Query 020603
Match_columns 324
No_of_seqs 289 out of 1444
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 03:42:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020603.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020603hhsearch_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 1.9E-34 4E-39 267.8 11.9 117 18-134 4-120 (238)
2 PLN03212 Transcription repress 100.0 5.5E-34 1.2E-38 263.4 11.4 118 17-134 19-136 (249)
3 PLN03091 hypothetical protein; 100.0 6.7E-33 1.4E-37 272.7 12.5 119 17-135 8-126 (459)
4 KOG0049 Transcription factor, 99.8 9.4E-21 2E-25 192.6 9.9 131 3-133 233-418 (939)
5 KOG0049 Transcription factor, 99.8 6.2E-21 1.3E-25 194.0 8.2 122 1-123 338-460 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.7 5.4E-17 1.2E-21 119.7 4.9 60 26-87 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.6 4.1E-15 8.9E-20 150.9 7.3 107 19-126 16-122 (512)
8 KOG0050 mRNA splicing protein 99.5 4.4E-15 9.5E-20 148.7 5.0 105 21-127 5-109 (617)
9 KOG0051 RNA polymerase I termi 99.5 9.3E-14 2E-18 142.6 8.9 106 22-130 383-516 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.4 4.9E-14 1.1E-18 100.0 2.5 48 23-70 1-48 (48)
11 PF00249 Myb_DNA-binding: Myb- 99.4 2.9E-13 6.3E-18 96.0 5.5 46 76-121 1-48 (48)
12 PLN03212 Transcription repress 99.3 2E-13 4.4E-18 127.0 0.1 70 3-74 58-127 (249)
13 KOG0048 Transcription factor, 99.3 9.2E-13 2E-17 122.7 4.0 85 72-156 5-114 (238)
14 PLN03091 hypothetical protein; 99.3 5.4E-13 1.2E-17 132.5 1.2 69 3-73 47-115 (459)
15 PF13921 Myb_DNA-bind_6: Myb-l 99.3 2.8E-12 6E-17 94.5 3.8 49 79-127 1-49 (60)
16 smart00717 SANT SANT SWI3, AD 99.2 1.8E-11 3.9E-16 84.3 5.4 47 76-122 1-48 (49)
17 smart00717 SANT SANT SWI3, AD 99.1 5.2E-11 1.1E-15 81.9 3.3 48 23-71 1-48 (49)
18 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 1.7E-10 3.6E-15 78.3 5.6 43 78-120 1-44 (45)
19 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 3.4E-10 7.4E-15 76.8 3.0 45 25-70 1-45 (45)
20 KOG0051 RNA polymerase I termi 98.9 2.6E-09 5.7E-14 110.2 7.2 106 18-125 303-432 (607)
21 COG5147 REB1 Myb superfamily p 98.5 5.2E-08 1.1E-12 99.6 2.7 113 5-120 54-166 (512)
22 KOG0050 mRNA splicing protein 98.0 2.3E-07 5E-12 94.0 -4.5 66 4-72 40-105 (617)
23 TIGR01557 myb_SHAQKYF myb-like 97.9 7.1E-06 1.5E-10 60.9 3.1 49 22-70 2-54 (57)
24 KOG0457 Histone acetyltransfer 97.8 1.7E-05 3.8E-10 79.2 3.9 65 6-71 53-119 (438)
25 TIGR01557 myb_SHAQKYF myb-like 97.8 7.2E-05 1.6E-09 55.5 5.9 47 76-122 3-55 (57)
26 KOG0457 Histone acetyltransfer 97.7 8.1E-05 1.8E-09 74.5 6.5 49 73-121 69-118 (438)
27 TIGR02894 DNA_bind_RsfA transc 97.5 0.00013 2.9E-09 64.5 4.8 51 75-126 3-60 (161)
28 PF13325 MCRS_N: N-terminal re 97.3 0.00063 1.4E-08 62.3 7.0 97 25-123 1-128 (199)
29 COG5259 RSC8 RSC chromatin rem 97.3 0.00014 3E-09 73.5 2.7 46 22-69 278-323 (531)
30 KOG1279 Chromatin remodeling f 97.1 0.00029 6.2E-09 72.6 2.6 49 19-69 249-297 (506)
31 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.00056 1.2E-08 53.5 3.2 50 77-127 2-69 (90)
32 KOG1279 Chromatin remodeling f 97.0 0.00094 2E-08 68.9 5.2 46 75-120 252-297 (506)
33 COG5259 RSC8 RSC chromatin rem 96.9 0.00096 2.1E-08 67.6 4.6 45 76-120 279-323 (531)
34 PF08914 Myb_DNA-bind_2: Rap1 96.9 0.0015 3.3E-08 49.7 4.2 51 76-126 2-62 (65)
35 PF13837 Myb_DNA-bind_4: Myb/S 96.9 0.00049 1.1E-08 53.8 1.5 48 23-70 1-64 (90)
36 PRK13923 putative spore coat p 96.7 0.0021 4.5E-08 57.6 4.5 51 74-125 3-60 (170)
37 TIGR02894 DNA_bind_RsfA transc 96.6 0.0012 2.6E-08 58.5 1.9 50 21-72 2-57 (161)
38 PF13873 Myb_DNA-bind_5: Myb/S 96.3 0.014 3.1E-07 44.8 6.4 49 76-124 2-72 (78)
39 PF08914 Myb_DNA-bind_2: Rap1 96.3 0.0018 3.8E-08 49.3 1.2 51 23-73 2-60 (65)
40 PLN03142 Probable chromatin-re 96.1 0.029 6.2E-07 62.7 9.8 103 24-127 825-990 (1033)
41 COG5114 Histone acetyltransfer 95.9 0.0084 1.8E-07 58.5 4.3 46 77-122 64-110 (432)
42 COG5114 Histone acetyltransfer 95.9 0.0033 7.1E-08 61.3 1.4 51 20-71 60-110 (432)
43 PF13873 Myb_DNA-bind_5: Myb/S 95.8 0.0044 9.6E-08 47.6 1.5 49 22-70 1-69 (78)
44 PRK13923 putative spore coat p 95.0 0.0081 1.8E-07 53.9 0.7 49 21-71 3-57 (170)
45 PF09111 SLIDE: SLIDE; InterP 92.9 0.19 4.1E-06 42.6 4.9 53 73-125 46-114 (118)
46 KOG2656 DNA methyltransferase 92.8 0.09 2E-06 52.6 3.3 55 77-131 131-191 (445)
47 KOG4282 Transcription factor G 92.7 0.24 5.2E-06 48.5 6.1 51 76-126 54-118 (345)
48 PF12776 Myb_DNA-bind_3: Myb/S 92.6 0.32 7E-06 38.3 5.7 46 78-123 1-64 (96)
49 COG5118 BDP1 Transcription ini 92.3 0.22 4.7E-06 49.9 5.1 46 77-122 366-411 (507)
50 KOG1194 Predicted DNA-binding 89.7 1.8 3.9E-05 44.4 8.8 48 76-123 187-234 (534)
51 PF08281 Sigma70_r4_2: Sigma-7 87.9 1.8 3.9E-05 30.5 5.6 42 81-123 12-53 (54)
52 KOG4282 Transcription factor G 87.8 0.33 7.1E-06 47.5 2.2 48 23-70 54-113 (345)
53 PF09111 SLIDE: SLIDE; InterP 87.3 0.88 1.9E-05 38.6 4.2 35 19-53 45-82 (118)
54 COG5118 BDP1 Transcription ini 87.0 1.4 3E-05 44.3 6.0 107 22-130 364-484 (507)
55 KOG4167 Predicted DNA-binding 86.2 2.8 6.1E-05 45.4 8.0 44 77-120 620-663 (907)
56 PF11626 Rap1_C: TRF2-interact 85.5 1.2 2.5E-05 35.5 3.8 31 19-52 43-81 (87)
57 KOG4329 DNA-binding protein [G 82.7 27 0.0006 35.3 12.7 43 77-119 278-321 (445)
58 PF12776 Myb_DNA-bind_3: Myb/S 82.2 1.1 2.4E-05 35.2 2.4 44 25-68 1-60 (96)
59 KOG4468 Polycomb-group transcr 77.6 3.6 7.9E-05 43.6 5.0 53 76-128 88-150 (782)
60 PF04545 Sigma70_r4: Sigma-70, 74.6 10 0.00023 26.3 5.4 41 82-123 7-47 (50)
61 PF11035 SnAPC_2_like: Small n 72.6 14 0.00031 36.5 7.3 50 76-125 21-74 (344)
62 PF13404 HTH_AsnC-type: AsnC-t 70.2 11 0.00024 26.0 4.5 38 82-120 3-41 (42)
63 KOG4167 Predicted DNA-binding 67.3 3.9 8.5E-05 44.3 2.5 44 23-68 619-662 (907)
64 PF13404 HTH_AsnC-type: AsnC-t 66.0 4.2 9E-05 28.1 1.6 38 29-68 3-40 (42)
65 PF11035 SnAPC_2_like: Small n 65.7 27 0.00057 34.6 7.6 89 21-123 19-128 (344)
66 PF01388 ARID: ARID/BRIGHT DNA 65.7 14 0.00031 28.9 4.9 38 86-123 40-90 (92)
67 PRK11179 DNA-binding transcrip 64.9 14 0.00031 31.9 5.2 42 82-124 9-51 (153)
68 smart00595 MADF subfamily of S 64.1 11 0.00024 29.1 3.9 25 98-123 30-54 (89)
69 PF13325 MCRS_N: N-terminal re 63.7 14 0.0003 34.1 5.1 45 78-123 1-48 (199)
70 PRK11179 DNA-binding transcrip 63.4 4.7 0.0001 34.8 1.9 46 28-75 8-53 (153)
71 smart00501 BRIGHT BRIGHT, ARID 63.3 18 0.00038 28.6 5.1 40 85-124 35-87 (93)
72 PF11626 Rap1_C: TRF2-interact 62.1 4.3 9.3E-05 32.2 1.3 17 72-88 43-59 (87)
73 KOG2009 Transcription initiati 62.1 7.5 0.00016 41.2 3.4 47 75-121 408-454 (584)
74 PF07750 GcrA: GcrA cell cycle 61.4 11 0.00024 33.5 3.9 40 78-118 2-41 (162)
75 TIGR02985 Sig70_bacteroi1 RNA 60.2 27 0.00058 28.9 6.0 38 85-123 119-156 (161)
76 PF01388 ARID: ARID/BRIGHT DNA 59.2 3.7 8.1E-05 32.2 0.5 40 32-71 39-89 (92)
77 PRK11169 leucine-responsive tr 59.2 20 0.00044 31.3 5.2 44 81-125 13-57 (164)
78 KOG1194 Predicted DNA-binding 59.2 12 0.00026 38.6 4.2 41 78-119 472-512 (534)
79 smart00595 MADF subfamily of S 57.4 3.5 7.6E-05 31.9 0.0 23 45-69 29-51 (89)
80 PRK11169 leucine-responsive tr 57.4 5.5 0.00012 34.9 1.3 45 28-74 13-57 (164)
81 TIGR02937 sigma70-ECF RNA poly 51.8 41 0.0009 26.9 5.6 43 79-123 111-153 (158)
82 KOG4468 Polycomb-group transcr 50.2 12 0.00026 39.9 2.5 48 23-71 88-144 (782)
83 PRK09643 RNA polymerase sigma 48.8 56 0.0012 28.8 6.4 31 92-123 147-177 (192)
84 smart00501 BRIGHT BRIGHT, ARID 48.6 8.8 0.00019 30.4 1.0 41 32-72 35-86 (93)
85 PF10545 MADF_DNA_bdg: Alcohol 48.2 21 0.00046 26.6 3.1 26 98-123 29-55 (85)
86 PRK12523 RNA polymerase sigma 46.8 68 0.0015 27.5 6.4 42 87-129 127-168 (172)
87 KOG2656 DNA methyltransferase 46.3 6.3 0.00014 39.9 -0.2 51 19-70 126-181 (445)
88 PF07638 Sigma70_ECF: ECF sigm 45.9 56 0.0012 28.9 5.9 39 84-123 140-178 (185)
89 PRK09652 RNA polymerase sigma 45.0 60 0.0013 27.4 5.8 31 92-123 141-171 (182)
90 PF04504 DUF573: Protein of un 44.9 46 0.001 27.0 4.7 48 77-124 5-65 (98)
91 cd08319 Death_RAIDD Death doma 44.5 31 0.00067 27.4 3.6 29 84-113 2-30 (83)
92 PF07750 GcrA: GcrA cell cycle 43.6 28 0.0006 31.0 3.5 34 25-60 2-36 (162)
93 PLN03142 Probable chromatin-re 43.2 28 0.00061 39.6 4.3 35 20-54 923-957 (1033)
94 cd06171 Sigma70_r4 Sigma70, re 42.0 85 0.0018 20.4 5.1 40 79-120 11-50 (55)
95 PRK11924 RNA polymerase sigma 40.7 73 0.0016 26.8 5.6 30 93-123 139-168 (179)
96 PF02954 HTH_8: Bacterial regu 40.2 33 0.00071 23.3 2.7 30 29-59 5-34 (42)
97 PF09420 Nop16: Ribosome bioge 40.1 52 0.0011 29.0 4.7 46 75-120 113-162 (164)
98 PF02954 HTH_8: Bacterial regu 39.8 66 0.0014 21.7 4.2 34 82-116 5-38 (42)
99 PRK09413 IS2 repressor TnpA; R 39.6 62 0.0013 26.9 4.9 46 21-70 8-53 (121)
100 cd08803 Death_ank3 Death domai 39.1 49 0.0011 26.2 3.9 30 84-114 4-33 (84)
101 PRK04217 hypothetical protein; 39.1 95 0.0021 26.0 5.8 45 77-123 41-85 (110)
102 PRK09641 RNA polymerase sigma 38.2 77 0.0017 27.2 5.5 29 94-123 151-179 (187)
103 PRK12512 RNA polymerase sigma 38.2 97 0.0021 26.7 6.1 30 94-124 146-175 (184)
104 KOG0384 Chromodomain-helicase 37.8 40 0.00087 39.0 4.3 76 22-104 1132-1208(1373)
105 smart00344 HTH_ASNC helix_turn 37.3 80 0.0017 25.0 5.0 42 82-124 3-45 (108)
106 cd08317 Death_ank Death domain 34.7 43 0.00092 26.1 3.0 29 84-113 4-32 (84)
107 TIGR02960 SigX5 RNA polymerase 34.2 1.5E+02 0.0032 28.1 7.2 30 94-124 157-186 (324)
108 TIGR02954 Sig70_famx3 RNA poly 33.9 1.1E+02 0.0024 26.0 5.7 29 94-123 134-162 (169)
109 TIGR02939 RpoE_Sigma70 RNA pol 33.8 83 0.0018 27.1 5.0 29 94-123 153-181 (190)
110 PRK09648 RNA polymerase sigma 32.8 1.2E+02 0.0027 26.2 5.9 30 93-123 153-182 (189)
111 PRK12529 RNA polymerase sigma 32.7 1.2E+02 0.0027 26.2 5.9 35 92-127 140-174 (178)
112 smart00005 DEATH DEATH domain, 32.5 69 0.0015 24.4 3.8 29 83-112 4-33 (88)
113 smart00344 HTH_ASNC helix_turn 32.2 35 0.00075 27.1 2.1 43 29-73 3-45 (108)
114 cd08311 Death_p75NR Death doma 32.1 67 0.0015 25.1 3.6 33 81-115 2-34 (77)
115 PF08870 DUF1832: Domain of un 32.1 1.8E+02 0.0038 24.4 6.4 96 26-132 4-104 (113)
116 PRK12532 RNA polymerase sigma 31.7 1.3E+02 0.0027 26.4 5.8 28 94-122 151-178 (195)
117 PRK09637 RNA polymerase sigma 31.5 1.3E+02 0.0028 26.3 5.8 30 93-123 120-149 (181)
118 PRK09047 RNA polymerase factor 31.3 1.2E+02 0.0027 25.2 5.5 29 94-123 121-149 (161)
119 PRK12531 RNA polymerase sigma 31.3 1.3E+02 0.0027 26.5 5.8 29 94-123 156-184 (194)
120 PRK09645 RNA polymerase sigma 31.2 1.3E+02 0.0029 25.5 5.8 29 94-123 133-161 (173)
121 PRK09642 RNA polymerase sigma 31.2 1.3E+02 0.0029 25.1 5.7 30 93-123 120-149 (160)
122 PF09905 DUF2132: Uncharacteri 31.0 69 0.0015 24.5 3.3 44 31-87 12-62 (64)
123 COG1522 Lrp Transcriptional re 30.7 30 0.00066 29.1 1.6 43 29-73 8-50 (154)
124 TIGR02948 SigW_bacill RNA poly 30.7 1.2E+02 0.0025 26.1 5.4 28 95-123 152-179 (187)
125 KOG3841 TEF-1 and related tran 30.5 3.4E+02 0.0073 27.8 9.0 55 74-128 74-149 (455)
126 PF09420 Nop16: Ribosome bioge 30.0 44 0.00096 29.4 2.6 47 21-68 112-161 (164)
127 PF13936 HTH_38: Helix-turn-he 29.8 77 0.0017 21.7 3.3 36 78-115 4-39 (44)
128 PRK08241 RNA polymerase factor 29.5 1.7E+02 0.0037 28.1 6.8 29 94-123 168-196 (339)
129 PRK12547 RNA polymerase sigma 29.5 1.7E+02 0.0037 24.8 6.2 29 94-123 127-155 (164)
130 PRK11923 algU RNA polymerase s 29.4 1.3E+02 0.0029 26.0 5.6 28 95-123 154-181 (193)
131 KOG2009 Transcription initiati 29.2 26 0.00055 37.4 1.1 50 17-68 403-452 (584)
132 cd08318 Death_NMPP84 Death dom 29.1 72 0.0016 25.1 3.4 24 89-113 12-35 (86)
133 PRK12515 RNA polymerase sigma 29.1 1.6E+02 0.0034 25.7 5.9 29 94-123 146-174 (189)
134 KOG4329 DNA-binding protein [G 28.9 38 0.00082 34.3 2.1 41 24-66 278-319 (445)
135 PLN03162 golden-2 like transcr 28.8 4E+02 0.0086 27.3 9.2 46 77-122 238-288 (526)
136 KOG3554 Histone deacetylase co 28.6 64 0.0014 33.7 3.7 42 77-118 286-328 (693)
137 PF04504 DUF573: Protein of un 28.1 1.3E+02 0.0028 24.4 4.8 71 22-93 3-94 (98)
138 TIGR02943 Sig70_famx1 RNA poly 27.8 1.7E+02 0.0036 25.7 5.9 30 93-123 145-174 (188)
139 PRK09646 RNA polymerase sigma 27.8 1.8E+02 0.004 25.4 6.2 29 94-123 157-185 (194)
140 COG2197 CitB Response regulato 27.3 1E+02 0.0022 28.0 4.6 44 77-123 147-190 (211)
141 cd08804 Death_ank2 Death domai 27.3 79 0.0017 24.9 3.3 31 84-115 4-34 (84)
142 PRK01905 DNA-binding protein F 27.1 1.6E+02 0.0034 22.6 4.9 34 81-115 36-69 (77)
143 smart00351 PAX Paired Box doma 26.8 2.8E+02 0.0062 23.1 6.9 74 20-95 12-92 (125)
144 PRK12530 RNA polymerase sigma 26.5 1.8E+02 0.0038 25.5 5.9 29 94-123 149-177 (189)
145 TIGR02983 SigE-fam_strep RNA p 26.4 1.9E+02 0.0042 24.1 5.9 38 86-124 117-154 (162)
146 PF05029 TIMELESS_C: Timeless 25.4 2.8E+02 0.006 29.6 7.9 39 78-116 170-212 (566)
147 PRK05602 RNA polymerase sigma 25.1 1.8E+02 0.0038 25.2 5.6 29 94-123 143-171 (186)
148 PRK12524 RNA polymerase sigma 25.1 2E+02 0.0043 25.3 5.9 30 93-123 150-179 (196)
149 PRK09649 RNA polymerase sigma 25.0 2E+02 0.0044 25.0 5.9 29 94-123 145-173 (185)
150 TIGR02999 Sig-70_X6 RNA polyme 24.7 2.2E+02 0.0048 24.3 6.0 29 94-123 149-177 (183)
151 COG2963 Transposase and inacti 24.7 2.1E+02 0.0046 23.0 5.6 46 76-123 5-51 (116)
152 cd08805 Death_ank1 Death domai 24.6 1.5E+02 0.0033 23.5 4.5 22 84-105 4-25 (84)
153 cd08777 Death_RIP1 Death Domai 24.6 84 0.0018 24.9 3.1 29 86-115 4-32 (86)
154 PRK12536 RNA polymerase sigma 24.5 2.1E+02 0.0045 24.7 5.9 30 93-123 143-172 (181)
155 PRK06759 RNA polymerase factor 24.4 2.1E+02 0.0046 23.6 5.7 29 94-123 121-149 (154)
156 PRK12516 RNA polymerase sigma 24.2 1.9E+02 0.0041 25.4 5.6 33 90-123 127-159 (187)
157 TIGR02952 Sig70_famx2 RNA poly 24.0 2.3E+02 0.0049 23.8 5.9 29 94-123 137-165 (170)
158 PRK12542 RNA polymerase sigma 23.7 2.1E+02 0.0046 24.7 5.8 30 93-123 136-165 (185)
159 COG4628 Uncharacterized conser 23.6 1.1E+02 0.0023 26.2 3.6 44 31-87 21-71 (136)
160 PRK09651 RNA polymerase sigma 23.5 1.6E+02 0.0035 25.3 4.9 29 94-123 134-162 (172)
161 PRK12537 RNA polymerase sigma 23.5 2.2E+02 0.0049 24.5 5.9 29 94-123 148-176 (182)
162 PRK09638 RNA polymerase sigma 23.3 1E+02 0.0022 26.3 3.6 29 94-123 141-169 (176)
163 PRK00430 fis global DNA-bindin 23.2 2E+02 0.0043 23.2 5.0 32 82-114 55-86 (95)
164 PRK12527 RNA polymerase sigma 23.1 2.5E+02 0.0055 23.4 6.0 29 94-123 120-148 (159)
165 PRK12546 RNA polymerase sigma 23.1 2.2E+02 0.0048 25.1 5.8 31 92-123 126-156 (188)
166 PRK12514 RNA polymerase sigma 23.0 2.3E+02 0.005 24.2 5.8 28 95-123 145-172 (179)
167 PRK13919 putative RNA polymera 22.8 2.6E+02 0.0056 24.0 6.1 28 95-123 151-178 (186)
168 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 22.7 1.7E+02 0.0037 21.2 4.0 35 82-117 7-41 (50)
169 COG1522 Lrp Transcriptional re 22.6 1.9E+02 0.0042 24.1 5.2 42 82-124 8-50 (154)
170 PRK12528 RNA polymerase sigma 22.6 2.1E+02 0.0046 24.0 5.4 31 92-123 126-156 (161)
171 PRK15201 fimbriae regulatory p 22.5 2.5E+02 0.0054 26.0 6.0 44 77-123 132-175 (198)
172 PRK00118 putative DNA-binding 22.5 2.7E+02 0.0059 23.0 5.8 41 81-122 19-59 (104)
173 PF01710 HTH_Tnp_IS630: Transp 22.1 1.4E+02 0.0031 24.6 4.2 55 30-87 58-112 (119)
174 PRK06811 RNA polymerase factor 21.5 2.5E+02 0.0054 24.5 5.8 28 95-123 147-174 (189)
175 cd08803 Death_ank3 Death domai 21.5 95 0.002 24.6 2.8 25 31-56 4-28 (84)
176 PF10440 WIYLD: Ubiquitin-bind 21.5 60 0.0013 24.9 1.5 25 79-103 23-48 (65)
177 cd08319 Death_RAIDD Death doma 21.4 90 0.002 24.7 2.6 28 31-59 2-29 (83)
178 PRK09636 RNA polymerase sigma 21.3 3.9E+02 0.0084 25.2 7.4 29 94-123 130-158 (293)
179 PRK10100 DNA-binding transcrip 21.0 2.4E+02 0.0052 25.7 5.8 43 78-123 155-197 (216)
180 PRK15328 invasion protein IagB 21.0 1.4E+02 0.0031 26.5 4.1 43 86-128 98-142 (160)
181 TIGR02950 SigM_subfam RNA poly 20.9 81 0.0018 26.1 2.4 28 95-123 121-148 (154)
182 TIGR02984 Sig-70_plancto1 RNA 20.5 2.7E+02 0.0059 23.7 5.8 29 94-123 155-183 (189)
183 TIGR02957 SigX4 RNA polymerase 20.4 4.2E+02 0.0091 24.9 7.5 31 93-124 122-152 (281)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=1.9e-34 Score=267.81 Aligned_cols=117 Identities=50% Similarity=0.880 Sum_probs=110.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCcCCCCCHHHHHHHHHHHhhcCCC
Q 020603 18 SDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLTPQEQMSILELHSKWGNR 97 (324)
Q Consensus 18 ~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT~EED~~Ll~lv~~~G~k 97 (324)
++.++||+||+|||++|+++|++||.++|..|++.+|++|++++||+||.|||+|++++|.||+|||++|++|+.++|++
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNr 83 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNR 83 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcH
Confidence 45567899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHhhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCC
Q 020603 98 WSKIAQHLPGRTDNEIKNYWRTRVQKQARHLKIDANS 134 (324)
Q Consensus 98 Ws~IA~~lpgRT~~qcknRW~~~lkk~~r~~~~~~~s 134 (324)
|+.||++|||||++.|||+|+..++++++..++.+..
T Consensus 84 Ws~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~~~~~~ 120 (238)
T KOG0048|consen 84 WSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMGIDPST 120 (238)
T ss_pred HHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcCCCCCc
Confidence 9999999999999999999999999999888754443
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=5.5e-34 Score=263.37 Aligned_cols=118 Identities=55% Similarity=1.043 Sum_probs=112.1
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCcCCCCCHHHHHHHHHHHhhcCC
Q 020603 17 DSDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLTPQEQMSILELHSKWGN 96 (324)
Q Consensus 17 ~~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT~EED~~Ll~lv~~~G~ 96 (324)
.|.+++|++||+|||++|+++|++||..+|..||+.++.+|+++|||+||.++|+|.+++++||+|||++|++++.+||+
T Consensus 19 ~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~Gn 98 (249)
T PLN03212 19 TKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGN 98 (249)
T ss_pred ccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccc
Confidence 46889999999999999999999999889999999996689999999999999999999999999999999999999999
Q ss_pred ChHHHHhhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCC
Q 020603 97 RWSKIAQHLPGRTDNEIKNYWRTRVQKQARHLKIDANS 134 (324)
Q Consensus 97 kWs~IA~~lpgRT~~qcknRW~~~lkk~~r~~~~~~~s 134 (324)
+|..||+.|+|||+++|||||+.++++++.+.++.+..
T Consensus 99 KWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p~~ 136 (249)
T PLN03212 99 RWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDPQT 136 (249)
T ss_pred cHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCCCC
Confidence 99999999999999999999999999998887776544
No 3
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=6.7e-33 Score=272.66 Aligned_cols=119 Identities=51% Similarity=0.970 Sum_probs=113.4
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCcCCCCCHHHHHHHHHHHhhcCC
Q 020603 17 DSDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLTPQEQMSILELHSKWGN 96 (324)
Q Consensus 17 ~~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT~EED~~Ll~lv~~~G~ 96 (324)
.|.+++||+||+|||++|+++|++||.++|..||+.++++|+++|||+||.++|+|.+++++||+|||++|++++++||+
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 46789999999999999999999999999999999997789999999999999999999999999999999999999999
Q ss_pred ChHHHHhhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCh
Q 020603 97 RWSKIAQHLPGRTDNEIKNYWRTRVQKQARHLKIDANST 135 (324)
Q Consensus 97 kWs~IA~~lpgRT~~qcknRW~~~lkk~~r~~~~~~~s~ 135 (324)
+|.+||++|+|||+++||+||+.+++++++..++.+...
T Consensus 88 KWskIAk~LPGRTDnqIKNRWnslLKKklr~~~I~p~t~ 126 (459)
T PLN03091 88 RWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGIDPNTH 126 (459)
T ss_pred chHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCCCCCC
Confidence 999999999999999999999999999999888876544
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.83 E-value=9.4e-21 Score=192.65 Aligned_cols=131 Identities=23% Similarity=0.390 Sum_probs=121.5
Q ss_pred CCCccccccccccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCccccc-------------------
Q 020603 3 SFSKSSTSSIYGENDSDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCR------------------- 63 (324)
Q Consensus 3 ~~s~~~~~s~~~~~~~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr------------------- 63 (324)
++|.-+|.++|++++.|+++|..|+.|||++|..+...++..+|.+||..++.+|+..||.
T Consensus 233 srS~~~~~~~W~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEe 312 (939)
T KOG0049|consen 233 SRSEWAVKSKWYNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEE 312 (939)
T ss_pred cCCHHHHHHHHhhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhh
Confidence 4667799999999999999999999999999999999999999999999999779999997
Q ss_pred -----------------------------------ceeeccccCCCcCCCCCHHHHHHHHHHHhhcCCC-hHHHHhhCCC
Q 020603 64 -----------------------------------LRWLNYLKPDVKRGNLTPQEQMSILELHSKWGNR-WSKIAQHLPG 107 (324)
Q Consensus 64 -----------------------------------~Rw~n~L~p~ikkg~WT~EED~~Ll~lv~~~G~k-Ws~IA~~lpg 107 (324)
-||...|+|.+++|+||.+||.+|+.+|.+||++ |.+|-+.+||
T Consensus 313 d~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPn 392 (939)
T KOG0049|consen 313 DTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPN 392 (939)
T ss_pred hHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCC
Confidence 5888889999999999999999999999999965 9999999999
Q ss_pred CCHHHHHHHHHHHHHHHHHhcCCCCC
Q 020603 108 RTDNEIKNYWRTRVQKQARHLKIDAN 133 (324)
Q Consensus 108 RT~~qcknRW~~~lkk~~r~~~~~~~ 133 (324)
|++.|||.||.+.|...++.....-.
T Consensus 393 RSdsQcR~RY~nvL~~s~K~~rW~l~ 418 (939)
T KOG0049|consen 393 RSDSQCRERYTNVLNRSAKVERWTLV 418 (939)
T ss_pred ccHHHHHHHHHHHHHHhhccCceeec
Confidence 99999999999999998888766543
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.83 E-value=6.2e-21 Score=193.95 Aligned_cols=122 Identities=23% Similarity=0.400 Sum_probs=111.6
Q ss_pred CCCCCccccccccccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCcCCCCC
Q 020603 1 MSSFSKSSTSSIYGENDSDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLT 80 (324)
Q Consensus 1 m~~~s~~~~~s~~~~~~~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT 80 (324)
|.-+++.+.+.+|....+|.+++|+||.+||.+|+.+|.+||.++|.+|-..+| +|+..|||+||.|.|+...|++.|+
T Consensus 338 mpgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~ 416 (939)
T KOG0049|consen 338 MPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWT 416 (939)
T ss_pred cCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCcee
Confidence 445678889999999999999999999999999999999999999999999999 9999999999999999999999999
Q ss_pred HHHHHHHHHHHhhcC-CChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 81 PQEQMSILELHSKWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 81 ~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
-.||+.|+.+|.+|| ++|.+||..||.||..|.+.|=...+.-
T Consensus 417 l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~ 460 (939)
T KOG0049|consen 417 LVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAA 460 (939)
T ss_pred ecchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHHHHHHH
Confidence 999999999999999 7899999999999996665554443443
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=99.67 E-value=5.4e-17 Score=119.67 Aligned_cols=60 Identities=40% Similarity=0.815 Sum_probs=55.3
Q ss_pred CCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCcCCCCCHHHHHHH
Q 020603 26 WTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLTPQEQMSI 87 (324)
Q Consensus 26 WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT~EED~~L 87 (324)
||+|||++|+++|.+||. +|..||+.|+ .|+..||+.||.++|.+.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~-~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN-DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS--HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc-CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999996 9999999998 89999999999999999999999999999987
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=99.56 E-value=4.1e-15 Score=150.93 Aligned_cols=107 Identities=24% Similarity=0.453 Sum_probs=102.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCcCCCCCHHHHHHHHHHHhhcCCCh
Q 020603 19 DQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLTPQEQMSILELHSKWGNRW 98 (324)
Q Consensus 19 ~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT~EED~~Ll~lv~~~G~kW 98 (324)
.+++.|.|+..||+.|..+|+++|..+|..||..+. .|+++||+.||.++++|.++++.|+.|||+.|+.+..++|..|
T Consensus 16 ~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~w 94 (512)
T COG5147 16 TKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQW 94 (512)
T ss_pred ceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchh
Confidence 467889999999999999999999999999999999 6999999999999999999999999999999999999999999
Q ss_pred HHHHhhCCCCCHHHHHHHHHHHHHHHHH
Q 020603 99 SKIAQHLPGRTDNEIKNYWRTRVQKQAR 126 (324)
Q Consensus 99 s~IA~~lpgRT~~qcknRW~~~lkk~~r 126 (324)
..||..+++|+..+|.+||...+.....
T Consensus 95 stia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 95 STIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhccccCccchHHHHHHHHHHhhhhhc
Confidence 9999999999999999999988887655
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.54 E-value=4.4e-15 Score=148.68 Aligned_cols=105 Identities=22% Similarity=0.504 Sum_probs=99.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCcCCCCCHHHHHHHHHHHhhcCCChHH
Q 020603 21 LRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLTPQEQMSILELHSKWGNRWSK 100 (324)
Q Consensus 21 lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT~EED~~Ll~lv~~~G~kWs~ 100 (324)
++-|-|+.-||+.|..+|.+||...|.+|++.+. ..+++||+.||..+|+|.+++..|+.|||++|+.+...+...|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 5779999999999999999999989999999999 889999999999999999999999999999999999999999999
Q ss_pred HHhhCCCCCHHHHHHHHHHHHHHHHHh
Q 020603 101 IAQHLPGRTDNEIKNYWRTRVQKQARH 127 (324)
Q Consensus 101 IA~~lpgRT~~qcknRW~~~lkk~~r~ 127 (324)
|+..| ||+.+||-.||++++-.....
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 99999 999999999999988876544
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.47 E-value=9.3e-14 Score=142.57 Aligned_cols=106 Identities=25% Similarity=0.487 Sum_probs=94.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCC--CcCCCCCHHHHHHHHHHHh-------
Q 020603 22 RRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPD--VKRGNLTPQEQMSILELHS------- 92 (324)
Q Consensus 22 kkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~--ikkg~WT~EED~~Ll~lv~------- 92 (324)
.+|.||+||++.|..+|..+|. +|.+|++.|+ |.+..||+||+++.... .+++.||.||+++|+++|.
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 8999999999999999999997 9999999998 99999999999999987 4899999999999999995
Q ss_pred hc-------------------CCChHHHHhhCCCCCHHHHHHHHHHHHHHHHHhcCC
Q 020603 93 KW-------------------GNRWSKIAQHLPGRTDNEIKNYWRTRVQKQARHLKI 130 (324)
Q Consensus 93 ~~-------------------G~kWs~IA~~lpgRT~~qcknRW~~~lkk~~r~~~~ 130 (324)
++ +-+|..|++.+..|+..|||-+|+.++.........
T Consensus 460 q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~ 516 (607)
T KOG0051|consen 460 QPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQ 516 (607)
T ss_pred cccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhccc
Confidence 34 125999999999999999999999988876544433
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=99.43 E-value=4.9e-14 Score=100.02 Aligned_cols=48 Identities=44% Similarity=0.779 Sum_probs=43.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccc
Q 020603 23 RGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYL 70 (324)
Q Consensus 23 kg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L 70 (324)
|++||+|||++|+++|.+||.++|..||..|+.+||..||+.||.++|
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 689999999999999999999679999999998899999999999875
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=99.42 E-value=2.9e-13 Score=96.01 Aligned_cols=46 Identities=35% Similarity=0.700 Sum_probs=41.9
Q ss_pred CCCCCHHHHHHHHHHHhhcCCC-hHHHHhhCC-CCCHHHHHHHHHHHH
Q 020603 76 RGNLTPQEQMSILELHSKWGNR-WSKIAQHLP-GRTDNEIKNYWRTRV 121 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~G~k-Ws~IA~~lp-gRT~~qcknRW~~~l 121 (324)
+++||+|||++|+++|.+||.+ |..||+.|+ |||..||++||+.++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999988 999999999 999999999999864
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.33 E-value=2e-13 Score=127.00 Aligned_cols=70 Identities=21% Similarity=0.311 Sum_probs=65.5
Q ss_pred CCCccccccccccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCC
Q 020603 3 SFSKSSTSSIYGENDSDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDV 74 (324)
Q Consensus 3 ~~s~~~~~s~~~~~~~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~i 74 (324)
.|+..+|..+|.++.+|.+++++||+|||++|++++.+||. +|..||+.|+ |||..+|+.||..+|+..+
T Consensus 58 gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~Gn-KWs~IAk~Lp-GRTDnqIKNRWns~LrK~l 127 (249)
T PLN03212 58 LRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGN-RWSLIAGRIP-GRTDNEIKNYWNTHLRKKL 127 (249)
T ss_pred CCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccc-cHHHHHhhcC-CCCHHHHHHHHHHHHhHHH
Confidence 47889999999999999999999999999999999999997 8999999999 9999999999998876543
No 13
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.32 E-value=9.2e-13 Score=122.68 Aligned_cols=85 Identities=12% Similarity=0.302 Sum_probs=73.3
Q ss_pred CCCcCCCCCHHHHHHHHHHHhhcC-CChHHHHhhCC-CCCHHHHHHHHHHHHHHHHHhcCCCCCChhH------------
Q 020603 72 PDVKRGNLTPQEQMSILELHSKWG-NRWSKIAQHLP-GRTDNEIKNYWRTRVQKQARHLKIDANSTTF------------ 137 (324)
Q Consensus 72 p~ikkg~WT~EED~~Ll~lv~~~G-~kWs~IA~~lp-gRT~~qcknRW~~~lkk~~r~~~~~~~s~~~------------ 137 (324)
+.+.+|+||+|||++|+++|++|| ++|..|++.++ +|++.+||.||.++|++.++++.++..+...
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 345579999999999999999999 56999999998 9999999999999999999999998766432
Q ss_pred -----------HHHHhhhccchhhhhccCC
Q 020603 138 -----------QEIIRCFWMPRLLQKMDTS 156 (324)
Q Consensus 138 -----------~~iir~~~~p~l~~k~~~~ 156 (324)
.+.|+++|..++++++..-
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~ 114 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKM 114 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHc
Confidence 5678899988887777543
No 14
>PLN03091 hypothetical protein; Provisional
Probab=99.30 E-value=5.4e-13 Score=132.50 Aligned_cols=69 Identities=22% Similarity=0.341 Sum_probs=64.8
Q ss_pred CCCccccccccccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCC
Q 020603 3 SFSKSSTSSIYGENDSDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPD 73 (324)
Q Consensus 3 ~~s~~~~~s~~~~~~~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ 73 (324)
.|+..+|..+|.++++|.++||+||+|||++|++++++||. +|.+||+.|+ ||++.+|+.||...|+..
T Consensus 47 gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~Gn-KWskIAk~LP-GRTDnqIKNRWnslLKKk 115 (459)
T PLN03091 47 QRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGN-RWSQIAAQLP-GRTDNEIKNLWNSCLKKK 115 (459)
T ss_pred CcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCc-chHHHHHhcC-CCCHHHHHHHHHHHHHHH
Confidence 47788999999999999999999999999999999999997 8999999999 999999999999877653
No 15
>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=99.28 E-value=2.8e-12 Score=94.46 Aligned_cols=49 Identities=39% Similarity=0.708 Sum_probs=41.2
Q ss_pred CCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHHHHHh
Q 020603 79 LTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKQARH 127 (324)
Q Consensus 79 WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk~~r~ 127 (324)
||+|||++|+++|.+||++|..||+.|+.||..+|++||+..|++..++
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 9999999999999999999999999996699999999999977654333
No 16
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.22 E-value=1.8e-11 Score=84.25 Aligned_cols=47 Identities=38% Similarity=0.803 Sum_probs=44.2
Q ss_pred CCCCCHHHHHHHHHHHhhcC-CChHHHHhhCCCCCHHHHHHHHHHHHH
Q 020603 76 RGNLTPQEQMSILELHSKWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQ 122 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~qcknRW~~~lk 122 (324)
+++||++||.+|+.++.+|| .+|..||..|++||..+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998764
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.11 E-value=5.2e-11 Score=81.93 Aligned_cols=48 Identities=44% Similarity=0.837 Sum_probs=44.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeecccc
Q 020603 23 RGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLK 71 (324)
Q Consensus 23 kg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~ 71 (324)
++.||++||++|+.++..||..+|..||+.|+ +|+..+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 57899999999999999999559999999999 9999999999988764
No 18
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.10 E-value=1.7e-10 Score=78.31 Aligned_cols=43 Identities=42% Similarity=0.766 Sum_probs=41.3
Q ss_pred CCCHHHHHHHHHHHhhcC-CChHHHHhhCCCCCHHHHHHHHHHH
Q 020603 78 NLTPQEQMSILELHSKWG-NRWSKIAQHLPGRTDNEIKNYWRTR 120 (324)
Q Consensus 78 ~WT~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~qcknRW~~~ 120 (324)
+||++||.+|+.++.+|| .+|..||+.|++||..+|++||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 599999999999999999 9999999999999999999999875
No 19
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.97 E-value=3.4e-10 Score=76.78 Aligned_cols=45 Identities=44% Similarity=0.840 Sum_probs=41.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccc
Q 020603 25 PWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYL 70 (324)
Q Consensus 25 ~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L 70 (324)
+||++||++|++++.++|..+|..||+.++ +|+..+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHhC
Confidence 599999999999999999669999999999 899999999997653
No 20
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.89 E-value=2.6e-09 Score=110.16 Aligned_cols=106 Identities=27% Similarity=0.405 Sum_probs=88.4
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCC-----------------------CChHHHHHHhCCCCCcccccceeeccccCC-
Q 020603 18 SDQLRRGPWTLEEDTLLIQYISRHSE-----------------------GRWNLLAKRSGLKRTGKSCRLRWLNYLKPD- 73 (324)
Q Consensus 18 ~~~lkkg~WT~EED~~L~~lV~k~G~-----------------------~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~- 73 (324)
...++-+.|+.+||+.|-+.|..|-. +-|+.|.+.|| -|+.+.++.+-++...+-
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 EDEINLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFE 381 (607)
T ss_pred hhhhhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCccc
Confidence 34567799999999999999987721 13788888999 599998877333333332
Q ss_pred CcCCCCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHHHH
Q 020603 74 VKRGNLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKQA 125 (324)
Q Consensus 74 ikkg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk~~ 125 (324)
.++|.||+||++.|..+|.++|+.|..|++.| ||.+..|+.||+.+++..-
T Consensus 382 ~~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~ 432 (607)
T KOG0051|consen 382 NKRGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGS 432 (607)
T ss_pred cccCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhcccc
Confidence 28999999999999999999999999999999 9999999999999988764
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=98.50 E-value=5.2e-08 Score=99.59 Aligned_cols=113 Identities=16% Similarity=0.236 Sum_probs=97.9
Q ss_pred CccccccccccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCcCCCCCHHHH
Q 020603 5 SKSSTSSIYGENDSDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLTPQEQ 84 (324)
Q Consensus 5 s~~~~~s~~~~~~~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT~EED 84 (324)
.+.+|..+|.++.+|.++++.|+.|||+.|+.+-..+|. .|..||..++ +|+..+|.+||.+.+.+... ..|+..++
T Consensus 54 ~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~-~wstia~~~d-~rt~~~~~ery~~~~~~~~s-~~~s~~~~ 130 (512)
T COG5147 54 TGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT-QWSTIADYKD-RRTAQQCVERYVNTLEDLSS-THDSKLQR 130 (512)
T ss_pred ccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCc-hhhhhccccC-ccchHHHHHHHHHHhhhhhc-cccccccc
Confidence 466899999999999999999999999999999999998 7999999999 99999999999999987655 78888888
Q ss_pred HHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHH
Q 020603 85 MSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTR 120 (324)
Q Consensus 85 ~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~ 120 (324)
...+..+..|+..|..+....-.+-...|.+++..+
T Consensus 131 ~~~f~k~d~f~~~~~~~~~~~~~~~~~~~~N~~~~~ 166 (512)
T COG5147 131 RNEFDKIDPFNENSARRPDIYEDELLEREVNREASY 166 (512)
T ss_pred hhhccccCchhhhhhhhhhhhhcccchhhhhHHHHH
Confidence 888888888888888877766666666666666543
No 22
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=98.03 E-value=2.3e-07 Score=93.98 Aligned_cols=66 Identities=23% Similarity=0.414 Sum_probs=61.3
Q ss_pred CCccccccccccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccC
Q 020603 4 FSKSSTSSIYGENDSDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKP 72 (324)
Q Consensus 4 ~s~~~~~s~~~~~~~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p 72 (324)
-++++|..+|.+..+|.+++--|+.|||++|+.+...... .|..||..|+ |++.||.+||.+.|..
T Consensus 40 kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~-qwrtIa~i~g--r~~~qc~eRy~~ll~~ 105 (617)
T KOG0050|consen 40 KTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPT-QWRTIADIMG--RTSQQCLERYNNLLDV 105 (617)
T ss_pred cchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCC-ccchHHHHhh--hhHHHHHHHHHHHHHH
Confidence 3678999999999999999999999999999999999987 8999999997 9999999999988753
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=97.94 E-value=7.1e-06 Score=60.86 Aligned_cols=49 Identities=14% Similarity=0.220 Sum_probs=43.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCh---HHHHHHhCCCC-Ccccccceeeccc
Q 020603 22 RRGPWTLEEDTLLIQYISRHSEGRW---NLLAKRSGLKR-TGKSCRLRWLNYL 70 (324)
Q Consensus 22 kkg~WT~EED~~L~~lV~k~G~~~W---~~IA~~l~~~R-t~~QCr~Rw~n~L 70 (324)
.+-.||+||..+++++|+.+|.++| ..|++.|...| |..||+.|++.|.
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 4668999999999999999998899 99999997566 9999999887764
No 24
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.79 E-value=1.7e-05 Score=79.22 Aligned_cols=65 Identities=25% Similarity=0.441 Sum_probs=53.3
Q ss_pred ccccccccccCC--CCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeecccc
Q 020603 6 KSSTSSIYGEND--SDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLK 71 (324)
Q Consensus 6 ~~~~~s~~~~~~--~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~ 71 (324)
+..+.-.|+-.+ .-.+-..-||.+|+-+|++++..||.|||..||+.+| .|++.+|+++|.+++-
T Consensus 53 ~H~~~H~Yrim~~~s~~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 53 KHQNDHPYRIMDTNSFPILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCceeecCCCCCCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHHh
Confidence 334444444433 3466778999999999999999999999999999999 9999999999998653
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=97.76 E-value=7.2e-05 Score=55.48 Aligned_cols=47 Identities=17% Similarity=0.230 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHhhcCC-Ch---HHHHhhCC-CC-CHHHHHHHHHHHHH
Q 020603 76 RGNLTPQEQMSILELHSKWGN-RW---SKIAQHLP-GR-TDNEIKNYWRTRVQ 122 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~G~-kW---s~IA~~lp-gR-T~~qcknRW~~~lk 122 (324)
+-.||+||..+++++++.+|. +| ..|++.|. .| |..||+.+.+.+..
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 457999999999999999996 99 99999884 45 99999999987653
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.67 E-value=8.1e-05 Score=74.53 Aligned_cols=49 Identities=24% Similarity=0.478 Sum_probs=44.2
Q ss_pred CCcCCCCCHHHHHHHHHHHhhcC-CChHHHHhhCCCCCHHHHHHHHHHHH
Q 020603 73 DVKRGNLTPQEQMSILELHSKWG-NRWSKIAQHLPGRTDNEIKNYWRTRV 121 (324)
Q Consensus 73 ~ikkg~WT~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~qcknRW~~~l 121 (324)
.+-...||.+|+.+|++++..|| |+|..||.++..|+..+|+.+|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHH
Confidence 34456799999999999999999 99999999999999999999998654
No 27
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.50 E-value=0.00013 Score=64.46 Aligned_cols=51 Identities=20% Similarity=0.293 Sum_probs=44.7
Q ss_pred cCCCCCHHHHHHHHHHHhhcC---C----ChHHHHhhCCCCCHHHHHHHHHHHHHHHHH
Q 020603 75 KRGNLTPQEQMSILELHSKWG---N----RWSKIAQHLPGRTDNEIKNYWRTRVQKQAR 126 (324)
Q Consensus 75 kkg~WT~EED~~Ll~lv~~~G---~----kWs~IA~~lpgRT~~qcknRW~~~lkk~~r 126 (324)
+...||.|||.+|.+.|.+|= + -+.++++.| +||+.+|.-||+..+|+...
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHH
Confidence 567899999999999998874 2 299999999 99999999999999998644
No 28
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.31 E-value=0.00063 Score=62.34 Aligned_cols=97 Identities=20% Similarity=0.344 Sum_probs=72.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHHHHhCCC--CCcccccceeecccc-CCC--------------------cCCCCCH
Q 020603 25 PWTLEEDTLLIQYISRHSEGRWNLLAKRSGLK--RTGKSCRLRWLNYLK-PDV--------------------KRGNLTP 81 (324)
Q Consensus 25 ~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~--Rt~~QCr~Rw~n~L~-p~i--------------------kkg~WT~ 81 (324)
+|++++|-+|+.+|..-. +-..|++.+.+. -|-..+.+||...|- |.+ .+-+||.
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 699999999999998876 578888766543 355667789988763 322 3467999
Q ss_pred HHHHHHHHHHhhcCC---ChHHHHh----hC-CCCCHHHHHHHHHHHHHH
Q 020603 82 QEQMSILELHSKWGN---RWSKIAQ----HL-PGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 82 EED~~Ll~lv~~~G~---kWs~IA~----~l-pgRT~~qcknRW~~~lkk 123 (324)
+|+++|......... .+.+|=. .| ++||+.++.++|+.+.+.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy 128 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQY 128 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHh
Confidence 999999998766543 4777733 23 789999999999965444
No 29
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.30 E-value=0.00014 Score=73.52 Aligned_cols=46 Identities=28% Similarity=0.598 Sum_probs=43.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeecc
Q 020603 22 RRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNY 69 (324)
Q Consensus 22 kkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~ 69 (324)
+...||.+|..+|++.|+.||. +|.+||++++ +|+..||..||.++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD-dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD-DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh-hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 6679999999999999999997 9999999999 99999999999774
No 30
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.09 E-value=0.00029 Score=72.59 Aligned_cols=49 Identities=29% Similarity=0.598 Sum_probs=44.5
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeecc
Q 020603 19 DQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNY 69 (324)
Q Consensus 19 ~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~ 69 (324)
..-.++.||.+|+.+|+++|+.||. +|.+||.+++ .|+..||..|+.+.
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 3446789999999999999999997 9999999999 99999999998764
No 31
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.02 E-value=0.00056 Score=53.48 Aligned_cols=50 Identities=28% Similarity=0.524 Sum_probs=35.5
Q ss_pred CCCCHHHHHHHHHHHhh------cC--C------ChHHHHhhC----CCCCHHHHHHHHHHHHHHHHHh
Q 020603 77 GNLTPQEQMSILELHSK------WG--N------RWSKIAQHL----PGRTDNEIKNYWRTRVQKQARH 127 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~------~G--~------kWs~IA~~l----pgRT~~qcknRW~~~lkk~~r~ 127 (324)
..||.+|...||+++.+ ++ + -|..||..| ..||+.||++||.++.+. .++
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~-Yk~ 69 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKK-YKK 69 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHH-HHC
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH-HHH
Confidence 47999999999999877 21 1 299999987 369999999999995554 443
No 32
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.98 E-value=0.00094 Score=68.87 Aligned_cols=46 Identities=26% Similarity=0.446 Sum_probs=42.9
Q ss_pred cCCCCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHH
Q 020603 75 KRGNLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTR 120 (324)
Q Consensus 75 kkg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~ 120 (324)
-++.||++|..+|++++..||.+|.+||.++.+||..||-.||..+
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRL 297 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhc
Confidence 4568999999999999999999999999999999999999999764
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.93 E-value=0.00096 Score=67.58 Aligned_cols=45 Identities=24% Similarity=0.386 Sum_probs=42.3
Q ss_pred CCCCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHH
Q 020603 76 RGNLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTR 120 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~ 120 (324)
...||.+|..+|++.++.||..|.+||+++..||..||--||.++
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 348999999999999999999999999999999999999999863
No 34
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.86 E-value=0.0015 Score=49.65 Aligned_cols=51 Identities=14% Similarity=0.356 Sum_probs=32.7
Q ss_pred CCCCCHHHHHHHHHHHhhcC-------CC--hHHHHhhCC-CCCHHHHHHHHHHHHHHHHH
Q 020603 76 RGNLTPQEQMSILELHSKWG-------NR--WSKIAQHLP-GRTDNEIKNYWRTRVQKQAR 126 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~G-------~k--Ws~IA~~lp-gRT~~qcknRW~~~lkk~~r 126 (324)
+.+||.|||.+|++.|.++. ++ |.++++.-+ .+|-...|+||...|+.+.+
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 45899999999999996542 22 999999877 99999999999988877543
No 35
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.85 E-value=0.00049 Score=53.82 Aligned_cols=48 Identities=35% Similarity=0.677 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHHHh------C---C--C--ChHHHHHHh---CCCCCcccccceeeccc
Q 020603 23 RGPWTLEEDTLLIQYISRH------S---E--G--RWNLLAKRS---GLKRTGKSCRLRWLNYL 70 (324)
Q Consensus 23 kg~WT~EED~~L~~lV~k~------G---~--~--~W~~IA~~l---~~~Rt~~QCr~Rw~n~L 70 (324)
|..||.+|...|++++... + . . -|..||..| |..|++.||+.||.++.
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 4589999999999998871 1 1 1 499999887 66899999999998853
No 36
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.70 E-value=0.0021 Score=57.60 Aligned_cols=51 Identities=18% Similarity=0.248 Sum_probs=43.8
Q ss_pred CcCCCCCHHHHHHHHHHHhhcCCC-------hHHHHhhCCCCCHHHHHHHHHHHHHHHH
Q 020603 74 VKRGNLTPQEQMSILELHSKWGNR-------WSKIAQHLPGRTDNEIKNYWRTRVQKQA 125 (324)
Q Consensus 74 ikkg~WT~EED~~Ll~lv~~~G~k-------Ws~IA~~lpgRT~~qcknRW~~~lkk~~ 125 (324)
.+...||.|||.+|-+.|..|+.. ...++..| +||..+|..||+..++++.
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 356789999999999999888742 77778888 9999999999999999754
No 37
>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=96.55 E-value=0.0012 Score=58.53 Aligned_cols=50 Identities=34% Similarity=0.711 Sum_probs=43.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC-C-----ChHHHHHHhCCCCCcccccceeeccccC
Q 020603 21 LRRGPWTLEEDTLLIQYISRHSE-G-----RWNLLAKRSGLKRTGKSCRLRWLNYLKP 72 (324)
Q Consensus 21 lkkg~WT~EED~~L~~lV~k~G~-~-----~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p 72 (324)
.+...||.|||.+|.+.|.+|-. | .+.+|++.++ ||+..|.-||..+++.
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 46788999999999999999843 1 5899999987 9999999999998874
No 38
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=96.31 E-value=0.014 Score=44.77 Aligned_cols=49 Identities=29% Similarity=0.519 Sum_probs=40.4
Q ss_pred CCCCCHHHHHHHHHHHhhcC----C-------------ChHHHHhhC-----CCCCHHHHHHHHHHHHHHH
Q 020603 76 RGNLTPQEQMSILELHSKWG----N-------------RWSKIAQHL-----PGRTDNEIKNYWRTRVQKQ 124 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~G----~-------------kWs~IA~~l-----pgRT~~qcknRW~~~lkk~ 124 (324)
+..||.+|.+.|++++.+|. + -|..|+..| +.||..+||.+|..+....
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 45799999999999998873 1 299999976 3599999999999876553
No 39
>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=96.29 E-value=0.0018 Score=49.34 Aligned_cols=51 Identities=31% Similarity=0.578 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCC------C--ChHHHHHHhCCCCCcccccceeeccccCC
Q 020603 23 RGPWTLEEDTLLIQYISRHSE------G--RWNLLAKRSGLKRTGKSCRLRWLNYLKPD 73 (324)
Q Consensus 23 kg~WT~EED~~L~~lV~k~G~------~--~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ 73 (324)
|.+||.|||+.|++.|..+.. | =|.++++.-+..+|-.+-|+||.+.|.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~ 60 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR 60 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence 568999999999999976531 2 39999988776788888999999988764
No 40
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=96.07 E-value=0.029 Score=62.68 Aligned_cols=103 Identities=14% Similarity=0.218 Sum_probs=78.0
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccc-------eeecc---------------------------
Q 020603 24 GPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRL-------RWLNY--------------------------- 69 (324)
Q Consensus 24 g~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~-------Rw~n~--------------------------- 69 (324)
..|+..+=..++.+..+||..+-..||..|. +++...++. ||..+
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~ 903 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAI 903 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3477777777888889999888999999997 777776652 22111
Q ss_pred ---------------c-cCCCcCCCCCHHHHHHHHHHHhhcC-CChHHHHhh------------CCCCCHHHHHHHHHHH
Q 020603 70 ---------------L-KPDVKRGNLTPQEQMSILELHSKWG-NRWSKIAQH------------LPGRTDNEIKNYWRTR 120 (324)
Q Consensus 70 ---------------L-~p~ikkg~WT~EED~~Ll~lv~~~G-~kWs~IA~~------------lpgRT~~qcknRW~~~ 120 (324)
+ -+..++..+|+|||..|+-++.+|| ++|.+|-.. |..||+..|..|...+
T Consensus 904 ~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 904 GKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred HHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 0 0122345699999999999999999 789999543 2489999999999999
Q ss_pred HHHHHHh
Q 020603 121 VQKQARH 127 (324)
Q Consensus 121 lkk~~r~ 127 (324)
++-..+.
T Consensus 984 ~~~~~~e 990 (1033)
T PLN03142 984 IRLIEKE 990 (1033)
T ss_pred HHHHHHH
Confidence 8876544
No 41
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.95 E-value=0.0084 Score=58.50 Aligned_cols=46 Identities=22% Similarity=0.406 Sum_probs=42.4
Q ss_pred CCCCHHHHHHHHHHHhhcC-CChHHHHhhCCCCCHHHHHHHHHHHHH
Q 020603 77 GNLTPQEQMSILELHSKWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQ 122 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~qcknRW~~~lk 122 (324)
..|+.+|+.+|+++....| ++|..||.++..|+...||.+|..+..
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 899999999988999999999986554
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.92 E-value=0.0033 Score=61.28 Aligned_cols=51 Identities=22% Similarity=0.477 Sum_probs=46.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeecccc
Q 020603 20 QLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLK 71 (324)
Q Consensus 20 ~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~ 71 (324)
.+----|+..|+-+|++.....|-|||..||..+| .|+...|+++|..++.
T Consensus 60 pI~~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 60 PIGEEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred cccCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 45556799999999999999999999999999999 9999999999988765
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.82 E-value=0.0044 Score=47.62 Aligned_cols=49 Identities=24% Similarity=0.510 Sum_probs=40.3
Q ss_pred CCCCCCHHHHHHHHHHHHHhCC----------------CChHHHHHHh----CCCCCcccccceeeccc
Q 020603 22 RRGPWTLEEDTLLIQYISRHSE----------------GRWNLLAKRS----GLKRTGKSCRLRWLNYL 70 (324)
Q Consensus 22 kkg~WT~EED~~L~~lV~k~G~----------------~~W~~IA~~l----~~~Rt~~QCr~Rw~n~L 70 (324)
++..||.+|.+.|+++|++|.. ..|..|+..| +..|+..||+.+|.++.
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 4678999999999999998832 1499999887 22699999999998854
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.03 E-value=0.0081 Score=53.88 Aligned_cols=49 Identities=29% Similarity=0.589 Sum_probs=40.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCC------ChHHHHHHhCCCCCcccccceeecccc
Q 020603 21 LRRGPWTLEEDTLLIQYISRHSEG------RWNLLAKRSGLKRTGKSCRLRWLNYLK 71 (324)
Q Consensus 21 lkkg~WT~EED~~L~~lV~k~G~~------~W~~IA~~l~~~Rt~~QCr~Rw~n~L~ 71 (324)
.++..||.|||.+|.+.|.+|+.. ....++..|. |+..+|..||..+++
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 577899999999999999988753 3677777776 999999999977665
No 45
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=92.90 E-value=0.19 Score=42.60 Aligned_cols=53 Identities=25% Similarity=0.389 Sum_probs=41.9
Q ss_pred CCcCCCCCHHHHHHHHHHHhhcCC----ChHHHHhhC------------CCCCHHHHHHHHHHHHHHHH
Q 020603 73 DVKRGNLTPQEQMSILELHSKWGN----RWSKIAQHL------------PGRTDNEIKNYWRTRVQKQA 125 (324)
Q Consensus 73 ~ikkg~WT~EED~~Ll~lv~~~G~----kWs~IA~~l------------pgRT~~qcknRW~~~lkk~~ 125 (324)
..++..||++||..|+-++.+||- .|..|-..+ ..||+..|..|...+++-..
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 446678999999999999999995 698887642 47999999999999887644
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=92.84 E-value=0.09 Score=52.62 Aligned_cols=55 Identities=16% Similarity=0.241 Sum_probs=48.7
Q ss_pred CCCCHHHHHHHHHHHhhcCCChHHHHhh-----CCC-CCHHHHHHHHHHHHHHHHHhcCCC
Q 020603 77 GNLTPQEQMSILELHSKWGNRWSKIAQH-----LPG-RTDNEIKNYWRTRVQKQARHLKID 131 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~G~kWs~IA~~-----lpg-RT~~qcknRW~~~lkk~~r~~~~~ 131 (324)
..||.+|-+-|++|++.|.-+|-.|+.. ++. ||-..+|.||+...++.++...-.
T Consensus 131 n~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred ccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 5699999999999999999999999987 555 999999999999998887766544
No 47
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.69 E-value=0.24 Score=48.45 Aligned_cols=51 Identities=16% Similarity=0.362 Sum_probs=40.6
Q ss_pred CCCCCHHHHHHHHHHHhhc----------CCChHHHHhhC----CCCCHHHHHHHHHHHHHHHHH
Q 020603 76 RGNLTPQEQMSILELHSKW----------GNRWSKIAQHL----PGRTDNEIKNYWRTRVQKQAR 126 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~----------G~kWs~IA~~l----pgRT~~qcknRW~~~lkk~~r 126 (324)
...|+.+|-..||++..+. +.-|..||+.| .-||+.|||++|.++.++..+
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~ 118 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKK 118 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Confidence 3689999999999998643 23499999965 349999999999997776443
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=92.63 E-value=0.32 Score=38.27 Aligned_cols=46 Identities=33% Similarity=0.618 Sum_probs=35.0
Q ss_pred CCCHHHHHHHHHHHhhc---CC----------ChHHHHhhC---CC--CCHHHHHHHHHHHHHH
Q 020603 78 NLTPQEQMSILELHSKW---GN----------RWSKIAQHL---PG--RTDNEIKNYWRTRVQK 123 (324)
Q Consensus 78 ~WT~EED~~Ll~lv~~~---G~----------kWs~IA~~l---pg--RT~~qcknRW~~~lkk 123 (324)
.||+++++.|++++.+. |+ .|..|+..| .| .+..||++||..+.+.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~ 64 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKD 64 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHH
Confidence 49999999999998543 21 299999877 23 5789999999875554
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=92.28 E-value=0.22 Score=49.87 Aligned_cols=46 Identities=22% Similarity=0.346 Sum_probs=42.7
Q ss_pred CCCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHH
Q 020603 77 GNLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQ 122 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lk 122 (324)
.+|+.+|-++..++...+|..+..|+..+|.|...|||.+|.+--+
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 3699999999999999999999999999999999999999986444
No 50
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=89.68 E-value=1.8 Score=44.40 Aligned_cols=48 Identities=19% Similarity=0.323 Sum_probs=43.1
Q ss_pred CCCCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 76 RGNLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
...||.||--++-+++..||.++.+|-+.||.|+-..+..+|....+.
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 457999999999999999999999999999999999999998765443
No 51
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=87.88 E-value=1.8 Score=30.49 Aligned_cols=42 Identities=29% Similarity=0.408 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 81 PQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 81 ~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
++++..++.++...|-.|.+||+.+ |.+...|+.+....+++
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 4677888889899999999999999 99999999988765543
No 52
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=87.81 E-value=0.33 Score=47.54 Aligned_cols=48 Identities=25% Similarity=0.454 Sum_probs=37.9
Q ss_pred CCCCCHHHHHHHHHHHHHh----CC-----CChHHHHHHh---CCCCCcccccceeeccc
Q 020603 23 RGPWTLEEDTLLIQYISRH----SE-----GRWNLLAKRS---GLKRTGKSCRLRWLNYL 70 (324)
Q Consensus 23 kg~WT~EED~~L~~lV~k~----G~-----~~W~~IA~~l---~~~Rt~~QCr~Rw~n~L 70 (324)
...|+.+|-..|+++..+. .. .-|..||+.+ +..|++.||+.||.++.
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 3789999999999987643 11 1499999854 56799999999998753
No 53
>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=87.30 E-value=0.88 Score=38.55 Aligned_cols=35 Identities=17% Similarity=0.398 Sum_probs=30.0
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC---CChHHHHHHh
Q 020603 19 DQLRRGPWTLEEDTLLIQYISRHSE---GRWNLLAKRS 53 (324)
Q Consensus 19 ~~lkkg~WT~EED~~L~~lV~k~G~---~~W~~IA~~l 53 (324)
+..++..||.+||.-|+-.+.+||- +.|..|...+
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 3677899999999999999999998 8999999876
No 54
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=86.99 E-value=1.4 Score=44.33 Aligned_cols=107 Identities=10% Similarity=0.113 Sum_probs=66.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccc--cCC-----C-cCCCCCHHHHHHHHHH---
Q 020603 22 RRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYL--KPD-----V-KRGNLTPQEQMSILEL--- 90 (324)
Q Consensus 22 kkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L--~p~-----i-kkg~WT~EED~~Ll~l--- 90 (324)
..-+|+.+|-+++.+++...|. ++..|+..+| .|..+|++.+|.+-- +|. + .+.++..+|-.+|...
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~~~~~~e 441 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKLRSYLLE 441 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhHHHHHHH
Confidence 4468999999999999999998 9999999999 999999999887632 221 1 2346666665443322
Q ss_pred -HhhcCCChHHHHhhC--CCCCHHHHHHHHHHHHHHHHHhcCC
Q 020603 91 -HSKWGNRWSKIAQHL--PGRTDNEIKNYWRTRVQKQARHLKI 130 (324)
Q Consensus 91 -v~~~G~kWs~IA~~l--pgRT~~qcknRW~~~lkk~~r~~~~ 130 (324)
+.++.+.-..|-+.+ ..|++..+...-+.+....+.+.|-
T Consensus 442 ~l~Elq~E~k~~~~~~EE~k~~A~E~~q~~Q~l~~~~L~k~~~ 484 (507)
T COG5118 442 KLIELQNEHKHHMKEIEEAKNTAKEEDQTAQRLNDANLNKKGS 484 (507)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhhhccCC
Confidence 222222233333333 2345544444444444444444433
No 55
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=86.18 E-value=2.8 Score=45.38 Aligned_cols=44 Identities=14% Similarity=0.196 Sum_probs=41.1
Q ss_pred CCCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHH
Q 020603 77 GNLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTR 120 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~ 120 (324)
..||+.|..++-+++..|.+++-.|++.++++|-.||-.+|+..
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 57999999999999999999999999999999999999987754
No 56
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=85.46 E-value=1.2 Score=35.46 Aligned_cols=31 Identities=29% Similarity=0.510 Sum_probs=19.1
Q ss_pred CCCCCCCCCHHHHHHH--------HHHHHHhCCCChHHHHHH
Q 020603 19 DQLRRGPWTLEEDTLL--------IQYISRHSEGRWNLLAKR 52 (324)
Q Consensus 19 ~~lkkg~WT~EED~~L--------~~lV~k~G~~~W~~IA~~ 52 (324)
|.-..|-||+|+|+.| .+|+++|| +..|+.+
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG---~~~i~~R 81 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHG---EERIERR 81 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH----HHHHHHH
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhC---HHHHHHH
Confidence 5567899999999999 55777887 4666654
No 57
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=82.71 E-value=27 Score=35.26 Aligned_cols=43 Identities=16% Similarity=0.242 Sum_probs=39.2
Q ss_pred CCCCHHHHHHHHHHHhhcCCChHHHHh-hCCCCCHHHHHHHHHH
Q 020603 77 GNLTPQEQMSILELHSKWGNRWSKIAQ-HLPGRTDNEIKNYWRT 119 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~G~kWs~IA~-~lpgRT~~qcknRW~~ 119 (324)
..|+++|-+.+-+-++.||+++..|.+ +++.|+-..|-..|+.
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYl 321 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYL 321 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHH
Confidence 469999999999999999999999966 7899999999998874
No 58
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=82.23 E-value=1.1 Score=35.20 Aligned_cols=44 Identities=25% Similarity=0.520 Sum_probs=31.8
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------ChHHHHHHhC----CCCCcccccceeec
Q 020603 25 PWTLEEDTLLIQYISRH---SEG---------RWNLLAKRSG----LKRTGKSCRLRWLN 68 (324)
Q Consensus 25 ~WT~EED~~L~~lV~k~---G~~---------~W~~IA~~l~----~~Rt~~QCr~Rw~n 68 (324)
.||+++++.|++++... |.. .|..|++.|. ...+..||+.||..
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 59999999999988544 211 3999998773 23466788887754
No 59
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=77.62 E-value=3.6 Score=43.64 Aligned_cols=53 Identities=19% Similarity=0.420 Sum_probs=43.7
Q ss_pred CCCCCHHHHHHHHHHHhhcCCChHHHHh----------hCCCCCHHHHHHHHHHHHHHHHHhc
Q 020603 76 RGNLTPQEQMSILELHSKWGNRWSKIAQ----------HLPGRTDNEIKNYWRTRVQKQARHL 128 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~G~kWs~IA~----------~lpgRT~~qcknRW~~~lkk~~r~~ 128 (324)
+..||-+|++-...+++++|+++.+|-. ...-+|-.|+|.+|+.++++..+-.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~~ 150 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKLL 150 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhhh
Confidence 5679999999999999999999999832 2234678899999999888876655
No 60
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=74.65 E-value=10 Score=26.26 Aligned_cols=41 Identities=17% Similarity=0.310 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 82 QEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 82 EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
+++..++.++-..|-.+.+||+.| |-+...|+.+-...+++
T Consensus 7 ~~er~vi~~~y~~~~t~~eIa~~l-g~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 7 PREREVIRLRYFEGLTLEEIAERL-GISRSTVRRILKRALKK 47 (50)
T ss_dssp HHHHHHHHHHHTST-SHHHHHHHH-TSCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHH-CCcHHHHHHHHHHHHHH
Confidence 455556666556667899999999 99999999988877665
No 61
>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=72.61 E-value=14 Score=36.48 Aligned_cols=50 Identities=24% Similarity=0.466 Sum_probs=38.9
Q ss_pred CCCCCHHHHHHHHHHHhhc-CC---ChHHHHhhCCCCCHHHHHHHHHHHHHHHH
Q 020603 76 RGNLTPQEQMSILELHSKW-GN---RWSKIAQHLPGRTDNEIKNYWRTRVQKQA 125 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~-G~---kWs~IA~~lpgRT~~qcknRW~~~lkk~~ 125 (324)
-..||.-|...|+++.+.. |. .=.+|++.++||+..+|++.-+.+..+.+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rva 74 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRVA 74 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHHH
Confidence 3479999999999888765 43 35788999999999999997766554443
No 62
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=70.19 E-value=11 Score=25.96 Aligned_cols=38 Identities=21% Similarity=0.383 Sum_probs=30.1
Q ss_pred HHHHHHHHHHhhcCC-ChHHHHhhCCCCCHHHHHHHHHHH
Q 020603 82 QEQMSILELHSKWGN-RWSKIAQHLPGRTDNEIKNYWRTR 120 (324)
Q Consensus 82 EED~~Ll~lv~~~G~-kWs~IA~~lpgRT~~qcknRW~~~ 120 (324)
+=|.+|+.+.++-|. .|.+||+.+ |=+...|..|++.+
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 457888888888874 499999999 99999999998764
No 63
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=67.33 E-value=3.9 Score=44.30 Aligned_cols=44 Identities=18% Similarity=0.255 Sum_probs=39.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeec
Q 020603 23 RGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLN 68 (324)
Q Consensus 23 kg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n 68 (324)
...||+.|-.++.+++..|.. ++..|+++++ +++.+||-+-|..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~K-DF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSK-DFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcc-cHHHHHHHhc-cccHHHHHHHHHH
Confidence 457999999999999999986 9999999999 9999999886643
No 64
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=65.99 E-value=4.2 Score=28.09 Aligned_cols=38 Identities=18% Similarity=0.272 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeec
Q 020603 29 EEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLN 68 (324)
Q Consensus 29 EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n 68 (324)
+=|.+|+.++.+.+...|.+||+.+| =+...|+.|+..
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 45888999999999889999999998 477778877653
No 65
>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=65.74 E-value=27 Score=34.64 Aligned_cols=89 Identities=19% Similarity=0.275 Sum_probs=64.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCC---ChHHHHHHhCCCCCcccccceeeccccCCCcCCCCCHHHHHHHHHHHhh-c--
Q 020603 21 LRRGPWTLEEDTLLIQYISRHSEG---RWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLTPQEQMSILELHSK-W-- 94 (324)
Q Consensus 21 lkkg~WT~EED~~L~~lV~k~G~~---~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT~EED~~Ll~lv~~-~-- 94 (324)
..-..||..|...|+++....... +-.+|++.++ +|+..++++ |.+.|+ +..+.+++++ |
T Consensus 19 ~gp~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~ 84 (344)
T PF11035_consen 19 TGPAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPG 84 (344)
T ss_pred CCcccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhccc
Confidence 345789999999999988765322 4568889999 999999887 344443 2345555554 2
Q ss_pred ---CC------------ChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 95 ---GN------------RWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 95 ---G~------------kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
|. -|..+|+.+.|.-...+---|-..|--
T Consensus 85 g~~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~i 128 (344)
T PF11035_consen 85 GLKGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLTI 128 (344)
T ss_pred ccccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHHH
Confidence 11 199999999999999998888776543
No 66
>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=65.68 E-value=14 Score=28.86 Aligned_cols=38 Identities=16% Similarity=0.366 Sum_probs=28.7
Q ss_pred HHHHHHhhcCC--------ChHHHHhhCCC---CC--HHHHHHHHHHHHHH
Q 020603 86 SILELHSKWGN--------RWSKIAQHLPG---RT--DNEIKNYWRTRVQK 123 (324)
Q Consensus 86 ~Ll~lv~~~G~--------kWs~IA~~lpg---RT--~~qcknRW~~~lkk 123 (324)
.|..+|.+.|+ +|..|++.|.- -+ ..++|..|..+|.+
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 48888888884 59999999822 12 36899999888764
No 67
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=64.88 E-value=14 Score=31.86 Aligned_cols=42 Identities=17% Similarity=0.166 Sum_probs=36.1
Q ss_pred HHHHHHHHHHhhcC-CChHHHHhhCCCCCHHHHHHHHHHHHHHH
Q 020603 82 QEQMSILELHSKWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQKQ 124 (324)
Q Consensus 82 EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~qcknRW~~~lkk~ 124 (324)
+-|.+|+++.++-| ..|++||+.+ |-+...|+.|++.+....
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~G 51 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAG 51 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCC
Confidence 56888888888887 4599999999 999999999999876654
No 68
>smart00595 MADF subfamily of SANT domain.
Probab=64.06 E-value=11 Score=29.10 Aligned_cols=25 Identities=32% Similarity=0.714 Sum_probs=21.6
Q ss_pred hHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 98 WSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 98 Ws~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
|..||..| |-+..+|+.+|+++-..
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 99999999 55999999999986544
No 69
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=63.65 E-value=14 Score=34.14 Aligned_cols=45 Identities=13% Similarity=0.242 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHHHhhcCCChHHHHhhC---CCCCHHHHHHHHHHHHHH
Q 020603 78 NLTPQEQMSILELHSKWGNRWSKIAQHL---PGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 78 ~WT~EED~~Ll~lv~~~G~kWs~IA~~l---pgRT~~qcknRW~~~lkk 123 (324)
.|++++|.+|+.+|.. |+.-..|+.-+ ..-|-..|..||+.+|--
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd 48 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYD 48 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcC
Confidence 4999999999999865 66677776643 457889999999998763
No 70
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=63.38 E-value=4.7 Score=34.83 Aligned_cols=46 Identities=13% Similarity=0.133 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCc
Q 020603 28 LEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVK 75 (324)
Q Consensus 28 ~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ik 75 (324)
.+-|.+|+++..+.|.-.|.+||+.++ -+...|+.|+.+....++-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 357999999999999889999999998 6888899988887665543
No 71
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=63.31 E-value=18 Score=28.64 Aligned_cols=40 Identities=15% Similarity=0.341 Sum_probs=30.8
Q ss_pred HHHHHHHhhcCC--------ChHHHHhhCCC-----CCHHHHHHHHHHHHHHH
Q 020603 85 MSILELHSKWGN--------RWSKIAQHLPG-----RTDNEIKNYWRTRVQKQ 124 (324)
Q Consensus 85 ~~Ll~lv~~~G~--------kWs~IA~~lpg-----RT~~qcknRW~~~lkk~ 124 (324)
-+|..+|.+.|+ .|.+|++.|.- ....++|..|..+|.+-
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 358888888885 59999998832 23678899999888764
No 72
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=62.10 E-value=4.3 Score=32.18 Aligned_cols=17 Identities=29% Similarity=0.462 Sum_probs=10.2
Q ss_pred CCCcCCCCCHHHHHHHH
Q 020603 72 PDVKRGNLTPQEQMSIL 88 (324)
Q Consensus 72 p~ikkg~WT~EED~~Ll 88 (324)
|....|-||+|+|+.|.
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 73
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=62.10 E-value=7.5 Score=41.23 Aligned_cols=47 Identities=19% Similarity=0.276 Sum_probs=42.8
Q ss_pred cCCCCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHH
Q 020603 75 KRGNLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRV 121 (324)
Q Consensus 75 kkg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~l 121 (324)
..++|+.+|-++...+..++|.+.+.|+..+|+|...|||.+|..--
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE 454 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEE 454 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhh
Confidence 34679999999999999999999999999999999999999997533
No 74
>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=61.43 E-value=11 Score=33.53 Aligned_cols=40 Identities=23% Similarity=0.240 Sum_probs=34.0
Q ss_pred CCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHH
Q 020603 78 NLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWR 118 (324)
Q Consensus 78 ~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~ 118 (324)
.||+|+.++|.+|..+ |-.=++||+.|.|.|.+.|.-+-+
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 4999999999999855 778899999997799998876544
No 75
>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=60.21 E-value=27 Score=28.89 Aligned_cols=38 Identities=18% Similarity=0.256 Sum_probs=28.3
Q ss_pred HHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 85 MSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 85 ~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..++.+.-..|-.+.+||+.+ |.+...|+.+....+++
T Consensus 119 r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 119 RKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444334567899999999 99999999998875544
No 76
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=59.23 E-value=3.7 Score=32.22 Aligned_cols=40 Identities=18% Similarity=0.408 Sum_probs=26.8
Q ss_pred HHHHHHHHHhCC-------CChHHHHHHhCCCCC----cccccceeecccc
Q 020603 32 TLLIQYISRHSE-------GRWNLLAKRSGLKRT----GKSCRLRWLNYLK 71 (324)
Q Consensus 32 ~~L~~lV~k~G~-------~~W~~IA~~l~~~Rt----~~QCr~Rw~n~L~ 71 (324)
-+|..+|.+.|. +.|..||+.+++... +.+++..|.++|.
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 357778887763 369999999985442 2456666766654
No 77
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=59.21 E-value=20 Score=31.31 Aligned_cols=44 Identities=14% Similarity=0.057 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHhhcC-CChHHHHhhCCCCCHHHHHHHHHHHHHHHH
Q 020603 81 PQEQMSILELHSKWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQKQA 125 (324)
Q Consensus 81 ~EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~qcknRW~~~lkk~~ 125 (324)
.+-|.+|+.+.++-| -.|++||+.+ |=+...|+.|++.+.+..+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~Gv 57 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGF 57 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 456888888888877 4699999999 9999999999998777644
No 78
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=59.17 E-value=12 Score=38.60 Aligned_cols=41 Identities=17% Similarity=0.402 Sum_probs=37.5
Q ss_pred CCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHH
Q 020603 78 NLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRT 119 (324)
Q Consensus 78 ~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~ 119 (324)
.||++|-. +++...-||.+...||..+..+|+.|++.+|..
T Consensus 472 ~wSp~e~s-~ircf~~y~~~fe~ia~l~~tktp~Q~~~fy~~ 512 (534)
T KOG1194|consen 472 GWSPEEKS-AIRCFHWYKDNFELIAELMATKTPEQIKKFYMD 512 (534)
T ss_pred CCCCcccc-cccCchhhccchHHHHHHhcCCCHHHHHHHhcC
Confidence 49999988 888888999999999999999999999999964
No 79
>smart00595 MADF subfamily of SANT domain.
Probab=57.39 E-value=3.5 Score=31.93 Aligned_cols=23 Identities=30% Similarity=0.770 Sum_probs=19.9
Q ss_pred ChHHHHHHhCCCCCcccccceeecc
Q 020603 45 RWNLLAKRSGLKRTGKSCRLRWLNY 69 (324)
Q Consensus 45 ~W~~IA~~l~~~Rt~~QCr~Rw~n~ 69 (324)
.|..||..|+ -+..+|+.+|.+.
T Consensus 29 aW~~Ia~~l~--~~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELG--LSVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHC--cCHHHHHHHHHHH
Confidence 5999999998 3999999999774
No 80
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=57.39 E-value=5.5 Score=34.87 Aligned_cols=45 Identities=16% Similarity=0.119 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCC
Q 020603 28 LEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDV 74 (324)
Q Consensus 28 ~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~i 74 (324)
.+-|.+|+.+..+.|.-.|.+||+.++ -+...|+.|+.+..+.++
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 567899999999999889999999998 577778888887766554
No 81
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=51.76 E-value=41 Score=26.88 Aligned_cols=43 Identities=26% Similarity=0.282 Sum_probs=29.5
Q ss_pred CCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 79 LTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 79 WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.++.|-.. +.++-..|..+.+||+.+ |=+...|+++....+++
T Consensus 111 L~~~~~~i-i~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 111 LPEREREV-LVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred CCHHHHHH-HhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 44333333 334334577899999999 77999999988876554
No 82
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=50.17 E-value=12 Score=39.92 Aligned_cols=48 Identities=10% Similarity=0.277 Sum_probs=35.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCC---------CCCcccccceeecccc
Q 020603 23 RGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGL---------KRTGKSCRLRWLNYLK 71 (324)
Q Consensus 23 kg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~---------~Rt~~QCr~Rw~n~L~ 71 (324)
|..||-.|.+.+..+++.+|. ++.+|-+.+-- -++..|.|.+|.+.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVR 144 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHH
Confidence 678999999999999999997 99988433320 2345677777766543
No 83
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=48.83 E-value=56 Score=28.80 Aligned_cols=31 Identities=16% Similarity=0.190 Sum_probs=24.5
Q ss_pred hhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 92 SKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 92 ~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
...|-...+||+.| |-+...|+.|....+++
T Consensus 147 ~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 147 DMQGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 34567799999999 99999999998654443
No 84
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=48.59 E-value=8.8 Score=30.39 Aligned_cols=41 Identities=24% Similarity=0.481 Sum_probs=26.9
Q ss_pred HHHHHHHHHhCC-------CChHHHHHHhCCCCC----cccccceeeccccC
Q 020603 32 TLLIQYISRHSE-------GRWNLLAKRSGLKRT----GKSCRLRWLNYLKP 72 (324)
Q Consensus 32 ~~L~~lV~k~G~-------~~W~~IA~~l~~~Rt----~~QCr~Rw~n~L~p 72 (324)
-+|..+|.+.|. ..|.+||+.+++.-+ ..+.+..|.++|.|
T Consensus 35 ~~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 35 YRLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 357778887764 369999999985322 33455566665543
No 85
>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=48.23 E-value=21 Score=26.60 Aligned_cols=26 Identities=23% Similarity=0.557 Sum_probs=21.4
Q ss_pred hHHHHhhCCC-CCHHHHHHHHHHHHHH
Q 020603 98 WSKIAQHLPG-RTDNEIKNYWRTRVQK 123 (324)
Q Consensus 98 Ws~IA~~lpg-RT~~qcknRW~~~lkk 123 (324)
|..||..|.. -+..+|+.||+++...
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 9999999943 6788999999986554
No 86
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=46.81 E-value=68 Score=27.52 Aligned_cols=42 Identities=17% Similarity=0.201 Sum_probs=30.6
Q ss_pred HHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHHHHHhcC
Q 020603 87 ILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKQARHLK 129 (324)
Q Consensus 87 Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk~~r~~~ 129 (324)
++.+....|-...+||+.| |-+...|+.+-...+++-....+
T Consensus 127 v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~~~l~ 168 (172)
T PRK12523 127 AFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQCYIALY 168 (172)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHHhc
Confidence 3334444567899999999 99999999998877766544443
No 87
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=46.35 E-value=6.3 Score=39.90 Aligned_cols=51 Identities=24% Similarity=0.375 Sum_probs=43.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHH-----hCCCCCcccccceeeccc
Q 020603 19 DQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKR-----SGLKRTGKSCRLRWLNYL 70 (324)
Q Consensus 19 ~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~-----l~~~Rt~~QCr~Rw~n~L 70 (324)
..++-..||++|-+-|.++.++|.- +|-.||.. ++..||-...++||..+.
T Consensus 126 ~~l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 126 AHLNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred HhhccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 3566688999999999999999986 89999987 674599999999997653
No 88
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=45.85 E-value=56 Score=28.89 Aligned_cols=39 Identities=23% Similarity=0.248 Sum_probs=29.6
Q ss_pred HHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 84 QMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 84 D~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
...++++..-.|-.+.+||+.| |-+...|+.+|.....+
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 3444445445677899999999 99999999999875543
No 89
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=45.00 E-value=60 Score=27.45 Aligned_cols=31 Identities=13% Similarity=0.118 Sum_probs=24.4
Q ss_pred hhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 92 SKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 92 ~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
...|-.+.+||+.| |.+...|+.+....+++
T Consensus 141 ~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 141 EIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34567899999999 89999998887765444
No 90
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=44.93 E-value=46 Score=27.05 Aligned_cols=48 Identities=13% Similarity=0.165 Sum_probs=31.7
Q ss_pred CCCCHHHHHHHHHHHhhc----C----CChHHHHhhCC-----CCCHHHHHHHHHHHHHHH
Q 020603 77 GNLTPQEQMSILELHSKW----G----NRWSKIAQHLP-----GRTDNEIKNYWRTRVQKQ 124 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~----G----~kWs~IA~~lp-----gRT~~qcknRW~~~lkk~ 124 (324)
.-||+|++..||+.+..| | ..|..+-..+. .=+..|+.++-+.+-++.
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky 65 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKY 65 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHH
Confidence 369999999999998666 5 24544444332 236778877777655553
No 91
>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=44.49 E-value=31 Score=27.37 Aligned_cols=29 Identities=21% Similarity=0.541 Sum_probs=23.1
Q ss_pred HHHHHHHHhhcCCChHHHHhhCCCCCHHHH
Q 020603 84 QMSILELHSKWGNRWSKIAQHLPGRTDNEI 113 (324)
Q Consensus 84 D~~Ll~lv~~~G~kWs~IA~~lpgRT~~qc 113 (324)
|+.|..+....|..|..+|.+| |=+..+|
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I 30 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDI 30 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 5668889999999999999998 5554443
No 92
>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=43.56 E-value=28 Score=30.98 Aligned_cols=34 Identities=21% Similarity=0.261 Sum_probs=27.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHHHHhC-CCCCcc
Q 020603 25 PWTLEEDTLLIQYISRHSEGRWNLLAKRSG-LKRTGK 60 (324)
Q Consensus 25 ~WT~EED~~L~~lV~k~G~~~W~~IA~~l~-~~Rt~~ 60 (324)
.||.|+.++|.+|....- .=.+||+.|+ ..|+..
T Consensus 2 ~Wtde~~~~L~~lw~~G~--SasqIA~~lg~vsRnAV 36 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGL--SASQIARQLGGVSRNAV 36 (162)
T ss_pred CCCHHHHHHHHHHHHcCC--CHHHHHHHhCCcchhhh
Confidence 599999999999986644 5799999999 445543
No 93
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=43.22 E-value=28 Score=39.55 Aligned_cols=35 Identities=17% Similarity=0.293 Sum_probs=30.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhC
Q 020603 20 QLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSG 54 (324)
Q Consensus 20 ~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~ 54 (324)
..++..+|.|||..|+-.+.+||-++|.+|-..+.
T Consensus 923 ~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~ 957 (1033)
T PLN03142 923 QNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFR 957 (1033)
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence 34566799999999999999999999999987764
No 94
>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=41.95 E-value=85 Score=20.42 Aligned_cols=40 Identities=18% Similarity=0.282 Sum_probs=27.2
Q ss_pred CCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHH
Q 020603 79 LTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTR 120 (324)
Q Consensus 79 WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~ 120 (324)
++++ +..++.++-.-|..+..||+.+ |-+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4444 4445555555677899999998 77777777665543
No 95
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=40.75 E-value=73 Score=26.82 Aligned_cols=30 Identities=27% Similarity=0.243 Sum_probs=23.9
Q ss_pred hcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 93 KWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 93 ~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..|-...+||+.| |-+...|+++....+++
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 89999999988765444
No 96
>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=40.18 E-value=33 Score=23.25 Aligned_cols=30 Identities=23% Similarity=0.225 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHhCCCChHHHHHHhCCCCCc
Q 020603 29 EEDTLLIQYISRHSEGRWNLLAKRSGLKRTG 59 (324)
Q Consensus 29 EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~ 59 (324)
-|.+.|.+++++++. +..+.|+.+|..|+.
T Consensus 5 ~E~~~i~~aL~~~~g-n~~~aA~~Lgisr~t 34 (42)
T PF02954_consen 5 FEKQLIRQALERCGG-NVSKAARLLGISRRT 34 (42)
T ss_dssp HHHHHHHHHHHHTTT--HHHHHHHHTS-HHH
T ss_pred HHHHHHHHHHHHhCC-CHHHHHHHHCCCHHH
Confidence 377888999999984 999999999976654
No 97
>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=40.13 E-value=52 Score=28.96 Aligned_cols=46 Identities=22% Similarity=0.245 Sum_probs=38.0
Q ss_pred cCCCCCHHHHHHHHHHHhhcCCChHHHHhhCC----CCCHHHHHHHHHHH
Q 020603 75 KRGNLTPQEQMSILELHSKWGNRWSKIAQHLP----GRTDNEIKNYWRTR 120 (324)
Q Consensus 75 kkg~WT~EED~~Ll~lv~~~G~kWs~IA~~lp----gRT~~qcknRW~~~ 120 (324)
....-|+.|..-|..|+.+||.++...+.-.. -.|..||+.+...+
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 34568899999999999999999999988542 48999999887754
No 98
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=39.76 E-value=66 Score=21.75 Aligned_cols=34 Identities=24% Similarity=0.213 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHH
Q 020603 82 QEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNY 116 (324)
Q Consensus 82 EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknR 116 (324)
=|...|.++..+++++..+.|+.| |=+...+..|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 377889999999999999999998 6555555544
No 99
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=39.55 E-value=62 Score=26.87 Aligned_cols=46 Identities=20% Similarity=0.246 Sum_probs=33.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccc
Q 020603 21 LRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYL 70 (324)
Q Consensus 21 lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L 70 (324)
.++..||.|+-..++..+...|. .=..||+.+++ + .+-..+|.+.+
T Consensus 8 ~~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI--s-~~tl~~W~r~y 53 (121)
T PRK09413 8 EKRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV--A-ASQLFLWRKQY 53 (121)
T ss_pred CCCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc--C-HHHHHHHHHHH
Confidence 34688999998888887777775 77899999984 3 33344566644
No 100
>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=39.15 E-value=49 Score=26.23 Aligned_cols=30 Identities=20% Similarity=0.457 Sum_probs=24.2
Q ss_pred HHHHHHHHhhcCCChHHHHhhCCCCCHHHHH
Q 020603 84 QMSILELHSKWGNRWSKIAQHLPGRTDNEIK 114 (324)
Q Consensus 84 D~~Ll~lv~~~G~kWs~IA~~lpgRT~~qck 114 (324)
|..|..+....|..|..+|..| |=+...|.
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~ 33 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEIN 33 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHH
Confidence 6678888899999999999999 65555443
No 101
>PRK04217 hypothetical protein; Provisional
Probab=39.06 E-value=95 Score=25.96 Aligned_cols=45 Identities=16% Similarity=0.110 Sum_probs=36.2
Q ss_pred CCCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 77 GNLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..-+++| ..++.+....|-...+||+.+ |-+...|+.++....++
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466666 577777777788999999999 99999999999875554
No 102
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=38.18 E-value=77 Score=27.20 Aligned_cols=29 Identities=10% Similarity=-0.008 Sum_probs=23.0
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|..+.+||+.| |-+...|+++.....++
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456799999999 88999999887765544
No 103
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=38.17 E-value=97 Score=26.72 Aligned_cols=30 Identities=10% Similarity=0.119 Sum_probs=23.7
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQKQ 124 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk~ 124 (324)
.|....+||..| |-+...|+.+....+++-
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 456789999999 889999999887765553
No 104
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=37.81 E-value=40 Score=38.95 Aligned_cols=76 Identities=22% Similarity=0.309 Sum_probs=49.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCcCCCCCHHHHHHHHHHHhhc-CCChHH
Q 020603 22 RRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLTPQEQMSILELHSKW-GNRWSK 100 (324)
Q Consensus 22 kkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT~EED~~Ll~lv~~~-G~kWs~ 100 (324)
.-.-|..+||..|+-.|-+||.|+|..|---=.++=+.+ ..+...+-.+.|=..+-+.|+.+..++ +.+|..
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dK-------i~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~ 1204 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDK-------IFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPK 1204 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhccCccccchhh-------hcccccCCchHHHHHHHHHHHHHHhhcccCCCch
Confidence 446799999999999999999999999962111111111 111112445566677777888887777 555665
Q ss_pred HHhh
Q 020603 101 IAQH 104 (324)
Q Consensus 101 IA~~ 104 (324)
..+.
T Consensus 1205 ~~~~ 1208 (1373)
T KOG0384|consen 1205 KLKR 1208 (1373)
T ss_pred hhhc
Confidence 5443
No 105
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=37.33 E-value=80 Score=24.99 Aligned_cols=42 Identities=17% Similarity=0.169 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhhcC-CChHHHHhhCCCCCHHHHHHHHHHHHHHH
Q 020603 82 QEQMSILELHSKWG-NRWSKIAQHLPGRTDNEIKNYWRTRVQKQ 124 (324)
Q Consensus 82 EED~~Ll~lv~~~G-~kWs~IA~~lpgRT~~qcknRW~~~lkk~ 124 (324)
+.|.+|+.+..+.| -.+.+||+.+ |-+...|+.|.+.+.+..
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 56888888888877 4699999999 999999999998876653
No 106
>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=34.73 E-value=43 Score=26.08 Aligned_cols=29 Identities=21% Similarity=0.674 Sum_probs=22.6
Q ss_pred HHHHHHHHhhcCCChHHHHhhCCCCCHHHH
Q 020603 84 QMSILELHSKWGNRWSKIAQHLPGRTDNEI 113 (324)
Q Consensus 84 D~~Ll~lv~~~G~kWs~IA~~lpgRT~~qc 113 (324)
|..|..+.+..|..|.++|+.| |=+..+|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI 32 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDI 32 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHH
Confidence 4567888899999999999999 5554433
No 107
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=34.21 E-value=1.5e+02 Score=28.14 Aligned_cols=30 Identities=17% Similarity=0.202 Sum_probs=24.0
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQKQ 124 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk~ 124 (324)
.|-.-.+||+.| |.+...|+.|....+++-
T Consensus 157 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~L 186 (324)
T TIGR02960 157 LGWRAAETAELL-GTSTASVNSALQRARATL 186 (324)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 455689999999 999999999977655543
No 108
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=33.95 E-value=1.1e+02 Score=26.02 Aligned_cols=29 Identities=17% Similarity=0.357 Sum_probs=22.5
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-...+||+.| |-+...|+++....+++
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 455688899888 78888998888765554
No 109
>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=33.85 E-value=83 Score=27.09 Aligned_cols=29 Identities=10% Similarity=0.074 Sum_probs=22.8
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-...+||+.| |=+...|+++....+++
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 355689999999 88899999988765554
No 110
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=32.80 E-value=1.2e+02 Score=26.25 Aligned_cols=30 Identities=13% Similarity=0.144 Sum_probs=23.6
Q ss_pred hcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 93 KWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 93 ~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..|....+||+.| |-+...|+.+....+++
T Consensus 153 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 153 VVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 88899999887765554
No 111
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=32.71 E-value=1.2e+02 Score=26.18 Aligned_cols=35 Identities=20% Similarity=0.095 Sum_probs=27.6
Q ss_pred hhcCCChHHHHhhCCCCCHHHHHHHHHHHHHHHHHh
Q 020603 92 SKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKQARH 127 (324)
Q Consensus 92 ~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk~~r~ 127 (324)
...|-...+||+.| |-+...|+.|....+++-..+
T Consensus 140 ~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 140 TLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 34466799999999 999999999988777665443
No 112
>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=32.55 E-value=69 Score=24.40 Aligned_cols=29 Identities=21% Similarity=0.525 Sum_probs=21.2
Q ss_pred HHHHHHHHHhh-cCCChHHHHhhCCCCCHHH
Q 020603 83 EQMSILELHSK-WGNRWSKIAQHLPGRTDNE 112 (324)
Q Consensus 83 ED~~Ll~lv~~-~G~kWs~IA~~lpgRT~~q 112 (324)
-++.|..++.. .|.+|..+|+.| |=+..+
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~ 33 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEAD 33 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHH
Confidence 35567777777 899999999999 434443
No 113
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=32.19 E-value=35 Score=27.13 Aligned_cols=43 Identities=16% Similarity=0.158 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCC
Q 020603 29 EEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPD 73 (324)
Q Consensus 29 EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ 73 (324)
+.|.+|+.++.+.+...+.+||+.++ -+...|+.|.....+.+
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 56888999999988778999999998 57777887776655443
No 114
>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=32.15 E-value=67 Score=25.05 Aligned_cols=33 Identities=30% Similarity=0.533 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHH
Q 020603 81 PQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKN 115 (324)
Q Consensus 81 ~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qckn 115 (324)
.||.++|+.. -..|.+|..+|..| |=+...|++
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5788888843 25688999999999 777776655
No 115
>PF08870 DUF1832: Domain of unknown function (DUF1832); InterPro: IPR014969 This entry describes the DndE protein encoded by an operon associated with a sulphur-containing modification to DNA []. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndE is a putative carboxylase homologous to NCAIR synthetases.
Probab=32.15 E-value=1.8e+02 Score=24.37 Aligned_cols=96 Identities=15% Similarity=0.125 Sum_probs=59.8
Q ss_pred CCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeec---cc--cCCCcCCCCCHHHHHHHHHHHhhcCCChHH
Q 020603 26 WTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLN---YL--KPDVKRGNLTPQEQMSILELHSKWGNRWSK 100 (324)
Q Consensus 26 WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n---~L--~p~ikkg~WT~EED~~Ll~lv~~~G~kWs~ 100 (324)
=|++-++.|.++-.+.|...|+.+++..- .|+-..=+ ++.. .. .-.+++..|+-|-++.+..+++++=+
T Consensus 4 lS~~~~~~L~~Lk~~tgi~~~Nil~R~A~-~~SL~~~~-~~~~~~~~~d~g~e~~~~t~~Ge~~~~~~~ll~q~~g---- 77 (113)
T PF08870_consen 4 LSKKAKEQLKKLKRRTGITPWNILCRIAF-CRSLEEPS-IPSDEDIKDDSGLELNWKTFTGEYDDIYEALLKQRYG---- 77 (113)
T ss_pred cCHHHHHHHHHHHHhcCCCcccHHHHHHH-HHHHccCC-CCCCCccCCCCCeEEeeeeecCchHHHHHHHHHHHhC----
Confidence 36778899999999999989999887532 12111100 1100 11 11345567887777766665544321
Q ss_pred HHhhCCCCCHHHHHHHHHHHHHHHHHhcCCCC
Q 020603 101 IAQHLPGRTDNEIKNYWRTRVQKQARHLKIDA 132 (324)
Q Consensus 101 IA~~lpgRT~~qcknRW~~~lkk~~r~~~~~~ 132 (324)
++.++..+...|+.++.+.+....-..
T Consensus 78 -----~~~d~~~l~~~~~~Hl~rGi~~L~~~~ 104 (113)
T PF08870_consen 78 -----PELDDEELPKYFKLHLDRGIEYLSNDK 104 (113)
T ss_pred -----CCCCHHHHHHHHHHHHHHhHHHHhccc
Confidence 356888999999999888776554433
No 116
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=31.69 E-value=1.3e+02 Score=26.41 Aligned_cols=28 Identities=14% Similarity=0.126 Sum_probs=21.9
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQ 122 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lk 122 (324)
.|-.-.+||+.| |-+...|+.|....++
T Consensus 151 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 178 (195)
T PRK12532 151 LGFSSDEIQQMC-GISTSNYHTIMHRARE 178 (195)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 456689999999 8899999988765433
No 117
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=31.46 E-value=1.3e+02 Score=26.34 Aligned_cols=30 Identities=23% Similarity=0.105 Sum_probs=23.7
Q ss_pred hcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 93 KWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 93 ~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..|-...+||+.| |-+...|+.|....+++
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 3566799999999 88999999988765444
No 118
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=31.35 E-value=1.2e+02 Score=25.23 Aligned_cols=29 Identities=10% Similarity=0.108 Sum_probs=23.1
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||+.| |-+...|+.|....+++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 455689999999 88999999987765544
No 119
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=31.30 E-value=1.3e+02 Score=26.46 Aligned_cols=29 Identities=17% Similarity=0.114 Sum_probs=22.4
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-...+||+.| |-+...|+.|....+++
T Consensus 156 eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 156 EELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 355688999998 88899998887665554
No 120
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=31.21 E-value=1.3e+02 Score=25.50 Aligned_cols=29 Identities=21% Similarity=0.277 Sum_probs=22.9
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||+.| |.+...|+.|....+++
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 455689999999 88999999987765544
No 121
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=31.19 E-value=1.3e+02 Score=25.14 Aligned_cols=30 Identities=7% Similarity=-0.119 Sum_probs=23.2
Q ss_pred hcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 93 KWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 93 ~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..|-.-.+||+.| |-+...|++|....+++
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 120 LEEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3456689999999 99999999987654444
No 122
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=30.97 E-value=69 Score=24.48 Aligned_cols=44 Identities=16% Similarity=0.425 Sum_probs=29.4
Q ss_pred HHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCC-------cCCCCCHHHHHHH
Q 020603 31 DTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDV-------KRGNLTPQEQMSI 87 (324)
Q Consensus 31 D~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~i-------kkg~WT~EED~~L 87 (324)
+.+|.++|+.|| |..+++.+. ..|.. -+|.+ ++.+|-.+..+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~-----i~CF~-----~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERIN-----INCFK-----NNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTT-----SSSTT-----SS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcc-----cccCC-----CCCchHHHHHHHhcCHhHHHHHHHh
Confidence 567899999998 999999988 23332 24433 4678877776655
No 123
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=30.74 E-value=30 Score=29.08 Aligned_cols=43 Identities=14% Similarity=0.120 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCC
Q 020603 29 EEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPD 73 (324)
Q Consensus 29 EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ 73 (324)
+-|.++++++++.+...+.+||+.++ -+...|+.|-.+..+..
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~G 50 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEG 50 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCC
Confidence 56888999999999889999999998 57777887666655444
No 124
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=30.66 E-value=1.2e+02 Score=26.07 Aligned_cols=28 Identities=11% Similarity=0.043 Sum_probs=21.7
Q ss_pred CCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 95 GNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 95 G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
|..-.+||+.| |.+...|+.+....+++
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 45688999998 88899998887765444
No 125
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=30.50 E-value=3.4e+02 Score=27.84 Aligned_cols=55 Identities=18% Similarity=0.245 Sum_probs=42.9
Q ss_pred CcCCCCCHHHHHHHHHHHhhcC----------------CChHHHHhhC-----CCCCHHHHHHHHHHHHHHHHHhc
Q 020603 74 VKRGNLTPQEQMSILELHSKWG----------------NRWSKIAQHL-----PGRTDNEIKNYWRTRVQKQARHL 128 (324)
Q Consensus 74 ikkg~WT~EED~~Ll~lv~~~G----------------~kWs~IA~~l-----pgRT~~qcknRW~~~lkk~~r~~ 128 (324)
.--|.|+++=|+...++...|. ++=..||+++ ..||..||-.|-+-+-|++.|..
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~rei 149 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREI 149 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHH
Confidence 3457899999999999987764 2367888876 34899999999887777776653
No 126
>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=29.99 E-value=44 Score=29.43 Aligned_cols=47 Identities=15% Similarity=0.191 Sum_probs=34.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCC---CCCcccccceeec
Q 020603 21 LRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGL---KRTGKSCRLRWLN 68 (324)
Q Consensus 21 lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~---~Rt~~QCr~Rw~n 68 (324)
-+...-|..|.+-|..||++||. ++...+.-..+ ..|..||+.+...
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 56677899999999999999997 88888754331 3566666655443
No 127
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=29.78 E-value=77 Score=21.72 Aligned_cols=36 Identities=33% Similarity=0.506 Sum_probs=18.3
Q ss_pred CCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHH
Q 020603 78 NLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKN 115 (324)
Q Consensus 78 ~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qckn 115 (324)
.+|.+|-..|..++ +-|..=.+||+.| ||+...|.+
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 57778877777775 5677889999999 999887765
No 128
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=29.46 E-value=1.7e+02 Score=28.07 Aligned_cols=29 Identities=10% Similarity=0.103 Sum_probs=23.5
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||+.| |.+...||.|....+++
T Consensus 168 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 196 (339)
T PRK08241 168 LGWSAAEVAELL-DTSVAAVNSALQRARAT 196 (339)
T ss_pred hCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 345689999999 99999999998765544
No 129
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=29.45 E-value=1.7e+02 Score=24.79 Aligned_cols=29 Identities=17% Similarity=0.106 Sum_probs=22.9
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||+.| |-+...|+++-...+++
T Consensus 127 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 155 (164)
T PRK12547 127 SGFSYEDAAAIC-GCAVGTIKSRVSRARNR 155 (164)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 456689999999 88899999887765554
No 130
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=29.42 E-value=1.3e+02 Score=26.04 Aligned_cols=28 Identities=11% Similarity=0.101 Sum_probs=22.0
Q ss_pred CCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 95 GNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 95 G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
|-...+||+.| |-+...|+.|....+++
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 45688999999 88899999887765544
No 131
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=29.20 E-value=26 Score=37.36 Aligned_cols=50 Identities=18% Similarity=0.333 Sum_probs=44.6
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeec
Q 020603 17 DSDQLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLN 68 (324)
Q Consensus 17 ~~~~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n 68 (324)
.......++|+.+|-++...+....|. +...|+..++ .|..+|++.+|..
T Consensus 403 ~sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 403 YSKKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred ccCccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 445677899999999999999999998 9999999999 8999999987754
No 132
>cd08318 Death_NMPP84 Death domain of Nuclear Matrix Protein P84. Death domain (DD) found in the Nuclear Matrix Protein P84 (also known as HPR1 or THOC1). HPR1/p84 resides in the nuclear matrix and is part of the THO complex, also called TREX (transcription/export) complex, which functions in mRNP biogenesis at the interface between transcription and export of mRNA from the nucleus. Mice lacking THOC1 have abnormal testis development and are sterile. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in signaling pathways and can recruit other proteins into signaling complexes.
Probab=29.11 E-value=72 Score=25.09 Aligned_cols=24 Identities=38% Similarity=0.695 Sum_probs=18.7
Q ss_pred HHHhhcCCChHHHHhhCCCCCHHHH
Q 020603 89 ELHSKWGNRWSKIAQHLPGRTDNEI 113 (324)
Q Consensus 89 ~lv~~~G~kWs~IA~~lpgRT~~qc 113 (324)
.+....|.+|.++|..| |=+..+|
T Consensus 12 ~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 12 VFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 35577899999999999 6666655
No 133
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=29.11 E-value=1.6e+02 Score=25.67 Aligned_cols=29 Identities=10% Similarity=0.134 Sum_probs=23.3
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-...+||..| |-+...|+.+....+++
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 456799999999 88999999998765444
No 134
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=28.88 E-value=38 Score=34.30 Aligned_cols=41 Identities=12% Similarity=0.165 Sum_probs=33.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChHHHH-HHhCCCCCccccccee
Q 020603 24 GPWTLEEDTLLIQYISRHSEGRWNLLA-KRSGLKRTGKSCRLRW 66 (324)
Q Consensus 24 g~WT~EED~~L~~lV~k~G~~~W~~IA-~~l~~~Rt~~QCr~Rw 66 (324)
.-|+.+|-..+-+.++.||. ++..|. .+++ .|+...|-.-|
T Consensus 278 ~~wsEeEcr~FEegl~~yGK-DF~lIr~nkvr-tRsvgElVeyY 319 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGK-DFHLIRANKVR-TRSVGELVEYY 319 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcc-cHHHHHhcccc-cchHHHHHHHH
Confidence 35999999999999999997 888885 4666 77777776655
No 135
>PLN03162 golden-2 like transcription factor; Provisional
Probab=28.81 E-value=4e+02 Score=27.33 Aligned_cols=46 Identities=15% Similarity=0.126 Sum_probs=37.8
Q ss_pred CCCCHHHHHHHHHHHhhcCCC---hHHHHhhC--CCCCHHHHHHHHHHHHH
Q 020603 77 GNLTPQEQMSILELHSKWGNR---WSKIAQHL--PGRTDNEIKNYWRTRVQ 122 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~G~k---Ws~IA~~l--pgRT~~qcknRW~~~lk 122 (324)
-.||+|=-++++++|.++|.. =+.|-+.| +|=|..+|+.+.+++..
T Consensus 238 LrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl 288 (526)
T PLN03162 238 VDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRS 288 (526)
T ss_pred ccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHH
Confidence 469999999999999999943 56777766 88999999988766443
No 136
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=28.65 E-value=64 Score=33.75 Aligned_cols=42 Identities=24% Similarity=0.371 Sum_probs=37.4
Q ss_pred CCCCHHHHHHHHHHHhhcCCChHHHHh-hCCCCCHHHHHHHHH
Q 020603 77 GNLTPQEQMSILELHSKWGNRWSKIAQ-HLPGRTDNEIKNYWR 118 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~G~kWs~IA~-~lpgRT~~qcknRW~ 118 (324)
..|+..|-.++-++..+||+.+..|.+ +||-++-..|-..|+
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 369999999999999999999999966 679999999988765
No 137
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=28.14 E-value=1.3e+02 Score=24.41 Aligned_cols=71 Identities=15% Similarity=0.276 Sum_probs=42.2
Q ss_pred CCCCCCHHHHHHHHHHHHHh----CC---CChHHHHHHhC----CCCCcccc-------cceeeccccCCCcCC---CCC
Q 020603 22 RRGPWTLEEDTLLIQYISRH----SE---GRWNLLAKRSG----LKRTGKSC-------RLRWLNYLKPDVKRG---NLT 80 (324)
Q Consensus 22 kkg~WT~EED~~L~~lV~k~----G~---~~W~~IA~~l~----~~Rt~~QC-------r~Rw~n~L~p~ikkg---~WT 80 (324)
-...||+|++-.|++.+..| |. .+|..+...+. ..=+..|. +.||.+.... .+.| .++
T Consensus 3 ~qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~ 81 (98)
T PF04504_consen 3 FQRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFS 81 (98)
T ss_pred CcCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCC
Confidence 35679999999999988776 52 25655555443 11122332 2355554443 2223 577
Q ss_pred HHHHHHHHHHHhh
Q 020603 81 PQEQMSILELHSK 93 (324)
Q Consensus 81 ~EED~~Ll~lv~~ 93 (324)
..-|..+.+|.++
T Consensus 82 ~~hd~~~f~Lsk~ 94 (98)
T PF04504_consen 82 KPHDRRLFELSKK 94 (98)
T ss_pred CHhHHHHHHHHHH
Confidence 7778888777654
No 138
>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=27.83 E-value=1.7e+02 Score=25.71 Aligned_cols=30 Identities=13% Similarity=0.026 Sum_probs=23.8
Q ss_pred hcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 93 KWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 93 ~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..|....+||+.| |-+...|+.|....+++
T Consensus 145 ~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 145 VLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3456789999999 99999999987765544
No 139
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=27.79 E-value=1.8e+02 Score=25.43 Aligned_cols=29 Identities=17% Similarity=0.249 Sum_probs=21.4
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||+.| |-+...||.+-...+++
T Consensus 157 ~~~s~~EIA~~L-gis~~tVk~~l~ra~~~ 185 (194)
T PRK09646 157 GGLTYREVAERL-AVPLGTVKTRMRDGLIR 185 (194)
T ss_pred cCCCHHHHHHHh-CCChHhHHHHHHHHHHH
Confidence 345688999988 77888888876655544
No 140
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=27.29 E-value=1e+02 Score=28.00 Aligned_cols=44 Identities=25% Similarity=0.268 Sum_probs=36.3
Q ss_pred CCCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 77 GNLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
...|+.|-+.|.-+.+ |-.=.+||..| +.+...||++..++++|
T Consensus 147 ~~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~K 190 (211)
T COG2197 147 ELLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRK 190 (211)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHH
Confidence 3689888887776654 55567999999 99999999999988877
No 141
>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=27.28 E-value=79 Score=24.88 Aligned_cols=31 Identities=19% Similarity=0.462 Sum_probs=24.4
Q ss_pred HHHHHHHHhhcCCChHHHHhhCCCCCHHHHHH
Q 020603 84 QMSILELHSKWGNRWSKIAQHLPGRTDNEIKN 115 (324)
Q Consensus 84 D~~Ll~lv~~~G~kWs~IA~~lpgRT~~qckn 115 (324)
|..|..+....|.+|..+|+.| |=+...|.+
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 4567778889999999999999 666665544
No 142
>PRK01905 DNA-binding protein Fis; Provisional
Probab=27.13 E-value=1.6e+02 Score=22.61 Aligned_cols=34 Identities=21% Similarity=0.168 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHH
Q 020603 81 PQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKN 115 (324)
Q Consensus 81 ~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qckn 115 (324)
.-|...|++++..+|+++.+.|+.+ |=+...++.
T Consensus 36 ~~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~r 69 (77)
T PRK01905 36 CVEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRK 69 (77)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHH
Confidence 4577789999999999999999998 545544443
No 143
>smart00351 PAX Paired Box domain.
Probab=26.80 E-value=2.8e+02 Score=23.11 Aligned_cols=74 Identities=12% Similarity=0.107 Sum_probs=47.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCChHHHHHHhCCCCC-cccccceeec--cccCCCc----CCCCCHHHHHHHHHHHh
Q 020603 20 QLRRGPWTLEEDTLLIQYISRHSEGRWNLLAKRSGLKRT-GKSCRLRWLN--YLKPDVK----RGNLTPQEQMSILELHS 92 (324)
Q Consensus 20 ~lkkg~WT~EED~~L~~lV~k~G~~~W~~IA~~l~~~Rt-~~QCr~Rw~n--~L~p~ik----kg~WT~EED~~Ll~lv~ 92 (324)
.....+.+.++-++++.++. -|. .-.+||+.++..|. ...+..||.. .+.|.-. ...-+++++..|++++.
T Consensus 12 ~~~~~~~s~~~R~riv~~~~-~G~-s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~ 89 (125)
T smart00351 12 FVNGRPLPDEERQRIVELAQ-NGV-RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQ 89 (125)
T ss_pred ecCCCCCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHH
Confidence 34556799999999988886 454 78999999996543 3445556543 3444222 22356666777777776
Q ss_pred hcC
Q 020603 93 KWG 95 (324)
Q Consensus 93 ~~G 95 (324)
+.+
T Consensus 90 ~~p 92 (125)
T smart00351 90 ENP 92 (125)
T ss_pred HCC
Confidence 654
No 144
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=26.49 E-value=1.8e+02 Score=25.52 Aligned_cols=29 Identities=7% Similarity=-0.036 Sum_probs=23.2
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-...+||..| |-+...|+.|....+++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456799999999 99999999987654443
No 145
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=26.40 E-value=1.9e+02 Score=24.15 Aligned_cols=38 Identities=13% Similarity=0.138 Sum_probs=26.6
Q ss_pred HHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHHH
Q 020603 86 SILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKQ 124 (324)
Q Consensus 86 ~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk~ 124 (324)
.++.+.-..|-.=.+||..| |-+...|+.+....+++.
T Consensus 117 ~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~L 154 (162)
T TIGR02983 117 AVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALARL 154 (162)
T ss_pred HHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 33334344456688899988 888999999887765553
No 146
>PF05029 TIMELESS_C: Timeless protein C terminal region; InterPro: IPR007725 The timeless (tim) gene is essential for circadian function in Drosophila. Putative homologues of Drosophila tim have been identified in both mice and humans (mTim and hTIM, respectively). Mammalian TIM is not the true orthologue of Drosophila TIM, but is the likely orthologue of a fly gene, timeout (also called tim-2) []. mTim has been shown to be essential for embryonic development, but does not have substantiated circadian function []. Some family members contain a SANT domain in this region.
Probab=25.40 E-value=2.8e+02 Score=29.57 Aligned_cols=39 Identities=21% Similarity=0.297 Sum_probs=27.1
Q ss_pred CCCHHHHHHHHHHHhhcCCC---hHHHHhhC-CCCCHHHHHHH
Q 020603 78 NLTPQEQMSILELHSKWGNR---WSKIAQHL-PGRTDNEIKNY 116 (324)
Q Consensus 78 ~WT~EED~~Ll~lv~~~G~k---Ws~IA~~l-pgRT~~qcknR 116 (324)
-||++++..|..|+..|... =..|.+.+ ..|+..++..+
T Consensus 170 l~t~e~e~~l~~L~e~~~~~~d~l~~i~~~~~~k~s~~~i~~k 212 (566)
T PF05029_consen 170 LWTEEEEEELKDLYEEFKDSDDCLGRIMKELTGKRSKAEIVEK 212 (566)
T ss_pred ccChHHHHHHHHHhhhccCcHHHHHHHHhhhccccChhhhccc
Confidence 59999999999999777643 34455544 44777666544
No 147
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=25.13 E-value=1.8e+02 Score=25.17 Aligned_cols=29 Identities=7% Similarity=-0.012 Sum_probs=21.0
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||+.| |-+...|+.+....+++
T Consensus 143 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 171 (186)
T PRK05602 143 QGLSNIEAAAVM-DISVDALESLLARGRRA 171 (186)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 455688888888 88888888876654433
No 148
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=25.11 E-value=2e+02 Score=25.28 Aligned_cols=30 Identities=10% Similarity=-0.032 Sum_probs=22.6
Q ss_pred hcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 93 KWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 93 ~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..|-.+.+||+.| |=+...|+.+-...+++
T Consensus 150 ~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 150 IEGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3456799999999 88888888887654444
No 149
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=25.03 E-value=2e+02 Score=25.05 Aligned_cols=29 Identities=14% Similarity=0.100 Sum_probs=23.7
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||+.| |-+...|+.|....+++
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 173 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDA 173 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 455689999999 99999999998775554
No 150
>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=24.67 E-value=2.2e+02 Score=24.32 Aligned_cols=29 Identities=24% Similarity=0.282 Sum_probs=22.7
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-...+||+.| |-+...|+.|....+++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 177 (183)
T TIGR02999 149 AGLTVEEIAELL-GVSVRTVERDWRFARAW 177 (183)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 455689999999 89999999988765444
No 151
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=24.66 E-value=2.1e+02 Score=23.03 Aligned_cols=46 Identities=24% Similarity=0.497 Sum_probs=35.7
Q ss_pred CCCCCHHHHHHHHHHHhhcCCChHHHHhhCCCC-CHHHHHHHHHHHHHH
Q 020603 76 RGNLTPQEQMSILELHSKWGNRWSKIAQHLPGR-TDNEIKNYWRTRVQK 123 (324)
Q Consensus 76 kg~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgR-T~~qcknRW~~~lkk 123 (324)
+..||+|+-..+++++..-|..=+.||+.+ |- ..+++ .+|...++.
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l-~~W~~~~~~ 51 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQL-YKWRIQLQK 51 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHH-HHHHHHHHH
Confidence 457999999999999999998889999999 76 55444 456544443
No 152
>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=24.63 E-value=1.5e+02 Score=23.49 Aligned_cols=22 Identities=23% Similarity=0.607 Sum_probs=19.4
Q ss_pred HHHHHHHHhhcCCChHHHHhhC
Q 020603 84 QMSILELHSKWGNRWSKIAQHL 105 (324)
Q Consensus 84 D~~Ll~lv~~~G~kWs~IA~~l 105 (324)
|.+|..+....|..|.++|..|
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L 25 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL 25 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc
Confidence 5677788899999999999988
No 153
>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=24.59 E-value=84 Score=24.89 Aligned_cols=29 Identities=31% Similarity=0.626 Sum_probs=22.0
Q ss_pred HHHHHHhhcCCChHHHHhhCCCCCHHHHHH
Q 020603 86 SILELHSKWGNRWSKIAQHLPGRTDNEIKN 115 (324)
Q Consensus 86 ~Ll~lv~~~G~kWs~IA~~lpgRT~~qckn 115 (324)
.|-.+....|.+|..+|+.| |=+..+|..
T Consensus 4 ~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 4 HLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 34555677899999999999 777766654
No 154
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=24.54 E-value=2.1e+02 Score=24.71 Aligned_cols=30 Identities=17% Similarity=0.092 Sum_probs=24.1
Q ss_pred hcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 93 KWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 93 ~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..|-...+||+.| |.+...|+++-...+++
T Consensus 143 ~~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 143 LEGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3456799999999 99999999988765554
No 155
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=24.36 E-value=2.1e+02 Score=23.61 Aligned_cols=29 Identities=21% Similarity=0.266 Sum_probs=21.1
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-...+||+.| |-+...|+.+-...+++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 345678888888 88888888876654443
No 156
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=24.16 E-value=1.9e+02 Score=25.41 Aligned_cols=33 Identities=21% Similarity=0.161 Sum_probs=24.4
Q ss_pred HHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 90 LHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 90 lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
|....|-...+||+.| |-+...|+.|-...+++
T Consensus 127 L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~ 159 (187)
T PRK12516 127 LVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQR 159 (187)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334566799999999 88899999887654443
No 157
>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=23.99 E-value=2.3e+02 Score=23.76 Aligned_cols=29 Identities=21% Similarity=0.261 Sum_probs=21.2
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||+.| |-+...|+.+-...+++
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~~ 165 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIKK 165 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 355678888888 88888888877654443
No 158
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=23.67 E-value=2.1e+02 Score=24.68 Aligned_cols=30 Identities=10% Similarity=0.334 Sum_probs=24.0
Q ss_pred hcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 93 KWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 93 ~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..|-.-.+||+.| |-+...|+.|....+++
T Consensus 136 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 165 (185)
T PRK12542 136 FYNLTYQEISSVM-GITEANVRKQFERARKR 165 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3456789999999 99999999987765554
No 159
>COG4628 Uncharacterized conserved protein [Function unknown]
Probab=23.56 E-value=1.1e+02 Score=26.22 Aligned_cols=44 Identities=20% Similarity=0.392 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCC-------CcCCCCCHHHHHHH
Q 020603 31 DTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPD-------VKRGNLTPQEQMSI 87 (324)
Q Consensus 31 D~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~-------ikkg~WT~EED~~L 87 (324)
+.+|.++|..|| |..++..++ ..|.. -+|. +++.+|-.|..+.|
T Consensus 21 E~llt~Lvd~YG---Wd~L~~ri~-----inCF~-----ndPSi~SSlKfLrkT~WARekvEa~ 71 (136)
T COG4628 21 ETLLTELVDFYG---WDGLATRIR-----INCFH-----NDPSIKSSLKFLRKTPWAREKVEAL 71 (136)
T ss_pred HHHHHHHHHHhC---hHHHHhhce-----ecccc-----CCccHHHHHHHHhcCHhHHHHHHHH
Confidence 567889999999 999998876 44542 1333 35677877765544
No 160
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=23.45 E-value=1.6e+02 Score=25.27 Aligned_cols=29 Identities=28% Similarity=0.412 Sum_probs=23.4
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||+.| |-+...|+.|....++.
T Consensus 134 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 162 (172)
T PRK09651 134 DGLTYSEIAHKL-GVSVSSVKKYVAKATEH 162 (172)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 455689999999 99999999998765554
No 161
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=23.45 E-value=2.2e+02 Score=24.53 Aligned_cols=29 Identities=24% Similarity=0.352 Sum_probs=21.7
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||+.| |-+...|+.+....+++
T Consensus 148 ~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 176 (182)
T PRK12537 148 DGCSHAEIAQRL-GAPLGTVKAWIKRSLKA 176 (182)
T ss_pred cCCCHHHHHHHH-CCChhhHHHHHHHHHHH
Confidence 445678888888 88888888887766554
No 162
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=23.29 E-value=1e+02 Score=26.28 Aligned_cols=29 Identities=17% Similarity=0.398 Sum_probs=22.6
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
+|-...+||+.| |-+...|+.+....+++
T Consensus 141 ~g~s~~eIA~~l-~is~~~V~~~l~ra~~~ 169 (176)
T PRK09638 141 YGYTYEEIAKML-NIPEGTVKSRVHHGIKQ 169 (176)
T ss_pred cCCCHHHHHHHH-CCChhHHHHHHHHHHHH
Confidence 456789999999 77888888887765554
No 163
>PRK00430 fis global DNA-binding transcriptional dual regulator Fis; Provisional
Probab=23.24 E-value=2e+02 Score=23.22 Aligned_cols=32 Identities=13% Similarity=0.038 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHH
Q 020603 82 QEQMSILELHSKWGNRWSKIAQHLPGRTDNEIK 114 (324)
Q Consensus 82 EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qck 114 (324)
-|...|.+++..++++..+.|+.| |=+...++
T Consensus 55 ~Er~~i~~aL~~~~gn~s~AAr~L-GIsRsTL~ 86 (95)
T PRK00430 55 VEAPLLDMVMQYTRGNQTRAALML-GINRGTLR 86 (95)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHh-CCCHHHHH
Confidence 477789999999999999999998 54554433
No 164
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=23.10 E-value=2.5e+02 Score=23.45 Aligned_cols=29 Identities=21% Similarity=0.281 Sum_probs=22.1
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.=.+||+.| |-+...|+.|....++.
T Consensus 120 ~~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 120 EGLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 345678999999 88889998887755444
No 165
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=23.07 E-value=2.2e+02 Score=25.12 Aligned_cols=31 Identities=13% Similarity=0.114 Sum_probs=24.4
Q ss_pred hhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 92 SKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 92 ~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
...|-...+||+.| |-+...|+.+-...+++
T Consensus 126 ~~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~ 156 (188)
T PRK12546 126 GASGFSYEEAAEMC-GVAVGTVKSRANRARAR 156 (188)
T ss_pred HhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34566789999999 88899999987765554
No 166
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=22.98 E-value=2.3e+02 Score=24.23 Aligned_cols=28 Identities=18% Similarity=0.348 Sum_probs=22.2
Q ss_pred CCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 95 GNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 95 G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
|-.-.+||+.| |.+...|+.+....+++
T Consensus 145 g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 172 (179)
T PRK12514 145 GLSYKELAERH-DVPLNTMRTWLRRSLLK 172 (179)
T ss_pred CCCHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence 55688999999 99999999887765444
No 167
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=22.84 E-value=2.6e+02 Score=24.01 Aligned_cols=28 Identities=25% Similarity=0.265 Sum_probs=21.6
Q ss_pred CCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 95 GNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 95 G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
|-.=.+||+.| |-+...|+.+....+++
T Consensus 151 ~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 151 GYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 44578899998 88889998887765554
No 168
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=22.75 E-value=1.7e+02 Score=21.18 Aligned_cols=35 Identities=17% Similarity=0.439 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHH
Q 020603 82 QEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYW 117 (324)
Q Consensus 82 EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW 117 (324)
++|+-.+.+..+.|-.=.+||+.+ ||+.+.|++.-
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 344555667778899999999999 99998888754
No 169
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=22.64 E-value=1.9e+02 Score=24.08 Aligned_cols=42 Identities=12% Similarity=0.133 Sum_probs=34.5
Q ss_pred HHHHHHHHHHhhcCC-ChHHHHhhCCCCCHHHHHHHHHHHHHHH
Q 020603 82 QEQMSILELHSKWGN-RWSKIAQHLPGRTDNEIKNYWRTRVQKQ 124 (324)
Q Consensus 82 EED~~Ll~lv~~~G~-kWs~IA~~lpgRT~~qcknRW~~~lkk~ 124 (324)
+-|.+|+++.++-+. .+..||+.+ |-+...|++|-+.+.+..
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~G 50 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEG 50 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCC
Confidence 457778888777764 599999999 999999999988876664
No 170
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=22.57 E-value=2.1e+02 Score=24.00 Aligned_cols=31 Identities=23% Similarity=0.313 Sum_probs=23.4
Q ss_pred hhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 92 SKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 92 ~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.-.|-...+||+.| |-+...|+.|....++.
T Consensus 126 ~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 126 QVDGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33566789999999 88888898887765443
No 171
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=22.51 E-value=2.5e+02 Score=25.96 Aligned_cols=44 Identities=20% Similarity=0.266 Sum_probs=35.2
Q ss_pred CCCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 77 GNLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 77 g~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
...|+.|-+.|.-+.+ |....+||+.| +-+...|+++-..+++|
T Consensus 132 ~~LSpRErEVLrLLAq--GkTnKEIAe~L-~IS~rTVkth~srImkK 175 (198)
T PRK15201 132 RHFSVTERHLLKLIAS--GYHLSETAALL-SLSEEQTKSLRRSIMRK 175 (198)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3588888877665554 78899999999 99999999987776655
No 172
>PRK00118 putative DNA-binding protein; Validated
Probab=22.46 E-value=2.7e+02 Score=23.02 Aligned_cols=41 Identities=12% Similarity=0.127 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHH
Q 020603 81 PQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQ 122 (324)
Q Consensus 81 ~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lk 122 (324)
++.+..++.+....|-...+||+.+ |-+...|+.+-....+
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArk 59 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEK 59 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3556667777777888999999999 9999999887664333
No 173
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=22.12 E-value=1.4e+02 Score=24.61 Aligned_cols=55 Identities=20% Similarity=0.216 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHhCCCChHHHHHHhCCCCCcccccceeeccccCCCcCCCCCHHHHHHH
Q 020603 30 EDTLLIQYISRHSEGRWNLLAKRSGLKRTGKSCRLRWLNYLKPDVKRGNLTPQEQMSI 87 (324)
Q Consensus 30 ED~~L~~lV~k~G~~~W~~IA~~l~~~Rt~~QCr~Rw~n~L~p~ikkg~WT~EED~~L 87 (324)
+.+.|..+|+.++...=.+||+.++. ..+...++...|.-..++..|..++|..-
T Consensus 58 d~~~L~~~v~~~pd~tl~Ela~~l~V---s~~ti~~~Lkrlg~t~KK~~~~~~~~~~~ 112 (119)
T PF01710_consen 58 DRDELKALVEENPDATLRELAERLGV---SPSTIWRALKRLGITRKKKTLHSEKDREK 112 (119)
T ss_pred cHHHHHHHHHHCCCcCHHHHHHHcCC---CHHHHHHHHHHcCchhccCcccchhHHHH
Confidence 55679999999998777899999983 45555666777777778888877655543
No 174
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=21.53 E-value=2.5e+02 Score=24.47 Aligned_cols=28 Identities=32% Similarity=0.440 Sum_probs=21.4
Q ss_pred CCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 95 GNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 95 G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
|-.=.+||+.| |.+...|++|-...+++
T Consensus 147 g~s~~EIAe~l-gis~~~V~~~l~Ra~~~ 174 (189)
T PRK06811 147 GEKIEEIAKKL-GLTRSAIDNRLSRGRKK 174 (189)
T ss_pred cCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 45578899998 88999999887664444
No 175
>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=21.48 E-value=95 Score=24.59 Aligned_cols=25 Identities=16% Similarity=0.248 Sum_probs=20.4
Q ss_pred HHHHHHHHHHhCCCChHHHHHHhCCC
Q 020603 31 DTLLIQYISRHSEGRWNLLAKRSGLK 56 (324)
Q Consensus 31 D~~L~~lV~k~G~~~W~~IA~~l~~~ 56 (324)
|.+|..+....|. +|..+|..|++.
T Consensus 4 d~~l~~ia~~LG~-dW~~LA~eLg~s 28 (84)
T cd08803 4 DIRMAIVADHLGL-SWTELARELNFS 28 (84)
T ss_pred HHHHHHHHHHhhc-cHHHHHHHcCCC
Confidence 5667777778887 999999999954
No 176
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=21.46 E-value=60 Score=24.87 Aligned_cols=25 Identities=12% Similarity=0.345 Sum_probs=17.8
Q ss_pred CCHHHH-HHHHHHHhhcCCChHHHHh
Q 020603 79 LTPQEQ-MSILELHSKWGNRWSKIAQ 103 (324)
Q Consensus 79 WT~EED-~~Ll~lv~~~G~kWs~IA~ 103 (324)
+.++.- ..|.+|.+.||++|..|-.
T Consensus 23 ~~~~~v~~vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 23 FSKKQVRPVLKNLLKLYDGNWELIEE 48 (65)
T ss_pred CCHHHHHHHHHHHHHHHcCCchhhhc
Confidence 444443 3577888899999999964
No 177
>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=21.45 E-value=90 Score=24.71 Aligned_cols=28 Identities=29% Similarity=0.388 Sum_probs=22.2
Q ss_pred HHHHHHHHHHhCCCChHHHHHHhCCCCCc
Q 020603 31 DTLLIQYISRHSEGRWNLLAKRSGLKRTG 59 (324)
Q Consensus 31 D~~L~~lV~k~G~~~W~~IA~~l~~~Rt~ 59 (324)
|+.|..+....|. .|..+|.++++.-..
T Consensus 2 ~~~L~~la~~LG~-~W~~Lar~Lgls~~~ 29 (83)
T cd08319 2 DRELNQLAQRLGP-EWEQVLLDLGLSQTD 29 (83)
T ss_pred HHHHHHHHHHHhh-hHHHHHHHcCCCHHH
Confidence 5667888888996 999999999964433
No 178
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=21.30 E-value=3.9e+02 Score=25.22 Aligned_cols=29 Identities=21% Similarity=0.373 Sum_probs=23.7
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
+|-.-.+||+.| |.+...||.+.....++
T Consensus 130 ~g~s~~EIA~~l-g~s~~tVk~~l~RAr~~ 158 (293)
T PRK09636 130 FGVPFDEIASTL-GRSPAACRQLASRARKH 158 (293)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 455689999999 99999999998765544
No 179
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=21.00 E-value=2.4e+02 Score=25.71 Aligned_cols=43 Identities=26% Similarity=0.241 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHHHhhcCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 78 NLTPQEQMSILELHSKWGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 78 ~WT~EED~~Ll~lv~~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
..|+.|-+.|.-+.. |..-.+||+.| +-+...|+.+-..++++
T Consensus 155 ~Lt~rE~~Vl~l~~~--G~s~~eIA~~L-~iS~~TVk~~~~~i~~K 197 (216)
T PRK10100 155 LLTHREKEILNKLRI--GASNNEIARSL-FISENTVKTHLYNLFKK 197 (216)
T ss_pred CCCHHHHHHHHHHHc--CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 478777666655554 88899999999 89999999998877665
No 180
>PRK15328 invasion protein IagB; Provisional
Probab=20.99 E-value=1.4e+02 Score=26.46 Aligned_cols=43 Identities=12% Similarity=0.364 Sum_probs=31.7
Q ss_pred HHHHHHhhcCCChHHHHhhC--CCCCHHHHHHHHHHHHHHHHHhc
Q 020603 86 SILELHSKWGNRWSKIAQHL--PGRTDNEIKNYWRTRVQKQARHL 128 (324)
Q Consensus 86 ~Ll~lv~~~G~kWs~IA~~l--pgRT~~qcknRW~~~lkk~~r~~ 128 (324)
.|.+++.+||+.|..|+.+= +++.....+.+|...+.+..++.
T Consensus 98 ~L~~~~~~~g~~~~alaaYNaG~~~~~~~~~~~Y~~kV~~~y~~l 142 (160)
T PRK15328 98 ILSDMMKIYGYSWEAVGAYNAGTSPKRSDIRKRYAKKIWENYRKL 142 (160)
T ss_pred HHHHHHHHcCChHHhhhhccCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 56788899999999999865 34555566778877776665554
No 181
>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=20.88 E-value=81 Score=26.14 Aligned_cols=28 Identities=14% Similarity=0.120 Sum_probs=22.7
Q ss_pred CCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 95 GNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 95 G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
|-.+.+||+.| |-+...|+++.....++
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKE 148 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34699999999 89999999998765544
No 182
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=20.51 E-value=2.7e+02 Score=23.70 Aligned_cols=29 Identities=14% Similarity=0.476 Sum_probs=22.1
Q ss_pred cCCChHHHHhhCCCCCHHHHHHHHHHHHHH
Q 020603 94 WGNRWSKIAQHLPGRTDNEIKNYWRTRVQK 123 (324)
Q Consensus 94 ~G~kWs~IA~~lpgRT~~qcknRW~~~lkk 123 (324)
.|-.-.+||..| |-+...|+.+....+++
T Consensus 155 ~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 155 EGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 456688888888 88888888887765544
No 183
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=20.43 E-value=4.2e+02 Score=24.94 Aligned_cols=31 Identities=10% Similarity=0.246 Sum_probs=24.7
Q ss_pred hcCCChHHHHhhCCCCCHHHHHHHHHHHHHHH
Q 020603 93 KWGNRWSKIAQHLPGRTDNEIKNYWRTRVQKQ 124 (324)
Q Consensus 93 ~~G~kWs~IA~~lpgRT~~qcknRW~~~lkk~ 124 (324)
.+|-.-.+||+.| |.+...||.+.....++.
T Consensus 122 ~~g~s~~EIA~~l-g~s~~tVr~~l~RAr~~L 152 (281)
T TIGR02957 122 VFDYPYEEIASIV-GKSEANCRQLVSRARRHL 152 (281)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3556789999999 899999999987655543
Done!