Query 042846
Match_columns 243
No_of_seqs 236 out of 1288
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 10:09:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042846.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042846hhsearch_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 2.2E-38 4.7E-43 279.1 11.4 121 3-123 14-134 (249)
2 PLN03091 hypothetical protein; 100.0 2.6E-38 5.6E-43 296.6 11.1 118 1-118 1-118 (459)
3 KOG0048 Transcription factor, 100.0 3E-37 6.4E-42 273.4 10.0 111 10-120 5-115 (238)
4 KOG0049 Transcription factor, 99.8 7.3E-20 1.6E-24 178.0 5.8 107 1-108 347-454 (939)
5 KOG0049 Transcription factor, 99.8 4E-19 8.6E-24 172.9 8.2 121 6-126 245-420 (939)
6 PF13921 Myb_DNA-bind_6: Myb-l 99.7 2.8E-17 6.1E-22 115.7 5.2 60 17-78 1-60 (60)
7 COG5147 REB1 Myb superfamily p 99.6 7.1E-16 1.5E-20 149.1 5.4 106 11-117 17-122 (512)
8 KOG0050 mRNA splicing protein 99.5 1.8E-15 4E-20 144.5 3.2 105 12-118 5-109 (617)
9 KOG0051 RNA polymerase I termi 99.5 2.6E-14 5.6E-19 139.8 6.5 110 3-117 375-512 (607)
10 PF00249 Myb_DNA-binding: Myb- 99.5 1.7E-14 3.6E-19 97.7 2.3 48 14-61 1-48 (48)
11 PF00249 Myb_DNA-binding: Myb- 99.4 1.7E-13 3.6E-18 92.8 4.7 46 67-112 1-48 (48)
12 PF13921 Myb_DNA-bind_6: Myb-l 99.4 2.7E-13 5.9E-18 95.3 5.7 55 70-124 1-55 (60)
13 PLN03212 Transcription repress 99.4 3.6E-13 7.9E-18 119.5 5.3 66 62-127 20-87 (249)
14 KOG0048 Transcription factor, 99.3 2.1E-12 4.6E-17 114.6 4.5 65 63-127 5-71 (238)
15 smart00717 SANT SANT SWI3, AD 99.3 7.5E-12 1.6E-16 82.3 5.7 47 67-113 1-48 (49)
16 PLN03091 hypothetical protein; 99.3 3.7E-12 8E-17 120.7 4.6 65 62-126 9-75 (459)
17 smart00717 SANT SANT SWI3, AD 99.2 2.9E-11 6.4E-16 79.5 3.7 48 14-62 1-48 (49)
18 cd00167 SANT 'SWI3, ADA2, N-Co 99.2 6.9E-11 1.5E-15 76.6 5.4 44 69-112 1-45 (45)
19 KOG0051 RNA polymerase I termi 99.1 1.1E-10 2.4E-15 114.6 5.5 110 13-126 307-444 (607)
20 cd00167 SANT 'SWI3, ADA2, N-Co 99.0 2.3E-10 5E-15 74.1 3.4 45 16-61 1-45 (45)
21 COG5147 REB1 Myb superfamily p 98.7 1.3E-08 2.8E-13 99.1 4.6 117 7-126 65-351 (512)
22 TIGR01557 myb_SHAQKYF myb-like 98.1 4.2E-06 9.1E-11 59.0 3.8 49 13-61 2-54 (57)
23 KOG0457 Histone acetyltransfer 97.9 7.7E-06 1.7E-10 77.9 2.9 49 12-61 70-118 (438)
24 KOG0050 mRNA splicing protein 97.8 9.4E-06 2E-10 78.7 2.0 62 65-126 5-67 (617)
25 TIGR01557 myb_SHAQKYF myb-like 97.7 0.00014 3E-09 51.3 5.7 47 67-113 3-55 (57)
26 KOG0457 Histone acetyltransfer 97.6 0.0001 2.2E-09 70.4 5.2 50 64-113 69-119 (438)
27 PF13325 MCRS_N: N-terminal re 97.4 0.00055 1.2E-08 59.7 6.8 100 16-117 1-131 (199)
28 COG5259 RSC8 RSC chromatin rem 97.3 0.00014 3E-09 70.1 2.7 46 13-60 278-323 (531)
29 KOG1279 Chromatin remodeling f 97.2 0.0003 6.4E-09 69.0 3.4 48 11-60 250-297 (506)
30 PF13837 Myb_DNA-bind_4: Myb/S 97.1 0.00033 7.2E-09 52.2 2.4 52 67-118 1-70 (90)
31 PF08914 Myb_DNA-bind_2: Rap1 96.9 0.0012 2.6E-08 47.8 4.1 51 67-117 2-62 (65)
32 COG5259 RSC8 RSC chromatin rem 96.9 0.00092 2E-08 64.5 4.3 44 67-110 279-322 (531)
33 KOG1279 Chromatin remodeling f 96.8 0.0019 4E-08 63.5 5.1 46 65-110 251-296 (506)
34 PF08914 Myb_DNA-bind_2: Rap1 96.8 0.00066 1.4E-08 49.1 1.5 52 14-65 2-61 (65)
35 TIGR02894 DNA_bind_RsfA transc 96.7 0.0013 2.7E-08 55.5 3.2 51 66-117 3-60 (161)
36 PF13837 Myb_DNA-bind_4: Myb/S 96.5 0.0011 2.4E-08 49.3 1.4 48 14-61 1-64 (90)
37 TIGR02894 DNA_bind_RsfA transc 96.5 0.00087 1.9E-08 56.5 0.6 50 12-63 2-57 (161)
38 COG5114 Histone acetyltransfer 96.2 0.0022 4.8E-08 59.5 1.4 49 13-62 62-110 (432)
39 PRK13923 putative spore coat p 95.8 0.0065 1.4E-07 51.8 2.8 49 66-115 4-59 (170)
40 PF13873 Myb_DNA-bind_5: Myb/S 95.8 0.0091 2E-07 43.6 3.1 49 67-115 2-72 (78)
41 PRK13923 putative spore coat p 95.7 0.0039 8.5E-08 53.1 0.9 50 11-62 2-57 (170)
42 COG5114 Histone acetyltransfer 95.6 0.012 2.7E-07 54.7 3.7 48 66-113 62-110 (432)
43 PF13873 Myb_DNA-bind_5: Myb/S 95.5 0.013 2.8E-07 42.8 2.9 49 13-61 1-69 (78)
44 PLN03142 Probable chromatin-re 95.2 0.068 1.5E-06 56.9 8.2 99 16-115 826-987 (1033)
45 PF09111 SLIDE: SLIDE; InterP 93.3 0.12 2.7E-06 41.5 4.1 51 64-114 46-112 (118)
46 KOG2656 DNA methyltransferase 92.6 0.12 2.5E-06 49.4 3.5 55 67-121 130-190 (445)
47 KOG4282 Transcription factor G 92.3 0.12 2.5E-06 48.2 3.2 51 67-117 54-118 (345)
48 PF12776 Myb_DNA-bind_3: Myb/S 92.0 0.28 6E-06 36.7 4.4 45 69-113 1-63 (96)
49 COG5118 BDP1 Transcription ini 88.8 0.66 1.4E-05 44.4 4.7 46 68-113 366-411 (507)
50 PF09111 SLIDE: SLIDE; InterP 87.4 0.32 7E-06 39.1 1.6 49 11-59 46-108 (118)
51 PF08281 Sigma70_r4_2: Sigma-7 87.3 1.1 2.4E-05 30.0 4.0 41 72-113 12-52 (54)
52 KOG4282 Transcription factor G 85.3 0.69 1.5E-05 43.0 2.8 47 15-61 55-113 (345)
53 COG5118 BDP1 Transcription ini 82.3 1.3 2.9E-05 42.4 3.3 62 14-77 365-434 (507)
54 KOG1194 Predicted DNA-binding 81.7 2.4 5.2E-05 41.5 4.9 49 67-115 187-235 (534)
55 PF12776 Myb_DNA-bind_3: Myb/S 76.8 2.6 5.5E-05 31.4 2.8 44 16-59 1-60 (96)
56 PF13404 HTH_AsnC-type: AsnC-t 74.5 2.1 4.5E-05 28.0 1.6 38 20-59 3-40 (42)
57 PF11626 Rap1_C: TRF2-interact 71.6 4 8.7E-05 30.7 2.7 15 11-25 44-58 (87)
58 KOG4167 Predicted DNA-binding 71.1 9.5 0.00021 39.6 5.9 44 14-59 619-662 (907)
59 PF13404 HTH_AsnC-type: AsnC-t 70.1 8.2 0.00018 25.2 3.6 38 73-111 3-41 (42)
60 PF04545 Sigma70_r4: Sigma-70, 69.8 7.9 0.00017 25.5 3.6 41 73-114 7-47 (50)
61 PF11035 SnAPC_2_like: Small n 67.1 25 0.00054 33.1 7.4 86 14-113 21-127 (344)
62 smart00595 MADF subfamily of S 66.2 4.7 0.0001 29.6 2.1 24 89-113 30-53 (89)
63 PRK11179 DNA-binding transcrip 65.7 4 8.7E-05 33.5 1.8 46 19-66 8-53 (153)
64 PRK11169 leucine-responsive tr 62.7 3.6 7.8E-05 34.2 1.0 46 19-66 13-58 (164)
65 PF07750 GcrA: GcrA cell cycle 62.7 8 0.00017 32.6 3.1 41 69-110 2-42 (162)
66 PRK11179 DNA-binding transcrip 62.2 14 0.00031 30.2 4.5 45 73-118 9-54 (153)
67 PF11626 Rap1_C: TRF2-interact 61.6 8.1 0.00017 29.0 2.7 17 63-79 43-59 (87)
68 TIGR02985 Sig70_bacteroi1 RNA 61.5 14 0.0003 29.1 4.2 37 77-114 120-156 (161)
69 KOG4167 Predicted DNA-binding 60.8 13 0.00028 38.6 4.6 44 68-111 620-663 (907)
70 PF13325 MCRS_N: N-terminal re 56.0 17 0.00036 31.9 4.0 44 69-113 1-47 (199)
71 KOG4468 Polycomb-group transcr 54.6 16 0.00034 37.3 4.0 51 67-117 88-148 (782)
72 PRK11169 leucine-responsive tr 53.5 19 0.00042 29.8 3.9 46 72-118 13-59 (164)
73 cd08803 Death_ank3 Death domai 52.6 19 0.00042 27.0 3.4 31 75-106 4-34 (84)
74 PF01388 ARID: ARID/BRIGHT DNA 52.6 26 0.00057 25.9 4.2 37 77-113 40-89 (92)
75 KOG4329 DNA-binding protein [G 52.4 77 0.0017 30.6 8.0 44 68-111 278-322 (445)
76 PF11035 SnAPC_2_like: Small n 52.2 38 0.00083 31.9 5.9 43 67-109 21-67 (344)
77 cd08319 Death_RAIDD Death doma 51.5 18 0.0004 27.2 3.1 30 75-105 2-31 (83)
78 PF01388 ARID: ARID/BRIGHT DNA 50.5 11 0.00023 28.1 1.7 40 23-62 39-89 (92)
79 KOG0384 Chromodomain-helicase 48.8 15 0.00032 40.3 3.0 72 14-94 1133-1207(1373)
80 KOG2009 Transcription initiati 48.0 25 0.00053 35.6 4.2 46 66-111 408-453 (584)
81 PF09420 Nop16: Ribosome bioge 47.3 47 0.001 27.7 5.3 47 66-112 113-163 (164)
82 cd08317 Death_ank Death domain 47.2 19 0.0004 26.7 2.6 30 75-105 4-33 (84)
83 TIGR02937 sigma70-ECF RNA poly 47.0 29 0.00063 26.4 3.8 35 79-114 119-153 (158)
84 smart00501 BRIGHT BRIGHT, ARID 45.9 34 0.00073 25.6 3.9 38 77-114 36-86 (93)
85 PF10545 MADF_DNA_bdg: Alcohol 44.8 16 0.00034 25.9 1.8 25 89-113 29-54 (85)
86 PLN03142 Probable chromatin-re 43.7 17 0.00038 39.2 2.6 47 13-59 925-982 (1033)
87 PRK09652 RNA polymerase sigma 42.8 37 0.0008 27.3 3.9 33 81-114 139-171 (182)
88 KOG2009 Transcription initiati 42.0 28 0.00062 35.2 3.6 48 10-59 405-452 (584)
89 cd08318 Death_NMPP84 Death dom 41.7 31 0.00066 25.8 3.0 27 78-105 10-36 (86)
90 PRK11924 RNA polymerase sigma 40.6 40 0.00087 27.0 3.8 29 84-113 139-167 (179)
91 KOG2656 DNA methyltransferase 40.2 24 0.00052 34.1 2.7 50 11-61 127-181 (445)
92 PRK09413 IS2 repressor TnpA; R 40.0 76 0.0016 24.9 5.2 45 13-61 9-53 (121)
93 KOG4468 Polycomb-group transcr 39.4 18 0.00038 36.9 1.8 47 14-62 88-144 (782)
94 cd08804 Death_ank2 Death domai 39.2 34 0.00075 25.5 2.9 31 75-106 4-34 (84)
95 PRK09643 RNA polymerase sigma 38.4 48 0.001 27.8 4.1 31 82-113 146-176 (192)
96 smart00344 HTH_ASNC helix_turn 36.9 72 0.0016 23.9 4.5 45 73-118 3-48 (108)
97 cd08311 Death_p75NR Death doma 36.8 34 0.00073 25.3 2.5 33 72-106 2-34 (77)
98 PRK04217 hypothetical protein; 36.7 58 0.0013 25.8 4.0 45 68-114 41-85 (110)
99 cd06171 Sigma70_r4 Sigma70, re 36.5 73 0.0016 19.7 3.9 37 74-111 14-50 (55)
100 PRK09641 RNA polymerase sigma 36.0 53 0.0011 26.8 3.9 28 85-113 151-178 (187)
101 PF04504 DUF573: Protein of un 35.9 68 0.0015 24.7 4.2 70 14-84 4-94 (98)
102 smart00005 DEATH DEATH domain, 35.7 41 0.00089 24.4 2.9 30 75-105 5-35 (88)
103 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 35.7 56 0.0012 22.4 3.3 35 73-108 7-41 (50)
104 cd08777 Death_RIP1 Death Domai 35.3 39 0.00084 25.4 2.7 30 76-106 3-32 (86)
105 PF04504 DUF573: Protein of un 35.1 48 0.001 25.5 3.2 47 68-114 5-64 (98)
106 PF07638 Sigma70_ECF: ECF sigm 35.0 60 0.0013 27.2 4.2 35 77-112 142-176 (185)
107 smart00344 HTH_ASNC helix_turn 34.8 30 0.00066 26.0 2.1 44 20-65 3-46 (108)
108 PRK09047 RNA polymerase factor 34.7 66 0.0014 25.5 4.2 31 83-114 119-149 (161)
109 cd08805 Death_ank1 Death domai 34.2 44 0.00095 25.2 2.8 26 75-101 4-29 (84)
110 TIGR02954 Sig70_famx3 RNA poly 33.7 61 0.0013 26.2 3.9 30 84-114 133-162 (169)
111 PF13936 HTH_38: Helix-turn-he 33.4 40 0.00086 21.9 2.2 36 69-106 4-39 (44)
112 TIGR02939 RpoE_Sigma70 RNA pol 33.1 49 0.0011 27.1 3.3 29 85-114 153-181 (190)
113 TIGR02948 SigW_bacill RNA poly 33.0 57 0.0012 26.6 3.6 28 85-113 151-178 (187)
114 PRK12512 RNA polymerase sigma 32.1 72 0.0016 26.1 4.1 30 84-114 145-174 (184)
115 PRK09637 RNA polymerase sigma 31.9 69 0.0015 26.6 4.0 33 81-114 117-149 (181)
116 COG1522 Lrp Transcriptional re 31.8 28 0.00061 27.8 1.5 44 20-65 8-51 (154)
117 PRK12523 RNA polymerase sigma 31.6 76 0.0017 25.8 4.2 35 79-114 128-162 (172)
118 PRK09642 RNA polymerase sigma 31.4 78 0.0017 25.2 4.1 29 84-113 120-148 (160)
119 cd08779 Death_PIDD Death Domai 31.1 45 0.00098 25.0 2.4 21 76-96 3-23 (86)
120 PRK12529 RNA polymerase sigma 31.0 79 0.0017 26.0 4.2 35 80-115 137-171 (178)
121 PRK12530 RNA polymerase sigma 30.3 79 0.0017 26.4 4.1 29 84-113 148-176 (189)
122 PRK12515 RNA polymerase sigma 30.0 83 0.0018 26.0 4.2 29 84-113 145-173 (189)
123 PRK09645 RNA polymerase sigma 29.8 84 0.0018 25.4 4.1 29 84-113 132-160 (173)
124 PRK11923 algU RNA polymerase s 29.6 73 0.0016 26.3 3.8 28 85-113 153-180 (193)
125 COG2197 CitB Response regulato 29.6 55 0.0012 28.2 3.1 48 68-118 147-194 (211)
126 COG2963 Transposase and inacti 29.5 1.3E+02 0.0028 23.1 4.9 46 67-113 5-51 (116)
127 KOG1194 Predicted DNA-binding 29.3 45 0.00097 33.0 2.6 45 13-59 186-230 (534)
128 TIGR02943 Sig70_famx1 RNA poly 29.2 88 0.0019 26.1 4.2 34 80-114 141-174 (188)
129 PF09420 Nop16: Ribosome bioge 28.7 70 0.0015 26.7 3.5 48 12-60 112-162 (164)
130 PRK09648 RNA polymerase sigma 28.4 91 0.002 25.7 4.1 30 84-114 153-182 (189)
131 PRK12531 RNA polymerase sigma 27.9 94 0.002 25.9 4.2 30 84-114 155-184 (194)
132 smart00351 PAX Paired Box doma 27.4 2.1E+02 0.0045 22.6 5.9 72 13-86 14-92 (125)
133 PF00046 Homeobox: Homeobox do 26.8 1.2E+02 0.0027 19.9 3.9 45 66-111 3-51 (57)
134 COG1522 Lrp Transcriptional re 26.7 1.1E+02 0.0024 24.2 4.3 45 73-118 8-53 (154)
135 cd08306 Death_FADD Fas-associa 26.7 79 0.0017 23.6 3.1 29 77-106 4-32 (86)
136 PF02954 HTH_8: Bacterial regu 26.7 1.2E+02 0.0025 19.4 3.5 33 74-107 6-38 (42)
137 PF10440 WIYLD: Ubiquitin-bind 26.4 51 0.0011 23.9 1.9 18 77-94 31-48 (65)
138 PRK12514 RNA polymerase sigma 26.0 1E+02 0.0022 25.1 4.0 29 85-114 144-172 (179)
139 TIGR02999 Sig-70_X6 RNA polyme 25.7 1.1E+02 0.0024 24.8 4.2 29 84-113 148-176 (183)
140 PRK09651 RNA polymerase sigma 25.5 90 0.002 25.5 3.6 28 85-113 134-161 (172)
141 PRK12536 RNA polymerase sigma 25.4 1.1E+02 0.0024 25.1 4.1 31 83-114 142-172 (181)
142 PRK12524 RNA polymerase sigma 25.3 1.1E+02 0.0023 25.6 4.1 30 84-114 150-179 (196)
143 PRK06759 RNA polymerase factor 25.1 1.2E+02 0.0026 23.9 4.1 29 85-114 121-149 (154)
144 TIGR02952 Sig70_famx2 RNA poly 24.5 1.2E+02 0.0026 24.2 4.0 29 85-114 137-165 (170)
145 PRK09649 RNA polymerase sigma 24.3 1.1E+02 0.0024 25.4 3.9 30 85-115 145-174 (185)
146 cd01670 Death Death Domain: a 24.0 72 0.0016 22.4 2.4 26 78-104 2-27 (79)
147 PRK12532 RNA polymerase sigma 23.8 1.1E+02 0.0024 25.3 3.9 29 84-113 150-178 (195)
148 PRK12528 RNA polymerase sigma 23.7 1.3E+02 0.0029 23.9 4.2 32 81-113 124-155 (161)
149 PRK05602 RNA polymerase sigma 23.3 1.1E+02 0.0025 25.0 3.8 29 84-113 142-170 (186)
150 TIGR02950 SigM_subfam RNA poly 23.2 43 0.00093 26.4 1.1 28 86-114 121-148 (154)
151 PRK12527 RNA polymerase sigma 23.2 1.4E+02 0.003 23.7 4.2 28 85-113 120-147 (159)
152 PRK12547 RNA polymerase sigma 22.9 1.4E+02 0.003 24.1 4.2 30 83-113 125-154 (164)
153 TIGR02983 SigE-fam_strep RNA p 22.5 1.3E+02 0.0028 23.9 3.9 38 76-114 116-153 (162)
154 PRK13919 putative RNA polymera 22.5 1.3E+02 0.0029 24.5 4.1 29 85-114 150-178 (186)
155 TIGR02984 Sig-70_plancto1 RNA 22.3 1.3E+02 0.0029 24.3 4.0 30 84-114 154-183 (189)
156 PRK12516 RNA polymerase sigma 21.7 1.4E+02 0.003 24.9 4.1 34 79-113 125-158 (187)
157 PRK12542 RNA polymerase sigma 21.6 1.4E+02 0.0031 24.4 4.1 29 84-113 136-164 (185)
158 PRK12545 RNA polymerase sigma 21.6 1.4E+02 0.003 25.1 4.1 28 85-113 154-181 (201)
159 PRK12520 RNA polymerase sigma 20.8 1.5E+02 0.0033 24.4 4.1 28 85-113 146-173 (191)
160 TIGR02960 SigX5 RNA polymerase 20.7 1.3E+02 0.0027 27.2 3.8 29 85-114 157-185 (324)
161 PRK12537 RNA polymerase sigma 20.4 1.5E+02 0.0033 24.3 4.0 29 85-114 148-176 (182)
No 1
>PLN03212 Transcription repressor MYB5; Provisional
Probab=100.00 E-value=2.2e-38 Score=279.09 Aligned_cols=121 Identities=56% Similarity=1.048 Sum_probs=115.1
Q ss_pred CCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCCCCCCCChHHHHHHHHHH
Q 042846 3 RAPTYDENGMKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIRLR 82 (243)
Q Consensus 3 r~p~~~k~~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~r~~WT~EED~~Ll~lv 82 (243)
|+|||.|++++||+||+|||++|+++|++||..+|..||+.++++|+++|||+||.++|+|.+++++||.|||++|++++
T Consensus 14 ~~pcc~K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~lLlel~ 93 (249)
T PLN03212 14 TTPCCTKMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEEDLILRLH 93 (249)
T ss_pred CCCCcccCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHHHHHHHH
Confidence 68999999999999999999999999999999899999999876899999999999999999999999999999999999
Q ss_pred HHhCCchHHhhccCCCCCHHHHHHHHHHhhccccCCCCCCC
Q 042846 83 QQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKRKNKDPASS 123 (243)
Q Consensus 83 ~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~k~~~s~ 123 (243)
..||++|+.||++|||||+++|||||+.++++++.+.....
T Consensus 94 ~~~GnKWs~IAk~LpGRTDnqIKNRWns~LrK~l~r~~i~p 134 (249)
T PLN03212 94 RLLGNRWSLIAGRIPGRTDNEIKNYWNTHLRKKLLRQGIDP 134 (249)
T ss_pred HhccccHHHHHhhcCCCCHHHHHHHHHHHHhHHHHhcCCCC
Confidence 99999999999999999999999999999999877655443
No 2
>PLN03091 hypothetical protein; Provisional
Probab=100.00 E-value=2.6e-38 Score=296.59 Aligned_cols=118 Identities=57% Similarity=1.033 Sum_probs=114.9
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCCCCCCCChHHHHHHHH
Q 042846 1 MVRAPTYDENGMKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIR 80 (243)
Q Consensus 1 m~r~p~~~k~~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~r~~WT~EED~~Ll~ 80 (243)
|||+|||.|.+++||+||+|||++|+++|.+||..+|..||+.++++|+++|||+||.++|+|.+++++||.|||++|++
T Consensus 1 mgr~~Cc~KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED~lLLe 80 (459)
T PLN03091 1 MGRHSCCYKQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEENLIIE 80 (459)
T ss_pred CCCCccCcCCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999998778999999999999999999999999999999999
Q ss_pred HHHHhCCchHHhhccCCCCCHHHHHHHHHHhhccccCC
Q 042846 81 LRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKRKNK 118 (243)
Q Consensus 81 lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~k 118 (243)
+|.+||++|++||++|+|||+++|||||+.+|+++++.
T Consensus 81 L~k~~GnKWskIAk~LPGRTDnqIKNRWnslLKKklr~ 118 (459)
T PLN03091 81 LHAVLGNRWSQIAAQLPGRTDNEIKNLWNSCLKKKLRQ 118 (459)
T ss_pred HHHHhCcchHHHHHhcCCCCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999987664
No 3
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=100.00 E-value=3e-37 Score=273.40 Aligned_cols=111 Identities=59% Similarity=1.015 Sum_probs=106.7
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCCCCCCCChHHHHHHHHHHHHhCCch
Q 042846 10 NGMKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIRLRQQHGNKW 89 (243)
Q Consensus 10 ~~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~r~~WT~EED~~Ll~lv~~~G~~W 89 (243)
+.+.||+||+|||++|+++|.+||..+|..||+.+|++|++|+||+||.|||+|++++|.||+|||.+|+++|..+|++|
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~~Ii~lH~~~GNrW 84 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEEDLIIKLHALLGNRW 84 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHHHHHHHHHHHCcHH
Confidence 33558999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhccCCCCCHHHHHHHHHHhhccccCCCC
Q 042846 90 SLIAAKLPGRTDNEIKNYWHTHLKKRKNKDP 120 (243)
Q Consensus 90 s~Ia~~lpgRT~~q~knrw~~~lkk~~~k~~ 120 (243)
+.||++|||||+|+|||+|++.|++|+.+..
T Consensus 85 s~IA~~LPGRTDNeIKN~Wnt~lkkkl~~~~ 115 (238)
T KOG0048|consen 85 SLIAGRLPGRTDNEVKNHWNTHLKKKLLKMG 115 (238)
T ss_pred HHHHhhCCCcCHHHHHHHHHHHHHHHHHHcC
Confidence 9999999999999999999999999987765
No 4
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.79 E-value=7.3e-20 Score=177.96 Aligned_cols=107 Identities=23% Similarity=0.465 Sum_probs=100.6
Q ss_pred CCCCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCCCCCCCChHHHHHHHH
Q 042846 1 MVRAPTYDENGMKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIR 80 (243)
Q Consensus 1 m~r~p~~~k~~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~r~~WT~EED~~Ll~ 80 (243)
++|....++|++++|+||++||.+|+.+|.+||..+|-+|-+.++ +|+..|||+||+|.|+...+.+.||-.||+.|+.
T Consensus 347 I~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vP-nRSdsQcR~RY~nvL~~s~K~~rW~l~edeqL~~ 425 (939)
T KOG0049|consen 347 ITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVP-NRSDSQCRERYTNVLNRSAKVERWTLVEDEQLLY 425 (939)
T ss_pred hhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcC-CccHHHHHHHHHHHHHHhhccCceeecchHHHHH
Confidence 478889999999999999999999999999999999999999998 9999999999999999999999999999999999
Q ss_pred HHHHhC-CchHHhhccCCCCCHHHHHHHH
Q 042846 81 LRQQHG-NKWSLIAAKLPGRTDNEIKNYW 108 (243)
Q Consensus 81 lv~~~G-~~Ws~Ia~~lpgRT~~q~knrw 108 (243)
+|++|| ++|.+||..||+||..|...|=
T Consensus 426 ~V~~YG~g~WakcA~~Lp~~t~~q~~rrR 454 (939)
T KOG0049|consen 426 AVKVYGKGNWAKCAMLLPKKTSRQLRRRR 454 (939)
T ss_pred HHHHHccchHHHHHHHccccchhHHHHHH
Confidence 999999 7899999999999996554443
No 5
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.77 E-value=4e-19 Score=172.89 Aligned_cols=121 Identities=22% Similarity=0.404 Sum_probs=108.5
Q ss_pred CCCCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhh------------------------------
Q 042846 6 TYDENGMKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRL------------------------------ 55 (243)
Q Consensus 6 ~~~k~~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~------------------------------ 55 (243)
.+++|.++|--|++|||++|..+...+|..+|.+||..+|.+|+..||..
T Consensus 245 n~l~P~~nk~~WS~EE~E~L~AiA~A~~~~~W~~IA~~Lgt~RS~yQC~~kF~t~~~~L~ekeWsEEed~kL~alV~~~~ 324 (939)
T KOG0049|consen 245 NELNPKWNKEHWSNEEVEKLKALAEAPKFVSWPMIALNLGTNRSSYQCMEKFKTEVSQLSEKEWSEEEDTKLIALVKITS 324 (939)
T ss_pred hhcCCccchhccChHHHHHHHHHHhccccccHHHHHHHhCCCcchHHHHHHHHHHHHHHHhhhcchhhhHHHHHHHHHhh
Confidence 35678888888999999998888888888888888888886688888876
Q ss_pred ------------------------hhhcccCCCCCCCCCChHHHHHHHHHHHHhCCc-hHHhhccCCCCCHHHHHHHHHH
Q 042846 56 ------------------------RWMNYLRPDIKHGNYTKEEEDTIIRLRQQHGNK-WSLIAAKLPGRTDNEIKNYWHT 110 (243)
Q Consensus 56 ------------------------Rw~n~L~p~i~r~~WT~EED~~Ll~lv~~~G~~-Ws~Ia~~lpgRT~~q~knrw~~ 110 (243)
||...|+|.+++|+||.+||.+|+.+|.+||.+ |.+|-..+|||++.|||.||.+
T Consensus 325 ~nShI~w~kVV~Ympgr~~~qLI~R~~~~LdPsikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~n 404 (939)
T KOG0049|consen 325 INSHIQWDKVVQYMPGRTRQQLITRFSHTLDPSVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTN 404 (939)
T ss_pred ccCccchHHHHHhcCCcchhhhhhhheeccCccccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHH
Confidence 888889999999999999999999999999965 9999999999999999999999
Q ss_pred hhccccCCCCCCCCCc
Q 042846 111 HLKKRKNKDPASSSST 126 (243)
Q Consensus 111 ~lkk~~~k~~~s~~~~ 126 (243)
.|..+.+++.|+-.+.
T Consensus 405 vL~~s~K~~rW~l~ed 420 (939)
T KOG0049|consen 405 VLNRSAKVERWTLVED 420 (939)
T ss_pred HHHHhhccCceeecch
Confidence 9999999999986554
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=99.69 E-value=2.8e-17 Score=115.68 Aligned_cols=60 Identities=45% Similarity=0.935 Sum_probs=55.3
Q ss_pred CCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCCCCCCCChHHHHHH
Q 042846 17 WSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKEEEDTI 78 (243)
Q Consensus 17 WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~r~~WT~EED~~L 78 (243)
||+|||++|+.+|..||. +|..||+.|| .|++.||+.||.++|+|.+++++||.+||+.|
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 9999999998 89999999999999999999999999999987
No 7
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=99.60 E-value=7.1e-16 Score=149.11 Aligned_cols=106 Identities=31% Similarity=0.581 Sum_probs=101.4
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCCCCCCCChHHHHHHHHHHHHhCCchH
Q 042846 11 GMKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIRLRQQHGNKWS 90 (243)
Q Consensus 11 ~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~r~~WT~EED~~Ll~lv~~~G~~Ws 90 (243)
.++.|.|+..||+.|..+|+.+|..+|..||..+. .|+++||+.||+++++|.++++.|+.|||+.|+.+..++|.+|+
T Consensus 17 ~~k~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~-~~~~kq~~~rw~~~lnp~lk~~~~~~eed~~li~l~~~~~~~ws 95 (512)
T COG5147 17 KRKGGSWKRTEDEDLKALVKKLGPNNWSKVASLLI-SSTGKQSSNRWNNHLNPQLKKKNWSEEEDEQLIDLDKELGTQWS 95 (512)
T ss_pred eecCCCCCCcchhHHHHHHhhcccccHHHHHHHhc-ccccccccchhhhhhchhcccccccHHHHHHHHHHHHhcCchhh
Confidence 45779999999999999999999999999999998 69999999999999999999999999999999999999999999
Q ss_pred HhhccCCCCCHHHHHHHHHHhhccccC
Q 042846 91 LIAAKLPGRTDNEIKNYWHTHLKKRKN 117 (243)
Q Consensus 91 ~Ia~~lpgRT~~q~knrw~~~lkk~~~ 117 (243)
.||..++|||..+|.+||...+.....
T Consensus 96 tia~~~d~rt~~~~~ery~~~~~~~~s 122 (512)
T COG5147 96 TIADYKDRRTAQQCVERYVNTLEDLSS 122 (512)
T ss_pred hhccccCccchHHHHHHHHHHhhhhhc
Confidence 999999999999999999998887666
No 8
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=99.55 E-value=1.8e-15 Score=144.53 Aligned_cols=105 Identities=27% Similarity=0.657 Sum_probs=99.7
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCCCCCCCChHHHHHHHHHHHHhCCchHH
Q 042846 12 MKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIRLRQQHGNKWSL 91 (243)
Q Consensus 12 lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~r~~WT~EED~~Ll~lv~~~G~~Ws~ 91 (243)
++.|-|+.-||+.|..+|.+||...|.+|++.+. -.+++||+.||..+|+|.|++..|+.|||+.|+.+...+...|..
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~-~kt~rqC~~rw~e~ldp~i~~tews~eederlLhlakl~p~qwrt 83 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLN-RKTARQCKARWEEWLDPAIKKTEWSREEDERLLHLAKLEPTQWRT 83 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHh-hcchhHHHHHHHHHhCHHHhhhhhhhhHHHHHHHHHHhcCCccch
Confidence 5679999999999999999999999999999998 899999999999999999999999999999999999999999999
Q ss_pred hhccCCCCCHHHHHHHHHHhhccccCC
Q 042846 92 IAAKLPGRTDNEIKNYWHTHLKKRKNK 118 (243)
Q Consensus 92 Ia~~lpgRT~~q~knrw~~~lkk~~~k 118 (243)
|+..+ ||+++||-.||+.++......
T Consensus 84 Ia~i~-gr~~~qc~eRy~~ll~~~~s~ 109 (617)
T KOG0050|consen 84 IADIM-GRTSQQCLERYNNLLDVYVSY 109 (617)
T ss_pred HHHHh-hhhHHHHHHHHHHHHHHHHhh
Confidence 99999 999999999999998765443
No 9
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.49 E-value=2.6e-14 Score=139.82 Aligned_cols=110 Identities=29% Similarity=0.585 Sum_probs=97.6
Q ss_pred CCCCCCCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCC--CCCCCChHHHHHHHH
Q 042846 3 RAPTYDENGMKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDI--KHGNYTKEEEDTIIR 80 (243)
Q Consensus 3 r~p~~~k~~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i--~r~~WT~EED~~Ll~ 80 (243)
|++....+ .+|.||+||++.|..+|.++|. .|..|++.|| |.+..||+||.+|....- +++.||.||++.|++
T Consensus 375 R~y~~FE~--~rg~wt~ee~eeL~~l~~~~g~-~W~~Ig~~lg--r~P~~crd~wr~~~~~g~~~~r~~Ws~eEe~~Llk 449 (607)
T KOG0051|consen 375 RAYTPFEN--KRGKWTPEEEEELKKLVVEHGN-DWKEIGKALG--RMPMDCRDRWRQYVKCGSKRNRGAWSIEEEEKLLK 449 (607)
T ss_pred hcCCcccc--ccCCCCcchHHHHHHHHHHhcc-cHHHHHHHHc--cCcHHHHHHHHHhhccccccccCcchHHHHHHHHH
Confidence 55555555 8999999999999999999998 9999999997 999999999999998885 899999999999999
Q ss_pred HHH-------Hh-------------------CCchHHhhccCCCCCHHHHHHHHHHhhccccC
Q 042846 81 LRQ-------QH-------------------GNKWSLIAAKLPGRTDNEIKNYWHTHLKKRKN 117 (243)
Q Consensus 81 lv~-------~~-------------------G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~ 117 (243)
+|+ ++ +-.|+.|+..+..|+..||+.+|..++.....
T Consensus 450 ~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~ 512 (607)
T KOG0051|consen 450 TVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSF 512 (607)
T ss_pred HHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHh
Confidence 996 33 12499999999999999999999998876543
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=99.47 E-value=1.7e-14 Score=97.67 Aligned_cols=48 Identities=42% Similarity=0.768 Sum_probs=43.5
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhccc
Q 042846 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYL 61 (243)
Q Consensus 14 Kg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L 61 (243)
||+||+|||++|+++|.+||..+|..||..+|.+||+.||+.||.++|
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 689999999999999999999679999999988999999999999875
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=99.43 E-value=1.7e-13 Score=92.77 Aligned_cols=46 Identities=28% Similarity=0.683 Sum_probs=41.9
Q ss_pred CCCCChHHHHHHHHHHHHhCCc-hHHhhccCC-CCCHHHHHHHHHHhh
Q 042846 67 HGNYTKEEEDTIIRLRQQHGNK-WSLIAAKLP-GRTDNEIKNYWHTHL 112 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G~~-Ws~Ia~~lp-gRT~~q~knrw~~~l 112 (243)
|++||.|||++|++++.+||.+ |..||..|| |||..||++||+.++
T Consensus 1 r~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 1 RGPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp S-SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhhC
Confidence 5799999999999999999988 999999999 999999999999864
No 12
>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=99.42 E-value=2.7e-13 Score=95.30 Aligned_cols=55 Identities=33% Similarity=0.685 Sum_probs=48.0
Q ss_pred CChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhccccCCCCCCCC
Q 042846 70 YTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKRKNKDPASSS 124 (243)
Q Consensus 70 WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~k~~~s~~ 124 (243)
||.|||++|+++|..||++|.+||..|+.||+.+|++||+..|++..++.+|+.+
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~~l~~~~~~~~wt~e 55 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRNHLRPKISRGPWTKE 55 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHHTTSTTSTSSSSSHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHHHCcccccCCCcCHH
Confidence 9999999999999999999999999996699999999999988888888887754
No 13
>PLN03212 Transcription repressor MYB5; Provisional
Probab=99.38 E-value=3.6e-13 Score=119.45 Aligned_cols=66 Identities=17% Similarity=0.410 Sum_probs=61.1
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHhC-CchHHhhccC-CCCCHHHHHHHHHHhhccccCCCCCCCCCcc
Q 042846 62 RPDIKHGNYTKEEEDTIIRLRQQHG-NKWSLIAAKL-PGRTDNEIKNYWHTHLKKRKNKDPASSSSTQ 127 (243)
Q Consensus 62 ~p~i~r~~WT~EED~~Ll~lv~~~G-~~Ws~Ia~~l-pgRT~~q~knrw~~~lkk~~~k~~~s~~~~~ 127 (243)
++.+++++||+|||++|+++|++|| ++|..||+.+ +|||+.||+.||.++|++.+++.+|+.++..
T Consensus 20 K~glKRg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~L~P~I~kgpWT~EED~ 87 (249)
T PLN03212 20 KMGMKRGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNYLRPSVKRGGITSDEED 87 (249)
T ss_pred cCCCcCCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHhhchhcccCCCChHHHH
Confidence 4678999999999999999999999 5799999988 6999999999999999999999999987653
No 14
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=99.29 E-value=2.1e-12 Score=114.63 Aligned_cols=65 Identities=20% Similarity=0.318 Sum_probs=59.9
Q ss_pred CCCCCCCCChHHHHHHHHHHHHhCC-chHHhhccCC-CCCHHHHHHHHHHhhccccCCCCCCCCCcc
Q 042846 63 PDIKHGNYTKEEEDTIIRLRQQHGN-KWSLIAAKLP-GRTDNEIKNYWHTHLKKRKNKDPASSSSTQ 127 (243)
Q Consensus 63 p~i~r~~WT~EED~~Ll~lv~~~G~-~Ws~Ia~~lp-gRT~~q~knrw~~~lkk~~~k~~~s~~~~~ 127 (243)
+.+.+|+||.|||++|+++|++||. +|..||+.++ ||++.+||-||.++|++.++++.++.++..
T Consensus 5 ~~~~kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~NyLrP~ikrg~fT~eEe~ 71 (238)
T KOG0048|consen 5 PELVKGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNYLRPDLKRGNFSDEEED 71 (238)
T ss_pred ccccCCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcccCCCccCCCCCHHHHH
Confidence 4455799999999999999999995 5999999998 999999999999999999999999987764
No 15
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.28 E-value=7.5e-12 Score=82.35 Aligned_cols=47 Identities=40% Similarity=0.833 Sum_probs=44.5
Q ss_pred CCCCChHHHHHHHHHHHHhC-CchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 67 HGNYTKEEEDTIIRLRQQHG-NKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G-~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
+++||++||.+|+.++..|| .+|..||..|++||+.+|++||+.+++
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHHcC
Confidence 46899999999999999999 999999999999999999999998765
No 16
>PLN03091 hypothetical protein; Provisional
Probab=99.26 E-value=3.7e-12 Score=120.74 Aligned_cols=65 Identities=17% Similarity=0.387 Sum_probs=60.4
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHhCC-chHHhhccC-CCCCHHHHHHHHHHhhccccCCCCCCCCCc
Q 042846 62 RPDIKHGNYTKEEEDTIIRLRQQHGN-KWSLIAAKL-PGRTDNEIKNYWHTHLKKRKNKDPASSSST 126 (243)
Q Consensus 62 ~p~i~r~~WT~EED~~Ll~lv~~~G~-~Ws~Ia~~l-pgRT~~q~knrw~~~lkk~~~k~~~s~~~~ 126 (243)
++.+++++||+|||++|+++|.+||. +|..||+.+ +||++.|||.||.++|++.+++++|+.++.
T Consensus 9 KqklrKg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~NyLdP~IkKgpWT~EED 75 (459)
T PLN03091 9 KQKLRKGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQQEE 75 (459)
T ss_pred CCCCcCCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhccCCcccCCCCCHHHH
Confidence 46789999999999999999999995 799999988 499999999999999999999999998776
No 17
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=99.16 E-value=2.9e-11 Score=79.49 Aligned_cols=48 Identities=42% Similarity=0.844 Sum_probs=44.7
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccC
Q 042846 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLR 62 (243)
Q Consensus 14 Kg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~ 62 (243)
+++||++||++|+.++..||..+|..||+.++ +|++.+|+.||.+++.
T Consensus 1 ~~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~-~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 1 KGEWTEEEDELLIELVKKYGKNNWEKIAKELP-GRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCCHHHHHHHHHHHHHHCcCCHHHHHHHcC-CCCHHHHHHHHHHHcC
Confidence 57899999999999999999559999999999 9999999999998765
No 18
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=99.16 E-value=6.9e-11 Score=76.63 Aligned_cols=44 Identities=34% Similarity=0.741 Sum_probs=41.7
Q ss_pred CCChHHHHHHHHHHHHhC-CchHHhhccCCCCCHHHHHHHHHHhh
Q 042846 69 NYTKEEEDTIIRLRQQHG-NKWSLIAAKLPGRTDNEIKNYWHTHL 112 (243)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G-~~Ws~Ia~~lpgRT~~q~knrw~~~l 112 (243)
+||.+|+..|+.++..+| .+|..||..+++||+.+|++||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHhC
Confidence 599999999999999999 99999999999999999999998753
No 19
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=99.08 E-value=1.1e-10 Score=114.64 Aligned_cols=110 Identities=29% Similarity=0.424 Sum_probs=93.1
Q ss_pred ccCCCCHHHHHHHHHHHHHhCC---------------CC--------cccccccccCccchhhhhh---hhhcccCCCCC
Q 042846 13 KKGAWSKEEDDKLRAYILKYGH---------------WN--------WGELPKFAGLSRCGKSCRL---RWMNYLRPDIK 66 (243)
Q Consensus 13 kKg~WT~EED~~L~~~V~~~g~---------------~n--------W~~Ia~~l~~~Rt~kqcr~---Rw~n~L~p~i~ 66 (243)
+-+.|+.+||+.|...|..|-. .. |..|.+.|+ .|+.+.+.. |-.+.+.+ +
T Consensus 307 ~~~~F~~eed~ale~~V~~y~~~eg~s~~q~~~~i~s~~~~~~~~~l~n~~~~~Lp-~R~~~siy~~~rR~y~~FE~--~ 383 (607)
T KOG0051|consen 307 NLKKFSKEEDAALENFVNEYLANEGWSSEQFCQRIWSKDWKTIIRNLYNNLYKLLP-YRDRKSIYHHLRRAYTPFEN--K 383 (607)
T ss_pred hhhhccHHHHHHHHHHHHHHHHhhCcchhhhhhheeccCcchHHHHHHHhhhhhcC-cccchhHHHHHHhcCCcccc--c
Confidence 3489999999999999998811 01 567788888 599998877 44444444 9
Q ss_pred CCCCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcccc--CCCCCCCCCc
Q 042846 67 HGNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKRK--NKDPASSSST 126 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~--~k~~~s~~~~ 126 (243)
+|.||+||++.|..+|.++|+.|..|++.| ||.+..|+.||+.+.+... +++.|+.++.
T Consensus 384 rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~l-gr~P~~crd~wr~~~~~g~~~~r~~Ws~eEe 444 (607)
T KOG0051|consen 384 RGKWTPEEEEELKKLVVEHGNDWKEIGKAL-GRMPMDCRDRWRQYVKCGSKRNRGAWSIEEE 444 (607)
T ss_pred cCCCCcchHHHHHHHHHHhcccHHHHHHHH-ccCcHHHHHHHHHhhccccccccCcchHHHH
Confidence 999999999999999999999999999999 9999999999999999885 7888887654
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=99.02 E-value=2.3e-10 Score=74.13 Aligned_cols=45 Identities=42% Similarity=0.798 Sum_probs=41.9
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhccc
Q 042846 16 AWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYL 61 (243)
Q Consensus 16 ~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L 61 (243)
+||++||.+|+.++..+|..+|..||+.++ +|++.+|+.||.+++
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~-~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELP-GRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcC-CCCHHHHHHHHHHhC
Confidence 599999999999999999669999999999 899999999998753
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=98.70 E-value=1.3e-08 Score=99.08 Aligned_cols=117 Identities=28% Similarity=0.526 Sum_probs=103.1
Q ss_pred CCCCCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCCCC-------------------
Q 042846 7 YDENGMKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIKH------------------- 67 (243)
Q Consensus 7 ~~k~~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~r------------------- 67 (243)
+.+|.++++.|+.|||..|+.+-..+|. .|..||..++ +|++.+|.+||.+.+.+....
T Consensus 65 ~lnp~lk~~~~~~eed~~li~l~~~~~~-~wstia~~~d-~rt~~~~~ery~~~~~~~~s~~~s~~~~~~~f~k~d~f~~ 142 (512)
T COG5147 65 HLNPQLKKKNWSEEEDEQLIDLDKELGT-QWSTIADYKD-RRTAQQCVERYVNTLEDLSSTHDSKLQRRNEFDKIDPFNE 142 (512)
T ss_pred hhchhcccccccHHHHHHHHHHHHhcCc-hhhhhccccC-ccchHHHHHHHHHHhhhhhccccccccchhhccccCchhh
Confidence 4578899999999999999999999999 7999999999 999999999999665332110
Q ss_pred --------------------------------------------------------------------------------
Q 042846 68 -------------------------------------------------------------------------------- 67 (243)
Q Consensus 68 -------------------------------------------------------------------------------- 67 (243)
T Consensus 143 ~~~~~~~~~~~~~~~~~~N~~~~~~~~~~rv~~~~vk~~~~~~~~~~~~~~~qem~~~~~~s~~~~~~~~~~~~~~k~f~ 222 (512)
T COG5147 143 NSARRPDIYEDELLEREVNREASYRLRVPRVSKADVKPREKGEENNPDIEDLQEMKELKSASITRHLILPSKSEINKAFK 222 (512)
T ss_pred hhhhhhhhhhcccchhhhhHHHHHHHHcccchHhhhhHHhhcccccccHHHHHHHhHHHHHHHHHHHhhhhhhhhccccc
Confidence
Q ss_pred ---------------------------------------------------------------------CCCChHHHHHH
Q 042846 68 ---------------------------------------------------------------------GNYTKEEEDTI 78 (243)
Q Consensus 68 ---------------------------------------------------------------------~~WT~EED~~L 78 (243)
+.||.+|+..|
T Consensus 223 ~~~~~~~e~~i~~~~~~~~~sr~q~~~~Iws~~~~~~~f~~n~~~~l~~R~~ksiy~~~rrky~~f~~~~~wt~e~~~eL 302 (512)
T COG5147 223 KGETLALEQEINEYKEKKGLSRKQFCERIWSTDRDEDKFWPNIYKKLPYRDKKSIYKHLRRKYNIFEQRGKWTKEEEQEL 302 (512)
T ss_pred hhHHHHHHHHHHHHHHHhcccHHHHHhhccccccccccccchhhcccccccccchHHHHHHhhhHHhhhccCcccccccc
Confidence 46999999999
Q ss_pred HHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcc--ccCCCCCCCCCc
Q 042846 79 IRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK--RKNKDPASSSST 126 (243)
Q Consensus 79 l~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk--~~~k~~~s~~~~ 126 (243)
..++.++|+.|..|.+.+ ||-++.|++||+++++. .++.++|+.++.
T Consensus 303 ~~~~~~~~~~w~~ig~~~-~rmp~~crd~wr~~~~~g~t~~~~~ws~eee 351 (512)
T COG5147 303 AKLVVEHGGSWTEIGKLL-GRMPNDCRDRWRDYVKCGDTLKRNRWSIEEE 351 (512)
T ss_pred ccccccccchhhHhhhhh-ccCcHHHHHHHhhhccccCccCCCCCchhhh
Confidence 999999999999999999 99999999999999998 577778887654
No 22
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=98.07 E-value=4.2e-06 Score=59.04 Aligned_cols=49 Identities=12% Similarity=0.303 Sum_probs=44.0
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCc---ccccccccCcc-chhhhhhhhhccc
Q 042846 13 KKGAWSKEEDDKLRAYILKYGHWNW---GELPKFAGLSR-CGKSCRLRWMNYL 61 (243)
Q Consensus 13 kKg~WT~EED~~L~~~V~~~g~~nW---~~Ia~~l~~~R-t~kqcr~Rw~n~L 61 (243)
++-.||+||..+++.+|..+|.++| ..|++.|+..| |..||+.+++.|.
T Consensus 2 ~r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 2 PRVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 4668999999999999999999899 99999887567 9999999998764
No 23
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.87 E-value=7.7e-06 Score=77.87 Aligned_cols=49 Identities=18% Similarity=0.529 Sum_probs=46.3
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhccc
Q 042846 12 MKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYL 61 (243)
Q Consensus 12 lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L 61 (243)
+-.+-||++|+-+|++++..||-+||..||.++| +|++.+|+++|.+++
T Consensus 70 i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIG-tKtkeeck~hy~k~f 118 (438)
T KOG0457|consen 70 ILDPSWTADEEILLLEAAETYGFGNWQDIADHIG-TKTKEECKEHYLKHF 118 (438)
T ss_pred CCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHc-ccchHHHHHHHHHHH
Confidence 5567899999999999999999999999999999 999999999999875
No 24
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=97.79 E-value=9.4e-06 Score=78.75 Aligned_cols=62 Identities=27% Similarity=0.414 Sum_probs=57.2
Q ss_pred CCCCCCChHHHHHHHHHHHHhC-CchHHhhccCCCCCHHHHHHHHHHhhccccCCCCCCCCCc
Q 042846 65 IKHGNYTKEEEDTIIRLRQQHG-NKWSLIAAKLPGRTDNEIKNYWHTHLKKRKNKDPASSSST 126 (243)
Q Consensus 65 i~r~~WT~EED~~Ll~lv~~~G-~~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~k~~~s~~~~ 126 (243)
++.|-|+.-||++|.-+|..|| +.|++|++.|+..|+.||++||...+++.+++..|+.++.
T Consensus 5 ~kggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e~ldp~i~~tews~eed 67 (617)
T KOG0050|consen 5 IKGGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEEWLDPAIKKTEWSREED 67 (617)
T ss_pred EecceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHHHhCHHHhhhhhhhhHH
Confidence 4678999999999999999999 5699999999999999999999999999999999987654
No 25
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.65 E-value=0.00014 Score=51.34 Aligned_cols=47 Identities=15% Similarity=0.244 Sum_probs=40.8
Q ss_pred CCCCChHHHHHHHHHHHHhCC-ch---HHhhccCC-CC-CHHHHHHHHHHhhc
Q 042846 67 HGNYTKEEEDTIIRLRQQHGN-KW---SLIAAKLP-GR-TDNEIKNYWHTHLK 113 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G~-~W---s~Ia~~lp-gR-T~~q~knrw~~~lk 113 (243)
+-.||+||...++++++.+|. +| ..|+..+. .| |..||+.|.+.+..
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 568999999999999999996 99 99999874 35 99999999876543
No 26
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=97.56 E-value=0.0001 Score=70.38 Aligned_cols=50 Identities=24% Similarity=0.403 Sum_probs=45.2
Q ss_pred CCCCCCCChHHHHHHHHHHHHhC-CchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 64 DIKHGNYTKEEEDTIIRLRQQHG-NKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 64 ~i~r~~WT~EED~~Ll~lv~~~G-~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
.+-...||.+|+.+|++++..|| ++|..||.+++.||..+||.+|.++.-
T Consensus 69 ~i~~~~WtadEEilLLea~~t~G~GNW~dIA~hIGtKtkeeck~hy~k~fv 119 (438)
T KOG0457|consen 69 PILDPSWTADEEILLLEAAETYGFGNWQDIADHIGTKTKEECKEHYLKHFV 119 (438)
T ss_pred CCCCCCCChHHHHHHHHHHHHhCCCcHHHHHHHHcccchHHHHHHHHHHHh
Confidence 44567899999999999999999 999999999999999999999976654
No 27
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=97.35 E-value=0.00055 Score=59.69 Aligned_cols=100 Identities=17% Similarity=0.230 Sum_probs=72.6
Q ss_pred CCCHHHHHHHHHHHHHhCCCCccccccccc--Cccchhhhhhhhhccc-CCCC--------------------CCCCCCh
Q 042846 16 AWSKEEDDKLRAYILKYGHWNWGELPKFAG--LSRCGKSCRLRWMNYL-RPDI--------------------KHGNYTK 72 (243)
Q Consensus 16 ~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~--~~Rt~kqcr~Rw~n~L-~p~i--------------------~r~~WT~ 72 (243)
+|++++|-.|+.+|..-. +-..|+..+. ..-|-+.+.+||+..| +|.+ .+.+||.
T Consensus 1 rW~~~DDl~Li~av~~~~--~L~~v~~gvkFS~~fT~~Ei~~RW~~llyd~~is~~a~~~m~~l~p~~~~~iq~kalfS~ 78 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQTN--DLESVHLGVKFSCKFTLQEIEERWYALLYDPVISRIAVAAMRNLHPELIAAIQSKALFSK 78 (199)
T ss_pred CCCchhhHHHHHHHHHhc--CHHHHHccCCcCCcCcHHHHHHHHHHHHcChhhHHHHHHHHHhCCcchhhcccccCCCCH
Confidence 699999999999998765 3555554332 2467788899999876 4432 3468999
Q ss_pred HHHHHHHHHHHHhCC---chHHhhc-----cCCCCCHHHHHHHHHHhhccccC
Q 042846 73 EEEDTIIRLRQQHGN---KWSLIAA-----KLPGRTDNEIKNYWHTHLKKRKN 117 (243)
Q Consensus 73 EED~~Ll~lv~~~G~---~Ws~Ia~-----~lpgRT~~q~knrw~~~lkk~~~ 117 (243)
+|+++|......... .+.+|=. +-++||+.++.++|..+.+..+-
T Consensus 79 ~EE~lL~~v~s~~~p~le~Fq~LL~~n~~vFh~sRTak~L~~HW~lmkqy~LL 131 (199)
T PF13325_consen 79 EEEQLLGTVASSSQPSLETFQELLDKNRSVFHPSRTAKSLQDHWRLMKQYHLL 131 (199)
T ss_pred HHHHHHHhhhhccCCcHHHHHHHHHhChhhhccccCHHHHHHHHHHHHHhchh
Confidence 999999997766543 3555543 23689999999999966555444
No 28
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=97.30 E-value=0.00014 Score=70.05 Aligned_cols=46 Identities=24% Similarity=0.598 Sum_probs=43.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcc
Q 042846 13 KKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNY 60 (243)
Q Consensus 13 kKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~ 60 (243)
....||.+|..+|+++|+.||. +|.+||.++| +|+..||..|+.++
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 5679999999999999999998 9999999999 99999999999865
No 29
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=97.16 E-value=0.0003 Score=69.02 Aligned_cols=48 Identities=21% Similarity=0.576 Sum_probs=44.3
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcc
Q 042846 11 GMKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNY 60 (243)
Q Consensus 11 ~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~ 60 (243)
..-++.||.+|..+|+++|..||. +|.+||.++| +|+..||..++.+.
T Consensus 250 ~~~~~~WT~qE~lLLLE~ie~y~d-dW~kVa~hVg-~ks~eqCI~kFL~L 297 (506)
T KOG1279|consen 250 ESARPNWTEQETLLLLEAIEMYGD-DWNKVADHVG-TKSQEQCILKFLRL 297 (506)
T ss_pred ccCCCCccHHHHHHHHHHHHHhcc-cHHHHHhccC-CCCHHHHHHHHHhc
Confidence 345788999999999999999998 9999999999 99999999999764
No 30
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=97.10 E-value=0.00033 Score=52.18 Aligned_cols=52 Identities=33% Similarity=0.507 Sum_probs=36.3
Q ss_pred CCCCChHHHHHHHHHHHH------hC--C------chHHhhccC----CCCCHHHHHHHHHHhhccccCC
Q 042846 67 HGNYTKEEEDTIIRLRQQ------HG--N------KWSLIAAKL----PGRTDNEIKNYWHTHLKKRKNK 118 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~------~G--~------~Ws~Ia~~l----pgRT~~q~knrw~~~lkk~~~k 118 (243)
|..||.+|...||.++.. ++ + -|..||..| ..||+.||+++|.++.+.-.+-
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~~~Yk~~ 70 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLKKKYKKI 70 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHHHHHHCS
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 457999999999999877 22 1 399999987 3599999999999877655443
No 31
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.95 E-value=0.0012 Score=47.78 Aligned_cols=51 Identities=22% Similarity=0.466 Sum_probs=32.7
Q ss_pred CCCCChHHHHHHHHHHHHhC--------Cc-hHHhhccCC-CCCHHHHHHHHHHhhccccC
Q 042846 67 HGNYTKEEEDTIIRLRQQHG--------NK-WSLIAAKLP-GRTDNEIKNYWHTHLKKRKN 117 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G--------~~-Ws~Ia~~lp-gRT~~q~knrw~~~lkk~~~ 117 (243)
|.+||.|||.+|++.|..+. ++ |.+++..-+ ++|-...|+||...|+.+..
T Consensus 2 R~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K~L~~~~~ 62 (65)
T PF08914_consen 2 RTPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLKHLRGRPR 62 (65)
T ss_dssp -----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHHHT-----
T ss_pred CCCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHHHHhcccc
Confidence 46899999999999996542 22 999999877 89999999999988887654
No 32
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=96.93 E-value=0.00092 Score=64.55 Aligned_cols=44 Identities=14% Similarity=0.262 Sum_probs=41.5
Q ss_pred CCCCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHH
Q 042846 67 HGNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHT 110 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~ 110 (243)
..+||.+|..+|++.++.||..|.+||++++.||..||--||-+
T Consensus 279 dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~ 322 (531)
T COG5259 279 DKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQ 322 (531)
T ss_pred cccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHc
Confidence 35899999999999999999999999999999999999999954
No 33
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=96.77 E-value=0.0019 Score=63.53 Aligned_cols=46 Identities=13% Similarity=0.272 Sum_probs=42.7
Q ss_pred CCCCCCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHH
Q 042846 65 IKHGNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHT 110 (243)
Q Consensus 65 i~r~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~ 110 (243)
..+..||.+|.-+|++.++.||-.|.+||.+..+||..||--++..
T Consensus 251 ~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 251 SARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLR 296 (506)
T ss_pred cCCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHh
Confidence 3467899999999999999999999999999999999999999954
No 34
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=96.76 E-value=0.00066 Score=49.11 Aligned_cols=52 Identities=25% Similarity=0.362 Sum_probs=32.6
Q ss_pred cCCCCHHHHHHHHHHHHHhCC------CC--cccccccccCccchhhhhhhhhcccCCCC
Q 042846 14 KGAWSKEEDDKLRAYILKYGH------WN--WGELPKFAGLSRCGKSCRLRWMNYLRPDI 65 (243)
Q Consensus 14 Kg~WT~EED~~L~~~V~~~g~------~n--W~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i 65 (243)
|-+||.|||++|+.+|..+.. +| |.++++.-+..++-.+-|+||...|.+..
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 457999999999999976632 12 88888876657888889999999987643
No 35
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.73 E-value=0.0013 Score=55.52 Aligned_cols=51 Identities=20% Similarity=0.373 Sum_probs=44.0
Q ss_pred CCCCCChHHHHHHHHHHHHh---CC----chHHhhccCCCCCHHHHHHHHHHhhccccC
Q 042846 66 KHGNYTKEEEDTIIRLRQQH---GN----KWSLIAAKLPGRTDNEIKNYWHTHLKKRKN 117 (243)
Q Consensus 66 ~r~~WT~EED~~Ll~lv~~~---G~----~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~ 117 (243)
....||.|||.+|-+.|..| |+ -...++..| +||+..|.=||+..++++..
T Consensus 3 RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L-~RTsAACGFRWNs~VRkqY~ 60 (161)
T TIGR02894 3 RQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRAL-NRTAAACGFRWNAYVRKQYE 60 (161)
T ss_pred cccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH-cccHHHhcchHHHHHHHHHH
Confidence 45789999999999999887 32 288899999 99999999999999997644
No 36
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=96.53 E-value=0.0011 Score=49.27 Aligned_cols=48 Identities=25% Similarity=0.520 Sum_probs=32.7
Q ss_pred cCCCCHHHHHHHHHHHHH--h----C---C----CCcccccccc---cCccchhhhhhhhhccc
Q 042846 14 KGAWSKEEDDKLRAYILK--Y----G---H----WNWGELPKFA---GLSRCGKSCRLRWMNYL 61 (243)
Q Consensus 14 Kg~WT~EED~~L~~~V~~--~----g---~----~nW~~Ia~~l---~~~Rt~kqcr~Rw~n~L 61 (243)
|..||.+|...|+.++.. + + . .-|..||..| |..|++.||+.||.+..
T Consensus 1 R~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L~ 64 (90)
T PF13837_consen 1 RRNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNLK 64 (90)
T ss_dssp --SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 457999999999999887 2 1 1 1399999865 66799999999998753
No 37
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=96.47 E-value=0.00087 Score=56.48 Aligned_cols=50 Identities=30% Similarity=0.628 Sum_probs=42.2
Q ss_pred CccCCCCHHHHHHHHHHHHHh---CCC---CcccccccccCccchhhhhhhhhcccCC
Q 042846 12 MKKGAWSKEEDDKLRAYILKY---GHW---NWGELPKFAGLSRCGKSCRLRWMNYLRP 63 (243)
Q Consensus 12 lkKg~WT~EED~~L~~~V~~~---g~~---nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p 63 (243)
.+...||.|||.+|...|-+| |.. ....|+..++ ||+.-|.-||+.+++.
T Consensus 2 ~RQDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~--RTsAACGFRWNs~VRk 57 (161)
T TIGR02894 2 TRQDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN--RTAAACGFRWNAYVRK 57 (161)
T ss_pred ccccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc--ccHHHhcchHHHHHHH
Confidence 467889999999999999999 321 3677888886 9999999999999874
No 38
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=96.15 E-value=0.0022 Score=59.49 Aligned_cols=49 Identities=18% Similarity=0.457 Sum_probs=45.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccC
Q 042846 13 KKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLR 62 (243)
Q Consensus 13 kKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~ 62 (243)
----|++.|+.+|++.....|-+||..||.++| .|+...|+++|..++.
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiG-sr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIG-SRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHh-hhhhHHHHHHHHHHHh
Confidence 345699999999999999999999999999999 9999999999998865
No 39
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.84 E-value=0.0065 Score=51.80 Aligned_cols=49 Identities=16% Similarity=0.361 Sum_probs=41.5
Q ss_pred CCCCCChHHHHHHHHHHHHhCCc-------hHHhhccCCCCCHHHHHHHHHHhhccc
Q 042846 66 KHGNYTKEEEDTIIRLRQQHGNK-------WSLIAAKLPGRTDNEIKNYWHTHLKKR 115 (243)
Q Consensus 66 ~r~~WT~EED~~Ll~lv~~~G~~-------Ws~Ia~~lpgRT~~q~knrw~~~lkk~ 115 (243)
+...||.|+|.+|-+.|..|+.. ...++..| +||..+|..||+..++++
T Consensus 4 rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRwNs~vrk~ 59 (170)
T PRK13923 4 RQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRWNSVVRKQ 59 (170)
T ss_pred hhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHHHHHHHHH
Confidence 46789999999998888888743 66667778 999999999999999865
No 40
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.79 E-value=0.0091 Score=43.62 Aligned_cols=49 Identities=29% Similarity=0.569 Sum_probs=39.9
Q ss_pred CCCCChHHHHHHHHHHHHhC----C-------------chHHhhccC-----CCCCHHHHHHHHHHhhccc
Q 042846 67 HGNYTKEEEDTIIRLRQQHG----N-------------KWSLIAAKL-----PGRTDNEIKNYWHTHLKKR 115 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G----~-------------~Ws~Ia~~l-----pgRT~~q~knrw~~~lkk~ 115 (243)
...||.+|..+|++++.++. + -|..|+..| +.||..+||.+|.++...-
T Consensus 2 ~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk~~~ 72 (78)
T PF13873_consen 2 KPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLKSKA 72 (78)
T ss_pred CCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHH
Confidence 45799999999999998863 1 299999876 2499999999999876543
No 41
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=95.71 E-value=0.0039 Score=53.15 Aligned_cols=50 Identities=24% Similarity=0.497 Sum_probs=40.3
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCC------cccccccccCccchhhhhhhhhcccC
Q 042846 11 GMKKGAWSKEEDDKLRAYILKYGHWN------WGELPKFAGLSRCGKSCRLRWMNYLR 62 (243)
Q Consensus 11 ~lkKg~WT~EED~~L~~~V~~~g~~n------W~~Ia~~l~~~Rt~kqcr~Rw~n~L~ 62 (243)
..++..||.|||.+|...|.+|+... ...++..|. |++.+|..||+.+++
T Consensus 2 k~rqdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~--rt~aac~fRwNs~vr 57 (170)
T PRK13923 2 KTRQDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK--RTAAACGFRWNSVVR 57 (170)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh--hhHHHHHhHHHHHHH
Confidence 35778999999999999999996532 344556664 999999999988776
No 42
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=95.58 E-value=0.012 Score=54.70 Aligned_cols=48 Identities=23% Similarity=0.349 Sum_probs=43.5
Q ss_pred CCCCCChHHHHHHHHHHHHhC-CchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 66 KHGNYTKEEEDTIIRLRQQHG-NKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 66 ~r~~WT~EED~~Ll~lv~~~G-~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
--..|+..|+-+|++....+| ++|..||.+++.|+..+||.+|.....
T Consensus 62 ~~e~WgadEEllli~~~~TlGlGNW~dIadyiGsr~kee~k~HylK~y~ 110 (432)
T COG5114 62 GEEGWGADEELLLIECLDTLGLGNWEDIADYIGSRAKEEIKSHYLKMYD 110 (432)
T ss_pred cCCCcCchHHHHHHHHHHhcCCCcHHHHHHHHhhhhhHHHHHHHHHHHh
Confidence 345899999999999999999 899999999988999999999976654
No 43
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=95.47 E-value=0.013 Score=42.78 Aligned_cols=49 Identities=24% Similarity=0.346 Sum_probs=39.2
Q ss_pred ccCCCCHHHHHHHHHHHHHh-----CC-----------CCcccccccc----cCccchhhhhhhhhccc
Q 042846 13 KKGAWSKEEDDKLRAYILKY-----GH-----------WNWGELPKFA----GLSRCGKSCRLRWMNYL 61 (243)
Q Consensus 13 kKg~WT~EED~~L~~~V~~~-----g~-----------~nW~~Ia~~l----~~~Rt~kqcr~Rw~n~L 61 (243)
++..||.+|...|+++|.+| |. .-|..|+..+ |..|+..||+.+|.++.
T Consensus 1 R~~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nlk 69 (78)
T PF13873_consen 1 RKPNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNLK 69 (78)
T ss_pred CCCCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH
Confidence 46789999999999999998 21 1299998755 23699999999998764
No 44
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=95.20 E-value=0.068 Score=56.92 Aligned_cols=99 Identities=16% Similarity=0.282 Sum_probs=77.3
Q ss_pred CCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhh-------hhhcc----------------------------
Q 042846 16 AWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRL-------RWMNY---------------------------- 60 (243)
Q Consensus 16 ~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~-------Rw~n~---------------------------- 60 (243)
.|+.-+=..++.+..+||..+-..||..++ +++...++. ||..+
T Consensus 826 ~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~-~k~~~ev~~y~~~f~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~ 904 (1033)
T PLN03142 826 TWSRRDFNAFIRACEKYGRNDIKSIASEME-GKTEEEVERYAKVFWERYKELNDYDRIIKNIERGEARISRKDEIMKAIG 904 (1033)
T ss_pred cccHHHHHHHHHHHHHhCHhHHHHHHHHhc-CCCHHHHHHHHHHHHHhhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 488888888899999999988899999997 788877764 22110
Q ss_pred --------------c-CCCCCCCCCChHHHHHHHHHHHHhC-CchHHhhcc------------CCCCCHHHHHHHHHHhh
Q 042846 61 --------------L-RPDIKHGNYTKEEEDTIIRLRQQHG-NKWSLIAAK------------LPGRTDNEIKNYWHTHL 112 (243)
Q Consensus 61 --------------L-~p~i~r~~WT~EED~~Ll~lv~~~G-~~Ws~Ia~~------------lpgRT~~q~knrw~~~l 112 (243)
+ -+..++..+|.|||..|+-++.+|| ++|..|-.. |..||+.+|..|..++|
T Consensus 905 ~k~~~~~~p~~~l~~~~~~~~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l~ 984 (1033)
T PLN03142 905 KKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTLI 984 (1033)
T ss_pred HHHHHccCcHHHceeecCCCCCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHHH
Confidence 0 1233456799999999999999999 779998332 25799999999999998
Q ss_pred ccc
Q 042846 113 KKR 115 (243)
Q Consensus 113 kk~ 115 (243)
+--
T Consensus 985 ~~~ 987 (1033)
T PLN03142 985 RLI 987 (1033)
T ss_pred HHH
Confidence 754
No 45
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=93.29 E-value=0.12 Score=41.54 Aligned_cols=51 Identities=24% Similarity=0.414 Sum_probs=40.8
Q ss_pred CCCCCCCChHHHHHHHHHHHHhCC----chHHhhccC------------CCCCHHHHHHHHHHhhcc
Q 042846 64 DIKHGNYTKEEEDTIIRLRQQHGN----KWSLIAAKL------------PGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 64 ~i~r~~WT~EED~~Ll~lv~~~G~----~Ws~Ia~~l------------pgRT~~q~knrw~~~lkk 114 (243)
..++..+|++||.-|+-++.+||- .|..|-..+ ..||+.+|..|.+++++-
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~tLi~~ 112 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNTLIKL 112 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHHHHHH
Confidence 556789999999999999999996 798887642 369999999999998874
No 46
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=92.61 E-value=0.12 Score=49.38 Aligned_cols=55 Identities=20% Similarity=0.324 Sum_probs=46.6
Q ss_pred CCCCChHHHHHHHHHHHHhCCchHHhhcc-----CCC-CCHHHHHHHHHHhhccccCCCCC
Q 042846 67 HGNYTKEEEDTIIRLRQQHGNKWSLIAAK-----LPG-RTDNEIKNYWHTHLKKRKNKDPA 121 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~-----lpg-RT~~q~knrw~~~lkk~~~k~~~ 121 (243)
...||.+|-+.|..+++.|.-+|.-||.. ++. ||-.++|.||..+.++-.+-...
T Consensus 130 dn~WskeETD~LF~lck~fDLRf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~r~l~kAr~~ 190 (445)
T KOG2656|consen 130 DNSWSKEETDYLFDLCKRFDLRFFVIADRYDNQQYKKSRTVEDLKERYYSVCRKLLKARAP 190 (445)
T ss_pred cccccHHHHHHHHHHHHhcCeeEEEEeeccchhhccccccHHHHHHHHHHHHHHHHHccCC
Confidence 36799999999999999999999999987 555 99999999998877766554333
No 47
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=92.32 E-value=0.12 Score=48.19 Aligned_cols=51 Identities=27% Similarity=0.383 Sum_probs=40.6
Q ss_pred CCCCChHHHHHHHHHHHHh----------CCchHHhhccC----CCCCHHHHHHHHHHhhccccC
Q 042846 67 HGNYTKEEEDTIIRLRQQH----------GNKWSLIAAKL----PGRTDNEIKNYWHTHLKKRKN 117 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~----------G~~Ws~Ia~~l----pgRT~~q~knrw~~~lkk~~~ 117 (243)
...|+.+|-..||++.... +..|..||+.+ .-||+.|||++|.++.++-++
T Consensus 54 ~~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k~Yk~ 118 (345)
T KOG4282|consen 54 EPRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKKKYKK 118 (345)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHH
Confidence 3689999999999987653 23499999965 239999999999988775543
No 48
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=91.99 E-value=0.28 Score=36.71 Aligned_cols=45 Identities=33% Similarity=0.590 Sum_probs=34.4
Q ss_pred CCChHHHHHHHHHHHHh---CC----------chHHhhccC---CC--CCHHHHHHHHHHhhc
Q 042846 69 NYTKEEEDTIIRLRQQH---GN----------KWSLIAAKL---PG--RTDNEIKNYWHTHLK 113 (243)
Q Consensus 69 ~WT~EED~~Ll~lv~~~---G~----------~Ws~Ia~~l---pg--RT~~q~knrw~~~lk 113 (243)
.||+++++.|++++.+. |+ .|..|+..| +| .+..||+|||..+-+
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~lk~ 63 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTLKK 63 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHHHH
Confidence 49999999999988553 22 299999876 33 578999999976544
No 49
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=88.78 E-value=0.66 Score=44.37 Aligned_cols=46 Identities=24% Similarity=0.379 Sum_probs=42.5
Q ss_pred CCCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 68 GNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 68 ~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
.+||.+|-++..++..+.|...+.||..||.|...|||-+|.+--+
T Consensus 366 ~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~Eek 411 (507)
T COG5118 366 LRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIKEEK 411 (507)
T ss_pred CcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHHHhh
Confidence 4899999999999999999999999999999999999999975444
No 50
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=87.41 E-value=0.32 Score=39.10 Aligned_cols=49 Identities=31% Similarity=0.384 Sum_probs=36.0
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCC---CCccccccccc-----------Cccchhhhhhhhhc
Q 042846 11 GMKKGAWSKEEDDKLRAYILKYGH---WNWGELPKFAG-----------LSRCGKSCRLRWMN 59 (243)
Q Consensus 11 ~lkKg~WT~EED~~L~~~V~~~g~---~nW~~Ia~~l~-----------~~Rt~kqcr~Rw~n 59 (243)
+.++..||.+||..|+-.+.+||. +.|..|-..+- ..||+..+..|-..
T Consensus 46 ~~~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~t 108 (118)
T PF09111_consen 46 NNKKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCNT 108 (118)
T ss_dssp TSS-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHHH
T ss_pred CCCCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHHH
Confidence 567889999999999999999999 88988865431 26777777666543
No 51
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=87.30 E-value=1.1 Score=29.97 Aligned_cols=41 Identities=27% Similarity=0.344 Sum_probs=31.4
Q ss_pred hHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 72 KEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 72 ~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
++++..++.++...|-.+.+||..+ |.|...|+.+.+..++
T Consensus 12 ~~~~r~i~~l~~~~g~s~~eIa~~l-~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 12 PERQREIFLLRYFQGMSYAEIAEIL-GISESTVKRRLRRARK 52 (54)
T ss_dssp -HHHHHHHHHHHTS---HHHHHHHC-TS-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCcCHHHHHHHH-CcCHHHHHHHHHHHHh
Confidence 3677788999999999999999999 9999999998876554
No 52
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=85.35 E-value=0.69 Score=43.04 Aligned_cols=47 Identities=26% Similarity=0.336 Sum_probs=37.5
Q ss_pred CCCCHHHHHHHHHHHHHh---------CCCCcccccc---cccCccchhhhhhhhhccc
Q 042846 15 GAWSKEEDDKLRAYILKY---------GHWNWGELPK---FAGLSRCGKSCRLRWMNYL 61 (243)
Q Consensus 15 g~WT~EED~~L~~~V~~~---------g~~nW~~Ia~---~l~~~Rt~kqcr~Rw~n~L 61 (243)
..|+.+|-..|+.+.... ....|..||+ ..|.-|++.||+.||.+..
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 689999999999987644 1225999988 3456799999999998754
No 53
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=82.29 E-value=1.3 Score=42.38 Aligned_cols=62 Identities=16% Similarity=0.341 Sum_probs=49.0
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhccc--CCC-----C-CCCCCChHHHHH
Q 042846 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYL--RPD-----I-KHGNYTKEEEDT 77 (243)
Q Consensus 14 Kg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L--~p~-----i-~r~~WT~EED~~ 77 (243)
--+||.+|-+++..++...|. +...|+.++| +|..+|++.+|.+-- +|- + .+.|+..+|-..
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGt-dF~LIs~lfP-~R~RkqIKaKfi~Eek~nP~rIn~aL~~kkp~d~~eY~k 434 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGT-DFSLISSLFP-NRERKQIKAKFIKEEKVNPERINEALNEKKPFDQVEYNK 434 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcc-hHHHHHHhcC-chhHHHHHHHHHHHhhhCHHHHHHHHhccCCCCHHHHhh
Confidence 357999999999999999998 9999999999 999999999998643 221 1 234666666443
No 54
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=81.74 E-value=2.4 Score=41.49 Aligned_cols=49 Identities=22% Similarity=0.296 Sum_probs=43.2
Q ss_pred CCCCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhccc
Q 042846 67 HGNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk~ 115 (243)
...||.||-.++-+++..||++..+|-..||.|+-..|...|...-+.+
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~KK~~ 235 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSWKKTR 235 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHHHHHh
Confidence 4579999999999999999999999999999999999998886654433
No 55
>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=76.82 E-value=2.6 Score=31.39 Aligned_cols=44 Identities=20% Similarity=0.506 Sum_probs=31.5
Q ss_pred CCCHHHHHHHHHHHHHh---CCC---------Ccccccccc----cCccchhhhhhhhhc
Q 042846 16 AWSKEEDDKLRAYILKY---GHW---------NWGELPKFA----GLSRCGKSCRLRWMN 59 (243)
Q Consensus 16 ~WT~EED~~L~~~V~~~---g~~---------nW~~Ia~~l----~~~Rt~kqcr~Rw~n 59 (243)
.||+++++.|++++... |.. .|..|++.+ +...+..||+.||..
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~ 60 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKT 60 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHH
Confidence 59999999999988665 221 277776644 445677888888764
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=74.49 E-value=2.1 Score=28.03 Aligned_cols=38 Identities=24% Similarity=0.286 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhc
Q 042846 20 EEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMN 59 (243)
Q Consensus 20 EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n 59 (243)
+=|.+|+.+++..|...+..||+.+| =+...|..|+..
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg--lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG--LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC--cCHHHHHHHHHH
Confidence 34889999999999999999999997 788889988764
No 57
>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=71.62 E-value=4 Score=30.68 Aligned_cols=15 Identities=33% Similarity=0.736 Sum_probs=9.3
Q ss_pred CCccCCCCHHHHHHH
Q 042846 11 GMKKGAWSKEEDDKL 25 (243)
Q Consensus 11 ~lkKg~WT~EED~~L 25 (243)
.-..|-||+|+|+.|
T Consensus 44 ~n~~GiWT~eDD~~L 58 (87)
T PF11626_consen 44 DNMPGIWTPEDDEML 58 (87)
T ss_dssp TT-TT---HHHHHHH
T ss_pred CCCCCCcCHHHHHHH
Confidence 345789999999999
No 58
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=71.05 E-value=9.5 Score=39.55 Aligned_cols=44 Identities=14% Similarity=0.291 Sum_probs=39.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhc
Q 042846 14 KGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMN 59 (243)
Q Consensus 14 Kg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n 59 (243)
...||+.|-.++.+++..|.. +...|++.+. +++.+||-+-|..
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~K-DF~~v~km~~-~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSK-DFIFVQKMVK-SKTVAQCVEYYYT 662 (907)
T ss_pred cccccHHHHHHHHHHHHHhcc-cHHHHHHHhc-cccHHHHHHHHHH
Confidence 467999999999999999998 9999999998 9999999887653
No 59
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=70.15 E-value=8.2 Score=25.17 Aligned_cols=38 Identities=24% Similarity=0.454 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHhCC-chHHhhccCCCCCHHHHHHHHHHh
Q 042846 73 EEEDTIIRLRQQHGN-KWSLIAAKLPGRTDNEIKNYWHTH 111 (243)
Q Consensus 73 EED~~Ll~lv~~~G~-~Ws~Ia~~lpgRT~~q~knrw~~~ 111 (243)
+=|..|+.+...-|. .+.+||+.+ |=|...|..|++.+
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 347788888888885 499999999 99999999998754
No 60
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=69.83 E-value=7.9 Score=25.49 Aligned_cols=41 Identities=32% Similarity=0.441 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 73 EEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 73 EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
+++..++.++-..|..+.+||..| |-|...|+.+-+..+++
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 455666667667777899999999 88999999988877664
No 61
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=67.14 E-value=25 Score=33.11 Aligned_cols=86 Identities=22% Similarity=0.307 Sum_probs=64.1
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCc---ccccccccCccchhhhhhhhhcccCCCCCCCCCChHHHHHHHHHHHH-h----
Q 042846 14 KGAWSKEEDDKLRAYILKYGHWNW---GELPKFAGLSRCGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIRLRQQ-H---- 85 (243)
Q Consensus 14 Kg~WT~EED~~L~~~V~~~g~~nW---~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~r~~WT~EED~~Ll~lv~~-~---- 85 (243)
-..||.-|...|+.+++....... .+|++.+. +|+..++++ |.+.|+ +..+.+++++ |
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 357999999999999986633333 46778888 999999887 555554 4455566655 2
Q ss_pred -CCc------------hHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 86 -GNK------------WSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 86 -G~~------------Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
|.+ |..+|..+.|.-...+-.-|..+|.
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 9999999999999999888877664
No 62
>smart00595 MADF subfamily of SANT domain.
Probab=66.21 E-value=4.7 Score=29.63 Aligned_cols=24 Identities=33% Similarity=0.605 Sum_probs=20.7
Q ss_pred hHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 89 WSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 89 Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
|.+||..| |-|..+|+.+|+++-.
T Consensus 30 W~~Ia~~l-~~~~~~~~~kw~~LR~ 53 (89)
T smart00595 30 WEEIAEEL-GLSVEECKKRWKNLRD 53 (89)
T ss_pred HHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 99999999 5599999999987643
No 63
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=65.69 E-value=4 Score=33.50 Aligned_cols=46 Identities=15% Similarity=0.150 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCCC
Q 042846 19 KEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIK 66 (243)
Q Consensus 19 ~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~ 66 (243)
.+-|.+|+.++++.|...|.+||+.+| -+...|+.|+.+....++-
T Consensus 8 D~~D~~Il~~Lq~d~R~s~~eiA~~lg--lS~~tV~~Ri~rL~~~GvI 53 (153)
T PRK11179 8 DNLDRGILEALMENARTPYAELAKQFG--VSPGTIHVRVEKMKQAGII 53 (153)
T ss_pred CHHHHHHHHHHHHcCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 357999999999999999999999997 8899999999987765543
No 64
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=62.74 E-value=3.6 Score=34.24 Aligned_cols=46 Identities=22% Similarity=0.157 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCCC
Q 042846 19 KEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDIK 66 (243)
Q Consensus 19 ~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i~ 66 (243)
.+-|.+|+.++++.|...|.+||+.+| -+...|+.|+.+.....+-
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~lg--lS~~tv~~Ri~rL~~~GvI 58 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRVG--LSPTPCLERVRRLERQGFI 58 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCCe
Confidence 567999999999999999999999997 7888999999987765543
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=62.72 E-value=8 Score=32.63 Aligned_cols=41 Identities=27% Similarity=0.325 Sum_probs=35.5
Q ss_pred CCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHH
Q 042846 69 NYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHT 110 (243)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~ 110 (243)
.||.|..+.|.+|. .-|..=++||..|.|.|.|.|.-+-+.
T Consensus 2 ~Wtde~~~~L~~lw-~~G~SasqIA~~lg~vsRnAViGk~hR 42 (162)
T PF07750_consen 2 SWTDERVERLRKLW-AEGLSASQIARQLGGVSRNAVIGKAHR 42 (162)
T ss_pred CCCHHHHHHHHHHH-HcCCCHHHHHHHhCCcchhhhhhhhhc
Confidence 49999999998887 568888999999987999999887664
No 66
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=62.22 E-value=14 Score=30.22 Aligned_cols=45 Identities=9% Similarity=0.092 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHhCC-chHHhhccCCCCCHHHHHHHHHHhhccccCC
Q 042846 73 EEEDTIIRLRQQHGN-KWSLIAAKLPGRTDNEIKNYWHTHLKKRKNK 118 (243)
Q Consensus 73 EED~~Ll~lv~~~G~-~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~k 118 (243)
+-|..|+.+.++-|. .|++||+.+ |-|...|+.|++.+.....-+
T Consensus 9 ~~D~~Il~~Lq~d~R~s~~eiA~~l-glS~~tV~~Ri~rL~~~GvI~ 54 (153)
T PRK11179 9 NLDRGILEALMENARTPYAELAKQF-GVSPGTIHVRVEKMKQAGIIT 54 (153)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 568888888888884 599999999 999999999999988876554
No 67
>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=61.61 E-value=8.1 Score=29.01 Aligned_cols=17 Identities=29% Similarity=0.556 Sum_probs=10.2
Q ss_pred CCCCCCCCChHHHHHHH
Q 042846 63 PDIKHGNYTKEEEDTII 79 (243)
Q Consensus 63 p~i~r~~WT~EED~~Ll 79 (243)
|....|-||+|+|+.|.
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 66678999999999983
No 68
>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=61.50 E-value=14 Score=29.11 Aligned_cols=37 Identities=24% Similarity=0.328 Sum_probs=28.1
Q ss_pred HHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 77 TIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 77 ~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
.++.+.-..|-.+.+||..+ |.|...|+++.+...++
T Consensus 120 ~il~l~~~~~~~~~eIA~~l-gis~~tv~~~~~ra~~~ 156 (161)
T TIGR02985 120 KIFILSRFEGKSYKEIAEEL-GISVKTVEYHISKALKE 156 (161)
T ss_pred HHHHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34444444577899999999 99999999999876543
No 69
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=60.81 E-value=13 Score=38.62 Aligned_cols=44 Identities=11% Similarity=0.171 Sum_probs=40.1
Q ss_pred CCCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHh
Q 042846 68 GNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTH 111 (243)
Q Consensus 68 ~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~ 111 (243)
..||..|-.+..+++-.|.++.-.|++.++++|-.||-..|.+.
T Consensus 620 d~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtW 663 (907)
T KOG4167|consen 620 DKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTW 663 (907)
T ss_pred ccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHH
Confidence 57999999999999999999999999999999999998775543
No 70
>PF13325 MCRS_N: N-terminal region of micro-spherule protein
Probab=56.00 E-value=17 Score=31.92 Aligned_cols=44 Identities=20% Similarity=0.235 Sum_probs=33.2
Q ss_pred CCChHHHHHHHHHHHHhCCchHHhhcc--C-CCCCHHHHHHHHHHhhc
Q 042846 69 NYTKEEEDTIIRLRQQHGNKWSLIAAK--L-PGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~~Ws~Ia~~--l-pgRT~~q~knrw~~~lk 113 (243)
.|++++|-+|+.+|.. |+.-..|++- | ..-|-.+|..||+.+|-
T Consensus 1 rW~~~DDl~Li~av~~-~~~L~~v~~gvkFS~~fT~~Ei~~RW~~lly 47 (199)
T PF13325_consen 1 RWKPEDDLLLINAVEQ-TNDLESVHLGVKFSCKFTLQEIEERWYALLY 47 (199)
T ss_pred CCCchhhHHHHHHHHH-hcCHHHHHccCCcCCcCcHHHHHHHHHHHHc
Confidence 4999999999988854 5555566553 3 23588999999999885
No 71
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=54.61 E-value=16 Score=37.26 Aligned_cols=51 Identities=14% Similarity=0.443 Sum_probs=40.5
Q ss_pred CCCCChHHHHHHHHHHHHhCCchHHhhc----------cCCCCCHHHHHHHHHHhhccccC
Q 042846 67 HGNYTKEEEDTIIRLRQQHGNKWSLIAA----------KLPGRTDNEIKNYWHTHLKKRKN 117 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G~~Ws~Ia~----------~lpgRT~~q~knrw~~~lkk~~~ 117 (243)
+..||..|++-...+++++|++..+|-+ ...-+|-.|++.+|...+++..+
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~~~~m~k 148 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRLVRRMNK 148 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHHHHHHHh
Confidence 6789999999999999999999988832 22346777898888877765543
No 72
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=53.53 E-value=19 Score=29.82 Aligned_cols=46 Identities=9% Similarity=0.062 Sum_probs=38.5
Q ss_pred hHHHHHHHHHHHHhCC-chHHhhccCCCCCHHHHHHHHHHhhccccCC
Q 042846 72 KEEEDTIIRLRQQHGN-KWSLIAAKLPGRTDNEIKNYWHTHLKKRKNK 118 (243)
Q Consensus 72 ~EED~~Ll~lv~~~G~-~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~k 118 (243)
.+-|..|+.+.++-|. .|++||+.+ |=|...|+.|++.+.+...-+
T Consensus 13 D~~D~~IL~~Lq~d~R~s~~eiA~~l-glS~~tv~~Ri~rL~~~GvI~ 59 (164)
T PRK11169 13 DRIDRNILNELQKDGRISNVELSKRV-GLSPTPCLERVRRLERQGFIQ 59 (164)
T ss_pred HHHHHHHHHHhccCCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCeE
Confidence 4567788888888774 599999999 999999999999988877544
No 73
>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=52.64 E-value=19 Score=27.04 Aligned_cols=31 Identities=19% Similarity=0.355 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhCCchHHhhccCCCCCHHHHHH
Q 042846 75 EDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKN 106 (243)
Q Consensus 75 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~kn 106 (243)
|..|..+...+|..|.++|..| |=+..+|.+
T Consensus 4 d~~l~~ia~~LG~dW~~LA~eL-g~s~~dI~~ 34 (84)
T cd08803 4 DIRMAIVADHLGLSWTELAREL-NFSVDEINQ 34 (84)
T ss_pred HHHHHHHHHHhhccHHHHHHHc-CCCHHHHHH
Confidence 5678888999999999999999 766666554
No 74
>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=52.55 E-value=26 Score=25.88 Aligned_cols=37 Identities=22% Similarity=0.381 Sum_probs=27.4
Q ss_pred HHHHHHHHhCC--------chHHhhccCCC---CC--HHHHHHHHHHhhc
Q 042846 77 TIIRLRQQHGN--------KWSLIAAKLPG---RT--DNEIKNYWHTHLK 113 (243)
Q Consensus 77 ~Ll~lv~~~G~--------~Ws~Ia~~lpg---RT--~~q~knrw~~~lk 113 (243)
.|-.+|...|+ .|..||..|.- -+ ..++|..|..+|.
T Consensus 40 ~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 40 KLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 37777888874 59999998832 12 3689999988774
No 75
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=52.36 E-value=77 Score=30.62 Aligned_cols=44 Identities=23% Similarity=0.327 Sum_probs=39.5
Q ss_pred CCCChHHHHHHHHHHHHhCCchHHhhc-cCCCCCHHHHHHHHHHh
Q 042846 68 GNYTKEEEDTIIRLRQQHGNKWSLIAA-KLPGRTDNEIKNYWHTH 111 (243)
Q Consensus 68 ~~WT~EED~~Ll~lv~~~G~~Ws~Ia~-~lpgRT~~q~knrw~~~ 111 (243)
..|+++|=...-+.++.||+....|.. +++.|+--+|-..|...
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlW 322 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLW 322 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHh
Confidence 579999999999999999999999987 69999999998877543
No 76
>PF11035 SnAPC_2_like: Small nuclear RNA activating complex subunit 2-like; InterPro: IPR021281 This family of proteins is SnAPC subunit 2-like. SnAPC allows the transcription of human small nuclear RNA genes to occur by recognition of the proximal sequence element [].
Probab=52.22 E-value=38 Score=31.90 Aligned_cols=43 Identities=28% Similarity=0.595 Sum_probs=34.7
Q ss_pred CCCCChHHHHHHHHHHHHh-CCc---hHHhhccCCCCCHHHHHHHHH
Q 042846 67 HGNYTKEEEDTIIRLRQQH-GNK---WSLIAAKLPGRTDNEIKNYWH 109 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~-G~~---Ws~Ia~~lpgRT~~q~knrw~ 109 (243)
-..||.-|...|+++.+-. |.. -.+|++.++||+..+|++.-+
T Consensus 21 p~~Ws~rEkr~Llr~Lqar~g~~epd~ael~~~l~~Rs~aEI~~fl~ 67 (344)
T PF11035_consen 21 PAAWSAREKRQLLRLLQARRGQPEPDAAELAKELPGRSEAEIRDFLQ 67 (344)
T ss_pred cccCcHHHHHHHHHHHHHhcCCCCcCHHHHHhhccCcCHHHHHHHHH
Confidence 4589999999888887765 433 578999999999999988554
No 77
>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=51.49 E-value=18 Score=27.16 Aligned_cols=30 Identities=23% Similarity=0.515 Sum_probs=24.3
Q ss_pred HHHHHHHHHHhCCchHHhhccCCCCCHHHHH
Q 042846 75 EDTIIRLRQQHGNKWSLIAAKLPGRTDNEIK 105 (243)
Q Consensus 75 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~k 105 (243)
|+.|..+...+|..|..+|.+| |=|..+|.
T Consensus 2 ~~~L~~la~~LG~~W~~Lar~L-gls~~~I~ 31 (83)
T cd08319 2 DRELNQLAQRLGPEWEQVLLDL-GLSQTDIY 31 (83)
T ss_pred HHHHHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 4668889999999999999999 65655543
No 78
>PF01388 ARID: ARID/BRIGHT DNA binding domain; InterPro: IPR001606 Members of the recently discovered ARID (AT-rich interaction domain; also known as BRIGHT domain)) family of DNA-binding proteins are found in fungi and invertebrate and vertebrate metazoans. ARID-encoding genes are involved in a variety of biological processes including embryonic development, cell lineage gene regulation and cell cycle control. Although the specific roles of this domain and of ARID-containing proteins in transcriptional regulation are yet to be elucidated, they include both positive and negative transcriptional regulation and a likely involvement in the modification of chromatin structure []. The basic structure of the ARID domain domain appears to be a series of six alpha-helices separated by beta-strands, loops, or turns, but the structured region may extend to an additional helix at either or both ends of the basic six. Based on primary sequence homology, they can be partitioned into three structural classes: Minimal ARID proteins that consist of a core domain formed by six alpha helices; ARID proteins that supplement the core domain with an N-terminal alpha-helix; and Extended-ARID proteins, which contain the core domain and additional alpha-helices at their N- and C-termini. The human SWI-SNF complex protein p270 is an ARID family member with non-sequence-specific DNA binding activity. The ARID consensus and other structural features are common to both p270 and yeast SWI1, suggesting that p270 is a human counterpart of SWI1 []. The approximately 100-residue ARID sequence is present in a series of proteins strongly implicated in the regulation of cell growth, development, and tissue-specific gene expression. Although about a dozen ARID proteins can be identified from database searches, to date, only Bright (a regulator of B-cell-specific gene expression), dead ringer (a Drosophila melanogaster gene product required for normal development), and MRF-2 (which represses expression from the Cytomegalovirus enhancer) have been analyzed directly in regard to their DNA binding properties. Each binds preferentially to AT-rich sites. In contrast, p270 shows no sequence preference in its DNA binding activity, thereby demonstrating that AT-rich binding is not an intrinsic property of ARID domains and that ARID family proteins may be involved in a wider range of DNA interactions [].; GO: 0003677 DNA binding, 0005622 intracellular; PDB: 1C20_A 1KQQ_A 2JRZ_A 2LM1_A 2YQE_A 2JXJ_A 2EH9_A 2CXY_A 2LI6_A 1KN5_A ....
Probab=50.48 E-value=11 Score=28.08 Aligned_cols=40 Identities=25% Similarity=0.438 Sum_probs=28.1
Q ss_pred HHHHHHHHHhCC-------CCcccccccccCcc----chhhhhhhhhcccC
Q 042846 23 DKLRAYILKYGH-------WNWGELPKFAGLSR----CGKSCRLRWMNYLR 62 (243)
Q Consensus 23 ~~L~~~V~~~g~-------~nW~~Ia~~l~~~R----t~kqcr~Rw~n~L~ 62 (243)
-.|..+|.+.|. ..|..||+.+|... .+.+++..|.++|.
T Consensus 39 ~~Ly~~V~~~GG~~~V~~~~~W~~va~~lg~~~~~~~~~~~L~~~Y~~~L~ 89 (92)
T PF01388_consen 39 YKLYKAVMKRGGFDKVTKNKKWREVARKLGFPPSSTSAAQQLRQHYEKYLL 89 (92)
T ss_dssp HHHHHHHHHHTSHHHHHHHTTHHHHHHHTTS-TTSCHHHHHHHHHHHHHTH
T ss_pred HHHHHHHHhCcCcccCcccchHHHHHHHhCCCCCCCcHHHHHHHHHHHHhH
Confidence 357778887764 35999999987433 24667888887774
No 79
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=48.75 E-value=15 Score=40.26 Aligned_cols=72 Identities=19% Similarity=0.283 Sum_probs=46.4
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccc--cccCccchhhhhhhhhcccCCCCCCCCCChHHHHHHHHHHHHh-CCchH
Q 042846 14 KGAWSKEEDDKLRAYILKYGHWNWGELPK--FAGLSRCGKSCRLRWMNYLRPDIKHGNYTKEEEDTIIRLRQQH-GNKWS 90 (243)
Q Consensus 14 Kg~WT~EED~~L~~~V~~~g~~nW~~Ia~--~l~~~Rt~kqcr~Rw~n~L~p~i~r~~WT~EED~~Ll~lv~~~-G~~Ws 90 (243)
---|..++|.+|+-+|-+||-++|.+|-. .|+ =+.+ ..+.-.+..+.+=...-..|+.+...+ +.+|.
T Consensus 1133 ~~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~--l~dK-------i~~~e~~P~a~~L~~R~~yLls~~~~~~~~~~~ 1203 (1373)
T KOG0384|consen 1133 DCDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLG--LTDK-------IFLVETVPQAKHLQRRADYLLSLLRKHDKGNTP 1203 (1373)
T ss_pred ccCCCchhhhhHhhhhhhcccccHHHhccCcccc--chhh-------hcccccCCchHHHHHHHHHHHHHHhhcccCCCc
Confidence 34599999999999999999999998843 222 1111 011111344555566667777777766 55565
Q ss_pred Hhhc
Q 042846 91 LIAA 94 (243)
Q Consensus 91 ~Ia~ 94 (243)
+..+
T Consensus 1204 ~~~~ 1207 (1373)
T KOG0384|consen 1204 KKLK 1207 (1373)
T ss_pred hhhh
Confidence 5443
No 80
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=47.97 E-value=25 Score=35.64 Aligned_cols=46 Identities=20% Similarity=0.398 Sum_probs=42.2
Q ss_pred CCCCCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHh
Q 042846 66 KHGNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTH 111 (243)
Q Consensus 66 ~r~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~ 111 (243)
..+.|+.+|-++.-....+.|.+-+-|+..+|+|...|||.++..-
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~l~p~R~rk~iK~K~~~e 453 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISNLFPLRDRKQIKAKFKKE 453 (584)
T ss_pred ccCcccchhhHHhhhHHhhhcccccccccccccccHHHHHHHHhhh
Confidence 4568999999999999999999999999999999999999998643
No 81
>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=47.33 E-value=47 Score=27.73 Aligned_cols=47 Identities=17% Similarity=0.233 Sum_probs=38.6
Q ss_pred CCCCCChHHHHHHHHHHHHhCCchHHhhccCC----CCCHHHHHHHHHHhh
Q 042846 66 KHGNYTKEEEDTIIRLRQQHGNKWSLIAAKLP----GRTDNEIKNYWHTHL 112 (243)
Q Consensus 66 ~r~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lp----gRT~~q~knrw~~~l 112 (243)
....-|..|...|..|++.||.++.+++.-.. -.|..||+.+.....
T Consensus 113 ~~~~ls~~e~~~i~~Li~KhGdDy~aMarD~KLN~~Q~T~~qlrrki~~~k 163 (164)
T PF09420_consen 113 KPRRLSEREIEYIEYLIEKHGDDYKAMARDRKLNYMQHTPGQLRRKIRKYK 163 (164)
T ss_pred CCCCCCHHHHHHHHHHHHHHCccHHHHhccCCCCcccCCHHHHHHHHHHhc
Confidence 44578899999999999999999999997432 489999998876543
No 82
>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=47.18 E-value=19 Score=26.66 Aligned_cols=30 Identities=20% Similarity=0.529 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhCCchHHhhccCCCCCHHHHH
Q 042846 75 EDTIIRLRQQHGNKWSLIAAKLPGRTDNEIK 105 (243)
Q Consensus 75 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~k 105 (243)
|..|..+.+..|..|.++|..| |=+..+|.
T Consensus 4 ~~~l~~ia~~lG~dW~~LAr~L-g~~~~dI~ 33 (84)
T cd08317 4 DIRLADISNLLGSDWPQLAREL-GVSETDID 33 (84)
T ss_pred cchHHHHHHHHhhHHHHHHHHc-CCCHHHHH
Confidence 4567888899999999999999 66655544
No 83
>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=46.98 E-value=29 Score=26.41 Aligned_cols=35 Identities=29% Similarity=0.297 Sum_probs=26.7
Q ss_pred HHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 79 IRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 79 l~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
+.++-..|..+.+||+.+ |=+...|+++.+..+++
T Consensus 119 i~~~~~~g~s~~eIA~~l-~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 119 LVLRYLEGLSYKEIAEIL-GISVGTVKRRLKRARKK 153 (158)
T ss_pred HhhHHhcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 344444678899999999 77999999988876554
No 84
>smart00501 BRIGHT BRIGHT, ARID (A/T-rich interaction domain) domain. DNA-binding domain containing a helix-turn-helix structure
Probab=45.94 E-value=34 Score=25.58 Aligned_cols=38 Identities=26% Similarity=0.430 Sum_probs=28.0
Q ss_pred HHHHHHHHhCC--------chHHhhccCCC-----CCHHHHHHHHHHhhcc
Q 042846 77 TIIRLRQQHGN--------KWSLIAAKLPG-----RTDNEIKNYWHTHLKK 114 (243)
Q Consensus 77 ~Ll~lv~~~G~--------~Ws~Ia~~lpg-----RT~~q~knrw~~~lkk 114 (243)
.|..+|...|+ .|..|+..|.- ....++|..|...|.+
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 36777888774 69999998733 2357889999887754
No 85
>PF10545 MADF_DNA_bdg: Alcohol dehydrogenase transcription factor Myb/SANT-like; InterPro: IPR006578 The MADF (myb/SANT-like domain in Adf-1) domain is an approximately 80-amino-acid module that directs sequence specific DNA binding to a site consisting of multiple tri-nucleotide repeats. The MADF domain is found in one or more copies in eukaryotic and viral proteins and is often associated with the BESS domain []. MADF is related to the Myb DNA-binding domain (IPR001005 from INTERPRO). The retroviral oncogene v-myb, and its cellular counterpart c-myb, are nuclear DNA-binding proteins that specifically recognise the sequence YAAC(G/T)G. It is likely that the MADF domain is more closely related to the myb/SANT domain than it is to other HTH domains. Some proteins known to contain a MADF domain are listed below: Drosophila Adf-1, a transcription factor first identified on the basis of its interaction with the alcohol dehydrogenase promoter but that binds the promoters of a diverse group of genes []. Drosophila Dorsal-interacting protein 3 (Dip3), which functions both as an activator to bind DNA in a sequence specific manner and a coactivator to stimulate synergistic activation by Dorsal and Twist []. Drosophila Stonewall (Stwl), a putative transcription factor required for maintenance of female germline stem cells as well as oocyte differentiation.
Probab=44.83 E-value=16 Score=25.94 Aligned_cols=25 Identities=24% Similarity=0.441 Sum_probs=20.4
Q ss_pred hHHhhccCCC-CCHHHHHHHHHHhhc
Q 042846 89 WSLIAAKLPG-RTDNEIKNYWHTHLK 113 (243)
Q Consensus 89 Ws~Ia~~lpg-RT~~q~knrw~~~lk 113 (243)
|..||..|.+ -+..+|+.+|.++-.
T Consensus 29 w~~Ia~~l~~~~~~~~~~~~w~~Lr~ 54 (85)
T PF10545_consen 29 WQEIARELGKEFSVDDCKKRWKNLRD 54 (85)
T ss_pred HHHHHHHHccchhHHHHHHHHHHHHH
Confidence 9999999953 578899999987654
No 86
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=43.66 E-value=17 Score=39.20 Aligned_cols=47 Identities=26% Similarity=0.241 Sum_probs=35.4
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCccccccccc-----------Cccchhhhhhhhhc
Q 042846 13 KKGAWSKEEDDKLRAYILKYGHWNWGELPKFAG-----------LSRCGKSCRLRWMN 59 (243)
Q Consensus 13 kKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~-----------~~Rt~kqcr~Rw~n 59 (243)
++..+|.|||..|+-.+.+||-++|.+|-..+. ..||+..+..|-..
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~ 982 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDT 982 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHH
Confidence 445699999999999999999999998854331 25777666666543
No 87
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=42.82 E-value=37 Score=27.30 Aligned_cols=33 Identities=18% Similarity=0.232 Sum_probs=25.1
Q ss_pred HHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 81 LRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 81 lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
+....|-...+||..| |-+...|+++.+..+++
T Consensus 139 l~~~~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 171 (182)
T PRK09652 139 LREIEGLSYEEIAEIM-GCPIGTVRSRIFRAREA 171 (182)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3334567899999999 89999999887755443
No 88
>KOG2009 consensus Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=42.04 E-value=28 Score=35.20 Aligned_cols=48 Identities=10% Similarity=0.277 Sum_probs=43.2
Q ss_pred CCCccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhc
Q 042846 10 NGMKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMN 59 (243)
Q Consensus 10 ~~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n 59 (243)
+....++|+.+|-++...+....|. +...|+...+ +|..+|++.++..
T Consensus 405 k~~~~~~w~~se~e~fyka~~~~gs-~~slis~l~p-~R~rk~iK~K~~~ 452 (584)
T KOG2009|consen 405 KKLETDKWDASETELFYKALSERGS-DFSLISNLFP-LRDRKQIKAKFKK 452 (584)
T ss_pred CccccCcccchhhHHhhhHHhhhcc-cccccccccc-cccHHHHHHHHhh
Confidence 4456789999999999999999998 9999999998 9999999998864
No 89
>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=41.73 E-value=31 Score=25.80 Aligned_cols=27 Identities=30% Similarity=0.588 Sum_probs=21.5
Q ss_pred HHHHHHHhCCchHHhhccCCCCCHHHHH
Q 042846 78 IIRLRQQHGNKWSLIAAKLPGRTDNEIK 105 (243)
Q Consensus 78 Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~k 105 (243)
|..+....|..|.++|..| |=+..+|.
T Consensus 10 l~~ia~~iG~~Wk~Lar~L-Gls~~dI~ 36 (86)
T cd08318 10 ITVFANKLGEDWKTLAPHL-EMKDKEIR 36 (86)
T ss_pred HHHHHHHHhhhHHHHHHHc-CCCHHHHH
Confidence 3346688999999999999 77777764
No 90
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=40.63 E-value=40 Score=26.99 Aligned_cols=29 Identities=21% Similarity=0.205 Sum_probs=23.6
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
..|-...+||..| |-|...|+++.+...+
T Consensus 139 ~~~~~~~eIA~~l-gis~~tv~~~~~ra~~ 167 (179)
T PRK11924 139 VEGLSYREIAEIL-GVPVGTVKSRLRRARQ 167 (179)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3566799999999 8999999998876544
No 91
>KOG2656 consensus DNA methyltransferase 1-associated protein-1 [Chromatin structure and dynamics; Transcription]
Probab=40.19 E-value=24 Score=34.14 Aligned_cols=50 Identities=20% Similarity=0.260 Sum_probs=42.3
Q ss_pred CCccCCCCHHHHHHHHHHHHHhCCCCccccccc-----ccCccchhhhhhhhhccc
Q 042846 11 GMKKGAWSKEEDDKLRAYILKYGHWNWGELPKF-----AGLSRCGKSCRLRWMNYL 61 (243)
Q Consensus 11 ~lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~-----l~~~Rt~kqcr~Rw~n~L 61 (243)
-++-..||.+|-+-|.++.++|.- .|-.||-. .+..||-...++||..+.
T Consensus 127 ~l~dn~WskeETD~LF~lck~fDL-Rf~VIaDRyd~qq~~~sRTvEdLKeRyY~v~ 181 (445)
T KOG2656|consen 127 HLNDNSWSKEETDYLFDLCKRFDL-RFFVIADRYDNQQYKKSRTVEDLKERYYSVC 181 (445)
T ss_pred hhccccccHHHHHHHHHHHHhcCe-eEEEEeeccchhhccccccHHHHHHHHHHHH
Confidence 345578999999999999999997 89888865 664699999999998664
No 92
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=40.05 E-value=76 Score=24.94 Aligned_cols=45 Identities=11% Similarity=0.162 Sum_probs=32.3
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhccc
Q 042846 13 KKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYL 61 (243)
Q Consensus 13 kKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L 61 (243)
++..||.|+-..++..+...|. .=..||+.+|. +.. -..+|.+.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~~g~-sv~evA~e~gI--s~~-tl~~W~r~y 53 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFEPGM-TVSLVARQHGV--AAS-QLFLWRKQY 53 (121)
T ss_pred CCCCCCHHHHHHHHHHHHcCCC-CHHHHHHHHCc--CHH-HHHHHHHHH
Confidence 4578999998888777777775 66788988883 433 445576654
No 93
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=39.43 E-value=18 Score=36.87 Aligned_cols=47 Identities=17% Similarity=0.384 Sum_probs=37.1
Q ss_pred cCCCCHHHHHHHHHHHHHhCCCCcccccc----------cccCccchhhhhhhhhcccC
Q 042846 14 KGAWSKEEDDKLRAYILKYGHWNWGELPK----------FAGLSRCGKSCRLRWMNYLR 62 (243)
Q Consensus 14 Kg~WT~EED~~L~~~V~~~g~~nW~~Ia~----------~l~~~Rt~kqcr~Rw~n~L~ 62 (243)
|..||..|..-+..+++.+|. +..+|-+ ... -++..|+|..|++.++
T Consensus 88 ktaWt~~E~~~Ffdal~~~GK-dFe~VinaklKRrna~s~~~-~Ktkdqvr~~yY~~~~ 144 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGK-DFEKVINAKLKRRNATSRVQ-SKTKDQVRHYYYRLVR 144 (782)
T ss_pred ccccchhhHHHHHHHHHHhcc-cHHHHHHHHHHhcccccchh-hhhhHHHHHHHHHHHH
Confidence 678999999999999999998 8888722 222 3566889998887654
No 94
>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=39.16 E-value=34 Score=25.51 Aligned_cols=31 Identities=23% Similarity=0.483 Sum_probs=25.1
Q ss_pred HHHHHHHHHHhCCchHHhhccCCCCCHHHHHH
Q 042846 75 EDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKN 106 (243)
Q Consensus 75 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~kn 106 (243)
|..|-.+.+.+|.+|.++|+.| |=+..+|.+
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 4567788899999999999999 677766654
No 95
>PRK09643 RNA polymerase sigma factor SigM; Reviewed
Probab=38.36 E-value=48 Score=27.75 Aligned_cols=31 Identities=16% Similarity=0.111 Sum_probs=24.5
Q ss_pred HHHhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 82 RQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 82 v~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
....|....+||..| |-+...|++|.....+
T Consensus 146 ~~~~g~s~~EIA~~l-g~s~~tV~~rl~rar~ 176 (192)
T PRK09643 146 VDMQGYSVADAARML-GVAEGTVKSRCARGRA 176 (192)
T ss_pred HHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 334567799999999 9999999999865443
No 96
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=36.91 E-value=72 Score=23.92 Aligned_cols=45 Identities=18% Similarity=0.175 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHhCC-chHHhhccCCCCCHHHHHHHHHHhhccccCC
Q 042846 73 EEEDTIIRLRQQHGN-KWSLIAAKLPGRTDNEIKNYWHTHLKKRKNK 118 (243)
Q Consensus 73 EED~~Ll~lv~~~G~-~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~k 118 (243)
+.|..|+.+....|. .+++||+.+ |-+...|..+.+.+.+...-+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l-~~s~~tv~~~l~~L~~~g~i~ 48 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKV-GLSPSTVHNRVKRLEEEGVIK 48 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CcCHHHHHHHHHHHHHCCCee
Confidence 567788888888774 699999999 999999999999888876544
No 97
>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=36.84 E-value=34 Score=25.33 Aligned_cols=33 Identities=27% Similarity=0.591 Sum_probs=25.1
Q ss_pred hHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHH
Q 042846 72 KEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKN 106 (243)
Q Consensus 72 ~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~kn 106 (243)
.||-++|+.. -..|.+|..+|..| |=+..+|++
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 5777777732 25788999999999 777777765
No 98
>PRK04217 hypothetical protein; Provisional
Probab=36.70 E-value=58 Score=25.80 Aligned_cols=45 Identities=20% Similarity=0.109 Sum_probs=36.0
Q ss_pred CCCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 68 GNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 68 ~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
..-|.+| ..++.+....|-.-.+||+.+ |-+...|+.+++...++
T Consensus 41 ~~Lt~ee-reai~l~~~eGlS~~EIAk~L-GIS~sTV~r~L~RArkk 85 (110)
T PRK04217 41 IFMTYEE-FEALRLVDYEGLTQEEAGKRM-GVSRGTVWRALTSARKK 85 (110)
T ss_pred ccCCHHH-HHHHHHHHHcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3456666 577788888888999999999 99999999999865543
No 99
>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=36.55 E-value=73 Score=19.65 Aligned_cols=37 Identities=27% Similarity=0.386 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHh
Q 042846 74 EEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTH 111 (243)
Q Consensus 74 ED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~ 111 (243)
++..++.++-..|..+.+||..+ |=+...|+.+.+..
T Consensus 14 ~~~~~~~~~~~~~~~~~~ia~~~-~~s~~~i~~~~~~~ 50 (55)
T cd06171 14 REREVILLRFGEGLSYEEIAEIL-GISRSTVRQRLHRA 50 (55)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHH-CcCHHHHHHHHHHH
Confidence 34555566656778899999998 77888887766544
No 100
>PRK09641 RNA polymerase sigma factor SigW; Provisional
Probab=35.98 E-value=53 Score=26.82 Aligned_cols=28 Identities=14% Similarity=0.041 Sum_probs=22.8
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
.|....+||..| |-|...|+++.+...+
T Consensus 151 ~~~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T PRK09641 151 EDLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 466789999999 9999999998765544
No 101
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=35.89 E-value=68 Score=24.66 Aligned_cols=70 Identities=13% Similarity=0.339 Sum_probs=39.9
Q ss_pred cCCCCHHHHHHHHHHHHHh----CC---CCcccccc----cccCccchhh-------hhhhhhcccCCCCCCC---CCCh
Q 042846 14 KGAWSKEEDDKLRAYILKY----GH---WNWGELPK----FAGLSRCGKS-------CRLRWMNYLRPDIKHG---NYTK 72 (243)
Q Consensus 14 Kg~WT~EED~~L~~~V~~~----g~---~nW~~Ia~----~l~~~Rt~kq-------cr~Rw~n~L~p~i~r~---~WT~ 72 (243)
...||++++-.|++++..| |. .++..+.. .+...=+..| .+.||.+.+.. .+.| .++.
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~Ky~~~~~k-~~~g~~~~~~~ 82 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKKYRNAVKK-SKNGKDPSFSK 82 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHhhh-cccCcCCCCCC
Confidence 4579999999999999888 53 13433222 2221122233 34466655544 2222 5677
Q ss_pred HHHHHHHHHHHH
Q 042846 73 EEEDTIIRLRQQ 84 (243)
Q Consensus 73 EED~~Ll~lv~~ 84 (243)
.-|..+.+|-+.
T Consensus 83 ~hd~~~f~Lsk~ 94 (98)
T PF04504_consen 83 PHDRRLFELSKK 94 (98)
T ss_pred HhHHHHHHHHHH
Confidence 777777766543
No 102
>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=35.73 E-value=41 Score=24.35 Aligned_cols=30 Identities=27% Similarity=0.584 Sum_probs=21.9
Q ss_pred HHHHHHHHHH-hCCchHHhhccCCCCCHHHHH
Q 042846 75 EDTIIRLRQQ-HGNKWSLIAAKLPGRTDNEIK 105 (243)
Q Consensus 75 D~~Ll~lv~~-~G~~Ws~Ia~~lpgRT~~q~k 105 (243)
.+.|..++.. .|..|..+|..| |=+..+|.
T Consensus 5 ~~~~~~l~~~~~g~~W~~la~~L-g~~~~~i~ 35 (88)
T smart00005 5 REKLAKLLDHPLGLDWRELARKL-GLSEADID 35 (88)
T ss_pred HHHHHHHHcCccchHHHHHHHHc-CCCHHHHH
Confidence 4556667777 899999999999 44555543
No 103
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=35.70 E-value=56 Score=22.37 Aligned_cols=35 Identities=26% Similarity=0.445 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHH
Q 042846 73 EEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYW 108 (243)
Q Consensus 73 EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw 108 (243)
+.|+..+.+..+.|-.=.+||+.+ ||+-+.|++.-
T Consensus 7 ~~Eqaqid~m~qlG~s~~~isr~i-~RSr~~Ir~yl 41 (50)
T PF11427_consen 7 DAEQAQIDVMHQLGMSLREISRRI-GRSRTCIRRYL 41 (50)
T ss_dssp HHHHHHHHHHHHTT--HHHHHHHH-T--HHHHHHHH
T ss_pred HHHHHHHHHHHHhchhHHHHHHHh-CccHHHHHHHh
Confidence 456667788889999999999999 99999888754
No 104
>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=35.30 E-value=39 Score=25.42 Aligned_cols=30 Identities=40% Similarity=0.623 Sum_probs=23.8
Q ss_pred HHHHHHHHHhCCchHHhhccCCCCCHHHHHH
Q 042846 76 DTIIRLRQQHGNKWSLIAAKLPGRTDNEIKN 106 (243)
Q Consensus 76 ~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~kn 106 (243)
+-|-.+....|.+|..+|..| |=+..+|..
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 345566688999999999999 777777765
No 105
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=35.11 E-value=48 Score=25.55 Aligned_cols=47 Identities=17% Similarity=0.128 Sum_probs=30.4
Q ss_pred CCCChHHHHHHHHHHHHh----CC----chHHhhcc----CCC-CCHHHHHHHHHHhhcc
Q 042846 68 GNYTKEEEDTIIRLRQQH----GN----KWSLIAAK----LPG-RTDNEIKNYWHTHLKK 114 (243)
Q Consensus 68 ~~WT~EED~~Ll~lv~~~----G~----~Ws~Ia~~----lpg-RT~~q~knrw~~~lkk 114 (243)
..||+|+|..||+.+..| |. .|..+-.. |.- =+.+|+.++-+.+-++
T Consensus 5 R~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrLK~K 64 (98)
T PF04504_consen 5 RLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRLKKK 64 (98)
T ss_pred CCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHHHHH
Confidence 369999999999998776 52 35444333 322 3677887776654443
No 106
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=35.03 E-value=60 Score=27.20 Aligned_cols=35 Identities=20% Similarity=0.302 Sum_probs=27.3
Q ss_pred HHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhh
Q 042846 77 TIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHL 112 (243)
Q Consensus 77 ~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~l 112 (243)
.++.+....|-.+.+||..| |-|...|+.+|...-
T Consensus 142 ~~v~l~~~~Gls~~EIA~~l-giS~~tV~r~l~~aR 176 (185)
T PF07638_consen 142 RVVELRFFEGLSVEEIAERL-GISERTVRRRLRRAR 176 (185)
T ss_pred HHHHHHHHCCCCHHHHHHHH-CcCHHHHHHHHHHHH
Confidence 34444445677899999999 999999999997653
No 107
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=34.81 E-value=30 Score=26.05 Aligned_cols=44 Identities=20% Similarity=0.148 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCC
Q 042846 20 EEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDI 65 (243)
Q Consensus 20 EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i 65 (243)
+.|.+|+.++...+...+..||+.+| -+...|+.|........+
T Consensus 3 ~~D~~il~~L~~~~~~~~~~la~~l~--~s~~tv~~~l~~L~~~g~ 46 (108)
T smart00344 3 EIDRKILEELQKDARISLAELAKKVG--LSPSTVHNRVKRLEEEGV 46 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--cCHHHHHHHHHHHHHCCC
Confidence 56889999999998889999999997 888899998887665443
No 108
>PRK09047 RNA polymerase factor sigma-70; Validated
Probab=34.70 E-value=66 Score=25.51 Aligned_cols=31 Identities=13% Similarity=0.080 Sum_probs=24.4
Q ss_pred HHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 83 QQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 83 ~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
...|-.-.+||..| |-+...|+++.+..+++
T Consensus 119 ~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 149 (161)
T PRK09047 119 YWEDMDVAETAAAM-GCSEGSVKTHCSRATHA 149 (161)
T ss_pred HHhcCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 33566789999999 99999999998765543
No 109
>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=34.21 E-value=44 Score=25.18 Aligned_cols=26 Identities=23% Similarity=0.377 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhCCchHHhhccCCCCCH
Q 042846 75 EDTIIRLRQQHGNKWSLIAAKLPGRTD 101 (243)
Q Consensus 75 D~~Ll~lv~~~G~~Ws~Ia~~lpgRT~ 101 (243)
|..|..+.+.+|..|.++|..| |=+.
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 4567788899999999999988 4443
No 110
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=33.74 E-value=61 Score=26.18 Aligned_cols=30 Identities=30% Similarity=0.446 Sum_probs=23.0
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
..|-...+||..| |-|...|+++....+++
T Consensus 133 ~~g~s~~eiA~~l-gis~~tv~~~l~Ra~~~ 162 (169)
T TIGR02954 133 YHDLTIKEIAEVM-NKPEGTVKTYLHRALKK 162 (169)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3456788899888 78999999988765543
No 111
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=33.36 E-value=40 Score=21.90 Aligned_cols=36 Identities=31% Similarity=0.446 Sum_probs=18.2
Q ss_pred CCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHH
Q 042846 69 NYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKN 106 (243)
Q Consensus 69 ~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~kn 106 (243)
.+|.+|-..|..+ ..-|..=.+||+.| ||+..-|.+
T Consensus 4 ~Lt~~eR~~I~~l-~~~G~s~~~IA~~l-g~s~sTV~r 39 (44)
T PF13936_consen 4 HLTPEERNQIEAL-LEQGMSIREIAKRL-GRSRSTVSR 39 (44)
T ss_dssp --------HHHHH-HCS---HHHHHHHT-T--HHHHHH
T ss_pred chhhhHHHHHHHH-HHcCCCHHHHHHHH-CcCcHHHHH
Confidence 4666666666655 46788889999999 999988765
No 112
>TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE. A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU.
Probab=33.14 E-value=49 Score=27.08 Aligned_cols=29 Identities=10% Similarity=0.082 Sum_probs=22.8
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
.|....+||..| |=|.+.|+++.+...++
T Consensus 153 ~~~s~~EIA~~l-gis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 153 EGLSYEDIARIM-DCPVGTVRSRIFRAREA 181 (190)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 355689999999 88899999998765543
No 113
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=32.99 E-value=57 Score=26.59 Aligned_cols=28 Identities=14% Similarity=0.041 Sum_probs=22.1
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
.|..-.+||..| |-+.+.|+++.+...+
T Consensus 151 ~g~s~~eIA~~l-gis~~~v~~~l~Rar~ 178 (187)
T TIGR02948 151 EDLSLKEISEIL-DLPVGTVKTRIHRGRE 178 (187)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 356689999998 8899999998875544
No 114
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=32.11 E-value=72 Score=26.14 Aligned_cols=30 Identities=23% Similarity=0.266 Sum_probs=23.9
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
..|....+||..| |-+...|+.+.+..+++
T Consensus 145 ~~g~s~~eIA~~l-~is~~tV~~~l~ra~~~ 174 (184)
T PRK12512 145 VEGASIKETAAKL-SMSEGAVRVALHRGLAA 174 (184)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3466789999999 99999999998765553
No 115
>PRK09637 RNA polymerase sigma factor SigZ; Provisional
Probab=31.94 E-value=69 Score=26.60 Aligned_cols=33 Identities=27% Similarity=0.164 Sum_probs=25.2
Q ss_pred HHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 81 LRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 81 lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
+....|-...+||..| |-+...|+++.....++
T Consensus 117 l~~~~g~~~~EIA~~l-gis~~tV~~~l~Rar~~ 149 (181)
T PRK09637 117 LTELEGLSQKEIAEKL-GLSLSGAKSRVQRGRVK 149 (181)
T ss_pred HHHhcCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 3334567799999999 99999999998755443
No 116
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=31.77 E-value=28 Score=27.79 Aligned_cols=44 Identities=11% Similarity=0.093 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhcccCCCC
Q 042846 20 EEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMNYLRPDI 65 (243)
Q Consensus 20 EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n~L~p~i 65 (243)
+=|.+++.++++.+...+..||+.+| -+...|+.|-.+..+..+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~lg--lS~~~v~~Ri~~L~~~Gi 51 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERVG--LSPSTVLRRIKRLEEEGV 51 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHC--CCHHHHHHHHHHHHHCCc
Confidence 55889999999999989999999997 888899998887765544
No 117
>PRK12523 RNA polymerase sigma factor; Reviewed
Probab=31.62 E-value=76 Score=25.78 Aligned_cols=35 Identities=20% Similarity=0.358 Sum_probs=26.8
Q ss_pred HHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 79 IRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 79 l~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
+.+....|-...+||..| |-+...|+.+-+..+++
T Consensus 128 ~~L~~~~g~s~~EIA~~l-gis~~tV~~~l~ra~~~ 162 (172)
T PRK12523 128 FLYNRLDGMGHAEIAERL-GVSVSRVRQYLAQGLRQ 162 (172)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 344444567899999999 99999999988766554
No 118
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=31.43 E-value=78 Score=25.23 Aligned_cols=29 Identities=10% Similarity=-0.048 Sum_probs=23.1
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
..|-.-.+||..| |-+...|+++-+...+
T Consensus 120 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 148 (160)
T PRK09642 120 LEEKSYQEIALQE-KIEVKTVEMKLYRARK 148 (160)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466789999999 9999999998765544
No 119
>cd08779 Death_PIDD Death Domain of p53-induced protein with a death domain. Death domain (DD) found in PIDD (p53-induced protein with a death domain) and similar proteins. PIDD is a component of the PIDDosome complex, which is an oligomeric caspase-activating complex involved in caspase-2 activation and plays a role in mediating stress-induced apoptosis. The PIDDosome complex is composed of three components, PIDD, RAIDD and caspase-2, which interact through their DDs and DD-like domains. The DD of PIDD interacts with the DD of RAIDD, which also contains a Caspase Activation and Recruitment Domain (CARD) that interacts with the caspase-2 CARD. Autoproteolysis of PIDD determines the downstream signaling event, between pro-survival NF-kB or pro-death caspase-2 activation. In general, DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members
Probab=31.07 E-value=45 Score=24.95 Aligned_cols=21 Identities=19% Similarity=0.515 Sum_probs=18.9
Q ss_pred HHHHHHHHHhCCchHHhhccC
Q 042846 76 DTIIRLRQQHGNKWSLIAAKL 96 (243)
Q Consensus 76 ~~Ll~lv~~~G~~Ws~Ia~~l 96 (243)
.-|..+....|..|..+|.+|
T Consensus 3 ~~l~~ia~~LG~~Wk~lar~L 23 (86)
T cd08779 3 SNLLSIAGRLGLDWQAIGLHL 23 (86)
T ss_pred hHHHHHHHHHhHHHHHHHHHc
Confidence 457889999999999999998
No 120
>PRK12529 RNA polymerase sigma factor; Provisional
Probab=31.04 E-value=79 Score=26.01 Aligned_cols=35 Identities=23% Similarity=0.168 Sum_probs=27.1
Q ss_pred HHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhccc
Q 042846 80 RLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115 (243)
Q Consensus 80 ~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk~ 115 (243)
.|+...|-...+||..| |-+.+.||.|.+..+.+-
T Consensus 137 ~L~~~~g~s~~EIA~~l-gis~~tVk~~l~rAl~~~ 171 (178)
T PRK12529 137 LMATLDGMKQKDIAQAL-DIALPTVKKYIHQAYVTC 171 (178)
T ss_pred HHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 33344567899999999 999999999988766543
No 121
>PRK12530 RNA polymerase sigma factor; Provisional
Probab=30.28 E-value=79 Score=26.35 Aligned_cols=29 Identities=3% Similarity=-0.158 Sum_probs=23.7
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
..|-...+||..| |-+...||.|.+...+
T Consensus 148 ~~g~s~~EIA~~l-gis~~tVk~~l~RAr~ 176 (189)
T PRK12530 148 YLELSSEQICQEC-DISTSNLHVLLYRARL 176 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466799999999 9999999999765544
No 122
>PRK12515 RNA polymerase sigma factor; Provisional
Probab=29.98 E-value=83 Score=26.01 Aligned_cols=29 Identities=14% Similarity=0.146 Sum_probs=23.5
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
..|-...+||..| |-|...|+++.+..++
T Consensus 145 ~~~~s~~eIA~~l-gis~~tV~~~l~Rar~ 173 (189)
T PRK12515 145 YHEKSVEEVGEIV-GIPESTVKTRMFYARK 173 (189)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3466789999999 8899999999876554
No 123
>PRK09645 RNA polymerase sigma factor SigL; Provisional
Probab=29.78 E-value=84 Score=25.41 Aligned_cols=29 Identities=31% Similarity=0.384 Sum_probs=23.0
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
..|-.-.+||..| |.+...|+.+.+..++
T Consensus 132 ~~g~s~~EIA~~l-gis~~tV~~~l~ra~~ 160 (173)
T PRK09645 132 YRGWSTAQIAADL-GIPEGTVKSRLHYALR 160 (173)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 3456689999999 9999999999875554
No 124
>PRK11923 algU RNA polymerase sigma factor AlgU; Provisional
Probab=29.62 E-value=73 Score=26.31 Aligned_cols=28 Identities=11% Similarity=0.101 Sum_probs=21.9
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
.|-...+||..| |-|.+.|+++.+...+
T Consensus 153 ~g~s~~eIA~~l-gis~~tv~~~l~Rar~ 180 (193)
T PRK11923 153 DGLSYEDIASVM-QCPVGTVRSRIFRARE 180 (193)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 355688999998 8889999998865544
No 125
>COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]
Probab=29.56 E-value=55 Score=28.22 Aligned_cols=48 Identities=21% Similarity=0.173 Sum_probs=38.3
Q ss_pred CCCChHHHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhccccCC
Q 042846 68 GNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKKRKNK 118 (243)
Q Consensus 68 ~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~k 118 (243)
...|+.|-+.|.-+.+ |..=.+||..| +.|..-||+|..++++|-.-+
T Consensus 147 ~~LT~RE~eVL~lla~--G~snkeIA~~L-~iS~~TVk~h~~~i~~KL~v~ 194 (211)
T COG2197 147 ELLTPRELEVLRLLAE--GLSNKEIAEEL-NLSEKTVKTHVSNILRKLGVR 194 (211)
T ss_pred CCCCHHHHHHHHHHHC--CCCHHHHHHHH-CCCHhHHHHHHHHHHHHcCCC
Confidence 3688888887765554 55567999999 999999999999999875433
No 126
>COG2963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=29.49 E-value=1.3e+02 Score=23.06 Aligned_cols=46 Identities=17% Similarity=0.227 Sum_probs=37.3
Q ss_pred CCCCChHHHHHHHHHHHHhCCchHHhhccCCCC-CHHHHHHHHHHhhc
Q 042846 67 HGNYTKEEEDTIIRLRQQHGNKWSLIAAKLPGR-TDNEIKNYWHTHLK 113 (243)
Q Consensus 67 r~~WT~EED~~Ll~lv~~~G~~Ws~Ia~~lpgR-T~~q~knrw~~~lk 113 (243)
+..||.|.-..+++++..-|..=+.||+.+ |- .+++++..++.+..
T Consensus 5 ~r~~s~EfK~~iv~~~~~~g~sv~~vAr~~-gv~~~~~l~~W~~~~~~ 51 (116)
T COG2963 5 RKKYSPEFKLEAVALYLRGGDTVSEVAREF-GIVSATQLYKWRIQLQK 51 (116)
T ss_pred cccCCHHHHHHHHHHHHhcCccHHHHHHHh-CCCChHHHHHHHHHHHH
Confidence 568999999999999999999899999999 75 77777655544444
No 127
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=29.32 E-value=45 Score=32.97 Aligned_cols=45 Identities=11% Similarity=0.159 Sum_probs=39.2
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccchhhhhhhhhc
Q 042846 13 KKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRCGKSCRLRWMN 59 (243)
Q Consensus 13 kKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt~kqcr~Rw~n 59 (243)
....||.||--++.++...||. +..+|-+.|+ .|+-.+++.=|..
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK-~F~kIrq~LP-~rsLaSlvqyYy~ 230 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGK-DFHKIRQALP-HRSLASLVQYYYS 230 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcc-cHHHHHHHcc-CccHHHHHHHHHH
Confidence 4567999999999999999998 9999999998 8999888775543
No 128
>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=29.24 E-value=88 Score=26.08 Aligned_cols=34 Identities=12% Similarity=0.022 Sum_probs=25.7
Q ss_pred HHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 80 RLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 80 ~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
.++...|..-.+||..| |-|.+.|+.|....+++
T Consensus 141 ~l~~~~g~s~~EIA~~l-gis~~tvk~rl~Rar~~ 174 (188)
T TIGR02943 141 MMREVLGFESDEICQEL-EISTSNCHVLLYRARLS 174 (188)
T ss_pred HHHHHhCCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 33334567789999999 99999999998765543
No 129
>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=28.66 E-value=70 Score=26.68 Aligned_cols=48 Identities=17% Similarity=0.193 Sum_probs=36.4
Q ss_pred CccCCCCHHHHHHHHHHHHHhCCCCccccccccc---Cccchhhhhhhhhcc
Q 042846 12 MKKGAWSKEEDDKLRAYILKYGHWNWGELPKFAG---LSRCGKSCRLRWMNY 60 (243)
Q Consensus 12 lkKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~---~~Rt~kqcr~Rw~n~ 60 (243)
.+...=|..|.+.|..+|.+||. +....+.-.. ...|..||+.+...|
T Consensus 112 ~~~~~ls~~e~~~i~~Li~KhGd-Dy~aMarD~KLN~~Q~T~~qlrrki~~~ 162 (164)
T PF09420_consen 112 KKPRRLSEREIEYIEYLIEKHGD-DYKAMARDRKLNYMQHTPGQLRRKIRKY 162 (164)
T ss_pred cCCCCCCHHHHHHHHHHHHHHCc-cHHHHhccCCCCcccCCHHHHHHHHHHh
Confidence 45567899999999999999997 8877765222 247888888776654
No 130
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=28.39 E-value=91 Score=25.69 Aligned_cols=30 Identities=20% Similarity=0.178 Sum_probs=23.9
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
..|....+||..| |-+...|+.+.+..+++
T Consensus 153 ~~g~s~~EIA~~l-gis~~tV~~~l~Ra~~~ 182 (189)
T PRK09648 153 VVGLSAEETAEAV-GSTPGAVRVAQHRALAR 182 (189)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 3466799999999 88999999988765553
No 131
>PRK12531 RNA polymerase sigma factor; Provisional
Probab=27.87 E-value=94 Score=25.88 Aligned_cols=30 Identities=10% Similarity=0.022 Sum_probs=23.5
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
..|-...+||..| |-+...|+.|.+..+++
T Consensus 155 ~eg~s~~EIA~~l-gis~~tVk~rl~ra~~~ 184 (194)
T PRK12531 155 LEELPHQQVAEMF-DIPLGTVKSRLRLAVEK 184 (194)
T ss_pred HcCCCHHHHHHHh-CcCHHHHHHHHHHHHHH
Confidence 3466789999999 99999999988765553
No 132
>smart00351 PAX Paired Box domain.
Probab=27.45 E-value=2.1e+02 Score=22.65 Aligned_cols=72 Identities=15% Similarity=0.129 Sum_probs=45.6
Q ss_pred ccCCCCHHHHHHHHHHHHHhCCCCcccccccccCccc-hhhhhhhhhc--ccCCCC----CCCCCChHHHHHHHHHHHHh
Q 042846 13 KKGAWSKEEDDKLRAYILKYGHWNWGELPKFAGLSRC-GKSCRLRWMN--YLRPDI----KHGNYTKEEEDTIIRLRQQH 85 (243)
Q Consensus 13 kKg~WT~EED~~L~~~V~~~g~~nW~~Ia~~l~~~Rt-~kqcr~Rw~n--~L~p~i----~r~~WT~EED~~Ll~lv~~~ 85 (243)
...+.+.++-++++.++. -|. .-.+||+.+|..|. ...+..||.. .+.|.- ....-+.+.+..|++++.+.
T Consensus 14 ~~~~~s~~~R~riv~~~~-~G~-s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~~~~~~~ 91 (125)
T smart00351 14 NGRPLPDEERQRIVELAQ-NGV-RPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIADYKQEN 91 (125)
T ss_pred CCCCCCHHHHHHHHHHHH-cCC-CHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHHHHHHHC
Confidence 445689999999988876 454 67899999885543 4555666653 344422 22234556666677666655
Q ss_pred C
Q 042846 86 G 86 (243)
Q Consensus 86 G 86 (243)
+
T Consensus 92 p 92 (125)
T smart00351 92 P 92 (125)
T ss_pred C
Confidence 4
No 133
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=26.79 E-value=1.2e+02 Score=19.91 Aligned_cols=45 Identities=24% Similarity=0.412 Sum_probs=35.2
Q ss_pred CCCCCChHHHHHHHHHHHHhCC----chHHhhccCCCCCHHHHHHHHHHh
Q 042846 66 KHGNYTKEEEDTIIRLRQQHGN----KWSLIAAKLPGRTDNEIKNYWHTH 111 (243)
Q Consensus 66 ~r~~WT~EED~~Ll~lv~~~G~----~Ws~Ia~~lpgRT~~q~knrw~~~ 111 (243)
.+..+|.+.-..|...+..... .-..||..+ |=+..+|++.|.+.
T Consensus 3 ~r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l-~l~~~~V~~WF~nr 51 (57)
T PF00046_consen 3 KRTRFTKEQLKVLEEYFQENPYPSKEEREELAKEL-GLTERQVKNWFQNR 51 (57)
T ss_dssp SSSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHH-TSSHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHhccccccccccccccc-cccccccccCHHHh
Confidence 3567898888888888887331 367888888 99999999988653
No 134
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=26.74 E-value=1.1e+02 Score=24.22 Aligned_cols=45 Identities=16% Similarity=0.188 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHHhCC-chHHhhccCCCCCHHHHHHHHHHhhccccCC
Q 042846 73 EEEDTIIRLRQQHGN-KWSLIAAKLPGRTDNEIKNYWHTHLKKRKNK 118 (243)
Q Consensus 73 EED~~Ll~lv~~~G~-~Ws~Ia~~lpgRT~~q~knrw~~~lkk~~~k 118 (243)
+-|..|+++.+.-|. .+.+||+.+ |-|...|.+|=+.+.+...-+
T Consensus 8 ~~D~~IL~~L~~d~r~~~~eia~~l-glS~~~v~~Ri~~L~~~GiI~ 53 (154)
T COG1522 8 DIDRRILRLLQEDARISNAELAERV-GLSPSTVLRRIKRLEEEGVIK 53 (154)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHH-CCCHHHHHHHHHHHHHCCcee
Confidence 457778888877775 599999999 999999999999888877554
No 135
>cd08306 Death_FADD Fas-associated Death Domain protein-protein interaction domain. Death domain (DD) found in FAS-associated via death domain (FADD). FADD is a component of the death-inducing signaling complex (DISC) and serves as an adaptor in the signaling pathway of death receptor proteins. It modulates apoptosis as well as non-apoptotic processes such as cell cycle progression, survival, innate immune signaling, and hematopoiesis. FADD contains an N-terminal DED and a C-terminal DD. Its DD interacts with the DD of the activated death receptor, FAS, and its DED recruits the initiator caspases, caspase-8 and -10, to the DISC complex via a homotypic interaction with the N-terminal DED of the caspase. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain),
Probab=26.74 E-value=79 Score=23.56 Aligned_cols=29 Identities=24% Similarity=0.510 Sum_probs=21.5
Q ss_pred HHHHHHHHhCCchHHhhccCCCCCHHHHHH
Q 042846 77 TIIRLRQQHGNKWSLIAAKLPGRTDNEIKN 106 (243)
Q Consensus 77 ~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~kn 106 (243)
.+--+.+..|..|..+|+.| |=|..+|..
T Consensus 4 ~f~~i~~~lG~~Wk~laR~L-Glse~~Id~ 32 (86)
T cd08306 4 AFDVICENVGRDWRKLARKL-GLSETKIES 32 (86)
T ss_pred HHHHHHHHHhhhHHHHHHHc-CCCHHHHHH
Confidence 34455677899999999999 666666543
No 136
>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=26.70 E-value=1.2e+02 Score=19.35 Aligned_cols=33 Identities=21% Similarity=0.191 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHhCCchHHhhccCCCCCHHHHHHH
Q 042846 74 EEDTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNY 107 (243)
Q Consensus 74 ED~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knr 107 (243)
|-..|.++...+|++-++.|+.| |=+...+..+
T Consensus 6 E~~~i~~aL~~~~gn~~~aA~~L-gisr~tL~~k 38 (42)
T PF02954_consen 6 EKQLIRQALERCGGNVSKAARLL-GISRRTLYRK 38 (42)
T ss_dssp HHHHHHHHHHHTTT-HHHHHHHH-TS-HHHHHHH
T ss_pred HHHHHHHHHHHhCCCHHHHHHHH-CCCHHHHHHH
Confidence 66789999999999999999988 6555555443
No 137
>PF10440 WIYLD: Ubiquitin-binding WIYLD domain; InterPro: IPR018848 This entry represents a presumed domain which has been predicted to contain three alpha helices. It was named the WIYLD domain based on the pattern of the ost conserved residues []. This domain appears to be specific to plant SET-domain proteins. ; GO: 0018024 histone-lysine N-methyltransferase activity
Probab=26.36 E-value=51 Score=23.86 Aligned_cols=18 Identities=22% Similarity=0.449 Sum_probs=15.3
Q ss_pred HHHHHHHHhCCchHHhhc
Q 042846 77 TIIRLRQQHGNKWSLIAA 94 (243)
Q Consensus 77 ~Ll~lv~~~G~~Ws~Ia~ 94 (243)
.|.+|.+.||++|.-|-.
T Consensus 31 vl~~LL~lY~~nW~lIEe 48 (65)
T PF10440_consen 31 VLKNLLKLYDGNWELIEE 48 (65)
T ss_pred HHHHHHHHHcCCchhhhc
Confidence 578899999999998864
No 138
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=25.99 E-value=1e+02 Score=25.07 Aligned_cols=29 Identities=17% Similarity=0.275 Sum_probs=23.2
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
.|-.-.+||..| |.+...|+++.+..+++
T Consensus 144 ~g~s~~eIA~~l-gis~~tV~~~l~Rar~~ 172 (179)
T PRK12514 144 EGLSYKELAERH-DVPLNTMRTWLRRSLLK 172 (179)
T ss_pred cCCCHHHHHHHH-CCChHHHHHHHHHHHHH
Confidence 356689999999 99999999998765543
No 139
>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=25.67 E-value=1.1e+02 Score=24.85 Aligned_cols=29 Identities=21% Similarity=0.207 Sum_probs=23.3
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
..|-...+||..| |-+...|+.+.+...+
T Consensus 148 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 176 (183)
T TIGR02999 148 FAGLTVEEIAELL-GVSVRTVERDWRFARA 176 (183)
T ss_pred HcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 3456789999999 9999999999876544
No 140
>PRK09651 RNA polymerase sigma factor FecI; Provisional
Probab=25.47 E-value=90 Score=25.46 Aligned_cols=28 Identities=32% Similarity=0.423 Sum_probs=23.0
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
.|-.-.+||..| |-+.+.|+++.+..++
T Consensus 134 ~g~s~~EIA~~l-gis~~tV~~~l~Ra~~ 161 (172)
T PRK09651 134 DGLTYSEIAHKL-GVSVSSVKKYVAKATE 161 (172)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 455689999999 9999999999876554
No 141
>PRK12536 RNA polymerase sigma factor; Provisional
Probab=25.39 E-value=1.1e+02 Score=25.10 Aligned_cols=31 Identities=23% Similarity=0.184 Sum_probs=24.7
Q ss_pred HHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 83 QQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 83 ~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
...|-...+||..| |.+...|+++-+..+++
T Consensus 142 ~~~g~s~~EIA~~l-~is~~tV~~~l~rar~~ 172 (181)
T PRK12536 142 KLEGLSVAETAQLT-GLSESAVKVGIHRGLKA 172 (181)
T ss_pred HHcCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 34566799999999 99999999998765543
No 142
>PRK12524 RNA polymerase sigma factor; Provisional
Probab=25.33 E-value=1.1e+02 Score=25.56 Aligned_cols=30 Identities=10% Similarity=-0.032 Sum_probs=23.3
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
..|-.+.+||..| |=+...|+++-+..+++
T Consensus 150 ~~g~s~~eIA~~l-gis~~tV~~~l~Ra~~~ 179 (196)
T PRK12524 150 IEGLSNPEIAEVM-EIGVEAVESLTARGKRA 179 (196)
T ss_pred HcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3466799999999 88889998887655443
No 143
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=25.12 E-value=1.2e+02 Score=23.86 Aligned_cols=29 Identities=21% Similarity=0.215 Sum_probs=22.3
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
.|..-.+||..| |-+...|+++-...+++
T Consensus 121 ~~~s~~EIA~~l-~is~~tV~~~~~ra~~~ 149 (154)
T PRK06759 121 VGKTMGEIALET-EMTYYQVRWIYRQALEK 149 (154)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 355678999998 89999999887665543
No 144
>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=24.48 E-value=1.2e+02 Score=24.20 Aligned_cols=29 Identities=24% Similarity=0.290 Sum_probs=22.3
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
.|-.-.+||+.| |-+...|+++-+..+++
T Consensus 137 ~g~s~~eIA~~l-~is~~tv~~~l~ra~~~ 165 (170)
T TIGR02952 137 QNLPIAEVARIL-GKTEGAVKILQFRAIKK 165 (170)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 356689999999 88899998887655443
No 145
>PRK09649 RNA polymerase sigma factor SigC; Reviewed
Probab=24.31 E-value=1.1e+02 Score=25.39 Aligned_cols=30 Identities=17% Similarity=0.034 Sum_probs=24.2
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhccc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLKKR 115 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk~ 115 (243)
.|-.-.+||..| |-+...|+.+.+..+++-
T Consensus 145 ~g~s~~EIA~~l-gis~~tVk~~l~Rar~~L 174 (185)
T PRK09649 145 LGLSYADAAAVC-GCPVGTIRSRVARARDAL 174 (185)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHHHH
Confidence 455689999999 999999999987665543
No 146
>cd01670 Death Death Domain: a protein-protein interaction domain. Death Domains (DDs) are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. Structural analysis of DD-DD complexes show that the domains interact with each other in many different ways. DD-containing proteins serve as adaptors in signaling pathways and they can recruit other proteins into signaling complexes. In mammals, they are prominent components of the programmed cell death (apoptosis) pathway and are found in a number of other signaling pathways. In invertebrates, they are involved in transcriptional regulation of zygotic patterning genes in insect embryogenesis, and are components of the ToII/NF-kappaB pathway, a conserved innate immune pathway in a
Probab=23.99 E-value=72 Score=22.44 Aligned_cols=26 Identities=38% Similarity=0.727 Sum_probs=19.0
Q ss_pred HHHHHHHhCCchHHhhccCCCCCHHHH
Q 042846 78 IIRLRQQHGNKWSLIAAKLPGRTDNEI 104 (243)
Q Consensus 78 Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~ 104 (243)
+..+....|..|..+|..| |=+..+|
T Consensus 2 ~~~ia~~lg~~W~~la~~L-gl~~~~I 27 (79)
T cd01670 2 LDKLAKKLGKDWKKLARKL-GLSDGEI 27 (79)
T ss_pred HHHHHHHHhhHHHHHHHHh-CCCHHHH
Confidence 4566788899999999998 4444444
No 147
>PRK12532 RNA polymerase sigma factor; Provisional
Probab=23.81 E-value=1.1e+02 Score=25.32 Aligned_cols=29 Identities=14% Similarity=0.061 Sum_probs=22.9
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
..|-.-.+||..| |-+...|+.+.+..++
T Consensus 150 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 178 (195)
T PRK12532 150 ILGFSSDEIQQMC-GISTSNYHTIMHRARE 178 (195)
T ss_pred HhCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3466789999999 9999999998875443
No 148
>PRK12528 RNA polymerase sigma factor; Provisional
Probab=23.67 E-value=1.3e+02 Score=23.94 Aligned_cols=32 Identities=28% Similarity=0.359 Sum_probs=24.5
Q ss_pred HHHHhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 81 LRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 81 lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
+..-.|-.-.+||..+ |-+.+.|+.|.+..++
T Consensus 124 L~~~~g~s~~EIA~~l-~is~~tV~~~l~ra~~ 155 (161)
T PRK12528 124 LAQVDGLGYGEIATEL-GISLATVKRYLNKAAM 155 (161)
T ss_pred HHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3334566789999999 8999999998876544
No 149
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=23.34 E-value=1.1e+02 Score=25.01 Aligned_cols=29 Identities=10% Similarity=0.013 Sum_probs=21.6
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
..|-.-.+||..| |-+.+.|+++.+..++
T Consensus 142 ~~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 170 (186)
T PRK05602 142 YQGLSNIEAAAVM-DISVDALESLLARGRR 170 (186)
T ss_pred hcCCCHHHHHHHh-CcCHHHHHHHHHHHHH
Confidence 3456688888888 8888888888765443
No 150
>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=23.17 E-value=43 Score=26.42 Aligned_cols=28 Identities=18% Similarity=0.106 Sum_probs=22.5
Q ss_pred CCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 86 GNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 86 G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
|-.+.+||..| |=+...|+++.+...++
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 44689999999 89999999998765543
No 151
>PRK12527 RNA polymerase sigma factor; Reviewed
Probab=23.17 E-value=1.4e+02 Score=23.73 Aligned_cols=28 Identities=21% Similarity=0.254 Sum_probs=22.1
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
.|-.-.+||..| |-+...|+.|....++
T Consensus 120 ~~~s~~eIA~~l-gis~~tv~~~l~ra~~ 147 (159)
T PRK12527 120 EGLSHQQIAEHL-GISRSLVEKHIVNAMK 147 (159)
T ss_pred cCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 455678999999 9999999998765544
No 152
>PRK12547 RNA polymerase sigma factor; Provisional
Probab=22.91 E-value=1.4e+02 Score=24.06 Aligned_cols=30 Identities=20% Similarity=0.073 Sum_probs=23.3
Q ss_pred HHhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 83 QQHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 83 ~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
...|-.-.+||..| |-+...|+++-+...+
T Consensus 125 ~~~g~s~~eIA~~l-gis~~tV~~~l~Rar~ 154 (164)
T PRK12547 125 GASGFSYEDAAAIC-GCAVGTIKSRVSRARN 154 (164)
T ss_pred HHcCCCHHHHHHHh-CCCHHHHHHHHHHHHH
Confidence 33566789999999 8889999988766554
No 153
>TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family. This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives.
Probab=22.54 E-value=1.3e+02 Score=23.94 Aligned_cols=38 Identities=18% Similarity=0.218 Sum_probs=27.3
Q ss_pred HHHHHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 76 DTIIRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 76 ~~Ll~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
..++.+.-..|-.=.+||..| |-+...|+++....+++
T Consensus 116 r~i~~l~~~~g~s~~eIA~~l-gis~~tV~~~l~ra~~~ 153 (162)
T TIGR02983 116 RAVVVLRYYEDLSEAQVAEAL-GISVGTVKSRLSRALAR 153 (162)
T ss_pred HHHhhhHHHhcCCHHHHHHHh-CCCHHHHHHHHHHHHHH
Confidence 334444445566788999998 88999999988766554
No 154
>PRK13919 putative RNA polymerase sigma E protein; Provisional
Probab=22.52 E-value=1.3e+02 Score=24.47 Aligned_cols=29 Identities=21% Similarity=0.166 Sum_probs=22.5
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
.|-.-.+||..+ |-|...|+.+.+..+++
T Consensus 150 ~~~s~~eIA~~l-gis~~~V~~~l~ra~~~ 178 (186)
T PRK13919 150 QGYTHREAAQLL-GLPLGTLKTRARRALSR 178 (186)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 345678999999 89999999887765543
No 155
>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=22.34 E-value=1.3e+02 Score=24.32 Aligned_cols=30 Identities=17% Similarity=0.475 Sum_probs=23.2
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
..|-.-.+||..| |-|...|+.+.+..+++
T Consensus 154 ~~g~s~~eIA~~l-gis~~~v~~~l~Ra~~~ 183 (189)
T TIGR02984 154 LEGLSFAEVAERM-DRSEGAVSMLWVRGLAR 183 (189)
T ss_pred hcCCCHHHHHHHH-CcCHHHHHHHHHHHHHH
Confidence 3456789999998 89999999888765543
No 156
>PRK12516 RNA polymerase sigma factor; Provisional
Probab=21.66 E-value=1.4e+02 Score=24.89 Aligned_cols=34 Identities=21% Similarity=0.104 Sum_probs=25.3
Q ss_pred HHHHHHhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 79 IRLRQQHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 79 l~lv~~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
+.|....|-...+||..| |-+...|+.|-+..++
T Consensus 125 ~~L~~~~g~s~~EIA~~L-gis~~tVk~~l~Rar~ 158 (187)
T PRK12516 125 IILVGASGFAYEEAAEIC-GCAVGTIKSRVNRARQ 158 (187)
T ss_pred HHHHHHcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 333444567799999999 8999999998765444
No 157
>PRK12542 RNA polymerase sigma factor; Provisional
Probab=21.60 E-value=1.4e+02 Score=24.43 Aligned_cols=29 Identities=14% Similarity=0.236 Sum_probs=23.1
Q ss_pred HhCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 84 QHGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 84 ~~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
..|-.-.+||..| |-+...|+++.+...+
T Consensus 136 ~~g~s~~EIA~~l-gis~~tVk~~l~Rar~ 164 (185)
T PRK12542 136 FYNLTYQEISSVM-GITEANVRKQFERARK 164 (185)
T ss_pred HcCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 3566789999999 9999999998765544
No 158
>PRK12545 RNA polymerase sigma factor; Provisional
Probab=21.55 E-value=1.4e+02 Score=25.13 Aligned_cols=28 Identities=14% Similarity=-0.054 Sum_probs=22.3
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
.|..-.+||..| |.+...||.|.+...+
T Consensus 154 eg~s~~EIA~~l-gis~~tVk~~l~RAr~ 181 (201)
T PRK12545 154 LDFEIDDICTEL-TLTANHCSVLLYRART 181 (201)
T ss_pred cCCCHHHHHHHH-CcCHHHHHHHHHHHHH
Confidence 456789999999 9999999998764443
No 159
>PRK12520 RNA polymerase sigma factor; Provisional
Probab=20.84 E-value=1.5e+02 Score=24.42 Aligned_cols=28 Identities=11% Similarity=-0.174 Sum_probs=22.5
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLK 113 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lk 113 (243)
.|..-.+||..| |-+.+.|++|.+..++
T Consensus 146 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~ 173 (191)
T PRK12520 146 LELETEEICQEL-QITATNAWVLLYRARM 173 (191)
T ss_pred cCCCHHHHHHHH-CCCHHHHHHHHHHHHH
Confidence 455679999999 9999999999875544
No 160
>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=20.72 E-value=1.3e+02 Score=27.16 Aligned_cols=29 Identities=14% Similarity=0.113 Sum_probs=23.5
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
.|-.-.+||..| |.+.+.|++|-+..+++
T Consensus 157 ~g~s~~EIA~~l-gis~~tV~~~l~Rar~~ 185 (324)
T TIGR02960 157 LGWRAAETAELL-GTSTASVNSALQRARAT 185 (324)
T ss_pred hCCCHHHHHHHH-CCCHHHHHHHHHHHHHH
Confidence 456789999999 99999999998755543
No 161
>PRK12537 RNA polymerase sigma factor; Provisional
Probab=20.41 E-value=1.5e+02 Score=24.27 Aligned_cols=29 Identities=28% Similarity=0.385 Sum_probs=23.1
Q ss_pred hCCchHHhhccCCCCCHHHHHHHHHHhhcc
Q 042846 85 HGNKWSLIAAKLPGRTDNEIKNYWHTHLKK 114 (243)
Q Consensus 85 ~G~~Ws~Ia~~lpgRT~~q~knrw~~~lkk 114 (243)
.|-.-.+||..| |-|...|+++.+..+++
T Consensus 148 ~~~s~~eIA~~l-gis~~tV~~~l~ra~~~ 176 (182)
T PRK12537 148 DGCSHAEIAQRL-GAPLGTVKAWIKRSLKA 176 (182)
T ss_pred cCCCHHHHHHHH-CCChhhHHHHHHHHHHH
Confidence 455678999998 88999999988776654
Done!