Query 040502
Match_columns 252
No_of_seqs 345 out of 1328
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 09:05:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040502.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040502hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0048 Transcription factor, 100.0 2.6E-34 5.7E-39 254.8 10.3 109 8-116 6-115 (238)
2 PLN03212 Transcription repress 100.0 6.2E-33 1.3E-37 243.4 8.8 110 6-115 20-130 (249)
3 PLN03091 hypothetical protein; 100.0 6.2E-32 1.3E-36 252.6 10.4 114 1-114 1-118 (459)
4 KOG0049 Transcription factor, 99.8 2E-19 4.3E-24 174.1 5.8 98 6-103 355-453 (939)
5 KOG0049 Transcription factor, 99.7 2.5E-18 5.5E-23 166.5 8.5 112 10-121 304-419 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.7 2.7E-17 5.7E-22 115.7 2.7 60 14-74 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.6 2.8E-16 6E-21 151.6 5.5 108 6-113 15-122 (512)
8 KOG0050 mRNA splicing protein 99.6 4.9E-16 1.1E-20 147.7 6.5 101 10-111 6-106 (617)
9 PF00249 Myb_DNA-binding: Myb- 99.5 6.6E-15 1.4E-19 99.3 -0.4 47 11-57 1-48 (48)
10 PF00249 Myb_DNA-binding: Myb- 99.4 2E-13 4.3E-18 92.1 6.2 46 63-108 1-48 (48)
11 KOG0051 RNA polymerase I termi 99.4 8E-14 1.7E-18 136.0 5.4 105 10-116 383-515 (607)
12 PLN03212 Transcription repress 99.4 1.3E-13 2.9E-18 121.6 6.2 97 40-155 9-107 (249)
13 PF13921 Myb_DNA-bind_6: Myb-l 99.4 3.4E-13 7.3E-18 94.7 4.8 52 66-117 1-52 (60)
14 PLN03091 hypothetical protein; 99.3 1.5E-12 3.3E-17 122.8 5.3 84 59-154 10-95 (459)
15 KOG0048 Transcription factor, 99.3 2.6E-12 5.7E-17 114.1 4.6 59 60-118 6-66 (238)
16 smart00717 SANT SANT SWI3, AD 99.3 1.5E-11 3.2E-16 81.1 6.0 47 63-109 1-48 (49)
17 smart00717 SANT SANT SWI3, AD 99.2 1E-11 2.2E-16 81.9 1.7 48 11-58 1-48 (49)
18 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 1.2E-10 2.6E-15 75.6 5.9 44 65-108 1-45 (45)
19 KOG0051 RNA polymerase I termi 99.1 2.4E-10 5.1E-15 112.0 7.0 102 10-112 307-432 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 8.3E-11 1.8E-15 76.3 1.4 44 13-56 1-44 (45)
21 KOG0050 mRNA splicing protein 98.4 2E-07 4.3E-12 89.6 3.4 147 61-236 5-159 (617)
22 COG5147 REB1 Myb superfamily p 98.2 8.9E-07 1.9E-11 86.2 2.4 102 5-108 66-167 (512)
23 KOG0457 Histone acetyltransfer 97.8 4E-05 8.7E-10 72.8 6.7 48 61-108 70-118 (438)
24 TIGR02894 DNA_bind_RsfA transc 97.8 4.6E-05 9.9E-10 63.8 5.3 54 62-116 3-63 (161)
25 TIGR01557 myb_SHAQKYF myb-like 97.7 0.0001 2.2E-09 51.6 6.0 46 63-108 3-54 (57)
26 KOG0457 Histone acetyltransfer 97.7 8.7E-06 1.9E-10 77.2 0.7 50 8-57 69-118 (438)
27 TIGR01557 myb_SHAQKYF myb-like 97.5 3.7E-05 8E-10 53.9 1.6 48 10-57 2-54 (57)
28 PF13325 MCRS_N: N-terminal re 97.4 0.00035 7.6E-09 60.7 5.9 97 13-111 1-129 (199)
29 COG5259 RSC8 RSC chromatin rem 97.2 0.00047 1E-08 66.1 4.7 45 63-107 279-323 (531)
30 PF13837 Myb_DNA-bind_4: Myb/S 97.1 0.00053 1.1E-08 51.1 3.9 47 64-110 2-66 (90)
31 PRK13923 putative spore coat p 97.1 0.00084 1.8E-08 56.9 5.0 56 61-117 3-65 (170)
32 KOG1279 Chromatin remodeling f 97.0 0.00086 1.9E-08 65.7 5.2 46 62-107 252-297 (506)
33 COG5259 RSC8 RSC chromatin rem 97.0 0.00025 5.3E-09 68.1 0.8 46 10-56 278-323 (531)
34 KOG1279 Chromatin remodeling f 96.9 0.00041 8.9E-09 67.9 1.7 49 7-56 249-297 (506)
35 PF08914 Myb_DNA-bind_2: Rap1 96.8 0.0021 4.5E-08 46.2 4.3 49 63-111 2-60 (65)
36 PF08914 Myb_DNA-bind_2: Rap1 96.8 0.00026 5.7E-09 50.9 -0.6 51 11-61 2-61 (65)
37 COG5114 Histone acetyltransfer 96.0 0.0095 2.1E-07 55.0 4.8 45 64-108 64-109 (432)
38 PF13873 Myb_DNA-bind_5: Myb/S 95.8 0.027 5.8E-07 41.0 5.8 47 64-110 3-71 (78)
39 PLN03142 Probable chromatin-re 95.7 0.032 6.9E-07 59.3 7.6 100 12-111 825-987 (1033)
40 PF13837 Myb_DNA-bind_4: Myb/S 95.5 0.003 6.5E-08 47.0 -0.5 46 11-56 1-63 (90)
41 PF13873 Myb_DNA-bind_5: Myb/S 95.4 0.0059 1.3E-07 44.6 0.8 47 11-57 2-69 (78)
42 TIGR02894 DNA_bind_RsfA transc 95.4 0.0051 1.1E-07 51.6 0.4 49 10-59 3-57 (161)
43 COG5114 Histone acetyltransfer 95.3 0.004 8.7E-08 57.5 -0.5 47 12-58 64-110 (432)
44 PRK13923 putative spore coat p 94.4 0.0073 1.6E-07 51.2 -1.0 50 8-58 2-57 (170)
45 PF09111 SLIDE: SLIDE; InterP 94.2 0.11 2.5E-06 41.5 5.5 51 60-110 46-112 (118)
46 KOG2656 DNA methyltransferase 93.9 0.068 1.5E-06 50.7 4.0 84 32-115 74-188 (445)
47 PF12776 Myb_DNA-bind_3: Myb/S 93.0 0.37 8E-06 36.0 6.2 48 65-113 1-66 (96)
48 KOG4282 Transcription factor G 92.4 0.31 6.7E-06 45.4 6.1 49 63-111 54-116 (345)
49 COG5118 BDP1 Transcription ini 92.2 0.24 5.2E-06 46.9 5.0 46 64-109 366-411 (507)
50 COG5118 BDP1 Transcription ini 89.7 0.15 3.3E-06 48.2 1.2 43 12-55 366-408 (507)
51 PF08281 Sigma70_r4_2: Sigma-7 89.3 1.2 2.5E-05 29.8 5.1 41 68-109 12-52 (54)
52 KOG1194 Predicted DNA-binding 89.3 0.94 2E-05 44.0 6.2 49 63-111 187-235 (534)
53 KOG4167 Predicted DNA-binding 88.6 0.98 2.1E-05 46.2 6.1 43 64-106 620-662 (907)
54 PF11626 Rap1_C: TRF2-interact 85.7 0.78 1.7E-05 34.5 2.8 24 7-30 43-74 (87)
55 PF13404 HTH_AsnC-type: AsnC-t 82.8 4.6 9.9E-05 26.2 5.1 38 69-107 3-41 (42)
56 PF09111 SLIDE: SLIDE; InterP 82.7 0.81 1.7E-05 36.6 1.8 35 7-41 45-82 (118)
57 PF13325 MCRS_N: N-terminal re 79.2 3.8 8.2E-05 35.8 4.9 46 65-111 1-49 (199)
58 PF04545 Sigma70_r4: Sigma-70, 79.0 8.5 0.00018 25.2 5.6 41 69-110 7-47 (50)
59 PRK11179 DNA-binding transcrip 78.3 5.3 0.00011 32.8 5.4 46 68-114 8-54 (153)
60 KOG4468 Polycomb-group transcr 78.0 3.5 7.7E-05 41.4 4.8 52 63-114 88-149 (782)
61 smart00595 MADF subfamily of S 74.3 3.9 8.4E-05 30.0 3.2 23 85-108 30-52 (89)
62 PF12776 Myb_DNA-bind_3: Myb/S 74.1 1.6 3.4E-05 32.5 1.0 42 13-54 1-59 (96)
63 KOG4282 Transcription factor G 73.8 1.1 2.4E-05 41.7 0.2 45 12-56 55-112 (345)
64 PRK11169 leucine-responsive tr 73.1 6.8 0.00015 32.5 4.8 46 68-114 13-59 (164)
65 KOG4167 Predicted DNA-binding 68.6 2 4.4E-05 44.0 0.7 42 12-54 620-661 (907)
66 PF07750 GcrA: GcrA cell cycle 68.6 7.6 0.00017 32.7 4.1 41 65-106 2-42 (162)
67 PF01388 ARID: ARID/BRIGHT DNA 68.4 15 0.00033 27.2 5.3 38 73-110 40-90 (92)
68 PF11035 SnAPC_2_like: Small n 68.1 21 0.00045 33.4 7.1 51 63-114 21-75 (344)
69 TIGR02985 Sig70_bacteroi1 RNA 65.9 19 0.00042 28.4 5.9 35 74-109 121-155 (161)
70 smart00501 BRIGHT BRIGHT, ARID 64.0 20 0.00043 26.8 5.3 38 73-110 36-86 (93)
71 smart00344 HTH_ASNC helix_turn 58.5 28 0.00062 26.2 5.3 45 69-114 3-48 (108)
72 PF11626 Rap1_C: TRF2-interact 58.4 7.2 0.00016 29.1 1.9 18 59-76 43-60 (87)
73 KOG1194 Predicted DNA-binding 58.3 4.4 9.6E-05 39.5 0.9 44 11-55 187-230 (534)
74 KOG4468 Polycomb-group transcr 57.2 6.1 0.00013 39.8 1.6 46 11-57 88-143 (782)
75 KOG2009 Transcription initiati 55.3 12 0.00026 37.7 3.3 49 62-110 408-456 (584)
76 PF02954 HTH_8: Bacterial regu 54.8 44 0.00096 21.2 5.0 34 70-104 6-39 (42)
77 PF10545 MADF_DNA_bdg: Alcohol 54.5 16 0.00035 25.9 3.2 25 85-109 29-54 (85)
78 PF04504 DUF573: Protein of un 52.4 43 0.00094 25.6 5.4 50 64-114 5-67 (98)
79 TIGR02937 sigma70-ECF RNA poly 51.2 44 0.00096 25.5 5.5 30 80-110 124-153 (158)
80 KOG2656 DNA methyltransferase 50.3 7.6 0.00016 37.2 1.0 45 11-56 130-180 (445)
81 KOG3841 TEF-1 and related tran 50.2 1.6E+02 0.0034 28.4 9.7 55 61-115 74-149 (455)
82 cd06171 Sigma70_r4 Sigma70, re 49.7 60 0.0013 20.0 5.6 40 66-107 11-50 (55)
83 cd08319 Death_RAIDD Death doma 49.5 29 0.00063 25.9 3.9 29 71-100 2-30 (83)
84 PRK11924 RNA polymerase sigma 48.1 50 0.0011 26.5 5.5 28 81-109 140-167 (179)
85 PRK04217 hypothetical protein; 48.1 63 0.0014 25.5 5.8 43 65-109 42-84 (110)
86 PF11035 SnAPC_2_like: Small n 47.5 16 0.00034 34.2 2.6 84 13-109 23-127 (344)
87 PRK09652 RNA polymerase sigma 46.7 58 0.0013 26.2 5.7 29 80-109 142-170 (182)
88 PF07638 Sigma70_ECF: ECF sigm 44.5 57 0.0012 27.3 5.5 35 73-108 142-176 (185)
89 PRK09643 RNA polymerase sigma 44.0 65 0.0014 27.0 5.8 29 80-109 148-176 (192)
90 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 43.8 83 0.0018 21.3 5.1 35 69-104 7-41 (50)
91 KOG0384 Chromodomain-helicase 42.5 22 0.00048 38.8 3.1 71 12-89 1134-1206(1373)
92 PF13936 HTH_38: Helix-turn-he 41.7 35 0.00077 22.0 3.0 36 65-102 4-39 (44)
93 PRK09641 RNA polymerase sigma 41.6 71 0.0015 26.1 5.6 28 81-109 151-178 (187)
94 KOG1878 Nuclear receptor coreg 40.6 8.6 0.00019 42.4 -0.2 43 11-54 225-267 (1672)
95 COG1522 Lrp Transcriptional re 39.3 79 0.0017 25.2 5.4 47 68-115 7-54 (154)
96 PRK12523 RNA polymerase sigma 39.3 92 0.002 25.3 5.9 30 80-110 133-162 (172)
97 TIGR02954 Sig70_famx3 RNA poly 39.0 85 0.0018 25.3 5.6 29 81-110 134-162 (169)
98 KOG2009 Transcription initiati 38.3 20 0.00043 36.1 1.9 48 7-55 405-452 (584)
99 TIGR02939 RpoE_Sigma70 RNA pol 38.0 71 0.0015 26.1 5.0 28 82-110 154-181 (190)
100 PRK09047 RNA polymerase factor 37.7 1.1E+02 0.0023 24.3 5.9 29 81-110 121-149 (161)
101 PRK09645 RNA polymerase sigma 37.6 99 0.0021 25.0 5.8 28 81-109 133-160 (173)
102 PRK11179 DNA-binding transcrip 37.6 8.9 0.00019 31.4 -0.5 45 16-61 8-52 (153)
103 KOG4329 DNA-binding protein [G 37.4 62 0.0013 31.0 4.9 43 64-106 278-321 (445)
104 PRK09637 RNA polymerase sigma 37.3 92 0.002 25.8 5.6 29 81-110 121-149 (181)
105 cd08803 Death_ank3 Death domai 36.2 68 0.0015 23.9 4.1 29 71-100 4-32 (84)
106 PRK12512 RNA polymerase sigma 36.2 1E+02 0.0023 25.2 5.8 29 81-110 146-174 (184)
107 PRK09642 RNA polymerase sigma 36.0 1.1E+02 0.0024 24.3 5.8 28 81-109 121-148 (160)
108 PRK09648 RNA polymerase sigma 35.2 1.1E+02 0.0025 25.1 5.9 29 81-110 154-182 (189)
109 cd08317 Death_ank Death domain 34.8 53 0.0011 24.1 3.3 29 71-100 4-32 (84)
110 PRK12515 RNA polymerase sigma 34.8 1.2E+02 0.0025 25.1 5.9 29 81-110 146-174 (189)
111 TIGR02943 Sig70_famx1 RNA poly 34.6 1.2E+02 0.0025 25.3 5.9 30 80-110 145-174 (188)
112 TIGR02948 SigW_bacill RNA poly 34.5 99 0.0021 25.2 5.3 27 82-109 152-178 (187)
113 PRK11169 leucine-responsive tr 34.2 8.4 0.00018 32.0 -1.2 46 15-61 12-57 (164)
114 PRK01905 DNA-binding protein F 34.1 1.3E+02 0.0029 21.6 5.4 36 68-104 36-71 (77)
115 PRK11923 algU RNA polymerase s 33.9 1.1E+02 0.0024 25.3 5.6 27 82-109 154-180 (193)
116 PRK12531 RNA polymerase sigma 33.9 1.2E+02 0.0026 25.3 5.8 29 81-110 156-184 (194)
117 PF09420 Nop16: Ribosome bioge 33.4 86 0.0019 26.1 4.8 45 63-107 114-162 (164)
118 PRK12530 RNA polymerase sigma 33.3 1.2E+02 0.0026 25.2 5.8 28 81-109 149-176 (189)
119 PRK12529 RNA polymerase sigma 33.2 1.5E+02 0.0033 24.3 6.3 31 81-112 142-172 (178)
120 COG2197 CitB Response regulato 33.0 67 0.0014 27.7 4.2 44 65-111 148-191 (211)
121 PRK00118 putative DNA-binding 32.2 1.6E+02 0.0035 22.9 5.8 39 68-107 19-57 (104)
122 PRK12536 RNA polymerase sigma 31.7 1.4E+02 0.003 24.5 5.8 29 80-109 143-171 (181)
123 PRK12524 RNA polymerase sigma 31.0 1.4E+02 0.003 24.9 5.8 28 81-109 151-178 (196)
124 PRK12527 RNA polymerase sigma 30.6 1.6E+02 0.0035 23.4 5.9 28 82-110 121-148 (159)
125 PRK06759 RNA polymerase factor 30.0 1.6E+02 0.0036 23.0 5.8 27 82-109 122-148 (154)
126 smart00005 DEATH DEATH domain, 29.7 77 0.0017 22.8 3.5 29 71-100 5-34 (88)
127 KOG4329 DNA-binding protein [G 29.6 29 0.00062 33.2 1.4 42 12-54 278-320 (445)
128 cd08318 Death_NMPP84 Death dom 29.1 90 0.0019 23.1 3.8 23 77-100 13-35 (86)
129 PRK09649 RNA polymerase sigma 28.8 1.5E+02 0.0033 24.5 5.6 29 81-110 145-173 (185)
130 PRK12532 RNA polymerase sigma 28.7 1.5E+02 0.0033 24.6 5.6 28 81-109 151-178 (195)
131 PF10440 WIYLD: Ubiquitin-bind 28.6 43 0.00093 24.1 1.8 18 73-90 31-48 (65)
132 PRK09651 RNA polymerase sigma 28.6 1.3E+02 0.0028 24.5 5.1 28 82-110 135-162 (172)
133 TIGR02952 Sig70_famx2 RNA poly 28.5 1.8E+02 0.0038 23.2 5.8 27 82-109 138-164 (170)
134 TIGR02999 Sig-70_X6 RNA polyme 28.3 1.7E+02 0.0038 23.7 5.8 28 81-109 149-176 (183)
135 PRK12516 RNA polymerase sigma 28.1 1.7E+02 0.0037 24.4 5.8 29 80-109 130-158 (187)
136 PRK00430 fis global DNA-bindin 28.0 1.8E+02 0.0039 22.1 5.4 34 69-103 55-88 (95)
137 PRK12528 RNA polymerase sigma 28.0 1.9E+02 0.0041 23.0 5.9 28 81-109 128-155 (161)
138 PRK12514 RNA polymerase sigma 27.9 1.7E+02 0.0037 23.7 5.7 28 82-110 145-172 (179)
139 PRK12547 RNA polymerase sigma 27.3 1.9E+02 0.0041 23.3 5.8 28 81-109 127-154 (164)
140 PRK13919 putative RNA polymera 27.1 1.8E+02 0.004 23.7 5.8 28 82-110 151-178 (186)
141 PRK12542 RNA polymerase sigma 26.6 1.9E+02 0.0041 23.8 5.7 28 81-109 137-164 (185)
142 TIGR02983 SigE-fam_strep RNA p 26.5 1.8E+02 0.0039 23.1 5.5 37 73-110 117-153 (162)
143 cd08804 Death_ank2 Death domai 26.4 1E+02 0.0022 22.8 3.7 31 71-102 4-34 (84)
144 PRK05602 RNA polymerase sigma 26.2 1.8E+02 0.0038 23.9 5.5 28 81-109 143-170 (186)
145 COG2963 Transposase and inacti 26.1 2.3E+02 0.005 21.6 5.8 44 63-108 5-49 (116)
146 cd08311 Death_p75NR Death doma 26.0 86 0.0019 23.0 3.1 33 68-102 2-34 (77)
147 PRK12545 RNA polymerase sigma 25.9 1.9E+02 0.0041 24.3 5.8 28 81-109 154-181 (201)
148 TIGR02950 SigM_subfam RNA poly 25.9 68 0.0015 25.3 2.8 27 82-109 121-147 (154)
149 TIGR02984 Sig-70_plancto1 RNA 25.7 2.1E+02 0.0045 23.2 5.8 29 81-110 155-183 (189)
150 PF13384 HTH_23: Homeodomain-l 25.0 1.3E+02 0.0029 19.1 3.7 30 71-102 7-36 (50)
151 TIGR02960 SigX5 RNA polymerase 24.8 1.7E+02 0.0036 26.4 5.5 28 81-109 157-184 (324)
152 PLN03142 Probable chromatin-re 24.7 1.5E+02 0.0033 32.2 5.9 44 65-108 826-870 (1033)
153 PRK12520 RNA polymerase sigma 24.1 2.2E+02 0.0049 23.4 5.8 28 82-110 147-174 (191)
154 PRK12546 RNA polymerase sigma 24.0 2E+02 0.0043 24.1 5.5 29 80-109 127-155 (188)
155 cd08777 Death_RIP1 Death Domai 23.4 1.1E+02 0.0025 22.7 3.5 29 73-102 4-32 (86)
156 PF07750 GcrA: GcrA cell cycle 23.4 49 0.0011 27.8 1.6 39 13-53 2-40 (162)
157 KOG0384 Chromodomain-helicase 23.1 53 0.0012 36.1 2.1 25 65-89 1135-1160(1373)
158 cd08805 Death_ank1 Death domai 22.8 1.3E+02 0.0028 22.5 3.6 22 71-92 4-25 (84)
159 PF09905 DUF2132: Uncharacteri 22.6 52 0.0011 23.5 1.3 44 19-74 12-62 (64)
160 PRK09639 RNA polymerase sigma 22.6 2.5E+02 0.0054 22.3 5.7 29 81-110 126-154 (166)
161 PRK09647 RNA polymerase sigma 22.5 2.5E+02 0.0054 23.8 5.9 28 81-109 153-180 (203)
162 PRK12537 RNA polymerase sigma 22.4 2.5E+02 0.0053 23.0 5.7 29 81-110 148-176 (182)
163 PRK09636 RNA polymerase sigma 22.3 2.3E+02 0.0049 25.4 5.8 29 81-110 130-158 (293)
164 PRK06811 RNA polymerase factor 22.3 2.6E+02 0.0056 23.1 5.8 28 82-110 147-174 (189)
165 PRK11922 RNA polymerase sigma 21.9 1.3E+02 0.0028 26.0 4.0 27 82-109 165-191 (231)
166 PRK09646 RNA polymerase sigma 21.7 2.6E+02 0.0056 23.2 5.8 27 82-109 158-184 (194)
167 PRK06986 fliA flagellar biosyn 21.3 2.3E+02 0.005 24.4 5.5 29 81-110 199-227 (236)
168 PRK09638 RNA polymerase sigma 21.2 1.4E+02 0.0029 24.2 3.8 28 81-109 141-168 (176)
169 PRK09415 RNA polymerase factor 20.9 2.5E+02 0.0054 22.9 5.4 28 82-110 143-170 (179)
170 PRK12519 RNA polymerase sigma 20.8 2.2E+02 0.0047 23.5 5.1 28 81-109 156-183 (194)
171 KOG3554 Histone deacetylase co 20.6 1.2E+02 0.0027 30.0 3.8 60 36-105 268-328 (693)
172 TIGR02957 SigX4 RNA polymerase 20.5 2.6E+02 0.0056 25.0 5.8 29 81-110 123-151 (281)
173 TIGR02980 SigBFG RNA polymeras 20.3 2.8E+02 0.0061 23.6 5.8 29 81-110 193-221 (227)
174 cd08779 Death_PIDD Death Domai 20.0 1.4E+02 0.0031 22.1 3.4 25 72-97 3-27 (86)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=2.6e-34 Score=254.81 Aligned_cols=109 Identities=46% Similarity=0.864 Sum_probs=105.2
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCccccccccc-ccccccccccccccCCCcccCCCCChHHHHHHHHHHHHhCCChH
Q 040502 8 ERVKGPWSPEEDQLLLKLVQRYGARNWSVISKSIP-GRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIKAHARYGNKWA 86 (252)
Q Consensus 8 ~~~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lp-gRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~~G~~W~ 86 (252)
..+||+||+|||++|+++|++||.++|..|++.++ +|++++||.||.|||+|.+++|.||+|||++|+++|..||++|+
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 35589999999999999999999999999999998 99999999999999999999999999999999999999999999
Q ss_pred HHHHHhCCCCHHHHHHHHHHHhhhhhhhhh
Q 040502 87 TIARLLNGRTDNAIKNHWNSTLKRKYAETT 116 (252)
Q Consensus 87 ~IA~~lpgRT~~qck~Rw~~~lk~k~~~~~ 116 (252)
.||++|||||++.|||+|++.|++++....
T Consensus 86 ~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 86 LIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 999999999999999999999999987764
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.98 E-value=6.2e-33 Score=243.39 Aligned_cols=110 Identities=41% Similarity=0.812 Sum_probs=104.6
Q ss_pred ccCCCcCCCCHHHHHHHHHHHHHhCCCCcccccccc-cccccccccccccccCCCcccCCCCChHHHHHHHHHHHHhCCC
Q 040502 6 VSERVKGPWSPEEDQLLLKLVQRYGARNWSVISKSI-PGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIKAHARYGNK 84 (252)
Q Consensus 6 ~~~~~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~l-pgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~~G~~ 84 (252)
++..+|++||+|||++|+++|++||..+|..||+.+ ++|+++|||+||.++|+|.+++++||.|||++|++++..||++
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 455889999999999999999999998999999988 6999999999999999999999999999999999999999999
Q ss_pred hHHHHHHhCCCCHHHHHHHHHHHhhhhhhhh
Q 040502 85 WATIARLLNGRTDNAIKNHWNSTLKRKYAET 115 (252)
Q Consensus 85 W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~~ 115 (252)
|+.||+.|||||+++|||||++++++++...
T Consensus 100 Ws~IAk~LpGRTDnqIKNRWns~LrK~l~r~ 130 (249)
T PLN03212 100 WSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQ 130 (249)
T ss_pred HHHHHhhcCCCCHHHHHHHHHHHHhHHHHhc
Confidence 9999999999999999999999999887654
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.97 E-value=6.2e-32 Score=252.64 Aligned_cols=114 Identities=50% Similarity=0.883 Sum_probs=107.2
Q ss_pred CCCccccC---CCcCCCCHHHHHHHHHHHHHhCCCCcccccccc-cccccccccccccccCCCcccCCCCChHHHHHHHH
Q 040502 1 MDRDSVSE---RVKGPWSPEEDQLLLKLVQRYGARNWSVISKSI-PGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIK 76 (252)
Q Consensus 1 ~~~~~~~~---~~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~l-pgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~ 76 (252)
|||..+.. .+||+||+|||++|+++|.+||..+|..||+.+ ++|+++|||+||.++|+|.+++++||+|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 56666554 788999999999999999999999999999988 49999999999999999999999999999999999
Q ss_pred HHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhhhhhhh
Q 040502 77 AHARYGNKWATIARLLNGRTDNAIKNHWNSTLKRKYAE 114 (252)
Q Consensus 77 lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~ 114 (252)
+++.||++|..||+.|+|||+++||+||+.+|+++++.
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~ 118 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999988764
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.77 E-value=2e-19 Score=174.14 Aligned_cols=98 Identities=34% Similarity=0.638 Sum_probs=92.8
Q ss_pred ccCCCcCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccCCCcccCCCCChHHHHHHHHHHHHhC-CC
Q 040502 6 VSERVKGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIKAHARYG-NK 84 (252)
Q Consensus 6 ~~~~~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~~G-~~ 84 (252)
.+..++|+||++||.+|+.+|.+||.++|.+|-..+|||+..|||+||.|.|+...+.+.||-.||+.|+.+|..|| ++
T Consensus 355 dPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g~ 434 (939)
T KOG0049|consen 355 DPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKGN 434 (939)
T ss_pred CccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccch
Confidence 57789999999999999999999999999999999999999999999999999999999999999999999999999 78
Q ss_pred hHHHHHHhCCCCHHHHHHH
Q 040502 85 WATIARLLNGRTDNAIKNH 103 (252)
Q Consensus 85 W~~IA~~lpgRT~~qck~R 103 (252)
|.+||..||+||..|...|
T Consensus 435 WakcA~~Lp~~t~~q~~rr 453 (939)
T KOG0049|consen 435 WAKCAMLLPKKTSRQLRRR 453 (939)
T ss_pred HHHHHHHccccchhHHHHH
Confidence 9999999999999654443
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.75 E-value=2.5e-18 Score=166.51 Aligned_cols=112 Identities=28% Similarity=0.554 Sum_probs=104.0
Q ss_pred CcCCCCHHHHHHHHHHHHHhC---CCCcccccccccccccccccccccccCCCcccCCCCChHHHHHHHHHHHHhCCC-h
Q 040502 10 VKGPWSPEEDQLLLKLVQRYG---ARNWSVISKSIPGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIKAHARYGNK-W 85 (252)
Q Consensus 10 ~Kg~WT~eED~~L~~~V~~~g---~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~~G~~-W 85 (252)
....||.|||.+|+.+|+... ..+|.+|-.+||||+..|...||...|+|.+++|+||.+||.+|+.+|.+||.+ |
T Consensus 304 ~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw 383 (939)
T KOG0049|consen 304 SEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDW 383 (939)
T ss_pred HhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccch
Confidence 347899999999999999884 346999999999999999999999999999999999999999999999999965 9
Q ss_pred HHHHHHhCCCCHHHHHHHHHHHhhhhhhhhhhhhhh
Q 040502 86 ATIARLLNGRTDNAIKNHWNSTLKRKYAETTRSALA 121 (252)
Q Consensus 86 ~~IA~~lpgRT~~qck~Rw~~~lk~k~~~~~~~~~~ 121 (252)
.+|-..+|||++.||+.||.+.|.+..+...|+..+
T Consensus 384 ~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~e 419 (939)
T KOG0049|consen 384 AKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVE 419 (939)
T ss_pred hhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecc
Confidence 999999999999999999999999999999886433
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.66 E-value=2.7e-17 Score=115.71 Aligned_cols=60 Identities=42% Similarity=0.928 Sum_probs=54.9
Q ss_pred CCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccCCCcccCCCCChHHHHHH
Q 040502 14 WSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEII 74 (252)
Q Consensus 14 WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~L 74 (252)
||+|||++|+.+|..||. +|..||+.|+.||..+|+.||.++|.+.+.+++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999996 799999999779999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.62 E-value=2.8e-16 Score=151.57 Aligned_cols=108 Identities=30% Similarity=0.590 Sum_probs=103.1
Q ss_pred ccCCCcCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccCCCcccCCCCChHHHHHHHHHHHHhCCCh
Q 040502 6 VSERVKGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIKAHARYGNKW 85 (252)
Q Consensus 6 ~~~~~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~~G~~W 85 (252)
..+++.|.|+..||+.|..+|+.||+.+|+.||..+.-+++++|+.||.++++|.+++..|+.+||..|+.+..++|..|
T Consensus 15 ~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~w 94 (512)
T COG5147 15 QTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94 (512)
T ss_pred cceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchh
Confidence 45678899999999999999999999999999999988999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCCCHHHHHHHHHHHhhhhhh
Q 040502 86 ATIARLLNGRTDNAIKNHWNSTLKRKYA 113 (252)
Q Consensus 86 ~~IA~~lpgRT~~qck~Rw~~~lk~k~~ 113 (252)
+.||..+++||..+|.++|..++.....
T Consensus 95 stia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 95 STIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhccccCccchHHHHHHHHHHhhhhhc
Confidence 9999999999999999999998887655
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.62 E-value=4.9e-16 Score=147.66 Aligned_cols=101 Identities=28% Similarity=0.600 Sum_probs=96.5
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccCCCcccCCCCChHHHHHHHHHHHHhCCChHHHH
Q 040502 10 VKGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIKAHARYGNKWATIA 89 (252)
Q Consensus 10 ~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~~G~~W~~IA 89 (252)
+-|.|+.-||+.|..+|.+||...|+.|++.++-.+.+||+.||..+|+|.+++..|+.+||++||.+...+...|..|+
T Consensus 6 kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtIa 85 (617)
T KOG0050|consen 6 KGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTIA 85 (617)
T ss_pred ecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchHH
Confidence 56889999999999999999998899999999999999999999999999999999999999999999999999999999
Q ss_pred HHhCCCCHHHHHHHHHHHhhhh
Q 040502 90 RLLNGRTDNAIKNHWNSTLKRK 111 (252)
Q Consensus 90 ~~lpgRT~~qck~Rw~~~lk~k 111 (252)
..| ||+.+||-.||+++|-..
T Consensus 86 ~i~-gr~~~qc~eRy~~ll~~~ 106 (617)
T KOG0050|consen 86 DIM-GRTSQQCLERYNNLLDVY 106 (617)
T ss_pred HHh-hhhHHHHHHHHHHHHHHH
Confidence 999 999999999999887543
No 9
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.46 E-value=6.6e-15 Score=99.34 Aligned_cols=47 Identities=51% Similarity=1.069 Sum_probs=42.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccc-ccccccccccccccC
Q 040502 11 KGPWSPEEDQLLLKLVQRYGARNWSVISKSIP-GRSGKSCRLRWCNQL 57 (252)
Q Consensus 11 Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lp-gRs~~qcr~Rw~~~L 57 (252)
||+||+|||++|+++|.+||..+|..||..|| +||..||+.||.++|
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 68999999999999999999877999999999 999999999998764
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=99.45 E-value=2e-13 Score=92.11 Aligned_cols=46 Identities=30% Similarity=0.662 Sum_probs=41.8
Q ss_pred CCCCChHHHHHHHHHHHHhCCC-hHHHHHHhC-CCCHHHHHHHHHHHh
Q 040502 63 HRTFTPDEDEIIIKAHARYGNK-WATIARLLN-GRTDNAIKNHWNSTL 108 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~G~~-W~~IA~~lp-gRT~~qck~Rw~~~l 108 (252)
+++||++||++|++++.+||.. |..||..|+ |||..||++||++++
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 4789999999999999999988 999999999 999999999999875
No 11
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.44 E-value=8e-14 Score=135.97 Aligned_cols=105 Identities=25% Similarity=0.524 Sum_probs=93.8
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccCCCcc--cCCCCChHHHHHHHHHHH-------H
Q 040502 10 VKGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLSPEV--EHRTFTPDEDEIIIKAHA-------R 80 (252)
Q Consensus 10 ~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~--~~~~WT~eED~~Ll~lv~-------~ 80 (252)
.+|.||+||++.|..+|..+|. +|..|++.| ||.+..|++||+++..+.- +++.||.+|.+.|+.+|. +
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q 460 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQ 460 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhc
Confidence 7899999999999999999997 599999998 8999999999999998874 889999999999999995 3
Q ss_pred h-------------------CCChHHHHHHhCCCCHHHHHHHHHHHhhhhhhhhh
Q 040502 81 Y-------------------GNKWATIARLLNGRTDNAIKNHWNSTLKRKYAETT 116 (252)
Q Consensus 81 ~-------------------G~~W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~~~ 116 (252)
+ +-+|..|++.+.+|+..||+-+|+.++........
T Consensus 461 ~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~ 515 (607)
T KOG0051|consen 461 PQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKR 515 (607)
T ss_pred ccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcc
Confidence 3 12599999999999999999999998877655443
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.44 E-value=1.3e-13 Score=121.64 Aligned_cols=97 Identities=16% Similarity=0.282 Sum_probs=80.0
Q ss_pred cccccccccccccccccCCCcccCCCCChHHHHHHHHHHHHhC-CChHHHHHHh-CCCCHHHHHHHHHHHhhhhhhhhhh
Q 040502 40 SIPGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIKAHARYG-NKWATIARLL-NGRTDNAIKNHWNSTLKRKYAETTR 117 (252)
Q Consensus 40 ~lpgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~~G-~~W~~IA~~l-pgRT~~qck~Rw~~~lk~k~~~~~~ 117 (252)
-++.|+.--|.. +.+++++||+|||++|+++|++|| ++|..||+.+ ++||++||+.||.++|++.+.+..
T Consensus 9 ~~~~~~~pcc~K-------~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgp- 80 (249)
T PLN03212 9 PVSKKTTPCCTK-------MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGG- 80 (249)
T ss_pred CCCCCCCCCccc-------CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCC-
Confidence 356676665532 458899999999999999999999 6899999998 599999999999999999888775
Q ss_pred hhhhcCCCCCCCCchHHHHhhhhcccCCCccCCCCCCC
Q 040502 118 SALAAGVDEDSEDSDEREKKRSAVSVSGISCSPSGSDV 155 (252)
Q Consensus 118 ~~~~~~~~~~~~~~~~~~~~rs~~~~~~~~~s~s~s~~ 155 (252)
|+.+|+......+...|..|+.++.-+
T Consensus 81 -----------WT~EED~lLlel~~~~GnKWs~IAk~L 107 (249)
T PLN03212 81 -----------ITSDEEDLILRLHRLLGNRWSLIAGRI 107 (249)
T ss_pred -----------CChHHHHHHHHHHHhccccHHHHHhhc
Confidence 556778877777877888887766543
No 13
>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=99.40 E-value=3.4e-13 Score=94.70 Aligned_cols=52 Identities=33% Similarity=0.683 Sum_probs=44.3
Q ss_pred CChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhhhhhhhhhh
Q 040502 66 FTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLKRKYAETTR 117 (252)
Q Consensus 66 WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~~~~ 117 (252)
||++||++|+++|..||++|..||+.|+.||+.+|++||++.|++.+....|
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~w 52 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPW 52 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSS
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCc
Confidence 9999999999999999999999999996699999999999988776666544
No 14
>PLN03091 hypothetical protein; Provisional
Probab=99.32 E-value=1.5e-12 Score=122.81 Aligned_cols=84 Identities=18% Similarity=0.362 Sum_probs=71.2
Q ss_pred CcccCCCCChHHHHHHHHHHHHhC-CChHHHHHHhC-CCCHHHHHHHHHHHhhhhhhhhhhhhhhcCCCCCCCCchHHHH
Q 040502 59 PEVEHRTFTPDEDEIIIKAHARYG-NKWATIARLLN-GRTDNAIKNHWNSTLKRKYAETTRSALAAGVDEDSEDSDEREK 136 (252)
Q Consensus 59 p~~~~~~WT~eED~~Ll~lv~~~G-~~W~~IA~~lp-gRT~~qck~Rw~~~lk~k~~~~~~~~~~~~~~~~~~~~~~~~~ 136 (252)
+.+++++||+|||++|+++|.+|| .+|..||+.++ ||+++||+.||.++|.+.+++.. |+.+|+.+
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgp------------WT~EED~l 77 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGT------------FSQQEENL 77 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCC------------CCHHHHHH
Confidence 568899999999999999999999 57999999884 99999999999999999888774 55677777
Q ss_pred hhhhcccCCCccCCCCCC
Q 040502 137 KRSAVSVSGISCSPSGSD 154 (252)
Q Consensus 137 ~rs~~~~~~~~~s~s~s~ 154 (252)
+...+...|..|+.++.-
T Consensus 78 LLeL~k~~GnKWskIAk~ 95 (459)
T PLN03091 78 IIELHAVLGNRWSQIAAQ 95 (459)
T ss_pred HHHHHHHhCcchHHHHHh
Confidence 777777777777665543
No 15
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.28 E-value=2.6e-12 Score=114.12 Aligned_cols=59 Identities=19% Similarity=0.354 Sum_probs=54.4
Q ss_pred cccCCCCChHHHHHHHHHHHHhC-CChHHHHHHhC-CCCHHHHHHHHHHHhhhhhhhhhhh
Q 040502 60 EVEHRTFTPDEDEIIIKAHARYG-NKWATIARLLN-GRTDNAIKNHWNSTLKRKYAETTRS 118 (252)
Q Consensus 60 ~~~~~~WT~eED~~Ll~lv~~~G-~~W~~IA~~lp-gRT~~qck~Rw~~~lk~k~~~~~~~ 118 (252)
.+.+|+||+|||++|+++|..|| ++|..|++.++ +|++++||-||.++|++.+++..++
T Consensus 6 ~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT 66 (238)
T KOG0048|consen 6 ELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFS 66 (238)
T ss_pred cccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCC
Confidence 34579999999999999999999 67999999999 9999999999999999999988764
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.25 E-value=1.5e-11 Score=81.11 Aligned_cols=47 Identities=40% Similarity=0.811 Sum_probs=44.2
Q ss_pred CCCCChHHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 63 HRTFTPDEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
+++||++||.+|+.++..|| .+|..||..|++||+.+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 36899999999999999999 999999999999999999999998764
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.16 E-value=1e-11 Score=81.89 Aligned_cols=48 Identities=52% Similarity=1.130 Sum_probs=44.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccCC
Q 040502 11 KGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLS 58 (252)
Q Consensus 11 Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~ 58 (252)
+++||++||.+|+.++..||..+|..||..|++||..+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 578999999999999999995579999999999999999999987654
No 18
>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=99.14 E-value=1.2e-10 Score=75.59 Aligned_cols=44 Identities=39% Similarity=0.835 Sum_probs=41.7
Q ss_pred CCChHHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHHh
Q 040502 65 TFTPDEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNSTL 108 (252)
Q Consensus 65 ~WT~eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l 108 (252)
+||.+||..|+.++..|| .+|..||..|++||..+|+++|++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998753
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.06 E-value=2.4e-10 Score=111.96 Aligned_cols=102 Identities=27% Similarity=0.414 Sum_probs=86.4
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCC---------------C--------cccccccccccccccccccccccCCCcc-cCCC
Q 040502 10 VKGPWSPEEDQLLLKLVQRYGAR---------------N--------WSVISKSIPGRSGKSCRLRWCNQLSPEV-EHRT 65 (252)
Q Consensus 10 ~Kg~WT~eED~~L~~~V~~~g~~---------------n--------W~~Ia~~lpgRs~~qcr~Rw~~~L~p~~-~~~~ 65 (252)
.-+.|+++||+.|-+.|..|-.. + |..|...||.|+.++++.+-++.-+|.- .+|.
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~R~~~siy~~~rR~y~~FE~~rg~ 386 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPYRDRKSIYHHLRRAYTPFENKRGK 386 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCcccchhHHHHHHhcCCccccccCC
Confidence 44889999999999999988110 1 7888889999999998884444444433 8999
Q ss_pred CChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhhhhh
Q 040502 66 FTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLKRKY 112 (252)
Q Consensus 66 WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~k~ 112 (252)
||++|++.|..+|.++|+.|.+|++.| ||.+.+|++||..+.+..-
T Consensus 387 wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~ 432 (607)
T KOG0051|consen 387 WTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGS 432 (607)
T ss_pred CCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhcccc
Confidence 999999999999999999999999999 9999999999999887763
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.02 E-value=8.3e-11 Score=76.33 Aligned_cols=44 Identities=55% Similarity=1.155 Sum_probs=41.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccccccccccccccccc
Q 040502 13 PWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQ 56 (252)
Q Consensus 13 ~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~ 56 (252)
+||++||..|+.++..||..+|..||..+++|+..+|+.||.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 59999999999999999966899999999999999999999765
No 21
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.38 E-value=2e-07 Score=89.63 Aligned_cols=147 Identities=21% Similarity=0.279 Sum_probs=110.4
Q ss_pred ccCCCCChHHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHHhhhhhhhhhhhhhhcCCCCCCCCchHHHHhhh
Q 040502 61 VEHRTFTPDEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNSTLKRKYAETTRSALAAGVDEDSEDSDEREKKRS 139 (252)
Q Consensus 61 ~~~~~WT~eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~~~~~~~~~~~~~~~~~~~~~~~~rs 139 (252)
++.|.|+..||+.|..+|..|| +.|+.|++.++-.|+.||++||...+.+.++...| ..+++++...
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tew------------s~eederlLh 72 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEW------------SREEDERLLH 72 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhh------------hhhHHHHHHH
Confidence 4668899999999999999999 67999999999999999999999999999988865 4577888888
Q ss_pred hcccCCCccCCCCCCCCCCCCCcccccCcc-------ccccccCCCcccccCCCCcCcccCcccCCCCCCCCCCCCCCCC
Q 040502 140 AVSVSGISCSPSGSDVSDSGLPVRVFESEC-------RYNEVFDVSTDLTLGLPVTELKKCDSVSQQENNSDDDKTSNTP 212 (252)
Q Consensus 140 ~~~~~~~~~s~s~s~~sds~~~~~~~~~~~-------~~~~~~dp~t~Lsls~pg~~~~~~~~~~~~~~~~~~~~~~~~~ 212 (252)
........|.+++..+..++.+|. +++. .+....+|.++.-|-+|-++ +++..+++.
T Consensus 73 lakl~p~qwrtIa~i~gr~~~qc~--eRy~~ll~~~~s~~~~~~~~~D~rLk~gE~e--------------Pn~e~~~aR 136 (617)
T KOG0050|consen 73 LAKLEPTQWRTIADIMGRTSQQCL--ERYNNLLDVYVSYHYHSEPYIDAKLKEGEIE--------------PNQETNPAR 136 (617)
T ss_pred HHHhcCCccchHHHHhhhhHHHHH--HHHHHHHHHHHhhhcccccccccccCCCcCC--------------Ccccccccc
Confidence 888888889999988888887775 3322 11122344444444433333 344556666
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHH
Q 040502 213 SFGLEFLSVMQEMIRNEVRNYMEV 236 (252)
Q Consensus 213 ~~~~~~~~~~~emi~~ev~~~~~~ 236 (252)
+++-++-...-||++ |-|.-|+.
T Consensus 137 pd~~dmdEde~eMl~-eaRarlaN 159 (617)
T KOG0050|consen 137 PDGFDMDEDEGEMLS-EARARLAN 159 (617)
T ss_pred CCcccchHHHHHHHH-HHHHHHhc
Confidence 777788888888886 45555555
No 22
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.16 E-value=8.9e-07 Score=86.19 Aligned_cols=102 Identities=20% Similarity=0.225 Sum_probs=85.8
Q ss_pred cccCCCcCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccCCCcccCCCCChHHHHHHHHHHHHhCCC
Q 040502 5 SVSERVKGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIKAHARYGNK 84 (252)
Q Consensus 5 ~~~~~~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~~G~~ 84 (252)
..+.++++.|+.+||..|+.+...+|++ |..||..+++|+..+|..||.+.+.+... ..||..++...+--+..|+..
T Consensus 66 lnp~lk~~~~~~eed~~li~l~~~~~~~-wstia~~~d~rt~~~~~ery~~~~~~~~s-~~~s~~~~~~~f~k~d~f~~~ 143 (512)
T COG5147 66 LNPQLKKKNWSEEEDEQLIDLDKELGTQ-WSTIADYKDRRTAQQCVERYVNTLEDLSS-THDSKLQRRNEFDKIDPFNEN 143 (512)
T ss_pred hchhcccccccHHHHHHHHHHHHhcCch-hhhhccccCccchHHHHHHHHHHhhhhhc-cccccccchhhccccCchhhh
Confidence 3577889999999999999999999997 99999999999999999999999877655 788888888888788888888
Q ss_pred hHHHHHHhCCCCHHHHHHHHHHHh
Q 040502 85 WATIARLLNGRTDNAIKNHWNSTL 108 (252)
Q Consensus 85 W~~IA~~lpgRT~~qck~Rw~~~l 108 (252)
|..+......+-..-|.+++.++.
T Consensus 144 ~~~~~~~~~~~~~~~~~N~~~~~~ 167 (512)
T COG5147 144 SARRPDIYEDELLEREVNREASYR 167 (512)
T ss_pred hhhhhhhhhcccchhhhhHHHHHH
Confidence 888777665666666667665443
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.82 E-value=4e-05 Score=72.76 Aligned_cols=48 Identities=25% Similarity=0.566 Sum_probs=44.0
Q ss_pred ccCCCCChHHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHHh
Q 040502 61 VEHRTFTPDEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNSTL 108 (252)
Q Consensus 61 ~~~~~WT~eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l 108 (252)
+-...||.+|+-+|++++..|| ++|..||.++..||..+|+.||.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 4456799999999999999999 99999999998899999999998754
No 24
>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=97.76 E-value=4.6e-05 Score=63.76 Aligned_cols=54 Identities=26% Similarity=0.524 Sum_probs=47.3
Q ss_pred cCCCCChHHHHHHHHHHHHh---CC----ChHHHHHHhCCCCHHHHHHHHHHHhhhhhhhhh
Q 040502 62 EHRTFTPDEDEIIIKAHARY---GN----KWATIARLLNGRTDNAIKNHWNSTLKRKYAETT 116 (252)
Q Consensus 62 ~~~~WT~eED~~Ll~lv~~~---G~----~W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~~~ 116 (252)
....||.|||.+|.+.|.+| |+ -+.+++..| +||+.+|.-|||+++++.+....
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~~i 63 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEEAI 63 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHHHH
Confidence 45689999999999999888 32 289999999 99999999999999999887664
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=97.73 E-value=0.0001 Score=51.63 Aligned_cols=46 Identities=20% Similarity=0.384 Sum_probs=40.4
Q ss_pred CCCCChHHHHHHHHHHHHhCC-Ch---HHHHHHhC-CC-CHHHHHHHHHHHh
Q 040502 63 HRTFTPDEDEIIIKAHARYGN-KW---ATIARLLN-GR-TDNAIKNHWNSTL 108 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~G~-~W---~~IA~~lp-gR-T~~qck~Rw~~~l 108 (252)
+-.||+||...+++++..||. +| ..|++.|. .+ |..||+.|.+.+.
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 346999999999999999996 99 99999885 35 9999999998764
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.73 E-value=8.7e-06 Score=77.18 Aligned_cols=50 Identities=24% Similarity=0.608 Sum_probs=46.7
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccC
Q 040502 8 ERVKGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQL 57 (252)
Q Consensus 8 ~~~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L 57 (252)
......||.+|+-+|+++++.||.+||..||.+|..|+..+|+.+|.+++
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 45667899999999999999999999999999999999999999999866
No 27
>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=97.55 E-value=3.7e-05 Score=53.88 Aligned_cols=48 Identities=15% Similarity=0.276 Sum_probs=41.3
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCc---cccccccc-cc-ccccccccccccC
Q 040502 10 VKGPWSPEEDQLLLKLVQRYGARNW---SVISKSIP-GR-SGKSCRLRWCNQL 57 (252)
Q Consensus 10 ~Kg~WT~eED~~L~~~V~~~g~~nW---~~Ia~~lp-gR-s~~qcr~Rw~~~L 57 (252)
.+-.||+||..+++.+|+.+|..+| ..|++.|. .+ |..||+.|++.+.
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 4567999999999999999998789 99998774 45 9999999887654
No 28
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.39 E-value=0.00035 Score=60.67 Aligned_cols=97 Identities=18% Similarity=0.420 Sum_probs=69.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccc---ccccccccccccccC-CCcc--------------------cCCCCCh
Q 040502 13 PWSPEEDQLLLKLVQRYGARNWSVISKSIP---GRSGKSCRLRWCNQL-SPEV--------------------EHRTFTP 68 (252)
Q Consensus 13 ~WT~eED~~L~~~V~~~g~~nW~~Ia~~lp---gRs~~qcr~Rw~~~L-~p~~--------------------~~~~WT~ 68 (252)
+|++.+|-+|+.+|..-. +-..|+..++ .-|-..+..||+..| +|.+ .+-+||.
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 599999999999998765 3667766553 345566788998765 3322 2458999
Q ss_pred HHHHHHHHHHHHhCCC---hHHHHH-----HhCCCCHHHHHHHHHHHhhhh
Q 040502 69 DEDEIIIKAHARYGNK---WATIAR-----LLNGRTDNAIKNHWNSTLKRK 111 (252)
Q Consensus 69 eED~~Ll~lv~~~G~~---W~~IA~-----~lpgRT~~qck~Rw~~~lk~k 111 (252)
+|+++|.......... +.+|=. .-++||+.++.+||..+.+..
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~ 129 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYH 129 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhc
Confidence 9999999977665433 555532 226899999999999655443
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.16 E-value=0.00047 Score=66.14 Aligned_cols=45 Identities=18% Similarity=0.430 Sum_probs=42.0
Q ss_pred CCCCChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHH
Q 040502 63 HRTFTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNST 107 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~ 107 (252)
...||.+|..+|++.+..||..|.+||+++.+||..||--||-++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 348999999999999999999999999999999999999999653
No 30
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.14 E-value=0.00053 Score=51.13 Aligned_cols=47 Identities=28% Similarity=0.598 Sum_probs=34.3
Q ss_pred CCCChHHHHHHHHHHHH------hC--C------ChHHHHHHhC----CCCHHHHHHHHHHHhhh
Q 040502 64 RTFTPDEDEIIIKAHAR------YG--N------KWATIARLLN----GRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 64 ~~WT~eED~~Ll~lv~~------~G--~------~W~~IA~~lp----gRT~~qck~Rw~~~lk~ 110 (252)
..||.+|...||+++.. ++ + -|..||..|. .||+.||+++|.++.+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~ 66 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKK 66 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Confidence 46999999999999877 32 1 2999999883 69999999999985543
No 31
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=97.09 E-value=0.00084 Score=56.89 Aligned_cols=56 Identities=21% Similarity=0.431 Sum_probs=47.0
Q ss_pred ccCCCCChHHHHHHHHHHHHhCCC-------hHHHHHHhCCCCHHHHHHHHHHHhhhhhhhhhh
Q 040502 61 VEHRTFTPDEDEIIIKAHARYGNK-------WATIARLLNGRTDNAIKNHWNSTLKRKYAETTR 117 (252)
Q Consensus 61 ~~~~~WT~eED~~Ll~lv~~~G~~-------W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~~~~ 117 (252)
..+..||.|+|.+|-+.|.+|+.. ...++..| +||..+|..|||+++++++.....
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Yee~I~ 65 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQEQIK 65 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHHHHHH
Confidence 356789999999999999888732 67777888 999999999999999988876543
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.03 E-value=0.00086 Score=65.68 Aligned_cols=46 Identities=15% Similarity=0.367 Sum_probs=42.6
Q ss_pred cCCCCChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHH
Q 040502 62 EHRTFTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNST 107 (252)
Q Consensus 62 ~~~~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~ 107 (252)
....||.+|..+|++++..||..|.+||.++.+||..||-.||..+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 3568999999999999999999999999999999999999999643
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.97 E-value=0.00025 Score=68.05 Aligned_cols=46 Identities=24% Similarity=0.576 Sum_probs=42.6
Q ss_pred CcCCCCHHHHHHHHHHHHHhCCCCccccccccccccccccccccccc
Q 040502 10 VKGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQ 56 (252)
Q Consensus 10 ~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~ 56 (252)
....||.+|.-+|++.|+.||. +|.+||.++.+|+..||..||.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhCCCCHHHHHHHHHcC
Confidence 5669999999999999999997 699999999999999999999863
No 34
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.89 E-value=0.00041 Score=67.90 Aligned_cols=49 Identities=24% Similarity=0.644 Sum_probs=44.3
Q ss_pred cCCCcCCCCHHHHHHHHHHHHHhCCCCccccccccccccccccccccccc
Q 040502 7 SERVKGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQ 56 (252)
Q Consensus 7 ~~~~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~ 56 (252)
..-.++.||.+|.-+|+.+|+.||. +|.+||.++.+||..||-.++.+.
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYGD-DWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccCCCCHHHHHHHHHhc
Confidence 3456789999999999999999997 699999999999999999999763
No 35
>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=96.80 E-value=0.0021 Score=46.23 Aligned_cols=49 Identities=16% Similarity=0.336 Sum_probs=32.6
Q ss_pred CCCCChHHHHHHHHHHHHhC--------CC-hHHHHHHhC-CCCHHHHHHHHHHHhhhh
Q 040502 63 HRTFTPDEDEIIIKAHARYG--------NK-WATIARLLN-GRTDNAIKNHWNSTLKRK 111 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~G--------~~-W~~IA~~lp-gRT~~qck~Rw~~~lk~k 111 (252)
+.+||.+||++|+..|.++. ++ |.+++..-+ .+|-...++||...|+.+
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~ 60 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR 60 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence 35799999999999997652 22 999999877 899999999998887764
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=96.77 E-value=0.00026 Score=50.88 Aligned_cols=51 Identities=25% Similarity=0.458 Sum_probs=32.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------CC--ccccccccc-ccccccccccccccCCCcc
Q 040502 11 KGPWSPEEDQLLLKLVQRYGA------RN--WSVISKSIP-GRSGKSCRLRWCNQLSPEV 61 (252)
Q Consensus 11 Kg~WT~eED~~L~~~V~~~g~------~n--W~~Ia~~lp-gRs~~qcr~Rw~~~L~p~~ 61 (252)
+-+||.+||++|++.|..+.. +| |..+++.-+ .+|-.+-++||.+.|.+..
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 468999999999999976621 12 999998877 8999999999999887643
No 37
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.01 E-value=0.0095 Score=55.04 Aligned_cols=45 Identities=24% Similarity=0.536 Sum_probs=41.6
Q ss_pred CCCChHHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHHh
Q 040502 64 RTFTPDEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNSTL 108 (252)
Q Consensus 64 ~~WT~eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l 108 (252)
..|+..|+-+|+++....| ++|..||.++..|+...||.||..+.
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y 109 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMY 109 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHH
Confidence 4699999999999999999 89999999998899999999997654
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.84 E-value=0.027 Score=41.04 Aligned_cols=47 Identities=23% Similarity=0.517 Sum_probs=39.0
Q ss_pred CCCChHHHHHHHHHHHHhCC-----------------ChHHHHHHh-----CCCCHHHHHHHHHHHhhh
Q 040502 64 RTFTPDEDEIIIKAHARYGN-----------------KWATIARLL-----NGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 64 ~~WT~eED~~Ll~lv~~~G~-----------------~W~~IA~~l-----pgRT~~qck~Rw~~~lk~ 110 (252)
..||.+|...|++++.+|.. -|..|+..| +.||..+++.+|.++...
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 46999999999999987621 299999987 259999999999987654
No 39
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.66 E-value=0.032 Score=59.32 Aligned_cols=100 Identities=12% Similarity=0.376 Sum_probs=76.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccc----------------------------------------
Q 040502 12 GPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRL---------------------------------------- 51 (252)
Q Consensus 12 g~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~---------------------------------------- 51 (252)
+.||.-+=..++.+..+||-.+...||..|.++|...++.
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3599999999999999999888999999998777655442
Q ss_pred --------cccccC--CCcccCCCCChHHHHHHHHHHHHhC-CChHHHHHH------------hCCCCHHHHHHHHHHHh
Q 040502 52 --------RWCNQL--SPEVEHRTFTPDEDEIIIKAHARYG-NKWATIARL------------LNGRTDNAIKNHWNSTL 108 (252)
Q Consensus 52 --------Rw~~~L--~p~~~~~~WT~eED~~Ll~lv~~~G-~~W~~IA~~------------lpgRT~~qck~Rw~~~l 108 (252)
-|...- .+..++..||.+||..|+-.+.+|| ++|..|-.. +..||+..+..|.++++
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 221100 1223345699999999999999999 789999543 35899999999999888
Q ss_pred hhh
Q 040502 109 KRK 111 (252)
Q Consensus 109 k~k 111 (252)
+--
T Consensus 985 ~~~ 987 (1033)
T PLN03142 985 RLI 987 (1033)
T ss_pred HHH
Confidence 754
No 40
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.47 E-value=0.003 Score=46.97 Aligned_cols=46 Identities=30% Similarity=0.705 Sum_probs=31.8
Q ss_pred cCCCCHHHHHHHHHHHHH--h----C--C--C---Ccccccccc----ccccccccccccccc
Q 040502 11 KGPWSPEEDQLLLKLVQR--Y----G--A--R---NWSVISKSI----PGRSGKSCRLRWCNQ 56 (252)
Q Consensus 11 Kg~WT~eED~~L~~~V~~--~----g--~--~---nW~~Ia~~l----pgRs~~qcr~Rw~~~ 56 (252)
+-.||.+|...|+.++.. + + . . -|..||..| ..||+.||+.+|.++
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 357999999999999887 2 1 1 1 299999988 369999999999864
No 41
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.38 E-value=0.0059 Score=44.58 Aligned_cols=47 Identities=30% Similarity=0.497 Sum_probs=38.4
Q ss_pred cCCCCHHHHHHHHHHHHHh-----CCC-----------Ccccccccc-----cccccccccccccccC
Q 040502 11 KGPWSPEEDQLLLKLVQRY-----GAR-----------NWSVISKSI-----PGRSGKSCRLRWCNQL 57 (252)
Q Consensus 11 Kg~WT~eED~~L~~~V~~~-----g~~-----------nW~~Ia~~l-----pgRs~~qcr~Rw~~~L 57 (252)
+..||++|...|+.+|.+| +.. -|..|+..| +.||..+|+..|.++.
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 5689999999999999998 211 199999877 3699999999998754
No 42
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.37 E-value=0.0051 Score=51.60 Aligned_cols=49 Identities=24% Similarity=0.547 Sum_probs=40.5
Q ss_pred CcCCCCHHHHHHHHHHHHHhC---CC---CcccccccccccccccccccccccCCC
Q 040502 10 VKGPWSPEEDQLLLKLVQRYG---AR---NWSVISKSIPGRSGKSCRLRWCNQLSP 59 (252)
Q Consensus 10 ~Kg~WT~eED~~L~~~V~~~g---~~---nW~~Ia~~lpgRs~~qcr~Rw~~~L~p 59 (252)
++-.||.|||.+|...|-+|- .- -...++..| +||+..|.-||+.++..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRK 57 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHH
Confidence 456899999999999999992 11 177888888 89999999999988764
No 43
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.29 E-value=0.004 Score=57.47 Aligned_cols=47 Identities=21% Similarity=0.485 Sum_probs=43.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccCC
Q 040502 12 GPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLS 58 (252)
Q Consensus 12 g~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~ 58 (252)
-.|+..|+-+|++..+-.|-+||..||.++..|+...|+.+|..++.
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 36999999999999999999999999999999999999999987654
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=94.44 E-value=0.0073 Score=51.22 Aligned_cols=50 Identities=22% Similarity=0.538 Sum_probs=38.5
Q ss_pred CCCcCCCCHHHHHHHHHHHHHhCCCC------cccccccccccccccccccccccCC
Q 040502 8 ERVKGPWSPEEDQLLLKLVQRYGARN------WSVISKSIPGRSGKSCRLRWCNQLS 58 (252)
Q Consensus 8 ~~~Kg~WT~eED~~L~~~V~~~g~~n------W~~Ia~~lpgRs~~qcr~Rw~~~L~ 58 (252)
..++..||.|||.+|.+.|-+|+... ...++..| +|+..+|..||+.++.
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHH
Confidence 34678999999999999999996432 44555555 7999999999965544
No 45
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=94.23 E-value=0.11 Score=41.53 Aligned_cols=51 Identities=20% Similarity=0.492 Sum_probs=40.6
Q ss_pred cccCCCCChHHHHHHHHHHHHhCC----ChHHHHHH------------hCCCCHHHHHHHHHHHhhh
Q 040502 60 EVEHRTFTPDEDEIIIKAHARYGN----KWATIARL------------LNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 60 ~~~~~~WT~eED~~Ll~lv~~~G~----~W~~IA~~------------lpgRT~~qck~Rw~~~lk~ 110 (252)
..++..||.+||.-|+-++.+||- .|..|-.. +..||+..+..|-+++++-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 455678999999999999999996 69988764 3579999999999988864
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=93.85 E-value=0.068 Score=50.65 Aligned_cols=84 Identities=14% Similarity=0.317 Sum_probs=66.3
Q ss_pred CCcccccccccccccccccccccccCCC-------------------------cccCCCCChHHHHHHHHHHHHhCCChH
Q 040502 32 RNWSVISKSIPGRSGKSCRLRWCNQLSP-------------------------EVEHRTFTPDEDEIIIKAHARYGNKWA 86 (252)
Q Consensus 32 ~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p-------------------------~~~~~~WT~eED~~Ll~lv~~~G~~W~ 86 (252)
.+|.-+.-..+-|...-...||....++ .++...||.+|-+.|+++.+.|.-+|.
T Consensus 74 ~~W~w~pFtn~aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 74 RPWKWVPFTNSARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CCceeeccCCccccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 3588887777788888888888766322 122356999999999999999999999
Q ss_pred HHHHH-----hCC-CCHHHHHHHHHHHhhhhhhhh
Q 040502 87 TIARL-----LNG-RTDNAIKNHWNSTLKRKYAET 115 (252)
Q Consensus 87 ~IA~~-----lpg-RT~~qck~Rw~~~lk~k~~~~ 115 (252)
-||.. ++. ||-..+|.||+...+.-++..
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr 188 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKAR 188 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHcc
Confidence 99886 555 999999999998877665543
No 47
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=93.01 E-value=0.37 Score=36.03 Aligned_cols=48 Identities=31% Similarity=0.684 Sum_probs=36.1
Q ss_pred CCChHHHHHHHHHHHHh---CC----------ChHHHHHHhC-----CCCHHHHHHHHHHHhhhhhh
Q 040502 65 TFTPDEDEIIIKAHARY---GN----------KWATIARLLN-----GRTDNAIKNHWNSTLKRKYA 113 (252)
Q Consensus 65 ~WT~eED~~Ll~lv~~~---G~----------~W~~IA~~lp-----gRT~~qck~Rw~~~lk~k~~ 113 (252)
.||++++..|++++.+. |+ -|..|+..|. ..|..||++||.. ||+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~-lk~~y~ 66 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT-LKKDYR 66 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH-HHHHHH
Confidence 49999999999998653 21 2999999873 3588999999874 444444
No 48
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.39 E-value=0.31 Score=45.43 Aligned_cols=49 Identities=18% Similarity=0.348 Sum_probs=39.2
Q ss_pred CCCCChHHHHHHHHHHHHh----------CCChHHHHHHhC----CCCHHHHHHHHHHHhhhh
Q 040502 63 HRTFTPDEDEIIIKAHARY----------GNKWATIARLLN----GRTDNAIKNHWNSTLKRK 111 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~----------G~~W~~IA~~lp----gRT~~qck~Rw~~~lk~k 111 (252)
...|+.+|-..||++..+. +.-|..||+.+. -||+.+|+++|.++.++-
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Y 116 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKY 116 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 4679999999999998643 234999999663 499999999999876643
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=92.22 E-value=0.24 Score=46.95 Aligned_cols=46 Identities=24% Similarity=0.333 Sum_probs=42.4
Q ss_pred CCCChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 64 RTFTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 64 ~~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.+||.+|-+++..+...+|..++.|+..+|.|...||+.+|.+--+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek 411 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEK 411 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhh
Confidence 4799999999999999999999999999999999999999975443
No 50
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.70 E-value=0.15 Score=48.24 Aligned_cols=43 Identities=26% Similarity=0.487 Sum_probs=40.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccc
Q 040502 12 GPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCN 55 (252)
Q Consensus 12 g~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~ 55 (252)
-+||.+|-++..++...+|+ +++.|+..+|+|+.+|++..|.+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~R~RkqIKaKfi~ 408 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGT-DFSLISSLFPNRERKQIKAKFIK 408 (507)
T ss_pred CcccHHHHHHHHHHHHHhcc-hHHHHHHhcCchhHHHHHHHHHH
Confidence 37999999999999999998 69999999999999999999875
No 51
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=89.32 E-value=1.2 Score=29.81 Aligned_cols=41 Identities=24% Similarity=0.384 Sum_probs=30.5
Q ss_pred hHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 68 PDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 68 ~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
++++..++.++...|-.|.+||..+ |.|...++.+....++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 4567778888888899999999999 9999999998876554
No 52
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=89.28 E-value=0.94 Score=43.95 Aligned_cols=49 Identities=16% Similarity=0.240 Sum_probs=43.7
Q ss_pred CCCCChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhhhh
Q 040502 63 HRTFTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLKRK 111 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~k 111 (252)
...||.||--++-+++..||..+.+|-+.||.|+-..+...|+..-+.+
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~ 235 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTR 235 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHh
Confidence 4579999999999999999999999999999999999999887665543
No 53
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=88.64 E-value=0.98 Score=46.20 Aligned_cols=43 Identities=16% Similarity=0.309 Sum_probs=40.0
Q ss_pred CCCChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHH
Q 040502 64 RTFTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNS 106 (252)
Q Consensus 64 ~~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~ 106 (252)
..||+.|-.++-.++..|...+..|++.++++|-.+|-..|++
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 4699999999999999999999999999999999999888764
No 54
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=85.67 E-value=0.78 Score=34.46 Aligned_cols=24 Identities=33% Similarity=0.927 Sum_probs=14.8
Q ss_pred cCCCcCCCCHHHHHHH--------HHHHHHhC
Q 040502 7 SERVKGPWSPEEDQLL--------LKLVQRYG 30 (252)
Q Consensus 7 ~~~~Kg~WT~eED~~L--------~~~V~~~g 30 (252)
|....|-||+++|+.| .+++++||
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG 74 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG 74 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC
Confidence 5677899999999999 56667787
No 55
>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=82.80 E-value=4.6 Score=26.19 Aligned_cols=38 Identities=18% Similarity=0.358 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHH
Q 040502 69 DEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNST 107 (252)
Q Consensus 69 eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~ 107 (252)
+=|..|+.+...-| ..|.+||+.+ |=|...|..|+..+
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 45788999888888 4699999999 99999999998753
No 56
>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=82.67 E-value=0.81 Score=36.64 Aligned_cols=35 Identities=37% Similarity=0.664 Sum_probs=28.7
Q ss_pred cCCCcCCCCHHHHHHHHHHHHHhCC---CCcccccccc
Q 040502 7 SERVKGPWSPEEDQLLLKLVQRYGA---RNWSVISKSI 41 (252)
Q Consensus 7 ~~~~Kg~WT~eED~~L~~~V~~~g~---~nW~~Ia~~l 41 (252)
+...+..||.+||.-|+-.+.+||- .+|..|-..+
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 3566789999999999999999998 7799998766
No 57
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=79.25 E-value=3.8 Score=35.77 Aligned_cols=46 Identities=20% Similarity=0.330 Sum_probs=37.4
Q ss_pred CCChHHHHHHHHHHHHhCCChHHHHHHhC---CCCHHHHHHHHHHHhhhh
Q 040502 65 TFTPDEDEIIIKAHARYGNKWATIARLLN---GRTDNAIKNHWNSTLKRK 111 (252)
Q Consensus 65 ~WT~eED~~Ll~lv~~~G~~W~~IA~~lp---gRT~~qck~Rw~~~lk~k 111 (252)
.|++.+|-+|+.+| .+|+.-..|+..++ .-|-..+..||+.+|.-.
T Consensus 1 rW~~~DDl~Li~av-~~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~ 49 (199)
T PF13325_consen 1 RWKPEDDLLLINAV-EQTNDLESVHLGVKFSCKFTLQEIEERWYALLYDP 49 (199)
T ss_pred CCCchhhHHHHHHH-HHhcCHHHHHccCCcCCcCcHHHHHHHHHHHHcCh
Confidence 49999999999998 67888888877542 358899999999988543
No 58
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=78.97 E-value=8.5 Score=25.21 Aligned_cols=41 Identities=20% Similarity=0.277 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 69 DEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 69 eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
+++..++.++--.|-.+.+||..| |-|...|+.+....+++
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 455556666555567899999999 99999999988877654
No 59
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=78.29 E-value=5.3 Score=32.77 Aligned_cols=46 Identities=15% Similarity=0.180 Sum_probs=39.2
Q ss_pred hHHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHHhhhhhhh
Q 040502 68 PDEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNSTLKRKYAE 114 (252)
Q Consensus 68 ~eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~ 114 (252)
.+-|..|+.+..+-| ..|++||+.+ |-|...|+.|++.+....+-.
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 457889999988888 5799999999 999999999999887766544
No 60
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=77.97 E-value=3.5 Score=41.44 Aligned_cols=52 Identities=13% Similarity=0.326 Sum_probs=41.9
Q ss_pred CCCCChHHHHHHHHHHHHhCCChHHHHHH----------hCCCCHHHHHHHHHHHhhhhhhh
Q 040502 63 HRTFTPDEDEIIIKAHARYGNKWATIARL----------LNGRTDNAIKNHWNSTLKRKYAE 114 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~G~~W~~IA~~----------lpgRT~~qck~Rw~~~lk~k~~~ 114 (252)
+..||..|..-+..++++||..+..|-.. ..-+|-.|++.+|+.++.+..+-
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~ 149 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKL 149 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhh
Confidence 56899999999999999999999998332 22357889999999888765543
No 61
>smart00595 MADF subfamily of SANT domain.
Probab=74.32 E-value=3.9 Score=30.03 Aligned_cols=23 Identities=30% Similarity=0.608 Sum_probs=20.5
Q ss_pred hHHHHHHhCCCCHHHHHHHHHHHh
Q 040502 85 WATIARLLNGRTDNAIKNHWNSTL 108 (252)
Q Consensus 85 W~~IA~~lpgRT~~qck~Rw~~~l 108 (252)
|..||..| |-|...|+.+|+++-
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR 52 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLR 52 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHH
Confidence 99999999 559999999999754
No 62
>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=74.11 E-value=1.6 Score=32.55 Aligned_cols=42 Identities=29% Similarity=0.669 Sum_probs=29.1
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------Ccccccccccc-----ccccccccccc
Q 040502 13 PWSPEEDQLLLKLVQRY---GAR---------NWSVISKSIPG-----RSGKSCRLRWC 54 (252)
Q Consensus 13 ~WT~eED~~L~~~V~~~---g~~---------nW~~Ia~~lpg-----Rs~~qcr~Rw~ 54 (252)
.||+++++.|++++... |.. .|..|+..|.. .+..||+.||.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~ 59 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWK 59 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHH
Confidence 59999999999998654 222 18888887743 33456666664
No 63
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=73.81 E-value=1.1 Score=41.69 Aligned_cols=45 Identities=24% Similarity=0.448 Sum_probs=36.0
Q ss_pred CCCCHHHHHHHHHHHHHh---------CCCCcccccccc----ccccccccccccccc
Q 040502 12 GPWSPEEDQLLLKLVQRY---------GARNWSVISKSI----PGRSGKSCRLRWCNQ 56 (252)
Q Consensus 12 g~WT~eED~~L~~~V~~~---------g~~nW~~Ia~~l----pgRs~~qcr~Rw~~~ 56 (252)
..|+.+|-..|+.+.... ....|..||..+ ..||+.||+.+|.+.
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 689999999999987644 122499999855 369999999999774
No 64
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=73.13 E-value=6.8 Score=32.55 Aligned_cols=46 Identities=9% Similarity=0.128 Sum_probs=39.4
Q ss_pred hHHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHHhhhhhhh
Q 040502 68 PDEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNSTLKRKYAE 114 (252)
Q Consensus 68 ~eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~ 114 (252)
.+-|.+|+.+..+-| -.|++||+.+ |=+...|..|++.+....+-.
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 456888998888887 5699999999 999999999999988877644
No 65
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=68.62 E-value=2 Score=43.99 Aligned_cols=42 Identities=19% Similarity=0.468 Sum_probs=38.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccccccccccccccccccc
Q 040502 12 GPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWC 54 (252)
Q Consensus 12 g~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~ 54 (252)
-.||+.|-.++.+++-.|.. ++.+|++.++++|.+||-+-|.
T Consensus 620 d~WTp~E~~lF~kA~y~~~K-DF~~v~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK-DFIFVQKMVKSKTVAQCVEYYY 661 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc-cHHHHHHHhccccHHHHHHHHH
Confidence 36999999999999999985 7999999999999999977664
No 66
>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=68.57 E-value=7.6 Score=32.67 Aligned_cols=41 Identities=27% Similarity=0.271 Sum_probs=35.3
Q ss_pred CCChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHH
Q 040502 65 TFTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNS 106 (252)
Q Consensus 65 ~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~ 106 (252)
.||+|..+.|.++. .-|..=++||..|.|.|.|+|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 49999999999988 558889999999977999999876653
No 67
>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=68.45 E-value=15 Score=27.18 Aligned_cols=38 Identities=29% Similarity=0.472 Sum_probs=28.4
Q ss_pred HHHHHHHHhCC--------ChHHHHHHhCC---CC--HHHHHHHHHHHhhh
Q 040502 73 IIIKAHARYGN--------KWATIARLLNG---RT--DNAIKNHWNSTLKR 110 (252)
Q Consensus 73 ~Ll~lv~~~G~--------~W~~IA~~lpg---RT--~~qck~Rw~~~lk~ 110 (252)
.|..+|..+|+ .|..||+.|.- -+ ..+++..|..+|.+
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 48888888885 59999999832 12 36789999887753
No 68
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=68.12 E-value=21 Score=33.39 Aligned_cols=51 Identities=22% Similarity=0.373 Sum_probs=38.8
Q ss_pred CCCCChHHHHHHHHHHHHh-CCC---hHHHHHHhCCCCHHHHHHHHHHHhhhhhhh
Q 040502 63 HRTFTPDEDEIIIKAHARY-GNK---WATIARLLNGRTDNAIKNHWNSTLKRKYAE 114 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~-G~~---W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~ 114 (252)
-..||.-|...|+++.... |.. -.+|++.++||+..+|++-- +.||.+..+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl-~~LK~rvar 75 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFL-QQLKGRVAR 75 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHH-HHHHHHHHH
Confidence 3579999999999988755 433 57899999999999999844 455555443
No 69
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=65.87 E-value=19 Score=28.35 Aligned_cols=35 Identities=26% Similarity=0.327 Sum_probs=26.6
Q ss_pred HHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 74 IIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 74 Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
++.+....|-.+.+||..+ |.+...++.+....++
T Consensus 121 il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~ 155 (161)
T TIGR02985 121 IFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALK 155 (161)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3333333467899999999 9999999999887544
No 70
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=63.98 E-value=20 Score=26.77 Aligned_cols=38 Identities=24% Similarity=0.416 Sum_probs=28.6
Q ss_pred HHHHHHHHhCC--------ChHHHHHHhCCC-----CHHHHHHHHHHHhhh
Q 040502 73 IIIKAHARYGN--------KWATIARLLNGR-----TDNAIKNHWNSTLKR 110 (252)
Q Consensus 73 ~Ll~lv~~~G~--------~W~~IA~~lpgR-----T~~qck~Rw~~~lk~ 110 (252)
.|..+|.++|+ .|..|+..|.-. ...+++..|..+|.+
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 47788888875 599999998322 356788888887764
No 71
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=58.46 E-value=28 Score=26.19 Aligned_cols=45 Identities=13% Similarity=0.182 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHHhhhhhhh
Q 040502 69 DEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNSTLKRKYAE 114 (252)
Q Consensus 69 eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~ 114 (252)
+.|..|+.+....| -.+..||+.+ |-+...|..+.+.+....+-.
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 56888888888877 4699999999 999999999999888766443
No 72
>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=58.35 E-value=7.2 Score=29.15 Aligned_cols=18 Identities=28% Similarity=0.626 Sum_probs=10.6
Q ss_pred CcccCCCCChHHHHHHHH
Q 040502 59 PEVEHRTFTPDEDEIIIK 76 (252)
Q Consensus 59 p~~~~~~WT~eED~~Ll~ 76 (252)
|....|-||+++|..|..
T Consensus 43 P~n~~GiWT~eDD~~L~~ 60 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRS 60 (87)
T ss_dssp -TT-TT---HHHHHHHTS
T ss_pred CCCCCCCcCHHHHHHHHc
Confidence 556678899999999853
No 73
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=58.26 E-value=4.4 Score=39.47 Aligned_cols=44 Identities=23% Similarity=0.392 Sum_probs=38.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccc
Q 040502 11 KGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCN 55 (252)
Q Consensus 11 Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~ 55 (252)
.-.||.||--++-++...||. ++.+|-+.||.|+-.++..-|..
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGK-DFHKIRQALPHRSLASLVQYYYS 230 (534)
T ss_pred cccchHHHHHHHHHHHHHhcc-cHHHHHHHccCccHHHHHHHHHH
Confidence 357999999999999999996 69999999999999888776643
No 74
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=57.21 E-value=6.1 Score=39.83 Aligned_cols=46 Identities=11% Similarity=0.418 Sum_probs=34.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccc----------ccccccccccccccccC
Q 040502 11 KGPWSPEEDQLLLKLVQRYGARNWSVISKS----------IPGRSGKSCRLRWCNQL 57 (252)
Q Consensus 11 Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~----------lpgRs~~qcr~Rw~~~L 57 (252)
|..||-.|.+....+++.+|. |+..|-.. ..-++..|+|.+|.+.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 668999999999999999995 79888222 22355567777776544
No 75
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=55.27 E-value=12 Score=37.68 Aligned_cols=49 Identities=27% Similarity=0.414 Sum_probs=43.8
Q ss_pred cCCCCChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 62 EHRTFTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 62 ~~~~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
..+.|+..|-++...+...+|...+.|+..+|+|+..|+|.+|..--++
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r 456 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKR 456 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhc
Confidence 3568999999999999999999999999999999999999999754433
No 76
>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=54.76 E-value=44 Score=21.20 Aligned_cols=34 Identities=29% Similarity=0.435 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHH
Q 040502 70 EDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHW 104 (252)
Q Consensus 70 ED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw 104 (252)
|.+.|.+++..++++....|+.| |=+...+..+-
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 67888999999999999999999 77776665543
No 77
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=54.50 E-value=16 Score=25.87 Aligned_cols=25 Identities=28% Similarity=0.524 Sum_probs=20.6
Q ss_pred hHHHHHHhCC-CCHHHHHHHHHHHhh
Q 040502 85 WATIARLLNG-RTDNAIKNHWNSTLK 109 (252)
Q Consensus 85 W~~IA~~lpg-RT~~qck~Rw~~~lk 109 (252)
|..||..|.. -+...|+.+|+++..
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHH
Confidence 9999999953 578899999997543
No 78
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=52.38 E-value=43 Score=25.65 Aligned_cols=50 Identities=16% Similarity=0.438 Sum_probs=33.0
Q ss_pred CCCChHHHHHHHHHHHHh----CC----ChHHHHHHhCC-----CCHHHHHHHHHHHhhhhhhh
Q 040502 64 RTFTPDEDEIIIKAHARY----GN----KWATIARLLNG-----RTDNAIKNHWNSTLKRKYAE 114 (252)
Q Consensus 64 ~~WT~eED~~Ll~lv~~~----G~----~W~~IA~~lpg-----RT~~qck~Rw~~~lk~k~~~ 114 (252)
..||++++-.||+++..| |. .|..+-..+.+ =+.+|+.++-..+ |+++..
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrL-K~Ky~~ 67 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRL-KKKYRN 67 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHH-HHHHHH
Confidence 469999999999999877 52 35555444422 2777887777643 444433
No 79
>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=51.17 E-value=44 Score=25.48 Aligned_cols=30 Identities=23% Similarity=0.348 Sum_probs=24.3
Q ss_pred HhCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 80 RYGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 80 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
..|..+.+||+.+ |=+...++++....+++
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 4577899999999 77999999988775543
No 80
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=50.34 E-value=7.6 Score=37.21 Aligned_cols=45 Identities=27% Similarity=0.508 Sum_probs=38.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccc-----ccc-ccccccccccccc
Q 040502 11 KGPWSPEEDQLLLKLVQRYGARNWSVISKS-----IPG-RSGKSCRLRWCNQ 56 (252)
Q Consensus 11 Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~-----lpg-Rs~~qcr~Rw~~~ 56 (252)
-..||.+|-+-|..+.++|.-+ |..||.. ++. ||....++||..+
T Consensus 130 dn~WskeETD~LF~lck~fDLR-f~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLR-FFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred cccccHHHHHHHHHHHHhcCee-EEEEeeccchhhccccccHHHHHHHHHHH
Confidence 3679999999999999999986 9999986 554 9999999999754
No 81
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=50.18 E-value=1.6e+02 Score=28.44 Aligned_cols=55 Identities=25% Similarity=0.349 Sum_probs=42.5
Q ss_pred ccCCCCChHHHHHHHHHHHHhCC----------------ChHHHHHHhC-----CCCHHHHHHHHHHHhhhhhhhh
Q 040502 61 VEHRTFTPDEDEIIIKAHARYGN----------------KWATIARLLN-----GRTDNAIKNHWNSTLKRKYAET 115 (252)
Q Consensus 61 ~~~~~WT~eED~~Ll~lv~~~G~----------------~W~~IA~~lp-----gRT~~qck~Rw~~~lk~k~~~~ 115 (252)
...|.|+++=|+...++.+.|.. +=..||+++. .||.+|+-.|-+-+-|++.+.-
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~rei 149 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREI 149 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHH
Confidence 45678999999999999987742 2467898873 5899999999887666665543
No 82
>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=49.73 E-value=60 Score=20.03 Aligned_cols=40 Identities=15% Similarity=0.304 Sum_probs=27.8
Q ss_pred CChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHH
Q 040502 66 FTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNST 107 (252)
Q Consensus 66 WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~ 107 (252)
++++ +..++.++...|..+..||..+ |-+...++.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4444 4455555556678899999999 78888887766543
No 83
>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=49.54 E-value=29 Score=25.91 Aligned_cols=29 Identities=24% Similarity=0.440 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhCCChHHHHHHhCCCCHHHH
Q 040502 71 DEIIIKAHARYGNKWATIARLLNGRTDNAI 100 (252)
Q Consensus 71 D~~Ll~lv~~~G~~W~~IA~~lpgRT~~qc 100 (252)
|+.|..+....|..|..+|..| |=|..++
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 4668888899999999999999 6555544
No 84
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=48.11 E-value=50 Score=26.51 Aligned_cols=28 Identities=21% Similarity=0.334 Sum_probs=23.3
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-.+.+||..| |-|...|++++....+
T Consensus 140 ~~~~~~eIA~~l-gis~~tv~~~~~ra~~ 167 (179)
T PRK11924 140 EGLSYREIAEIL-GVPVGTVKSRLRRARQ 167 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 466799999999 9999999998876544
No 85
>PRK04217 hypothetical protein; Provisional
Probab=48.07 E-value=63 Score=25.46 Aligned_cols=43 Identities=14% Similarity=0.069 Sum_probs=34.2
Q ss_pred CCChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 65 TFTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 65 ~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.-|.+| ..++.++...|-...+||+.+ |-+...++.+++...+
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArk 84 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARK 84 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 355555 566777767788999999999 9999999999986544
No 86
>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=47.51 E-value=16 Score=34.22 Aligned_cols=84 Identities=26% Similarity=0.455 Sum_probs=59.8
Q ss_pred CCCHHHHHHHHHHHHHhCCC---CcccccccccccccccccccccccCCCcccCCCCChHHHHHHHHHHHH-h-----CC
Q 040502 13 PWSPEEDQLLLKLVQRYGAR---NWSVISKSIPGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIKAHAR-Y-----GN 83 (252)
Q Consensus 13 ~WT~eED~~L~~~V~~~g~~---nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~-~-----G~ 83 (252)
.||.-|...|+++.+....+ +-..|++.+++|+..++++- .+.|.. ..+.+++++ | |.
T Consensus 23 ~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~f-l~~LK~------------rvareaiqkv~~~g~~~~ 89 (344)
T PF11035_consen 23 AWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDF-LQQLKG------------RVAREAIQKVHPGGLKGP 89 (344)
T ss_pred cCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHH-HHHHHH------------HHHHHHHHHhcccccccc
Confidence 69999999999999876333 34578889999999888763 344432 223344433 2 11
Q ss_pred ------------ChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 84 ------------KWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 84 ------------~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
-|..+|+.+.|.-...+-.-|-.+|-
T Consensus 90 R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 90 RRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred cccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 19999999999988888888876653
No 87
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=46.65 E-value=58 Score=26.20 Aligned_cols=29 Identities=14% Similarity=0.215 Sum_probs=23.4
Q ss_pred HhCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 80 RYGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 80 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
..|-.+.+||..| |-+...++.+....++
T Consensus 142 ~~~~s~~eIA~~l-gis~~tV~~~l~ra~~ 170 (182)
T PRK09652 142 IEGLSYEEIAEIM-GCPIGTVRSRIFRARE 170 (182)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3467899999999 9999999988775444
No 88
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=44.54 E-value=57 Score=27.32 Aligned_cols=35 Identities=14% Similarity=0.189 Sum_probs=26.8
Q ss_pred HHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHh
Q 040502 73 IIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTL 108 (252)
Q Consensus 73 ~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~l 108 (252)
.++.+..-.|-.+.+||..| |-|...++.+|...-
T Consensus 142 ~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 142 RVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 33334334577899999999 999999999998553
No 89
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=44.02 E-value=65 Score=26.95 Aligned_cols=29 Identities=24% Similarity=0.304 Sum_probs=23.5
Q ss_pred HhCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 80 RYGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 80 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
-.|-...+||..| |-+...+++|+...++
T Consensus 148 ~~g~s~~EIA~~l-g~s~~tV~~rl~rar~ 176 (192)
T PRK09643 148 MQGYSVADAARML-GVAEGTVKSRCARGRA 176 (192)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3467799999999 9999999999865443
No 90
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=43.75 E-value=83 Score=21.31 Aligned_cols=35 Identities=23% Similarity=0.396 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHH
Q 040502 69 DEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHW 104 (252)
Q Consensus 69 eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw 104 (252)
+.++..+.++.+.|-.-.+||+.+ ||+.+.|++.-
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 345566677778999999999999 99999887743
No 91
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=42.52 E-value=22 Score=38.85 Aligned_cols=71 Identities=14% Similarity=0.179 Sum_probs=42.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCccccccccccccccc-ccccccccCCCcccCCCCChHHHHHHHHHHHHh-CCChHHHH
Q 040502 12 GPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKS-CRLRWCNQLSPEVEHRTFTPDEDEIIIKAHARY-GNKWATIA 89 (252)
Q Consensus 12 g~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~q-cr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~~-G~~W~~IA 89 (252)
--|..++|..|+-.|-+||-.+|..|- .... |... ...+.-.+....|=...-..|+.+...+ +.+|....
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir------~Dp~L~l~d-Ki~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~~ 1206 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIR------LDPDLGLTD-KIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKKL 1206 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhc------cCccccchh-hhcccccCCchHHHHHHHHHHHHHHhhcccCCCchhh
Confidence 369999999999999999999999993 2211 1110 0111111334445555666666666555 44454443
No 92
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=41.74 E-value=35 Score=21.99 Aligned_cols=36 Identities=28% Similarity=0.406 Sum_probs=18.6
Q ss_pred CCChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHH
Q 040502 65 TFTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKN 102 (252)
Q Consensus 65 ~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~ 102 (252)
.+|.+|-..|..++ .-|..=.+||+.| ||+...|.+
T Consensus 4 ~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp --------HHHHHH-CS---HHHHHHHT-T--HHHHHH
T ss_pred chhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHH
Confidence 47788887777665 5678889999999 999987765
No 93
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=41.58 E-value=71 Score=26.06 Aligned_cols=28 Identities=11% Similarity=0.076 Sum_probs=22.6
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|..+.+||..| |-|...++++.....+
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 456799999999 9999999988765444
No 94
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=40.57 E-value=8.6 Score=42.40 Aligned_cols=43 Identities=26% Similarity=0.465 Sum_probs=33.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCccccccccccccccccccccc
Q 040502 11 KGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWC 54 (252)
Q Consensus 11 Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~ 54 (252)
...|+++|-+....=...|- +|...|+.++-..|..+|..-|.
T Consensus 225 ~n~Ws~~Ek~~fk~rf~~H~-knf~~~as~~erkSv~d~vlfyy 267 (1672)
T KOG1878|consen 225 MNEWSPEEKELFKSRFAQHV-KNFGLIASFFERKSVSDCVLFYY 267 (1672)
T ss_pred hhhccccccccccchhhhcC-cchhhhhhhhcccchhhceeeee
Confidence 35799999777776666776 46888998888788888877663
No 95
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=39.33 E-value=79 Score=25.16 Aligned_cols=47 Identities=13% Similarity=0.084 Sum_probs=38.7
Q ss_pred hHHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHHhhhhhhhh
Q 040502 68 PDEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNSTLKRKYAET 115 (252)
Q Consensus 68 ~eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~lk~k~~~~ 115 (252)
.+-|.+|+++.+.-+ ..+..||+.+ |-|...|.+|-..+.+..+-+.
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~~ 54 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIKG 54 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCceee
Confidence 356788888887777 5699999999 9999999999998888775544
No 96
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=39.32 E-value=92 Score=25.32 Aligned_cols=30 Identities=23% Similarity=0.252 Sum_probs=24.7
Q ss_pred HhCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 80 RYGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 80 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
-.|-...+||..| |-+...|+.+-...+++
T Consensus 133 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 162 (172)
T PRK12523 133 LDGMGHAEIAERL-GVSVSRVRQYLAQGLRQ 162 (172)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466899999999 99999999988766654
No 97
>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=39.02 E-value=85 Score=25.35 Aligned_cols=29 Identities=17% Similarity=0.305 Sum_probs=23.1
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|-...+||..| |-|...|+++....++.
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 356789999999 88999999988765543
No 98
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=38.27 E-value=20 Score=36.14 Aligned_cols=48 Identities=23% Similarity=0.451 Sum_probs=42.5
Q ss_pred cCCCcCCCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccccc
Q 040502 7 SERVKGPWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCN 55 (252)
Q Consensus 7 ~~~~Kg~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~ 55 (252)
+....++||.+|-++...+....|. +.+.|+..+|+|+.+|++..|..
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERGS-DFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhcc-cccccccccccccHHHHHHHHhh
Confidence 3455689999999999999999997 69999999999999999998753
No 99
>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=38.00 E-value=71 Score=26.15 Aligned_cols=28 Identities=14% Similarity=0.261 Sum_probs=22.8
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
|-...+||..| |=|...|+++....+++
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 56799999999 88999999988755543
No 100
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=37.72 E-value=1.1e+02 Score=24.35 Aligned_cols=29 Identities=17% Similarity=0.233 Sum_probs=23.5
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|-.-.+||..| |-+...|+.+....+++
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 356789999999 99999999998765543
No 101
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=37.60 E-value=99 Score=25.00 Aligned_cols=28 Identities=29% Similarity=0.331 Sum_probs=23.0
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-.-.+||..| |.+...|+.+....++
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~ 160 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALR 160 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 366789999999 9999999999876554
No 102
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=37.55 E-value=8.9 Score=31.40 Aligned_cols=45 Identities=13% Similarity=0.170 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHhCCCCcccccccccccccccccccccccCCCcc
Q 040502 16 PEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLSPEV 61 (252)
Q Consensus 16 ~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~ 61 (252)
.+-|..|+.+.++.|...|..||+.+ |-|...|+.|+.+.....+
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 45799999999999988899999999 8999999999987655443
No 103
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=37.35 E-value=62 Score=31.03 Aligned_cols=43 Identities=12% Similarity=0.179 Sum_probs=38.5
Q ss_pred CCCChHHHHHHHHHHHHhCCChHHHHH-HhCCCCHHHHHHHHHH
Q 040502 64 RTFTPDEDEIIIKAHARYGNKWATIAR-LLNGRTDNAIKNHWNS 106 (252)
Q Consensus 64 ~~WT~eED~~Ll~lv~~~G~~W~~IA~-~lpgRT~~qck~Rw~~ 106 (252)
..|+.+|-..+-+.+..||..+..|.. .++.|+--.|-..|+-
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHH
Confidence 369999999999999999999999965 7899999999988764
No 104
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=37.31 E-value=92 Score=25.82 Aligned_cols=29 Identities=21% Similarity=0.109 Sum_probs=23.5
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|-...+||..| |-+...|+++....+++
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 466899999999 99999999988755443
No 105
>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=36.18 E-value=68 Score=23.93 Aligned_cols=29 Identities=24% Similarity=0.350 Sum_probs=23.0
Q ss_pred HHHHHHHHHHhCCChHHHHHHhCCCCHHHH
Q 040502 71 DEIIIKAHARYGNKWATIARLLNGRTDNAI 100 (252)
Q Consensus 71 D~~Ll~lv~~~G~~W~~IA~~lpgRT~~qc 100 (252)
|..|..+....|..|..+|..| |=+...+
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 5667788888999999999999 6555443
No 106
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=36.16 E-value=1e+02 Score=25.19 Aligned_cols=29 Identities=17% Similarity=0.177 Sum_probs=23.2
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|....+||..| |-+...++.+....+++
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 366789999999 99999999988765543
No 107
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=36.00 E-value=1.1e+02 Score=24.30 Aligned_cols=28 Identities=11% Similarity=-0.022 Sum_probs=22.8
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-.-.+||..| |-+...|+++....++
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 466789999999 9999999998765444
No 108
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=35.16 E-value=1.1e+02 Score=25.14 Aligned_cols=29 Identities=24% Similarity=0.263 Sum_probs=23.2
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|....+||..| |-+...++.+....+++
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 466799999999 88999999987765543
No 109
>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=34.84 E-value=53 Score=24.11 Aligned_cols=29 Identities=28% Similarity=0.520 Sum_probs=22.6
Q ss_pred HHHHHHHHHHhCCChHHHHHHhCCCCHHHH
Q 040502 71 DEIIIKAHARYGNKWATIARLLNGRTDNAI 100 (252)
Q Consensus 71 D~~Ll~lv~~~G~~W~~IA~~lpgRT~~qc 100 (252)
|..|..+....|..|.++|+.| |=+..++
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 4567778888999999999999 6555444
No 110
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=34.80 E-value=1.2e+02 Score=25.13 Aligned_cols=29 Identities=10% Similarity=0.209 Sum_probs=23.6
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|-...+||..| |-|...+++++...+++
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 466799999999 88999999998765443
No 111
>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=34.59 E-value=1.2e+02 Score=25.33 Aligned_cols=30 Identities=10% Similarity=-0.061 Sum_probs=24.0
Q ss_pred HhCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 80 RYGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 80 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
-.|....+||..| |-+.+.++.|....+++
T Consensus 145 ~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 145 VLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 99999999987765443
No 112
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=34.51 E-value=99 Score=25.20 Aligned_cols=27 Identities=11% Similarity=0.112 Sum_probs=21.7
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
|....+||..| |-+...++++....++
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 56789999999 8899999998765443
No 113
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=34.20 E-value=8.4 Score=31.99 Aligned_cols=46 Identities=22% Similarity=0.169 Sum_probs=38.8
Q ss_pred CHHHHHHHHHHHHHhCCCCcccccccccccccccccccccccCCCcc
Q 040502 15 SPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLSPEV 61 (252)
Q Consensus 15 T~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~ 61 (252)
-.+-|.+|+.+.++.|...|..||+.+ |-|...|+.|+.+.....+
T Consensus 12 lD~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 12 LDRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 356799999999999988999999998 7999999999987655443
No 114
>PRK01905 DNA-binding protein Fis; Provisional
Probab=34.14 E-value=1.3e+02 Score=21.64 Aligned_cols=36 Identities=17% Similarity=0.213 Sum_probs=28.0
Q ss_pred hHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHH
Q 040502 68 PDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHW 104 (252)
Q Consensus 68 ~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw 104 (252)
.-|...+.+++..+|+++.+.|+.+ |=+...++.+.
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 3467788899999999999999999 66666555443
No 115
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=33.88 E-value=1.1e+02 Score=25.29 Aligned_cols=27 Identities=11% Similarity=0.192 Sum_probs=21.9
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
|-...+||..| |-|...|+++....++
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~ 180 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRARE 180 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 55689999999 8899999998875544
No 116
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=33.88 E-value=1.2e+02 Score=25.27 Aligned_cols=29 Identities=7% Similarity=0.106 Sum_probs=22.9
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|-...+||..| |-+...|+.|....++.
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 366789999999 99999999887655543
No 117
>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=33.37 E-value=86 Score=26.10 Aligned_cols=45 Identities=18% Similarity=0.206 Sum_probs=37.0
Q ss_pred CCCCChHHHHHHHHHHHHhCCChHHHHHHhC----CCCHHHHHHHHHHH
Q 040502 63 HRTFTPDEDEIIIKAHARYGNKWATIARLLN----GRTDNAIKNHWNST 107 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~G~~W~~IA~~lp----gRT~~qck~Rw~~~ 107 (252)
...-|..|..-|..|+.+||..+...+.-.. -.|..||+.+...+
T Consensus 114 ~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 114 PRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 4467899999999999999999999887432 37999999887654
No 118
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=33.29 E-value=1.2e+02 Score=25.18 Aligned_cols=28 Identities=4% Similarity=-0.142 Sum_probs=23.2
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-...+||..| |-+...|+.|....++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~ 176 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARL 176 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 356799999999 9999999999765544
No 119
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=33.22 E-value=1.5e+02 Score=24.32 Aligned_cols=31 Identities=19% Similarity=0.075 Sum_probs=25.5
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKRKY 112 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~k~ 112 (252)
.|-...+||..| |-+...++.|....+..-+
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 466899999999 9999999999887665543
No 120
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=33.02 E-value=67 Score=27.68 Aligned_cols=44 Identities=25% Similarity=0.308 Sum_probs=35.5
Q ss_pred CCChHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhhhh
Q 040502 65 TFTPDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLKRK 111 (252)
Q Consensus 65 ~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~k 111 (252)
..|+.|-+.|.-+. .|-.=.+||..| +.|..-+++|..+++++-
T Consensus 148 ~LT~RE~eVL~lla--~G~snkeIA~~L-~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 148 LLTPRELEVLRLLA--EGLSNKEIAEEL-NLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCHHHHHHHHHHH--CCCCHHHHHHHH-CCCHhHHHHHHHHHHHHc
Confidence 68888887766544 465667999999 999999999999988763
No 121
>PRK00118 putative DNA-binding protein; Validated
Probab=32.21 E-value=1.6e+02 Score=22.90 Aligned_cols=39 Identities=10% Similarity=0.069 Sum_probs=30.8
Q ss_pred hHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHH
Q 040502 68 PDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNHWNST 107 (252)
Q Consensus 68 ~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~ 107 (252)
++.+..++.+....|-...+||+.+ |-|...++.+-...
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RA 57 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRT 57 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4556666777777788999999999 99999998876543
No 122
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=31.71 E-value=1.4e+02 Score=24.52 Aligned_cols=29 Identities=31% Similarity=0.282 Sum_probs=23.6
Q ss_pred HhCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 80 RYGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 80 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
..|-...+||..| |-+...|+++-...++
T Consensus 143 ~~g~s~~EIA~~l-~is~~tV~~~l~rar~ 171 (181)
T PRK12536 143 LEGLSVAETAQLT-GLSESAVKVGIHRGLK 171 (181)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466799999999 9999999998765544
No 123
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=31.04 E-value=1.4e+02 Score=24.89 Aligned_cols=28 Identities=14% Similarity=0.049 Sum_probs=22.5
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-.+.+||..| |=+...|+++....++
T Consensus 151 ~g~s~~eIA~~l-gis~~tV~~~l~Ra~~ 178 (196)
T PRK12524 151 EGLSNPEIAEVM-EIGVEAVESLTARGKR 178 (196)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 466799999999 8899999888765444
No 124
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=30.60 E-value=1.6e+02 Score=23.41 Aligned_cols=28 Identities=25% Similarity=0.381 Sum_probs=22.1
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
|-.-.+||..| |-+...++.|....++.
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 45678999999 99999999987755543
No 125
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=29.99 E-value=1.6e+02 Score=23.04 Aligned_cols=27 Identities=19% Similarity=0.163 Sum_probs=21.4
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
|-...+||..| |-+...|+.+-...++
T Consensus 122 ~~s~~EIA~~l-~is~~tV~~~~~ra~~ 148 (154)
T PRK06759 122 GKTMGEIALET-EMTYYQVRWIYRQALE 148 (154)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 55688999999 8999999888765544
No 126
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=29.65 E-value=77 Score=22.81 Aligned_cols=29 Identities=31% Similarity=0.518 Sum_probs=20.7
Q ss_pred HHHHHHHHHH-hCCChHHHHHHhCCCCHHHH
Q 040502 71 DEIIIKAHAR-YGNKWATIARLLNGRTDNAI 100 (252)
Q Consensus 71 D~~Ll~lv~~-~G~~W~~IA~~lpgRT~~qc 100 (252)
++.|..++.. .|..|..+|+.| |=+..++
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKL-GLSEADI 34 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHc-CCCHHHH
Confidence 4556666666 789999999999 4444443
No 127
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=29.63 E-value=29 Score=33.23 Aligned_cols=42 Identities=21% Similarity=0.309 Sum_probs=35.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCcccccc-ccccccccccccccc
Q 040502 12 GPWSPEEDQLLLKLVQRYGARNWSVISK-SIPGRSGKSCRLRWC 54 (252)
Q Consensus 12 g~WT~eED~~L~~~V~~~g~~nW~~Ia~-~lpgRs~~qcr~Rw~ 54 (252)
-.|+.+|-..+-..++.||. ++..|.. .++.|+...|-.-|.
T Consensus 278 ~~wsEeEcr~FEegl~~yGK-DF~lIr~nkvrtRsvgElVeyYY 320 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGK-DFHLIRANKVRTRSVGELVEYYY 320 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcc-cHHHHHhcccccchHHHHHHHHH
Confidence 36999999999999999995 7999954 678888888876663
No 128
>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=29.11 E-value=90 Score=23.13 Aligned_cols=23 Identities=30% Similarity=0.538 Sum_probs=18.7
Q ss_pred HHHHhCCChHHHHHHhCCCCHHHH
Q 040502 77 AHARYGNKWATIARLLNGRTDNAI 100 (252)
Q Consensus 77 lv~~~G~~W~~IA~~lpgRT~~qc 100 (252)
+....|..|..+|+.| |=+..++
T Consensus 13 ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 13 FANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHhhhHHHHHHHc-CCCHHHH
Confidence 4577799999999999 7776665
No 129
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=28.81 E-value=1.5e+02 Score=24.51 Aligned_cols=29 Identities=17% Similarity=0.203 Sum_probs=23.7
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|-...+||..| |-+...++.+....++.
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 173 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDA 173 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 355789999999 99999999998765554
No 130
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=28.72 E-value=1.5e+02 Score=24.56 Aligned_cols=28 Identities=11% Similarity=0.128 Sum_probs=22.9
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-.-.+||..| |-+...|+.+....++
T Consensus 151 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 178 (195)
T PRK12532 151 LGFSSDEIQQMC-GISTSNYHTIMHRARE 178 (195)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 466789999999 9999999998875444
No 131
>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=28.64 E-value=43 Score=24.06 Aligned_cols=18 Identities=17% Similarity=0.469 Sum_probs=14.5
Q ss_pred HHHHHHHHhCCChHHHHH
Q 040502 73 IIIKAHARYGNKWATIAR 90 (252)
Q Consensus 73 ~Ll~lv~~~G~~W~~IA~ 90 (252)
.|.++++.||++|.-|-.
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 467788899999998863
No 132
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=28.64 E-value=1.3e+02 Score=24.50 Aligned_cols=28 Identities=21% Similarity=0.312 Sum_probs=23.3
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
|-...+||+.| |-+...|+++....++.
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 55789999999 99999999998765554
No 133
>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=28.47 E-value=1.8e+02 Score=23.20 Aligned_cols=27 Identities=33% Similarity=0.418 Sum_probs=21.2
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
|-+..+||+.| |-+...++.+-...++
T Consensus 138 g~s~~eIA~~l-~is~~tv~~~l~ra~~ 164 (170)
T TIGR02952 138 NLPIAEVARIL-GKTEGAVKILQFRAIK 164 (170)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 56789999999 8889988887765443
No 134
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=28.34 E-value=1.7e+02 Score=23.71 Aligned_cols=28 Identities=25% Similarity=0.387 Sum_probs=22.7
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-...+||..| |-+...|+.+....++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 176 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARA 176 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 356789999999 9999999998875544
No 135
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=28.10 E-value=1.7e+02 Score=24.40 Aligned_cols=29 Identities=21% Similarity=0.239 Sum_probs=23.4
Q ss_pred HhCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 80 RYGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 80 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
-.|-...+||..| |-+...|+.|-...++
T Consensus 130 ~~g~s~~EIA~~L-gis~~tVk~~l~Rar~ 158 (187)
T PRK12516 130 ASGFAYEEAAEIC-GCAVGTIKSRVNRARQ 158 (187)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3467899999999 9999999998765544
No 136
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=28.04 E-value=1.8e+02 Score=22.07 Aligned_cols=34 Identities=12% Similarity=0.116 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHHH
Q 040502 69 DEDEIIIKAHARYGNKWATIARLLNGRTDNAIKNH 103 (252)
Q Consensus 69 eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~R 103 (252)
-|...|..++..+++++.+.|+.| |=+...++.+
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L-GIsRsTL~rK 88 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML-GINRGTLRKK 88 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHH
Confidence 477788899999999999999999 6666655443
No 137
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=27.97 E-value=1.9e+02 Score=23.04 Aligned_cols=28 Identities=25% Similarity=0.230 Sum_probs=22.7
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-...+||..| |-+...++.|....++
T Consensus 128 ~g~s~~EIA~~l-~is~~tV~~~l~ra~~ 155 (161)
T PRK12528 128 DGLGYGEIATEL-GISLATVKRYLNKAAM 155 (161)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 466789999999 8999999998776544
No 138
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=27.91 E-value=1.7e+02 Score=23.74 Aligned_cols=28 Identities=14% Similarity=0.214 Sum_probs=22.6
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
|-.-.+||..| |.+...++.+....+++
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 56789999999 99999999987755443
No 139
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=27.28 E-value=1.9e+02 Score=23.26 Aligned_cols=28 Identities=18% Similarity=0.207 Sum_probs=22.3
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-...+||..| |-+...++++-...++
T Consensus 127 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~ 154 (164)
T PRK12547 127 SGFSYEDAAAIC-GCAVGTIKSRVSRARN 154 (164)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 456789999999 8899999988765544
No 140
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=27.12 E-value=1.8e+02 Score=23.67 Aligned_cols=28 Identities=29% Similarity=0.351 Sum_probs=22.3
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
|-.-.+||..| |-|...|+.+.+..+++
T Consensus 151 ~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 151 GYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 55688999999 99999999987765543
No 141
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=26.58 E-value=1.9e+02 Score=23.76 Aligned_cols=28 Identities=18% Similarity=0.490 Sum_probs=22.8
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-...+||..| |-+...|+.+....++
T Consensus 137 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 164 (185)
T PRK12542 137 YNLTYQEISSVM-GITEANVRKQFERARK 164 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 456789999999 9999999998765444
No 142
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=26.51 E-value=1.8e+02 Score=23.07 Aligned_cols=37 Identities=19% Similarity=0.190 Sum_probs=26.3
Q ss_pred HHHHHHHHhCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 73 IIIKAHARYGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 73 ~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.++.+..-.|-.-.+||..| |-+...|+.+....+++
T Consensus 117 ~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 117 AVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33333334466788999999 99999999988765543
No 143
>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=26.39 E-value=1e+02 Score=22.78 Aligned_cols=31 Identities=26% Similarity=0.436 Sum_probs=23.7
Q ss_pred HHHHHHHHHHhCCChHHHHHHhCCCCHHHHHH
Q 040502 71 DEIIIKAHARYGNKWATIARLLNGRTDNAIKN 102 (252)
Q Consensus 71 D~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~ 102 (252)
|..|..+....|..|..+|+.| |=+...+.+
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 4556677788899999999999 666665544
No 144
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=26.23 E-value=1.8e+02 Score=23.91 Aligned_cols=28 Identities=11% Similarity=0.064 Sum_probs=21.6
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-...+||+.| |-+...|+.+....++
T Consensus 143 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 170 (186)
T PRK05602 143 QGLSNIEAAAVM-DISVDALESLLARGRR 170 (186)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHH
Confidence 356788999998 8888888888765443
No 145
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=26.13 E-value=2.3e+02 Score=21.60 Aligned_cols=44 Identities=18% Similarity=0.380 Sum_probs=34.9
Q ss_pred CCCCChHHHHHHHHHHHHhCCChHHHHHHhCCC-CHHHHHHHHHHHh
Q 040502 63 HRTFTPDEDEIIIKAHARYGNKWATIARLLNGR-TDNAIKNHWNSTL 108 (252)
Q Consensus 63 ~~~WT~eED~~Ll~lv~~~G~~W~~IA~~lpgR-T~~qck~Rw~~~l 108 (252)
...||.|.-..+++++.+-|..=+.||+.+ |- ..++++. |...+
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~-W~~~~ 49 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYK-WRIQL 49 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHH-HHHHH
Confidence 567999999999999998888889999999 75 6666554 54433
No 146
>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=25.97 E-value=86 Score=22.98 Aligned_cols=33 Identities=33% Similarity=0.590 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHHHhCCChHHHHHHhCCCCHHHHHH
Q 040502 68 PDEDEIIIKAHARYGNKWATIARLLNGRTDNAIKN 102 (252)
Q Consensus 68 ~eED~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~ 102 (252)
.||.++|+..= ..|..|..+|..| |=+...+.+
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHHHH
Confidence 57888888432 4678899999999 766666544
No 147
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=25.94 E-value=1.9e+02 Score=24.30 Aligned_cols=28 Identities=14% Similarity=-0.061 Sum_probs=22.4
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|..-.+||..| |.+...|+.|....++
T Consensus 154 eg~s~~EIA~~l-gis~~tVk~~l~RAr~ 181 (201)
T PRK12545 154 LDFEIDDICTEL-TLTANHCSVLLYRART 181 (201)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 356789999999 9999999998764443
No 148
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=25.90 E-value=68 Score=25.26 Aligned_cols=27 Identities=22% Similarity=0.195 Sum_probs=22.4
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
|-.+.+||..| |-+...+++++....+
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~ 147 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARK 147 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 45699999999 9999999999876544
No 149
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=25.71 E-value=2.1e+02 Score=23.24 Aligned_cols=29 Identities=28% Similarity=0.499 Sum_probs=22.9
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|-...+||..| |-|...|+.+....+++
T Consensus 155 ~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 155 EGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 456789999999 99999999887765543
No 150
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=25.01 E-value=1.3e+02 Score=19.09 Aligned_cols=30 Identities=23% Similarity=0.283 Sum_probs=19.0
Q ss_pred HHHHHHHHHHhCCChHHHHHHhCCCCHHHHHH
Q 040502 71 DEIIIKAHARYGNKWATIARLLNGRTDNAIKN 102 (252)
Q Consensus 71 D~~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~ 102 (252)
-..++.++.. |....+||+.| |-+...+.+
T Consensus 7 R~~ii~l~~~-G~s~~~ia~~l-gvs~~Tv~~ 36 (50)
T PF13384_consen 7 RAQIIRLLRE-GWSIREIAKRL-GVSRSTVYR 36 (50)
T ss_dssp ---HHHHHHH-T--HHHHHHHH-TS-HHHHHH
T ss_pred HHHHHHHHHC-CCCHHHHHHHH-CcCHHHHHH
Confidence 3446666666 89999999999 877777655
No 151
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=24.80 E-value=1.7e+02 Score=26.40 Aligned_cols=28 Identities=21% Similarity=0.300 Sum_probs=23.1
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
+|-.-.+||..| |.+...|+.|....++
T Consensus 157 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 184 (324)
T TIGR02960 157 LGWRAAETAELL-GTSTASVNSALQRARA 184 (324)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 466789999999 9999999999775444
No 152
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=24.72 E-value=1.5e+02 Score=32.16 Aligned_cols=44 Identities=23% Similarity=0.398 Sum_probs=36.6
Q ss_pred CCChHHHHHHHHHHHHhC-CChHHHHHHhCCCCHHHHHHHHHHHh
Q 040502 65 TFTPDEDEIIIKAHARYG-NKWATIARLLNGRTDNAIKNHWNSTL 108 (252)
Q Consensus 65 ~WT~eED~~Ll~lv~~~G-~~W~~IA~~lpgRT~~qck~Rw~~~l 108 (252)
.||.-+=..++.+..+|| ..-..||..|.|+|...|+.......
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~ 870 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFW 870 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence 588888888888889999 66999999999999999987554433
No 153
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=24.14 E-value=2.2e+02 Score=23.41 Aligned_cols=28 Identities=14% Similarity=-0.104 Sum_probs=22.8
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
|..-.+||..| |-+...|+.+....+++
T Consensus 147 g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 174 (191)
T PRK12520 147 ELETEEICQEL-QITATNAWVLLYRARMR 174 (191)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 56689999999 99999999998765543
No 154
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=23.96 E-value=2e+02 Score=24.07 Aligned_cols=29 Identities=17% Similarity=0.203 Sum_probs=23.3
Q ss_pred HhCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 80 RYGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 80 ~~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
-.|-...+||..| |-|...|+.+....++
T Consensus 127 ~~g~s~~EIA~~L-giS~~tVk~~l~Rar~ 155 (188)
T PRK12546 127 ASGFSYEEAAEMC-GVAVGTVKSRANRARA 155 (188)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466799999999 8999999998775544
No 155
>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=23.43 E-value=1.1e+02 Score=22.70 Aligned_cols=29 Identities=31% Similarity=0.485 Sum_probs=21.7
Q ss_pred HHHHHHHHhCCChHHHHHHhCCCCHHHHHH
Q 040502 73 IIIKAHARYGNKWATIARLLNGRTDNAIKN 102 (252)
Q Consensus 73 ~Ll~lv~~~G~~W~~IA~~lpgRT~~qck~ 102 (252)
.|-.+....|..|..+|+.| |=+..+|..
T Consensus 4 ~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 4 HLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 34445577799999999999 777776654
No 156
>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=23.37 E-value=49 Score=27.77 Aligned_cols=39 Identities=23% Similarity=0.185 Sum_probs=29.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccccccccccccccccc
Q 040502 13 PWSPEEDQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRW 53 (252)
Q Consensus 13 ~WT~eED~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw 53 (252)
.||+|..++|.++...-- .=++||..|.+.|...+.-+.
T Consensus 2 ~Wtde~~~~L~~lw~~G~--SasqIA~~lg~vsRnAViGk~ 40 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGL--SASQIARQLGGVSRNAVIGKA 40 (162)
T ss_pred CCCHHHHHHHHHHHHcCC--CHHHHHHHhCCcchhhhhhhh
Confidence 599999999999985533 368999999756666554443
No 157
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=23.11 E-value=53 Score=36.09 Aligned_cols=25 Identities=16% Similarity=0.547 Sum_probs=23.2
Q ss_pred CCChHHHHHHHHHHHHhC-CChHHHH
Q 040502 65 TFTPDEDEIIIKAHARYG-NKWATIA 89 (252)
Q Consensus 65 ~WT~eED~~Ll~lv~~~G-~~W~~IA 89 (252)
.|..++|..||-.|-+|| ++|..|-
T Consensus 1135 ~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1135 DWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred CCCchhhhhHhhhhhhcccccHHHhc
Confidence 599999999999999999 8999884
No 158
>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=22.84 E-value=1.3e+02 Score=22.51 Aligned_cols=22 Identities=27% Similarity=0.460 Sum_probs=18.6
Q ss_pred HHHHHHHHHHhCCChHHHHHHh
Q 040502 71 DEIIIKAHARYGNKWATIARLL 92 (252)
Q Consensus 71 D~~Ll~lv~~~G~~W~~IA~~l 92 (252)
|..|.......|..|.++|..|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L 25 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL 25 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc
Confidence 4567777788999999999988
No 159
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=22.64 E-value=52 Score=23.53 Aligned_cols=44 Identities=23% Similarity=0.580 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhCCCCcccccccccccccccccccccccCCCcc-------cCCCCChHHHHHH
Q 040502 19 DQLLLKLVQRYGARNWSVISKSIPGRSGKSCRLRWCNQLSPEV-------EHRTFTPDEDEII 74 (252)
Q Consensus 19 D~~L~~~V~~~g~~nW~~Ia~~lpgRs~~qcr~Rw~~~L~p~~-------~~~~WT~eED~~L 74 (252)
+.+|.++|+.|| |..++..+.-| |. .-+|++ .+.+|-.+..+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~i~----CF-----~~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERININ----CF-----KNNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTTSS----ST-----TSS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcccc----cC-----CCCCchHHHHHHHhcCHhHHHHHHHh
Confidence 568899999998 99999887433 32 224443 3566766665554
No 160
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=22.62 E-value=2.5e+02 Score=22.28 Aligned_cols=29 Identities=21% Similarity=0.358 Sum_probs=22.4
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|-.-.+||..| |-+...++++....+++
T Consensus 126 ~g~s~~eIA~~l-gis~~tV~~~i~ra~~~ 154 (166)
T PRK09639 126 SGYSYKEIAEAL-GIKESSVGTTLARAKKK 154 (166)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 566678899999 88999998887654443
No 161
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=22.53 E-value=2.5e+02 Score=23.83 Aligned_cols=28 Identities=18% Similarity=0.239 Sum_probs=22.3
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|.+-.+||..| |-+...|+++....++
T Consensus 153 ~g~s~~EIA~~L-gis~~tV~~~l~RArk 180 (203)
T PRK09647 153 EGLSYEEIAATL-GVKLGTVRSRIHRGRQ 180 (203)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 356789999999 9999999998875544
No 162
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=22.43 E-value=2.5e+02 Score=23.00 Aligned_cols=29 Identities=31% Similarity=0.329 Sum_probs=22.5
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|-.-.+||..| |-|...++.+....+++
T Consensus 148 ~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 176 (182)
T PRK12537 148 DGCSHAEIAQRL-GAPLGTVKAWIKRSLKA 176 (182)
T ss_pred cCCCHHHHHHHH-CCChhhHHHHHHHHHHH
Confidence 355678899999 88999999888766543
No 163
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=22.27 E-value=2.3e+02 Score=25.42 Aligned_cols=29 Identities=28% Similarity=0.402 Sum_probs=23.6
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
+|-.-.+||..| |.|...|+.+.....++
T Consensus 130 ~g~s~~EIA~~l-g~s~~tVk~~l~RAr~~ 158 (293)
T PRK09636 130 FGVPFDEIASTL-GRSPAACRQLASRARKH 158 (293)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 99999999998754443
No 164
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=22.25 E-value=2.6e+02 Score=23.09 Aligned_cols=28 Identities=39% Similarity=0.491 Sum_probs=21.5
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
|-.-.+||..| |-|...|+++-...+++
T Consensus 147 g~s~~EIAe~l-gis~~~V~~~l~Ra~~~ 174 (189)
T PRK06811 147 GEKIEEIAKKL-GLTRSAIDNRLSRGRKK 174 (189)
T ss_pred cCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55678899999 88999998887655443
No 165
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=21.93 E-value=1.3e+02 Score=26.02 Aligned_cols=27 Identities=15% Similarity=0.214 Sum_probs=22.4
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
|-...+||..| |-+...|+.+....++
T Consensus 165 g~s~~EIAe~l-gis~~tVk~~l~Rar~ 191 (231)
T PRK11922 165 ELSVEETAQAL-GLPEETVKTRLHRARR 191 (231)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 45789999999 9999999999875543
No 166
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=21.75 E-value=2.6e+02 Score=23.18 Aligned_cols=27 Identities=19% Similarity=0.229 Sum_probs=20.9
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
|-...+||..| |-+...|+.+-...++
T Consensus 158 ~~s~~EIA~~L-gis~~tVk~~l~ra~~ 184 (194)
T PRK09646 158 GLTYREVAERL-AVPLGTVKTRMRDGLI 184 (194)
T ss_pred CCCHHHHHHHh-CCChHhHHHHHHHHHH
Confidence 45689999999 8899999887665444
No 167
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=21.35 E-value=2.3e+02 Score=24.42 Aligned_cols=29 Identities=17% Similarity=0.291 Sum_probs=23.6
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|-...+||..| |-+...|+.+....+++
T Consensus 199 ~g~s~~EIA~~l-gis~~tV~~~~~ra~~~ 227 (236)
T PRK06986 199 EELNLKEIGAVL-GVSESRVSQIHSQAIKR 227 (236)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456799999999 99999999987766554
No 168
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=21.22 E-value=1.4e+02 Score=24.19 Aligned_cols=28 Identities=25% Similarity=0.547 Sum_probs=22.3
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
+|-...+||..| |-+...++.+....++
T Consensus 141 ~g~s~~eIA~~l-~is~~~V~~~l~ra~~ 168 (176)
T PRK09638 141 YGYTYEEIAKML-NIPEGTVKSRVHHGIK 168 (176)
T ss_pred cCCCHHHHHHHH-CCChhHHHHHHHHHHH
Confidence 456799999999 8899999888765544
No 169
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=20.87 E-value=2.5e+02 Score=22.95 Aligned_cols=28 Identities=18% Similarity=0.223 Sum_probs=21.5
Q ss_pred CCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 82 GNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 82 G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
|..-.+||..| |-+...|+.+....+++
T Consensus 143 g~s~~EIA~~l-~is~~tv~~~l~Ra~~~ 170 (179)
T PRK09415 143 ELSIKEIAEVT-GVNENTVKTRLKKAKEL 170 (179)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 45678899998 77889998887765543
No 170
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=20.76 E-value=2.2e+02 Score=23.45 Aligned_cols=28 Identities=25% Similarity=0.190 Sum_probs=21.5
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLK 109 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk 109 (252)
.|-.-.+||..| |-+...|+.+....++
T Consensus 156 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~ 183 (194)
T PRK12519 156 EGLSQSEIAKRL-GIPLGTVKARARQGLL 183 (194)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 355688999999 8899999888765444
No 171
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=20.62 E-value=1.2e+02 Score=30.00 Aligned_cols=60 Identities=20% Similarity=0.327 Sum_probs=45.4
Q ss_pred cccccccccccccccccccccCCCcccCCCCChHHHHHHHHHHHHhCCChHHHH-HHhCCCCHHHHHHHHH
Q 040502 36 VISKSIPGRSGKSCRLRWCNQLSPEVEHRTFTPDEDEIIIKAHARYGNKWATIA-RLLNGRTDNAIKNHWN 105 (252)
Q Consensus 36 ~Ia~~lpgRs~~qcr~Rw~~~L~p~~~~~~WT~eED~~Ll~lv~~~G~~W~~IA-~~lpgRT~~qck~Rw~ 105 (252)
.|+..+|-=-+.-||+.. ..|+..|-.++-++..+||..+..|- .+||-++-..+-..|+
T Consensus 268 Ais~LVPlGGPvLCRDem----------EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 268 AISYLVPLGGPVLCRDEM----------EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred HHHHhhcCCCceeehhhh----------hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 444455544455566543 25999999999999999999999995 4788898888877764
No 172
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=20.53 E-value=2.6e+02 Score=25.01 Aligned_cols=29 Identities=10% Similarity=0.359 Sum_probs=23.7
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
+|-.-.+||..| |.|...|+.+.....++
T Consensus 123 ~g~s~~EIA~~l-g~s~~tVr~~l~RAr~~ 151 (281)
T TIGR02957 123 FDYPYEEIASIV-GKSEANCRQLVSRARRH 151 (281)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 89999999988755443
No 173
>TIGR02980 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G subfamily. This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage.
Probab=20.33 E-value=2.8e+02 Score=23.62 Aligned_cols=29 Identities=21% Similarity=0.235 Sum_probs=22.6
Q ss_pred hCCChHHHHHHhCCCCHHHHHHHHHHHhhh
Q 040502 81 YGNKWATIARLLNGRTDNAIKNHWNSTLKR 110 (252)
Q Consensus 81 ~G~~W~~IA~~lpgRT~~qck~Rw~~~lk~ 110 (252)
.|..-.+||+.+ |-+...|+.+....+++
T Consensus 193 ~~~s~~eIA~~l-gis~~~v~~~~~ra~~~ 221 (227)
T TIGR02980 193 EDKTQSEIAERL-GISQMHVSRLLRRALKK 221 (227)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 356789999999 88999998877665543
No 174
>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=20.03 E-value=1.4e+02 Score=22.07 Aligned_cols=25 Identities=24% Similarity=0.440 Sum_probs=20.0
Q ss_pred HHHHHHHHHhCCChHHHHHHhCCCCH
Q 040502 72 EIIIKAHARYGNKWATIARLLNGRTD 97 (252)
Q Consensus 72 ~~Ll~lv~~~G~~W~~IA~~lpgRT~ 97 (252)
..|..+..+.|..|..+++.| |=+.
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L-Glse 27 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL-GLSY 27 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc-CCCH
Confidence 457788899999999999998 4333
Done!