Query 017566
Match_columns 369
No_of_seqs 267 out of 1480
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 09:43:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017566.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017566hhsearch_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 3.1E-33 6.8E-38 264.6 11.0 108 57-164 7-115 (238)
2 PLN03212 Transcription repress 100.0 5.1E-32 1.1E-36 253.8 14.5 111 55-165 21-132 (249)
3 PLN03091 hypothetical protein; 100.0 3E-30 6.5E-35 257.6 17.3 112 54-165 9-121 (459)
4 KOG0049 Transcription factor, 99.8 2.2E-20 4.8E-25 192.4 7.3 118 37-154 338-459 (939)
5 KOG0049 Transcription factor, 99.7 6E-18 1.3E-22 174.6 8.5 134 28-161 221-411 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 2.9E-16 6.3E-21 117.7 5.0 60 62-122 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.6 3.8E-15 8.2E-20 153.6 7.5 109 53-161 14-122 (512)
8 KOG0050 mRNA splicing protein 99.5 2.4E-15 5.3E-20 152.5 4.2 101 58-159 6-106 (617)
9 PF00249 Myb_DNA-binding: Myb- 99.4 2.7E-13 5.9E-18 97.7 5.2 46 111-156 1-48 (48)
10 PF00249 Myb_DNA-binding: Myb- 99.4 8.4E-14 1.8E-18 100.3 2.2 47 59-105 1-48 (48)
11 KOG0051 RNA polymerase I termi 99.4 4.2E-13 9.1E-18 139.9 7.3 106 58-165 383-516 (607)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.2 9.1E-12 2E-16 93.3 4.5 45 114-158 1-45 (60)
13 PLN03212 Transcription repress 99.2 2.8E-12 6.1E-17 121.1 1.0 73 39-112 58-130 (249)
14 smart00717 SANT SANT SWI3, AD 99.2 2.6E-11 5.7E-16 85.1 5.7 47 111-157 1-48 (49)
15 PLN03091 hypothetical protein; 99.2 3.8E-12 8.2E-17 128.4 1.6 95 7-107 20-114 (459)
16 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 2E-10 4.4E-15 79.4 5.7 44 113-156 1-45 (45)
17 smart00717 SANT SANT SWI3, AD 99.1 8.1E-11 1.7E-15 82.6 3.6 48 59-106 1-48 (49)
18 KOG0051 RNA polymerase I termi 99.1 2.5E-10 5.4E-15 119.4 7.1 104 55-159 304-431 (607)
19 KOG0048 Transcription factor, 99.0 2.4E-10 5.1E-15 108.6 4.3 92 8-105 16-107 (238)
20 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 4.8E-10 1E-14 77.5 3.3 44 61-104 1-44 (45)
21 COG5147 REB1 Myb superfamily p 98.2 4.6E-07 9.9E-12 94.3 2.5 112 44-157 57-168 (512)
22 TIGR01557 myb_SHAQKYF myb-like 98.2 4.7E-06 1E-10 62.6 5.8 49 110-158 2-56 (57)
23 KOG0457 Histone acetyltransfer 97.8 2E-05 4.2E-10 80.0 4.5 53 54-106 67-119 (438)
24 KOG0050 mRNA splicing protein 97.8 9.8E-07 2.1E-11 90.7 -5.5 92 6-105 12-103 (617)
25 TIGR01557 myb_SHAQKYF myb-like 97.6 4.4E-05 9.5E-10 57.4 3.2 47 59-105 3-54 (57)
26 TIGR02894 DNA_bind_RsfA transc 97.6 8.7E-05 1.9E-09 66.5 5.0 53 110-163 3-62 (161)
27 PF13325 MCRS_N: N-terminal re 97.5 0.00028 6.1E-09 65.6 7.5 99 61-161 1-131 (199)
28 KOG0457 Histone acetyltransfer 97.5 0.00022 4.7E-09 72.6 6.3 52 108-159 69-121 (438)
29 PF08914 Myb_DNA-bind_2: Rap1 97.3 0.00039 8.4E-09 53.6 4.3 50 111-160 2-61 (65)
30 COG5259 RSC8 RSC chromatin rem 97.2 0.00036 7.9E-09 71.5 4.2 45 111-155 279-323 (531)
31 COG5259 RSC8 RSC chromatin rem 97.0 0.00042 9.1E-09 71.1 2.8 46 58-104 278-323 (531)
32 PF13837 Myb_DNA-bind_4: Myb/S 97.0 0.0007 1.5E-08 54.0 3.4 48 111-158 1-66 (90)
33 KOG1279 Chromatin remodeling f 97.0 0.00095 2.1E-08 70.0 5.2 45 110-154 252-296 (506)
34 PRK13923 putative spore coat p 96.7 0.002 4.3E-08 58.6 4.3 52 110-162 4-62 (170)
35 KOG1279 Chromatin remodeling f 96.7 0.0012 2.5E-08 69.3 3.0 48 55-103 249-296 (506)
36 PF08914 Myb_DNA-bind_2: Rap1 96.2 0.0032 7E-08 48.6 2.2 49 60-108 3-60 (65)
37 TIGR02894 DNA_bind_RsfA transc 95.9 0.0047 1E-07 55.5 2.2 48 58-106 3-56 (161)
38 PF13837 Myb_DNA-bind_4: Myb/S 95.7 0.0032 6.9E-08 50.1 0.4 45 60-104 2-63 (90)
39 PLN03142 Probable chromatin-re 95.6 0.04 8.6E-07 62.7 8.6 99 61-159 826-987 (1033)
40 COG5114 Histone acetyltransfer 95.4 0.019 4E-07 56.8 4.5 47 111-157 63-110 (432)
41 PF13873 Myb_DNA-bind_5: Myb/S 95.4 0.036 7.8E-07 43.3 5.3 48 111-158 2-71 (78)
42 COG5114 Histone acetyltransfer 95.2 0.014 2.9E-07 57.8 3.0 48 59-106 63-110 (432)
43 PF13873 Myb_DNA-bind_5: Myb/S 94.9 0.025 5.4E-07 44.2 3.2 47 59-105 2-69 (78)
44 PRK13923 putative spore coat p 93.9 0.025 5.5E-07 51.5 1.2 47 58-105 4-56 (170)
45 PF09111 SLIDE: SLIDE; InterP 93.1 0.17 3.7E-06 43.5 4.9 51 108-158 46-112 (118)
46 COG5118 BDP1 Transcription ini 92.6 0.19 4E-06 51.0 5.1 48 112-159 366-413 (507)
47 KOG4282 Transcription factor G 91.7 0.24 5.2E-06 49.5 4.8 49 111-159 54-116 (345)
48 PF12776 Myb_DNA-bind_3: Myb/S 91.4 0.51 1.1E-05 37.8 5.6 51 113-164 1-69 (96)
49 KOG2656 DNA methyltransferase 91.4 0.17 3.7E-06 51.4 3.3 79 81-159 75-184 (445)
50 PF08281 Sigma70_r4_2: Sigma-7 90.7 0.71 1.5E-05 33.2 5.3 41 116-157 12-52 (54)
51 KOG1194 Predicted DNA-binding 90.1 1 2.2E-05 46.7 7.6 49 111-159 187-235 (534)
52 COG5118 BDP1 Transcription ini 90.1 0.29 6.4E-06 49.6 3.6 62 59-121 365-434 (507)
53 PF11626 Rap1_C: TRF2-interact 86.8 0.84 1.8E-05 36.9 3.7 31 55-88 43-81 (87)
54 KOG4167 Predicted DNA-binding 86.4 0.47 1E-05 51.7 2.6 42 60-102 620-661 (907)
55 PF09111 SLIDE: SLIDE; InterP 83.3 1.5 3.2E-05 37.7 3.8 34 56-89 46-82 (118)
56 PF13404 HTH_AsnC-type: AsnC-t 82.4 3 6.6E-05 29.2 4.4 38 117-155 3-41 (42)
57 KOG1194 Predicted DNA-binding 79.1 7.8 0.00017 40.5 7.8 51 113-163 371-421 (534)
58 PF04545 Sigma70_r4: Sigma-70, 77.9 6.1 0.00013 27.9 4.9 41 117-158 7-47 (50)
59 PF12776 Myb_DNA-bind_3: Myb/S 75.0 2.4 5.3E-05 33.8 2.4 42 61-102 1-59 (96)
60 KOG4282 Transcription factor G 74.6 1.9 4.2E-05 43.0 2.1 47 59-105 54-113 (345)
61 KOG4329 DNA-binding protein [G 74.3 18 0.0004 37.0 8.8 45 111-155 277-322 (445)
62 PRK11179 DNA-binding transcrip 73.6 7.2 0.00016 34.3 5.3 45 116-161 8-53 (153)
63 KOG4468 Polycomb-group transcr 72.5 5.5 0.00012 42.9 4.9 48 111-158 88-145 (782)
64 KOG4167 Predicted DNA-binding 71.1 7.1 0.00015 43.0 5.4 46 111-156 619-664 (907)
65 TIGR02985 Sig70_bacteroi1 RNA 69.9 11 0.00024 32.0 5.5 40 118-158 117-156 (161)
66 PRK11169 leucine-responsive tr 67.8 9.2 0.0002 34.1 4.7 45 116-161 13-58 (164)
67 KOG1878 Nuclear receptor coreg 66.9 2.4 5.3E-05 49.5 1.0 103 58-163 224-406 (1672)
68 PF13404 HTH_AsnC-type: AsnC-t 64.3 5.2 0.00011 28.0 1.9 38 65-103 3-40 (42)
69 PF01388 ARID: ARID/BRIGHT DNA 62.6 17 0.00036 29.0 4.8 39 119-157 38-89 (92)
70 smart00595 MADF subfamily of S 61.5 12 0.00026 29.4 3.8 25 133-158 30-54 (89)
71 PF11035 SnAPC_2_like: Small n 59.1 34 0.00073 34.4 7.1 48 111-158 21-72 (344)
72 cd08319 Death_RAIDD Death doma 58.7 14 0.0003 29.8 3.7 29 119-148 2-30 (83)
73 PF13325 MCRS_N: N-terminal re 58.7 20 0.00044 33.6 5.3 49 113-162 1-52 (199)
74 PF07750 GcrA: GcrA cell cycle 58.4 12 0.00025 33.9 3.6 41 113-154 2-42 (162)
75 PF11035 SnAPC_2_like: Small n 58.3 44 0.00095 33.6 7.8 85 60-157 22-127 (344)
76 KOG2009 Transcription initiati 58.0 11 0.00025 40.5 3.9 50 110-159 408-457 (584)
77 KOG2656 DNA methyltransferase 57.5 4.3 9.4E-05 41.6 0.7 80 60-151 131-227 (445)
78 TIGR02937 sigma70-ECF RNA poly 57.3 24 0.00052 29.0 5.1 39 119-158 115-153 (158)
79 smart00501 BRIGHT BRIGHT, ARID 54.9 29 0.00062 27.9 5.0 39 120-158 35-86 (93)
80 PRK11179 DNA-binding transcrip 54.8 8.5 0.00019 33.9 2.1 44 65-109 9-52 (153)
81 smart00344 HTH_ASNC helix_turn 54.4 27 0.00058 28.3 4.9 45 117-162 3-48 (108)
82 KOG4329 DNA-binding protein [G 54.1 9.3 0.0002 39.0 2.4 41 61-102 279-320 (445)
83 PF11626 Rap1_C: TRF2-interact 54.0 6.1 0.00013 31.8 0.9 17 107-123 43-59 (87)
84 PRK09652 RNA polymerase sigma 53.9 29 0.00062 30.1 5.3 37 121-158 135-171 (182)
85 KOG4468 Polycomb-group transcr 53.6 16 0.00034 39.6 4.0 47 59-106 88-144 (782)
86 KOG3841 TEF-1 and related tran 51.7 30 0.00065 35.6 5.5 60 109-168 74-154 (455)
87 cd06171 Sigma70_r4 Sigma70, re 51.2 49 0.0011 22.1 5.2 37 118-155 14-50 (55)
88 cd08803 Death_ank3 Death domai 49.6 27 0.00058 28.2 4.0 30 119-149 4-33 (84)
89 PRK11169 leucine-responsive tr 48.2 8.6 0.00019 34.3 1.0 45 64-109 13-57 (164)
90 PRK09643 RNA polymerase sigma 47.9 63 0.0014 29.1 6.7 38 119-157 139-176 (192)
91 PRK11924 RNA polymerase sigma 47.6 40 0.00086 29.1 5.2 35 123-158 134-168 (179)
92 PF10545 MADF_DNA_bdg: Alcohol 46.2 28 0.0006 26.5 3.5 27 132-158 28-55 (85)
93 PRK09641 RNA polymerase sigma 44.1 48 0.001 29.1 5.2 36 122-158 144-179 (187)
94 cd08317 Death_ank Death domain 44.1 27 0.00057 27.7 3.2 29 119-148 4-32 (84)
95 PF07638 Sigma70_ECF: ECF sigm 44.0 50 0.0011 29.8 5.4 38 118-156 139-176 (185)
96 PF04504 DUF573: Protein of un 43.7 43 0.00094 27.7 4.5 47 112-158 5-64 (98)
97 PRK09047 RNA polymerase factor 43.5 58 0.0013 27.8 5.5 37 121-158 113-149 (161)
98 TIGR02954 Sig70_famx3 RNA poly 43.5 51 0.0011 28.7 5.2 37 121-158 126-162 (169)
99 PRK04217 hypothetical protein; 43.3 61 0.0013 27.6 5.4 44 113-158 42-85 (110)
100 TIGR02939 RpoE_Sigma70 RNA pol 42.8 42 0.0009 29.6 4.6 33 125-158 149-181 (190)
101 PRK12523 RNA polymerase sigma 42.6 59 0.0013 28.5 5.5 41 118-159 123-163 (172)
102 cd08318 Death_NMPP84 Death dom 42.5 35 0.00075 27.4 3.6 26 122-148 10-35 (86)
103 COG1522 Lrp Transcriptional re 42.3 51 0.0011 28.3 5.0 45 116-161 7-52 (154)
104 TIGR02943 Sig70_famx1 RNA poly 41.7 60 0.0013 29.1 5.5 38 120-158 137-174 (188)
105 KOG2009 Transcription initiati 41.7 13 0.00027 40.2 1.2 48 54-102 404-451 (584)
106 PRK09645 RNA polymerase sigma 40.8 64 0.0014 28.1 5.4 37 121-158 125-161 (173)
107 PRK09637 RNA polymerase sigma 40.1 62 0.0013 28.9 5.3 37 121-158 113-149 (181)
108 PRK12530 RNA polymerase sigma 39.9 64 0.0014 28.9 5.4 36 121-157 141-176 (189)
109 PRK09642 RNA polymerase sigma 39.8 70 0.0015 27.5 5.5 39 119-158 111-149 (160)
110 PRK12529 RNA polymerase sigma 39.8 69 0.0015 28.4 5.5 38 121-159 134-171 (178)
111 PLN03162 golden-2 like transcr 39.7 95 0.0021 32.0 6.9 39 51-89 229-269 (526)
112 PRK11923 algU RNA polymerase s 39.4 60 0.0013 28.9 5.1 35 123-158 147-181 (193)
113 PRK12515 RNA polymerase sigma 39.2 69 0.0015 28.5 5.5 35 123-158 140-174 (189)
114 PRK12531 RNA polymerase sigma 39.2 69 0.0015 28.8 5.5 36 122-158 149-184 (194)
115 PF09905 DUF2132: Uncharacteri 39.0 40 0.00087 26.0 3.2 44 67-122 12-62 (64)
116 KOG3554 Histone deacetylase co 39.0 95 0.0021 33.0 6.9 61 83-153 267-328 (693)
117 TIGR02948 SigW_bacill RNA poly 38.8 60 0.0013 28.5 5.0 29 128-157 150-178 (187)
118 PRK09648 RNA polymerase sigma 38.8 71 0.0015 28.4 5.5 36 122-158 147-182 (189)
119 cd08311 Death_p75NR Death doma 38.4 36 0.00077 27.0 3.0 33 116-150 2-34 (77)
120 PRK12512 RNA polymerase sigma 38.2 73 0.0016 28.1 5.5 37 121-158 138-174 (184)
121 cd08777 Death_RIP1 Death Domai 38.1 39 0.00084 27.3 3.3 30 120-150 3-32 (86)
122 PF09197 Rap1-DNA-bind: Rap1, 37.5 26 0.00056 29.7 2.2 17 61-77 1-17 (105)
123 PF09420 Nop16: Ribosome bioge 36.5 68 0.0015 28.8 5.0 46 111-156 114-163 (164)
124 cd08804 Death_ank2 Death domai 36.3 48 0.001 26.5 3.5 31 119-150 4-34 (84)
125 PRK06759 RNA polymerase factor 36.1 88 0.0019 26.5 5.5 32 125-157 117-148 (154)
126 KOG0385 Chromatin remodeling c 36.1 37 0.0008 38.1 3.6 29 110-138 894-926 (971)
127 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 36.0 74 0.0016 23.3 4.1 33 118-151 8-40 (50)
128 PRK12524 RNA polymerase sigma 35.8 81 0.0018 28.3 5.4 36 122-158 144-179 (196)
129 TIGR02952 Sig70_famx2 RNA poly 35.5 86 0.0019 26.9 5.4 33 124-157 132-164 (170)
130 PF04504 DUF573: Protein of un 35.2 1.1E+02 0.0024 25.2 5.6 69 59-128 4-94 (98)
131 PRK12516 RNA polymerase sigma 33.9 91 0.002 28.0 5.4 39 119-158 121-159 (187)
132 PRK00118 putative DNA-binding 33.8 1.1E+02 0.0023 25.8 5.4 41 116-157 19-59 (104)
133 smart00005 DEATH DEATH domain, 33.7 54 0.0012 25.5 3.4 29 119-148 5-34 (88)
134 PRK09649 RNA polymerase sigma 33.6 88 0.0019 27.9 5.2 36 122-158 138-173 (185)
135 PRK12528 RNA polymerase sigma 33.2 1.1E+02 0.0023 26.4 5.5 39 119-158 118-156 (161)
136 PRK12547 RNA polymerase sigma 33.1 1E+02 0.0023 26.7 5.5 38 120-158 118-155 (164)
137 TIGR02999 Sig-70_X6 RNA polyme 32.6 1E+02 0.0023 26.9 5.5 35 122-157 142-176 (183)
138 PRK12536 RNA polymerase sigma 32.5 1E+02 0.0022 27.2 5.4 35 122-157 137-171 (181)
139 PRK12532 RNA polymerase sigma 32.4 94 0.002 27.8 5.2 37 120-157 142-178 (195)
140 KOG0384 Chromodomain-helicase 32.4 60 0.0013 38.2 4.7 70 60-137 1134-1206(1373)
141 PRK12542 RNA polymerase sigma 32.1 1E+02 0.0022 27.3 5.4 35 122-157 130-164 (185)
142 cd08779 Death_PIDD Death Domai 31.9 56 0.0012 26.2 3.3 26 120-146 3-28 (86)
143 PRK09651 RNA polymerase sigma 31.0 92 0.002 27.3 4.9 36 122-158 127-162 (172)
144 PF02954 HTH_8: Bacterial regu 31.0 90 0.0019 21.4 3.8 34 118-152 6-39 (42)
145 PRK12514 RNA polymerase sigma 30.9 1.1E+02 0.0024 26.8 5.4 29 128-157 143-171 (179)
146 PRK12527 RNA polymerase sigma 30.7 1.2E+02 0.0027 25.9 5.6 39 119-158 110-148 (159)
147 cd08805 Death_ank1 Death domai 30.1 67 0.0014 25.9 3.4 26 119-145 4-29 (84)
148 TIGR02984 Sig-70_plancto1 RNA 30.1 1.2E+02 0.0025 26.6 5.4 37 121-158 147-183 (189)
149 PF13936 HTH_38: Helix-turn-he 30.0 63 0.0014 22.5 2.9 36 113-150 4-39 (44)
150 PF15349 DCA16: DDB1- and CUL4 29.9 18 0.0004 32.5 0.2 14 293-306 167-180 (216)
151 TIGR02950 SigM_subfam RNA poly 29.7 44 0.00095 28.4 2.5 29 129-158 120-148 (154)
152 PRK05602 RNA polymerase sigma 29.5 1.1E+02 0.0024 27.0 5.2 35 122-157 136-170 (186)
153 PLN03162 golden-2 like transcr 29.2 1.4E+02 0.0031 30.7 6.3 48 111-158 237-289 (526)
154 PRK12546 RNA polymerase sigma 29.1 1.1E+02 0.0024 27.6 5.1 38 120-158 119-156 (188)
155 PRK13919 putative RNA polymera 28.7 1.3E+02 0.0028 26.5 5.4 31 127-158 148-178 (186)
156 TIGR02983 SigE-fam_strep RNA p 28.5 1.3E+02 0.0027 25.9 5.2 40 118-158 114-153 (162)
157 PRK12545 RNA polymerase sigma 28.2 1.3E+02 0.0028 27.3 5.4 31 126-157 151-181 (201)
158 TIGR02960 SigX5 RNA polymerase 27.8 1.1E+02 0.0023 29.7 5.2 31 126-157 154-184 (324)
159 PLN03142 Probable chromatin-re 27.5 1E+02 0.0023 35.8 5.6 43 112-154 825-868 (1033)
160 COG1522 Lrp Transcriptional re 26.8 38 0.00083 29.1 1.6 43 65-108 8-50 (154)
161 PRK11922 RNA polymerase sigma 26.4 76 0.0017 29.5 3.7 29 129-158 164-192 (231)
162 PRK09646 RNA polymerase sigma 26.2 1.5E+02 0.0032 26.5 5.5 30 127-157 155-184 (194)
163 PF05263 DUF722: Protein of un 26.1 69 0.0015 28.1 3.0 32 117-149 84-117 (130)
164 cd08306 Death_FADD Fas-associa 26.0 95 0.0021 24.8 3.7 28 121-149 4-31 (86)
165 PRK10100 DNA-binding transcrip 26.0 1.3E+02 0.0027 28.1 5.0 46 113-161 155-200 (216)
166 PRK12520 RNA polymerase sigma 25.7 1.6E+02 0.0034 26.2 5.5 35 123-158 140-174 (191)
167 COG2963 Transposase and inacti 25.4 2E+02 0.0043 23.7 5.7 44 111-155 5-49 (116)
168 PF10440 WIYLD: Ubiquitin-bind 25.3 49 0.0011 25.7 1.8 25 114-138 23-48 (65)
169 smart00344 HTH_ASNC helix_turn 24.8 55 0.0012 26.5 2.1 43 65-108 3-45 (108)
170 PRK06811 RNA polymerase factor 24.2 1.7E+02 0.0038 26.0 5.5 35 123-158 140-174 (189)
171 PRK06986 fliA flagellar biosyn 24.0 1.5E+02 0.0033 27.5 5.2 38 120-158 190-227 (236)
172 PRK12537 RNA polymerase sigma 23.7 1.7E+02 0.0038 25.7 5.4 35 123-158 142-176 (182)
173 PRK12519 RNA polymerase sigma 23.3 1.5E+02 0.0031 26.4 4.8 34 124-158 151-184 (194)
174 smart00141 PDGF Platelet-deriv 23.3 38 0.00083 27.3 0.9 11 296-307 31-41 (83)
175 PRK09638 RNA polymerase sigma 23.2 80 0.0017 27.5 3.0 31 127-158 139-169 (176)
176 PRK09415 RNA polymerase factor 23.0 1.7E+02 0.0036 25.9 5.1 32 126-158 139-170 (179)
177 cd01670 Death Death Domain: a 22.8 94 0.002 23.5 3.0 26 122-148 2-27 (79)
178 PRK09636 RNA polymerase sigma 22.8 1.7E+02 0.0037 28.2 5.5 30 126-156 127-156 (293)
179 PRK12538 RNA polymerase sigma 22.6 1.5E+02 0.0032 27.9 4.9 30 128-158 185-214 (233)
180 PRK09639 RNA polymerase sigma 22.3 2E+02 0.0043 24.6 5.3 37 120-158 118-154 (166)
181 PF00341 PDGF: PDGF/VEGF domai 22.2 24 0.00051 28.1 -0.6 11 296-307 29-39 (82)
182 PHA02661 vascular endothelial 22.2 40 0.00086 30.2 0.8 11 296-307 76-86 (146)
183 PF07750 GcrA: GcrA cell cycle 22.1 1E+02 0.0022 27.8 3.5 37 61-99 2-38 (162)
184 PRK12526 RNA polymerase sigma 22.1 2E+02 0.0043 26.1 5.5 30 128-158 167-196 (206)
185 PRK08241 RNA polymerase factor 21.9 1.5E+02 0.0032 29.1 4.9 31 126-157 165-195 (339)
186 PRK01905 DNA-binding protein F 21.9 2.2E+02 0.0047 22.2 4.9 35 116-151 36-70 (77)
187 PRK06930 positive control sigm 21.8 2E+02 0.0044 25.9 5.4 39 119-158 119-157 (170)
188 PF02260 FATC: FATC domain; I 21.6 79 0.0017 21.0 2.0 19 333-351 10-28 (33)
189 COG4628 Uncharacterized conser 21.5 88 0.0019 27.1 2.7 44 67-122 21-71 (136)
190 PF09420 Nop16: Ribosome bioge 21.3 88 0.0019 28.0 2.9 45 57-102 112-160 (164)
191 PRK09647 RNA polymerase sigma 21.1 2.1E+02 0.0046 26.1 5.5 30 128-158 152-181 (203)
192 TIGR02957 SigX4 RNA polymerase 21.0 1.9E+02 0.0042 27.7 5.4 32 125-157 119-150 (281)
193 TIGR02980 SigBFG RNA polymeras 20.8 2.1E+02 0.0045 26.3 5.4 36 122-158 186-221 (227)
194 PRK12544 RNA polymerase sigma 20.7 2.2E+02 0.0048 26.0 5.5 32 126-158 160-191 (206)
195 PF01466 Skp1: Skp1 family, di 20.5 71 0.0015 25.0 1.9 36 82-124 36-71 (78)
196 PRK12541 RNA polymerase sigma 20.4 2.1E+02 0.0046 24.5 5.1 30 127-157 125-154 (161)
197 PRK12540 RNA polymerase sigma 20.4 2.2E+02 0.0048 25.4 5.3 35 122-157 119-153 (182)
198 PRK07670 RNA polymerase sigma 20.2 2.1E+02 0.0045 26.9 5.4 39 119-158 206-244 (251)
No 1
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=3.1e-33 Score=264.58 Aligned_cols=108 Identities=44% Similarity=0.881 Sum_probs=104.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhcc-CCCccccccccccccCccccCCCCChHHHHHHHHHHHHhCCcHHH
Q 017566 57 RVKGPWSPEQDAVLSELVSKFGARNWSLIARGIA-GRSGKSCRLRWCNQLDPAVKRKPFTDEEDQIIVAAHAVHGNKWAV 135 (369)
Q Consensus 57 ~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lp-gRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~Ll~lv~~~G~~W~~ 135 (369)
.+||+||+|||.+|+++|++||+++|..||+.++ +|++++||+||.|||+|+++++.||+|||++|++||.+||++|+.
T Consensus 7 ~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrWs~ 86 (238)
T KOG0048|consen 7 LVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRWSL 86 (238)
T ss_pred ccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHHHH
Confidence 4579999999999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred HHhhCCCCCHHHHHHHHHHHHHhhhhhhh
Q 017566 136 ISRLLPGRTDNAIKNHWNSTLRRRGVELR 164 (369)
Q Consensus 136 IA~~l~gRT~~qck~Rw~~~l~rk~~~~~ 164 (369)
||++|||||+++|||+|+..++||+...+
T Consensus 87 IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 87 IAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999987765
No 2
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.98 E-value=5.1e-32 Score=253.78 Aligned_cols=111 Identities=41% Similarity=0.801 Sum_probs=105.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhc-cCCCccccccccccccCccccCCCCChHHHHHHHHHHHHhCCcH
Q 017566 55 RSRVKGPWSPEQDAVLSELVSKFGARNWSLIARGI-AGRSGKSCRLRWCNQLDPAVKRKPFTDEEDQIIVAAHAVHGNKW 133 (369)
Q Consensus 55 ~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~l-pgRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~Ll~lv~~~G~~W 133 (369)
...++++||+|||++|+++|++||..+|..||+.+ ++|+++|||+||.++|+|.+++++||+|||++|+++|.+||++|
T Consensus 21 ~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~GnKW 100 (249)
T PLN03212 21 MGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLGNRW 100 (249)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhccccH
Confidence 56778999999999999999999988999999988 59999999999999999999999999999999999999999999
Q ss_pred HHHHhhCCCCCHHHHHHHHHHHHHhhhhhhhh
Q 017566 134 AVISRLLPGRTDNAIKNHWNSTLRRRGVELRR 165 (369)
Q Consensus 134 ~~IA~~l~gRT~~qck~Rw~~~l~rk~~~~~~ 165 (369)
+.||++|+|||+++|||||+.++++++...+.
T Consensus 101 s~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i 132 (249)
T PLN03212 101 SLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGI 132 (249)
T ss_pred HHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCC
Confidence 99999999999999999999999998766544
No 3
>PLN03091 hypothetical protein; Provisional
Probab=99.97 E-value=3e-30 Score=257.59 Aligned_cols=112 Identities=45% Similarity=0.827 Sum_probs=105.6
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhcc-CCCccccccccccccCccccCCCCChHHHHHHHHHHHHhCCc
Q 017566 54 GRSRVKGPWSPEQDAVLSELVSKFGARNWSLIARGIA-GRSGKSCRLRWCNQLDPAVKRKPFTDEEDQIIVAAHAVHGNK 132 (369)
Q Consensus 54 ~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lp-gRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~Ll~lv~~~G~~ 132 (369)
..+.+||+||+|||++|+++|.+||..+|..||+.++ +|+++|||+||.++|+|.+++++||+|||++|+++|++||++
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~GnK 88 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGNR 88 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCcc
Confidence 4567889999999999999999999999999999885 999999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHHHHhhhhhhhh
Q 017566 133 WAVISRLLPGRTDNAIKNHWNSTLRRRGVELRR 165 (369)
Q Consensus 133 W~~IA~~l~gRT~~qck~Rw~~~l~rk~~~~~~ 165 (369)
|+.||++|+|||+++||+||+.+++|+++..+.
T Consensus 89 WskIAk~LPGRTDnqIKNRWnslLKKklr~~~I 121 (459)
T PLN03091 89 WSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRGI 121 (459)
T ss_pred hHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCC
Confidence 999999999999999999999999998765443
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.81 E-value=2.2e-20 Score=192.37 Aligned_cols=118 Identities=27% Similarity=0.462 Sum_probs=109.4
Q ss_pred CCCCCCcccccCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCccccCCCCCh
Q 017566 37 RSGDDSVVAVGEGSKRSGRSRVKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTD 116 (369)
Q Consensus 37 ~sg~d~~~~~~~~~~~~~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~kr~~WT~ 116 (369)
=-|++..+.++||++.+.|+.++|+||++||.+|+.+|++||..+|.+|-..+|||+..|||+||.|.|+...+++.||-
T Consensus 338 mpgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K~~rW~l 417 (939)
T KOG0049|consen 338 MPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNVLNRSAKVERWTL 417 (939)
T ss_pred cCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHHHHHhhccCceee
Confidence 34778889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhCC-cHHHHHhhCCCCCHHH---HHHHHHH
Q 017566 117 EEDQIIVAAHAVHGN-KWAVISRLLPGRTDNA---IKNHWNS 154 (369)
Q Consensus 117 EED~~Ll~lv~~~G~-~W~~IA~~l~gRT~~q---ck~Rw~~ 154 (369)
.||++|+.+|++||. +|.+||.+||+||..| ||.|+..
T Consensus 418 ~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~ 459 (939)
T KOG0049|consen 418 VEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIA 459 (939)
T ss_pred cchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHHHHHH
Confidence 999999999999996 4999999999999954 4444443
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.73 E-value=6e-18 Score=174.60 Aligned_cols=134 Identities=26% Similarity=0.412 Sum_probs=109.4
Q ss_pred cCCCCCCCCCCC-CCCcccccCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccC-CCcccccc------
Q 017566 28 DADGGADRGRSG-DDSVVAVGEGSKRSGRSRVKGPWSPEQDAVLSELVSKFGARNWSLIARGIAG-RSGKSCRL------ 99 (369)
Q Consensus 28 d~d~~~~~~~sg-~d~~~~~~~~~~~~~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpg-Rt~~qcr~------ 99 (369)
|+...+...--| +..+.+...|.....|+.+|..|++|||++|..+-..++..+|.+||..++. |+..||-.
T Consensus 221 DW~~ISn~dfEgsrS~~~~~~~W~n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~ 300 (939)
T KOG0049|consen 221 DWTAISNFDFEGSRSEWAVKSKWYNELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEV 300 (939)
T ss_pred CHHHhccccccccCCHHHHHHHHhhhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHH
Confidence 444444444333 3447788999999999999999999999999888877766666666665543 55555544
Q ss_pred ------------------------------------------------ccccccCccccCCCCChHHHHHHHHHHHHhCC
Q 017566 100 ------------------------------------------------RWCNQLDPAVKRKPFTDEEDQIIVAAHAVHGN 131 (369)
Q Consensus 100 ------------------------------------------------Rw~~~L~p~~kr~~WT~EED~~Ll~lv~~~G~ 131 (369)
||...|+|.+++|+||.+||.+|+.+|.+||.
T Consensus 301 ~~L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~ 380 (939)
T KOG0049|consen 301 SQLSEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGA 380 (939)
T ss_pred HHHHhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCc
Confidence 88889999999999999999999999999997
Q ss_pred c-HHHHHhhCCCCCHHHHHHHHHHHHHhhhh
Q 017566 132 K-WAVISRLLPGRTDNAIKNHWNSTLRRRGV 161 (369)
Q Consensus 132 ~-W~~IA~~l~gRT~~qck~Rw~~~l~rk~~ 161 (369)
+ |.+|-..+|||++.|||.||.+.|.+.++
T Consensus 381 kdw~k~R~~vPnRSdsQcR~RY~nvL~~s~K 411 (939)
T KOG0049|consen 381 KDWAKVRQAVPNRSDSQCRERYTNVLNRSAK 411 (939)
T ss_pred cchhhHHHhcCCccHHHHHHHHHHHHHHhhc
Confidence 6 99999999999999999999999877643
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=99.63 E-value=2.9e-16 Score=117.74 Aligned_cols=60 Identities=47% Similarity=0.935 Sum_probs=54.8
Q ss_pred CCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCccccCCCCChHHHHHH
Q 017566 62 WSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDEEDQII 122 (369)
Q Consensus 62 WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~L 122 (369)
||+|||.+|+++|..|| .+|..||+.|+.|+..||+.||+++|.+.+++++||.+||++|
T Consensus 1 WT~eEd~~L~~~~~~~g-~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYG-NDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHT-S-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHC-cCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 99999999999999999 5899999999669999999999999999999999999999987
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=3.8e-15 Score=153.61 Aligned_cols=109 Identities=29% Similarity=0.552 Sum_probs=102.3
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCccccCCCCChHHHHHHHHHHHHhCCc
Q 017566 53 SGRSRVKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDEEDQIIVAAHAVHGNK 132 (369)
Q Consensus 53 ~~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~Ll~lv~~~G~~ 132 (369)
.+..++.|.|+..||+.|..+|+.||+.+|..||..+.-|+++||+.||.++++|.+++..|+.|||+.|+.+..++|++
T Consensus 14 ~~~~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 14 MQTKRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred ccceecCCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 34566778999999999999999999999999999998899999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHHHHhhhh
Q 017566 133 WAVISRLLPGRTDNAIKNHWNSTLRRRGV 161 (369)
Q Consensus 133 W~~IA~~l~gRT~~qck~Rw~~~l~rk~~ 161 (369)
|+.||..+++||..+|.+||...+..-..
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999988876543
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.55 E-value=2.4e-15 Score=152.50 Aligned_cols=101 Identities=30% Similarity=0.625 Sum_probs=96.8
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCccccCCCCChHHHHHHHHHHHHhCCcHHHHH
Q 017566 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDEEDQIIVAAHAVHGNKWAVIS 137 (369)
Q Consensus 58 ~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~Ll~lv~~~G~~W~~IA 137 (369)
+.|.|+.-||+.|..+|.+||...|.+|++.++-++++||+.||..+|||.+++..|+.|||++||.+.+.+...|..|+
T Consensus 6 kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrtIa 85 (617)
T KOG0050|consen 6 KGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRTIA 85 (617)
T ss_pred ecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccchHH
Confidence 45789999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhCCCCCHHHHHHHHHHHHHhh
Q 017566 138 RLLPGRTDNAIKNHWNSTLRRR 159 (369)
Q Consensus 138 ~~l~gRT~~qck~Rw~~~l~rk 159 (369)
..| |||.+||-.||++++-..
T Consensus 86 ~i~-gr~~~qc~eRy~~ll~~~ 106 (617)
T KOG0050|consen 86 DIM-GRTSQQCLERYNNLLDVY 106 (617)
T ss_pred HHh-hhhHHHHHHHHHHHHHHH
Confidence 999 999999999999988544
No 9
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.41 E-value=2.7e-13 Score=97.66 Aligned_cols=46 Identities=33% Similarity=0.680 Sum_probs=42.2
Q ss_pred CCCCChHHHHHHHHHHHHhCCc-HHHHHhhCC-CCCHHHHHHHHHHHH
Q 017566 111 RKPFTDEEDQIIVAAHAVHGNK-WAVISRLLP-GRTDNAIKNHWNSTL 156 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G~~-W~~IA~~l~-gRT~~qck~Rw~~~l 156 (369)
|++||+|||++|++++.+||.+ |..||..|+ +||..||++||++++
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 5799999999999999999999 999999999 999999999999875
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=99.40 E-value=8.4e-14 Score=100.35 Aligned_cols=47 Identities=47% Similarity=0.941 Sum_probs=42.4
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHHhhcc-CCCcccccccccccc
Q 017566 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGIA-GRSGKSCRLRWCNQL 105 (369)
Q Consensus 59 kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lp-gRt~~qcr~Rw~~~L 105 (369)
|++||+|||++|+++|.+||.++|..||..|+ +||..||+.||+++|
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 57899999999999999999877999999999 999999999998865
No 11
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.39 E-value=4.2e-13 Score=139.91 Aligned_cols=106 Identities=25% Similarity=0.563 Sum_probs=94.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCccc--cCCCCChHHHHHHHHHHH-------H
Q 017566 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAV--KRKPFTDEEDQIIVAAHA-------V 128 (369)
Q Consensus 58 ~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~--kr~~WT~EED~~Ll~lv~-------~ 128 (369)
.+|.||+||++.|..+|.++| ..|..|++.| ||.+..|++||+++..++- +++.||.||.++|+++|. +
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g-~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~~q 460 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHG-NDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREALQ 460 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhc-ccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHhhc
Confidence 789999999999999999999 5799999999 8999999999999999885 899999999999999995 3
Q ss_pred h-------C------------CcHHHHHhhCCCCCHHHHHHHHHHHHHhhhhhhhh
Q 017566 129 H-------G------------NKWAVISRLLPGRTDNAIKNHWNSTLRRRGVELRR 165 (369)
Q Consensus 129 ~-------G------------~~W~~IA~~l~gRT~~qck~Rw~~~l~rk~~~~~~ 165 (369)
+ | =.|..|+..+.+|+..|||.+|+.++.+.......
T Consensus 461 ~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~~~ 516 (607)
T KOG0051|consen 461 PQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNKRQ 516 (607)
T ss_pred ccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhccc
Confidence 3 1 14999999999999999999999999887555443
No 12
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.23 E-value=9.1e-12 Score=93.30 Aligned_cols=45 Identities=33% Similarity=0.634 Sum_probs=39.2
Q ss_pred CChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 114 FTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 114 WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
||+|||++|+++|.+||++|..||++|+.||+.+|++||+.+|+.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~ 45 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRP 45 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTST
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcc
Confidence 999999999999999999999999999669999999999996654
No 13
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.21 E-value=2.8e-12 Score=121.12 Aligned_cols=73 Identities=21% Similarity=0.282 Sum_probs=64.8
Q ss_pred CCCCcccccCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCccccCC
Q 017566 39 GDDSVVAVGEGSKRSGRSRVKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRK 112 (369)
Q Consensus 39 g~d~~~~~~~~~~~~~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~kr~ 112 (369)
++...+|..||.+.+.|..++++||+|||++|++++..|| .+|..||+.|||||..||+.||+.+|...+.+.
T Consensus 58 gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~~~~G-nKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~ 130 (249)
T PLN03212 58 LRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLHRLLG-NRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQ 130 (249)
T ss_pred CCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHHHhcc-ccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhc
Confidence 4555688899999999999999999999999999999999 579999999999999999999998776544433
No 14
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.21 E-value=2.6e-11 Score=85.07 Aligned_cols=47 Identities=34% Similarity=0.756 Sum_probs=44.2
Q ss_pred CCCCChHHHHHHHHHHHHhC-CcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 111 RKPFTDEEDQIIVAAHAVHG-NKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G-~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
+++||++||.+|+.++.+|| .+|..||..|++||+.+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 899999999999999999999998764
No 15
>PLN03091 hypothetical protein; Provisional
Probab=99.20 E-value=3.8e-12 Score=128.36 Aligned_cols=95 Identities=19% Similarity=0.221 Sum_probs=73.5
Q ss_pred hhHhHhHhhhhhhcCCCceeccCCCCCCCCCCCCCCcccccCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHH
Q 017566 7 TEIEKWKATVIEVEGGDAVEADADGGADRGRSGDDSVVAVGEGSKRSGRSRVKGPWSPEQDAVLSELVSKFGARNWSLIA 86 (369)
Q Consensus 7 ~e~e~~ka~~~~ee~~d~~~~d~d~~~~~~~sg~d~~~~~~~~~~~~~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA 86 (369)
.|++.|+..+.. .|..-|..+.... ..++...+|..||.+++.+.+++++||+|||++|++++.+||. +|.+||
T Consensus 20 EEDe~L~~~V~k--yG~~nWs~IAk~~---g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLeL~k~~Gn-KWskIA 93 (459)
T PLN03091 20 EEDEKLLRHITK--YGHGCWSSVPKQA---GLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIELHAVLGN-RWSQIA 93 (459)
T ss_pred HHHHHHHHHHHH--hCcCCHHHHhhhh---ccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHHHHHHhCc-chHHHH
Confidence 455666655533 3333344333222 2345555888999999999999999999999999999999995 799999
Q ss_pred hhccCCCccccccccccccCc
Q 017566 87 RGIAGRSGKSCRLRWCNQLDP 107 (369)
Q Consensus 87 ~~lpgRt~~qcr~Rw~~~L~p 107 (369)
+.|+|||..+|+.||+..|..
T Consensus 94 k~LPGRTDnqIKNRWnslLKK 114 (459)
T PLN03091 94 AQLPGRTDNEIKNLWNSCLKK 114 (459)
T ss_pred HhcCCCCHHHHHHHHHHHHHH
Confidence 999999999999999976654
No 16
>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=99.09 E-value=2e-10 Score=79.36 Aligned_cols=44 Identities=39% Similarity=0.823 Sum_probs=41.7
Q ss_pred CCChHHHHHHHHHHHHhC-CcHHHHHhhCCCCCHHHHHHHHHHHH
Q 017566 113 PFTDEEDQIIVAAHAVHG-NKWAVISRLLPGRTDNAIKNHWNSTL 156 (369)
Q Consensus 113 ~WT~EED~~Ll~lv~~~G-~~W~~IA~~l~gRT~~qck~Rw~~~l 156 (369)
+||++||.+|+.++.+|| .+|..||+.|++||..+|++||++++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 699999999999999999 89999999999999999999998763
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.09 E-value=8.1e-11 Score=82.55 Aligned_cols=48 Identities=48% Similarity=0.998 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccC
Q 017566 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLD 106 (369)
Q Consensus 59 kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~ 106 (369)
++.||++||.+|+.++..||..+|..||..|++||..+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 368999999999999999997789999999999999999999987663
No 18
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.05 E-value=2.5e-10 Score=119.41 Aligned_cols=104 Identities=24% Similarity=0.368 Sum_probs=89.2
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCC---------------C--------hHHHHhhccCCCccccccccccccCccc-c
Q 017566 55 RSRVKGPWSPEQDAVLSELVSKFGAR---------------N--------WSLIARGIAGRSGKSCRLRWCNQLDPAV-K 110 (369)
Q Consensus 55 ~~~~kg~WT~EED~~L~~lV~~~g~~---------------n--------W~~IA~~lpgRt~~qcr~Rw~~~L~p~~-k 110 (369)
....-+.|+.+||+.|.+.|..|-.. . |+.|...||-|+...++.+-++...|.- +
T Consensus 304 ~e~~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp~R~~~siy~~~rR~y~~FE~~ 383 (607)
T KOG0051|consen 304 DEINLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLPYRDRKSIYHHLRRAYTPFENK 383 (607)
T ss_pred hhhhhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcCcccchhHHHHHHhcCCccccc
Confidence 34556889999999999999988210 1 7889999999999998885555555555 9
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHhh
Q 017566 111 RKPFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~rk 159 (369)
+|.||+||++.|..+|.++|+.|..|++.| ||.+.+|+.||+.+.+-.
T Consensus 384 rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g 431 (607)
T KOG0051|consen 384 RGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCG 431 (607)
T ss_pred cCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccc
Confidence 999999999999999999999999999999 999999999999987654
No 19
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.00 E-value=2.4e-10 Score=108.59 Aligned_cols=92 Identities=21% Similarity=0.274 Sum_probs=73.5
Q ss_pred hHhHhHhhhhhhcCCCceeccCCCCCCCCCCCCCCcccccCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHh
Q 017566 8 EIEKWKATVIEVEGGDAVEADADGGADRGRSGDDSVVAVGEGSKRSGRSRVKGPWSPEQDAVLSELVSKFGARNWSLIAR 87 (369)
Q Consensus 8 e~e~~ka~~~~ee~~d~~~~d~d~~~~~~~sg~d~~~~~~~~~~~~~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~ 87 (369)
|++.+..-+ ..-|..-|.........+|.|+ +|.-||..+++|.+++|.||+|||.+|++|.+.+| ..|..||+
T Consensus 16 ED~~L~~~V--~~~G~~~W~~i~k~~gl~R~GK---SCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~G-NrWs~IA~ 89 (238)
T KOG0048|consen 16 EDLTQIRSI--KSFGKHNGTALPKLAGLRRCGK---SCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLG-NRWSLIAG 89 (238)
T ss_pred HHHHHHHHH--HHhCCCCcchhhhhcCCCccch---HHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHC-cHHHHHHh
Confidence 344444433 3456666766666666677777 66679999999999999999999999999999999 46999999
Q ss_pred hccCCCcccccccccccc
Q 017566 88 GIAGRSGKSCRLRWCNQL 105 (369)
Q Consensus 88 ~lpgRt~~qcr~Rw~~~L 105 (369)
+|||||...++.+|.-.|
T Consensus 90 ~LPGRTDNeIKN~Wnt~l 107 (238)
T KOG0048|consen 90 RLPGRTDNEVKNHWNTHL 107 (238)
T ss_pred hCCCcCHHHHHHHHHHHH
Confidence 999999988877775444
No 20
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.96 E-value=4.8e-10 Score=77.45 Aligned_cols=44 Identities=48% Similarity=0.996 Sum_probs=41.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccc
Q 017566 61 PWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQ 104 (369)
Q Consensus 61 ~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~ 104 (369)
+||++||..|+.++..||..+|..||+.|++|+..+|+.||.++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 59999999999999999977899999999999999999999765
No 21
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=98.24 E-value=4.6e-07 Score=94.31 Aligned_cols=112 Identities=18% Similarity=0.156 Sum_probs=97.4
Q ss_pred ccccCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCccccCCCCChHHHHHHH
Q 017566 44 VAVGEGSKRSGRSRVKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDEEDQIIV 123 (369)
Q Consensus 44 ~~~~~~~~~~~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~Ll 123 (369)
++..+|.....+.++++.|+.|||+.|+.+-..+|. .|..||..+++|+..||.+||.+.+.+... .+|+..+....+
T Consensus 57 q~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~-~wstia~~~d~rt~~~~~ery~~~~~~~~s-~~~s~~~~~~~f 134 (512)
T COG5147 57 QSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGT-QWSTIADYKDRRTAQQCVERYVNTLEDLSS-THDSKLQRRNEF 134 (512)
T ss_pred cccchhhhhhchhcccccccHHHHHHHHHHHHhcCc-hhhhhccccCccchHHHHHHHHHHhhhhhc-cccccccchhhc
Confidence 556699999999999999999999999999999997 599999999999999999999999987766 789999988888
Q ss_pred HHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 124 AAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 124 ~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
..+..|+..|+.+....-.+-...|.+++.++..
T Consensus 135 ~k~d~f~~~~~~~~~~~~~~~~~~~~N~~~~~~~ 168 (512)
T COG5147 135 DKIDPFNENSARRPDIYEDELLEREVNREASYRL 168 (512)
T ss_pred cccCchhhhhhhhhhhhhcccchhhhhHHHHHHH
Confidence 8888888888888776666777777777766554
No 22
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=98.16 E-value=4.7e-06 Score=62.64 Aligned_cols=49 Identities=18% Similarity=0.297 Sum_probs=43.2
Q ss_pred cCCCCChHHHHHHHHHHHHhCC-cH---HHHHhhCC-CC-CHHHHHHHHHHHHHh
Q 017566 110 KRKPFTDEEDQIIVAAHAVHGN-KW---AVISRLLP-GR-TDNAIKNHWNSTLRR 158 (369)
Q Consensus 110 kr~~WT~EED~~Ll~lv~~~G~-~W---~~IA~~l~-gR-T~~qck~Rw~~~l~r 158 (369)
.+-.||+||+.++++++..||. .| ..|+..+. .| |..||+.|++.+..+
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~k 56 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRLK 56 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHcc
Confidence 3568999999999999999997 89 99999874 45 999999999988754
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.80 E-value=2e-05 Score=80.01 Aligned_cols=53 Identities=19% Similarity=0.479 Sum_probs=47.5
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccC
Q 017566 54 GRSRVKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLD 106 (369)
Q Consensus 54 ~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~ 106 (369)
.-.+....||.+|+-+|+++++.||.+||..||.+|+.|+..+|+++|.+++.
T Consensus 67 s~~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 67 SFPILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 33445578999999999999999999999999999999999999999998653
No 24
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.76 E-value=9.8e-07 Score=90.67 Aligned_cols=92 Identities=26% Similarity=0.293 Sum_probs=76.2
Q ss_pred hhhHhHhHhhhhhhcCCCceeccCCCCCCCCCCCCCCcccccCCccCCCCCCCCCCCCHHHHHHHHHHHHHhCCCChHHH
Q 017566 6 ETEIEKWKATVIEVEGGDAVEADADGGADRGRSGDDSVVAVGEGSKRSGRSRVKGPWSPEQDAVLSELVSKFGARNWSLI 85 (369)
Q Consensus 6 e~e~e~~ka~~~~ee~~d~~~~d~d~~~~~~~sg~d~~~~~~~~~~~~~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~I 85 (369)
-+|+|.+||.++. .|...|......-.. ..+.+|..+|-....+.+++-.|+.|||++|+-+.....+ .|..|
T Consensus 12 ntEdeilkaav~k--yg~nqws~i~sll~~----kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~-qwrtI 84 (617)
T KOG0050|consen 12 NTEDEVLKAAVMK--YGKNQWSRIASLLNR----KTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPT-QWRTI 84 (617)
T ss_pred ccHHHHHHHHHHH--cchHHHHHHHHHHhh----cchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCC-ccchH
Confidence 4788999999977 666666655543321 2334788899999999999999999999999999888885 69999
Q ss_pred HhhccCCCcccccccccccc
Q 017566 86 ARGIAGRSGKSCRLRWCNQL 105 (369)
Q Consensus 86 A~~lpgRt~~qcr~Rw~~~L 105 (369)
|..| ||++.||.+||.+.|
T Consensus 85 a~i~-gr~~~qc~eRy~~ll 103 (617)
T KOG0050|consen 85 ADIM-GRTSQQCLERYNNLL 103 (617)
T ss_pred HHHh-hhhHHHHHHHHHHHH
Confidence 9988 899999999998875
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=97.64 E-value=4.4e-05 Score=57.40 Aligned_cols=47 Identities=13% Similarity=0.251 Sum_probs=41.1
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCh---HHHHhhcc-CC-Ccccccccccccc
Q 017566 59 KGPWSPEQDAVLSELVSKFGARNW---SLIARGIA-GR-SGKSCRLRWCNQL 105 (369)
Q Consensus 59 kg~WT~EED~~L~~lV~~~g~~nW---~~IA~~lp-gR-t~~qcr~Rw~~~L 105 (369)
+-.||+||..+++.+|..+|.++| ..|++.|. .| |..||+-++.+|.
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 457999999999999999998799 99999875 45 9999999887664
No 26
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=97.59 E-value=8.7e-05 Score=66.54 Aligned_cols=53 Identities=28% Similarity=0.493 Sum_probs=46.6
Q ss_pred cCCCCChHHHHHHHHHHHHh---CCc----HHHHHhhCCCCCHHHHHHHHHHHHHhhhhhh
Q 017566 110 KRKPFTDEEDQIIVAAHAVH---GNK----WAVISRLLPGRTDNAIKNHWNSTLRRRGVEL 163 (369)
Q Consensus 110 kr~~WT~EED~~Ll~lv~~~---G~~----W~~IA~~l~gRT~~qck~Rw~~~l~rk~~~~ 163 (369)
+...||.|||.+|.+.|.+| |.. ...+++.| +||+.+|.-|||.++|+++...
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~~ 62 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEEA 62 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHHH
Confidence 45789999999999999887 432 89999999 9999999999999999987663
No 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.53 E-value=0.00028 Score=65.61 Aligned_cols=99 Identities=21% Similarity=0.448 Sum_probs=76.1
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHHhhcc---CCCcccccccccccc-Cccc--------------------cCCCCCh
Q 017566 61 PWSPEQDAVLSELVSKFGARNWSLIARGIA---GRSGKSCRLRWCNQL-DPAV--------------------KRKPFTD 116 (369)
Q Consensus 61 ~WT~EED~~L~~lV~~~g~~nW~~IA~~lp---gRt~~qcr~Rw~~~L-~p~~--------------------kr~~WT~ 116 (369)
+|++++|-+|+.+|..-. +-..|+..+. .-|..-+.+||+..| +|.+ .+.+||.
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 599999999999999876 5788887664 566677888998754 3332 4578999
Q ss_pred HHHHHHHHHHHHhCCc---HHHHHh-----hCCCCCHHHHHHHHHHHHHhhhh
Q 017566 117 EEDQIIVAAHAVHGNK---WAVISR-----LLPGRTDNAIKNHWNSTLRRRGV 161 (369)
Q Consensus 117 EED~~Ll~lv~~~G~~---W~~IA~-----~l~gRT~~qck~Rw~~~l~rk~~ 161 (369)
+|+++|........+. +.+|=. +-++||+.++.+||+.+.+..+.
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLL 131 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchh
Confidence 9999999987666543 766633 45789999999999976665544
No 28
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.45 E-value=0.00022 Score=72.55 Aligned_cols=52 Identities=17% Similarity=0.380 Sum_probs=46.7
Q ss_pred cccCCCCChHHHHHHHHHHHHhC-CcHHHHHhhCCCCCHHHHHHHHHHHHHhh
Q 017566 108 AVKRKPFTDEEDQIIVAAHAVHG-NKWAVISRLLPGRTDNAIKNHWNSTLRRR 159 (369)
Q Consensus 108 ~~kr~~WT~EED~~Ll~lv~~~G-~~W~~IA~~l~gRT~~qck~Rw~~~l~rk 159 (369)
.+-...||.+|+-+||+++..|| .+|..||.+++.||..+|+.||.+++-..
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~s 121 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVNS 121 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhcC
Confidence 34567899999999999999999 56999999999999999999999887654
No 29
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=97.26 E-value=0.00039 Score=53.65 Aligned_cols=50 Identities=30% Similarity=0.535 Sum_probs=33.1
Q ss_pred CCCCChHHHHHHHHHHHHh--------CCc-HHHHHhhCC-CCCHHHHHHHHHHHHHhhh
Q 017566 111 RKPFTDEEDQIIVAAHAVH--------GNK-WAVISRLLP-GRTDNAIKNHWNSTLRRRG 160 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~--------G~~-W~~IA~~l~-gRT~~qck~Rw~~~l~rk~ 160 (369)
|.+||.|||..|++.|+.+ |++ |..++..-+ .+|-...|+||.+.|+.+.
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~ 61 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRP 61 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccc
Confidence 5689999999999999654 233 999999766 8999999999998887763
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.17 E-value=0.00036 Score=71.50 Aligned_cols=45 Identities=16% Similarity=0.334 Sum_probs=42.1
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHH
Q 017566 111 RKPFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNST 155 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~ 155 (369)
..+||.+|..+|++++..||..|.+||+++++||..||--||.++
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 358999999999999999999999999999999999999999753
No 31
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.99 E-value=0.00042 Score=71.06 Aligned_cols=46 Identities=22% Similarity=0.522 Sum_probs=42.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccc
Q 017566 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQ 104 (369)
Q Consensus 58 ~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~ 104 (369)
+...||.+|..+|++.|+.|| .+|.+||+++++|+..||..||.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~yg-DdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYG-DDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhh-hhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 556899999999999999999 5799999999999999999998764
No 32
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.98 E-value=0.0007 Score=53.97 Aligned_cols=48 Identities=25% Similarity=0.529 Sum_probs=33.7
Q ss_pred CCCCChHHHHHHHHHHHH------hC--C------cHHHHHhhC----CCCCHHHHHHHHHHHHHh
Q 017566 111 RKPFTDEEDQIIVAAHAV------HG--N------KWAVISRLL----PGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~------~G--~------~W~~IA~~l----~gRT~~qck~Rw~~~l~r 158 (369)
|..||.+|...||.++.. ++ . -|..||..| ..||+.||+++|.++.++
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~ 66 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKK 66 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Confidence 458999999999999876 21 1 399999976 369999999999985544
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.96 E-value=0.00095 Score=69.95 Aligned_cols=45 Identities=13% Similarity=0.338 Sum_probs=42.5
Q ss_pred cCCCCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHH
Q 017566 110 KRKPFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNS 154 (369)
Q Consensus 110 kr~~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~ 154 (369)
.+..||.+|.-+|++++..||-.|.+||.++.+||..||-.||..
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLR 296 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHh
Confidence 457899999999999999999999999999999999999999965
No 34
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.68 E-value=0.002 Score=58.57 Aligned_cols=52 Identities=25% Similarity=0.406 Sum_probs=44.8
Q ss_pred cCCCCChHHHHHHHHHHHHhCCc-------HHHHHhhCCCCCHHHHHHHHHHHHHhhhhh
Q 017566 110 KRKPFTDEEDQIIVAAHAVHGNK-------WAVISRLLPGRTDNAIKNHWNSTLRRRGVE 162 (369)
Q Consensus 110 kr~~WT~EED~~Ll~lv~~~G~~-------W~~IA~~l~gRT~~qck~Rw~~~l~rk~~~ 162 (369)
+...||.|+|.+|.+.|..|+.. ...++..| +||+.+|..||+.++++++..
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Yee 62 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQE 62 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHHH
Confidence 46789999999999999888742 67778888 999999999999999987654
No 35
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.66 E-value=0.0012 Score=69.33 Aligned_cols=48 Identities=19% Similarity=0.564 Sum_probs=43.4
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCcccccccccc
Q 017566 55 RSRVKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCN 103 (369)
Q Consensus 55 ~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~ 103 (369)
....++.||.+|.-+|+++|+.|| .+|.+||.++.+||..||..++.+
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~-ddW~kVa~hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYG-DDWNKVADHVGTKSQEQCILKFLR 296 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhc-ccHHHHHhccCCCCHHHHHHHHHh
Confidence 344567899999999999999999 589999999999999999999876
No 36
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.19 E-value=0.0032 Score=48.58 Aligned_cols=49 Identities=24% Similarity=0.365 Sum_probs=33.2
Q ss_pred CCCCHHHHHHHHHHHHHhCC------CC--hHHHHhhcc-CCCccccccccccccCcc
Q 017566 60 GPWSPEQDAVLSELVSKFGA------RN--WSLIARGIA-GRSGKSCRLRWCNQLDPA 108 (369)
Q Consensus 60 g~WT~EED~~L~~lV~~~g~------~n--W~~IA~~lp-gRt~~qcr~Rw~~~L~p~ 108 (369)
-+||.+||++|+..|..+.. +| |..+++.-+ .+|-.+-|+||.+.|.+.
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~ 60 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGR 60 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT---
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcc
Confidence 57999999999999976631 23 999999877 889999999999988654
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=95.89 E-value=0.0047 Score=55.54 Aligned_cols=48 Identities=25% Similarity=0.647 Sum_probs=40.6
Q ss_pred CCCCCCHHHHHHHHHHHHHh---CCC---ChHHHHhhccCCCccccccccccccC
Q 017566 58 VKGPWSPEQDAVLSELVSKF---GAR---NWSLIARGIAGRSGKSCRLRWCNQLD 106 (369)
Q Consensus 58 ~kg~WT~EED~~L~~lV~~~---g~~---nW~~IA~~lpgRt~~qcr~Rw~~~L~ 106 (369)
++..||.|||.+|.+.|-+| |.. -+..|++.| +||+..|.-||+.++.
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VR 56 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVR 56 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHH
Confidence 45689999999999999998 211 288888888 8999999999988774
No 38
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.71 E-value=0.0032 Score=50.12 Aligned_cols=45 Identities=31% Similarity=0.664 Sum_probs=32.7
Q ss_pred CCCCHHHHHHHHHHHHH--h----C--CC-----ChHHHHhhcc----CCCccccccccccc
Q 017566 60 GPWSPEQDAVLSELVSK--F----G--AR-----NWSLIARGIA----GRSGKSCRLRWCNQ 104 (369)
Q Consensus 60 g~WT~EED~~L~~lV~~--~----g--~~-----nW~~IA~~lp----gRt~~qcr~Rw~~~ 104 (369)
..||.+|...|+.++.. + + .. -|..||..|. .||+.||+.+|.+.
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 46999999999999988 2 1 11 2999999874 79999999999864
No 39
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.61 E-value=0.04 Score=62.70 Aligned_cols=99 Identities=17% Similarity=0.331 Sum_probs=77.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCcccccc-------ccccc-----------------------------
Q 017566 61 PWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRL-------RWCNQ----------------------------- 104 (369)
Q Consensus 61 ~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~-------Rw~~~----------------------------- 104 (369)
.||.-+=..++.+..+||..+-..||..|.|+|...++. ||...
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~~ 905 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIGK 905 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 499999999999999999888999999998898877764 21110
Q ss_pred -------------c-CccccCCCCChHHHHHHHHHHHHhC-CcHHHHHhh------------CCCCCHHHHHHHHHHHHH
Q 017566 105 -------------L-DPAVKRKPFTDEEDQIIVAAHAVHG-NKWAVISRL------------LPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 105 -------------L-~p~~kr~~WT~EED~~Ll~lv~~~G-~~W~~IA~~------------l~gRT~~qck~Rw~~~l~ 157 (369)
+ .+..++..||+|||+.|+-.+.+|| .+|..|-.. |..||+..+..|-..+++
T Consensus 906 k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~~ 985 (1033)
T PLN03142 906 KLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLIR 985 (1033)
T ss_pred HHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHHH
Confidence 0 1223455799999999999999999 459999432 257999999999998876
Q ss_pred hh
Q 017566 158 RR 159 (369)
Q Consensus 158 rk 159 (369)
--
T Consensus 986 ~~ 987 (1033)
T PLN03142 986 LI 987 (1033)
T ss_pred HH
Confidence 53
No 40
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.41 E-value=0.019 Score=56.82 Aligned_cols=47 Identities=17% Similarity=0.436 Sum_probs=42.6
Q ss_pred CCCCChHHHHHHHHHHHHhC-CcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 111 RKPFTDEEDQIIVAAHAVHG-NKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G-~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
-..|+..|+-+|+++..-.| .+|..||.+++.|+..+||.||.++..
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 34799999999999999999 569999999988999999999987664
No 41
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.38 E-value=0.036 Score=43.27 Aligned_cols=48 Identities=25% Similarity=0.517 Sum_probs=39.7
Q ss_pred CCCCChHHHHHHHHHHHHh-----C--C----------cHHHHHhhC-----CCCCHHHHHHHHHHHHHh
Q 017566 111 RKPFTDEEDQIIVAAHAVH-----G--N----------KWAVISRLL-----PGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~-----G--~----------~W~~IA~~l-----~gRT~~qck~Rw~~~l~r 158 (369)
...||.+|...|++++.+| | . -|..|+..| +.||..+++.+|.++...
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~ 71 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSK 71 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHH
Confidence 4679999999999999887 3 0 299999866 359999999999987654
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.24 E-value=0.014 Score=57.77 Aligned_cols=48 Identities=23% Similarity=0.480 Sum_probs=44.9
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccC
Q 017566 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLD 106 (369)
Q Consensus 59 kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~ 106 (369)
--.|+.+|+-+|++...-.|-+||..||.+|+.|+...|+.+|.++++
T Consensus 63 ~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 63 EEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred CCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 356999999999999999999999999999999999999999998765
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=94.94 E-value=0.025 Score=44.21 Aligned_cols=47 Identities=34% Similarity=0.474 Sum_probs=38.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-----C-----------ChHHHHhhc-----cCCCcccccccccccc
Q 017566 59 KGPWSPEQDAVLSELVSKFGA-----R-----------NWSLIARGI-----AGRSGKSCRLRWCNQL 105 (369)
Q Consensus 59 kg~WT~EED~~L~~lV~~~g~-----~-----------nW~~IA~~l-----pgRt~~qcr~Rw~~~L 105 (369)
+..||++|...|+++|.+|.. . -|..|+..| +.|+..|++.+|.+..
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 457999999999999999831 1 199999877 2699999999998754
No 44
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.85 E-value=0.025 Score=51.46 Aligned_cols=47 Identities=21% Similarity=0.584 Sum_probs=38.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCC------hHHHHhhccCCCcccccccccccc
Q 017566 58 VKGPWSPEQDAVLSELVSKFGARN------WSLIARGIAGRSGKSCRLRWCNQL 105 (369)
Q Consensus 58 ~kg~WT~EED~~L~~lV~~~g~~n------W~~IA~~lpgRt~~qcr~Rw~~~L 105 (369)
++..||.|+|.+|.+.|..|+..- ...++..| +||+.+|..||+.++
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~v 56 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVV 56 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHH
Confidence 467899999999999999996322 56666666 899999999996555
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=93.05 E-value=0.17 Score=43.53 Aligned_cols=51 Identities=22% Similarity=0.442 Sum_probs=40.0
Q ss_pred cccCCCCChHHHHHHHHHHHHhCC----cHHHHHhhC------------CCCCHHHHHHHHHHHHHh
Q 017566 108 AVKRKPFTDEEDQIIVAAHAVHGN----KWAVISRLL------------PGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 108 ~~kr~~WT~EED~~Ll~lv~~~G~----~W~~IA~~l------------~gRT~~qck~Rw~~~l~r 158 (369)
..++..||++||.-|+-.+.+||- .|..|-..+ ..||+..+..|-..+++-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 556789999999999999999997 598886533 469999999999887753
No 46
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=92.60 E-value=0.19 Score=50.98 Aligned_cols=48 Identities=21% Similarity=0.363 Sum_probs=44.0
Q ss_pred CCCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHhh
Q 017566 112 KPFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159 (369)
Q Consensus 112 ~~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~rk 159 (369)
.+||.+|-+++.++...+|..++.||.++|.|...|||.+|.+--++.
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~n 413 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKVN 413 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhhC
Confidence 489999999999999999999999999999999999999997655543
No 47
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=91.70 E-value=0.24 Score=49.48 Aligned_cols=49 Identities=14% Similarity=0.302 Sum_probs=39.3
Q ss_pred CCCCChHHHHHHHHHHHHh----------CCcHHHHHhhC----CCCCHHHHHHHHHHHHHhh
Q 017566 111 RKPFTDEEDQIIVAAHAVH----------GNKWAVISRLL----PGRTDNAIKNHWNSTLRRR 159 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~----------G~~W~~IA~~l----~gRT~~qck~Rw~~~l~rk 159 (369)
...|+.+|-..||++..+. +.-|..||+.+ .-||+.+|+++|.++.++-
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Y 116 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKY 116 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHH
Confidence 4789999999999987542 34499999944 3499999999999976654
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=91.42 E-value=0.51 Score=37.81 Aligned_cols=51 Identities=22% Similarity=0.432 Sum_probs=37.2
Q ss_pred CCChHHHHHHHHHHHHh---CC----------cHHHHHhhCC-----CCCHHHHHHHHHHHHHhhhhhhh
Q 017566 113 PFTDEEDQIIVAAHAVH---GN----------KWAVISRLLP-----GRTDNAIKNHWNSTLRRRGVELR 164 (369)
Q Consensus 113 ~WT~EED~~Ll~lv~~~---G~----------~W~~IA~~l~-----gRT~~qck~Rw~~~l~rk~~~~~ 164 (369)
.||+++++.|++++.+. |+ .|..|+..|. ..|..||++||.. ||+......
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~-lk~~y~~~~ 69 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT-LKKDYRIWK 69 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH-HHHHHHHHH
Confidence 49999999999998543 21 2999998662 3588999999986 455544433
No 49
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=91.36 E-value=0.17 Score=51.39 Aligned_cols=79 Identities=16% Similarity=0.286 Sum_probs=58.3
Q ss_pred ChHHHHhhccCCCccccccccccccCcc-------------------------ccCCCCChHHHHHHHHHHHHhCCcHHH
Q 017566 81 NWSLIARGIAGRSGKSCRLRWCNQLDPA-------------------------VKRKPFTDEEDQIIVAAHAVHGNKWAV 135 (369)
Q Consensus 81 nW~~IA~~lpgRt~~qcr~Rw~~~L~p~-------------------------~kr~~WT~EED~~Ll~lv~~~G~~W~~ 135 (369)
.|..+.=..+-|...-.-.+|.+.-++. ++-..||.+|-+-|+.|++.|.-+|-.
T Consensus 75 ~W~w~pFtn~aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~V 154 (445)
T KOG2656|consen 75 PWKWVPFTNSARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFFV 154 (445)
T ss_pred CceeeccCCccccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEEE
Confidence 4666555555565555556666552221 123469999999999999999999999
Q ss_pred HHhh-----CCC-CCHHHHHHHHHHHHHhh
Q 017566 136 ISRL-----LPG-RTDNAIKNHWNSTLRRR 159 (369)
Q Consensus 136 IA~~-----l~g-RT~~qck~Rw~~~l~rk 159 (369)
||.. ++. ||-.++|.||+...++-
T Consensus 155 IaDRyd~qq~~~sRTvEdLKeRyY~v~r~l 184 (445)
T KOG2656|consen 155 IADRYDNQQYKKSRTVEDLKERYYSVCRKL 184 (445)
T ss_pred EeeccchhhccccccHHHHHHHHHHHHHHH
Confidence 9986 555 99999999999876653
No 50
>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=90.71 E-value=0.71 Score=33.18 Aligned_cols=41 Identities=20% Similarity=0.354 Sum_probs=31.8
Q ss_pred hHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 116 DEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 116 ~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
+++++.++.++...|-.|.+||..+ |.+...|+.+....++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 4678888999999999999999999 9999999999877554
No 51
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=90.10 E-value=1 Score=46.73 Aligned_cols=49 Identities=20% Similarity=0.288 Sum_probs=44.8
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHhh
Q 017566 111 RKPFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~rk 159 (369)
...||.||--+|-+++..||++..+|-..||.|+-..+...|+...+.+
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~ 235 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTR 235 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHh
Confidence 4689999999999999999999999999999999999999998766654
No 52
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=90.09 E-value=0.29 Score=49.59 Aligned_cols=62 Identities=23% Similarity=0.429 Sum_probs=49.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccc--cCccc------cCCCCChHHHHH
Q 017566 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQ--LDPAV------KRKPFTDEEDQI 121 (369)
Q Consensus 59 kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~--L~p~~------kr~~WT~EED~~ 121 (369)
--+||.+|-.++.+++..+|. ++..|+.++|.|..+|++..|.+- .+|.. .+.|+..+|--.
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k 434 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGT-DFSLISSLFPNRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNK 434 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcc-hHHHHHHhcCchhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhh
Confidence 357999999999999999995 799999999999999999998763 22321 245777777653
No 53
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=86.82 E-value=0.84 Score=36.86 Aligned_cols=31 Identities=35% Similarity=0.666 Sum_probs=19.4
Q ss_pred CCCCCCCCCHHHHHHH--------HHHHHHhCCCChHHHHhh
Q 017566 55 RSRVKGPWSPEQDAVL--------SELVSKFGARNWSLIARG 88 (369)
Q Consensus 55 ~~~~kg~WT~EED~~L--------~~lV~~~g~~nW~~IA~~ 88 (369)
|....|-||+++|+.| .+|+++|| +..|++.
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 56777888 6777654
No 54
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=86.43 E-value=0.47 Score=51.70 Aligned_cols=42 Identities=7% Similarity=0.432 Sum_probs=38.6
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccc
Q 017566 60 GPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWC 102 (369)
Q Consensus 60 g~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~ 102 (369)
..||+.|-.++.+++..|. .++..|+++|+++|++||-+-|+
T Consensus 620 d~WTp~E~~lF~kA~y~~~-KDF~~v~km~~~KtVaqCVeyYY 661 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYS-KDFIFVQKMVKSKTVAQCVEYYY 661 (907)
T ss_pred ccccHHHHHHHHHHHHHhc-ccHHHHHHHhccccHHHHHHHHH
Confidence 5799999999999999999 57999999999999999988664
No 55
>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=83.34 E-value=1.5 Score=37.73 Aligned_cols=34 Identities=32% Similarity=0.518 Sum_probs=28.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC---CChHHHHhhc
Q 017566 56 SRVKGPWSPEQDAVLSELVSKFGA---RNWSLIARGI 89 (369)
Q Consensus 56 ~~~kg~WT~EED~~L~~lV~~~g~---~nW~~IA~~l 89 (369)
...+..||.+||.-|+-++.+||. +.|..|-..|
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~I 82 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEI 82 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence 344567999999999999999998 7899998766
No 56
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=82.42 E-value=3 Score=29.18 Aligned_cols=38 Identities=18% Similarity=0.342 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhCCc-HHHHHhhCCCCCHHHHHHHHHHH
Q 017566 117 EEDQIIVAAHAVHGNK-WAVISRLLPGRTDNAIKNHWNST 155 (369)
Q Consensus 117 EED~~Ll~lv~~~G~~-W~~IA~~l~gRT~~qck~Rw~~~ 155 (369)
+=|.+|+.+...-|.. |..||+.+ |=|...|..|++.+
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 4478899999888865 99999999 99999999999764
No 57
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=79.05 E-value=7.8 Score=40.49 Aligned_cols=51 Identities=10% Similarity=-0.003 Sum_probs=46.3
Q ss_pred CCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHhhhhhh
Q 017566 113 PFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRRGVEL 163 (369)
Q Consensus 113 ~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~rk~~~~ 163 (369)
.|+-++--+++..+++||....-|+-.+...+-.++++-+..+-||+....
T Consensus 371 ~~~T~~~la~v~~I~~~~~~~~pl~wrik~t~cmee~e~l~~~~Rr~mfea 421 (534)
T KOG1194|consen 371 CFDTPAALALIDNIKRKHHMCVPLVWRVKQTKCMEENEILNEEARRQMFEA 421 (534)
T ss_pred ccCcHHHHHHHHHHHHhccCcchhhhHhcCcchhhHHHHHHHHHHHHHHHH
Confidence 599999999999999999998888888988899999999999999987664
No 58
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=77.91 E-value=6.1 Score=27.95 Aligned_cols=41 Identities=12% Similarity=0.276 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 117 EEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 117 EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++++.++.++-..|..+..||..| |-+...|+.+....+++
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 456667777666677899999999 99999999988876654
No 59
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=74.96 E-value=2.4 Score=33.81 Aligned_cols=42 Identities=29% Similarity=0.619 Sum_probs=31.1
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------ChHHHHhhcc-----CCCccccccccc
Q 017566 61 PWSPEQDAVLSELVSKF---GAR---------NWSLIARGIA-----GRSGKSCRLRWC 102 (369)
Q Consensus 61 ~WT~EED~~L~~lV~~~---g~~---------nW~~IA~~lp-----gRt~~qcr~Rw~ 102 (369)
.||+++++.|++++... |.. .|..|++.|. ..+..||+.||.
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~ 59 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWK 59 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHH
Confidence 59999999999998765 211 2999998774 345577777775
No 60
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=74.58 E-value=1.9 Score=43.00 Aligned_cols=47 Identities=30% Similarity=0.482 Sum_probs=37.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC----C-----CChHHHHhhcc----CCCcccccccccccc
Q 017566 59 KGPWSPEQDAVLSELVSKFG----A-----RNWSLIARGIA----GRSGKSCRLRWCNQL 105 (369)
Q Consensus 59 kg~WT~EED~~L~~lV~~~g----~-----~nW~~IA~~lp----gRt~~qcr~Rw~~~L 105 (369)
...|+.+|-..|+.+..+.. . ..|..||+.+. -|++.||+.+|.+..
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 47899999999999988541 1 23999999553 699999999997643
No 61
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=74.32 E-value=18 Score=36.95 Aligned_cols=45 Identities=11% Similarity=0.136 Sum_probs=40.5
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHh-hCCCCCHHHHHHHHHHH
Q 017566 111 RKPFTDEEDQIIVAAHAVHGNKWAVISR-LLPGRTDNAIKNHWNST 155 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G~~W~~IA~-~l~gRT~~qck~Rw~~~ 155 (369)
-..|+++|-+.+-+.++.||+.+..|-+ .|+.|+--.|-..|+..
T Consensus 277 l~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 277 LSGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred cccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 3589999999999999999999999976 79999999999988654
No 62
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=73.58 E-value=7.2 Score=34.35 Aligned_cols=45 Identities=16% Similarity=0.191 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHHHhCCc-HHHHHhhCCCCCHHHHHHHHHHHHHhhhh
Q 017566 116 DEEDQIIVAAHAVHGNK-WAVISRLLPGRTDNAIKNHWNSTLRRRGV 161 (369)
Q Consensus 116 ~EED~~Ll~lv~~~G~~-W~~IA~~l~gRT~~qck~Rw~~~l~rk~~ 161 (369)
.+-|.+|+.+..+-|.. |+.||+.+ |-+...|+.|++.+......
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 35788999999888864 99999999 99999999999988766543
No 63
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=72.55 E-value=5.5 Score=42.89 Aligned_cols=48 Identities=15% Similarity=0.354 Sum_probs=39.7
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHh----------hCCCCCHHHHHHHHHHHHHh
Q 017566 111 RKPFTDEEDQIIVAAHAVHGNKWAVISR----------LLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G~~W~~IA~----------~l~gRT~~qck~Rw~~~l~r 158 (369)
+..||-.|..-+..+++++|+++..|-. .+.-+|-.|++.+|+.++++
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~ 145 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRR 145 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHH
Confidence 6689999999999999999999988822 22336888999999888765
No 64
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=71.11 E-value=7.1 Score=42.99 Aligned_cols=46 Identities=9% Similarity=0.116 Sum_probs=41.9
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHH
Q 017566 111 RKPFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTL 156 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l 156 (369)
...||+.|-.++-+++..|-+++-.|++.|+++|-.||-..|+...
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWK 664 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWK 664 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHH
Confidence 3579999999999999999999999999999999999998876543
No 65
>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=69.89 E-value=11 Score=31.95 Aligned_cols=40 Identities=18% Similarity=0.299 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 118 ED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++..++.++...|-.+..||..+ |.+...|+.+....+++
T Consensus 117 ~~r~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 117 QCRKIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 44455555555688999999999 99999999999875443
No 66
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=67.80 E-value=9.2 Score=34.10 Aligned_cols=45 Identities=16% Similarity=0.116 Sum_probs=38.3
Q ss_pred hHHHHHHHHHHHHhCCc-HHHHHhhCCCCCHHHHHHHHHHHHHhhhh
Q 017566 116 DEEDQIIVAAHAVHGNK-WAVISRLLPGRTDNAIKNHWNSTLRRRGV 161 (369)
Q Consensus 116 ~EED~~Ll~lv~~~G~~-W~~IA~~l~gRT~~qck~Rw~~~l~rk~~ 161 (369)
.+-|.+|+.+..+-|.- |+.||+.+ |-+...|+.|++.+......
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 45688899988888864 99999999 99999999999998776644
No 67
>KOG1878 consensus Nuclear receptor coregulator SMRT/SMRTER, contains Myb-like domains [Transcription]
Probab=66.86 E-value=2.4 Score=49.52 Aligned_cols=103 Identities=24% Similarity=0.404 Sum_probs=71.9
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCcc-----------------cc----------
Q 017566 58 VKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPA-----------------VK---------- 110 (369)
Q Consensus 58 ~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~-----------------~k---------- 110 (369)
+...|+++|-+.+..-...|- ++...|+.++..++..+|..-|+ |++. .+
T Consensus 224 ~~n~Ws~~Ek~~fk~rf~~H~-knf~~~as~~erkSv~d~vlfyy--~nkkte~yk~~~~r~~~r~~s~~~~~~~~~~~E 300 (1672)
T KOG1878|consen 224 RMNEWSPEEKELFKSRFAQHV-KNFGLIASFFERKSVSDCVLFYY--LNKKTENYKKLVRRPKKRSQSYKVGAFPSPEEE 300 (1672)
T ss_pred HhhhccccccccccchhhhcC-cchhhhhhhhcccchhhceeeee--ecccchhHHhhhccccccchhccccccCChHhh
Confidence 446899999888888777777 58899999998888888887553 1110 00
Q ss_pred -----------------------------------------------CCCCChHHHHH------HHHHHHHhCCcHHHHH
Q 017566 111 -----------------------------------------------RKPFTDEEDQI------IVAAHAVHGNKWAVIS 137 (369)
Q Consensus 111 -----------------------------------------------r~~WT~EED~~------Ll~lv~~~G~~W~~IA 137 (369)
-+.|.-|+|+. -....-.+|..|+.|+
T Consensus 301 le~~ee~~~ledpkes~~~~~~~d~~~~~~~~resv~~e~~~~Ple~~ei~a~e~de~see~ev~k~Glveh~R~~aai~ 380 (1672)
T KOG1878|consen 301 LEKEEEKPELEDPKESFPKNKLIDYFGERTVERESVNGEEPFMPLEPYEIFAIEPDELSEEMEVAKSGLVEHGREWAAIL 380 (1672)
T ss_pred hhhhhhcccccCccccccccccccccccccccccccccCCCCCCCCCccccccCccccchhhhhhhccchhhhhhHHHhc
Confidence 01133333332 1222334568899999
Q ss_pred hhCCCCCHHHHHHHHHHHHHhhhhhh
Q 017566 138 RLLPGRTDNAIKNHWNSTLRRRGVEL 163 (369)
Q Consensus 138 ~~l~gRT~~qck~Rw~~~l~rk~~~~ 163 (369)
..+...|..+|++-|.++.+|.+++.
T Consensus 381 p~vvt~tes~c~na~a~~~~r~N~d~ 406 (1672)
T KOG1878|consen 381 PKVVTKTESQCKNAYAKYKNRHNLDE 406 (1672)
T ss_pred CccceecccchhhHHHhhhhhhcchh
Confidence 99999999999999998888876653
No 68
>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=64.33 E-value=5.2 Score=27.98 Aligned_cols=38 Identities=26% Similarity=0.358 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHhCCCChHHHHhhccCCCcccccccccc
Q 017566 65 EQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCN 103 (369)
Q Consensus 65 EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~ 103 (369)
+=|.+|+.++...+...|..||+.+ |=+...|+.|+++
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~l-glS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEEL-GLSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHH-TS-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHH-CcCHHHHHHHHHH
Confidence 4488899999999988999999998 7888889888754
No 69
>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=62.60 E-value=17 Score=29.01 Aligned_cols=39 Identities=23% Similarity=0.318 Sum_probs=28.8
Q ss_pred HHHHHHHHHHhCC--------cHHHHHhhCCCC---C--HHHHHHHHHHHHH
Q 017566 119 DQIIVAAHAVHGN--------KWAVISRLLPGR---T--DNAIKNHWNSTLR 157 (369)
Q Consensus 119 D~~Ll~lv~~~G~--------~W~~IA~~l~gR---T--~~qck~Rw~~~l~ 157 (369)
--.|..+|...|. +|..||+.|.-- + ..+++..|..+|.
T Consensus 38 L~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 38 LYKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 3468888888873 599999988321 2 3689999988875
No 70
>smart00595 MADF subfamily of SANT domain.
Probab=61.49 E-value=12 Score=29.38 Aligned_cols=25 Identities=28% Similarity=0.577 Sum_probs=21.5
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 133 WAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 133 W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
|..||..| |-|..+|+.+|+++-.+
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~~ 54 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRDR 54 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 99999999 55999999999986433
No 71
>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=59.12 E-value=34 Score=34.41 Aligned_cols=48 Identities=19% Similarity=0.368 Sum_probs=37.6
Q ss_pred CCCCChHHHHHHHHHHHHh-CCc---HHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 111 RKPFTDEEDQIIVAAHAVH-GNK---WAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~-G~~---W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
-..||.-|.+.|+++.... |.. -+.|++.|+||+..+|++.-+.+..|
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~r 72 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGR 72 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHH
Confidence 3579999999999887654 543 67899999999999999966554433
No 72
>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=58.72 E-value=14 Score=29.77 Aligned_cols=29 Identities=21% Similarity=0.314 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHH
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAI 148 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qc 148 (369)
|+.|..+....|..|..+|++| |=|..+|
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 5678899999999999999999 6555544
No 73
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=58.72 E-value=20 Score=33.63 Aligned_cols=49 Identities=16% Similarity=0.215 Sum_probs=38.5
Q ss_pred CCChHHHHHHHHHHHHhCCcHHHHHhhC---CCCCHHHHHHHHHHHHHhhhhh
Q 017566 113 PFTDEEDQIIVAAHAVHGNKWAVISRLL---PGRTDNAIKNHWNSTLRRRGVE 162 (369)
Q Consensus 113 ~WT~EED~~Ll~lv~~~G~~W~~IA~~l---~gRT~~qck~Rw~~~l~rk~~~ 162 (369)
.|++++|-+|+.+| ..|+.-..|++-+ -.-|-..|..||+.+|--....
T Consensus 1 rW~~~DDl~Li~av-~~~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is 52 (199)
T PF13325_consen 1 RWKPEDDLLLINAV-EQTNDLESVHLGVKFSCKFTLQEIEERWYALLYDPVIS 52 (199)
T ss_pred CCCchhhHHHHHHH-HHhcCHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhH
Confidence 49999999999998 5677777777633 2358899999999998765433
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=58.37 E-value=12 Score=33.90 Aligned_cols=41 Identities=24% Similarity=0.264 Sum_probs=35.3
Q ss_pred CCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHH
Q 017566 113 PFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNS 154 (369)
Q Consensus 113 ~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~ 154 (369)
.||+|..++|.+|. .-|..=++||+.|++.|.++|.-+.+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 59999999999887 668889999999977999999876553
No 75
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=58.34 E-value=44 Score=33.61 Aligned_cols=85 Identities=21% Similarity=0.361 Sum_probs=61.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCC---ChHHHHhhccCCCccccccccccccCccccCCCCChHHHHHHHHHHHH-h-----C
Q 017566 60 GPWSPEQDAVLSELVSKFGAR---NWSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDEEDQIIVAAHAV-H-----G 130 (369)
Q Consensus 60 g~WT~EED~~L~~lV~~~g~~---nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~Ll~lv~~-~-----G 130 (369)
..||.-|...|+++++..... +-..|++.++||+..++++- .+.|. ++.+.+++++ | |
T Consensus 22 ~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~f-l~~LK------------~rvareaiqkv~~~g~~~ 88 (344)
T PF11035_consen 22 AAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDF-LQQLK------------GRVAREAIQKVHPGGLKG 88 (344)
T ss_pred ccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHH-HHHHH------------HHHHHHHHHHhccccccc
Confidence 479999999999999876322 46788999999999888763 33332 2333444433 2 2
Q ss_pred C------------cHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 131 N------------KWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 131 ~------------~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
. -|..+|..+.|.-...+-.-|-+.|-
T Consensus 89 ~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 89 PRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 1 29999999999999999888877654
No 76
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=58.00 E-value=11 Score=40.52 Aligned_cols=50 Identities=22% Similarity=0.430 Sum_probs=45.1
Q ss_pred cCCCCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHhh
Q 017566 110 KRKPFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159 (369)
Q Consensus 110 kr~~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~rk 159 (369)
....|+.+|-++...+....|.+.+.|+..+++|+..|||.+|..--+|.
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r~ 457 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKRN 457 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhcc
Confidence 45689999999999999999999999999999999999999997655554
No 77
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=57.54 E-value=4.3 Score=41.55 Aligned_cols=80 Identities=21% Similarity=0.361 Sum_probs=55.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChHHHHhh-----ccC-CCcccccccccccc----------Ccc-ccCCCCChHHHHHH
Q 017566 60 GPWSPEQDAVLSELVSKFGARNWSLIARG-----IAG-RSGKSCRLRWCNQL----------DPA-VKRKPFTDEEDQII 122 (369)
Q Consensus 60 g~WT~EED~~L~~lV~~~g~~nW~~IA~~-----lpg-Rt~~qcr~Rw~~~L----------~p~-~kr~~WT~EED~~L 122 (369)
..||.+|-+-|.++..+|.- +|.-||.. .+. ||....++||+... ++. ++.-++..|-|..=
T Consensus 131 n~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s~sdllk~~~yd~e~Er~R 209 (445)
T KOG2656|consen 131 NSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPSNSDLLKSLVYDAEHERER 209 (445)
T ss_pred ccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCCchhhhhccccchHHHHHH
Confidence 56999999999999999995 69999876 454 99999999997543 122 33445555555432
Q ss_pred HHHHHHhCCcHHHHHhhCCCCCHHHHHHH
Q 017566 123 VAAHAVHGNKWAVISRLLPGRTDNAIKNH 151 (369)
Q Consensus 123 l~lv~~~G~~W~~IA~~l~gRT~~qck~R 151 (369)
.+. +.+++ .||+.||..-
T Consensus 210 Kk~----------L~~L~-sRt~~qvaEE 227 (445)
T KOG2656|consen 210 KKY----------LERLL-SRTPEQVAEE 227 (445)
T ss_pred HHH----------HHHHH-hcCHHHHHHH
Confidence 222 22344 8999988764
No 78
>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=57.29 E-value=24 Score=28.99 Aligned_cols=39 Identities=13% Similarity=0.330 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+..++.++...|..+..||+.+ |=+...|+++....+++
T Consensus 115 ~~~ii~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 115 EREVLVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HHHHHhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344445555688899999999 77999999988875544
No 79
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=54.88 E-value=29 Score=27.92 Aligned_cols=39 Identities=21% Similarity=0.316 Sum_probs=28.8
Q ss_pred HHHHHHHHHhCC--------cHHHHHhhCCCC-----CHHHHHHHHHHHHHh
Q 017566 120 QIIVAAHAVHGN--------KWAVISRLLPGR-----TDNAIKNHWNSTLRR 158 (369)
Q Consensus 120 ~~Ll~lv~~~G~--------~W~~IA~~l~gR-----T~~qck~Rw~~~l~r 158 (369)
-.|..+|.+.|. .|..||+.|.-. ...+++..|.++|..
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 467777888773 599999988332 357889999888764
No 80
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=54.83 E-value=8.5 Score=33.86 Aligned_cols=44 Identities=14% Similarity=0.148 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCccc
Q 017566 65 EQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAV 109 (369)
Q Consensus 65 EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~ 109 (369)
+-|.+|+.++++.|...|..||+.+ |-+...|+.|+++..+.++
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~Gv 52 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGI 52 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCC
Confidence 5789999999999988999999999 8999999999987765554
No 81
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=54.41 E-value=27 Score=28.34 Aligned_cols=45 Identities=13% Similarity=0.179 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHhCC-cHHHHHhhCCCCCHHHHHHHHHHHHHhhhhh
Q 017566 117 EEDQIIVAAHAVHGN-KWAVISRLLPGRTDNAIKNHWNSTLRRRGVE 162 (369)
Q Consensus 117 EED~~Ll~lv~~~G~-~W~~IA~~l~gRT~~qck~Rw~~~l~rk~~~ 162 (369)
+.|.+|+.++.+.|. .++.||+.+ |-+...|+.|.+.+....+..
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 568889999888875 599999999 999999999999987766544
No 82
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=54.07 E-value=9.3 Score=39.01 Aligned_cols=41 Identities=22% Similarity=0.336 Sum_probs=35.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHH-hhccCCCccccccccc
Q 017566 61 PWSPEQDAVLSELVSKFGARNWSLIA-RGIAGRSGKSCRLRWC 102 (369)
Q Consensus 61 ~WT~EED~~L~~lV~~~g~~nW~~IA-~~lpgRt~~qcr~Rw~ 102 (369)
.|+.+|-..+.+.++.|| .++..|- -.++.|+..-|-+-|+
T Consensus 279 ~wsEeEcr~FEegl~~yG-KDF~lIr~nkvrtRsvgElVeyYY 320 (445)
T KOG4329|consen 279 GWSEEECRNFEEGLELYG-KDFHLIRANKVRTRSVGELVEYYY 320 (445)
T ss_pred cCCHHHHHHHHHHHHHhc-ccHHHHHhcccccchHHHHHHHHH
Confidence 599999999999999999 5899995 4788999988877664
No 83
>PF11626 Rap1_C: TRF2-interacting telomeric protein/Rap1 - C terminal domain; InterPro: IPR021661 This family of proteins represents the C-terminal domain of the protein Rap-1, which plays a distinct role in silencing at the silent mating-type loci and telomeres []. The Rap-1 C terminus adopts an all-helical fold. Rap1 carries out its function by recruiting the Sir3 and Sir4 proteins to chromatin via its C-terminal domain []. ; PDB: 3K6G_C 3CZ6_A 3OWT_A.
Probab=53.98 E-value=6.1 Score=31.81 Aligned_cols=17 Identities=24% Similarity=0.403 Sum_probs=10.0
Q ss_pred ccccCCCCChHHHHHHH
Q 017566 107 PAVKRKPFTDEEDQIIV 123 (369)
Q Consensus 107 p~~kr~~WT~EED~~Ll 123 (369)
|....|-||+|+|+.|.
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 55667899999999984
No 84
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=53.86 E-value=29 Score=30.09 Aligned_cols=37 Identities=8% Similarity=0.221 Sum_probs=27.9
Q ss_pred HHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 121 IIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 121 ~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.++.++...|-.+..||..| |.+...|+.+....+++
T Consensus 135 ~vl~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 135 TAITLREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34444445678899999999 99999999887764443
No 85
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=53.60 E-value=16 Score=39.61 Aligned_cols=47 Identities=9% Similarity=0.349 Sum_probs=35.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCChHHHHhhc----------cCCCccccccccccccC
Q 017566 59 KGPWSPEQDAVLSELVSKFGARNWSLIARGI----------AGRSGKSCRLRWCNQLD 106 (369)
Q Consensus 59 kg~WT~EED~~L~~lV~~~g~~nW~~IA~~l----------pgRt~~qcr~Rw~~~L~ 106 (369)
|..||-.|..-+..++..+| .++..|-..+ .-+|..|+|.+|++.+.
T Consensus 88 ktaWt~~E~~~Ffdal~~~G-KdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVG-KDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVR 144 (782)
T ss_pred ccccchhhHHHHHHHHHHhc-ccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHH
Confidence 66899999999999999999 5798883322 13455778887776543
No 86
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=51.70 E-value=30 Score=35.57 Aligned_cols=60 Identities=20% Similarity=0.262 Sum_probs=47.8
Q ss_pred ccCCCCChHHHHHHHHHHHHhCC----------------cHHHHHhhC-----CCCCHHHHHHHHHHHHHhhhhhhhhhh
Q 017566 109 VKRKPFTDEEDQIIVAAHAVHGN----------------KWAVISRLL-----PGRTDNAIKNHWNSTLRRRGVELRRTM 167 (369)
Q Consensus 109 ~kr~~WT~EED~~Ll~lv~~~G~----------------~W~~IA~~l-----~gRT~~qck~Rw~~~l~rk~~~~~~~~ 167 (369)
.--|.|+++=|+.+.++.+.|-+ +=..||+++ ..||..||..|-+.+-||++++.+...
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~reiq~kl 153 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREIQAKL 153 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHhhh
Confidence 34588999999999999988842 367889876 348999999999999888887765544
Q ss_pred c
Q 017566 168 K 168 (369)
Q Consensus 168 ~ 168 (369)
+
T Consensus 154 k 154 (455)
T KOG3841|consen 154 K 154 (455)
T ss_pred h
Confidence 3
No 87
>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=51.19 E-value=49 Score=22.09 Aligned_cols=37 Identities=11% Similarity=0.310 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHH
Q 017566 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNST 155 (369)
Q Consensus 118 ED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~ 155 (369)
++..++.++...|..+..||..+ |=+...|+.+....
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 35566666656788899999998 78888887766553
No 88
>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=49.60 E-value=27 Score=28.17 Aligned_cols=30 Identities=20% Similarity=0.296 Sum_probs=24.5
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHH
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIK 149 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck 149 (369)
|..|..+....|..|..+|+.| |=+..+|.
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 5678888899999999999999 76665543
No 89
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=48.16 E-value=8.6 Score=34.30 Aligned_cols=45 Identities=16% Similarity=0.098 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCccc
Q 017566 64 PEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAV 109 (369)
Q Consensus 64 ~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~ 109 (369)
.+-|.+|+.++++.|...|..||+.+ |=+...|+.|+++..+.++
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 55789999999999988999999999 8999999999987765554
No 90
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=47.89 E-value=63 Score=29.07 Aligned_cols=38 Identities=18% Similarity=0.273 Sum_probs=29.2
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
++.++.+....|....+||..| |-+...|++|+...++
T Consensus 139 ~r~i~~l~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~ 176 (192)
T PRK09643 139 QRAALVAVDMQGYSVADAARML-GVAEGTVKSRCARGRA 176 (192)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3444555556788899999999 9999999999866443
No 91
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=47.64 E-value=40 Score=29.09 Aligned_cols=35 Identities=17% Similarity=0.242 Sum_probs=26.7
Q ss_pred HHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 123 VAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 123 l~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.++...|..+..||..| |-+...|+++.....++
T Consensus 134 ~~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 168 (179)
T PRK11924 134 FLLRYVEGLSYREIAEIL-GVPVGTVKSRLRRARQL 168 (179)
T ss_pred hhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333445577899999999 99999999988775443
No 92
>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=46.19 E-value=28 Score=26.51 Aligned_cols=27 Identities=26% Similarity=0.465 Sum_probs=21.5
Q ss_pred cHHHHHhhCCC-CCHHHHHHHHHHHHHh
Q 017566 132 KWAVISRLLPG-RTDNAIKNHWNSTLRR 158 (369)
Q Consensus 132 ~W~~IA~~l~g-RT~~qck~Rw~~~l~r 158 (369)
-|..||..|.. -+..+|+.||.++..+
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~ 55 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDR 55 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHH
Confidence 39999999953 5788999999985543
No 93
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=44.08 E-value=48 Score=29.11 Aligned_cols=36 Identities=11% Similarity=0.130 Sum_probs=26.9
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.+....|..+.+||..| |-|...|+++.....++
T Consensus 144 il~l~~~~~~s~~eIA~~l-gis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 144 VIVLKYIEDLSLKEISEIL-DLPVGTVKTRIHRGREA 179 (187)
T ss_pred HhhhHHhhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334444577899999999 99999999987765443
No 94
>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=44.08 E-value=27 Score=27.73 Aligned_cols=29 Identities=24% Similarity=0.523 Sum_probs=23.3
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHH
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAI 148 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qc 148 (369)
|..|..+....|..|.++|+.| |=+..+|
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 4567788889999999999999 6666554
No 95
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=43.99 E-value=50 Score=29.77 Aligned_cols=38 Identities=13% Similarity=0.219 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHH
Q 017566 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTL 156 (369)
Q Consensus 118 ED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l 156 (369)
+...++.+....|-.+.+||..| |-+...|+.+|...-
T Consensus 139 ~~~~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 139 RQRRVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 33445555556788999999999 999999999998754
No 96
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=43.68 E-value=43 Score=27.65 Aligned_cols=47 Identities=11% Similarity=0.284 Sum_probs=32.6
Q ss_pred CCCChHHHHHHHHHHHHh----C----CcHHHHHhhCCC-----CCHHHHHHHHHHHHHh
Q 017566 112 KPFTDEEDQIIVAAHAVH----G----NKWAVISRLLPG-----RTDNAIKNHWNSTLRR 158 (369)
Q Consensus 112 ~~WT~EED~~Ll~lv~~~----G----~~W~~IA~~l~g-----RT~~qck~Rw~~~l~r 158 (369)
.-||++++-.||+++..| | ..|..+...+.+ =+.+|+.++.+.+-+|
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 469999999999998766 6 246555444322 3778888888774444
No 97
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=43.53 E-value=58 Score=27.83 Aligned_cols=37 Identities=11% Similarity=0.093 Sum_probs=28.4
Q ss_pred HHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 121 IIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 121 ~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.++.++...|-.-.+||..| |-+...|++|....+++
T Consensus 113 ~v~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 113 EAFLLRYWEDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred HHHHHHHHhcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34444455678899999999 99999999998765544
No 98
>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=43.53 E-value=51 Score=28.68 Aligned_cols=37 Identities=11% Similarity=0.254 Sum_probs=27.5
Q ss_pred HHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 121 IIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 121 ~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.++.++...|.....||..| |-|...|++|....+++
T Consensus 126 ~i~~l~~~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 126 TAIILRYYHDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34444445677899999999 88999999988765544
No 99
>PRK04217 hypothetical protein; Provisional
Probab=43.32 E-value=61 Score=27.56 Aligned_cols=44 Identities=14% Similarity=0.073 Sum_probs=35.4
Q ss_pred CCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 113 PFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 113 ~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.-|++| ..++.++...|-....||+.+ |-+...|+.+++...++
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 455665 677788877888999999999 99999999998874443
No 100
>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=42.82 E-value=42 Score=29.62 Aligned_cols=33 Identities=9% Similarity=0.188 Sum_probs=25.4
Q ss_pred HHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 125 AHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 125 lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+....|.....||..| |=|...|+++....+++
T Consensus 149 l~~~~~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 149 LRELEGLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred hhhhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3334577899999999 88999999998765443
No 101
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=42.60 E-value=59 Score=28.49 Aligned_cols=41 Identities=17% Similarity=0.201 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHhh
Q 017566 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159 (369)
Q Consensus 118 ED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~rk 159 (369)
+++.++.+....|-...+||..| |-+...|+.|...-+++-
T Consensus 123 ~~r~v~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~ 163 (172)
T PRK12523 123 KARAAFLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQC 163 (172)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34455556666788999999999 999999999987766553
No 102
>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=42.47 E-value=35 Score=27.38 Aligned_cols=26 Identities=23% Similarity=0.400 Sum_probs=20.6
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHH
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAI 148 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qc 148 (369)
|..+....|..|..+|+.| |-+..+|
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI 35 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEI 35 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHH
Confidence 3345678899999999999 7777766
No 103
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=42.34 E-value=51 Score=28.26 Aligned_cols=45 Identities=11% Similarity=0.086 Sum_probs=37.6
Q ss_pred hHHHHHHHHHHHHhCCc-HHHHHhhCCCCCHHHHHHHHHHHHHhhhh
Q 017566 116 DEEDQIIVAAHAVHGNK-WAVISRLLPGRTDNAIKNHWNSTLRRRGV 161 (369)
Q Consensus 116 ~EED~~Ll~lv~~~G~~-W~~IA~~l~gRT~~qck~Rw~~~l~rk~~ 161 (369)
.+-|.+|+++.++-|.. ++.||+.+ |-+...|++|-+++.+....
T Consensus 7 D~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI 52 (154)
T COG1522 7 DDIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVI 52 (154)
T ss_pred cHHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCce
Confidence 35578899998888865 99999999 99999999999887776533
No 104
>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=41.71 E-value=60 Score=29.12 Aligned_cols=38 Identities=11% Similarity=-0.039 Sum_probs=29.1
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 120 QIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 120 ~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.++.++...|.....||..| |-+...|+.|....+++
T Consensus 137 r~v~~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 137 ARVFMMREVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHHHHHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 334455555678899999999 99999999998765443
No 105
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=41.66 E-value=13 Score=40.17 Aligned_cols=48 Identities=17% Similarity=0.339 Sum_probs=42.5
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccc
Q 017566 54 GRSRVKGPWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWC 102 (369)
Q Consensus 54 ~~~~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~ 102 (369)
++....++||.+|-+++..++..+|. +...|+..+|+|+.+|++..|.
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p~R~rk~iK~K~~ 451 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS-DFSLISNLFPLRDRKQIKAKFK 451 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc-cccccccccccccHHHHHHHHh
Confidence 34455689999999999999999995 7999999999999999999875
No 106
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=40.78 E-value=64 Score=28.11 Aligned_cols=37 Identities=22% Similarity=0.261 Sum_probs=28.1
Q ss_pred HHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 121 IIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 121 ~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.++.+....|-.-.+||..| |.+...|+.|....+++
T Consensus 125 ~vl~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 161 (173)
T PRK09645 125 AVLVRSYYRGWSTAQIAADL-GIPEGTVKSRLHYALRA 161 (173)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 34444455677899999999 99999999998765543
No 107
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=40.11 E-value=62 Score=28.90 Aligned_cols=37 Identities=14% Similarity=0.065 Sum_probs=28.0
Q ss_pred HHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 121 IIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 121 ~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.++.+....|-....||..| |-+...|++|....+++
T Consensus 113 ~i~~l~~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 113 EALRLTELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred HHHHHHHhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34444445678899999999 99999999998765443
No 108
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=39.89 E-value=64 Score=28.92 Aligned_cols=36 Identities=3% Similarity=-0.156 Sum_probs=27.3
Q ss_pred HHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 121 IIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 121 ~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
.++.+....|-....||..| |-+...|+.|....++
T Consensus 141 ~v~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~RAr~ 176 (189)
T PRK12530 141 RVFMMREYLELSSEQICQEC-DISTSNLHVLLYRARL 176 (189)
T ss_pred HHHhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 33344444577899999999 9999999999776543
No 109
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=39.82 E-value=70 Score=27.48 Aligned_cols=39 Identities=10% Similarity=0.037 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.++.+....|-.-.+||..| |-+...|++|....+++
T Consensus 111 ~r~v~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 111 YRDVVLAHYLEEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred HHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3444455556688899999999 99999999997765443
No 110
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=39.80 E-value=69 Score=28.39 Aligned_cols=38 Identities=13% Similarity=0.031 Sum_probs=30.0
Q ss_pred HHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHhh
Q 017566 121 IIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRR 159 (369)
Q Consensus 121 ~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~rk 159 (369)
.++.++...|-...+||..| |-+...|+.|...-+++-
T Consensus 134 ~v~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~ 171 (178)
T PRK12529 134 QAFLMATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTC 171 (178)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 34455556688899999999 999999999988766553
No 111
>PLN03162 golden-2 like transcription factor; Provisional
Probab=39.67 E-value=95 Score=32.01 Aligned_cols=39 Identities=23% Similarity=0.389 Sum_probs=28.6
Q ss_pred cCCCCCCCCCCCCHHHHHHHHHHHHHhCCCC--hHHHHhhc
Q 017566 51 KRSGRSRVKGPWSPEQDAVLSELVSKFGARN--WSLIARGI 89 (369)
Q Consensus 51 ~~~~~~~~kg~WT~EED~~L~~lV~~~g~~n--W~~IA~~l 89 (369)
...++++.|-.||+|=.++++++|.+.|..+ =+.|-+.|
T Consensus 229 ~~~g~KKpRLrWTpELH~rFVeAV~qLG~dKATPK~ILelM 269 (526)
T PLN03162 229 AAPGKKKAKVDWTPELHRRFVHAVEQLGVEKAFPSRILELM 269 (526)
T ss_pred cCCCCCCCcccCCHHHHHHHHHHHHHhCcCccchHHHHHHc
Confidence 3444566677899999999999999999431 35555554
No 112
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=39.41 E-value=60 Score=28.91 Aligned_cols=35 Identities=6% Similarity=0.117 Sum_probs=26.2
Q ss_pred HHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 123 VAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 123 l~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.+....|.....||..| |-+...|++|....+++
T Consensus 147 ~~l~~~~g~s~~eIA~~l-gis~~tv~~~l~Rar~~ 181 (193)
T PRK11923 147 LTLREFDGLSYEDIASVM-QCPVGTVRSRIFRAREA 181 (193)
T ss_pred HhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333344567799999999 88999999998765544
No 113
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=39.19 E-value=69 Score=28.49 Aligned_cols=35 Identities=9% Similarity=0.193 Sum_probs=26.9
Q ss_pred HHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 123 VAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 123 l~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.+....|-....||..| |-+...|++|+...+++
T Consensus 140 l~l~~~~~~s~~eIA~~l-gis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 140 IDLVYYHEKSVEEVGEIV-GIPESTVKTRMFYARKK 174 (189)
T ss_pred HHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 334445677899999999 88999999998775443
No 114
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=39.18 E-value=69 Score=28.75 Aligned_cols=36 Identities=6% Similarity=0.124 Sum_probs=27.1
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.++...|-...+||..| |-+...|+.|....+++
T Consensus 149 v~~l~~~eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 149 VLQAVYLEELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred HHHHHHHcCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 4444445577899999999 99999999987765443
No 115
>PF09905 DUF2132: Uncharacterized conserved protein (DUF2132); InterPro: IPR018668 This entry contains proteins that have no known function. ; PDB: 2JVW_A.
Probab=39.02 E-value=40 Score=26.02 Aligned_cols=44 Identities=23% Similarity=0.585 Sum_probs=29.5
Q ss_pred HHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCccc-------cCCCCChHHHHHH
Q 017566 67 DAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPAV-------KRKPFTDEEDQII 122 (369)
Q Consensus 67 D~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~~-------kr~~WT~EED~~L 122 (369)
+.+|.++|+.|| |..+++.|.=|+= ..+|.+ ++.||-.+.-+.|
T Consensus 12 e~il~~Lv~~yG---W~~L~~~i~i~CF---------~~~PsikSSLkFLRkTpWAR~KVE~l 62 (64)
T PF09905_consen 12 ETILTELVEHYG---WEELGERININCF---------KNNPSIKSSLKFLRKTPWAREKVENL 62 (64)
T ss_dssp HHHHHHHHHHT----HHHHHHHTTSSST---------TSS--HHHHHHHHHHSHHHHHHHHHH
T ss_pred HHHHHHHHHHhC---HHHHHhhcccccC---------CCCCchHHHHHHHhcCHhHHHHHHHh
Confidence 578999999999 9999998853321 123433 5678877766655
No 116
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=38.95 E-value=95 Score=32.95 Aligned_cols=61 Identities=16% Similarity=0.213 Sum_probs=49.1
Q ss_pred HHHHhhccCCCccccccccccccCccccCCCCChHHHHHHHHHHHHhCCcHHHHHh-hCCCCCHHHHHHHHH
Q 017566 83 SLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDEEDQIIVAAHAVHGNKWAVISR-LLPGRTDNAIKNHWN 153 (369)
Q Consensus 83 ~~IA~~lpgRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~Ll~lv~~~G~~W~~IA~-~l~gRT~~qck~Rw~ 153 (369)
+.|+-.+|-=-+.-||+. ...|+..|-.++-++..+||+.+..|-. +||=++-..|-..|+
T Consensus 267 ~Ais~LVPlGGPvLCRDe----------mEEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 267 KAISYLVPLGGPVLCRDE----------MEEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred HHHHHhhcCCCceeehhh----------hhhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 455556664456667764 3589999999999999999999999965 889999999988775
No 117
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=38.83 E-value=60 Score=28.50 Aligned_cols=29 Identities=14% Similarity=0.110 Sum_probs=23.4
Q ss_pred HhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 128 VHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 128 ~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
..|.....||..| |-+...|+++....++
T Consensus 150 ~~g~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T TIGR02948 150 MEDLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3467799999999 8899999998876444
No 118
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=38.81 E-value=71 Score=28.38 Aligned_cols=36 Identities=22% Similarity=0.246 Sum_probs=26.9
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.++...|....+||..| |-+...|+.|....+++
T Consensus 147 i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 147 ILILRVVVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344445577899999999 99999999987765443
No 119
>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=38.38 E-value=36 Score=27.00 Aligned_cols=33 Identities=27% Similarity=0.484 Sum_probs=25.4
Q ss_pred hHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHH
Q 017566 116 DEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKN 150 (369)
Q Consensus 116 ~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~ 150 (369)
+||-++|+..= ..|.+|..+|+.| |=+...|++
T Consensus 2 ~~~v~~ll~~~-nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLESG-RPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhCC-CCccCHHHHHHHc-CCCHHHHHH
Confidence 57888887422 5688999999999 877777765
No 120
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=38.22 E-value=73 Score=28.10 Aligned_cols=37 Identities=16% Similarity=0.190 Sum_probs=27.8
Q ss_pred HHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 121 IIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 121 ~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.++.++...|....+||..| |-+...|+.+....+++
T Consensus 138 ~v~~l~~~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 138 DVVQSISVEGASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred HHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 34444445577899999999 99999999988765544
No 121
>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=38.06 E-value=39 Score=27.26 Aligned_cols=30 Identities=27% Similarity=0.422 Sum_probs=23.7
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHHHHHH
Q 017566 120 QIIVAAHAVHGNKWAVISRLLPGRTDNAIKN 150 (369)
Q Consensus 120 ~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~ 150 (369)
+.|-.+....|.+|..+|+.| |=+..+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 345556678899999999999 888877755
No 122
>PF09197 Rap1-DNA-bind: Rap1, DNA-binding; InterPro: IPR015280 Members of this entry, which are predominantly found in the yeast protein Rap1, assume a secondary structure consisting of a three-helix bundle and an N-terminal arm. They contain an Arg-Asp-Arg-Lys sequence that interacts with an ACAregion in the 3, region of the DNA-binding site []. ; PDB: 1IGN_A 3UKG_A.
Probab=37.53 E-value=26 Score=29.68 Aligned_cols=17 Identities=18% Similarity=0.372 Sum_probs=13.1
Q ss_pred CCCHHHHHHHHHHHHHh
Q 017566 61 PWSPEQDAVLSELVSKF 77 (369)
Q Consensus 61 ~WT~EED~~L~~lV~~~ 77 (369)
+||++||-.|...|.+|
T Consensus 1 kfTA~dDY~Lc~~i~~~ 17 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQ 17 (105)
T ss_dssp ---HHHHHHHHHHHHHH
T ss_pred CCChHHHHHHHHHHHHH
Confidence 48999999999999877
No 123
>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=36.51 E-value=68 Score=28.76 Aligned_cols=46 Identities=13% Similarity=0.193 Sum_probs=37.9
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHhhCC----CCCHHHHHHHHHHHH
Q 017566 111 RKPFTDEEDQIIVAAHAVHGNKWAVISRLLP----GRTDNAIKNHWNSTL 156 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G~~W~~IA~~l~----gRT~~qck~Rw~~~l 156 (369)
...-|..|..-|..|+.+||.++...++-.. -.|..||+.+...+.
T Consensus 114 ~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 114 PRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 4466899999999999999999999998432 489999998887653
No 124
>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=36.33 E-value=48 Score=26.53 Aligned_cols=31 Identities=19% Similarity=0.363 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHH
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKN 150 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~ 150 (369)
+..|-.+....|.+|..+|+.| |=+..+|..
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 4567777889999999999999 777776654
No 125
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=36.15 E-value=88 Score=26.54 Aligned_cols=32 Identities=13% Similarity=0.060 Sum_probs=23.8
Q ss_pred HHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 125 AHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 125 lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
+....|....+||..+ |-+...|+++-...++
T Consensus 117 l~~~~~~s~~EIA~~l-~is~~tV~~~~~ra~~ 148 (154)
T PRK06759 117 ERFFVGKTMGEIALET-EMTYYQVRWIYRQALE 148 (154)
T ss_pred HHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3334466789999999 9999999988766444
No 126
>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]
Probab=36.05 E-value=37 Score=38.14 Aligned_cols=29 Identities=21% Similarity=0.354 Sum_probs=22.9
Q ss_pred cCCCCChHHHHHHHHHHHHhCC----cHHHHHh
Q 017566 110 KRKPFTDEEDQIIVAAHAVHGN----KWAVISR 138 (369)
Q Consensus 110 kr~~WT~EED~~Ll~lv~~~G~----~W~~IA~ 138 (369)
+..+.|.+||.-|+-.+.++|- .|..+-.
T Consensus 894 k~~~ys~~edrfL~~~l~K~g~~~~~~~e~lr~ 926 (971)
T KOG0385|consen 894 KGKNYSEEEDRFLECMLHKLGFDAENVYEELRQ 926 (971)
T ss_pred cCCCCchhhHHHHHHHHHHhccCchhHHHHHHH
Confidence 5678999999999999999983 2665543
No 127
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=35.98 E-value=74 Score=23.35 Aligned_cols=33 Identities=24% Similarity=0.317 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHH
Q 017566 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNH 151 (369)
Q Consensus 118 ED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~R 151 (369)
.++-.+.+..+.|-.=.+||+.+ ||+.+.|++.
T Consensus 8 ~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~y 40 (50)
T PF11427_consen 8 AEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRY 40 (50)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHH
T ss_pred HHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHH
Confidence 34555667778999999999999 9999888764
No 128
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=35.80 E-value=81 Score=28.32 Aligned_cols=36 Identities=14% Similarity=0.092 Sum_probs=27.1
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.++...|-.+.+||+.| |=+...|++|....+++
T Consensus 144 i~~L~~~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 144 AVVLRHIEGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred HHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 4444445677899999999 99999999987765443
No 129
>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=35.46 E-value=86 Score=26.94 Aligned_cols=33 Identities=24% Similarity=0.280 Sum_probs=24.6
Q ss_pred HHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 124 AAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 124 ~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
.++...|-...+||+.| |-+...|+.|....++
T Consensus 132 ~l~~~~g~s~~eIA~~l-~is~~tv~~~l~ra~~ 164 (170)
T TIGR02952 132 ALRFGQNLPIAEVARIL-GKTEGAVKILQFRAIK 164 (170)
T ss_pred HHHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 33334577889999999 9999999988765443
No 130
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=35.24 E-value=1.1e+02 Score=25.22 Aligned_cols=69 Identities=17% Similarity=0.308 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHHHh----CC---CChHHHHhhccCC-----Ccccc-------ccccccccCccccC---CCCCh
Q 017566 59 KGPWSPEQDAVLSELVSKF----GA---RNWSLIARGIAGR-----SGKSC-------RLRWCNQLDPAVKR---KPFTD 116 (369)
Q Consensus 59 kg~WT~EED~~L~~lV~~~----g~---~nW~~IA~~lpgR-----t~~qc-------r~Rw~~~L~p~~kr---~~WT~ 116 (369)
...||++++-.|++++..| |. .+|..+...+.+. +..|. +.||.+.... .+. ..++.
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~~ 82 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFSK 82 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCCC
Confidence 4579999999999999888 42 2576666655322 22232 3355544433 122 26788
Q ss_pred HHHHHHHHHHHH
Q 017566 117 EEDQIIVAAHAV 128 (369)
Q Consensus 117 EED~~Ll~lv~~ 128 (369)
.-|+.+.+|-++
T Consensus 83 ~hd~~~f~Lsk~ 94 (98)
T PF04504_consen 83 PHDRRLFELSKK 94 (98)
T ss_pred HhHHHHHHHHHH
Confidence 888888877653
No 131
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=33.95 E-value=91 Score=28.03 Aligned_cols=39 Identities=15% Similarity=0.199 Sum_probs=29.8
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.++.|....|-...+||..| |-+...|+.|....+++
T Consensus 121 ~r~i~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~ 159 (187)
T PRK12516 121 QREAIILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQR 159 (187)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 4445555556688899999999 99999999987765443
No 132
>PRK00118 putative DNA-binding protein; Validated
Probab=33.81 E-value=1.1e+02 Score=25.79 Aligned_cols=41 Identities=10% Similarity=0.097 Sum_probs=33.5
Q ss_pred hHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 116 DEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 116 ~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
++.++.++.++...|...+.||+.+ |-+...|+.+.....+
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArk 59 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEK 59 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 5567777888888899999999999 9999999888765443
No 133
>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=33.71 E-value=54 Score=25.50 Aligned_cols=29 Identities=21% Similarity=0.378 Sum_probs=21.5
Q ss_pred HHHHHHHHHH-hCCcHHHHHhhCCCCCHHHH
Q 017566 119 DQIIVAAHAV-HGNKWAVISRLLPGRTDNAI 148 (369)
Q Consensus 119 D~~Ll~lv~~-~G~~W~~IA~~l~gRT~~qc 148 (369)
.+.|..++.. .|+.|..+|+.| |-+..+|
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKL-GLSEADI 34 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHc-CCCHHHH
Confidence 4566677777 899999999999 5455544
No 134
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=33.56 E-value=88 Score=27.93 Aligned_cols=36 Identities=11% Similarity=0.099 Sum_probs=27.2
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.+....|-...+||..| |-+...|+.|....+++
T Consensus 138 v~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 173 (185)
T PRK09649 138 ALLLTQLLGLSYADAAAVC-GCPVGTIRSRVARARDA 173 (185)
T ss_pred HhhhHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3333444577899999999 99999999998765543
No 135
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=33.16 E-value=1.1e+02 Score=26.43 Aligned_cols=39 Identities=21% Similarity=0.166 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.++.+....|-...+||..+ |-+...|+.|....+++
T Consensus 118 ~r~v~~L~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 118 VKRAFLLAQVDGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3344455556688899999999 99999999988765443
No 136
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=33.10 E-value=1e+02 Score=26.70 Aligned_cols=38 Identities=13% Similarity=0.146 Sum_probs=28.5
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 120 QIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 120 ~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.++.++...|-....||..| |-+...|++|....+++
T Consensus 118 r~v~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 155 (164)
T PRK12547 118 REAIILIGASGFSYEDAAAIC-GCAVGTIKSRVSRARNR 155 (164)
T ss_pred HHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 344445555677899999999 99999999988765443
No 137
>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=32.59 E-value=1e+02 Score=26.94 Aligned_cols=35 Identities=20% Similarity=0.327 Sum_probs=26.6
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
++.+....|-....||..| |-+...|+.|....++
T Consensus 142 v~~l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 176 (183)
T TIGR02999 142 VVELRFFAGLTVEEIAELL-GVSVRTVERDWRFARA 176 (183)
T ss_pred HHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 3334445577899999999 9999999999876443
No 138
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=32.52 E-value=1e+02 Score=27.25 Aligned_cols=35 Identities=20% Similarity=0.243 Sum_probs=27.3
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
++.++...|-...+||..| |.+...|+++....++
T Consensus 137 v~~l~~~~g~s~~EIA~~l-~is~~tV~~~l~rar~ 171 (181)
T PRK12536 137 PIVHVKLEGLSVAETAQLT-GLSESAVKVGIHRGLK 171 (181)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3444455678899999999 9999999999876443
No 139
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=32.41 E-value=94 Score=27.79 Aligned_cols=37 Identities=8% Similarity=0.094 Sum_probs=28.0
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 120 QIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 120 ~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
+.++.+....|..-..||..| |-+...|+.|....++
T Consensus 142 r~i~~L~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 178 (195)
T PRK12532 142 ARVFTLKEILGFSSDEIQQMC-GISTSNYHTIMHRARE 178 (195)
T ss_pred HHHhhhHHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 334444455688899999999 9999999998876444
No 140
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=32.40 E-value=60 Score=38.19 Aligned_cols=70 Identities=19% Similarity=0.239 Sum_probs=45.3
Q ss_pred CCCCHHHHHHHHHHHHHhCCCChHHHHh--hccCCCccccccccccccCccccCCCCChHHHHHHHHHHHHh-CCcHHHH
Q 017566 60 GPWSPEQDAVLSELVSKFGARNWSLIAR--GIAGRSGKSCRLRWCNQLDPAVKRKPFTDEEDQIIVAAHAVH-GNKWAVI 136 (369)
Q Consensus 60 g~WT~EED~~L~~lV~~~g~~nW~~IA~--~lpgRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~Ll~lv~~~-G~~W~~I 136 (369)
--|..++|..|+-.|-+||.++|..|-- .| +=+.+ ..+.-.+-...|=......|+.+...+ +.+|...
T Consensus 1134 ~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L-~l~dK-------i~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~~~ 1205 (1373)
T KOG0384|consen 1134 CDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDL-GLTDK-------IFLVETVPQAKHLQRRADYLLSLLRKHDKGNTPKK 1205 (1373)
T ss_pred cCCCchhhhhHhhhhhhcccccHHHhccCccc-cchhh-------hcccccCCchHHHHHHHHHHHHHHhhcccCCCchh
Confidence 4599999999999999999999999843 11 11111 112222445566667777777777666 4445443
Q ss_pred H
Q 017566 137 S 137 (369)
Q Consensus 137 A 137 (369)
.
T Consensus 1206 ~ 1206 (1373)
T KOG0384|consen 1206 L 1206 (1373)
T ss_pred h
Confidence 3
No 141
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=32.12 E-value=1e+02 Score=27.28 Aligned_cols=35 Identities=11% Similarity=0.300 Sum_probs=27.0
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
++.+....|-.-..||..| |-+...|++|....++
T Consensus 130 i~~l~~~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 164 (185)
T PRK12542 130 VFKYKVFYNLTYQEISSVM-GITEANVRKQFERARK 164 (185)
T ss_pred HHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3444445678899999999 9999999998776544
No 142
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=31.85 E-value=56 Score=26.21 Aligned_cols=26 Identities=19% Similarity=0.309 Sum_probs=21.1
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHH
Q 017566 120 QIIVAAHAVHGNKWAVISRLLPGRTDN 146 (369)
Q Consensus 120 ~~Ll~lv~~~G~~W~~IA~~l~gRT~~ 146 (369)
..|..+....|..|..+|+.| |=+..
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L-Glse~ 28 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL-GLSYR 28 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc-CCCHH
Confidence 467888999999999999998 54333
No 143
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=30.96 E-value=92 Score=27.33 Aligned_cols=36 Identities=14% Similarity=0.195 Sum_probs=27.5
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.++...|-...+||..| |-+...|++|....+++
T Consensus 127 i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 162 (172)
T PRK09651 127 AFLLSQLDGLTYSEIAHKL-GVSVSSVKKYVAKATEH 162 (172)
T ss_pred HhhhhhccCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3334444567899999999 99999999998765554
No 144
>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=30.95 E-value=90 Score=21.38 Aligned_cols=34 Identities=26% Similarity=0.329 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHH
Q 017566 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHW 152 (369)
Q Consensus 118 ED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw 152 (369)
|-+.|.+++..+|.+.+..|+.| |=+...+..+-
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~kl 39 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLL-GISRRTLYRKL 39 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHHH
Confidence 66788899999999999999998 66655555443
No 145
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=30.90 E-value=1.1e+02 Score=26.79 Aligned_cols=29 Identities=10% Similarity=0.164 Sum_probs=23.7
Q ss_pred HhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 128 VHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 128 ~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
..|..-..||..| |.+...|+.|....++
T Consensus 143 ~~g~s~~eIA~~l-gis~~tV~~~l~Rar~ 171 (179)
T PRK12514 143 LEGLSYKELAERH-DVPLNTMRTWLRRSLL 171 (179)
T ss_pred HcCCCHHHHHHHH-CCChHHHHHHHHHHHH
Confidence 3477899999999 9999999998776544
No 146
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=30.72 E-value=1.2e+02 Score=25.90 Aligned_cols=39 Identities=13% Similarity=0.185 Sum_probs=28.8
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+..++.+....|-.-..||..| |-+...|+.|....+++
T Consensus 110 ~r~v~~l~~~~~~s~~eIA~~l-gis~~tv~~~l~ra~~~ 148 (159)
T PRK12527 110 CRDSFLLRKLEGLSHQQIAEHL-GISRSLVEKHIVNAMKH 148 (159)
T ss_pred HHHHHHHHHHcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3344455555677789999999 99999999998765443
No 147
>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=30.12 E-value=67 Score=25.94 Aligned_cols=26 Identities=19% Similarity=0.268 Sum_probs=20.7
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCH
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTD 145 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~ 145 (369)
|-.|..+....|..|..+|+.| |=+.
T Consensus 4 ~~~l~~Ia~~LG~dW~~Lar~L-~vs~ 29 (84)
T cd08805 4 EMKMAVIREHLGLSWAELAREL-QFSV 29 (84)
T ss_pred hhHHHHHHHHhcchHHHHHHHc-CCCH
Confidence 4567778889999999999988 4443
No 148
>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=30.05 E-value=1.2e+02 Score=26.60 Aligned_cols=37 Identities=19% Similarity=0.414 Sum_probs=27.5
Q ss_pred HHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 121 IIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 121 ~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.++.++...|....+||..| |-|...|+.+....+++
T Consensus 147 ~vi~l~~~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 147 EVILLRHLEGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred HHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 34444445677899999999 99999999987765443
No 149
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=29.99 E-value=63 Score=22.48 Aligned_cols=36 Identities=28% Similarity=0.338 Sum_probs=18.5
Q ss_pred CCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHH
Q 017566 113 PFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKN 150 (369)
Q Consensus 113 ~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~ 150 (369)
.+|.+|-..|..++ .-|..=..||+.| ||+...|.+
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 46777777776664 6788899999999 999988765
No 150
>PF15349 DCA16: DDB1- and CUL4-associated factor 16
Probab=29.88 E-value=18 Score=32.47 Aligned_cols=14 Identities=36% Similarity=0.944 Sum_probs=12.2
Q ss_pred CCCCCCCCCCcccC
Q 017566 293 RMVPHWCGYGCCGI 306 (369)
Q Consensus 293 ~~vp~~cg~gcc~~ 306 (369)
-.||+.|-.||||+
T Consensus 167 k~ipnscvsgcccg 180 (216)
T PF15349_consen 167 KQIPNSCVSGCCCG 180 (216)
T ss_pred HhCcchhhcccchh
Confidence 35799999999997
No 151
>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=29.67 E-value=44 Score=28.36 Aligned_cols=29 Identities=14% Similarity=0.152 Sum_probs=23.7
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 129 HGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 129 ~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.|-.+..||..| |=+...|++++....++
T Consensus 120 ~g~s~~eIA~~l-gis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 120 KEFSYKEIAELL-NLSLAKVKSNLFRARKE 148 (154)
T ss_pred ccCcHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356799999999 99999999998765443
No 152
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=29.49 E-value=1.1e+02 Score=27.00 Aligned_cols=35 Identities=9% Similarity=0.060 Sum_probs=25.3
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
++.+....|.....||..| |-+...|+.|....++
T Consensus 136 i~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 170 (186)
T PRK05602 136 AIVLQYYQGLSNIEAAAVM-DISVDALESLLARGRR 170 (186)
T ss_pred HhhHHHhcCCCHHHHHHHh-CcCHHHHHHHHHHHHH
Confidence 3334444577889999998 8899999888765443
No 153
>PLN03162 golden-2 like transcription factor; Provisional
Probab=29.20 E-value=1.4e+02 Score=30.75 Aligned_cols=48 Identities=21% Similarity=0.141 Sum_probs=39.0
Q ss_pred CCCCChHHHHHHHHHHHHhCCc---HHHHHhh--CCCCCHHHHHHHHHHHHHh
Q 017566 111 RKPFTDEEDQIIVAAHAVHGNK---WAVISRL--LPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G~~---W~~IA~~--l~gRT~~qck~Rw~~~l~r 158 (369)
|-.||+|=+++++++|.++|.. =+.|-++ ++|=|..+|+.|.++|...
T Consensus 237 RLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKYRl~ 289 (526)
T PLN03162 237 KVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKYRSH 289 (526)
T ss_pred cccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHHHHh
Confidence 4689999999999999999943 5666664 4788999999998876543
No 154
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=29.07 E-value=1.1e+02 Score=27.61 Aligned_cols=38 Identities=13% Similarity=0.156 Sum_probs=29.1
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 120 QIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 120 ~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.++.++...|-....||..| |-+...|++|....+++
T Consensus 119 r~v~~L~~~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~ 156 (188)
T PRK12546 119 REALILVGASGFSYEEAAEMC-GVAVGTVKSRANRARAR 156 (188)
T ss_pred hHHhhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 344455556788899999999 99999999988765543
No 155
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=28.68 E-value=1.3e+02 Score=26.48 Aligned_cols=31 Identities=23% Similarity=0.259 Sum_probs=24.3
Q ss_pred HHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 127 AVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 127 ~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
...|-.-.+||..+ |-+...|+.+.+..+++
T Consensus 148 ~~~~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 148 YYQGYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred HHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 34567789999999 99999999988765443
No 156
>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=28.51 E-value=1.3e+02 Score=25.85 Aligned_cols=40 Identities=18% Similarity=0.224 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 118 EDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 118 ED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++..++.+....|-.=..||..| |-+...|++|....+++
T Consensus 114 ~~r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 114 RQRAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHHHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 44455555556677899999999 99999999988765543
No 157
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=28.22 E-value=1.3e+02 Score=27.31 Aligned_cols=31 Identities=13% Similarity=-0.107 Sum_probs=24.4
Q ss_pred HHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 126 HAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 126 v~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
+...|..-.+||..| |.+...|+.|....++
T Consensus 151 ~~~eg~s~~EIA~~l-gis~~tVk~~l~RAr~ 181 (201)
T PRK12545 151 REFLDFEIDDICTEL-TLTANHCSVLLYRART 181 (201)
T ss_pred HHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 344567799999999 9999999998765443
No 158
>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=27.84 E-value=1.1e+02 Score=29.72 Aligned_cols=31 Identities=19% Similarity=0.256 Sum_probs=25.1
Q ss_pred HHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 126 HAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 126 v~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
...+|..-.+||..| |.+...|++|....++
T Consensus 154 ~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 184 (324)
T TIGR02960 154 RDVLGWRAAETAELL-GTSTASVNSALQRARA 184 (324)
T ss_pred HHHhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 344577899999999 9999999999876443
No 159
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=27.51 E-value=1e+02 Score=35.79 Aligned_cols=43 Identities=12% Similarity=0.212 Sum_probs=36.2
Q ss_pred CCCChHHHHHHHHHHHHhCCc-HHHHHhhCCCCCHHHHHHHHHH
Q 017566 112 KPFTDEEDQIIVAAHAVHGNK-WAVISRLLPGRTDNAIKNHWNS 154 (369)
Q Consensus 112 ~~WT~EED~~Ll~lv~~~G~~-W~~IA~~l~gRT~~qck~Rw~~ 154 (369)
..||.-+=..++.+..+||.. -..||..|.|+|..+|+.+...
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~~ 868 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAKV 868 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHHH
Confidence 358888888889999999965 9999999999999999965443
No 160
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=26.81 E-value=38 Score=29.06 Aligned_cols=43 Identities=14% Similarity=0.067 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCcc
Q 017566 65 EQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPA 108 (369)
Q Consensus 65 EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~ 108 (369)
+-|.+|++++++.+...+..||+.+ |-+...|+.|-++..+.+
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 5688999999999988999999999 788888888776665444
No 161
>PRK11922 RNA polymerase sigma factor; Provisional
Probab=26.36 E-value=76 Score=29.51 Aligned_cols=29 Identities=14% Similarity=0.166 Sum_probs=23.8
Q ss_pred hCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 129 HGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 129 ~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.|.....||..| |-+...|+++++..+++
T Consensus 164 ~g~s~~EIAe~l-gis~~tVk~~l~Rar~k 192 (231)
T PRK11922 164 EELSVEETAQAL-GLPEETVKTRLHRARRL 192 (231)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466799999999 99999999998765543
No 162
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=26.22 E-value=1.5e+02 Score=26.54 Aligned_cols=30 Identities=13% Similarity=0.117 Sum_probs=23.2
Q ss_pred HHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 127 AVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 127 ~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
...|-...+||..| |-+...|++|-...++
T Consensus 155 ~~~~~s~~EIA~~L-gis~~tVk~~l~ra~~ 184 (194)
T PRK09646 155 YYGGLTYREVAERL-AVPLGTVKTRMRDGLI 184 (194)
T ss_pred HHcCCCHHHHHHHh-CCChHhHHHHHHHHHH
Confidence 34567799999999 8899999888765444
No 163
>PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=26.13 E-value=69 Score=28.09 Aligned_cols=32 Identities=16% Similarity=0.328 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHH-h-CCcHHHHHhhCCCCCHHHHH
Q 017566 117 EEDQIIVAAHAV-H-GNKWAVISRLLPGRTDNAIK 149 (369)
Q Consensus 117 EED~~Ll~lv~~-~-G~~W~~IA~~l~gRT~~qck 149 (369)
+|++.+++|.-. + |..|-.||..| +-+..+|+
T Consensus 84 de~k~Ii~lry~~r~~~TW~~IA~~l-~i~erta~ 117 (130)
T PF05263_consen 84 DEEKRIIKLRYDRRSRRTWYQIAQKL-HISERTAR 117 (130)
T ss_pred HHHHHHHHHHHcccccchHHHHHHHh-CccHHHHH
Confidence 345666666433 3 35699999976 44444443
No 164
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=26.04 E-value=95 Score=24.84 Aligned_cols=28 Identities=21% Similarity=0.415 Sum_probs=20.6
Q ss_pred HHHHHHHHhCCcHHHHHhhCCCCCHHHHH
Q 017566 121 IIVAAHAVHGNKWAVISRLLPGRTDNAIK 149 (369)
Q Consensus 121 ~Ll~lv~~~G~~W~~IA~~l~gRT~~qck 149 (369)
.+--+....|..|..+|+.| |=|..+|.
T Consensus 4 ~f~~i~~~lG~~Wk~laR~L-Glse~~Id 31 (86)
T cd08306 4 AFDVICENVGRDWRKLARKL-GLSETKIE 31 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 34445567799999999999 66666654
No 165
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=25.97 E-value=1.3e+02 Score=28.11 Aligned_cols=46 Identities=24% Similarity=0.342 Sum_probs=35.7
Q ss_pred CCChHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHhhhh
Q 017566 113 PFTDEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRRRGV 161 (369)
Q Consensus 113 ~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~rk~~ 161 (369)
..|+.|-+. +.++.+ |.....||+.| +-+...|++|...+++|-..
T Consensus 155 ~Lt~rE~~V-l~l~~~-G~s~~eIA~~L-~iS~~TVk~~~~~i~~Kl~v 200 (216)
T PRK10100 155 LLTHREKEI-LNKLRI-GASNNEIARSL-FISENTVKTHLYNLFKKIAV 200 (216)
T ss_pred CCCHHHHHH-HHHHHc-CCCHHHHHHHh-CCCHHHHHHHHHHHHHHhCC
Confidence 467755554 455545 99999999999 89999999999988877533
No 166
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=25.70 E-value=1.6e+02 Score=26.24 Aligned_cols=35 Identities=11% Similarity=-0.156 Sum_probs=26.2
Q ss_pred HHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 123 VAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 123 l~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.+....|..-.+||..| |-+...|++|....+++
T Consensus 140 ~~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 174 (191)
T PRK12520 140 FMMREWLELETEEICQEL-QITATNAWVLLYRARMR 174 (191)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333344577789999999 99999999998765443
No 167
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=25.43 E-value=2e+02 Score=23.70 Aligned_cols=44 Identities=18% Similarity=0.158 Sum_probs=35.8
Q ss_pred CCCCChHHHHHHHHHHHHhCCcHHHHHhhCCCC-CHHHHHHHHHHH
Q 017566 111 RKPFTDEEDQIIVAAHAVHGNKWAVISRLLPGR-TDNAIKNHWNST 155 (369)
Q Consensus 111 r~~WT~EED~~Ll~lv~~~G~~W~~IA~~l~gR-T~~qck~Rw~~~ 155 (369)
+..||.|.-..+++++..-|..=+.||+.+ |- .+++++..+..+
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~ 49 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQL 49 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHH
Confidence 568999999999999999999899999999 76 666666544433
No 168
>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=25.31 E-value=49 Score=25.66 Aligned_cols=25 Identities=12% Similarity=0.433 Sum_probs=17.9
Q ss_pred CChHHHH-HHHHHHHHhCCcHHHHHh
Q 017566 114 FTDEEDQ-IIVAAHAVHGNKWAVISR 138 (369)
Q Consensus 114 WT~EED~-~Ll~lv~~~G~~W~~IA~ 138 (369)
+.++.-. -|.+|++.||++|..|-.
T Consensus 23 ~~~~~v~~vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 23 FSKKQVRPVLKNLLKLYDGNWELIEE 48 (65)
T ss_pred CCHHHHHHHHHHHHHHHcCCchhhhc
Confidence 4444433 577888999999999864
No 169
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=24.83 E-value=55 Score=26.48 Aligned_cols=43 Identities=19% Similarity=0.113 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCcc
Q 017566 65 EQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPA 108 (369)
Q Consensus 65 EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~ 108 (369)
+.|.+|+.++...+...+..||+.+ |-+...|+.|..+..+.+
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 5688999999999877899999988 788888888877655444
No 170
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=24.24 E-value=1.7e+02 Score=25.99 Aligned_cols=35 Identities=26% Similarity=0.331 Sum_probs=25.0
Q ss_pred HHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 123 VAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 123 l~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.+...-|..=.+||..| |.+...|++|-+..+++
T Consensus 140 ~~l~~~~g~s~~EIAe~l-gis~~~V~~~l~Ra~~~ 174 (189)
T PRK06811 140 FIRRYLLGEKIEEIAKKL-GLTRSAIDNRLSRGRKK 174 (189)
T ss_pred HHHHHHccCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 333333466788999999 99999999987665443
No 171
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=24.02 E-value=1.5e+02 Score=27.54 Aligned_cols=38 Identities=13% Similarity=0.267 Sum_probs=28.0
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 120 QIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 120 ~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.++.++...|-...+||..+ |-+...|+.+....+++
T Consensus 190 r~vl~l~~~~g~s~~EIA~~l-gis~~tV~~~~~ra~~~ 227 (236)
T PRK06986 190 QLVLSLYYQEELNLKEIGAVL-GVSESRVSQIHSQAIKR 227 (236)
T ss_pred HHHHHhHhccCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334444445567899999999 99999999887765554
No 172
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=23.72 E-value=1.7e+02 Score=25.75 Aligned_cols=35 Identities=23% Similarity=0.284 Sum_probs=25.7
Q ss_pred HHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 123 VAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 123 l~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.+....|-.-..||..| |-+...|++|....+++
T Consensus 142 ~~l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 176 (182)
T PRK12537 142 ILHAYVDGCSHAEIAQRL-GAPLGTVKAWIKRSLKA 176 (182)
T ss_pred HHHHHHcCCCHHHHHHHH-CCChhhHHHHHHHHHHH
Confidence 333344567789999999 88999999988776543
No 173
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=23.32 E-value=1.5e+02 Score=26.41 Aligned_cols=34 Identities=18% Similarity=0.131 Sum_probs=24.6
Q ss_pred HHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 124 AAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 124 ~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
.+....|-.-..||..| |-+...|+.|....+++
T Consensus 151 ~l~~~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 184 (194)
T PRK12519 151 ELAYYEGLSQSEIAKRL-GIPLGTVKARARQGLLK 184 (194)
T ss_pred hhhhhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33344567789999999 88999999887654443
No 174
>smart00141 PDGF Platelet-derived and vascular endothelial growth factors (PDGF, VEGF) family. Platelet-derived growth factor is a potent activator for cells of mesenchymal origin. PDGF-A and PDGF-B form AA and BB homodimers and an AB heterodimer. Members of the VEGF family are homologues of PDGF.
Probab=23.31 E-value=38 Score=27.32 Aligned_cols=11 Identities=45% Similarity=1.326 Sum_probs=8.9
Q ss_pred CCCCCCCcccCC
Q 017566 296 PHWCGYGCCGIQ 307 (369)
Q Consensus 296 p~~cg~gcc~~~ 307 (369)
=+.|| |||+..
T Consensus 31 v~RCg-GCCn~e 41 (83)
T smart00141 31 VQRCG-GCCNDE 41 (83)
T ss_pred eceec-CCCCCC
Confidence 46898 999876
No 175
>PRK09638 RNA polymerase sigma factor SigY; Reviewed
Probab=23.22 E-value=80 Score=27.49 Aligned_cols=31 Identities=13% Similarity=0.344 Sum_probs=24.2
Q ss_pred HHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 127 AVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 127 ~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
..+|.....||..| |-+...|+.+....+++
T Consensus 139 ~~~g~s~~eIA~~l-~is~~~V~~~l~ra~~~ 169 (176)
T PRK09638 139 HYYGYTYEEIAKML-NIPEGTVKSRVHHGIKQ 169 (176)
T ss_pred hhcCCCHHHHHHHH-CCChhHHHHHHHHHHHH
Confidence 34577899999999 88999998887665443
No 176
>PRK09415 RNA polymerase factor sigma C; Reviewed
Probab=23.03 E-value=1.7e+02 Score=25.87 Aligned_cols=32 Identities=13% Similarity=0.124 Sum_probs=23.9
Q ss_pred HHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 126 HAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 126 v~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+...|..-..||..| |-+...|+.|....+++
T Consensus 139 ~~~~g~s~~EIA~~l-~is~~tv~~~l~Ra~~~ 170 (179)
T PRK09415 139 FYYEELSIKEIAEVT-GVNENTVKTRLKKAKEL 170 (179)
T ss_pred HHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 334466788889888 77889999988766544
No 177
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (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. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=22.84 E-value=94 Score=23.52 Aligned_cols=26 Identities=27% Similarity=0.501 Sum_probs=18.7
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHH
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAI 148 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qc 148 (369)
|..+....|+.|..+|+.| |=+..+|
T Consensus 2 ~~~ia~~lg~~W~~la~~L-gl~~~~I 27 (79)
T cd01670 2 LDKLAKKLGKDWKKLARKL-GLSDGEI 27 (79)
T ss_pred HHHHHHHHhhHHHHHHHHh-CCCHHHH
Confidence 3456677899999999998 4444443
No 178
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=22.76 E-value=1.7e+02 Score=28.19 Aligned_cols=30 Identities=27% Similarity=0.356 Sum_probs=24.4
Q ss_pred HHHhCCcHHHHHhhCCCCCHHHHHHHHHHHH
Q 017566 126 HAVHGNKWAVISRLLPGRTDNAIKNHWNSTL 156 (369)
Q Consensus 126 v~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l 156 (369)
+..+|..-.+||..| |.+...|+++.+...
T Consensus 127 ~~~~g~s~~EIA~~l-g~s~~tVk~~l~RAr 156 (293)
T PRK09636 127 HDVFGVPFDEIASTL-GRSPAACRQLASRAR 156 (293)
T ss_pred HHHhCCCHHHHHHHH-CCCHHHHHHHHHHHH
Confidence 344577899999999 999999999887643
No 179
>PRK12538 RNA polymerase sigma factor; Provisional
Probab=22.58 E-value=1.5e+02 Score=27.88 Aligned_cols=30 Identities=10% Similarity=0.072 Sum_probs=24.0
Q ss_pred HhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 128 VHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 128 ~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
..|..-.+||..| |-+...|+.|.+..+++
T Consensus 185 ~eg~s~~EIA~~L-gis~~tVk~~l~RAr~k 214 (233)
T PRK12538 185 HENMSNGEIAEVM-DTTVAAVESLLKRGRQQ 214 (233)
T ss_pred hcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3467789999999 99999999987765443
No 180
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=22.35 E-value=2e+02 Score=24.64 Aligned_cols=37 Identities=11% Similarity=0.279 Sum_probs=28.0
Q ss_pred HHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 120 QIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 120 ~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+.++.++. .|-.=..||..| |-+...|+++....+++
T Consensus 118 r~il~l~~-~g~s~~eIA~~l-gis~~tV~~~i~ra~~~ 154 (166)
T PRK09639 118 RTVLLLRF-SGYSYKEIAEAL-GIKESSVGTTLARAKKK 154 (166)
T ss_pred HHHHHHHH-cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 44455555 777889999999 99999999988765444
No 181
>PF00341 PDGF: PDGF/VEGF domain; InterPro: IPR000072 Platelet-derived growth factor (PDGF) [, ] is a potent mitogen for cells of mesenchymal origin, including smooth muscle cells and glial cells. In both mouse and human, the PDGF signalling network consists of four ligands, PDGFA-D, and two receptors, PDGFRalpha and PDGFRbeta. All PDGFs function as secreted, disulphide-linked homodimers, but only PDGFA and B can form functional heterodimers. PDGFRs also function as homo- and heterodimers. All known PDGFs have characteristic `PDGF domains', which include eight conserved cysteines that are involved in inter- and intramolecular bonds. Alternate splicing of the A chain transcript can give rise to two different forms that differ only in their C-terminal extremity. The transforming protein of Woolly monkey sarcoma virus (WMSV) (Simian sarcoma virus), encoded by the v-sis oncogene, is derived from the B chain of PDGF. PDGFs are mitogenic during early developmental stages, driving the proliferation of undifferentiated mesenchyme and some progenitor populations. During later maturation stages, PDGF signalling has been implicated in tissue remodelling and cellular differentiation, and in inductive events involved in patterning and morphogenesis. In addition to driving mesenchymal proliferation, PDGFs have been shown to direct the migration, differentiation and function of a variety of specialised mesenchymal and migratory cell types, both during development and in the adult animal []. Other growth factors in this family include vascular endothelial growth factors B and C (VEGF-B, VEGF-C) [, ] which are active in angiogenesis and endothelial cell growth, and placenta growth factor (PlGF) which is also active in angiogenesis []. PDGF is structurally related to a number of other growth factors which also form disulphide-linked homo- or heterodimers.; GO: 0008083 growth factor activity, 0016020 membrane; PDB: 1WQ9_B 1RV6_W 1FZV_B 3MJK_Y 2XAC_B 2C7W_B 2VWE_A 2FJG_V 2QR0_U 1MJV_A ....
Probab=22.23 E-value=24 Score=28.05 Aligned_cols=11 Identities=55% Similarity=1.470 Sum_probs=8.9
Q ss_pred CCCCCCCcccCC
Q 017566 296 PHWCGYGCCGIQ 307 (369)
Q Consensus 296 p~~cg~gcc~~~ 307 (369)
=++|| |||+..
T Consensus 29 v~RC~-GCC~~~ 39 (82)
T PF00341_consen 29 VHRCG-GCCNDE 39 (82)
T ss_dssp EEEEE-SBCSST
T ss_pred Ecccc-CCCCCC
Confidence 46899 999875
No 182
>PHA02661 vascular endothelial growth factor like protein; Provisional
Probab=22.18 E-value=40 Score=30.19 Aligned_cols=11 Identities=45% Similarity=1.307 Sum_probs=9.1
Q ss_pred CCCCCCCcccCC
Q 017566 296 PHWCGYGCCGIQ 307 (369)
Q Consensus 296 p~~cg~gcc~~~ 307 (369)
=..|| |||+.+
T Consensus 76 V~RCg-GCCnde 86 (146)
T PHA02661 76 VRRCG-GCCNDE 86 (146)
T ss_pred ecccc-CCCCCC
Confidence 46999 999876
No 183
>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=22.09 E-value=1e+02 Score=27.82 Aligned_cols=37 Identities=27% Similarity=0.244 Sum_probs=27.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCChHHHHhhccCCCcccccc
Q 017566 61 PWSPEQDAVLSELVSKFGARNWSLIARGIAGRSGKSCRL 99 (369)
Q Consensus 61 ~WT~EED~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~ 99 (369)
.||.|..++|.+|...-- .=.+||+.|++.|...+.-
T Consensus 2 ~Wtde~~~~L~~lw~~G~--SasqIA~~lg~vsRnAViG 38 (162)
T PF07750_consen 2 SWTDERVERLRKLWAEGL--SASQIARQLGGVSRNAVIG 38 (162)
T ss_pred CCCHHHHHHHHHHHHcCC--CHHHHHHHhCCcchhhhhh
Confidence 499999999999985533 4799999997555544443
No 184
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=22.08 E-value=2e+02 Score=26.14 Aligned_cols=30 Identities=10% Similarity=0.099 Sum_probs=23.5
Q ss_pred HhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 128 VHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 128 ~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
..|-.=..||..| |.+...|+.|....+++
T Consensus 167 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 196 (206)
T PRK12526 167 FQELSQEQLAQQL-NVPLGTVKSRLRLALAK 196 (206)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 99999999887665443
No 185
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=21.94 E-value=1.5e+02 Score=29.09 Aligned_cols=31 Identities=19% Similarity=0.181 Sum_probs=24.6
Q ss_pred HHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 126 HAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 126 v~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
....|-.-.+||..| |.+...|+.|....++
T Consensus 165 ~~~~g~s~~EIA~~l-gis~~tVk~~l~RAr~ 195 (339)
T PRK08241 165 RDVLGWSAAEVAELL-DTSVAAVNSALQRARA 195 (339)
T ss_pred HHhhCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 334577899999999 9999999998876443
No 186
>PRK01905 DNA-binding protein Fis; Provisional
Probab=21.94 E-value=2.2e+02 Score=22.18 Aligned_cols=35 Identities=14% Similarity=0.264 Sum_probs=26.7
Q ss_pred hHHHHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHH
Q 017566 116 DEEDQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNH 151 (369)
Q Consensus 116 ~EED~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~R 151 (369)
.-|...|..++..+|.++++.|+.+ |=+...++.+
T Consensus 36 ~~E~~~i~~aL~~~~gn~s~aAr~L-GIsrstL~rk 70 (77)
T PRK01905 36 CVEKPLLEVVMEQAGGNQSLAAEYL-GINRNTLRKK 70 (77)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHH-CCCHHHHHHH
Confidence 3466778899999999999999988 6555554443
No 187
>PRK06930 positive control sigma-like factor; Validated
Probab=21.84 E-value=2e+02 Score=25.95 Aligned_cols=39 Identities=10% Similarity=0.204 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
+..++.++...|.....||..| |-+...|+.+....+++
T Consensus 119 er~V~~L~~~eg~s~~EIA~~l-giS~~tVk~~l~Ra~~k 157 (170)
T PRK06930 119 EKEVYLMHRGYGLSYSEIADYL-NIKKSTVQSMIERAEKK 157 (170)
T ss_pred HHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 4455556567888999999999 99999999987765544
No 188
>PF02260 FATC: FATC domain; InterPro: IPR003152 The FATC domain is found at the C-terminal end of the PIK-related kinases. Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding; PDB: 2KIT_A 1W1N_A 2KIO_A.
Probab=21.59 E-value=79 Score=21.04 Aligned_cols=19 Identities=42% Similarity=0.379 Sum_probs=15.7
Q ss_pred hHHHHHHhhhhhhHHhhhc
Q 017566 333 YELAAIATDISNVAWLKSG 351 (369)
Q Consensus 333 ~~~~~~~~~~~~~aw~~~g 351 (369)
.+||+-|||+.|||=|=-|
T Consensus 10 ~~LI~~At~~~nLa~my~G 28 (33)
T PF02260_consen 10 DELISEATDPENLARMYIG 28 (33)
T ss_dssp HHHHHHHHHHHHHHHHCTS
T ss_pred HHHHHHHcCHHHHHHHhcc
Confidence 4799999999999966544
No 189
>COG4628 Uncharacterized conserved protein [Function unknown]
Probab=21.46 E-value=88 Score=27.05 Aligned_cols=44 Identities=30% Similarity=0.668 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhCCCChHHHHhhccCCCccccccccccccCcc-------ccCCCCChHHHHHH
Q 017566 67 DAVLSELVSKFGARNWSLIARGIAGRSGKSCRLRWCNQLDPA-------VKRKPFTDEEDQII 122 (369)
Q Consensus 67 D~~L~~lV~~~g~~nW~~IA~~lpgRt~~qcr~Rw~~~L~p~-------~kr~~WT~EED~~L 122 (369)
+.+|..+|..|| |..++..|+ ..|.. -+|. +++.+|-.|.-+.|
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 578999999999 999998773 33422 1233 35778888776654
No 190
>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=21.28 E-value=88 Score=28.03 Aligned_cols=45 Identities=16% Similarity=0.180 Sum_probs=32.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCChHHHHhhcc----CCCccccccccc
Q 017566 57 RVKGPWSPEQDAVLSELVSKFGARNWSLIARGIA----GRSGKSCRLRWC 102 (369)
Q Consensus 57 ~~kg~WT~EED~~L~~lV~~~g~~nW~~IA~~lp----gRt~~qcr~Rw~ 102 (369)
.....-|..|-.-|..||++|| .++..+|.-.- ..|..||+.+..
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhG-dDy~aMarD~KLN~~Q~T~~qlrrki~ 160 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHG-DDYKAMARDRKLNYMQHTPGQLRRKIR 160 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHC-ccHHHHhccCCCCcccCCHHHHHHHHH
Confidence 4556789999999999999999 57888886432 355555555443
No 191
>PRK09647 RNA polymerase sigma factor SigE; Reviewed
Probab=21.10 E-value=2.1e+02 Score=26.08 Aligned_cols=30 Identities=13% Similarity=0.274 Sum_probs=23.7
Q ss_pred HhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 128 VHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 128 ~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
..|..-..||..| |-+...|+++....+++
T Consensus 152 ~~g~s~~EIA~~L-gis~~tV~~~l~RArk~ 181 (203)
T PRK09647 152 IEGLSYEEIAATL-GVKLGTVRSRIHRGRQQ 181 (203)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3566788999999 99999999988775444
No 192
>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=21.01 E-value=1.9e+02 Score=27.75 Aligned_cols=32 Identities=13% Similarity=0.283 Sum_probs=25.5
Q ss_pred HHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 125 AHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 125 lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
++..+|-.-.+||..| |.|...|+.+.....+
T Consensus 119 L~~~~g~s~~EIA~~l-g~s~~tVr~~l~RAr~ 150 (281)
T TIGR02957 119 LREVFDYPYEEIASIV-GKSEANCRQLVSRARR 150 (281)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3445677899999999 8999999998876443
No 193
>TIGR02980 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G subfamily. This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage.
Probab=20.77 E-value=2.1e+02 Score=26.32 Aligned_cols=36 Identities=14% Similarity=0.202 Sum_probs=26.0
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.++...|..-.+||+.+ |-+...|+.+....+++
T Consensus 186 vl~l~y~~~~s~~eIA~~l-gis~~~v~~~~~ra~~~ 221 (227)
T TIGR02980 186 ILLLRFFEDKTQSEIAERL-GISQMHVSRLLRRALKK 221 (227)
T ss_pred HHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3334444577899999999 88999998877665543
No 194
>PRK12544 RNA polymerase sigma factor; Provisional
Probab=20.73 E-value=2.2e+02 Score=26.05 Aligned_cols=32 Identities=6% Similarity=-0.094 Sum_probs=24.9
Q ss_pred HHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 126 HAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 126 v~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
....|-.-.+||..| |-|...|+.|....+++
T Consensus 160 ~~~~g~s~~EIAe~l-gis~~tV~~~l~RAr~~ 191 (206)
T PRK12544 160 REFIELETNEICHAV-DLSVSNLNVLLYRARLR 191 (206)
T ss_pred HHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 334567789999999 99999999997765443
No 195
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=20.49 E-value=71 Score=24.95 Aligned_cols=36 Identities=28% Similarity=0.338 Sum_probs=26.3
Q ss_pred hHHHHhhccCCCccccccccccccCccccCCCCChHHHHHHHH
Q 017566 82 WSLIARGIAGRSGKSCRLRWCNQLDPAVKRKPFTDEEDQIIVA 124 (369)
Q Consensus 82 W~~IA~~lpgRt~~qcr~Rw~~~L~p~~kr~~WT~EED~~Ll~ 124 (369)
-..||..+.|+|+.+.|..+. + ...+|+||.+.|.+
T Consensus 36 ~~~iA~~i~gks~eeir~~fg------i-~~d~t~eee~~i~~ 71 (78)
T PF01466_consen 36 CKYIANMIKGKSPEEIRKYFG------I-ENDLTPEEEEEIRK 71 (78)
T ss_dssp HHHHHHHHTTS-HHHHHHHHT----------TSSHHHHHHHHH
T ss_pred HHHHHHHhcCCCHHHHHHHcC------C-CCCCCHHHHHHHHH
Confidence 578899999999999998762 2 34689999888643
No 196
>PRK12541 RNA polymerase sigma factor; Provisional
Probab=20.39 E-value=2.1e+02 Score=24.48 Aligned_cols=30 Identities=13% Similarity=0.153 Sum_probs=23.0
Q ss_pred HHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 127 AVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 127 ~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
...|-...+||..| |=+...|+.|.....+
T Consensus 125 ~~~~~s~~eIA~~l-gis~~tv~~~l~Rar~ 154 (161)
T PRK12541 125 DYYGFSYKEIAEMT-GLSLAKVKIELHRGRK 154 (161)
T ss_pred HhcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 34566789999999 8888999988766443
No 197
>PRK12540 RNA polymerase sigma factor; Provisional
Probab=20.35 E-value=2.2e+02 Score=25.36 Aligned_cols=35 Identities=14% Similarity=0.137 Sum_probs=25.7
Q ss_pred HHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHH
Q 017566 122 IVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLR 157 (369)
Q Consensus 122 Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~ 157 (369)
++.+....|-.-.+||..| |-+...|+.|....++
T Consensus 119 v~~L~~~~g~s~~EIA~~L-gis~~tV~~~l~RAr~ 153 (182)
T PRK12540 119 ALILVGASGFSYEDAAAIC-GCAVGTIKSRVNRARS 153 (182)
T ss_pred HhhHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3344445677899999999 8899999888665443
No 198
>PRK07670 RNA polymerase sigma factor SigD; Validated
Probab=20.15 E-value=2.1e+02 Score=26.95 Aligned_cols=39 Identities=13% Similarity=0.204 Sum_probs=28.4
Q ss_pred HHHHHHHHHHhCCcHHHHHhhCCCCCHHHHHHHHHHHHHh
Q 017566 119 DQIIVAAHAVHGNKWAVISRLLPGRTDNAIKNHWNSTLRR 158 (369)
Q Consensus 119 D~~Ll~lv~~~G~~W~~IA~~l~gRT~~qck~Rw~~~l~r 158 (369)
++.++.+....|.....||..| |-|...|+.+....+++
T Consensus 206 ~r~vl~l~~~~~~s~~EIA~~l-gis~~tV~~~~~ra~~~ 244 (251)
T PRK07670 206 EQLVISLFYKEELTLTEIGQVL-NLSTSRISQIHSKALFK 244 (251)
T ss_pred HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 4444455445567799999999 99999999887765543
Done!