cols=29 Identities=17% Similarity=0.050 Sum_probs=23.1
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-.+..||..| |.+...|+.+....+++
T Consensus 143 ~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 143 EGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466899999999 88999998887755433
No 104
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=35.00 E-value=64 Score=25.00 Aligned_cols=29 Identities=21% Similarity=0.105 Sum_probs=23.3
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-....||..| |-|...|+++....+++
T Consensus 140 ~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 140 EGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456799999999 89999999988765443
No 105
>PRK04217 hypothetical protein; Provisional
Probab=34.96 E-value=91 Score=23.67 Aligned_cols=45 Identities=22% Similarity=0.074 Sum_probs=35.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 63 GEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 63 ~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
..-|.+| ..++.++...|-....||+.+ |-+...|+.+++...++
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466666 566677777778999999999 99999999998865543
No 106
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=34.07 E-value=71 Score=25.80 Aligned_cols=27 Identities=19% Similarity=0.124 Sum_probs=22.5
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHh
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHL 107 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l 107 (217)
.|-...+||..| |-+...|++|....+
T Consensus 149 ~g~s~~EIA~~l-g~s~~tV~~rl~rar 175 (192)
T PRK09643 149 QGYSVADAARML-GVAEGTVKSRCARGR 175 (192)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 466799999999 999999999986543
No 107
>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=33.58 E-value=96 Score=18.35 Aligned_cols=36 Identities=22% Similarity=0.218 Sum_probs=24.9
Q ss_pred HHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHH
Q 047269 70 ENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTH 106 (217)
Q Consensus 70 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~ 106 (217)
+..++.++-.-|-.+..||+.+ |-+...|+.+....
T Consensus 15 ~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 15 EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 3444445445677899999998 77888887766544
No 108
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=33.41 E-value=71 Score=25.21 Aligned_cols=29 Identities=10% Similarity=-0.114 Sum_probs=23.2
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|..+.+||..+ |-|...|+++.....++
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 356799999999 99999999987765543
No 109
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=32.93 E-value=87 Score=25.30 Aligned_cols=34 Identities=21% Similarity=0.293 Sum_probs=26.6
Q ss_pred HHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHh
Q 047269 73 IIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHL 107 (217)
Q Consensus 73 L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l 107 (217)
++.+..-.|-.+.+||..+ |-|...|+.+|...-
T Consensus 143 ~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 143 VVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 3333334567899999999 999999999998664
No 110
>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=32.23 E-value=56 Score=23.36 Aligned_cols=25 Identities=24% Similarity=0.513 Sum_probs=19.5
Q ss_pred HHHHHHhCCchhhhhccCCCCCHHHH
Q 047269 74 IRLHNLLGNRWSLIAGRVPGRTDNQV 99 (217)
Q Consensus 74 ~~lv~~~G~~W~~Ia~~lpgRT~~q~ 99 (217)
..+....|..|..+|..| |=+..+|
T Consensus 11 ~~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 11 TVFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 335577899999999999 7676665
No 111
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=30.27 E-value=62 Score=23.12 Aligned_cols=31 Identities=23% Similarity=0.445 Sum_probs=24.0
Q ss_pred HHHHHHHHHHhCCchhhhhccCCCCCHHHHHH
Q 047269 70 ENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKN 101 (217)
Q Consensus 70 D~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~ 101 (217)
+..|-.+....|..|..+|..| |=+...|..
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 4457777788999999999999 666666544
No 112
>smart00351 PAX Paired Box domain.
Probab=30.00 E-value=1.7e+02 Score=22.25 Aligned_cols=73 Identities=12% Similarity=0.034 Sum_probs=46.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCcchhhcccccccc-ccccchhhhh--ccCCCCC----CCCCCHHHHHHHHHHHHH
Q 047269 7 YKKGLWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRC-GKSCRLRWLN--YLSPNVK----HGEFTEEEENLIIRLHNL 79 (217)
Q Consensus 7 ~kkg~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt-~~qcr~Rw~~--~l~p~~~----~~~WT~eED~~L~~lv~~ 79 (217)
....+.+.++-++++.++. -|. .-..||+.++..|+ ...+..||.. .+.|... ...=+.+.+..|+.++.+
T Consensus 13 ~~~~~~s~~~R~riv~~~~-~G~-s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~~ 90 (125)
T smart00351 13 VNGRPLPDEERQRIVELAQ-NGV-RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQE 90 (125)
T ss_pred cCCCCCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHHH
Confidence 3445699999999988886 454 78999999985443 4455666654 2444221 223455666667766665
Q ss_pred hC
Q 047269 80 LG 81 (217)
Q Consensus 80 ~G 81 (217)
.+
T Consensus 91 ~p 92 (125)
T smart00351 91 NP 92 (125)
T ss_pred CC
Confidence 44
No 113
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=29.95 E-value=98 Score=24.29 Aligned_cols=29 Identities=24% Similarity=0.233 Sum_probs=24.0
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-...+||+.+ |-+...|+.+...-+++
T Consensus 134 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 162 (172)
T PRK12523 134 DGMGHAEIAERL-GVSVSRVRQYLAQGLRQ 162 (172)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456799999999 99999999998766554
No 114
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=29.63 E-value=46 Score=33.84 Aligned_cols=95 Identities=17% Similarity=0.234 Sum_probs=60.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcchhhccccccccccccc-----------------------------------------
Q 047269 11 LWTQEEDRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCR----------------------------------------- 49 (217)
Q Consensus 11 ~WT~eED~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr----------------------------------------- 49 (217)
.||.-+=...+.+..+||.++=..||+.+- + ++..+.
T Consensus 797 ~w~k~df~~fi~a~eKygr~di~~ia~~~e-~-~~eev~~y~rvfwer~~el~d~ek~~~~ie~~e~~i~r~~~~~~~ld 874 (971)
T KOG0385|consen 797 NWTKRDFNQFIKANEKYGRDDIENIAAEVE-G-TPEEVGEYARVFWERLEELSDIEKIIYQIERGEKRIQRGDSIKKALD 874 (971)
T ss_pred chhhhhHHHHHHHhhccCcchhhhhHHhhc-C-CHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhHhhhhHHHHHHHHHh
Confidence 488888888888888888877666666554 2 221111
Q ss_pred ---hhhhh----cc-CCCCCCCCCCHHHHHHHHHHHHHhCC----chhhhhc------------cCCCCCHHHHHHHHHH
Q 047269 50 ---LRWLN----YL-SPNVKHGEFTEEEENLIIRLHNLLGN----RWSLIAG------------RVPGRTDNQVKNHWNT 105 (217)
Q Consensus 50 ---~Rw~~----~l-~p~~~~~~WT~eED~~L~~lv~~~G~----~W~~Ia~------------~lpgRT~~q~k~Rw~~ 105 (217)
.||.. .+ .+..+..+.|.+||.-|+.++.++|- .|..+-. ++..||...+..|+++
T Consensus 875 ~k~~~~k~p~~l~i~~~~nk~~~ys~~edrfL~~~l~K~g~~~~~~~e~lr~~~~~~~~frfdw~~~sRt~~el~Rr~nt 954 (971)
T KOG0385|consen 875 DKIARYKAPHQLRIQYGTNKGKNYSEEEDRFLECMLHKLGFDAENVYEELRQPIRNSPQFRFDWFIKSRTAMELQRRCNT 954 (971)
T ss_pred hhHhhhcCchheeeeeccccCCCCchhhHHHHHHHHHHhccCchhHHHHHHHHHhcCcccccceeeehhhHHHHHhcCCe
Confidence 22222 11 11225668999999999999999982 3544422 2245788777777776
Q ss_pred Hh
Q 047269 106 HL 107 (217)
Q Consensus 106 ~l 107 (217)
++
T Consensus 955 li 956 (971)
T KOG0385|consen 955 LI 956 (971)
T ss_pred eE
Confidence 65
No 115
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=29.52 E-value=69 Score=25.35 Aligned_cols=28 Identities=14% Similarity=0.001 Sum_probs=22.5
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-...+||..+ |=|...|+++....+++
T Consensus 154 ~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 154 GLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 45689999999 88899999998766544
No 116
>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=29.39 E-value=92 Score=24.27 Aligned_cols=29 Identities=21% Similarity=0.126 Sum_probs=23.0
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-....||..+ |-|...|+++....+++
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 355788999999 88999999998766544
No 117
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=28.62 E-value=1.1e+02 Score=23.33 Aligned_cols=29 Identities=17% Similarity=0.140 Sum_probs=23.3
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-.-.+||..| |-+...|+.|....+++
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 355689999999 89999999998765543
No 118
>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=28.57 E-value=52 Score=23.28 Aligned_cols=33 Identities=24% Similarity=0.529 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHH
Q 047269 67 EEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKN 101 (217)
Q Consensus 67 ~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~ 101 (217)
.||-++|+.. ...|.+|...|..| |=+...|.+
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 5777777732 24678999999999 777776654
No 119
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=28.17 E-value=1.1e+02 Score=23.41 Aligned_cols=43 Identities=19% Similarity=0.113 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHhC-CchhhhhccCCCCCHHHHHHHHHHHhhHHh
Q 047269 68 EEENLIIRLHNLLG-NRWSLIAGRVPGRTDNQVKNHWNTHLCKKL 111 (217)
Q Consensus 68 eED~~L~~lv~~~G-~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~ 111 (217)
+-|.+|+++.+.-+ ..+..||+.+ |-|...|++|-+.+.+.-+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCc
Confidence 45777888887776 5799999999 9999999999988876543
No 120
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=27.82 E-value=1.1e+02 Score=24.63 Aligned_cols=28 Identities=14% Similarity=-0.021 Sum_probs=22.6
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-...+||..| |-+...|+.|....+++
T Consensus 157 g~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 157 ELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred CCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 56689999999 99999999987765543
No 121
>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=27.51 E-value=65 Score=23.17 Aligned_cols=28 Identities=25% Similarity=0.557 Sum_probs=21.5
Q ss_pred HHHHHHHhCCchhhhhccCCCCCHHHHHH
Q 047269 73 IIRLHNLLGNRWSLIAGRVPGRTDNQVKN 101 (217)
Q Consensus 73 L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~ 101 (217)
|-.+....|..|..+|..| |=+..+|..
T Consensus 5 l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 5 LDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 4455677899999999999 777776654
No 122
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=27.07 E-value=1.2e+02 Score=19.80 Aligned_cols=35 Identities=23% Similarity=0.362 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHH
Q 047269 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHW 103 (217)
Q Consensus 68 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw 103 (217)
+.++..+.++.+.|-.=.+||+.+ ||+.+.|++.-
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 345556677788899999999999 99998887754
No 123
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=26.92 E-value=1.1e+02 Score=24.50 Aligned_cols=29 Identities=21% Similarity=0.110 Sum_probs=23.2
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-....||..| |-+...|+.+....+++
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 456799999999 89999999998765433
No 124
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=26.90 E-value=1.2e+02 Score=23.75 Aligned_cols=28 Identities=25% Similarity=0.263 Sum_probs=22.4
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-.-.+||..| |.+...|+.|....+++
T Consensus 134 g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 134 GWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 55679999999 99999999998765543
No 125
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=26.87 E-value=1.2e+02 Score=23.26 Aligned_cols=28 Identities=11% Similarity=-0.124 Sum_probs=22.4
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLC 108 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~ 108 (217)
.|-.-.+||..+ |-+...|++|....++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 148 (160)
T PRK09642 121 EEKSYQEIALQE-KIEVKTVEMKLYRARK 148 (160)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 355689999999 9999999998775543
No 126
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=26.77 E-value=97 Score=24.38 Aligned_cols=28 Identities=11% Similarity=-0.085 Sum_probs=22.1
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|..-.+||..| |-|...|+++....+++
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 45688999999 88999999988765543
No 127
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=26.67 E-value=82 Score=26.17 Aligned_cols=45 Identities=24% Similarity=0.204 Sum_probs=36.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHhhHH
Q 047269 63 GEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLCKK 110 (217)
Q Consensus 63 ~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~ 110 (217)
...|+.|-+.|.-+.+ |-.=.+||..| +.|..-||++..++++|-
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 3688888887765543 55568999999 999999999999999764
No 128
>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=26.50 E-value=1.2e+02 Score=24.32 Aligned_cols=29 Identities=10% Similarity=-0.024 Sum_probs=23.4
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-....||..| |-|...|+.|....+++
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 356789999999 99999999997766543
No 129
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=26.30 E-value=95 Score=28.86 Aligned_cols=56 Identities=23% Similarity=0.208 Sum_probs=42.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC----------------chhhhhccC-----CCCCHHHHHHHHHHHhhHHhcCcc
Q 047269 60 VKHGEFTEEEENLIIRLHNLLGN----------------RWSLIAGRV-----PGRTDNQVKNHWNTHLCKKLGINK 115 (217)
Q Consensus 60 ~~~~~WT~eED~~L~~lv~~~G~----------------~W~~Ia~~l-----pgRT~~q~k~Rw~~~l~k~~~~~~ 115 (217)
.--|.|+++=|+...++...|.. +=..||.++ ..||..||-.|-.-+-|++++..+
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq 150 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQ 150 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHH
Confidence 34578999999999999988742 356788765 458899999998877777665433
No 130
>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=26.28 E-value=69 Score=22.26 Aligned_cols=29 Identities=21% Similarity=0.527 Sum_probs=20.1
Q ss_pred HHHHHHHHHH-hCCchhhhhccCCCCCHHHH
Q 047269 70 ENLIIRLHNL-LGNRWSLIAGRVPGRTDNQV 99 (217)
Q Consensus 70 D~~L~~lv~~-~G~~W~~Ia~~lpgRT~~q~ 99 (217)
.+.|..++.. .|..|..+|..| |=+..+|
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 4456666666 789999999999 4444443
No 131
>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=26.22 E-value=60 Score=24.57 Aligned_cols=27 Identities=15% Similarity=0.361 Sum_probs=19.9
Q ss_pred hhhhhccCCCCCHHHHHHHHHHHhhHH
Q 047269 84 WSLIAGRVPGRTDNQVKNHWNTHLCKK 110 (217)
Q Consensus 84 W~~Ia~~lpgRT~~q~k~Rw~~~l~k~ 110 (217)
....+...|..|...=|+||+..+...
T Consensus 52 F~~~~~~~p~HT~~sWRDR~RKfv~~~ 78 (105)
T PF09197_consen 52 FKDLARKNPRHTENSWRDRYRKFVSEY 78 (105)
T ss_dssp HHHHHHHTTTS-HHHHHHHHHHTHHHH
T ss_pred HHHHHHcCCccchhHHHHHHHHHHHHc
Confidence 345577788999999999999877543
No 132
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=26.21 E-value=1.2e+02 Score=24.11 Aligned_cols=29 Identities=24% Similarity=0.220 Sum_probs=23.2
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-...+||..| |-+...|+.+....+++
T Consensus 154 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 154 VGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356799999999 88899999987765544
No 133
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=26.09 E-value=1.2e+02 Score=24.12 Aligned_cols=29 Identities=17% Similarity=0.043 Sum_probs=23.4
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-....||..| |-|...|+++....+++
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 356789999999 88999999998765543
No 134
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=26.02 E-value=1.3e+02 Score=23.92 Aligned_cols=31 Identities=19% Similarity=0.020 Sum_probs=25.6
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhHHh
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCKKL 111 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~~ 111 (217)
.|-...+||..| |-+...|+.|...-+.+-+
T Consensus 142 ~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~ 172 (178)
T PRK12529 142 DGMKQKDIAQAL-DIALPTVKKYIHQAYVTCL 172 (178)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 356799999999 9999999999887766543
No 135
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=25.99 E-value=1.2e+02 Score=23.90 Aligned_cols=28 Identities=14% Similarity=0.211 Sum_probs=22.7
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-...+||..| |-+...|+.+....+++
T Consensus 147 g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 147 GASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 56789999999 99999999988765543
No 136
>PRK01905 DNA-binding protein Fis; Provisional
Probab=25.95 E-value=1.5e+02 Score=20.62 Aligned_cols=36 Identities=22% Similarity=0.230 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHH
Q 047269 67 EEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHW 103 (217)
Q Consensus 67 ~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw 103 (217)
.-|...+..++..+|++++..|+.+ |=+...++.+-
T Consensus 36 ~~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~rkl 71 (77)
T PRK01905 36 CVEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRKKL 71 (77)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHH
Confidence 3467778899999999999999988 55665555443
No 137
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=25.79 E-value=1.1e+02 Score=24.46 Aligned_cols=28 Identities=14% Similarity=0.010 Sum_probs=22.0
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-....||..+ |-|...|+++....+++
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 45688999999 88899999988765543
No 138
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=25.62 E-value=1.2e+02 Score=24.29 Aligned_cols=27 Identities=4% Similarity=-0.151 Sum_probs=22.6
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhh
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLC 108 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~ 108 (217)
|-...+||..| |-|...|+.|....++
T Consensus 150 g~s~~EIA~~l-gis~~tVk~~l~RAr~ 176 (189)
T PRK12530 150 ELSSEQICQEC-DISTSNLHVLLYRARL 176 (189)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 56799999999 9999999999775543
No 139
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=23.74 E-value=88 Score=22.38 Aligned_cols=21 Identities=19% Similarity=0.422 Sum_probs=18.5
Q ss_pred HHHHHHHHHhCCchhhhhccC
Q 047269 71 NLIIRLHNLLGNRWSLIAGRV 91 (217)
Q Consensus 71 ~~L~~lv~~~G~~W~~Ia~~l 91 (217)
..|..+....|..|..+|.++
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 357788899999999999998
No 140
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=23.65 E-value=91 Score=22.43 Aligned_cols=22 Identities=23% Similarity=0.421 Sum_probs=18.7
Q ss_pred HHHHHHHHHHhCCchhhhhccC
Q 047269 70 ENLIIRLHNLLGNRWSLIAGRV 91 (217)
Q Consensus 70 D~~L~~lv~~~G~~W~~Ia~~l 91 (217)
|..|..+....|..|.++|..|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L 25 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL 25 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc
Confidence 4567777888999999999988
No 141
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=23.59 E-value=1.4e+02 Score=24.02 Aligned_cols=29 Identities=14% Similarity=-0.149 Sum_probs=22.8
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-.+.+||+.| |=+...|+++....+++
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 356799999999 88889998887765543
No 142
>PF00674 DUP: DUP family; InterPro: IPR001142 A number of uncharacterised integral membrane proteins from yeast contain an internal duplication due to duplicated genes. Duplicated copies of genes may be classified in two types of cluster organisation. The first type includes genes sharing a significant level of identity in the amino acid sequences of their predicted protein product. They are recovered on two different chromosomes, transcribed in the same orientation and the distance between them is conserved. The second type of cluster is based on one gene unit tandemly repeated. This duplication is itself repeated elsewhere in the genome. The basic gene unit is recovered many times in the genome and is a component of a multigene family of unknown function. These organisations in clusters of genes suggest a 'Lego organisation' of the yeast chromosomes []. The proteins belonging to this family are of unknown function.
Probab=23.05 E-value=58 Score=24.26 Aligned_cols=33 Identities=15% Similarity=0.367 Sum_probs=24.3
Q ss_pred CchhhhhccCCC--------C------CHHHHHHHHHHHhhHHhcCc
Q 047269 82 NRWSLIAGRVPG--------R------TDNQVKNHWNTHLCKKLGIN 114 (217)
Q Consensus 82 ~~W~~Ia~~lpg--------R------T~~q~k~Rw~~~l~k~~~~~ 114 (217)
..|..||.+|.. + .+.+|...|+.++.+.+..+
T Consensus 60 ~~Wd~IA~~mN~yly~~~~w~t~~~FyDG~~C~~~Fr~~v~~p~~~k 106 (108)
T PF00674_consen 60 KKWDIIASRMNQYLYEEGLWNTPYFFYDGKDCYRFFRRLVLKPYSKK 106 (108)
T ss_pred ccHHHHHHHHHHHHHhCCCCCCcCcccCcHHHHHHHHHHhccccccc
Confidence 479999998731 2 46799999998887665544
No 143
>PRK00118 putative DNA-binding protein; Validated
Probab=22.62 E-value=1.7e+02 Score=21.90 Aligned_cols=40 Identities=15% Similarity=0.049 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHhh
Q 047269 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLC 108 (217)
Q Consensus 68 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~ 108 (217)
+.+..++.+.-..|-....||+.+ |-|...|+.+-....+
T Consensus 20 ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArk 59 (104)
T PRK00118 20 EKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEK 59 (104)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 445566677777788999999999 9999999888765443
No 144
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=22.59 E-value=1.6e+02 Score=22.29 Aligned_cols=28 Identities=29% Similarity=0.155 Sum_probs=22.0
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-...+||..+ |-+...|+.+-...+++
T Consensus 122 ~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 122 GKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 45688999998 89999999887765544
No 145
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=22.47 E-value=1.7e+02 Score=22.42 Aligned_cols=28 Identities=21% Similarity=0.259 Sum_probs=22.1
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-.-..||..| |-+...|+.|....+++
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 45578999999 99999999997765543
No 146
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=22.39 E-value=72 Score=21.94 Aligned_cols=44 Identities=18% Similarity=0.448 Sum_probs=27.8
Q ss_pred HHHHHHHHHHhCCCCcchhhccccccccccccchhhhhccCCCC-------CCCCCCHHHHHHH
Q 047269 17 DRILLEYIRVHGRGQWNRIHKVTGLKRCGKSCRLRWLNYLSPNV-------KHGEFTEEEENLI 73 (217)
Q Consensus 17 D~~L~~~v~~~g~~~W~~Ia~~~~~~Rt~~qcr~Rw~~~l~p~~-------~~~~WT~eED~~L 73 (217)
+..|.++|+.|| |...++.+. ..|.. -+|.+ .+.+|..+.-+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~-----i~CF~-----~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERIN-----INCFK-----NNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTT-----SSSTT-----SS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcc-----cccCC-----CCCchHHHHHHHhcCHhHHHHHHHh
Confidence 467889999997 999998777 33432 24443 3567877665544
No 147
>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=22.15 E-value=1.6e+02 Score=23.05 Aligned_cols=28 Identities=21% Similarity=0.222 Sum_probs=22.6
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-...+||..+ |-+...|+.|....+++
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 45689999999 99999999998765443
No 148
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=21.87 E-value=1.9e+02 Score=21.10 Aligned_cols=35 Identities=11% Similarity=0.056 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHH
Q 047269 68 EEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHW 103 (217)
Q Consensus 68 eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw 103 (217)
-|...|..++..++++..+.|+.+ |=+...++.+-
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 467788899999999999999998 65666555443
No 149
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=21.48 E-value=1.7e+02 Score=23.16 Aligned_cols=29 Identities=21% Similarity=0.069 Sum_probs=23.6
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-...+||..| |.+...|+++-...+++
T Consensus 144 ~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 144 EGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356789999999 99999999997765544
No 150
>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=21.44 E-value=1.7e+02 Score=22.53 Aligned_cols=28 Identities=21% Similarity=0.120 Sum_probs=21.8
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-.-..||+.| |-+...|+.+-...+++
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 55678999999 88899998887665543
No 151
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=21.32 E-value=1.8e+02 Score=22.34 Aligned_cols=29 Identities=24% Similarity=0.196 Sum_probs=23.6
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-...+||..+ |-+...|+.|....+++
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 456789999999 89999999998766554
No 152
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=21.32 E-value=1.7e+02 Score=23.00 Aligned_cols=28 Identities=21% Similarity=0.226 Sum_probs=22.5
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-.-..||..| |.|...|+.+....+++
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 55689999999 99999999987765443
No 153
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=21.18 E-value=1.6e+02 Score=23.56 Aligned_cols=29 Identities=10% Similarity=0.028 Sum_probs=23.6
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhHH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCKK 110 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~ 110 (217)
|-.-.+||..| |-+...|+.|....+++-
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 45689999999 999999999987665543
No 154
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=21.15 E-value=2.4e+02 Score=23.70 Aligned_cols=45 Identities=20% Similarity=0.230 Sum_probs=36.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCchhhhhccCCCCCHHHHHHHHHHHhhHH
Q 047269 63 GEFTEEEENLIIRLHNLLGNRWSLIAGRVPGRTDNQVKNHWNTHLCKK 110 (217)
Q Consensus 63 ~~WT~eED~~L~~lv~~~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k~ 110 (217)
...|+.|-+.|.-+.+ |....+||+.| +-+...|+++-..+++|.
T Consensus 132 ~~LSpRErEVLrLLAq--GkTnKEIAe~L-~IS~rTVkth~srImkKL 176 (198)
T PRK15201 132 RHFSVTERHLLKLIAS--GYHLSETAALL-SLSEEQTKSLRRSIMRKL 176 (198)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 3578888777665544 78899999999 999999999988877654
No 155
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=20.86 E-value=1.8e+02 Score=23.09 Aligned_cols=29 Identities=14% Similarity=0.265 Sum_probs=23.1
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-.-.+||..| |-|...|++|....+++
T Consensus 137 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 165 (185)
T PRK12542 137 YNLTYQEISSVM-GITEANVRKQFERARKR 165 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356689999999 99999999987765543
No 156
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=20.39 E-value=1.9e+02 Score=22.39 Aligned_cols=29 Identities=14% Similarity=0.089 Sum_probs=22.7
Q ss_pred hCCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 80 LGNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 80 ~G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
.|-.-..||..+ |-+...|+++-...+++
T Consensus 127 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 155 (164)
T PRK12547 127 SGFSYEDAAAIC-GCAVGTIKSRVSRARNR 155 (164)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 355689999999 88999999987765543
No 157
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=20.33 E-value=1.5e+02 Score=23.35 Aligned_cols=28 Identities=25% Similarity=0.223 Sum_probs=23.0
Q ss_pred CCchhhhhccCCCCCHHHHHHHHHHHhhH
Q 047269 81 GNRWSLIAGRVPGRTDNQVKNHWNTHLCK 109 (217)
Q Consensus 81 G~~W~~Ia~~lpgRT~~q~k~Rw~~~l~k 109 (217)
|-...+||+.+ |-+...|+++....++.
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 45689999999 99999999998766543
Done!