Query 011938
Match_columns 474
No_of_seqs 304 out of 1389
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 06:52:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011938.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011938hhsearch_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 5.1E-34 1.1E-38 278.8 11.6 111 34-144 5-115 (238)
2 PLN03212 Transcription repress 100.0 4.1E-32 9E-37 264.2 11.3 110 33-142 20-129 (249)
3 PLN03091 hypothetical protein; 100.0 6.4E-31 1.4E-35 272.1 12.2 111 32-142 8-118 (459)
4 KOG0049 Transcription factor, 99.7 6E-18 1.3E-22 181.0 10.0 128 32-159 247-429 (939)
5 KOG0049 Transcription factor, 99.7 1.5E-17 3.2E-22 178.1 7.2 105 33-138 355-460 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 5.5E-16 1.2E-20 120.5 5.9 60 41-102 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.6 3.5E-15 7.5E-20 159.5 7.7 109 32-141 14-122 (512)
8 KOG0050 mRNA splicing protein 99.5 6.3E-15 1.4E-19 155.1 5.2 107 35-143 4-110 (617)
9 KOG0051 RNA polymerase I termi 99.5 1.3E-13 2.8E-18 149.0 9.0 109 37-148 383-519 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.3 5.7E-13 1.2E-17 99.8 3.3 48 38-85 1-48 (48)
11 PF00249 Myb_DNA-binding: Myb- 99.3 1.6E-12 3.4E-17 97.4 4.7 46 91-136 1-48 (48)
12 PLN03212 Transcription repress 99.3 1.2E-12 2.6E-17 128.5 4.8 98 86-183 20-119 (249)
13 PF13921 Myb_DNA-bind_6: Myb-l 99.2 6.3E-12 1.4E-16 97.6 3.2 49 94-142 1-49 (60)
14 PLN03091 hypothetical protein; 99.2 7.6E-12 1.6E-16 131.0 3.7 83 86-168 9-93 (459)
15 smart00717 SANT SANT SWI3, AD 99.1 7.9E-11 1.7E-15 85.4 5.6 47 91-137 1-48 (49)
16 KOG0048 Transcription factor, 99.1 5.1E-11 1.1E-15 117.1 3.8 81 87-167 5-87 (238)
17 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 6.2E-10 1.3E-14 79.5 5.5 44 93-136 1-45 (45)
18 smart00717 SANT SANT SWI3, AD 99.0 4.2E-10 9E-15 81.5 4.3 48 38-86 1-48 (49)
19 KOG0051 RNA polymerase I termi 99.0 1E-09 2.2E-14 119.2 7.6 119 33-153 303-447 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.9 2.4E-09 5.3E-14 76.4 4.0 45 40-85 1-45 (45)
21 COG5147 REB1 Myb superfamily p 98.4 4.7E-08 1E-12 105.4 -1.1 101 34-137 287-397 (512)
22 KOG0457 Histone acetyltransfer 97.8 1.9E-05 4.2E-10 83.2 5.4 127 13-146 53-231 (438)
23 TIGR01557 myb_SHAQKYF myb-like 97.8 2.8E-05 6.1E-10 61.1 4.1 49 37-85 2-54 (57)
24 KOG0050 mRNA splicing protein 97.5 8.8E-05 1.9E-09 79.7 4.1 69 89-157 5-74 (617)
25 TIGR01557 myb_SHAQKYF myb-like 97.5 0.00024 5.3E-09 55.8 5.5 48 90-137 2-55 (57)
26 PF13325 MCRS_N: N-terminal re 97.3 0.0011 2.3E-08 64.4 8.5 98 40-139 1-129 (199)
27 KOG0457 Histone acetyltransfer 97.2 0.00047 1E-08 73.0 5.5 50 88-137 69-119 (438)
28 PF08914 Myb_DNA-bind_2: Rap1 97.1 0.00056 1.2E-08 55.2 3.9 52 91-142 2-63 (65)
29 TIGR02894 DNA_bind_RsfA transc 97.1 0.00048 1E-08 64.5 4.0 49 90-139 3-58 (161)
30 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.00057 1.2E-08 56.5 3.0 50 91-140 1-68 (90)
31 COG5259 RSC8 RSC chromatin rem 96.9 0.00064 1.4E-08 72.6 3.3 46 37-84 278-323 (531)
32 KOG1279 Chromatin remodeling f 96.6 0.0015 3.2E-08 71.2 3.6 48 35-84 250-297 (506)
33 PF08914 Myb_DNA-bind_2: Rap1 96.5 0.0017 3.6E-08 52.5 2.5 52 38-89 2-61 (65)
34 TIGR02894 DNA_bind_RsfA transc 96.5 0.0013 2.9E-08 61.6 2.0 50 36-87 2-57 (161)
35 KOG1279 Chromatin remodeling f 96.5 0.0033 7.1E-08 68.6 5.2 45 90-134 252-296 (506)
36 COG5259 RSC8 RSC chromatin rem 96.4 0.0033 7.1E-08 67.3 4.3 45 90-134 278-322 (531)
37 PRK13923 putative spore coat p 96.3 0.0039 8.4E-08 59.2 3.7 51 89-140 3-60 (170)
38 PF13873 Myb_DNA-bind_5: Myb/S 96.2 0.0084 1.8E-07 48.8 4.9 51 91-141 2-74 (78)
39 PF13837 Myb_DNA-bind_4: Myb/S 96.1 0.004 8.8E-08 51.4 2.5 46 39-84 2-63 (90)
40 COG5114 Histone acetyltransfer 95.5 0.0081 1.8E-07 61.8 2.5 51 35-86 60-110 (432)
41 PRK13923 putative spore coat p 95.1 0.01 2.2E-07 56.3 1.5 51 35-87 2-58 (170)
42 PF13873 Myb_DNA-bind_5: Myb/S 94.9 0.018 3.8E-07 46.9 2.4 49 37-85 1-69 (78)
43 COG5114 Histone acetyltransfer 94.3 0.039 8.4E-07 57.0 3.7 46 92-137 64-110 (432)
44 PLN03142 Probable chromatin-re 94.2 0.16 3.4E-06 60.2 8.8 102 40-142 826-990 (1033)
45 KOG2656 DNA methyltransferase 93.4 0.091 2E-06 55.5 4.5 58 91-148 130-193 (445)
46 KOG4282 Transcription factor G 93.0 0.15 3.3E-06 52.7 5.5 52 91-142 54-119 (345)
47 PF09111 SLIDE: SLIDE; InterP 92.9 0.17 3.8E-06 45.4 5.0 66 35-140 46-114 (118)
48 PF12776 Myb_DNA-bind_3: Myb/S 92.1 0.31 6.7E-06 40.7 5.1 45 93-137 1-63 (96)
49 KOG1194 Predicted DNA-binding 91.9 0.52 1.1E-05 50.9 7.8 51 90-140 186-236 (534)
50 COG5118 BDP1 Transcription ini 90.7 0.32 7E-06 51.4 4.7 46 92-137 366-411 (507)
51 KOG4282 Transcription factor G 89.4 0.73 1.6E-05 47.7 6.1 47 39-85 55-113 (345)
52 PF08281 Sigma70_r4_2: Sigma-7 84.7 1.9 4.1E-05 32.3 4.5 42 96-138 12-53 (54)
53 COG5118 BDP1 Transcription ini 79.2 2.2 4.8E-05 45.4 4.0 44 38-83 365-408 (507)
54 KOG4167 Predicted DNA-binding 79.1 5.9 0.00013 45.4 7.5 44 92-135 620-663 (907)
55 KOG4468 Polycomb-group transcr 74.8 4.9 0.00011 45.0 5.3 53 90-142 87-149 (782)
56 smart00595 MADF subfamily of S 74.0 3.6 7.8E-05 33.8 3.3 24 113-137 30-53 (89)
57 PF12776 Myb_DNA-bind_3: Myb/S 73.8 3.8 8.1E-05 34.1 3.4 44 40-83 1-60 (96)
58 PF04545 Sigma70_r4: Sigma-70, 71.9 8.8 0.00019 28.4 4.6 43 97-140 7-49 (50)
59 KOG4329 DNA-binding protein [G 69.0 22 0.00048 38.0 8.3 44 92-135 278-322 (445)
60 PF09111 SLIDE: SLIDE; InterP 68.2 7.8 0.00017 34.9 4.3 33 88-120 46-82 (118)
61 PF13404 HTH_AsnC-type: AsnC-t 68.1 10 0.00022 27.9 4.1 38 97-135 3-41 (42)
62 PF11035 SnAPC_2_like: Small n 68.0 16 0.00035 38.2 7.0 46 91-136 21-70 (344)
63 KOG2656 DNA methyltransferase 67.5 5.6 0.00012 42.6 3.6 49 35-84 127-180 (445)
64 PF11626 Rap1_C: TRF2-interact 66.3 5.5 0.00012 33.6 2.8 30 34-66 43-80 (87)
65 PRK11179 DNA-binding transcrip 64.6 9.8 0.00021 34.9 4.3 43 96-139 8-51 (153)
66 KOG4167 Predicted DNA-binding 64.5 5.6 0.00012 45.6 3.2 44 38-83 619-662 (907)
67 PF13404 HTH_AsnC-type: AsnC-t 63.9 7.8 0.00017 28.5 2.8 38 44-83 3-40 (42)
68 PRK11169 leucine-responsive tr 59.3 13 0.00027 34.6 4.1 44 96-140 13-57 (164)
69 TIGR02985 Sig70_bacteroi1 RNA 58.9 18 0.0004 31.7 4.9 39 100-139 119-157 (161)
70 KOG2009 Transcription initiati 57.7 11 0.00023 42.4 3.8 46 90-135 408-453 (584)
71 smart00595 MADF subfamily of S 56.7 3.9 8.4E-05 33.6 0.2 23 60-84 29-51 (89)
72 PF07750 GcrA: GcrA cell cycle 56.6 10 0.00022 35.8 3.0 40 93-133 2-41 (162)
73 KOG4468 Polycomb-group transcr 56.1 12 0.00027 42.0 3.9 49 37-86 87-144 (782)
74 PRK11179 DNA-binding transcrip 55.5 10 0.00022 34.7 2.8 45 43-89 8-52 (153)
75 smart00351 PAX Paired Box doma 54.9 97 0.0021 27.7 8.9 87 33-132 10-103 (125)
76 KOG0384 Chromodomain-helicase 54.1 18 0.00038 44.0 5.0 74 37-117 1132-1206(1373)
77 PF11035 SnAPC_2_like: Small n 52.7 83 0.0018 33.2 9.0 88 36-137 19-127 (344)
78 PF13325 MCRS_N: N-terminal re 52.1 28 0.00061 34.2 5.3 44 93-137 1-47 (199)
79 PF10545 MADF_DNA_bdg: Alcohol 51.5 4.5 9.7E-05 32.3 -0.3 25 60-84 28-52 (85)
80 PF01388 ARID: ARID/BRIGHT DNA 50.2 11 0.00023 31.5 1.8 41 46-86 38-89 (92)
81 PRK11169 leucine-responsive tr 49.8 11 0.00025 34.9 2.1 45 43-89 13-57 (164)
82 TIGR02937 sigma70-ECF RNA poly 49.1 33 0.00073 29.1 4.9 36 103-139 119-154 (158)
83 PF01388 ARID: ARID/BRIGHT DNA 49.1 31 0.00068 28.6 4.5 39 100-138 39-90 (92)
84 cd08319 Death_RAIDD Death doma 46.9 22 0.00047 30.1 3.2 30 99-129 2-31 (83)
85 PF09420 Nop16: Ribosome bioge 45.0 45 0.00098 31.2 5.4 47 90-136 113-163 (164)
86 PF10545 MADF_DNA_bdg: Alcohol 43.3 23 0.00049 28.2 2.7 26 112-137 28-54 (85)
87 smart00501 BRIGHT BRIGHT, ARID 43.1 42 0.00091 28.2 4.4 40 100-139 35-87 (93)
88 PF04504 DUF573: Protein of un 42.4 33 0.00073 29.7 3.7 47 92-138 5-64 (98)
89 smart00501 BRIGHT BRIGHT, ARID 42.3 17 0.00037 30.6 1.9 43 45-87 33-86 (93)
90 PRK09652 RNA polymerase sigma 41.9 51 0.0011 29.6 5.1 34 105-139 139-172 (182)
91 PRK09413 IS2 repressor TnpA; R 41.5 98 0.0021 27.3 6.7 45 38-86 10-54 (121)
92 PF09420 Nop16: Ribosome bioge 41.3 28 0.00061 32.6 3.4 47 36-83 112-161 (164)
93 PRK11924 RNA polymerase sigma 40.3 54 0.0012 29.3 5.0 31 108-139 139-169 (179)
94 PF07638 Sigma70_ECF: ECF sigm 40.3 53 0.0012 30.9 5.1 39 99-138 140-178 (185)
95 PF11626 Rap1_C: TRF2-interact 40.1 12 0.00025 31.6 0.5 17 87-103 43-59 (87)
96 cd06171 Sigma70_r4 Sigma70, re 38.0 75 0.0016 22.1 4.5 40 94-135 11-50 (55)
97 cd08803 Death_ank3 Death domai 37.9 41 0.00089 28.4 3.5 31 99-130 4-34 (84)
98 smart00344 HTH_ASNC helix_turn 37.6 49 0.0011 27.9 4.0 42 97-139 3-45 (108)
99 PRK09643 RNA polymerase sigma 36.7 59 0.0013 30.4 4.8 31 108-139 148-178 (192)
100 PRK04217 hypothetical protein; 35.3 84 0.0018 28.0 5.2 46 92-139 41-86 (110)
101 cd08317 Death_ank Death domain 34.1 36 0.00078 28.2 2.6 30 99-129 4-33 (84)
102 PRK09641 RNA polymerase sigma 33.3 71 0.0015 29.2 4.7 30 109-139 151-180 (187)
103 cd08318 Death_NMPP84 Death dom 32.8 47 0.001 27.9 3.1 27 102-129 10-36 (86)
104 KOG1194 Predicted DNA-binding 32.8 40 0.00087 37.0 3.3 45 37-83 186-230 (534)
105 cd00131 PAX Paired Box domain 32.3 3.7E+02 0.0081 24.1 9.0 75 33-109 10-91 (128)
106 PLN03162 golden-2 like transcr 32.2 2.3E+02 0.0049 30.7 8.5 29 30-58 229-257 (526)
107 TIGR02954 Sig70_famx3 RNA poly 31.8 79 0.0017 28.6 4.7 31 109-140 134-164 (169)
108 TIGR02939 RpoE_Sigma70 RNA pol 31.3 64 0.0014 29.5 4.0 29 110-139 154-182 (190)
109 PRK09648 RNA polymerase sigma 29.8 92 0.002 28.8 4.8 32 108-140 153-184 (189)
110 PRK09047 RNA polymerase factor 29.7 1E+02 0.0022 27.3 5.0 30 109-139 121-150 (161)
111 PRK11923 algU RNA polymerase s 29.6 84 0.0018 29.1 4.5 29 110-139 154-182 (193)
112 cd08804 Death_ank2 Death domai 29.5 56 0.0012 27.4 3.0 31 99-130 4-34 (84)
113 PRK09637 RNA polymerase sigma 29.2 93 0.002 29.0 4.8 30 108-138 120-149 (181)
114 smart00005 DEATH DEATH domain, 28.5 56 0.0012 26.6 2.8 31 98-129 4-35 (88)
115 PRK12512 RNA polymerase sigma 28.1 1E+02 0.0022 28.3 4.8 30 109-139 146-175 (184)
116 PF08281 Sigma70_r4_2: Sigma-7 28.0 49 0.0011 24.5 2.2 38 43-83 12-49 (54)
117 TIGR02943 Sig70_famx1 RNA poly 27.8 1.1E+02 0.0024 28.6 5.0 34 105-139 142-175 (188)
118 PRK12515 RNA polymerase sigma 27.7 1.1E+02 0.0024 28.4 4.9 30 109-139 146-175 (189)
119 PF04504 DUF573: Protein of un 27.6 1.2E+02 0.0026 26.2 4.8 70 38-108 4-94 (98)
120 smart00344 HTH_ASNC helix_turn 27.3 65 0.0014 27.2 3.1 43 44-88 3-45 (108)
121 PRK09651 RNA polymerase sigma 27.3 70 0.0015 29.3 3.5 33 110-143 135-167 (172)
122 TIGR02948 SigW_bacill RNA poly 27.1 96 0.0021 28.3 4.4 28 110-138 152-179 (187)
123 cd08777 Death_RIP1 Death Domai 27.0 60 0.0013 27.5 2.7 30 100-130 3-32 (86)
124 PRK09645 RNA polymerase sigma 26.8 1.2E+02 0.0025 27.6 4.9 30 109-139 133-162 (173)
125 PRK12531 RNA polymerase sigma 26.8 1.1E+02 0.0024 28.5 4.9 30 109-139 156-185 (194)
126 PRK12530 RNA polymerase sigma 26.7 1.1E+02 0.0024 28.5 4.9 30 109-139 149-178 (189)
127 PF09197 Rap1-DNA-bind: Rap1, 25.8 1.1E+02 0.0023 27.3 4.2 26 113-138 52-77 (105)
128 PRK12523 RNA polymerase sigma 25.8 1.2E+02 0.0027 27.5 4.9 36 103-139 128-163 (172)
129 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 25.6 1.1E+02 0.0023 23.8 3.6 36 97-133 7-42 (50)
130 PRK09642 RNA polymerase sigma 25.4 1.3E+02 0.0029 26.8 4.9 31 108-139 120-150 (160)
131 KOG2009 Transcription initiati 25.0 46 0.001 37.6 2.2 50 32-83 403-452 (584)
132 COG1522 Lrp Transcriptional re 24.4 61 0.0013 28.9 2.5 44 44-89 8-51 (154)
133 cd08311 Death_p75NR Death doma 24.3 67 0.0015 26.7 2.5 34 96-131 2-35 (77)
134 PF07750 GcrA: GcrA cell cycle 24.1 82 0.0018 29.8 3.4 34 40-75 2-36 (162)
135 PF02954 HTH_8: Bacterial regu 23.9 1.1E+02 0.0024 22.1 3.3 35 97-132 5-39 (42)
136 COG1522 Lrp Transcriptional re 23.6 98 0.0021 27.6 3.7 44 96-140 7-51 (154)
137 KOG3841 TEF-1 and related tran 23.6 1.1E+02 0.0024 33.0 4.5 54 89-142 74-148 (455)
138 PRK12524 RNA polymerase sigma 23.4 1.4E+02 0.003 27.9 4.9 30 109-139 151-180 (196)
139 KOG3554 Histone deacetylase co 22.5 1.8E+02 0.0039 32.3 5.9 60 63-133 268-328 (693)
140 PRK12529 RNA polymerase sigma 22.5 1.6E+02 0.0034 27.2 4.9 34 107-141 140-173 (178)
141 PF13936 HTH_38: Helix-turn-he 22.4 58 0.0013 23.9 1.6 36 93-130 4-39 (44)
142 PRK06759 RNA polymerase factor 22.4 1.5E+02 0.0034 26.0 4.7 29 110-139 122-150 (154)
143 KOG0385 Chromatin remodeling c 22.2 86 0.0019 36.9 3.6 48 90-137 894-957 (971)
144 PRK09649 RNA polymerase sigma 22.2 1.4E+02 0.0031 27.7 4.6 32 109-141 145-176 (185)
145 PF02954 HTH_8: Bacterial regu 22.0 98 0.0021 22.3 2.7 29 44-73 5-33 (42)
146 PRK12532 RNA polymerase sigma 21.9 1.5E+02 0.0032 27.6 4.7 31 108-139 150-180 (195)
147 TIGR02999 Sig-70_X6 RNA polyme 21.9 1.7E+02 0.0036 26.7 4.9 30 109-139 149-178 (183)
148 TIGR02952 Sig70_famx2 RNA poly 21.6 1.9E+02 0.0041 25.8 5.1 29 110-139 138-166 (170)
149 PLN03142 Probable chromatin-re 21.4 1.3E+02 0.0029 36.4 5.2 45 93-137 826-871 (1033)
150 COG2963 Transposase and inacti 21.4 1.9E+02 0.0041 24.9 4.9 47 91-139 5-52 (116)
151 TIGR02984 Sig-70_plancto1 RNA 21.4 1.9E+02 0.0041 26.3 5.2 31 108-139 154-184 (189)
152 PRK06811 RNA polymerase factor 21.3 1.9E+02 0.0041 26.9 5.2 32 110-142 147-178 (189)
153 PRK12527 RNA polymerase sigma 21.0 1.9E+02 0.0041 25.8 5.0 30 109-139 120-149 (159)
154 PRK05602 RNA polymerase sigma 21.0 1.8E+02 0.0039 26.7 5.0 30 109-139 143-172 (186)
155 PF09105 SelB-wing_1: Elongati 20.8 2E+02 0.0043 22.5 4.2 41 46-110 4-45 (61)
156 PF11198 DUF2857: Protein of u 20.6 1.8E+02 0.0038 27.9 4.9 59 96-156 73-131 (180)
157 PRK12514 RNA polymerase sigma 20.6 1.7E+02 0.0038 26.6 4.8 29 110-139 145-173 (179)
158 cd08779 Death_PIDD Death Domai 20.4 97 0.0021 26.1 2.8 27 100-127 3-29 (86)
159 PRK09647 RNA polymerase sigma 20.4 1.4E+02 0.003 28.5 4.2 30 110-140 154-183 (203)
160 TIGR02950 SigM_subfam RNA poly 20.3 67 0.0014 28.3 1.9 29 110-139 121-149 (154)
161 cd08805 Death_ank1 Death domai 20.2 1.2E+02 0.0026 25.8 3.2 28 99-127 4-31 (84)
162 PRK12516 RNA polymerase sigma 20.0 1.8E+02 0.0039 27.2 4.8 35 104-139 126-160 (187)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=5.1e-34 Score=278.85 Aligned_cols=111 Identities=53% Similarity=0.936 Sum_probs=105.9
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCCh
Q 011938 34 VILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKMGNKW 113 (474)
Q Consensus 34 p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~G~kW 113 (474)
+.+.||+||+|||++|+++|++||.++|..||+.+|.+|++++||.||.|||+|++++|.||+|||++|++||+++|++|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 44568999999999999999999999999999999967999999999999999999999999999999999999999999
Q ss_pred HHHhccCCCCCHHHHHHHHHHHhhhHHHcCC
Q 011938 114 ARMAAHLPGRTDNEIKNYWNTRIKRRQRAGL 144 (474)
Q Consensus 114 s~IAk~LpGRT~~QcKnRW~~~Lkkk~r~g~ 144 (474)
++||++|||||+++|||+|+..+|||.+...
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999999977644
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.97 E-value=4.1e-32 Score=264.19 Aligned_cols=110 Identities=53% Similarity=1.119 Sum_probs=105.3
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCC
Q 011938 33 GVILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKMGNK 112 (474)
Q Consensus 33 ~p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~G~k 112 (474)
++.++|++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++++.+||++
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnK 99 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNR 99 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhcccc
Confidence 47899999999999999999999999899999999975699999999999999999999999999999999999999999
Q ss_pred hHHHhccCCCCCHHHHHHHHHHHhhhHHHc
Q 011938 113 WARMAAHLPGRTDNEIKNYWNTRIKRRQRA 142 (474)
Q Consensus 113 Ws~IAk~LpGRT~~QcKnRW~~~Lkkk~r~ 142 (474)
|+.||+.|+|||+++|||||+.+++++.++
T Consensus 100 Ws~IAk~LpGRTDnqIKNRWns~LrK~l~r 129 (249)
T PLN03212 100 WSLIAGRIPGRTDNEIKNYWNTHLRKKLLR 129 (249)
T ss_pred HHHHHhhcCCCCHHHHHHHHHHHHhHHHHh
Confidence 999999999999999999999999988654
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.97 E-value=6.4e-31 Score=272.11 Aligned_cols=111 Identities=55% Similarity=1.058 Sum_probs=106.3
Q ss_pred CCCCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 011938 32 RGVILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKMGN 111 (474)
Q Consensus 32 ~~p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~G~ 111 (474)
.+.+++||+||+|||++|+++|++||.++|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++++++||+
T Consensus 8 ~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~Gn 87 (459)
T PLN03091 8 YKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGN 87 (459)
T ss_pred cCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCc
Confidence 35689999999999999999999999999999999998669999999999999999999999999999999999999999
Q ss_pred ChHHHhccCCCCCHHHHHHHHHHHhhhHHHc
Q 011938 112 KWARMAAHLPGRTDNEIKNYWNTRIKRRQRA 142 (474)
Q Consensus 112 kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~r~ 142 (474)
+|.+||++|+|||+++||+||+.++||+++.
T Consensus 88 KWskIAk~LPGRTDnqIKNRWnslLKKklr~ 118 (459)
T PLN03091 88 RWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118 (459)
T ss_pred chHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999998764
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.73 E-value=6e-18 Score=180.95 Aligned_cols=128 Identities=20% Similarity=0.365 Sum_probs=117.1
Q ss_pred CCCCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccch---------------------------------
Q 011938 32 RGVILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCR--------------------------------- 78 (474)
Q Consensus 32 ~~p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR--------------------------------- 78 (474)
-.|.++|-.|+.|||++|..+...++..+|.+||..+|++|+..||.
T Consensus 247 l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~~n 326 (939)
T KOG0049|consen 247 LNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITSIN 326 (939)
T ss_pred cCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhhcc
Confidence 36899999999999999999999999999999999999889999997
Q ss_pred ---------------------hhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCC-hHHHhccCCCCCHHHHHHHHHHHh
Q 011938 79 ---------------------LRWANHLRPNLKKGAFTQEEEQMIVELHAKMGNK-WARMAAHLPGRTDNEIKNYWNTRI 136 (474)
Q Consensus 79 ---------------------~RW~n~L~p~lkkg~WT~EED~~LieLv~k~G~k-Ws~IAk~LpGRT~~QcKnRW~~~L 136 (474)
.||...|+|.+++|.||.+||.+|+.+|.+||.+ |.+|-..+|||++.|||.||.+.|
T Consensus 327 ShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL 406 (939)
T KOG0049|consen 327 SHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVL 406 (939)
T ss_pred CccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHH
Confidence 5777889999999999999999999999999976 999999999999999999999999
Q ss_pred hhHHHcCCCCCCchhhhhhhhhh
Q 011938 137 KRRQRAGLPLYPPEVSFQALQES 159 (474)
Q Consensus 137 kkk~r~g~~~~p~e~~~~~~~~~ 159 (474)
.++.|++.|...++..+..+.+.
T Consensus 407 ~~s~K~~rW~l~edeqL~~~V~~ 429 (939)
T KOG0049|consen 407 NRSAKVERWTLVEDEQLLYAVKV 429 (939)
T ss_pred HHhhccCceeecchHHHHHHHHH
Confidence 99999999998888777665543
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.70 E-value=1.5e-17 Score=178.07 Aligned_cols=105 Identities=27% Similarity=0.468 Sum_probs=95.8
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCC-
Q 011938 33 GVILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKMGN- 111 (474)
Q Consensus 33 ~p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~G~- 111 (474)
.|.+++|+||.+||.+|+.+|.+||..+|.+|-..+++ |+..|||+||.|.|+...|++.|+-.||+.|+.+|.+||.
T Consensus 355 dPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPn-RSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~~V~~YG~g 433 (939)
T KOG0049|consen 355 DPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPN-RSDSQCRERYTNVLNRSAKVERWTLVEDEQLLYAVKVYGKG 433 (939)
T ss_pred CccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCC-ccHHHHHHHHHHHHHHhhccCceeecchHHHHHHHHHHccc
Confidence 58999999999999999999999999999999999997 9999999999999999999999999999999999999994
Q ss_pred ChHHHhccCCCCCHHHHHHHHHHHhhh
Q 011938 112 KWARMAAHLPGRTDNEIKNYWNTRIKR 138 (474)
Q Consensus 112 kWs~IAk~LpGRT~~QcKnRW~~~Lkk 138 (474)
+|.+||..||.||..|.+.|-..++.-
T Consensus 434 ~WakcA~~Lp~~t~~q~~rrR~R~~~~ 460 (939)
T KOG0049|consen 434 NWAKCAMLLPKKTSRQLRRRRLRLIAA 460 (939)
T ss_pred hHHHHHHHccccchhHHHHHHHHHHHH
Confidence 699999999999996655444444433
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=99.62 E-value=5.5e-16 Score=120.47 Aligned_cols=60 Identities=45% Similarity=0.968 Sum_probs=55.0
Q ss_pred CCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHH
Q 011938 41 WTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMI 102 (474)
Q Consensus 41 WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~L 102 (474)
||+|||++|+++|.+||. +|..||+.|+. |+..+|+.||.++|++.+++++||.+||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~~-Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLGN-RTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHSTT-S-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHCc-CCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999997 99999999975 9999999999999999999999999999987
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=99.57 E-value=3.5e-15 Score=159.49 Aligned_cols=109 Identities=29% Similarity=0.518 Sum_probs=104.0
Q ss_pred CCCCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 011938 32 RGVILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKMGN 111 (474)
Q Consensus 32 ~~p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~G~ 111 (474)
.+..++.|.|+..||+.|..+|+++|..+|..||..+.. |+++||+.||.++++|.+++..|+.|||+.|+.+..++|.
T Consensus 14 ~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~-~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~ 92 (512)
T COG5147 14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLIS-STGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT 92 (512)
T ss_pred ccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcc-cccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc
Confidence 456788999999999999999999999999999999997 9999999999999999999999999999999999999999
Q ss_pred ChHHHhccCCCCCHHHHHHHHHHHhhhHHH
Q 011938 112 KWARMAAHLPGRTDNEIKNYWNTRIKRRQR 141 (474)
Q Consensus 112 kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~r 141 (474)
.|..||..+++|+..+|.+||...+.....
T Consensus 93 ~wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 93 QWSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 999999999999999999999998887765
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.52 E-value=6.3e-15 Score=155.13 Aligned_cols=107 Identities=24% Similarity=0.514 Sum_probs=101.2
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCChH
Q 011938 35 ILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKMGNKWA 114 (474)
Q Consensus 35 ~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~G~kWs 114 (474)
.++.|-|+..||++|..+|.+||...|.+|++.+.. ++++||+.||..+|+|.+++..|+.|||++|+.+...+...|.
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~nqws~i~sll~~-kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwr 82 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNR-KTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWR 82 (617)
T ss_pred EEecceecccHHHHHHHHHHHcchHHHHHHHHHHhh-cchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccc
Confidence 467889999999999999999999999999999986 9999999999999999999999999999999999999999999
Q ss_pred HHhccCCCCCHHHHHHHHHHHhhhHHHcC
Q 011938 115 RMAAHLPGRTDNEIKNYWNTRIKRRQRAG 143 (474)
Q Consensus 115 ~IAk~LpGRT~~QcKnRW~~~Lkkk~r~g 143 (474)
-||..| ||+.+||-.||++++.......
T Consensus 83 tIa~i~-gr~~~qc~eRy~~ll~~~~s~~ 110 (617)
T KOG0050|consen 83 TIADIM-GRTSQQCLERYNNLLDVYVSYH 110 (617)
T ss_pred hHHHHh-hhhHHHHHHHHHHHHHHHHhhh
Confidence 999988 9999999999999998776543
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.46 E-value=1.3e-13 Score=148.98 Aligned_cols=109 Identities=24% Similarity=0.458 Sum_probs=99.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCC--CCCCCCHHHHHHHHHHHH-------
Q 011938 37 KKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNL--KKGAFTQEEEQMIVELHA------- 107 (474)
Q Consensus 37 kKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~l--kkg~WT~EED~~LieLv~------- 107 (474)
++|.||+||++.|..+|.++|. .|.+|++.|+ |.+..||+||+++...+- +++.||.||+++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~ 459 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN-DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREAL 459 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc-cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhh
Confidence 7999999999999999999998 9999999998 999999999999999884 899999999999999995
Q ss_pred Hh-------------------CCChHHHhccCCCCCHHHHHHHHHHHhhhHHHcCCCCCC
Q 011938 108 KM-------------------GNKWARMAAHLPGRTDNEIKNYWNTRIKRRQRAGLPLYP 148 (474)
Q Consensus 108 k~-------------------G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~r~g~~~~p 148 (474)
++ +-+|..|++.+..|+..|||.+|+.++.+....+.....
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~~~~ 519 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQESK 519 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhcccccc
Confidence 33 125999999999999999999999999998777776665
No 10
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.34 E-value=5.7e-13 Score=99.75 Aligned_cols=48 Identities=44% Similarity=0.776 Sum_probs=42.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhcc
Q 011938 38 KGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHL 85 (474)
Q Consensus 38 Kg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L 85 (474)
|++||.|||++|+++|.+||.++|..||+.++++|++.||+.||+++|
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 689999999999999999999779999999994499999999999875
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=99.32 E-value=1.6e-12 Score=97.39 Aligned_cols=46 Identities=28% Similarity=0.708 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC-hHHHhccCC-CCCHHHHHHHHHHHh
Q 011938 91 KGAFTQEEEQMIVELHAKMGNK-WARMAAHLP-GRTDNEIKNYWNTRI 136 (474)
Q Consensus 91 kg~WT~EED~~LieLv~k~G~k-Ws~IAk~Lp-GRT~~QcKnRW~~~L 136 (474)
|++||+|||++|++++.+||.+ |..||..|+ |||..||++||++++
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 6899999999999999999998 999999999 999999999999864
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.31 E-value=1.2e-12 Score=128.47 Aligned_cols=98 Identities=18% Similarity=0.249 Sum_probs=74.7
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhC-CChHHHhccC-CCCCHHHHHHHHHHHhhhHHHcCCCCCCchhhhhhhhhhhhcc
Q 011938 86 RPNLKKGAFTQEEEQMIVELHAKMG-NKWARMAAHL-PGRTDNEIKNYWNTRIKRRQRAGLPLYPPEVSFQALQESQCQN 163 (474)
Q Consensus 86 ~p~lkkg~WT~EED~~LieLv~k~G-~kWs~IAk~L-pGRT~~QcKnRW~~~Lkkk~r~g~~~~p~e~~~~~~~~~~~q~ 163 (474)
++.+++++||+|||++|+++|++|| .+|..||+.+ ++||++|||.||.++|++.++++.+...++..+..+...-+..
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnK 99 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNR 99 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhcccc
Confidence 4678999999999999999999999 5799999998 6999999999999999999999887776666555444444444
Q ss_pred cCCccCCCCCcchhhhhcCC
Q 011938 164 INGINSGDKGHHDLLQANGY 183 (474)
Q Consensus 164 ~~~~~~~~~~~~~l~~~n~~ 183 (474)
+..+......+.+..-+|.+
T Consensus 100 Ws~IAk~LpGRTDnqIKNRW 119 (249)
T PLN03212 100 WSLIAGRIPGRTDNEIKNYW 119 (249)
T ss_pred HHHHHhhcCCCCHHHHHHHH
Confidence 44444333444444444444
No 13
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.22 E-value=6.3e-12 Score=97.64 Aligned_cols=49 Identities=33% Similarity=0.740 Sum_probs=41.7
Q ss_pred CCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhHHHc
Q 011938 94 FTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRRQRA 142 (474)
Q Consensus 94 WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~r~ 142 (474)
||+|||++|+++|.+||++|.+||+.|+.||..+|++||++.|+++.++
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~ 49 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISR 49 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTS
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccC
Confidence 9999999999999999999999999996699999999999977765444
No 14
>PLN03091 hypothetical protein; Provisional
Probab=99.20 E-value=7.6e-12 Score=131.02 Aligned_cols=83 Identities=17% Similarity=0.292 Sum_probs=67.6
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCC-ChHHHhccC-CCCCHHHHHHHHHHHhhhHHHcCCCCCCchhhhhhhhhhhhcc
Q 011938 86 RPNLKKGAFTQEEEQMIVELHAKMGN-KWARMAAHL-PGRTDNEIKNYWNTRIKRRQRAGLPLYPPEVSFQALQESQCQN 163 (474)
Q Consensus 86 ~p~lkkg~WT~EED~~LieLv~k~G~-kWs~IAk~L-pGRT~~QcKnRW~~~Lkkk~r~g~~~~p~e~~~~~~~~~~~q~ 163 (474)
+..+++++||+|||++|+++|++||. +|..||+.+ +||+++|||.||.++|++.++++.+...++..+..+...-+..
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 46789999999999999999999995 699999988 4999999999999999999998877766665555554444444
Q ss_pred cCCcc
Q 011938 164 INGIN 168 (474)
Q Consensus 164 ~~~~~ 168 (474)
+..|.
T Consensus 89 WskIA 93 (459)
T PLN03091 89 WSQIA 93 (459)
T ss_pred hHHHH
Confidence 44443
No 15
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.14 E-value=7.9e-11 Score=85.35 Aligned_cols=47 Identities=43% Similarity=0.920 Sum_probs=44.4
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CChHHHhccCCCCCHHHHHHHHHHHhh
Q 011938 91 KGAFTQEEEQMIVELHAKMG-NKWARMAAHLPGRTDNEIKNYWNTRIK 137 (474)
Q Consensus 91 kg~WT~EED~~LieLv~k~G-~kWs~IAk~LpGRT~~QcKnRW~~~Lk 137 (474)
+++||++||.+|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 899999999999999999999998765
No 16
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.09 E-value=5.1e-11 Score=117.05 Aligned_cols=81 Identities=19% Similarity=0.198 Sum_probs=66.7
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCC-hHHHhccCC-CCCHHHHHHHHHHHhhhHHHcCCCCCCchhhhhhhhhhhhccc
Q 011938 87 PNLKKGAFTQEEEQMIVELHAKMGNK-WARMAAHLP-GRTDNEIKNYWNTRIKRRQRAGLPLYPPEVSFQALQESQCQNI 164 (474)
Q Consensus 87 p~lkkg~WT~EED~~LieLv~k~G~k-Ws~IAk~Lp-GRT~~QcKnRW~~~Lkkk~r~g~~~~p~e~~~~~~~~~~~q~~ 164 (474)
+.+.||+||.|||++|+++|++||.. |..||+.++ +|++++||-||.++|++.+++|.....++.....++..-+.-+
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 34558999999999999999999965 999999999 9999999999999999999998877766666555555444434
Q ss_pred CCc
Q 011938 165 NGI 167 (474)
Q Consensus 165 ~~~ 167 (474)
..+
T Consensus 85 s~I 87 (238)
T KOG0048|consen 85 SLI 87 (238)
T ss_pred HHH
Confidence 333
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=99.00 E-value=6.2e-10 Score=79.55 Aligned_cols=44 Identities=34% Similarity=0.807 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhC-CChHHHhccCCCCCHHHHHHHHHHHh
Q 011938 93 AFTQEEEQMIVELHAKMG-NKWARMAAHLPGRTDNEIKNYWNTRI 136 (474)
Q Consensus 93 ~WT~EED~~LieLv~k~G-~kWs~IAk~LpGRT~~QcKnRW~~~L 136 (474)
+||++||..|+.++.+|| .+|..||+.|++||..+|++||++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998753
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.00 E-value=4.2e-10 Score=81.53 Aligned_cols=48 Identities=46% Similarity=0.888 Sum_probs=44.3
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccC
Q 011938 38 KGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLR 86 (474)
Q Consensus 38 Kg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~ 86 (474)
+++||++||++|+.++.+||..+|..||+.+++ |++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~-rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPG-RTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCC-CCHHHHHHHHHHHcC
Confidence 468999999999999999995699999999996 999999999998764
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.96 E-value=1e-09 Score=119.23 Aligned_cols=119 Identities=24% Similarity=0.314 Sum_probs=96.7
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhC-----------------------CCChhHHhhhhCCccccccchhhhhhccCCCC
Q 011938 33 GVILKKGPWTSAEDAILIDYVKKHG-----------------------EGNWNAVQKNSGLFRCGKSCRLRWANHLRPNL 89 (474)
Q Consensus 33 ~p~lkKg~WT~EED~~L~~lV~kyG-----------------------~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~l 89 (474)
...++-+.|+++||++|...|..|- .+-|+.|.+.++. |+.+.++.+-++...+--
T Consensus 303 ~~e~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~-R~~~siy~~~rR~y~~FE 381 (607)
T KOG0051|consen 303 EDEINLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPY-RDRKSIYHHLRRAYTPFE 381 (607)
T ss_pred hhhhhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCc-ccchhHHHHHHhcCCccc
Confidence 4567778999999999999998772 0137888889998 999998774444444433
Q ss_pred -CCCCCCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhHH--HcCCCCCCchhhh
Q 011938 90 -KKGAFTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRRQ--RAGLPLYPPEVSF 153 (474)
Q Consensus 90 -kkg~WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~--r~g~~~~p~e~~~ 153 (474)
++|.||+||++.|..+|.++|+.|..|++.| ||.+..||.||+.+.+... +++.+...++..+
T Consensus 382 ~~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~L 447 (607)
T KOG0051|consen 382 NKRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKL 447 (607)
T ss_pred cccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHH
Confidence 9999999999999999999999999999998 9999999999999999886 4455544444433
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.86 E-value=2.4e-09 Score=76.43 Aligned_cols=45 Identities=47% Similarity=0.886 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhcc
Q 011938 40 PWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHL 85 (474)
Q Consensus 40 ~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L 85 (474)
+||.+||++|+.++.+||..+|..||+.+++ |++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~-rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPG-RTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCC-CCHHHHHHHHHHhC
Confidence 5999999999999999996699999999997 99999999998753
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=98.38 E-value=4.7e-08 Score=105.37 Aligned_cols=101 Identities=26% Similarity=0.561 Sum_probs=89.3
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCC--CCCCCCCCHHHHHHHHHHHHHhC-
Q 011938 34 VILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRP--NLKKGAFTQEEEQMIVELHAKMG- 110 (474)
Q Consensus 34 p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p--~lkkg~WT~EED~~LieLv~k~G- 110 (474)
+.-.+|.||++|+..|...|.++|. .|..|.+.++ |-...||+||++|... .+++++|+.||+.+|...+...-
T Consensus 287 ~f~~~~~wt~e~~~eL~~~~~~~~~-~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~ 363 (512)
T COG5147 287 IFEQRGKWTKEEEQELAKLVVEHGG-SWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRL 363 (512)
T ss_pred HHhhhccCccccccccccccccccc-hhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHH
Confidence 4456899999999999999999998 9999999886 9999999999999998 67888999999999999887543
Q ss_pred -------CChHHHhccCCCCCHHHHHHHHHHHhh
Q 011938 111 -------NKWARMAAHLPGRTDNEIKNYWNTRIK 137 (474)
Q Consensus 111 -------~kWs~IAk~LpGRT~~QcKnRW~~~Lk 137 (474)
-.|..|++.++.|...+|+.++..+..
T Consensus 364 ~~~~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~ 397 (512)
T COG5147 364 EAQQSSRILWLLIAQNIRNRLQHHCRDKYGVLIS 397 (512)
T ss_pred HHhhhhhhhHHHHHHhhhccccCCCCCccccccc
Confidence 249999999999999999988877654
No 22
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.84 E-value=1.9e-05 Score=83.24 Aligned_cols=127 Identities=19% Similarity=0.390 Sum_probs=87.9
Q ss_pred cCCCCCCCCCCCCCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccC-CCCCC
Q 011938 13 LSNDQTDSPLMDEGGGGTARGVILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLR-PNLKK 91 (474)
Q Consensus 13 ~~~~~~~s~~~~~~~~~~~~~p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~-p~lkk 91 (474)
.++...++.+++... -.+-..-||.+|+-+|++++..||.|||..||.++|. |++.+|+++|.+++- ..+-.
T Consensus 53 ~H~~~H~Yrim~~~s------~~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGt-Ktkeeck~hy~k~fv~s~~~~ 125 (438)
T KOG0457|consen 53 KHQNDHPYRIMDTNS------FPILDPSWTADEEILLLEAAETYGFGNWQDIADHIGT-KTKEECKEHYLKHFVNSPIFP 125 (438)
T ss_pred CCCCCCCceeecCCC------CCCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcc-cchHHHHHHHHHHHhcCcccc
Confidence 355566666666443 3556778999999999999999999999999999997 999999999998653 22222
Q ss_pred CCCC-------HHHHHHHHHH-HHHhCC-------------ChHHHhccCCCCCH-------------------------
Q 011938 92 GAFT-------QEEEQMIVEL-HAKMGN-------------KWARMAAHLPGRTD------------------------- 125 (474)
Q Consensus 92 g~WT-------~EED~~LieL-v~k~G~-------------kWs~IAk~LpGRT~------------------------- 125 (474)
-+|. ..||.....- +..++. .=.+|+.+||+|.+
T Consensus 126 ~~~i~~~~~~~q~e~~~~~k~~~~~~~~~~~~pr~p~~~~p~~~e~~gyMp~R~dFd~Eydn~AE~li~dm~f~e~D~~~ 205 (438)
T KOG0457|consen 126 LPDISLGIGVNQDEDAAMAKNRAEPFQPTDLVPRKPGVSNPLRREISGYMPGRLDFDEEYDNEAEQLIRDMEFEEDDTEE 205 (438)
T ss_pred ccccccccCcchHHHhhhcccccccCCCCCCCCCCCCCCCchHHHHhhhCccchhhhhhhcchhhhhHhhcccCCCCcHH
Confidence 2332 3344444333 222222 24588999999843
Q ss_pred -----HHHHHHHHHHhhhHHHcCCCC
Q 011938 126 -----NEIKNYWNTRIKRRQRAGLPL 146 (474)
Q Consensus 126 -----~QcKnRW~~~Lkkk~r~g~~~ 146 (474)
.++.+-|+.+|+.|.++...+
T Consensus 206 d~elKla~ldiY~srl~eR~RRK~~I 231 (438)
T KOG0457|consen 206 DHELKLAVLDIYNSRLKERKRRKRFI 231 (438)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 255677888888776655443
No 23
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.78 E-value=2.8e-05 Score=61.09 Aligned_cols=49 Identities=12% Similarity=0.158 Sum_probs=43.9
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCh---hHHhhhhCCcc-ccccchhhhhhcc
Q 011938 37 KKGPWTSAEDAILIDYVKKHGEGNW---NAVQKNSGLFR-CGKSCRLRWANHL 85 (474)
Q Consensus 37 kKg~WT~EED~~L~~lV~kyG~~nW---~~IAk~l~~~R-t~kQCR~RW~n~L 85 (474)
++-.||+||..+++++|+.+|.++| +.|++.|+..| +..||+.|++.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 3568999999999999999999999 99999998656 9999999988764
No 24
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.48 E-value=8.8e-05 Score=79.70 Aligned_cols=69 Identities=19% Similarity=0.355 Sum_probs=61.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC-ChHHHhccCCCCCHHHHHHHHHHHhhhHHHcCCCCCCchhhhhhhh
Q 011938 89 LKKGAFTQEEEQMIVELHAKMGN-KWARMAAHLPGRTDNEIKNYWNTRIKRRQRAGLPLYPPEVSFQALQ 157 (474)
Q Consensus 89 lkkg~WT~EED~~LieLv~k~G~-kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~r~g~~~~p~e~~~~~~~ 157 (474)
++.|-|+.-||+.|..+|.+||. +|++|+..++-.|..||++||...+.+.+++..+....+..+.-+-
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhla 74 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLA 74 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHH
Confidence 57789999999999999999995 5999999999999999999999999999999888877766654433
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=97.47 E-value=0.00024 Score=55.81 Aligned_cols=48 Identities=13% Similarity=0.280 Sum_probs=41.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC-Ch---HHHhccCC-CC-CHHHHHHHHHHHhh
Q 011938 90 KKGAFTQEEEQMIVELHAKMGN-KW---ARMAAHLP-GR-TDNEIKNYWNTRIK 137 (474)
Q Consensus 90 kkg~WT~EED~~LieLv~k~G~-kW---s~IAk~Lp-GR-T~~QcKnRW~~~Lk 137 (474)
.+-.||+||..++++++..+|. +| ..|++.|. .| |..||+.+.+.+.-
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 3567999999999999999997 89 99999884 45 99999999987653
No 26
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.28 E-value=0.0011 Score=64.41 Aligned_cols=98 Identities=20% Similarity=0.412 Sum_probs=72.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhHHhhhhCCc--cccccchhhhhhcc-CCCC--------------------CCCCCCH
Q 011938 40 PWTSAEDAILIDYVKKHGEGNWNAVQKNSGLF--RCGKSCRLRWANHL-RPNL--------------------KKGAFTQ 96 (474)
Q Consensus 40 ~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~--Rt~kQCR~RW~n~L-~p~l--------------------kkg~WT~ 96 (474)
+|++++|-+|+.+|..-. +-..|++-+... -|-+.+..||+..| +|.+ .+..||.
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 699999999999999854 777887765542 35667788999765 3322 4568999
Q ss_pred HHHHHHHHHHHHhCC---ChHHHh----ccC-CCCCHHHHHHHHHHHhhhH
Q 011938 97 EEEQMIVELHAKMGN---KWARMA----AHL-PGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 97 EED~~LieLv~k~G~---kWs~IA----k~L-pGRT~~QcKnRW~~~Lkkk 139 (474)
+||++|......... .+.+|= ..| ++||+.++.++|+.+.+..
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~ 129 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYH 129 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhc
Confidence 999999997765543 366663 223 7899999999999765544
No 27
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.19 E-value=0.00047 Score=73.01 Aligned_cols=50 Identities=22% Similarity=0.447 Sum_probs=44.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CChHHHhccCCCCCHHHHHHHHHHHhh
Q 011938 88 NLKKGAFTQEEEQMIVELHAKMG-NKWARMAAHLPGRTDNEIKNYWNTRIK 137 (474)
Q Consensus 88 ~lkkg~WT~EED~~LieLv~k~G-~kWs~IAk~LpGRT~~QcKnRW~~~Lk 137 (474)
.+-...||.+||.+|++++..|| ++|..||.++..|+..+||.+|.+++-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 34556899999999999999999 789999999999999999999977654
No 28
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=97.11 E-value=0.00056 Score=55.18 Aligned_cols=52 Identities=19% Similarity=0.442 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHHHhC--------CC-hHHHhccCC-CCCHHHHHHHHHHHhhhHHHc
Q 011938 91 KGAFTQEEEQMIVELHAKMG--------NK-WARMAAHLP-GRTDNEIKNYWNTRIKRRQRA 142 (474)
Q Consensus 91 kg~WT~EED~~LieLv~k~G--------~k-Ws~IAk~Lp-GRT~~QcKnRW~~~Lkkk~r~ 142 (474)
|-+||.|||++|++.|+++. ++ |.++++.-+ .+|-...|+||...|+.+.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~~ 63 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPRK 63 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT------
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccccC
Confidence 45899999999999997652 23 999998887 999999999999888876543
No 29
>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=97.10 E-value=0.00048 Score=64.53 Aligned_cols=49 Identities=20% Similarity=0.405 Sum_probs=43.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC-------ChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 90 KKGAFTQEEEQMIVELHAKMGN-------KWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 90 kkg~WT~EED~~LieLv~k~G~-------kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
+...||.|||.+|.+.|.+|=+ -+.++++.| +||+..|.-|||..+|++
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkq 58 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQ 58 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHH
Confidence 5678999999999999999842 289999999 999999999999999855
No 30
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.98 E-value=0.00057 Score=56.46 Aligned_cols=50 Identities=26% Similarity=0.559 Sum_probs=35.1
Q ss_pred CCCCCHHHHHHHHHHHHH------hC--C------ChHHHhccC----CCCCHHHHHHHHHHHhhhHH
Q 011938 91 KGAFTQEEEQMIVELHAK------MG--N------KWARMAAHL----PGRTDNEIKNYWNTRIKRRQ 140 (474)
Q Consensus 91 kg~WT~EED~~LieLv~k------~G--~------kWs~IAk~L----pGRT~~QcKnRW~~~Lkkk~ 140 (474)
|..||.+|...||+++.. ++ . -|..||..| ..||..||++||+++.++-.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk 68 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYK 68 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHH
Confidence 357999999999999887 22 1 299999888 36999999999999655443
No 31
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.90 E-value=0.00064 Score=72.56 Aligned_cols=46 Identities=20% Similarity=0.582 Sum_probs=43.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhc
Q 011938 37 KKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANH 84 (474)
Q Consensus 37 kKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~ 84 (474)
....||.+|..+|++.|+.||. +|.+||+++|+ |+..||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVgt-Kt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVGT-KTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhCC-CCHHHHHHHHHcC
Confidence 5669999999999999999999 99999999997 9999999999863
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.63 E-value=0.0015 Score=71.25 Aligned_cols=48 Identities=23% Similarity=0.577 Sum_probs=43.7
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhc
Q 011938 35 ILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANH 84 (474)
Q Consensus 35 ~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~ 84 (474)
..-++.||.+|+.+|++.|.+||. +|.+||.+++. |+..||..|+.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg~-ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGD-DWNKVADHVGT-KSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccCC-CCHHHHHHHHHhc
Confidence 344678999999999999999999 99999999997 9999999999863
No 33
>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=96.54 E-value=0.0017 Score=52.47 Aligned_cols=52 Identities=33% Similarity=0.574 Sum_probs=33.8
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------C--ChhHHhhhhCCccccccchhhhhhccCCCC
Q 011938 38 KGPWTSAEDAILIDYVKKHGE------G--NWNAVQKNSGLFRCGKSCRLRWANHLRPNL 89 (474)
Q Consensus 38 Kg~WT~EED~~L~~lV~kyG~------~--nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~l 89 (474)
+.+||.|||++|+++|..+.. | =|.++++.-++.++..+-|+||.++|.+..
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 458999999999999976631 2 399999988866999999999999997643
No 34
>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=96.50 E-value=0.0013 Score=61.59 Aligned_cols=50 Identities=28% Similarity=0.623 Sum_probs=43.3
Q ss_pred CccCCCCHHHHHHHHHHHHHhCC-C-----ChhHHhhhhCCccccccchhhhhhccCC
Q 011938 36 LKKGPWTSAEDAILIDYVKKHGE-G-----NWNAVQKNSGLFRCGKSCRLRWANHLRP 87 (474)
Q Consensus 36 lkKg~WT~EED~~L~~lV~kyG~-~-----nW~~IAk~l~~~Rt~kQCR~RW~n~L~p 87 (474)
.++-.||.|||.+|-+.|.+|-. | .+.+|++.++ ||+..|..||+.+++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHHH
Confidence 35668999999999999999932 1 5899999997 9999999999998874
No 35
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.49 E-value=0.0033 Score=68.58 Aligned_cols=45 Identities=16% Similarity=0.389 Sum_probs=42.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHH
Q 011938 90 KKGAFTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNT 134 (474)
Q Consensus 90 kkg~WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~ 134 (474)
.++.||++|..+|++.+..||.+|.+||.++.+||..||--++..
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLR 296 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHh
Confidence 456899999999999999999999999999999999999998865
No 36
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.38 E-value=0.0033 Score=67.31 Aligned_cols=45 Identities=16% Similarity=0.350 Sum_probs=41.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHH
Q 011938 90 KKGAFTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNT 134 (474)
Q Consensus 90 kkg~WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~ 134 (474)
....||.+|..+|++.++.||..|.+||+++..||..||--||.+
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~ 322 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQ 322 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHc
Confidence 344899999999999999999999999999999999999999964
No 37
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.27 E-value=0.0039 Score=59.15 Aligned_cols=51 Identities=20% Similarity=0.390 Sum_probs=43.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCC-------hHHHhccCCCCCHHHHHHHHHHHhhhHH
Q 011938 89 LKKGAFTQEEEQMIVELHAKMGNK-------WARMAAHLPGRTDNEIKNYWNTRIKRRQ 140 (474)
Q Consensus 89 lkkg~WT~EED~~LieLv~k~G~k-------Ws~IAk~LpGRT~~QcKnRW~~~Lkkk~ 140 (474)
.+...||.|||.+|.+.|.+|+.. ...++..| +||..+|..|||..++++-
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Y 60 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQY 60 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHH
Confidence 356789999999999999998753 67777888 9999999999999998664
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.19 E-value=0.0084 Score=48.76 Aligned_cols=51 Identities=27% Similarity=0.560 Sum_probs=41.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-----------------ChHHHhccC-----CCCCHHHHHHHHHHHhhhHHH
Q 011938 91 KGAFTQEEEQMIVELHAKMGN-----------------KWARMAAHL-----PGRTDNEIKNYWNTRIKRRQR 141 (474)
Q Consensus 91 kg~WT~EED~~LieLv~k~G~-----------------kWs~IAk~L-----pGRT~~QcKnRW~~~Lkkk~r 141 (474)
+..||.+|.+.|++++.+|.. -|.+|+..| +.||..+||.+|.++...-.+
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~Kk 74 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAKK 74 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 457999999999999988721 299999777 359999999999997655443
No 39
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.08 E-value=0.004 Score=51.38 Aligned_cols=46 Identities=28% Similarity=0.631 Sum_probs=32.5
Q ss_pred CCCCHHHHHHHHHHHHH--h----C--C---C--ChhHHhhhh---CCccccccchhhhhhc
Q 011938 39 GPWTSAEDAILIDYVKK--H----G--E---G--NWNAVQKNS---GLFRCGKSCRLRWANH 84 (474)
Q Consensus 39 g~WT~EED~~L~~lV~k--y----G--~---~--nW~~IAk~l---~~~Rt~kQCR~RW~n~ 84 (474)
..||.+|...|++++.. + + . + -|..||..| |..|++.||+.||.+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 47999999999999987 2 1 1 1 499999876 4569999999999874
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.52 E-value=0.0081 Score=61.81 Aligned_cols=51 Identities=20% Similarity=0.470 Sum_probs=45.8
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccC
Q 011938 35 ILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLR 86 (474)
Q Consensus 35 ~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~ 86 (474)
.+---.|+..|+.+|++.....|.|||..||..+|. |....|+.+|.+++.
T Consensus 60 pI~~e~WgadEEllli~~~~TlGlGNW~dIadyiGs-r~kee~k~HylK~y~ 110 (432)
T COG5114 60 PIGEEGWGADEELLLIECLDTLGLGNWEDIADYIGS-RAKEEIKSHYLKMYD 110 (432)
T ss_pred cccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhh-hhhHHHHHHHHHHHh
Confidence 333457999999999999999999999999999996 999999999998765
No 41
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.06 E-value=0.01 Score=56.35 Aligned_cols=51 Identities=24% Similarity=0.532 Sum_probs=42.2
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCC------ChhHHhhhhCCccccccchhhhhhccCC
Q 011938 35 ILKKGPWTSAEDAILIDYVKKHGEG------NWNAVQKNSGLFRCGKSCRLRWANHLRP 87 (474)
Q Consensus 35 ~lkKg~WT~EED~~L~~lV~kyG~~------nW~~IAk~l~~~Rt~kQCR~RW~n~L~p 87 (474)
..++..||.|||.+|-+.|.+|+.. -...++..+. |+..+|..||+.+++.
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vrk 58 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVRK 58 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHHH
Confidence 3567899999999999999999642 3677778776 9999999999877764
No 42
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.95 E-value=0.018 Score=46.88 Aligned_cols=49 Identities=24% Similarity=0.470 Sum_probs=39.7
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC----------------CChhHHhhhh----CCccccccchhhhhhcc
Q 011938 37 KKGPWTSAEDAILIDYVKKHGE----------------GNWNAVQKNS----GLFRCGKSCRLRWANHL 85 (474)
Q Consensus 37 kKg~WT~EED~~L~~lV~kyG~----------------~nW~~IAk~l----~~~Rt~kQCR~RW~n~L 85 (474)
++..||.+|.+.|+++|.+|.. .-|..|+..+ +..|+..||+.+|.+..
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 3568999999999999998831 1499999876 22599999999998854
No 43
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=94.34 E-value=0.039 Score=56.97 Aligned_cols=46 Identities=22% Similarity=0.458 Sum_probs=42.0
Q ss_pred CCCCHHHHHHHHHHHHHhC-CChHHHhccCCCCCHHHHHHHHHHHhh
Q 011938 92 GAFTQEEEQMIVELHAKMG-NKWARMAAHLPGRTDNEIKNYWNTRIK 137 (474)
Q Consensus 92 g~WT~EED~~LieLv~k~G-~kWs~IAk~LpGRT~~QcKnRW~~~Lk 137 (474)
..|+.+|+.+|++...-.| .+|..||.+++.|+..+||.+|.++..
T Consensus 64 e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 64 EGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 4699999999999999999 689999999999999999999976554
No 44
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.22 E-value=0.16 Score=60.19 Aligned_cols=102 Identities=16% Similarity=0.344 Sum_probs=77.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchh-------hhhh---------c-------------------
Q 011938 40 PWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRL-------RWAN---------H------------------- 84 (474)
Q Consensus 40 ~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~-------RW~n---------~------------------- 84 (474)
.|+..|=..++.+..+||..+...||..+.+ ++...++. ||.. .
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~-k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEG-KTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcC-CCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5999999999999999999899999999975 77776652 2111 0
Q ss_pred --------------cC-CCCCCCCCCHHHHHHHHHHHHHhC-CChHHHhcc------------CCCCCHHHHHHHHHHHh
Q 011938 85 --------------LR-PNLKKGAFTQEEEQMIVELHAKMG-NKWARMAAH------------LPGRTDNEIKNYWNTRI 136 (474)
Q Consensus 85 --------------L~-p~lkkg~WT~EED~~LieLv~k~G-~kWs~IAk~------------LpGRT~~QcKnRW~~~L 136 (474)
+. +..++..||+|||+.|+-.+.+|| .+|.+|-.. +..||+.+|..|.+.++
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 00 122445699999999999999999 569999432 25799999999999988
Q ss_pred hhHHHc
Q 011938 137 KRRQRA 142 (474)
Q Consensus 137 kkk~r~ 142 (474)
+--.|.
T Consensus 985 ~~~~~e 990 (1033)
T PLN03142 985 RLIEKE 990 (1033)
T ss_pred HHHHHH
Confidence 865443
No 45
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=93.45 E-value=0.091 Score=55.53 Aligned_cols=58 Identities=16% Similarity=0.314 Sum_probs=50.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChHHHhcc-----CCC-CCHHHHHHHHHHHhhhHHHcCCCCCC
Q 011938 91 KGAFTQEEEQMIVELHAKMGNKWARMAAH-----LPG-RTDNEIKNYWNTRIKRRQRAGLPLYP 148 (474)
Q Consensus 91 kg~WT~EED~~LieLv~k~G~kWs~IAk~-----LpG-RT~~QcKnRW~~~Lkkk~r~g~~~~p 148 (474)
...||.||-..|++|+++|.-+|-.||.. ++. ||-.++|.||....++..+...+..+
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s~s 193 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPSNS 193 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCCch
Confidence 35799999999999999999999999977 555 99999999999988888777666544
No 46
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=93.05 E-value=0.15 Score=52.72 Aligned_cols=52 Identities=17% Similarity=0.352 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhC----------CChHHHhccC----CCCCHHHHHHHHHHHhhhHHHc
Q 011938 91 KGAFTQEEEQMIVELHAKMG----------NKWARMAAHL----PGRTDNEIKNYWNTRIKRRQRA 142 (474)
Q Consensus 91 kg~WT~EED~~LieLv~k~G----------~kWs~IAk~L----pGRT~~QcKnRW~~~Lkkk~r~ 142 (474)
...|+.+|-..||++..+.- .-|..||+.+ .-||+.|||+||.++.++-.+.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~ 119 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKE 119 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHH
Confidence 36799999999999987542 2399999866 3499999999999987766543
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=92.93 E-value=0.17 Score=45.37 Aligned_cols=66 Identities=27% Similarity=0.390 Sum_probs=46.5
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCC---CChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 011938 35 ILKKGPWTSAEDAILIDYVKKHGE---GNWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKMGN 111 (474)
Q Consensus 35 ~lkKg~WT~EED~~L~~lV~kyG~---~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~G~ 111 (474)
.-++..||.+||.-|+-++.+||- +.|..|-..+- ..-+ |--
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir---~~p~--------------------------------FrF 90 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIR---ESPL--------------------------------FRF 90 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHH---H-CG--------------------------------GCT
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHH---hCCC--------------------------------ccc
Confidence 455778999999999999999998 89999987663 1111 122
Q ss_pred ChHHHhccCCCCCHHHHHHHHHHHhhhHH
Q 011938 112 KWARMAAHLPGRTDNEIKNYWNTRIKRRQ 140 (474)
Q Consensus 112 kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~ 140 (474)
+|- +..||+.+|..|.+.+++--.
T Consensus 91 Dwf-----~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 91 DWF-----FKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp -HH-----HHTS-HHHHHHHHHHHHHHHH
T ss_pred chh-----cccCCHHHHHHHHHHHHHHHH
Confidence 231 568999999999999887543
No 48
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=92.07 E-value=0.31 Score=40.67 Aligned_cols=45 Identities=29% Similarity=0.582 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------ChHHHhccCC-----CCCHHHHHHHHHHHhh
Q 011938 93 AFTQEEEQMIVELHAKM---GN----------KWARMAAHLP-----GRTDNEIKNYWNTRIK 137 (474)
Q Consensus 93 ~WT~EED~~LieLv~k~---G~----------kWs~IAk~Lp-----GRT~~QcKnRW~~~Lk 137 (474)
.||+++++.|++++.+. |+ .|..|+..|. ..+..||++||..+.+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~ 63 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKK 63 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHH
Confidence 49999999999998653 21 2999998872 3588999999988544
No 49
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=91.93 E-value=0.52 Score=50.88 Aligned_cols=51 Identities=18% Similarity=0.333 Sum_probs=45.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhHH
Q 011938 90 KKGAFTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRRQ 140 (474)
Q Consensus 90 kkg~WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~ 140 (474)
....||.||-.++-+++..||..+.+|-+.||.|+-..|..+|....|.+.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~~ 236 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTRE 236 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHhh
Confidence 456799999999999999999999999999999999999999987655543
No 50
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=90.75 E-value=0.32 Score=51.39 Aligned_cols=46 Identities=15% Similarity=0.265 Sum_probs=42.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhh
Q 011938 92 GAFTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIK 137 (474)
Q Consensus 92 g~WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lk 137 (474)
.+|+.+|-+++.++..++|..++.|+..+|.|...|||.+|.+--|
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek 411 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEK 411 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhh
Confidence 3699999999999999999999999999999999999999976444
No 51
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=89.39 E-value=0.73 Score=47.72 Aligned_cols=47 Identities=26% Similarity=0.487 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHHHHHh----CCC-----ChhHHhhhh---CCccccccchhhhhhcc
Q 011938 39 GPWTSAEDAILIDYVKKH----GEG-----NWNAVQKNS---GLFRCGKSCRLRWANHL 85 (474)
Q Consensus 39 g~WT~EED~~L~~lV~ky----G~~-----nW~~IAk~l---~~~Rt~kQCR~RW~n~L 85 (474)
..|+.+|-..|+++..+. ..+ -|..||+.+ |..|++.||+.||.+..
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 689999999999998643 122 599999854 44599999999998743
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=84.67 E-value=1.9 Score=32.33 Aligned_cols=42 Identities=24% Similarity=0.309 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhh
Q 011938 96 QEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKR 138 (474)
Q Consensus 96 ~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkk 138 (474)
+++++.++.++...|-.|.+||+.+ |.+...|+.+....+++
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 4678888999999999999999999 99999999988776543
No 53
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=79.16 E-value=2.2 Score=45.36 Aligned_cols=44 Identities=11% Similarity=0.167 Sum_probs=41.2
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhh
Q 011938 38 KGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWAN 83 (474)
Q Consensus 38 Kg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n 83 (474)
--+||.+|-+++..+...+|. ++..|+..++. |..+|++.+|.+
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~-R~RkqIKaKfi~ 408 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGT-DFSLISSLFPN-RERKQIKAKFIK 408 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcc-hHHHHHHhcCc-hhHHHHHHHHHH
Confidence 458999999999999999999 99999999997 999999999876
No 54
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=79.10 E-value=5.9 Score=45.41 Aligned_cols=44 Identities=11% Similarity=0.165 Sum_probs=41.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHH
Q 011938 92 GAFTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTR 135 (474)
Q Consensus 92 g~WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~ 135 (474)
..||..|-.++-+++..|.+.+..|++.++++|-.||-.+|...
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 46999999999999999999999999999999999999988764
No 55
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=74.85 E-value=4.9 Score=45.05 Aligned_cols=53 Identities=17% Similarity=0.484 Sum_probs=43.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChHHHhc----------cCCCCCHHHHHHHHHHHhhhHHHc
Q 011938 90 KKGAFTQEEEQMIVELHAKMGNKWARMAA----------HLPGRTDNEIKNYWNTRIKRRQRA 142 (474)
Q Consensus 90 kkg~WT~EED~~LieLv~k~G~kWs~IAk----------~LpGRT~~QcKnRW~~~Lkkk~r~ 142 (474)
+|..||.+|++-...+.+++|+++..|-. ...-+|..|+|.+|++.+++..+-
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~ 149 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKL 149 (782)
T ss_pred cccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhh
Confidence 36789999999999999999999988832 223468889999999988877554
No 56
>smart00595 MADF subfamily of SANT domain.
Probab=73.98 E-value=3.6 Score=33.83 Aligned_cols=24 Identities=29% Similarity=0.610 Sum_probs=21.1
Q ss_pred hHHHhccCCCCCHHHHHHHHHHHhh
Q 011938 113 WARMAAHLPGRTDNEIKNYWNTRIK 137 (474)
Q Consensus 113 Ws~IAk~LpGRT~~QcKnRW~~~Lk 137 (474)
|.+||..| |.+..+|+.+|+++..
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~ 53 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRD 53 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 99999999 5599999999998644
No 57
>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=73.83 E-value=3.8 Score=34.07 Aligned_cols=44 Identities=23% Similarity=0.552 Sum_probs=31.9
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------ChhHHhhhhC----Cccccccchhhhhh
Q 011938 40 PWTSAEDAILIDYVKKH---GEG---------NWNAVQKNSG----LFRCGKSCRLRWAN 83 (474)
Q Consensus 40 ~WT~EED~~L~~lV~ky---G~~---------nW~~IAk~l~----~~Rt~kQCR~RW~n 83 (474)
.||+++++.|++++... |.. .|..|++.+. ...+..||+.||..
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 59999999999998654 211 4888887653 33567788888765
No 58
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=71.86 E-value=8.8 Score=28.41 Aligned_cols=43 Identities=16% Similarity=0.300 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhHH
Q 011938 97 EEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRRQ 140 (474)
Q Consensus 97 EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~ 140 (474)
+++..++.++-..|..+.+||+.| |-+...|+.+-...+++..
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~kLR 49 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKKLR 49 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHHhc
Confidence 456666666666667899999999 9999999998888776643
No 59
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=68.99 E-value=22 Score=38.03 Aligned_cols=44 Identities=18% Similarity=0.272 Sum_probs=39.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCChHHH-hccCCCCCHHHHHHHHHHH
Q 011938 92 GAFTQEEEQMIVELHAKMGNKWARM-AAHLPGRTDNEIKNYWNTR 135 (474)
Q Consensus 92 g~WT~EED~~LieLv~k~G~kWs~I-Ak~LpGRT~~QcKnRW~~~ 135 (474)
..|+++|-+.+-+..+.||+.+..| +..++.|+--.|-.+|...
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 4699999999999999999999999 5678999999999988653
No 60
>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=68.23 E-value=7.8 Score=34.88 Aligned_cols=33 Identities=24% Similarity=0.594 Sum_probs=26.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----ChHHHhccC
Q 011938 88 NLKKGAFTQEEEQMIVELHAKMGN----KWARMAAHL 120 (474)
Q Consensus 88 ~lkkg~WT~EED~~LieLv~k~G~----kWs~IAk~L 120 (474)
..++..||++||.-|+-.+.+||- .|.+|-..+
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 556788999999999999999997 598886544
No 61
>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=68.15 E-value=10 Score=27.92 Aligned_cols=38 Identities=21% Similarity=0.403 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhCCC-hHHHhccCCCCCHHHHHHHHHHH
Q 011938 97 EEEQMIVELHAKMGNK-WARMAAHLPGRTDNEIKNYWNTR 135 (474)
Q Consensus 97 EED~~LieLv~k~G~k-Ws~IAk~LpGRT~~QcKnRW~~~ 135 (474)
+=|.+|+.+..+-|.. |.+||+.+ |=+...|..|++.+
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 5588899999888864 99999999 99999999999764
No 62
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=68.01 E-value=16 Score=38.20 Aligned_cols=46 Identities=26% Similarity=0.500 Sum_probs=37.1
Q ss_pred CCCCCHHHHHHHHHHHHHh-CCC---hHHHhccCCCCCHHHHHHHHHHHh
Q 011938 91 KGAFTQEEEQMIVELHAKM-GNK---WARMAAHLPGRTDNEIKNYWNTRI 136 (474)
Q Consensus 91 kg~WT~EED~~LieLv~k~-G~k---Ws~IAk~LpGRT~~QcKnRW~~~L 136 (474)
-..||.-|...|+++.+.. |.. -.+|++.++||+..+|++.-+.+.
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK 70 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLK 70 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHH
Confidence 4579999999999888765 433 578999999999999999766543
No 63
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=67.52 E-value=5.6 Score=42.56 Aligned_cols=49 Identities=16% Similarity=0.262 Sum_probs=41.2
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCChhHHhhh-----hCCccccccchhhhhhc
Q 011938 35 ILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKN-----SGLFRCGKSCRLRWANH 84 (474)
Q Consensus 35 ~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~-----l~~~Rt~kQCR~RW~n~ 84 (474)
.++...||++|-+-|.+++++|.- .|-.||.. .+..|+-...++||..+
T Consensus 127 ~l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 344567999999999999999987 88889876 56569999999999854
No 64
>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=66.35 E-value=5.5 Score=33.56 Aligned_cols=30 Identities=30% Similarity=0.523 Sum_probs=16.9
Q ss_pred CCCccCCCCHHHHHHH--------HHHHHHhCCCChhHHhh
Q 011938 34 VILKKGPWTSAEDAIL--------IDYVKKHGEGNWNAVQK 66 (474)
Q Consensus 34 p~lkKg~WT~EED~~L--------~~lV~kyG~~nW~~IAk 66 (474)
|.-..|-||+|+|+.| .+++++|| |..|++
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~ 80 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIER 80 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHH
Confidence 4455789999999999 35666776 355554
No 65
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=64.58 E-value=9.8 Score=34.87 Aligned_cols=43 Identities=14% Similarity=0.159 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHHhCC-ChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 96 QEEEQMIVELHAKMGN-KWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 96 ~EED~~LieLv~k~G~-kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
++-|.+|+++..+-|. .|++||+.+ |-+...|+.|++.+....
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~G 51 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAG 51 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 3578999999988886 499999999 999999999998877655
No 66
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=64.51 E-value=5.6 Score=45.56 Aligned_cols=44 Identities=16% Similarity=0.210 Sum_probs=39.9
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhh
Q 011938 38 KGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWAN 83 (474)
Q Consensus 38 Kg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n 83 (474)
.-.||+.|-.++.+++..|.+ ++..|++.+.+ ++.+||-+-|..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~K-DF~~v~km~~~-KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSK-DFIFVQKMVKS-KTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcc-cHHHHHHHhcc-ccHHHHHHHHHH
Confidence 347999999999999999987 99999999998 999999887765
No 67
>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=63.90 E-value=7.8 Score=28.51 Aligned_cols=38 Identities=13% Similarity=0.283 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhh
Q 011938 44 AEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWAN 83 (474)
Q Consensus 44 EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n 83 (474)
+=|.+|+.+.++.+...|.+||+.+| =+...|+.|+.+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 45889999999999989999999998 478889888764
No 68
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=59.32 E-value=13 Score=34.59 Aligned_cols=44 Identities=9% Similarity=0.053 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHhCC-ChHHHhccCCCCCHHHHHHHHHHHhhhHH
Q 011938 96 QEEEQMIVELHAKMGN-KWARMAAHLPGRTDNEIKNYWNTRIKRRQ 140 (474)
Q Consensus 96 ~EED~~LieLv~k~G~-kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~ 140 (474)
++-|.+|+.+.++-|+ .|++||+.+ |-+...|+.|++.+.+...
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 5678899998888886 499999999 9999999999988877653
No 69
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=58.86 E-value=18 Score=31.73 Aligned_cols=39 Identities=18% Similarity=0.235 Sum_probs=28.8
Q ss_pred HHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 100 QMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 100 ~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
..++.+.-..|-.+.+||+.+ |.+...|+.++...+++-
T Consensus 119 r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~L 157 (161)
T TIGR02985 119 RKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKEL 157 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 334444344577899999998 999999999998865443
No 70
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=57.71 E-value=11 Score=42.39 Aligned_cols=46 Identities=13% Similarity=0.327 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHH
Q 011938 90 KKGAFTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTR 135 (474)
Q Consensus 90 kkg~WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~ 135 (474)
..++|+.+|-++......+.|.+.+.|+..+++|+..|||.+|..-
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhh
Confidence 4568999999999999999999999999999999999999988653
No 71
>smart00595 MADF subfamily of SANT domain.
Probab=56.71 E-value=3.9 Score=33.65 Aligned_cols=23 Identities=26% Similarity=0.765 Sum_probs=19.8
Q ss_pred ChhHHhhhhCCccccccchhhhhhc
Q 011938 60 NWNAVQKNSGLFRCGKSCRLRWANH 84 (474)
Q Consensus 60 nW~~IAk~l~~~Rt~kQCR~RW~n~ 84 (474)
-|.+||..++ .+...|+.+|.+.
T Consensus 29 aW~~Ia~~l~--~~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELG--LSVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHC--cCHHHHHHHHHHH
Confidence 5999999998 4899999999873
No 72
>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=56.63 E-value=10 Score=35.80 Aligned_cols=40 Identities=23% Similarity=0.302 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHH
Q 011938 93 AFTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWN 133 (474)
Q Consensus 93 ~WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~ 133 (474)
.||+|+.++|.+|..+ |..=++||+.|.|.|.|.|--+-+
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~h 41 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKAH 41 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhhh
Confidence 5999999999999965 888999999998799998876554
No 73
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=56.10 E-value=12 Score=42.03 Aligned_cols=49 Identities=18% Similarity=0.331 Sum_probs=36.6
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCc---------cccccchhhhhhccC
Q 011938 37 KKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLF---------RCGKSCRLRWANHLR 86 (474)
Q Consensus 37 kKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~---------Rt~kQCR~RW~n~L~ 86 (474)
+|..||-.|.+....+++.+|+ ++.+|-+.+-.. ++..|.|.+|++.+.
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVR 144 (782)
T ss_pred cccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHH
Confidence 3668999999999999999999 999884332211 455677777776543
No 74
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=55.49 E-value=10 Score=34.74 Aligned_cols=45 Identities=9% Similarity=0.155 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCC
Q 011938 43 SAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNL 89 (474)
Q Consensus 43 ~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~l 89 (474)
.+-|.+|+++.++.|...|.+||+.+| -+...|+.|+.+....++
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 357999999999999989999999998 688899999998766554
No 75
>smart00351 PAX Paired Box domain.
Probab=54.94 E-value=97 Score=27.67 Aligned_cols=87 Identities=18% Similarity=0.287 Sum_probs=56.1
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCcc-ccccchhhhhh--ccCCCC----CCCCCCHHHHHHHHHH
Q 011938 33 GVILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFR-CGKSCRLRWAN--HLRPNL----KKGAFTQEEEQMIVEL 105 (474)
Q Consensus 33 ~p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~R-t~kQCR~RW~n--~L~p~l----kkg~WT~EED~~LieL 105 (474)
+......+++.++-++++.++. -|. .-.+||+.++..| +...+..||.. .+.|.- +...=+.+++..|+++
T Consensus 10 ~~~~~~~~~s~~~R~riv~~~~-~G~-s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~ 87 (125)
T smart00351 10 GVFVNGRPLPDEERQRIVELAQ-NGV-RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADY 87 (125)
T ss_pred CeecCCCCCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHH
Confidence 4556667899999999998886 454 7899999998744 44455666653 344422 2223566667677767
Q ss_pred HHHhCCChHHHhccCCCCCHHHHHHHH
Q 011938 106 HAKMGNKWARMAAHLPGRTDNEIKNYW 132 (474)
Q Consensus 106 v~k~G~kWs~IAk~LpGRT~~QcKnRW 132 (474)
+.+. |..|..+++..|
T Consensus 88 ~~~~-----------p~~t~~el~~~L 103 (125)
T smart00351 88 KQEN-----------PGIFAWEIRDRL 103 (125)
T ss_pred HHHC-----------CCCCHHHHHHHH
Confidence 6663 445555665554
No 76
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=54.14 E-value=18 Score=43.98 Aligned_cols=74 Identities=20% Similarity=0.297 Sum_probs=46.6
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHh-CCChHH
Q 011938 37 KKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKM-GNKWAR 115 (474)
Q Consensus 37 kKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~-G~kWs~ 115 (474)
.---|..+||..|+-.|-+||.|+|.+|-. .......=...+...+..+.|=..+-..|+.+..++ +.+|..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~-------Dp~L~l~dKi~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRL-------DPDLGLTDKIFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhcc-------CccccchhhhcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 445799999999999999999999999942 111111111112222445566666777777777666 444554
Q ss_pred Hh
Q 011938 116 MA 117 (474)
Q Consensus 116 IA 117 (474)
..
T Consensus 1205 ~~ 1206 (1373)
T KOG0384|consen 1205 KL 1206 (1373)
T ss_pred hh
Confidence 43
No 77
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=52.68 E-value=83 Score=33.17 Aligned_cols=88 Identities=15% Similarity=0.290 Sum_probs=61.5
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCC---ChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHh---
Q 011938 36 LKKGPWTSAEDAILIDYVKKHGEG---NWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKM--- 109 (474)
Q Consensus 36 lkKg~WT~EED~~L~~lV~kyG~~---nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~--- 109 (474)
..-..||..|...|+++.+..... +-.+|++.+.+ |+..++++ |.+.|+ ++.+.+++++.
T Consensus 19 ~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~-Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~ 84 (344)
T PF11035_consen 19 TGPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPG-RSEAEIRD-FLQQLK------------GRVAREAIQKVHPG 84 (344)
T ss_pred CCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccC-cCHHHHHH-HHHHHH------------HHHHHHHHHHhccc
Confidence 334589999999999999876322 56788888887 98888876 333333 34566666652
Q ss_pred ---CC------------ChHHHhccCCCCCHHHHHHHHHHHhh
Q 011938 110 ---GN------------KWARMAAHLPGRTDNEIKNYWNTRIK 137 (474)
Q Consensus 110 ---G~------------kWs~IAk~LpGRT~~QcKnRW~~~Lk 137 (474)
|. -|..+|+.+.|.-...+-.-|-+.|.
T Consensus 85 g~~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 85 GLKGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 11 18888888888888777777766554
No 78
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=52.07 E-value=28 Score=34.19 Aligned_cols=44 Identities=14% Similarity=0.245 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHHHHhCCChHHHhccC---CCCCHHHHHHHHHHHhh
Q 011938 93 AFTQEEEQMIVELHAKMGNKWARMAAHL---PGRTDNEIKNYWNTRIK 137 (474)
Q Consensus 93 ~WT~EED~~LieLv~k~G~kWs~IAk~L---pGRT~~QcKnRW~~~Lk 137 (474)
.|+.++|-.|+.+|.. |+.-..|+.-+ ..-|-.+|..||+.+|-
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 4999999999999976 56566665433 34599999999998875
No 79
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=51.47 E-value=4.5 Score=32.31 Aligned_cols=25 Identities=24% Similarity=0.623 Sum_probs=20.3
Q ss_pred ChhHHhhhhCCccccccchhhhhhc
Q 011938 60 NWNAVQKNSGLFRCGKSCRLRWANH 84 (474)
Q Consensus 60 nW~~IAk~l~~~Rt~kQCR~RW~n~ 84 (474)
-|..||..++..-+...|+.||.+.
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~L 52 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNL 52 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHH
Confidence 5999999998645777899998763
No 80
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=50.16 E-value=11 Score=31.48 Aligned_cols=41 Identities=22% Similarity=0.299 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhCC-------CChhHHhhhhCCccc----cccchhhhhhccC
Q 011938 46 DAILIDYVKKHGE-------GNWNAVQKNSGLFRC----GKSCRLRWANHLR 86 (474)
Q Consensus 46 D~~L~~lV~kyG~-------~nW~~IAk~l~~~Rt----~kQCR~RW~n~L~ 86 (474)
=-.|..+|.+.|. +.|..||+.++.... +.+++..|.++|.
T Consensus 38 L~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 38 LYKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 3468888888873 479999999987432 2456777777663
No 81
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=49.83 E-value=11 Score=34.91 Aligned_cols=45 Identities=18% Similarity=0.198 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCC
Q 011938 43 SAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNL 89 (474)
Q Consensus 43 ~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~l 89 (474)
.+-|.+|+.+.++.|.-.|.+||+.+| -+...|+.|+++..+.++
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 567999999999999989999999998 588889999998766554
No 82
>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=49.13 E-value=33 Score=29.13 Aligned_cols=36 Identities=19% Similarity=0.198 Sum_probs=27.1
Q ss_pred HHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 103 VELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 103 ieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
+.++-..|..+.+||+.+ |-+...|+++.+..+++-
T Consensus 119 i~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~kl 154 (158)
T TIGR02937 119 LVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKKL 154 (158)
T ss_pred HhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 344444577899999999 779999999888865543
No 83
>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=49.06 E-value=31 Score=28.62 Aligned_cols=39 Identities=18% Similarity=0.295 Sum_probs=28.2
Q ss_pred HHHHHHHHHhCC--------ChHHHhccCCC---CC--HHHHHHHHHHHhhh
Q 011938 100 QMIVELHAKMGN--------KWARMAAHLPG---RT--DNEIKNYWNTRIKR 138 (474)
Q Consensus 100 ~~LieLv~k~G~--------kWs~IAk~LpG---RT--~~QcKnRW~~~Lkk 138 (474)
-+|..+|.+.|+ +|..||+.|.- -+ ..++|..|.++|..
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 357777777773 69999999932 12 47899999887753
No 84
>cd08319 Death_RAIDD Death domain of RIP-associated ICH-1 homologous protein with a death domain. Death domain (DD) of RAIDD (RIP-associated ICH-1 homologous protein with a death domain), also known as CRADD (Caspase and RIP adaptor). RAIDD is an adaptor protein that together with the p53-inducible protein PIDD and caspase-2, forms the PIDDosome complex, which is required for caspase-2 activation and plays a role in mediating stress-induced apoptosis. RAIDD contains an N-terminal Caspase Activation and Recruitment Domain (CARD), which interacts with the caspase-2 CARD, and a C-terminal DD, which interacts with the DD of PIDD. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD, DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other pr
Probab=46.89 E-value=22 Score=30.09 Aligned_cols=30 Identities=20% Similarity=0.568 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhCCChHHHhccCCCCCHHHHH
Q 011938 99 EQMIVELHAKMGNKWARMAAHLPGRTDNEIK 129 (474)
Q Consensus 99 D~~LieLv~k~G~kWs~IAk~LpGRT~~QcK 129 (474)
|+.|..+....|..|..+|.+| |=|..+|.
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I~ 31 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDIY 31 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 5678899999999999999999 76666554
No 85
>PF09420 Nop16: Ribosome biogenesis protein Nop16; InterPro: IPR019002 Nucleolar protein 16 (Nop16) is a protein involved in the biogenesis of the 60S ribosomal subunit.
Probab=45.05 E-value=45 Score=31.22 Aligned_cols=47 Identities=19% Similarity=0.215 Sum_probs=38.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCChHHHhccCC----CCCHHHHHHHHHHHh
Q 011938 90 KKGAFTQEEEQMIVELHAKMGNKWARMAAHLP----GRTDNEIKNYWNTRI 136 (474)
Q Consensus 90 kkg~WT~EED~~LieLv~k~G~kWs~IAk~Lp----GRT~~QcKnRW~~~L 136 (474)
....-|..|..-|..|+.+||.++..+|.-.. -.|..||+.+.+.+.
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 44568899999999999999999999996543 489999998887653
No 86
>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=43.34 E-value=23 Score=28.15 Aligned_cols=26 Identities=19% Similarity=0.422 Sum_probs=21.1
Q ss_pred ChHHHhccCCC-CCHHHHHHHHHHHhh
Q 011938 112 KWARMAAHLPG-RTDNEIKNYWNTRIK 137 (474)
Q Consensus 112 kWs~IAk~LpG-RT~~QcKnRW~~~Lk 137 (474)
-|.+||..|.. -+..+|+.||+++..
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHH
Confidence 39999999953 578899999998654
No 87
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=43.14 E-value=42 Score=28.18 Aligned_cols=40 Identities=15% Similarity=0.267 Sum_probs=29.4
Q ss_pred HHHHHHHHHhCC--------ChHHHhccCCC-----CCHHHHHHHHHHHhhhH
Q 011938 100 QMIVELHAKMGN--------KWARMAAHLPG-----RTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 100 ~~LieLv~k~G~--------kWs~IAk~LpG-----RT~~QcKnRW~~~Lkkk 139 (474)
-+|..+|.+.|+ +|.+||+.|.- ....++|..|.++|..-
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~y 87 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLPF 87 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHHH
Confidence 457777777764 59999999833 24678899998887654
No 88
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=42.41 E-value=33 Score=29.68 Aligned_cols=47 Identities=15% Similarity=0.255 Sum_probs=32.3
Q ss_pred CCCCHHHHHHHHHHHHHh----CC----ChHHHhccCCC-----CCHHHHHHHHHHHhhh
Q 011938 92 GAFTQEEEQMIVELHAKM----GN----KWARMAAHLPG-----RTDNEIKNYWNTRIKR 138 (474)
Q Consensus 92 g~WT~EED~~LieLv~k~----G~----kWs~IAk~LpG-----RT~~QcKnRW~~~Lkk 138 (474)
.-||+|+|..|++.+..| |. .|..+...+.+ =+.+|+.++-+.+.+|
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 459999999999998877 52 45554443322 2778888887775444
No 89
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=42.33 E-value=17 Score=30.57 Aligned_cols=43 Identities=21% Similarity=0.393 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhCC-------CChhHHhhhhCCcc----ccccchhhhhhccCC
Q 011938 45 EDAILIDYVKKHGE-------GNWNAVQKNSGLFR----CGKSCRLRWANHLRP 87 (474)
Q Consensus 45 ED~~L~~lV~kyG~-------~nW~~IAk~l~~~R----t~kQCR~RW~n~L~p 87 (474)
+=-+|..+|.+.|. ..|..||..++... .+.+.+..|.++|.|
T Consensus 33 dL~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 33 DLYRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred cHHHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 34568888888873 47999999998732 134456666666643
No 90
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=41.90 E-value=51 Score=29.58 Aligned_cols=34 Identities=12% Similarity=0.104 Sum_probs=25.5
Q ss_pred HHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 105 LHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 105 Lv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
++...|-.+.+||+.| |.+...|+.+....+++.
T Consensus 139 l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~L 172 (182)
T PRK09652 139 LREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREAL 172 (182)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3334467899999999 899999998887654443
No 91
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=41.49 E-value=98 Score=27.34 Aligned_cols=45 Identities=16% Similarity=0.283 Sum_probs=33.7
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccC
Q 011938 38 KGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLR 86 (474)
Q Consensus 38 Kg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~ 86 (474)
+..||.|+-...+..+...|. .=..||+.++. ..+-..+|.+.+.
T Consensus 10 rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI---s~~tl~~W~r~y~ 54 (121)
T PRK09413 10 RRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV---AASQLFLWRKQYQ 54 (121)
T ss_pred CCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc---CHHHHHHHHHHHh
Confidence 568999998888887777766 77899999886 3345567777553
No 92
>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=41.33 E-value=28 Score=32.60 Aligned_cols=47 Identities=17% Similarity=0.242 Sum_probs=34.8
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCC---ccccccchhhhhh
Q 011938 36 LKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGL---FRCGKSCRLRWAN 83 (474)
Q Consensus 36 lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~---~Rt~kQCR~RW~n 83 (474)
.+..+=|..|..-+..+|.+||. ++..++.-..+ ..|..||+.+...
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~ 161 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRK 161 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHH
Confidence 56678899999999999999998 99998864432 1455555555444
No 93
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=40.33 E-value=54 Score=29.33 Aligned_cols=31 Identities=16% Similarity=0.127 Sum_probs=24.7
Q ss_pred HhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 108 KMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 108 k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
..|..+.+||+.| |-+...|++++...+++.
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~l 169 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQLL 169 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3466799999999 899999999887755443
No 94
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=40.32 E-value=53 Score=30.86 Aligned_cols=39 Identities=18% Similarity=0.232 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhh
Q 011938 99 EQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKR 138 (474)
Q Consensus 99 D~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkk 138 (474)
..+++++....|-.+.+||+.| |-+...|+.+|.....+
T Consensus 140 ~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~~ 178 (185)
T PF07638_consen 140 QRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARAW 178 (185)
T ss_pred HHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3444445455577899999999 99999999999886543
No 95
>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=40.05 E-value=12 Score=31.57 Aligned_cols=17 Identities=29% Similarity=0.634 Sum_probs=10.2
Q ss_pred CCCCCCCCCHHHHHHHH
Q 011938 87 PNLKKGAFTQEEEQMIV 103 (474)
Q Consensus 87 p~lkkg~WT~EED~~Li 103 (474)
|....|-||+|+|+.|.
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 55678899999999994
No 96
>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=37.96 E-value=75 Score=22.11 Aligned_cols=40 Identities=15% Similarity=0.297 Sum_probs=27.9
Q ss_pred CCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHH
Q 011938 94 FTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTR 135 (474)
Q Consensus 94 WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~ 135 (474)
++++ +..++.++-.-|..+..||+.+ |-+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 3444 4555555556678899999998 78888887766553
No 97
>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=37.90 E-value=41 Score=28.42 Aligned_cols=31 Identities=19% Similarity=0.411 Sum_probs=26.1
Q ss_pred HHHHHHHHHHhCCChHHHhccCCCCCHHHHHH
Q 011938 99 EQMIVELHAKMGNKWARMAAHLPGRTDNEIKN 130 (474)
Q Consensus 99 D~~LieLv~k~G~kWs~IAk~LpGRT~~QcKn 130 (474)
|.+|..+....|..|.++|..| |=+..+|.+
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~~ 34 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEINQ 34 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHHH
Confidence 6788889999999999999999 767766654
No 98
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=37.59 E-value=49 Score=27.94 Aligned_cols=42 Identities=19% Similarity=0.192 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHhCC-ChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 97 EEEQMIVELHAKMGN-KWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 97 EED~~LieLv~k~G~-kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
+.|.+|+++..+.|. .|.+||+.+ |-+...|+.+.+.+.+..
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 568888888888775 599999999 999999999998877654
No 99
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=36.74 E-value=59 Score=30.44 Aligned_cols=31 Identities=23% Similarity=0.185 Sum_probs=24.6
Q ss_pred HhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 108 KMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 108 k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
..|....+||..| |-+...|++|+...+++.
T Consensus 148 ~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~L 178 (192)
T PRK09643 148 MQGYSVADAARML-GVAEGTVKSRCARGRARL 178 (192)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3466799999999 999999999996654443
No 100
>PRK04217 hypothetical protein; Provisional
Probab=35.26 E-value=84 Score=28.01 Aligned_cols=46 Identities=15% Similarity=0.056 Sum_probs=36.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 92 GAFTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 92 g~WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
..-|++| ..++.++...|-...+||+.+ |.+...|+.+|+...++.
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3456666 677777777788999999999 999999999998755443
No 101
>cd08317 Death_ank Death domain associated with Ankyrins. Death Domain (DD) associated with Ankyrins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. Ankyrins function as adaptor proteins and they interact, through ANK repeats, with structurally diverse membrane proteins, including ion channels/pumps, calcium release channels, and cell adhesion molecules. They play critical roles in the proper expression and membrane localization of these proteins. In mammals, this family includes ankyrin-R for restricted (or ANK1), ankyrin-B for broadly expressed (or ANK2) and ankyrin-G for general or giant (or ANK3). They are expressed in different combinations in many tissues and play non-overlapping functions. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-associati
Probab=34.09 E-value=36 Score=28.22 Aligned_cols=30 Identities=20% Similarity=0.636 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhCCChHHHhccCCCCCHHHHH
Q 011938 99 EQMIVELHAKMGNKWARMAAHLPGRTDNEIK 129 (474)
Q Consensus 99 D~~LieLv~k~G~kWs~IAk~LpGRT~~QcK 129 (474)
|..|..+.+..|..|.++|+.| |=+..+|.
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI~ 33 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDID 33 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHHH
Confidence 5667888899999999999999 66665554
No 102
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=33.33 E-value=71 Score=29.17 Aligned_cols=30 Identities=7% Similarity=-0.058 Sum_probs=23.9
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|..+.+||..| |-+...|+++....+++.
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~L 180 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREAL 180 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 356799999999 999999999887655443
No 103
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=32.79 E-value=47 Score=27.90 Aligned_cols=27 Identities=37% Similarity=0.735 Sum_probs=21.6
Q ss_pred HHHHHHHhCCChHHHhccCCCCCHHHHH
Q 011938 102 IVELHAKMGNKWARMAAHLPGRTDNEIK 129 (474)
Q Consensus 102 LieLv~k~G~kWs~IAk~LpGRT~~QcK 129 (474)
|..+....|..|.++|+.| |-+..+|.
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI~ 36 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEIR 36 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 3446678899999999999 87777774
No 104
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=32.76 E-value=40 Score=37.00 Aligned_cols=45 Identities=11% Similarity=0.181 Sum_probs=38.9
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhh
Q 011938 37 KKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWAN 83 (474)
Q Consensus 37 kKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n 83 (474)
..-.||.||--++.++...||+ ++.+|-+.|+. |+-.+++.-|..
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP~-rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALPH-RSLASLVQYYYS 230 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcc-cHHHHHHHccC-ccHHHHHHHHHH
Confidence 3557999999999999999999 99999999997 988887766553
No 105
>cd00131 PAX Paired Box domain
Probab=32.29 E-value=3.7e+02 Score=24.12 Aligned_cols=75 Identities=16% Similarity=0.227 Sum_probs=48.8
Q ss_pred CCCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCcc-ccccchhhhhh--ccCCCCCCC----CCCHHHHHHHHHH
Q 011938 33 GVILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFR-CGKSCRLRWAN--HLRPNLKKG----AFTQEEEQMIVEL 105 (474)
Q Consensus 33 ~p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~R-t~kQCR~RW~n--~L~p~lkkg----~WT~EED~~LieL 105 (474)
+......+.|.++-++++.+++ .|. ....||+.++..+ +...+..||.. .+.|.-..| .-+.+.+..|+.+
T Consensus 10 ~~~~m~~~lS~d~R~rIv~~~~-~G~-s~~~iA~~~~Vs~~tV~r~i~r~~e~G~v~pk~~gg~rpr~~~~~~~~~i~~~ 87 (128)
T cd00131 10 GVFVNGRPLPDSIRQRIVELAQ-SGI-RPCDISRQLRVSHGCVSKILNRYYETGSIRPGAIGGSKPRVATPEVVKKIEIY 87 (128)
T ss_pred ccccCCCcCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCCCCCCCCCCcCCHHHHHHHHHH
Confidence 3455567899999999998886 455 8999999998643 33334555553 244432222 2466677777777
Q ss_pred HHHh
Q 011938 106 HAKM 109 (474)
Q Consensus 106 v~k~ 109 (474)
+.+.
T Consensus 88 v~~~ 91 (128)
T cd00131 88 KQEN 91 (128)
T ss_pred HHHC
Confidence 7664
No 106
>PLN03162 golden-2 like transcription factor; Provisional
Probab=32.17 E-value=2.3e+02 Score=30.74 Aligned_cols=29 Identities=24% Similarity=0.295 Sum_probs=23.0
Q ss_pred CCCCCCCccCCCCHHHHHHHHHHHHHhCC
Q 011938 30 TARGVILKKGPWTSAEDAILIDYVKKHGE 58 (474)
Q Consensus 30 ~~~~p~lkKg~WT~EED~~L~~lV~kyG~ 58 (474)
...+.+..|-.||+|=.++++++|.+.|.
T Consensus 229 ~~~g~KKpRLrWTpELH~rFVeAV~qLG~ 257 (526)
T PLN03162 229 AAPGKKKAKVDWTPELHRRFVHAVEQLGV 257 (526)
T ss_pred cCCCCCCCcccCCHHHHHHHHHHHHHhCc
Confidence 33445566778999999999999999984
No 107
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=31.76 E-value=79 Score=28.61 Aligned_cols=31 Identities=13% Similarity=0.306 Sum_probs=24.0
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhHH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRRQ 140 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~ 140 (474)
.|....+||+.| |-|...|++++...+++..
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~Lr 164 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKKLK 164 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 355788999988 8899999999877655543
No 108
>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=31.26 E-value=64 Score=29.54 Aligned_cols=29 Identities=7% Similarity=0.035 Sum_probs=23.1
Q ss_pred CCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 110 GNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 110 G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
|....+||+.| |-+...||++....+++.
T Consensus 154 ~~s~~EIA~~l-gis~~tv~~~l~rar~~L 182 (190)
T TIGR02939 154 GLSYEDIARIM-DCPVGTVRSRIFRAREAI 182 (190)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 55699999999 889999999987755443
No 109
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=29.82 E-value=92 Score=28.79 Aligned_cols=32 Identities=16% Similarity=0.182 Sum_probs=25.0
Q ss_pred HhCCChHHHhccCCCCCHHHHHHHHHHHhhhHH
Q 011938 108 KMGNKWARMAAHLPGRTDNEIKNYWNTRIKRRQ 140 (474)
Q Consensus 108 k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~ 140 (474)
..|....+||..| |-+...|+.+....+++..
T Consensus 153 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~Lr 184 (189)
T PRK09648 153 VVGLSAEETAEAV-GSTPGAVRVAQHRALARLR 184 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 3466799999999 8899999998877655543
No 110
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=29.65 E-value=1e+02 Score=27.33 Aligned_cols=30 Identities=17% Similarity=0.145 Sum_probs=24.1
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|-...+||..| |-+...|+.|....+++.
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 150 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHAL 150 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 456789999999 899999999887755544
No 111
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=29.56 E-value=84 Score=29.07 Aligned_cols=29 Identities=7% Similarity=0.044 Sum_probs=22.7
Q ss_pred CCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 110 GNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 110 G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
|....+||..| |-+...|++++...+++-
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~L 182 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREAI 182 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 55689999988 889999999887754443
No 112
>cd08804 Death_ank2 Death domain of Ankyrin-2. Death Domain (DD) of Ankyrin-2 (ANK-2) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-2, also called ankyrin-B (for broadly expressed), is required for proper function of the Na/Ca ion exchanger-1 in cardiomyocytes, and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. Human ANK-2 is associated with "Ankyrin-B syndrome", an atypical arrythmia disorder with risk of sudden cardiac death. It also plays key roles in the brain and striated muscle. Loss of ANK-2 is associated with significant nervous system defects and sarcomere disorganization. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other
Probab=29.45 E-value=56 Score=27.43 Aligned_cols=31 Identities=23% Similarity=0.512 Sum_probs=25.8
Q ss_pred HHHHHHHHHHhCCChHHHhccCCCCCHHHHHH
Q 011938 99 EQMIVELHAKMGNKWARMAAHLPGRTDNEIKN 130 (474)
Q Consensus 99 D~~LieLv~k~G~kWs~IAk~LpGRT~~QcKn 130 (474)
|..|-.+....|.+|.++|+.| |=+..+|.+
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 5677888899999999999999 777777755
No 113
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=29.25 E-value=93 Score=28.96 Aligned_cols=30 Identities=17% Similarity=0.062 Sum_probs=24.1
Q ss_pred HhCCChHHHhccCCCCCHHHHHHHHHHHhhh
Q 011938 108 KMGNKWARMAAHLPGRTDNEIKNYWNTRIKR 138 (474)
Q Consensus 108 k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkk 138 (474)
..|-.+.+||..| |-+...|+++....+++
T Consensus 120 ~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 120 LEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred hcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3466899999999 89999999998765544
No 114
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=28.48 E-value=56 Score=26.58 Aligned_cols=31 Identities=23% Similarity=0.567 Sum_probs=23.1
Q ss_pred HHHHHHHHHHH-hCCChHHHhccCCCCCHHHHH
Q 011938 98 EEQMIVELHAK-MGNKWARMAAHLPGRTDNEIK 129 (474)
Q Consensus 98 ED~~LieLv~k-~G~kWs~IAk~LpGRT~~QcK 129 (474)
-++.|..++.. .|.+|..+|+.| |=+..+|.
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i~ 35 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEADID 35 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHHHH
Confidence 35667777777 899999999999 55555554
No 115
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=28.06 E-value=1e+02 Score=28.26 Aligned_cols=30 Identities=13% Similarity=0.169 Sum_probs=24.0
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|....+||..| |-+...|+.++...+++.
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~L 175 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAAL 175 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 366789999999 999999999887765544
No 116
>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=28.04 E-value=49 Score=24.53 Aligned_cols=38 Identities=8% Similarity=0.088 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhh
Q 011938 43 SAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWAN 83 (474)
Q Consensus 43 ~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n 83 (474)
++++..++.+..-.|. .|.+||..++ .+...++.+..+
T Consensus 12 ~~~~r~i~~l~~~~g~-s~~eIa~~l~--~s~~~v~~~l~r 49 (54)
T PF08281_consen 12 PERQREIFLLRYFQGM-SYAEIAEILG--ISESTVKRRLRR 49 (54)
T ss_dssp -HHHHHHHHHHHTS----HHHHHHHCT--S-HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCc-CHHHHHHHHC--cCHHHHHHHHHH
Confidence 3556666666666666 9999999997 677777776654
No 117
>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=27.79 E-value=1.1e+02 Score=28.60 Aligned_cols=34 Identities=6% Similarity=0.010 Sum_probs=25.5
Q ss_pred HHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 105 LHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 105 Lv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
++...|....+||..| |-+...||.|....+++.
T Consensus 142 l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~L 175 (188)
T TIGR02943 142 MREVLGFESDEICQEL-EISTSNCHVLLYRARLSL 175 (188)
T ss_pred HHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 3334466799999999 999999999887655443
No 118
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=27.70 E-value=1.1e+02 Score=28.36 Aligned_cols=30 Identities=10% Similarity=0.067 Sum_probs=24.0
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|-...+||..| |-+...|++++...+++.
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~L 175 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKKL 175 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 456799999999 889999999987755443
No 119
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=27.61 E-value=1.2e+02 Score=26.21 Aligned_cols=70 Identities=16% Similarity=0.356 Sum_probs=40.6
Q ss_pred cCCCCHHHHHHHHHHHHHh----CC---CChhHHhhhhC----Ccccccc-------chhhhhhccCCCCCCC---CCCH
Q 011938 38 KGPWTSAEDAILIDYVKKH----GE---GNWNAVQKNSG----LFRCGKS-------CRLRWANHLRPNLKKG---AFTQ 96 (474)
Q Consensus 38 Kg~WT~EED~~L~~lV~ky----G~---~nW~~IAk~l~----~~Rt~kQ-------CR~RW~n~L~p~lkkg---~WT~ 96 (474)
...||.+++-.|++.+..| |. .+|..+...+. ..=+..| .+.||.+.... .++| .++.
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 4579999999999888776 53 25554443332 1112222 33455554443 2223 5777
Q ss_pred HHHHHHHHHHHH
Q 011938 97 EEEQMIVELHAK 108 (474)
Q Consensus 97 EED~~LieLv~k 108 (474)
.-|+.+.+|.++
T Consensus 83 ~hd~~~f~Lsk~ 94 (98)
T PF04504_consen 83 PHDRRLFELSKK 94 (98)
T ss_pred HhHHHHHHHHHH
Confidence 777777777664
No 120
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=27.33 E-value=65 Score=27.19 Aligned_cols=43 Identities=12% Similarity=0.098 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCC
Q 011938 44 AEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPN 88 (474)
Q Consensus 44 EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~ 88 (474)
+.|.+++.++.+.+...|.+||+.++ -+...|+.|..+..+.+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g 45 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEG 45 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCC
Confidence 56889999999988889999999997 57778888887765544
No 121
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=27.32 E-value=70 Score=29.31 Aligned_cols=33 Identities=18% Similarity=0.261 Sum_probs=26.9
Q ss_pred CCChHHHhccCCCCCHHHHHHHHHHHhhhHHHcC
Q 011938 110 GNKWARMAAHLPGRTDNEIKNYWNTRIKRRQRAG 143 (474)
Q Consensus 110 G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~r~g 143 (474)
|-...+||+.| |-+...|+++....+++.+..+
T Consensus 135 g~s~~EIA~~l-gis~~tV~~~l~Ra~~~~~~~~ 167 (172)
T PRK09651 135 GLTYSEIAHKL-GVSVSSVKKYVAKATEHCLLFR 167 (172)
T ss_pred CCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHH
Confidence 55699999999 9999999999988777665443
No 122
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=27.09 E-value=96 Score=28.27 Aligned_cols=28 Identities=7% Similarity=-0.013 Sum_probs=22.2
Q ss_pred CCChHHHhccCCCCCHHHHHHHHHHHhhh
Q 011938 110 GNKWARMAAHLPGRTDNEIKNYWNTRIKR 138 (474)
Q Consensus 110 G~kWs~IAk~LpGRT~~QcKnRW~~~Lkk 138 (474)
|....+||+.| |.+...|+++....+++
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55688999988 88999999988765444
No 123
>cd08777 Death_RIP1 Death Domain of Receptor-Interacting Protein 1. Death domain (DD) found in Receptor-Interacting Protein 1 (RIP1) and related proteins. RIP kinases serve as essential sensors of cellular stress. Vertebrates contain several types containing a homologous N-terminal kinase domain and varying C-terminal domains. RIP1 harbors a C-terminal DD, which binds death receptors (DRs) including TNF receptor 1, Fas, TNF-related apoptosis-inducing ligand receptor 1 (TRAILR1), and TRAILR2. It also interacts with other DD-containing adaptor proteins such as TRADD and FADD. RIP1 plays a crucial role in determining a cell's fate, between survival or death, following exposure to stress signals. It is important in the signaling of NF-kappaB and MAPKs, and it links DR-associated signaling to reactive oxygen species (ROS) production. Abnormal RIP1 function may result in ROS accumulation affecting inflammatory responses, innate immunity, stress responses, and cell survival. In general, DDs ar
Probab=27.01 E-value=60 Score=27.46 Aligned_cols=30 Identities=37% Similarity=0.659 Sum_probs=24.1
Q ss_pred HHHHHHHHHhCCChHHHhccCCCCCHHHHHH
Q 011938 100 QMIVELHAKMGNKWARMAAHLPGRTDNEIKN 130 (474)
Q Consensus 100 ~~LieLv~k~G~kWs~IAk~LpGRT~~QcKn 130 (474)
+.|-.+....|.+|..+|+.| |=+..+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 445566688899999999999 778887765
No 124
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=26.83 E-value=1.2e+02 Score=27.57 Aligned_cols=30 Identities=23% Similarity=0.301 Sum_probs=23.9
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|-.-.+||+.| |.+...|+.|....+++.
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 162 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALRAL 162 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 356789999988 899999999987765544
No 125
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=26.76 E-value=1.1e+02 Score=28.52 Aligned_cols=30 Identities=7% Similarity=0.011 Sum_probs=23.4
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|-...+||..| |-+...||.|....+++.
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~L 185 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEKL 185 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHHH
Confidence 356789999988 999999999887655443
No 126
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=26.73 E-value=1.1e+02 Score=28.50 Aligned_cols=30 Identities=0% Similarity=-0.074 Sum_probs=24.2
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|-...+||..| |.+...||.|....+++.
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~L 178 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARLQL 178 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 466799999999 999999999987655443
No 127
>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=25.83 E-value=1.1e+02 Score=27.29 Aligned_cols=26 Identities=15% Similarity=0.356 Sum_probs=19.4
Q ss_pred hHHHhccCCCCCHHHHHHHHHHHhhh
Q 011938 113 WARMAAHLPGRTDNEIKNYWNTRIKR 138 (474)
Q Consensus 113 Ws~IAk~LpGRT~~QcKnRW~~~Lkk 138 (474)
....+...|..|.+.=|+||++.+..
T Consensus 52 F~~~~~~~p~HT~~sWRDR~RKfv~~ 77 (105)
T PF09197_consen 52 FKDLARKNPRHTENSWRDRYRKFVSE 77 (105)
T ss_dssp HHHHHHHTTTS-HHHHHHHHHHTHHH
T ss_pred HHHHHHcCCccchhHHHHHHHHHHHH
Confidence 45567778999999999999876654
No 128
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=25.76 E-value=1.2e+02 Score=27.53 Aligned_cols=36 Identities=17% Similarity=0.272 Sum_probs=27.7
Q ss_pred HHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 103 VELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 103 ieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
+.|....|-...+||+.| |.+...|+.+-..-+++.
T Consensus 128 ~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 128 FLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 333444567899999999 999999999987766655
No 129
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=25.57 E-value=1.1e+02 Score=23.79 Aligned_cols=36 Identities=19% Similarity=0.474 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHH
Q 011938 97 EEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWN 133 (474)
Q Consensus 97 EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~ 133 (474)
++|+..+.+..+.|-.-.+||+.+ ||+.+-|+++-+
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl~ 42 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYLK 42 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHhc
Confidence 566777788888999999999999 999999987643
No 130
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=25.42 E-value=1.3e+02 Score=26.80 Aligned_cols=31 Identities=6% Similarity=-0.099 Sum_probs=24.1
Q ss_pred HhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 108 KMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 108 k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
..|-.-.+||+.| |-+...|++|....+++.
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 150 (160)
T PRK09642 120 LEEKSYQEIALQE-KIEVKTVEMKLYRARKWI 150 (160)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3466789999999 999999999887655443
No 131
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=24.99 E-value=46 Score=37.57 Aligned_cols=50 Identities=14% Similarity=0.333 Sum_probs=44.7
Q ss_pred CCCCCccCCCCHHHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhh
Q 011938 32 RGVILKKGPWTSAEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWAN 83 (474)
Q Consensus 32 ~~p~lkKg~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n 83 (474)
.++....++|+.+|-++........|. +...|+..+++ |..+|++.++..
T Consensus 403 ~sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p~-R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 403 YSKKLETDKWDASETELFYKALSERGS-DFSLISNLFPL-RDRKQIKAKFKK 452 (584)
T ss_pred ccCccccCcccchhhHHhhhHHhhhcc-ccccccccccc-ccHHHHHHHHhh
Confidence 345777889999999999999999999 99999999998 999999988754
No 132
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=24.42 E-value=61 Score=28.93 Aligned_cols=44 Identities=7% Similarity=0.038 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHhCCCChhHHhhhhCCccccccchhhhhhccCCCC
Q 011938 44 AEDAILIDYVKKHGEGNWNAVQKNSGLFRCGKSCRLRWANHLRPNL 89 (474)
Q Consensus 44 EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~l 89 (474)
+-|.+++++.++.+...+.+||+.++ -+...|+.|-.+..+.++
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCc
Confidence 56889999999999889999999998 688889998877665553
No 133
>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=24.34 E-value=67 Score=26.73 Aligned_cols=34 Identities=32% Similarity=0.634 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHH
Q 011938 96 QEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNY 131 (474)
Q Consensus 96 ~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnR 131 (474)
.||-++|+..- ..|.+|..+|..| |=+...|++.
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I~~i 35 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAIDTF 35 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHHHHH
Confidence 57777777322 4678999999999 8788887763
No 134
>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=24.12 E-value=82 Score=29.76 Aligned_cols=34 Identities=18% Similarity=0.199 Sum_probs=27.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCChhHHhhhhCC-ccccc
Q 011938 40 PWTSAEDAILIDYVKKHGEGNWNAVQKNSGL-FRCGK 75 (474)
Q Consensus 40 ~WT~EED~~L~~lV~kyG~~nW~~IAk~l~~-~Rt~k 75 (474)
.||.|+.++|.++..+ |. .=.+||+.||+ .|++.
T Consensus 2 ~Wtde~~~~L~~lw~~-G~-SasqIA~~lg~vsRnAV 36 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GL-SASQIARQLGGVSRNAV 36 (162)
T ss_pred CCCHHHHHHHHHHHHc-CC-CHHHHHHHhCCcchhhh
Confidence 4999999999999966 44 77999999993 35543
No 135
>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=23.95 E-value=1.1e+02 Score=22.06 Aligned_cols=35 Identities=20% Similarity=0.238 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHH
Q 011938 97 EEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYW 132 (474)
Q Consensus 97 EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW 132 (474)
=|.+.|.++..+++.+..+.|+.| |=+...+..|-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 377888999999999999999998 66666665543
No 136
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=23.62 E-value=98 Score=27.60 Aligned_cols=44 Identities=11% Similarity=0.123 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHhCC-ChHHHhccCCCCCHHHHHHHHHHHhhhHH
Q 011938 96 QEEEQMIVELHAKMGN-KWARMAAHLPGRTDNEIKNYWNTRIKRRQ 140 (474)
Q Consensus 96 ~EED~~LieLv~k~G~-kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~ 140 (474)
.+-|.+|+++.++-+. .+.+||+.+ |-+...|++|-+++.+...
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCc
Confidence 3568888888888776 499999999 8999999999887766553
No 137
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=23.61 E-value=1.1e+02 Score=33.04 Aligned_cols=54 Identities=19% Similarity=0.196 Sum_probs=40.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC----------------ChHHHhccC-----CCCCHHHHHHHHHHHhhhHHHc
Q 011938 89 LKKGAFTQEEEQMIVELHAKMGN----------------KWARMAAHL-----PGRTDNEIKNYWNTRIKRRQRA 142 (474)
Q Consensus 89 lkkg~WT~EED~~LieLv~k~G~----------------kWs~IAk~L-----pGRT~~QcKnRW~~~Lkkk~r~ 142 (474)
.-.|.|+++=|+...++.+.|-. +=..||+++ ..||.+||-.+-+.+-|++.|.
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~re 148 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLRE 148 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHH
Confidence 45688999999999999988732 245677666 3488889988887776666554
No 138
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=23.37 E-value=1.4e+02 Score=27.90 Aligned_cols=30 Identities=7% Similarity=-0.039 Sum_probs=23.3
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|-.+.+||+.| |-+...|+++-...+++.
T Consensus 151 ~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~L 180 (196)
T PRK12524 151 EGLSNPEIAEVM-EIGVEAVESLTARGKRAL 180 (196)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 456799999999 888899988876654443
No 139
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=22.53 E-value=1.8e+02 Score=32.34 Aligned_cols=60 Identities=20% Similarity=0.300 Sum_probs=45.2
Q ss_pred HHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhCCChHHHh-ccCCCCCHHHHHHHHH
Q 011938 63 AVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKMGNKWARMA-AHLPGRTDNEIKNYWN 133 (474)
Q Consensus 63 ~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~G~kWs~IA-k~LpGRT~~QcKnRW~ 133 (474)
.|.-.++. --+.-||+.. ..|+..|-.++.++..+||+.+..|- .+||.++-..|-.+|.
T Consensus 268 Ais~LVPl-GGPvLCRDem----------EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 268 AISYLVPL-GGPVLCRDEM----------EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred HHHHhhcC-CCceeehhhh----------hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 34444443 3345566532 36999999999999999999999995 6669999999987764
No 140
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=22.49 E-value=1.6e+02 Score=27.20 Aligned_cols=34 Identities=18% Similarity=0.081 Sum_probs=27.4
Q ss_pred HHhCCChHHHhccCCCCCHHHHHHHHHHHhhhHHH
Q 011938 107 AKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRRQR 141 (474)
Q Consensus 107 ~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~r 141 (474)
...|-...+||..| |-+...||.|....+++...
T Consensus 140 ~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~ 173 (178)
T PRK12529 140 TLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLS 173 (178)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 34466899999999 99999999999877766543
No 141
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=22.42 E-value=58 Score=23.89 Aligned_cols=36 Identities=28% Similarity=0.405 Sum_probs=18.2
Q ss_pred CCCHHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHH
Q 011938 93 AFTQEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKN 130 (474)
Q Consensus 93 ~WT~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKn 130 (474)
.+|.+|-..|..++ +-|..=.+||+.| ||+..-|.+
T Consensus 4 ~Lt~~eR~~I~~l~-~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEALL-EQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp --------HHHHHH-CS---HHHHHHHT-T--HHHHHH
T ss_pred chhhhHHHHHHHHH-HcCCCHHHHHHHH-CcCcHHHHH
Confidence 56777777777665 4577789999999 999988765
No 142
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=22.40 E-value=1.5e+02 Score=26.04 Aligned_cols=29 Identities=10% Similarity=0.209 Sum_probs=21.9
Q ss_pred CCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 110 GNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 110 G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
|....+||+.| |.+...|+.+-...+++.
T Consensus 122 ~~s~~EIA~~l-~is~~tV~~~~~ra~~~L 150 (154)
T PRK06759 122 GKTMGEIALET-EMTYYQVRWIYRQALEKM 150 (154)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 45688888888 888999988776655443
No 143
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=22.20 E-value=86 Score=36.90 Aligned_cols=48 Identities=23% Similarity=0.377 Sum_probs=33.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC----ChHHHhcc------------CCCCCHHHHHHHHHHHhh
Q 011938 90 KKGAFTQEEEQMIVELHAKMGN----KWARMAAH------------LPGRTDNEIKNYWNTRIK 137 (474)
Q Consensus 90 kkg~WT~EED~~LieLv~k~G~----kWs~IAk~------------LpGRT~~QcKnRW~~~Lk 137 (474)
++...|.+||.-|+....++|- .|..+-.. +..||...+..|+++++.
T Consensus 894 k~~~ys~~edrfL~~~l~K~g~~~~~~~e~lr~~~~~~~~frfdw~~~sRt~~el~Rr~ntli~ 957 (971)
T KOG0385|consen 894 KGKNYSEEEDRFLECMLHKLGFDAENVYEELRQPIRNSPQFRFDWFIKSRTAMELQRRCNTLIT 957 (971)
T ss_pred cCCCCchhhHHHHHHHHHHhccCchhHHHHHHHHHhcCcccccceeeehhhHHHHHhcCCeeEE
Confidence 6678999999999999999983 25555322 234677666666666554
No 144
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=22.18 E-value=1.4e+02 Score=27.70 Aligned_cols=32 Identities=19% Similarity=0.110 Sum_probs=25.3
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhHHH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRRQR 141 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~r 141 (474)
.|-...+||..| |-+...||.|....+++..+
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~ 176 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDALLA 176 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 355689999999 99999999999876655443
No 145
>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=22.02 E-value=98 Score=22.34 Aligned_cols=29 Identities=17% Similarity=0.255 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHhCCCChhHHhhhhCCccc
Q 011938 44 AEDAILIDYVKKHGEGNWNAVQKNSGLFRC 73 (474)
Q Consensus 44 EED~~L~~lV~kyG~~nW~~IAk~l~~~Rt 73 (474)
-|.+.|.+++++++. |..+.|+.+|..|+
T Consensus 5 ~E~~~i~~aL~~~~g-n~~~aA~~Lgisr~ 33 (42)
T PF02954_consen 5 FEKQLIRQALERCGG-NVSKAARLLGISRR 33 (42)
T ss_dssp HHHHHHHHHHHHTTT--HHHHHHHHTS-HH
T ss_pred HHHHHHHHHHHHhCC-CHHHHHHHHCCCHH
Confidence 377788888888876 99999999997554
No 146
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=21.92 E-value=1.5e+02 Score=27.59 Aligned_cols=31 Identities=6% Similarity=0.039 Sum_probs=23.7
Q ss_pred HhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 108 KMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 108 k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
..|-.-.+||+.| |-+...|+.|....+++.
T Consensus 150 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 180 (195)
T PRK12532 150 ILGFSSDEIQQMC-GISTSNYHTIMHRARESL 180 (195)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3466789999988 899999998887654443
No 147
>TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five.
Probab=21.89 E-value=1.7e+02 Score=26.73 Aligned_cols=30 Identities=17% Similarity=0.203 Sum_probs=23.9
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|-...+||..| |-+...||.|....+++.
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 178 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARAWL 178 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 355789999999 999999999987765543
No 148
>TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages.
Probab=21.60 E-value=1.9e+02 Score=25.84 Aligned_cols=29 Identities=28% Similarity=0.260 Sum_probs=22.3
Q ss_pred CCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 110 GNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 110 G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
|-...+||+.| |.+...|+.+-...+++.
T Consensus 138 g~s~~eIA~~l-~is~~tv~~~l~ra~~~L 166 (170)
T TIGR02952 138 NLPIAEVARIL-GKTEGAVKILQFRAIKKL 166 (170)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 55688999988 888999988876654443
No 149
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=21.45 E-value=1.3e+02 Score=36.36 Aligned_cols=45 Identities=16% Similarity=0.371 Sum_probs=38.4
Q ss_pred CCCHHHHHHHHHHHHHhCC-ChHHHhccCCCCCHHHHHHHHHHHhh
Q 011938 93 AFTQEEEQMIVELHAKMGN-KWARMAAHLPGRTDNEIKNYWNTRIK 137 (474)
Q Consensus 93 ~WT~EED~~LieLv~k~G~-kWs~IAk~LpGRT~~QcKnRW~~~Lk 137 (474)
.|+.-+=..++.+..+||. .-..||..|.|+|..+|+.+.+....
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~ 871 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWE 871 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHH
Confidence 5999999999999999996 49999999999999999976655443
No 150
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=21.39 E-value=1.9e+02 Score=24.93 Aligned_cols=47 Identities=15% Similarity=0.350 Sum_probs=37.2
Q ss_pred CCCCCHHHHHHHHHHHHHhCCChHHHhccCCCC-CHHHHHHHHHHHhhhH
Q 011938 91 KGAFTQEEEQMIVELHAKMGNKWARMAAHLPGR-TDNEIKNYWNTRIKRR 139 (474)
Q Consensus 91 kg~WT~EED~~LieLv~k~G~kWs~IAk~LpGR-T~~QcKnRW~~~Lkkk 139 (474)
+..||.|+-..+++++..-|..=+.||+.+ |- ..+++ .+|...+...
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l-~~W~~~~~~~ 52 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQL-YKWRIQLQKG 52 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHH-HHHHHHHHHc
Confidence 568999999999999999998889999999 75 55554 4576555544
No 151
>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=21.38 E-value=1.9e+02 Score=26.30 Aligned_cols=31 Identities=19% Similarity=0.426 Sum_probs=24.0
Q ss_pred HhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 108 KMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 108 k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
..|-...+||..| |-+...|+.+....+++.
T Consensus 154 ~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~L 184 (189)
T TIGR02984 154 LEGLSFAEVAERM-DRSEGAVSMLWVRGLARL 184 (189)
T ss_pred hcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 3456788999988 889999999887765544
No 152
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=21.27 E-value=1.9e+02 Score=26.87 Aligned_cols=32 Identities=31% Similarity=0.395 Sum_probs=23.7
Q ss_pred CCChHHHhccCCCCCHHHHHHHHHHHhhhHHHc
Q 011938 110 GNKWARMAAHLPGRTDNEIKNYWNTRIKRRQRA 142 (474)
Q Consensus 110 G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~r~ 142 (474)
|..-.+||+.| |.+...|+++-...+++..+.
T Consensus 147 g~s~~EIAe~l-gis~~~V~~~l~Ra~~~Lr~~ 178 (189)
T PRK06811 147 GEKIEEIAKKL-GLTRSAIDNRLSRGRKKLQKN 178 (189)
T ss_pred cCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHc
Confidence 45578888888 889999998877765554443
No 153
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=21.01 E-value=1.9e+02 Score=25.84 Aligned_cols=30 Identities=20% Similarity=0.263 Sum_probs=23.2
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|-.-.+||..| |-+...|+.|....+++.
T Consensus 120 ~~~s~~eIA~~l-gis~~tv~~~l~ra~~~L 149 (159)
T PRK12527 120 EGLSHQQIAEHL-GISRSLVEKHIVNAMKHC 149 (159)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 355678999999 999999999887655543
No 154
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=21.01 E-value=1.8e+02 Score=26.74 Aligned_cols=30 Identities=10% Similarity=0.028 Sum_probs=21.8
Q ss_pred hCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 109 MGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 109 ~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|....+||+.| |-+...|+.+....+++.
T Consensus 143 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 172 (186)
T PRK05602 143 QGLSNIEAAAVM-DISVDALESLLARGRRAL 172 (186)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHHH
Confidence 355688888888 888888888876654433
No 155
>PF09105 SelB-wing_1: Elongation factor SelB, winged helix ; InterPro: IPR015189 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 1". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; PDB: 2V9V_A 1LVA_A 2PLY_A.
Probab=20.84 E-value=2e+02 Score=22.51 Aligned_cols=41 Identities=24% Similarity=0.566 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhCCC-ChhHHhhhhCCccccccchhhhhhccCCCCCCCCCCHHHHHHHHHHHHHhC
Q 011938 46 DAILIDYVKKHGEG-NWNAVQKNSGLFRCGKSCRLRWANHLRPNLKKGAFTQEEEQMIVELHAKMG 110 (474)
Q Consensus 46 D~~L~~lV~kyG~~-nW~~IAk~l~~~Rt~kQCR~RW~n~L~p~lkkg~WT~EED~~LieLv~k~G 110 (474)
+++|.++++.|..| +|.+-|.... .+-||.++|++-+..-|
T Consensus 4 ekilaqiiqehregldwqeaatras------------------------lsleetrkllqsmaaag 45 (61)
T PF09105_consen 4 EKILAQIIQEHREGLDWQEAATRAS------------------------LSLEETRKLLQSMAAAG 45 (61)
T ss_dssp HHHHHHHHHC-TT-EEHHHHHHHHT--------------------------HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHccCcHHHHHHHhh------------------------ccHHHHHHHHHHHHhcC
Confidence 57888999988776 8998876443 36788888888776655
No 156
>PF11198 DUF2857: Protein of unknown function (DUF2857); InterPro: IPR021364 This is a bacterial family of uncharacterised proteins.
Probab=20.57 E-value=1.8e+02 Score=27.89 Aligned_cols=59 Identities=19% Similarity=0.256 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhHHHcCCCCCCchhhhhhh
Q 011938 96 QEEEQMIVELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRRQRAGLPLYPPEVSFQAL 156 (474)
Q Consensus 96 ~EED~~LieLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~r~g~~~~p~e~~~~~~ 156 (474)
.+++..+++-.-++|.....|.++| |-|..+|.. ++.++.-..+.|.+..+.+.....+
T Consensus 73 ~~~~~~~idr~L~lGAS~~mm~~~F-Gls~~ev~~-rR~llgi~~~~GR~~~~~ee~~~~i 131 (180)
T PF11198_consen 73 EQQEQQLIDRALRLGASIEMMQRLF-GLSSAEVAA-RRRLLGIPVRKGRPPALSEEEEAAI 131 (180)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHH-HHHHhCCCCCCCCCCCcCHHHHHHH
Confidence 3456677777778999999999999 889999976 4455555566788877777554443
No 157
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=20.57 E-value=1.7e+02 Score=26.60 Aligned_cols=29 Identities=10% Similarity=0.229 Sum_probs=23.3
Q ss_pred CCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 110 GNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 110 G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
|..-.+||+.| |.+...|+.+....+++.
T Consensus 145 g~s~~eIA~~l-gis~~tV~~~l~Rar~~L 173 (179)
T PRK12514 145 GLSYKELAERH-DVPLNTMRTWLRRSLLKL 173 (179)
T ss_pred CCCHHHHHHHH-CCChHHHHHHHHHHHHHH
Confidence 55688999999 999999999887755544
No 158
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=20.45 E-value=97 Score=26.06 Aligned_cols=27 Identities=22% Similarity=0.582 Sum_probs=21.7
Q ss_pred HHHHHHHHHhCCChHHHhccCCCCCHHH
Q 011938 100 QMIVELHAKMGNKWARMAAHLPGRTDNE 127 (474)
Q Consensus 100 ~~LieLv~k~G~kWs~IAk~LpGRT~~Q 127 (474)
..|..+..+.|..|..+|+.| |=+..+
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L-Glse~~ 29 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL-GLSYRE 29 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc-CCCHHH
Confidence 468889999999999999999 544443
No 159
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=20.44 E-value=1.4e+02 Score=28.52 Aligned_cols=30 Identities=17% Similarity=0.259 Sum_probs=23.3
Q ss_pred CCChHHHhccCCCCCHHHHHHHHHHHhhhHH
Q 011938 110 GNKWARMAAHLPGRTDNEIKNYWNTRIKRRQ 140 (474)
Q Consensus 110 G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk~ 140 (474)
|..-.+||+.| |-+...|++++...+++..
T Consensus 154 g~s~~EIA~~L-gis~~tV~~~l~RArk~Lr 183 (203)
T PRK09647 154 GLSYEEIAATL-GVKLGTVRSRIHRGRQQLR 183 (203)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 55678889988 8899999998877655443
No 160
>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=20.33 E-value=67 Score=28.34 Aligned_cols=29 Identities=14% Similarity=0.050 Sum_probs=23.3
Q ss_pred CCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 110 GNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 110 G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
|-.+.+||..| |-+...|++++...+++.
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~L 149 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKEL 149 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 44699999998 889999999987765543
No 161
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=20.20 E-value=1.2e+02 Score=25.75 Aligned_cols=28 Identities=21% Similarity=0.434 Sum_probs=22.3
Q ss_pred HHHHHHHHHHhCCChHHHhccCCCCCHHH
Q 011938 99 EQMIVELHAKMGNKWARMAAHLPGRTDNE 127 (474)
Q Consensus 99 D~~LieLv~k~G~kWs~IAk~LpGRT~~Q 127 (474)
|.+|..+....|..|.++|..| |=+..+
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~~d 31 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSVED 31 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCHHH
Confidence 5677888899999999999999 544433
No 162
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=20.05 E-value=1.8e+02 Score=27.21 Aligned_cols=35 Identities=23% Similarity=0.138 Sum_probs=25.5
Q ss_pred HHHHHhCCChHHHhccCCCCCHHHHHHHHHHHhhhH
Q 011938 104 ELHAKMGNKWARMAAHLPGRTDNEIKNYWNTRIKRR 139 (474)
Q Consensus 104 eLv~k~G~kWs~IAk~LpGRT~~QcKnRW~~~Lkkk 139 (474)
.|....|-...+||+.| |-+...||.|-...+++.
T Consensus 126 ~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~L 160 (187)
T PRK12516 126 ILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQRL 160 (187)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 33334466799999999 889999998876654433
Done!