Query 023744
Match_columns 278
No_of_seqs 237 out of 1242
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 06:20:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023744.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023744hhsearch_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 9.3E-35 2E-39 263.4 9.3 111 7-117 4-115 (238)
2 PLN03212 Transcription repress 100.0 2.9E-32 6.3E-37 245.7 11.4 112 6-117 19-131 (249)
3 PLN03091 hypothetical protein; 100.0 5.4E-31 1.2E-35 252.9 11.6 111 7-117 9-120 (459)
4 KOG0049 Transcription factor, 99.7 1.5E-18 3.3E-23 172.6 5.3 104 2-105 350-457 (939)
5 KOG0049 Transcription factor, 99.7 4.6E-18 9.9E-23 169.2 7.8 115 1-115 242-412 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.7 1E-16 2.2E-21 115.4 5.0 60 15-75 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.6 1.2E-15 2.7E-20 150.9 7.2 109 6-114 14-122 (512)
8 KOG0050 mRNA splicing protein 99.5 9.9E-15 2.1E-19 142.7 3.6 105 10-115 5-109 (617)
9 PF00249 Myb_DNA-binding: Myb- 99.4 4.2E-14 9.2E-19 97.9 1.8 47 12-58 1-48 (48)
10 KOG0051 RNA polymerase I termi 99.4 4.7E-13 1E-17 134.1 6.3 104 11-116 383-514 (607)
11 PF00249 Myb_DNA-binding: Myb- 99.4 4.4E-13 9.5E-18 92.7 4.1 46 64-109 1-48 (48)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.2 6.5E-12 1.4E-16 90.2 3.1 47 67-113 1-47 (60)
13 smart00717 SANT SANT SWI3, AD 99.2 2.4E-11 5.3E-16 81.6 4.2 47 64-110 1-48 (49)
14 smart00717 SANT SANT SWI3, AD 99.1 4E-11 8.6E-16 80.6 3.7 48 12-59 1-48 (49)
15 PLN03212 Transcription repress 99.1 1.2E-11 2.5E-16 112.5 1.0 58 2-60 68-125 (249)
16 PLN03091 hypothetical protein; 99.1 3.1E-11 6.6E-16 117.2 1.6 58 2-60 57-114 (459)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 2E-10 4.3E-15 76.1 4.1 44 66-109 1-45 (45)
18 KOG0051 RNA polymerase I termi 99.0 2.8E-10 6.1E-15 114.4 5.5 101 11-112 307-431 (607)
19 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 3E-10 6.5E-15 75.2 3.4 44 14-57 1-44 (45)
20 KOG0048 Transcription factor, 98.9 5.7E-10 1.2E-14 101.5 3.2 56 2-58 52-107 (238)
21 COG5147 REB1 Myb superfamily p 98.2 8.8E-07 1.9E-11 88.5 2.4 108 2-111 62-169 (512)
22 TIGR01557 myb_SHAQKYF myb-like 97.9 1.9E-05 4E-10 57.1 4.7 49 63-111 2-56 (57)
23 KOG0457 Histone acetyltransfer 97.6 2.9E-05 6.4E-10 75.7 2.8 51 8-58 68-118 (438)
24 KOG0457 Histone acetyltransfer 97.6 7.6E-05 1.7E-09 72.8 4.7 50 62-111 70-120 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.6 7.4E-05 1.6E-09 53.9 3.3 47 12-58 3-54 (57)
26 TIGR02894 DNA_bind_RsfA transc 97.5 6.2E-05 1.3E-09 64.8 2.7 53 63-116 3-62 (161)
27 KOG0050 mRNA splicing protein 97.4 7.4E-05 1.6E-09 74.3 2.4 57 62-118 5-62 (617)
28 PF13325 MCRS_N: N-terminal re 97.3 0.00045 9.7E-09 61.7 6.3 99 14-114 1-131 (199)
29 COG5259 RSC8 RSC chromatin rem 97.0 0.00052 1.1E-08 67.7 2.9 46 11-57 278-323 (531)
30 PF08914 Myb_DNA-bind_2: Rap1 97.0 0.00071 1.5E-08 50.1 3.0 50 64-113 2-61 (65)
31 PRK13923 putative spore coat p 96.7 0.00086 1.9E-08 58.5 2.3 53 63-116 4-63 (170)
32 KOG1279 Chromatin remodeling f 96.7 0.0011 2.5E-08 66.5 3.4 49 8-57 249-297 (506)
33 TIGR02894 DNA_bind_RsfA transc 96.7 0.001 2.2E-08 57.4 2.2 48 11-59 3-56 (161)
34 PF08914 Myb_DNA-bind_2: Rap1 96.6 0.00077 1.7E-08 49.9 1.1 50 12-61 2-60 (65)
35 KOG1279 Chromatin remodeling f 96.5 0.0022 4.8E-08 64.5 3.8 44 63-106 252-295 (506)
36 PF13837 Myb_DNA-bind_4: Myb/S 96.5 0.0013 2.8E-08 50.1 1.6 48 64-111 1-66 (90)
37 COG5259 RSC8 RSC chromatin rem 96.3 0.0024 5.3E-08 63.1 2.6 43 64-106 279-321 (531)
38 KOG2656 DNA methyltransferase 96.0 0.012 2.6E-07 57.2 5.8 84 33-116 74-188 (445)
39 PF13873 Myb_DNA-bind_5: Myb/S 95.9 0.0069 1.5E-07 45.3 2.8 47 12-58 2-69 (78)
40 PF13837 Myb_DNA-bind_4: Myb/S 95.8 0.0029 6.2E-08 48.2 0.4 46 13-58 2-64 (90)
41 COG5114 Histone acetyltransfer 95.7 0.0075 1.6E-07 57.4 2.9 47 64-110 63-110 (432)
42 PRK13923 putative spore coat p 95.4 0.0056 1.2E-07 53.4 0.9 50 9-59 2-57 (170)
43 PLN03142 Probable chromatin-re 95.3 0.038 8.2E-07 60.2 6.7 99 14-112 826-987 (1033)
44 COG5114 Histone acetyltransfer 95.1 0.0084 1.8E-07 57.0 1.1 47 13-59 64-110 (432)
45 PF13873 Myb_DNA-bind_5: Myb/S 94.6 0.035 7.6E-07 41.4 3.2 48 64-111 2-71 (78)
46 PF12776 Myb_DNA-bind_3: Myb/S 91.0 0.34 7.3E-06 37.2 4.0 48 66-114 1-66 (96)
47 PF09111 SLIDE: SLIDE; InterP 90.6 0.27 5.8E-06 40.6 3.3 51 61-111 46-112 (118)
48 COG5118 BDP1 Transcription ini 89.8 0.26 5.6E-06 48.1 2.9 43 14-57 367-409 (507)
49 COG5118 BDP1 Transcription ini 89.7 0.34 7.3E-06 47.3 3.6 47 65-111 366-412 (507)
50 KOG1194 Predicted DNA-binding 89.2 0.46 9.9E-06 47.4 4.1 49 64-112 187-235 (534)
51 PF11626 Rap1_C: TRF2-interact 89.2 0.5 1.1E-05 36.5 3.6 31 8-41 43-81 (87)
52 PF08281 Sigma70_r4_2: Sigma-7 88.5 0.66 1.4E-05 31.9 3.5 42 69-111 12-53 (54)
53 KOG4282 Transcription factor G 87.5 0.51 1.1E-05 45.0 3.2 49 64-112 54-116 (345)
54 PF09111 SLIDE: SLIDE; InterP 83.0 1.4 3.1E-05 36.2 3.4 34 9-42 46-82 (118)
55 KOG4282 Transcription factor G 82.1 0.71 1.5E-05 44.0 1.5 46 13-58 55-113 (345)
56 PF12776 Myb_DNA-bind_3: Myb/S 80.1 1.5 3.2E-05 33.5 2.4 43 14-56 1-60 (96)
57 KOG4167 Predicted DNA-binding 79.8 1.2 2.5E-05 47.0 2.2 42 14-56 621-662 (907)
58 KOG4468 Polycomb-group transcr 76.8 3 6.4E-05 43.1 4.0 53 64-116 88-150 (782)
59 PF04545 Sigma70_r4: Sigma-70, 74.1 5.3 0.00012 27.0 3.6 41 70-111 7-47 (50)
60 KOG4167 Predicted DNA-binding 72.9 3.9 8.5E-05 43.2 3.8 45 65-109 620-664 (907)
61 KOG4329 DNA-binding protein [G 72.4 48 0.001 32.7 10.8 45 65-109 278-323 (445)
62 KOG1194 Predicted DNA-binding 68.2 4.2 9.1E-05 40.8 2.7 46 11-57 186-231 (534)
63 PF13325 MCRS_N: N-terminal re 63.3 9.9 0.00021 34.2 3.9 45 66-111 1-48 (199)
64 PF13404 HTH_AsnC-type: AsnC-t 62.0 5 0.00011 26.9 1.4 38 18-56 3-40 (42)
65 PRK11179 DNA-binding transcrip 61.4 11 0.00023 31.8 3.7 46 69-115 8-54 (153)
66 PF13404 HTH_AsnC-type: AsnC-t 60.4 14 0.00031 24.6 3.4 38 70-108 3-41 (42)
67 TIGR02985 Sig70_bacteroi1 RNA 59.0 14 0.00031 29.8 4.0 40 71-111 117-156 (161)
68 KOG4468 Polycomb-group transcr 58.9 9.7 0.00021 39.6 3.4 45 12-57 88-142 (782)
69 PRK11179 DNA-binding transcrip 56.1 7.2 0.00016 32.8 1.7 44 18-62 9-52 (153)
70 PRK11169 leucine-responsive tr 55.4 13 0.00028 31.7 3.2 46 69-115 13-59 (164)
71 KOG2009 Transcription initiati 55.3 17 0.00037 37.6 4.5 50 63-112 408-457 (584)
72 PRK11169 leucine-responsive tr 53.9 5.9 0.00013 33.7 0.9 45 17-62 13-57 (164)
73 PF04504 DUF573: Protein of un 53.7 16 0.00034 29.0 3.2 48 64-111 4-64 (98)
74 PF11626 Rap1_C: TRF2-interact 53.3 4.1 8.8E-05 31.4 -0.2 17 60-76 43-59 (87)
75 PF07750 GcrA: GcrA cell cycle 52.8 10 0.00022 32.8 2.2 40 66-106 2-41 (162)
76 PF09905 DUF2132: Uncharacteri 52.3 19 0.0004 26.7 3.1 44 20-75 12-62 (64)
77 PF09197 Rap1-DNA-bind: Rap1, 51.8 11 0.00024 30.6 2.0 45 14-58 1-75 (105)
78 KOG2656 DNA methyltransferase 49.5 5.3 0.00012 39.3 -0.1 45 12-57 130-180 (445)
79 PF01388 ARID: ARID/BRIGHT DNA 47.3 20 0.00044 27.2 2.9 37 74-110 40-89 (92)
80 TIGR02937 sigma70-ECF RNA poly 45.4 27 0.00059 27.2 3.5 39 72-111 115-153 (158)
81 smart00595 MADF subfamily of S 45.0 12 0.00025 28.1 1.2 23 86-109 30-52 (89)
82 KOG3841 TEF-1 and related tran 44.3 1.3E+02 0.0027 30.0 8.2 57 62-118 74-151 (455)
83 cd06171 Sigma70_r4 Sigma70, re 43.6 40 0.00088 21.4 3.6 40 67-108 11-50 (55)
84 PF11035 SnAPC_2_like: Small n 43.4 28 0.00061 33.5 3.7 85 13-110 22-127 (344)
85 KOG4329 DNA-binding protein [G 42.2 21 0.00045 35.1 2.6 40 14-54 279-319 (445)
86 smart00501 BRIGHT BRIGHT, ARID 41.1 36 0.00077 26.1 3.4 38 74-111 36-86 (93)
87 PRK09652 RNA polymerase sigma 38.9 41 0.00088 27.7 3.7 35 76-111 137-171 (182)
88 PF04504 DUF573: Protein of un 38.2 47 0.001 26.2 3.7 68 12-80 4-93 (98)
89 PF07750 GcrA: GcrA cell cycle 38.1 38 0.00082 29.3 3.4 39 14-54 2-40 (162)
90 PRK04217 hypothetical protein; 37.8 48 0.001 26.9 3.8 45 65-111 41-85 (110)
91 PRK11924 RNA polymerase sigma 37.0 43 0.00093 27.5 3.5 33 78-111 136-168 (179)
92 smart00344 HTH_ASNC helix_turn 37.0 46 0.001 25.7 3.5 46 69-115 2-48 (108)
93 KOG3554 Histone deacetylase co 36.2 40 0.00086 34.3 3.6 61 36-106 267-328 (693)
94 PRK12523 RNA polymerase sigma 35.6 52 0.0011 27.5 3.9 40 72-112 124-163 (172)
95 PF11035 SnAPC_2_like: Small n 34.5 81 0.0018 30.5 5.2 50 64-114 21-74 (344)
96 PRK12529 RNA polymerase sigma 34.1 57 0.0012 27.6 3.9 38 75-113 135-172 (178)
97 PRK09643 RNA polymerase sigma 34.1 53 0.0012 28.2 3.8 36 74-110 141-176 (192)
98 PRK09047 RNA polymerase factor 34.1 57 0.0012 26.6 3.8 32 79-111 118-149 (161)
99 PRK09641 RNA polymerase sigma 33.5 52 0.0011 27.5 3.5 30 81-111 150-179 (187)
100 TIGR02943 Sig70_famx1 RNA poly 33.0 59 0.0013 27.8 3.8 36 75-111 139-174 (188)
101 PF09420 Nop16: Ribosome bioge 32.7 79 0.0017 27.0 4.6 47 63-109 113-163 (164)
102 COG2963 Transposase and inacti 32.5 73 0.0016 25.1 4.0 48 64-112 5-53 (116)
103 KOG2009 Transcription initiati 32.5 25 0.00054 36.5 1.6 47 9-56 406-452 (584)
104 KOG0384 Chromodomain-helicase 32.3 61 0.0013 36.6 4.5 70 14-89 1135-1205(1373)
105 cd08319 Death_RAIDD Death doma 32.2 33 0.00072 26.4 1.9 29 72-101 2-30 (83)
106 PRK09645 RNA polymerase sigma 32.0 63 0.0014 26.8 3.8 35 76-111 127-161 (173)
107 PRK11923 algU RNA polymerase s 31.5 57 0.0012 27.7 3.5 30 81-111 152-181 (193)
108 TIGR02954 Sig70_famx3 RNA poly 31.4 60 0.0013 26.9 3.6 32 79-111 131-162 (169)
109 PF07638 Sigma70_ECF: ECF sigm 31.3 57 0.0012 28.0 3.5 39 70-109 138-176 (185)
110 TIGR02939 RpoE_Sigma70 RNA pol 31.0 50 0.0011 27.7 3.0 29 82-111 153-181 (190)
111 KOG3554 Histone deacetylase co 30.9 28 0.00062 35.3 1.6 40 14-54 287-327 (693)
112 PF13936 HTH_38: Helix-turn-he 30.9 28 0.0006 23.2 1.1 38 65-104 3-40 (44)
113 PRK09642 RNA polymerase sigma 30.7 68 0.0015 26.2 3.8 35 76-111 115-149 (160)
114 PRK09637 RNA polymerase sigma 30.4 65 0.0014 27.4 3.7 32 79-111 118-149 (181)
115 PRK09648 RNA polymerase sigma 30.4 70 0.0015 27.1 3.8 36 75-111 147-182 (189)
116 PRK12515 RNA polymerase sigma 30.0 72 0.0016 27.1 3.9 33 78-111 142-174 (189)
117 smart00344 HTH_ASNC helix_turn 29.8 36 0.00079 26.3 1.8 43 18-61 3-45 (108)
118 PRK12524 RNA polymerase sigma 29.8 70 0.0015 27.4 3.8 36 75-111 144-179 (196)
119 PRK12512 RNA polymerase sigma 29.7 71 0.0015 26.8 3.8 35 76-111 140-174 (184)
120 PRK12530 RNA polymerase sigma 29.7 70 0.0015 27.3 3.8 33 78-111 145-177 (189)
121 PRK12531 RNA polymerase sigma 29.3 74 0.0016 27.2 3.8 34 77-111 151-184 (194)
122 cd08803 Death_ank3 Death domai 28.6 49 0.0011 25.5 2.3 29 72-101 4-32 (84)
123 PRK12536 RNA polymerase sigma 28.4 81 0.0018 26.6 3.9 35 77-112 139-173 (181)
124 TIGR02948 SigW_bacill RNA poly 28.0 68 0.0015 26.8 3.3 29 82-111 151-179 (187)
125 cd08311 Death_p75NR Death doma 27.9 37 0.0008 25.8 1.5 34 68-103 1-34 (77)
126 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 27.0 78 0.0017 22.2 2.9 35 70-105 7-41 (50)
127 PRK06759 RNA polymerase factor 26.8 92 0.002 25.2 3.8 30 81-111 120-149 (154)
128 PF02954 HTH_8: Bacterial regu 26.5 68 0.0015 21.0 2.4 34 71-105 6-39 (42)
129 TIGR02999 Sig-70_X6 RNA polyme 26.1 94 0.002 26.0 3.9 33 78-111 145-177 (183)
130 PRK12516 RNA polymerase sigma 26.0 89 0.0019 26.8 3.8 39 72-111 121-159 (187)
131 COG1522 Lrp Transcriptional re 25.7 44 0.00094 27.3 1.7 43 18-61 8-50 (154)
132 COG1522 Lrp Transcriptional re 25.4 93 0.002 25.3 3.6 45 69-114 7-52 (154)
133 TIGR02952 Sig70_famx2 RNA poly 25.4 98 0.0021 25.3 3.8 28 82-110 137-164 (170)
134 PRK12527 RNA polymerase sigma 25.3 1E+02 0.0022 25.2 3.9 34 77-111 115-148 (159)
135 PRK12528 RNA polymerase sigma 25.2 1E+02 0.0022 25.2 3.9 36 75-111 121-156 (161)
136 PRK12542 RNA polymerase sigma 25.2 96 0.0021 26.2 3.8 33 78-111 133-165 (185)
137 PRK09649 RNA polymerase sigma 25.2 89 0.0019 26.6 3.6 31 81-112 144-174 (185)
138 PF00859 CTF_NFI: CTF/NF-I fam 24.8 2.2E+02 0.0049 27.1 6.3 18 211-228 254-271 (295)
139 PRK09651 RNA polymerase sigma 24.6 82 0.0018 26.4 3.2 30 81-111 133-162 (172)
140 PRK00118 putative DNA-binding 24.5 1.1E+02 0.0024 24.5 3.8 41 69-110 19-59 (104)
141 PF10545 MADF_DNA_bdg: Alcohol 24.3 42 0.00091 24.3 1.2 25 86-110 29-54 (85)
142 PRK12547 RNA polymerase sigma 24.2 1.1E+02 0.0023 25.3 3.9 35 76-111 121-155 (164)
143 PRK12532 RNA polymerase sigma 23.9 95 0.0021 26.4 3.5 33 78-111 147-179 (195)
144 PRK12514 RNA polymerase sigma 23.9 1E+02 0.0022 25.7 3.7 29 82-111 144-172 (179)
145 PLN03162 golden-2 like transcr 23.6 2.7E+02 0.0058 27.7 6.8 46 64-109 237-287 (526)
146 PRK12545 RNA polymerase sigma 23.5 1E+02 0.0023 26.6 3.8 29 81-110 153-181 (201)
147 cd08317 Death_ank Death domain 23.3 47 0.001 25.1 1.3 29 72-101 4-32 (84)
148 TIGR02983 SigE-fam_strep RNA p 23.0 1E+02 0.0023 25.1 3.5 40 71-111 114-153 (162)
149 PRK10100 DNA-binding transcrip 21.9 1.1E+02 0.0024 27.2 3.6 45 66-113 155-199 (216)
150 KOG4789 Uncharacterized conser 21.8 90 0.002 33.0 3.4 67 183-251 580-666 (668)
151 PRK13919 putative RNA polymera 21.7 1.2E+02 0.0027 25.3 3.8 29 82-111 150-178 (186)
152 TIGR02960 SigX5 RNA polymerase 21.7 1E+02 0.0022 28.5 3.5 30 81-111 156-185 (324)
153 cd08318 Death_NMPP84 Death dom 21.4 65 0.0014 24.6 1.8 23 78-101 13-35 (86)
154 TIGR02950 SigM_subfam RNA poly 21.3 43 0.00094 27.1 0.8 28 83-111 121-148 (154)
155 PRK12520 RNA polymerase sigma 21.2 1.3E+02 0.0028 25.5 3.8 30 81-111 145-174 (191)
156 PF10440 WIYLD: Ubiquitin-bind 21.1 72 0.0016 23.7 1.9 19 21-40 30-48 (65)
157 PRK06811 RNA polymerase factor 21.1 1.5E+02 0.0032 25.2 4.1 31 81-112 145-175 (189)
158 PRK12537 RNA polymerase sigma 21.1 1.3E+02 0.0027 25.4 3.7 30 81-111 147-176 (182)
159 PRK12546 RNA polymerase sigma 21.1 1.1E+02 0.0025 26.2 3.5 36 75-111 121-156 (188)
160 COG2197 CitB Response regulato 20.6 1.2E+02 0.0026 26.8 3.6 45 66-113 148-192 (211)
161 TIGR02984 Sig-70_plancto1 RNA 20.4 1.4E+02 0.003 24.9 3.8 36 75-111 148-183 (189)
162 PRK05602 RNA polymerase sigma 20.1 1.3E+02 0.0027 25.4 3.5 30 81-111 142-171 (186)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=9.3e-35 Score=263.38 Aligned_cols=111 Identities=44% Similarity=0.801 Sum_probs=106.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCC-CCCcccccccccccCCCccccCCCChHHHHHHHHHHHHcCCC
Q 023744 7 EVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIP-GRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNK 85 (278)
Q Consensus 7 ~~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp-~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~~G~k 85 (278)
++..+||+||+|||++|+++|++||+++|..|++.++ +|++++||+||.|||+|+++++.||+|||++|+++|+.|||+
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNr 83 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNR 83 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcH
Confidence 3446789999999999999999999999999999998 999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCHHHHHHHHHHHhhhhhhccc
Q 023744 86 WATIARLLNGRTDNAIKNHWNSTLKRKCSSML 117 (278)
Q Consensus 86 W~~IA~~lpgRT~~~~knRw~~~lk~k~~~~~ 117 (278)
|+.||++|||||++.|||+|+..+|+|+....
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999998775
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.97 E-value=2.9e-32 Score=245.75 Aligned_cols=112 Identities=42% Similarity=0.793 Sum_probs=106.7
Q ss_pred cCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhC-CCCCcccccccccccCCCccccCCCChHHHHHHHHHHHHcCC
Q 023744 6 REVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSI-PGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGN 84 (278)
Q Consensus 6 ~~~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~l-p~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~~G~ 84 (278)
.++.++|++||+|||++|+++|++||..+|..||+.+ ++|+++|||+||.|+|+|.+++++||+|||++|++++..||+
T Consensus 19 ~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~Gn 98 (249)
T PLN03212 19 TKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGN 98 (249)
T ss_pred ccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccc
Confidence 3577899999999999999999999999999999988 699999999999999999999999999999999999999999
Q ss_pred CccccccccCCCCHHHHHHHHHHHhhhhhhccc
Q 023744 85 KWATIARLLNGRTDNAIKNHWNSTLKRKCSSML 117 (278)
Q Consensus 85 kW~~IA~~lpgRT~~~~knRw~~~lk~k~~~~~ 117 (278)
+|+.||++|||||+++|||||+.++++++....
T Consensus 99 KWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~ 131 (249)
T PLN03212 99 RWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQG 131 (249)
T ss_pred cHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcC
Confidence 999999999999999999999999999877643
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.97 E-value=5.4e-31 Score=252.94 Aligned_cols=111 Identities=48% Similarity=0.806 Sum_probs=105.8
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhC-CCCCcccccccccccCCCccccCCCChHHHHHHHHHHHHcCCC
Q 023744 7 EVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSI-PGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNK 85 (278)
Q Consensus 7 ~~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~l-p~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~~G~k 85 (278)
+.+++||+||+|||++|+++|++||..+|..||+.+ ++|+++|||+||.++|+|.+++++||+|||++|++++++||++
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 467899999999999999999999999999999988 5999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCHHHHHHHHHHHhhhhhhccc
Q 023744 86 WATIARLLNGRTDNAIKNHWNSTLKRKCSSML 117 (278)
Q Consensus 86 W~~IA~~lpgRT~~~~knRw~~~lk~k~~~~~ 117 (278)
|.+||++|+|||+++|||||+.++++++....
T Consensus 89 WskIAk~LPGRTDnqIKNRWnslLKKklr~~~ 120 (459)
T PLN03091 89 WSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRG 120 (459)
T ss_pred hHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999877543
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.73 E-value=1.5e-18 Score=172.56 Aligned_cols=104 Identities=27% Similarity=0.486 Sum_probs=97.4
Q ss_pred cccccCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCccccCCCChHHHHHHHHHHHH
Q 023744 2 AFNRREVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHAR 81 (278)
Q Consensus 2 ~~~~~~~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~ 81 (278)
|++..+|.+++|+||++||.+|..+|.+||.++|.+|-..+|||+..|||+||.|.|+...+++.||-.||+.|+.+|.+
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 45678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cC-CCccccccccCCCCHHH---HHHHH
Q 023744 82 FG-NKWATIARLLNGRTDNA---IKNHW 105 (278)
Q Consensus 82 ~G-~kW~~IA~~lpgRT~~~---~knRw 105 (278)
|| ++|.+||-+||+||..| |+.|+
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 68999999999999954 45544
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.73 E-value=4.6e-18 Score=169.17 Aligned_cols=115 Identities=27% Similarity=0.522 Sum_probs=93.5
Q ss_pred CcccccCCCCCCCCCCHHHHHHHHHHHHHhCCCC----------------------------------------------
Q 023744 1 MAFNRREVDRIKGPWSPEEDEALQQLVQKHGPRN---------------------------------------------- 34 (278)
Q Consensus 1 ~~~~~~~~~~~kg~WT~EED~~L~~lV~kyG~~n---------------------------------------------- 34 (278)
||.|+..|++.|..|+.|||+.|..+...++..+
T Consensus 242 ~W~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~ 321 (939)
T KOG0049|consen 242 KWYNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVK 321 (939)
T ss_pred HHhhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHH
Confidence 5777777777777777777777777766554444
Q ss_pred ---------hHHHhhhCCCCCcccccccccccCCCccccCCCChHHHHHHHHHHHHcCCC-ccccccccCCCCHHHHHHH
Q 023744 35 ---------WSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNK-WATIARLLNGRTDNAIKNH 104 (278)
Q Consensus 35 ---------W~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~~G~k-W~~IA~~lpgRT~~~~knR 104 (278)
|.+|-..||||+..|...||.+.|+|.+++|+||.+||.+|+.+|.+||.+ |.+|-..+|||++.||++|
T Consensus 322 ~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~R 401 (939)
T KOG0049|consen 322 ITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRER 401 (939)
T ss_pred HhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHH
Confidence 555555555566666666888888999999999999999999999999965 9999999999999999999
Q ss_pred HHHHhhhhhhc
Q 023744 105 WNSTLKRKCSS 115 (278)
Q Consensus 105 w~~~lk~k~~~ 115 (278)
|.+.|.+..+.
T Consensus 402 Y~nvL~~s~K~ 412 (939)
T KOG0049|consen 402 YTNVLNRSAKV 412 (939)
T ss_pred HHHHHHHhhcc
Confidence 99999876554
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.66 E-value=1e-16 Score=115.39 Aligned_cols=60 Identities=42% Similarity=0.842 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCccccCCCChHHHHHH
Q 023744 15 WSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMI 75 (278)
Q Consensus 15 WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~L 75 (278)
||+|||++|+.+|++|| .+|..||+.|+.|+..+|+.||.+.|++.+++++||++||++|
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 5799999999779999999999999999999999999999987
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=99.60 E-value=1.2e-15 Score=150.90 Aligned_cols=109 Identities=35% Similarity=0.646 Sum_probs=104.2
Q ss_pred cCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCccccCCCChHHHHHHHHHHHHcCCC
Q 023744 6 REVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNK 85 (278)
Q Consensus 6 ~~~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~~G~k 85 (278)
+..+++.|.|+..||+.|..+|+.||+.+|..||..+.-|++++|+.||.++++|.+++..|+.|||..|+.+..++|..
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 45578889999999999999999999999999999998899999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCHHHHHHHHHHHhhhhhh
Q 023744 86 WATIARLLNGRTDNAIKNHWNSTLKRKCS 114 (278)
Q Consensus 86 W~~IA~~lpgRT~~~~knRw~~~lk~k~~ 114 (278)
|..||..+++|+..+|.++|..++.....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999999987766
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.49 E-value=9.9e-15 Score=142.66 Aligned_cols=105 Identities=30% Similarity=0.551 Sum_probs=99.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCccccCCCChHHHHHHHHHHHHcCCCcccc
Q 023744 10 RIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNKWATI 89 (278)
Q Consensus 10 ~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~~G~kW~~I 89 (278)
++-|-|+.-||+.|...|.+||...|+.|++.++-.+.+||+.||..+|+|.+++-.|+.|||+.||.+...+-..|..|
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 35678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCCHHHHHHHHHHHhhhhhhc
Q 023744 90 ARLLNGRTDNAIKNHWNSTLKRKCSS 115 (278)
Q Consensus 90 A~~lpgRT~~~~knRw~~~lk~k~~~ 115 (278)
+..| ||+.++|-.||++++-..+..
T Consensus 85 a~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 85 ADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred HHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 9999 999999999999998776554
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=99.43 E-value=4.2e-14 Score=97.85 Aligned_cols=47 Identities=51% Similarity=0.987 Sum_probs=42.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHhhhCC-CCCcccccccccccC
Q 023744 12 KGPWSPEEDEALQQLVQKHGPRNWSLISKSIP-GRSGKSCRLRWCNQL 58 (278)
Q Consensus 12 kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp-~Rs~kqcr~Rw~n~L 58 (278)
|++||+|||++|+++|.+||..+|..||..|+ +|+..||+.||.+++
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 999999999998764
No 10
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.38 E-value=4.7e-13 Score=134.09 Aligned_cols=104 Identities=27% Similarity=0.584 Sum_probs=93.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcc--ccCCCChHHHHHHHHHHH-------H
Q 023744 11 IKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQV--EHRAFTPEEDEMIIRAHA-------R 81 (278)
Q Consensus 11 ~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i--~k~~WT~EED~~Ll~~v~-------~ 81 (278)
.+|.||+||++.|..+|.++| .+|..|++.| +|.+..|++||.++..++- +++.||.||++.|+++|. .
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 899999999999999999999 5699999999 9999999999999999885 899999999999999995 3
Q ss_pred c-------------------CCCccccccccCCCCHHHHHHHHHHHhhhhhhcc
Q 023744 82 F-------------------GNKWATIARLLNGRTDNAIKNHWNSTLKRKCSSM 116 (278)
Q Consensus 82 ~-------------------G~kW~~IA~~lpgRT~~~~knRw~~~lk~k~~~~ 116 (278)
+ +-+|..|++.+..|+..+|+.+|+.++.+.....
T Consensus 461 ~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~ 514 (607)
T KOG0051|consen 461 PQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNK 514 (607)
T ss_pred ccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhc
Confidence 3 1159999999999999999999999998865543
No 11
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.37 E-value=4.4e-13 Score=92.75 Aligned_cols=46 Identities=30% Similarity=0.650 Sum_probs=41.8
Q ss_pred cCCCChHHHHHHHHHHHHcCCC-ccccccccC-CCCHHHHHHHHHHHh
Q 023744 64 HRAFTPEEDEMIIRAHARFGNK-WATIARLLN-GRTDNAIKNHWNSTL 109 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~G~k-W~~IA~~lp-gRT~~~~knRw~~~l 109 (278)
+++||+|||++|++++.+||.+ |..||..|+ +||..||++||++++
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 5799999999999999999998 999999999 999999999998764
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=99.22 E-value=6.5e-12 Score=90.22 Aligned_cols=47 Identities=36% Similarity=0.742 Sum_probs=40.3
Q ss_pred CChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhhhh
Q 023744 67 FTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKC 113 (278)
Q Consensus 67 WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k~ 113 (278)
||+|||++|++++.+||++|..||+.|+.||..+|++||+..|+.++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~ 47 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKI 47 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTS
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccc
Confidence 99999999999999999999999999966999999999998676543
No 13
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.18 E-value=2.4e-11 Score=81.65 Aligned_cols=47 Identities=40% Similarity=0.794 Sum_probs=44.1
Q ss_pred cCCCChHHHHHHHHHHHHcC-CCccccccccCCCCHHHHHHHHHHHhh
Q 023744 64 HRAFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWNSTLK 110 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~G-~kW~~IA~~lpgRT~~~~knRw~~~lk 110 (278)
+++||++||.+|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 36899999999999999999 999999999999999999999988764
No 14
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.14 E-value=4e-11 Score=80.62 Aligned_cols=48 Identities=52% Similarity=1.008 Sum_probs=44.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCC
Q 023744 12 KGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLS 59 (278)
Q Consensus 12 kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~ 59 (278)
+++||++||++|..++.+||..+|..||..|++|+..+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 468999999999999999997779999999999999999999988764
No 15
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.13 E-value=1.2e-11 Score=112.46 Aligned_cols=58 Identities=26% Similarity=0.479 Sum_probs=53.9
Q ss_pred cccccCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCC
Q 023744 2 AFNRREVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSP 60 (278)
Q Consensus 2 ~~~~~~~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p 60 (278)
|.++.+|++.+++||+|||++|++++..||. .|..||+.|++|+..+|+.||+.+++.
T Consensus 68 W~N~L~P~I~kgpWT~EED~lLlel~~~~Gn-KWs~IAk~LpGRTDnqIKNRWns~LrK 125 (249)
T PLN03212 68 WMNYLRPSVKRGGITSDEEDLILRLHRLLGN-RWSLIAGRIPGRTDNEIKNYWNTHLRK 125 (249)
T ss_pred HHHhhchhcccCCCChHHHHHHHHHHHhccc-cHHHHHhhcCCCCHHHHHHHHHHHHhH
Confidence 6788999999999999999999999999995 599999999999999999999887754
No 16
>PLN03091 hypothetical protein; Provisional
Probab=99.08 E-value=3.1e-11 Score=117.17 Aligned_cols=58 Identities=26% Similarity=0.464 Sum_probs=53.6
Q ss_pred cccccCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCC
Q 023744 2 AFNRREVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSP 60 (278)
Q Consensus 2 ~~~~~~~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p 60 (278)
|.++.+++++||+||+|||++|++++++||. .|..||+.|+||+..+|+.||+..|+.
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 599999999999999999999876643
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=99.05 E-value=2e-10 Score=76.08 Aligned_cols=44 Identities=39% Similarity=0.816 Sum_probs=41.5
Q ss_pred CCChHHHHHHHHHHHHcC-CCccccccccCCCCHHHHHHHHHHHh
Q 023744 66 AFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWNSTL 109 (278)
Q Consensus 66 ~WT~EED~~Ll~~v~~~G-~kW~~IA~~lpgRT~~~~knRw~~~l 109 (278)
+||+|||..|+.++.+|| .+|..||..+++||..+|++||+.++
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
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.02 E-value=2.8e-10 Score=114.36 Aligned_cols=101 Identities=27% Similarity=0.413 Sum_probs=86.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC---------------C--------ChHHHhhhCCCCCcccccccccccCCCcc-ccCC
Q 023744 11 IKGPWSPEEDEALQQLVQKHGP---------------R--------NWSLISKSIPGRSGKSCRLRWCNQLSPQV-EHRA 66 (278)
Q Consensus 11 ~kg~WT~EED~~L~~lV~kyG~---------------~--------nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i-~k~~ 66 (278)
.-+.|+++||+.|...|..|-. . -|..|...||.|+.++++++-++..+|.- ++|.
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~R~~~siy~~~rR~y~~FE~~rg~ 386 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPYRDRKSIYHHLRRAYTPFENKRGK 386 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCcccchhHHHHHHhcCCccccccCC
Confidence 3478999999999999998811 0 17888999999999999885555444444 8999
Q ss_pred CChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhhh
Q 023744 67 FTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (278)
Q Consensus 67 WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k 112 (278)
||+||++.|..+|.++|+.|..|++.| ||.+.+|++||..+.+-.
T Consensus 387 wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 387 WTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCG 431 (607)
T ss_pred CCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccc
Confidence 999999999999999999999999999 999999999999888654
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.00 E-value=3e-10 Score=75.22 Aligned_cols=44 Identities=52% Similarity=1.015 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCccccccccccc
Q 023744 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQ 57 (278)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~ 57 (278)
+||+|||++|..++.+||..+|..||..+++|+..+|+.||.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 59999999999999999977899999999999999999999765
No 20
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=98.92 E-value=5.7e-10 Score=101.46 Aligned_cols=56 Identities=32% Similarity=0.568 Sum_probs=52.3
Q ss_pred cccccCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccC
Q 023744 2 AFNRREVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQL 58 (278)
Q Consensus 2 ~~~~~~~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L 58 (278)
|.|+++|+++||.||+|||++|+++...+|.+ |..||++|||||...++.+|+..|
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 78999999999999999999999999999965 999999999999999988885554
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=98.16 E-value=8.8e-07 Score=88.49 Aligned_cols=108 Identities=22% Similarity=0.211 Sum_probs=92.7
Q ss_pred cccccCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCccccCCCChHHHHHHHHHHHH
Q 023744 2 AFNRREVDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHAR 81 (278)
Q Consensus 2 ~~~~~~~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~ 81 (278)
|.++.++.+.++.|+.|||+.|+.+-..+|.. |..|+..+++|+..+|.+||.+.+.+..+ ..|+..++...+.-+..
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 45778999999999999999999999999977 99999999999999999999999976655 78999888888888888
Q ss_pred cCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 82 FGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 82 ~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
|+..|..+....-.+-...|.|++.++...
T Consensus 140 f~~~~~~~~~~~~~~~~~~~~N~~~~~~~~ 169 (512)
T COG5147 140 FNENSARRPDIYEDELLEREVNREASYRLR 169 (512)
T ss_pred hhhhhhhhhhhhhcccchhhhhHHHHHHHH
Confidence 888888888776667777777777555444
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=97.91 E-value=1.9e-05 Score=57.06 Aligned_cols=49 Identities=16% Similarity=0.367 Sum_probs=42.5
Q ss_pred ccCCCChHHHHHHHHHHHHcCC-Cc---cccccccC-CC-CHHHHHHHHHHHhhh
Q 023744 63 EHRAFTPEEDEMIIRAHARFGN-KW---ATIARLLN-GR-TDNAIKNHWNSTLKR 111 (278)
Q Consensus 63 ~k~~WT~EED~~Ll~~v~~~G~-kW---~~IA~~lp-gR-T~~~~knRw~~~lk~ 111 (278)
.+-.||+||...+++++..+|. +| ..|++.+. .| |..+|+.|++.++.+
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 3567999999999999999996 99 99999874 45 999999999887644
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.63 E-value=2.9e-05 Score=75.69 Aligned_cols=51 Identities=18% Similarity=0.449 Sum_probs=47.3
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccC
Q 023744 8 VDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQL 58 (278)
Q Consensus 8 ~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L 58 (278)
-.+...-||.+|+-+|++++..||.+||..||.++..|+...|+++|.+++
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 455667899999999999999999999999999999999999999999876
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.57 E-value=7.6e-05 Score=72.84 Aligned_cols=50 Identities=20% Similarity=0.495 Sum_probs=45.5
Q ss_pred cccCCCChHHHHHHHHHHHHcC-CCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 62 VEHRAFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 62 i~k~~WT~EED~~Ll~~v~~~G-~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+-...||.+|+.+||+++..|| ++|..||+++..|+..+|++||.+++-.
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 4457899999999999999999 8999999999999999999999887744
No 25
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.55 E-value=7.4e-05 Score=53.93 Aligned_cols=47 Identities=17% Similarity=0.261 Sum_probs=40.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCh---HHHhhhCC-CC-CcccccccccccC
Q 023744 12 KGPWSPEEDEALQQLVQKHGPRNW---SLISKSIP-GR-SGKSCRLRWCNQL 58 (278)
Q Consensus 12 kg~WT~EED~~L~~lV~kyG~~nW---~~Ia~~lp-~R-s~kqcr~Rw~n~L 58 (278)
+-.||+||..+++++|+.+|..+| ..|++.|. .| +..||+.|+..+.
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 9999999887764
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=97.50 E-value=6.2e-05 Score=64.82 Aligned_cols=53 Identities=25% Similarity=0.409 Sum_probs=46.4
Q ss_pred ccCCCChHHHHHHHHHHHHcCC-------CccccccccCCCCHHHHHHHHHHHhhhhhhcc
Q 023744 63 EHRAFTPEEDEMIIRAHARFGN-------KWATIARLLNGRTDNAIKNHWNSTLKRKCSSM 116 (278)
Q Consensus 63 ~k~~WT~EED~~Ll~~v~~~G~-------kW~~IA~~lpgRT~~~~knRw~~~lk~k~~~~ 116 (278)
....||.|||.+|.+.|..|-. -+..+++.| +||+.+|.-|||+++|++....
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~~ 62 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEEA 62 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHHH
Confidence 4578999999999999998743 289999999 9999999999999999986654
No 27
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.42 E-value=7.4e-05 Score=74.30 Aligned_cols=57 Identities=28% Similarity=0.493 Sum_probs=51.5
Q ss_pred cccCCCChHHHHHHHHHHHHcC-CCccccccccCCCCHHHHHHHHHHHhhhhhhcccc
Q 023744 62 VEHRAFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWNSTLKRKCSSMLT 118 (278)
Q Consensus 62 i~k~~WT~EED~~Ll~~v~~~G-~kW~~IA~~lpgRT~~~~knRw~~~lk~k~~~~~~ 118 (278)
++.+-|+..||+.|--++.+|| +.|++|+.+++-.++.||++||+.++...+.....
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tew 62 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEW 62 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhh
Confidence 4678999999999999999999 56999999999999999999999999988776543
No 28
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.35 E-value=0.00045 Score=61.69 Aligned_cols=99 Identities=17% Similarity=0.349 Sum_probs=74.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhC---CCCCcccccccccccC----------------CCc-----cccCCCCh
Q 023744 14 PWSPEEDEALQQLVQKHGPRNWSLISKSI---PGRSGKSCRLRWCNQL----------------SPQ-----VEHRAFTP 69 (278)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~Ia~~l---p~Rs~kqcr~Rw~n~L----------------~p~-----i~k~~WT~ 69 (278)
+|++++|-+|+.+|.+-. +-..|+..+ ..-|.+.+.+||+..| +|. ..+.+||.
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 699999999999999843 678887765 4557788899998876 222 14678999
Q ss_pred HHHHHHHHHHHHcCC---Ccccccc-----ccCCCCHHHHHHHHHHHhhhhhh
Q 023744 70 EEDEMIIRAHARFGN---KWATIAR-----LLNGRTDNAIKNHWNSTLKRKCS 114 (278)
Q Consensus 70 EED~~Ll~~v~~~G~---kW~~IA~-----~lpgRT~~~~knRw~~~lk~k~~ 114 (278)
+|+++|......... .|.+|-. +-++||+.++.+||..+.+..+.
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 999999997766544 3555532 23689999999999866665544
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.95 E-value=0.00052 Score=67.70 Aligned_cols=46 Identities=17% Similarity=0.414 Sum_probs=42.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCccccccccccc
Q 023744 11 IKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQ 57 (278)
Q Consensus 11 ~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~ 57 (278)
....||.+|..+|++.|+.||. +|.+||+++.+|+..||..||.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhCCCCHHHHHHHHHcC
Confidence 5568999999999999999995 699999999999999999999874
No 30
>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=96.95 E-value=0.00071 Score=50.12 Aligned_cols=50 Identities=18% Similarity=0.300 Sum_probs=32.5
Q ss_pred cCCCChHHHHHHHHHHHHcC--------CC-ccccccccC-CCCHHHHHHHHHHHhhhhh
Q 023744 64 HRAFTPEEDEMIIRAHARFG--------NK-WATIARLLN-GRTDNAIKNHWNSTLKRKC 113 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~G--------~k-W~~IA~~lp-gRT~~~~knRw~~~lk~k~ 113 (278)
+.+||.|||.+|++.|+.+. |+ |.++++.-+ .+|..+.|+||.+.|+.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 45899999999999997542 22 999998877 8999999999998887664
No 31
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.74 E-value=0.00086 Score=58.47 Aligned_cols=53 Identities=23% Similarity=0.390 Sum_probs=45.3
Q ss_pred ccCCCChHHHHHHHHHHHHcCCC-------ccccccccCCCCHHHHHHHHHHHhhhhhhcc
Q 023744 63 EHRAFTPEEDEMIIRAHARFGNK-------WATIARLLNGRTDNAIKNHWNSTLKRKCSSM 116 (278)
Q Consensus 63 ~k~~WT~EED~~Ll~~v~~~G~k-------W~~IA~~lpgRT~~~~knRw~~~lk~k~~~~ 116 (278)
++..||.|||.+|-+.|..|+.. +..++..| +||..+|..|||++++++....
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Yee~ 63 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQEQ 63 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHHHH
Confidence 56789999999999999988753 67777888 9999999999999999886543
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.73 E-value=0.0011 Score=66.55 Aligned_cols=49 Identities=16% Similarity=0.460 Sum_probs=44.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCccccccccccc
Q 023744 8 VDRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQ 57 (278)
Q Consensus 8 ~~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~ 57 (278)
..-.++.||.+|+-+|++.|+.|| .+|.+|+.++..|+..||..|+.+.
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 345678899999999999999999 4699999999999999999999764
No 33
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.66 E-value=0.001 Score=57.37 Aligned_cols=48 Identities=23% Similarity=0.549 Sum_probs=41.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC--C----ChHHHhhhCCCCCcccccccccccCC
Q 023744 11 IKGPWSPEEDEALQQLVQKHGP--R----NWSLISKSIPGRSGKSCRLRWCNQLS 59 (278)
Q Consensus 11 ~kg~WT~EED~~L~~lV~kyG~--~----nW~~Ia~~lp~Rs~kqcr~Rw~n~L~ 59 (278)
++..||.|||.+|-+.|.+|-. + -+.++++.+ +||...|..||+.++.
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 4568999999999999999831 1 288899998 9999999999998874
No 34
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.64 E-value=0.00077 Score=49.92 Aligned_cols=50 Identities=26% Similarity=0.492 Sum_probs=32.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCC------CC--hHHHhhhCC-CCCcccccccccccCCCc
Q 023744 12 KGPWSPEEDEALQQLVQKHGP------RN--WSLISKSIP-GRSGKSCRLRWCNQLSPQ 61 (278)
Q Consensus 12 kg~WT~EED~~L~~lV~kyG~------~n--W~~Ia~~lp-~Rs~kqcr~Rw~n~L~p~ 61 (278)
+-+||.|||++|.++|+.+.. +| |.++++.-+ .++-.+-++||.+.|.+.
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 457999999999999976621 12 999998877 999999999999988654
No 35
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.51 E-value=0.0022 Score=64.52 Aligned_cols=44 Identities=14% Similarity=0.368 Sum_probs=41.4
Q ss_pred ccCCCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHH
Q 023744 63 EHRAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWN 106 (278)
Q Consensus 63 ~k~~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~ 106 (278)
.+..||.+|.-+|++++..||-+|.+||.++.+||..+|-.||.
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL 295 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFL 295 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHH
Confidence 45789999999999999999999999999999999999999873
No 36
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.50 E-value=0.0013 Score=50.12 Aligned_cols=48 Identities=31% Similarity=0.598 Sum_probs=33.3
Q ss_pred cCCCChHHHHHHHHHHHH------cC--C------CccccccccC----CCCHHHHHHHHHHHhhh
Q 023744 64 HRAFTPEEDEMIIRAHAR------FG--N------KWATIARLLN----GRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~------~G--~------kW~~IA~~lp----gRT~~~~knRw~~~lk~ 111 (278)
+..||.+|...||+++.. ++ + -|..||..|. .||+.||+++|.++.+.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~ 66 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKK 66 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Confidence 357999999999999876 21 1 2999998773 69999999999765544
No 37
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.29 E-value=0.0024 Score=63.12 Aligned_cols=43 Identities=16% Similarity=0.431 Sum_probs=40.7
Q ss_pred cCCCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHH
Q 023744 64 HRAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWN 106 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~ 106 (278)
...||.+|..+|++.+..||-.|.+||+++.+||..||--||-
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 4589999999999999999999999999999999999999884
No 38
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=96.05 E-value=0.012 Score=57.22 Aligned_cols=84 Identities=17% Similarity=0.330 Sum_probs=66.8
Q ss_pred CChHHHhhhCCCCCcccccccccccCCC-------------------------ccccCCCChHHHHHHHHHHHHcCCCcc
Q 023744 33 RNWSLISKSIPGRSGKSCRLRWCNQLSP-------------------------QVEHRAFTPEEDEMIIRAHARFGNKWA 87 (278)
Q Consensus 33 ~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p-------------------------~i~k~~WT~EED~~Ll~~v~~~G~kW~ 87 (278)
+.|.-+.-..+.|...-...||.....+ .++...||.||-+-|+++++.|.-+|-
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 4587777777778887788888776322 123456999999999999999999999
Q ss_pred ccccc-----cCC-CCHHHHHHHHHHHhhhhhhcc
Q 023744 88 TIARL-----LNG-RTDNAIKNHWNSTLKRKCSSM 116 (278)
Q Consensus 88 ~IA~~-----lpg-RT~~~~knRw~~~lk~k~~~~ 116 (278)
.|+.. ++. ||-..+|+||+.+.++.+...
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr 188 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKAR 188 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHcc
Confidence 99987 555 999999999999888766544
No 39
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.89 E-value=0.0069 Score=45.34 Aligned_cols=47 Identities=36% Similarity=0.519 Sum_probs=38.8
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CCC-----------ChHHHhhhC-----CCCCcccccccccccC
Q 023744 12 KGPWSPEEDEALQQLVQKH-----GPR-----------NWSLISKSI-----PGRSGKSCRLRWCNQL 58 (278)
Q Consensus 12 kg~WT~EED~~L~~lV~ky-----G~~-----------nW~~Ia~~l-----p~Rs~kqcr~Rw~n~L 58 (278)
+..||.+|.+.|+++|.+| +.. -|..|+..| +.|+..+|+.+|.++.
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 211 199999877 4799999999998764
No 40
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.78 E-value=0.0029 Score=48.17 Aligned_cols=46 Identities=26% Similarity=0.562 Sum_probs=32.7
Q ss_pred CCCCHHHHHHHHHHHHH--h----C--CC-----ChHHHhhhC----CCCCcccccccccccC
Q 023744 13 GPWSPEEDEALQQLVQK--H----G--PR-----NWSLISKSI----PGRSGKSCRLRWCNQL 58 (278)
Q Consensus 13 g~WT~EED~~L~~lV~k--y----G--~~-----nW~~Ia~~l----p~Rs~kqcr~Rw~n~L 58 (278)
-.||.+|...|+.++.. + + .. -|..||..| -.|++.||+.||.+..
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 299999987 4799999999998753
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.73 E-value=0.0075 Score=57.35 Aligned_cols=47 Identities=21% Similarity=0.526 Sum_probs=43.0
Q ss_pred cCCCChHHHHHHHHHHHHcC-CCccccccccCCCCHHHHHHHHHHHhh
Q 023744 64 HRAFTPEEDEMIIRAHARFG-NKWATIARLLNGRTDNAIKNHWNSTLK 110 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~G-~kW~~IA~~lpgRT~~~~knRw~~~lk 110 (278)
-..|+.+|+.+|++.....| ++|..||.++..|+...||.||.++..
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 35699999999999999999 789999999999999999999987764
No 42
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.43 E-value=0.0056 Score=53.45 Aligned_cols=50 Identities=20% Similarity=0.541 Sum_probs=40.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCC------hHHHhhhCCCCCcccccccccccCC
Q 023744 9 DRIKGPWSPEEDEALQQLVQKHGPRN------WSLISKSIPGRSGKSCRLRWCNQLS 59 (278)
Q Consensus 9 ~~~kg~WT~EED~~L~~lV~kyG~~n------W~~Ia~~lp~Rs~kqcr~Rw~n~L~ 59 (278)
..++..||.|||.+|-+.|.+|+... ...++..| +|+...|..||+.++.
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 34667899999999999999996432 56666776 9999999999977664
No 43
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.27 E-value=0.038 Score=60.20 Aligned_cols=99 Identities=15% Similarity=0.360 Sum_probs=76.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccc-------ccccc------C----------------------
Q 023744 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRL-------RWCNQ------L---------------------- 58 (278)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~-------Rw~n~------L---------------------- 58 (278)
.|+.-|=..++.+..+||..+...||..|.+++...++. ||..+ +
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 599999999999999999888999999998888866653 22221 0
Q ss_pred ---------------CCccccCCCChHHHHHHHHHHHHcC-CCcccccc------------ccCCCCHHHHHHHHHHHhh
Q 023744 59 ---------------SPQVEHRAFTPEEDEMIIRAHARFG-NKWATIAR------------LLNGRTDNAIKNHWNSTLK 110 (278)
Q Consensus 59 ---------------~p~i~k~~WT~EED~~Ll~~v~~~G-~kW~~IA~------------~lpgRT~~~~knRw~~~lk 110 (278)
.+..++..||+|||..|+-.+.+|| .+|..|-. +|..||+..|..|-+.+++
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 1223455799999999999999999 56988833 2357999999999987775
Q ss_pred hh
Q 023744 111 RK 112 (278)
Q Consensus 111 ~k 112 (278)
-.
T Consensus 986 ~~ 987 (1033)
T PLN03142 986 LI 987 (1033)
T ss_pred HH
Confidence 54
No 44
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.12 E-value=0.0084 Score=57.01 Aligned_cols=47 Identities=19% Similarity=0.383 Sum_probs=44.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCC
Q 023744 13 GPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLS 59 (278)
Q Consensus 13 g~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~ 59 (278)
--|..+|+-+|++.....|.+||..||.++..|....|+.||.+++.
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 35999999999999999999999999999999999999999998764
No 45
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.64 E-value=0.035 Score=41.44 Aligned_cols=48 Identities=23% Similarity=0.510 Sum_probs=38.8
Q ss_pred cCCCChHHHHHHHHHHHHcCC-----------------Ccccccccc-----CCCCHHHHHHHHHHHhhh
Q 023744 64 HRAFTPEEDEMIIRAHARFGN-----------------KWATIARLL-----NGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~G~-----------------kW~~IA~~l-----pgRT~~~~knRw~~~lk~ 111 (278)
...||.+|...|++++.+|-. -|..|+..| +.||..+++.+|.++...
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 357999999999999987621 299999876 259999999999876644
No 46
>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=90.99 E-value=0.34 Score=37.15 Aligned_cols=48 Identities=35% Similarity=0.670 Sum_probs=35.1
Q ss_pred CCChHHHHHHHHHHHHc---CC----------CccccccccC---C--CCHHHHHHHHHHHhhhhhh
Q 023744 66 AFTPEEDEMIIRAHARF---GN----------KWATIARLLN---G--RTDNAIKNHWNSTLKRKCS 114 (278)
Q Consensus 66 ~WT~EED~~Ll~~v~~~---G~----------kW~~IA~~lp---g--RT~~~~knRw~~~lk~k~~ 114 (278)
.||+++++.|++++.+. |+ .|..|+..|. | .+..+|++|| ..||+...
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 22 2888988763 2 4779999999 55555443
No 47
>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=90.63 E-value=0.27 Score=40.56 Aligned_cols=51 Identities=20% Similarity=0.488 Sum_probs=39.1
Q ss_pred ccccCCCChHHHHHHHHHHHHcCC----Cccccccc------------cCCCCHHHHHHHHHHHhhh
Q 023744 61 QVEHRAFTPEEDEMIIRAHARFGN----KWATIARL------------LNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 61 ~i~k~~WT~EED~~Ll~~v~~~G~----kW~~IA~~------------lpgRT~~~~knRw~~~lk~ 111 (278)
..++..||+|||.-|+-.+.+||- .|..|-.. +..||+..|..|-+.+++-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 456789999999999999999997 58887653 2469999999998777653
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.81 E-value=0.26 Score=48.11 Aligned_cols=43 Identities=28% Similarity=0.513 Sum_probs=40.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCccccccccccc
Q 023744 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQ 57 (278)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~ 57 (278)
+|+.+|-+++.+++...|. ++.+|+..+|+|..+|+..+|.+-
T Consensus 367 ~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~R~RkqIKaKfi~E 409 (507)
T COG5118 367 RWSKKEIEKFYKALSIWGT-DFSLISSLFPNRERKQIKAKFIKE 409 (507)
T ss_pred cccHHHHHHHHHHHHHhcc-hHHHHHHhcCchhHHHHHHHHHHH
Confidence 7999999999999999995 699999999999999999999764
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.71 E-value=0.34 Score=47.34 Aligned_cols=47 Identities=21% Similarity=0.311 Sum_probs=43.5
Q ss_pred CCCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 65 RAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 65 ~~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
.+||.+|-++..++....|-.++-|+.+||.|...|||.+|.+--|+
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 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=89.23 E-value=0.46 Score=47.37 Aligned_cols=49 Identities=20% Similarity=0.260 Sum_probs=44.2
Q ss_pred cCCCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhhh
Q 023744 64 HRAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k 112 (278)
...||.||-.++-++...||.++++|-..||.|+...+...|++.-|.+
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 4689999999999999999999999999999999999999888766543
No 51
>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=89.20 E-value=0.5 Score=36.54 Aligned_cols=31 Identities=42% Similarity=0.842 Sum_probs=19.0
Q ss_pred CCCCCCCCCHHHHHHH--------HHHHHHhCCCChHHHhhh
Q 023744 8 VDRIKGPWSPEEDEAL--------QQLVQKHGPRNWSLISKS 41 (278)
Q Consensus 8 ~~~~kg~WT~EED~~L--------~~lV~kyG~~nW~~Ia~~ 41 (278)
|....|-||+|||+.| .+++++|| +..|..+
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 5677899999999999 56677887 6666654
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=88.47 E-value=0.66 Score=31.91 Aligned_cols=42 Identities=26% Similarity=0.401 Sum_probs=32.3
Q ss_pred hHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 69 PEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 69 ~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
++++..++.++...|-.|.+||+.+ |.+...|+.+....+++
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 4677888999999999999999999 99999999998776653
No 53
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=87.48 E-value=0.51 Score=44.99 Aligned_cols=49 Identities=20% Similarity=0.350 Sum_probs=38.7
Q ss_pred cCCCChHHHHHHHHHHHHc----------CCCcccccccc----CCCCHHHHHHHHHHHhhhh
Q 023744 64 HRAFTPEEDEMIIRAHARF----------GNKWATIARLL----NGRTDNAIKNHWNSTLKRK 112 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~----------G~kW~~IA~~l----pgRT~~~~knRw~~~lk~k 112 (278)
...|+.+|-..||++..+. +.-|..||+.+ --||+.+|+++|.++.++-
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 3689999999999987532 23499999854 2499999999998777663
No 54
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=82.97 E-value=1.4 Score=36.24 Aligned_cols=34 Identities=35% Similarity=0.479 Sum_probs=28.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC---CChHHHhhhC
Q 023744 9 DRIKGPWSPEEDEALQQLVQKHGP---RNWSLISKSI 42 (278)
Q Consensus 9 ~~~kg~WT~EED~~L~~lV~kyG~---~nW~~Ia~~l 42 (278)
...+..||.+||.-|+-.+.+||- ++|..|...+
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 566778999999999999999998 7899998765
No 55
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=82.07 E-value=0.71 Score=44.02 Aligned_cols=46 Identities=24% Similarity=0.374 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHHHHHh---------CCCChHHHhhhC----CCCCcccccccccccC
Q 023744 13 GPWSPEEDEALQQLVQKH---------GPRNWSLISKSI----PGRSGKSCRLRWCNQL 58 (278)
Q Consensus 13 g~WT~EED~~L~~lV~ky---------G~~nW~~Ia~~l----p~Rs~kqcr~Rw~n~L 58 (278)
..|+.+|-..|+++.... ....|..||+.+ .-|++.+|+.+|.|..
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 679999999999998643 123499999955 5799999999998754
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=80.14 E-value=1.5 Score=33.51 Aligned_cols=43 Identities=26% Similarity=0.603 Sum_probs=31.7
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------ChHHHhhhCC-----CCCcccccccccc
Q 023744 14 PWSPEEDEALQQLVQKH---GPR---------NWSLISKSIP-----GRSGKSCRLRWCN 56 (278)
Q Consensus 14 ~WT~EED~~L~~lV~ky---G~~---------nW~~Ia~~lp-----~Rs~kqcr~Rw~n 56 (278)
.||+++++.|++++... |.. .|..|+..|. ..+..||+.||..
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 59999999999998655 222 2999998873 3455788888744
No 57
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=79.82 E-value=1.2 Score=46.96 Aligned_cols=42 Identities=12% Similarity=0.406 Sum_probs=38.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccc
Q 023744 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCN 56 (278)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n 56 (278)
.||+.|..++.+++..|. +++.+|++.+++++.++|-+-|..
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 599999999999999998 789999999999999999776633
No 58
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=76.76 E-value=3 Score=43.14 Aligned_cols=53 Identities=15% Similarity=0.357 Sum_probs=43.4
Q ss_pred cCCCChHHHHHHHHHHHHcCCCcccccc----------ccCCCCHHHHHHHHHHHhhhhhhcc
Q 023744 64 HRAFTPEEDEMIIRAHARFGNKWATIAR----------LLNGRTDNAIKNHWNSTLKRKCSSM 116 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~G~kW~~IA~----------~lpgRT~~~~knRw~~~lk~k~~~~ 116 (278)
+..||-.|+.....++.++|.++..|-. .+.-+|..|++.+|+..+++.+.-.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 6689999999999999999999988822 2334688899999999888866544
No 59
>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=74.05 E-value=5.3 Score=27.00 Aligned_cols=41 Identities=22% Similarity=0.291 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 70 EEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 70 EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+++..++.+.-..|..+.+||+.+ |-+...|+.+....+++
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 566677777766677899999999 99999999988777754
No 60
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=72.91 E-value=3.9 Score=43.20 Aligned_cols=45 Identities=11% Similarity=0.236 Sum_probs=41.2
Q ss_pred CCCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHh
Q 023744 65 RAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTL 109 (278)
Q Consensus 65 ~~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~l 109 (278)
..||..|-.++-+++..|..++-.|++.++++|-.+|-..|+...
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWK 664 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWK 664 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHH
Confidence 579999999999999999999999999999999999998876443
No 61
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=72.38 E-value=48 Score=32.70 Aligned_cols=45 Identities=11% Similarity=0.134 Sum_probs=39.4
Q ss_pred CCCChHHHHHHHHHHHHcCCCccccc-cccCCCCHHHHHHHHHHHh
Q 023744 65 RAFTPEEDEMIIRAHARFGNKWATIA-RLLNGRTDNAIKNHWNSTL 109 (278)
Q Consensus 65 ~~WT~EED~~Ll~~v~~~G~kW~~IA-~~lpgRT~~~~knRw~~~l 109 (278)
..|+++|-..+-+....||.++..|. ..++.|+-..|-..|+-..
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWK 323 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWK 323 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhh
Confidence 47999999999999999999999996 5799999999988775443
No 62
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=68.19 E-value=4.2 Score=40.77 Aligned_cols=46 Identities=22% Similarity=0.345 Sum_probs=39.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCccccccccccc
Q 023744 11 IKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQ 57 (278)
Q Consensus 11 ~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~ 57 (278)
....||.||--+|.++...|| .++.+|-+.||.|+..++..-|...
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~G-K~F~kIrq~LP~rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFG-KDFHKIRQALPHRSLASLVQYYYSW 231 (534)
T ss_pred CcccchHHHHHHHHHHHHHhc-ccHHHHHHHccCccHHHHHHHHHHH
Confidence 455799999999999999999 6799999999999999887766543
No 63
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=63.34 E-value=9.9 Score=34.17 Aligned_cols=45 Identities=22% Similarity=0.316 Sum_probs=34.3
Q ss_pred CCChHHHHHHHHHHHHcCCCcccccccc---CCCCHHHHHHHHHHHhhh
Q 023744 66 AFTPEEDEMIIRAHARFGNKWATIARLL---NGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 66 ~WT~EED~~Ll~~v~~~G~kW~~IA~~l---pgRT~~~~knRw~~~lk~ 111 (278)
.|++++|-+|+.+| ..|+.-..|+.-+ -.-|-..|..||+.++=-
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 59999999999999 5666666665533 234889999999988743
No 64
>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=62.00 E-value=5 Score=26.87 Aligned_cols=38 Identities=26% Similarity=0.448 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccc
Q 023744 18 EEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCN 56 (278)
Q Consensus 18 EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n 56 (278)
+=|..|+.+.+..+...|..||+.+ |=+...|..|+.+
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 4588889999998988999999998 8888999888753
No 65
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=61.43 E-value=11 Score=31.75 Aligned_cols=46 Identities=15% Similarity=0.159 Sum_probs=38.8
Q ss_pred hHHHHHHHHHHHHcCC-CccccccccCCCCHHHHHHHHHHHhhhhhhc
Q 023744 69 PEEDEMIIRAHARFGN-KWATIARLLNGRTDNAIKNHWNSTLKRKCSS 115 (278)
Q Consensus 69 ~EED~~Ll~~v~~~G~-kW~~IA~~lpgRT~~~~knRw~~~lk~k~~~ 115 (278)
++-|..|+.+..+.|. .|++||+.+ |-+...|..|++.+...-...
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 4678899999988885 599999999 999999999998877665443
No 66
>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=60.37 E-value=14 Score=24.64 Aligned_cols=38 Identities=24% Similarity=0.375 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHcCC-CccccccccCCCCHHHHHHHHHHH
Q 023744 70 EEDEMIIRAHARFGN-KWATIARLLNGRTDNAIKNHWNST 108 (278)
Q Consensus 70 EED~~Ll~~v~~~G~-kW~~IA~~lpgRT~~~~knRw~~~ 108 (278)
+=|..|+.+....|. .|.+||+.+ |=+...|..|++.+
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 457889999888885 499999999 99999999998653
No 67
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=59.01 E-value=14 Score=29.78 Aligned_cols=40 Identities=23% Similarity=0.257 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 71 EDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 71 ED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
++..++.+....|..+.+||+.+ |.+...|+.++....++
T Consensus 117 ~~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 117 QCRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34444455445677899999999 99999999998765443
No 68
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=58.95 E-value=9.7 Score=39.56 Aligned_cols=45 Identities=13% Similarity=0.395 Sum_probs=33.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHhhhC----------CCCCccccccccccc
Q 023744 12 KGPWSPEEDEALQQLVQKHGPRNWSLISKSI----------PGRSGKSCRLRWCNQ 57 (278)
Q Consensus 12 kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~l----------p~Rs~kqcr~Rw~n~ 57 (278)
|..||..|.+-+..+++++| +|+..|-+++ .-++--|++++|.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~ 142 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRL 142 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHH
Confidence 66899999999999999999 7799984433 223445666666543
No 69
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=56.07 E-value=7.2 Score=32.77 Aligned_cols=44 Identities=11% Similarity=0.185 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcc
Q 023744 18 EEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQV 62 (278)
Q Consensus 18 EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i 62 (278)
+-|..|+.+.++.|...|.+||+.+ |-+...|+.|+.+....++
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 6789999999999988999999999 9999999999988765443
No 70
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=55.40 E-value=13 Score=31.66 Aligned_cols=46 Identities=9% Similarity=0.083 Sum_probs=39.0
Q ss_pred hHHHHHHHHHHHHcCC-CccccccccCCCCHHHHHHHHHHHhhhhhhc
Q 023744 69 PEEDEMIIRAHARFGN-KWATIARLLNGRTDNAIKNHWNSTLKRKCSS 115 (278)
Q Consensus 69 ~EED~~Ll~~v~~~G~-kW~~IA~~lpgRT~~~~knRw~~~lk~k~~~ 115 (278)
++-|.+|+.+..+.|. .|++||+.+ |=+...|..|++.+.+..+..
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 5678899998888885 599999999 999999999998888776543
No 71
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=55.28 E-value=17 Score=37.58 Aligned_cols=50 Identities=24% Similarity=0.393 Sum_probs=44.6
Q ss_pred ccCCCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhhh
Q 023744 63 EHRAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (278)
Q Consensus 63 ~k~~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k 112 (278)
...+|+.+|-++...+....|.+.+.|+..+|+|...+||.+|..--++.
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 45789999999999999999999999999999999999999987555443
No 72
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=53.90 E-value=5.9 Score=33.75 Aligned_cols=45 Identities=22% Similarity=0.175 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcc
Q 023744 17 PEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQV 62 (278)
Q Consensus 17 ~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i 62 (278)
.+-|.+|+.+.++.|...|.+||+.+ |-+...|+.|+++....++
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 46788999999999988999999999 8999999999988765443
No 73
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=53.73 E-value=16 Score=28.97 Aligned_cols=48 Identities=17% Similarity=0.382 Sum_probs=31.0
Q ss_pred cCCCChHHHHHHHHHHHHc----CC----CccccccccCC-----CCHHHHHHHHHHHhhh
Q 023744 64 HRAFTPEEDEMIIRAHARF----GN----KWATIARLLNG-----RTDNAIKNHWNSTLKR 111 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~----G~----kW~~IA~~lpg-----RT~~~~knRw~~~lk~ 111 (278)
...||+|+|..||+.+..| |. +|..+...+.+ =+..|+.++.+.+-++
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 3569999999999998776 62 34444443322 2667777777544433
No 74
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=53.26 E-value=4.1 Score=31.41 Aligned_cols=17 Identities=41% Similarity=0.675 Sum_probs=10.0
Q ss_pred CccccCCCChHHHHHHH
Q 023744 60 PQVEHRAFTPEEDEMII 76 (278)
Q Consensus 60 p~i~k~~WT~EED~~Ll 76 (278)
|..-.|-||+|+|+.|.
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 55567899999999984
No 75
>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=52.83 E-value=10 Score=32.80 Aligned_cols=40 Identities=28% Similarity=0.275 Sum_probs=34.4
Q ss_pred CCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHH
Q 023744 66 AFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWN 106 (278)
Q Consensus 66 ~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~ 106 (278)
.||+|+.++|.++. .-|..=++||+.|.|.|.++|.-+.+
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 59999999999888 67888899999997799998887653
No 76
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=52.26 E-value=19 Score=26.71 Aligned_cols=44 Identities=23% Similarity=0.408 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCcc-------ccCCCChHHHHHH
Q 023744 20 DEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQV-------EHRAFTPEEDEMI 75 (278)
Q Consensus 20 D~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i-------~k~~WT~EED~~L 75 (278)
+.+|.++|+.|| |..+++.+.-|+-+ -+|.+ .+.+|-.+..+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~i~CF~---------~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERININCFK---------NNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTTSSSTT---------SS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcccccCC---------CCCchHHHHHHHhcCHhHHHHHHHh
Confidence 578999999999 99999998544321 23333 4567777766554
No 77
>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=51.80 E-value=11 Score=30.58 Aligned_cols=45 Identities=20% Similarity=0.372 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHHHHHh------------CC------------------CChHHHhhhCCCCCcccccccccccC
Q 023744 14 PWSPEEDEALQQLVQKH------------GP------------------RNWSLISKSIPGRSGKSCRLRWCNQL 58 (278)
Q Consensus 14 ~WT~EED~~L~~lV~ky------------G~------------------~nW~~Ia~~lp~Rs~kqcr~Rw~n~L 58 (278)
++|++||-.|...|.+| |. .-....+...|..|..+-|+||++++
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 58999999999999877 10 01455666778888888888888876
No 78
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=49.49 E-value=5.3 Score=39.33 Aligned_cols=45 Identities=22% Similarity=0.401 Sum_probs=38.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHhhh-----CCC-CCccccccccccc
Q 023744 12 KGPWSPEEDEALQQLVQKHGPRNWSLISKS-----IPG-RSGKSCRLRWCNQ 57 (278)
Q Consensus 12 kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~-----lp~-Rs~kqcr~Rw~n~ 57 (278)
-..||+||-+-|.++.++|.-+ |--|+.. ++. ||....++||...
T Consensus 130 dn~WskeETD~LF~lck~fDLR-f~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLR-FFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred cccccHHHHHHHHHHHHhcCee-EEEEeeccchhhccccccHHHHHHHHHHH
Confidence 3679999999999999999866 9999877 555 9999999999654
No 79
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=47.30 E-value=20 Score=27.20 Aligned_cols=37 Identities=27% Similarity=0.482 Sum_probs=27.6
Q ss_pred HHHHHHHHcCC--------CccccccccCC---CC--HHHHHHHHHHHhh
Q 023744 74 MIIRAHARFGN--------KWATIARLLNG---RT--DNAIKNHWNSTLK 110 (278)
Q Consensus 74 ~Ll~~v~~~G~--------kW~~IA~~lpg---RT--~~~~knRw~~~lk 110 (278)
.|..+|.+.|+ +|..|++.|.- -+ ..+++..|..+|.
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 47888888885 59999998722 12 3678999988774
No 80
>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=45.41 E-value=27 Score=27.23 Aligned_cols=39 Identities=18% Similarity=0.277 Sum_probs=28.5
Q ss_pred HHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 72 DEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 72 D~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+..++.++...|..+.+||+.+ |=+...|+++.+..+++
T Consensus 115 ~~~ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 115 EREVLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HHHHHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334444445678899999999 77999999988776544
No 81
>smart00595 MADF subfamily of SANT domain.
Probab=44.97 E-value=12 Score=28.12 Aligned_cols=23 Identities=30% Similarity=0.608 Sum_probs=19.5
Q ss_pred ccccccccCCCCHHHHHHHHHHHh
Q 023744 86 WATIARLLNGRTDNAIKNHWNSTL 109 (278)
Q Consensus 86 W~~IA~~lpgRT~~~~knRw~~~l 109 (278)
|..||..| |-+...|+.+|+++-
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR 52 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLR 52 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHH
Confidence 99999999 559999999996553
No 82
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=44.30 E-value=1.3e+02 Score=29.99 Aligned_cols=57 Identities=19% Similarity=0.293 Sum_probs=42.6
Q ss_pred cccCCCChHHHHHHHHHHHHcCC----------------CccccccccC-----CCCHHHHHHHHHHHhhhhhhcccc
Q 023744 62 VEHRAFTPEEDEMIIRAHARFGN----------------KWATIARLLN-----GRTDNAIKNHWNSTLKRKCSSMLT 118 (278)
Q Consensus 62 i~k~~WT~EED~~Ll~~v~~~G~----------------kW~~IA~~lp-----gRT~~~~knRw~~~lk~k~~~~~~ 118 (278)
..-|.|+++=|+...++.+.|-. +=.-||+++. .||.+||-.|-+-+-|++....+.
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq~ 151 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQA 151 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHh
Confidence 45689999999999999998742 2355676652 488899999987777777665543
No 83
>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=43.55 E-value=40 Score=21.44 Aligned_cols=40 Identities=15% Similarity=0.305 Sum_probs=28.7
Q ss_pred CChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHH
Q 023744 67 FTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNST 108 (278)
Q Consensus 67 WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~ 108 (278)
+++ ++..++.++...|..+..||+.+ |=+...|+.+....
T Consensus 11 l~~-~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPE-REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCH-HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 434 45566666666778899999998 78888887766544
No 84
>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=43.42 E-value=28 Score=33.54 Aligned_cols=85 Identities=25% Similarity=0.454 Sum_probs=60.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCC---ChHHHhhhCCCCCcccccccccccCCCccccCCCChHHHHHHHHHHHH-c-----C
Q 023744 13 GPWSPEEDEALQQLVQKHGPR---NWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHAR-F-----G 83 (278)
Q Consensus 13 g~WT~EED~~L~~lV~kyG~~---nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~-~-----G 83 (278)
..||.-|...|+.+.+..... +-.+|++.+++|+..+++. |.++|+.. .+.+++.+ | |
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 369999999999998765322 4678899999999988865 44444322 23444443 2 2
Q ss_pred C------------CccccccccCCCCHHHHHHHHHHHhh
Q 023744 84 N------------KWATIARLLNGRTDNAIKNHWNSTLK 110 (278)
Q Consensus 84 ~------------kW~~IA~~lpgRT~~~~knRw~~~lk 110 (278)
. -|..+|+.+.|.-...+-.-|-.+|-
T Consensus 89 ~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 89 PRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 1 19999999999988888888866653
No 85
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=42.20 E-value=21 Score=35.15 Aligned_cols=40 Identities=23% Similarity=0.351 Sum_probs=35.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHh-hhCCCCCcccccccc
Q 023744 14 PWSPEEDEALQQLVQKHGPRNWSLIS-KSIPGRSGKSCRLRW 54 (278)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~Ia-~~lp~Rs~kqcr~Rw 54 (278)
-|+.+|-..+.+-++.|| +++.+|. ..++.|+...|-+-|
T Consensus 279 ~wsEeEcr~FEegl~~yG-KDF~lIr~nkvrtRsvgElVeyY 319 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYG-KDFHLIRANKVRTRSVGELVEYY 319 (445)
T ss_pred cCCHHHHHHHHHHHHHhc-ccHHHHHhcccccchHHHHHHHH
Confidence 599999999999999999 7799996 577899988887765
No 86
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=41.07 E-value=36 Score=26.11 Aligned_cols=38 Identities=26% Similarity=0.434 Sum_probs=28.0
Q ss_pred HHHHHHHHcCC--------CccccccccCC-----CCHHHHHHHHHHHhhh
Q 023744 74 MIIRAHARFGN--------KWATIARLLNG-----RTDNAIKNHWNSTLKR 111 (278)
Q Consensus 74 ~Ll~~v~~~G~--------kW~~IA~~lpg-----RT~~~~knRw~~~lk~ 111 (278)
.|..+|.+.|+ .|..|++.|.- ....+++..|.++|..
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 47778888875 59999998732 2356788888887754
No 87
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=38.94 E-value=41 Score=27.73 Aligned_cols=35 Identities=14% Similarity=0.191 Sum_probs=25.8
Q ss_pred HHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 76 IRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 76 l~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+.+....|..+.+||..| |-+...|+.+....+++
T Consensus 137 l~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 137 ITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333334577899999999 89999999887654443
No 88
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=38.18 E-value=47 Score=26.23 Aligned_cols=68 Identities=13% Similarity=0.230 Sum_probs=37.5
Q ss_pred CCCCCHHHHHHHHHHHHHh----CC---CChHHHhhhC----CCC-Ccc-------cccccccccCCCccccC---CCCh
Q 023744 12 KGPWSPEEDEALQQLVQKH----GP---RNWSLISKSI----PGR-SGK-------SCRLRWCNQLSPQVEHR---AFTP 69 (278)
Q Consensus 12 kg~WT~EED~~L~~lV~ky----G~---~nW~~Ia~~l----p~R-s~k-------qcr~Rw~n~L~p~i~k~---~WT~ 69 (278)
...||+||+-.|++.+..| |. .+|..+-..+ ... +.. ..+.||.+.... .+.| .++.
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~~ 82 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFSK 82 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCCC
Confidence 4569999999999988877 42 2454444333 111 112 233445444432 1222 5666
Q ss_pred HHHHHHHHHHH
Q 023744 70 EEDEMIIRAHA 80 (278)
Q Consensus 70 EED~~Ll~~v~ 80 (278)
.-|..+.++-+
T Consensus 83 ~hd~~~f~Lsk 93 (98)
T PF04504_consen 83 PHDRRLFELSK 93 (98)
T ss_pred HhHHHHHHHHH
Confidence 66776666654
No 89
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=38.07 E-value=38 Score=29.26 Aligned_cols=39 Identities=26% Similarity=0.347 Sum_probs=30.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccc
Q 023744 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRW 54 (278)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw 54 (278)
.||+|+.++|.+|... | ..-.+||+.|.+.+...+.-+.
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 3999999999999966 5 4589999999657776665544
No 90
>PRK04217 hypothetical protein; Provisional
Probab=37.79 E-value=48 Score=26.94 Aligned_cols=45 Identities=18% Similarity=0.085 Sum_probs=35.7
Q ss_pred CCCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 65 RAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 65 ~~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
...|++| ..++.+....|-...+||+.+ |-+...|+.+++...++
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3455555 677777777888999999999 99999999999765544
No 91
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=37.00 E-value=43 Score=27.50 Aligned_cols=33 Identities=18% Similarity=0.201 Sum_probs=25.0
Q ss_pred HHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 78 ~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+....|..+..||+.| |-+...|+++.....++
T Consensus 136 l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 136 LRYVEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334567899999999 89999999988654433
No 92
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=36.97 E-value=46 Score=25.65 Aligned_cols=46 Identities=15% Similarity=0.182 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHHHcCC-CccccccccCCCCHHHHHHHHHHHhhhhhhc
Q 023744 69 PEEDEMIIRAHARFGN-KWATIARLLNGRTDNAIKNHWNSTLKRKCSS 115 (278)
Q Consensus 69 ~EED~~Ll~~v~~~G~-kW~~IA~~lpgRT~~~~knRw~~~lk~k~~~ 115 (278)
++.|..|+.+....|. .++.||+.+ |-+...|..+.+.+.+..+..
T Consensus 2 d~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 2 DEIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred CHHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 3578889988888774 699999999 999999999998888776544
No 93
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=36.24 E-value=40 Score=34.29 Aligned_cols=61 Identities=18% Similarity=0.293 Sum_probs=47.5
Q ss_pred HHHhhhCCCCCcccccccccccCCCccccCCCChHHHHHHHHHHHHcCCCccccc-cccCCCCHHHHHHHHH
Q 023744 36 SLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARFGNKWATIA-RLLNGRTDNAIKNHWN 106 (278)
Q Consensus 36 ~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~~G~kW~~IA-~~lpgRT~~~~knRw~ 106 (278)
..|+..+|---+.-||+. -..|+..|-.++-++..+||.++..|- ++||=++-..|-..|+
T Consensus 267 ~Ais~LVPlGGPvLCRDe----------mEEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 267 KAISYLVPLGGPVLCRDE----------MEEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred HHHHHhhcCCCceeehhh----------hhhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 345555565556666663 367999999999999999999999995 6789898888877664
No 94
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=35.60 E-value=52 Score=27.46 Aligned_cols=40 Identities=18% Similarity=0.117 Sum_probs=30.5
Q ss_pred HHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhhh
Q 023744 72 DEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (278)
Q Consensus 72 D~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k 112 (278)
+..++.+....|-...+||+.+ |-+...|+.+...-+++-
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 3444455555677899999999 999999999987766554
No 95
>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=34.46 E-value=81 Score=30.50 Aligned_cols=50 Identities=24% Similarity=0.403 Sum_probs=37.3
Q ss_pred cCCCChHHHHHHHHHHHH-cCCC---ccccccccCCCCHHHHHHHHHHHhhhhhh
Q 023744 64 HRAFTPEEDEMIIRAHAR-FGNK---WATIARLLNGRTDNAIKNHWNSTLKRKCS 114 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~-~G~k---W~~IA~~lpgRT~~~~knRw~~~lk~k~~ 114 (278)
-..||.-|...|+++..- .|.. -.+|++.++||+..+|++-- ..||.+..
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl-~~LK~rva 74 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFL-QQLKGRVA 74 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHH-HHHHHHHH
Confidence 357999999988888654 4554 45778899999999999855 55555443
No 96
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=34.15 E-value=57 Score=27.57 Aligned_cols=38 Identities=16% Similarity=-0.011 Sum_probs=29.6
Q ss_pred HHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhhhh
Q 023744 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKC 113 (278)
Q Consensus 75 Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k~ 113 (278)
++.++...|-...+||+.| |-+...|+.|...-+++-.
T Consensus 135 v~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~ 172 (178)
T PRK12529 135 AFLMATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCL 172 (178)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 3444445677899999999 9999999999887776543
No 97
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=34.09 E-value=53 Score=28.15 Aligned_cols=36 Identities=22% Similarity=0.231 Sum_probs=26.6
Q ss_pred HHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhh
Q 023744 74 MIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (278)
Q Consensus 74 ~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk 110 (278)
.++.+....|-...+||..+ |-+...|++|+....+
T Consensus 141 ~i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~ 176 (192)
T PRK09643 141 AALVAVDMQGYSVADAARML-GVAEGTVKSRCARGRA 176 (192)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 33444445677899999999 9999999999854443
No 98
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=34.06 E-value=57 Score=26.55 Aligned_cols=32 Identities=16% Similarity=0.166 Sum_probs=25.2
Q ss_pred HHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 79 HARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 79 v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+...|-.-.+||..| |-+...|+++....+++
T Consensus 118 ~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 118 RYWEDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred HHHhcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334566789999999 99999999998765544
No 99
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=33.51 E-value=52 Score=27.54 Aligned_cols=30 Identities=10% Similarity=0.025 Sum_probs=23.5
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
..|..+.+||..+ |-+...++++.....++
T Consensus 150 ~~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 150 IEDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred hhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 99999999987655443
No 100
>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=32.96 E-value=59 Score=27.85 Aligned_cols=36 Identities=8% Similarity=-0.010 Sum_probs=27.4
Q ss_pred HHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 75 Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
++.+....|....+||+.| |-+.+.|+.|....+++
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 4444445577899999999 99999999998666544
No 101
>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=32.75 E-value=79 Score=27.04 Aligned_cols=47 Identities=17% Similarity=0.214 Sum_probs=37.6
Q ss_pred ccCCCChHHHHHHHHHHHHcCCCccccccccC----CCCHHHHHHHHHHHh
Q 023744 63 EHRAFTPEEDEMIIRAHARFGNKWATIARLLN----GRTDNAIKNHWNSTL 109 (278)
Q Consensus 63 ~k~~WT~EED~~Ll~~v~~~G~kW~~IA~~lp----gRT~~~~knRw~~~l 109 (278)
....-|..|.+-|..|+.+||.++...+.-.. -.|..+|+.+...+.
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 44578899999999999999999988886432 379999998876543
No 102
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=32.49 E-value=73 Score=25.12 Aligned_cols=48 Identities=17% Similarity=0.184 Sum_probs=38.2
Q ss_pred cCCCChHHHHHHHHHHHHcCCCccccccccCCC-CHHHHHHHHHHHhhhh
Q 023744 64 HRAFTPEEDEMIIRAHARFGNKWATIARLLNGR-TDNAIKNHWNSTLKRK 112 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgR-T~~~~knRw~~~lk~k 112 (278)
+..||.|+-..+++++..-|..=+.||+.+ |- ..+++..++..+....
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 578999999999999999999889999999 75 7777776554444333
No 103
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=32.48 E-value=25 Score=36.46 Aligned_cols=47 Identities=23% Similarity=0.435 Sum_probs=41.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccc
Q 023744 9 DRIKGPWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCN 56 (278)
Q Consensus 9 ~~~kg~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n 56 (278)
....++|+.+|-++........|. +.+.|+..++.|+.++++.+|..
T Consensus 406 ~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 406 KLETDKWDASETELFYKALSERGS-DFSLISNLFPLRDRKQIKAKFKK 452 (584)
T ss_pred ccccCcccchhhHHhhhHHhhhcc-cccccccccccccHHHHHHHHhh
Confidence 455678999999999999999995 69999999999999999887744
No 104
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=32.30 E-value=61 Score=36.63 Aligned_cols=70 Identities=16% Similarity=0.162 Sum_probs=44.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCccccCCCChHHHHHHHHHHHHc-CCCcccc
Q 023744 14 PWSPEEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQVEHRAFTPEEDEMIIRAHARF-GNKWATI 89 (278)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~i~k~~WT~EED~~Ll~~v~~~-G~kW~~I 89 (278)
-|..+||..|+--|-+||-++|..|-.- +.-|.. =+..+...+..+.|=..+-..|+.+...+ +.+|...
T Consensus 1135 ~W~~e~Ds~LLiGI~khGygswe~Ir~D-----p~L~l~-dKi~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~ 1205 (1373)
T KOG0384|consen 1135 DWGSEDDSMLLIGIFKHGYGSWEAIRLD-----PDLGLT-DKIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKK 1205 (1373)
T ss_pred CCCchhhhhHhhhhhhcccccHHHhccC-----ccccch-hhhcccccCCchHHHHHHHHHHHHHHhhcccCCCchh
Confidence 5999999999999999999999998531 111111 00111111445667777777777777666 4445443
No 105
>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=32.22 E-value=33 Score=26.42 Aligned_cols=29 Identities=24% Similarity=0.471 Sum_probs=23.0
Q ss_pred HHHHHHHHHHcCCCccccccccCCCCHHHH
Q 023744 72 DEMIIRAHARFGNKWATIARLLNGRTDNAI 101 (278)
Q Consensus 72 D~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~ 101 (278)
|+.|..+....|.+|..+|.+| |=|..+|
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 4568888899999999999998 6555443
No 106
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=32.04 E-value=63 Score=26.81 Aligned_cols=35 Identities=23% Similarity=0.209 Sum_probs=26.2
Q ss_pred HHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 76 IRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 76 l~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+.+..-.|..-.+||+.| |.+...|+.+....+++
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 333344566789999999 99999999998765544
No 107
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=31.53 E-value=57 Score=27.65 Aligned_cols=30 Identities=10% Similarity=0.081 Sum_probs=23.1
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
..|....+||+.+ |-+...|++++....++
T Consensus 152 ~~g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 152 FDGLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3456789999999 88999999988655443
No 108
>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=31.37 E-value=60 Score=26.88 Aligned_cols=32 Identities=16% Similarity=0.263 Sum_probs=24.0
Q ss_pred HHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 79 HARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 79 v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
....|....+||..+ |-|...|+++.....++
T Consensus 131 ~~~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 131 RYYHDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred HHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334566788999988 88999999988655544
No 109
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=31.34 E-value=57 Score=28.04 Aligned_cols=39 Identities=13% Similarity=0.169 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHh
Q 023744 70 EEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTL 109 (278)
Q Consensus 70 EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~l 109 (278)
++...++.+..-.|-.+.+||+.+ |-+...++.+|...-
T Consensus 138 ~~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 138 PRQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 344455555556778899999999 999999999996543
No 110
>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=30.98 E-value=50 Score=27.72 Aligned_cols=29 Identities=14% Similarity=0.208 Sum_probs=22.6
Q ss_pred cCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 82 FGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 82 ~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
.|....+||+.+ |=+...|+++.....++
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 455789999999 88899999988655544
No 111
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=30.93 E-value=28 Score=35.30 Aligned_cols=40 Identities=23% Similarity=0.395 Sum_probs=34.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHh-hhCCCCCcccccccc
Q 023744 14 PWSPEEDEALQQLVQKHGPRNWSLIS-KSIPGRSGKSCRLRW 54 (278)
Q Consensus 14 ~WT~EED~~L~~lV~kyG~~nW~~Ia-~~lp~Rs~kqcr~Rw 54 (278)
.||.-|-.++.+++++|| +++..|. .++|.++..++-+-|
T Consensus 287 EWSasEanLFEeALeKyG-KDFndIrqdfLPWKSl~sIveyY 327 (693)
T KOG3554|consen 287 EWSASEANLFEEALEKYG-KDFNDIRQDFLPWKSLTSIVEYY 327 (693)
T ss_pred hccchhhHHHHHHHHHhc-ccHHHHHHhhcchHHHHHHHHHH
Confidence 499999999999999999 6799997 566998888876655
No 112
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=30.90 E-value=28 Score=23.25 Aligned_cols=38 Identities=29% Similarity=0.413 Sum_probs=18.9
Q ss_pred CCCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHH
Q 023744 65 RAFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNH 104 (278)
Q Consensus 65 ~~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knR 104 (278)
..+|.+|=..|..++ .-|..-.+||+.| ||+...|.+.
T Consensus 3 ~~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~re 40 (44)
T PF13936_consen 3 KHLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSRE 40 (44)
T ss_dssp ---------HHHHHH-CS---HHHHHHHT-T--HHHHHHH
T ss_pred cchhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHHH
Confidence 357777777766664 6788889999999 9999888653
No 113
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=30.74 E-value=68 Score=26.22 Aligned_cols=35 Identities=14% Similarity=0.003 Sum_probs=26.0
Q ss_pred HHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 76 IRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 76 l~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+.+....|-.-.+||+.+ |-+...|+++.....++
T Consensus 115 ~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 115 VLAHYLEEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred HHHHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333344567789999999 99999999997655443
No 114
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=30.38 E-value=65 Score=27.43 Aligned_cols=32 Identities=19% Similarity=0.061 Sum_probs=25.1
Q ss_pred HHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 79 HARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 79 v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
....|-...+||..| |-+...|+++.....++
T Consensus 118 ~~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 118 TELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred HHhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 334577899999999 99999999998655544
No 115
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=30.35 E-value=70 Score=27.08 Aligned_cols=36 Identities=22% Similarity=0.241 Sum_probs=26.5
Q ss_pred HHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 75 Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
++.+....|....+||..| |-+...|+.+....+++
T Consensus 147 i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 147 ILILRVVVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344444577899999999 89999999987655544
No 116
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=30.00 E-value=72 Score=27.06 Aligned_cols=33 Identities=9% Similarity=0.132 Sum_probs=25.4
Q ss_pred HHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 78 ~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+....|-...+||+.| |-+...+++++....++
T Consensus 142 l~~~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 142 LVYYHEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred HHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3334567899999999 88999999998655443
No 117
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=29.80 E-value=36 Score=26.26 Aligned_cols=43 Identities=19% Similarity=0.141 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCc
Q 023744 18 EEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQ 61 (278)
Q Consensus 18 EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~ 61 (278)
+.|..|+.++.+.+...+..|++.+ +-+...|+.|..+....+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 5688888999988888899999998 888899988887765444
No 118
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=29.76 E-value=70 Score=27.39 Aligned_cols=36 Identities=11% Similarity=-0.010 Sum_probs=26.5
Q ss_pred HHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 75 Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
++.+....|-.+.+||+.| |=+...|+++....+++
T Consensus 144 i~~L~~~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 144 AVVLRHIEGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3344444567899999999 89999999887655544
No 119
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=29.68 E-value=71 Score=26.83 Aligned_cols=35 Identities=14% Similarity=0.160 Sum_probs=26.0
Q ss_pred HHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 76 IRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 76 l~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+.+....|....+||..| |-+...|+.+....+++
T Consensus 140 ~~l~~~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 140 VQSISVEGASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred HHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 333334567789999999 99999999988665544
No 120
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=29.66 E-value=70 Score=27.33 Aligned_cols=33 Identities=3% Similarity=-0.104 Sum_probs=25.2
Q ss_pred HHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 78 ~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+....|-...+||..| |-+...|+.|.....++
T Consensus 145 L~~~~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 145 MREYLELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334567799999999 99999999997655443
No 121
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=29.29 E-value=74 Score=27.20 Aligned_cols=34 Identities=9% Similarity=0.054 Sum_probs=25.3
Q ss_pred HHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 77 RAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 77 ~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
.+....|-...+||..| |-+...|+.|....+++
T Consensus 151 ~l~~~eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 151 QAVYLEELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred HHHHHcCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 33334567789999999 99999999997655543
No 122
>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=28.58 E-value=49 Score=25.45 Aligned_cols=29 Identities=24% Similarity=0.377 Sum_probs=22.6
Q ss_pred HHHHHHHHHHcCCCccccccccCCCCHHHH
Q 023744 72 DEMIIRAHARFGNKWATIARLLNGRTDNAI 101 (278)
Q Consensus 72 D~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~ 101 (278)
|..|..+....|.+|..+|+.| |=+...|
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 5667778888999999999998 6555443
No 123
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=28.36 E-value=81 Score=26.57 Aligned_cols=35 Identities=26% Similarity=0.148 Sum_probs=26.7
Q ss_pred HHHHHcCCCccccccccCCCCHHHHHHHHHHHhhhh
Q 023744 77 RAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (278)
Q Consensus 77 ~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k 112 (278)
.++...|-...+||+.| |-+...|+++....+++-
T Consensus 139 ~l~~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~L 173 (181)
T PRK12536 139 VHVKLEGLSVAETAQLT-GLSESAVKVGIHRGLKAL 173 (181)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 33445567899999999 999999999986655443
No 124
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=28.01 E-value=68 Score=26.82 Aligned_cols=29 Identities=10% Similarity=0.053 Sum_probs=22.3
Q ss_pred cCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 82 FGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 82 ~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
.|....+||+.+ |-+...|+++.....++
T Consensus 151 ~g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356788899988 88999999988655443
No 125
>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=27.91 E-value=37 Score=25.75 Aligned_cols=34 Identities=35% Similarity=0.575 Sum_probs=24.9
Q ss_pred ChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHH
Q 023744 68 TPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKN 103 (278)
Q Consensus 68 T~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~kn 103 (278)
.+||.++|+..= ..|.+|..+|+.| |=+...|.+
T Consensus 1 ~~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 1 KQEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred ChHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHHHH
Confidence 367888888422 5688999999999 766666654
No 126
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=26.98 E-value=78 Score=22.22 Aligned_cols=35 Identities=20% Similarity=0.390 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHH
Q 023744 70 EEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHW 105 (278)
Q Consensus 70 EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw 105 (278)
++|+..+.+..+.|-.-.+||+.+ ||+...|++..
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 455556677778999999999999 99999887753
No 127
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=26.84 E-value=92 Score=25.16 Aligned_cols=30 Identities=17% Similarity=0.142 Sum_probs=23.0
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
..|....+||+.+ |-+...|+++....+++
T Consensus 120 ~~~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 120 FVGKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4456788999999 89999999887655543
No 128
>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=26.47 E-value=68 Score=21.02 Aligned_cols=34 Identities=29% Similarity=0.433 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHcCCCccccccccCCCCHHHHHHHH
Q 023744 71 EDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHW 105 (278)
Q Consensus 71 ED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw 105 (278)
|.+.|.++...++++....|+.| |=+...+..+-
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 67788889999999999999988 66666655543
No 129
>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=26.12 E-value=94 Score=25.96 Aligned_cols=33 Identities=21% Similarity=0.250 Sum_probs=25.0
Q ss_pred HHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 78 ~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+....|-...+||+.+ |-+...|+.+.....++
T Consensus 145 l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 177 (183)
T TIGR02999 145 LRFFAGLTVEEIAELL-GVSVRTVERDWRFARAW 177 (183)
T ss_pred HHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3334566789999999 99999999998655443
No 130
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=26.04 E-value=89 Score=26.77 Aligned_cols=39 Identities=21% Similarity=0.188 Sum_probs=28.6
Q ss_pred HHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 72 DEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 72 D~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+..++.+....|-...+||+.| |-+...|+.|....+++
T Consensus 121 ~r~i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~ 159 (187)
T PRK12516 121 QREAIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQR 159 (187)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344444445677899999999 99999999997655543
No 131
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=25.74 E-value=44 Score=27.35 Aligned_cols=43 Identities=14% Similarity=0.119 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhCCCChHHHhhhCCCCCcccccccccccCCCc
Q 023744 18 EEDEALQQLVQKHGPRNWSLISKSIPGRSGKSCRLRWCNQLSPQ 61 (278)
Q Consensus 18 EED~~L~~lV~kyG~~nW~~Ia~~lp~Rs~kqcr~Rw~n~L~p~ 61 (278)
+-|.+|+++.++.+...+..||+.+ |-+...|+.|-++..+-+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~G 50 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEG 50 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCC
Confidence 5688899999999988999999999 889999998887765443
No 132
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=25.37 E-value=93 Score=25.34 Aligned_cols=45 Identities=13% Similarity=0.103 Sum_probs=36.9
Q ss_pred hHHHHHHHHHHHHcCC-CccccccccCCCCHHHHHHHHHHHhhhhhh
Q 023744 69 PEEDEMIIRAHARFGN-KWATIARLLNGRTDNAIKNHWNSTLKRKCS 114 (278)
Q Consensus 69 ~EED~~Ll~~v~~~G~-kW~~IA~~lpgRT~~~~knRw~~~lk~k~~ 114 (278)
++-|.+|+++..+.+. .+..||+.+ |-+...|.+|-..+.+.-+.
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI 52 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVI 52 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCce
Confidence 4567888888888775 599999999 99999999999877776543
No 133
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=25.36 E-value=98 Score=25.32 Aligned_cols=28 Identities=32% Similarity=0.373 Sum_probs=21.9
Q ss_pred cCCCccccccccCCCCHHHHHHHHHHHhh
Q 023744 82 FGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (278)
Q Consensus 82 ~G~kW~~IA~~lpgRT~~~~knRw~~~lk 110 (278)
.|-...+||+.| |-+...|+++.....+
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 466788999999 8899999988755443
No 134
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=25.28 E-value=1e+02 Score=25.17 Aligned_cols=34 Identities=21% Similarity=0.223 Sum_probs=24.9
Q ss_pred HHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 77 RAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 77 ~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
.+....|-.-.+||..| |-+...++.|....+++
T Consensus 115 ~l~~~~~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 115 LLRKLEGLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred HHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33334455678999999 99999999998655544
No 135
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=25.21 E-value=1e+02 Score=25.22 Aligned_cols=36 Identities=22% Similarity=0.150 Sum_probs=26.8
Q ss_pred HHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 75 Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
++.+..-.|-...+||+.+ |-+...|+.|.....++
T Consensus 121 v~~L~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 121 AFLLAQVDGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344445677899999999 99999999998665543
No 136
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=25.19 E-value=96 Score=26.16 Aligned_cols=33 Identities=15% Similarity=0.389 Sum_probs=25.3
Q ss_pred HHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 78 ~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+....|-...+||..| |-+...|+++.....++
T Consensus 133 l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 165 (185)
T PRK12542 133 YKVFYNLTYQEISSVM-GITEANVRKQFERARKR 165 (185)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334567789999999 99999999988655543
No 137
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=25.17 E-value=89 Score=26.60 Aligned_cols=31 Identities=16% Similarity=0.165 Sum_probs=24.8
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhhhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k 112 (278)
-.|-...+||+.| |-+...|+.+....+++.
T Consensus 144 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 174 (185)
T PRK09649 144 LLGLSYADAAAVC-GCPVGTIRSRVARARDAL 174 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 4456789999999 999999999986665543
No 138
>PF00859 CTF_NFI: CTF/NF-I family transcription modulation region; InterPro: IPR000647 Nuclear factor I (NF-I) or CCAAT box-binding transcription factor (CTF) [, ] (also known as TGGCA-binding proteins) are a family of vertebrate nuclear proteins which recognise and bind, as dimers, the palindromic DNA sequence 5'-TGGCANNNTGCCA-3'. CTF/NF-I binding sites are present in viral and cellular promoters and in the origin of DNA replication of Human adenovirus 2 (HAdV-2). The CTF/NF-I proteins were first identified as nuclear factor I, a collection of proteins that activate the replication of several Adenovirus serotypes (together with NF-II and NF-III) []. The family of proteins was also identified as the CTF transcription factors, before the NFI and CTF families were found to be identical []. The CTF/NF-I proteins are individually capable of activating transcription and DNA replication. In a given species, there are a large number of different CTF/NF-I proteins, generated both by alternative splicing and by the occurrence of four different genes. CTF/NF-1 proteins contain 400 to 600 amino acids. The N-terminal 200 amino-acid sequence, almost perfectly conserved in all species and genes sequenced, mediates site-specific DNA recognition, protein dimerisation and Adenovirus DNA replication. The C-terminal 100 amino acids contain the transcriptional activation domain. This activation domain is the target of gene expression regulatory pathways elicited by growth factors and it interacts with basal transcription factors and with histone H3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006260 DNA replication, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=24.76 E-value=2.2e+02 Score=27.10 Aligned_cols=18 Identities=33% Similarity=0.536 Sum_probs=14.1
Q ss_pred CCCCCCCceeecCCCCCC
Q 023744 211 SSNDPPTSLSLSLPGVDS 228 (278)
Q Consensus 211 ~~~~p~~slsLSlp~~~~ 228 (278)
.....|||-+.|.||+-.
T Consensus 254 g~~~sptSptys~pgt~~ 271 (295)
T PF00859_consen 254 GGASSPTSPTYSTPGTSP 271 (295)
T ss_pred CCcCCCCCCCCcCCCCCc
Confidence 446678888999999875
No 139
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=24.62 E-value=82 Score=26.37 Aligned_cols=30 Identities=20% Similarity=0.217 Sum_probs=24.1
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
..|-...+||+.+ |-+...|+++....++.
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 3456789999999 99999999998766554
No 140
>PRK00118 putative DNA-binding protein; Validated
Probab=24.51 E-value=1.1e+02 Score=24.54 Aligned_cols=41 Identities=15% Similarity=0.061 Sum_probs=33.2
Q ss_pred hHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhh
Q 023744 69 PEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (278)
Q Consensus 69 ~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk 110 (278)
++.+..++.+....|-...+||+.+ |-+...|+.+.....+
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArk 59 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEK 59 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 5567777888888899999999999 9999999888764443
No 141
>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=24.33 E-value=42 Score=24.28 Aligned_cols=25 Identities=28% Similarity=0.524 Sum_probs=19.0
Q ss_pred ccccccccCC-CCHHHHHHHHHHHhh
Q 023744 86 WATIARLLNG-RTDNAIKNHWNSTLK 110 (278)
Q Consensus 86 W~~IA~~lpg-RT~~~~knRw~~~lk 110 (278)
|..||..|.. -+...|+.+|+++..
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHH
Confidence 8999998853 567889999966443
No 142
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=24.16 E-value=1.1e+02 Score=25.34 Aligned_cols=35 Identities=20% Similarity=0.184 Sum_probs=25.9
Q ss_pred HHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 76 IRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 76 l~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+.+....|-...+||..+ |-+...|+++.....++
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 333344566789999999 89999999988655544
No 143
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=23.94 E-value=95 Score=26.44 Aligned_cols=33 Identities=9% Similarity=0.097 Sum_probs=24.7
Q ss_pred HHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 78 AHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 78 ~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
+....|..-.+||+.| |-+...|+.+....+++
T Consensus 147 L~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 179 (195)
T PRK12532 147 LKEILGFSSDEIQQMC-GISTSNYHTIMHRARES 179 (195)
T ss_pred hHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334567789999999 99999999987654433
No 144
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=23.90 E-value=1e+02 Score=25.70 Aligned_cols=29 Identities=14% Similarity=0.162 Sum_probs=23.0
Q ss_pred cCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 82 FGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 82 ~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
.|..-.+||+.| |.+...++++....+++
T Consensus 144 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 172 (179)
T PRK12514 144 EGLSYKELAERH-DVPLNTMRTWLRRSLLK 172 (179)
T ss_pred cCCCHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence 466789999999 99999999987655443
No 145
>PLN03162 golden-2 like transcription factor; Provisional
Probab=23.56 E-value=2.7e+02 Score=27.74 Aligned_cols=46 Identities=22% Similarity=0.278 Sum_probs=36.0
Q ss_pred cCCCChHHHHHHHHHHHHcCCC---cccccccc--CCCCHHHHHHHHHHHh
Q 023744 64 HRAFTPEEDEMIIRAHARFGNK---WATIARLL--NGRTDNAIKNHWNSTL 109 (278)
Q Consensus 64 k~~WT~EED~~Ll~~v~~~G~k---W~~IA~~l--pgRT~~~~knRw~~~l 109 (278)
|-.||+|=.++++++|.++|.. =+.|-+.| +|=|...|+.|.+++.
T Consensus 237 RLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYR 287 (526)
T PLN03162 237 KVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYR 287 (526)
T ss_pred cccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHH
Confidence 4589999999999999999943 45555554 7889999998866543
No 146
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=23.54 E-value=1e+02 Score=26.56 Aligned_cols=29 Identities=14% Similarity=-0.073 Sum_probs=23.1
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLK 110 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk 110 (278)
..|..-.+||..| |.+...|+.|.....+
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 3456789999999 9999999998764444
No 147
>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=23.25 E-value=47 Score=25.12 Aligned_cols=29 Identities=28% Similarity=0.542 Sum_probs=21.9
Q ss_pred HHHHHHHHHHcCCCccccccccCCCCHHHH
Q 023744 72 DEMIIRAHARFGNKWATIARLLNGRTDNAI 101 (278)
Q Consensus 72 D~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~ 101 (278)
|..|..+....|.+|.++|+.| |=+...|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI 32 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDI 32 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHH
Confidence 4456777788899999999998 5555443
No 148
>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=22.97 E-value=1e+02 Score=25.11 Aligned_cols=40 Identities=18% Similarity=0.179 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 71 EDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 71 ED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
++..++.+....|-.-.+||..| |-+...|+++....+++
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 44445555555677789999999 89999999998766554
No 149
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=21.90 E-value=1.1e+02 Score=27.18 Aligned_cols=45 Identities=27% Similarity=0.294 Sum_probs=35.2
Q ss_pred CCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhhhh
Q 023744 66 AFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKC 113 (278)
Q Consensus 66 ~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k~ 113 (278)
..|+-|- .+++++.+ |....+||+.| +-+...++++...++++--
T Consensus 155 ~Lt~rE~-~Vl~l~~~-G~s~~eIA~~L-~iS~~TVk~~~~~i~~Kl~ 199 (216)
T PRK10100 155 LLTHREK-EILNKLRI-GASNNEIARSL-FISENTVKTHLYNLFKKIA 199 (216)
T ss_pred CCCHHHH-HHHHHHHc-CCCHHHHHHHh-CCCHHHHHHHHHHHHHHhC
Confidence 4776554 45555555 88899999999 8999999999988887753
No 150
>KOG4789 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.84 E-value=90 Score=32.95 Aligned_cols=67 Identities=25% Similarity=0.353 Sum_probs=35.0
Q ss_pred CCcccccccccCCcccccCCCCCCCCCC---------CCCCCCCceeecCCCCCCCCCCc--------hHHH---HHHHH
Q 023744 183 NYNIYKPVARSGGINVDVNVVPEPETTS---------SSNDPPTSLSLSLPGVDSSSEVS--------NKEM---IKQEV 242 (278)
Q Consensus 183 ~~~~~~p~~~~~~~~~~~~~~~~~~~s~---------~~~~p~~slsLSlp~~~~~~~~~--------~~~~---~~~~~ 242 (278)
.++++||..--|.......+.+-.++++ ..+.||-+. -+-|+..+ ...+ .|+| +++|.
T Consensus 580 qsq~~~~~~~~~~~~k~q~~~p~~sptsKrkRVkfttf~t~p~~~~-d~~P~~~s-il~~~e~di~wvc~d~~~g~~~~l 657 (668)
T KOG4789|consen 580 QSQTHRPGDPIGGIAKSQKNEPANSPTSKRKRVKFTTFTTIPPEAR-DVAPAVNS-ILGDSEEDIKWVCQDMGLGDREEL 657 (668)
T ss_pred cccccccCCccceechhhccCCCcCCCCCccceEEEeeccCChhhc-ccCCcccc-cccccccceeEEeeccCCCChHHH
Confidence 4567777765555544333322222222 223433333 45555543 2211 1666 78999
Q ss_pred HHHHHhccc
Q 023744 243 RTYMAALEQ 251 (278)
Q Consensus 243 ~~~~~~~~~ 251 (278)
||||..++.
T Consensus 658 ~nymeri~~ 666 (668)
T KOG4789|consen 658 RNYMERIQE 666 (668)
T ss_pred HHHHHHhhc
Confidence 999998754
No 151
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=21.69 E-value=1.2e+02 Score=25.31 Aligned_cols=29 Identities=28% Similarity=0.310 Sum_probs=22.8
Q ss_pred cCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 82 FGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 82 ~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
.|..-.+||+.+ |-+...|+.+.+..+++
T Consensus 150 ~~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 150 QGYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 455688999999 89999999988665544
No 152
>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=21.67 E-value=1e+02 Score=28.53 Aligned_cols=30 Identities=20% Similarity=0.278 Sum_probs=23.9
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
.+|..-.+||+.| |.+...|++|.....++
T Consensus 156 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 185 (324)
T TIGR02960 156 VLGWRAAETAELL-GTSTASVNSALQRARAT 185 (324)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3566789999999 99999999998655543
No 153
>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=21.42 E-value=65 Score=24.64 Aligned_cols=23 Identities=30% Similarity=0.567 Sum_probs=18.7
Q ss_pred HHHHcCCCccccccccCCCCHHHH
Q 023744 78 AHARFGNKWATIARLLNGRTDNAI 101 (278)
Q Consensus 78 ~v~~~G~kW~~IA~~lpgRT~~~~ 101 (278)
+....|.+|..+|+.| |=+..+|
T Consensus 13 ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 13 FANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHhhhHHHHHHHc-CCCHHHH
Confidence 4577899999999999 7776665
No 154
>TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family. This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors.
Probab=21.31 E-value=43 Score=27.05 Aligned_cols=28 Identities=21% Similarity=0.192 Sum_probs=21.7
Q ss_pred CCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 83 GNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 83 G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
|-.+.+||..| |-+...|++++....++
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKE 148 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 44688999988 88899999988655443
No 155
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=21.22 E-value=1.3e+02 Score=25.54 Aligned_cols=30 Identities=13% Similarity=-0.092 Sum_probs=23.8
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
-.|..-.+||..| |-+...|++|.....++
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 3466788999999 99999999998655544
No 156
>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=21.11 E-value=72 Score=23.71 Aligned_cols=19 Identities=32% Similarity=0.623 Sum_probs=14.5
Q ss_pred HHHHHHHHHhCCCChHHHhh
Q 023744 21 EALQQLVQKHGPRNWSLISK 40 (278)
Q Consensus 21 ~~L~~lV~kyG~~nW~~Ia~ 40 (278)
.-|.+|++-|| +||..|-.
T Consensus 30 ~vl~~LL~lY~-~nW~lIEe 48 (65)
T PF10440_consen 30 PVLKNLLKLYD-GNWELIEE 48 (65)
T ss_pred HHHHHHHHHHc-CCchhhhc
Confidence 35778888898 56999864
No 157
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=21.08 E-value=1.5e+02 Score=25.23 Aligned_cols=31 Identities=35% Similarity=0.419 Sum_probs=23.9
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhhhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKRK 112 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k 112 (278)
..|..-.+||+.+ |-+...|+++.+...++.
T Consensus 145 ~~g~s~~EIAe~l-gis~~~V~~~l~Ra~~~L 175 (189)
T PRK06811 145 LLGEKIEEIAKKL-GLTRSAIDNRLSRGRKKL 175 (189)
T ss_pred HccCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3456678999999 999999999976665553
No 158
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=21.07 E-value=1.3e+02 Score=25.40 Aligned_cols=30 Identities=30% Similarity=0.277 Sum_probs=23.8
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
..|-.-.+||+.+ |-+...|+++....+++
T Consensus 147 ~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 176 (182)
T PRK12537 147 VDGCSHAEIAQRL-GAPLGTVKAWIKRSLKA 176 (182)
T ss_pred HcCCCHHHHHHHH-CCChhhHHHHHHHHHHH
Confidence 3566788999999 89999999998766654
No 159
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=21.05 E-value=1.1e+02 Score=26.22 Aligned_cols=36 Identities=17% Similarity=0.170 Sum_probs=26.6
Q ss_pred HHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 75 Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
++.+....|....+||..| |-+...|+++....+++
T Consensus 121 v~~L~~~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~ 156 (188)
T PRK12546 121 ALILVGASGFSYEEAAEMC-GVAVGTVKSRANRARAR 156 (188)
T ss_pred HhhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344445677899999999 89999999987655543
No 160
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=20.60 E-value=1.2e+02 Score=26.77 Aligned_cols=45 Identities=24% Similarity=0.273 Sum_probs=35.6
Q ss_pred CCChHHHHHHHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhhhh
Q 023744 66 AFTPEEDEMIIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKRKC 113 (278)
Q Consensus 66 ~WT~EED~~Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~k~ 113 (278)
..|+.|-+.|.-+ -.|-.=++||+.| +.+...||+|..++++|--
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 5777777665443 3566678999999 9999999999999998753
No 161
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=20.39 E-value=1.4e+02 Score=24.87 Aligned_cols=36 Identities=25% Similarity=0.403 Sum_probs=25.8
Q ss_pred HHHHHHHcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 75 IIRAHARFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 75 Ll~~v~~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
++.++...|-...+||..+ |-+...|+.+....+++
T Consensus 148 vi~l~~~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 148 VILLRHLEGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred HHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3334344566789999999 89999999887655543
No 162
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=20.15 E-value=1.3e+02 Score=25.38 Aligned_cols=30 Identities=10% Similarity=0.024 Sum_probs=22.1
Q ss_pred HcCCCccccccccCCCCHHHHHHHHHHHhhh
Q 023744 81 RFGNKWATIARLLNGRTDNAIKNHWNSTLKR 111 (278)
Q Consensus 81 ~~G~kW~~IA~~lpgRT~~~~knRw~~~lk~ 111 (278)
-.|....+||+.+ |-+...|+.+....+++
T Consensus 142 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 171 (186)
T PRK05602 142 YQGLSNIEAAAVM-DISVDALESLLARGRRA 171 (186)
T ss_pred hcCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 4466788888888 88888998887554433
Done!