Query 019787
Match_columns 336
No_of_seqs 206 out of 1325
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 04:32:30 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019787.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019787hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03212 Transcription repress 100.0 1.7E-36 3.6E-41 282.5 12.6 118 3-121 14-131 (249)
2 PLN03091 hypothetical protein; 100.0 2E-36 4.4E-41 299.9 13.4 120 1-121 1-120 (459)
3 KOG0048 Transcription factor, 100.0 2.8E-33 6E-38 261.2 11.0 112 9-121 4-115 (238)
4 KOG0049 Transcription factor, 99.7 5.8E-18 1.3E-22 174.1 5.7 113 1-115 347-463 (939)
5 KOG0049 Transcription factor, 99.6 2.2E-16 4.8E-21 162.5 7.6 106 12-118 303-411 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.6 2E-16 4.3E-21 117.4 3.0 60 17-79 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.5 7.3E-15 1.6E-19 150.2 5.9 107 10-118 16-122 (512)
8 KOG0050 mRNA splicing protein 99.5 1.7E-14 3.6E-19 145.9 2.1 106 11-119 4-109 (617)
9 KOG0051 RNA polymerase I termi 99.4 2.7E-13 5.9E-18 140.3 6.2 103 13-119 383-513 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.4 5.9E-13 1.3E-17 95.2 5.4 46 68-113 1-48 (48)
11 PF00249 Myb_DNA-binding: Myb- 99.2 1.1E-12 2.5E-17 93.7 0.4 48 14-62 1-48 (48)
12 PLN03212 Transcription repress 99.2 3.2E-12 7E-17 120.1 2.1 102 48-158 12-115 (249)
13 PF13921 Myb_DNA-bind_6: Myb-l 99.2 1.4E-11 3.1E-16 91.3 5.0 45 71-115 1-45 (60)
14 smart00717 SANT SANT SWI3, AD 99.2 2.7E-11 5.8E-16 83.8 5.9 47 68-114 1-48 (49)
15 cd00167 SANT 'SWI3, ADA2, N-Co 99.1 2.3E-10 5E-15 78.0 5.8 44 70-113 1-45 (45)
16 PLN03091 hypothetical protein; 99.1 3.1E-11 6.7E-16 121.2 1.2 89 64-154 10-100 (459)
17 KOG0048 Transcription factor, 99.0 4.3E-11 9.3E-16 112.1 0.1 90 64-155 5-96 (238)
18 smart00717 SANT SANT SWI3, AD 98.9 5.1E-10 1.1E-14 77.3 1.6 48 14-63 1-48 (49)
19 KOG0051 RNA polymerase I termi 98.8 9.9E-09 2.1E-13 106.9 6.0 115 13-129 307-444 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 98.7 3.9E-09 8.4E-14 71.9 1.2 44 16-61 1-44 (45)
21 COG5147 REB1 Myb superfamily p 98.2 1.5E-07 3.3E-12 97.0 -2.6 99 12-114 289-397 (512)
22 TIGR01557 myb_SHAQKYF myb-like 97.8 7.1E-05 1.5E-09 56.1 5.8 46 68-113 3-54 (57)
23 PF13325 MCRS_N: N-terminal re 97.5 0.00025 5.5E-09 65.5 6.5 100 16-118 1-131 (199)
24 TIGR01557 myb_SHAQKYF myb-like 97.4 7.8E-05 1.7E-09 55.9 1.8 49 13-62 2-54 (57)
25 KOG0457 Histone acetyltransfer 97.4 0.00034 7.4E-09 70.8 6.5 51 65-115 69-120 (438)
26 TIGR02894 DNA_bind_RsfA transc 97.3 0.00034 7.3E-09 62.6 4.9 52 67-119 3-61 (161)
27 KOG0050 mRNA splicing protein 97.2 0.00034 7.3E-09 72.2 4.2 54 66-119 5-59 (617)
28 PF13837 Myb_DNA-bind_4: Myb/S 97.1 0.00045 9.8E-09 54.3 3.5 50 69-118 2-69 (90)
29 KOG0457 Histone acetyltransfer 97.0 0.00026 5.6E-09 71.7 1.1 50 11-62 69-118 (438)
30 COG5259 RSC8 RSC chromatin rem 97.0 0.00086 1.9E-08 68.6 4.8 46 67-112 278-323 (531)
31 KOG1279 Chromatin remodeling f 96.9 0.0011 2.4E-08 68.9 5.3 48 66-113 251-298 (506)
32 PF08914 Myb_DNA-bind_2: Rap1 96.5 0.0044 9.6E-08 47.7 4.7 50 68-117 2-61 (65)
33 COG5259 RSC8 RSC chromatin rem 96.2 0.0015 3.2E-08 67.0 0.7 46 13-61 278-323 (531)
34 PRK13923 putative spore coat p 96.2 0.0057 1.2E-07 55.4 4.3 52 66-118 3-61 (170)
35 KOG1279 Chromatin remodeling f 96.1 0.0024 5.1E-08 66.5 1.4 49 10-61 249-297 (506)
36 COG5114 Histone acetyltransfer 95.8 0.023 5E-07 56.1 6.8 48 67-114 62-110 (432)
37 PF13873 Myb_DNA-bind_5: Myb/S 95.7 0.024 5.2E-07 43.8 5.3 50 68-117 2-73 (78)
38 PF08914 Myb_DNA-bind_2: Rap1 95.5 0.0027 5.9E-08 48.8 -0.6 53 14-66 2-61 (65)
39 TIGR02894 DNA_bind_RsfA transc 95.5 0.0035 7.7E-08 56.2 -0.0 50 12-63 2-56 (161)
40 PLN03142 Probable chromatin-re 94.4 0.1 2.2E-06 58.9 7.5 101 16-118 826-989 (1033)
41 PF13837 Myb_DNA-bind_4: Myb/S 94.1 0.0069 1.5E-07 47.5 -1.8 47 14-60 1-62 (90)
42 PRK13923 putative spore coat p 93.6 0.012 2.6E-07 53.3 -1.3 50 12-63 3-57 (170)
43 PF09111 SLIDE: SLIDE; InterP 93.5 0.19 4E-06 43.1 5.8 53 65-117 46-114 (118)
44 KOG4282 Transcription factor G 93.3 0.23 5E-06 48.8 7.0 53 68-120 54-120 (345)
45 PF12776 Myb_DNA-bind_3: Myb/S 93.1 0.26 5.6E-06 39.1 5.7 47 70-116 1-65 (96)
46 COG5114 Histone acetyltransfer 92.9 0.025 5.4E-07 55.9 -0.4 50 12-63 61-110 (432)
47 PF13873 Myb_DNA-bind_5: Myb/S 91.3 0.074 1.6E-06 41.1 0.6 48 14-61 2-68 (78)
48 COG5118 BDP1 Transcription ini 89.6 0.59 1.3E-05 47.4 5.2 47 69-115 366-412 (507)
49 KOG2656 DNA methyltransferase 89.5 0.62 1.3E-05 47.3 5.4 86 37-123 75-191 (445)
50 PF08281 Sigma70_r4_2: Sigma-7 87.5 1.7 3.7E-05 30.9 5.2 42 73-115 12-53 (54)
51 KOG1194 Predicted DNA-binding 86.6 1.7 3.7E-05 45.1 6.5 49 67-115 186-234 (534)
52 KOG4329 DNA-binding protein [G 84.4 12 0.00026 38.1 11.1 45 69-113 278-323 (445)
53 COG5118 BDP1 Transcription ini 82.4 0.59 1.3E-05 47.4 1.1 65 13-80 364-436 (507)
54 PF11626 Rap1_C: TRF2-interact 78.7 2 4.4E-05 34.4 2.8 25 10-34 43-75 (87)
55 PRK11179 DNA-binding transcrip 76.5 5.4 0.00012 34.8 5.2 46 73-119 8-54 (153)
56 PF13404 HTH_AsnC-type: AsnC-t 76.2 6.8 0.00015 27.4 4.6 38 74-112 3-41 (42)
57 PRK11169 leucine-responsive tr 73.7 6 0.00013 34.9 4.8 46 72-118 12-58 (164)
58 KOG4468 Polycomb-group transcr 73.0 5.7 0.00012 42.6 5.1 53 67-119 87-149 (782)
59 PF04545 Sigma70_r4: Sigma-70, 72.9 10 0.00022 26.7 4.9 41 74-115 7-47 (50)
60 PF09111 SLIDE: SLIDE; InterP 72.8 2.9 6.3E-05 35.8 2.5 37 10-46 45-83 (118)
61 KOG4167 Predicted DNA-binding 71.6 7.5 0.00016 42.7 5.7 45 68-112 619-663 (907)
62 KOG4282 Transcription factor G 70.0 1.6 3.5E-05 42.9 0.3 47 14-60 54-111 (345)
63 KOG4167 Predicted DNA-binding 66.4 7.2 0.00016 42.8 4.2 43 15-60 620-662 (907)
64 smart00595 MADF subfamily of S 65.1 6.3 0.00014 30.7 2.8 27 89-116 29-55 (89)
65 PF07750 GcrA: GcrA cell cycle 65.0 8 0.00017 34.7 3.7 41 70-111 2-42 (162)
66 KOG2656 DNA methyltransferase 62.1 3.5 7.6E-05 42.1 1.0 50 10-61 126-180 (445)
67 TIGR02985 Sig70_bacteroi1 RNA 62.0 23 0.00049 29.5 5.8 31 85-116 127-157 (161)
68 PLN03162 golden-2 like transcr 61.5 2E+02 0.0044 29.7 13.7 45 68-112 237-286 (526)
69 PF11626 Rap1_C: TRF2-interact 61.0 4.3 9.3E-05 32.5 1.1 17 64-80 43-59 (87)
70 smart00344 HTH_ASNC helix_turn 58.6 20 0.00042 28.8 4.6 46 73-119 2-48 (108)
71 PF11035 SnAPC_2_like: Small n 57.1 39 0.00086 33.8 7.2 49 68-116 21-73 (344)
72 KOG2009 Transcription initiati 55.0 10 0.00023 40.6 3.0 51 65-115 406-456 (584)
73 PF13325 MCRS_N: N-terminal re 51.5 31 0.00067 32.3 5.2 45 70-115 1-48 (199)
74 cd08319 Death_RAIDD Death doma 50.1 24 0.00052 28.3 3.7 29 76-105 2-30 (83)
75 KOG3841 TEF-1 and related tran 48.6 1.1E+02 0.0024 31.6 8.8 55 66-120 74-149 (455)
76 TIGR02937 sigma70-ECF RNA poly 48.0 48 0.001 26.6 5.4 30 85-115 124-153 (158)
77 PF10545 MADF_DNA_bdg: Alcohol 46.6 21 0.00045 26.9 2.9 29 89-117 28-57 (85)
78 KOG4468 Polycomb-group transcr 46.0 8.7 0.00019 41.3 0.8 47 13-61 87-142 (782)
79 PRK09652 RNA polymerase sigma 45.0 54 0.0012 27.9 5.5 31 85-116 142-172 (182)
80 PF11035 SnAPC_2_like: Small n 43.9 47 0.001 33.3 5.4 87 14-114 21-127 (344)
81 KOG1194 Predicted DNA-binding 43.6 18 0.00039 37.9 2.5 40 70-110 472-511 (534)
82 cd06171 Sigma70_r4 Sigma70, re 43.5 73 0.0016 20.9 5.0 40 71-112 11-50 (55)
83 PF04504 DUF573: Protein of un 42.3 52 0.0011 27.0 4.7 51 69-119 5-68 (98)
84 cd08803 Death_ank3 Death domai 42.2 41 0.00089 27.0 4.0 30 76-106 4-33 (84)
85 cd08317 Death_ank Death domain 42.1 30 0.00065 27.2 3.2 29 76-105 4-32 (84)
86 PRK11924 RNA polymerase sigma 42.0 54 0.0012 27.8 5.0 30 86-116 140-169 (179)
87 PF01388 ARID: ARID/BRIGHT DNA 41.0 69 0.0015 25.1 5.1 38 78-115 40-90 (92)
88 smart00501 BRIGHT BRIGHT, ARID 40.7 49 0.0011 26.3 4.2 38 78-115 36-86 (93)
89 PF07750 GcrA: GcrA cell cycle 39.2 18 0.00039 32.5 1.7 34 16-52 2-36 (162)
90 PRK09643 RNA polymerase sigma 38.3 77 0.0017 28.1 5.6 29 86-115 149-177 (192)
91 PF07638 Sigma70_ECF: ECF sigm 38.3 82 0.0018 28.1 5.8 36 78-114 142-177 (185)
92 PRK04217 hypothetical protein; 38.3 76 0.0017 26.9 5.2 45 70-116 42-86 (110)
93 cd08318 Death_NMPP84 Death dom 38.2 45 0.00097 26.6 3.6 26 79-105 10-35 (86)
94 COG1522 Lrp Transcriptional re 38.0 63 0.0014 27.3 4.8 45 73-118 7-52 (154)
95 PRK09641 RNA polymerase sigma 37.8 67 0.0015 27.7 5.0 30 86-116 151-180 (187)
96 TIGR02939 RpoE_Sigma70 RNA pol 35.7 70 0.0015 27.7 4.8 31 87-118 154-184 (190)
97 KOG0384 Chromodomain-helicase 35.6 40 0.00087 39.3 3.9 73 13-93 1132-1205(1373)
98 PRK12529 RNA polymerase sigma 35.0 1.2E+02 0.0026 26.5 6.2 33 86-119 142-174 (178)
99 PRK09637 RNA polymerase sigma 34.1 85 0.0018 27.7 5.2 30 86-116 121-150 (181)
100 PRK12512 RNA polymerase sigma 33.7 1.2E+02 0.0026 26.4 5.9 32 86-118 146-177 (184)
101 PF00196 GerE: Bacterial regul 33.4 43 0.00093 24.1 2.6 44 70-116 3-46 (58)
102 COG2197 CitB Response regulato 33.2 58 0.0013 29.8 4.0 45 69-116 147-191 (211)
103 TIGR02954 Sig70_famx3 RNA poly 32.6 1.1E+02 0.0023 26.2 5.4 30 86-116 134-163 (169)
104 PF13936 HTH_38: Helix-turn-he 32.2 55 0.0012 22.7 2.9 36 70-107 4-39 (44)
105 TIGR02948 SigW_bacill RNA poly 32.1 87 0.0019 27.0 4.8 29 87-116 152-180 (187)
106 PRK09047 RNA polymerase factor 31.9 1.1E+02 0.0024 25.6 5.4 30 86-116 121-150 (161)
107 PF09420 Nop16: Ribosome bioge 31.8 1E+02 0.0022 27.4 5.2 46 67-112 113-162 (164)
108 PRK12523 RNA polymerase sigma 31.7 1.1E+02 0.0023 26.4 5.3 31 86-117 134-164 (172)
109 PRK09648 RNA polymerase sigma 31.0 1.3E+02 0.0027 26.4 5.7 30 86-116 154-183 (189)
110 PRK12531 RNA polymerase sigma 30.5 1.1E+02 0.0024 27.0 5.3 30 87-117 157-186 (194)
111 cd08777 Death_RIP1 Death Domai 30.4 62 0.0013 26.0 3.3 30 77-107 3-32 (86)
112 smart00005 DEATH DEATH domain, 30.4 68 0.0015 24.7 3.5 30 75-105 4-34 (88)
113 cd08804 Death_ank2 Death domai 30.3 70 0.0015 25.5 3.5 31 76-107 4-34 (84)
114 PRK09642 RNA polymerase sigma 30.0 1.4E+02 0.003 25.2 5.7 29 86-115 121-149 (160)
115 PRK09645 RNA polymerase sigma 29.8 1.2E+02 0.0026 26.0 5.2 31 86-117 133-163 (173)
116 PRK12515 RNA polymerase sigma 29.7 1.4E+02 0.003 26.2 5.7 30 86-116 146-175 (189)
117 cd08311 Death_p75NR Death doma 29.4 64 0.0014 25.5 3.1 33 73-107 2-34 (77)
118 PRK12530 RNA polymerase sigma 29.4 1.2E+02 0.0025 26.9 5.2 29 86-115 149-177 (189)
119 PRK09649 RNA polymerase sigma 29.3 1.4E+02 0.0031 26.2 5.8 32 86-118 145-176 (185)
120 KOG3554 Histone deacetylase co 29.3 98 0.0021 32.8 5.2 42 69-110 286-328 (693)
121 PRK12532 RNA polymerase sigma 29.2 1.1E+02 0.0025 26.9 5.1 30 86-116 151-180 (195)
122 PRK11923 algU RNA polymerase s 29.0 1.1E+02 0.0023 26.8 4.9 29 87-116 154-182 (193)
123 TIGR02983 SigE-fam_strep RNA p 28.7 1.6E+02 0.0035 24.8 5.9 39 79-118 118-156 (162)
124 KOG2009 Transcription initiati 28.5 35 0.00077 36.7 2.0 49 9-60 404-452 (584)
125 TIGR02943 Sig70_famx1 RNA poly 28.2 1.3E+02 0.0029 26.6 5.4 30 86-116 146-175 (188)
126 COG2963 Transposase and inacti 28.0 1.7E+02 0.0036 23.9 5.6 44 68-112 5-49 (116)
127 PF08181 DegQ: DegQ (SacQ) fam 27.8 32 0.00069 24.5 1.0 12 289-300 4-15 (46)
128 PRK13919 putative RNA polymera 27.4 1.7E+02 0.0038 25.3 5.9 31 87-118 151-181 (186)
129 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 27.4 1.3E+02 0.0029 22.0 4.3 34 74-108 7-40 (50)
130 PRK12524 RNA polymerase sigma 27.1 1.4E+02 0.0029 26.5 5.2 30 86-116 151-180 (196)
131 PF02954 HTH_8: Bacterial regu 26.8 1.4E+02 0.003 20.4 4.1 34 74-108 5-38 (42)
132 TIGR02952 Sig70_famx2 RNA poly 26.3 1.8E+02 0.0038 24.6 5.6 28 87-115 138-165 (170)
133 PRK06759 RNA polymerase factor 25.7 1.6E+02 0.0036 24.5 5.3 28 87-115 122-149 (154)
134 PRK12527 RNA polymerase sigma 25.5 1.7E+02 0.0037 24.7 5.4 30 87-117 121-150 (159)
135 PRK12547 RNA polymerase sigma 25.1 2E+02 0.0044 24.6 5.8 31 86-117 127-157 (164)
136 cd00131 PAX Paired Box domain 24.6 1.3E+02 0.0028 25.7 4.4 83 12-97 13-103 (128)
137 cd08779 Death_PIDD Death Domai 24.5 80 0.0017 25.2 2.9 21 77-97 3-23 (86)
138 cd08805 Death_ank1 Death domai 24.5 97 0.0021 24.9 3.4 26 76-102 4-29 (84)
139 PRK12528 RNA polymerase sigma 24.3 1.8E+02 0.0039 24.6 5.3 29 86-115 128-156 (161)
140 TIGR02960 SigX5 RNA polymerase 24.3 2.2E+02 0.0047 27.2 6.5 32 86-118 157-188 (324)
141 PRK12536 RNA polymerase sigma 24.0 1.7E+02 0.0037 25.4 5.3 30 86-116 144-173 (181)
142 TIGR02999 Sig-70_X6 RNA polyme 23.7 2.2E+02 0.0047 24.5 5.8 28 87-115 150-177 (183)
143 PRK12514 RNA polymerase sigma 23.5 1.8E+02 0.0038 25.1 5.2 29 87-116 145-173 (179)
144 PRK12516 RNA polymerase sigma 23.5 2E+02 0.0043 25.5 5.6 31 85-116 130-160 (187)
145 PRK09651 RNA polymerase sigma 23.4 1.5E+02 0.0032 25.7 4.7 29 87-116 135-163 (172)
146 TIGR02950 SigM_subfam RNA poly 23.1 65 0.0014 26.9 2.3 28 87-115 121-148 (154)
147 PRK05602 RNA polymerase sigma 23.0 1.9E+02 0.0042 25.1 5.4 31 86-117 143-173 (186)
148 PRK00118 putative DNA-binding 22.8 2.4E+02 0.0052 23.6 5.6 42 73-115 19-60 (104)
149 PRK12542 RNA polymerase sigma 22.8 1.8E+02 0.004 25.3 5.2 30 86-116 137-166 (185)
150 PRK12546 RNA polymerase sigma 21.7 2.5E+02 0.0053 25.0 5.9 33 85-118 127-159 (188)
151 TIGR02984 Sig-70_plancto1 RNA 21.7 2.3E+02 0.005 24.3 5.6 30 86-116 155-184 (189)
152 PRK10100 DNA-binding transcrip 21.1 2.2E+02 0.0047 26.3 5.5 44 70-116 155-198 (216)
153 PF09197 Rap1-DNA-bind: Rap1, 20.8 2.8E+02 0.0061 23.5 5.6 46 70-115 1-77 (105)
154 PRK15201 fimbriae regulatory p 20.8 2.4E+02 0.0052 26.4 5.5 44 70-116 133-176 (198)
155 PRK15328 invasion protein IagB 20.6 2.3E+02 0.0049 25.5 5.3 43 78-120 98-142 (160)
156 PLN03142 Probable chromatin-re 20.1 1.8E+02 0.0039 33.7 5.5 41 70-110 826-867 (1033)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=1.7e-36 Score=282.49 Aligned_cols=118 Identities=57% Similarity=1.169 Sum_probs=113.3
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccCCCCCCCCCCHHHHHHHHHH
Q 019787 3 RAPCCDKANVKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLICSL 82 (336)
Q Consensus 3 r~~~c~kp~lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~Ll~l 82 (336)
|+|||+|+.+++++||+|||++|+++|++||. .+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|+++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~-~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel 92 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGE-GRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRL 92 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCc-ccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHH
Confidence 67999999999999999999999999999997 59999999997799999999999999999999999999999999999
Q ss_pred HHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHhhcC
Q 019787 83 FASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLMAMA 121 (336)
Q Consensus 83 v~k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~~~~ 121 (336)
+.+||++|+.||++|||||+++|||||+.++++++.+..
T Consensus 93 ~~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~ 131 (249)
T PLN03212 93 HRLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQG 131 (249)
T ss_pred HHhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcC
Confidence 999999999999999999999999999999999877644
No 2
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=2e-36 Score=299.93 Aligned_cols=120 Identities=62% Similarity=1.166 Sum_probs=116.0
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccCCCCCCCCCCHHHHHHHH
Q 019787 1 MGRAPCCDKANVKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLIC 80 (336)
Q Consensus 1 mgr~~~c~kp~lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~Ll 80 (336)
|||++||+|+.++|++||+|||++|+++|++||. .+|..||+.++++|+++|||+||.++|+|.+++++||+|||++|+
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~-~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLL 79 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGH-GCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLII 79 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCc-CCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHH
Confidence 9999999999999999999999999999999998 599999999988999999999999999999999999999999999
Q ss_pred HHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHhhcC
Q 019787 81 SLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLMAMA 121 (336)
Q Consensus 81 ~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~~~~ 121 (336)
+++++||++|.+||++|||||+++|||||+.++|++++...
T Consensus 80 eL~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~~~ 120 (459)
T PLN03091 80 ELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQRG 120 (459)
T ss_pred HHHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999999999999877543
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=2.8e-33 Score=261.20 Aligned_cols=112 Identities=58% Similarity=1.073 Sum_probs=107.1
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccCCCCCCCCCCHHHHHHHHHHHHHhCC
Q 019787 9 KANVKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLICSLFASIGS 88 (336)
Q Consensus 9 kp~lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~Ll~lv~k~G~ 88 (336)
|+.+.||+||+|||++|+++|++||. .+|..||+.+|++|++|+||+||.+||+|.+++|.||+|||++|++|+..+|+
T Consensus 4 k~~~~kGpWt~EED~~L~~~V~~~G~-~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GN 82 (238)
T KOG0048|consen 4 NPELVKGPWTQEEDLTQIRSIKSFGK-HNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGN 82 (238)
T ss_pred CccccCCCCChHHHHHHHHHHHHhCC-CCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCc
Confidence 34456899999999999999999999 59999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHhhCCCCCHHHHHHHHHHHhhhHHhhcC
Q 019787 89 RWSIIAAQLPGRTDNDIKNYWNTKLKKKLMAMA 121 (336)
Q Consensus 89 kW~~IA~~lpGRT~~qcknRw~~llkkk~~~~~ 121 (336)
+|+.||++|||||++.|||+|+..+|+++....
T Consensus 83 rWs~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 83 RWSLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 999999999999999999999999999998765
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.71 E-value=5.8e-18 Score=174.08 Aligned_cols=113 Identities=25% Similarity=0.392 Sum_probs=102.2
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccCCCCCCCCCCHHHHHHHH
Q 019787 1 MGRAPCCDKANVKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLIC 80 (336)
Q Consensus 1 mgr~~~c~kp~lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~Ll 80 (336)
+||......|.+++|+||++||.+|..+|++||. ++|-.|-+.++ +|+..|||+||.|.|....+++.||-.||+.|+
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~-kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~ 424 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGA-KDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLL 424 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCc-cchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHH
Confidence 4778888899999999999999999999999998 69999999999 999999999999999999999999999999999
Q ss_pred HHHHHhCC-CHHHHHhhCCCCCHH---HHHHHHHHHhhh
Q 019787 81 SLFASIGS-RWSIIAAQLPGRTDN---DIKNYWNTKLKK 115 (336)
Q Consensus 81 ~lv~k~G~-kW~~IA~~lpGRT~~---qcknRw~~llkk 115 (336)
.+|++||. +|.+||.+||.||.. .||.|+..+..+
T Consensus 425 ~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~k~r 463 (939)
T KOG0049|consen 425 YAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAAKLR 463 (939)
T ss_pred HHHHHHccchHHHHHHHccccchhHHHHHHHHHHHHHHH
Confidence 99999995 899999999999994 455555444333
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.64 E-value=2.2e-16 Score=162.55 Aligned_cols=106 Identities=25% Similarity=0.491 Sum_probs=98.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHh--CCCCCccccccccccccCcccccceeccccCCCCCCCCCCHHHHHHHHHHHHHhCC-
Q 019787 12 VKKGPWSPEEDSKLKEYIEKY--GTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLICSLFASIGS- 88 (336)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~ky--G~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~Ll~lv~k~G~- 88 (336)
+++..||.|||.+|+.+|... |..++|.+|-..|+ +|+..|..-||...|+|.+++|+||++||.+|+.+|.+||.
T Consensus 303 L~ekeWsEEed~kL~alV~~~~~nShI~w~kVV~Ymp-gr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~k 381 (939)
T KOG0049|consen 303 LSEKEWSEEEDTKLIALVKITSINSHIQWDKVVQYMP-GRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAK 381 (939)
T ss_pred HHhhhcchhhhHHHHHHHHHhhccCccchHHHHHhcC-CcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCcc
Confidence 556889999999999999987 55579999999999 99999999999999999999999999999999999999997
Q ss_pred CHHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 89 RWSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 89 kW~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
.|.+|-..+|||++.|||.||...|.+..+
T Consensus 382 dw~k~R~~vPnRSdsQcR~RY~nvL~~s~K 411 (939)
T KOG0049|consen 382 DWAKVRQAVPNRSDSQCRERYTNVLNRSAK 411 (939)
T ss_pred chhhHHHhcCCccHHHHHHHHHHHHHHhhc
Confidence 699999999999999999999998877544
No 6
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.62 E-value=2e-16 Score=117.35 Aligned_cols=60 Identities=45% Similarity=0.913 Sum_probs=55.3
Q ss_pred CCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccCCCCCCCCCCHHHHHHH
Q 019787 17 WSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLI 79 (336)
Q Consensus 17 WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~L 79 (336)
||+|||++|+++|.+||. +|..||..|+ .|++.+|+.||.+.|.|.+++++||++||++|
T Consensus 1 WT~eEd~~L~~~~~~~g~--~W~~Ia~~l~-~Rt~~~~~~r~~~~l~~~~~~~~wt~eEd~~L 60 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGN--DWKKIAEHLG-NRTPKQCRNRWRNHLRPKISRGPWTKEEDQRL 60 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS---HHHHHHHST-TS-HHHHHHHHHHTTSTTSTSSSSSHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCc--CHHHHHHHHC-cCCHHHHHHHHHHHCcccccCCCcCHHHHhcC
Confidence 999999999999999997 8999999997 89999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.53 E-value=7.3e-15 Score=150.23 Aligned_cols=107 Identities=29% Similarity=0.505 Sum_probs=101.8
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccCCCCCCCCCCHHHHHHHHHHHHHhCCC
Q 019787 10 ANVKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLICSLFASIGSR 89 (336)
Q Consensus 10 p~lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~Ll~lv~k~G~k 89 (336)
-.++.|.|+..||+.|..+|+++|+ .+|..||..+. .|+++||+.||.++++|.+++..|+.|||++|+.+..++|.+
T Consensus 16 ~~~k~gsw~~~EDe~l~~~vk~l~~-nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ 93 (512)
T COG5147 16 TKRKGGSWKRTEDEDLKALVKKLGP-NNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQ 93 (512)
T ss_pred ceecCCCCCCcchhHHHHHHhhccc-ccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCch
Confidence 4578899999999999999999999 68999999999 699999999999999999999999999999999999999999
Q ss_pred HHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 90 WSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 90 W~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
|+.||..+++||..+|.+||..++.....
T Consensus 94 wstia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 94 WSTIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhhhccccCccchHHHHHHHHHHhhhhhc
Confidence 99999999999999999999988887665
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.46 E-value=1.7e-14 Score=145.92 Aligned_cols=106 Identities=29% Similarity=0.575 Sum_probs=99.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccCCCCCCCCCCHHHHHHHHHHHHHhCCCH
Q 019787 11 NVKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLICSLFASIGSRW 90 (336)
Q Consensus 11 ~lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~Ll~lv~k~G~kW 90 (336)
-++.|.|+.-||+.|..+|.+||. ..|..|++.+. ..+++||+.||..+|+|.|++..|+.|||++|+.+.+.+...|
T Consensus 4 ~~kggvwrntEdeilkaav~kyg~-nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qw 81 (617)
T KOG0050|consen 4 EIKGGVWRNTEDEVLKAAVMKYGK-NQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQW 81 (617)
T ss_pred EEecceecccHHHHHHHHHHHcch-HHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCcc
Confidence 367789999999999999999998 59999999998 7899999999999999999999999999999999999999999
Q ss_pred HHHHhhCCCCCHHHHHHHHHHHhhhHHhh
Q 019787 91 SIIAAQLPGRTDNDIKNYWNTKLKKKLMA 119 (336)
Q Consensus 91 ~~IA~~lpGRT~~qcknRw~~llkkk~~~ 119 (336)
..||..| |||..||-.||..++-.....
T Consensus 82 rtIa~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 82 RTIADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred chHHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 9999999 999999999999999776654
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.40 E-value=2.7e-13 Score=140.28 Aligned_cols=103 Identities=23% Similarity=0.549 Sum_probs=93.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccCCC--CCCCCCCHHHHHHHHHHHH------
Q 019787 13 KKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPN--IKHGEFTDEEDRLICSLFA------ 84 (336)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~--lkkg~WT~EED~~Ll~lv~------ 84 (336)
.+|.||+||++.|..+|.++|. .|..|+..|+ |.+..||+||+++..+. .+++.||-||+++|+++|.
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~--~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk~V~~~~~~~ 458 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGN--DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLKTVNEMIREA 458 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcc--cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHHHHHHHHHHh
Confidence 8999999999999999999998 8999999998 99999999999999887 5899999999999999995
Q ss_pred -Hh-------------------CCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHhh
Q 019787 85 -SI-------------------GSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLMA 119 (336)
Q Consensus 85 -k~-------------------G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~~ 119 (336)
++ +-.|+.|++.+..|+..|||.+|..++......
T Consensus 459 ~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n 513 (607)
T KOG0051|consen 459 LQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFN 513 (607)
T ss_pred hcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhh
Confidence 33 125999999889999999999999999876554
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=99.38 E-value=5.9e-13 Score=95.18 Aligned_cols=46 Identities=30% Similarity=0.614 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC-HHHHHhhCC-CCCHHHHHHHHHHHh
Q 019787 68 HGEFTDEEDRLICSLFASIGSR-WSIIAAQLP-GRTDNDIKNYWNTKL 113 (336)
Q Consensus 68 kg~WT~EED~~Ll~lv~k~G~k-W~~IA~~lp-GRT~~qcknRw~~ll 113 (336)
+++||+|||++|++++.+||.+ |..||..|+ +||..||++||..++
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 5789999999999999999998 999999999 999999999998764
No 11
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=99.25 E-value=1.1e-12 Score=93.71 Aligned_cols=48 Identities=44% Similarity=0.868 Sum_probs=42.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceecccc
Q 019787 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYL 62 (336)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L 62 (336)
|++||+|||++|+++|.+||. .+|..||..|+.+||+.||+.||.++|
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~-~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGK-DNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTT-THHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCC-cHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 689999999999999999998 359999999999999999999998864
No 12
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.22 E-value=3.2e-12 Score=120.12 Aligned_cols=102 Identities=18% Similarity=0.309 Sum_probs=78.8
Q ss_pred ccCcccccceeccccCCCCCCCCCCHHHHHHHHHHHHHhCC-CHHHHHhhC-CCCCHHHHHHHHHHHhhhHHhhcCCCCC
Q 019787 48 KRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLICSLFASIGS-RWSIIAAQL-PGRTDNDIKNYWNTKLKKKLMAMAPPLS 125 (336)
Q Consensus 48 gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~Ll~lv~k~G~-kW~~IA~~l-pGRT~~qcknRw~~llkkk~~~~~~~~s 125 (336)
.|++.-|. ++.+++++||+|||++|+++|++||. +|..||+.+ ++||+.|||.||..+|++.+.+ .+|+
T Consensus 12 ~~~~pcc~-------K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~k--gpWT 82 (249)
T PLN03212 12 KKTTPCCT-------KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKR--GGIT 82 (249)
T ss_pred CCCCCCcc-------cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhccc--CCCC
Confidence 55555453 35788999999999999999999995 899999988 6999999999999999988765 3556
Q ss_pred CCCCCCCCCCCCCCCCccchhhccCCCCCCcCC
Q 019787 126 SQKKSTAPPLIPSSHHHHQALVSLLPSQPYYTP 158 (336)
Q Consensus 126 s~~~~~~p~~~~~~~~~~~~~~s~~~~~p~~~p 158 (336)
.++...+..........|..+...++.|+-..+
T Consensus 83 ~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqI 115 (249)
T PLN03212 83 SDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEI 115 (249)
T ss_pred hHHHHHHHHHHHhccccHHHHHhhcCCCCHHHH
Confidence 665554444455566678888777777654433
No 13
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=99.22 E-value=1.4e-11 Score=91.27 Aligned_cols=45 Identities=36% Similarity=0.673 Sum_probs=39.2
Q ss_pred CCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 71 FTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 71 WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
||+|||++|+++|++||.+|..||..|+.||..+|++||...|++
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 14
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.21 E-value=2.7e-11 Score=83.76 Aligned_cols=47 Identities=45% Similarity=0.850 Sum_probs=44.3
Q ss_pred CCCCCHHHHHHHHHHHHHhC-CCHHHHHhhCCCCCHHHHHHHHHHHhh
Q 019787 68 HGEFTDEEDRLICSLFASIG-SRWSIIAAQLPGRTDNDIKNYWNTKLK 114 (336)
Q Consensus 68 kg~WT~EED~~Ll~lv~k~G-~kW~~IA~~lpGRT~~qcknRw~~llk 114 (336)
+++||++||.+|+.++.+|| .+|..||..|++||+.+|++||..+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 899999999999999999999998765
No 15
>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=2.3e-10 Score=77.98 Aligned_cols=44 Identities=36% Similarity=0.726 Sum_probs=41.6
Q ss_pred CCCHHHHHHHHHHHHHhC-CCHHHHHhhCCCCCHHHHHHHHHHHh
Q 019787 70 EFTDEEDRLICSLFASIG-SRWSIIAAQLPGRTDNDIKNYWNTKL 113 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G-~kW~~IA~~lpGRT~~qcknRw~~ll 113 (336)
+||+|||+.|+.++.++| .+|..||..|++||..+|++||..++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 89999999999999999999998753
No 16
>PLN03091 hypothetical protein; Provisional
Probab=99.07 E-value=3.1e-11 Score=121.16 Aligned_cols=89 Identities=19% Similarity=0.318 Sum_probs=69.5
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC-CHHHHHhhC-CCCCHHHHHHHHHHHhhhHHhhcCCCCCCCCCCCCCCCCCCCCC
Q 019787 64 PNIKHGEFTDEEDRLICSLFASIGS-RWSIIAAQL-PGRTDNDIKNYWNTKLKKKLMAMAPPLSSQKKSTAPPLIPSSHH 141 (336)
Q Consensus 64 P~lkkg~WT~EED~~Ll~lv~k~G~-kW~~IA~~l-pGRT~~qcknRw~~llkkk~~~~~~~~ss~~~~~~p~~~~~~~~ 141 (336)
+.+++++||+|||++|+++|++||. +|..||+.+ ++|++.|||.||..+|++.+.+ .+|+.++...+.........
T Consensus 10 qklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkK--gpWT~EED~lLLeL~k~~Gn 87 (459)
T PLN03091 10 QKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKR--GTFSQQEENLIIELHAVLGN 87 (459)
T ss_pred CCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccC--CCCCHHHHHHHHHHHHHhCc
Confidence 5788999999999999999999996 799999988 5999999999999999988764 35666555444444444555
Q ss_pred ccchhhccCCCCC
Q 019787 142 HHQALVSLLPSQP 154 (336)
Q Consensus 142 ~~~~~~s~~~~~p 154 (336)
.|..+...+++|.
T Consensus 88 KWskIAk~LPGRT 100 (459)
T PLN03091 88 RWSQIAAQLPGRT 100 (459)
T ss_pred chHHHHHhcCCCC
Confidence 6666666666553
No 17
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.02 E-value=4.3e-11 Score=112.12 Aligned_cols=90 Identities=18% Similarity=0.238 Sum_probs=75.7
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC-CHHHHHhhCC-CCCHHHHHHHHHHHhhhHHhhcCCCCCCCCCCCCCCCCCCCCC
Q 019787 64 PNIKHGEFTDEEDRLICSLFASIGS-RWSIIAAQLP-GRTDNDIKNYWNTKLKKKLMAMAPPLSSQKKSTAPPLIPSSHH 141 (336)
Q Consensus 64 P~lkkg~WT~EED~~Ll~lv~k~G~-kW~~IA~~lp-GRT~~qcknRw~~llkkk~~~~~~~~ss~~~~~~p~~~~~~~~ 141 (336)
|.+.+|+||+|||++|+++|++||. +|..||+.++ +|++.+||-||..+|++.+++.. ++.++......+....+.
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~--fT~eEe~~Ii~lH~~~GN 82 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGN--FSDEEEDLIIKLHALLGN 82 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCC--CCHHHHHHHHHHHHHHCc
Confidence 3455899999999999999999997 6999999998 99999999999999999988543 466666666666667777
Q ss_pred ccchhhccCCCCCC
Q 019787 142 HHQALVSLLPSQPY 155 (336)
Q Consensus 142 ~~~~~~s~~~~~p~ 155 (336)
.|..+...+|++.-
T Consensus 83 rWs~IA~~LPGRTD 96 (238)
T KOG0048|consen 83 RWSLIAGRLPGRTD 96 (238)
T ss_pred HHHHHHhhCCCcCH
Confidence 78888888888754
No 18
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.90 E-value=5.1e-10 Score=77.27 Aligned_cols=48 Identities=42% Similarity=0.868 Sum_probs=43.8
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccC
Q 019787 14 KGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLR 63 (336)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~ 63 (336)
+++||++||++|..++.+||. .+|..||..++ +|++.+|+.||.+.+.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~-~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGK-NNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCc-CCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 468999999999999999994 39999999999 9999999999988654
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=98.75 E-value=9.9e-09 Score=106.86 Aligned_cols=115 Identities=24% Similarity=0.337 Sum_probs=91.2
Q ss_pred CCCCCCHHHHHHHHHHHHHh----CCC----------CC--------ccccccccccccCcccccceeccccCCCC-CCC
Q 019787 13 KKGPWSPEEDSKLKEYIEKY----GTG----------GN--------WIALPQKAGLKRCGKSCRLRWLNYLRPNI-KHG 69 (336)
Q Consensus 13 kKg~WT~EEDe~L~~lV~ky----G~~----------~n--------W~~IA~~l~~gRt~kQCr~RW~n~L~P~l-kkg 69 (336)
+-+.|++|||+.|...|..| |-. .+ |..|...++ -|+.+.....-++...|-- ++|
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~~rg 385 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFENKRG 385 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCccccccC
Confidence 34889999999999999877 210 12 566777777 5998888774444444433 999
Q ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHhhcCCCCCCCCC
Q 019787 70 EFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLMAMAPPLSSQKK 129 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~~~~~~~ss~~~ 129 (336)
.||+||++.|..++.++|+.|..|++.| ||.+.+|+.||+.+.+.........|+.++.
T Consensus 386 ~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe 444 (607)
T KOG0051|consen 386 KWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEE 444 (607)
T ss_pred CCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHH
Confidence 9999999999999999999999999999 9999999999999998876555555655543
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=98.72 E-value=3.9e-09 Score=71.86 Aligned_cols=44 Identities=43% Similarity=0.872 Sum_probs=40.7
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccc
Q 019787 16 PWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNY 61 (336)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~ 61 (336)
+||+|||++|+.++.+||. .+|..||..++ +|++.+|+.||.+.
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~-~~w~~Ia~~~~-~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGK-NNWEKIAKELP-GRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCc-CCHHHHHhHcC-CCCHHHHHHHHHHh
Confidence 5999999999999999995 48999999998 79999999999764
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=98.18 E-value=1.5e-07 Score=97.01 Aligned_cols=99 Identities=22% Similarity=0.570 Sum_probs=86.2
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccCC--CCCCCCCCHHHHHHHHHHHHHhC--
Q 019787 12 VKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRP--NIKHGEFTDEEDRLICSLFASIG-- 87 (336)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P--~lkkg~WT~EED~~Ll~lv~k~G-- 87 (336)
-.++.||+||++.|..++..+|. .|..|...++ |-+..||+||.++..+ .+++++|+.||+.+|...+...-
T Consensus 289 ~~~~~wt~e~~~eL~~~~~~~~~--~w~~ig~~~~--rmp~~crd~wr~~~~~g~t~~~~~ws~eee~~l~~vv~e~~~~ 364 (512)
T COG5147 289 EQRGKWTKEEEQELAKLVVEHGG--SWTEIGKLLG--RMPNDCRDRWRDYVKCGDTLKRNRWSIEEEELLDKVVNEMRLE 364 (512)
T ss_pred hhhccCccccccccccccccccc--hhhHhhhhhc--cCcHHHHHHHhhhccccCccCCCCCchhhhhhHHHHHHHHHHH
Confidence 45789999999999999999997 8999988776 9999999999999988 78899999999999999887432
Q ss_pred ------CCHHHHHhhCCCCCHHHHHHHHHHHhh
Q 019787 88 ------SRWSIIAAQLPGRTDNDIKNYWNTKLK 114 (336)
Q Consensus 88 ------~kW~~IA~~lpGRT~~qcknRw~~llk 114 (336)
..|..|+..++.|...+|+.++..+..
T Consensus 365 ~~~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~ 397 (512)
T COG5147 365 AQQSSRILWLLIAQNIRNRLQHHCRDKYGVLIS 397 (512)
T ss_pred HhhhhhhhHHHHHHhhhccccCCCCCccccccc
Confidence 269999999999999989877655543
No 22
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.75 E-value=7.1e-05 Score=56.13 Aligned_cols=46 Identities=11% Similarity=0.188 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCC-CH---HHHHhhCC-CC-CHHHHHHHHHHHh
Q 019787 68 HGEFTDEEDRLICSLFASIGS-RW---SIIAAQLP-GR-TDNDIKNYWNTKL 113 (336)
Q Consensus 68 kg~WT~EED~~Ll~lv~k~G~-kW---~~IA~~lp-GR-T~~qcknRw~~ll 113 (336)
+-.||+||...++++++.+|. +| ..|+..|. .| |..||+.|...+.
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 457999999999999999997 99 99999883 45 9999999987654
No 23
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.47 E-value=0.00025 Score=65.52 Aligned_cols=100 Identities=22% Similarity=0.392 Sum_probs=72.5
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCcccccccc--ccccCcccccceecccc-CCCC--------------------CCCCCC
Q 019787 16 PWSPEEDSKLKEYIEKYGTGGNWIALPQKA--GLKRCGKSCRLRWLNYL-RPNI--------------------KHGEFT 72 (336)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l--~~gRt~kQCr~RW~n~L-~P~l--------------------kkg~WT 72 (336)
+|++++|-+|+.+|..- . +-..|+..+ -..-|-+.+.+||+..| +|.+ .+.+||
T Consensus 1 rW~~~DDl~Li~av~~~-~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS 77 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQT-N--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFS 77 (199)
T ss_pred CCCchhhHHHHHHHHHh-c--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCC
Confidence 69999999999999883 3 455555443 34556677888997754 4433 345899
Q ss_pred HHHHHHHHHHHHHhCC---CHHHHHh-----hCCCCCHHHHHHHHHHHhhhHHh
Q 019787 73 DEEDRLICSLFASIGS---RWSIIAA-----QLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 73 ~EED~~Ll~lv~k~G~---kW~~IA~-----~lpGRT~~qcknRw~~llkkk~~ 118 (336)
.+|+++|......... .+.+|=. +-++||+.++.++|..+.+..+.
T Consensus 78 ~~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 78 KEEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLL 131 (199)
T ss_pred HHHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchh
Confidence 9999999998766544 4666632 33899999999999966555443
No 24
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.40 E-value=7.8e-05 Score=55.90 Aligned_cols=49 Identities=10% Similarity=0.269 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCc---ccccccccccc-Ccccccceecccc
Q 019787 13 KKGPWSPEEDSKLKEYIEKYGTGGNW---IALPQKAGLKR-CGKSCRLRWLNYL 62 (336)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~~nW---~~IA~~l~~gR-t~kQCr~RW~n~L 62 (336)
++-.||+||.++++++|+.+|. ++| ..|++.|...| |..||+.+.+.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~-g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGG-PDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCC-CcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 4567999999999999999997 589 99999988666 9999998877653
No 25
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.37 E-value=0.00034 Score=70.83 Aligned_cols=51 Identities=20% Similarity=0.351 Sum_probs=45.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhC-CCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 65 NIKHGEFTDEEDRLICSLFASIG-SRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 65 ~lkkg~WT~EED~~Ll~lv~k~G-~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
.+-...||.+|+-+|++++..|| .+|..||.++..||..+|+.+|..+.-.
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv~ 120 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFVN 120 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHhc
Confidence 45566899999999999999999 6999999999889999999999766543
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=97.30 E-value=0.00034 Score=62.63 Aligned_cols=52 Identities=25% Similarity=0.401 Sum_probs=46.1
Q ss_pred CCCCCCHHHHHHHHHHHHHh---CC----CHHHHHhhCCCCCHHHHHHHHHHHhhhHHhh
Q 019787 67 KHGEFTDEEDRLICSLFASI---GS----RWSIIAAQLPGRTDNDIKNYWNTKLKKKLMA 119 (336)
Q Consensus 67 kkg~WT~EED~~Ll~lv~k~---G~----kW~~IA~~lpGRT~~qcknRw~~llkkk~~~ 119 (336)
+.+.||.|||.+|.+.|-+| |. -...++..| +||+.+|.-||+..+|+.+..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~~ 61 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYEE 61 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHHH
Confidence 46789999999999999988 43 388999999 999999999999999988764
No 27
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.18 E-value=0.00034 Score=72.20 Aligned_cols=54 Identities=28% Similarity=0.479 Sum_probs=49.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHHhhhHHhh
Q 019787 66 IKHGEFTDEEDRLICSLFASIGS-RWSIIAAQLPGRTDNDIKNYWNTKLKKKLMA 119 (336)
Q Consensus 66 lkkg~WT~EED~~Ll~lv~k~G~-kW~~IA~~lpGRT~~qcknRw~~llkkk~~~ 119 (336)
++.|.|+.-||++|-.+|.+||. .|++||..++-.|+.||++||...+.+.++.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~ 59 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKK 59 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhh
Confidence 46788999999999999999996 7999999999999999999999998877654
No 28
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.12 E-value=0.00045 Score=54.32 Aligned_cols=50 Identities=32% Similarity=0.522 Sum_probs=36.3
Q ss_pred CCCCHHHHHHHHHHHHH------hC--C------CHHHHHhhC----CCCCHHHHHHHHHHHhhhHHh
Q 019787 69 GEFTDEEDRLICSLFAS------IG--S------RWSIIAAQL----PGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 69 g~WT~EED~~Ll~lv~k------~G--~------kW~~IA~~l----pGRT~~qcknRw~~llkkk~~ 118 (336)
..||.+|...|++++.+ ++ . -|..||..| ..||+.||++||..|.+.-..
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~ 69 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKK 69 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHC
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHH
Confidence 47999999999999877 32 1 399999987 469999999999997766544
No 29
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.98 E-value=0.00026 Score=71.69 Aligned_cols=50 Identities=26% Similarity=0.634 Sum_probs=46.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceecccc
Q 019787 11 NVKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYL 62 (336)
Q Consensus 11 ~lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L 62 (336)
.+-...||++|+-+|+++++.||. +||..||..+| .|+..+|+++|.+++
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~-GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGF-GNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCC-CcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 456678999999999999999999 69999999999 999999999998865
No 30
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.97 E-value=0.00086 Score=68.59 Aligned_cols=46 Identities=13% Similarity=0.212 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHH
Q 019787 67 KHGEFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTK 112 (336)
Q Consensus 67 kkg~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~l 112 (336)
....||.+|..+|++.++.||..|.+||+++..||..||.-||-++
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcC
Confidence 3448999999999999999999999999999999999999999655
No 31
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.94 E-value=0.0011 Score=68.92 Aligned_cols=48 Identities=13% Similarity=0.229 Sum_probs=43.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHh
Q 019787 66 IKHGEFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKL 113 (336)
Q Consensus 66 lkkg~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~ll 113 (336)
..+..||++|..+|+++++.||-+|.+||.++.+||..||--||..+=
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LP 298 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLP 298 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcC
Confidence 345689999999999999999999999999999999999999886553
No 32
>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=96.52 E-value=0.0044 Score=47.67 Aligned_cols=50 Identities=16% Similarity=0.307 Sum_probs=32.5
Q ss_pred CCCCCHHHHHHHHHHHHHhC--------C-CHHHHHhhCC-CCCHHHHHHHHHHHhhhHH
Q 019787 68 HGEFTDEEDRLICSLFASIG--------S-RWSIIAAQLP-GRTDNDIKNYWNTKLKKKL 117 (336)
Q Consensus 68 kg~WT~EED~~Ll~lv~k~G--------~-kW~~IA~~lp-GRT~~qcknRw~~llkkk~ 117 (336)
+.+||+|||++|++.|+++. + =|.+++..-+ .+|-.+.|+||...|+.+.
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 45799999999999997652 2 1999999877 9999999999988777653
No 33
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.23 E-value=0.0015 Score=66.95 Aligned_cols=46 Identities=30% Similarity=0.606 Sum_probs=43.0
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccc
Q 019787 13 KKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNY 61 (336)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~ 61 (336)
....||.+|-.+|.+.|+.||. +|.+||.+++ .|+..||..|+.+.
T Consensus 278 ~dk~WS~qE~~LLLEGIe~ygD--dW~kVA~HVg-tKt~EqCIl~FL~L 323 (531)
T COG5259 278 RDKNWSRQELLLLLEGIEMYGD--DWDKVARHVG-TKTKEQCILHFLQL 323 (531)
T ss_pred ccccccHHHHHHHHHHHHHhhh--hHHHHHHHhC-CCCHHHHHHHHHcC
Confidence 5668999999999999999997 9999999999 99999999999874
No 34
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=96.21 E-value=0.0057 Score=55.40 Aligned_cols=52 Identities=19% Similarity=0.334 Sum_probs=43.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCC-------HHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 66 IKHGEFTDEEDRLICSLFASIGSR-------WSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 66 lkkg~WT~EED~~Ll~lv~k~G~k-------W~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
.+.+.||.|||.+|.+.|-.|+.. ...++..| +||..+|..||+..++++..
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~Ye 61 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQYQ 61 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHHHH
Confidence 356789999999999999888642 56667778 89999999999999987755
No 35
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.08 E-value=0.0024 Score=66.51 Aligned_cols=49 Identities=27% Similarity=0.619 Sum_probs=44.5
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccc
Q 019787 10 ANVKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNY 61 (336)
Q Consensus 10 p~lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~ 61 (336)
..--++.||.+|+.+|+++|++||. +|.+||..++ .|+..||..++.+.
T Consensus 249 ~~~~~~~WT~qE~lLLLE~ie~y~d--dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 249 GESARPNWTEQETLLLLEAIEMYGD--DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred cccCCCCccHHHHHHHHHHHHHhcc--cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 3445788999999999999999998 9999999999 99999999999874
No 36
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.82 E-value=0.023 Score=56.12 Aligned_cols=48 Identities=19% Similarity=0.394 Sum_probs=42.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhC-CCHHHHHhhCCCCCHHHHHHHHHHHhh
Q 019787 67 KHGEFTDEEDRLICSLFASIG-SRWSIIAAQLPGRTDNDIKNYWNTKLK 114 (336)
Q Consensus 67 kkg~WT~EED~~Ll~lv~k~G-~kW~~IA~~lpGRT~~qcknRw~~llk 114 (336)
--..|+.+|+-+|++.....| .+|..||.++..|+...||.||..+.-
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 344699999999999999999 599999999988999999999876543
No 37
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.72 E-value=0.024 Score=43.81 Aligned_cols=50 Identities=26% Similarity=0.465 Sum_probs=40.6
Q ss_pred CCCCCHHHHHHHHHHHHHh-----C--C----------CHHHHHhhC-----CCCCHHHHHHHHHHHhhhHH
Q 019787 68 HGEFTDEEDRLICSLFASI-----G--S----------RWSIIAAQL-----PGRTDNDIKNYWNTKLKKKL 117 (336)
Q Consensus 68 kg~WT~EED~~Ll~lv~k~-----G--~----------kW~~IA~~l-----pGRT~~qcknRw~~llkkk~ 117 (336)
+..||++|...|++++.++ | . -|..|+..| +.||..+++.+|..+.....
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~K 73 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKAK 73 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHH
Confidence 4579999999999999886 3 1 299999866 35999999999988876543
No 38
>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=95.53 E-value=0.0027 Score=48.85 Aligned_cols=53 Identities=26% Similarity=0.449 Sum_probs=33.6
Q ss_pred CCCCCHHHHHHHHHHHHHhCCC-------CCccccccccccccCcccccceeccccCCCC
Q 019787 14 KGPWSPEEDSKLKEYIEKYGTG-------GNWIALPQKAGLKRCGKSCRLRWLNYLRPNI 66 (336)
Q Consensus 14 Kg~WT~EEDe~L~~lV~kyG~~-------~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~l 66 (336)
+.+||+|||+.|++.|..+... .-|..+++.-++.+|-.+-|+||...|.+..
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 4579999999999999766211 2499998887768888899999999987654
No 39
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=95.52 E-value=0.0035 Score=56.17 Aligned_cols=50 Identities=28% Similarity=0.603 Sum_probs=41.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHh---C-CC-CCccccccccccccCcccccceeccccC
Q 019787 12 VKKGPWSPEEDSKLKEYIEKY---G-TG-GNWIALPQKAGLKRCGKSCRLRWLNYLR 63 (336)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~ky---G-~~-~nW~~IA~~l~~gRt~kQCr~RW~n~L~ 63 (336)
.+...||.|||.+|.+.|-+| | +. ..+..|+..++ ||+.-|.-||..++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VR 56 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVR 56 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHH
Confidence 356789999999999999999 2 10 15778888887 999999999988776
No 40
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=94.42 E-value=0.1 Score=58.93 Aligned_cols=101 Identities=18% Similarity=0.354 Sum_probs=74.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCccccccccccccCccccc----------------------------------------
Q 019787 16 PWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCR---------------------------------------- 55 (336)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr---------------------------------------- 55 (336)
-|+.-+=..++.+..+||. .+-..||..+. +++...++
T Consensus 826 ~w~~~~f~~f~~~~~~~gr-~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~ 903 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGR-NDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAI 903 (1033)
T ss_pred cccHHHHHHHHHHHHHhCH-hHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4888888888888899996 58889998886 56664433
Q ss_pred --------ceeccc-c-CCCCCCCCCCHHHHHHHHHHHHHhC-CCHHHHHh------------hCCCCCHHHHHHHHHHH
Q 019787 56 --------LRWLNY-L-RPNIKHGEFTDEEDRLICSLFASIG-SRWSIIAA------------QLPGRTDNDIKNYWNTK 112 (336)
Q Consensus 56 --------~RW~n~-L-~P~lkkg~WT~EED~~Ll~lv~k~G-~kW~~IA~------------~lpGRT~~qcknRw~~l 112 (336)
.-|... + -+.-++..+|+|||+.|+-.+.+|| .+|..|-. ++..||+..+..|..+|
T Consensus 904 ~~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 904 GKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred HHHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 222211 1 1333455699999999999999999 57999843 23589999999999999
Q ss_pred hhhHHh
Q 019787 113 LKKKLM 118 (336)
Q Consensus 113 lkkk~~ 118 (336)
++-..+
T Consensus 984 ~~~~~~ 989 (1033)
T PLN03142 984 IRLIEK 989 (1033)
T ss_pred HHHHHH
Confidence 876544
No 41
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=94.08 E-value=0.0069 Score=47.54 Aligned_cols=47 Identities=23% Similarity=0.556 Sum_probs=32.2
Q ss_pred CCCCCHHHHHHHHHHHHH--h----C---C-CC--Cccccccccc---cccCcccccceecc
Q 019787 14 KGPWSPEEDSKLKEYIEK--Y----G---T-GG--NWIALPQKAG---LKRCGKSCRLRWLN 60 (336)
Q Consensus 14 Kg~WT~EEDe~L~~lV~k--y----G---~-~~--nW~~IA~~l~---~gRt~kQCr~RW~n 60 (336)
+..||.+|...|+.++.. + + . .. -|..||..|. -.|++.||+.||.+
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~ 62 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKN 62 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence 357999999999999987 2 1 1 11 4999999874 57999999999977
No 42
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=93.62 E-value=0.012 Score=53.29 Aligned_cols=50 Identities=22% Similarity=0.496 Sum_probs=37.9
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCC-----CccccccccccccCcccccceeccccC
Q 019787 12 VKKGPWSPEEDSKLKEYIEKYGTGG-----NWIALPQKAGLKRCGKSCRLRWLNYLR 63 (336)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~kyG~~~-----nW~~IA~~l~~gRt~kQCr~RW~n~L~ 63 (336)
.+...||.|||.+|.+.|-+|+..+ ....++..+. |++..|..||.-+++
T Consensus 3 ~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 3 TRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred chhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 4677899999999999999996532 2444555555 999999999955443
No 43
>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=93.52 E-value=0.19 Score=43.05 Aligned_cols=53 Identities=26% Similarity=0.455 Sum_probs=41.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCC----CHHHHHhh------------CCCCCHHHHHHHHHHHhhhHH
Q 019787 65 NIKHGEFTDEEDRLICSLFASIGS----RWSIIAAQ------------LPGRTDNDIKNYWNTKLKKKL 117 (336)
Q Consensus 65 ~lkkg~WT~EED~~Ll~lv~k~G~----kW~~IA~~------------lpGRT~~qcknRw~~llkkk~ 117 (336)
.-++..||++||+.|+-++.+||- .|..|-.. +..||+..+..|..+|++-..
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~i~ 114 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKLIE 114 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHHHH
Confidence 556778999999999999999996 79888643 247999999999999987543
No 44
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=93.32 E-value=0.23 Score=48.84 Aligned_cols=53 Identities=17% Similarity=0.241 Sum_probs=42.9
Q ss_pred CCCCCHHHHHHHHHHHHHh----------CCCHHHHHhhC----CCCCHHHHHHHHHHHhhhHHhhc
Q 019787 68 HGEFTDEEDRLICSLFASI----------GSRWSIIAAQL----PGRTDNDIKNYWNTKLKKKLMAM 120 (336)
Q Consensus 68 kg~WT~EED~~Ll~lv~k~----------G~kW~~IA~~l----pGRT~~qcknRw~~llkkk~~~~ 120 (336)
...|+.+|-..||++..+. +..|..||+.+ --||+.+|+++|..+.++.....
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~~k 120 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKKEK 120 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 4689999999999998653 23599999955 34999999999999988766543
No 45
>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=93.07 E-value=0.26 Score=39.07 Aligned_cols=47 Identities=32% Similarity=0.570 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHHHHHh---CC----------CHHHHHhhC---CC--CCHHHHHHHHHHHhhhH
Q 019787 70 EFTDEEDRLICSLFASI---GS----------RWSIIAAQL---PG--RTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~---G~----------kW~~IA~~l---pG--RT~~qcknRw~~llkkk 116 (336)
.||+++++.|++++.+. |+ .|..|+..| +| .|..||++||..+.+.-
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~~y 65 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKKDY 65 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHHHH
Confidence 49999999999998553 21 299999877 33 57899999998776553
No 46
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=92.94 E-value=0.025 Score=55.89 Aligned_cols=50 Identities=22% Similarity=0.533 Sum_probs=45.0
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccC
Q 019787 12 VKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLR 63 (336)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~ 63 (336)
+-.--|++.|+.+|++.....|. ++|..||..+| .|+...|+++|..++.
T Consensus 61 I~~e~WgadEEllli~~~~TlGl-GNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 61 IGEEGWGADEELLLIECLDTLGL-GNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred ccCCCcCchHHHHHHHHHHhcCC-CcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 33456999999999999999999 69999999999 9999999999988765
No 47
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=91.35 E-value=0.074 Score=41.07 Aligned_cols=48 Identities=29% Similarity=0.424 Sum_probs=38.5
Q ss_pred CCCCCHHHHHHHHHHHHHh-----CC----------CCCccccccccc----cccCcccccceeccc
Q 019787 14 KGPWSPEEDSKLKEYIEKY-----GT----------GGNWIALPQKAG----LKRCGKSCRLRWLNY 61 (336)
Q Consensus 14 Kg~WT~EEDe~L~~lV~ky-----G~----------~~nW~~IA~~l~----~gRt~kQCr~RW~n~ 61 (336)
+..||++|.+.|+++|.+| |. ..-|..|+..+. ..|+..+++.+|.+.
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nl 68 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNL 68 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence 5679999999999999988 31 115999998863 368999999999874
No 48
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=89.55 E-value=0.59 Score=47.43 Aligned_cols=47 Identities=19% Similarity=0.302 Sum_probs=43.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 69 GEFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 69 g~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
.+||.+|-+++.++...+|..+.-||..+|.|...|||.+|..--|+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek~ 412 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEKV 412 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhhh
Confidence 47999999999999999999999999999999999999999765544
No 49
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=89.55 E-value=0.62 Score=47.33 Aligned_cols=86 Identities=22% Similarity=0.361 Sum_probs=64.8
Q ss_pred CccccccccccccCcccccceeccccCCC-------------------------CCCCCCCHHHHHHHHHHHHHhCCCHH
Q 019787 37 NWIALPQKAGLKRCGKSCRLRWLNYLRPN-------------------------IKHGEFTDEEDRLICSLFASIGSRWS 91 (336)
Q Consensus 37 nW~~IA~~l~~gRt~kQCr~RW~n~L~P~-------------------------lkkg~WT~EED~~Ll~lv~k~G~kW~ 91 (336)
.|.-+.=... .|...-...+|.+.-++. +....||.||-..|..+++.|.-+|-
T Consensus 75 ~W~w~pFtn~-aRkD~~~l~HWvr~~d~~~dypfakfNk~vdipsYt~eEYe~~l~dn~WskeETD~LF~lck~fDLRf~ 153 (445)
T KOG2656|consen 75 PWKWVPFTNS-ARKDDATLHHWVRVGDTPKDYPFAKFNKHVDIPSYTDEEYEAHLNDNSWSKEETDYLFDLCKRFDLRFF 153 (445)
T ss_pred CceeeccCCc-cccCCceEEeeeeccCCCCCCchhhhccccCccccchHHHHHhhccccccHHHHHHHHHHHHhcCeeEE
Confidence 5655543333 566666677787763321 12345999999999999999999999
Q ss_pred HHHhh-----CCC-CCHHHHHHHHHHHhhhHHhhcCCC
Q 019787 92 IIAAQ-----LPG-RTDNDIKNYWNTKLKKKLMAMAPP 123 (336)
Q Consensus 92 ~IA~~-----lpG-RT~~qcknRw~~llkkk~~~~~~~ 123 (336)
.||-. ++. ||-.++|.||..+.++.++..++.
T Consensus 154 VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~s 191 (445)
T KOG2656|consen 154 VIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAPS 191 (445)
T ss_pred EEeeccchhhccccccHHHHHHHHHHHHHHHHHccCCC
Confidence 99976 554 999999999999999888776653
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=87.47 E-value=1.7 Score=30.93 Aligned_cols=42 Identities=29% Similarity=0.275 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 73 DEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 73 ~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
+++++.++.++--.|-.|.+||..+ |.|...|+.+....+++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~~ 53 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARKK 53 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHhh
Confidence 4677888888888899999999999 99999999987766543
No 51
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=86.58 E-value=1.7 Score=45.07 Aligned_cols=49 Identities=24% Similarity=0.317 Sum_probs=43.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 67 KHGEFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 67 kkg~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
-...||.||--++-+++..||.+..+|-+.||.|+-..+...|....|.
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~ 234 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKT 234 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHH
Confidence 3567999999999999999999999999999999999998887665544
No 52
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=84.43 E-value=12 Score=38.12 Aligned_cols=45 Identities=18% Similarity=0.282 Sum_probs=38.9
Q ss_pred CCCCHHHHHHHHHHHHHhCCCHHHHHh-hCCCCCHHHHHHHHHHHh
Q 019787 69 GEFTDEEDRLICSLFASIGSRWSIIAA-QLPGRTDNDIKNYWNTKL 113 (336)
Q Consensus 69 g~WT~EED~~Ll~lv~k~G~kW~~IA~-~lpGRT~~qcknRw~~ll 113 (336)
..|+++|-+.+-+.++.||.++..|-+ .++.|+--.|-..|....
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWK 323 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWK 323 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhh
Confidence 369999999999999999999999966 779999999987765443
No 53
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=82.43 E-value=0.59 Score=47.41 Aligned_cols=65 Identities=17% Similarity=0.274 Sum_probs=50.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccc--cCCCC------CCCCCCHHHHHHHH
Q 019787 13 KKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNY--LRPNI------KHGEFTDEEDRLIC 80 (336)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~--L~P~l------kkg~WT~EED~~Ll 80 (336)
.--+||.+|-+++.++...+|+ ++..|+..++ .|..+|++.+|.+- .+|.. .+-|+..+|-..|.
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGt--dF~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k~~ 436 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGT--DFSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNKLR 436 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcc--hHHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhhHH
Confidence 3457999999999999999999 8999999999 99999999988663 23321 24466666655433
No 54
>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=78.66 E-value=2 Score=34.40 Aligned_cols=25 Identities=36% Similarity=0.716 Sum_probs=14.5
Q ss_pred CCCCCCCCCHHHHHHH--------HHHHHHhCC
Q 019787 10 ANVKKGPWSPEEDSKL--------KEYIEKYGT 34 (336)
Q Consensus 10 p~lkKg~WT~EEDe~L--------~~lV~kyG~ 34 (336)
|.-..|-||+|+|+.| .+++++||.
T Consensus 43 P~n~~GiWT~eDD~~L~~~~~~~~~~L~~khG~ 75 (87)
T PF11626_consen 43 PDNMPGIWTPEDDEMLRSGDKDDIERLIKKHGE 75 (87)
T ss_dssp -TT-TT---HHHHHHHTS--HHHHHHHHHHH-H
T ss_pred CCCCCCCcCHHHHHHHHcCCHHHHHHHHHHhCH
Confidence 4455788999999999 456677774
No 55
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=76.53 E-value=5.4 Score=34.76 Aligned_cols=46 Identities=17% Similarity=0.195 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHHhhhHHhh
Q 019787 73 DEEDRLICSLFASIGS-RWSIIAAQLPGRTDNDIKNYWNTKLKKKLMA 119 (336)
Q Consensus 73 ~EED~~Ll~lv~k~G~-kW~~IA~~lpGRT~~qcknRw~~llkkk~~~ 119 (336)
++-|.+|+.+.++-|. .|++||+.+ |-|...|+.|++.+.......
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 4679999999999886 799999999 999999999999888776543
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=76.21 E-value=6.8 Score=27.37 Aligned_cols=38 Identities=24% Similarity=0.371 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHH
Q 019787 74 EEDRLICSLFASIGS-RWSIIAAQLPGRTDNDIKNYWNTK 112 (336)
Q Consensus 74 EED~~Ll~lv~k~G~-kW~~IA~~lpGRT~~qcknRw~~l 112 (336)
+=|.+|+.+.++-|. .|.+||+.+ |=|...|..|+..+
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 558899999999886 799999999 99999999998765
No 57
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=73.66 E-value=6 Score=34.93 Aligned_cols=46 Identities=13% Similarity=0.096 Sum_probs=40.6
Q ss_pred CHHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 72 TDEEDRLICSLFASIGS-RWSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 72 T~EED~~Ll~lv~k~G~-kW~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
-++-|.+|+.+.++-|. .|++||+.+ |=|...|+.|++.+.+....
T Consensus 12 lD~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 12 LDRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCe
Confidence 36678999999998886 899999999 99999999999999887764
No 58
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=73.00 E-value=5.7 Score=42.65 Aligned_cols=53 Identities=9% Similarity=0.340 Sum_probs=43.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCHHHHHh----------hCCCCCHHHHHHHHHHHhhhHHhh
Q 019787 67 KHGEFTDEEDRLICSLFASIGSRWSIIAA----------QLPGRTDNDIKNYWNTKLKKKLMA 119 (336)
Q Consensus 67 kkg~WT~EED~~Ll~lv~k~G~kW~~IA~----------~lpGRT~~qcknRw~~llkkk~~~ 119 (336)
.+..||-.|+.-+..+++++|.++..|-. ...-+|..|++.+|+.++++..+-
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k~ 149 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNKL 149 (782)
T ss_pred cccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHhh
Confidence 36789999999999999999999998822 233468889999999888876553
No 59
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=72.91 E-value=10 Score=26.66 Aligned_cols=41 Identities=24% Similarity=0.278 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 74 EEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 74 EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
++++.++.+.--.|-.+.+||..| |-|...|+.+-...+++
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 455555555555566899999999 89999999988777765
No 60
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=72.82 E-value=2.9 Score=35.78 Aligned_cols=37 Identities=41% Similarity=0.533 Sum_probs=28.9
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCC--CCCccccccccc
Q 019787 10 ANVKKGPWSPEEDSKLKEYIEKYGT--GGNWIALPQKAG 46 (336)
Q Consensus 10 p~lkKg~WT~EEDe~L~~lV~kyG~--~~nW~~IA~~l~ 46 (336)
|+-++..||.+||.-|+-++.+||. .+.|..|-..+.
T Consensus 45 ~~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir 83 (118)
T PF09111_consen 45 PNNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIR 83 (118)
T ss_dssp STSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHH
T ss_pred CCCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHH
Confidence 3677889999999999999999997 248988866653
No 61
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=71.63 E-value=7.5 Score=42.69 Aligned_cols=45 Identities=13% Similarity=0.217 Sum_probs=40.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHH
Q 019787 68 HGEFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTK 112 (336)
Q Consensus 68 kg~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~l 112 (336)
...||+.|-.++-+++-.|..++-.|++.++++|-.+|-..|...
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 457999999999999999999999999999999999997765443
No 62
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=70.04 E-value=1.6 Score=42.94 Aligned_cols=47 Identities=32% Similarity=0.541 Sum_probs=37.1
Q ss_pred CCCCCHHHHHHHHHHHHHh------CC--CCCcccccccc---ccccCcccccceecc
Q 019787 14 KGPWSPEEDSKLKEYIEKY------GT--GGNWIALPQKA---GLKRCGKSCRLRWLN 60 (336)
Q Consensus 14 Kg~WT~EEDe~L~~lV~ky------G~--~~nW~~IA~~l---~~gRt~kQCr~RW~n 60 (336)
...|+.+|-..|+++..+. |. ..-|..||.++ +..|++.||+.+|.+
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~n 111 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIEN 111 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHH
Confidence 3789999999999988644 11 12699999954 357999999999987
No 63
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=66.44 E-value=7.2 Score=42.82 Aligned_cols=43 Identities=14% Similarity=0.374 Sum_probs=38.4
Q ss_pred CCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceecc
Q 019787 15 GPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLN 60 (336)
Q Consensus 15 g~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n 60 (336)
-.||+.|..++.+++..|.. ++..|+.++. ++|.+||-+-|+.
T Consensus 620 d~WTp~E~~lF~kA~y~~~K--DF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSK--DFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred ccccHHHHHHHHHHHHHhcc--cHHHHHHHhc-cccHHHHHHHHHH
Confidence 46999999999999999976 8999999888 9999999886654
No 64
>smart00595 MADF subfamily of SANT domain.
Probab=65.11 E-value=6.3 Score=30.69 Aligned_cols=27 Identities=26% Similarity=0.534 Sum_probs=22.5
Q ss_pred CHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 89 RWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 89 kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
-|..||..| |-|..+|+.+|+.+-..-
T Consensus 29 aW~~Ia~~l-~~~~~~~~~kw~~LR~~y 55 (89)
T smart00595 29 AWEEIAEEL-GLSVEECKKRWKNLRDRY 55 (89)
T ss_pred HHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 399999999 559999999998876443
No 65
>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=64.99 E-value=8 Score=34.73 Aligned_cols=41 Identities=32% Similarity=0.319 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHH
Q 019787 70 EFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNT 111 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~ 111 (336)
.||+|+.+.|.+|..+ |-.=++||+.|.|.|.+.|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw~~-G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHHHc-CCCHHHHHHHhCCcchhhhhhhhhc
Confidence 4999999999988854 7788899999977999999876554
No 66
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=62.07 E-value=3.5 Score=42.09 Aligned_cols=50 Identities=16% Similarity=0.368 Sum_probs=43.1
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHhCCCCCccccccc-----cccccCcccccceeccc
Q 019787 10 ANVKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQK-----AGLKRCGKSCRLRWLNY 61 (336)
Q Consensus 10 p~lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~-----l~~gRt~kQCr~RW~n~ 61 (336)
+.++...||.||-+-|.++.++|.- .|-.||.. .+..||....++||...
T Consensus 126 ~~l~dn~WskeETD~LF~lck~fDL--Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v 180 (445)
T KOG2656|consen 126 AHLNDNSWSKEETDYLFDLCKRFDL--RFFVIADRYDNQQYKKSRTVEDLKERYYSV 180 (445)
T ss_pred HhhccccccHHHHHHHHHHHHhcCe--eEEEEeeccchhhccccccHHHHHHHHHHH
Confidence 3456678999999999999999987 89999998 67679999999999654
No 67
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=61.99 E-value=23 Score=29.51 Aligned_cols=31 Identities=23% Similarity=0.260 Sum_probs=25.4
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 85 k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
..|-.+.+||..+ |.|...|+.+....+++.
T Consensus 127 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~L 157 (161)
T TIGR02985 127 FEGKSYKEIAEEL-GISVKTVEYHISKALKEL 157 (161)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3467899999999 999999999988765543
No 68
>PLN03162 golden-2 like transcription factor; Provisional
Probab=61.53 E-value=2e+02 Score=29.70 Aligned_cols=45 Identities=18% Similarity=0.110 Sum_probs=36.5
Q ss_pred CCCCCHHHHHHHHHHHHHhCC---CHHHHHhhC--CCCCHHHHHHHHHHH
Q 019787 68 HGEFTDEEDRLICSLFASIGS---RWSIIAAQL--PGRTDNDIKNYWNTK 112 (336)
Q Consensus 68 kg~WT~EED~~Ll~lv~k~G~---kW~~IA~~l--pGRT~~qcknRw~~l 112 (336)
|-.||+|=.++++++|.+.|. .=+.|=+.| +|=|..+|+.|.+.+
T Consensus 237 RLrWTpELH~rFVeAV~qLG~dKATPK~ILelMnV~GLTRenVKSHLQKY 286 (526)
T PLN03162 237 KVDWTPELHRRFVHAVEQLGVEKAFPSRILELMGVQCLTRHNIASHLQKY 286 (526)
T ss_pred cccCCHHHHHHHHHHHHHhCcCccchHHHHHHcCCCCcCHHHHHHHHHHH
Confidence 346999999999999999994 356777766 888999999887544
No 69
>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=60.99 E-value=4.3 Score=32.49 Aligned_cols=17 Identities=29% Similarity=0.561 Sum_probs=10.3
Q ss_pred CCCCCCCCCHHHHHHHH
Q 019787 64 PNIKHGEFTDEEDRLIC 80 (336)
Q Consensus 64 P~lkkg~WT~EED~~Ll 80 (336)
|.-..|-||+|+|+.|.
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 56678899999999994
No 70
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=58.60 E-value=20 Score=28.81 Aligned_cols=46 Identities=17% Similarity=0.197 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHHhhhHHhh
Q 019787 73 DEEDRLICSLFASIGS-RWSIIAAQLPGRTDNDIKNYWNTKLKKKLMA 119 (336)
Q Consensus 73 ~EED~~Ll~lv~k~G~-kW~~IA~~lpGRT~~qcknRw~~llkkk~~~ 119 (336)
++.|..|+.+..+.|. .+.+||+.+ |-+...|+.|...+.+.....
T Consensus 2 d~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 2 DEIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred CHHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 3578889999988875 799999999 999999999999888765443
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=57.13 E-value=39 Score=33.85 Aligned_cols=49 Identities=20% Similarity=0.439 Sum_probs=38.1
Q ss_pred CCCCCHHHHHHHHHHHHHh-CC---CHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 68 HGEFTDEEDRLICSLFASI-GS---RWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 68 kg~WT~EED~~Ll~lv~k~-G~---kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
-..||.-|.+.|+.+.+.- |. .-..|++.++||+..+|++.-..+..+.
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~~LK~rv 73 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQQLKGRV 73 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHHHHHHHH
Confidence 4579999999999988765 54 4578899999999999998655554443
No 72
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=54.96 E-value=10 Score=40.55 Aligned_cols=51 Identities=22% Similarity=0.412 Sum_probs=44.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 65 NIKHGEFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 65 ~lkkg~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
....++|+.+|-.+.-.+....|.+.+-||..+|+|+..|||.+|..--++
T Consensus 406 ~~~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~eE~r 456 (584)
T KOG2009|consen 406 KLETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKEEKR 456 (584)
T ss_pred ccccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhhhhc
Confidence 345578999999999999999999999999999999999999888654444
No 73
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=51.53 E-value=31 Score=32.26 Aligned_cols=45 Identities=16% Similarity=0.220 Sum_probs=35.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHhhC---CCCCHHHHHHHHHHHhhh
Q 019787 70 EFTDEEDRLICSLFASIGSRWSIIAAQL---PGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G~kW~~IA~~l---pGRT~~qcknRw~~llkk 115 (336)
.|++++|-+|+.+|.. |+.-..|+.-+ -.-|-..|..||..+|--
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd 48 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLYD 48 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHcC
Confidence 5999999999999865 56666776643 345889999999999854
No 74
>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=50.10 E-value=24 Score=28.34 Aligned_cols=29 Identities=31% Similarity=0.614 Sum_probs=23.9
Q ss_pred HHHHHHHHHHhCCCHHHHHhhCCCCCHHHH
Q 019787 76 DRLICSLFASIGSRWSIIAAQLPGRTDNDI 105 (336)
Q Consensus 76 D~~Ll~lv~k~G~kW~~IA~~lpGRT~~qc 105 (336)
|+.|..+....|..|..+|..| |=|..+|
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 75
>KOG3841 consensus TEF-1 and related transcription factor, TEAD family [Transcription]
Probab=48.58 E-value=1.1e+02 Score=31.59 Aligned_cols=55 Identities=16% Similarity=0.211 Sum_probs=42.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCC----------------CHHHHHhhC-----CCCCHHHHHHHHHHHhhhHHhhc
Q 019787 66 IKHGEFTDEEDRLICSLFASIGS----------------RWSIIAAQL-----PGRTDNDIKNYWNTKLKKKLMAM 120 (336)
Q Consensus 66 lkkg~WT~EED~~Ll~lv~k~G~----------------kW~~IA~~l-----pGRT~~qcknRw~~llkkk~~~~ 120 (336)
.--|.|+++=|+.+.++...|.. +=.-||+++ ..||..||..|-..+.|++.+..
T Consensus 74 daegvWSpdIEqsFqEALaiyppcGrrKIilsdegkmyGRNELIarYIKlrtgktRTrKQVSSHIQVlarrk~rei 149 (455)
T KOG3841|consen 74 DAEGVWSPDIEQSFQEALAIYPPCGRRKIILSDEGKMYGRNELIARYIKLRTGKTRTRKQVSSHIQVLARRKLREI 149 (455)
T ss_pred ccccccChhHHHHHHHHHhhcCCCCceeEEEccCccccchHHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHH
Confidence 44578999999999999987631 247788866 34899999999888888876643
No 76
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=48.00 E-value=48 Score=26.62 Aligned_cols=30 Identities=27% Similarity=0.237 Sum_probs=24.3
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 85 k~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
..|-.+.+||+.+ |-|...|+++....+++
T Consensus 124 ~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 124 LEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3477899999999 77999999888776554
No 77
>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=46.61 E-value=21 Score=26.86 Aligned_cols=29 Identities=24% Similarity=0.389 Sum_probs=22.6
Q ss_pred CHHHHHhhCC-CCCHHHHHHHHHHHhhhHH
Q 019787 89 RWSIIAAQLP-GRTDNDIKNYWNTKLKKKL 117 (336)
Q Consensus 89 kW~~IA~~lp-GRT~~qcknRw~~llkkk~ 117 (336)
-|..||..|. .-+..+|+.||..+...-.
T Consensus 28 aw~~Ia~~l~~~~~~~~~~~~w~~Lr~~y~ 57 (85)
T PF10545_consen 28 AWQEIARELGKEFSVDDCKKRWKNLRDRYR 57 (85)
T ss_pred HHHHHHHHHccchhHHHHHHHHHHHHHHHH
Confidence 3999999994 3678899999988765443
No 78
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=46.04 E-value=8.7 Score=41.33 Aligned_cols=47 Identities=13% Similarity=0.299 Sum_probs=34.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCc---------ccccceeccc
Q 019787 13 KKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCG---------KSCRLRWLNY 61 (336)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~---------kQCr~RW~n~ 61 (336)
+|..||-.|.+.+..+++.+|. ++.+|-..+...|.+ .|+|.+|++.
T Consensus 87 ~ktaWt~~E~~~Ffdal~~~GK--dFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~ 142 (782)
T KOG4468|consen 87 AKTAWTHQEEESFFDALRQVGK--DFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRL 142 (782)
T ss_pred cccccchhhHHHHHHHHHHhcc--cHHHHHHHHHHhcccccchhhhhhHHHHHHHHHH
Confidence 3778999999999999999997 899885444433333 4566666553
No 79
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=45.05 E-value=54 Score=27.89 Aligned_cols=31 Identities=13% Similarity=0.064 Sum_probs=24.3
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 85 k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
-.|-.+.+||..| |.+...|+.+....+++.
T Consensus 142 ~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~L 172 (182)
T PRK09652 142 IEGLSYEEIAEIM-GCPIGTVRSRIFRAREAL 172 (182)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3467899999999 899999988876555443
No 80
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=43.95 E-value=47 Score=33.34 Aligned_cols=87 Identities=20% Similarity=0.361 Sum_probs=60.5
Q ss_pred CCCCCHHHHHHHHHHHHHh-CCC-CCccccccccccccCcccccceeccccCCCCCCCCCCHHHHHHHHHHHHH-h----
Q 019787 14 KGPWSPEEDSKLKEYIEKY-GTG-GNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLICSLFAS-I---- 86 (336)
Q Consensus 14 Kg~WT~EEDe~L~~lV~ky-G~~-~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~Ll~lv~k-~---- 86 (336)
-..||+-|...|+++.+.. |.. .+-..|++.+. +|+..++++ |.+.|+ ++.+.+++++ +
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~-~Rs~aEI~~-fl~~LK------------~rvareaiqkv~~~g~ 86 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELP-GRSEAEIRD-FLQQLK------------GRVAREAIQKVHPGGL 86 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhcc-CcCHHHHHH-HHHHHH------------HHHHHHHHHHhccccc
Confidence 4579999999999988766 421 13445666666 787777765 333332 3456666666 2
Q ss_pred -CCC------------HHHHHhhCCCCCHHHHHHHHHHHhh
Q 019787 87 -GSR------------WSIIAAQLPGRTDNDIKNYWNTKLK 114 (336)
Q Consensus 87 -G~k------------W~~IA~~lpGRT~~qcknRw~~llk 114 (336)
|.+ |..+|..+.|.-...+-.-|.++|-
T Consensus 87 ~~~R~~e~q~paPIEvW~dla~k~tg~~ee~~t~afsq~l~ 127 (344)
T PF11035_consen 87 KGPRRREAQPPAPIEVWMDLAEKVTGPLEEALTAAFSQVLT 127 (344)
T ss_pred ccccccccCCCccHHHHHHHHHHhcCchHHHHHHHHHHHHH
Confidence 221 9999999999999999888877764
No 81
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=43.59 E-value=18 Score=37.87 Aligned_cols=40 Identities=20% Similarity=0.369 Sum_probs=35.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHH
Q 019787 70 EFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWN 110 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~ 110 (336)
.||++|-. ++....-||.+...||..+...|+.|++.+|.
T Consensus 472 ~wSp~e~s-~ircf~~y~~~fe~ia~l~~tktp~Q~~~fy~ 511 (534)
T KOG1194|consen 472 GWSPEEKS-AIRCFHWYKDNFELIAELMATKTPEQIKKFYM 511 (534)
T ss_pred CCCCcccc-cccCchhhccchHHHHHHhcCCCHHHHHHHhc
Confidence 59999988 77777889999999999999999999999884
No 82
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=43.53 E-value=73 Score=20.93 Aligned_cols=40 Identities=18% Similarity=0.262 Sum_probs=27.4
Q ss_pred CCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHH
Q 019787 71 FTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTK 112 (336)
Q Consensus 71 WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~l 112 (336)
++++ +..++.++-.-|-.+..||..+ |-+...|+.+....
T Consensus 11 l~~~-~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 11 LPER-EREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred CCHH-HHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 4444 4555555555677899999998 78888887665443
No 83
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=42.25 E-value=52 Score=27.05 Aligned_cols=51 Identities=16% Similarity=0.137 Sum_probs=34.7
Q ss_pred CCCCHHHHHHHHHHHHHh----CC----CHHHHH----hhC-CCCCHHHHHHHHHHHhhhHHhh
Q 019787 69 GEFTDEEDRLICSLFASI----GS----RWSIIA----AQL-PGRTDNDIKNYWNTKLKKKLMA 119 (336)
Q Consensus 69 g~WT~EED~~Ll~lv~k~----G~----kW~~IA----~~l-pGRT~~qcknRw~~llkkk~~~ 119 (336)
.-||+|++-.||+.+..| |. .|..+- ..| ..=|..|+..+-+.|-++-...
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~ 68 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNA 68 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHH
Confidence 359999999999998777 62 454443 333 2237788888887766654443
No 84
>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=42.24 E-value=41 Score=26.97 Aligned_cols=30 Identities=20% Similarity=0.403 Sum_probs=24.4
Q ss_pred HHHHHHHHHHhCCCHHHHHhhCCCCCHHHHH
Q 019787 76 DRLICSLFASIGSRWSIIAAQLPGRTDNDIK 106 (336)
Q Consensus 76 D~~Ll~lv~k~G~kW~~IA~~lpGRT~~qck 106 (336)
|..|..+....|..|.++|..| |=+...|.
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~ 33 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEIN 33 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHH
Confidence 6678888899999999999999 66665543
No 85
>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=42.15 E-value=30 Score=27.23 Aligned_cols=29 Identities=31% Similarity=0.619 Sum_probs=23.2
Q ss_pred HHHHHHHHHHhCCCHHHHHhhCCCCCHHHH
Q 019787 76 DRLICSLFASIGSRWSIIAAQLPGRTDNDI 105 (336)
Q Consensus 76 D~~Ll~lv~k~G~kW~~IA~~lpGRT~~qc 105 (336)
|..|..+.+..|..|.++|+.| |=+..+|
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI 32 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDI 32 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHH
Confidence 4567888899999999999999 5565544
No 86
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=42.02 E-value=54 Score=27.81 Aligned_cols=30 Identities=20% Similarity=0.146 Sum_probs=23.9
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-.+.+||..| |-|...|+++.....++.
T Consensus 140 ~~~~~~eIA~~l-gis~~tv~~~~~ra~~~l 169 (179)
T PRK11924 140 EGLSYREIAEIL-GVPVGTVKSRLRRARQLL 169 (179)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 466899999999 899999999877655443
No 87
>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=41.03 E-value=69 Score=25.14 Aligned_cols=38 Identities=16% Similarity=0.337 Sum_probs=26.9
Q ss_pred HHHHHHHHhCC--------CHHHHHhhCC---CCC--HHHHHHHHHHHhhh
Q 019787 78 LICSLFASIGS--------RWSIIAAQLP---GRT--DNDIKNYWNTKLKK 115 (336)
Q Consensus 78 ~Ll~lv~k~G~--------kW~~IA~~lp---GRT--~~qcknRw~~llkk 115 (336)
.|..+|.+.|. .|..||..|. .-+ ..+++..|...|..
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~~ 90 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLLP 90 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhHh
Confidence 37777888873 5999999882 122 36788888877643
No 88
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=40.72 E-value=49 Score=26.33 Aligned_cols=38 Identities=18% Similarity=0.334 Sum_probs=27.4
Q ss_pred HHHHHHHHhCC--------CHHHHHhhCCC-----CCHHHHHHHHHHHhhh
Q 019787 78 LICSLFASIGS--------RWSIIAAQLPG-----RTDNDIKNYWNTKLKK 115 (336)
Q Consensus 78 ~Ll~lv~k~G~--------kW~~IA~~lpG-----RT~~qcknRw~~llkk 115 (336)
.|..+|.+.|. .|..||..|.- ....+++..|..+|..
T Consensus 36 ~Ly~~V~~~GG~~~v~~~~~W~~Va~~lg~~~~~~~~~~~lk~~Y~k~L~~ 86 (93)
T smart00501 36 RLYRLVQERGGYDQVTKDKKWKEIARELGIPDTSTSAASSLRKHYERYLLP 86 (93)
T ss_pred HHHHHHHHccCHHHHcCCCCHHHHHHHhCCCcccchHHHHHHHHHHHHhHH
Confidence 37777777773 69999998822 2356788888877764
No 89
>PF07750 GcrA: GcrA cell cycle regulator; InterPro: IPR011681 GcrA, together with CtrA (see IPR001789 from INTERPRO and IPR001867 from INTERPRO), form a master cell cycle regulator. These bacterial regulators are involved in controlling the progression and asymmetric polar morphogenesis []. During this process, there are temporal and spatial variations in the concentrations of GcrA and CtrA. The variation in concentration produces time and space dependent transcriptional regulation of modular functions that implement cell-cycle processes []. More specifically, GcrA acts as an activator of components of the replisome and the segregation machinery [].
Probab=39.18 E-value=18 Score=32.45 Aligned_cols=34 Identities=18% Similarity=0.417 Sum_probs=28.2
Q ss_pred CCCHHHHHHHHHHHHHhCCCCCccccccccc-cccCcc
Q 019787 16 PWSPEEDSKLKEYIEKYGTGGNWIALPQKAG-LKRCGK 52 (336)
Q Consensus 16 ~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~-~gRt~k 52 (336)
.||.|+.++|.+|... |. .=.+||..|| ..|++.
T Consensus 2 ~Wtde~~~~L~~lw~~-G~--SasqIA~~lg~vsRnAV 36 (162)
T PF07750_consen 2 SWTDERVERLRKLWAE-GL--SASQIARQLGGVSRNAV 36 (162)
T ss_pred CCCHHHHHHHHHHHHc-CC--CHHHHHHHhCCcchhhh
Confidence 4999999999999977 65 7889999999 556553
No 90
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=38.35 E-value=77 Score=28.12 Aligned_cols=29 Identities=17% Similarity=0.146 Sum_probs=23.6
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
.|-...+||..| |-+...|++|+....++
T Consensus 149 ~g~s~~EIA~~l-g~s~~tV~~rl~rar~~ 177 (192)
T PRK09643 149 QGYSVADAARML-GVAEGTVKSRCARGRAR 177 (192)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 466899999999 89999999998555443
No 91
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=38.31 E-value=82 Score=28.05 Aligned_cols=36 Identities=17% Similarity=0.137 Sum_probs=27.5
Q ss_pred HHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhh
Q 019787 78 LICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLK 114 (336)
Q Consensus 78 ~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llk 114 (336)
.++++..--|-.+.+||..| |-|...|+.+|...-.
T Consensus 142 ~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR~ 177 (185)
T PF07638_consen 142 RVVELRFFEGLSVEEIAERL-GISERTVRRRLRRARA 177 (185)
T ss_pred HHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 33334334577899999999 9999999999987653
No 92
>PRK04217 hypothetical protein; Provisional
Probab=38.27 E-value=76 Score=26.86 Aligned_cols=45 Identities=18% Similarity=0.042 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 70 EFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.-|++| ..++.+....|-...+||+.+ |-+...|+.++....++.
T Consensus 42 ~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkkL 86 (110)
T PRK04217 42 FMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKKV 86 (110)
T ss_pred cCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 356666 677777777788999999999 999999999988665544
No 93
>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=38.22 E-value=45 Score=26.58 Aligned_cols=26 Identities=27% Similarity=0.584 Sum_probs=20.3
Q ss_pred HHHHHHHhCCCHHHHHhhCCCCCHHHH
Q 019787 79 ICSLFASIGSRWSIIAAQLPGRTDNDI 105 (336)
Q Consensus 79 Ll~lv~k~G~kW~~IA~~lpGRT~~qc 105 (336)
|..+....|..|.++|+.| |=+..+|
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 3345578899999999999 7777665
No 94
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=37.97 E-value=63 Score=27.32 Aligned_cols=45 Identities=16% Similarity=0.186 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 73 DEEDRLICSLFASIGS-RWSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 73 ~EED~~Ll~lv~k~G~-kW~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
++-|.+|+++.++-|. .+..||+.+ |-|...|++|-+.+.+..+.
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 4668888888888876 799999999 89999999999988887644
No 95
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=37.79 E-value=67 Score=27.74 Aligned_cols=30 Identities=10% Similarity=-0.063 Sum_probs=23.9
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|..+.+||..| |-|...|+++.....++.
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~~L 180 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGREAL 180 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 366799999999 899999999876655543
No 96
>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=35.72 E-value=70 Score=27.73 Aligned_cols=31 Identities=10% Similarity=0.048 Sum_probs=24.5
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
|-...+||..| |-|...|+++....+++...
T Consensus 154 ~~s~~EIA~~l-gis~~tv~~~l~rar~~Lr~ 184 (190)
T TIGR02939 154 GLSYEDIARIM-DCPVGTVRSRIFRAREAIAI 184 (190)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHH
Confidence 55789999999 88999999998766655433
No 97
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=35.56 E-value=40 Score=39.32 Aligned_cols=73 Identities=22% Similarity=0.261 Sum_probs=42.6
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceeccccCCCCCCCCCCHHHHHHHHHHHHHh-CCCHH
Q 019787 13 KKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLNYLRPNIKHGEFTDEEDRLICSLFASI-GSRWS 91 (336)
Q Consensus 13 kKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n~L~P~lkkg~WT~EED~~Ll~lv~k~-G~kW~ 91 (336)
..--|..+||.+|+-.|-+||. ++|.+|-.--..+=+.+ ..+.-.+-.+.|=..+-..|+++..+. +.+|.
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGy-gswe~Ir~Dp~L~l~dK-------i~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~ 1203 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGY-GSWEAIRLDPDLGLTDK-------IFLVETVPQAKHLQRRADYLLSLLRKHDKGNTP 1203 (1373)
T ss_pred cccCCCchhhhhHhhhhhhccc-ccHHHhccCccccchhh-------hcccccCCchHHHHHHHHHHHHHHhhcccCCCc
Confidence 4556999999999999999998 69998832211111111 011111334455556666666666555 33444
Q ss_pred HH
Q 019787 92 II 93 (336)
Q Consensus 92 ~I 93 (336)
..
T Consensus 1204 ~~ 1205 (1373)
T KOG0384|consen 1204 KK 1205 (1373)
T ss_pred hh
Confidence 43
No 98
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=35.03 E-value=1.2e+02 Score=26.51 Aligned_cols=33 Identities=21% Similarity=0.123 Sum_probs=27.2
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHhh
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLMA 119 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~~ 119 (336)
.|-...+||..| |-+...|+.|....+++-...
T Consensus 142 ~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 142 DGMKQKDIAQAL-DIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHHh
Confidence 466899999999 999999999988777665544
No 99
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=34.13 E-value=85 Score=27.67 Aligned_cols=30 Identities=23% Similarity=0.076 Sum_probs=24.2
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-...+||..| |-|...|++|....+++.
T Consensus 121 ~g~~~~EIA~~l-gis~~tV~~~l~Rar~~L 150 (181)
T PRK09637 121 EGLSQKEIAEKL-GLSLSGAKSRVQRGRVKL 150 (181)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 466899999999 899999999987655543
No 100
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=33.69 E-value=1.2e+02 Score=26.37 Aligned_cols=32 Identities=16% Similarity=0.137 Sum_probs=25.5
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
.|-...+||..| |-+...|+.+....+++...
T Consensus 146 ~g~s~~eIA~~l-~is~~tV~~~l~ra~~~Lr~ 177 (184)
T PRK12512 146 EGASIKETAAKL-SMSEGAVRVALHRGLAALAA 177 (184)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 366789999999 89999999998776665444
No 101
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=33.39 E-value=43 Score=24.12 Aligned_cols=44 Identities=25% Similarity=0.291 Sum_probs=31.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 70 EFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
..|+.|-+.|.-+.. |..=.+||..+ +.+...|+.+...+.++.
T Consensus 3 ~LT~~E~~vl~~l~~--G~~~~eIA~~l-~is~~tV~~~~~~i~~Kl 46 (58)
T PF00196_consen 3 SLTERELEVLRLLAQ--GMSNKEIAEEL-GISEKTVKSHRRRIMKKL 46 (58)
T ss_dssp SS-HHHHHHHHHHHT--TS-HHHHHHHH-TSHHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHh--cCCcchhHHhc-CcchhhHHHHHHHHHHHh
Confidence 467777776655543 45556999999 899999999988887764
No 102
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=33.19 E-value=58 Score=29.85 Aligned_cols=45 Identities=22% Similarity=0.188 Sum_probs=36.7
Q ss_pred CCCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 69 GEFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 69 g~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
...|+.|-+.|.-+.+ |-.=.+||..| +.|...||+|...+++|.
T Consensus 147 ~~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~KL 191 (211)
T COG2197 147 ELLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRKL 191 (211)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHHc
Confidence 3689888888776654 44445999999 999999999999999874
No 103
>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=32.61 E-value=1.1e+02 Score=26.25 Aligned_cols=30 Identities=23% Similarity=0.313 Sum_probs=24.0
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-...+||..| |-|...|+++....+++.
T Consensus 134 ~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~L 163 (169)
T TIGR02954 134 HDLTIKEIAEVM-NKPEGTVKTYLHRALKKL 163 (169)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 356789999999 889999999887666554
No 104
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=32.22 E-value=55 Score=22.75 Aligned_cols=36 Identities=31% Similarity=0.417 Sum_probs=18.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHH
Q 019787 70 EFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKN 107 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qckn 107 (336)
.+|.+|-..|..++ +-|-.=.+||+.| ||+...|.+
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 57788877777665 4677788999999 999988864
No 105
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=32.07 E-value=87 Score=27.03 Aligned_cols=29 Identities=10% Similarity=-0.034 Sum_probs=23.1
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
|-...+||..| |.|...|+++.....++.
T Consensus 152 g~s~~eIA~~l-gis~~~v~~~l~Rar~~L 180 (187)
T TIGR02948 152 DLSLKEISEIL-DLPVGTVKTRIHRGREAL 180 (187)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 55789999999 899999999886655543
No 106
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=31.93 E-value=1.1e+02 Score=25.65 Aligned_cols=30 Identities=13% Similarity=0.097 Sum_probs=23.9
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-.-.+||..| |-+...|+.|....+++.
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~L 150 (161)
T PRK09047 121 EDMDVAETAAAM-GCSEGSVKTHCSRATHAL 150 (161)
T ss_pred hcCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 356789999999 899999999877655543
No 107
>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=31.77 E-value=1e+02 Score=27.45 Aligned_cols=46 Identities=15% Similarity=0.189 Sum_probs=37.5
Q ss_pred CCCCCCHHHHHHHHHHHHHhCCCHHHHHhhCC----CCCHHHHHHHHHHH
Q 019787 67 KHGEFTDEEDRLICSLFASIGSRWSIIAAQLP----GRTDNDIKNYWNTK 112 (336)
Q Consensus 67 kkg~WT~EED~~Ll~lv~k~G~kW~~IA~~lp----GRT~~qcknRw~~l 112 (336)
....-|+.|..-|..|+++||.++..+|.-.- -.|..||+.+....
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 34568999999999999999999999997442 37999998876554
No 108
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=31.71 E-value=1.1e+02 Score=26.43 Aligned_cols=31 Identities=23% Similarity=0.338 Sum_probs=25.2
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~ 117 (336)
.|-...+||..| |-+...|+.+...-+++-.
T Consensus 134 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~~~ 164 (172)
T PRK12523 134 DGMGHAEIAERL-GVSVSRVRQYLAQGLRQCY 164 (172)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHH
Confidence 466899999999 9999999999876666543
No 109
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=30.97 E-value=1.3e+02 Score=26.39 Aligned_cols=30 Identities=17% Similarity=0.185 Sum_probs=24.0
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-...+||..| |-+...|+.+....+++.
T Consensus 154 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~L 183 (189)
T PRK09648 154 VGLSAEETAEAV-GSTPGAVRVAQHRALARL 183 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 366899999999 899999999877665543
No 110
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=30.49 E-value=1.1e+02 Score=27.00 Aligned_cols=30 Identities=10% Similarity=-0.002 Sum_probs=24.0
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhhHH
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkkk~ 117 (336)
|-...+||..| |-|...|+.|....+++..
T Consensus 157 g~s~~EIA~~l-gis~~tVk~rl~ra~~~Lr 186 (194)
T PRK12531 157 ELPHQQVAEMF-DIPLGTVKSRLRLAVEKLR 186 (194)
T ss_pred CCCHHHHHHHh-CcCHHHHHHHHHHHHHHHH
Confidence 66789999999 9999999998776655443
No 111
>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=30.45 E-value=62 Score=25.97 Aligned_cols=30 Identities=27% Similarity=0.541 Sum_probs=23.4
Q ss_pred HHHHHHHHHhCCCHHHHHhhCCCCCHHHHHH
Q 019787 77 RLICSLFASIGSRWSIIAAQLPGRTDNDIKN 107 (336)
Q Consensus 77 ~~Ll~lv~k~G~kW~~IA~~lpGRT~~qckn 107 (336)
+.|-.+....|.+|..+|+.| |=++.+|..
T Consensus 3 ~~l~~l~~~lG~~Wk~lar~L-G~s~~eI~~ 32 (86)
T cd08777 3 KHLDLLRENLGKKWKRCARKL-GFTESEIEE 32 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHc-CCCHHHHHH
Confidence 445566688899999999999 777777654
No 112
>smart00005 DEATH DEATH domain, found in proteins involved in cell death (apoptosis). Alpha-helical domain present in a variety of proteins with apoptotic functions. Some (but not all) of these domains form homotypic and heterotypic dimers.
Probab=30.36 E-value=68 Score=24.66 Aligned_cols=30 Identities=27% Similarity=0.581 Sum_probs=22.1
Q ss_pred HHHHHHHHHHH-hCCCHHHHHhhCCCCCHHHH
Q 019787 75 EDRLICSLFAS-IGSRWSIIAAQLPGRTDNDI 105 (336)
Q Consensus 75 ED~~Ll~lv~k-~G~kW~~IA~~lpGRT~~qc 105 (336)
-++.|..++.. .|..|..+|+.| |=+..+|
T Consensus 4 ~~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i 34 (88)
T smart00005 4 TREKLAKLLDHPLGLDWRELARKL-GLSEADI 34 (88)
T ss_pred HHHHHHHHHcCccchHHHHHHHHc-CCCHHHH
Confidence 34667777777 899999999999 4444444
No 113
>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=30.31 E-value=70 Score=25.46 Aligned_cols=31 Identities=19% Similarity=0.454 Sum_probs=24.7
Q ss_pred HHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHH
Q 019787 76 DRLICSLFASIGSRWSIIAAQLPGRTDNDIKN 107 (336)
Q Consensus 76 D~~Ll~lv~k~G~kW~~IA~~lpGRT~~qckn 107 (336)
|..|..+....|.+|..+|+.| |=+...|..
T Consensus 4 ~~~l~~ia~~LG~dWk~LAr~L-g~se~dI~~ 34 (84)
T cd08804 4 EERLAVIADHLGFSWTELAREL-DFTEEQIHQ 34 (84)
T ss_pred hhHHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 4567778889999999999999 667666644
No 114
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=30.00 E-value=1.4e+02 Score=25.20 Aligned_cols=29 Identities=14% Similarity=-0.087 Sum_probs=23.2
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
.|-.-.+||..| |-+...|++|.....++
T Consensus 121 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (160)
T PRK09642 121 EEKSYQEIALQE-KIEVKTVEMKLYRARKW 149 (160)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356789999999 99999999987655544
No 115
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=29.80 E-value=1.2e+02 Score=26.00 Aligned_cols=31 Identities=26% Similarity=0.250 Sum_probs=24.2
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~ 117 (336)
.|-.-.+||..| |.+...|+.|....+++..
T Consensus 133 ~g~s~~EIA~~l-gis~~tV~~~l~ra~~~Lr 163 (173)
T PRK09645 133 RGWSTAQIAADL-GIPEGTVKSRLHYALRALR 163 (173)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHHH
Confidence 355678999999 8999999999876655443
No 116
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=29.66 E-value=1.4e+02 Score=26.22 Aligned_cols=30 Identities=13% Similarity=0.046 Sum_probs=23.9
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-...+||..| |-|...|+++....+++.
T Consensus 146 ~~~s~~eIA~~l-gis~~tV~~~l~Rar~~L 175 (189)
T PRK12515 146 HEKSVEEVGEIV-GIPESTVKTRMFYARKKL 175 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 356789999999 889999999987655443
No 117
>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=29.39 E-value=64 Score=25.46 Aligned_cols=33 Identities=27% Similarity=0.459 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHH
Q 019787 73 DEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKN 107 (336)
Q Consensus 73 ~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qckn 107 (336)
.||.++|+.. -..|.+|...|..| |=+...|++
T Consensus 2 ~~~v~~ll~~-~nlG~dW~~LA~~L-G~~~~~I~~ 34 (77)
T cd08311 2 QEEVEKLLES-GRPGRDWRSLAGEL-GYEDEAIDT 34 (77)
T ss_pred hHHHHHHHhC-CCCccCHHHHHHHc-CCCHHHHHH
Confidence 5788888732 25688999999999 777777754
No 118
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=29.37 E-value=1.2e+02 Score=26.87 Aligned_cols=29 Identities=3% Similarity=-0.030 Sum_probs=23.3
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
.|-...+||..| |-+...|+.|.....++
T Consensus 149 ~g~s~~EIA~~l-gis~~tVk~~l~RAr~~ 177 (189)
T PRK12530 149 LELSSEQICQEC-DISTSNLHVLLYRARLQ 177 (189)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356799999999 99999999987655443
No 119
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=29.33 E-value=1.4e+02 Score=26.22 Aligned_cols=32 Identities=19% Similarity=0.136 Sum_probs=25.6
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
.|-.-.+||..| |-+...|+.|....+++..+
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~Lr~ 176 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDALLA 176 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHh
Confidence 355789999999 99999999998777665544
No 120
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=29.30 E-value=98 Score=32.84 Aligned_cols=42 Identities=21% Similarity=0.351 Sum_probs=36.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCHHHHHh-hCCCCCHHHHHHHHH
Q 019787 69 GEFTDEEDRLICSLFASIGSRWSIIAA-QLPGRTDNDIKNYWN 110 (336)
Q Consensus 69 g~WT~EED~~Ll~lv~k~G~kW~~IA~-~lpGRT~~qcknRw~ 110 (336)
..|+..|-.++-++.++||.++..|-. +||.++-..|-..|.
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYY 328 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYY 328 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHH
Confidence 369999999999999999999999976 669999998877653
No 121
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=29.16 E-value=1.1e+02 Score=26.87 Aligned_cols=30 Identities=10% Similarity=0.081 Sum_probs=23.4
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-.-.+||..| |-|...|+.|....+++.
T Consensus 151 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 180 (195)
T PRK12532 151 LGFSSDEIQQMC-GISTSNYHTIMHRARESL 180 (195)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 366789999999 899999998876654443
No 122
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=29.02 E-value=1.1e+02 Score=26.83 Aligned_cols=29 Identities=10% Similarity=0.047 Sum_probs=22.9
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
|-...+||..| |-|...|++|....+++.
T Consensus 154 g~s~~eIA~~l-gis~~tv~~~l~Rar~~L 182 (193)
T PRK11923 154 GLSYEDIASVM-QCPVGTVRSRIFRAREAI 182 (193)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 55689999999 889999999876655443
No 123
>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=28.68 E-value=1.6e+02 Score=24.78 Aligned_cols=39 Identities=15% Similarity=0.056 Sum_probs=27.5
Q ss_pred HHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 79 ICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 79 Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
++.+.--.|-.=.+||..| |-+...|+.+....+++...
T Consensus 118 i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~Lr~ 156 (162)
T TIGR02983 118 VVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALARLRE 156 (162)
T ss_pred HhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHHHHH
Confidence 3333333455678999999 89999999998776665443
No 124
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=28.51 E-value=35 Score=36.67 Aligned_cols=49 Identities=10% Similarity=0.255 Sum_probs=42.7
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHhCCCCCccccccccccccCcccccceecc
Q 019787 9 KANVKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKRCGKSCRLRWLN 60 (336)
Q Consensus 9 kp~lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gRt~kQCr~RW~n 60 (336)
.+.....+|+.+|-++...+....|. +...|+..++ .|+.+|.+..+..
T Consensus 404 sk~~~~~~w~~se~e~fyka~~~~gs--~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 404 SKKLETDKWDASETELFYKALSERGS--DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred cCccccCcccchhhHHhhhHHhhhcc--cccccccccc-cccHHHHHHHHhh
Confidence 35567889999999999999999998 8999999998 8999998887644
No 125
>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=28.21 E-value=1.3e+02 Score=26.57 Aligned_cols=30 Identities=10% Similarity=0.016 Sum_probs=23.9
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-...+||..| |-|...|+.|....+++.
T Consensus 146 ~g~s~~EIA~~l-gis~~tvk~rl~Rar~~L 175 (188)
T TIGR02943 146 LGFESDEICQEL-EISTSNCHVLLYRARLSL 175 (188)
T ss_pred hCCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 356789999999 999999999876665543
No 126
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=28.01 E-value=1.7e+02 Score=23.88 Aligned_cols=44 Identities=14% Similarity=0.181 Sum_probs=35.3
Q ss_pred CCCCCHHHHHHHHHHHHHhCCCHHHHHhhCCCC-CHHHHHHHHHHH
Q 019787 68 HGEFTDEEDRLICSLFASIGSRWSIIAAQLPGR-TDNDIKNYWNTK 112 (336)
Q Consensus 68 kg~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGR-T~~qcknRw~~l 112 (336)
+..||+|.-..+++++..-|..=+.||+.+ |- ..++++..++.+
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 567999999999999999998888999999 75 666665544333
No 127
>PF08181 DegQ: DegQ (SacQ) family; InterPro: IPR012554 This family consists of the DegQ (formerly sacQ) regulatory peptides. The DegQ family of peptides control the rates of synthesis of a class of both secreted and intracellular degradative enzymes in Bacillus subtilis. DegQ is 46 amino acids long and activates the synthesis of degradative enzymes. The expression of this peptide was shown to be subjected both to catabolite repression and DegS-DegU-mediated control. Thus allowing an increase in the rate of synthesis of degQ under conditions of nitrogen starvation [].
Probab=27.76 E-value=32 Score=24.52 Aligned_cols=12 Identities=33% Similarity=0.448 Sum_probs=9.8
Q ss_pred CCHHHHHHHHhc
Q 019787 289 YSLEDVKQLISC 300 (336)
Q Consensus 289 ~~~e~~k~l~~~ 300 (336)
|.+||+|||+=-
T Consensus 4 ~~ieelkqll~r 15 (46)
T PF08181_consen 4 KKIEELKQLLWR 15 (46)
T ss_pred hHHHHHHHHHHH
Confidence 678999999853
No 128
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=27.43 E-value=1.7e+02 Score=25.28 Aligned_cols=31 Identities=19% Similarity=0.077 Sum_probs=24.0
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
|-.-.+||..+ |-|...|+.+....+++...
T Consensus 151 ~~s~~eIA~~l-gis~~~V~~~l~ra~~~Lr~ 181 (186)
T PRK13919 151 GYTHREAAQLL-GLPLGTLKTRARRALSRLKE 181 (186)
T ss_pred CCCHHHHHHHH-CcCHHHHHHHHHHHHHHHHH
Confidence 44678999999 89999999988766655433
No 129
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=27.35 E-value=1.3e+02 Score=22.01 Aligned_cols=34 Identities=18% Similarity=0.429 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHH
Q 019787 74 EEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNY 108 (336)
Q Consensus 74 EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknR 108 (336)
++|+..+.+....|-.-.+||+.+ ||+.+.|++.
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~y 40 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRY 40 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHH
Confidence 345556677788899999999999 9999988764
No 130
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=27.13 E-value=1.4e+02 Score=26.52 Aligned_cols=30 Identities=10% Similarity=-0.053 Sum_probs=23.2
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-.+.+||..| |=+...|+++....+++.
T Consensus 151 ~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~L 180 (196)
T PRK12524 151 EGLSNPEIAEVM-EIGVEAVESLTARGKRAL 180 (196)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 356799999999 888899988876555443
No 131
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=26.79 E-value=1.4e+02 Score=20.41 Aligned_cols=34 Identities=24% Similarity=0.198 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHH
Q 019787 74 EEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNY 108 (336)
Q Consensus 74 EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknR 108 (336)
-|...|.++.+.+|.+..+.|+.| |=+...+..|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 377889999999999999999998 6565555544
No 132
>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=26.26 E-value=1.8e+02 Score=24.59 Aligned_cols=28 Identities=25% Similarity=0.262 Sum_probs=22.2
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
|-...+||+.| |-+...|+.+-...+++
T Consensus 138 g~s~~eIA~~l-~is~~tv~~~l~ra~~~ 165 (170)
T TIGR02952 138 NLPIAEVARIL-GKTEGAVKILQFRAIKK 165 (170)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 55789999999 89999999887655544
No 133
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=25.65 E-value=1.6e+02 Score=24.47 Aligned_cols=28 Identities=21% Similarity=0.233 Sum_probs=22.0
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
|-...+||..+ |-+...|+.+-...+++
T Consensus 122 ~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 122 GKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred CCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 45678999999 89999999887665544
No 134
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=25.54 E-value=1.7e+02 Score=24.71 Aligned_cols=30 Identities=20% Similarity=0.183 Sum_probs=23.3
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhhHH
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkkk~ 117 (336)
|-.=.+||..| |-+...|+.|....+++-.
T Consensus 121 ~~s~~eIA~~l-gis~~tv~~~l~ra~~~Lr 150 (159)
T PRK12527 121 GLSHQQIAEHL-GISRSLVEKHIVNAMKHCR 150 (159)
T ss_pred CCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 44568999999 8999999999776655443
No 135
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=25.07 E-value=2e+02 Score=24.56 Aligned_cols=31 Identities=19% Similarity=0.078 Sum_probs=24.2
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~ 117 (336)
.|-...+||..| |-+...|+++-....++..
T Consensus 127 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~~Lr 157 (164)
T PRK12547 127 SGFSYEDAAAIC-GCAVGTIKSRVSRARNRLQ 157 (164)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHHHHH
Confidence 356789999999 8999999998776655443
No 136
>cd00131 PAX Paired Box domain
Probab=24.63 E-value=1.3e+02 Score=25.70 Aligned_cols=83 Identities=17% Similarity=0.128 Sum_probs=51.3
Q ss_pred CCCCCCCHHHHHHHHHHHHHhCCCCCcccccccccccc-Ccccccceecc--ccCCCCCCC----CCCHHHHHHHHHHHH
Q 019787 12 VKKGPWSPEEDSKLKEYIEKYGTGGNWIALPQKAGLKR-CGKSCRLRWLN--YLRPNIKHG----EFTDEEDRLICSLFA 84 (336)
Q Consensus 12 lkKg~WT~EEDe~L~~lV~kyG~~~nW~~IA~~l~~gR-t~kQCr~RW~n--~L~P~lkkg----~WT~EED~~Ll~lv~ 84 (336)
..-.+.|.++-++++.+++ -|. .-..||+.++..+ +...+..||.. .+.|.-..| .-+++.+..|+.++.
T Consensus 13 ~m~~~lS~d~R~rIv~~~~-~G~--s~~~iA~~~~Vs~~tV~r~i~r~~e~G~v~pk~~gg~rpr~~~~~~~~~i~~~v~ 89 (128)
T cd00131 13 VNGRPLPDSIRQRIVELAQ-SGI--RPCDISRQLRVSHGCVSKILNRYYETGSIRPGAIGGSKPRVATPEVVKKIEIYKQ 89 (128)
T ss_pred cCCCcCCHHHHHHHHHHHH-cCC--CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCCCCCCCCCCcCCHHHHHHHHHHHH
Confidence 3345689999999998886 465 7899999998544 23444555543 355543322 246777777777777
Q ss_pred HhCC-CHHHHHhhC
Q 019787 85 SIGS-RWSIIAAQL 97 (336)
Q Consensus 85 k~G~-kW~~IA~~l 97 (336)
+.+. .=.+|+..|
T Consensus 90 ~~p~~Tl~El~~~L 103 (128)
T cd00131 90 ENPGMFAWEIRDRL 103 (128)
T ss_pred HCCCCCHHHHHHHH
Confidence 6654 223344443
No 137
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=24.53 E-value=80 Score=25.20 Aligned_cols=21 Identities=24% Similarity=0.480 Sum_probs=19.0
Q ss_pred HHHHHHHHHhCCCHHHHHhhC
Q 019787 77 RLICSLFASIGSRWSIIAAQL 97 (336)
Q Consensus 77 ~~Ll~lv~k~G~kW~~IA~~l 97 (336)
..|..+..+.|..|..+|+.|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 468889999999999999998
No 138
>cd08805 Death_ank1 Death domain of Ankyrin-1. Death Domain (DD) of the human protein ankyrin-1 (ANK-1) and related proteins. Ankyrins are modular proteins comprising three conserved domains, an N-terminal membrane-binding domain containing ANK repeats, a spectrin-binding domain and a C-terminal DD. ANK-1, also called ankyrin-R (for restricted), is found in brain, muscle, and erythrocytes and is thought to function in linking integral membrane proteins to the underlying cytoskeleton. It plays a critical nonredundant role in erythroid development and is associated with hereditary spherocytosis (HS), a common disorder of the red cell membrane. The small alternatively-spliced variant, sANK-1, found in striated muscle and concentrated in the sarcoplasmic reticulum (SR) binds obscurin and titin, which facilitates the anchoring of the network SR to the contractile apparatus. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common featur
Probab=24.52 E-value=97 Score=24.91 Aligned_cols=26 Identities=15% Similarity=0.318 Sum_probs=20.7
Q ss_pred HHHHHHHHHHhCCCHHHHHhhCCCCCH
Q 019787 76 DRLICSLFASIGSRWSIIAAQLPGRTD 102 (336)
Q Consensus 76 D~~Ll~lv~k~G~kW~~IA~~lpGRT~ 102 (336)
|..|..+....|..|.++|+.| |=+.
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 5567788899999999999988 4333
No 139
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=24.31 E-value=1.8e+02 Score=24.60 Aligned_cols=29 Identities=28% Similarity=0.379 Sum_probs=23.4
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
.|-...+||..+ |-+...|+.|....+++
T Consensus 128 ~g~s~~EIA~~l-~is~~tV~~~l~ra~~~ 156 (161)
T PRK12528 128 DGLGYGEIATEL-GISLATVKRYLNKAAMR 156 (161)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 466789999999 89999999987766543
No 140
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=24.29 E-value=2.2e+02 Score=27.17 Aligned_cols=32 Identities=16% Similarity=0.099 Sum_probs=24.9
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
.|-.-.+||..| |.+...|++|....+++...
T Consensus 157 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~Lr~ 188 (324)
T TIGR02960 157 LGWRAAETAELL-GTSTASVNSALQRARATLDE 188 (324)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 355689999999 99999999998766554433
No 141
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=23.99 E-value=1.7e+02 Score=25.43 Aligned_cols=30 Identities=20% Similarity=0.093 Sum_probs=24.3
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-...+||..| |.+...|+++-...+++.
T Consensus 144 ~g~s~~EIA~~l-~is~~tV~~~l~rar~~L 173 (181)
T PRK12536 144 EGLSVAETAQLT-GLSESAVKVGIHRGLKAL 173 (181)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 466789999999 999999999976655543
No 142
>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=23.70 E-value=2.2e+02 Score=24.52 Aligned_cols=28 Identities=21% Similarity=0.229 Sum_probs=23.0
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
|-...+||..| |-+...|+.|.....++
T Consensus 150 g~s~~EIA~~l-gis~~tVk~~l~Rar~~ 177 (183)
T TIGR02999 150 GLTVEEIAELL-GVSVRTVERDWRFARAW 177 (183)
T ss_pred CCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 55789999999 89999999988765544
No 143
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=23.51 E-value=1.8e+02 Score=25.14 Aligned_cols=29 Identities=17% Similarity=0.242 Sum_probs=23.3
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
|-.-.+||..| |.|...|+.+....+++.
T Consensus 145 g~s~~eIA~~l-gis~~tV~~~l~Rar~~L 173 (179)
T PRK12514 145 GLSYKELAERH-DVPLNTMRTWLRRSLLKL 173 (179)
T ss_pred CCCHHHHHHHH-CCChHHHHHHHHHHHHHH
Confidence 55778999999 999999999877655543
No 144
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=23.46 E-value=2e+02 Score=25.50 Aligned_cols=31 Identities=19% Similarity=0.127 Sum_probs=24.2
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 85 k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
-.|-...+||..| |-+...|+.|-...+++.
T Consensus 130 ~~g~s~~EIA~~L-gis~~tVk~~l~Rar~~L 160 (187)
T PRK12516 130 ASGFAYEEAAEIC-GCAVGTIKSRVNRARQRL 160 (187)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 3466799999999 899999999876555443
No 145
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=23.39 E-value=1.5e+02 Score=25.69 Aligned_cols=29 Identities=28% Similarity=0.381 Sum_probs=23.8
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
|-...+||+.| |-+...|++|....++.-
T Consensus 135 g~s~~EIA~~l-gis~~tV~~~l~Ra~~~~ 163 (172)
T PRK09651 135 GLTYSEIAHKL-GVSVSSVKKYVAKATEHC 163 (172)
T ss_pred CCCHHHHHHHh-CCCHHHHHHHHHHHHHHH
Confidence 45789999999 999999999987666543
No 146
>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=23.08 E-value=65 Score=26.89 Aligned_cols=28 Identities=18% Similarity=0.074 Sum_probs=23.1
Q ss_pred CCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 87 GSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 87 G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
|-.+.+||..| |-+...|+++.....++
T Consensus 121 g~s~~eIA~~l-gis~~tv~~~l~Ra~~~ 148 (154)
T TIGR02950 121 EFSYKEIAELL-NLSLAKVKSNLFRARKE 148 (154)
T ss_pred cCcHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 45799999999 89999999998766554
No 147
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=23.02 E-value=1.9e+02 Score=25.13 Aligned_cols=31 Identities=10% Similarity=-0.038 Sum_probs=23.2
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKL 117 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~ 117 (336)
.|-...+||..| |-+...|+.+....+++..
T Consensus 143 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~Lr 173 (186)
T PRK05602 143 QGLSNIEAAAVM-DISVDALESLLARGRRALR 173 (186)
T ss_pred cCCCHHHHHHHh-CcCHHHHHHHHHHHHHHHH
Confidence 356788999998 8899999888765554433
No 148
>PRK00118 putative DNA-binding protein; Validated
Probab=22.83 E-value=2.4e+02 Score=23.63 Aligned_cols=42 Identities=14% Similarity=0.090 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 73 DEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 73 ~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
++.++.++.+....|-...+||..+ |-|...|+.+-....++
T Consensus 19 ~ekqRevl~L~y~eg~S~~EIAe~l-GIS~~TV~r~L~RArkk 60 (104)
T PRK00118 19 TEKQRNYMELYYLDDYSLGEIAEEF-NVSRQAVYDNIKRTEKL 60 (104)
T ss_pred CHHHHHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 4556667777777788999999999 89999998876654433
No 149
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=22.82 E-value=1.8e+02 Score=25.29 Aligned_cols=30 Identities=13% Similarity=0.319 Sum_probs=23.7
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-.-.+||..| |-|...|+.|....+++.
T Consensus 137 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 166 (185)
T PRK12542 137 YNLTYQEISSVM-GITEANVRKQFERARKRV 166 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 456789999999 899999999876555443
No 150
>PRK12546 RNA polymerase sigma factor; Provisional
Probab=21.70 E-value=2.5e+02 Score=25.03 Aligned_cols=33 Identities=15% Similarity=0.064 Sum_probs=25.6
Q ss_pred HhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhHHh
Q 019787 85 SIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKKLM 118 (336)
Q Consensus 85 k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk~~ 118 (336)
-.|-...+||..| |-|...|+.+....+++...
T Consensus 127 ~~g~s~~EIA~~L-giS~~tVk~~l~Rar~~Lr~ 159 (188)
T PRK12546 127 ASGFSYEEAAEMC-GVAVGTVKSRANRARARLAE 159 (188)
T ss_pred hcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHHHH
Confidence 3466789999999 89999999987766655443
No 151
>TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found).
Probab=21.66 E-value=2.3e+02 Score=24.32 Aligned_cols=30 Identities=17% Similarity=0.428 Sum_probs=23.5
Q ss_pred hCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 86 IGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 86 ~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
.|-...+||..| |-|...|+.+....+++.
T Consensus 155 ~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~L 184 (189)
T TIGR02984 155 EGLSFAEVAERM-DRSEGAVSMLWVRGLARL 184 (189)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHHH
Confidence 456789999999 899999998877665543
No 152
>PRK10100 DNA-binding transcriptional regulator CsgD; Provisional
Probab=21.11 E-value=2.2e+02 Score=26.27 Aligned_cols=44 Identities=25% Similarity=0.234 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 70 EFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
..|+-|-+.|.-+.+ |-...+||+.| +-+...|+++...++++.
T Consensus 155 ~Lt~rE~~Vl~l~~~--G~s~~eIA~~L-~iS~~TVk~~~~~i~~Kl 198 (216)
T PRK10100 155 LLTHREKEILNKLRI--GASNNEIARSL-FISENTVKTHLYNLFKKI 198 (216)
T ss_pred CCCHHHHHHHHHHHc--CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 478766665554444 88899999999 899999999988887764
No 153
>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=20.82 E-value=2.8e+02 Score=23.47 Aligned_cols=46 Identities=22% Similarity=0.429 Sum_probs=0.0
Q ss_pred CCCHHHHHHHHHHHHHh------------CCCH-------------------HHHHhhCCCCCHHHHHHHHHHHhhh
Q 019787 70 EFTDEEDRLICSLFASI------------GSRW-------------------SIIAAQLPGRTDNDIKNYWNTKLKK 115 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~------------G~kW-------------------~~IA~~lpGRT~~qcknRw~~llkk 115 (336)
.||++||-.|+..|.++ |..= ...+...|..|...=|.||+.-+..
T Consensus 1 kfTA~dDY~Lc~~i~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~fF~~~~~~~p~HT~~sWRDR~RKfv~~ 77 (105)
T PF09197_consen 1 KFTADDDYALCKAIKKQFYRDIYQKDPDTGSSLISDGDSKEFIPKRDMRSFFKDLARKNPRHTENSWRDRYRKFVSE 77 (105)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHSB-TTSS-B----------------TTHHHHHHHHTTTS-HHHHHHHHHHTHHH
T ss_pred CCChHHHHHHHHHHHHHHHHHHHhhCcccccccccCCCccccccchhhHHHHHHHHHcCCccchhHHHHHHHHHHHH
No 154
>PRK15201 fimbriae regulatory protein FimW; Provisional
Probab=20.78 E-value=2.4e+02 Score=26.43 Aligned_cols=44 Identities=23% Similarity=0.277 Sum_probs=35.4
Q ss_pred CCCHHHHHHHHHHHHHhCCCHHHHHhhCCCCCHHHHHHHHHHHhhhH
Q 019787 70 EFTDEEDRLICSLFASIGSRWSIIAAQLPGRTDNDIKNYWNTKLKKK 116 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G~kW~~IA~~lpGRT~~qcknRw~~llkkk 116 (336)
..|+-|-+.|.-+.+ |-...+||..| +-+...|+++-..++++.
T Consensus 133 ~LSpRErEVLrLLAq--GkTnKEIAe~L-~IS~rTVkth~srImkKL 176 (198)
T PRK15201 133 HFSVTERHLLKLIAS--GYHLSETAALL-SLSEEQTKSLRRSIMRKL 176 (198)
T ss_pred CCCHHHHHHHHHHHC--CCCHHHHHHHh-CCCHHHHHHHHHHHHHHh
Confidence 478888776665554 77889999999 899999999888877764
No 155
>PRK15328 invasion protein IagB; Provisional
Probab=20.58 E-value=2.3e+02 Score=25.46 Aligned_cols=43 Identities=14% Similarity=0.365 Sum_probs=30.6
Q ss_pred HHHHHHHHhCCCHHHHHhhC--CCCCHHHHHHHHHHHhhhHHhhc
Q 019787 78 LICSLFASIGSRWSIIAAQL--PGRTDNDIKNYWNTKLKKKLMAM 120 (336)
Q Consensus 78 ~Ll~lv~k~G~kW~~IA~~l--pGRT~~qcknRw~~llkkk~~~~ 120 (336)
.|..++.+||..|..|+.+= +++.....+.+|...+.+.....
T Consensus 98 ~L~~~~~~~g~~~~alaaYNaG~~~~~~~~~~~Y~~kV~~~y~~l 142 (160)
T PRK15328 98 ILSDMMKIYGYSWEAVGAYNAGTSPKRSDIRKRYAKKIWENYRKL 142 (160)
T ss_pred HHHHHHHHcCChHHhhhhccCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 56788899999999999866 34554556777776666655543
No 156
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=20.14 E-value=1.8e+02 Score=33.66 Aligned_cols=41 Identities=15% Similarity=0.337 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHHHHHhCC-CHHHHHhhCCCCCHHHHHHHHH
Q 019787 70 EFTDEEDRLICSLFASIGS-RWSIIAAQLPGRTDNDIKNYWN 110 (336)
Q Consensus 70 ~WT~EED~~Ll~lv~k~G~-kW~~IA~~lpGRT~~qcknRw~ 110 (336)
.||.-+=..++.+..+||. +-..||..|.|+|...|+.+.+
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y~~ 867 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERYAK 867 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHHHH
Confidence 4888888888888899996 6899999999999999986543
Done!