Query 021071
Match_columns 317
No_of_seqs 246 out of 1248
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 07:22:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021071.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021071hhsearch_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 2.5E-35 5.4E-40 272.8 9.9 110 8-117 5-115 (238)
2 PLN03212 Transcription repress 100.0 1.6E-32 3.6E-37 253.1 9.6 110 7-116 20-130 (249)
3 PLN03091 hypothetical protein; 100.0 8.2E-31 1.8E-35 257.4 12.1 110 7-116 9-119 (459)
4 KOG0049 Transcription factor, 99.8 6.3E-19 1.4E-23 179.2 6.1 104 2-105 350-457 (939)
5 KOG0049 Transcription factor, 99.7 5E-17 1.1E-21 165.5 9.0 103 13-115 306-412 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 2E-16 4.4E-21 116.3 4.7 60 15-75 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.6 1.7E-15 3.7E-20 153.3 7.2 109 6-114 14-122 (512)
8 KOG0050 mRNA splicing protein 99.5 5.9E-15 1.3E-19 147.5 3.9 106 10-116 5-110 (617)
9 PF00249 Myb_DNA-binding: Myb- 99.4 5.1E-14 1.1E-18 99.7 1.4 47 12-58 1-48 (48)
10 PF00249 Myb_DNA-binding: Myb- 99.4 7.7E-13 1.7E-17 93.6 5.3 46 64-109 1-48 (48)
11 KOG0051 RNA polymerase I termi 99.4 8.2E-13 1.8E-17 135.4 6.6 105 11-117 383-515 (607)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.2 7.4E-12 1.6E-16 91.9 4.3 48 67-114 1-48 (60)
13 smart00717 SANT SANT SWI3, AD 99.2 2.5E-11 5.5E-16 83.2 5.3 47 64-110 1-48 (49)
14 smart00717 SANT SANT SWI3, AD 99.1 3.9E-11 8.5E-16 82.3 3.4 48 12-59 1-48 (49)
15 PLN03212 Transcription repress 99.1 1.1E-11 2.5E-16 115.2 0.7 59 2-61 68-126 (249)
16 PLN03091 hypothetical protein; 99.1 3E-11 6.5E-16 120.0 1.2 58 2-60 57-114 (459)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 2.2E-10 4.7E-15 77.5 5.1 44 66-109 1-45 (45)
18 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 2.8E-10 6.2E-15 76.9 3.1 45 14-58 1-45 (45)
19 KOG0051 RNA polymerase I termi 99.0 7.1E-10 1.5E-14 114.0 6.9 99 11-112 307-431 (607)
20 KOG0048 Transcription factor, 98.9 1E-09 2.3E-14 101.9 2.8 56 2-58 52-107 (238)
21 COG5147 REB1 Myb superfamily p 98.2 7E-07 1.5E-11 91.3 2.5 108 2-111 62-169 (512)
22 TIGR01557 myb_SHAQKYF myb-like 97.9 3E-05 6.6E-10 57.4 5.7 49 63-111 2-56 (57)
23 KOG0457 Histone acetyltransfer 97.7 6.7E-05 1.4E-09 75.0 5.9 50 62-111 70-120 (438)
24 TIGR01557 myb_SHAQKYF myb-like 97.6 4.4E-05 9.6E-10 56.5 3.0 47 12-58 3-54 (57)
25 KOG0457 Histone acetyltransfer 97.5 4.2E-05 9.1E-10 76.4 2.5 51 8-58 68-118 (438)
26 TIGR02894 DNA_bind_RsfA transc 97.5 7.7E-05 1.7E-09 65.9 3.7 54 63-117 3-63 (161)
27 KOG0050 mRNA splicing protein 97.5 8.7E-05 1.9E-09 75.6 3.5 55 62-116 5-60 (617)
28 PF08914 Myb_DNA-bind_2: Rap1 97.3 0.00022 4.9E-09 54.1 3.5 51 64-114 2-62 (65)
29 COG5259 RSC8 RSC chromatin rem 97.1 0.00027 5.9E-09 71.3 2.6 46 11-57 278-323 (531)
30 PF13325 MCRS_N: N-terminal re 97.1 0.0016 3.6E-08 59.5 6.9 99 14-114 1-131 (199)
31 KOG1279 Chromatin remodeling f 96.9 0.00061 1.3E-08 70.0 3.1 49 8-57 249-297 (506)
32 KOG1279 Chromatin remodeling f 96.8 0.0012 2.6E-08 67.9 4.6 43 63-105 252-294 (506)
33 PRK13923 putative spore coat p 96.8 0.001 2.2E-08 59.5 3.6 55 62-117 3-64 (170)
34 COG5259 RSC8 RSC chromatin rem 96.8 0.001 2.2E-08 67.3 3.6 43 64-106 279-321 (531)
35 PF13837 Myb_DNA-bind_4: Myb/S 96.8 0.00084 1.8E-08 52.3 2.4 52 64-116 1-70 (90)
36 PF08914 Myb_DNA-bind_2: Rap1 96.5 0.001 2.2E-08 50.5 0.9 50 12-61 2-60 (65)
37 COG5114 Histone acetyltransfer 96.0 0.0066 1.4E-07 59.1 4.0 47 64-110 63-110 (432)
38 PF13837 Myb_DNA-bind_4: Myb/S 96.0 0.0023 5E-08 49.8 0.5 46 13-58 2-64 (90)
39 TIGR02894 DNA_bind_RsfA transc 95.8 0.0049 1.1E-07 54.6 1.9 48 11-59 3-56 (161)
40 PF13873 Myb_DNA-bind_5: Myb/S 95.7 0.0084 1.8E-07 45.9 2.5 47 12-58 2-69 (78)
41 PLN03142 Probable chromatin-re 95.6 0.024 5.2E-07 63.1 6.7 100 14-113 826-988 (1033)
42 KOG2656 DNA methyltransferase 95.2 0.029 6.2E-07 56.0 5.1 83 33-115 74-187 (445)
43 PF13873 Myb_DNA-bind_5: Myb/S 95.1 0.029 6.3E-07 42.9 3.9 48 64-111 2-71 (78)
44 COG5114 Histone acetyltransfer 95.0 0.0088 1.9E-07 58.3 0.9 47 13-59 64-110 (432)
45 PRK13923 putative spore coat p 94.0 0.021 4.5E-07 51.2 0.8 50 9-59 2-57 (170)
46 PF09111 SLIDE: SLIDE; InterP 92.6 0.19 4.2E-06 42.4 4.5 52 61-112 46-113 (118)
47 PF12776 Myb_DNA-bind_3: Myb/S 92.1 0.24 5.1E-06 38.9 4.3 48 66-114 1-66 (96)
48 COG5118 BDP1 Transcription ini 91.9 0.21 4.6E-06 49.9 4.6 47 65-111 366-412 (507)
49 COG5118 BDP1 Transcription ini 90.6 0.19 4E-06 50.3 2.7 43 14-57 367-409 (507)
50 KOG4282 Transcription factor G 89.0 0.53 1.1E-05 45.9 4.5 49 64-112 54-116 (345)
51 KOG1194 Predicted DNA-binding 88.9 0.68 1.5E-05 47.3 5.2 49 64-112 187-235 (534)
52 PF08281 Sigma70_r4_2: Sigma-7 88.7 1 2.2E-05 31.7 4.7 42 69-111 12-53 (54)
53 PF11626 Rap1_C: TRF2-interact 84.1 1.3 2.8E-05 35.1 3.5 31 8-41 43-81 (87)
54 KOG1194 Predicted DNA-binding 83.0 3.3 7.2E-05 42.5 6.6 51 65-115 370-420 (534)
55 KOG4282 Transcription factor G 83.0 0.7 1.5E-05 45.1 1.9 46 13-58 55-113 (345)
56 PF12776 Myb_DNA-bind_3: Myb/S 82.8 0.91 2E-05 35.5 2.1 43 14-56 1-60 (96)
57 PF09111 SLIDE: SLIDE; InterP 80.9 1.9 4.1E-05 36.4 3.5 34 9-42 46-82 (118)
58 KOG4167 Predicted DNA-binding 80.9 0.81 1.7E-05 49.2 1.5 42 14-56 621-662 (907)
59 KOG4468 Polycomb-group transcr 78.4 2.9 6.3E-05 44.3 4.6 53 63-115 87-149 (782)
60 PF04545 Sigma70_r4: Sigma-70, 78.0 6.2 0.00013 27.4 4.9 41 70-111 7-47 (50)
61 KOG4167 Predicted DNA-binding 75.4 4.2 9.1E-05 44.0 4.9 45 64-108 619-663 (907)
62 PF13404 HTH_AsnC-type: AsnC-t 72.4 10 0.00022 26.1 4.7 38 70-108 3-41 (42)
63 PRK11179 DNA-binding transcrip 69.3 9.1 0.0002 33.0 4.8 46 69-115 8-54 (153)
64 PF07750 GcrA: GcrA cell cycle 68.9 5.4 0.00012 35.4 3.4 40 66-106 2-41 (162)
65 KOG2656 DNA methyltransferase 68.0 1.6 3.5E-05 43.9 -0.2 47 10-57 128-180 (445)
66 PF13325 MCRS_N: N-terminal re 66.0 10 0.00023 34.9 4.7 45 66-111 1-48 (199)
67 PRK11169 leucine-responsive tr 64.7 10 0.00022 33.1 4.3 46 69-115 13-59 (164)
68 TIGR02985 Sig70_bacteroi1 RNA 64.6 15 0.00032 30.3 5.1 39 72-111 118-156 (161)
69 PF04504 DUF573: Protein of un 64.1 13 0.00027 30.3 4.4 48 64-111 4-64 (98)
70 KOG4468 Polycomb-group transcr 62.1 4.9 0.00011 42.6 2.0 46 12-58 88-143 (782)
71 PF11626 Rap1_C: TRF2-interact 61.2 4 8.6E-05 32.3 0.9 17 60-76 43-59 (87)
72 smart00595 MADF subfamily of S 60.3 7.6 0.00016 29.9 2.4 24 85-109 29-52 (89)
73 KOG2009 Transcription initiati 58.6 12 0.00026 39.7 4.1 50 63-112 408-457 (584)
74 PF11035 SnAPC_2_like: Small n 58.2 16 0.00035 36.0 4.7 86 13-111 22-128 (344)
75 PF13404 HTH_AsnC-type: AsnC-t 58.0 5.5 0.00012 27.4 1.1 38 18-56 3-40 (42)
76 TIGR02937 sigma70-ECF RNA poly 56.8 22 0.00048 28.4 4.7 38 73-111 116-153 (158)
77 KOG1878 Nuclear receptor coreg 55.2 6.5 0.00014 45.5 1.6 44 11-55 224-267 (1672)
78 PRK11179 DNA-binding transcrip 54.8 6.9 0.00015 33.7 1.4 45 17-62 8-52 (153)
79 KOG4329 DNA-binding protein [G 54.5 9.5 0.00021 38.4 2.5 41 14-55 279-320 (445)
80 PRK11169 leucine-responsive tr 54.2 5.1 0.00011 35.0 0.5 45 17-62 13-57 (164)
81 PF01388 ARID: ARID/BRIGHT DNA 53.6 22 0.00048 27.7 4.1 37 74-110 40-89 (92)
82 cd06171 Sigma70_r4 Sigma70, re 53.6 38 0.00083 22.1 4.8 40 67-108 11-50 (55)
83 PF11035 SnAPC_2_like: Small n 52.8 30 0.00065 34.2 5.6 51 64-114 21-75 (344)
84 PF09197 Rap1-DNA-bind: Rap1, 52.5 9 0.00019 31.9 1.7 45 14-58 1-75 (105)
85 smart00344 HTH_ASNC helix_turn 49.0 36 0.00079 26.9 4.7 45 70-115 3-48 (108)
86 PF09420 Nop16: Ribosome bioge 48.6 38 0.00083 29.8 5.2 46 63-108 113-162 (164)
87 KOG3841 TEF-1 and related tran 47.6 52 0.0011 33.4 6.4 56 62-117 74-150 (455)
88 cd08319 Death_RAIDD Death doma 46.7 23 0.00049 28.1 3.1 29 72-101 2-30 (83)
89 PRK09652 RNA polymerase sigma 46.6 40 0.00087 28.4 4.9 32 77-109 138-169 (182)
90 PRK04217 hypothetical protein; 45.8 47 0.001 27.7 5.0 46 65-112 41-86 (110)
91 KOG4329 DNA-binding protein [G 45.5 2.7E+02 0.0059 28.4 10.9 44 65-108 278-322 (445)
92 PRK11924 RNA polymerase sigma 45.2 41 0.0009 28.2 4.8 31 78-109 136-166 (179)
93 PF07638 Sigma70_ECF: ECF sigm 44.7 39 0.00084 29.8 4.7 43 70-114 138-180 (185)
94 COG2963 Transposase and inacti 43.3 60 0.0013 26.3 5.2 48 64-112 5-53 (116)
95 KOG0384 Chromodomain-helicase 43.3 33 0.00071 39.5 4.7 71 14-90 1135-1206(1373)
96 smart00501 BRIGHT BRIGHT, ARID 42.3 47 0.001 26.1 4.3 38 74-111 36-86 (93)
97 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 42.1 51 0.0011 23.9 4.0 35 70-105 7-41 (50)
98 PF10545 MADF_DNA_bdg: Alcohol 41.6 23 0.00051 26.3 2.4 26 85-110 28-54 (85)
99 PRK09643 RNA polymerase sigma 40.0 57 0.0012 28.7 5.0 33 75-108 142-174 (192)
100 PF09905 DUF2132: Uncharacteri 39.9 36 0.00077 26.0 3.0 24 20-46 12-35 (64)
101 PF02954 HTH_8: Bacterial regu 39.3 53 0.0012 22.2 3.7 34 71-105 6-39 (42)
102 PRK09641 RNA polymerase sigma 38.9 57 0.0012 27.9 4.8 29 81-110 150-178 (187)
103 PRK09047 RNA polymerase factor 38.5 68 0.0015 26.7 5.0 31 80-111 119-149 (161)
104 PRK12523 RNA polymerase sigma 38.1 69 0.0015 27.4 5.1 40 72-112 124-163 (172)
105 PRK12529 RNA polymerase sigma 37.7 70 0.0015 27.7 5.1 39 75-114 135-173 (178)
106 TIGR02939 RpoE_Sigma70 RNA pol 37.4 52 0.0011 28.3 4.3 29 82-111 153-181 (190)
107 TIGR02954 Sig70_famx3 RNA poly 37.3 65 0.0014 27.3 4.8 33 78-111 130-162 (169)
108 TIGR02943 Sig70_famx1 RNA poly 37.1 69 0.0015 28.1 5.1 36 75-111 139-174 (188)
109 cd08803 Death_ank3 Death domai 36.0 48 0.001 26.2 3.4 29 72-101 4-32 (84)
110 cd08318 Death_NMPP84 Death dom 35.8 40 0.00086 26.5 3.0 24 78-102 13-36 (86)
111 KOG3554 Histone deacetylase co 35.8 18 0.0004 37.5 1.2 41 14-55 287-328 (693)
112 PRK09645 RNA polymerase sigma 35.6 78 0.0017 26.9 5.0 35 76-111 127-161 (173)
113 PRK11923 algU RNA polymerase s 35.2 70 0.0015 27.8 4.8 29 81-110 152-180 (193)
114 PRK09637 RNA polymerase sigma 35.2 74 0.0016 27.8 4.9 31 80-111 119-149 (181)
115 PRK09642 RNA polymerase sigma 34.4 84 0.0018 26.3 5.0 34 77-111 116-149 (160)
116 KOG2009 Transcription initiati 34.3 21 0.00046 37.9 1.5 48 8-56 405-452 (584)
117 PRK09648 RNA polymerase sigma 34.2 84 0.0018 27.2 5.1 35 76-111 148-182 (189)
118 PRK12515 RNA polymerase sigma 33.5 88 0.0019 27.2 5.1 34 80-115 144-177 (189)
119 PRK13991 cell division topolog 33.4 64 0.0014 25.9 3.8 52 264-317 33-85 (87)
120 PLN03142 Probable chromatin-re 33.4 64 0.0014 36.7 5.1 41 66-106 826-867 (1033)
121 PRK12530 RNA polymerase sigma 32.8 87 0.0019 27.4 5.0 29 81-110 148-176 (189)
122 KOG3554 Histone deacetylase co 32.7 58 0.0013 34.0 4.2 61 36-106 267-328 (693)
123 TIGR02948 SigW_bacill RNA poly 32.7 77 0.0017 27.1 4.6 28 82-110 151-178 (187)
124 cd08317 Death_ank Death domain 32.7 40 0.00086 26.2 2.5 30 72-102 4-33 (84)
125 PRK12512 RNA polymerase sigma 32.5 89 0.0019 26.9 4.9 34 77-111 141-174 (184)
126 PRK12524 RNA polymerase sigma 32.4 90 0.0019 27.4 5.0 34 77-111 146-179 (196)
127 PRK12531 RNA polymerase sigma 32.1 94 0.002 27.2 5.1 32 79-111 153-184 (194)
128 PRK12536 RNA polymerase sigma 31.9 95 0.0021 26.8 5.0 34 77-111 139-172 (181)
129 COG1522 Lrp Transcriptional re 31.8 92 0.002 26.0 4.8 46 69-115 7-53 (154)
130 PRK00118 putative DNA-binding 31.5 1.1E+02 0.0024 25.3 5.0 40 69-109 19-58 (104)
131 TIGR02952 Sig70_famx2 RNA poly 31.1 1E+02 0.0023 25.8 5.0 28 82-110 137-164 (170)
132 PF04504 DUF573: Protein of un 30.9 63 0.0014 26.2 3.4 19 12-30 4-22 (98)
133 PF09197 Rap1-DNA-bind: Rap1, 30.8 86 0.0019 26.2 4.2 47 66-112 1-78 (105)
134 PRK06759 RNA polymerase factor 30.4 1.1E+02 0.0024 25.3 5.1 29 81-110 120-148 (154)
135 PLN03162 golden-2 like transcr 30.3 2.6E+02 0.0057 28.5 8.2 48 64-111 237-289 (526)
136 smart00344 HTH_ASNC helix_turn 30.0 31 0.00067 27.3 1.5 44 18-62 3-46 (108)
137 PRK12516 RNA polymerase sigma 29.2 1.1E+02 0.0024 26.9 5.0 37 73-110 122-158 (187)
138 PF13936 HTH_38: Helix-turn-he 29.0 53 0.0012 22.5 2.3 37 66-104 4-40 (44)
139 cd08777 Death_RIP1 Death Domai 28.8 53 0.0011 26.0 2.6 29 74-103 4-32 (86)
140 PRK09651 RNA polymerase sigma 28.8 94 0.002 26.7 4.4 30 81-111 133-162 (172)
141 TIGR02999 Sig-70_X6 RNA polyme 28.6 1.2E+02 0.0026 25.9 5.1 32 78-110 145-176 (183)
142 PRK12514 RNA polymerase sigma 28.5 1.2E+02 0.0025 26.0 5.0 28 82-110 144-171 (179)
143 smart00005 DEATH DEATH domain, 28.2 63 0.0014 24.6 2.9 29 72-101 5-34 (88)
144 PRK09413 IS2 repressor TnpA; R 28.1 1.2E+02 0.0026 25.1 4.8 83 10-95 8-118 (121)
145 PRK09649 RNA polymerase sigma 27.9 1.1E+02 0.0024 26.6 4.8 32 80-112 143-174 (185)
146 PRK12528 RNA polymerase sigma 27.8 1.3E+02 0.0029 25.2 5.1 35 75-110 121-155 (161)
147 PRK12547 RNA polymerase sigma 27.7 1.3E+02 0.0028 25.5 5.1 35 76-111 121-155 (164)
148 PRK12542 RNA polymerase sigma 27.6 1.2E+02 0.0027 26.1 5.0 32 78-110 133-164 (185)
149 TIGR02950 SigM_subfam RNA poly 27.0 45 0.00099 27.6 2.1 27 83-110 121-147 (154)
150 PRK12527 RNA polymerase sigma 27.0 1.4E+02 0.003 25.0 5.1 30 81-111 119-148 (159)
151 PRK12532 RNA polymerase sigma 26.9 1.2E+02 0.0026 26.5 4.8 31 78-109 147-177 (195)
152 cd08311 Death_p75NR Death doma 26.8 62 0.0013 25.2 2.6 33 69-103 2-34 (77)
153 PF07750 GcrA: GcrA cell cycle 26.7 78 0.0017 28.1 3.5 39 14-54 2-40 (162)
154 PRK13919 putative RNA polymera 26.6 1.3E+02 0.0029 25.8 5.0 30 81-111 149-178 (186)
155 COG1522 Lrp Transcriptional re 26.4 36 0.00078 28.5 1.3 44 18-62 8-51 (154)
156 PRK10100 DNA-binding transcrip 26.3 1.2E+02 0.0026 27.6 4.9 45 66-113 155-199 (216)
157 cd08804 Death_ank2 Death domai 26.1 71 0.0015 25.1 2.9 31 72-103 4-34 (84)
158 PF09650 PHA_gran_rgn: Putativ 25.7 86 0.0019 24.9 3.3 21 267-287 65-85 (87)
159 cd00569 HTH_Hin_like Helix-tur 25.6 1.4E+02 0.003 17.0 4.0 36 66-103 5-40 (42)
160 TIGR02983 SigE-fam_strep RNA p 25.4 1.3E+02 0.0029 25.0 4.7 40 71-111 114-153 (162)
161 PRK12545 RNA polymerase sigma 25.4 1.4E+02 0.003 26.4 5.0 29 81-110 153-181 (201)
162 PRK12537 RNA polymerase sigma 24.9 1.5E+02 0.0032 25.6 4.9 31 80-111 146-176 (182)
163 PRK01905 DNA-binding protein F 24.8 1.6E+02 0.0034 22.5 4.6 35 70-105 37-71 (77)
164 TIGR02984 Sig-70_plancto1 RNA 24.6 1.6E+02 0.0034 25.2 5.0 35 76-111 149-183 (189)
165 PRK05602 RNA polymerase sigma 24.5 1.4E+02 0.003 25.8 4.7 30 80-110 141-170 (186)
166 PRK12546 RNA polymerase sigma 24.5 1.3E+02 0.0029 26.4 4.7 35 76-111 122-156 (188)
167 TIGR02960 SigX5 RNA polymerase 24.3 1.2E+02 0.0026 28.6 4.7 29 81-110 156-184 (324)
168 cd08779 Death_PIDD Death Domai 24.0 63 0.0014 25.5 2.2 32 73-105 3-37 (86)
169 PRK12518 RNA polymerase sigma 23.8 55 0.0012 27.9 2.0 27 83-110 136-162 (175)
170 PRK12520 RNA polymerase sigma 23.6 1.6E+02 0.0035 25.5 5.0 30 81-111 145-174 (191)
171 KOG1049 Polyadenylation factor 22.3 6.9E+02 0.015 26.6 9.9 42 183-228 279-320 (538)
172 PRK06811 RNA polymerase factor 22.3 1.8E+02 0.0039 25.3 5.0 30 81-111 145-174 (189)
173 PRK09646 RNA polymerase sigma 22.2 1.8E+02 0.0038 25.4 5.0 30 81-111 156-185 (194)
174 PRK00430 fis global DNA-bindin 22.2 1.8E+02 0.0039 23.4 4.6 35 70-105 55-89 (95)
175 PRK11922 RNA polymerase sigma 22.1 92 0.002 28.3 3.3 28 82-110 164-191 (231)
176 PRK06986 fliA flagellar biosyn 21.4 1.7E+02 0.0036 26.6 4.8 38 73-111 190-227 (236)
177 PRK12519 RNA polymerase sigma 21.3 1.5E+02 0.0033 25.7 4.3 29 81-110 155-183 (194)
178 cd08805 Death_ank1 Death domai 21.0 1E+02 0.0022 24.5 2.8 26 72-98 4-29 (84)
179 COG2197 CitB Response regulato 21.0 1.7E+02 0.0037 26.4 4.8 45 66-113 148-192 (211)
180 PF00196 GerE: Bacterial regul 20.9 2E+02 0.0044 20.2 4.3 44 66-112 3-46 (58)
181 cd08306 Death_FADD Fas-associa 20.6 1.1E+02 0.0024 24.0 3.0 27 75-102 5-31 (86)
182 PRK09647 RNA polymerase sigma 20.6 2E+02 0.0044 25.7 5.1 30 81-111 152-181 (203)
183 PRK09415 RNA polymerase factor 20.4 1.8E+02 0.0039 25.0 4.6 30 81-111 141-170 (179)
184 PF13384 HTH_23: Homeodomain-l 20.2 1.2E+02 0.0025 20.6 2.7 31 73-105 8-38 (50)
185 PF10440 WIYLD: Ubiquitin-bind 20.1 68 0.0015 24.5 1.6 18 74-91 31-48 (65)
186 PRK09638 RNA polymerase sigma 20.1 92 0.002 26.5 2.7 30 81-111 140-169 (176)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=2.5e-35 Score=272.76 Aligned_cols=110 Identities=45% Similarity=0.806 Sum_probs=106.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCC-CCCcccccccccccCCCcccCCCCChHHHHHHHHHHHHcCCCh
Q 021071 8 VDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIP-GRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNKW 86 (317)
Q Consensus 8 ~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp-~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k~G~kW 86 (317)
+.++||+||+|||++|+++|++||.++|..|++.++ +|++|+||+||.|||+|+++++.||+|||++|+++|++|||+|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 346689999999999999999999999999999998 9999999999999999999999999999999999999999999
Q ss_pred hhhhhhcCCCCHHHHHHHHHHHHhhhhcccc
Q 021071 87 ATIARLLNGRTDNAIKNHWNSTLKRKCSSML 117 (317)
Q Consensus 87 s~IA~~lpgRT~~q~KnRw~~~lkrk~~~~~ 117 (317)
+.||++|||||+++|||+|+..+|||+....
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999999998775
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.97 E-value=1.6e-32 Score=253.07 Aligned_cols=110 Identities=43% Similarity=0.821 Sum_probs=105.8
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhC-CCCCcccccccccccCCCcccCCCCChHHHHHHHHHHHHcCCC
Q 021071 7 EVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSI-PGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNK 85 (317)
Q Consensus 7 ~~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~l-p~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k~G~k 85 (317)
+..++|++||+|||++|+++|++||..+|..||+.+ ++|+++|||+||.|+|+|.+++++||.|||++|++++.+||++
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 567899999999999999999999999999999998 6999999999999999999999999999999999999999999
Q ss_pred hhhhhhhcCCCCHHHHHHHHHHHHhhhhccc
Q 021071 86 WATIARLLNGRTDNAIKNHWNSTLKRKCSSM 116 (317)
Q Consensus 86 Ws~IA~~lpgRT~~q~KnRw~~~lkrk~~~~ 116 (317)
|+.||++|+|||+++|||||+.++++++...
T Consensus 100 Ws~IAk~LpGRTDnqIKNRWns~LrK~l~r~ 130 (249)
T PLN03212 100 WSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQ 130 (249)
T ss_pred HHHHHhhcCCCCHHHHHHHHHHHHhHHHHhc
Confidence 9999999999999999999999999987764
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.97 E-value=8.2e-31 Score=257.43 Aligned_cols=110 Identities=48% Similarity=0.826 Sum_probs=105.3
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhC-CCCCcccccccccccCCCcccCCCCChHHHHHHHHHHHHcCCC
Q 021071 7 EVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSI-PGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNK 85 (317)
Q Consensus 7 ~~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~l-p~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k~G~k 85 (317)
+.+++||+||+|||++|+++|++||..+|..||+.+ ++|+++|||+||.|+|+|.+++++||+|||++|++++++||++
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnK 88 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcc
Confidence 457899999999999999999999999999999988 5999999999999999999999999999999999999999999
Q ss_pred hhhhhhhcCCCCHHHHHHHHHHHHhhhhccc
Q 021071 86 WATIARLLNGRTDNAIKNHWNSTLKRKCSSM 116 (317)
Q Consensus 86 Ws~IA~~lpgRT~~q~KnRw~~~lkrk~~~~ 116 (317)
|++||++|+|||+++|||||+.++|+++...
T Consensus 89 WskIAk~LPGRTDnqIKNRWnslLKKklr~~ 119 (459)
T PLN03091 89 WSQIAAQLPGRTDNEIKNLWNSCLKKKLRQR 119 (459)
T ss_pred hHHHHHhcCCCCHHHHHHHHHHHHHHHHHHc
Confidence 9999999999999999999999999987653
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.75 E-value=6.3e-19 Score=179.18 Aligned_cols=104 Identities=27% Similarity=0.484 Sum_probs=97.5
Q ss_pred cccccCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcccCCCCChHHHHHHHHHHHH
Q 021071 2 AFNRREVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHAR 81 (317)
Q Consensus 2 ~~n~~~~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k 81 (317)
|+...++.+++|+||++||.+|+.+|.+||.++|.+|-..+|||+..|||+||.|.|+...|++.||-.||+.|+.++.+
T Consensus 350 ~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~ 429 (939)
T KOG0049|consen 350 FSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKV 429 (939)
T ss_pred heeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHH
Confidence 45668999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cC-CChhhhhhhcCCCCHH---HHHHHH
Q 021071 82 FG-NKWATIARLLNGRTDN---AIKNHW 105 (317)
Q Consensus 82 ~G-~kWs~IA~~lpgRT~~---q~KnRw 105 (317)
|| ++|.+||.+||+||.. .|+.|+
T Consensus 430 YG~g~WakcA~~Lp~~t~~q~~rrR~R~ 457 (939)
T KOG0049|consen 430 YGKGNWAKCAMLLPKKTSRQLRRRRLRL 457 (939)
T ss_pred HccchHHHHHHHccccchhHHHHHHHHH
Confidence 99 7899999999999994 455555
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.69 E-value=5e-17 Score=165.47 Aligned_cols=103 Identities=29% Similarity=0.603 Sum_probs=86.1
Q ss_pred CCCCHHHHHHHHHHHHHhC---CCChHHHhhhCCCCCcccccccccccCCCcccCCCCChHHHHHHHHHHHHcCCC-hhh
Q 021071 13 GPWSPEEDEALQQLVQKHG---PRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNK-WAT 88 (317)
Q Consensus 13 G~WT~EED~~L~~lV~kyG---~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k~G~k-Ws~ 88 (317)
..||.|||.+|+.+|+... ..+|.+|-.+|+||+..|...||.+.|+|.++++.||.+||.+|+.+|.+||.+ |.+
T Consensus 306 keWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k 385 (939)
T KOG0049|consen 306 KEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAK 385 (939)
T ss_pred hhcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhh
Confidence 3455555555555555542 235888888888888888888888889999999999999999999999999965 999
Q ss_pred hhhhcCCCCHHHHHHHHHHHHhhhhcc
Q 021071 89 IARLLNGRTDNAIKNHWNSTLKRKCSS 115 (317)
Q Consensus 89 IA~~lpgRT~~q~KnRw~~~lkrk~~~ 115 (317)
|-..+|||++.||++||.+.|.+..+.
T Consensus 386 ~R~~vPnRSdsQcR~RY~nvL~~s~K~ 412 (939)
T KOG0049|consen 386 VRQAVPNRSDSQCRERYTNVLNRSAKV 412 (939)
T ss_pred HHHhcCCccHHHHHHHHHHHHHHhhcc
Confidence 999999999999999999999887654
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=99.64 E-value=2e-16 Score=116.29 Aligned_cols=60 Identities=42% Similarity=0.842 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcccCCCCChHHHHHH
Q 021071 15 WSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMI 75 (317)
Q Consensus 15 WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~L 75 (317)
||+|||++|+++|++|| .+|..||+.|+.|+..+|+.||.+.|++.+++++||.+||+.|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 5799999999779999999999999999999999999999986
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=99.59 E-value=1.7e-15 Score=153.31 Aligned_cols=109 Identities=35% Similarity=0.646 Sum_probs=104.3
Q ss_pred cCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcccCCCCChHHHHHHHHHHHHcCCC
Q 021071 6 REVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNK 85 (317)
Q Consensus 6 ~~~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k~G~k 85 (317)
...+++.|.|+..||+.|..+|+.||+.+|..||..+.-|++++|+.||.++++|.+++..|+.|||+.|+.+..++|..
T Consensus 14 ~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred ccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 35678899999999999999999999999999999998899999999999999999999999999999999999999999
Q ss_pred hhhhhhhcCCCCHHHHHHHHHHHHhhhhc
Q 021071 86 WATIARLLNGRTDNAIKNHWNSTLKRKCS 114 (317)
Q Consensus 86 Ws~IA~~lpgRT~~q~KnRw~~~lkrk~~ 114 (317)
|+.||..+++||..+|.+||..++....+
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999999887766
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.51 E-value=5.9e-15 Score=147.50 Aligned_cols=106 Identities=29% Similarity=0.542 Sum_probs=100.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcccCCCCChHHHHHHHHHHHHcCCChhhh
Q 021071 10 RIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNKWATI 89 (317)
Q Consensus 10 ~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k~G~kWs~I 89 (317)
++-|-|+.-||+.|..+|.+||...|+.|++.++-++.+||+.||..+|+|.+++..|+.|||+.||.+...+...|..|
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtI 84 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTI 84 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchH
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCCCCHHHHHHHHHHHHhhhhccc
Q 021071 90 ARLLNGRTDNAIKNHWNSTLKRKCSSM 116 (317)
Q Consensus 90 A~~lpgRT~~q~KnRw~~~lkrk~~~~ 116 (317)
+..| |||.++|-.||+.++-..+..-
T Consensus 85 a~i~-gr~~~qc~eRy~~ll~~~~s~~ 110 (617)
T KOG0050|consen 85 ADIM-GRTSQQCLERYNNLLDVYVSYH 110 (617)
T ss_pred HHHh-hhhHHHHHHHHHHHHHHHHhhh
Confidence 9999 9999999999999998776543
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=99.41 E-value=5.1e-14 Score=99.65 Aligned_cols=47 Identities=51% Similarity=0.987 Sum_probs=42.7
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHhhhCC-CCCcccccccccccC
Q 021071 12 KGPWSPEEDEALQQLVQKHGPRNWSLISKSIP-GRSGKSCRLRWCNQL 58 (317)
Q Consensus 12 KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp-~Rs~kqCr~Rw~n~L 58 (317)
|++||+|||++|+++|.+||..+|..||..|+ +||..||+.||.++|
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 68999999999999999999888999999999 999999999998865
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=99.37 E-value=7.7e-13 Score=93.63 Aligned_cols=46 Identities=30% Similarity=0.650 Sum_probs=41.8
Q ss_pred CCCCChHHHHHHHHHHHHcCCC-hhhhhhhcC-CCCHHHHHHHHHHHH
Q 021071 64 HRAFTPEEDEMIIRAHARFGNK-WATIARLLN-GRTDNAIKNHWNSTL 109 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~G~k-Ws~IA~~lp-gRT~~q~KnRw~~~l 109 (317)
|++||+|||++|++++.+||.+ |..||..|+ +||..+|++||+.++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5789999999999999999988 999999999 999999999998764
No 11
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.36 E-value=8.2e-13 Score=135.39 Aligned_cols=105 Identities=27% Similarity=0.571 Sum_probs=95.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcc--cCCCCChHHHHHHHHHHH-------H
Q 021071 11 IKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQV--EHRAFTPEEDEMIIRAHA-------R 81 (317)
Q Consensus 11 ~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~i--kr~~WT~EED~~Li~lv~-------k 81 (317)
.+|.||+||++.|..+|.++| .+|..|++.| +|.+..|++||.++..++. +++.||.||++.|+++|. +
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 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQ 460 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhc
Confidence 799999999999999999999 5699999999 9999999999999999885 899999999999999995 3
Q ss_pred c-------------------CCChhhhhhhcCCCCHHHHHHHHHHHHhhhhcccc
Q 021071 82 F-------------------GNKWATIARLLNGRTDNAIKNHWNSTLKRKCSSML 117 (317)
Q Consensus 82 ~-------------------G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~~~~ 117 (317)
| +-+|..|++.+..|+..+|+.+|+.++.+......
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 12599999999999999999999999998766543
No 12
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.24 E-value=7.4e-12 Score=91.92 Aligned_cols=48 Identities=38% Similarity=0.742 Sum_probs=40.8
Q ss_pred CChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhhhc
Q 021071 67 FTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKCS 114 (317)
Q Consensus 67 WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~ 114 (317)
||+|||++|+.++.+||++|..||++|+.||..+|++||+..|+.++.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~ 48 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKIS 48 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTST
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCccccc
Confidence 999999999999999999999999999669999999999986765443
No 13
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.20 E-value=2.5e-11 Score=83.24 Aligned_cols=47 Identities=40% Similarity=0.794 Sum_probs=44.1
Q ss_pred CCCCChHHHHHHHHHHHHcC-CChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 64 HRAFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~G-~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
++.||++||++|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999988764
No 14
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.13 E-value=3.9e-11 Score=82.28 Aligned_cols=48 Identities=52% Similarity=1.008 Sum_probs=44.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCC
Q 021071 12 KGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLS 59 (317)
Q Consensus 12 KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~ 59 (317)
++.||++||++|+.++.+||..+|..||..|++|+..+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 468999999999999999997789999999999999999999998764
No 15
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.12 E-value=1.1e-11 Score=115.18 Aligned_cols=59 Identities=27% Similarity=0.504 Sum_probs=54.5
Q ss_pred cccccCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCc
Q 021071 2 AFNRREVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQ 61 (317)
Q Consensus 2 ~~n~~~~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~ 61 (317)
|.++.++.+++++||+|||++|++++..||.+ |..||+.|+|||..+|++||+.+++..
T Consensus 68 W~N~L~P~I~kgpWT~EED~lLlel~~~~GnK-Ws~IAk~LpGRTDnqIKNRWns~LrK~ 126 (249)
T PLN03212 68 WMNYLRPSVKRGGITSDEEDLILRLHRLLGNR-WSLIAGRIPGRTDNEIKNYWNTHLRKK 126 (249)
T ss_pred HHHhhchhcccCCCChHHHHHHHHHHHhcccc-HHHHHhhcCCCCHHHHHHHHHHHHhHH
Confidence 67889999999999999999999999999965 999999999999999999999877543
No 16
>PLN03091 hypothetical protein; Provisional
Probab=99.07 E-value=3e-11 Score=119.98 Aligned_cols=58 Identities=26% Similarity=0.464 Sum_probs=53.8
Q ss_pred cccccCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCC
Q 021071 2 AFNRREVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSP 60 (317)
Q Consensus 2 ~~n~~~~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p 60 (317)
|.++.++.++||+||+|||++|++++++||. .|.+||+.|+||+..+|++||+..|+.
T Consensus 57 W~NyLdP~IkKgpWT~EED~lLLeL~k~~Gn-KWskIAk~LPGRTDnqIKNRWnslLKK 114 (459)
T PLN03091 57 WINYLRPDLKRGTFSQQEENLIIELHAVLGN-RWSQIAAQLPGRTDNEIKNLWNSCLKK 114 (459)
T ss_pred HHhccCCcccCCCCCHHHHHHHHHHHHHhCc-chHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence 6788999999999999999999999999996 499999999999999999999977654
No 17
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.07 E-value=2.2e-10 Score=77.51 Aligned_cols=44 Identities=39% Similarity=0.816 Sum_probs=41.5
Q ss_pred CCChHHHHHHHHHHHHcC-CChhhhhhhcCCCCHHHHHHHHHHHH
Q 021071 66 AFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWNSTL 109 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~G-~kWs~IA~~lpgRT~~q~KnRw~~~l 109 (317)
+||.+||.+|+.++.+|| .+|..||+.+++||..+|++||+.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999997653
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=98.99 E-value=2.8e-10 Score=76.91 Aligned_cols=45 Identities=53% Similarity=1.022 Sum_probs=42.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccC
Q 021071 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQL 58 (317)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L 58 (317)
+||.|||++|+.++.+||..+|..||+.+++|+..+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999778999999999999999999998753
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.98 E-value=7.1e-10 Score=114.03 Aligned_cols=99 Identities=27% Similarity=0.413 Sum_probs=85.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC-----------------------CChHHHhhhCCCCCcccccc---cccccCCCcccC
Q 021071 11 IKGPWSPEEDEALQQLVQKHGP-----------------------RNWSLISKSIPGRSGKSCRL---RWCNQLSPQVEH 64 (317)
Q Consensus 11 ~KG~WT~EED~~L~~lV~kyG~-----------------------~nW~~IA~~lp~Rs~kqCr~---Rw~n~L~p~ikr 64 (317)
.-+.|+.+||+.|.+.|..|-. .-|..|.+.||.|+.++++. |-++.+.+ ++
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~R~~~siy~~~rR~y~~FE~--~r 384 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPYRDRKSIYHHLRRAYTPFEN--KR 384 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCcccchhHHHHHHhcCCcccc--cc
Confidence 3478999999999999998810 02788999999999999988 44445544 89
Q ss_pred CCCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhh
Q 021071 65 RAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (317)
Q Consensus 65 ~~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk 112 (317)
|.||+||++.|..+|.++|+.|..|++.| ||.+.+|++||+.+.+-.
T Consensus 385 g~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 385 GKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCG 431 (607)
T ss_pred CCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccc
Confidence 99999999999999999999999999999 999999999999888654
No 20
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.86 E-value=1e-09 Score=101.92 Aligned_cols=56 Identities=32% Similarity=0.568 Sum_probs=52.4
Q ss_pred cccccCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccC
Q 021071 2 AFNRREVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQL 58 (317)
Q Consensus 2 ~~n~~~~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L 58 (317)
|.|+++++++||.||+|||++|+++...+|.+ |..||++|||||...++.+|...|
T Consensus 52 W~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNr-Ws~IA~~LPGRTDNeIKN~Wnt~l 107 (238)
T KOG0048|consen 52 WTNYLRPDLKRGNFSDEEEDLIIKLHALLGNR-WSLIAGRLPGRTDNEVKNHWNTHL 107 (238)
T ss_pred hhcccCCCccCCCCCHHHHHHHHHHHHHHCcH-HHHHHhhCCCcCHHHHHHHHHHHH
Confidence 88999999999999999999999999999977 999999999999999988885544
No 21
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.19 E-value=7e-07 Score=91.26 Aligned_cols=108 Identities=22% Similarity=0.211 Sum_probs=93.5
Q ss_pred cccccCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcccCCCCChHHHHHHHHHHHH
Q 021071 2 AFNRREVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHAR 81 (317)
Q Consensus 2 ~~n~~~~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k 81 (317)
|.+..++.++++.|+.|||+.|+.+-..+|.. |+.|+..+++|+..+|.+||.+.+.+..+ ..||..++...+.-+..
T Consensus 62 w~~~lnp~lk~~~~~~eed~~li~l~~~~~~~-wstia~~~d~rt~~~~~ery~~~~~~~~s-~~~s~~~~~~~f~k~d~ 139 (512)
T COG5147 62 WNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ-WSTIADYKDRRTAQQCVERYVNTLEDLSS-THDSKLQRRNEFDKIDP 139 (512)
T ss_pred hhhhhchhcccccccHHHHHHHHHHHHhcCch-hhhhccccCccchHHHHHHHHHHhhhhhc-cccccccchhhccccCc
Confidence 55788999999999999999999999999987 99999999999999999999999987655 88999998888888888
Q ss_pred cCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 82 FGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 82 ~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
|+..|.++....-.+-...|.+++.++..+
T Consensus 140 f~~~~~~~~~~~~~~~~~~~~N~~~~~~~~ 169 (512)
T COG5147 140 FNENSARRPDIYEDELLEREVNREASYRLR 169 (512)
T ss_pred hhhhhhhhhhhhhcccchhhhhHHHHHHHH
Confidence 888888888777667777777777555443
No 22
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.89 E-value=3e-05 Score=57.38 Aligned_cols=49 Identities=16% Similarity=0.367 Sum_probs=42.6
Q ss_pred cCCCCChHHHHHHHHHHHHcCC-Ch---hhhhhhcC-CC-CHHHHHHHHHHHHhh
Q 021071 63 EHRAFTPEEDEMIIRAHARFGN-KW---ATIARLLN-GR-TDNAIKNHWNSTLKR 111 (317)
Q Consensus 63 kr~~WT~EED~~Li~lv~k~G~-kW---s~IA~~lp-gR-T~~q~KnRw~~~lkr 111 (317)
.+-.||+||...+++++..||. +| ..|++.+. .| |..+|+.|++.++-+
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 3568999999999999999996 99 99999884 45 999999999877644
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.67 E-value=6.7e-05 Score=74.98 Aligned_cols=50 Identities=20% Similarity=0.495 Sum_probs=45.1
Q ss_pred ccCCCCChHHHHHHHHHHHHcC-CChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 62 VEHRAFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 62 ikr~~WT~EED~~Li~lv~k~G-~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
+-...||.+|+.+||+++..|| ++|..||.++..||..+||.||.+++-.
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~ 120 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVN 120 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhc
Confidence 3456899999999999999999 9999999999999999999999877643
No 24
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.63 E-value=4.4e-05 Score=56.51 Aligned_cols=47 Identities=17% Similarity=0.261 Sum_probs=41.0
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCh---HHHhhhCC-CC-CcccccccccccC
Q 021071 12 KGPWSPEEDEALQQLVQKHGPRNW---SLISKSIP-GR-SGKSCRLRWCNQL 58 (317)
Q Consensus 12 KG~WT~EED~~L~~lV~kyG~~nW---~~IA~~lp-~R-s~kqCr~Rw~n~L 58 (317)
+-.||+||..+++++|+.+|.++| ..|++.|. .| |..||+.+++.|.
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 457999999999999999998799 99999883 45 9999999887654
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.54 E-value=4.2e-05 Score=76.40 Aligned_cols=51 Identities=18% Similarity=0.449 Sum_probs=47.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccC
Q 021071 8 VDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQL 58 (317)
Q Consensus 8 ~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L 58 (317)
-.+....||.+|+-+|++++..||-+||..||++|..|+..+|+++|.+++
T Consensus 68 ~~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 68 FPILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 455677899999999999999999999999999999999999999998865
No 26
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.53 E-value=7.7e-05 Score=65.85 Aligned_cols=54 Identities=26% Similarity=0.490 Sum_probs=47.2
Q ss_pred cCCCCChHHHHHHHHHHHHc---CC----ChhhhhhhcCCCCHHHHHHHHHHHHhhhhcccc
Q 021071 63 EHRAFTPEEDEMIIRAHARF---GN----KWATIARLLNGRTDNAIKNHWNSTLKRKCSSML 117 (317)
Q Consensus 63 kr~~WT~EED~~Li~lv~k~---G~----kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~~~~ 117 (317)
....||.|||.+|.+.|.+| |+ -+..++..| +||..+|.-|||+++|+++...+
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 46789999999999999887 32 288999999 99999999999999999877653
No 27
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.46 E-value=8.7e-05 Score=75.56 Aligned_cols=55 Identities=29% Similarity=0.549 Sum_probs=50.1
Q ss_pred ccCCCCChHHHHHHHHHHHHcC-CChhhhhhhcCCCCHHHHHHHHHHHHhhhhccc
Q 021071 62 VEHRAFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWNSTLKRKCSSM 116 (317)
Q Consensus 62 ikr~~WT~EED~~Li~lv~k~G-~kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~~~ 116 (317)
++-+-|+..||+.|..++.+|| +.|++|+.+++-+|..+|++||..++...+...
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~t 60 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKT 60 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhh
Confidence 4678999999999999999999 569999999999999999999999998877654
No 28
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=97.32 E-value=0.00022 Score=54.14 Aligned_cols=51 Identities=20% Similarity=0.341 Sum_probs=33.2
Q ss_pred CCCCChHHHHHHHHHHHHc---C-----CC-hhhhhhhcC-CCCHHHHHHHHHHHHhhhhc
Q 021071 64 HRAFTPEEDEMIIRAHARF---G-----NK-WATIARLLN-GRTDNAIKNHWNSTLKRKCS 114 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~---G-----~k-Ws~IA~~lp-gRT~~q~KnRw~~~lkrk~~ 114 (317)
|.+||.+||.+|++.++.+ | |+ |..++..-+ .+|-.+.|+||.+.|+.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 4589999999999999654 2 33 999999877 99999999999988877643
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.11 E-value=0.00027 Score=71.29 Aligned_cols=46 Identities=17% Similarity=0.417 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCccccccccccc
Q 021071 11 IKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQ 57 (317)
Q Consensus 11 ~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~ 57 (317)
+...||.+|..+|++.|+.|| .+|.+||+++.+|+..||..||.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 456899999999999999999 5699999999999999999999865
No 30
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.05 E-value=0.0016 Score=59.54 Aligned_cols=99 Identities=17% Similarity=0.349 Sum_probs=72.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhC---CCCCcccccccccccC----------------CCc-----ccCCCCCh
Q 021071 14 PWSPEEDEALQQLVQKHGPRNWSLISKSI---PGRSGKSCRLRWCNQL----------------SPQ-----VEHRAFTP 69 (317)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~IA~~l---p~Rs~kqCr~Rw~n~L----------------~p~-----ikr~~WT~ 69 (317)
+|++++|-+|+.+|..-. +-..|+..+ ..-|.+.+.+||+..| +|. ..+..||.
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 599999999999998764 467776655 4457788899998764 222 24568999
Q ss_pred HHHHHHHHHHHHcCC---Chhhhhh-----hcCCCCHHHHHHHHHHHHhhhhc
Q 021071 70 EEDEMIIRAHARFGN---KWATIAR-----LLNGRTDNAIKNHWNSTLKRKCS 114 (317)
Q Consensus 70 EED~~Li~lv~k~G~---kWs~IA~-----~lpgRT~~q~KnRw~~~lkrk~~ 114 (317)
+||++|......... .+.+|-. +-++||+.++.+||..+.+..+.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLL 131 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchh
Confidence 999999997765543 3555543 23679999999999865555543
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.91 E-value=0.00061 Score=70.03 Aligned_cols=49 Identities=16% Similarity=0.460 Sum_probs=44.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCccccccccccc
Q 021071 8 VDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQ 57 (317)
Q Consensus 8 ~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~ 57 (317)
....++.||.+|+-+|+++|+.|| .+|.+||.++..|+..||..++.+.
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYG-DDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccCCCCHHHHHHHHHhc
Confidence 455678899999999999999999 5699999999999999999998764
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.84 E-value=0.0012 Score=67.95 Aligned_cols=43 Identities=14% Similarity=0.400 Sum_probs=41.1
Q ss_pred cCCCCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHH
Q 021071 63 EHRAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHW 105 (317)
Q Consensus 63 kr~~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw 105 (317)
.+..||.+|+-+|++++..||.+|.+||.++.+||..+|--||
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kF 294 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKF 294 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHH
Confidence 4678999999999999999999999999999999999999988
No 33
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.84 E-value=0.001 Score=59.50 Aligned_cols=55 Identities=22% Similarity=0.393 Sum_probs=46.5
Q ss_pred ccCCCCChHHHHHHHHHHHHcCCC-------hhhhhhhcCCCCHHHHHHHHHHHHhhhhcccc
Q 021071 62 VEHRAFTPEEDEMIIRAHARFGNK-------WATIARLLNGRTDNAIKNHWNSTLKRKCSSML 117 (317)
Q Consensus 62 ikr~~WT~EED~~Li~lv~k~G~k-------Ws~IA~~lpgRT~~q~KnRw~~~lkrk~~~~~ 117 (317)
.++..||.|||.+|-+.+..|+.. ...++..| +||..+|..|||+++++++...+
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Yee~I 64 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQEQI 64 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHHHHH
Confidence 356789999999999999888743 66777788 99999999999999999877653
No 34
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.80 E-value=0.001 Score=67.28 Aligned_cols=43 Identities=16% Similarity=0.431 Sum_probs=40.6
Q ss_pred CCCCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHH
Q 021071 64 HRAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWN 106 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~ 106 (317)
...||.+|.-+|++.+..||..|.+||+++.+||..||.-||.
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL 321 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFL 321 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHH
Confidence 3489999999999999999999999999999999999999983
No 35
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.79 E-value=0.00084 Score=52.30 Aligned_cols=52 Identities=33% Similarity=0.634 Sum_probs=35.3
Q ss_pred CCCCChHHHHHHHHHHHH------cC--C------ChhhhhhhcC----CCCHHHHHHHHHHHHhhhhccc
Q 021071 64 HRAFTPEEDEMIIRAHAR------FG--N------KWATIARLLN----GRTDNAIKNHWNSTLKRKCSSM 116 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k------~G--~------kWs~IA~~lp----gRT~~q~KnRw~~~lkrk~~~~ 116 (317)
|..||.+|...||.+... ++ + -|..||..|. .||..||+++|++ |++++...
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~-L~~~Yk~~ 70 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKN-LKKKYKKI 70 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHH-HHHHHHCS
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HHHHHHHH
Confidence 457999999999999776 21 1 2999999873 5999999999966 44554443
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=96.47 E-value=0.001 Score=50.52 Aligned_cols=50 Identities=24% Similarity=0.472 Sum_probs=33.0
Q ss_pred CCCCCHHHHHHHHHHHHHhC--------CCChHHHhhhCC-CCCcccccccccccCCCc
Q 021071 12 KGPWSPEEDEALQQLVQKHG--------PRNWSLISKSIP-GRSGKSCRLRWCNQLSPQ 61 (317)
Q Consensus 12 KG~WT~EED~~L~~lV~kyG--------~~nW~~IA~~lp-~Rs~kqCr~Rw~n~L~p~ 61 (317)
+-+||.|||++|+++|+.+. ..-|..+++.-+ .+|-.+-++||...|.+.
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 45799999999999997662 112999998877 899999999999888654
No 37
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.03 E-value=0.0066 Score=59.13 Aligned_cols=47 Identities=21% Similarity=0.526 Sum_probs=42.7
Q ss_pred CCCCChHHHHHHHHHHHHcC-CChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 64 HRAFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~G-~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
-..|+.+|+.+|++.....| ++|..||.++..|+...||.||.++.-
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34799999999999999999 899999999988999999999976654
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.96 E-value=0.0023 Score=49.81 Aligned_cols=46 Identities=26% Similarity=0.562 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHHHHHHH--h----C--CC-----ChHHHhhhC----CCCCcccccccccccC
Q 021071 13 GPWSPEEDEALQQLVQK--H----G--PR-----NWSLISKSI----PGRSGKSCRLRWCNQL 58 (317)
Q Consensus 13 G~WT~EED~~L~~lV~k--y----G--~~-----nW~~IA~~l----p~Rs~kqCr~Rw~n~L 58 (317)
-.||.+|...|+.++.. + + .. -|..||..| ..|+..||+.||.++.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 46999999999999987 2 1 11 399999988 5799999999998743
No 39
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.81 E-value=0.0049 Score=54.60 Aligned_cols=48 Identities=23% Similarity=0.558 Sum_probs=40.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhC---CC---ChHHHhhhCCCCCcccccccccccCC
Q 021071 11 IKGPWSPEEDEALQQLVQKHG---PR---NWSLISKSIPGRSGKSCRLRWCNQLS 59 (317)
Q Consensus 11 ~KG~WT~EED~~L~~lV~kyG---~~---nW~~IA~~lp~Rs~kqCr~Rw~n~L~ 59 (317)
++-.||.|||.+|.+.|.+|- .- -+..+++.+ +||..-|.-||+.++.
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VR 56 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVR 56 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHH
Confidence 456799999999999999993 11 278888888 9999999999998875
No 40
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.66 E-value=0.0084 Score=45.92 Aligned_cols=47 Identities=36% Similarity=0.561 Sum_probs=39.0
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CC-----------CChHHHhhhC-----CCCCcccccccccccC
Q 021071 12 KGPWSPEEDEALQQLVQKH-----GP-----------RNWSLISKSI-----PGRSGKSCRLRWCNQL 58 (317)
Q Consensus 12 KG~WT~EED~~L~~lV~ky-----G~-----------~nW~~IA~~l-----p~Rs~kqCr~Rw~n~L 58 (317)
+..||.+|.+.|+++|.+| +. .-|..|+..| +.|+..+|+.+|.++.
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 4679999999999999988 21 1299999988 4799999999998754
No 41
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.59 E-value=0.024 Score=63.13 Aligned_cols=100 Identities=15% Similarity=0.336 Sum_probs=78.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccc-------ccccc------C----------------------
Q 021071 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRL-------RWCNQ------L---------------------- 58 (317)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~-------Rw~n~------L---------------------- 58 (317)
.|+.-|=..++.+..+||..+...||..|.+++...++. ||..+ +
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~~ 905 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIGK 905 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 599999999999999999889999999998888876652 22211 0
Q ss_pred ---------------CCcccCCCCChHHHHHHHHHHHHcC-CChhhhhhh------------cCCCCHHHHHHHHHHHHh
Q 021071 59 ---------------SPQVEHRAFTPEEDEMIIRAHARFG-NKWATIARL------------LNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 59 ---------------~p~ikr~~WT~EED~~Li~lv~k~G-~kWs~IA~~------------lpgRT~~q~KnRw~~~lk 110 (317)
-+..++..||.|||..|+-.+.+|| .+|..|-.. |..||+..|..|.+.+++
T Consensus 906 k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~ 985 (1033)
T PLN03142 906 KLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIR 985 (1033)
T ss_pred HHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHH
Confidence 0123455799999999999999999 679998442 347999999999988886
Q ss_pred hhh
Q 021071 111 RKC 113 (317)
Q Consensus 111 rk~ 113 (317)
-..
T Consensus 986 ~~~ 988 (1033)
T PLN03142 986 LIE 988 (1033)
T ss_pred HHH
Confidence 653
No 42
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=95.19 E-value=0.029 Score=55.96 Aligned_cols=83 Identities=17% Similarity=0.341 Sum_probs=63.0
Q ss_pred CChHHHhhhCCCCCcccccccccccCCC-------------------------cccCCCCChHHHHHHHHHHHHcCCChh
Q 021071 33 RNWSLISKSIPGRSGKSCRLRWCNQLSP-------------------------QVEHRAFTPEEDEMIIRAHARFGNKWA 87 (317)
Q Consensus 33 ~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p-------------------------~ikr~~WT~EED~~Li~lv~k~G~kWs 87 (317)
+.|..+.=..+.|...-...||....++ .++-..||.+|-+-|++++++|.-+|-
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 3577666666667777677777655222 123356999999999999999999999
Q ss_pred hhhhh-----cCC-CCHHHHHHHHHHHHhhhhcc
Q 021071 88 TIARL-----LNG-RTDNAIKNHWNSTLKRKCSS 115 (317)
Q Consensus 88 ~IA~~-----lpg-RT~~q~KnRw~~~lkrk~~~ 115 (317)
.||.. ++. ||-.++|+||..+.++-+..
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kA 187 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKA 187 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHc
Confidence 99987 555 99999999998777665543
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.09 E-value=0.029 Score=42.91 Aligned_cols=48 Identities=25% Similarity=0.535 Sum_probs=39.1
Q ss_pred CCCCChHHHHHHHHHHHHc-----C--C----------ChhhhhhhcC-----CCCHHHHHHHHHHHHhh
Q 021071 64 HRAFTPEEDEMIIRAHARF-----G--N----------KWATIARLLN-----GRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~-----G--~----------kWs~IA~~lp-----gRT~~q~KnRw~~~lkr 111 (317)
...||.+|.++|++++.+| | . -|..|+..|. .||..+|+.+|..+...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 3579999999999999886 3 1 2999998762 49999999999776654
No 44
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.01 E-value=0.0088 Score=58.27 Aligned_cols=47 Identities=19% Similarity=0.383 Sum_probs=43.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCC
Q 021071 13 GPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLS 59 (317)
Q Consensus 13 G~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~ 59 (317)
-.|+.+|+-+|++.....|-+||..||.++..|....|+.+|..++.
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 35999999999999999999999999999999999999999987664
No 45
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.98 E-value=0.021 Score=51.18 Aligned_cols=50 Identities=20% Similarity=0.541 Sum_probs=39.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCC------hHHHhhhCCCCCcccccccccccCC
Q 021071 9 DRIKGPWSPEEDEALQQLVQKHGPRN------WSLISKSIPGRSGKSCRLRWCNQLS 59 (317)
Q Consensus 9 ~~~KG~WT~EED~~L~~lV~kyG~~n------W~~IA~~lp~Rs~kqCr~Rw~n~L~ 59 (317)
..++..||.|||.+|-+.|.+|+... ...++..+ +|+...|..||+.++.
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 34567899999999999999996432 55556666 9999999999976664
No 46
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=92.59 E-value=0.19 Score=42.43 Aligned_cols=52 Identities=19% Similarity=0.465 Sum_probs=40.5
Q ss_pred cccCCCCChHHHHHHHHHHHHcCC----Chhhhhhh------------cCCCCHHHHHHHHHHHHhhh
Q 021071 61 QVEHRAFTPEEDEMIIRAHARFGN----KWATIARL------------LNGRTDNAIKNHWNSTLKRK 112 (317)
Q Consensus 61 ~ikr~~WT~EED~~Li~lv~k~G~----kWs~IA~~------------lpgRT~~q~KnRw~~~lkrk 112 (317)
..++..||.+||.-|+-.+.+||- .|..|-.. +..||+..|..|-+.+++--
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i 113 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLI 113 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHH
Confidence 456788999999999999999996 59888764 34699999999998887643
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=92.12 E-value=0.24 Score=38.92 Aligned_cols=48 Identities=33% Similarity=0.619 Sum_probs=35.7
Q ss_pred CCChHHHHHHHHHHHHc---CC----------ChhhhhhhcCC-----CCHHHHHHHHHHHHhhhhc
Q 021071 66 AFTPEEDEMIIRAHARF---GN----------KWATIARLLNG-----RTDNAIKNHWNSTLKRKCS 114 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~---G~----------kWs~IA~~lpg-----RT~~q~KnRw~~~lkrk~~ 114 (317)
.||+++++.|++++.+. |+ .|..|+..|.. .|..+|++|| ..||+...
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~-~~lk~~y~ 66 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKW-KTLKKDYR 66 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHH-HHHHHHHH
Confidence 59999999999997543 21 29999988743 5789999999 55555544
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=91.95 E-value=0.21 Score=49.90 Aligned_cols=47 Identities=21% Similarity=0.311 Sum_probs=43.3
Q ss_pred CCCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 65 RAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 65 ~~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
.+||.+|-+++.++...+|..++.|+..||.|...|||.+|.+--|+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 48999999999999999999999999999999999999999765554
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=90.57 E-value=0.19 Score=50.28 Aligned_cols=43 Identities=28% Similarity=0.511 Sum_probs=40.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCccccccccccc
Q 021071 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQ 57 (317)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~ 57 (317)
+||.+|-+++.+++...| .++.+|+..+|+|..+|++.+|.+-
T Consensus 367 ~Ws~~e~ekFYKALs~wG-tdF~LIs~lfP~R~RkqIKaKfi~E 409 (507)
T COG5118 367 RWSKKEIEKFYKALSIWG-TDFSLISSLFPNRERKQIKAKFIKE 409 (507)
T ss_pred cccHHHHHHHHHHHHHhc-chHHHHHHhcCchhHHHHHHHHHHH
Confidence 799999999999999999 4699999999999999999999763
No 50
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=89.01 E-value=0.53 Score=45.93 Aligned_cols=49 Identities=20% Similarity=0.358 Sum_probs=38.2
Q ss_pred CCCCChHHHHHHHHHHHHc----------CCChhhhhhhcC----CCCHHHHHHHHHHHHhhh
Q 021071 64 HRAFTPEEDEMIIRAHARF----------GNKWATIARLLN----GRTDNAIKNHWNSTLKRK 112 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~----------G~kWs~IA~~lp----gRT~~q~KnRw~~~lkrk 112 (317)
...|+.+|-..||++..+. +.-|..||+.+. -||+.+||++|.++.++-
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 3689999999999886532 234999999552 499999999997766654
No 51
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=88.93 E-value=0.68 Score=47.31 Aligned_cols=49 Identities=20% Similarity=0.260 Sum_probs=44.2
Q ss_pred CCCCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhh
Q 021071 64 HRAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk 112 (317)
...||.||-.++-++...||.++++|-..||.|+-..|...|.+..|.+
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 4679999999999999999999999999999999999998887666554
No 52
>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=88.69 E-value=1 Score=31.73 Aligned_cols=42 Identities=26% Similarity=0.401 Sum_probs=31.7
Q ss_pred hHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 69 PEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 69 ~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
++++..++.++...|-.|..||..+ |.|...|+.+....+++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 3667788888889999999999999 99999999998766543
No 53
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=84.10 E-value=1.3 Score=35.08 Aligned_cols=31 Identities=42% Similarity=0.842 Sum_probs=18.1
Q ss_pred CCCCCCCCCHHHHHHH--------HHHHHHhCCCChHHHhhh
Q 021071 8 VDRIKGPWSPEEDEAL--------QQLVQKHGPRNWSLISKS 41 (317)
Q Consensus 8 ~~~~KG~WT~EED~~L--------~~lV~kyG~~nW~~IA~~ 41 (317)
+.-..|-||+|+|+.| ..++++|| +..|..+
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~R 81 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIERR 81 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHHH
Confidence 4566889999999999 55667777 5666543
No 54
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=83.01 E-value=3.3 Score=42.48 Aligned_cols=51 Identities=12% Similarity=0.068 Sum_probs=45.5
Q ss_pred CCCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhhhcc
Q 021071 65 RAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKCSS 115 (317)
Q Consensus 65 ~~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~~ 115 (317)
..|+-++.-+++..+++||...-.|+-.+...+=.++++-+...-|++.-.
T Consensus 370 ~~~~T~~~la~v~~I~~~~~~~~pl~wrik~t~cmee~e~l~~~~Rr~mfe 420 (534)
T KOG1194|consen 370 RCFDTPAALALIDNIKRKHHMCVPLVWRVKQTKCMEENEILNEEARRQMFE 420 (534)
T ss_pred cccCcHHHHHHHHHHHHhccCcchhhhHhcCcchhhHHHHHHHHHHHHHHH
Confidence 359999999999999999999999999998889999999998888887544
No 55
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=83.01 E-value=0.7 Score=45.07 Aligned_cols=46 Identities=24% Similarity=0.374 Sum_probs=37.5
Q ss_pred CCCCHHHHHHHHHHHHHh---------CCCChHHHhhhC----CCCCcccccccccccC
Q 021071 13 GPWSPEEDEALQQLVQKH---------GPRNWSLISKSI----PGRSGKSCRLRWCNQL 58 (317)
Q Consensus 13 G~WT~EED~~L~~lV~ky---------G~~nW~~IA~~l----p~Rs~kqCr~Rw~n~L 58 (317)
..|+.+|-..|+++.... ....|..||+.+ .-|++.||+.+|.|..
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 679999999999998644 123499999966 5799999999998854
No 56
>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=82.82 E-value=0.91 Score=35.54 Aligned_cols=43 Identities=26% Similarity=0.603 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------ChHHHhhhCC-----CCCcccccccccc
Q 021071 14 PWSPEEDEALQQLVQKH---GPR---------NWSLISKSIP-----GRSGKSCRLRWCN 56 (317)
Q Consensus 14 ~WT~EED~~L~~lV~ky---G~~---------nW~~IA~~lp-----~Rs~kqCr~Rw~n 56 (317)
.||+++++.|++++... |.+ .|..|+..|. ..+..||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999999655 322 2899998883 3445677777644
No 57
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=80.94 E-value=1.9 Score=36.44 Aligned_cols=34 Identities=35% Similarity=0.479 Sum_probs=28.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC---CChHHHhhhC
Q 021071 9 DRIKGPWSPEEDEALQQLVQKHGP---RNWSLISKSI 42 (317)
Q Consensus 9 ~~~KG~WT~EED~~L~~lV~kyG~---~nW~~IA~~l 42 (317)
...+..||.+||.-|+-.+.+||- ++|..|...+
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 556778999999999999999998 7899998865
No 58
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=80.88 E-value=0.81 Score=49.23 Aligned_cols=42 Identities=12% Similarity=0.406 Sum_probs=38.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccc
Q 021071 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCN 56 (317)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n 56 (317)
.||+.|..++.+++-.|. +|+.+|++.+++++.+||-+-|+.
T Consensus 621 ~WTp~E~~lF~kA~y~~~-KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 621 KWTPLERKLFNKALYTYS-KDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred cccHHHHHHHHHHHHHhc-ccHHHHHHHhccccHHHHHHHHHH
Confidence 599999999999999997 789999999999999999887644
No 59
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=78.40 E-value=2.9 Score=44.26 Aligned_cols=53 Identities=15% Similarity=0.340 Sum_probs=42.6
Q ss_pred cCCCCChHHHHHHHHHHHHcCCChhhhhh----------hcCCCCHHHHHHHHHHHHhhhhcc
Q 021071 63 EHRAFTPEEDEMIIRAHARFGNKWATIAR----------LLNGRTDNAIKNHWNSTLKRKCSS 115 (317)
Q Consensus 63 kr~~WT~EED~~Li~lv~k~G~kWs~IA~----------~lpgRT~~q~KnRw~~~lkrk~~~ 115 (317)
++..||-.|++.+..+.+++|.++.+|-+ ...-+|..+++.+|+.++++-+.-
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~ 149 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKL 149 (782)
T ss_pred cccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhh
Confidence 36789999999999999999999998832 233468889999998888775443
No 60
>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=77.96 E-value=6.2 Score=27.40 Aligned_cols=41 Identities=22% Similarity=0.291 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 70 EEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 70 EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
+++..|+.+.-..|..+..||..+ |-+...|+.+....+++
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 455666666666667899999999 99999999988777764
No 61
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=75.44 E-value=4.2 Score=44.01 Aligned_cols=45 Identities=11% Similarity=0.250 Sum_probs=40.8
Q ss_pred CCCCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHH
Q 021071 64 HRAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNST 108 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~ 108 (317)
...||+.|-.++-+++..|.+++-.|++.++++|-.+|-..|+..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 357999999999999999999999999999999999998877443
No 62
>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=72.45 E-value=10 Score=26.10 Aligned_cols=38 Identities=24% Similarity=0.398 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHcCCC-hhhhhhhcCCCCHHHHHHHHHHH
Q 021071 70 EEDEMIIRAHARFGNK-WATIARLLNGRTDNAIKNHWNST 108 (317)
Q Consensus 70 EED~~Li~lv~k~G~k-Ws~IA~~lpgRT~~q~KnRw~~~ 108 (317)
+=|..|+.+...-|.. |..||+.+ |=|...|..|++.+
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 4578899998888854 99999999 99999999998654
No 63
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=69.34 E-value=9.1 Score=32.95 Aligned_cols=46 Identities=15% Similarity=0.159 Sum_probs=39.2
Q ss_pred hHHHHHHHHHHHHcCC-ChhhhhhhcCCCCHHHHHHHHHHHHhhhhcc
Q 021071 69 PEEDEMIIRAHARFGN-KWATIARLLNGRTDNAIKNHWNSTLKRKCSS 115 (317)
Q Consensus 69 ~EED~~Li~lv~k~G~-kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~~ 115 (317)
++-|..|+.+.++-|. .|+.||+.+ |-+...|..|++.+...-+.+
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 3578889999888884 599999999 999999999998888776554
No 64
>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=68.89 E-value=5.4 Score=35.40 Aligned_cols=40 Identities=28% Similarity=0.275 Sum_probs=35.2
Q ss_pred CCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHH
Q 021071 66 AFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWN 106 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~ 106 (317)
.||+|+.+.|.+|. .-|..=++||+.|.+.|.|+|.-+.+
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhh
Confidence 59999999999887 77888999999997799999987653
No 65
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=68.00 E-value=1.6 Score=43.91 Aligned_cols=47 Identities=21% Similarity=0.349 Sum_probs=40.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChHHHhhh-----CCC-CCccccccccccc
Q 021071 10 RIKGPWSPEEDEALQQLVQKHGPRNWSLISKS-----IPG-RSGKSCRLRWCNQ 57 (317)
Q Consensus 10 ~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~-----lp~-Rs~kqCr~Rw~n~ 57 (317)
+.-..||+||-+-|..+.++|.-+ |..|+.. ++. ||....++||+..
T Consensus 128 l~dn~WskeETD~LF~lck~fDLR-f~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 128 LNDNSWSKEETDYLFDLCKRFDLR-FFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hccccccHHHHHHHHHHHHhcCee-EEEEeeccchhhccccccHHHHHHHHHHH
Confidence 344679999999999999999976 9999987 555 9999999999753
No 66
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=65.97 E-value=10 Score=34.91 Aligned_cols=45 Identities=22% Similarity=0.316 Sum_probs=35.8
Q ss_pred CCChHHHHHHHHHHHHcCCChhhhhhhc---CCCCHHHHHHHHHHHHhh
Q 021071 66 AFTPEEDEMIIRAHARFGNKWATIARLL---NGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~G~kWs~IA~~l---pgRT~~q~KnRw~~~lkr 111 (317)
.|++++|-+||.+| ..|+.-..|++-+ -.-|-..|..||+.+|=.
T Consensus 1 rW~~~DDl~Li~av-~~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd 48 (199)
T PF13325_consen 1 RWKPEDDLLLINAV-EQTNDLESVHLGVKFSCKFTLQEIEERWYALLYD 48 (199)
T ss_pred CCCchhhHHHHHHH-HHhcCHHHHHccCCcCCcCcHHHHHHHHHHHHcC
Confidence 49999999999998 6677777777643 246889999999988744
No 67
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=64.73 E-value=10 Score=33.07 Aligned_cols=46 Identities=9% Similarity=0.083 Sum_probs=39.2
Q ss_pred hHHHHHHHHHHHHcCC-ChhhhhhhcCCCCHHHHHHHHHHHHhhhhcc
Q 021071 69 PEEDEMIIRAHARFGN-KWATIARLLNGRTDNAIKNHWNSTLKRKCSS 115 (317)
Q Consensus 69 ~EED~~Li~lv~k~G~-kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~~ 115 (317)
.+-|..|+.+.++-|. .|+.||+.+ |-+...|..|++.+.+..+..
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 4568888888888885 599999999 999999999999888887654
No 68
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=64.60 E-value=15 Score=30.35 Aligned_cols=39 Identities=23% Similarity=0.249 Sum_probs=29.1
Q ss_pred HHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 72 DEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 72 D~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
+..++.+.-..|..+..||..+ |.+...|++++...+++
T Consensus 118 ~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 118 CRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344444445678899999999 99999999998665443
No 69
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=64.08 E-value=13 Score=30.29 Aligned_cols=48 Identities=17% Similarity=0.382 Sum_probs=32.3
Q ss_pred CCCCChHHHHHHHHHHHHc----CC----ChhhhhhhcCC-----CCHHHHHHHHHHHHhh
Q 021071 64 HRAFTPEEDEMIIRAHARF----GN----KWATIARLLNG-----RTDNAIKNHWNSTLKR 111 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~----G~----kWs~IA~~lpg-----RT~~q~KnRw~~~lkr 111 (317)
.+-||+|||..||+.+..| |. .|..+...+.+ =+.+|+.++.+.+-++
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 4569999999999998766 62 45555544433 2778888887444433
No 70
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=62.06 E-value=4.9 Score=42.61 Aligned_cols=46 Identities=13% Similarity=0.400 Sum_probs=34.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHhhhC----------CCCCcccccccccccC
Q 021071 12 KGPWSPEEDEALQQLVQKHGPRNWSLISKSI----------PGRSGKSCRLRWCNQL 58 (317)
Q Consensus 12 KG~WT~EED~~L~~lV~kyG~~nW~~IA~~l----------p~Rs~kqCr~Rw~n~L 58 (317)
|..||..|.+-+..+++++| +|+..|-+.+ .-++-.|+|.+|++.+
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~ 143 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLV 143 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHH
Confidence 66899999999999999999 7798883322 2345566777776544
No 71
>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=61.18 E-value=4 Score=32.29 Aligned_cols=17 Identities=41% Similarity=0.675 Sum_probs=9.8
Q ss_pred CcccCCCCChHHHHHHH
Q 021071 60 PQVEHRAFTPEEDEMII 76 (317)
Q Consensus 60 p~ikr~~WT~EED~~Li 76 (317)
|....|-||+++|+.|.
T Consensus 43 P~n~~GiWT~eDD~~L~ 59 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLR 59 (87)
T ss_dssp -TT-TT---HHHHHHHT
T ss_pred CCCCCCCcCHHHHHHHH
Confidence 44567889999999984
No 72
>smart00595 MADF subfamily of SANT domain.
Probab=60.33 E-value=7.6 Score=29.92 Aligned_cols=24 Identities=29% Similarity=0.577 Sum_probs=20.2
Q ss_pred ChhhhhhhcCCCCHHHHHHHHHHHH
Q 021071 85 KWATIARLLNGRTDNAIKNHWNSTL 109 (317)
Q Consensus 85 kWs~IA~~lpgRT~~q~KnRw~~~l 109 (317)
-|..||..| |-|..+|+.+|+++-
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR 52 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLR 52 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 399999999 559999999996553
No 73
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=58.62 E-value=12 Score=39.69 Aligned_cols=50 Identities=24% Similarity=0.393 Sum_probs=44.2
Q ss_pred cCCCCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhh
Q 021071 63 EHRAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (317)
Q Consensus 63 kr~~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk 112 (317)
....|+.+|-++..++....|.+.+.|+..+++|+..+||.+|..--++.
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r~ 457 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKRN 457 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhcc
Confidence 45689999999999999999999999999999999999999986544443
No 74
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=58.18 E-value=16 Score=36.02 Aligned_cols=86 Identities=24% Similarity=0.440 Sum_probs=62.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCC---ChHHHhhhCCCCCcccccccccccCCCcccCCCCChHHHHHHHHHHHH-c-----C
Q 021071 13 GPWSPEEDEALQQLVQKHGPR---NWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHAR-F-----G 83 (317)
Q Consensus 13 G~WT~EED~~L~~lV~kyG~~---nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k-~-----G 83 (317)
..||.-|...|+.+.+..... +-.+|++.+++|+..++++ |.++|+.. .+.+++++ | |
T Consensus 22 ~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~-fl~~LK~r------------vareaiqkv~~~g~~~ 88 (344)
T PF11035_consen 22 AAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRD-FLQQLKGR------------VAREAIQKVHPGGLKG 88 (344)
T ss_pred ccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHH-HHHHHHHH------------HHHHHHHHhccccccc
Confidence 369999999999999866323 4678999999999998866 34445322 24444443 2 2
Q ss_pred C------------ChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 84 N------------KWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 84 ~------------kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
. -|..+|+.+-|.-...+-.-|-+.|--
T Consensus 89 ~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~i 128 (344)
T PF11035_consen 89 PRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLTI 128 (344)
T ss_pred ccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHHH
Confidence 1 299999999999999998888766643
No 75
>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=58.03 E-value=5.5 Score=27.42 Aligned_cols=38 Identities=26% Similarity=0.448 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccc
Q 021071 18 EEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCN 56 (317)
Q Consensus 18 EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n 56 (317)
+=|.+|+.++...+...|..||+.+ |=+...|..|+..
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHH
Confidence 4588999999999999999999998 7888888888753
No 76
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=56.85 E-value=22 Score=28.41 Aligned_cols=38 Identities=18% Similarity=0.260 Sum_probs=28.4
Q ss_pred HHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 73 EMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 73 ~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
..++.++...|..+..||+.+ |=+...|+++.+..+++
T Consensus 116 ~~ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 116 REVLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HHHHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444445688899999999 78999999988765544
No 77
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=55.15 E-value=6.5 Score=45.50 Aligned_cols=44 Identities=30% Similarity=0.518 Sum_probs=35.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCccccccccc
Q 021071 11 IKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWC 55 (317)
Q Consensus 11 ~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~ 55 (317)
+...|+++|.+....=...+- +|...|+..+..++..+|..-|+
T Consensus 224 ~~n~Ws~~Ek~~fk~rf~~H~-knf~~~as~~erkSv~d~vlfyy 267 (1672)
T KOG1878|consen 224 RMNEWSPEEKELFKSRFAQHV-KNFGLIASFFERKSVSDCVLFYY 267 (1672)
T ss_pred HhhhccccccccccchhhhcC-cchhhhhhhhcccchhhceeeee
Confidence 345699999888877777775 67889999998899999987773
No 78
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=54.82 E-value=6.9 Score=33.72 Aligned_cols=45 Identities=11% Similarity=0.175 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcc
Q 021071 17 PEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQV 62 (317)
Q Consensus 17 ~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~i 62 (317)
.+-|.+|+.++++.|...|..||+.+ |-+...|+.|+++....++
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 36799999999999988999999999 8999999999988765554
No 79
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=54.47 E-value=9.5 Score=38.38 Aligned_cols=41 Identities=22% Similarity=0.329 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhh-hCCCCCccccccccc
Q 021071 14 PWSPEEDEALQQLVQKHGPRNWSLISK-SIPGRSGKSCRLRWC 55 (317)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~IA~-~lp~Rs~kqCr~Rw~ 55 (317)
-|+.+|-..+.+.++.|| +++.+|.. .++.|+...|-+-|+
T Consensus 279 ~wsEeEcr~FEegl~~yG-KDF~lIr~nkvrtRsvgElVeyYY 320 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYG-KDFHLIRANKVRTRSVGELVEYYY 320 (445)
T ss_pred cCCHHHHHHHHHHHHHhc-ccHHHHHhcccccchHHHHHHHHH
Confidence 599999999999999999 78999965 678999998877663
No 80
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=54.16 E-value=5.1 Score=34.98 Aligned_cols=45 Identities=22% Similarity=0.175 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcc
Q 021071 17 PEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQV 62 (317)
Q Consensus 17 ~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~i 62 (317)
.+-|.+|+.++++.|...|..||+.+ |=+...|+.|+++..+.++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 56799999999999989999999999 8899999999988776554
No 81
>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=53.62 E-value=22 Score=27.67 Aligned_cols=37 Identities=27% Similarity=0.482 Sum_probs=27.2
Q ss_pred HHHHHHHHcCC--------ChhhhhhhcCC---CC--HHHHHHHHHHHHh
Q 021071 74 MIIRAHARFGN--------KWATIARLLNG---RT--DNAIKNHWNSTLK 110 (317)
Q Consensus 74 ~Li~lv~k~G~--------kWs~IA~~lpg---RT--~~q~KnRw~~~lk 110 (317)
.|..+|.++|+ +|..||+.|.- -+ ..+++..|..+|.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 37777888874 59999999832 12 3678999988774
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=53.55 E-value=38 Score=22.11 Aligned_cols=40 Identities=15% Similarity=0.305 Sum_probs=28.7
Q ss_pred CChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHH
Q 021071 67 FTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNST 108 (317)
Q Consensus 67 WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~ 108 (317)
++++ +..++.++...|..+..||..+ |-+...|+.+.+..
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 4555566556778899999999 88888887776544
No 83
>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=52.83 E-value=30 Score=34.20 Aligned_cols=51 Identities=22% Similarity=0.327 Sum_probs=37.7
Q ss_pred CCCCChHHHHHHHHHHHH-cCCC---hhhhhhhcCCCCHHHHHHHHHHHHhhhhc
Q 021071 64 HRAFTPEEDEMIIRAHAR-FGNK---WATIARLLNGRTDNAIKNHWNSTLKRKCS 114 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k-~G~k---Ws~IA~~lpgRT~~q~KnRw~~~lkrk~~ 114 (317)
-..||.-|...|+++.+- .|.. -..|++.++||+..+|++.-+.+..+-..
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rvar 75 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVAR 75 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHHH
Confidence 457999999988887654 4654 46788899999999999976544444333
No 84
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=52.47 E-value=9 Score=31.92 Aligned_cols=45 Identities=20% Similarity=0.338 Sum_probs=28.5
Q ss_pred CCCHHHHHHHHHHHHHhC--------C----------------------CChHHHhhhCCCCCcccccccccccC
Q 021071 14 PWSPEEDEALQQLVQKHG--------P----------------------RNWSLISKSIPGRSGKSCRLRWCNQL 58 (317)
Q Consensus 14 ~WT~EED~~L~~lV~kyG--------~----------------------~nW~~IA~~lp~Rs~kqCr~Rw~n~L 58 (317)
+||++||-.|...|++|- . .-+...+...|..|..+-|+||.+.+
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv 75 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFV 75 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHH
Confidence 489999999999998771 0 01344555567777777777776655
No 85
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=49.04 E-value=36 Score=26.91 Aligned_cols=45 Identities=16% Similarity=0.191 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHcCC-ChhhhhhhcCCCCHHHHHHHHHHHHhhhhcc
Q 021071 70 EEDEMIIRAHARFGN-KWATIARLLNGRTDNAIKNHWNSTLKRKCSS 115 (317)
Q Consensus 70 EED~~Li~lv~k~G~-kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~~ 115 (317)
+.|..|+.+..+.|. .++.||+.+ |-+...|..+.+.+.+..+..
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 568888888888774 699999999 999999999998888876554
No 86
>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=48.56 E-value=38 Score=29.76 Aligned_cols=46 Identities=17% Similarity=0.244 Sum_probs=38.0
Q ss_pred cCCCCChHHHHHHHHHHHHcCCChhhhhhhcC-C---CCHHHHHHHHHHH
Q 021071 63 EHRAFTPEEDEMIIRAHARFGNKWATIARLLN-G---RTDNAIKNHWNST 108 (317)
Q Consensus 63 kr~~WT~EED~~Li~lv~k~G~kWs~IA~~lp-g---RT~~q~KnRw~~~ 108 (317)
.....|..|.+.|..|+.+||.++...+.-.. + .|..+|+.+.+.+
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 44568999999999999999999999997543 3 8999999887554
No 87
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=47.56 E-value=52 Score=33.37 Aligned_cols=56 Identities=20% Similarity=0.302 Sum_probs=42.3
Q ss_pred ccCCCCChHHHHHHHHHHHHcC---C-------------ChhhhhhhcC-----CCCHHHHHHHHHHHHhhhhcccc
Q 021071 62 VEHRAFTPEEDEMIIRAHARFG---N-------------KWATIARLLN-----GRTDNAIKNHWNSTLKRKCSSML 117 (317)
Q Consensus 62 ikr~~WT~EED~~Li~lv~k~G---~-------------kWs~IA~~lp-----gRT~~q~KnRw~~~lkrk~~~~~ 117 (317)
.--+.|+++=|+.+.++.+.|- . +=.-||+.+. .||.+||-.|-+.+-|+|..+.+
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq 150 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQ 150 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHH
Confidence 3457899999999999998873 1 2466787653 48899999998777777766654
No 88
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=46.74 E-value=23 Score=28.10 Aligned_cols=29 Identities=24% Similarity=0.471 Sum_probs=23.8
Q ss_pred HHHHHHHHHHcCCChhhhhhhcCCCCHHHH
Q 021071 72 DEMIIRAHARFGNKWATIARLLNGRTDNAI 101 (317)
Q Consensus 72 D~~Li~lv~k~G~kWs~IA~~lpgRT~~q~ 101 (317)
|+.|..+....|.+|..+|++| |=|..+|
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 5668888899999999999999 7666544
No 89
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=46.58 E-value=40 Score=28.40 Aligned_cols=32 Identities=13% Similarity=0.161 Sum_probs=24.6
Q ss_pred HHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHH
Q 021071 77 RAHARFGNKWATIARLLNGRTDNAIKNHWNSTL 109 (317)
Q Consensus 77 ~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~l 109 (317)
.+....|-.+..||..| |-+...|+++....+
T Consensus 138 ~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~ 169 (182)
T PRK09652 138 TLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAR 169 (182)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 33334577899999999 999999998875433
No 90
>PRK04217 hypothetical protein; Provisional
Probab=45.77 E-value=47 Score=27.72 Aligned_cols=46 Identities=17% Similarity=0.071 Sum_probs=35.9
Q ss_pred CCCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhh
Q 021071 65 RAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (317)
Q Consensus 65 ~~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk 112 (317)
...|++| ..++.+....|-....||+.+ |-+...|+.+++...++-
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3455665 577777777888999999999 999999999996644443
No 91
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=45.49 E-value=2.7e+02 Score=28.35 Aligned_cols=44 Identities=11% Similarity=0.146 Sum_probs=38.8
Q ss_pred CCCChHHHHHHHHHHHHcCCChhhhhh-hcCCCCHHHHHHHHHHH
Q 021071 65 RAFTPEEDEMIIRAHARFGNKWATIAR-LLNGRTDNAIKNHWNST 108 (317)
Q Consensus 65 ~~WT~EED~~Li~lv~k~G~kWs~IA~-~lpgRT~~q~KnRw~~~ 108 (317)
..|+++|-..+-+..+.||+++..|-. .++.|+--.|-..|+..
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 479999999999999999999999986 58999999998877443
No 92
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=45.15 E-value=41 Score=28.25 Aligned_cols=31 Identities=19% Similarity=0.221 Sum_probs=24.4
Q ss_pred HHHHcCCChhhhhhhcCCCCHHHHHHHHHHHH
Q 021071 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTL 109 (317)
Q Consensus 78 lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~l 109 (317)
++...|..+..||..| |-+...|+++.....
T Consensus 136 l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~ 166 (179)
T PRK11924 136 LRYVEGLSYREIAEIL-GVPVGTVKSRLRRAR 166 (179)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3334577899999999 999999999886543
No 93
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=44.65 E-value=39 Score=29.81 Aligned_cols=43 Identities=12% Similarity=0.108 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhhhc
Q 021071 70 EEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKCS 114 (317)
Q Consensus 70 EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~ 114 (317)
+++..++.+..-.|-.+..||..| |-+...|+.+|.... .++.
T Consensus 138 ~~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR-~~l~ 180 (185)
T PF07638_consen 138 PRQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR-AWLR 180 (185)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH-HHHH
Confidence 344455555556788999999999 999999999995554 4443
No 94
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=43.27 E-value=60 Score=26.29 Aligned_cols=48 Identities=17% Similarity=0.184 Sum_probs=39.4
Q ss_pred CCCCChHHHHHHHHHHHHcCCChhhhhhhcCCC-CHHHHHHHHHHHHhhh
Q 021071 64 HRAFTPEEDEMIIRAHARFGNKWATIARLLNGR-TDNAIKNHWNSTLKRK 112 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~G~kWs~IA~~lpgR-T~~q~KnRw~~~lkrk 112 (317)
+..||.|+-..+++++..-|..=+.||+.+ |- ..++++.+++.+....
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~~~~~ 53 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQLQKGG 53 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHHHHcc
Confidence 678999999999999999999899999999 75 7777777665555444
No 95
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=43.26 E-value=33 Score=39.54 Aligned_cols=71 Identities=15% Similarity=0.154 Sum_probs=45.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcccCCCCChHHHHHHHHHHHHc-CCChhhhh
Q 021071 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARF-GNKWATIA 90 (317)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k~-G~kWs~IA 90 (317)
-|..+||..|+-.|-+||-++|..|-.- ..-|.. =+..+...+..+.|=...-+.|+.+..++ +.+|.+..
T Consensus 1135 ~W~~e~Ds~LLiGI~khGygswe~Ir~D-----p~L~l~-dKi~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~~ 1206 (1373)
T KOG0384|consen 1135 DWGSEDDSMLLIGIFKHGYGSWEAIRLD-----PDLGLT-DKIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKKL 1206 (1373)
T ss_pred CCCchhhhhHhhhhhhcccccHHHhccC-----ccccch-hhhcccccCCchHHHHHHHHHHHHHHhhcccCCCchhh
Confidence 5999999999999999999999988431 111111 11222222445666677777777777766 44554433
No 96
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=42.30 E-value=47 Score=26.12 Aligned_cols=38 Identities=26% Similarity=0.427 Sum_probs=27.2
Q ss_pred HHHHHHHHcCC--------ChhhhhhhcCCC-----CHHHHHHHHHHHHhh
Q 021071 74 MIIRAHARFGN--------KWATIARLLNGR-----TDNAIKNHWNSTLKR 111 (317)
Q Consensus 74 ~Li~lv~k~G~--------kWs~IA~~lpgR-----T~~q~KnRw~~~lkr 111 (317)
.|..+|.+.|+ +|..|++.|.-. ....+|..|.++|..
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 36777878774 599999988332 356788888777653
No 97
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=42.13 E-value=51 Score=23.86 Aligned_cols=35 Identities=20% Similarity=0.390 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHH
Q 021071 70 EEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHW 105 (317)
Q Consensus 70 EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw 105 (317)
+.|+..+.++.+.|-.-..||+.+ ||+.+.|++..
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 344555667778999999999999 99999887753
No 98
>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=41.55 E-value=23 Score=26.29 Aligned_cols=26 Identities=27% Similarity=0.498 Sum_probs=20.1
Q ss_pred ChhhhhhhcCC-CCHHHHHHHHHHHHh
Q 021071 85 KWATIARLLNG-RTDNAIKNHWNSTLK 110 (317)
Q Consensus 85 kWs~IA~~lpg-RT~~q~KnRw~~~lk 110 (317)
-|..||..|.. -+.+.|+.||+++..
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHH
Confidence 39999999953 578899999966443
No 99
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=40.03 E-value=57 Score=28.66 Aligned_cols=33 Identities=24% Similarity=0.285 Sum_probs=25.4
Q ss_pred HHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHH
Q 021071 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNST 108 (317)
Q Consensus 75 Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~ 108 (317)
++.+....|-....||..| |-+...|++|+...
T Consensus 142 i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~ra 174 (192)
T PRK09643 142 ALVAVDMQGYSVADAARML-GVAEGTVKSRCARG 174 (192)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 3344445677899999999 99999999998443
No 100
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=39.93 E-value=36 Score=25.98 Aligned_cols=24 Identities=25% Similarity=0.506 Sum_probs=19.7
Q ss_pred HHHHHHHHHHhCCCChHHHhhhCCCCC
Q 021071 20 DEALQQLVQKHGPRNWSLISKSIPGRS 46 (317)
Q Consensus 20 D~~L~~lV~kyG~~nW~~IA~~lp~Rs 46 (317)
+.+|.++|+.|| |..+++.+.-|+
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~i~C 35 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERININC 35 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTTSSS
T ss_pred HHHHHHHHHHhC---HHHHHhhccccc
Confidence 578999999999 999999986554
No 101
>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=39.27 E-value=53 Score=22.16 Aligned_cols=34 Identities=29% Similarity=0.433 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHH
Q 021071 71 EDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHW 105 (317)
Q Consensus 71 ED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw 105 (317)
|.+.|.++..++|++....|+.| |=+...+..+-
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 66788899999999999999999 76666665554
No 102
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=38.92 E-value=57 Score=27.92 Aligned_cols=29 Identities=10% Similarity=0.032 Sum_probs=23.3
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
..|..+..||..| |-|...|+++.....+
T Consensus 150 ~~~~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T PRK09641 150 IEDLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred hhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3567899999999 9999999998754443
No 103
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=38.51 E-value=68 Score=26.74 Aligned_cols=31 Identities=16% Similarity=0.164 Sum_probs=24.7
Q ss_pred HHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 80 ARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 80 ~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
...|-.-..||..| |-+...|++|....+++
T Consensus 119 ~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 119 YWEDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred HHhcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34567799999999 99999999998655443
No 104
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=38.07 E-value=69 Score=27.38 Aligned_cols=40 Identities=18% Similarity=0.117 Sum_probs=30.2
Q ss_pred HHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhh
Q 021071 72 DEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (317)
Q Consensus 72 D~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk 112 (317)
+..++.+....|-....||..+ |-+...|+.+...-+++-
T Consensus 124 ~r~v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 124 ARAAFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3344455555678899999999 999999999986665543
No 105
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=37.72 E-value=70 Score=27.69 Aligned_cols=39 Identities=18% Similarity=0.008 Sum_probs=30.0
Q ss_pred HHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhhhc
Q 021071 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKCS 114 (317)
Q Consensus 75 Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~ 114 (317)
++.++...|-....||..| |-+...||.|...-+++-..
T Consensus 135 v~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~ 173 (178)
T PRK12529 135 AFLMATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLS 173 (178)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 3444445678899999999 99999999998766655433
No 106
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=37.37 E-value=52 Score=28.26 Aligned_cols=29 Identities=14% Similarity=0.208 Sum_probs=23.1
Q ss_pred cCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 82 FGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 82 ~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
.|-....||..+ |=|.+.|+++....+++
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466799999999 89999999998544443
No 107
>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=37.33 E-value=65 Score=27.33 Aligned_cols=33 Identities=15% Similarity=0.243 Sum_probs=25.0
Q ss_pred HHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 78 lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
++...|-....||..| |-|...|+++....+++
T Consensus 130 l~~~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 130 LRYYHDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334567899999999 88999999988655543
No 108
>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=37.06 E-value=69 Score=28.07 Aligned_cols=36 Identities=8% Similarity=-0.010 Sum_probs=27.0
Q ss_pred HHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 75 Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
++.++...|.....||..| |-+.+.|+.|....+++
T Consensus 139 v~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 139 VFMMREVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3344445577899999999 99999999998555443
No 109
>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=36.04 E-value=48 Score=26.25 Aligned_cols=29 Identities=24% Similarity=0.377 Sum_probs=23.1
Q ss_pred HHHHHHHHHHcCCChhhhhhhcCCCCHHHH
Q 021071 72 DEMIIRAHARFGNKWATIARLLNGRTDNAI 101 (317)
Q Consensus 72 D~~Li~lv~k~G~kWs~IA~~lpgRT~~q~ 101 (317)
|..|..+....|..|..+|+.| |=+...|
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 5567778888999999999999 6665544
No 110
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=35.84 E-value=40 Score=26.53 Aligned_cols=24 Identities=29% Similarity=0.581 Sum_probs=19.7
Q ss_pred HHHHcCCChhhhhhhcCCCCHHHHH
Q 021071 78 AHARFGNKWATIARLLNGRTDNAIK 102 (317)
Q Consensus 78 lv~k~G~kWs~IA~~lpgRT~~q~K 102 (317)
+....|.+|..+|++| |-+..+|.
T Consensus 13 ia~~iG~~Wk~Lar~L-Gls~~dI~ 36 (86)
T cd08318 13 FANKLGEDWKTLAPHL-EMKDKEIR 36 (86)
T ss_pred HHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 5577899999999999 87777663
No 111
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=35.79 E-value=18 Score=37.52 Aligned_cols=41 Identities=22% Similarity=0.416 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhh-CCCCCccccccccc
Q 021071 14 PWSPEEDEALQQLVQKHGPRNWSLISKS-IPGRSGKSCRLRWC 55 (317)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~IA~~-lp~Rs~kqCr~Rw~ 55 (317)
.|+..|-.++.+++++|| +++..|... +|.++-.++.+-|.
T Consensus 287 EWSasEanLFEeALeKyG-KDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 287 EWSASEANLFEEALEKYG-KDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hccchhhHHHHHHHHHhc-ccHHHHHHhhcchHHHHHHHHHHH
Confidence 599999999999999999 779999764 49999888876553
No 112
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=35.62 E-value=78 Score=26.89 Aligned_cols=35 Identities=23% Similarity=0.209 Sum_probs=26.3
Q ss_pred HHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 76 IRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 76 i~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
+.+....|-.-..||..| |.+...|+.|...-+++
T Consensus 127 l~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 127 LVRSYYRGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred HHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 333344577889999999 99999999998655543
No 113
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=35.25 E-value=70 Score=27.78 Aligned_cols=29 Identities=10% Similarity=0.091 Sum_probs=22.8
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
..|.....||..| |-+...|++|+...++
T Consensus 152 ~~g~s~~eIA~~l-gis~~tv~~~l~Rar~ 180 (193)
T PRK11923 152 FDGLSYEDIASVM-QCPVGTVRSRIFRARE 180 (193)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466799999999 8899999998754443
No 114
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=35.19 E-value=74 Score=27.78 Aligned_cols=31 Identities=19% Similarity=0.066 Sum_probs=24.7
Q ss_pred HHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 80 ARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 80 ~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
...|-....||..| |-+...|+++....+++
T Consensus 119 ~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 119 ELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred HhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34577899999999 99999999998655443
No 115
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=34.41 E-value=84 Score=26.30 Aligned_cols=34 Identities=15% Similarity=-0.028 Sum_probs=25.5
Q ss_pred HHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 77 RAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 77 ~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
.+....|-.-..||..| |-+...|++|....+++
T Consensus 116 ~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 116 LAHYLEEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred HHHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33344577899999999 99999999987544433
No 116
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=34.34 E-value=21 Score=37.87 Aligned_cols=48 Identities=23% Similarity=0.410 Sum_probs=42.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccc
Q 021071 8 VDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCN 56 (317)
Q Consensus 8 ~~~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n 56 (317)
.....++|+.+|-++........| .+.+.|+..++.|+.+|++..|.+
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~g-s~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERG-SDFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhc-ccccccccccccccHHHHHHHHhh
Confidence 345567899999999999999999 469999999999999999998754
No 117
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=34.15 E-value=84 Score=27.22 Aligned_cols=35 Identities=20% Similarity=0.209 Sum_probs=25.9
Q ss_pred HHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 76 IRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 76 i~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
+.+....|.....||..| |-+...|+.+....+++
T Consensus 148 ~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 148 LILRVVVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333334577899999999 99999999887654443
No 118
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=33.51 E-value=88 Score=27.17 Aligned_cols=34 Identities=9% Similarity=0.158 Sum_probs=25.7
Q ss_pred HHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhhhcc
Q 021071 80 ARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKCSS 115 (317)
Q Consensus 80 ~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~~ 115 (317)
...|-....||..| |-+...|++++...+ +++..
T Consensus 144 ~~~~~s~~eIA~~l-gis~~tV~~~l~Rar-~~Lr~ 177 (189)
T PRK12515 144 YYHEKSVEEVGEIV-GIPESTVKTRMFYAR-KKLAE 177 (189)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHH-HHHHH
Confidence 34577899999999 889999999985544 34333
No 119
>PRK13991 cell division topological specificity factor MinE; Provisional
Probab=33.45 E-value=64 Score=25.93 Aligned_cols=52 Identities=19% Similarity=0.332 Sum_probs=33.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHhhcccCCcceecCC-CCCCCccccccccccCC
Q 021071 264 GFSKEFMVVMQEMIKQEVRTYMAALEQQRGGACYHGS-GGGGDGVLRNVAMQRTG 317 (317)
Q Consensus 264 ~~~~~~~~~mqemi~~ev~~ym~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 317 (317)
..+|++|..|++=|-+=|+.||..++. ..+..+-. ......+.=|..++||+
T Consensus 33 ~~~p~~l~~lk~eil~VIsKYv~~Id~--~~i~V~l~~~~~~~~Le~NIpl~~~~ 85 (87)
T PRK13991 33 KLTPEMMEQMKADLAEVIKRYVPAIDA--EAIEVTLSRGEAHDHLKADIPLRRTT 85 (87)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhcccCc--cceEEEEEeCCCceEEEEEeEeeccc
Confidence 369999999999999999999986655 23333210 01223334466666653
No 120
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=33.40 E-value=64 Score=36.74 Aligned_cols=41 Identities=22% Similarity=0.444 Sum_probs=35.8
Q ss_pred CCChHHHHHHHHHHHHcC-CChhhhhhhcCCCCHHHHHHHHH
Q 021071 66 AFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWN 106 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~G-~kWs~IA~~lpgRT~~q~KnRw~ 106 (317)
.||.-|=..++.+..+|| .+-..||..+.|+|...|+.+..
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~ 867 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAK 867 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHH
Confidence 588888888999999999 55999999999999999986543
No 121
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=32.82 E-value=87 Score=27.40 Aligned_cols=29 Identities=3% Similarity=-0.135 Sum_probs=23.7
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
..|-....||..| |-+...||.|...-++
T Consensus 148 ~~g~s~~EIA~~l-gis~~tVk~~l~RAr~ 176 (189)
T PRK12530 148 YLELSSEQICQEC-DISTSNLHVLLYRARL 176 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 4577899999999 9999999998754443
No 122
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=32.71 E-value=58 Score=34.00 Aligned_cols=61 Identities=20% Similarity=0.321 Sum_probs=46.9
Q ss_pred HHHhhhCCCCCcccccccccccCCCcccCCCCChHHHHHHHHHHHHcCCChhhhhh-hcCCCCHHHHHHHHH
Q 021071 36 SLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNKWATIAR-LLNGRTDNAIKNHWN 106 (317)
Q Consensus 36 ~~IA~~lp~Rs~kqCr~Rw~n~L~p~ikr~~WT~EED~~Li~lv~k~G~kWs~IA~-~lpgRT~~q~KnRw~ 106 (317)
..|+..+|-=-..-||+ .-..|+..|-.++-++..+||.++..|-. +||-++-.+|-..|.
T Consensus 267 ~Ais~LVPlGGPvLCRD----------emEEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 267 KAISYLVPLGGPVLCRD----------EMEEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred HHHHHhhcCCCceeehh----------hhhhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 34455556555555665 33679999999999999999999999986 569999998876653
No 123
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=32.70 E-value=77 Score=27.11 Aligned_cols=28 Identities=11% Similarity=0.062 Sum_probs=22.4
Q ss_pred cCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 82 FGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 82 ~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
.|.....||..| |-+...|+++.....+
T Consensus 151 ~g~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T TIGR02948 151 EDLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 466789999999 8999999998854443
No 124
>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=32.69 E-value=40 Score=26.19 Aligned_cols=30 Identities=27% Similarity=0.530 Sum_probs=22.8
Q ss_pred HHHHHHHHHHcCCChhhhhhhcCCCCHHHHH
Q 021071 72 DEMIIRAHARFGNKWATIARLLNGRTDNAIK 102 (317)
Q Consensus 72 D~~Li~lv~k~G~kWs~IA~~lpgRT~~q~K 102 (317)
|..|..+....|.+|.++|++| |=+..+|.
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI~ 33 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDID 33 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHHH
Confidence 4456777788899999999999 66655443
No 125
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=32.48 E-value=89 Score=26.87 Aligned_cols=34 Identities=15% Similarity=0.135 Sum_probs=25.8
Q ss_pred HHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 77 RAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 77 ~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
.+....|.....||..| |-+...|+.+....+++
T Consensus 141 ~l~~~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 141 QSISVEGASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred HHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33334577899999999 99999999988655544
No 126
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=32.44 E-value=90 Score=27.38 Aligned_cols=34 Identities=12% Similarity=-0.034 Sum_probs=25.2
Q ss_pred HHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 77 RAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 77 ~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
.+....|-.+..||+.| |-+...|+++....+++
T Consensus 146 ~L~~~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 146 VLRHIEGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred HHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 33334577899999999 99999999887544433
No 127
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=32.05 E-value=94 Score=27.21 Aligned_cols=32 Identities=6% Similarity=0.017 Sum_probs=24.7
Q ss_pred HHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 79 HARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 79 v~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
....|-....||..| |-+...|+.|....+++
T Consensus 153 ~~~eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 153 VYLEELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred HHHcCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 334577899999999 99999999997554443
No 128
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=31.90 E-value=95 Score=26.81 Aligned_cols=34 Identities=26% Similarity=0.173 Sum_probs=26.2
Q ss_pred HHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 77 RAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 77 ~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
.++...|-....||+.| |.+...|+++....+++
T Consensus 139 ~l~~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 139 VHVKLEGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33445677899999999 99999999998554443
No 129
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=31.76 E-value=92 Score=26.00 Aligned_cols=46 Identities=13% Similarity=0.102 Sum_probs=37.7
Q ss_pred hHHHHHHHHHHHHcCC-ChhhhhhhcCCCCHHHHHHHHHHHHhhhhcc
Q 021071 69 PEEDEMIIRAHARFGN-KWATIARLLNGRTDNAIKNHWNSTLKRKCSS 115 (317)
Q Consensus 69 ~EED~~Li~lv~k~G~-kWs~IA~~lpgRT~~q~KnRw~~~lkrk~~~ 115 (317)
.+-|..|+++.++-+. .+..||+.+ |-+...|.+|-+.+.+.-+..
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIK 53 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCcee
Confidence 3567788888877775 499999999 999999999998888776544
No 130
>PRK00118 putative DNA-binding protein; Validated
Probab=31.46 E-value=1.1e+02 Score=25.26 Aligned_cols=40 Identities=13% Similarity=0.036 Sum_probs=32.1
Q ss_pred hHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHH
Q 021071 69 PEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTL 109 (317)
Q Consensus 69 ~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~l 109 (317)
++.+..++.+....|-....||+.+ |-|...|+.+.....
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RAr 58 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTE 58 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 4556667778778889999999999 999999988865433
No 131
>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=31.05 E-value=1e+02 Score=25.78 Aligned_cols=28 Identities=32% Similarity=0.373 Sum_probs=22.6
Q ss_pred cCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 82 FGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 82 ~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
.|-....||+.| |-+...|+++....++
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~ 164 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIK 164 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 467789999999 9999999988755443
No 132
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=30.93 E-value=63 Score=26.20 Aligned_cols=19 Identities=21% Similarity=0.358 Sum_probs=16.3
Q ss_pred CCCCCHHHHHHHHHHHHHh
Q 021071 12 KGPWSPEEDEALQQLVQKH 30 (317)
Q Consensus 12 KG~WT~EED~~L~~lV~ky 30 (317)
...||+|++-.|++.+..|
T Consensus 4 qR~WS~eDEi~iL~gl~~~ 22 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDF 22 (98)
T ss_pred cCCCCchHHHHHHHHHHHH
Confidence 3469999999999999887
No 133
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=30.81 E-value=86 Score=26.16 Aligned_cols=47 Identities=19% Similarity=0.381 Sum_probs=32.8
Q ss_pred CCChHHHHHHHHHHHHc------------CC-----------------C--hhhhhhhcCCCCHHHHHHHHHHHHhhh
Q 021071 66 AFTPEEDEMIIRAHARF------------GN-----------------K--WATIARLLNGRTDNAIKNHWNSTLKRK 112 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~------------G~-----------------k--Ws~IA~~lpgRT~~q~KnRw~~~lkrk 112 (317)
.||.+||..|...+.+| |. . ....+...|.+|.++=++||++.+..-
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~~ 78 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSEY 78 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHHH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHHc
Confidence 47999999999888654 11 1 456677788999999999998777654
No 134
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=30.45 E-value=1.1e+02 Score=25.25 Aligned_cols=29 Identities=17% Similarity=0.116 Sum_probs=23.0
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
..|.....||..+ |-+...|+++....++
T Consensus 120 ~~~~s~~EIA~~l-~is~~tV~~~~~ra~~ 148 (154)
T PRK06759 120 FVGKTMGEIALET-EMTYYQVRWIYRQALE 148 (154)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 4466789999999 9999999998755444
No 135
>PLN03162 golden-2 like transcription factor; Provisional
Probab=30.28 E-value=2.6e+02 Score=28.53 Aligned_cols=48 Identities=21% Similarity=0.271 Sum_probs=38.1
Q ss_pred CCCCChHHHHHHHHHHHHcCCC---hhhhhhhc--CCCCHHHHHHHHHHHHhh
Q 021071 64 HRAFTPEEDEMIIRAHARFGNK---WATIARLL--NGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 64 r~~WT~EED~~Li~lv~k~G~k---Ws~IA~~l--pgRT~~q~KnRw~~~lkr 111 (317)
|-.||+|=.+.+++++.+.|.. =+.|-+.| +|=|...|+.|.+++...
T Consensus 237 RLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~ 289 (526)
T PLN03162 237 KVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSH 289 (526)
T ss_pred cccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHh
Confidence 4579999999999999999932 56676665 789999999887655433
No 136
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=30.04 E-value=31 Score=27.33 Aligned_cols=44 Identities=20% Similarity=0.163 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcc
Q 021071 18 EEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQV 62 (317)
Q Consensus 18 EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~i 62 (317)
+.|.+|+.++.+.+...+..|++.+ +-+...|+.|..+..+.++
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 5788999999999888899999998 8888889888877665443
No 137
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=29.24 E-value=1.1e+02 Score=26.88 Aligned_cols=37 Identities=19% Similarity=0.148 Sum_probs=27.5
Q ss_pred HHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 73 EMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 73 ~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
..++.+....|-....||..| |-+...|+.|....++
T Consensus 122 r~i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~ 158 (187)
T PRK12516 122 REAIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQ 158 (187)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 334444445678899999999 9999999998754443
No 138
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=29.03 E-value=53 Score=22.47 Aligned_cols=37 Identities=30% Similarity=0.400 Sum_probs=18.9
Q ss_pred CCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHH
Q 021071 66 AFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNH 104 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnR 104 (317)
.||.+|=..|..++ .-|..-..||+.| ||+...|.+.
T Consensus 4 ~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~re 40 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSRE 40 (44)
T ss_dssp --------HHHHHH-CS---HHHHHHHT-T--HHHHHHH
T ss_pred chhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHHH
Confidence 46777777766664 6778889999999 9999888653
No 139
>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=28.81 E-value=53 Score=25.99 Aligned_cols=29 Identities=31% Similarity=0.517 Sum_probs=22.5
Q ss_pred HHHHHHHHcCCChhhhhhhcCCCCHHHHHH
Q 021071 74 MIIRAHARFGNKWATIARLLNGRTDNAIKN 103 (317)
Q Consensus 74 ~Li~lv~k~G~kWs~IA~~lpgRT~~q~Kn 103 (317)
.|-.+....|.+|..+|+.| |=+..+|..
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 34445577899999999999 888877765
No 140
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=28.75 E-value=94 Score=26.66 Aligned_cols=30 Identities=20% Similarity=0.217 Sum_probs=24.3
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
..|-....||..+ |-+...|++|....+++
T Consensus 133 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 162 (172)
T PRK09651 133 LDGLTYSEIAHKL-GVSVSSVKKYVAKATEH 162 (172)
T ss_pred ccCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 99999999998655544
No 141
>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=28.58 E-value=1.2e+02 Score=25.90 Aligned_cols=32 Identities=22% Similarity=0.275 Sum_probs=24.7
Q ss_pred HHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 78 lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
+....|-....||..| |-+...|+.|.....+
T Consensus 145 l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 176 (183)
T TIGR02999 145 LRFFAGLTVEEIAELL-GVSVRTVERDWRFARA 176 (183)
T ss_pred HHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 3334567899999999 9999999998865443
No 142
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=28.52 E-value=1.2e+02 Score=26.03 Aligned_cols=28 Identities=14% Similarity=0.135 Sum_probs=22.8
Q ss_pred cCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 82 FGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 82 ~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
.|-.-..||..| |.+...|+++....++
T Consensus 144 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~ 171 (179)
T PRK12514 144 EGLSYKELAERH-DVPLNTMRTWLRRSLL 171 (179)
T ss_pred cCCCHHHHHHHH-CCChHHHHHHHHHHHH
Confidence 466789999999 9999999998754443
No 143
>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=28.22 E-value=63 Score=24.55 Aligned_cols=29 Identities=28% Similarity=0.543 Sum_probs=20.6
Q ss_pred HHHHHHHHHH-cCCChhhhhhhcCCCCHHHH
Q 021071 72 DEMIIRAHAR-FGNKWATIARLLNGRTDNAI 101 (317)
Q Consensus 72 D~~Li~lv~k-~G~kWs~IA~~lpgRT~~q~ 101 (317)
++.|..+... .|++|..+|+.| |=+..+|
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKL-GLSEADI 34 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHc-CCCHHHH
Confidence 4456666666 799999999999 5455444
No 144
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=28.08 E-value=1.2e+02 Score=25.06 Aligned_cols=83 Identities=24% Similarity=0.248 Sum_probs=0.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCc-------ccCCCCChH------------
Q 021071 10 RIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQ-------VEHRAFTPE------------ 70 (317)
Q Consensus 10 ~~KG~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~-------ikr~~WT~E------------ 70 (317)
..+..||.|+-..++..+...| ..-..||+.+.- ..+-..+|.+.+... .....=+..
T Consensus 8 ~~rr~ys~EfK~~aV~~~~~~g-~sv~evA~e~gI--s~~tl~~W~r~y~~~~~~~~~~~~~~~~~~~~~~~~~ei~~L~ 84 (121)
T PRK09413 8 EKRRRRTTQEKIAIVQQSFEPG-MTVSLVARQHGV--AASQLFLWRKQYQEGSLTAVAAGEQVVPASELAAAMKQIKELQ 84 (121)
T ss_pred CCCCCCCHHHHHHHHHHHHcCC-CCHHHHHHHHCc--CHHHHHHHHHHHhhcccccccccccCCchhHHHHHHHHHHHHH
Q ss_pred --------HHHHHHHHHHHcC-CChhhhhhhcCC
Q 021071 71 --------EDEMIIRAHARFG-NKWATIARLLNG 95 (317)
Q Consensus 71 --------ED~~Li~lv~k~G-~kWs~IA~~lpg 95 (317)
|-+.|.++...++ .+|...+.+++|
T Consensus 85 ~el~~L~~E~diLKKa~~~~~~~~~~~~~~~~~~ 118 (121)
T PRK09413 85 RLLGKKTMENELLKEAVEYGRAKKWIAHAPLLPG 118 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHhchhhhhhcCCCCCC
No 145
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=27.86 E-value=1.1e+02 Score=26.60 Aligned_cols=32 Identities=16% Similarity=0.158 Sum_probs=25.1
Q ss_pred HHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhh
Q 021071 80 ARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (317)
Q Consensus 80 ~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk 112 (317)
...|-....||..| |-+...|+.|....+++-
T Consensus 143 ~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 174 (185)
T PRK09649 143 QLLGLSYADAAAVC-GCPVGTIRSRVARARDAL 174 (185)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34566799999999 999999999985555443
No 146
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=27.77 E-value=1.3e+02 Score=25.17 Aligned_cols=35 Identities=20% Similarity=0.110 Sum_probs=26.3
Q ss_pred HHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 75 Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
++.+..-.|-....||..+ |-+...|+.|...-++
T Consensus 121 v~~L~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~ 155 (161)
T PRK12528 121 AFLLAQVDGLGYGEIATEL-GISLATVKRYLNKAAM 155 (161)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3334444677899999999 9999999998865543
No 147
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=27.70 E-value=1.3e+02 Score=25.49 Aligned_cols=35 Identities=20% Similarity=0.184 Sum_probs=26.0
Q ss_pred HHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 76 IRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 76 i~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
+.++...|-....||..+ |-+...|+++.....++
T Consensus 121 ~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 155 (164)
T PRK12547 121 IILIGASGFSYEDAAAIC-GCAVGTIKSRVSRARNR 155 (164)
T ss_pred HHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 333334567899999999 99999999988555443
No 148
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=27.57 E-value=1.2e+02 Score=26.13 Aligned_cols=32 Identities=13% Similarity=0.352 Sum_probs=24.9
Q ss_pred HHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 78 lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
+...+|-....||..| |-+...|++|....++
T Consensus 133 l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 164 (185)
T PRK12542 133 YKVFYNLTYQEISSVM-GITEANVRKQFERARK 164 (185)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3344677899999999 9999999998754443
No 149
>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=27.04 E-value=45 Score=27.58 Aligned_cols=27 Identities=22% Similarity=0.195 Sum_probs=22.3
Q ss_pred CCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 83 GNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 83 G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
|-.+..||..| |-+...|++++....+
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 45799999999 9999999999855543
No 150
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=26.97 E-value=1.4e+02 Score=24.96 Aligned_cols=30 Identities=23% Similarity=0.288 Sum_probs=23.2
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
..|-.-..||..| |-+...|+.|....+++
T Consensus 119 ~~~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 119 LEGLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3456789999999 99999999997544433
No 151
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=26.89 E-value=1.2e+02 Score=26.49 Aligned_cols=31 Identities=10% Similarity=0.093 Sum_probs=24.0
Q ss_pred HHHHcCCChhhhhhhcCCCCHHHHHHHHHHHH
Q 021071 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTL 109 (317)
Q Consensus 78 lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~l 109 (317)
+....|-.-..||..| |-+...|+.|....+
T Consensus 147 L~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar 177 (195)
T PRK12532 147 LKEILGFSSDEIQQMC-GISTSNYHTIMHRAR 177 (195)
T ss_pred hHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 3334577899999999 999999998875433
No 152
>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=26.75 E-value=62 Score=25.20 Aligned_cols=33 Identities=36% Similarity=0.591 Sum_probs=24.5
Q ss_pred hHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHH
Q 021071 69 PEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKN 103 (317)
Q Consensus 69 ~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~Kn 103 (317)
+||-++|+..- ..|.+|..+|+.| |=+...|++
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 57777777322 5678999999999 777776654
No 153
>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=26.68 E-value=78 Score=28.06 Aligned_cols=39 Identities=26% Similarity=0.347 Sum_probs=29.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccc
Q 021071 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRW 54 (317)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw 54 (317)
.||+|+.++|.++... | ..-.+||+.|.+.|...+.-+.
T Consensus 2 ~Wtde~~~~L~~lw~~-G-~SasqIA~~lg~vsRnAViGk~ 40 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-G-LSASQIARQLGGVSRNAVIGKA 40 (162)
T ss_pred CCCHHHHHHHHHHHHc-C-CCHHHHHHHhCCcchhhhhhhh
Confidence 4999999999999854 4 3489999999656666554443
No 154
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=26.63 E-value=1.3e+02 Score=25.75 Aligned_cols=30 Identities=27% Similarity=0.279 Sum_probs=23.5
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
..|-.-..||..+ |-+...|+.+.+..+++
T Consensus 149 ~~~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 149 YQGYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466789999999 99999999987655443
No 155
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=26.43 E-value=36 Score=28.52 Aligned_cols=44 Identities=16% Similarity=0.142 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcc
Q 021071 18 EEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQV 62 (317)
Q Consensus 18 EED~~L~~lV~kyG~~nW~~IA~~lp~Rs~kqCr~Rw~n~L~p~i 62 (317)
+-|.+|++++++.+...+..||+.+ |-+...|+.|-++..+.++
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCc
Confidence 6689999999999989999999999 8899999999877665543
No 156
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=26.35 E-value=1.2e+02 Score=27.64 Aligned_cols=45 Identities=29% Similarity=0.336 Sum_probs=35.1
Q ss_pred CCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhhh
Q 021071 66 AFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKC 113 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk~ 113 (317)
..|+.|-+ +++++.+ |.....||+.| +-+...+|+|...+++|--
T Consensus 155 ~Lt~rE~~-Vl~l~~~-G~s~~eIA~~L-~iS~~TVk~~~~~i~~Kl~ 199 (216)
T PRK10100 155 LLTHREKE-ILNKLRI-GASNNEIARSL-FISENTVKTHLYNLFKKIA 199 (216)
T ss_pred CCCHHHHH-HHHHHHc-CCCHHHHHHHh-CCCHHHHHHHHHHHHHHhC
Confidence 47765555 4555545 98999999999 9999999999988877653
No 157
>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=26.06 E-value=71 Score=25.09 Aligned_cols=31 Identities=26% Similarity=0.461 Sum_probs=23.8
Q ss_pred HHHHHHHHHHcCCChhhhhhhcCCCCHHHHHH
Q 021071 72 DEMIIRAHARFGNKWATIARLLNGRTDNAIKN 103 (317)
Q Consensus 72 D~~Li~lv~k~G~kWs~IA~~lpgRT~~q~Kn 103 (317)
|..|-......|.+|..+|+.| |=+...|.+
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 3456666788899999999999 777766654
No 158
>PF09650 PHA_gran_rgn: Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); InterPro: IPR013433 Proteins in this entry are encoded by genes involved in either polyhydroxyalkanoic acid (PHA) biosynthesis or utilisation, including proteins at found at the surface of PHA granules. These proteins have so far been predominantly found in the Pseudomonadales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=25.72 E-value=86 Score=24.88 Aligned_cols=21 Identities=14% Similarity=0.219 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 021071 267 KEFMVVMQEMIKQEVRTYMAA 287 (317)
Q Consensus 267 ~~~~~~mqemi~~ev~~ym~~ 287 (317)
|-+|..|..+|..||+.++..
T Consensus 65 g~Ll~~f~~~Ie~~I~~~Ld~ 85 (87)
T PF09650_consen 65 GFLLSPFKGKIEQEIEKNLDK 85 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 568999999999999999864
No 159
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D
Probab=25.58 E-value=1.4e+02 Score=17.00 Aligned_cols=36 Identities=33% Similarity=0.361 Sum_probs=22.4
Q ss_pred CCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHH
Q 021071 66 AFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKN 103 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~Kn 103 (317)
.++.++-..++.++ .-|..+..|++.+ |.+...+.+
T Consensus 5 ~~~~~~~~~i~~~~-~~~~s~~~ia~~~-~is~~tv~~ 40 (42)
T cd00569 5 KLTPEQIEEARRLL-AAGESVAEIARRL-GVSRSTLYR 40 (42)
T ss_pred cCCHHHHHHHHHHH-HcCCCHHHHHHHH-CCCHHHHHH
Confidence 35554444444443 4566788999888 777666654
No 160
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=25.43 E-value=1.3e+02 Score=25.04 Aligned_cols=40 Identities=18% Similarity=0.179 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 71 EDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 71 ED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
++..++.+....|-.-..||..| |-+...|+++....+++
T Consensus 114 ~~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 114 RQRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34444555555677889999999 99999999998655544
No 161
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=25.38 E-value=1.4e+02 Score=26.44 Aligned_cols=29 Identities=14% Similarity=-0.073 Sum_probs=23.0
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
..|..-..||..| |.+...||.|....++
T Consensus 153 ~eg~s~~EIA~~l-gis~~tVk~~l~RAr~ 181 (201)
T PRK12545 153 FLDFEIDDICTEL-TLTANHCSVLLYRART 181 (201)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3466799999999 9999999998754433
No 162
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=24.88 E-value=1.5e+02 Score=25.65 Aligned_cols=31 Identities=29% Similarity=0.245 Sum_probs=24.4
Q ss_pred HHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 80 ARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 80 ~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
...|-.-..||..+ |-+...|+++....+++
T Consensus 146 ~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 176 (182)
T PRK12537 146 YVDGCSHAEIAQRL-GAPLGTVKAWIKRSLKA 176 (182)
T ss_pred HHcCCCHHHHHHHH-CCChhhHHHHHHHHHHH
Confidence 34567789999999 99999999998666544
No 163
>PRK01905 DNA-binding protein Fis; Provisional
Probab=24.83 E-value=1.6e+02 Score=22.55 Aligned_cols=35 Identities=17% Similarity=0.254 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHH
Q 021071 70 EEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHW 105 (317)
Q Consensus 70 EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw 105 (317)
-|.+.|.++...+|.++.+.|+.+ |=+...++.+.
T Consensus 37 ~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~rkl 71 (77)
T PRK01905 37 VEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRKKL 71 (77)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHH
Confidence 466778899999999999999998 66666555543
No 164
>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=24.56 E-value=1.6e+02 Score=25.16 Aligned_cols=35 Identities=26% Similarity=0.385 Sum_probs=25.7
Q ss_pred HHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 76 IRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 76 i~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
+.++...|-....||..| |-|...|+.+....+++
T Consensus 149 i~l~~~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 149 ILLRHLEGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred HHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 334344577899999999 99999999887554443
No 165
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=24.52 E-value=1.4e+02 Score=25.76 Aligned_cols=30 Identities=10% Similarity=0.006 Sum_probs=23.1
Q ss_pred HHcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 80 ARFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 80 ~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
.-.|-....||..| |-+.+.|+++....++
T Consensus 141 ~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 170 (186)
T PRK05602 141 YYQGLSNIEAAAVM-DISVDALESLLARGRR 170 (186)
T ss_pred HhcCCCHHHHHHHh-CcCHHHHHHHHHHHHH
Confidence 34567799999999 9999999988754443
No 166
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=24.46 E-value=1.3e+02 Score=26.43 Aligned_cols=35 Identities=17% Similarity=0.183 Sum_probs=26.2
Q ss_pred HHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 76 IRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 76 i~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
+.+....|-....||..| |-+...|+++....+++
T Consensus 122 ~~L~~~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~ 156 (188)
T PRK12546 122 LILVGASGFSYEEAAEMC-GVAVGTVKSRANRARAR 156 (188)
T ss_pred hhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334445677899999999 99999999987554433
No 167
>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=24.27 E-value=1.2e+02 Score=28.64 Aligned_cols=29 Identities=21% Similarity=0.290 Sum_probs=23.5
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
.+|-.-..||..| |.+...||+|....++
T Consensus 156 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 184 (324)
T TIGR02960 156 VLGWRAAETAELL-GTSTASVNSALQRARA 184 (324)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 4567899999999 9999999998754443
No 168
>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=24.03 E-value=63 Score=25.46 Aligned_cols=32 Identities=25% Similarity=0.404 Sum_probs=24.0
Q ss_pred HHHHHHHHHcCCChhhhhhhcCCCCH---HHHHHHH
Q 021071 73 EMIIRAHARFGNKWATIARLLNGRTD---NAIKNHW 105 (317)
Q Consensus 73 ~~Li~lv~k~G~kWs~IA~~lpgRT~---~q~KnRw 105 (317)
+.|..+..+.|.+|..++++| |=+. ..|+.+|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L-Glse~~Id~Ie~~~ 37 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL-GLSYRELQRIKYNN 37 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc-CCCHHHHHHHHHHC
Confidence 457788899999999999998 4333 3455555
No 169
>PRK12518 RNA polymerase sigma factor; Provisional
Probab=23.76 E-value=55 Score=27.85 Aligned_cols=27 Identities=15% Similarity=0.080 Sum_probs=21.4
Q ss_pred CCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 83 GNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 83 G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
|-.-..||..| |-+.+.|+++....++
T Consensus 136 g~s~~eIA~~l-g~s~~tv~~~l~Rar~ 162 (175)
T PRK12518 136 DLPQKEIAEIL-NIPVGTVKSRLFYARR 162 (175)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 45688999999 9999999998854443
No 170
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=23.64 E-value=1.6e+02 Score=25.52 Aligned_cols=30 Identities=13% Similarity=-0.092 Sum_probs=23.8
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
..|..-..||..| |-+...|++|....+++
T Consensus 145 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 174 (191)
T PRK12520 145 WLELETEEICQEL-QITATNAWVLLYRARMR 174 (191)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 99999999998555443
No 171
>KOG1049 consensus Polyadenylation factor I complex, subunit FIP1 [RNA processing and modification]
Probab=22.34 E-value=6.9e+02 Score=26.58 Aligned_cols=42 Identities=26% Similarity=0.237 Sum_probs=22.5
Q ss_pred CCcccccccccCCcccCCCCCCCCCCCCCCCCCCCeeeeeCCCCCC
Q 021071 183 NYNIYKPVARSGGINVDVNVVPEPETTSSSNDPPTSLSLSLPGVDS 228 (317)
Q Consensus 183 ~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~p~tslsLSlpg~~~ 228 (317)
++..+.|-+|.|+.++... .....+-+..+++..+.+||...
T Consensus 279 ~~~~~~~~~r~g~~~~~~~----~~~~p~~~a~p~~~~~~~~~~~~ 320 (538)
T KOG1049|consen 279 SSNSQAPGARSGSGEPSGM----SEPPPSMEAGPSQKERLPPGPEE 320 (538)
T ss_pred CCCccCccccCCCCCCCCC----CCCCCCcCCCCChhhccCCCcCC
Confidence 4456778888887765532 11222333444555555666553
No 172
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=22.27 E-value=1.8e+02 Score=25.28 Aligned_cols=30 Identities=37% Similarity=0.457 Sum_probs=23.3
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
..|..-..||..| |-+...|+++....+++
T Consensus 145 ~~g~s~~EIAe~l-gis~~~V~~~l~Ra~~~ 174 (189)
T PRK06811 145 LLGEKIEEIAKKL-GLTRSAIDNRLSRGRKK 174 (189)
T ss_pred HccCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466788999999 99999999987555444
No 173
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=22.19 E-value=1.8e+02 Score=25.43 Aligned_cols=30 Identities=20% Similarity=0.181 Sum_probs=22.8
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
..|-....||+.| |-+...|+++-...+++
T Consensus 156 ~~~~s~~EIA~~L-gis~~tVk~~l~ra~~~ 185 (194)
T PRK09646 156 YGGLTYREVAERL-AVPLGTVKTRMRDGLIR 185 (194)
T ss_pred HcCCCHHHHHHHh-CCChHhHHHHHHHHHHH
Confidence 3456789999999 88999999887544433
No 174
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=22.17 E-value=1.8e+02 Score=23.40 Aligned_cols=35 Identities=11% Similarity=0.110 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHH
Q 021071 70 EEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHW 105 (317)
Q Consensus 70 EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw 105 (317)
-|...|..+...+|.++.+.|+.| |=+...++.+-
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L-GIsRsTL~rKL 89 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML-GINRGTLRKKL 89 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHH
Confidence 467788899999999999999999 66666555443
No 175
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=22.11 E-value=92 Score=28.29 Aligned_cols=28 Identities=14% Similarity=0.160 Sum_probs=22.4
Q ss_pred cCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 82 FGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 82 ~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
.|-....||..| |-+...|++++...++
T Consensus 164 ~g~s~~EIAe~l-gis~~tVk~~l~Rar~ 191 (231)
T PRK11922 164 EELSVEETAQAL-GLPEETVKTRLHRARR 191 (231)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 356789999999 9999999999854443
No 176
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=21.45 E-value=1.7e+02 Score=26.64 Aligned_cols=38 Identities=13% Similarity=0.266 Sum_probs=27.5
Q ss_pred HHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 73 EMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 73 ~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
..++.++...|-....||..+ |-+...|+.+....+++
T Consensus 190 r~vl~l~~~~g~s~~EIA~~l-gis~~tV~~~~~ra~~~ 227 (236)
T PRK06986 190 QLVLSLYYQEELNLKEIGAVL-GVSESRVSQIHSQAIKR 227 (236)
T ss_pred HHHHHhHhccCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444444566799999999 99999999887655544
No 177
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=21.26 E-value=1.5e+02 Score=25.67 Aligned_cols=29 Identities=24% Similarity=0.149 Sum_probs=22.0
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lk 110 (317)
..|-.-..||..| |-+...|+.+....++
T Consensus 155 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~ 183 (194)
T PRK12519 155 YEGLSQSEIAKRL-GIPLGTVKARARQGLL 183 (194)
T ss_pred hcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 3466788999999 8899999987654443
No 178
>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=21.04 E-value=1e+02 Score=24.48 Aligned_cols=26 Identities=23% Similarity=0.349 Sum_probs=20.0
Q ss_pred HHHHHHHHHHcCCChhhhhhhcCCCCH
Q 021071 72 DEMIIRAHARFGNKWATIARLLNGRTD 98 (317)
Q Consensus 72 D~~Li~lv~k~G~kWs~IA~~lpgRT~ 98 (317)
|..|-......|.+|.++|+.| |=+.
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~ 29 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSV 29 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCH
Confidence 4456677788999999999998 4333
No 179
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=20.98 E-value=1.7e+02 Score=26.42 Aligned_cols=45 Identities=24% Similarity=0.273 Sum_probs=36.1
Q ss_pred CCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhhh
Q 021071 66 AFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKC 113 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk~ 113 (317)
..|+.|-+.|.-+ -.|-.=+.||..| +.+...||+|..++++|--
T Consensus 148 ~LT~RE~eVL~ll--a~G~snkeIA~~L-~iS~~TVk~h~~~i~~KL~ 192 (211)
T COG2197 148 LLTPRELEVLRLL--AEGLSNKEIAEEL-NLSEKTVKTHVSNILRKLG 192 (211)
T ss_pred CCCHHHHHHHHHH--HCCCCHHHHHHHH-CCCHhHHHHHHHHHHHHcC
Confidence 5788777765544 3566778999999 9999999999999988753
No 180
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=20.91 E-value=2e+02 Score=20.20 Aligned_cols=44 Identities=25% Similarity=0.305 Sum_probs=31.5
Q ss_pred CCChHHHHHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHHHHHHhhh
Q 021071 66 AFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (317)
Q Consensus 66 ~WT~EED~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkrk 112 (317)
.+|+.|-+.|.-+ --|..=..||..+ |.+...|+.+...+.++-
T Consensus 3 ~LT~~E~~vl~~l--~~G~~~~eIA~~l-~is~~tV~~~~~~i~~Kl 46 (58)
T PF00196_consen 3 SLTERELEVLRLL--AQGMSNKEIAEEL-GISEKTVKSHRRRIMKKL 46 (58)
T ss_dssp SS-HHHHHHHHHH--HTTS-HHHHHHHH-TSHHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHH--HhcCCcchhHHhc-CcchhhHHHHHHHHHHHh
Confidence 3566666644433 4577788999999 999999999997777664
No 181
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=20.62 E-value=1.1e+02 Score=24.03 Aligned_cols=27 Identities=26% Similarity=0.498 Sum_probs=19.8
Q ss_pred HHHHHHHcCCChhhhhhhcCCCCHHHHH
Q 021071 75 IIRAHARFGNKWATIARLLNGRTDNAIK 102 (317)
Q Consensus 75 Li~lv~k~G~kWs~IA~~lpgRT~~q~K 102 (317)
+-.+....|.+|..+|+.| |=|..+|.
T Consensus 5 f~~i~~~lG~~Wk~laR~L-Glse~~Id 31 (86)
T cd08306 5 FDVICENVGRDWRKLARKL-GLSETKIE 31 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 3344556799999999999 76766554
No 182
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=20.59 E-value=2e+02 Score=25.68 Aligned_cols=30 Identities=17% Similarity=0.200 Sum_probs=23.4
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
..|..-..||..| |-+...|+++.....++
T Consensus 152 ~~g~s~~EIA~~L-gis~~tV~~~l~RArk~ 181 (203)
T PRK09647 152 IEGLSYEEIAATL-GVKLGTVRSRIHRGRQQ 181 (203)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 99999999988555433
No 183
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=20.38 E-value=1.8e+02 Score=25.01 Aligned_cols=30 Identities=17% Similarity=0.145 Sum_probs=22.9
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
-.|..-..||..| |-+...|+.|....+++
T Consensus 141 ~~g~s~~EIA~~l-~is~~tv~~~l~Ra~~~ 170 (179)
T PRK09415 141 YEELSIKEIAEVT-GVNENTVKTRLKKAKEL 170 (179)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3456788999999 78999999988655543
No 184
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=20.15 E-value=1.2e+02 Score=20.59 Aligned_cols=31 Identities=26% Similarity=0.280 Sum_probs=20.6
Q ss_pred HHHHHHHHHcCCChhhhhhhcCCCCHHHHHHHH
Q 021071 73 EMIIRAHARFGNKWATIARLLNGRTDNAIKNHW 105 (317)
Q Consensus 73 ~~Li~lv~k~G~kWs~IA~~lpgRT~~q~KnRw 105 (317)
..++.++.. |.....||+.| |-+...|.+..
T Consensus 8 ~~ii~l~~~-G~s~~~ia~~l-gvs~~Tv~~w~ 38 (50)
T PF13384_consen 8 AQIIRLLRE-GWSIREIAKRL-GVSRSTVYRWI 38 (50)
T ss_dssp --HHHHHHH-T--HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHC-CCCHHHHHHHH-CcCHHHHHHHH
Confidence 346666666 99999999999 88888777653
No 185
>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=20.14 E-value=68 Score=24.53 Aligned_cols=18 Identities=11% Similarity=0.383 Sum_probs=14.6
Q ss_pred HHHHHHHHcCCChhhhhh
Q 021071 74 MIIRAHARFGNKWATIAR 91 (317)
Q Consensus 74 ~Li~lv~k~G~kWs~IA~ 91 (317)
.|.+|.+.||++|.-|-.
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 467788899999998864
No 186
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=20.12 E-value=92 Score=26.47 Aligned_cols=30 Identities=20% Similarity=0.478 Sum_probs=22.9
Q ss_pred HcCCChhhhhhhcCCCCHHHHHHHHHHHHhh
Q 021071 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (317)
Q Consensus 81 k~G~kWs~IA~~lpgRT~~q~KnRw~~~lkr 111 (317)
.+|.....||..| |-+...|+.+....+++
T Consensus 140 ~~g~s~~eIA~~l-~is~~~V~~~l~ra~~~ 169 (176)
T PRK09638 140 YYGYTYEEIAKML-NIPEGTVKSRVHHGIKQ 169 (176)
T ss_pred hcCCCHHHHHHHH-CCChhHHHHHHHHHHHH
Confidence 3567899999999 88999998887544433
Done!